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' => 'HOM05D001025', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '592', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p22650' => 'bna', 'A01p29720' => 'bna', 'A03p26560' => 'bna', 'A03p68820' => 'bna', 'A04p20980' => 'bna', 'A06p07730' => 'bna', 'A07p18260' => 'bna', 'A08p33710' => 'bna', 'A09p16970' => 'bna', 'A10p27490' => 'bna', 'Aa31LG1G17300' => 'aar', 'Aa31LG1G3910' => 'aar', 'Aa31LG2G9630' => 'aar', 'Aa31LG5G8360' => 'aar', 'Aa31LG9G2410' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4699' => 'aag', 'Actinidia23512' => 'ach', 'Actinidia37080' => 'ach', 'Ah.01g020380' => 'amhyb', 'Ah.08g215710' => 'amhyb', 'Ah.09g225110' => 'amhyb', 'Ah.10g036680' => 'amhyb', 'AL1G21940' => 'aly', 'AL2G15540' => 'aly', 'AL4G21520' => 'aly', 'AL7G40960' => 'aly', 'Aqoxy2G01191' => 'aox', 'Aqoxy2G03393' => 'aox', 'Aqoxy4G02775' => 'aox', 'Aqoxy6G00058' => 'aox', 'arahy.Tifrunner.gnm1.ann1.9X74H2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CW3FX9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R485W7' => 'arhy', 'AT1G10960' => 'ath', 'AT1G60950' => 'ath', 'AT2G27510' => 'ath', 'AT4G14890' => 'ath', 'AT5G10000' => 'ath', 'ATR0665G624' => 'atr', 'ATR0697G138' => 'atr', 'ATR0776G046' => 'atr', 'ATR1134G135' => 'atr', 'Atru.chr12.1025' => 'acertr', 'Atru.chr3.3241' => 'acertr', 'Atru.chr4.2460' => 'acertr', 'AUR62007427' => 'cqu', 'AUR62010960' => 'cqu', 'AUR62012201' => 'cqu', 'AUR62021470' => 'cqu', 'AUR62022834' => 'cqu', 'AUR62033635' => 'cqu', 'AUR62036186' => 'cqu', 'BcaB01g03077' => 'bca', 'BcaB02g10093' => 'bca', 'BcaB04g20295' => 'bca', 'BcaB06g28147' => 'bca', 'BcaB07g31253' => 'bca', 'BcaC01g04946' => 'bca', 'BcaC02g10614' => 'bca', 'BcaC02g10885' => 'bca', 'BcaC04g19356' => 'bca', 'BcaC04g22297' => 'bca', 'BcaC05g24977' => 'bca', 'BcaC06g31823' => 'bca', 'BcaC07g38633' => 'bca', 'BcaC09g49353' => 'bca', 'BcaC09g50168' => 'bca', 'BcaNung00322' => 'bca', 'BcaNung04769' => 'bca', 'BolC1t02753H' => 'bol', 'BolC1t03721H' => 'bol', 'BolC3t15525H' => 'bol', 'BolC4t23903H' => 'bol', 'BolC4t24231H' => 'bol', 'BolC4t27209H' => 'bol', 'BolC5t29671H' => 'bol', 'BolC8t49044H' => 'bol', 'BolC9t54999H' => 'bol', 'BolC9t59517H' => 'bol', 'BraA01t02178Z' => 'bra', 'BraA01t03099Z' => 'bra', 'BraA03t11867Z' => 'bra', 'BraA04t17667Z' => 'bra', 'BraA07t29542Z' => 'bra', 'BraA08t35287Z' => 'bra', 'BraA09t37334Z' => 'bra', 'BraA10t44801Z' => 'bra', 'BraSC39t46181Z' => 'bra', 'C01p28240' => 'bna', 'C01p37530' => 'bna', 'C03p31820' => 'bna', 'C04p24080' => 'bna', 'C04p25790' => 'bna', 'C04p56770' => 'bna', 'C05p09310' => 'bna', 'C09p21010' => 'bna', 'C09p67560' => 'bna', 'CAN.G1324.7' => 'can', 'CAN.G1358.10' => 'can', 'CAN.G1550.2' => 'can', 'CAN.G186.56' => 'can', 'CAN.G1965.1' => 'can', 'CAN.G645.15' => 'can', 'CAN.G798.26' => 'can', 'CAN.G798.27' => 'can', 'CAN.G798.29' => 'can', 'CAN.G919.31' => 'can', 'CANSAT11G0133' => 'cansat', 'CANSAT11G1171' => 'cansat', 'CANSAT11G2056' => 'cansat', 'CANSAT56G1202' => 'cansat', 'CANSAT56G1514' => 'cansat', 'CANSAT78G0455' => 'cansat', 'CARHR011190' => 'chi', 'CARHR051980' => 'chi', 'CARHR120170' => 'chi', 'CARHR203310' => 'chi', 'CARHR221490' => 'chi', 'Carub.0001s1054' => 'cru', 'Carub.0002s0431' => 'cru', 'Carub.0004s0818' => 'cru', 'Carub.0006s0846' => 'cru', 'Carub.0007s2722' => 'cru', 'Ca_00058_v3' => 'car', 'Ca_17831_v3' => 'car', 'Ca_19408_v3' => 'car', 'Ca_24397_v3' => 'car', 'Ca_25664_v3' => 'car', 'CBR_g21818' => 'cbr', 'CBR_g31195' => 'cbr', 'CBR_g32282' => 'cbr', 'CBR_g39599' => 'cbr', 'CBR_g49410' => 'cbr', 'Cc01_g09120' => 'ccan', 'Cc01_g09130' => 'ccan', 'Cc02_g09630' => 'ccan', 'Cc02_g22810' => 'ccan', 'Cc03_g03810' => 'ccan', 'CDE02G3718' => 'cde', 'CDE04G3183' => 'cde', 'CDE07G1046' => 'cde', 'CDE08G0480' => 'cde', 'Cfa005493' => 'cfa', 'Cfa010312' => 'cfa', 'Cfa015648' => 'cfa', 'Ciclev10002793m.g' => 'ccl', 'Ciclev10003356m.g' => 'ccl', 'Ciclev10006141m.g' => 'ccl', 'Ciclev10016676m.g' => 'ccl', 'Ciclev10017081m.g' => 'ccl', 'Ciclev10029499m.g' => 'ccl', 'CiPaw.01G166300' => 'cil', 'CiPaw.06G145600' => 'cil', 'CiPaw.13G040100' => 'cil', 'CiPaw.13G135800' => 'cil', 'ClCG01G012230' => 'cla', 'ClCG05G009510' => 'cla', 'ClCG08G008270' => 'cla', 'COL.COLO4_11763' => 'col', 'COL.COLO4_19876' => 'col', 'COL.COLO4_21481' => 'col', 'Cpa.g.sc118.34' => 'cpa', 'Cpa.g.sc32.13' => 'cpa', 'Cpa.g.sc58.103' => 'cpa', 'Cre03.g183850' => 'cre', 'Cre06.g306350' => 'cre', 'Cre07.g334800' => 'cre', 'Cre12.g487900' => 'cre', 'Cre14.g626700' => 'cre', 'Cre16.g658400' => 'cre', 'Cre17.g700950' => 'cre', 'CsaV3_1G014830' => 'csa', 'CsaV3_3G013320' => 'csa', 'CsaV3_3G019210' => 'csa', 'CsaV3_3G019220' => 'csa', 'CsaV3_6G004230' => 'csa', 'CSS0003773' => 'camsi', 'CSS0004563' => 'camsi', 'CSS0013949' => 'camsi', 'CSS0025971' => 'camsi', 'CSS0028570' => 'camsi', 'CSS0033127' => 'camsi', 'CSS0036051' => 'camsi', 'CSS0040087' => 'camsi', 'CSS0043179' => 'camsi', 'DCAR_006161' => 'dca', 'DCAR_010351' => 'dca', 'DCAR_012197' => 'dca', 'DCAR_024162' => 'dca', 'Dinv01030' => 'din', 'Dinv10924' => 'din', 'Dinv11835' => 'din', 'Dinv22841' => 'din', 'Dinv42553' => 'din', 'Duzib052G0560' => 'dzi', 'Duzib132G0389' => 'dzi', 'Duzib150G1181' => 'dzi', 'Duzib168G0623' => 'dzi', 'Duzib170G1036' => 'dzi', 'Duzib212G0200' => 'dzi', 'Duzib248G0194' => 'dzi', 'ECA232G2193' => 'eca', 'ECA233G0302' => 'eca', 'ECA234G2813' => 'eca', 'ECA234G4866' => 'eca', 'ECA240G3932' => 'eca', 'ECA248G0385' => 'eca', 'EL10Ac2g04781' => 'bvu', 'EL10Ac3g06445' => 'bvu', 'EL10Ac7g15825' => 'bvu', 'EL10Ac8g18550' => 'bvu', 'Eucgr.B03849' => 'egr', 'Eucgr.I02744' => 'egr', 'Eucgr.J00264' => 'egr', 'Eucgr.J00493' => 'egr', 'FAN04G2181' => 'fan', 'FAN07G2666' => 'fan', 'FAN11G0024' => 'fan', 'FAN12G1105' => 'fan', 'FAN13G0302' => 'fan', 'FAN15G2781' => 'fan', 'FAN16G1274' => 'fan', 'FAN17G2988' => 'fan', 'FAN18G2621' => 'fan', 'FAN21G0013' => 'fan', 'FAN22G1211' => 'fan', 'FAN25G3626' => 'fan', 'FvH4_2g09491' => 'fve', 'FvH4_3g24910' => 'fve', 'FvH4_4g15630' => 'fve', 'FvH4_5g28820' => 'fve', 'Glyma.01G238000' => 'gma', 'Glyma.05G168400' => 'gma', 'Glyma.08G126800' => 'gma', 'Glyma.08G188500' => 'gma', 'Glyma.10G278900' => 'gma', 'Glyma.11G005700' => 'gma', 'Glyma.11G183300' => 'gma', 'Glyma.12G089200' => 'gma', 'Glyma.12G169400' => 'gma', 'Glyma.12G169500' => 'gma', 'Glyma.12G169600' => 'gma', 'Glyma.20G110800' => 'gma', 'Gohir.A03G192900' => 'ghi', 'Gohir.A03G193000' => 'ghi', 'Gohir.A05G080700' => 'ghi', 'Gohir.A09G216000' => 'ghi', 'Gohir.A12G027700' => 'ghi', 'Gohir.A13G036200' => 'ghi', 'Gohir.A13G222600' => 'ghi', 'Gohir.D02G213900' => 'ghi', 'Gohir.D02G214000' => 'ghi', 'Gohir.D05G083700' => 'ghi', 'Gohir.D05G083800' => 'ghi', 'Gohir.D05G083850' => 'ghi', 'Gohir.D08G015400' => 'ghi', 'Gohir.D09G218400' => 'ghi', 'Gohir.D12G027100' => 'ghi', 'Gohir.D13G034500' => 'ghi', 'Gohir.D13G227400' => 'ghi', 'Gorai.005G241800' => 'gra', 'Gorai.005G241900' => 'gra', 'Gorai.006G239400' => 'gra', 'Gorai.008G027600' => 'gra', 'Gorai.009G085400' => 'gra', 'Gorai.009G085500' => 'gra', 'Gorai.013G039000' => 'gra', 'Gorai.013G194800' => 'gra', 'Gorai.013G257900' => 'gra', 'GSVIVG01000982001' => 'vvi', 'GSVIVG01017981001' => 'vvi', 'HanXRQChr01g0024061' => 'han', 'HanXRQChr09g0247831' => 'han', 'HanXRQChr10g0294611' => 'han', 'HanXRQChr10g0294621' => 'han', 'HanXRQChr11g0346821' => 'han', 'HanXRQChr13g0397461' => 'han', 'HanXRQChr16g0513651' => 'han', 'HanXRQChr16g0513701' => 'han', 'Haze_00897' => 'cav', 'Haze_01745' => 'cav', 'Haze_02486' => 'cav', 'Haze_02487' => 'cav', 'Haze_23374' => 'cav', 'Hma1.2p1_0578F.1_g182520' => 'hma', 'Hma1.2p1_0602F.1_g187350' => 'hma', 'Hma1.2p1_0602F.1_g187360' => 'hma', 'Hma1.2p1_0874F.1_g231320' => 'hma', 'Hma1.2p1_1197F.1_g266210' => 'hma', 'Hma1.2p1_1197F.1_g266220' => 'hma', 'Hma1.2p1_2167F.1_g315895' => 'hma', 'Hma1.2p1_2190F.1_g316640' => 'hma', 'Hma1.2p1_3645F.1_g337153' => 'hma', 'HPP92_004907' => 'vpl', 'HPP92_012134' => 'vpl', 'HPP92_025136' => 'vpl', 'HPP92_026087' => 'vpl', 'Hund06782' => 'sun', 'Hund06784' => 'sun', 'Lalb_Chr01g0004861' => 'lal', 'Lalb_Chr02g0140591' => 'lal', 'Lalb_Chr02g0140611' => 'lal', 'Lalb_Chr03g0028101' => 'lal', 'Lalb_Chr07g0185791' => 'lal', 'Lalb_Chr12g0204491' => 'lal', 'Lalb_Chr13g0295671' => 'lal', 'Lalb_Chr19g0136461' => 'lal', 'Lalb_Chr21g0309191' => 'lal', 'Lj1g0028158' => 'lja', 'Lj1P236T38' => 'lonja', 'Lj2C32G2' => 'lonja', 'Lj2P944T8' => 'lonja', 'Lj2P963T15' => 'lonja', 'Lj3g0011788' => 'lja', 'Lj4g0025027' => 'lja', 'Lj5P255T36' => 'lonja', 'Lj6g0018866' => 'lja', 'Lj6P608T31' => 'lonja', 'LjContig00408g0008879' => 'lja', 'Lsat_1_v5_gn_5_105820' => 'lsa', 'Lsat_1_v5_gn_6_38800' => 'lsa', 'Lsat_1_v5_gn_7_67141' => 'lsa', 'Manes.04G003400' => 'mes', 'Manes.07G020000' => 'mes', 'Manes.07G020100' => 'mes', 'Manes.07G020150' => 'mes', 'Manes.10G061500' => 'mes', 'Manes.10G123200' => 'mes', 'Manes.11G161900' => 'mes', 'Manes.15G029300' => 'mes', 'Mapoly0071s0018' => 'mpo', 'Mapoly0082s0023' => 'mpo', 'Mapoly3477s0001' => 'mpo', 'MBI05_g31233_MAGBIO' => 'mbi', 'MBI09_g05946_MAGBIO' => 'mbi', 'MBI09_g05947_MAGBIO' => 'mbi', 'MBI17_g08346_MAGBIO' => 'mbi', 'MCO04G038' => 'mco', 'MCO09G370' => 'mco', 'MCO13G605' => 'mco', 'MD00G1075500' => 'mdo', 'MD03G1144300' => 'mdo', 'MD08G1236800' => 'mdo', 'MD13G1193300' => 'mdo', 'MD15G1428700' => 'mdo', 'Medtr1g112030' => 'mtr', 'Medtr1g112050' => 'mtr', 'Medtr2g006290' => 'mtr', 'Medtr2g086510' => 'mtr', 'Medtr4g053120' => 'mtr', 'Medtr5g006320' => 'mtr', 'Medtr8g088720' => 'mtr', 'MELO3C004712.2' => 'cme', 'MELO3C006533.2' => 'cme', 'MELO3C019438.2' => 'cme', 'MELO3C019440.2' => 'cme', 'MELO3C019441.2' => 'cme', 'MELO3C019895.2' => 'cme', 'Migut.B00811' => 'egut', 'Migut.D02447' => 'egut', 'Migut.F00875' => 'egut', 'Migut.N00186' => 'egut', 'Migut.N01051' => 'egut', 'Migut.N02491' => 'egut', 'Migut.O00784' => 'egut', 'MSTRG.12367' => 'ama', 'MSTRG.18756' => 'ama', 'MSTRG.21042' => 'ama', 'Nitab4.5_0000559g0040' => 'nta', 'Nitab4.5_0000667g0190' => 'nta', 'Nitab4.5_0000755g0160' => 'nta', 'Nitab4.5_0001216g0080' => 'nta', 'Nitab4.5_0004069g0040' => 'nta', 'Nitab4.5_0004129g0010' => 'nta', 'Nitab4.5_0005744g0030' => 'nta', 'Nitab4.5_0006996g0030' => 'nta', 'Nitab4.5_0008971g0040' => 'nta', 'Nitab4.5_0009769g0020' => 'nta', 'Nitab4.5_0009833g0010' => 'nta', 'Nitab4.5_0013140g0020' => 'nta', 'Nn003s41376' => 'nnu', 'Nn1g01857' => 'nnu', 'Nn1g03611' => 'nnu', 'Nn1g06853' => 'nnu', 'Nn3g18360' => 'nnu', 'Nn4g26328' => 'nnu', 'Nn5g27531' => 'nnu', 'Nn6g34899' => 'nnu', 'Nn7g36299' => 'nnu', 'Oeu021485.1' => 'oeu', 'Oeu022433.1' => 'oeu', 'Oeu032111.1' => 'oeu', 'Oeu051608.1' => 'oeu', 'Os01g0860601' => 'osa', 'Os03g0659200' => 'osa', 'Os03g0835900' => 'osa', 'Os04g0412200' => 'osa', 'Os05g0443500' => 'osa', 'Os07g0251500' => 'osa', 'Os08g0104600' => 'osa', 'Peaxi162Scf00003g00047' => 'pax', 'Peaxi162Scf00003g00052' => 'pax', 'Peaxi162Scf00003g00394' => 'pax', 'Peaxi162Scf00091g00621' => 'pax', 'Peaxi162Scf00152g00146' => 'pax', 'Peaxi162Scf00173g00025' => 'pax', 'Peaxi162Scf00195g00102' => 'pax', 'Peaxi162Scf00402g00013' => 'pax', 'Peaxi162Scf00519g00618' => 'pax', 'PGR004G2838' => 'pgr', 'PGR044G2275' => 'pgr', 'PGR102G1377' => 'pgr', 'PGR119G1245' => 'pgr', 'PGR142G4449' => 'pgr', 'PGSC0003DMG400004532' => 'stu', 'PGSC0003DMG400011950' => 'stu', 'PGSC0003DMG400023391' => 'stu', 'PGSC0003DMG400023985' => 'stu', 'PGSC0003DMG400026360' => 'stu', 'PGSC0003DMG400035711' => 'stu', 'PGSC0003DMG400037286' => 'stu', 'PGSC0003DMG402005881' => 'stu', 'Phvul.002G045400' => 'pvu', 'Phvul.006G216600' => 'pvu', 'Phvul.006G216700' => 'pvu', 'Phvul.006G216800' => 'pvu', 'Phvul.007G022500' => 'pvu', 'Phvul.011G094400' => 'pvu', 'Potri.001G470700' => 'ptr', 'Potri.003G015200' => 'ptr', 'Potri.004G202500' => 'ptr', 'Potri.004G218400' => 'ptr', 'Potri.008G020100' => 'ptr', 'Potri.008G153200' => 'ptr', 'Potri.009G163800' => 'ptr', 'Potri.010G087300' => 'ptr', 'Potri.010G239100' => 'ptr', 'Pp3c10_16100' => 'ppa', 'Pp3c10_16880' => 'ppa', 'Pp3c16_6230' => 'ppa', 'Pp3c17_18910' => 'ppa', 'Pp3c3_22119' => 'ppa', 'Pp3c3_22140' => 'ppa', 'Pp3c4_8159' => 'ppa', 'Pp3c4_8171' => 'ppa', 'Pp3c4_8330' => 'ppa', 'PRCOL_00004098' => 'pco', 'Prupe.1G013900' => 'ppe', 'Prupe.1G226300' => 'ppe', 'Prupe.1G573600' => 'ppe', 'Prupe.6G130100' => 'ppe', 'Psat3g090040' => 'psa', 'Psat4g210440' => 'psa', 'Psat6g231040' => 'psa', 'Psat6g231080' => 'psa', 'Psat7g063000' => 'psa', 'Psat7g188000' => 'psa', 'Psat7g188040' => 'psa', 'PSO017G0206' => 'pso', 'PSO170G0501' => 'pso', 'PSO170G6422' => 'pso', 'PSO210G7739' => 'pso', 'PSO339G1808' => 'pso', 'PSO339G6135' => 'pso', 'PSO384G0010' => 'pso', 'PSO384G0964' => 'pso', 'PSO761G0050' => 'pso', 'PSO782G4085' => 'pso', 'QL01p012264' => 'qlo', 'QL02p099491' => 'qlo', 'QL03p033868' => 'qlo', 'QL04p046678' => 'qlo', 'QL06p002448' => 'qlo', 'RcHm_v2.0_Chr4g0416181' => 'rch', 'RcHm_v2.0_Chr5g0044701' => 'rch', 'RcHm_v2.0_Chr6g0265781' => 'rch', 'RcHm_v2.0_Chr7g0221031' => 'rch', 'Rhsim04G0202000' => 'rsi', 'Rhsim11G0127300' => 'rsi', 'Rhsim13G0111800' => 'rsi', 'Sabra01G0165600' => 'sbr', 'Sabra03G0008300' => 'sbr', 'Sabra04G0136900' => 'sbr', 'Sabra08G0013400' => 'sbr', 'Sabra08G0116800' => 'sbr', 'Sabra09G0128000' => 'sbr', 'Sabra10G0055500' => 'sbr', 'Sabra10G0073300' => 'sbr', 'SalBow3G0385' => 'sbo', 'SalBow3G1119' => 'sbo', 'SalBow3G2005' => 'sbo', 'SalBow6G2563' => 'sbo', 'SalBow6G6386' => 'sbo', 'Sc06g0008800' => 'sci', 'Sc07g0004950' => 'sci', 'Sc09g0005340' => 'sci', 'Sc13g0004410' => 'sci', 'Sc21g0007090' => 'sci', 'Sed0009285' => 'sed', 'Sed0017583' => 'sed', 'Sed0019699' => 'sed', 'Sed0023107' => 'sed', 'SEGI_10916' => 'sgi', 'SEGI_16217' => 'sgi', 'SEGI_19466' => 'sgi', 'SEGI_41115' => 'sgi', 'SGA_v2.0_scaffold111G31534' => 'sas', 'SGA_v2.0_scaffold22G09864' => 'sas', 'SGA_v2.0_scaffold338G49219' => 'sas', 'SGA_v2.0_scaffold92G28298' => 'sas', 'SMO119G0064' => 'smo', 'SMO223G0038' => 'smo', 'SMO347G0584' => 'smo', 'SMO351G0010' => 'smo', 'SMO356G0404' => 'smo', 'Solyc01g103920.3' => 'sly', 'Solyc04g009710.2' => 'sly', 'Solyc05g055280.2' => 'sly', 'Solyc10g044520.3' => 'sly', 'Solyc10g075160.1' => 'sly', 'Solyc11g006910.3' => 'sly', 'Solyc11g068430.3' => 'sly', 'Sopen01g046310' => 'spe', 'Sopen03g001200' => 'spe', 'Sopen04g004830' => 'spe', 'Sopen05g033720' => 'spe', 'Sopen06g030740' => 'spe', 'Sopen10g013090' => 'spe', 'Sopen10g027630' => 'spe', 'Sopen10g027640' => 'spe', 'Sopen11g002820' => 'spe', 'Sopen11g027140' => 'spe', 'Sp1g09680' => 'spa', 'Sp2g03630' => 'spa', 'Sp4g10320' => 'spa', 'Sp6g33400' => 'spa', 'Sp7g13030' => 'spa', 'TAR365G0317' => 'tar', 'TAR376G0979' => 'tar', 'TAR623G1665' => 'tar', 'TAR633G2373' => 'tar', 'TAR636G1400' => 'tar', 'THA.LOC104800529' => 'tha', 'THA.LOC104808547' => 'tha', 'THA.LOC104809615' => 'tha', 'THA.LOC104815724' => 'tha', 'THA.LOC104818480' => 'tha', 'THA.LOC104819179' => 'tha', 'THA.LOC104822270' => 'tha', 'THA.LOC104826425' => 'tha', 'Thecc.02G089700' => 'tca', 'Thecc.04G232300' => 'tca', 'Thecc.09G283400' => 'tca', 'Thhalv10009020m.g' => 'esa', 'Thhalv10015506m.g' => 'esa', 'Thhalv10017364m.g' => 'esa', 'Thhalv10023742m.g' => 'esa', 'Thhalv10026483m.g' => 'esa', 'TPR.G17232' => 'tpr', 'TPR.G2133' => 'tpr', 'TPR.G2498' => 'tpr', 'TPR.G31942' => 'tpr', 'TPR.G37877' => 'tpr', 'TPR.G4571' => 'tpr', 'TWI14G1113' => 'twi', 'TWI15G0426' => 'twi', 'TWI31G1005' => 'twi', 'TWI38G0513' => 'twi', 'TWI38G1484' => 'twi', 'TWI73G1098' => 'twi', 'unitig_26.g10519' => 'ugi', 'unitig_736.g22395' => 'ugi', 'unitig_747.g21234' => 'ugi', 'unitig_747.g21942' => 'ugi', 'vmacro14351' => 'vma', 'VMungo0540G0082' => 'vmu', 'VMungo0540G0405' => 'vmu', 'VMungo0540G1486' => 'vmu', 'VMungo0540G1692' => 'vmu', 'VMungo0720G2473' => 'vmu', 'VMungo1127G1562' => 'vmu', 'VMungo1215G1918' => 'vmu', 'Zm00001eb052650' => 'zma', 'Zm00001eb063710' => 'zma', 'Zm00001eb083950' => 'zma', 'Zm00001eb174420' => 'zma', 'Zm00001eb260140' => 'zma', 'Zm00001eb260150' => 'zma', 'Zm00001eb260160' => 'zma', 'Zm00001eb348290' => 'zma', 'Zm00001eb366870' => 'zma', 'Zm00001eb421930' => 'zma' ), 'gf_id' => 'HOM05D001025', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001025' ), 'data_identifier' => 'HOM05D001025', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001025', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '592', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p22650' => 'bna', 'A01p29720' => 'bna', 'A03p26560' => 'bna', 'A03p68820' => 'bna', 'A04p20980' => 'bna', 'A06p07730' => 'bna', 'A07p18260' => 'bna', 'A08p33710' => 'bna', 'A09p16970' => 'bna', 'A10p27490' => 'bna', 'Aa31LG1G17300' => 'aar', 'Aa31LG1G3910' => 'aar', 'Aa31LG2G9630' => 'aar', 'Aa31LG5G8360' => 'aar', 'Aa31LG9G2410' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4699' => 'aag', 'Actinidia23512' => 'ach', 'Actinidia37080' => 'ach', 'Ah.01g020380' => 'amhyb', 'Ah.08g215710' => 'amhyb', 'Ah.09g225110' => 'amhyb', 'Ah.10g036680' => 'amhyb', 'AL1G21940' => 'aly', 'AL2G15540' => 'aly', 'AL4G21520' => 'aly', 'AL7G40960' => 'aly', 'Aqoxy2G01191' => 'aox', 'Aqoxy2G03393' => 'aox', 'Aqoxy4G02775' => 'aox', 'Aqoxy6G00058' => 'aox', 'arahy.Tifrunner.gnm1.ann1.9X74H2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CW3FX9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R485W7' => 'arhy', 'AT1G10960' => 'ath', 'AT1G60950' => 'ath', 'AT2G27510' => 'ath', 'AT4G14890' => 'ath', 'AT5G10000' => 'ath', 'ATR0665G624' => 'atr', 'ATR0697G138' => 'atr', 'ATR0776G046' => 'atr', 'ATR1134G135' => 'atr', 'Atru.chr12.1025' => 'acertr', 'Atru.chr3.3241' => 'acertr', 'Atru.chr4.2460' => 'acertr', 'AUR62007427' => 'cqu', 'AUR62010960' => 'cqu', 'AUR62012201' => 'cqu', 'AUR62021470' => 'cqu', 'AUR62022834' => 'cqu', 'AUR62033635' => 'cqu', 'AUR62036186' => 'cqu', 'BcaB01g03077' => 'bca', 'BcaB02g10093' => 'bca', 'BcaB04g20295' => 'bca', 'BcaB06g28147' => 'bca', 'BcaB07g31253' => 'bca', 'BcaC01g04946' => 'bca', 'BcaC02g10614' => 'bca', 'BcaC02g10885' => 'bca', 'BcaC04g19356' => 'bca', 'BcaC04g22297' => 'bca', 'BcaC05g24977' => 'bca', 'BcaC06g31823' => 'bca', 'BcaC07g38633' => 'bca', 'BcaC09g49353' => 'bca', 'BcaC09g50168' => 'bca', 'BcaNung00322' => 'bca', 'BcaNung04769' => 'bca', 'BolC1t02753H' => 'bol', 'BolC1t03721H' => 'bol', 'BolC3t15525H' => 'bol', 'BolC4t23903H' => 'bol', 'BolC4t24231H' => 'bol', 'BolC4t27209H' => 'bol', 'BolC5t29671H' => 'bol', 'BolC8t49044H' => 'bol', 'BolC9t54999H' => 'bol', 'BolC9t59517H' => 'bol', 'BraA01t02178Z' => 'bra', 'BraA01t03099Z' => 'bra', 'BraA03t11867Z' => 'bra', 'BraA04t17667Z' => 'bra', 'BraA07t29542Z' => 'bra', 'BraA08t35287Z' => 'bra', 'BraA09t37334Z' => 'bra', 'BraA10t44801Z' => 'bra', 'BraSC39t46181Z' => 'bra', 'C01p28240' => 'bna', 'C01p37530' => 'bna', 'C03p31820' => 'bna', 'C04p24080' => 'bna', 'C04p25790' => 'bna', 'C04p56770' => 'bna', 'C05p09310' => 'bna', 'C09p21010' => 'bna', 'C09p67560' => 'bna', 'CAN.G1324.7' => 'can', 'CAN.G1358.10' => 'can', 'CAN.G1550.2' => 'can', 'CAN.G186.56' => 'can', 'CAN.G1965.1' => 'can', 'CAN.G645.15' => 'can', 'CAN.G798.26' => 'can', 'CAN.G798.27' => 'can', 'CAN.G798.29' => 'can', 'CAN.G919.31' => 'can', 'CANSAT11G0133' => 'cansat', 'CANSAT11G1171' => 'cansat', 'CANSAT11G2056' => 'cansat', 'CANSAT56G1202' => 'cansat', 'CANSAT56G1514' => 'cansat', 'CANSAT78G0455' => 'cansat', 'CARHR011190' => 'chi', 'CARHR051980' => 'chi', 'CARHR120170' => 'chi', 'CARHR203310' => 'chi', 'CARHR221490' => 'chi', 'Carub.0001s1054' => 'cru', 'Carub.0002s0431' => 'cru', 'Carub.0004s0818' => 'cru', 'Carub.0006s0846' => 'cru', 'Carub.0007s2722' => 'cru', 'Ca_00058_v3' => 'car', 'Ca_17831_v3' => 'car', 'Ca_19408_v3' => 'car', 'Ca_24397_v3' => 'car', 'Ca_25664_v3' => 'car', 'CBR_g21818' => 'cbr', 'CBR_g31195' => 'cbr', 'CBR_g32282' => 'cbr', 'CBR_g39599' => 'cbr', 'CBR_g49410' => 'cbr', 'Cc01_g09120' => 'ccan', 'Cc01_g09130' => 'ccan', 'Cc02_g09630' => 'ccan', 'Cc02_g22810' => 'ccan', 'Cc03_g03810' => 'ccan', 'CDE02G3718' => 'cde', 'CDE04G3183' => 'cde', 'CDE07G1046' => 'cde', 'CDE08G0480' => 'cde', 'Cfa005493' => 'cfa', 'Cfa010312' => 'cfa', 'Cfa015648' => 'cfa', 'Ciclev10002793m.g' => 'ccl', 'Ciclev10003356m.g' => 'ccl', 'Ciclev10006141m.g' => 'ccl', 'Ciclev10016676m.g' => 'ccl', 'Ciclev10017081m.g' => 'ccl', 'Ciclev10029499m.g' => 'ccl', 'CiPaw.01G166300' => 'cil', 'CiPaw.06G145600' => 'cil', 'CiPaw.13G040100' => 'cil', 'CiPaw.13G135800' => 'cil', 'ClCG01G012230' => 'cla', 'ClCG05G009510' => 'cla', 'ClCG08G008270' => 'cla', 'COL.COLO4_11763' => 'col', 'COL.COLO4_19876' => 'col', 'COL.COLO4_21481' => 'col', 'Cpa.g.sc118.34' => 'cpa', 'Cpa.g.sc32.13' => 'cpa', 'Cpa.g.sc58.103' => 'cpa', 'Cre03.g183850' => 'cre', 'Cre06.g306350' => 'cre', 'Cre07.g334800' => 'cre', 'Cre12.g487900' => 'cre', 'Cre14.g626700' => 'cre', 'Cre16.g658400' => 'cre', 'Cre17.g700950' => 'cre', 'CsaV3_1G014830' => 'csa', 'CsaV3_3G013320' => 'csa', 'CsaV3_3G019210' => 'csa', 'CsaV3_3G019220' => 'csa', 'CsaV3_6G004230' => 'csa', 'CSS0003773' => 'camsi', 'CSS0004563' => 'camsi', 'CSS0013949' => 'camsi', 'CSS0025971' => 'camsi', 'CSS0028570' => 'camsi', 'CSS0033127' => 'camsi', 'CSS0036051' => 'camsi', 'CSS0040087' => 'camsi', 'CSS0043179' => 'camsi', 'DCAR_006161' => 'dca', 'DCAR_010351' => 'dca', 'DCAR_012197' => 'dca', 'DCAR_024162' => 'dca', 'Dinv01030' => 'din', 'Dinv10924' => 'din', 'Dinv11835' => 'din', 'Dinv22841' => 'din', 'Dinv42553' => 'din', 'Duzib052G0560' => 'dzi', 'Duzib132G0389' => 'dzi', 'Duzib150G1181' => 'dzi', 'Duzib168G0623' => 'dzi', 'Duzib170G1036' => 'dzi', 'Duzib212G0200' => 'dzi', 'Duzib248G0194' => 'dzi', 'ECA232G2193' => 'eca', 'ECA233G0302' => 'eca', 'ECA234G2813' => 'eca', 'ECA234G4866' => 'eca', 'ECA240G3932' => 'eca', 'ECA248G0385' => 'eca', 'EL10Ac2g04781' => 'bvu', 'EL10Ac3g06445' => 'bvu', 'EL10Ac7g15825' => 'bvu', 'EL10Ac8g18550' => 'bvu', 'Eucgr.B03849' => 'egr', 'Eucgr.I02744' => 'egr', 'Eucgr.J00264' => 'egr', 'Eucgr.J00493' => 'egr', 'FAN04G2181' => 'fan', 'FAN07G2666' => 'fan', 'FAN11G0024' => 'fan', 'FAN12G1105' => 'fan', 'FAN13G0302' => 'fan', 'FAN15G2781' => 'fan', 'FAN16G1274' => 'fan', 'FAN17G2988' => 'fan', 'FAN18G2621' => 'fan', 'FAN21G0013' => 'fan', 'FAN22G1211' => 'fan', 'FAN25G3626' => 'fan', 'FvH4_2g09491' => 'fve', 'FvH4_3g24910' => 'fve', 'FvH4_4g15630' => 'fve', 'FvH4_5g28820' => 'fve', 'Glyma.01G238000' => 'gma', 'Glyma.05G168400' => 'gma', 'Glyma.08G126800' => 'gma', 'Glyma.08G188500' => 'gma', 'Glyma.10G278900' => 'gma', 'Glyma.11G005700' => 'gma', 'Glyma.11G183300' => 'gma', 'Glyma.12G089200' => 'gma', 'Glyma.12G169400' => 'gma', 'Glyma.12G169500' => 'gma', 'Glyma.12G169600' => 'gma', 'Glyma.20G110800' => 'gma', 'Gohir.A03G192900' => 'ghi', 'Gohir.A03G193000' => 'ghi', 'Gohir.A05G080700' => 'ghi', 'Gohir.A09G216000' => 'ghi', 'Gohir.A12G027700' => 'ghi', 'Gohir.A13G036200' => 'ghi', 'Gohir.A13G222600' => 'ghi', 'Gohir.D02G213900' => 'ghi', 'Gohir.D02G214000' => 'ghi', 'Gohir.D05G083700' => 'ghi', 'Gohir.D05G083800' => 'ghi', 'Gohir.D05G083850' => 'ghi', 'Gohir.D08G015400' => 'ghi', 'Gohir.D09G218400' => 'ghi', 'Gohir.D12G027100' => 'ghi', 'Gohir.D13G034500' => 'ghi', 'Gohir.D13G227400' => 'ghi', 'Gorai.005G241800' => 'gra', 'Gorai.005G241900' => 'gra', 'Gorai.006G239400' => 'gra', 'Gorai.008G027600' => 'gra', 'Gorai.009G085400' => 'gra', 'Gorai.009G085500' => 'gra', 'Gorai.013G039000' => 'gra', 'Gorai.013G194800' => 'gra', 'Gorai.013G257900' => 'gra', 'GSVIVG01000982001' => 'vvi', 'GSVIVG01017981001' => 'vvi', 'HanXRQChr01g0024061' => 'han', 'HanXRQChr09g0247831' => 'han', 'HanXRQChr10g0294611' => 'han', 'HanXRQChr10g0294621' => 'han', 'HanXRQChr11g0346821' => 'han', 'HanXRQChr13g0397461' => 'han', 'HanXRQChr16g0513651' => 'han', 'HanXRQChr16g0513701' => 'han', 'Haze_00897' => 'cav', 'Haze_01745' => 'cav', 'Haze_02486' => 'cav', 'Haze_02487' => 'cav', 'Haze_23374' => 'cav', 'Hma1.2p1_0578F.1_g182520' => 'hma', 'Hma1.2p1_0602F.1_g187350' => 'hma', 'Hma1.2p1_0602F.1_g187360' => 'hma', 'Hma1.2p1_0874F.1_g231320' => 'hma', 'Hma1.2p1_1197F.1_g266210' => 'hma', 'Hma1.2p1_1197F.1_g266220' => 'hma', 'Hma1.2p1_2167F.1_g315895' => 'hma', 'Hma1.2p1_2190F.1_g316640' => 'hma', 'Hma1.2p1_3645F.1_g337153' => 'hma', 'HPP92_004907' => 'vpl', 'HPP92_012134' => 'vpl', 'HPP92_025136' => 'vpl', 'HPP92_026087' => 'vpl', 'Hund06782' => 'sun', 'Hund06784' => 'sun', 'Lalb_Chr01g0004861' => 'lal', 'Lalb_Chr02g0140591' => 'lal', 'Lalb_Chr02g0140611' => 'lal', 'Lalb_Chr03g0028101' => 'lal', 'Lalb_Chr07g0185791' => 'lal', 'Lalb_Chr12g0204491' => 'lal', 'Lalb_Chr13g0295671' => 'lal', 'Lalb_Chr19g0136461' => 'lal', 'Lalb_Chr21g0309191' => 'lal', 'Lj1g0028158' => 'lja', 'Lj1P236T38' => 'lonja', 'Lj2C32G2' => 'lonja', 'Lj2P944T8' => 'lonja', 'Lj2P963T15' => 'lonja', 'Lj3g0011788' => 'lja', 'Lj4g0025027' => 'lja', 'Lj5P255T36' => 'lonja', 'Lj6g0018866' => 'lja', 'Lj6P608T31' => 'lonja', 'LjContig00408g0008879' => 'lja', 'Lsat_1_v5_gn_5_105820' => 'lsa', 'Lsat_1_v5_gn_6_38800' => 'lsa', 'Lsat_1_v5_gn_7_67141' => 'lsa', 'Manes.04G003400' => 'mes', 'Manes.07G020000' => 'mes', 'Manes.07G020100' => 'mes', 'Manes.07G020150' => 'mes', 'Manes.10G061500' => 'mes', 'Manes.10G123200' => 'mes', 'Manes.11G161900' => 'mes', 'Manes.15G029300' => 'mes', 'Mapoly0071s0018' => 'mpo', 'Mapoly0082s0023' => 'mpo', 'Mapoly3477s0001' => 'mpo', 'MBI05_g31233_MAGBIO' => 'mbi', 'MBI09_g05946_MAGBIO' => 'mbi', 'MBI09_g05947_MAGBIO' => 'mbi', 'MBI17_g08346_MAGBIO' => 'mbi', 'MCO04G038' => 'mco', 'MCO09G370' => 'mco', 'MCO13G605' => 'mco', 'MD00G1075500' => 'mdo', 'MD03G1144300' => 'mdo', 'MD08G1236800' => 'mdo', 'MD13G1193300' => 'mdo', 'MD15G1428700' => 'mdo', 'Medtr1g112030' => 'mtr', 'Medtr1g112050' => 'mtr', 'Medtr2g006290' => 'mtr', 'Medtr2g086510' => 'mtr', 'Medtr4g053120' => 'mtr', 'Medtr5g006320' => 'mtr', 'Medtr8g088720' => 'mtr', 'MELO3C004712.2' => 'cme', 'MELO3C006533.2' => 'cme', 'MELO3C019438.2' => 'cme', 'MELO3C019440.2' => 'cme', 'MELO3C019441.2' => 'cme', 'MELO3C019895.2' => 'cme', 'Migut.B00811' => 'egut', 'Migut.D02447' => 'egut', 'Migut.F00875' => 'egut', 'Migut.N00186' => 'egut', 'Migut.N01051' => 'egut', 'Migut.N02491' => 'egut', 'Migut.O00784' => 'egut', 'MSTRG.12367' => 'ama', 'MSTRG.18756' => 'ama', 'MSTRG.21042' => 'ama', 'Nitab4.5_0000559g0040' => 'nta', 'Nitab4.5_0000667g0190' => 'nta', 'Nitab4.5_0000755g0160' => 'nta', 'Nitab4.5_0001216g0080' => 'nta', 'Nitab4.5_0004069g0040' => 'nta', 'Nitab4.5_0004129g0010' => 'nta', 'Nitab4.5_0005744g0030' => 'nta', 'Nitab4.5_0006996g0030' => 'nta', 'Nitab4.5_0008971g0040' => 'nta', 'Nitab4.5_0009769g0020' => 'nta', 'Nitab4.5_0009833g0010' => 'nta', 'Nitab4.5_0013140g0020' => 'nta', 'Nn003s41376' => 'nnu', 'Nn1g01857' => 'nnu', 'Nn1g03611' => 'nnu', 'Nn1g06853' => 'nnu', 'Nn3g18360' => 'nnu', 'Nn4g26328' => 'nnu', 'Nn5g27531' => 'nnu', 'Nn6g34899' => 'nnu', 'Nn7g36299' => 'nnu', 'Oeu021485.1' => 'oeu', 'Oeu022433.1' => 'oeu', 'Oeu032111.1' => 'oeu', 'Oeu051608.1' => 'oeu', 'Os01g0860601' => 'osa', 'Os03g0659200' => 'osa', 'Os03g0835900' => 'osa', 'Os04g0412200' => 'osa', 'Os05g0443500' => 'osa', 'Os07g0251500' => 'osa', 'Os08g0104600' => 'osa', 'Peaxi162Scf00003g00047' => 'pax', 'Peaxi162Scf00003g00052' => 'pax', 'Peaxi162Scf00003g00394' => 'pax', 'Peaxi162Scf00091g00621' => 'pax', 'Peaxi162Scf00152g00146' => 'pax', 'Peaxi162Scf00173g00025' => 'pax', 'Peaxi162Scf00195g00102' => 'pax', 'Peaxi162Scf00402g00013' => 'pax', 'Peaxi162Scf00519g00618' => 'pax', 'PGR004G2838' => 'pgr', 'PGR044G2275' => 'pgr', 'PGR102G1377' => 'pgr', 'PGR119G1245' => 'pgr', 'PGR142G4449' => 'pgr', 'PGSC0003DMG400004532' => 'stu', 'PGSC0003DMG400011950' => 'stu', 'PGSC0003DMG400023391' => 'stu', 'PGSC0003DMG400023985' => 'stu', 'PGSC0003DMG400026360' => 'stu', 'PGSC0003DMG400035711' => 'stu', 'PGSC0003DMG400037286' => 'stu', 'PGSC0003DMG402005881' => 'stu', 'Phvul.002G045400' => 'pvu', 'Phvul.006G216600' => 'pvu', 'Phvul.006G216700' => 'pvu', 'Phvul.006G216800' => 'pvu', 'Phvul.007G022500' => 'pvu', 'Phvul.011G094400' => 'pvu', 'Potri.001G470700' => 'ptr', 'Potri.003G015200' => 'ptr', 'Potri.004G202500' => 'ptr', 'Potri.004G218400' => 'ptr', 'Potri.008G020100' => 'ptr', 'Potri.008G153200' => 'ptr', 'Potri.009G163800' => 'ptr', 'Potri.010G087300' => 'ptr', 'Potri.010G239100' => 'ptr', 'Pp3c10_16100' => 'ppa', 'Pp3c10_16880' => 'ppa', 'Pp3c16_6230' => 'ppa', 'Pp3c17_18910' => 'ppa', 'Pp3c3_22119' => 'ppa', 'Pp3c3_22140' => 'ppa', 'Pp3c4_8159' => 'ppa', 'Pp3c4_8171' => 'ppa', 'Pp3c4_8330' => 'ppa', 'PRCOL_00004098' => 'pco', 'Prupe.1G013900' => 'ppe', 'Prupe.1G226300' => 'ppe', 'Prupe.1G573600' => 'ppe', 'Prupe.6G130100' => 'ppe', 'Psat3g090040' => 'psa', 'Psat4g210440' => 'psa', 'Psat6g231040' => 'psa', 'Psat6g231080' => 'psa', 'Psat7g063000' => 'psa', 'Psat7g188000' => 'psa', 'Psat7g188040' => 'psa', 'PSO017G0206' => 'pso', 'PSO170G0501' => 'pso', 'PSO170G6422' => 'pso', 'PSO210G7739' => 'pso', 'PSO339G1808' => 'pso', 'PSO339G6135' => 'pso', 'PSO384G0010' => 'pso', 'PSO384G0964' => 'pso', 'PSO761G0050' => 'pso', 'PSO782G4085' => 'pso', 'QL01p012264' => 'qlo', 'QL02p099491' => 'qlo', 'QL03p033868' => 'qlo', 'QL04p046678' => 'qlo', 'QL06p002448' => 'qlo', 'RcHm_v2.0_Chr4g0416181' => 'rch', 'RcHm_v2.0_Chr5g0044701' => 'rch', 'RcHm_v2.0_Chr6g0265781' => 'rch', 'RcHm_v2.0_Chr7g0221031' => 'rch', 'Rhsim04G0202000' => 'rsi', 'Rhsim11G0127300' => 'rsi', 'Rhsim13G0111800' => 'rsi', 'Sabra01G0165600' => 'sbr', 'Sabra03G0008300' => 'sbr', 'Sabra04G0136900' => 'sbr', 'Sabra08G0013400' => 'sbr', 'Sabra08G0116800' => 'sbr', 'Sabra09G0128000' => 'sbr', 'Sabra10G0055500' => 'sbr', 'Sabra10G0073300' => 'sbr', 'SalBow3G0385' => 'sbo', 'SalBow3G1119' => 'sbo', 'SalBow3G2005' => 'sbo', 'SalBow6G2563' => 'sbo', 'SalBow6G6386' => 'sbo', 'Sc06g0008800' => 'sci', 'Sc07g0004950' => 'sci', 'Sc09g0005340' => 'sci', 'Sc13g0004410' => 'sci', 'Sc21g0007090' => 'sci', 'Sed0009285' => 'sed', 'Sed0017583' => 'sed', 'Sed0019699' => 'sed', 'Sed0023107' => 'sed', 'SEGI_10916' => 'sgi', 'SEGI_16217' => 'sgi', 'SEGI_19466' => 'sgi', 'SEGI_41115' => 'sgi', 'SGA_v2.0_scaffold111G31534' => 'sas', 'SGA_v2.0_scaffold22G09864' => 'sas', 'SGA_v2.0_scaffold338G49219' => 'sas', 'SGA_v2.0_scaffold92G28298' => 'sas', 'SMO119G0064' => 'smo', 'SMO223G0038' => 'smo', 'SMO347G0584' => 'smo', 'SMO351G0010' => 'smo', 'SMO356G0404' => 'smo', 'Solyc01g103920.3' => 'sly', 'Solyc04g009710.2' => 'sly', 'Solyc05g055280.2' => 'sly', 'Solyc10g044520.3' => 'sly', 'Solyc10g075160.1' => 'sly', 'Solyc11g006910.3' => 'sly', 'Solyc11g068430.3' => 'sly', 'Sopen01g046310' => 'spe', 'Sopen03g001200' => 'spe', 'Sopen04g004830' => 'spe', 'Sopen05g033720' => 'spe', 'Sopen06g030740' => 'spe', 'Sopen10g013090' => 'spe', 'Sopen10g027630' => 'spe', 'Sopen10g027640' => 'spe', 'Sopen11g002820' => 'spe', 'Sopen11g027140' => 'spe', 'Sp1g09680' => 'spa', 'Sp2g03630' => 'spa', 'Sp4g10320' => 'spa', 'Sp6g33400' => 'spa', 'Sp7g13030' => 'spa', 'TAR365G0317' => 'tar', 'TAR376G0979' => 'tar', 'TAR623G1665' => 'tar', 'TAR633G2373' => 'tar', 'TAR636G1400' => 'tar', 'THA.LOC104800529' => 'tha', 'THA.LOC104808547' => 'tha', 'THA.LOC104809615' => 'tha', 'THA.LOC104815724' => 'tha', 'THA.LOC104818480' => 'tha', 'THA.LOC104819179' => 'tha', 'THA.LOC104822270' => 'tha', 'THA.LOC104826425' => 'tha', 'Thecc.02G089700' => 'tca', 'Thecc.04G232300' => 'tca', 'Thecc.09G283400' => 'tca', 'Thhalv10009020m.g' => 'esa', 'Thhalv10015506m.g' => 'esa', 'Thhalv10017364m.g' => 'esa', 'Thhalv10023742m.g' => 'esa', 'Thhalv10026483m.g' => 'esa', 'TPR.G17232' => 'tpr', 'TPR.G2133' => 'tpr', 'TPR.G2498' => 'tpr', 'TPR.G31942' => 'tpr', 'TPR.G37877' => 'tpr', 'TPR.G4571' => 'tpr', 'TWI14G1113' => 'twi', 'TWI15G0426' => 'twi', 'TWI31G1005' => 'twi', 'TWI38G0513' => 'twi', 'TWI38G1484' => 'twi', 'TWI73G1098' => 'twi', 'unitig_26.g10519' => 'ugi', 'unitig_736.g22395' => 'ugi', 'unitig_747.g21234' => 'ugi', 'unitig_747.g21942' => 'ugi', 'vmacro14351' => 'vma', 'VMungo0540G0082' => 'vmu', 'VMungo0540G0405' => 'vmu', 'VMungo0540G1486' => 'vmu', 'VMungo0540G1692' => 'vmu', 'VMungo0720G2473' => 'vmu', 'VMungo1127G1562' => 'vmu', 'VMungo1215G1918' => 'vmu', 'Zm00001eb052650' => 'zma', 'Zm00001eb063710' => 'zma', 'Zm00001eb083950' => 'zma', 'Zm00001eb174420' => 'zma', 'Zm00001eb260140' => 'zma', 'Zm00001eb260150' => 'zma', 'Zm00001eb260160' => 'zma', 'Zm00001eb348290' => 'zma', 'Zm00001eb366870' => 'zma', 'Zm00001eb421930' => 'zma' ) $gf_id = 'HOM05D001025' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001025' ) $data_identifier = 'HOM05D001025' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 19, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 2, 'amhyb' => (int) 4, 'aly' => (int) 4, 'aox' => (int) 4, 'arhy' => (int) 3, 'ath' => (int) 5, 'atr' => (int) 4, 'acertr' => (int) 3, 'cqu' => (int) 7, 'bca' => (int) 17, 'bol' => (int) 10, 'bra' => (int) 9, 'can' => (int) 10, 'cansat' => (int) 6, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 5, 'cbr' => (int) 5, 'ccan' => (int) 5, 'cde' => (int) 4, 'cfa' => (int) 3, 'ccl' => (int) 6, 'cil' => (int) 4, 'cla' => (int) 3, 'col' => (int) 3, 'cpa' => (int) 3, 'cre' => (int) 7, 'csa' => (int) 5, 'camsi' => (int) 9, 'dca' => (int) 4, 'din' => (int) 5, 'dzi' => (int) 7, 'eca' => (int) 6, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 12, 'fve' => (int) 4, 'gma' => (int) 12, 'ghi' => (int) 17, 'gra' => (int) 9, 'vvi' => (int) 2, 'han' => (int) 8, 'cav' => (int) 5, 'hma' => (int) 9, 'vpl' => (int) 4, 'sun' => (int) 2, 'lal' => (int) 9, 'lja' => (int) 5, 'lonja' => (int) 6, 'lsa' => (int) 3, 'mes' => (int) 8, 'mpo' => (int) 3, 'mbi' => (int) 4, 'mco' => (int) 3, 'mdo' => (int) 5, 'mtr' => (int) 7, 'cme' => (int) 6, 'egut' => (int) 7, 'ama' => (int) 3, 'nta' => (int) 12, 'nnu' => (int) 9, 'oeu' => (int) 4, 'osa' => (int) 7, 'pax' => (int) 9, 'pgr' => (int) 5, 'stu' => (int) 8, 'pvu' => (int) 6, 'ptr' => (int) 9, 'ppa' => (int) 9, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 7, 'pso' => (int) 10, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 3, 'sbr' => (int) 8, 'sbo' => (int) 5, 'sci' => (int) 5, 'sed' => (int) 4, 'sgi' => (int) 4, 'sas' => (int) 4, 'smo' => (int) 5, 'sly' => (int) 7, 'spe' => (int) 10, 'spa' => (int) 5, 'tar' => (int) 5, 'tha' => (int) 8, 'tca' => (int) 3, 'esa' => (int) 5, 'tpr' => (int) 6, 'twi' => (int) 6, 'ugi' => (int) 4, 'vma' => (int) 1, 'vmu' => (int) 7, 'zma' => (int) 10 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb421930' $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' => 'HOM05D001025', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '592', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p22650' => 'bna', 'A01p29720' => 'bna', 'A03p26560' => 'bna', 'A03p68820' => 'bna', 'A04p20980' => 'bna', 'A06p07730' => 'bna', 'A07p18260' => 'bna', 'A08p33710' => 'bna', 'A09p16970' => 'bna', 'A10p27490' => 'bna', 'Aa31LG1G17300' => 'aar', 'Aa31LG1G3910' => 'aar', 'Aa31LG2G9630' => 'aar', 'Aa31LG5G8360' => 'aar', 'Aa31LG9G2410' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4699' => 'aag', 'Actinidia23512' => 'ach', 'Actinidia37080' => 'ach', 'Ah.01g020380' => 'amhyb', 'Ah.08g215710' => 'amhyb', 'Ah.09g225110' => 'amhyb', 'Ah.10g036680' => 'amhyb', 'AL1G21940' => 'aly', 'AL2G15540' => 'aly', 'AL4G21520' => 'aly', 'AL7G40960' => 'aly', 'Aqoxy2G01191' => 'aox', 'Aqoxy2G03393' => 'aox', 'Aqoxy4G02775' => 'aox', 'Aqoxy6G00058' => 'aox', 'arahy.Tifrunner.gnm1.ann1.9X74H2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CW3FX9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R485W7' => 'arhy', 'AT1G10960' => 'ath', 'AT1G60950' => 'ath', 'AT2G27510' => 'ath', 'AT4G14890' => 'ath', 'AT5G10000' => 'ath', 'ATR0665G624' => 'atr', 'ATR0697G138' => 'atr', 'ATR0776G046' => 'atr', 'ATR1134G135' => 'atr', 'Atru.chr12.1025' => 'acertr', 'Atru.chr3.3241' => 'acertr', 'Atru.chr4.2460' => 'acertr', 'AUR62007427' => 'cqu', 'AUR62010960' => 'cqu', 'AUR62012201' => 'cqu', 'AUR62021470' => 'cqu', 'AUR62022834' => 'cqu', 'AUR62033635' => 'cqu', 'AUR62036186' => 'cqu', 'BcaB01g03077' => 'bca', 'BcaB02g10093' => 'bca', 'BcaB04g20295' => 'bca', 'BcaB06g28147' => 'bca', 'BcaB07g31253' => 'bca', 'BcaC01g04946' => 'bca', 'BcaC02g10614' => 'bca', 'BcaC02g10885' => 'bca', 'BcaC04g19356' => 'bca', 'BcaC04g22297' => 'bca', 'BcaC05g24977' => 'bca', 'BcaC06g31823' => 'bca', 'BcaC07g38633' => 'bca', 'BcaC09g49353' => 'bca', 'BcaC09g50168' => 'bca', 'BcaNung00322' => 'bca', 'BcaNung04769' => 'bca', 'BolC1t02753H' => 'bol', 'BolC1t03721H' => 'bol', 'BolC3t15525H' => 'bol', 'BolC4t23903H' => 'bol', 'BolC4t24231H' => 'bol', 'BolC4t27209H' => 'bol', 'BolC5t29671H' => 'bol', 'BolC8t49044H' => 'bol', 'BolC9t54999H' => 'bol', 'BolC9t59517H' => 'bol', 'BraA01t02178Z' => 'bra', 'BraA01t03099Z' => 'bra', 'BraA03t11867Z' => 'bra', 'BraA04t17667Z' => 'bra', 'BraA07t29542Z' => 'bra', 'BraA08t35287Z' => 'bra', 'BraA09t37334Z' => 'bra', 'BraA10t44801Z' => 'bra', 'BraSC39t46181Z' => 'bra', 'C01p28240' => 'bna', 'C01p37530' => 'bna', 'C03p31820' => 'bna', 'C04p24080' => 'bna', 'C04p25790' => 'bna', 'C04p56770' => 'bna', 'C05p09310' => 'bna', 'C09p21010' => 'bna', 'C09p67560' => 'bna', 'CAN.G1324.7' => 'can', 'CAN.G1358.10' => 'can', 'CAN.G1550.2' => 'can', 'CAN.G186.56' => 'can', 'CAN.G1965.1' => 'can', 'CAN.G645.15' => 'can', 'CAN.G798.26' => 'can', 'CAN.G798.27' => 'can', 'CAN.G798.29' => 'can', 'CAN.G919.31' => 'can', 'CANSAT11G0133' => 'cansat', 'CANSAT11G1171' => 'cansat', 'CANSAT11G2056' => 'cansat', 'CANSAT56G1202' => 'cansat', 'CANSAT56G1514' => 'cansat', 'CANSAT78G0455' => 'cansat', 'CARHR011190' => 'chi', 'CARHR051980' => 'chi', 'CARHR120170' => 'chi', 'CARHR203310' => 'chi', 'CARHR221490' => 'chi', 'Carub.0001s1054' => 'cru', 'Carub.0002s0431' => 'cru', 'Carub.0004s0818' => 'cru', 'Carub.0006s0846' => 'cru', 'Carub.0007s2722' => 'cru', 'Ca_00058_v3' => 'car', 'Ca_17831_v3' => 'car', 'Ca_19408_v3' => 'car', 'Ca_24397_v3' => 'car', 'Ca_25664_v3' => 'car', 'CBR_g21818' => 'cbr', 'CBR_g31195' => 'cbr', 'CBR_g32282' => 'cbr', 'CBR_g39599' => 'cbr', 'CBR_g49410' => 'cbr', 'Cc01_g09120' => 'ccan', 'Cc01_g09130' => 'ccan', 'Cc02_g09630' => 'ccan', 'Cc02_g22810' => 'ccan', 'Cc03_g03810' => 'ccan', 'CDE02G3718' => 'cde', 'CDE04G3183' => 'cde', 'CDE07G1046' => 'cde', 'CDE08G0480' => 'cde', 'Cfa005493' => 'cfa', 'Cfa010312' => 'cfa', 'Cfa015648' => 'cfa', 'Ciclev10002793m.g' => 'ccl', 'Ciclev10003356m.g' => 'ccl', 'Ciclev10006141m.g' => 'ccl', 'Ciclev10016676m.g' => 'ccl', 'Ciclev10017081m.g' => 'ccl', 'Ciclev10029499m.g' => 'ccl', 'CiPaw.01G166300' => 'cil', 'CiPaw.06G145600' => 'cil', 'CiPaw.13G040100' => 'cil', 'CiPaw.13G135800' => 'cil', 'ClCG01G012230' => 'cla', 'ClCG05G009510' => 'cla', 'ClCG08G008270' => 'cla', 'COL.COLO4_11763' => 'col', 'COL.COLO4_19876' => 'col', 'COL.COLO4_21481' => 'col', 'Cpa.g.sc118.34' => 'cpa', 'Cpa.g.sc32.13' => 'cpa', 'Cpa.g.sc58.103' => 'cpa', 'Cre03.g183850' => 'cre', 'Cre06.g306350' => 'cre', 'Cre07.g334800' => 'cre', 'Cre12.g487900' => 'cre', 'Cre14.g626700' => 'cre', 'Cre16.g658400' => 'cre', 'Cre17.g700950' => 'cre', 'CsaV3_1G014830' => 'csa', 'CsaV3_3G013320' => 'csa', 'CsaV3_3G019210' => 'csa', 'CsaV3_3G019220' => 'csa', 'CsaV3_6G004230' => 'csa', 'CSS0003773' => 'camsi', 'CSS0004563' => 'camsi', 'CSS0013949' => 'camsi', 'CSS0025971' => 'camsi', 'CSS0028570' => 'camsi', 'CSS0033127' => 'camsi', 'CSS0036051' => 'camsi', 'CSS0040087' => 'camsi', 'CSS0043179' => 'camsi', 'DCAR_006161' => 'dca', 'DCAR_010351' => 'dca', 'DCAR_012197' => 'dca', 'DCAR_024162' => 'dca', 'Dinv01030' => 'din', 'Dinv10924' => 'din', 'Dinv11835' => 'din', 'Dinv22841' => 'din', 'Dinv42553' => 'din', 'Duzib052G0560' => 'dzi', 'Duzib132G0389' => 'dzi', 'Duzib150G1181' => 'dzi', 'Duzib168G0623' => 'dzi', 'Duzib170G1036' => 'dzi', 'Duzib212G0200' => 'dzi', 'Duzib248G0194' => 'dzi', 'ECA232G2193' => 'eca', 'ECA233G0302' => 'eca', 'ECA234G2813' => 'eca', 'ECA234G4866' => 'eca', 'ECA240G3932' => 'eca', 'ECA248G0385' => 'eca', 'EL10Ac2g04781' => 'bvu', 'EL10Ac3g06445' => 'bvu', 'EL10Ac7g15825' => 'bvu', 'EL10Ac8g18550' => 'bvu', 'Eucgr.B03849' => 'egr', 'Eucgr.I02744' => 'egr', 'Eucgr.J00264' => 'egr', 'Eucgr.J00493' => 'egr', 'FAN04G2181' => 'fan', 'FAN07G2666' => 'fan', 'FAN11G0024' => 'fan', 'FAN12G1105' => 'fan', 'FAN13G0302' => 'fan', 'FAN15G2781' => 'fan', 'FAN16G1274' => 'fan', 'FAN17G2988' => 'fan', 'FAN18G2621' => 'fan', 'FAN21G0013' => 'fan', 'FAN22G1211' => 'fan', 'FAN25G3626' => 'fan', 'FvH4_2g09491' => 'fve', 'FvH4_3g24910' => 'fve', 'FvH4_4g15630' => 'fve', 'FvH4_5g28820' => 'fve', 'Glyma.01G238000' => 'gma', 'Glyma.05G168400' => 'gma', 'Glyma.08G126800' => 'gma', 'Glyma.08G188500' => 'gma', 'Glyma.10G278900' => 'gma', 'Glyma.11G005700' => 'gma', 'Glyma.11G183300' => 'gma', 'Glyma.12G089200' => 'gma', 'Glyma.12G169400' => 'gma', 'Glyma.12G169500' => 'gma', 'Glyma.12G169600' => 'gma', 'Glyma.20G110800' => 'gma', 'Gohir.A03G192900' => 'ghi', 'Gohir.A03G193000' => 'ghi', 'Gohir.A05G080700' => 'ghi', 'Gohir.A09G216000' => 'ghi', 'Gohir.A12G027700' => 'ghi', 'Gohir.A13G036200' => 'ghi', 'Gohir.A13G222600' => 'ghi', 'Gohir.D02G213900' => 'ghi', 'Gohir.D02G214000' => 'ghi', 'Gohir.D05G083700' => 'ghi', 'Gohir.D05G083800' => 'ghi', 'Gohir.D05G083850' => 'ghi', 'Gohir.D08G015400' => 'ghi', 'Gohir.D09G218400' => 'ghi', 'Gohir.D12G027100' => 'ghi', 'Gohir.D13G034500' => 'ghi', 'Gohir.D13G227400' => 'ghi', 'Gorai.005G241800' => 'gra', 'Gorai.005G241900' => 'gra', 'Gorai.006G239400' => 'gra', 'Gorai.008G027600' => 'gra', 'Gorai.009G085400' => 'gra', 'Gorai.009G085500' => 'gra', 'Gorai.013G039000' => 'gra', 'Gorai.013G194800' => 'gra', 'Gorai.013G257900' => 'gra', 'GSVIVG01000982001' => 'vvi', 'GSVIVG01017981001' => 'vvi', 'HanXRQChr01g0024061' => 'han', 'HanXRQChr09g0247831' => 'han', 'HanXRQChr10g0294611' => 'han', 'HanXRQChr10g0294621' => 'han', 'HanXRQChr11g0346821' => 'han', 'HanXRQChr13g0397461' => 'han', 'HanXRQChr16g0513651' => 'han', 'HanXRQChr16g0513701' => 'han', 'Haze_00897' => 'cav', 'Haze_01745' => 'cav', 'Haze_02486' => 'cav', 'Haze_02487' => 'cav', 'Haze_23374' => 'cav', 'Hma1.2p1_0578F.1_g182520' => 'hma', 'Hma1.2p1_0602F.1_g187350' => 'hma', 'Hma1.2p1_0602F.1_g187360' => 'hma', 'Hma1.2p1_0874F.1_g231320' => 'hma', 'Hma1.2p1_1197F.1_g266210' => 'hma', 'Hma1.2p1_1197F.1_g266220' => 'hma', 'Hma1.2p1_2167F.1_g315895' => 'hma', 'Hma1.2p1_2190F.1_g316640' => 'hma', 'Hma1.2p1_3645F.1_g337153' => 'hma', 'HPP92_004907' => 'vpl', 'HPP92_012134' => 'vpl', 'HPP92_025136' => 'vpl', 'HPP92_026087' => 'vpl', 'Hund06782' => 'sun', 'Hund06784' => 'sun', 'Lalb_Chr01g0004861' => 'lal', 'Lalb_Chr02g0140591' => 'lal', 'Lalb_Chr02g0140611' => 'lal', 'Lalb_Chr03g0028101' => 'lal', 'Lalb_Chr07g0185791' => 'lal', 'Lalb_Chr12g0204491' => 'lal', 'Lalb_Chr13g0295671' => 'lal', 'Lalb_Chr19g0136461' => 'lal', 'Lalb_Chr21g0309191' => 'lal', 'Lj1g0028158' => 'lja', 'Lj1P236T38' => 'lonja', 'Lj2C32G2' => 'lonja', 'Lj2P944T8' => 'lonja', 'Lj2P963T15' => 'lonja', 'Lj3g0011788' => 'lja', 'Lj4g0025027' => 'lja', 'Lj5P255T36' => 'lonja', 'Lj6g0018866' => 'lja', 'Lj6P608T31' => 'lonja', 'LjContig00408g0008879' => 'lja', 'Lsat_1_v5_gn_5_105820' => 'lsa', 'Lsat_1_v5_gn_6_38800' => 'lsa', 'Lsat_1_v5_gn_7_67141' => 'lsa', 'Manes.04G003400' => 'mes', 'Manes.07G020000' => 'mes', 'Manes.07G020100' => 'mes', 'Manes.07G020150' => 'mes', 'Manes.10G061500' => 'mes', 'Manes.10G123200' => 'mes', 'Manes.11G161900' => 'mes', 'Manes.15G029300' => 'mes', 'Mapoly0071s0018' => 'mpo', 'Mapoly0082s0023' => 'mpo', 'Mapoly3477s0001' => 'mpo', 'MBI05_g31233_MAGBIO' => 'mbi', 'MBI09_g05946_MAGBIO' => 'mbi', 'MBI09_g05947_MAGBIO' => 'mbi', 'MBI17_g08346_MAGBIO' => 'mbi', 'MCO04G038' => 'mco', 'MCO09G370' => 'mco', 'MCO13G605' => 'mco', 'MD00G1075500' => 'mdo', 'MD03G1144300' => 'mdo', 'MD08G1236800' => 'mdo', 'MD13G1193300' => 'mdo', 'MD15G1428700' => 'mdo', 'Medtr1g112030' => 'mtr', 'Medtr1g112050' => 'mtr', 'Medtr2g006290' => 'mtr', 'Medtr2g086510' => 'mtr', 'Medtr4g053120' => 'mtr', 'Medtr5g006320' => 'mtr', 'Medtr8g088720' => 'mtr', 'MELO3C004712.2' => 'cme', 'MELO3C006533.2' => 'cme', 'MELO3C019438.2' => 'cme', 'MELO3C019440.2' => 'cme', 'MELO3C019441.2' => 'cme', 'MELO3C019895.2' => 'cme', 'Migut.B00811' => 'egut', 'Migut.D02447' => 'egut', 'Migut.F00875' => 'egut', 'Migut.N00186' => 'egut', 'Migut.N01051' => 'egut', 'Migut.N02491' => 'egut', 'Migut.O00784' => 'egut', 'MSTRG.12367' => 'ama', 'MSTRG.18756' => 'ama', 'MSTRG.21042' => 'ama', 'Nitab4.5_0000559g0040' => 'nta', 'Nitab4.5_0000667g0190' => 'nta', 'Nitab4.5_0000755g0160' => 'nta', 'Nitab4.5_0001216g0080' => 'nta', 'Nitab4.5_0004069g0040' => 'nta', 'Nitab4.5_0004129g0010' => 'nta', 'Nitab4.5_0005744g0030' => 'nta', 'Nitab4.5_0006996g0030' => 'nta', 'Nitab4.5_0008971g0040' => 'nta', 'Nitab4.5_0009769g0020' => 'nta', 'Nitab4.5_0009833g0010' => 'nta', 'Nitab4.5_0013140g0020' => 'nta', 'Nn003s41376' => 'nnu', 'Nn1g01857' => 'nnu', 'Nn1g03611' => 'nnu', 'Nn1g06853' => 'nnu', 'Nn3g18360' => 'nnu', 'Nn4g26328' => 'nnu', 'Nn5g27531' => 'nnu', 'Nn6g34899' => 'nnu', 'Nn7g36299' => 'nnu', 'Oeu021485.1' => 'oeu', 'Oeu022433.1' => 'oeu', 'Oeu032111.1' => 'oeu', 'Oeu051608.1' => 'oeu', 'Os01g0860601' => 'osa', 'Os03g0659200' => 'osa', 'Os03g0835900' => 'osa', 'Os04g0412200' => 'osa', 'Os05g0443500' => 'osa', 'Os07g0251500' => 'osa', 'Os08g0104600' => 'osa', 'Peaxi162Scf00003g00047' => 'pax', 'Peaxi162Scf00003g00052' => 'pax', 'Peaxi162Scf00003g00394' => 'pax', 'Peaxi162Scf00091g00621' => 'pax', 'Peaxi162Scf00152g00146' => 'pax', 'Peaxi162Scf00173g00025' => 'pax', 'Peaxi162Scf00195g00102' => 'pax', 'Peaxi162Scf00402g00013' => 'pax', 'Peaxi162Scf00519g00618' => 'pax', 'PGR004G2838' => 'pgr', 'PGR044G2275' => 'pgr', 'PGR102G1377' => 'pgr', 'PGR119G1245' => 'pgr', 'PGR142G4449' => 'pgr', 'PGSC0003DMG400004532' => 'stu', 'PGSC0003DMG400011950' => 'stu', 'PGSC0003DMG400023391' => 'stu', 'PGSC0003DMG400023985' => 'stu', 'PGSC0003DMG400026360' => 'stu', 'PGSC0003DMG400035711' => 'stu', 'PGSC0003DMG400037286' => 'stu', 'PGSC0003DMG402005881' => 'stu', 'Phvul.002G045400' => 'pvu', 'Phvul.006G216600' => 'pvu', 'Phvul.006G216700' => 'pvu', 'Phvul.006G216800' => 'pvu', 'Phvul.007G022500' => 'pvu', 'Phvul.011G094400' => 'pvu', 'Potri.001G470700' => 'ptr', 'Potri.003G015200' => 'ptr', 'Potri.004G202500' => 'ptr', 'Potri.004G218400' => 'ptr', 'Potri.008G020100' => 'ptr', 'Potri.008G153200' => 'ptr', 'Potri.009G163800' => 'ptr', 'Potri.010G087300' => 'ptr', 'Potri.010G239100' => 'ptr', 'Pp3c10_16100' => 'ppa', 'Pp3c10_16880' => 'ppa', 'Pp3c16_6230' => 'ppa', 'Pp3c17_18910' => 'ppa', 'Pp3c3_22119' => 'ppa', 'Pp3c3_22140' => 'ppa', 'Pp3c4_8159' => 'ppa', 'Pp3c4_8171' => 'ppa', 'Pp3c4_8330' => 'ppa', 'PRCOL_00004098' => 'pco', 'Prupe.1G013900' => 'ppe', 'Prupe.1G226300' => 'ppe', 'Prupe.1G573600' => 'ppe', 'Prupe.6G130100' => 'ppe', 'Psat3g090040' => 'psa', 'Psat4g210440' => 'psa', 'Psat6g231040' => 'psa', 'Psat6g231080' => 'psa', 'Psat7g063000' => 'psa', 'Psat7g188000' => 'psa', 'Psat7g188040' => 'psa', 'PSO017G0206' => 'pso', 'PSO170G0501' => 'pso', 'PSO170G6422' => 'pso', 'PSO210G7739' => 'pso', 'PSO339G1808' => 'pso', 'PSO339G6135' => 'pso', 'PSO384G0010' => 'pso', 'PSO384G0964' => 'pso', 'PSO761G0050' => 'pso', 'PSO782G4085' => 'pso', 'QL01p012264' => 'qlo', 'QL02p099491' => 'qlo', 'QL03p033868' => 'qlo', 'QL04p046678' => 'qlo', 'QL06p002448' => 'qlo', 'RcHm_v2.0_Chr4g0416181' => 'rch', 'RcHm_v2.0_Chr5g0044701' => 'rch', 'RcHm_v2.0_Chr6g0265781' => 'rch', 'RcHm_v2.0_Chr7g0221031' => 'rch', 'Rhsim04G0202000' => 'rsi', 'Rhsim11G0127300' => 'rsi', 'Rhsim13G0111800' => 'rsi', 'Sabra01G0165600' => 'sbr', 'Sabra03G0008300' => 'sbr', 'Sabra04G0136900' => 'sbr', 'Sabra08G0013400' => 'sbr', 'Sabra08G0116800' => 'sbr', 'Sabra09G0128000' => 'sbr', 'Sabra10G0055500' => 'sbr', 'Sabra10G0073300' => 'sbr', 'SalBow3G0385' => 'sbo', 'SalBow3G1119' => 'sbo', 'SalBow3G2005' => 'sbo', 'SalBow6G2563' => 'sbo', 'SalBow6G6386' => 'sbo', 'Sc06g0008800' => 'sci', 'Sc07g0004950' => 'sci', 'Sc09g0005340' => 'sci', 'Sc13g0004410' => 'sci', 'Sc21g0007090' => 'sci', 'Sed0009285' => 'sed', 'Sed0017583' => 'sed', 'Sed0019699' => 'sed', 'Sed0023107' => 'sed', 'SEGI_10916' => 'sgi', 'SEGI_16217' => 'sgi', 'SEGI_19466' => 'sgi', 'SEGI_41115' => 'sgi', 'SGA_v2.0_scaffold111G31534' => 'sas', 'SGA_v2.0_scaffold22G09864' => 'sas', 'SGA_v2.0_scaffold338G49219' => 'sas', 'SGA_v2.0_scaffold92G28298' => 'sas', 'SMO119G0064' => 'smo', 'SMO223G0038' => 'smo', 'SMO347G0584' => 'smo', 'SMO351G0010' => 'smo', 'SMO356G0404' => 'smo', 'Solyc01g103920.3' => 'sly', 'Solyc04g009710.2' => 'sly', 'Solyc05g055280.2' => 'sly', 'Solyc10g044520.3' => 'sly', 'Solyc10g075160.1' => 'sly', 'Solyc11g006910.3' => 'sly', 'Solyc11g068430.3' => 'sly', 'Sopen01g046310' => 'spe', 'Sopen03g001200' => 'spe', 'Sopen04g004830' => 'spe', 'Sopen05g033720' => 'spe', 'Sopen06g030740' => 'spe', 'Sopen10g013090' => 'spe', 'Sopen10g027630' => 'spe', 'Sopen10g027640' => 'spe', 'Sopen11g002820' => 'spe', 'Sopen11g027140' => 'spe', 'Sp1g09680' => 'spa', 'Sp2g03630' => 'spa', 'Sp4g10320' => 'spa', 'Sp6g33400' => 'spa', 'Sp7g13030' => 'spa', 'TAR365G0317' => 'tar', 'TAR376G0979' => 'tar', 'TAR623G1665' => 'tar', 'TAR633G2373' => 'tar', 'TAR636G1400' => 'tar', 'THA.LOC104800529' => 'tha', 'THA.LOC104808547' => 'tha', 'THA.LOC104809615' => 'tha', 'THA.LOC104815724' => 'tha', 'THA.LOC104818480' => 'tha', 'THA.LOC104819179' => 'tha', 'THA.LOC104822270' => 'tha', 'THA.LOC104826425' => 'tha', 'Thecc.02G089700' => 'tca', 'Thecc.04G232300' => 'tca', 'Thecc.09G283400' => 'tca', 'Thhalv10009020m.g' => 'esa', 'Thhalv10015506m.g' => 'esa', 'Thhalv10017364m.g' => 'esa', 'Thhalv10023742m.g' => 'esa', 'Thhalv10026483m.g' => 'esa', 'TPR.G17232' => 'tpr', 'TPR.G2133' => 'tpr', 'TPR.G2498' => 'tpr', 'TPR.G31942' => 'tpr', 'TPR.G37877' => 'tpr', 'TPR.G4571' => 'tpr', 'TWI14G1113' => 'twi', 'TWI15G0426' => 'twi', 'TWI31G1005' => 'twi', 'TWI38G0513' => 'twi', 'TWI38G1484' => 'twi', 'TWI73G1098' => 'twi', 'unitig_26.g10519' => 'ugi', 'unitig_736.g22395' => 'ugi', 'unitig_747.g21234' => 'ugi', 'unitig_747.g21942' => 'ugi', 'vmacro14351' => 'vma', 'VMungo0540G0082' => 'vmu', 'VMungo0540G0405' => 'vmu', 'VMungo0540G1486' => 'vmu', 'VMungo0540G1692' => 'vmu', 'VMungo0720G2473' => 'vmu', 'VMungo1127G1562' => 'vmu', 'VMungo1215G1918' => 'vmu', 'Zm00001eb052650' => 'zma', 'Zm00001eb063710' => 'zma', 'Zm00001eb083950' => 'zma', 'Zm00001eb174420' => 'zma', 'Zm00001eb260140' => 'zma', 'Zm00001eb260150' => 'zma', 'Zm00001eb260160' => 'zma', 'Zm00001eb348290' => 'zma', 'Zm00001eb366870' => 'zma', 'Zm00001eb421930' => 'zma' ), 'gf_id' => 'HOM05D001025', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001025' ), 'data_identifier' => 'HOM05D001025', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001025', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '592', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p22650' => 'bna', 'A01p29720' => 'bna', 'A03p26560' => 'bna', 'A03p68820' => 'bna', 'A04p20980' => 'bna', 'A06p07730' => 'bna', 'A07p18260' => 'bna', 'A08p33710' => 'bna', 'A09p16970' => 'bna', 'A10p27490' => 'bna', 'Aa31LG1G17300' => 'aar', 'Aa31LG1G3910' => 'aar', 'Aa31LG2G9630' => 'aar', 'Aa31LG5G8360' => 'aar', 'Aa31LG9G2410' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4699' => 'aag', 'Actinidia23512' => 'ach', 'Actinidia37080' => 'ach', 'Ah.01g020380' => 'amhyb', 'Ah.08g215710' => 'amhyb', 'Ah.09g225110' => 'amhyb', 'Ah.10g036680' => 'amhyb', 'AL1G21940' => 'aly', 'AL2G15540' => 'aly', 'AL4G21520' => 'aly', 'AL7G40960' => 'aly', 'Aqoxy2G01191' => 'aox', 'Aqoxy2G03393' => 'aox', 'Aqoxy4G02775' => 'aox', 'Aqoxy6G00058' => 'aox', 'arahy.Tifrunner.gnm1.ann1.9X74H2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CW3FX9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R485W7' => 'arhy', 'AT1G10960' => 'ath', 'AT1G60950' => 'ath', 'AT2G27510' => 'ath', 'AT4G14890' => 'ath', 'AT5G10000' => 'ath', 'ATR0665G624' => 'atr', 'ATR0697G138' => 'atr', 'ATR0776G046' => 'atr', 'ATR1134G135' => 'atr', 'Atru.chr12.1025' => 'acertr', 'Atru.chr3.3241' => 'acertr', 'Atru.chr4.2460' => 'acertr', 'AUR62007427' => 'cqu', 'AUR62010960' => 'cqu', 'AUR62012201' => 'cqu', 'AUR62021470' => 'cqu', 'AUR62022834' => 'cqu', 'AUR62033635' => 'cqu', 'AUR62036186' => 'cqu', 'BcaB01g03077' => 'bca', 'BcaB02g10093' => 'bca', 'BcaB04g20295' => 'bca', 'BcaB06g28147' => 'bca', 'BcaB07g31253' => 'bca', 'BcaC01g04946' => 'bca', 'BcaC02g10614' => 'bca', 'BcaC02g10885' => 'bca', 'BcaC04g19356' => 'bca', 'BcaC04g22297' => 'bca', 'BcaC05g24977' => 'bca', 'BcaC06g31823' => 'bca', 'BcaC07g38633' => 'bca', 'BcaC09g49353' => 'bca', 'BcaC09g50168' => 'bca', 'BcaNung00322' => 'bca', 'BcaNung04769' => 'bca', 'BolC1t02753H' => 'bol', 'BolC1t03721H' => 'bol', 'BolC3t15525H' => 'bol', 'BolC4t23903H' => 'bol', 'BolC4t24231H' => 'bol', 'BolC4t27209H' => 'bol', 'BolC5t29671H' => 'bol', 'BolC8t49044H' => 'bol', 'BolC9t54999H' => 'bol', 'BolC9t59517H' => 'bol', 'BraA01t02178Z' => 'bra', 'BraA01t03099Z' => 'bra', 'BraA03t11867Z' => 'bra', 'BraA04t17667Z' => 'bra', 'BraA07t29542Z' => 'bra', 'BraA08t35287Z' => 'bra', 'BraA09t37334Z' => 'bra', 'BraA10t44801Z' => 'bra', 'BraSC39t46181Z' => 'bra', 'C01p28240' => 'bna', 'C01p37530' => 'bna', 'C03p31820' => 'bna', 'C04p24080' => 'bna', 'C04p25790' => 'bna', 'C04p56770' => 'bna', 'C05p09310' => 'bna', 'C09p21010' => 'bna', 'C09p67560' => 'bna', 'CAN.G1324.7' => 'can', 'CAN.G1358.10' => 'can', 'CAN.G1550.2' => 'can', 'CAN.G186.56' => 'can', 'CAN.G1965.1' => 'can', 'CAN.G645.15' => 'can', 'CAN.G798.26' => 'can', 'CAN.G798.27' => 'can', 'CAN.G798.29' => 'can', 'CAN.G919.31' => 'can', 'CANSAT11G0133' => 'cansat', 'CANSAT11G1171' => 'cansat', 'CANSAT11G2056' => 'cansat', 'CANSAT56G1202' => 'cansat', 'CANSAT56G1514' => 'cansat', 'CANSAT78G0455' => 'cansat', 'CARHR011190' => 'chi', 'CARHR051980' => 'chi', 'CARHR120170' => 'chi', 'CARHR203310' => 'chi', 'CARHR221490' => 'chi', 'Carub.0001s1054' => 'cru', 'Carub.0002s0431' => 'cru', 'Carub.0004s0818' => 'cru', 'Carub.0006s0846' => 'cru', 'Carub.0007s2722' => 'cru', 'Ca_00058_v3' => 'car', 'Ca_17831_v3' => 'car', 'Ca_19408_v3' => 'car', 'Ca_24397_v3' => 'car', 'Ca_25664_v3' => 'car', 'CBR_g21818' => 'cbr', 'CBR_g31195' => 'cbr', 'CBR_g32282' => 'cbr', 'CBR_g39599' => 'cbr', 'CBR_g49410' => 'cbr', 'Cc01_g09120' => 'ccan', 'Cc01_g09130' => 'ccan', 'Cc02_g09630' => 'ccan', 'Cc02_g22810' => 'ccan', 'Cc03_g03810' => 'ccan', 'CDE02G3718' => 'cde', 'CDE04G3183' => 'cde', 'CDE07G1046' => 'cde', 'CDE08G0480' => 'cde', 'Cfa005493' => 'cfa', 'Cfa010312' => 'cfa', 'Cfa015648' => 'cfa', 'Ciclev10002793m.g' => 'ccl', 'Ciclev10003356m.g' => 'ccl', 'Ciclev10006141m.g' => 'ccl', 'Ciclev10016676m.g' => 'ccl', 'Ciclev10017081m.g' => 'ccl', 'Ciclev10029499m.g' => 'ccl', 'CiPaw.01G166300' => 'cil', 'CiPaw.06G145600' => 'cil', 'CiPaw.13G040100' => 'cil', 'CiPaw.13G135800' => 'cil', 'ClCG01G012230' => 'cla', 'ClCG05G009510' => 'cla', 'ClCG08G008270' => 'cla', 'COL.COLO4_11763' => 'col', 'COL.COLO4_19876' => 'col', 'COL.COLO4_21481' => 'col', 'Cpa.g.sc118.34' => 'cpa', 'Cpa.g.sc32.13' => 'cpa', 'Cpa.g.sc58.103' => 'cpa', 'Cre03.g183850' => 'cre', 'Cre06.g306350' => 'cre', 'Cre07.g334800' => 'cre', 'Cre12.g487900' => 'cre', 'Cre14.g626700' => 'cre', 'Cre16.g658400' => 'cre', 'Cre17.g700950' => 'cre', 'CsaV3_1G014830' => 'csa', 'CsaV3_3G013320' => 'csa', 'CsaV3_3G019210' => 'csa', 'CsaV3_3G019220' => 'csa', 'CsaV3_6G004230' => 'csa', 'CSS0003773' => 'camsi', 'CSS0004563' => 'camsi', 'CSS0013949' => 'camsi', 'CSS0025971' => 'camsi', 'CSS0028570' => 'camsi', 'CSS0033127' => 'camsi', 'CSS0036051' => 'camsi', 'CSS0040087' => 'camsi', 'CSS0043179' => 'camsi', 'DCAR_006161' => 'dca', 'DCAR_010351' => 'dca', 'DCAR_012197' => 'dca', 'DCAR_024162' => 'dca', 'Dinv01030' => 'din', 'Dinv10924' => 'din', 'Dinv11835' => 'din', 'Dinv22841' => 'din', 'Dinv42553' => 'din', 'Duzib052G0560' => 'dzi', 'Duzib132G0389' => 'dzi', 'Duzib150G1181' => 'dzi', 'Duzib168G0623' => 'dzi', 'Duzib170G1036' => 'dzi', 'Duzib212G0200' => 'dzi', 'Duzib248G0194' => 'dzi', 'ECA232G2193' => 'eca', 'ECA233G0302' => 'eca', 'ECA234G2813' => 'eca', 'ECA234G4866' => 'eca', 'ECA240G3932' => 'eca', 'ECA248G0385' => 'eca', 'EL10Ac2g04781' => 'bvu', 'EL10Ac3g06445' => 'bvu', 'EL10Ac7g15825' => 'bvu', 'EL10Ac8g18550' => 'bvu', 'Eucgr.B03849' => 'egr', 'Eucgr.I02744' => 'egr', 'Eucgr.J00264' => 'egr', 'Eucgr.J00493' => 'egr', 'FAN04G2181' => 'fan', 'FAN07G2666' => 'fan', 'FAN11G0024' => 'fan', 'FAN12G1105' => 'fan', 'FAN13G0302' => 'fan', 'FAN15G2781' => 'fan', 'FAN16G1274' => 'fan', 'FAN17G2988' => 'fan', 'FAN18G2621' => 'fan', 'FAN21G0013' => 'fan', 'FAN22G1211' => 'fan', 'FAN25G3626' => 'fan', 'FvH4_2g09491' => 'fve', 'FvH4_3g24910' => 'fve', 'FvH4_4g15630' => 'fve', 'FvH4_5g28820' => 'fve', 'Glyma.01G238000' => 'gma', 'Glyma.05G168400' => 'gma', 'Glyma.08G126800' => 'gma', 'Glyma.08G188500' => 'gma', 'Glyma.10G278900' => 'gma', 'Glyma.11G005700' => 'gma', 'Glyma.11G183300' => 'gma', 'Glyma.12G089200' => 'gma', 'Glyma.12G169400' => 'gma', 'Glyma.12G169500' => 'gma', 'Glyma.12G169600' => 'gma', 'Glyma.20G110800' => 'gma', 'Gohir.A03G192900' => 'ghi', 'Gohir.A03G193000' => 'ghi', 'Gohir.A05G080700' => 'ghi', 'Gohir.A09G216000' => 'ghi', 'Gohir.A12G027700' => 'ghi', 'Gohir.A13G036200' => 'ghi', 'Gohir.A13G222600' => 'ghi', 'Gohir.D02G213900' => 'ghi', 'Gohir.D02G214000' => 'ghi', 'Gohir.D05G083700' => 'ghi', 'Gohir.D05G083800' => 'ghi', 'Gohir.D05G083850' => 'ghi', 'Gohir.D08G015400' => 'ghi', 'Gohir.D09G218400' => 'ghi', 'Gohir.D12G027100' => 'ghi', 'Gohir.D13G034500' => 'ghi', 'Gohir.D13G227400' => 'ghi', 'Gorai.005G241800' => 'gra', 'Gorai.005G241900' => 'gra', 'Gorai.006G239400' => 'gra', 'Gorai.008G027600' => 'gra', 'Gorai.009G085400' => 'gra', 'Gorai.009G085500' => 'gra', 'Gorai.013G039000' => 'gra', 'Gorai.013G194800' => 'gra', 'Gorai.013G257900' => 'gra', 'GSVIVG01000982001' => 'vvi', 'GSVIVG01017981001' => 'vvi', 'HanXRQChr01g0024061' => 'han', 'HanXRQChr09g0247831' => 'han', 'HanXRQChr10g0294611' => 'han', 'HanXRQChr10g0294621' => 'han', 'HanXRQChr11g0346821' => 'han', 'HanXRQChr13g0397461' => 'han', 'HanXRQChr16g0513651' => 'han', 'HanXRQChr16g0513701' => 'han', 'Haze_00897' => 'cav', 'Haze_01745' => 'cav', 'Haze_02486' => 'cav', 'Haze_02487' => 'cav', 'Haze_23374' => 'cav', 'Hma1.2p1_0578F.1_g182520' => 'hma', 'Hma1.2p1_0602F.1_g187350' => 'hma', 'Hma1.2p1_0602F.1_g187360' => 'hma', 'Hma1.2p1_0874F.1_g231320' => 'hma', 'Hma1.2p1_1197F.1_g266210' => 'hma', 'Hma1.2p1_1197F.1_g266220' => 'hma', 'Hma1.2p1_2167F.1_g315895' => 'hma', 'Hma1.2p1_2190F.1_g316640' => 'hma', 'Hma1.2p1_3645F.1_g337153' => 'hma', 'HPP92_004907' => 'vpl', 'HPP92_012134' => 'vpl', 'HPP92_025136' => 'vpl', 'HPP92_026087' => 'vpl', 'Hund06782' => 'sun', 'Hund06784' => 'sun', 'Lalb_Chr01g0004861' => 'lal', 'Lalb_Chr02g0140591' => 'lal', 'Lalb_Chr02g0140611' => 'lal', 'Lalb_Chr03g0028101' => 'lal', 'Lalb_Chr07g0185791' => 'lal', 'Lalb_Chr12g0204491' => 'lal', 'Lalb_Chr13g0295671' => 'lal', 'Lalb_Chr19g0136461' => 'lal', 'Lalb_Chr21g0309191' => 'lal', 'Lj1g0028158' => 'lja', 'Lj1P236T38' => 'lonja', 'Lj2C32G2' => 'lonja', 'Lj2P944T8' => 'lonja', 'Lj2P963T15' => 'lonja', 'Lj3g0011788' => 'lja', 'Lj4g0025027' => 'lja', 'Lj5P255T36' => 'lonja', 'Lj6g0018866' => 'lja', 'Lj6P608T31' => 'lonja', 'LjContig00408g0008879' => 'lja', 'Lsat_1_v5_gn_5_105820' => 'lsa', 'Lsat_1_v5_gn_6_38800' => 'lsa', 'Lsat_1_v5_gn_7_67141' => 'lsa', 'Manes.04G003400' => 'mes', 'Manes.07G020000' => 'mes', 'Manes.07G020100' => 'mes', 'Manes.07G020150' => 'mes', 'Manes.10G061500' => 'mes', 'Manes.10G123200' => 'mes', 'Manes.11G161900' => 'mes', 'Manes.15G029300' => 'mes', 'Mapoly0071s0018' => 'mpo', 'Mapoly0082s0023' => 'mpo', 'Mapoly3477s0001' => 'mpo', 'MBI05_g31233_MAGBIO' => 'mbi', 'MBI09_g05946_MAGBIO' => 'mbi', 'MBI09_g05947_MAGBIO' => 'mbi', 'MBI17_g08346_MAGBIO' => 'mbi', 'MCO04G038' => 'mco', 'MCO09G370' => 'mco', 'MCO13G605' => 'mco', 'MD00G1075500' => 'mdo', 'MD03G1144300' => 'mdo', 'MD08G1236800' => 'mdo', 'MD13G1193300' => 'mdo', 'MD15G1428700' => 'mdo', 'Medtr1g112030' => 'mtr', 'Medtr1g112050' => 'mtr', 'Medtr2g006290' => 'mtr', 'Medtr2g086510' => 'mtr', 'Medtr4g053120' => 'mtr', 'Medtr5g006320' => 'mtr', 'Medtr8g088720' => 'mtr', 'MELO3C004712.2' => 'cme', 'MELO3C006533.2' => 'cme', 'MELO3C019438.2' => 'cme', 'MELO3C019440.2' => 'cme', 'MELO3C019441.2' => 'cme', 'MELO3C019895.2' => 'cme', 'Migut.B00811' => 'egut', 'Migut.D02447' => 'egut', 'Migut.F00875' => 'egut', 'Migut.N00186' => 'egut', 'Migut.N01051' => 'egut', 'Migut.N02491' => 'egut', 'Migut.O00784' => 'egut', 'MSTRG.12367' => 'ama', 'MSTRG.18756' => 'ama', 'MSTRG.21042' => 'ama', 'Nitab4.5_0000559g0040' => 'nta', 'Nitab4.5_0000667g0190' => 'nta', 'Nitab4.5_0000755g0160' => 'nta', 'Nitab4.5_0001216g0080' => 'nta', 'Nitab4.5_0004069g0040' => 'nta', 'Nitab4.5_0004129g0010' => 'nta', 'Nitab4.5_0005744g0030' => 'nta', 'Nitab4.5_0006996g0030' => 'nta', 'Nitab4.5_0008971g0040' => 'nta', 'Nitab4.5_0009769g0020' => 'nta', 'Nitab4.5_0009833g0010' => 'nta', 'Nitab4.5_0013140g0020' => 'nta', 'Nn003s41376' => 'nnu', 'Nn1g01857' => 'nnu', 'Nn1g03611' => 'nnu', 'Nn1g06853' => 'nnu', 'Nn3g18360' => 'nnu', 'Nn4g26328' => 'nnu', 'Nn5g27531' => 'nnu', 'Nn6g34899' => 'nnu', 'Nn7g36299' => 'nnu', 'Oeu021485.1' => 'oeu', 'Oeu022433.1' => 'oeu', 'Oeu032111.1' => 'oeu', 'Oeu051608.1' => 'oeu', 'Os01g0860601' => 'osa', 'Os03g0659200' => 'osa', 'Os03g0835900' => 'osa', 'Os04g0412200' => 'osa', 'Os05g0443500' => 'osa', 'Os07g0251500' => 'osa', 'Os08g0104600' => 'osa', 'Peaxi162Scf00003g00047' => 'pax', 'Peaxi162Scf00003g00052' => 'pax', 'Peaxi162Scf00003g00394' => 'pax', 'Peaxi162Scf00091g00621' => 'pax', 'Peaxi162Scf00152g00146' => 'pax', 'Peaxi162Scf00173g00025' => 'pax', 'Peaxi162Scf00195g00102' => 'pax', 'Peaxi162Scf00402g00013' => 'pax', 'Peaxi162Scf00519g00618' => 'pax', 'PGR004G2838' => 'pgr', 'PGR044G2275' => 'pgr', 'PGR102G1377' => 'pgr', 'PGR119G1245' => 'pgr', 'PGR142G4449' => 'pgr', 'PGSC0003DMG400004532' => 'stu', 'PGSC0003DMG400011950' => 'stu', 'PGSC0003DMG400023391' => 'stu', 'PGSC0003DMG400023985' => 'stu', 'PGSC0003DMG400026360' => 'stu', 'PGSC0003DMG400035711' => 'stu', 'PGSC0003DMG400037286' => 'stu', 'PGSC0003DMG402005881' => 'stu', 'Phvul.002G045400' => 'pvu', 'Phvul.006G216600' => 'pvu', 'Phvul.006G216700' => 'pvu', 'Phvul.006G216800' => 'pvu', 'Phvul.007G022500' => 'pvu', 'Phvul.011G094400' => 'pvu', 'Potri.001G470700' => 'ptr', 'Potri.003G015200' => 'ptr', 'Potri.004G202500' => 'ptr', 'Potri.004G218400' => 'ptr', 'Potri.008G020100' => 'ptr', 'Potri.008G153200' => 'ptr', 'Potri.009G163800' => 'ptr', 'Potri.010G087300' => 'ptr', 'Potri.010G239100' => 'ptr', 'Pp3c10_16100' => 'ppa', 'Pp3c10_16880' => 'ppa', 'Pp3c16_6230' => 'ppa', 'Pp3c17_18910' => 'ppa', 'Pp3c3_22119' => 'ppa', 'Pp3c3_22140' => 'ppa', 'Pp3c4_8159' => 'ppa', 'Pp3c4_8171' => 'ppa', 'Pp3c4_8330' => 'ppa', 'PRCOL_00004098' => 'pco', 'Prupe.1G013900' => 'ppe', 'Prupe.1G226300' => 'ppe', 'Prupe.1G573600' => 'ppe', 'Prupe.6G130100' => 'ppe', 'Psat3g090040' => 'psa', 'Psat4g210440' => 'psa', 'Psat6g231040' => 'psa', 'Psat6g231080' => 'psa', 'Psat7g063000' => 'psa', 'Psat7g188000' => 'psa', 'Psat7g188040' => 'psa', 'PSO017G0206' => 'pso', 'PSO170G0501' => 'pso', 'PSO170G6422' => 'pso', 'PSO210G7739' => 'pso', 'PSO339G1808' => 'pso', 'PSO339G6135' => 'pso', 'PSO384G0010' => 'pso', 'PSO384G0964' => 'pso', 'PSO761G0050' => 'pso', 'PSO782G4085' => 'pso', 'QL01p012264' => 'qlo', 'QL02p099491' => 'qlo', 'QL03p033868' => 'qlo', 'QL04p046678' => 'qlo', 'QL06p002448' => 'qlo', 'RcHm_v2.0_Chr4g0416181' => 'rch', 'RcHm_v2.0_Chr5g0044701' => 'rch', 'RcHm_v2.0_Chr6g0265781' => 'rch', 'RcHm_v2.0_Chr7g0221031' => 'rch', 'Rhsim04G0202000' => 'rsi', 'Rhsim11G0127300' => 'rsi', 'Rhsim13G0111800' => 'rsi', 'Sabra01G0165600' => 'sbr', 'Sabra03G0008300' => 'sbr', 'Sabra04G0136900' => 'sbr', 'Sabra08G0013400' => 'sbr', 'Sabra08G0116800' => 'sbr', 'Sabra09G0128000' => 'sbr', 'Sabra10G0055500' => 'sbr', 'Sabra10G0073300' => 'sbr', 'SalBow3G0385' => 'sbo', 'SalBow3G1119' => 'sbo', 'SalBow3G2005' => 'sbo', 'SalBow6G2563' => 'sbo', 'SalBow6G6386' => 'sbo', 'Sc06g0008800' => 'sci', 'Sc07g0004950' => 'sci', 'Sc09g0005340' => 'sci', 'Sc13g0004410' => 'sci', 'Sc21g0007090' => 'sci', 'Sed0009285' => 'sed', 'Sed0017583' => 'sed', 'Sed0019699' => 'sed', 'Sed0023107' => 'sed', 'SEGI_10916' => 'sgi', 'SEGI_16217' => 'sgi', 'SEGI_19466' => 'sgi', 'SEGI_41115' => 'sgi', 'SGA_v2.0_scaffold111G31534' => 'sas', 'SGA_v2.0_scaffold22G09864' => 'sas', 'SGA_v2.0_scaffold338G49219' => 'sas', 'SGA_v2.0_scaffold92G28298' => 'sas', 'SMO119G0064' => 'smo', 'SMO223G0038' => 'smo', 'SMO347G0584' => 'smo', 'SMO351G0010' => 'smo', 'SMO356G0404' => 'smo', 'Solyc01g103920.3' => 'sly', 'Solyc04g009710.2' => 'sly', 'Solyc05g055280.2' => 'sly', 'Solyc10g044520.3' => 'sly', 'Solyc10g075160.1' => 'sly', 'Solyc11g006910.3' => 'sly', 'Solyc11g068430.3' => 'sly', 'Sopen01g046310' => 'spe', 'Sopen03g001200' => 'spe', 'Sopen04g004830' => 'spe', 'Sopen05g033720' => 'spe', 'Sopen06g030740' => 'spe', 'Sopen10g013090' => 'spe', 'Sopen10g027630' => 'spe', 'Sopen10g027640' => 'spe', 'Sopen11g002820' => 'spe', 'Sopen11g027140' => 'spe', 'Sp1g09680' => 'spa', 'Sp2g03630' => 'spa', 'Sp4g10320' => 'spa', 'Sp6g33400' => 'spa', 'Sp7g13030' => 'spa', 'TAR365G0317' => 'tar', 'TAR376G0979' => 'tar', 'TAR623G1665' => 'tar', 'TAR633G2373' => 'tar', 'TAR636G1400' => 'tar', 'THA.LOC104800529' => 'tha', 'THA.LOC104808547' => 'tha', 'THA.LOC104809615' => 'tha', 'THA.LOC104815724' => 'tha', 'THA.LOC104818480' => 'tha', 'THA.LOC104819179' => 'tha', 'THA.LOC104822270' => 'tha', 'THA.LOC104826425' => 'tha', 'Thecc.02G089700' => 'tca', 'Thecc.04G232300' => 'tca', 'Thecc.09G283400' => 'tca', 'Thhalv10009020m.g' => 'esa', 'Thhalv10015506m.g' => 'esa', 'Thhalv10017364m.g' => 'esa', 'Thhalv10023742m.g' => 'esa', 'Thhalv10026483m.g' => 'esa', 'TPR.G17232' => 'tpr', 'TPR.G2133' => 'tpr', 'TPR.G2498' => 'tpr', 'TPR.G31942' => 'tpr', 'TPR.G37877' => 'tpr', 'TPR.G4571' => 'tpr', 'TWI14G1113' => 'twi', 'TWI15G0426' => 'twi', 'TWI31G1005' => 'twi', 'TWI38G0513' => 'twi', 'TWI38G1484' => 'twi', 'TWI73G1098' => 'twi', 'unitig_26.g10519' => 'ugi', 'unitig_736.g22395' => 'ugi', 'unitig_747.g21234' => 'ugi', 'unitig_747.g21942' => 'ugi', 'vmacro14351' => 'vma', 'VMungo0540G0082' => 'vmu', 'VMungo0540G0405' => 'vmu', 'VMungo0540G1486' => 'vmu', 'VMungo0540G1692' => 'vmu', 'VMungo0720G2473' => 'vmu', 'VMungo1127G1562' => 'vmu', 'VMungo1215G1918' => 'vmu', 'Zm00001eb052650' => 'zma', 'Zm00001eb063710' => 'zma', 'Zm00001eb083950' => 'zma', 'Zm00001eb174420' => 'zma', 'Zm00001eb260140' => 'zma', 'Zm00001eb260150' => 'zma', 'Zm00001eb260160' => 'zma', 'Zm00001eb348290' => 'zma', 'Zm00001eb366870' => 'zma', 'Zm00001eb421930' => 'zma' ) $gf_id = 'HOM05D001025' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001025' ) $data_identifier = 'HOM05D001025' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 19, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 2, 'amhyb' => (int) 4, 'aly' => (int) 4, 'aox' => (int) 4, 'arhy' => (int) 3, 'ath' => (int) 5, 'atr' => (int) 4, 'acertr' => (int) 3, 'cqu' => (int) 7, 'bca' => (int) 17, 'bol' => (int) 10, 'bra' => (int) 9, 'can' => (int) 10, 'cansat' => (int) 6, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 5, 'cbr' => (int) 5, 'ccan' => (int) 5, 'cde' => (int) 4, 'cfa' => (int) 3, 'ccl' => (int) 6, 'cil' => (int) 4, 'cla' => (int) 3, 'col' => (int) 3, 'cpa' => (int) 3, 'cre' => (int) 7, 'csa' => (int) 5, 'camsi' => (int) 9, 'dca' => (int) 4, 'din' => (int) 5, 'dzi' => (int) 7, 'eca' => (int) 6, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 12, 'fve' => (int) 4, 'gma' => (int) 12, 'ghi' => (int) 17, 'gra' => (int) 9, 'vvi' => (int) 2, 'han' => (int) 8, 'cav' => (int) 5, 'hma' => (int) 9, 'vpl' => (int) 4, 'sun' => (int) 2, 'lal' => (int) 9, 'lja' => (int) 5, 'lonja' => (int) 6, 'lsa' => (int) 3, 'mes' => (int) 8, 'mpo' => (int) 3, 'mbi' => (int) 4, 'mco' => (int) 3, 'mdo' => (int) 5, 'mtr' => (int) 7, 'cme' => (int) 6, 'egut' => (int) 7, 'ama' => (int) 3, 'nta' => (int) 12, 'nnu' => (int) 9, 'oeu' => (int) 4, 'osa' => (int) 7, 'pax' => (int) 9, 'pgr' => (int) 5, 'stu' => (int) 8, 'pvu' => (int) 6, 'ptr' => (int) 9, 'ppa' => (int) 9, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 7, 'pso' => (int) 10, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 3, 'sbr' => (int) 8, 'sbo' => (int) 5, 'sci' => (int) 5, 'sed' => (int) 4, 'sgi' => (int) 4, 'sas' => (int) 4, 'smo' => (int) 5, 'sly' => (int) 7, 'spe' => (int) 10, 'spa' => (int) 5, 'tar' => (int) 5, 'tha' => (int) 8, 'tca' => (int) 3, 'esa' => (int) 5, 'tpr' => (int) 6, 'twi' => (int) 6, 'ugi' => (int) 4, 'vma' => (int) 1, 'vmu' => (int) 7, 'zma' => (int) 10 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb421930' $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' => 'HOM05D001025', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '592', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p22650' => 'bna', 'A01p29720' => 'bna', 'A03p26560' => 'bna', 'A03p68820' => 'bna', 'A04p20980' => 'bna', 'A06p07730' => 'bna', 'A07p18260' => 'bna', 'A08p33710' => 'bna', 'A09p16970' => 'bna', 'A10p27490' => 'bna', 'Aa31LG1G17300' => 'aar', 'Aa31LG1G3910' => 'aar', 'Aa31LG2G9630' => 'aar', 'Aa31LG5G8360' => 'aar', 'Aa31LG9G2410' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4699' => 'aag', 'Actinidia23512' => 'ach', 'Actinidia37080' => 'ach', 'Ah.01g020380' => 'amhyb', 'Ah.08g215710' => 'amhyb', 'Ah.09g225110' => 'amhyb', 'Ah.10g036680' => 'amhyb', 'AL1G21940' => 'aly', 'AL2G15540' => 'aly', 'AL4G21520' => 'aly', 'AL7G40960' => 'aly', 'Aqoxy2G01191' => 'aox', 'Aqoxy2G03393' => 'aox', 'Aqoxy4G02775' => 'aox', 'Aqoxy6G00058' => 'aox', 'arahy.Tifrunner.gnm1.ann1.9X74H2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CW3FX9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R485W7' => 'arhy', 'AT1G10960' => 'ath', 'AT1G60950' => 'ath', 'AT2G27510' => 'ath', 'AT4G14890' => 'ath', 'AT5G10000' => 'ath', 'ATR0665G624' => 'atr', 'ATR0697G138' => 'atr', 'ATR0776G046' => 'atr', 'ATR1134G135' => 'atr', 'Atru.chr12.1025' => 'acertr', 'Atru.chr3.3241' => 'acertr', 'Atru.chr4.2460' => 'acertr', 'AUR62007427' => 'cqu', 'AUR62010960' => 'cqu', 'AUR62012201' => 'cqu', 'AUR62021470' => 'cqu', 'AUR62022834' => 'cqu', 'AUR62033635' => 'cqu', 'AUR62036186' => 'cqu', 'BcaB01g03077' => 'bca', 'BcaB02g10093' => 'bca', 'BcaB04g20295' => 'bca', 'BcaB06g28147' => 'bca', 'BcaB07g31253' => 'bca', 'BcaC01g04946' => 'bca', 'BcaC02g10614' => 'bca', 'BcaC02g10885' => 'bca', 'BcaC04g19356' => 'bca', 'BcaC04g22297' => 'bca', 'BcaC05g24977' => 'bca', 'BcaC06g31823' => 'bca', 'BcaC07g38633' => 'bca', 'BcaC09g49353' => 'bca', 'BcaC09g50168' => 'bca', 'BcaNung00322' => 'bca', 'BcaNung04769' => 'bca', 'BolC1t02753H' => 'bol', 'BolC1t03721H' => 'bol', 'BolC3t15525H' => 'bol', 'BolC4t23903H' => 'bol', 'BolC4t24231H' => 'bol', 'BolC4t27209H' => 'bol', 'BolC5t29671H' => 'bol', 'BolC8t49044H' => 'bol', 'BolC9t54999H' => 'bol', 'BolC9t59517H' => 'bol', 'BraA01t02178Z' => 'bra', 'BraA01t03099Z' => 'bra', 'BraA03t11867Z' => 'bra', 'BraA04t17667Z' => 'bra', 'BraA07t29542Z' => 'bra', 'BraA08t35287Z' => 'bra', 'BraA09t37334Z' => 'bra', 'BraA10t44801Z' => 'bra', 'BraSC39t46181Z' => 'bra', 'C01p28240' => 'bna', 'C01p37530' => 'bna', 'C03p31820' => 'bna', 'C04p24080' => 'bna', 'C04p25790' => 'bna', 'C04p56770' => 'bna', 'C05p09310' => 'bna', 'C09p21010' => 'bna', 'C09p67560' => 'bna', 'CAN.G1324.7' => 'can', 'CAN.G1358.10' => 'can', 'CAN.G1550.2' => 'can', 'CAN.G186.56' => 'can', 'CAN.G1965.1' => 'can', 'CAN.G645.15' => 'can', 'CAN.G798.26' => 'can', 'CAN.G798.27' => 'can', 'CAN.G798.29' => 'can', 'CAN.G919.31' => 'can', 'CANSAT11G0133' => 'cansat', 'CANSAT11G1171' => 'cansat', 'CANSAT11G2056' => 'cansat', 'CANSAT56G1202' => 'cansat', 'CANSAT56G1514' => 'cansat', 'CANSAT78G0455' => 'cansat', 'CARHR011190' => 'chi', 'CARHR051980' => 'chi', 'CARHR120170' => 'chi', 'CARHR203310' => 'chi', 'CARHR221490' => 'chi', 'Carub.0001s1054' => 'cru', 'Carub.0002s0431' => 'cru', 'Carub.0004s0818' => 'cru', 'Carub.0006s0846' => 'cru', 'Carub.0007s2722' => 'cru', 'Ca_00058_v3' => 'car', 'Ca_17831_v3' => 'car', 'Ca_19408_v3' => 'car', 'Ca_24397_v3' => 'car', 'Ca_25664_v3' => 'car', 'CBR_g21818' => 'cbr', 'CBR_g31195' => 'cbr', 'CBR_g32282' => 'cbr', 'CBR_g39599' => 'cbr', 'CBR_g49410' => 'cbr', 'Cc01_g09120' => 'ccan', 'Cc01_g09130' => 'ccan', 'Cc02_g09630' => 'ccan', 'Cc02_g22810' => 'ccan', 'Cc03_g03810' => 'ccan', 'CDE02G3718' => 'cde', 'CDE04G3183' => 'cde', 'CDE07G1046' => 'cde', 'CDE08G0480' => 'cde', 'Cfa005493' => 'cfa', 'Cfa010312' => 'cfa', 'Cfa015648' => 'cfa', 'Ciclev10002793m.g' => 'ccl', 'Ciclev10003356m.g' => 'ccl', 'Ciclev10006141m.g' => 'ccl', 'Ciclev10016676m.g' => 'ccl', 'Ciclev10017081m.g' => 'ccl', 'Ciclev10029499m.g' => 'ccl', 'CiPaw.01G166300' => 'cil', 'CiPaw.06G145600' => 'cil', 'CiPaw.13G040100' => 'cil', 'CiPaw.13G135800' => 'cil', 'ClCG01G012230' => 'cla', 'ClCG05G009510' => 'cla', 'ClCG08G008270' => 'cla', 'COL.COLO4_11763' => 'col', 'COL.COLO4_19876' => 'col', 'COL.COLO4_21481' => 'col', 'Cpa.g.sc118.34' => 'cpa', 'Cpa.g.sc32.13' => 'cpa', 'Cpa.g.sc58.103' => 'cpa', 'Cre03.g183850' => 'cre', 'Cre06.g306350' => 'cre', 'Cre07.g334800' => 'cre', 'Cre12.g487900' => 'cre', 'Cre14.g626700' => 'cre', 'Cre16.g658400' => 'cre', 'Cre17.g700950' => 'cre', 'CsaV3_1G014830' => 'csa', 'CsaV3_3G013320' => 'csa', 'CsaV3_3G019210' => 'csa', 'CsaV3_3G019220' => 'csa', 'CsaV3_6G004230' => 'csa', 'CSS0003773' => 'camsi', 'CSS0004563' => 'camsi', 'CSS0013949' => 'camsi', 'CSS0025971' => 'camsi', 'CSS0028570' => 'camsi', 'CSS0033127' => 'camsi', 'CSS0036051' => 'camsi', 'CSS0040087' => 'camsi', 'CSS0043179' => 'camsi', 'DCAR_006161' => 'dca', 'DCAR_010351' => 'dca', 'DCAR_012197' => 'dca', 'DCAR_024162' => 'dca', 'Dinv01030' => 'din', 'Dinv10924' => 'din', 'Dinv11835' => 'din', 'Dinv22841' => 'din', 'Dinv42553' => 'din', 'Duzib052G0560' => 'dzi', 'Duzib132G0389' => 'dzi', 'Duzib150G1181' => 'dzi', 'Duzib168G0623' => 'dzi', 'Duzib170G1036' => 'dzi', 'Duzib212G0200' => 'dzi', 'Duzib248G0194' => 'dzi', 'ECA232G2193' => 'eca', 'ECA233G0302' => 'eca', 'ECA234G2813' => 'eca', 'ECA234G4866' => 'eca', 'ECA240G3932' => 'eca', 'ECA248G0385' => 'eca', 'EL10Ac2g04781' => 'bvu', 'EL10Ac3g06445' => 'bvu', 'EL10Ac7g15825' => 'bvu', 'EL10Ac8g18550' => 'bvu', 'Eucgr.B03849' => 'egr', 'Eucgr.I02744' => 'egr', 'Eucgr.J00264' => 'egr', 'Eucgr.J00493' => 'egr', 'FAN04G2181' => 'fan', 'FAN07G2666' => 'fan', 'FAN11G0024' => 'fan', 'FAN12G1105' => 'fan', 'FAN13G0302' => 'fan', 'FAN15G2781' => 'fan', 'FAN16G1274' => 'fan', 'FAN17G2988' => 'fan', 'FAN18G2621' => 'fan', 'FAN21G0013' => 'fan', 'FAN22G1211' => 'fan', 'FAN25G3626' => 'fan', 'FvH4_2g09491' => 'fve', 'FvH4_3g24910' => 'fve', 'FvH4_4g15630' => 'fve', 'FvH4_5g28820' => 'fve', 'Glyma.01G238000' => 'gma', 'Glyma.05G168400' => 'gma', 'Glyma.08G126800' => 'gma', 'Glyma.08G188500' => 'gma', 'Glyma.10G278900' => 'gma', 'Glyma.11G005700' => 'gma', 'Glyma.11G183300' => 'gma', 'Glyma.12G089200' => 'gma', 'Glyma.12G169400' => 'gma', 'Glyma.12G169500' => 'gma', 'Glyma.12G169600' => 'gma', 'Glyma.20G110800' => 'gma', 'Gohir.A03G192900' => 'ghi', 'Gohir.A03G193000' => 'ghi', 'Gohir.A05G080700' => 'ghi', 'Gohir.A09G216000' => 'ghi', 'Gohir.A12G027700' => 'ghi', 'Gohir.A13G036200' => 'ghi', 'Gohir.A13G222600' => 'ghi', 'Gohir.D02G213900' => 'ghi', 'Gohir.D02G214000' => 'ghi', 'Gohir.D05G083700' => 'ghi', 'Gohir.D05G083800' => 'ghi', 'Gohir.D05G083850' => 'ghi', 'Gohir.D08G015400' => 'ghi', 'Gohir.D09G218400' => 'ghi', 'Gohir.D12G027100' => 'ghi', 'Gohir.D13G034500' => 'ghi', 'Gohir.D13G227400' => 'ghi', 'Gorai.005G241800' => 'gra', 'Gorai.005G241900' => 'gra', 'Gorai.006G239400' => 'gra', 'Gorai.008G027600' => 'gra', 'Gorai.009G085400' => 'gra', 'Gorai.009G085500' => 'gra', 'Gorai.013G039000' => 'gra', 'Gorai.013G194800' => 'gra', 'Gorai.013G257900' => 'gra', 'GSVIVG01000982001' => 'vvi', 'GSVIVG01017981001' => 'vvi', 'HanXRQChr01g0024061' => 'han', 'HanXRQChr09g0247831' => 'han', 'HanXRQChr10g0294611' => 'han', 'HanXRQChr10g0294621' => 'han', 'HanXRQChr11g0346821' => 'han', 'HanXRQChr13g0397461' => 'han', 'HanXRQChr16g0513651' => 'han', 'HanXRQChr16g0513701' => 'han', 'Haze_00897' => 'cav', 'Haze_01745' => 'cav', 'Haze_02486' => 'cav', 'Haze_02487' => 'cav', 'Haze_23374' => 'cav', 'Hma1.2p1_0578F.1_g182520' => 'hma', 'Hma1.2p1_0602F.1_g187350' => 'hma', 'Hma1.2p1_0602F.1_g187360' => 'hma', 'Hma1.2p1_0874F.1_g231320' => 'hma', 'Hma1.2p1_1197F.1_g266210' => 'hma', 'Hma1.2p1_1197F.1_g266220' => 'hma', 'Hma1.2p1_2167F.1_g315895' => 'hma', 'Hma1.2p1_2190F.1_g316640' => 'hma', 'Hma1.2p1_3645F.1_g337153' => 'hma', 'HPP92_004907' => 'vpl', 'HPP92_012134' => 'vpl', 'HPP92_025136' => 'vpl', 'HPP92_026087' => 'vpl', 'Hund06782' => 'sun', 'Hund06784' => 'sun', 'Lalb_Chr01g0004861' => 'lal', 'Lalb_Chr02g0140591' => 'lal', 'Lalb_Chr02g0140611' => 'lal', 'Lalb_Chr03g0028101' => 'lal', 'Lalb_Chr07g0185791' => 'lal', 'Lalb_Chr12g0204491' => 'lal', 'Lalb_Chr13g0295671' => 'lal', 'Lalb_Chr19g0136461' => 'lal', 'Lalb_Chr21g0309191' => 'lal', 'Lj1g0028158' => 'lja', 'Lj1P236T38' => 'lonja', 'Lj2C32G2' => 'lonja', 'Lj2P944T8' => 'lonja', 'Lj2P963T15' => 'lonja', 'Lj3g0011788' => 'lja', 'Lj4g0025027' => 'lja', 'Lj5P255T36' => 'lonja', 'Lj6g0018866' => 'lja', 'Lj6P608T31' => 'lonja', 'LjContig00408g0008879' => 'lja', 'Lsat_1_v5_gn_5_105820' => 'lsa', 'Lsat_1_v5_gn_6_38800' => 'lsa', 'Lsat_1_v5_gn_7_67141' => 'lsa', 'Manes.04G003400' => 'mes', 'Manes.07G020000' => 'mes', 'Manes.07G020100' => 'mes', 'Manes.07G020150' => 'mes', 'Manes.10G061500' => 'mes', 'Manes.10G123200' => 'mes', 'Manes.11G161900' => 'mes', 'Manes.15G029300' => 'mes', 'Mapoly0071s0018' => 'mpo', 'Mapoly0082s0023' => 'mpo', 'Mapoly3477s0001' => 'mpo', 'MBI05_g31233_MAGBIO' => 'mbi', 'MBI09_g05946_MAGBIO' => 'mbi', 'MBI09_g05947_MAGBIO' => 'mbi', 'MBI17_g08346_MAGBIO' => 'mbi', 'MCO04G038' => 'mco', 'MCO09G370' => 'mco', 'MCO13G605' => 'mco', 'MD00G1075500' => 'mdo', 'MD03G1144300' => 'mdo', 'MD08G1236800' => 'mdo', 'MD13G1193300' => 'mdo', 'MD15G1428700' => 'mdo', 'Medtr1g112030' => 'mtr', 'Medtr1g112050' => 'mtr', 'Medtr2g006290' => 'mtr', 'Medtr2g086510' => 'mtr', 'Medtr4g053120' => 'mtr', 'Medtr5g006320' => 'mtr', 'Medtr8g088720' => 'mtr', 'MELO3C004712.2' => 'cme', 'MELO3C006533.2' => 'cme', 'MELO3C019438.2' => 'cme', 'MELO3C019440.2' => 'cme', 'MELO3C019441.2' => 'cme', 'MELO3C019895.2' => 'cme', 'Migut.B00811' => 'egut', 'Migut.D02447' => 'egut', 'Migut.F00875' => 'egut', 'Migut.N00186' => 'egut', 'Migut.N01051' => 'egut', 'Migut.N02491' => 'egut', 'Migut.O00784' => 'egut', 'MSTRG.12367' => 'ama', 'MSTRG.18756' => 'ama', 'MSTRG.21042' => 'ama', 'Nitab4.5_0000559g0040' => 'nta', 'Nitab4.5_0000667g0190' => 'nta', 'Nitab4.5_0000755g0160' => 'nta', 'Nitab4.5_0001216g0080' => 'nta', 'Nitab4.5_0004069g0040' => 'nta', 'Nitab4.5_0004129g0010' => 'nta', 'Nitab4.5_0005744g0030' => 'nta', 'Nitab4.5_0006996g0030' => 'nta', 'Nitab4.5_0008971g0040' => 'nta', 'Nitab4.5_0009769g0020' => 'nta', 'Nitab4.5_0009833g0010' => 'nta', 'Nitab4.5_0013140g0020' => 'nta', 'Nn003s41376' => 'nnu', 'Nn1g01857' => 'nnu', 'Nn1g03611' => 'nnu', 'Nn1g06853' => 'nnu', 'Nn3g18360' => 'nnu', 'Nn4g26328' => 'nnu', 'Nn5g27531' => 'nnu', 'Nn6g34899' => 'nnu', 'Nn7g36299' => 'nnu', 'Oeu021485.1' => 'oeu', 'Oeu022433.1' => 'oeu', 'Oeu032111.1' => 'oeu', 'Oeu051608.1' => 'oeu', 'Os01g0860601' => 'osa', 'Os03g0659200' => 'osa', 'Os03g0835900' => 'osa', 'Os04g0412200' => 'osa', 'Os05g0443500' => 'osa', 'Os07g0251500' => 'osa', 'Os08g0104600' => 'osa', 'Peaxi162Scf00003g00047' => 'pax', 'Peaxi162Scf00003g00052' => 'pax', 'Peaxi162Scf00003g00394' => 'pax', 'Peaxi162Scf00091g00621' => 'pax', 'Peaxi162Scf00152g00146' => 'pax', 'Peaxi162Scf00173g00025' => 'pax', 'Peaxi162Scf00195g00102' => 'pax', 'Peaxi162Scf00402g00013' => 'pax', 'Peaxi162Scf00519g00618' => 'pax', 'PGR004G2838' => 'pgr', 'PGR044G2275' => 'pgr', 'PGR102G1377' => 'pgr', 'PGR119G1245' => 'pgr', 'PGR142G4449' => 'pgr', 'PGSC0003DMG400004532' => 'stu', 'PGSC0003DMG400011950' => 'stu', 'PGSC0003DMG400023391' => 'stu', 'PGSC0003DMG400023985' => 'stu', 'PGSC0003DMG400026360' => 'stu', 'PGSC0003DMG400035711' => 'stu', 'PGSC0003DMG400037286' => 'stu', 'PGSC0003DMG402005881' => 'stu', 'Phvul.002G045400' => 'pvu', 'Phvul.006G216600' => 'pvu', 'Phvul.006G216700' => 'pvu', 'Phvul.006G216800' => 'pvu', 'Phvul.007G022500' => 'pvu', 'Phvul.011G094400' => 'pvu', 'Potri.001G470700' => 'ptr', 'Potri.003G015200' => 'ptr', 'Potri.004G202500' => 'ptr', 'Potri.004G218400' => 'ptr', 'Potri.008G020100' => 'ptr', 'Potri.008G153200' => 'ptr', 'Potri.009G163800' => 'ptr', 'Potri.010G087300' => 'ptr', 'Potri.010G239100' => 'ptr', 'Pp3c10_16100' => 'ppa', 'Pp3c10_16880' => 'ppa', 'Pp3c16_6230' => 'ppa', 'Pp3c17_18910' => 'ppa', 'Pp3c3_22119' => 'ppa', 'Pp3c3_22140' => 'ppa', 'Pp3c4_8159' => 'ppa', 'Pp3c4_8171' => 'ppa', 'Pp3c4_8330' => 'ppa', 'PRCOL_00004098' => 'pco', 'Prupe.1G013900' => 'ppe', 'Prupe.1G226300' => 'ppe', 'Prupe.1G573600' => 'ppe', 'Prupe.6G130100' => 'ppe', 'Psat3g090040' => 'psa', 'Psat4g210440' => 'psa', 'Psat6g231040' => 'psa', 'Psat6g231080' => 'psa', 'Psat7g063000' => 'psa', 'Psat7g188000' => 'psa', 'Psat7g188040' => 'psa', 'PSO017G0206' => 'pso', 'PSO170G0501' => 'pso', 'PSO170G6422' => 'pso', 'PSO210G7739' => 'pso', 'PSO339G1808' => 'pso', 'PSO339G6135' => 'pso', 'PSO384G0010' => 'pso', 'PSO384G0964' => 'pso', 'PSO761G0050' => 'pso', 'PSO782G4085' => 'pso', 'QL01p012264' => 'qlo', 'QL02p099491' => 'qlo', 'QL03p033868' => 'qlo', 'QL04p046678' => 'qlo', 'QL06p002448' => 'qlo', 'RcHm_v2.0_Chr4g0416181' => 'rch', 'RcHm_v2.0_Chr5g0044701' => 'rch', 'RcHm_v2.0_Chr6g0265781' => 'rch', 'RcHm_v2.0_Chr7g0221031' => 'rch', 'Rhsim04G0202000' => 'rsi', 'Rhsim11G0127300' => 'rsi', 'Rhsim13G0111800' => 'rsi', 'Sabra01G0165600' => 'sbr', 'Sabra03G0008300' => 'sbr', 'Sabra04G0136900' => 'sbr', 'Sabra08G0013400' => 'sbr', 'Sabra08G0116800' => 'sbr', 'Sabra09G0128000' => 'sbr', 'Sabra10G0055500' => 'sbr', 'Sabra10G0073300' => 'sbr', 'SalBow3G0385' => 'sbo', 'SalBow3G1119' => 'sbo', 'SalBow3G2005' => 'sbo', 'SalBow6G2563' => 'sbo', 'SalBow6G6386' => 'sbo', 'Sc06g0008800' => 'sci', 'Sc07g0004950' => 'sci', 'Sc09g0005340' => 'sci', 'Sc13g0004410' => 'sci', 'Sc21g0007090' => 'sci', 'Sed0009285' => 'sed', 'Sed0017583' => 'sed', 'Sed0019699' => 'sed', 'Sed0023107' => 'sed', 'SEGI_10916' => 'sgi', 'SEGI_16217' => 'sgi', 'SEGI_19466' => 'sgi', 'SEGI_41115' => 'sgi', 'SGA_v2.0_scaffold111G31534' => 'sas', 'SGA_v2.0_scaffold22G09864' => 'sas', 'SGA_v2.0_scaffold338G49219' => 'sas', 'SGA_v2.0_scaffold92G28298' => 'sas', 'SMO119G0064' => 'smo', 'SMO223G0038' => 'smo', 'SMO347G0584' => 'smo', 'SMO351G0010' => 'smo', 'SMO356G0404' => 'smo', 'Solyc01g103920.3' => 'sly', 'Solyc04g009710.2' => 'sly', 'Solyc05g055280.2' => 'sly', 'Solyc10g044520.3' => 'sly', 'Solyc10g075160.1' => 'sly', 'Solyc11g006910.3' => 'sly', 'Solyc11g068430.3' => 'sly', 'Sopen01g046310' => 'spe', 'Sopen03g001200' => 'spe', 'Sopen04g004830' => 'spe', 'Sopen05g033720' => 'spe', 'Sopen06g030740' => 'spe', 'Sopen10g013090' => 'spe', 'Sopen10g027630' => 'spe', 'Sopen10g027640' => 'spe', 'Sopen11g002820' => 'spe', 'Sopen11g027140' => 'spe', 'Sp1g09680' => 'spa', 'Sp2g03630' => 'spa', 'Sp4g10320' => 'spa', 'Sp6g33400' => 'spa', 'Sp7g13030' => 'spa', 'TAR365G0317' => 'tar', 'TAR376G0979' => 'tar', 'TAR623G1665' => 'tar', 'TAR633G2373' => 'tar', 'TAR636G1400' => 'tar', 'THA.LOC104800529' => 'tha', 'THA.LOC104808547' => 'tha', 'THA.LOC104809615' => 'tha', 'THA.LOC104815724' => 'tha', 'THA.LOC104818480' => 'tha', 'THA.LOC104819179' => 'tha', 'THA.LOC104822270' => 'tha', 'THA.LOC104826425' => 'tha', 'Thecc.02G089700' => 'tca', 'Thecc.04G232300' => 'tca', 'Thecc.09G283400' => 'tca', 'Thhalv10009020m.g' => 'esa', 'Thhalv10015506m.g' => 'esa', 'Thhalv10017364m.g' => 'esa', 'Thhalv10023742m.g' => 'esa', 'Thhalv10026483m.g' => 'esa', 'TPR.G17232' => 'tpr', 'TPR.G2133' => 'tpr', 'TPR.G2498' => 'tpr', 'TPR.G31942' => 'tpr', 'TPR.G37877' => 'tpr', 'TPR.G4571' => 'tpr', 'TWI14G1113' => 'twi', 'TWI15G0426' => 'twi', 'TWI31G1005' => 'twi', 'TWI38G0513' => 'twi', 'TWI38G1484' => 'twi', 'TWI73G1098' => 'twi', 'unitig_26.g10519' => 'ugi', 'unitig_736.g22395' => 'ugi', 'unitig_747.g21234' => 'ugi', 'unitig_747.g21942' => 'ugi', 'vmacro14351' => 'vma', 'VMungo0540G0082' => 'vmu', 'VMungo0540G0405' => 'vmu', 'VMungo0540G1486' => 'vmu', 'VMungo0540G1692' => 'vmu', 'VMungo0720G2473' => 'vmu', 'VMungo1127G1562' => 'vmu', 'VMungo1215G1918' => 'vmu', 'Zm00001eb052650' => 'zma', 'Zm00001eb063710' => 'zma', 'Zm00001eb083950' => 'zma', 'Zm00001eb174420' => 'zma', 'Zm00001eb260140' => 'zma', 'Zm00001eb260150' => 'zma', 'Zm00001eb260160' => 'zma', 'Zm00001eb348290' => 'zma', 'Zm00001eb366870' => 'zma', 'Zm00001eb421930' => 'zma' ), 'gf_id' => 'HOM05D001025', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001025' ), 'data_identifier' => 'HOM05D001025', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001025', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '592', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p22650' => 'bna', 'A01p29720' => 'bna', 'A03p26560' => 'bna', 'A03p68820' => 'bna', 'A04p20980' => 'bna', 'A06p07730' => 'bna', 'A07p18260' => 'bna', 'A08p33710' => 'bna', 'A09p16970' => 'bna', 'A10p27490' => 'bna', 'Aa31LG1G17300' => 'aar', 'Aa31LG1G3910' => 'aar', 'Aa31LG2G9630' => 'aar', 'Aa31LG5G8360' => 'aar', 'Aa31LG9G2410' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4699' => 'aag', 'Actinidia23512' => 'ach', 'Actinidia37080' => 'ach', 'Ah.01g020380' => 'amhyb', 'Ah.08g215710' => 'amhyb', 'Ah.09g225110' => 'amhyb', 'Ah.10g036680' => 'amhyb', 'AL1G21940' => 'aly', 'AL2G15540' => 'aly', 'AL4G21520' => 'aly', 'AL7G40960' => 'aly', 'Aqoxy2G01191' => 'aox', 'Aqoxy2G03393' => 'aox', 'Aqoxy4G02775' => 'aox', 'Aqoxy6G00058' => 'aox', 'arahy.Tifrunner.gnm1.ann1.9X74H2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CW3FX9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R485W7' => 'arhy', 'AT1G10960' => 'ath', 'AT1G60950' => 'ath', 'AT2G27510' => 'ath', 'AT4G14890' => 'ath', 'AT5G10000' => 'ath', 'ATR0665G624' => 'atr', 'ATR0697G138' => 'atr', 'ATR0776G046' => 'atr', 'ATR1134G135' => 'atr', 'Atru.chr12.1025' => 'acertr', 'Atru.chr3.3241' => 'acertr', 'Atru.chr4.2460' => 'acertr', 'AUR62007427' => 'cqu', 'AUR62010960' => 'cqu', 'AUR62012201' => 'cqu', 'AUR62021470' => 'cqu', 'AUR62022834' => 'cqu', 'AUR62033635' => 'cqu', 'AUR62036186' => 'cqu', 'BcaB01g03077' => 'bca', 'BcaB02g10093' => 'bca', 'BcaB04g20295' => 'bca', 'BcaB06g28147' => 'bca', 'BcaB07g31253' => 'bca', 'BcaC01g04946' => 'bca', 'BcaC02g10614' => 'bca', 'BcaC02g10885' => 'bca', 'BcaC04g19356' => 'bca', 'BcaC04g22297' => 'bca', 'BcaC05g24977' => 'bca', 'BcaC06g31823' => 'bca', 'BcaC07g38633' => 'bca', 'BcaC09g49353' => 'bca', 'BcaC09g50168' => 'bca', 'BcaNung00322' => 'bca', 'BcaNung04769' => 'bca', 'BolC1t02753H' => 'bol', 'BolC1t03721H' => 'bol', 'BolC3t15525H' => 'bol', 'BolC4t23903H' => 'bol', 'BolC4t24231H' => 'bol', 'BolC4t27209H' => 'bol', 'BolC5t29671H' => 'bol', 'BolC8t49044H' => 'bol', 'BolC9t54999H' => 'bol', 'BolC9t59517H' => 'bol', 'BraA01t02178Z' => 'bra', 'BraA01t03099Z' => 'bra', 'BraA03t11867Z' => 'bra', 'BraA04t17667Z' => 'bra', 'BraA07t29542Z' => 'bra', 'BraA08t35287Z' => 'bra', 'BraA09t37334Z' => 'bra', 'BraA10t44801Z' => 'bra', 'BraSC39t46181Z' => 'bra', 'C01p28240' => 'bna', 'C01p37530' => 'bna', 'C03p31820' => 'bna', 'C04p24080' => 'bna', 'C04p25790' => 'bna', 'C04p56770' => 'bna', 'C05p09310' => 'bna', 'C09p21010' => 'bna', 'C09p67560' => 'bna', 'CAN.G1324.7' => 'can', 'CAN.G1358.10' => 'can', 'CAN.G1550.2' => 'can', 'CAN.G186.56' => 'can', 'CAN.G1965.1' => 'can', 'CAN.G645.15' => 'can', 'CAN.G798.26' => 'can', 'CAN.G798.27' => 'can', 'CAN.G798.29' => 'can', 'CAN.G919.31' => 'can', 'CANSAT11G0133' => 'cansat', 'CANSAT11G1171' => 'cansat', 'CANSAT11G2056' => 'cansat', 'CANSAT56G1202' => 'cansat', 'CANSAT56G1514' => 'cansat', 'CANSAT78G0455' => 'cansat', 'CARHR011190' => 'chi', 'CARHR051980' => 'chi', 'CARHR120170' => 'chi', 'CARHR203310' => 'chi', 'CARHR221490' => 'chi', 'Carub.0001s1054' => 'cru', 'Carub.0002s0431' => 'cru', 'Carub.0004s0818' => 'cru', 'Carub.0006s0846' => 'cru', 'Carub.0007s2722' => 'cru', 'Ca_00058_v3' => 'car', 'Ca_17831_v3' => 'car', 'Ca_19408_v3' => 'car', 'Ca_24397_v3' => 'car', 'Ca_25664_v3' => 'car', 'CBR_g21818' => 'cbr', 'CBR_g31195' => 'cbr', 'CBR_g32282' => 'cbr', 'CBR_g39599' => 'cbr', 'CBR_g49410' => 'cbr', 'Cc01_g09120' => 'ccan', 'Cc01_g09130' => 'ccan', 'Cc02_g09630' => 'ccan', 'Cc02_g22810' => 'ccan', 'Cc03_g03810' => 'ccan', 'CDE02G3718' => 'cde', 'CDE04G3183' => 'cde', 'CDE07G1046' => 'cde', 'CDE08G0480' => 'cde', 'Cfa005493' => 'cfa', 'Cfa010312' => 'cfa', 'Cfa015648' => 'cfa', 'Ciclev10002793m.g' => 'ccl', 'Ciclev10003356m.g' => 'ccl', 'Ciclev10006141m.g' => 'ccl', 'Ciclev10016676m.g' => 'ccl', 'Ciclev10017081m.g' => 'ccl', 'Ciclev10029499m.g' => 'ccl', 'CiPaw.01G166300' => 'cil', 'CiPaw.06G145600' => 'cil', 'CiPaw.13G040100' => 'cil', 'CiPaw.13G135800' => 'cil', 'ClCG01G012230' => 'cla', 'ClCG05G009510' => 'cla', 'ClCG08G008270' => 'cla', 'COL.COLO4_11763' => 'col', 'COL.COLO4_19876' => 'col', 'COL.COLO4_21481' => 'col', 'Cpa.g.sc118.34' => 'cpa', 'Cpa.g.sc32.13' => 'cpa', 'Cpa.g.sc58.103' => 'cpa', 'Cre03.g183850' => 'cre', 'Cre06.g306350' => 'cre', 'Cre07.g334800' => 'cre', 'Cre12.g487900' => 'cre', 'Cre14.g626700' => 'cre', 'Cre16.g658400' => 'cre', 'Cre17.g700950' => 'cre', 'CsaV3_1G014830' => 'csa', 'CsaV3_3G013320' => 'csa', 'CsaV3_3G019210' => 'csa', 'CsaV3_3G019220' => 'csa', 'CsaV3_6G004230' => 'csa', 'CSS0003773' => 'camsi', 'CSS0004563' => 'camsi', 'CSS0013949' => 'camsi', 'CSS0025971' => 'camsi', 'CSS0028570' => 'camsi', 'CSS0033127' => 'camsi', 'CSS0036051' => 'camsi', 'CSS0040087' => 'camsi', 'CSS0043179' => 'camsi', 'DCAR_006161' => 'dca', 'DCAR_010351' => 'dca', 'DCAR_012197' => 'dca', 'DCAR_024162' => 'dca', 'Dinv01030' => 'din', 'Dinv10924' => 'din', 'Dinv11835' => 'din', 'Dinv22841' => 'din', 'Dinv42553' => 'din', 'Duzib052G0560' => 'dzi', 'Duzib132G0389' => 'dzi', 'Duzib150G1181' => 'dzi', 'Duzib168G0623' => 'dzi', 'Duzib170G1036' => 'dzi', 'Duzib212G0200' => 'dzi', 'Duzib248G0194' => 'dzi', 'ECA232G2193' => 'eca', 'ECA233G0302' => 'eca', 'ECA234G2813' => 'eca', 'ECA234G4866' => 'eca', 'ECA240G3932' => 'eca', 'ECA248G0385' => 'eca', 'EL10Ac2g04781' => 'bvu', 'EL10Ac3g06445' => 'bvu', 'EL10Ac7g15825' => 'bvu', 'EL10Ac8g18550' => 'bvu', 'Eucgr.B03849' => 'egr', 'Eucgr.I02744' => 'egr', 'Eucgr.J00264' => 'egr', 'Eucgr.J00493' => 'egr', 'FAN04G2181' => 'fan', 'FAN07G2666' => 'fan', 'FAN11G0024' => 'fan', 'FAN12G1105' => 'fan', 'FAN13G0302' => 'fan', 'FAN15G2781' => 'fan', 'FAN16G1274' => 'fan', 'FAN17G2988' => 'fan', 'FAN18G2621' => 'fan', 'FAN21G0013' => 'fan', 'FAN22G1211' => 'fan', 'FAN25G3626' => 'fan', 'FvH4_2g09491' => 'fve', 'FvH4_3g24910' => 'fve', 'FvH4_4g15630' => 'fve', 'FvH4_5g28820' => 'fve', 'Glyma.01G238000' => 'gma', 'Glyma.05G168400' => 'gma', 'Glyma.08G126800' => 'gma', 'Glyma.08G188500' => 'gma', 'Glyma.10G278900' => 'gma', 'Glyma.11G005700' => 'gma', 'Glyma.11G183300' => 'gma', 'Glyma.12G089200' => 'gma', 'Glyma.12G169400' => 'gma', 'Glyma.12G169500' => 'gma', 'Glyma.12G169600' => 'gma', 'Glyma.20G110800' => 'gma', 'Gohir.A03G192900' => 'ghi', 'Gohir.A03G193000' => 'ghi', 'Gohir.A05G080700' => 'ghi', 'Gohir.A09G216000' => 'ghi', 'Gohir.A12G027700' => 'ghi', 'Gohir.A13G036200' => 'ghi', 'Gohir.A13G222600' => 'ghi', 'Gohir.D02G213900' => 'ghi', 'Gohir.D02G214000' => 'ghi', 'Gohir.D05G083700' => 'ghi', 'Gohir.D05G083800' => 'ghi', 'Gohir.D05G083850' => 'ghi', 'Gohir.D08G015400' => 'ghi', 'Gohir.D09G218400' => 'ghi', 'Gohir.D12G027100' => 'ghi', 'Gohir.D13G034500' => 'ghi', 'Gohir.D13G227400' => 'ghi', 'Gorai.005G241800' => 'gra', 'Gorai.005G241900' => 'gra', 'Gorai.006G239400' => 'gra', 'Gorai.008G027600' => 'gra', 'Gorai.009G085400' => 'gra', 'Gorai.009G085500' => 'gra', 'Gorai.013G039000' => 'gra', 'Gorai.013G194800' => 'gra', 'Gorai.013G257900' => 'gra', 'GSVIVG01000982001' => 'vvi', 'GSVIVG01017981001' => 'vvi', 'HanXRQChr01g0024061' => 'han', 'HanXRQChr09g0247831' => 'han', 'HanXRQChr10g0294611' => 'han', 'HanXRQChr10g0294621' => 'han', 'HanXRQChr11g0346821' => 'han', 'HanXRQChr13g0397461' => 'han', 'HanXRQChr16g0513651' => 'han', 'HanXRQChr16g0513701' => 'han', 'Haze_00897' => 'cav', 'Haze_01745' => 'cav', 'Haze_02486' => 'cav', 'Haze_02487' => 'cav', 'Haze_23374' => 'cav', 'Hma1.2p1_0578F.1_g182520' => 'hma', 'Hma1.2p1_0602F.1_g187350' => 'hma', 'Hma1.2p1_0602F.1_g187360' => 'hma', 'Hma1.2p1_0874F.1_g231320' => 'hma', 'Hma1.2p1_1197F.1_g266210' => 'hma', 'Hma1.2p1_1197F.1_g266220' => 'hma', 'Hma1.2p1_2167F.1_g315895' => 'hma', 'Hma1.2p1_2190F.1_g316640' => 'hma', 'Hma1.2p1_3645F.1_g337153' => 'hma', 'HPP92_004907' => 'vpl', 'HPP92_012134' => 'vpl', 'HPP92_025136' => 'vpl', 'HPP92_026087' => 'vpl', 'Hund06782' => 'sun', 'Hund06784' => 'sun', 'Lalb_Chr01g0004861' => 'lal', 'Lalb_Chr02g0140591' => 'lal', 'Lalb_Chr02g0140611' => 'lal', 'Lalb_Chr03g0028101' => 'lal', 'Lalb_Chr07g0185791' => 'lal', 'Lalb_Chr12g0204491' => 'lal', 'Lalb_Chr13g0295671' => 'lal', 'Lalb_Chr19g0136461' => 'lal', 'Lalb_Chr21g0309191' => 'lal', 'Lj1g0028158' => 'lja', 'Lj1P236T38' => 'lonja', 'Lj2C32G2' => 'lonja', 'Lj2P944T8' => 'lonja', 'Lj2P963T15' => 'lonja', 'Lj3g0011788' => 'lja', 'Lj4g0025027' => 'lja', 'Lj5P255T36' => 'lonja', 'Lj6g0018866' => 'lja', 'Lj6P608T31' => 'lonja', 'LjContig00408g0008879' => 'lja', 'Lsat_1_v5_gn_5_105820' => 'lsa', 'Lsat_1_v5_gn_6_38800' => 'lsa', 'Lsat_1_v5_gn_7_67141' => 'lsa', 'Manes.04G003400' => 'mes', 'Manes.07G020000' => 'mes', 'Manes.07G020100' => 'mes', 'Manes.07G020150' => 'mes', 'Manes.10G061500' => 'mes', 'Manes.10G123200' => 'mes', 'Manes.11G161900' => 'mes', 'Manes.15G029300' => 'mes', 'Mapoly0071s0018' => 'mpo', 'Mapoly0082s0023' => 'mpo', 'Mapoly3477s0001' => 'mpo', 'MBI05_g31233_MAGBIO' => 'mbi', 'MBI09_g05946_MAGBIO' => 'mbi', 'MBI09_g05947_MAGBIO' => 'mbi', 'MBI17_g08346_MAGBIO' => 'mbi', 'MCO04G038' => 'mco', 'MCO09G370' => 'mco', 'MCO13G605' => 'mco', 'MD00G1075500' => 'mdo', 'MD03G1144300' => 'mdo', 'MD08G1236800' => 'mdo', 'MD13G1193300' => 'mdo', 'MD15G1428700' => 'mdo', 'Medtr1g112030' => 'mtr', 'Medtr1g112050' => 'mtr', 'Medtr2g006290' => 'mtr', 'Medtr2g086510' => 'mtr', 'Medtr4g053120' => 'mtr', 'Medtr5g006320' => 'mtr', 'Medtr8g088720' => 'mtr', 'MELO3C004712.2' => 'cme', 'MELO3C006533.2' => 'cme', 'MELO3C019438.2' => 'cme', 'MELO3C019440.2' => 'cme', 'MELO3C019441.2' => 'cme', 'MELO3C019895.2' => 'cme', 'Migut.B00811' => 'egut', 'Migut.D02447' => 'egut', 'Migut.F00875' => 'egut', 'Migut.N00186' => 'egut', 'Migut.N01051' => 'egut', 'Migut.N02491' => 'egut', 'Migut.O00784' => 'egut', 'MSTRG.12367' => 'ama', 'MSTRG.18756' => 'ama', 'MSTRG.21042' => 'ama', 'Nitab4.5_0000559g0040' => 'nta', 'Nitab4.5_0000667g0190' => 'nta', 'Nitab4.5_0000755g0160' => 'nta', 'Nitab4.5_0001216g0080' => 'nta', 'Nitab4.5_0004069g0040' => 'nta', 'Nitab4.5_0004129g0010' => 'nta', 'Nitab4.5_0005744g0030' => 'nta', 'Nitab4.5_0006996g0030' => 'nta', 'Nitab4.5_0008971g0040' => 'nta', 'Nitab4.5_0009769g0020' => 'nta', 'Nitab4.5_0009833g0010' => 'nta', 'Nitab4.5_0013140g0020' => 'nta', 'Nn003s41376' => 'nnu', 'Nn1g01857' => 'nnu', 'Nn1g03611' => 'nnu', 'Nn1g06853' => 'nnu', 'Nn3g18360' => 'nnu', 'Nn4g26328' => 'nnu', 'Nn5g27531' => 'nnu', 'Nn6g34899' => 'nnu', 'Nn7g36299' => 'nnu', 'Oeu021485.1' => 'oeu', 'Oeu022433.1' => 'oeu', 'Oeu032111.1' => 'oeu', 'Oeu051608.1' => 'oeu', 'Os01g0860601' => 'osa', 'Os03g0659200' => 'osa', 'Os03g0835900' => 'osa', 'Os04g0412200' => 'osa', 'Os05g0443500' => 'osa', 'Os07g0251500' => 'osa', 'Os08g0104600' => 'osa', 'Peaxi162Scf00003g00047' => 'pax', 'Peaxi162Scf00003g00052' => 'pax', 'Peaxi162Scf00003g00394' => 'pax', 'Peaxi162Scf00091g00621' => 'pax', 'Peaxi162Scf00152g00146' => 'pax', 'Peaxi162Scf00173g00025' => 'pax', 'Peaxi162Scf00195g00102' => 'pax', 'Peaxi162Scf00402g00013' => 'pax', 'Peaxi162Scf00519g00618' => 'pax', 'PGR004G2838' => 'pgr', 'PGR044G2275' => 'pgr', 'PGR102G1377' => 'pgr', 'PGR119G1245' => 'pgr', 'PGR142G4449' => 'pgr', 'PGSC0003DMG400004532' => 'stu', 'PGSC0003DMG400011950' => 'stu', 'PGSC0003DMG400023391' => 'stu', 'PGSC0003DMG400023985' => 'stu', 'PGSC0003DMG400026360' => 'stu', 'PGSC0003DMG400035711' => 'stu', 'PGSC0003DMG400037286' => 'stu', 'PGSC0003DMG402005881' => 'stu', 'Phvul.002G045400' => 'pvu', 'Phvul.006G216600' => 'pvu', 'Phvul.006G216700' => 'pvu', 'Phvul.006G216800' => 'pvu', 'Phvul.007G022500' => 'pvu', 'Phvul.011G094400' => 'pvu', 'Potri.001G470700' => 'ptr', 'Potri.003G015200' => 'ptr', 'Potri.004G202500' => 'ptr', 'Potri.004G218400' => 'ptr', 'Potri.008G020100' => 'ptr', 'Potri.008G153200' => 'ptr', 'Potri.009G163800' => 'ptr', 'Potri.010G087300' => 'ptr', 'Potri.010G239100' => 'ptr', 'Pp3c10_16100' => 'ppa', 'Pp3c10_16880' => 'ppa', 'Pp3c16_6230' => 'ppa', 'Pp3c17_18910' => 'ppa', 'Pp3c3_22119' => 'ppa', 'Pp3c3_22140' => 'ppa', 'Pp3c4_8159' => 'ppa', 'Pp3c4_8171' => 'ppa', 'Pp3c4_8330' => 'ppa', 'PRCOL_00004098' => 'pco', 'Prupe.1G013900' => 'ppe', 'Prupe.1G226300' => 'ppe', 'Prupe.1G573600' => 'ppe', 'Prupe.6G130100' => 'ppe', 'Psat3g090040' => 'psa', 'Psat4g210440' => 'psa', 'Psat6g231040' => 'psa', 'Psat6g231080' => 'psa', 'Psat7g063000' => 'psa', 'Psat7g188000' => 'psa', 'Psat7g188040' => 'psa', 'PSO017G0206' => 'pso', 'PSO170G0501' => 'pso', 'PSO170G6422' => 'pso', 'PSO210G7739' => 'pso', 'PSO339G1808' => 'pso', 'PSO339G6135' => 'pso', 'PSO384G0010' => 'pso', 'PSO384G0964' => 'pso', 'PSO761G0050' => 'pso', 'PSO782G4085' => 'pso', 'QL01p012264' => 'qlo', 'QL02p099491' => 'qlo', 'QL03p033868' => 'qlo', 'QL04p046678' => 'qlo', 'QL06p002448' => 'qlo', 'RcHm_v2.0_Chr4g0416181' => 'rch', 'RcHm_v2.0_Chr5g0044701' => 'rch', 'RcHm_v2.0_Chr6g0265781' => 'rch', 'RcHm_v2.0_Chr7g0221031' => 'rch', 'Rhsim04G0202000' => 'rsi', 'Rhsim11G0127300' => 'rsi', 'Rhsim13G0111800' => 'rsi', 'Sabra01G0165600' => 'sbr', 'Sabra03G0008300' => 'sbr', 'Sabra04G0136900' => 'sbr', 'Sabra08G0013400' => 'sbr', 'Sabra08G0116800' => 'sbr', 'Sabra09G0128000' => 'sbr', 'Sabra10G0055500' => 'sbr', 'Sabra10G0073300' => 'sbr', 'SalBow3G0385' => 'sbo', 'SalBow3G1119' => 'sbo', 'SalBow3G2005' => 'sbo', 'SalBow6G2563' => 'sbo', 'SalBow6G6386' => 'sbo', 'Sc06g0008800' => 'sci', 'Sc07g0004950' => 'sci', 'Sc09g0005340' => 'sci', 'Sc13g0004410' => 'sci', 'Sc21g0007090' => 'sci', 'Sed0009285' => 'sed', 'Sed0017583' => 'sed', 'Sed0019699' => 'sed', 'Sed0023107' => 'sed', 'SEGI_10916' => 'sgi', 'SEGI_16217' => 'sgi', 'SEGI_19466' => 'sgi', 'SEGI_41115' => 'sgi', 'SGA_v2.0_scaffold111G31534' => 'sas', 'SGA_v2.0_scaffold22G09864' => 'sas', 'SGA_v2.0_scaffold338G49219' => 'sas', 'SGA_v2.0_scaffold92G28298' => 'sas', 'SMO119G0064' => 'smo', 'SMO223G0038' => 'smo', 'SMO347G0584' => 'smo', 'SMO351G0010' => 'smo', 'SMO356G0404' => 'smo', 'Solyc01g103920.3' => 'sly', 'Solyc04g009710.2' => 'sly', 'Solyc05g055280.2' => 'sly', 'Solyc10g044520.3' => 'sly', 'Solyc10g075160.1' => 'sly', 'Solyc11g006910.3' => 'sly', 'Solyc11g068430.3' => 'sly', 'Sopen01g046310' => 'spe', 'Sopen03g001200' => 'spe', 'Sopen04g004830' => 'spe', 'Sopen05g033720' => 'spe', 'Sopen06g030740' => 'spe', 'Sopen10g013090' => 'spe', 'Sopen10g027630' => 'spe', 'Sopen10g027640' => 'spe', 'Sopen11g002820' => 'spe', 'Sopen11g027140' => 'spe', 'Sp1g09680' => 'spa', 'Sp2g03630' => 'spa', 'Sp4g10320' => 'spa', 'Sp6g33400' => 'spa', 'Sp7g13030' => 'spa', 'TAR365G0317' => 'tar', 'TAR376G0979' => 'tar', 'TAR623G1665' => 'tar', 'TAR633G2373' => 'tar', 'TAR636G1400' => 'tar', 'THA.LOC104800529' => 'tha', 'THA.LOC104808547' => 'tha', 'THA.LOC104809615' => 'tha', 'THA.LOC104815724' => 'tha', 'THA.LOC104818480' => 'tha', 'THA.LOC104819179' => 'tha', 'THA.LOC104822270' => 'tha', 'THA.LOC104826425' => 'tha', 'Thecc.02G089700' => 'tca', 'Thecc.04G232300' => 'tca', 'Thecc.09G283400' => 'tca', 'Thhalv10009020m.g' => 'esa', 'Thhalv10015506m.g' => 'esa', 'Thhalv10017364m.g' => 'esa', 'Thhalv10023742m.g' => 'esa', 'Thhalv10026483m.g' => 'esa', 'TPR.G17232' => 'tpr', 'TPR.G2133' => 'tpr', 'TPR.G2498' => 'tpr', 'TPR.G31942' => 'tpr', 'TPR.G37877' => 'tpr', 'TPR.G4571' => 'tpr', 'TWI14G1113' => 'twi', 'TWI15G0426' => 'twi', 'TWI31G1005' => 'twi', 'TWI38G0513' => 'twi', 'TWI38G1484' => 'twi', 'TWI73G1098' => 'twi', 'unitig_26.g10519' => 'ugi', 'unitig_736.g22395' => 'ugi', 'unitig_747.g21234' => 'ugi', 'unitig_747.g21942' => 'ugi', 'vmacro14351' => 'vma', 'VMungo0540G0082' => 'vmu', 'VMungo0540G0405' => 'vmu', 'VMungo0540G1486' => 'vmu', 'VMungo0540G1692' => 'vmu', 'VMungo0720G2473' => 'vmu', 'VMungo1127G1562' => 'vmu', 'VMungo1215G1918' => 'vmu', 'Zm00001eb052650' => 'zma', 'Zm00001eb063710' => 'zma', 'Zm00001eb083950' => 'zma', 'Zm00001eb174420' => 'zma', 'Zm00001eb260140' => 'zma', 'Zm00001eb260150' => 'zma', 'Zm00001eb260160' => 'zma', 'Zm00001eb348290' => 'zma', 'Zm00001eb366870' => 'zma', 'Zm00001eb421930' => 'zma' ) $gf_id = 'HOM05D001025' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001025' ) $data_identifier = 'HOM05D001025' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 19, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 2, 'amhyb' => (int) 4, 'aly' => (int) 4, 'aox' => (int) 4, 'arhy' => (int) 3, 'ath' => (int) 5, 'atr' => (int) 4, 'acertr' => (int) 3, 'cqu' => (int) 7, 'bca' => (int) 17, 'bol' => (int) 10, 'bra' => (int) 9, 'can' => (int) 10, 'cansat' => (int) 6, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 5, 'cbr' => (int) 5, 'ccan' => (int) 5, 'cde' => (int) 4, 'cfa' => (int) 3, 'ccl' => (int) 6, 'cil' => (int) 4, 'cla' => (int) 3, 'col' => (int) 3, 'cpa' => (int) 3, 'cre' => (int) 7, 'csa' => (int) 5, 'camsi' => (int) 9, 'dca' => (int) 4, 'din' => (int) 5, 'dzi' => (int) 7, 'eca' => (int) 6, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 12, 'fve' => (int) 4, 'gma' => (int) 12, 'ghi' => (int) 17, 'gra' => (int) 9, 'vvi' => (int) 2, 'han' => (int) 8, 'cav' => (int) 5, 'hma' => (int) 9, 'vpl' => (int) 4, 'sun' => (int) 2, 'lal' => (int) 9, 'lja' => (int) 5, 'lonja' => (int) 6, 'lsa' => (int) 3, 'mes' => (int) 8, 'mpo' => (int) 3, 'mbi' => (int) 4, 'mco' => (int) 3, 'mdo' => (int) 5, 'mtr' => (int) 7, 'cme' => (int) 6, 'egut' => (int) 7, 'ama' => (int) 3, 'nta' => (int) 12, 'nnu' => (int) 9, 'oeu' => (int) 4, 'osa' => (int) 7, 'pax' => (int) 9, 'pgr' => (int) 5, 'stu' => (int) 8, 'pvu' => (int) 6, 'ptr' => (int) 9, 'ppa' => (int) 9, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 7, 'pso' => (int) 10, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 3, 'sbr' => (int) 8, 'sbo' => (int) 5, 'sci' => (int) 5, 'sed' => (int) 4, 'sgi' => (int) 4, 'sas' => (int) 4, 'smo' => (int) 5, 'sly' => (int) 7, 'spe' => (int) 10, 'spa' => (int) 5, 'tar' => (int) 5, 'tha' => (int) 8, 'tca' => (int) 3, 'esa' => (int) 5, 'tpr' => (int) 6, 'twi' => (int) 6, 'ugi' => (int) 4, 'vma' => (int) 1, 'vmu' => (int) 7, 'zma' => (int) 10 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb421930' $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' => 'HOM05D001025', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '592', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p22650' => 'bna', 'A01p29720' => 'bna', 'A03p26560' => 'bna', 'A03p68820' => 'bna', 'A04p20980' => 'bna', 'A06p07730' => 'bna', 'A07p18260' => 'bna', 'A08p33710' => 'bna', 'A09p16970' => 'bna', 'A10p27490' => 'bna', 'Aa31LG1G17300' => 'aar', 'Aa31LG1G3910' => 'aar', 'Aa31LG2G9630' => 'aar', 'Aa31LG5G8360' => 'aar', 'Aa31LG9G2410' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4699' => 'aag', 'Actinidia23512' => 'ach', 'Actinidia37080' => 'ach', 'Ah.01g020380' => 'amhyb', 'Ah.08g215710' => 'amhyb', 'Ah.09g225110' => 'amhyb', 'Ah.10g036680' => 'amhyb', 'AL1G21940' => 'aly', 'AL2G15540' => 'aly', 'AL4G21520' => 'aly', 'AL7G40960' => 'aly', 'Aqoxy2G01191' => 'aox', 'Aqoxy2G03393' => 'aox', 'Aqoxy4G02775' => 'aox', 'Aqoxy6G00058' => 'aox', 'arahy.Tifrunner.gnm1.ann1.9X74H2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CW3FX9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R485W7' => 'arhy', 'AT1G10960' => 'ath', 'AT1G60950' => 'ath', 'AT2G27510' => 'ath', 'AT4G14890' => 'ath', 'AT5G10000' => 'ath', 'ATR0665G624' => 'atr', 'ATR0697G138' => 'atr', 'ATR0776G046' => 'atr', 'ATR1134G135' => 'atr', 'Atru.chr12.1025' => 'acertr', 'Atru.chr3.3241' => 'acertr', 'Atru.chr4.2460' => 'acertr', 'AUR62007427' => 'cqu', 'AUR62010960' => 'cqu', 'AUR62012201' => 'cqu', 'AUR62021470' => 'cqu', 'AUR62022834' => 'cqu', 'AUR62033635' => 'cqu', 'AUR62036186' => 'cqu', 'BcaB01g03077' => 'bca', 'BcaB02g10093' => 'bca', 'BcaB04g20295' => 'bca', 'BcaB06g28147' => 'bca', 'BcaB07g31253' => 'bca', 'BcaC01g04946' => 'bca', 'BcaC02g10614' => 'bca', 'BcaC02g10885' => 'bca', 'BcaC04g19356' => 'bca', 'BcaC04g22297' => 'bca', 'BcaC05g24977' => 'bca', 'BcaC06g31823' => 'bca', 'BcaC07g38633' => 'bca', 'BcaC09g49353' => 'bca', 'BcaC09g50168' => 'bca', 'BcaNung00322' => 'bca', 'BcaNung04769' => 'bca', 'BolC1t02753H' => 'bol', 'BolC1t03721H' => 'bol', 'BolC3t15525H' => 'bol', 'BolC4t23903H' => 'bol', 'BolC4t24231H' => 'bol', 'BolC4t27209H' => 'bol', 'BolC5t29671H' => 'bol', 'BolC8t49044H' => 'bol', 'BolC9t54999H' => 'bol', 'BolC9t59517H' => 'bol', 'BraA01t02178Z' => 'bra', 'BraA01t03099Z' => 'bra', 'BraA03t11867Z' => 'bra', 'BraA04t17667Z' => 'bra', 'BraA07t29542Z' => 'bra', 'BraA08t35287Z' => 'bra', 'BraA09t37334Z' => 'bra', 'BraA10t44801Z' => 'bra', 'BraSC39t46181Z' => 'bra', 'C01p28240' => 'bna', 'C01p37530' => 'bna', 'C03p31820' => 'bna', 'C04p24080' => 'bna', 'C04p25790' => 'bna', 'C04p56770' => 'bna', 'C05p09310' => 'bna', 'C09p21010' => 'bna', 'C09p67560' => 'bna', 'CAN.G1324.7' => 'can', 'CAN.G1358.10' => 'can', 'CAN.G1550.2' => 'can', 'CAN.G186.56' => 'can', 'CAN.G1965.1' => 'can', 'CAN.G645.15' => 'can', 'CAN.G798.26' => 'can', 'CAN.G798.27' => 'can', 'CAN.G798.29' => 'can', 'CAN.G919.31' => 'can', 'CANSAT11G0133' => 'cansat', 'CANSAT11G1171' => 'cansat', 'CANSAT11G2056' => 'cansat', 'CANSAT56G1202' => 'cansat', 'CANSAT56G1514' => 'cansat', 'CANSAT78G0455' => 'cansat', 'CARHR011190' => 'chi', 'CARHR051980' => 'chi', 'CARHR120170' => 'chi', 'CARHR203310' => 'chi', 'CARHR221490' => 'chi', 'Carub.0001s1054' => 'cru', 'Carub.0002s0431' => 'cru', 'Carub.0004s0818' => 'cru', 'Carub.0006s0846' => 'cru', 'Carub.0007s2722' => 'cru', 'Ca_00058_v3' => 'car', 'Ca_17831_v3' => 'car', 'Ca_19408_v3' => 'car', 'Ca_24397_v3' => 'car', 'Ca_25664_v3' => 'car', 'CBR_g21818' => 'cbr', 'CBR_g31195' => 'cbr', 'CBR_g32282' => 'cbr', 'CBR_g39599' => 'cbr', 'CBR_g49410' => 'cbr', 'Cc01_g09120' => 'ccan', 'Cc01_g09130' => 'ccan', 'Cc02_g09630' => 'ccan', 'Cc02_g22810' => 'ccan', 'Cc03_g03810' => 'ccan', 'CDE02G3718' => 'cde', 'CDE04G3183' => 'cde', 'CDE07G1046' => 'cde', 'CDE08G0480' => 'cde', 'Cfa005493' => 'cfa', 'Cfa010312' => 'cfa', 'Cfa015648' => 'cfa', 'Ciclev10002793m.g' => 'ccl', 'Ciclev10003356m.g' => 'ccl', 'Ciclev10006141m.g' => 'ccl', 'Ciclev10016676m.g' => 'ccl', 'Ciclev10017081m.g' => 'ccl', 'Ciclev10029499m.g' => 'ccl', 'CiPaw.01G166300' => 'cil', 'CiPaw.06G145600' => 'cil', 'CiPaw.13G040100' => 'cil', 'CiPaw.13G135800' => 'cil', 'ClCG01G012230' => 'cla', 'ClCG05G009510' => 'cla', 'ClCG08G008270' => 'cla', 'COL.COLO4_11763' => 'col', 'COL.COLO4_19876' => 'col', 'COL.COLO4_21481' => 'col', 'Cpa.g.sc118.34' => 'cpa', 'Cpa.g.sc32.13' => 'cpa', 'Cpa.g.sc58.103' => 'cpa', 'Cre03.g183850' => 'cre', 'Cre06.g306350' => 'cre', 'Cre07.g334800' => 'cre', 'Cre12.g487900' => 'cre', 'Cre14.g626700' => 'cre', 'Cre16.g658400' => 'cre', 'Cre17.g700950' => 'cre', 'CsaV3_1G014830' => 'csa', 'CsaV3_3G013320' => 'csa', 'CsaV3_3G019210' => 'csa', 'CsaV3_3G019220' => 'csa', 'CsaV3_6G004230' => 'csa', 'CSS0003773' => 'camsi', 'CSS0004563' => 'camsi', 'CSS0013949' => 'camsi', 'CSS0025971' => 'camsi', 'CSS0028570' => 'camsi', 'CSS0033127' => 'camsi', 'CSS0036051' => 'camsi', 'CSS0040087' => 'camsi', 'CSS0043179' => 'camsi', 'DCAR_006161' => 'dca', 'DCAR_010351' => 'dca', 'DCAR_012197' => 'dca', 'DCAR_024162' => 'dca', 'Dinv01030' => 'din', 'Dinv10924' => 'din', 'Dinv11835' => 'din', 'Dinv22841' => 'din', 'Dinv42553' => 'din', 'Duzib052G0560' => 'dzi', 'Duzib132G0389' => 'dzi', 'Duzib150G1181' => 'dzi', 'Duzib168G0623' => 'dzi', 'Duzib170G1036' => 'dzi', 'Duzib212G0200' => 'dzi', 'Duzib248G0194' => 'dzi', 'ECA232G2193' => 'eca', 'ECA233G0302' => 'eca', 'ECA234G2813' => 'eca', 'ECA234G4866' => 'eca', 'ECA240G3932' => 'eca', 'ECA248G0385' => 'eca', 'EL10Ac2g04781' => 'bvu', 'EL10Ac3g06445' => 'bvu', 'EL10Ac7g15825' => 'bvu', 'EL10Ac8g18550' => 'bvu', 'Eucgr.B03849' => 'egr', 'Eucgr.I02744' => 'egr', 'Eucgr.J00264' => 'egr', 'Eucgr.J00493' => 'egr', 'FAN04G2181' => 'fan', 'FAN07G2666' => 'fan', 'FAN11G0024' => 'fan', 'FAN12G1105' => 'fan', 'FAN13G0302' => 'fan', 'FAN15G2781' => 'fan', 'FAN16G1274' => 'fan', 'FAN17G2988' => 'fan', 'FAN18G2621' => 'fan', 'FAN21G0013' => 'fan', 'FAN22G1211' => 'fan', 'FAN25G3626' => 'fan', 'FvH4_2g09491' => 'fve', 'FvH4_3g24910' => 'fve', 'FvH4_4g15630' => 'fve', 'FvH4_5g28820' => 'fve', 'Glyma.01G238000' => 'gma', 'Glyma.05G168400' => 'gma', 'Glyma.08G126800' => 'gma', 'Glyma.08G188500' => 'gma', 'Glyma.10G278900' => 'gma', 'Glyma.11G005700' => 'gma', 'Glyma.11G183300' => 'gma', 'Glyma.12G089200' => 'gma', 'Glyma.12G169400' => 'gma', 'Glyma.12G169500' => 'gma', 'Glyma.12G169600' => 'gma', 'Glyma.20G110800' => 'gma', 'Gohir.A03G192900' => 'ghi', 'Gohir.A03G193000' => 'ghi', 'Gohir.A05G080700' => 'ghi', 'Gohir.A09G216000' => 'ghi', 'Gohir.A12G027700' => 'ghi', 'Gohir.A13G036200' => 'ghi', 'Gohir.A13G222600' => 'ghi', 'Gohir.D02G213900' => 'ghi', 'Gohir.D02G214000' => 'ghi', 'Gohir.D05G083700' => 'ghi', 'Gohir.D05G083800' => 'ghi', 'Gohir.D05G083850' => 'ghi', 'Gohir.D08G015400' => 'ghi', 'Gohir.D09G218400' => 'ghi', 'Gohir.D12G027100' => 'ghi', 'Gohir.D13G034500' => 'ghi', 'Gohir.D13G227400' => 'ghi', 'Gorai.005G241800' => 'gra', 'Gorai.005G241900' => 'gra', 'Gorai.006G239400' => 'gra', 'Gorai.008G027600' => 'gra', 'Gorai.009G085400' => 'gra', 'Gorai.009G085500' => 'gra', 'Gorai.013G039000' => 'gra', 'Gorai.013G194800' => 'gra', 'Gorai.013G257900' => 'gra', 'GSVIVG01000982001' => 'vvi', 'GSVIVG01017981001' => 'vvi', 'HanXRQChr01g0024061' => 'han', 'HanXRQChr09g0247831' => 'han', 'HanXRQChr10g0294611' => 'han', 'HanXRQChr10g0294621' => 'han', 'HanXRQChr11g0346821' => 'han', 'HanXRQChr13g0397461' => 'han', 'HanXRQChr16g0513651' => 'han', 'HanXRQChr16g0513701' => 'han', 'Haze_00897' => 'cav', 'Haze_01745' => 'cav', 'Haze_02486' => 'cav', 'Haze_02487' => 'cav', 'Haze_23374' => 'cav', 'Hma1.2p1_0578F.1_g182520' => 'hma', 'Hma1.2p1_0602F.1_g187350' => 'hma', 'Hma1.2p1_0602F.1_g187360' => 'hma', 'Hma1.2p1_0874F.1_g231320' => 'hma', 'Hma1.2p1_1197F.1_g266210' => 'hma', 'Hma1.2p1_1197F.1_g266220' => 'hma', 'Hma1.2p1_2167F.1_g315895' => 'hma', 'Hma1.2p1_2190F.1_g316640' => 'hma', 'Hma1.2p1_3645F.1_g337153' => 'hma', 'HPP92_004907' => 'vpl', 'HPP92_012134' => 'vpl', 'HPP92_025136' => 'vpl', 'HPP92_026087' => 'vpl', 'Hund06782' => 'sun', 'Hund06784' => 'sun', 'Lalb_Chr01g0004861' => 'lal', 'Lalb_Chr02g0140591' => 'lal', 'Lalb_Chr02g0140611' => 'lal', 'Lalb_Chr03g0028101' => 'lal', 'Lalb_Chr07g0185791' => 'lal', 'Lalb_Chr12g0204491' => 'lal', 'Lalb_Chr13g0295671' => 'lal', 'Lalb_Chr19g0136461' => 'lal', 'Lalb_Chr21g0309191' => 'lal', 'Lj1g0028158' => 'lja', 'Lj1P236T38' => 'lonja', 'Lj2C32G2' => 'lonja', 'Lj2P944T8' => 'lonja', 'Lj2P963T15' => 'lonja', 'Lj3g0011788' => 'lja', 'Lj4g0025027' => 'lja', 'Lj5P255T36' => 'lonja', 'Lj6g0018866' => 'lja', 'Lj6P608T31' => 'lonja', 'LjContig00408g0008879' => 'lja', 'Lsat_1_v5_gn_5_105820' => 'lsa', 'Lsat_1_v5_gn_6_38800' => 'lsa', 'Lsat_1_v5_gn_7_67141' => 'lsa', 'Manes.04G003400' => 'mes', 'Manes.07G020000' => 'mes', 'Manes.07G020100' => 'mes', 'Manes.07G020150' => 'mes', 'Manes.10G061500' => 'mes', 'Manes.10G123200' => 'mes', 'Manes.11G161900' => 'mes', 'Manes.15G029300' => 'mes', 'Mapoly0071s0018' => 'mpo', 'Mapoly0082s0023' => 'mpo', 'Mapoly3477s0001' => 'mpo', 'MBI05_g31233_MAGBIO' => 'mbi', 'MBI09_g05946_MAGBIO' => 'mbi', 'MBI09_g05947_MAGBIO' => 'mbi', 'MBI17_g08346_MAGBIO' => 'mbi', 'MCO04G038' => 'mco', 'MCO09G370' => 'mco', 'MCO13G605' => 'mco', 'MD00G1075500' => 'mdo', 'MD03G1144300' => 'mdo', 'MD08G1236800' => 'mdo', 'MD13G1193300' => 'mdo', 'MD15G1428700' => 'mdo', 'Medtr1g112030' => 'mtr', 'Medtr1g112050' => 'mtr', 'Medtr2g006290' => 'mtr', 'Medtr2g086510' => 'mtr', 'Medtr4g053120' => 'mtr', 'Medtr5g006320' => 'mtr', 'Medtr8g088720' => 'mtr', 'MELO3C004712.2' => 'cme', 'MELO3C006533.2' => 'cme', 'MELO3C019438.2' => 'cme', 'MELO3C019440.2' => 'cme', 'MELO3C019441.2' => 'cme', 'MELO3C019895.2' => 'cme', 'Migut.B00811' => 'egut', 'Migut.D02447' => 'egut', 'Migut.F00875' => 'egut', 'Migut.N00186' => 'egut', 'Migut.N01051' => 'egut', 'Migut.N02491' => 'egut', 'Migut.O00784' => 'egut', 'MSTRG.12367' => 'ama', 'MSTRG.18756' => 'ama', 'MSTRG.21042' => 'ama', 'Nitab4.5_0000559g0040' => 'nta', 'Nitab4.5_0000667g0190' => 'nta', 'Nitab4.5_0000755g0160' => 'nta', 'Nitab4.5_0001216g0080' => 'nta', 'Nitab4.5_0004069g0040' => 'nta', 'Nitab4.5_0004129g0010' => 'nta', 'Nitab4.5_0005744g0030' => 'nta', 'Nitab4.5_0006996g0030' => 'nta', 'Nitab4.5_0008971g0040' => 'nta', 'Nitab4.5_0009769g0020' => 'nta', 'Nitab4.5_0009833g0010' => 'nta', 'Nitab4.5_0013140g0020' => 'nta', 'Nn003s41376' => 'nnu', 'Nn1g01857' => 'nnu', 'Nn1g03611' => 'nnu', 'Nn1g06853' => 'nnu', 'Nn3g18360' => 'nnu', 'Nn4g26328' => 'nnu', 'Nn5g27531' => 'nnu', 'Nn6g34899' => 'nnu', 'Nn7g36299' => 'nnu', 'Oeu021485.1' => 'oeu', 'Oeu022433.1' => 'oeu', 'Oeu032111.1' => 'oeu', 'Oeu051608.1' => 'oeu', 'Os01g0860601' => 'osa', 'Os03g0659200' => 'osa', 'Os03g0835900' => 'osa', 'Os04g0412200' => 'osa', 'Os05g0443500' => 'osa', 'Os07g0251500' => 'osa', 'Os08g0104600' => 'osa', 'Peaxi162Scf00003g00047' => 'pax', 'Peaxi162Scf00003g00052' => 'pax', 'Peaxi162Scf00003g00394' => 'pax', 'Peaxi162Scf00091g00621' => 'pax', 'Peaxi162Scf00152g00146' => 'pax', 'Peaxi162Scf00173g00025' => 'pax', 'Peaxi162Scf00195g00102' => 'pax', 'Peaxi162Scf00402g00013' => 'pax', 'Peaxi162Scf00519g00618' => 'pax', 'PGR004G2838' => 'pgr', 'PGR044G2275' => 'pgr', 'PGR102G1377' => 'pgr', 'PGR119G1245' => 'pgr', 'PGR142G4449' => 'pgr', 'PGSC0003DMG400004532' => 'stu', 'PGSC0003DMG400011950' => 'stu', 'PGSC0003DMG400023391' => 'stu', 'PGSC0003DMG400023985' => 'stu', 'PGSC0003DMG400026360' => 'stu', 'PGSC0003DMG400035711' => 'stu', 'PGSC0003DMG400037286' => 'stu', 'PGSC0003DMG402005881' => 'stu', 'Phvul.002G045400' => 'pvu', 'Phvul.006G216600' => 'pvu', 'Phvul.006G216700' => 'pvu', 'Phvul.006G216800' => 'pvu', 'Phvul.007G022500' => 'pvu', 'Phvul.011G094400' => 'pvu', 'Potri.001G470700' => 'ptr', 'Potri.003G015200' => 'ptr', 'Potri.004G202500' => 'ptr', 'Potri.004G218400' => 'ptr', 'Potri.008G020100' => 'ptr', 'Potri.008G153200' => 'ptr', 'Potri.009G163800' => 'ptr', 'Potri.010G087300' => 'ptr', 'Potri.010G239100' => 'ptr', 'Pp3c10_16100' => 'ppa', 'Pp3c10_16880' => 'ppa', 'Pp3c16_6230' => 'ppa', 'Pp3c17_18910' => 'ppa', 'Pp3c3_22119' => 'ppa', 'Pp3c3_22140' => 'ppa', 'Pp3c4_8159' => 'ppa', 'Pp3c4_8171' => 'ppa', 'Pp3c4_8330' => 'ppa', 'PRCOL_00004098' => 'pco', 'Prupe.1G013900' => 'ppe', 'Prupe.1G226300' => 'ppe', 'Prupe.1G573600' => 'ppe', 'Prupe.6G130100' => 'ppe', 'Psat3g090040' => 'psa', 'Psat4g210440' => 'psa', 'Psat6g231040' => 'psa', 'Psat6g231080' => 'psa', 'Psat7g063000' => 'psa', 'Psat7g188000' => 'psa', 'Psat7g188040' => 'psa', 'PSO017G0206' => 'pso', 'PSO170G0501' => 'pso', 'PSO170G6422' => 'pso', 'PSO210G7739' => 'pso', 'PSO339G1808' => 'pso', 'PSO339G6135' => 'pso', 'PSO384G0010' => 'pso', 'PSO384G0964' => 'pso', 'PSO761G0050' => 'pso', 'PSO782G4085' => 'pso', 'QL01p012264' => 'qlo', 'QL02p099491' => 'qlo', 'QL03p033868' => 'qlo', 'QL04p046678' => 'qlo', 'QL06p002448' => 'qlo', 'RcHm_v2.0_Chr4g0416181' => 'rch', 'RcHm_v2.0_Chr5g0044701' => 'rch', 'RcHm_v2.0_Chr6g0265781' => 'rch', 'RcHm_v2.0_Chr7g0221031' => 'rch', 'Rhsim04G0202000' => 'rsi', 'Rhsim11G0127300' => 'rsi', 'Rhsim13G0111800' => 'rsi', 'Sabra01G0165600' => 'sbr', 'Sabra03G0008300' => 'sbr', 'Sabra04G0136900' => 'sbr', 'Sabra08G0013400' => 'sbr', 'Sabra08G0116800' => 'sbr', 'Sabra09G0128000' => 'sbr', 'Sabra10G0055500' => 'sbr', 'Sabra10G0073300' => 'sbr', 'SalBow3G0385' => 'sbo', 'SalBow3G1119' => 'sbo', 'SalBow3G2005' => 'sbo', 'SalBow6G2563' => 'sbo', 'SalBow6G6386' => 'sbo', 'Sc06g0008800' => 'sci', 'Sc07g0004950' => 'sci', 'Sc09g0005340' => 'sci', 'Sc13g0004410' => 'sci', 'Sc21g0007090' => 'sci', 'Sed0009285' => 'sed', 'Sed0017583' => 'sed', 'Sed0019699' => 'sed', 'Sed0023107' => 'sed', 'SEGI_10916' => 'sgi', 'SEGI_16217' => 'sgi', 'SEGI_19466' => 'sgi', 'SEGI_41115' => 'sgi', 'SGA_v2.0_scaffold111G31534' => 'sas', 'SGA_v2.0_scaffold22G09864' => 'sas', 'SGA_v2.0_scaffold338G49219' => 'sas', 'SGA_v2.0_scaffold92G28298' => 'sas', 'SMO119G0064' => 'smo', 'SMO223G0038' => 'smo', 'SMO347G0584' => 'smo', 'SMO351G0010' => 'smo', 'SMO356G0404' => 'smo', 'Solyc01g103920.3' => 'sly', 'Solyc04g009710.2' => 'sly', 'Solyc05g055280.2' => 'sly', 'Solyc10g044520.3' => 'sly', 'Solyc10g075160.1' => 'sly', 'Solyc11g006910.3' => 'sly', 'Solyc11g068430.3' => 'sly', 'Sopen01g046310' => 'spe', 'Sopen03g001200' => 'spe', 'Sopen04g004830' => 'spe', 'Sopen05g033720' => 'spe', 'Sopen06g030740' => 'spe', 'Sopen10g013090' => 'spe', 'Sopen10g027630' => 'spe', 'Sopen10g027640' => 'spe', 'Sopen11g002820' => 'spe', 'Sopen11g027140' => 'spe', 'Sp1g09680' => 'spa', 'Sp2g03630' => 'spa', 'Sp4g10320' => 'spa', 'Sp6g33400' => 'spa', 'Sp7g13030' => 'spa', 'TAR365G0317' => 'tar', 'TAR376G0979' => 'tar', 'TAR623G1665' => 'tar', 'TAR633G2373' => 'tar', 'TAR636G1400' => 'tar', 'THA.LOC104800529' => 'tha', 'THA.LOC104808547' => 'tha', 'THA.LOC104809615' => 'tha', 'THA.LOC104815724' => 'tha', 'THA.LOC104818480' => 'tha', 'THA.LOC104819179' => 'tha', 'THA.LOC104822270' => 'tha', 'THA.LOC104826425' => 'tha', 'Thecc.02G089700' => 'tca', 'Thecc.04G232300' => 'tca', 'Thecc.09G283400' => 'tca', 'Thhalv10009020m.g' => 'esa', 'Thhalv10015506m.g' => 'esa', 'Thhalv10017364m.g' => 'esa', 'Thhalv10023742m.g' => 'esa', 'Thhalv10026483m.g' => 'esa', 'TPR.G17232' => 'tpr', 'TPR.G2133' => 'tpr', 'TPR.G2498' => 'tpr', 'TPR.G31942' => 'tpr', 'TPR.G37877' => 'tpr', 'TPR.G4571' => 'tpr', 'TWI14G1113' => 'twi', 'TWI15G0426' => 'twi', 'TWI31G1005' => 'twi', 'TWI38G0513' => 'twi', 'TWI38G1484' => 'twi', 'TWI73G1098' => 'twi', 'unitig_26.g10519' => 'ugi', 'unitig_736.g22395' => 'ugi', 'unitig_747.g21234' => 'ugi', 'unitig_747.g21942' => 'ugi', 'vmacro14351' => 'vma', 'VMungo0540G0082' => 'vmu', 'VMungo0540G0405' => 'vmu', 'VMungo0540G1486' => 'vmu', 'VMungo0540G1692' => 'vmu', 'VMungo0720G2473' => 'vmu', 'VMungo1127G1562' => 'vmu', 'VMungo1215G1918' => 'vmu', 'Zm00001eb052650' => 'zma', 'Zm00001eb063710' => 'zma', 'Zm00001eb083950' => 'zma', 'Zm00001eb174420' => 'zma', 'Zm00001eb260140' => 'zma', 'Zm00001eb260150' => 'zma', 'Zm00001eb260160' => 'zma', 'Zm00001eb348290' => 'zma', 'Zm00001eb366870' => 'zma', 'Zm00001eb421930' => 'zma' ), 'gf_id' => 'HOM05D001025', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001025' ), 'data_identifier' => 'HOM05D001025', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001025', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '592', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p22650' => 'bna', 'A01p29720' => 'bna', 'A03p26560' => 'bna', 'A03p68820' => 'bna', 'A04p20980' => 'bna', 'A06p07730' => 'bna', 'A07p18260' => 'bna', 'A08p33710' => 'bna', 'A09p16970' => 'bna', 'A10p27490' => 'bna', 'Aa31LG1G17300' => 'aar', 'Aa31LG1G3910' => 'aar', 'Aa31LG2G9630' => 'aar', 'Aa31LG5G8360' => 'aar', 'Aa31LG9G2410' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4699' => 'aag', 'Actinidia23512' => 'ach', 'Actinidia37080' => 'ach', 'Ah.01g020380' => 'amhyb', 'Ah.08g215710' => 'amhyb', 'Ah.09g225110' => 'amhyb', 'Ah.10g036680' => 'amhyb', 'AL1G21940' => 'aly', 'AL2G15540' => 'aly', 'AL4G21520' => 'aly', 'AL7G40960' => 'aly', 'Aqoxy2G01191' => 'aox', 'Aqoxy2G03393' => 'aox', 'Aqoxy4G02775' => 'aox', 'Aqoxy6G00058' => 'aox', 'arahy.Tifrunner.gnm1.ann1.9X74H2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CW3FX9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R485W7' => 'arhy', 'AT1G10960' => 'ath', 'AT1G60950' => 'ath', 'AT2G27510' => 'ath', 'AT4G14890' => 'ath', 'AT5G10000' => 'ath', 'ATR0665G624' => 'atr', 'ATR0697G138' => 'atr', 'ATR0776G046' => 'atr', 'ATR1134G135' => 'atr', 'Atru.chr12.1025' => 'acertr', 'Atru.chr3.3241' => 'acertr', 'Atru.chr4.2460' => 'acertr', 'AUR62007427' => 'cqu', 'AUR62010960' => 'cqu', 'AUR62012201' => 'cqu', 'AUR62021470' => 'cqu', 'AUR62022834' => 'cqu', 'AUR62033635' => 'cqu', 'AUR62036186' => 'cqu', 'BcaB01g03077' => 'bca', 'BcaB02g10093' => 'bca', 'BcaB04g20295' => 'bca', 'BcaB06g28147' => 'bca', 'BcaB07g31253' => 'bca', 'BcaC01g04946' => 'bca', 'BcaC02g10614' => 'bca', 'BcaC02g10885' => 'bca', 'BcaC04g19356' => 'bca', 'BcaC04g22297' => 'bca', 'BcaC05g24977' => 'bca', 'BcaC06g31823' => 'bca', 'BcaC07g38633' => 'bca', 'BcaC09g49353' => 'bca', 'BcaC09g50168' => 'bca', 'BcaNung00322' => 'bca', 'BcaNung04769' => 'bca', 'BolC1t02753H' => 'bol', 'BolC1t03721H' => 'bol', 'BolC3t15525H' => 'bol', 'BolC4t23903H' => 'bol', 'BolC4t24231H' => 'bol', 'BolC4t27209H' => 'bol', 'BolC5t29671H' => 'bol', 'BolC8t49044H' => 'bol', 'BolC9t54999H' => 'bol', 'BolC9t59517H' => 'bol', 'BraA01t02178Z' => 'bra', 'BraA01t03099Z' => 'bra', 'BraA03t11867Z' => 'bra', 'BraA04t17667Z' => 'bra', 'BraA07t29542Z' => 'bra', 'BraA08t35287Z' => 'bra', 'BraA09t37334Z' => 'bra', 'BraA10t44801Z' => 'bra', 'BraSC39t46181Z' => 'bra', 'C01p28240' => 'bna', 'C01p37530' => 'bna', 'C03p31820' => 'bna', 'C04p24080' => 'bna', 'C04p25790' => 'bna', 'C04p56770' => 'bna', 'C05p09310' => 'bna', 'C09p21010' => 'bna', 'C09p67560' => 'bna', 'CAN.G1324.7' => 'can', 'CAN.G1358.10' => 'can', 'CAN.G1550.2' => 'can', 'CAN.G186.56' => 'can', 'CAN.G1965.1' => 'can', 'CAN.G645.15' => 'can', 'CAN.G798.26' => 'can', 'CAN.G798.27' => 'can', 'CAN.G798.29' => 'can', 'CAN.G919.31' => 'can', 'CANSAT11G0133' => 'cansat', 'CANSAT11G1171' => 'cansat', 'CANSAT11G2056' => 'cansat', 'CANSAT56G1202' => 'cansat', 'CANSAT56G1514' => 'cansat', 'CANSAT78G0455' => 'cansat', 'CARHR011190' => 'chi', 'CARHR051980' => 'chi', 'CARHR120170' => 'chi', 'CARHR203310' => 'chi', 'CARHR221490' => 'chi', 'Carub.0001s1054' => 'cru', 'Carub.0002s0431' => 'cru', 'Carub.0004s0818' => 'cru', 'Carub.0006s0846' => 'cru', 'Carub.0007s2722' => 'cru', 'Ca_00058_v3' => 'car', 'Ca_17831_v3' => 'car', 'Ca_19408_v3' => 'car', 'Ca_24397_v3' => 'car', 'Ca_25664_v3' => 'car', 'CBR_g21818' => 'cbr', 'CBR_g31195' => 'cbr', 'CBR_g32282' => 'cbr', 'CBR_g39599' => 'cbr', 'CBR_g49410' => 'cbr', 'Cc01_g09120' => 'ccan', 'Cc01_g09130' => 'ccan', 'Cc02_g09630' => 'ccan', 'Cc02_g22810' => 'ccan', 'Cc03_g03810' => 'ccan', 'CDE02G3718' => 'cde', 'CDE04G3183' => 'cde', 'CDE07G1046' => 'cde', 'CDE08G0480' => 'cde', 'Cfa005493' => 'cfa', 'Cfa010312' => 'cfa', 'Cfa015648' => 'cfa', 'Ciclev10002793m.g' => 'ccl', 'Ciclev10003356m.g' => 'ccl', 'Ciclev10006141m.g' => 'ccl', 'Ciclev10016676m.g' => 'ccl', 'Ciclev10017081m.g' => 'ccl', 'Ciclev10029499m.g' => 'ccl', 'CiPaw.01G166300' => 'cil', 'CiPaw.06G145600' => 'cil', 'CiPaw.13G040100' => 'cil', 'CiPaw.13G135800' => 'cil', 'ClCG01G012230' => 'cla', 'ClCG05G009510' => 'cla', 'ClCG08G008270' => 'cla', 'COL.COLO4_11763' => 'col', 'COL.COLO4_19876' => 'col', 'COL.COLO4_21481' => 'col', 'Cpa.g.sc118.34' => 'cpa', 'Cpa.g.sc32.13' => 'cpa', 'Cpa.g.sc58.103' => 'cpa', 'Cre03.g183850' => 'cre', 'Cre06.g306350' => 'cre', 'Cre07.g334800' => 'cre', 'Cre12.g487900' => 'cre', 'Cre14.g626700' => 'cre', 'Cre16.g658400' => 'cre', 'Cre17.g700950' => 'cre', 'CsaV3_1G014830' => 'csa', 'CsaV3_3G013320' => 'csa', 'CsaV3_3G019210' => 'csa', 'CsaV3_3G019220' => 'csa', 'CsaV3_6G004230' => 'csa', 'CSS0003773' => 'camsi', 'CSS0004563' => 'camsi', 'CSS0013949' => 'camsi', 'CSS0025971' => 'camsi', 'CSS0028570' => 'camsi', 'CSS0033127' => 'camsi', 'CSS0036051' => 'camsi', 'CSS0040087' => 'camsi', 'CSS0043179' => 'camsi', 'DCAR_006161' => 'dca', 'DCAR_010351' => 'dca', 'DCAR_012197' => 'dca', 'DCAR_024162' => 'dca', 'Dinv01030' => 'din', 'Dinv10924' => 'din', 'Dinv11835' => 'din', 'Dinv22841' => 'din', 'Dinv42553' => 'din', 'Duzib052G0560' => 'dzi', 'Duzib132G0389' => 'dzi', 'Duzib150G1181' => 'dzi', 'Duzib168G0623' => 'dzi', 'Duzib170G1036' => 'dzi', 'Duzib212G0200' => 'dzi', 'Duzib248G0194' => 'dzi', 'ECA232G2193' => 'eca', 'ECA233G0302' => 'eca', 'ECA234G2813' => 'eca', 'ECA234G4866' => 'eca', 'ECA240G3932' => 'eca', 'ECA248G0385' => 'eca', 'EL10Ac2g04781' => 'bvu', 'EL10Ac3g06445' => 'bvu', 'EL10Ac7g15825' => 'bvu', 'EL10Ac8g18550' => 'bvu', 'Eucgr.B03849' => 'egr', 'Eucgr.I02744' => 'egr', 'Eucgr.J00264' => 'egr', 'Eucgr.J00493' => 'egr', 'FAN04G2181' => 'fan', 'FAN07G2666' => 'fan', 'FAN11G0024' => 'fan', 'FAN12G1105' => 'fan', 'FAN13G0302' => 'fan', 'FAN15G2781' => 'fan', 'FAN16G1274' => 'fan', 'FAN17G2988' => 'fan', 'FAN18G2621' => 'fan', 'FAN21G0013' => 'fan', 'FAN22G1211' => 'fan', 'FAN25G3626' => 'fan', 'FvH4_2g09491' => 'fve', 'FvH4_3g24910' => 'fve', 'FvH4_4g15630' => 'fve', 'FvH4_5g28820' => 'fve', 'Glyma.01G238000' => 'gma', 'Glyma.05G168400' => 'gma', 'Glyma.08G126800' => 'gma', 'Glyma.08G188500' => 'gma', 'Glyma.10G278900' => 'gma', 'Glyma.11G005700' => 'gma', 'Glyma.11G183300' => 'gma', 'Glyma.12G089200' => 'gma', 'Glyma.12G169400' => 'gma', 'Glyma.12G169500' => 'gma', 'Glyma.12G169600' => 'gma', 'Glyma.20G110800' => 'gma', 'Gohir.A03G192900' => 'ghi', 'Gohir.A03G193000' => 'ghi', 'Gohir.A05G080700' => 'ghi', 'Gohir.A09G216000' => 'ghi', 'Gohir.A12G027700' => 'ghi', 'Gohir.A13G036200' => 'ghi', 'Gohir.A13G222600' => 'ghi', 'Gohir.D02G213900' => 'ghi', 'Gohir.D02G214000' => 'ghi', 'Gohir.D05G083700' => 'ghi', 'Gohir.D05G083800' => 'ghi', 'Gohir.D05G083850' => 'ghi', 'Gohir.D08G015400' => 'ghi', 'Gohir.D09G218400' => 'ghi', 'Gohir.D12G027100' => 'ghi', 'Gohir.D13G034500' => 'ghi', 'Gohir.D13G227400' => 'ghi', 'Gorai.005G241800' => 'gra', 'Gorai.005G241900' => 'gra', 'Gorai.006G239400' => 'gra', 'Gorai.008G027600' => 'gra', 'Gorai.009G085400' => 'gra', 'Gorai.009G085500' => 'gra', 'Gorai.013G039000' => 'gra', 'Gorai.013G194800' => 'gra', 'Gorai.013G257900' => 'gra', 'GSVIVG01000982001' => 'vvi', 'GSVIVG01017981001' => 'vvi', 'HanXRQChr01g0024061' => 'han', 'HanXRQChr09g0247831' => 'han', 'HanXRQChr10g0294611' => 'han', 'HanXRQChr10g0294621' => 'han', 'HanXRQChr11g0346821' => 'han', 'HanXRQChr13g0397461' => 'han', 'HanXRQChr16g0513651' => 'han', 'HanXRQChr16g0513701' => 'han', 'Haze_00897' => 'cav', 'Haze_01745' => 'cav', 'Haze_02486' => 'cav', 'Haze_02487' => 'cav', 'Haze_23374' => 'cav', 'Hma1.2p1_0578F.1_g182520' => 'hma', 'Hma1.2p1_0602F.1_g187350' => 'hma', 'Hma1.2p1_0602F.1_g187360' => 'hma', 'Hma1.2p1_0874F.1_g231320' => 'hma', 'Hma1.2p1_1197F.1_g266210' => 'hma', 'Hma1.2p1_1197F.1_g266220' => 'hma', 'Hma1.2p1_2167F.1_g315895' => 'hma', 'Hma1.2p1_2190F.1_g316640' => 'hma', 'Hma1.2p1_3645F.1_g337153' => 'hma', 'HPP92_004907' => 'vpl', 'HPP92_012134' => 'vpl', 'HPP92_025136' => 'vpl', 'HPP92_026087' => 'vpl', 'Hund06782' => 'sun', 'Hund06784' => 'sun', 'Lalb_Chr01g0004861' => 'lal', 'Lalb_Chr02g0140591' => 'lal', 'Lalb_Chr02g0140611' => 'lal', 'Lalb_Chr03g0028101' => 'lal', 'Lalb_Chr07g0185791' => 'lal', 'Lalb_Chr12g0204491' => 'lal', 'Lalb_Chr13g0295671' => 'lal', 'Lalb_Chr19g0136461' => 'lal', 'Lalb_Chr21g0309191' => 'lal', 'Lj1g0028158' => 'lja', 'Lj1P236T38' => 'lonja', 'Lj2C32G2' => 'lonja', 'Lj2P944T8' => 'lonja', 'Lj2P963T15' => 'lonja', 'Lj3g0011788' => 'lja', 'Lj4g0025027' => 'lja', 'Lj5P255T36' => 'lonja', 'Lj6g0018866' => 'lja', 'Lj6P608T31' => 'lonja', 'LjContig00408g0008879' => 'lja', 'Lsat_1_v5_gn_5_105820' => 'lsa', 'Lsat_1_v5_gn_6_38800' => 'lsa', 'Lsat_1_v5_gn_7_67141' => 'lsa', 'Manes.04G003400' => 'mes', 'Manes.07G020000' => 'mes', 'Manes.07G020100' => 'mes', 'Manes.07G020150' => 'mes', 'Manes.10G061500' => 'mes', 'Manes.10G123200' => 'mes', 'Manes.11G161900' => 'mes', 'Manes.15G029300' => 'mes', 'Mapoly0071s0018' => 'mpo', 'Mapoly0082s0023' => 'mpo', 'Mapoly3477s0001' => 'mpo', 'MBI05_g31233_MAGBIO' => 'mbi', 'MBI09_g05946_MAGBIO' => 'mbi', 'MBI09_g05947_MAGBIO' => 'mbi', 'MBI17_g08346_MAGBIO' => 'mbi', 'MCO04G038' => 'mco', 'MCO09G370' => 'mco', 'MCO13G605' => 'mco', 'MD00G1075500' => 'mdo', 'MD03G1144300' => 'mdo', 'MD08G1236800' => 'mdo', 'MD13G1193300' => 'mdo', 'MD15G1428700' => 'mdo', 'Medtr1g112030' => 'mtr', 'Medtr1g112050' => 'mtr', 'Medtr2g006290' => 'mtr', 'Medtr2g086510' => 'mtr', 'Medtr4g053120' => 'mtr', 'Medtr5g006320' => 'mtr', 'Medtr8g088720' => 'mtr', 'MELO3C004712.2' => 'cme', 'MELO3C006533.2' => 'cme', 'MELO3C019438.2' => 'cme', 'MELO3C019440.2' => 'cme', 'MELO3C019441.2' => 'cme', 'MELO3C019895.2' => 'cme', 'Migut.B00811' => 'egut', 'Migut.D02447' => 'egut', 'Migut.F00875' => 'egut', 'Migut.N00186' => 'egut', 'Migut.N01051' => 'egut', 'Migut.N02491' => 'egut', 'Migut.O00784' => 'egut', 'MSTRG.12367' => 'ama', 'MSTRG.18756' => 'ama', 'MSTRG.21042' => 'ama', 'Nitab4.5_0000559g0040' => 'nta', 'Nitab4.5_0000667g0190' => 'nta', 'Nitab4.5_0000755g0160' => 'nta', 'Nitab4.5_0001216g0080' => 'nta', 'Nitab4.5_0004069g0040' => 'nta', 'Nitab4.5_0004129g0010' => 'nta', 'Nitab4.5_0005744g0030' => 'nta', 'Nitab4.5_0006996g0030' => 'nta', 'Nitab4.5_0008971g0040' => 'nta', 'Nitab4.5_0009769g0020' => 'nta', 'Nitab4.5_0009833g0010' => 'nta', 'Nitab4.5_0013140g0020' => 'nta', 'Nn003s41376' => 'nnu', 'Nn1g01857' => 'nnu', 'Nn1g03611' => 'nnu', 'Nn1g06853' => 'nnu', 'Nn3g18360' => 'nnu', 'Nn4g26328' => 'nnu', 'Nn5g27531' => 'nnu', 'Nn6g34899' => 'nnu', 'Nn7g36299' => 'nnu', 'Oeu021485.1' => 'oeu', 'Oeu022433.1' => 'oeu', 'Oeu032111.1' => 'oeu', 'Oeu051608.1' => 'oeu', 'Os01g0860601' => 'osa', 'Os03g0659200' => 'osa', 'Os03g0835900' => 'osa', 'Os04g0412200' => 'osa', 'Os05g0443500' => 'osa', 'Os07g0251500' => 'osa', 'Os08g0104600' => 'osa', 'Peaxi162Scf00003g00047' => 'pax', 'Peaxi162Scf00003g00052' => 'pax', 'Peaxi162Scf00003g00394' => 'pax', 'Peaxi162Scf00091g00621' => 'pax', 'Peaxi162Scf00152g00146' => 'pax', 'Peaxi162Scf00173g00025' => 'pax', 'Peaxi162Scf00195g00102' => 'pax', 'Peaxi162Scf00402g00013' => 'pax', 'Peaxi162Scf00519g00618' => 'pax', 'PGR004G2838' => 'pgr', 'PGR044G2275' => 'pgr', 'PGR102G1377' => 'pgr', 'PGR119G1245' => 'pgr', 'PGR142G4449' => 'pgr', 'PGSC0003DMG400004532' => 'stu', 'PGSC0003DMG400011950' => 'stu', 'PGSC0003DMG400023391' => 'stu', 'PGSC0003DMG400023985' => 'stu', 'PGSC0003DMG400026360' => 'stu', 'PGSC0003DMG400035711' => 'stu', 'PGSC0003DMG400037286' => 'stu', 'PGSC0003DMG402005881' => 'stu', 'Phvul.002G045400' => 'pvu', 'Phvul.006G216600' => 'pvu', 'Phvul.006G216700' => 'pvu', 'Phvul.006G216800' => 'pvu', 'Phvul.007G022500' => 'pvu', 'Phvul.011G094400' => 'pvu', 'Potri.001G470700' => 'ptr', 'Potri.003G015200' => 'ptr', 'Potri.004G202500' => 'ptr', 'Potri.004G218400' => 'ptr', 'Potri.008G020100' => 'ptr', 'Potri.008G153200' => 'ptr', 'Potri.009G163800' => 'ptr', 'Potri.010G087300' => 'ptr', 'Potri.010G239100' => 'ptr', 'Pp3c10_16100' => 'ppa', 'Pp3c10_16880' => 'ppa', 'Pp3c16_6230' => 'ppa', 'Pp3c17_18910' => 'ppa', 'Pp3c3_22119' => 'ppa', 'Pp3c3_22140' => 'ppa', 'Pp3c4_8159' => 'ppa', 'Pp3c4_8171' => 'ppa', 'Pp3c4_8330' => 'ppa', 'PRCOL_00004098' => 'pco', 'Prupe.1G013900' => 'ppe', 'Prupe.1G226300' => 'ppe', 'Prupe.1G573600' => 'ppe', 'Prupe.6G130100' => 'ppe', 'Psat3g090040' => 'psa', 'Psat4g210440' => 'psa', 'Psat6g231040' => 'psa', 'Psat6g231080' => 'psa', 'Psat7g063000' => 'psa', 'Psat7g188000' => 'psa', 'Psat7g188040' => 'psa', 'PSO017G0206' => 'pso', 'PSO170G0501' => 'pso', 'PSO170G6422' => 'pso', 'PSO210G7739' => 'pso', 'PSO339G1808' => 'pso', 'PSO339G6135' => 'pso', 'PSO384G0010' => 'pso', 'PSO384G0964' => 'pso', 'PSO761G0050' => 'pso', 'PSO782G4085' => 'pso', 'QL01p012264' => 'qlo', 'QL02p099491' => 'qlo', 'QL03p033868' => 'qlo', 'QL04p046678' => 'qlo', 'QL06p002448' => 'qlo', 'RcHm_v2.0_Chr4g0416181' => 'rch', 'RcHm_v2.0_Chr5g0044701' => 'rch', 'RcHm_v2.0_Chr6g0265781' => 'rch', 'RcHm_v2.0_Chr7g0221031' => 'rch', 'Rhsim04G0202000' => 'rsi', 'Rhsim11G0127300' => 'rsi', 'Rhsim13G0111800' => 'rsi', 'Sabra01G0165600' => 'sbr', 'Sabra03G0008300' => 'sbr', 'Sabra04G0136900' => 'sbr', 'Sabra08G0013400' => 'sbr', 'Sabra08G0116800' => 'sbr', 'Sabra09G0128000' => 'sbr', 'Sabra10G0055500' => 'sbr', 'Sabra10G0073300' => 'sbr', 'SalBow3G0385' => 'sbo', 'SalBow3G1119' => 'sbo', 'SalBow3G2005' => 'sbo', 'SalBow6G2563' => 'sbo', 'SalBow6G6386' => 'sbo', 'Sc06g0008800' => 'sci', 'Sc07g0004950' => 'sci', 'Sc09g0005340' => 'sci', 'Sc13g0004410' => 'sci', 'Sc21g0007090' => 'sci', 'Sed0009285' => 'sed', 'Sed0017583' => 'sed', 'Sed0019699' => 'sed', 'Sed0023107' => 'sed', 'SEGI_10916' => 'sgi', 'SEGI_16217' => 'sgi', 'SEGI_19466' => 'sgi', 'SEGI_41115' => 'sgi', 'SGA_v2.0_scaffold111G31534' => 'sas', 'SGA_v2.0_scaffold22G09864' => 'sas', 'SGA_v2.0_scaffold338G49219' => 'sas', 'SGA_v2.0_scaffold92G28298' => 'sas', 'SMO119G0064' => 'smo', 'SMO223G0038' => 'smo', 'SMO347G0584' => 'smo', 'SMO351G0010' => 'smo', 'SMO356G0404' => 'smo', 'Solyc01g103920.3' => 'sly', 'Solyc04g009710.2' => 'sly', 'Solyc05g055280.2' => 'sly', 'Solyc10g044520.3' => 'sly', 'Solyc10g075160.1' => 'sly', 'Solyc11g006910.3' => 'sly', 'Solyc11g068430.3' => 'sly', 'Sopen01g046310' => 'spe', 'Sopen03g001200' => 'spe', 'Sopen04g004830' => 'spe', 'Sopen05g033720' => 'spe', 'Sopen06g030740' => 'spe', 'Sopen10g013090' => 'spe', 'Sopen10g027630' => 'spe', 'Sopen10g027640' => 'spe', 'Sopen11g002820' => 'spe', 'Sopen11g027140' => 'spe', 'Sp1g09680' => 'spa', 'Sp2g03630' => 'spa', 'Sp4g10320' => 'spa', 'Sp6g33400' => 'spa', 'Sp7g13030' => 'spa', 'TAR365G0317' => 'tar', 'TAR376G0979' => 'tar', 'TAR623G1665' => 'tar', 'TAR633G2373' => 'tar', 'TAR636G1400' => 'tar', 'THA.LOC104800529' => 'tha', 'THA.LOC104808547' => 'tha', 'THA.LOC104809615' => 'tha', 'THA.LOC104815724' => 'tha', 'THA.LOC104818480' => 'tha', 'THA.LOC104819179' => 'tha', 'THA.LOC104822270' => 'tha', 'THA.LOC104826425' => 'tha', 'Thecc.02G089700' => 'tca', 'Thecc.04G232300' => 'tca', 'Thecc.09G283400' => 'tca', 'Thhalv10009020m.g' => 'esa', 'Thhalv10015506m.g' => 'esa', 'Thhalv10017364m.g' => 'esa', 'Thhalv10023742m.g' => 'esa', 'Thhalv10026483m.g' => 'esa', 'TPR.G17232' => 'tpr', 'TPR.G2133' => 'tpr', 'TPR.G2498' => 'tpr', 'TPR.G31942' => 'tpr', 'TPR.G37877' => 'tpr', 'TPR.G4571' => 'tpr', 'TWI14G1113' => 'twi', 'TWI15G0426' => 'twi', 'TWI31G1005' => 'twi', 'TWI38G0513' => 'twi', 'TWI38G1484' => 'twi', 'TWI73G1098' => 'twi', 'unitig_26.g10519' => 'ugi', 'unitig_736.g22395' => 'ugi', 'unitig_747.g21234' => 'ugi', 'unitig_747.g21942' => 'ugi', 'vmacro14351' => 'vma', 'VMungo0540G0082' => 'vmu', 'VMungo0540G0405' => 'vmu', 'VMungo0540G1486' => 'vmu', 'VMungo0540G1692' => 'vmu', 'VMungo0720G2473' => 'vmu', 'VMungo1127G1562' => 'vmu', 'VMungo1215G1918' => 'vmu', 'Zm00001eb052650' => 'zma', 'Zm00001eb063710' => 'zma', 'Zm00001eb083950' => 'zma', 'Zm00001eb174420' => 'zma', 'Zm00001eb260140' => 'zma', 'Zm00001eb260150' => 'zma', 'Zm00001eb260160' => 'zma', 'Zm00001eb348290' => 'zma', 'Zm00001eb366870' => 'zma', 'Zm00001eb421930' => 'zma' ) $gf_id = 'HOM05D001025' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001025' ) $data_identifier = 'HOM05D001025' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 19, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 2, 'amhyb' => (int) 4, 'aly' => (int) 4, 'aox' => (int) 4, 'arhy' => (int) 3, 'ath' => (int) 5, 'atr' => (int) 4, 'acertr' => (int) 3, 'cqu' => (int) 7, 'bca' => (int) 17, 'bol' => (int) 10, 'bra' => (int) 9, 'can' => (int) 10, 'cansat' => (int) 6, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 5, 'cbr' => (int) 5, 'ccan' => (int) 5, 'cde' => (int) 4, 'cfa' => (int) 3, 'ccl' => (int) 6, 'cil' => (int) 4, 'cla' => (int) 3, 'col' => (int) 3, 'cpa' => (int) 3, 'cre' => (int) 7, 'csa' => (int) 5, 'camsi' => (int) 9, 'dca' => (int) 4, 'din' => (int) 5, 'dzi' => (int) 7, 'eca' => (int) 6, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 12, 'fve' => (int) 4, 'gma' => (int) 12, 'ghi' => (int) 17, 'gra' => (int) 9, 'vvi' => (int) 2, 'han' => (int) 8, 'cav' => (int) 5, 'hma' => (int) 9, 'vpl' => (int) 4, 'sun' => (int) 2, 'lal' => (int) 9, 'lja' => (int) 5, 'lonja' => (int) 6, 'lsa' => (int) 3, 'mes' => (int) 8, 'mpo' => (int) 3, 'mbi' => (int) 4, 'mco' => (int) 3, 'mdo' => (int) 5, 'mtr' => (int) 7, 'cme' => (int) 6, 'egut' => (int) 7, 'ama' => (int) 3, 'nta' => (int) 12, 'nnu' => (int) 9, 'oeu' => (int) 4, 'osa' => (int) 7, 'pax' => (int) 9, 'pgr' => (int) 5, 'stu' => (int) 8, 'pvu' => (int) 6, 'ptr' => (int) 9, 'ppa' => (int) 9, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 7, 'pso' => (int) 10, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 3, 'sbr' => (int) 8, 'sbo' => (int) 5, 'sci' => (int) 5, 'sed' => (int) 4, 'sgi' => (int) 4, 'sas' => (int) 4, 'smo' => (int) 5, 'sly' => (int) 7, 'spe' => (int) 10, 'spa' => (int) 5, 'tar' => (int) 5, 'tha' => (int) 8, 'tca' => (int) 3, 'esa' => (int) 5, 'tpr' => (int) 6, 'twi' => (int) 6, 'ugi' => (int) 4, 'vma' => (int) 1, 'vmu' => (int) 7, 'zma' => (int) 10 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb421930' $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' => 'HOM05D001025', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '592', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p22650' => 'bna', 'A01p29720' => 'bna', 'A03p26560' => 'bna', 'A03p68820' => 'bna', 'A04p20980' => 'bna', 'A06p07730' => 'bna', 'A07p18260' => 'bna', 'A08p33710' => 'bna', 'A09p16970' => 'bna', 'A10p27490' => 'bna', 'Aa31LG1G17300' => 'aar', 'Aa31LG1G3910' => 'aar', 'Aa31LG2G9630' => 'aar', 'Aa31LG5G8360' => 'aar', 'Aa31LG9G2410' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4699' => 'aag', 'Actinidia23512' => 'ach', 'Actinidia37080' => 'ach', 'Ah.01g020380' => 'amhyb', 'Ah.08g215710' => 'amhyb', 'Ah.09g225110' => 'amhyb', 'Ah.10g036680' => 'amhyb', 'AL1G21940' => 'aly', 'AL2G15540' => 'aly', 'AL4G21520' => 'aly', 'AL7G40960' => 'aly', 'Aqoxy2G01191' => 'aox', 'Aqoxy2G03393' => 'aox', 'Aqoxy4G02775' => 'aox', 'Aqoxy6G00058' => 'aox', 'arahy.Tifrunner.gnm1.ann1.9X74H2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CW3FX9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R485W7' => 'arhy', 'AT1G10960' => 'ath', 'AT1G60950' => 'ath', 'AT2G27510' => 'ath', 'AT4G14890' => 'ath', 'AT5G10000' => 'ath', 'ATR0665G624' => 'atr', 'ATR0697G138' => 'atr', 'ATR0776G046' => 'atr', 'ATR1134G135' => 'atr', 'Atru.chr12.1025' => 'acertr', 'Atru.chr3.3241' => 'acertr', 'Atru.chr4.2460' => 'acertr', 'AUR62007427' => 'cqu', 'AUR62010960' => 'cqu', 'AUR62012201' => 'cqu', 'AUR62021470' => 'cqu', 'AUR62022834' => 'cqu', 'AUR62033635' => 'cqu', 'AUR62036186' => 'cqu', 'BcaB01g03077' => 'bca', 'BcaB02g10093' => 'bca', 'BcaB04g20295' => 'bca', 'BcaB06g28147' => 'bca', 'BcaB07g31253' => 'bca', 'BcaC01g04946' => 'bca', 'BcaC02g10614' => 'bca', 'BcaC02g10885' => 'bca', 'BcaC04g19356' => 'bca', 'BcaC04g22297' => 'bca', 'BcaC05g24977' => 'bca', 'BcaC06g31823' => 'bca', 'BcaC07g38633' => 'bca', 'BcaC09g49353' => 'bca', 'BcaC09g50168' => 'bca', 'BcaNung00322' => 'bca', 'BcaNung04769' => 'bca', 'BolC1t02753H' => 'bol', 'BolC1t03721H' => 'bol', 'BolC3t15525H' => 'bol', 'BolC4t23903H' => 'bol', 'BolC4t24231H' => 'bol', 'BolC4t27209H' => 'bol', 'BolC5t29671H' => 'bol', 'BolC8t49044H' => 'bol', 'BolC9t54999H' => 'bol', 'BolC9t59517H' => 'bol', 'BraA01t02178Z' => 'bra', 'BraA01t03099Z' => 'bra', 'BraA03t11867Z' => 'bra', 'BraA04t17667Z' => 'bra', 'BraA07t29542Z' => 'bra', 'BraA08t35287Z' => 'bra', 'BraA09t37334Z' => 'bra', 'BraA10t44801Z' => 'bra', 'BraSC39t46181Z' => 'bra', 'C01p28240' => 'bna', 'C01p37530' => 'bna', 'C03p31820' => 'bna', 'C04p24080' => 'bna', 'C04p25790' => 'bna', 'C04p56770' => 'bna', 'C05p09310' => 'bna', 'C09p21010' => 'bna', 'C09p67560' => 'bna', 'CAN.G1324.7' => 'can', 'CAN.G1358.10' => 'can', 'CAN.G1550.2' => 'can', 'CAN.G186.56' => 'can', 'CAN.G1965.1' => 'can', 'CAN.G645.15' => 'can', 'CAN.G798.26' => 'can', 'CAN.G798.27' => 'can', 'CAN.G798.29' => 'can', 'CAN.G919.31' => 'can', 'CANSAT11G0133' => 'cansat', 'CANSAT11G1171' => 'cansat', 'CANSAT11G2056' => 'cansat', 'CANSAT56G1202' => 'cansat', 'CANSAT56G1514' => 'cansat', 'CANSAT78G0455' => 'cansat', 'CARHR011190' => 'chi', 'CARHR051980' => 'chi', 'CARHR120170' => 'chi', 'CARHR203310' => 'chi', 'CARHR221490' => 'chi', 'Carub.0001s1054' => 'cru', 'Carub.0002s0431' => 'cru', 'Carub.0004s0818' => 'cru', 'Carub.0006s0846' => 'cru', 'Carub.0007s2722' => 'cru', 'Ca_00058_v3' => 'car', 'Ca_17831_v3' => 'car', 'Ca_19408_v3' => 'car', 'Ca_24397_v3' => 'car', 'Ca_25664_v3' => 'car', 'CBR_g21818' => 'cbr', 'CBR_g31195' => 'cbr', 'CBR_g32282' => 'cbr', 'CBR_g39599' => 'cbr', 'CBR_g49410' => 'cbr', 'Cc01_g09120' => 'ccan', 'Cc01_g09130' => 'ccan', 'Cc02_g09630' => 'ccan', 'Cc02_g22810' => 'ccan', 'Cc03_g03810' => 'ccan', 'CDE02G3718' => 'cde', 'CDE04G3183' => 'cde', 'CDE07G1046' => 'cde', 'CDE08G0480' => 'cde', 'Cfa005493' => 'cfa', 'Cfa010312' => 'cfa', 'Cfa015648' => 'cfa', 'Ciclev10002793m.g' => 'ccl', 'Ciclev10003356m.g' => 'ccl', 'Ciclev10006141m.g' => 'ccl', 'Ciclev10016676m.g' => 'ccl', 'Ciclev10017081m.g' => 'ccl', 'Ciclev10029499m.g' => 'ccl', 'CiPaw.01G166300' => 'cil', 'CiPaw.06G145600' => 'cil', 'CiPaw.13G040100' => 'cil', 'CiPaw.13G135800' => 'cil', 'ClCG01G012230' => 'cla', 'ClCG05G009510' => 'cla', 'ClCG08G008270' => 'cla', 'COL.COLO4_11763' => 'col', 'COL.COLO4_19876' => 'col', 'COL.COLO4_21481' => 'col', 'Cpa.g.sc118.34' => 'cpa', 'Cpa.g.sc32.13' => 'cpa', 'Cpa.g.sc58.103' => 'cpa', 'Cre03.g183850' => 'cre', 'Cre06.g306350' => 'cre', 'Cre07.g334800' => 'cre', 'Cre12.g487900' => 'cre', 'Cre14.g626700' => 'cre', 'Cre16.g658400' => 'cre', 'Cre17.g700950' => 'cre', 'CsaV3_1G014830' => 'csa', 'CsaV3_3G013320' => 'csa', 'CsaV3_3G019210' => 'csa', 'CsaV3_3G019220' => 'csa', 'CsaV3_6G004230' => 'csa', 'CSS0003773' => 'camsi', 'CSS0004563' => 'camsi', 'CSS0013949' => 'camsi', 'CSS0025971' => 'camsi', 'CSS0028570' => 'camsi', 'CSS0033127' => 'camsi', 'CSS0036051' => 'camsi', 'CSS0040087' => 'camsi', 'CSS0043179' => 'camsi', 'DCAR_006161' => 'dca', 'DCAR_010351' => 'dca', 'DCAR_012197' => 'dca', 'DCAR_024162' => 'dca', 'Dinv01030' => 'din', 'Dinv10924' => 'din', 'Dinv11835' => 'din', 'Dinv22841' => 'din', 'Dinv42553' => 'din', 'Duzib052G0560' => 'dzi', 'Duzib132G0389' => 'dzi', 'Duzib150G1181' => 'dzi', 'Duzib168G0623' => 'dzi', 'Duzib170G1036' => 'dzi', 'Duzib212G0200' => 'dzi', 'Duzib248G0194' => 'dzi', 'ECA232G2193' => 'eca', 'ECA233G0302' => 'eca', 'ECA234G2813' => 'eca', 'ECA234G4866' => 'eca', 'ECA240G3932' => 'eca', 'ECA248G0385' => 'eca', 'EL10Ac2g04781' => 'bvu', 'EL10Ac3g06445' => 'bvu', 'EL10Ac7g15825' => 'bvu', 'EL10Ac8g18550' => 'bvu', 'Eucgr.B03849' => 'egr', 'Eucgr.I02744' => 'egr', 'Eucgr.J00264' => 'egr', 'Eucgr.J00493' => 'egr', 'FAN04G2181' => 'fan', 'FAN07G2666' => 'fan', 'FAN11G0024' => 'fan', 'FAN12G1105' => 'fan', 'FAN13G0302' => 'fan', 'FAN15G2781' => 'fan', 'FAN16G1274' => 'fan', 'FAN17G2988' => 'fan', 'FAN18G2621' => 'fan', 'FAN21G0013' => 'fan', 'FAN22G1211' => 'fan', 'FAN25G3626' => 'fan', 'FvH4_2g09491' => 'fve', 'FvH4_3g24910' => 'fve', 'FvH4_4g15630' => 'fve', 'FvH4_5g28820' => 'fve', 'Glyma.01G238000' => 'gma', 'Glyma.05G168400' => 'gma', 'Glyma.08G126800' => 'gma', 'Glyma.08G188500' => 'gma', 'Glyma.10G278900' => 'gma', 'Glyma.11G005700' => 'gma', 'Glyma.11G183300' => 'gma', 'Glyma.12G089200' => 'gma', 'Glyma.12G169400' => 'gma', 'Glyma.12G169500' => 'gma', 'Glyma.12G169600' => 'gma', 'Glyma.20G110800' => 'gma', 'Gohir.A03G192900' => 'ghi', 'Gohir.A03G193000' => 'ghi', 'Gohir.A05G080700' => 'ghi', 'Gohir.A09G216000' => 'ghi', 'Gohir.A12G027700' => 'ghi', 'Gohir.A13G036200' => 'ghi', 'Gohir.A13G222600' => 'ghi', 'Gohir.D02G213900' => 'ghi', 'Gohir.D02G214000' => 'ghi', 'Gohir.D05G083700' => 'ghi', 'Gohir.D05G083800' => 'ghi', 'Gohir.D05G083850' => 'ghi', 'Gohir.D08G015400' => 'ghi', 'Gohir.D09G218400' => 'ghi', 'Gohir.D12G027100' => 'ghi', 'Gohir.D13G034500' => 'ghi', 'Gohir.D13G227400' => 'ghi', 'Gorai.005G241800' => 'gra', 'Gorai.005G241900' => 'gra', 'Gorai.006G239400' => 'gra', 'Gorai.008G027600' => 'gra', 'Gorai.009G085400' => 'gra', 'Gorai.009G085500' => 'gra', 'Gorai.013G039000' => 'gra', 'Gorai.013G194800' => 'gra', 'Gorai.013G257900' => 'gra', 'GSVIVG01000982001' => 'vvi', 'GSVIVG01017981001' => 'vvi', 'HanXRQChr01g0024061' => 'han', 'HanXRQChr09g0247831' => 'han', 'HanXRQChr10g0294611' => 'han', 'HanXRQChr10g0294621' => 'han', 'HanXRQChr11g0346821' => 'han', 'HanXRQChr13g0397461' => 'han', 'HanXRQChr16g0513651' => 'han', 'HanXRQChr16g0513701' => 'han', 'Haze_00897' => 'cav', 'Haze_01745' => 'cav', 'Haze_02486' => 'cav', 'Haze_02487' => 'cav', 'Haze_23374' => 'cav', 'Hma1.2p1_0578F.1_g182520' => 'hma', 'Hma1.2p1_0602F.1_g187350' => 'hma', 'Hma1.2p1_0602F.1_g187360' => 'hma', 'Hma1.2p1_0874F.1_g231320' => 'hma', 'Hma1.2p1_1197F.1_g266210' => 'hma', 'Hma1.2p1_1197F.1_g266220' => 'hma', 'Hma1.2p1_2167F.1_g315895' => 'hma', 'Hma1.2p1_2190F.1_g316640' => 'hma', 'Hma1.2p1_3645F.1_g337153' => 'hma', 'HPP92_004907' => 'vpl', 'HPP92_012134' => 'vpl', 'HPP92_025136' => 'vpl', 'HPP92_026087' => 'vpl', 'Hund06782' => 'sun', 'Hund06784' => 'sun', 'Lalb_Chr01g0004861' => 'lal', 'Lalb_Chr02g0140591' => 'lal', 'Lalb_Chr02g0140611' => 'lal', 'Lalb_Chr03g0028101' => 'lal', 'Lalb_Chr07g0185791' => 'lal', 'Lalb_Chr12g0204491' => 'lal', 'Lalb_Chr13g0295671' => 'lal', 'Lalb_Chr19g0136461' => 'lal', 'Lalb_Chr21g0309191' => 'lal', 'Lj1g0028158' => 'lja', 'Lj1P236T38' => 'lonja', 'Lj2C32G2' => 'lonja', 'Lj2P944T8' => 'lonja', 'Lj2P963T15' => 'lonja', 'Lj3g0011788' => 'lja', 'Lj4g0025027' => 'lja', 'Lj5P255T36' => 'lonja', 'Lj6g0018866' => 'lja', 'Lj6P608T31' => 'lonja', 'LjContig00408g0008879' => 'lja', 'Lsat_1_v5_gn_5_105820' => 'lsa', 'Lsat_1_v5_gn_6_38800' => 'lsa', 'Lsat_1_v5_gn_7_67141' => 'lsa', 'Manes.04G003400' => 'mes', 'Manes.07G020000' => 'mes', 'Manes.07G020100' => 'mes', 'Manes.07G020150' => 'mes', 'Manes.10G061500' => 'mes', 'Manes.10G123200' => 'mes', 'Manes.11G161900' => 'mes', 'Manes.15G029300' => 'mes', 'Mapoly0071s0018' => 'mpo', 'Mapoly0082s0023' => 'mpo', 'Mapoly3477s0001' => 'mpo', 'MBI05_g31233_MAGBIO' => 'mbi', 'MBI09_g05946_MAGBIO' => 'mbi', 'MBI09_g05947_MAGBIO' => 'mbi', 'MBI17_g08346_MAGBIO' => 'mbi', 'MCO04G038' => 'mco', 'MCO09G370' => 'mco', 'MCO13G605' => 'mco', 'MD00G1075500' => 'mdo', 'MD03G1144300' => 'mdo', 'MD08G1236800' => 'mdo', 'MD13G1193300' => 'mdo', 'MD15G1428700' => 'mdo', 'Medtr1g112030' => 'mtr', 'Medtr1g112050' => 'mtr', 'Medtr2g006290' => 'mtr', 'Medtr2g086510' => 'mtr', 'Medtr4g053120' => 'mtr', 'Medtr5g006320' => 'mtr', 'Medtr8g088720' => 'mtr', 'MELO3C004712.2' => 'cme', 'MELO3C006533.2' => 'cme', 'MELO3C019438.2' => 'cme', 'MELO3C019440.2' => 'cme', 'MELO3C019441.2' => 'cme', 'MELO3C019895.2' => 'cme', 'Migut.B00811' => 'egut', 'Migut.D02447' => 'egut', 'Migut.F00875' => 'egut', 'Migut.N00186' => 'egut', 'Migut.N01051' => 'egut', 'Migut.N02491' => 'egut', 'Migut.O00784' => 'egut', 'MSTRG.12367' => 'ama', 'MSTRG.18756' => 'ama', 'MSTRG.21042' => 'ama', 'Nitab4.5_0000559g0040' => 'nta', 'Nitab4.5_0000667g0190' => 'nta', 'Nitab4.5_0000755g0160' => 'nta', 'Nitab4.5_0001216g0080' => 'nta', 'Nitab4.5_0004069g0040' => 'nta', 'Nitab4.5_0004129g0010' => 'nta', 'Nitab4.5_0005744g0030' => 'nta', 'Nitab4.5_0006996g0030' => 'nta', 'Nitab4.5_0008971g0040' => 'nta', 'Nitab4.5_0009769g0020' => 'nta', 'Nitab4.5_0009833g0010' => 'nta', 'Nitab4.5_0013140g0020' => 'nta', 'Nn003s41376' => 'nnu', 'Nn1g01857' => 'nnu', 'Nn1g03611' => 'nnu', 'Nn1g06853' => 'nnu', 'Nn3g18360' => 'nnu', 'Nn4g26328' => 'nnu', 'Nn5g27531' => 'nnu', 'Nn6g34899' => 'nnu', 'Nn7g36299' => 'nnu', 'Oeu021485.1' => 'oeu', 'Oeu022433.1' => 'oeu', 'Oeu032111.1' => 'oeu', 'Oeu051608.1' => 'oeu', 'Os01g0860601' => 'osa', 'Os03g0659200' => 'osa', 'Os03g0835900' => 'osa', 'Os04g0412200' => 'osa', 'Os05g0443500' => 'osa', 'Os07g0251500' => 'osa', 'Os08g0104600' => 'osa', 'Peaxi162Scf00003g00047' => 'pax', 'Peaxi162Scf00003g00052' => 'pax', 'Peaxi162Scf00003g00394' => 'pax', 'Peaxi162Scf00091g00621' => 'pax', 'Peaxi162Scf00152g00146' => 'pax', 'Peaxi162Scf00173g00025' => 'pax', 'Peaxi162Scf00195g00102' => 'pax', 'Peaxi162Scf00402g00013' => 'pax', 'Peaxi162Scf00519g00618' => 'pax', 'PGR004G2838' => 'pgr', 'PGR044G2275' => 'pgr', 'PGR102G1377' => 'pgr', 'PGR119G1245' => 'pgr', 'PGR142G4449' => 'pgr', 'PGSC0003DMG400004532' => 'stu', 'PGSC0003DMG400011950' => 'stu', 'PGSC0003DMG400023391' => 'stu', 'PGSC0003DMG400023985' => 'stu', 'PGSC0003DMG400026360' => 'stu', 'PGSC0003DMG400035711' => 'stu', 'PGSC0003DMG400037286' => 'stu', 'PGSC0003DMG402005881' => 'stu', 'Phvul.002G045400' => 'pvu', 'Phvul.006G216600' => 'pvu', 'Phvul.006G216700' => 'pvu', 'Phvul.006G216800' => 'pvu', 'Phvul.007G022500' => 'pvu', 'Phvul.011G094400' => 'pvu', 'Potri.001G470700' => 'ptr', 'Potri.003G015200' => 'ptr', 'Potri.004G202500' => 'ptr', 'Potri.004G218400' => 'ptr', 'Potri.008G020100' => 'ptr', 'Potri.008G153200' => 'ptr', 'Potri.009G163800' => 'ptr', 'Potri.010G087300' => 'ptr', 'Potri.010G239100' => 'ptr', 'Pp3c10_16100' => 'ppa', 'Pp3c10_16880' => 'ppa', 'Pp3c16_6230' => 'ppa', 'Pp3c17_18910' => 'ppa', 'Pp3c3_22119' => 'ppa', 'Pp3c3_22140' => 'ppa', 'Pp3c4_8159' => 'ppa', 'Pp3c4_8171' => 'ppa', 'Pp3c4_8330' => 'ppa', 'PRCOL_00004098' => 'pco', 'Prupe.1G013900' => 'ppe', 'Prupe.1G226300' => 'ppe', 'Prupe.1G573600' => 'ppe', 'Prupe.6G130100' => 'ppe', 'Psat3g090040' => 'psa', 'Psat4g210440' => 'psa', 'Psat6g231040' => 'psa', 'Psat6g231080' => 'psa', 'Psat7g063000' => 'psa', 'Psat7g188000' => 'psa', 'Psat7g188040' => 'psa', 'PSO017G0206' => 'pso', 'PSO170G0501' => 'pso', 'PSO170G6422' => 'pso', 'PSO210G7739' => 'pso', 'PSO339G1808' => 'pso', 'PSO339G6135' => 'pso', 'PSO384G0010' => 'pso', 'PSO384G0964' => 'pso', 'PSO761G0050' => 'pso', 'PSO782G4085' => 'pso', 'QL01p012264' => 'qlo', 'QL02p099491' => 'qlo', 'QL03p033868' => 'qlo', 'QL04p046678' => 'qlo', 'QL06p002448' => 'qlo', 'RcHm_v2.0_Chr4g0416181' => 'rch', 'RcHm_v2.0_Chr5g0044701' => 'rch', 'RcHm_v2.0_Chr6g0265781' => 'rch', 'RcHm_v2.0_Chr7g0221031' => 'rch', 'Rhsim04G0202000' => 'rsi', 'Rhsim11G0127300' => 'rsi', 'Rhsim13G0111800' => 'rsi', 'Sabra01G0165600' => 'sbr', 'Sabra03G0008300' => 'sbr', 'Sabra04G0136900' => 'sbr', 'Sabra08G0013400' => 'sbr', 'Sabra08G0116800' => 'sbr', 'Sabra09G0128000' => 'sbr', 'Sabra10G0055500' => 'sbr', 'Sabra10G0073300' => 'sbr', 'SalBow3G0385' => 'sbo', 'SalBow3G1119' => 'sbo', 'SalBow3G2005' => 'sbo', 'SalBow6G2563' => 'sbo', 'SalBow6G6386' => 'sbo', 'Sc06g0008800' => 'sci', 'Sc07g0004950' => 'sci', 'Sc09g0005340' => 'sci', 'Sc13g0004410' => 'sci', 'Sc21g0007090' => 'sci', 'Sed0009285' => 'sed', 'Sed0017583' => 'sed', 'Sed0019699' => 'sed', 'Sed0023107' => 'sed', 'SEGI_10916' => 'sgi', 'SEGI_16217' => 'sgi', 'SEGI_19466' => 'sgi', 'SEGI_41115' => 'sgi', 'SGA_v2.0_scaffold111G31534' => 'sas', 'SGA_v2.0_scaffold22G09864' => 'sas', 'SGA_v2.0_scaffold338G49219' => 'sas', 'SGA_v2.0_scaffold92G28298' => 'sas', 'SMO119G0064' => 'smo', 'SMO223G0038' => 'smo', 'SMO347G0584' => 'smo', 'SMO351G0010' => 'smo', 'SMO356G0404' => 'smo', 'Solyc01g103920.3' => 'sly', 'Solyc04g009710.2' => 'sly', 'Solyc05g055280.2' => 'sly', 'Solyc10g044520.3' => 'sly', 'Solyc10g075160.1' => 'sly', 'Solyc11g006910.3' => 'sly', 'Solyc11g068430.3' => 'sly', 'Sopen01g046310' => 'spe', 'Sopen03g001200' => 'spe', 'Sopen04g004830' => 'spe', 'Sopen05g033720' => 'spe', 'Sopen06g030740' => 'spe', 'Sopen10g013090' => 'spe', 'Sopen10g027630' => 'spe', 'Sopen10g027640' => 'spe', 'Sopen11g002820' => 'spe', 'Sopen11g027140' => 'spe', 'Sp1g09680' => 'spa', 'Sp2g03630' => 'spa', 'Sp4g10320' => 'spa', 'Sp6g33400' => 'spa', 'Sp7g13030' => 'spa', 'TAR365G0317' => 'tar', 'TAR376G0979' => 'tar', 'TAR623G1665' => 'tar', 'TAR633G2373' => 'tar', 'TAR636G1400' => 'tar', 'THA.LOC104800529' => 'tha', 'THA.LOC104808547' => 'tha', 'THA.LOC104809615' => 'tha', 'THA.LOC104815724' => 'tha', 'THA.LOC104818480' => 'tha', 'THA.LOC104819179' => 'tha', 'THA.LOC104822270' => 'tha', 'THA.LOC104826425' => 'tha', 'Thecc.02G089700' => 'tca', 'Thecc.04G232300' => 'tca', 'Thecc.09G283400' => 'tca', 'Thhalv10009020m.g' => 'esa', 'Thhalv10015506m.g' => 'esa', 'Thhalv10017364m.g' => 'esa', 'Thhalv10023742m.g' => 'esa', 'Thhalv10026483m.g' => 'esa', 'TPR.G17232' => 'tpr', 'TPR.G2133' => 'tpr', 'TPR.G2498' => 'tpr', 'TPR.G31942' => 'tpr', 'TPR.G37877' => 'tpr', 'TPR.G4571' => 'tpr', 'TWI14G1113' => 'twi', 'TWI15G0426' => 'twi', 'TWI31G1005' => 'twi', 'TWI38G0513' => 'twi', 'TWI38G1484' => 'twi', 'TWI73G1098' => 'twi', 'unitig_26.g10519' => 'ugi', 'unitig_736.g22395' => 'ugi', 'unitig_747.g21234' => 'ugi', 'unitig_747.g21942' => 'ugi', 'vmacro14351' => 'vma', 'VMungo0540G0082' => 'vmu', 'VMungo0540G0405' => 'vmu', 'VMungo0540G1486' => 'vmu', 'VMungo0540G1692' => 'vmu', 'VMungo0720G2473' => 'vmu', 'VMungo1127G1562' => 'vmu', 'VMungo1215G1918' => 'vmu', 'Zm00001eb052650' => 'zma', 'Zm00001eb063710' => 'zma', 'Zm00001eb083950' => 'zma', 'Zm00001eb174420' => 'zma', 'Zm00001eb260140' => 'zma', 'Zm00001eb260150' => 'zma', 'Zm00001eb260160' => 'zma', 'Zm00001eb348290' => 'zma', 'Zm00001eb366870' => 'zma', 'Zm00001eb421930' => 'zma' ), 'gf_id' => 'HOM05D001025', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001025' ), 'data_identifier' => 'HOM05D001025', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001025', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '592', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p22650' => 'bna', 'A01p29720' => 'bna', 'A03p26560' => 'bna', 'A03p68820' => 'bna', 'A04p20980' => 'bna', 'A06p07730' => 'bna', 'A07p18260' => 'bna', 'A08p33710' => 'bna', 'A09p16970' => 'bna', 'A10p27490' => 'bna', 'Aa31LG1G17300' => 'aar', 'Aa31LG1G3910' => 'aar', 'Aa31LG2G9630' => 'aar', 'Aa31LG5G8360' => 'aar', 'Aa31LG9G2410' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4699' => 'aag', 'Actinidia23512' => 'ach', 'Actinidia37080' => 'ach', 'Ah.01g020380' => 'amhyb', 'Ah.08g215710' => 'amhyb', 'Ah.09g225110' => 'amhyb', 'Ah.10g036680' => 'amhyb', 'AL1G21940' => 'aly', 'AL2G15540' => 'aly', 'AL4G21520' => 'aly', 'AL7G40960' => 'aly', 'Aqoxy2G01191' => 'aox', 'Aqoxy2G03393' => 'aox', 'Aqoxy4G02775' => 'aox', 'Aqoxy6G00058' => 'aox', 'arahy.Tifrunner.gnm1.ann1.9X74H2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CW3FX9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R485W7' => 'arhy', 'AT1G10960' => 'ath', 'AT1G60950' => 'ath', 'AT2G27510' => 'ath', 'AT4G14890' => 'ath', 'AT5G10000' => 'ath', 'ATR0665G624' => 'atr', 'ATR0697G138' => 'atr', 'ATR0776G046' => 'atr', 'ATR1134G135' => 'atr', 'Atru.chr12.1025' => 'acertr', 'Atru.chr3.3241' => 'acertr', 'Atru.chr4.2460' => 'acertr', 'AUR62007427' => 'cqu', 'AUR62010960' => 'cqu', 'AUR62012201' => 'cqu', 'AUR62021470' => 'cqu', 'AUR62022834' => 'cqu', 'AUR62033635' => 'cqu', 'AUR62036186' => 'cqu', 'BcaB01g03077' => 'bca', 'BcaB02g10093' => 'bca', 'BcaB04g20295' => 'bca', 'BcaB06g28147' => 'bca', 'BcaB07g31253' => 'bca', 'BcaC01g04946' => 'bca', 'BcaC02g10614' => 'bca', 'BcaC02g10885' => 'bca', 'BcaC04g19356' => 'bca', 'BcaC04g22297' => 'bca', 'BcaC05g24977' => 'bca', 'BcaC06g31823' => 'bca', 'BcaC07g38633' => 'bca', 'BcaC09g49353' => 'bca', 'BcaC09g50168' => 'bca', 'BcaNung00322' => 'bca', 'BcaNung04769' => 'bca', 'BolC1t02753H' => 'bol', 'BolC1t03721H' => 'bol', 'BolC3t15525H' => 'bol', 'BolC4t23903H' => 'bol', 'BolC4t24231H' => 'bol', 'BolC4t27209H' => 'bol', 'BolC5t29671H' => 'bol', 'BolC8t49044H' => 'bol', 'BolC9t54999H' => 'bol', 'BolC9t59517H' => 'bol', 'BraA01t02178Z' => 'bra', 'BraA01t03099Z' => 'bra', 'BraA03t11867Z' => 'bra', 'BraA04t17667Z' => 'bra', 'BraA07t29542Z' => 'bra', 'BraA08t35287Z' => 'bra', 'BraA09t37334Z' => 'bra', 'BraA10t44801Z' => 'bra', 'BraSC39t46181Z' => 'bra', 'C01p28240' => 'bna', 'C01p37530' => 'bna', 'C03p31820' => 'bna', 'C04p24080' => 'bna', 'C04p25790' => 'bna', 'C04p56770' => 'bna', 'C05p09310' => 'bna', 'C09p21010' => 'bna', 'C09p67560' => 'bna', 'CAN.G1324.7' => 'can', 'CAN.G1358.10' => 'can', 'CAN.G1550.2' => 'can', 'CAN.G186.56' => 'can', 'CAN.G1965.1' => 'can', 'CAN.G645.15' => 'can', 'CAN.G798.26' => 'can', 'CAN.G798.27' => 'can', 'CAN.G798.29' => 'can', 'CAN.G919.31' => 'can', 'CANSAT11G0133' => 'cansat', 'CANSAT11G1171' => 'cansat', 'CANSAT11G2056' => 'cansat', 'CANSAT56G1202' => 'cansat', 'CANSAT56G1514' => 'cansat', 'CANSAT78G0455' => 'cansat', 'CARHR011190' => 'chi', 'CARHR051980' => 'chi', 'CARHR120170' => 'chi', 'CARHR203310' => 'chi', 'CARHR221490' => 'chi', 'Carub.0001s1054' => 'cru', 'Carub.0002s0431' => 'cru', 'Carub.0004s0818' => 'cru', 'Carub.0006s0846' => 'cru', 'Carub.0007s2722' => 'cru', 'Ca_00058_v3' => 'car', 'Ca_17831_v3' => 'car', 'Ca_19408_v3' => 'car', 'Ca_24397_v3' => 'car', 'Ca_25664_v3' => 'car', 'CBR_g21818' => 'cbr', 'CBR_g31195' => 'cbr', 'CBR_g32282' => 'cbr', 'CBR_g39599' => 'cbr', 'CBR_g49410' => 'cbr', 'Cc01_g09120' => 'ccan', 'Cc01_g09130' => 'ccan', 'Cc02_g09630' => 'ccan', 'Cc02_g22810' => 'ccan', 'Cc03_g03810' => 'ccan', 'CDE02G3718' => 'cde', 'CDE04G3183' => 'cde', 'CDE07G1046' => 'cde', 'CDE08G0480' => 'cde', 'Cfa005493' => 'cfa', 'Cfa010312' => 'cfa', 'Cfa015648' => 'cfa', 'Ciclev10002793m.g' => 'ccl', 'Ciclev10003356m.g' => 'ccl', 'Ciclev10006141m.g' => 'ccl', 'Ciclev10016676m.g' => 'ccl', 'Ciclev10017081m.g' => 'ccl', 'Ciclev10029499m.g' => 'ccl', 'CiPaw.01G166300' => 'cil', 'CiPaw.06G145600' => 'cil', 'CiPaw.13G040100' => 'cil', 'CiPaw.13G135800' => 'cil', 'ClCG01G012230' => 'cla', 'ClCG05G009510' => 'cla', 'ClCG08G008270' => 'cla', 'COL.COLO4_11763' => 'col', 'COL.COLO4_19876' => 'col', 'COL.COLO4_21481' => 'col', 'Cpa.g.sc118.34' => 'cpa', 'Cpa.g.sc32.13' => 'cpa', 'Cpa.g.sc58.103' => 'cpa', 'Cre03.g183850' => 'cre', 'Cre06.g306350' => 'cre', 'Cre07.g334800' => 'cre', 'Cre12.g487900' => 'cre', 'Cre14.g626700' => 'cre', 'Cre16.g658400' => 'cre', 'Cre17.g700950' => 'cre', 'CsaV3_1G014830' => 'csa', 'CsaV3_3G013320' => 'csa', 'CsaV3_3G019210' => 'csa', 'CsaV3_3G019220' => 'csa', 'CsaV3_6G004230' => 'csa', 'CSS0003773' => 'camsi', 'CSS0004563' => 'camsi', 'CSS0013949' => 'camsi', 'CSS0025971' => 'camsi', 'CSS0028570' => 'camsi', 'CSS0033127' => 'camsi', 'CSS0036051' => 'camsi', 'CSS0040087' => 'camsi', 'CSS0043179' => 'camsi', 'DCAR_006161' => 'dca', 'DCAR_010351' => 'dca', 'DCAR_012197' => 'dca', 'DCAR_024162' => 'dca', 'Dinv01030' => 'din', 'Dinv10924' => 'din', 'Dinv11835' => 'din', 'Dinv22841' => 'din', 'Dinv42553' => 'din', 'Duzib052G0560' => 'dzi', 'Duzib132G0389' => 'dzi', 'Duzib150G1181' => 'dzi', 'Duzib168G0623' => 'dzi', 'Duzib170G1036' => 'dzi', 'Duzib212G0200' => 'dzi', 'Duzib248G0194' => 'dzi', 'ECA232G2193' => 'eca', 'ECA233G0302' => 'eca', 'ECA234G2813' => 'eca', 'ECA234G4866' => 'eca', 'ECA240G3932' => 'eca', 'ECA248G0385' => 'eca', 'EL10Ac2g04781' => 'bvu', 'EL10Ac3g06445' => 'bvu', 'EL10Ac7g15825' => 'bvu', 'EL10Ac8g18550' => 'bvu', 'Eucgr.B03849' => 'egr', 'Eucgr.I02744' => 'egr', 'Eucgr.J00264' => 'egr', 'Eucgr.J00493' => 'egr', 'FAN04G2181' => 'fan', 'FAN07G2666' => 'fan', 'FAN11G0024' => 'fan', 'FAN12G1105' => 'fan', 'FAN13G0302' => 'fan', 'FAN15G2781' => 'fan', 'FAN16G1274' => 'fan', 'FAN17G2988' => 'fan', 'FAN18G2621' => 'fan', 'FAN21G0013' => 'fan', 'FAN22G1211' => 'fan', 'FAN25G3626' => 'fan', 'FvH4_2g09491' => 'fve', 'FvH4_3g24910' => 'fve', 'FvH4_4g15630' => 'fve', 'FvH4_5g28820' => 'fve', 'Glyma.01G238000' => 'gma', 'Glyma.05G168400' => 'gma', 'Glyma.08G126800' => 'gma', 'Glyma.08G188500' => 'gma', 'Glyma.10G278900' => 'gma', 'Glyma.11G005700' => 'gma', 'Glyma.11G183300' => 'gma', 'Glyma.12G089200' => 'gma', 'Glyma.12G169400' => 'gma', 'Glyma.12G169500' => 'gma', 'Glyma.12G169600' => 'gma', 'Glyma.20G110800' => 'gma', 'Gohir.A03G192900' => 'ghi', 'Gohir.A03G193000' => 'ghi', 'Gohir.A05G080700' => 'ghi', 'Gohir.A09G216000' => 'ghi', 'Gohir.A12G027700' => 'ghi', 'Gohir.A13G036200' => 'ghi', 'Gohir.A13G222600' => 'ghi', 'Gohir.D02G213900' => 'ghi', 'Gohir.D02G214000' => 'ghi', 'Gohir.D05G083700' => 'ghi', 'Gohir.D05G083800' => 'ghi', 'Gohir.D05G083850' => 'ghi', 'Gohir.D08G015400' => 'ghi', 'Gohir.D09G218400' => 'ghi', 'Gohir.D12G027100' => 'ghi', 'Gohir.D13G034500' => 'ghi', 'Gohir.D13G227400' => 'ghi', 'Gorai.005G241800' => 'gra', 'Gorai.005G241900' => 'gra', 'Gorai.006G239400' => 'gra', 'Gorai.008G027600' => 'gra', 'Gorai.009G085400' => 'gra', 'Gorai.009G085500' => 'gra', 'Gorai.013G039000' => 'gra', 'Gorai.013G194800' => 'gra', 'Gorai.013G257900' => 'gra', 'GSVIVG01000982001' => 'vvi', 'GSVIVG01017981001' => 'vvi', 'HanXRQChr01g0024061' => 'han', 'HanXRQChr09g0247831' => 'han', 'HanXRQChr10g0294611' => 'han', 'HanXRQChr10g0294621' => 'han', 'HanXRQChr11g0346821' => 'han', 'HanXRQChr13g0397461' => 'han', 'HanXRQChr16g0513651' => 'han', 'HanXRQChr16g0513701' => 'han', 'Haze_00897' => 'cav', 'Haze_01745' => 'cav', 'Haze_02486' => 'cav', 'Haze_02487' => 'cav', 'Haze_23374' => 'cav', 'Hma1.2p1_0578F.1_g182520' => 'hma', 'Hma1.2p1_0602F.1_g187350' => 'hma', 'Hma1.2p1_0602F.1_g187360' => 'hma', 'Hma1.2p1_0874F.1_g231320' => 'hma', 'Hma1.2p1_1197F.1_g266210' => 'hma', 'Hma1.2p1_1197F.1_g266220' => 'hma', 'Hma1.2p1_2167F.1_g315895' => 'hma', 'Hma1.2p1_2190F.1_g316640' => 'hma', 'Hma1.2p1_3645F.1_g337153' => 'hma', 'HPP92_004907' => 'vpl', 'HPP92_012134' => 'vpl', 'HPP92_025136' => 'vpl', 'HPP92_026087' => 'vpl', 'Hund06782' => 'sun', 'Hund06784' => 'sun', 'Lalb_Chr01g0004861' => 'lal', 'Lalb_Chr02g0140591' => 'lal', 'Lalb_Chr02g0140611' => 'lal', 'Lalb_Chr03g0028101' => 'lal', 'Lalb_Chr07g0185791' => 'lal', 'Lalb_Chr12g0204491' => 'lal', 'Lalb_Chr13g0295671' => 'lal', 'Lalb_Chr19g0136461' => 'lal', 'Lalb_Chr21g0309191' => 'lal', 'Lj1g0028158' => 'lja', 'Lj1P236T38' => 'lonja', 'Lj2C32G2' => 'lonja', 'Lj2P944T8' => 'lonja', 'Lj2P963T15' => 'lonja', 'Lj3g0011788' => 'lja', 'Lj4g0025027' => 'lja', 'Lj5P255T36' => 'lonja', 'Lj6g0018866' => 'lja', 'Lj6P608T31' => 'lonja', 'LjContig00408g0008879' => 'lja', 'Lsat_1_v5_gn_5_105820' => 'lsa', 'Lsat_1_v5_gn_6_38800' => 'lsa', 'Lsat_1_v5_gn_7_67141' => 'lsa', 'Manes.04G003400' => 'mes', 'Manes.07G020000' => 'mes', 'Manes.07G020100' => 'mes', 'Manes.07G020150' => 'mes', 'Manes.10G061500' => 'mes', 'Manes.10G123200' => 'mes', 'Manes.11G161900' => 'mes', 'Manes.15G029300' => 'mes', 'Mapoly0071s0018' => 'mpo', 'Mapoly0082s0023' => 'mpo', 'Mapoly3477s0001' => 'mpo', 'MBI05_g31233_MAGBIO' => 'mbi', 'MBI09_g05946_MAGBIO' => 'mbi', 'MBI09_g05947_MAGBIO' => 'mbi', 'MBI17_g08346_MAGBIO' => 'mbi', 'MCO04G038' => 'mco', 'MCO09G370' => 'mco', 'MCO13G605' => 'mco', 'MD00G1075500' => 'mdo', 'MD03G1144300' => 'mdo', 'MD08G1236800' => 'mdo', 'MD13G1193300' => 'mdo', 'MD15G1428700' => 'mdo', 'Medtr1g112030' => 'mtr', 'Medtr1g112050' => 'mtr', 'Medtr2g006290' => 'mtr', 'Medtr2g086510' => 'mtr', 'Medtr4g053120' => 'mtr', 'Medtr5g006320' => 'mtr', 'Medtr8g088720' => 'mtr', 'MELO3C004712.2' => 'cme', 'MELO3C006533.2' => 'cme', 'MELO3C019438.2' => 'cme', 'MELO3C019440.2' => 'cme', 'MELO3C019441.2' => 'cme', 'MELO3C019895.2' => 'cme', 'Migut.B00811' => 'egut', 'Migut.D02447' => 'egut', 'Migut.F00875' => 'egut', 'Migut.N00186' => 'egut', 'Migut.N01051' => 'egut', 'Migut.N02491' => 'egut', 'Migut.O00784' => 'egut', 'MSTRG.12367' => 'ama', 'MSTRG.18756' => 'ama', 'MSTRG.21042' => 'ama', 'Nitab4.5_0000559g0040' => 'nta', 'Nitab4.5_0000667g0190' => 'nta', 'Nitab4.5_0000755g0160' => 'nta', 'Nitab4.5_0001216g0080' => 'nta', 'Nitab4.5_0004069g0040' => 'nta', 'Nitab4.5_0004129g0010' => 'nta', 'Nitab4.5_0005744g0030' => 'nta', 'Nitab4.5_0006996g0030' => 'nta', 'Nitab4.5_0008971g0040' => 'nta', 'Nitab4.5_0009769g0020' => 'nta', 'Nitab4.5_0009833g0010' => 'nta', 'Nitab4.5_0013140g0020' => 'nta', 'Nn003s41376' => 'nnu', 'Nn1g01857' => 'nnu', 'Nn1g03611' => 'nnu', 'Nn1g06853' => 'nnu', 'Nn3g18360' => 'nnu', 'Nn4g26328' => 'nnu', 'Nn5g27531' => 'nnu', 'Nn6g34899' => 'nnu', 'Nn7g36299' => 'nnu', 'Oeu021485.1' => 'oeu', 'Oeu022433.1' => 'oeu', 'Oeu032111.1' => 'oeu', 'Oeu051608.1' => 'oeu', 'Os01g0860601' => 'osa', 'Os03g0659200' => 'osa', 'Os03g0835900' => 'osa', 'Os04g0412200' => 'osa', 'Os05g0443500' => 'osa', 'Os07g0251500' => 'osa', 'Os08g0104600' => 'osa', 'Peaxi162Scf00003g00047' => 'pax', 'Peaxi162Scf00003g00052' => 'pax', 'Peaxi162Scf00003g00394' => 'pax', 'Peaxi162Scf00091g00621' => 'pax', 'Peaxi162Scf00152g00146' => 'pax', 'Peaxi162Scf00173g00025' => 'pax', 'Peaxi162Scf00195g00102' => 'pax', 'Peaxi162Scf00402g00013' => 'pax', 'Peaxi162Scf00519g00618' => 'pax', 'PGR004G2838' => 'pgr', 'PGR044G2275' => 'pgr', 'PGR102G1377' => 'pgr', 'PGR119G1245' => 'pgr', 'PGR142G4449' => 'pgr', 'PGSC0003DMG400004532' => 'stu', 'PGSC0003DMG400011950' => 'stu', 'PGSC0003DMG400023391' => 'stu', 'PGSC0003DMG400023985' => 'stu', 'PGSC0003DMG400026360' => 'stu', 'PGSC0003DMG400035711' => 'stu', 'PGSC0003DMG400037286' => 'stu', 'PGSC0003DMG402005881' => 'stu', 'Phvul.002G045400' => 'pvu', 'Phvul.006G216600' => 'pvu', 'Phvul.006G216700' => 'pvu', 'Phvul.006G216800' => 'pvu', 'Phvul.007G022500' => 'pvu', 'Phvul.011G094400' => 'pvu', 'Potri.001G470700' => 'ptr', 'Potri.003G015200' => 'ptr', 'Potri.004G202500' => 'ptr', 'Potri.004G218400' => 'ptr', 'Potri.008G020100' => 'ptr', 'Potri.008G153200' => 'ptr', 'Potri.009G163800' => 'ptr', 'Potri.010G087300' => 'ptr', 'Potri.010G239100' => 'ptr', 'Pp3c10_16100' => 'ppa', 'Pp3c10_16880' => 'ppa', 'Pp3c16_6230' => 'ppa', 'Pp3c17_18910' => 'ppa', 'Pp3c3_22119' => 'ppa', 'Pp3c3_22140' => 'ppa', 'Pp3c4_8159' => 'ppa', 'Pp3c4_8171' => 'ppa', 'Pp3c4_8330' => 'ppa', 'PRCOL_00004098' => 'pco', 'Prupe.1G013900' => 'ppe', 'Prupe.1G226300' => 'ppe', 'Prupe.1G573600' => 'ppe', 'Prupe.6G130100' => 'ppe', 'Psat3g090040' => 'psa', 'Psat4g210440' => 'psa', 'Psat6g231040' => 'psa', 'Psat6g231080' => 'psa', 'Psat7g063000' => 'psa', 'Psat7g188000' => 'psa', 'Psat7g188040' => 'psa', 'PSO017G0206' => 'pso', 'PSO170G0501' => 'pso', 'PSO170G6422' => 'pso', 'PSO210G7739' => 'pso', 'PSO339G1808' => 'pso', 'PSO339G6135' => 'pso', 'PSO384G0010' => 'pso', 'PSO384G0964' => 'pso', 'PSO761G0050' => 'pso', 'PSO782G4085' => 'pso', 'QL01p012264' => 'qlo', 'QL02p099491' => 'qlo', 'QL03p033868' => 'qlo', 'QL04p046678' => 'qlo', 'QL06p002448' => 'qlo', 'RcHm_v2.0_Chr4g0416181' => 'rch', 'RcHm_v2.0_Chr5g0044701' => 'rch', 'RcHm_v2.0_Chr6g0265781' => 'rch', 'RcHm_v2.0_Chr7g0221031' => 'rch', 'Rhsim04G0202000' => 'rsi', 'Rhsim11G0127300' => 'rsi', 'Rhsim13G0111800' => 'rsi', 'Sabra01G0165600' => 'sbr', 'Sabra03G0008300' => 'sbr', 'Sabra04G0136900' => 'sbr', 'Sabra08G0013400' => 'sbr', 'Sabra08G0116800' => 'sbr', 'Sabra09G0128000' => 'sbr', 'Sabra10G0055500' => 'sbr', 'Sabra10G0073300' => 'sbr', 'SalBow3G0385' => 'sbo', 'SalBow3G1119' => 'sbo', 'SalBow3G2005' => 'sbo', 'SalBow6G2563' => 'sbo', 'SalBow6G6386' => 'sbo', 'Sc06g0008800' => 'sci', 'Sc07g0004950' => 'sci', 'Sc09g0005340' => 'sci', 'Sc13g0004410' => 'sci', 'Sc21g0007090' => 'sci', 'Sed0009285' => 'sed', 'Sed0017583' => 'sed', 'Sed0019699' => 'sed', 'Sed0023107' => 'sed', 'SEGI_10916' => 'sgi', 'SEGI_16217' => 'sgi', 'SEGI_19466' => 'sgi', 'SEGI_41115' => 'sgi', 'SGA_v2.0_scaffold111G31534' => 'sas', 'SGA_v2.0_scaffold22G09864' => 'sas', 'SGA_v2.0_scaffold338G49219' => 'sas', 'SGA_v2.0_scaffold92G28298' => 'sas', 'SMO119G0064' => 'smo', 'SMO223G0038' => 'smo', 'SMO347G0584' => 'smo', 'SMO351G0010' => 'smo', 'SMO356G0404' => 'smo', 'Solyc01g103920.3' => 'sly', 'Solyc04g009710.2' => 'sly', 'Solyc05g055280.2' => 'sly', 'Solyc10g044520.3' => 'sly', 'Solyc10g075160.1' => 'sly', 'Solyc11g006910.3' => 'sly', 'Solyc11g068430.3' => 'sly', 'Sopen01g046310' => 'spe', 'Sopen03g001200' => 'spe', 'Sopen04g004830' => 'spe', 'Sopen05g033720' => 'spe', 'Sopen06g030740' => 'spe', 'Sopen10g013090' => 'spe', 'Sopen10g027630' => 'spe', 'Sopen10g027640' => 'spe', 'Sopen11g002820' => 'spe', 'Sopen11g027140' => 'spe', 'Sp1g09680' => 'spa', 'Sp2g03630' => 'spa', 'Sp4g10320' => 'spa', 'Sp6g33400' => 'spa', 'Sp7g13030' => 'spa', 'TAR365G0317' => 'tar', 'TAR376G0979' => 'tar', 'TAR623G1665' => 'tar', 'TAR633G2373' => 'tar', 'TAR636G1400' => 'tar', 'THA.LOC104800529' => 'tha', 'THA.LOC104808547' => 'tha', 'THA.LOC104809615' => 'tha', 'THA.LOC104815724' => 'tha', 'THA.LOC104818480' => 'tha', 'THA.LOC104819179' => 'tha', 'THA.LOC104822270' => 'tha', 'THA.LOC104826425' => 'tha', 'Thecc.02G089700' => 'tca', 'Thecc.04G232300' => 'tca', 'Thecc.09G283400' => 'tca', 'Thhalv10009020m.g' => 'esa', 'Thhalv10015506m.g' => 'esa', 'Thhalv10017364m.g' => 'esa', 'Thhalv10023742m.g' => 'esa', 'Thhalv10026483m.g' => 'esa', 'TPR.G17232' => 'tpr', 'TPR.G2133' => 'tpr', 'TPR.G2498' => 'tpr', 'TPR.G31942' => 'tpr', 'TPR.G37877' => 'tpr', 'TPR.G4571' => 'tpr', 'TWI14G1113' => 'twi', 'TWI15G0426' => 'twi', 'TWI31G1005' => 'twi', 'TWI38G0513' => 'twi', 'TWI38G1484' => 'twi', 'TWI73G1098' => 'twi', 'unitig_26.g10519' => 'ugi', 'unitig_736.g22395' => 'ugi', 'unitig_747.g21234' => 'ugi', 'unitig_747.g21942' => 'ugi', 'vmacro14351' => 'vma', 'VMungo0540G0082' => 'vmu', 'VMungo0540G0405' => 'vmu', 'VMungo0540G1486' => 'vmu', 'VMungo0540G1692' => 'vmu', 'VMungo0720G2473' => 'vmu', 'VMungo1127G1562' => 'vmu', 'VMungo1215G1918' => 'vmu', 'Zm00001eb052650' => 'zma', 'Zm00001eb063710' => 'zma', 'Zm00001eb083950' => 'zma', 'Zm00001eb174420' => 'zma', 'Zm00001eb260140' => 'zma', 'Zm00001eb260150' => 'zma', 'Zm00001eb260160' => 'zma', 'Zm00001eb348290' => 'zma', 'Zm00001eb366870' => 'zma', 'Zm00001eb421930' => 'zma' ) $gf_id = 'HOM05D001025' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001025' ) $data_identifier = 'HOM05D001025' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 19, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 2, 'amhyb' => (int) 4, 'aly' => (int) 4, 'aox' => (int) 4, 'arhy' => (int) 3, 'ath' => (int) 5, 'atr' => (int) 4, 'acertr' => (int) 3, 'cqu' => (int) 7, 'bca' => (int) 17, 'bol' => (int) 10, 'bra' => (int) 9, 'can' => (int) 10, 'cansat' => (int) 6, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 5, 'cbr' => (int) 5, 'ccan' => (int) 5, 'cde' => (int) 4, 'cfa' => (int) 3, 'ccl' => (int) 6, 'cil' => (int) 4, 'cla' => (int) 3, 'col' => (int) 3, 'cpa' => (int) 3, 'cre' => (int) 7, 'csa' => (int) 5, 'camsi' => (int) 9, 'dca' => (int) 4, 'din' => (int) 5, 'dzi' => (int) 7, 'eca' => (int) 6, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 12, 'fve' => (int) 4, 'gma' => (int) 12, 'ghi' => (int) 17, 'gra' => (int) 9, 'vvi' => (int) 2, 'han' => (int) 8, 'cav' => (int) 5, 'hma' => (int) 9, 'vpl' => (int) 4, 'sun' => (int) 2, 'lal' => (int) 9, 'lja' => (int) 5, 'lonja' => (int) 6, 'lsa' => (int) 3, 'mes' => (int) 8, 'mpo' => (int) 3, 'mbi' => (int) 4, 'mco' => (int) 3, 'mdo' => (int) 5, 'mtr' => (int) 7, 'cme' => (int) 6, 'egut' => (int) 7, 'ama' => (int) 3, 'nta' => (int) 12, 'nnu' => (int) 9, 'oeu' => (int) 4, 'osa' => (int) 7, 'pax' => (int) 9, 'pgr' => (int) 5, 'stu' => (int) 8, 'pvu' => (int) 6, 'ptr' => (int) 9, 'ppa' => (int) 9, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 7, 'pso' => (int) 10, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 3, 'sbr' => (int) 8, 'sbo' => (int) 5, 'sci' => (int) 5, 'sed' => (int) 4, 'sgi' => (int) 4, 'sas' => (int) 4, 'smo' => (int) 5, 'sly' => (int) 7, 'spe' => (int) 10, 'spa' => (int) 5, 'tar' => (int) 5, 'tha' => (int) 8, 'tca' => (int) 3, 'esa' => (int) 5, 'tpr' => (int) 6, 'twi' => (int) 6, 'ugi' => (int) 4, 'vma' => (int) 1, 'vmu' => (int) 7, 'zma' => (int) 10 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb421930' $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' => 'HOM05D001025', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '592', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p22650' => 'bna', 'A01p29720' => 'bna', 'A03p26560' => 'bna', 'A03p68820' => 'bna', 'A04p20980' => 'bna', 'A06p07730' => 'bna', 'A07p18260' => 'bna', 'A08p33710' => 'bna', 'A09p16970' => 'bna', 'A10p27490' => 'bna', 'Aa31LG1G17300' => 'aar', 'Aa31LG1G3910' => 'aar', 'Aa31LG2G9630' => 'aar', 'Aa31LG5G8360' => 'aar', 'Aa31LG9G2410' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4699' => 'aag', 'Actinidia23512' => 'ach', 'Actinidia37080' => 'ach', 'Ah.01g020380' => 'amhyb', 'Ah.08g215710' => 'amhyb', 'Ah.09g225110' => 'amhyb', 'Ah.10g036680' => 'amhyb', 'AL1G21940' => 'aly', 'AL2G15540' => 'aly', 'AL4G21520' => 'aly', 'AL7G40960' => 'aly', 'Aqoxy2G01191' => 'aox', 'Aqoxy2G03393' => 'aox', 'Aqoxy4G02775' => 'aox', 'Aqoxy6G00058' => 'aox', 'arahy.Tifrunner.gnm1.ann1.9X74H2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CW3FX9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R485W7' => 'arhy', 'AT1G10960' => 'ath', 'AT1G60950' => 'ath', 'AT2G27510' => 'ath', 'AT4G14890' => 'ath', 'AT5G10000' => 'ath', 'ATR0665G624' => 'atr', 'ATR0697G138' => 'atr', 'ATR0776G046' => 'atr', 'ATR1134G135' => 'atr', 'Atru.chr12.1025' => 'acertr', 'Atru.chr3.3241' => 'acertr', 'Atru.chr4.2460' => 'acertr', 'AUR62007427' => 'cqu', 'AUR62010960' => 'cqu', 'AUR62012201' => 'cqu', 'AUR62021470' => 'cqu', 'AUR62022834' => 'cqu', 'AUR62033635' => 'cqu', 'AUR62036186' => 'cqu', 'BcaB01g03077' => 'bca', 'BcaB02g10093' => 'bca', 'BcaB04g20295' => 'bca', 'BcaB06g28147' => 'bca', 'BcaB07g31253' => 'bca', 'BcaC01g04946' => 'bca', 'BcaC02g10614' => 'bca', 'BcaC02g10885' => 'bca', 'BcaC04g19356' => 'bca', 'BcaC04g22297' => 'bca', 'BcaC05g24977' => 'bca', 'BcaC06g31823' => 'bca', 'BcaC07g38633' => 'bca', 'BcaC09g49353' => 'bca', 'BcaC09g50168' => 'bca', 'BcaNung00322' => 'bca', 'BcaNung04769' => 'bca', 'BolC1t02753H' => 'bol', 'BolC1t03721H' => 'bol', 'BolC3t15525H' => 'bol', 'BolC4t23903H' => 'bol', 'BolC4t24231H' => 'bol', 'BolC4t27209H' => 'bol', 'BolC5t29671H' => 'bol', 'BolC8t49044H' => 'bol', 'BolC9t54999H' => 'bol', 'BolC9t59517H' => 'bol', 'BraA01t02178Z' => 'bra', 'BraA01t03099Z' => 'bra', 'BraA03t11867Z' => 'bra', 'BraA04t17667Z' => 'bra', 'BraA07t29542Z' => 'bra', 'BraA08t35287Z' => 'bra', 'BraA09t37334Z' => 'bra', 'BraA10t44801Z' => 'bra', 'BraSC39t46181Z' => 'bra', 'C01p28240' => 'bna', 'C01p37530' => 'bna', 'C03p31820' => 'bna', 'C04p24080' => 'bna', 'C04p25790' => 'bna', 'C04p56770' => 'bna', 'C05p09310' => 'bna', 'C09p21010' => 'bna', 'C09p67560' => 'bna', 'CAN.G1324.7' => 'can', 'CAN.G1358.10' => 'can', 'CAN.G1550.2' => 'can', 'CAN.G186.56' => 'can', 'CAN.G1965.1' => 'can', 'CAN.G645.15' => 'can', 'CAN.G798.26' => 'can', 'CAN.G798.27' => 'can', 'CAN.G798.29' => 'can', 'CAN.G919.31' => 'can', 'CANSAT11G0133' => 'cansat', 'CANSAT11G1171' => 'cansat', 'CANSAT11G2056' => 'cansat', 'CANSAT56G1202' => 'cansat', 'CANSAT56G1514' => 'cansat', 'CANSAT78G0455' => 'cansat', 'CARHR011190' => 'chi', 'CARHR051980' => 'chi', 'CARHR120170' => 'chi', 'CARHR203310' => 'chi', 'CARHR221490' => 'chi', 'Carub.0001s1054' => 'cru', 'Carub.0002s0431' => 'cru', 'Carub.0004s0818' => 'cru', 'Carub.0006s0846' => 'cru', 'Carub.0007s2722' => 'cru', 'Ca_00058_v3' => 'car', 'Ca_17831_v3' => 'car', 'Ca_19408_v3' => 'car', 'Ca_24397_v3' => 'car', 'Ca_25664_v3' => 'car', 'CBR_g21818' => 'cbr', 'CBR_g31195' => 'cbr', 'CBR_g32282' => 'cbr', 'CBR_g39599' => 'cbr', 'CBR_g49410' => 'cbr', 'Cc01_g09120' => 'ccan', 'Cc01_g09130' => 'ccan', 'Cc02_g09630' => 'ccan', 'Cc02_g22810' => 'ccan', 'Cc03_g03810' => 'ccan', 'CDE02G3718' => 'cde', 'CDE04G3183' => 'cde', 'CDE07G1046' => 'cde', 'CDE08G0480' => 'cde', 'Cfa005493' => 'cfa', 'Cfa010312' => 'cfa', 'Cfa015648' => 'cfa', 'Ciclev10002793m.g' => 'ccl', 'Ciclev10003356m.g' => 'ccl', 'Ciclev10006141m.g' => 'ccl', 'Ciclev10016676m.g' => 'ccl', 'Ciclev10017081m.g' => 'ccl', 'Ciclev10029499m.g' => 'ccl', 'CiPaw.01G166300' => 'cil', 'CiPaw.06G145600' => 'cil', 'CiPaw.13G040100' => 'cil', 'CiPaw.13G135800' => 'cil', 'ClCG01G012230' => 'cla', 'ClCG05G009510' => 'cla', 'ClCG08G008270' => 'cla', 'COL.COLO4_11763' => 'col', 'COL.COLO4_19876' => 'col', 'COL.COLO4_21481' => 'col', 'Cpa.g.sc118.34' => 'cpa', 'Cpa.g.sc32.13' => 'cpa', 'Cpa.g.sc58.103' => 'cpa', 'Cre03.g183850' => 'cre', 'Cre06.g306350' => 'cre', 'Cre07.g334800' => 'cre', 'Cre12.g487900' => 'cre', 'Cre14.g626700' => 'cre', 'Cre16.g658400' => 'cre', 'Cre17.g700950' => 'cre', 'CsaV3_1G014830' => 'csa', 'CsaV3_3G013320' => 'csa', 'CsaV3_3G019210' => 'csa', 'CsaV3_3G019220' => 'csa', 'CsaV3_6G004230' => 'csa', 'CSS0003773' => 'camsi', 'CSS0004563' => 'camsi', 'CSS0013949' => 'camsi', 'CSS0025971' => 'camsi', 'CSS0028570' => 'camsi', 'CSS0033127' => 'camsi', 'CSS0036051' => 'camsi', 'CSS0040087' => 'camsi', 'CSS0043179' => 'camsi', 'DCAR_006161' => 'dca', 'DCAR_010351' => 'dca', 'DCAR_012197' => 'dca', 'DCAR_024162' => 'dca', 'Dinv01030' => 'din', 'Dinv10924' => 'din', 'Dinv11835' => 'din', 'Dinv22841' => 'din', 'Dinv42553' => 'din', 'Duzib052G0560' => 'dzi', 'Duzib132G0389' => 'dzi', 'Duzib150G1181' => 'dzi', 'Duzib168G0623' => 'dzi', 'Duzib170G1036' => 'dzi', 'Duzib212G0200' => 'dzi', 'Duzib248G0194' => 'dzi', 'ECA232G2193' => 'eca', 'ECA233G0302' => 'eca', 'ECA234G2813' => 'eca', 'ECA234G4866' => 'eca', 'ECA240G3932' => 'eca', 'ECA248G0385' => 'eca', 'EL10Ac2g04781' => 'bvu', 'EL10Ac3g06445' => 'bvu', 'EL10Ac7g15825' => 'bvu', 'EL10Ac8g18550' => 'bvu', 'Eucgr.B03849' => 'egr', 'Eucgr.I02744' => 'egr', 'Eucgr.J00264' => 'egr', 'Eucgr.J00493' => 'egr', 'FAN04G2181' => 'fan', 'FAN07G2666' => 'fan', 'FAN11G0024' => 'fan', 'FAN12G1105' => 'fan', 'FAN13G0302' => 'fan', 'FAN15G2781' => 'fan', 'FAN16G1274' => 'fan', 'FAN17G2988' => 'fan', 'FAN18G2621' => 'fan', 'FAN21G0013' => 'fan', 'FAN22G1211' => 'fan', 'FAN25G3626' => 'fan', 'FvH4_2g09491' => 'fve', 'FvH4_3g24910' => 'fve', 'FvH4_4g15630' => 'fve', 'FvH4_5g28820' => 'fve', 'Glyma.01G238000' => 'gma', 'Glyma.05G168400' => 'gma', 'Glyma.08G126800' => 'gma', 'Glyma.08G188500' => 'gma', 'Glyma.10G278900' => 'gma', 'Glyma.11G005700' => 'gma', 'Glyma.11G183300' => 'gma', 'Glyma.12G089200' => 'gma', 'Glyma.12G169400' => 'gma', 'Glyma.12G169500' => 'gma', 'Glyma.12G169600' => 'gma', 'Glyma.20G110800' => 'gma', 'Gohir.A03G192900' => 'ghi', 'Gohir.A03G193000' => 'ghi', 'Gohir.A05G080700' => 'ghi', 'Gohir.A09G216000' => 'ghi', 'Gohir.A12G027700' => 'ghi', 'Gohir.A13G036200' => 'ghi', 'Gohir.A13G222600' => 'ghi', 'Gohir.D02G213900' => 'ghi', 'Gohir.D02G214000' => 'ghi', 'Gohir.D05G083700' => 'ghi', 'Gohir.D05G083800' => 'ghi', 'Gohir.D05G083850' => 'ghi', 'Gohir.D08G015400' => 'ghi', 'Gohir.D09G218400' => 'ghi', 'Gohir.D12G027100' => 'ghi', 'Gohir.D13G034500' => 'ghi', 'Gohir.D13G227400' => 'ghi', 'Gorai.005G241800' => 'gra', 'Gorai.005G241900' => 'gra', 'Gorai.006G239400' => 'gra', 'Gorai.008G027600' => 'gra', 'Gorai.009G085400' => 'gra', 'Gorai.009G085500' => 'gra', 'Gorai.013G039000' => 'gra', 'Gorai.013G194800' => 'gra', 'Gorai.013G257900' => 'gra', 'GSVIVG01000982001' => 'vvi', 'GSVIVG01017981001' => 'vvi', 'HanXRQChr01g0024061' => 'han', 'HanXRQChr09g0247831' => 'han', 'HanXRQChr10g0294611' => 'han', 'HanXRQChr10g0294621' => 'han', 'HanXRQChr11g0346821' => 'han', 'HanXRQChr13g0397461' => 'han', 'HanXRQChr16g0513651' => 'han', 'HanXRQChr16g0513701' => 'han', 'Haze_00897' => 'cav', 'Haze_01745' => 'cav', 'Haze_02486' => 'cav', 'Haze_02487' => 'cav', 'Haze_23374' => 'cav', 'Hma1.2p1_0578F.1_g182520' => 'hma', 'Hma1.2p1_0602F.1_g187350' => 'hma', 'Hma1.2p1_0602F.1_g187360' => 'hma', 'Hma1.2p1_0874F.1_g231320' => 'hma', 'Hma1.2p1_1197F.1_g266210' => 'hma', 'Hma1.2p1_1197F.1_g266220' => 'hma', 'Hma1.2p1_2167F.1_g315895' => 'hma', 'Hma1.2p1_2190F.1_g316640' => 'hma', 'Hma1.2p1_3645F.1_g337153' => 'hma', 'HPP92_004907' => 'vpl', 'HPP92_012134' => 'vpl', 'HPP92_025136' => 'vpl', 'HPP92_026087' => 'vpl', 'Hund06782' => 'sun', 'Hund06784' => 'sun', 'Lalb_Chr01g0004861' => 'lal', 'Lalb_Chr02g0140591' => 'lal', 'Lalb_Chr02g0140611' => 'lal', 'Lalb_Chr03g0028101' => 'lal', 'Lalb_Chr07g0185791' => 'lal', 'Lalb_Chr12g0204491' => 'lal', 'Lalb_Chr13g0295671' => 'lal', 'Lalb_Chr19g0136461' => 'lal', 'Lalb_Chr21g0309191' => 'lal', 'Lj1g0028158' => 'lja', 'Lj1P236T38' => 'lonja', 'Lj2C32G2' => 'lonja', 'Lj2P944T8' => 'lonja', 'Lj2P963T15' => 'lonja', 'Lj3g0011788' => 'lja', 'Lj4g0025027' => 'lja', 'Lj5P255T36' => 'lonja', 'Lj6g0018866' => 'lja', 'Lj6P608T31' => 'lonja', 'LjContig00408g0008879' => 'lja', 'Lsat_1_v5_gn_5_105820' => 'lsa', 'Lsat_1_v5_gn_6_38800' => 'lsa', 'Lsat_1_v5_gn_7_67141' => 'lsa', 'Manes.04G003400' => 'mes', 'Manes.07G020000' => 'mes', 'Manes.07G020100' => 'mes', 'Manes.07G020150' => 'mes', 'Manes.10G061500' => 'mes', 'Manes.10G123200' => 'mes', 'Manes.11G161900' => 'mes', 'Manes.15G029300' => 'mes', 'Mapoly0071s0018' => 'mpo', 'Mapoly0082s0023' => 'mpo', 'Mapoly3477s0001' => 'mpo', 'MBI05_g31233_MAGBIO' => 'mbi', 'MBI09_g05946_MAGBIO' => 'mbi', 'MBI09_g05947_MAGBIO' => 'mbi', 'MBI17_g08346_MAGBIO' => 'mbi', 'MCO04G038' => 'mco', 'MCO09G370' => 'mco', 'MCO13G605' => 'mco', 'MD00G1075500' => 'mdo', 'MD03G1144300' => 'mdo', 'MD08G1236800' => 'mdo', 'MD13G1193300' => 'mdo', 'MD15G1428700' => 'mdo', 'Medtr1g112030' => 'mtr', 'Medtr1g112050' => 'mtr', 'Medtr2g006290' => 'mtr', 'Medtr2g086510' => 'mtr', 'Medtr4g053120' => 'mtr', 'Medtr5g006320' => 'mtr', 'Medtr8g088720' => 'mtr', 'MELO3C004712.2' => 'cme', 'MELO3C006533.2' => 'cme', 'MELO3C019438.2' => 'cme', 'MELO3C019440.2' => 'cme', 'MELO3C019441.2' => 'cme', 'MELO3C019895.2' => 'cme', 'Migut.B00811' => 'egut', 'Migut.D02447' => 'egut', 'Migut.F00875' => 'egut', 'Migut.N00186' => 'egut', 'Migut.N01051' => 'egut', 'Migut.N02491' => 'egut', 'Migut.O00784' => 'egut', 'MSTRG.12367' => 'ama', 'MSTRG.18756' => 'ama', 'MSTRG.21042' => 'ama', 'Nitab4.5_0000559g0040' => 'nta', 'Nitab4.5_0000667g0190' => 'nta', 'Nitab4.5_0000755g0160' => 'nta', 'Nitab4.5_0001216g0080' => 'nta', 'Nitab4.5_0004069g0040' => 'nta', 'Nitab4.5_0004129g0010' => 'nta', 'Nitab4.5_0005744g0030' => 'nta', 'Nitab4.5_0006996g0030' => 'nta', 'Nitab4.5_0008971g0040' => 'nta', 'Nitab4.5_0009769g0020' => 'nta', 'Nitab4.5_0009833g0010' => 'nta', 'Nitab4.5_0013140g0020' => 'nta', 'Nn003s41376' => 'nnu', 'Nn1g01857' => 'nnu', 'Nn1g03611' => 'nnu', 'Nn1g06853' => 'nnu', 'Nn3g18360' => 'nnu', 'Nn4g26328' => 'nnu', 'Nn5g27531' => 'nnu', 'Nn6g34899' => 'nnu', 'Nn7g36299' => 'nnu', 'Oeu021485.1' => 'oeu', 'Oeu022433.1' => 'oeu', 'Oeu032111.1' => 'oeu', 'Oeu051608.1' => 'oeu', 'Os01g0860601' => 'osa', 'Os03g0659200' => 'osa', 'Os03g0835900' => 'osa', 'Os04g0412200' => 'osa', 'Os05g0443500' => 'osa', 'Os07g0251500' => 'osa', 'Os08g0104600' => 'osa', 'Peaxi162Scf00003g00047' => 'pax', 'Peaxi162Scf00003g00052' => 'pax', 'Peaxi162Scf00003g00394' => 'pax', 'Peaxi162Scf00091g00621' => 'pax', 'Peaxi162Scf00152g00146' => 'pax', 'Peaxi162Scf00173g00025' => 'pax', 'Peaxi162Scf00195g00102' => 'pax', 'Peaxi162Scf00402g00013' => 'pax', 'Peaxi162Scf00519g00618' => 'pax', 'PGR004G2838' => 'pgr', 'PGR044G2275' => 'pgr', 'PGR102G1377' => 'pgr', 'PGR119G1245' => 'pgr', 'PGR142G4449' => 'pgr', 'PGSC0003DMG400004532' => 'stu', 'PGSC0003DMG400011950' => 'stu', 'PGSC0003DMG400023391' => 'stu', 'PGSC0003DMG400023985' => 'stu', 'PGSC0003DMG400026360' => 'stu', 'PGSC0003DMG400035711' => 'stu', 'PGSC0003DMG400037286' => 'stu', 'PGSC0003DMG402005881' => 'stu', 'Phvul.002G045400' => 'pvu', 'Phvul.006G216600' => 'pvu', 'Phvul.006G216700' => 'pvu', 'Phvul.006G216800' => 'pvu', 'Phvul.007G022500' => 'pvu', 'Phvul.011G094400' => 'pvu', 'Potri.001G470700' => 'ptr', 'Potri.003G015200' => 'ptr', 'Potri.004G202500' => 'ptr', 'Potri.004G218400' => 'ptr', 'Potri.008G020100' => 'ptr', 'Potri.008G153200' => 'ptr', 'Potri.009G163800' => 'ptr', 'Potri.010G087300' => 'ptr', 'Potri.010G239100' => 'ptr', 'Pp3c10_16100' => 'ppa', 'Pp3c10_16880' => 'ppa', 'Pp3c16_6230' => 'ppa', 'Pp3c17_18910' => 'ppa', 'Pp3c3_22119' => 'ppa', 'Pp3c3_22140' => 'ppa', 'Pp3c4_8159' => 'ppa', 'Pp3c4_8171' => 'ppa', 'Pp3c4_8330' => 'ppa', 'PRCOL_00004098' => 'pco', 'Prupe.1G013900' => 'ppe', 'Prupe.1G226300' => 'ppe', 'Prupe.1G573600' => 'ppe', 'Prupe.6G130100' => 'ppe', 'Psat3g090040' => 'psa', 'Psat4g210440' => 'psa', 'Psat6g231040' => 'psa', 'Psat6g231080' => 'psa', 'Psat7g063000' => 'psa', 'Psat7g188000' => 'psa', 'Psat7g188040' => 'psa', 'PSO017G0206' => 'pso', 'PSO170G0501' => 'pso', 'PSO170G6422' => 'pso', 'PSO210G7739' => 'pso', 'PSO339G1808' => 'pso', 'PSO339G6135' => 'pso', 'PSO384G0010' => 'pso', 'PSO384G0964' => 'pso', 'PSO761G0050' => 'pso', 'PSO782G4085' => 'pso', 'QL01p012264' => 'qlo', 'QL02p099491' => 'qlo', 'QL03p033868' => 'qlo', 'QL04p046678' => 'qlo', 'QL06p002448' => 'qlo', 'RcHm_v2.0_Chr4g0416181' => 'rch', 'RcHm_v2.0_Chr5g0044701' => 'rch', 'RcHm_v2.0_Chr6g0265781' => 'rch', 'RcHm_v2.0_Chr7g0221031' => 'rch', 'Rhsim04G0202000' => 'rsi', 'Rhsim11G0127300' => 'rsi', 'Rhsim13G0111800' => 'rsi', 'Sabra01G0165600' => 'sbr', 'Sabra03G0008300' => 'sbr', 'Sabra04G0136900' => 'sbr', 'Sabra08G0013400' => 'sbr', 'Sabra08G0116800' => 'sbr', 'Sabra09G0128000' => 'sbr', 'Sabra10G0055500' => 'sbr', 'Sabra10G0073300' => 'sbr', 'SalBow3G0385' => 'sbo', 'SalBow3G1119' => 'sbo', 'SalBow3G2005' => 'sbo', 'SalBow6G2563' => 'sbo', 'SalBow6G6386' => 'sbo', 'Sc06g0008800' => 'sci', 'Sc07g0004950' => 'sci', 'Sc09g0005340' => 'sci', 'Sc13g0004410' => 'sci', 'Sc21g0007090' => 'sci', 'Sed0009285' => 'sed', 'Sed0017583' => 'sed', 'Sed0019699' => 'sed', 'Sed0023107' => 'sed', 'SEGI_10916' => 'sgi', 'SEGI_16217' => 'sgi', 'SEGI_19466' => 'sgi', 'SEGI_41115' => 'sgi', 'SGA_v2.0_scaffold111G31534' => 'sas', 'SGA_v2.0_scaffold22G09864' => 'sas', 'SGA_v2.0_scaffold338G49219' => 'sas', 'SGA_v2.0_scaffold92G28298' => 'sas', 'SMO119G0064' => 'smo', 'SMO223G0038' => 'smo', 'SMO347G0584' => 'smo', 'SMO351G0010' => 'smo', 'SMO356G0404' => 'smo', 'Solyc01g103920.3' => 'sly', 'Solyc04g009710.2' => 'sly', 'Solyc05g055280.2' => 'sly', 'Solyc10g044520.3' => 'sly', 'Solyc10g075160.1' => 'sly', 'Solyc11g006910.3' => 'sly', 'Solyc11g068430.3' => 'sly', 'Sopen01g046310' => 'spe', 'Sopen03g001200' => 'spe', 'Sopen04g004830' => 'spe', 'Sopen05g033720' => 'spe', 'Sopen06g030740' => 'spe', 'Sopen10g013090' => 'spe', 'Sopen10g027630' => 'spe', 'Sopen10g027640' => 'spe', 'Sopen11g002820' => 'spe', 'Sopen11g027140' => 'spe', 'Sp1g09680' => 'spa', 'Sp2g03630' => 'spa', 'Sp4g10320' => 'spa', 'Sp6g33400' => 'spa', 'Sp7g13030' => 'spa', 'TAR365G0317' => 'tar', 'TAR376G0979' => 'tar', 'TAR623G1665' => 'tar', 'TAR633G2373' => 'tar', 'TAR636G1400' => 'tar', 'THA.LOC104800529' => 'tha', 'THA.LOC104808547' => 'tha', 'THA.LOC104809615' => 'tha', 'THA.LOC104815724' => 'tha', 'THA.LOC104818480' => 'tha', 'THA.LOC104819179' => 'tha', 'THA.LOC104822270' => 'tha', 'THA.LOC104826425' => 'tha', 'Thecc.02G089700' => 'tca', 'Thecc.04G232300' => 'tca', 'Thecc.09G283400' => 'tca', 'Thhalv10009020m.g' => 'esa', 'Thhalv10015506m.g' => 'esa', 'Thhalv10017364m.g' => 'esa', 'Thhalv10023742m.g' => 'esa', 'Thhalv10026483m.g' => 'esa', 'TPR.G17232' => 'tpr', 'TPR.G2133' => 'tpr', 'TPR.G2498' => 'tpr', 'TPR.G31942' => 'tpr', 'TPR.G37877' => 'tpr', 'TPR.G4571' => 'tpr', 'TWI14G1113' => 'twi', 'TWI15G0426' => 'twi', 'TWI31G1005' => 'twi', 'TWI38G0513' => 'twi', 'TWI38G1484' => 'twi', 'TWI73G1098' => 'twi', 'unitig_26.g10519' => 'ugi', 'unitig_736.g22395' => 'ugi', 'unitig_747.g21234' => 'ugi', 'unitig_747.g21942' => 'ugi', 'vmacro14351' => 'vma', 'VMungo0540G0082' => 'vmu', 'VMungo0540G0405' => 'vmu', 'VMungo0540G1486' => 'vmu', 'VMungo0540G1692' => 'vmu', 'VMungo0720G2473' => 'vmu', 'VMungo1127G1562' => 'vmu', 'VMungo1215G1918' => 'vmu', 'Zm00001eb052650' => 'zma', 'Zm00001eb063710' => 'zma', 'Zm00001eb083950' => 'zma', 'Zm00001eb174420' => 'zma', 'Zm00001eb260140' => 'zma', 'Zm00001eb260150' => 'zma', 'Zm00001eb260160' => 'zma', 'Zm00001eb348290' => 'zma', 'Zm00001eb366870' => 'zma', 'Zm00001eb421930' => 'zma' ), 'gf_id' => 'HOM05D001025', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001025' ), 'data_identifier' => 'HOM05D001025', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001025', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '592', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p22650' => 'bna', 'A01p29720' => 'bna', 'A03p26560' => 'bna', 'A03p68820' => 'bna', 'A04p20980' => 'bna', 'A06p07730' => 'bna', 'A07p18260' => 'bna', 'A08p33710' => 'bna', 'A09p16970' => 'bna', 'A10p27490' => 'bna', 'Aa31LG1G17300' => 'aar', 'Aa31LG1G3910' => 'aar', 'Aa31LG2G9630' => 'aar', 'Aa31LG5G8360' => 'aar', 'Aa31LG9G2410' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4699' => 'aag', 'Actinidia23512' => 'ach', 'Actinidia37080' => 'ach', 'Ah.01g020380' => 'amhyb', 'Ah.08g215710' => 'amhyb', 'Ah.09g225110' => 'amhyb', 'Ah.10g036680' => 'amhyb', 'AL1G21940' => 'aly', 'AL2G15540' => 'aly', 'AL4G21520' => 'aly', 'AL7G40960' => 'aly', 'Aqoxy2G01191' => 'aox', 'Aqoxy2G03393' => 'aox', 'Aqoxy4G02775' => 'aox', 'Aqoxy6G00058' => 'aox', 'arahy.Tifrunner.gnm1.ann1.9X74H2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CW3FX9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R485W7' => 'arhy', 'AT1G10960' => 'ath', 'AT1G60950' => 'ath', 'AT2G27510' => 'ath', 'AT4G14890' => 'ath', 'AT5G10000' => 'ath', 'ATR0665G624' => 'atr', 'ATR0697G138' => 'atr', 'ATR0776G046' => 'atr', 'ATR1134G135' => 'atr', 'Atru.chr12.1025' => 'acertr', 'Atru.chr3.3241' => 'acertr', 'Atru.chr4.2460' => 'acertr', 'AUR62007427' => 'cqu', 'AUR62010960' => 'cqu', 'AUR62012201' => 'cqu', 'AUR62021470' => 'cqu', 'AUR62022834' => 'cqu', 'AUR62033635' => 'cqu', 'AUR62036186' => 'cqu', 'BcaB01g03077' => 'bca', 'BcaB02g10093' => 'bca', 'BcaB04g20295' => 'bca', 'BcaB06g28147' => 'bca', 'BcaB07g31253' => 'bca', 'BcaC01g04946' => 'bca', 'BcaC02g10614' => 'bca', 'BcaC02g10885' => 'bca', 'BcaC04g19356' => 'bca', 'BcaC04g22297' => 'bca', 'BcaC05g24977' => 'bca', 'BcaC06g31823' => 'bca', 'BcaC07g38633' => 'bca', 'BcaC09g49353' => 'bca', 'BcaC09g50168' => 'bca', 'BcaNung00322' => 'bca', 'BcaNung04769' => 'bca', 'BolC1t02753H' => 'bol', 'BolC1t03721H' => 'bol', 'BolC3t15525H' => 'bol', 'BolC4t23903H' => 'bol', 'BolC4t24231H' => 'bol', 'BolC4t27209H' => 'bol', 'BolC5t29671H' => 'bol', 'BolC8t49044H' => 'bol', 'BolC9t54999H' => 'bol', 'BolC9t59517H' => 'bol', 'BraA01t02178Z' => 'bra', 'BraA01t03099Z' => 'bra', 'BraA03t11867Z' => 'bra', 'BraA04t17667Z' => 'bra', 'BraA07t29542Z' => 'bra', 'BraA08t35287Z' => 'bra', 'BraA09t37334Z' => 'bra', 'BraA10t44801Z' => 'bra', 'BraSC39t46181Z' => 'bra', 'C01p28240' => 'bna', 'C01p37530' => 'bna', 'C03p31820' => 'bna', 'C04p24080' => 'bna', 'C04p25790' => 'bna', 'C04p56770' => 'bna', 'C05p09310' => 'bna', 'C09p21010' => 'bna', 'C09p67560' => 'bna', 'CAN.G1324.7' => 'can', 'CAN.G1358.10' => 'can', 'CAN.G1550.2' => 'can', 'CAN.G186.56' => 'can', 'CAN.G1965.1' => 'can', 'CAN.G645.15' => 'can', 'CAN.G798.26' => 'can', 'CAN.G798.27' => 'can', 'CAN.G798.29' => 'can', 'CAN.G919.31' => 'can', 'CANSAT11G0133' => 'cansat', 'CANSAT11G1171' => 'cansat', 'CANSAT11G2056' => 'cansat', 'CANSAT56G1202' => 'cansat', 'CANSAT56G1514' => 'cansat', 'CANSAT78G0455' => 'cansat', 'CARHR011190' => 'chi', 'CARHR051980' => 'chi', 'CARHR120170' => 'chi', 'CARHR203310' => 'chi', 'CARHR221490' => 'chi', 'Carub.0001s1054' => 'cru', 'Carub.0002s0431' => 'cru', 'Carub.0004s0818' => 'cru', 'Carub.0006s0846' => 'cru', 'Carub.0007s2722' => 'cru', 'Ca_00058_v3' => 'car', 'Ca_17831_v3' => 'car', 'Ca_19408_v3' => 'car', 'Ca_24397_v3' => 'car', 'Ca_25664_v3' => 'car', 'CBR_g21818' => 'cbr', 'CBR_g31195' => 'cbr', 'CBR_g32282' => 'cbr', 'CBR_g39599' => 'cbr', 'CBR_g49410' => 'cbr', 'Cc01_g09120' => 'ccan', 'Cc01_g09130' => 'ccan', 'Cc02_g09630' => 'ccan', 'Cc02_g22810' => 'ccan', 'Cc03_g03810' => 'ccan', 'CDE02G3718' => 'cde', 'CDE04G3183' => 'cde', 'CDE07G1046' => 'cde', 'CDE08G0480' => 'cde', 'Cfa005493' => 'cfa', 'Cfa010312' => 'cfa', 'Cfa015648' => 'cfa', 'Ciclev10002793m.g' => 'ccl', 'Ciclev10003356m.g' => 'ccl', 'Ciclev10006141m.g' => 'ccl', 'Ciclev10016676m.g' => 'ccl', 'Ciclev10017081m.g' => 'ccl', 'Ciclev10029499m.g' => 'ccl', 'CiPaw.01G166300' => 'cil', 'CiPaw.06G145600' => 'cil', 'CiPaw.13G040100' => 'cil', 'CiPaw.13G135800' => 'cil', 'ClCG01G012230' => 'cla', 'ClCG05G009510' => 'cla', 'ClCG08G008270' => 'cla', 'COL.COLO4_11763' => 'col', 'COL.COLO4_19876' => 'col', 'COL.COLO4_21481' => 'col', 'Cpa.g.sc118.34' => 'cpa', 'Cpa.g.sc32.13' => 'cpa', 'Cpa.g.sc58.103' => 'cpa', 'Cre03.g183850' => 'cre', 'Cre06.g306350' => 'cre', 'Cre07.g334800' => 'cre', 'Cre12.g487900' => 'cre', 'Cre14.g626700' => 'cre', 'Cre16.g658400' => 'cre', 'Cre17.g700950' => 'cre', 'CsaV3_1G014830' => 'csa', 'CsaV3_3G013320' => 'csa', 'CsaV3_3G019210' => 'csa', 'CsaV3_3G019220' => 'csa', 'CsaV3_6G004230' => 'csa', 'CSS0003773' => 'camsi', 'CSS0004563' => 'camsi', 'CSS0013949' => 'camsi', 'CSS0025971' => 'camsi', 'CSS0028570' => 'camsi', 'CSS0033127' => 'camsi', 'CSS0036051' => 'camsi', 'CSS0040087' => 'camsi', 'CSS0043179' => 'camsi', 'DCAR_006161' => 'dca', 'DCAR_010351' => 'dca', 'DCAR_012197' => 'dca', 'DCAR_024162' => 'dca', 'Dinv01030' => 'din', 'Dinv10924' => 'din', 'Dinv11835' => 'din', 'Dinv22841' => 'din', 'Dinv42553' => 'din', 'Duzib052G0560' => 'dzi', 'Duzib132G0389' => 'dzi', 'Duzib150G1181' => 'dzi', 'Duzib168G0623' => 'dzi', 'Duzib170G1036' => 'dzi', 'Duzib212G0200' => 'dzi', 'Duzib248G0194' => 'dzi', 'ECA232G2193' => 'eca', 'ECA233G0302' => 'eca', 'ECA234G2813' => 'eca', 'ECA234G4866' => 'eca', 'ECA240G3932' => 'eca', 'ECA248G0385' => 'eca', 'EL10Ac2g04781' => 'bvu', 'EL10Ac3g06445' => 'bvu', 'EL10Ac7g15825' => 'bvu', 'EL10Ac8g18550' => 'bvu', 'Eucgr.B03849' => 'egr', 'Eucgr.I02744' => 'egr', 'Eucgr.J00264' => 'egr', 'Eucgr.J00493' => 'egr', 'FAN04G2181' => 'fan', 'FAN07G2666' => 'fan', 'FAN11G0024' => 'fan', 'FAN12G1105' => 'fan', 'FAN13G0302' => 'fan', 'FAN15G2781' => 'fan', 'FAN16G1274' => 'fan', 'FAN17G2988' => 'fan', 'FAN18G2621' => 'fan', 'FAN21G0013' => 'fan', 'FAN22G1211' => 'fan', 'FAN25G3626' => 'fan', 'FvH4_2g09491' => 'fve', 'FvH4_3g24910' => 'fve', 'FvH4_4g15630' => 'fve', 'FvH4_5g28820' => 'fve', 'Glyma.01G238000' => 'gma', 'Glyma.05G168400' => 'gma', 'Glyma.08G126800' => 'gma', 'Glyma.08G188500' => 'gma', 'Glyma.10G278900' => 'gma', 'Glyma.11G005700' => 'gma', 'Glyma.11G183300' => 'gma', 'Glyma.12G089200' => 'gma', 'Glyma.12G169400' => 'gma', 'Glyma.12G169500' => 'gma', 'Glyma.12G169600' => 'gma', 'Glyma.20G110800' => 'gma', 'Gohir.A03G192900' => 'ghi', 'Gohir.A03G193000' => 'ghi', 'Gohir.A05G080700' => 'ghi', 'Gohir.A09G216000' => 'ghi', 'Gohir.A12G027700' => 'ghi', 'Gohir.A13G036200' => 'ghi', 'Gohir.A13G222600' => 'ghi', 'Gohir.D02G213900' => 'ghi', 'Gohir.D02G214000' => 'ghi', 'Gohir.D05G083700' => 'ghi', 'Gohir.D05G083800' => 'ghi', 'Gohir.D05G083850' => 'ghi', 'Gohir.D08G015400' => 'ghi', 'Gohir.D09G218400' => 'ghi', 'Gohir.D12G027100' => 'ghi', 'Gohir.D13G034500' => 'ghi', 'Gohir.D13G227400' => 'ghi', 'Gorai.005G241800' => 'gra', 'Gorai.005G241900' => 'gra', 'Gorai.006G239400' => 'gra', 'Gorai.008G027600' => 'gra', 'Gorai.009G085400' => 'gra', 'Gorai.009G085500' => 'gra', 'Gorai.013G039000' => 'gra', 'Gorai.013G194800' => 'gra', 'Gorai.013G257900' => 'gra', 'GSVIVG01000982001' => 'vvi', 'GSVIVG01017981001' => 'vvi', 'HanXRQChr01g0024061' => 'han', 'HanXRQChr09g0247831' => 'han', 'HanXRQChr10g0294611' => 'han', 'HanXRQChr10g0294621' => 'han', 'HanXRQChr11g0346821' => 'han', 'HanXRQChr13g0397461' => 'han', 'HanXRQChr16g0513651' => 'han', 'HanXRQChr16g0513701' => 'han', 'Haze_00897' => 'cav', 'Haze_01745' => 'cav', 'Haze_02486' => 'cav', 'Haze_02487' => 'cav', 'Haze_23374' => 'cav', 'Hma1.2p1_0578F.1_g182520' => 'hma', 'Hma1.2p1_0602F.1_g187350' => 'hma', 'Hma1.2p1_0602F.1_g187360' => 'hma', 'Hma1.2p1_0874F.1_g231320' => 'hma', 'Hma1.2p1_1197F.1_g266210' => 'hma', 'Hma1.2p1_1197F.1_g266220' => 'hma', 'Hma1.2p1_2167F.1_g315895' => 'hma', 'Hma1.2p1_2190F.1_g316640' => 'hma', 'Hma1.2p1_3645F.1_g337153' => 'hma', 'HPP92_004907' => 'vpl', 'HPP92_012134' => 'vpl', 'HPP92_025136' => 'vpl', 'HPP92_026087' => 'vpl', 'Hund06782' => 'sun', 'Hund06784' => 'sun', 'Lalb_Chr01g0004861' => 'lal', 'Lalb_Chr02g0140591' => 'lal', 'Lalb_Chr02g0140611' => 'lal', 'Lalb_Chr03g0028101' => 'lal', 'Lalb_Chr07g0185791' => 'lal', 'Lalb_Chr12g0204491' => 'lal', 'Lalb_Chr13g0295671' => 'lal', 'Lalb_Chr19g0136461' => 'lal', 'Lalb_Chr21g0309191' => 'lal', 'Lj1g0028158' => 'lja', 'Lj1P236T38' => 'lonja', 'Lj2C32G2' => 'lonja', 'Lj2P944T8' => 'lonja', 'Lj2P963T15' => 'lonja', 'Lj3g0011788' => 'lja', 'Lj4g0025027' => 'lja', 'Lj5P255T36' => 'lonja', 'Lj6g0018866' => 'lja', 'Lj6P608T31' => 'lonja', 'LjContig00408g0008879' => 'lja', 'Lsat_1_v5_gn_5_105820' => 'lsa', 'Lsat_1_v5_gn_6_38800' => 'lsa', 'Lsat_1_v5_gn_7_67141' => 'lsa', 'Manes.04G003400' => 'mes', 'Manes.07G020000' => 'mes', 'Manes.07G020100' => 'mes', 'Manes.07G020150' => 'mes', 'Manes.10G061500' => 'mes', 'Manes.10G123200' => 'mes', 'Manes.11G161900' => 'mes', 'Manes.15G029300' => 'mes', 'Mapoly0071s0018' => 'mpo', 'Mapoly0082s0023' => 'mpo', 'Mapoly3477s0001' => 'mpo', 'MBI05_g31233_MAGBIO' => 'mbi', 'MBI09_g05946_MAGBIO' => 'mbi', 'MBI09_g05947_MAGBIO' => 'mbi', 'MBI17_g08346_MAGBIO' => 'mbi', 'MCO04G038' => 'mco', 'MCO09G370' => 'mco', 'MCO13G605' => 'mco', 'MD00G1075500' => 'mdo', 'MD03G1144300' => 'mdo', 'MD08G1236800' => 'mdo', 'MD13G1193300' => 'mdo', 'MD15G1428700' => 'mdo', 'Medtr1g112030' => 'mtr', 'Medtr1g112050' => 'mtr', 'Medtr2g006290' => 'mtr', 'Medtr2g086510' => 'mtr', 'Medtr4g053120' => 'mtr', 'Medtr5g006320' => 'mtr', 'Medtr8g088720' => 'mtr', 'MELO3C004712.2' => 'cme', 'MELO3C006533.2' => 'cme', 'MELO3C019438.2' => 'cme', 'MELO3C019440.2' => 'cme', 'MELO3C019441.2' => 'cme', 'MELO3C019895.2' => 'cme', 'Migut.B00811' => 'egut', 'Migut.D02447' => 'egut', 'Migut.F00875' => 'egut', 'Migut.N00186' => 'egut', 'Migut.N01051' => 'egut', 'Migut.N02491' => 'egut', 'Migut.O00784' => 'egut', 'MSTRG.12367' => 'ama', 'MSTRG.18756' => 'ama', 'MSTRG.21042' => 'ama', 'Nitab4.5_0000559g0040' => 'nta', 'Nitab4.5_0000667g0190' => 'nta', 'Nitab4.5_0000755g0160' => 'nta', 'Nitab4.5_0001216g0080' => 'nta', 'Nitab4.5_0004069g0040' => 'nta', 'Nitab4.5_0004129g0010' => 'nta', 'Nitab4.5_0005744g0030' => 'nta', 'Nitab4.5_0006996g0030' => 'nta', 'Nitab4.5_0008971g0040' => 'nta', 'Nitab4.5_0009769g0020' => 'nta', 'Nitab4.5_0009833g0010' => 'nta', 'Nitab4.5_0013140g0020' => 'nta', 'Nn003s41376' => 'nnu', 'Nn1g01857' => 'nnu', 'Nn1g03611' => 'nnu', 'Nn1g06853' => 'nnu', 'Nn3g18360' => 'nnu', 'Nn4g26328' => 'nnu', 'Nn5g27531' => 'nnu', 'Nn6g34899' => 'nnu', 'Nn7g36299' => 'nnu', 'Oeu021485.1' => 'oeu', 'Oeu022433.1' => 'oeu', 'Oeu032111.1' => 'oeu', 'Oeu051608.1' => 'oeu', 'Os01g0860601' => 'osa', 'Os03g0659200' => 'osa', 'Os03g0835900' => 'osa', 'Os04g0412200' => 'osa', 'Os05g0443500' => 'osa', 'Os07g0251500' => 'osa', 'Os08g0104600' => 'osa', 'Peaxi162Scf00003g00047' => 'pax', 'Peaxi162Scf00003g00052' => 'pax', 'Peaxi162Scf00003g00394' => 'pax', 'Peaxi162Scf00091g00621' => 'pax', 'Peaxi162Scf00152g00146' => 'pax', 'Peaxi162Scf00173g00025' => 'pax', 'Peaxi162Scf00195g00102' => 'pax', 'Peaxi162Scf00402g00013' => 'pax', 'Peaxi162Scf00519g00618' => 'pax', 'PGR004G2838' => 'pgr', 'PGR044G2275' => 'pgr', 'PGR102G1377' => 'pgr', 'PGR119G1245' => 'pgr', 'PGR142G4449' => 'pgr', 'PGSC0003DMG400004532' => 'stu', 'PGSC0003DMG400011950' => 'stu', 'PGSC0003DMG400023391' => 'stu', 'PGSC0003DMG400023985' => 'stu', 'PGSC0003DMG400026360' => 'stu', 'PGSC0003DMG400035711' => 'stu', 'PGSC0003DMG400037286' => 'stu', 'PGSC0003DMG402005881' => 'stu', 'Phvul.002G045400' => 'pvu', 'Phvul.006G216600' => 'pvu', 'Phvul.006G216700' => 'pvu', 'Phvul.006G216800' => 'pvu', 'Phvul.007G022500' => 'pvu', 'Phvul.011G094400' => 'pvu', 'Potri.001G470700' => 'ptr', 'Potri.003G015200' => 'ptr', 'Potri.004G202500' => 'ptr', 'Potri.004G218400' => 'ptr', 'Potri.008G020100' => 'ptr', 'Potri.008G153200' => 'ptr', 'Potri.009G163800' => 'ptr', 'Potri.010G087300' => 'ptr', 'Potri.010G239100' => 'ptr', 'Pp3c10_16100' => 'ppa', 'Pp3c10_16880' => 'ppa', 'Pp3c16_6230' => 'ppa', 'Pp3c17_18910' => 'ppa', 'Pp3c3_22119' => 'ppa', 'Pp3c3_22140' => 'ppa', 'Pp3c4_8159' => 'ppa', 'Pp3c4_8171' => 'ppa', 'Pp3c4_8330' => 'ppa', 'PRCOL_00004098' => 'pco', 'Prupe.1G013900' => 'ppe', 'Prupe.1G226300' => 'ppe', 'Prupe.1G573600' => 'ppe', 'Prupe.6G130100' => 'ppe', 'Psat3g090040' => 'psa', 'Psat4g210440' => 'psa', 'Psat6g231040' => 'psa', 'Psat6g231080' => 'psa', 'Psat7g063000' => 'psa', 'Psat7g188000' => 'psa', 'Psat7g188040' => 'psa', 'PSO017G0206' => 'pso', 'PSO170G0501' => 'pso', 'PSO170G6422' => 'pso', 'PSO210G7739' => 'pso', 'PSO339G1808' => 'pso', 'PSO339G6135' => 'pso', 'PSO384G0010' => 'pso', 'PSO384G0964' => 'pso', 'PSO761G0050' => 'pso', 'PSO782G4085' => 'pso', 'QL01p012264' => 'qlo', 'QL02p099491' => 'qlo', 'QL03p033868' => 'qlo', 'QL04p046678' => 'qlo', 'QL06p002448' => 'qlo', 'RcHm_v2.0_Chr4g0416181' => 'rch', 'RcHm_v2.0_Chr5g0044701' => 'rch', 'RcHm_v2.0_Chr6g0265781' => 'rch', 'RcHm_v2.0_Chr7g0221031' => 'rch', 'Rhsim04G0202000' => 'rsi', 'Rhsim11G0127300' => 'rsi', 'Rhsim13G0111800' => 'rsi', 'Sabra01G0165600' => 'sbr', 'Sabra03G0008300' => 'sbr', 'Sabra04G0136900' => 'sbr', 'Sabra08G0013400' => 'sbr', 'Sabra08G0116800' => 'sbr', 'Sabra09G0128000' => 'sbr', 'Sabra10G0055500' => 'sbr', 'Sabra10G0073300' => 'sbr', 'SalBow3G0385' => 'sbo', 'SalBow3G1119' => 'sbo', 'SalBow3G2005' => 'sbo', 'SalBow6G2563' => 'sbo', 'SalBow6G6386' => 'sbo', 'Sc06g0008800' => 'sci', 'Sc07g0004950' => 'sci', 'Sc09g0005340' => 'sci', 'Sc13g0004410' => 'sci', 'Sc21g0007090' => 'sci', 'Sed0009285' => 'sed', 'Sed0017583' => 'sed', 'Sed0019699' => 'sed', 'Sed0023107' => 'sed', 'SEGI_10916' => 'sgi', 'SEGI_16217' => 'sgi', 'SEGI_19466' => 'sgi', 'SEGI_41115' => 'sgi', 'SGA_v2.0_scaffold111G31534' => 'sas', 'SGA_v2.0_scaffold22G09864' => 'sas', 'SGA_v2.0_scaffold338G49219' => 'sas', 'SGA_v2.0_scaffold92G28298' => 'sas', 'SMO119G0064' => 'smo', 'SMO223G0038' => 'smo', 'SMO347G0584' => 'smo', 'SMO351G0010' => 'smo', 'SMO356G0404' => 'smo', 'Solyc01g103920.3' => 'sly', 'Solyc04g009710.2' => 'sly', 'Solyc05g055280.2' => 'sly', 'Solyc10g044520.3' => 'sly', 'Solyc10g075160.1' => 'sly', 'Solyc11g006910.3' => 'sly', 'Solyc11g068430.3' => 'sly', 'Sopen01g046310' => 'spe', 'Sopen03g001200' => 'spe', 'Sopen04g004830' => 'spe', 'Sopen05g033720' => 'spe', 'Sopen06g030740' => 'spe', 'Sopen10g013090' => 'spe', 'Sopen10g027630' => 'spe', 'Sopen10g027640' => 'spe', 'Sopen11g002820' => 'spe', 'Sopen11g027140' => 'spe', 'Sp1g09680' => 'spa', 'Sp2g03630' => 'spa', 'Sp4g10320' => 'spa', 'Sp6g33400' => 'spa', 'Sp7g13030' => 'spa', 'TAR365G0317' => 'tar', 'TAR376G0979' => 'tar', 'TAR623G1665' => 'tar', 'TAR633G2373' => 'tar', 'TAR636G1400' => 'tar', 'THA.LOC104800529' => 'tha', 'THA.LOC104808547' => 'tha', 'THA.LOC104809615' => 'tha', 'THA.LOC104815724' => 'tha', 'THA.LOC104818480' => 'tha', 'THA.LOC104819179' => 'tha', 'THA.LOC104822270' => 'tha', 'THA.LOC104826425' => 'tha', 'Thecc.02G089700' => 'tca', 'Thecc.04G232300' => 'tca', 'Thecc.09G283400' => 'tca', 'Thhalv10009020m.g' => 'esa', 'Thhalv10015506m.g' => 'esa', 'Thhalv10017364m.g' => 'esa', 'Thhalv10023742m.g' => 'esa', 'Thhalv10026483m.g' => 'esa', 'TPR.G17232' => 'tpr', 'TPR.G2133' => 'tpr', 'TPR.G2498' => 'tpr', 'TPR.G31942' => 'tpr', 'TPR.G37877' => 'tpr', 'TPR.G4571' => 'tpr', 'TWI14G1113' => 'twi', 'TWI15G0426' => 'twi', 'TWI31G1005' => 'twi', 'TWI38G0513' => 'twi', 'TWI38G1484' => 'twi', 'TWI73G1098' => 'twi', 'unitig_26.g10519' => 'ugi', 'unitig_736.g22395' => 'ugi', 'unitig_747.g21234' => 'ugi', 'unitig_747.g21942' => 'ugi', 'vmacro14351' => 'vma', 'VMungo0540G0082' => 'vmu', 'VMungo0540G0405' => 'vmu', 'VMungo0540G1486' => 'vmu', 'VMungo0540G1692' => 'vmu', 'VMungo0720G2473' => 'vmu', 'VMungo1127G1562' => 'vmu', 'VMungo1215G1918' => 'vmu', 'Zm00001eb052650' => 'zma', 'Zm00001eb063710' => 'zma', 'Zm00001eb083950' => 'zma', 'Zm00001eb174420' => 'zma', 'Zm00001eb260140' => 'zma', 'Zm00001eb260150' => 'zma', 'Zm00001eb260160' => 'zma', 'Zm00001eb348290' => 'zma', 'Zm00001eb366870' => 'zma', 'Zm00001eb421930' => 'zma' ) $gf_id = 'HOM05D001025' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001025' ) $data_identifier = 'HOM05D001025' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 19, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 2, 'amhyb' => (int) 4, 'aly' => (int) 4, 'aox' => (int) 4, 'arhy' => (int) 3, 'ath' => (int) 5, 'atr' => (int) 4, 'acertr' => (int) 3, 'cqu' => (int) 7, 'bca' => (int) 17, 'bol' => (int) 10, 'bra' => (int) 9, 'can' => (int) 10, 'cansat' => (int) 6, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 5, 'cbr' => (int) 5, 'ccan' => (int) 5, 'cde' => (int) 4, 'cfa' => (int) 3, 'ccl' => (int) 6, 'cil' => (int) 4, 'cla' => (int) 3, 'col' => (int) 3, 'cpa' => (int) 3, 'cre' => (int) 7, 'csa' => (int) 5, 'camsi' => (int) 9, 'dca' => (int) 4, 'din' => (int) 5, 'dzi' => (int) 7, 'eca' => (int) 6, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 12, 'fve' => (int) 4, 'gma' => (int) 12, 'ghi' => (int) 17, 'gra' => (int) 9, 'vvi' => (int) 2, 'han' => (int) 8, 'cav' => (int) 5, 'hma' => (int) 9, 'vpl' => (int) 4, 'sun' => (int) 2, 'lal' => (int) 9, 'lja' => (int) 5, 'lonja' => (int) 6, 'lsa' => (int) 3, 'mes' => (int) 8, 'mpo' => (int) 3, 'mbi' => (int) 4, 'mco' => (int) 3, 'mdo' => (int) 5, 'mtr' => (int) 7, 'cme' => (int) 6, 'egut' => (int) 7, 'ama' => (int) 3, 'nta' => (int) 12, 'nnu' => (int) 9, 'oeu' => (int) 4, 'osa' => (int) 7, 'pax' => (int) 9, 'pgr' => (int) 5, 'stu' => (int) 8, 'pvu' => (int) 6, 'ptr' => (int) 9, 'ppa' => (int) 9, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 7, 'pso' => (int) 10, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 3, 'sbr' => (int) 8, 'sbo' => (int) 5, 'sci' => (int) 5, 'sed' => (int) 4, 'sgi' => (int) 4, 'sas' => (int) 4, 'smo' => (int) 5, 'sly' => (int) 7, 'spe' => (int) 10, 'spa' => (int) 5, 'tar' => (int) 5, 'tha' => (int) 8, 'tca' => (int) 3, 'esa' => (int) 5, 'tpr' => (int) 6, 'twi' => (int) 6, 'ugi' => (int) 4, 'vma' => (int) 1, 'vmu' => (int) 7, 'zma' => (int) 10 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb421930' $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' => 'HOM05D001025', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '592', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p22650' => 'bna', 'A01p29720' => 'bna', 'A03p26560' => 'bna', 'A03p68820' => 'bna', 'A04p20980' => 'bna', 'A06p07730' => 'bna', 'A07p18260' => 'bna', 'A08p33710' => 'bna', 'A09p16970' => 'bna', 'A10p27490' => 'bna', 'Aa31LG1G17300' => 'aar', 'Aa31LG1G3910' => 'aar', 'Aa31LG2G9630' => 'aar', 'Aa31LG5G8360' => 'aar', 'Aa31LG9G2410' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4699' => 'aag', 'Actinidia23512' => 'ach', 'Actinidia37080' => 'ach', 'Ah.01g020380' => 'amhyb', 'Ah.08g215710' => 'amhyb', 'Ah.09g225110' => 'amhyb', 'Ah.10g036680' => 'amhyb', 'AL1G21940' => 'aly', 'AL2G15540' => 'aly', 'AL4G21520' => 'aly', 'AL7G40960' => 'aly', 'Aqoxy2G01191' => 'aox', 'Aqoxy2G03393' => 'aox', 'Aqoxy4G02775' => 'aox', 'Aqoxy6G00058' => 'aox', 'arahy.Tifrunner.gnm1.ann1.9X74H2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CW3FX9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R485W7' => 'arhy', 'AT1G10960' => 'ath', 'AT1G60950' => 'ath', 'AT2G27510' => 'ath', 'AT4G14890' => 'ath', 'AT5G10000' => 'ath', 'ATR0665G624' => 'atr', 'ATR0697G138' => 'atr', 'ATR0776G046' => 'atr', 'ATR1134G135' => 'atr', 'Atru.chr12.1025' => 'acertr', 'Atru.chr3.3241' => 'acertr', 'Atru.chr4.2460' => 'acertr', 'AUR62007427' => 'cqu', 'AUR62010960' => 'cqu', 'AUR62012201' => 'cqu', 'AUR62021470' => 'cqu', 'AUR62022834' => 'cqu', 'AUR62033635' => 'cqu', 'AUR62036186' => 'cqu', 'BcaB01g03077' => 'bca', 'BcaB02g10093' => 'bca', 'BcaB04g20295' => 'bca', 'BcaB06g28147' => 'bca', 'BcaB07g31253' => 'bca', 'BcaC01g04946' => 'bca', 'BcaC02g10614' => 'bca', 'BcaC02g10885' => 'bca', 'BcaC04g19356' => 'bca', 'BcaC04g22297' => 'bca', 'BcaC05g24977' => 'bca', 'BcaC06g31823' => 'bca', 'BcaC07g38633' => 'bca', 'BcaC09g49353' => 'bca', 'BcaC09g50168' => 'bca', 'BcaNung00322' => 'bca', 'BcaNung04769' => 'bca', 'BolC1t02753H' => 'bol', 'BolC1t03721H' => 'bol', 'BolC3t15525H' => 'bol', 'BolC4t23903H' => 'bol', 'BolC4t24231H' => 'bol', 'BolC4t27209H' => 'bol', 'BolC5t29671H' => 'bol', 'BolC8t49044H' => 'bol', 'BolC9t54999H' => 'bol', 'BolC9t59517H' => 'bol', 'BraA01t02178Z' => 'bra', 'BraA01t03099Z' => 'bra', 'BraA03t11867Z' => 'bra', 'BraA04t17667Z' => 'bra', 'BraA07t29542Z' => 'bra', 'BraA08t35287Z' => 'bra', 'BraA09t37334Z' => 'bra', 'BraA10t44801Z' => 'bra', 'BraSC39t46181Z' => 'bra', 'C01p28240' => 'bna', 'C01p37530' => 'bna', 'C03p31820' => 'bna', 'C04p24080' => 'bna', 'C04p25790' => 'bna', 'C04p56770' => 'bna', 'C05p09310' => 'bna', 'C09p21010' => 'bna', 'C09p67560' => 'bna', 'CAN.G1324.7' => 'can', 'CAN.G1358.10' => 'can', 'CAN.G1550.2' => 'can', 'CAN.G186.56' => 'can', 'CAN.G1965.1' => 'can', 'CAN.G645.15' => 'can', 'CAN.G798.26' => 'can', 'CAN.G798.27' => 'can', 'CAN.G798.29' => 'can', 'CAN.G919.31' => 'can', 'CANSAT11G0133' => 'cansat', 'CANSAT11G1171' => 'cansat', 'CANSAT11G2056' => 'cansat', 'CANSAT56G1202' => 'cansat', 'CANSAT56G1514' => 'cansat', 'CANSAT78G0455' => 'cansat', 'CARHR011190' => 'chi', 'CARHR051980' => 'chi', 'CARHR120170' => 'chi', 'CARHR203310' => 'chi', 'CARHR221490' => 'chi', 'Carub.0001s1054' => 'cru', 'Carub.0002s0431' => 'cru', 'Carub.0004s0818' => 'cru', 'Carub.0006s0846' => 'cru', 'Carub.0007s2722' => 'cru', 'Ca_00058_v3' => 'car', 'Ca_17831_v3' => 'car', 'Ca_19408_v3' => 'car', 'Ca_24397_v3' => 'car', 'Ca_25664_v3' => 'car', 'CBR_g21818' => 'cbr', 'CBR_g31195' => 'cbr', 'CBR_g32282' => 'cbr', 'CBR_g39599' => 'cbr', 'CBR_g49410' => 'cbr', 'Cc01_g09120' => 'ccan', 'Cc01_g09130' => 'ccan', 'Cc02_g09630' => 'ccan', 'Cc02_g22810' => 'ccan', 'Cc03_g03810' => 'ccan', 'CDE02G3718' => 'cde', 'CDE04G3183' => 'cde', 'CDE07G1046' => 'cde', 'CDE08G0480' => 'cde', 'Cfa005493' => 'cfa', 'Cfa010312' => 'cfa', 'Cfa015648' => 'cfa', 'Ciclev10002793m.g' => 'ccl', 'Ciclev10003356m.g' => 'ccl', 'Ciclev10006141m.g' => 'ccl', 'Ciclev10016676m.g' => 'ccl', 'Ciclev10017081m.g' => 'ccl', 'Ciclev10029499m.g' => 'ccl', 'CiPaw.01G166300' => 'cil', 'CiPaw.06G145600' => 'cil', 'CiPaw.13G040100' => 'cil', 'CiPaw.13G135800' => 'cil', 'ClCG01G012230' => 'cla', 'ClCG05G009510' => 'cla', 'ClCG08G008270' => 'cla', 'COL.COLO4_11763' => 'col', 'COL.COLO4_19876' => 'col', 'COL.COLO4_21481' => 'col', 'Cpa.g.sc118.34' => 'cpa', 'Cpa.g.sc32.13' => 'cpa', 'Cpa.g.sc58.103' => 'cpa', 'Cre03.g183850' => 'cre', 'Cre06.g306350' => 'cre', 'Cre07.g334800' => 'cre', 'Cre12.g487900' => 'cre', 'Cre14.g626700' => 'cre', 'Cre16.g658400' => 'cre', 'Cre17.g700950' => 'cre', 'CsaV3_1G014830' => 'csa', 'CsaV3_3G013320' => 'csa', 'CsaV3_3G019210' => 'csa', 'CsaV3_3G019220' => 'csa', 'CsaV3_6G004230' => 'csa', 'CSS0003773' => 'camsi', 'CSS0004563' => 'camsi', 'CSS0013949' => 'camsi', 'CSS0025971' => 'camsi', 'CSS0028570' => 'camsi', 'CSS0033127' => 'camsi', 'CSS0036051' => 'camsi', 'CSS0040087' => 'camsi', 'CSS0043179' => 'camsi', 'DCAR_006161' => 'dca', 'DCAR_010351' => 'dca', 'DCAR_012197' => 'dca', 'DCAR_024162' => 'dca', 'Dinv01030' => 'din', 'Dinv10924' => 'din', 'Dinv11835' => 'din', 'Dinv22841' => 'din', 'Dinv42553' => 'din', 'Duzib052G0560' => 'dzi', 'Duzib132G0389' => 'dzi', 'Duzib150G1181' => 'dzi', 'Duzib168G0623' => 'dzi', 'Duzib170G1036' => 'dzi', 'Duzib212G0200' => 'dzi', 'Duzib248G0194' => 'dzi', 'ECA232G2193' => 'eca', 'ECA233G0302' => 'eca', 'ECA234G2813' => 'eca', 'ECA234G4866' => 'eca', 'ECA240G3932' => 'eca', 'ECA248G0385' => 'eca', 'EL10Ac2g04781' => 'bvu', 'EL10Ac3g06445' => 'bvu', 'EL10Ac7g15825' => 'bvu', 'EL10Ac8g18550' => 'bvu', 'Eucgr.B03849' => 'egr', 'Eucgr.I02744' => 'egr', 'Eucgr.J00264' => 'egr', 'Eucgr.J00493' => 'egr', 'FAN04G2181' => 'fan', 'FAN07G2666' => 'fan', 'FAN11G0024' => 'fan', 'FAN12G1105' => 'fan', 'FAN13G0302' => 'fan', 'FAN15G2781' => 'fan', 'FAN16G1274' => 'fan', 'FAN17G2988' => 'fan', 'FAN18G2621' => 'fan', 'FAN21G0013' => 'fan', 'FAN22G1211' => 'fan', 'FAN25G3626' => 'fan', 'FvH4_2g09491' => 'fve', 'FvH4_3g24910' => 'fve', 'FvH4_4g15630' => 'fve', 'FvH4_5g28820' => 'fve', 'Glyma.01G238000' => 'gma', 'Glyma.05G168400' => 'gma', 'Glyma.08G126800' => 'gma', 'Glyma.08G188500' => 'gma', 'Glyma.10G278900' => 'gma', 'Glyma.11G005700' => 'gma', 'Glyma.11G183300' => 'gma', 'Glyma.12G089200' => 'gma', 'Glyma.12G169400' => 'gma', 'Glyma.12G169500' => 'gma', 'Glyma.12G169600' => 'gma', 'Glyma.20G110800' => 'gma', 'Gohir.A03G192900' => 'ghi', 'Gohir.A03G193000' => 'ghi', 'Gohir.A05G080700' => 'ghi', 'Gohir.A09G216000' => 'ghi', 'Gohir.A12G027700' => 'ghi', 'Gohir.A13G036200' => 'ghi', 'Gohir.A13G222600' => 'ghi', 'Gohir.D02G213900' => 'ghi', 'Gohir.D02G214000' => 'ghi', 'Gohir.D05G083700' => 'ghi', 'Gohir.D05G083800' => 'ghi', 'Gohir.D05G083850' => 'ghi', 'Gohir.D08G015400' => 'ghi', 'Gohir.D09G218400' => 'ghi', 'Gohir.D12G027100' => 'ghi', 'Gohir.D13G034500' => 'ghi', 'Gohir.D13G227400' => 'ghi', 'Gorai.005G241800' => 'gra', 'Gorai.005G241900' => 'gra', 'Gorai.006G239400' => 'gra', 'Gorai.008G027600' => 'gra', 'Gorai.009G085400' => 'gra', 'Gorai.009G085500' => 'gra', 'Gorai.013G039000' => 'gra', 'Gorai.013G194800' => 'gra', 'Gorai.013G257900' => 'gra', 'GSVIVG01000982001' => 'vvi', 'GSVIVG01017981001' => 'vvi', 'HanXRQChr01g0024061' => 'han', 'HanXRQChr09g0247831' => 'han', 'HanXRQChr10g0294611' => 'han', 'HanXRQChr10g0294621' => 'han', 'HanXRQChr11g0346821' => 'han', 'HanXRQChr13g0397461' => 'han', 'HanXRQChr16g0513651' => 'han', 'HanXRQChr16g0513701' => 'han', 'Haze_00897' => 'cav', 'Haze_01745' => 'cav', 'Haze_02486' => 'cav', 'Haze_02487' => 'cav', 'Haze_23374' => 'cav', 'Hma1.2p1_0578F.1_g182520' => 'hma', 'Hma1.2p1_0602F.1_g187350' => 'hma', 'Hma1.2p1_0602F.1_g187360' => 'hma', 'Hma1.2p1_0874F.1_g231320' => 'hma', 'Hma1.2p1_1197F.1_g266210' => 'hma', 'Hma1.2p1_1197F.1_g266220' => 'hma', 'Hma1.2p1_2167F.1_g315895' => 'hma', 'Hma1.2p1_2190F.1_g316640' => 'hma', 'Hma1.2p1_3645F.1_g337153' => 'hma', 'HPP92_004907' => 'vpl', 'HPP92_012134' => 'vpl', 'HPP92_025136' => 'vpl', 'HPP92_026087' => 'vpl', 'Hund06782' => 'sun', 'Hund06784' => 'sun', 'Lalb_Chr01g0004861' => 'lal', 'Lalb_Chr02g0140591' => 'lal', 'Lalb_Chr02g0140611' => 'lal', 'Lalb_Chr03g0028101' => 'lal', 'Lalb_Chr07g0185791' => 'lal', 'Lalb_Chr12g0204491' => 'lal', 'Lalb_Chr13g0295671' => 'lal', 'Lalb_Chr19g0136461' => 'lal', 'Lalb_Chr21g0309191' => 'lal', 'Lj1g0028158' => 'lja', 'Lj1P236T38' => 'lonja', 'Lj2C32G2' => 'lonja', 'Lj2P944T8' => 'lonja', 'Lj2P963T15' => 'lonja', 'Lj3g0011788' => 'lja', 'Lj4g0025027' => 'lja', 'Lj5P255T36' => 'lonja', 'Lj6g0018866' => 'lja', 'Lj6P608T31' => 'lonja', 'LjContig00408g0008879' => 'lja', 'Lsat_1_v5_gn_5_105820' => 'lsa', 'Lsat_1_v5_gn_6_38800' => 'lsa', 'Lsat_1_v5_gn_7_67141' => 'lsa', 'Manes.04G003400' => 'mes', 'Manes.07G020000' => 'mes', 'Manes.07G020100' => 'mes', 'Manes.07G020150' => 'mes', 'Manes.10G061500' => 'mes', 'Manes.10G123200' => 'mes', 'Manes.11G161900' => 'mes', 'Manes.15G029300' => 'mes', 'Mapoly0071s0018' => 'mpo', 'Mapoly0082s0023' => 'mpo', 'Mapoly3477s0001' => 'mpo', 'MBI05_g31233_MAGBIO' => 'mbi', 'MBI09_g05946_MAGBIO' => 'mbi', 'MBI09_g05947_MAGBIO' => 'mbi', 'MBI17_g08346_MAGBIO' => 'mbi', 'MCO04G038' => 'mco', 'MCO09G370' => 'mco', 'MCO13G605' => 'mco', 'MD00G1075500' => 'mdo', 'MD03G1144300' => 'mdo', 'MD08G1236800' => 'mdo', 'MD13G1193300' => 'mdo', 'MD15G1428700' => 'mdo', 'Medtr1g112030' => 'mtr', 'Medtr1g112050' => 'mtr', 'Medtr2g006290' => 'mtr', 'Medtr2g086510' => 'mtr', 'Medtr4g053120' => 'mtr', 'Medtr5g006320' => 'mtr', 'Medtr8g088720' => 'mtr', 'MELO3C004712.2' => 'cme', 'MELO3C006533.2' => 'cme', 'MELO3C019438.2' => 'cme', 'MELO3C019440.2' => 'cme', 'MELO3C019441.2' => 'cme', 'MELO3C019895.2' => 'cme', 'Migut.B00811' => 'egut', 'Migut.D02447' => 'egut', 'Migut.F00875' => 'egut', 'Migut.N00186' => 'egut', 'Migut.N01051' => 'egut', 'Migut.N02491' => 'egut', 'Migut.O00784' => 'egut', 'MSTRG.12367' => 'ama', 'MSTRG.18756' => 'ama', 'MSTRG.21042' => 'ama', 'Nitab4.5_0000559g0040' => 'nta', 'Nitab4.5_0000667g0190' => 'nta', 'Nitab4.5_0000755g0160' => 'nta', 'Nitab4.5_0001216g0080' => 'nta', 'Nitab4.5_0004069g0040' => 'nta', 'Nitab4.5_0004129g0010' => 'nta', 'Nitab4.5_0005744g0030' => 'nta', 'Nitab4.5_0006996g0030' => 'nta', 'Nitab4.5_0008971g0040' => 'nta', 'Nitab4.5_0009769g0020' => 'nta', 'Nitab4.5_0009833g0010' => 'nta', 'Nitab4.5_0013140g0020' => 'nta', 'Nn003s41376' => 'nnu', 'Nn1g01857' => 'nnu', 'Nn1g03611' => 'nnu', 'Nn1g06853' => 'nnu', 'Nn3g18360' => 'nnu', 'Nn4g26328' => 'nnu', 'Nn5g27531' => 'nnu', 'Nn6g34899' => 'nnu', 'Nn7g36299' => 'nnu', 'Oeu021485.1' => 'oeu', 'Oeu022433.1' => 'oeu', 'Oeu032111.1' => 'oeu', 'Oeu051608.1' => 'oeu', 'Os01g0860601' => 'osa', 'Os03g0659200' => 'osa', 'Os03g0835900' => 'osa', 'Os04g0412200' => 'osa', 'Os05g0443500' => 'osa', 'Os07g0251500' => 'osa', 'Os08g0104600' => 'osa', 'Peaxi162Scf00003g00047' => 'pax', 'Peaxi162Scf00003g00052' => 'pax', 'Peaxi162Scf00003g00394' => 'pax', 'Peaxi162Scf00091g00621' => 'pax', 'Peaxi162Scf00152g00146' => 'pax', 'Peaxi162Scf00173g00025' => 'pax', 'Peaxi162Scf00195g00102' => 'pax', 'Peaxi162Scf00402g00013' => 'pax', 'Peaxi162Scf00519g00618' => 'pax', 'PGR004G2838' => 'pgr', 'PGR044G2275' => 'pgr', 'PGR102G1377' => 'pgr', 'PGR119G1245' => 'pgr', 'PGR142G4449' => 'pgr', 'PGSC0003DMG400004532' => 'stu', 'PGSC0003DMG400011950' => 'stu', 'PGSC0003DMG400023391' => 'stu', 'PGSC0003DMG400023985' => 'stu', 'PGSC0003DMG400026360' => 'stu', 'PGSC0003DMG400035711' => 'stu', 'PGSC0003DMG400037286' => 'stu', 'PGSC0003DMG402005881' => 'stu', 'Phvul.002G045400' => 'pvu', 'Phvul.006G216600' => 'pvu', 'Phvul.006G216700' => 'pvu', 'Phvul.006G216800' => 'pvu', 'Phvul.007G022500' => 'pvu', 'Phvul.011G094400' => 'pvu', 'Potri.001G470700' => 'ptr', 'Potri.003G015200' => 'ptr', 'Potri.004G202500' => 'ptr', 'Potri.004G218400' => 'ptr', 'Potri.008G020100' => 'ptr', 'Potri.008G153200' => 'ptr', 'Potri.009G163800' => 'ptr', 'Potri.010G087300' => 'ptr', 'Potri.010G239100' => 'ptr', 'Pp3c10_16100' => 'ppa', 'Pp3c10_16880' => 'ppa', 'Pp3c16_6230' => 'ppa', 'Pp3c17_18910' => 'ppa', 'Pp3c3_22119' => 'ppa', 'Pp3c3_22140' => 'ppa', 'Pp3c4_8159' => 'ppa', 'Pp3c4_8171' => 'ppa', 'Pp3c4_8330' => 'ppa', 'PRCOL_00004098' => 'pco', 'Prupe.1G013900' => 'ppe', 'Prupe.1G226300' => 'ppe', 'Prupe.1G573600' => 'ppe', 'Prupe.6G130100' => 'ppe', 'Psat3g090040' => 'psa', 'Psat4g210440' => 'psa', 'Psat6g231040' => 'psa', 'Psat6g231080' => 'psa', 'Psat7g063000' => 'psa', 'Psat7g188000' => 'psa', 'Psat7g188040' => 'psa', 'PSO017G0206' => 'pso', 'PSO170G0501' => 'pso', 'PSO170G6422' => 'pso', 'PSO210G7739' => 'pso', 'PSO339G1808' => 'pso', 'PSO339G6135' => 'pso', 'PSO384G0010' => 'pso', 'PSO384G0964' => 'pso', 'PSO761G0050' => 'pso', 'PSO782G4085' => 'pso', 'QL01p012264' => 'qlo', 'QL02p099491' => 'qlo', 'QL03p033868' => 'qlo', 'QL04p046678' => 'qlo', 'QL06p002448' => 'qlo', 'RcHm_v2.0_Chr4g0416181' => 'rch', 'RcHm_v2.0_Chr5g0044701' => 'rch', 'RcHm_v2.0_Chr6g0265781' => 'rch', 'RcHm_v2.0_Chr7g0221031' => 'rch', 'Rhsim04G0202000' => 'rsi', 'Rhsim11G0127300' => 'rsi', 'Rhsim13G0111800' => 'rsi', 'Sabra01G0165600' => 'sbr', 'Sabra03G0008300' => 'sbr', 'Sabra04G0136900' => 'sbr', 'Sabra08G0013400' => 'sbr', 'Sabra08G0116800' => 'sbr', 'Sabra09G0128000' => 'sbr', 'Sabra10G0055500' => 'sbr', 'Sabra10G0073300' => 'sbr', 'SalBow3G0385' => 'sbo', 'SalBow3G1119' => 'sbo', 'SalBow3G2005' => 'sbo', 'SalBow6G2563' => 'sbo', 'SalBow6G6386' => 'sbo', 'Sc06g0008800' => 'sci', 'Sc07g0004950' => 'sci', 'Sc09g0005340' => 'sci', 'Sc13g0004410' => 'sci', 'Sc21g0007090' => 'sci', 'Sed0009285' => 'sed', 'Sed0017583' => 'sed', 'Sed0019699' => 'sed', 'Sed0023107' => 'sed', 'SEGI_10916' => 'sgi', 'SEGI_16217' => 'sgi', 'SEGI_19466' => 'sgi', 'SEGI_41115' => 'sgi', 'SGA_v2.0_scaffold111G31534' => 'sas', 'SGA_v2.0_scaffold22G09864' => 'sas', 'SGA_v2.0_scaffold338G49219' => 'sas', 'SGA_v2.0_scaffold92G28298' => 'sas', 'SMO119G0064' => 'smo', 'SMO223G0038' => 'smo', 'SMO347G0584' => 'smo', 'SMO351G0010' => 'smo', 'SMO356G0404' => 'smo', 'Solyc01g103920.3' => 'sly', 'Solyc04g009710.2' => 'sly', 'Solyc05g055280.2' => 'sly', 'Solyc10g044520.3' => 'sly', 'Solyc10g075160.1' => 'sly', 'Solyc11g006910.3' => 'sly', 'Solyc11g068430.3' => 'sly', 'Sopen01g046310' => 'spe', 'Sopen03g001200' => 'spe', 'Sopen04g004830' => 'spe', 'Sopen05g033720' => 'spe', 'Sopen06g030740' => 'spe', 'Sopen10g013090' => 'spe', 'Sopen10g027630' => 'spe', 'Sopen10g027640' => 'spe', 'Sopen11g002820' => 'spe', 'Sopen11g027140' => 'spe', 'Sp1g09680' => 'spa', 'Sp2g03630' => 'spa', 'Sp4g10320' => 'spa', 'Sp6g33400' => 'spa', 'Sp7g13030' => 'spa', 'TAR365G0317' => 'tar', 'TAR376G0979' => 'tar', 'TAR623G1665' => 'tar', 'TAR633G2373' => 'tar', 'TAR636G1400' => 'tar', 'THA.LOC104800529' => 'tha', 'THA.LOC104808547' => 'tha', 'THA.LOC104809615' => 'tha', 'THA.LOC104815724' => 'tha', 'THA.LOC104818480' => 'tha', 'THA.LOC104819179' => 'tha', 'THA.LOC104822270' => 'tha', 'THA.LOC104826425' => 'tha', 'Thecc.02G089700' => 'tca', 'Thecc.04G232300' => 'tca', 'Thecc.09G283400' => 'tca', 'Thhalv10009020m.g' => 'esa', 'Thhalv10015506m.g' => 'esa', 'Thhalv10017364m.g' => 'esa', 'Thhalv10023742m.g' => 'esa', 'Thhalv10026483m.g' => 'esa', 'TPR.G17232' => 'tpr', 'TPR.G2133' => 'tpr', 'TPR.G2498' => 'tpr', 'TPR.G31942' => 'tpr', 'TPR.G37877' => 'tpr', 'TPR.G4571' => 'tpr', 'TWI14G1113' => 'twi', 'TWI15G0426' => 'twi', 'TWI31G1005' => 'twi', 'TWI38G0513' => 'twi', 'TWI38G1484' => 'twi', 'TWI73G1098' => 'twi', 'unitig_26.g10519' => 'ugi', 'unitig_736.g22395' => 'ugi', 'unitig_747.g21234' => 'ugi', 'unitig_747.g21942' => 'ugi', 'vmacro14351' => 'vma', 'VMungo0540G0082' => 'vmu', 'VMungo0540G0405' => 'vmu', 'VMungo0540G1486' => 'vmu', 'VMungo0540G1692' => 'vmu', 'VMungo0720G2473' => 'vmu', 'VMungo1127G1562' => 'vmu', 'VMungo1215G1918' => 'vmu', 'Zm00001eb052650' => 'zma', 'Zm00001eb063710' => 'zma', 'Zm00001eb083950' => 'zma', 'Zm00001eb174420' => 'zma', 'Zm00001eb260140' => 'zma', 'Zm00001eb260150' => 'zma', 'Zm00001eb260160' => 'zma', 'Zm00001eb348290' => 'zma', 'Zm00001eb366870' => 'zma', 'Zm00001eb421930' => 'zma' ), 'gf_id' => 'HOM05D001025', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001025' ), 'data_identifier' => 'HOM05D001025', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001025', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '592', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p22650' => 'bna', 'A01p29720' => 'bna', 'A03p26560' => 'bna', 'A03p68820' => 'bna', 'A04p20980' => 'bna', 'A06p07730' => 'bna', 'A07p18260' => 'bna', 'A08p33710' => 'bna', 'A09p16970' => 'bna', 'A10p27490' => 'bna', 'Aa31LG1G17300' => 'aar', 'Aa31LG1G3910' => 'aar', 'Aa31LG2G9630' => 'aar', 'Aa31LG5G8360' => 'aar', 'Aa31LG9G2410' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4699' => 'aag', 'Actinidia23512' => 'ach', 'Actinidia37080' => 'ach', 'Ah.01g020380' => 'amhyb', 'Ah.08g215710' => 'amhyb', 'Ah.09g225110' => 'amhyb', 'Ah.10g036680' => 'amhyb', 'AL1G21940' => 'aly', 'AL2G15540' => 'aly', 'AL4G21520' => 'aly', 'AL7G40960' => 'aly', 'Aqoxy2G01191' => 'aox', 'Aqoxy2G03393' => 'aox', 'Aqoxy4G02775' => 'aox', 'Aqoxy6G00058' => 'aox', 'arahy.Tifrunner.gnm1.ann1.9X74H2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CW3FX9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R485W7' => 'arhy', 'AT1G10960' => 'ath', 'AT1G60950' => 'ath', 'AT2G27510' => 'ath', 'AT4G14890' => 'ath', 'AT5G10000' => 'ath', 'ATR0665G624' => 'atr', 'ATR0697G138' => 'atr', 'ATR0776G046' => 'atr', 'ATR1134G135' => 'atr', 'Atru.chr12.1025' => 'acertr', 'Atru.chr3.3241' => 'acertr', 'Atru.chr4.2460' => 'acertr', 'AUR62007427' => 'cqu', 'AUR62010960' => 'cqu', 'AUR62012201' => 'cqu', 'AUR62021470' => 'cqu', 'AUR62022834' => 'cqu', 'AUR62033635' => 'cqu', 'AUR62036186' => 'cqu', 'BcaB01g03077' => 'bca', 'BcaB02g10093' => 'bca', 'BcaB04g20295' => 'bca', 'BcaB06g28147' => 'bca', 'BcaB07g31253' => 'bca', 'BcaC01g04946' => 'bca', 'BcaC02g10614' => 'bca', 'BcaC02g10885' => 'bca', 'BcaC04g19356' => 'bca', 'BcaC04g22297' => 'bca', 'BcaC05g24977' => 'bca', 'BcaC06g31823' => 'bca', 'BcaC07g38633' => 'bca', 'BcaC09g49353' => 'bca', 'BcaC09g50168' => 'bca', 'BcaNung00322' => 'bca', 'BcaNung04769' => 'bca', 'BolC1t02753H' => 'bol', 'BolC1t03721H' => 'bol', 'BolC3t15525H' => 'bol', 'BolC4t23903H' => 'bol', 'BolC4t24231H' => 'bol', 'BolC4t27209H' => 'bol', 'BolC5t29671H' => 'bol', 'BolC8t49044H' => 'bol', 'BolC9t54999H' => 'bol', 'BolC9t59517H' => 'bol', 'BraA01t02178Z' => 'bra', 'BraA01t03099Z' => 'bra', 'BraA03t11867Z' => 'bra', 'BraA04t17667Z' => 'bra', 'BraA07t29542Z' => 'bra', 'BraA08t35287Z' => 'bra', 'BraA09t37334Z' => 'bra', 'BraA10t44801Z' => 'bra', 'BraSC39t46181Z' => 'bra', 'C01p28240' => 'bna', 'C01p37530' => 'bna', 'C03p31820' => 'bna', 'C04p24080' => 'bna', 'C04p25790' => 'bna', 'C04p56770' => 'bna', 'C05p09310' => 'bna', 'C09p21010' => 'bna', 'C09p67560' => 'bna', 'CAN.G1324.7' => 'can', 'CAN.G1358.10' => 'can', 'CAN.G1550.2' => 'can', 'CAN.G186.56' => 'can', 'CAN.G1965.1' => 'can', 'CAN.G645.15' => 'can', 'CAN.G798.26' => 'can', 'CAN.G798.27' => 'can', 'CAN.G798.29' => 'can', 'CAN.G919.31' => 'can', 'CANSAT11G0133' => 'cansat', 'CANSAT11G1171' => 'cansat', 'CANSAT11G2056' => 'cansat', 'CANSAT56G1202' => 'cansat', 'CANSAT56G1514' => 'cansat', 'CANSAT78G0455' => 'cansat', 'CARHR011190' => 'chi', 'CARHR051980' => 'chi', 'CARHR120170' => 'chi', 'CARHR203310' => 'chi', 'CARHR221490' => 'chi', 'Carub.0001s1054' => 'cru', 'Carub.0002s0431' => 'cru', 'Carub.0004s0818' => 'cru', 'Carub.0006s0846' => 'cru', 'Carub.0007s2722' => 'cru', 'Ca_00058_v3' => 'car', 'Ca_17831_v3' => 'car', 'Ca_19408_v3' => 'car', 'Ca_24397_v3' => 'car', 'Ca_25664_v3' => 'car', 'CBR_g21818' => 'cbr', 'CBR_g31195' => 'cbr', 'CBR_g32282' => 'cbr', 'CBR_g39599' => 'cbr', 'CBR_g49410' => 'cbr', 'Cc01_g09120' => 'ccan', 'Cc01_g09130' => 'ccan', 'Cc02_g09630' => 'ccan', 'Cc02_g22810' => 'ccan', 'Cc03_g03810' => 'ccan', 'CDE02G3718' => 'cde', 'CDE04G3183' => 'cde', 'CDE07G1046' => 'cde', 'CDE08G0480' => 'cde', 'Cfa005493' => 'cfa', 'Cfa010312' => 'cfa', 'Cfa015648' => 'cfa', 'Ciclev10002793m.g' => 'ccl', 'Ciclev10003356m.g' => 'ccl', 'Ciclev10006141m.g' => 'ccl', 'Ciclev10016676m.g' => 'ccl', 'Ciclev10017081m.g' => 'ccl', 'Ciclev10029499m.g' => 'ccl', 'CiPaw.01G166300' => 'cil', 'CiPaw.06G145600' => 'cil', 'CiPaw.13G040100' => 'cil', 'CiPaw.13G135800' => 'cil', 'ClCG01G012230' => 'cla', 'ClCG05G009510' => 'cla', 'ClCG08G008270' => 'cla', 'COL.COLO4_11763' => 'col', 'COL.COLO4_19876' => 'col', 'COL.COLO4_21481' => 'col', 'Cpa.g.sc118.34' => 'cpa', 'Cpa.g.sc32.13' => 'cpa', 'Cpa.g.sc58.103' => 'cpa', 'Cre03.g183850' => 'cre', 'Cre06.g306350' => 'cre', 'Cre07.g334800' => 'cre', 'Cre12.g487900' => 'cre', 'Cre14.g626700' => 'cre', 'Cre16.g658400' => 'cre', 'Cre17.g700950' => 'cre', 'CsaV3_1G014830' => 'csa', 'CsaV3_3G013320' => 'csa', 'CsaV3_3G019210' => 'csa', 'CsaV3_3G019220' => 'csa', 'CsaV3_6G004230' => 'csa', 'CSS0003773' => 'camsi', 'CSS0004563' => 'camsi', 'CSS0013949' => 'camsi', 'CSS0025971' => 'camsi', 'CSS0028570' => 'camsi', 'CSS0033127' => 'camsi', 'CSS0036051' => 'camsi', 'CSS0040087' => 'camsi', 'CSS0043179' => 'camsi', 'DCAR_006161' => 'dca', 'DCAR_010351' => 'dca', 'DCAR_012197' => 'dca', 'DCAR_024162' => 'dca', 'Dinv01030' => 'din', 'Dinv10924' => 'din', 'Dinv11835' => 'din', 'Dinv22841' => 'din', 'Dinv42553' => 'din', 'Duzib052G0560' => 'dzi', 'Duzib132G0389' => 'dzi', 'Duzib150G1181' => 'dzi', 'Duzib168G0623' => 'dzi', 'Duzib170G1036' => 'dzi', 'Duzib212G0200' => 'dzi', 'Duzib248G0194' => 'dzi', 'ECA232G2193' => 'eca', 'ECA233G0302' => 'eca', 'ECA234G2813' => 'eca', 'ECA234G4866' => 'eca', 'ECA240G3932' => 'eca', 'ECA248G0385' => 'eca', 'EL10Ac2g04781' => 'bvu', 'EL10Ac3g06445' => 'bvu', 'EL10Ac7g15825' => 'bvu', 'EL10Ac8g18550' => 'bvu', 'Eucgr.B03849' => 'egr', 'Eucgr.I02744' => 'egr', 'Eucgr.J00264' => 'egr', 'Eucgr.J00493' => 'egr', 'FAN04G2181' => 'fan', 'FAN07G2666' => 'fan', 'FAN11G0024' => 'fan', 'FAN12G1105' => 'fan', 'FAN13G0302' => 'fan', 'FAN15G2781' => 'fan', 'FAN16G1274' => 'fan', 'FAN17G2988' => 'fan', 'FAN18G2621' => 'fan', 'FAN21G0013' => 'fan', 'FAN22G1211' => 'fan', 'FAN25G3626' => 'fan', 'FvH4_2g09491' => 'fve', 'FvH4_3g24910' => 'fve', 'FvH4_4g15630' => 'fve', 'FvH4_5g28820' => 'fve', 'Glyma.01G238000' => 'gma', 'Glyma.05G168400' => 'gma', 'Glyma.08G126800' => 'gma', 'Glyma.08G188500' => 'gma', 'Glyma.10G278900' => 'gma', 'Glyma.11G005700' => 'gma', 'Glyma.11G183300' => 'gma', 'Glyma.12G089200' => 'gma', 'Glyma.12G169400' => 'gma', 'Glyma.12G169500' => 'gma', 'Glyma.12G169600' => 'gma', 'Glyma.20G110800' => 'gma', 'Gohir.A03G192900' => 'ghi', 'Gohir.A03G193000' => 'ghi', 'Gohir.A05G080700' => 'ghi', 'Gohir.A09G216000' => 'ghi', 'Gohir.A12G027700' => 'ghi', 'Gohir.A13G036200' => 'ghi', 'Gohir.A13G222600' => 'ghi', 'Gohir.D02G213900' => 'ghi', 'Gohir.D02G214000' => 'ghi', 'Gohir.D05G083700' => 'ghi', 'Gohir.D05G083800' => 'ghi', 'Gohir.D05G083850' => 'ghi', 'Gohir.D08G015400' => 'ghi', 'Gohir.D09G218400' => 'ghi', 'Gohir.D12G027100' => 'ghi', 'Gohir.D13G034500' => 'ghi', 'Gohir.D13G227400' => 'ghi', 'Gorai.005G241800' => 'gra', 'Gorai.005G241900' => 'gra', 'Gorai.006G239400' => 'gra', 'Gorai.008G027600' => 'gra', 'Gorai.009G085400' => 'gra', 'Gorai.009G085500' => 'gra', 'Gorai.013G039000' => 'gra', 'Gorai.013G194800' => 'gra', 'Gorai.013G257900' => 'gra', 'GSVIVG01000982001' => 'vvi', 'GSVIVG01017981001' => 'vvi', 'HanXRQChr01g0024061' => 'han', 'HanXRQChr09g0247831' => 'han', 'HanXRQChr10g0294611' => 'han', 'HanXRQChr10g0294621' => 'han', 'HanXRQChr11g0346821' => 'han', 'HanXRQChr13g0397461' => 'han', 'HanXRQChr16g0513651' => 'han', 'HanXRQChr16g0513701' => 'han', 'Haze_00897' => 'cav', 'Haze_01745' => 'cav', 'Haze_02486' => 'cav', 'Haze_02487' => 'cav', 'Haze_23374' => 'cav', 'Hma1.2p1_0578F.1_g182520' => 'hma', 'Hma1.2p1_0602F.1_g187350' => 'hma', 'Hma1.2p1_0602F.1_g187360' => 'hma', 'Hma1.2p1_0874F.1_g231320' => 'hma', 'Hma1.2p1_1197F.1_g266210' => 'hma', 'Hma1.2p1_1197F.1_g266220' => 'hma', 'Hma1.2p1_2167F.1_g315895' => 'hma', 'Hma1.2p1_2190F.1_g316640' => 'hma', 'Hma1.2p1_3645F.1_g337153' => 'hma', 'HPP92_004907' => 'vpl', 'HPP92_012134' => 'vpl', 'HPP92_025136' => 'vpl', 'HPP92_026087' => 'vpl', 'Hund06782' => 'sun', 'Hund06784' => 'sun', 'Lalb_Chr01g0004861' => 'lal', 'Lalb_Chr02g0140591' => 'lal', 'Lalb_Chr02g0140611' => 'lal', 'Lalb_Chr03g0028101' => 'lal', 'Lalb_Chr07g0185791' => 'lal', 'Lalb_Chr12g0204491' => 'lal', 'Lalb_Chr13g0295671' => 'lal', 'Lalb_Chr19g0136461' => 'lal', 'Lalb_Chr21g0309191' => 'lal', 'Lj1g0028158' => 'lja', 'Lj1P236T38' => 'lonja', 'Lj2C32G2' => 'lonja', 'Lj2P944T8' => 'lonja', 'Lj2P963T15' => 'lonja', 'Lj3g0011788' => 'lja', 'Lj4g0025027' => 'lja', 'Lj5P255T36' => 'lonja', 'Lj6g0018866' => 'lja', 'Lj6P608T31' => 'lonja', 'LjContig00408g0008879' => 'lja', 'Lsat_1_v5_gn_5_105820' => 'lsa', 'Lsat_1_v5_gn_6_38800' => 'lsa', 'Lsat_1_v5_gn_7_67141' => 'lsa', 'Manes.04G003400' => 'mes', 'Manes.07G020000' => 'mes', 'Manes.07G020100' => 'mes', 'Manes.07G020150' => 'mes', 'Manes.10G061500' => 'mes', 'Manes.10G123200' => 'mes', 'Manes.11G161900' => 'mes', 'Manes.15G029300' => 'mes', 'Mapoly0071s0018' => 'mpo', 'Mapoly0082s0023' => 'mpo', 'Mapoly3477s0001' => 'mpo', 'MBI05_g31233_MAGBIO' => 'mbi', 'MBI09_g05946_MAGBIO' => 'mbi', 'MBI09_g05947_MAGBIO' => 'mbi', 'MBI17_g08346_MAGBIO' => 'mbi', 'MCO04G038' => 'mco', 'MCO09G370' => 'mco', 'MCO13G605' => 'mco', 'MD00G1075500' => 'mdo', 'MD03G1144300' => 'mdo', 'MD08G1236800' => 'mdo', 'MD13G1193300' => 'mdo', 'MD15G1428700' => 'mdo', 'Medtr1g112030' => 'mtr', 'Medtr1g112050' => 'mtr', 'Medtr2g006290' => 'mtr', 'Medtr2g086510' => 'mtr', 'Medtr4g053120' => 'mtr', 'Medtr5g006320' => 'mtr', 'Medtr8g088720' => 'mtr', 'MELO3C004712.2' => 'cme', 'MELO3C006533.2' => 'cme', 'MELO3C019438.2' => 'cme', 'MELO3C019440.2' => 'cme', 'MELO3C019441.2' => 'cme', 'MELO3C019895.2' => 'cme', 'Migut.B00811' => 'egut', 'Migut.D02447' => 'egut', 'Migut.F00875' => 'egut', 'Migut.N00186' => 'egut', 'Migut.N01051' => 'egut', 'Migut.N02491' => 'egut', 'Migut.O00784' => 'egut', 'MSTRG.12367' => 'ama', 'MSTRG.18756' => 'ama', 'MSTRG.21042' => 'ama', 'Nitab4.5_0000559g0040' => 'nta', 'Nitab4.5_0000667g0190' => 'nta', 'Nitab4.5_0000755g0160' => 'nta', 'Nitab4.5_0001216g0080' => 'nta', 'Nitab4.5_0004069g0040' => 'nta', 'Nitab4.5_0004129g0010' => 'nta', 'Nitab4.5_0005744g0030' => 'nta', 'Nitab4.5_0006996g0030' => 'nta', 'Nitab4.5_0008971g0040' => 'nta', 'Nitab4.5_0009769g0020' => 'nta', 'Nitab4.5_0009833g0010' => 'nta', 'Nitab4.5_0013140g0020' => 'nta', 'Nn003s41376' => 'nnu', 'Nn1g01857' => 'nnu', 'Nn1g03611' => 'nnu', 'Nn1g06853' => 'nnu', 'Nn3g18360' => 'nnu', 'Nn4g26328' => 'nnu', 'Nn5g27531' => 'nnu', 'Nn6g34899' => 'nnu', 'Nn7g36299' => 'nnu', 'Oeu021485.1' => 'oeu', 'Oeu022433.1' => 'oeu', 'Oeu032111.1' => 'oeu', 'Oeu051608.1' => 'oeu', 'Os01g0860601' => 'osa', 'Os03g0659200' => 'osa', 'Os03g0835900' => 'osa', 'Os04g0412200' => 'osa', 'Os05g0443500' => 'osa', 'Os07g0251500' => 'osa', 'Os08g0104600' => 'osa', 'Peaxi162Scf00003g00047' => 'pax', 'Peaxi162Scf00003g00052' => 'pax', 'Peaxi162Scf00003g00394' => 'pax', 'Peaxi162Scf00091g00621' => 'pax', 'Peaxi162Scf00152g00146' => 'pax', 'Peaxi162Scf00173g00025' => 'pax', 'Peaxi162Scf00195g00102' => 'pax', 'Peaxi162Scf00402g00013' => 'pax', 'Peaxi162Scf00519g00618' => 'pax', 'PGR004G2838' => 'pgr', 'PGR044G2275' => 'pgr', 'PGR102G1377' => 'pgr', 'PGR119G1245' => 'pgr', 'PGR142G4449' => 'pgr', 'PGSC0003DMG400004532' => 'stu', 'PGSC0003DMG400011950' => 'stu', 'PGSC0003DMG400023391' => 'stu', 'PGSC0003DMG400023985' => 'stu', 'PGSC0003DMG400026360' => 'stu', 'PGSC0003DMG400035711' => 'stu', 'PGSC0003DMG400037286' => 'stu', 'PGSC0003DMG402005881' => 'stu', 'Phvul.002G045400' => 'pvu', 'Phvul.006G216600' => 'pvu', 'Phvul.006G216700' => 'pvu', 'Phvul.006G216800' => 'pvu', 'Phvul.007G022500' => 'pvu', 'Phvul.011G094400' => 'pvu', 'Potri.001G470700' => 'ptr', 'Potri.003G015200' => 'ptr', 'Potri.004G202500' => 'ptr', 'Potri.004G218400' => 'ptr', 'Potri.008G020100' => 'ptr', 'Potri.008G153200' => 'ptr', 'Potri.009G163800' => 'ptr', 'Potri.010G087300' => 'ptr', 'Potri.010G239100' => 'ptr', 'Pp3c10_16100' => 'ppa', 'Pp3c10_16880' => 'ppa', 'Pp3c16_6230' => 'ppa', 'Pp3c17_18910' => 'ppa', 'Pp3c3_22119' => 'ppa', 'Pp3c3_22140' => 'ppa', 'Pp3c4_8159' => 'ppa', 'Pp3c4_8171' => 'ppa', 'Pp3c4_8330' => 'ppa', 'PRCOL_00004098' => 'pco', 'Prupe.1G013900' => 'ppe', 'Prupe.1G226300' => 'ppe', 'Prupe.1G573600' => 'ppe', 'Prupe.6G130100' => 'ppe', 'Psat3g090040' => 'psa', 'Psat4g210440' => 'psa', 'Psat6g231040' => 'psa', 'Psat6g231080' => 'psa', 'Psat7g063000' => 'psa', 'Psat7g188000' => 'psa', 'Psat7g188040' => 'psa', 'PSO017G0206' => 'pso', 'PSO170G0501' => 'pso', 'PSO170G6422' => 'pso', 'PSO210G7739' => 'pso', 'PSO339G1808' => 'pso', 'PSO339G6135' => 'pso', 'PSO384G0010' => 'pso', 'PSO384G0964' => 'pso', 'PSO761G0050' => 'pso', 'PSO782G4085' => 'pso', 'QL01p012264' => 'qlo', 'QL02p099491' => 'qlo', 'QL03p033868' => 'qlo', 'QL04p046678' => 'qlo', 'QL06p002448' => 'qlo', 'RcHm_v2.0_Chr4g0416181' => 'rch', 'RcHm_v2.0_Chr5g0044701' => 'rch', 'RcHm_v2.0_Chr6g0265781' => 'rch', 'RcHm_v2.0_Chr7g0221031' => 'rch', 'Rhsim04G0202000' => 'rsi', 'Rhsim11G0127300' => 'rsi', 'Rhsim13G0111800' => 'rsi', 'Sabra01G0165600' => 'sbr', 'Sabra03G0008300' => 'sbr', 'Sabra04G0136900' => 'sbr', 'Sabra08G0013400' => 'sbr', 'Sabra08G0116800' => 'sbr', 'Sabra09G0128000' => 'sbr', 'Sabra10G0055500' => 'sbr', 'Sabra10G0073300' => 'sbr', 'SalBow3G0385' => 'sbo', 'SalBow3G1119' => 'sbo', 'SalBow3G2005' => 'sbo', 'SalBow6G2563' => 'sbo', 'SalBow6G6386' => 'sbo', 'Sc06g0008800' => 'sci', 'Sc07g0004950' => 'sci', 'Sc09g0005340' => 'sci', 'Sc13g0004410' => 'sci', 'Sc21g0007090' => 'sci', 'Sed0009285' => 'sed', 'Sed0017583' => 'sed', 'Sed0019699' => 'sed', 'Sed0023107' => 'sed', 'SEGI_10916' => 'sgi', 'SEGI_16217' => 'sgi', 'SEGI_19466' => 'sgi', 'SEGI_41115' => 'sgi', 'SGA_v2.0_scaffold111G31534' => 'sas', 'SGA_v2.0_scaffold22G09864' => 'sas', 'SGA_v2.0_scaffold338G49219' => 'sas', 'SGA_v2.0_scaffold92G28298' => 'sas', 'SMO119G0064' => 'smo', 'SMO223G0038' => 'smo', 'SMO347G0584' => 'smo', 'SMO351G0010' => 'smo', 'SMO356G0404' => 'smo', 'Solyc01g103920.3' => 'sly', 'Solyc04g009710.2' => 'sly', 'Solyc05g055280.2' => 'sly', 'Solyc10g044520.3' => 'sly', 'Solyc10g075160.1' => 'sly', 'Solyc11g006910.3' => 'sly', 'Solyc11g068430.3' => 'sly', 'Sopen01g046310' => 'spe', 'Sopen03g001200' => 'spe', 'Sopen04g004830' => 'spe', 'Sopen05g033720' => 'spe', 'Sopen06g030740' => 'spe', 'Sopen10g013090' => 'spe', 'Sopen10g027630' => 'spe', 'Sopen10g027640' => 'spe', 'Sopen11g002820' => 'spe', 'Sopen11g027140' => 'spe', 'Sp1g09680' => 'spa', 'Sp2g03630' => 'spa', 'Sp4g10320' => 'spa', 'Sp6g33400' => 'spa', 'Sp7g13030' => 'spa', 'TAR365G0317' => 'tar', 'TAR376G0979' => 'tar', 'TAR623G1665' => 'tar', 'TAR633G2373' => 'tar', 'TAR636G1400' => 'tar', 'THA.LOC104800529' => 'tha', 'THA.LOC104808547' => 'tha', 'THA.LOC104809615' => 'tha', 'THA.LOC104815724' => 'tha', 'THA.LOC104818480' => 'tha', 'THA.LOC104819179' => 'tha', 'THA.LOC104822270' => 'tha', 'THA.LOC104826425' => 'tha', 'Thecc.02G089700' => 'tca', 'Thecc.04G232300' => 'tca', 'Thecc.09G283400' => 'tca', 'Thhalv10009020m.g' => 'esa', 'Thhalv10015506m.g' => 'esa', 'Thhalv10017364m.g' => 'esa', 'Thhalv10023742m.g' => 'esa', 'Thhalv10026483m.g' => 'esa', 'TPR.G17232' => 'tpr', 'TPR.G2133' => 'tpr', 'TPR.G2498' => 'tpr', 'TPR.G31942' => 'tpr', 'TPR.G37877' => 'tpr', 'TPR.G4571' => 'tpr', 'TWI14G1113' => 'twi', 'TWI15G0426' => 'twi', 'TWI31G1005' => 'twi', 'TWI38G0513' => 'twi', 'TWI38G1484' => 'twi', 'TWI73G1098' => 'twi', 'unitig_26.g10519' => 'ugi', 'unitig_736.g22395' => 'ugi', 'unitig_747.g21234' => 'ugi', 'unitig_747.g21942' => 'ugi', 'vmacro14351' => 'vma', 'VMungo0540G0082' => 'vmu', 'VMungo0540G0405' => 'vmu', 'VMungo0540G1486' => 'vmu', 'VMungo0540G1692' => 'vmu', 'VMungo0720G2473' => 'vmu', 'VMungo1127G1562' => 'vmu', 'VMungo1215G1918' => 'vmu', 'Zm00001eb052650' => 'zma', 'Zm00001eb063710' => 'zma', 'Zm00001eb083950' => 'zma', 'Zm00001eb174420' => 'zma', 'Zm00001eb260140' => 'zma', 'Zm00001eb260150' => 'zma', 'Zm00001eb260160' => 'zma', 'Zm00001eb348290' => 'zma', 'Zm00001eb366870' => 'zma', 'Zm00001eb421930' => 'zma' ) $gf_id = 'HOM05D001025' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001025' ) $data_identifier = 'HOM05D001025' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 19, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 2, 'amhyb' => (int) 4, 'aly' => (int) 4, 'aox' => (int) 4, 'arhy' => (int) 3, 'ath' => (int) 5, 'atr' => (int) 4, 'acertr' => (int) 3, 'cqu' => (int) 7, 'bca' => (int) 17, 'bol' => (int) 10, 'bra' => (int) 9, 'can' => (int) 10, 'cansat' => (int) 6, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 5, 'cbr' => (int) 5, 'ccan' => (int) 5, 'cde' => (int) 4, 'cfa' => (int) 3, 'ccl' => (int) 6, 'cil' => (int) 4, 'cla' => (int) 3, 'col' => (int) 3, 'cpa' => (int) 3, 'cre' => (int) 7, 'csa' => (int) 5, 'camsi' => (int) 9, 'dca' => (int) 4, 'din' => (int) 5, 'dzi' => (int) 7, 'eca' => (int) 6, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 12, 'fve' => (int) 4, 'gma' => (int) 12, 'ghi' => (int) 17, 'gra' => (int) 9, 'vvi' => (int) 2, 'han' => (int) 8, 'cav' => (int) 5, 'hma' => (int) 9, 'vpl' => (int) 4, 'sun' => (int) 2, 'lal' => (int) 9, 'lja' => (int) 5, 'lonja' => (int) 6, 'lsa' => (int) 3, 'mes' => (int) 8, 'mpo' => (int) 3, 'mbi' => (int) 4, 'mco' => (int) 3, 'mdo' => (int) 5, 'mtr' => (int) 7, 'cme' => (int) 6, 'egut' => (int) 7, 'ama' => (int) 3, 'nta' => (int) 12, 'nnu' => (int) 9, 'oeu' => (int) 4, 'osa' => (int) 7, 'pax' => (int) 9, 'pgr' => (int) 5, 'stu' => (int) 8, 'pvu' => (int) 6, 'ptr' => (int) 9, 'ppa' => (int) 9, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 7, 'pso' => (int) 10, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 3, 'sbr' => (int) 8, 'sbo' => (int) 5, 'sci' => (int) 5, 'sed' => (int) 4, 'sgi' => (int) 4, 'sas' => (int) 4, 'smo' => (int) 5, 'sly' => (int) 7, 'spe' => (int) 10, 'spa' => (int) 5, 'tar' => (int) 5, 'tha' => (int) 8, 'tca' => (int) 3, 'esa' => (int) 5, 'tpr' => (int) 6, 'twi' => (int) 6, 'ugi' => (int) 4, 'vma' => (int) 1, 'vmu' => (int) 7, 'zma' => (int) 10 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb421930' $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' => 'HOM05D001025', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '592', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p22650' => 'bna', 'A01p29720' => 'bna', 'A03p26560' => 'bna', 'A03p68820' => 'bna', 'A04p20980' => 'bna', 'A06p07730' => 'bna', 'A07p18260' => 'bna', 'A08p33710' => 'bna', 'A09p16970' => 'bna', 'A10p27490' => 'bna', 'Aa31LG1G17300' => 'aar', 'Aa31LG1G3910' => 'aar', 'Aa31LG2G9630' => 'aar', 'Aa31LG5G8360' => 'aar', 'Aa31LG9G2410' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4699' => 'aag', 'Actinidia23512' => 'ach', 'Actinidia37080' => 'ach', 'Ah.01g020380' => 'amhyb', 'Ah.08g215710' => 'amhyb', 'Ah.09g225110' => 'amhyb', 'Ah.10g036680' => 'amhyb', 'AL1G21940' => 'aly', 'AL2G15540' => 'aly', 'AL4G21520' => 'aly', 'AL7G40960' => 'aly', 'Aqoxy2G01191' => 'aox', 'Aqoxy2G03393' => 'aox', 'Aqoxy4G02775' => 'aox', 'Aqoxy6G00058' => 'aox', 'arahy.Tifrunner.gnm1.ann1.9X74H2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CW3FX9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R485W7' => 'arhy', 'AT1G10960' => 'ath', 'AT1G60950' => 'ath', 'AT2G27510' => 'ath', 'AT4G14890' => 'ath', 'AT5G10000' => 'ath', 'ATR0665G624' => 'atr', 'ATR0697G138' => 'atr', 'ATR0776G046' => 'atr', 'ATR1134G135' => 'atr', 'Atru.chr12.1025' => 'acertr', 'Atru.chr3.3241' => 'acertr', 'Atru.chr4.2460' => 'acertr', 'AUR62007427' => 'cqu', 'AUR62010960' => 'cqu', 'AUR62012201' => 'cqu', 'AUR62021470' => 'cqu', 'AUR62022834' => 'cqu', 'AUR62033635' => 'cqu', 'AUR62036186' => 'cqu', 'BcaB01g03077' => 'bca', 'BcaB02g10093' => 'bca', 'BcaB04g20295' => 'bca', 'BcaB06g28147' => 'bca', 'BcaB07g31253' => 'bca', 'BcaC01g04946' => 'bca', 'BcaC02g10614' => 'bca', 'BcaC02g10885' => 'bca', 'BcaC04g19356' => 'bca', 'BcaC04g22297' => 'bca', 'BcaC05g24977' => 'bca', 'BcaC06g31823' => 'bca', 'BcaC07g38633' => 'bca', 'BcaC09g49353' => 'bca', 'BcaC09g50168' => 'bca', 'BcaNung00322' => 'bca', 'BcaNung04769' => 'bca', 'BolC1t02753H' => 'bol', 'BolC1t03721H' => 'bol', 'BolC3t15525H' => 'bol', 'BolC4t23903H' => 'bol', 'BolC4t24231H' => 'bol', 'BolC4t27209H' => 'bol', 'BolC5t29671H' => 'bol', 'BolC8t49044H' => 'bol', 'BolC9t54999H' => 'bol', 'BolC9t59517H' => 'bol', 'BraA01t02178Z' => 'bra', 'BraA01t03099Z' => 'bra', 'BraA03t11867Z' => 'bra', 'BraA04t17667Z' => 'bra', 'BraA07t29542Z' => 'bra', 'BraA08t35287Z' => 'bra', 'BraA09t37334Z' => 'bra', 'BraA10t44801Z' => 'bra', 'BraSC39t46181Z' => 'bra', 'C01p28240' => 'bna', 'C01p37530' => 'bna', 'C03p31820' => 'bna', 'C04p24080' => 'bna', 'C04p25790' => 'bna', 'C04p56770' => 'bna', 'C05p09310' => 'bna', 'C09p21010' => 'bna', 'C09p67560' => 'bna', 'CAN.G1324.7' => 'can', 'CAN.G1358.10' => 'can', 'CAN.G1550.2' => 'can', 'CAN.G186.56' => 'can', 'CAN.G1965.1' => 'can', 'CAN.G645.15' => 'can', 'CAN.G798.26' => 'can', 'CAN.G798.27' => 'can', 'CAN.G798.29' => 'can', 'CAN.G919.31' => 'can', 'CANSAT11G0133' => 'cansat', 'CANSAT11G1171' => 'cansat', 'CANSAT11G2056' => 'cansat', 'CANSAT56G1202' => 'cansat', 'CANSAT56G1514' => 'cansat', 'CANSAT78G0455' => 'cansat', 'CARHR011190' => 'chi', 'CARHR051980' => 'chi', 'CARHR120170' => 'chi', 'CARHR203310' => 'chi', 'CARHR221490' => 'chi', 'Carub.0001s1054' => 'cru', 'Carub.0002s0431' => 'cru', 'Carub.0004s0818' => 'cru', 'Carub.0006s0846' => 'cru', 'Carub.0007s2722' => 'cru', 'Ca_00058_v3' => 'car', 'Ca_17831_v3' => 'car', 'Ca_19408_v3' => 'car', 'Ca_24397_v3' => 'car', 'Ca_25664_v3' => 'car', 'CBR_g21818' => 'cbr', 'CBR_g31195' => 'cbr', 'CBR_g32282' => 'cbr', 'CBR_g39599' => 'cbr', 'CBR_g49410' => 'cbr', 'Cc01_g09120' => 'ccan', 'Cc01_g09130' => 'ccan', 'Cc02_g09630' => 'ccan', 'Cc02_g22810' => 'ccan', 'Cc03_g03810' => 'ccan', 'CDE02G3718' => 'cde', 'CDE04G3183' => 'cde', 'CDE07G1046' => 'cde', 'CDE08G0480' => 'cde', 'Cfa005493' => 'cfa', 'Cfa010312' => 'cfa', 'Cfa015648' => 'cfa', 'Ciclev10002793m.g' => 'ccl', 'Ciclev10003356m.g' => 'ccl', 'Ciclev10006141m.g' => 'ccl', 'Ciclev10016676m.g' => 'ccl', 'Ciclev10017081m.g' => 'ccl', 'Ciclev10029499m.g' => 'ccl', 'CiPaw.01G166300' => 'cil', 'CiPaw.06G145600' => 'cil', 'CiPaw.13G040100' => 'cil', 'CiPaw.13G135800' => 'cil', 'ClCG01G012230' => 'cla', 'ClCG05G009510' => 'cla', 'ClCG08G008270' => 'cla', 'COL.COLO4_11763' => 'col', 'COL.COLO4_19876' => 'col', 'COL.COLO4_21481' => 'col', 'Cpa.g.sc118.34' => 'cpa', 'Cpa.g.sc32.13' => 'cpa', 'Cpa.g.sc58.103' => 'cpa', 'Cre03.g183850' => 'cre', 'Cre06.g306350' => 'cre', 'Cre07.g334800' => 'cre', 'Cre12.g487900' => 'cre', 'Cre14.g626700' => 'cre', 'Cre16.g658400' => 'cre', 'Cre17.g700950' => 'cre', 'CsaV3_1G014830' => 'csa', 'CsaV3_3G013320' => 'csa', 'CsaV3_3G019210' => 'csa', 'CsaV3_3G019220' => 'csa', 'CsaV3_6G004230' => 'csa', 'CSS0003773' => 'camsi', 'CSS0004563' => 'camsi', 'CSS0013949' => 'camsi', 'CSS0025971' => 'camsi', 'CSS0028570' => 'camsi', 'CSS0033127' => 'camsi', 'CSS0036051' => 'camsi', 'CSS0040087' => 'camsi', 'CSS0043179' => 'camsi', 'DCAR_006161' => 'dca', 'DCAR_010351' => 'dca', 'DCAR_012197' => 'dca', 'DCAR_024162' => 'dca', 'Dinv01030' => 'din', 'Dinv10924' => 'din', 'Dinv11835' => 'din', 'Dinv22841' => 'din', 'Dinv42553' => 'din', 'Duzib052G0560' => 'dzi', 'Duzib132G0389' => 'dzi', 'Duzib150G1181' => 'dzi', 'Duzib168G0623' => 'dzi', 'Duzib170G1036' => 'dzi', 'Duzib212G0200' => 'dzi', 'Duzib248G0194' => 'dzi', 'ECA232G2193' => 'eca', 'ECA233G0302' => 'eca', 'ECA234G2813' => 'eca', 'ECA234G4866' => 'eca', 'ECA240G3932' => 'eca', 'ECA248G0385' => 'eca', 'EL10Ac2g04781' => 'bvu', 'EL10Ac3g06445' => 'bvu', 'EL10Ac7g15825' => 'bvu', 'EL10Ac8g18550' => 'bvu', 'Eucgr.B03849' => 'egr', 'Eucgr.I02744' => 'egr', 'Eucgr.J00264' => 'egr', 'Eucgr.J00493' => 'egr', 'FAN04G2181' => 'fan', 'FAN07G2666' => 'fan', 'FAN11G0024' => 'fan', 'FAN12G1105' => 'fan', 'FAN13G0302' => 'fan', 'FAN15G2781' => 'fan', 'FAN16G1274' => 'fan', 'FAN17G2988' => 'fan', 'FAN18G2621' => 'fan', 'FAN21G0013' => 'fan', 'FAN22G1211' => 'fan', 'FAN25G3626' => 'fan', 'FvH4_2g09491' => 'fve', 'FvH4_3g24910' => 'fve', 'FvH4_4g15630' => 'fve', 'FvH4_5g28820' => 'fve', 'Glyma.01G238000' => 'gma', 'Glyma.05G168400' => 'gma', 'Glyma.08G126800' => 'gma', 'Glyma.08G188500' => 'gma', 'Glyma.10G278900' => 'gma', 'Glyma.11G005700' => 'gma', 'Glyma.11G183300' => 'gma', 'Glyma.12G089200' => 'gma', 'Glyma.12G169400' => 'gma', 'Glyma.12G169500' => 'gma', 'Glyma.12G169600' => 'gma', 'Glyma.20G110800' => 'gma', 'Gohir.A03G192900' => 'ghi', 'Gohir.A03G193000' => 'ghi', 'Gohir.A05G080700' => 'ghi', 'Gohir.A09G216000' => 'ghi', 'Gohir.A12G027700' => 'ghi', 'Gohir.A13G036200' => 'ghi', 'Gohir.A13G222600' => 'ghi', 'Gohir.D02G213900' => 'ghi', 'Gohir.D02G214000' => 'ghi', 'Gohir.D05G083700' => 'ghi', 'Gohir.D05G083800' => 'ghi', 'Gohir.D05G083850' => 'ghi', 'Gohir.D08G015400' => 'ghi', 'Gohir.D09G218400' => 'ghi', 'Gohir.D12G027100' => 'ghi', 'Gohir.D13G034500' => 'ghi', 'Gohir.D13G227400' => 'ghi', 'Gorai.005G241800' => 'gra', 'Gorai.005G241900' => 'gra', 'Gorai.006G239400' => 'gra', 'Gorai.008G027600' => 'gra', 'Gorai.009G085400' => 'gra', 'Gorai.009G085500' => 'gra', 'Gorai.013G039000' => 'gra', 'Gorai.013G194800' => 'gra', 'Gorai.013G257900' => 'gra', 'GSVIVG01000982001' => 'vvi', 'GSVIVG01017981001' => 'vvi', 'HanXRQChr01g0024061' => 'han', 'HanXRQChr09g0247831' => 'han', 'HanXRQChr10g0294611' => 'han', 'HanXRQChr10g0294621' => 'han', 'HanXRQChr11g0346821' => 'han', 'HanXRQChr13g0397461' => 'han', 'HanXRQChr16g0513651' => 'han', 'HanXRQChr16g0513701' => 'han', 'Haze_00897' => 'cav', 'Haze_01745' => 'cav', 'Haze_02486' => 'cav', 'Haze_02487' => 'cav', 'Haze_23374' => 'cav', 'Hma1.2p1_0578F.1_g182520' => 'hma', 'Hma1.2p1_0602F.1_g187350' => 'hma', 'Hma1.2p1_0602F.1_g187360' => 'hma', 'Hma1.2p1_0874F.1_g231320' => 'hma', 'Hma1.2p1_1197F.1_g266210' => 'hma', 'Hma1.2p1_1197F.1_g266220' => 'hma', 'Hma1.2p1_2167F.1_g315895' => 'hma', 'Hma1.2p1_2190F.1_g316640' => 'hma', 'Hma1.2p1_3645F.1_g337153' => 'hma', 'HPP92_004907' => 'vpl', 'HPP92_012134' => 'vpl', 'HPP92_025136' => 'vpl', 'HPP92_026087' => 'vpl', 'Hund06782' => 'sun', 'Hund06784' => 'sun', 'Lalb_Chr01g0004861' => 'lal', 'Lalb_Chr02g0140591' => 'lal', 'Lalb_Chr02g0140611' => 'lal', 'Lalb_Chr03g0028101' => 'lal', 'Lalb_Chr07g0185791' => 'lal', 'Lalb_Chr12g0204491' => 'lal', 'Lalb_Chr13g0295671' => 'lal', 'Lalb_Chr19g0136461' => 'lal', 'Lalb_Chr21g0309191' => 'lal', 'Lj1g0028158' => 'lja', 'Lj1P236T38' => 'lonja', 'Lj2C32G2' => 'lonja', 'Lj2P944T8' => 'lonja', 'Lj2P963T15' => 'lonja', 'Lj3g0011788' => 'lja', 'Lj4g0025027' => 'lja', 'Lj5P255T36' => 'lonja', 'Lj6g0018866' => 'lja', 'Lj6P608T31' => 'lonja', 'LjContig00408g0008879' => 'lja', 'Lsat_1_v5_gn_5_105820' => 'lsa', 'Lsat_1_v5_gn_6_38800' => 'lsa', 'Lsat_1_v5_gn_7_67141' => 'lsa', 'Manes.04G003400' => 'mes', 'Manes.07G020000' => 'mes', 'Manes.07G020100' => 'mes', 'Manes.07G020150' => 'mes', 'Manes.10G061500' => 'mes', 'Manes.10G123200' => 'mes', 'Manes.11G161900' => 'mes', 'Manes.15G029300' => 'mes', 'Mapoly0071s0018' => 'mpo', 'Mapoly0082s0023' => 'mpo', 'Mapoly3477s0001' => 'mpo', 'MBI05_g31233_MAGBIO' => 'mbi', 'MBI09_g05946_MAGBIO' => 'mbi', 'MBI09_g05947_MAGBIO' => 'mbi', 'MBI17_g08346_MAGBIO' => 'mbi', 'MCO04G038' => 'mco', 'MCO09G370' => 'mco', 'MCO13G605' => 'mco', 'MD00G1075500' => 'mdo', 'MD03G1144300' => 'mdo', 'MD08G1236800' => 'mdo', 'MD13G1193300' => 'mdo', 'MD15G1428700' => 'mdo', 'Medtr1g112030' => 'mtr', 'Medtr1g112050' => 'mtr', 'Medtr2g006290' => 'mtr', 'Medtr2g086510' => 'mtr', 'Medtr4g053120' => 'mtr', 'Medtr5g006320' => 'mtr', 'Medtr8g088720' => 'mtr', 'MELO3C004712.2' => 'cme', 'MELO3C006533.2' => 'cme', 'MELO3C019438.2' => 'cme', 'MELO3C019440.2' => 'cme', 'MELO3C019441.2' => 'cme', 'MELO3C019895.2' => 'cme', 'Migut.B00811' => 'egut', 'Migut.D02447' => 'egut', 'Migut.F00875' => 'egut', 'Migut.N00186' => 'egut', 'Migut.N01051' => 'egut', 'Migut.N02491' => 'egut', 'Migut.O00784' => 'egut', 'MSTRG.12367' => 'ama', 'MSTRG.18756' => 'ama', 'MSTRG.21042' => 'ama', 'Nitab4.5_0000559g0040' => 'nta', 'Nitab4.5_0000667g0190' => 'nta', 'Nitab4.5_0000755g0160' => 'nta', 'Nitab4.5_0001216g0080' => 'nta', 'Nitab4.5_0004069g0040' => 'nta', 'Nitab4.5_0004129g0010' => 'nta', 'Nitab4.5_0005744g0030' => 'nta', 'Nitab4.5_0006996g0030' => 'nta', 'Nitab4.5_0008971g0040' => 'nta', 'Nitab4.5_0009769g0020' => 'nta', 'Nitab4.5_0009833g0010' => 'nta', 'Nitab4.5_0013140g0020' => 'nta', 'Nn003s41376' => 'nnu', 'Nn1g01857' => 'nnu', 'Nn1g03611' => 'nnu', 'Nn1g06853' => 'nnu', 'Nn3g18360' => 'nnu', 'Nn4g26328' => 'nnu', 'Nn5g27531' => 'nnu', 'Nn6g34899' => 'nnu', 'Nn7g36299' => 'nnu', 'Oeu021485.1' => 'oeu', 'Oeu022433.1' => 'oeu', 'Oeu032111.1' => 'oeu', 'Oeu051608.1' => 'oeu', 'Os01g0860601' => 'osa', 'Os03g0659200' => 'osa', 'Os03g0835900' => 'osa', 'Os04g0412200' => 'osa', 'Os05g0443500' => 'osa', 'Os07g0251500' => 'osa', 'Os08g0104600' => 'osa', 'Peaxi162Scf00003g00047' => 'pax', 'Peaxi162Scf00003g00052' => 'pax', 'Peaxi162Scf00003g00394' => 'pax', 'Peaxi162Scf00091g00621' => 'pax', 'Peaxi162Scf00152g00146' => 'pax', 'Peaxi162Scf00173g00025' => 'pax', 'Peaxi162Scf00195g00102' => 'pax', 'Peaxi162Scf00402g00013' => 'pax', 'Peaxi162Scf00519g00618' => 'pax', 'PGR004G2838' => 'pgr', 'PGR044G2275' => 'pgr', 'PGR102G1377' => 'pgr', 'PGR119G1245' => 'pgr', 'PGR142G4449' => 'pgr', 'PGSC0003DMG400004532' => 'stu', 'PGSC0003DMG400011950' => 'stu', 'PGSC0003DMG400023391' => 'stu', 'PGSC0003DMG400023985' => 'stu', 'PGSC0003DMG400026360' => 'stu', 'PGSC0003DMG400035711' => 'stu', 'PGSC0003DMG400037286' => 'stu', 'PGSC0003DMG402005881' => 'stu', 'Phvul.002G045400' => 'pvu', 'Phvul.006G216600' => 'pvu', 'Phvul.006G216700' => 'pvu', 'Phvul.006G216800' => 'pvu', 'Phvul.007G022500' => 'pvu', 'Phvul.011G094400' => 'pvu', 'Potri.001G470700' => 'ptr', 'Potri.003G015200' => 'ptr', 'Potri.004G202500' => 'ptr', 'Potri.004G218400' => 'ptr', 'Potri.008G020100' => 'ptr', 'Potri.008G153200' => 'ptr', 'Potri.009G163800' => 'ptr', 'Potri.010G087300' => 'ptr', 'Potri.010G239100' => 'ptr', 'Pp3c10_16100' => 'ppa', 'Pp3c10_16880' => 'ppa', 'Pp3c16_6230' => 'ppa', 'Pp3c17_18910' => 'ppa', 'Pp3c3_22119' => 'ppa', 'Pp3c3_22140' => 'ppa', 'Pp3c4_8159' => 'ppa', 'Pp3c4_8171' => 'ppa', 'Pp3c4_8330' => 'ppa', 'PRCOL_00004098' => 'pco', 'Prupe.1G013900' => 'ppe', 'Prupe.1G226300' => 'ppe', 'Prupe.1G573600' => 'ppe', 'Prupe.6G130100' => 'ppe', 'Psat3g090040' => 'psa', 'Psat4g210440' => 'psa', 'Psat6g231040' => 'psa', 'Psat6g231080' => 'psa', 'Psat7g063000' => 'psa', 'Psat7g188000' => 'psa', 'Psat7g188040' => 'psa', 'PSO017G0206' => 'pso', 'PSO170G0501' => 'pso', 'PSO170G6422' => 'pso', 'PSO210G7739' => 'pso', 'PSO339G1808' => 'pso', 'PSO339G6135' => 'pso', 'PSO384G0010' => 'pso', 'PSO384G0964' => 'pso', 'PSO761G0050' => 'pso', 'PSO782G4085' => 'pso', 'QL01p012264' => 'qlo', 'QL02p099491' => 'qlo', 'QL03p033868' => 'qlo', 'QL04p046678' => 'qlo', 'QL06p002448' => 'qlo', 'RcHm_v2.0_Chr4g0416181' => 'rch', 'RcHm_v2.0_Chr5g0044701' => 'rch', 'RcHm_v2.0_Chr6g0265781' => 'rch', 'RcHm_v2.0_Chr7g0221031' => 'rch', 'Rhsim04G0202000' => 'rsi', 'Rhsim11G0127300' => 'rsi', 'Rhsim13G0111800' => 'rsi', 'Sabra01G0165600' => 'sbr', 'Sabra03G0008300' => 'sbr', 'Sabra04G0136900' => 'sbr', 'Sabra08G0013400' => 'sbr', 'Sabra08G0116800' => 'sbr', 'Sabra09G0128000' => 'sbr', 'Sabra10G0055500' => 'sbr', 'Sabra10G0073300' => 'sbr', 'SalBow3G0385' => 'sbo', 'SalBow3G1119' => 'sbo', 'SalBow3G2005' => 'sbo', 'SalBow6G2563' => 'sbo', 'SalBow6G6386' => 'sbo', 'Sc06g0008800' => 'sci', 'Sc07g0004950' => 'sci', 'Sc09g0005340' => 'sci', 'Sc13g0004410' => 'sci', 'Sc21g0007090' => 'sci', 'Sed0009285' => 'sed', 'Sed0017583' => 'sed', 'Sed0019699' => 'sed', 'Sed0023107' => 'sed', 'SEGI_10916' => 'sgi', 'SEGI_16217' => 'sgi', 'SEGI_19466' => 'sgi', 'SEGI_41115' => 'sgi', 'SGA_v2.0_scaffold111G31534' => 'sas', 'SGA_v2.0_scaffold22G09864' => 'sas', 'SGA_v2.0_scaffold338G49219' => 'sas', 'SGA_v2.0_scaffold92G28298' => 'sas', 'SMO119G0064' => 'smo', 'SMO223G0038' => 'smo', 'SMO347G0584' => 'smo', 'SMO351G0010' => 'smo', 'SMO356G0404' => 'smo', 'Solyc01g103920.3' => 'sly', 'Solyc04g009710.2' => 'sly', 'Solyc05g055280.2' => 'sly', 'Solyc10g044520.3' => 'sly', 'Solyc10g075160.1' => 'sly', 'Solyc11g006910.3' => 'sly', 'Solyc11g068430.3' => 'sly', 'Sopen01g046310' => 'spe', 'Sopen03g001200' => 'spe', 'Sopen04g004830' => 'spe', 'Sopen05g033720' => 'spe', 'Sopen06g030740' => 'spe', 'Sopen10g013090' => 'spe', 'Sopen10g027630' => 'spe', 'Sopen10g027640' => 'spe', 'Sopen11g002820' => 'spe', 'Sopen11g027140' => 'spe', 'Sp1g09680' => 'spa', 'Sp2g03630' => 'spa', 'Sp4g10320' => 'spa', 'Sp6g33400' => 'spa', 'Sp7g13030' => 'spa', 'TAR365G0317' => 'tar', 'TAR376G0979' => 'tar', 'TAR623G1665' => 'tar', 'TAR633G2373' => 'tar', 'TAR636G1400' => 'tar', 'THA.LOC104800529' => 'tha', 'THA.LOC104808547' => 'tha', 'THA.LOC104809615' => 'tha', 'THA.LOC104815724' => 'tha', 'THA.LOC104818480' => 'tha', 'THA.LOC104819179' => 'tha', 'THA.LOC104822270' => 'tha', 'THA.LOC104826425' => 'tha', 'Thecc.02G089700' => 'tca', 'Thecc.04G232300' => 'tca', 'Thecc.09G283400' => 'tca', 'Thhalv10009020m.g' => 'esa', 'Thhalv10015506m.g' => 'esa', 'Thhalv10017364m.g' => 'esa', 'Thhalv10023742m.g' => 'esa', 'Thhalv10026483m.g' => 'esa', 'TPR.G17232' => 'tpr', 'TPR.G2133' => 'tpr', 'TPR.G2498' => 'tpr', 'TPR.G31942' => 'tpr', 'TPR.G37877' => 'tpr', 'TPR.G4571' => 'tpr', 'TWI14G1113' => 'twi', 'TWI15G0426' => 'twi', 'TWI31G1005' => 'twi', 'TWI38G0513' => 'twi', 'TWI38G1484' => 'twi', 'TWI73G1098' => 'twi', 'unitig_26.g10519' => 'ugi', 'unitig_736.g22395' => 'ugi', 'unitig_747.g21234' => 'ugi', 'unitig_747.g21942' => 'ugi', 'vmacro14351' => 'vma', 'VMungo0540G0082' => 'vmu', 'VMungo0540G0405' => 'vmu', 'VMungo0540G1486' => 'vmu', 'VMungo0540G1692' => 'vmu', 'VMungo0720G2473' => 'vmu', 'VMungo1127G1562' => 'vmu', 'VMungo1215G1918' => 'vmu', 'Zm00001eb052650' => 'zma', 'Zm00001eb063710' => 'zma', 'Zm00001eb083950' => 'zma', 'Zm00001eb174420' => 'zma', 'Zm00001eb260140' => 'zma', 'Zm00001eb260150' => 'zma', 'Zm00001eb260160' => 'zma', 'Zm00001eb348290' => 'zma', 'Zm00001eb366870' => 'zma', 'Zm00001eb421930' => 'zma' ), 'gf_id' => 'HOM05D001025', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001025' ), 'data_identifier' => 'HOM05D001025', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001025', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '592', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p22650' => 'bna', 'A01p29720' => 'bna', 'A03p26560' => 'bna', 'A03p68820' => 'bna', 'A04p20980' => 'bna', 'A06p07730' => 'bna', 'A07p18260' => 'bna', 'A08p33710' => 'bna', 'A09p16970' => 'bna', 'A10p27490' => 'bna', 'Aa31LG1G17300' => 'aar', 'Aa31LG1G3910' => 'aar', 'Aa31LG2G9630' => 'aar', 'Aa31LG5G8360' => 'aar', 'Aa31LG9G2410' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4699' => 'aag', 'Actinidia23512' => 'ach', 'Actinidia37080' => 'ach', 'Ah.01g020380' => 'amhyb', 'Ah.08g215710' => 'amhyb', 'Ah.09g225110' => 'amhyb', 'Ah.10g036680' => 'amhyb', 'AL1G21940' => 'aly', 'AL2G15540' => 'aly', 'AL4G21520' => 'aly', 'AL7G40960' => 'aly', 'Aqoxy2G01191' => 'aox', 'Aqoxy2G03393' => 'aox', 'Aqoxy4G02775' => 'aox', 'Aqoxy6G00058' => 'aox', 'arahy.Tifrunner.gnm1.ann1.9X74H2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CW3FX9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R485W7' => 'arhy', 'AT1G10960' => 'ath', 'AT1G60950' => 'ath', 'AT2G27510' => 'ath', 'AT4G14890' => 'ath', 'AT5G10000' => 'ath', 'ATR0665G624' => 'atr', 'ATR0697G138' => 'atr', 'ATR0776G046' => 'atr', 'ATR1134G135' => 'atr', 'Atru.chr12.1025' => 'acertr', 'Atru.chr3.3241' => 'acertr', 'Atru.chr4.2460' => 'acertr', 'AUR62007427' => 'cqu', 'AUR62010960' => 'cqu', 'AUR62012201' => 'cqu', 'AUR62021470' => 'cqu', 'AUR62022834' => 'cqu', 'AUR62033635' => 'cqu', 'AUR62036186' => 'cqu', 'BcaB01g03077' => 'bca', 'BcaB02g10093' => 'bca', 'BcaB04g20295' => 'bca', 'BcaB06g28147' => 'bca', 'BcaB07g31253' => 'bca', 'BcaC01g04946' => 'bca', 'BcaC02g10614' => 'bca', 'BcaC02g10885' => 'bca', 'BcaC04g19356' => 'bca', 'BcaC04g22297' => 'bca', 'BcaC05g24977' => 'bca', 'BcaC06g31823' => 'bca', 'BcaC07g38633' => 'bca', 'BcaC09g49353' => 'bca', 'BcaC09g50168' => 'bca', 'BcaNung00322' => 'bca', 'BcaNung04769' => 'bca', 'BolC1t02753H' => 'bol', 'BolC1t03721H' => 'bol', 'BolC3t15525H' => 'bol', 'BolC4t23903H' => 'bol', 'BolC4t24231H' => 'bol', 'BolC4t27209H' => 'bol', 'BolC5t29671H' => 'bol', 'BolC8t49044H' => 'bol', 'BolC9t54999H' => 'bol', 'BolC9t59517H' => 'bol', 'BraA01t02178Z' => 'bra', 'BraA01t03099Z' => 'bra', 'BraA03t11867Z' => 'bra', 'BraA04t17667Z' => 'bra', 'BraA07t29542Z' => 'bra', 'BraA08t35287Z' => 'bra', 'BraA09t37334Z' => 'bra', 'BraA10t44801Z' => 'bra', 'BraSC39t46181Z' => 'bra', 'C01p28240' => 'bna', 'C01p37530' => 'bna', 'C03p31820' => 'bna', 'C04p24080' => 'bna', 'C04p25790' => 'bna', 'C04p56770' => 'bna', 'C05p09310' => 'bna', 'C09p21010' => 'bna', 'C09p67560' => 'bna', 'CAN.G1324.7' => 'can', 'CAN.G1358.10' => 'can', 'CAN.G1550.2' => 'can', 'CAN.G186.56' => 'can', 'CAN.G1965.1' => 'can', 'CAN.G645.15' => 'can', 'CAN.G798.26' => 'can', 'CAN.G798.27' => 'can', 'CAN.G798.29' => 'can', 'CAN.G919.31' => 'can', 'CANSAT11G0133' => 'cansat', 'CANSAT11G1171' => 'cansat', 'CANSAT11G2056' => 'cansat', 'CANSAT56G1202' => 'cansat', 'CANSAT56G1514' => 'cansat', 'CANSAT78G0455' => 'cansat', 'CARHR011190' => 'chi', 'CARHR051980' => 'chi', 'CARHR120170' => 'chi', 'CARHR203310' => 'chi', 'CARHR221490' => 'chi', 'Carub.0001s1054' => 'cru', 'Carub.0002s0431' => 'cru', 'Carub.0004s0818' => 'cru', 'Carub.0006s0846' => 'cru', 'Carub.0007s2722' => 'cru', 'Ca_00058_v3' => 'car', 'Ca_17831_v3' => 'car', 'Ca_19408_v3' => 'car', 'Ca_24397_v3' => 'car', 'Ca_25664_v3' => 'car', 'CBR_g21818' => 'cbr', 'CBR_g31195' => 'cbr', 'CBR_g32282' => 'cbr', 'CBR_g39599' => 'cbr', 'CBR_g49410' => 'cbr', 'Cc01_g09120' => 'ccan', 'Cc01_g09130' => 'ccan', 'Cc02_g09630' => 'ccan', 'Cc02_g22810' => 'ccan', 'Cc03_g03810' => 'ccan', 'CDE02G3718' => 'cde', 'CDE04G3183' => 'cde', 'CDE07G1046' => 'cde', 'CDE08G0480' => 'cde', 'Cfa005493' => 'cfa', 'Cfa010312' => 'cfa', 'Cfa015648' => 'cfa', 'Ciclev10002793m.g' => 'ccl', 'Ciclev10003356m.g' => 'ccl', 'Ciclev10006141m.g' => 'ccl', 'Ciclev10016676m.g' => 'ccl', 'Ciclev10017081m.g' => 'ccl', 'Ciclev10029499m.g' => 'ccl', 'CiPaw.01G166300' => 'cil', 'CiPaw.06G145600' => 'cil', 'CiPaw.13G040100' => 'cil', 'CiPaw.13G135800' => 'cil', 'ClCG01G012230' => 'cla', 'ClCG05G009510' => 'cla', 'ClCG08G008270' => 'cla', 'COL.COLO4_11763' => 'col', 'COL.COLO4_19876' => 'col', 'COL.COLO4_21481' => 'col', 'Cpa.g.sc118.34' => 'cpa', 'Cpa.g.sc32.13' => 'cpa', 'Cpa.g.sc58.103' => 'cpa', 'Cre03.g183850' => 'cre', 'Cre06.g306350' => 'cre', 'Cre07.g334800' => 'cre', 'Cre12.g487900' => 'cre', 'Cre14.g626700' => 'cre', 'Cre16.g658400' => 'cre', 'Cre17.g700950' => 'cre', 'CsaV3_1G014830' => 'csa', 'CsaV3_3G013320' => 'csa', 'CsaV3_3G019210' => 'csa', 'CsaV3_3G019220' => 'csa', 'CsaV3_6G004230' => 'csa', 'CSS0003773' => 'camsi', 'CSS0004563' => 'camsi', 'CSS0013949' => 'camsi', 'CSS0025971' => 'camsi', 'CSS0028570' => 'camsi', 'CSS0033127' => 'camsi', 'CSS0036051' => 'camsi', 'CSS0040087' => 'camsi', 'CSS0043179' => 'camsi', 'DCAR_006161' => 'dca', 'DCAR_010351' => 'dca', 'DCAR_012197' => 'dca', 'DCAR_024162' => 'dca', 'Dinv01030' => 'din', 'Dinv10924' => 'din', 'Dinv11835' => 'din', 'Dinv22841' => 'din', 'Dinv42553' => 'din', 'Duzib052G0560' => 'dzi', 'Duzib132G0389' => 'dzi', 'Duzib150G1181' => 'dzi', 'Duzib168G0623' => 'dzi', 'Duzib170G1036' => 'dzi', 'Duzib212G0200' => 'dzi', 'Duzib248G0194' => 'dzi', 'ECA232G2193' => 'eca', 'ECA233G0302' => 'eca', 'ECA234G2813' => 'eca', 'ECA234G4866' => 'eca', 'ECA240G3932' => 'eca', 'ECA248G0385' => 'eca', 'EL10Ac2g04781' => 'bvu', 'EL10Ac3g06445' => 'bvu', 'EL10Ac7g15825' => 'bvu', 'EL10Ac8g18550' => 'bvu', 'Eucgr.B03849' => 'egr', 'Eucgr.I02744' => 'egr', 'Eucgr.J00264' => 'egr', 'Eucgr.J00493' => 'egr', 'FAN04G2181' => 'fan', 'FAN07G2666' => 'fan', 'FAN11G0024' => 'fan', 'FAN12G1105' => 'fan', 'FAN13G0302' => 'fan', 'FAN15G2781' => 'fan', 'FAN16G1274' => 'fan', 'FAN17G2988' => 'fan', 'FAN18G2621' => 'fan', 'FAN21G0013' => 'fan', 'FAN22G1211' => 'fan', 'FAN25G3626' => 'fan', 'FvH4_2g09491' => 'fve', 'FvH4_3g24910' => 'fve', 'FvH4_4g15630' => 'fve', 'FvH4_5g28820' => 'fve', 'Glyma.01G238000' => 'gma', 'Glyma.05G168400' => 'gma', 'Glyma.08G126800' => 'gma', 'Glyma.08G188500' => 'gma', 'Glyma.10G278900' => 'gma', 'Glyma.11G005700' => 'gma', 'Glyma.11G183300' => 'gma', 'Glyma.12G089200' => 'gma', 'Glyma.12G169400' => 'gma', 'Glyma.12G169500' => 'gma', 'Glyma.12G169600' => 'gma', 'Glyma.20G110800' => 'gma', 'Gohir.A03G192900' => 'ghi', 'Gohir.A03G193000' => 'ghi', 'Gohir.A05G080700' => 'ghi', 'Gohir.A09G216000' => 'ghi', 'Gohir.A12G027700' => 'ghi', 'Gohir.A13G036200' => 'ghi', 'Gohir.A13G222600' => 'ghi', 'Gohir.D02G213900' => 'ghi', 'Gohir.D02G214000' => 'ghi', 'Gohir.D05G083700' => 'ghi', 'Gohir.D05G083800' => 'ghi', 'Gohir.D05G083850' => 'ghi', 'Gohir.D08G015400' => 'ghi', 'Gohir.D09G218400' => 'ghi', 'Gohir.D12G027100' => 'ghi', 'Gohir.D13G034500' => 'ghi', 'Gohir.D13G227400' => 'ghi', 'Gorai.005G241800' => 'gra', 'Gorai.005G241900' => 'gra', 'Gorai.006G239400' => 'gra', 'Gorai.008G027600' => 'gra', 'Gorai.009G085400' => 'gra', 'Gorai.009G085500' => 'gra', 'Gorai.013G039000' => 'gra', 'Gorai.013G194800' => 'gra', 'Gorai.013G257900' => 'gra', 'GSVIVG01000982001' => 'vvi', 'GSVIVG01017981001' => 'vvi', 'HanXRQChr01g0024061' => 'han', 'HanXRQChr09g0247831' => 'han', 'HanXRQChr10g0294611' => 'han', 'HanXRQChr10g0294621' => 'han', 'HanXRQChr11g0346821' => 'han', 'HanXRQChr13g0397461' => 'han', 'HanXRQChr16g0513651' => 'han', 'HanXRQChr16g0513701' => 'han', 'Haze_00897' => 'cav', 'Haze_01745' => 'cav', 'Haze_02486' => 'cav', 'Haze_02487' => 'cav', 'Haze_23374' => 'cav', 'Hma1.2p1_0578F.1_g182520' => 'hma', 'Hma1.2p1_0602F.1_g187350' => 'hma', 'Hma1.2p1_0602F.1_g187360' => 'hma', 'Hma1.2p1_0874F.1_g231320' => 'hma', 'Hma1.2p1_1197F.1_g266210' => 'hma', 'Hma1.2p1_1197F.1_g266220' => 'hma', 'Hma1.2p1_2167F.1_g315895' => 'hma', 'Hma1.2p1_2190F.1_g316640' => 'hma', 'Hma1.2p1_3645F.1_g337153' => 'hma', 'HPP92_004907' => 'vpl', 'HPP92_012134' => 'vpl', 'HPP92_025136' => 'vpl', 'HPP92_026087' => 'vpl', 'Hund06782' => 'sun', 'Hund06784' => 'sun', 'Lalb_Chr01g0004861' => 'lal', 'Lalb_Chr02g0140591' => 'lal', 'Lalb_Chr02g0140611' => 'lal', 'Lalb_Chr03g0028101' => 'lal', 'Lalb_Chr07g0185791' => 'lal', 'Lalb_Chr12g0204491' => 'lal', 'Lalb_Chr13g0295671' => 'lal', 'Lalb_Chr19g0136461' => 'lal', 'Lalb_Chr21g0309191' => 'lal', 'Lj1g0028158' => 'lja', 'Lj1P236T38' => 'lonja', 'Lj2C32G2' => 'lonja', 'Lj2P944T8' => 'lonja', 'Lj2P963T15' => 'lonja', 'Lj3g0011788' => 'lja', 'Lj4g0025027' => 'lja', 'Lj5P255T36' => 'lonja', 'Lj6g0018866' => 'lja', 'Lj6P608T31' => 'lonja', 'LjContig00408g0008879' => 'lja', 'Lsat_1_v5_gn_5_105820' => 'lsa', 'Lsat_1_v5_gn_6_38800' => 'lsa', 'Lsat_1_v5_gn_7_67141' => 'lsa', 'Manes.04G003400' => 'mes', 'Manes.07G020000' => 'mes', 'Manes.07G020100' => 'mes', 'Manes.07G020150' => 'mes', 'Manes.10G061500' => 'mes', 'Manes.10G123200' => 'mes', 'Manes.11G161900' => 'mes', 'Manes.15G029300' => 'mes', 'Mapoly0071s0018' => 'mpo', 'Mapoly0082s0023' => 'mpo', 'Mapoly3477s0001' => 'mpo', 'MBI05_g31233_MAGBIO' => 'mbi', 'MBI09_g05946_MAGBIO' => 'mbi', 'MBI09_g05947_MAGBIO' => 'mbi', 'MBI17_g08346_MAGBIO' => 'mbi', 'MCO04G038' => 'mco', 'MCO09G370' => 'mco', 'MCO13G605' => 'mco', 'MD00G1075500' => 'mdo', 'MD03G1144300' => 'mdo', 'MD08G1236800' => 'mdo', 'MD13G1193300' => 'mdo', 'MD15G1428700' => 'mdo', 'Medtr1g112030' => 'mtr', 'Medtr1g112050' => 'mtr', 'Medtr2g006290' => 'mtr', 'Medtr2g086510' => 'mtr', 'Medtr4g053120' => 'mtr', 'Medtr5g006320' => 'mtr', 'Medtr8g088720' => 'mtr', 'MELO3C004712.2' => 'cme', 'MELO3C006533.2' => 'cme', 'MELO3C019438.2' => 'cme', 'MELO3C019440.2' => 'cme', 'MELO3C019441.2' => 'cme', 'MELO3C019895.2' => 'cme', 'Migut.B00811' => 'egut', 'Migut.D02447' => 'egut', 'Migut.F00875' => 'egut', 'Migut.N00186' => 'egut', 'Migut.N01051' => 'egut', 'Migut.N02491' => 'egut', 'Migut.O00784' => 'egut', 'MSTRG.12367' => 'ama', 'MSTRG.18756' => 'ama', 'MSTRG.21042' => 'ama', 'Nitab4.5_0000559g0040' => 'nta', 'Nitab4.5_0000667g0190' => 'nta', 'Nitab4.5_0000755g0160' => 'nta', 'Nitab4.5_0001216g0080' => 'nta', 'Nitab4.5_0004069g0040' => 'nta', 'Nitab4.5_0004129g0010' => 'nta', 'Nitab4.5_0005744g0030' => 'nta', 'Nitab4.5_0006996g0030' => 'nta', 'Nitab4.5_0008971g0040' => 'nta', 'Nitab4.5_0009769g0020' => 'nta', 'Nitab4.5_0009833g0010' => 'nta', 'Nitab4.5_0013140g0020' => 'nta', 'Nn003s41376' => 'nnu', 'Nn1g01857' => 'nnu', 'Nn1g03611' => 'nnu', 'Nn1g06853' => 'nnu', 'Nn3g18360' => 'nnu', 'Nn4g26328' => 'nnu', 'Nn5g27531' => 'nnu', 'Nn6g34899' => 'nnu', 'Nn7g36299' => 'nnu', 'Oeu021485.1' => 'oeu', 'Oeu022433.1' => 'oeu', 'Oeu032111.1' => 'oeu', 'Oeu051608.1' => 'oeu', 'Os01g0860601' => 'osa', 'Os03g0659200' => 'osa', 'Os03g0835900' => 'osa', 'Os04g0412200' => 'osa', 'Os05g0443500' => 'osa', 'Os07g0251500' => 'osa', 'Os08g0104600' => 'osa', 'Peaxi162Scf00003g00047' => 'pax', 'Peaxi162Scf00003g00052' => 'pax', 'Peaxi162Scf00003g00394' => 'pax', 'Peaxi162Scf00091g00621' => 'pax', 'Peaxi162Scf00152g00146' => 'pax', 'Peaxi162Scf00173g00025' => 'pax', 'Peaxi162Scf00195g00102' => 'pax', 'Peaxi162Scf00402g00013' => 'pax', 'Peaxi162Scf00519g00618' => 'pax', 'PGR004G2838' => 'pgr', 'PGR044G2275' => 'pgr', 'PGR102G1377' => 'pgr', 'PGR119G1245' => 'pgr', 'PGR142G4449' => 'pgr', 'PGSC0003DMG400004532' => 'stu', 'PGSC0003DMG400011950' => 'stu', 'PGSC0003DMG400023391' => 'stu', 'PGSC0003DMG400023985' => 'stu', 'PGSC0003DMG400026360' => 'stu', 'PGSC0003DMG400035711' => 'stu', 'PGSC0003DMG400037286' => 'stu', 'PGSC0003DMG402005881' => 'stu', 'Phvul.002G045400' => 'pvu', 'Phvul.006G216600' => 'pvu', 'Phvul.006G216700' => 'pvu', 'Phvul.006G216800' => 'pvu', 'Phvul.007G022500' => 'pvu', 'Phvul.011G094400' => 'pvu', 'Potri.001G470700' => 'ptr', 'Potri.003G015200' => 'ptr', 'Potri.004G202500' => 'ptr', 'Potri.004G218400' => 'ptr', 'Potri.008G020100' => 'ptr', 'Potri.008G153200' => 'ptr', 'Potri.009G163800' => 'ptr', 'Potri.010G087300' => 'ptr', 'Potri.010G239100' => 'ptr', 'Pp3c10_16100' => 'ppa', 'Pp3c10_16880' => 'ppa', 'Pp3c16_6230' => 'ppa', 'Pp3c17_18910' => 'ppa', 'Pp3c3_22119' => 'ppa', 'Pp3c3_22140' => 'ppa', 'Pp3c4_8159' => 'ppa', 'Pp3c4_8171' => 'ppa', 'Pp3c4_8330' => 'ppa', 'PRCOL_00004098' => 'pco', 'Prupe.1G013900' => 'ppe', 'Prupe.1G226300' => 'ppe', 'Prupe.1G573600' => 'ppe', 'Prupe.6G130100' => 'ppe', 'Psat3g090040' => 'psa', 'Psat4g210440' => 'psa', 'Psat6g231040' => 'psa', 'Psat6g231080' => 'psa', 'Psat7g063000' => 'psa', 'Psat7g188000' => 'psa', 'Psat7g188040' => 'psa', 'PSO017G0206' => 'pso', 'PSO170G0501' => 'pso', 'PSO170G6422' => 'pso', 'PSO210G7739' => 'pso', 'PSO339G1808' => 'pso', 'PSO339G6135' => 'pso', 'PSO384G0010' => 'pso', 'PSO384G0964' => 'pso', 'PSO761G0050' => 'pso', 'PSO782G4085' => 'pso', 'QL01p012264' => 'qlo', 'QL02p099491' => 'qlo', 'QL03p033868' => 'qlo', 'QL04p046678' => 'qlo', 'QL06p002448' => 'qlo', 'RcHm_v2.0_Chr4g0416181' => 'rch', 'RcHm_v2.0_Chr5g0044701' => 'rch', 'RcHm_v2.0_Chr6g0265781' => 'rch', 'RcHm_v2.0_Chr7g0221031' => 'rch', 'Rhsim04G0202000' => 'rsi', 'Rhsim11G0127300' => 'rsi', 'Rhsim13G0111800' => 'rsi', 'Sabra01G0165600' => 'sbr', 'Sabra03G0008300' => 'sbr', 'Sabra04G0136900' => 'sbr', 'Sabra08G0013400' => 'sbr', 'Sabra08G0116800' => 'sbr', 'Sabra09G0128000' => 'sbr', 'Sabra10G0055500' => 'sbr', 'Sabra10G0073300' => 'sbr', 'SalBow3G0385' => 'sbo', 'SalBow3G1119' => 'sbo', 'SalBow3G2005' => 'sbo', 'SalBow6G2563' => 'sbo', 'SalBow6G6386' => 'sbo', 'Sc06g0008800' => 'sci', 'Sc07g0004950' => 'sci', 'Sc09g0005340' => 'sci', 'Sc13g0004410' => 'sci', 'Sc21g0007090' => 'sci', 'Sed0009285' => 'sed', 'Sed0017583' => 'sed', 'Sed0019699' => 'sed', 'Sed0023107' => 'sed', 'SEGI_10916' => 'sgi', 'SEGI_16217' => 'sgi', 'SEGI_19466' => 'sgi', 'SEGI_41115' => 'sgi', 'SGA_v2.0_scaffold111G31534' => 'sas', 'SGA_v2.0_scaffold22G09864' => 'sas', 'SGA_v2.0_scaffold338G49219' => 'sas', 'SGA_v2.0_scaffold92G28298' => 'sas', 'SMO119G0064' => 'smo', 'SMO223G0038' => 'smo', 'SMO347G0584' => 'smo', 'SMO351G0010' => 'smo', 'SMO356G0404' => 'smo', 'Solyc01g103920.3' => 'sly', 'Solyc04g009710.2' => 'sly', 'Solyc05g055280.2' => 'sly', 'Solyc10g044520.3' => 'sly', 'Solyc10g075160.1' => 'sly', 'Solyc11g006910.3' => 'sly', 'Solyc11g068430.3' => 'sly', 'Sopen01g046310' => 'spe', 'Sopen03g001200' => 'spe', 'Sopen04g004830' => 'spe', 'Sopen05g033720' => 'spe', 'Sopen06g030740' => 'spe', 'Sopen10g013090' => 'spe', 'Sopen10g027630' => 'spe', 'Sopen10g027640' => 'spe', 'Sopen11g002820' => 'spe', 'Sopen11g027140' => 'spe', 'Sp1g09680' => 'spa', 'Sp2g03630' => 'spa', 'Sp4g10320' => 'spa', 'Sp6g33400' => 'spa', 'Sp7g13030' => 'spa', 'TAR365G0317' => 'tar', 'TAR376G0979' => 'tar', 'TAR623G1665' => 'tar', 'TAR633G2373' => 'tar', 'TAR636G1400' => 'tar', 'THA.LOC104800529' => 'tha', 'THA.LOC104808547' => 'tha', 'THA.LOC104809615' => 'tha', 'THA.LOC104815724' => 'tha', 'THA.LOC104818480' => 'tha', 'THA.LOC104819179' => 'tha', 'THA.LOC104822270' => 'tha', 'THA.LOC104826425' => 'tha', 'Thecc.02G089700' => 'tca', 'Thecc.04G232300' => 'tca', 'Thecc.09G283400' => 'tca', 'Thhalv10009020m.g' => 'esa', 'Thhalv10015506m.g' => 'esa', 'Thhalv10017364m.g' => 'esa', 'Thhalv10023742m.g' => 'esa', 'Thhalv10026483m.g' => 'esa', 'TPR.G17232' => 'tpr', 'TPR.G2133' => 'tpr', 'TPR.G2498' => 'tpr', 'TPR.G31942' => 'tpr', 'TPR.G37877' => 'tpr', 'TPR.G4571' => 'tpr', 'TWI14G1113' => 'twi', 'TWI15G0426' => 'twi', 'TWI31G1005' => 'twi', 'TWI38G0513' => 'twi', 'TWI38G1484' => 'twi', 'TWI73G1098' => 'twi', 'unitig_26.g10519' => 'ugi', 'unitig_736.g22395' => 'ugi', 'unitig_747.g21234' => 'ugi', 'unitig_747.g21942' => 'ugi', 'vmacro14351' => 'vma', 'VMungo0540G0082' => 'vmu', 'VMungo0540G0405' => 'vmu', 'VMungo0540G1486' => 'vmu', 'VMungo0540G1692' => 'vmu', 'VMungo0720G2473' => 'vmu', 'VMungo1127G1562' => 'vmu', 'VMungo1215G1918' => 'vmu', 'Zm00001eb052650' => 'zma', 'Zm00001eb063710' => 'zma', 'Zm00001eb083950' => 'zma', 'Zm00001eb174420' => 'zma', 'Zm00001eb260140' => 'zma', 'Zm00001eb260150' => 'zma', 'Zm00001eb260160' => 'zma', 'Zm00001eb348290' => 'zma', 'Zm00001eb366870' => 'zma', 'Zm00001eb421930' => 'zma' ) $gf_id = 'HOM05D001025' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001025' ) $data_identifier = 'HOM05D001025' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 19, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 2, 'amhyb' => (int) 4, 'aly' => (int) 4, 'aox' => (int) 4, 'arhy' => (int) 3, 'ath' => (int) 5, 'atr' => (int) 4, 'acertr' => (int) 3, 'cqu' => (int) 7, 'bca' => (int) 17, 'bol' => (int) 10, 'bra' => (int) 9, 'can' => (int) 10, 'cansat' => (int) 6, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 5, 'cbr' => (int) 5, 'ccan' => (int) 5, 'cde' => (int) 4, 'cfa' => (int) 3, 'ccl' => (int) 6, 'cil' => (int) 4, 'cla' => (int) 3, 'col' => (int) 3, 'cpa' => (int) 3, 'cre' => (int) 7, 'csa' => (int) 5, 'camsi' => (int) 9, 'dca' => (int) 4, 'din' => (int) 5, 'dzi' => (int) 7, 'eca' => (int) 6, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 12, 'fve' => (int) 4, 'gma' => (int) 12, 'ghi' => (int) 17, 'gra' => (int) 9, 'vvi' => (int) 2, 'han' => (int) 8, 'cav' => (int) 5, 'hma' => (int) 9, 'vpl' => (int) 4, 'sun' => (int) 2, 'lal' => (int) 9, 'lja' => (int) 5, 'lonja' => (int) 6, 'lsa' => (int) 3, 'mes' => (int) 8, 'mpo' => (int) 3, 'mbi' => (int) 4, 'mco' => (int) 3, 'mdo' => (int) 5, 'mtr' => (int) 7, 'cme' => (int) 6, 'egut' => (int) 7, 'ama' => (int) 3, 'nta' => (int) 12, 'nnu' => (int) 9, 'oeu' => (int) 4, 'osa' => (int) 7, 'pax' => (int) 9, 'pgr' => (int) 5, 'stu' => (int) 8, 'pvu' => (int) 6, 'ptr' => (int) 9, 'ppa' => (int) 9, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 7, 'pso' => (int) 10, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 3, 'sbr' => (int) 8, 'sbo' => (int) 5, 'sci' => (int) 5, 'sed' => (int) 4, 'sgi' => (int) 4, 'sas' => (int) 4, 'smo' => (int) 5, 'sly' => (int) 7, 'spe' => (int) 10, 'spa' => (int) 5, 'tar' => (int) 5, 'tha' => (int) 8, 'tca' => (int) 3, 'esa' => (int) 5, 'tpr' => (int) 6, 'twi' => (int) 6, 'ugi' => (int) 4, 'vma' => (int) 1, 'vmu' => (int) 7, 'zma' => (int) 10 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb421930' $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' => 'HOM05D001025', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '592', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p22650' => 'bna', 'A01p29720' => 'bna', 'A03p26560' => 'bna', 'A03p68820' => 'bna', 'A04p20980' => 'bna', 'A06p07730' => 'bna', 'A07p18260' => 'bna', 'A08p33710' => 'bna', 'A09p16970' => 'bna', 'A10p27490' => 'bna', 'Aa31LG1G17300' => 'aar', 'Aa31LG1G3910' => 'aar', 'Aa31LG2G9630' => 'aar', 'Aa31LG5G8360' => 'aar', 'Aa31LG9G2410' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4699' => 'aag', 'Actinidia23512' => 'ach', 'Actinidia37080' => 'ach', 'Ah.01g020380' => 'amhyb', 'Ah.08g215710' => 'amhyb', 'Ah.09g225110' => 'amhyb', 'Ah.10g036680' => 'amhyb', 'AL1G21940' => 'aly', 'AL2G15540' => 'aly', 'AL4G21520' => 'aly', 'AL7G40960' => 'aly', 'Aqoxy2G01191' => 'aox', 'Aqoxy2G03393' => 'aox', 'Aqoxy4G02775' => 'aox', 'Aqoxy6G00058' => 'aox', 'arahy.Tifrunner.gnm1.ann1.9X74H2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CW3FX9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R485W7' => 'arhy', 'AT1G10960' => 'ath', 'AT1G60950' => 'ath', 'AT2G27510' => 'ath', 'AT4G14890' => 'ath', 'AT5G10000' => 'ath', 'ATR0665G624' => 'atr', 'ATR0697G138' => 'atr', 'ATR0776G046' => 'atr', 'ATR1134G135' => 'atr', 'Atru.chr12.1025' => 'acertr', 'Atru.chr3.3241' => 'acertr', 'Atru.chr4.2460' => 'acertr', 'AUR62007427' => 'cqu', 'AUR62010960' => 'cqu', 'AUR62012201' => 'cqu', 'AUR62021470' => 'cqu', 'AUR62022834' => 'cqu', 'AUR62033635' => 'cqu', 'AUR62036186' => 'cqu', 'BcaB01g03077' => 'bca', 'BcaB02g10093' => 'bca', 'BcaB04g20295' => 'bca', 'BcaB06g28147' => 'bca', 'BcaB07g31253' => 'bca', 'BcaC01g04946' => 'bca', 'BcaC02g10614' => 'bca', 'BcaC02g10885' => 'bca', 'BcaC04g19356' => 'bca', 'BcaC04g22297' => 'bca', 'BcaC05g24977' => 'bca', 'BcaC06g31823' => 'bca', 'BcaC07g38633' => 'bca', 'BcaC09g49353' => 'bca', 'BcaC09g50168' => 'bca', 'BcaNung00322' => 'bca', 'BcaNung04769' => 'bca', 'BolC1t02753H' => 'bol', 'BolC1t03721H' => 'bol', 'BolC3t15525H' => 'bol', 'BolC4t23903H' => 'bol', 'BolC4t24231H' => 'bol', 'BolC4t27209H' => 'bol', 'BolC5t29671H' => 'bol', 'BolC8t49044H' => 'bol', 'BolC9t54999H' => 'bol', 'BolC9t59517H' => 'bol', 'BraA01t02178Z' => 'bra', 'BraA01t03099Z' => 'bra', 'BraA03t11867Z' => 'bra', 'BraA04t17667Z' => 'bra', 'BraA07t29542Z' => 'bra', 'BraA08t35287Z' => 'bra', 'BraA09t37334Z' => 'bra', 'BraA10t44801Z' => 'bra', 'BraSC39t46181Z' => 'bra', 'C01p28240' => 'bna', 'C01p37530' => 'bna', 'C03p31820' => 'bna', 'C04p24080' => 'bna', 'C04p25790' => 'bna', 'C04p56770' => 'bna', 'C05p09310' => 'bna', 'C09p21010' => 'bna', 'C09p67560' => 'bna', 'CAN.G1324.7' => 'can', 'CAN.G1358.10' => 'can', 'CAN.G1550.2' => 'can', 'CAN.G186.56' => 'can', 'CAN.G1965.1' => 'can', 'CAN.G645.15' => 'can', 'CAN.G798.26' => 'can', 'CAN.G798.27' => 'can', 'CAN.G798.29' => 'can', 'CAN.G919.31' => 'can', 'CANSAT11G0133' => 'cansat', 'CANSAT11G1171' => 'cansat', 'CANSAT11G2056' => 'cansat', 'CANSAT56G1202' => 'cansat', 'CANSAT56G1514' => 'cansat', 'CANSAT78G0455' => 'cansat', 'CARHR011190' => 'chi', 'CARHR051980' => 'chi', 'CARHR120170' => 'chi', 'CARHR203310' => 'chi', 'CARHR221490' => 'chi', 'Carub.0001s1054' => 'cru', 'Carub.0002s0431' => 'cru', 'Carub.0004s0818' => 'cru', 'Carub.0006s0846' => 'cru', 'Carub.0007s2722' => 'cru', 'Ca_00058_v3' => 'car', 'Ca_17831_v3' => 'car', 'Ca_19408_v3' => 'car', 'Ca_24397_v3' => 'car', 'Ca_25664_v3' => 'car', 'CBR_g21818' => 'cbr', 'CBR_g31195' => 'cbr', 'CBR_g32282' => 'cbr', 'CBR_g39599' => 'cbr', 'CBR_g49410' => 'cbr', 'Cc01_g09120' => 'ccan', 'Cc01_g09130' => 'ccan', 'Cc02_g09630' => 'ccan', 'Cc02_g22810' => 'ccan', 'Cc03_g03810' => 'ccan', 'CDE02G3718' => 'cde', 'CDE04G3183' => 'cde', 'CDE07G1046' => 'cde', 'CDE08G0480' => 'cde', 'Cfa005493' => 'cfa', 'Cfa010312' => 'cfa', 'Cfa015648' => 'cfa', 'Ciclev10002793m.g' => 'ccl', 'Ciclev10003356m.g' => 'ccl', 'Ciclev10006141m.g' => 'ccl', 'Ciclev10016676m.g' => 'ccl', 'Ciclev10017081m.g' => 'ccl', 'Ciclev10029499m.g' => 'ccl', 'CiPaw.01G166300' => 'cil', 'CiPaw.06G145600' => 'cil', 'CiPaw.13G040100' => 'cil', 'CiPaw.13G135800' => 'cil', 'ClCG01G012230' => 'cla', 'ClCG05G009510' => 'cla', 'ClCG08G008270' => 'cla', 'COL.COLO4_11763' => 'col', 'COL.COLO4_19876' => 'col', 'COL.COLO4_21481' => 'col', 'Cpa.g.sc118.34' => 'cpa', 'Cpa.g.sc32.13' => 'cpa', 'Cpa.g.sc58.103' => 'cpa', 'Cre03.g183850' => 'cre', 'Cre06.g306350' => 'cre', 'Cre07.g334800' => 'cre', 'Cre12.g487900' => 'cre', 'Cre14.g626700' => 'cre', 'Cre16.g658400' => 'cre', 'Cre17.g700950' => 'cre', 'CsaV3_1G014830' => 'csa', 'CsaV3_3G013320' => 'csa', 'CsaV3_3G019210' => 'csa', 'CsaV3_3G019220' => 'csa', 'CsaV3_6G004230' => 'csa', 'CSS0003773' => 'camsi', 'CSS0004563' => 'camsi', 'CSS0013949' => 'camsi', 'CSS0025971' => 'camsi', 'CSS0028570' => 'camsi', 'CSS0033127' => 'camsi', 'CSS0036051' => 'camsi', 'CSS0040087' => 'camsi', 'CSS0043179' => 'camsi', 'DCAR_006161' => 'dca', 'DCAR_010351' => 'dca', 'DCAR_012197' => 'dca', 'DCAR_024162' => 'dca', 'Dinv01030' => 'din', 'Dinv10924' => 'din', 'Dinv11835' => 'din', 'Dinv22841' => 'din', 'Dinv42553' => 'din', 'Duzib052G0560' => 'dzi', 'Duzib132G0389' => 'dzi', 'Duzib150G1181' => 'dzi', 'Duzib168G0623' => 'dzi', 'Duzib170G1036' => 'dzi', 'Duzib212G0200' => 'dzi', 'Duzib248G0194' => 'dzi', 'ECA232G2193' => 'eca', 'ECA233G0302' => 'eca', 'ECA234G2813' => 'eca', 'ECA234G4866' => 'eca', 'ECA240G3932' => 'eca', 'ECA248G0385' => 'eca', 'EL10Ac2g04781' => 'bvu', 'EL10Ac3g06445' => 'bvu', 'EL10Ac7g15825' => 'bvu', 'EL10Ac8g18550' => 'bvu', 'Eucgr.B03849' => 'egr', 'Eucgr.I02744' => 'egr', 'Eucgr.J00264' => 'egr', 'Eucgr.J00493' => 'egr', 'FAN04G2181' => 'fan', 'FAN07G2666' => 'fan', 'FAN11G0024' => 'fan', 'FAN12G1105' => 'fan', 'FAN13G0302' => 'fan', 'FAN15G2781' => 'fan', 'FAN16G1274' => 'fan', 'FAN17G2988' => 'fan', 'FAN18G2621' => 'fan', 'FAN21G0013' => 'fan', 'FAN22G1211' => 'fan', 'FAN25G3626' => 'fan', 'FvH4_2g09491' => 'fve', 'FvH4_3g24910' => 'fve', 'FvH4_4g15630' => 'fve', 'FvH4_5g28820' => 'fve', 'Glyma.01G238000' => 'gma', 'Glyma.05G168400' => 'gma', 'Glyma.08G126800' => 'gma', 'Glyma.08G188500' => 'gma', 'Glyma.10G278900' => 'gma', 'Glyma.11G005700' => 'gma', 'Glyma.11G183300' => 'gma', 'Glyma.12G089200' => 'gma', 'Glyma.12G169400' => 'gma', 'Glyma.12G169500' => 'gma', 'Glyma.12G169600' => 'gma', 'Glyma.20G110800' => 'gma', 'Gohir.A03G192900' => 'ghi', 'Gohir.A03G193000' => 'ghi', 'Gohir.A05G080700' => 'ghi', 'Gohir.A09G216000' => 'ghi', 'Gohir.A12G027700' => 'ghi', 'Gohir.A13G036200' => 'ghi', 'Gohir.A13G222600' => 'ghi', 'Gohir.D02G213900' => 'ghi', 'Gohir.D02G214000' => 'ghi', 'Gohir.D05G083700' => 'ghi', 'Gohir.D05G083800' => 'ghi', 'Gohir.D05G083850' => 'ghi', 'Gohir.D08G015400' => 'ghi', 'Gohir.D09G218400' => 'ghi', 'Gohir.D12G027100' => 'ghi', 'Gohir.D13G034500' => 'ghi', 'Gohir.D13G227400' => 'ghi', 'Gorai.005G241800' => 'gra', 'Gorai.005G241900' => 'gra', 'Gorai.006G239400' => 'gra', 'Gorai.008G027600' => 'gra', 'Gorai.009G085400' => 'gra', 'Gorai.009G085500' => 'gra', 'Gorai.013G039000' => 'gra', 'Gorai.013G194800' => 'gra', 'Gorai.013G257900' => 'gra', 'GSVIVG01000982001' => 'vvi', 'GSVIVG01017981001' => 'vvi', 'HanXRQChr01g0024061' => 'han', 'HanXRQChr09g0247831' => 'han', 'HanXRQChr10g0294611' => 'han', 'HanXRQChr10g0294621' => 'han', 'HanXRQChr11g0346821' => 'han', 'HanXRQChr13g0397461' => 'han', 'HanXRQChr16g0513651' => 'han', 'HanXRQChr16g0513701' => 'han', 'Haze_00897' => 'cav', 'Haze_01745' => 'cav', 'Haze_02486' => 'cav', 'Haze_02487' => 'cav', 'Haze_23374' => 'cav', 'Hma1.2p1_0578F.1_g182520' => 'hma', 'Hma1.2p1_0602F.1_g187350' => 'hma', 'Hma1.2p1_0602F.1_g187360' => 'hma', 'Hma1.2p1_0874F.1_g231320' => 'hma', 'Hma1.2p1_1197F.1_g266210' => 'hma', 'Hma1.2p1_1197F.1_g266220' => 'hma', 'Hma1.2p1_2167F.1_g315895' => 'hma', 'Hma1.2p1_2190F.1_g316640' => 'hma', 'Hma1.2p1_3645F.1_g337153' => 'hma', 'HPP92_004907' => 'vpl', 'HPP92_012134' => 'vpl', 'HPP92_025136' => 'vpl', 'HPP92_026087' => 'vpl', 'Hund06782' => 'sun', 'Hund06784' => 'sun', 'Lalb_Chr01g0004861' => 'lal', 'Lalb_Chr02g0140591' => 'lal', 'Lalb_Chr02g0140611' => 'lal', 'Lalb_Chr03g0028101' => 'lal', 'Lalb_Chr07g0185791' => 'lal', 'Lalb_Chr12g0204491' => 'lal', 'Lalb_Chr13g0295671' => 'lal', 'Lalb_Chr19g0136461' => 'lal', 'Lalb_Chr21g0309191' => 'lal', 'Lj1g0028158' => 'lja', 'Lj1P236T38' => 'lonja', 'Lj2C32G2' => 'lonja', 'Lj2P944T8' => 'lonja', 'Lj2P963T15' => 'lonja', 'Lj3g0011788' => 'lja', 'Lj4g0025027' => 'lja', 'Lj5P255T36' => 'lonja', 'Lj6g0018866' => 'lja', 'Lj6P608T31' => 'lonja', 'LjContig00408g0008879' => 'lja', 'Lsat_1_v5_gn_5_105820' => 'lsa', 'Lsat_1_v5_gn_6_38800' => 'lsa', 'Lsat_1_v5_gn_7_67141' => 'lsa', 'Manes.04G003400' => 'mes', 'Manes.07G020000' => 'mes', 'Manes.07G020100' => 'mes', 'Manes.07G020150' => 'mes', 'Manes.10G061500' => 'mes', 'Manes.10G123200' => 'mes', 'Manes.11G161900' => 'mes', 'Manes.15G029300' => 'mes', 'Mapoly0071s0018' => 'mpo', 'Mapoly0082s0023' => 'mpo', 'Mapoly3477s0001' => 'mpo', 'MBI05_g31233_MAGBIO' => 'mbi', 'MBI09_g05946_MAGBIO' => 'mbi', 'MBI09_g05947_MAGBIO' => 'mbi', 'MBI17_g08346_MAGBIO' => 'mbi', 'MCO04G038' => 'mco', 'MCO09G370' => 'mco', 'MCO13G605' => 'mco', 'MD00G1075500' => 'mdo', 'MD03G1144300' => 'mdo', 'MD08G1236800' => 'mdo', 'MD13G1193300' => 'mdo', 'MD15G1428700' => 'mdo', 'Medtr1g112030' => 'mtr', 'Medtr1g112050' => 'mtr', 'Medtr2g006290' => 'mtr', 'Medtr2g086510' => 'mtr', 'Medtr4g053120' => 'mtr', 'Medtr5g006320' => 'mtr', 'Medtr8g088720' => 'mtr', 'MELO3C004712.2' => 'cme', 'MELO3C006533.2' => 'cme', 'MELO3C019438.2' => 'cme', 'MELO3C019440.2' => 'cme', 'MELO3C019441.2' => 'cme', 'MELO3C019895.2' => 'cme', 'Migut.B00811' => 'egut', 'Migut.D02447' => 'egut', 'Migut.F00875' => 'egut', 'Migut.N00186' => 'egut', 'Migut.N01051' => 'egut', 'Migut.N02491' => 'egut', 'Migut.O00784' => 'egut', 'MSTRG.12367' => 'ama', 'MSTRG.18756' => 'ama', 'MSTRG.21042' => 'ama', 'Nitab4.5_0000559g0040' => 'nta', 'Nitab4.5_0000667g0190' => 'nta', 'Nitab4.5_0000755g0160' => 'nta', 'Nitab4.5_0001216g0080' => 'nta', 'Nitab4.5_0004069g0040' => 'nta', 'Nitab4.5_0004129g0010' => 'nta', 'Nitab4.5_0005744g0030' => 'nta', 'Nitab4.5_0006996g0030' => 'nta', 'Nitab4.5_0008971g0040' => 'nta', 'Nitab4.5_0009769g0020' => 'nta', 'Nitab4.5_0009833g0010' => 'nta', 'Nitab4.5_0013140g0020' => 'nta', 'Nn003s41376' => 'nnu', 'Nn1g01857' => 'nnu', 'Nn1g03611' => 'nnu', 'Nn1g06853' => 'nnu', 'Nn3g18360' => 'nnu', 'Nn4g26328' => 'nnu', 'Nn5g27531' => 'nnu', 'Nn6g34899' => 'nnu', 'Nn7g36299' => 'nnu', 'Oeu021485.1' => 'oeu', 'Oeu022433.1' => 'oeu', 'Oeu032111.1' => 'oeu', 'Oeu051608.1' => 'oeu', 'Os01g0860601' => 'osa', 'Os03g0659200' => 'osa', 'Os03g0835900' => 'osa', 'Os04g0412200' => 'osa', 'Os05g0443500' => 'osa', 'Os07g0251500' => 'osa', 'Os08g0104600' => 'osa', 'Peaxi162Scf00003g00047' => 'pax', 'Peaxi162Scf00003g00052' => 'pax', 'Peaxi162Scf00003g00394' => 'pax', 'Peaxi162Scf00091g00621' => 'pax', 'Peaxi162Scf00152g00146' => 'pax', 'Peaxi162Scf00173g00025' => 'pax', 'Peaxi162Scf00195g00102' => 'pax', 'Peaxi162Scf00402g00013' => 'pax', 'Peaxi162Scf00519g00618' => 'pax', 'PGR004G2838' => 'pgr', 'PGR044G2275' => 'pgr', 'PGR102G1377' => 'pgr', 'PGR119G1245' => 'pgr', 'PGR142G4449' => 'pgr', 'PGSC0003DMG400004532' => 'stu', 'PGSC0003DMG400011950' => 'stu', 'PGSC0003DMG400023391' => 'stu', 'PGSC0003DMG400023985' => 'stu', 'PGSC0003DMG400026360' => 'stu', 'PGSC0003DMG400035711' => 'stu', 'PGSC0003DMG400037286' => 'stu', 'PGSC0003DMG402005881' => 'stu', 'Phvul.002G045400' => 'pvu', 'Phvul.006G216600' => 'pvu', 'Phvul.006G216700' => 'pvu', 'Phvul.006G216800' => 'pvu', 'Phvul.007G022500' => 'pvu', 'Phvul.011G094400' => 'pvu', 'Potri.001G470700' => 'ptr', 'Potri.003G015200' => 'ptr', 'Potri.004G202500' => 'ptr', 'Potri.004G218400' => 'ptr', 'Potri.008G020100' => 'ptr', 'Potri.008G153200' => 'ptr', 'Potri.009G163800' => 'ptr', 'Potri.010G087300' => 'ptr', 'Potri.010G239100' => 'ptr', 'Pp3c10_16100' => 'ppa', 'Pp3c10_16880' => 'ppa', 'Pp3c16_6230' => 'ppa', 'Pp3c17_18910' => 'ppa', 'Pp3c3_22119' => 'ppa', 'Pp3c3_22140' => 'ppa', 'Pp3c4_8159' => 'ppa', 'Pp3c4_8171' => 'ppa', 'Pp3c4_8330' => 'ppa', 'PRCOL_00004098' => 'pco', 'Prupe.1G013900' => 'ppe', 'Prupe.1G226300' => 'ppe', 'Prupe.1G573600' => 'ppe', 'Prupe.6G130100' => 'ppe', 'Psat3g090040' => 'psa', 'Psat4g210440' => 'psa', 'Psat6g231040' => 'psa', 'Psat6g231080' => 'psa', 'Psat7g063000' => 'psa', 'Psat7g188000' => 'psa', 'Psat7g188040' => 'psa', 'PSO017G0206' => 'pso', 'PSO170G0501' => 'pso', 'PSO170G6422' => 'pso', 'PSO210G7739' => 'pso', 'PSO339G1808' => 'pso', 'PSO339G6135' => 'pso', 'PSO384G0010' => 'pso', 'PSO384G0964' => 'pso', 'PSO761G0050' => 'pso', 'PSO782G4085' => 'pso', 'QL01p012264' => 'qlo', 'QL02p099491' => 'qlo', 'QL03p033868' => 'qlo', 'QL04p046678' => 'qlo', 'QL06p002448' => 'qlo', 'RcHm_v2.0_Chr4g0416181' => 'rch', 'RcHm_v2.0_Chr5g0044701' => 'rch', 'RcHm_v2.0_Chr6g0265781' => 'rch', 'RcHm_v2.0_Chr7g0221031' => 'rch', 'Rhsim04G0202000' => 'rsi', 'Rhsim11G0127300' => 'rsi', 'Rhsim13G0111800' => 'rsi', 'Sabra01G0165600' => 'sbr', 'Sabra03G0008300' => 'sbr', 'Sabra04G0136900' => 'sbr', 'Sabra08G0013400' => 'sbr', 'Sabra08G0116800' => 'sbr', 'Sabra09G0128000' => 'sbr', 'Sabra10G0055500' => 'sbr', 'Sabra10G0073300' => 'sbr', 'SalBow3G0385' => 'sbo', 'SalBow3G1119' => 'sbo', 'SalBow3G2005' => 'sbo', 'SalBow6G2563' => 'sbo', 'SalBow6G6386' => 'sbo', 'Sc06g0008800' => 'sci', 'Sc07g0004950' => 'sci', 'Sc09g0005340' => 'sci', 'Sc13g0004410' => 'sci', 'Sc21g0007090' => 'sci', 'Sed0009285' => 'sed', 'Sed0017583' => 'sed', 'Sed0019699' => 'sed', 'Sed0023107' => 'sed', 'SEGI_10916' => 'sgi', 'SEGI_16217' => 'sgi', 'SEGI_19466' => 'sgi', 'SEGI_41115' => 'sgi', 'SGA_v2.0_scaffold111G31534' => 'sas', 'SGA_v2.0_scaffold22G09864' => 'sas', 'SGA_v2.0_scaffold338G49219' => 'sas', 'SGA_v2.0_scaffold92G28298' => 'sas', 'SMO119G0064' => 'smo', 'SMO223G0038' => 'smo', 'SMO347G0584' => 'smo', 'SMO351G0010' => 'smo', 'SMO356G0404' => 'smo', 'Solyc01g103920.3' => 'sly', 'Solyc04g009710.2' => 'sly', 'Solyc05g055280.2' => 'sly', 'Solyc10g044520.3' => 'sly', 'Solyc10g075160.1' => 'sly', 'Solyc11g006910.3' => 'sly', 'Solyc11g068430.3' => 'sly', 'Sopen01g046310' => 'spe', 'Sopen03g001200' => 'spe', 'Sopen04g004830' => 'spe', 'Sopen05g033720' => 'spe', 'Sopen06g030740' => 'spe', 'Sopen10g013090' => 'spe', 'Sopen10g027630' => 'spe', 'Sopen10g027640' => 'spe', 'Sopen11g002820' => 'spe', 'Sopen11g027140' => 'spe', 'Sp1g09680' => 'spa', 'Sp2g03630' => 'spa', 'Sp4g10320' => 'spa', 'Sp6g33400' => 'spa', 'Sp7g13030' => 'spa', 'TAR365G0317' => 'tar', 'TAR376G0979' => 'tar', 'TAR623G1665' => 'tar', 'TAR633G2373' => 'tar', 'TAR636G1400' => 'tar', 'THA.LOC104800529' => 'tha', 'THA.LOC104808547' => 'tha', 'THA.LOC104809615' => 'tha', 'THA.LOC104815724' => 'tha', 'THA.LOC104818480' => 'tha', 'THA.LOC104819179' => 'tha', 'THA.LOC104822270' => 'tha', 'THA.LOC104826425' => 'tha', 'Thecc.02G089700' => 'tca', 'Thecc.04G232300' => 'tca', 'Thecc.09G283400' => 'tca', 'Thhalv10009020m.g' => 'esa', 'Thhalv10015506m.g' => 'esa', 'Thhalv10017364m.g' => 'esa', 'Thhalv10023742m.g' => 'esa', 'Thhalv10026483m.g' => 'esa', 'TPR.G17232' => 'tpr', 'TPR.G2133' => 'tpr', 'TPR.G2498' => 'tpr', 'TPR.G31942' => 'tpr', 'TPR.G37877' => 'tpr', 'TPR.G4571' => 'tpr', 'TWI14G1113' => 'twi', 'TWI15G0426' => 'twi', 'TWI31G1005' => 'twi', 'TWI38G0513' => 'twi', 'TWI38G1484' => 'twi', 'TWI73G1098' => 'twi', 'unitig_26.g10519' => 'ugi', 'unitig_736.g22395' => 'ugi', 'unitig_747.g21234' => 'ugi', 'unitig_747.g21942' => 'ugi', 'vmacro14351' => 'vma', 'VMungo0540G0082' => 'vmu', 'VMungo0540G0405' => 'vmu', 'VMungo0540G1486' => 'vmu', 'VMungo0540G1692' => 'vmu', 'VMungo0720G2473' => 'vmu', 'VMungo1127G1562' => 'vmu', 'VMungo1215G1918' => 'vmu', 'Zm00001eb052650' => 'zma', 'Zm00001eb063710' => 'zma', 'Zm00001eb083950' => 'zma', 'Zm00001eb174420' => 'zma', 'Zm00001eb260140' => 'zma', 'Zm00001eb260150' => 'zma', 'Zm00001eb260160' => 'zma', 'Zm00001eb348290' => 'zma', 'Zm00001eb366870' => 'zma', 'Zm00001eb421930' => 'zma' ), 'gf_id' => 'HOM05D001025', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001025' ), 'data_identifier' => 'HOM05D001025', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001025', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '592', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p22650' => 'bna', 'A01p29720' => 'bna', 'A03p26560' => 'bna', 'A03p68820' => 'bna', 'A04p20980' => 'bna', 'A06p07730' => 'bna', 'A07p18260' => 'bna', 'A08p33710' => 'bna', 'A09p16970' => 'bna', 'A10p27490' => 'bna', 'Aa31LG1G17300' => 'aar', 'Aa31LG1G3910' => 'aar', 'Aa31LG2G9630' => 'aar', 'Aa31LG5G8360' => 'aar', 'Aa31LG9G2410' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4699' => 'aag', 'Actinidia23512' => 'ach', 'Actinidia37080' => 'ach', 'Ah.01g020380' => 'amhyb', 'Ah.08g215710' => 'amhyb', 'Ah.09g225110' => 'amhyb', 'Ah.10g036680' => 'amhyb', 'AL1G21940' => 'aly', 'AL2G15540' => 'aly', 'AL4G21520' => 'aly', 'AL7G40960' => 'aly', 'Aqoxy2G01191' => 'aox', 'Aqoxy2G03393' => 'aox', 'Aqoxy4G02775' => 'aox', 'Aqoxy6G00058' => 'aox', 'arahy.Tifrunner.gnm1.ann1.9X74H2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CW3FX9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R485W7' => 'arhy', 'AT1G10960' => 'ath', 'AT1G60950' => 'ath', 'AT2G27510' => 'ath', 'AT4G14890' => 'ath', 'AT5G10000' => 'ath', 'ATR0665G624' => 'atr', 'ATR0697G138' => 'atr', 'ATR0776G046' => 'atr', 'ATR1134G135' => 'atr', 'Atru.chr12.1025' => 'acertr', 'Atru.chr3.3241' => 'acertr', 'Atru.chr4.2460' => 'acertr', 'AUR62007427' => 'cqu', 'AUR62010960' => 'cqu', 'AUR62012201' => 'cqu', 'AUR62021470' => 'cqu', 'AUR62022834' => 'cqu', 'AUR62033635' => 'cqu', 'AUR62036186' => 'cqu', 'BcaB01g03077' => 'bca', 'BcaB02g10093' => 'bca', 'BcaB04g20295' => 'bca', 'BcaB06g28147' => 'bca', 'BcaB07g31253' => 'bca', 'BcaC01g04946' => 'bca', 'BcaC02g10614' => 'bca', 'BcaC02g10885' => 'bca', 'BcaC04g19356' => 'bca', 'BcaC04g22297' => 'bca', 'BcaC05g24977' => 'bca', 'BcaC06g31823' => 'bca', 'BcaC07g38633' => 'bca', 'BcaC09g49353' => 'bca', 'BcaC09g50168' => 'bca', 'BcaNung00322' => 'bca', 'BcaNung04769' => 'bca', 'BolC1t02753H' => 'bol', 'BolC1t03721H' => 'bol', 'BolC3t15525H' => 'bol', 'BolC4t23903H' => 'bol', 'BolC4t24231H' => 'bol', 'BolC4t27209H' => 'bol', 'BolC5t29671H' => 'bol', 'BolC8t49044H' => 'bol', 'BolC9t54999H' => 'bol', 'BolC9t59517H' => 'bol', 'BraA01t02178Z' => 'bra', 'BraA01t03099Z' => 'bra', 'BraA03t11867Z' => 'bra', 'BraA04t17667Z' => 'bra', 'BraA07t29542Z' => 'bra', 'BraA08t35287Z' => 'bra', 'BraA09t37334Z' => 'bra', 'BraA10t44801Z' => 'bra', 'BraSC39t46181Z' => 'bra', 'C01p28240' => 'bna', 'C01p37530' => 'bna', 'C03p31820' => 'bna', 'C04p24080' => 'bna', 'C04p25790' => 'bna', 'C04p56770' => 'bna', 'C05p09310' => 'bna', 'C09p21010' => 'bna', 'C09p67560' => 'bna', 'CAN.G1324.7' => 'can', 'CAN.G1358.10' => 'can', 'CAN.G1550.2' => 'can', 'CAN.G186.56' => 'can', 'CAN.G1965.1' => 'can', 'CAN.G645.15' => 'can', 'CAN.G798.26' => 'can', 'CAN.G798.27' => 'can', 'CAN.G798.29' => 'can', 'CAN.G919.31' => 'can', 'CANSAT11G0133' => 'cansat', 'CANSAT11G1171' => 'cansat', 'CANSAT11G2056' => 'cansat', 'CANSAT56G1202' => 'cansat', 'CANSAT56G1514' => 'cansat', 'CANSAT78G0455' => 'cansat', 'CARHR011190' => 'chi', 'CARHR051980' => 'chi', 'CARHR120170' => 'chi', 'CARHR203310' => 'chi', 'CARHR221490' => 'chi', 'Carub.0001s1054' => 'cru', 'Carub.0002s0431' => 'cru', 'Carub.0004s0818' => 'cru', 'Carub.0006s0846' => 'cru', 'Carub.0007s2722' => 'cru', 'Ca_00058_v3' => 'car', 'Ca_17831_v3' => 'car', 'Ca_19408_v3' => 'car', 'Ca_24397_v3' => 'car', 'Ca_25664_v3' => 'car', 'CBR_g21818' => 'cbr', 'CBR_g31195' => 'cbr', 'CBR_g32282' => 'cbr', 'CBR_g39599' => 'cbr', 'CBR_g49410' => 'cbr', 'Cc01_g09120' => 'ccan', 'Cc01_g09130' => 'ccan', 'Cc02_g09630' => 'ccan', 'Cc02_g22810' => 'ccan', 'Cc03_g03810' => 'ccan', 'CDE02G3718' => 'cde', 'CDE04G3183' => 'cde', 'CDE07G1046' => 'cde', 'CDE08G0480' => 'cde', 'Cfa005493' => 'cfa', 'Cfa010312' => 'cfa', 'Cfa015648' => 'cfa', 'Ciclev10002793m.g' => 'ccl', 'Ciclev10003356m.g' => 'ccl', 'Ciclev10006141m.g' => 'ccl', 'Ciclev10016676m.g' => 'ccl', 'Ciclev10017081m.g' => 'ccl', 'Ciclev10029499m.g' => 'ccl', 'CiPaw.01G166300' => 'cil', 'CiPaw.06G145600' => 'cil', 'CiPaw.13G040100' => 'cil', 'CiPaw.13G135800' => 'cil', 'ClCG01G012230' => 'cla', 'ClCG05G009510' => 'cla', 'ClCG08G008270' => 'cla', 'COL.COLO4_11763' => 'col', 'COL.COLO4_19876' => 'col', 'COL.COLO4_21481' => 'col', 'Cpa.g.sc118.34' => 'cpa', 'Cpa.g.sc32.13' => 'cpa', 'Cpa.g.sc58.103' => 'cpa', 'Cre03.g183850' => 'cre', 'Cre06.g306350' => 'cre', 'Cre07.g334800' => 'cre', 'Cre12.g487900' => 'cre', 'Cre14.g626700' => 'cre', 'Cre16.g658400' => 'cre', 'Cre17.g700950' => 'cre', 'CsaV3_1G014830' => 'csa', 'CsaV3_3G013320' => 'csa', 'CsaV3_3G019210' => 'csa', 'CsaV3_3G019220' => 'csa', 'CsaV3_6G004230' => 'csa', 'CSS0003773' => 'camsi', 'CSS0004563' => 'camsi', 'CSS0013949' => 'camsi', 'CSS0025971' => 'camsi', 'CSS0028570' => 'camsi', 'CSS0033127' => 'camsi', 'CSS0036051' => 'camsi', 'CSS0040087' => 'camsi', 'CSS0043179' => 'camsi', 'DCAR_006161' => 'dca', 'DCAR_010351' => 'dca', 'DCAR_012197' => 'dca', 'DCAR_024162' => 'dca', 'Dinv01030' => 'din', 'Dinv10924' => 'din', 'Dinv11835' => 'din', 'Dinv22841' => 'din', 'Dinv42553' => 'din', 'Duzib052G0560' => 'dzi', 'Duzib132G0389' => 'dzi', 'Duzib150G1181' => 'dzi', 'Duzib168G0623' => 'dzi', 'Duzib170G1036' => 'dzi', 'Duzib212G0200' => 'dzi', 'Duzib248G0194' => 'dzi', 'ECA232G2193' => 'eca', 'ECA233G0302' => 'eca', 'ECA234G2813' => 'eca', 'ECA234G4866' => 'eca', 'ECA240G3932' => 'eca', 'ECA248G0385' => 'eca', 'EL10Ac2g04781' => 'bvu', 'EL10Ac3g06445' => 'bvu', 'EL10Ac7g15825' => 'bvu', 'EL10Ac8g18550' => 'bvu', 'Eucgr.B03849' => 'egr', 'Eucgr.I02744' => 'egr', 'Eucgr.J00264' => 'egr', 'Eucgr.J00493' => 'egr', 'FAN04G2181' => 'fan', 'FAN07G2666' => 'fan', 'FAN11G0024' => 'fan', 'FAN12G1105' => 'fan', 'FAN13G0302' => 'fan', 'FAN15G2781' => 'fan', 'FAN16G1274' => 'fan', 'FAN17G2988' => 'fan', 'FAN18G2621' => 'fan', 'FAN21G0013' => 'fan', 'FAN22G1211' => 'fan', 'FAN25G3626' => 'fan', 'FvH4_2g09491' => 'fve', 'FvH4_3g24910' => 'fve', 'FvH4_4g15630' => 'fve', 'FvH4_5g28820' => 'fve', 'Glyma.01G238000' => 'gma', 'Glyma.05G168400' => 'gma', 'Glyma.08G126800' => 'gma', 'Glyma.08G188500' => 'gma', 'Glyma.10G278900' => 'gma', 'Glyma.11G005700' => 'gma', 'Glyma.11G183300' => 'gma', 'Glyma.12G089200' => 'gma', 'Glyma.12G169400' => 'gma', 'Glyma.12G169500' => 'gma', 'Glyma.12G169600' => 'gma', 'Glyma.20G110800' => 'gma', 'Gohir.A03G192900' => 'ghi', 'Gohir.A03G193000' => 'ghi', 'Gohir.A05G080700' => 'ghi', 'Gohir.A09G216000' => 'ghi', 'Gohir.A12G027700' => 'ghi', 'Gohir.A13G036200' => 'ghi', 'Gohir.A13G222600' => 'ghi', 'Gohir.D02G213900' => 'ghi', 'Gohir.D02G214000' => 'ghi', 'Gohir.D05G083700' => 'ghi', 'Gohir.D05G083800' => 'ghi', 'Gohir.D05G083850' => 'ghi', 'Gohir.D08G015400' => 'ghi', 'Gohir.D09G218400' => 'ghi', 'Gohir.D12G027100' => 'ghi', 'Gohir.D13G034500' => 'ghi', 'Gohir.D13G227400' => 'ghi', 'Gorai.005G241800' => 'gra', 'Gorai.005G241900' => 'gra', 'Gorai.006G239400' => 'gra', 'Gorai.008G027600' => 'gra', 'Gorai.009G085400' => 'gra', 'Gorai.009G085500' => 'gra', 'Gorai.013G039000' => 'gra', 'Gorai.013G194800' => 'gra', 'Gorai.013G257900' => 'gra', 'GSVIVG01000982001' => 'vvi', 'GSVIVG01017981001' => 'vvi', 'HanXRQChr01g0024061' => 'han', 'HanXRQChr09g0247831' => 'han', 'HanXRQChr10g0294611' => 'han', 'HanXRQChr10g0294621' => 'han', 'HanXRQChr11g0346821' => 'han', 'HanXRQChr13g0397461' => 'han', 'HanXRQChr16g0513651' => 'han', 'HanXRQChr16g0513701' => 'han', 'Haze_00897' => 'cav', 'Haze_01745' => 'cav', 'Haze_02486' => 'cav', 'Haze_02487' => 'cav', 'Haze_23374' => 'cav', 'Hma1.2p1_0578F.1_g182520' => 'hma', 'Hma1.2p1_0602F.1_g187350' => 'hma', 'Hma1.2p1_0602F.1_g187360' => 'hma', 'Hma1.2p1_0874F.1_g231320' => 'hma', 'Hma1.2p1_1197F.1_g266210' => 'hma', 'Hma1.2p1_1197F.1_g266220' => 'hma', 'Hma1.2p1_2167F.1_g315895' => 'hma', 'Hma1.2p1_2190F.1_g316640' => 'hma', 'Hma1.2p1_3645F.1_g337153' => 'hma', 'HPP92_004907' => 'vpl', 'HPP92_012134' => 'vpl', 'HPP92_025136' => 'vpl', 'HPP92_026087' => 'vpl', 'Hund06782' => 'sun', 'Hund06784' => 'sun', 'Lalb_Chr01g0004861' => 'lal', 'Lalb_Chr02g0140591' => 'lal', 'Lalb_Chr02g0140611' => 'lal', 'Lalb_Chr03g0028101' => 'lal', 'Lalb_Chr07g0185791' => 'lal', 'Lalb_Chr12g0204491' => 'lal', 'Lalb_Chr13g0295671' => 'lal', 'Lalb_Chr19g0136461' => 'lal', 'Lalb_Chr21g0309191' => 'lal', 'Lj1g0028158' => 'lja', 'Lj1P236T38' => 'lonja', 'Lj2C32G2' => 'lonja', 'Lj2P944T8' => 'lonja', 'Lj2P963T15' => 'lonja', 'Lj3g0011788' => 'lja', 'Lj4g0025027' => 'lja', 'Lj5P255T36' => 'lonja', 'Lj6g0018866' => 'lja', 'Lj6P608T31' => 'lonja', 'LjContig00408g0008879' => 'lja', 'Lsat_1_v5_gn_5_105820' => 'lsa', 'Lsat_1_v5_gn_6_38800' => 'lsa', 'Lsat_1_v5_gn_7_67141' => 'lsa', 'Manes.04G003400' => 'mes', 'Manes.07G020000' => 'mes', 'Manes.07G020100' => 'mes', 'Manes.07G020150' => 'mes', 'Manes.10G061500' => 'mes', 'Manes.10G123200' => 'mes', 'Manes.11G161900' => 'mes', 'Manes.15G029300' => 'mes', 'Mapoly0071s0018' => 'mpo', 'Mapoly0082s0023' => 'mpo', 'Mapoly3477s0001' => 'mpo', 'MBI05_g31233_MAGBIO' => 'mbi', 'MBI09_g05946_MAGBIO' => 'mbi', 'MBI09_g05947_MAGBIO' => 'mbi', 'MBI17_g08346_MAGBIO' => 'mbi', 'MCO04G038' => 'mco', 'MCO09G370' => 'mco', 'MCO13G605' => 'mco', 'MD00G1075500' => 'mdo', 'MD03G1144300' => 'mdo', 'MD08G1236800' => 'mdo', 'MD13G1193300' => 'mdo', 'MD15G1428700' => 'mdo', 'Medtr1g112030' => 'mtr', 'Medtr1g112050' => 'mtr', 'Medtr2g006290' => 'mtr', 'Medtr2g086510' => 'mtr', 'Medtr4g053120' => 'mtr', 'Medtr5g006320' => 'mtr', 'Medtr8g088720' => 'mtr', 'MELO3C004712.2' => 'cme', 'MELO3C006533.2' => 'cme', 'MELO3C019438.2' => 'cme', 'MELO3C019440.2' => 'cme', 'MELO3C019441.2' => 'cme', 'MELO3C019895.2' => 'cme', 'Migut.B00811' => 'egut', 'Migut.D02447' => 'egut', 'Migut.F00875' => 'egut', 'Migut.N00186' => 'egut', 'Migut.N01051' => 'egut', 'Migut.N02491' => 'egut', 'Migut.O00784' => 'egut', 'MSTRG.12367' => 'ama', 'MSTRG.18756' => 'ama', 'MSTRG.21042' => 'ama', 'Nitab4.5_0000559g0040' => 'nta', 'Nitab4.5_0000667g0190' => 'nta', 'Nitab4.5_0000755g0160' => 'nta', 'Nitab4.5_0001216g0080' => 'nta', 'Nitab4.5_0004069g0040' => 'nta', 'Nitab4.5_0004129g0010' => 'nta', 'Nitab4.5_0005744g0030' => 'nta', 'Nitab4.5_0006996g0030' => 'nta', 'Nitab4.5_0008971g0040' => 'nta', 'Nitab4.5_0009769g0020' => 'nta', 'Nitab4.5_0009833g0010' => 'nta', 'Nitab4.5_0013140g0020' => 'nta', 'Nn003s41376' => 'nnu', 'Nn1g01857' => 'nnu', 'Nn1g03611' => 'nnu', 'Nn1g06853' => 'nnu', 'Nn3g18360' => 'nnu', 'Nn4g26328' => 'nnu', 'Nn5g27531' => 'nnu', 'Nn6g34899' => 'nnu', 'Nn7g36299' => 'nnu', 'Oeu021485.1' => 'oeu', 'Oeu022433.1' => 'oeu', 'Oeu032111.1' => 'oeu', 'Oeu051608.1' => 'oeu', 'Os01g0860601' => 'osa', 'Os03g0659200' => 'osa', 'Os03g0835900' => 'osa', 'Os04g0412200' => 'osa', 'Os05g0443500' => 'osa', 'Os07g0251500' => 'osa', 'Os08g0104600' => 'osa', 'Peaxi162Scf00003g00047' => 'pax', 'Peaxi162Scf00003g00052' => 'pax', 'Peaxi162Scf00003g00394' => 'pax', 'Peaxi162Scf00091g00621' => 'pax', 'Peaxi162Scf00152g00146' => 'pax', 'Peaxi162Scf00173g00025' => 'pax', 'Peaxi162Scf00195g00102' => 'pax', 'Peaxi162Scf00402g00013' => 'pax', 'Peaxi162Scf00519g00618' => 'pax', 'PGR004G2838' => 'pgr', 'PGR044G2275' => 'pgr', 'PGR102G1377' => 'pgr', 'PGR119G1245' => 'pgr', 'PGR142G4449' => 'pgr', 'PGSC0003DMG400004532' => 'stu', 'PGSC0003DMG400011950' => 'stu', 'PGSC0003DMG400023391' => 'stu', 'PGSC0003DMG400023985' => 'stu', 'PGSC0003DMG400026360' => 'stu', 'PGSC0003DMG400035711' => 'stu', 'PGSC0003DMG400037286' => 'stu', 'PGSC0003DMG402005881' => 'stu', 'Phvul.002G045400' => 'pvu', 'Phvul.006G216600' => 'pvu', 'Phvul.006G216700' => 'pvu', 'Phvul.006G216800' => 'pvu', 'Phvul.007G022500' => 'pvu', 'Phvul.011G094400' => 'pvu', 'Potri.001G470700' => 'ptr', 'Potri.003G015200' => 'ptr', 'Potri.004G202500' => 'ptr', 'Potri.004G218400' => 'ptr', 'Potri.008G020100' => 'ptr', 'Potri.008G153200' => 'ptr', 'Potri.009G163800' => 'ptr', 'Potri.010G087300' => 'ptr', 'Potri.010G239100' => 'ptr', 'Pp3c10_16100' => 'ppa', 'Pp3c10_16880' => 'ppa', 'Pp3c16_6230' => 'ppa', 'Pp3c17_18910' => 'ppa', 'Pp3c3_22119' => 'ppa', 'Pp3c3_22140' => 'ppa', 'Pp3c4_8159' => 'ppa', 'Pp3c4_8171' => 'ppa', 'Pp3c4_8330' => 'ppa', 'PRCOL_00004098' => 'pco', 'Prupe.1G013900' => 'ppe', 'Prupe.1G226300' => 'ppe', 'Prupe.1G573600' => 'ppe', 'Prupe.6G130100' => 'ppe', 'Psat3g090040' => 'psa', 'Psat4g210440' => 'psa', 'Psat6g231040' => 'psa', 'Psat6g231080' => 'psa', 'Psat7g063000' => 'psa', 'Psat7g188000' => 'psa', 'Psat7g188040' => 'psa', 'PSO017G0206' => 'pso', 'PSO170G0501' => 'pso', 'PSO170G6422' => 'pso', 'PSO210G7739' => 'pso', 'PSO339G1808' => 'pso', 'PSO339G6135' => 'pso', 'PSO384G0010' => 'pso', 'PSO384G0964' => 'pso', 'PSO761G0050' => 'pso', 'PSO782G4085' => 'pso', 'QL01p012264' => 'qlo', 'QL02p099491' => 'qlo', 'QL03p033868' => 'qlo', 'QL04p046678' => 'qlo', 'QL06p002448' => 'qlo', 'RcHm_v2.0_Chr4g0416181' => 'rch', 'RcHm_v2.0_Chr5g0044701' => 'rch', 'RcHm_v2.0_Chr6g0265781' => 'rch', 'RcHm_v2.0_Chr7g0221031' => 'rch', 'Rhsim04G0202000' => 'rsi', 'Rhsim11G0127300' => 'rsi', 'Rhsim13G0111800' => 'rsi', 'Sabra01G0165600' => 'sbr', 'Sabra03G0008300' => 'sbr', 'Sabra04G0136900' => 'sbr', 'Sabra08G0013400' => 'sbr', 'Sabra08G0116800' => 'sbr', 'Sabra09G0128000' => 'sbr', 'Sabra10G0055500' => 'sbr', 'Sabra10G0073300' => 'sbr', 'SalBow3G0385' => 'sbo', 'SalBow3G1119' => 'sbo', 'SalBow3G2005' => 'sbo', 'SalBow6G2563' => 'sbo', 'SalBow6G6386' => 'sbo', 'Sc06g0008800' => 'sci', 'Sc07g0004950' => 'sci', 'Sc09g0005340' => 'sci', 'Sc13g0004410' => 'sci', 'Sc21g0007090' => 'sci', 'Sed0009285' => 'sed', 'Sed0017583' => 'sed', 'Sed0019699' => 'sed', 'Sed0023107' => 'sed', 'SEGI_10916' => 'sgi', 'SEGI_16217' => 'sgi', 'SEGI_19466' => 'sgi', 'SEGI_41115' => 'sgi', 'SGA_v2.0_scaffold111G31534' => 'sas', 'SGA_v2.0_scaffold22G09864' => 'sas', 'SGA_v2.0_scaffold338G49219' => 'sas', 'SGA_v2.0_scaffold92G28298' => 'sas', 'SMO119G0064' => 'smo', 'SMO223G0038' => 'smo', 'SMO347G0584' => 'smo', 'SMO351G0010' => 'smo', 'SMO356G0404' => 'smo', 'Solyc01g103920.3' => 'sly', 'Solyc04g009710.2' => 'sly', 'Solyc05g055280.2' => 'sly', 'Solyc10g044520.3' => 'sly', 'Solyc10g075160.1' => 'sly', 'Solyc11g006910.3' => 'sly', 'Solyc11g068430.3' => 'sly', 'Sopen01g046310' => 'spe', 'Sopen03g001200' => 'spe', 'Sopen04g004830' => 'spe', 'Sopen05g033720' => 'spe', 'Sopen06g030740' => 'spe', 'Sopen10g013090' => 'spe', 'Sopen10g027630' => 'spe', 'Sopen10g027640' => 'spe', 'Sopen11g002820' => 'spe', 'Sopen11g027140' => 'spe', 'Sp1g09680' => 'spa', 'Sp2g03630' => 'spa', 'Sp4g10320' => 'spa', 'Sp6g33400' => 'spa', 'Sp7g13030' => 'spa', 'TAR365G0317' => 'tar', 'TAR376G0979' => 'tar', 'TAR623G1665' => 'tar', 'TAR633G2373' => 'tar', 'TAR636G1400' => 'tar', 'THA.LOC104800529' => 'tha', 'THA.LOC104808547' => 'tha', 'THA.LOC104809615' => 'tha', 'THA.LOC104815724' => 'tha', 'THA.LOC104818480' => 'tha', 'THA.LOC104819179' => 'tha', 'THA.LOC104822270' => 'tha', 'THA.LOC104826425' => 'tha', 'Thecc.02G089700' => 'tca', 'Thecc.04G232300' => 'tca', 'Thecc.09G283400' => 'tca', 'Thhalv10009020m.g' => 'esa', 'Thhalv10015506m.g' => 'esa', 'Thhalv10017364m.g' => 'esa', 'Thhalv10023742m.g' => 'esa', 'Thhalv10026483m.g' => 'esa', 'TPR.G17232' => 'tpr', 'TPR.G2133' => 'tpr', 'TPR.G2498' => 'tpr', 'TPR.G31942' => 'tpr', 'TPR.G37877' => 'tpr', 'TPR.G4571' => 'tpr', 'TWI14G1113' => 'twi', 'TWI15G0426' => 'twi', 'TWI31G1005' => 'twi', 'TWI38G0513' => 'twi', 'TWI38G1484' => 'twi', 'TWI73G1098' => 'twi', 'unitig_26.g10519' => 'ugi', 'unitig_736.g22395' => 'ugi', 'unitig_747.g21234' => 'ugi', 'unitig_747.g21942' => 'ugi', 'vmacro14351' => 'vma', 'VMungo0540G0082' => 'vmu', 'VMungo0540G0405' => 'vmu', 'VMungo0540G1486' => 'vmu', 'VMungo0540G1692' => 'vmu', 'VMungo0720G2473' => 'vmu', 'VMungo1127G1562' => 'vmu', 'VMungo1215G1918' => 'vmu', 'Zm00001eb052650' => 'zma', 'Zm00001eb063710' => 'zma', 'Zm00001eb083950' => 'zma', 'Zm00001eb174420' => 'zma', 'Zm00001eb260140' => 'zma', 'Zm00001eb260150' => 'zma', 'Zm00001eb260160' => 'zma', 'Zm00001eb348290' => 'zma', 'Zm00001eb366870' => 'zma', 'Zm00001eb421930' => 'zma' ) $gf_id = 'HOM05D001025' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001025' ) $data_identifier = 'HOM05D001025' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 19, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 2, 'amhyb' => (int) 4, 'aly' => (int) 4, 'aox' => (int) 4, 'arhy' => (int) 3, 'ath' => (int) 5, 'atr' => (int) 4, 'acertr' => (int) 3, 'cqu' => (int) 7, 'bca' => (int) 17, 'bol' => (int) 10, 'bra' => (int) 9, 'can' => (int) 10, 'cansat' => (int) 6, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 5, 'cbr' => (int) 5, 'ccan' => (int) 5, 'cde' => (int) 4, 'cfa' => (int) 3, 'ccl' => (int) 6, 'cil' => (int) 4, 'cla' => (int) 3, 'col' => (int) 3, 'cpa' => (int) 3, 'cre' => (int) 7, 'csa' => (int) 5, 'camsi' => (int) 9, 'dca' => (int) 4, 'din' => (int) 5, 'dzi' => (int) 7, 'eca' => (int) 6, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 12, 'fve' => (int) 4, 'gma' => (int) 12, 'ghi' => (int) 17, 'gra' => (int) 9, 'vvi' => (int) 2, 'han' => (int) 8, 'cav' => (int) 5, 'hma' => (int) 9, 'vpl' => (int) 4, 'sun' => (int) 2, 'lal' => (int) 9, 'lja' => (int) 5, 'lonja' => (int) 6, 'lsa' => (int) 3, 'mes' => (int) 8, 'mpo' => (int) 3, 'mbi' => (int) 4, 'mco' => (int) 3, 'mdo' => (int) 5, 'mtr' => (int) 7, 'cme' => (int) 6, 'egut' => (int) 7, 'ama' => (int) 3, 'nta' => (int) 12, 'nnu' => (int) 9, 'oeu' => (int) 4, 'osa' => (int) 7, 'pax' => (int) 9, 'pgr' => (int) 5, 'stu' => (int) 8, 'pvu' => (int) 6, 'ptr' => (int) 9, 'ppa' => (int) 9, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 7, 'pso' => (int) 10, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 3, 'sbr' => (int) 8, 'sbo' => (int) 5, 'sci' => (int) 5, 'sed' => (int) 4, 'sgi' => (int) 4, 'sas' => (int) 4, 'smo' => (int) 5, 'sly' => (int) 7, 'spe' => (int) 10, 'spa' => (int) 5, 'tar' => (int) 5, 'tha' => (int) 8, 'tca' => (int) 3, 'esa' => (int) 5, 'tpr' => (int) 6, 'twi' => (int) 6, 'ugi' => (int) 4, 'vma' => (int) 1, 'vmu' => (int) 7, 'zma' => (int) 10 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb421930' $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' => 'HOM05D001025', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '592', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p22650' => 'bna', 'A01p29720' => 'bna', 'A03p26560' => 'bna', 'A03p68820' => 'bna', 'A04p20980' => 'bna', 'A06p07730' => 'bna', 'A07p18260' => 'bna', 'A08p33710' => 'bna', 'A09p16970' => 'bna', 'A10p27490' => 'bna', 'Aa31LG1G17300' => 'aar', 'Aa31LG1G3910' => 'aar', 'Aa31LG2G9630' => 'aar', 'Aa31LG5G8360' => 'aar', 'Aa31LG9G2410' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4699' => 'aag', 'Actinidia23512' => 'ach', 'Actinidia37080' => 'ach', 'Ah.01g020380' => 'amhyb', 'Ah.08g215710' => 'amhyb', 'Ah.09g225110' => 'amhyb', 'Ah.10g036680' => 'amhyb', 'AL1G21940' => 'aly', 'AL2G15540' => 'aly', 'AL4G21520' => 'aly', 'AL7G40960' => 'aly', 'Aqoxy2G01191' => 'aox', 'Aqoxy2G03393' => 'aox', 'Aqoxy4G02775' => 'aox', 'Aqoxy6G00058' => 'aox', 'arahy.Tifrunner.gnm1.ann1.9X74H2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CW3FX9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R485W7' => 'arhy', 'AT1G10960' => 'ath', 'AT1G60950' => 'ath', 'AT2G27510' => 'ath', 'AT4G14890' => 'ath', 'AT5G10000' => 'ath', 'ATR0665G624' => 'atr', 'ATR0697G138' => 'atr', 'ATR0776G046' => 'atr', 'ATR1134G135' => 'atr', 'Atru.chr12.1025' => 'acertr', 'Atru.chr3.3241' => 'acertr', 'Atru.chr4.2460' => 'acertr', 'AUR62007427' => 'cqu', 'AUR62010960' => 'cqu', 'AUR62012201' => 'cqu', 'AUR62021470' => 'cqu', 'AUR62022834' => 'cqu', 'AUR62033635' => 'cqu', 'AUR62036186' => 'cqu', 'BcaB01g03077' => 'bca', 'BcaB02g10093' => 'bca', 'BcaB04g20295' => 'bca', 'BcaB06g28147' => 'bca', 'BcaB07g31253' => 'bca', 'BcaC01g04946' => 'bca', 'BcaC02g10614' => 'bca', 'BcaC02g10885' => 'bca', 'BcaC04g19356' => 'bca', 'BcaC04g22297' => 'bca', 'BcaC05g24977' => 'bca', 'BcaC06g31823' => 'bca', 'BcaC07g38633' => 'bca', 'BcaC09g49353' => 'bca', 'BcaC09g50168' => 'bca', 'BcaNung00322' => 'bca', 'BcaNung04769' => 'bca', 'BolC1t02753H' => 'bol', 'BolC1t03721H' => 'bol', 'BolC3t15525H' => 'bol', 'BolC4t23903H' => 'bol', 'BolC4t24231H' => 'bol', 'BolC4t27209H' => 'bol', 'BolC5t29671H' => 'bol', 'BolC8t49044H' => 'bol', 'BolC9t54999H' => 'bol', 'BolC9t59517H' => 'bol', 'BraA01t02178Z' => 'bra', 'BraA01t03099Z' => 'bra', 'BraA03t11867Z' => 'bra', 'BraA04t17667Z' => 'bra', 'BraA07t29542Z' => 'bra', 'BraA08t35287Z' => 'bra', 'BraA09t37334Z' => 'bra', 'BraA10t44801Z' => 'bra', 'BraSC39t46181Z' => 'bra', 'C01p28240' => 'bna', 'C01p37530' => 'bna', 'C03p31820' => 'bna', 'C04p24080' => 'bna', 'C04p25790' => 'bna', 'C04p56770' => 'bna', 'C05p09310' => 'bna', 'C09p21010' => 'bna', 'C09p67560' => 'bna', 'CAN.G1324.7' => 'can', 'CAN.G1358.10' => 'can', 'CAN.G1550.2' => 'can', 'CAN.G186.56' => 'can', 'CAN.G1965.1' => 'can', 'CAN.G645.15' => 'can', 'CAN.G798.26' => 'can', 'CAN.G798.27' => 'can', 'CAN.G798.29' => 'can', 'CAN.G919.31' => 'can', 'CANSAT11G0133' => 'cansat', 'CANSAT11G1171' => 'cansat', 'CANSAT11G2056' => 'cansat', 'CANSAT56G1202' => 'cansat', 'CANSAT56G1514' => 'cansat', 'CANSAT78G0455' => 'cansat', 'CARHR011190' => 'chi', 'CARHR051980' => 'chi', 'CARHR120170' => 'chi', 'CARHR203310' => 'chi', 'CARHR221490' => 'chi', 'Carub.0001s1054' => 'cru', 'Carub.0002s0431' => 'cru', 'Carub.0004s0818' => 'cru', 'Carub.0006s0846' => 'cru', 'Carub.0007s2722' => 'cru', 'Ca_00058_v3' => 'car', 'Ca_17831_v3' => 'car', 'Ca_19408_v3' => 'car', 'Ca_24397_v3' => 'car', 'Ca_25664_v3' => 'car', 'CBR_g21818' => 'cbr', 'CBR_g31195' => 'cbr', 'CBR_g32282' => 'cbr', 'CBR_g39599' => 'cbr', 'CBR_g49410' => 'cbr', 'Cc01_g09120' => 'ccan', 'Cc01_g09130' => 'ccan', 'Cc02_g09630' => 'ccan', 'Cc02_g22810' => 'ccan', 'Cc03_g03810' => 'ccan', 'CDE02G3718' => 'cde', 'CDE04G3183' => 'cde', 'CDE07G1046' => 'cde', 'CDE08G0480' => 'cde', 'Cfa005493' => 'cfa', 'Cfa010312' => 'cfa', 'Cfa015648' => 'cfa', 'Ciclev10002793m.g' => 'ccl', 'Ciclev10003356m.g' => 'ccl', 'Ciclev10006141m.g' => 'ccl', 'Ciclev10016676m.g' => 'ccl', 'Ciclev10017081m.g' => 'ccl', 'Ciclev10029499m.g' => 'ccl', 'CiPaw.01G166300' => 'cil', 'CiPaw.06G145600' => 'cil', 'CiPaw.13G040100' => 'cil', 'CiPaw.13G135800' => 'cil', 'ClCG01G012230' => 'cla', 'ClCG05G009510' => 'cla', 'ClCG08G008270' => 'cla', 'COL.COLO4_11763' => 'col', 'COL.COLO4_19876' => 'col', 'COL.COLO4_21481' => 'col', 'Cpa.g.sc118.34' => 'cpa', 'Cpa.g.sc32.13' => 'cpa', 'Cpa.g.sc58.103' => 'cpa', 'Cre03.g183850' => 'cre', 'Cre06.g306350' => 'cre', 'Cre07.g334800' => 'cre', 'Cre12.g487900' => 'cre', 'Cre14.g626700' => 'cre', 'Cre16.g658400' => 'cre', 'Cre17.g700950' => 'cre', 'CsaV3_1G014830' => 'csa', 'CsaV3_3G013320' => 'csa', 'CsaV3_3G019210' => 'csa', 'CsaV3_3G019220' => 'csa', 'CsaV3_6G004230' => 'csa', 'CSS0003773' => 'camsi', 'CSS0004563' => 'camsi', 'CSS0013949' => 'camsi', 'CSS0025971' => 'camsi', 'CSS0028570' => 'camsi', 'CSS0033127' => 'camsi', 'CSS0036051' => 'camsi', 'CSS0040087' => 'camsi', 'CSS0043179' => 'camsi', 'DCAR_006161' => 'dca', 'DCAR_010351' => 'dca', 'DCAR_012197' => 'dca', 'DCAR_024162' => 'dca', 'Dinv01030' => 'din', 'Dinv10924' => 'din', 'Dinv11835' => 'din', 'Dinv22841' => 'din', 'Dinv42553' => 'din', 'Duzib052G0560' => 'dzi', 'Duzib132G0389' => 'dzi', 'Duzib150G1181' => 'dzi', 'Duzib168G0623' => 'dzi', 'Duzib170G1036' => 'dzi', 'Duzib212G0200' => 'dzi', 'Duzib248G0194' => 'dzi', 'ECA232G2193' => 'eca', 'ECA233G0302' => 'eca', 'ECA234G2813' => 'eca', 'ECA234G4866' => 'eca', 'ECA240G3932' => 'eca', 'ECA248G0385' => 'eca', 'EL10Ac2g04781' => 'bvu', 'EL10Ac3g06445' => 'bvu', 'EL10Ac7g15825' => 'bvu', 'EL10Ac8g18550' => 'bvu', 'Eucgr.B03849' => 'egr', 'Eucgr.I02744' => 'egr', 'Eucgr.J00264' => 'egr', 'Eucgr.J00493' => 'egr', 'FAN04G2181' => 'fan', 'FAN07G2666' => 'fan', 'FAN11G0024' => 'fan', 'FAN12G1105' => 'fan', 'FAN13G0302' => 'fan', 'FAN15G2781' => 'fan', 'FAN16G1274' => 'fan', 'FAN17G2988' => 'fan', 'FAN18G2621' => 'fan', 'FAN21G0013' => 'fan', 'FAN22G1211' => 'fan', 'FAN25G3626' => 'fan', 'FvH4_2g09491' => 'fve', 'FvH4_3g24910' => 'fve', 'FvH4_4g15630' => 'fve', 'FvH4_5g28820' => 'fve', 'Glyma.01G238000' => 'gma', 'Glyma.05G168400' => 'gma', 'Glyma.08G126800' => 'gma', 'Glyma.08G188500' => 'gma', 'Glyma.10G278900' => 'gma', 'Glyma.11G005700' => 'gma', 'Glyma.11G183300' => 'gma', 'Glyma.12G089200' => 'gma', 'Glyma.12G169400' => 'gma', 'Glyma.12G169500' => 'gma', 'Glyma.12G169600' => 'gma', 'Glyma.20G110800' => 'gma', 'Gohir.A03G192900' => 'ghi', 'Gohir.A03G193000' => 'ghi', 'Gohir.A05G080700' => 'ghi', 'Gohir.A09G216000' => 'ghi', 'Gohir.A12G027700' => 'ghi', 'Gohir.A13G036200' => 'ghi', 'Gohir.A13G222600' => 'ghi', 'Gohir.D02G213900' => 'ghi', 'Gohir.D02G214000' => 'ghi', 'Gohir.D05G083700' => 'ghi', 'Gohir.D05G083800' => 'ghi', 'Gohir.D05G083850' => 'ghi', 'Gohir.D08G015400' => 'ghi', 'Gohir.D09G218400' => 'ghi', 'Gohir.D12G027100' => 'ghi', 'Gohir.D13G034500' => 'ghi', 'Gohir.D13G227400' => 'ghi', 'Gorai.005G241800' => 'gra', 'Gorai.005G241900' => 'gra', 'Gorai.006G239400' => 'gra', 'Gorai.008G027600' => 'gra', 'Gorai.009G085400' => 'gra', 'Gorai.009G085500' => 'gra', 'Gorai.013G039000' => 'gra', 'Gorai.013G194800' => 'gra', 'Gorai.013G257900' => 'gra', 'GSVIVG01000982001' => 'vvi', 'GSVIVG01017981001' => 'vvi', 'HanXRQChr01g0024061' => 'han', 'HanXRQChr09g0247831' => 'han', 'HanXRQChr10g0294611' => 'han', 'HanXRQChr10g0294621' => 'han', 'HanXRQChr11g0346821' => 'han', 'HanXRQChr13g0397461' => 'han', 'HanXRQChr16g0513651' => 'han', 'HanXRQChr16g0513701' => 'han', 'Haze_00897' => 'cav', 'Haze_01745' => 'cav', 'Haze_02486' => 'cav', 'Haze_02487' => 'cav', 'Haze_23374' => 'cav', 'Hma1.2p1_0578F.1_g182520' => 'hma', 'Hma1.2p1_0602F.1_g187350' => 'hma', 'Hma1.2p1_0602F.1_g187360' => 'hma', 'Hma1.2p1_0874F.1_g231320' => 'hma', 'Hma1.2p1_1197F.1_g266210' => 'hma', 'Hma1.2p1_1197F.1_g266220' => 'hma', 'Hma1.2p1_2167F.1_g315895' => 'hma', 'Hma1.2p1_2190F.1_g316640' => 'hma', 'Hma1.2p1_3645F.1_g337153' => 'hma', 'HPP92_004907' => 'vpl', 'HPP92_012134' => 'vpl', 'HPP92_025136' => 'vpl', 'HPP92_026087' => 'vpl', 'Hund06782' => 'sun', 'Hund06784' => 'sun', 'Lalb_Chr01g0004861' => 'lal', 'Lalb_Chr02g0140591' => 'lal', 'Lalb_Chr02g0140611' => 'lal', 'Lalb_Chr03g0028101' => 'lal', 'Lalb_Chr07g0185791' => 'lal', 'Lalb_Chr12g0204491' => 'lal', 'Lalb_Chr13g0295671' => 'lal', 'Lalb_Chr19g0136461' => 'lal', 'Lalb_Chr21g0309191' => 'lal', 'Lj1g0028158' => 'lja', 'Lj1P236T38' => 'lonja', 'Lj2C32G2' => 'lonja', 'Lj2P944T8' => 'lonja', 'Lj2P963T15' => 'lonja', 'Lj3g0011788' => 'lja', 'Lj4g0025027' => 'lja', 'Lj5P255T36' => 'lonja', 'Lj6g0018866' => 'lja', 'Lj6P608T31' => 'lonja', 'LjContig00408g0008879' => 'lja', 'Lsat_1_v5_gn_5_105820' => 'lsa', 'Lsat_1_v5_gn_6_38800' => 'lsa', 'Lsat_1_v5_gn_7_67141' => 'lsa', 'Manes.04G003400' => 'mes', 'Manes.07G020000' => 'mes', 'Manes.07G020100' => 'mes', 'Manes.07G020150' => 'mes', 'Manes.10G061500' => 'mes', 'Manes.10G123200' => 'mes', 'Manes.11G161900' => 'mes', 'Manes.15G029300' => 'mes', 'Mapoly0071s0018' => 'mpo', 'Mapoly0082s0023' => 'mpo', 'Mapoly3477s0001' => 'mpo', 'MBI05_g31233_MAGBIO' => 'mbi', 'MBI09_g05946_MAGBIO' => 'mbi', 'MBI09_g05947_MAGBIO' => 'mbi', 'MBI17_g08346_MAGBIO' => 'mbi', 'MCO04G038' => 'mco', 'MCO09G370' => 'mco', 'MCO13G605' => 'mco', 'MD00G1075500' => 'mdo', 'MD03G1144300' => 'mdo', 'MD08G1236800' => 'mdo', 'MD13G1193300' => 'mdo', 'MD15G1428700' => 'mdo', 'Medtr1g112030' => 'mtr', 'Medtr1g112050' => 'mtr', 'Medtr2g006290' => 'mtr', 'Medtr2g086510' => 'mtr', 'Medtr4g053120' => 'mtr', 'Medtr5g006320' => 'mtr', 'Medtr8g088720' => 'mtr', 'MELO3C004712.2' => 'cme', 'MELO3C006533.2' => 'cme', 'MELO3C019438.2' => 'cme', 'MELO3C019440.2' => 'cme', 'MELO3C019441.2' => 'cme', 'MELO3C019895.2' => 'cme', 'Migut.B00811' => 'egut', 'Migut.D02447' => 'egut', 'Migut.F00875' => 'egut', 'Migut.N00186' => 'egut', 'Migut.N01051' => 'egut', 'Migut.N02491' => 'egut', 'Migut.O00784' => 'egut', 'MSTRG.12367' => 'ama', 'MSTRG.18756' => 'ama', 'MSTRG.21042' => 'ama', 'Nitab4.5_0000559g0040' => 'nta', 'Nitab4.5_0000667g0190' => 'nta', 'Nitab4.5_0000755g0160' => 'nta', 'Nitab4.5_0001216g0080' => 'nta', 'Nitab4.5_0004069g0040' => 'nta', 'Nitab4.5_0004129g0010' => 'nta', 'Nitab4.5_0005744g0030' => 'nta', 'Nitab4.5_0006996g0030' => 'nta', 'Nitab4.5_0008971g0040' => 'nta', 'Nitab4.5_0009769g0020' => 'nta', 'Nitab4.5_0009833g0010' => 'nta', 'Nitab4.5_0013140g0020' => 'nta', 'Nn003s41376' => 'nnu', 'Nn1g01857' => 'nnu', 'Nn1g03611' => 'nnu', 'Nn1g06853' => 'nnu', 'Nn3g18360' => 'nnu', 'Nn4g26328' => 'nnu', 'Nn5g27531' => 'nnu', 'Nn6g34899' => 'nnu', 'Nn7g36299' => 'nnu', 'Oeu021485.1' => 'oeu', 'Oeu022433.1' => 'oeu', 'Oeu032111.1' => 'oeu', 'Oeu051608.1' => 'oeu', 'Os01g0860601' => 'osa', 'Os03g0659200' => 'osa', 'Os03g0835900' => 'osa', 'Os04g0412200' => 'osa', 'Os05g0443500' => 'osa', 'Os07g0251500' => 'osa', 'Os08g0104600' => 'osa', 'Peaxi162Scf00003g00047' => 'pax', 'Peaxi162Scf00003g00052' => 'pax', 'Peaxi162Scf00003g00394' => 'pax', 'Peaxi162Scf00091g00621' => 'pax', 'Peaxi162Scf00152g00146' => 'pax', 'Peaxi162Scf00173g00025' => 'pax', 'Peaxi162Scf00195g00102' => 'pax', 'Peaxi162Scf00402g00013' => 'pax', 'Peaxi162Scf00519g00618' => 'pax', 'PGR004G2838' => 'pgr', 'PGR044G2275' => 'pgr', 'PGR102G1377' => 'pgr', 'PGR119G1245' => 'pgr', 'PGR142G4449' => 'pgr', 'PGSC0003DMG400004532' => 'stu', 'PGSC0003DMG400011950' => 'stu', 'PGSC0003DMG400023391' => 'stu', 'PGSC0003DMG400023985' => 'stu', 'PGSC0003DMG400026360' => 'stu', 'PGSC0003DMG400035711' => 'stu', 'PGSC0003DMG400037286' => 'stu', 'PGSC0003DMG402005881' => 'stu', 'Phvul.002G045400' => 'pvu', 'Phvul.006G216600' => 'pvu', 'Phvul.006G216700' => 'pvu', 'Phvul.006G216800' => 'pvu', 'Phvul.007G022500' => 'pvu', 'Phvul.011G094400' => 'pvu', 'Potri.001G470700' => 'ptr', 'Potri.003G015200' => 'ptr', 'Potri.004G202500' => 'ptr', 'Potri.004G218400' => 'ptr', 'Potri.008G020100' => 'ptr', 'Potri.008G153200' => 'ptr', 'Potri.009G163800' => 'ptr', 'Potri.010G087300' => 'ptr', 'Potri.010G239100' => 'ptr', 'Pp3c10_16100' => 'ppa', 'Pp3c10_16880' => 'ppa', 'Pp3c16_6230' => 'ppa', 'Pp3c17_18910' => 'ppa', 'Pp3c3_22119' => 'ppa', 'Pp3c3_22140' => 'ppa', 'Pp3c4_8159' => 'ppa', 'Pp3c4_8171' => 'ppa', 'Pp3c4_8330' => 'ppa', 'PRCOL_00004098' => 'pco', 'Prupe.1G013900' => 'ppe', 'Prupe.1G226300' => 'ppe', 'Prupe.1G573600' => 'ppe', 'Prupe.6G130100' => 'ppe', 'Psat3g090040' => 'psa', 'Psat4g210440' => 'psa', 'Psat6g231040' => 'psa', 'Psat6g231080' => 'psa', 'Psat7g063000' => 'psa', 'Psat7g188000' => 'psa', 'Psat7g188040' => 'psa', 'PSO017G0206' => 'pso', 'PSO170G0501' => 'pso', 'PSO170G6422' => 'pso', 'PSO210G7739' => 'pso', 'PSO339G1808' => 'pso', 'PSO339G6135' => 'pso', 'PSO384G0010' => 'pso', 'PSO384G0964' => 'pso', 'PSO761G0050' => 'pso', 'PSO782G4085' => 'pso', 'QL01p012264' => 'qlo', 'QL02p099491' => 'qlo', 'QL03p033868' => 'qlo', 'QL04p046678' => 'qlo', 'QL06p002448' => 'qlo', 'RcHm_v2.0_Chr4g0416181' => 'rch', 'RcHm_v2.0_Chr5g0044701' => 'rch', 'RcHm_v2.0_Chr6g0265781' => 'rch', 'RcHm_v2.0_Chr7g0221031' => 'rch', 'Rhsim04G0202000' => 'rsi', 'Rhsim11G0127300' => 'rsi', 'Rhsim13G0111800' => 'rsi', 'Sabra01G0165600' => 'sbr', 'Sabra03G0008300' => 'sbr', 'Sabra04G0136900' => 'sbr', 'Sabra08G0013400' => 'sbr', 'Sabra08G0116800' => 'sbr', 'Sabra09G0128000' => 'sbr', 'Sabra10G0055500' => 'sbr', 'Sabra10G0073300' => 'sbr', 'SalBow3G0385' => 'sbo', 'SalBow3G1119' => 'sbo', 'SalBow3G2005' => 'sbo', 'SalBow6G2563' => 'sbo', 'SalBow6G6386' => 'sbo', 'Sc06g0008800' => 'sci', 'Sc07g0004950' => 'sci', 'Sc09g0005340' => 'sci', 'Sc13g0004410' => 'sci', 'Sc21g0007090' => 'sci', 'Sed0009285' => 'sed', 'Sed0017583' => 'sed', 'Sed0019699' => 'sed', 'Sed0023107' => 'sed', 'SEGI_10916' => 'sgi', 'SEGI_16217' => 'sgi', 'SEGI_19466' => 'sgi', 'SEGI_41115' => 'sgi', 'SGA_v2.0_scaffold111G31534' => 'sas', 'SGA_v2.0_scaffold22G09864' => 'sas', 'SGA_v2.0_scaffold338G49219' => 'sas', 'SGA_v2.0_scaffold92G28298' => 'sas', 'SMO119G0064' => 'smo', 'SMO223G0038' => 'smo', 'SMO347G0584' => 'smo', 'SMO351G0010' => 'smo', 'SMO356G0404' => 'smo', 'Solyc01g103920.3' => 'sly', 'Solyc04g009710.2' => 'sly', 'Solyc05g055280.2' => 'sly', 'Solyc10g044520.3' => 'sly', 'Solyc10g075160.1' => 'sly', 'Solyc11g006910.3' => 'sly', 'Solyc11g068430.3' => 'sly', 'Sopen01g046310' => 'spe', 'Sopen03g001200' => 'spe', 'Sopen04g004830' => 'spe', 'Sopen05g033720' => 'spe', 'Sopen06g030740' => 'spe', 'Sopen10g013090' => 'spe', 'Sopen10g027630' => 'spe', 'Sopen10g027640' => 'spe', 'Sopen11g002820' => 'spe', 'Sopen11g027140' => 'spe', 'Sp1g09680' => 'spa', 'Sp2g03630' => 'spa', 'Sp4g10320' => 'spa', 'Sp6g33400' => 'spa', 'Sp7g13030' => 'spa', 'TAR365G0317' => 'tar', 'TAR376G0979' => 'tar', 'TAR623G1665' => 'tar', 'TAR633G2373' => 'tar', 'TAR636G1400' => 'tar', 'THA.LOC104800529' => 'tha', 'THA.LOC104808547' => 'tha', 'THA.LOC104809615' => 'tha', 'THA.LOC104815724' => 'tha', 'THA.LOC104818480' => 'tha', 'THA.LOC104819179' => 'tha', 'THA.LOC104822270' => 'tha', 'THA.LOC104826425' => 'tha', 'Thecc.02G089700' => 'tca', 'Thecc.04G232300' => 'tca', 'Thecc.09G283400' => 'tca', 'Thhalv10009020m.g' => 'esa', 'Thhalv10015506m.g' => 'esa', 'Thhalv10017364m.g' => 'esa', 'Thhalv10023742m.g' => 'esa', 'Thhalv10026483m.g' => 'esa', 'TPR.G17232' => 'tpr', 'TPR.G2133' => 'tpr', 'TPR.G2498' => 'tpr', 'TPR.G31942' => 'tpr', 'TPR.G37877' => 'tpr', 'TPR.G4571' => 'tpr', 'TWI14G1113' => 'twi', 'TWI15G0426' => 'twi', 'TWI31G1005' => 'twi', 'TWI38G0513' => 'twi', 'TWI38G1484' => 'twi', 'TWI73G1098' => 'twi', 'unitig_26.g10519' => 'ugi', 'unitig_736.g22395' => 'ugi', 'unitig_747.g21234' => 'ugi', 'unitig_747.g21942' => 'ugi', 'vmacro14351' => 'vma', 'VMungo0540G0082' => 'vmu', 'VMungo0540G0405' => 'vmu', 'VMungo0540G1486' => 'vmu', 'VMungo0540G1692' => 'vmu', 'VMungo0720G2473' => 'vmu', 'VMungo1127G1562' => 'vmu', 'VMungo1215G1918' => 'vmu', 'Zm00001eb052650' => 'zma', 'Zm00001eb063710' => 'zma', 'Zm00001eb083950' => 'zma', 'Zm00001eb174420' => 'zma', 'Zm00001eb260140' => 'zma', 'Zm00001eb260150' => 'zma', 'Zm00001eb260160' => 'zma', 'Zm00001eb348290' => 'zma', 'Zm00001eb366870' => 'zma', 'Zm00001eb421930' => 'zma' ), 'gf_id' => 'HOM05D001025', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001025' ), 'data_identifier' => 'HOM05D001025', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001025', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '592', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p22650' => 'bna', 'A01p29720' => 'bna', 'A03p26560' => 'bna', 'A03p68820' => 'bna', 'A04p20980' => 'bna', 'A06p07730' => 'bna', 'A07p18260' => 'bna', 'A08p33710' => 'bna', 'A09p16970' => 'bna', 'A10p27490' => 'bna', 'Aa31LG1G17300' => 'aar', 'Aa31LG1G3910' => 'aar', 'Aa31LG2G9630' => 'aar', 'Aa31LG5G8360' => 'aar', 'Aa31LG9G2410' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4699' => 'aag', 'Actinidia23512' => 'ach', 'Actinidia37080' => 'ach', 'Ah.01g020380' => 'amhyb', 'Ah.08g215710' => 'amhyb', 'Ah.09g225110' => 'amhyb', 'Ah.10g036680' => 'amhyb', 'AL1G21940' => 'aly', 'AL2G15540' => 'aly', 'AL4G21520' => 'aly', 'AL7G40960' => 'aly', 'Aqoxy2G01191' => 'aox', 'Aqoxy2G03393' => 'aox', 'Aqoxy4G02775' => 'aox', 'Aqoxy6G00058' => 'aox', 'arahy.Tifrunner.gnm1.ann1.9X74H2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CW3FX9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R485W7' => 'arhy', 'AT1G10960' => 'ath', 'AT1G60950' => 'ath', 'AT2G27510' => 'ath', 'AT4G14890' => 'ath', 'AT5G10000' => 'ath', 'ATR0665G624' => 'atr', 'ATR0697G138' => 'atr', 'ATR0776G046' => 'atr', 'ATR1134G135' => 'atr', 'Atru.chr12.1025' => 'acertr', 'Atru.chr3.3241' => 'acertr', 'Atru.chr4.2460' => 'acertr', 'AUR62007427' => 'cqu', 'AUR62010960' => 'cqu', 'AUR62012201' => 'cqu', 'AUR62021470' => 'cqu', 'AUR62022834' => 'cqu', 'AUR62033635' => 'cqu', 'AUR62036186' => 'cqu', 'BcaB01g03077' => 'bca', 'BcaB02g10093' => 'bca', 'BcaB04g20295' => 'bca', 'BcaB06g28147' => 'bca', 'BcaB07g31253' => 'bca', 'BcaC01g04946' => 'bca', 'BcaC02g10614' => 'bca', 'BcaC02g10885' => 'bca', 'BcaC04g19356' => 'bca', 'BcaC04g22297' => 'bca', 'BcaC05g24977' => 'bca', 'BcaC06g31823' => 'bca', 'BcaC07g38633' => 'bca', 'BcaC09g49353' => 'bca', 'BcaC09g50168' => 'bca', 'BcaNung00322' => 'bca', 'BcaNung04769' => 'bca', 'BolC1t02753H' => 'bol', 'BolC1t03721H' => 'bol', 'BolC3t15525H' => 'bol', 'BolC4t23903H' => 'bol', 'BolC4t24231H' => 'bol', 'BolC4t27209H' => 'bol', 'BolC5t29671H' => 'bol', 'BolC8t49044H' => 'bol', 'BolC9t54999H' => 'bol', 'BolC9t59517H' => 'bol', 'BraA01t02178Z' => 'bra', 'BraA01t03099Z' => 'bra', 'BraA03t11867Z' => 'bra', 'BraA04t17667Z' => 'bra', 'BraA07t29542Z' => 'bra', 'BraA08t35287Z' => 'bra', 'BraA09t37334Z' => 'bra', 'BraA10t44801Z' => 'bra', 'BraSC39t46181Z' => 'bra', 'C01p28240' => 'bna', 'C01p37530' => 'bna', 'C03p31820' => 'bna', 'C04p24080' => 'bna', 'C04p25790' => 'bna', 'C04p56770' => 'bna', 'C05p09310' => 'bna', 'C09p21010' => 'bna', 'C09p67560' => 'bna', 'CAN.G1324.7' => 'can', 'CAN.G1358.10' => 'can', 'CAN.G1550.2' => 'can', 'CAN.G186.56' => 'can', 'CAN.G1965.1' => 'can', 'CAN.G645.15' => 'can', 'CAN.G798.26' => 'can', 'CAN.G798.27' => 'can', 'CAN.G798.29' => 'can', 'CAN.G919.31' => 'can', 'CANSAT11G0133' => 'cansat', 'CANSAT11G1171' => 'cansat', 'CANSAT11G2056' => 'cansat', 'CANSAT56G1202' => 'cansat', 'CANSAT56G1514' => 'cansat', 'CANSAT78G0455' => 'cansat', 'CARHR011190' => 'chi', 'CARHR051980' => 'chi', 'CARHR120170' => 'chi', 'CARHR203310' => 'chi', 'CARHR221490' => 'chi', 'Carub.0001s1054' => 'cru', 'Carub.0002s0431' => 'cru', 'Carub.0004s0818' => 'cru', 'Carub.0006s0846' => 'cru', 'Carub.0007s2722' => 'cru', 'Ca_00058_v3' => 'car', 'Ca_17831_v3' => 'car', 'Ca_19408_v3' => 'car', 'Ca_24397_v3' => 'car', 'Ca_25664_v3' => 'car', 'CBR_g21818' => 'cbr', 'CBR_g31195' => 'cbr', 'CBR_g32282' => 'cbr', 'CBR_g39599' => 'cbr', 'CBR_g49410' => 'cbr', 'Cc01_g09120' => 'ccan', 'Cc01_g09130' => 'ccan', 'Cc02_g09630' => 'ccan', 'Cc02_g22810' => 'ccan', 'Cc03_g03810' => 'ccan', 'CDE02G3718' => 'cde', 'CDE04G3183' => 'cde', 'CDE07G1046' => 'cde', 'CDE08G0480' => 'cde', 'Cfa005493' => 'cfa', 'Cfa010312' => 'cfa', 'Cfa015648' => 'cfa', 'Ciclev10002793m.g' => 'ccl', 'Ciclev10003356m.g' => 'ccl', 'Ciclev10006141m.g' => 'ccl', 'Ciclev10016676m.g' => 'ccl', 'Ciclev10017081m.g' => 'ccl', 'Ciclev10029499m.g' => 'ccl', 'CiPaw.01G166300' => 'cil', 'CiPaw.06G145600' => 'cil', 'CiPaw.13G040100' => 'cil', 'CiPaw.13G135800' => 'cil', 'ClCG01G012230' => 'cla', 'ClCG05G009510' => 'cla', 'ClCG08G008270' => 'cla', 'COL.COLO4_11763' => 'col', 'COL.COLO4_19876' => 'col', 'COL.COLO4_21481' => 'col', 'Cpa.g.sc118.34' => 'cpa', 'Cpa.g.sc32.13' => 'cpa', 'Cpa.g.sc58.103' => 'cpa', 'Cre03.g183850' => 'cre', 'Cre06.g306350' => 'cre', 'Cre07.g334800' => 'cre', 'Cre12.g487900' => 'cre', 'Cre14.g626700' => 'cre', 'Cre16.g658400' => 'cre', 'Cre17.g700950' => 'cre', 'CsaV3_1G014830' => 'csa', 'CsaV3_3G013320' => 'csa', 'CsaV3_3G019210' => 'csa', 'CsaV3_3G019220' => 'csa', 'CsaV3_6G004230' => 'csa', 'CSS0003773' => 'camsi', 'CSS0004563' => 'camsi', 'CSS0013949' => 'camsi', 'CSS0025971' => 'camsi', 'CSS0028570' => 'camsi', 'CSS0033127' => 'camsi', 'CSS0036051' => 'camsi', 'CSS0040087' => 'camsi', 'CSS0043179' => 'camsi', 'DCAR_006161' => 'dca', 'DCAR_010351' => 'dca', 'DCAR_012197' => 'dca', 'DCAR_024162' => 'dca', 'Dinv01030' => 'din', 'Dinv10924' => 'din', 'Dinv11835' => 'din', 'Dinv22841' => 'din', 'Dinv42553' => 'din', 'Duzib052G0560' => 'dzi', 'Duzib132G0389' => 'dzi', 'Duzib150G1181' => 'dzi', 'Duzib168G0623' => 'dzi', 'Duzib170G1036' => 'dzi', 'Duzib212G0200' => 'dzi', 'Duzib248G0194' => 'dzi', 'ECA232G2193' => 'eca', 'ECA233G0302' => 'eca', 'ECA234G2813' => 'eca', 'ECA234G4866' => 'eca', 'ECA240G3932' => 'eca', 'ECA248G0385' => 'eca', 'EL10Ac2g04781' => 'bvu', 'EL10Ac3g06445' => 'bvu', 'EL10Ac7g15825' => 'bvu', 'EL10Ac8g18550' => 'bvu', 'Eucgr.B03849' => 'egr', 'Eucgr.I02744' => 'egr', 'Eucgr.J00264' => 'egr', 'Eucgr.J00493' => 'egr', 'FAN04G2181' => 'fan', 'FAN07G2666' => 'fan', 'FAN11G0024' => 'fan', 'FAN12G1105' => 'fan', 'FAN13G0302' => 'fan', 'FAN15G2781' => 'fan', 'FAN16G1274' => 'fan', 'FAN17G2988' => 'fan', 'FAN18G2621' => 'fan', 'FAN21G0013' => 'fan', 'FAN22G1211' => 'fan', 'FAN25G3626' => 'fan', 'FvH4_2g09491' => 'fve', 'FvH4_3g24910' => 'fve', 'FvH4_4g15630' => 'fve', 'FvH4_5g28820' => 'fve', 'Glyma.01G238000' => 'gma', 'Glyma.05G168400' => 'gma', 'Glyma.08G126800' => 'gma', 'Glyma.08G188500' => 'gma', 'Glyma.10G278900' => 'gma', 'Glyma.11G005700' => 'gma', 'Glyma.11G183300' => 'gma', 'Glyma.12G089200' => 'gma', 'Glyma.12G169400' => 'gma', 'Glyma.12G169500' => 'gma', 'Glyma.12G169600' => 'gma', 'Glyma.20G110800' => 'gma', 'Gohir.A03G192900' => 'ghi', 'Gohir.A03G193000' => 'ghi', 'Gohir.A05G080700' => 'ghi', 'Gohir.A09G216000' => 'ghi', 'Gohir.A12G027700' => 'ghi', 'Gohir.A13G036200' => 'ghi', 'Gohir.A13G222600' => 'ghi', 'Gohir.D02G213900' => 'ghi', 'Gohir.D02G214000' => 'ghi', 'Gohir.D05G083700' => 'ghi', 'Gohir.D05G083800' => 'ghi', 'Gohir.D05G083850' => 'ghi', 'Gohir.D08G015400' => 'ghi', 'Gohir.D09G218400' => 'ghi', 'Gohir.D12G027100' => 'ghi', 'Gohir.D13G034500' => 'ghi', 'Gohir.D13G227400' => 'ghi', 'Gorai.005G241800' => 'gra', 'Gorai.005G241900' => 'gra', 'Gorai.006G239400' => 'gra', 'Gorai.008G027600' => 'gra', 'Gorai.009G085400' => 'gra', 'Gorai.009G085500' => 'gra', 'Gorai.013G039000' => 'gra', 'Gorai.013G194800' => 'gra', 'Gorai.013G257900' => 'gra', 'GSVIVG01000982001' => 'vvi', 'GSVIVG01017981001' => 'vvi', 'HanXRQChr01g0024061' => 'han', 'HanXRQChr09g0247831' => 'han', 'HanXRQChr10g0294611' => 'han', 'HanXRQChr10g0294621' => 'han', 'HanXRQChr11g0346821' => 'han', 'HanXRQChr13g0397461' => 'han', 'HanXRQChr16g0513651' => 'han', 'HanXRQChr16g0513701' => 'han', 'Haze_00897' => 'cav', 'Haze_01745' => 'cav', 'Haze_02486' => 'cav', 'Haze_02487' => 'cav', 'Haze_23374' => 'cav', 'Hma1.2p1_0578F.1_g182520' => 'hma', 'Hma1.2p1_0602F.1_g187350' => 'hma', 'Hma1.2p1_0602F.1_g187360' => 'hma', 'Hma1.2p1_0874F.1_g231320' => 'hma', 'Hma1.2p1_1197F.1_g266210' => 'hma', 'Hma1.2p1_1197F.1_g266220' => 'hma', 'Hma1.2p1_2167F.1_g315895' => 'hma', 'Hma1.2p1_2190F.1_g316640' => 'hma', 'Hma1.2p1_3645F.1_g337153' => 'hma', 'HPP92_004907' => 'vpl', 'HPP92_012134' => 'vpl', 'HPP92_025136' => 'vpl', 'HPP92_026087' => 'vpl', 'Hund06782' => 'sun', 'Hund06784' => 'sun', 'Lalb_Chr01g0004861' => 'lal', 'Lalb_Chr02g0140591' => 'lal', 'Lalb_Chr02g0140611' => 'lal', 'Lalb_Chr03g0028101' => 'lal', 'Lalb_Chr07g0185791' => 'lal', 'Lalb_Chr12g0204491' => 'lal', 'Lalb_Chr13g0295671' => 'lal', 'Lalb_Chr19g0136461' => 'lal', 'Lalb_Chr21g0309191' => 'lal', 'Lj1g0028158' => 'lja', 'Lj1P236T38' => 'lonja', 'Lj2C32G2' => 'lonja', 'Lj2P944T8' => 'lonja', 'Lj2P963T15' => 'lonja', 'Lj3g0011788' => 'lja', 'Lj4g0025027' => 'lja', 'Lj5P255T36' => 'lonja', 'Lj6g0018866' => 'lja', 'Lj6P608T31' => 'lonja', 'LjContig00408g0008879' => 'lja', 'Lsat_1_v5_gn_5_105820' => 'lsa', 'Lsat_1_v5_gn_6_38800' => 'lsa', 'Lsat_1_v5_gn_7_67141' => 'lsa', 'Manes.04G003400' => 'mes', 'Manes.07G020000' => 'mes', 'Manes.07G020100' => 'mes', 'Manes.07G020150' => 'mes', 'Manes.10G061500' => 'mes', 'Manes.10G123200' => 'mes', 'Manes.11G161900' => 'mes', 'Manes.15G029300' => 'mes', 'Mapoly0071s0018' => 'mpo', 'Mapoly0082s0023' => 'mpo', 'Mapoly3477s0001' => 'mpo', 'MBI05_g31233_MAGBIO' => 'mbi', 'MBI09_g05946_MAGBIO' => 'mbi', 'MBI09_g05947_MAGBIO' => 'mbi', 'MBI17_g08346_MAGBIO' => 'mbi', 'MCO04G038' => 'mco', 'MCO09G370' => 'mco', 'MCO13G605' => 'mco', 'MD00G1075500' => 'mdo', 'MD03G1144300' => 'mdo', 'MD08G1236800' => 'mdo', 'MD13G1193300' => 'mdo', 'MD15G1428700' => 'mdo', 'Medtr1g112030' => 'mtr', 'Medtr1g112050' => 'mtr', 'Medtr2g006290' => 'mtr', 'Medtr2g086510' => 'mtr', 'Medtr4g053120' => 'mtr', 'Medtr5g006320' => 'mtr', 'Medtr8g088720' => 'mtr', 'MELO3C004712.2' => 'cme', 'MELO3C006533.2' => 'cme', 'MELO3C019438.2' => 'cme', 'MELO3C019440.2' => 'cme', 'MELO3C019441.2' => 'cme', 'MELO3C019895.2' => 'cme', 'Migut.B00811' => 'egut', 'Migut.D02447' => 'egut', 'Migut.F00875' => 'egut', 'Migut.N00186' => 'egut', 'Migut.N01051' => 'egut', 'Migut.N02491' => 'egut', 'Migut.O00784' => 'egut', 'MSTRG.12367' => 'ama', 'MSTRG.18756' => 'ama', 'MSTRG.21042' => 'ama', 'Nitab4.5_0000559g0040' => 'nta', 'Nitab4.5_0000667g0190' => 'nta', 'Nitab4.5_0000755g0160' => 'nta', 'Nitab4.5_0001216g0080' => 'nta', 'Nitab4.5_0004069g0040' => 'nta', 'Nitab4.5_0004129g0010' => 'nta', 'Nitab4.5_0005744g0030' => 'nta', 'Nitab4.5_0006996g0030' => 'nta', 'Nitab4.5_0008971g0040' => 'nta', 'Nitab4.5_0009769g0020' => 'nta', 'Nitab4.5_0009833g0010' => 'nta', 'Nitab4.5_0013140g0020' => 'nta', 'Nn003s41376' => 'nnu', 'Nn1g01857' => 'nnu', 'Nn1g03611' => 'nnu', 'Nn1g06853' => 'nnu', 'Nn3g18360' => 'nnu', 'Nn4g26328' => 'nnu', 'Nn5g27531' => 'nnu', 'Nn6g34899' => 'nnu', 'Nn7g36299' => 'nnu', 'Oeu021485.1' => 'oeu', 'Oeu022433.1' => 'oeu', 'Oeu032111.1' => 'oeu', 'Oeu051608.1' => 'oeu', 'Os01g0860601' => 'osa', 'Os03g0659200' => 'osa', 'Os03g0835900' => 'osa', 'Os04g0412200' => 'osa', 'Os05g0443500' => 'osa', 'Os07g0251500' => 'osa', 'Os08g0104600' => 'osa', 'Peaxi162Scf00003g00047' => 'pax', 'Peaxi162Scf00003g00052' => 'pax', 'Peaxi162Scf00003g00394' => 'pax', 'Peaxi162Scf00091g00621' => 'pax', 'Peaxi162Scf00152g00146' => 'pax', 'Peaxi162Scf00173g00025' => 'pax', 'Peaxi162Scf00195g00102' => 'pax', 'Peaxi162Scf00402g00013' => 'pax', 'Peaxi162Scf00519g00618' => 'pax', 'PGR004G2838' => 'pgr', 'PGR044G2275' => 'pgr', 'PGR102G1377' => 'pgr', 'PGR119G1245' => 'pgr', 'PGR142G4449' => 'pgr', 'PGSC0003DMG400004532' => 'stu', 'PGSC0003DMG400011950' => 'stu', 'PGSC0003DMG400023391' => 'stu', 'PGSC0003DMG400023985' => 'stu', 'PGSC0003DMG400026360' => 'stu', 'PGSC0003DMG400035711' => 'stu', 'PGSC0003DMG400037286' => 'stu', 'PGSC0003DMG402005881' => 'stu', 'Phvul.002G045400' => 'pvu', 'Phvul.006G216600' => 'pvu', 'Phvul.006G216700' => 'pvu', 'Phvul.006G216800' => 'pvu', 'Phvul.007G022500' => 'pvu', 'Phvul.011G094400' => 'pvu', 'Potri.001G470700' => 'ptr', 'Potri.003G015200' => 'ptr', 'Potri.004G202500' => 'ptr', 'Potri.004G218400' => 'ptr', 'Potri.008G020100' => 'ptr', 'Potri.008G153200' => 'ptr', 'Potri.009G163800' => 'ptr', 'Potri.010G087300' => 'ptr', 'Potri.010G239100' => 'ptr', 'Pp3c10_16100' => 'ppa', 'Pp3c10_16880' => 'ppa', 'Pp3c16_6230' => 'ppa', 'Pp3c17_18910' => 'ppa', 'Pp3c3_22119' => 'ppa', 'Pp3c3_22140' => 'ppa', 'Pp3c4_8159' => 'ppa', 'Pp3c4_8171' => 'ppa', 'Pp3c4_8330' => 'ppa', 'PRCOL_00004098' => 'pco', 'Prupe.1G013900' => 'ppe', 'Prupe.1G226300' => 'ppe', 'Prupe.1G573600' => 'ppe', 'Prupe.6G130100' => 'ppe', 'Psat3g090040' => 'psa', 'Psat4g210440' => 'psa', 'Psat6g231040' => 'psa', 'Psat6g231080' => 'psa', 'Psat7g063000' => 'psa', 'Psat7g188000' => 'psa', 'Psat7g188040' => 'psa', 'PSO017G0206' => 'pso', 'PSO170G0501' => 'pso', 'PSO170G6422' => 'pso', 'PSO210G7739' => 'pso', 'PSO339G1808' => 'pso', 'PSO339G6135' => 'pso', 'PSO384G0010' => 'pso', 'PSO384G0964' => 'pso', 'PSO761G0050' => 'pso', 'PSO782G4085' => 'pso', 'QL01p012264' => 'qlo', 'QL02p099491' => 'qlo', 'QL03p033868' => 'qlo', 'QL04p046678' => 'qlo', 'QL06p002448' => 'qlo', 'RcHm_v2.0_Chr4g0416181' => 'rch', 'RcHm_v2.0_Chr5g0044701' => 'rch', 'RcHm_v2.0_Chr6g0265781' => 'rch', 'RcHm_v2.0_Chr7g0221031' => 'rch', 'Rhsim04G0202000' => 'rsi', 'Rhsim11G0127300' => 'rsi', 'Rhsim13G0111800' => 'rsi', 'Sabra01G0165600' => 'sbr', 'Sabra03G0008300' => 'sbr', 'Sabra04G0136900' => 'sbr', 'Sabra08G0013400' => 'sbr', 'Sabra08G0116800' => 'sbr', 'Sabra09G0128000' => 'sbr', 'Sabra10G0055500' => 'sbr', 'Sabra10G0073300' => 'sbr', 'SalBow3G0385' => 'sbo', 'SalBow3G1119' => 'sbo', 'SalBow3G2005' => 'sbo', 'SalBow6G2563' => 'sbo', 'SalBow6G6386' => 'sbo', 'Sc06g0008800' => 'sci', 'Sc07g0004950' => 'sci', 'Sc09g0005340' => 'sci', 'Sc13g0004410' => 'sci', 'Sc21g0007090' => 'sci', 'Sed0009285' => 'sed', 'Sed0017583' => 'sed', 'Sed0019699' => 'sed', 'Sed0023107' => 'sed', 'SEGI_10916' => 'sgi', 'SEGI_16217' => 'sgi', 'SEGI_19466' => 'sgi', 'SEGI_41115' => 'sgi', 'SGA_v2.0_scaffold111G31534' => 'sas', 'SGA_v2.0_scaffold22G09864' => 'sas', 'SGA_v2.0_scaffold338G49219' => 'sas', 'SGA_v2.0_scaffold92G28298' => 'sas', 'SMO119G0064' => 'smo', 'SMO223G0038' => 'smo', 'SMO347G0584' => 'smo', 'SMO351G0010' => 'smo', 'SMO356G0404' => 'smo', 'Solyc01g103920.3' => 'sly', 'Solyc04g009710.2' => 'sly', 'Solyc05g055280.2' => 'sly', 'Solyc10g044520.3' => 'sly', 'Solyc10g075160.1' => 'sly', 'Solyc11g006910.3' => 'sly', 'Solyc11g068430.3' => 'sly', 'Sopen01g046310' => 'spe', 'Sopen03g001200' => 'spe', 'Sopen04g004830' => 'spe', 'Sopen05g033720' => 'spe', 'Sopen06g030740' => 'spe', 'Sopen10g013090' => 'spe', 'Sopen10g027630' => 'spe', 'Sopen10g027640' => 'spe', 'Sopen11g002820' => 'spe', 'Sopen11g027140' => 'spe', 'Sp1g09680' => 'spa', 'Sp2g03630' => 'spa', 'Sp4g10320' => 'spa', 'Sp6g33400' => 'spa', 'Sp7g13030' => 'spa', 'TAR365G0317' => 'tar', 'TAR376G0979' => 'tar', 'TAR623G1665' => 'tar', 'TAR633G2373' => 'tar', 'TAR636G1400' => 'tar', 'THA.LOC104800529' => 'tha', 'THA.LOC104808547' => 'tha', 'THA.LOC104809615' => 'tha', 'THA.LOC104815724' => 'tha', 'THA.LOC104818480' => 'tha', 'THA.LOC104819179' => 'tha', 'THA.LOC104822270' => 'tha', 'THA.LOC104826425' => 'tha', 'Thecc.02G089700' => 'tca', 'Thecc.04G232300' => 'tca', 'Thecc.09G283400' => 'tca', 'Thhalv10009020m.g' => 'esa', 'Thhalv10015506m.g' => 'esa', 'Thhalv10017364m.g' => 'esa', 'Thhalv10023742m.g' => 'esa', 'Thhalv10026483m.g' => 'esa', 'TPR.G17232' => 'tpr', 'TPR.G2133' => 'tpr', 'TPR.G2498' => 'tpr', 'TPR.G31942' => 'tpr', 'TPR.G37877' => 'tpr', 'TPR.G4571' => 'tpr', 'TWI14G1113' => 'twi', 'TWI15G0426' => 'twi', 'TWI31G1005' => 'twi', 'TWI38G0513' => 'twi', 'TWI38G1484' => 'twi', 'TWI73G1098' => 'twi', 'unitig_26.g10519' => 'ugi', 'unitig_736.g22395' => 'ugi', 'unitig_747.g21234' => 'ugi', 'unitig_747.g21942' => 'ugi', 'vmacro14351' => 'vma', 'VMungo0540G0082' => 'vmu', 'VMungo0540G0405' => 'vmu', 'VMungo0540G1486' => 'vmu', 'VMungo0540G1692' => 'vmu', 'VMungo0720G2473' => 'vmu', 'VMungo1127G1562' => 'vmu', 'VMungo1215G1918' => 'vmu', 'Zm00001eb052650' => 'zma', 'Zm00001eb063710' => 'zma', 'Zm00001eb083950' => 'zma', 'Zm00001eb174420' => 'zma', 'Zm00001eb260140' => 'zma', 'Zm00001eb260150' => 'zma', 'Zm00001eb260160' => 'zma', 'Zm00001eb348290' => 'zma', 'Zm00001eb366870' => 'zma', 'Zm00001eb421930' => 'zma' ) $gf_id = 'HOM05D001025' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001025' ) $data_identifier = 'HOM05D001025' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 19, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 2, 'amhyb' => (int) 4, 'aly' => (int) 4, 'aox' => (int) 4, 'arhy' => (int) 3, 'ath' => (int) 5, 'atr' => (int) 4, 'acertr' => (int) 3, 'cqu' => (int) 7, 'bca' => (int) 17, 'bol' => (int) 10, 'bra' => (int) 9, 'can' => (int) 10, 'cansat' => (int) 6, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 5, 'cbr' => (int) 5, 'ccan' => (int) 5, 'cde' => (int) 4, 'cfa' => (int) 3, 'ccl' => (int) 6, 'cil' => (int) 4, 'cla' => (int) 3, 'col' => (int) 3, 'cpa' => (int) 3, 'cre' => (int) 7, 'csa' => (int) 5, 'camsi' => (int) 9, 'dca' => (int) 4, 'din' => (int) 5, 'dzi' => (int) 7, 'eca' => (int) 6, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 12, 'fve' => (int) 4, 'gma' => (int) 12, 'ghi' => (int) 17, 'gra' => (int) 9, 'vvi' => (int) 2, 'han' => (int) 8, 'cav' => (int) 5, 'hma' => (int) 9, 'vpl' => (int) 4, 'sun' => (int) 2, 'lal' => (int) 9, 'lja' => (int) 5, 'lonja' => (int) 6, 'lsa' => (int) 3, 'mes' => (int) 8, 'mpo' => (int) 3, 'mbi' => (int) 4, 'mco' => (int) 3, 'mdo' => (int) 5, 'mtr' => (int) 7, 'cme' => (int) 6, 'egut' => (int) 7, 'ama' => (int) 3, 'nta' => (int) 12, 'nnu' => (int) 9, 'oeu' => (int) 4, 'osa' => (int) 7, 'pax' => (int) 9, 'pgr' => (int) 5, 'stu' => (int) 8, 'pvu' => (int) 6, 'ptr' => (int) 9, 'ppa' => (int) 9, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 7, 'pso' => (int) 10, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 3, 'sbr' => (int) 8, 'sbo' => (int) 5, 'sci' => (int) 5, 'sed' => (int) 4, 'sgi' => (int) 4, 'sas' => (int) 4, 'smo' => (int) 5, 'sly' => (int) 7, 'spe' => (int) 10, 'spa' => (int) 5, 'tar' => (int) 5, 'tha' => (int) 8, 'tca' => (int) 3, 'esa' => (int) 5, 'tpr' => (int) 6, 'twi' => (int) 6, 'ugi' => (int) 4, 'vma' => (int) 1, 'vmu' => (int) 7, 'zma' => (int) 10 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb421930' $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' => 'HOM05D001025', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '592', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p22650' => 'bna', 'A01p29720' => 'bna', 'A03p26560' => 'bna', 'A03p68820' => 'bna', 'A04p20980' => 'bna', 'A06p07730' => 'bna', 'A07p18260' => 'bna', 'A08p33710' => 'bna', 'A09p16970' => 'bna', 'A10p27490' => 'bna', 'Aa31LG1G17300' => 'aar', 'Aa31LG1G3910' => 'aar', 'Aa31LG2G9630' => 'aar', 'Aa31LG5G8360' => 'aar', 'Aa31LG9G2410' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4699' => 'aag', 'Actinidia23512' => 'ach', 'Actinidia37080' => 'ach', 'Ah.01g020380' => 'amhyb', 'Ah.08g215710' => 'amhyb', 'Ah.09g225110' => 'amhyb', 'Ah.10g036680' => 'amhyb', 'AL1G21940' => 'aly', 'AL2G15540' => 'aly', 'AL4G21520' => 'aly', 'AL7G40960' => 'aly', 'Aqoxy2G01191' => 'aox', 'Aqoxy2G03393' => 'aox', 'Aqoxy4G02775' => 'aox', 'Aqoxy6G00058' => 'aox', 'arahy.Tifrunner.gnm1.ann1.9X74H2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CW3FX9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R485W7' => 'arhy', 'AT1G10960' => 'ath', 'AT1G60950' => 'ath', 'AT2G27510' => 'ath', 'AT4G14890' => 'ath', 'AT5G10000' => 'ath', 'ATR0665G624' => 'atr', 'ATR0697G138' => 'atr', 'ATR0776G046' => 'atr', 'ATR1134G135' => 'atr', 'Atru.chr12.1025' => 'acertr', 'Atru.chr3.3241' => 'acertr', 'Atru.chr4.2460' => 'acertr', 'AUR62007427' => 'cqu', 'AUR62010960' => 'cqu', 'AUR62012201' => 'cqu', 'AUR62021470' => 'cqu', 'AUR62022834' => 'cqu', 'AUR62033635' => 'cqu', 'AUR62036186' => 'cqu', 'BcaB01g03077' => 'bca', 'BcaB02g10093' => 'bca', 'BcaB04g20295' => 'bca', 'BcaB06g28147' => 'bca', 'BcaB07g31253' => 'bca', 'BcaC01g04946' => 'bca', 'BcaC02g10614' => 'bca', 'BcaC02g10885' => 'bca', 'BcaC04g19356' => 'bca', 'BcaC04g22297' => 'bca', 'BcaC05g24977' => 'bca', 'BcaC06g31823' => 'bca', 'BcaC07g38633' => 'bca', 'BcaC09g49353' => 'bca', 'BcaC09g50168' => 'bca', 'BcaNung00322' => 'bca', 'BcaNung04769' => 'bca', 'BolC1t02753H' => 'bol', 'BolC1t03721H' => 'bol', 'BolC3t15525H' => 'bol', 'BolC4t23903H' => 'bol', 'BolC4t24231H' => 'bol', 'BolC4t27209H' => 'bol', 'BolC5t29671H' => 'bol', 'BolC8t49044H' => 'bol', 'BolC9t54999H' => 'bol', 'BolC9t59517H' => 'bol', 'BraA01t02178Z' => 'bra', 'BraA01t03099Z' => 'bra', 'BraA03t11867Z' => 'bra', 'BraA04t17667Z' => 'bra', 'BraA07t29542Z' => 'bra', 'BraA08t35287Z' => 'bra', 'BraA09t37334Z' => 'bra', 'BraA10t44801Z' => 'bra', 'BraSC39t46181Z' => 'bra', 'C01p28240' => 'bna', 'C01p37530' => 'bna', 'C03p31820' => 'bna', 'C04p24080' => 'bna', 'C04p25790' => 'bna', 'C04p56770' => 'bna', 'C05p09310' => 'bna', 'C09p21010' => 'bna', 'C09p67560' => 'bna', 'CAN.G1324.7' => 'can', 'CAN.G1358.10' => 'can', 'CAN.G1550.2' => 'can', 'CAN.G186.56' => 'can', 'CAN.G1965.1' => 'can', 'CAN.G645.15' => 'can', 'CAN.G798.26' => 'can', 'CAN.G798.27' => 'can', 'CAN.G798.29' => 'can', 'CAN.G919.31' => 'can', 'CANSAT11G0133' => 'cansat', 'CANSAT11G1171' => 'cansat', 'CANSAT11G2056' => 'cansat', 'CANSAT56G1202' => 'cansat', 'CANSAT56G1514' => 'cansat', 'CANSAT78G0455' => 'cansat', 'CARHR011190' => 'chi', 'CARHR051980' => 'chi', 'CARHR120170' => 'chi', 'CARHR203310' => 'chi', 'CARHR221490' => 'chi', 'Carub.0001s1054' => 'cru', 'Carub.0002s0431' => 'cru', 'Carub.0004s0818' => 'cru', 'Carub.0006s0846' => 'cru', 'Carub.0007s2722' => 'cru', 'Ca_00058_v3' => 'car', 'Ca_17831_v3' => 'car', 'Ca_19408_v3' => 'car', 'Ca_24397_v3' => 'car', 'Ca_25664_v3' => 'car', 'CBR_g21818' => 'cbr', 'CBR_g31195' => 'cbr', 'CBR_g32282' => 'cbr', 'CBR_g39599' => 'cbr', 'CBR_g49410' => 'cbr', 'Cc01_g09120' => 'ccan', 'Cc01_g09130' => 'ccan', 'Cc02_g09630' => 'ccan', 'Cc02_g22810' => 'ccan', 'Cc03_g03810' => 'ccan', 'CDE02G3718' => 'cde', 'CDE04G3183' => 'cde', 'CDE07G1046' => 'cde', 'CDE08G0480' => 'cde', 'Cfa005493' => 'cfa', 'Cfa010312' => 'cfa', 'Cfa015648' => 'cfa', 'Ciclev10002793m.g' => 'ccl', 'Ciclev10003356m.g' => 'ccl', 'Ciclev10006141m.g' => 'ccl', 'Ciclev10016676m.g' => 'ccl', 'Ciclev10017081m.g' => 'ccl', 'Ciclev10029499m.g' => 'ccl', 'CiPaw.01G166300' => 'cil', 'CiPaw.06G145600' => 'cil', 'CiPaw.13G040100' => 'cil', 'CiPaw.13G135800' => 'cil', 'ClCG01G012230' => 'cla', 'ClCG05G009510' => 'cla', 'ClCG08G008270' => 'cla', 'COL.COLO4_11763' => 'col', 'COL.COLO4_19876' => 'col', 'COL.COLO4_21481' => 'col', 'Cpa.g.sc118.34' => 'cpa', 'Cpa.g.sc32.13' => 'cpa', 'Cpa.g.sc58.103' => 'cpa', 'Cre03.g183850' => 'cre', 'Cre06.g306350' => 'cre', 'Cre07.g334800' => 'cre', 'Cre12.g487900' => 'cre', 'Cre14.g626700' => 'cre', 'Cre16.g658400' => 'cre', 'Cre17.g700950' => 'cre', 'CsaV3_1G014830' => 'csa', 'CsaV3_3G013320' => 'csa', 'CsaV3_3G019210' => 'csa', 'CsaV3_3G019220' => 'csa', 'CsaV3_6G004230' => 'csa', 'CSS0003773' => 'camsi', 'CSS0004563' => 'camsi', 'CSS0013949' => 'camsi', 'CSS0025971' => 'camsi', 'CSS0028570' => 'camsi', 'CSS0033127' => 'camsi', 'CSS0036051' => 'camsi', 'CSS0040087' => 'camsi', 'CSS0043179' => 'camsi', 'DCAR_006161' => 'dca', 'DCAR_010351' => 'dca', 'DCAR_012197' => 'dca', 'DCAR_024162' => 'dca', 'Dinv01030' => 'din', 'Dinv10924' => 'din', 'Dinv11835' => 'din', 'Dinv22841' => 'din', 'Dinv42553' => 'din', 'Duzib052G0560' => 'dzi', 'Duzib132G0389' => 'dzi', 'Duzib150G1181' => 'dzi', 'Duzib168G0623' => 'dzi', 'Duzib170G1036' => 'dzi', 'Duzib212G0200' => 'dzi', 'Duzib248G0194' => 'dzi', 'ECA232G2193' => 'eca', 'ECA233G0302' => 'eca', 'ECA234G2813' => 'eca', 'ECA234G4866' => 'eca', 'ECA240G3932' => 'eca', 'ECA248G0385' => 'eca', 'EL10Ac2g04781' => 'bvu', 'EL10Ac3g06445' => 'bvu', 'EL10Ac7g15825' => 'bvu', 'EL10Ac8g18550' => 'bvu', 'Eucgr.B03849' => 'egr', 'Eucgr.I02744' => 'egr', 'Eucgr.J00264' => 'egr', 'Eucgr.J00493' => 'egr', 'FAN04G2181' => 'fan', 'FAN07G2666' => 'fan', 'FAN11G0024' => 'fan', 'FAN12G1105' => 'fan', 'FAN13G0302' => 'fan', 'FAN15G2781' => 'fan', 'FAN16G1274' => 'fan', 'FAN17G2988' => 'fan', 'FAN18G2621' => 'fan', 'FAN21G0013' => 'fan', 'FAN22G1211' => 'fan', 'FAN25G3626' => 'fan', 'FvH4_2g09491' => 'fve', 'FvH4_3g24910' => 'fve', 'FvH4_4g15630' => 'fve', 'FvH4_5g28820' => 'fve', 'Glyma.01G238000' => 'gma', 'Glyma.05G168400' => 'gma', 'Glyma.08G126800' => 'gma', 'Glyma.08G188500' => 'gma', 'Glyma.10G278900' => 'gma', 'Glyma.11G005700' => 'gma', 'Glyma.11G183300' => 'gma', 'Glyma.12G089200' => 'gma', 'Glyma.12G169400' => 'gma', 'Glyma.12G169500' => 'gma', 'Glyma.12G169600' => 'gma', 'Glyma.20G110800' => 'gma', 'Gohir.A03G192900' => 'ghi', 'Gohir.A03G193000' => 'ghi', 'Gohir.A05G080700' => 'ghi', 'Gohir.A09G216000' => 'ghi', 'Gohir.A12G027700' => 'ghi', 'Gohir.A13G036200' => 'ghi', 'Gohir.A13G222600' => 'ghi', 'Gohir.D02G213900' => 'ghi', 'Gohir.D02G214000' => 'ghi', 'Gohir.D05G083700' => 'ghi', 'Gohir.D05G083800' => 'ghi', 'Gohir.D05G083850' => 'ghi', 'Gohir.D08G015400' => 'ghi', 'Gohir.D09G218400' => 'ghi', 'Gohir.D12G027100' => 'ghi', 'Gohir.D13G034500' => 'ghi', 'Gohir.D13G227400' => 'ghi', 'Gorai.005G241800' => 'gra', 'Gorai.005G241900' => 'gra', 'Gorai.006G239400' => 'gra', 'Gorai.008G027600' => 'gra', 'Gorai.009G085400' => 'gra', 'Gorai.009G085500' => 'gra', 'Gorai.013G039000' => 'gra', 'Gorai.013G194800' => 'gra', 'Gorai.013G257900' => 'gra', 'GSVIVG01000982001' => 'vvi', 'GSVIVG01017981001' => 'vvi', 'HanXRQChr01g0024061' => 'han', 'HanXRQChr09g0247831' => 'han', 'HanXRQChr10g0294611' => 'han', 'HanXRQChr10g0294621' => 'han', 'HanXRQChr11g0346821' => 'han', 'HanXRQChr13g0397461' => 'han', 'HanXRQChr16g0513651' => 'han', 'HanXRQChr16g0513701' => 'han', 'Haze_00897' => 'cav', 'Haze_01745' => 'cav', 'Haze_02486' => 'cav', 'Haze_02487' => 'cav', 'Haze_23374' => 'cav', 'Hma1.2p1_0578F.1_g182520' => 'hma', 'Hma1.2p1_0602F.1_g187350' => 'hma', 'Hma1.2p1_0602F.1_g187360' => 'hma', 'Hma1.2p1_0874F.1_g231320' => 'hma', 'Hma1.2p1_1197F.1_g266210' => 'hma', 'Hma1.2p1_1197F.1_g266220' => 'hma', 'Hma1.2p1_2167F.1_g315895' => 'hma', 'Hma1.2p1_2190F.1_g316640' => 'hma', 'Hma1.2p1_3645F.1_g337153' => 'hma', 'HPP92_004907' => 'vpl', 'HPP92_012134' => 'vpl', 'HPP92_025136' => 'vpl', 'HPP92_026087' => 'vpl', 'Hund06782' => 'sun', 'Hund06784' => 'sun', 'Lalb_Chr01g0004861' => 'lal', 'Lalb_Chr02g0140591' => 'lal', 'Lalb_Chr02g0140611' => 'lal', 'Lalb_Chr03g0028101' => 'lal', 'Lalb_Chr07g0185791' => 'lal', 'Lalb_Chr12g0204491' => 'lal', 'Lalb_Chr13g0295671' => 'lal', 'Lalb_Chr19g0136461' => 'lal', 'Lalb_Chr21g0309191' => 'lal', 'Lj1g0028158' => 'lja', 'Lj1P236T38' => 'lonja', 'Lj2C32G2' => 'lonja', 'Lj2P944T8' => 'lonja', 'Lj2P963T15' => 'lonja', 'Lj3g0011788' => 'lja', 'Lj4g0025027' => 'lja', 'Lj5P255T36' => 'lonja', 'Lj6g0018866' => 'lja', 'Lj6P608T31' => 'lonja', 'LjContig00408g0008879' => 'lja', 'Lsat_1_v5_gn_5_105820' => 'lsa', 'Lsat_1_v5_gn_6_38800' => 'lsa', 'Lsat_1_v5_gn_7_67141' => 'lsa', 'Manes.04G003400' => 'mes', 'Manes.07G020000' => 'mes', 'Manes.07G020100' => 'mes', 'Manes.07G020150' => 'mes', 'Manes.10G061500' => 'mes', 'Manes.10G123200' => 'mes', 'Manes.11G161900' => 'mes', 'Manes.15G029300' => 'mes', 'Mapoly0071s0018' => 'mpo', 'Mapoly0082s0023' => 'mpo', 'Mapoly3477s0001' => 'mpo', 'MBI05_g31233_MAGBIO' => 'mbi', 'MBI09_g05946_MAGBIO' => 'mbi', 'MBI09_g05947_MAGBIO' => 'mbi', 'MBI17_g08346_MAGBIO' => 'mbi', 'MCO04G038' => 'mco', 'MCO09G370' => 'mco', 'MCO13G605' => 'mco', 'MD00G1075500' => 'mdo', 'MD03G1144300' => 'mdo', 'MD08G1236800' => 'mdo', 'MD13G1193300' => 'mdo', 'MD15G1428700' => 'mdo', 'Medtr1g112030' => 'mtr', 'Medtr1g112050' => 'mtr', 'Medtr2g006290' => 'mtr', 'Medtr2g086510' => 'mtr', 'Medtr4g053120' => 'mtr', 'Medtr5g006320' => 'mtr', 'Medtr8g088720' => 'mtr', 'MELO3C004712.2' => 'cme', 'MELO3C006533.2' => 'cme', 'MELO3C019438.2' => 'cme', 'MELO3C019440.2' => 'cme', 'MELO3C019441.2' => 'cme', 'MELO3C019895.2' => 'cme', 'Migut.B00811' => 'egut', 'Migut.D02447' => 'egut', 'Migut.F00875' => 'egut', 'Migut.N00186' => 'egut', 'Migut.N01051' => 'egut', 'Migut.N02491' => 'egut', 'Migut.O00784' => 'egut', 'MSTRG.12367' => 'ama', 'MSTRG.18756' => 'ama', 'MSTRG.21042' => 'ama', 'Nitab4.5_0000559g0040' => 'nta', 'Nitab4.5_0000667g0190' => 'nta', 'Nitab4.5_0000755g0160' => 'nta', 'Nitab4.5_0001216g0080' => 'nta', 'Nitab4.5_0004069g0040' => 'nta', 'Nitab4.5_0004129g0010' => 'nta', 'Nitab4.5_0005744g0030' => 'nta', 'Nitab4.5_0006996g0030' => 'nta', 'Nitab4.5_0008971g0040' => 'nta', 'Nitab4.5_0009769g0020' => 'nta', 'Nitab4.5_0009833g0010' => 'nta', 'Nitab4.5_0013140g0020' => 'nta', 'Nn003s41376' => 'nnu', 'Nn1g01857' => 'nnu', 'Nn1g03611' => 'nnu', 'Nn1g06853' => 'nnu', 'Nn3g18360' => 'nnu', 'Nn4g26328' => 'nnu', 'Nn5g27531' => 'nnu', 'Nn6g34899' => 'nnu', 'Nn7g36299' => 'nnu', 'Oeu021485.1' => 'oeu', 'Oeu022433.1' => 'oeu', 'Oeu032111.1' => 'oeu', 'Oeu051608.1' => 'oeu', 'Os01g0860601' => 'osa', 'Os03g0659200' => 'osa', 'Os03g0835900' => 'osa', 'Os04g0412200' => 'osa', 'Os05g0443500' => 'osa', 'Os07g0251500' => 'osa', 'Os08g0104600' => 'osa', 'Peaxi162Scf00003g00047' => 'pax', 'Peaxi162Scf00003g00052' => 'pax', 'Peaxi162Scf00003g00394' => 'pax', 'Peaxi162Scf00091g00621' => 'pax', 'Peaxi162Scf00152g00146' => 'pax', 'Peaxi162Scf00173g00025' => 'pax', 'Peaxi162Scf00195g00102' => 'pax', 'Peaxi162Scf00402g00013' => 'pax', 'Peaxi162Scf00519g00618' => 'pax', 'PGR004G2838' => 'pgr', 'PGR044G2275' => 'pgr', 'PGR102G1377' => 'pgr', 'PGR119G1245' => 'pgr', 'PGR142G4449' => 'pgr', 'PGSC0003DMG400004532' => 'stu', 'PGSC0003DMG400011950' => 'stu', 'PGSC0003DMG400023391' => 'stu', 'PGSC0003DMG400023985' => 'stu', 'PGSC0003DMG400026360' => 'stu', 'PGSC0003DMG400035711' => 'stu', 'PGSC0003DMG400037286' => 'stu', 'PGSC0003DMG402005881' => 'stu', 'Phvul.002G045400' => 'pvu', 'Phvul.006G216600' => 'pvu', 'Phvul.006G216700' => 'pvu', 'Phvul.006G216800' => 'pvu', 'Phvul.007G022500' => 'pvu', 'Phvul.011G094400' => 'pvu', 'Potri.001G470700' => 'ptr', 'Potri.003G015200' => 'ptr', 'Potri.004G202500' => 'ptr', 'Potri.004G218400' => 'ptr', 'Potri.008G020100' => 'ptr', 'Potri.008G153200' => 'ptr', 'Potri.009G163800' => 'ptr', 'Potri.010G087300' => 'ptr', 'Potri.010G239100' => 'ptr', 'Pp3c10_16100' => 'ppa', 'Pp3c10_16880' => 'ppa', 'Pp3c16_6230' => 'ppa', 'Pp3c17_18910' => 'ppa', 'Pp3c3_22119' => 'ppa', 'Pp3c3_22140' => 'ppa', 'Pp3c4_8159' => 'ppa', 'Pp3c4_8171' => 'ppa', 'Pp3c4_8330' => 'ppa', 'PRCOL_00004098' => 'pco', 'Prupe.1G013900' => 'ppe', 'Prupe.1G226300' => 'ppe', 'Prupe.1G573600' => 'ppe', 'Prupe.6G130100' => 'ppe', 'Psat3g090040' => 'psa', 'Psat4g210440' => 'psa', 'Psat6g231040' => 'psa', 'Psat6g231080' => 'psa', 'Psat7g063000' => 'psa', 'Psat7g188000' => 'psa', 'Psat7g188040' => 'psa', 'PSO017G0206' => 'pso', 'PSO170G0501' => 'pso', 'PSO170G6422' => 'pso', 'PSO210G7739' => 'pso', 'PSO339G1808' => 'pso', 'PSO339G6135' => 'pso', 'PSO384G0010' => 'pso', 'PSO384G0964' => 'pso', 'PSO761G0050' => 'pso', 'PSO782G4085' => 'pso', 'QL01p012264' => 'qlo', 'QL02p099491' => 'qlo', 'QL03p033868' => 'qlo', 'QL04p046678' => 'qlo', 'QL06p002448' => 'qlo', 'RcHm_v2.0_Chr4g0416181' => 'rch', 'RcHm_v2.0_Chr5g0044701' => 'rch', 'RcHm_v2.0_Chr6g0265781' => 'rch', 'RcHm_v2.0_Chr7g0221031' => 'rch', 'Rhsim04G0202000' => 'rsi', 'Rhsim11G0127300' => 'rsi', 'Rhsim13G0111800' => 'rsi', 'Sabra01G0165600' => 'sbr', 'Sabra03G0008300' => 'sbr', 'Sabra04G0136900' => 'sbr', 'Sabra08G0013400' => 'sbr', 'Sabra08G0116800' => 'sbr', 'Sabra09G0128000' => 'sbr', 'Sabra10G0055500' => 'sbr', 'Sabra10G0073300' => 'sbr', 'SalBow3G0385' => 'sbo', 'SalBow3G1119' => 'sbo', 'SalBow3G2005' => 'sbo', 'SalBow6G2563' => 'sbo', 'SalBow6G6386' => 'sbo', 'Sc06g0008800' => 'sci', 'Sc07g0004950' => 'sci', 'Sc09g0005340' => 'sci', 'Sc13g0004410' => 'sci', 'Sc21g0007090' => 'sci', 'Sed0009285' => 'sed', 'Sed0017583' => 'sed', 'Sed0019699' => 'sed', 'Sed0023107' => 'sed', 'SEGI_10916' => 'sgi', 'SEGI_16217' => 'sgi', 'SEGI_19466' => 'sgi', 'SEGI_41115' => 'sgi', 'SGA_v2.0_scaffold111G31534' => 'sas', 'SGA_v2.0_scaffold22G09864' => 'sas', 'SGA_v2.0_scaffold338G49219' => 'sas', 'SGA_v2.0_scaffold92G28298' => 'sas', 'SMO119G0064' => 'smo', 'SMO223G0038' => 'smo', 'SMO347G0584' => 'smo', 'SMO351G0010' => 'smo', 'SMO356G0404' => 'smo', 'Solyc01g103920.3' => 'sly', 'Solyc04g009710.2' => 'sly', 'Solyc05g055280.2' => 'sly', 'Solyc10g044520.3' => 'sly', 'Solyc10g075160.1' => 'sly', 'Solyc11g006910.3' => 'sly', 'Solyc11g068430.3' => 'sly', 'Sopen01g046310' => 'spe', 'Sopen03g001200' => 'spe', 'Sopen04g004830' => 'spe', 'Sopen05g033720' => 'spe', 'Sopen06g030740' => 'spe', 'Sopen10g013090' => 'spe', 'Sopen10g027630' => 'spe', 'Sopen10g027640' => 'spe', 'Sopen11g002820' => 'spe', 'Sopen11g027140' => 'spe', 'Sp1g09680' => 'spa', 'Sp2g03630' => 'spa', 'Sp4g10320' => 'spa', 'Sp6g33400' => 'spa', 'Sp7g13030' => 'spa', 'TAR365G0317' => 'tar', 'TAR376G0979' => 'tar', 'TAR623G1665' => 'tar', 'TAR633G2373' => 'tar', 'TAR636G1400' => 'tar', 'THA.LOC104800529' => 'tha', 'THA.LOC104808547' => 'tha', 'THA.LOC104809615' => 'tha', 'THA.LOC104815724' => 'tha', 'THA.LOC104818480' => 'tha', 'THA.LOC104819179' => 'tha', 'THA.LOC104822270' => 'tha', 'THA.LOC104826425' => 'tha', 'Thecc.02G089700' => 'tca', 'Thecc.04G232300' => 'tca', 'Thecc.09G283400' => 'tca', 'Thhalv10009020m.g' => 'esa', 'Thhalv10015506m.g' => 'esa', 'Thhalv10017364m.g' => 'esa', 'Thhalv10023742m.g' => 'esa', 'Thhalv10026483m.g' => 'esa', 'TPR.G17232' => 'tpr', 'TPR.G2133' => 'tpr', 'TPR.G2498' => 'tpr', 'TPR.G31942' => 'tpr', 'TPR.G37877' => 'tpr', 'TPR.G4571' => 'tpr', 'TWI14G1113' => 'twi', 'TWI15G0426' => 'twi', 'TWI31G1005' => 'twi', 'TWI38G0513' => 'twi', 'TWI38G1484' => 'twi', 'TWI73G1098' => 'twi', 'unitig_26.g10519' => 'ugi', 'unitig_736.g22395' => 'ugi', 'unitig_747.g21234' => 'ugi', 'unitig_747.g21942' => 'ugi', 'vmacro14351' => 'vma', 'VMungo0540G0082' => 'vmu', 'VMungo0540G0405' => 'vmu', 'VMungo0540G1486' => 'vmu', 'VMungo0540G1692' => 'vmu', 'VMungo0720G2473' => 'vmu', 'VMungo1127G1562' => 'vmu', 'VMungo1215G1918' => 'vmu', 'Zm00001eb052650' => 'zma', 'Zm00001eb063710' => 'zma', 'Zm00001eb083950' => 'zma', 'Zm00001eb174420' => 'zma', 'Zm00001eb260140' => 'zma', 'Zm00001eb260150' => 'zma', 'Zm00001eb260160' => 'zma', 'Zm00001eb348290' => 'zma', 'Zm00001eb366870' => 'zma', 'Zm00001eb421930' => 'zma' ), 'gf_id' => 'HOM05D001025', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001025' ), 'data_identifier' => 'HOM05D001025', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001025', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '592', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p22650' => 'bna', 'A01p29720' => 'bna', 'A03p26560' => 'bna', 'A03p68820' => 'bna', 'A04p20980' => 'bna', 'A06p07730' => 'bna', 'A07p18260' => 'bna', 'A08p33710' => 'bna', 'A09p16970' => 'bna', 'A10p27490' => 'bna', 'Aa31LG1G17300' => 'aar', 'Aa31LG1G3910' => 'aar', 'Aa31LG2G9630' => 'aar', 'Aa31LG5G8360' => 'aar', 'Aa31LG9G2410' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4699' => 'aag', 'Actinidia23512' => 'ach', 'Actinidia37080' => 'ach', 'Ah.01g020380' => 'amhyb', 'Ah.08g215710' => 'amhyb', 'Ah.09g225110' => 'amhyb', 'Ah.10g036680' => 'amhyb', 'AL1G21940' => 'aly', 'AL2G15540' => 'aly', 'AL4G21520' => 'aly', 'AL7G40960' => 'aly', 'Aqoxy2G01191' => 'aox', 'Aqoxy2G03393' => 'aox', 'Aqoxy4G02775' => 'aox', 'Aqoxy6G00058' => 'aox', 'arahy.Tifrunner.gnm1.ann1.9X74H2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CW3FX9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R485W7' => 'arhy', 'AT1G10960' => 'ath', 'AT1G60950' => 'ath', 'AT2G27510' => 'ath', 'AT4G14890' => 'ath', 'AT5G10000' => 'ath', 'ATR0665G624' => 'atr', 'ATR0697G138' => 'atr', 'ATR0776G046' => 'atr', 'ATR1134G135' => 'atr', 'Atru.chr12.1025' => 'acertr', 'Atru.chr3.3241' => 'acertr', 'Atru.chr4.2460' => 'acertr', 'AUR62007427' => 'cqu', 'AUR62010960' => 'cqu', 'AUR62012201' => 'cqu', 'AUR62021470' => 'cqu', 'AUR62022834' => 'cqu', 'AUR62033635' => 'cqu', 'AUR62036186' => 'cqu', 'BcaB01g03077' => 'bca', 'BcaB02g10093' => 'bca', 'BcaB04g20295' => 'bca', 'BcaB06g28147' => 'bca', 'BcaB07g31253' => 'bca', 'BcaC01g04946' => 'bca', 'BcaC02g10614' => 'bca', 'BcaC02g10885' => 'bca', 'BcaC04g19356' => 'bca', 'BcaC04g22297' => 'bca', 'BcaC05g24977' => 'bca', 'BcaC06g31823' => 'bca', 'BcaC07g38633' => 'bca', 'BcaC09g49353' => 'bca', 'BcaC09g50168' => 'bca', 'BcaNung00322' => 'bca', 'BcaNung04769' => 'bca', 'BolC1t02753H' => 'bol', 'BolC1t03721H' => 'bol', 'BolC3t15525H' => 'bol', 'BolC4t23903H' => 'bol', 'BolC4t24231H' => 'bol', 'BolC4t27209H' => 'bol', 'BolC5t29671H' => 'bol', 'BolC8t49044H' => 'bol', 'BolC9t54999H' => 'bol', 'BolC9t59517H' => 'bol', 'BraA01t02178Z' => 'bra', 'BraA01t03099Z' => 'bra', 'BraA03t11867Z' => 'bra', 'BraA04t17667Z' => 'bra', 'BraA07t29542Z' => 'bra', 'BraA08t35287Z' => 'bra', 'BraA09t37334Z' => 'bra', 'BraA10t44801Z' => 'bra', 'BraSC39t46181Z' => 'bra', 'C01p28240' => 'bna', 'C01p37530' => 'bna', 'C03p31820' => 'bna', 'C04p24080' => 'bna', 'C04p25790' => 'bna', 'C04p56770' => 'bna', 'C05p09310' => 'bna', 'C09p21010' => 'bna', 'C09p67560' => 'bna', 'CAN.G1324.7' => 'can', 'CAN.G1358.10' => 'can', 'CAN.G1550.2' => 'can', 'CAN.G186.56' => 'can', 'CAN.G1965.1' => 'can', 'CAN.G645.15' => 'can', 'CAN.G798.26' => 'can', 'CAN.G798.27' => 'can', 'CAN.G798.29' => 'can', 'CAN.G919.31' => 'can', 'CANSAT11G0133' => 'cansat', 'CANSAT11G1171' => 'cansat', 'CANSAT11G2056' => 'cansat', 'CANSAT56G1202' => 'cansat', 'CANSAT56G1514' => 'cansat', 'CANSAT78G0455' => 'cansat', 'CARHR011190' => 'chi', 'CARHR051980' => 'chi', 'CARHR120170' => 'chi', 'CARHR203310' => 'chi', 'CARHR221490' => 'chi', 'Carub.0001s1054' => 'cru', 'Carub.0002s0431' => 'cru', 'Carub.0004s0818' => 'cru', 'Carub.0006s0846' => 'cru', 'Carub.0007s2722' => 'cru', 'Ca_00058_v3' => 'car', 'Ca_17831_v3' => 'car', 'Ca_19408_v3' => 'car', 'Ca_24397_v3' => 'car', 'Ca_25664_v3' => 'car', 'CBR_g21818' => 'cbr', 'CBR_g31195' => 'cbr', 'CBR_g32282' => 'cbr', 'CBR_g39599' => 'cbr', 'CBR_g49410' => 'cbr', 'Cc01_g09120' => 'ccan', 'Cc01_g09130' => 'ccan', 'Cc02_g09630' => 'ccan', 'Cc02_g22810' => 'ccan', 'Cc03_g03810' => 'ccan', 'CDE02G3718' => 'cde', 'CDE04G3183' => 'cde', 'CDE07G1046' => 'cde', 'CDE08G0480' => 'cde', 'Cfa005493' => 'cfa', 'Cfa010312' => 'cfa', 'Cfa015648' => 'cfa', 'Ciclev10002793m.g' => 'ccl', 'Ciclev10003356m.g' => 'ccl', 'Ciclev10006141m.g' => 'ccl', 'Ciclev10016676m.g' => 'ccl', 'Ciclev10017081m.g' => 'ccl', 'Ciclev10029499m.g' => 'ccl', 'CiPaw.01G166300' => 'cil', 'CiPaw.06G145600' => 'cil', 'CiPaw.13G040100' => 'cil', 'CiPaw.13G135800' => 'cil', 'ClCG01G012230' => 'cla', 'ClCG05G009510' => 'cla', 'ClCG08G008270' => 'cla', 'COL.COLO4_11763' => 'col', 'COL.COLO4_19876' => 'col', 'COL.COLO4_21481' => 'col', 'Cpa.g.sc118.34' => 'cpa', 'Cpa.g.sc32.13' => 'cpa', 'Cpa.g.sc58.103' => 'cpa', 'Cre03.g183850' => 'cre', 'Cre06.g306350' => 'cre', 'Cre07.g334800' => 'cre', 'Cre12.g487900' => 'cre', 'Cre14.g626700' => 'cre', 'Cre16.g658400' => 'cre', 'Cre17.g700950' => 'cre', 'CsaV3_1G014830' => 'csa', 'CsaV3_3G013320' => 'csa', 'CsaV3_3G019210' => 'csa', 'CsaV3_3G019220' => 'csa', 'CsaV3_6G004230' => 'csa', 'CSS0003773' => 'camsi', 'CSS0004563' => 'camsi', 'CSS0013949' => 'camsi', 'CSS0025971' => 'camsi', 'CSS0028570' => 'camsi', 'CSS0033127' => 'camsi', 'CSS0036051' => 'camsi', 'CSS0040087' => 'camsi', 'CSS0043179' => 'camsi', 'DCAR_006161' => 'dca', 'DCAR_010351' => 'dca', 'DCAR_012197' => 'dca', 'DCAR_024162' => 'dca', 'Dinv01030' => 'din', 'Dinv10924' => 'din', 'Dinv11835' => 'din', 'Dinv22841' => 'din', 'Dinv42553' => 'din', 'Duzib052G0560' => 'dzi', 'Duzib132G0389' => 'dzi', 'Duzib150G1181' => 'dzi', 'Duzib168G0623' => 'dzi', 'Duzib170G1036' => 'dzi', 'Duzib212G0200' => 'dzi', 'Duzib248G0194' => 'dzi', 'ECA232G2193' => 'eca', 'ECA233G0302' => 'eca', 'ECA234G2813' => 'eca', 'ECA234G4866' => 'eca', 'ECA240G3932' => 'eca', 'ECA248G0385' => 'eca', 'EL10Ac2g04781' => 'bvu', 'EL10Ac3g06445' => 'bvu', 'EL10Ac7g15825' => 'bvu', 'EL10Ac8g18550' => 'bvu', 'Eucgr.B03849' => 'egr', 'Eucgr.I02744' => 'egr', 'Eucgr.J00264' => 'egr', 'Eucgr.J00493' => 'egr', 'FAN04G2181' => 'fan', 'FAN07G2666' => 'fan', 'FAN11G0024' => 'fan', 'FAN12G1105' => 'fan', 'FAN13G0302' => 'fan', 'FAN15G2781' => 'fan', 'FAN16G1274' => 'fan', 'FAN17G2988' => 'fan', 'FAN18G2621' => 'fan', 'FAN21G0013' => 'fan', 'FAN22G1211' => 'fan', 'FAN25G3626' => 'fan', 'FvH4_2g09491' => 'fve', 'FvH4_3g24910' => 'fve', 'FvH4_4g15630' => 'fve', 'FvH4_5g28820' => 'fve', 'Glyma.01G238000' => 'gma', 'Glyma.05G168400' => 'gma', 'Glyma.08G126800' => 'gma', 'Glyma.08G188500' => 'gma', 'Glyma.10G278900' => 'gma', 'Glyma.11G005700' => 'gma', 'Glyma.11G183300' => 'gma', 'Glyma.12G089200' => 'gma', 'Glyma.12G169400' => 'gma', 'Glyma.12G169500' => 'gma', 'Glyma.12G169600' => 'gma', 'Glyma.20G110800' => 'gma', 'Gohir.A03G192900' => 'ghi', 'Gohir.A03G193000' => 'ghi', 'Gohir.A05G080700' => 'ghi', 'Gohir.A09G216000' => 'ghi', 'Gohir.A12G027700' => 'ghi', 'Gohir.A13G036200' => 'ghi', 'Gohir.A13G222600' => 'ghi', 'Gohir.D02G213900' => 'ghi', 'Gohir.D02G214000' => 'ghi', 'Gohir.D05G083700' => 'ghi', 'Gohir.D05G083800' => 'ghi', 'Gohir.D05G083850' => 'ghi', 'Gohir.D08G015400' => 'ghi', 'Gohir.D09G218400' => 'ghi', 'Gohir.D12G027100' => 'ghi', 'Gohir.D13G034500' => 'ghi', 'Gohir.D13G227400' => 'ghi', 'Gorai.005G241800' => 'gra', 'Gorai.005G241900' => 'gra', 'Gorai.006G239400' => 'gra', 'Gorai.008G027600' => 'gra', 'Gorai.009G085400' => 'gra', 'Gorai.009G085500' => 'gra', 'Gorai.013G039000' => 'gra', 'Gorai.013G194800' => 'gra', 'Gorai.013G257900' => 'gra', 'GSVIVG01000982001' => 'vvi', 'GSVIVG01017981001' => 'vvi', 'HanXRQChr01g0024061' => 'han', 'HanXRQChr09g0247831' => 'han', 'HanXRQChr10g0294611' => 'han', 'HanXRQChr10g0294621' => 'han', 'HanXRQChr11g0346821' => 'han', 'HanXRQChr13g0397461' => 'han', 'HanXRQChr16g0513651' => 'han', 'HanXRQChr16g0513701' => 'han', 'Haze_00897' => 'cav', 'Haze_01745' => 'cav', 'Haze_02486' => 'cav', 'Haze_02487' => 'cav', 'Haze_23374' => 'cav', 'Hma1.2p1_0578F.1_g182520' => 'hma', 'Hma1.2p1_0602F.1_g187350' => 'hma', 'Hma1.2p1_0602F.1_g187360' => 'hma', 'Hma1.2p1_0874F.1_g231320' => 'hma', 'Hma1.2p1_1197F.1_g266210' => 'hma', 'Hma1.2p1_1197F.1_g266220' => 'hma', 'Hma1.2p1_2167F.1_g315895' => 'hma', 'Hma1.2p1_2190F.1_g316640' => 'hma', 'Hma1.2p1_3645F.1_g337153' => 'hma', 'HPP92_004907' => 'vpl', 'HPP92_012134' => 'vpl', 'HPP92_025136' => 'vpl', 'HPP92_026087' => 'vpl', 'Hund06782' => 'sun', 'Hund06784' => 'sun', 'Lalb_Chr01g0004861' => 'lal', 'Lalb_Chr02g0140591' => 'lal', 'Lalb_Chr02g0140611' => 'lal', 'Lalb_Chr03g0028101' => 'lal', 'Lalb_Chr07g0185791' => 'lal', 'Lalb_Chr12g0204491' => 'lal', 'Lalb_Chr13g0295671' => 'lal', 'Lalb_Chr19g0136461' => 'lal', 'Lalb_Chr21g0309191' => 'lal', 'Lj1g0028158' => 'lja', 'Lj1P236T38' => 'lonja', 'Lj2C32G2' => 'lonja', 'Lj2P944T8' => 'lonja', 'Lj2P963T15' => 'lonja', 'Lj3g0011788' => 'lja', 'Lj4g0025027' => 'lja', 'Lj5P255T36' => 'lonja', 'Lj6g0018866' => 'lja', 'Lj6P608T31' => 'lonja', 'LjContig00408g0008879' => 'lja', 'Lsat_1_v5_gn_5_105820' => 'lsa', 'Lsat_1_v5_gn_6_38800' => 'lsa', 'Lsat_1_v5_gn_7_67141' => 'lsa', 'Manes.04G003400' => 'mes', 'Manes.07G020000' => 'mes', 'Manes.07G020100' => 'mes', 'Manes.07G020150' => 'mes', 'Manes.10G061500' => 'mes', 'Manes.10G123200' => 'mes', 'Manes.11G161900' => 'mes', 'Manes.15G029300' => 'mes', 'Mapoly0071s0018' => 'mpo', 'Mapoly0082s0023' => 'mpo', 'Mapoly3477s0001' => 'mpo', 'MBI05_g31233_MAGBIO' => 'mbi', 'MBI09_g05946_MAGBIO' => 'mbi', 'MBI09_g05947_MAGBIO' => 'mbi', 'MBI17_g08346_MAGBIO' => 'mbi', 'MCO04G038' => 'mco', 'MCO09G370' => 'mco', 'MCO13G605' => 'mco', 'MD00G1075500' => 'mdo', 'MD03G1144300' => 'mdo', 'MD08G1236800' => 'mdo', 'MD13G1193300' => 'mdo', 'MD15G1428700' => 'mdo', 'Medtr1g112030' => 'mtr', 'Medtr1g112050' => 'mtr', 'Medtr2g006290' => 'mtr', 'Medtr2g086510' => 'mtr', 'Medtr4g053120' => 'mtr', 'Medtr5g006320' => 'mtr', 'Medtr8g088720' => 'mtr', 'MELO3C004712.2' => 'cme', 'MELO3C006533.2' => 'cme', 'MELO3C019438.2' => 'cme', 'MELO3C019440.2' => 'cme', 'MELO3C019441.2' => 'cme', 'MELO3C019895.2' => 'cme', 'Migut.B00811' => 'egut', 'Migut.D02447' => 'egut', 'Migut.F00875' => 'egut', 'Migut.N00186' => 'egut', 'Migut.N01051' => 'egut', 'Migut.N02491' => 'egut', 'Migut.O00784' => 'egut', 'MSTRG.12367' => 'ama', 'MSTRG.18756' => 'ama', 'MSTRG.21042' => 'ama', 'Nitab4.5_0000559g0040' => 'nta', 'Nitab4.5_0000667g0190' => 'nta', 'Nitab4.5_0000755g0160' => 'nta', 'Nitab4.5_0001216g0080' => 'nta', 'Nitab4.5_0004069g0040' => 'nta', 'Nitab4.5_0004129g0010' => 'nta', 'Nitab4.5_0005744g0030' => 'nta', 'Nitab4.5_0006996g0030' => 'nta', 'Nitab4.5_0008971g0040' => 'nta', 'Nitab4.5_0009769g0020' => 'nta', 'Nitab4.5_0009833g0010' => 'nta', 'Nitab4.5_0013140g0020' => 'nta', 'Nn003s41376' => 'nnu', 'Nn1g01857' => 'nnu', 'Nn1g03611' => 'nnu', 'Nn1g06853' => 'nnu', 'Nn3g18360' => 'nnu', 'Nn4g26328' => 'nnu', 'Nn5g27531' => 'nnu', 'Nn6g34899' => 'nnu', 'Nn7g36299' => 'nnu', 'Oeu021485.1' => 'oeu', 'Oeu022433.1' => 'oeu', 'Oeu032111.1' => 'oeu', 'Oeu051608.1' => 'oeu', 'Os01g0860601' => 'osa', 'Os03g0659200' => 'osa', 'Os03g0835900' => 'osa', 'Os04g0412200' => 'osa', 'Os05g0443500' => 'osa', 'Os07g0251500' => 'osa', 'Os08g0104600' => 'osa', 'Peaxi162Scf00003g00047' => 'pax', 'Peaxi162Scf00003g00052' => 'pax', 'Peaxi162Scf00003g00394' => 'pax', 'Peaxi162Scf00091g00621' => 'pax', 'Peaxi162Scf00152g00146' => 'pax', 'Peaxi162Scf00173g00025' => 'pax', 'Peaxi162Scf00195g00102' => 'pax', 'Peaxi162Scf00402g00013' => 'pax', 'Peaxi162Scf00519g00618' => 'pax', 'PGR004G2838' => 'pgr', 'PGR044G2275' => 'pgr', 'PGR102G1377' => 'pgr', 'PGR119G1245' => 'pgr', 'PGR142G4449' => 'pgr', 'PGSC0003DMG400004532' => 'stu', 'PGSC0003DMG400011950' => 'stu', 'PGSC0003DMG400023391' => 'stu', 'PGSC0003DMG400023985' => 'stu', 'PGSC0003DMG400026360' => 'stu', 'PGSC0003DMG400035711' => 'stu', 'PGSC0003DMG400037286' => 'stu', 'PGSC0003DMG402005881' => 'stu', 'Phvul.002G045400' => 'pvu', 'Phvul.006G216600' => 'pvu', 'Phvul.006G216700' => 'pvu', 'Phvul.006G216800' => 'pvu', 'Phvul.007G022500' => 'pvu', 'Phvul.011G094400' => 'pvu', 'Potri.001G470700' => 'ptr', 'Potri.003G015200' => 'ptr', 'Potri.004G202500' => 'ptr', 'Potri.004G218400' => 'ptr', 'Potri.008G020100' => 'ptr', 'Potri.008G153200' => 'ptr', 'Potri.009G163800' => 'ptr', 'Potri.010G087300' => 'ptr', 'Potri.010G239100' => 'ptr', 'Pp3c10_16100' => 'ppa', 'Pp3c10_16880' => 'ppa', 'Pp3c16_6230' => 'ppa', 'Pp3c17_18910' => 'ppa', 'Pp3c3_22119' => 'ppa', 'Pp3c3_22140' => 'ppa', 'Pp3c4_8159' => 'ppa', 'Pp3c4_8171' => 'ppa', 'Pp3c4_8330' => 'ppa', 'PRCOL_00004098' => 'pco', 'Prupe.1G013900' => 'ppe', 'Prupe.1G226300' => 'ppe', 'Prupe.1G573600' => 'ppe', 'Prupe.6G130100' => 'ppe', 'Psat3g090040' => 'psa', 'Psat4g210440' => 'psa', 'Psat6g231040' => 'psa', 'Psat6g231080' => 'psa', 'Psat7g063000' => 'psa', 'Psat7g188000' => 'psa', 'Psat7g188040' => 'psa', 'PSO017G0206' => 'pso', 'PSO170G0501' => 'pso', 'PSO170G6422' => 'pso', 'PSO210G7739' => 'pso', 'PSO339G1808' => 'pso', 'PSO339G6135' => 'pso', 'PSO384G0010' => 'pso', 'PSO384G0964' => 'pso', 'PSO761G0050' => 'pso', 'PSO782G4085' => 'pso', 'QL01p012264' => 'qlo', 'QL02p099491' => 'qlo', 'QL03p033868' => 'qlo', 'QL04p046678' => 'qlo', 'QL06p002448' => 'qlo', 'RcHm_v2.0_Chr4g0416181' => 'rch', 'RcHm_v2.0_Chr5g0044701' => 'rch', 'RcHm_v2.0_Chr6g0265781' => 'rch', 'RcHm_v2.0_Chr7g0221031' => 'rch', 'Rhsim04G0202000' => 'rsi', 'Rhsim11G0127300' => 'rsi', 'Rhsim13G0111800' => 'rsi', 'Sabra01G0165600' => 'sbr', 'Sabra03G0008300' => 'sbr', 'Sabra04G0136900' => 'sbr', 'Sabra08G0013400' => 'sbr', 'Sabra08G0116800' => 'sbr', 'Sabra09G0128000' => 'sbr', 'Sabra10G0055500' => 'sbr', 'Sabra10G0073300' => 'sbr', 'SalBow3G0385' => 'sbo', 'SalBow3G1119' => 'sbo', 'SalBow3G2005' => 'sbo', 'SalBow6G2563' => 'sbo', 'SalBow6G6386' => 'sbo', 'Sc06g0008800' => 'sci', 'Sc07g0004950' => 'sci', 'Sc09g0005340' => 'sci', 'Sc13g0004410' => 'sci', 'Sc21g0007090' => 'sci', 'Sed0009285' => 'sed', 'Sed0017583' => 'sed', 'Sed0019699' => 'sed', 'Sed0023107' => 'sed', 'SEGI_10916' => 'sgi', 'SEGI_16217' => 'sgi', 'SEGI_19466' => 'sgi', 'SEGI_41115' => 'sgi', 'SGA_v2.0_scaffold111G31534' => 'sas', 'SGA_v2.0_scaffold22G09864' => 'sas', 'SGA_v2.0_scaffold338G49219' => 'sas', 'SGA_v2.0_scaffold92G28298' => 'sas', 'SMO119G0064' => 'smo', 'SMO223G0038' => 'smo', 'SMO347G0584' => 'smo', 'SMO351G0010' => 'smo', 'SMO356G0404' => 'smo', 'Solyc01g103920.3' => 'sly', 'Solyc04g009710.2' => 'sly', 'Solyc05g055280.2' => 'sly', 'Solyc10g044520.3' => 'sly', 'Solyc10g075160.1' => 'sly', 'Solyc11g006910.3' => 'sly', 'Solyc11g068430.3' => 'sly', 'Sopen01g046310' => 'spe', 'Sopen03g001200' => 'spe', 'Sopen04g004830' => 'spe', 'Sopen05g033720' => 'spe', 'Sopen06g030740' => 'spe', 'Sopen10g013090' => 'spe', 'Sopen10g027630' => 'spe', 'Sopen10g027640' => 'spe', 'Sopen11g002820' => 'spe', 'Sopen11g027140' => 'spe', 'Sp1g09680' => 'spa', 'Sp2g03630' => 'spa', 'Sp4g10320' => 'spa', 'Sp6g33400' => 'spa', 'Sp7g13030' => 'spa', 'TAR365G0317' => 'tar', 'TAR376G0979' => 'tar', 'TAR623G1665' => 'tar', 'TAR633G2373' => 'tar', 'TAR636G1400' => 'tar', 'THA.LOC104800529' => 'tha', 'THA.LOC104808547' => 'tha', 'THA.LOC104809615' => 'tha', 'THA.LOC104815724' => 'tha', 'THA.LOC104818480' => 'tha', 'THA.LOC104819179' => 'tha', 'THA.LOC104822270' => 'tha', 'THA.LOC104826425' => 'tha', 'Thecc.02G089700' => 'tca', 'Thecc.04G232300' => 'tca', 'Thecc.09G283400' => 'tca', 'Thhalv10009020m.g' => 'esa', 'Thhalv10015506m.g' => 'esa', 'Thhalv10017364m.g' => 'esa', 'Thhalv10023742m.g' => 'esa', 'Thhalv10026483m.g' => 'esa', 'TPR.G17232' => 'tpr', 'TPR.G2133' => 'tpr', 'TPR.G2498' => 'tpr', 'TPR.G31942' => 'tpr', 'TPR.G37877' => 'tpr', 'TPR.G4571' => 'tpr', 'TWI14G1113' => 'twi', 'TWI15G0426' => 'twi', 'TWI31G1005' => 'twi', 'TWI38G0513' => 'twi', 'TWI38G1484' => 'twi', 'TWI73G1098' => 'twi', 'unitig_26.g10519' => 'ugi', 'unitig_736.g22395' => 'ugi', 'unitig_747.g21234' => 'ugi', 'unitig_747.g21942' => 'ugi', 'vmacro14351' => 'vma', 'VMungo0540G0082' => 'vmu', 'VMungo0540G0405' => 'vmu', 'VMungo0540G1486' => 'vmu', 'VMungo0540G1692' => 'vmu', 'VMungo0720G2473' => 'vmu', 'VMungo1127G1562' => 'vmu', 'VMungo1215G1918' => 'vmu', 'Zm00001eb052650' => 'zma', 'Zm00001eb063710' => 'zma', 'Zm00001eb083950' => 'zma', 'Zm00001eb174420' => 'zma', 'Zm00001eb260140' => 'zma', 'Zm00001eb260150' => 'zma', 'Zm00001eb260160' => 'zma', 'Zm00001eb348290' => 'zma', 'Zm00001eb366870' => 'zma', 'Zm00001eb421930' => 'zma' ) $gf_id = 'HOM05D001025' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001025' ) $data_identifier = 'HOM05D001025' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 19, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 2, 'amhyb' => (int) 4, 'aly' => (int) 4, 'aox' => (int) 4, 'arhy' => (int) 3, 'ath' => (int) 5, 'atr' => (int) 4, 'acertr' => (int) 3, 'cqu' => (int) 7, 'bca' => (int) 17, 'bol' => (int) 10, 'bra' => (int) 9, 'can' => (int) 10, 'cansat' => (int) 6, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 5, 'cbr' => (int) 5, 'ccan' => (int) 5, 'cde' => (int) 4, 'cfa' => (int) 3, 'ccl' => (int) 6, 'cil' => (int) 4, 'cla' => (int) 3, 'col' => (int) 3, 'cpa' => (int) 3, 'cre' => (int) 7, 'csa' => (int) 5, 'camsi' => (int) 9, 'dca' => (int) 4, 'din' => (int) 5, 'dzi' => (int) 7, 'eca' => (int) 6, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 12, 'fve' => (int) 4, 'gma' => (int) 12, 'ghi' => (int) 17, 'gra' => (int) 9, 'vvi' => (int) 2, 'han' => (int) 8, 'cav' => (int) 5, 'hma' => (int) 9, 'vpl' => (int) 4, 'sun' => (int) 2, 'lal' => (int) 9, 'lja' => (int) 5, 'lonja' => (int) 6, 'lsa' => (int) 3, 'mes' => (int) 8, 'mpo' => (int) 3, 'mbi' => (int) 4, 'mco' => (int) 3, 'mdo' => (int) 5, 'mtr' => (int) 7, 'cme' => (int) 6, 'egut' => (int) 7, 'ama' => (int) 3, 'nta' => (int) 12, 'nnu' => (int) 9, 'oeu' => (int) 4, 'osa' => (int) 7, 'pax' => (int) 9, 'pgr' => (int) 5, 'stu' => (int) 8, 'pvu' => (int) 6, 'ptr' => (int) 9, 'ppa' => (int) 9, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 7, 'pso' => (int) 10, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 3, 'sbr' => (int) 8, 'sbo' => (int) 5, 'sci' => (int) 5, 'sed' => (int) 4, 'sgi' => (int) 4, 'sas' => (int) 4, 'smo' => (int) 5, 'sly' => (int) 7, 'spe' => (int) 10, 'spa' => (int) 5, 'tar' => (int) 5, 'tha' => (int) 8, 'tca' => (int) 3, 'esa' => (int) 5, 'tpr' => (int) 6, 'twi' => (int) 6, 'ugi' => (int) 4, 'vma' => (int) 1, 'vmu' => (int) 7, 'zma' => (int) 10 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb421930' $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' => 'HOM05D001025', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '592', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p22650' => 'bna', 'A01p29720' => 'bna', 'A03p26560' => 'bna', 'A03p68820' => 'bna', 'A04p20980' => 'bna', 'A06p07730' => 'bna', 'A07p18260' => 'bna', 'A08p33710' => 'bna', 'A09p16970' => 'bna', 'A10p27490' => 'bna', 'Aa31LG1G17300' => 'aar', 'Aa31LG1G3910' => 'aar', 'Aa31LG2G9630' => 'aar', 'Aa31LG5G8360' => 'aar', 'Aa31LG9G2410' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4699' => 'aag', 'Actinidia23512' => 'ach', 'Actinidia37080' => 'ach', 'Ah.01g020380' => 'amhyb', 'Ah.08g215710' => 'amhyb', 'Ah.09g225110' => 'amhyb', 'Ah.10g036680' => 'amhyb', 'AL1G21940' => 'aly', 'AL2G15540' => 'aly', 'AL4G21520' => 'aly', 'AL7G40960' => 'aly', 'Aqoxy2G01191' => 'aox', 'Aqoxy2G03393' => 'aox', 'Aqoxy4G02775' => 'aox', 'Aqoxy6G00058' => 'aox', 'arahy.Tifrunner.gnm1.ann1.9X74H2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CW3FX9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R485W7' => 'arhy', 'AT1G10960' => 'ath', 'AT1G60950' => 'ath', 'AT2G27510' => 'ath', 'AT4G14890' => 'ath', 'AT5G10000' => 'ath', 'ATR0665G624' => 'atr', 'ATR0697G138' => 'atr', 'ATR0776G046' => 'atr', 'ATR1134G135' => 'atr', 'Atru.chr12.1025' => 'acertr', 'Atru.chr3.3241' => 'acertr', 'Atru.chr4.2460' => 'acertr', 'AUR62007427' => 'cqu', 'AUR62010960' => 'cqu', 'AUR62012201' => 'cqu', 'AUR62021470' => 'cqu', 'AUR62022834' => 'cqu', 'AUR62033635' => 'cqu', 'AUR62036186' => 'cqu', 'BcaB01g03077' => 'bca', 'BcaB02g10093' => 'bca', 'BcaB04g20295' => 'bca', 'BcaB06g28147' => 'bca', 'BcaB07g31253' => 'bca', 'BcaC01g04946' => 'bca', 'BcaC02g10614' => 'bca', 'BcaC02g10885' => 'bca', 'BcaC04g19356' => 'bca', 'BcaC04g22297' => 'bca', 'BcaC05g24977' => 'bca', 'BcaC06g31823' => 'bca', 'BcaC07g38633' => 'bca', 'BcaC09g49353' => 'bca', 'BcaC09g50168' => 'bca', 'BcaNung00322' => 'bca', 'BcaNung04769' => 'bca', 'BolC1t02753H' => 'bol', 'BolC1t03721H' => 'bol', 'BolC3t15525H' => 'bol', 'BolC4t23903H' => 'bol', 'BolC4t24231H' => 'bol', 'BolC4t27209H' => 'bol', 'BolC5t29671H' => 'bol', 'BolC8t49044H' => 'bol', 'BolC9t54999H' => 'bol', 'BolC9t59517H' => 'bol', 'BraA01t02178Z' => 'bra', 'BraA01t03099Z' => 'bra', 'BraA03t11867Z' => 'bra', 'BraA04t17667Z' => 'bra', 'BraA07t29542Z' => 'bra', 'BraA08t35287Z' => 'bra', 'BraA09t37334Z' => 'bra', 'BraA10t44801Z' => 'bra', 'BraSC39t46181Z' => 'bra', 'C01p28240' => 'bna', 'C01p37530' => 'bna', 'C03p31820' => 'bna', 'C04p24080' => 'bna', 'C04p25790' => 'bna', 'C04p56770' => 'bna', 'C05p09310' => 'bna', 'C09p21010' => 'bna', 'C09p67560' => 'bna', 'CAN.G1324.7' => 'can', 'CAN.G1358.10' => 'can', 'CAN.G1550.2' => 'can', 'CAN.G186.56' => 'can', 'CAN.G1965.1' => 'can', 'CAN.G645.15' => 'can', 'CAN.G798.26' => 'can', 'CAN.G798.27' => 'can', 'CAN.G798.29' => 'can', 'CAN.G919.31' => 'can', 'CANSAT11G0133' => 'cansat', 'CANSAT11G1171' => 'cansat', 'CANSAT11G2056' => 'cansat', 'CANSAT56G1202' => 'cansat', 'CANSAT56G1514' => 'cansat', 'CANSAT78G0455' => 'cansat', 'CARHR011190' => 'chi', 'CARHR051980' => 'chi', 'CARHR120170' => 'chi', 'CARHR203310' => 'chi', 'CARHR221490' => 'chi', 'Carub.0001s1054' => 'cru', 'Carub.0002s0431' => 'cru', 'Carub.0004s0818' => 'cru', 'Carub.0006s0846' => 'cru', 'Carub.0007s2722' => 'cru', 'Ca_00058_v3' => 'car', 'Ca_17831_v3' => 'car', 'Ca_19408_v3' => 'car', 'Ca_24397_v3' => 'car', 'Ca_25664_v3' => 'car', 'CBR_g21818' => 'cbr', 'CBR_g31195' => 'cbr', 'CBR_g32282' => 'cbr', 'CBR_g39599' => 'cbr', 'CBR_g49410' => 'cbr', 'Cc01_g09120' => 'ccan', 'Cc01_g09130' => 'ccan', 'Cc02_g09630' => 'ccan', 'Cc02_g22810' => 'ccan', 'Cc03_g03810' => 'ccan', 'CDE02G3718' => 'cde', 'CDE04G3183' => 'cde', 'CDE07G1046' => 'cde', 'CDE08G0480' => 'cde', 'Cfa005493' => 'cfa', 'Cfa010312' => 'cfa', 'Cfa015648' => 'cfa', 'Ciclev10002793m.g' => 'ccl', 'Ciclev10003356m.g' => 'ccl', 'Ciclev10006141m.g' => 'ccl', 'Ciclev10016676m.g' => 'ccl', 'Ciclev10017081m.g' => 'ccl', 'Ciclev10029499m.g' => 'ccl', 'CiPaw.01G166300' => 'cil', 'CiPaw.06G145600' => 'cil', 'CiPaw.13G040100' => 'cil', 'CiPaw.13G135800' => 'cil', 'ClCG01G012230' => 'cla', 'ClCG05G009510' => 'cla', 'ClCG08G008270' => 'cla', 'COL.COLO4_11763' => 'col', 'COL.COLO4_19876' => 'col', 'COL.COLO4_21481' => 'col', 'Cpa.g.sc118.34' => 'cpa', 'Cpa.g.sc32.13' => 'cpa', 'Cpa.g.sc58.103' => 'cpa', 'Cre03.g183850' => 'cre', 'Cre06.g306350' => 'cre', 'Cre07.g334800' => 'cre', 'Cre12.g487900' => 'cre', 'Cre14.g626700' => 'cre', 'Cre16.g658400' => 'cre', 'Cre17.g700950' => 'cre', 'CsaV3_1G014830' => 'csa', 'CsaV3_3G013320' => 'csa', 'CsaV3_3G019210' => 'csa', 'CsaV3_3G019220' => 'csa', 'CsaV3_6G004230' => 'csa', 'CSS0003773' => 'camsi', 'CSS0004563' => 'camsi', 'CSS0013949' => 'camsi', 'CSS0025971' => 'camsi', 'CSS0028570' => 'camsi', 'CSS0033127' => 'camsi', 'CSS0036051' => 'camsi', 'CSS0040087' => 'camsi', 'CSS0043179' => 'camsi', 'DCAR_006161' => 'dca', 'DCAR_010351' => 'dca', 'DCAR_012197' => 'dca', 'DCAR_024162' => 'dca', 'Dinv01030' => 'din', 'Dinv10924' => 'din', 'Dinv11835' => 'din', 'Dinv22841' => 'din', 'Dinv42553' => 'din', 'Duzib052G0560' => 'dzi', 'Duzib132G0389' => 'dzi', 'Duzib150G1181' => 'dzi', 'Duzib168G0623' => 'dzi', 'Duzib170G1036' => 'dzi', 'Duzib212G0200' => 'dzi', 'Duzib248G0194' => 'dzi', 'ECA232G2193' => 'eca', 'ECA233G0302' => 'eca', 'ECA234G2813' => 'eca', 'ECA234G4866' => 'eca', 'ECA240G3932' => 'eca', 'ECA248G0385' => 'eca', 'EL10Ac2g04781' => 'bvu', 'EL10Ac3g06445' => 'bvu', 'EL10Ac7g15825' => 'bvu', 'EL10Ac8g18550' => 'bvu', 'Eucgr.B03849' => 'egr', 'Eucgr.I02744' => 'egr', 'Eucgr.J00264' => 'egr', 'Eucgr.J00493' => 'egr', 'FAN04G2181' => 'fan', 'FAN07G2666' => 'fan', 'FAN11G0024' => 'fan', 'FAN12G1105' => 'fan', 'FAN13G0302' => 'fan', 'FAN15G2781' => 'fan', 'FAN16G1274' => 'fan', 'FAN17G2988' => 'fan', 'FAN18G2621' => 'fan', 'FAN21G0013' => 'fan', 'FAN22G1211' => 'fan', 'FAN25G3626' => 'fan', 'FvH4_2g09491' => 'fve', 'FvH4_3g24910' => 'fve', 'FvH4_4g15630' => 'fve', 'FvH4_5g28820' => 'fve', 'Glyma.01G238000' => 'gma', 'Glyma.05G168400' => 'gma', 'Glyma.08G126800' => 'gma', 'Glyma.08G188500' => 'gma', 'Glyma.10G278900' => 'gma', 'Glyma.11G005700' => 'gma', 'Glyma.11G183300' => 'gma', 'Glyma.12G089200' => 'gma', 'Glyma.12G169400' => 'gma', 'Glyma.12G169500' => 'gma', 'Glyma.12G169600' => 'gma', 'Glyma.20G110800' => 'gma', 'Gohir.A03G192900' => 'ghi', 'Gohir.A03G193000' => 'ghi', 'Gohir.A05G080700' => 'ghi', 'Gohir.A09G216000' => 'ghi', 'Gohir.A12G027700' => 'ghi', 'Gohir.A13G036200' => 'ghi', 'Gohir.A13G222600' => 'ghi', 'Gohir.D02G213900' => 'ghi', 'Gohir.D02G214000' => 'ghi', 'Gohir.D05G083700' => 'ghi', 'Gohir.D05G083800' => 'ghi', 'Gohir.D05G083850' => 'ghi', 'Gohir.D08G015400' => 'ghi', 'Gohir.D09G218400' => 'ghi', 'Gohir.D12G027100' => 'ghi', 'Gohir.D13G034500' => 'ghi', 'Gohir.D13G227400' => 'ghi', 'Gorai.005G241800' => 'gra', 'Gorai.005G241900' => 'gra', 'Gorai.006G239400' => 'gra', 'Gorai.008G027600' => 'gra', 'Gorai.009G085400' => 'gra', 'Gorai.009G085500' => 'gra', 'Gorai.013G039000' => 'gra', 'Gorai.013G194800' => 'gra', 'Gorai.013G257900' => 'gra', 'GSVIVG01000982001' => 'vvi', 'GSVIVG01017981001' => 'vvi', 'HanXRQChr01g0024061' => 'han', 'HanXRQChr09g0247831' => 'han', 'HanXRQChr10g0294611' => 'han', 'HanXRQChr10g0294621' => 'han', 'HanXRQChr11g0346821' => 'han', 'HanXRQChr13g0397461' => 'han', 'HanXRQChr16g0513651' => 'han', 'HanXRQChr16g0513701' => 'han', 'Haze_00897' => 'cav', 'Haze_01745' => 'cav', 'Haze_02486' => 'cav', 'Haze_02487' => 'cav', 'Haze_23374' => 'cav', 'Hma1.2p1_0578F.1_g182520' => 'hma', 'Hma1.2p1_0602F.1_g187350' => 'hma', 'Hma1.2p1_0602F.1_g187360' => 'hma', 'Hma1.2p1_0874F.1_g231320' => 'hma', 'Hma1.2p1_1197F.1_g266210' => 'hma', 'Hma1.2p1_1197F.1_g266220' => 'hma', 'Hma1.2p1_2167F.1_g315895' => 'hma', 'Hma1.2p1_2190F.1_g316640' => 'hma', 'Hma1.2p1_3645F.1_g337153' => 'hma', 'HPP92_004907' => 'vpl', 'HPP92_012134' => 'vpl', 'HPP92_025136' => 'vpl', 'HPP92_026087' => 'vpl', 'Hund06782' => 'sun', 'Hund06784' => 'sun', 'Lalb_Chr01g0004861' => 'lal', 'Lalb_Chr02g0140591' => 'lal', 'Lalb_Chr02g0140611' => 'lal', 'Lalb_Chr03g0028101' => 'lal', 'Lalb_Chr07g0185791' => 'lal', 'Lalb_Chr12g0204491' => 'lal', 'Lalb_Chr13g0295671' => 'lal', 'Lalb_Chr19g0136461' => 'lal', 'Lalb_Chr21g0309191' => 'lal', 'Lj1g0028158' => 'lja', 'Lj1P236T38' => 'lonja', 'Lj2C32G2' => 'lonja', 'Lj2P944T8' => 'lonja', 'Lj2P963T15' => 'lonja', 'Lj3g0011788' => 'lja', 'Lj4g0025027' => 'lja', 'Lj5P255T36' => 'lonja', 'Lj6g0018866' => 'lja', 'Lj6P608T31' => 'lonja', 'LjContig00408g0008879' => 'lja', 'Lsat_1_v5_gn_5_105820' => 'lsa', 'Lsat_1_v5_gn_6_38800' => 'lsa', 'Lsat_1_v5_gn_7_67141' => 'lsa', 'Manes.04G003400' => 'mes', 'Manes.07G020000' => 'mes', 'Manes.07G020100' => 'mes', 'Manes.07G020150' => 'mes', 'Manes.10G061500' => 'mes', 'Manes.10G123200' => 'mes', 'Manes.11G161900' => 'mes', 'Manes.15G029300' => 'mes', 'Mapoly0071s0018' => 'mpo', 'Mapoly0082s0023' => 'mpo', 'Mapoly3477s0001' => 'mpo', 'MBI05_g31233_MAGBIO' => 'mbi', 'MBI09_g05946_MAGBIO' => 'mbi', 'MBI09_g05947_MAGBIO' => 'mbi', 'MBI17_g08346_MAGBIO' => 'mbi', 'MCO04G038' => 'mco', 'MCO09G370' => 'mco', 'MCO13G605' => 'mco', 'MD00G1075500' => 'mdo', 'MD03G1144300' => 'mdo', 'MD08G1236800' => 'mdo', 'MD13G1193300' => 'mdo', 'MD15G1428700' => 'mdo', 'Medtr1g112030' => 'mtr', 'Medtr1g112050' => 'mtr', 'Medtr2g006290' => 'mtr', 'Medtr2g086510' => 'mtr', 'Medtr4g053120' => 'mtr', 'Medtr5g006320' => 'mtr', 'Medtr8g088720' => 'mtr', 'MELO3C004712.2' => 'cme', 'MELO3C006533.2' => 'cme', 'MELO3C019438.2' => 'cme', 'MELO3C019440.2' => 'cme', 'MELO3C019441.2' => 'cme', 'MELO3C019895.2' => 'cme', 'Migut.B00811' => 'egut', 'Migut.D02447' => 'egut', 'Migut.F00875' => 'egut', 'Migut.N00186' => 'egut', 'Migut.N01051' => 'egut', 'Migut.N02491' => 'egut', 'Migut.O00784' => 'egut', 'MSTRG.12367' => 'ama', 'MSTRG.18756' => 'ama', 'MSTRG.21042' => 'ama', 'Nitab4.5_0000559g0040' => 'nta', 'Nitab4.5_0000667g0190' => 'nta', 'Nitab4.5_0000755g0160' => 'nta', 'Nitab4.5_0001216g0080' => 'nta', 'Nitab4.5_0004069g0040' => 'nta', 'Nitab4.5_0004129g0010' => 'nta', 'Nitab4.5_0005744g0030' => 'nta', 'Nitab4.5_0006996g0030' => 'nta', 'Nitab4.5_0008971g0040' => 'nta', 'Nitab4.5_0009769g0020' => 'nta', 'Nitab4.5_0009833g0010' => 'nta', 'Nitab4.5_0013140g0020' => 'nta', 'Nn003s41376' => 'nnu', 'Nn1g01857' => 'nnu', 'Nn1g03611' => 'nnu', 'Nn1g06853' => 'nnu', 'Nn3g18360' => 'nnu', 'Nn4g26328' => 'nnu', 'Nn5g27531' => 'nnu', 'Nn6g34899' => 'nnu', 'Nn7g36299' => 'nnu', 'Oeu021485.1' => 'oeu', 'Oeu022433.1' => 'oeu', 'Oeu032111.1' => 'oeu', 'Oeu051608.1' => 'oeu', 'Os01g0860601' => 'osa', 'Os03g0659200' => 'osa', 'Os03g0835900' => 'osa', 'Os04g0412200' => 'osa', 'Os05g0443500' => 'osa', 'Os07g0251500' => 'osa', 'Os08g0104600' => 'osa', 'Peaxi162Scf00003g00047' => 'pax', 'Peaxi162Scf00003g00052' => 'pax', 'Peaxi162Scf00003g00394' => 'pax', 'Peaxi162Scf00091g00621' => 'pax', 'Peaxi162Scf00152g00146' => 'pax', 'Peaxi162Scf00173g00025' => 'pax', 'Peaxi162Scf00195g00102' => 'pax', 'Peaxi162Scf00402g00013' => 'pax', 'Peaxi162Scf00519g00618' => 'pax', 'PGR004G2838' => 'pgr', 'PGR044G2275' => 'pgr', 'PGR102G1377' => 'pgr', 'PGR119G1245' => 'pgr', 'PGR142G4449' => 'pgr', 'PGSC0003DMG400004532' => 'stu', 'PGSC0003DMG400011950' => 'stu', 'PGSC0003DMG400023391' => 'stu', 'PGSC0003DMG400023985' => 'stu', 'PGSC0003DMG400026360' => 'stu', 'PGSC0003DMG400035711' => 'stu', 'PGSC0003DMG400037286' => 'stu', 'PGSC0003DMG402005881' => 'stu', 'Phvul.002G045400' => 'pvu', 'Phvul.006G216600' => 'pvu', 'Phvul.006G216700' => 'pvu', 'Phvul.006G216800' => 'pvu', 'Phvul.007G022500' => 'pvu', 'Phvul.011G094400' => 'pvu', 'Potri.001G470700' => 'ptr', 'Potri.003G015200' => 'ptr', 'Potri.004G202500' => 'ptr', 'Potri.004G218400' => 'ptr', 'Potri.008G020100' => 'ptr', 'Potri.008G153200' => 'ptr', 'Potri.009G163800' => 'ptr', 'Potri.010G087300' => 'ptr', 'Potri.010G239100' => 'ptr', 'Pp3c10_16100' => 'ppa', 'Pp3c10_16880' => 'ppa', 'Pp3c16_6230' => 'ppa', 'Pp3c17_18910' => 'ppa', 'Pp3c3_22119' => 'ppa', 'Pp3c3_22140' => 'ppa', 'Pp3c4_8159' => 'ppa', 'Pp3c4_8171' => 'ppa', 'Pp3c4_8330' => 'ppa', 'PRCOL_00004098' => 'pco', 'Prupe.1G013900' => 'ppe', 'Prupe.1G226300' => 'ppe', 'Prupe.1G573600' => 'ppe', 'Prupe.6G130100' => 'ppe', 'Psat3g090040' => 'psa', 'Psat4g210440' => 'psa', 'Psat6g231040' => 'psa', 'Psat6g231080' => 'psa', 'Psat7g063000' => 'psa', 'Psat7g188000' => 'psa', 'Psat7g188040' => 'psa', 'PSO017G0206' => 'pso', 'PSO170G0501' => 'pso', 'PSO170G6422' => 'pso', 'PSO210G7739' => 'pso', 'PSO339G1808' => 'pso', 'PSO339G6135' => 'pso', 'PSO384G0010' => 'pso', 'PSO384G0964' => 'pso', 'PSO761G0050' => 'pso', 'PSO782G4085' => 'pso', 'QL01p012264' => 'qlo', 'QL02p099491' => 'qlo', 'QL03p033868' => 'qlo', 'QL04p046678' => 'qlo', 'QL06p002448' => 'qlo', 'RcHm_v2.0_Chr4g0416181' => 'rch', 'RcHm_v2.0_Chr5g0044701' => 'rch', 'RcHm_v2.0_Chr6g0265781' => 'rch', 'RcHm_v2.0_Chr7g0221031' => 'rch', 'Rhsim04G0202000' => 'rsi', 'Rhsim11G0127300' => 'rsi', 'Rhsim13G0111800' => 'rsi', 'Sabra01G0165600' => 'sbr', 'Sabra03G0008300' => 'sbr', 'Sabra04G0136900' => 'sbr', 'Sabra08G0013400' => 'sbr', 'Sabra08G0116800' => 'sbr', 'Sabra09G0128000' => 'sbr', 'Sabra10G0055500' => 'sbr', 'Sabra10G0073300' => 'sbr', 'SalBow3G0385' => 'sbo', 'SalBow3G1119' => 'sbo', 'SalBow3G2005' => 'sbo', 'SalBow6G2563' => 'sbo', 'SalBow6G6386' => 'sbo', 'Sc06g0008800' => 'sci', 'Sc07g0004950' => 'sci', 'Sc09g0005340' => 'sci', 'Sc13g0004410' => 'sci', 'Sc21g0007090' => 'sci', 'Sed0009285' => 'sed', 'Sed0017583' => 'sed', 'Sed0019699' => 'sed', 'Sed0023107' => 'sed', 'SEGI_10916' => 'sgi', 'SEGI_16217' => 'sgi', 'SEGI_19466' => 'sgi', 'SEGI_41115' => 'sgi', 'SGA_v2.0_scaffold111G31534' => 'sas', 'SGA_v2.0_scaffold22G09864' => 'sas', 'SGA_v2.0_scaffold338G49219' => 'sas', 'SGA_v2.0_scaffold92G28298' => 'sas', 'SMO119G0064' => 'smo', 'SMO223G0038' => 'smo', 'SMO347G0584' => 'smo', 'SMO351G0010' => 'smo', 'SMO356G0404' => 'smo', 'Solyc01g103920.3' => 'sly', 'Solyc04g009710.2' => 'sly', 'Solyc05g055280.2' => 'sly', 'Solyc10g044520.3' => 'sly', 'Solyc10g075160.1' => 'sly', 'Solyc11g006910.3' => 'sly', 'Solyc11g068430.3' => 'sly', 'Sopen01g046310' => 'spe', 'Sopen03g001200' => 'spe', 'Sopen04g004830' => 'spe', 'Sopen05g033720' => 'spe', 'Sopen06g030740' => 'spe', 'Sopen10g013090' => 'spe', 'Sopen10g027630' => 'spe', 'Sopen10g027640' => 'spe', 'Sopen11g002820' => 'spe', 'Sopen11g027140' => 'spe', 'Sp1g09680' => 'spa', 'Sp2g03630' => 'spa', 'Sp4g10320' => 'spa', 'Sp6g33400' => 'spa', 'Sp7g13030' => 'spa', 'TAR365G0317' => 'tar', 'TAR376G0979' => 'tar', 'TAR623G1665' => 'tar', 'TAR633G2373' => 'tar', 'TAR636G1400' => 'tar', 'THA.LOC104800529' => 'tha', 'THA.LOC104808547' => 'tha', 'THA.LOC104809615' => 'tha', 'THA.LOC104815724' => 'tha', 'THA.LOC104818480' => 'tha', 'THA.LOC104819179' => 'tha', 'THA.LOC104822270' => 'tha', 'THA.LOC104826425' => 'tha', 'Thecc.02G089700' => 'tca', 'Thecc.04G232300' => 'tca', 'Thecc.09G283400' => 'tca', 'Thhalv10009020m.g' => 'esa', 'Thhalv10015506m.g' => 'esa', 'Thhalv10017364m.g' => 'esa', 'Thhalv10023742m.g' => 'esa', 'Thhalv10026483m.g' => 'esa', 'TPR.G17232' => 'tpr', 'TPR.G2133' => 'tpr', 'TPR.G2498' => 'tpr', 'TPR.G31942' => 'tpr', 'TPR.G37877' => 'tpr', 'TPR.G4571' => 'tpr', 'TWI14G1113' => 'twi', 'TWI15G0426' => 'twi', 'TWI31G1005' => 'twi', 'TWI38G0513' => 'twi', 'TWI38G1484' => 'twi', 'TWI73G1098' => 'twi', 'unitig_26.g10519' => 'ugi', 'unitig_736.g22395' => 'ugi', 'unitig_747.g21234' => 'ugi', 'unitig_747.g21942' => 'ugi', 'vmacro14351' => 'vma', 'VMungo0540G0082' => 'vmu', 'VMungo0540G0405' => 'vmu', 'VMungo0540G1486' => 'vmu', 'VMungo0540G1692' => 'vmu', 'VMungo0720G2473' => 'vmu', 'VMungo1127G1562' => 'vmu', 'VMungo1215G1918' => 'vmu', 'Zm00001eb052650' => 'zma', 'Zm00001eb063710' => 'zma', 'Zm00001eb083950' => 'zma', 'Zm00001eb174420' => 'zma', 'Zm00001eb260140' => 'zma', 'Zm00001eb260150' => 'zma', 'Zm00001eb260160' => 'zma', 'Zm00001eb348290' => 'zma', 'Zm00001eb366870' => 'zma', 'Zm00001eb421930' => 'zma' ), 'gf_id' => 'HOM05D001025', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001025' ), 'data_identifier' => 'HOM05D001025', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001025', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '592', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p22650' => 'bna', 'A01p29720' => 'bna', 'A03p26560' => 'bna', 'A03p68820' => 'bna', 'A04p20980' => 'bna', 'A06p07730' => 'bna', 'A07p18260' => 'bna', 'A08p33710' => 'bna', 'A09p16970' => 'bna', 'A10p27490' => 'bna', 'Aa31LG1G17300' => 'aar', 'Aa31LG1G3910' => 'aar', 'Aa31LG2G9630' => 'aar', 'Aa31LG5G8360' => 'aar', 'Aa31LG9G2410' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4699' => 'aag', 'Actinidia23512' => 'ach', 'Actinidia37080' => 'ach', 'Ah.01g020380' => 'amhyb', 'Ah.08g215710' => 'amhyb', 'Ah.09g225110' => 'amhyb', 'Ah.10g036680' => 'amhyb', 'AL1G21940' => 'aly', 'AL2G15540' => 'aly', 'AL4G21520' => 'aly', 'AL7G40960' => 'aly', 'Aqoxy2G01191' => 'aox', 'Aqoxy2G03393' => 'aox', 'Aqoxy4G02775' => 'aox', 'Aqoxy6G00058' => 'aox', 'arahy.Tifrunner.gnm1.ann1.9X74H2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CW3FX9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R485W7' => 'arhy', 'AT1G10960' => 'ath', 'AT1G60950' => 'ath', 'AT2G27510' => 'ath', 'AT4G14890' => 'ath', 'AT5G10000' => 'ath', 'ATR0665G624' => 'atr', 'ATR0697G138' => 'atr', 'ATR0776G046' => 'atr', 'ATR1134G135' => 'atr', 'Atru.chr12.1025' => 'acertr', 'Atru.chr3.3241' => 'acertr', 'Atru.chr4.2460' => 'acertr', 'AUR62007427' => 'cqu', 'AUR62010960' => 'cqu', 'AUR62012201' => 'cqu', 'AUR62021470' => 'cqu', 'AUR62022834' => 'cqu', 'AUR62033635' => 'cqu', 'AUR62036186' => 'cqu', 'BcaB01g03077' => 'bca', 'BcaB02g10093' => 'bca', 'BcaB04g20295' => 'bca', 'BcaB06g28147' => 'bca', 'BcaB07g31253' => 'bca', 'BcaC01g04946' => 'bca', 'BcaC02g10614' => 'bca', 'BcaC02g10885' => 'bca', 'BcaC04g19356' => 'bca', 'BcaC04g22297' => 'bca', 'BcaC05g24977' => 'bca', 'BcaC06g31823' => 'bca', 'BcaC07g38633' => 'bca', 'BcaC09g49353' => 'bca', 'BcaC09g50168' => 'bca', 'BcaNung00322' => 'bca', 'BcaNung04769' => 'bca', 'BolC1t02753H' => 'bol', 'BolC1t03721H' => 'bol', 'BolC3t15525H' => 'bol', 'BolC4t23903H' => 'bol', 'BolC4t24231H' => 'bol', 'BolC4t27209H' => 'bol', 'BolC5t29671H' => 'bol', 'BolC8t49044H' => 'bol', 'BolC9t54999H' => 'bol', 'BolC9t59517H' => 'bol', 'BraA01t02178Z' => 'bra', 'BraA01t03099Z' => 'bra', 'BraA03t11867Z' => 'bra', 'BraA04t17667Z' => 'bra', 'BraA07t29542Z' => 'bra', 'BraA08t35287Z' => 'bra', 'BraA09t37334Z' => 'bra', 'BraA10t44801Z' => 'bra', 'BraSC39t46181Z' => 'bra', 'C01p28240' => 'bna', 'C01p37530' => 'bna', 'C03p31820' => 'bna', 'C04p24080' => 'bna', 'C04p25790' => 'bna', 'C04p56770' => 'bna', 'C05p09310' => 'bna', 'C09p21010' => 'bna', 'C09p67560' => 'bna', 'CAN.G1324.7' => 'can', 'CAN.G1358.10' => 'can', 'CAN.G1550.2' => 'can', 'CAN.G186.56' => 'can', 'CAN.G1965.1' => 'can', 'CAN.G645.15' => 'can', 'CAN.G798.26' => 'can', 'CAN.G798.27' => 'can', 'CAN.G798.29' => 'can', 'CAN.G919.31' => 'can', 'CANSAT11G0133' => 'cansat', 'CANSAT11G1171' => 'cansat', 'CANSAT11G2056' => 'cansat', 'CANSAT56G1202' => 'cansat', 'CANSAT56G1514' => 'cansat', 'CANSAT78G0455' => 'cansat', 'CARHR011190' => 'chi', 'CARHR051980' => 'chi', 'CARHR120170' => 'chi', 'CARHR203310' => 'chi', 'CARHR221490' => 'chi', 'Carub.0001s1054' => 'cru', 'Carub.0002s0431' => 'cru', 'Carub.0004s0818' => 'cru', 'Carub.0006s0846' => 'cru', 'Carub.0007s2722' => 'cru', 'Ca_00058_v3' => 'car', 'Ca_17831_v3' => 'car', 'Ca_19408_v3' => 'car', 'Ca_24397_v3' => 'car', 'Ca_25664_v3' => 'car', 'CBR_g21818' => 'cbr', 'CBR_g31195' => 'cbr', 'CBR_g32282' => 'cbr', 'CBR_g39599' => 'cbr', 'CBR_g49410' => 'cbr', 'Cc01_g09120' => 'ccan', 'Cc01_g09130' => 'ccan', 'Cc02_g09630' => 'ccan', 'Cc02_g22810' => 'ccan', 'Cc03_g03810' => 'ccan', 'CDE02G3718' => 'cde', 'CDE04G3183' => 'cde', 'CDE07G1046' => 'cde', 'CDE08G0480' => 'cde', 'Cfa005493' => 'cfa', 'Cfa010312' => 'cfa', 'Cfa015648' => 'cfa', 'Ciclev10002793m.g' => 'ccl', 'Ciclev10003356m.g' => 'ccl', 'Ciclev10006141m.g' => 'ccl', 'Ciclev10016676m.g' => 'ccl', 'Ciclev10017081m.g' => 'ccl', 'Ciclev10029499m.g' => 'ccl', 'CiPaw.01G166300' => 'cil', 'CiPaw.06G145600' => 'cil', 'CiPaw.13G040100' => 'cil', 'CiPaw.13G135800' => 'cil', 'ClCG01G012230' => 'cla', 'ClCG05G009510' => 'cla', 'ClCG08G008270' => 'cla', 'COL.COLO4_11763' => 'col', 'COL.COLO4_19876' => 'col', 'COL.COLO4_21481' => 'col', 'Cpa.g.sc118.34' => 'cpa', 'Cpa.g.sc32.13' => 'cpa', 'Cpa.g.sc58.103' => 'cpa', 'Cre03.g183850' => 'cre', 'Cre06.g306350' => 'cre', 'Cre07.g334800' => 'cre', 'Cre12.g487900' => 'cre', 'Cre14.g626700' => 'cre', 'Cre16.g658400' => 'cre', 'Cre17.g700950' => 'cre', 'CsaV3_1G014830' => 'csa', 'CsaV3_3G013320' => 'csa', 'CsaV3_3G019210' => 'csa', 'CsaV3_3G019220' => 'csa', 'CsaV3_6G004230' => 'csa', 'CSS0003773' => 'camsi', 'CSS0004563' => 'camsi', 'CSS0013949' => 'camsi', 'CSS0025971' => 'camsi', 'CSS0028570' => 'camsi', 'CSS0033127' => 'camsi', 'CSS0036051' => 'camsi', 'CSS0040087' => 'camsi', 'CSS0043179' => 'camsi', 'DCAR_006161' => 'dca', 'DCAR_010351' => 'dca', 'DCAR_012197' => 'dca', 'DCAR_024162' => 'dca', 'Dinv01030' => 'din', 'Dinv10924' => 'din', 'Dinv11835' => 'din', 'Dinv22841' => 'din', 'Dinv42553' => 'din', 'Duzib052G0560' => 'dzi', 'Duzib132G0389' => 'dzi', 'Duzib150G1181' => 'dzi', 'Duzib168G0623' => 'dzi', 'Duzib170G1036' => 'dzi', 'Duzib212G0200' => 'dzi', 'Duzib248G0194' => 'dzi', 'ECA232G2193' => 'eca', 'ECA233G0302' => 'eca', 'ECA234G2813' => 'eca', 'ECA234G4866' => 'eca', 'ECA240G3932' => 'eca', 'ECA248G0385' => 'eca', 'EL10Ac2g04781' => 'bvu', 'EL10Ac3g06445' => 'bvu', 'EL10Ac7g15825' => 'bvu', 'EL10Ac8g18550' => 'bvu', 'Eucgr.B03849' => 'egr', 'Eucgr.I02744' => 'egr', 'Eucgr.J00264' => 'egr', 'Eucgr.J00493' => 'egr', 'FAN04G2181' => 'fan', 'FAN07G2666' => 'fan', 'FAN11G0024' => 'fan', 'FAN12G1105' => 'fan', 'FAN13G0302' => 'fan', 'FAN15G2781' => 'fan', 'FAN16G1274' => 'fan', 'FAN17G2988' => 'fan', 'FAN18G2621' => 'fan', 'FAN21G0013' => 'fan', 'FAN22G1211' => 'fan', 'FAN25G3626' => 'fan', 'FvH4_2g09491' => 'fve', 'FvH4_3g24910' => 'fve', 'FvH4_4g15630' => 'fve', 'FvH4_5g28820' => 'fve', 'Glyma.01G238000' => 'gma', 'Glyma.05G168400' => 'gma', 'Glyma.08G126800' => 'gma', 'Glyma.08G188500' => 'gma', 'Glyma.10G278900' => 'gma', 'Glyma.11G005700' => 'gma', 'Glyma.11G183300' => 'gma', 'Glyma.12G089200' => 'gma', 'Glyma.12G169400' => 'gma', 'Glyma.12G169500' => 'gma', 'Glyma.12G169600' => 'gma', 'Glyma.20G110800' => 'gma', 'Gohir.A03G192900' => 'ghi', 'Gohir.A03G193000' => 'ghi', 'Gohir.A05G080700' => 'ghi', 'Gohir.A09G216000' => 'ghi', 'Gohir.A12G027700' => 'ghi', 'Gohir.A13G036200' => 'ghi', 'Gohir.A13G222600' => 'ghi', 'Gohir.D02G213900' => 'ghi', 'Gohir.D02G214000' => 'ghi', 'Gohir.D05G083700' => 'ghi', 'Gohir.D05G083800' => 'ghi', 'Gohir.D05G083850' => 'ghi', 'Gohir.D08G015400' => 'ghi', 'Gohir.D09G218400' => 'ghi', 'Gohir.D12G027100' => 'ghi', 'Gohir.D13G034500' => 'ghi', 'Gohir.D13G227400' => 'ghi', 'Gorai.005G241800' => 'gra', 'Gorai.005G241900' => 'gra', 'Gorai.006G239400' => 'gra', 'Gorai.008G027600' => 'gra', 'Gorai.009G085400' => 'gra', 'Gorai.009G085500' => 'gra', 'Gorai.013G039000' => 'gra', 'Gorai.013G194800' => 'gra', 'Gorai.013G257900' => 'gra', 'GSVIVG01000982001' => 'vvi', 'GSVIVG01017981001' => 'vvi', 'HanXRQChr01g0024061' => 'han', 'HanXRQChr09g0247831' => 'han', 'HanXRQChr10g0294611' => 'han', 'HanXRQChr10g0294621' => 'han', 'HanXRQChr11g0346821' => 'han', 'HanXRQChr13g0397461' => 'han', 'HanXRQChr16g0513651' => 'han', 'HanXRQChr16g0513701' => 'han', 'Haze_00897' => 'cav', 'Haze_01745' => 'cav', 'Haze_02486' => 'cav', 'Haze_02487' => 'cav', 'Haze_23374' => 'cav', 'Hma1.2p1_0578F.1_g182520' => 'hma', 'Hma1.2p1_0602F.1_g187350' => 'hma', 'Hma1.2p1_0602F.1_g187360' => 'hma', 'Hma1.2p1_0874F.1_g231320' => 'hma', 'Hma1.2p1_1197F.1_g266210' => 'hma', 'Hma1.2p1_1197F.1_g266220' => 'hma', 'Hma1.2p1_2167F.1_g315895' => 'hma', 'Hma1.2p1_2190F.1_g316640' => 'hma', 'Hma1.2p1_3645F.1_g337153' => 'hma', 'HPP92_004907' => 'vpl', 'HPP92_012134' => 'vpl', 'HPP92_025136' => 'vpl', 'HPP92_026087' => 'vpl', 'Hund06782' => 'sun', 'Hund06784' => 'sun', 'Lalb_Chr01g0004861' => 'lal', 'Lalb_Chr02g0140591' => 'lal', 'Lalb_Chr02g0140611' => 'lal', 'Lalb_Chr03g0028101' => 'lal', 'Lalb_Chr07g0185791' => 'lal', 'Lalb_Chr12g0204491' => 'lal', 'Lalb_Chr13g0295671' => 'lal', 'Lalb_Chr19g0136461' => 'lal', 'Lalb_Chr21g0309191' => 'lal', 'Lj1g0028158' => 'lja', 'Lj1P236T38' => 'lonja', 'Lj2C32G2' => 'lonja', 'Lj2P944T8' => 'lonja', 'Lj2P963T15' => 'lonja', 'Lj3g0011788' => 'lja', 'Lj4g0025027' => 'lja', 'Lj5P255T36' => 'lonja', 'Lj6g0018866' => 'lja', 'Lj6P608T31' => 'lonja', 'LjContig00408g0008879' => 'lja', 'Lsat_1_v5_gn_5_105820' => 'lsa', 'Lsat_1_v5_gn_6_38800' => 'lsa', 'Lsat_1_v5_gn_7_67141' => 'lsa', 'Manes.04G003400' => 'mes', 'Manes.07G020000' => 'mes', 'Manes.07G020100' => 'mes', 'Manes.07G020150' => 'mes', 'Manes.10G061500' => 'mes', 'Manes.10G123200' => 'mes', 'Manes.11G161900' => 'mes', 'Manes.15G029300' => 'mes', 'Mapoly0071s0018' => 'mpo', 'Mapoly0082s0023' => 'mpo', 'Mapoly3477s0001' => 'mpo', 'MBI05_g31233_MAGBIO' => 'mbi', 'MBI09_g05946_MAGBIO' => 'mbi', 'MBI09_g05947_MAGBIO' => 'mbi', 'MBI17_g08346_MAGBIO' => 'mbi', 'MCO04G038' => 'mco', 'MCO09G370' => 'mco', 'MCO13G605' => 'mco', 'MD00G1075500' => 'mdo', 'MD03G1144300' => 'mdo', 'MD08G1236800' => 'mdo', 'MD13G1193300' => 'mdo', 'MD15G1428700' => 'mdo', 'Medtr1g112030' => 'mtr', 'Medtr1g112050' => 'mtr', 'Medtr2g006290' => 'mtr', 'Medtr2g086510' => 'mtr', 'Medtr4g053120' => 'mtr', 'Medtr5g006320' => 'mtr', 'Medtr8g088720' => 'mtr', 'MELO3C004712.2' => 'cme', 'MELO3C006533.2' => 'cme', 'MELO3C019438.2' => 'cme', 'MELO3C019440.2' => 'cme', 'MELO3C019441.2' => 'cme', 'MELO3C019895.2' => 'cme', 'Migut.B00811' => 'egut', 'Migut.D02447' => 'egut', 'Migut.F00875' => 'egut', 'Migut.N00186' => 'egut', 'Migut.N01051' => 'egut', 'Migut.N02491' => 'egut', 'Migut.O00784' => 'egut', 'MSTRG.12367' => 'ama', 'MSTRG.18756' => 'ama', 'MSTRG.21042' => 'ama', 'Nitab4.5_0000559g0040' => 'nta', 'Nitab4.5_0000667g0190' => 'nta', 'Nitab4.5_0000755g0160' => 'nta', 'Nitab4.5_0001216g0080' => 'nta', 'Nitab4.5_0004069g0040' => 'nta', 'Nitab4.5_0004129g0010' => 'nta', 'Nitab4.5_0005744g0030' => 'nta', 'Nitab4.5_0006996g0030' => 'nta', 'Nitab4.5_0008971g0040' => 'nta', 'Nitab4.5_0009769g0020' => 'nta', 'Nitab4.5_0009833g0010' => 'nta', 'Nitab4.5_0013140g0020' => 'nta', 'Nn003s41376' => 'nnu', 'Nn1g01857' => 'nnu', 'Nn1g03611' => 'nnu', 'Nn1g06853' => 'nnu', 'Nn3g18360' => 'nnu', 'Nn4g26328' => 'nnu', 'Nn5g27531' => 'nnu', 'Nn6g34899' => 'nnu', 'Nn7g36299' => 'nnu', 'Oeu021485.1' => 'oeu', 'Oeu022433.1' => 'oeu', 'Oeu032111.1' => 'oeu', 'Oeu051608.1' => 'oeu', 'Os01g0860601' => 'osa', 'Os03g0659200' => 'osa', 'Os03g0835900' => 'osa', 'Os04g0412200' => 'osa', 'Os05g0443500' => 'osa', 'Os07g0251500' => 'osa', 'Os08g0104600' => 'osa', 'Peaxi162Scf00003g00047' => 'pax', 'Peaxi162Scf00003g00052' => 'pax', 'Peaxi162Scf00003g00394' => 'pax', 'Peaxi162Scf00091g00621' => 'pax', 'Peaxi162Scf00152g00146' => 'pax', 'Peaxi162Scf00173g00025' => 'pax', 'Peaxi162Scf00195g00102' => 'pax', 'Peaxi162Scf00402g00013' => 'pax', 'Peaxi162Scf00519g00618' => 'pax', 'PGR004G2838' => 'pgr', 'PGR044G2275' => 'pgr', 'PGR102G1377' => 'pgr', 'PGR119G1245' => 'pgr', 'PGR142G4449' => 'pgr', 'PGSC0003DMG400004532' => 'stu', 'PGSC0003DMG400011950' => 'stu', 'PGSC0003DMG400023391' => 'stu', 'PGSC0003DMG400023985' => 'stu', 'PGSC0003DMG400026360' => 'stu', 'PGSC0003DMG400035711' => 'stu', 'PGSC0003DMG400037286' => 'stu', 'PGSC0003DMG402005881' => 'stu', 'Phvul.002G045400' => 'pvu', 'Phvul.006G216600' => 'pvu', 'Phvul.006G216700' => 'pvu', 'Phvul.006G216800' => 'pvu', 'Phvul.007G022500' => 'pvu', 'Phvul.011G094400' => 'pvu', 'Potri.001G470700' => 'ptr', 'Potri.003G015200' => 'ptr', 'Potri.004G202500' => 'ptr', 'Potri.004G218400' => 'ptr', 'Potri.008G020100' => 'ptr', 'Potri.008G153200' => 'ptr', 'Potri.009G163800' => 'ptr', 'Potri.010G087300' => 'ptr', 'Potri.010G239100' => 'ptr', 'Pp3c10_16100' => 'ppa', 'Pp3c10_16880' => 'ppa', 'Pp3c16_6230' => 'ppa', 'Pp3c17_18910' => 'ppa', 'Pp3c3_22119' => 'ppa', 'Pp3c3_22140' => 'ppa', 'Pp3c4_8159' => 'ppa', 'Pp3c4_8171' => 'ppa', 'Pp3c4_8330' => 'ppa', 'PRCOL_00004098' => 'pco', 'Prupe.1G013900' => 'ppe', 'Prupe.1G226300' => 'ppe', 'Prupe.1G573600' => 'ppe', 'Prupe.6G130100' => 'ppe', 'Psat3g090040' => 'psa', 'Psat4g210440' => 'psa', 'Psat6g231040' => 'psa', 'Psat6g231080' => 'psa', 'Psat7g063000' => 'psa', 'Psat7g188000' => 'psa', 'Psat7g188040' => 'psa', 'PSO017G0206' => 'pso', 'PSO170G0501' => 'pso', 'PSO170G6422' => 'pso', 'PSO210G7739' => 'pso', 'PSO339G1808' => 'pso', 'PSO339G6135' => 'pso', 'PSO384G0010' => 'pso', 'PSO384G0964' => 'pso', 'PSO761G0050' => 'pso', 'PSO782G4085' => 'pso', 'QL01p012264' => 'qlo', 'QL02p099491' => 'qlo', 'QL03p033868' => 'qlo', 'QL04p046678' => 'qlo', 'QL06p002448' => 'qlo', 'RcHm_v2.0_Chr4g0416181' => 'rch', 'RcHm_v2.0_Chr5g0044701' => 'rch', 'RcHm_v2.0_Chr6g0265781' => 'rch', 'RcHm_v2.0_Chr7g0221031' => 'rch', 'Rhsim04G0202000' => 'rsi', 'Rhsim11G0127300' => 'rsi', 'Rhsim13G0111800' => 'rsi', 'Sabra01G0165600' => 'sbr', 'Sabra03G0008300' => 'sbr', 'Sabra04G0136900' => 'sbr', 'Sabra08G0013400' => 'sbr', 'Sabra08G0116800' => 'sbr', 'Sabra09G0128000' => 'sbr', 'Sabra10G0055500' => 'sbr', 'Sabra10G0073300' => 'sbr', 'SalBow3G0385' => 'sbo', 'SalBow3G1119' => 'sbo', 'SalBow3G2005' => 'sbo', 'SalBow6G2563' => 'sbo', 'SalBow6G6386' => 'sbo', 'Sc06g0008800' => 'sci', 'Sc07g0004950' => 'sci', 'Sc09g0005340' => 'sci', 'Sc13g0004410' => 'sci', 'Sc21g0007090' => 'sci', 'Sed0009285' => 'sed', 'Sed0017583' => 'sed', 'Sed0019699' => 'sed', 'Sed0023107' => 'sed', 'SEGI_10916' => 'sgi', 'SEGI_16217' => 'sgi', 'SEGI_19466' => 'sgi', 'SEGI_41115' => 'sgi', 'SGA_v2.0_scaffold111G31534' => 'sas', 'SGA_v2.0_scaffold22G09864' => 'sas', 'SGA_v2.0_scaffold338G49219' => 'sas', 'SGA_v2.0_scaffold92G28298' => 'sas', 'SMO119G0064' => 'smo', 'SMO223G0038' => 'smo', 'SMO347G0584' => 'smo', 'SMO351G0010' => 'smo', 'SMO356G0404' => 'smo', 'Solyc01g103920.3' => 'sly', 'Solyc04g009710.2' => 'sly', 'Solyc05g055280.2' => 'sly', 'Solyc10g044520.3' => 'sly', 'Solyc10g075160.1' => 'sly', 'Solyc11g006910.3' => 'sly', 'Solyc11g068430.3' => 'sly', 'Sopen01g046310' => 'spe', 'Sopen03g001200' => 'spe', 'Sopen04g004830' => 'spe', 'Sopen05g033720' => 'spe', 'Sopen06g030740' => 'spe', 'Sopen10g013090' => 'spe', 'Sopen10g027630' => 'spe', 'Sopen10g027640' => 'spe', 'Sopen11g002820' => 'spe', 'Sopen11g027140' => 'spe', 'Sp1g09680' => 'spa', 'Sp2g03630' => 'spa', 'Sp4g10320' => 'spa', 'Sp6g33400' => 'spa', 'Sp7g13030' => 'spa', 'TAR365G0317' => 'tar', 'TAR376G0979' => 'tar', 'TAR623G1665' => 'tar', 'TAR633G2373' => 'tar', 'TAR636G1400' => 'tar', 'THA.LOC104800529' => 'tha', 'THA.LOC104808547' => 'tha', 'THA.LOC104809615' => 'tha', 'THA.LOC104815724' => 'tha', 'THA.LOC104818480' => 'tha', 'THA.LOC104819179' => 'tha', 'THA.LOC104822270' => 'tha', 'THA.LOC104826425' => 'tha', 'Thecc.02G089700' => 'tca', 'Thecc.04G232300' => 'tca', 'Thecc.09G283400' => 'tca', 'Thhalv10009020m.g' => 'esa', 'Thhalv10015506m.g' => 'esa', 'Thhalv10017364m.g' => 'esa', 'Thhalv10023742m.g' => 'esa', 'Thhalv10026483m.g' => 'esa', 'TPR.G17232' => 'tpr', 'TPR.G2133' => 'tpr', 'TPR.G2498' => 'tpr', 'TPR.G31942' => 'tpr', 'TPR.G37877' => 'tpr', 'TPR.G4571' => 'tpr', 'TWI14G1113' => 'twi', 'TWI15G0426' => 'twi', 'TWI31G1005' => 'twi', 'TWI38G0513' => 'twi', 'TWI38G1484' => 'twi', 'TWI73G1098' => 'twi', 'unitig_26.g10519' => 'ugi', 'unitig_736.g22395' => 'ugi', 'unitig_747.g21234' => 'ugi', 'unitig_747.g21942' => 'ugi', 'vmacro14351' => 'vma', 'VMungo0540G0082' => 'vmu', 'VMungo0540G0405' => 'vmu', 'VMungo0540G1486' => 'vmu', 'VMungo0540G1692' => 'vmu', 'VMungo0720G2473' => 'vmu', 'VMungo1127G1562' => 'vmu', 'VMungo1215G1918' => 'vmu', 'Zm00001eb052650' => 'zma', 'Zm00001eb063710' => 'zma', 'Zm00001eb083950' => 'zma', 'Zm00001eb174420' => 'zma', 'Zm00001eb260140' => 'zma', 'Zm00001eb260150' => 'zma', 'Zm00001eb260160' => 'zma', 'Zm00001eb348290' => 'zma', 'Zm00001eb366870' => 'zma', 'Zm00001eb421930' => 'zma' ) $gf_id = 'HOM05D001025' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001025' ) $data_identifier = 'HOM05D001025' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 19, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 2, 'amhyb' => (int) 4, 'aly' => (int) 4, 'aox' => (int) 4, 'arhy' => (int) 3, 'ath' => (int) 5, 'atr' => (int) 4, 'acertr' => (int) 3, 'cqu' => (int) 7, 'bca' => (int) 17, 'bol' => (int) 10, 'bra' => (int) 9, 'can' => (int) 10, 'cansat' => (int) 6, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 5, 'cbr' => (int) 5, 'ccan' => (int) 5, 'cde' => (int) 4, 'cfa' => (int) 3, 'ccl' => (int) 6, 'cil' => (int) 4, 'cla' => (int) 3, 'col' => (int) 3, 'cpa' => (int) 3, 'cre' => (int) 7, 'csa' => (int) 5, 'camsi' => (int) 9, 'dca' => (int) 4, 'din' => (int) 5, 'dzi' => (int) 7, 'eca' => (int) 6, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 12, 'fve' => (int) 4, 'gma' => (int) 12, 'ghi' => (int) 17, 'gra' => (int) 9, 'vvi' => (int) 2, 'han' => (int) 8, 'cav' => (int) 5, 'hma' => (int) 9, 'vpl' => (int) 4, 'sun' => (int) 2, 'lal' => (int) 9, 'lja' => (int) 5, 'lonja' => (int) 6, 'lsa' => (int) 3, 'mes' => (int) 8, 'mpo' => (int) 3, 'mbi' => (int) 4, 'mco' => (int) 3, 'mdo' => (int) 5, 'mtr' => (int) 7, 'cme' => (int) 6, 'egut' => (int) 7, 'ama' => (int) 3, 'nta' => (int) 12, 'nnu' => (int) 9, 'oeu' => (int) 4, 'osa' => (int) 7, 'pax' => (int) 9, 'pgr' => (int) 5, 'stu' => (int) 8, 'pvu' => (int) 6, 'ptr' => (int) 9, 'ppa' => (int) 9, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 7, 'pso' => (int) 10, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 3, 'sbr' => (int) 8, 'sbo' => (int) 5, 'sci' => (int) 5, 'sed' => (int) 4, 'sgi' => (int) 4, 'sas' => (int) 4, 'smo' => (int) 5, 'sly' => (int) 7, 'spe' => (int) 10, 'spa' => (int) 5, 'tar' => (int) 5, 'tha' => (int) 8, 'tca' => (int) 3, 'esa' => (int) 5, 'tpr' => (int) 6, 'twi' => (int) 6, 'ugi' => (int) 4, 'vma' => (int) 1, 'vmu' => (int) 7, 'zma' => (int) 10 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb421930' $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' => 'HOM05D001025', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '592', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p22650' => 'bna', 'A01p29720' => 'bna', 'A03p26560' => 'bna', 'A03p68820' => 'bna', 'A04p20980' => 'bna', 'A06p07730' => 'bna', 'A07p18260' => 'bna', 'A08p33710' => 'bna', 'A09p16970' => 'bna', 'A10p27490' => 'bna', 'Aa31LG1G17300' => 'aar', 'Aa31LG1G3910' => 'aar', 'Aa31LG2G9630' => 'aar', 'Aa31LG5G8360' => 'aar', 'Aa31LG9G2410' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4699' => 'aag', 'Actinidia23512' => 'ach', 'Actinidia37080' => 'ach', 'Ah.01g020380' => 'amhyb', 'Ah.08g215710' => 'amhyb', 'Ah.09g225110' => 'amhyb', 'Ah.10g036680' => 'amhyb', 'AL1G21940' => 'aly', 'AL2G15540' => 'aly', 'AL4G21520' => 'aly', 'AL7G40960' => 'aly', 'Aqoxy2G01191' => 'aox', 'Aqoxy2G03393' => 'aox', 'Aqoxy4G02775' => 'aox', 'Aqoxy6G00058' => 'aox', 'arahy.Tifrunner.gnm1.ann1.9X74H2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CW3FX9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R485W7' => 'arhy', 'AT1G10960' => 'ath', 'AT1G60950' => 'ath', 'AT2G27510' => 'ath', 'AT4G14890' => 'ath', 'AT5G10000' => 'ath', 'ATR0665G624' => 'atr', 'ATR0697G138' => 'atr', 'ATR0776G046' => 'atr', 'ATR1134G135' => 'atr', 'Atru.chr12.1025' => 'acertr', 'Atru.chr3.3241' => 'acertr', 'Atru.chr4.2460' => 'acertr', 'AUR62007427' => 'cqu', 'AUR62010960' => 'cqu', 'AUR62012201' => 'cqu', 'AUR62021470' => 'cqu', 'AUR62022834' => 'cqu', 'AUR62033635' => 'cqu', 'AUR62036186' => 'cqu', 'BcaB01g03077' => 'bca', 'BcaB02g10093' => 'bca', 'BcaB04g20295' => 'bca', 'BcaB06g28147' => 'bca', 'BcaB07g31253' => 'bca', 'BcaC01g04946' => 'bca', 'BcaC02g10614' => 'bca', 'BcaC02g10885' => 'bca', 'BcaC04g19356' => 'bca', 'BcaC04g22297' => 'bca', 'BcaC05g24977' => 'bca', 'BcaC06g31823' => 'bca', 'BcaC07g38633' => 'bca', 'BcaC09g49353' => 'bca', 'BcaC09g50168' => 'bca', 'BcaNung00322' => 'bca', 'BcaNung04769' => 'bca', 'BolC1t02753H' => 'bol', 'BolC1t03721H' => 'bol', 'BolC3t15525H' => 'bol', 'BolC4t23903H' => 'bol', 'BolC4t24231H' => 'bol', 'BolC4t27209H' => 'bol', 'BolC5t29671H' => 'bol', 'BolC8t49044H' => 'bol', 'BolC9t54999H' => 'bol', 'BolC9t59517H' => 'bol', 'BraA01t02178Z' => 'bra', 'BraA01t03099Z' => 'bra', 'BraA03t11867Z' => 'bra', 'BraA04t17667Z' => 'bra', 'BraA07t29542Z' => 'bra', 'BraA08t35287Z' => 'bra', 'BraA09t37334Z' => 'bra', 'BraA10t44801Z' => 'bra', 'BraSC39t46181Z' => 'bra', 'C01p28240' => 'bna', 'C01p37530' => 'bna', 'C03p31820' => 'bna', 'C04p24080' => 'bna', 'C04p25790' => 'bna', 'C04p56770' => 'bna', 'C05p09310' => 'bna', 'C09p21010' => 'bna', 'C09p67560' => 'bna', 'CAN.G1324.7' => 'can', 'CAN.G1358.10' => 'can', 'CAN.G1550.2' => 'can', 'CAN.G186.56' => 'can', 'CAN.G1965.1' => 'can', 'CAN.G645.15' => 'can', 'CAN.G798.26' => 'can', 'CAN.G798.27' => 'can', 'CAN.G798.29' => 'can', 'CAN.G919.31' => 'can', 'CANSAT11G0133' => 'cansat', 'CANSAT11G1171' => 'cansat', 'CANSAT11G2056' => 'cansat', 'CANSAT56G1202' => 'cansat', 'CANSAT56G1514' => 'cansat', 'CANSAT78G0455' => 'cansat', 'CARHR011190' => 'chi', 'CARHR051980' => 'chi', 'CARHR120170' => 'chi', 'CARHR203310' => 'chi', 'CARHR221490' => 'chi', 'Carub.0001s1054' => 'cru', 'Carub.0002s0431' => 'cru', 'Carub.0004s0818' => 'cru', 'Carub.0006s0846' => 'cru', 'Carub.0007s2722' => 'cru', 'Ca_00058_v3' => 'car', 'Ca_17831_v3' => 'car', 'Ca_19408_v3' => 'car', 'Ca_24397_v3' => 'car', 'Ca_25664_v3' => 'car', 'CBR_g21818' => 'cbr', 'CBR_g31195' => 'cbr', 'CBR_g32282' => 'cbr', 'CBR_g39599' => 'cbr', 'CBR_g49410' => 'cbr', 'Cc01_g09120' => 'ccan', 'Cc01_g09130' => 'ccan', 'Cc02_g09630' => 'ccan', 'Cc02_g22810' => 'ccan', 'Cc03_g03810' => 'ccan', 'CDE02G3718' => 'cde', 'CDE04G3183' => 'cde', 'CDE07G1046' => 'cde', 'CDE08G0480' => 'cde', 'Cfa005493' => 'cfa', 'Cfa010312' => 'cfa', 'Cfa015648' => 'cfa', 'Ciclev10002793m.g' => 'ccl', 'Ciclev10003356m.g' => 'ccl', 'Ciclev10006141m.g' => 'ccl', 'Ciclev10016676m.g' => 'ccl', 'Ciclev10017081m.g' => 'ccl', 'Ciclev10029499m.g' => 'ccl', 'CiPaw.01G166300' => 'cil', 'CiPaw.06G145600' => 'cil', 'CiPaw.13G040100' => 'cil', 'CiPaw.13G135800' => 'cil', 'ClCG01G012230' => 'cla', 'ClCG05G009510' => 'cla', 'ClCG08G008270' => 'cla', 'COL.COLO4_11763' => 'col', 'COL.COLO4_19876' => 'col', 'COL.COLO4_21481' => 'col', 'Cpa.g.sc118.34' => 'cpa', 'Cpa.g.sc32.13' => 'cpa', 'Cpa.g.sc58.103' => 'cpa', 'Cre03.g183850' => 'cre', 'Cre06.g306350' => 'cre', 'Cre07.g334800' => 'cre', 'Cre12.g487900' => 'cre', 'Cre14.g626700' => 'cre', 'Cre16.g658400' => 'cre', 'Cre17.g700950' => 'cre', 'CsaV3_1G014830' => 'csa', 'CsaV3_3G013320' => 'csa', 'CsaV3_3G019210' => 'csa', 'CsaV3_3G019220' => 'csa', 'CsaV3_6G004230' => 'csa', 'CSS0003773' => 'camsi', 'CSS0004563' => 'camsi', 'CSS0013949' => 'camsi', 'CSS0025971' => 'camsi', 'CSS0028570' => 'camsi', 'CSS0033127' => 'camsi', 'CSS0036051' => 'camsi', 'CSS0040087' => 'camsi', 'CSS0043179' => 'camsi', 'DCAR_006161' => 'dca', 'DCAR_010351' => 'dca', 'DCAR_012197' => 'dca', 'DCAR_024162' => 'dca', 'Dinv01030' => 'din', 'Dinv10924' => 'din', 'Dinv11835' => 'din', 'Dinv22841' => 'din', 'Dinv42553' => 'din', 'Duzib052G0560' => 'dzi', 'Duzib132G0389' => 'dzi', 'Duzib150G1181' => 'dzi', 'Duzib168G0623' => 'dzi', 'Duzib170G1036' => 'dzi', 'Duzib212G0200' => 'dzi', 'Duzib248G0194' => 'dzi', 'ECA232G2193' => 'eca', 'ECA233G0302' => 'eca', 'ECA234G2813' => 'eca', 'ECA234G4866' => 'eca', 'ECA240G3932' => 'eca', 'ECA248G0385' => 'eca', 'EL10Ac2g04781' => 'bvu', 'EL10Ac3g06445' => 'bvu', 'EL10Ac7g15825' => 'bvu', 'EL10Ac8g18550' => 'bvu', 'Eucgr.B03849' => 'egr', 'Eucgr.I02744' => 'egr', 'Eucgr.J00264' => 'egr', 'Eucgr.J00493' => 'egr', 'FAN04G2181' => 'fan', 'FAN07G2666' => 'fan', 'FAN11G0024' => 'fan', 'FAN12G1105' => 'fan', 'FAN13G0302' => 'fan', 'FAN15G2781' => 'fan', 'FAN16G1274' => 'fan', 'FAN17G2988' => 'fan', 'FAN18G2621' => 'fan', 'FAN21G0013' => 'fan', 'FAN22G1211' => 'fan', 'FAN25G3626' => 'fan', 'FvH4_2g09491' => 'fve', 'FvH4_3g24910' => 'fve', 'FvH4_4g15630' => 'fve', 'FvH4_5g28820' => 'fve', 'Glyma.01G238000' => 'gma', 'Glyma.05G168400' => 'gma', 'Glyma.08G126800' => 'gma', 'Glyma.08G188500' => 'gma', 'Glyma.10G278900' => 'gma', 'Glyma.11G005700' => 'gma', 'Glyma.11G183300' => 'gma', 'Glyma.12G089200' => 'gma', 'Glyma.12G169400' => 'gma', 'Glyma.12G169500' => 'gma', 'Glyma.12G169600' => 'gma', 'Glyma.20G110800' => 'gma', 'Gohir.A03G192900' => 'ghi', 'Gohir.A03G193000' => 'ghi', 'Gohir.A05G080700' => 'ghi', 'Gohir.A09G216000' => 'ghi', 'Gohir.A12G027700' => 'ghi', 'Gohir.A13G036200' => 'ghi', 'Gohir.A13G222600' => 'ghi', 'Gohir.D02G213900' => 'ghi', 'Gohir.D02G214000' => 'ghi', 'Gohir.D05G083700' => 'ghi', 'Gohir.D05G083800' => 'ghi', 'Gohir.D05G083850' => 'ghi', 'Gohir.D08G015400' => 'ghi', 'Gohir.D09G218400' => 'ghi', 'Gohir.D12G027100' => 'ghi', 'Gohir.D13G034500' => 'ghi', 'Gohir.D13G227400' => 'ghi', 'Gorai.005G241800' => 'gra', 'Gorai.005G241900' => 'gra', 'Gorai.006G239400' => 'gra', 'Gorai.008G027600' => 'gra', 'Gorai.009G085400' => 'gra', 'Gorai.009G085500' => 'gra', 'Gorai.013G039000' => 'gra', 'Gorai.013G194800' => 'gra', 'Gorai.013G257900' => 'gra', 'GSVIVG01000982001' => 'vvi', 'GSVIVG01017981001' => 'vvi', 'HanXRQChr01g0024061' => 'han', 'HanXRQChr09g0247831' => 'han', 'HanXRQChr10g0294611' => 'han', 'HanXRQChr10g0294621' => 'han', 'HanXRQChr11g0346821' => 'han', 'HanXRQChr13g0397461' => 'han', 'HanXRQChr16g0513651' => 'han', 'HanXRQChr16g0513701' => 'han', 'Haze_00897' => 'cav', 'Haze_01745' => 'cav', 'Haze_02486' => 'cav', 'Haze_02487' => 'cav', 'Haze_23374' => 'cav', 'Hma1.2p1_0578F.1_g182520' => 'hma', 'Hma1.2p1_0602F.1_g187350' => 'hma', 'Hma1.2p1_0602F.1_g187360' => 'hma', 'Hma1.2p1_0874F.1_g231320' => 'hma', 'Hma1.2p1_1197F.1_g266210' => 'hma', 'Hma1.2p1_1197F.1_g266220' => 'hma', 'Hma1.2p1_2167F.1_g315895' => 'hma', 'Hma1.2p1_2190F.1_g316640' => 'hma', 'Hma1.2p1_3645F.1_g337153' => 'hma', 'HPP92_004907' => 'vpl', 'HPP92_012134' => 'vpl', 'HPP92_025136' => 'vpl', 'HPP92_026087' => 'vpl', 'Hund06782' => 'sun', 'Hund06784' => 'sun', 'Lalb_Chr01g0004861' => 'lal', 'Lalb_Chr02g0140591' => 'lal', 'Lalb_Chr02g0140611' => 'lal', 'Lalb_Chr03g0028101' => 'lal', 'Lalb_Chr07g0185791' => 'lal', 'Lalb_Chr12g0204491' => 'lal', 'Lalb_Chr13g0295671' => 'lal', 'Lalb_Chr19g0136461' => 'lal', 'Lalb_Chr21g0309191' => 'lal', 'Lj1g0028158' => 'lja', 'Lj1P236T38' => 'lonja', 'Lj2C32G2' => 'lonja', 'Lj2P944T8' => 'lonja', 'Lj2P963T15' => 'lonja', 'Lj3g0011788' => 'lja', 'Lj4g0025027' => 'lja', 'Lj5P255T36' => 'lonja', 'Lj6g0018866' => 'lja', 'Lj6P608T31' => 'lonja', 'LjContig00408g0008879' => 'lja', 'Lsat_1_v5_gn_5_105820' => 'lsa', 'Lsat_1_v5_gn_6_38800' => 'lsa', 'Lsat_1_v5_gn_7_67141' => 'lsa', 'Manes.04G003400' => 'mes', 'Manes.07G020000' => 'mes', 'Manes.07G020100' => 'mes', 'Manes.07G020150' => 'mes', 'Manes.10G061500' => 'mes', 'Manes.10G123200' => 'mes', 'Manes.11G161900' => 'mes', 'Manes.15G029300' => 'mes', 'Mapoly0071s0018' => 'mpo', 'Mapoly0082s0023' => 'mpo', 'Mapoly3477s0001' => 'mpo', 'MBI05_g31233_MAGBIO' => 'mbi', 'MBI09_g05946_MAGBIO' => 'mbi', 'MBI09_g05947_MAGBIO' => 'mbi', 'MBI17_g08346_MAGBIO' => 'mbi', 'MCO04G038' => 'mco', 'MCO09G370' => 'mco', 'MCO13G605' => 'mco', 'MD00G1075500' => 'mdo', 'MD03G1144300' => 'mdo', 'MD08G1236800' => 'mdo', 'MD13G1193300' => 'mdo', 'MD15G1428700' => 'mdo', 'Medtr1g112030' => 'mtr', 'Medtr1g112050' => 'mtr', 'Medtr2g006290' => 'mtr', 'Medtr2g086510' => 'mtr', 'Medtr4g053120' => 'mtr', 'Medtr5g006320' => 'mtr', 'Medtr8g088720' => 'mtr', 'MELO3C004712.2' => 'cme', 'MELO3C006533.2' => 'cme', 'MELO3C019438.2' => 'cme', 'MELO3C019440.2' => 'cme', 'MELO3C019441.2' => 'cme', 'MELO3C019895.2' => 'cme', 'Migut.B00811' => 'egut', 'Migut.D02447' => 'egut', 'Migut.F00875' => 'egut', 'Migut.N00186' => 'egut', 'Migut.N01051' => 'egut', 'Migut.N02491' => 'egut', 'Migut.O00784' => 'egut', 'MSTRG.12367' => 'ama', 'MSTRG.18756' => 'ama', 'MSTRG.21042' => 'ama', 'Nitab4.5_0000559g0040' => 'nta', 'Nitab4.5_0000667g0190' => 'nta', 'Nitab4.5_0000755g0160' => 'nta', 'Nitab4.5_0001216g0080' => 'nta', 'Nitab4.5_0004069g0040' => 'nta', 'Nitab4.5_0004129g0010' => 'nta', 'Nitab4.5_0005744g0030' => 'nta', 'Nitab4.5_0006996g0030' => 'nta', 'Nitab4.5_0008971g0040' => 'nta', 'Nitab4.5_0009769g0020' => 'nta', 'Nitab4.5_0009833g0010' => 'nta', 'Nitab4.5_0013140g0020' => 'nta', 'Nn003s41376' => 'nnu', 'Nn1g01857' => 'nnu', 'Nn1g03611' => 'nnu', 'Nn1g06853' => 'nnu', 'Nn3g18360' => 'nnu', 'Nn4g26328' => 'nnu', 'Nn5g27531' => 'nnu', 'Nn6g34899' => 'nnu', 'Nn7g36299' => 'nnu', 'Oeu021485.1' => 'oeu', 'Oeu022433.1' => 'oeu', 'Oeu032111.1' => 'oeu', 'Oeu051608.1' => 'oeu', 'Os01g0860601' => 'osa', 'Os03g0659200' => 'osa', 'Os03g0835900' => 'osa', 'Os04g0412200' => 'osa', 'Os05g0443500' => 'osa', 'Os07g0251500' => 'osa', 'Os08g0104600' => 'osa', 'Peaxi162Scf00003g00047' => 'pax', 'Peaxi162Scf00003g00052' => 'pax', 'Peaxi162Scf00003g00394' => 'pax', 'Peaxi162Scf00091g00621' => 'pax', 'Peaxi162Scf00152g00146' => 'pax', 'Peaxi162Scf00173g00025' => 'pax', 'Peaxi162Scf00195g00102' => 'pax', 'Peaxi162Scf00402g00013' => 'pax', 'Peaxi162Scf00519g00618' => 'pax', 'PGR004G2838' => 'pgr', 'PGR044G2275' => 'pgr', 'PGR102G1377' => 'pgr', 'PGR119G1245' => 'pgr', 'PGR142G4449' => 'pgr', 'PGSC0003DMG400004532' => 'stu', 'PGSC0003DMG400011950' => 'stu', 'PGSC0003DMG400023391' => 'stu', 'PGSC0003DMG400023985' => 'stu', 'PGSC0003DMG400026360' => 'stu', 'PGSC0003DMG400035711' => 'stu', 'PGSC0003DMG400037286' => 'stu', 'PGSC0003DMG402005881' => 'stu', 'Phvul.002G045400' => 'pvu', 'Phvul.006G216600' => 'pvu', 'Phvul.006G216700' => 'pvu', 'Phvul.006G216800' => 'pvu', 'Phvul.007G022500' => 'pvu', 'Phvul.011G094400' => 'pvu', 'Potri.001G470700' => 'ptr', 'Potri.003G015200' => 'ptr', 'Potri.004G202500' => 'ptr', 'Potri.004G218400' => 'ptr', 'Potri.008G020100' => 'ptr', 'Potri.008G153200' => 'ptr', 'Potri.009G163800' => 'ptr', 'Potri.010G087300' => 'ptr', 'Potri.010G239100' => 'ptr', 'Pp3c10_16100' => 'ppa', 'Pp3c10_16880' => 'ppa', 'Pp3c16_6230' => 'ppa', 'Pp3c17_18910' => 'ppa', 'Pp3c3_22119' => 'ppa', 'Pp3c3_22140' => 'ppa', 'Pp3c4_8159' => 'ppa', 'Pp3c4_8171' => 'ppa', 'Pp3c4_8330' => 'ppa', 'PRCOL_00004098' => 'pco', 'Prupe.1G013900' => 'ppe', 'Prupe.1G226300' => 'ppe', 'Prupe.1G573600' => 'ppe', 'Prupe.6G130100' => 'ppe', 'Psat3g090040' => 'psa', 'Psat4g210440' => 'psa', 'Psat6g231040' => 'psa', 'Psat6g231080' => 'psa', 'Psat7g063000' => 'psa', 'Psat7g188000' => 'psa', 'Psat7g188040' => 'psa', 'PSO017G0206' => 'pso', 'PSO170G0501' => 'pso', 'PSO170G6422' => 'pso', 'PSO210G7739' => 'pso', 'PSO339G1808' => 'pso', 'PSO339G6135' => 'pso', 'PSO384G0010' => 'pso', 'PSO384G0964' => 'pso', 'PSO761G0050' => 'pso', 'PSO782G4085' => 'pso', 'QL01p012264' => 'qlo', 'QL02p099491' => 'qlo', 'QL03p033868' => 'qlo', 'QL04p046678' => 'qlo', 'QL06p002448' => 'qlo', 'RcHm_v2.0_Chr4g0416181' => 'rch', 'RcHm_v2.0_Chr5g0044701' => 'rch', 'RcHm_v2.0_Chr6g0265781' => 'rch', 'RcHm_v2.0_Chr7g0221031' => 'rch', 'Rhsim04G0202000' => 'rsi', 'Rhsim11G0127300' => 'rsi', 'Rhsim13G0111800' => 'rsi', 'Sabra01G0165600' => 'sbr', 'Sabra03G0008300' => 'sbr', 'Sabra04G0136900' => 'sbr', 'Sabra08G0013400' => 'sbr', 'Sabra08G0116800' => 'sbr', 'Sabra09G0128000' => 'sbr', 'Sabra10G0055500' => 'sbr', 'Sabra10G0073300' => 'sbr', 'SalBow3G0385' => 'sbo', 'SalBow3G1119' => 'sbo', 'SalBow3G2005' => 'sbo', 'SalBow6G2563' => 'sbo', 'SalBow6G6386' => 'sbo', 'Sc06g0008800' => 'sci', 'Sc07g0004950' => 'sci', 'Sc09g0005340' => 'sci', 'Sc13g0004410' => 'sci', 'Sc21g0007090' => 'sci', 'Sed0009285' => 'sed', 'Sed0017583' => 'sed', 'Sed0019699' => 'sed', 'Sed0023107' => 'sed', 'SEGI_10916' => 'sgi', 'SEGI_16217' => 'sgi', 'SEGI_19466' => 'sgi', 'SEGI_41115' => 'sgi', 'SGA_v2.0_scaffold111G31534' => 'sas', 'SGA_v2.0_scaffold22G09864' => 'sas', 'SGA_v2.0_scaffold338G49219' => 'sas', 'SGA_v2.0_scaffold92G28298' => 'sas', 'SMO119G0064' => 'smo', 'SMO223G0038' => 'smo', 'SMO347G0584' => 'smo', 'SMO351G0010' => 'smo', 'SMO356G0404' => 'smo', 'Solyc01g103920.3' => 'sly', 'Solyc04g009710.2' => 'sly', 'Solyc05g055280.2' => 'sly', 'Solyc10g044520.3' => 'sly', 'Solyc10g075160.1' => 'sly', 'Solyc11g006910.3' => 'sly', 'Solyc11g068430.3' => 'sly', 'Sopen01g046310' => 'spe', 'Sopen03g001200' => 'spe', 'Sopen04g004830' => 'spe', 'Sopen05g033720' => 'spe', 'Sopen06g030740' => 'spe', 'Sopen10g013090' => 'spe', 'Sopen10g027630' => 'spe', 'Sopen10g027640' => 'spe', 'Sopen11g002820' => 'spe', 'Sopen11g027140' => 'spe', 'Sp1g09680' => 'spa', 'Sp2g03630' => 'spa', 'Sp4g10320' => 'spa', 'Sp6g33400' => 'spa', 'Sp7g13030' => 'spa', 'TAR365G0317' => 'tar', 'TAR376G0979' => 'tar', 'TAR623G1665' => 'tar', 'TAR633G2373' => 'tar', 'TAR636G1400' => 'tar', 'THA.LOC104800529' => 'tha', 'THA.LOC104808547' => 'tha', 'THA.LOC104809615' => 'tha', 'THA.LOC104815724' => 'tha', 'THA.LOC104818480' => 'tha', 'THA.LOC104819179' => 'tha', 'THA.LOC104822270' => 'tha', 'THA.LOC104826425' => 'tha', 'Thecc.02G089700' => 'tca', 'Thecc.04G232300' => 'tca', 'Thecc.09G283400' => 'tca', 'Thhalv10009020m.g' => 'esa', 'Thhalv10015506m.g' => 'esa', 'Thhalv10017364m.g' => 'esa', 'Thhalv10023742m.g' => 'esa', 'Thhalv10026483m.g' => 'esa', 'TPR.G17232' => 'tpr', 'TPR.G2133' => 'tpr', 'TPR.G2498' => 'tpr', 'TPR.G31942' => 'tpr', 'TPR.G37877' => 'tpr', 'TPR.G4571' => 'tpr', 'TWI14G1113' => 'twi', 'TWI15G0426' => 'twi', 'TWI31G1005' => 'twi', 'TWI38G0513' => 'twi', 'TWI38G1484' => 'twi', 'TWI73G1098' => 'twi', 'unitig_26.g10519' => 'ugi', 'unitig_736.g22395' => 'ugi', 'unitig_747.g21234' => 'ugi', 'unitig_747.g21942' => 'ugi', 'vmacro14351' => 'vma', 'VMungo0540G0082' => 'vmu', 'VMungo0540G0405' => 'vmu', 'VMungo0540G1486' => 'vmu', 'VMungo0540G1692' => 'vmu', 'VMungo0720G2473' => 'vmu', 'VMungo1127G1562' => 'vmu', 'VMungo1215G1918' => 'vmu', 'Zm00001eb052650' => 'zma', 'Zm00001eb063710' => 'zma', 'Zm00001eb083950' => 'zma', 'Zm00001eb174420' => 'zma', 'Zm00001eb260140' => 'zma', 'Zm00001eb260150' => 'zma', 'Zm00001eb260160' => 'zma', 'Zm00001eb348290' => 'zma', 'Zm00001eb366870' => 'zma', 'Zm00001eb421930' => 'zma' ), 'gf_id' => 'HOM05D001025', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001025' ), 'data_identifier' => 'HOM05D001025', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001025', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '592', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p22650' => 'bna', 'A01p29720' => 'bna', 'A03p26560' => 'bna', 'A03p68820' => 'bna', 'A04p20980' => 'bna', 'A06p07730' => 'bna', 'A07p18260' => 'bna', 'A08p33710' => 'bna', 'A09p16970' => 'bna', 'A10p27490' => 'bna', 'Aa31LG1G17300' => 'aar', 'Aa31LG1G3910' => 'aar', 'Aa31LG2G9630' => 'aar', 'Aa31LG5G8360' => 'aar', 'Aa31LG9G2410' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4699' => 'aag', 'Actinidia23512' => 'ach', 'Actinidia37080' => 'ach', 'Ah.01g020380' => 'amhyb', 'Ah.08g215710' => 'amhyb', 'Ah.09g225110' => 'amhyb', 'Ah.10g036680' => 'amhyb', 'AL1G21940' => 'aly', 'AL2G15540' => 'aly', 'AL4G21520' => 'aly', 'AL7G40960' => 'aly', 'Aqoxy2G01191' => 'aox', 'Aqoxy2G03393' => 'aox', 'Aqoxy4G02775' => 'aox', 'Aqoxy6G00058' => 'aox', 'arahy.Tifrunner.gnm1.ann1.9X74H2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CW3FX9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R485W7' => 'arhy', 'AT1G10960' => 'ath', 'AT1G60950' => 'ath', 'AT2G27510' => 'ath', 'AT4G14890' => 'ath', 'AT5G10000' => 'ath', 'ATR0665G624' => 'atr', 'ATR0697G138' => 'atr', 'ATR0776G046' => 'atr', 'ATR1134G135' => 'atr', 'Atru.chr12.1025' => 'acertr', 'Atru.chr3.3241' => 'acertr', 'Atru.chr4.2460' => 'acertr', 'AUR62007427' => 'cqu', 'AUR62010960' => 'cqu', 'AUR62012201' => 'cqu', 'AUR62021470' => 'cqu', 'AUR62022834' => 'cqu', 'AUR62033635' => 'cqu', 'AUR62036186' => 'cqu', 'BcaB01g03077' => 'bca', 'BcaB02g10093' => 'bca', 'BcaB04g20295' => 'bca', 'BcaB06g28147' => 'bca', 'BcaB07g31253' => 'bca', 'BcaC01g04946' => 'bca', 'BcaC02g10614' => 'bca', 'BcaC02g10885' => 'bca', 'BcaC04g19356' => 'bca', 'BcaC04g22297' => 'bca', 'BcaC05g24977' => 'bca', 'BcaC06g31823' => 'bca', 'BcaC07g38633' => 'bca', 'BcaC09g49353' => 'bca', 'BcaC09g50168' => 'bca', 'BcaNung00322' => 'bca', 'BcaNung04769' => 'bca', 'BolC1t02753H' => 'bol', 'BolC1t03721H' => 'bol', 'BolC3t15525H' => 'bol', 'BolC4t23903H' => 'bol', 'BolC4t24231H' => 'bol', 'BolC4t27209H' => 'bol', 'BolC5t29671H' => 'bol', 'BolC8t49044H' => 'bol', 'BolC9t54999H' => 'bol', 'BolC9t59517H' => 'bol', 'BraA01t02178Z' => 'bra', 'BraA01t03099Z' => 'bra', 'BraA03t11867Z' => 'bra', 'BraA04t17667Z' => 'bra', 'BraA07t29542Z' => 'bra', 'BraA08t35287Z' => 'bra', 'BraA09t37334Z' => 'bra', 'BraA10t44801Z' => 'bra', 'BraSC39t46181Z' => 'bra', 'C01p28240' => 'bna', 'C01p37530' => 'bna', 'C03p31820' => 'bna', 'C04p24080' => 'bna', 'C04p25790' => 'bna', 'C04p56770' => 'bna', 'C05p09310' => 'bna', 'C09p21010' => 'bna', 'C09p67560' => 'bna', 'CAN.G1324.7' => 'can', 'CAN.G1358.10' => 'can', 'CAN.G1550.2' => 'can', 'CAN.G186.56' => 'can', 'CAN.G1965.1' => 'can', 'CAN.G645.15' => 'can', 'CAN.G798.26' => 'can', 'CAN.G798.27' => 'can', 'CAN.G798.29' => 'can', 'CAN.G919.31' => 'can', 'CANSAT11G0133' => 'cansat', 'CANSAT11G1171' => 'cansat', 'CANSAT11G2056' => 'cansat', 'CANSAT56G1202' => 'cansat', 'CANSAT56G1514' => 'cansat', 'CANSAT78G0455' => 'cansat', 'CARHR011190' => 'chi', 'CARHR051980' => 'chi', 'CARHR120170' => 'chi', 'CARHR203310' => 'chi', 'CARHR221490' => 'chi', 'Carub.0001s1054' => 'cru', 'Carub.0002s0431' => 'cru', 'Carub.0004s0818' => 'cru', 'Carub.0006s0846' => 'cru', 'Carub.0007s2722' => 'cru', 'Ca_00058_v3' => 'car', 'Ca_17831_v3' => 'car', 'Ca_19408_v3' => 'car', 'Ca_24397_v3' => 'car', 'Ca_25664_v3' => 'car', 'CBR_g21818' => 'cbr', 'CBR_g31195' => 'cbr', 'CBR_g32282' => 'cbr', 'CBR_g39599' => 'cbr', 'CBR_g49410' => 'cbr', 'Cc01_g09120' => 'ccan', 'Cc01_g09130' => 'ccan', 'Cc02_g09630' => 'ccan', 'Cc02_g22810' => 'ccan', 'Cc03_g03810' => 'ccan', 'CDE02G3718' => 'cde', 'CDE04G3183' => 'cde', 'CDE07G1046' => 'cde', 'CDE08G0480' => 'cde', 'Cfa005493' => 'cfa', 'Cfa010312' => 'cfa', 'Cfa015648' => 'cfa', 'Ciclev10002793m.g' => 'ccl', 'Ciclev10003356m.g' => 'ccl', 'Ciclev10006141m.g' => 'ccl', 'Ciclev10016676m.g' => 'ccl', 'Ciclev10017081m.g' => 'ccl', 'Ciclev10029499m.g' => 'ccl', 'CiPaw.01G166300' => 'cil', 'CiPaw.06G145600' => 'cil', 'CiPaw.13G040100' => 'cil', 'CiPaw.13G135800' => 'cil', 'ClCG01G012230' => 'cla', 'ClCG05G009510' => 'cla', 'ClCG08G008270' => 'cla', 'COL.COLO4_11763' => 'col', 'COL.COLO4_19876' => 'col', 'COL.COLO4_21481' => 'col', 'Cpa.g.sc118.34' => 'cpa', 'Cpa.g.sc32.13' => 'cpa', 'Cpa.g.sc58.103' => 'cpa', 'Cre03.g183850' => 'cre', 'Cre06.g306350' => 'cre', 'Cre07.g334800' => 'cre', 'Cre12.g487900' => 'cre', 'Cre14.g626700' => 'cre', 'Cre16.g658400' => 'cre', 'Cre17.g700950' => 'cre', 'CsaV3_1G014830' => 'csa', 'CsaV3_3G013320' => 'csa', 'CsaV3_3G019210' => 'csa', 'CsaV3_3G019220' => 'csa', 'CsaV3_6G004230' => 'csa', 'CSS0003773' => 'camsi', 'CSS0004563' => 'camsi', 'CSS0013949' => 'camsi', 'CSS0025971' => 'camsi', 'CSS0028570' => 'camsi', 'CSS0033127' => 'camsi', 'CSS0036051' => 'camsi', 'CSS0040087' => 'camsi', 'CSS0043179' => 'camsi', 'DCAR_006161' => 'dca', 'DCAR_010351' => 'dca', 'DCAR_012197' => 'dca', 'DCAR_024162' => 'dca', 'Dinv01030' => 'din', 'Dinv10924' => 'din', 'Dinv11835' => 'din', 'Dinv22841' => 'din', 'Dinv42553' => 'din', 'Duzib052G0560' => 'dzi', 'Duzib132G0389' => 'dzi', 'Duzib150G1181' => 'dzi', 'Duzib168G0623' => 'dzi', 'Duzib170G1036' => 'dzi', 'Duzib212G0200' => 'dzi', 'Duzib248G0194' => 'dzi', 'ECA232G2193' => 'eca', 'ECA233G0302' => 'eca', 'ECA234G2813' => 'eca', 'ECA234G4866' => 'eca', 'ECA240G3932' => 'eca', 'ECA248G0385' => 'eca', 'EL10Ac2g04781' => 'bvu', 'EL10Ac3g06445' => 'bvu', 'EL10Ac7g15825' => 'bvu', 'EL10Ac8g18550' => 'bvu', 'Eucgr.B03849' => 'egr', 'Eucgr.I02744' => 'egr', 'Eucgr.J00264' => 'egr', 'Eucgr.J00493' => 'egr', 'FAN04G2181' => 'fan', 'FAN07G2666' => 'fan', 'FAN11G0024' => 'fan', 'FAN12G1105' => 'fan', 'FAN13G0302' => 'fan', 'FAN15G2781' => 'fan', 'FAN16G1274' => 'fan', 'FAN17G2988' => 'fan', 'FAN18G2621' => 'fan', 'FAN21G0013' => 'fan', 'FAN22G1211' => 'fan', 'FAN25G3626' => 'fan', 'FvH4_2g09491' => 'fve', 'FvH4_3g24910' => 'fve', 'FvH4_4g15630' => 'fve', 'FvH4_5g28820' => 'fve', 'Glyma.01G238000' => 'gma', 'Glyma.05G168400' => 'gma', 'Glyma.08G126800' => 'gma', 'Glyma.08G188500' => 'gma', 'Glyma.10G278900' => 'gma', 'Glyma.11G005700' => 'gma', 'Glyma.11G183300' => 'gma', 'Glyma.12G089200' => 'gma', 'Glyma.12G169400' => 'gma', 'Glyma.12G169500' => 'gma', 'Glyma.12G169600' => 'gma', 'Glyma.20G110800' => 'gma', 'Gohir.A03G192900' => 'ghi', 'Gohir.A03G193000' => 'ghi', 'Gohir.A05G080700' => 'ghi', 'Gohir.A09G216000' => 'ghi', 'Gohir.A12G027700' => 'ghi', 'Gohir.A13G036200' => 'ghi', 'Gohir.A13G222600' => 'ghi', 'Gohir.D02G213900' => 'ghi', 'Gohir.D02G214000' => 'ghi', 'Gohir.D05G083700' => 'ghi', 'Gohir.D05G083800' => 'ghi', 'Gohir.D05G083850' => 'ghi', 'Gohir.D08G015400' => 'ghi', 'Gohir.D09G218400' => 'ghi', 'Gohir.D12G027100' => 'ghi', 'Gohir.D13G034500' => 'ghi', 'Gohir.D13G227400' => 'ghi', 'Gorai.005G241800' => 'gra', 'Gorai.005G241900' => 'gra', 'Gorai.006G239400' => 'gra', 'Gorai.008G027600' => 'gra', 'Gorai.009G085400' => 'gra', 'Gorai.009G085500' => 'gra', 'Gorai.013G039000' => 'gra', 'Gorai.013G194800' => 'gra', 'Gorai.013G257900' => 'gra', 'GSVIVG01000982001' => 'vvi', 'GSVIVG01017981001' => 'vvi', 'HanXRQChr01g0024061' => 'han', 'HanXRQChr09g0247831' => 'han', 'HanXRQChr10g0294611' => 'han', 'HanXRQChr10g0294621' => 'han', 'HanXRQChr11g0346821' => 'han', 'HanXRQChr13g0397461' => 'han', 'HanXRQChr16g0513651' => 'han', 'HanXRQChr16g0513701' => 'han', 'Haze_00897' => 'cav', 'Haze_01745' => 'cav', 'Haze_02486' => 'cav', 'Haze_02487' => 'cav', 'Haze_23374' => 'cav', 'Hma1.2p1_0578F.1_g182520' => 'hma', 'Hma1.2p1_0602F.1_g187350' => 'hma', 'Hma1.2p1_0602F.1_g187360' => 'hma', 'Hma1.2p1_0874F.1_g231320' => 'hma', 'Hma1.2p1_1197F.1_g266210' => 'hma', 'Hma1.2p1_1197F.1_g266220' => 'hma', 'Hma1.2p1_2167F.1_g315895' => 'hma', 'Hma1.2p1_2190F.1_g316640' => 'hma', 'Hma1.2p1_3645F.1_g337153' => 'hma', 'HPP92_004907' => 'vpl', 'HPP92_012134' => 'vpl', 'HPP92_025136' => 'vpl', 'HPP92_026087' => 'vpl', 'Hund06782' => 'sun', 'Hund06784' => 'sun', 'Lalb_Chr01g0004861' => 'lal', 'Lalb_Chr02g0140591' => 'lal', 'Lalb_Chr02g0140611' => 'lal', 'Lalb_Chr03g0028101' => 'lal', 'Lalb_Chr07g0185791' => 'lal', 'Lalb_Chr12g0204491' => 'lal', 'Lalb_Chr13g0295671' => 'lal', 'Lalb_Chr19g0136461' => 'lal', 'Lalb_Chr21g0309191' => 'lal', 'Lj1g0028158' => 'lja', 'Lj1P236T38' => 'lonja', 'Lj2C32G2' => 'lonja', 'Lj2P944T8' => 'lonja', 'Lj2P963T15' => 'lonja', 'Lj3g0011788' => 'lja', 'Lj4g0025027' => 'lja', 'Lj5P255T36' => 'lonja', 'Lj6g0018866' => 'lja', 'Lj6P608T31' => 'lonja', 'LjContig00408g0008879' => 'lja', 'Lsat_1_v5_gn_5_105820' => 'lsa', 'Lsat_1_v5_gn_6_38800' => 'lsa', 'Lsat_1_v5_gn_7_67141' => 'lsa', 'Manes.04G003400' => 'mes', 'Manes.07G020000' => 'mes', 'Manes.07G020100' => 'mes', 'Manes.07G020150' => 'mes', 'Manes.10G061500' => 'mes', 'Manes.10G123200' => 'mes', 'Manes.11G161900' => 'mes', 'Manes.15G029300' => 'mes', 'Mapoly0071s0018' => 'mpo', 'Mapoly0082s0023' => 'mpo', 'Mapoly3477s0001' => 'mpo', 'MBI05_g31233_MAGBIO' => 'mbi', 'MBI09_g05946_MAGBIO' => 'mbi', 'MBI09_g05947_MAGBIO' => 'mbi', 'MBI17_g08346_MAGBIO' => 'mbi', 'MCO04G038' => 'mco', 'MCO09G370' => 'mco', 'MCO13G605' => 'mco', 'MD00G1075500' => 'mdo', 'MD03G1144300' => 'mdo', 'MD08G1236800' => 'mdo', 'MD13G1193300' => 'mdo', 'MD15G1428700' => 'mdo', 'Medtr1g112030' => 'mtr', 'Medtr1g112050' => 'mtr', 'Medtr2g006290' => 'mtr', 'Medtr2g086510' => 'mtr', 'Medtr4g053120' => 'mtr', 'Medtr5g006320' => 'mtr', 'Medtr8g088720' => 'mtr', 'MELO3C004712.2' => 'cme', 'MELO3C006533.2' => 'cme', 'MELO3C019438.2' => 'cme', 'MELO3C019440.2' => 'cme', 'MELO3C019441.2' => 'cme', 'MELO3C019895.2' => 'cme', 'Migut.B00811' => 'egut', 'Migut.D02447' => 'egut', 'Migut.F00875' => 'egut', 'Migut.N00186' => 'egut', 'Migut.N01051' => 'egut', 'Migut.N02491' => 'egut', 'Migut.O00784' => 'egut', 'MSTRG.12367' => 'ama', 'MSTRG.18756' => 'ama', 'MSTRG.21042' => 'ama', 'Nitab4.5_0000559g0040' => 'nta', 'Nitab4.5_0000667g0190' => 'nta', 'Nitab4.5_0000755g0160' => 'nta', 'Nitab4.5_0001216g0080' => 'nta', 'Nitab4.5_0004069g0040' => 'nta', 'Nitab4.5_0004129g0010' => 'nta', 'Nitab4.5_0005744g0030' => 'nta', 'Nitab4.5_0006996g0030' => 'nta', 'Nitab4.5_0008971g0040' => 'nta', 'Nitab4.5_0009769g0020' => 'nta', 'Nitab4.5_0009833g0010' => 'nta', 'Nitab4.5_0013140g0020' => 'nta', 'Nn003s41376' => 'nnu', 'Nn1g01857' => 'nnu', 'Nn1g03611' => 'nnu', 'Nn1g06853' => 'nnu', 'Nn3g18360' => 'nnu', 'Nn4g26328' => 'nnu', 'Nn5g27531' => 'nnu', 'Nn6g34899' => 'nnu', 'Nn7g36299' => 'nnu', 'Oeu021485.1' => 'oeu', 'Oeu022433.1' => 'oeu', 'Oeu032111.1' => 'oeu', 'Oeu051608.1' => 'oeu', 'Os01g0860601' => 'osa', 'Os03g0659200' => 'osa', 'Os03g0835900' => 'osa', 'Os04g0412200' => 'osa', 'Os05g0443500' => 'osa', 'Os07g0251500' => 'osa', 'Os08g0104600' => 'osa', 'Peaxi162Scf00003g00047' => 'pax', 'Peaxi162Scf00003g00052' => 'pax', 'Peaxi162Scf00003g00394' => 'pax', 'Peaxi162Scf00091g00621' => 'pax', 'Peaxi162Scf00152g00146' => 'pax', 'Peaxi162Scf00173g00025' => 'pax', 'Peaxi162Scf00195g00102' => 'pax', 'Peaxi162Scf00402g00013' => 'pax', 'Peaxi162Scf00519g00618' => 'pax', 'PGR004G2838' => 'pgr', 'PGR044G2275' => 'pgr', 'PGR102G1377' => 'pgr', 'PGR119G1245' => 'pgr', 'PGR142G4449' => 'pgr', 'PGSC0003DMG400004532' => 'stu', 'PGSC0003DMG400011950' => 'stu', 'PGSC0003DMG400023391' => 'stu', 'PGSC0003DMG400023985' => 'stu', 'PGSC0003DMG400026360' => 'stu', 'PGSC0003DMG400035711' => 'stu', 'PGSC0003DMG400037286' => 'stu', 'PGSC0003DMG402005881' => 'stu', 'Phvul.002G045400' => 'pvu', 'Phvul.006G216600' => 'pvu', 'Phvul.006G216700' => 'pvu', 'Phvul.006G216800' => 'pvu', 'Phvul.007G022500' => 'pvu', 'Phvul.011G094400' => 'pvu', 'Potri.001G470700' => 'ptr', 'Potri.003G015200' => 'ptr', 'Potri.004G202500' => 'ptr', 'Potri.004G218400' => 'ptr', 'Potri.008G020100' => 'ptr', 'Potri.008G153200' => 'ptr', 'Potri.009G163800' => 'ptr', 'Potri.010G087300' => 'ptr', 'Potri.010G239100' => 'ptr', 'Pp3c10_16100' => 'ppa', 'Pp3c10_16880' => 'ppa', 'Pp3c16_6230' => 'ppa', 'Pp3c17_18910' => 'ppa', 'Pp3c3_22119' => 'ppa', 'Pp3c3_22140' => 'ppa', 'Pp3c4_8159' => 'ppa', 'Pp3c4_8171' => 'ppa', 'Pp3c4_8330' => 'ppa', 'PRCOL_00004098' => 'pco', 'Prupe.1G013900' => 'ppe', 'Prupe.1G226300' => 'ppe', 'Prupe.1G573600' => 'ppe', 'Prupe.6G130100' => 'ppe', 'Psat3g090040' => 'psa', 'Psat4g210440' => 'psa', 'Psat6g231040' => 'psa', 'Psat6g231080' => 'psa', 'Psat7g063000' => 'psa', 'Psat7g188000' => 'psa', 'Psat7g188040' => 'psa', 'PSO017G0206' => 'pso', 'PSO170G0501' => 'pso', 'PSO170G6422' => 'pso', 'PSO210G7739' => 'pso', 'PSO339G1808' => 'pso', 'PSO339G6135' => 'pso', 'PSO384G0010' => 'pso', 'PSO384G0964' => 'pso', 'PSO761G0050' => 'pso', 'PSO782G4085' => 'pso', 'QL01p012264' => 'qlo', 'QL02p099491' => 'qlo', 'QL03p033868' => 'qlo', 'QL04p046678' => 'qlo', 'QL06p002448' => 'qlo', 'RcHm_v2.0_Chr4g0416181' => 'rch', 'RcHm_v2.0_Chr5g0044701' => 'rch', 'RcHm_v2.0_Chr6g0265781' => 'rch', 'RcHm_v2.0_Chr7g0221031' => 'rch', 'Rhsim04G0202000' => 'rsi', 'Rhsim11G0127300' => 'rsi', 'Rhsim13G0111800' => 'rsi', 'Sabra01G0165600' => 'sbr', 'Sabra03G0008300' => 'sbr', 'Sabra04G0136900' => 'sbr', 'Sabra08G0013400' => 'sbr', 'Sabra08G0116800' => 'sbr', 'Sabra09G0128000' => 'sbr', 'Sabra10G0055500' => 'sbr', 'Sabra10G0073300' => 'sbr', 'SalBow3G0385' => 'sbo', 'SalBow3G1119' => 'sbo', 'SalBow3G2005' => 'sbo', 'SalBow6G2563' => 'sbo', 'SalBow6G6386' => 'sbo', 'Sc06g0008800' => 'sci', 'Sc07g0004950' => 'sci', 'Sc09g0005340' => 'sci', 'Sc13g0004410' => 'sci', 'Sc21g0007090' => 'sci', 'Sed0009285' => 'sed', 'Sed0017583' => 'sed', 'Sed0019699' => 'sed', 'Sed0023107' => 'sed', 'SEGI_10916' => 'sgi', 'SEGI_16217' => 'sgi', 'SEGI_19466' => 'sgi', 'SEGI_41115' => 'sgi', 'SGA_v2.0_scaffold111G31534' => 'sas', 'SGA_v2.0_scaffold22G09864' => 'sas', 'SGA_v2.0_scaffold338G49219' => 'sas', 'SGA_v2.0_scaffold92G28298' => 'sas', 'SMO119G0064' => 'smo', 'SMO223G0038' => 'smo', 'SMO347G0584' => 'smo', 'SMO351G0010' => 'smo', 'SMO356G0404' => 'smo', 'Solyc01g103920.3' => 'sly', 'Solyc04g009710.2' => 'sly', 'Solyc05g055280.2' => 'sly', 'Solyc10g044520.3' => 'sly', 'Solyc10g075160.1' => 'sly', 'Solyc11g006910.3' => 'sly', 'Solyc11g068430.3' => 'sly', 'Sopen01g046310' => 'spe', 'Sopen03g001200' => 'spe', 'Sopen04g004830' => 'spe', 'Sopen05g033720' => 'spe', 'Sopen06g030740' => 'spe', 'Sopen10g013090' => 'spe', 'Sopen10g027630' => 'spe', 'Sopen10g027640' => 'spe', 'Sopen11g002820' => 'spe', 'Sopen11g027140' => 'spe', 'Sp1g09680' => 'spa', 'Sp2g03630' => 'spa', 'Sp4g10320' => 'spa', 'Sp6g33400' => 'spa', 'Sp7g13030' => 'spa', 'TAR365G0317' => 'tar', 'TAR376G0979' => 'tar', 'TAR623G1665' => 'tar', 'TAR633G2373' => 'tar', 'TAR636G1400' => 'tar', 'THA.LOC104800529' => 'tha', 'THA.LOC104808547' => 'tha', 'THA.LOC104809615' => 'tha', 'THA.LOC104815724' => 'tha', 'THA.LOC104818480' => 'tha', 'THA.LOC104819179' => 'tha', 'THA.LOC104822270' => 'tha', 'THA.LOC104826425' => 'tha', 'Thecc.02G089700' => 'tca', 'Thecc.04G232300' => 'tca', 'Thecc.09G283400' => 'tca', 'Thhalv10009020m.g' => 'esa', 'Thhalv10015506m.g' => 'esa', 'Thhalv10017364m.g' => 'esa', 'Thhalv10023742m.g' => 'esa', 'Thhalv10026483m.g' => 'esa', 'TPR.G17232' => 'tpr', 'TPR.G2133' => 'tpr', 'TPR.G2498' => 'tpr', 'TPR.G31942' => 'tpr', 'TPR.G37877' => 'tpr', 'TPR.G4571' => 'tpr', 'TWI14G1113' => 'twi', 'TWI15G0426' => 'twi', 'TWI31G1005' => 'twi', 'TWI38G0513' => 'twi', 'TWI38G1484' => 'twi', 'TWI73G1098' => 'twi', 'unitig_26.g10519' => 'ugi', 'unitig_736.g22395' => 'ugi', 'unitig_747.g21234' => 'ugi', 'unitig_747.g21942' => 'ugi', 'vmacro14351' => 'vma', 'VMungo0540G0082' => 'vmu', 'VMungo0540G0405' => 'vmu', 'VMungo0540G1486' => 'vmu', 'VMungo0540G1692' => 'vmu', 'VMungo0720G2473' => 'vmu', 'VMungo1127G1562' => 'vmu', 'VMungo1215G1918' => 'vmu', 'Zm00001eb052650' => 'zma', 'Zm00001eb063710' => 'zma', 'Zm00001eb083950' => 'zma', 'Zm00001eb174420' => 'zma', 'Zm00001eb260140' => 'zma', 'Zm00001eb260150' => 'zma', 'Zm00001eb260160' => 'zma', 'Zm00001eb348290' => 'zma', 'Zm00001eb366870' => 'zma', 'Zm00001eb421930' => 'zma' ) $gf_id = 'HOM05D001025' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001025' ) $data_identifier = 'HOM05D001025' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 19, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 2, 'amhyb' => (int) 4, 'aly' => (int) 4, 'aox' => (int) 4, 'arhy' => (int) 3, 'ath' => (int) 5, 'atr' => (int) 4, 'acertr' => (int) 3, 'cqu' => (int) 7, 'bca' => (int) 17, 'bol' => (int) 10, 'bra' => (int) 9, 'can' => (int) 10, 'cansat' => (int) 6, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 5, 'cbr' => (int) 5, 'ccan' => (int) 5, 'cde' => (int) 4, 'cfa' => (int) 3, 'ccl' => (int) 6, 'cil' => (int) 4, 'cla' => (int) 3, 'col' => (int) 3, 'cpa' => (int) 3, 'cre' => (int) 7, 'csa' => (int) 5, 'camsi' => (int) 9, 'dca' => (int) 4, 'din' => (int) 5, 'dzi' => (int) 7, 'eca' => (int) 6, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 12, 'fve' => (int) 4, 'gma' => (int) 12, 'ghi' => (int) 17, 'gra' => (int) 9, 'vvi' => (int) 2, 'han' => (int) 8, 'cav' => (int) 5, 'hma' => (int) 9, 'vpl' => (int) 4, 'sun' => (int) 2, 'lal' => (int) 9, 'lja' => (int) 5, 'lonja' => (int) 6, 'lsa' => (int) 3, 'mes' => (int) 8, 'mpo' => (int) 3, 'mbi' => (int) 4, 'mco' => (int) 3, 'mdo' => (int) 5, 'mtr' => (int) 7, 'cme' => (int) 6, 'egut' => (int) 7, 'ama' => (int) 3, 'nta' => (int) 12, 'nnu' => (int) 9, 'oeu' => (int) 4, 'osa' => (int) 7, 'pax' => (int) 9, 'pgr' => (int) 5, 'stu' => (int) 8, 'pvu' => (int) 6, 'ptr' => (int) 9, 'ppa' => (int) 9, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 7, 'pso' => (int) 10, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 3, 'sbr' => (int) 8, 'sbo' => (int) 5, 'sci' => (int) 5, 'sed' => (int) 4, 'sgi' => (int) 4, 'sas' => (int) 4, 'smo' => (int) 5, 'sly' => (int) 7, 'spe' => (int) 10, 'spa' => (int) 5, 'tar' => (int) 5, 'tha' => (int) 8, 'tca' => (int) 3, 'esa' => (int) 5, 'tpr' => (int) 6, 'twi' => (int) 6, 'ugi' => (int) 4, 'vma' => (int) 1, 'vmu' => (int) 7, 'zma' => (int) 10 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb421930' $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' => 'HOM05D001025', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '592', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p22650' => 'bna', 'A01p29720' => 'bna', 'A03p26560' => 'bna', 'A03p68820' => 'bna', 'A04p20980' => 'bna', 'A06p07730' => 'bna', 'A07p18260' => 'bna', 'A08p33710' => 'bna', 'A09p16970' => 'bna', 'A10p27490' => 'bna', 'Aa31LG1G17300' => 'aar', 'Aa31LG1G3910' => 'aar', 'Aa31LG2G9630' => 'aar', 'Aa31LG5G8360' => 'aar', 'Aa31LG9G2410' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4699' => 'aag', 'Actinidia23512' => 'ach', 'Actinidia37080' => 'ach', 'Ah.01g020380' => 'amhyb', 'Ah.08g215710' => 'amhyb', 'Ah.09g225110' => 'amhyb', 'Ah.10g036680' => 'amhyb', 'AL1G21940' => 'aly', 'AL2G15540' => 'aly', 'AL4G21520' => 'aly', 'AL7G40960' => 'aly', 'Aqoxy2G01191' => 'aox', 'Aqoxy2G03393' => 'aox', 'Aqoxy4G02775' => 'aox', 'Aqoxy6G00058' => 'aox', 'arahy.Tifrunner.gnm1.ann1.9X74H2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CW3FX9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R485W7' => 'arhy', 'AT1G10960' => 'ath', 'AT1G60950' => 'ath', 'AT2G27510' => 'ath', 'AT4G14890' => 'ath', 'AT5G10000' => 'ath', 'ATR0665G624' => 'atr', 'ATR0697G138' => 'atr', 'ATR0776G046' => 'atr', 'ATR1134G135' => 'atr', 'Atru.chr12.1025' => 'acertr', 'Atru.chr3.3241' => 'acertr', 'Atru.chr4.2460' => 'acertr', 'AUR62007427' => 'cqu', 'AUR62010960' => 'cqu', 'AUR62012201' => 'cqu', 'AUR62021470' => 'cqu', 'AUR62022834' => 'cqu', 'AUR62033635' => 'cqu', 'AUR62036186' => 'cqu', 'BcaB01g03077' => 'bca', 'BcaB02g10093' => 'bca', 'BcaB04g20295' => 'bca', 'BcaB06g28147' => 'bca', 'BcaB07g31253' => 'bca', 'BcaC01g04946' => 'bca', 'BcaC02g10614' => 'bca', 'BcaC02g10885' => 'bca', 'BcaC04g19356' => 'bca', 'BcaC04g22297' => 'bca', 'BcaC05g24977' => 'bca', 'BcaC06g31823' => 'bca', 'BcaC07g38633' => 'bca', 'BcaC09g49353' => 'bca', 'BcaC09g50168' => 'bca', 'BcaNung00322' => 'bca', 'BcaNung04769' => 'bca', 'BolC1t02753H' => 'bol', 'BolC1t03721H' => 'bol', 'BolC3t15525H' => 'bol', 'BolC4t23903H' => 'bol', 'BolC4t24231H' => 'bol', 'BolC4t27209H' => 'bol', 'BolC5t29671H' => 'bol', 'BolC8t49044H' => 'bol', 'BolC9t54999H' => 'bol', 'BolC9t59517H' => 'bol', 'BraA01t02178Z' => 'bra', 'BraA01t03099Z' => 'bra', 'BraA03t11867Z' => 'bra', 'BraA04t17667Z' => 'bra', 'BraA07t29542Z' => 'bra', 'BraA08t35287Z' => 'bra', 'BraA09t37334Z' => 'bra', 'BraA10t44801Z' => 'bra', 'BraSC39t46181Z' => 'bra', 'C01p28240' => 'bna', 'C01p37530' => 'bna', 'C03p31820' => 'bna', 'C04p24080' => 'bna', 'C04p25790' => 'bna', 'C04p56770' => 'bna', 'C05p09310' => 'bna', 'C09p21010' => 'bna', 'C09p67560' => 'bna', 'CAN.G1324.7' => 'can', 'CAN.G1358.10' => 'can', 'CAN.G1550.2' => 'can', 'CAN.G186.56' => 'can', 'CAN.G1965.1' => 'can', 'CAN.G645.15' => 'can', 'CAN.G798.26' => 'can', 'CAN.G798.27' => 'can', 'CAN.G798.29' => 'can', 'CAN.G919.31' => 'can', 'CANSAT11G0133' => 'cansat', 'CANSAT11G1171' => 'cansat', 'CANSAT11G2056' => 'cansat', 'CANSAT56G1202' => 'cansat', 'CANSAT56G1514' => 'cansat', 'CANSAT78G0455' => 'cansat', 'CARHR011190' => 'chi', 'CARHR051980' => 'chi', 'CARHR120170' => 'chi', 'CARHR203310' => 'chi', 'CARHR221490' => 'chi', 'Carub.0001s1054' => 'cru', 'Carub.0002s0431' => 'cru', 'Carub.0004s0818' => 'cru', 'Carub.0006s0846' => 'cru', 'Carub.0007s2722' => 'cru', 'Ca_00058_v3' => 'car', 'Ca_17831_v3' => 'car', 'Ca_19408_v3' => 'car', 'Ca_24397_v3' => 'car', 'Ca_25664_v3' => 'car', 'CBR_g21818' => 'cbr', 'CBR_g31195' => 'cbr', 'CBR_g32282' => 'cbr', 'CBR_g39599' => 'cbr', 'CBR_g49410' => 'cbr', 'Cc01_g09120' => 'ccan', 'Cc01_g09130' => 'ccan', 'Cc02_g09630' => 'ccan', 'Cc02_g22810' => 'ccan', 'Cc03_g03810' => 'ccan', 'CDE02G3718' => 'cde', 'CDE04G3183' => 'cde', 'CDE07G1046' => 'cde', 'CDE08G0480' => 'cde', 'Cfa005493' => 'cfa', 'Cfa010312' => 'cfa', 'Cfa015648' => 'cfa', 'Ciclev10002793m.g' => 'ccl', 'Ciclev10003356m.g' => 'ccl', 'Ciclev10006141m.g' => 'ccl', 'Ciclev10016676m.g' => 'ccl', 'Ciclev10017081m.g' => 'ccl', 'Ciclev10029499m.g' => 'ccl', 'CiPaw.01G166300' => 'cil', 'CiPaw.06G145600' => 'cil', 'CiPaw.13G040100' => 'cil', 'CiPaw.13G135800' => 'cil', 'ClCG01G012230' => 'cla', 'ClCG05G009510' => 'cla', 'ClCG08G008270' => 'cla', 'COL.COLO4_11763' => 'col', 'COL.COLO4_19876' => 'col', 'COL.COLO4_21481' => 'col', 'Cpa.g.sc118.34' => 'cpa', 'Cpa.g.sc32.13' => 'cpa', 'Cpa.g.sc58.103' => 'cpa', 'Cre03.g183850' => 'cre', 'Cre06.g306350' => 'cre', 'Cre07.g334800' => 'cre', 'Cre12.g487900' => 'cre', 'Cre14.g626700' => 'cre', 'Cre16.g658400' => 'cre', 'Cre17.g700950' => 'cre', 'CsaV3_1G014830' => 'csa', 'CsaV3_3G013320' => 'csa', 'CsaV3_3G019210' => 'csa', 'CsaV3_3G019220' => 'csa', 'CsaV3_6G004230' => 'csa', 'CSS0003773' => 'camsi', 'CSS0004563' => 'camsi', 'CSS0013949' => 'camsi', 'CSS0025971' => 'camsi', 'CSS0028570' => 'camsi', 'CSS0033127' => 'camsi', 'CSS0036051' => 'camsi', 'CSS0040087' => 'camsi', 'CSS0043179' => 'camsi', 'DCAR_006161' => 'dca', 'DCAR_010351' => 'dca', 'DCAR_012197' => 'dca', 'DCAR_024162' => 'dca', 'Dinv01030' => 'din', 'Dinv10924' => 'din', 'Dinv11835' => 'din', 'Dinv22841' => 'din', 'Dinv42553' => 'din', 'Duzib052G0560' => 'dzi', 'Duzib132G0389' => 'dzi', 'Duzib150G1181' => 'dzi', 'Duzib168G0623' => 'dzi', 'Duzib170G1036' => 'dzi', 'Duzib212G0200' => 'dzi', 'Duzib248G0194' => 'dzi', 'ECA232G2193' => 'eca', 'ECA233G0302' => 'eca', 'ECA234G2813' => 'eca', 'ECA234G4866' => 'eca', 'ECA240G3932' => 'eca', 'ECA248G0385' => 'eca', 'EL10Ac2g04781' => 'bvu', 'EL10Ac3g06445' => 'bvu', 'EL10Ac7g15825' => 'bvu', 'EL10Ac8g18550' => 'bvu', 'Eucgr.B03849' => 'egr', 'Eucgr.I02744' => 'egr', 'Eucgr.J00264' => 'egr', 'Eucgr.J00493' => 'egr', 'FAN04G2181' => 'fan', 'FAN07G2666' => 'fan', 'FAN11G0024' => 'fan', 'FAN12G1105' => 'fan', 'FAN13G0302' => 'fan', 'FAN15G2781' => 'fan', 'FAN16G1274' => 'fan', 'FAN17G2988' => 'fan', 'FAN18G2621' => 'fan', 'FAN21G0013' => 'fan', 'FAN22G1211' => 'fan', 'FAN25G3626' => 'fan', 'FvH4_2g09491' => 'fve', 'FvH4_3g24910' => 'fve', 'FvH4_4g15630' => 'fve', 'FvH4_5g28820' => 'fve', 'Glyma.01G238000' => 'gma', 'Glyma.05G168400' => 'gma', 'Glyma.08G126800' => 'gma', 'Glyma.08G188500' => 'gma', 'Glyma.10G278900' => 'gma', 'Glyma.11G005700' => 'gma', 'Glyma.11G183300' => 'gma', 'Glyma.12G089200' => 'gma', 'Glyma.12G169400' => 'gma', 'Glyma.12G169500' => 'gma', 'Glyma.12G169600' => 'gma', 'Glyma.20G110800' => 'gma', 'Gohir.A03G192900' => 'ghi', 'Gohir.A03G193000' => 'ghi', 'Gohir.A05G080700' => 'ghi', 'Gohir.A09G216000' => 'ghi', 'Gohir.A12G027700' => 'ghi', 'Gohir.A13G036200' => 'ghi', 'Gohir.A13G222600' => 'ghi', 'Gohir.D02G213900' => 'ghi', 'Gohir.D02G214000' => 'ghi', 'Gohir.D05G083700' => 'ghi', 'Gohir.D05G083800' => 'ghi', 'Gohir.D05G083850' => 'ghi', 'Gohir.D08G015400' => 'ghi', 'Gohir.D09G218400' => 'ghi', 'Gohir.D12G027100' => 'ghi', 'Gohir.D13G034500' => 'ghi', 'Gohir.D13G227400' => 'ghi', 'Gorai.005G241800' => 'gra', 'Gorai.005G241900' => 'gra', 'Gorai.006G239400' => 'gra', 'Gorai.008G027600' => 'gra', 'Gorai.009G085400' => 'gra', 'Gorai.009G085500' => 'gra', 'Gorai.013G039000' => 'gra', 'Gorai.013G194800' => 'gra', 'Gorai.013G257900' => 'gra', 'GSVIVG01000982001' => 'vvi', 'GSVIVG01017981001' => 'vvi', 'HanXRQChr01g0024061' => 'han', 'HanXRQChr09g0247831' => 'han', 'HanXRQChr10g0294611' => 'han', 'HanXRQChr10g0294621' => 'han', 'HanXRQChr11g0346821' => 'han', 'HanXRQChr13g0397461' => 'han', 'HanXRQChr16g0513651' => 'han', 'HanXRQChr16g0513701' => 'han', 'Haze_00897' => 'cav', 'Haze_01745' => 'cav', 'Haze_02486' => 'cav', 'Haze_02487' => 'cav', 'Haze_23374' => 'cav', 'Hma1.2p1_0578F.1_g182520' => 'hma', 'Hma1.2p1_0602F.1_g187350' => 'hma', 'Hma1.2p1_0602F.1_g187360' => 'hma', 'Hma1.2p1_0874F.1_g231320' => 'hma', 'Hma1.2p1_1197F.1_g266210' => 'hma', 'Hma1.2p1_1197F.1_g266220' => 'hma', 'Hma1.2p1_2167F.1_g315895' => 'hma', 'Hma1.2p1_2190F.1_g316640' => 'hma', 'Hma1.2p1_3645F.1_g337153' => 'hma', 'HPP92_004907' => 'vpl', 'HPP92_012134' => 'vpl', 'HPP92_025136' => 'vpl', 'HPP92_026087' => 'vpl', 'Hund06782' => 'sun', 'Hund06784' => 'sun', 'Lalb_Chr01g0004861' => 'lal', 'Lalb_Chr02g0140591' => 'lal', 'Lalb_Chr02g0140611' => 'lal', 'Lalb_Chr03g0028101' => 'lal', 'Lalb_Chr07g0185791' => 'lal', 'Lalb_Chr12g0204491' => 'lal', 'Lalb_Chr13g0295671' => 'lal', 'Lalb_Chr19g0136461' => 'lal', 'Lalb_Chr21g0309191' => 'lal', 'Lj1g0028158' => 'lja', 'Lj1P236T38' => 'lonja', 'Lj2C32G2' => 'lonja', 'Lj2P944T8' => 'lonja', 'Lj2P963T15' => 'lonja', 'Lj3g0011788' => 'lja', 'Lj4g0025027' => 'lja', 'Lj5P255T36' => 'lonja', 'Lj6g0018866' => 'lja', 'Lj6P608T31' => 'lonja', 'LjContig00408g0008879' => 'lja', 'Lsat_1_v5_gn_5_105820' => 'lsa', 'Lsat_1_v5_gn_6_38800' => 'lsa', 'Lsat_1_v5_gn_7_67141' => 'lsa', 'Manes.04G003400' => 'mes', 'Manes.07G020000' => 'mes', 'Manes.07G020100' => 'mes', 'Manes.07G020150' => 'mes', 'Manes.10G061500' => 'mes', 'Manes.10G123200' => 'mes', 'Manes.11G161900' => 'mes', 'Manes.15G029300' => 'mes', 'Mapoly0071s0018' => 'mpo', 'Mapoly0082s0023' => 'mpo', 'Mapoly3477s0001' => 'mpo', 'MBI05_g31233_MAGBIO' => 'mbi', 'MBI09_g05946_MAGBIO' => 'mbi', 'MBI09_g05947_MAGBIO' => 'mbi', 'MBI17_g08346_MAGBIO' => 'mbi', 'MCO04G038' => 'mco', 'MCO09G370' => 'mco', 'MCO13G605' => 'mco', 'MD00G1075500' => 'mdo', 'MD03G1144300' => 'mdo', 'MD08G1236800' => 'mdo', 'MD13G1193300' => 'mdo', 'MD15G1428700' => 'mdo', 'Medtr1g112030' => 'mtr', 'Medtr1g112050' => 'mtr', 'Medtr2g006290' => 'mtr', 'Medtr2g086510' => 'mtr', 'Medtr4g053120' => 'mtr', 'Medtr5g006320' => 'mtr', 'Medtr8g088720' => 'mtr', 'MELO3C004712.2' => 'cme', 'MELO3C006533.2' => 'cme', 'MELO3C019438.2' => 'cme', 'MELO3C019440.2' => 'cme', 'MELO3C019441.2' => 'cme', 'MELO3C019895.2' => 'cme', 'Migut.B00811' => 'egut', 'Migut.D02447' => 'egut', 'Migut.F00875' => 'egut', 'Migut.N00186' => 'egut', 'Migut.N01051' => 'egut', 'Migut.N02491' => 'egut', 'Migut.O00784' => 'egut', 'MSTRG.12367' => 'ama', 'MSTRG.18756' => 'ama', 'MSTRG.21042' => 'ama', 'Nitab4.5_0000559g0040' => 'nta', 'Nitab4.5_0000667g0190' => 'nta', 'Nitab4.5_0000755g0160' => 'nta', 'Nitab4.5_0001216g0080' => 'nta', 'Nitab4.5_0004069g0040' => 'nta', 'Nitab4.5_0004129g0010' => 'nta', 'Nitab4.5_0005744g0030' => 'nta', 'Nitab4.5_0006996g0030' => 'nta', 'Nitab4.5_0008971g0040' => 'nta', 'Nitab4.5_0009769g0020' => 'nta', 'Nitab4.5_0009833g0010' => 'nta', 'Nitab4.5_0013140g0020' => 'nta', 'Nn003s41376' => 'nnu', 'Nn1g01857' => 'nnu', 'Nn1g03611' => 'nnu', 'Nn1g06853' => 'nnu', 'Nn3g18360' => 'nnu', 'Nn4g26328' => 'nnu', 'Nn5g27531' => 'nnu', 'Nn6g34899' => 'nnu', 'Nn7g36299' => 'nnu', 'Oeu021485.1' => 'oeu', 'Oeu022433.1' => 'oeu', 'Oeu032111.1' => 'oeu', 'Oeu051608.1' => 'oeu', 'Os01g0860601' => 'osa', 'Os03g0659200' => 'osa', 'Os03g0835900' => 'osa', 'Os04g0412200' => 'osa', 'Os05g0443500' => 'osa', 'Os07g0251500' => 'osa', 'Os08g0104600' => 'osa', 'Peaxi162Scf00003g00047' => 'pax', 'Peaxi162Scf00003g00052' => 'pax', 'Peaxi162Scf00003g00394' => 'pax', 'Peaxi162Scf00091g00621' => 'pax', 'Peaxi162Scf00152g00146' => 'pax', 'Peaxi162Scf00173g00025' => 'pax', 'Peaxi162Scf00195g00102' => 'pax', 'Peaxi162Scf00402g00013' => 'pax', 'Peaxi162Scf00519g00618' => 'pax', 'PGR004G2838' => 'pgr', 'PGR044G2275' => 'pgr', 'PGR102G1377' => 'pgr', 'PGR119G1245' => 'pgr', 'PGR142G4449' => 'pgr', 'PGSC0003DMG400004532' => 'stu', 'PGSC0003DMG400011950' => 'stu', 'PGSC0003DMG400023391' => 'stu', 'PGSC0003DMG400023985' => 'stu', 'PGSC0003DMG400026360' => 'stu', 'PGSC0003DMG400035711' => 'stu', 'PGSC0003DMG400037286' => 'stu', 'PGSC0003DMG402005881' => 'stu', 'Phvul.002G045400' => 'pvu', 'Phvul.006G216600' => 'pvu', 'Phvul.006G216700' => 'pvu', 'Phvul.006G216800' => 'pvu', 'Phvul.007G022500' => 'pvu', 'Phvul.011G094400' => 'pvu', 'Potri.001G470700' => 'ptr', 'Potri.003G015200' => 'ptr', 'Potri.004G202500' => 'ptr', 'Potri.004G218400' => 'ptr', 'Potri.008G020100' => 'ptr', 'Potri.008G153200' => 'ptr', 'Potri.009G163800' => 'ptr', 'Potri.010G087300' => 'ptr', 'Potri.010G239100' => 'ptr', 'Pp3c10_16100' => 'ppa', 'Pp3c10_16880' => 'ppa', 'Pp3c16_6230' => 'ppa', 'Pp3c17_18910' => 'ppa', 'Pp3c3_22119' => 'ppa', 'Pp3c3_22140' => 'ppa', 'Pp3c4_8159' => 'ppa', 'Pp3c4_8171' => 'ppa', 'Pp3c4_8330' => 'ppa', 'PRCOL_00004098' => 'pco', 'Prupe.1G013900' => 'ppe', 'Prupe.1G226300' => 'ppe', 'Prupe.1G573600' => 'ppe', 'Prupe.6G130100' => 'ppe', 'Psat3g090040' => 'psa', 'Psat4g210440' => 'psa', 'Psat6g231040' => 'psa', 'Psat6g231080' => 'psa', 'Psat7g063000' => 'psa', 'Psat7g188000' => 'psa', 'Psat7g188040' => 'psa', 'PSO017G0206' => 'pso', 'PSO170G0501' => 'pso', 'PSO170G6422' => 'pso', 'PSO210G7739' => 'pso', 'PSO339G1808' => 'pso', 'PSO339G6135' => 'pso', 'PSO384G0010' => 'pso', 'PSO384G0964' => 'pso', 'PSO761G0050' => 'pso', 'PSO782G4085' => 'pso', 'QL01p012264' => 'qlo', 'QL02p099491' => 'qlo', 'QL03p033868' => 'qlo', 'QL04p046678' => 'qlo', 'QL06p002448' => 'qlo', 'RcHm_v2.0_Chr4g0416181' => 'rch', 'RcHm_v2.0_Chr5g0044701' => 'rch', 'RcHm_v2.0_Chr6g0265781' => 'rch', 'RcHm_v2.0_Chr7g0221031' => 'rch', 'Rhsim04G0202000' => 'rsi', 'Rhsim11G0127300' => 'rsi', 'Rhsim13G0111800' => 'rsi', 'Sabra01G0165600' => 'sbr', 'Sabra03G0008300' => 'sbr', 'Sabra04G0136900' => 'sbr', 'Sabra08G0013400' => 'sbr', 'Sabra08G0116800' => 'sbr', 'Sabra09G0128000' => 'sbr', 'Sabra10G0055500' => 'sbr', 'Sabra10G0073300' => 'sbr', 'SalBow3G0385' => 'sbo', 'SalBow3G1119' => 'sbo', 'SalBow3G2005' => 'sbo', 'SalBow6G2563' => 'sbo', 'SalBow6G6386' => 'sbo', 'Sc06g0008800' => 'sci', 'Sc07g0004950' => 'sci', 'Sc09g0005340' => 'sci', 'Sc13g0004410' => 'sci', 'Sc21g0007090' => 'sci', 'Sed0009285' => 'sed', 'Sed0017583' => 'sed', 'Sed0019699' => 'sed', 'Sed0023107' => 'sed', 'SEGI_10916' => 'sgi', 'SEGI_16217' => 'sgi', 'SEGI_19466' => 'sgi', 'SEGI_41115' => 'sgi', 'SGA_v2.0_scaffold111G31534' => 'sas', 'SGA_v2.0_scaffold22G09864' => 'sas', 'SGA_v2.0_scaffold338G49219' => 'sas', 'SGA_v2.0_scaffold92G28298' => 'sas', 'SMO119G0064' => 'smo', 'SMO223G0038' => 'smo', 'SMO347G0584' => 'smo', 'SMO351G0010' => 'smo', 'SMO356G0404' => 'smo', 'Solyc01g103920.3' => 'sly', 'Solyc04g009710.2' => 'sly', 'Solyc05g055280.2' => 'sly', 'Solyc10g044520.3' => 'sly', 'Solyc10g075160.1' => 'sly', 'Solyc11g006910.3' => 'sly', 'Solyc11g068430.3' => 'sly', 'Sopen01g046310' => 'spe', 'Sopen03g001200' => 'spe', 'Sopen04g004830' => 'spe', 'Sopen05g033720' => 'spe', 'Sopen06g030740' => 'spe', 'Sopen10g013090' => 'spe', 'Sopen10g027630' => 'spe', 'Sopen10g027640' => 'spe', 'Sopen11g002820' => 'spe', 'Sopen11g027140' => 'spe', 'Sp1g09680' => 'spa', 'Sp2g03630' => 'spa', 'Sp4g10320' => 'spa', 'Sp6g33400' => 'spa', 'Sp7g13030' => 'spa', 'TAR365G0317' => 'tar', 'TAR376G0979' => 'tar', 'TAR623G1665' => 'tar', 'TAR633G2373' => 'tar', 'TAR636G1400' => 'tar', 'THA.LOC104800529' => 'tha', 'THA.LOC104808547' => 'tha', 'THA.LOC104809615' => 'tha', 'THA.LOC104815724' => 'tha', 'THA.LOC104818480' => 'tha', 'THA.LOC104819179' => 'tha', 'THA.LOC104822270' => 'tha', 'THA.LOC104826425' => 'tha', 'Thecc.02G089700' => 'tca', 'Thecc.04G232300' => 'tca', 'Thecc.09G283400' => 'tca', 'Thhalv10009020m.g' => 'esa', 'Thhalv10015506m.g' => 'esa', 'Thhalv10017364m.g' => 'esa', 'Thhalv10023742m.g' => 'esa', 'Thhalv10026483m.g' => 'esa', 'TPR.G17232' => 'tpr', 'TPR.G2133' => 'tpr', 'TPR.G2498' => 'tpr', 'TPR.G31942' => 'tpr', 'TPR.G37877' => 'tpr', 'TPR.G4571' => 'tpr', 'TWI14G1113' => 'twi', 'TWI15G0426' => 'twi', 'TWI31G1005' => 'twi', 'TWI38G0513' => 'twi', 'TWI38G1484' => 'twi', 'TWI73G1098' => 'twi', 'unitig_26.g10519' => 'ugi', 'unitig_736.g22395' => 'ugi', 'unitig_747.g21234' => 'ugi', 'unitig_747.g21942' => 'ugi', 'vmacro14351' => 'vma', 'VMungo0540G0082' => 'vmu', 'VMungo0540G0405' => 'vmu', 'VMungo0540G1486' => 'vmu', 'VMungo0540G1692' => 'vmu', 'VMungo0720G2473' => 'vmu', 'VMungo1127G1562' => 'vmu', 'VMungo1215G1918' => 'vmu', 'Zm00001eb052650' => 'zma', 'Zm00001eb063710' => 'zma', 'Zm00001eb083950' => 'zma', 'Zm00001eb174420' => 'zma', 'Zm00001eb260140' => 'zma', 'Zm00001eb260150' => 'zma', 'Zm00001eb260160' => 'zma', 'Zm00001eb348290' => 'zma', 'Zm00001eb366870' => 'zma', 'Zm00001eb421930' => 'zma' ), 'gf_id' => 'HOM05D001025', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001025' ), 'data_identifier' => 'HOM05D001025', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001025', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '592', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p22650' => 'bna', 'A01p29720' => 'bna', 'A03p26560' => 'bna', 'A03p68820' => 'bna', 'A04p20980' => 'bna', 'A06p07730' => 'bna', 'A07p18260' => 'bna', 'A08p33710' => 'bna', 'A09p16970' => 'bna', 'A10p27490' => 'bna', 'Aa31LG1G17300' => 'aar', 'Aa31LG1G3910' => 'aar', 'Aa31LG2G9630' => 'aar', 'Aa31LG5G8360' => 'aar', 'Aa31LG9G2410' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4699' => 'aag', 'Actinidia23512' => 'ach', 'Actinidia37080' => 'ach', 'Ah.01g020380' => 'amhyb', 'Ah.08g215710' => 'amhyb', 'Ah.09g225110' => 'amhyb', 'Ah.10g036680' => 'amhyb', 'AL1G21940' => 'aly', 'AL2G15540' => 'aly', 'AL4G21520' => 'aly', 'AL7G40960' => 'aly', 'Aqoxy2G01191' => 'aox', 'Aqoxy2G03393' => 'aox', 'Aqoxy4G02775' => 'aox', 'Aqoxy6G00058' => 'aox', 'arahy.Tifrunner.gnm1.ann1.9X74H2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CW3FX9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R485W7' => 'arhy', 'AT1G10960' => 'ath', 'AT1G60950' => 'ath', 'AT2G27510' => 'ath', 'AT4G14890' => 'ath', 'AT5G10000' => 'ath', 'ATR0665G624' => 'atr', 'ATR0697G138' => 'atr', 'ATR0776G046' => 'atr', 'ATR1134G135' => 'atr', 'Atru.chr12.1025' => 'acertr', 'Atru.chr3.3241' => 'acertr', 'Atru.chr4.2460' => 'acertr', 'AUR62007427' => 'cqu', 'AUR62010960' => 'cqu', 'AUR62012201' => 'cqu', 'AUR62021470' => 'cqu', 'AUR62022834' => 'cqu', 'AUR62033635' => 'cqu', 'AUR62036186' => 'cqu', 'BcaB01g03077' => 'bca', 'BcaB02g10093' => 'bca', 'BcaB04g20295' => 'bca', 'BcaB06g28147' => 'bca', 'BcaB07g31253' => 'bca', 'BcaC01g04946' => 'bca', 'BcaC02g10614' => 'bca', 'BcaC02g10885' => 'bca', 'BcaC04g19356' => 'bca', 'BcaC04g22297' => 'bca', 'BcaC05g24977' => 'bca', 'BcaC06g31823' => 'bca', 'BcaC07g38633' => 'bca', 'BcaC09g49353' => 'bca', 'BcaC09g50168' => 'bca', 'BcaNung00322' => 'bca', 'BcaNung04769' => 'bca', 'BolC1t02753H' => 'bol', 'BolC1t03721H' => 'bol', 'BolC3t15525H' => 'bol', 'BolC4t23903H' => 'bol', 'BolC4t24231H' => 'bol', 'BolC4t27209H' => 'bol', 'BolC5t29671H' => 'bol', 'BolC8t49044H' => 'bol', 'BolC9t54999H' => 'bol', 'BolC9t59517H' => 'bol', 'BraA01t02178Z' => 'bra', 'BraA01t03099Z' => 'bra', 'BraA03t11867Z' => 'bra', 'BraA04t17667Z' => 'bra', 'BraA07t29542Z' => 'bra', 'BraA08t35287Z' => 'bra', 'BraA09t37334Z' => 'bra', 'BraA10t44801Z' => 'bra', 'BraSC39t46181Z' => 'bra', 'C01p28240' => 'bna', 'C01p37530' => 'bna', 'C03p31820' => 'bna', 'C04p24080' => 'bna', 'C04p25790' => 'bna', 'C04p56770' => 'bna', 'C05p09310' => 'bna', 'C09p21010' => 'bna', 'C09p67560' => 'bna', 'CAN.G1324.7' => 'can', 'CAN.G1358.10' => 'can', 'CAN.G1550.2' => 'can', 'CAN.G186.56' => 'can', 'CAN.G1965.1' => 'can', 'CAN.G645.15' => 'can', 'CAN.G798.26' => 'can', 'CAN.G798.27' => 'can', 'CAN.G798.29' => 'can', 'CAN.G919.31' => 'can', 'CANSAT11G0133' => 'cansat', 'CANSAT11G1171' => 'cansat', 'CANSAT11G2056' => 'cansat', 'CANSAT56G1202' => 'cansat', 'CANSAT56G1514' => 'cansat', 'CANSAT78G0455' => 'cansat', 'CARHR011190' => 'chi', 'CARHR051980' => 'chi', 'CARHR120170' => 'chi', 'CARHR203310' => 'chi', 'CARHR221490' => 'chi', 'Carub.0001s1054' => 'cru', 'Carub.0002s0431' => 'cru', 'Carub.0004s0818' => 'cru', 'Carub.0006s0846' => 'cru', 'Carub.0007s2722' => 'cru', 'Ca_00058_v3' => 'car', 'Ca_17831_v3' => 'car', 'Ca_19408_v3' => 'car', 'Ca_24397_v3' => 'car', 'Ca_25664_v3' => 'car', 'CBR_g21818' => 'cbr', 'CBR_g31195' => 'cbr', 'CBR_g32282' => 'cbr', 'CBR_g39599' => 'cbr', 'CBR_g49410' => 'cbr', 'Cc01_g09120' => 'ccan', 'Cc01_g09130' => 'ccan', 'Cc02_g09630' => 'ccan', 'Cc02_g22810' => 'ccan', 'Cc03_g03810' => 'ccan', 'CDE02G3718' => 'cde', 'CDE04G3183' => 'cde', 'CDE07G1046' => 'cde', 'CDE08G0480' => 'cde', 'Cfa005493' => 'cfa', 'Cfa010312' => 'cfa', 'Cfa015648' => 'cfa', 'Ciclev10002793m.g' => 'ccl', 'Ciclev10003356m.g' => 'ccl', 'Ciclev10006141m.g' => 'ccl', 'Ciclev10016676m.g' => 'ccl', 'Ciclev10017081m.g' => 'ccl', 'Ciclev10029499m.g' => 'ccl', 'CiPaw.01G166300' => 'cil', 'CiPaw.06G145600' => 'cil', 'CiPaw.13G040100' => 'cil', 'CiPaw.13G135800' => 'cil', 'ClCG01G012230' => 'cla', 'ClCG05G009510' => 'cla', 'ClCG08G008270' => 'cla', 'COL.COLO4_11763' => 'col', 'COL.COLO4_19876' => 'col', 'COL.COLO4_21481' => 'col', 'Cpa.g.sc118.34' => 'cpa', 'Cpa.g.sc32.13' => 'cpa', 'Cpa.g.sc58.103' => 'cpa', 'Cre03.g183850' => 'cre', 'Cre06.g306350' => 'cre', 'Cre07.g334800' => 'cre', 'Cre12.g487900' => 'cre', 'Cre14.g626700' => 'cre', 'Cre16.g658400' => 'cre', 'Cre17.g700950' => 'cre', 'CsaV3_1G014830' => 'csa', 'CsaV3_3G013320' => 'csa', 'CsaV3_3G019210' => 'csa', 'CsaV3_3G019220' => 'csa', 'CsaV3_6G004230' => 'csa', 'CSS0003773' => 'camsi', 'CSS0004563' => 'camsi', 'CSS0013949' => 'camsi', 'CSS0025971' => 'camsi', 'CSS0028570' => 'camsi', 'CSS0033127' => 'camsi', 'CSS0036051' => 'camsi', 'CSS0040087' => 'camsi', 'CSS0043179' => 'camsi', 'DCAR_006161' => 'dca', 'DCAR_010351' => 'dca', 'DCAR_012197' => 'dca', 'DCAR_024162' => 'dca', 'Dinv01030' => 'din', 'Dinv10924' => 'din', 'Dinv11835' => 'din', 'Dinv22841' => 'din', 'Dinv42553' => 'din', 'Duzib052G0560' => 'dzi', 'Duzib132G0389' => 'dzi', 'Duzib150G1181' => 'dzi', 'Duzib168G0623' => 'dzi', 'Duzib170G1036' => 'dzi', 'Duzib212G0200' => 'dzi', 'Duzib248G0194' => 'dzi', 'ECA232G2193' => 'eca', 'ECA233G0302' => 'eca', 'ECA234G2813' => 'eca', 'ECA234G4866' => 'eca', 'ECA240G3932' => 'eca', 'ECA248G0385' => 'eca', 'EL10Ac2g04781' => 'bvu', 'EL10Ac3g06445' => 'bvu', 'EL10Ac7g15825' => 'bvu', 'EL10Ac8g18550' => 'bvu', 'Eucgr.B03849' => 'egr', 'Eucgr.I02744' => 'egr', 'Eucgr.J00264' => 'egr', 'Eucgr.J00493' => 'egr', 'FAN04G2181' => 'fan', 'FAN07G2666' => 'fan', 'FAN11G0024' => 'fan', 'FAN12G1105' => 'fan', 'FAN13G0302' => 'fan', 'FAN15G2781' => 'fan', 'FAN16G1274' => 'fan', 'FAN17G2988' => 'fan', 'FAN18G2621' => 'fan', 'FAN21G0013' => 'fan', 'FAN22G1211' => 'fan', 'FAN25G3626' => 'fan', 'FvH4_2g09491' => 'fve', 'FvH4_3g24910' => 'fve', 'FvH4_4g15630' => 'fve', 'FvH4_5g28820' => 'fve', 'Glyma.01G238000' => 'gma', 'Glyma.05G168400' => 'gma', 'Glyma.08G126800' => 'gma', 'Glyma.08G188500' => 'gma', 'Glyma.10G278900' => 'gma', 'Glyma.11G005700' => 'gma', 'Glyma.11G183300' => 'gma', 'Glyma.12G089200' => 'gma', 'Glyma.12G169400' => 'gma', 'Glyma.12G169500' => 'gma', 'Glyma.12G169600' => 'gma', 'Glyma.20G110800' => 'gma', 'Gohir.A03G192900' => 'ghi', 'Gohir.A03G193000' => 'ghi', 'Gohir.A05G080700' => 'ghi', 'Gohir.A09G216000' => 'ghi', 'Gohir.A12G027700' => 'ghi', 'Gohir.A13G036200' => 'ghi', 'Gohir.A13G222600' => 'ghi', 'Gohir.D02G213900' => 'ghi', 'Gohir.D02G214000' => 'ghi', 'Gohir.D05G083700' => 'ghi', 'Gohir.D05G083800' => 'ghi', 'Gohir.D05G083850' => 'ghi', 'Gohir.D08G015400' => 'ghi', 'Gohir.D09G218400' => 'ghi', 'Gohir.D12G027100' => 'ghi', 'Gohir.D13G034500' => 'ghi', 'Gohir.D13G227400' => 'ghi', 'Gorai.005G241800' => 'gra', 'Gorai.005G241900' => 'gra', 'Gorai.006G239400' => 'gra', 'Gorai.008G027600' => 'gra', 'Gorai.009G085400' => 'gra', 'Gorai.009G085500' => 'gra', 'Gorai.013G039000' => 'gra', 'Gorai.013G194800' => 'gra', 'Gorai.013G257900' => 'gra', 'GSVIVG01000982001' => 'vvi', 'GSVIVG01017981001' => 'vvi', 'HanXRQChr01g0024061' => 'han', 'HanXRQChr09g0247831' => 'han', 'HanXRQChr10g0294611' => 'han', 'HanXRQChr10g0294621' => 'han', 'HanXRQChr11g0346821' => 'han', 'HanXRQChr13g0397461' => 'han', 'HanXRQChr16g0513651' => 'han', 'HanXRQChr16g0513701' => 'han', 'Haze_00897' => 'cav', 'Haze_01745' => 'cav', 'Haze_02486' => 'cav', 'Haze_02487' => 'cav', 'Haze_23374' => 'cav', 'Hma1.2p1_0578F.1_g182520' => 'hma', 'Hma1.2p1_0602F.1_g187350' => 'hma', 'Hma1.2p1_0602F.1_g187360' => 'hma', 'Hma1.2p1_0874F.1_g231320' => 'hma', 'Hma1.2p1_1197F.1_g266210' => 'hma', 'Hma1.2p1_1197F.1_g266220' => 'hma', 'Hma1.2p1_2167F.1_g315895' => 'hma', 'Hma1.2p1_2190F.1_g316640' => 'hma', 'Hma1.2p1_3645F.1_g337153' => 'hma', 'HPP92_004907' => 'vpl', 'HPP92_012134' => 'vpl', 'HPP92_025136' => 'vpl', 'HPP92_026087' => 'vpl', 'Hund06782' => 'sun', 'Hund06784' => 'sun', 'Lalb_Chr01g0004861' => 'lal', 'Lalb_Chr02g0140591' => 'lal', 'Lalb_Chr02g0140611' => 'lal', 'Lalb_Chr03g0028101' => 'lal', 'Lalb_Chr07g0185791' => 'lal', 'Lalb_Chr12g0204491' => 'lal', 'Lalb_Chr13g0295671' => 'lal', 'Lalb_Chr19g0136461' => 'lal', 'Lalb_Chr21g0309191' => 'lal', 'Lj1g0028158' => 'lja', 'Lj1P236T38' => 'lonja', 'Lj2C32G2' => 'lonja', 'Lj2P944T8' => 'lonja', 'Lj2P963T15' => 'lonja', 'Lj3g0011788' => 'lja', 'Lj4g0025027' => 'lja', 'Lj5P255T36' => 'lonja', 'Lj6g0018866' => 'lja', 'Lj6P608T31' => 'lonja', 'LjContig00408g0008879' => 'lja', 'Lsat_1_v5_gn_5_105820' => 'lsa', 'Lsat_1_v5_gn_6_38800' => 'lsa', 'Lsat_1_v5_gn_7_67141' => 'lsa', 'Manes.04G003400' => 'mes', 'Manes.07G020000' => 'mes', 'Manes.07G020100' => 'mes', 'Manes.07G020150' => 'mes', 'Manes.10G061500' => 'mes', 'Manes.10G123200' => 'mes', 'Manes.11G161900' => 'mes', 'Manes.15G029300' => 'mes', 'Mapoly0071s0018' => 'mpo', 'Mapoly0082s0023' => 'mpo', 'Mapoly3477s0001' => 'mpo', 'MBI05_g31233_MAGBIO' => 'mbi', 'MBI09_g05946_MAGBIO' => 'mbi', 'MBI09_g05947_MAGBIO' => 'mbi', 'MBI17_g08346_MAGBIO' => 'mbi', 'MCO04G038' => 'mco', 'MCO09G370' => 'mco', 'MCO13G605' => 'mco', 'MD00G1075500' => 'mdo', 'MD03G1144300' => 'mdo', 'MD08G1236800' => 'mdo', 'MD13G1193300' => 'mdo', 'MD15G1428700' => 'mdo', 'Medtr1g112030' => 'mtr', 'Medtr1g112050' => 'mtr', 'Medtr2g006290' => 'mtr', 'Medtr2g086510' => 'mtr', 'Medtr4g053120' => 'mtr', 'Medtr5g006320' => 'mtr', 'Medtr8g088720' => 'mtr', 'MELO3C004712.2' => 'cme', 'MELO3C006533.2' => 'cme', 'MELO3C019438.2' => 'cme', 'MELO3C019440.2' => 'cme', 'MELO3C019441.2' => 'cme', 'MELO3C019895.2' => 'cme', 'Migut.B00811' => 'egut', 'Migut.D02447' => 'egut', 'Migut.F00875' => 'egut', 'Migut.N00186' => 'egut', 'Migut.N01051' => 'egut', 'Migut.N02491' => 'egut', 'Migut.O00784' => 'egut', 'MSTRG.12367' => 'ama', 'MSTRG.18756' => 'ama', 'MSTRG.21042' => 'ama', 'Nitab4.5_0000559g0040' => 'nta', 'Nitab4.5_0000667g0190' => 'nta', 'Nitab4.5_0000755g0160' => 'nta', 'Nitab4.5_0001216g0080' => 'nta', 'Nitab4.5_0004069g0040' => 'nta', 'Nitab4.5_0004129g0010' => 'nta', 'Nitab4.5_0005744g0030' => 'nta', 'Nitab4.5_0006996g0030' => 'nta', 'Nitab4.5_0008971g0040' => 'nta', 'Nitab4.5_0009769g0020' => 'nta', 'Nitab4.5_0009833g0010' => 'nta', 'Nitab4.5_0013140g0020' => 'nta', 'Nn003s41376' => 'nnu', 'Nn1g01857' => 'nnu', 'Nn1g03611' => 'nnu', 'Nn1g06853' => 'nnu', 'Nn3g18360' => 'nnu', 'Nn4g26328' => 'nnu', 'Nn5g27531' => 'nnu', 'Nn6g34899' => 'nnu', 'Nn7g36299' => 'nnu', 'Oeu021485.1' => 'oeu', 'Oeu022433.1' => 'oeu', 'Oeu032111.1' => 'oeu', 'Oeu051608.1' => 'oeu', 'Os01g0860601' => 'osa', 'Os03g0659200' => 'osa', 'Os03g0835900' => 'osa', 'Os04g0412200' => 'osa', 'Os05g0443500' => 'osa', 'Os07g0251500' => 'osa', 'Os08g0104600' => 'osa', 'Peaxi162Scf00003g00047' => 'pax', 'Peaxi162Scf00003g00052' => 'pax', 'Peaxi162Scf00003g00394' => 'pax', 'Peaxi162Scf00091g00621' => 'pax', 'Peaxi162Scf00152g00146' => 'pax', 'Peaxi162Scf00173g00025' => 'pax', 'Peaxi162Scf00195g00102' => 'pax', 'Peaxi162Scf00402g00013' => 'pax', 'Peaxi162Scf00519g00618' => 'pax', 'PGR004G2838' => 'pgr', 'PGR044G2275' => 'pgr', 'PGR102G1377' => 'pgr', 'PGR119G1245' => 'pgr', 'PGR142G4449' => 'pgr', 'PGSC0003DMG400004532' => 'stu', 'PGSC0003DMG400011950' => 'stu', 'PGSC0003DMG400023391' => 'stu', 'PGSC0003DMG400023985' => 'stu', 'PGSC0003DMG400026360' => 'stu', 'PGSC0003DMG400035711' => 'stu', 'PGSC0003DMG400037286' => 'stu', 'PGSC0003DMG402005881' => 'stu', 'Phvul.002G045400' => 'pvu', 'Phvul.006G216600' => 'pvu', 'Phvul.006G216700' => 'pvu', 'Phvul.006G216800' => 'pvu', 'Phvul.007G022500' => 'pvu', 'Phvul.011G094400' => 'pvu', 'Potri.001G470700' => 'ptr', 'Potri.003G015200' => 'ptr', 'Potri.004G202500' => 'ptr', 'Potri.004G218400' => 'ptr', 'Potri.008G020100' => 'ptr', 'Potri.008G153200' => 'ptr', 'Potri.009G163800' => 'ptr', 'Potri.010G087300' => 'ptr', 'Potri.010G239100' => 'ptr', 'Pp3c10_16100' => 'ppa', 'Pp3c10_16880' => 'ppa', 'Pp3c16_6230' => 'ppa', 'Pp3c17_18910' => 'ppa', 'Pp3c3_22119' => 'ppa', 'Pp3c3_22140' => 'ppa', 'Pp3c4_8159' => 'ppa', 'Pp3c4_8171' => 'ppa', 'Pp3c4_8330' => 'ppa', 'PRCOL_00004098' => 'pco', 'Prupe.1G013900' => 'ppe', 'Prupe.1G226300' => 'ppe', 'Prupe.1G573600' => 'ppe', 'Prupe.6G130100' => 'ppe', 'Psat3g090040' => 'psa', 'Psat4g210440' => 'psa', 'Psat6g231040' => 'psa', 'Psat6g231080' => 'psa', 'Psat7g063000' => 'psa', 'Psat7g188000' => 'psa', 'Psat7g188040' => 'psa', 'PSO017G0206' => 'pso', 'PSO170G0501' => 'pso', 'PSO170G6422' => 'pso', 'PSO210G7739' => 'pso', 'PSO339G1808' => 'pso', 'PSO339G6135' => 'pso', 'PSO384G0010' => 'pso', 'PSO384G0964' => 'pso', 'PSO761G0050' => 'pso', 'PSO782G4085' => 'pso', 'QL01p012264' => 'qlo', 'QL02p099491' => 'qlo', 'QL03p033868' => 'qlo', 'QL04p046678' => 'qlo', 'QL06p002448' => 'qlo', 'RcHm_v2.0_Chr4g0416181' => 'rch', 'RcHm_v2.0_Chr5g0044701' => 'rch', 'RcHm_v2.0_Chr6g0265781' => 'rch', 'RcHm_v2.0_Chr7g0221031' => 'rch', 'Rhsim04G0202000' => 'rsi', 'Rhsim11G0127300' => 'rsi', 'Rhsim13G0111800' => 'rsi', 'Sabra01G0165600' => 'sbr', 'Sabra03G0008300' => 'sbr', 'Sabra04G0136900' => 'sbr', 'Sabra08G0013400' => 'sbr', 'Sabra08G0116800' => 'sbr', 'Sabra09G0128000' => 'sbr', 'Sabra10G0055500' => 'sbr', 'Sabra10G0073300' => 'sbr', 'SalBow3G0385' => 'sbo', 'SalBow3G1119' => 'sbo', 'SalBow3G2005' => 'sbo', 'SalBow6G2563' => 'sbo', 'SalBow6G6386' => 'sbo', 'Sc06g0008800' => 'sci', 'Sc07g0004950' => 'sci', 'Sc09g0005340' => 'sci', 'Sc13g0004410' => 'sci', 'Sc21g0007090' => 'sci', 'Sed0009285' => 'sed', 'Sed0017583' => 'sed', 'Sed0019699' => 'sed', 'Sed0023107' => 'sed', 'SEGI_10916' => 'sgi', 'SEGI_16217' => 'sgi', 'SEGI_19466' => 'sgi', 'SEGI_41115' => 'sgi', 'SGA_v2.0_scaffold111G31534' => 'sas', 'SGA_v2.0_scaffold22G09864' => 'sas', 'SGA_v2.0_scaffold338G49219' => 'sas', 'SGA_v2.0_scaffold92G28298' => 'sas', 'SMO119G0064' => 'smo', 'SMO223G0038' => 'smo', 'SMO347G0584' => 'smo', 'SMO351G0010' => 'smo', 'SMO356G0404' => 'smo', 'Solyc01g103920.3' => 'sly', 'Solyc04g009710.2' => 'sly', 'Solyc05g055280.2' => 'sly', 'Solyc10g044520.3' => 'sly', 'Solyc10g075160.1' => 'sly', 'Solyc11g006910.3' => 'sly', 'Solyc11g068430.3' => 'sly', 'Sopen01g046310' => 'spe', 'Sopen03g001200' => 'spe', 'Sopen04g004830' => 'spe', 'Sopen05g033720' => 'spe', 'Sopen06g030740' => 'spe', 'Sopen10g013090' => 'spe', 'Sopen10g027630' => 'spe', 'Sopen10g027640' => 'spe', 'Sopen11g002820' => 'spe', 'Sopen11g027140' => 'spe', 'Sp1g09680' => 'spa', 'Sp2g03630' => 'spa', 'Sp4g10320' => 'spa', 'Sp6g33400' => 'spa', 'Sp7g13030' => 'spa', 'TAR365G0317' => 'tar', 'TAR376G0979' => 'tar', 'TAR623G1665' => 'tar', 'TAR633G2373' => 'tar', 'TAR636G1400' => 'tar', 'THA.LOC104800529' => 'tha', 'THA.LOC104808547' => 'tha', 'THA.LOC104809615' => 'tha', 'THA.LOC104815724' => 'tha', 'THA.LOC104818480' => 'tha', 'THA.LOC104819179' => 'tha', 'THA.LOC104822270' => 'tha', 'THA.LOC104826425' => 'tha', 'Thecc.02G089700' => 'tca', 'Thecc.04G232300' => 'tca', 'Thecc.09G283400' => 'tca', 'Thhalv10009020m.g' => 'esa', 'Thhalv10015506m.g' => 'esa', 'Thhalv10017364m.g' => 'esa', 'Thhalv10023742m.g' => 'esa', 'Thhalv10026483m.g' => 'esa', 'TPR.G17232' => 'tpr', 'TPR.G2133' => 'tpr', 'TPR.G2498' => 'tpr', 'TPR.G31942' => 'tpr', 'TPR.G37877' => 'tpr', 'TPR.G4571' => 'tpr', 'TWI14G1113' => 'twi', 'TWI15G0426' => 'twi', 'TWI31G1005' => 'twi', 'TWI38G0513' => 'twi', 'TWI38G1484' => 'twi', 'TWI73G1098' => 'twi', 'unitig_26.g10519' => 'ugi', 'unitig_736.g22395' => 'ugi', 'unitig_747.g21234' => 'ugi', 'unitig_747.g21942' => 'ugi', 'vmacro14351' => 'vma', 'VMungo0540G0082' => 'vmu', 'VMungo0540G0405' => 'vmu', 'VMungo0540G1486' => 'vmu', 'VMungo0540G1692' => 'vmu', 'VMungo0720G2473' => 'vmu', 'VMungo1127G1562' => 'vmu', 'VMungo1215G1918' => 'vmu', 'Zm00001eb052650' => 'zma', 'Zm00001eb063710' => 'zma', 'Zm00001eb083950' => 'zma', 'Zm00001eb174420' => 'zma', 'Zm00001eb260140' => 'zma', 'Zm00001eb260150' => 'zma', 'Zm00001eb260160' => 'zma', 'Zm00001eb348290' => 'zma', 'Zm00001eb366870' => 'zma', 'Zm00001eb421930' => 'zma' ) $gf_id = 'HOM05D001025' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001025' ) $data_identifier = 'HOM05D001025' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 19, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 2, 'amhyb' => (int) 4, 'aly' => (int) 4, 'aox' => (int) 4, 'arhy' => (int) 3, 'ath' => (int) 5, 'atr' => (int) 4, 'acertr' => (int) 3, 'cqu' => (int) 7, 'bca' => (int) 17, 'bol' => (int) 10, 'bra' => (int) 9, 'can' => (int) 10, 'cansat' => (int) 6, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 5, 'cbr' => (int) 5, 'ccan' => (int) 5, 'cde' => (int) 4, 'cfa' => (int) 3, 'ccl' => (int) 6, 'cil' => (int) 4, 'cla' => (int) 3, 'col' => (int) 3, 'cpa' => (int) 3, 'cre' => (int) 7, 'csa' => (int) 5, 'camsi' => (int) 9, 'dca' => (int) 4, 'din' => (int) 5, 'dzi' => (int) 7, 'eca' => (int) 6, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 12, 'fve' => (int) 4, 'gma' => (int) 12, 'ghi' => (int) 17, 'gra' => (int) 9, 'vvi' => (int) 2, 'han' => (int) 8, 'cav' => (int) 5, 'hma' => (int) 9, 'vpl' => (int) 4, 'sun' => (int) 2, 'lal' => (int) 9, 'lja' => (int) 5, 'lonja' => (int) 6, 'lsa' => (int) 3, 'mes' => (int) 8, 'mpo' => (int) 3, 'mbi' => (int) 4, 'mco' => (int) 3, 'mdo' => (int) 5, 'mtr' => (int) 7, 'cme' => (int) 6, 'egut' => (int) 7, 'ama' => (int) 3, 'nta' => (int) 12, 'nnu' => (int) 9, 'oeu' => (int) 4, 'osa' => (int) 7, 'pax' => (int) 9, 'pgr' => (int) 5, 'stu' => (int) 8, 'pvu' => (int) 6, 'ptr' => (int) 9, 'ppa' => (int) 9, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 7, 'pso' => (int) 10, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 3, 'sbr' => (int) 8, 'sbo' => (int) 5, 'sci' => (int) 5, 'sed' => (int) 4, 'sgi' => (int) 4, 'sas' => (int) 4, 'smo' => (int) 5, 'sly' => (int) 7, 'spe' => (int) 10, 'spa' => (int) 5, 'tar' => (int) 5, 'tha' => (int) 8, 'tca' => (int) 3, 'esa' => (int) 5, 'tpr' => (int) 6, 'twi' => (int) 6, 'ugi' => (int) 4, 'vma' => (int) 1, 'vmu' => (int) 7, 'zma' => (int) 10 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb421930' $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' => 'HOM05D001025', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '592', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p22650' => 'bna', 'A01p29720' => 'bna', 'A03p26560' => 'bna', 'A03p68820' => 'bna', 'A04p20980' => 'bna', 'A06p07730' => 'bna', 'A07p18260' => 'bna', 'A08p33710' => 'bna', 'A09p16970' => 'bna', 'A10p27490' => 'bna', 'Aa31LG1G17300' => 'aar', 'Aa31LG1G3910' => 'aar', 'Aa31LG2G9630' => 'aar', 'Aa31LG5G8360' => 'aar', 'Aa31LG9G2410' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4699' => 'aag', 'Actinidia23512' => 'ach', 'Actinidia37080' => 'ach', 'Ah.01g020380' => 'amhyb', 'Ah.08g215710' => 'amhyb', 'Ah.09g225110' => 'amhyb', 'Ah.10g036680' => 'amhyb', 'AL1G21940' => 'aly', 'AL2G15540' => 'aly', 'AL4G21520' => 'aly', 'AL7G40960' => 'aly', 'Aqoxy2G01191' => 'aox', 'Aqoxy2G03393' => 'aox', 'Aqoxy4G02775' => 'aox', 'Aqoxy6G00058' => 'aox', 'arahy.Tifrunner.gnm1.ann1.9X74H2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CW3FX9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R485W7' => 'arhy', 'AT1G10960' => 'ath', 'AT1G60950' => 'ath', 'AT2G27510' => 'ath', 'AT4G14890' => 'ath', 'AT5G10000' => 'ath', 'ATR0665G624' => 'atr', 'ATR0697G138' => 'atr', 'ATR0776G046' => 'atr', 'ATR1134G135' => 'atr', 'Atru.chr12.1025' => 'acertr', 'Atru.chr3.3241' => 'acertr', 'Atru.chr4.2460' => 'acertr', 'AUR62007427' => 'cqu', 'AUR62010960' => 'cqu', 'AUR62012201' => 'cqu', 'AUR62021470' => 'cqu', 'AUR62022834' => 'cqu', 'AUR62033635' => 'cqu', 'AUR62036186' => 'cqu', 'BcaB01g03077' => 'bca', 'BcaB02g10093' => 'bca', 'BcaB04g20295' => 'bca', 'BcaB06g28147' => 'bca', 'BcaB07g31253' => 'bca', 'BcaC01g04946' => 'bca', 'BcaC02g10614' => 'bca', 'BcaC02g10885' => 'bca', 'BcaC04g19356' => 'bca', 'BcaC04g22297' => 'bca', 'BcaC05g24977' => 'bca', 'BcaC06g31823' => 'bca', 'BcaC07g38633' => 'bca', 'BcaC09g49353' => 'bca', 'BcaC09g50168' => 'bca', 'BcaNung00322' => 'bca', 'BcaNung04769' => 'bca', 'BolC1t02753H' => 'bol', 'BolC1t03721H' => 'bol', 'BolC3t15525H' => 'bol', 'BolC4t23903H' => 'bol', 'BolC4t24231H' => 'bol', 'BolC4t27209H' => 'bol', 'BolC5t29671H' => 'bol', 'BolC8t49044H' => 'bol', 'BolC9t54999H' => 'bol', 'BolC9t59517H' => 'bol', 'BraA01t02178Z' => 'bra', 'BraA01t03099Z' => 'bra', 'BraA03t11867Z' => 'bra', 'BraA04t17667Z' => 'bra', 'BraA07t29542Z' => 'bra', 'BraA08t35287Z' => 'bra', 'BraA09t37334Z' => 'bra', 'BraA10t44801Z' => 'bra', 'BraSC39t46181Z' => 'bra', 'C01p28240' => 'bna', 'C01p37530' => 'bna', 'C03p31820' => 'bna', 'C04p24080' => 'bna', 'C04p25790' => 'bna', 'C04p56770' => 'bna', 'C05p09310' => 'bna', 'C09p21010' => 'bna', 'C09p67560' => 'bna', 'CAN.G1324.7' => 'can', 'CAN.G1358.10' => 'can', 'CAN.G1550.2' => 'can', 'CAN.G186.56' => 'can', 'CAN.G1965.1' => 'can', 'CAN.G645.15' => 'can', 'CAN.G798.26' => 'can', 'CAN.G798.27' => 'can', 'CAN.G798.29' => 'can', 'CAN.G919.31' => 'can', 'CANSAT11G0133' => 'cansat', 'CANSAT11G1171' => 'cansat', 'CANSAT11G2056' => 'cansat', 'CANSAT56G1202' => 'cansat', 'CANSAT56G1514' => 'cansat', 'CANSAT78G0455' => 'cansat', 'CARHR011190' => 'chi', 'CARHR051980' => 'chi', 'CARHR120170' => 'chi', 'CARHR203310' => 'chi', 'CARHR221490' => 'chi', 'Carub.0001s1054' => 'cru', 'Carub.0002s0431' => 'cru', 'Carub.0004s0818' => 'cru', 'Carub.0006s0846' => 'cru', 'Carub.0007s2722' => 'cru', 'Ca_00058_v3' => 'car', 'Ca_17831_v3' => 'car', 'Ca_19408_v3' => 'car', 'Ca_24397_v3' => 'car', 'Ca_25664_v3' => 'car', 'CBR_g21818' => 'cbr', 'CBR_g31195' => 'cbr', 'CBR_g32282' => 'cbr', 'CBR_g39599' => 'cbr', 'CBR_g49410' => 'cbr', 'Cc01_g09120' => 'ccan', 'Cc01_g09130' => 'ccan', 'Cc02_g09630' => 'ccan', 'Cc02_g22810' => 'ccan', 'Cc03_g03810' => 'ccan', 'CDE02G3718' => 'cde', 'CDE04G3183' => 'cde', 'CDE07G1046' => 'cde', 'CDE08G0480' => 'cde', 'Cfa005493' => 'cfa', 'Cfa010312' => 'cfa', 'Cfa015648' => 'cfa', 'Ciclev10002793m.g' => 'ccl', 'Ciclev10003356m.g' => 'ccl', 'Ciclev10006141m.g' => 'ccl', 'Ciclev10016676m.g' => 'ccl', 'Ciclev10017081m.g' => 'ccl', 'Ciclev10029499m.g' => 'ccl', 'CiPaw.01G166300' => 'cil', 'CiPaw.06G145600' => 'cil', 'CiPaw.13G040100' => 'cil', 'CiPaw.13G135800' => 'cil', 'ClCG01G012230' => 'cla', 'ClCG05G009510' => 'cla', 'ClCG08G008270' => 'cla', 'COL.COLO4_11763' => 'col', 'COL.COLO4_19876' => 'col', 'COL.COLO4_21481' => 'col', 'Cpa.g.sc118.34' => 'cpa', 'Cpa.g.sc32.13' => 'cpa', 'Cpa.g.sc58.103' => 'cpa', 'Cre03.g183850' => 'cre', 'Cre06.g306350' => 'cre', 'Cre07.g334800' => 'cre', 'Cre12.g487900' => 'cre', 'Cre14.g626700' => 'cre', 'Cre16.g658400' => 'cre', 'Cre17.g700950' => 'cre', 'CsaV3_1G014830' => 'csa', 'CsaV3_3G013320' => 'csa', 'CsaV3_3G019210' => 'csa', 'CsaV3_3G019220' => 'csa', 'CsaV3_6G004230' => 'csa', 'CSS0003773' => 'camsi', 'CSS0004563' => 'camsi', 'CSS0013949' => 'camsi', 'CSS0025971' => 'camsi', 'CSS0028570' => 'camsi', 'CSS0033127' => 'camsi', 'CSS0036051' => 'camsi', 'CSS0040087' => 'camsi', 'CSS0043179' => 'camsi', 'DCAR_006161' => 'dca', 'DCAR_010351' => 'dca', 'DCAR_012197' => 'dca', 'DCAR_024162' => 'dca', 'Dinv01030' => 'din', 'Dinv10924' => 'din', 'Dinv11835' => 'din', 'Dinv22841' => 'din', 'Dinv42553' => 'din', 'Duzib052G0560' => 'dzi', 'Duzib132G0389' => 'dzi', 'Duzib150G1181' => 'dzi', 'Duzib168G0623' => 'dzi', 'Duzib170G1036' => 'dzi', 'Duzib212G0200' => 'dzi', 'Duzib248G0194' => 'dzi', 'ECA232G2193' => 'eca', 'ECA233G0302' => 'eca', 'ECA234G2813' => 'eca', 'ECA234G4866' => 'eca', 'ECA240G3932' => 'eca', 'ECA248G0385' => 'eca', 'EL10Ac2g04781' => 'bvu', 'EL10Ac3g06445' => 'bvu', 'EL10Ac7g15825' => 'bvu', 'EL10Ac8g18550' => 'bvu', 'Eucgr.B03849' => 'egr', 'Eucgr.I02744' => 'egr', 'Eucgr.J00264' => 'egr', 'Eucgr.J00493' => 'egr', 'FAN04G2181' => 'fan', 'FAN07G2666' => 'fan', 'FAN11G0024' => 'fan', 'FAN12G1105' => 'fan', 'FAN13G0302' => 'fan', 'FAN15G2781' => 'fan', 'FAN16G1274' => 'fan', 'FAN17G2988' => 'fan', 'FAN18G2621' => 'fan', 'FAN21G0013' => 'fan', 'FAN22G1211' => 'fan', 'FAN25G3626' => 'fan', 'FvH4_2g09491' => 'fve', 'FvH4_3g24910' => 'fve', 'FvH4_4g15630' => 'fve', 'FvH4_5g28820' => 'fve', 'Glyma.01G238000' => 'gma', 'Glyma.05G168400' => 'gma', 'Glyma.08G126800' => 'gma', 'Glyma.08G188500' => 'gma', 'Glyma.10G278900' => 'gma', 'Glyma.11G005700' => 'gma', 'Glyma.11G183300' => 'gma', 'Glyma.12G089200' => 'gma', 'Glyma.12G169400' => 'gma', 'Glyma.12G169500' => 'gma', 'Glyma.12G169600' => 'gma', 'Glyma.20G110800' => 'gma', 'Gohir.A03G192900' => 'ghi', 'Gohir.A03G193000' => 'ghi', 'Gohir.A05G080700' => 'ghi', 'Gohir.A09G216000' => 'ghi', 'Gohir.A12G027700' => 'ghi', 'Gohir.A13G036200' => 'ghi', 'Gohir.A13G222600' => 'ghi', 'Gohir.D02G213900' => 'ghi', 'Gohir.D02G214000' => 'ghi', 'Gohir.D05G083700' => 'ghi', 'Gohir.D05G083800' => 'ghi', 'Gohir.D05G083850' => 'ghi', 'Gohir.D08G015400' => 'ghi', 'Gohir.D09G218400' => 'ghi', 'Gohir.D12G027100' => 'ghi', 'Gohir.D13G034500' => 'ghi', 'Gohir.D13G227400' => 'ghi', 'Gorai.005G241800' => 'gra', 'Gorai.005G241900' => 'gra', 'Gorai.006G239400' => 'gra', 'Gorai.008G027600' => 'gra', 'Gorai.009G085400' => 'gra', 'Gorai.009G085500' => 'gra', 'Gorai.013G039000' => 'gra', 'Gorai.013G194800' => 'gra', 'Gorai.013G257900' => 'gra', 'GSVIVG01000982001' => 'vvi', 'GSVIVG01017981001' => 'vvi', 'HanXRQChr01g0024061' => 'han', 'HanXRQChr09g0247831' => 'han', 'HanXRQChr10g0294611' => 'han', 'HanXRQChr10g0294621' => 'han', 'HanXRQChr11g0346821' => 'han', 'HanXRQChr13g0397461' => 'han', 'HanXRQChr16g0513651' => 'han', 'HanXRQChr16g0513701' => 'han', 'Haze_00897' => 'cav', 'Haze_01745' => 'cav', 'Haze_02486' => 'cav', 'Haze_02487' => 'cav', 'Haze_23374' => 'cav', 'Hma1.2p1_0578F.1_g182520' => 'hma', 'Hma1.2p1_0602F.1_g187350' => 'hma', 'Hma1.2p1_0602F.1_g187360' => 'hma', 'Hma1.2p1_0874F.1_g231320' => 'hma', 'Hma1.2p1_1197F.1_g266210' => 'hma', 'Hma1.2p1_1197F.1_g266220' => 'hma', 'Hma1.2p1_2167F.1_g315895' => 'hma', 'Hma1.2p1_2190F.1_g316640' => 'hma', 'Hma1.2p1_3645F.1_g337153' => 'hma', 'HPP92_004907' => 'vpl', 'HPP92_012134' => 'vpl', 'HPP92_025136' => 'vpl', 'HPP92_026087' => 'vpl', 'Hund06782' => 'sun', 'Hund06784' => 'sun', 'Lalb_Chr01g0004861' => 'lal', 'Lalb_Chr02g0140591' => 'lal', 'Lalb_Chr02g0140611' => 'lal', 'Lalb_Chr03g0028101' => 'lal', 'Lalb_Chr07g0185791' => 'lal', 'Lalb_Chr12g0204491' => 'lal', 'Lalb_Chr13g0295671' => 'lal', 'Lalb_Chr19g0136461' => 'lal', 'Lalb_Chr21g0309191' => 'lal', 'Lj1g0028158' => 'lja', 'Lj1P236T38' => 'lonja', 'Lj2C32G2' => 'lonja', 'Lj2P944T8' => 'lonja', 'Lj2P963T15' => 'lonja', 'Lj3g0011788' => 'lja', 'Lj4g0025027' => 'lja', 'Lj5P255T36' => 'lonja', 'Lj6g0018866' => 'lja', 'Lj6P608T31' => 'lonja', 'LjContig00408g0008879' => 'lja', 'Lsat_1_v5_gn_5_105820' => 'lsa', 'Lsat_1_v5_gn_6_38800' => 'lsa', 'Lsat_1_v5_gn_7_67141' => 'lsa', 'Manes.04G003400' => 'mes', 'Manes.07G020000' => 'mes', 'Manes.07G020100' => 'mes', 'Manes.07G020150' => 'mes', 'Manes.10G061500' => 'mes', 'Manes.10G123200' => 'mes', 'Manes.11G161900' => 'mes', 'Manes.15G029300' => 'mes', 'Mapoly0071s0018' => 'mpo', 'Mapoly0082s0023' => 'mpo', 'Mapoly3477s0001' => 'mpo', 'MBI05_g31233_MAGBIO' => 'mbi', 'MBI09_g05946_MAGBIO' => 'mbi', 'MBI09_g05947_MAGBIO' => 'mbi', 'MBI17_g08346_MAGBIO' => 'mbi', 'MCO04G038' => 'mco', 'MCO09G370' => 'mco', 'MCO13G605' => 'mco', 'MD00G1075500' => 'mdo', 'MD03G1144300' => 'mdo', 'MD08G1236800' => 'mdo', 'MD13G1193300' => 'mdo', 'MD15G1428700' => 'mdo', 'Medtr1g112030' => 'mtr', 'Medtr1g112050' => 'mtr', 'Medtr2g006290' => 'mtr', 'Medtr2g086510' => 'mtr', 'Medtr4g053120' => 'mtr', 'Medtr5g006320' => 'mtr', 'Medtr8g088720' => 'mtr', 'MELO3C004712.2' => 'cme', 'MELO3C006533.2' => 'cme', 'MELO3C019438.2' => 'cme', 'MELO3C019440.2' => 'cme', 'MELO3C019441.2' => 'cme', 'MELO3C019895.2' => 'cme', 'Migut.B00811' => 'egut', 'Migut.D02447' => 'egut', 'Migut.F00875' => 'egut', 'Migut.N00186' => 'egut', 'Migut.N01051' => 'egut', 'Migut.N02491' => 'egut', 'Migut.O00784' => 'egut', 'MSTRG.12367' => 'ama', 'MSTRG.18756' => 'ama', 'MSTRG.21042' => 'ama', 'Nitab4.5_0000559g0040' => 'nta', 'Nitab4.5_0000667g0190' => 'nta', 'Nitab4.5_0000755g0160' => 'nta', 'Nitab4.5_0001216g0080' => 'nta', 'Nitab4.5_0004069g0040' => 'nta', 'Nitab4.5_0004129g0010' => 'nta', 'Nitab4.5_0005744g0030' => 'nta', 'Nitab4.5_0006996g0030' => 'nta', 'Nitab4.5_0008971g0040' => 'nta', 'Nitab4.5_0009769g0020' => 'nta', 'Nitab4.5_0009833g0010' => 'nta', 'Nitab4.5_0013140g0020' => 'nta', 'Nn003s41376' => 'nnu', 'Nn1g01857' => 'nnu', 'Nn1g03611' => 'nnu', 'Nn1g06853' => 'nnu', 'Nn3g18360' => 'nnu', 'Nn4g26328' => 'nnu', 'Nn5g27531' => 'nnu', 'Nn6g34899' => 'nnu', 'Nn7g36299' => 'nnu', 'Oeu021485.1' => 'oeu', 'Oeu022433.1' => 'oeu', 'Oeu032111.1' => 'oeu', 'Oeu051608.1' => 'oeu', 'Os01g0860601' => 'osa', 'Os03g0659200' => 'osa', 'Os03g0835900' => 'osa', 'Os04g0412200' => 'osa', 'Os05g0443500' => 'osa', 'Os07g0251500' => 'osa', 'Os08g0104600' => 'osa', 'Peaxi162Scf00003g00047' => 'pax', 'Peaxi162Scf00003g00052' => 'pax', 'Peaxi162Scf00003g00394' => 'pax', 'Peaxi162Scf00091g00621' => 'pax', 'Peaxi162Scf00152g00146' => 'pax', 'Peaxi162Scf00173g00025' => 'pax', 'Peaxi162Scf00195g00102' => 'pax', 'Peaxi162Scf00402g00013' => 'pax', 'Peaxi162Scf00519g00618' => 'pax', 'PGR004G2838' => 'pgr', 'PGR044G2275' => 'pgr', 'PGR102G1377' => 'pgr', 'PGR119G1245' => 'pgr', 'PGR142G4449' => 'pgr', 'PGSC0003DMG400004532' => 'stu', 'PGSC0003DMG400011950' => 'stu', 'PGSC0003DMG400023391' => 'stu', 'PGSC0003DMG400023985' => 'stu', 'PGSC0003DMG400026360' => 'stu', 'PGSC0003DMG400035711' => 'stu', 'PGSC0003DMG400037286' => 'stu', 'PGSC0003DMG402005881' => 'stu', 'Phvul.002G045400' => 'pvu', 'Phvul.006G216600' => 'pvu', 'Phvul.006G216700' => 'pvu', 'Phvul.006G216800' => 'pvu', 'Phvul.007G022500' => 'pvu', 'Phvul.011G094400' => 'pvu', 'Potri.001G470700' => 'ptr', 'Potri.003G015200' => 'ptr', 'Potri.004G202500' => 'ptr', 'Potri.004G218400' => 'ptr', 'Potri.008G020100' => 'ptr', 'Potri.008G153200' => 'ptr', 'Potri.009G163800' => 'ptr', 'Potri.010G087300' => 'ptr', 'Potri.010G239100' => 'ptr', 'Pp3c10_16100' => 'ppa', 'Pp3c10_16880' => 'ppa', 'Pp3c16_6230' => 'ppa', 'Pp3c17_18910' => 'ppa', 'Pp3c3_22119' => 'ppa', 'Pp3c3_22140' => 'ppa', 'Pp3c4_8159' => 'ppa', 'Pp3c4_8171' => 'ppa', 'Pp3c4_8330' => 'ppa', 'PRCOL_00004098' => 'pco', 'Prupe.1G013900' => 'ppe', 'Prupe.1G226300' => 'ppe', 'Prupe.1G573600' => 'ppe', 'Prupe.6G130100' => 'ppe', 'Psat3g090040' => 'psa', 'Psat4g210440' => 'psa', 'Psat6g231040' => 'psa', 'Psat6g231080' => 'psa', 'Psat7g063000' => 'psa', 'Psat7g188000' => 'psa', 'Psat7g188040' => 'psa', 'PSO017G0206' => 'pso', 'PSO170G0501' => 'pso', 'PSO170G6422' => 'pso', 'PSO210G7739' => 'pso', 'PSO339G1808' => 'pso', 'PSO339G6135' => 'pso', 'PSO384G0010' => 'pso', 'PSO384G0964' => 'pso', 'PSO761G0050' => 'pso', 'PSO782G4085' => 'pso', 'QL01p012264' => 'qlo', 'QL02p099491' => 'qlo', 'QL03p033868' => 'qlo', 'QL04p046678' => 'qlo', 'QL06p002448' => 'qlo', 'RcHm_v2.0_Chr4g0416181' => 'rch', 'RcHm_v2.0_Chr5g0044701' => 'rch', 'RcHm_v2.0_Chr6g0265781' => 'rch', 'RcHm_v2.0_Chr7g0221031' => 'rch', 'Rhsim04G0202000' => 'rsi', 'Rhsim11G0127300' => 'rsi', 'Rhsim13G0111800' => 'rsi', 'Sabra01G0165600' => 'sbr', 'Sabra03G0008300' => 'sbr', 'Sabra04G0136900' => 'sbr', 'Sabra08G0013400' => 'sbr', 'Sabra08G0116800' => 'sbr', 'Sabra09G0128000' => 'sbr', 'Sabra10G0055500' => 'sbr', 'Sabra10G0073300' => 'sbr', 'SalBow3G0385' => 'sbo', 'SalBow3G1119' => 'sbo', 'SalBow3G2005' => 'sbo', 'SalBow6G2563' => 'sbo', 'SalBow6G6386' => 'sbo', 'Sc06g0008800' => 'sci', 'Sc07g0004950' => 'sci', 'Sc09g0005340' => 'sci', 'Sc13g0004410' => 'sci', 'Sc21g0007090' => 'sci', 'Sed0009285' => 'sed', 'Sed0017583' => 'sed', 'Sed0019699' => 'sed', 'Sed0023107' => 'sed', 'SEGI_10916' => 'sgi', 'SEGI_16217' => 'sgi', 'SEGI_19466' => 'sgi', 'SEGI_41115' => 'sgi', 'SGA_v2.0_scaffold111G31534' => 'sas', 'SGA_v2.0_scaffold22G09864' => 'sas', 'SGA_v2.0_scaffold338G49219' => 'sas', 'SGA_v2.0_scaffold92G28298' => 'sas', 'SMO119G0064' => 'smo', 'SMO223G0038' => 'smo', 'SMO347G0584' => 'smo', 'SMO351G0010' => 'smo', 'SMO356G0404' => 'smo', 'Solyc01g103920.3' => 'sly', 'Solyc04g009710.2' => 'sly', 'Solyc05g055280.2' => 'sly', 'Solyc10g044520.3' => 'sly', 'Solyc10g075160.1' => 'sly', 'Solyc11g006910.3' => 'sly', 'Solyc11g068430.3' => 'sly', 'Sopen01g046310' => 'spe', 'Sopen03g001200' => 'spe', 'Sopen04g004830' => 'spe', 'Sopen05g033720' => 'spe', 'Sopen06g030740' => 'spe', 'Sopen10g013090' => 'spe', 'Sopen10g027630' => 'spe', 'Sopen10g027640' => 'spe', 'Sopen11g002820' => 'spe', 'Sopen11g027140' => 'spe', 'Sp1g09680' => 'spa', 'Sp2g03630' => 'spa', 'Sp4g10320' => 'spa', 'Sp6g33400' => 'spa', 'Sp7g13030' => 'spa', 'TAR365G0317' => 'tar', 'TAR376G0979' => 'tar', 'TAR623G1665' => 'tar', 'TAR633G2373' => 'tar', 'TAR636G1400' => 'tar', 'THA.LOC104800529' => 'tha', 'THA.LOC104808547' => 'tha', 'THA.LOC104809615' => 'tha', 'THA.LOC104815724' => 'tha', 'THA.LOC104818480' => 'tha', 'THA.LOC104819179' => 'tha', 'THA.LOC104822270' => 'tha', 'THA.LOC104826425' => 'tha', 'Thecc.02G089700' => 'tca', 'Thecc.04G232300' => 'tca', 'Thecc.09G283400' => 'tca', 'Thhalv10009020m.g' => 'esa', 'Thhalv10015506m.g' => 'esa', 'Thhalv10017364m.g' => 'esa', 'Thhalv10023742m.g' => 'esa', 'Thhalv10026483m.g' => 'esa', 'TPR.G17232' => 'tpr', 'TPR.G2133' => 'tpr', 'TPR.G2498' => 'tpr', 'TPR.G31942' => 'tpr', 'TPR.G37877' => 'tpr', 'TPR.G4571' => 'tpr', 'TWI14G1113' => 'twi', 'TWI15G0426' => 'twi', 'TWI31G1005' => 'twi', 'TWI38G0513' => 'twi', 'TWI38G1484' => 'twi', 'TWI73G1098' => 'twi', 'unitig_26.g10519' => 'ugi', 'unitig_736.g22395' => 'ugi', 'unitig_747.g21234' => 'ugi', 'unitig_747.g21942' => 'ugi', 'vmacro14351' => 'vma', 'VMungo0540G0082' => 'vmu', 'VMungo0540G0405' => 'vmu', 'VMungo0540G1486' => 'vmu', 'VMungo0540G1692' => 'vmu', 'VMungo0720G2473' => 'vmu', 'VMungo1127G1562' => 'vmu', 'VMungo1215G1918' => 'vmu', 'Zm00001eb052650' => 'zma', 'Zm00001eb063710' => 'zma', 'Zm00001eb083950' => 'zma', 'Zm00001eb174420' => 'zma', 'Zm00001eb260140' => 'zma', 'Zm00001eb260150' => 'zma', 'Zm00001eb260160' => 'zma', 'Zm00001eb348290' => 'zma', 'Zm00001eb366870' => 'zma', 'Zm00001eb421930' => 'zma' ), 'gf_id' => 'HOM05D001025', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001025' ), 'data_identifier' => 'HOM05D001025', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001025', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '592', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p22650' => 'bna', 'A01p29720' => 'bna', 'A03p26560' => 'bna', 'A03p68820' => 'bna', 'A04p20980' => 'bna', 'A06p07730' => 'bna', 'A07p18260' => 'bna', 'A08p33710' => 'bna', 'A09p16970' => 'bna', 'A10p27490' => 'bna', 'Aa31LG1G17300' => 'aar', 'Aa31LG1G3910' => 'aar', 'Aa31LG2G9630' => 'aar', 'Aa31LG5G8360' => 'aar', 'Aa31LG9G2410' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4699' => 'aag', 'Actinidia23512' => 'ach', 'Actinidia37080' => 'ach', 'Ah.01g020380' => 'amhyb', 'Ah.08g215710' => 'amhyb', 'Ah.09g225110' => 'amhyb', 'Ah.10g036680' => 'amhyb', 'AL1G21940' => 'aly', 'AL2G15540' => 'aly', 'AL4G21520' => 'aly', 'AL7G40960' => 'aly', 'Aqoxy2G01191' => 'aox', 'Aqoxy2G03393' => 'aox', 'Aqoxy4G02775' => 'aox', 'Aqoxy6G00058' => 'aox', 'arahy.Tifrunner.gnm1.ann1.9X74H2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CW3FX9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R485W7' => 'arhy', 'AT1G10960' => 'ath', 'AT1G60950' => 'ath', 'AT2G27510' => 'ath', 'AT4G14890' => 'ath', 'AT5G10000' => 'ath', 'ATR0665G624' => 'atr', 'ATR0697G138' => 'atr', 'ATR0776G046' => 'atr', 'ATR1134G135' => 'atr', 'Atru.chr12.1025' => 'acertr', 'Atru.chr3.3241' => 'acertr', 'Atru.chr4.2460' => 'acertr', 'AUR62007427' => 'cqu', 'AUR62010960' => 'cqu', 'AUR62012201' => 'cqu', 'AUR62021470' => 'cqu', 'AUR62022834' => 'cqu', 'AUR62033635' => 'cqu', 'AUR62036186' => 'cqu', 'BcaB01g03077' => 'bca', 'BcaB02g10093' => 'bca', 'BcaB04g20295' => 'bca', 'BcaB06g28147' => 'bca', 'BcaB07g31253' => 'bca', 'BcaC01g04946' => 'bca', 'BcaC02g10614' => 'bca', 'BcaC02g10885' => 'bca', 'BcaC04g19356' => 'bca', 'BcaC04g22297' => 'bca', 'BcaC05g24977' => 'bca', 'BcaC06g31823' => 'bca', 'BcaC07g38633' => 'bca', 'BcaC09g49353' => 'bca', 'BcaC09g50168' => 'bca', 'BcaNung00322' => 'bca', 'BcaNung04769' => 'bca', 'BolC1t02753H' => 'bol', 'BolC1t03721H' => 'bol', 'BolC3t15525H' => 'bol', 'BolC4t23903H' => 'bol', 'BolC4t24231H' => 'bol', 'BolC4t27209H' => 'bol', 'BolC5t29671H' => 'bol', 'BolC8t49044H' => 'bol', 'BolC9t54999H' => 'bol', 'BolC9t59517H' => 'bol', 'BraA01t02178Z' => 'bra', 'BraA01t03099Z' => 'bra', 'BraA03t11867Z' => 'bra', 'BraA04t17667Z' => 'bra', 'BraA07t29542Z' => 'bra', 'BraA08t35287Z' => 'bra', 'BraA09t37334Z' => 'bra', 'BraA10t44801Z' => 'bra', 'BraSC39t46181Z' => 'bra', 'C01p28240' => 'bna', 'C01p37530' => 'bna', 'C03p31820' => 'bna', 'C04p24080' => 'bna', 'C04p25790' => 'bna', 'C04p56770' => 'bna', 'C05p09310' => 'bna', 'C09p21010' => 'bna', 'C09p67560' => 'bna', 'CAN.G1324.7' => 'can', 'CAN.G1358.10' => 'can', 'CAN.G1550.2' => 'can', 'CAN.G186.56' => 'can', 'CAN.G1965.1' => 'can', 'CAN.G645.15' => 'can', 'CAN.G798.26' => 'can', 'CAN.G798.27' => 'can', 'CAN.G798.29' => 'can', 'CAN.G919.31' => 'can', 'CANSAT11G0133' => 'cansat', 'CANSAT11G1171' => 'cansat', 'CANSAT11G2056' => 'cansat', 'CANSAT56G1202' => 'cansat', 'CANSAT56G1514' => 'cansat', 'CANSAT78G0455' => 'cansat', 'CARHR011190' => 'chi', 'CARHR051980' => 'chi', 'CARHR120170' => 'chi', 'CARHR203310' => 'chi', 'CARHR221490' => 'chi', 'Carub.0001s1054' => 'cru', 'Carub.0002s0431' => 'cru', 'Carub.0004s0818' => 'cru', 'Carub.0006s0846' => 'cru', 'Carub.0007s2722' => 'cru', 'Ca_00058_v3' => 'car', 'Ca_17831_v3' => 'car', 'Ca_19408_v3' => 'car', 'Ca_24397_v3' => 'car', 'Ca_25664_v3' => 'car', 'CBR_g21818' => 'cbr', 'CBR_g31195' => 'cbr', 'CBR_g32282' => 'cbr', 'CBR_g39599' => 'cbr', 'CBR_g49410' => 'cbr', 'Cc01_g09120' => 'ccan', 'Cc01_g09130' => 'ccan', 'Cc02_g09630' => 'ccan', 'Cc02_g22810' => 'ccan', 'Cc03_g03810' => 'ccan', 'CDE02G3718' => 'cde', 'CDE04G3183' => 'cde', 'CDE07G1046' => 'cde', 'CDE08G0480' => 'cde', 'Cfa005493' => 'cfa', 'Cfa010312' => 'cfa', 'Cfa015648' => 'cfa', 'Ciclev10002793m.g' => 'ccl', 'Ciclev10003356m.g' => 'ccl', 'Ciclev10006141m.g' => 'ccl', 'Ciclev10016676m.g' => 'ccl', 'Ciclev10017081m.g' => 'ccl', 'Ciclev10029499m.g' => 'ccl', 'CiPaw.01G166300' => 'cil', 'CiPaw.06G145600' => 'cil', 'CiPaw.13G040100' => 'cil', 'CiPaw.13G135800' => 'cil', 'ClCG01G012230' => 'cla', 'ClCG05G009510' => 'cla', 'ClCG08G008270' => 'cla', 'COL.COLO4_11763' => 'col', 'COL.COLO4_19876' => 'col', 'COL.COLO4_21481' => 'col', 'Cpa.g.sc118.34' => 'cpa', 'Cpa.g.sc32.13' => 'cpa', 'Cpa.g.sc58.103' => 'cpa', 'Cre03.g183850' => 'cre', 'Cre06.g306350' => 'cre', 'Cre07.g334800' => 'cre', 'Cre12.g487900' => 'cre', 'Cre14.g626700' => 'cre', 'Cre16.g658400' => 'cre', 'Cre17.g700950' => 'cre', 'CsaV3_1G014830' => 'csa', 'CsaV3_3G013320' => 'csa', 'CsaV3_3G019210' => 'csa', 'CsaV3_3G019220' => 'csa', 'CsaV3_6G004230' => 'csa', 'CSS0003773' => 'camsi', 'CSS0004563' => 'camsi', 'CSS0013949' => 'camsi', 'CSS0025971' => 'camsi', 'CSS0028570' => 'camsi', 'CSS0033127' => 'camsi', 'CSS0036051' => 'camsi', 'CSS0040087' => 'camsi', 'CSS0043179' => 'camsi', 'DCAR_006161' => 'dca', 'DCAR_010351' => 'dca', 'DCAR_012197' => 'dca', 'DCAR_024162' => 'dca', 'Dinv01030' => 'din', 'Dinv10924' => 'din', 'Dinv11835' => 'din', 'Dinv22841' => 'din', 'Dinv42553' => 'din', 'Duzib052G0560' => 'dzi', 'Duzib132G0389' => 'dzi', 'Duzib150G1181' => 'dzi', 'Duzib168G0623' => 'dzi', 'Duzib170G1036' => 'dzi', 'Duzib212G0200' => 'dzi', 'Duzib248G0194' => 'dzi', 'ECA232G2193' => 'eca', 'ECA233G0302' => 'eca', 'ECA234G2813' => 'eca', 'ECA234G4866' => 'eca', 'ECA240G3932' => 'eca', 'ECA248G0385' => 'eca', 'EL10Ac2g04781' => 'bvu', 'EL10Ac3g06445' => 'bvu', 'EL10Ac7g15825' => 'bvu', 'EL10Ac8g18550' => 'bvu', 'Eucgr.B03849' => 'egr', 'Eucgr.I02744' => 'egr', 'Eucgr.J00264' => 'egr', 'Eucgr.J00493' => 'egr', 'FAN04G2181' => 'fan', 'FAN07G2666' => 'fan', 'FAN11G0024' => 'fan', 'FAN12G1105' => 'fan', 'FAN13G0302' => 'fan', 'FAN15G2781' => 'fan', 'FAN16G1274' => 'fan', 'FAN17G2988' => 'fan', 'FAN18G2621' => 'fan', 'FAN21G0013' => 'fan', 'FAN22G1211' => 'fan', 'FAN25G3626' => 'fan', 'FvH4_2g09491' => 'fve', 'FvH4_3g24910' => 'fve', 'FvH4_4g15630' => 'fve', 'FvH4_5g28820' => 'fve', 'Glyma.01G238000' => 'gma', 'Glyma.05G168400' => 'gma', 'Glyma.08G126800' => 'gma', 'Glyma.08G188500' => 'gma', 'Glyma.10G278900' => 'gma', 'Glyma.11G005700' => 'gma', 'Glyma.11G183300' => 'gma', 'Glyma.12G089200' => 'gma', 'Glyma.12G169400' => 'gma', 'Glyma.12G169500' => 'gma', 'Glyma.12G169600' => 'gma', 'Glyma.20G110800' => 'gma', 'Gohir.A03G192900' => 'ghi', 'Gohir.A03G193000' => 'ghi', 'Gohir.A05G080700' => 'ghi', 'Gohir.A09G216000' => 'ghi', 'Gohir.A12G027700' => 'ghi', 'Gohir.A13G036200' => 'ghi', 'Gohir.A13G222600' => 'ghi', 'Gohir.D02G213900' => 'ghi', 'Gohir.D02G214000' => 'ghi', 'Gohir.D05G083700' => 'ghi', 'Gohir.D05G083800' => 'ghi', 'Gohir.D05G083850' => 'ghi', 'Gohir.D08G015400' => 'ghi', 'Gohir.D09G218400' => 'ghi', 'Gohir.D12G027100' => 'ghi', 'Gohir.D13G034500' => 'ghi', 'Gohir.D13G227400' => 'ghi', 'Gorai.005G241800' => 'gra', 'Gorai.005G241900' => 'gra', 'Gorai.006G239400' => 'gra', 'Gorai.008G027600' => 'gra', 'Gorai.009G085400' => 'gra', 'Gorai.009G085500' => 'gra', 'Gorai.013G039000' => 'gra', 'Gorai.013G194800' => 'gra', 'Gorai.013G257900' => 'gra', 'GSVIVG01000982001' => 'vvi', 'GSVIVG01017981001' => 'vvi', 'HanXRQChr01g0024061' => 'han', 'HanXRQChr09g0247831' => 'han', 'HanXRQChr10g0294611' => 'han', 'HanXRQChr10g0294621' => 'han', 'HanXRQChr11g0346821' => 'han', 'HanXRQChr13g0397461' => 'han', 'HanXRQChr16g0513651' => 'han', 'HanXRQChr16g0513701' => 'han', 'Haze_00897' => 'cav', 'Haze_01745' => 'cav', 'Haze_02486' => 'cav', 'Haze_02487' => 'cav', 'Haze_23374' => 'cav', 'Hma1.2p1_0578F.1_g182520' => 'hma', 'Hma1.2p1_0602F.1_g187350' => 'hma', 'Hma1.2p1_0602F.1_g187360' => 'hma', 'Hma1.2p1_0874F.1_g231320' => 'hma', 'Hma1.2p1_1197F.1_g266210' => 'hma', 'Hma1.2p1_1197F.1_g266220' => 'hma', 'Hma1.2p1_2167F.1_g315895' => 'hma', 'Hma1.2p1_2190F.1_g316640' => 'hma', 'Hma1.2p1_3645F.1_g337153' => 'hma', 'HPP92_004907' => 'vpl', 'HPP92_012134' => 'vpl', 'HPP92_025136' => 'vpl', 'HPP92_026087' => 'vpl', 'Hund06782' => 'sun', 'Hund06784' => 'sun', 'Lalb_Chr01g0004861' => 'lal', 'Lalb_Chr02g0140591' => 'lal', 'Lalb_Chr02g0140611' => 'lal', 'Lalb_Chr03g0028101' => 'lal', 'Lalb_Chr07g0185791' => 'lal', 'Lalb_Chr12g0204491' => 'lal', 'Lalb_Chr13g0295671' => 'lal', 'Lalb_Chr19g0136461' => 'lal', 'Lalb_Chr21g0309191' => 'lal', 'Lj1g0028158' => 'lja', 'Lj1P236T38' => 'lonja', 'Lj2C32G2' => 'lonja', 'Lj2P944T8' => 'lonja', 'Lj2P963T15' => 'lonja', 'Lj3g0011788' => 'lja', 'Lj4g0025027' => 'lja', 'Lj5P255T36' => 'lonja', 'Lj6g0018866' => 'lja', 'Lj6P608T31' => 'lonja', 'LjContig00408g0008879' => 'lja', 'Lsat_1_v5_gn_5_105820' => 'lsa', 'Lsat_1_v5_gn_6_38800' => 'lsa', 'Lsat_1_v5_gn_7_67141' => 'lsa', 'Manes.04G003400' => 'mes', 'Manes.07G020000' => 'mes', 'Manes.07G020100' => 'mes', 'Manes.07G020150' => 'mes', 'Manes.10G061500' => 'mes', 'Manes.10G123200' => 'mes', 'Manes.11G161900' => 'mes', 'Manes.15G029300' => 'mes', 'Mapoly0071s0018' => 'mpo', 'Mapoly0082s0023' => 'mpo', 'Mapoly3477s0001' => 'mpo', 'MBI05_g31233_MAGBIO' => 'mbi', 'MBI09_g05946_MAGBIO' => 'mbi', 'MBI09_g05947_MAGBIO' => 'mbi', 'MBI17_g08346_MAGBIO' => 'mbi', 'MCO04G038' => 'mco', 'MCO09G370' => 'mco', 'MCO13G605' => 'mco', 'MD00G1075500' => 'mdo', 'MD03G1144300' => 'mdo', 'MD08G1236800' => 'mdo', 'MD13G1193300' => 'mdo', 'MD15G1428700' => 'mdo', 'Medtr1g112030' => 'mtr', 'Medtr1g112050' => 'mtr', 'Medtr2g006290' => 'mtr', 'Medtr2g086510' => 'mtr', 'Medtr4g053120' => 'mtr', 'Medtr5g006320' => 'mtr', 'Medtr8g088720' => 'mtr', 'MELO3C004712.2' => 'cme', 'MELO3C006533.2' => 'cme', 'MELO3C019438.2' => 'cme', 'MELO3C019440.2' => 'cme', 'MELO3C019441.2' => 'cme', 'MELO3C019895.2' => 'cme', 'Migut.B00811' => 'egut', 'Migut.D02447' => 'egut', 'Migut.F00875' => 'egut', 'Migut.N00186' => 'egut', 'Migut.N01051' => 'egut', 'Migut.N02491' => 'egut', 'Migut.O00784' => 'egut', 'MSTRG.12367' => 'ama', 'MSTRG.18756' => 'ama', 'MSTRG.21042' => 'ama', 'Nitab4.5_0000559g0040' => 'nta', 'Nitab4.5_0000667g0190' => 'nta', 'Nitab4.5_0000755g0160' => 'nta', 'Nitab4.5_0001216g0080' => 'nta', 'Nitab4.5_0004069g0040' => 'nta', 'Nitab4.5_0004129g0010' => 'nta', 'Nitab4.5_0005744g0030' => 'nta', 'Nitab4.5_0006996g0030' => 'nta', 'Nitab4.5_0008971g0040' => 'nta', 'Nitab4.5_0009769g0020' => 'nta', 'Nitab4.5_0009833g0010' => 'nta', 'Nitab4.5_0013140g0020' => 'nta', 'Nn003s41376' => 'nnu', 'Nn1g01857' => 'nnu', 'Nn1g03611' => 'nnu', 'Nn1g06853' => 'nnu', 'Nn3g18360' => 'nnu', 'Nn4g26328' => 'nnu', 'Nn5g27531' => 'nnu', 'Nn6g34899' => 'nnu', 'Nn7g36299' => 'nnu', 'Oeu021485.1' => 'oeu', 'Oeu022433.1' => 'oeu', 'Oeu032111.1' => 'oeu', 'Oeu051608.1' => 'oeu', 'Os01g0860601' => 'osa', 'Os03g0659200' => 'osa', 'Os03g0835900' => 'osa', 'Os04g0412200' => 'osa', 'Os05g0443500' => 'osa', 'Os07g0251500' => 'osa', 'Os08g0104600' => 'osa', 'Peaxi162Scf00003g00047' => 'pax', 'Peaxi162Scf00003g00052' => 'pax', 'Peaxi162Scf00003g00394' => 'pax', 'Peaxi162Scf00091g00621' => 'pax', 'Peaxi162Scf00152g00146' => 'pax', 'Peaxi162Scf00173g00025' => 'pax', 'Peaxi162Scf00195g00102' => 'pax', 'Peaxi162Scf00402g00013' => 'pax', 'Peaxi162Scf00519g00618' => 'pax', 'PGR004G2838' => 'pgr', 'PGR044G2275' => 'pgr', 'PGR102G1377' => 'pgr', 'PGR119G1245' => 'pgr', 'PGR142G4449' => 'pgr', 'PGSC0003DMG400004532' => 'stu', 'PGSC0003DMG400011950' => 'stu', 'PGSC0003DMG400023391' => 'stu', 'PGSC0003DMG400023985' => 'stu', 'PGSC0003DMG400026360' => 'stu', 'PGSC0003DMG400035711' => 'stu', 'PGSC0003DMG400037286' => 'stu', 'PGSC0003DMG402005881' => 'stu', 'Phvul.002G045400' => 'pvu', 'Phvul.006G216600' => 'pvu', 'Phvul.006G216700' => 'pvu', 'Phvul.006G216800' => 'pvu', 'Phvul.007G022500' => 'pvu', 'Phvul.011G094400' => 'pvu', 'Potri.001G470700' => 'ptr', 'Potri.003G015200' => 'ptr', 'Potri.004G202500' => 'ptr', 'Potri.004G218400' => 'ptr', 'Potri.008G020100' => 'ptr', 'Potri.008G153200' => 'ptr', 'Potri.009G163800' => 'ptr', 'Potri.010G087300' => 'ptr', 'Potri.010G239100' => 'ptr', 'Pp3c10_16100' => 'ppa', 'Pp3c10_16880' => 'ppa', 'Pp3c16_6230' => 'ppa', 'Pp3c17_18910' => 'ppa', 'Pp3c3_22119' => 'ppa', 'Pp3c3_22140' => 'ppa', 'Pp3c4_8159' => 'ppa', 'Pp3c4_8171' => 'ppa', 'Pp3c4_8330' => 'ppa', 'PRCOL_00004098' => 'pco', 'Prupe.1G013900' => 'ppe', 'Prupe.1G226300' => 'ppe', 'Prupe.1G573600' => 'ppe', 'Prupe.6G130100' => 'ppe', 'Psat3g090040' => 'psa', 'Psat4g210440' => 'psa', 'Psat6g231040' => 'psa', 'Psat6g231080' => 'psa', 'Psat7g063000' => 'psa', 'Psat7g188000' => 'psa', 'Psat7g188040' => 'psa', 'PSO017G0206' => 'pso', 'PSO170G0501' => 'pso', 'PSO170G6422' => 'pso', 'PSO210G7739' => 'pso', 'PSO339G1808' => 'pso', 'PSO339G6135' => 'pso', 'PSO384G0010' => 'pso', 'PSO384G0964' => 'pso', 'PSO761G0050' => 'pso', 'PSO782G4085' => 'pso', 'QL01p012264' => 'qlo', 'QL02p099491' => 'qlo', 'QL03p033868' => 'qlo', 'QL04p046678' => 'qlo', 'QL06p002448' => 'qlo', 'RcHm_v2.0_Chr4g0416181' => 'rch', 'RcHm_v2.0_Chr5g0044701' => 'rch', 'RcHm_v2.0_Chr6g0265781' => 'rch', 'RcHm_v2.0_Chr7g0221031' => 'rch', 'Rhsim04G0202000' => 'rsi', 'Rhsim11G0127300' => 'rsi', 'Rhsim13G0111800' => 'rsi', 'Sabra01G0165600' => 'sbr', 'Sabra03G0008300' => 'sbr', 'Sabra04G0136900' => 'sbr', 'Sabra08G0013400' => 'sbr', 'Sabra08G0116800' => 'sbr', 'Sabra09G0128000' => 'sbr', 'Sabra10G0055500' => 'sbr', 'Sabra10G0073300' => 'sbr', 'SalBow3G0385' => 'sbo', 'SalBow3G1119' => 'sbo', 'SalBow3G2005' => 'sbo', 'SalBow6G2563' => 'sbo', 'SalBow6G6386' => 'sbo', 'Sc06g0008800' => 'sci', 'Sc07g0004950' => 'sci', 'Sc09g0005340' => 'sci', 'Sc13g0004410' => 'sci', 'Sc21g0007090' => 'sci', 'Sed0009285' => 'sed', 'Sed0017583' => 'sed', 'Sed0019699' => 'sed', 'Sed0023107' => 'sed', 'SEGI_10916' => 'sgi', 'SEGI_16217' => 'sgi', 'SEGI_19466' => 'sgi', 'SEGI_41115' => 'sgi', 'SGA_v2.0_scaffold111G31534' => 'sas', 'SGA_v2.0_scaffold22G09864' => 'sas', 'SGA_v2.0_scaffold338G49219' => 'sas', 'SGA_v2.0_scaffold92G28298' => 'sas', 'SMO119G0064' => 'smo', 'SMO223G0038' => 'smo', 'SMO347G0584' => 'smo', 'SMO351G0010' => 'smo', 'SMO356G0404' => 'smo', 'Solyc01g103920.3' => 'sly', 'Solyc04g009710.2' => 'sly', 'Solyc05g055280.2' => 'sly', 'Solyc10g044520.3' => 'sly', 'Solyc10g075160.1' => 'sly', 'Solyc11g006910.3' => 'sly', 'Solyc11g068430.3' => 'sly', 'Sopen01g046310' => 'spe', 'Sopen03g001200' => 'spe', 'Sopen04g004830' => 'spe', 'Sopen05g033720' => 'spe', 'Sopen06g030740' => 'spe', 'Sopen10g013090' => 'spe', 'Sopen10g027630' => 'spe', 'Sopen10g027640' => 'spe', 'Sopen11g002820' => 'spe', 'Sopen11g027140' => 'spe', 'Sp1g09680' => 'spa', 'Sp2g03630' => 'spa', 'Sp4g10320' => 'spa', 'Sp6g33400' => 'spa', 'Sp7g13030' => 'spa', 'TAR365G0317' => 'tar', 'TAR376G0979' => 'tar', 'TAR623G1665' => 'tar', 'TAR633G2373' => 'tar', 'TAR636G1400' => 'tar', 'THA.LOC104800529' => 'tha', 'THA.LOC104808547' => 'tha', 'THA.LOC104809615' => 'tha', 'THA.LOC104815724' => 'tha', 'THA.LOC104818480' => 'tha', 'THA.LOC104819179' => 'tha', 'THA.LOC104822270' => 'tha', 'THA.LOC104826425' => 'tha', 'Thecc.02G089700' => 'tca', 'Thecc.04G232300' => 'tca', 'Thecc.09G283400' => 'tca', 'Thhalv10009020m.g' => 'esa', 'Thhalv10015506m.g' => 'esa', 'Thhalv10017364m.g' => 'esa', 'Thhalv10023742m.g' => 'esa', 'Thhalv10026483m.g' => 'esa', 'TPR.G17232' => 'tpr', 'TPR.G2133' => 'tpr', 'TPR.G2498' => 'tpr', 'TPR.G31942' => 'tpr', 'TPR.G37877' => 'tpr', 'TPR.G4571' => 'tpr', 'TWI14G1113' => 'twi', 'TWI15G0426' => 'twi', 'TWI31G1005' => 'twi', 'TWI38G0513' => 'twi', 'TWI38G1484' => 'twi', 'TWI73G1098' => 'twi', 'unitig_26.g10519' => 'ugi', 'unitig_736.g22395' => 'ugi', 'unitig_747.g21234' => 'ugi', 'unitig_747.g21942' => 'ugi', 'vmacro14351' => 'vma', 'VMungo0540G0082' => 'vmu', 'VMungo0540G0405' => 'vmu', 'VMungo0540G1486' => 'vmu', 'VMungo0540G1692' => 'vmu', 'VMungo0720G2473' => 'vmu', 'VMungo1127G1562' => 'vmu', 'VMungo1215G1918' => 'vmu', 'Zm00001eb052650' => 'zma', 'Zm00001eb063710' => 'zma', 'Zm00001eb083950' => 'zma', 'Zm00001eb174420' => 'zma', 'Zm00001eb260140' => 'zma', 'Zm00001eb260150' => 'zma', 'Zm00001eb260160' => 'zma', 'Zm00001eb348290' => 'zma', 'Zm00001eb366870' => 'zma', 'Zm00001eb421930' => 'zma' ) $gf_id = 'HOM05D001025' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001025' ) $data_identifier = 'HOM05D001025' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 19, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 2, 'amhyb' => (int) 4, 'aly' => (int) 4, 'aox' => (int) 4, 'arhy' => (int) 3, 'ath' => (int) 5, 'atr' => (int) 4, 'acertr' => (int) 3, 'cqu' => (int) 7, 'bca' => (int) 17, 'bol' => (int) 10, 'bra' => (int) 9, 'can' => (int) 10, 'cansat' => (int) 6, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 5, 'cbr' => (int) 5, 'ccan' => (int) 5, 'cde' => (int) 4, 'cfa' => (int) 3, 'ccl' => (int) 6, 'cil' => (int) 4, 'cla' => (int) 3, 'col' => (int) 3, 'cpa' => (int) 3, 'cre' => (int) 7, 'csa' => (int) 5, 'camsi' => (int) 9, 'dca' => (int) 4, 'din' => (int) 5, 'dzi' => (int) 7, 'eca' => (int) 6, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 12, 'fve' => (int) 4, 'gma' => (int) 12, 'ghi' => (int) 17, 'gra' => (int) 9, 'vvi' => (int) 2, 'han' => (int) 8, 'cav' => (int) 5, 'hma' => (int) 9, 'vpl' => (int) 4, 'sun' => (int) 2, 'lal' => (int) 9, 'lja' => (int) 5, 'lonja' => (int) 6, 'lsa' => (int) 3, 'mes' => (int) 8, 'mpo' => (int) 3, 'mbi' => (int) 4, 'mco' => (int) 3, 'mdo' => (int) 5, 'mtr' => (int) 7, 'cme' => (int) 6, 'egut' => (int) 7, 'ama' => (int) 3, 'nta' => (int) 12, 'nnu' => (int) 9, 'oeu' => (int) 4, 'osa' => (int) 7, 'pax' => (int) 9, 'pgr' => (int) 5, 'stu' => (int) 8, 'pvu' => (int) 6, 'ptr' => (int) 9, 'ppa' => (int) 9, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 7, 'pso' => (int) 10, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 3, 'sbr' => (int) 8, 'sbo' => (int) 5, 'sci' => (int) 5, 'sed' => (int) 4, 'sgi' => (int) 4, 'sas' => (int) 4, 'smo' => (int) 5, 'sly' => (int) 7, 'spe' => (int) 10, 'spa' => (int) 5, 'tar' => (int) 5, 'tha' => (int) 8, 'tca' => (int) 3, 'esa' => (int) 5, 'tpr' => (int) 6, 'twi' => (int) 6, 'ugi' => (int) 4, 'vma' => (int) 1, 'vmu' => (int) 7, 'zma' => (int) 10 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb421930' $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' => 'HOM05D001025', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '592', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p22650' => 'bna', 'A01p29720' => 'bna', 'A03p26560' => 'bna', 'A03p68820' => 'bna', 'A04p20980' => 'bna', 'A06p07730' => 'bna', 'A07p18260' => 'bna', 'A08p33710' => 'bna', 'A09p16970' => 'bna', 'A10p27490' => 'bna', 'Aa31LG1G17300' => 'aar', 'Aa31LG1G3910' => 'aar', 'Aa31LG2G9630' => 'aar', 'Aa31LG5G8360' => 'aar', 'Aa31LG9G2410' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4699' => 'aag', 'Actinidia23512' => 'ach', 'Actinidia37080' => 'ach', 'Ah.01g020380' => 'amhyb', 'Ah.08g215710' => 'amhyb', 'Ah.09g225110' => 'amhyb', 'Ah.10g036680' => 'amhyb', 'AL1G21940' => 'aly', 'AL2G15540' => 'aly', 'AL4G21520' => 'aly', 'AL7G40960' => 'aly', 'Aqoxy2G01191' => 'aox', 'Aqoxy2G03393' => 'aox', 'Aqoxy4G02775' => 'aox', 'Aqoxy6G00058' => 'aox', 'arahy.Tifrunner.gnm1.ann1.9X74H2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CW3FX9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R485W7' => 'arhy', 'AT1G10960' => 'ath', 'AT1G60950' => 'ath', 'AT2G27510' => 'ath', 'AT4G14890' => 'ath', 'AT5G10000' => 'ath', 'ATR0665G624' => 'atr', 'ATR0697G138' => 'atr', 'ATR0776G046' => 'atr', 'ATR1134G135' => 'atr', 'Atru.chr12.1025' => 'acertr', 'Atru.chr3.3241' => 'acertr', 'Atru.chr4.2460' => 'acertr', 'AUR62007427' => 'cqu', 'AUR62010960' => 'cqu', 'AUR62012201' => 'cqu', 'AUR62021470' => 'cqu', 'AUR62022834' => 'cqu', 'AUR62033635' => 'cqu', 'AUR62036186' => 'cqu', 'BcaB01g03077' => 'bca', 'BcaB02g10093' => 'bca', 'BcaB04g20295' => 'bca', 'BcaB06g28147' => 'bca', 'BcaB07g31253' => 'bca', 'BcaC01g04946' => 'bca', 'BcaC02g10614' => 'bca', 'BcaC02g10885' => 'bca', 'BcaC04g19356' => 'bca', 'BcaC04g22297' => 'bca', 'BcaC05g24977' => 'bca', 'BcaC06g31823' => 'bca', 'BcaC07g38633' => 'bca', 'BcaC09g49353' => 'bca', 'BcaC09g50168' => 'bca', 'BcaNung00322' => 'bca', 'BcaNung04769' => 'bca', 'BolC1t02753H' => 'bol', 'BolC1t03721H' => 'bol', 'BolC3t15525H' => 'bol', 'BolC4t23903H' => 'bol', 'BolC4t24231H' => 'bol', 'BolC4t27209H' => 'bol', 'BolC5t29671H' => 'bol', 'BolC8t49044H' => 'bol', 'BolC9t54999H' => 'bol', 'BolC9t59517H' => 'bol', 'BraA01t02178Z' => 'bra', 'BraA01t03099Z' => 'bra', 'BraA03t11867Z' => 'bra', 'BraA04t17667Z' => 'bra', 'BraA07t29542Z' => 'bra', 'BraA08t35287Z' => 'bra', 'BraA09t37334Z' => 'bra', 'BraA10t44801Z' => 'bra', 'BraSC39t46181Z' => 'bra', 'C01p28240' => 'bna', 'C01p37530' => 'bna', 'C03p31820' => 'bna', 'C04p24080' => 'bna', 'C04p25790' => 'bna', 'C04p56770' => 'bna', 'C05p09310' => 'bna', 'C09p21010' => 'bna', 'C09p67560' => 'bna', 'CAN.G1324.7' => 'can', 'CAN.G1358.10' => 'can', 'CAN.G1550.2' => 'can', 'CAN.G186.56' => 'can', 'CAN.G1965.1' => 'can', 'CAN.G645.15' => 'can', 'CAN.G798.26' => 'can', 'CAN.G798.27' => 'can', 'CAN.G798.29' => 'can', 'CAN.G919.31' => 'can', 'CANSAT11G0133' => 'cansat', 'CANSAT11G1171' => 'cansat', 'CANSAT11G2056' => 'cansat', 'CANSAT56G1202' => 'cansat', 'CANSAT56G1514' => 'cansat', 'CANSAT78G0455' => 'cansat', 'CARHR011190' => 'chi', 'CARHR051980' => 'chi', 'CARHR120170' => 'chi', 'CARHR203310' => 'chi', 'CARHR221490' => 'chi', 'Carub.0001s1054' => 'cru', 'Carub.0002s0431' => 'cru', 'Carub.0004s0818' => 'cru', 'Carub.0006s0846' => 'cru', 'Carub.0007s2722' => 'cru', 'Ca_00058_v3' => 'car', 'Ca_17831_v3' => 'car', 'Ca_19408_v3' => 'car', 'Ca_24397_v3' => 'car', 'Ca_25664_v3' => 'car', 'CBR_g21818' => 'cbr', 'CBR_g31195' => 'cbr', 'CBR_g32282' => 'cbr', 'CBR_g39599' => 'cbr', 'CBR_g49410' => 'cbr', 'Cc01_g09120' => 'ccan', 'Cc01_g09130' => 'ccan', 'Cc02_g09630' => 'ccan', 'Cc02_g22810' => 'ccan', 'Cc03_g03810' => 'ccan', 'CDE02G3718' => 'cde', 'CDE04G3183' => 'cde', 'CDE07G1046' => 'cde', 'CDE08G0480' => 'cde', 'Cfa005493' => 'cfa', 'Cfa010312' => 'cfa', 'Cfa015648' => 'cfa', 'Ciclev10002793m.g' => 'ccl', 'Ciclev10003356m.g' => 'ccl', 'Ciclev10006141m.g' => 'ccl', 'Ciclev10016676m.g' => 'ccl', 'Ciclev10017081m.g' => 'ccl', 'Ciclev10029499m.g' => 'ccl', 'CiPaw.01G166300' => 'cil', 'CiPaw.06G145600' => 'cil', 'CiPaw.13G040100' => 'cil', 'CiPaw.13G135800' => 'cil', 'ClCG01G012230' => 'cla', 'ClCG05G009510' => 'cla', 'ClCG08G008270' => 'cla', 'COL.COLO4_11763' => 'col', 'COL.COLO4_19876' => 'col', 'COL.COLO4_21481' => 'col', 'Cpa.g.sc118.34' => 'cpa', 'Cpa.g.sc32.13' => 'cpa', 'Cpa.g.sc58.103' => 'cpa', 'Cre03.g183850' => 'cre', 'Cre06.g306350' => 'cre', 'Cre07.g334800' => 'cre', 'Cre12.g487900' => 'cre', 'Cre14.g626700' => 'cre', 'Cre16.g658400' => 'cre', 'Cre17.g700950' => 'cre', 'CsaV3_1G014830' => 'csa', 'CsaV3_3G013320' => 'csa', 'CsaV3_3G019210' => 'csa', 'CsaV3_3G019220' => 'csa', 'CsaV3_6G004230' => 'csa', 'CSS0003773' => 'camsi', 'CSS0004563' => 'camsi', 'CSS0013949' => 'camsi', 'CSS0025971' => 'camsi', 'CSS0028570' => 'camsi', 'CSS0033127' => 'camsi', 'CSS0036051' => 'camsi', 'CSS0040087' => 'camsi', 'CSS0043179' => 'camsi', 'DCAR_006161' => 'dca', 'DCAR_010351' => 'dca', 'DCAR_012197' => 'dca', 'DCAR_024162' => 'dca', 'Dinv01030' => 'din', 'Dinv10924' => 'din', 'Dinv11835' => 'din', 'Dinv22841' => 'din', 'Dinv42553' => 'din', 'Duzib052G0560' => 'dzi', 'Duzib132G0389' => 'dzi', 'Duzib150G1181' => 'dzi', 'Duzib168G0623' => 'dzi', 'Duzib170G1036' => 'dzi', 'Duzib212G0200' => 'dzi', 'Duzib248G0194' => 'dzi', 'ECA232G2193' => 'eca', 'ECA233G0302' => 'eca', 'ECA234G2813' => 'eca', 'ECA234G4866' => 'eca', 'ECA240G3932' => 'eca', 'ECA248G0385' => 'eca', 'EL10Ac2g04781' => 'bvu', 'EL10Ac3g06445' => 'bvu', 'EL10Ac7g15825' => 'bvu', 'EL10Ac8g18550' => 'bvu', 'Eucgr.B03849' => 'egr', 'Eucgr.I02744' => 'egr', 'Eucgr.J00264' => 'egr', 'Eucgr.J00493' => 'egr', 'FAN04G2181' => 'fan', 'FAN07G2666' => 'fan', 'FAN11G0024' => 'fan', 'FAN12G1105' => 'fan', 'FAN13G0302' => 'fan', 'FAN15G2781' => 'fan', 'FAN16G1274' => 'fan', 'FAN17G2988' => 'fan', 'FAN18G2621' => 'fan', 'FAN21G0013' => 'fan', 'FAN22G1211' => 'fan', 'FAN25G3626' => 'fan', 'FvH4_2g09491' => 'fve', 'FvH4_3g24910' => 'fve', 'FvH4_4g15630' => 'fve', 'FvH4_5g28820' => 'fve', 'Glyma.01G238000' => 'gma', 'Glyma.05G168400' => 'gma', 'Glyma.08G126800' => 'gma', 'Glyma.08G188500' => 'gma', 'Glyma.10G278900' => 'gma', 'Glyma.11G005700' => 'gma', 'Glyma.11G183300' => 'gma', 'Glyma.12G089200' => 'gma', 'Glyma.12G169400' => 'gma', 'Glyma.12G169500' => 'gma', 'Glyma.12G169600' => 'gma', 'Glyma.20G110800' => 'gma', 'Gohir.A03G192900' => 'ghi', 'Gohir.A03G193000' => 'ghi', 'Gohir.A05G080700' => 'ghi', 'Gohir.A09G216000' => 'ghi', 'Gohir.A12G027700' => 'ghi', 'Gohir.A13G036200' => 'ghi', 'Gohir.A13G222600' => 'ghi', 'Gohir.D02G213900' => 'ghi', 'Gohir.D02G214000' => 'ghi', 'Gohir.D05G083700' => 'ghi', 'Gohir.D05G083800' => 'ghi', 'Gohir.D05G083850' => 'ghi', 'Gohir.D08G015400' => 'ghi', 'Gohir.D09G218400' => 'ghi', 'Gohir.D12G027100' => 'ghi', 'Gohir.D13G034500' => 'ghi', 'Gohir.D13G227400' => 'ghi', 'Gorai.005G241800' => 'gra', 'Gorai.005G241900' => 'gra', 'Gorai.006G239400' => 'gra', 'Gorai.008G027600' => 'gra', 'Gorai.009G085400' => 'gra', 'Gorai.009G085500' => 'gra', 'Gorai.013G039000' => 'gra', 'Gorai.013G194800' => 'gra', 'Gorai.013G257900' => 'gra', 'GSVIVG01000982001' => 'vvi', 'GSVIVG01017981001' => 'vvi', 'HanXRQChr01g0024061' => 'han', 'HanXRQChr09g0247831' => 'han', 'HanXRQChr10g0294611' => 'han', 'HanXRQChr10g0294621' => 'han', 'HanXRQChr11g0346821' => 'han', 'HanXRQChr13g0397461' => 'han', 'HanXRQChr16g0513651' => 'han', 'HanXRQChr16g0513701' => 'han', 'Haze_00897' => 'cav', 'Haze_01745' => 'cav', 'Haze_02486' => 'cav', 'Haze_02487' => 'cav', 'Haze_23374' => 'cav', 'Hma1.2p1_0578F.1_g182520' => 'hma', 'Hma1.2p1_0602F.1_g187350' => 'hma', 'Hma1.2p1_0602F.1_g187360' => 'hma', 'Hma1.2p1_0874F.1_g231320' => 'hma', 'Hma1.2p1_1197F.1_g266210' => 'hma', 'Hma1.2p1_1197F.1_g266220' => 'hma', 'Hma1.2p1_2167F.1_g315895' => 'hma', 'Hma1.2p1_2190F.1_g316640' => 'hma', 'Hma1.2p1_3645F.1_g337153' => 'hma', 'HPP92_004907' => 'vpl', 'HPP92_012134' => 'vpl', 'HPP92_025136' => 'vpl', 'HPP92_026087' => 'vpl', 'Hund06782' => 'sun', 'Hund06784' => 'sun', 'Lalb_Chr01g0004861' => 'lal', 'Lalb_Chr02g0140591' => 'lal', 'Lalb_Chr02g0140611' => 'lal', 'Lalb_Chr03g0028101' => 'lal', 'Lalb_Chr07g0185791' => 'lal', 'Lalb_Chr12g0204491' => 'lal', 'Lalb_Chr13g0295671' => 'lal', 'Lalb_Chr19g0136461' => 'lal', 'Lalb_Chr21g0309191' => 'lal', 'Lj1g0028158' => 'lja', 'Lj1P236T38' => 'lonja', 'Lj2C32G2' => 'lonja', 'Lj2P944T8' => 'lonja', 'Lj2P963T15' => 'lonja', 'Lj3g0011788' => 'lja', 'Lj4g0025027' => 'lja', 'Lj5P255T36' => 'lonja', 'Lj6g0018866' => 'lja', 'Lj6P608T31' => 'lonja', 'LjContig00408g0008879' => 'lja', 'Lsat_1_v5_gn_5_105820' => 'lsa', 'Lsat_1_v5_gn_6_38800' => 'lsa', 'Lsat_1_v5_gn_7_67141' => 'lsa', 'Manes.04G003400' => 'mes', 'Manes.07G020000' => 'mes', 'Manes.07G020100' => 'mes', 'Manes.07G020150' => 'mes', 'Manes.10G061500' => 'mes', 'Manes.10G123200' => 'mes', 'Manes.11G161900' => 'mes', 'Manes.15G029300' => 'mes', 'Mapoly0071s0018' => 'mpo', 'Mapoly0082s0023' => 'mpo', 'Mapoly3477s0001' => 'mpo', 'MBI05_g31233_MAGBIO' => 'mbi', 'MBI09_g05946_MAGBIO' => 'mbi', 'MBI09_g05947_MAGBIO' => 'mbi', 'MBI17_g08346_MAGBIO' => 'mbi', 'MCO04G038' => 'mco', 'MCO09G370' => 'mco', 'MCO13G605' => 'mco', 'MD00G1075500' => 'mdo', 'MD03G1144300' => 'mdo', 'MD08G1236800' => 'mdo', 'MD13G1193300' => 'mdo', 'MD15G1428700' => 'mdo', 'Medtr1g112030' => 'mtr', 'Medtr1g112050' => 'mtr', 'Medtr2g006290' => 'mtr', 'Medtr2g086510' => 'mtr', 'Medtr4g053120' => 'mtr', 'Medtr5g006320' => 'mtr', 'Medtr8g088720' => 'mtr', 'MELO3C004712.2' => 'cme', 'MELO3C006533.2' => 'cme', 'MELO3C019438.2' => 'cme', 'MELO3C019440.2' => 'cme', 'MELO3C019441.2' => 'cme', 'MELO3C019895.2' => 'cme', 'Migut.B00811' => 'egut', 'Migut.D02447' => 'egut', 'Migut.F00875' => 'egut', 'Migut.N00186' => 'egut', 'Migut.N01051' => 'egut', 'Migut.N02491' => 'egut', 'Migut.O00784' => 'egut', 'MSTRG.12367' => 'ama', 'MSTRG.18756' => 'ama', 'MSTRG.21042' => 'ama', 'Nitab4.5_0000559g0040' => 'nta', 'Nitab4.5_0000667g0190' => 'nta', 'Nitab4.5_0000755g0160' => 'nta', 'Nitab4.5_0001216g0080' => 'nta', 'Nitab4.5_0004069g0040' => 'nta', 'Nitab4.5_0004129g0010' => 'nta', 'Nitab4.5_0005744g0030' => 'nta', 'Nitab4.5_0006996g0030' => 'nta', 'Nitab4.5_0008971g0040' => 'nta', 'Nitab4.5_0009769g0020' => 'nta', 'Nitab4.5_0009833g0010' => 'nta', 'Nitab4.5_0013140g0020' => 'nta', 'Nn003s41376' => 'nnu', 'Nn1g01857' => 'nnu', 'Nn1g03611' => 'nnu', 'Nn1g06853' => 'nnu', 'Nn3g18360' => 'nnu', 'Nn4g26328' => 'nnu', 'Nn5g27531' => 'nnu', 'Nn6g34899' => 'nnu', 'Nn7g36299' => 'nnu', 'Oeu021485.1' => 'oeu', 'Oeu022433.1' => 'oeu', 'Oeu032111.1' => 'oeu', 'Oeu051608.1' => 'oeu', 'Os01g0860601' => 'osa', 'Os03g0659200' => 'osa', 'Os03g0835900' => 'osa', 'Os04g0412200' => 'osa', 'Os05g0443500' => 'osa', 'Os07g0251500' => 'osa', 'Os08g0104600' => 'osa', 'Peaxi162Scf00003g00047' => 'pax', 'Peaxi162Scf00003g00052' => 'pax', 'Peaxi162Scf00003g00394' => 'pax', 'Peaxi162Scf00091g00621' => 'pax', 'Peaxi162Scf00152g00146' => 'pax', 'Peaxi162Scf00173g00025' => 'pax', 'Peaxi162Scf00195g00102' => 'pax', 'Peaxi162Scf00402g00013' => 'pax', 'Peaxi162Scf00519g00618' => 'pax', 'PGR004G2838' => 'pgr', 'PGR044G2275' => 'pgr', 'PGR102G1377' => 'pgr', 'PGR119G1245' => 'pgr', 'PGR142G4449' => 'pgr', 'PGSC0003DMG400004532' => 'stu', 'PGSC0003DMG400011950' => 'stu', 'PGSC0003DMG400023391' => 'stu', 'PGSC0003DMG400023985' => 'stu', 'PGSC0003DMG400026360' => 'stu', 'PGSC0003DMG400035711' => 'stu', 'PGSC0003DMG400037286' => 'stu', 'PGSC0003DMG402005881' => 'stu', 'Phvul.002G045400' => 'pvu', 'Phvul.006G216600' => 'pvu', 'Phvul.006G216700' => 'pvu', 'Phvul.006G216800' => 'pvu', 'Phvul.007G022500' => 'pvu', 'Phvul.011G094400' => 'pvu', 'Potri.001G470700' => 'ptr', 'Potri.003G015200' => 'ptr', 'Potri.004G202500' => 'ptr', 'Potri.004G218400' => 'ptr', 'Potri.008G020100' => 'ptr', 'Potri.008G153200' => 'ptr', 'Potri.009G163800' => 'ptr', 'Potri.010G087300' => 'ptr', 'Potri.010G239100' => 'ptr', 'Pp3c10_16100' => 'ppa', 'Pp3c10_16880' => 'ppa', 'Pp3c16_6230' => 'ppa', 'Pp3c17_18910' => 'ppa', 'Pp3c3_22119' => 'ppa', 'Pp3c3_22140' => 'ppa', 'Pp3c4_8159' => 'ppa', 'Pp3c4_8171' => 'ppa', 'Pp3c4_8330' => 'ppa', 'PRCOL_00004098' => 'pco', 'Prupe.1G013900' => 'ppe', 'Prupe.1G226300' => 'ppe', 'Prupe.1G573600' => 'ppe', 'Prupe.6G130100' => 'ppe', 'Psat3g090040' => 'psa', 'Psat4g210440' => 'psa', 'Psat6g231040' => 'psa', 'Psat6g231080' => 'psa', 'Psat7g063000' => 'psa', 'Psat7g188000' => 'psa', 'Psat7g188040' => 'psa', 'PSO017G0206' => 'pso', 'PSO170G0501' => 'pso', 'PSO170G6422' => 'pso', 'PSO210G7739' => 'pso', 'PSO339G1808' => 'pso', 'PSO339G6135' => 'pso', 'PSO384G0010' => 'pso', 'PSO384G0964' => 'pso', 'PSO761G0050' => 'pso', 'PSO782G4085' => 'pso', 'QL01p012264' => 'qlo', 'QL02p099491' => 'qlo', 'QL03p033868' => 'qlo', 'QL04p046678' => 'qlo', 'QL06p002448' => 'qlo', 'RcHm_v2.0_Chr4g0416181' => 'rch', 'RcHm_v2.0_Chr5g0044701' => 'rch', 'RcHm_v2.0_Chr6g0265781' => 'rch', 'RcHm_v2.0_Chr7g0221031' => 'rch', 'Rhsim04G0202000' => 'rsi', 'Rhsim11G0127300' => 'rsi', 'Rhsim13G0111800' => 'rsi', 'Sabra01G0165600' => 'sbr', 'Sabra03G0008300' => 'sbr', 'Sabra04G0136900' => 'sbr', 'Sabra08G0013400' => 'sbr', 'Sabra08G0116800' => 'sbr', 'Sabra09G0128000' => 'sbr', 'Sabra10G0055500' => 'sbr', 'Sabra10G0073300' => 'sbr', 'SalBow3G0385' => 'sbo', 'SalBow3G1119' => 'sbo', 'SalBow3G2005' => 'sbo', 'SalBow6G2563' => 'sbo', 'SalBow6G6386' => 'sbo', 'Sc06g0008800' => 'sci', 'Sc07g0004950' => 'sci', 'Sc09g0005340' => 'sci', 'Sc13g0004410' => 'sci', 'Sc21g0007090' => 'sci', 'Sed0009285' => 'sed', 'Sed0017583' => 'sed', 'Sed0019699' => 'sed', 'Sed0023107' => 'sed', 'SEGI_10916' => 'sgi', 'SEGI_16217' => 'sgi', 'SEGI_19466' => 'sgi', 'SEGI_41115' => 'sgi', 'SGA_v2.0_scaffold111G31534' => 'sas', 'SGA_v2.0_scaffold22G09864' => 'sas', 'SGA_v2.0_scaffold338G49219' => 'sas', 'SGA_v2.0_scaffold92G28298' => 'sas', 'SMO119G0064' => 'smo', 'SMO223G0038' => 'smo', 'SMO347G0584' => 'smo', 'SMO351G0010' => 'smo', 'SMO356G0404' => 'smo', 'Solyc01g103920.3' => 'sly', 'Solyc04g009710.2' => 'sly', 'Solyc05g055280.2' => 'sly', 'Solyc10g044520.3' => 'sly', 'Solyc10g075160.1' => 'sly', 'Solyc11g006910.3' => 'sly', 'Solyc11g068430.3' => 'sly', 'Sopen01g046310' => 'spe', 'Sopen03g001200' => 'spe', 'Sopen04g004830' => 'spe', 'Sopen05g033720' => 'spe', 'Sopen06g030740' => 'spe', 'Sopen10g013090' => 'spe', 'Sopen10g027630' => 'spe', 'Sopen10g027640' => 'spe', 'Sopen11g002820' => 'spe', 'Sopen11g027140' => 'spe', 'Sp1g09680' => 'spa', 'Sp2g03630' => 'spa', 'Sp4g10320' => 'spa', 'Sp6g33400' => 'spa', 'Sp7g13030' => 'spa', 'TAR365G0317' => 'tar', 'TAR376G0979' => 'tar', 'TAR623G1665' => 'tar', 'TAR633G2373' => 'tar', 'TAR636G1400' => 'tar', 'THA.LOC104800529' => 'tha', 'THA.LOC104808547' => 'tha', 'THA.LOC104809615' => 'tha', 'THA.LOC104815724' => 'tha', 'THA.LOC104818480' => 'tha', 'THA.LOC104819179' => 'tha', 'THA.LOC104822270' => 'tha', 'THA.LOC104826425' => 'tha', 'Thecc.02G089700' => 'tca', 'Thecc.04G232300' => 'tca', 'Thecc.09G283400' => 'tca', 'Thhalv10009020m.g' => 'esa', 'Thhalv10015506m.g' => 'esa', 'Thhalv10017364m.g' => 'esa', 'Thhalv10023742m.g' => 'esa', 'Thhalv10026483m.g' => 'esa', 'TPR.G17232' => 'tpr', 'TPR.G2133' => 'tpr', 'TPR.G2498' => 'tpr', 'TPR.G31942' => 'tpr', 'TPR.G37877' => 'tpr', 'TPR.G4571' => 'tpr', 'TWI14G1113' => 'twi', 'TWI15G0426' => 'twi', 'TWI31G1005' => 'twi', 'TWI38G0513' => 'twi', 'TWI38G1484' => 'twi', 'TWI73G1098' => 'twi', 'unitig_26.g10519' => 'ugi', 'unitig_736.g22395' => 'ugi', 'unitig_747.g21234' => 'ugi', 'unitig_747.g21942' => 'ugi', 'vmacro14351' => 'vma', 'VMungo0540G0082' => 'vmu', 'VMungo0540G0405' => 'vmu', 'VMungo0540G1486' => 'vmu', 'VMungo0540G1692' => 'vmu', 'VMungo0720G2473' => 'vmu', 'VMungo1127G1562' => 'vmu', 'VMungo1215G1918' => 'vmu', 'Zm00001eb052650' => 'zma', 'Zm00001eb063710' => 'zma', 'Zm00001eb083950' => 'zma', 'Zm00001eb174420' => 'zma', 'Zm00001eb260140' => 'zma', 'Zm00001eb260150' => 'zma', 'Zm00001eb260160' => 'zma', 'Zm00001eb348290' => 'zma', 'Zm00001eb366870' => 'zma', 'Zm00001eb421930' => 'zma' ), 'gf_id' => 'HOM05D001025', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001025' ), 'data_identifier' => 'HOM05D001025', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001025', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '592', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p22650' => 'bna', 'A01p29720' => 'bna', 'A03p26560' => 'bna', 'A03p68820' => 'bna', 'A04p20980' => 'bna', 'A06p07730' => 'bna', 'A07p18260' => 'bna', 'A08p33710' => 'bna', 'A09p16970' => 'bna', 'A10p27490' => 'bna', 'Aa31LG1G17300' => 'aar', 'Aa31LG1G3910' => 'aar', 'Aa31LG2G9630' => 'aar', 'Aa31LG5G8360' => 'aar', 'Aa31LG9G2410' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4699' => 'aag', 'Actinidia23512' => 'ach', 'Actinidia37080' => 'ach', 'Ah.01g020380' => 'amhyb', 'Ah.08g215710' => 'amhyb', 'Ah.09g225110' => 'amhyb', 'Ah.10g036680' => 'amhyb', 'AL1G21940' => 'aly', 'AL2G15540' => 'aly', 'AL4G21520' => 'aly', 'AL7G40960' => 'aly', 'Aqoxy2G01191' => 'aox', 'Aqoxy2G03393' => 'aox', 'Aqoxy4G02775' => 'aox', 'Aqoxy6G00058' => 'aox', 'arahy.Tifrunner.gnm1.ann1.9X74H2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CW3FX9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R485W7' => 'arhy', 'AT1G10960' => 'ath', 'AT1G60950' => 'ath', 'AT2G27510' => 'ath', 'AT4G14890' => 'ath', 'AT5G10000' => 'ath', 'ATR0665G624' => 'atr', 'ATR0697G138' => 'atr', 'ATR0776G046' => 'atr', 'ATR1134G135' => 'atr', 'Atru.chr12.1025' => 'acertr', 'Atru.chr3.3241' => 'acertr', 'Atru.chr4.2460' => 'acertr', 'AUR62007427' => 'cqu', 'AUR62010960' => 'cqu', 'AUR62012201' => 'cqu', 'AUR62021470' => 'cqu', 'AUR62022834' => 'cqu', 'AUR62033635' => 'cqu', 'AUR62036186' => 'cqu', 'BcaB01g03077' => 'bca', 'BcaB02g10093' => 'bca', 'BcaB04g20295' => 'bca', 'BcaB06g28147' => 'bca', 'BcaB07g31253' => 'bca', 'BcaC01g04946' => 'bca', 'BcaC02g10614' => 'bca', 'BcaC02g10885' => 'bca', 'BcaC04g19356' => 'bca', 'BcaC04g22297' => 'bca', 'BcaC05g24977' => 'bca', 'BcaC06g31823' => 'bca', 'BcaC07g38633' => 'bca', 'BcaC09g49353' => 'bca', 'BcaC09g50168' => 'bca', 'BcaNung00322' => 'bca', 'BcaNung04769' => 'bca', 'BolC1t02753H' => 'bol', 'BolC1t03721H' => 'bol', 'BolC3t15525H' => 'bol', 'BolC4t23903H' => 'bol', 'BolC4t24231H' => 'bol', 'BolC4t27209H' => 'bol', 'BolC5t29671H' => 'bol', 'BolC8t49044H' => 'bol', 'BolC9t54999H' => 'bol', 'BolC9t59517H' => 'bol', 'BraA01t02178Z' => 'bra', 'BraA01t03099Z' => 'bra', 'BraA03t11867Z' => 'bra', 'BraA04t17667Z' => 'bra', 'BraA07t29542Z' => 'bra', 'BraA08t35287Z' => 'bra', 'BraA09t37334Z' => 'bra', 'BraA10t44801Z' => 'bra', 'BraSC39t46181Z' => 'bra', 'C01p28240' => 'bna', 'C01p37530' => 'bna', 'C03p31820' => 'bna', 'C04p24080' => 'bna', 'C04p25790' => 'bna', 'C04p56770' => 'bna', 'C05p09310' => 'bna', 'C09p21010' => 'bna', 'C09p67560' => 'bna', 'CAN.G1324.7' => 'can', 'CAN.G1358.10' => 'can', 'CAN.G1550.2' => 'can', 'CAN.G186.56' => 'can', 'CAN.G1965.1' => 'can', 'CAN.G645.15' => 'can', 'CAN.G798.26' => 'can', 'CAN.G798.27' => 'can', 'CAN.G798.29' => 'can', 'CAN.G919.31' => 'can', 'CANSAT11G0133' => 'cansat', 'CANSAT11G1171' => 'cansat', 'CANSAT11G2056' => 'cansat', 'CANSAT56G1202' => 'cansat', 'CANSAT56G1514' => 'cansat', 'CANSAT78G0455' => 'cansat', 'CARHR011190' => 'chi', 'CARHR051980' => 'chi', 'CARHR120170' => 'chi', 'CARHR203310' => 'chi', 'CARHR221490' => 'chi', 'Carub.0001s1054' => 'cru', 'Carub.0002s0431' => 'cru', 'Carub.0004s0818' => 'cru', 'Carub.0006s0846' => 'cru', 'Carub.0007s2722' => 'cru', 'Ca_00058_v3' => 'car', 'Ca_17831_v3' => 'car', 'Ca_19408_v3' => 'car', 'Ca_24397_v3' => 'car', 'Ca_25664_v3' => 'car', 'CBR_g21818' => 'cbr', 'CBR_g31195' => 'cbr', 'CBR_g32282' => 'cbr', 'CBR_g39599' => 'cbr', 'CBR_g49410' => 'cbr', 'Cc01_g09120' => 'ccan', 'Cc01_g09130' => 'ccan', 'Cc02_g09630' => 'ccan', 'Cc02_g22810' => 'ccan', 'Cc03_g03810' => 'ccan', 'CDE02G3718' => 'cde', 'CDE04G3183' => 'cde', 'CDE07G1046' => 'cde', 'CDE08G0480' => 'cde', 'Cfa005493' => 'cfa', 'Cfa010312' => 'cfa', 'Cfa015648' => 'cfa', 'Ciclev10002793m.g' => 'ccl', 'Ciclev10003356m.g' => 'ccl', 'Ciclev10006141m.g' => 'ccl', 'Ciclev10016676m.g' => 'ccl', 'Ciclev10017081m.g' => 'ccl', 'Ciclev10029499m.g' => 'ccl', 'CiPaw.01G166300' => 'cil', 'CiPaw.06G145600' => 'cil', 'CiPaw.13G040100' => 'cil', 'CiPaw.13G135800' => 'cil', 'ClCG01G012230' => 'cla', 'ClCG05G009510' => 'cla', 'ClCG08G008270' => 'cla', 'COL.COLO4_11763' => 'col', 'COL.COLO4_19876' => 'col', 'COL.COLO4_21481' => 'col', 'Cpa.g.sc118.34' => 'cpa', 'Cpa.g.sc32.13' => 'cpa', 'Cpa.g.sc58.103' => 'cpa', 'Cre03.g183850' => 'cre', 'Cre06.g306350' => 'cre', 'Cre07.g334800' => 'cre', 'Cre12.g487900' => 'cre', 'Cre14.g626700' => 'cre', 'Cre16.g658400' => 'cre', 'Cre17.g700950' => 'cre', 'CsaV3_1G014830' => 'csa', 'CsaV3_3G013320' => 'csa', 'CsaV3_3G019210' => 'csa', 'CsaV3_3G019220' => 'csa', 'CsaV3_6G004230' => 'csa', 'CSS0003773' => 'camsi', 'CSS0004563' => 'camsi', 'CSS0013949' => 'camsi', 'CSS0025971' => 'camsi', 'CSS0028570' => 'camsi', 'CSS0033127' => 'camsi', 'CSS0036051' => 'camsi', 'CSS0040087' => 'camsi', 'CSS0043179' => 'camsi', 'DCAR_006161' => 'dca', 'DCAR_010351' => 'dca', 'DCAR_012197' => 'dca', 'DCAR_024162' => 'dca', 'Dinv01030' => 'din', 'Dinv10924' => 'din', 'Dinv11835' => 'din', 'Dinv22841' => 'din', 'Dinv42553' => 'din', 'Duzib052G0560' => 'dzi', 'Duzib132G0389' => 'dzi', 'Duzib150G1181' => 'dzi', 'Duzib168G0623' => 'dzi', 'Duzib170G1036' => 'dzi', 'Duzib212G0200' => 'dzi', 'Duzib248G0194' => 'dzi', 'ECA232G2193' => 'eca', 'ECA233G0302' => 'eca', 'ECA234G2813' => 'eca', 'ECA234G4866' => 'eca', 'ECA240G3932' => 'eca', 'ECA248G0385' => 'eca', 'EL10Ac2g04781' => 'bvu', 'EL10Ac3g06445' => 'bvu', 'EL10Ac7g15825' => 'bvu', 'EL10Ac8g18550' => 'bvu', 'Eucgr.B03849' => 'egr', 'Eucgr.I02744' => 'egr', 'Eucgr.J00264' => 'egr', 'Eucgr.J00493' => 'egr', 'FAN04G2181' => 'fan', 'FAN07G2666' => 'fan', 'FAN11G0024' => 'fan', 'FAN12G1105' => 'fan', 'FAN13G0302' => 'fan', 'FAN15G2781' => 'fan', 'FAN16G1274' => 'fan', 'FAN17G2988' => 'fan', 'FAN18G2621' => 'fan', 'FAN21G0013' => 'fan', 'FAN22G1211' => 'fan', 'FAN25G3626' => 'fan', 'FvH4_2g09491' => 'fve', 'FvH4_3g24910' => 'fve', 'FvH4_4g15630' => 'fve', 'FvH4_5g28820' => 'fve', 'Glyma.01G238000' => 'gma', 'Glyma.05G168400' => 'gma', 'Glyma.08G126800' => 'gma', 'Glyma.08G188500' => 'gma', 'Glyma.10G278900' => 'gma', 'Glyma.11G005700' => 'gma', 'Glyma.11G183300' => 'gma', 'Glyma.12G089200' => 'gma', 'Glyma.12G169400' => 'gma', 'Glyma.12G169500' => 'gma', 'Glyma.12G169600' => 'gma', 'Glyma.20G110800' => 'gma', 'Gohir.A03G192900' => 'ghi', 'Gohir.A03G193000' => 'ghi', 'Gohir.A05G080700' => 'ghi', 'Gohir.A09G216000' => 'ghi', 'Gohir.A12G027700' => 'ghi', 'Gohir.A13G036200' => 'ghi', 'Gohir.A13G222600' => 'ghi', 'Gohir.D02G213900' => 'ghi', 'Gohir.D02G214000' => 'ghi', 'Gohir.D05G083700' => 'ghi', 'Gohir.D05G083800' => 'ghi', 'Gohir.D05G083850' => 'ghi', 'Gohir.D08G015400' => 'ghi', 'Gohir.D09G218400' => 'ghi', 'Gohir.D12G027100' => 'ghi', 'Gohir.D13G034500' => 'ghi', 'Gohir.D13G227400' => 'ghi', 'Gorai.005G241800' => 'gra', 'Gorai.005G241900' => 'gra', 'Gorai.006G239400' => 'gra', 'Gorai.008G027600' => 'gra', 'Gorai.009G085400' => 'gra', 'Gorai.009G085500' => 'gra', 'Gorai.013G039000' => 'gra', 'Gorai.013G194800' => 'gra', 'Gorai.013G257900' => 'gra', 'GSVIVG01000982001' => 'vvi', 'GSVIVG01017981001' => 'vvi', 'HanXRQChr01g0024061' => 'han', 'HanXRQChr09g0247831' => 'han', 'HanXRQChr10g0294611' => 'han', 'HanXRQChr10g0294621' => 'han', 'HanXRQChr11g0346821' => 'han', 'HanXRQChr13g0397461' => 'han', 'HanXRQChr16g0513651' => 'han', 'HanXRQChr16g0513701' => 'han', 'Haze_00897' => 'cav', 'Haze_01745' => 'cav', 'Haze_02486' => 'cav', 'Haze_02487' => 'cav', 'Haze_23374' => 'cav', 'Hma1.2p1_0578F.1_g182520' => 'hma', 'Hma1.2p1_0602F.1_g187350' => 'hma', 'Hma1.2p1_0602F.1_g187360' => 'hma', 'Hma1.2p1_0874F.1_g231320' => 'hma', 'Hma1.2p1_1197F.1_g266210' => 'hma', 'Hma1.2p1_1197F.1_g266220' => 'hma', 'Hma1.2p1_2167F.1_g315895' => 'hma', 'Hma1.2p1_2190F.1_g316640' => 'hma', 'Hma1.2p1_3645F.1_g337153' => 'hma', 'HPP92_004907' => 'vpl', 'HPP92_012134' => 'vpl', 'HPP92_025136' => 'vpl', 'HPP92_026087' => 'vpl', 'Hund06782' => 'sun', 'Hund06784' => 'sun', 'Lalb_Chr01g0004861' => 'lal', 'Lalb_Chr02g0140591' => 'lal', 'Lalb_Chr02g0140611' => 'lal', 'Lalb_Chr03g0028101' => 'lal', 'Lalb_Chr07g0185791' => 'lal', 'Lalb_Chr12g0204491' => 'lal', 'Lalb_Chr13g0295671' => 'lal', 'Lalb_Chr19g0136461' => 'lal', 'Lalb_Chr21g0309191' => 'lal', 'Lj1g0028158' => 'lja', 'Lj1P236T38' => 'lonja', 'Lj2C32G2' => 'lonja', 'Lj2P944T8' => 'lonja', 'Lj2P963T15' => 'lonja', 'Lj3g0011788' => 'lja', 'Lj4g0025027' => 'lja', 'Lj5P255T36' => 'lonja', 'Lj6g0018866' => 'lja', 'Lj6P608T31' => 'lonja', 'LjContig00408g0008879' => 'lja', 'Lsat_1_v5_gn_5_105820' => 'lsa', 'Lsat_1_v5_gn_6_38800' => 'lsa', 'Lsat_1_v5_gn_7_67141' => 'lsa', 'Manes.04G003400' => 'mes', 'Manes.07G020000' => 'mes', 'Manes.07G020100' => 'mes', 'Manes.07G020150' => 'mes', 'Manes.10G061500' => 'mes', 'Manes.10G123200' => 'mes', 'Manes.11G161900' => 'mes', 'Manes.15G029300' => 'mes', 'Mapoly0071s0018' => 'mpo', 'Mapoly0082s0023' => 'mpo', 'Mapoly3477s0001' => 'mpo', 'MBI05_g31233_MAGBIO' => 'mbi', 'MBI09_g05946_MAGBIO' => 'mbi', 'MBI09_g05947_MAGBIO' => 'mbi', 'MBI17_g08346_MAGBIO' => 'mbi', 'MCO04G038' => 'mco', 'MCO09G370' => 'mco', 'MCO13G605' => 'mco', 'MD00G1075500' => 'mdo', 'MD03G1144300' => 'mdo', 'MD08G1236800' => 'mdo', 'MD13G1193300' => 'mdo', 'MD15G1428700' => 'mdo', 'Medtr1g112030' => 'mtr', 'Medtr1g112050' => 'mtr', 'Medtr2g006290' => 'mtr', 'Medtr2g086510' => 'mtr', 'Medtr4g053120' => 'mtr', 'Medtr5g006320' => 'mtr', 'Medtr8g088720' => 'mtr', 'MELO3C004712.2' => 'cme', 'MELO3C006533.2' => 'cme', 'MELO3C019438.2' => 'cme', 'MELO3C019440.2' => 'cme', 'MELO3C019441.2' => 'cme', 'MELO3C019895.2' => 'cme', 'Migut.B00811' => 'egut', 'Migut.D02447' => 'egut', 'Migut.F00875' => 'egut', 'Migut.N00186' => 'egut', 'Migut.N01051' => 'egut', 'Migut.N02491' => 'egut', 'Migut.O00784' => 'egut', 'MSTRG.12367' => 'ama', 'MSTRG.18756' => 'ama', 'MSTRG.21042' => 'ama', 'Nitab4.5_0000559g0040' => 'nta', 'Nitab4.5_0000667g0190' => 'nta', 'Nitab4.5_0000755g0160' => 'nta', 'Nitab4.5_0001216g0080' => 'nta', 'Nitab4.5_0004069g0040' => 'nta', 'Nitab4.5_0004129g0010' => 'nta', 'Nitab4.5_0005744g0030' => 'nta', 'Nitab4.5_0006996g0030' => 'nta', 'Nitab4.5_0008971g0040' => 'nta', 'Nitab4.5_0009769g0020' => 'nta', 'Nitab4.5_0009833g0010' => 'nta', 'Nitab4.5_0013140g0020' => 'nta', 'Nn003s41376' => 'nnu', 'Nn1g01857' => 'nnu', 'Nn1g03611' => 'nnu', 'Nn1g06853' => 'nnu', 'Nn3g18360' => 'nnu', 'Nn4g26328' => 'nnu', 'Nn5g27531' => 'nnu', 'Nn6g34899' => 'nnu', 'Nn7g36299' => 'nnu', 'Oeu021485.1' => 'oeu', 'Oeu022433.1' => 'oeu', 'Oeu032111.1' => 'oeu', 'Oeu051608.1' => 'oeu', 'Os01g0860601' => 'osa', 'Os03g0659200' => 'osa', 'Os03g0835900' => 'osa', 'Os04g0412200' => 'osa', 'Os05g0443500' => 'osa', 'Os07g0251500' => 'osa', 'Os08g0104600' => 'osa', 'Peaxi162Scf00003g00047' => 'pax', 'Peaxi162Scf00003g00052' => 'pax', 'Peaxi162Scf00003g00394' => 'pax', 'Peaxi162Scf00091g00621' => 'pax', 'Peaxi162Scf00152g00146' => 'pax', 'Peaxi162Scf00173g00025' => 'pax', 'Peaxi162Scf00195g00102' => 'pax', 'Peaxi162Scf00402g00013' => 'pax', 'Peaxi162Scf00519g00618' => 'pax', 'PGR004G2838' => 'pgr', 'PGR044G2275' => 'pgr', 'PGR102G1377' => 'pgr', 'PGR119G1245' => 'pgr', 'PGR142G4449' => 'pgr', 'PGSC0003DMG400004532' => 'stu', 'PGSC0003DMG400011950' => 'stu', 'PGSC0003DMG400023391' => 'stu', 'PGSC0003DMG400023985' => 'stu', 'PGSC0003DMG400026360' => 'stu', 'PGSC0003DMG400035711' => 'stu', 'PGSC0003DMG400037286' => 'stu', 'PGSC0003DMG402005881' => 'stu', 'Phvul.002G045400' => 'pvu', 'Phvul.006G216600' => 'pvu', 'Phvul.006G216700' => 'pvu', 'Phvul.006G216800' => 'pvu', 'Phvul.007G022500' => 'pvu', 'Phvul.011G094400' => 'pvu', 'Potri.001G470700' => 'ptr', 'Potri.003G015200' => 'ptr', 'Potri.004G202500' => 'ptr', 'Potri.004G218400' => 'ptr', 'Potri.008G020100' => 'ptr', 'Potri.008G153200' => 'ptr', 'Potri.009G163800' => 'ptr', 'Potri.010G087300' => 'ptr', 'Potri.010G239100' => 'ptr', 'Pp3c10_16100' => 'ppa', 'Pp3c10_16880' => 'ppa', 'Pp3c16_6230' => 'ppa', 'Pp3c17_18910' => 'ppa', 'Pp3c3_22119' => 'ppa', 'Pp3c3_22140' => 'ppa', 'Pp3c4_8159' => 'ppa', 'Pp3c4_8171' => 'ppa', 'Pp3c4_8330' => 'ppa', 'PRCOL_00004098' => 'pco', 'Prupe.1G013900' => 'ppe', 'Prupe.1G226300' => 'ppe', 'Prupe.1G573600' => 'ppe', 'Prupe.6G130100' => 'ppe', 'Psat3g090040' => 'psa', 'Psat4g210440' => 'psa', 'Psat6g231040' => 'psa', 'Psat6g231080' => 'psa', 'Psat7g063000' => 'psa', 'Psat7g188000' => 'psa', 'Psat7g188040' => 'psa', 'PSO017G0206' => 'pso', 'PSO170G0501' => 'pso', 'PSO170G6422' => 'pso', 'PSO210G7739' => 'pso', 'PSO339G1808' => 'pso', 'PSO339G6135' => 'pso', 'PSO384G0010' => 'pso', 'PSO384G0964' => 'pso', 'PSO761G0050' => 'pso', 'PSO782G4085' => 'pso', 'QL01p012264' => 'qlo', 'QL02p099491' => 'qlo', 'QL03p033868' => 'qlo', 'QL04p046678' => 'qlo', 'QL06p002448' => 'qlo', 'RcHm_v2.0_Chr4g0416181' => 'rch', 'RcHm_v2.0_Chr5g0044701' => 'rch', 'RcHm_v2.0_Chr6g0265781' => 'rch', 'RcHm_v2.0_Chr7g0221031' => 'rch', 'Rhsim04G0202000' => 'rsi', 'Rhsim11G0127300' => 'rsi', 'Rhsim13G0111800' => 'rsi', 'Sabra01G0165600' => 'sbr', 'Sabra03G0008300' => 'sbr', 'Sabra04G0136900' => 'sbr', 'Sabra08G0013400' => 'sbr', 'Sabra08G0116800' => 'sbr', 'Sabra09G0128000' => 'sbr', 'Sabra10G0055500' => 'sbr', 'Sabra10G0073300' => 'sbr', 'SalBow3G0385' => 'sbo', 'SalBow3G1119' => 'sbo', 'SalBow3G2005' => 'sbo', 'SalBow6G2563' => 'sbo', 'SalBow6G6386' => 'sbo', 'Sc06g0008800' => 'sci', 'Sc07g0004950' => 'sci', 'Sc09g0005340' => 'sci', 'Sc13g0004410' => 'sci', 'Sc21g0007090' => 'sci', 'Sed0009285' => 'sed', 'Sed0017583' => 'sed', 'Sed0019699' => 'sed', 'Sed0023107' => 'sed', 'SEGI_10916' => 'sgi', 'SEGI_16217' => 'sgi', 'SEGI_19466' => 'sgi', 'SEGI_41115' => 'sgi', 'SGA_v2.0_scaffold111G31534' => 'sas', 'SGA_v2.0_scaffold22G09864' => 'sas', 'SGA_v2.0_scaffold338G49219' => 'sas', 'SGA_v2.0_scaffold92G28298' => 'sas', 'SMO119G0064' => 'smo', 'SMO223G0038' => 'smo', 'SMO347G0584' => 'smo', 'SMO351G0010' => 'smo', 'SMO356G0404' => 'smo', 'Solyc01g103920.3' => 'sly', 'Solyc04g009710.2' => 'sly', 'Solyc05g055280.2' => 'sly', 'Solyc10g044520.3' => 'sly', 'Solyc10g075160.1' => 'sly', 'Solyc11g006910.3' => 'sly', 'Solyc11g068430.3' => 'sly', 'Sopen01g046310' => 'spe', 'Sopen03g001200' => 'spe', 'Sopen04g004830' => 'spe', 'Sopen05g033720' => 'spe', 'Sopen06g030740' => 'spe', 'Sopen10g013090' => 'spe', 'Sopen10g027630' => 'spe', 'Sopen10g027640' => 'spe', 'Sopen11g002820' => 'spe', 'Sopen11g027140' => 'spe', 'Sp1g09680' => 'spa', 'Sp2g03630' => 'spa', 'Sp4g10320' => 'spa', 'Sp6g33400' => 'spa', 'Sp7g13030' => 'spa', 'TAR365G0317' => 'tar', 'TAR376G0979' => 'tar', 'TAR623G1665' => 'tar', 'TAR633G2373' => 'tar', 'TAR636G1400' => 'tar', 'THA.LOC104800529' => 'tha', 'THA.LOC104808547' => 'tha', 'THA.LOC104809615' => 'tha', 'THA.LOC104815724' => 'tha', 'THA.LOC104818480' => 'tha', 'THA.LOC104819179' => 'tha', 'THA.LOC104822270' => 'tha', 'THA.LOC104826425' => 'tha', 'Thecc.02G089700' => 'tca', 'Thecc.04G232300' => 'tca', 'Thecc.09G283400' => 'tca', 'Thhalv10009020m.g' => 'esa', 'Thhalv10015506m.g' => 'esa', 'Thhalv10017364m.g' => 'esa', 'Thhalv10023742m.g' => 'esa', 'Thhalv10026483m.g' => 'esa', 'TPR.G17232' => 'tpr', 'TPR.G2133' => 'tpr', 'TPR.G2498' => 'tpr', 'TPR.G31942' => 'tpr', 'TPR.G37877' => 'tpr', 'TPR.G4571' => 'tpr', 'TWI14G1113' => 'twi', 'TWI15G0426' => 'twi', 'TWI31G1005' => 'twi', 'TWI38G0513' => 'twi', 'TWI38G1484' => 'twi', 'TWI73G1098' => 'twi', 'unitig_26.g10519' => 'ugi', 'unitig_736.g22395' => 'ugi', 'unitig_747.g21234' => 'ugi', 'unitig_747.g21942' => 'ugi', 'vmacro14351' => 'vma', 'VMungo0540G0082' => 'vmu', 'VMungo0540G0405' => 'vmu', 'VMungo0540G1486' => 'vmu', 'VMungo0540G1692' => 'vmu', 'VMungo0720G2473' => 'vmu', 'VMungo1127G1562' => 'vmu', 'VMungo1215G1918' => 'vmu', 'Zm00001eb052650' => 'zma', 'Zm00001eb063710' => 'zma', 'Zm00001eb083950' => 'zma', 'Zm00001eb174420' => 'zma', 'Zm00001eb260140' => 'zma', 'Zm00001eb260150' => 'zma', 'Zm00001eb260160' => 'zma', 'Zm00001eb348290' => 'zma', 'Zm00001eb366870' => 'zma', 'Zm00001eb421930' => 'zma' ) $gf_id = 'HOM05D001025' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001025' ) $data_identifier = 'HOM05D001025' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 19, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 2, 'amhyb' => (int) 4, 'aly' => (int) 4, 'aox' => (int) 4, 'arhy' => (int) 3, 'ath' => (int) 5, 'atr' => (int) 4, 'acertr' => (int) 3, 'cqu' => (int) 7, 'bca' => (int) 17, 'bol' => (int) 10, 'bra' => (int) 9, 'can' => (int) 10, 'cansat' => (int) 6, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 5, 'cbr' => (int) 5, 'ccan' => (int) 5, 'cde' => (int) 4, 'cfa' => (int) 3, 'ccl' => (int) 6, 'cil' => (int) 4, 'cla' => (int) 3, 'col' => (int) 3, 'cpa' => (int) 3, 'cre' => (int) 7, 'csa' => (int) 5, 'camsi' => (int) 9, 'dca' => (int) 4, 'din' => (int) 5, 'dzi' => (int) 7, 'eca' => (int) 6, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 12, 'fve' => (int) 4, 'gma' => (int) 12, 'ghi' => (int) 17, 'gra' => (int) 9, 'vvi' => (int) 2, 'han' => (int) 8, 'cav' => (int) 5, 'hma' => (int) 9, 'vpl' => (int) 4, 'sun' => (int) 2, 'lal' => (int) 9, 'lja' => (int) 5, 'lonja' => (int) 6, 'lsa' => (int) 3, 'mes' => (int) 8, 'mpo' => (int) 3, 'mbi' => (int) 4, 'mco' => (int) 3, 'mdo' => (int) 5, 'mtr' => (int) 7, 'cme' => (int) 6, 'egut' => (int) 7, 'ama' => (int) 3, 'nta' => (int) 12, 'nnu' => (int) 9, 'oeu' => (int) 4, 'osa' => (int) 7, 'pax' => (int) 9, 'pgr' => (int) 5, 'stu' => (int) 8, 'pvu' => (int) 6, 'ptr' => (int) 9, 'ppa' => (int) 9, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 7, 'pso' => (int) 10, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 3, 'sbr' => (int) 8, 'sbo' => (int) 5, 'sci' => (int) 5, 'sed' => (int) 4, 'sgi' => (int) 4, 'sas' => (int) 4, 'smo' => (int) 5, 'sly' => (int) 7, 'spe' => (int) 10, 'spa' => (int) 5, 'tar' => (int) 5, 'tha' => (int) 8, 'tca' => (int) 3, 'esa' => (int) 5, 'tpr' => (int) 6, 'twi' => (int) 6, 'ugi' => (int) 4, 'vma' => (int) 1, 'vmu' => (int) 7, 'zma' => (int) 10 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb421930' $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' => 'HOM05D001025', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '592', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p22650' => 'bna', 'A01p29720' => 'bna', 'A03p26560' => 'bna', 'A03p68820' => 'bna', 'A04p20980' => 'bna', 'A06p07730' => 'bna', 'A07p18260' => 'bna', 'A08p33710' => 'bna', 'A09p16970' => 'bna', 'A10p27490' => 'bna', 'Aa31LG1G17300' => 'aar', 'Aa31LG1G3910' => 'aar', 'Aa31LG2G9630' => 'aar', 'Aa31LG5G8360' => 'aar', 'Aa31LG9G2410' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4699' => 'aag', 'Actinidia23512' => 'ach', 'Actinidia37080' => 'ach', 'Ah.01g020380' => 'amhyb', 'Ah.08g215710' => 'amhyb', 'Ah.09g225110' => 'amhyb', 'Ah.10g036680' => 'amhyb', 'AL1G21940' => 'aly', 'AL2G15540' => 'aly', 'AL4G21520' => 'aly', 'AL7G40960' => 'aly', 'Aqoxy2G01191' => 'aox', 'Aqoxy2G03393' => 'aox', 'Aqoxy4G02775' => 'aox', 'Aqoxy6G00058' => 'aox', 'arahy.Tifrunner.gnm1.ann1.9X74H2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CW3FX9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R485W7' => 'arhy', 'AT1G10960' => 'ath', 'AT1G60950' => 'ath', 'AT2G27510' => 'ath', 'AT4G14890' => 'ath', 'AT5G10000' => 'ath', 'ATR0665G624' => 'atr', 'ATR0697G138' => 'atr', 'ATR0776G046' => 'atr', 'ATR1134G135' => 'atr', 'Atru.chr12.1025' => 'acertr', 'Atru.chr3.3241' => 'acertr', 'Atru.chr4.2460' => 'acertr', 'AUR62007427' => 'cqu', 'AUR62010960' => 'cqu', 'AUR62012201' => 'cqu', 'AUR62021470' => 'cqu', 'AUR62022834' => 'cqu', 'AUR62033635' => 'cqu', 'AUR62036186' => 'cqu', 'BcaB01g03077' => 'bca', 'BcaB02g10093' => 'bca', 'BcaB04g20295' => 'bca', 'BcaB06g28147' => 'bca', 'BcaB07g31253' => 'bca', 'BcaC01g04946' => 'bca', 'BcaC02g10614' => 'bca', 'BcaC02g10885' => 'bca', 'BcaC04g19356' => 'bca', 'BcaC04g22297' => 'bca', 'BcaC05g24977' => 'bca', 'BcaC06g31823' => 'bca', 'BcaC07g38633' => 'bca', 'BcaC09g49353' => 'bca', 'BcaC09g50168' => 'bca', 'BcaNung00322' => 'bca', 'BcaNung04769' => 'bca', 'BolC1t02753H' => 'bol', 'BolC1t03721H' => 'bol', 'BolC3t15525H' => 'bol', 'BolC4t23903H' => 'bol', 'BolC4t24231H' => 'bol', 'BolC4t27209H' => 'bol', 'BolC5t29671H' => 'bol', 'BolC8t49044H' => 'bol', 'BolC9t54999H' => 'bol', 'BolC9t59517H' => 'bol', 'BraA01t02178Z' => 'bra', 'BraA01t03099Z' => 'bra', 'BraA03t11867Z' => 'bra', 'BraA04t17667Z' => 'bra', 'BraA07t29542Z' => 'bra', 'BraA08t35287Z' => 'bra', 'BraA09t37334Z' => 'bra', 'BraA10t44801Z' => 'bra', 'BraSC39t46181Z' => 'bra', 'C01p28240' => 'bna', 'C01p37530' => 'bna', 'C03p31820' => 'bna', 'C04p24080' => 'bna', 'C04p25790' => 'bna', 'C04p56770' => 'bna', 'C05p09310' => 'bna', 'C09p21010' => 'bna', 'C09p67560' => 'bna', 'CAN.G1324.7' => 'can', 'CAN.G1358.10' => 'can', 'CAN.G1550.2' => 'can', 'CAN.G186.56' => 'can', 'CAN.G1965.1' => 'can', 'CAN.G645.15' => 'can', 'CAN.G798.26' => 'can', 'CAN.G798.27' => 'can', 'CAN.G798.29' => 'can', 'CAN.G919.31' => 'can', 'CANSAT11G0133' => 'cansat', 'CANSAT11G1171' => 'cansat', 'CANSAT11G2056' => 'cansat', 'CANSAT56G1202' => 'cansat', 'CANSAT56G1514' => 'cansat', 'CANSAT78G0455' => 'cansat', 'CARHR011190' => 'chi', 'CARHR051980' => 'chi', 'CARHR120170' => 'chi', 'CARHR203310' => 'chi', 'CARHR221490' => 'chi', 'Carub.0001s1054' => 'cru', 'Carub.0002s0431' => 'cru', 'Carub.0004s0818' => 'cru', 'Carub.0006s0846' => 'cru', 'Carub.0007s2722' => 'cru', 'Ca_00058_v3' => 'car', 'Ca_17831_v3' => 'car', 'Ca_19408_v3' => 'car', 'Ca_24397_v3' => 'car', 'Ca_25664_v3' => 'car', 'CBR_g21818' => 'cbr', 'CBR_g31195' => 'cbr', 'CBR_g32282' => 'cbr', 'CBR_g39599' => 'cbr', 'CBR_g49410' => 'cbr', 'Cc01_g09120' => 'ccan', 'Cc01_g09130' => 'ccan', 'Cc02_g09630' => 'ccan', 'Cc02_g22810' => 'ccan', 'Cc03_g03810' => 'ccan', 'CDE02G3718' => 'cde', 'CDE04G3183' => 'cde', 'CDE07G1046' => 'cde', 'CDE08G0480' => 'cde', 'Cfa005493' => 'cfa', 'Cfa010312' => 'cfa', 'Cfa015648' => 'cfa', 'Ciclev10002793m.g' => 'ccl', 'Ciclev10003356m.g' => 'ccl', 'Ciclev10006141m.g' => 'ccl', 'Ciclev10016676m.g' => 'ccl', 'Ciclev10017081m.g' => 'ccl', 'Ciclev10029499m.g' => 'ccl', 'CiPaw.01G166300' => 'cil', 'CiPaw.06G145600' => 'cil', 'CiPaw.13G040100' => 'cil', 'CiPaw.13G135800' => 'cil', 'ClCG01G012230' => 'cla', 'ClCG05G009510' => 'cla', 'ClCG08G008270' => 'cla', 'COL.COLO4_11763' => 'col', 'COL.COLO4_19876' => 'col', 'COL.COLO4_21481' => 'col', 'Cpa.g.sc118.34' => 'cpa', 'Cpa.g.sc32.13' => 'cpa', 'Cpa.g.sc58.103' => 'cpa', 'Cre03.g183850' => 'cre', 'Cre06.g306350' => 'cre', 'Cre07.g334800' => 'cre', 'Cre12.g487900' => 'cre', 'Cre14.g626700' => 'cre', 'Cre16.g658400' => 'cre', 'Cre17.g700950' => 'cre', 'CsaV3_1G014830' => 'csa', 'CsaV3_3G013320' => 'csa', 'CsaV3_3G019210' => 'csa', 'CsaV3_3G019220' => 'csa', 'CsaV3_6G004230' => 'csa', 'CSS0003773' => 'camsi', 'CSS0004563' => 'camsi', 'CSS0013949' => 'camsi', 'CSS0025971' => 'camsi', 'CSS0028570' => 'camsi', 'CSS0033127' => 'camsi', 'CSS0036051' => 'camsi', 'CSS0040087' => 'camsi', 'CSS0043179' => 'camsi', 'DCAR_006161' => 'dca', 'DCAR_010351' => 'dca', 'DCAR_012197' => 'dca', 'DCAR_024162' => 'dca', 'Dinv01030' => 'din', 'Dinv10924' => 'din', 'Dinv11835' => 'din', 'Dinv22841' => 'din', 'Dinv42553' => 'din', 'Duzib052G0560' => 'dzi', 'Duzib132G0389' => 'dzi', 'Duzib150G1181' => 'dzi', 'Duzib168G0623' => 'dzi', 'Duzib170G1036' => 'dzi', 'Duzib212G0200' => 'dzi', 'Duzib248G0194' => 'dzi', 'ECA232G2193' => 'eca', 'ECA233G0302' => 'eca', 'ECA234G2813' => 'eca', 'ECA234G4866' => 'eca', 'ECA240G3932' => 'eca', 'ECA248G0385' => 'eca', 'EL10Ac2g04781' => 'bvu', 'EL10Ac3g06445' => 'bvu', 'EL10Ac7g15825' => 'bvu', 'EL10Ac8g18550' => 'bvu', 'Eucgr.B03849' => 'egr', 'Eucgr.I02744' => 'egr', 'Eucgr.J00264' => 'egr', 'Eucgr.J00493' => 'egr', 'FAN04G2181' => 'fan', 'FAN07G2666' => 'fan', 'FAN11G0024' => 'fan', 'FAN12G1105' => 'fan', 'FAN13G0302' => 'fan', 'FAN15G2781' => 'fan', 'FAN16G1274' => 'fan', 'FAN17G2988' => 'fan', 'FAN18G2621' => 'fan', 'FAN21G0013' => 'fan', 'FAN22G1211' => 'fan', 'FAN25G3626' => 'fan', 'FvH4_2g09491' => 'fve', 'FvH4_3g24910' => 'fve', 'FvH4_4g15630' => 'fve', 'FvH4_5g28820' => 'fve', 'Glyma.01G238000' => 'gma', 'Glyma.05G168400' => 'gma', 'Glyma.08G126800' => 'gma', 'Glyma.08G188500' => 'gma', 'Glyma.10G278900' => 'gma', 'Glyma.11G005700' => 'gma', 'Glyma.11G183300' => 'gma', 'Glyma.12G089200' => 'gma', 'Glyma.12G169400' => 'gma', 'Glyma.12G169500' => 'gma', 'Glyma.12G169600' => 'gma', 'Glyma.20G110800' => 'gma', 'Gohir.A03G192900' => 'ghi', 'Gohir.A03G193000' => 'ghi', 'Gohir.A05G080700' => 'ghi', 'Gohir.A09G216000' => 'ghi', 'Gohir.A12G027700' => 'ghi', 'Gohir.A13G036200' => 'ghi', 'Gohir.A13G222600' => 'ghi', 'Gohir.D02G213900' => 'ghi', 'Gohir.D02G214000' => 'ghi', 'Gohir.D05G083700' => 'ghi', 'Gohir.D05G083800' => 'ghi', 'Gohir.D05G083850' => 'ghi', 'Gohir.D08G015400' => 'ghi', 'Gohir.D09G218400' => 'ghi', 'Gohir.D12G027100' => 'ghi', 'Gohir.D13G034500' => 'ghi', 'Gohir.D13G227400' => 'ghi', 'Gorai.005G241800' => 'gra', 'Gorai.005G241900' => 'gra', 'Gorai.006G239400' => 'gra', 'Gorai.008G027600' => 'gra', 'Gorai.009G085400' => 'gra', 'Gorai.009G085500' => 'gra', 'Gorai.013G039000' => 'gra', 'Gorai.013G194800' => 'gra', 'Gorai.013G257900' => 'gra', 'GSVIVG01000982001' => 'vvi', 'GSVIVG01017981001' => 'vvi', 'HanXRQChr01g0024061' => 'han', 'HanXRQChr09g0247831' => 'han', 'HanXRQChr10g0294611' => 'han', 'HanXRQChr10g0294621' => 'han', 'HanXRQChr11g0346821' => 'han', 'HanXRQChr13g0397461' => 'han', 'HanXRQChr16g0513651' => 'han', 'HanXRQChr16g0513701' => 'han', 'Haze_00897' => 'cav', 'Haze_01745' => 'cav', 'Haze_02486' => 'cav', 'Haze_02487' => 'cav', 'Haze_23374' => 'cav', 'Hma1.2p1_0578F.1_g182520' => 'hma', 'Hma1.2p1_0602F.1_g187350' => 'hma', 'Hma1.2p1_0602F.1_g187360' => 'hma', 'Hma1.2p1_0874F.1_g231320' => 'hma', 'Hma1.2p1_1197F.1_g266210' => 'hma', 'Hma1.2p1_1197F.1_g266220' => 'hma', 'Hma1.2p1_2167F.1_g315895' => 'hma', 'Hma1.2p1_2190F.1_g316640' => 'hma', 'Hma1.2p1_3645F.1_g337153' => 'hma', 'HPP92_004907' => 'vpl', 'HPP92_012134' => 'vpl', 'HPP92_025136' => 'vpl', 'HPP92_026087' => 'vpl', 'Hund06782' => 'sun', 'Hund06784' => 'sun', 'Lalb_Chr01g0004861' => 'lal', 'Lalb_Chr02g0140591' => 'lal', 'Lalb_Chr02g0140611' => 'lal', 'Lalb_Chr03g0028101' => 'lal', 'Lalb_Chr07g0185791' => 'lal', 'Lalb_Chr12g0204491' => 'lal', 'Lalb_Chr13g0295671' => 'lal', 'Lalb_Chr19g0136461' => 'lal', 'Lalb_Chr21g0309191' => 'lal', 'Lj1g0028158' => 'lja', 'Lj1P236T38' => 'lonja', 'Lj2C32G2' => 'lonja', 'Lj2P944T8' => 'lonja', 'Lj2P963T15' => 'lonja', 'Lj3g0011788' => 'lja', 'Lj4g0025027' => 'lja', 'Lj5P255T36' => 'lonja', 'Lj6g0018866' => 'lja', 'Lj6P608T31' => 'lonja', 'LjContig00408g0008879' => 'lja', 'Lsat_1_v5_gn_5_105820' => 'lsa', 'Lsat_1_v5_gn_6_38800' => 'lsa', 'Lsat_1_v5_gn_7_67141' => 'lsa', 'Manes.04G003400' => 'mes', 'Manes.07G020000' => 'mes', 'Manes.07G020100' => 'mes', 'Manes.07G020150' => 'mes', 'Manes.10G061500' => 'mes', 'Manes.10G123200' => 'mes', 'Manes.11G161900' => 'mes', 'Manes.15G029300' => 'mes', 'Mapoly0071s0018' => 'mpo', 'Mapoly0082s0023' => 'mpo', 'Mapoly3477s0001' => 'mpo', 'MBI05_g31233_MAGBIO' => 'mbi', 'MBI09_g05946_MAGBIO' => 'mbi', 'MBI09_g05947_MAGBIO' => 'mbi', 'MBI17_g08346_MAGBIO' => 'mbi', 'MCO04G038' => 'mco', 'MCO09G370' => 'mco', 'MCO13G605' => 'mco', 'MD00G1075500' => 'mdo', 'MD03G1144300' => 'mdo', 'MD08G1236800' => 'mdo', 'MD13G1193300' => 'mdo', 'MD15G1428700' => 'mdo', 'Medtr1g112030' => 'mtr', 'Medtr1g112050' => 'mtr', 'Medtr2g006290' => 'mtr', 'Medtr2g086510' => 'mtr', 'Medtr4g053120' => 'mtr', 'Medtr5g006320' => 'mtr', 'Medtr8g088720' => 'mtr', 'MELO3C004712.2' => 'cme', 'MELO3C006533.2' => 'cme', 'MELO3C019438.2' => 'cme', 'MELO3C019440.2' => 'cme', 'MELO3C019441.2' => 'cme', 'MELO3C019895.2' => 'cme', 'Migut.B00811' => 'egut', 'Migut.D02447' => 'egut', 'Migut.F00875' => 'egut', 'Migut.N00186' => 'egut', 'Migut.N01051' => 'egut', 'Migut.N02491' => 'egut', 'Migut.O00784' => 'egut', 'MSTRG.12367' => 'ama', 'MSTRG.18756' => 'ama', 'MSTRG.21042' => 'ama', 'Nitab4.5_0000559g0040' => 'nta', 'Nitab4.5_0000667g0190' => 'nta', 'Nitab4.5_0000755g0160' => 'nta', 'Nitab4.5_0001216g0080' => 'nta', 'Nitab4.5_0004069g0040' => 'nta', 'Nitab4.5_0004129g0010' => 'nta', 'Nitab4.5_0005744g0030' => 'nta', 'Nitab4.5_0006996g0030' => 'nta', 'Nitab4.5_0008971g0040' => 'nta', 'Nitab4.5_0009769g0020' => 'nta', 'Nitab4.5_0009833g0010' => 'nta', 'Nitab4.5_0013140g0020' => 'nta', 'Nn003s41376' => 'nnu', 'Nn1g01857' => 'nnu', 'Nn1g03611' => 'nnu', 'Nn1g06853' => 'nnu', 'Nn3g18360' => 'nnu', 'Nn4g26328' => 'nnu', 'Nn5g27531' => 'nnu', 'Nn6g34899' => 'nnu', 'Nn7g36299' => 'nnu', 'Oeu021485.1' => 'oeu', 'Oeu022433.1' => 'oeu', 'Oeu032111.1' => 'oeu', 'Oeu051608.1' => 'oeu', 'Os01g0860601' => 'osa', 'Os03g0659200' => 'osa', 'Os03g0835900' => 'osa', 'Os04g0412200' => 'osa', 'Os05g0443500' => 'osa', 'Os07g0251500' => 'osa', 'Os08g0104600' => 'osa', 'Peaxi162Scf00003g00047' => 'pax', 'Peaxi162Scf00003g00052' => 'pax', 'Peaxi162Scf00003g00394' => 'pax', 'Peaxi162Scf00091g00621' => 'pax', 'Peaxi162Scf00152g00146' => 'pax', 'Peaxi162Scf00173g00025' => 'pax', 'Peaxi162Scf00195g00102' => 'pax', 'Peaxi162Scf00402g00013' => 'pax', 'Peaxi162Scf00519g00618' => 'pax', 'PGR004G2838' => 'pgr', 'PGR044G2275' => 'pgr', 'PGR102G1377' => 'pgr', 'PGR119G1245' => 'pgr', 'PGR142G4449' => 'pgr', 'PGSC0003DMG400004532' => 'stu', 'PGSC0003DMG400011950' => 'stu', 'PGSC0003DMG400023391' => 'stu', 'PGSC0003DMG400023985' => 'stu', 'PGSC0003DMG400026360' => 'stu', 'PGSC0003DMG400035711' => 'stu', 'PGSC0003DMG400037286' => 'stu', 'PGSC0003DMG402005881' => 'stu', 'Phvul.002G045400' => 'pvu', 'Phvul.006G216600' => 'pvu', 'Phvul.006G216700' => 'pvu', 'Phvul.006G216800' => 'pvu', 'Phvul.007G022500' => 'pvu', 'Phvul.011G094400' => 'pvu', 'Potri.001G470700' => 'ptr', 'Potri.003G015200' => 'ptr', 'Potri.004G202500' => 'ptr', 'Potri.004G218400' => 'ptr', 'Potri.008G020100' => 'ptr', 'Potri.008G153200' => 'ptr', 'Potri.009G163800' => 'ptr', 'Potri.010G087300' => 'ptr', 'Potri.010G239100' => 'ptr', 'Pp3c10_16100' => 'ppa', 'Pp3c10_16880' => 'ppa', 'Pp3c16_6230' => 'ppa', 'Pp3c17_18910' => 'ppa', 'Pp3c3_22119' => 'ppa', 'Pp3c3_22140' => 'ppa', 'Pp3c4_8159' => 'ppa', 'Pp3c4_8171' => 'ppa', 'Pp3c4_8330' => 'ppa', 'PRCOL_00004098' => 'pco', 'Prupe.1G013900' => 'ppe', 'Prupe.1G226300' => 'ppe', 'Prupe.1G573600' => 'ppe', 'Prupe.6G130100' => 'ppe', 'Psat3g090040' => 'psa', 'Psat4g210440' => 'psa', 'Psat6g231040' => 'psa', 'Psat6g231080' => 'psa', 'Psat7g063000' => 'psa', 'Psat7g188000' => 'psa', 'Psat7g188040' => 'psa', 'PSO017G0206' => 'pso', 'PSO170G0501' => 'pso', 'PSO170G6422' => 'pso', 'PSO210G7739' => 'pso', 'PSO339G1808' => 'pso', 'PSO339G6135' => 'pso', 'PSO384G0010' => 'pso', 'PSO384G0964' => 'pso', 'PSO761G0050' => 'pso', 'PSO782G4085' => 'pso', 'QL01p012264' => 'qlo', 'QL02p099491' => 'qlo', 'QL03p033868' => 'qlo', 'QL04p046678' => 'qlo', 'QL06p002448' => 'qlo', 'RcHm_v2.0_Chr4g0416181' => 'rch', 'RcHm_v2.0_Chr5g0044701' => 'rch', 'RcHm_v2.0_Chr6g0265781' => 'rch', 'RcHm_v2.0_Chr7g0221031' => 'rch', 'Rhsim04G0202000' => 'rsi', 'Rhsim11G0127300' => 'rsi', 'Rhsim13G0111800' => 'rsi', 'Sabra01G0165600' => 'sbr', 'Sabra03G0008300' => 'sbr', 'Sabra04G0136900' => 'sbr', 'Sabra08G0013400' => 'sbr', 'Sabra08G0116800' => 'sbr', 'Sabra09G0128000' => 'sbr', 'Sabra10G0055500' => 'sbr', 'Sabra10G0073300' => 'sbr', 'SalBow3G0385' => 'sbo', 'SalBow3G1119' => 'sbo', 'SalBow3G2005' => 'sbo', 'SalBow6G2563' => 'sbo', 'SalBow6G6386' => 'sbo', 'Sc06g0008800' => 'sci', 'Sc07g0004950' => 'sci', 'Sc09g0005340' => 'sci', 'Sc13g0004410' => 'sci', 'Sc21g0007090' => 'sci', 'Sed0009285' => 'sed', 'Sed0017583' => 'sed', 'Sed0019699' => 'sed', 'Sed0023107' => 'sed', 'SEGI_10916' => 'sgi', 'SEGI_16217' => 'sgi', 'SEGI_19466' => 'sgi', 'SEGI_41115' => 'sgi', 'SGA_v2.0_scaffold111G31534' => 'sas', 'SGA_v2.0_scaffold22G09864' => 'sas', 'SGA_v2.0_scaffold338G49219' => 'sas', 'SGA_v2.0_scaffold92G28298' => 'sas', 'SMO119G0064' => 'smo', 'SMO223G0038' => 'smo', 'SMO347G0584' => 'smo', 'SMO351G0010' => 'smo', 'SMO356G0404' => 'smo', 'Solyc01g103920.3' => 'sly', 'Solyc04g009710.2' => 'sly', 'Solyc05g055280.2' => 'sly', 'Solyc10g044520.3' => 'sly', 'Solyc10g075160.1' => 'sly', 'Solyc11g006910.3' => 'sly', 'Solyc11g068430.3' => 'sly', 'Sopen01g046310' => 'spe', 'Sopen03g001200' => 'spe', 'Sopen04g004830' => 'spe', 'Sopen05g033720' => 'spe', 'Sopen06g030740' => 'spe', 'Sopen10g013090' => 'spe', 'Sopen10g027630' => 'spe', 'Sopen10g027640' => 'spe', 'Sopen11g002820' => 'spe', 'Sopen11g027140' => 'spe', 'Sp1g09680' => 'spa', 'Sp2g03630' => 'spa', 'Sp4g10320' => 'spa', 'Sp6g33400' => 'spa', 'Sp7g13030' => 'spa', 'TAR365G0317' => 'tar', 'TAR376G0979' => 'tar', 'TAR623G1665' => 'tar', 'TAR633G2373' => 'tar', 'TAR636G1400' => 'tar', 'THA.LOC104800529' => 'tha', 'THA.LOC104808547' => 'tha', 'THA.LOC104809615' => 'tha', 'THA.LOC104815724' => 'tha', 'THA.LOC104818480' => 'tha', 'THA.LOC104819179' => 'tha', 'THA.LOC104822270' => 'tha', 'THA.LOC104826425' => 'tha', 'Thecc.02G089700' => 'tca', 'Thecc.04G232300' => 'tca', 'Thecc.09G283400' => 'tca', 'Thhalv10009020m.g' => 'esa', 'Thhalv10015506m.g' => 'esa', 'Thhalv10017364m.g' => 'esa', 'Thhalv10023742m.g' => 'esa', 'Thhalv10026483m.g' => 'esa', 'TPR.G17232' => 'tpr', 'TPR.G2133' => 'tpr', 'TPR.G2498' => 'tpr', 'TPR.G31942' => 'tpr', 'TPR.G37877' => 'tpr', 'TPR.G4571' => 'tpr', 'TWI14G1113' => 'twi', 'TWI15G0426' => 'twi', 'TWI31G1005' => 'twi', 'TWI38G0513' => 'twi', 'TWI38G1484' => 'twi', 'TWI73G1098' => 'twi', 'unitig_26.g10519' => 'ugi', 'unitig_736.g22395' => 'ugi', 'unitig_747.g21234' => 'ugi', 'unitig_747.g21942' => 'ugi', 'vmacro14351' => 'vma', 'VMungo0540G0082' => 'vmu', 'VMungo0540G0405' => 'vmu', 'VMungo0540G1486' => 'vmu', 'VMungo0540G1692' => 'vmu', 'VMungo0720G2473' => 'vmu', 'VMungo1127G1562' => 'vmu', 'VMungo1215G1918' => 'vmu', 'Zm00001eb052650' => 'zma', 'Zm00001eb063710' => 'zma', 'Zm00001eb083950' => 'zma', 'Zm00001eb174420' => 'zma', 'Zm00001eb260140' => 'zma', 'Zm00001eb260150' => 'zma', 'Zm00001eb260160' => 'zma', 'Zm00001eb348290' => 'zma', 'Zm00001eb366870' => 'zma', 'Zm00001eb421930' => 'zma' ), 'gf_id' => 'HOM05D001025', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001025' ), 'data_identifier' => 'HOM05D001025', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001025', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '592', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p22650' => 'bna', 'A01p29720' => 'bna', 'A03p26560' => 'bna', 'A03p68820' => 'bna', 'A04p20980' => 'bna', 'A06p07730' => 'bna', 'A07p18260' => 'bna', 'A08p33710' => 'bna', 'A09p16970' => 'bna', 'A10p27490' => 'bna', 'Aa31LG1G17300' => 'aar', 'Aa31LG1G3910' => 'aar', 'Aa31LG2G9630' => 'aar', 'Aa31LG5G8360' => 'aar', 'Aa31LG9G2410' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4699' => 'aag', 'Actinidia23512' => 'ach', 'Actinidia37080' => 'ach', 'Ah.01g020380' => 'amhyb', 'Ah.08g215710' => 'amhyb', 'Ah.09g225110' => 'amhyb', 'Ah.10g036680' => 'amhyb', 'AL1G21940' => 'aly', 'AL2G15540' => 'aly', 'AL4G21520' => 'aly', 'AL7G40960' => 'aly', 'Aqoxy2G01191' => 'aox', 'Aqoxy2G03393' => 'aox', 'Aqoxy4G02775' => 'aox', 'Aqoxy6G00058' => 'aox', 'arahy.Tifrunner.gnm1.ann1.9X74H2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CW3FX9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R485W7' => 'arhy', 'AT1G10960' => 'ath', 'AT1G60950' => 'ath', 'AT2G27510' => 'ath', 'AT4G14890' => 'ath', 'AT5G10000' => 'ath', 'ATR0665G624' => 'atr', 'ATR0697G138' => 'atr', 'ATR0776G046' => 'atr', 'ATR1134G135' => 'atr', 'Atru.chr12.1025' => 'acertr', 'Atru.chr3.3241' => 'acertr', 'Atru.chr4.2460' => 'acertr', 'AUR62007427' => 'cqu', 'AUR62010960' => 'cqu', 'AUR62012201' => 'cqu', 'AUR62021470' => 'cqu', 'AUR62022834' => 'cqu', 'AUR62033635' => 'cqu', 'AUR62036186' => 'cqu', 'BcaB01g03077' => 'bca', 'BcaB02g10093' => 'bca', 'BcaB04g20295' => 'bca', 'BcaB06g28147' => 'bca', 'BcaB07g31253' => 'bca', 'BcaC01g04946' => 'bca', 'BcaC02g10614' => 'bca', 'BcaC02g10885' => 'bca', 'BcaC04g19356' => 'bca', 'BcaC04g22297' => 'bca', 'BcaC05g24977' => 'bca', 'BcaC06g31823' => 'bca', 'BcaC07g38633' => 'bca', 'BcaC09g49353' => 'bca', 'BcaC09g50168' => 'bca', 'BcaNung00322' => 'bca', 'BcaNung04769' => 'bca', 'BolC1t02753H' => 'bol', 'BolC1t03721H' => 'bol', 'BolC3t15525H' => 'bol', 'BolC4t23903H' => 'bol', 'BolC4t24231H' => 'bol', 'BolC4t27209H' => 'bol', 'BolC5t29671H' => 'bol', 'BolC8t49044H' => 'bol', 'BolC9t54999H' => 'bol', 'BolC9t59517H' => 'bol', 'BraA01t02178Z' => 'bra', 'BraA01t03099Z' => 'bra', 'BraA03t11867Z' => 'bra', 'BraA04t17667Z' => 'bra', 'BraA07t29542Z' => 'bra', 'BraA08t35287Z' => 'bra', 'BraA09t37334Z' => 'bra', 'BraA10t44801Z' => 'bra', 'BraSC39t46181Z' => 'bra', 'C01p28240' => 'bna', 'C01p37530' => 'bna', 'C03p31820' => 'bna', 'C04p24080' => 'bna', 'C04p25790' => 'bna', 'C04p56770' => 'bna', 'C05p09310' => 'bna', 'C09p21010' => 'bna', 'C09p67560' => 'bna', 'CAN.G1324.7' => 'can', 'CAN.G1358.10' => 'can', 'CAN.G1550.2' => 'can', 'CAN.G186.56' => 'can', 'CAN.G1965.1' => 'can', 'CAN.G645.15' => 'can', 'CAN.G798.26' => 'can', 'CAN.G798.27' => 'can', 'CAN.G798.29' => 'can', 'CAN.G919.31' => 'can', 'CANSAT11G0133' => 'cansat', 'CANSAT11G1171' => 'cansat', 'CANSAT11G2056' => 'cansat', 'CANSAT56G1202' => 'cansat', 'CANSAT56G1514' => 'cansat', 'CANSAT78G0455' => 'cansat', 'CARHR011190' => 'chi', 'CARHR051980' => 'chi', 'CARHR120170' => 'chi', 'CARHR203310' => 'chi', 'CARHR221490' => 'chi', 'Carub.0001s1054' => 'cru', 'Carub.0002s0431' => 'cru', 'Carub.0004s0818' => 'cru', 'Carub.0006s0846' => 'cru', 'Carub.0007s2722' => 'cru', 'Ca_00058_v3' => 'car', 'Ca_17831_v3' => 'car', 'Ca_19408_v3' => 'car', 'Ca_24397_v3' => 'car', 'Ca_25664_v3' => 'car', 'CBR_g21818' => 'cbr', 'CBR_g31195' => 'cbr', 'CBR_g32282' => 'cbr', 'CBR_g39599' => 'cbr', 'CBR_g49410' => 'cbr', 'Cc01_g09120' => 'ccan', 'Cc01_g09130' => 'ccan', 'Cc02_g09630' => 'ccan', 'Cc02_g22810' => 'ccan', 'Cc03_g03810' => 'ccan', 'CDE02G3718' => 'cde', 'CDE04G3183' => 'cde', 'CDE07G1046' => 'cde', 'CDE08G0480' => 'cde', 'Cfa005493' => 'cfa', 'Cfa010312' => 'cfa', 'Cfa015648' => 'cfa', 'Ciclev10002793m.g' => 'ccl', 'Ciclev10003356m.g' => 'ccl', 'Ciclev10006141m.g' => 'ccl', 'Ciclev10016676m.g' => 'ccl', 'Ciclev10017081m.g' => 'ccl', 'Ciclev10029499m.g' => 'ccl', 'CiPaw.01G166300' => 'cil', 'CiPaw.06G145600' => 'cil', 'CiPaw.13G040100' => 'cil', 'CiPaw.13G135800' => 'cil', 'ClCG01G012230' => 'cla', 'ClCG05G009510' => 'cla', 'ClCG08G008270' => 'cla', 'COL.COLO4_11763' => 'col', 'COL.COLO4_19876' => 'col', 'COL.COLO4_21481' => 'col', 'Cpa.g.sc118.34' => 'cpa', 'Cpa.g.sc32.13' => 'cpa', 'Cpa.g.sc58.103' => 'cpa', 'Cre03.g183850' => 'cre', 'Cre06.g306350' => 'cre', 'Cre07.g334800' => 'cre', 'Cre12.g487900' => 'cre', 'Cre14.g626700' => 'cre', 'Cre16.g658400' => 'cre', 'Cre17.g700950' => 'cre', 'CsaV3_1G014830' => 'csa', 'CsaV3_3G013320' => 'csa', 'CsaV3_3G019210' => 'csa', 'CsaV3_3G019220' => 'csa', 'CsaV3_6G004230' => 'csa', 'CSS0003773' => 'camsi', 'CSS0004563' => 'camsi', 'CSS0013949' => 'camsi', 'CSS0025971' => 'camsi', 'CSS0028570' => 'camsi', 'CSS0033127' => 'camsi', 'CSS0036051' => 'camsi', 'CSS0040087' => 'camsi', 'CSS0043179' => 'camsi', 'DCAR_006161' => 'dca', 'DCAR_010351' => 'dca', 'DCAR_012197' => 'dca', 'DCAR_024162' => 'dca', 'Dinv01030' => 'din', 'Dinv10924' => 'din', 'Dinv11835' => 'din', 'Dinv22841' => 'din', 'Dinv42553' => 'din', 'Duzib052G0560' => 'dzi', 'Duzib132G0389' => 'dzi', 'Duzib150G1181' => 'dzi', 'Duzib168G0623' => 'dzi', 'Duzib170G1036' => 'dzi', 'Duzib212G0200' => 'dzi', 'Duzib248G0194' => 'dzi', 'ECA232G2193' => 'eca', 'ECA233G0302' => 'eca', 'ECA234G2813' => 'eca', 'ECA234G4866' => 'eca', 'ECA240G3932' => 'eca', 'ECA248G0385' => 'eca', 'EL10Ac2g04781' => 'bvu', 'EL10Ac3g06445' => 'bvu', 'EL10Ac7g15825' => 'bvu', 'EL10Ac8g18550' => 'bvu', 'Eucgr.B03849' => 'egr', 'Eucgr.I02744' => 'egr', 'Eucgr.J00264' => 'egr', 'Eucgr.J00493' => 'egr', 'FAN04G2181' => 'fan', 'FAN07G2666' => 'fan', 'FAN11G0024' => 'fan', 'FAN12G1105' => 'fan', 'FAN13G0302' => 'fan', 'FAN15G2781' => 'fan', 'FAN16G1274' => 'fan', 'FAN17G2988' => 'fan', 'FAN18G2621' => 'fan', 'FAN21G0013' => 'fan', 'FAN22G1211' => 'fan', 'FAN25G3626' => 'fan', 'FvH4_2g09491' => 'fve', 'FvH4_3g24910' => 'fve', 'FvH4_4g15630' => 'fve', 'FvH4_5g28820' => 'fve', 'Glyma.01G238000' => 'gma', 'Glyma.05G168400' => 'gma', 'Glyma.08G126800' => 'gma', 'Glyma.08G188500' => 'gma', 'Glyma.10G278900' => 'gma', 'Glyma.11G005700' => 'gma', 'Glyma.11G183300' => 'gma', 'Glyma.12G089200' => 'gma', 'Glyma.12G169400' => 'gma', 'Glyma.12G169500' => 'gma', 'Glyma.12G169600' => 'gma', 'Glyma.20G110800' => 'gma', 'Gohir.A03G192900' => 'ghi', 'Gohir.A03G193000' => 'ghi', 'Gohir.A05G080700' => 'ghi', 'Gohir.A09G216000' => 'ghi', 'Gohir.A12G027700' => 'ghi', 'Gohir.A13G036200' => 'ghi', 'Gohir.A13G222600' => 'ghi', 'Gohir.D02G213900' => 'ghi', 'Gohir.D02G214000' => 'ghi', 'Gohir.D05G083700' => 'ghi', 'Gohir.D05G083800' => 'ghi', 'Gohir.D05G083850' => 'ghi', 'Gohir.D08G015400' => 'ghi', 'Gohir.D09G218400' => 'ghi', 'Gohir.D12G027100' => 'ghi', 'Gohir.D13G034500' => 'ghi', 'Gohir.D13G227400' => 'ghi', 'Gorai.005G241800' => 'gra', 'Gorai.005G241900' => 'gra', 'Gorai.006G239400' => 'gra', 'Gorai.008G027600' => 'gra', 'Gorai.009G085400' => 'gra', 'Gorai.009G085500' => 'gra', 'Gorai.013G039000' => 'gra', 'Gorai.013G194800' => 'gra', 'Gorai.013G257900' => 'gra', 'GSVIVG01000982001' => 'vvi', 'GSVIVG01017981001' => 'vvi', 'HanXRQChr01g0024061' => 'han', 'HanXRQChr09g0247831' => 'han', 'HanXRQChr10g0294611' => 'han', 'HanXRQChr10g0294621' => 'han', 'HanXRQChr11g0346821' => 'han', 'HanXRQChr13g0397461' => 'han', 'HanXRQChr16g0513651' => 'han', 'HanXRQChr16g0513701' => 'han', 'Haze_00897' => 'cav', 'Haze_01745' => 'cav', 'Haze_02486' => 'cav', 'Haze_02487' => 'cav', 'Haze_23374' => 'cav', 'Hma1.2p1_0578F.1_g182520' => 'hma', 'Hma1.2p1_0602F.1_g187350' => 'hma', 'Hma1.2p1_0602F.1_g187360' => 'hma', 'Hma1.2p1_0874F.1_g231320' => 'hma', 'Hma1.2p1_1197F.1_g266210' => 'hma', 'Hma1.2p1_1197F.1_g266220' => 'hma', 'Hma1.2p1_2167F.1_g315895' => 'hma', 'Hma1.2p1_2190F.1_g316640' => 'hma', 'Hma1.2p1_3645F.1_g337153' => 'hma', 'HPP92_004907' => 'vpl', 'HPP92_012134' => 'vpl', 'HPP92_025136' => 'vpl', 'HPP92_026087' => 'vpl', 'Hund06782' => 'sun', 'Hund06784' => 'sun', 'Lalb_Chr01g0004861' => 'lal', 'Lalb_Chr02g0140591' => 'lal', 'Lalb_Chr02g0140611' => 'lal', 'Lalb_Chr03g0028101' => 'lal', 'Lalb_Chr07g0185791' => 'lal', 'Lalb_Chr12g0204491' => 'lal', 'Lalb_Chr13g0295671' => 'lal', 'Lalb_Chr19g0136461' => 'lal', 'Lalb_Chr21g0309191' => 'lal', 'Lj1g0028158' => 'lja', 'Lj1P236T38' => 'lonja', 'Lj2C32G2' => 'lonja', 'Lj2P944T8' => 'lonja', 'Lj2P963T15' => 'lonja', 'Lj3g0011788' => 'lja', 'Lj4g0025027' => 'lja', 'Lj5P255T36' => 'lonja', 'Lj6g0018866' => 'lja', 'Lj6P608T31' => 'lonja', 'LjContig00408g0008879' => 'lja', 'Lsat_1_v5_gn_5_105820' => 'lsa', 'Lsat_1_v5_gn_6_38800' => 'lsa', 'Lsat_1_v5_gn_7_67141' => 'lsa', 'Manes.04G003400' => 'mes', 'Manes.07G020000' => 'mes', 'Manes.07G020100' => 'mes', 'Manes.07G020150' => 'mes', 'Manes.10G061500' => 'mes', 'Manes.10G123200' => 'mes', 'Manes.11G161900' => 'mes', 'Manes.15G029300' => 'mes', 'Mapoly0071s0018' => 'mpo', 'Mapoly0082s0023' => 'mpo', 'Mapoly3477s0001' => 'mpo', 'MBI05_g31233_MAGBIO' => 'mbi', 'MBI09_g05946_MAGBIO' => 'mbi', 'MBI09_g05947_MAGBIO' => 'mbi', 'MBI17_g08346_MAGBIO' => 'mbi', 'MCO04G038' => 'mco', 'MCO09G370' => 'mco', 'MCO13G605' => 'mco', 'MD00G1075500' => 'mdo', 'MD03G1144300' => 'mdo', 'MD08G1236800' => 'mdo', 'MD13G1193300' => 'mdo', 'MD15G1428700' => 'mdo', 'Medtr1g112030' => 'mtr', 'Medtr1g112050' => 'mtr', 'Medtr2g006290' => 'mtr', 'Medtr2g086510' => 'mtr', 'Medtr4g053120' => 'mtr', 'Medtr5g006320' => 'mtr', 'Medtr8g088720' => 'mtr', 'MELO3C004712.2' => 'cme', 'MELO3C006533.2' => 'cme', 'MELO3C019438.2' => 'cme', 'MELO3C019440.2' => 'cme', 'MELO3C019441.2' => 'cme', 'MELO3C019895.2' => 'cme', 'Migut.B00811' => 'egut', 'Migut.D02447' => 'egut', 'Migut.F00875' => 'egut', 'Migut.N00186' => 'egut', 'Migut.N01051' => 'egut', 'Migut.N02491' => 'egut', 'Migut.O00784' => 'egut', 'MSTRG.12367' => 'ama', 'MSTRG.18756' => 'ama', 'MSTRG.21042' => 'ama', 'Nitab4.5_0000559g0040' => 'nta', 'Nitab4.5_0000667g0190' => 'nta', 'Nitab4.5_0000755g0160' => 'nta', 'Nitab4.5_0001216g0080' => 'nta', 'Nitab4.5_0004069g0040' => 'nta', 'Nitab4.5_0004129g0010' => 'nta', 'Nitab4.5_0005744g0030' => 'nta', 'Nitab4.5_0006996g0030' => 'nta', 'Nitab4.5_0008971g0040' => 'nta', 'Nitab4.5_0009769g0020' => 'nta', 'Nitab4.5_0009833g0010' => 'nta', 'Nitab4.5_0013140g0020' => 'nta', 'Nn003s41376' => 'nnu', 'Nn1g01857' => 'nnu', 'Nn1g03611' => 'nnu', 'Nn1g06853' => 'nnu', 'Nn3g18360' => 'nnu', 'Nn4g26328' => 'nnu', 'Nn5g27531' => 'nnu', 'Nn6g34899' => 'nnu', 'Nn7g36299' => 'nnu', 'Oeu021485.1' => 'oeu', 'Oeu022433.1' => 'oeu', 'Oeu032111.1' => 'oeu', 'Oeu051608.1' => 'oeu', 'Os01g0860601' => 'osa', 'Os03g0659200' => 'osa', 'Os03g0835900' => 'osa', 'Os04g0412200' => 'osa', 'Os05g0443500' => 'osa', 'Os07g0251500' => 'osa', 'Os08g0104600' => 'osa', 'Peaxi162Scf00003g00047' => 'pax', 'Peaxi162Scf00003g00052' => 'pax', 'Peaxi162Scf00003g00394' => 'pax', 'Peaxi162Scf00091g00621' => 'pax', 'Peaxi162Scf00152g00146' => 'pax', 'Peaxi162Scf00173g00025' => 'pax', 'Peaxi162Scf00195g00102' => 'pax', 'Peaxi162Scf00402g00013' => 'pax', 'Peaxi162Scf00519g00618' => 'pax', 'PGR004G2838' => 'pgr', 'PGR044G2275' => 'pgr', 'PGR102G1377' => 'pgr', 'PGR119G1245' => 'pgr', 'PGR142G4449' => 'pgr', 'PGSC0003DMG400004532' => 'stu', 'PGSC0003DMG400011950' => 'stu', 'PGSC0003DMG400023391' => 'stu', 'PGSC0003DMG400023985' => 'stu', 'PGSC0003DMG400026360' => 'stu', 'PGSC0003DMG400035711' => 'stu', 'PGSC0003DMG400037286' => 'stu', 'PGSC0003DMG402005881' => 'stu', 'Phvul.002G045400' => 'pvu', 'Phvul.006G216600' => 'pvu', 'Phvul.006G216700' => 'pvu', 'Phvul.006G216800' => 'pvu', 'Phvul.007G022500' => 'pvu', 'Phvul.011G094400' => 'pvu', 'Potri.001G470700' => 'ptr', 'Potri.003G015200' => 'ptr', 'Potri.004G202500' => 'ptr', 'Potri.004G218400' => 'ptr', 'Potri.008G020100' => 'ptr', 'Potri.008G153200' => 'ptr', 'Potri.009G163800' => 'ptr', 'Potri.010G087300' => 'ptr', 'Potri.010G239100' => 'ptr', 'Pp3c10_16100' => 'ppa', 'Pp3c10_16880' => 'ppa', 'Pp3c16_6230' => 'ppa', 'Pp3c17_18910' => 'ppa', 'Pp3c3_22119' => 'ppa', 'Pp3c3_22140' => 'ppa', 'Pp3c4_8159' => 'ppa', 'Pp3c4_8171' => 'ppa', 'Pp3c4_8330' => 'ppa', 'PRCOL_00004098' => 'pco', 'Prupe.1G013900' => 'ppe', 'Prupe.1G226300' => 'ppe', 'Prupe.1G573600' => 'ppe', 'Prupe.6G130100' => 'ppe', 'Psat3g090040' => 'psa', 'Psat4g210440' => 'psa', 'Psat6g231040' => 'psa', 'Psat6g231080' => 'psa', 'Psat7g063000' => 'psa', 'Psat7g188000' => 'psa', 'Psat7g188040' => 'psa', 'PSO017G0206' => 'pso', 'PSO170G0501' => 'pso', 'PSO170G6422' => 'pso', 'PSO210G7739' => 'pso', 'PSO339G1808' => 'pso', 'PSO339G6135' => 'pso', 'PSO384G0010' => 'pso', 'PSO384G0964' => 'pso', 'PSO761G0050' => 'pso', 'PSO782G4085' => 'pso', 'QL01p012264' => 'qlo', 'QL02p099491' => 'qlo', 'QL03p033868' => 'qlo', 'QL04p046678' => 'qlo', 'QL06p002448' => 'qlo', 'RcHm_v2.0_Chr4g0416181' => 'rch', 'RcHm_v2.0_Chr5g0044701' => 'rch', 'RcHm_v2.0_Chr6g0265781' => 'rch', 'RcHm_v2.0_Chr7g0221031' => 'rch', 'Rhsim04G0202000' => 'rsi', 'Rhsim11G0127300' => 'rsi', 'Rhsim13G0111800' => 'rsi', 'Sabra01G0165600' => 'sbr', 'Sabra03G0008300' => 'sbr', 'Sabra04G0136900' => 'sbr', 'Sabra08G0013400' => 'sbr', 'Sabra08G0116800' => 'sbr', 'Sabra09G0128000' => 'sbr', 'Sabra10G0055500' => 'sbr', 'Sabra10G0073300' => 'sbr', 'SalBow3G0385' => 'sbo', 'SalBow3G1119' => 'sbo', 'SalBow3G2005' => 'sbo', 'SalBow6G2563' => 'sbo', 'SalBow6G6386' => 'sbo', 'Sc06g0008800' => 'sci', 'Sc07g0004950' => 'sci', 'Sc09g0005340' => 'sci', 'Sc13g0004410' => 'sci', 'Sc21g0007090' => 'sci', 'Sed0009285' => 'sed', 'Sed0017583' => 'sed', 'Sed0019699' => 'sed', 'Sed0023107' => 'sed', 'SEGI_10916' => 'sgi', 'SEGI_16217' => 'sgi', 'SEGI_19466' => 'sgi', 'SEGI_41115' => 'sgi', 'SGA_v2.0_scaffold111G31534' => 'sas', 'SGA_v2.0_scaffold22G09864' => 'sas', 'SGA_v2.0_scaffold338G49219' => 'sas', 'SGA_v2.0_scaffold92G28298' => 'sas', 'SMO119G0064' => 'smo', 'SMO223G0038' => 'smo', 'SMO347G0584' => 'smo', 'SMO351G0010' => 'smo', 'SMO356G0404' => 'smo', 'Solyc01g103920.3' => 'sly', 'Solyc04g009710.2' => 'sly', 'Solyc05g055280.2' => 'sly', 'Solyc10g044520.3' => 'sly', 'Solyc10g075160.1' => 'sly', 'Solyc11g006910.3' => 'sly', 'Solyc11g068430.3' => 'sly', 'Sopen01g046310' => 'spe', 'Sopen03g001200' => 'spe', 'Sopen04g004830' => 'spe', 'Sopen05g033720' => 'spe', 'Sopen06g030740' => 'spe', 'Sopen10g013090' => 'spe', 'Sopen10g027630' => 'spe', 'Sopen10g027640' => 'spe', 'Sopen11g002820' => 'spe', 'Sopen11g027140' => 'spe', 'Sp1g09680' => 'spa', 'Sp2g03630' => 'spa', 'Sp4g10320' => 'spa', 'Sp6g33400' => 'spa', 'Sp7g13030' => 'spa', 'TAR365G0317' => 'tar', 'TAR376G0979' => 'tar', 'TAR623G1665' => 'tar', 'TAR633G2373' => 'tar', 'TAR636G1400' => 'tar', 'THA.LOC104800529' => 'tha', 'THA.LOC104808547' => 'tha', 'THA.LOC104809615' => 'tha', 'THA.LOC104815724' => 'tha', 'THA.LOC104818480' => 'tha', 'THA.LOC104819179' => 'tha', 'THA.LOC104822270' => 'tha', 'THA.LOC104826425' => 'tha', 'Thecc.02G089700' => 'tca', 'Thecc.04G232300' => 'tca', 'Thecc.09G283400' => 'tca', 'Thhalv10009020m.g' => 'esa', 'Thhalv10015506m.g' => 'esa', 'Thhalv10017364m.g' => 'esa', 'Thhalv10023742m.g' => 'esa', 'Thhalv10026483m.g' => 'esa', 'TPR.G17232' => 'tpr', 'TPR.G2133' => 'tpr', 'TPR.G2498' => 'tpr', 'TPR.G31942' => 'tpr', 'TPR.G37877' => 'tpr', 'TPR.G4571' => 'tpr', 'TWI14G1113' => 'twi', 'TWI15G0426' => 'twi', 'TWI31G1005' => 'twi', 'TWI38G0513' => 'twi', 'TWI38G1484' => 'twi', 'TWI73G1098' => 'twi', 'unitig_26.g10519' => 'ugi', 'unitig_736.g22395' => 'ugi', 'unitig_747.g21234' => 'ugi', 'unitig_747.g21942' => 'ugi', 'vmacro14351' => 'vma', 'VMungo0540G0082' => 'vmu', 'VMungo0540G0405' => 'vmu', 'VMungo0540G1486' => 'vmu', 'VMungo0540G1692' => 'vmu', 'VMungo0720G2473' => 'vmu', 'VMungo1127G1562' => 'vmu', 'VMungo1215G1918' => 'vmu', 'Zm00001eb052650' => 'zma', 'Zm00001eb063710' => 'zma', 'Zm00001eb083950' => 'zma', 'Zm00001eb174420' => 'zma', 'Zm00001eb260140' => 'zma', 'Zm00001eb260150' => 'zma', 'Zm00001eb260160' => 'zma', 'Zm00001eb348290' => 'zma', 'Zm00001eb366870' => 'zma', 'Zm00001eb421930' => 'zma' ) $gf_id = 'HOM05D001025' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001025' ) $data_identifier = 'HOM05D001025' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 19, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 2, 'amhyb' => (int) 4, 'aly' => (int) 4, 'aox' => (int) 4, 'arhy' => (int) 3, 'ath' => (int) 5, 'atr' => (int) 4, 'acertr' => (int) 3, 'cqu' => (int) 7, 'bca' => (int) 17, 'bol' => (int) 10, 'bra' => (int) 9, 'can' => (int) 10, 'cansat' => (int) 6, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 5, 'cbr' => (int) 5, 'ccan' => (int) 5, 'cde' => (int) 4, 'cfa' => (int) 3, 'ccl' => (int) 6, 'cil' => (int) 4, 'cla' => (int) 3, 'col' => (int) 3, 'cpa' => (int) 3, 'cre' => (int) 7, 'csa' => (int) 5, 'camsi' => (int) 9, 'dca' => (int) 4, 'din' => (int) 5, 'dzi' => (int) 7, 'eca' => (int) 6, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 12, 'fve' => (int) 4, 'gma' => (int) 12, 'ghi' => (int) 17, 'gra' => (int) 9, 'vvi' => (int) 2, 'han' => (int) 8, 'cav' => (int) 5, 'hma' => (int) 9, 'vpl' => (int) 4, 'sun' => (int) 2, 'lal' => (int) 9, 'lja' => (int) 5, 'lonja' => (int) 6, 'lsa' => (int) 3, 'mes' => (int) 8, 'mpo' => (int) 3, 'mbi' => (int) 4, 'mco' => (int) 3, 'mdo' => (int) 5, 'mtr' => (int) 7, 'cme' => (int) 6, 'egut' => (int) 7, 'ama' => (int) 3, 'nta' => (int) 12, 'nnu' => (int) 9, 'oeu' => (int) 4, 'osa' => (int) 7, 'pax' => (int) 9, 'pgr' => (int) 5, 'stu' => (int) 8, 'pvu' => (int) 6, 'ptr' => (int) 9, 'ppa' => (int) 9, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 7, 'pso' => (int) 10, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 3, 'sbr' => (int) 8, 'sbo' => (int) 5, 'sci' => (int) 5, 'sed' => (int) 4, 'sgi' => (int) 4, 'sas' => (int) 4, 'smo' => (int) 5, 'sly' => (int) 7, 'spe' => (int) 10, 'spa' => (int) 5, 'tar' => (int) 5, 'tha' => (int) 8, 'tca' => (int) 3, 'esa' => (int) 5, 'tpr' => (int) 6, 'twi' => (int) 6, 'ugi' => (int) 4, 'vma' => (int) 1, 'vmu' => (int) 7, 'zma' => (int) 10 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb421930' $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' => 'HOM05D001025', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '592', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p22650' => 'bna', 'A01p29720' => 'bna', 'A03p26560' => 'bna', 'A03p68820' => 'bna', 'A04p20980' => 'bna', 'A06p07730' => 'bna', 'A07p18260' => 'bna', 'A08p33710' => 'bna', 'A09p16970' => 'bna', 'A10p27490' => 'bna', 'Aa31LG1G17300' => 'aar', 'Aa31LG1G3910' => 'aar', 'Aa31LG2G9630' => 'aar', 'Aa31LG5G8360' => 'aar', 'Aa31LG9G2410' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4699' => 'aag', 'Actinidia23512' => 'ach', 'Actinidia37080' => 'ach', 'Ah.01g020380' => 'amhyb', 'Ah.08g215710' => 'amhyb', 'Ah.09g225110' => 'amhyb', 'Ah.10g036680' => 'amhyb', 'AL1G21940' => 'aly', 'AL2G15540' => 'aly', 'AL4G21520' => 'aly', 'AL7G40960' => 'aly', 'Aqoxy2G01191' => 'aox', 'Aqoxy2G03393' => 'aox', 'Aqoxy4G02775' => 'aox', 'Aqoxy6G00058' => 'aox', 'arahy.Tifrunner.gnm1.ann1.9X74H2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CW3FX9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R485W7' => 'arhy', 'AT1G10960' => 'ath', 'AT1G60950' => 'ath', 'AT2G27510' => 'ath', 'AT4G14890' => 'ath', 'AT5G10000' => 'ath', 'ATR0665G624' => 'atr', 'ATR0697G138' => 'atr', 'ATR0776G046' => 'atr', 'ATR1134G135' => 'atr', 'Atru.chr12.1025' => 'acertr', 'Atru.chr3.3241' => 'acertr', 'Atru.chr4.2460' => 'acertr', 'AUR62007427' => 'cqu', 'AUR62010960' => 'cqu', 'AUR62012201' => 'cqu', 'AUR62021470' => 'cqu', 'AUR62022834' => 'cqu', 'AUR62033635' => 'cqu', 'AUR62036186' => 'cqu', 'BcaB01g03077' => 'bca', 'BcaB02g10093' => 'bca', 'BcaB04g20295' => 'bca', 'BcaB06g28147' => 'bca', 'BcaB07g31253' => 'bca', 'BcaC01g04946' => 'bca', 'BcaC02g10614' => 'bca', 'BcaC02g10885' => 'bca', 'BcaC04g19356' => 'bca', 'BcaC04g22297' => 'bca', 'BcaC05g24977' => 'bca', 'BcaC06g31823' => 'bca', 'BcaC07g38633' => 'bca', 'BcaC09g49353' => 'bca', 'BcaC09g50168' => 'bca', 'BcaNung00322' => 'bca', 'BcaNung04769' => 'bca', 'BolC1t02753H' => 'bol', 'BolC1t03721H' => 'bol', 'BolC3t15525H' => 'bol', 'BolC4t23903H' => 'bol', 'BolC4t24231H' => 'bol', 'BolC4t27209H' => 'bol', 'BolC5t29671H' => 'bol', 'BolC8t49044H' => 'bol', 'BolC9t54999H' => 'bol', 'BolC9t59517H' => 'bol', 'BraA01t02178Z' => 'bra', 'BraA01t03099Z' => 'bra', 'BraA03t11867Z' => 'bra', 'BraA04t17667Z' => 'bra', 'BraA07t29542Z' => 'bra', 'BraA08t35287Z' => 'bra', 'BraA09t37334Z' => 'bra', 'BraA10t44801Z' => 'bra', 'BraSC39t46181Z' => 'bra', 'C01p28240' => 'bna', 'C01p37530' => 'bna', 'C03p31820' => 'bna', 'C04p24080' => 'bna', 'C04p25790' => 'bna', 'C04p56770' => 'bna', 'C05p09310' => 'bna', 'C09p21010' => 'bna', 'C09p67560' => 'bna', 'CAN.G1324.7' => 'can', 'CAN.G1358.10' => 'can', 'CAN.G1550.2' => 'can', 'CAN.G186.56' => 'can', 'CAN.G1965.1' => 'can', 'CAN.G645.15' => 'can', 'CAN.G798.26' => 'can', 'CAN.G798.27' => 'can', 'CAN.G798.29' => 'can', 'CAN.G919.31' => 'can', 'CANSAT11G0133' => 'cansat', 'CANSAT11G1171' => 'cansat', 'CANSAT11G2056' => 'cansat', 'CANSAT56G1202' => 'cansat', 'CANSAT56G1514' => 'cansat', 'CANSAT78G0455' => 'cansat', 'CARHR011190' => 'chi', 'CARHR051980' => 'chi', 'CARHR120170' => 'chi', 'CARHR203310' => 'chi', 'CARHR221490' => 'chi', 'Carub.0001s1054' => 'cru', 'Carub.0002s0431' => 'cru', 'Carub.0004s0818' => 'cru', 'Carub.0006s0846' => 'cru', 'Carub.0007s2722' => 'cru', 'Ca_00058_v3' => 'car', 'Ca_17831_v3' => 'car', 'Ca_19408_v3' => 'car', 'Ca_24397_v3' => 'car', 'Ca_25664_v3' => 'car', 'CBR_g21818' => 'cbr', 'CBR_g31195' => 'cbr', 'CBR_g32282' => 'cbr', 'CBR_g39599' => 'cbr', 'CBR_g49410' => 'cbr', 'Cc01_g09120' => 'ccan', 'Cc01_g09130' => 'ccan', 'Cc02_g09630' => 'ccan', 'Cc02_g22810' => 'ccan', 'Cc03_g03810' => 'ccan', 'CDE02G3718' => 'cde', 'CDE04G3183' => 'cde', 'CDE07G1046' => 'cde', 'CDE08G0480' => 'cde', 'Cfa005493' => 'cfa', 'Cfa010312' => 'cfa', 'Cfa015648' => 'cfa', 'Ciclev10002793m.g' => 'ccl', 'Ciclev10003356m.g' => 'ccl', 'Ciclev10006141m.g' => 'ccl', 'Ciclev10016676m.g' => 'ccl', 'Ciclev10017081m.g' => 'ccl', 'Ciclev10029499m.g' => 'ccl', 'CiPaw.01G166300' => 'cil', 'CiPaw.06G145600' => 'cil', 'CiPaw.13G040100' => 'cil', 'CiPaw.13G135800' => 'cil', 'ClCG01G012230' => 'cla', 'ClCG05G009510' => 'cla', 'ClCG08G008270' => 'cla', 'COL.COLO4_11763' => 'col', 'COL.COLO4_19876' => 'col', 'COL.COLO4_21481' => 'col', 'Cpa.g.sc118.34' => 'cpa', 'Cpa.g.sc32.13' => 'cpa', 'Cpa.g.sc58.103' => 'cpa', 'Cre03.g183850' => 'cre', 'Cre06.g306350' => 'cre', 'Cre07.g334800' => 'cre', 'Cre12.g487900' => 'cre', 'Cre14.g626700' => 'cre', 'Cre16.g658400' => 'cre', 'Cre17.g700950' => 'cre', 'CsaV3_1G014830' => 'csa', 'CsaV3_3G013320' => 'csa', 'CsaV3_3G019210' => 'csa', 'CsaV3_3G019220' => 'csa', 'CsaV3_6G004230' => 'csa', 'CSS0003773' => 'camsi', 'CSS0004563' => 'camsi', 'CSS0013949' => 'camsi', 'CSS0025971' => 'camsi', 'CSS0028570' => 'camsi', 'CSS0033127' => 'camsi', 'CSS0036051' => 'camsi', 'CSS0040087' => 'camsi', 'CSS0043179' => 'camsi', 'DCAR_006161' => 'dca', 'DCAR_010351' => 'dca', 'DCAR_012197' => 'dca', 'DCAR_024162' => 'dca', 'Dinv01030' => 'din', 'Dinv10924' => 'din', 'Dinv11835' => 'din', 'Dinv22841' => 'din', 'Dinv42553' => 'din', 'Duzib052G0560' => 'dzi', 'Duzib132G0389' => 'dzi', 'Duzib150G1181' => 'dzi', 'Duzib168G0623' => 'dzi', 'Duzib170G1036' => 'dzi', 'Duzib212G0200' => 'dzi', 'Duzib248G0194' => 'dzi', 'ECA232G2193' => 'eca', 'ECA233G0302' => 'eca', 'ECA234G2813' => 'eca', 'ECA234G4866' => 'eca', 'ECA240G3932' => 'eca', 'ECA248G0385' => 'eca', 'EL10Ac2g04781' => 'bvu', 'EL10Ac3g06445' => 'bvu', 'EL10Ac7g15825' => 'bvu', 'EL10Ac8g18550' => 'bvu', 'Eucgr.B03849' => 'egr', 'Eucgr.I02744' => 'egr', 'Eucgr.J00264' => 'egr', 'Eucgr.J00493' => 'egr', 'FAN04G2181' => 'fan', 'FAN07G2666' => 'fan', 'FAN11G0024' => 'fan', 'FAN12G1105' => 'fan', 'FAN13G0302' => 'fan', 'FAN15G2781' => 'fan', 'FAN16G1274' => 'fan', 'FAN17G2988' => 'fan', 'FAN18G2621' => 'fan', 'FAN21G0013' => 'fan', 'FAN22G1211' => 'fan', 'FAN25G3626' => 'fan', 'FvH4_2g09491' => 'fve', 'FvH4_3g24910' => 'fve', 'FvH4_4g15630' => 'fve', 'FvH4_5g28820' => 'fve', 'Glyma.01G238000' => 'gma', 'Glyma.05G168400' => 'gma', 'Glyma.08G126800' => 'gma', 'Glyma.08G188500' => 'gma', 'Glyma.10G278900' => 'gma', 'Glyma.11G005700' => 'gma', 'Glyma.11G183300' => 'gma', 'Glyma.12G089200' => 'gma', 'Glyma.12G169400' => 'gma', 'Glyma.12G169500' => 'gma', 'Glyma.12G169600' => 'gma', 'Glyma.20G110800' => 'gma', 'Gohir.A03G192900' => 'ghi', 'Gohir.A03G193000' => 'ghi', 'Gohir.A05G080700' => 'ghi', 'Gohir.A09G216000' => 'ghi', 'Gohir.A12G027700' => 'ghi', 'Gohir.A13G036200' => 'ghi', 'Gohir.A13G222600' => 'ghi', 'Gohir.D02G213900' => 'ghi', 'Gohir.D02G214000' => 'ghi', 'Gohir.D05G083700' => 'ghi', 'Gohir.D05G083800' => 'ghi', 'Gohir.D05G083850' => 'ghi', 'Gohir.D08G015400' => 'ghi', 'Gohir.D09G218400' => 'ghi', 'Gohir.D12G027100' => 'ghi', 'Gohir.D13G034500' => 'ghi', 'Gohir.D13G227400' => 'ghi', 'Gorai.005G241800' => 'gra', 'Gorai.005G241900' => 'gra', 'Gorai.006G239400' => 'gra', 'Gorai.008G027600' => 'gra', 'Gorai.009G085400' => 'gra', 'Gorai.009G085500' => 'gra', 'Gorai.013G039000' => 'gra', 'Gorai.013G194800' => 'gra', 'Gorai.013G257900' => 'gra', 'GSVIVG01000982001' => 'vvi', 'GSVIVG01017981001' => 'vvi', 'HanXRQChr01g0024061' => 'han', 'HanXRQChr09g0247831' => 'han', 'HanXRQChr10g0294611' => 'han', 'HanXRQChr10g0294621' => 'han', 'HanXRQChr11g0346821' => 'han', 'HanXRQChr13g0397461' => 'han', 'HanXRQChr16g0513651' => 'han', 'HanXRQChr16g0513701' => 'han', 'Haze_00897' => 'cav', 'Haze_01745' => 'cav', 'Haze_02486' => 'cav', 'Haze_02487' => 'cav', 'Haze_23374' => 'cav', 'Hma1.2p1_0578F.1_g182520' => 'hma', 'Hma1.2p1_0602F.1_g187350' => 'hma', 'Hma1.2p1_0602F.1_g187360' => 'hma', 'Hma1.2p1_0874F.1_g231320' => 'hma', 'Hma1.2p1_1197F.1_g266210' => 'hma', 'Hma1.2p1_1197F.1_g266220' => 'hma', 'Hma1.2p1_2167F.1_g315895' => 'hma', 'Hma1.2p1_2190F.1_g316640' => 'hma', 'Hma1.2p1_3645F.1_g337153' => 'hma', 'HPP92_004907' => 'vpl', 'HPP92_012134' => 'vpl', 'HPP92_025136' => 'vpl', 'HPP92_026087' => 'vpl', 'Hund06782' => 'sun', 'Hund06784' => 'sun', 'Lalb_Chr01g0004861' => 'lal', 'Lalb_Chr02g0140591' => 'lal', 'Lalb_Chr02g0140611' => 'lal', 'Lalb_Chr03g0028101' => 'lal', 'Lalb_Chr07g0185791' => 'lal', 'Lalb_Chr12g0204491' => 'lal', 'Lalb_Chr13g0295671' => 'lal', 'Lalb_Chr19g0136461' => 'lal', 'Lalb_Chr21g0309191' => 'lal', 'Lj1g0028158' => 'lja', 'Lj1P236T38' => 'lonja', 'Lj2C32G2' => 'lonja', 'Lj2P944T8' => 'lonja', 'Lj2P963T15' => 'lonja', 'Lj3g0011788' => 'lja', 'Lj4g0025027' => 'lja', 'Lj5P255T36' => 'lonja', 'Lj6g0018866' => 'lja', 'Lj6P608T31' => 'lonja', 'LjContig00408g0008879' => 'lja', 'Lsat_1_v5_gn_5_105820' => 'lsa', 'Lsat_1_v5_gn_6_38800' => 'lsa', 'Lsat_1_v5_gn_7_67141' => 'lsa', 'Manes.04G003400' => 'mes', 'Manes.07G020000' => 'mes', 'Manes.07G020100' => 'mes', 'Manes.07G020150' => 'mes', 'Manes.10G061500' => 'mes', 'Manes.10G123200' => 'mes', 'Manes.11G161900' => 'mes', 'Manes.15G029300' => 'mes', 'Mapoly0071s0018' => 'mpo', 'Mapoly0082s0023' => 'mpo', 'Mapoly3477s0001' => 'mpo', 'MBI05_g31233_MAGBIO' => 'mbi', 'MBI09_g05946_MAGBIO' => 'mbi', 'MBI09_g05947_MAGBIO' => 'mbi', 'MBI17_g08346_MAGBIO' => 'mbi', 'MCO04G038' => 'mco', 'MCO09G370' => 'mco', 'MCO13G605' => 'mco', 'MD00G1075500' => 'mdo', 'MD03G1144300' => 'mdo', 'MD08G1236800' => 'mdo', 'MD13G1193300' => 'mdo', 'MD15G1428700' => 'mdo', 'Medtr1g112030' => 'mtr', 'Medtr1g112050' => 'mtr', 'Medtr2g006290' => 'mtr', 'Medtr2g086510' => 'mtr', 'Medtr4g053120' => 'mtr', 'Medtr5g006320' => 'mtr', 'Medtr8g088720' => 'mtr', 'MELO3C004712.2' => 'cme', 'MELO3C006533.2' => 'cme', 'MELO3C019438.2' => 'cme', 'MELO3C019440.2' => 'cme', 'MELO3C019441.2' => 'cme', 'MELO3C019895.2' => 'cme', 'Migut.B00811' => 'egut', 'Migut.D02447' => 'egut', 'Migut.F00875' => 'egut', 'Migut.N00186' => 'egut', 'Migut.N01051' => 'egut', 'Migut.N02491' => 'egut', 'Migut.O00784' => 'egut', 'MSTRG.12367' => 'ama', 'MSTRG.18756' => 'ama', 'MSTRG.21042' => 'ama', 'Nitab4.5_0000559g0040' => 'nta', 'Nitab4.5_0000667g0190' => 'nta', 'Nitab4.5_0000755g0160' => 'nta', 'Nitab4.5_0001216g0080' => 'nta', 'Nitab4.5_0004069g0040' => 'nta', 'Nitab4.5_0004129g0010' => 'nta', 'Nitab4.5_0005744g0030' => 'nta', 'Nitab4.5_0006996g0030' => 'nta', 'Nitab4.5_0008971g0040' => 'nta', 'Nitab4.5_0009769g0020' => 'nta', 'Nitab4.5_0009833g0010' => 'nta', 'Nitab4.5_0013140g0020' => 'nta', 'Nn003s41376' => 'nnu', 'Nn1g01857' => 'nnu', 'Nn1g03611' => 'nnu', 'Nn1g06853' => 'nnu', 'Nn3g18360' => 'nnu', 'Nn4g26328' => 'nnu', 'Nn5g27531' => 'nnu', 'Nn6g34899' => 'nnu', 'Nn7g36299' => 'nnu', 'Oeu021485.1' => 'oeu', 'Oeu022433.1' => 'oeu', 'Oeu032111.1' => 'oeu', 'Oeu051608.1' => 'oeu', 'Os01g0860601' => 'osa', 'Os03g0659200' => 'osa', 'Os03g0835900' => 'osa', 'Os04g0412200' => 'osa', 'Os05g0443500' => 'osa', 'Os07g0251500' => 'osa', 'Os08g0104600' => 'osa', 'Peaxi162Scf00003g00047' => 'pax', 'Peaxi162Scf00003g00052' => 'pax', 'Peaxi162Scf00003g00394' => 'pax', 'Peaxi162Scf00091g00621' => 'pax', 'Peaxi162Scf00152g00146' => 'pax', 'Peaxi162Scf00173g00025' => 'pax', 'Peaxi162Scf00195g00102' => 'pax', 'Peaxi162Scf00402g00013' => 'pax', 'Peaxi162Scf00519g00618' => 'pax', 'PGR004G2838' => 'pgr', 'PGR044G2275' => 'pgr', 'PGR102G1377' => 'pgr', 'PGR119G1245' => 'pgr', 'PGR142G4449' => 'pgr', 'PGSC0003DMG400004532' => 'stu', 'PGSC0003DMG400011950' => 'stu', 'PGSC0003DMG400023391' => 'stu', 'PGSC0003DMG400023985' => 'stu', 'PGSC0003DMG400026360' => 'stu', 'PGSC0003DMG400035711' => 'stu', 'PGSC0003DMG400037286' => 'stu', 'PGSC0003DMG402005881' => 'stu', 'Phvul.002G045400' => 'pvu', 'Phvul.006G216600' => 'pvu', 'Phvul.006G216700' => 'pvu', 'Phvul.006G216800' => 'pvu', 'Phvul.007G022500' => 'pvu', 'Phvul.011G094400' => 'pvu', 'Potri.001G470700' => 'ptr', 'Potri.003G015200' => 'ptr', 'Potri.004G202500' => 'ptr', 'Potri.004G218400' => 'ptr', 'Potri.008G020100' => 'ptr', 'Potri.008G153200' => 'ptr', 'Potri.009G163800' => 'ptr', 'Potri.010G087300' => 'ptr', 'Potri.010G239100' => 'ptr', 'Pp3c10_16100' => 'ppa', 'Pp3c10_16880' => 'ppa', 'Pp3c16_6230' => 'ppa', 'Pp3c17_18910' => 'ppa', 'Pp3c3_22119' => 'ppa', 'Pp3c3_22140' => 'ppa', 'Pp3c4_8159' => 'ppa', 'Pp3c4_8171' => 'ppa', 'Pp3c4_8330' => 'ppa', 'PRCOL_00004098' => 'pco', 'Prupe.1G013900' => 'ppe', 'Prupe.1G226300' => 'ppe', 'Prupe.1G573600' => 'ppe', 'Prupe.6G130100' => 'ppe', 'Psat3g090040' => 'psa', 'Psat4g210440' => 'psa', 'Psat6g231040' => 'psa', 'Psat6g231080' => 'psa', 'Psat7g063000' => 'psa', 'Psat7g188000' => 'psa', 'Psat7g188040' => 'psa', 'PSO017G0206' => 'pso', 'PSO170G0501' => 'pso', 'PSO170G6422' => 'pso', 'PSO210G7739' => 'pso', 'PSO339G1808' => 'pso', 'PSO339G6135' => 'pso', 'PSO384G0010' => 'pso', 'PSO384G0964' => 'pso', 'PSO761G0050' => 'pso', 'PSO782G4085' => 'pso', 'QL01p012264' => 'qlo', 'QL02p099491' => 'qlo', 'QL03p033868' => 'qlo', 'QL04p046678' => 'qlo', 'QL06p002448' => 'qlo', 'RcHm_v2.0_Chr4g0416181' => 'rch', 'RcHm_v2.0_Chr5g0044701' => 'rch', 'RcHm_v2.0_Chr6g0265781' => 'rch', 'RcHm_v2.0_Chr7g0221031' => 'rch', 'Rhsim04G0202000' => 'rsi', 'Rhsim11G0127300' => 'rsi', 'Rhsim13G0111800' => 'rsi', 'Sabra01G0165600' => 'sbr', 'Sabra03G0008300' => 'sbr', 'Sabra04G0136900' => 'sbr', 'Sabra08G0013400' => 'sbr', 'Sabra08G0116800' => 'sbr', 'Sabra09G0128000' => 'sbr', 'Sabra10G0055500' => 'sbr', 'Sabra10G0073300' => 'sbr', 'SalBow3G0385' => 'sbo', 'SalBow3G1119' => 'sbo', 'SalBow3G2005' => 'sbo', 'SalBow6G2563' => 'sbo', 'SalBow6G6386' => 'sbo', 'Sc06g0008800' => 'sci', 'Sc07g0004950' => 'sci', 'Sc09g0005340' => 'sci', 'Sc13g0004410' => 'sci', 'Sc21g0007090' => 'sci', 'Sed0009285' => 'sed', 'Sed0017583' => 'sed', 'Sed0019699' => 'sed', 'Sed0023107' => 'sed', 'SEGI_10916' => 'sgi', 'SEGI_16217' => 'sgi', 'SEGI_19466' => 'sgi', 'SEGI_41115' => 'sgi', 'SGA_v2.0_scaffold111G31534' => 'sas', 'SGA_v2.0_scaffold22G09864' => 'sas', 'SGA_v2.0_scaffold338G49219' => 'sas', 'SGA_v2.0_scaffold92G28298' => 'sas', 'SMO119G0064' => 'smo', 'SMO223G0038' => 'smo', 'SMO347G0584' => 'smo', 'SMO351G0010' => 'smo', 'SMO356G0404' => 'smo', 'Solyc01g103920.3' => 'sly', 'Solyc04g009710.2' => 'sly', 'Solyc05g055280.2' => 'sly', 'Solyc10g044520.3' => 'sly', 'Solyc10g075160.1' => 'sly', 'Solyc11g006910.3' => 'sly', 'Solyc11g068430.3' => 'sly', 'Sopen01g046310' => 'spe', 'Sopen03g001200' => 'spe', 'Sopen04g004830' => 'spe', 'Sopen05g033720' => 'spe', 'Sopen06g030740' => 'spe', 'Sopen10g013090' => 'spe', 'Sopen10g027630' => 'spe', 'Sopen10g027640' => 'spe', 'Sopen11g002820' => 'spe', 'Sopen11g027140' => 'spe', 'Sp1g09680' => 'spa', 'Sp2g03630' => 'spa', 'Sp4g10320' => 'spa', 'Sp6g33400' => 'spa', 'Sp7g13030' => 'spa', 'TAR365G0317' => 'tar', 'TAR376G0979' => 'tar', 'TAR623G1665' => 'tar', 'TAR633G2373' => 'tar', 'TAR636G1400' => 'tar', 'THA.LOC104800529' => 'tha', 'THA.LOC104808547' => 'tha', 'THA.LOC104809615' => 'tha', 'THA.LOC104815724' => 'tha', 'THA.LOC104818480' => 'tha', 'THA.LOC104819179' => 'tha', 'THA.LOC104822270' => 'tha', 'THA.LOC104826425' => 'tha', 'Thecc.02G089700' => 'tca', 'Thecc.04G232300' => 'tca', 'Thecc.09G283400' => 'tca', 'Thhalv10009020m.g' => 'esa', 'Thhalv10015506m.g' => 'esa', 'Thhalv10017364m.g' => 'esa', 'Thhalv10023742m.g' => 'esa', 'Thhalv10026483m.g' => 'esa', 'TPR.G17232' => 'tpr', 'TPR.G2133' => 'tpr', 'TPR.G2498' => 'tpr', 'TPR.G31942' => 'tpr', 'TPR.G37877' => 'tpr', 'TPR.G4571' => 'tpr', 'TWI14G1113' => 'twi', 'TWI15G0426' => 'twi', 'TWI31G1005' => 'twi', 'TWI38G0513' => 'twi', 'TWI38G1484' => 'twi', 'TWI73G1098' => 'twi', 'unitig_26.g10519' => 'ugi', 'unitig_736.g22395' => 'ugi', 'unitig_747.g21234' => 'ugi', 'unitig_747.g21942' => 'ugi', 'vmacro14351' => 'vma', 'VMungo0540G0082' => 'vmu', 'VMungo0540G0405' => 'vmu', 'VMungo0540G1486' => 'vmu', 'VMungo0540G1692' => 'vmu', 'VMungo0720G2473' => 'vmu', 'VMungo1127G1562' => 'vmu', 'VMungo1215G1918' => 'vmu', 'Zm00001eb052650' => 'zma', 'Zm00001eb063710' => 'zma', 'Zm00001eb083950' => 'zma', 'Zm00001eb174420' => 'zma', 'Zm00001eb260140' => 'zma', 'Zm00001eb260150' => 'zma', 'Zm00001eb260160' => 'zma', 'Zm00001eb348290' => 'zma', 'Zm00001eb366870' => 'zma', 'Zm00001eb421930' => 'zma' ), 'gf_id' => 'HOM05D001025', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001025' ), 'data_identifier' => 'HOM05D001025', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001025', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '592', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p22650' => 'bna', 'A01p29720' => 'bna', 'A03p26560' => 'bna', 'A03p68820' => 'bna', 'A04p20980' => 'bna', 'A06p07730' => 'bna', 'A07p18260' => 'bna', 'A08p33710' => 'bna', 'A09p16970' => 'bna', 'A10p27490' => 'bna', 'Aa31LG1G17300' => 'aar', 'Aa31LG1G3910' => 'aar', 'Aa31LG2G9630' => 'aar', 'Aa31LG5G8360' => 'aar', 'Aa31LG9G2410' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4699' => 'aag', 'Actinidia23512' => 'ach', 'Actinidia37080' => 'ach', 'Ah.01g020380' => 'amhyb', 'Ah.08g215710' => 'amhyb', 'Ah.09g225110' => 'amhyb', 'Ah.10g036680' => 'amhyb', 'AL1G21940' => 'aly', 'AL2G15540' => 'aly', 'AL4G21520' => 'aly', 'AL7G40960' => 'aly', 'Aqoxy2G01191' => 'aox', 'Aqoxy2G03393' => 'aox', 'Aqoxy4G02775' => 'aox', 'Aqoxy6G00058' => 'aox', 'arahy.Tifrunner.gnm1.ann1.9X74H2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CW3FX9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R485W7' => 'arhy', 'AT1G10960' => 'ath', 'AT1G60950' => 'ath', 'AT2G27510' => 'ath', 'AT4G14890' => 'ath', 'AT5G10000' => 'ath', 'ATR0665G624' => 'atr', 'ATR0697G138' => 'atr', 'ATR0776G046' => 'atr', 'ATR1134G135' => 'atr', 'Atru.chr12.1025' => 'acertr', 'Atru.chr3.3241' => 'acertr', 'Atru.chr4.2460' => 'acertr', 'AUR62007427' => 'cqu', 'AUR62010960' => 'cqu', 'AUR62012201' => 'cqu', 'AUR62021470' => 'cqu', 'AUR62022834' => 'cqu', 'AUR62033635' => 'cqu', 'AUR62036186' => 'cqu', 'BcaB01g03077' => 'bca', 'BcaB02g10093' => 'bca', 'BcaB04g20295' => 'bca', 'BcaB06g28147' => 'bca', 'BcaB07g31253' => 'bca', 'BcaC01g04946' => 'bca', 'BcaC02g10614' => 'bca', 'BcaC02g10885' => 'bca', 'BcaC04g19356' => 'bca', 'BcaC04g22297' => 'bca', 'BcaC05g24977' => 'bca', 'BcaC06g31823' => 'bca', 'BcaC07g38633' => 'bca', 'BcaC09g49353' => 'bca', 'BcaC09g50168' => 'bca', 'BcaNung00322' => 'bca', 'BcaNung04769' => 'bca', 'BolC1t02753H' => 'bol', 'BolC1t03721H' => 'bol', 'BolC3t15525H' => 'bol', 'BolC4t23903H' => 'bol', 'BolC4t24231H' => 'bol', 'BolC4t27209H' => 'bol', 'BolC5t29671H' => 'bol', 'BolC8t49044H' => 'bol', 'BolC9t54999H' => 'bol', 'BolC9t59517H' => 'bol', 'BraA01t02178Z' => 'bra', 'BraA01t03099Z' => 'bra', 'BraA03t11867Z' => 'bra', 'BraA04t17667Z' => 'bra', 'BraA07t29542Z' => 'bra', 'BraA08t35287Z' => 'bra', 'BraA09t37334Z' => 'bra', 'BraA10t44801Z' => 'bra', 'BraSC39t46181Z' => 'bra', 'C01p28240' => 'bna', 'C01p37530' => 'bna', 'C03p31820' => 'bna', 'C04p24080' => 'bna', 'C04p25790' => 'bna', 'C04p56770' => 'bna', 'C05p09310' => 'bna', 'C09p21010' => 'bna', 'C09p67560' => 'bna', 'CAN.G1324.7' => 'can', 'CAN.G1358.10' => 'can', 'CAN.G1550.2' => 'can', 'CAN.G186.56' => 'can', 'CAN.G1965.1' => 'can', 'CAN.G645.15' => 'can', 'CAN.G798.26' => 'can', 'CAN.G798.27' => 'can', 'CAN.G798.29' => 'can', 'CAN.G919.31' => 'can', 'CANSAT11G0133' => 'cansat', 'CANSAT11G1171' => 'cansat', 'CANSAT11G2056' => 'cansat', 'CANSAT56G1202' => 'cansat', 'CANSAT56G1514' => 'cansat', 'CANSAT78G0455' => 'cansat', 'CARHR011190' => 'chi', 'CARHR051980' => 'chi', 'CARHR120170' => 'chi', 'CARHR203310' => 'chi', 'CARHR221490' => 'chi', 'Carub.0001s1054' => 'cru', 'Carub.0002s0431' => 'cru', 'Carub.0004s0818' => 'cru', 'Carub.0006s0846' => 'cru', 'Carub.0007s2722' => 'cru', 'Ca_00058_v3' => 'car', 'Ca_17831_v3' => 'car', 'Ca_19408_v3' => 'car', 'Ca_24397_v3' => 'car', 'Ca_25664_v3' => 'car', 'CBR_g21818' => 'cbr', 'CBR_g31195' => 'cbr', 'CBR_g32282' => 'cbr', 'CBR_g39599' => 'cbr', 'CBR_g49410' => 'cbr', 'Cc01_g09120' => 'ccan', 'Cc01_g09130' => 'ccan', 'Cc02_g09630' => 'ccan', 'Cc02_g22810' => 'ccan', 'Cc03_g03810' => 'ccan', 'CDE02G3718' => 'cde', 'CDE04G3183' => 'cde', 'CDE07G1046' => 'cde', 'CDE08G0480' => 'cde', 'Cfa005493' => 'cfa', 'Cfa010312' => 'cfa', 'Cfa015648' => 'cfa', 'Ciclev10002793m.g' => 'ccl', 'Ciclev10003356m.g' => 'ccl', 'Ciclev10006141m.g' => 'ccl', 'Ciclev10016676m.g' => 'ccl', 'Ciclev10017081m.g' => 'ccl', 'Ciclev10029499m.g' => 'ccl', 'CiPaw.01G166300' => 'cil', 'CiPaw.06G145600' => 'cil', 'CiPaw.13G040100' => 'cil', 'CiPaw.13G135800' => 'cil', 'ClCG01G012230' => 'cla', 'ClCG05G009510' => 'cla', 'ClCG08G008270' => 'cla', 'COL.COLO4_11763' => 'col', 'COL.COLO4_19876' => 'col', 'COL.COLO4_21481' => 'col', 'Cpa.g.sc118.34' => 'cpa', 'Cpa.g.sc32.13' => 'cpa', 'Cpa.g.sc58.103' => 'cpa', 'Cre03.g183850' => 'cre', 'Cre06.g306350' => 'cre', 'Cre07.g334800' => 'cre', 'Cre12.g487900' => 'cre', 'Cre14.g626700' => 'cre', 'Cre16.g658400' => 'cre', 'Cre17.g700950' => 'cre', 'CsaV3_1G014830' => 'csa', 'CsaV3_3G013320' => 'csa', 'CsaV3_3G019210' => 'csa', 'CsaV3_3G019220' => 'csa', 'CsaV3_6G004230' => 'csa', 'CSS0003773' => 'camsi', 'CSS0004563' => 'camsi', 'CSS0013949' => 'camsi', 'CSS0025971' => 'camsi', 'CSS0028570' => 'camsi', 'CSS0033127' => 'camsi', 'CSS0036051' => 'camsi', 'CSS0040087' => 'camsi', 'CSS0043179' => 'camsi', 'DCAR_006161' => 'dca', 'DCAR_010351' => 'dca', 'DCAR_012197' => 'dca', 'DCAR_024162' => 'dca', 'Dinv01030' => 'din', 'Dinv10924' => 'din', 'Dinv11835' => 'din', 'Dinv22841' => 'din', 'Dinv42553' => 'din', 'Duzib052G0560' => 'dzi', 'Duzib132G0389' => 'dzi', 'Duzib150G1181' => 'dzi', 'Duzib168G0623' => 'dzi', 'Duzib170G1036' => 'dzi', 'Duzib212G0200' => 'dzi', 'Duzib248G0194' => 'dzi', 'ECA232G2193' => 'eca', 'ECA233G0302' => 'eca', 'ECA234G2813' => 'eca', 'ECA234G4866' => 'eca', 'ECA240G3932' => 'eca', 'ECA248G0385' => 'eca', 'EL10Ac2g04781' => 'bvu', 'EL10Ac3g06445' => 'bvu', 'EL10Ac7g15825' => 'bvu', 'EL10Ac8g18550' => 'bvu', 'Eucgr.B03849' => 'egr', 'Eucgr.I02744' => 'egr', 'Eucgr.J00264' => 'egr', 'Eucgr.J00493' => 'egr', 'FAN04G2181' => 'fan', 'FAN07G2666' => 'fan', 'FAN11G0024' => 'fan', 'FAN12G1105' => 'fan', 'FAN13G0302' => 'fan', 'FAN15G2781' => 'fan', 'FAN16G1274' => 'fan', 'FAN17G2988' => 'fan', 'FAN18G2621' => 'fan', 'FAN21G0013' => 'fan', 'FAN22G1211' => 'fan', 'FAN25G3626' => 'fan', 'FvH4_2g09491' => 'fve', 'FvH4_3g24910' => 'fve', 'FvH4_4g15630' => 'fve', 'FvH4_5g28820' => 'fve', 'Glyma.01G238000' => 'gma', 'Glyma.05G168400' => 'gma', 'Glyma.08G126800' => 'gma', 'Glyma.08G188500' => 'gma', 'Glyma.10G278900' => 'gma', 'Glyma.11G005700' => 'gma', 'Glyma.11G183300' => 'gma', 'Glyma.12G089200' => 'gma', 'Glyma.12G169400' => 'gma', 'Glyma.12G169500' => 'gma', 'Glyma.12G169600' => 'gma', 'Glyma.20G110800' => 'gma', 'Gohir.A03G192900' => 'ghi', 'Gohir.A03G193000' => 'ghi', 'Gohir.A05G080700' => 'ghi', 'Gohir.A09G216000' => 'ghi', 'Gohir.A12G027700' => 'ghi', 'Gohir.A13G036200' => 'ghi', 'Gohir.A13G222600' => 'ghi', 'Gohir.D02G213900' => 'ghi', 'Gohir.D02G214000' => 'ghi', 'Gohir.D05G083700' => 'ghi', 'Gohir.D05G083800' => 'ghi', 'Gohir.D05G083850' => 'ghi', 'Gohir.D08G015400' => 'ghi', 'Gohir.D09G218400' => 'ghi', 'Gohir.D12G027100' => 'ghi', 'Gohir.D13G034500' => 'ghi', 'Gohir.D13G227400' => 'ghi', 'Gorai.005G241800' => 'gra', 'Gorai.005G241900' => 'gra', 'Gorai.006G239400' => 'gra', 'Gorai.008G027600' => 'gra', 'Gorai.009G085400' => 'gra', 'Gorai.009G085500' => 'gra', 'Gorai.013G039000' => 'gra', 'Gorai.013G194800' => 'gra', 'Gorai.013G257900' => 'gra', 'GSVIVG01000982001' => 'vvi', 'GSVIVG01017981001' => 'vvi', 'HanXRQChr01g0024061' => 'han', 'HanXRQChr09g0247831' => 'han', 'HanXRQChr10g0294611' => 'han', 'HanXRQChr10g0294621' => 'han', 'HanXRQChr11g0346821' => 'han', 'HanXRQChr13g0397461' => 'han', 'HanXRQChr16g0513651' => 'han', 'HanXRQChr16g0513701' => 'han', 'Haze_00897' => 'cav', 'Haze_01745' => 'cav', 'Haze_02486' => 'cav', 'Haze_02487' => 'cav', 'Haze_23374' => 'cav', 'Hma1.2p1_0578F.1_g182520' => 'hma', 'Hma1.2p1_0602F.1_g187350' => 'hma', 'Hma1.2p1_0602F.1_g187360' => 'hma', 'Hma1.2p1_0874F.1_g231320' => 'hma', 'Hma1.2p1_1197F.1_g266210' => 'hma', 'Hma1.2p1_1197F.1_g266220' => 'hma', 'Hma1.2p1_2167F.1_g315895' => 'hma', 'Hma1.2p1_2190F.1_g316640' => 'hma', 'Hma1.2p1_3645F.1_g337153' => 'hma', 'HPP92_004907' => 'vpl', 'HPP92_012134' => 'vpl', 'HPP92_025136' => 'vpl', 'HPP92_026087' => 'vpl', 'Hund06782' => 'sun', 'Hund06784' => 'sun', 'Lalb_Chr01g0004861' => 'lal', 'Lalb_Chr02g0140591' => 'lal', 'Lalb_Chr02g0140611' => 'lal', 'Lalb_Chr03g0028101' => 'lal', 'Lalb_Chr07g0185791' => 'lal', 'Lalb_Chr12g0204491' => 'lal', 'Lalb_Chr13g0295671' => 'lal', 'Lalb_Chr19g0136461' => 'lal', 'Lalb_Chr21g0309191' => 'lal', 'Lj1g0028158' => 'lja', 'Lj1P236T38' => 'lonja', 'Lj2C32G2' => 'lonja', 'Lj2P944T8' => 'lonja', 'Lj2P963T15' => 'lonja', 'Lj3g0011788' => 'lja', 'Lj4g0025027' => 'lja', 'Lj5P255T36' => 'lonja', 'Lj6g0018866' => 'lja', 'Lj6P608T31' => 'lonja', 'LjContig00408g0008879' => 'lja', 'Lsat_1_v5_gn_5_105820' => 'lsa', 'Lsat_1_v5_gn_6_38800' => 'lsa', 'Lsat_1_v5_gn_7_67141' => 'lsa', 'Manes.04G003400' => 'mes', 'Manes.07G020000' => 'mes', 'Manes.07G020100' => 'mes', 'Manes.07G020150' => 'mes', 'Manes.10G061500' => 'mes', 'Manes.10G123200' => 'mes', 'Manes.11G161900' => 'mes', 'Manes.15G029300' => 'mes', 'Mapoly0071s0018' => 'mpo', 'Mapoly0082s0023' => 'mpo', 'Mapoly3477s0001' => 'mpo', 'MBI05_g31233_MAGBIO' => 'mbi', 'MBI09_g05946_MAGBIO' => 'mbi', 'MBI09_g05947_MAGBIO' => 'mbi', 'MBI17_g08346_MAGBIO' => 'mbi', 'MCO04G038' => 'mco', 'MCO09G370' => 'mco', 'MCO13G605' => 'mco', 'MD00G1075500' => 'mdo', 'MD03G1144300' => 'mdo', 'MD08G1236800' => 'mdo', 'MD13G1193300' => 'mdo', 'MD15G1428700' => 'mdo', 'Medtr1g112030' => 'mtr', 'Medtr1g112050' => 'mtr', 'Medtr2g006290' => 'mtr', 'Medtr2g086510' => 'mtr', 'Medtr4g053120' => 'mtr', 'Medtr5g006320' => 'mtr', 'Medtr8g088720' => 'mtr', 'MELO3C004712.2' => 'cme', 'MELO3C006533.2' => 'cme', 'MELO3C019438.2' => 'cme', 'MELO3C019440.2' => 'cme', 'MELO3C019441.2' => 'cme', 'MELO3C019895.2' => 'cme', 'Migut.B00811' => 'egut', 'Migut.D02447' => 'egut', 'Migut.F00875' => 'egut', 'Migut.N00186' => 'egut', 'Migut.N01051' => 'egut', 'Migut.N02491' => 'egut', 'Migut.O00784' => 'egut', 'MSTRG.12367' => 'ama', 'MSTRG.18756' => 'ama', 'MSTRG.21042' => 'ama', 'Nitab4.5_0000559g0040' => 'nta', 'Nitab4.5_0000667g0190' => 'nta', 'Nitab4.5_0000755g0160' => 'nta', 'Nitab4.5_0001216g0080' => 'nta', 'Nitab4.5_0004069g0040' => 'nta', 'Nitab4.5_0004129g0010' => 'nta', 'Nitab4.5_0005744g0030' => 'nta', 'Nitab4.5_0006996g0030' => 'nta', 'Nitab4.5_0008971g0040' => 'nta', 'Nitab4.5_0009769g0020' => 'nta', 'Nitab4.5_0009833g0010' => 'nta', 'Nitab4.5_0013140g0020' => 'nta', 'Nn003s41376' => 'nnu', 'Nn1g01857' => 'nnu', 'Nn1g03611' => 'nnu', 'Nn1g06853' => 'nnu', 'Nn3g18360' => 'nnu', 'Nn4g26328' => 'nnu', 'Nn5g27531' => 'nnu', 'Nn6g34899' => 'nnu', 'Nn7g36299' => 'nnu', 'Oeu021485.1' => 'oeu', 'Oeu022433.1' => 'oeu', 'Oeu032111.1' => 'oeu', 'Oeu051608.1' => 'oeu', 'Os01g0860601' => 'osa', 'Os03g0659200' => 'osa', 'Os03g0835900' => 'osa', 'Os04g0412200' => 'osa', 'Os05g0443500' => 'osa', 'Os07g0251500' => 'osa', 'Os08g0104600' => 'osa', 'Peaxi162Scf00003g00047' => 'pax', 'Peaxi162Scf00003g00052' => 'pax', 'Peaxi162Scf00003g00394' => 'pax', 'Peaxi162Scf00091g00621' => 'pax', 'Peaxi162Scf00152g00146' => 'pax', 'Peaxi162Scf00173g00025' => 'pax', 'Peaxi162Scf00195g00102' => 'pax', 'Peaxi162Scf00402g00013' => 'pax', 'Peaxi162Scf00519g00618' => 'pax', 'PGR004G2838' => 'pgr', 'PGR044G2275' => 'pgr', 'PGR102G1377' => 'pgr', 'PGR119G1245' => 'pgr', 'PGR142G4449' => 'pgr', 'PGSC0003DMG400004532' => 'stu', 'PGSC0003DMG400011950' => 'stu', 'PGSC0003DMG400023391' => 'stu', 'PGSC0003DMG400023985' => 'stu', 'PGSC0003DMG400026360' => 'stu', 'PGSC0003DMG400035711' => 'stu', 'PGSC0003DMG400037286' => 'stu', 'PGSC0003DMG402005881' => 'stu', 'Phvul.002G045400' => 'pvu', 'Phvul.006G216600' => 'pvu', 'Phvul.006G216700' => 'pvu', 'Phvul.006G216800' => 'pvu', 'Phvul.007G022500' => 'pvu', 'Phvul.011G094400' => 'pvu', 'Potri.001G470700' => 'ptr', 'Potri.003G015200' => 'ptr', 'Potri.004G202500' => 'ptr', 'Potri.004G218400' => 'ptr', 'Potri.008G020100' => 'ptr', 'Potri.008G153200' => 'ptr', 'Potri.009G163800' => 'ptr', 'Potri.010G087300' => 'ptr', 'Potri.010G239100' => 'ptr', 'Pp3c10_16100' => 'ppa', 'Pp3c10_16880' => 'ppa', 'Pp3c16_6230' => 'ppa', 'Pp3c17_18910' => 'ppa', 'Pp3c3_22119' => 'ppa', 'Pp3c3_22140' => 'ppa', 'Pp3c4_8159' => 'ppa', 'Pp3c4_8171' => 'ppa', 'Pp3c4_8330' => 'ppa', 'PRCOL_00004098' => 'pco', 'Prupe.1G013900' => 'ppe', 'Prupe.1G226300' => 'ppe', 'Prupe.1G573600' => 'ppe', 'Prupe.6G130100' => 'ppe', 'Psat3g090040' => 'psa', 'Psat4g210440' => 'psa', 'Psat6g231040' => 'psa', 'Psat6g231080' => 'psa', 'Psat7g063000' => 'psa', 'Psat7g188000' => 'psa', 'Psat7g188040' => 'psa', 'PSO017G0206' => 'pso', 'PSO170G0501' => 'pso', 'PSO170G6422' => 'pso', 'PSO210G7739' => 'pso', 'PSO339G1808' => 'pso', 'PSO339G6135' => 'pso', 'PSO384G0010' => 'pso', 'PSO384G0964' => 'pso', 'PSO761G0050' => 'pso', 'PSO782G4085' => 'pso', 'QL01p012264' => 'qlo', 'QL02p099491' => 'qlo', 'QL03p033868' => 'qlo', 'QL04p046678' => 'qlo', 'QL06p002448' => 'qlo', 'RcHm_v2.0_Chr4g0416181' => 'rch', 'RcHm_v2.0_Chr5g0044701' => 'rch', 'RcHm_v2.0_Chr6g0265781' => 'rch', 'RcHm_v2.0_Chr7g0221031' => 'rch', 'Rhsim04G0202000' => 'rsi', 'Rhsim11G0127300' => 'rsi', 'Rhsim13G0111800' => 'rsi', 'Sabra01G0165600' => 'sbr', 'Sabra03G0008300' => 'sbr', 'Sabra04G0136900' => 'sbr', 'Sabra08G0013400' => 'sbr', 'Sabra08G0116800' => 'sbr', 'Sabra09G0128000' => 'sbr', 'Sabra10G0055500' => 'sbr', 'Sabra10G0073300' => 'sbr', 'SalBow3G0385' => 'sbo', 'SalBow3G1119' => 'sbo', 'SalBow3G2005' => 'sbo', 'SalBow6G2563' => 'sbo', 'SalBow6G6386' => 'sbo', 'Sc06g0008800' => 'sci', 'Sc07g0004950' => 'sci', 'Sc09g0005340' => 'sci', 'Sc13g0004410' => 'sci', 'Sc21g0007090' => 'sci', 'Sed0009285' => 'sed', 'Sed0017583' => 'sed', 'Sed0019699' => 'sed', 'Sed0023107' => 'sed', 'SEGI_10916' => 'sgi', 'SEGI_16217' => 'sgi', 'SEGI_19466' => 'sgi', 'SEGI_41115' => 'sgi', 'SGA_v2.0_scaffold111G31534' => 'sas', 'SGA_v2.0_scaffold22G09864' => 'sas', 'SGA_v2.0_scaffold338G49219' => 'sas', 'SGA_v2.0_scaffold92G28298' => 'sas', 'SMO119G0064' => 'smo', 'SMO223G0038' => 'smo', 'SMO347G0584' => 'smo', 'SMO351G0010' => 'smo', 'SMO356G0404' => 'smo', 'Solyc01g103920.3' => 'sly', 'Solyc04g009710.2' => 'sly', 'Solyc05g055280.2' => 'sly', 'Solyc10g044520.3' => 'sly', 'Solyc10g075160.1' => 'sly', 'Solyc11g006910.3' => 'sly', 'Solyc11g068430.3' => 'sly', 'Sopen01g046310' => 'spe', 'Sopen03g001200' => 'spe', 'Sopen04g004830' => 'spe', 'Sopen05g033720' => 'spe', 'Sopen06g030740' => 'spe', 'Sopen10g013090' => 'spe', 'Sopen10g027630' => 'spe', 'Sopen10g027640' => 'spe', 'Sopen11g002820' => 'spe', 'Sopen11g027140' => 'spe', 'Sp1g09680' => 'spa', 'Sp2g03630' => 'spa', 'Sp4g10320' => 'spa', 'Sp6g33400' => 'spa', 'Sp7g13030' => 'spa', 'TAR365G0317' => 'tar', 'TAR376G0979' => 'tar', 'TAR623G1665' => 'tar', 'TAR633G2373' => 'tar', 'TAR636G1400' => 'tar', 'THA.LOC104800529' => 'tha', 'THA.LOC104808547' => 'tha', 'THA.LOC104809615' => 'tha', 'THA.LOC104815724' => 'tha', 'THA.LOC104818480' => 'tha', 'THA.LOC104819179' => 'tha', 'THA.LOC104822270' => 'tha', 'THA.LOC104826425' => 'tha', 'Thecc.02G089700' => 'tca', 'Thecc.04G232300' => 'tca', 'Thecc.09G283400' => 'tca', 'Thhalv10009020m.g' => 'esa', 'Thhalv10015506m.g' => 'esa', 'Thhalv10017364m.g' => 'esa', 'Thhalv10023742m.g' => 'esa', 'Thhalv10026483m.g' => 'esa', 'TPR.G17232' => 'tpr', 'TPR.G2133' => 'tpr', 'TPR.G2498' => 'tpr', 'TPR.G31942' => 'tpr', 'TPR.G37877' => 'tpr', 'TPR.G4571' => 'tpr', 'TWI14G1113' => 'twi', 'TWI15G0426' => 'twi', 'TWI31G1005' => 'twi', 'TWI38G0513' => 'twi', 'TWI38G1484' => 'twi', 'TWI73G1098' => 'twi', 'unitig_26.g10519' => 'ugi', 'unitig_736.g22395' => 'ugi', 'unitig_747.g21234' => 'ugi', 'unitig_747.g21942' => 'ugi', 'vmacro14351' => 'vma', 'VMungo0540G0082' => 'vmu', 'VMungo0540G0405' => 'vmu', 'VMungo0540G1486' => 'vmu', 'VMungo0540G1692' => 'vmu', 'VMungo0720G2473' => 'vmu', 'VMungo1127G1562' => 'vmu', 'VMungo1215G1918' => 'vmu', 'Zm00001eb052650' => 'zma', 'Zm00001eb063710' => 'zma', 'Zm00001eb083950' => 'zma', 'Zm00001eb174420' => 'zma', 'Zm00001eb260140' => 'zma', 'Zm00001eb260150' => 'zma', 'Zm00001eb260160' => 'zma', 'Zm00001eb348290' => 'zma', 'Zm00001eb366870' => 'zma', 'Zm00001eb421930' => 'zma' ) $gf_id = 'HOM05D001025' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001025' ) $data_identifier = 'HOM05D001025' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 19, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 2, 'amhyb' => (int) 4, 'aly' => (int) 4, 'aox' => (int) 4, 'arhy' => (int) 3, 'ath' => (int) 5, 'atr' => (int) 4, 'acertr' => (int) 3, 'cqu' => (int) 7, 'bca' => (int) 17, 'bol' => (int) 10, 'bra' => (int) 9, 'can' => (int) 10, 'cansat' => (int) 6, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 5, 'cbr' => (int) 5, 'ccan' => (int) 5, 'cde' => (int) 4, 'cfa' => (int) 3, 'ccl' => (int) 6, 'cil' => (int) 4, 'cla' => (int) 3, 'col' => (int) 3, 'cpa' => (int) 3, 'cre' => (int) 7, 'csa' => (int) 5, 'camsi' => (int) 9, 'dca' => (int) 4, 'din' => (int) 5, 'dzi' => (int) 7, 'eca' => (int) 6, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 12, 'fve' => (int) 4, 'gma' => (int) 12, 'ghi' => (int) 17, 'gra' => (int) 9, 'vvi' => (int) 2, 'han' => (int) 8, 'cav' => (int) 5, 'hma' => (int) 9, 'vpl' => (int) 4, 'sun' => (int) 2, 'lal' => (int) 9, 'lja' => (int) 5, 'lonja' => (int) 6, 'lsa' => (int) 3, 'mes' => (int) 8, 'mpo' => (int) 3, 'mbi' => (int) 4, 'mco' => (int) 3, 'mdo' => (int) 5, 'mtr' => (int) 7, 'cme' => (int) 6, 'egut' => (int) 7, 'ama' => (int) 3, 'nta' => (int) 12, 'nnu' => (int) 9, 'oeu' => (int) 4, 'osa' => (int) 7, 'pax' => (int) 9, 'pgr' => (int) 5, 'stu' => (int) 8, 'pvu' => (int) 6, 'ptr' => (int) 9, 'ppa' => (int) 9, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 7, 'pso' => (int) 10, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 3, 'sbr' => (int) 8, 'sbo' => (int) 5, 'sci' => (int) 5, 'sed' => (int) 4, 'sgi' => (int) 4, 'sas' => (int) 4, 'smo' => (int) 5, 'sly' => (int) 7, 'spe' => (int) 10, 'spa' => (int) 5, 'tar' => (int) 5, 'tha' => (int) 8, 'tca' => (int) 3, 'esa' => (int) 5, 'tpr' => (int) 6, 'twi' => (int) 6, 'ugi' => (int) 4, 'vma' => (int) 1, 'vmu' => (int) 7, 'zma' => (int) 10 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb421930' $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' => 'HOM05D001025', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '592', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p22650' => 'bna', 'A01p29720' => 'bna', 'A03p26560' => 'bna', 'A03p68820' => 'bna', 'A04p20980' => 'bna', 'A06p07730' => 'bna', 'A07p18260' => 'bna', 'A08p33710' => 'bna', 'A09p16970' => 'bna', 'A10p27490' => 'bna', 'Aa31LG1G17300' => 'aar', 'Aa31LG1G3910' => 'aar', 'Aa31LG2G9630' => 'aar', 'Aa31LG5G8360' => 'aar', 'Aa31LG9G2410' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4699' => 'aag', 'Actinidia23512' => 'ach', 'Actinidia37080' => 'ach', 'Ah.01g020380' => 'amhyb', 'Ah.08g215710' => 'amhyb', 'Ah.09g225110' => 'amhyb', 'Ah.10g036680' => 'amhyb', 'AL1G21940' => 'aly', 'AL2G15540' => 'aly', 'AL4G21520' => 'aly', 'AL7G40960' => 'aly', 'Aqoxy2G01191' => 'aox', 'Aqoxy2G03393' => 'aox', 'Aqoxy4G02775' => 'aox', 'Aqoxy6G00058' => 'aox', 'arahy.Tifrunner.gnm1.ann1.9X74H2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CW3FX9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R485W7' => 'arhy', 'AT1G10960' => 'ath', 'AT1G60950' => 'ath', 'AT2G27510' => 'ath', 'AT4G14890' => 'ath', 'AT5G10000' => 'ath', 'ATR0665G624' => 'atr', 'ATR0697G138' => 'atr', 'ATR0776G046' => 'atr', 'ATR1134G135' => 'atr', 'Atru.chr12.1025' => 'acertr', 'Atru.chr3.3241' => 'acertr', 'Atru.chr4.2460' => 'acertr', 'AUR62007427' => 'cqu', 'AUR62010960' => 'cqu', 'AUR62012201' => 'cqu', 'AUR62021470' => 'cqu', 'AUR62022834' => 'cqu', 'AUR62033635' => 'cqu', 'AUR62036186' => 'cqu', 'BcaB01g03077' => 'bca', 'BcaB02g10093' => 'bca', 'BcaB04g20295' => 'bca', 'BcaB06g28147' => 'bca', 'BcaB07g31253' => 'bca', 'BcaC01g04946' => 'bca', 'BcaC02g10614' => 'bca', 'BcaC02g10885' => 'bca', 'BcaC04g19356' => 'bca', 'BcaC04g22297' => 'bca', 'BcaC05g24977' => 'bca', 'BcaC06g31823' => 'bca', 'BcaC07g38633' => 'bca', 'BcaC09g49353' => 'bca', 'BcaC09g50168' => 'bca', 'BcaNung00322' => 'bca', 'BcaNung04769' => 'bca', 'BolC1t02753H' => 'bol', 'BolC1t03721H' => 'bol', 'BolC3t15525H' => 'bol', 'BolC4t23903H' => 'bol', 'BolC4t24231H' => 'bol', 'BolC4t27209H' => 'bol', 'BolC5t29671H' => 'bol', 'BolC8t49044H' => 'bol', 'BolC9t54999H' => 'bol', 'BolC9t59517H' => 'bol', 'BraA01t02178Z' => 'bra', 'BraA01t03099Z' => 'bra', 'BraA03t11867Z' => 'bra', 'BraA04t17667Z' => 'bra', 'BraA07t29542Z' => 'bra', 'BraA08t35287Z' => 'bra', 'BraA09t37334Z' => 'bra', 'BraA10t44801Z' => 'bra', 'BraSC39t46181Z' => 'bra', 'C01p28240' => 'bna', 'C01p37530' => 'bna', 'C03p31820' => 'bna', 'C04p24080' => 'bna', 'C04p25790' => 'bna', 'C04p56770' => 'bna', 'C05p09310' => 'bna', 'C09p21010' => 'bna', 'C09p67560' => 'bna', 'CAN.G1324.7' => 'can', 'CAN.G1358.10' => 'can', 'CAN.G1550.2' => 'can', 'CAN.G186.56' => 'can', 'CAN.G1965.1' => 'can', 'CAN.G645.15' => 'can', 'CAN.G798.26' => 'can', 'CAN.G798.27' => 'can', 'CAN.G798.29' => 'can', 'CAN.G919.31' => 'can', 'CANSAT11G0133' => 'cansat', 'CANSAT11G1171' => 'cansat', 'CANSAT11G2056' => 'cansat', 'CANSAT56G1202' => 'cansat', 'CANSAT56G1514' => 'cansat', 'CANSAT78G0455' => 'cansat', 'CARHR011190' => 'chi', 'CARHR051980' => 'chi', 'CARHR120170' => 'chi', 'CARHR203310' => 'chi', 'CARHR221490' => 'chi', 'Carub.0001s1054' => 'cru', 'Carub.0002s0431' => 'cru', 'Carub.0004s0818' => 'cru', 'Carub.0006s0846' => 'cru', 'Carub.0007s2722' => 'cru', 'Ca_00058_v3' => 'car', 'Ca_17831_v3' => 'car', 'Ca_19408_v3' => 'car', 'Ca_24397_v3' => 'car', 'Ca_25664_v3' => 'car', 'CBR_g21818' => 'cbr', 'CBR_g31195' => 'cbr', 'CBR_g32282' => 'cbr', 'CBR_g39599' => 'cbr', 'CBR_g49410' => 'cbr', 'Cc01_g09120' => 'ccan', 'Cc01_g09130' => 'ccan', 'Cc02_g09630' => 'ccan', 'Cc02_g22810' => 'ccan', 'Cc03_g03810' => 'ccan', 'CDE02G3718' => 'cde', 'CDE04G3183' => 'cde', 'CDE07G1046' => 'cde', 'CDE08G0480' => 'cde', 'Cfa005493' => 'cfa', 'Cfa010312' => 'cfa', 'Cfa015648' => 'cfa', 'Ciclev10002793m.g' => 'ccl', 'Ciclev10003356m.g' => 'ccl', 'Ciclev10006141m.g' => 'ccl', 'Ciclev10016676m.g' => 'ccl', 'Ciclev10017081m.g' => 'ccl', 'Ciclev10029499m.g' => 'ccl', 'CiPaw.01G166300' => 'cil', 'CiPaw.06G145600' => 'cil', 'CiPaw.13G040100' => 'cil', 'CiPaw.13G135800' => 'cil', 'ClCG01G012230' => 'cla', 'ClCG05G009510' => 'cla', 'ClCG08G008270' => 'cla', 'COL.COLO4_11763' => 'col', 'COL.COLO4_19876' => 'col', 'COL.COLO4_21481' => 'col', 'Cpa.g.sc118.34' => 'cpa', 'Cpa.g.sc32.13' => 'cpa', 'Cpa.g.sc58.103' => 'cpa', 'Cre03.g183850' => 'cre', 'Cre06.g306350' => 'cre', 'Cre07.g334800' => 'cre', 'Cre12.g487900' => 'cre', 'Cre14.g626700' => 'cre', 'Cre16.g658400' => 'cre', 'Cre17.g700950' => 'cre', 'CsaV3_1G014830' => 'csa', 'CsaV3_3G013320' => 'csa', 'CsaV3_3G019210' => 'csa', 'CsaV3_3G019220' => 'csa', 'CsaV3_6G004230' => 'csa', 'CSS0003773' => 'camsi', 'CSS0004563' => 'camsi', 'CSS0013949' => 'camsi', 'CSS0025971' => 'camsi', 'CSS0028570' => 'camsi', 'CSS0033127' => 'camsi', 'CSS0036051' => 'camsi', 'CSS0040087' => 'camsi', 'CSS0043179' => 'camsi', 'DCAR_006161' => 'dca', 'DCAR_010351' => 'dca', 'DCAR_012197' => 'dca', 'DCAR_024162' => 'dca', 'Dinv01030' => 'din', 'Dinv10924' => 'din', 'Dinv11835' => 'din', 'Dinv22841' => 'din', 'Dinv42553' => 'din', 'Duzib052G0560' => 'dzi', 'Duzib132G0389' => 'dzi', 'Duzib150G1181' => 'dzi', 'Duzib168G0623' => 'dzi', 'Duzib170G1036' => 'dzi', 'Duzib212G0200' => 'dzi', 'Duzib248G0194' => 'dzi', 'ECA232G2193' => 'eca', 'ECA233G0302' => 'eca', 'ECA234G2813' => 'eca', 'ECA234G4866' => 'eca', 'ECA240G3932' => 'eca', 'ECA248G0385' => 'eca', 'EL10Ac2g04781' => 'bvu', 'EL10Ac3g06445' => 'bvu', 'EL10Ac7g15825' => 'bvu', 'EL10Ac8g18550' => 'bvu', 'Eucgr.B03849' => 'egr', 'Eucgr.I02744' => 'egr', 'Eucgr.J00264' => 'egr', 'Eucgr.J00493' => 'egr', 'FAN04G2181' => 'fan', 'FAN07G2666' => 'fan', 'FAN11G0024' => 'fan', 'FAN12G1105' => 'fan', 'FAN13G0302' => 'fan', 'FAN15G2781' => 'fan', 'FAN16G1274' => 'fan', 'FAN17G2988' => 'fan', 'FAN18G2621' => 'fan', 'FAN21G0013' => 'fan', 'FAN22G1211' => 'fan', 'FAN25G3626' => 'fan', 'FvH4_2g09491' => 'fve', 'FvH4_3g24910' => 'fve', 'FvH4_4g15630' => 'fve', 'FvH4_5g28820' => 'fve', 'Glyma.01G238000' => 'gma', 'Glyma.05G168400' => 'gma', 'Glyma.08G126800' => 'gma', 'Glyma.08G188500' => 'gma', 'Glyma.10G278900' => 'gma', 'Glyma.11G005700' => 'gma', 'Glyma.11G183300' => 'gma', 'Glyma.12G089200' => 'gma', 'Glyma.12G169400' => 'gma', 'Glyma.12G169500' => 'gma', 'Glyma.12G169600' => 'gma', 'Glyma.20G110800' => 'gma', 'Gohir.A03G192900' => 'ghi', 'Gohir.A03G193000' => 'ghi', 'Gohir.A05G080700' => 'ghi', 'Gohir.A09G216000' => 'ghi', 'Gohir.A12G027700' => 'ghi', 'Gohir.A13G036200' => 'ghi', 'Gohir.A13G222600' => 'ghi', 'Gohir.D02G213900' => 'ghi', 'Gohir.D02G214000' => 'ghi', 'Gohir.D05G083700' => 'ghi', 'Gohir.D05G083800' => 'ghi', 'Gohir.D05G083850' => 'ghi', 'Gohir.D08G015400' => 'ghi', 'Gohir.D09G218400' => 'ghi', 'Gohir.D12G027100' => 'ghi', 'Gohir.D13G034500' => 'ghi', 'Gohir.D13G227400' => 'ghi', 'Gorai.005G241800' => 'gra', 'Gorai.005G241900' => 'gra', 'Gorai.006G239400' => 'gra', 'Gorai.008G027600' => 'gra', 'Gorai.009G085400' => 'gra', 'Gorai.009G085500' => 'gra', 'Gorai.013G039000' => 'gra', 'Gorai.013G194800' => 'gra', 'Gorai.013G257900' => 'gra', 'GSVIVG01000982001' => 'vvi', 'GSVIVG01017981001' => 'vvi', 'HanXRQChr01g0024061' => 'han', 'HanXRQChr09g0247831' => 'han', 'HanXRQChr10g0294611' => 'han', 'HanXRQChr10g0294621' => 'han', 'HanXRQChr11g0346821' => 'han', 'HanXRQChr13g0397461' => 'han', 'HanXRQChr16g0513651' => 'han', 'HanXRQChr16g0513701' => 'han', 'Haze_00897' => 'cav', 'Haze_01745' => 'cav', 'Haze_02486' => 'cav', 'Haze_02487' => 'cav', 'Haze_23374' => 'cav', 'Hma1.2p1_0578F.1_g182520' => 'hma', 'Hma1.2p1_0602F.1_g187350' => 'hma', 'Hma1.2p1_0602F.1_g187360' => 'hma', 'Hma1.2p1_0874F.1_g231320' => 'hma', 'Hma1.2p1_1197F.1_g266210' => 'hma', 'Hma1.2p1_1197F.1_g266220' => 'hma', 'Hma1.2p1_2167F.1_g315895' => 'hma', 'Hma1.2p1_2190F.1_g316640' => 'hma', 'Hma1.2p1_3645F.1_g337153' => 'hma', 'HPP92_004907' => 'vpl', 'HPP92_012134' => 'vpl', 'HPP92_025136' => 'vpl', 'HPP92_026087' => 'vpl', 'Hund06782' => 'sun', 'Hund06784' => 'sun', 'Lalb_Chr01g0004861' => 'lal', 'Lalb_Chr02g0140591' => 'lal', 'Lalb_Chr02g0140611' => 'lal', 'Lalb_Chr03g0028101' => 'lal', 'Lalb_Chr07g0185791' => 'lal', 'Lalb_Chr12g0204491' => 'lal', 'Lalb_Chr13g0295671' => 'lal', 'Lalb_Chr19g0136461' => 'lal', 'Lalb_Chr21g0309191' => 'lal', 'Lj1g0028158' => 'lja', 'Lj1P236T38' => 'lonja', 'Lj2C32G2' => 'lonja', 'Lj2P944T8' => 'lonja', 'Lj2P963T15' => 'lonja', 'Lj3g0011788' => 'lja', 'Lj4g0025027' => 'lja', 'Lj5P255T36' => 'lonja', 'Lj6g0018866' => 'lja', 'Lj6P608T31' => 'lonja', 'LjContig00408g0008879' => 'lja', 'Lsat_1_v5_gn_5_105820' => 'lsa', 'Lsat_1_v5_gn_6_38800' => 'lsa', 'Lsat_1_v5_gn_7_67141' => 'lsa', 'Manes.04G003400' => 'mes', 'Manes.07G020000' => 'mes', 'Manes.07G020100' => 'mes', 'Manes.07G020150' => 'mes', 'Manes.10G061500' => 'mes', 'Manes.10G123200' => 'mes', 'Manes.11G161900' => 'mes', 'Manes.15G029300' => 'mes', 'Mapoly0071s0018' => 'mpo', 'Mapoly0082s0023' => 'mpo', 'Mapoly3477s0001' => 'mpo', 'MBI05_g31233_MAGBIO' => 'mbi', 'MBI09_g05946_MAGBIO' => 'mbi', 'MBI09_g05947_MAGBIO' => 'mbi', 'MBI17_g08346_MAGBIO' => 'mbi', 'MCO04G038' => 'mco', 'MCO09G370' => 'mco', 'MCO13G605' => 'mco', 'MD00G1075500' => 'mdo', 'MD03G1144300' => 'mdo', 'MD08G1236800' => 'mdo', 'MD13G1193300' => 'mdo', 'MD15G1428700' => 'mdo', 'Medtr1g112030' => 'mtr', 'Medtr1g112050' => 'mtr', 'Medtr2g006290' => 'mtr', 'Medtr2g086510' => 'mtr', 'Medtr4g053120' => 'mtr', 'Medtr5g006320' => 'mtr', 'Medtr8g088720' => 'mtr', 'MELO3C004712.2' => 'cme', 'MELO3C006533.2' => 'cme', 'MELO3C019438.2' => 'cme', 'MELO3C019440.2' => 'cme', 'MELO3C019441.2' => 'cme', 'MELO3C019895.2' => 'cme', 'Migut.B00811' => 'egut', 'Migut.D02447' => 'egut', 'Migut.F00875' => 'egut', 'Migut.N00186' => 'egut', 'Migut.N01051' => 'egut', 'Migut.N02491' => 'egut', 'Migut.O00784' => 'egut', 'MSTRG.12367' => 'ama', 'MSTRG.18756' => 'ama', 'MSTRG.21042' => 'ama', 'Nitab4.5_0000559g0040' => 'nta', 'Nitab4.5_0000667g0190' => 'nta', 'Nitab4.5_0000755g0160' => 'nta', 'Nitab4.5_0001216g0080' => 'nta', 'Nitab4.5_0004069g0040' => 'nta', 'Nitab4.5_0004129g0010' => 'nta', 'Nitab4.5_0005744g0030' => 'nta', 'Nitab4.5_0006996g0030' => 'nta', 'Nitab4.5_0008971g0040' => 'nta', 'Nitab4.5_0009769g0020' => 'nta', 'Nitab4.5_0009833g0010' => 'nta', 'Nitab4.5_0013140g0020' => 'nta', 'Nn003s41376' => 'nnu', 'Nn1g01857' => 'nnu', 'Nn1g03611' => 'nnu', 'Nn1g06853' => 'nnu', 'Nn3g18360' => 'nnu', 'Nn4g26328' => 'nnu', 'Nn5g27531' => 'nnu', 'Nn6g34899' => 'nnu', 'Nn7g36299' => 'nnu', 'Oeu021485.1' => 'oeu', 'Oeu022433.1' => 'oeu', 'Oeu032111.1' => 'oeu', 'Oeu051608.1' => 'oeu', 'Os01g0860601' => 'osa', 'Os03g0659200' => 'osa', 'Os03g0835900' => 'osa', 'Os04g0412200' => 'osa', 'Os05g0443500' => 'osa', 'Os07g0251500' => 'osa', 'Os08g0104600' => 'osa', 'Peaxi162Scf00003g00047' => 'pax', 'Peaxi162Scf00003g00052' => 'pax', 'Peaxi162Scf00003g00394' => 'pax', 'Peaxi162Scf00091g00621' => 'pax', 'Peaxi162Scf00152g00146' => 'pax', 'Peaxi162Scf00173g00025' => 'pax', 'Peaxi162Scf00195g00102' => 'pax', 'Peaxi162Scf00402g00013' => 'pax', 'Peaxi162Scf00519g00618' => 'pax', 'PGR004G2838' => 'pgr', 'PGR044G2275' => 'pgr', 'PGR102G1377' => 'pgr', 'PGR119G1245' => 'pgr', 'PGR142G4449' => 'pgr', 'PGSC0003DMG400004532' => 'stu', 'PGSC0003DMG400011950' => 'stu', 'PGSC0003DMG400023391' => 'stu', 'PGSC0003DMG400023985' => 'stu', 'PGSC0003DMG400026360' => 'stu', 'PGSC0003DMG400035711' => 'stu', 'PGSC0003DMG400037286' => 'stu', 'PGSC0003DMG402005881' => 'stu', 'Phvul.002G045400' => 'pvu', 'Phvul.006G216600' => 'pvu', 'Phvul.006G216700' => 'pvu', 'Phvul.006G216800' => 'pvu', 'Phvul.007G022500' => 'pvu', 'Phvul.011G094400' => 'pvu', 'Potri.001G470700' => 'ptr', 'Potri.003G015200' => 'ptr', 'Potri.004G202500' => 'ptr', 'Potri.004G218400' => 'ptr', 'Potri.008G020100' => 'ptr', 'Potri.008G153200' => 'ptr', 'Potri.009G163800' => 'ptr', 'Potri.010G087300' => 'ptr', 'Potri.010G239100' => 'ptr', 'Pp3c10_16100' => 'ppa', 'Pp3c10_16880' => 'ppa', 'Pp3c16_6230' => 'ppa', 'Pp3c17_18910' => 'ppa', 'Pp3c3_22119' => 'ppa', 'Pp3c3_22140' => 'ppa', 'Pp3c4_8159' => 'ppa', 'Pp3c4_8171' => 'ppa', 'Pp3c4_8330' => 'ppa', 'PRCOL_00004098' => 'pco', 'Prupe.1G013900' => 'ppe', 'Prupe.1G226300' => 'ppe', 'Prupe.1G573600' => 'ppe', 'Prupe.6G130100' => 'ppe', 'Psat3g090040' => 'psa', 'Psat4g210440' => 'psa', 'Psat6g231040' => 'psa', 'Psat6g231080' => 'psa', 'Psat7g063000' => 'psa', 'Psat7g188000' => 'psa', 'Psat7g188040' => 'psa', 'PSO017G0206' => 'pso', 'PSO170G0501' => 'pso', 'PSO170G6422' => 'pso', 'PSO210G7739' => 'pso', 'PSO339G1808' => 'pso', 'PSO339G6135' => 'pso', 'PSO384G0010' => 'pso', 'PSO384G0964' => 'pso', 'PSO761G0050' => 'pso', 'PSO782G4085' => 'pso', 'QL01p012264' => 'qlo', 'QL02p099491' => 'qlo', 'QL03p033868' => 'qlo', 'QL04p046678' => 'qlo', 'QL06p002448' => 'qlo', 'RcHm_v2.0_Chr4g0416181' => 'rch', 'RcHm_v2.0_Chr5g0044701' => 'rch', 'RcHm_v2.0_Chr6g0265781' => 'rch', 'RcHm_v2.0_Chr7g0221031' => 'rch', 'Rhsim04G0202000' => 'rsi', 'Rhsim11G0127300' => 'rsi', 'Rhsim13G0111800' => 'rsi', 'Sabra01G0165600' => 'sbr', 'Sabra03G0008300' => 'sbr', 'Sabra04G0136900' => 'sbr', 'Sabra08G0013400' => 'sbr', 'Sabra08G0116800' => 'sbr', 'Sabra09G0128000' => 'sbr', 'Sabra10G0055500' => 'sbr', 'Sabra10G0073300' => 'sbr', 'SalBow3G0385' => 'sbo', 'SalBow3G1119' => 'sbo', 'SalBow3G2005' => 'sbo', 'SalBow6G2563' => 'sbo', 'SalBow6G6386' => 'sbo', 'Sc06g0008800' => 'sci', 'Sc07g0004950' => 'sci', 'Sc09g0005340' => 'sci', 'Sc13g0004410' => 'sci', 'Sc21g0007090' => 'sci', 'Sed0009285' => 'sed', 'Sed0017583' => 'sed', 'Sed0019699' => 'sed', 'Sed0023107' => 'sed', 'SEGI_10916' => 'sgi', 'SEGI_16217' => 'sgi', 'SEGI_19466' => 'sgi', 'SEGI_41115' => 'sgi', 'SGA_v2.0_scaffold111G31534' => 'sas', 'SGA_v2.0_scaffold22G09864' => 'sas', 'SGA_v2.0_scaffold338G49219' => 'sas', 'SGA_v2.0_scaffold92G28298' => 'sas', 'SMO119G0064' => 'smo', 'SMO223G0038' => 'smo', 'SMO347G0584' => 'smo', 'SMO351G0010' => 'smo', 'SMO356G0404' => 'smo', 'Solyc01g103920.3' => 'sly', 'Solyc04g009710.2' => 'sly', 'Solyc05g055280.2' => 'sly', 'Solyc10g044520.3' => 'sly', 'Solyc10g075160.1' => 'sly', 'Solyc11g006910.3' => 'sly', 'Solyc11g068430.3' => 'sly', 'Sopen01g046310' => 'spe', 'Sopen03g001200' => 'spe', 'Sopen04g004830' => 'spe', 'Sopen05g033720' => 'spe', 'Sopen06g030740' => 'spe', 'Sopen10g013090' => 'spe', 'Sopen10g027630' => 'spe', 'Sopen10g027640' => 'spe', 'Sopen11g002820' => 'spe', 'Sopen11g027140' => 'spe', 'Sp1g09680' => 'spa', 'Sp2g03630' => 'spa', 'Sp4g10320' => 'spa', 'Sp6g33400' => 'spa', 'Sp7g13030' => 'spa', 'TAR365G0317' => 'tar', 'TAR376G0979' => 'tar', 'TAR623G1665' => 'tar', 'TAR633G2373' => 'tar', 'TAR636G1400' => 'tar', 'THA.LOC104800529' => 'tha', 'THA.LOC104808547' => 'tha', 'THA.LOC104809615' => 'tha', 'THA.LOC104815724' => 'tha', 'THA.LOC104818480' => 'tha', 'THA.LOC104819179' => 'tha', 'THA.LOC104822270' => 'tha', 'THA.LOC104826425' => 'tha', 'Thecc.02G089700' => 'tca', 'Thecc.04G232300' => 'tca', 'Thecc.09G283400' => 'tca', 'Thhalv10009020m.g' => 'esa', 'Thhalv10015506m.g' => 'esa', 'Thhalv10017364m.g' => 'esa', 'Thhalv10023742m.g' => 'esa', 'Thhalv10026483m.g' => 'esa', 'TPR.G17232' => 'tpr', 'TPR.G2133' => 'tpr', 'TPR.G2498' => 'tpr', 'TPR.G31942' => 'tpr', 'TPR.G37877' => 'tpr', 'TPR.G4571' => 'tpr', 'TWI14G1113' => 'twi', 'TWI15G0426' => 'twi', 'TWI31G1005' => 'twi', 'TWI38G0513' => 'twi', 'TWI38G1484' => 'twi', 'TWI73G1098' => 'twi', 'unitig_26.g10519' => 'ugi', 'unitig_736.g22395' => 'ugi', 'unitig_747.g21234' => 'ugi', 'unitig_747.g21942' => 'ugi', 'vmacro14351' => 'vma', 'VMungo0540G0082' => 'vmu', 'VMungo0540G0405' => 'vmu', 'VMungo0540G1486' => 'vmu', 'VMungo0540G1692' => 'vmu', 'VMungo0720G2473' => 'vmu', 'VMungo1127G1562' => 'vmu', 'VMungo1215G1918' => 'vmu', 'Zm00001eb052650' => 'zma', 'Zm00001eb063710' => 'zma', 'Zm00001eb083950' => 'zma', 'Zm00001eb174420' => 'zma', 'Zm00001eb260140' => 'zma', 'Zm00001eb260150' => 'zma', 'Zm00001eb260160' => 'zma', 'Zm00001eb348290' => 'zma', 'Zm00001eb366870' => 'zma', 'Zm00001eb421930' => 'zma' ), 'gf_id' => 'HOM05D001025', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001025' ), 'data_identifier' => 'HOM05D001025', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001025', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '592', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p22650' => 'bna', 'A01p29720' => 'bna', 'A03p26560' => 'bna', 'A03p68820' => 'bna', 'A04p20980' => 'bna', 'A06p07730' => 'bna', 'A07p18260' => 'bna', 'A08p33710' => 'bna', 'A09p16970' => 'bna', 'A10p27490' => 'bna', 'Aa31LG1G17300' => 'aar', 'Aa31LG1G3910' => 'aar', 'Aa31LG2G9630' => 'aar', 'Aa31LG5G8360' => 'aar', 'Aa31LG9G2410' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4699' => 'aag', 'Actinidia23512' => 'ach', 'Actinidia37080' => 'ach', 'Ah.01g020380' => 'amhyb', 'Ah.08g215710' => 'amhyb', 'Ah.09g225110' => 'amhyb', 'Ah.10g036680' => 'amhyb', 'AL1G21940' => 'aly', 'AL2G15540' => 'aly', 'AL4G21520' => 'aly', 'AL7G40960' => 'aly', 'Aqoxy2G01191' => 'aox', 'Aqoxy2G03393' => 'aox', 'Aqoxy4G02775' => 'aox', 'Aqoxy6G00058' => 'aox', 'arahy.Tifrunner.gnm1.ann1.9X74H2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CW3FX9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R485W7' => 'arhy', 'AT1G10960' => 'ath', 'AT1G60950' => 'ath', 'AT2G27510' => 'ath', 'AT4G14890' => 'ath', 'AT5G10000' => 'ath', 'ATR0665G624' => 'atr', 'ATR0697G138' => 'atr', 'ATR0776G046' => 'atr', 'ATR1134G135' => 'atr', 'Atru.chr12.1025' => 'acertr', 'Atru.chr3.3241' => 'acertr', 'Atru.chr4.2460' => 'acertr', 'AUR62007427' => 'cqu', 'AUR62010960' => 'cqu', 'AUR62012201' => 'cqu', 'AUR62021470' => 'cqu', 'AUR62022834' => 'cqu', 'AUR62033635' => 'cqu', 'AUR62036186' => 'cqu', 'BcaB01g03077' => 'bca', 'BcaB02g10093' => 'bca', 'BcaB04g20295' => 'bca', 'BcaB06g28147' => 'bca', 'BcaB07g31253' => 'bca', 'BcaC01g04946' => 'bca', 'BcaC02g10614' => 'bca', 'BcaC02g10885' => 'bca', 'BcaC04g19356' => 'bca', 'BcaC04g22297' => 'bca', 'BcaC05g24977' => 'bca', 'BcaC06g31823' => 'bca', 'BcaC07g38633' => 'bca', 'BcaC09g49353' => 'bca', 'BcaC09g50168' => 'bca', 'BcaNung00322' => 'bca', 'BcaNung04769' => 'bca', 'BolC1t02753H' => 'bol', 'BolC1t03721H' => 'bol', 'BolC3t15525H' => 'bol', 'BolC4t23903H' => 'bol', 'BolC4t24231H' => 'bol', 'BolC4t27209H' => 'bol', 'BolC5t29671H' => 'bol', 'BolC8t49044H' => 'bol', 'BolC9t54999H' => 'bol', 'BolC9t59517H' => 'bol', 'BraA01t02178Z' => 'bra', 'BraA01t03099Z' => 'bra', 'BraA03t11867Z' => 'bra', 'BraA04t17667Z' => 'bra', 'BraA07t29542Z' => 'bra', 'BraA08t35287Z' => 'bra', 'BraA09t37334Z' => 'bra', 'BraA10t44801Z' => 'bra', 'BraSC39t46181Z' => 'bra', 'C01p28240' => 'bna', 'C01p37530' => 'bna', 'C03p31820' => 'bna', 'C04p24080' => 'bna', 'C04p25790' => 'bna', 'C04p56770' => 'bna', 'C05p09310' => 'bna', 'C09p21010' => 'bna', 'C09p67560' => 'bna', 'CAN.G1324.7' => 'can', 'CAN.G1358.10' => 'can', 'CAN.G1550.2' => 'can', 'CAN.G186.56' => 'can', 'CAN.G1965.1' => 'can', 'CAN.G645.15' => 'can', 'CAN.G798.26' => 'can', 'CAN.G798.27' => 'can', 'CAN.G798.29' => 'can', 'CAN.G919.31' => 'can', 'CANSAT11G0133' => 'cansat', 'CANSAT11G1171' => 'cansat', 'CANSAT11G2056' => 'cansat', 'CANSAT56G1202' => 'cansat', 'CANSAT56G1514' => 'cansat', 'CANSAT78G0455' => 'cansat', 'CARHR011190' => 'chi', 'CARHR051980' => 'chi', 'CARHR120170' => 'chi', 'CARHR203310' => 'chi', 'CARHR221490' => 'chi', 'Carub.0001s1054' => 'cru', 'Carub.0002s0431' => 'cru', 'Carub.0004s0818' => 'cru', 'Carub.0006s0846' => 'cru', 'Carub.0007s2722' => 'cru', 'Ca_00058_v3' => 'car', 'Ca_17831_v3' => 'car', 'Ca_19408_v3' => 'car', 'Ca_24397_v3' => 'car', 'Ca_25664_v3' => 'car', 'CBR_g21818' => 'cbr', 'CBR_g31195' => 'cbr', 'CBR_g32282' => 'cbr', 'CBR_g39599' => 'cbr', 'CBR_g49410' => 'cbr', 'Cc01_g09120' => 'ccan', 'Cc01_g09130' => 'ccan', 'Cc02_g09630' => 'ccan', 'Cc02_g22810' => 'ccan', 'Cc03_g03810' => 'ccan', 'CDE02G3718' => 'cde', 'CDE04G3183' => 'cde', 'CDE07G1046' => 'cde', 'CDE08G0480' => 'cde', 'Cfa005493' => 'cfa', 'Cfa010312' => 'cfa', 'Cfa015648' => 'cfa', 'Ciclev10002793m.g' => 'ccl', 'Ciclev10003356m.g' => 'ccl', 'Ciclev10006141m.g' => 'ccl', 'Ciclev10016676m.g' => 'ccl', 'Ciclev10017081m.g' => 'ccl', 'Ciclev10029499m.g' => 'ccl', 'CiPaw.01G166300' => 'cil', 'CiPaw.06G145600' => 'cil', 'CiPaw.13G040100' => 'cil', 'CiPaw.13G135800' => 'cil', 'ClCG01G012230' => 'cla', 'ClCG05G009510' => 'cla', 'ClCG08G008270' => 'cla', 'COL.COLO4_11763' => 'col', 'COL.COLO4_19876' => 'col', 'COL.COLO4_21481' => 'col', 'Cpa.g.sc118.34' => 'cpa', 'Cpa.g.sc32.13' => 'cpa', 'Cpa.g.sc58.103' => 'cpa', 'Cre03.g183850' => 'cre', 'Cre06.g306350' => 'cre', 'Cre07.g334800' => 'cre', 'Cre12.g487900' => 'cre', 'Cre14.g626700' => 'cre', 'Cre16.g658400' => 'cre', 'Cre17.g700950' => 'cre', 'CsaV3_1G014830' => 'csa', 'CsaV3_3G013320' => 'csa', 'CsaV3_3G019210' => 'csa', 'CsaV3_3G019220' => 'csa', 'CsaV3_6G004230' => 'csa', 'CSS0003773' => 'camsi', 'CSS0004563' => 'camsi', 'CSS0013949' => 'camsi', 'CSS0025971' => 'camsi', 'CSS0028570' => 'camsi', 'CSS0033127' => 'camsi', 'CSS0036051' => 'camsi', 'CSS0040087' => 'camsi', 'CSS0043179' => 'camsi', 'DCAR_006161' => 'dca', 'DCAR_010351' => 'dca', 'DCAR_012197' => 'dca', 'DCAR_024162' => 'dca', 'Dinv01030' => 'din', 'Dinv10924' => 'din', 'Dinv11835' => 'din', 'Dinv22841' => 'din', 'Dinv42553' => 'din', 'Duzib052G0560' => 'dzi', 'Duzib132G0389' => 'dzi', 'Duzib150G1181' => 'dzi', 'Duzib168G0623' => 'dzi', 'Duzib170G1036' => 'dzi', 'Duzib212G0200' => 'dzi', 'Duzib248G0194' => 'dzi', 'ECA232G2193' => 'eca', 'ECA233G0302' => 'eca', 'ECA234G2813' => 'eca', 'ECA234G4866' => 'eca', 'ECA240G3932' => 'eca', 'ECA248G0385' => 'eca', 'EL10Ac2g04781' => 'bvu', 'EL10Ac3g06445' => 'bvu', 'EL10Ac7g15825' => 'bvu', 'EL10Ac8g18550' => 'bvu', 'Eucgr.B03849' => 'egr', 'Eucgr.I02744' => 'egr', 'Eucgr.J00264' => 'egr', 'Eucgr.J00493' => 'egr', 'FAN04G2181' => 'fan', 'FAN07G2666' => 'fan', 'FAN11G0024' => 'fan', 'FAN12G1105' => 'fan', 'FAN13G0302' => 'fan', 'FAN15G2781' => 'fan', 'FAN16G1274' => 'fan', 'FAN17G2988' => 'fan', 'FAN18G2621' => 'fan', 'FAN21G0013' => 'fan', 'FAN22G1211' => 'fan', 'FAN25G3626' => 'fan', 'FvH4_2g09491' => 'fve', 'FvH4_3g24910' => 'fve', 'FvH4_4g15630' => 'fve', 'FvH4_5g28820' => 'fve', 'Glyma.01G238000' => 'gma', 'Glyma.05G168400' => 'gma', 'Glyma.08G126800' => 'gma', 'Glyma.08G188500' => 'gma', 'Glyma.10G278900' => 'gma', 'Glyma.11G005700' => 'gma', 'Glyma.11G183300' => 'gma', 'Glyma.12G089200' => 'gma', 'Glyma.12G169400' => 'gma', 'Glyma.12G169500' => 'gma', 'Glyma.12G169600' => 'gma', 'Glyma.20G110800' => 'gma', 'Gohir.A03G192900' => 'ghi', 'Gohir.A03G193000' => 'ghi', 'Gohir.A05G080700' => 'ghi', 'Gohir.A09G216000' => 'ghi', 'Gohir.A12G027700' => 'ghi', 'Gohir.A13G036200' => 'ghi', 'Gohir.A13G222600' => 'ghi', 'Gohir.D02G213900' => 'ghi', 'Gohir.D02G214000' => 'ghi', 'Gohir.D05G083700' => 'ghi', 'Gohir.D05G083800' => 'ghi', 'Gohir.D05G083850' => 'ghi', 'Gohir.D08G015400' => 'ghi', 'Gohir.D09G218400' => 'ghi', 'Gohir.D12G027100' => 'ghi', 'Gohir.D13G034500' => 'ghi', 'Gohir.D13G227400' => 'ghi', 'Gorai.005G241800' => 'gra', 'Gorai.005G241900' => 'gra', 'Gorai.006G239400' => 'gra', 'Gorai.008G027600' => 'gra', 'Gorai.009G085400' => 'gra', 'Gorai.009G085500' => 'gra', 'Gorai.013G039000' => 'gra', 'Gorai.013G194800' => 'gra', 'Gorai.013G257900' => 'gra', 'GSVIVG01000982001' => 'vvi', 'GSVIVG01017981001' => 'vvi', 'HanXRQChr01g0024061' => 'han', 'HanXRQChr09g0247831' => 'han', 'HanXRQChr10g0294611' => 'han', 'HanXRQChr10g0294621' => 'han', 'HanXRQChr11g0346821' => 'han', 'HanXRQChr13g0397461' => 'han', 'HanXRQChr16g0513651' => 'han', 'HanXRQChr16g0513701' => 'han', 'Haze_00897' => 'cav', 'Haze_01745' => 'cav', 'Haze_02486' => 'cav', 'Haze_02487' => 'cav', 'Haze_23374' => 'cav', 'Hma1.2p1_0578F.1_g182520' => 'hma', 'Hma1.2p1_0602F.1_g187350' => 'hma', 'Hma1.2p1_0602F.1_g187360' => 'hma', 'Hma1.2p1_0874F.1_g231320' => 'hma', 'Hma1.2p1_1197F.1_g266210' => 'hma', 'Hma1.2p1_1197F.1_g266220' => 'hma', 'Hma1.2p1_2167F.1_g315895' => 'hma', 'Hma1.2p1_2190F.1_g316640' => 'hma', 'Hma1.2p1_3645F.1_g337153' => 'hma', 'HPP92_004907' => 'vpl', 'HPP92_012134' => 'vpl', 'HPP92_025136' => 'vpl', 'HPP92_026087' => 'vpl', 'Hund06782' => 'sun', 'Hund06784' => 'sun', 'Lalb_Chr01g0004861' => 'lal', 'Lalb_Chr02g0140591' => 'lal', 'Lalb_Chr02g0140611' => 'lal', 'Lalb_Chr03g0028101' => 'lal', 'Lalb_Chr07g0185791' => 'lal', 'Lalb_Chr12g0204491' => 'lal', 'Lalb_Chr13g0295671' => 'lal', 'Lalb_Chr19g0136461' => 'lal', 'Lalb_Chr21g0309191' => 'lal', 'Lj1g0028158' => 'lja', 'Lj1P236T38' => 'lonja', 'Lj2C32G2' => 'lonja', 'Lj2P944T8' => 'lonja', 'Lj2P963T15' => 'lonja', 'Lj3g0011788' => 'lja', 'Lj4g0025027' => 'lja', 'Lj5P255T36' => 'lonja', 'Lj6g0018866' => 'lja', 'Lj6P608T31' => 'lonja', 'LjContig00408g0008879' => 'lja', 'Lsat_1_v5_gn_5_105820' => 'lsa', 'Lsat_1_v5_gn_6_38800' => 'lsa', 'Lsat_1_v5_gn_7_67141' => 'lsa', 'Manes.04G003400' => 'mes', 'Manes.07G020000' => 'mes', 'Manes.07G020100' => 'mes', 'Manes.07G020150' => 'mes', 'Manes.10G061500' => 'mes', 'Manes.10G123200' => 'mes', 'Manes.11G161900' => 'mes', 'Manes.15G029300' => 'mes', 'Mapoly0071s0018' => 'mpo', 'Mapoly0082s0023' => 'mpo', 'Mapoly3477s0001' => 'mpo', 'MBI05_g31233_MAGBIO' => 'mbi', 'MBI09_g05946_MAGBIO' => 'mbi', 'MBI09_g05947_MAGBIO' => 'mbi', 'MBI17_g08346_MAGBIO' => 'mbi', 'MCO04G038' => 'mco', 'MCO09G370' => 'mco', 'MCO13G605' => 'mco', 'MD00G1075500' => 'mdo', 'MD03G1144300' => 'mdo', 'MD08G1236800' => 'mdo', 'MD13G1193300' => 'mdo', 'MD15G1428700' => 'mdo', 'Medtr1g112030' => 'mtr', 'Medtr1g112050' => 'mtr', 'Medtr2g006290' => 'mtr', 'Medtr2g086510' => 'mtr', 'Medtr4g053120' => 'mtr', 'Medtr5g006320' => 'mtr', 'Medtr8g088720' => 'mtr', 'MELO3C004712.2' => 'cme', 'MELO3C006533.2' => 'cme', 'MELO3C019438.2' => 'cme', 'MELO3C019440.2' => 'cme', 'MELO3C019441.2' => 'cme', 'MELO3C019895.2' => 'cme', 'Migut.B00811' => 'egut', 'Migut.D02447' => 'egut', 'Migut.F00875' => 'egut', 'Migut.N00186' => 'egut', 'Migut.N01051' => 'egut', 'Migut.N02491' => 'egut', 'Migut.O00784' => 'egut', 'MSTRG.12367' => 'ama', 'MSTRG.18756' => 'ama', 'MSTRG.21042' => 'ama', 'Nitab4.5_0000559g0040' => 'nta', 'Nitab4.5_0000667g0190' => 'nta', 'Nitab4.5_0000755g0160' => 'nta', 'Nitab4.5_0001216g0080' => 'nta', 'Nitab4.5_0004069g0040' => 'nta', 'Nitab4.5_0004129g0010' => 'nta', 'Nitab4.5_0005744g0030' => 'nta', 'Nitab4.5_0006996g0030' => 'nta', 'Nitab4.5_0008971g0040' => 'nta', 'Nitab4.5_0009769g0020' => 'nta', 'Nitab4.5_0009833g0010' => 'nta', 'Nitab4.5_0013140g0020' => 'nta', 'Nn003s41376' => 'nnu', 'Nn1g01857' => 'nnu', 'Nn1g03611' => 'nnu', 'Nn1g06853' => 'nnu', 'Nn3g18360' => 'nnu', 'Nn4g26328' => 'nnu', 'Nn5g27531' => 'nnu', 'Nn6g34899' => 'nnu', 'Nn7g36299' => 'nnu', 'Oeu021485.1' => 'oeu', 'Oeu022433.1' => 'oeu', 'Oeu032111.1' => 'oeu', 'Oeu051608.1' => 'oeu', 'Os01g0860601' => 'osa', 'Os03g0659200' => 'osa', 'Os03g0835900' => 'osa', 'Os04g0412200' => 'osa', 'Os05g0443500' => 'osa', 'Os07g0251500' => 'osa', 'Os08g0104600' => 'osa', 'Peaxi162Scf00003g00047' => 'pax', 'Peaxi162Scf00003g00052' => 'pax', 'Peaxi162Scf00003g00394' => 'pax', 'Peaxi162Scf00091g00621' => 'pax', 'Peaxi162Scf00152g00146' => 'pax', 'Peaxi162Scf00173g00025' => 'pax', 'Peaxi162Scf00195g00102' => 'pax', 'Peaxi162Scf00402g00013' => 'pax', 'Peaxi162Scf00519g00618' => 'pax', 'PGR004G2838' => 'pgr', 'PGR044G2275' => 'pgr', 'PGR102G1377' => 'pgr', 'PGR119G1245' => 'pgr', 'PGR142G4449' => 'pgr', 'PGSC0003DMG400004532' => 'stu', 'PGSC0003DMG400011950' => 'stu', 'PGSC0003DMG400023391' => 'stu', 'PGSC0003DMG400023985' => 'stu', 'PGSC0003DMG400026360' => 'stu', 'PGSC0003DMG400035711' => 'stu', 'PGSC0003DMG400037286' => 'stu', 'PGSC0003DMG402005881' => 'stu', 'Phvul.002G045400' => 'pvu', 'Phvul.006G216600' => 'pvu', 'Phvul.006G216700' => 'pvu', 'Phvul.006G216800' => 'pvu', 'Phvul.007G022500' => 'pvu', 'Phvul.011G094400' => 'pvu', 'Potri.001G470700' => 'ptr', 'Potri.003G015200' => 'ptr', 'Potri.004G202500' => 'ptr', 'Potri.004G218400' => 'ptr', 'Potri.008G020100' => 'ptr', 'Potri.008G153200' => 'ptr', 'Potri.009G163800' => 'ptr', 'Potri.010G087300' => 'ptr', 'Potri.010G239100' => 'ptr', 'Pp3c10_16100' => 'ppa', 'Pp3c10_16880' => 'ppa', 'Pp3c16_6230' => 'ppa', 'Pp3c17_18910' => 'ppa', 'Pp3c3_22119' => 'ppa', 'Pp3c3_22140' => 'ppa', 'Pp3c4_8159' => 'ppa', 'Pp3c4_8171' => 'ppa', 'Pp3c4_8330' => 'ppa', 'PRCOL_00004098' => 'pco', 'Prupe.1G013900' => 'ppe', 'Prupe.1G226300' => 'ppe', 'Prupe.1G573600' => 'ppe', 'Prupe.6G130100' => 'ppe', 'Psat3g090040' => 'psa', 'Psat4g210440' => 'psa', 'Psat6g231040' => 'psa', 'Psat6g231080' => 'psa', 'Psat7g063000' => 'psa', 'Psat7g188000' => 'psa', 'Psat7g188040' => 'psa', 'PSO017G0206' => 'pso', 'PSO170G0501' => 'pso', 'PSO170G6422' => 'pso', 'PSO210G7739' => 'pso', 'PSO339G1808' => 'pso', 'PSO339G6135' => 'pso', 'PSO384G0010' => 'pso', 'PSO384G0964' => 'pso', 'PSO761G0050' => 'pso', 'PSO782G4085' => 'pso', 'QL01p012264' => 'qlo', 'QL02p099491' => 'qlo', 'QL03p033868' => 'qlo', 'QL04p046678' => 'qlo', 'QL06p002448' => 'qlo', 'RcHm_v2.0_Chr4g0416181' => 'rch', 'RcHm_v2.0_Chr5g0044701' => 'rch', 'RcHm_v2.0_Chr6g0265781' => 'rch', 'RcHm_v2.0_Chr7g0221031' => 'rch', 'Rhsim04G0202000' => 'rsi', 'Rhsim11G0127300' => 'rsi', 'Rhsim13G0111800' => 'rsi', 'Sabra01G0165600' => 'sbr', 'Sabra03G0008300' => 'sbr', 'Sabra04G0136900' => 'sbr', 'Sabra08G0013400' => 'sbr', 'Sabra08G0116800' => 'sbr', 'Sabra09G0128000' => 'sbr', 'Sabra10G0055500' => 'sbr', 'Sabra10G0073300' => 'sbr', 'SalBow3G0385' => 'sbo', 'SalBow3G1119' => 'sbo', 'SalBow3G2005' => 'sbo', 'SalBow6G2563' => 'sbo', 'SalBow6G6386' => 'sbo', 'Sc06g0008800' => 'sci', 'Sc07g0004950' => 'sci', 'Sc09g0005340' => 'sci', 'Sc13g0004410' => 'sci', 'Sc21g0007090' => 'sci', 'Sed0009285' => 'sed', 'Sed0017583' => 'sed', 'Sed0019699' => 'sed', 'Sed0023107' => 'sed', 'SEGI_10916' => 'sgi', 'SEGI_16217' => 'sgi', 'SEGI_19466' => 'sgi', 'SEGI_41115' => 'sgi', 'SGA_v2.0_scaffold111G31534' => 'sas', 'SGA_v2.0_scaffold22G09864' => 'sas', 'SGA_v2.0_scaffold338G49219' => 'sas', 'SGA_v2.0_scaffold92G28298' => 'sas', 'SMO119G0064' => 'smo', 'SMO223G0038' => 'smo', 'SMO347G0584' => 'smo', 'SMO351G0010' => 'smo', 'SMO356G0404' => 'smo', 'Solyc01g103920.3' => 'sly', 'Solyc04g009710.2' => 'sly', 'Solyc05g055280.2' => 'sly', 'Solyc10g044520.3' => 'sly', 'Solyc10g075160.1' => 'sly', 'Solyc11g006910.3' => 'sly', 'Solyc11g068430.3' => 'sly', 'Sopen01g046310' => 'spe', 'Sopen03g001200' => 'spe', 'Sopen04g004830' => 'spe', 'Sopen05g033720' => 'spe', 'Sopen06g030740' => 'spe', 'Sopen10g013090' => 'spe', 'Sopen10g027630' => 'spe', 'Sopen10g027640' => 'spe', 'Sopen11g002820' => 'spe', 'Sopen11g027140' => 'spe', 'Sp1g09680' => 'spa', 'Sp2g03630' => 'spa', 'Sp4g10320' => 'spa', 'Sp6g33400' => 'spa', 'Sp7g13030' => 'spa', 'TAR365G0317' => 'tar', 'TAR376G0979' => 'tar', 'TAR623G1665' => 'tar', 'TAR633G2373' => 'tar', 'TAR636G1400' => 'tar', 'THA.LOC104800529' => 'tha', 'THA.LOC104808547' => 'tha', 'THA.LOC104809615' => 'tha', 'THA.LOC104815724' => 'tha', 'THA.LOC104818480' => 'tha', 'THA.LOC104819179' => 'tha', 'THA.LOC104822270' => 'tha', 'THA.LOC104826425' => 'tha', 'Thecc.02G089700' => 'tca', 'Thecc.04G232300' => 'tca', 'Thecc.09G283400' => 'tca', 'Thhalv10009020m.g' => 'esa', 'Thhalv10015506m.g' => 'esa', 'Thhalv10017364m.g' => 'esa', 'Thhalv10023742m.g' => 'esa', 'Thhalv10026483m.g' => 'esa', 'TPR.G17232' => 'tpr', 'TPR.G2133' => 'tpr', 'TPR.G2498' => 'tpr', 'TPR.G31942' => 'tpr', 'TPR.G37877' => 'tpr', 'TPR.G4571' => 'tpr', 'TWI14G1113' => 'twi', 'TWI15G0426' => 'twi', 'TWI31G1005' => 'twi', 'TWI38G0513' => 'twi', 'TWI38G1484' => 'twi', 'TWI73G1098' => 'twi', 'unitig_26.g10519' => 'ugi', 'unitig_736.g22395' => 'ugi', 'unitig_747.g21234' => 'ugi', 'unitig_747.g21942' => 'ugi', 'vmacro14351' => 'vma', 'VMungo0540G0082' => 'vmu', 'VMungo0540G0405' => 'vmu', 'VMungo0540G1486' => 'vmu', 'VMungo0540G1692' => 'vmu', 'VMungo0720G2473' => 'vmu', 'VMungo1127G1562' => 'vmu', 'VMungo1215G1918' => 'vmu', 'Zm00001eb052650' => 'zma', 'Zm00001eb063710' => 'zma', 'Zm00001eb083950' => 'zma', 'Zm00001eb174420' => 'zma', 'Zm00001eb260140' => 'zma', 'Zm00001eb260150' => 'zma', 'Zm00001eb260160' => 'zma', 'Zm00001eb348290' => 'zma', 'Zm00001eb366870' => 'zma', 'Zm00001eb421930' => 'zma' ) $gf_id = 'HOM05D001025' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001025' ) $data_identifier = 'HOM05D001025' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 19, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 2, 'amhyb' => (int) 4, 'aly' => (int) 4, 'aox' => (int) 4, 'arhy' => (int) 3, 'ath' => (int) 5, 'atr' => (int) 4, 'acertr' => (int) 3, 'cqu' => (int) 7, 'bca' => (int) 17, 'bol' => (int) 10, 'bra' => (int) 9, 'can' => (int) 10, 'cansat' => (int) 6, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 5, 'cbr' => (int) 5, 'ccan' => (int) 5, 'cde' => (int) 4, 'cfa' => (int) 3, 'ccl' => (int) 6, 'cil' => (int) 4, 'cla' => (int) 3, 'col' => (int) 3, 'cpa' => (int) 3, 'cre' => (int) 7, 'csa' => (int) 5, 'camsi' => (int) 9, 'dca' => (int) 4, 'din' => (int) 5, 'dzi' => (int) 7, 'eca' => (int) 6, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 12, 'fve' => (int) 4, 'gma' => (int) 12, 'ghi' => (int) 17, 'gra' => (int) 9, 'vvi' => (int) 2, 'han' => (int) 8, 'cav' => (int) 5, 'hma' => (int) 9, 'vpl' => (int) 4, 'sun' => (int) 2, 'lal' => (int) 9, 'lja' => (int) 5, 'lonja' => (int) 6, 'lsa' => (int) 3, 'mes' => (int) 8, 'mpo' => (int) 3, 'mbi' => (int) 4, 'mco' => (int) 3, 'mdo' => (int) 5, 'mtr' => (int) 7, 'cme' => (int) 6, 'egut' => (int) 7, 'ama' => (int) 3, 'nta' => (int) 12, 'nnu' => (int) 9, 'oeu' => (int) 4, 'osa' => (int) 7, 'pax' => (int) 9, 'pgr' => (int) 5, 'stu' => (int) 8, 'pvu' => (int) 6, 'ptr' => (int) 9, 'ppa' => (int) 9, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 7, 'pso' => (int) 10, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 3, 'sbr' => (int) 8, 'sbo' => (int) 5, 'sci' => (int) 5, 'sed' => (int) 4, 'sgi' => (int) 4, 'sas' => (int) 4, 'smo' => (int) 5, 'sly' => (int) 7, 'spe' => (int) 10, 'spa' => (int) 5, 'tar' => (int) 5, 'tha' => (int) 8, 'tca' => (int) 3, 'esa' => (int) 5, 'tpr' => (int) 6, 'twi' => (int) 6, 'ugi' => (int) 4, 'vma' => (int) 1, 'vmu' => (int) 7, 'zma' => (int) 10 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb421930' $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' => 'HOM05D001025', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '592', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p22650' => 'bna', 'A01p29720' => 'bna', 'A03p26560' => 'bna', 'A03p68820' => 'bna', 'A04p20980' => 'bna', 'A06p07730' => 'bna', 'A07p18260' => 'bna', 'A08p33710' => 'bna', 'A09p16970' => 'bna', 'A10p27490' => 'bna', 'Aa31LG1G17300' => 'aar', 'Aa31LG1G3910' => 'aar', 'Aa31LG2G9630' => 'aar', 'Aa31LG5G8360' => 'aar', 'Aa31LG9G2410' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4699' => 'aag', 'Actinidia23512' => 'ach', 'Actinidia37080' => 'ach', 'Ah.01g020380' => 'amhyb', 'Ah.08g215710' => 'amhyb', 'Ah.09g225110' => 'amhyb', 'Ah.10g036680' => 'amhyb', 'AL1G21940' => 'aly', 'AL2G15540' => 'aly', 'AL4G21520' => 'aly', 'AL7G40960' => 'aly', 'Aqoxy2G01191' => 'aox', 'Aqoxy2G03393' => 'aox', 'Aqoxy4G02775' => 'aox', 'Aqoxy6G00058' => 'aox', 'arahy.Tifrunner.gnm1.ann1.9X74H2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CW3FX9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R485W7' => 'arhy', 'AT1G10960' => 'ath', 'AT1G60950' => 'ath', 'AT2G27510' => 'ath', 'AT4G14890' => 'ath', 'AT5G10000' => 'ath', 'ATR0665G624' => 'atr', 'ATR0697G138' => 'atr', 'ATR0776G046' => 'atr', 'ATR1134G135' => 'atr', 'Atru.chr12.1025' => 'acertr', 'Atru.chr3.3241' => 'acertr', 'Atru.chr4.2460' => 'acertr', 'AUR62007427' => 'cqu', 'AUR62010960' => 'cqu', 'AUR62012201' => 'cqu', 'AUR62021470' => 'cqu', 'AUR62022834' => 'cqu', 'AUR62033635' => 'cqu', 'AUR62036186' => 'cqu', 'BcaB01g03077' => 'bca', 'BcaB02g10093' => 'bca', 'BcaB04g20295' => 'bca', 'BcaB06g28147' => 'bca', 'BcaB07g31253' => 'bca', 'BcaC01g04946' => 'bca', 'BcaC02g10614' => 'bca', 'BcaC02g10885' => 'bca', 'BcaC04g19356' => 'bca', 'BcaC04g22297' => 'bca', 'BcaC05g24977' => 'bca', 'BcaC06g31823' => 'bca', 'BcaC07g38633' => 'bca', 'BcaC09g49353' => 'bca', 'BcaC09g50168' => 'bca', 'BcaNung00322' => 'bca', 'BcaNung04769' => 'bca', 'BolC1t02753H' => 'bol', 'BolC1t03721H' => 'bol', 'BolC3t15525H' => 'bol', 'BolC4t23903H' => 'bol', 'BolC4t24231H' => 'bol', 'BolC4t27209H' => 'bol', 'BolC5t29671H' => 'bol', 'BolC8t49044H' => 'bol', 'BolC9t54999H' => 'bol', 'BolC9t59517H' => 'bol', 'BraA01t02178Z' => 'bra', 'BraA01t03099Z' => 'bra', 'BraA03t11867Z' => 'bra', 'BraA04t17667Z' => 'bra', 'BraA07t29542Z' => 'bra', 'BraA08t35287Z' => 'bra', 'BraA09t37334Z' => 'bra', 'BraA10t44801Z' => 'bra', 'BraSC39t46181Z' => 'bra', 'C01p28240' => 'bna', 'C01p37530' => 'bna', 'C03p31820' => 'bna', 'C04p24080' => 'bna', 'C04p25790' => 'bna', 'C04p56770' => 'bna', 'C05p09310' => 'bna', 'C09p21010' => 'bna', 'C09p67560' => 'bna', 'CAN.G1324.7' => 'can', 'CAN.G1358.10' => 'can', 'CAN.G1550.2' => 'can', 'CAN.G186.56' => 'can', 'CAN.G1965.1' => 'can', 'CAN.G645.15' => 'can', 'CAN.G798.26' => 'can', 'CAN.G798.27' => 'can', 'CAN.G798.29' => 'can', 'CAN.G919.31' => 'can', 'CANSAT11G0133' => 'cansat', 'CANSAT11G1171' => 'cansat', 'CANSAT11G2056' => 'cansat', 'CANSAT56G1202' => 'cansat', 'CANSAT56G1514' => 'cansat', 'CANSAT78G0455' => 'cansat', 'CARHR011190' => 'chi', 'CARHR051980' => 'chi', 'CARHR120170' => 'chi', 'CARHR203310' => 'chi', 'CARHR221490' => 'chi', 'Carub.0001s1054' => 'cru', 'Carub.0002s0431' => 'cru', 'Carub.0004s0818' => 'cru', 'Carub.0006s0846' => 'cru', 'Carub.0007s2722' => 'cru', 'Ca_00058_v3' => 'car', 'Ca_17831_v3' => 'car', 'Ca_19408_v3' => 'car', 'Ca_24397_v3' => 'car', 'Ca_25664_v3' => 'car', 'CBR_g21818' => 'cbr', 'CBR_g31195' => 'cbr', 'CBR_g32282' => 'cbr', 'CBR_g39599' => 'cbr', 'CBR_g49410' => 'cbr', 'Cc01_g09120' => 'ccan', 'Cc01_g09130' => 'ccan', 'Cc02_g09630' => 'ccan', 'Cc02_g22810' => 'ccan', 'Cc03_g03810' => 'ccan', 'CDE02G3718' => 'cde', 'CDE04G3183' => 'cde', 'CDE07G1046' => 'cde', 'CDE08G0480' => 'cde', 'Cfa005493' => 'cfa', 'Cfa010312' => 'cfa', 'Cfa015648' => 'cfa', 'Ciclev10002793m.g' => 'ccl', 'Ciclev10003356m.g' => 'ccl', 'Ciclev10006141m.g' => 'ccl', 'Ciclev10016676m.g' => 'ccl', 'Ciclev10017081m.g' => 'ccl', 'Ciclev10029499m.g' => 'ccl', 'CiPaw.01G166300' => 'cil', 'CiPaw.06G145600' => 'cil', 'CiPaw.13G040100' => 'cil', 'CiPaw.13G135800' => 'cil', 'ClCG01G012230' => 'cla', 'ClCG05G009510' => 'cla', 'ClCG08G008270' => 'cla', 'COL.COLO4_11763' => 'col', 'COL.COLO4_19876' => 'col', 'COL.COLO4_21481' => 'col', 'Cpa.g.sc118.34' => 'cpa', 'Cpa.g.sc32.13' => 'cpa', 'Cpa.g.sc58.103' => 'cpa', 'Cre03.g183850' => 'cre', 'Cre06.g306350' => 'cre', 'Cre07.g334800' => 'cre', 'Cre12.g487900' => 'cre', 'Cre14.g626700' => 'cre', 'Cre16.g658400' => 'cre', 'Cre17.g700950' => 'cre', 'CsaV3_1G014830' => 'csa', 'CsaV3_3G013320' => 'csa', 'CsaV3_3G019210' => 'csa', 'CsaV3_3G019220' => 'csa', 'CsaV3_6G004230' => 'csa', 'CSS0003773' => 'camsi', 'CSS0004563' => 'camsi', 'CSS0013949' => 'camsi', 'CSS0025971' => 'camsi', 'CSS0028570' => 'camsi', 'CSS0033127' => 'camsi', 'CSS0036051' => 'camsi', 'CSS0040087' => 'camsi', 'CSS0043179' => 'camsi', 'DCAR_006161' => 'dca', 'DCAR_010351' => 'dca', 'DCAR_012197' => 'dca', 'DCAR_024162' => 'dca', 'Dinv01030' => 'din', 'Dinv10924' => 'din', 'Dinv11835' => 'din', 'Dinv22841' => 'din', 'Dinv42553' => 'din', 'Duzib052G0560' => 'dzi', 'Duzib132G0389' => 'dzi', 'Duzib150G1181' => 'dzi', 'Duzib168G0623' => 'dzi', 'Duzib170G1036' => 'dzi', 'Duzib212G0200' => 'dzi', 'Duzib248G0194' => 'dzi', 'ECA232G2193' => 'eca', 'ECA233G0302' => 'eca', 'ECA234G2813' => 'eca', 'ECA234G4866' => 'eca', 'ECA240G3932' => 'eca', 'ECA248G0385' => 'eca', 'EL10Ac2g04781' => 'bvu', 'EL10Ac3g06445' => 'bvu', 'EL10Ac7g15825' => 'bvu', 'EL10Ac8g18550' => 'bvu', 'Eucgr.B03849' => 'egr', 'Eucgr.I02744' => 'egr', 'Eucgr.J00264' => 'egr', 'Eucgr.J00493' => 'egr', 'FAN04G2181' => 'fan', 'FAN07G2666' => 'fan', 'FAN11G0024' => 'fan', 'FAN12G1105' => 'fan', 'FAN13G0302' => 'fan', 'FAN15G2781' => 'fan', 'FAN16G1274' => 'fan', 'FAN17G2988' => 'fan', 'FAN18G2621' => 'fan', 'FAN21G0013' => 'fan', 'FAN22G1211' => 'fan', 'FAN25G3626' => 'fan', 'FvH4_2g09491' => 'fve', 'FvH4_3g24910' => 'fve', 'FvH4_4g15630' => 'fve', 'FvH4_5g28820' => 'fve', 'Glyma.01G238000' => 'gma', 'Glyma.05G168400' => 'gma', 'Glyma.08G126800' => 'gma', 'Glyma.08G188500' => 'gma', 'Glyma.10G278900' => 'gma', 'Glyma.11G005700' => 'gma', 'Glyma.11G183300' => 'gma', 'Glyma.12G089200' => 'gma', 'Glyma.12G169400' => 'gma', 'Glyma.12G169500' => 'gma', 'Glyma.12G169600' => 'gma', 'Glyma.20G110800' => 'gma', 'Gohir.A03G192900' => 'ghi', 'Gohir.A03G193000' => 'ghi', 'Gohir.A05G080700' => 'ghi', 'Gohir.A09G216000' => 'ghi', 'Gohir.A12G027700' => 'ghi', 'Gohir.A13G036200' => 'ghi', 'Gohir.A13G222600' => 'ghi', 'Gohir.D02G213900' => 'ghi', 'Gohir.D02G214000' => 'ghi', 'Gohir.D05G083700' => 'ghi', 'Gohir.D05G083800' => 'ghi', 'Gohir.D05G083850' => 'ghi', 'Gohir.D08G015400' => 'ghi', 'Gohir.D09G218400' => 'ghi', 'Gohir.D12G027100' => 'ghi', 'Gohir.D13G034500' => 'ghi', 'Gohir.D13G227400' => 'ghi', 'Gorai.005G241800' => 'gra', 'Gorai.005G241900' => 'gra', 'Gorai.006G239400' => 'gra', 'Gorai.008G027600' => 'gra', 'Gorai.009G085400' => 'gra', 'Gorai.009G085500' => 'gra', 'Gorai.013G039000' => 'gra', 'Gorai.013G194800' => 'gra', 'Gorai.013G257900' => 'gra', 'GSVIVG01000982001' => 'vvi', 'GSVIVG01017981001' => 'vvi', 'HanXRQChr01g0024061' => 'han', 'HanXRQChr09g0247831' => 'han', 'HanXRQChr10g0294611' => 'han', 'HanXRQChr10g0294621' => 'han', 'HanXRQChr11g0346821' => 'han', 'HanXRQChr13g0397461' => 'han', 'HanXRQChr16g0513651' => 'han', 'HanXRQChr16g0513701' => 'han', 'Haze_00897' => 'cav', 'Haze_01745' => 'cav', 'Haze_02486' => 'cav', 'Haze_02487' => 'cav', 'Haze_23374' => 'cav', 'Hma1.2p1_0578F.1_g182520' => 'hma', 'Hma1.2p1_0602F.1_g187350' => 'hma', 'Hma1.2p1_0602F.1_g187360' => 'hma', 'Hma1.2p1_0874F.1_g231320' => 'hma', 'Hma1.2p1_1197F.1_g266210' => 'hma', 'Hma1.2p1_1197F.1_g266220' => 'hma', 'Hma1.2p1_2167F.1_g315895' => 'hma', 'Hma1.2p1_2190F.1_g316640' => 'hma', 'Hma1.2p1_3645F.1_g337153' => 'hma', 'HPP92_004907' => 'vpl', 'HPP92_012134' => 'vpl', 'HPP92_025136' => 'vpl', 'HPP92_026087' => 'vpl', 'Hund06782' => 'sun', 'Hund06784' => 'sun', 'Lalb_Chr01g0004861' => 'lal', 'Lalb_Chr02g0140591' => 'lal', 'Lalb_Chr02g0140611' => 'lal', 'Lalb_Chr03g0028101' => 'lal', 'Lalb_Chr07g0185791' => 'lal', 'Lalb_Chr12g0204491' => 'lal', 'Lalb_Chr13g0295671' => 'lal', 'Lalb_Chr19g0136461' => 'lal', 'Lalb_Chr21g0309191' => 'lal', 'Lj1g0028158' => 'lja', 'Lj1P236T38' => 'lonja', 'Lj2C32G2' => 'lonja', 'Lj2P944T8' => 'lonja', 'Lj2P963T15' => 'lonja', 'Lj3g0011788' => 'lja', 'Lj4g0025027' => 'lja', 'Lj5P255T36' => 'lonja', 'Lj6g0018866' => 'lja', 'Lj6P608T31' => 'lonja', 'LjContig00408g0008879' => 'lja', 'Lsat_1_v5_gn_5_105820' => 'lsa', 'Lsat_1_v5_gn_6_38800' => 'lsa', 'Lsat_1_v5_gn_7_67141' => 'lsa', 'Manes.04G003400' => 'mes', 'Manes.07G020000' => 'mes', 'Manes.07G020100' => 'mes', 'Manes.07G020150' => 'mes', 'Manes.10G061500' => 'mes', 'Manes.10G123200' => 'mes', 'Manes.11G161900' => 'mes', 'Manes.15G029300' => 'mes', 'Mapoly0071s0018' => 'mpo', 'Mapoly0082s0023' => 'mpo', 'Mapoly3477s0001' => 'mpo', 'MBI05_g31233_MAGBIO' => 'mbi', 'MBI09_g05946_MAGBIO' => 'mbi', 'MBI09_g05947_MAGBIO' => 'mbi', 'MBI17_g08346_MAGBIO' => 'mbi', 'MCO04G038' => 'mco', 'MCO09G370' => 'mco', 'MCO13G605' => 'mco', 'MD00G1075500' => 'mdo', 'MD03G1144300' => 'mdo', 'MD08G1236800' => 'mdo', 'MD13G1193300' => 'mdo', 'MD15G1428700' => 'mdo', 'Medtr1g112030' => 'mtr', 'Medtr1g112050' => 'mtr', 'Medtr2g006290' => 'mtr', 'Medtr2g086510' => 'mtr', 'Medtr4g053120' => 'mtr', 'Medtr5g006320' => 'mtr', 'Medtr8g088720' => 'mtr', 'MELO3C004712.2' => 'cme', 'MELO3C006533.2' => 'cme', 'MELO3C019438.2' => 'cme', 'MELO3C019440.2' => 'cme', 'MELO3C019441.2' => 'cme', 'MELO3C019895.2' => 'cme', 'Migut.B00811' => 'egut', 'Migut.D02447' => 'egut', 'Migut.F00875' => 'egut', 'Migut.N00186' => 'egut', 'Migut.N01051' => 'egut', 'Migut.N02491' => 'egut', 'Migut.O00784' => 'egut', 'MSTRG.12367' => 'ama', 'MSTRG.18756' => 'ama', 'MSTRG.21042' => 'ama', 'Nitab4.5_0000559g0040' => 'nta', 'Nitab4.5_0000667g0190' => 'nta', 'Nitab4.5_0000755g0160' => 'nta', 'Nitab4.5_0001216g0080' => 'nta', 'Nitab4.5_0004069g0040' => 'nta', 'Nitab4.5_0004129g0010' => 'nta', 'Nitab4.5_0005744g0030' => 'nta', 'Nitab4.5_0006996g0030' => 'nta', 'Nitab4.5_0008971g0040' => 'nta', 'Nitab4.5_0009769g0020' => 'nta', 'Nitab4.5_0009833g0010' => 'nta', 'Nitab4.5_0013140g0020' => 'nta', 'Nn003s41376' => 'nnu', 'Nn1g01857' => 'nnu', 'Nn1g03611' => 'nnu', 'Nn1g06853' => 'nnu', 'Nn3g18360' => 'nnu', 'Nn4g26328' => 'nnu', 'Nn5g27531' => 'nnu', 'Nn6g34899' => 'nnu', 'Nn7g36299' => 'nnu', 'Oeu021485.1' => 'oeu', 'Oeu022433.1' => 'oeu', 'Oeu032111.1' => 'oeu', 'Oeu051608.1' => 'oeu', 'Os01g0860601' => 'osa', 'Os03g0659200' => 'osa', 'Os03g0835900' => 'osa', 'Os04g0412200' => 'osa', 'Os05g0443500' => 'osa', 'Os07g0251500' => 'osa', 'Os08g0104600' => 'osa', 'Peaxi162Scf00003g00047' => 'pax', 'Peaxi162Scf00003g00052' => 'pax', 'Peaxi162Scf00003g00394' => 'pax', 'Peaxi162Scf00091g00621' => 'pax', 'Peaxi162Scf00152g00146' => 'pax', 'Peaxi162Scf00173g00025' => 'pax', 'Peaxi162Scf00195g00102' => 'pax', 'Peaxi162Scf00402g00013' => 'pax', 'Peaxi162Scf00519g00618' => 'pax', 'PGR004G2838' => 'pgr', 'PGR044G2275' => 'pgr', 'PGR102G1377' => 'pgr', 'PGR119G1245' => 'pgr', 'PGR142G4449' => 'pgr', 'PGSC0003DMG400004532' => 'stu', 'PGSC0003DMG400011950' => 'stu', 'PGSC0003DMG400023391' => 'stu', 'PGSC0003DMG400023985' => 'stu', 'PGSC0003DMG400026360' => 'stu', 'PGSC0003DMG400035711' => 'stu', 'PGSC0003DMG400037286' => 'stu', 'PGSC0003DMG402005881' => 'stu', 'Phvul.002G045400' => 'pvu', 'Phvul.006G216600' => 'pvu', 'Phvul.006G216700' => 'pvu', 'Phvul.006G216800' => 'pvu', 'Phvul.007G022500' => 'pvu', 'Phvul.011G094400' => 'pvu', 'Potri.001G470700' => 'ptr', 'Potri.003G015200' => 'ptr', 'Potri.004G202500' => 'ptr', 'Potri.004G218400' => 'ptr', 'Potri.008G020100' => 'ptr', 'Potri.008G153200' => 'ptr', 'Potri.009G163800' => 'ptr', 'Potri.010G087300' => 'ptr', 'Potri.010G239100' => 'ptr', 'Pp3c10_16100' => 'ppa', 'Pp3c10_16880' => 'ppa', 'Pp3c16_6230' => 'ppa', 'Pp3c17_18910' => 'ppa', 'Pp3c3_22119' => 'ppa', 'Pp3c3_22140' => 'ppa', 'Pp3c4_8159' => 'ppa', 'Pp3c4_8171' => 'ppa', 'Pp3c4_8330' => 'ppa', 'PRCOL_00004098' => 'pco', 'Prupe.1G013900' => 'ppe', 'Prupe.1G226300' => 'ppe', 'Prupe.1G573600' => 'ppe', 'Prupe.6G130100' => 'ppe', 'Psat3g090040' => 'psa', 'Psat4g210440' => 'psa', 'Psat6g231040' => 'psa', 'Psat6g231080' => 'psa', 'Psat7g063000' => 'psa', 'Psat7g188000' => 'psa', 'Psat7g188040' => 'psa', 'PSO017G0206' => 'pso', 'PSO170G0501' => 'pso', 'PSO170G6422' => 'pso', 'PSO210G7739' => 'pso', 'PSO339G1808' => 'pso', 'PSO339G6135' => 'pso', 'PSO384G0010' => 'pso', 'PSO384G0964' => 'pso', 'PSO761G0050' => 'pso', 'PSO782G4085' => 'pso', 'QL01p012264' => 'qlo', 'QL02p099491' => 'qlo', 'QL03p033868' => 'qlo', 'QL04p046678' => 'qlo', 'QL06p002448' => 'qlo', 'RcHm_v2.0_Chr4g0416181' => 'rch', 'RcHm_v2.0_Chr5g0044701' => 'rch', 'RcHm_v2.0_Chr6g0265781' => 'rch', 'RcHm_v2.0_Chr7g0221031' => 'rch', 'Rhsim04G0202000' => 'rsi', 'Rhsim11G0127300' => 'rsi', 'Rhsim13G0111800' => 'rsi', 'Sabra01G0165600' => 'sbr', 'Sabra03G0008300' => 'sbr', 'Sabra04G0136900' => 'sbr', 'Sabra08G0013400' => 'sbr', 'Sabra08G0116800' => 'sbr', 'Sabra09G0128000' => 'sbr', 'Sabra10G0055500' => 'sbr', 'Sabra10G0073300' => 'sbr', 'SalBow3G0385' => 'sbo', 'SalBow3G1119' => 'sbo', 'SalBow3G2005' => 'sbo', 'SalBow6G2563' => 'sbo', 'SalBow6G6386' => 'sbo', 'Sc06g0008800' => 'sci', 'Sc07g0004950' => 'sci', 'Sc09g0005340' => 'sci', 'Sc13g0004410' => 'sci', 'Sc21g0007090' => 'sci', 'Sed0009285' => 'sed', 'Sed0017583' => 'sed', 'Sed0019699' => 'sed', 'Sed0023107' => 'sed', 'SEGI_10916' => 'sgi', 'SEGI_16217' => 'sgi', 'SEGI_19466' => 'sgi', 'SEGI_41115' => 'sgi', 'SGA_v2.0_scaffold111G31534' => 'sas', 'SGA_v2.0_scaffold22G09864' => 'sas', 'SGA_v2.0_scaffold338G49219' => 'sas', 'SGA_v2.0_scaffold92G28298' => 'sas', 'SMO119G0064' => 'smo', 'SMO223G0038' => 'smo', 'SMO347G0584' => 'smo', 'SMO351G0010' => 'smo', 'SMO356G0404' => 'smo', 'Solyc01g103920.3' => 'sly', 'Solyc04g009710.2' => 'sly', 'Solyc05g055280.2' => 'sly', 'Solyc10g044520.3' => 'sly', 'Solyc10g075160.1' => 'sly', 'Solyc11g006910.3' => 'sly', 'Solyc11g068430.3' => 'sly', 'Sopen01g046310' => 'spe', 'Sopen03g001200' => 'spe', 'Sopen04g004830' => 'spe', 'Sopen05g033720' => 'spe', 'Sopen06g030740' => 'spe', 'Sopen10g013090' => 'spe', 'Sopen10g027630' => 'spe', 'Sopen10g027640' => 'spe', 'Sopen11g002820' => 'spe', 'Sopen11g027140' => 'spe', 'Sp1g09680' => 'spa', 'Sp2g03630' => 'spa', 'Sp4g10320' => 'spa', 'Sp6g33400' => 'spa', 'Sp7g13030' => 'spa', 'TAR365G0317' => 'tar', 'TAR376G0979' => 'tar', 'TAR623G1665' => 'tar', 'TAR633G2373' => 'tar', 'TAR636G1400' => 'tar', 'THA.LOC104800529' => 'tha', 'THA.LOC104808547' => 'tha', 'THA.LOC104809615' => 'tha', 'THA.LOC104815724' => 'tha', 'THA.LOC104818480' => 'tha', 'THA.LOC104819179' => 'tha', 'THA.LOC104822270' => 'tha', 'THA.LOC104826425' => 'tha', 'Thecc.02G089700' => 'tca', 'Thecc.04G232300' => 'tca', 'Thecc.09G283400' => 'tca', 'Thhalv10009020m.g' => 'esa', 'Thhalv10015506m.g' => 'esa', 'Thhalv10017364m.g' => 'esa', 'Thhalv10023742m.g' => 'esa', 'Thhalv10026483m.g' => 'esa', 'TPR.G17232' => 'tpr', 'TPR.G2133' => 'tpr', 'TPR.G2498' => 'tpr', 'TPR.G31942' => 'tpr', 'TPR.G37877' => 'tpr', 'TPR.G4571' => 'tpr', 'TWI14G1113' => 'twi', 'TWI15G0426' => 'twi', 'TWI31G1005' => 'twi', 'TWI38G0513' => 'twi', 'TWI38G1484' => 'twi', 'TWI73G1098' => 'twi', 'unitig_26.g10519' => 'ugi', 'unitig_736.g22395' => 'ugi', 'unitig_747.g21234' => 'ugi', 'unitig_747.g21942' => 'ugi', 'vmacro14351' => 'vma', 'VMungo0540G0082' => 'vmu', 'VMungo0540G0405' => 'vmu', 'VMungo0540G1486' => 'vmu', 'VMungo0540G1692' => 'vmu', 'VMungo0720G2473' => 'vmu', 'VMungo1127G1562' => 'vmu', 'VMungo1215G1918' => 'vmu', 'Zm00001eb052650' => 'zma', 'Zm00001eb063710' => 'zma', 'Zm00001eb083950' => 'zma', 'Zm00001eb174420' => 'zma', 'Zm00001eb260140' => 'zma', 'Zm00001eb260150' => 'zma', 'Zm00001eb260160' => 'zma', 'Zm00001eb348290' => 'zma', 'Zm00001eb366870' => 'zma', 'Zm00001eb421930' => 'zma' ), 'gf_id' => 'HOM05D001025', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001025' ), 'data_identifier' => 'HOM05D001025', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001025', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '592', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p22650' => 'bna', 'A01p29720' => 'bna', 'A03p26560' => 'bna', 'A03p68820' => 'bna', 'A04p20980' => 'bna', 'A06p07730' => 'bna', 'A07p18260' => 'bna', 'A08p33710' => 'bna', 'A09p16970' => 'bna', 'A10p27490' => 'bna', 'Aa31LG1G17300' => 'aar', 'Aa31LG1G3910' => 'aar', 'Aa31LG2G9630' => 'aar', 'Aa31LG5G8360' => 'aar', 'Aa31LG9G2410' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4699' => 'aag', 'Actinidia23512' => 'ach', 'Actinidia37080' => 'ach', 'Ah.01g020380' => 'amhyb', 'Ah.08g215710' => 'amhyb', 'Ah.09g225110' => 'amhyb', 'Ah.10g036680' => 'amhyb', 'AL1G21940' => 'aly', 'AL2G15540' => 'aly', 'AL4G21520' => 'aly', 'AL7G40960' => 'aly', 'Aqoxy2G01191' => 'aox', 'Aqoxy2G03393' => 'aox', 'Aqoxy4G02775' => 'aox', 'Aqoxy6G00058' => 'aox', 'arahy.Tifrunner.gnm1.ann1.9X74H2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CW3FX9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R485W7' => 'arhy', 'AT1G10960' => 'ath', 'AT1G60950' => 'ath', 'AT2G27510' => 'ath', 'AT4G14890' => 'ath', 'AT5G10000' => 'ath', 'ATR0665G624' => 'atr', 'ATR0697G138' => 'atr', 'ATR0776G046' => 'atr', 'ATR1134G135' => 'atr', 'Atru.chr12.1025' => 'acertr', 'Atru.chr3.3241' => 'acertr', 'Atru.chr4.2460' => 'acertr', 'AUR62007427' => 'cqu', 'AUR62010960' => 'cqu', 'AUR62012201' => 'cqu', 'AUR62021470' => 'cqu', 'AUR62022834' => 'cqu', 'AUR62033635' => 'cqu', 'AUR62036186' => 'cqu', 'BcaB01g03077' => 'bca', 'BcaB02g10093' => 'bca', 'BcaB04g20295' => 'bca', 'BcaB06g28147' => 'bca', 'BcaB07g31253' => 'bca', 'BcaC01g04946' => 'bca', 'BcaC02g10614' => 'bca', 'BcaC02g10885' => 'bca', 'BcaC04g19356' => 'bca', 'BcaC04g22297' => 'bca', 'BcaC05g24977' => 'bca', 'BcaC06g31823' => 'bca', 'BcaC07g38633' => 'bca', 'BcaC09g49353' => 'bca', 'BcaC09g50168' => 'bca', 'BcaNung00322' => 'bca', 'BcaNung04769' => 'bca', 'BolC1t02753H' => 'bol', 'BolC1t03721H' => 'bol', 'BolC3t15525H' => 'bol', 'BolC4t23903H' => 'bol', 'BolC4t24231H' => 'bol', 'BolC4t27209H' => 'bol', 'BolC5t29671H' => 'bol', 'BolC8t49044H' => 'bol', 'BolC9t54999H' => 'bol', 'BolC9t59517H' => 'bol', 'BraA01t02178Z' => 'bra', 'BraA01t03099Z' => 'bra', 'BraA03t11867Z' => 'bra', 'BraA04t17667Z' => 'bra', 'BraA07t29542Z' => 'bra', 'BraA08t35287Z' => 'bra', 'BraA09t37334Z' => 'bra', 'BraA10t44801Z' => 'bra', 'BraSC39t46181Z' => 'bra', 'C01p28240' => 'bna', 'C01p37530' => 'bna', 'C03p31820' => 'bna', 'C04p24080' => 'bna', 'C04p25790' => 'bna', 'C04p56770' => 'bna', 'C05p09310' => 'bna', 'C09p21010' => 'bna', 'C09p67560' => 'bna', 'CAN.G1324.7' => 'can', 'CAN.G1358.10' => 'can', 'CAN.G1550.2' => 'can', 'CAN.G186.56' => 'can', 'CAN.G1965.1' => 'can', 'CAN.G645.15' => 'can', 'CAN.G798.26' => 'can', 'CAN.G798.27' => 'can', 'CAN.G798.29' => 'can', 'CAN.G919.31' => 'can', 'CANSAT11G0133' => 'cansat', 'CANSAT11G1171' => 'cansat', 'CANSAT11G2056' => 'cansat', 'CANSAT56G1202' => 'cansat', 'CANSAT56G1514' => 'cansat', 'CANSAT78G0455' => 'cansat', 'CARHR011190' => 'chi', 'CARHR051980' => 'chi', 'CARHR120170' => 'chi', 'CARHR203310' => 'chi', 'CARHR221490' => 'chi', 'Carub.0001s1054' => 'cru', 'Carub.0002s0431' => 'cru', 'Carub.0004s0818' => 'cru', 'Carub.0006s0846' => 'cru', 'Carub.0007s2722' => 'cru', 'Ca_00058_v3' => 'car', 'Ca_17831_v3' => 'car', 'Ca_19408_v3' => 'car', 'Ca_24397_v3' => 'car', 'Ca_25664_v3' => 'car', 'CBR_g21818' => 'cbr', 'CBR_g31195' => 'cbr', 'CBR_g32282' => 'cbr', 'CBR_g39599' => 'cbr', 'CBR_g49410' => 'cbr', 'Cc01_g09120' => 'ccan', 'Cc01_g09130' => 'ccan', 'Cc02_g09630' => 'ccan', 'Cc02_g22810' => 'ccan', 'Cc03_g03810' => 'ccan', 'CDE02G3718' => 'cde', 'CDE04G3183' => 'cde', 'CDE07G1046' => 'cde', 'CDE08G0480' => 'cde', 'Cfa005493' => 'cfa', 'Cfa010312' => 'cfa', 'Cfa015648' => 'cfa', 'Ciclev10002793m.g' => 'ccl', 'Ciclev10003356m.g' => 'ccl', 'Ciclev10006141m.g' => 'ccl', 'Ciclev10016676m.g' => 'ccl', 'Ciclev10017081m.g' => 'ccl', 'Ciclev10029499m.g' => 'ccl', 'CiPaw.01G166300' => 'cil', 'CiPaw.06G145600' => 'cil', 'CiPaw.13G040100' => 'cil', 'CiPaw.13G135800' => 'cil', 'ClCG01G012230' => 'cla', 'ClCG05G009510' => 'cla', 'ClCG08G008270' => 'cla', 'COL.COLO4_11763' => 'col', 'COL.COLO4_19876' => 'col', 'COL.COLO4_21481' => 'col', 'Cpa.g.sc118.34' => 'cpa', 'Cpa.g.sc32.13' => 'cpa', 'Cpa.g.sc58.103' => 'cpa', 'Cre03.g183850' => 'cre', 'Cre06.g306350' => 'cre', 'Cre07.g334800' => 'cre', 'Cre12.g487900' => 'cre', 'Cre14.g626700' => 'cre', 'Cre16.g658400' => 'cre', 'Cre17.g700950' => 'cre', 'CsaV3_1G014830' => 'csa', 'CsaV3_3G013320' => 'csa', 'CsaV3_3G019210' => 'csa', 'CsaV3_3G019220' => 'csa', 'CsaV3_6G004230' => 'csa', 'CSS0003773' => 'camsi', 'CSS0004563' => 'camsi', 'CSS0013949' => 'camsi', 'CSS0025971' => 'camsi', 'CSS0028570' => 'camsi', 'CSS0033127' => 'camsi', 'CSS0036051' => 'camsi', 'CSS0040087' => 'camsi', 'CSS0043179' => 'camsi', 'DCAR_006161' => 'dca', 'DCAR_010351' => 'dca', 'DCAR_012197' => 'dca', 'DCAR_024162' => 'dca', 'Dinv01030' => 'din', 'Dinv10924' => 'din', 'Dinv11835' => 'din', 'Dinv22841' => 'din', 'Dinv42553' => 'din', 'Duzib052G0560' => 'dzi', 'Duzib132G0389' => 'dzi', 'Duzib150G1181' => 'dzi', 'Duzib168G0623' => 'dzi', 'Duzib170G1036' => 'dzi', 'Duzib212G0200' => 'dzi', 'Duzib248G0194' => 'dzi', 'ECA232G2193' => 'eca', 'ECA233G0302' => 'eca', 'ECA234G2813' => 'eca', 'ECA234G4866' => 'eca', 'ECA240G3932' => 'eca', 'ECA248G0385' => 'eca', 'EL10Ac2g04781' => 'bvu', 'EL10Ac3g06445' => 'bvu', 'EL10Ac7g15825' => 'bvu', 'EL10Ac8g18550' => 'bvu', 'Eucgr.B03849' => 'egr', 'Eucgr.I02744' => 'egr', 'Eucgr.J00264' => 'egr', 'Eucgr.J00493' => 'egr', 'FAN04G2181' => 'fan', 'FAN07G2666' => 'fan', 'FAN11G0024' => 'fan', 'FAN12G1105' => 'fan', 'FAN13G0302' => 'fan', 'FAN15G2781' => 'fan', 'FAN16G1274' => 'fan', 'FAN17G2988' => 'fan', 'FAN18G2621' => 'fan', 'FAN21G0013' => 'fan', 'FAN22G1211' => 'fan', 'FAN25G3626' => 'fan', 'FvH4_2g09491' => 'fve', 'FvH4_3g24910' => 'fve', 'FvH4_4g15630' => 'fve', 'FvH4_5g28820' => 'fve', 'Glyma.01G238000' => 'gma', 'Glyma.05G168400' => 'gma', 'Glyma.08G126800' => 'gma', 'Glyma.08G188500' => 'gma', 'Glyma.10G278900' => 'gma', 'Glyma.11G005700' => 'gma', 'Glyma.11G183300' => 'gma', 'Glyma.12G089200' => 'gma', 'Glyma.12G169400' => 'gma', 'Glyma.12G169500' => 'gma', 'Glyma.12G169600' => 'gma', 'Glyma.20G110800' => 'gma', 'Gohir.A03G192900' => 'ghi', 'Gohir.A03G193000' => 'ghi', 'Gohir.A05G080700' => 'ghi', 'Gohir.A09G216000' => 'ghi', 'Gohir.A12G027700' => 'ghi', 'Gohir.A13G036200' => 'ghi', 'Gohir.A13G222600' => 'ghi', 'Gohir.D02G213900' => 'ghi', 'Gohir.D02G214000' => 'ghi', 'Gohir.D05G083700' => 'ghi', 'Gohir.D05G083800' => 'ghi', 'Gohir.D05G083850' => 'ghi', 'Gohir.D08G015400' => 'ghi', 'Gohir.D09G218400' => 'ghi', 'Gohir.D12G027100' => 'ghi', 'Gohir.D13G034500' => 'ghi', 'Gohir.D13G227400' => 'ghi', 'Gorai.005G241800' => 'gra', 'Gorai.005G241900' => 'gra', 'Gorai.006G239400' => 'gra', 'Gorai.008G027600' => 'gra', 'Gorai.009G085400' => 'gra', 'Gorai.009G085500' => 'gra', 'Gorai.013G039000' => 'gra', 'Gorai.013G194800' => 'gra', 'Gorai.013G257900' => 'gra', 'GSVIVG01000982001' => 'vvi', 'GSVIVG01017981001' => 'vvi', 'HanXRQChr01g0024061' => 'han', 'HanXRQChr09g0247831' => 'han', 'HanXRQChr10g0294611' => 'han', 'HanXRQChr10g0294621' => 'han', 'HanXRQChr11g0346821' => 'han', 'HanXRQChr13g0397461' => 'han', 'HanXRQChr16g0513651' => 'han', 'HanXRQChr16g0513701' => 'han', 'Haze_00897' => 'cav', 'Haze_01745' => 'cav', 'Haze_02486' => 'cav', 'Haze_02487' => 'cav', 'Haze_23374' => 'cav', 'Hma1.2p1_0578F.1_g182520' => 'hma', 'Hma1.2p1_0602F.1_g187350' => 'hma', 'Hma1.2p1_0602F.1_g187360' => 'hma', 'Hma1.2p1_0874F.1_g231320' => 'hma', 'Hma1.2p1_1197F.1_g266210' => 'hma', 'Hma1.2p1_1197F.1_g266220' => 'hma', 'Hma1.2p1_2167F.1_g315895' => 'hma', 'Hma1.2p1_2190F.1_g316640' => 'hma', 'Hma1.2p1_3645F.1_g337153' => 'hma', 'HPP92_004907' => 'vpl', 'HPP92_012134' => 'vpl', 'HPP92_025136' => 'vpl', 'HPP92_026087' => 'vpl', 'Hund06782' => 'sun', 'Hund06784' => 'sun', 'Lalb_Chr01g0004861' => 'lal', 'Lalb_Chr02g0140591' => 'lal', 'Lalb_Chr02g0140611' => 'lal', 'Lalb_Chr03g0028101' => 'lal', 'Lalb_Chr07g0185791' => 'lal', 'Lalb_Chr12g0204491' => 'lal', 'Lalb_Chr13g0295671' => 'lal', 'Lalb_Chr19g0136461' => 'lal', 'Lalb_Chr21g0309191' => 'lal', 'Lj1g0028158' => 'lja', 'Lj1P236T38' => 'lonja', 'Lj2C32G2' => 'lonja', 'Lj2P944T8' => 'lonja', 'Lj2P963T15' => 'lonja', 'Lj3g0011788' => 'lja', 'Lj4g0025027' => 'lja', 'Lj5P255T36' => 'lonja', 'Lj6g0018866' => 'lja', 'Lj6P608T31' => 'lonja', 'LjContig00408g0008879' => 'lja', 'Lsat_1_v5_gn_5_105820' => 'lsa', 'Lsat_1_v5_gn_6_38800' => 'lsa', 'Lsat_1_v5_gn_7_67141' => 'lsa', 'Manes.04G003400' => 'mes', 'Manes.07G020000' => 'mes', 'Manes.07G020100' => 'mes', 'Manes.07G020150' => 'mes', 'Manes.10G061500' => 'mes', 'Manes.10G123200' => 'mes', 'Manes.11G161900' => 'mes', 'Manes.15G029300' => 'mes', 'Mapoly0071s0018' => 'mpo', 'Mapoly0082s0023' => 'mpo', 'Mapoly3477s0001' => 'mpo', 'MBI05_g31233_MAGBIO' => 'mbi', 'MBI09_g05946_MAGBIO' => 'mbi', 'MBI09_g05947_MAGBIO' => 'mbi', 'MBI17_g08346_MAGBIO' => 'mbi', 'MCO04G038' => 'mco', 'MCO09G370' => 'mco', 'MCO13G605' => 'mco', 'MD00G1075500' => 'mdo', 'MD03G1144300' => 'mdo', 'MD08G1236800' => 'mdo', 'MD13G1193300' => 'mdo', 'MD15G1428700' => 'mdo', 'Medtr1g112030' => 'mtr', 'Medtr1g112050' => 'mtr', 'Medtr2g006290' => 'mtr', 'Medtr2g086510' => 'mtr', 'Medtr4g053120' => 'mtr', 'Medtr5g006320' => 'mtr', 'Medtr8g088720' => 'mtr', 'MELO3C004712.2' => 'cme', 'MELO3C006533.2' => 'cme', 'MELO3C019438.2' => 'cme', 'MELO3C019440.2' => 'cme', 'MELO3C019441.2' => 'cme', 'MELO3C019895.2' => 'cme', 'Migut.B00811' => 'egut', 'Migut.D02447' => 'egut', 'Migut.F00875' => 'egut', 'Migut.N00186' => 'egut', 'Migut.N01051' => 'egut', 'Migut.N02491' => 'egut', 'Migut.O00784' => 'egut', 'MSTRG.12367' => 'ama', 'MSTRG.18756' => 'ama', 'MSTRG.21042' => 'ama', 'Nitab4.5_0000559g0040' => 'nta', 'Nitab4.5_0000667g0190' => 'nta', 'Nitab4.5_0000755g0160' => 'nta', 'Nitab4.5_0001216g0080' => 'nta', 'Nitab4.5_0004069g0040' => 'nta', 'Nitab4.5_0004129g0010' => 'nta', 'Nitab4.5_0005744g0030' => 'nta', 'Nitab4.5_0006996g0030' => 'nta', 'Nitab4.5_0008971g0040' => 'nta', 'Nitab4.5_0009769g0020' => 'nta', 'Nitab4.5_0009833g0010' => 'nta', 'Nitab4.5_0013140g0020' => 'nta', 'Nn003s41376' => 'nnu', 'Nn1g01857' => 'nnu', 'Nn1g03611' => 'nnu', 'Nn1g06853' => 'nnu', 'Nn3g18360' => 'nnu', 'Nn4g26328' => 'nnu', 'Nn5g27531' => 'nnu', 'Nn6g34899' => 'nnu', 'Nn7g36299' => 'nnu', 'Oeu021485.1' => 'oeu', 'Oeu022433.1' => 'oeu', 'Oeu032111.1' => 'oeu', 'Oeu051608.1' => 'oeu', 'Os01g0860601' => 'osa', 'Os03g0659200' => 'osa', 'Os03g0835900' => 'osa', 'Os04g0412200' => 'osa', 'Os05g0443500' => 'osa', 'Os07g0251500' => 'osa', 'Os08g0104600' => 'osa', 'Peaxi162Scf00003g00047' => 'pax', 'Peaxi162Scf00003g00052' => 'pax', 'Peaxi162Scf00003g00394' => 'pax', 'Peaxi162Scf00091g00621' => 'pax', 'Peaxi162Scf00152g00146' => 'pax', 'Peaxi162Scf00173g00025' => 'pax', 'Peaxi162Scf00195g00102' => 'pax', 'Peaxi162Scf00402g00013' => 'pax', 'Peaxi162Scf00519g00618' => 'pax', 'PGR004G2838' => 'pgr', 'PGR044G2275' => 'pgr', 'PGR102G1377' => 'pgr', 'PGR119G1245' => 'pgr', 'PGR142G4449' => 'pgr', 'PGSC0003DMG400004532' => 'stu', 'PGSC0003DMG400011950' => 'stu', 'PGSC0003DMG400023391' => 'stu', 'PGSC0003DMG400023985' => 'stu', 'PGSC0003DMG400026360' => 'stu', 'PGSC0003DMG400035711' => 'stu', 'PGSC0003DMG400037286' => 'stu', 'PGSC0003DMG402005881' => 'stu', 'Phvul.002G045400' => 'pvu', 'Phvul.006G216600' => 'pvu', 'Phvul.006G216700' => 'pvu', 'Phvul.006G216800' => 'pvu', 'Phvul.007G022500' => 'pvu', 'Phvul.011G094400' => 'pvu', 'Potri.001G470700' => 'ptr', 'Potri.003G015200' => 'ptr', 'Potri.004G202500' => 'ptr', 'Potri.004G218400' => 'ptr', 'Potri.008G020100' => 'ptr', 'Potri.008G153200' => 'ptr', 'Potri.009G163800' => 'ptr', 'Potri.010G087300' => 'ptr', 'Potri.010G239100' => 'ptr', 'Pp3c10_16100' => 'ppa', 'Pp3c10_16880' => 'ppa', 'Pp3c16_6230' => 'ppa', 'Pp3c17_18910' => 'ppa', 'Pp3c3_22119' => 'ppa', 'Pp3c3_22140' => 'ppa', 'Pp3c4_8159' => 'ppa', 'Pp3c4_8171' => 'ppa', 'Pp3c4_8330' => 'ppa', 'PRCOL_00004098' => 'pco', 'Prupe.1G013900' => 'ppe', 'Prupe.1G226300' => 'ppe', 'Prupe.1G573600' => 'ppe', 'Prupe.6G130100' => 'ppe', 'Psat3g090040' => 'psa', 'Psat4g210440' => 'psa', 'Psat6g231040' => 'psa', 'Psat6g231080' => 'psa', 'Psat7g063000' => 'psa', 'Psat7g188000' => 'psa', 'Psat7g188040' => 'psa', 'PSO017G0206' => 'pso', 'PSO170G0501' => 'pso', 'PSO170G6422' => 'pso', 'PSO210G7739' => 'pso', 'PSO339G1808' => 'pso', 'PSO339G6135' => 'pso', 'PSO384G0010' => 'pso', 'PSO384G0964' => 'pso', 'PSO761G0050' => 'pso', 'PSO782G4085' => 'pso', 'QL01p012264' => 'qlo', 'QL02p099491' => 'qlo', 'QL03p033868' => 'qlo', 'QL04p046678' => 'qlo', 'QL06p002448' => 'qlo', 'RcHm_v2.0_Chr4g0416181' => 'rch', 'RcHm_v2.0_Chr5g0044701' => 'rch', 'RcHm_v2.0_Chr6g0265781' => 'rch', 'RcHm_v2.0_Chr7g0221031' => 'rch', 'Rhsim04G0202000' => 'rsi', 'Rhsim11G0127300' => 'rsi', 'Rhsim13G0111800' => 'rsi', 'Sabra01G0165600' => 'sbr', 'Sabra03G0008300' => 'sbr', 'Sabra04G0136900' => 'sbr', 'Sabra08G0013400' => 'sbr', 'Sabra08G0116800' => 'sbr', 'Sabra09G0128000' => 'sbr', 'Sabra10G0055500' => 'sbr', 'Sabra10G0073300' => 'sbr', 'SalBow3G0385' => 'sbo', 'SalBow3G1119' => 'sbo', 'SalBow3G2005' => 'sbo', 'SalBow6G2563' => 'sbo', 'SalBow6G6386' => 'sbo', 'Sc06g0008800' => 'sci', 'Sc07g0004950' => 'sci', 'Sc09g0005340' => 'sci', 'Sc13g0004410' => 'sci', 'Sc21g0007090' => 'sci', 'Sed0009285' => 'sed', 'Sed0017583' => 'sed', 'Sed0019699' => 'sed', 'Sed0023107' => 'sed', 'SEGI_10916' => 'sgi', 'SEGI_16217' => 'sgi', 'SEGI_19466' => 'sgi', 'SEGI_41115' => 'sgi', 'SGA_v2.0_scaffold111G31534' => 'sas', 'SGA_v2.0_scaffold22G09864' => 'sas', 'SGA_v2.0_scaffold338G49219' => 'sas', 'SGA_v2.0_scaffold92G28298' => 'sas', 'SMO119G0064' => 'smo', 'SMO223G0038' => 'smo', 'SMO347G0584' => 'smo', 'SMO351G0010' => 'smo', 'SMO356G0404' => 'smo', 'Solyc01g103920.3' => 'sly', 'Solyc04g009710.2' => 'sly', 'Solyc05g055280.2' => 'sly', 'Solyc10g044520.3' => 'sly', 'Solyc10g075160.1' => 'sly', 'Solyc11g006910.3' => 'sly', 'Solyc11g068430.3' => 'sly', 'Sopen01g046310' => 'spe', 'Sopen03g001200' => 'spe', 'Sopen04g004830' => 'spe', 'Sopen05g033720' => 'spe', 'Sopen06g030740' => 'spe', 'Sopen10g013090' => 'spe', 'Sopen10g027630' => 'spe', 'Sopen10g027640' => 'spe', 'Sopen11g002820' => 'spe', 'Sopen11g027140' => 'spe', 'Sp1g09680' => 'spa', 'Sp2g03630' => 'spa', 'Sp4g10320' => 'spa', 'Sp6g33400' => 'spa', 'Sp7g13030' => 'spa', 'TAR365G0317' => 'tar', 'TAR376G0979' => 'tar', 'TAR623G1665' => 'tar', 'TAR633G2373' => 'tar', 'TAR636G1400' => 'tar', 'THA.LOC104800529' => 'tha', 'THA.LOC104808547' => 'tha', 'THA.LOC104809615' => 'tha', 'THA.LOC104815724' => 'tha', 'THA.LOC104818480' => 'tha', 'THA.LOC104819179' => 'tha', 'THA.LOC104822270' => 'tha', 'THA.LOC104826425' => 'tha', 'Thecc.02G089700' => 'tca', 'Thecc.04G232300' => 'tca', 'Thecc.09G283400' => 'tca', 'Thhalv10009020m.g' => 'esa', 'Thhalv10015506m.g' => 'esa', 'Thhalv10017364m.g' => 'esa', 'Thhalv10023742m.g' => 'esa', 'Thhalv10026483m.g' => 'esa', 'TPR.G17232' => 'tpr', 'TPR.G2133' => 'tpr', 'TPR.G2498' => 'tpr', 'TPR.G31942' => 'tpr', 'TPR.G37877' => 'tpr', 'TPR.G4571' => 'tpr', 'TWI14G1113' => 'twi', 'TWI15G0426' => 'twi', 'TWI31G1005' => 'twi', 'TWI38G0513' => 'twi', 'TWI38G1484' => 'twi', 'TWI73G1098' => 'twi', 'unitig_26.g10519' => 'ugi', 'unitig_736.g22395' => 'ugi', 'unitig_747.g21234' => 'ugi', 'unitig_747.g21942' => 'ugi', 'vmacro14351' => 'vma', 'VMungo0540G0082' => 'vmu', 'VMungo0540G0405' => 'vmu', 'VMungo0540G1486' => 'vmu', 'VMungo0540G1692' => 'vmu', 'VMungo0720G2473' => 'vmu', 'VMungo1127G1562' => 'vmu', 'VMungo1215G1918' => 'vmu', 'Zm00001eb052650' => 'zma', 'Zm00001eb063710' => 'zma', 'Zm00001eb083950' => 'zma', 'Zm00001eb174420' => 'zma', 'Zm00001eb260140' => 'zma', 'Zm00001eb260150' => 'zma', 'Zm00001eb260160' => 'zma', 'Zm00001eb348290' => 'zma', 'Zm00001eb366870' => 'zma', 'Zm00001eb421930' => 'zma' ) $gf_id = 'HOM05D001025' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001025' ) $data_identifier = 'HOM05D001025' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 19, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 2, 'amhyb' => (int) 4, 'aly' => (int) 4, 'aox' => (int) 4, 'arhy' => (int) 3, 'ath' => (int) 5, 'atr' => (int) 4, 'acertr' => (int) 3, 'cqu' => (int) 7, 'bca' => (int) 17, 'bol' => (int) 10, 'bra' => (int) 9, 'can' => (int) 10, 'cansat' => (int) 6, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 5, 'cbr' => (int) 5, 'ccan' => (int) 5, 'cde' => (int) 4, 'cfa' => (int) 3, 'ccl' => (int) 6, 'cil' => (int) 4, 'cla' => (int) 3, 'col' => (int) 3, 'cpa' => (int) 3, 'cre' => (int) 7, 'csa' => (int) 5, 'camsi' => (int) 9, 'dca' => (int) 4, 'din' => (int) 5, 'dzi' => (int) 7, 'eca' => (int) 6, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 12, 'fve' => (int) 4, 'gma' => (int) 12, 'ghi' => (int) 17, 'gra' => (int) 9, 'vvi' => (int) 2, 'han' => (int) 8, 'cav' => (int) 5, 'hma' => (int) 9, 'vpl' => (int) 4, 'sun' => (int) 2, 'lal' => (int) 9, 'lja' => (int) 5, 'lonja' => (int) 6, 'lsa' => (int) 3, 'mes' => (int) 8, 'mpo' => (int) 3, 'mbi' => (int) 4, 'mco' => (int) 3, 'mdo' => (int) 5, 'mtr' => (int) 7, 'cme' => (int) 6, 'egut' => (int) 7, 'ama' => (int) 3, 'nta' => (int) 12, 'nnu' => (int) 9, 'oeu' => (int) 4, 'osa' => (int) 7, 'pax' => (int) 9, 'pgr' => (int) 5, 'stu' => (int) 8, 'pvu' => (int) 6, 'ptr' => (int) 9, 'ppa' => (int) 9, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 7, 'pso' => (int) 10, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 3, 'sbr' => (int) 8, 'sbo' => (int) 5, 'sci' => (int) 5, 'sed' => (int) 4, 'sgi' => (int) 4, 'sas' => (int) 4, 'smo' => (int) 5, 'sly' => (int) 7, 'spe' => (int) 10, 'spa' => (int) 5, 'tar' => (int) 5, 'tha' => (int) 8, 'tca' => (int) 3, 'esa' => (int) 5, 'tpr' => (int) 6, 'twi' => (int) 6, 'ugi' => (int) 4, 'vma' => (int) 1, 'vmu' => (int) 7, 'zma' => (int) 10 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb421930' $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' => 'HOM05D001025', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '592', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p22650' => 'bna', 'A01p29720' => 'bna', 'A03p26560' => 'bna', 'A03p68820' => 'bna', 'A04p20980' => 'bna', 'A06p07730' => 'bna', 'A07p18260' => 'bna', 'A08p33710' => 'bna', 'A09p16970' => 'bna', 'A10p27490' => 'bna', 'Aa31LG1G17300' => 'aar', 'Aa31LG1G3910' => 'aar', 'Aa31LG2G9630' => 'aar', 'Aa31LG5G8360' => 'aar', 'Aa31LG9G2410' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4699' => 'aag', 'Actinidia23512' => 'ach', 'Actinidia37080' => 'ach', 'Ah.01g020380' => 'amhyb', 'Ah.08g215710' => 'amhyb', 'Ah.09g225110' => 'amhyb', 'Ah.10g036680' => 'amhyb', 'AL1G21940' => 'aly', 'AL2G15540' => 'aly', 'AL4G21520' => 'aly', 'AL7G40960' => 'aly', 'Aqoxy2G01191' => 'aox', 'Aqoxy2G03393' => 'aox', 'Aqoxy4G02775' => 'aox', 'Aqoxy6G00058' => 'aox', 'arahy.Tifrunner.gnm1.ann1.9X74H2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CW3FX9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R485W7' => 'arhy', 'AT1G10960' => 'ath', 'AT1G60950' => 'ath', 'AT2G27510' => 'ath', 'AT4G14890' => 'ath', 'AT5G10000' => 'ath', 'ATR0665G624' => 'atr', 'ATR0697G138' => 'atr', 'ATR0776G046' => 'atr', 'ATR1134G135' => 'atr', 'Atru.chr12.1025' => 'acertr', 'Atru.chr3.3241' => 'acertr', 'Atru.chr4.2460' => 'acertr', 'AUR62007427' => 'cqu', 'AUR62010960' => 'cqu', 'AUR62012201' => 'cqu', 'AUR62021470' => 'cqu', 'AUR62022834' => 'cqu', 'AUR62033635' => 'cqu', 'AUR62036186' => 'cqu', 'BcaB01g03077' => 'bca', 'BcaB02g10093' => 'bca', 'BcaB04g20295' => 'bca', 'BcaB06g28147' => 'bca', 'BcaB07g31253' => 'bca', 'BcaC01g04946' => 'bca', 'BcaC02g10614' => 'bca', 'BcaC02g10885' => 'bca', 'BcaC04g19356' => 'bca', 'BcaC04g22297' => 'bca', 'BcaC05g24977' => 'bca', 'BcaC06g31823' => 'bca', 'BcaC07g38633' => 'bca', 'BcaC09g49353' => 'bca', 'BcaC09g50168' => 'bca', 'BcaNung00322' => 'bca', 'BcaNung04769' => 'bca', 'BolC1t02753H' => 'bol', 'BolC1t03721H' => 'bol', 'BolC3t15525H' => 'bol', 'BolC4t23903H' => 'bol', 'BolC4t24231H' => 'bol', 'BolC4t27209H' => 'bol', 'BolC5t29671H' => 'bol', 'BolC8t49044H' => 'bol', 'BolC9t54999H' => 'bol', 'BolC9t59517H' => 'bol', 'BraA01t02178Z' => 'bra', 'BraA01t03099Z' => 'bra', 'BraA03t11867Z' => 'bra', 'BraA04t17667Z' => 'bra', 'BraA07t29542Z' => 'bra', 'BraA08t35287Z' => 'bra', 'BraA09t37334Z' => 'bra', 'BraA10t44801Z' => 'bra', 'BraSC39t46181Z' => 'bra', 'C01p28240' => 'bna', 'C01p37530' => 'bna', 'C03p31820' => 'bna', 'C04p24080' => 'bna', 'C04p25790' => 'bna', 'C04p56770' => 'bna', 'C05p09310' => 'bna', 'C09p21010' => 'bna', 'C09p67560' => 'bna', 'CAN.G1324.7' => 'can', 'CAN.G1358.10' => 'can', 'CAN.G1550.2' => 'can', 'CAN.G186.56' => 'can', 'CAN.G1965.1' => 'can', 'CAN.G645.15' => 'can', 'CAN.G798.26' => 'can', 'CAN.G798.27' => 'can', 'CAN.G798.29' => 'can', 'CAN.G919.31' => 'can', 'CANSAT11G0133' => 'cansat', 'CANSAT11G1171' => 'cansat', 'CANSAT11G2056' => 'cansat', 'CANSAT56G1202' => 'cansat', 'CANSAT56G1514' => 'cansat', 'CANSAT78G0455' => 'cansat', 'CARHR011190' => 'chi', 'CARHR051980' => 'chi', 'CARHR120170' => 'chi', 'CARHR203310' => 'chi', 'CARHR221490' => 'chi', 'Carub.0001s1054' => 'cru', 'Carub.0002s0431' => 'cru', 'Carub.0004s0818' => 'cru', 'Carub.0006s0846' => 'cru', 'Carub.0007s2722' => 'cru', 'Ca_00058_v3' => 'car', 'Ca_17831_v3' => 'car', 'Ca_19408_v3' => 'car', 'Ca_24397_v3' => 'car', 'Ca_25664_v3' => 'car', 'CBR_g21818' => 'cbr', 'CBR_g31195' => 'cbr', 'CBR_g32282' => 'cbr', 'CBR_g39599' => 'cbr', 'CBR_g49410' => 'cbr', 'Cc01_g09120' => 'ccan', 'Cc01_g09130' => 'ccan', 'Cc02_g09630' => 'ccan', 'Cc02_g22810' => 'ccan', 'Cc03_g03810' => 'ccan', 'CDE02G3718' => 'cde', 'CDE04G3183' => 'cde', 'CDE07G1046' => 'cde', 'CDE08G0480' => 'cde', 'Cfa005493' => 'cfa', 'Cfa010312' => 'cfa', 'Cfa015648' => 'cfa', 'Ciclev10002793m.g' => 'ccl', 'Ciclev10003356m.g' => 'ccl', 'Ciclev10006141m.g' => 'ccl', 'Ciclev10016676m.g' => 'ccl', 'Ciclev10017081m.g' => 'ccl', 'Ciclev10029499m.g' => 'ccl', 'CiPaw.01G166300' => 'cil', 'CiPaw.06G145600' => 'cil', 'CiPaw.13G040100' => 'cil', 'CiPaw.13G135800' => 'cil', 'ClCG01G012230' => 'cla', 'ClCG05G009510' => 'cla', 'ClCG08G008270' => 'cla', 'COL.COLO4_11763' => 'col', 'COL.COLO4_19876' => 'col', 'COL.COLO4_21481' => 'col', 'Cpa.g.sc118.34' => 'cpa', 'Cpa.g.sc32.13' => 'cpa', 'Cpa.g.sc58.103' => 'cpa', 'Cre03.g183850' => 'cre', 'Cre06.g306350' => 'cre', 'Cre07.g334800' => 'cre', 'Cre12.g487900' => 'cre', 'Cre14.g626700' => 'cre', 'Cre16.g658400' => 'cre', 'Cre17.g700950' => 'cre', 'CsaV3_1G014830' => 'csa', 'CsaV3_3G013320' => 'csa', 'CsaV3_3G019210' => 'csa', 'CsaV3_3G019220' => 'csa', 'CsaV3_6G004230' => 'csa', 'CSS0003773' => 'camsi', 'CSS0004563' => 'camsi', 'CSS0013949' => 'camsi', 'CSS0025971' => 'camsi', 'CSS0028570' => 'camsi', 'CSS0033127' => 'camsi', 'CSS0036051' => 'camsi', 'CSS0040087' => 'camsi', 'CSS0043179' => 'camsi', 'DCAR_006161' => 'dca', 'DCAR_010351' => 'dca', 'DCAR_012197' => 'dca', 'DCAR_024162' => 'dca', 'Dinv01030' => 'din', 'Dinv10924' => 'din', 'Dinv11835' => 'din', 'Dinv22841' => 'din', 'Dinv42553' => 'din', 'Duzib052G0560' => 'dzi', 'Duzib132G0389' => 'dzi', 'Duzib150G1181' => 'dzi', 'Duzib168G0623' => 'dzi', 'Duzib170G1036' => 'dzi', 'Duzib212G0200' => 'dzi', 'Duzib248G0194' => 'dzi', 'ECA232G2193' => 'eca', 'ECA233G0302' => 'eca', 'ECA234G2813' => 'eca', 'ECA234G4866' => 'eca', 'ECA240G3932' => 'eca', 'ECA248G0385' => 'eca', 'EL10Ac2g04781' => 'bvu', 'EL10Ac3g06445' => 'bvu', 'EL10Ac7g15825' => 'bvu', 'EL10Ac8g18550' => 'bvu', 'Eucgr.B03849' => 'egr', 'Eucgr.I02744' => 'egr', 'Eucgr.J00264' => 'egr', 'Eucgr.J00493' => 'egr', 'FAN04G2181' => 'fan', 'FAN07G2666' => 'fan', 'FAN11G0024' => 'fan', 'FAN12G1105' => 'fan', 'FAN13G0302' => 'fan', 'FAN15G2781' => 'fan', 'FAN16G1274' => 'fan', 'FAN17G2988' => 'fan', 'FAN18G2621' => 'fan', 'FAN21G0013' => 'fan', 'FAN22G1211' => 'fan', 'FAN25G3626' => 'fan', 'FvH4_2g09491' => 'fve', 'FvH4_3g24910' => 'fve', 'FvH4_4g15630' => 'fve', 'FvH4_5g28820' => 'fve', 'Glyma.01G238000' => 'gma', 'Glyma.05G168400' => 'gma', 'Glyma.08G126800' => 'gma', 'Glyma.08G188500' => 'gma', 'Glyma.10G278900' => 'gma', 'Glyma.11G005700' => 'gma', 'Glyma.11G183300' => 'gma', 'Glyma.12G089200' => 'gma', 'Glyma.12G169400' => 'gma', 'Glyma.12G169500' => 'gma', 'Glyma.12G169600' => 'gma', 'Glyma.20G110800' => 'gma', 'Gohir.A03G192900' => 'ghi', 'Gohir.A03G193000' => 'ghi', 'Gohir.A05G080700' => 'ghi', 'Gohir.A09G216000' => 'ghi', 'Gohir.A12G027700' => 'ghi', 'Gohir.A13G036200' => 'ghi', 'Gohir.A13G222600' => 'ghi', 'Gohir.D02G213900' => 'ghi', 'Gohir.D02G214000' => 'ghi', 'Gohir.D05G083700' => 'ghi', 'Gohir.D05G083800' => 'ghi', 'Gohir.D05G083850' => 'ghi', 'Gohir.D08G015400' => 'ghi', 'Gohir.D09G218400' => 'ghi', 'Gohir.D12G027100' => 'ghi', 'Gohir.D13G034500' => 'ghi', 'Gohir.D13G227400' => 'ghi', 'Gorai.005G241800' => 'gra', 'Gorai.005G241900' => 'gra', 'Gorai.006G239400' => 'gra', 'Gorai.008G027600' => 'gra', 'Gorai.009G085400' => 'gra', 'Gorai.009G085500' => 'gra', 'Gorai.013G039000' => 'gra', 'Gorai.013G194800' => 'gra', 'Gorai.013G257900' => 'gra', 'GSVIVG01000982001' => 'vvi', 'GSVIVG01017981001' => 'vvi', 'HanXRQChr01g0024061' => 'han', 'HanXRQChr09g0247831' => 'han', 'HanXRQChr10g0294611' => 'han', 'HanXRQChr10g0294621' => 'han', 'HanXRQChr11g0346821' => 'han', 'HanXRQChr13g0397461' => 'han', 'HanXRQChr16g0513651' => 'han', 'HanXRQChr16g0513701' => 'han', 'Haze_00897' => 'cav', 'Haze_01745' => 'cav', 'Haze_02486' => 'cav', 'Haze_02487' => 'cav', 'Haze_23374' => 'cav', 'Hma1.2p1_0578F.1_g182520' => 'hma', 'Hma1.2p1_0602F.1_g187350' => 'hma', 'Hma1.2p1_0602F.1_g187360' => 'hma', 'Hma1.2p1_0874F.1_g231320' => 'hma', 'Hma1.2p1_1197F.1_g266210' => 'hma', 'Hma1.2p1_1197F.1_g266220' => 'hma', 'Hma1.2p1_2167F.1_g315895' => 'hma', 'Hma1.2p1_2190F.1_g316640' => 'hma', 'Hma1.2p1_3645F.1_g337153' => 'hma', 'HPP92_004907' => 'vpl', 'HPP92_012134' => 'vpl', 'HPP92_025136' => 'vpl', 'HPP92_026087' => 'vpl', 'Hund06782' => 'sun', 'Hund06784' => 'sun', 'Lalb_Chr01g0004861' => 'lal', 'Lalb_Chr02g0140591' => 'lal', 'Lalb_Chr02g0140611' => 'lal', 'Lalb_Chr03g0028101' => 'lal', 'Lalb_Chr07g0185791' => 'lal', 'Lalb_Chr12g0204491' => 'lal', 'Lalb_Chr13g0295671' => 'lal', 'Lalb_Chr19g0136461' => 'lal', 'Lalb_Chr21g0309191' => 'lal', 'Lj1g0028158' => 'lja', 'Lj1P236T38' => 'lonja', 'Lj2C32G2' => 'lonja', 'Lj2P944T8' => 'lonja', 'Lj2P963T15' => 'lonja', 'Lj3g0011788' => 'lja', 'Lj4g0025027' => 'lja', 'Lj5P255T36' => 'lonja', 'Lj6g0018866' => 'lja', 'Lj6P608T31' => 'lonja', 'LjContig00408g0008879' => 'lja', 'Lsat_1_v5_gn_5_105820' => 'lsa', 'Lsat_1_v5_gn_6_38800' => 'lsa', 'Lsat_1_v5_gn_7_67141' => 'lsa', 'Manes.04G003400' => 'mes', 'Manes.07G020000' => 'mes', 'Manes.07G020100' => 'mes', 'Manes.07G020150' => 'mes', 'Manes.10G061500' => 'mes', 'Manes.10G123200' => 'mes', 'Manes.11G161900' => 'mes', 'Manes.15G029300' => 'mes', 'Mapoly0071s0018' => 'mpo', 'Mapoly0082s0023' => 'mpo', 'Mapoly3477s0001' => 'mpo', 'MBI05_g31233_MAGBIO' => 'mbi', 'MBI09_g05946_MAGBIO' => 'mbi', 'MBI09_g05947_MAGBIO' => 'mbi', 'MBI17_g08346_MAGBIO' => 'mbi', 'MCO04G038' => 'mco', 'MCO09G370' => 'mco', 'MCO13G605' => 'mco', 'MD00G1075500' => 'mdo', 'MD03G1144300' => 'mdo', 'MD08G1236800' => 'mdo', 'MD13G1193300' => 'mdo', 'MD15G1428700' => 'mdo', 'Medtr1g112030' => 'mtr', 'Medtr1g112050' => 'mtr', 'Medtr2g006290' => 'mtr', 'Medtr2g086510' => 'mtr', 'Medtr4g053120' => 'mtr', 'Medtr5g006320' => 'mtr', 'Medtr8g088720' => 'mtr', 'MELO3C004712.2' => 'cme', 'MELO3C006533.2' => 'cme', 'MELO3C019438.2' => 'cme', 'MELO3C019440.2' => 'cme', 'MELO3C019441.2' => 'cme', 'MELO3C019895.2' => 'cme', 'Migut.B00811' => 'egut', 'Migut.D02447' => 'egut', 'Migut.F00875' => 'egut', 'Migut.N00186' => 'egut', 'Migut.N01051' => 'egut', 'Migut.N02491' => 'egut', 'Migut.O00784' => 'egut', 'MSTRG.12367' => 'ama', 'MSTRG.18756' => 'ama', 'MSTRG.21042' => 'ama', 'Nitab4.5_0000559g0040' => 'nta', 'Nitab4.5_0000667g0190' => 'nta', 'Nitab4.5_0000755g0160' => 'nta', 'Nitab4.5_0001216g0080' => 'nta', 'Nitab4.5_0004069g0040' => 'nta', 'Nitab4.5_0004129g0010' => 'nta', 'Nitab4.5_0005744g0030' => 'nta', 'Nitab4.5_0006996g0030' => 'nta', 'Nitab4.5_0008971g0040' => 'nta', 'Nitab4.5_0009769g0020' => 'nta', 'Nitab4.5_0009833g0010' => 'nta', 'Nitab4.5_0013140g0020' => 'nta', 'Nn003s41376' => 'nnu', 'Nn1g01857' => 'nnu', 'Nn1g03611' => 'nnu', 'Nn1g06853' => 'nnu', 'Nn3g18360' => 'nnu', 'Nn4g26328' => 'nnu', 'Nn5g27531' => 'nnu', 'Nn6g34899' => 'nnu', 'Nn7g36299' => 'nnu', 'Oeu021485.1' => 'oeu', 'Oeu022433.1' => 'oeu', 'Oeu032111.1' => 'oeu', 'Oeu051608.1' => 'oeu', 'Os01g0860601' => 'osa', 'Os03g0659200' => 'osa', 'Os03g0835900' => 'osa', 'Os04g0412200' => 'osa', 'Os05g0443500' => 'osa', 'Os07g0251500' => 'osa', 'Os08g0104600' => 'osa', 'Peaxi162Scf00003g00047' => 'pax', 'Peaxi162Scf00003g00052' => 'pax', 'Peaxi162Scf00003g00394' => 'pax', 'Peaxi162Scf00091g00621' => 'pax', 'Peaxi162Scf00152g00146' => 'pax', 'Peaxi162Scf00173g00025' => 'pax', 'Peaxi162Scf00195g00102' => 'pax', 'Peaxi162Scf00402g00013' => 'pax', 'Peaxi162Scf00519g00618' => 'pax', 'PGR004G2838' => 'pgr', 'PGR044G2275' => 'pgr', 'PGR102G1377' => 'pgr', 'PGR119G1245' => 'pgr', 'PGR142G4449' => 'pgr', 'PGSC0003DMG400004532' => 'stu', 'PGSC0003DMG400011950' => 'stu', 'PGSC0003DMG400023391' => 'stu', 'PGSC0003DMG400023985' => 'stu', 'PGSC0003DMG400026360' => 'stu', 'PGSC0003DMG400035711' => 'stu', 'PGSC0003DMG400037286' => 'stu', 'PGSC0003DMG402005881' => 'stu', 'Phvul.002G045400' => 'pvu', 'Phvul.006G216600' => 'pvu', 'Phvul.006G216700' => 'pvu', 'Phvul.006G216800' => 'pvu', 'Phvul.007G022500' => 'pvu', 'Phvul.011G094400' => 'pvu', 'Potri.001G470700' => 'ptr', 'Potri.003G015200' => 'ptr', 'Potri.004G202500' => 'ptr', 'Potri.004G218400' => 'ptr', 'Potri.008G020100' => 'ptr', 'Potri.008G153200' => 'ptr', 'Potri.009G163800' => 'ptr', 'Potri.010G087300' => 'ptr', 'Potri.010G239100' => 'ptr', 'Pp3c10_16100' => 'ppa', 'Pp3c10_16880' => 'ppa', 'Pp3c16_6230' => 'ppa', 'Pp3c17_18910' => 'ppa', 'Pp3c3_22119' => 'ppa', 'Pp3c3_22140' => 'ppa', 'Pp3c4_8159' => 'ppa', 'Pp3c4_8171' => 'ppa', 'Pp3c4_8330' => 'ppa', 'PRCOL_00004098' => 'pco', 'Prupe.1G013900' => 'ppe', 'Prupe.1G226300' => 'ppe', 'Prupe.1G573600' => 'ppe', 'Prupe.6G130100' => 'ppe', 'Psat3g090040' => 'psa', 'Psat4g210440' => 'psa', 'Psat6g231040' => 'psa', 'Psat6g231080' => 'psa', 'Psat7g063000' => 'psa', 'Psat7g188000' => 'psa', 'Psat7g188040' => 'psa', 'PSO017G0206' => 'pso', 'PSO170G0501' => 'pso', 'PSO170G6422' => 'pso', 'PSO210G7739' => 'pso', 'PSO339G1808' => 'pso', 'PSO339G6135' => 'pso', 'PSO384G0010' => 'pso', 'PSO384G0964' => 'pso', 'PSO761G0050' => 'pso', 'PSO782G4085' => 'pso', 'QL01p012264' => 'qlo', 'QL02p099491' => 'qlo', 'QL03p033868' => 'qlo', 'QL04p046678' => 'qlo', 'QL06p002448' => 'qlo', 'RcHm_v2.0_Chr4g0416181' => 'rch', 'RcHm_v2.0_Chr5g0044701' => 'rch', 'RcHm_v2.0_Chr6g0265781' => 'rch', 'RcHm_v2.0_Chr7g0221031' => 'rch', 'Rhsim04G0202000' => 'rsi', 'Rhsim11G0127300' => 'rsi', 'Rhsim13G0111800' => 'rsi', 'Sabra01G0165600' => 'sbr', 'Sabra03G0008300' => 'sbr', 'Sabra04G0136900' => 'sbr', 'Sabra08G0013400' => 'sbr', 'Sabra08G0116800' => 'sbr', 'Sabra09G0128000' => 'sbr', 'Sabra10G0055500' => 'sbr', 'Sabra10G0073300' => 'sbr', 'SalBow3G0385' => 'sbo', 'SalBow3G1119' => 'sbo', 'SalBow3G2005' => 'sbo', 'SalBow6G2563' => 'sbo', 'SalBow6G6386' => 'sbo', 'Sc06g0008800' => 'sci', 'Sc07g0004950' => 'sci', 'Sc09g0005340' => 'sci', 'Sc13g0004410' => 'sci', 'Sc21g0007090' => 'sci', 'Sed0009285' => 'sed', 'Sed0017583' => 'sed', 'Sed0019699' => 'sed', 'Sed0023107' => 'sed', 'SEGI_10916' => 'sgi', 'SEGI_16217' => 'sgi', 'SEGI_19466' => 'sgi', 'SEGI_41115' => 'sgi', 'SGA_v2.0_scaffold111G31534' => 'sas', 'SGA_v2.0_scaffold22G09864' => 'sas', 'SGA_v2.0_scaffold338G49219' => 'sas', 'SGA_v2.0_scaffold92G28298' => 'sas', 'SMO119G0064' => 'smo', 'SMO223G0038' => 'smo', 'SMO347G0584' => 'smo', 'SMO351G0010' => 'smo', 'SMO356G0404' => 'smo', 'Solyc01g103920.3' => 'sly', 'Solyc04g009710.2' => 'sly', 'Solyc05g055280.2' => 'sly', 'Solyc10g044520.3' => 'sly', 'Solyc10g075160.1' => 'sly', 'Solyc11g006910.3' => 'sly', 'Solyc11g068430.3' => 'sly', 'Sopen01g046310' => 'spe', 'Sopen03g001200' => 'spe', 'Sopen04g004830' => 'spe', 'Sopen05g033720' => 'spe', 'Sopen06g030740' => 'spe', 'Sopen10g013090' => 'spe', 'Sopen10g027630' => 'spe', 'Sopen10g027640' => 'spe', 'Sopen11g002820' => 'spe', 'Sopen11g027140' => 'spe', 'Sp1g09680' => 'spa', 'Sp2g03630' => 'spa', 'Sp4g10320' => 'spa', 'Sp6g33400' => 'spa', 'Sp7g13030' => 'spa', 'TAR365G0317' => 'tar', 'TAR376G0979' => 'tar', 'TAR623G1665' => 'tar', 'TAR633G2373' => 'tar', 'TAR636G1400' => 'tar', 'THA.LOC104800529' => 'tha', 'THA.LOC104808547' => 'tha', 'THA.LOC104809615' => 'tha', 'THA.LOC104815724' => 'tha', 'THA.LOC104818480' => 'tha', 'THA.LOC104819179' => 'tha', 'THA.LOC104822270' => 'tha', 'THA.LOC104826425' => 'tha', 'Thecc.02G089700' => 'tca', 'Thecc.04G232300' => 'tca', 'Thecc.09G283400' => 'tca', 'Thhalv10009020m.g' => 'esa', 'Thhalv10015506m.g' => 'esa', 'Thhalv10017364m.g' => 'esa', 'Thhalv10023742m.g' => 'esa', 'Thhalv10026483m.g' => 'esa', 'TPR.G17232' => 'tpr', 'TPR.G2133' => 'tpr', 'TPR.G2498' => 'tpr', 'TPR.G31942' => 'tpr', 'TPR.G37877' => 'tpr', 'TPR.G4571' => 'tpr', 'TWI14G1113' => 'twi', 'TWI15G0426' => 'twi', 'TWI31G1005' => 'twi', 'TWI38G0513' => 'twi', 'TWI38G1484' => 'twi', 'TWI73G1098' => 'twi', 'unitig_26.g10519' => 'ugi', 'unitig_736.g22395' => 'ugi', 'unitig_747.g21234' => 'ugi', 'unitig_747.g21942' => 'ugi', 'vmacro14351' => 'vma', 'VMungo0540G0082' => 'vmu', 'VMungo0540G0405' => 'vmu', 'VMungo0540G1486' => 'vmu', 'VMungo0540G1692' => 'vmu', 'VMungo0720G2473' => 'vmu', 'VMungo1127G1562' => 'vmu', 'VMungo1215G1918' => 'vmu', 'Zm00001eb052650' => 'zma', 'Zm00001eb063710' => 'zma', 'Zm00001eb083950' => 'zma', 'Zm00001eb174420' => 'zma', 'Zm00001eb260140' => 'zma', 'Zm00001eb260150' => 'zma', 'Zm00001eb260160' => 'zma', 'Zm00001eb348290' => 'zma', 'Zm00001eb366870' => 'zma', 'Zm00001eb421930' => 'zma' ), 'gf_id' => 'HOM05D001025', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001025' ), 'data_identifier' => 'HOM05D001025', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001025', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '592', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p22650' => 'bna', 'A01p29720' => 'bna', 'A03p26560' => 'bna', 'A03p68820' => 'bna', 'A04p20980' => 'bna', 'A06p07730' => 'bna', 'A07p18260' => 'bna', 'A08p33710' => 'bna', 'A09p16970' => 'bna', 'A10p27490' => 'bna', 'Aa31LG1G17300' => 'aar', 'Aa31LG1G3910' => 'aar', 'Aa31LG2G9630' => 'aar', 'Aa31LG5G8360' => 'aar', 'Aa31LG9G2410' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4699' => 'aag', 'Actinidia23512' => 'ach', 'Actinidia37080' => 'ach', 'Ah.01g020380' => 'amhyb', 'Ah.08g215710' => 'amhyb', 'Ah.09g225110' => 'amhyb', 'Ah.10g036680' => 'amhyb', 'AL1G21940' => 'aly', 'AL2G15540' => 'aly', 'AL4G21520' => 'aly', 'AL7G40960' => 'aly', 'Aqoxy2G01191' => 'aox', 'Aqoxy2G03393' => 'aox', 'Aqoxy4G02775' => 'aox', 'Aqoxy6G00058' => 'aox', 'arahy.Tifrunner.gnm1.ann1.9X74H2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CW3FX9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R485W7' => 'arhy', 'AT1G10960' => 'ath', 'AT1G60950' => 'ath', 'AT2G27510' => 'ath', 'AT4G14890' => 'ath', 'AT5G10000' => 'ath', 'ATR0665G624' => 'atr', 'ATR0697G138' => 'atr', 'ATR0776G046' => 'atr', 'ATR1134G135' => 'atr', 'Atru.chr12.1025' => 'acertr', 'Atru.chr3.3241' => 'acertr', 'Atru.chr4.2460' => 'acertr', 'AUR62007427' => 'cqu', 'AUR62010960' => 'cqu', 'AUR62012201' => 'cqu', 'AUR62021470' => 'cqu', 'AUR62022834' => 'cqu', 'AUR62033635' => 'cqu', 'AUR62036186' => 'cqu', 'BcaB01g03077' => 'bca', 'BcaB02g10093' => 'bca', 'BcaB04g20295' => 'bca', 'BcaB06g28147' => 'bca', 'BcaB07g31253' => 'bca', 'BcaC01g04946' => 'bca', 'BcaC02g10614' => 'bca', 'BcaC02g10885' => 'bca', 'BcaC04g19356' => 'bca', 'BcaC04g22297' => 'bca', 'BcaC05g24977' => 'bca', 'BcaC06g31823' => 'bca', 'BcaC07g38633' => 'bca', 'BcaC09g49353' => 'bca', 'BcaC09g50168' => 'bca', 'BcaNung00322' => 'bca', 'BcaNung04769' => 'bca', 'BolC1t02753H' => 'bol', 'BolC1t03721H' => 'bol', 'BolC3t15525H' => 'bol', 'BolC4t23903H' => 'bol', 'BolC4t24231H' => 'bol', 'BolC4t27209H' => 'bol', 'BolC5t29671H' => 'bol', 'BolC8t49044H' => 'bol', 'BolC9t54999H' => 'bol', 'BolC9t59517H' => 'bol', 'BraA01t02178Z' => 'bra', 'BraA01t03099Z' => 'bra', 'BraA03t11867Z' => 'bra', 'BraA04t17667Z' => 'bra', 'BraA07t29542Z' => 'bra', 'BraA08t35287Z' => 'bra', 'BraA09t37334Z' => 'bra', 'BraA10t44801Z' => 'bra', 'BraSC39t46181Z' => 'bra', 'C01p28240' => 'bna', 'C01p37530' => 'bna', 'C03p31820' => 'bna', 'C04p24080' => 'bna', 'C04p25790' => 'bna', 'C04p56770' => 'bna', 'C05p09310' => 'bna', 'C09p21010' => 'bna', 'C09p67560' => 'bna', 'CAN.G1324.7' => 'can', 'CAN.G1358.10' => 'can', 'CAN.G1550.2' => 'can', 'CAN.G186.56' => 'can', 'CAN.G1965.1' => 'can', 'CAN.G645.15' => 'can', 'CAN.G798.26' => 'can', 'CAN.G798.27' => 'can', 'CAN.G798.29' => 'can', 'CAN.G919.31' => 'can', 'CANSAT11G0133' => 'cansat', 'CANSAT11G1171' => 'cansat', 'CANSAT11G2056' => 'cansat', 'CANSAT56G1202' => 'cansat', 'CANSAT56G1514' => 'cansat', 'CANSAT78G0455' => 'cansat', 'CARHR011190' => 'chi', 'CARHR051980' => 'chi', 'CARHR120170' => 'chi', 'CARHR203310' => 'chi', 'CARHR221490' => 'chi', 'Carub.0001s1054' => 'cru', 'Carub.0002s0431' => 'cru', 'Carub.0004s0818' => 'cru', 'Carub.0006s0846' => 'cru', 'Carub.0007s2722' => 'cru', 'Ca_00058_v3' => 'car', 'Ca_17831_v3' => 'car', 'Ca_19408_v3' => 'car', 'Ca_24397_v3' => 'car', 'Ca_25664_v3' => 'car', 'CBR_g21818' => 'cbr', 'CBR_g31195' => 'cbr', 'CBR_g32282' => 'cbr', 'CBR_g39599' => 'cbr', 'CBR_g49410' => 'cbr', 'Cc01_g09120' => 'ccan', 'Cc01_g09130' => 'ccan', 'Cc02_g09630' => 'ccan', 'Cc02_g22810' => 'ccan', 'Cc03_g03810' => 'ccan', 'CDE02G3718' => 'cde', 'CDE04G3183' => 'cde', 'CDE07G1046' => 'cde', 'CDE08G0480' => 'cde', 'Cfa005493' => 'cfa', 'Cfa010312' => 'cfa', 'Cfa015648' => 'cfa', 'Ciclev10002793m.g' => 'ccl', 'Ciclev10003356m.g' => 'ccl', 'Ciclev10006141m.g' => 'ccl', 'Ciclev10016676m.g' => 'ccl', 'Ciclev10017081m.g' => 'ccl', 'Ciclev10029499m.g' => 'ccl', 'CiPaw.01G166300' => 'cil', 'CiPaw.06G145600' => 'cil', 'CiPaw.13G040100' => 'cil', 'CiPaw.13G135800' => 'cil', 'ClCG01G012230' => 'cla', 'ClCG05G009510' => 'cla', 'ClCG08G008270' => 'cla', 'COL.COLO4_11763' => 'col', 'COL.COLO4_19876' => 'col', 'COL.COLO4_21481' => 'col', 'Cpa.g.sc118.34' => 'cpa', 'Cpa.g.sc32.13' => 'cpa', 'Cpa.g.sc58.103' => 'cpa', 'Cre03.g183850' => 'cre', 'Cre06.g306350' => 'cre', 'Cre07.g334800' => 'cre', 'Cre12.g487900' => 'cre', 'Cre14.g626700' => 'cre', 'Cre16.g658400' => 'cre', 'Cre17.g700950' => 'cre', 'CsaV3_1G014830' => 'csa', 'CsaV3_3G013320' => 'csa', 'CsaV3_3G019210' => 'csa', 'CsaV3_3G019220' => 'csa', 'CsaV3_6G004230' => 'csa', 'CSS0003773' => 'camsi', 'CSS0004563' => 'camsi', 'CSS0013949' => 'camsi', 'CSS0025971' => 'camsi', 'CSS0028570' => 'camsi', 'CSS0033127' => 'camsi', 'CSS0036051' => 'camsi', 'CSS0040087' => 'camsi', 'CSS0043179' => 'camsi', 'DCAR_006161' => 'dca', 'DCAR_010351' => 'dca', 'DCAR_012197' => 'dca', 'DCAR_024162' => 'dca', 'Dinv01030' => 'din', 'Dinv10924' => 'din', 'Dinv11835' => 'din', 'Dinv22841' => 'din', 'Dinv42553' => 'din', 'Duzib052G0560' => 'dzi', 'Duzib132G0389' => 'dzi', 'Duzib150G1181' => 'dzi', 'Duzib168G0623' => 'dzi', 'Duzib170G1036' => 'dzi', 'Duzib212G0200' => 'dzi', 'Duzib248G0194' => 'dzi', 'ECA232G2193' => 'eca', 'ECA233G0302' => 'eca', 'ECA234G2813' => 'eca', 'ECA234G4866' => 'eca', 'ECA240G3932' => 'eca', 'ECA248G0385' => 'eca', 'EL10Ac2g04781' => 'bvu', 'EL10Ac3g06445' => 'bvu', 'EL10Ac7g15825' => 'bvu', 'EL10Ac8g18550' => 'bvu', 'Eucgr.B03849' => 'egr', 'Eucgr.I02744' => 'egr', 'Eucgr.J00264' => 'egr', 'Eucgr.J00493' => 'egr', 'FAN04G2181' => 'fan', 'FAN07G2666' => 'fan', 'FAN11G0024' => 'fan', 'FAN12G1105' => 'fan', 'FAN13G0302' => 'fan', 'FAN15G2781' => 'fan', 'FAN16G1274' => 'fan', 'FAN17G2988' => 'fan', 'FAN18G2621' => 'fan', 'FAN21G0013' => 'fan', 'FAN22G1211' => 'fan', 'FAN25G3626' => 'fan', 'FvH4_2g09491' => 'fve', 'FvH4_3g24910' => 'fve', 'FvH4_4g15630' => 'fve', 'FvH4_5g28820' => 'fve', 'Glyma.01G238000' => 'gma', 'Glyma.05G168400' => 'gma', 'Glyma.08G126800' => 'gma', 'Glyma.08G188500' => 'gma', 'Glyma.10G278900' => 'gma', 'Glyma.11G005700' => 'gma', 'Glyma.11G183300' => 'gma', 'Glyma.12G089200' => 'gma', 'Glyma.12G169400' => 'gma', 'Glyma.12G169500' => 'gma', 'Glyma.12G169600' => 'gma', 'Glyma.20G110800' => 'gma', 'Gohir.A03G192900' => 'ghi', 'Gohir.A03G193000' => 'ghi', 'Gohir.A05G080700' => 'ghi', 'Gohir.A09G216000' => 'ghi', 'Gohir.A12G027700' => 'ghi', 'Gohir.A13G036200' => 'ghi', 'Gohir.A13G222600' => 'ghi', 'Gohir.D02G213900' => 'ghi', 'Gohir.D02G214000' => 'ghi', 'Gohir.D05G083700' => 'ghi', 'Gohir.D05G083800' => 'ghi', 'Gohir.D05G083850' => 'ghi', 'Gohir.D08G015400' => 'ghi', 'Gohir.D09G218400' => 'ghi', 'Gohir.D12G027100' => 'ghi', 'Gohir.D13G034500' => 'ghi', 'Gohir.D13G227400' => 'ghi', 'Gorai.005G241800' => 'gra', 'Gorai.005G241900' => 'gra', 'Gorai.006G239400' => 'gra', 'Gorai.008G027600' => 'gra', 'Gorai.009G085400' => 'gra', 'Gorai.009G085500' => 'gra', 'Gorai.013G039000' => 'gra', 'Gorai.013G194800' => 'gra', 'Gorai.013G257900' => 'gra', 'GSVIVG01000982001' => 'vvi', 'GSVIVG01017981001' => 'vvi', 'HanXRQChr01g0024061' => 'han', 'HanXRQChr09g0247831' => 'han', 'HanXRQChr10g0294611' => 'han', 'HanXRQChr10g0294621' => 'han', 'HanXRQChr11g0346821' => 'han', 'HanXRQChr13g0397461' => 'han', 'HanXRQChr16g0513651' => 'han', 'HanXRQChr16g0513701' => 'han', 'Haze_00897' => 'cav', 'Haze_01745' => 'cav', 'Haze_02486' => 'cav', 'Haze_02487' => 'cav', 'Haze_23374' => 'cav', 'Hma1.2p1_0578F.1_g182520' => 'hma', 'Hma1.2p1_0602F.1_g187350' => 'hma', 'Hma1.2p1_0602F.1_g187360' => 'hma', 'Hma1.2p1_0874F.1_g231320' => 'hma', 'Hma1.2p1_1197F.1_g266210' => 'hma', 'Hma1.2p1_1197F.1_g266220' => 'hma', 'Hma1.2p1_2167F.1_g315895' => 'hma', 'Hma1.2p1_2190F.1_g316640' => 'hma', 'Hma1.2p1_3645F.1_g337153' => 'hma', 'HPP92_004907' => 'vpl', 'HPP92_012134' => 'vpl', 'HPP92_025136' => 'vpl', 'HPP92_026087' => 'vpl', 'Hund06782' => 'sun', 'Hund06784' => 'sun', 'Lalb_Chr01g0004861' => 'lal', 'Lalb_Chr02g0140591' => 'lal', 'Lalb_Chr02g0140611' => 'lal', 'Lalb_Chr03g0028101' => 'lal', 'Lalb_Chr07g0185791' => 'lal', 'Lalb_Chr12g0204491' => 'lal', 'Lalb_Chr13g0295671' => 'lal', 'Lalb_Chr19g0136461' => 'lal', 'Lalb_Chr21g0309191' => 'lal', 'Lj1g0028158' => 'lja', 'Lj1P236T38' => 'lonja', 'Lj2C32G2' => 'lonja', 'Lj2P944T8' => 'lonja', 'Lj2P963T15' => 'lonja', 'Lj3g0011788' => 'lja', 'Lj4g0025027' => 'lja', 'Lj5P255T36' => 'lonja', 'Lj6g0018866' => 'lja', 'Lj6P608T31' => 'lonja', 'LjContig00408g0008879' => 'lja', 'Lsat_1_v5_gn_5_105820' => 'lsa', 'Lsat_1_v5_gn_6_38800' => 'lsa', 'Lsat_1_v5_gn_7_67141' => 'lsa', 'Manes.04G003400' => 'mes', 'Manes.07G020000' => 'mes', 'Manes.07G020100' => 'mes', 'Manes.07G020150' => 'mes', 'Manes.10G061500' => 'mes', 'Manes.10G123200' => 'mes', 'Manes.11G161900' => 'mes', 'Manes.15G029300' => 'mes', 'Mapoly0071s0018' => 'mpo', 'Mapoly0082s0023' => 'mpo', 'Mapoly3477s0001' => 'mpo', 'MBI05_g31233_MAGBIO' => 'mbi', 'MBI09_g05946_MAGBIO' => 'mbi', 'MBI09_g05947_MAGBIO' => 'mbi', 'MBI17_g08346_MAGBIO' => 'mbi', 'MCO04G038' => 'mco', 'MCO09G370' => 'mco', 'MCO13G605' => 'mco', 'MD00G1075500' => 'mdo', 'MD03G1144300' => 'mdo', 'MD08G1236800' => 'mdo', 'MD13G1193300' => 'mdo', 'MD15G1428700' => 'mdo', 'Medtr1g112030' => 'mtr', 'Medtr1g112050' => 'mtr', 'Medtr2g006290' => 'mtr', 'Medtr2g086510' => 'mtr', 'Medtr4g053120' => 'mtr', 'Medtr5g006320' => 'mtr', 'Medtr8g088720' => 'mtr', 'MELO3C004712.2' => 'cme', 'MELO3C006533.2' => 'cme', 'MELO3C019438.2' => 'cme', 'MELO3C019440.2' => 'cme', 'MELO3C019441.2' => 'cme', 'MELO3C019895.2' => 'cme', 'Migut.B00811' => 'egut', 'Migut.D02447' => 'egut', 'Migut.F00875' => 'egut', 'Migut.N00186' => 'egut', 'Migut.N01051' => 'egut', 'Migut.N02491' => 'egut', 'Migut.O00784' => 'egut', 'MSTRG.12367' => 'ama', 'MSTRG.18756' => 'ama', 'MSTRG.21042' => 'ama', 'Nitab4.5_0000559g0040' => 'nta', 'Nitab4.5_0000667g0190' => 'nta', 'Nitab4.5_0000755g0160' => 'nta', 'Nitab4.5_0001216g0080' => 'nta', 'Nitab4.5_0004069g0040' => 'nta', 'Nitab4.5_0004129g0010' => 'nta', 'Nitab4.5_0005744g0030' => 'nta', 'Nitab4.5_0006996g0030' => 'nta', 'Nitab4.5_0008971g0040' => 'nta', 'Nitab4.5_0009769g0020' => 'nta', 'Nitab4.5_0009833g0010' => 'nta', 'Nitab4.5_0013140g0020' => 'nta', 'Nn003s41376' => 'nnu', 'Nn1g01857' => 'nnu', 'Nn1g03611' => 'nnu', 'Nn1g06853' => 'nnu', 'Nn3g18360' => 'nnu', 'Nn4g26328' => 'nnu', 'Nn5g27531' => 'nnu', 'Nn6g34899' => 'nnu', 'Nn7g36299' => 'nnu', 'Oeu021485.1' => 'oeu', 'Oeu022433.1' => 'oeu', 'Oeu032111.1' => 'oeu', 'Oeu051608.1' => 'oeu', 'Os01g0860601' => 'osa', 'Os03g0659200' => 'osa', 'Os03g0835900' => 'osa', 'Os04g0412200' => 'osa', 'Os05g0443500' => 'osa', 'Os07g0251500' => 'osa', 'Os08g0104600' => 'osa', 'Peaxi162Scf00003g00047' => 'pax', 'Peaxi162Scf00003g00052' => 'pax', 'Peaxi162Scf00003g00394' => 'pax', 'Peaxi162Scf00091g00621' => 'pax', 'Peaxi162Scf00152g00146' => 'pax', 'Peaxi162Scf00173g00025' => 'pax', 'Peaxi162Scf00195g00102' => 'pax', 'Peaxi162Scf00402g00013' => 'pax', 'Peaxi162Scf00519g00618' => 'pax', 'PGR004G2838' => 'pgr', 'PGR044G2275' => 'pgr', 'PGR102G1377' => 'pgr', 'PGR119G1245' => 'pgr', 'PGR142G4449' => 'pgr', 'PGSC0003DMG400004532' => 'stu', 'PGSC0003DMG400011950' => 'stu', 'PGSC0003DMG400023391' => 'stu', 'PGSC0003DMG400023985' => 'stu', 'PGSC0003DMG400026360' => 'stu', 'PGSC0003DMG400035711' => 'stu', 'PGSC0003DMG400037286' => 'stu', 'PGSC0003DMG402005881' => 'stu', 'Phvul.002G045400' => 'pvu', 'Phvul.006G216600' => 'pvu', 'Phvul.006G216700' => 'pvu', 'Phvul.006G216800' => 'pvu', 'Phvul.007G022500' => 'pvu', 'Phvul.011G094400' => 'pvu', 'Potri.001G470700' => 'ptr', 'Potri.003G015200' => 'ptr', 'Potri.004G202500' => 'ptr', 'Potri.004G218400' => 'ptr', 'Potri.008G020100' => 'ptr', 'Potri.008G153200' => 'ptr', 'Potri.009G163800' => 'ptr', 'Potri.010G087300' => 'ptr', 'Potri.010G239100' => 'ptr', 'Pp3c10_16100' => 'ppa', 'Pp3c10_16880' => 'ppa', 'Pp3c16_6230' => 'ppa', 'Pp3c17_18910' => 'ppa', 'Pp3c3_22119' => 'ppa', 'Pp3c3_22140' => 'ppa', 'Pp3c4_8159' => 'ppa', 'Pp3c4_8171' => 'ppa', 'Pp3c4_8330' => 'ppa', 'PRCOL_00004098' => 'pco', 'Prupe.1G013900' => 'ppe', 'Prupe.1G226300' => 'ppe', 'Prupe.1G573600' => 'ppe', 'Prupe.6G130100' => 'ppe', 'Psat3g090040' => 'psa', 'Psat4g210440' => 'psa', 'Psat6g231040' => 'psa', 'Psat6g231080' => 'psa', 'Psat7g063000' => 'psa', 'Psat7g188000' => 'psa', 'Psat7g188040' => 'psa', 'PSO017G0206' => 'pso', 'PSO170G0501' => 'pso', 'PSO170G6422' => 'pso', 'PSO210G7739' => 'pso', 'PSO339G1808' => 'pso', 'PSO339G6135' => 'pso', 'PSO384G0010' => 'pso', 'PSO384G0964' => 'pso', 'PSO761G0050' => 'pso', 'PSO782G4085' => 'pso', 'QL01p012264' => 'qlo', 'QL02p099491' => 'qlo', 'QL03p033868' => 'qlo', 'QL04p046678' => 'qlo', 'QL06p002448' => 'qlo', 'RcHm_v2.0_Chr4g0416181' => 'rch', 'RcHm_v2.0_Chr5g0044701' => 'rch', 'RcHm_v2.0_Chr6g0265781' => 'rch', 'RcHm_v2.0_Chr7g0221031' => 'rch', 'Rhsim04G0202000' => 'rsi', 'Rhsim11G0127300' => 'rsi', 'Rhsim13G0111800' => 'rsi', 'Sabra01G0165600' => 'sbr', 'Sabra03G0008300' => 'sbr', 'Sabra04G0136900' => 'sbr', 'Sabra08G0013400' => 'sbr', 'Sabra08G0116800' => 'sbr', 'Sabra09G0128000' => 'sbr', 'Sabra10G0055500' => 'sbr', 'Sabra10G0073300' => 'sbr', 'SalBow3G0385' => 'sbo', 'SalBow3G1119' => 'sbo', 'SalBow3G2005' => 'sbo', 'SalBow6G2563' => 'sbo', 'SalBow6G6386' => 'sbo', 'Sc06g0008800' => 'sci', 'Sc07g0004950' => 'sci', 'Sc09g0005340' => 'sci', 'Sc13g0004410' => 'sci', 'Sc21g0007090' => 'sci', 'Sed0009285' => 'sed', 'Sed0017583' => 'sed', 'Sed0019699' => 'sed', 'Sed0023107' => 'sed', 'SEGI_10916' => 'sgi', 'SEGI_16217' => 'sgi', 'SEGI_19466' => 'sgi', 'SEGI_41115' => 'sgi', 'SGA_v2.0_scaffold111G31534' => 'sas', 'SGA_v2.0_scaffold22G09864' => 'sas', 'SGA_v2.0_scaffold338G49219' => 'sas', 'SGA_v2.0_scaffold92G28298' => 'sas', 'SMO119G0064' => 'smo', 'SMO223G0038' => 'smo', 'SMO347G0584' => 'smo', 'SMO351G0010' => 'smo', 'SMO356G0404' => 'smo', 'Solyc01g103920.3' => 'sly', 'Solyc04g009710.2' => 'sly', 'Solyc05g055280.2' => 'sly', 'Solyc10g044520.3' => 'sly', 'Solyc10g075160.1' => 'sly', 'Solyc11g006910.3' => 'sly', 'Solyc11g068430.3' => 'sly', 'Sopen01g046310' => 'spe', 'Sopen03g001200' => 'spe', 'Sopen04g004830' => 'spe', 'Sopen05g033720' => 'spe', 'Sopen06g030740' => 'spe', 'Sopen10g013090' => 'spe', 'Sopen10g027630' => 'spe', 'Sopen10g027640' => 'spe', 'Sopen11g002820' => 'spe', 'Sopen11g027140' => 'spe', 'Sp1g09680' => 'spa', 'Sp2g03630' => 'spa', 'Sp4g10320' => 'spa', 'Sp6g33400' => 'spa', 'Sp7g13030' => 'spa', 'TAR365G0317' => 'tar', 'TAR376G0979' => 'tar', 'TAR623G1665' => 'tar', 'TAR633G2373' => 'tar', 'TAR636G1400' => 'tar', 'THA.LOC104800529' => 'tha', 'THA.LOC104808547' => 'tha', 'THA.LOC104809615' => 'tha', 'THA.LOC104815724' => 'tha', 'THA.LOC104818480' => 'tha', 'THA.LOC104819179' => 'tha', 'THA.LOC104822270' => 'tha', 'THA.LOC104826425' => 'tha', 'Thecc.02G089700' => 'tca', 'Thecc.04G232300' => 'tca', 'Thecc.09G283400' => 'tca', 'Thhalv10009020m.g' => 'esa', 'Thhalv10015506m.g' => 'esa', 'Thhalv10017364m.g' => 'esa', 'Thhalv10023742m.g' => 'esa', 'Thhalv10026483m.g' => 'esa', 'TPR.G17232' => 'tpr', 'TPR.G2133' => 'tpr', 'TPR.G2498' => 'tpr', 'TPR.G31942' => 'tpr', 'TPR.G37877' => 'tpr', 'TPR.G4571' => 'tpr', 'TWI14G1113' => 'twi', 'TWI15G0426' => 'twi', 'TWI31G1005' => 'twi', 'TWI38G0513' => 'twi', 'TWI38G1484' => 'twi', 'TWI73G1098' => 'twi', 'unitig_26.g10519' => 'ugi', 'unitig_736.g22395' => 'ugi', 'unitig_747.g21234' => 'ugi', 'unitig_747.g21942' => 'ugi', 'vmacro14351' => 'vma', 'VMungo0540G0082' => 'vmu', 'VMungo0540G0405' => 'vmu', 'VMungo0540G1486' => 'vmu', 'VMungo0540G1692' => 'vmu', 'VMungo0720G2473' => 'vmu', 'VMungo1127G1562' => 'vmu', 'VMungo1215G1918' => 'vmu', 'Zm00001eb052650' => 'zma', 'Zm00001eb063710' => 'zma', 'Zm00001eb083950' => 'zma', 'Zm00001eb174420' => 'zma', 'Zm00001eb260140' => 'zma', 'Zm00001eb260150' => 'zma', 'Zm00001eb260160' => 'zma', 'Zm00001eb348290' => 'zma', 'Zm00001eb366870' => 'zma', 'Zm00001eb421930' => 'zma' ) $gf_id = 'HOM05D001025' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001025' ) $data_identifier = 'HOM05D001025' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 19, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 2, 'amhyb' => (int) 4, 'aly' => (int) 4, 'aox' => (int) 4, 'arhy' => (int) 3, 'ath' => (int) 5, 'atr' => (int) 4, 'acertr' => (int) 3, 'cqu' => (int) 7, 'bca' => (int) 17, 'bol' => (int) 10, 'bra' => (int) 9, 'can' => (int) 10, 'cansat' => (int) 6, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 5, 'cbr' => (int) 5, 'ccan' => (int) 5, 'cde' => (int) 4, 'cfa' => (int) 3, 'ccl' => (int) 6, 'cil' => (int) 4, 'cla' => (int) 3, 'col' => (int) 3, 'cpa' => (int) 3, 'cre' => (int) 7, 'csa' => (int) 5, 'camsi' => (int) 9, 'dca' => (int) 4, 'din' => (int) 5, 'dzi' => (int) 7, 'eca' => (int) 6, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 12, 'fve' => (int) 4, 'gma' => (int) 12, 'ghi' => (int) 17, 'gra' => (int) 9, 'vvi' => (int) 2, 'han' => (int) 8, 'cav' => (int) 5, 'hma' => (int) 9, 'vpl' => (int) 4, 'sun' => (int) 2, 'lal' => (int) 9, 'lja' => (int) 5, 'lonja' => (int) 6, 'lsa' => (int) 3, 'mes' => (int) 8, 'mpo' => (int) 3, 'mbi' => (int) 4, 'mco' => (int) 3, 'mdo' => (int) 5, 'mtr' => (int) 7, 'cme' => (int) 6, 'egut' => (int) 7, 'ama' => (int) 3, 'nta' => (int) 12, 'nnu' => (int) 9, 'oeu' => (int) 4, 'osa' => (int) 7, 'pax' => (int) 9, 'pgr' => (int) 5, 'stu' => (int) 8, 'pvu' => (int) 6, 'ptr' => (int) 9, 'ppa' => (int) 9, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 7, 'pso' => (int) 10, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 3, 'sbr' => (int) 8, 'sbo' => (int) 5, 'sci' => (int) 5, 'sed' => (int) 4, 'sgi' => (int) 4, 'sas' => (int) 4, 'smo' => (int) 5, 'sly' => (int) 7, 'spe' => (int) 10, 'spa' => (int) 5, 'tar' => (int) 5, 'tha' => (int) 8, 'tca' => (int) 3, 'esa' => (int) 5, 'tpr' => (int) 6, 'twi' => (int) 6, 'ugi' => (int) 4, 'vma' => (int) 1, 'vmu' => (int) 7, 'zma' => (int) 10 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb421930' $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' => 'HOM05D001025', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '592', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p22650' => 'bna', 'A01p29720' => 'bna', 'A03p26560' => 'bna', 'A03p68820' => 'bna', 'A04p20980' => 'bna', 'A06p07730' => 'bna', 'A07p18260' => 'bna', 'A08p33710' => 'bna', 'A09p16970' => 'bna', 'A10p27490' => 'bna', 'Aa31LG1G17300' => 'aar', 'Aa31LG1G3910' => 'aar', 'Aa31LG2G9630' => 'aar', 'Aa31LG5G8360' => 'aar', 'Aa31LG9G2410' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4699' => 'aag', 'Actinidia23512' => 'ach', 'Actinidia37080' => 'ach', 'Ah.01g020380' => 'amhyb', 'Ah.08g215710' => 'amhyb', 'Ah.09g225110' => 'amhyb', 'Ah.10g036680' => 'amhyb', 'AL1G21940' => 'aly', 'AL2G15540' => 'aly', 'AL4G21520' => 'aly', 'AL7G40960' => 'aly', 'Aqoxy2G01191' => 'aox', 'Aqoxy2G03393' => 'aox', 'Aqoxy4G02775' => 'aox', 'Aqoxy6G00058' => 'aox', 'arahy.Tifrunner.gnm1.ann1.9X74H2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CW3FX9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R485W7' => 'arhy', 'AT1G10960' => 'ath', 'AT1G60950' => 'ath', 'AT2G27510' => 'ath', 'AT4G14890' => 'ath', 'AT5G10000' => 'ath', 'ATR0665G624' => 'atr', 'ATR0697G138' => 'atr', 'ATR0776G046' => 'atr', 'ATR1134G135' => 'atr', 'Atru.chr12.1025' => 'acertr', 'Atru.chr3.3241' => 'acertr', 'Atru.chr4.2460' => 'acertr', 'AUR62007427' => 'cqu', 'AUR62010960' => 'cqu', 'AUR62012201' => 'cqu', 'AUR62021470' => 'cqu', 'AUR62022834' => 'cqu', 'AUR62033635' => 'cqu', 'AUR62036186' => 'cqu', 'BcaB01g03077' => 'bca', 'BcaB02g10093' => 'bca', 'BcaB04g20295' => 'bca', 'BcaB06g28147' => 'bca', 'BcaB07g31253' => 'bca', 'BcaC01g04946' => 'bca', 'BcaC02g10614' => 'bca', 'BcaC02g10885' => 'bca', 'BcaC04g19356' => 'bca', 'BcaC04g22297' => 'bca', 'BcaC05g24977' => 'bca', 'BcaC06g31823' => 'bca', 'BcaC07g38633' => 'bca', 'BcaC09g49353' => 'bca', 'BcaC09g50168' => 'bca', 'BcaNung00322' => 'bca', 'BcaNung04769' => 'bca', 'BolC1t02753H' => 'bol', 'BolC1t03721H' => 'bol', 'BolC3t15525H' => 'bol', 'BolC4t23903H' => 'bol', 'BolC4t24231H' => 'bol', 'BolC4t27209H' => 'bol', 'BolC5t29671H' => 'bol', 'BolC8t49044H' => 'bol', 'BolC9t54999H' => 'bol', 'BolC9t59517H' => 'bol', 'BraA01t02178Z' => 'bra', 'BraA01t03099Z' => 'bra', 'BraA03t11867Z' => 'bra', 'BraA04t17667Z' => 'bra', 'BraA07t29542Z' => 'bra', 'BraA08t35287Z' => 'bra', 'BraA09t37334Z' => 'bra', 'BraA10t44801Z' => 'bra', 'BraSC39t46181Z' => 'bra', 'C01p28240' => 'bna', 'C01p37530' => 'bna', 'C03p31820' => 'bna', 'C04p24080' => 'bna', 'C04p25790' => 'bna', 'C04p56770' => 'bna', 'C05p09310' => 'bna', 'C09p21010' => 'bna', 'C09p67560' => 'bna', 'CAN.G1324.7' => 'can', 'CAN.G1358.10' => 'can', 'CAN.G1550.2' => 'can', 'CAN.G186.56' => 'can', 'CAN.G1965.1' => 'can', 'CAN.G645.15' => 'can', 'CAN.G798.26' => 'can', 'CAN.G798.27' => 'can', 'CAN.G798.29' => 'can', 'CAN.G919.31' => 'can', 'CANSAT11G0133' => 'cansat', 'CANSAT11G1171' => 'cansat', 'CANSAT11G2056' => 'cansat', 'CANSAT56G1202' => 'cansat', 'CANSAT56G1514' => 'cansat', 'CANSAT78G0455' => 'cansat', 'CARHR011190' => 'chi', 'CARHR051980' => 'chi', 'CARHR120170' => 'chi', 'CARHR203310' => 'chi', 'CARHR221490' => 'chi', 'Carub.0001s1054' => 'cru', 'Carub.0002s0431' => 'cru', 'Carub.0004s0818' => 'cru', 'Carub.0006s0846' => 'cru', 'Carub.0007s2722' => 'cru', 'Ca_00058_v3' => 'car', 'Ca_17831_v3' => 'car', 'Ca_19408_v3' => 'car', 'Ca_24397_v3' => 'car', 'Ca_25664_v3' => 'car', 'CBR_g21818' => 'cbr', 'CBR_g31195' => 'cbr', 'CBR_g32282' => 'cbr', 'CBR_g39599' => 'cbr', 'CBR_g49410' => 'cbr', 'Cc01_g09120' => 'ccan', 'Cc01_g09130' => 'ccan', 'Cc02_g09630' => 'ccan', 'Cc02_g22810' => 'ccan', 'Cc03_g03810' => 'ccan', 'CDE02G3718' => 'cde', 'CDE04G3183' => 'cde', 'CDE07G1046' => 'cde', 'CDE08G0480' => 'cde', 'Cfa005493' => 'cfa', 'Cfa010312' => 'cfa', 'Cfa015648' => 'cfa', 'Ciclev10002793m.g' => 'ccl', 'Ciclev10003356m.g' => 'ccl', 'Ciclev10006141m.g' => 'ccl', 'Ciclev10016676m.g' => 'ccl', 'Ciclev10017081m.g' => 'ccl', 'Ciclev10029499m.g' => 'ccl', 'CiPaw.01G166300' => 'cil', 'CiPaw.06G145600' => 'cil', 'CiPaw.13G040100' => 'cil', 'CiPaw.13G135800' => 'cil', 'ClCG01G012230' => 'cla', 'ClCG05G009510' => 'cla', 'ClCG08G008270' => 'cla', 'COL.COLO4_11763' => 'col', 'COL.COLO4_19876' => 'col', 'COL.COLO4_21481' => 'col', 'Cpa.g.sc118.34' => 'cpa', 'Cpa.g.sc32.13' => 'cpa', 'Cpa.g.sc58.103' => 'cpa', 'Cre03.g183850' => 'cre', 'Cre06.g306350' => 'cre', 'Cre07.g334800' => 'cre', 'Cre12.g487900' => 'cre', 'Cre14.g626700' => 'cre', 'Cre16.g658400' => 'cre', 'Cre17.g700950' => 'cre', 'CsaV3_1G014830' => 'csa', 'CsaV3_3G013320' => 'csa', 'CsaV3_3G019210' => 'csa', 'CsaV3_3G019220' => 'csa', 'CsaV3_6G004230' => 'csa', 'CSS0003773' => 'camsi', 'CSS0004563' => 'camsi', 'CSS0013949' => 'camsi', 'CSS0025971' => 'camsi', 'CSS0028570' => 'camsi', 'CSS0033127' => 'camsi', 'CSS0036051' => 'camsi', 'CSS0040087' => 'camsi', 'CSS0043179' => 'camsi', 'DCAR_006161' => 'dca', 'DCAR_010351' => 'dca', 'DCAR_012197' => 'dca', 'DCAR_024162' => 'dca', 'Dinv01030' => 'din', 'Dinv10924' => 'din', 'Dinv11835' => 'din', 'Dinv22841' => 'din', 'Dinv42553' => 'din', 'Duzib052G0560' => 'dzi', 'Duzib132G0389' => 'dzi', 'Duzib150G1181' => 'dzi', 'Duzib168G0623' => 'dzi', 'Duzib170G1036' => 'dzi', 'Duzib212G0200' => 'dzi', 'Duzib248G0194' => 'dzi', 'ECA232G2193' => 'eca', 'ECA233G0302' => 'eca', 'ECA234G2813' => 'eca', 'ECA234G4866' => 'eca', 'ECA240G3932' => 'eca', 'ECA248G0385' => 'eca', 'EL10Ac2g04781' => 'bvu', 'EL10Ac3g06445' => 'bvu', 'EL10Ac7g15825' => 'bvu', 'EL10Ac8g18550' => 'bvu', 'Eucgr.B03849' => 'egr', 'Eucgr.I02744' => 'egr', 'Eucgr.J00264' => 'egr', 'Eucgr.J00493' => 'egr', 'FAN04G2181' => 'fan', 'FAN07G2666' => 'fan', 'FAN11G0024' => 'fan', 'FAN12G1105' => 'fan', 'FAN13G0302' => 'fan', 'FAN15G2781' => 'fan', 'FAN16G1274' => 'fan', 'FAN17G2988' => 'fan', 'FAN18G2621' => 'fan', 'FAN21G0013' => 'fan', 'FAN22G1211' => 'fan', 'FAN25G3626' => 'fan', 'FvH4_2g09491' => 'fve', 'FvH4_3g24910' => 'fve', 'FvH4_4g15630' => 'fve', 'FvH4_5g28820' => 'fve', 'Glyma.01G238000' => 'gma', 'Glyma.05G168400' => 'gma', 'Glyma.08G126800' => 'gma', 'Glyma.08G188500' => 'gma', 'Glyma.10G278900' => 'gma', 'Glyma.11G005700' => 'gma', 'Glyma.11G183300' => 'gma', 'Glyma.12G089200' => 'gma', 'Glyma.12G169400' => 'gma', 'Glyma.12G169500' => 'gma', 'Glyma.12G169600' => 'gma', 'Glyma.20G110800' => 'gma', 'Gohir.A03G192900' => 'ghi', 'Gohir.A03G193000' => 'ghi', 'Gohir.A05G080700' => 'ghi', 'Gohir.A09G216000' => 'ghi', 'Gohir.A12G027700' => 'ghi', 'Gohir.A13G036200' => 'ghi', 'Gohir.A13G222600' => 'ghi', 'Gohir.D02G213900' => 'ghi', 'Gohir.D02G214000' => 'ghi', 'Gohir.D05G083700' => 'ghi', 'Gohir.D05G083800' => 'ghi', 'Gohir.D05G083850' => 'ghi', 'Gohir.D08G015400' => 'ghi', 'Gohir.D09G218400' => 'ghi', 'Gohir.D12G027100' => 'ghi', 'Gohir.D13G034500' => 'ghi', 'Gohir.D13G227400' => 'ghi', 'Gorai.005G241800' => 'gra', 'Gorai.005G241900' => 'gra', 'Gorai.006G239400' => 'gra', 'Gorai.008G027600' => 'gra', 'Gorai.009G085400' => 'gra', 'Gorai.009G085500' => 'gra', 'Gorai.013G039000' => 'gra', 'Gorai.013G194800' => 'gra', 'Gorai.013G257900' => 'gra', 'GSVIVG01000982001' => 'vvi', 'GSVIVG01017981001' => 'vvi', 'HanXRQChr01g0024061' => 'han', 'HanXRQChr09g0247831' => 'han', 'HanXRQChr10g0294611' => 'han', 'HanXRQChr10g0294621' => 'han', 'HanXRQChr11g0346821' => 'han', 'HanXRQChr13g0397461' => 'han', 'HanXRQChr16g0513651' => 'han', 'HanXRQChr16g0513701' => 'han', 'Haze_00897' => 'cav', 'Haze_01745' => 'cav', 'Haze_02486' => 'cav', 'Haze_02487' => 'cav', 'Haze_23374' => 'cav', 'Hma1.2p1_0578F.1_g182520' => 'hma', 'Hma1.2p1_0602F.1_g187350' => 'hma', 'Hma1.2p1_0602F.1_g187360' => 'hma', 'Hma1.2p1_0874F.1_g231320' => 'hma', 'Hma1.2p1_1197F.1_g266210' => 'hma', 'Hma1.2p1_1197F.1_g266220' => 'hma', 'Hma1.2p1_2167F.1_g315895' => 'hma', 'Hma1.2p1_2190F.1_g316640' => 'hma', 'Hma1.2p1_3645F.1_g337153' => 'hma', 'HPP92_004907' => 'vpl', 'HPP92_012134' => 'vpl', 'HPP92_025136' => 'vpl', 'HPP92_026087' => 'vpl', 'Hund06782' => 'sun', 'Hund06784' => 'sun', 'Lalb_Chr01g0004861' => 'lal', 'Lalb_Chr02g0140591' => 'lal', 'Lalb_Chr02g0140611' => 'lal', 'Lalb_Chr03g0028101' => 'lal', 'Lalb_Chr07g0185791' => 'lal', 'Lalb_Chr12g0204491' => 'lal', 'Lalb_Chr13g0295671' => 'lal', 'Lalb_Chr19g0136461' => 'lal', 'Lalb_Chr21g0309191' => 'lal', 'Lj1g0028158' => 'lja', 'Lj1P236T38' => 'lonja', 'Lj2C32G2' => 'lonja', 'Lj2P944T8' => 'lonja', 'Lj2P963T15' => 'lonja', 'Lj3g0011788' => 'lja', 'Lj4g0025027' => 'lja', 'Lj5P255T36' => 'lonja', 'Lj6g0018866' => 'lja', 'Lj6P608T31' => 'lonja', 'LjContig00408g0008879' => 'lja', 'Lsat_1_v5_gn_5_105820' => 'lsa', 'Lsat_1_v5_gn_6_38800' => 'lsa', 'Lsat_1_v5_gn_7_67141' => 'lsa', 'Manes.04G003400' => 'mes', 'Manes.07G020000' => 'mes', 'Manes.07G020100' => 'mes', 'Manes.07G020150' => 'mes', 'Manes.10G061500' => 'mes', 'Manes.10G123200' => 'mes', 'Manes.11G161900' => 'mes', 'Manes.15G029300' => 'mes', 'Mapoly0071s0018' => 'mpo', 'Mapoly0082s0023' => 'mpo', 'Mapoly3477s0001' => 'mpo', 'MBI05_g31233_MAGBIO' => 'mbi', 'MBI09_g05946_MAGBIO' => 'mbi', 'MBI09_g05947_MAGBIO' => 'mbi', 'MBI17_g08346_MAGBIO' => 'mbi', 'MCO04G038' => 'mco', 'MCO09G370' => 'mco', 'MCO13G605' => 'mco', 'MD00G1075500' => 'mdo', 'MD03G1144300' => 'mdo', 'MD08G1236800' => 'mdo', 'MD13G1193300' => 'mdo', 'MD15G1428700' => 'mdo', 'Medtr1g112030' => 'mtr', 'Medtr1g112050' => 'mtr', 'Medtr2g006290' => 'mtr', 'Medtr2g086510' => 'mtr', 'Medtr4g053120' => 'mtr', 'Medtr5g006320' => 'mtr', 'Medtr8g088720' => 'mtr', 'MELO3C004712.2' => 'cme', 'MELO3C006533.2' => 'cme', 'MELO3C019438.2' => 'cme', 'MELO3C019440.2' => 'cme', 'MELO3C019441.2' => 'cme', 'MELO3C019895.2' => 'cme', 'Migut.B00811' => 'egut', 'Migut.D02447' => 'egut', 'Migut.F00875' => 'egut', 'Migut.N00186' => 'egut', 'Migut.N01051' => 'egut', 'Migut.N02491' => 'egut', 'Migut.O00784' => 'egut', 'MSTRG.12367' => 'ama', 'MSTRG.18756' => 'ama', 'MSTRG.21042' => 'ama', 'Nitab4.5_0000559g0040' => 'nta', 'Nitab4.5_0000667g0190' => 'nta', 'Nitab4.5_0000755g0160' => 'nta', 'Nitab4.5_0001216g0080' => 'nta', 'Nitab4.5_0004069g0040' => 'nta', 'Nitab4.5_0004129g0010' => 'nta', 'Nitab4.5_0005744g0030' => 'nta', 'Nitab4.5_0006996g0030' => 'nta', 'Nitab4.5_0008971g0040' => 'nta', 'Nitab4.5_0009769g0020' => 'nta', 'Nitab4.5_0009833g0010' => 'nta', 'Nitab4.5_0013140g0020' => 'nta', 'Nn003s41376' => 'nnu', 'Nn1g01857' => 'nnu', 'Nn1g03611' => 'nnu', 'Nn1g06853' => 'nnu', 'Nn3g18360' => 'nnu', 'Nn4g26328' => 'nnu', 'Nn5g27531' => 'nnu', 'Nn6g34899' => 'nnu', 'Nn7g36299' => 'nnu', 'Oeu021485.1' => 'oeu', 'Oeu022433.1' => 'oeu', 'Oeu032111.1' => 'oeu', 'Oeu051608.1' => 'oeu', 'Os01g0860601' => 'osa', 'Os03g0659200' => 'osa', 'Os03g0835900' => 'osa', 'Os04g0412200' => 'osa', 'Os05g0443500' => 'osa', 'Os07g0251500' => 'osa', 'Os08g0104600' => 'osa', 'Peaxi162Scf00003g00047' => 'pax', 'Peaxi162Scf00003g00052' => 'pax', 'Peaxi162Scf00003g00394' => 'pax', 'Peaxi162Scf00091g00621' => 'pax', 'Peaxi162Scf00152g00146' => 'pax', 'Peaxi162Scf00173g00025' => 'pax', 'Peaxi162Scf00195g00102' => 'pax', 'Peaxi162Scf00402g00013' => 'pax', 'Peaxi162Scf00519g00618' => 'pax', 'PGR004G2838' => 'pgr', 'PGR044G2275' => 'pgr', 'PGR102G1377' => 'pgr', 'PGR119G1245' => 'pgr', 'PGR142G4449' => 'pgr', 'PGSC0003DMG400004532' => 'stu', 'PGSC0003DMG400011950' => 'stu', 'PGSC0003DMG400023391' => 'stu', 'PGSC0003DMG400023985' => 'stu', 'PGSC0003DMG400026360' => 'stu', 'PGSC0003DMG400035711' => 'stu', 'PGSC0003DMG400037286' => 'stu', 'PGSC0003DMG402005881' => 'stu', 'Phvul.002G045400' => 'pvu', 'Phvul.006G216600' => 'pvu', 'Phvul.006G216700' => 'pvu', 'Phvul.006G216800' => 'pvu', 'Phvul.007G022500' => 'pvu', 'Phvul.011G094400' => 'pvu', 'Potri.001G470700' => 'ptr', 'Potri.003G015200' => 'ptr', 'Potri.004G202500' => 'ptr', 'Potri.004G218400' => 'ptr', 'Potri.008G020100' => 'ptr', 'Potri.008G153200' => 'ptr', 'Potri.009G163800' => 'ptr', 'Potri.010G087300' => 'ptr', 'Potri.010G239100' => 'ptr', 'Pp3c10_16100' => 'ppa', 'Pp3c10_16880' => 'ppa', 'Pp3c16_6230' => 'ppa', 'Pp3c17_18910' => 'ppa', 'Pp3c3_22119' => 'ppa', 'Pp3c3_22140' => 'ppa', 'Pp3c4_8159' => 'ppa', 'Pp3c4_8171' => 'ppa', 'Pp3c4_8330' => 'ppa', 'PRCOL_00004098' => 'pco', 'Prupe.1G013900' => 'ppe', 'Prupe.1G226300' => 'ppe', 'Prupe.1G573600' => 'ppe', 'Prupe.6G130100' => 'ppe', 'Psat3g090040' => 'psa', 'Psat4g210440' => 'psa', 'Psat6g231040' => 'psa', 'Psat6g231080' => 'psa', 'Psat7g063000' => 'psa', 'Psat7g188000' => 'psa', 'Psat7g188040' => 'psa', 'PSO017G0206' => 'pso', 'PSO170G0501' => 'pso', 'PSO170G6422' => 'pso', 'PSO210G7739' => 'pso', 'PSO339G1808' => 'pso', 'PSO339G6135' => 'pso', 'PSO384G0010' => 'pso', 'PSO384G0964' => 'pso', 'PSO761G0050' => 'pso', 'PSO782G4085' => 'pso', 'QL01p012264' => 'qlo', 'QL02p099491' => 'qlo', 'QL03p033868' => 'qlo', 'QL04p046678' => 'qlo', 'QL06p002448' => 'qlo', 'RcHm_v2.0_Chr4g0416181' => 'rch', 'RcHm_v2.0_Chr5g0044701' => 'rch', 'RcHm_v2.0_Chr6g0265781' => 'rch', 'RcHm_v2.0_Chr7g0221031' => 'rch', 'Rhsim04G0202000' => 'rsi', 'Rhsim11G0127300' => 'rsi', 'Rhsim13G0111800' => 'rsi', 'Sabra01G0165600' => 'sbr', 'Sabra03G0008300' => 'sbr', 'Sabra04G0136900' => 'sbr', 'Sabra08G0013400' => 'sbr', 'Sabra08G0116800' => 'sbr', 'Sabra09G0128000' => 'sbr', 'Sabra10G0055500' => 'sbr', 'Sabra10G0073300' => 'sbr', 'SalBow3G0385' => 'sbo', 'SalBow3G1119' => 'sbo', 'SalBow3G2005' => 'sbo', 'SalBow6G2563' => 'sbo', 'SalBow6G6386' => 'sbo', 'Sc06g0008800' => 'sci', 'Sc07g0004950' => 'sci', 'Sc09g0005340' => 'sci', 'Sc13g0004410' => 'sci', 'Sc21g0007090' => 'sci', 'Sed0009285' => 'sed', 'Sed0017583' => 'sed', 'Sed0019699' => 'sed', 'Sed0023107' => 'sed', 'SEGI_10916' => 'sgi', 'SEGI_16217' => 'sgi', 'SEGI_19466' => 'sgi', 'SEGI_41115' => 'sgi', 'SGA_v2.0_scaffold111G31534' => 'sas', 'SGA_v2.0_scaffold22G09864' => 'sas', 'SGA_v2.0_scaffold338G49219' => 'sas', 'SGA_v2.0_scaffold92G28298' => 'sas', 'SMO119G0064' => 'smo', 'SMO223G0038' => 'smo', 'SMO347G0584' => 'smo', 'SMO351G0010' => 'smo', 'SMO356G0404' => 'smo', 'Solyc01g103920.3' => 'sly', 'Solyc04g009710.2' => 'sly', 'Solyc05g055280.2' => 'sly', 'Solyc10g044520.3' => 'sly', 'Solyc10g075160.1' => 'sly', 'Solyc11g006910.3' => 'sly', 'Solyc11g068430.3' => 'sly', 'Sopen01g046310' => 'spe', 'Sopen03g001200' => 'spe', 'Sopen04g004830' => 'spe', 'Sopen05g033720' => 'spe', 'Sopen06g030740' => 'spe', 'Sopen10g013090' => 'spe', 'Sopen10g027630' => 'spe', 'Sopen10g027640' => 'spe', 'Sopen11g002820' => 'spe', 'Sopen11g027140' => 'spe', 'Sp1g09680' => 'spa', 'Sp2g03630' => 'spa', 'Sp4g10320' => 'spa', 'Sp6g33400' => 'spa', 'Sp7g13030' => 'spa', 'TAR365G0317' => 'tar', 'TAR376G0979' => 'tar', 'TAR623G1665' => 'tar', 'TAR633G2373' => 'tar', 'TAR636G1400' => 'tar', 'THA.LOC104800529' => 'tha', 'THA.LOC104808547' => 'tha', 'THA.LOC104809615' => 'tha', 'THA.LOC104815724' => 'tha', 'THA.LOC104818480' => 'tha', 'THA.LOC104819179' => 'tha', 'THA.LOC104822270' => 'tha', 'THA.LOC104826425' => 'tha', 'Thecc.02G089700' => 'tca', 'Thecc.04G232300' => 'tca', 'Thecc.09G283400' => 'tca', 'Thhalv10009020m.g' => 'esa', 'Thhalv10015506m.g' => 'esa', 'Thhalv10017364m.g' => 'esa', 'Thhalv10023742m.g' => 'esa', 'Thhalv10026483m.g' => 'esa', 'TPR.G17232' => 'tpr', 'TPR.G2133' => 'tpr', 'TPR.G2498' => 'tpr', 'TPR.G31942' => 'tpr', 'TPR.G37877' => 'tpr', 'TPR.G4571' => 'tpr', 'TWI14G1113' => 'twi', 'TWI15G0426' => 'twi', 'TWI31G1005' => 'twi', 'TWI38G0513' => 'twi', 'TWI38G1484' => 'twi', 'TWI73G1098' => 'twi', 'unitig_26.g10519' => 'ugi', 'unitig_736.g22395' => 'ugi', 'unitig_747.g21234' => 'ugi', 'unitig_747.g21942' => 'ugi', 'vmacro14351' => 'vma', 'VMungo0540G0082' => 'vmu', 'VMungo0540G0405' => 'vmu', 'VMungo0540G1486' => 'vmu', 'VMungo0540G1692' => 'vmu', 'VMungo0720G2473' => 'vmu', 'VMungo1127G1562' => 'vmu', 'VMungo1215G1918' => 'vmu', 'Zm00001eb052650' => 'zma', 'Zm00001eb063710' => 'zma', 'Zm00001eb083950' => 'zma', 'Zm00001eb174420' => 'zma', 'Zm00001eb260140' => 'zma', 'Zm00001eb260150' => 'zma', 'Zm00001eb260160' => 'zma', 'Zm00001eb348290' => 'zma', 'Zm00001eb366870' => 'zma', 'Zm00001eb421930' => 'zma' ), 'gf_id' => 'HOM05D001025', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001025' ), 'data_identifier' => 'HOM05D001025', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001025', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '592', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p22650' => 'bna', 'A01p29720' => 'bna', 'A03p26560' => 'bna', 'A03p68820' => 'bna', 'A04p20980' => 'bna', 'A06p07730' => 'bna', 'A07p18260' => 'bna', 'A08p33710' => 'bna', 'A09p16970' => 'bna', 'A10p27490' => 'bna', 'Aa31LG1G17300' => 'aar', 'Aa31LG1G3910' => 'aar', 'Aa31LG2G9630' => 'aar', 'Aa31LG5G8360' => 'aar', 'Aa31LG9G2410' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4699' => 'aag', 'Actinidia23512' => 'ach', 'Actinidia37080' => 'ach', 'Ah.01g020380' => 'amhyb', 'Ah.08g215710' => 'amhyb', 'Ah.09g225110' => 'amhyb', 'Ah.10g036680' => 'amhyb', 'AL1G21940' => 'aly', 'AL2G15540' => 'aly', 'AL4G21520' => 'aly', 'AL7G40960' => 'aly', 'Aqoxy2G01191' => 'aox', 'Aqoxy2G03393' => 'aox', 'Aqoxy4G02775' => 'aox', 'Aqoxy6G00058' => 'aox', 'arahy.Tifrunner.gnm1.ann1.9X74H2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CW3FX9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R485W7' => 'arhy', 'AT1G10960' => 'ath', 'AT1G60950' => 'ath', 'AT2G27510' => 'ath', 'AT4G14890' => 'ath', 'AT5G10000' => 'ath', 'ATR0665G624' => 'atr', 'ATR0697G138' => 'atr', 'ATR0776G046' => 'atr', 'ATR1134G135' => 'atr', 'Atru.chr12.1025' => 'acertr', 'Atru.chr3.3241' => 'acertr', 'Atru.chr4.2460' => 'acertr', 'AUR62007427' => 'cqu', 'AUR62010960' => 'cqu', 'AUR62012201' => 'cqu', 'AUR62021470' => 'cqu', 'AUR62022834' => 'cqu', 'AUR62033635' => 'cqu', 'AUR62036186' => 'cqu', 'BcaB01g03077' => 'bca', 'BcaB02g10093' => 'bca', 'BcaB04g20295' => 'bca', 'BcaB06g28147' => 'bca', 'BcaB07g31253' => 'bca', 'BcaC01g04946' => 'bca', 'BcaC02g10614' => 'bca', 'BcaC02g10885' => 'bca', 'BcaC04g19356' => 'bca', 'BcaC04g22297' => 'bca', 'BcaC05g24977' => 'bca', 'BcaC06g31823' => 'bca', 'BcaC07g38633' => 'bca', 'BcaC09g49353' => 'bca', 'BcaC09g50168' => 'bca', 'BcaNung00322' => 'bca', 'BcaNung04769' => 'bca', 'BolC1t02753H' => 'bol', 'BolC1t03721H' => 'bol', 'BolC3t15525H' => 'bol', 'BolC4t23903H' => 'bol', 'BolC4t24231H' => 'bol', 'BolC4t27209H' => 'bol', 'BolC5t29671H' => 'bol', 'BolC8t49044H' => 'bol', 'BolC9t54999H' => 'bol', 'BolC9t59517H' => 'bol', 'BraA01t02178Z' => 'bra', 'BraA01t03099Z' => 'bra', 'BraA03t11867Z' => 'bra', 'BraA04t17667Z' => 'bra', 'BraA07t29542Z' => 'bra', 'BraA08t35287Z' => 'bra', 'BraA09t37334Z' => 'bra', 'BraA10t44801Z' => 'bra', 'BraSC39t46181Z' => 'bra', 'C01p28240' => 'bna', 'C01p37530' => 'bna', 'C03p31820' => 'bna', 'C04p24080' => 'bna', 'C04p25790' => 'bna', 'C04p56770' => 'bna', 'C05p09310' => 'bna', 'C09p21010' => 'bna', 'C09p67560' => 'bna', 'CAN.G1324.7' => 'can', 'CAN.G1358.10' => 'can', 'CAN.G1550.2' => 'can', 'CAN.G186.56' => 'can', 'CAN.G1965.1' => 'can', 'CAN.G645.15' => 'can', 'CAN.G798.26' => 'can', 'CAN.G798.27' => 'can', 'CAN.G798.29' => 'can', 'CAN.G919.31' => 'can', 'CANSAT11G0133' => 'cansat', 'CANSAT11G1171' => 'cansat', 'CANSAT11G2056' => 'cansat', 'CANSAT56G1202' => 'cansat', 'CANSAT56G1514' => 'cansat', 'CANSAT78G0455' => 'cansat', 'CARHR011190' => 'chi', 'CARHR051980' => 'chi', 'CARHR120170' => 'chi', 'CARHR203310' => 'chi', 'CARHR221490' => 'chi', 'Carub.0001s1054' => 'cru', 'Carub.0002s0431' => 'cru', 'Carub.0004s0818' => 'cru', 'Carub.0006s0846' => 'cru', 'Carub.0007s2722' => 'cru', 'Ca_00058_v3' => 'car', 'Ca_17831_v3' => 'car', 'Ca_19408_v3' => 'car', 'Ca_24397_v3' => 'car', 'Ca_25664_v3' => 'car', 'CBR_g21818' => 'cbr', 'CBR_g31195' => 'cbr', 'CBR_g32282' => 'cbr', 'CBR_g39599' => 'cbr', 'CBR_g49410' => 'cbr', 'Cc01_g09120' => 'ccan', 'Cc01_g09130' => 'ccan', 'Cc02_g09630' => 'ccan', 'Cc02_g22810' => 'ccan', 'Cc03_g03810' => 'ccan', 'CDE02G3718' => 'cde', 'CDE04G3183' => 'cde', 'CDE07G1046' => 'cde', 'CDE08G0480' => 'cde', 'Cfa005493' => 'cfa', 'Cfa010312' => 'cfa', 'Cfa015648' => 'cfa', 'Ciclev10002793m.g' => 'ccl', 'Ciclev10003356m.g' => 'ccl', 'Ciclev10006141m.g' => 'ccl', 'Ciclev10016676m.g' => 'ccl', 'Ciclev10017081m.g' => 'ccl', 'Ciclev10029499m.g' => 'ccl', 'CiPaw.01G166300' => 'cil', 'CiPaw.06G145600' => 'cil', 'CiPaw.13G040100' => 'cil', 'CiPaw.13G135800' => 'cil', 'ClCG01G012230' => 'cla', 'ClCG05G009510' => 'cla', 'ClCG08G008270' => 'cla', 'COL.COLO4_11763' => 'col', 'COL.COLO4_19876' => 'col', 'COL.COLO4_21481' => 'col', 'Cpa.g.sc118.34' => 'cpa', 'Cpa.g.sc32.13' => 'cpa', 'Cpa.g.sc58.103' => 'cpa', 'Cre03.g183850' => 'cre', 'Cre06.g306350' => 'cre', 'Cre07.g334800' => 'cre', 'Cre12.g487900' => 'cre', 'Cre14.g626700' => 'cre', 'Cre16.g658400' => 'cre', 'Cre17.g700950' => 'cre', 'CsaV3_1G014830' => 'csa', 'CsaV3_3G013320' => 'csa', 'CsaV3_3G019210' => 'csa', 'CsaV3_3G019220' => 'csa', 'CsaV3_6G004230' => 'csa', 'CSS0003773' => 'camsi', 'CSS0004563' => 'camsi', 'CSS0013949' => 'camsi', 'CSS0025971' => 'camsi', 'CSS0028570' => 'camsi', 'CSS0033127' => 'camsi', 'CSS0036051' => 'camsi', 'CSS0040087' => 'camsi', 'CSS0043179' => 'camsi', 'DCAR_006161' => 'dca', 'DCAR_010351' => 'dca', 'DCAR_012197' => 'dca', 'DCAR_024162' => 'dca', 'Dinv01030' => 'din', 'Dinv10924' => 'din', 'Dinv11835' => 'din', 'Dinv22841' => 'din', 'Dinv42553' => 'din', 'Duzib052G0560' => 'dzi', 'Duzib132G0389' => 'dzi', 'Duzib150G1181' => 'dzi', 'Duzib168G0623' => 'dzi', 'Duzib170G1036' => 'dzi', 'Duzib212G0200' => 'dzi', 'Duzib248G0194' => 'dzi', 'ECA232G2193' => 'eca', 'ECA233G0302' => 'eca', 'ECA234G2813' => 'eca', 'ECA234G4866' => 'eca', 'ECA240G3932' => 'eca', 'ECA248G0385' => 'eca', 'EL10Ac2g04781' => 'bvu', 'EL10Ac3g06445' => 'bvu', 'EL10Ac7g15825' => 'bvu', 'EL10Ac8g18550' => 'bvu', 'Eucgr.B03849' => 'egr', 'Eucgr.I02744' => 'egr', 'Eucgr.J00264' => 'egr', 'Eucgr.J00493' => 'egr', 'FAN04G2181' => 'fan', 'FAN07G2666' => 'fan', 'FAN11G0024' => 'fan', 'FAN12G1105' => 'fan', 'FAN13G0302' => 'fan', 'FAN15G2781' => 'fan', 'FAN16G1274' => 'fan', 'FAN17G2988' => 'fan', 'FAN18G2621' => 'fan', 'FAN21G0013' => 'fan', 'FAN22G1211' => 'fan', 'FAN25G3626' => 'fan', 'FvH4_2g09491' => 'fve', 'FvH4_3g24910' => 'fve', 'FvH4_4g15630' => 'fve', 'FvH4_5g28820' => 'fve', 'Glyma.01G238000' => 'gma', 'Glyma.05G168400' => 'gma', 'Glyma.08G126800' => 'gma', 'Glyma.08G188500' => 'gma', 'Glyma.10G278900' => 'gma', 'Glyma.11G005700' => 'gma', 'Glyma.11G183300' => 'gma', 'Glyma.12G089200' => 'gma', 'Glyma.12G169400' => 'gma', 'Glyma.12G169500' => 'gma', 'Glyma.12G169600' => 'gma', 'Glyma.20G110800' => 'gma', 'Gohir.A03G192900' => 'ghi', 'Gohir.A03G193000' => 'ghi', 'Gohir.A05G080700' => 'ghi', 'Gohir.A09G216000' => 'ghi', 'Gohir.A12G027700' => 'ghi', 'Gohir.A13G036200' => 'ghi', 'Gohir.A13G222600' => 'ghi', 'Gohir.D02G213900' => 'ghi', 'Gohir.D02G214000' => 'ghi', 'Gohir.D05G083700' => 'ghi', 'Gohir.D05G083800' => 'ghi', 'Gohir.D05G083850' => 'ghi', 'Gohir.D08G015400' => 'ghi', 'Gohir.D09G218400' => 'ghi', 'Gohir.D12G027100' => 'ghi', 'Gohir.D13G034500' => 'ghi', 'Gohir.D13G227400' => 'ghi', 'Gorai.005G241800' => 'gra', 'Gorai.005G241900' => 'gra', 'Gorai.006G239400' => 'gra', 'Gorai.008G027600' => 'gra', 'Gorai.009G085400' => 'gra', 'Gorai.009G085500' => 'gra', 'Gorai.013G039000' => 'gra', 'Gorai.013G194800' => 'gra', 'Gorai.013G257900' => 'gra', 'GSVIVG01000982001' => 'vvi', 'GSVIVG01017981001' => 'vvi', 'HanXRQChr01g0024061' => 'han', 'HanXRQChr09g0247831' => 'han', 'HanXRQChr10g0294611' => 'han', 'HanXRQChr10g0294621' => 'han', 'HanXRQChr11g0346821' => 'han', 'HanXRQChr13g0397461' => 'han', 'HanXRQChr16g0513651' => 'han', 'HanXRQChr16g0513701' => 'han', 'Haze_00897' => 'cav', 'Haze_01745' => 'cav', 'Haze_02486' => 'cav', 'Haze_02487' => 'cav', 'Haze_23374' => 'cav', 'Hma1.2p1_0578F.1_g182520' => 'hma', 'Hma1.2p1_0602F.1_g187350' => 'hma', 'Hma1.2p1_0602F.1_g187360' => 'hma', 'Hma1.2p1_0874F.1_g231320' => 'hma', 'Hma1.2p1_1197F.1_g266210' => 'hma', 'Hma1.2p1_1197F.1_g266220' => 'hma', 'Hma1.2p1_2167F.1_g315895' => 'hma', 'Hma1.2p1_2190F.1_g316640' => 'hma', 'Hma1.2p1_3645F.1_g337153' => 'hma', 'HPP92_004907' => 'vpl', 'HPP92_012134' => 'vpl', 'HPP92_025136' => 'vpl', 'HPP92_026087' => 'vpl', 'Hund06782' => 'sun', 'Hund06784' => 'sun', 'Lalb_Chr01g0004861' => 'lal', 'Lalb_Chr02g0140591' => 'lal', 'Lalb_Chr02g0140611' => 'lal', 'Lalb_Chr03g0028101' => 'lal', 'Lalb_Chr07g0185791' => 'lal', 'Lalb_Chr12g0204491' => 'lal', 'Lalb_Chr13g0295671' => 'lal', 'Lalb_Chr19g0136461' => 'lal', 'Lalb_Chr21g0309191' => 'lal', 'Lj1g0028158' => 'lja', 'Lj1P236T38' => 'lonja', 'Lj2C32G2' => 'lonja', 'Lj2P944T8' => 'lonja', 'Lj2P963T15' => 'lonja', 'Lj3g0011788' => 'lja', 'Lj4g0025027' => 'lja', 'Lj5P255T36' => 'lonja', 'Lj6g0018866' => 'lja', 'Lj6P608T31' => 'lonja', 'LjContig00408g0008879' => 'lja', 'Lsat_1_v5_gn_5_105820' => 'lsa', 'Lsat_1_v5_gn_6_38800' => 'lsa', 'Lsat_1_v5_gn_7_67141' => 'lsa', 'Manes.04G003400' => 'mes', 'Manes.07G020000' => 'mes', 'Manes.07G020100' => 'mes', 'Manes.07G020150' => 'mes', 'Manes.10G061500' => 'mes', 'Manes.10G123200' => 'mes', 'Manes.11G161900' => 'mes', 'Manes.15G029300' => 'mes', 'Mapoly0071s0018' => 'mpo', 'Mapoly0082s0023' => 'mpo', 'Mapoly3477s0001' => 'mpo', 'MBI05_g31233_MAGBIO' => 'mbi', 'MBI09_g05946_MAGBIO' => 'mbi', 'MBI09_g05947_MAGBIO' => 'mbi', 'MBI17_g08346_MAGBIO' => 'mbi', 'MCO04G038' => 'mco', 'MCO09G370' => 'mco', 'MCO13G605' => 'mco', 'MD00G1075500' => 'mdo', 'MD03G1144300' => 'mdo', 'MD08G1236800' => 'mdo', 'MD13G1193300' => 'mdo', 'MD15G1428700' => 'mdo', 'Medtr1g112030' => 'mtr', 'Medtr1g112050' => 'mtr', 'Medtr2g006290' => 'mtr', 'Medtr2g086510' => 'mtr', 'Medtr4g053120' => 'mtr', 'Medtr5g006320' => 'mtr', 'Medtr8g088720' => 'mtr', 'MELO3C004712.2' => 'cme', 'MELO3C006533.2' => 'cme', 'MELO3C019438.2' => 'cme', 'MELO3C019440.2' => 'cme', 'MELO3C019441.2' => 'cme', 'MELO3C019895.2' => 'cme', 'Migut.B00811' => 'egut', 'Migut.D02447' => 'egut', 'Migut.F00875' => 'egut', 'Migut.N00186' => 'egut', 'Migut.N01051' => 'egut', 'Migut.N02491' => 'egut', 'Migut.O00784' => 'egut', 'MSTRG.12367' => 'ama', 'MSTRG.18756' => 'ama', 'MSTRG.21042' => 'ama', 'Nitab4.5_0000559g0040' => 'nta', 'Nitab4.5_0000667g0190' => 'nta', 'Nitab4.5_0000755g0160' => 'nta', 'Nitab4.5_0001216g0080' => 'nta', 'Nitab4.5_0004069g0040' => 'nta', 'Nitab4.5_0004129g0010' => 'nta', 'Nitab4.5_0005744g0030' => 'nta', 'Nitab4.5_0006996g0030' => 'nta', 'Nitab4.5_0008971g0040' => 'nta', 'Nitab4.5_0009769g0020' => 'nta', 'Nitab4.5_0009833g0010' => 'nta', 'Nitab4.5_0013140g0020' => 'nta', 'Nn003s41376' => 'nnu', 'Nn1g01857' => 'nnu', 'Nn1g03611' => 'nnu', 'Nn1g06853' => 'nnu', 'Nn3g18360' => 'nnu', 'Nn4g26328' => 'nnu', 'Nn5g27531' => 'nnu', 'Nn6g34899' => 'nnu', 'Nn7g36299' => 'nnu', 'Oeu021485.1' => 'oeu', 'Oeu022433.1' => 'oeu', 'Oeu032111.1' => 'oeu', 'Oeu051608.1' => 'oeu', 'Os01g0860601' => 'osa', 'Os03g0659200' => 'osa', 'Os03g0835900' => 'osa', 'Os04g0412200' => 'osa', 'Os05g0443500' => 'osa', 'Os07g0251500' => 'osa', 'Os08g0104600' => 'osa', 'Peaxi162Scf00003g00047' => 'pax', 'Peaxi162Scf00003g00052' => 'pax', 'Peaxi162Scf00003g00394' => 'pax', 'Peaxi162Scf00091g00621' => 'pax', 'Peaxi162Scf00152g00146' => 'pax', 'Peaxi162Scf00173g00025' => 'pax', 'Peaxi162Scf00195g00102' => 'pax', 'Peaxi162Scf00402g00013' => 'pax', 'Peaxi162Scf00519g00618' => 'pax', 'PGR004G2838' => 'pgr', 'PGR044G2275' => 'pgr', 'PGR102G1377' => 'pgr', 'PGR119G1245' => 'pgr', 'PGR142G4449' => 'pgr', 'PGSC0003DMG400004532' => 'stu', 'PGSC0003DMG400011950' => 'stu', 'PGSC0003DMG400023391' => 'stu', 'PGSC0003DMG400023985' => 'stu', 'PGSC0003DMG400026360' => 'stu', 'PGSC0003DMG400035711' => 'stu', 'PGSC0003DMG400037286' => 'stu', 'PGSC0003DMG402005881' => 'stu', 'Phvul.002G045400' => 'pvu', 'Phvul.006G216600' => 'pvu', 'Phvul.006G216700' => 'pvu', 'Phvul.006G216800' => 'pvu', 'Phvul.007G022500' => 'pvu', 'Phvul.011G094400' => 'pvu', 'Potri.001G470700' => 'ptr', 'Potri.003G015200' => 'ptr', 'Potri.004G202500' => 'ptr', 'Potri.004G218400' => 'ptr', 'Potri.008G020100' => 'ptr', 'Potri.008G153200' => 'ptr', 'Potri.009G163800' => 'ptr', 'Potri.010G087300' => 'ptr', 'Potri.010G239100' => 'ptr', 'Pp3c10_16100' => 'ppa', 'Pp3c10_16880' => 'ppa', 'Pp3c16_6230' => 'ppa', 'Pp3c17_18910' => 'ppa', 'Pp3c3_22119' => 'ppa', 'Pp3c3_22140' => 'ppa', 'Pp3c4_8159' => 'ppa', 'Pp3c4_8171' => 'ppa', 'Pp3c4_8330' => 'ppa', 'PRCOL_00004098' => 'pco', 'Prupe.1G013900' => 'ppe', 'Prupe.1G226300' => 'ppe', 'Prupe.1G573600' => 'ppe', 'Prupe.6G130100' => 'ppe', 'Psat3g090040' => 'psa', 'Psat4g210440' => 'psa', 'Psat6g231040' => 'psa', 'Psat6g231080' => 'psa', 'Psat7g063000' => 'psa', 'Psat7g188000' => 'psa', 'Psat7g188040' => 'psa', 'PSO017G0206' => 'pso', 'PSO170G0501' => 'pso', 'PSO170G6422' => 'pso', 'PSO210G7739' => 'pso', 'PSO339G1808' => 'pso', 'PSO339G6135' => 'pso', 'PSO384G0010' => 'pso', 'PSO384G0964' => 'pso', 'PSO761G0050' => 'pso', 'PSO782G4085' => 'pso', 'QL01p012264' => 'qlo', 'QL02p099491' => 'qlo', 'QL03p033868' => 'qlo', 'QL04p046678' => 'qlo', 'QL06p002448' => 'qlo', 'RcHm_v2.0_Chr4g0416181' => 'rch', 'RcHm_v2.0_Chr5g0044701' => 'rch', 'RcHm_v2.0_Chr6g0265781' => 'rch', 'RcHm_v2.0_Chr7g0221031' => 'rch', 'Rhsim04G0202000' => 'rsi', 'Rhsim11G0127300' => 'rsi', 'Rhsim13G0111800' => 'rsi', 'Sabra01G0165600' => 'sbr', 'Sabra03G0008300' => 'sbr', 'Sabra04G0136900' => 'sbr', 'Sabra08G0013400' => 'sbr', 'Sabra08G0116800' => 'sbr', 'Sabra09G0128000' => 'sbr', 'Sabra10G0055500' => 'sbr', 'Sabra10G0073300' => 'sbr', 'SalBow3G0385' => 'sbo', 'SalBow3G1119' => 'sbo', 'SalBow3G2005' => 'sbo', 'SalBow6G2563' => 'sbo', 'SalBow6G6386' => 'sbo', 'Sc06g0008800' => 'sci', 'Sc07g0004950' => 'sci', 'Sc09g0005340' => 'sci', 'Sc13g0004410' => 'sci', 'Sc21g0007090' => 'sci', 'Sed0009285' => 'sed', 'Sed0017583' => 'sed', 'Sed0019699' => 'sed', 'Sed0023107' => 'sed', 'SEGI_10916' => 'sgi', 'SEGI_16217' => 'sgi', 'SEGI_19466' => 'sgi', 'SEGI_41115' => 'sgi', 'SGA_v2.0_scaffold111G31534' => 'sas', 'SGA_v2.0_scaffold22G09864' => 'sas', 'SGA_v2.0_scaffold338G49219' => 'sas', 'SGA_v2.0_scaffold92G28298' => 'sas', 'SMO119G0064' => 'smo', 'SMO223G0038' => 'smo', 'SMO347G0584' => 'smo', 'SMO351G0010' => 'smo', 'SMO356G0404' => 'smo', 'Solyc01g103920.3' => 'sly', 'Solyc04g009710.2' => 'sly', 'Solyc05g055280.2' => 'sly', 'Solyc10g044520.3' => 'sly', 'Solyc10g075160.1' => 'sly', 'Solyc11g006910.3' => 'sly', 'Solyc11g068430.3' => 'sly', 'Sopen01g046310' => 'spe', 'Sopen03g001200' => 'spe', 'Sopen04g004830' => 'spe', 'Sopen05g033720' => 'spe', 'Sopen06g030740' => 'spe', 'Sopen10g013090' => 'spe', 'Sopen10g027630' => 'spe', 'Sopen10g027640' => 'spe', 'Sopen11g002820' => 'spe', 'Sopen11g027140' => 'spe', 'Sp1g09680' => 'spa', 'Sp2g03630' => 'spa', 'Sp4g10320' => 'spa', 'Sp6g33400' => 'spa', 'Sp7g13030' => 'spa', 'TAR365G0317' => 'tar', 'TAR376G0979' => 'tar', 'TAR623G1665' => 'tar', 'TAR633G2373' => 'tar', 'TAR636G1400' => 'tar', 'THA.LOC104800529' => 'tha', 'THA.LOC104808547' => 'tha', 'THA.LOC104809615' => 'tha', 'THA.LOC104815724' => 'tha', 'THA.LOC104818480' => 'tha', 'THA.LOC104819179' => 'tha', 'THA.LOC104822270' => 'tha', 'THA.LOC104826425' => 'tha', 'Thecc.02G089700' => 'tca', 'Thecc.04G232300' => 'tca', 'Thecc.09G283400' => 'tca', 'Thhalv10009020m.g' => 'esa', 'Thhalv10015506m.g' => 'esa', 'Thhalv10017364m.g' => 'esa', 'Thhalv10023742m.g' => 'esa', 'Thhalv10026483m.g' => 'esa', 'TPR.G17232' => 'tpr', 'TPR.G2133' => 'tpr', 'TPR.G2498' => 'tpr', 'TPR.G31942' => 'tpr', 'TPR.G37877' => 'tpr', 'TPR.G4571' => 'tpr', 'TWI14G1113' => 'twi', 'TWI15G0426' => 'twi', 'TWI31G1005' => 'twi', 'TWI38G0513' => 'twi', 'TWI38G1484' => 'twi', 'TWI73G1098' => 'twi', 'unitig_26.g10519' => 'ugi', 'unitig_736.g22395' => 'ugi', 'unitig_747.g21234' => 'ugi', 'unitig_747.g21942' => 'ugi', 'vmacro14351' => 'vma', 'VMungo0540G0082' => 'vmu', 'VMungo0540G0405' => 'vmu', 'VMungo0540G1486' => 'vmu', 'VMungo0540G1692' => 'vmu', 'VMungo0720G2473' => 'vmu', 'VMungo1127G1562' => 'vmu', 'VMungo1215G1918' => 'vmu', 'Zm00001eb052650' => 'zma', 'Zm00001eb063710' => 'zma', 'Zm00001eb083950' => 'zma', 'Zm00001eb174420' => 'zma', 'Zm00001eb260140' => 'zma', 'Zm00001eb260150' => 'zma', 'Zm00001eb260160' => 'zma', 'Zm00001eb348290' => 'zma', 'Zm00001eb366870' => 'zma', 'Zm00001eb421930' => 'zma' ) $gf_id = 'HOM05D001025' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001025' ) $data_identifier = 'HOM05D001025' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 19, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 2, 'amhyb' => (int) 4, 'aly' => (int) 4, 'aox' => (int) 4, 'arhy' => (int) 3, 'ath' => (int) 5, 'atr' => (int) 4, 'acertr' => (int) 3, 'cqu' => (int) 7, 'bca' => (int) 17, 'bol' => (int) 10, 'bra' => (int) 9, 'can' => (int) 10, 'cansat' => (int) 6, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 5, 'cbr' => (int) 5, 'ccan' => (int) 5, 'cde' => (int) 4, 'cfa' => (int) 3, 'ccl' => (int) 6, 'cil' => (int) 4, 'cla' => (int) 3, 'col' => (int) 3, 'cpa' => (int) 3, 'cre' => (int) 7, 'csa' => (int) 5, 'camsi' => (int) 9, 'dca' => (int) 4, 'din' => (int) 5, 'dzi' => (int) 7, 'eca' => (int) 6, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 12, 'fve' => (int) 4, 'gma' => (int) 12, 'ghi' => (int) 17, 'gra' => (int) 9, 'vvi' => (int) 2, 'han' => (int) 8, 'cav' => (int) 5, 'hma' => (int) 9, 'vpl' => (int) 4, 'sun' => (int) 2, 'lal' => (int) 9, 'lja' => (int) 5, 'lonja' => (int) 6, 'lsa' => (int) 3, 'mes' => (int) 8, 'mpo' => (int) 3, 'mbi' => (int) 4, 'mco' => (int) 3, 'mdo' => (int) 5, 'mtr' => (int) 7, 'cme' => (int) 6, 'egut' => (int) 7, 'ama' => (int) 3, 'nta' => (int) 12, 'nnu' => (int) 9, 'oeu' => (int) 4, 'osa' => (int) 7, 'pax' => (int) 9, 'pgr' => (int) 5, 'stu' => (int) 8, 'pvu' => (int) 6, 'ptr' => (int) 9, 'ppa' => (int) 9, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 7, 'pso' => (int) 10, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 3, 'sbr' => (int) 8, 'sbo' => (int) 5, 'sci' => (int) 5, 'sed' => (int) 4, 'sgi' => (int) 4, 'sas' => (int) 4, 'smo' => (int) 5, 'sly' => (int) 7, 'spe' => (int) 10, 'spa' => (int) 5, 'tar' => (int) 5, 'tha' => (int) 8, 'tca' => (int) 3, 'esa' => (int) 5, 'tpr' => (int) 6, 'twi' => (int) 6, 'ugi' => (int) 4, 'vma' => (int) 1, 'vmu' => (int) 7, 'zma' => (int) 10 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb421930' $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' => 'HOM05D001025', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '592', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p22650' => 'bna', 'A01p29720' => 'bna', 'A03p26560' => 'bna', 'A03p68820' => 'bna', 'A04p20980' => 'bna', 'A06p07730' => 'bna', 'A07p18260' => 'bna', 'A08p33710' => 'bna', 'A09p16970' => 'bna', 'A10p27490' => 'bna', 'Aa31LG1G17300' => 'aar', 'Aa31LG1G3910' => 'aar', 'Aa31LG2G9630' => 'aar', 'Aa31LG5G8360' => 'aar', 'Aa31LG9G2410' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4699' => 'aag', 'Actinidia23512' => 'ach', 'Actinidia37080' => 'ach', 'Ah.01g020380' => 'amhyb', 'Ah.08g215710' => 'amhyb', 'Ah.09g225110' => 'amhyb', 'Ah.10g036680' => 'amhyb', 'AL1G21940' => 'aly', 'AL2G15540' => 'aly', 'AL4G21520' => 'aly', 'AL7G40960' => 'aly', 'Aqoxy2G01191' => 'aox', 'Aqoxy2G03393' => 'aox', 'Aqoxy4G02775' => 'aox', 'Aqoxy6G00058' => 'aox', 'arahy.Tifrunner.gnm1.ann1.9X74H2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CW3FX9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R485W7' => 'arhy', 'AT1G10960' => 'ath', 'AT1G60950' => 'ath', 'AT2G27510' => 'ath', 'AT4G14890' => 'ath', 'AT5G10000' => 'ath', 'ATR0665G624' => 'atr', 'ATR0697G138' => 'atr', 'ATR0776G046' => 'atr', 'ATR1134G135' => 'atr', 'Atru.chr12.1025' => 'acertr', 'Atru.chr3.3241' => 'acertr', 'Atru.chr4.2460' => 'acertr', 'AUR62007427' => 'cqu', 'AUR62010960' => 'cqu', 'AUR62012201' => 'cqu', 'AUR62021470' => 'cqu', 'AUR62022834' => 'cqu', 'AUR62033635' => 'cqu', 'AUR62036186' => 'cqu', 'BcaB01g03077' => 'bca', 'BcaB02g10093' => 'bca', 'BcaB04g20295' => 'bca', 'BcaB06g28147' => 'bca', 'BcaB07g31253' => 'bca', 'BcaC01g04946' => 'bca', 'BcaC02g10614' => 'bca', 'BcaC02g10885' => 'bca', 'BcaC04g19356' => 'bca', 'BcaC04g22297' => 'bca', 'BcaC05g24977' => 'bca', 'BcaC06g31823' => 'bca', 'BcaC07g38633' => 'bca', 'BcaC09g49353' => 'bca', 'BcaC09g50168' => 'bca', 'BcaNung00322' => 'bca', 'BcaNung04769' => 'bca', 'BolC1t02753H' => 'bol', 'BolC1t03721H' => 'bol', 'BolC3t15525H' => 'bol', 'BolC4t23903H' => 'bol', 'BolC4t24231H' => 'bol', 'BolC4t27209H' => 'bol', 'BolC5t29671H' => 'bol', 'BolC8t49044H' => 'bol', 'BolC9t54999H' => 'bol', 'BolC9t59517H' => 'bol', 'BraA01t02178Z' => 'bra', 'BraA01t03099Z' => 'bra', 'BraA03t11867Z' => 'bra', 'BraA04t17667Z' => 'bra', 'BraA07t29542Z' => 'bra', 'BraA08t35287Z' => 'bra', 'BraA09t37334Z' => 'bra', 'BraA10t44801Z' => 'bra', 'BraSC39t46181Z' => 'bra', 'C01p28240' => 'bna', 'C01p37530' => 'bna', 'C03p31820' => 'bna', 'C04p24080' => 'bna', 'C04p25790' => 'bna', 'C04p56770' => 'bna', 'C05p09310' => 'bna', 'C09p21010' => 'bna', 'C09p67560' => 'bna', 'CAN.G1324.7' => 'can', 'CAN.G1358.10' => 'can', 'CAN.G1550.2' => 'can', 'CAN.G186.56' => 'can', 'CAN.G1965.1' => 'can', 'CAN.G645.15' => 'can', 'CAN.G798.26' => 'can', 'CAN.G798.27' => 'can', 'CAN.G798.29' => 'can', 'CAN.G919.31' => 'can', 'CANSAT11G0133' => 'cansat', 'CANSAT11G1171' => 'cansat', 'CANSAT11G2056' => 'cansat', 'CANSAT56G1202' => 'cansat', 'CANSAT56G1514' => 'cansat', 'CANSAT78G0455' => 'cansat', 'CARHR011190' => 'chi', 'CARHR051980' => 'chi', 'CARHR120170' => 'chi', 'CARHR203310' => 'chi', 'CARHR221490' => 'chi', 'Carub.0001s1054' => 'cru', 'Carub.0002s0431' => 'cru', 'Carub.0004s0818' => 'cru', 'Carub.0006s0846' => 'cru', 'Carub.0007s2722' => 'cru', 'Ca_00058_v3' => 'car', 'Ca_17831_v3' => 'car', 'Ca_19408_v3' => 'car', 'Ca_24397_v3' => 'car', 'Ca_25664_v3' => 'car', 'CBR_g21818' => 'cbr', 'CBR_g31195' => 'cbr', 'CBR_g32282' => 'cbr', 'CBR_g39599' => 'cbr', 'CBR_g49410' => 'cbr', 'Cc01_g09120' => 'ccan', 'Cc01_g09130' => 'ccan', 'Cc02_g09630' => 'ccan', 'Cc02_g22810' => 'ccan', 'Cc03_g03810' => 'ccan', 'CDE02G3718' => 'cde', 'CDE04G3183' => 'cde', 'CDE07G1046' => 'cde', 'CDE08G0480' => 'cde', 'Cfa005493' => 'cfa', 'Cfa010312' => 'cfa', 'Cfa015648' => 'cfa', 'Ciclev10002793m.g' => 'ccl', 'Ciclev10003356m.g' => 'ccl', 'Ciclev10006141m.g' => 'ccl', 'Ciclev10016676m.g' => 'ccl', 'Ciclev10017081m.g' => 'ccl', 'Ciclev10029499m.g' => 'ccl', 'CiPaw.01G166300' => 'cil', 'CiPaw.06G145600' => 'cil', 'CiPaw.13G040100' => 'cil', 'CiPaw.13G135800' => 'cil', 'ClCG01G012230' => 'cla', 'ClCG05G009510' => 'cla', 'ClCG08G008270' => 'cla', 'COL.COLO4_11763' => 'col', 'COL.COLO4_19876' => 'col', 'COL.COLO4_21481' => 'col', 'Cpa.g.sc118.34' => 'cpa', 'Cpa.g.sc32.13' => 'cpa', 'Cpa.g.sc58.103' => 'cpa', 'Cre03.g183850' => 'cre', 'Cre06.g306350' => 'cre', 'Cre07.g334800' => 'cre', 'Cre12.g487900' => 'cre', 'Cre14.g626700' => 'cre', 'Cre16.g658400' => 'cre', 'Cre17.g700950' => 'cre', 'CsaV3_1G014830' => 'csa', 'CsaV3_3G013320' => 'csa', 'CsaV3_3G019210' => 'csa', 'CsaV3_3G019220' => 'csa', 'CsaV3_6G004230' => 'csa', 'CSS0003773' => 'camsi', 'CSS0004563' => 'camsi', 'CSS0013949' => 'camsi', 'CSS0025971' => 'camsi', 'CSS0028570' => 'camsi', 'CSS0033127' => 'camsi', 'CSS0036051' => 'camsi', 'CSS0040087' => 'camsi', 'CSS0043179' => 'camsi', 'DCAR_006161' => 'dca', 'DCAR_010351' => 'dca', 'DCAR_012197' => 'dca', 'DCAR_024162' => 'dca', 'Dinv01030' => 'din', 'Dinv10924' => 'din', 'Dinv11835' => 'din', 'Dinv22841' => 'din', 'Dinv42553' => 'din', 'Duzib052G0560' => 'dzi', 'Duzib132G0389' => 'dzi', 'Duzib150G1181' => 'dzi', 'Duzib168G0623' => 'dzi', 'Duzib170G1036' => 'dzi', 'Duzib212G0200' => 'dzi', 'Duzib248G0194' => 'dzi', 'ECA232G2193' => 'eca', 'ECA233G0302' => 'eca', 'ECA234G2813' => 'eca', 'ECA234G4866' => 'eca', 'ECA240G3932' => 'eca', 'ECA248G0385' => 'eca', 'EL10Ac2g04781' => 'bvu', 'EL10Ac3g06445' => 'bvu', 'EL10Ac7g15825' => 'bvu', 'EL10Ac8g18550' => 'bvu', 'Eucgr.B03849' => 'egr', 'Eucgr.I02744' => 'egr', 'Eucgr.J00264' => 'egr', 'Eucgr.J00493' => 'egr', 'FAN04G2181' => 'fan', 'FAN07G2666' => 'fan', 'FAN11G0024' => 'fan', 'FAN12G1105' => 'fan', 'FAN13G0302' => 'fan', 'FAN15G2781' => 'fan', 'FAN16G1274' => 'fan', 'FAN17G2988' => 'fan', 'FAN18G2621' => 'fan', 'FAN21G0013' => 'fan', 'FAN22G1211' => 'fan', 'FAN25G3626' => 'fan', 'FvH4_2g09491' => 'fve', 'FvH4_3g24910' => 'fve', 'FvH4_4g15630' => 'fve', 'FvH4_5g28820' => 'fve', 'Glyma.01G238000' => 'gma', 'Glyma.05G168400' => 'gma', 'Glyma.08G126800' => 'gma', 'Glyma.08G188500' => 'gma', 'Glyma.10G278900' => 'gma', 'Glyma.11G005700' => 'gma', 'Glyma.11G183300' => 'gma', 'Glyma.12G089200' => 'gma', 'Glyma.12G169400' => 'gma', 'Glyma.12G169500' => 'gma', 'Glyma.12G169600' => 'gma', 'Glyma.20G110800' => 'gma', 'Gohir.A03G192900' => 'ghi', 'Gohir.A03G193000' => 'ghi', 'Gohir.A05G080700' => 'ghi', 'Gohir.A09G216000' => 'ghi', 'Gohir.A12G027700' => 'ghi', 'Gohir.A13G036200' => 'ghi', 'Gohir.A13G222600' => 'ghi', 'Gohir.D02G213900' => 'ghi', 'Gohir.D02G214000' => 'ghi', 'Gohir.D05G083700' => 'ghi', 'Gohir.D05G083800' => 'ghi', 'Gohir.D05G083850' => 'ghi', 'Gohir.D08G015400' => 'ghi', 'Gohir.D09G218400' => 'ghi', 'Gohir.D12G027100' => 'ghi', 'Gohir.D13G034500' => 'ghi', 'Gohir.D13G227400' => 'ghi', 'Gorai.005G241800' => 'gra', 'Gorai.005G241900' => 'gra', 'Gorai.006G239400' => 'gra', 'Gorai.008G027600' => 'gra', 'Gorai.009G085400' => 'gra', 'Gorai.009G085500' => 'gra', 'Gorai.013G039000' => 'gra', 'Gorai.013G194800' => 'gra', 'Gorai.013G257900' => 'gra', 'GSVIVG01000982001' => 'vvi', 'GSVIVG01017981001' => 'vvi', 'HanXRQChr01g0024061' => 'han', 'HanXRQChr09g0247831' => 'han', 'HanXRQChr10g0294611' => 'han', 'HanXRQChr10g0294621' => 'han', 'HanXRQChr11g0346821' => 'han', 'HanXRQChr13g0397461' => 'han', 'HanXRQChr16g0513651' => 'han', 'HanXRQChr16g0513701' => 'han', 'Haze_00897' => 'cav', 'Haze_01745' => 'cav', 'Haze_02486' => 'cav', 'Haze_02487' => 'cav', 'Haze_23374' => 'cav', 'Hma1.2p1_0578F.1_g182520' => 'hma', 'Hma1.2p1_0602F.1_g187350' => 'hma', 'Hma1.2p1_0602F.1_g187360' => 'hma', 'Hma1.2p1_0874F.1_g231320' => 'hma', 'Hma1.2p1_1197F.1_g266210' => 'hma', 'Hma1.2p1_1197F.1_g266220' => 'hma', 'Hma1.2p1_2167F.1_g315895' => 'hma', 'Hma1.2p1_2190F.1_g316640' => 'hma', 'Hma1.2p1_3645F.1_g337153' => 'hma', 'HPP92_004907' => 'vpl', 'HPP92_012134' => 'vpl', 'HPP92_025136' => 'vpl', 'HPP92_026087' => 'vpl', 'Hund06782' => 'sun', 'Hund06784' => 'sun', 'Lalb_Chr01g0004861' => 'lal', 'Lalb_Chr02g0140591' => 'lal', 'Lalb_Chr02g0140611' => 'lal', 'Lalb_Chr03g0028101' => 'lal', 'Lalb_Chr07g0185791' => 'lal', 'Lalb_Chr12g0204491' => 'lal', 'Lalb_Chr13g0295671' => 'lal', 'Lalb_Chr19g0136461' => 'lal', 'Lalb_Chr21g0309191' => 'lal', 'Lj1g0028158' => 'lja', 'Lj1P236T38' => 'lonja', 'Lj2C32G2' => 'lonja', 'Lj2P944T8' => 'lonja', 'Lj2P963T15' => 'lonja', 'Lj3g0011788' => 'lja', 'Lj4g0025027' => 'lja', 'Lj5P255T36' => 'lonja', 'Lj6g0018866' => 'lja', 'Lj6P608T31' => 'lonja', 'LjContig00408g0008879' => 'lja', 'Lsat_1_v5_gn_5_105820' => 'lsa', 'Lsat_1_v5_gn_6_38800' => 'lsa', 'Lsat_1_v5_gn_7_67141' => 'lsa', 'Manes.04G003400' => 'mes', 'Manes.07G020000' => 'mes', 'Manes.07G020100' => 'mes', 'Manes.07G020150' => 'mes', 'Manes.10G061500' => 'mes', 'Manes.10G123200' => 'mes', 'Manes.11G161900' => 'mes', 'Manes.15G029300' => 'mes', 'Mapoly0071s0018' => 'mpo', 'Mapoly0082s0023' => 'mpo', 'Mapoly3477s0001' => 'mpo', 'MBI05_g31233_MAGBIO' => 'mbi', 'MBI09_g05946_MAGBIO' => 'mbi', 'MBI09_g05947_MAGBIO' => 'mbi', 'MBI17_g08346_MAGBIO' => 'mbi', 'MCO04G038' => 'mco', 'MCO09G370' => 'mco', 'MCO13G605' => 'mco', 'MD00G1075500' => 'mdo', 'MD03G1144300' => 'mdo', 'MD08G1236800' => 'mdo', 'MD13G1193300' => 'mdo', 'MD15G1428700' => 'mdo', 'Medtr1g112030' => 'mtr', 'Medtr1g112050' => 'mtr', 'Medtr2g006290' => 'mtr', 'Medtr2g086510' => 'mtr', 'Medtr4g053120' => 'mtr', 'Medtr5g006320' => 'mtr', 'Medtr8g088720' => 'mtr', 'MELO3C004712.2' => 'cme', 'MELO3C006533.2' => 'cme', 'MELO3C019438.2' => 'cme', 'MELO3C019440.2' => 'cme', 'MELO3C019441.2' => 'cme', 'MELO3C019895.2' => 'cme', 'Migut.B00811' => 'egut', 'Migut.D02447' => 'egut', 'Migut.F00875' => 'egut', 'Migut.N00186' => 'egut', 'Migut.N01051' => 'egut', 'Migut.N02491' => 'egut', 'Migut.O00784' => 'egut', 'MSTRG.12367' => 'ama', 'MSTRG.18756' => 'ama', 'MSTRG.21042' => 'ama', 'Nitab4.5_0000559g0040' => 'nta', 'Nitab4.5_0000667g0190' => 'nta', 'Nitab4.5_0000755g0160' => 'nta', 'Nitab4.5_0001216g0080' => 'nta', 'Nitab4.5_0004069g0040' => 'nta', 'Nitab4.5_0004129g0010' => 'nta', 'Nitab4.5_0005744g0030' => 'nta', 'Nitab4.5_0006996g0030' => 'nta', 'Nitab4.5_0008971g0040' => 'nta', 'Nitab4.5_0009769g0020' => 'nta', 'Nitab4.5_0009833g0010' => 'nta', 'Nitab4.5_0013140g0020' => 'nta', 'Nn003s41376' => 'nnu', 'Nn1g01857' => 'nnu', 'Nn1g03611' => 'nnu', 'Nn1g06853' => 'nnu', 'Nn3g18360' => 'nnu', 'Nn4g26328' => 'nnu', 'Nn5g27531' => 'nnu', 'Nn6g34899' => 'nnu', 'Nn7g36299' => 'nnu', 'Oeu021485.1' => 'oeu', 'Oeu022433.1' => 'oeu', 'Oeu032111.1' => 'oeu', 'Oeu051608.1' => 'oeu', 'Os01g0860601' => 'osa', 'Os03g0659200' => 'osa', 'Os03g0835900' => 'osa', 'Os04g0412200' => 'osa', 'Os05g0443500' => 'osa', 'Os07g0251500' => 'osa', 'Os08g0104600' => 'osa', 'Peaxi162Scf00003g00047' => 'pax', 'Peaxi162Scf00003g00052' => 'pax', 'Peaxi162Scf00003g00394' => 'pax', 'Peaxi162Scf00091g00621' => 'pax', 'Peaxi162Scf00152g00146' => 'pax', 'Peaxi162Scf00173g00025' => 'pax', 'Peaxi162Scf00195g00102' => 'pax', 'Peaxi162Scf00402g00013' => 'pax', 'Peaxi162Scf00519g00618' => 'pax', 'PGR004G2838' => 'pgr', 'PGR044G2275' => 'pgr', 'PGR102G1377' => 'pgr', 'PGR119G1245' => 'pgr', 'PGR142G4449' => 'pgr', 'PGSC0003DMG400004532' => 'stu', 'PGSC0003DMG400011950' => 'stu', 'PGSC0003DMG400023391' => 'stu', 'PGSC0003DMG400023985' => 'stu', 'PGSC0003DMG400026360' => 'stu', 'PGSC0003DMG400035711' => 'stu', 'PGSC0003DMG400037286' => 'stu', 'PGSC0003DMG402005881' => 'stu', 'Phvul.002G045400' => 'pvu', 'Phvul.006G216600' => 'pvu', 'Phvul.006G216700' => 'pvu', 'Phvul.006G216800' => 'pvu', 'Phvul.007G022500' => 'pvu', 'Phvul.011G094400' => 'pvu', 'Potri.001G470700' => 'ptr', 'Potri.003G015200' => 'ptr', 'Potri.004G202500' => 'ptr', 'Potri.004G218400' => 'ptr', 'Potri.008G020100' => 'ptr', 'Potri.008G153200' => 'ptr', 'Potri.009G163800' => 'ptr', 'Potri.010G087300' => 'ptr', 'Potri.010G239100' => 'ptr', 'Pp3c10_16100' => 'ppa', 'Pp3c10_16880' => 'ppa', 'Pp3c16_6230' => 'ppa', 'Pp3c17_18910' => 'ppa', 'Pp3c3_22119' => 'ppa', 'Pp3c3_22140' => 'ppa', 'Pp3c4_8159' => 'ppa', 'Pp3c4_8171' => 'ppa', 'Pp3c4_8330' => 'ppa', 'PRCOL_00004098' => 'pco', 'Prupe.1G013900' => 'ppe', 'Prupe.1G226300' => 'ppe', 'Prupe.1G573600' => 'ppe', 'Prupe.6G130100' => 'ppe', 'Psat3g090040' => 'psa', 'Psat4g210440' => 'psa', 'Psat6g231040' => 'psa', 'Psat6g231080' => 'psa', 'Psat7g063000' => 'psa', 'Psat7g188000' => 'psa', 'Psat7g188040' => 'psa', 'PSO017G0206' => 'pso', 'PSO170G0501' => 'pso', 'PSO170G6422' => 'pso', 'PSO210G7739' => 'pso', 'PSO339G1808' => 'pso', 'PSO339G6135' => 'pso', 'PSO384G0010' => 'pso', 'PSO384G0964' => 'pso', 'PSO761G0050' => 'pso', 'PSO782G4085' => 'pso', 'QL01p012264' => 'qlo', 'QL02p099491' => 'qlo', 'QL03p033868' => 'qlo', 'QL04p046678' => 'qlo', 'QL06p002448' => 'qlo', 'RcHm_v2.0_Chr4g0416181' => 'rch', 'RcHm_v2.0_Chr5g0044701' => 'rch', 'RcHm_v2.0_Chr6g0265781' => 'rch', 'RcHm_v2.0_Chr7g0221031' => 'rch', 'Rhsim04G0202000' => 'rsi', 'Rhsim11G0127300' => 'rsi', 'Rhsim13G0111800' => 'rsi', 'Sabra01G0165600' => 'sbr', 'Sabra03G0008300' => 'sbr', 'Sabra04G0136900' => 'sbr', 'Sabra08G0013400' => 'sbr', 'Sabra08G0116800' => 'sbr', 'Sabra09G0128000' => 'sbr', 'Sabra10G0055500' => 'sbr', 'Sabra10G0073300' => 'sbr', 'SalBow3G0385' => 'sbo', 'SalBow3G1119' => 'sbo', 'SalBow3G2005' => 'sbo', 'SalBow6G2563' => 'sbo', 'SalBow6G6386' => 'sbo', 'Sc06g0008800' => 'sci', 'Sc07g0004950' => 'sci', 'Sc09g0005340' => 'sci', 'Sc13g0004410' => 'sci', 'Sc21g0007090' => 'sci', 'Sed0009285' => 'sed', 'Sed0017583' => 'sed', 'Sed0019699' => 'sed', 'Sed0023107' => 'sed', 'SEGI_10916' => 'sgi', 'SEGI_16217' => 'sgi', 'SEGI_19466' => 'sgi', 'SEGI_41115' => 'sgi', 'SGA_v2.0_scaffold111G31534' => 'sas', 'SGA_v2.0_scaffold22G09864' => 'sas', 'SGA_v2.0_scaffold338G49219' => 'sas', 'SGA_v2.0_scaffold92G28298' => 'sas', 'SMO119G0064' => 'smo', 'SMO223G0038' => 'smo', 'SMO347G0584' => 'smo', 'SMO351G0010' => 'smo', 'SMO356G0404' => 'smo', 'Solyc01g103920.3' => 'sly', 'Solyc04g009710.2' => 'sly', 'Solyc05g055280.2' => 'sly', 'Solyc10g044520.3' => 'sly', 'Solyc10g075160.1' => 'sly', 'Solyc11g006910.3' => 'sly', 'Solyc11g068430.3' => 'sly', 'Sopen01g046310' => 'spe', 'Sopen03g001200' => 'spe', 'Sopen04g004830' => 'spe', 'Sopen05g033720' => 'spe', 'Sopen06g030740' => 'spe', 'Sopen10g013090' => 'spe', 'Sopen10g027630' => 'spe', 'Sopen10g027640' => 'spe', 'Sopen11g002820' => 'spe', 'Sopen11g027140' => 'spe', 'Sp1g09680' => 'spa', 'Sp2g03630' => 'spa', 'Sp4g10320' => 'spa', 'Sp6g33400' => 'spa', 'Sp7g13030' => 'spa', 'TAR365G0317' => 'tar', 'TAR376G0979' => 'tar', 'TAR623G1665' => 'tar', 'TAR633G2373' => 'tar', 'TAR636G1400' => 'tar', 'THA.LOC104800529' => 'tha', 'THA.LOC104808547' => 'tha', 'THA.LOC104809615' => 'tha', 'THA.LOC104815724' => 'tha', 'THA.LOC104818480' => 'tha', 'THA.LOC104819179' => 'tha', 'THA.LOC104822270' => 'tha', 'THA.LOC104826425' => 'tha', 'Thecc.02G089700' => 'tca', 'Thecc.04G232300' => 'tca', 'Thecc.09G283400' => 'tca', 'Thhalv10009020m.g' => 'esa', 'Thhalv10015506m.g' => 'esa', 'Thhalv10017364m.g' => 'esa', 'Thhalv10023742m.g' => 'esa', 'Thhalv10026483m.g' => 'esa', 'TPR.G17232' => 'tpr', 'TPR.G2133' => 'tpr', 'TPR.G2498' => 'tpr', 'TPR.G31942' => 'tpr', 'TPR.G37877' => 'tpr', 'TPR.G4571' => 'tpr', 'TWI14G1113' => 'twi', 'TWI15G0426' => 'twi', 'TWI31G1005' => 'twi', 'TWI38G0513' => 'twi', 'TWI38G1484' => 'twi', 'TWI73G1098' => 'twi', 'unitig_26.g10519' => 'ugi', 'unitig_736.g22395' => 'ugi', 'unitig_747.g21234' => 'ugi', 'unitig_747.g21942' => 'ugi', 'vmacro14351' => 'vma', 'VMungo0540G0082' => 'vmu', 'VMungo0540G0405' => 'vmu', 'VMungo0540G1486' => 'vmu', 'VMungo0540G1692' => 'vmu', 'VMungo0720G2473' => 'vmu', 'VMungo1127G1562' => 'vmu', 'VMungo1215G1918' => 'vmu', 'Zm00001eb052650' => 'zma', 'Zm00001eb063710' => 'zma', 'Zm00001eb083950' => 'zma', 'Zm00001eb174420' => 'zma', 'Zm00001eb260140' => 'zma', 'Zm00001eb260150' => 'zma', 'Zm00001eb260160' => 'zma', 'Zm00001eb348290' => 'zma', 'Zm00001eb366870' => 'zma', 'Zm00001eb421930' => 'zma' ), 'gf_id' => 'HOM05D001025', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001025' ), 'data_identifier' => 'HOM05D001025', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001025', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '592', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p22650' => 'bna', 'A01p29720' => 'bna', 'A03p26560' => 'bna', 'A03p68820' => 'bna', 'A04p20980' => 'bna', 'A06p07730' => 'bna', 'A07p18260' => 'bna', 'A08p33710' => 'bna', 'A09p16970' => 'bna', 'A10p27490' => 'bna', 'Aa31LG1G17300' => 'aar', 'Aa31LG1G3910' => 'aar', 'Aa31LG2G9630' => 'aar', 'Aa31LG5G8360' => 'aar', 'Aa31LG9G2410' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4699' => 'aag', 'Actinidia23512' => 'ach', 'Actinidia37080' => 'ach', 'Ah.01g020380' => 'amhyb', 'Ah.08g215710' => 'amhyb', 'Ah.09g225110' => 'amhyb', 'Ah.10g036680' => 'amhyb', 'AL1G21940' => 'aly', 'AL2G15540' => 'aly', 'AL4G21520' => 'aly', 'AL7G40960' => 'aly', 'Aqoxy2G01191' => 'aox', 'Aqoxy2G03393' => 'aox', 'Aqoxy4G02775' => 'aox', 'Aqoxy6G00058' => 'aox', 'arahy.Tifrunner.gnm1.ann1.9X74H2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CW3FX9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R485W7' => 'arhy', 'AT1G10960' => 'ath', 'AT1G60950' => 'ath', 'AT2G27510' => 'ath', 'AT4G14890' => 'ath', 'AT5G10000' => 'ath', 'ATR0665G624' => 'atr', 'ATR0697G138' => 'atr', 'ATR0776G046' => 'atr', 'ATR1134G135' => 'atr', 'Atru.chr12.1025' => 'acertr', 'Atru.chr3.3241' => 'acertr', 'Atru.chr4.2460' => 'acertr', 'AUR62007427' => 'cqu', 'AUR62010960' => 'cqu', 'AUR62012201' => 'cqu', 'AUR62021470' => 'cqu', 'AUR62022834' => 'cqu', 'AUR62033635' => 'cqu', 'AUR62036186' => 'cqu', 'BcaB01g03077' => 'bca', 'BcaB02g10093' => 'bca', 'BcaB04g20295' => 'bca', 'BcaB06g28147' => 'bca', 'BcaB07g31253' => 'bca', 'BcaC01g04946' => 'bca', 'BcaC02g10614' => 'bca', 'BcaC02g10885' => 'bca', 'BcaC04g19356' => 'bca', 'BcaC04g22297' => 'bca', 'BcaC05g24977' => 'bca', 'BcaC06g31823' => 'bca', 'BcaC07g38633' => 'bca', 'BcaC09g49353' => 'bca', 'BcaC09g50168' => 'bca', 'BcaNung00322' => 'bca', 'BcaNung04769' => 'bca', 'BolC1t02753H' => 'bol', 'BolC1t03721H' => 'bol', 'BolC3t15525H' => 'bol', 'BolC4t23903H' => 'bol', 'BolC4t24231H' => 'bol', 'BolC4t27209H' => 'bol', 'BolC5t29671H' => 'bol', 'BolC8t49044H' => 'bol', 'BolC9t54999H' => 'bol', 'BolC9t59517H' => 'bol', 'BraA01t02178Z' => 'bra', 'BraA01t03099Z' => 'bra', 'BraA03t11867Z' => 'bra', 'BraA04t17667Z' => 'bra', 'BraA07t29542Z' => 'bra', 'BraA08t35287Z' => 'bra', 'BraA09t37334Z' => 'bra', 'BraA10t44801Z' => 'bra', 'BraSC39t46181Z' => 'bra', 'C01p28240' => 'bna', 'C01p37530' => 'bna', 'C03p31820' => 'bna', 'C04p24080' => 'bna', 'C04p25790' => 'bna', 'C04p56770' => 'bna', 'C05p09310' => 'bna', 'C09p21010' => 'bna', 'C09p67560' => 'bna', 'CAN.G1324.7' => 'can', 'CAN.G1358.10' => 'can', 'CAN.G1550.2' => 'can', 'CAN.G186.56' => 'can', 'CAN.G1965.1' => 'can', 'CAN.G645.15' => 'can', 'CAN.G798.26' => 'can', 'CAN.G798.27' => 'can', 'CAN.G798.29' => 'can', 'CAN.G919.31' => 'can', 'CANSAT11G0133' => 'cansat', 'CANSAT11G1171' => 'cansat', 'CANSAT11G2056' => 'cansat', 'CANSAT56G1202' => 'cansat', 'CANSAT56G1514' => 'cansat', 'CANSAT78G0455' => 'cansat', 'CARHR011190' => 'chi', 'CARHR051980' => 'chi', 'CARHR120170' => 'chi', 'CARHR203310' => 'chi', 'CARHR221490' => 'chi', 'Carub.0001s1054' => 'cru', 'Carub.0002s0431' => 'cru', 'Carub.0004s0818' => 'cru', 'Carub.0006s0846' => 'cru', 'Carub.0007s2722' => 'cru', 'Ca_00058_v3' => 'car', 'Ca_17831_v3' => 'car', 'Ca_19408_v3' => 'car', 'Ca_24397_v3' => 'car', 'Ca_25664_v3' => 'car', 'CBR_g21818' => 'cbr', 'CBR_g31195' => 'cbr', 'CBR_g32282' => 'cbr', 'CBR_g39599' => 'cbr', 'CBR_g49410' => 'cbr', 'Cc01_g09120' => 'ccan', 'Cc01_g09130' => 'ccan', 'Cc02_g09630' => 'ccan', 'Cc02_g22810' => 'ccan', 'Cc03_g03810' => 'ccan', 'CDE02G3718' => 'cde', 'CDE04G3183' => 'cde', 'CDE07G1046' => 'cde', 'CDE08G0480' => 'cde', 'Cfa005493' => 'cfa', 'Cfa010312' => 'cfa', 'Cfa015648' => 'cfa', 'Ciclev10002793m.g' => 'ccl', 'Ciclev10003356m.g' => 'ccl', 'Ciclev10006141m.g' => 'ccl', 'Ciclev10016676m.g' => 'ccl', 'Ciclev10017081m.g' => 'ccl', 'Ciclev10029499m.g' => 'ccl', 'CiPaw.01G166300' => 'cil', 'CiPaw.06G145600' => 'cil', 'CiPaw.13G040100' => 'cil', 'CiPaw.13G135800' => 'cil', 'ClCG01G012230' => 'cla', 'ClCG05G009510' => 'cla', 'ClCG08G008270' => 'cla', 'COL.COLO4_11763' => 'col', 'COL.COLO4_19876' => 'col', 'COL.COLO4_21481' => 'col', 'Cpa.g.sc118.34' => 'cpa', 'Cpa.g.sc32.13' => 'cpa', 'Cpa.g.sc58.103' => 'cpa', 'Cre03.g183850' => 'cre', 'Cre06.g306350' => 'cre', 'Cre07.g334800' => 'cre', 'Cre12.g487900' => 'cre', 'Cre14.g626700' => 'cre', 'Cre16.g658400' => 'cre', 'Cre17.g700950' => 'cre', 'CsaV3_1G014830' => 'csa', 'CsaV3_3G013320' => 'csa', 'CsaV3_3G019210' => 'csa', 'CsaV3_3G019220' => 'csa', 'CsaV3_6G004230' => 'csa', 'CSS0003773' => 'camsi', 'CSS0004563' => 'camsi', 'CSS0013949' => 'camsi', 'CSS0025971' => 'camsi', 'CSS0028570' => 'camsi', 'CSS0033127' => 'camsi', 'CSS0036051' => 'camsi', 'CSS0040087' => 'camsi', 'CSS0043179' => 'camsi', 'DCAR_006161' => 'dca', 'DCAR_010351' => 'dca', 'DCAR_012197' => 'dca', 'DCAR_024162' => 'dca', 'Dinv01030' => 'din', 'Dinv10924' => 'din', 'Dinv11835' => 'din', 'Dinv22841' => 'din', 'Dinv42553' => 'din', 'Duzib052G0560' => 'dzi', 'Duzib132G0389' => 'dzi', 'Duzib150G1181' => 'dzi', 'Duzib168G0623' => 'dzi', 'Duzib170G1036' => 'dzi', 'Duzib212G0200' => 'dzi', 'Duzib248G0194' => 'dzi', 'ECA232G2193' => 'eca', 'ECA233G0302' => 'eca', 'ECA234G2813' => 'eca', 'ECA234G4866' => 'eca', 'ECA240G3932' => 'eca', 'ECA248G0385' => 'eca', 'EL10Ac2g04781' => 'bvu', 'EL10Ac3g06445' => 'bvu', 'EL10Ac7g15825' => 'bvu', 'EL10Ac8g18550' => 'bvu', 'Eucgr.B03849' => 'egr', 'Eucgr.I02744' => 'egr', 'Eucgr.J00264' => 'egr', 'Eucgr.J00493' => 'egr', 'FAN04G2181' => 'fan', 'FAN07G2666' => 'fan', 'FAN11G0024' => 'fan', 'FAN12G1105' => 'fan', 'FAN13G0302' => 'fan', 'FAN15G2781' => 'fan', 'FAN16G1274' => 'fan', 'FAN17G2988' => 'fan', 'FAN18G2621' => 'fan', 'FAN21G0013' => 'fan', 'FAN22G1211' => 'fan', 'FAN25G3626' => 'fan', 'FvH4_2g09491' => 'fve', 'FvH4_3g24910' => 'fve', 'FvH4_4g15630' => 'fve', 'FvH4_5g28820' => 'fve', 'Glyma.01G238000' => 'gma', 'Glyma.05G168400' => 'gma', 'Glyma.08G126800' => 'gma', 'Glyma.08G188500' => 'gma', 'Glyma.10G278900' => 'gma', 'Glyma.11G005700' => 'gma', 'Glyma.11G183300' => 'gma', 'Glyma.12G089200' => 'gma', 'Glyma.12G169400' => 'gma', 'Glyma.12G169500' => 'gma', 'Glyma.12G169600' => 'gma', 'Glyma.20G110800' => 'gma', 'Gohir.A03G192900' => 'ghi', 'Gohir.A03G193000' => 'ghi', 'Gohir.A05G080700' => 'ghi', 'Gohir.A09G216000' => 'ghi', 'Gohir.A12G027700' => 'ghi', 'Gohir.A13G036200' => 'ghi', 'Gohir.A13G222600' => 'ghi', 'Gohir.D02G213900' => 'ghi', 'Gohir.D02G214000' => 'ghi', 'Gohir.D05G083700' => 'ghi', 'Gohir.D05G083800' => 'ghi', 'Gohir.D05G083850' => 'ghi', 'Gohir.D08G015400' => 'ghi', 'Gohir.D09G218400' => 'ghi', 'Gohir.D12G027100' => 'ghi', 'Gohir.D13G034500' => 'ghi', 'Gohir.D13G227400' => 'ghi', 'Gorai.005G241800' => 'gra', 'Gorai.005G241900' => 'gra', 'Gorai.006G239400' => 'gra', 'Gorai.008G027600' => 'gra', 'Gorai.009G085400' => 'gra', 'Gorai.009G085500' => 'gra', 'Gorai.013G039000' => 'gra', 'Gorai.013G194800' => 'gra', 'Gorai.013G257900' => 'gra', 'GSVIVG01000982001' => 'vvi', 'GSVIVG01017981001' => 'vvi', 'HanXRQChr01g0024061' => 'han', 'HanXRQChr09g0247831' => 'han', 'HanXRQChr10g0294611' => 'han', 'HanXRQChr10g0294621' => 'han', 'HanXRQChr11g0346821' => 'han', 'HanXRQChr13g0397461' => 'han', 'HanXRQChr16g0513651' => 'han', 'HanXRQChr16g0513701' => 'han', 'Haze_00897' => 'cav', 'Haze_01745' => 'cav', 'Haze_02486' => 'cav', 'Haze_02487' => 'cav', 'Haze_23374' => 'cav', 'Hma1.2p1_0578F.1_g182520' => 'hma', 'Hma1.2p1_0602F.1_g187350' => 'hma', 'Hma1.2p1_0602F.1_g187360' => 'hma', 'Hma1.2p1_0874F.1_g231320' => 'hma', 'Hma1.2p1_1197F.1_g266210' => 'hma', 'Hma1.2p1_1197F.1_g266220' => 'hma', 'Hma1.2p1_2167F.1_g315895' => 'hma', 'Hma1.2p1_2190F.1_g316640' => 'hma', 'Hma1.2p1_3645F.1_g337153' => 'hma', 'HPP92_004907' => 'vpl', 'HPP92_012134' => 'vpl', 'HPP92_025136' => 'vpl', 'HPP92_026087' => 'vpl', 'Hund06782' => 'sun', 'Hund06784' => 'sun', 'Lalb_Chr01g0004861' => 'lal', 'Lalb_Chr02g0140591' => 'lal', 'Lalb_Chr02g0140611' => 'lal', 'Lalb_Chr03g0028101' => 'lal', 'Lalb_Chr07g0185791' => 'lal', 'Lalb_Chr12g0204491' => 'lal', 'Lalb_Chr13g0295671' => 'lal', 'Lalb_Chr19g0136461' => 'lal', 'Lalb_Chr21g0309191' => 'lal', 'Lj1g0028158' => 'lja', 'Lj1P236T38' => 'lonja', 'Lj2C32G2' => 'lonja', 'Lj2P944T8' => 'lonja', 'Lj2P963T15' => 'lonja', 'Lj3g0011788' => 'lja', 'Lj4g0025027' => 'lja', 'Lj5P255T36' => 'lonja', 'Lj6g0018866' => 'lja', 'Lj6P608T31' => 'lonja', 'LjContig00408g0008879' => 'lja', 'Lsat_1_v5_gn_5_105820' => 'lsa', 'Lsat_1_v5_gn_6_38800' => 'lsa', 'Lsat_1_v5_gn_7_67141' => 'lsa', 'Manes.04G003400' => 'mes', 'Manes.07G020000' => 'mes', 'Manes.07G020100' => 'mes', 'Manes.07G020150' => 'mes', 'Manes.10G061500' => 'mes', 'Manes.10G123200' => 'mes', 'Manes.11G161900' => 'mes', 'Manes.15G029300' => 'mes', 'Mapoly0071s0018' => 'mpo', 'Mapoly0082s0023' => 'mpo', 'Mapoly3477s0001' => 'mpo', 'MBI05_g31233_MAGBIO' => 'mbi', 'MBI09_g05946_MAGBIO' => 'mbi', 'MBI09_g05947_MAGBIO' => 'mbi', 'MBI17_g08346_MAGBIO' => 'mbi', 'MCO04G038' => 'mco', 'MCO09G370' => 'mco', 'MCO13G605' => 'mco', 'MD00G1075500' => 'mdo', 'MD03G1144300' => 'mdo', 'MD08G1236800' => 'mdo', 'MD13G1193300' => 'mdo', 'MD15G1428700' => 'mdo', 'Medtr1g112030' => 'mtr', 'Medtr1g112050' => 'mtr', 'Medtr2g006290' => 'mtr', 'Medtr2g086510' => 'mtr', 'Medtr4g053120' => 'mtr', 'Medtr5g006320' => 'mtr', 'Medtr8g088720' => 'mtr', 'MELO3C004712.2' => 'cme', 'MELO3C006533.2' => 'cme', 'MELO3C019438.2' => 'cme', 'MELO3C019440.2' => 'cme', 'MELO3C019441.2' => 'cme', 'MELO3C019895.2' => 'cme', 'Migut.B00811' => 'egut', 'Migut.D02447' => 'egut', 'Migut.F00875' => 'egut', 'Migut.N00186' => 'egut', 'Migut.N01051' => 'egut', 'Migut.N02491' => 'egut', 'Migut.O00784' => 'egut', 'MSTRG.12367' => 'ama', 'MSTRG.18756' => 'ama', 'MSTRG.21042' => 'ama', 'Nitab4.5_0000559g0040' => 'nta', 'Nitab4.5_0000667g0190' => 'nta', 'Nitab4.5_0000755g0160' => 'nta', 'Nitab4.5_0001216g0080' => 'nta', 'Nitab4.5_0004069g0040' => 'nta', 'Nitab4.5_0004129g0010' => 'nta', 'Nitab4.5_0005744g0030' => 'nta', 'Nitab4.5_0006996g0030' => 'nta', 'Nitab4.5_0008971g0040' => 'nta', 'Nitab4.5_0009769g0020' => 'nta', 'Nitab4.5_0009833g0010' => 'nta', 'Nitab4.5_0013140g0020' => 'nta', 'Nn003s41376' => 'nnu', 'Nn1g01857' => 'nnu', 'Nn1g03611' => 'nnu', 'Nn1g06853' => 'nnu', 'Nn3g18360' => 'nnu', 'Nn4g26328' => 'nnu', 'Nn5g27531' => 'nnu', 'Nn6g34899' => 'nnu', 'Nn7g36299' => 'nnu', 'Oeu021485.1' => 'oeu', 'Oeu022433.1' => 'oeu', 'Oeu032111.1' => 'oeu', 'Oeu051608.1' => 'oeu', 'Os01g0860601' => 'osa', 'Os03g0659200' => 'osa', 'Os03g0835900' => 'osa', 'Os04g0412200' => 'osa', 'Os05g0443500' => 'osa', 'Os07g0251500' => 'osa', 'Os08g0104600' => 'osa', 'Peaxi162Scf00003g00047' => 'pax', 'Peaxi162Scf00003g00052' => 'pax', 'Peaxi162Scf00003g00394' => 'pax', 'Peaxi162Scf00091g00621' => 'pax', 'Peaxi162Scf00152g00146' => 'pax', 'Peaxi162Scf00173g00025' => 'pax', 'Peaxi162Scf00195g00102' => 'pax', 'Peaxi162Scf00402g00013' => 'pax', 'Peaxi162Scf00519g00618' => 'pax', 'PGR004G2838' => 'pgr', 'PGR044G2275' => 'pgr', 'PGR102G1377' => 'pgr', 'PGR119G1245' => 'pgr', 'PGR142G4449' => 'pgr', 'PGSC0003DMG400004532' => 'stu', 'PGSC0003DMG400011950' => 'stu', 'PGSC0003DMG400023391' => 'stu', 'PGSC0003DMG400023985' => 'stu', 'PGSC0003DMG400026360' => 'stu', 'PGSC0003DMG400035711' => 'stu', 'PGSC0003DMG400037286' => 'stu', 'PGSC0003DMG402005881' => 'stu', 'Phvul.002G045400' => 'pvu', 'Phvul.006G216600' => 'pvu', 'Phvul.006G216700' => 'pvu', 'Phvul.006G216800' => 'pvu', 'Phvul.007G022500' => 'pvu', 'Phvul.011G094400' => 'pvu', 'Potri.001G470700' => 'ptr', 'Potri.003G015200' => 'ptr', 'Potri.004G202500' => 'ptr', 'Potri.004G218400' => 'ptr', 'Potri.008G020100' => 'ptr', 'Potri.008G153200' => 'ptr', 'Potri.009G163800' => 'ptr', 'Potri.010G087300' => 'ptr', 'Potri.010G239100' => 'ptr', 'Pp3c10_16100' => 'ppa', 'Pp3c10_16880' => 'ppa', 'Pp3c16_6230' => 'ppa', 'Pp3c17_18910' => 'ppa', 'Pp3c3_22119' => 'ppa', 'Pp3c3_22140' => 'ppa', 'Pp3c4_8159' => 'ppa', 'Pp3c4_8171' => 'ppa', 'Pp3c4_8330' => 'ppa', 'PRCOL_00004098' => 'pco', 'Prupe.1G013900' => 'ppe', 'Prupe.1G226300' => 'ppe', 'Prupe.1G573600' => 'ppe', 'Prupe.6G130100' => 'ppe', 'Psat3g090040' => 'psa', 'Psat4g210440' => 'psa', 'Psat6g231040' => 'psa', 'Psat6g231080' => 'psa', 'Psat7g063000' => 'psa', 'Psat7g188000' => 'psa', 'Psat7g188040' => 'psa', 'PSO017G0206' => 'pso', 'PSO170G0501' => 'pso', 'PSO170G6422' => 'pso', 'PSO210G7739' => 'pso', 'PSO339G1808' => 'pso', 'PSO339G6135' => 'pso', 'PSO384G0010' => 'pso', 'PSO384G0964' => 'pso', 'PSO761G0050' => 'pso', 'PSO782G4085' => 'pso', 'QL01p012264' => 'qlo', 'QL02p099491' => 'qlo', 'QL03p033868' => 'qlo', 'QL04p046678' => 'qlo', 'QL06p002448' => 'qlo', 'RcHm_v2.0_Chr4g0416181' => 'rch', 'RcHm_v2.0_Chr5g0044701' => 'rch', 'RcHm_v2.0_Chr6g0265781' => 'rch', 'RcHm_v2.0_Chr7g0221031' => 'rch', 'Rhsim04G0202000' => 'rsi', 'Rhsim11G0127300' => 'rsi', 'Rhsim13G0111800' => 'rsi', 'Sabra01G0165600' => 'sbr', 'Sabra03G0008300' => 'sbr', 'Sabra04G0136900' => 'sbr', 'Sabra08G0013400' => 'sbr', 'Sabra08G0116800' => 'sbr', 'Sabra09G0128000' => 'sbr', 'Sabra10G0055500' => 'sbr', 'Sabra10G0073300' => 'sbr', 'SalBow3G0385' => 'sbo', 'SalBow3G1119' => 'sbo', 'SalBow3G2005' => 'sbo', 'SalBow6G2563' => 'sbo', 'SalBow6G6386' => 'sbo', 'Sc06g0008800' => 'sci', 'Sc07g0004950' => 'sci', 'Sc09g0005340' => 'sci', 'Sc13g0004410' => 'sci', 'Sc21g0007090' => 'sci', 'Sed0009285' => 'sed', 'Sed0017583' => 'sed', 'Sed0019699' => 'sed', 'Sed0023107' => 'sed', 'SEGI_10916' => 'sgi', 'SEGI_16217' => 'sgi', 'SEGI_19466' => 'sgi', 'SEGI_41115' => 'sgi', 'SGA_v2.0_scaffold111G31534' => 'sas', 'SGA_v2.0_scaffold22G09864' => 'sas', 'SGA_v2.0_scaffold338G49219' => 'sas', 'SGA_v2.0_scaffold92G28298' => 'sas', 'SMO119G0064' => 'smo', 'SMO223G0038' => 'smo', 'SMO347G0584' => 'smo', 'SMO351G0010' => 'smo', 'SMO356G0404' => 'smo', 'Solyc01g103920.3' => 'sly', 'Solyc04g009710.2' => 'sly', 'Solyc05g055280.2' => 'sly', 'Solyc10g044520.3' => 'sly', 'Solyc10g075160.1' => 'sly', 'Solyc11g006910.3' => 'sly', 'Solyc11g068430.3' => 'sly', 'Sopen01g046310' => 'spe', 'Sopen03g001200' => 'spe', 'Sopen04g004830' => 'spe', 'Sopen05g033720' => 'spe', 'Sopen06g030740' => 'spe', 'Sopen10g013090' => 'spe', 'Sopen10g027630' => 'spe', 'Sopen10g027640' => 'spe', 'Sopen11g002820' => 'spe', 'Sopen11g027140' => 'spe', 'Sp1g09680' => 'spa', 'Sp2g03630' => 'spa', 'Sp4g10320' => 'spa', 'Sp6g33400' => 'spa', 'Sp7g13030' => 'spa', 'TAR365G0317' => 'tar', 'TAR376G0979' => 'tar', 'TAR623G1665' => 'tar', 'TAR633G2373' => 'tar', 'TAR636G1400' => 'tar', 'THA.LOC104800529' => 'tha', 'THA.LOC104808547' => 'tha', 'THA.LOC104809615' => 'tha', 'THA.LOC104815724' => 'tha', 'THA.LOC104818480' => 'tha', 'THA.LOC104819179' => 'tha', 'THA.LOC104822270' => 'tha', 'THA.LOC104826425' => 'tha', 'Thecc.02G089700' => 'tca', 'Thecc.04G232300' => 'tca', 'Thecc.09G283400' => 'tca', 'Thhalv10009020m.g' => 'esa', 'Thhalv10015506m.g' => 'esa', 'Thhalv10017364m.g' => 'esa', 'Thhalv10023742m.g' => 'esa', 'Thhalv10026483m.g' => 'esa', 'TPR.G17232' => 'tpr', 'TPR.G2133' => 'tpr', 'TPR.G2498' => 'tpr', 'TPR.G31942' => 'tpr', 'TPR.G37877' => 'tpr', 'TPR.G4571' => 'tpr', 'TWI14G1113' => 'twi', 'TWI15G0426' => 'twi', 'TWI31G1005' => 'twi', 'TWI38G0513' => 'twi', 'TWI38G1484' => 'twi', 'TWI73G1098' => 'twi', 'unitig_26.g10519' => 'ugi', 'unitig_736.g22395' => 'ugi', 'unitig_747.g21234' => 'ugi', 'unitig_747.g21942' => 'ugi', 'vmacro14351' => 'vma', 'VMungo0540G0082' => 'vmu', 'VMungo0540G0405' => 'vmu', 'VMungo0540G1486' => 'vmu', 'VMungo0540G1692' => 'vmu', 'VMungo0720G2473' => 'vmu', 'VMungo1127G1562' => 'vmu', 'VMungo1215G1918' => 'vmu', 'Zm00001eb052650' => 'zma', 'Zm00001eb063710' => 'zma', 'Zm00001eb083950' => 'zma', 'Zm00001eb174420' => 'zma', 'Zm00001eb260140' => 'zma', 'Zm00001eb260150' => 'zma', 'Zm00001eb260160' => 'zma', 'Zm00001eb348290' => 'zma', 'Zm00001eb366870' => 'zma', 'Zm00001eb421930' => 'zma' ) $gf_id = 'HOM05D001025' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001025' ) $data_identifier = 'HOM05D001025' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 19, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 2, 'amhyb' => (int) 4, 'aly' => (int) 4, 'aox' => (int) 4, 'arhy' => (int) 3, 'ath' => (int) 5, 'atr' => (int) 4, 'acertr' => (int) 3, 'cqu' => (int) 7, 'bca' => (int) 17, 'bol' => (int) 10, 'bra' => (int) 9, 'can' => (int) 10, 'cansat' => (int) 6, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 5, 'cbr' => (int) 5, 'ccan' => (int) 5, 'cde' => (int) 4, 'cfa' => (int) 3, 'ccl' => (int) 6, 'cil' => (int) 4, 'cla' => (int) 3, 'col' => (int) 3, 'cpa' => (int) 3, 'cre' => (int) 7, 'csa' => (int) 5, 'camsi' => (int) 9, 'dca' => (int) 4, 'din' => (int) 5, 'dzi' => (int) 7, 'eca' => (int) 6, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 12, 'fve' => (int) 4, 'gma' => (int) 12, 'ghi' => (int) 17, 'gra' => (int) 9, 'vvi' => (int) 2, 'han' => (int) 8, 'cav' => (int) 5, 'hma' => (int) 9, 'vpl' => (int) 4, 'sun' => (int) 2, 'lal' => (int) 9, 'lja' => (int) 5, 'lonja' => (int) 6, 'lsa' => (int) 3, 'mes' => (int) 8, 'mpo' => (int) 3, 'mbi' => (int) 4, 'mco' => (int) 3, 'mdo' => (int) 5, 'mtr' => (int) 7, 'cme' => (int) 6, 'egut' => (int) 7, 'ama' => (int) 3, 'nta' => (int) 12, 'nnu' => (int) 9, 'oeu' => (int) 4, 'osa' => (int) 7, 'pax' => (int) 9, 'pgr' => (int) 5, 'stu' => (int) 8, 'pvu' => (int) 6, 'ptr' => (int) 9, 'ppa' => (int) 9, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 7, 'pso' => (int) 10, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 3, 'sbr' => (int) 8, 'sbo' => (int) 5, 'sci' => (int) 5, 'sed' => (int) 4, 'sgi' => (int) 4, 'sas' => (int) 4, 'smo' => (int) 5, 'sly' => (int) 7, 'spe' => (int) 10, 'spa' => (int) 5, 'tar' => (int) 5, 'tha' => (int) 8, 'tca' => (int) 3, 'esa' => (int) 5, 'tpr' => (int) 6, 'twi' => (int) 6, 'ugi' => (int) 4, 'vma' => (int) 1, 'vmu' => (int) 7, 'zma' => (int) 10 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb421930' $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' => 'HOM05D001025', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '592', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p22650' => 'bna', 'A01p29720' => 'bna', 'A03p26560' => 'bna', 'A03p68820' => 'bna', 'A04p20980' => 'bna', 'A06p07730' => 'bna', 'A07p18260' => 'bna', 'A08p33710' => 'bna', 'A09p16970' => 'bna', 'A10p27490' => 'bna', 'Aa31LG1G17300' => 'aar', 'Aa31LG1G3910' => 'aar', 'Aa31LG2G9630' => 'aar', 'Aa31LG5G8360' => 'aar', 'Aa31LG9G2410' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4699' => 'aag', 'Actinidia23512' => 'ach', 'Actinidia37080' => 'ach', 'Ah.01g020380' => 'amhyb', 'Ah.08g215710' => 'amhyb', 'Ah.09g225110' => 'amhyb', 'Ah.10g036680' => 'amhyb', 'AL1G21940' => 'aly', 'AL2G15540' => 'aly', 'AL4G21520' => 'aly', 'AL7G40960' => 'aly', 'Aqoxy2G01191' => 'aox', 'Aqoxy2G03393' => 'aox', 'Aqoxy4G02775' => 'aox', 'Aqoxy6G00058' => 'aox', 'arahy.Tifrunner.gnm1.ann1.9X74H2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CW3FX9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R485W7' => 'arhy', 'AT1G10960' => 'ath', 'AT1G60950' => 'ath', 'AT2G27510' => 'ath', 'AT4G14890' => 'ath', 'AT5G10000' => 'ath', 'ATR0665G624' => 'atr', 'ATR0697G138' => 'atr', 'ATR0776G046' => 'atr', 'ATR1134G135' => 'atr', 'Atru.chr12.1025' => 'acertr', 'Atru.chr3.3241' => 'acertr', 'Atru.chr4.2460' => 'acertr', 'AUR62007427' => 'cqu', 'AUR62010960' => 'cqu', 'AUR62012201' => 'cqu', 'AUR62021470' => 'cqu', 'AUR62022834' => 'cqu', 'AUR62033635' => 'cqu', 'AUR62036186' => 'cqu', 'BcaB01g03077' => 'bca', 'BcaB02g10093' => 'bca', 'BcaB04g20295' => 'bca', 'BcaB06g28147' => 'bca', 'BcaB07g31253' => 'bca', 'BcaC01g04946' => 'bca', 'BcaC02g10614' => 'bca', 'BcaC02g10885' => 'bca', 'BcaC04g19356' => 'bca', 'BcaC04g22297' => 'bca', 'BcaC05g24977' => 'bca', 'BcaC06g31823' => 'bca', 'BcaC07g38633' => 'bca', 'BcaC09g49353' => 'bca', 'BcaC09g50168' => 'bca', 'BcaNung00322' => 'bca', 'BcaNung04769' => 'bca', 'BolC1t02753H' => 'bol', 'BolC1t03721H' => 'bol', 'BolC3t15525H' => 'bol', 'BolC4t23903H' => 'bol', 'BolC4t24231H' => 'bol', 'BolC4t27209H' => 'bol', 'BolC5t29671H' => 'bol', 'BolC8t49044H' => 'bol', 'BolC9t54999H' => 'bol', 'BolC9t59517H' => 'bol', 'BraA01t02178Z' => 'bra', 'BraA01t03099Z' => 'bra', 'BraA03t11867Z' => 'bra', 'BraA04t17667Z' => 'bra', 'BraA07t29542Z' => 'bra', 'BraA08t35287Z' => 'bra', 'BraA09t37334Z' => 'bra', 'BraA10t44801Z' => 'bra', 'BraSC39t46181Z' => 'bra', 'C01p28240' => 'bna', 'C01p37530' => 'bna', 'C03p31820' => 'bna', 'C04p24080' => 'bna', 'C04p25790' => 'bna', 'C04p56770' => 'bna', 'C05p09310' => 'bna', 'C09p21010' => 'bna', 'C09p67560' => 'bna', 'CAN.G1324.7' => 'can', 'CAN.G1358.10' => 'can', 'CAN.G1550.2' => 'can', 'CAN.G186.56' => 'can', 'CAN.G1965.1' => 'can', 'CAN.G645.15' => 'can', 'CAN.G798.26' => 'can', 'CAN.G798.27' => 'can', 'CAN.G798.29' => 'can', 'CAN.G919.31' => 'can', 'CANSAT11G0133' => 'cansat', 'CANSAT11G1171' => 'cansat', 'CANSAT11G2056' => 'cansat', 'CANSAT56G1202' => 'cansat', 'CANSAT56G1514' => 'cansat', 'CANSAT78G0455' => 'cansat', 'CARHR011190' => 'chi', 'CARHR051980' => 'chi', 'CARHR120170' => 'chi', 'CARHR203310' => 'chi', 'CARHR221490' => 'chi', 'Carub.0001s1054' => 'cru', 'Carub.0002s0431' => 'cru', 'Carub.0004s0818' => 'cru', 'Carub.0006s0846' => 'cru', 'Carub.0007s2722' => 'cru', 'Ca_00058_v3' => 'car', 'Ca_17831_v3' => 'car', 'Ca_19408_v3' => 'car', 'Ca_24397_v3' => 'car', 'Ca_25664_v3' => 'car', 'CBR_g21818' => 'cbr', 'CBR_g31195' => 'cbr', 'CBR_g32282' => 'cbr', 'CBR_g39599' => 'cbr', 'CBR_g49410' => 'cbr', 'Cc01_g09120' => 'ccan', 'Cc01_g09130' => 'ccan', 'Cc02_g09630' => 'ccan', 'Cc02_g22810' => 'ccan', 'Cc03_g03810' => 'ccan', 'CDE02G3718' => 'cde', 'CDE04G3183' => 'cde', 'CDE07G1046' => 'cde', 'CDE08G0480' => 'cde', 'Cfa005493' => 'cfa', 'Cfa010312' => 'cfa', 'Cfa015648' => 'cfa', 'Ciclev10002793m.g' => 'ccl', 'Ciclev10003356m.g' => 'ccl', 'Ciclev10006141m.g' => 'ccl', 'Ciclev10016676m.g' => 'ccl', 'Ciclev10017081m.g' => 'ccl', 'Ciclev10029499m.g' => 'ccl', 'CiPaw.01G166300' => 'cil', 'CiPaw.06G145600' => 'cil', 'CiPaw.13G040100' => 'cil', 'CiPaw.13G135800' => 'cil', 'ClCG01G012230' => 'cla', 'ClCG05G009510' => 'cla', 'ClCG08G008270' => 'cla', 'COL.COLO4_11763' => 'col', 'COL.COLO4_19876' => 'col', 'COL.COLO4_21481' => 'col', 'Cpa.g.sc118.34' => 'cpa', 'Cpa.g.sc32.13' => 'cpa', 'Cpa.g.sc58.103' => 'cpa', 'Cre03.g183850' => 'cre', 'Cre06.g306350' => 'cre', 'Cre07.g334800' => 'cre', 'Cre12.g487900' => 'cre', 'Cre14.g626700' => 'cre', 'Cre16.g658400' => 'cre', 'Cre17.g700950' => 'cre', 'CsaV3_1G014830' => 'csa', 'CsaV3_3G013320' => 'csa', 'CsaV3_3G019210' => 'csa', 'CsaV3_3G019220' => 'csa', 'CsaV3_6G004230' => 'csa', 'CSS0003773' => 'camsi', 'CSS0004563' => 'camsi', 'CSS0013949' => 'camsi', 'CSS0025971' => 'camsi', 'CSS0028570' => 'camsi', 'CSS0033127' => 'camsi', 'CSS0036051' => 'camsi', 'CSS0040087' => 'camsi', 'CSS0043179' => 'camsi', 'DCAR_006161' => 'dca', 'DCAR_010351' => 'dca', 'DCAR_012197' => 'dca', 'DCAR_024162' => 'dca', 'Dinv01030' => 'din', 'Dinv10924' => 'din', 'Dinv11835' => 'din', 'Dinv22841' => 'din', 'Dinv42553' => 'din', 'Duzib052G0560' => 'dzi', 'Duzib132G0389' => 'dzi', 'Duzib150G1181' => 'dzi', 'Duzib168G0623' => 'dzi', 'Duzib170G1036' => 'dzi', 'Duzib212G0200' => 'dzi', 'Duzib248G0194' => 'dzi', 'ECA232G2193' => 'eca', 'ECA233G0302' => 'eca', 'ECA234G2813' => 'eca', 'ECA234G4866' => 'eca', 'ECA240G3932' => 'eca', 'ECA248G0385' => 'eca', 'EL10Ac2g04781' => 'bvu', 'EL10Ac3g06445' => 'bvu', 'EL10Ac7g15825' => 'bvu', 'EL10Ac8g18550' => 'bvu', 'Eucgr.B03849' => 'egr', 'Eucgr.I02744' => 'egr', 'Eucgr.J00264' => 'egr', 'Eucgr.J00493' => 'egr', 'FAN04G2181' => 'fan', 'FAN07G2666' => 'fan', 'FAN11G0024' => 'fan', 'FAN12G1105' => 'fan', 'FAN13G0302' => 'fan', 'FAN15G2781' => 'fan', 'FAN16G1274' => 'fan', 'FAN17G2988' => 'fan', 'FAN18G2621' => 'fan', 'FAN21G0013' => 'fan', 'FAN22G1211' => 'fan', 'FAN25G3626' => 'fan', 'FvH4_2g09491' => 'fve', 'FvH4_3g24910' => 'fve', 'FvH4_4g15630' => 'fve', 'FvH4_5g28820' => 'fve', 'Glyma.01G238000' => 'gma', 'Glyma.05G168400' => 'gma', 'Glyma.08G126800' => 'gma', 'Glyma.08G188500' => 'gma', 'Glyma.10G278900' => 'gma', 'Glyma.11G005700' => 'gma', 'Glyma.11G183300' => 'gma', 'Glyma.12G089200' => 'gma', 'Glyma.12G169400' => 'gma', 'Glyma.12G169500' => 'gma', 'Glyma.12G169600' => 'gma', 'Glyma.20G110800' => 'gma', 'Gohir.A03G192900' => 'ghi', 'Gohir.A03G193000' => 'ghi', 'Gohir.A05G080700' => 'ghi', 'Gohir.A09G216000' => 'ghi', 'Gohir.A12G027700' => 'ghi', 'Gohir.A13G036200' => 'ghi', 'Gohir.A13G222600' => 'ghi', 'Gohir.D02G213900' => 'ghi', 'Gohir.D02G214000' => 'ghi', 'Gohir.D05G083700' => 'ghi', 'Gohir.D05G083800' => 'ghi', 'Gohir.D05G083850' => 'ghi', 'Gohir.D08G015400' => 'ghi', 'Gohir.D09G218400' => 'ghi', 'Gohir.D12G027100' => 'ghi', 'Gohir.D13G034500' => 'ghi', 'Gohir.D13G227400' => 'ghi', 'Gorai.005G241800' => 'gra', 'Gorai.005G241900' => 'gra', 'Gorai.006G239400' => 'gra', 'Gorai.008G027600' => 'gra', 'Gorai.009G085400' => 'gra', 'Gorai.009G085500' => 'gra', 'Gorai.013G039000' => 'gra', 'Gorai.013G194800' => 'gra', 'Gorai.013G257900' => 'gra', 'GSVIVG01000982001' => 'vvi', 'GSVIVG01017981001' => 'vvi', 'HanXRQChr01g0024061' => 'han', 'HanXRQChr09g0247831' => 'han', 'HanXRQChr10g0294611' => 'han', 'HanXRQChr10g0294621' => 'han', 'HanXRQChr11g0346821' => 'han', 'HanXRQChr13g0397461' => 'han', 'HanXRQChr16g0513651' => 'han', 'HanXRQChr16g0513701' => 'han', 'Haze_00897' => 'cav', 'Haze_01745' => 'cav', 'Haze_02486' => 'cav', 'Haze_02487' => 'cav', 'Haze_23374' => 'cav', 'Hma1.2p1_0578F.1_g182520' => 'hma', 'Hma1.2p1_0602F.1_g187350' => 'hma', 'Hma1.2p1_0602F.1_g187360' => 'hma', 'Hma1.2p1_0874F.1_g231320' => 'hma', 'Hma1.2p1_1197F.1_g266210' => 'hma', 'Hma1.2p1_1197F.1_g266220' => 'hma', 'Hma1.2p1_2167F.1_g315895' => 'hma', 'Hma1.2p1_2190F.1_g316640' => 'hma', 'Hma1.2p1_3645F.1_g337153' => 'hma', 'HPP92_004907' => 'vpl', 'HPP92_012134' => 'vpl', 'HPP92_025136' => 'vpl', 'HPP92_026087' => 'vpl', 'Hund06782' => 'sun', 'Hund06784' => 'sun', 'Lalb_Chr01g0004861' => 'lal', 'Lalb_Chr02g0140591' => 'lal', 'Lalb_Chr02g0140611' => 'lal', 'Lalb_Chr03g0028101' => 'lal', 'Lalb_Chr07g0185791' => 'lal', 'Lalb_Chr12g0204491' => 'lal', 'Lalb_Chr13g0295671' => 'lal', 'Lalb_Chr19g0136461' => 'lal', 'Lalb_Chr21g0309191' => 'lal', 'Lj1g0028158' => 'lja', 'Lj1P236T38' => 'lonja', 'Lj2C32G2' => 'lonja', 'Lj2P944T8' => 'lonja', 'Lj2P963T15' => 'lonja', 'Lj3g0011788' => 'lja', 'Lj4g0025027' => 'lja', 'Lj5P255T36' => 'lonja', 'Lj6g0018866' => 'lja', 'Lj6P608T31' => 'lonja', 'LjContig00408g0008879' => 'lja', 'Lsat_1_v5_gn_5_105820' => 'lsa', 'Lsat_1_v5_gn_6_38800' => 'lsa', 'Lsat_1_v5_gn_7_67141' => 'lsa', 'Manes.04G003400' => 'mes', 'Manes.07G020000' => 'mes', 'Manes.07G020100' => 'mes', 'Manes.07G020150' => 'mes', 'Manes.10G061500' => 'mes', 'Manes.10G123200' => 'mes', 'Manes.11G161900' => 'mes', 'Manes.15G029300' => 'mes', 'Mapoly0071s0018' => 'mpo', 'Mapoly0082s0023' => 'mpo', 'Mapoly3477s0001' => 'mpo', 'MBI05_g31233_MAGBIO' => 'mbi', 'MBI09_g05946_MAGBIO' => 'mbi', 'MBI09_g05947_MAGBIO' => 'mbi', 'MBI17_g08346_MAGBIO' => 'mbi', 'MCO04G038' => 'mco', 'MCO09G370' => 'mco', 'MCO13G605' => 'mco', 'MD00G1075500' => 'mdo', 'MD03G1144300' => 'mdo', 'MD08G1236800' => 'mdo', 'MD13G1193300' => 'mdo', 'MD15G1428700' => 'mdo', 'Medtr1g112030' => 'mtr', 'Medtr1g112050' => 'mtr', 'Medtr2g006290' => 'mtr', 'Medtr2g086510' => 'mtr', 'Medtr4g053120' => 'mtr', 'Medtr5g006320' => 'mtr', 'Medtr8g088720' => 'mtr', 'MELO3C004712.2' => 'cme', 'MELO3C006533.2' => 'cme', 'MELO3C019438.2' => 'cme', 'MELO3C019440.2' => 'cme', 'MELO3C019441.2' => 'cme', 'MELO3C019895.2' => 'cme', 'Migut.B00811' => 'egut', 'Migut.D02447' => 'egut', 'Migut.F00875' => 'egut', 'Migut.N00186' => 'egut', 'Migut.N01051' => 'egut', 'Migut.N02491' => 'egut', 'Migut.O00784' => 'egut', 'MSTRG.12367' => 'ama', 'MSTRG.18756' => 'ama', 'MSTRG.21042' => 'ama', 'Nitab4.5_0000559g0040' => 'nta', 'Nitab4.5_0000667g0190' => 'nta', 'Nitab4.5_0000755g0160' => 'nta', 'Nitab4.5_0001216g0080' => 'nta', 'Nitab4.5_0004069g0040' => 'nta', 'Nitab4.5_0004129g0010' => 'nta', 'Nitab4.5_0005744g0030' => 'nta', 'Nitab4.5_0006996g0030' => 'nta', 'Nitab4.5_0008971g0040' => 'nta', 'Nitab4.5_0009769g0020' => 'nta', 'Nitab4.5_0009833g0010' => 'nta', 'Nitab4.5_0013140g0020' => 'nta', 'Nn003s41376' => 'nnu', 'Nn1g01857' => 'nnu', 'Nn1g03611' => 'nnu', 'Nn1g06853' => 'nnu', 'Nn3g18360' => 'nnu', 'Nn4g26328' => 'nnu', 'Nn5g27531' => 'nnu', 'Nn6g34899' => 'nnu', 'Nn7g36299' => 'nnu', 'Oeu021485.1' => 'oeu', 'Oeu022433.1' => 'oeu', 'Oeu032111.1' => 'oeu', 'Oeu051608.1' => 'oeu', 'Os01g0860601' => 'osa', 'Os03g0659200' => 'osa', 'Os03g0835900' => 'osa', 'Os04g0412200' => 'osa', 'Os05g0443500' => 'osa', 'Os07g0251500' => 'osa', 'Os08g0104600' => 'osa', 'Peaxi162Scf00003g00047' => 'pax', 'Peaxi162Scf00003g00052' => 'pax', 'Peaxi162Scf00003g00394' => 'pax', 'Peaxi162Scf00091g00621' => 'pax', 'Peaxi162Scf00152g00146' => 'pax', 'Peaxi162Scf00173g00025' => 'pax', 'Peaxi162Scf00195g00102' => 'pax', 'Peaxi162Scf00402g00013' => 'pax', 'Peaxi162Scf00519g00618' => 'pax', 'PGR004G2838' => 'pgr', 'PGR044G2275' => 'pgr', 'PGR102G1377' => 'pgr', 'PGR119G1245' => 'pgr', 'PGR142G4449' => 'pgr', 'PGSC0003DMG400004532' => 'stu', 'PGSC0003DMG400011950' => 'stu', 'PGSC0003DMG400023391' => 'stu', 'PGSC0003DMG400023985' => 'stu', 'PGSC0003DMG400026360' => 'stu', 'PGSC0003DMG400035711' => 'stu', 'PGSC0003DMG400037286' => 'stu', 'PGSC0003DMG402005881' => 'stu', 'Phvul.002G045400' => 'pvu', 'Phvul.006G216600' => 'pvu', 'Phvul.006G216700' => 'pvu', 'Phvul.006G216800' => 'pvu', 'Phvul.007G022500' => 'pvu', 'Phvul.011G094400' => 'pvu', 'Potri.001G470700' => 'ptr', 'Potri.003G015200' => 'ptr', 'Potri.004G202500' => 'ptr', 'Potri.004G218400' => 'ptr', 'Potri.008G020100' => 'ptr', 'Potri.008G153200' => 'ptr', 'Potri.009G163800' => 'ptr', 'Potri.010G087300' => 'ptr', 'Potri.010G239100' => 'ptr', 'Pp3c10_16100' => 'ppa', 'Pp3c10_16880' => 'ppa', 'Pp3c16_6230' => 'ppa', 'Pp3c17_18910' => 'ppa', 'Pp3c3_22119' => 'ppa', 'Pp3c3_22140' => 'ppa', 'Pp3c4_8159' => 'ppa', 'Pp3c4_8171' => 'ppa', 'Pp3c4_8330' => 'ppa', 'PRCOL_00004098' => 'pco', 'Prupe.1G013900' => 'ppe', 'Prupe.1G226300' => 'ppe', 'Prupe.1G573600' => 'ppe', 'Prupe.6G130100' => 'ppe', 'Psat3g090040' => 'psa', 'Psat4g210440' => 'psa', 'Psat6g231040' => 'psa', 'Psat6g231080' => 'psa', 'Psat7g063000' => 'psa', 'Psat7g188000' => 'psa', 'Psat7g188040' => 'psa', 'PSO017G0206' => 'pso', 'PSO170G0501' => 'pso', 'PSO170G6422' => 'pso', 'PSO210G7739' => 'pso', 'PSO339G1808' => 'pso', 'PSO339G6135' => 'pso', 'PSO384G0010' => 'pso', 'PSO384G0964' => 'pso', 'PSO761G0050' => 'pso', 'PSO782G4085' => 'pso', 'QL01p012264' => 'qlo', 'QL02p099491' => 'qlo', 'QL03p033868' => 'qlo', 'QL04p046678' => 'qlo', 'QL06p002448' => 'qlo', 'RcHm_v2.0_Chr4g0416181' => 'rch', 'RcHm_v2.0_Chr5g0044701' => 'rch', 'RcHm_v2.0_Chr6g0265781' => 'rch', 'RcHm_v2.0_Chr7g0221031' => 'rch', 'Rhsim04G0202000' => 'rsi', 'Rhsim11G0127300' => 'rsi', 'Rhsim13G0111800' => 'rsi', 'Sabra01G0165600' => 'sbr', 'Sabra03G0008300' => 'sbr', 'Sabra04G0136900' => 'sbr', 'Sabra08G0013400' => 'sbr', 'Sabra08G0116800' => 'sbr', 'Sabra09G0128000' => 'sbr', 'Sabra10G0055500' => 'sbr', 'Sabra10G0073300' => 'sbr', 'SalBow3G0385' => 'sbo', 'SalBow3G1119' => 'sbo', 'SalBow3G2005' => 'sbo', 'SalBow6G2563' => 'sbo', 'SalBow6G6386' => 'sbo', 'Sc06g0008800' => 'sci', 'Sc07g0004950' => 'sci', 'Sc09g0005340' => 'sci', 'Sc13g0004410' => 'sci', 'Sc21g0007090' => 'sci', 'Sed0009285' => 'sed', 'Sed0017583' => 'sed', 'Sed0019699' => 'sed', 'Sed0023107' => 'sed', 'SEGI_10916' => 'sgi', 'SEGI_16217' => 'sgi', 'SEGI_19466' => 'sgi', 'SEGI_41115' => 'sgi', 'SGA_v2.0_scaffold111G31534' => 'sas', 'SGA_v2.0_scaffold22G09864' => 'sas', 'SGA_v2.0_scaffold338G49219' => 'sas', 'SGA_v2.0_scaffold92G28298' => 'sas', 'SMO119G0064' => 'smo', 'SMO223G0038' => 'smo', 'SMO347G0584' => 'smo', 'SMO351G0010' => 'smo', 'SMO356G0404' => 'smo', 'Solyc01g103920.3' => 'sly', 'Solyc04g009710.2' => 'sly', 'Solyc05g055280.2' => 'sly', 'Solyc10g044520.3' => 'sly', 'Solyc10g075160.1' => 'sly', 'Solyc11g006910.3' => 'sly', 'Solyc11g068430.3' => 'sly', 'Sopen01g046310' => 'spe', 'Sopen03g001200' => 'spe', 'Sopen04g004830' => 'spe', 'Sopen05g033720' => 'spe', 'Sopen06g030740' => 'spe', 'Sopen10g013090' => 'spe', 'Sopen10g027630' => 'spe', 'Sopen10g027640' => 'spe', 'Sopen11g002820' => 'spe', 'Sopen11g027140' => 'spe', 'Sp1g09680' => 'spa', 'Sp2g03630' => 'spa', 'Sp4g10320' => 'spa', 'Sp6g33400' => 'spa', 'Sp7g13030' => 'spa', 'TAR365G0317' => 'tar', 'TAR376G0979' => 'tar', 'TAR623G1665' => 'tar', 'TAR633G2373' => 'tar', 'TAR636G1400' => 'tar', 'THA.LOC104800529' => 'tha', 'THA.LOC104808547' => 'tha', 'THA.LOC104809615' => 'tha', 'THA.LOC104815724' => 'tha', 'THA.LOC104818480' => 'tha', 'THA.LOC104819179' => 'tha', 'THA.LOC104822270' => 'tha', 'THA.LOC104826425' => 'tha', 'Thecc.02G089700' => 'tca', 'Thecc.04G232300' => 'tca', 'Thecc.09G283400' => 'tca', 'Thhalv10009020m.g' => 'esa', 'Thhalv10015506m.g' => 'esa', 'Thhalv10017364m.g' => 'esa', 'Thhalv10023742m.g' => 'esa', 'Thhalv10026483m.g' => 'esa', 'TPR.G17232' => 'tpr', 'TPR.G2133' => 'tpr', 'TPR.G2498' => 'tpr', 'TPR.G31942' => 'tpr', 'TPR.G37877' => 'tpr', 'TPR.G4571' => 'tpr', 'TWI14G1113' => 'twi', 'TWI15G0426' => 'twi', 'TWI31G1005' => 'twi', 'TWI38G0513' => 'twi', 'TWI38G1484' => 'twi', 'TWI73G1098' => 'twi', 'unitig_26.g10519' => 'ugi', 'unitig_736.g22395' => 'ugi', 'unitig_747.g21234' => 'ugi', 'unitig_747.g21942' => 'ugi', 'vmacro14351' => 'vma', 'VMungo0540G0082' => 'vmu', 'VMungo0540G0405' => 'vmu', 'VMungo0540G1486' => 'vmu', 'VMungo0540G1692' => 'vmu', 'VMungo0720G2473' => 'vmu', 'VMungo1127G1562' => 'vmu', 'VMungo1215G1918' => 'vmu', 'Zm00001eb052650' => 'zma', 'Zm00001eb063710' => 'zma', 'Zm00001eb083950' => 'zma', 'Zm00001eb174420' => 'zma', 'Zm00001eb260140' => 'zma', 'Zm00001eb260150' => 'zma', 'Zm00001eb260160' => 'zma', 'Zm00001eb348290' => 'zma', 'Zm00001eb366870' => 'zma', 'Zm00001eb421930' => 'zma' ), 'gf_id' => 'HOM05D001025', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001025' ), 'data_identifier' => 'HOM05D001025', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001025', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '592', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p22650' => 'bna', 'A01p29720' => 'bna', 'A03p26560' => 'bna', 'A03p68820' => 'bna', 'A04p20980' => 'bna', 'A06p07730' => 'bna', 'A07p18260' => 'bna', 'A08p33710' => 'bna', 'A09p16970' => 'bna', 'A10p27490' => 'bna', 'Aa31LG1G17300' => 'aar', 'Aa31LG1G3910' => 'aar', 'Aa31LG2G9630' => 'aar', 'Aa31LG5G8360' => 'aar', 'Aa31LG9G2410' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4699' => 'aag', 'Actinidia23512' => 'ach', 'Actinidia37080' => 'ach', 'Ah.01g020380' => 'amhyb', 'Ah.08g215710' => 'amhyb', 'Ah.09g225110' => 'amhyb', 'Ah.10g036680' => 'amhyb', 'AL1G21940' => 'aly', 'AL2G15540' => 'aly', 'AL4G21520' => 'aly', 'AL7G40960' => 'aly', 'Aqoxy2G01191' => 'aox', 'Aqoxy2G03393' => 'aox', 'Aqoxy4G02775' => 'aox', 'Aqoxy6G00058' => 'aox', 'arahy.Tifrunner.gnm1.ann1.9X74H2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CW3FX9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R485W7' => 'arhy', 'AT1G10960' => 'ath', 'AT1G60950' => 'ath', 'AT2G27510' => 'ath', 'AT4G14890' => 'ath', 'AT5G10000' => 'ath', 'ATR0665G624' => 'atr', 'ATR0697G138' => 'atr', 'ATR0776G046' => 'atr', 'ATR1134G135' => 'atr', 'Atru.chr12.1025' => 'acertr', 'Atru.chr3.3241' => 'acertr', 'Atru.chr4.2460' => 'acertr', 'AUR62007427' => 'cqu', 'AUR62010960' => 'cqu', 'AUR62012201' => 'cqu', 'AUR62021470' => 'cqu', 'AUR62022834' => 'cqu', 'AUR62033635' => 'cqu', 'AUR62036186' => 'cqu', 'BcaB01g03077' => 'bca', 'BcaB02g10093' => 'bca', 'BcaB04g20295' => 'bca', 'BcaB06g28147' => 'bca', 'BcaB07g31253' => 'bca', 'BcaC01g04946' => 'bca', 'BcaC02g10614' => 'bca', 'BcaC02g10885' => 'bca', 'BcaC04g19356' => 'bca', 'BcaC04g22297' => 'bca', 'BcaC05g24977' => 'bca', 'BcaC06g31823' => 'bca', 'BcaC07g38633' => 'bca', 'BcaC09g49353' => 'bca', 'BcaC09g50168' => 'bca', 'BcaNung00322' => 'bca', 'BcaNung04769' => 'bca', 'BolC1t02753H' => 'bol', 'BolC1t03721H' => 'bol', 'BolC3t15525H' => 'bol', 'BolC4t23903H' => 'bol', 'BolC4t24231H' => 'bol', 'BolC4t27209H' => 'bol', 'BolC5t29671H' => 'bol', 'BolC8t49044H' => 'bol', 'BolC9t54999H' => 'bol', 'BolC9t59517H' => 'bol', 'BraA01t02178Z' => 'bra', 'BraA01t03099Z' => 'bra', 'BraA03t11867Z' => 'bra', 'BraA04t17667Z' => 'bra', 'BraA07t29542Z' => 'bra', 'BraA08t35287Z' => 'bra', 'BraA09t37334Z' => 'bra', 'BraA10t44801Z' => 'bra', 'BraSC39t46181Z' => 'bra', 'C01p28240' => 'bna', 'C01p37530' => 'bna', 'C03p31820' => 'bna', 'C04p24080' => 'bna', 'C04p25790' => 'bna', 'C04p56770' => 'bna', 'C05p09310' => 'bna', 'C09p21010' => 'bna', 'C09p67560' => 'bna', 'CAN.G1324.7' => 'can', 'CAN.G1358.10' => 'can', 'CAN.G1550.2' => 'can', 'CAN.G186.56' => 'can', 'CAN.G1965.1' => 'can', 'CAN.G645.15' => 'can', 'CAN.G798.26' => 'can', 'CAN.G798.27' => 'can', 'CAN.G798.29' => 'can', 'CAN.G919.31' => 'can', 'CANSAT11G0133' => 'cansat', 'CANSAT11G1171' => 'cansat', 'CANSAT11G2056' => 'cansat', 'CANSAT56G1202' => 'cansat', 'CANSAT56G1514' => 'cansat', 'CANSAT78G0455' => 'cansat', 'CARHR011190' => 'chi', 'CARHR051980' => 'chi', 'CARHR120170' => 'chi', 'CARHR203310' => 'chi', 'CARHR221490' => 'chi', 'Carub.0001s1054' => 'cru', 'Carub.0002s0431' => 'cru', 'Carub.0004s0818' => 'cru', 'Carub.0006s0846' => 'cru', 'Carub.0007s2722' => 'cru', 'Ca_00058_v3' => 'car', 'Ca_17831_v3' => 'car', 'Ca_19408_v3' => 'car', 'Ca_24397_v3' => 'car', 'Ca_25664_v3' => 'car', 'CBR_g21818' => 'cbr', 'CBR_g31195' => 'cbr', 'CBR_g32282' => 'cbr', 'CBR_g39599' => 'cbr', 'CBR_g49410' => 'cbr', 'Cc01_g09120' => 'ccan', 'Cc01_g09130' => 'ccan', 'Cc02_g09630' => 'ccan', 'Cc02_g22810' => 'ccan', 'Cc03_g03810' => 'ccan', 'CDE02G3718' => 'cde', 'CDE04G3183' => 'cde', 'CDE07G1046' => 'cde', 'CDE08G0480' => 'cde', 'Cfa005493' => 'cfa', 'Cfa010312' => 'cfa', 'Cfa015648' => 'cfa', 'Ciclev10002793m.g' => 'ccl', 'Ciclev10003356m.g' => 'ccl', 'Ciclev10006141m.g' => 'ccl', 'Ciclev10016676m.g' => 'ccl', 'Ciclev10017081m.g' => 'ccl', 'Ciclev10029499m.g' => 'ccl', 'CiPaw.01G166300' => 'cil', 'CiPaw.06G145600' => 'cil', 'CiPaw.13G040100' => 'cil', 'CiPaw.13G135800' => 'cil', 'ClCG01G012230' => 'cla', 'ClCG05G009510' => 'cla', 'ClCG08G008270' => 'cla', 'COL.COLO4_11763' => 'col', 'COL.COLO4_19876' => 'col', 'COL.COLO4_21481' => 'col', 'Cpa.g.sc118.34' => 'cpa', 'Cpa.g.sc32.13' => 'cpa', 'Cpa.g.sc58.103' => 'cpa', 'Cre03.g183850' => 'cre', 'Cre06.g306350' => 'cre', 'Cre07.g334800' => 'cre', 'Cre12.g487900' => 'cre', 'Cre14.g626700' => 'cre', 'Cre16.g658400' => 'cre', 'Cre17.g700950' => 'cre', 'CsaV3_1G014830' => 'csa', 'CsaV3_3G013320' => 'csa', 'CsaV3_3G019210' => 'csa', 'CsaV3_3G019220' => 'csa', 'CsaV3_6G004230' => 'csa', 'CSS0003773' => 'camsi', 'CSS0004563' => 'camsi', 'CSS0013949' => 'camsi', 'CSS0025971' => 'camsi', 'CSS0028570' => 'camsi', 'CSS0033127' => 'camsi', 'CSS0036051' => 'camsi', 'CSS0040087' => 'camsi', 'CSS0043179' => 'camsi', 'DCAR_006161' => 'dca', 'DCAR_010351' => 'dca', 'DCAR_012197' => 'dca', 'DCAR_024162' => 'dca', 'Dinv01030' => 'din', 'Dinv10924' => 'din', 'Dinv11835' => 'din', 'Dinv22841' => 'din', 'Dinv42553' => 'din', 'Duzib052G0560' => 'dzi', 'Duzib132G0389' => 'dzi', 'Duzib150G1181' => 'dzi', 'Duzib168G0623' => 'dzi', 'Duzib170G1036' => 'dzi', 'Duzib212G0200' => 'dzi', 'Duzib248G0194' => 'dzi', 'ECA232G2193' => 'eca', 'ECA233G0302' => 'eca', 'ECA234G2813' => 'eca', 'ECA234G4866' => 'eca', 'ECA240G3932' => 'eca', 'ECA248G0385' => 'eca', 'EL10Ac2g04781' => 'bvu', 'EL10Ac3g06445' => 'bvu', 'EL10Ac7g15825' => 'bvu', 'EL10Ac8g18550' => 'bvu', 'Eucgr.B03849' => 'egr', 'Eucgr.I02744' => 'egr', 'Eucgr.J00264' => 'egr', 'Eucgr.J00493' => 'egr', 'FAN04G2181' => 'fan', 'FAN07G2666' => 'fan', 'FAN11G0024' => 'fan', 'FAN12G1105' => 'fan', 'FAN13G0302' => 'fan', 'FAN15G2781' => 'fan', 'FAN16G1274' => 'fan', 'FAN17G2988' => 'fan', 'FAN18G2621' => 'fan', 'FAN21G0013' => 'fan', 'FAN22G1211' => 'fan', 'FAN25G3626' => 'fan', 'FvH4_2g09491' => 'fve', 'FvH4_3g24910' => 'fve', 'FvH4_4g15630' => 'fve', 'FvH4_5g28820' => 'fve', 'Glyma.01G238000' => 'gma', 'Glyma.05G168400' => 'gma', 'Glyma.08G126800' => 'gma', 'Glyma.08G188500' => 'gma', 'Glyma.10G278900' => 'gma', 'Glyma.11G005700' => 'gma', 'Glyma.11G183300' => 'gma', 'Glyma.12G089200' => 'gma', 'Glyma.12G169400' => 'gma', 'Glyma.12G169500' => 'gma', 'Glyma.12G169600' => 'gma', 'Glyma.20G110800' => 'gma', 'Gohir.A03G192900' => 'ghi', 'Gohir.A03G193000' => 'ghi', 'Gohir.A05G080700' => 'ghi', 'Gohir.A09G216000' => 'ghi', 'Gohir.A12G027700' => 'ghi', 'Gohir.A13G036200' => 'ghi', 'Gohir.A13G222600' => 'ghi', 'Gohir.D02G213900' => 'ghi', 'Gohir.D02G214000' => 'ghi', 'Gohir.D05G083700' => 'ghi', 'Gohir.D05G083800' => 'ghi', 'Gohir.D05G083850' => 'ghi', 'Gohir.D08G015400' => 'ghi', 'Gohir.D09G218400' => 'ghi', 'Gohir.D12G027100' => 'ghi', 'Gohir.D13G034500' => 'ghi', 'Gohir.D13G227400' => 'ghi', 'Gorai.005G241800' => 'gra', 'Gorai.005G241900' => 'gra', 'Gorai.006G239400' => 'gra', 'Gorai.008G027600' => 'gra', 'Gorai.009G085400' => 'gra', 'Gorai.009G085500' => 'gra', 'Gorai.013G039000' => 'gra', 'Gorai.013G194800' => 'gra', 'Gorai.013G257900' => 'gra', 'GSVIVG01000982001' => 'vvi', 'GSVIVG01017981001' => 'vvi', 'HanXRQChr01g0024061' => 'han', 'HanXRQChr09g0247831' => 'han', 'HanXRQChr10g0294611' => 'han', 'HanXRQChr10g0294621' => 'han', 'HanXRQChr11g0346821' => 'han', 'HanXRQChr13g0397461' => 'han', 'HanXRQChr16g0513651' => 'han', 'HanXRQChr16g0513701' => 'han', 'Haze_00897' => 'cav', 'Haze_01745' => 'cav', 'Haze_02486' => 'cav', 'Haze_02487' => 'cav', 'Haze_23374' => 'cav', 'Hma1.2p1_0578F.1_g182520' => 'hma', 'Hma1.2p1_0602F.1_g187350' => 'hma', 'Hma1.2p1_0602F.1_g187360' => 'hma', 'Hma1.2p1_0874F.1_g231320' => 'hma', 'Hma1.2p1_1197F.1_g266210' => 'hma', 'Hma1.2p1_1197F.1_g266220' => 'hma', 'Hma1.2p1_2167F.1_g315895' => 'hma', 'Hma1.2p1_2190F.1_g316640' => 'hma', 'Hma1.2p1_3645F.1_g337153' => 'hma', 'HPP92_004907' => 'vpl', 'HPP92_012134' => 'vpl', 'HPP92_025136' => 'vpl', 'HPP92_026087' => 'vpl', 'Hund06782' => 'sun', 'Hund06784' => 'sun', 'Lalb_Chr01g0004861' => 'lal', 'Lalb_Chr02g0140591' => 'lal', 'Lalb_Chr02g0140611' => 'lal', 'Lalb_Chr03g0028101' => 'lal', 'Lalb_Chr07g0185791' => 'lal', 'Lalb_Chr12g0204491' => 'lal', 'Lalb_Chr13g0295671' => 'lal', 'Lalb_Chr19g0136461' => 'lal', 'Lalb_Chr21g0309191' => 'lal', 'Lj1g0028158' => 'lja', 'Lj1P236T38' => 'lonja', 'Lj2C32G2' => 'lonja', 'Lj2P944T8' => 'lonja', 'Lj2P963T15' => 'lonja', 'Lj3g0011788' => 'lja', 'Lj4g0025027' => 'lja', 'Lj5P255T36' => 'lonja', 'Lj6g0018866' => 'lja', 'Lj6P608T31' => 'lonja', 'LjContig00408g0008879' => 'lja', 'Lsat_1_v5_gn_5_105820' => 'lsa', 'Lsat_1_v5_gn_6_38800' => 'lsa', 'Lsat_1_v5_gn_7_67141' => 'lsa', 'Manes.04G003400' => 'mes', 'Manes.07G020000' => 'mes', 'Manes.07G020100' => 'mes', 'Manes.07G020150' => 'mes', 'Manes.10G061500' => 'mes', 'Manes.10G123200' => 'mes', 'Manes.11G161900' => 'mes', 'Manes.15G029300' => 'mes', 'Mapoly0071s0018' => 'mpo', 'Mapoly0082s0023' => 'mpo', 'Mapoly3477s0001' => 'mpo', 'MBI05_g31233_MAGBIO' => 'mbi', 'MBI09_g05946_MAGBIO' => 'mbi', 'MBI09_g05947_MAGBIO' => 'mbi', 'MBI17_g08346_MAGBIO' => 'mbi', 'MCO04G038' => 'mco', 'MCO09G370' => 'mco', 'MCO13G605' => 'mco', 'MD00G1075500' => 'mdo', 'MD03G1144300' => 'mdo', 'MD08G1236800' => 'mdo', 'MD13G1193300' => 'mdo', 'MD15G1428700' => 'mdo', 'Medtr1g112030' => 'mtr', 'Medtr1g112050' => 'mtr', 'Medtr2g006290' => 'mtr', 'Medtr2g086510' => 'mtr', 'Medtr4g053120' => 'mtr', 'Medtr5g006320' => 'mtr', 'Medtr8g088720' => 'mtr', 'MELO3C004712.2' => 'cme', 'MELO3C006533.2' => 'cme', 'MELO3C019438.2' => 'cme', 'MELO3C019440.2' => 'cme', 'MELO3C019441.2' => 'cme', 'MELO3C019895.2' => 'cme', 'Migut.B00811' => 'egut', 'Migut.D02447' => 'egut', 'Migut.F00875' => 'egut', 'Migut.N00186' => 'egut', 'Migut.N01051' => 'egut', 'Migut.N02491' => 'egut', 'Migut.O00784' => 'egut', 'MSTRG.12367' => 'ama', 'MSTRG.18756' => 'ama', 'MSTRG.21042' => 'ama', 'Nitab4.5_0000559g0040' => 'nta', 'Nitab4.5_0000667g0190' => 'nta', 'Nitab4.5_0000755g0160' => 'nta', 'Nitab4.5_0001216g0080' => 'nta', 'Nitab4.5_0004069g0040' => 'nta', 'Nitab4.5_0004129g0010' => 'nta', 'Nitab4.5_0005744g0030' => 'nta', 'Nitab4.5_0006996g0030' => 'nta', 'Nitab4.5_0008971g0040' => 'nta', 'Nitab4.5_0009769g0020' => 'nta', 'Nitab4.5_0009833g0010' => 'nta', 'Nitab4.5_0013140g0020' => 'nta', 'Nn003s41376' => 'nnu', 'Nn1g01857' => 'nnu', 'Nn1g03611' => 'nnu', 'Nn1g06853' => 'nnu', 'Nn3g18360' => 'nnu', 'Nn4g26328' => 'nnu', 'Nn5g27531' => 'nnu', 'Nn6g34899' => 'nnu', 'Nn7g36299' => 'nnu', 'Oeu021485.1' => 'oeu', 'Oeu022433.1' => 'oeu', 'Oeu032111.1' => 'oeu', 'Oeu051608.1' => 'oeu', 'Os01g0860601' => 'osa', 'Os03g0659200' => 'osa', 'Os03g0835900' => 'osa', 'Os04g0412200' => 'osa', 'Os05g0443500' => 'osa', 'Os07g0251500' => 'osa', 'Os08g0104600' => 'osa', 'Peaxi162Scf00003g00047' => 'pax', 'Peaxi162Scf00003g00052' => 'pax', 'Peaxi162Scf00003g00394' => 'pax', 'Peaxi162Scf00091g00621' => 'pax', 'Peaxi162Scf00152g00146' => 'pax', 'Peaxi162Scf00173g00025' => 'pax', 'Peaxi162Scf00195g00102' => 'pax', 'Peaxi162Scf00402g00013' => 'pax', 'Peaxi162Scf00519g00618' => 'pax', 'PGR004G2838' => 'pgr', 'PGR044G2275' => 'pgr', 'PGR102G1377' => 'pgr', 'PGR119G1245' => 'pgr', 'PGR142G4449' => 'pgr', 'PGSC0003DMG400004532' => 'stu', 'PGSC0003DMG400011950' => 'stu', 'PGSC0003DMG400023391' => 'stu', 'PGSC0003DMG400023985' => 'stu', 'PGSC0003DMG400026360' => 'stu', 'PGSC0003DMG400035711' => 'stu', 'PGSC0003DMG400037286' => 'stu', 'PGSC0003DMG402005881' => 'stu', 'Phvul.002G045400' => 'pvu', 'Phvul.006G216600' => 'pvu', 'Phvul.006G216700' => 'pvu', 'Phvul.006G216800' => 'pvu', 'Phvul.007G022500' => 'pvu', 'Phvul.011G094400' => 'pvu', 'Potri.001G470700' => 'ptr', 'Potri.003G015200' => 'ptr', 'Potri.004G202500' => 'ptr', 'Potri.004G218400' => 'ptr', 'Potri.008G020100' => 'ptr', 'Potri.008G153200' => 'ptr', 'Potri.009G163800' => 'ptr', 'Potri.010G087300' => 'ptr', 'Potri.010G239100' => 'ptr', 'Pp3c10_16100' => 'ppa', 'Pp3c10_16880' => 'ppa', 'Pp3c16_6230' => 'ppa', 'Pp3c17_18910' => 'ppa', 'Pp3c3_22119' => 'ppa', 'Pp3c3_22140' => 'ppa', 'Pp3c4_8159' => 'ppa', 'Pp3c4_8171' => 'ppa', 'Pp3c4_8330' => 'ppa', 'PRCOL_00004098' => 'pco', 'Prupe.1G013900' => 'ppe', 'Prupe.1G226300' => 'ppe', 'Prupe.1G573600' => 'ppe', 'Prupe.6G130100' => 'ppe', 'Psat3g090040' => 'psa', 'Psat4g210440' => 'psa', 'Psat6g231040' => 'psa', 'Psat6g231080' => 'psa', 'Psat7g063000' => 'psa', 'Psat7g188000' => 'psa', 'Psat7g188040' => 'psa', 'PSO017G0206' => 'pso', 'PSO170G0501' => 'pso', 'PSO170G6422' => 'pso', 'PSO210G7739' => 'pso', 'PSO339G1808' => 'pso', 'PSO339G6135' => 'pso', 'PSO384G0010' => 'pso', 'PSO384G0964' => 'pso', 'PSO761G0050' => 'pso', 'PSO782G4085' => 'pso', 'QL01p012264' => 'qlo', 'QL02p099491' => 'qlo', 'QL03p033868' => 'qlo', 'QL04p046678' => 'qlo', 'QL06p002448' => 'qlo', 'RcHm_v2.0_Chr4g0416181' => 'rch', 'RcHm_v2.0_Chr5g0044701' => 'rch', 'RcHm_v2.0_Chr6g0265781' => 'rch', 'RcHm_v2.0_Chr7g0221031' => 'rch', 'Rhsim04G0202000' => 'rsi', 'Rhsim11G0127300' => 'rsi', 'Rhsim13G0111800' => 'rsi', 'Sabra01G0165600' => 'sbr', 'Sabra03G0008300' => 'sbr', 'Sabra04G0136900' => 'sbr', 'Sabra08G0013400' => 'sbr', 'Sabra08G0116800' => 'sbr', 'Sabra09G0128000' => 'sbr', 'Sabra10G0055500' => 'sbr', 'Sabra10G0073300' => 'sbr', 'SalBow3G0385' => 'sbo', 'SalBow3G1119' => 'sbo', 'SalBow3G2005' => 'sbo', 'SalBow6G2563' => 'sbo', 'SalBow6G6386' => 'sbo', 'Sc06g0008800' => 'sci', 'Sc07g0004950' => 'sci', 'Sc09g0005340' => 'sci', 'Sc13g0004410' => 'sci', 'Sc21g0007090' => 'sci', 'Sed0009285' => 'sed', 'Sed0017583' => 'sed', 'Sed0019699' => 'sed', 'Sed0023107' => 'sed', 'SEGI_10916' => 'sgi', 'SEGI_16217' => 'sgi', 'SEGI_19466' => 'sgi', 'SEGI_41115' => 'sgi', 'SGA_v2.0_scaffold111G31534' => 'sas', 'SGA_v2.0_scaffold22G09864' => 'sas', 'SGA_v2.0_scaffold338G49219' => 'sas', 'SGA_v2.0_scaffold92G28298' => 'sas', 'SMO119G0064' => 'smo', 'SMO223G0038' => 'smo', 'SMO347G0584' => 'smo', 'SMO351G0010' => 'smo', 'SMO356G0404' => 'smo', 'Solyc01g103920.3' => 'sly', 'Solyc04g009710.2' => 'sly', 'Solyc05g055280.2' => 'sly', 'Solyc10g044520.3' => 'sly', 'Solyc10g075160.1' => 'sly', 'Solyc11g006910.3' => 'sly', 'Solyc11g068430.3' => 'sly', 'Sopen01g046310' => 'spe', 'Sopen03g001200' => 'spe', 'Sopen04g004830' => 'spe', 'Sopen05g033720' => 'spe', 'Sopen06g030740' => 'spe', 'Sopen10g013090' => 'spe', 'Sopen10g027630' => 'spe', 'Sopen10g027640' => 'spe', 'Sopen11g002820' => 'spe', 'Sopen11g027140' => 'spe', 'Sp1g09680' => 'spa', 'Sp2g03630' => 'spa', 'Sp4g10320' => 'spa', 'Sp6g33400' => 'spa', 'Sp7g13030' => 'spa', 'TAR365G0317' => 'tar', 'TAR376G0979' => 'tar', 'TAR623G1665' => 'tar', 'TAR633G2373' => 'tar', 'TAR636G1400' => 'tar', 'THA.LOC104800529' => 'tha', 'THA.LOC104808547' => 'tha', 'THA.LOC104809615' => 'tha', 'THA.LOC104815724' => 'tha', 'THA.LOC104818480' => 'tha', 'THA.LOC104819179' => 'tha', 'THA.LOC104822270' => 'tha', 'THA.LOC104826425' => 'tha', 'Thecc.02G089700' => 'tca', 'Thecc.04G232300' => 'tca', 'Thecc.09G283400' => 'tca', 'Thhalv10009020m.g' => 'esa', 'Thhalv10015506m.g' => 'esa', 'Thhalv10017364m.g' => 'esa', 'Thhalv10023742m.g' => 'esa', 'Thhalv10026483m.g' => 'esa', 'TPR.G17232' => 'tpr', 'TPR.G2133' => 'tpr', 'TPR.G2498' => 'tpr', 'TPR.G31942' => 'tpr', 'TPR.G37877' => 'tpr', 'TPR.G4571' => 'tpr', 'TWI14G1113' => 'twi', 'TWI15G0426' => 'twi', 'TWI31G1005' => 'twi', 'TWI38G0513' => 'twi', 'TWI38G1484' => 'twi', 'TWI73G1098' => 'twi', 'unitig_26.g10519' => 'ugi', 'unitig_736.g22395' => 'ugi', 'unitig_747.g21234' => 'ugi', 'unitig_747.g21942' => 'ugi', 'vmacro14351' => 'vma', 'VMungo0540G0082' => 'vmu', 'VMungo0540G0405' => 'vmu', 'VMungo0540G1486' => 'vmu', 'VMungo0540G1692' => 'vmu', 'VMungo0720G2473' => 'vmu', 'VMungo1127G1562' => 'vmu', 'VMungo1215G1918' => 'vmu', 'Zm00001eb052650' => 'zma', 'Zm00001eb063710' => 'zma', 'Zm00001eb083950' => 'zma', 'Zm00001eb174420' => 'zma', 'Zm00001eb260140' => 'zma', 'Zm00001eb260150' => 'zma', 'Zm00001eb260160' => 'zma', 'Zm00001eb348290' => 'zma', 'Zm00001eb366870' => 'zma', 'Zm00001eb421930' => 'zma' ) $gf_id = 'HOM05D001025' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001025' ) $data_identifier = 'HOM05D001025' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 19, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 2, 'amhyb' => (int) 4, 'aly' => (int) 4, 'aox' => (int) 4, 'arhy' => (int) 3, 'ath' => (int) 5, 'atr' => (int) 4, 'acertr' => (int) 3, 'cqu' => (int) 7, 'bca' => (int) 17, 'bol' => (int) 10, 'bra' => (int) 9, 'can' => (int) 10, 'cansat' => (int) 6, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 5, 'cbr' => (int) 5, 'ccan' => (int) 5, 'cde' => (int) 4, 'cfa' => (int) 3, 'ccl' => (int) 6, 'cil' => (int) 4, 'cla' => (int) 3, 'col' => (int) 3, 'cpa' => (int) 3, 'cre' => (int) 7, 'csa' => (int) 5, 'camsi' => (int) 9, 'dca' => (int) 4, 'din' => (int) 5, 'dzi' => (int) 7, 'eca' => (int) 6, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 12, 'fve' => (int) 4, 'gma' => (int) 12, 'ghi' => (int) 17, 'gra' => (int) 9, 'vvi' => (int) 2, 'han' => (int) 8, 'cav' => (int) 5, 'hma' => (int) 9, 'vpl' => (int) 4, 'sun' => (int) 2, 'lal' => (int) 9, 'lja' => (int) 5, 'lonja' => (int) 6, 'lsa' => (int) 3, 'mes' => (int) 8, 'mpo' => (int) 3, 'mbi' => (int) 4, 'mco' => (int) 3, 'mdo' => (int) 5, 'mtr' => (int) 7, 'cme' => (int) 6, 'egut' => (int) 7, 'ama' => (int) 3, 'nta' => (int) 12, 'nnu' => (int) 9, 'oeu' => (int) 4, 'osa' => (int) 7, 'pax' => (int) 9, 'pgr' => (int) 5, 'stu' => (int) 8, 'pvu' => (int) 6, 'ptr' => (int) 9, 'ppa' => (int) 9, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 7, 'pso' => (int) 10, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 3, 'sbr' => (int) 8, 'sbo' => (int) 5, 'sci' => (int) 5, 'sed' => (int) 4, 'sgi' => (int) 4, 'sas' => (int) 4, 'smo' => (int) 5, 'sly' => (int) 7, 'spe' => (int) 10, 'spa' => (int) 5, 'tar' => (int) 5, 'tha' => (int) 8, 'tca' => (int) 3, 'esa' => (int) 5, 'tpr' => (int) 6, 'twi' => (int) 6, 'ugi' => (int) 4, 'vma' => (int) 1, 'vmu' => (int) 7, 'zma' => (int) 10 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb421930' $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' => 'HOM05D001025', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '592', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p22650' => 'bna', 'A01p29720' => 'bna', 'A03p26560' => 'bna', 'A03p68820' => 'bna', 'A04p20980' => 'bna', 'A06p07730' => 'bna', 'A07p18260' => 'bna', 'A08p33710' => 'bna', 'A09p16970' => 'bna', 'A10p27490' => 'bna', 'Aa31LG1G17300' => 'aar', 'Aa31LG1G3910' => 'aar', 'Aa31LG2G9630' => 'aar', 'Aa31LG5G8360' => 'aar', 'Aa31LG9G2410' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4699' => 'aag', 'Actinidia23512' => 'ach', 'Actinidia37080' => 'ach', 'Ah.01g020380' => 'amhyb', 'Ah.08g215710' => 'amhyb', 'Ah.09g225110' => 'amhyb', 'Ah.10g036680' => 'amhyb', 'AL1G21940' => 'aly', 'AL2G15540' => 'aly', 'AL4G21520' => 'aly', 'AL7G40960' => 'aly', 'Aqoxy2G01191' => 'aox', 'Aqoxy2G03393' => 'aox', 'Aqoxy4G02775' => 'aox', 'Aqoxy6G00058' => 'aox', 'arahy.Tifrunner.gnm1.ann1.9X74H2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CW3FX9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R485W7' => 'arhy', 'AT1G10960' => 'ath', 'AT1G60950' => 'ath', 'AT2G27510' => 'ath', 'AT4G14890' => 'ath', 'AT5G10000' => 'ath', 'ATR0665G624' => 'atr', 'ATR0697G138' => 'atr', 'ATR0776G046' => 'atr', 'ATR1134G135' => 'atr', 'Atru.chr12.1025' => 'acertr', 'Atru.chr3.3241' => 'acertr', 'Atru.chr4.2460' => 'acertr', 'AUR62007427' => 'cqu', 'AUR62010960' => 'cqu', 'AUR62012201' => 'cqu', 'AUR62021470' => 'cqu', 'AUR62022834' => 'cqu', 'AUR62033635' => 'cqu', 'AUR62036186' => 'cqu', 'BcaB01g03077' => 'bca', 'BcaB02g10093' => 'bca', 'BcaB04g20295' => 'bca', 'BcaB06g28147' => 'bca', 'BcaB07g31253' => 'bca', 'BcaC01g04946' => 'bca', 'BcaC02g10614' => 'bca', 'BcaC02g10885' => 'bca', 'BcaC04g19356' => 'bca', 'BcaC04g22297' => 'bca', 'BcaC05g24977' => 'bca', 'BcaC06g31823' => 'bca', 'BcaC07g38633' => 'bca', 'BcaC09g49353' => 'bca', 'BcaC09g50168' => 'bca', 'BcaNung00322' => 'bca', 'BcaNung04769' => 'bca', 'BolC1t02753H' => 'bol', 'BolC1t03721H' => 'bol', 'BolC3t15525H' => 'bol', 'BolC4t23903H' => 'bol', 'BolC4t24231H' => 'bol', 'BolC4t27209H' => 'bol', 'BolC5t29671H' => 'bol', 'BolC8t49044H' => 'bol', 'BolC9t54999H' => 'bol', 'BolC9t59517H' => 'bol', 'BraA01t02178Z' => 'bra', 'BraA01t03099Z' => 'bra', 'BraA03t11867Z' => 'bra', 'BraA04t17667Z' => 'bra', 'BraA07t29542Z' => 'bra', 'BraA08t35287Z' => 'bra', 'BraA09t37334Z' => 'bra', 'BraA10t44801Z' => 'bra', 'BraSC39t46181Z' => 'bra', 'C01p28240' => 'bna', 'C01p37530' => 'bna', 'C03p31820' => 'bna', 'C04p24080' => 'bna', 'C04p25790' => 'bna', 'C04p56770' => 'bna', 'C05p09310' => 'bna', 'C09p21010' => 'bna', 'C09p67560' => 'bna', 'CAN.G1324.7' => 'can', 'CAN.G1358.10' => 'can', 'CAN.G1550.2' => 'can', 'CAN.G186.56' => 'can', 'CAN.G1965.1' => 'can', 'CAN.G645.15' => 'can', 'CAN.G798.26' => 'can', 'CAN.G798.27' => 'can', 'CAN.G798.29' => 'can', 'CAN.G919.31' => 'can', 'CANSAT11G0133' => 'cansat', 'CANSAT11G1171' => 'cansat', 'CANSAT11G2056' => 'cansat', 'CANSAT56G1202' => 'cansat', 'CANSAT56G1514' => 'cansat', 'CANSAT78G0455' => 'cansat', 'CARHR011190' => 'chi', 'CARHR051980' => 'chi', 'CARHR120170' => 'chi', 'CARHR203310' => 'chi', 'CARHR221490' => 'chi', 'Carub.0001s1054' => 'cru', 'Carub.0002s0431' => 'cru', 'Carub.0004s0818' => 'cru', 'Carub.0006s0846' => 'cru', 'Carub.0007s2722' => 'cru', 'Ca_00058_v3' => 'car', 'Ca_17831_v3' => 'car', 'Ca_19408_v3' => 'car', 'Ca_24397_v3' => 'car', 'Ca_25664_v3' => 'car', 'CBR_g21818' => 'cbr', 'CBR_g31195' => 'cbr', 'CBR_g32282' => 'cbr', 'CBR_g39599' => 'cbr', 'CBR_g49410' => 'cbr', 'Cc01_g09120' => 'ccan', 'Cc01_g09130' => 'ccan', 'Cc02_g09630' => 'ccan', 'Cc02_g22810' => 'ccan', 'Cc03_g03810' => 'ccan', 'CDE02G3718' => 'cde', 'CDE04G3183' => 'cde', 'CDE07G1046' => 'cde', 'CDE08G0480' => 'cde', 'Cfa005493' => 'cfa', 'Cfa010312' => 'cfa', 'Cfa015648' => 'cfa', 'Ciclev10002793m.g' => 'ccl', 'Ciclev10003356m.g' => 'ccl', 'Ciclev10006141m.g' => 'ccl', 'Ciclev10016676m.g' => 'ccl', 'Ciclev10017081m.g' => 'ccl', 'Ciclev10029499m.g' => 'ccl', 'CiPaw.01G166300' => 'cil', 'CiPaw.06G145600' => 'cil', 'CiPaw.13G040100' => 'cil', 'CiPaw.13G135800' => 'cil', 'ClCG01G012230' => 'cla', 'ClCG05G009510' => 'cla', 'ClCG08G008270' => 'cla', 'COL.COLO4_11763' => 'col', 'COL.COLO4_19876' => 'col', 'COL.COLO4_21481' => 'col', 'Cpa.g.sc118.34' => 'cpa', 'Cpa.g.sc32.13' => 'cpa', 'Cpa.g.sc58.103' => 'cpa', 'Cre03.g183850' => 'cre', 'Cre06.g306350' => 'cre', 'Cre07.g334800' => 'cre', 'Cre12.g487900' => 'cre', 'Cre14.g626700' => 'cre', 'Cre16.g658400' => 'cre', 'Cre17.g700950' => 'cre', 'CsaV3_1G014830' => 'csa', 'CsaV3_3G013320' => 'csa', 'CsaV3_3G019210' => 'csa', 'CsaV3_3G019220' => 'csa', 'CsaV3_6G004230' => 'csa', 'CSS0003773' => 'camsi', 'CSS0004563' => 'camsi', 'CSS0013949' => 'camsi', 'CSS0025971' => 'camsi', 'CSS0028570' => 'camsi', 'CSS0033127' => 'camsi', 'CSS0036051' => 'camsi', 'CSS0040087' => 'camsi', 'CSS0043179' => 'camsi', 'DCAR_006161' => 'dca', 'DCAR_010351' => 'dca', 'DCAR_012197' => 'dca', 'DCAR_024162' => 'dca', 'Dinv01030' => 'din', 'Dinv10924' => 'din', 'Dinv11835' => 'din', 'Dinv22841' => 'din', 'Dinv42553' => 'din', 'Duzib052G0560' => 'dzi', 'Duzib132G0389' => 'dzi', 'Duzib150G1181' => 'dzi', 'Duzib168G0623' => 'dzi', 'Duzib170G1036' => 'dzi', 'Duzib212G0200' => 'dzi', 'Duzib248G0194' => 'dzi', 'ECA232G2193' => 'eca', 'ECA233G0302' => 'eca', 'ECA234G2813' => 'eca', 'ECA234G4866' => 'eca', 'ECA240G3932' => 'eca', 'ECA248G0385' => 'eca', 'EL10Ac2g04781' => 'bvu', 'EL10Ac3g06445' => 'bvu', 'EL10Ac7g15825' => 'bvu', 'EL10Ac8g18550' => 'bvu', 'Eucgr.B03849' => 'egr', 'Eucgr.I02744' => 'egr', 'Eucgr.J00264' => 'egr', 'Eucgr.J00493' => 'egr', 'FAN04G2181' => 'fan', 'FAN07G2666' => 'fan', 'FAN11G0024' => 'fan', 'FAN12G1105' => 'fan', 'FAN13G0302' => 'fan', 'FAN15G2781' => 'fan', 'FAN16G1274' => 'fan', 'FAN17G2988' => 'fan', 'FAN18G2621' => 'fan', 'FAN21G0013' => 'fan', 'FAN22G1211' => 'fan', 'FAN25G3626' => 'fan', 'FvH4_2g09491' => 'fve', 'FvH4_3g24910' => 'fve', 'FvH4_4g15630' => 'fve', 'FvH4_5g28820' => 'fve', 'Glyma.01G238000' => 'gma', 'Glyma.05G168400' => 'gma', 'Glyma.08G126800' => 'gma', 'Glyma.08G188500' => 'gma', 'Glyma.10G278900' => 'gma', 'Glyma.11G005700' => 'gma', 'Glyma.11G183300' => 'gma', 'Glyma.12G089200' => 'gma', 'Glyma.12G169400' => 'gma', 'Glyma.12G169500' => 'gma', 'Glyma.12G169600' => 'gma', 'Glyma.20G110800' => 'gma', 'Gohir.A03G192900' => 'ghi', 'Gohir.A03G193000' => 'ghi', 'Gohir.A05G080700' => 'ghi', 'Gohir.A09G216000' => 'ghi', 'Gohir.A12G027700' => 'ghi', 'Gohir.A13G036200' => 'ghi', 'Gohir.A13G222600' => 'ghi', 'Gohir.D02G213900' => 'ghi', 'Gohir.D02G214000' => 'ghi', 'Gohir.D05G083700' => 'ghi', 'Gohir.D05G083800' => 'ghi', 'Gohir.D05G083850' => 'ghi', 'Gohir.D08G015400' => 'ghi', 'Gohir.D09G218400' => 'ghi', 'Gohir.D12G027100' => 'ghi', 'Gohir.D13G034500' => 'ghi', 'Gohir.D13G227400' => 'ghi', 'Gorai.005G241800' => 'gra', 'Gorai.005G241900' => 'gra', 'Gorai.006G239400' => 'gra', 'Gorai.008G027600' => 'gra', 'Gorai.009G085400' => 'gra', 'Gorai.009G085500' => 'gra', 'Gorai.013G039000' => 'gra', 'Gorai.013G194800' => 'gra', 'Gorai.013G257900' => 'gra', 'GSVIVG01000982001' => 'vvi', 'GSVIVG01017981001' => 'vvi', 'HanXRQChr01g0024061' => 'han', 'HanXRQChr09g0247831' => 'han', 'HanXRQChr10g0294611' => 'han', 'HanXRQChr10g0294621' => 'han', 'HanXRQChr11g0346821' => 'han', 'HanXRQChr13g0397461' => 'han', 'HanXRQChr16g0513651' => 'han', 'HanXRQChr16g0513701' => 'han', 'Haze_00897' => 'cav', 'Haze_01745' => 'cav', 'Haze_02486' => 'cav', 'Haze_02487' => 'cav', 'Haze_23374' => 'cav', 'Hma1.2p1_0578F.1_g182520' => 'hma', 'Hma1.2p1_0602F.1_g187350' => 'hma', 'Hma1.2p1_0602F.1_g187360' => 'hma', 'Hma1.2p1_0874F.1_g231320' => 'hma', 'Hma1.2p1_1197F.1_g266210' => 'hma', 'Hma1.2p1_1197F.1_g266220' => 'hma', 'Hma1.2p1_2167F.1_g315895' => 'hma', 'Hma1.2p1_2190F.1_g316640' => 'hma', 'Hma1.2p1_3645F.1_g337153' => 'hma', 'HPP92_004907' => 'vpl', 'HPP92_012134' => 'vpl', 'HPP92_025136' => 'vpl', 'HPP92_026087' => 'vpl', 'Hund06782' => 'sun', 'Hund06784' => 'sun', 'Lalb_Chr01g0004861' => 'lal', 'Lalb_Chr02g0140591' => 'lal', 'Lalb_Chr02g0140611' => 'lal', 'Lalb_Chr03g0028101' => 'lal', 'Lalb_Chr07g0185791' => 'lal', 'Lalb_Chr12g0204491' => 'lal', 'Lalb_Chr13g0295671' => 'lal', 'Lalb_Chr19g0136461' => 'lal', 'Lalb_Chr21g0309191' => 'lal', 'Lj1g0028158' => 'lja', 'Lj1P236T38' => 'lonja', 'Lj2C32G2' => 'lonja', 'Lj2P944T8' => 'lonja', 'Lj2P963T15' => 'lonja', 'Lj3g0011788' => 'lja', 'Lj4g0025027' => 'lja', 'Lj5P255T36' => 'lonja', 'Lj6g0018866' => 'lja', 'Lj6P608T31' => 'lonja', 'LjContig00408g0008879' => 'lja', 'Lsat_1_v5_gn_5_105820' => 'lsa', 'Lsat_1_v5_gn_6_38800' => 'lsa', 'Lsat_1_v5_gn_7_67141' => 'lsa', 'Manes.04G003400' => 'mes', 'Manes.07G020000' => 'mes', 'Manes.07G020100' => 'mes', 'Manes.07G020150' => 'mes', 'Manes.10G061500' => 'mes', 'Manes.10G123200' => 'mes', 'Manes.11G161900' => 'mes', 'Manes.15G029300' => 'mes', 'Mapoly0071s0018' => 'mpo', 'Mapoly0082s0023' => 'mpo', 'Mapoly3477s0001' => 'mpo', 'MBI05_g31233_MAGBIO' => 'mbi', 'MBI09_g05946_MAGBIO' => 'mbi', 'MBI09_g05947_MAGBIO' => 'mbi', 'MBI17_g08346_MAGBIO' => 'mbi', 'MCO04G038' => 'mco', 'MCO09G370' => 'mco', 'MCO13G605' => 'mco', 'MD00G1075500' => 'mdo', 'MD03G1144300' => 'mdo', 'MD08G1236800' => 'mdo', 'MD13G1193300' => 'mdo', 'MD15G1428700' => 'mdo', 'Medtr1g112030' => 'mtr', 'Medtr1g112050' => 'mtr', 'Medtr2g006290' => 'mtr', 'Medtr2g086510' => 'mtr', 'Medtr4g053120' => 'mtr', 'Medtr5g006320' => 'mtr', 'Medtr8g088720' => 'mtr', 'MELO3C004712.2' => 'cme', 'MELO3C006533.2' => 'cme', 'MELO3C019438.2' => 'cme', 'MELO3C019440.2' => 'cme', 'MELO3C019441.2' => 'cme', 'MELO3C019895.2' => 'cme', 'Migut.B00811' => 'egut', 'Migut.D02447' => 'egut', 'Migut.F00875' => 'egut', 'Migut.N00186' => 'egut', 'Migut.N01051' => 'egut', 'Migut.N02491' => 'egut', 'Migut.O00784' => 'egut', 'MSTRG.12367' => 'ama', 'MSTRG.18756' => 'ama', 'MSTRG.21042' => 'ama', 'Nitab4.5_0000559g0040' => 'nta', 'Nitab4.5_0000667g0190' => 'nta', 'Nitab4.5_0000755g0160' => 'nta', 'Nitab4.5_0001216g0080' => 'nta', 'Nitab4.5_0004069g0040' => 'nta', 'Nitab4.5_0004129g0010' => 'nta', 'Nitab4.5_0005744g0030' => 'nta', 'Nitab4.5_0006996g0030' => 'nta', 'Nitab4.5_0008971g0040' => 'nta', 'Nitab4.5_0009769g0020' => 'nta', 'Nitab4.5_0009833g0010' => 'nta', 'Nitab4.5_0013140g0020' => 'nta', 'Nn003s41376' => 'nnu', 'Nn1g01857' => 'nnu', 'Nn1g03611' => 'nnu', 'Nn1g06853' => 'nnu', 'Nn3g18360' => 'nnu', 'Nn4g26328' => 'nnu', 'Nn5g27531' => 'nnu', 'Nn6g34899' => 'nnu', 'Nn7g36299' => 'nnu', 'Oeu021485.1' => 'oeu', 'Oeu022433.1' => 'oeu', 'Oeu032111.1' => 'oeu', 'Oeu051608.1' => 'oeu', 'Os01g0860601' => 'osa', 'Os03g0659200' => 'osa', 'Os03g0835900' => 'osa', 'Os04g0412200' => 'osa', 'Os05g0443500' => 'osa', 'Os07g0251500' => 'osa', 'Os08g0104600' => 'osa', 'Peaxi162Scf00003g00047' => 'pax', 'Peaxi162Scf00003g00052' => 'pax', 'Peaxi162Scf00003g00394' => 'pax', 'Peaxi162Scf00091g00621' => 'pax', 'Peaxi162Scf00152g00146' => 'pax', 'Peaxi162Scf00173g00025' => 'pax', 'Peaxi162Scf00195g00102' => 'pax', 'Peaxi162Scf00402g00013' => 'pax', 'Peaxi162Scf00519g00618' => 'pax', 'PGR004G2838' => 'pgr', 'PGR044G2275' => 'pgr', 'PGR102G1377' => 'pgr', 'PGR119G1245' => 'pgr', 'PGR142G4449' => 'pgr', 'PGSC0003DMG400004532' => 'stu', 'PGSC0003DMG400011950' => 'stu', 'PGSC0003DMG400023391' => 'stu', 'PGSC0003DMG400023985' => 'stu', 'PGSC0003DMG400026360' => 'stu', 'PGSC0003DMG400035711' => 'stu', 'PGSC0003DMG400037286' => 'stu', 'PGSC0003DMG402005881' => 'stu', 'Phvul.002G045400' => 'pvu', 'Phvul.006G216600' => 'pvu', 'Phvul.006G216700' => 'pvu', 'Phvul.006G216800' => 'pvu', 'Phvul.007G022500' => 'pvu', 'Phvul.011G094400' => 'pvu', 'Potri.001G470700' => 'ptr', 'Potri.003G015200' => 'ptr', 'Potri.004G202500' => 'ptr', 'Potri.004G218400' => 'ptr', 'Potri.008G020100' => 'ptr', 'Potri.008G153200' => 'ptr', 'Potri.009G163800' => 'ptr', 'Potri.010G087300' => 'ptr', 'Potri.010G239100' => 'ptr', 'Pp3c10_16100' => 'ppa', 'Pp3c10_16880' => 'ppa', 'Pp3c16_6230' => 'ppa', 'Pp3c17_18910' => 'ppa', 'Pp3c3_22119' => 'ppa', 'Pp3c3_22140' => 'ppa', 'Pp3c4_8159' => 'ppa', 'Pp3c4_8171' => 'ppa', 'Pp3c4_8330' => 'ppa', 'PRCOL_00004098' => 'pco', 'Prupe.1G013900' => 'ppe', 'Prupe.1G226300' => 'ppe', 'Prupe.1G573600' => 'ppe', 'Prupe.6G130100' => 'ppe', 'Psat3g090040' => 'psa', 'Psat4g210440' => 'psa', 'Psat6g231040' => 'psa', 'Psat6g231080' => 'psa', 'Psat7g063000' => 'psa', 'Psat7g188000' => 'psa', 'Psat7g188040' => 'psa', 'PSO017G0206' => 'pso', 'PSO170G0501' => 'pso', 'PSO170G6422' => 'pso', 'PSO210G7739' => 'pso', 'PSO339G1808' => 'pso', 'PSO339G6135' => 'pso', 'PSO384G0010' => 'pso', 'PSO384G0964' => 'pso', 'PSO761G0050' => 'pso', 'PSO782G4085' => 'pso', 'QL01p012264' => 'qlo', 'QL02p099491' => 'qlo', 'QL03p033868' => 'qlo', 'QL04p046678' => 'qlo', 'QL06p002448' => 'qlo', 'RcHm_v2.0_Chr4g0416181' => 'rch', 'RcHm_v2.0_Chr5g0044701' => 'rch', 'RcHm_v2.0_Chr6g0265781' => 'rch', 'RcHm_v2.0_Chr7g0221031' => 'rch', 'Rhsim04G0202000' => 'rsi', 'Rhsim11G0127300' => 'rsi', 'Rhsim13G0111800' => 'rsi', 'Sabra01G0165600' => 'sbr', 'Sabra03G0008300' => 'sbr', 'Sabra04G0136900' => 'sbr', 'Sabra08G0013400' => 'sbr', 'Sabra08G0116800' => 'sbr', 'Sabra09G0128000' => 'sbr', 'Sabra10G0055500' => 'sbr', 'Sabra10G0073300' => 'sbr', 'SalBow3G0385' => 'sbo', 'SalBow3G1119' => 'sbo', 'SalBow3G2005' => 'sbo', 'SalBow6G2563' => 'sbo', 'SalBow6G6386' => 'sbo', 'Sc06g0008800' => 'sci', 'Sc07g0004950' => 'sci', 'Sc09g0005340' => 'sci', 'Sc13g0004410' => 'sci', 'Sc21g0007090' => 'sci', 'Sed0009285' => 'sed', 'Sed0017583' => 'sed', 'Sed0019699' => 'sed', 'Sed0023107' => 'sed', 'SEGI_10916' => 'sgi', 'SEGI_16217' => 'sgi', 'SEGI_19466' => 'sgi', 'SEGI_41115' => 'sgi', 'SGA_v2.0_scaffold111G31534' => 'sas', 'SGA_v2.0_scaffold22G09864' => 'sas', 'SGA_v2.0_scaffold338G49219' => 'sas', 'SGA_v2.0_scaffold92G28298' => 'sas', 'SMO119G0064' => 'smo', 'SMO223G0038' => 'smo', 'SMO347G0584' => 'smo', 'SMO351G0010' => 'smo', 'SMO356G0404' => 'smo', 'Solyc01g103920.3' => 'sly', 'Solyc04g009710.2' => 'sly', 'Solyc05g055280.2' => 'sly', 'Solyc10g044520.3' => 'sly', 'Solyc10g075160.1' => 'sly', 'Solyc11g006910.3' => 'sly', 'Solyc11g068430.3' => 'sly', 'Sopen01g046310' => 'spe', 'Sopen03g001200' => 'spe', 'Sopen04g004830' => 'spe', 'Sopen05g033720' => 'spe', 'Sopen06g030740' => 'spe', 'Sopen10g013090' => 'spe', 'Sopen10g027630' => 'spe', 'Sopen10g027640' => 'spe', 'Sopen11g002820' => 'spe', 'Sopen11g027140' => 'spe', 'Sp1g09680' => 'spa', 'Sp2g03630' => 'spa', 'Sp4g10320' => 'spa', 'Sp6g33400' => 'spa', 'Sp7g13030' => 'spa', 'TAR365G0317' => 'tar', 'TAR376G0979' => 'tar', 'TAR623G1665' => 'tar', 'TAR633G2373' => 'tar', 'TAR636G1400' => 'tar', 'THA.LOC104800529' => 'tha', 'THA.LOC104808547' => 'tha', 'THA.LOC104809615' => 'tha', 'THA.LOC104815724' => 'tha', 'THA.LOC104818480' => 'tha', 'THA.LOC104819179' => 'tha', 'THA.LOC104822270' => 'tha', 'THA.LOC104826425' => 'tha', 'Thecc.02G089700' => 'tca', 'Thecc.04G232300' => 'tca', 'Thecc.09G283400' => 'tca', 'Thhalv10009020m.g' => 'esa', 'Thhalv10015506m.g' => 'esa', 'Thhalv10017364m.g' => 'esa', 'Thhalv10023742m.g' => 'esa', 'Thhalv10026483m.g' => 'esa', 'TPR.G17232' => 'tpr', 'TPR.G2133' => 'tpr', 'TPR.G2498' => 'tpr', 'TPR.G31942' => 'tpr', 'TPR.G37877' => 'tpr', 'TPR.G4571' => 'tpr', 'TWI14G1113' => 'twi', 'TWI15G0426' => 'twi', 'TWI31G1005' => 'twi', 'TWI38G0513' => 'twi', 'TWI38G1484' => 'twi', 'TWI73G1098' => 'twi', 'unitig_26.g10519' => 'ugi', 'unitig_736.g22395' => 'ugi', 'unitig_747.g21234' => 'ugi', 'unitig_747.g21942' => 'ugi', 'vmacro14351' => 'vma', 'VMungo0540G0082' => 'vmu', 'VMungo0540G0405' => 'vmu', 'VMungo0540G1486' => 'vmu', 'VMungo0540G1692' => 'vmu', 'VMungo0720G2473' => 'vmu', 'VMungo1127G1562' => 'vmu', 'VMungo1215G1918' => 'vmu', 'Zm00001eb052650' => 'zma', 'Zm00001eb063710' => 'zma', 'Zm00001eb083950' => 'zma', 'Zm00001eb174420' => 'zma', 'Zm00001eb260140' => 'zma', 'Zm00001eb260150' => 'zma', 'Zm00001eb260160' => 'zma', 'Zm00001eb348290' => 'zma', 'Zm00001eb366870' => 'zma', 'Zm00001eb421930' => 'zma' ), 'gf_id' => 'HOM05D001025', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001025' ), 'data_identifier' => 'HOM05D001025', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001025', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '592', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p22650' => 'bna', 'A01p29720' => 'bna', 'A03p26560' => 'bna', 'A03p68820' => 'bna', 'A04p20980' => 'bna', 'A06p07730' => 'bna', 'A07p18260' => 'bna', 'A08p33710' => 'bna', 'A09p16970' => 'bna', 'A10p27490' => 'bna', 'Aa31LG1G17300' => 'aar', 'Aa31LG1G3910' => 'aar', 'Aa31LG2G9630' => 'aar', 'Aa31LG5G8360' => 'aar', 'Aa31LG9G2410' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4699' => 'aag', 'Actinidia23512' => 'ach', 'Actinidia37080' => 'ach', 'Ah.01g020380' => 'amhyb', 'Ah.08g215710' => 'amhyb', 'Ah.09g225110' => 'amhyb', 'Ah.10g036680' => 'amhyb', 'AL1G21940' => 'aly', 'AL2G15540' => 'aly', 'AL4G21520' => 'aly', 'AL7G40960' => 'aly', 'Aqoxy2G01191' => 'aox', 'Aqoxy2G03393' => 'aox', 'Aqoxy4G02775' => 'aox', 'Aqoxy6G00058' => 'aox', 'arahy.Tifrunner.gnm1.ann1.9X74H2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CW3FX9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R485W7' => 'arhy', 'AT1G10960' => 'ath', 'AT1G60950' => 'ath', 'AT2G27510' => 'ath', 'AT4G14890' => 'ath', 'AT5G10000' => 'ath', 'ATR0665G624' => 'atr', 'ATR0697G138' => 'atr', 'ATR0776G046' => 'atr', 'ATR1134G135' => 'atr', 'Atru.chr12.1025' => 'acertr', 'Atru.chr3.3241' => 'acertr', 'Atru.chr4.2460' => 'acertr', 'AUR62007427' => 'cqu', 'AUR62010960' => 'cqu', 'AUR62012201' => 'cqu', 'AUR62021470' => 'cqu', 'AUR62022834' => 'cqu', 'AUR62033635' => 'cqu', 'AUR62036186' => 'cqu', 'BcaB01g03077' => 'bca', 'BcaB02g10093' => 'bca', 'BcaB04g20295' => 'bca', 'BcaB06g28147' => 'bca', 'BcaB07g31253' => 'bca', 'BcaC01g04946' => 'bca', 'BcaC02g10614' => 'bca', 'BcaC02g10885' => 'bca', 'BcaC04g19356' => 'bca', 'BcaC04g22297' => 'bca', 'BcaC05g24977' => 'bca', 'BcaC06g31823' => 'bca', 'BcaC07g38633' => 'bca', 'BcaC09g49353' => 'bca', 'BcaC09g50168' => 'bca', 'BcaNung00322' => 'bca', 'BcaNung04769' => 'bca', 'BolC1t02753H' => 'bol', 'BolC1t03721H' => 'bol', 'BolC3t15525H' => 'bol', 'BolC4t23903H' => 'bol', 'BolC4t24231H' => 'bol', 'BolC4t27209H' => 'bol', 'BolC5t29671H' => 'bol', 'BolC8t49044H' => 'bol', 'BolC9t54999H' => 'bol', 'BolC9t59517H' => 'bol', 'BraA01t02178Z' => 'bra', 'BraA01t03099Z' => 'bra', 'BraA03t11867Z' => 'bra', 'BraA04t17667Z' => 'bra', 'BraA07t29542Z' => 'bra', 'BraA08t35287Z' => 'bra', 'BraA09t37334Z' => 'bra', 'BraA10t44801Z' => 'bra', 'BraSC39t46181Z' => 'bra', 'C01p28240' => 'bna', 'C01p37530' => 'bna', 'C03p31820' => 'bna', 'C04p24080' => 'bna', 'C04p25790' => 'bna', 'C04p56770' => 'bna', 'C05p09310' => 'bna', 'C09p21010' => 'bna', 'C09p67560' => 'bna', 'CAN.G1324.7' => 'can', 'CAN.G1358.10' => 'can', 'CAN.G1550.2' => 'can', 'CAN.G186.56' => 'can', 'CAN.G1965.1' => 'can', 'CAN.G645.15' => 'can', 'CAN.G798.26' => 'can', 'CAN.G798.27' => 'can', 'CAN.G798.29' => 'can', 'CAN.G919.31' => 'can', 'CANSAT11G0133' => 'cansat', 'CANSAT11G1171' => 'cansat', 'CANSAT11G2056' => 'cansat', 'CANSAT56G1202' => 'cansat', 'CANSAT56G1514' => 'cansat', 'CANSAT78G0455' => 'cansat', 'CARHR011190' => 'chi', 'CARHR051980' => 'chi', 'CARHR120170' => 'chi', 'CARHR203310' => 'chi', 'CARHR221490' => 'chi', 'Carub.0001s1054' => 'cru', 'Carub.0002s0431' => 'cru', 'Carub.0004s0818' => 'cru', 'Carub.0006s0846' => 'cru', 'Carub.0007s2722' => 'cru', 'Ca_00058_v3' => 'car', 'Ca_17831_v3' => 'car', 'Ca_19408_v3' => 'car', 'Ca_24397_v3' => 'car', 'Ca_25664_v3' => 'car', 'CBR_g21818' => 'cbr', 'CBR_g31195' => 'cbr', 'CBR_g32282' => 'cbr', 'CBR_g39599' => 'cbr', 'CBR_g49410' => 'cbr', 'Cc01_g09120' => 'ccan', 'Cc01_g09130' => 'ccan', 'Cc02_g09630' => 'ccan', 'Cc02_g22810' => 'ccan', 'Cc03_g03810' => 'ccan', 'CDE02G3718' => 'cde', 'CDE04G3183' => 'cde', 'CDE07G1046' => 'cde', 'CDE08G0480' => 'cde', 'Cfa005493' => 'cfa', 'Cfa010312' => 'cfa', 'Cfa015648' => 'cfa', 'Ciclev10002793m.g' => 'ccl', 'Ciclev10003356m.g' => 'ccl', 'Ciclev10006141m.g' => 'ccl', 'Ciclev10016676m.g' => 'ccl', 'Ciclev10017081m.g' => 'ccl', 'Ciclev10029499m.g' => 'ccl', 'CiPaw.01G166300' => 'cil', 'CiPaw.06G145600' => 'cil', 'CiPaw.13G040100' => 'cil', 'CiPaw.13G135800' => 'cil', 'ClCG01G012230' => 'cla', 'ClCG05G009510' => 'cla', 'ClCG08G008270' => 'cla', 'COL.COLO4_11763' => 'col', 'COL.COLO4_19876' => 'col', 'COL.COLO4_21481' => 'col', 'Cpa.g.sc118.34' => 'cpa', 'Cpa.g.sc32.13' => 'cpa', 'Cpa.g.sc58.103' => 'cpa', 'Cre03.g183850' => 'cre', 'Cre06.g306350' => 'cre', 'Cre07.g334800' => 'cre', 'Cre12.g487900' => 'cre', 'Cre14.g626700' => 'cre', 'Cre16.g658400' => 'cre', 'Cre17.g700950' => 'cre', 'CsaV3_1G014830' => 'csa', 'CsaV3_3G013320' => 'csa', 'CsaV3_3G019210' => 'csa', 'CsaV3_3G019220' => 'csa', 'CsaV3_6G004230' => 'csa', 'CSS0003773' => 'camsi', 'CSS0004563' => 'camsi', 'CSS0013949' => 'camsi', 'CSS0025971' => 'camsi', 'CSS0028570' => 'camsi', 'CSS0033127' => 'camsi', 'CSS0036051' => 'camsi', 'CSS0040087' => 'camsi', 'CSS0043179' => 'camsi', 'DCAR_006161' => 'dca', 'DCAR_010351' => 'dca', 'DCAR_012197' => 'dca', 'DCAR_024162' => 'dca', 'Dinv01030' => 'din', 'Dinv10924' => 'din', 'Dinv11835' => 'din', 'Dinv22841' => 'din', 'Dinv42553' => 'din', 'Duzib052G0560' => 'dzi', 'Duzib132G0389' => 'dzi', 'Duzib150G1181' => 'dzi', 'Duzib168G0623' => 'dzi', 'Duzib170G1036' => 'dzi', 'Duzib212G0200' => 'dzi', 'Duzib248G0194' => 'dzi', 'ECA232G2193' => 'eca', 'ECA233G0302' => 'eca', 'ECA234G2813' => 'eca', 'ECA234G4866' => 'eca', 'ECA240G3932' => 'eca', 'ECA248G0385' => 'eca', 'EL10Ac2g04781' => 'bvu', 'EL10Ac3g06445' => 'bvu', 'EL10Ac7g15825' => 'bvu', 'EL10Ac8g18550' => 'bvu', 'Eucgr.B03849' => 'egr', 'Eucgr.I02744' => 'egr', 'Eucgr.J00264' => 'egr', 'Eucgr.J00493' => 'egr', 'FAN04G2181' => 'fan', 'FAN07G2666' => 'fan', 'FAN11G0024' => 'fan', 'FAN12G1105' => 'fan', 'FAN13G0302' => 'fan', 'FAN15G2781' => 'fan', 'FAN16G1274' => 'fan', 'FAN17G2988' => 'fan', 'FAN18G2621' => 'fan', 'FAN21G0013' => 'fan', 'FAN22G1211' => 'fan', 'FAN25G3626' => 'fan', 'FvH4_2g09491' => 'fve', 'FvH4_3g24910' => 'fve', 'FvH4_4g15630' => 'fve', 'FvH4_5g28820' => 'fve', 'Glyma.01G238000' => 'gma', 'Glyma.05G168400' => 'gma', 'Glyma.08G126800' => 'gma', 'Glyma.08G188500' => 'gma', 'Glyma.10G278900' => 'gma', 'Glyma.11G005700' => 'gma', 'Glyma.11G183300' => 'gma', 'Glyma.12G089200' => 'gma', 'Glyma.12G169400' => 'gma', 'Glyma.12G169500' => 'gma', 'Glyma.12G169600' => 'gma', 'Glyma.20G110800' => 'gma', 'Gohir.A03G192900' => 'ghi', 'Gohir.A03G193000' => 'ghi', 'Gohir.A05G080700' => 'ghi', 'Gohir.A09G216000' => 'ghi', 'Gohir.A12G027700' => 'ghi', 'Gohir.A13G036200' => 'ghi', 'Gohir.A13G222600' => 'ghi', 'Gohir.D02G213900' => 'ghi', 'Gohir.D02G214000' => 'ghi', 'Gohir.D05G083700' => 'ghi', 'Gohir.D05G083800' => 'ghi', 'Gohir.D05G083850' => 'ghi', 'Gohir.D08G015400' => 'ghi', 'Gohir.D09G218400' => 'ghi', 'Gohir.D12G027100' => 'ghi', 'Gohir.D13G034500' => 'ghi', 'Gohir.D13G227400' => 'ghi', 'Gorai.005G241800' => 'gra', 'Gorai.005G241900' => 'gra', 'Gorai.006G239400' => 'gra', 'Gorai.008G027600' => 'gra', 'Gorai.009G085400' => 'gra', 'Gorai.009G085500' => 'gra', 'Gorai.013G039000' => 'gra', 'Gorai.013G194800' => 'gra', 'Gorai.013G257900' => 'gra', 'GSVIVG01000982001' => 'vvi', 'GSVIVG01017981001' => 'vvi', 'HanXRQChr01g0024061' => 'han', 'HanXRQChr09g0247831' => 'han', 'HanXRQChr10g0294611' => 'han', 'HanXRQChr10g0294621' => 'han', 'HanXRQChr11g0346821' => 'han', 'HanXRQChr13g0397461' => 'han', 'HanXRQChr16g0513651' => 'han', 'HanXRQChr16g0513701' => 'han', 'Haze_00897' => 'cav', 'Haze_01745' => 'cav', 'Haze_02486' => 'cav', 'Haze_02487' => 'cav', 'Haze_23374' => 'cav', 'Hma1.2p1_0578F.1_g182520' => 'hma', 'Hma1.2p1_0602F.1_g187350' => 'hma', 'Hma1.2p1_0602F.1_g187360' => 'hma', 'Hma1.2p1_0874F.1_g231320' => 'hma', 'Hma1.2p1_1197F.1_g266210' => 'hma', 'Hma1.2p1_1197F.1_g266220' => 'hma', 'Hma1.2p1_2167F.1_g315895' => 'hma', 'Hma1.2p1_2190F.1_g316640' => 'hma', 'Hma1.2p1_3645F.1_g337153' => 'hma', 'HPP92_004907' => 'vpl', 'HPP92_012134' => 'vpl', 'HPP92_025136' => 'vpl', 'HPP92_026087' => 'vpl', 'Hund06782' => 'sun', 'Hund06784' => 'sun', 'Lalb_Chr01g0004861' => 'lal', 'Lalb_Chr02g0140591' => 'lal', 'Lalb_Chr02g0140611' => 'lal', 'Lalb_Chr03g0028101' => 'lal', 'Lalb_Chr07g0185791' => 'lal', 'Lalb_Chr12g0204491' => 'lal', 'Lalb_Chr13g0295671' => 'lal', 'Lalb_Chr19g0136461' => 'lal', 'Lalb_Chr21g0309191' => 'lal', 'Lj1g0028158' => 'lja', 'Lj1P236T38' => 'lonja', 'Lj2C32G2' => 'lonja', 'Lj2P944T8' => 'lonja', 'Lj2P963T15' => 'lonja', 'Lj3g0011788' => 'lja', 'Lj4g0025027' => 'lja', 'Lj5P255T36' => 'lonja', 'Lj6g0018866' => 'lja', 'Lj6P608T31' => 'lonja', 'LjContig00408g0008879' => 'lja', 'Lsat_1_v5_gn_5_105820' => 'lsa', 'Lsat_1_v5_gn_6_38800' => 'lsa', 'Lsat_1_v5_gn_7_67141' => 'lsa', 'Manes.04G003400' => 'mes', 'Manes.07G020000' => 'mes', 'Manes.07G020100' => 'mes', 'Manes.07G020150' => 'mes', 'Manes.10G061500' => 'mes', 'Manes.10G123200' => 'mes', 'Manes.11G161900' => 'mes', 'Manes.15G029300' => 'mes', 'Mapoly0071s0018' => 'mpo', 'Mapoly0082s0023' => 'mpo', 'Mapoly3477s0001' => 'mpo', 'MBI05_g31233_MAGBIO' => 'mbi', 'MBI09_g05946_MAGBIO' => 'mbi', 'MBI09_g05947_MAGBIO' => 'mbi', 'MBI17_g08346_MAGBIO' => 'mbi', 'MCO04G038' => 'mco', 'MCO09G370' => 'mco', 'MCO13G605' => 'mco', 'MD00G1075500' => 'mdo', 'MD03G1144300' => 'mdo', 'MD08G1236800' => 'mdo', 'MD13G1193300' => 'mdo', 'MD15G1428700' => 'mdo', 'Medtr1g112030' => 'mtr', 'Medtr1g112050' => 'mtr', 'Medtr2g006290' => 'mtr', 'Medtr2g086510' => 'mtr', 'Medtr4g053120' => 'mtr', 'Medtr5g006320' => 'mtr', 'Medtr8g088720' => 'mtr', 'MELO3C004712.2' => 'cme', 'MELO3C006533.2' => 'cme', 'MELO3C019438.2' => 'cme', 'MELO3C019440.2' => 'cme', 'MELO3C019441.2' => 'cme', 'MELO3C019895.2' => 'cme', 'Migut.B00811' => 'egut', 'Migut.D02447' => 'egut', 'Migut.F00875' => 'egut', 'Migut.N00186' => 'egut', 'Migut.N01051' => 'egut', 'Migut.N02491' => 'egut', 'Migut.O00784' => 'egut', 'MSTRG.12367' => 'ama', 'MSTRG.18756' => 'ama', 'MSTRG.21042' => 'ama', 'Nitab4.5_0000559g0040' => 'nta', 'Nitab4.5_0000667g0190' => 'nta', 'Nitab4.5_0000755g0160' => 'nta', 'Nitab4.5_0001216g0080' => 'nta', 'Nitab4.5_0004069g0040' => 'nta', 'Nitab4.5_0004129g0010' => 'nta', 'Nitab4.5_0005744g0030' => 'nta', 'Nitab4.5_0006996g0030' => 'nta', 'Nitab4.5_0008971g0040' => 'nta', 'Nitab4.5_0009769g0020' => 'nta', 'Nitab4.5_0009833g0010' => 'nta', 'Nitab4.5_0013140g0020' => 'nta', 'Nn003s41376' => 'nnu', 'Nn1g01857' => 'nnu', 'Nn1g03611' => 'nnu', 'Nn1g06853' => 'nnu', 'Nn3g18360' => 'nnu', 'Nn4g26328' => 'nnu', 'Nn5g27531' => 'nnu', 'Nn6g34899' => 'nnu', 'Nn7g36299' => 'nnu', 'Oeu021485.1' => 'oeu', 'Oeu022433.1' => 'oeu', 'Oeu032111.1' => 'oeu', 'Oeu051608.1' => 'oeu', 'Os01g0860601' => 'osa', 'Os03g0659200' => 'osa', 'Os03g0835900' => 'osa', 'Os04g0412200' => 'osa', 'Os05g0443500' => 'osa', 'Os07g0251500' => 'osa', 'Os08g0104600' => 'osa', 'Peaxi162Scf00003g00047' => 'pax', 'Peaxi162Scf00003g00052' => 'pax', 'Peaxi162Scf00003g00394' => 'pax', 'Peaxi162Scf00091g00621' => 'pax', 'Peaxi162Scf00152g00146' => 'pax', 'Peaxi162Scf00173g00025' => 'pax', 'Peaxi162Scf00195g00102' => 'pax', 'Peaxi162Scf00402g00013' => 'pax', 'Peaxi162Scf00519g00618' => 'pax', 'PGR004G2838' => 'pgr', 'PGR044G2275' => 'pgr', 'PGR102G1377' => 'pgr', 'PGR119G1245' => 'pgr', 'PGR142G4449' => 'pgr', 'PGSC0003DMG400004532' => 'stu', 'PGSC0003DMG400011950' => 'stu', 'PGSC0003DMG400023391' => 'stu', 'PGSC0003DMG400023985' => 'stu', 'PGSC0003DMG400026360' => 'stu', 'PGSC0003DMG400035711' => 'stu', 'PGSC0003DMG400037286' => 'stu', 'PGSC0003DMG402005881' => 'stu', 'Phvul.002G045400' => 'pvu', 'Phvul.006G216600' => 'pvu', 'Phvul.006G216700' => 'pvu', 'Phvul.006G216800' => 'pvu', 'Phvul.007G022500' => 'pvu', 'Phvul.011G094400' => 'pvu', 'Potri.001G470700' => 'ptr', 'Potri.003G015200' => 'ptr', 'Potri.004G202500' => 'ptr', 'Potri.004G218400' => 'ptr', 'Potri.008G020100' => 'ptr', 'Potri.008G153200' => 'ptr', 'Potri.009G163800' => 'ptr', 'Potri.010G087300' => 'ptr', 'Potri.010G239100' => 'ptr', 'Pp3c10_16100' => 'ppa', 'Pp3c10_16880' => 'ppa', 'Pp3c16_6230' => 'ppa', 'Pp3c17_18910' => 'ppa', 'Pp3c3_22119' => 'ppa', 'Pp3c3_22140' => 'ppa', 'Pp3c4_8159' => 'ppa', 'Pp3c4_8171' => 'ppa', 'Pp3c4_8330' => 'ppa', 'PRCOL_00004098' => 'pco', 'Prupe.1G013900' => 'ppe', 'Prupe.1G226300' => 'ppe', 'Prupe.1G573600' => 'ppe', 'Prupe.6G130100' => 'ppe', 'Psat3g090040' => 'psa', 'Psat4g210440' => 'psa', 'Psat6g231040' => 'psa', 'Psat6g231080' => 'psa', 'Psat7g063000' => 'psa', 'Psat7g188000' => 'psa', 'Psat7g188040' => 'psa', 'PSO017G0206' => 'pso', 'PSO170G0501' => 'pso', 'PSO170G6422' => 'pso', 'PSO210G7739' => 'pso', 'PSO339G1808' => 'pso', 'PSO339G6135' => 'pso', 'PSO384G0010' => 'pso', 'PSO384G0964' => 'pso', 'PSO761G0050' => 'pso', 'PSO782G4085' => 'pso', 'QL01p012264' => 'qlo', 'QL02p099491' => 'qlo', 'QL03p033868' => 'qlo', 'QL04p046678' => 'qlo', 'QL06p002448' => 'qlo', 'RcHm_v2.0_Chr4g0416181' => 'rch', 'RcHm_v2.0_Chr5g0044701' => 'rch', 'RcHm_v2.0_Chr6g0265781' => 'rch', 'RcHm_v2.0_Chr7g0221031' => 'rch', 'Rhsim04G0202000' => 'rsi', 'Rhsim11G0127300' => 'rsi', 'Rhsim13G0111800' => 'rsi', 'Sabra01G0165600' => 'sbr', 'Sabra03G0008300' => 'sbr', 'Sabra04G0136900' => 'sbr', 'Sabra08G0013400' => 'sbr', 'Sabra08G0116800' => 'sbr', 'Sabra09G0128000' => 'sbr', 'Sabra10G0055500' => 'sbr', 'Sabra10G0073300' => 'sbr', 'SalBow3G0385' => 'sbo', 'SalBow3G1119' => 'sbo', 'SalBow3G2005' => 'sbo', 'SalBow6G2563' => 'sbo', 'SalBow6G6386' => 'sbo', 'Sc06g0008800' => 'sci', 'Sc07g0004950' => 'sci', 'Sc09g0005340' => 'sci', 'Sc13g0004410' => 'sci', 'Sc21g0007090' => 'sci', 'Sed0009285' => 'sed', 'Sed0017583' => 'sed', 'Sed0019699' => 'sed', 'Sed0023107' => 'sed', 'SEGI_10916' => 'sgi', 'SEGI_16217' => 'sgi', 'SEGI_19466' => 'sgi', 'SEGI_41115' => 'sgi', 'SGA_v2.0_scaffold111G31534' => 'sas', 'SGA_v2.0_scaffold22G09864' => 'sas', 'SGA_v2.0_scaffold338G49219' => 'sas', 'SGA_v2.0_scaffold92G28298' => 'sas', 'SMO119G0064' => 'smo', 'SMO223G0038' => 'smo', 'SMO347G0584' => 'smo', 'SMO351G0010' => 'smo', 'SMO356G0404' => 'smo', 'Solyc01g103920.3' => 'sly', 'Solyc04g009710.2' => 'sly', 'Solyc05g055280.2' => 'sly', 'Solyc10g044520.3' => 'sly', 'Solyc10g075160.1' => 'sly', 'Solyc11g006910.3' => 'sly', 'Solyc11g068430.3' => 'sly', 'Sopen01g046310' => 'spe', 'Sopen03g001200' => 'spe', 'Sopen04g004830' => 'spe', 'Sopen05g033720' => 'spe', 'Sopen06g030740' => 'spe', 'Sopen10g013090' => 'spe', 'Sopen10g027630' => 'spe', 'Sopen10g027640' => 'spe', 'Sopen11g002820' => 'spe', 'Sopen11g027140' => 'spe', 'Sp1g09680' => 'spa', 'Sp2g03630' => 'spa', 'Sp4g10320' => 'spa', 'Sp6g33400' => 'spa', 'Sp7g13030' => 'spa', 'TAR365G0317' => 'tar', 'TAR376G0979' => 'tar', 'TAR623G1665' => 'tar', 'TAR633G2373' => 'tar', 'TAR636G1400' => 'tar', 'THA.LOC104800529' => 'tha', 'THA.LOC104808547' => 'tha', 'THA.LOC104809615' => 'tha', 'THA.LOC104815724' => 'tha', 'THA.LOC104818480' => 'tha', 'THA.LOC104819179' => 'tha', 'THA.LOC104822270' => 'tha', 'THA.LOC104826425' => 'tha', 'Thecc.02G089700' => 'tca', 'Thecc.04G232300' => 'tca', 'Thecc.09G283400' => 'tca', 'Thhalv10009020m.g' => 'esa', 'Thhalv10015506m.g' => 'esa', 'Thhalv10017364m.g' => 'esa', 'Thhalv10023742m.g' => 'esa', 'Thhalv10026483m.g' => 'esa', 'TPR.G17232' => 'tpr', 'TPR.G2133' => 'tpr', 'TPR.G2498' => 'tpr', 'TPR.G31942' => 'tpr', 'TPR.G37877' => 'tpr', 'TPR.G4571' => 'tpr', 'TWI14G1113' => 'twi', 'TWI15G0426' => 'twi', 'TWI31G1005' => 'twi', 'TWI38G0513' => 'twi', 'TWI38G1484' => 'twi', 'TWI73G1098' => 'twi', 'unitig_26.g10519' => 'ugi', 'unitig_736.g22395' => 'ugi', 'unitig_747.g21234' => 'ugi', 'unitig_747.g21942' => 'ugi', 'vmacro14351' => 'vma', 'VMungo0540G0082' => 'vmu', 'VMungo0540G0405' => 'vmu', 'VMungo0540G1486' => 'vmu', 'VMungo0540G1692' => 'vmu', 'VMungo0720G2473' => 'vmu', 'VMungo1127G1562' => 'vmu', 'VMungo1215G1918' => 'vmu', 'Zm00001eb052650' => 'zma', 'Zm00001eb063710' => 'zma', 'Zm00001eb083950' => 'zma', 'Zm00001eb174420' => 'zma', 'Zm00001eb260140' => 'zma', 'Zm00001eb260150' => 'zma', 'Zm00001eb260160' => 'zma', 'Zm00001eb348290' => 'zma', 'Zm00001eb366870' => 'zma', 'Zm00001eb421930' => 'zma' ) $gf_id = 'HOM05D001025' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001025' ) $data_identifier = 'HOM05D001025' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 19, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 2, 'amhyb' => (int) 4, 'aly' => (int) 4, 'aox' => (int) 4, 'arhy' => (int) 3, 'ath' => (int) 5, 'atr' => (int) 4, 'acertr' => (int) 3, 'cqu' => (int) 7, 'bca' => (int) 17, 'bol' => (int) 10, 'bra' => (int) 9, 'can' => (int) 10, 'cansat' => (int) 6, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 5, 'cbr' => (int) 5, 'ccan' => (int) 5, 'cde' => (int) 4, 'cfa' => (int) 3, 'ccl' => (int) 6, 'cil' => (int) 4, 'cla' => (int) 3, 'col' => (int) 3, 'cpa' => (int) 3, 'cre' => (int) 7, 'csa' => (int) 5, 'camsi' => (int) 9, 'dca' => (int) 4, 'din' => (int) 5, 'dzi' => (int) 7, 'eca' => (int) 6, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 12, 'fve' => (int) 4, 'gma' => (int) 12, 'ghi' => (int) 17, 'gra' => (int) 9, 'vvi' => (int) 2, 'han' => (int) 8, 'cav' => (int) 5, 'hma' => (int) 9, 'vpl' => (int) 4, 'sun' => (int) 2, 'lal' => (int) 9, 'lja' => (int) 5, 'lonja' => (int) 6, 'lsa' => (int) 3, 'mes' => (int) 8, 'mpo' => (int) 3, 'mbi' => (int) 4, 'mco' => (int) 3, 'mdo' => (int) 5, 'mtr' => (int) 7, 'cme' => (int) 6, 'egut' => (int) 7, 'ama' => (int) 3, 'nta' => (int) 12, 'nnu' => (int) 9, 'oeu' => (int) 4, 'osa' => (int) 7, 'pax' => (int) 9, 'pgr' => (int) 5, 'stu' => (int) 8, 'pvu' => (int) 6, 'ptr' => (int) 9, 'ppa' => (int) 9, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 7, 'pso' => (int) 10, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 3, 'sbr' => (int) 8, 'sbo' => (int) 5, 'sci' => (int) 5, 'sed' => (int) 4, 'sgi' => (int) 4, 'sas' => (int) 4, 'smo' => (int) 5, 'sly' => (int) 7, 'spe' => (int) 10, 'spa' => (int) 5, 'tar' => (int) 5, 'tha' => (int) 8, 'tca' => (int) 3, 'esa' => (int) 5, 'tpr' => (int) 6, 'twi' => (int) 6, 'ugi' => (int) 4, 'vma' => (int) 1, 'vmu' => (int) 7, 'zma' => (int) 10 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb421930' $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' => 'HOM05D001025', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '592', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p22650' => 'bna', 'A01p29720' => 'bna', 'A03p26560' => 'bna', 'A03p68820' => 'bna', 'A04p20980' => 'bna', 'A06p07730' => 'bna', 'A07p18260' => 'bna', 'A08p33710' => 'bna', 'A09p16970' => 'bna', 'A10p27490' => 'bna', 'Aa31LG1G17300' => 'aar', 'Aa31LG1G3910' => 'aar', 'Aa31LG2G9630' => 'aar', 'Aa31LG5G8360' => 'aar', 'Aa31LG9G2410' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4699' => 'aag', 'Actinidia23512' => 'ach', 'Actinidia37080' => 'ach', 'Ah.01g020380' => 'amhyb', 'Ah.08g215710' => 'amhyb', 'Ah.09g225110' => 'amhyb', 'Ah.10g036680' => 'amhyb', 'AL1G21940' => 'aly', 'AL2G15540' => 'aly', 'AL4G21520' => 'aly', 'AL7G40960' => 'aly', 'Aqoxy2G01191' => 'aox', 'Aqoxy2G03393' => 'aox', 'Aqoxy4G02775' => 'aox', 'Aqoxy6G00058' => 'aox', 'arahy.Tifrunner.gnm1.ann1.9X74H2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CW3FX9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R485W7' => 'arhy', 'AT1G10960' => 'ath', 'AT1G60950' => 'ath', 'AT2G27510' => 'ath', 'AT4G14890' => 'ath', 'AT5G10000' => 'ath', 'ATR0665G624' => 'atr', 'ATR0697G138' => 'atr', 'ATR0776G046' => 'atr', 'ATR1134G135' => 'atr', 'Atru.chr12.1025' => 'acertr', 'Atru.chr3.3241' => 'acertr', 'Atru.chr4.2460' => 'acertr', 'AUR62007427' => 'cqu', 'AUR62010960' => 'cqu', 'AUR62012201' => 'cqu', 'AUR62021470' => 'cqu', 'AUR62022834' => 'cqu', 'AUR62033635' => 'cqu', 'AUR62036186' => 'cqu', 'BcaB01g03077' => 'bca', 'BcaB02g10093' => 'bca', 'BcaB04g20295' => 'bca', 'BcaB06g28147' => 'bca', 'BcaB07g31253' => 'bca', 'BcaC01g04946' => 'bca', 'BcaC02g10614' => 'bca', 'BcaC02g10885' => 'bca', 'BcaC04g19356' => 'bca', 'BcaC04g22297' => 'bca', 'BcaC05g24977' => 'bca', 'BcaC06g31823' => 'bca', 'BcaC07g38633' => 'bca', 'BcaC09g49353' => 'bca', 'BcaC09g50168' => 'bca', 'BcaNung00322' => 'bca', 'BcaNung04769' => 'bca', 'BolC1t02753H' => 'bol', 'BolC1t03721H' => 'bol', 'BolC3t15525H' => 'bol', 'BolC4t23903H' => 'bol', 'BolC4t24231H' => 'bol', 'BolC4t27209H' => 'bol', 'BolC5t29671H' => 'bol', 'BolC8t49044H' => 'bol', 'BolC9t54999H' => 'bol', 'BolC9t59517H' => 'bol', 'BraA01t02178Z' => 'bra', 'BraA01t03099Z' => 'bra', 'BraA03t11867Z' => 'bra', 'BraA04t17667Z' => 'bra', 'BraA07t29542Z' => 'bra', 'BraA08t35287Z' => 'bra', 'BraA09t37334Z' => 'bra', 'BraA10t44801Z' => 'bra', 'BraSC39t46181Z' => 'bra', 'C01p28240' => 'bna', 'C01p37530' => 'bna', 'C03p31820' => 'bna', 'C04p24080' => 'bna', 'C04p25790' => 'bna', 'C04p56770' => 'bna', 'C05p09310' => 'bna', 'C09p21010' => 'bna', 'C09p67560' => 'bna', 'CAN.G1324.7' => 'can', 'CAN.G1358.10' => 'can', 'CAN.G1550.2' => 'can', 'CAN.G186.56' => 'can', 'CAN.G1965.1' => 'can', 'CAN.G645.15' => 'can', 'CAN.G798.26' => 'can', 'CAN.G798.27' => 'can', 'CAN.G798.29' => 'can', 'CAN.G919.31' => 'can', 'CANSAT11G0133' => 'cansat', 'CANSAT11G1171' => 'cansat', 'CANSAT11G2056' => 'cansat', 'CANSAT56G1202' => 'cansat', 'CANSAT56G1514' => 'cansat', 'CANSAT78G0455' => 'cansat', 'CARHR011190' => 'chi', 'CARHR051980' => 'chi', 'CARHR120170' => 'chi', 'CARHR203310' => 'chi', 'CARHR221490' => 'chi', 'Carub.0001s1054' => 'cru', 'Carub.0002s0431' => 'cru', 'Carub.0004s0818' => 'cru', 'Carub.0006s0846' => 'cru', 'Carub.0007s2722' => 'cru', 'Ca_00058_v3' => 'car', 'Ca_17831_v3' => 'car', 'Ca_19408_v3' => 'car', 'Ca_24397_v3' => 'car', 'Ca_25664_v3' => 'car', 'CBR_g21818' => 'cbr', 'CBR_g31195' => 'cbr', 'CBR_g32282' => 'cbr', 'CBR_g39599' => 'cbr', 'CBR_g49410' => 'cbr', 'Cc01_g09120' => 'ccan', 'Cc01_g09130' => 'ccan', 'Cc02_g09630' => 'ccan', 'Cc02_g22810' => 'ccan', 'Cc03_g03810' => 'ccan', 'CDE02G3718' => 'cde', 'CDE04G3183' => 'cde', 'CDE07G1046' => 'cde', 'CDE08G0480' => 'cde', 'Cfa005493' => 'cfa', 'Cfa010312' => 'cfa', 'Cfa015648' => 'cfa', 'Ciclev10002793m.g' => 'ccl', 'Ciclev10003356m.g' => 'ccl', 'Ciclev10006141m.g' => 'ccl', 'Ciclev10016676m.g' => 'ccl', 'Ciclev10017081m.g' => 'ccl', 'Ciclev10029499m.g' => 'ccl', 'CiPaw.01G166300' => 'cil', 'CiPaw.06G145600' => 'cil', 'CiPaw.13G040100' => 'cil', 'CiPaw.13G135800' => 'cil', 'ClCG01G012230' => 'cla', 'ClCG05G009510' => 'cla', 'ClCG08G008270' => 'cla', 'COL.COLO4_11763' => 'col', 'COL.COLO4_19876' => 'col', 'COL.COLO4_21481' => 'col', 'Cpa.g.sc118.34' => 'cpa', 'Cpa.g.sc32.13' => 'cpa', 'Cpa.g.sc58.103' => 'cpa', 'Cre03.g183850' => 'cre', 'Cre06.g306350' => 'cre', 'Cre07.g334800' => 'cre', 'Cre12.g487900' => 'cre', 'Cre14.g626700' => 'cre', 'Cre16.g658400' => 'cre', 'Cre17.g700950' => 'cre', 'CsaV3_1G014830' => 'csa', 'CsaV3_3G013320' => 'csa', 'CsaV3_3G019210' => 'csa', 'CsaV3_3G019220' => 'csa', 'CsaV3_6G004230' => 'csa', 'CSS0003773' => 'camsi', 'CSS0004563' => 'camsi', 'CSS0013949' => 'camsi', 'CSS0025971' => 'camsi', 'CSS0028570' => 'camsi', 'CSS0033127' => 'camsi', 'CSS0036051' => 'camsi', 'CSS0040087' => 'camsi', 'CSS0043179' => 'camsi', 'DCAR_006161' => 'dca', 'DCAR_010351' => 'dca', 'DCAR_012197' => 'dca', 'DCAR_024162' => 'dca', 'Dinv01030' => 'din', 'Dinv10924' => 'din', 'Dinv11835' => 'din', 'Dinv22841' => 'din', 'Dinv42553' => 'din', 'Duzib052G0560' => 'dzi', 'Duzib132G0389' => 'dzi', 'Duzib150G1181' => 'dzi', 'Duzib168G0623' => 'dzi', 'Duzib170G1036' => 'dzi', 'Duzib212G0200' => 'dzi', 'Duzib248G0194' => 'dzi', 'ECA232G2193' => 'eca', 'ECA233G0302' => 'eca', 'ECA234G2813' => 'eca', 'ECA234G4866' => 'eca', 'ECA240G3932' => 'eca', 'ECA248G0385' => 'eca', 'EL10Ac2g04781' => 'bvu', 'EL10Ac3g06445' => 'bvu', 'EL10Ac7g15825' => 'bvu', 'EL10Ac8g18550' => 'bvu', 'Eucgr.B03849' => 'egr', 'Eucgr.I02744' => 'egr', 'Eucgr.J00264' => 'egr', 'Eucgr.J00493' => 'egr', 'FAN04G2181' => 'fan', 'FAN07G2666' => 'fan', 'FAN11G0024' => 'fan', 'FAN12G1105' => 'fan', 'FAN13G0302' => 'fan', 'FAN15G2781' => 'fan', 'FAN16G1274' => 'fan', 'FAN17G2988' => 'fan', 'FAN18G2621' => 'fan', 'FAN21G0013' => 'fan', 'FAN22G1211' => 'fan', 'FAN25G3626' => 'fan', 'FvH4_2g09491' => 'fve', 'FvH4_3g24910' => 'fve', 'FvH4_4g15630' => 'fve', 'FvH4_5g28820' => 'fve', 'Glyma.01G238000' => 'gma', 'Glyma.05G168400' => 'gma', 'Glyma.08G126800' => 'gma', 'Glyma.08G188500' => 'gma', 'Glyma.10G278900' => 'gma', 'Glyma.11G005700' => 'gma', 'Glyma.11G183300' => 'gma', 'Glyma.12G089200' => 'gma', 'Glyma.12G169400' => 'gma', 'Glyma.12G169500' => 'gma', 'Glyma.12G169600' => 'gma', 'Glyma.20G110800' => 'gma', 'Gohir.A03G192900' => 'ghi', 'Gohir.A03G193000' => 'ghi', 'Gohir.A05G080700' => 'ghi', 'Gohir.A09G216000' => 'ghi', 'Gohir.A12G027700' => 'ghi', 'Gohir.A13G036200' => 'ghi', 'Gohir.A13G222600' => 'ghi', 'Gohir.D02G213900' => 'ghi', 'Gohir.D02G214000' => 'ghi', 'Gohir.D05G083700' => 'ghi', 'Gohir.D05G083800' => 'ghi', 'Gohir.D05G083850' => 'ghi', 'Gohir.D08G015400' => 'ghi', 'Gohir.D09G218400' => 'ghi', 'Gohir.D12G027100' => 'ghi', 'Gohir.D13G034500' => 'ghi', 'Gohir.D13G227400' => 'ghi', 'Gorai.005G241800' => 'gra', 'Gorai.005G241900' => 'gra', 'Gorai.006G239400' => 'gra', 'Gorai.008G027600' => 'gra', 'Gorai.009G085400' => 'gra', 'Gorai.009G085500' => 'gra', 'Gorai.013G039000' => 'gra', 'Gorai.013G194800' => 'gra', 'Gorai.013G257900' => 'gra', 'GSVIVG01000982001' => 'vvi', 'GSVIVG01017981001' => 'vvi', 'HanXRQChr01g0024061' => 'han', 'HanXRQChr09g0247831' => 'han', 'HanXRQChr10g0294611' => 'han', 'HanXRQChr10g0294621' => 'han', 'HanXRQChr11g0346821' => 'han', 'HanXRQChr13g0397461' => 'han', 'HanXRQChr16g0513651' => 'han', 'HanXRQChr16g0513701' => 'han', 'Haze_00897' => 'cav', 'Haze_01745' => 'cav', 'Haze_02486' => 'cav', 'Haze_02487' => 'cav', 'Haze_23374' => 'cav', 'Hma1.2p1_0578F.1_g182520' => 'hma', 'Hma1.2p1_0602F.1_g187350' => 'hma', 'Hma1.2p1_0602F.1_g187360' => 'hma', 'Hma1.2p1_0874F.1_g231320' => 'hma', 'Hma1.2p1_1197F.1_g266210' => 'hma', 'Hma1.2p1_1197F.1_g266220' => 'hma', 'Hma1.2p1_2167F.1_g315895' => 'hma', 'Hma1.2p1_2190F.1_g316640' => 'hma', 'Hma1.2p1_3645F.1_g337153' => 'hma', 'HPP92_004907' => 'vpl', 'HPP92_012134' => 'vpl', 'HPP92_025136' => 'vpl', 'HPP92_026087' => 'vpl', 'Hund06782' => 'sun', 'Hund06784' => 'sun', 'Lalb_Chr01g0004861' => 'lal', 'Lalb_Chr02g0140591' => 'lal', 'Lalb_Chr02g0140611' => 'lal', 'Lalb_Chr03g0028101' => 'lal', 'Lalb_Chr07g0185791' => 'lal', 'Lalb_Chr12g0204491' => 'lal', 'Lalb_Chr13g0295671' => 'lal', 'Lalb_Chr19g0136461' => 'lal', 'Lalb_Chr21g0309191' => 'lal', 'Lj1g0028158' => 'lja', 'Lj1P236T38' => 'lonja', 'Lj2C32G2' => 'lonja', 'Lj2P944T8' => 'lonja', 'Lj2P963T15' => 'lonja', 'Lj3g0011788' => 'lja', 'Lj4g0025027' => 'lja', 'Lj5P255T36' => 'lonja', 'Lj6g0018866' => 'lja', 'Lj6P608T31' => 'lonja', 'LjContig00408g0008879' => 'lja', 'Lsat_1_v5_gn_5_105820' => 'lsa', 'Lsat_1_v5_gn_6_38800' => 'lsa', 'Lsat_1_v5_gn_7_67141' => 'lsa', 'Manes.04G003400' => 'mes', 'Manes.07G020000' => 'mes', 'Manes.07G020100' => 'mes', 'Manes.07G020150' => 'mes', 'Manes.10G061500' => 'mes', 'Manes.10G123200' => 'mes', 'Manes.11G161900' => 'mes', 'Manes.15G029300' => 'mes', 'Mapoly0071s0018' => 'mpo', 'Mapoly0082s0023' => 'mpo', 'Mapoly3477s0001' => 'mpo', 'MBI05_g31233_MAGBIO' => 'mbi', 'MBI09_g05946_MAGBIO' => 'mbi', 'MBI09_g05947_MAGBIO' => 'mbi', 'MBI17_g08346_MAGBIO' => 'mbi', 'MCO04G038' => 'mco', 'MCO09G370' => 'mco', 'MCO13G605' => 'mco', 'MD00G1075500' => 'mdo', 'MD03G1144300' => 'mdo', 'MD08G1236800' => 'mdo', 'MD13G1193300' => 'mdo', 'MD15G1428700' => 'mdo', 'Medtr1g112030' => 'mtr', 'Medtr1g112050' => 'mtr', 'Medtr2g006290' => 'mtr', 'Medtr2g086510' => 'mtr', 'Medtr4g053120' => 'mtr', 'Medtr5g006320' => 'mtr', 'Medtr8g088720' => 'mtr', 'MELO3C004712.2' => 'cme', 'MELO3C006533.2' => 'cme', 'MELO3C019438.2' => 'cme', 'MELO3C019440.2' => 'cme', 'MELO3C019441.2' => 'cme', 'MELO3C019895.2' => 'cme', 'Migut.B00811' => 'egut', 'Migut.D02447' => 'egut', 'Migut.F00875' => 'egut', 'Migut.N00186' => 'egut', 'Migut.N01051' => 'egut', 'Migut.N02491' => 'egut', 'Migut.O00784' => 'egut', 'MSTRG.12367' => 'ama', 'MSTRG.18756' => 'ama', 'MSTRG.21042' => 'ama', 'Nitab4.5_0000559g0040' => 'nta', 'Nitab4.5_0000667g0190' => 'nta', 'Nitab4.5_0000755g0160' => 'nta', 'Nitab4.5_0001216g0080' => 'nta', 'Nitab4.5_0004069g0040' => 'nta', 'Nitab4.5_0004129g0010' => 'nta', 'Nitab4.5_0005744g0030' => 'nta', 'Nitab4.5_0006996g0030' => 'nta', 'Nitab4.5_0008971g0040' => 'nta', 'Nitab4.5_0009769g0020' => 'nta', 'Nitab4.5_0009833g0010' => 'nta', 'Nitab4.5_0013140g0020' => 'nta', 'Nn003s41376' => 'nnu', 'Nn1g01857' => 'nnu', 'Nn1g03611' => 'nnu', 'Nn1g06853' => 'nnu', 'Nn3g18360' => 'nnu', 'Nn4g26328' => 'nnu', 'Nn5g27531' => 'nnu', 'Nn6g34899' => 'nnu', 'Nn7g36299' => 'nnu', 'Oeu021485.1' => 'oeu', 'Oeu022433.1' => 'oeu', 'Oeu032111.1' => 'oeu', 'Oeu051608.1' => 'oeu', 'Os01g0860601' => 'osa', 'Os03g0659200' => 'osa', 'Os03g0835900' => 'osa', 'Os04g0412200' => 'osa', 'Os05g0443500' => 'osa', 'Os07g0251500' => 'osa', 'Os08g0104600' => 'osa', 'Peaxi162Scf00003g00047' => 'pax', 'Peaxi162Scf00003g00052' => 'pax', 'Peaxi162Scf00003g00394' => 'pax', 'Peaxi162Scf00091g00621' => 'pax', 'Peaxi162Scf00152g00146' => 'pax', 'Peaxi162Scf00173g00025' => 'pax', 'Peaxi162Scf00195g00102' => 'pax', 'Peaxi162Scf00402g00013' => 'pax', 'Peaxi162Scf00519g00618' => 'pax', 'PGR004G2838' => 'pgr', 'PGR044G2275' => 'pgr', 'PGR102G1377' => 'pgr', 'PGR119G1245' => 'pgr', 'PGR142G4449' => 'pgr', 'PGSC0003DMG400004532' => 'stu', 'PGSC0003DMG400011950' => 'stu', 'PGSC0003DMG400023391' => 'stu', 'PGSC0003DMG400023985' => 'stu', 'PGSC0003DMG400026360' => 'stu', 'PGSC0003DMG400035711' => 'stu', 'PGSC0003DMG400037286' => 'stu', 'PGSC0003DMG402005881' => 'stu', 'Phvul.002G045400' => 'pvu', 'Phvul.006G216600' => 'pvu', 'Phvul.006G216700' => 'pvu', 'Phvul.006G216800' => 'pvu', 'Phvul.007G022500' => 'pvu', 'Phvul.011G094400' => 'pvu', 'Potri.001G470700' => 'ptr', 'Potri.003G015200' => 'ptr', 'Potri.004G202500' => 'ptr', 'Potri.004G218400' => 'ptr', 'Potri.008G020100' => 'ptr', 'Potri.008G153200' => 'ptr', 'Potri.009G163800' => 'ptr', 'Potri.010G087300' => 'ptr', 'Potri.010G239100' => 'ptr', 'Pp3c10_16100' => 'ppa', 'Pp3c10_16880' => 'ppa', 'Pp3c16_6230' => 'ppa', 'Pp3c17_18910' => 'ppa', 'Pp3c3_22119' => 'ppa', 'Pp3c3_22140' => 'ppa', 'Pp3c4_8159' => 'ppa', 'Pp3c4_8171' => 'ppa', 'Pp3c4_8330' => 'ppa', 'PRCOL_00004098' => 'pco', 'Prupe.1G013900' => 'ppe', 'Prupe.1G226300' => 'ppe', 'Prupe.1G573600' => 'ppe', 'Prupe.6G130100' => 'ppe', 'Psat3g090040' => 'psa', 'Psat4g210440' => 'psa', 'Psat6g231040' => 'psa', 'Psat6g231080' => 'psa', 'Psat7g063000' => 'psa', 'Psat7g188000' => 'psa', 'Psat7g188040' => 'psa', 'PSO017G0206' => 'pso', 'PSO170G0501' => 'pso', 'PSO170G6422' => 'pso', 'PSO210G7739' => 'pso', 'PSO339G1808' => 'pso', 'PSO339G6135' => 'pso', 'PSO384G0010' => 'pso', 'PSO384G0964' => 'pso', 'PSO761G0050' => 'pso', 'PSO782G4085' => 'pso', 'QL01p012264' => 'qlo', 'QL02p099491' => 'qlo', 'QL03p033868' => 'qlo', 'QL04p046678' => 'qlo', 'QL06p002448' => 'qlo', 'RcHm_v2.0_Chr4g0416181' => 'rch', 'RcHm_v2.0_Chr5g0044701' => 'rch', 'RcHm_v2.0_Chr6g0265781' => 'rch', 'RcHm_v2.0_Chr7g0221031' => 'rch', 'Rhsim04G0202000' => 'rsi', 'Rhsim11G0127300' => 'rsi', 'Rhsim13G0111800' => 'rsi', 'Sabra01G0165600' => 'sbr', 'Sabra03G0008300' => 'sbr', 'Sabra04G0136900' => 'sbr', 'Sabra08G0013400' => 'sbr', 'Sabra08G0116800' => 'sbr', 'Sabra09G0128000' => 'sbr', 'Sabra10G0055500' => 'sbr', 'Sabra10G0073300' => 'sbr', 'SalBow3G0385' => 'sbo', 'SalBow3G1119' => 'sbo', 'SalBow3G2005' => 'sbo', 'SalBow6G2563' => 'sbo', 'SalBow6G6386' => 'sbo', 'Sc06g0008800' => 'sci', 'Sc07g0004950' => 'sci', 'Sc09g0005340' => 'sci', 'Sc13g0004410' => 'sci', 'Sc21g0007090' => 'sci', 'Sed0009285' => 'sed', 'Sed0017583' => 'sed', 'Sed0019699' => 'sed', 'Sed0023107' => 'sed', 'SEGI_10916' => 'sgi', 'SEGI_16217' => 'sgi', 'SEGI_19466' => 'sgi', 'SEGI_41115' => 'sgi', 'SGA_v2.0_scaffold111G31534' => 'sas', 'SGA_v2.0_scaffold22G09864' => 'sas', 'SGA_v2.0_scaffold338G49219' => 'sas', 'SGA_v2.0_scaffold92G28298' => 'sas', 'SMO119G0064' => 'smo', 'SMO223G0038' => 'smo', 'SMO347G0584' => 'smo', 'SMO351G0010' => 'smo', 'SMO356G0404' => 'smo', 'Solyc01g103920.3' => 'sly', 'Solyc04g009710.2' => 'sly', 'Solyc05g055280.2' => 'sly', 'Solyc10g044520.3' => 'sly', 'Solyc10g075160.1' => 'sly', 'Solyc11g006910.3' => 'sly', 'Solyc11g068430.3' => 'sly', 'Sopen01g046310' => 'spe', 'Sopen03g001200' => 'spe', 'Sopen04g004830' => 'spe', 'Sopen05g033720' => 'spe', 'Sopen06g030740' => 'spe', 'Sopen10g013090' => 'spe', 'Sopen10g027630' => 'spe', 'Sopen10g027640' => 'spe', 'Sopen11g002820' => 'spe', 'Sopen11g027140' => 'spe', 'Sp1g09680' => 'spa', 'Sp2g03630' => 'spa', 'Sp4g10320' => 'spa', 'Sp6g33400' => 'spa', 'Sp7g13030' => 'spa', 'TAR365G0317' => 'tar', 'TAR376G0979' => 'tar', 'TAR623G1665' => 'tar', 'TAR633G2373' => 'tar', 'TAR636G1400' => 'tar', 'THA.LOC104800529' => 'tha', 'THA.LOC104808547' => 'tha', 'THA.LOC104809615' => 'tha', 'THA.LOC104815724' => 'tha', 'THA.LOC104818480' => 'tha', 'THA.LOC104819179' => 'tha', 'THA.LOC104822270' => 'tha', 'THA.LOC104826425' => 'tha', 'Thecc.02G089700' => 'tca', 'Thecc.04G232300' => 'tca', 'Thecc.09G283400' => 'tca', 'Thhalv10009020m.g' => 'esa', 'Thhalv10015506m.g' => 'esa', 'Thhalv10017364m.g' => 'esa', 'Thhalv10023742m.g' => 'esa', 'Thhalv10026483m.g' => 'esa', 'TPR.G17232' => 'tpr', 'TPR.G2133' => 'tpr', 'TPR.G2498' => 'tpr', 'TPR.G31942' => 'tpr', 'TPR.G37877' => 'tpr', 'TPR.G4571' => 'tpr', 'TWI14G1113' => 'twi', 'TWI15G0426' => 'twi', 'TWI31G1005' => 'twi', 'TWI38G0513' => 'twi', 'TWI38G1484' => 'twi', 'TWI73G1098' => 'twi', 'unitig_26.g10519' => 'ugi', 'unitig_736.g22395' => 'ugi', 'unitig_747.g21234' => 'ugi', 'unitig_747.g21942' => 'ugi', 'vmacro14351' => 'vma', 'VMungo0540G0082' => 'vmu', 'VMungo0540G0405' => 'vmu', 'VMungo0540G1486' => 'vmu', 'VMungo0540G1692' => 'vmu', 'VMungo0720G2473' => 'vmu', 'VMungo1127G1562' => 'vmu', 'VMungo1215G1918' => 'vmu', 'Zm00001eb052650' => 'zma', 'Zm00001eb063710' => 'zma', 'Zm00001eb083950' => 'zma', 'Zm00001eb174420' => 'zma', 'Zm00001eb260140' => 'zma', 'Zm00001eb260150' => 'zma', 'Zm00001eb260160' => 'zma', 'Zm00001eb348290' => 'zma', 'Zm00001eb366870' => 'zma', 'Zm00001eb421930' => 'zma' ), 'gf_id' => 'HOM05D001025', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001025' ), 'data_identifier' => 'HOM05D001025', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001025', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '592', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p22650' => 'bna', 'A01p29720' => 'bna', 'A03p26560' => 'bna', 'A03p68820' => 'bna', 'A04p20980' => 'bna', 'A06p07730' => 'bna', 'A07p18260' => 'bna', 'A08p33710' => 'bna', 'A09p16970' => 'bna', 'A10p27490' => 'bna', 'Aa31LG1G17300' => 'aar', 'Aa31LG1G3910' => 'aar', 'Aa31LG2G9630' => 'aar', 'Aa31LG5G8360' => 'aar', 'Aa31LG9G2410' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4699' => 'aag', 'Actinidia23512' => 'ach', 'Actinidia37080' => 'ach', 'Ah.01g020380' => 'amhyb', 'Ah.08g215710' => 'amhyb', 'Ah.09g225110' => 'amhyb', 'Ah.10g036680' => 'amhyb', 'AL1G21940' => 'aly', 'AL2G15540' => 'aly', 'AL4G21520' => 'aly', 'AL7G40960' => 'aly', 'Aqoxy2G01191' => 'aox', 'Aqoxy2G03393' => 'aox', 'Aqoxy4G02775' => 'aox', 'Aqoxy6G00058' => 'aox', 'arahy.Tifrunner.gnm1.ann1.9X74H2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CW3FX9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R485W7' => 'arhy', 'AT1G10960' => 'ath', 'AT1G60950' => 'ath', 'AT2G27510' => 'ath', 'AT4G14890' => 'ath', 'AT5G10000' => 'ath', 'ATR0665G624' => 'atr', 'ATR0697G138' => 'atr', 'ATR0776G046' => 'atr', 'ATR1134G135' => 'atr', 'Atru.chr12.1025' => 'acertr', 'Atru.chr3.3241' => 'acertr', 'Atru.chr4.2460' => 'acertr', 'AUR62007427' => 'cqu', 'AUR62010960' => 'cqu', 'AUR62012201' => 'cqu', 'AUR62021470' => 'cqu', 'AUR62022834' => 'cqu', 'AUR62033635' => 'cqu', 'AUR62036186' => 'cqu', 'BcaB01g03077' => 'bca', 'BcaB02g10093' => 'bca', 'BcaB04g20295' => 'bca', 'BcaB06g28147' => 'bca', 'BcaB07g31253' => 'bca', 'BcaC01g04946' => 'bca', 'BcaC02g10614' => 'bca', 'BcaC02g10885' => 'bca', 'BcaC04g19356' => 'bca', 'BcaC04g22297' => 'bca', 'BcaC05g24977' => 'bca', 'BcaC06g31823' => 'bca', 'BcaC07g38633' => 'bca', 'BcaC09g49353' => 'bca', 'BcaC09g50168' => 'bca', 'BcaNung00322' => 'bca', 'BcaNung04769' => 'bca', 'BolC1t02753H' => 'bol', 'BolC1t03721H' => 'bol', 'BolC3t15525H' => 'bol', 'BolC4t23903H' => 'bol', 'BolC4t24231H' => 'bol', 'BolC4t27209H' => 'bol', 'BolC5t29671H' => 'bol', 'BolC8t49044H' => 'bol', 'BolC9t54999H' => 'bol', 'BolC9t59517H' => 'bol', 'BraA01t02178Z' => 'bra', 'BraA01t03099Z' => 'bra', 'BraA03t11867Z' => 'bra', 'BraA04t17667Z' => 'bra', 'BraA07t29542Z' => 'bra', 'BraA08t35287Z' => 'bra', 'BraA09t37334Z' => 'bra', 'BraA10t44801Z' => 'bra', 'BraSC39t46181Z' => 'bra', 'C01p28240' => 'bna', 'C01p37530' => 'bna', 'C03p31820' => 'bna', 'C04p24080' => 'bna', 'C04p25790' => 'bna', 'C04p56770' => 'bna', 'C05p09310' => 'bna', 'C09p21010' => 'bna', 'C09p67560' => 'bna', 'CAN.G1324.7' => 'can', 'CAN.G1358.10' => 'can', 'CAN.G1550.2' => 'can', 'CAN.G186.56' => 'can', 'CAN.G1965.1' => 'can', 'CAN.G645.15' => 'can', 'CAN.G798.26' => 'can', 'CAN.G798.27' => 'can', 'CAN.G798.29' => 'can', 'CAN.G919.31' => 'can', 'CANSAT11G0133' => 'cansat', 'CANSAT11G1171' => 'cansat', 'CANSAT11G2056' => 'cansat', 'CANSAT56G1202' => 'cansat', 'CANSAT56G1514' => 'cansat', 'CANSAT78G0455' => 'cansat', 'CARHR011190' => 'chi', 'CARHR051980' => 'chi', 'CARHR120170' => 'chi', 'CARHR203310' => 'chi', 'CARHR221490' => 'chi', 'Carub.0001s1054' => 'cru', 'Carub.0002s0431' => 'cru', 'Carub.0004s0818' => 'cru', 'Carub.0006s0846' => 'cru', 'Carub.0007s2722' => 'cru', 'Ca_00058_v3' => 'car', 'Ca_17831_v3' => 'car', 'Ca_19408_v3' => 'car', 'Ca_24397_v3' => 'car', 'Ca_25664_v3' => 'car', 'CBR_g21818' => 'cbr', 'CBR_g31195' => 'cbr', 'CBR_g32282' => 'cbr', 'CBR_g39599' => 'cbr', 'CBR_g49410' => 'cbr', 'Cc01_g09120' => 'ccan', 'Cc01_g09130' => 'ccan', 'Cc02_g09630' => 'ccan', 'Cc02_g22810' => 'ccan', 'Cc03_g03810' => 'ccan', 'CDE02G3718' => 'cde', 'CDE04G3183' => 'cde', 'CDE07G1046' => 'cde', 'CDE08G0480' => 'cde', 'Cfa005493' => 'cfa', 'Cfa010312' => 'cfa', 'Cfa015648' => 'cfa', 'Ciclev10002793m.g' => 'ccl', 'Ciclev10003356m.g' => 'ccl', 'Ciclev10006141m.g' => 'ccl', 'Ciclev10016676m.g' => 'ccl', 'Ciclev10017081m.g' => 'ccl', 'Ciclev10029499m.g' => 'ccl', 'CiPaw.01G166300' => 'cil', 'CiPaw.06G145600' => 'cil', 'CiPaw.13G040100' => 'cil', 'CiPaw.13G135800' => 'cil', 'ClCG01G012230' => 'cla', 'ClCG05G009510' => 'cla', 'ClCG08G008270' => 'cla', 'COL.COLO4_11763' => 'col', 'COL.COLO4_19876' => 'col', 'COL.COLO4_21481' => 'col', 'Cpa.g.sc118.34' => 'cpa', 'Cpa.g.sc32.13' => 'cpa', 'Cpa.g.sc58.103' => 'cpa', 'Cre03.g183850' => 'cre', 'Cre06.g306350' => 'cre', 'Cre07.g334800' => 'cre', 'Cre12.g487900' => 'cre', 'Cre14.g626700' => 'cre', 'Cre16.g658400' => 'cre', 'Cre17.g700950' => 'cre', 'CsaV3_1G014830' => 'csa', 'CsaV3_3G013320' => 'csa', 'CsaV3_3G019210' => 'csa', 'CsaV3_3G019220' => 'csa', 'CsaV3_6G004230' => 'csa', 'CSS0003773' => 'camsi', 'CSS0004563' => 'camsi', 'CSS0013949' => 'camsi', 'CSS0025971' => 'camsi', 'CSS0028570' => 'camsi', 'CSS0033127' => 'camsi', 'CSS0036051' => 'camsi', 'CSS0040087' => 'camsi', 'CSS0043179' => 'camsi', 'DCAR_006161' => 'dca', 'DCAR_010351' => 'dca', 'DCAR_012197' => 'dca', 'DCAR_024162' => 'dca', 'Dinv01030' => 'din', 'Dinv10924' => 'din', 'Dinv11835' => 'din', 'Dinv22841' => 'din', 'Dinv42553' => 'din', 'Duzib052G0560' => 'dzi', 'Duzib132G0389' => 'dzi', 'Duzib150G1181' => 'dzi', 'Duzib168G0623' => 'dzi', 'Duzib170G1036' => 'dzi', 'Duzib212G0200' => 'dzi', 'Duzib248G0194' => 'dzi', 'ECA232G2193' => 'eca', 'ECA233G0302' => 'eca', 'ECA234G2813' => 'eca', 'ECA234G4866' => 'eca', 'ECA240G3932' => 'eca', 'ECA248G0385' => 'eca', 'EL10Ac2g04781' => 'bvu', 'EL10Ac3g06445' => 'bvu', 'EL10Ac7g15825' => 'bvu', 'EL10Ac8g18550' => 'bvu', 'Eucgr.B03849' => 'egr', 'Eucgr.I02744' => 'egr', 'Eucgr.J00264' => 'egr', 'Eucgr.J00493' => 'egr', 'FAN04G2181' => 'fan', 'FAN07G2666' => 'fan', 'FAN11G0024' => 'fan', 'FAN12G1105' => 'fan', 'FAN13G0302' => 'fan', 'FAN15G2781' => 'fan', 'FAN16G1274' => 'fan', 'FAN17G2988' => 'fan', 'FAN18G2621' => 'fan', 'FAN21G0013' => 'fan', 'FAN22G1211' => 'fan', 'FAN25G3626' => 'fan', 'FvH4_2g09491' => 'fve', 'FvH4_3g24910' => 'fve', 'FvH4_4g15630' => 'fve', 'FvH4_5g28820' => 'fve', 'Glyma.01G238000' => 'gma', 'Glyma.05G168400' => 'gma', 'Glyma.08G126800' => 'gma', 'Glyma.08G188500' => 'gma', 'Glyma.10G278900' => 'gma', 'Glyma.11G005700' => 'gma', 'Glyma.11G183300' => 'gma', 'Glyma.12G089200' => 'gma', 'Glyma.12G169400' => 'gma', 'Glyma.12G169500' => 'gma', 'Glyma.12G169600' => 'gma', 'Glyma.20G110800' => 'gma', 'Gohir.A03G192900' => 'ghi', 'Gohir.A03G193000' => 'ghi', 'Gohir.A05G080700' => 'ghi', 'Gohir.A09G216000' => 'ghi', 'Gohir.A12G027700' => 'ghi', 'Gohir.A13G036200' => 'ghi', 'Gohir.A13G222600' => 'ghi', 'Gohir.D02G213900' => 'ghi', 'Gohir.D02G214000' => 'ghi', 'Gohir.D05G083700' => 'ghi', 'Gohir.D05G083800' => 'ghi', 'Gohir.D05G083850' => 'ghi', 'Gohir.D08G015400' => 'ghi', 'Gohir.D09G218400' => 'ghi', 'Gohir.D12G027100' => 'ghi', 'Gohir.D13G034500' => 'ghi', 'Gohir.D13G227400' => 'ghi', 'Gorai.005G241800' => 'gra', 'Gorai.005G241900' => 'gra', 'Gorai.006G239400' => 'gra', 'Gorai.008G027600' => 'gra', 'Gorai.009G085400' => 'gra', 'Gorai.009G085500' => 'gra', 'Gorai.013G039000' => 'gra', 'Gorai.013G194800' => 'gra', 'Gorai.013G257900' => 'gra', 'GSVIVG01000982001' => 'vvi', 'GSVIVG01017981001' => 'vvi', 'HanXRQChr01g0024061' => 'han', 'HanXRQChr09g0247831' => 'han', 'HanXRQChr10g0294611' => 'han', 'HanXRQChr10g0294621' => 'han', 'HanXRQChr11g0346821' => 'han', 'HanXRQChr13g0397461' => 'han', 'HanXRQChr16g0513651' => 'han', 'HanXRQChr16g0513701' => 'han', 'Haze_00897' => 'cav', 'Haze_01745' => 'cav', 'Haze_02486' => 'cav', 'Haze_02487' => 'cav', 'Haze_23374' => 'cav', 'Hma1.2p1_0578F.1_g182520' => 'hma', 'Hma1.2p1_0602F.1_g187350' => 'hma', 'Hma1.2p1_0602F.1_g187360' => 'hma', 'Hma1.2p1_0874F.1_g231320' => 'hma', 'Hma1.2p1_1197F.1_g266210' => 'hma', 'Hma1.2p1_1197F.1_g266220' => 'hma', 'Hma1.2p1_2167F.1_g315895' => 'hma', 'Hma1.2p1_2190F.1_g316640' => 'hma', 'Hma1.2p1_3645F.1_g337153' => 'hma', 'HPP92_004907' => 'vpl', 'HPP92_012134' => 'vpl', 'HPP92_025136' => 'vpl', 'HPP92_026087' => 'vpl', 'Hund06782' => 'sun', 'Hund06784' => 'sun', 'Lalb_Chr01g0004861' => 'lal', 'Lalb_Chr02g0140591' => 'lal', 'Lalb_Chr02g0140611' => 'lal', 'Lalb_Chr03g0028101' => 'lal', 'Lalb_Chr07g0185791' => 'lal', 'Lalb_Chr12g0204491' => 'lal', 'Lalb_Chr13g0295671' => 'lal', 'Lalb_Chr19g0136461' => 'lal', 'Lalb_Chr21g0309191' => 'lal', 'Lj1g0028158' => 'lja', 'Lj1P236T38' => 'lonja', 'Lj2C32G2' => 'lonja', 'Lj2P944T8' => 'lonja', 'Lj2P963T15' => 'lonja', 'Lj3g0011788' => 'lja', 'Lj4g0025027' => 'lja', 'Lj5P255T36' => 'lonja', 'Lj6g0018866' => 'lja', 'Lj6P608T31' => 'lonja', 'LjContig00408g0008879' => 'lja', 'Lsat_1_v5_gn_5_105820' => 'lsa', 'Lsat_1_v5_gn_6_38800' => 'lsa', 'Lsat_1_v5_gn_7_67141' => 'lsa', 'Manes.04G003400' => 'mes', 'Manes.07G020000' => 'mes', 'Manes.07G020100' => 'mes', 'Manes.07G020150' => 'mes', 'Manes.10G061500' => 'mes', 'Manes.10G123200' => 'mes', 'Manes.11G161900' => 'mes', 'Manes.15G029300' => 'mes', 'Mapoly0071s0018' => 'mpo', 'Mapoly0082s0023' => 'mpo', 'Mapoly3477s0001' => 'mpo', 'MBI05_g31233_MAGBIO' => 'mbi', 'MBI09_g05946_MAGBIO' => 'mbi', 'MBI09_g05947_MAGBIO' => 'mbi', 'MBI17_g08346_MAGBIO' => 'mbi', 'MCO04G038' => 'mco', 'MCO09G370' => 'mco', 'MCO13G605' => 'mco', 'MD00G1075500' => 'mdo', 'MD03G1144300' => 'mdo', 'MD08G1236800' => 'mdo', 'MD13G1193300' => 'mdo', 'MD15G1428700' => 'mdo', 'Medtr1g112030' => 'mtr', 'Medtr1g112050' => 'mtr', 'Medtr2g006290' => 'mtr', 'Medtr2g086510' => 'mtr', 'Medtr4g053120' => 'mtr', 'Medtr5g006320' => 'mtr', 'Medtr8g088720' => 'mtr', 'MELO3C004712.2' => 'cme', 'MELO3C006533.2' => 'cme', 'MELO3C019438.2' => 'cme', 'MELO3C019440.2' => 'cme', 'MELO3C019441.2' => 'cme', 'MELO3C019895.2' => 'cme', 'Migut.B00811' => 'egut', 'Migut.D02447' => 'egut', 'Migut.F00875' => 'egut', 'Migut.N00186' => 'egut', 'Migut.N01051' => 'egut', 'Migut.N02491' => 'egut', 'Migut.O00784' => 'egut', 'MSTRG.12367' => 'ama', 'MSTRG.18756' => 'ama', 'MSTRG.21042' => 'ama', 'Nitab4.5_0000559g0040' => 'nta', 'Nitab4.5_0000667g0190' => 'nta', 'Nitab4.5_0000755g0160' => 'nta', 'Nitab4.5_0001216g0080' => 'nta', 'Nitab4.5_0004069g0040' => 'nta', 'Nitab4.5_0004129g0010' => 'nta', 'Nitab4.5_0005744g0030' => 'nta', 'Nitab4.5_0006996g0030' => 'nta', 'Nitab4.5_0008971g0040' => 'nta', 'Nitab4.5_0009769g0020' => 'nta', 'Nitab4.5_0009833g0010' => 'nta', 'Nitab4.5_0013140g0020' => 'nta', 'Nn003s41376' => 'nnu', 'Nn1g01857' => 'nnu', 'Nn1g03611' => 'nnu', 'Nn1g06853' => 'nnu', 'Nn3g18360' => 'nnu', 'Nn4g26328' => 'nnu', 'Nn5g27531' => 'nnu', 'Nn6g34899' => 'nnu', 'Nn7g36299' => 'nnu', 'Oeu021485.1' => 'oeu', 'Oeu022433.1' => 'oeu', 'Oeu032111.1' => 'oeu', 'Oeu051608.1' => 'oeu', 'Os01g0860601' => 'osa', 'Os03g0659200' => 'osa', 'Os03g0835900' => 'osa', 'Os04g0412200' => 'osa', 'Os05g0443500' => 'osa', 'Os07g0251500' => 'osa', 'Os08g0104600' => 'osa', 'Peaxi162Scf00003g00047' => 'pax', 'Peaxi162Scf00003g00052' => 'pax', 'Peaxi162Scf00003g00394' => 'pax', 'Peaxi162Scf00091g00621' => 'pax', 'Peaxi162Scf00152g00146' => 'pax', 'Peaxi162Scf00173g00025' => 'pax', 'Peaxi162Scf00195g00102' => 'pax', 'Peaxi162Scf00402g00013' => 'pax', 'Peaxi162Scf00519g00618' => 'pax', 'PGR004G2838' => 'pgr', 'PGR044G2275' => 'pgr', 'PGR102G1377' => 'pgr', 'PGR119G1245' => 'pgr', 'PGR142G4449' => 'pgr', 'PGSC0003DMG400004532' => 'stu', 'PGSC0003DMG400011950' => 'stu', 'PGSC0003DMG400023391' => 'stu', 'PGSC0003DMG400023985' => 'stu', 'PGSC0003DMG400026360' => 'stu', 'PGSC0003DMG400035711' => 'stu', 'PGSC0003DMG400037286' => 'stu', 'PGSC0003DMG402005881' => 'stu', 'Phvul.002G045400' => 'pvu', 'Phvul.006G216600' => 'pvu', 'Phvul.006G216700' => 'pvu', 'Phvul.006G216800' => 'pvu', 'Phvul.007G022500' => 'pvu', 'Phvul.011G094400' => 'pvu', 'Potri.001G470700' => 'ptr', 'Potri.003G015200' => 'ptr', 'Potri.004G202500' => 'ptr', 'Potri.004G218400' => 'ptr', 'Potri.008G020100' => 'ptr', 'Potri.008G153200' => 'ptr', 'Potri.009G163800' => 'ptr', 'Potri.010G087300' => 'ptr', 'Potri.010G239100' => 'ptr', 'Pp3c10_16100' => 'ppa', 'Pp3c10_16880' => 'ppa', 'Pp3c16_6230' => 'ppa', 'Pp3c17_18910' => 'ppa', 'Pp3c3_22119' => 'ppa', 'Pp3c3_22140' => 'ppa', 'Pp3c4_8159' => 'ppa', 'Pp3c4_8171' => 'ppa', 'Pp3c4_8330' => 'ppa', 'PRCOL_00004098' => 'pco', 'Prupe.1G013900' => 'ppe', 'Prupe.1G226300' => 'ppe', 'Prupe.1G573600' => 'ppe', 'Prupe.6G130100' => 'ppe', 'Psat3g090040' => 'psa', 'Psat4g210440' => 'psa', 'Psat6g231040' => 'psa', 'Psat6g231080' => 'psa', 'Psat7g063000' => 'psa', 'Psat7g188000' => 'psa', 'Psat7g188040' => 'psa', 'PSO017G0206' => 'pso', 'PSO170G0501' => 'pso', 'PSO170G6422' => 'pso', 'PSO210G7739' => 'pso', 'PSO339G1808' => 'pso', 'PSO339G6135' => 'pso', 'PSO384G0010' => 'pso', 'PSO384G0964' => 'pso', 'PSO761G0050' => 'pso', 'PSO782G4085' => 'pso', 'QL01p012264' => 'qlo', 'QL02p099491' => 'qlo', 'QL03p033868' => 'qlo', 'QL04p046678' => 'qlo', 'QL06p002448' => 'qlo', 'RcHm_v2.0_Chr4g0416181' => 'rch', 'RcHm_v2.0_Chr5g0044701' => 'rch', 'RcHm_v2.0_Chr6g0265781' => 'rch', 'RcHm_v2.0_Chr7g0221031' => 'rch', 'Rhsim04G0202000' => 'rsi', 'Rhsim11G0127300' => 'rsi', 'Rhsim13G0111800' => 'rsi', 'Sabra01G0165600' => 'sbr', 'Sabra03G0008300' => 'sbr', 'Sabra04G0136900' => 'sbr', 'Sabra08G0013400' => 'sbr', 'Sabra08G0116800' => 'sbr', 'Sabra09G0128000' => 'sbr', 'Sabra10G0055500' => 'sbr', 'Sabra10G0073300' => 'sbr', 'SalBow3G0385' => 'sbo', 'SalBow3G1119' => 'sbo', 'SalBow3G2005' => 'sbo', 'SalBow6G2563' => 'sbo', 'SalBow6G6386' => 'sbo', 'Sc06g0008800' => 'sci', 'Sc07g0004950' => 'sci', 'Sc09g0005340' => 'sci', 'Sc13g0004410' => 'sci', 'Sc21g0007090' => 'sci', 'Sed0009285' => 'sed', 'Sed0017583' => 'sed', 'Sed0019699' => 'sed', 'Sed0023107' => 'sed', 'SEGI_10916' => 'sgi', 'SEGI_16217' => 'sgi', 'SEGI_19466' => 'sgi', 'SEGI_41115' => 'sgi', 'SGA_v2.0_scaffold111G31534' => 'sas', 'SGA_v2.0_scaffold22G09864' => 'sas', 'SGA_v2.0_scaffold338G49219' => 'sas', 'SGA_v2.0_scaffold92G28298' => 'sas', 'SMO119G0064' => 'smo', 'SMO223G0038' => 'smo', 'SMO347G0584' => 'smo', 'SMO351G0010' => 'smo', 'SMO356G0404' => 'smo', 'Solyc01g103920.3' => 'sly', 'Solyc04g009710.2' => 'sly', 'Solyc05g055280.2' => 'sly', 'Solyc10g044520.3' => 'sly', 'Solyc10g075160.1' => 'sly', 'Solyc11g006910.3' => 'sly', 'Solyc11g068430.3' => 'sly', 'Sopen01g046310' => 'spe', 'Sopen03g001200' => 'spe', 'Sopen04g004830' => 'spe', 'Sopen05g033720' => 'spe', 'Sopen06g030740' => 'spe', 'Sopen10g013090' => 'spe', 'Sopen10g027630' => 'spe', 'Sopen10g027640' => 'spe', 'Sopen11g002820' => 'spe', 'Sopen11g027140' => 'spe', 'Sp1g09680' => 'spa', 'Sp2g03630' => 'spa', 'Sp4g10320' => 'spa', 'Sp6g33400' => 'spa', 'Sp7g13030' => 'spa', 'TAR365G0317' => 'tar', 'TAR376G0979' => 'tar', 'TAR623G1665' => 'tar', 'TAR633G2373' => 'tar', 'TAR636G1400' => 'tar', 'THA.LOC104800529' => 'tha', 'THA.LOC104808547' => 'tha', 'THA.LOC104809615' => 'tha', 'THA.LOC104815724' => 'tha', 'THA.LOC104818480' => 'tha', 'THA.LOC104819179' => 'tha', 'THA.LOC104822270' => 'tha', 'THA.LOC104826425' => 'tha', 'Thecc.02G089700' => 'tca', 'Thecc.04G232300' => 'tca', 'Thecc.09G283400' => 'tca', 'Thhalv10009020m.g' => 'esa', 'Thhalv10015506m.g' => 'esa', 'Thhalv10017364m.g' => 'esa', 'Thhalv10023742m.g' => 'esa', 'Thhalv10026483m.g' => 'esa', 'TPR.G17232' => 'tpr', 'TPR.G2133' => 'tpr', 'TPR.G2498' => 'tpr', 'TPR.G31942' => 'tpr', 'TPR.G37877' => 'tpr', 'TPR.G4571' => 'tpr', 'TWI14G1113' => 'twi', 'TWI15G0426' => 'twi', 'TWI31G1005' => 'twi', 'TWI38G0513' => 'twi', 'TWI38G1484' => 'twi', 'TWI73G1098' => 'twi', 'unitig_26.g10519' => 'ugi', 'unitig_736.g22395' => 'ugi', 'unitig_747.g21234' => 'ugi', 'unitig_747.g21942' => 'ugi', 'vmacro14351' => 'vma', 'VMungo0540G0082' => 'vmu', 'VMungo0540G0405' => 'vmu', 'VMungo0540G1486' => 'vmu', 'VMungo0540G1692' => 'vmu', 'VMungo0720G2473' => 'vmu', 'VMungo1127G1562' => 'vmu', 'VMungo1215G1918' => 'vmu', 'Zm00001eb052650' => 'zma', 'Zm00001eb063710' => 'zma', 'Zm00001eb083950' => 'zma', 'Zm00001eb174420' => 'zma', 'Zm00001eb260140' => 'zma', 'Zm00001eb260150' => 'zma', 'Zm00001eb260160' => 'zma', 'Zm00001eb348290' => 'zma', 'Zm00001eb366870' => 'zma', 'Zm00001eb421930' => 'zma' ) $gf_id = 'HOM05D001025' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001025' ) $data_identifier = 'HOM05D001025' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 19, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 2, 'amhyb' => (int) 4, 'aly' => (int) 4, 'aox' => (int) 4, 'arhy' => (int) 3, 'ath' => (int) 5, 'atr' => (int) 4, 'acertr' => (int) 3, 'cqu' => (int) 7, 'bca' => (int) 17, 'bol' => (int) 10, 'bra' => (int) 9, 'can' => (int) 10, 'cansat' => (int) 6, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 5, 'cbr' => (int) 5, 'ccan' => (int) 5, 'cde' => (int) 4, 'cfa' => (int) 3, 'ccl' => (int) 6, 'cil' => (int) 4, 'cla' => (int) 3, 'col' => (int) 3, 'cpa' => (int) 3, 'cre' => (int) 7, 'csa' => (int) 5, 'camsi' => (int) 9, 'dca' => (int) 4, 'din' => (int) 5, 'dzi' => (int) 7, 'eca' => (int) 6, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 12, 'fve' => (int) 4, 'gma' => (int) 12, 'ghi' => (int) 17, 'gra' => (int) 9, 'vvi' => (int) 2, 'han' => (int) 8, 'cav' => (int) 5, 'hma' => (int) 9, 'vpl' => (int) 4, 'sun' => (int) 2, 'lal' => (int) 9, 'lja' => (int) 5, 'lonja' => (int) 6, 'lsa' => (int) 3, 'mes' => (int) 8, 'mpo' => (int) 3, 'mbi' => (int) 4, 'mco' => (int) 3, 'mdo' => (int) 5, 'mtr' => (int) 7, 'cme' => (int) 6, 'egut' => (int) 7, 'ama' => (int) 3, 'nta' => (int) 12, 'nnu' => (int) 9, 'oeu' => (int) 4, 'osa' => (int) 7, 'pax' => (int) 9, 'pgr' => (int) 5, 'stu' => (int) 8, 'pvu' => (int) 6, 'ptr' => (int) 9, 'ppa' => (int) 9, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 7, 'pso' => (int) 10, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 3, 'sbr' => (int) 8, 'sbo' => (int) 5, 'sci' => (int) 5, 'sed' => (int) 4, 'sgi' => (int) 4, 'sas' => (int) 4, 'smo' => (int) 5, 'sly' => (int) 7, 'spe' => (int) 10, 'spa' => (int) 5, 'tar' => (int) 5, 'tha' => (int) 8, 'tca' => (int) 3, 'esa' => (int) 5, 'tpr' => (int) 6, 'twi' => (int) 6, 'ugi' => (int) 4, 'vma' => (int) 1, 'vmu' => (int) 7, 'zma' => (int) 10 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb421930' $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' => 'HOM05D001025', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '592', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p22650' => 'bna', 'A01p29720' => 'bna', 'A03p26560' => 'bna', 'A03p68820' => 'bna', 'A04p20980' => 'bna', 'A06p07730' => 'bna', 'A07p18260' => 'bna', 'A08p33710' => 'bna', 'A09p16970' => 'bna', 'A10p27490' => 'bna', 'Aa31LG1G17300' => 'aar', 'Aa31LG1G3910' => 'aar', 'Aa31LG2G9630' => 'aar', 'Aa31LG5G8360' => 'aar', 'Aa31LG9G2410' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4699' => 'aag', 'Actinidia23512' => 'ach', 'Actinidia37080' => 'ach', 'Ah.01g020380' => 'amhyb', 'Ah.08g215710' => 'amhyb', 'Ah.09g225110' => 'amhyb', 'Ah.10g036680' => 'amhyb', 'AL1G21940' => 'aly', 'AL2G15540' => 'aly', 'AL4G21520' => 'aly', 'AL7G40960' => 'aly', 'Aqoxy2G01191' => 'aox', 'Aqoxy2G03393' => 'aox', 'Aqoxy4G02775' => 'aox', 'Aqoxy6G00058' => 'aox', 'arahy.Tifrunner.gnm1.ann1.9X74H2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CW3FX9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R485W7' => 'arhy', 'AT1G10960' => 'ath', 'AT1G60950' => 'ath', 'AT2G27510' => 'ath', 'AT4G14890' => 'ath', 'AT5G10000' => 'ath', 'ATR0665G624' => 'atr', 'ATR0697G138' => 'atr', 'ATR0776G046' => 'atr', 'ATR1134G135' => 'atr', 'Atru.chr12.1025' => 'acertr', 'Atru.chr3.3241' => 'acertr', 'Atru.chr4.2460' => 'acertr', 'AUR62007427' => 'cqu', 'AUR62010960' => 'cqu', 'AUR62012201' => 'cqu', 'AUR62021470' => 'cqu', 'AUR62022834' => 'cqu', 'AUR62033635' => 'cqu', 'AUR62036186' => 'cqu', 'BcaB01g03077' => 'bca', 'BcaB02g10093' => 'bca', 'BcaB04g20295' => 'bca', 'BcaB06g28147' => 'bca', 'BcaB07g31253' => 'bca', 'BcaC01g04946' => 'bca', 'BcaC02g10614' => 'bca', 'BcaC02g10885' => 'bca', 'BcaC04g19356' => 'bca', 'BcaC04g22297' => 'bca', 'BcaC05g24977' => 'bca', 'BcaC06g31823' => 'bca', 'BcaC07g38633' => 'bca', 'BcaC09g49353' => 'bca', 'BcaC09g50168' => 'bca', 'BcaNung00322' => 'bca', 'BcaNung04769' => 'bca', 'BolC1t02753H' => 'bol', 'BolC1t03721H' => 'bol', 'BolC3t15525H' => 'bol', 'BolC4t23903H' => 'bol', 'BolC4t24231H' => 'bol', 'BolC4t27209H' => 'bol', 'BolC5t29671H' => 'bol', 'BolC8t49044H' => 'bol', 'BolC9t54999H' => 'bol', 'BolC9t59517H' => 'bol', 'BraA01t02178Z' => 'bra', 'BraA01t03099Z' => 'bra', 'BraA03t11867Z' => 'bra', 'BraA04t17667Z' => 'bra', 'BraA07t29542Z' => 'bra', 'BraA08t35287Z' => 'bra', 'BraA09t37334Z' => 'bra', 'BraA10t44801Z' => 'bra', 'BraSC39t46181Z' => 'bra', 'C01p28240' => 'bna', 'C01p37530' => 'bna', 'C03p31820' => 'bna', 'C04p24080' => 'bna', 'C04p25790' => 'bna', 'C04p56770' => 'bna', 'C05p09310' => 'bna', 'C09p21010' => 'bna', 'C09p67560' => 'bna', 'CAN.G1324.7' => 'can', 'CAN.G1358.10' => 'can', 'CAN.G1550.2' => 'can', 'CAN.G186.56' => 'can', 'CAN.G1965.1' => 'can', 'CAN.G645.15' => 'can', 'CAN.G798.26' => 'can', 'CAN.G798.27' => 'can', 'CAN.G798.29' => 'can', 'CAN.G919.31' => 'can', 'CANSAT11G0133' => 'cansat', 'CANSAT11G1171' => 'cansat', 'CANSAT11G2056' => 'cansat', 'CANSAT56G1202' => 'cansat', 'CANSAT56G1514' => 'cansat', 'CANSAT78G0455' => 'cansat', 'CARHR011190' => 'chi', 'CARHR051980' => 'chi', 'CARHR120170' => 'chi', 'CARHR203310' => 'chi', 'CARHR221490' => 'chi', 'Carub.0001s1054' => 'cru', 'Carub.0002s0431' => 'cru', 'Carub.0004s0818' => 'cru', 'Carub.0006s0846' => 'cru', 'Carub.0007s2722' => 'cru', 'Ca_00058_v3' => 'car', 'Ca_17831_v3' => 'car', 'Ca_19408_v3' => 'car', 'Ca_24397_v3' => 'car', 'Ca_25664_v3' => 'car', 'CBR_g21818' => 'cbr', 'CBR_g31195' => 'cbr', 'CBR_g32282' => 'cbr', 'CBR_g39599' => 'cbr', 'CBR_g49410' => 'cbr', 'Cc01_g09120' => 'ccan', 'Cc01_g09130' => 'ccan', 'Cc02_g09630' => 'ccan', 'Cc02_g22810' => 'ccan', 'Cc03_g03810' => 'ccan', 'CDE02G3718' => 'cde', 'CDE04G3183' => 'cde', 'CDE07G1046' => 'cde', 'CDE08G0480' => 'cde', 'Cfa005493' => 'cfa', 'Cfa010312' => 'cfa', 'Cfa015648' => 'cfa', 'Ciclev10002793m.g' => 'ccl', 'Ciclev10003356m.g' => 'ccl', 'Ciclev10006141m.g' => 'ccl', 'Ciclev10016676m.g' => 'ccl', 'Ciclev10017081m.g' => 'ccl', 'Ciclev10029499m.g' => 'ccl', 'CiPaw.01G166300' => 'cil', 'CiPaw.06G145600' => 'cil', 'CiPaw.13G040100' => 'cil', 'CiPaw.13G135800' => 'cil', 'ClCG01G012230' => 'cla', 'ClCG05G009510' => 'cla', 'ClCG08G008270' => 'cla', 'COL.COLO4_11763' => 'col', 'COL.COLO4_19876' => 'col', 'COL.COLO4_21481' => 'col', 'Cpa.g.sc118.34' => 'cpa', 'Cpa.g.sc32.13' => 'cpa', 'Cpa.g.sc58.103' => 'cpa', 'Cre03.g183850' => 'cre', 'Cre06.g306350' => 'cre', 'Cre07.g334800' => 'cre', 'Cre12.g487900' => 'cre', 'Cre14.g626700' => 'cre', 'Cre16.g658400' => 'cre', 'Cre17.g700950' => 'cre', 'CsaV3_1G014830' => 'csa', 'CsaV3_3G013320' => 'csa', 'CsaV3_3G019210' => 'csa', 'CsaV3_3G019220' => 'csa', 'CsaV3_6G004230' => 'csa', 'CSS0003773' => 'camsi', 'CSS0004563' => 'camsi', 'CSS0013949' => 'camsi', 'CSS0025971' => 'camsi', 'CSS0028570' => 'camsi', 'CSS0033127' => 'camsi', 'CSS0036051' => 'camsi', 'CSS0040087' => 'camsi', 'CSS0043179' => 'camsi', 'DCAR_006161' => 'dca', 'DCAR_010351' => 'dca', 'DCAR_012197' => 'dca', 'DCAR_024162' => 'dca', 'Dinv01030' => 'din', 'Dinv10924' => 'din', 'Dinv11835' => 'din', 'Dinv22841' => 'din', 'Dinv42553' => 'din', 'Duzib052G0560' => 'dzi', 'Duzib132G0389' => 'dzi', 'Duzib150G1181' => 'dzi', 'Duzib168G0623' => 'dzi', 'Duzib170G1036' => 'dzi', 'Duzib212G0200' => 'dzi', 'Duzib248G0194' => 'dzi', 'ECA232G2193' => 'eca', 'ECA233G0302' => 'eca', 'ECA234G2813' => 'eca', 'ECA234G4866' => 'eca', 'ECA240G3932' => 'eca', 'ECA248G0385' => 'eca', 'EL10Ac2g04781' => 'bvu', 'EL10Ac3g06445' => 'bvu', 'EL10Ac7g15825' => 'bvu', 'EL10Ac8g18550' => 'bvu', 'Eucgr.B03849' => 'egr', 'Eucgr.I02744' => 'egr', 'Eucgr.J00264' => 'egr', 'Eucgr.J00493' => 'egr', 'FAN04G2181' => 'fan', 'FAN07G2666' => 'fan', 'FAN11G0024' => 'fan', 'FAN12G1105' => 'fan', 'FAN13G0302' => 'fan', 'FAN15G2781' => 'fan', 'FAN16G1274' => 'fan', 'FAN17G2988' => 'fan', 'FAN18G2621' => 'fan', 'FAN21G0013' => 'fan', 'FAN22G1211' => 'fan', 'FAN25G3626' => 'fan', 'FvH4_2g09491' => 'fve', 'FvH4_3g24910' => 'fve', 'FvH4_4g15630' => 'fve', 'FvH4_5g28820' => 'fve', 'Glyma.01G238000' => 'gma', 'Glyma.05G168400' => 'gma', 'Glyma.08G126800' => 'gma', 'Glyma.08G188500' => 'gma', 'Glyma.10G278900' => 'gma', 'Glyma.11G005700' => 'gma', 'Glyma.11G183300' => 'gma', 'Glyma.12G089200' => 'gma', 'Glyma.12G169400' => 'gma', 'Glyma.12G169500' => 'gma', 'Glyma.12G169600' => 'gma', 'Glyma.20G110800' => 'gma', 'Gohir.A03G192900' => 'ghi', 'Gohir.A03G193000' => 'ghi', 'Gohir.A05G080700' => 'ghi', 'Gohir.A09G216000' => 'ghi', 'Gohir.A12G027700' => 'ghi', 'Gohir.A13G036200' => 'ghi', 'Gohir.A13G222600' => 'ghi', 'Gohir.D02G213900' => 'ghi', 'Gohir.D02G214000' => 'ghi', 'Gohir.D05G083700' => 'ghi', 'Gohir.D05G083800' => 'ghi', 'Gohir.D05G083850' => 'ghi', 'Gohir.D08G015400' => 'ghi', 'Gohir.D09G218400' => 'ghi', 'Gohir.D12G027100' => 'ghi', 'Gohir.D13G034500' => 'ghi', 'Gohir.D13G227400' => 'ghi', 'Gorai.005G241800' => 'gra', 'Gorai.005G241900' => 'gra', 'Gorai.006G239400' => 'gra', 'Gorai.008G027600' => 'gra', 'Gorai.009G085400' => 'gra', 'Gorai.009G085500' => 'gra', 'Gorai.013G039000' => 'gra', 'Gorai.013G194800' => 'gra', 'Gorai.013G257900' => 'gra', 'GSVIVG01000982001' => 'vvi', 'GSVIVG01017981001' => 'vvi', 'HanXRQChr01g0024061' => 'han', 'HanXRQChr09g0247831' => 'han', 'HanXRQChr10g0294611' => 'han', 'HanXRQChr10g0294621' => 'han', 'HanXRQChr11g0346821' => 'han', 'HanXRQChr13g0397461' => 'han', 'HanXRQChr16g0513651' => 'han', 'HanXRQChr16g0513701' => 'han', 'Haze_00897' => 'cav', 'Haze_01745' => 'cav', 'Haze_02486' => 'cav', 'Haze_02487' => 'cav', 'Haze_23374' => 'cav', 'Hma1.2p1_0578F.1_g182520' => 'hma', 'Hma1.2p1_0602F.1_g187350' => 'hma', 'Hma1.2p1_0602F.1_g187360' => 'hma', 'Hma1.2p1_0874F.1_g231320' => 'hma', 'Hma1.2p1_1197F.1_g266210' => 'hma', 'Hma1.2p1_1197F.1_g266220' => 'hma', 'Hma1.2p1_2167F.1_g315895' => 'hma', 'Hma1.2p1_2190F.1_g316640' => 'hma', 'Hma1.2p1_3645F.1_g337153' => 'hma', 'HPP92_004907' => 'vpl', 'HPP92_012134' => 'vpl', 'HPP92_025136' => 'vpl', 'HPP92_026087' => 'vpl', 'Hund06782' => 'sun', 'Hund06784' => 'sun', 'Lalb_Chr01g0004861' => 'lal', 'Lalb_Chr02g0140591' => 'lal', 'Lalb_Chr02g0140611' => 'lal', 'Lalb_Chr03g0028101' => 'lal', 'Lalb_Chr07g0185791' => 'lal', 'Lalb_Chr12g0204491' => 'lal', 'Lalb_Chr13g0295671' => 'lal', 'Lalb_Chr19g0136461' => 'lal', 'Lalb_Chr21g0309191' => 'lal', 'Lj1g0028158' => 'lja', 'Lj1P236T38' => 'lonja', 'Lj2C32G2' => 'lonja', 'Lj2P944T8' => 'lonja', 'Lj2P963T15' => 'lonja', 'Lj3g0011788' => 'lja', 'Lj4g0025027' => 'lja', 'Lj5P255T36' => 'lonja', 'Lj6g0018866' => 'lja', 'Lj6P608T31' => 'lonja', 'LjContig00408g0008879' => 'lja', 'Lsat_1_v5_gn_5_105820' => 'lsa', 'Lsat_1_v5_gn_6_38800' => 'lsa', 'Lsat_1_v5_gn_7_67141' => 'lsa', 'Manes.04G003400' => 'mes', 'Manes.07G020000' => 'mes', 'Manes.07G020100' => 'mes', 'Manes.07G020150' => 'mes', 'Manes.10G061500' => 'mes', 'Manes.10G123200' => 'mes', 'Manes.11G161900' => 'mes', 'Manes.15G029300' => 'mes', 'Mapoly0071s0018' => 'mpo', 'Mapoly0082s0023' => 'mpo', 'Mapoly3477s0001' => 'mpo', 'MBI05_g31233_MAGBIO' => 'mbi', 'MBI09_g05946_MAGBIO' => 'mbi', 'MBI09_g05947_MAGBIO' => 'mbi', 'MBI17_g08346_MAGBIO' => 'mbi', 'MCO04G038' => 'mco', 'MCO09G370' => 'mco', 'MCO13G605' => 'mco', 'MD00G1075500' => 'mdo', 'MD03G1144300' => 'mdo', 'MD08G1236800' => 'mdo', 'MD13G1193300' => 'mdo', 'MD15G1428700' => 'mdo', 'Medtr1g112030' => 'mtr', 'Medtr1g112050' => 'mtr', 'Medtr2g006290' => 'mtr', 'Medtr2g086510' => 'mtr', 'Medtr4g053120' => 'mtr', 'Medtr5g006320' => 'mtr', 'Medtr8g088720' => 'mtr', 'MELO3C004712.2' => 'cme', 'MELO3C006533.2' => 'cme', 'MELO3C019438.2' => 'cme', 'MELO3C019440.2' => 'cme', 'MELO3C019441.2' => 'cme', 'MELO3C019895.2' => 'cme', 'Migut.B00811' => 'egut', 'Migut.D02447' => 'egut', 'Migut.F00875' => 'egut', 'Migut.N00186' => 'egut', 'Migut.N01051' => 'egut', 'Migut.N02491' => 'egut', 'Migut.O00784' => 'egut', 'MSTRG.12367' => 'ama', 'MSTRG.18756' => 'ama', 'MSTRG.21042' => 'ama', 'Nitab4.5_0000559g0040' => 'nta', 'Nitab4.5_0000667g0190' => 'nta', 'Nitab4.5_0000755g0160' => 'nta', 'Nitab4.5_0001216g0080' => 'nta', 'Nitab4.5_0004069g0040' => 'nta', 'Nitab4.5_0004129g0010' => 'nta', 'Nitab4.5_0005744g0030' => 'nta', 'Nitab4.5_0006996g0030' => 'nta', 'Nitab4.5_0008971g0040' => 'nta', 'Nitab4.5_0009769g0020' => 'nta', 'Nitab4.5_0009833g0010' => 'nta', 'Nitab4.5_0013140g0020' => 'nta', 'Nn003s41376' => 'nnu', 'Nn1g01857' => 'nnu', 'Nn1g03611' => 'nnu', 'Nn1g06853' => 'nnu', 'Nn3g18360' => 'nnu', 'Nn4g26328' => 'nnu', 'Nn5g27531' => 'nnu', 'Nn6g34899' => 'nnu', 'Nn7g36299' => 'nnu', 'Oeu021485.1' => 'oeu', 'Oeu022433.1' => 'oeu', 'Oeu032111.1' => 'oeu', 'Oeu051608.1' => 'oeu', 'Os01g0860601' => 'osa', 'Os03g0659200' => 'osa', 'Os03g0835900' => 'osa', 'Os04g0412200' => 'osa', 'Os05g0443500' => 'osa', 'Os07g0251500' => 'osa', 'Os08g0104600' => 'osa', 'Peaxi162Scf00003g00047' => 'pax', 'Peaxi162Scf00003g00052' => 'pax', 'Peaxi162Scf00003g00394' => 'pax', 'Peaxi162Scf00091g00621' => 'pax', 'Peaxi162Scf00152g00146' => 'pax', 'Peaxi162Scf00173g00025' => 'pax', 'Peaxi162Scf00195g00102' => 'pax', 'Peaxi162Scf00402g00013' => 'pax', 'Peaxi162Scf00519g00618' => 'pax', 'PGR004G2838' => 'pgr', 'PGR044G2275' => 'pgr', 'PGR102G1377' => 'pgr', 'PGR119G1245' => 'pgr', 'PGR142G4449' => 'pgr', 'PGSC0003DMG400004532' => 'stu', 'PGSC0003DMG400011950' => 'stu', 'PGSC0003DMG400023391' => 'stu', 'PGSC0003DMG400023985' => 'stu', 'PGSC0003DMG400026360' => 'stu', 'PGSC0003DMG400035711' => 'stu', 'PGSC0003DMG400037286' => 'stu', 'PGSC0003DMG402005881' => 'stu', 'Phvul.002G045400' => 'pvu', 'Phvul.006G216600' => 'pvu', 'Phvul.006G216700' => 'pvu', 'Phvul.006G216800' => 'pvu', 'Phvul.007G022500' => 'pvu', 'Phvul.011G094400' => 'pvu', 'Potri.001G470700' => 'ptr', 'Potri.003G015200' => 'ptr', 'Potri.004G202500' => 'ptr', 'Potri.004G218400' => 'ptr', 'Potri.008G020100' => 'ptr', 'Potri.008G153200' => 'ptr', 'Potri.009G163800' => 'ptr', 'Potri.010G087300' => 'ptr', 'Potri.010G239100' => 'ptr', 'Pp3c10_16100' => 'ppa', 'Pp3c10_16880' => 'ppa', 'Pp3c16_6230' => 'ppa', 'Pp3c17_18910' => 'ppa', 'Pp3c3_22119' => 'ppa', 'Pp3c3_22140' => 'ppa', 'Pp3c4_8159' => 'ppa', 'Pp3c4_8171' => 'ppa', 'Pp3c4_8330' => 'ppa', 'PRCOL_00004098' => 'pco', 'Prupe.1G013900' => 'ppe', 'Prupe.1G226300' => 'ppe', 'Prupe.1G573600' => 'ppe', 'Prupe.6G130100' => 'ppe', 'Psat3g090040' => 'psa', 'Psat4g210440' => 'psa', 'Psat6g231040' => 'psa', 'Psat6g231080' => 'psa', 'Psat7g063000' => 'psa', 'Psat7g188000' => 'psa', 'Psat7g188040' => 'psa', 'PSO017G0206' => 'pso', 'PSO170G0501' => 'pso', 'PSO170G6422' => 'pso', 'PSO210G7739' => 'pso', 'PSO339G1808' => 'pso', 'PSO339G6135' => 'pso', 'PSO384G0010' => 'pso', 'PSO384G0964' => 'pso', 'PSO761G0050' => 'pso', 'PSO782G4085' => 'pso', 'QL01p012264' => 'qlo', 'QL02p099491' => 'qlo', 'QL03p033868' => 'qlo', 'QL04p046678' => 'qlo', 'QL06p002448' => 'qlo', 'RcHm_v2.0_Chr4g0416181' => 'rch', 'RcHm_v2.0_Chr5g0044701' => 'rch', 'RcHm_v2.0_Chr6g0265781' => 'rch', 'RcHm_v2.0_Chr7g0221031' => 'rch', 'Rhsim04G0202000' => 'rsi', 'Rhsim11G0127300' => 'rsi', 'Rhsim13G0111800' => 'rsi', 'Sabra01G0165600' => 'sbr', 'Sabra03G0008300' => 'sbr', 'Sabra04G0136900' => 'sbr', 'Sabra08G0013400' => 'sbr', 'Sabra08G0116800' => 'sbr', 'Sabra09G0128000' => 'sbr', 'Sabra10G0055500' => 'sbr', 'Sabra10G0073300' => 'sbr', 'SalBow3G0385' => 'sbo', 'SalBow3G1119' => 'sbo', 'SalBow3G2005' => 'sbo', 'SalBow6G2563' => 'sbo', 'SalBow6G6386' => 'sbo', 'Sc06g0008800' => 'sci', 'Sc07g0004950' => 'sci', 'Sc09g0005340' => 'sci', 'Sc13g0004410' => 'sci', 'Sc21g0007090' => 'sci', 'Sed0009285' => 'sed', 'Sed0017583' => 'sed', 'Sed0019699' => 'sed', 'Sed0023107' => 'sed', 'SEGI_10916' => 'sgi', 'SEGI_16217' => 'sgi', 'SEGI_19466' => 'sgi', 'SEGI_41115' => 'sgi', 'SGA_v2.0_scaffold111G31534' => 'sas', 'SGA_v2.0_scaffold22G09864' => 'sas', 'SGA_v2.0_scaffold338G49219' => 'sas', 'SGA_v2.0_scaffold92G28298' => 'sas', 'SMO119G0064' => 'smo', 'SMO223G0038' => 'smo', 'SMO347G0584' => 'smo', 'SMO351G0010' => 'smo', 'SMO356G0404' => 'smo', 'Solyc01g103920.3' => 'sly', 'Solyc04g009710.2' => 'sly', 'Solyc05g055280.2' => 'sly', 'Solyc10g044520.3' => 'sly', 'Solyc10g075160.1' => 'sly', 'Solyc11g006910.3' => 'sly', 'Solyc11g068430.3' => 'sly', 'Sopen01g046310' => 'spe', 'Sopen03g001200' => 'spe', 'Sopen04g004830' => 'spe', 'Sopen05g033720' => 'spe', 'Sopen06g030740' => 'spe', 'Sopen10g013090' => 'spe', 'Sopen10g027630' => 'spe', 'Sopen10g027640' => 'spe', 'Sopen11g002820' => 'spe', 'Sopen11g027140' => 'spe', 'Sp1g09680' => 'spa', 'Sp2g03630' => 'spa', 'Sp4g10320' => 'spa', 'Sp6g33400' => 'spa', 'Sp7g13030' => 'spa', 'TAR365G0317' => 'tar', 'TAR376G0979' => 'tar', 'TAR623G1665' => 'tar', 'TAR633G2373' => 'tar', 'TAR636G1400' => 'tar', 'THA.LOC104800529' => 'tha', 'THA.LOC104808547' => 'tha', 'THA.LOC104809615' => 'tha', 'THA.LOC104815724' => 'tha', 'THA.LOC104818480' => 'tha', 'THA.LOC104819179' => 'tha', 'THA.LOC104822270' => 'tha', 'THA.LOC104826425' => 'tha', 'Thecc.02G089700' => 'tca', 'Thecc.04G232300' => 'tca', 'Thecc.09G283400' => 'tca', 'Thhalv10009020m.g' => 'esa', 'Thhalv10015506m.g' => 'esa', 'Thhalv10017364m.g' => 'esa', 'Thhalv10023742m.g' => 'esa', 'Thhalv10026483m.g' => 'esa', 'TPR.G17232' => 'tpr', 'TPR.G2133' => 'tpr', 'TPR.G2498' => 'tpr', 'TPR.G31942' => 'tpr', 'TPR.G37877' => 'tpr', 'TPR.G4571' => 'tpr', 'TWI14G1113' => 'twi', 'TWI15G0426' => 'twi', 'TWI31G1005' => 'twi', 'TWI38G0513' => 'twi', 'TWI38G1484' => 'twi', 'TWI73G1098' => 'twi', 'unitig_26.g10519' => 'ugi', 'unitig_736.g22395' => 'ugi', 'unitig_747.g21234' => 'ugi', 'unitig_747.g21942' => 'ugi', 'vmacro14351' => 'vma', 'VMungo0540G0082' => 'vmu', 'VMungo0540G0405' => 'vmu', 'VMungo0540G1486' => 'vmu', 'VMungo0540G1692' => 'vmu', 'VMungo0720G2473' => 'vmu', 'VMungo1127G1562' => 'vmu', 'VMungo1215G1918' => 'vmu', 'Zm00001eb052650' => 'zma', 'Zm00001eb063710' => 'zma', 'Zm00001eb083950' => 'zma', 'Zm00001eb174420' => 'zma', 'Zm00001eb260140' => 'zma', 'Zm00001eb260150' => 'zma', 'Zm00001eb260160' => 'zma', 'Zm00001eb348290' => 'zma', 'Zm00001eb366870' => 'zma', 'Zm00001eb421930' => 'zma' ), 'gf_id' => 'HOM05D001025', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001025' ), 'data_identifier' => 'HOM05D001025', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001025', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '592', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p22650' => 'bna', 'A01p29720' => 'bna', 'A03p26560' => 'bna', 'A03p68820' => 'bna', 'A04p20980' => 'bna', 'A06p07730' => 'bna', 'A07p18260' => 'bna', 'A08p33710' => 'bna', 'A09p16970' => 'bna', 'A10p27490' => 'bna', 'Aa31LG1G17300' => 'aar', 'Aa31LG1G3910' => 'aar', 'Aa31LG2G9630' => 'aar', 'Aa31LG5G8360' => 'aar', 'Aa31LG9G2410' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4699' => 'aag', 'Actinidia23512' => 'ach', 'Actinidia37080' => 'ach', 'Ah.01g020380' => 'amhyb', 'Ah.08g215710' => 'amhyb', 'Ah.09g225110' => 'amhyb', 'Ah.10g036680' => 'amhyb', 'AL1G21940' => 'aly', 'AL2G15540' => 'aly', 'AL4G21520' => 'aly', 'AL7G40960' => 'aly', 'Aqoxy2G01191' => 'aox', 'Aqoxy2G03393' => 'aox', 'Aqoxy4G02775' => 'aox', 'Aqoxy6G00058' => 'aox', 'arahy.Tifrunner.gnm1.ann1.9X74H2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CW3FX9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R485W7' => 'arhy', 'AT1G10960' => 'ath', 'AT1G60950' => 'ath', 'AT2G27510' => 'ath', 'AT4G14890' => 'ath', 'AT5G10000' => 'ath', 'ATR0665G624' => 'atr', 'ATR0697G138' => 'atr', 'ATR0776G046' => 'atr', 'ATR1134G135' => 'atr', 'Atru.chr12.1025' => 'acertr', 'Atru.chr3.3241' => 'acertr', 'Atru.chr4.2460' => 'acertr', 'AUR62007427' => 'cqu', 'AUR62010960' => 'cqu', 'AUR62012201' => 'cqu', 'AUR62021470' => 'cqu', 'AUR62022834' => 'cqu', 'AUR62033635' => 'cqu', 'AUR62036186' => 'cqu', 'BcaB01g03077' => 'bca', 'BcaB02g10093' => 'bca', 'BcaB04g20295' => 'bca', 'BcaB06g28147' => 'bca', 'BcaB07g31253' => 'bca', 'BcaC01g04946' => 'bca', 'BcaC02g10614' => 'bca', 'BcaC02g10885' => 'bca', 'BcaC04g19356' => 'bca', 'BcaC04g22297' => 'bca', 'BcaC05g24977' => 'bca', 'BcaC06g31823' => 'bca', 'BcaC07g38633' => 'bca', 'BcaC09g49353' => 'bca', 'BcaC09g50168' => 'bca', 'BcaNung00322' => 'bca', 'BcaNung04769' => 'bca', 'BolC1t02753H' => 'bol', 'BolC1t03721H' => 'bol', 'BolC3t15525H' => 'bol', 'BolC4t23903H' => 'bol', 'BolC4t24231H' => 'bol', 'BolC4t27209H' => 'bol', 'BolC5t29671H' => 'bol', 'BolC8t49044H' => 'bol', 'BolC9t54999H' => 'bol', 'BolC9t59517H' => 'bol', 'BraA01t02178Z' => 'bra', 'BraA01t03099Z' => 'bra', 'BraA03t11867Z' => 'bra', 'BraA04t17667Z' => 'bra', 'BraA07t29542Z' => 'bra', 'BraA08t35287Z' => 'bra', 'BraA09t37334Z' => 'bra', 'BraA10t44801Z' => 'bra', 'BraSC39t46181Z' => 'bra', 'C01p28240' => 'bna', 'C01p37530' => 'bna', 'C03p31820' => 'bna', 'C04p24080' => 'bna', 'C04p25790' => 'bna', 'C04p56770' => 'bna', 'C05p09310' => 'bna', 'C09p21010' => 'bna', 'C09p67560' => 'bna', 'CAN.G1324.7' => 'can', 'CAN.G1358.10' => 'can', 'CAN.G1550.2' => 'can', 'CAN.G186.56' => 'can', 'CAN.G1965.1' => 'can', 'CAN.G645.15' => 'can', 'CAN.G798.26' => 'can', 'CAN.G798.27' => 'can', 'CAN.G798.29' => 'can', 'CAN.G919.31' => 'can', 'CANSAT11G0133' => 'cansat', 'CANSAT11G1171' => 'cansat', 'CANSAT11G2056' => 'cansat', 'CANSAT56G1202' => 'cansat', 'CANSAT56G1514' => 'cansat', 'CANSAT78G0455' => 'cansat', 'CARHR011190' => 'chi', 'CARHR051980' => 'chi', 'CARHR120170' => 'chi', 'CARHR203310' => 'chi', 'CARHR221490' => 'chi', 'Carub.0001s1054' => 'cru', 'Carub.0002s0431' => 'cru', 'Carub.0004s0818' => 'cru', 'Carub.0006s0846' => 'cru', 'Carub.0007s2722' => 'cru', 'Ca_00058_v3' => 'car', 'Ca_17831_v3' => 'car', 'Ca_19408_v3' => 'car', 'Ca_24397_v3' => 'car', 'Ca_25664_v3' => 'car', 'CBR_g21818' => 'cbr', 'CBR_g31195' => 'cbr', 'CBR_g32282' => 'cbr', 'CBR_g39599' => 'cbr', 'CBR_g49410' => 'cbr', 'Cc01_g09120' => 'ccan', 'Cc01_g09130' => 'ccan', 'Cc02_g09630' => 'ccan', 'Cc02_g22810' => 'ccan', 'Cc03_g03810' => 'ccan', 'CDE02G3718' => 'cde', 'CDE04G3183' => 'cde', 'CDE07G1046' => 'cde', 'CDE08G0480' => 'cde', 'Cfa005493' => 'cfa', 'Cfa010312' => 'cfa', 'Cfa015648' => 'cfa', 'Ciclev10002793m.g' => 'ccl', 'Ciclev10003356m.g' => 'ccl', 'Ciclev10006141m.g' => 'ccl', 'Ciclev10016676m.g' => 'ccl', 'Ciclev10017081m.g' => 'ccl', 'Ciclev10029499m.g' => 'ccl', 'CiPaw.01G166300' => 'cil', 'CiPaw.06G145600' => 'cil', 'CiPaw.13G040100' => 'cil', 'CiPaw.13G135800' => 'cil', 'ClCG01G012230' => 'cla', 'ClCG05G009510' => 'cla', 'ClCG08G008270' => 'cla', 'COL.COLO4_11763' => 'col', 'COL.COLO4_19876' => 'col', 'COL.COLO4_21481' => 'col', 'Cpa.g.sc118.34' => 'cpa', 'Cpa.g.sc32.13' => 'cpa', 'Cpa.g.sc58.103' => 'cpa', 'Cre03.g183850' => 'cre', 'Cre06.g306350' => 'cre', 'Cre07.g334800' => 'cre', 'Cre12.g487900' => 'cre', 'Cre14.g626700' => 'cre', 'Cre16.g658400' => 'cre', 'Cre17.g700950' => 'cre', 'CsaV3_1G014830' => 'csa', 'CsaV3_3G013320' => 'csa', 'CsaV3_3G019210' => 'csa', 'CsaV3_3G019220' => 'csa', 'CsaV3_6G004230' => 'csa', 'CSS0003773' => 'camsi', 'CSS0004563' => 'camsi', 'CSS0013949' => 'camsi', 'CSS0025971' => 'camsi', 'CSS0028570' => 'camsi', 'CSS0033127' => 'camsi', 'CSS0036051' => 'camsi', 'CSS0040087' => 'camsi', 'CSS0043179' => 'camsi', 'DCAR_006161' => 'dca', 'DCAR_010351' => 'dca', 'DCAR_012197' => 'dca', 'DCAR_024162' => 'dca', 'Dinv01030' => 'din', 'Dinv10924' => 'din', 'Dinv11835' => 'din', 'Dinv22841' => 'din', 'Dinv42553' => 'din', 'Duzib052G0560' => 'dzi', 'Duzib132G0389' => 'dzi', 'Duzib150G1181' => 'dzi', 'Duzib168G0623' => 'dzi', 'Duzib170G1036' => 'dzi', 'Duzib212G0200' => 'dzi', 'Duzib248G0194' => 'dzi', 'ECA232G2193' => 'eca', 'ECA233G0302' => 'eca', 'ECA234G2813' => 'eca', 'ECA234G4866' => 'eca', 'ECA240G3932' => 'eca', 'ECA248G0385' => 'eca', 'EL10Ac2g04781' => 'bvu', 'EL10Ac3g06445' => 'bvu', 'EL10Ac7g15825' => 'bvu', 'EL10Ac8g18550' => 'bvu', 'Eucgr.B03849' => 'egr', 'Eucgr.I02744' => 'egr', 'Eucgr.J00264' => 'egr', 'Eucgr.J00493' => 'egr', 'FAN04G2181' => 'fan', 'FAN07G2666' => 'fan', 'FAN11G0024' => 'fan', 'FAN12G1105' => 'fan', 'FAN13G0302' => 'fan', 'FAN15G2781' => 'fan', 'FAN16G1274' => 'fan', 'FAN17G2988' => 'fan', 'FAN18G2621' => 'fan', 'FAN21G0013' => 'fan', 'FAN22G1211' => 'fan', 'FAN25G3626' => 'fan', 'FvH4_2g09491' => 'fve', 'FvH4_3g24910' => 'fve', 'FvH4_4g15630' => 'fve', 'FvH4_5g28820' => 'fve', 'Glyma.01G238000' => 'gma', 'Glyma.05G168400' => 'gma', 'Glyma.08G126800' => 'gma', 'Glyma.08G188500' => 'gma', 'Glyma.10G278900' => 'gma', 'Glyma.11G005700' => 'gma', 'Glyma.11G183300' => 'gma', 'Glyma.12G089200' => 'gma', 'Glyma.12G169400' => 'gma', 'Glyma.12G169500' => 'gma', 'Glyma.12G169600' => 'gma', 'Glyma.20G110800' => 'gma', 'Gohir.A03G192900' => 'ghi', 'Gohir.A03G193000' => 'ghi', 'Gohir.A05G080700' => 'ghi', 'Gohir.A09G216000' => 'ghi', 'Gohir.A12G027700' => 'ghi', 'Gohir.A13G036200' => 'ghi', 'Gohir.A13G222600' => 'ghi', 'Gohir.D02G213900' => 'ghi', 'Gohir.D02G214000' => 'ghi', 'Gohir.D05G083700' => 'ghi', 'Gohir.D05G083800' => 'ghi', 'Gohir.D05G083850' => 'ghi', 'Gohir.D08G015400' => 'ghi', 'Gohir.D09G218400' => 'ghi', 'Gohir.D12G027100' => 'ghi', 'Gohir.D13G034500' => 'ghi', 'Gohir.D13G227400' => 'ghi', 'Gorai.005G241800' => 'gra', 'Gorai.005G241900' => 'gra', 'Gorai.006G239400' => 'gra', 'Gorai.008G027600' => 'gra', 'Gorai.009G085400' => 'gra', 'Gorai.009G085500' => 'gra', 'Gorai.013G039000' => 'gra', 'Gorai.013G194800' => 'gra', 'Gorai.013G257900' => 'gra', 'GSVIVG01000982001' => 'vvi', 'GSVIVG01017981001' => 'vvi', 'HanXRQChr01g0024061' => 'han', 'HanXRQChr09g0247831' => 'han', 'HanXRQChr10g0294611' => 'han', 'HanXRQChr10g0294621' => 'han', 'HanXRQChr11g0346821' => 'han', 'HanXRQChr13g0397461' => 'han', 'HanXRQChr16g0513651' => 'han', 'HanXRQChr16g0513701' => 'han', 'Haze_00897' => 'cav', 'Haze_01745' => 'cav', 'Haze_02486' => 'cav', 'Haze_02487' => 'cav', 'Haze_23374' => 'cav', 'Hma1.2p1_0578F.1_g182520' => 'hma', 'Hma1.2p1_0602F.1_g187350' => 'hma', 'Hma1.2p1_0602F.1_g187360' => 'hma', 'Hma1.2p1_0874F.1_g231320' => 'hma', 'Hma1.2p1_1197F.1_g266210' => 'hma', 'Hma1.2p1_1197F.1_g266220' => 'hma', 'Hma1.2p1_2167F.1_g315895' => 'hma', 'Hma1.2p1_2190F.1_g316640' => 'hma', 'Hma1.2p1_3645F.1_g337153' => 'hma', 'HPP92_004907' => 'vpl', 'HPP92_012134' => 'vpl', 'HPP92_025136' => 'vpl', 'HPP92_026087' => 'vpl', 'Hund06782' => 'sun', 'Hund06784' => 'sun', 'Lalb_Chr01g0004861' => 'lal', 'Lalb_Chr02g0140591' => 'lal', 'Lalb_Chr02g0140611' => 'lal', 'Lalb_Chr03g0028101' => 'lal', 'Lalb_Chr07g0185791' => 'lal', 'Lalb_Chr12g0204491' => 'lal', 'Lalb_Chr13g0295671' => 'lal', 'Lalb_Chr19g0136461' => 'lal', 'Lalb_Chr21g0309191' => 'lal', 'Lj1g0028158' => 'lja', 'Lj1P236T38' => 'lonja', 'Lj2C32G2' => 'lonja', 'Lj2P944T8' => 'lonja', 'Lj2P963T15' => 'lonja', 'Lj3g0011788' => 'lja', 'Lj4g0025027' => 'lja', 'Lj5P255T36' => 'lonja', 'Lj6g0018866' => 'lja', 'Lj6P608T31' => 'lonja', 'LjContig00408g0008879' => 'lja', 'Lsat_1_v5_gn_5_105820' => 'lsa', 'Lsat_1_v5_gn_6_38800' => 'lsa', 'Lsat_1_v5_gn_7_67141' => 'lsa', 'Manes.04G003400' => 'mes', 'Manes.07G020000' => 'mes', 'Manes.07G020100' => 'mes', 'Manes.07G020150' => 'mes', 'Manes.10G061500' => 'mes', 'Manes.10G123200' => 'mes', 'Manes.11G161900' => 'mes', 'Manes.15G029300' => 'mes', 'Mapoly0071s0018' => 'mpo', 'Mapoly0082s0023' => 'mpo', 'Mapoly3477s0001' => 'mpo', 'MBI05_g31233_MAGBIO' => 'mbi', 'MBI09_g05946_MAGBIO' => 'mbi', 'MBI09_g05947_MAGBIO' => 'mbi', 'MBI17_g08346_MAGBIO' => 'mbi', 'MCO04G038' => 'mco', 'MCO09G370' => 'mco', 'MCO13G605' => 'mco', 'MD00G1075500' => 'mdo', 'MD03G1144300' => 'mdo', 'MD08G1236800' => 'mdo', 'MD13G1193300' => 'mdo', 'MD15G1428700' => 'mdo', 'Medtr1g112030' => 'mtr', 'Medtr1g112050' => 'mtr', 'Medtr2g006290' => 'mtr', 'Medtr2g086510' => 'mtr', 'Medtr4g053120' => 'mtr', 'Medtr5g006320' => 'mtr', 'Medtr8g088720' => 'mtr', 'MELO3C004712.2' => 'cme', 'MELO3C006533.2' => 'cme', 'MELO3C019438.2' => 'cme', 'MELO3C019440.2' => 'cme', 'MELO3C019441.2' => 'cme', 'MELO3C019895.2' => 'cme', 'Migut.B00811' => 'egut', 'Migut.D02447' => 'egut', 'Migut.F00875' => 'egut', 'Migut.N00186' => 'egut', 'Migut.N01051' => 'egut', 'Migut.N02491' => 'egut', 'Migut.O00784' => 'egut', 'MSTRG.12367' => 'ama', 'MSTRG.18756' => 'ama', 'MSTRG.21042' => 'ama', 'Nitab4.5_0000559g0040' => 'nta', 'Nitab4.5_0000667g0190' => 'nta', 'Nitab4.5_0000755g0160' => 'nta', 'Nitab4.5_0001216g0080' => 'nta', 'Nitab4.5_0004069g0040' => 'nta', 'Nitab4.5_0004129g0010' => 'nta', 'Nitab4.5_0005744g0030' => 'nta', 'Nitab4.5_0006996g0030' => 'nta', 'Nitab4.5_0008971g0040' => 'nta', 'Nitab4.5_0009769g0020' => 'nta', 'Nitab4.5_0009833g0010' => 'nta', 'Nitab4.5_0013140g0020' => 'nta', 'Nn003s41376' => 'nnu', 'Nn1g01857' => 'nnu', 'Nn1g03611' => 'nnu', 'Nn1g06853' => 'nnu', 'Nn3g18360' => 'nnu', 'Nn4g26328' => 'nnu', 'Nn5g27531' => 'nnu', 'Nn6g34899' => 'nnu', 'Nn7g36299' => 'nnu', 'Oeu021485.1' => 'oeu', 'Oeu022433.1' => 'oeu', 'Oeu032111.1' => 'oeu', 'Oeu051608.1' => 'oeu', 'Os01g0860601' => 'osa', 'Os03g0659200' => 'osa', 'Os03g0835900' => 'osa', 'Os04g0412200' => 'osa', 'Os05g0443500' => 'osa', 'Os07g0251500' => 'osa', 'Os08g0104600' => 'osa', 'Peaxi162Scf00003g00047' => 'pax', 'Peaxi162Scf00003g00052' => 'pax', 'Peaxi162Scf00003g00394' => 'pax', 'Peaxi162Scf00091g00621' => 'pax', 'Peaxi162Scf00152g00146' => 'pax', 'Peaxi162Scf00173g00025' => 'pax', 'Peaxi162Scf00195g00102' => 'pax', 'Peaxi162Scf00402g00013' => 'pax', 'Peaxi162Scf00519g00618' => 'pax', 'PGR004G2838' => 'pgr', 'PGR044G2275' => 'pgr', 'PGR102G1377' => 'pgr', 'PGR119G1245' => 'pgr', 'PGR142G4449' => 'pgr', 'PGSC0003DMG400004532' => 'stu', 'PGSC0003DMG400011950' => 'stu', 'PGSC0003DMG400023391' => 'stu', 'PGSC0003DMG400023985' => 'stu', 'PGSC0003DMG400026360' => 'stu', 'PGSC0003DMG400035711' => 'stu', 'PGSC0003DMG400037286' => 'stu', 'PGSC0003DMG402005881' => 'stu', 'Phvul.002G045400' => 'pvu', 'Phvul.006G216600' => 'pvu', 'Phvul.006G216700' => 'pvu', 'Phvul.006G216800' => 'pvu', 'Phvul.007G022500' => 'pvu', 'Phvul.011G094400' => 'pvu', 'Potri.001G470700' => 'ptr', 'Potri.003G015200' => 'ptr', 'Potri.004G202500' => 'ptr', 'Potri.004G218400' => 'ptr', 'Potri.008G020100' => 'ptr', 'Potri.008G153200' => 'ptr', 'Potri.009G163800' => 'ptr', 'Potri.010G087300' => 'ptr', 'Potri.010G239100' => 'ptr', 'Pp3c10_16100' => 'ppa', 'Pp3c10_16880' => 'ppa', 'Pp3c16_6230' => 'ppa', 'Pp3c17_18910' => 'ppa', 'Pp3c3_22119' => 'ppa', 'Pp3c3_22140' => 'ppa', 'Pp3c4_8159' => 'ppa', 'Pp3c4_8171' => 'ppa', 'Pp3c4_8330' => 'ppa', 'PRCOL_00004098' => 'pco', 'Prupe.1G013900' => 'ppe', 'Prupe.1G226300' => 'ppe', 'Prupe.1G573600' => 'ppe', 'Prupe.6G130100' => 'ppe', 'Psat3g090040' => 'psa', 'Psat4g210440' => 'psa', 'Psat6g231040' => 'psa', 'Psat6g231080' => 'psa', 'Psat7g063000' => 'psa', 'Psat7g188000' => 'psa', 'Psat7g188040' => 'psa', 'PSO017G0206' => 'pso', 'PSO170G0501' => 'pso', 'PSO170G6422' => 'pso', 'PSO210G7739' => 'pso', 'PSO339G1808' => 'pso', 'PSO339G6135' => 'pso', 'PSO384G0010' => 'pso', 'PSO384G0964' => 'pso', 'PSO761G0050' => 'pso', 'PSO782G4085' => 'pso', 'QL01p012264' => 'qlo', 'QL02p099491' => 'qlo', 'QL03p033868' => 'qlo', 'QL04p046678' => 'qlo', 'QL06p002448' => 'qlo', 'RcHm_v2.0_Chr4g0416181' => 'rch', 'RcHm_v2.0_Chr5g0044701' => 'rch', 'RcHm_v2.0_Chr6g0265781' => 'rch', 'RcHm_v2.0_Chr7g0221031' => 'rch', 'Rhsim04G0202000' => 'rsi', 'Rhsim11G0127300' => 'rsi', 'Rhsim13G0111800' => 'rsi', 'Sabra01G0165600' => 'sbr', 'Sabra03G0008300' => 'sbr', 'Sabra04G0136900' => 'sbr', 'Sabra08G0013400' => 'sbr', 'Sabra08G0116800' => 'sbr', 'Sabra09G0128000' => 'sbr', 'Sabra10G0055500' => 'sbr', 'Sabra10G0073300' => 'sbr', 'SalBow3G0385' => 'sbo', 'SalBow3G1119' => 'sbo', 'SalBow3G2005' => 'sbo', 'SalBow6G2563' => 'sbo', 'SalBow6G6386' => 'sbo', 'Sc06g0008800' => 'sci', 'Sc07g0004950' => 'sci', 'Sc09g0005340' => 'sci', 'Sc13g0004410' => 'sci', 'Sc21g0007090' => 'sci', 'Sed0009285' => 'sed', 'Sed0017583' => 'sed', 'Sed0019699' => 'sed', 'Sed0023107' => 'sed', 'SEGI_10916' => 'sgi', 'SEGI_16217' => 'sgi', 'SEGI_19466' => 'sgi', 'SEGI_41115' => 'sgi', 'SGA_v2.0_scaffold111G31534' => 'sas', 'SGA_v2.0_scaffold22G09864' => 'sas', 'SGA_v2.0_scaffold338G49219' => 'sas', 'SGA_v2.0_scaffold92G28298' => 'sas', 'SMO119G0064' => 'smo', 'SMO223G0038' => 'smo', 'SMO347G0584' => 'smo', 'SMO351G0010' => 'smo', 'SMO356G0404' => 'smo', 'Solyc01g103920.3' => 'sly', 'Solyc04g009710.2' => 'sly', 'Solyc05g055280.2' => 'sly', 'Solyc10g044520.3' => 'sly', 'Solyc10g075160.1' => 'sly', 'Solyc11g006910.3' => 'sly', 'Solyc11g068430.3' => 'sly', 'Sopen01g046310' => 'spe', 'Sopen03g001200' => 'spe', 'Sopen04g004830' => 'spe', 'Sopen05g033720' => 'spe', 'Sopen06g030740' => 'spe', 'Sopen10g013090' => 'spe', 'Sopen10g027630' => 'spe', 'Sopen10g027640' => 'spe', 'Sopen11g002820' => 'spe', 'Sopen11g027140' => 'spe', 'Sp1g09680' => 'spa', 'Sp2g03630' => 'spa', 'Sp4g10320' => 'spa', 'Sp6g33400' => 'spa', 'Sp7g13030' => 'spa', 'TAR365G0317' => 'tar', 'TAR376G0979' => 'tar', 'TAR623G1665' => 'tar', 'TAR633G2373' => 'tar', 'TAR636G1400' => 'tar', 'THA.LOC104800529' => 'tha', 'THA.LOC104808547' => 'tha', 'THA.LOC104809615' => 'tha', 'THA.LOC104815724' => 'tha', 'THA.LOC104818480' => 'tha', 'THA.LOC104819179' => 'tha', 'THA.LOC104822270' => 'tha', 'THA.LOC104826425' => 'tha', 'Thecc.02G089700' => 'tca', 'Thecc.04G232300' => 'tca', 'Thecc.09G283400' => 'tca', 'Thhalv10009020m.g' => 'esa', 'Thhalv10015506m.g' => 'esa', 'Thhalv10017364m.g' => 'esa', 'Thhalv10023742m.g' => 'esa', 'Thhalv10026483m.g' => 'esa', 'TPR.G17232' => 'tpr', 'TPR.G2133' => 'tpr', 'TPR.G2498' => 'tpr', 'TPR.G31942' => 'tpr', 'TPR.G37877' => 'tpr', 'TPR.G4571' => 'tpr', 'TWI14G1113' => 'twi', 'TWI15G0426' => 'twi', 'TWI31G1005' => 'twi', 'TWI38G0513' => 'twi', 'TWI38G1484' => 'twi', 'TWI73G1098' => 'twi', 'unitig_26.g10519' => 'ugi', 'unitig_736.g22395' => 'ugi', 'unitig_747.g21234' => 'ugi', 'unitig_747.g21942' => 'ugi', 'vmacro14351' => 'vma', 'VMungo0540G0082' => 'vmu', 'VMungo0540G0405' => 'vmu', 'VMungo0540G1486' => 'vmu', 'VMungo0540G1692' => 'vmu', 'VMungo0720G2473' => 'vmu', 'VMungo1127G1562' => 'vmu', 'VMungo1215G1918' => 'vmu', 'Zm00001eb052650' => 'zma', 'Zm00001eb063710' => 'zma', 'Zm00001eb083950' => 'zma', 'Zm00001eb174420' => 'zma', 'Zm00001eb260140' => 'zma', 'Zm00001eb260150' => 'zma', 'Zm00001eb260160' => 'zma', 'Zm00001eb348290' => 'zma', 'Zm00001eb366870' => 'zma', 'Zm00001eb421930' => 'zma' ) $gf_id = 'HOM05D001025' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001025' ) $data_identifier = 'HOM05D001025' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 19, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 2, 'amhyb' => (int) 4, 'aly' => (int) 4, 'aox' => (int) 4, 'arhy' => (int) 3, 'ath' => (int) 5, 'atr' => (int) 4, 'acertr' => (int) 3, 'cqu' => (int) 7, 'bca' => (int) 17, 'bol' => (int) 10, 'bra' => (int) 9, 'can' => (int) 10, 'cansat' => (int) 6, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 5, 'cbr' => (int) 5, 'ccan' => (int) 5, 'cde' => (int) 4, 'cfa' => (int) 3, 'ccl' => (int) 6, 'cil' => (int) 4, 'cla' => (int) 3, 'col' => (int) 3, 'cpa' => (int) 3, 'cre' => (int) 7, 'csa' => (int) 5, 'camsi' => (int) 9, 'dca' => (int) 4, 'din' => (int) 5, 'dzi' => (int) 7, 'eca' => (int) 6, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 12, 'fve' => (int) 4, 'gma' => (int) 12, 'ghi' => (int) 17, 'gra' => (int) 9, 'vvi' => (int) 2, 'han' => (int) 8, 'cav' => (int) 5, 'hma' => (int) 9, 'vpl' => (int) 4, 'sun' => (int) 2, 'lal' => (int) 9, 'lja' => (int) 5, 'lonja' => (int) 6, 'lsa' => (int) 3, 'mes' => (int) 8, 'mpo' => (int) 3, 'mbi' => (int) 4, 'mco' => (int) 3, 'mdo' => (int) 5, 'mtr' => (int) 7, 'cme' => (int) 6, 'egut' => (int) 7, 'ama' => (int) 3, 'nta' => (int) 12, 'nnu' => (int) 9, 'oeu' => (int) 4, 'osa' => (int) 7, 'pax' => (int) 9, 'pgr' => (int) 5, 'stu' => (int) 8, 'pvu' => (int) 6, 'ptr' => (int) 9, 'ppa' => (int) 9, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 7, 'pso' => (int) 10, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 3, 'sbr' => (int) 8, 'sbo' => (int) 5, 'sci' => (int) 5, 'sed' => (int) 4, 'sgi' => (int) 4, 'sas' => (int) 4, 'smo' => (int) 5, 'sly' => (int) 7, 'spe' => (int) 10, 'spa' => (int) 5, 'tar' => (int) 5, 'tha' => (int) 8, 'tca' => (int) 3, 'esa' => (int) 5, 'tpr' => (int) 6, 'twi' => (int) 6, 'ugi' => (int) 4, 'vma' => (int) 1, 'vmu' => (int) 7, 'zma' => (int) 10 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb421930' $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' => 'HOM05D001025', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '592', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p22650' => 'bna', 'A01p29720' => 'bna', 'A03p26560' => 'bna', 'A03p68820' => 'bna', 'A04p20980' => 'bna', 'A06p07730' => 'bna', 'A07p18260' => 'bna', 'A08p33710' => 'bna', 'A09p16970' => 'bna', 'A10p27490' => 'bna', 'Aa31LG1G17300' => 'aar', 'Aa31LG1G3910' => 'aar', 'Aa31LG2G9630' => 'aar', 'Aa31LG5G8360' => 'aar', 'Aa31LG9G2410' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4699' => 'aag', 'Actinidia23512' => 'ach', 'Actinidia37080' => 'ach', 'Ah.01g020380' => 'amhyb', 'Ah.08g215710' => 'amhyb', 'Ah.09g225110' => 'amhyb', 'Ah.10g036680' => 'amhyb', 'AL1G21940' => 'aly', 'AL2G15540' => 'aly', 'AL4G21520' => 'aly', 'AL7G40960' => 'aly', 'Aqoxy2G01191' => 'aox', 'Aqoxy2G03393' => 'aox', 'Aqoxy4G02775' => 'aox', 'Aqoxy6G00058' => 'aox', 'arahy.Tifrunner.gnm1.ann1.9X74H2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CW3FX9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R485W7' => 'arhy', 'AT1G10960' => 'ath', 'AT1G60950' => 'ath', 'AT2G27510' => 'ath', 'AT4G14890' => 'ath', 'AT5G10000' => 'ath', 'ATR0665G624' => 'atr', 'ATR0697G138' => 'atr', 'ATR0776G046' => 'atr', 'ATR1134G135' => 'atr', 'Atru.chr12.1025' => 'acertr', 'Atru.chr3.3241' => 'acertr', 'Atru.chr4.2460' => 'acertr', 'AUR62007427' => 'cqu', 'AUR62010960' => 'cqu', 'AUR62012201' => 'cqu', 'AUR62021470' => 'cqu', 'AUR62022834' => 'cqu', 'AUR62033635' => 'cqu', 'AUR62036186' => 'cqu', 'BcaB01g03077' => 'bca', 'BcaB02g10093' => 'bca', 'BcaB04g20295' => 'bca', 'BcaB06g28147' => 'bca', 'BcaB07g31253' => 'bca', 'BcaC01g04946' => 'bca', 'BcaC02g10614' => 'bca', 'BcaC02g10885' => 'bca', 'BcaC04g19356' => 'bca', 'BcaC04g22297' => 'bca', 'BcaC05g24977' => 'bca', 'BcaC06g31823' => 'bca', 'BcaC07g38633' => 'bca', 'BcaC09g49353' => 'bca', 'BcaC09g50168' => 'bca', 'BcaNung00322' => 'bca', 'BcaNung04769' => 'bca', 'BolC1t02753H' => 'bol', 'BolC1t03721H' => 'bol', 'BolC3t15525H' => 'bol', 'BolC4t23903H' => 'bol', 'BolC4t24231H' => 'bol', 'BolC4t27209H' => 'bol', 'BolC5t29671H' => 'bol', 'BolC8t49044H' => 'bol', 'BolC9t54999H' => 'bol', 'BolC9t59517H' => 'bol', 'BraA01t02178Z' => 'bra', 'BraA01t03099Z' => 'bra', 'BraA03t11867Z' => 'bra', 'BraA04t17667Z' => 'bra', 'BraA07t29542Z' => 'bra', 'BraA08t35287Z' => 'bra', 'BraA09t37334Z' => 'bra', 'BraA10t44801Z' => 'bra', 'BraSC39t46181Z' => 'bra', 'C01p28240' => 'bna', 'C01p37530' => 'bna', 'C03p31820' => 'bna', 'C04p24080' => 'bna', 'C04p25790' => 'bna', 'C04p56770' => 'bna', 'C05p09310' => 'bna', 'C09p21010' => 'bna', 'C09p67560' => 'bna', 'CAN.G1324.7' => 'can', 'CAN.G1358.10' => 'can', 'CAN.G1550.2' => 'can', 'CAN.G186.56' => 'can', 'CAN.G1965.1' => 'can', 'CAN.G645.15' => 'can', 'CAN.G798.26' => 'can', 'CAN.G798.27' => 'can', 'CAN.G798.29' => 'can', 'CAN.G919.31' => 'can', 'CANSAT11G0133' => 'cansat', 'CANSAT11G1171' => 'cansat', 'CANSAT11G2056' => 'cansat', 'CANSAT56G1202' => 'cansat', 'CANSAT56G1514' => 'cansat', 'CANSAT78G0455' => 'cansat', 'CARHR011190' => 'chi', 'CARHR051980' => 'chi', 'CARHR120170' => 'chi', 'CARHR203310' => 'chi', 'CARHR221490' => 'chi', 'Carub.0001s1054' => 'cru', 'Carub.0002s0431' => 'cru', 'Carub.0004s0818' => 'cru', 'Carub.0006s0846' => 'cru', 'Carub.0007s2722' => 'cru', 'Ca_00058_v3' => 'car', 'Ca_17831_v3' => 'car', 'Ca_19408_v3' => 'car', 'Ca_24397_v3' => 'car', 'Ca_25664_v3' => 'car', 'CBR_g21818' => 'cbr', 'CBR_g31195' => 'cbr', 'CBR_g32282' => 'cbr', 'CBR_g39599' => 'cbr', 'CBR_g49410' => 'cbr', 'Cc01_g09120' => 'ccan', 'Cc01_g09130' => 'ccan', 'Cc02_g09630' => 'ccan', 'Cc02_g22810' => 'ccan', 'Cc03_g03810' => 'ccan', 'CDE02G3718' => 'cde', 'CDE04G3183' => 'cde', 'CDE07G1046' => 'cde', 'CDE08G0480' => 'cde', 'Cfa005493' => 'cfa', 'Cfa010312' => 'cfa', 'Cfa015648' => 'cfa', 'Ciclev10002793m.g' => 'ccl', 'Ciclev10003356m.g' => 'ccl', 'Ciclev10006141m.g' => 'ccl', 'Ciclev10016676m.g' => 'ccl', 'Ciclev10017081m.g' => 'ccl', 'Ciclev10029499m.g' => 'ccl', 'CiPaw.01G166300' => 'cil', 'CiPaw.06G145600' => 'cil', 'CiPaw.13G040100' => 'cil', 'CiPaw.13G135800' => 'cil', 'ClCG01G012230' => 'cla', 'ClCG05G009510' => 'cla', 'ClCG08G008270' => 'cla', 'COL.COLO4_11763' => 'col', 'COL.COLO4_19876' => 'col', 'COL.COLO4_21481' => 'col', 'Cpa.g.sc118.34' => 'cpa', 'Cpa.g.sc32.13' => 'cpa', 'Cpa.g.sc58.103' => 'cpa', 'Cre03.g183850' => 'cre', 'Cre06.g306350' => 'cre', 'Cre07.g334800' => 'cre', 'Cre12.g487900' => 'cre', 'Cre14.g626700' => 'cre', 'Cre16.g658400' => 'cre', 'Cre17.g700950' => 'cre', 'CsaV3_1G014830' => 'csa', 'CsaV3_3G013320' => 'csa', 'CsaV3_3G019210' => 'csa', 'CsaV3_3G019220' => 'csa', 'CsaV3_6G004230' => 'csa', 'CSS0003773' => 'camsi', 'CSS0004563' => 'camsi', 'CSS0013949' => 'camsi', 'CSS0025971' => 'camsi', 'CSS0028570' => 'camsi', 'CSS0033127' => 'camsi', 'CSS0036051' => 'camsi', 'CSS0040087' => 'camsi', 'CSS0043179' => 'camsi', 'DCAR_006161' => 'dca', 'DCAR_010351' => 'dca', 'DCAR_012197' => 'dca', 'DCAR_024162' => 'dca', 'Dinv01030' => 'din', 'Dinv10924' => 'din', 'Dinv11835' => 'din', 'Dinv22841' => 'din', 'Dinv42553' => 'din', 'Duzib052G0560' => 'dzi', 'Duzib132G0389' => 'dzi', 'Duzib150G1181' => 'dzi', 'Duzib168G0623' => 'dzi', 'Duzib170G1036' => 'dzi', 'Duzib212G0200' => 'dzi', 'Duzib248G0194' => 'dzi', 'ECA232G2193' => 'eca', 'ECA233G0302' => 'eca', 'ECA234G2813' => 'eca', 'ECA234G4866' => 'eca', 'ECA240G3932' => 'eca', 'ECA248G0385' => 'eca', 'EL10Ac2g04781' => 'bvu', 'EL10Ac3g06445' => 'bvu', 'EL10Ac7g15825' => 'bvu', 'EL10Ac8g18550' => 'bvu', 'Eucgr.B03849' => 'egr', 'Eucgr.I02744' => 'egr', 'Eucgr.J00264' => 'egr', 'Eucgr.J00493' => 'egr', 'FAN04G2181' => 'fan', 'FAN07G2666' => 'fan', 'FAN11G0024' => 'fan', 'FAN12G1105' => 'fan', 'FAN13G0302' => 'fan', 'FAN15G2781' => 'fan', 'FAN16G1274' => 'fan', 'FAN17G2988' => 'fan', 'FAN18G2621' => 'fan', 'FAN21G0013' => 'fan', 'FAN22G1211' => 'fan', 'FAN25G3626' => 'fan', 'FvH4_2g09491' => 'fve', 'FvH4_3g24910' => 'fve', 'FvH4_4g15630' => 'fve', 'FvH4_5g28820' => 'fve', 'Glyma.01G238000' => 'gma', 'Glyma.05G168400' => 'gma', 'Glyma.08G126800' => 'gma', 'Glyma.08G188500' => 'gma', 'Glyma.10G278900' => 'gma', 'Glyma.11G005700' => 'gma', 'Glyma.11G183300' => 'gma', 'Glyma.12G089200' => 'gma', 'Glyma.12G169400' => 'gma', 'Glyma.12G169500' => 'gma', 'Glyma.12G169600' => 'gma', 'Glyma.20G110800' => 'gma', 'Gohir.A03G192900' => 'ghi', 'Gohir.A03G193000' => 'ghi', 'Gohir.A05G080700' => 'ghi', 'Gohir.A09G216000' => 'ghi', 'Gohir.A12G027700' => 'ghi', 'Gohir.A13G036200' => 'ghi', 'Gohir.A13G222600' => 'ghi', 'Gohir.D02G213900' => 'ghi', 'Gohir.D02G214000' => 'ghi', 'Gohir.D05G083700' => 'ghi', 'Gohir.D05G083800' => 'ghi', 'Gohir.D05G083850' => 'ghi', 'Gohir.D08G015400' => 'ghi', 'Gohir.D09G218400' => 'ghi', 'Gohir.D12G027100' => 'ghi', 'Gohir.D13G034500' => 'ghi', 'Gohir.D13G227400' => 'ghi', 'Gorai.005G241800' => 'gra', 'Gorai.005G241900' => 'gra', 'Gorai.006G239400' => 'gra', 'Gorai.008G027600' => 'gra', 'Gorai.009G085400' => 'gra', 'Gorai.009G085500' => 'gra', 'Gorai.013G039000' => 'gra', 'Gorai.013G194800' => 'gra', 'Gorai.013G257900' => 'gra', 'GSVIVG01000982001' => 'vvi', 'GSVIVG01017981001' => 'vvi', 'HanXRQChr01g0024061' => 'han', 'HanXRQChr09g0247831' => 'han', 'HanXRQChr10g0294611' => 'han', 'HanXRQChr10g0294621' => 'han', 'HanXRQChr11g0346821' => 'han', 'HanXRQChr13g0397461' => 'han', 'HanXRQChr16g0513651' => 'han', 'HanXRQChr16g0513701' => 'han', 'Haze_00897' => 'cav', 'Haze_01745' => 'cav', 'Haze_02486' => 'cav', 'Haze_02487' => 'cav', 'Haze_23374' => 'cav', 'Hma1.2p1_0578F.1_g182520' => 'hma', 'Hma1.2p1_0602F.1_g187350' => 'hma', 'Hma1.2p1_0602F.1_g187360' => 'hma', 'Hma1.2p1_0874F.1_g231320' => 'hma', 'Hma1.2p1_1197F.1_g266210' => 'hma', 'Hma1.2p1_1197F.1_g266220' => 'hma', 'Hma1.2p1_2167F.1_g315895' => 'hma', 'Hma1.2p1_2190F.1_g316640' => 'hma', 'Hma1.2p1_3645F.1_g337153' => 'hma', 'HPP92_004907' => 'vpl', 'HPP92_012134' => 'vpl', 'HPP92_025136' => 'vpl', 'HPP92_026087' => 'vpl', 'Hund06782' => 'sun', 'Hund06784' => 'sun', 'Lalb_Chr01g0004861' => 'lal', 'Lalb_Chr02g0140591' => 'lal', 'Lalb_Chr02g0140611' => 'lal', 'Lalb_Chr03g0028101' => 'lal', 'Lalb_Chr07g0185791' => 'lal', 'Lalb_Chr12g0204491' => 'lal', 'Lalb_Chr13g0295671' => 'lal', 'Lalb_Chr19g0136461' => 'lal', 'Lalb_Chr21g0309191' => 'lal', 'Lj1g0028158' => 'lja', 'Lj1P236T38' => 'lonja', 'Lj2C32G2' => 'lonja', 'Lj2P944T8' => 'lonja', 'Lj2P963T15' => 'lonja', 'Lj3g0011788' => 'lja', 'Lj4g0025027' => 'lja', 'Lj5P255T36' => 'lonja', 'Lj6g0018866' => 'lja', 'Lj6P608T31' => 'lonja', 'LjContig00408g0008879' => 'lja', 'Lsat_1_v5_gn_5_105820' => 'lsa', 'Lsat_1_v5_gn_6_38800' => 'lsa', 'Lsat_1_v5_gn_7_67141' => 'lsa', 'Manes.04G003400' => 'mes', 'Manes.07G020000' => 'mes', 'Manes.07G020100' => 'mes', 'Manes.07G020150' => 'mes', 'Manes.10G061500' => 'mes', 'Manes.10G123200' => 'mes', 'Manes.11G161900' => 'mes', 'Manes.15G029300' => 'mes', 'Mapoly0071s0018' => 'mpo', 'Mapoly0082s0023' => 'mpo', 'Mapoly3477s0001' => 'mpo', 'MBI05_g31233_MAGBIO' => 'mbi', 'MBI09_g05946_MAGBIO' => 'mbi', 'MBI09_g05947_MAGBIO' => 'mbi', 'MBI17_g08346_MAGBIO' => 'mbi', 'MCO04G038' => 'mco', 'MCO09G370' => 'mco', 'MCO13G605' => 'mco', 'MD00G1075500' => 'mdo', 'MD03G1144300' => 'mdo', 'MD08G1236800' => 'mdo', 'MD13G1193300' => 'mdo', 'MD15G1428700' => 'mdo', 'Medtr1g112030' => 'mtr', 'Medtr1g112050' => 'mtr', 'Medtr2g006290' => 'mtr', 'Medtr2g086510' => 'mtr', 'Medtr4g053120' => 'mtr', 'Medtr5g006320' => 'mtr', 'Medtr8g088720' => 'mtr', 'MELO3C004712.2' => 'cme', 'MELO3C006533.2' => 'cme', 'MELO3C019438.2' => 'cme', 'MELO3C019440.2' => 'cme', 'MELO3C019441.2' => 'cme', 'MELO3C019895.2' => 'cme', 'Migut.B00811' => 'egut', 'Migut.D02447' => 'egut', 'Migut.F00875' => 'egut', 'Migut.N00186' => 'egut', 'Migut.N01051' => 'egut', 'Migut.N02491' => 'egut', 'Migut.O00784' => 'egut', 'MSTRG.12367' => 'ama', 'MSTRG.18756' => 'ama', 'MSTRG.21042' => 'ama', 'Nitab4.5_0000559g0040' => 'nta', 'Nitab4.5_0000667g0190' => 'nta', 'Nitab4.5_0000755g0160' => 'nta', 'Nitab4.5_0001216g0080' => 'nta', 'Nitab4.5_0004069g0040' => 'nta', 'Nitab4.5_0004129g0010' => 'nta', 'Nitab4.5_0005744g0030' => 'nta', 'Nitab4.5_0006996g0030' => 'nta', 'Nitab4.5_0008971g0040' => 'nta', 'Nitab4.5_0009769g0020' => 'nta', 'Nitab4.5_0009833g0010' => 'nta', 'Nitab4.5_0013140g0020' => 'nta', 'Nn003s41376' => 'nnu', 'Nn1g01857' => 'nnu', 'Nn1g03611' => 'nnu', 'Nn1g06853' => 'nnu', 'Nn3g18360' => 'nnu', 'Nn4g26328' => 'nnu', 'Nn5g27531' => 'nnu', 'Nn6g34899' => 'nnu', 'Nn7g36299' => 'nnu', 'Oeu021485.1' => 'oeu', 'Oeu022433.1' => 'oeu', 'Oeu032111.1' => 'oeu', 'Oeu051608.1' => 'oeu', 'Os01g0860601' => 'osa', 'Os03g0659200' => 'osa', 'Os03g0835900' => 'osa', 'Os04g0412200' => 'osa', 'Os05g0443500' => 'osa', 'Os07g0251500' => 'osa', 'Os08g0104600' => 'osa', 'Peaxi162Scf00003g00047' => 'pax', 'Peaxi162Scf00003g00052' => 'pax', 'Peaxi162Scf00003g00394' => 'pax', 'Peaxi162Scf00091g00621' => 'pax', 'Peaxi162Scf00152g00146' => 'pax', 'Peaxi162Scf00173g00025' => 'pax', 'Peaxi162Scf00195g00102' => 'pax', 'Peaxi162Scf00402g00013' => 'pax', 'Peaxi162Scf00519g00618' => 'pax', 'PGR004G2838' => 'pgr', 'PGR044G2275' => 'pgr', 'PGR102G1377' => 'pgr', 'PGR119G1245' => 'pgr', 'PGR142G4449' => 'pgr', 'PGSC0003DMG400004532' => 'stu', 'PGSC0003DMG400011950' => 'stu', 'PGSC0003DMG400023391' => 'stu', 'PGSC0003DMG400023985' => 'stu', 'PGSC0003DMG400026360' => 'stu', 'PGSC0003DMG400035711' => 'stu', 'PGSC0003DMG400037286' => 'stu', 'PGSC0003DMG402005881' => 'stu', 'Phvul.002G045400' => 'pvu', 'Phvul.006G216600' => 'pvu', 'Phvul.006G216700' => 'pvu', 'Phvul.006G216800' => 'pvu', 'Phvul.007G022500' => 'pvu', 'Phvul.011G094400' => 'pvu', 'Potri.001G470700' => 'ptr', 'Potri.003G015200' => 'ptr', 'Potri.004G202500' => 'ptr', 'Potri.004G218400' => 'ptr', 'Potri.008G020100' => 'ptr', 'Potri.008G153200' => 'ptr', 'Potri.009G163800' => 'ptr', 'Potri.010G087300' => 'ptr', 'Potri.010G239100' => 'ptr', 'Pp3c10_16100' => 'ppa', 'Pp3c10_16880' => 'ppa', 'Pp3c16_6230' => 'ppa', 'Pp3c17_18910' => 'ppa', 'Pp3c3_22119' => 'ppa', 'Pp3c3_22140' => 'ppa', 'Pp3c4_8159' => 'ppa', 'Pp3c4_8171' => 'ppa', 'Pp3c4_8330' => 'ppa', 'PRCOL_00004098' => 'pco', 'Prupe.1G013900' => 'ppe', 'Prupe.1G226300' => 'ppe', 'Prupe.1G573600' => 'ppe', 'Prupe.6G130100' => 'ppe', 'Psat3g090040' => 'psa', 'Psat4g210440' => 'psa', 'Psat6g231040' => 'psa', 'Psat6g231080' => 'psa', 'Psat7g063000' => 'psa', 'Psat7g188000' => 'psa', 'Psat7g188040' => 'psa', 'PSO017G0206' => 'pso', 'PSO170G0501' => 'pso', 'PSO170G6422' => 'pso', 'PSO210G7739' => 'pso', 'PSO339G1808' => 'pso', 'PSO339G6135' => 'pso', 'PSO384G0010' => 'pso', 'PSO384G0964' => 'pso', 'PSO761G0050' => 'pso', 'PSO782G4085' => 'pso', 'QL01p012264' => 'qlo', 'QL02p099491' => 'qlo', 'QL03p033868' => 'qlo', 'QL04p046678' => 'qlo', 'QL06p002448' => 'qlo', 'RcHm_v2.0_Chr4g0416181' => 'rch', 'RcHm_v2.0_Chr5g0044701' => 'rch', 'RcHm_v2.0_Chr6g0265781' => 'rch', 'RcHm_v2.0_Chr7g0221031' => 'rch', 'Rhsim04G0202000' => 'rsi', 'Rhsim11G0127300' => 'rsi', 'Rhsim13G0111800' => 'rsi', 'Sabra01G0165600' => 'sbr', 'Sabra03G0008300' => 'sbr', 'Sabra04G0136900' => 'sbr', 'Sabra08G0013400' => 'sbr', 'Sabra08G0116800' => 'sbr', 'Sabra09G0128000' => 'sbr', 'Sabra10G0055500' => 'sbr', 'Sabra10G0073300' => 'sbr', 'SalBow3G0385' => 'sbo', 'SalBow3G1119' => 'sbo', 'SalBow3G2005' => 'sbo', 'SalBow6G2563' => 'sbo', 'SalBow6G6386' => 'sbo', 'Sc06g0008800' => 'sci', 'Sc07g0004950' => 'sci', 'Sc09g0005340' => 'sci', 'Sc13g0004410' => 'sci', 'Sc21g0007090' => 'sci', 'Sed0009285' => 'sed', 'Sed0017583' => 'sed', 'Sed0019699' => 'sed', 'Sed0023107' => 'sed', 'SEGI_10916' => 'sgi', 'SEGI_16217' => 'sgi', 'SEGI_19466' => 'sgi', 'SEGI_41115' => 'sgi', 'SGA_v2.0_scaffold111G31534' => 'sas', 'SGA_v2.0_scaffold22G09864' => 'sas', 'SGA_v2.0_scaffold338G49219' => 'sas', 'SGA_v2.0_scaffold92G28298' => 'sas', 'SMO119G0064' => 'smo', 'SMO223G0038' => 'smo', 'SMO347G0584' => 'smo', 'SMO351G0010' => 'smo', 'SMO356G0404' => 'smo', 'Solyc01g103920.3' => 'sly', 'Solyc04g009710.2' => 'sly', 'Solyc05g055280.2' => 'sly', 'Solyc10g044520.3' => 'sly', 'Solyc10g075160.1' => 'sly', 'Solyc11g006910.3' => 'sly', 'Solyc11g068430.3' => 'sly', 'Sopen01g046310' => 'spe', 'Sopen03g001200' => 'spe', 'Sopen04g004830' => 'spe', 'Sopen05g033720' => 'spe', 'Sopen06g030740' => 'spe', 'Sopen10g013090' => 'spe', 'Sopen10g027630' => 'spe', 'Sopen10g027640' => 'spe', 'Sopen11g002820' => 'spe', 'Sopen11g027140' => 'spe', 'Sp1g09680' => 'spa', 'Sp2g03630' => 'spa', 'Sp4g10320' => 'spa', 'Sp6g33400' => 'spa', 'Sp7g13030' => 'spa', 'TAR365G0317' => 'tar', 'TAR376G0979' => 'tar', 'TAR623G1665' => 'tar', 'TAR633G2373' => 'tar', 'TAR636G1400' => 'tar', 'THA.LOC104800529' => 'tha', 'THA.LOC104808547' => 'tha', 'THA.LOC104809615' => 'tha', 'THA.LOC104815724' => 'tha', 'THA.LOC104818480' => 'tha', 'THA.LOC104819179' => 'tha', 'THA.LOC104822270' => 'tha', 'THA.LOC104826425' => 'tha', 'Thecc.02G089700' => 'tca', 'Thecc.04G232300' => 'tca', 'Thecc.09G283400' => 'tca', 'Thhalv10009020m.g' => 'esa', 'Thhalv10015506m.g' => 'esa', 'Thhalv10017364m.g' => 'esa', 'Thhalv10023742m.g' => 'esa', 'Thhalv10026483m.g' => 'esa', 'TPR.G17232' => 'tpr', 'TPR.G2133' => 'tpr', 'TPR.G2498' => 'tpr', 'TPR.G31942' => 'tpr', 'TPR.G37877' => 'tpr', 'TPR.G4571' => 'tpr', 'TWI14G1113' => 'twi', 'TWI15G0426' => 'twi', 'TWI31G1005' => 'twi', 'TWI38G0513' => 'twi', 'TWI38G1484' => 'twi', 'TWI73G1098' => 'twi', 'unitig_26.g10519' => 'ugi', 'unitig_736.g22395' => 'ugi', 'unitig_747.g21234' => 'ugi', 'unitig_747.g21942' => 'ugi', 'vmacro14351' => 'vma', 'VMungo0540G0082' => 'vmu', 'VMungo0540G0405' => 'vmu', 'VMungo0540G1486' => 'vmu', 'VMungo0540G1692' => 'vmu', 'VMungo0720G2473' => 'vmu', 'VMungo1127G1562' => 'vmu', 'VMungo1215G1918' => 'vmu', 'Zm00001eb052650' => 'zma', 'Zm00001eb063710' => 'zma', 'Zm00001eb083950' => 'zma', 'Zm00001eb174420' => 'zma', 'Zm00001eb260140' => 'zma', 'Zm00001eb260150' => 'zma', 'Zm00001eb260160' => 'zma', 'Zm00001eb348290' => 'zma', 'Zm00001eb366870' => 'zma', 'Zm00001eb421930' => 'zma' ), 'gf_id' => 'HOM05D001025', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001025' ), 'data_identifier' => 'HOM05D001025', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001025', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '592', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p22650' => 'bna', 'A01p29720' => 'bna', 'A03p26560' => 'bna', 'A03p68820' => 'bna', 'A04p20980' => 'bna', 'A06p07730' => 'bna', 'A07p18260' => 'bna', 'A08p33710' => 'bna', 'A09p16970' => 'bna', 'A10p27490' => 'bna', 'Aa31LG1G17300' => 'aar', 'Aa31LG1G3910' => 'aar', 'Aa31LG2G9630' => 'aar', 'Aa31LG5G8360' => 'aar', 'Aa31LG9G2410' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4699' => 'aag', 'Actinidia23512' => 'ach', 'Actinidia37080' => 'ach', 'Ah.01g020380' => 'amhyb', 'Ah.08g215710' => 'amhyb', 'Ah.09g225110' => 'amhyb', 'Ah.10g036680' => 'amhyb', 'AL1G21940' => 'aly', 'AL2G15540' => 'aly', 'AL4G21520' => 'aly', 'AL7G40960' => 'aly', 'Aqoxy2G01191' => 'aox', 'Aqoxy2G03393' => 'aox', 'Aqoxy4G02775' => 'aox', 'Aqoxy6G00058' => 'aox', 'arahy.Tifrunner.gnm1.ann1.9X74H2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CW3FX9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R485W7' => 'arhy', 'AT1G10960' => 'ath', 'AT1G60950' => 'ath', 'AT2G27510' => 'ath', 'AT4G14890' => 'ath', 'AT5G10000' => 'ath', 'ATR0665G624' => 'atr', 'ATR0697G138' => 'atr', 'ATR0776G046' => 'atr', 'ATR1134G135' => 'atr', 'Atru.chr12.1025' => 'acertr', 'Atru.chr3.3241' => 'acertr', 'Atru.chr4.2460' => 'acertr', 'AUR62007427' => 'cqu', 'AUR62010960' => 'cqu', 'AUR62012201' => 'cqu', 'AUR62021470' => 'cqu', 'AUR62022834' => 'cqu', 'AUR62033635' => 'cqu', 'AUR62036186' => 'cqu', 'BcaB01g03077' => 'bca', 'BcaB02g10093' => 'bca', 'BcaB04g20295' => 'bca', 'BcaB06g28147' => 'bca', 'BcaB07g31253' => 'bca', 'BcaC01g04946' => 'bca', 'BcaC02g10614' => 'bca', 'BcaC02g10885' => 'bca', 'BcaC04g19356' => 'bca', 'BcaC04g22297' => 'bca', 'BcaC05g24977' => 'bca', 'BcaC06g31823' => 'bca', 'BcaC07g38633' => 'bca', 'BcaC09g49353' => 'bca', 'BcaC09g50168' => 'bca', 'BcaNung00322' => 'bca', 'BcaNung04769' => 'bca', 'BolC1t02753H' => 'bol', 'BolC1t03721H' => 'bol', 'BolC3t15525H' => 'bol', 'BolC4t23903H' => 'bol', 'BolC4t24231H' => 'bol', 'BolC4t27209H' => 'bol', 'BolC5t29671H' => 'bol', 'BolC8t49044H' => 'bol', 'BolC9t54999H' => 'bol', 'BolC9t59517H' => 'bol', 'BraA01t02178Z' => 'bra', 'BraA01t03099Z' => 'bra', 'BraA03t11867Z' => 'bra', 'BraA04t17667Z' => 'bra', 'BraA07t29542Z' => 'bra', 'BraA08t35287Z' => 'bra', 'BraA09t37334Z' => 'bra', 'BraA10t44801Z' => 'bra', 'BraSC39t46181Z' => 'bra', 'C01p28240' => 'bna', 'C01p37530' => 'bna', 'C03p31820' => 'bna', 'C04p24080' => 'bna', 'C04p25790' => 'bna', 'C04p56770' => 'bna', 'C05p09310' => 'bna', 'C09p21010' => 'bna', 'C09p67560' => 'bna', 'CAN.G1324.7' => 'can', 'CAN.G1358.10' => 'can', 'CAN.G1550.2' => 'can', 'CAN.G186.56' => 'can', 'CAN.G1965.1' => 'can', 'CAN.G645.15' => 'can', 'CAN.G798.26' => 'can', 'CAN.G798.27' => 'can', 'CAN.G798.29' => 'can', 'CAN.G919.31' => 'can', 'CANSAT11G0133' => 'cansat', 'CANSAT11G1171' => 'cansat', 'CANSAT11G2056' => 'cansat', 'CANSAT56G1202' => 'cansat', 'CANSAT56G1514' => 'cansat', 'CANSAT78G0455' => 'cansat', 'CARHR011190' => 'chi', 'CARHR051980' => 'chi', 'CARHR120170' => 'chi', 'CARHR203310' => 'chi', 'CARHR221490' => 'chi', 'Carub.0001s1054' => 'cru', 'Carub.0002s0431' => 'cru', 'Carub.0004s0818' => 'cru', 'Carub.0006s0846' => 'cru', 'Carub.0007s2722' => 'cru', 'Ca_00058_v3' => 'car', 'Ca_17831_v3' => 'car', 'Ca_19408_v3' => 'car', 'Ca_24397_v3' => 'car', 'Ca_25664_v3' => 'car', 'CBR_g21818' => 'cbr', 'CBR_g31195' => 'cbr', 'CBR_g32282' => 'cbr', 'CBR_g39599' => 'cbr', 'CBR_g49410' => 'cbr', 'Cc01_g09120' => 'ccan', 'Cc01_g09130' => 'ccan', 'Cc02_g09630' => 'ccan', 'Cc02_g22810' => 'ccan', 'Cc03_g03810' => 'ccan', 'CDE02G3718' => 'cde', 'CDE04G3183' => 'cde', 'CDE07G1046' => 'cde', 'CDE08G0480' => 'cde', 'Cfa005493' => 'cfa', 'Cfa010312' => 'cfa', 'Cfa015648' => 'cfa', 'Ciclev10002793m.g' => 'ccl', 'Ciclev10003356m.g' => 'ccl', 'Ciclev10006141m.g' => 'ccl', 'Ciclev10016676m.g' => 'ccl', 'Ciclev10017081m.g' => 'ccl', 'Ciclev10029499m.g' => 'ccl', 'CiPaw.01G166300' => 'cil', 'CiPaw.06G145600' => 'cil', 'CiPaw.13G040100' => 'cil', 'CiPaw.13G135800' => 'cil', 'ClCG01G012230' => 'cla', 'ClCG05G009510' => 'cla', 'ClCG08G008270' => 'cla', 'COL.COLO4_11763' => 'col', 'COL.COLO4_19876' => 'col', 'COL.COLO4_21481' => 'col', 'Cpa.g.sc118.34' => 'cpa', 'Cpa.g.sc32.13' => 'cpa', 'Cpa.g.sc58.103' => 'cpa', 'Cre03.g183850' => 'cre', 'Cre06.g306350' => 'cre', 'Cre07.g334800' => 'cre', 'Cre12.g487900' => 'cre', 'Cre14.g626700' => 'cre', 'Cre16.g658400' => 'cre', 'Cre17.g700950' => 'cre', 'CsaV3_1G014830' => 'csa', 'CsaV3_3G013320' => 'csa', 'CsaV3_3G019210' => 'csa', 'CsaV3_3G019220' => 'csa', 'CsaV3_6G004230' => 'csa', 'CSS0003773' => 'camsi', 'CSS0004563' => 'camsi', 'CSS0013949' => 'camsi', 'CSS0025971' => 'camsi', 'CSS0028570' => 'camsi', 'CSS0033127' => 'camsi', 'CSS0036051' => 'camsi', 'CSS0040087' => 'camsi', 'CSS0043179' => 'camsi', 'DCAR_006161' => 'dca', 'DCAR_010351' => 'dca', 'DCAR_012197' => 'dca', 'DCAR_024162' => 'dca', 'Dinv01030' => 'din', 'Dinv10924' => 'din', 'Dinv11835' => 'din', 'Dinv22841' => 'din', 'Dinv42553' => 'din', 'Duzib052G0560' => 'dzi', 'Duzib132G0389' => 'dzi', 'Duzib150G1181' => 'dzi', 'Duzib168G0623' => 'dzi', 'Duzib170G1036' => 'dzi', 'Duzib212G0200' => 'dzi', 'Duzib248G0194' => 'dzi', 'ECA232G2193' => 'eca', 'ECA233G0302' => 'eca', 'ECA234G2813' => 'eca', 'ECA234G4866' => 'eca', 'ECA240G3932' => 'eca', 'ECA248G0385' => 'eca', 'EL10Ac2g04781' => 'bvu', 'EL10Ac3g06445' => 'bvu', 'EL10Ac7g15825' => 'bvu', 'EL10Ac8g18550' => 'bvu', 'Eucgr.B03849' => 'egr', 'Eucgr.I02744' => 'egr', 'Eucgr.J00264' => 'egr', 'Eucgr.J00493' => 'egr', 'FAN04G2181' => 'fan', 'FAN07G2666' => 'fan', 'FAN11G0024' => 'fan', 'FAN12G1105' => 'fan', 'FAN13G0302' => 'fan', 'FAN15G2781' => 'fan', 'FAN16G1274' => 'fan', 'FAN17G2988' => 'fan', 'FAN18G2621' => 'fan', 'FAN21G0013' => 'fan', 'FAN22G1211' => 'fan', 'FAN25G3626' => 'fan', 'FvH4_2g09491' => 'fve', 'FvH4_3g24910' => 'fve', 'FvH4_4g15630' => 'fve', 'FvH4_5g28820' => 'fve', 'Glyma.01G238000' => 'gma', 'Glyma.05G168400' => 'gma', 'Glyma.08G126800' => 'gma', 'Glyma.08G188500' => 'gma', 'Glyma.10G278900' => 'gma', 'Glyma.11G005700' => 'gma', 'Glyma.11G183300' => 'gma', 'Glyma.12G089200' => 'gma', 'Glyma.12G169400' => 'gma', 'Glyma.12G169500' => 'gma', 'Glyma.12G169600' => 'gma', 'Glyma.20G110800' => 'gma', 'Gohir.A03G192900' => 'ghi', 'Gohir.A03G193000' => 'ghi', 'Gohir.A05G080700' => 'ghi', 'Gohir.A09G216000' => 'ghi', 'Gohir.A12G027700' => 'ghi', 'Gohir.A13G036200' => 'ghi', 'Gohir.A13G222600' => 'ghi', 'Gohir.D02G213900' => 'ghi', 'Gohir.D02G214000' => 'ghi', 'Gohir.D05G083700' => 'ghi', 'Gohir.D05G083800' => 'ghi', 'Gohir.D05G083850' => 'ghi', 'Gohir.D08G015400' => 'ghi', 'Gohir.D09G218400' => 'ghi', 'Gohir.D12G027100' => 'ghi', 'Gohir.D13G034500' => 'ghi', 'Gohir.D13G227400' => 'ghi', 'Gorai.005G241800' => 'gra', 'Gorai.005G241900' => 'gra', 'Gorai.006G239400' => 'gra', 'Gorai.008G027600' => 'gra', 'Gorai.009G085400' => 'gra', 'Gorai.009G085500' => 'gra', 'Gorai.013G039000' => 'gra', 'Gorai.013G194800' => 'gra', 'Gorai.013G257900' => 'gra', 'GSVIVG01000982001' => 'vvi', 'GSVIVG01017981001' => 'vvi', 'HanXRQChr01g0024061' => 'han', 'HanXRQChr09g0247831' => 'han', 'HanXRQChr10g0294611' => 'han', 'HanXRQChr10g0294621' => 'han', 'HanXRQChr11g0346821' => 'han', 'HanXRQChr13g0397461' => 'han', 'HanXRQChr16g0513651' => 'han', 'HanXRQChr16g0513701' => 'han', 'Haze_00897' => 'cav', 'Haze_01745' => 'cav', 'Haze_02486' => 'cav', 'Haze_02487' => 'cav', 'Haze_23374' => 'cav', 'Hma1.2p1_0578F.1_g182520' => 'hma', 'Hma1.2p1_0602F.1_g187350' => 'hma', 'Hma1.2p1_0602F.1_g187360' => 'hma', 'Hma1.2p1_0874F.1_g231320' => 'hma', 'Hma1.2p1_1197F.1_g266210' => 'hma', 'Hma1.2p1_1197F.1_g266220' => 'hma', 'Hma1.2p1_2167F.1_g315895' => 'hma', 'Hma1.2p1_2190F.1_g316640' => 'hma', 'Hma1.2p1_3645F.1_g337153' => 'hma', 'HPP92_004907' => 'vpl', 'HPP92_012134' => 'vpl', 'HPP92_025136' => 'vpl', 'HPP92_026087' => 'vpl', 'Hund06782' => 'sun', 'Hund06784' => 'sun', 'Lalb_Chr01g0004861' => 'lal', 'Lalb_Chr02g0140591' => 'lal', 'Lalb_Chr02g0140611' => 'lal', 'Lalb_Chr03g0028101' => 'lal', 'Lalb_Chr07g0185791' => 'lal', 'Lalb_Chr12g0204491' => 'lal', 'Lalb_Chr13g0295671' => 'lal', 'Lalb_Chr19g0136461' => 'lal', 'Lalb_Chr21g0309191' => 'lal', 'Lj1g0028158' => 'lja', 'Lj1P236T38' => 'lonja', 'Lj2C32G2' => 'lonja', 'Lj2P944T8' => 'lonja', 'Lj2P963T15' => 'lonja', 'Lj3g0011788' => 'lja', 'Lj4g0025027' => 'lja', 'Lj5P255T36' => 'lonja', 'Lj6g0018866' => 'lja', 'Lj6P608T31' => 'lonja', 'LjContig00408g0008879' => 'lja', 'Lsat_1_v5_gn_5_105820' => 'lsa', 'Lsat_1_v5_gn_6_38800' => 'lsa', 'Lsat_1_v5_gn_7_67141' => 'lsa', 'Manes.04G003400' => 'mes', 'Manes.07G020000' => 'mes', 'Manes.07G020100' => 'mes', 'Manes.07G020150' => 'mes', 'Manes.10G061500' => 'mes', 'Manes.10G123200' => 'mes', 'Manes.11G161900' => 'mes', 'Manes.15G029300' => 'mes', 'Mapoly0071s0018' => 'mpo', 'Mapoly0082s0023' => 'mpo', 'Mapoly3477s0001' => 'mpo', 'MBI05_g31233_MAGBIO' => 'mbi', 'MBI09_g05946_MAGBIO' => 'mbi', 'MBI09_g05947_MAGBIO' => 'mbi', 'MBI17_g08346_MAGBIO' => 'mbi', 'MCO04G038' => 'mco', 'MCO09G370' => 'mco', 'MCO13G605' => 'mco', 'MD00G1075500' => 'mdo', 'MD03G1144300' => 'mdo', 'MD08G1236800' => 'mdo', 'MD13G1193300' => 'mdo', 'MD15G1428700' => 'mdo', 'Medtr1g112030' => 'mtr', 'Medtr1g112050' => 'mtr', 'Medtr2g006290' => 'mtr', 'Medtr2g086510' => 'mtr', 'Medtr4g053120' => 'mtr', 'Medtr5g006320' => 'mtr', 'Medtr8g088720' => 'mtr', 'MELO3C004712.2' => 'cme', 'MELO3C006533.2' => 'cme', 'MELO3C019438.2' => 'cme', 'MELO3C019440.2' => 'cme', 'MELO3C019441.2' => 'cme', 'MELO3C019895.2' => 'cme', 'Migut.B00811' => 'egut', 'Migut.D02447' => 'egut', 'Migut.F00875' => 'egut', 'Migut.N00186' => 'egut', 'Migut.N01051' => 'egut', 'Migut.N02491' => 'egut', 'Migut.O00784' => 'egut', 'MSTRG.12367' => 'ama', 'MSTRG.18756' => 'ama', 'MSTRG.21042' => 'ama', 'Nitab4.5_0000559g0040' => 'nta', 'Nitab4.5_0000667g0190' => 'nta', 'Nitab4.5_0000755g0160' => 'nta', 'Nitab4.5_0001216g0080' => 'nta', 'Nitab4.5_0004069g0040' => 'nta', 'Nitab4.5_0004129g0010' => 'nta', 'Nitab4.5_0005744g0030' => 'nta', 'Nitab4.5_0006996g0030' => 'nta', 'Nitab4.5_0008971g0040' => 'nta', 'Nitab4.5_0009769g0020' => 'nta', 'Nitab4.5_0009833g0010' => 'nta', 'Nitab4.5_0013140g0020' => 'nta', 'Nn003s41376' => 'nnu', 'Nn1g01857' => 'nnu', 'Nn1g03611' => 'nnu', 'Nn1g06853' => 'nnu', 'Nn3g18360' => 'nnu', 'Nn4g26328' => 'nnu', 'Nn5g27531' => 'nnu', 'Nn6g34899' => 'nnu', 'Nn7g36299' => 'nnu', 'Oeu021485.1' => 'oeu', 'Oeu022433.1' => 'oeu', 'Oeu032111.1' => 'oeu', 'Oeu051608.1' => 'oeu', 'Os01g0860601' => 'osa', 'Os03g0659200' => 'osa', 'Os03g0835900' => 'osa', 'Os04g0412200' => 'osa', 'Os05g0443500' => 'osa', 'Os07g0251500' => 'osa', 'Os08g0104600' => 'osa', 'Peaxi162Scf00003g00047' => 'pax', 'Peaxi162Scf00003g00052' => 'pax', 'Peaxi162Scf00003g00394' => 'pax', 'Peaxi162Scf00091g00621' => 'pax', 'Peaxi162Scf00152g00146' => 'pax', 'Peaxi162Scf00173g00025' => 'pax', 'Peaxi162Scf00195g00102' => 'pax', 'Peaxi162Scf00402g00013' => 'pax', 'Peaxi162Scf00519g00618' => 'pax', 'PGR004G2838' => 'pgr', 'PGR044G2275' => 'pgr', 'PGR102G1377' => 'pgr', 'PGR119G1245' => 'pgr', 'PGR142G4449' => 'pgr', 'PGSC0003DMG400004532' => 'stu', 'PGSC0003DMG400011950' => 'stu', 'PGSC0003DMG400023391' => 'stu', 'PGSC0003DMG400023985' => 'stu', 'PGSC0003DMG400026360' => 'stu', 'PGSC0003DMG400035711' => 'stu', 'PGSC0003DMG400037286' => 'stu', 'PGSC0003DMG402005881' => 'stu', 'Phvul.002G045400' => 'pvu', 'Phvul.006G216600' => 'pvu', 'Phvul.006G216700' => 'pvu', 'Phvul.006G216800' => 'pvu', 'Phvul.007G022500' => 'pvu', 'Phvul.011G094400' => 'pvu', 'Potri.001G470700' => 'ptr', 'Potri.003G015200' => 'ptr', 'Potri.004G202500' => 'ptr', 'Potri.004G218400' => 'ptr', 'Potri.008G020100' => 'ptr', 'Potri.008G153200' => 'ptr', 'Potri.009G163800' => 'ptr', 'Potri.010G087300' => 'ptr', 'Potri.010G239100' => 'ptr', 'Pp3c10_16100' => 'ppa', 'Pp3c10_16880' => 'ppa', 'Pp3c16_6230' => 'ppa', 'Pp3c17_18910' => 'ppa', 'Pp3c3_22119' => 'ppa', 'Pp3c3_22140' => 'ppa', 'Pp3c4_8159' => 'ppa', 'Pp3c4_8171' => 'ppa', 'Pp3c4_8330' => 'ppa', 'PRCOL_00004098' => 'pco', 'Prupe.1G013900' => 'ppe', 'Prupe.1G226300' => 'ppe', 'Prupe.1G573600' => 'ppe', 'Prupe.6G130100' => 'ppe', 'Psat3g090040' => 'psa', 'Psat4g210440' => 'psa', 'Psat6g231040' => 'psa', 'Psat6g231080' => 'psa', 'Psat7g063000' => 'psa', 'Psat7g188000' => 'psa', 'Psat7g188040' => 'psa', 'PSO017G0206' => 'pso', 'PSO170G0501' => 'pso', 'PSO170G6422' => 'pso', 'PSO210G7739' => 'pso', 'PSO339G1808' => 'pso', 'PSO339G6135' => 'pso', 'PSO384G0010' => 'pso', 'PSO384G0964' => 'pso', 'PSO761G0050' => 'pso', 'PSO782G4085' => 'pso', 'QL01p012264' => 'qlo', 'QL02p099491' => 'qlo', 'QL03p033868' => 'qlo', 'QL04p046678' => 'qlo', 'QL06p002448' => 'qlo', 'RcHm_v2.0_Chr4g0416181' => 'rch', 'RcHm_v2.0_Chr5g0044701' => 'rch', 'RcHm_v2.0_Chr6g0265781' => 'rch', 'RcHm_v2.0_Chr7g0221031' => 'rch', 'Rhsim04G0202000' => 'rsi', 'Rhsim11G0127300' => 'rsi', 'Rhsim13G0111800' => 'rsi', 'Sabra01G0165600' => 'sbr', 'Sabra03G0008300' => 'sbr', 'Sabra04G0136900' => 'sbr', 'Sabra08G0013400' => 'sbr', 'Sabra08G0116800' => 'sbr', 'Sabra09G0128000' => 'sbr', 'Sabra10G0055500' => 'sbr', 'Sabra10G0073300' => 'sbr', 'SalBow3G0385' => 'sbo', 'SalBow3G1119' => 'sbo', 'SalBow3G2005' => 'sbo', 'SalBow6G2563' => 'sbo', 'SalBow6G6386' => 'sbo', 'Sc06g0008800' => 'sci', 'Sc07g0004950' => 'sci', 'Sc09g0005340' => 'sci', 'Sc13g0004410' => 'sci', 'Sc21g0007090' => 'sci', 'Sed0009285' => 'sed', 'Sed0017583' => 'sed', 'Sed0019699' => 'sed', 'Sed0023107' => 'sed', 'SEGI_10916' => 'sgi', 'SEGI_16217' => 'sgi', 'SEGI_19466' => 'sgi', 'SEGI_41115' => 'sgi', 'SGA_v2.0_scaffold111G31534' => 'sas', 'SGA_v2.0_scaffold22G09864' => 'sas', 'SGA_v2.0_scaffold338G49219' => 'sas', 'SGA_v2.0_scaffold92G28298' => 'sas', 'SMO119G0064' => 'smo', 'SMO223G0038' => 'smo', 'SMO347G0584' => 'smo', 'SMO351G0010' => 'smo', 'SMO356G0404' => 'smo', 'Solyc01g103920.3' => 'sly', 'Solyc04g009710.2' => 'sly', 'Solyc05g055280.2' => 'sly', 'Solyc10g044520.3' => 'sly', 'Solyc10g075160.1' => 'sly', 'Solyc11g006910.3' => 'sly', 'Solyc11g068430.3' => 'sly', 'Sopen01g046310' => 'spe', 'Sopen03g001200' => 'spe', 'Sopen04g004830' => 'spe', 'Sopen05g033720' => 'spe', 'Sopen06g030740' => 'spe', 'Sopen10g013090' => 'spe', 'Sopen10g027630' => 'spe', 'Sopen10g027640' => 'spe', 'Sopen11g002820' => 'spe', 'Sopen11g027140' => 'spe', 'Sp1g09680' => 'spa', 'Sp2g03630' => 'spa', 'Sp4g10320' => 'spa', 'Sp6g33400' => 'spa', 'Sp7g13030' => 'spa', 'TAR365G0317' => 'tar', 'TAR376G0979' => 'tar', 'TAR623G1665' => 'tar', 'TAR633G2373' => 'tar', 'TAR636G1400' => 'tar', 'THA.LOC104800529' => 'tha', 'THA.LOC104808547' => 'tha', 'THA.LOC104809615' => 'tha', 'THA.LOC104815724' => 'tha', 'THA.LOC104818480' => 'tha', 'THA.LOC104819179' => 'tha', 'THA.LOC104822270' => 'tha', 'THA.LOC104826425' => 'tha', 'Thecc.02G089700' => 'tca', 'Thecc.04G232300' => 'tca', 'Thecc.09G283400' => 'tca', 'Thhalv10009020m.g' => 'esa', 'Thhalv10015506m.g' => 'esa', 'Thhalv10017364m.g' => 'esa', 'Thhalv10023742m.g' => 'esa', 'Thhalv10026483m.g' => 'esa', 'TPR.G17232' => 'tpr', 'TPR.G2133' => 'tpr', 'TPR.G2498' => 'tpr', 'TPR.G31942' => 'tpr', 'TPR.G37877' => 'tpr', 'TPR.G4571' => 'tpr', 'TWI14G1113' => 'twi', 'TWI15G0426' => 'twi', 'TWI31G1005' => 'twi', 'TWI38G0513' => 'twi', 'TWI38G1484' => 'twi', 'TWI73G1098' => 'twi', 'unitig_26.g10519' => 'ugi', 'unitig_736.g22395' => 'ugi', 'unitig_747.g21234' => 'ugi', 'unitig_747.g21942' => 'ugi', 'vmacro14351' => 'vma', 'VMungo0540G0082' => 'vmu', 'VMungo0540G0405' => 'vmu', 'VMungo0540G1486' => 'vmu', 'VMungo0540G1692' => 'vmu', 'VMungo0720G2473' => 'vmu', 'VMungo1127G1562' => 'vmu', 'VMungo1215G1918' => 'vmu', 'Zm00001eb052650' => 'zma', 'Zm00001eb063710' => 'zma', 'Zm00001eb083950' => 'zma', 'Zm00001eb174420' => 'zma', 'Zm00001eb260140' => 'zma', 'Zm00001eb260150' => 'zma', 'Zm00001eb260160' => 'zma', 'Zm00001eb348290' => 'zma', 'Zm00001eb366870' => 'zma', 'Zm00001eb421930' => 'zma' ) $gf_id = 'HOM05D001025' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001025' ) $data_identifier = 'HOM05D001025' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 19, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 2, 'amhyb' => (int) 4, 'aly' => (int) 4, 'aox' => (int) 4, 'arhy' => (int) 3, 'ath' => (int) 5, 'atr' => (int) 4, 'acertr' => (int) 3, 'cqu' => (int) 7, 'bca' => (int) 17, 'bol' => (int) 10, 'bra' => (int) 9, 'can' => (int) 10, 'cansat' => (int) 6, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 5, 'cbr' => (int) 5, 'ccan' => (int) 5, 'cde' => (int) 4, 'cfa' => (int) 3, 'ccl' => (int) 6, 'cil' => (int) 4, 'cla' => (int) 3, 'col' => (int) 3, 'cpa' => (int) 3, 'cre' => (int) 7, 'csa' => (int) 5, 'camsi' => (int) 9, 'dca' => (int) 4, 'din' => (int) 5, 'dzi' => (int) 7, 'eca' => (int) 6, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 12, 'fve' => (int) 4, 'gma' => (int) 12, 'ghi' => (int) 17, 'gra' => (int) 9, 'vvi' => (int) 2, 'han' => (int) 8, 'cav' => (int) 5, 'hma' => (int) 9, 'vpl' => (int) 4, 'sun' => (int) 2, 'lal' => (int) 9, 'lja' => (int) 5, 'lonja' => (int) 6, 'lsa' => (int) 3, 'mes' => (int) 8, 'mpo' => (int) 3, 'mbi' => (int) 4, 'mco' => (int) 3, 'mdo' => (int) 5, 'mtr' => (int) 7, 'cme' => (int) 6, 'egut' => (int) 7, 'ama' => (int) 3, 'nta' => (int) 12, 'nnu' => (int) 9, 'oeu' => (int) 4, 'osa' => (int) 7, 'pax' => (int) 9, 'pgr' => (int) 5, 'stu' => (int) 8, 'pvu' => (int) 6, 'ptr' => (int) 9, 'ppa' => (int) 9, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 7, 'pso' => (int) 10, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 3, 'sbr' => (int) 8, 'sbo' => (int) 5, 'sci' => (int) 5, 'sed' => (int) 4, 'sgi' => (int) 4, 'sas' => (int) 4, 'smo' => (int) 5, 'sly' => (int) 7, 'spe' => (int) 10, 'spa' => (int) 5, 'tar' => (int) 5, 'tha' => (int) 8, 'tca' => (int) 3, 'esa' => (int) 5, 'tpr' => (int) 6, 'twi' => (int) 6, 'ugi' => (int) 4, 'vma' => (int) 1, 'vmu' => (int) 7, 'zma' => (int) 10 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb421930' $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' => 'HOM05D001025', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '592', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p22650' => 'bna', 'A01p29720' => 'bna', 'A03p26560' => 'bna', 'A03p68820' => 'bna', 'A04p20980' => 'bna', 'A06p07730' => 'bna', 'A07p18260' => 'bna', 'A08p33710' => 'bna', 'A09p16970' => 'bna', 'A10p27490' => 'bna', 'Aa31LG1G17300' => 'aar', 'Aa31LG1G3910' => 'aar', 'Aa31LG2G9630' => 'aar', 'Aa31LG5G8360' => 'aar', 'Aa31LG9G2410' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4699' => 'aag', 'Actinidia23512' => 'ach', 'Actinidia37080' => 'ach', 'Ah.01g020380' => 'amhyb', 'Ah.08g215710' => 'amhyb', 'Ah.09g225110' => 'amhyb', 'Ah.10g036680' => 'amhyb', 'AL1G21940' => 'aly', 'AL2G15540' => 'aly', 'AL4G21520' => 'aly', 'AL7G40960' => 'aly', 'Aqoxy2G01191' => 'aox', 'Aqoxy2G03393' => 'aox', 'Aqoxy4G02775' => 'aox', 'Aqoxy6G00058' => 'aox', 'arahy.Tifrunner.gnm1.ann1.9X74H2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CW3FX9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R485W7' => 'arhy', 'AT1G10960' => 'ath', 'AT1G60950' => 'ath', 'AT2G27510' => 'ath', 'AT4G14890' => 'ath', 'AT5G10000' => 'ath', 'ATR0665G624' => 'atr', 'ATR0697G138' => 'atr', 'ATR0776G046' => 'atr', 'ATR1134G135' => 'atr', 'Atru.chr12.1025' => 'acertr', 'Atru.chr3.3241' => 'acertr', 'Atru.chr4.2460' => 'acertr', 'AUR62007427' => 'cqu', 'AUR62010960' => 'cqu', 'AUR62012201' => 'cqu', 'AUR62021470' => 'cqu', 'AUR62022834' => 'cqu', 'AUR62033635' => 'cqu', 'AUR62036186' => 'cqu', 'BcaB01g03077' => 'bca', 'BcaB02g10093' => 'bca', 'BcaB04g20295' => 'bca', 'BcaB06g28147' => 'bca', 'BcaB07g31253' => 'bca', 'BcaC01g04946' => 'bca', 'BcaC02g10614' => 'bca', 'BcaC02g10885' => 'bca', 'BcaC04g19356' => 'bca', 'BcaC04g22297' => 'bca', 'BcaC05g24977' => 'bca', 'BcaC06g31823' => 'bca', 'BcaC07g38633' => 'bca', 'BcaC09g49353' => 'bca', 'BcaC09g50168' => 'bca', 'BcaNung00322' => 'bca', 'BcaNung04769' => 'bca', 'BolC1t02753H' => 'bol', 'BolC1t03721H' => 'bol', 'BolC3t15525H' => 'bol', 'BolC4t23903H' => 'bol', 'BolC4t24231H' => 'bol', 'BolC4t27209H' => 'bol', 'BolC5t29671H' => 'bol', 'BolC8t49044H' => 'bol', 'BolC9t54999H' => 'bol', 'BolC9t59517H' => 'bol', 'BraA01t02178Z' => 'bra', 'BraA01t03099Z' => 'bra', 'BraA03t11867Z' => 'bra', 'BraA04t17667Z' => 'bra', 'BraA07t29542Z' => 'bra', 'BraA08t35287Z' => 'bra', 'BraA09t37334Z' => 'bra', 'BraA10t44801Z' => 'bra', 'BraSC39t46181Z' => 'bra', 'C01p28240' => 'bna', 'C01p37530' => 'bna', 'C03p31820' => 'bna', 'C04p24080' => 'bna', 'C04p25790' => 'bna', 'C04p56770' => 'bna', 'C05p09310' => 'bna', 'C09p21010' => 'bna', 'C09p67560' => 'bna', 'CAN.G1324.7' => 'can', 'CAN.G1358.10' => 'can', 'CAN.G1550.2' => 'can', 'CAN.G186.56' => 'can', 'CAN.G1965.1' => 'can', 'CAN.G645.15' => 'can', 'CAN.G798.26' => 'can', 'CAN.G798.27' => 'can', 'CAN.G798.29' => 'can', 'CAN.G919.31' => 'can', 'CANSAT11G0133' => 'cansat', 'CANSAT11G1171' => 'cansat', 'CANSAT11G2056' => 'cansat', 'CANSAT56G1202' => 'cansat', 'CANSAT56G1514' => 'cansat', 'CANSAT78G0455' => 'cansat', 'CARHR011190' => 'chi', 'CARHR051980' => 'chi', 'CARHR120170' => 'chi', 'CARHR203310' => 'chi', 'CARHR221490' => 'chi', 'Carub.0001s1054' => 'cru', 'Carub.0002s0431' => 'cru', 'Carub.0004s0818' => 'cru', 'Carub.0006s0846' => 'cru', 'Carub.0007s2722' => 'cru', 'Ca_00058_v3' => 'car', 'Ca_17831_v3' => 'car', 'Ca_19408_v3' => 'car', 'Ca_24397_v3' => 'car', 'Ca_25664_v3' => 'car', 'CBR_g21818' => 'cbr', 'CBR_g31195' => 'cbr', 'CBR_g32282' => 'cbr', 'CBR_g39599' => 'cbr', 'CBR_g49410' => 'cbr', 'Cc01_g09120' => 'ccan', 'Cc01_g09130' => 'ccan', 'Cc02_g09630' => 'ccan', 'Cc02_g22810' => 'ccan', 'Cc03_g03810' => 'ccan', 'CDE02G3718' => 'cde', 'CDE04G3183' => 'cde', 'CDE07G1046' => 'cde', 'CDE08G0480' => 'cde', 'Cfa005493' => 'cfa', 'Cfa010312' => 'cfa', 'Cfa015648' => 'cfa', 'Ciclev10002793m.g' => 'ccl', 'Ciclev10003356m.g' => 'ccl', 'Ciclev10006141m.g' => 'ccl', 'Ciclev10016676m.g' => 'ccl', 'Ciclev10017081m.g' => 'ccl', 'Ciclev10029499m.g' => 'ccl', 'CiPaw.01G166300' => 'cil', 'CiPaw.06G145600' => 'cil', 'CiPaw.13G040100' => 'cil', 'CiPaw.13G135800' => 'cil', 'ClCG01G012230' => 'cla', 'ClCG05G009510' => 'cla', 'ClCG08G008270' => 'cla', 'COL.COLO4_11763' => 'col', 'COL.COLO4_19876' => 'col', 'COL.COLO4_21481' => 'col', 'Cpa.g.sc118.34' => 'cpa', 'Cpa.g.sc32.13' => 'cpa', 'Cpa.g.sc58.103' => 'cpa', 'Cre03.g183850' => 'cre', 'Cre06.g306350' => 'cre', 'Cre07.g334800' => 'cre', 'Cre12.g487900' => 'cre', 'Cre14.g626700' => 'cre', 'Cre16.g658400' => 'cre', 'Cre17.g700950' => 'cre', 'CsaV3_1G014830' => 'csa', 'CsaV3_3G013320' => 'csa', 'CsaV3_3G019210' => 'csa', 'CsaV3_3G019220' => 'csa', 'CsaV3_6G004230' => 'csa', 'CSS0003773' => 'camsi', 'CSS0004563' => 'camsi', 'CSS0013949' => 'camsi', 'CSS0025971' => 'camsi', 'CSS0028570' => 'camsi', 'CSS0033127' => 'camsi', 'CSS0036051' => 'camsi', 'CSS0040087' => 'camsi', 'CSS0043179' => 'camsi', 'DCAR_006161' => 'dca', 'DCAR_010351' => 'dca', 'DCAR_012197' => 'dca', 'DCAR_024162' => 'dca', 'Dinv01030' => 'din', 'Dinv10924' => 'din', 'Dinv11835' => 'din', 'Dinv22841' => 'din', 'Dinv42553' => 'din', 'Duzib052G0560' => 'dzi', 'Duzib132G0389' => 'dzi', 'Duzib150G1181' => 'dzi', 'Duzib168G0623' => 'dzi', 'Duzib170G1036' => 'dzi', 'Duzib212G0200' => 'dzi', 'Duzib248G0194' => 'dzi', 'ECA232G2193' => 'eca', 'ECA233G0302' => 'eca', 'ECA234G2813' => 'eca', 'ECA234G4866' => 'eca', 'ECA240G3932' => 'eca', 'ECA248G0385' => 'eca', 'EL10Ac2g04781' => 'bvu', 'EL10Ac3g06445' => 'bvu', 'EL10Ac7g15825' => 'bvu', 'EL10Ac8g18550' => 'bvu', 'Eucgr.B03849' => 'egr', 'Eucgr.I02744' => 'egr', 'Eucgr.J00264' => 'egr', 'Eucgr.J00493' => 'egr', 'FAN04G2181' => 'fan', 'FAN07G2666' => 'fan', 'FAN11G0024' => 'fan', 'FAN12G1105' => 'fan', 'FAN13G0302' => 'fan', 'FAN15G2781' => 'fan', 'FAN16G1274' => 'fan', 'FAN17G2988' => 'fan', 'FAN18G2621' => 'fan', 'FAN21G0013' => 'fan', 'FAN22G1211' => 'fan', 'FAN25G3626' => 'fan', 'FvH4_2g09491' => 'fve', 'FvH4_3g24910' => 'fve', 'FvH4_4g15630' => 'fve', 'FvH4_5g28820' => 'fve', 'Glyma.01G238000' => 'gma', 'Glyma.05G168400' => 'gma', 'Glyma.08G126800' => 'gma', 'Glyma.08G188500' => 'gma', 'Glyma.10G278900' => 'gma', 'Glyma.11G005700' => 'gma', 'Glyma.11G183300' => 'gma', 'Glyma.12G089200' => 'gma', 'Glyma.12G169400' => 'gma', 'Glyma.12G169500' => 'gma', 'Glyma.12G169600' => 'gma', 'Glyma.20G110800' => 'gma', 'Gohir.A03G192900' => 'ghi', 'Gohir.A03G193000' => 'ghi', 'Gohir.A05G080700' => 'ghi', 'Gohir.A09G216000' => 'ghi', 'Gohir.A12G027700' => 'ghi', 'Gohir.A13G036200' => 'ghi', 'Gohir.A13G222600' => 'ghi', 'Gohir.D02G213900' => 'ghi', 'Gohir.D02G214000' => 'ghi', 'Gohir.D05G083700' => 'ghi', 'Gohir.D05G083800' => 'ghi', 'Gohir.D05G083850' => 'ghi', 'Gohir.D08G015400' => 'ghi', 'Gohir.D09G218400' => 'ghi', 'Gohir.D12G027100' => 'ghi', 'Gohir.D13G034500' => 'ghi', 'Gohir.D13G227400' => 'ghi', 'Gorai.005G241800' => 'gra', 'Gorai.005G241900' => 'gra', 'Gorai.006G239400' => 'gra', 'Gorai.008G027600' => 'gra', 'Gorai.009G085400' => 'gra', 'Gorai.009G085500' => 'gra', 'Gorai.013G039000' => 'gra', 'Gorai.013G194800' => 'gra', 'Gorai.013G257900' => 'gra', 'GSVIVG01000982001' => 'vvi', 'GSVIVG01017981001' => 'vvi', 'HanXRQChr01g0024061' => 'han', 'HanXRQChr09g0247831' => 'han', 'HanXRQChr10g0294611' => 'han', 'HanXRQChr10g0294621' => 'han', 'HanXRQChr11g0346821' => 'han', 'HanXRQChr13g0397461' => 'han', 'HanXRQChr16g0513651' => 'han', 'HanXRQChr16g0513701' => 'han', 'Haze_00897' => 'cav', 'Haze_01745' => 'cav', 'Haze_02486' => 'cav', 'Haze_02487' => 'cav', 'Haze_23374' => 'cav', 'Hma1.2p1_0578F.1_g182520' => 'hma', 'Hma1.2p1_0602F.1_g187350' => 'hma', 'Hma1.2p1_0602F.1_g187360' => 'hma', 'Hma1.2p1_0874F.1_g231320' => 'hma', 'Hma1.2p1_1197F.1_g266210' => 'hma', 'Hma1.2p1_1197F.1_g266220' => 'hma', 'Hma1.2p1_2167F.1_g315895' => 'hma', 'Hma1.2p1_2190F.1_g316640' => 'hma', 'Hma1.2p1_3645F.1_g337153' => 'hma', 'HPP92_004907' => 'vpl', 'HPP92_012134' => 'vpl', 'HPP92_025136' => 'vpl', 'HPP92_026087' => 'vpl', 'Hund06782' => 'sun', 'Hund06784' => 'sun', 'Lalb_Chr01g0004861' => 'lal', 'Lalb_Chr02g0140591' => 'lal', 'Lalb_Chr02g0140611' => 'lal', 'Lalb_Chr03g0028101' => 'lal', 'Lalb_Chr07g0185791' => 'lal', 'Lalb_Chr12g0204491' => 'lal', 'Lalb_Chr13g0295671' => 'lal', 'Lalb_Chr19g0136461' => 'lal', 'Lalb_Chr21g0309191' => 'lal', 'Lj1g0028158' => 'lja', 'Lj1P236T38' => 'lonja', 'Lj2C32G2' => 'lonja', 'Lj2P944T8' => 'lonja', 'Lj2P963T15' => 'lonja', 'Lj3g0011788' => 'lja', 'Lj4g0025027' => 'lja', 'Lj5P255T36' => 'lonja', 'Lj6g0018866' => 'lja', 'Lj6P608T31' => 'lonja', 'LjContig00408g0008879' => 'lja', 'Lsat_1_v5_gn_5_105820' => 'lsa', 'Lsat_1_v5_gn_6_38800' => 'lsa', 'Lsat_1_v5_gn_7_67141' => 'lsa', 'Manes.04G003400' => 'mes', 'Manes.07G020000' => 'mes', 'Manes.07G020100' => 'mes', 'Manes.07G020150' => 'mes', 'Manes.10G061500' => 'mes', 'Manes.10G123200' => 'mes', 'Manes.11G161900' => 'mes', 'Manes.15G029300' => 'mes', 'Mapoly0071s0018' => 'mpo', 'Mapoly0082s0023' => 'mpo', 'Mapoly3477s0001' => 'mpo', 'MBI05_g31233_MAGBIO' => 'mbi', 'MBI09_g05946_MAGBIO' => 'mbi', 'MBI09_g05947_MAGBIO' => 'mbi', 'MBI17_g08346_MAGBIO' => 'mbi', 'MCO04G038' => 'mco', 'MCO09G370' => 'mco', 'MCO13G605' => 'mco', 'MD00G1075500' => 'mdo', 'MD03G1144300' => 'mdo', 'MD08G1236800' => 'mdo', 'MD13G1193300' => 'mdo', 'MD15G1428700' => 'mdo', 'Medtr1g112030' => 'mtr', 'Medtr1g112050' => 'mtr', 'Medtr2g006290' => 'mtr', 'Medtr2g086510' => 'mtr', 'Medtr4g053120' => 'mtr', 'Medtr5g006320' => 'mtr', 'Medtr8g088720' => 'mtr', 'MELO3C004712.2' => 'cme', 'MELO3C006533.2' => 'cme', 'MELO3C019438.2' => 'cme', 'MELO3C019440.2' => 'cme', 'MELO3C019441.2' => 'cme', 'MELO3C019895.2' => 'cme', 'Migut.B00811' => 'egut', 'Migut.D02447' => 'egut', 'Migut.F00875' => 'egut', 'Migut.N00186' => 'egut', 'Migut.N01051' => 'egut', 'Migut.N02491' => 'egut', 'Migut.O00784' => 'egut', 'MSTRG.12367' => 'ama', 'MSTRG.18756' => 'ama', 'MSTRG.21042' => 'ama', 'Nitab4.5_0000559g0040' => 'nta', 'Nitab4.5_0000667g0190' => 'nta', 'Nitab4.5_0000755g0160' => 'nta', 'Nitab4.5_0001216g0080' => 'nta', 'Nitab4.5_0004069g0040' => 'nta', 'Nitab4.5_0004129g0010' => 'nta', 'Nitab4.5_0005744g0030' => 'nta', 'Nitab4.5_0006996g0030' => 'nta', 'Nitab4.5_0008971g0040' => 'nta', 'Nitab4.5_0009769g0020' => 'nta', 'Nitab4.5_0009833g0010' => 'nta', 'Nitab4.5_0013140g0020' => 'nta', 'Nn003s41376' => 'nnu', 'Nn1g01857' => 'nnu', 'Nn1g03611' => 'nnu', 'Nn1g06853' => 'nnu', 'Nn3g18360' => 'nnu', 'Nn4g26328' => 'nnu', 'Nn5g27531' => 'nnu', 'Nn6g34899' => 'nnu', 'Nn7g36299' => 'nnu', 'Oeu021485.1' => 'oeu', 'Oeu022433.1' => 'oeu', 'Oeu032111.1' => 'oeu', 'Oeu051608.1' => 'oeu', 'Os01g0860601' => 'osa', 'Os03g0659200' => 'osa', 'Os03g0835900' => 'osa', 'Os04g0412200' => 'osa', 'Os05g0443500' => 'osa', 'Os07g0251500' => 'osa', 'Os08g0104600' => 'osa', 'Peaxi162Scf00003g00047' => 'pax', 'Peaxi162Scf00003g00052' => 'pax', 'Peaxi162Scf00003g00394' => 'pax', 'Peaxi162Scf00091g00621' => 'pax', 'Peaxi162Scf00152g00146' => 'pax', 'Peaxi162Scf00173g00025' => 'pax', 'Peaxi162Scf00195g00102' => 'pax', 'Peaxi162Scf00402g00013' => 'pax', 'Peaxi162Scf00519g00618' => 'pax', 'PGR004G2838' => 'pgr', 'PGR044G2275' => 'pgr', 'PGR102G1377' => 'pgr', 'PGR119G1245' => 'pgr', 'PGR142G4449' => 'pgr', 'PGSC0003DMG400004532' => 'stu', 'PGSC0003DMG400011950' => 'stu', 'PGSC0003DMG400023391' => 'stu', 'PGSC0003DMG400023985' => 'stu', 'PGSC0003DMG400026360' => 'stu', 'PGSC0003DMG400035711' => 'stu', 'PGSC0003DMG400037286' => 'stu', 'PGSC0003DMG402005881' => 'stu', 'Phvul.002G045400' => 'pvu', 'Phvul.006G216600' => 'pvu', 'Phvul.006G216700' => 'pvu', 'Phvul.006G216800' => 'pvu', 'Phvul.007G022500' => 'pvu', 'Phvul.011G094400' => 'pvu', 'Potri.001G470700' => 'ptr', 'Potri.003G015200' => 'ptr', 'Potri.004G202500' => 'ptr', 'Potri.004G218400' => 'ptr', 'Potri.008G020100' => 'ptr', 'Potri.008G153200' => 'ptr', 'Potri.009G163800' => 'ptr', 'Potri.010G087300' => 'ptr', 'Potri.010G239100' => 'ptr', 'Pp3c10_16100' => 'ppa', 'Pp3c10_16880' => 'ppa', 'Pp3c16_6230' => 'ppa', 'Pp3c17_18910' => 'ppa', 'Pp3c3_22119' => 'ppa', 'Pp3c3_22140' => 'ppa', 'Pp3c4_8159' => 'ppa', 'Pp3c4_8171' => 'ppa', 'Pp3c4_8330' => 'ppa', 'PRCOL_00004098' => 'pco', 'Prupe.1G013900' => 'ppe', 'Prupe.1G226300' => 'ppe', 'Prupe.1G573600' => 'ppe', 'Prupe.6G130100' => 'ppe', 'Psat3g090040' => 'psa', 'Psat4g210440' => 'psa', 'Psat6g231040' => 'psa', 'Psat6g231080' => 'psa', 'Psat7g063000' => 'psa', 'Psat7g188000' => 'psa', 'Psat7g188040' => 'psa', 'PSO017G0206' => 'pso', 'PSO170G0501' => 'pso', 'PSO170G6422' => 'pso', 'PSO210G7739' => 'pso', 'PSO339G1808' => 'pso', 'PSO339G6135' => 'pso', 'PSO384G0010' => 'pso', 'PSO384G0964' => 'pso', 'PSO761G0050' => 'pso', 'PSO782G4085' => 'pso', 'QL01p012264' => 'qlo', 'QL02p099491' => 'qlo', 'QL03p033868' => 'qlo', 'QL04p046678' => 'qlo', 'QL06p002448' => 'qlo', 'RcHm_v2.0_Chr4g0416181' => 'rch', 'RcHm_v2.0_Chr5g0044701' => 'rch', 'RcHm_v2.0_Chr6g0265781' => 'rch', 'RcHm_v2.0_Chr7g0221031' => 'rch', 'Rhsim04G0202000' => 'rsi', 'Rhsim11G0127300' => 'rsi', 'Rhsim13G0111800' => 'rsi', 'Sabra01G0165600' => 'sbr', 'Sabra03G0008300' => 'sbr', 'Sabra04G0136900' => 'sbr', 'Sabra08G0013400' => 'sbr', 'Sabra08G0116800' => 'sbr', 'Sabra09G0128000' => 'sbr', 'Sabra10G0055500' => 'sbr', 'Sabra10G0073300' => 'sbr', 'SalBow3G0385' => 'sbo', 'SalBow3G1119' => 'sbo', 'SalBow3G2005' => 'sbo', 'SalBow6G2563' => 'sbo', 'SalBow6G6386' => 'sbo', 'Sc06g0008800' => 'sci', 'Sc07g0004950' => 'sci', 'Sc09g0005340' => 'sci', 'Sc13g0004410' => 'sci', 'Sc21g0007090' => 'sci', 'Sed0009285' => 'sed', 'Sed0017583' => 'sed', 'Sed0019699' => 'sed', 'Sed0023107' => 'sed', 'SEGI_10916' => 'sgi', 'SEGI_16217' => 'sgi', 'SEGI_19466' => 'sgi', 'SEGI_41115' => 'sgi', 'SGA_v2.0_scaffold111G31534' => 'sas', 'SGA_v2.0_scaffold22G09864' => 'sas', 'SGA_v2.0_scaffold338G49219' => 'sas', 'SGA_v2.0_scaffold92G28298' => 'sas', 'SMO119G0064' => 'smo', 'SMO223G0038' => 'smo', 'SMO347G0584' => 'smo', 'SMO351G0010' => 'smo', 'SMO356G0404' => 'smo', 'Solyc01g103920.3' => 'sly', 'Solyc04g009710.2' => 'sly', 'Solyc05g055280.2' => 'sly', 'Solyc10g044520.3' => 'sly', 'Solyc10g075160.1' => 'sly', 'Solyc11g006910.3' => 'sly', 'Solyc11g068430.3' => 'sly', 'Sopen01g046310' => 'spe', 'Sopen03g001200' => 'spe', 'Sopen04g004830' => 'spe', 'Sopen05g033720' => 'spe', 'Sopen06g030740' => 'spe', 'Sopen10g013090' => 'spe', 'Sopen10g027630' => 'spe', 'Sopen10g027640' => 'spe', 'Sopen11g002820' => 'spe', 'Sopen11g027140' => 'spe', 'Sp1g09680' => 'spa', 'Sp2g03630' => 'spa', 'Sp4g10320' => 'spa', 'Sp6g33400' => 'spa', 'Sp7g13030' => 'spa', 'TAR365G0317' => 'tar', 'TAR376G0979' => 'tar', 'TAR623G1665' => 'tar', 'TAR633G2373' => 'tar', 'TAR636G1400' => 'tar', 'THA.LOC104800529' => 'tha', 'THA.LOC104808547' => 'tha', 'THA.LOC104809615' => 'tha', 'THA.LOC104815724' => 'tha', 'THA.LOC104818480' => 'tha', 'THA.LOC104819179' => 'tha', 'THA.LOC104822270' => 'tha', 'THA.LOC104826425' => 'tha', 'Thecc.02G089700' => 'tca', 'Thecc.04G232300' => 'tca', 'Thecc.09G283400' => 'tca', 'Thhalv10009020m.g' => 'esa', 'Thhalv10015506m.g' => 'esa', 'Thhalv10017364m.g' => 'esa', 'Thhalv10023742m.g' => 'esa', 'Thhalv10026483m.g' => 'esa', 'TPR.G17232' => 'tpr', 'TPR.G2133' => 'tpr', 'TPR.G2498' => 'tpr', 'TPR.G31942' => 'tpr', 'TPR.G37877' => 'tpr', 'TPR.G4571' => 'tpr', 'TWI14G1113' => 'twi', 'TWI15G0426' => 'twi', 'TWI31G1005' => 'twi', 'TWI38G0513' => 'twi', 'TWI38G1484' => 'twi', 'TWI73G1098' => 'twi', 'unitig_26.g10519' => 'ugi', 'unitig_736.g22395' => 'ugi', 'unitig_747.g21234' => 'ugi', 'unitig_747.g21942' => 'ugi', 'vmacro14351' => 'vma', 'VMungo0540G0082' => 'vmu', 'VMungo0540G0405' => 'vmu', 'VMungo0540G1486' => 'vmu', 'VMungo0540G1692' => 'vmu', 'VMungo0720G2473' => 'vmu', 'VMungo1127G1562' => 'vmu', 'VMungo1215G1918' => 'vmu', 'Zm00001eb052650' => 'zma', 'Zm00001eb063710' => 'zma', 'Zm00001eb083950' => 'zma', 'Zm00001eb174420' => 'zma', 'Zm00001eb260140' => 'zma', 'Zm00001eb260150' => 'zma', 'Zm00001eb260160' => 'zma', 'Zm00001eb348290' => 'zma', 'Zm00001eb366870' => 'zma', 'Zm00001eb421930' => 'zma' ), 'gf_id' => 'HOM05D001025', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001025' ), 'data_identifier' => 'HOM05D001025', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001025', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '592', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p22650' => 'bna', 'A01p29720' => 'bna', 'A03p26560' => 'bna', 'A03p68820' => 'bna', 'A04p20980' => 'bna', 'A06p07730' => 'bna', 'A07p18260' => 'bna', 'A08p33710' => 'bna', 'A09p16970' => 'bna', 'A10p27490' => 'bna', 'Aa31LG1G17300' => 'aar', 'Aa31LG1G3910' => 'aar', 'Aa31LG2G9630' => 'aar', 'Aa31LG5G8360' => 'aar', 'Aa31LG9G2410' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4699' => 'aag', 'Actinidia23512' => 'ach', 'Actinidia37080' => 'ach', 'Ah.01g020380' => 'amhyb', 'Ah.08g215710' => 'amhyb', 'Ah.09g225110' => 'amhyb', 'Ah.10g036680' => 'amhyb', 'AL1G21940' => 'aly', 'AL2G15540' => 'aly', 'AL4G21520' => 'aly', 'AL7G40960' => 'aly', 'Aqoxy2G01191' => 'aox', 'Aqoxy2G03393' => 'aox', 'Aqoxy4G02775' => 'aox', 'Aqoxy6G00058' => 'aox', 'arahy.Tifrunner.gnm1.ann1.9X74H2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CW3FX9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R485W7' => 'arhy', 'AT1G10960' => 'ath', 'AT1G60950' => 'ath', 'AT2G27510' => 'ath', 'AT4G14890' => 'ath', 'AT5G10000' => 'ath', 'ATR0665G624' => 'atr', 'ATR0697G138' => 'atr', 'ATR0776G046' => 'atr', 'ATR1134G135' => 'atr', 'Atru.chr12.1025' => 'acertr', 'Atru.chr3.3241' => 'acertr', 'Atru.chr4.2460' => 'acertr', 'AUR62007427' => 'cqu', 'AUR62010960' => 'cqu', 'AUR62012201' => 'cqu', 'AUR62021470' => 'cqu', 'AUR62022834' => 'cqu', 'AUR62033635' => 'cqu', 'AUR62036186' => 'cqu', 'BcaB01g03077' => 'bca', 'BcaB02g10093' => 'bca', 'BcaB04g20295' => 'bca', 'BcaB06g28147' => 'bca', 'BcaB07g31253' => 'bca', 'BcaC01g04946' => 'bca', 'BcaC02g10614' => 'bca', 'BcaC02g10885' => 'bca', 'BcaC04g19356' => 'bca', 'BcaC04g22297' => 'bca', 'BcaC05g24977' => 'bca', 'BcaC06g31823' => 'bca', 'BcaC07g38633' => 'bca', 'BcaC09g49353' => 'bca', 'BcaC09g50168' => 'bca', 'BcaNung00322' => 'bca', 'BcaNung04769' => 'bca', 'BolC1t02753H' => 'bol', 'BolC1t03721H' => 'bol', 'BolC3t15525H' => 'bol', 'BolC4t23903H' => 'bol', 'BolC4t24231H' => 'bol', 'BolC4t27209H' => 'bol', 'BolC5t29671H' => 'bol', 'BolC8t49044H' => 'bol', 'BolC9t54999H' => 'bol', 'BolC9t59517H' => 'bol', 'BraA01t02178Z' => 'bra', 'BraA01t03099Z' => 'bra', 'BraA03t11867Z' => 'bra', 'BraA04t17667Z' => 'bra', 'BraA07t29542Z' => 'bra', 'BraA08t35287Z' => 'bra', 'BraA09t37334Z' => 'bra', 'BraA10t44801Z' => 'bra', 'BraSC39t46181Z' => 'bra', 'C01p28240' => 'bna', 'C01p37530' => 'bna', 'C03p31820' => 'bna', 'C04p24080' => 'bna', 'C04p25790' => 'bna', 'C04p56770' => 'bna', 'C05p09310' => 'bna', 'C09p21010' => 'bna', 'C09p67560' => 'bna', 'CAN.G1324.7' => 'can', 'CAN.G1358.10' => 'can', 'CAN.G1550.2' => 'can', 'CAN.G186.56' => 'can', 'CAN.G1965.1' => 'can', 'CAN.G645.15' => 'can', 'CAN.G798.26' => 'can', 'CAN.G798.27' => 'can', 'CAN.G798.29' => 'can', 'CAN.G919.31' => 'can', 'CANSAT11G0133' => 'cansat', 'CANSAT11G1171' => 'cansat', 'CANSAT11G2056' => 'cansat', 'CANSAT56G1202' => 'cansat', 'CANSAT56G1514' => 'cansat', 'CANSAT78G0455' => 'cansat', 'CARHR011190' => 'chi', 'CARHR051980' => 'chi', 'CARHR120170' => 'chi', 'CARHR203310' => 'chi', 'CARHR221490' => 'chi', 'Carub.0001s1054' => 'cru', 'Carub.0002s0431' => 'cru', 'Carub.0004s0818' => 'cru', 'Carub.0006s0846' => 'cru', 'Carub.0007s2722' => 'cru', 'Ca_00058_v3' => 'car', 'Ca_17831_v3' => 'car', 'Ca_19408_v3' => 'car', 'Ca_24397_v3' => 'car', 'Ca_25664_v3' => 'car', 'CBR_g21818' => 'cbr', 'CBR_g31195' => 'cbr', 'CBR_g32282' => 'cbr', 'CBR_g39599' => 'cbr', 'CBR_g49410' => 'cbr', 'Cc01_g09120' => 'ccan', 'Cc01_g09130' => 'ccan', 'Cc02_g09630' => 'ccan', 'Cc02_g22810' => 'ccan', 'Cc03_g03810' => 'ccan', 'CDE02G3718' => 'cde', 'CDE04G3183' => 'cde', 'CDE07G1046' => 'cde', 'CDE08G0480' => 'cde', 'Cfa005493' => 'cfa', 'Cfa010312' => 'cfa', 'Cfa015648' => 'cfa', 'Ciclev10002793m.g' => 'ccl', 'Ciclev10003356m.g' => 'ccl', 'Ciclev10006141m.g' => 'ccl', 'Ciclev10016676m.g' => 'ccl', 'Ciclev10017081m.g' => 'ccl', 'Ciclev10029499m.g' => 'ccl', 'CiPaw.01G166300' => 'cil', 'CiPaw.06G145600' => 'cil', 'CiPaw.13G040100' => 'cil', 'CiPaw.13G135800' => 'cil', 'ClCG01G012230' => 'cla', 'ClCG05G009510' => 'cla', 'ClCG08G008270' => 'cla', 'COL.COLO4_11763' => 'col', 'COL.COLO4_19876' => 'col', 'COL.COLO4_21481' => 'col', 'Cpa.g.sc118.34' => 'cpa', 'Cpa.g.sc32.13' => 'cpa', 'Cpa.g.sc58.103' => 'cpa', 'Cre03.g183850' => 'cre', 'Cre06.g306350' => 'cre', 'Cre07.g334800' => 'cre', 'Cre12.g487900' => 'cre', 'Cre14.g626700' => 'cre', 'Cre16.g658400' => 'cre', 'Cre17.g700950' => 'cre', 'CsaV3_1G014830' => 'csa', 'CsaV3_3G013320' => 'csa', 'CsaV3_3G019210' => 'csa', 'CsaV3_3G019220' => 'csa', 'CsaV3_6G004230' => 'csa', 'CSS0003773' => 'camsi', 'CSS0004563' => 'camsi', 'CSS0013949' => 'camsi', 'CSS0025971' => 'camsi', 'CSS0028570' => 'camsi', 'CSS0033127' => 'camsi', 'CSS0036051' => 'camsi', 'CSS0040087' => 'camsi', 'CSS0043179' => 'camsi', 'DCAR_006161' => 'dca', 'DCAR_010351' => 'dca', 'DCAR_012197' => 'dca', 'DCAR_024162' => 'dca', 'Dinv01030' => 'din', 'Dinv10924' => 'din', 'Dinv11835' => 'din', 'Dinv22841' => 'din', 'Dinv42553' => 'din', 'Duzib052G0560' => 'dzi', 'Duzib132G0389' => 'dzi', 'Duzib150G1181' => 'dzi', 'Duzib168G0623' => 'dzi', 'Duzib170G1036' => 'dzi', 'Duzib212G0200' => 'dzi', 'Duzib248G0194' => 'dzi', 'ECA232G2193' => 'eca', 'ECA233G0302' => 'eca', 'ECA234G2813' => 'eca', 'ECA234G4866' => 'eca', 'ECA240G3932' => 'eca', 'ECA248G0385' => 'eca', 'EL10Ac2g04781' => 'bvu', 'EL10Ac3g06445' => 'bvu', 'EL10Ac7g15825' => 'bvu', 'EL10Ac8g18550' => 'bvu', 'Eucgr.B03849' => 'egr', 'Eucgr.I02744' => 'egr', 'Eucgr.J00264' => 'egr', 'Eucgr.J00493' => 'egr', 'FAN04G2181' => 'fan', 'FAN07G2666' => 'fan', 'FAN11G0024' => 'fan', 'FAN12G1105' => 'fan', 'FAN13G0302' => 'fan', 'FAN15G2781' => 'fan', 'FAN16G1274' => 'fan', 'FAN17G2988' => 'fan', 'FAN18G2621' => 'fan', 'FAN21G0013' => 'fan', 'FAN22G1211' => 'fan', 'FAN25G3626' => 'fan', 'FvH4_2g09491' => 'fve', 'FvH4_3g24910' => 'fve', 'FvH4_4g15630' => 'fve', 'FvH4_5g28820' => 'fve', 'Glyma.01G238000' => 'gma', 'Glyma.05G168400' => 'gma', 'Glyma.08G126800' => 'gma', 'Glyma.08G188500' => 'gma', 'Glyma.10G278900' => 'gma', 'Glyma.11G005700' => 'gma', 'Glyma.11G183300' => 'gma', 'Glyma.12G089200' => 'gma', 'Glyma.12G169400' => 'gma', 'Glyma.12G169500' => 'gma', 'Glyma.12G169600' => 'gma', 'Glyma.20G110800' => 'gma', 'Gohir.A03G192900' => 'ghi', 'Gohir.A03G193000' => 'ghi', 'Gohir.A05G080700' => 'ghi', 'Gohir.A09G216000' => 'ghi', 'Gohir.A12G027700' => 'ghi', 'Gohir.A13G036200' => 'ghi', 'Gohir.A13G222600' => 'ghi', 'Gohir.D02G213900' => 'ghi', 'Gohir.D02G214000' => 'ghi', 'Gohir.D05G083700' => 'ghi', 'Gohir.D05G083800' => 'ghi', 'Gohir.D05G083850' => 'ghi', 'Gohir.D08G015400' => 'ghi', 'Gohir.D09G218400' => 'ghi', 'Gohir.D12G027100' => 'ghi', 'Gohir.D13G034500' => 'ghi', 'Gohir.D13G227400' => 'ghi', 'Gorai.005G241800' => 'gra', 'Gorai.005G241900' => 'gra', 'Gorai.006G239400' => 'gra', 'Gorai.008G027600' => 'gra', 'Gorai.009G085400' => 'gra', 'Gorai.009G085500' => 'gra', 'Gorai.013G039000' => 'gra', 'Gorai.013G194800' => 'gra', 'Gorai.013G257900' => 'gra', 'GSVIVG01000982001' => 'vvi', 'GSVIVG01017981001' => 'vvi', 'HanXRQChr01g0024061' => 'han', 'HanXRQChr09g0247831' => 'han', 'HanXRQChr10g0294611' => 'han', 'HanXRQChr10g0294621' => 'han', 'HanXRQChr11g0346821' => 'han', 'HanXRQChr13g0397461' => 'han', 'HanXRQChr16g0513651' => 'han', 'HanXRQChr16g0513701' => 'han', 'Haze_00897' => 'cav', 'Haze_01745' => 'cav', 'Haze_02486' => 'cav', 'Haze_02487' => 'cav', 'Haze_23374' => 'cav', 'Hma1.2p1_0578F.1_g182520' => 'hma', 'Hma1.2p1_0602F.1_g187350' => 'hma', 'Hma1.2p1_0602F.1_g187360' => 'hma', 'Hma1.2p1_0874F.1_g231320' => 'hma', 'Hma1.2p1_1197F.1_g266210' => 'hma', 'Hma1.2p1_1197F.1_g266220' => 'hma', 'Hma1.2p1_2167F.1_g315895' => 'hma', 'Hma1.2p1_2190F.1_g316640' => 'hma', 'Hma1.2p1_3645F.1_g337153' => 'hma', 'HPP92_004907' => 'vpl', 'HPP92_012134' => 'vpl', 'HPP92_025136' => 'vpl', 'HPP92_026087' => 'vpl', 'Hund06782' => 'sun', 'Hund06784' => 'sun', 'Lalb_Chr01g0004861' => 'lal', 'Lalb_Chr02g0140591' => 'lal', 'Lalb_Chr02g0140611' => 'lal', 'Lalb_Chr03g0028101' => 'lal', 'Lalb_Chr07g0185791' => 'lal', 'Lalb_Chr12g0204491' => 'lal', 'Lalb_Chr13g0295671' => 'lal', 'Lalb_Chr19g0136461' => 'lal', 'Lalb_Chr21g0309191' => 'lal', 'Lj1g0028158' => 'lja', 'Lj1P236T38' => 'lonja', 'Lj2C32G2' => 'lonja', 'Lj2P944T8' => 'lonja', 'Lj2P963T15' => 'lonja', 'Lj3g0011788' => 'lja', 'Lj4g0025027' => 'lja', 'Lj5P255T36' => 'lonja', 'Lj6g0018866' => 'lja', 'Lj6P608T31' => 'lonja', 'LjContig00408g0008879' => 'lja', 'Lsat_1_v5_gn_5_105820' => 'lsa', 'Lsat_1_v5_gn_6_38800' => 'lsa', 'Lsat_1_v5_gn_7_67141' => 'lsa', 'Manes.04G003400' => 'mes', 'Manes.07G020000' => 'mes', 'Manes.07G020100' => 'mes', 'Manes.07G020150' => 'mes', 'Manes.10G061500' => 'mes', 'Manes.10G123200' => 'mes', 'Manes.11G161900' => 'mes', 'Manes.15G029300' => 'mes', 'Mapoly0071s0018' => 'mpo', 'Mapoly0082s0023' => 'mpo', 'Mapoly3477s0001' => 'mpo', 'MBI05_g31233_MAGBIO' => 'mbi', 'MBI09_g05946_MAGBIO' => 'mbi', 'MBI09_g05947_MAGBIO' => 'mbi', 'MBI17_g08346_MAGBIO' => 'mbi', 'MCO04G038' => 'mco', 'MCO09G370' => 'mco', 'MCO13G605' => 'mco', 'MD00G1075500' => 'mdo', 'MD03G1144300' => 'mdo', 'MD08G1236800' => 'mdo', 'MD13G1193300' => 'mdo', 'MD15G1428700' => 'mdo', 'Medtr1g112030' => 'mtr', 'Medtr1g112050' => 'mtr', 'Medtr2g006290' => 'mtr', 'Medtr2g086510' => 'mtr', 'Medtr4g053120' => 'mtr', 'Medtr5g006320' => 'mtr', 'Medtr8g088720' => 'mtr', 'MELO3C004712.2' => 'cme', 'MELO3C006533.2' => 'cme', 'MELO3C019438.2' => 'cme', 'MELO3C019440.2' => 'cme', 'MELO3C019441.2' => 'cme', 'MELO3C019895.2' => 'cme', 'Migut.B00811' => 'egut', 'Migut.D02447' => 'egut', 'Migut.F00875' => 'egut', 'Migut.N00186' => 'egut', 'Migut.N01051' => 'egut', 'Migut.N02491' => 'egut', 'Migut.O00784' => 'egut', 'MSTRG.12367' => 'ama', 'MSTRG.18756' => 'ama', 'MSTRG.21042' => 'ama', 'Nitab4.5_0000559g0040' => 'nta', 'Nitab4.5_0000667g0190' => 'nta', 'Nitab4.5_0000755g0160' => 'nta', 'Nitab4.5_0001216g0080' => 'nta', 'Nitab4.5_0004069g0040' => 'nta', 'Nitab4.5_0004129g0010' => 'nta', 'Nitab4.5_0005744g0030' => 'nta', 'Nitab4.5_0006996g0030' => 'nta', 'Nitab4.5_0008971g0040' => 'nta', 'Nitab4.5_0009769g0020' => 'nta', 'Nitab4.5_0009833g0010' => 'nta', 'Nitab4.5_0013140g0020' => 'nta', 'Nn003s41376' => 'nnu', 'Nn1g01857' => 'nnu', 'Nn1g03611' => 'nnu', 'Nn1g06853' => 'nnu', 'Nn3g18360' => 'nnu', 'Nn4g26328' => 'nnu', 'Nn5g27531' => 'nnu', 'Nn6g34899' => 'nnu', 'Nn7g36299' => 'nnu', 'Oeu021485.1' => 'oeu', 'Oeu022433.1' => 'oeu', 'Oeu032111.1' => 'oeu', 'Oeu051608.1' => 'oeu', 'Os01g0860601' => 'osa', 'Os03g0659200' => 'osa', 'Os03g0835900' => 'osa', 'Os04g0412200' => 'osa', 'Os05g0443500' => 'osa', 'Os07g0251500' => 'osa', 'Os08g0104600' => 'osa', 'Peaxi162Scf00003g00047' => 'pax', 'Peaxi162Scf00003g00052' => 'pax', 'Peaxi162Scf00003g00394' => 'pax', 'Peaxi162Scf00091g00621' => 'pax', 'Peaxi162Scf00152g00146' => 'pax', 'Peaxi162Scf00173g00025' => 'pax', 'Peaxi162Scf00195g00102' => 'pax', 'Peaxi162Scf00402g00013' => 'pax', 'Peaxi162Scf00519g00618' => 'pax', 'PGR004G2838' => 'pgr', 'PGR044G2275' => 'pgr', 'PGR102G1377' => 'pgr', 'PGR119G1245' => 'pgr', 'PGR142G4449' => 'pgr', 'PGSC0003DMG400004532' => 'stu', 'PGSC0003DMG400011950' => 'stu', 'PGSC0003DMG400023391' => 'stu', 'PGSC0003DMG400023985' => 'stu', 'PGSC0003DMG400026360' => 'stu', 'PGSC0003DMG400035711' => 'stu', 'PGSC0003DMG400037286' => 'stu', 'PGSC0003DMG402005881' => 'stu', 'Phvul.002G045400' => 'pvu', 'Phvul.006G216600' => 'pvu', 'Phvul.006G216700' => 'pvu', 'Phvul.006G216800' => 'pvu', 'Phvul.007G022500' => 'pvu', 'Phvul.011G094400' => 'pvu', 'Potri.001G470700' => 'ptr', 'Potri.003G015200' => 'ptr', 'Potri.004G202500' => 'ptr', 'Potri.004G218400' => 'ptr', 'Potri.008G020100' => 'ptr', 'Potri.008G153200' => 'ptr', 'Potri.009G163800' => 'ptr', 'Potri.010G087300' => 'ptr', 'Potri.010G239100' => 'ptr', 'Pp3c10_16100' => 'ppa', 'Pp3c10_16880' => 'ppa', 'Pp3c16_6230' => 'ppa', 'Pp3c17_18910' => 'ppa', 'Pp3c3_22119' => 'ppa', 'Pp3c3_22140' => 'ppa', 'Pp3c4_8159' => 'ppa', 'Pp3c4_8171' => 'ppa', 'Pp3c4_8330' => 'ppa', 'PRCOL_00004098' => 'pco', 'Prupe.1G013900' => 'ppe', 'Prupe.1G226300' => 'ppe', 'Prupe.1G573600' => 'ppe', 'Prupe.6G130100' => 'ppe', 'Psat3g090040' => 'psa', 'Psat4g210440' => 'psa', 'Psat6g231040' => 'psa', 'Psat6g231080' => 'psa', 'Psat7g063000' => 'psa', 'Psat7g188000' => 'psa', 'Psat7g188040' => 'psa', 'PSO017G0206' => 'pso', 'PSO170G0501' => 'pso', 'PSO170G6422' => 'pso', 'PSO210G7739' => 'pso', 'PSO339G1808' => 'pso', 'PSO339G6135' => 'pso', 'PSO384G0010' => 'pso', 'PSO384G0964' => 'pso', 'PSO761G0050' => 'pso', 'PSO782G4085' => 'pso', 'QL01p012264' => 'qlo', 'QL02p099491' => 'qlo', 'QL03p033868' => 'qlo', 'QL04p046678' => 'qlo', 'QL06p002448' => 'qlo', 'RcHm_v2.0_Chr4g0416181' => 'rch', 'RcHm_v2.0_Chr5g0044701' => 'rch', 'RcHm_v2.0_Chr6g0265781' => 'rch', 'RcHm_v2.0_Chr7g0221031' => 'rch', 'Rhsim04G0202000' => 'rsi', 'Rhsim11G0127300' => 'rsi', 'Rhsim13G0111800' => 'rsi', 'Sabra01G0165600' => 'sbr', 'Sabra03G0008300' => 'sbr', 'Sabra04G0136900' => 'sbr', 'Sabra08G0013400' => 'sbr', 'Sabra08G0116800' => 'sbr', 'Sabra09G0128000' => 'sbr', 'Sabra10G0055500' => 'sbr', 'Sabra10G0073300' => 'sbr', 'SalBow3G0385' => 'sbo', 'SalBow3G1119' => 'sbo', 'SalBow3G2005' => 'sbo', 'SalBow6G2563' => 'sbo', 'SalBow6G6386' => 'sbo', 'Sc06g0008800' => 'sci', 'Sc07g0004950' => 'sci', 'Sc09g0005340' => 'sci', 'Sc13g0004410' => 'sci', 'Sc21g0007090' => 'sci', 'Sed0009285' => 'sed', 'Sed0017583' => 'sed', 'Sed0019699' => 'sed', 'Sed0023107' => 'sed', 'SEGI_10916' => 'sgi', 'SEGI_16217' => 'sgi', 'SEGI_19466' => 'sgi', 'SEGI_41115' => 'sgi', 'SGA_v2.0_scaffold111G31534' => 'sas', 'SGA_v2.0_scaffold22G09864' => 'sas', 'SGA_v2.0_scaffold338G49219' => 'sas', 'SGA_v2.0_scaffold92G28298' => 'sas', 'SMO119G0064' => 'smo', 'SMO223G0038' => 'smo', 'SMO347G0584' => 'smo', 'SMO351G0010' => 'smo', 'SMO356G0404' => 'smo', 'Solyc01g103920.3' => 'sly', 'Solyc04g009710.2' => 'sly', 'Solyc05g055280.2' => 'sly', 'Solyc10g044520.3' => 'sly', 'Solyc10g075160.1' => 'sly', 'Solyc11g006910.3' => 'sly', 'Solyc11g068430.3' => 'sly', 'Sopen01g046310' => 'spe', 'Sopen03g001200' => 'spe', 'Sopen04g004830' => 'spe', 'Sopen05g033720' => 'spe', 'Sopen06g030740' => 'spe', 'Sopen10g013090' => 'spe', 'Sopen10g027630' => 'spe', 'Sopen10g027640' => 'spe', 'Sopen11g002820' => 'spe', 'Sopen11g027140' => 'spe', 'Sp1g09680' => 'spa', 'Sp2g03630' => 'spa', 'Sp4g10320' => 'spa', 'Sp6g33400' => 'spa', 'Sp7g13030' => 'spa', 'TAR365G0317' => 'tar', 'TAR376G0979' => 'tar', 'TAR623G1665' => 'tar', 'TAR633G2373' => 'tar', 'TAR636G1400' => 'tar', 'THA.LOC104800529' => 'tha', 'THA.LOC104808547' => 'tha', 'THA.LOC104809615' => 'tha', 'THA.LOC104815724' => 'tha', 'THA.LOC104818480' => 'tha', 'THA.LOC104819179' => 'tha', 'THA.LOC104822270' => 'tha', 'THA.LOC104826425' => 'tha', 'Thecc.02G089700' => 'tca', 'Thecc.04G232300' => 'tca', 'Thecc.09G283400' => 'tca', 'Thhalv10009020m.g' => 'esa', 'Thhalv10015506m.g' => 'esa', 'Thhalv10017364m.g' => 'esa', 'Thhalv10023742m.g' => 'esa', 'Thhalv10026483m.g' => 'esa', 'TPR.G17232' => 'tpr', 'TPR.G2133' => 'tpr', 'TPR.G2498' => 'tpr', 'TPR.G31942' => 'tpr', 'TPR.G37877' => 'tpr', 'TPR.G4571' => 'tpr', 'TWI14G1113' => 'twi', 'TWI15G0426' => 'twi', 'TWI31G1005' => 'twi', 'TWI38G0513' => 'twi', 'TWI38G1484' => 'twi', 'TWI73G1098' => 'twi', 'unitig_26.g10519' => 'ugi', 'unitig_736.g22395' => 'ugi', 'unitig_747.g21234' => 'ugi', 'unitig_747.g21942' => 'ugi', 'vmacro14351' => 'vma', 'VMungo0540G0082' => 'vmu', 'VMungo0540G0405' => 'vmu', 'VMungo0540G1486' => 'vmu', 'VMungo0540G1692' => 'vmu', 'VMungo0720G2473' => 'vmu', 'VMungo1127G1562' => 'vmu', 'VMungo1215G1918' => 'vmu', 'Zm00001eb052650' => 'zma', 'Zm00001eb063710' => 'zma', 'Zm00001eb083950' => 'zma', 'Zm00001eb174420' => 'zma', 'Zm00001eb260140' => 'zma', 'Zm00001eb260150' => 'zma', 'Zm00001eb260160' => 'zma', 'Zm00001eb348290' => 'zma', 'Zm00001eb366870' => 'zma', 'Zm00001eb421930' => 'zma' ) $gf_id = 'HOM05D001025' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001025' ) $data_identifier = 'HOM05D001025' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 19, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 2, 'amhyb' => (int) 4, 'aly' => (int) 4, 'aox' => (int) 4, 'arhy' => (int) 3, 'ath' => (int) 5, 'atr' => (int) 4, 'acertr' => (int) 3, 'cqu' => (int) 7, 'bca' => (int) 17, 'bol' => (int) 10, 'bra' => (int) 9, 'can' => (int) 10, 'cansat' => (int) 6, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 5, 'cbr' => (int) 5, 'ccan' => (int) 5, 'cde' => (int) 4, 'cfa' => (int) 3, 'ccl' => (int) 6, 'cil' => (int) 4, 'cla' => (int) 3, 'col' => (int) 3, 'cpa' => (int) 3, 'cre' => (int) 7, 'csa' => (int) 5, 'camsi' => (int) 9, 'dca' => (int) 4, 'din' => (int) 5, 'dzi' => (int) 7, 'eca' => (int) 6, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 12, 'fve' => (int) 4, 'gma' => (int) 12, 'ghi' => (int) 17, 'gra' => (int) 9, 'vvi' => (int) 2, 'han' => (int) 8, 'cav' => (int) 5, 'hma' => (int) 9, 'vpl' => (int) 4, 'sun' => (int) 2, 'lal' => (int) 9, 'lja' => (int) 5, 'lonja' => (int) 6, 'lsa' => (int) 3, 'mes' => (int) 8, 'mpo' => (int) 3, 'mbi' => (int) 4, 'mco' => (int) 3, 'mdo' => (int) 5, 'mtr' => (int) 7, 'cme' => (int) 6, 'egut' => (int) 7, 'ama' => (int) 3, 'nta' => (int) 12, 'nnu' => (int) 9, 'oeu' => (int) 4, 'osa' => (int) 7, 'pax' => (int) 9, 'pgr' => (int) 5, 'stu' => (int) 8, 'pvu' => (int) 6, 'ptr' => (int) 9, 'ppa' => (int) 9, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 7, 'pso' => (int) 10, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 3, 'sbr' => (int) 8, 'sbo' => (int) 5, 'sci' => (int) 5, 'sed' => (int) 4, 'sgi' => (int) 4, 'sas' => (int) 4, 'smo' => (int) 5, 'sly' => (int) 7, 'spe' => (int) 10, 'spa' => (int) 5, 'tar' => (int) 5, 'tha' => (int) 8, 'tca' => (int) 3, 'esa' => (int) 5, 'tpr' => (int) 6, 'twi' => (int) 6, 'ugi' => (int) 4, 'vma' => (int) 1, 'vmu' => (int) 7, 'zma' => (int) 10 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb421930' $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' => 'HOM05D001025', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '592', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p22650' => 'bna', 'A01p29720' => 'bna', 'A03p26560' => 'bna', 'A03p68820' => 'bna', 'A04p20980' => 'bna', 'A06p07730' => 'bna', 'A07p18260' => 'bna', 'A08p33710' => 'bna', 'A09p16970' => 'bna', 'A10p27490' => 'bna', 'Aa31LG1G17300' => 'aar', 'Aa31LG1G3910' => 'aar', 'Aa31LG2G9630' => 'aar', 'Aa31LG5G8360' => 'aar', 'Aa31LG9G2410' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4699' => 'aag', 'Actinidia23512' => 'ach', 'Actinidia37080' => 'ach', 'Ah.01g020380' => 'amhyb', 'Ah.08g215710' => 'amhyb', 'Ah.09g225110' => 'amhyb', 'Ah.10g036680' => 'amhyb', 'AL1G21940' => 'aly', 'AL2G15540' => 'aly', 'AL4G21520' => 'aly', 'AL7G40960' => 'aly', 'Aqoxy2G01191' => 'aox', 'Aqoxy2G03393' => 'aox', 'Aqoxy4G02775' => 'aox', 'Aqoxy6G00058' => 'aox', 'arahy.Tifrunner.gnm1.ann1.9X74H2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CW3FX9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R485W7' => 'arhy', 'AT1G10960' => 'ath', 'AT1G60950' => 'ath', 'AT2G27510' => 'ath', 'AT4G14890' => 'ath', 'AT5G10000' => 'ath', 'ATR0665G624' => 'atr', 'ATR0697G138' => 'atr', 'ATR0776G046' => 'atr', 'ATR1134G135' => 'atr', 'Atru.chr12.1025' => 'acertr', 'Atru.chr3.3241' => 'acertr', 'Atru.chr4.2460' => 'acertr', 'AUR62007427' => 'cqu', 'AUR62010960' => 'cqu', 'AUR62012201' => 'cqu', 'AUR62021470' => 'cqu', 'AUR62022834' => 'cqu', 'AUR62033635' => 'cqu', 'AUR62036186' => 'cqu', 'BcaB01g03077' => 'bca', 'BcaB02g10093' => 'bca', 'BcaB04g20295' => 'bca', 'BcaB06g28147' => 'bca', 'BcaB07g31253' => 'bca', 'BcaC01g04946' => 'bca', 'BcaC02g10614' => 'bca', 'BcaC02g10885' => 'bca', 'BcaC04g19356' => 'bca', 'BcaC04g22297' => 'bca', 'BcaC05g24977' => 'bca', 'BcaC06g31823' => 'bca', 'BcaC07g38633' => 'bca', 'BcaC09g49353' => 'bca', 'BcaC09g50168' => 'bca', 'BcaNung00322' => 'bca', 'BcaNung04769' => 'bca', 'BolC1t02753H' => 'bol', 'BolC1t03721H' => 'bol', 'BolC3t15525H' => 'bol', 'BolC4t23903H' => 'bol', 'BolC4t24231H' => 'bol', 'BolC4t27209H' => 'bol', 'BolC5t29671H' => 'bol', 'BolC8t49044H' => 'bol', 'BolC9t54999H' => 'bol', 'BolC9t59517H' => 'bol', 'BraA01t02178Z' => 'bra', 'BraA01t03099Z' => 'bra', 'BraA03t11867Z' => 'bra', 'BraA04t17667Z' => 'bra', 'BraA07t29542Z' => 'bra', 'BraA08t35287Z' => 'bra', 'BraA09t37334Z' => 'bra', 'BraA10t44801Z' => 'bra', 'BraSC39t46181Z' => 'bra', 'C01p28240' => 'bna', 'C01p37530' => 'bna', 'C03p31820' => 'bna', 'C04p24080' => 'bna', 'C04p25790' => 'bna', 'C04p56770' => 'bna', 'C05p09310' => 'bna', 'C09p21010' => 'bna', 'C09p67560' => 'bna', 'CAN.G1324.7' => 'can', 'CAN.G1358.10' => 'can', 'CAN.G1550.2' => 'can', 'CAN.G186.56' => 'can', 'CAN.G1965.1' => 'can', 'CAN.G645.15' => 'can', 'CAN.G798.26' => 'can', 'CAN.G798.27' => 'can', 'CAN.G798.29' => 'can', 'CAN.G919.31' => 'can', 'CANSAT11G0133' => 'cansat', 'CANSAT11G1171' => 'cansat', 'CANSAT11G2056' => 'cansat', 'CANSAT56G1202' => 'cansat', 'CANSAT56G1514' => 'cansat', 'CANSAT78G0455' => 'cansat', 'CARHR011190' => 'chi', 'CARHR051980' => 'chi', 'CARHR120170' => 'chi', 'CARHR203310' => 'chi', 'CARHR221490' => 'chi', 'Carub.0001s1054' => 'cru', 'Carub.0002s0431' => 'cru', 'Carub.0004s0818' => 'cru', 'Carub.0006s0846' => 'cru', 'Carub.0007s2722' => 'cru', 'Ca_00058_v3' => 'car', 'Ca_17831_v3' => 'car', 'Ca_19408_v3' => 'car', 'Ca_24397_v3' => 'car', 'Ca_25664_v3' => 'car', 'CBR_g21818' => 'cbr', 'CBR_g31195' => 'cbr', 'CBR_g32282' => 'cbr', 'CBR_g39599' => 'cbr', 'CBR_g49410' => 'cbr', 'Cc01_g09120' => 'ccan', 'Cc01_g09130' => 'ccan', 'Cc02_g09630' => 'ccan', 'Cc02_g22810' => 'ccan', 'Cc03_g03810' => 'ccan', 'CDE02G3718' => 'cde', 'CDE04G3183' => 'cde', 'CDE07G1046' => 'cde', 'CDE08G0480' => 'cde', 'Cfa005493' => 'cfa', 'Cfa010312' => 'cfa', 'Cfa015648' => 'cfa', 'Ciclev10002793m.g' => 'ccl', 'Ciclev10003356m.g' => 'ccl', 'Ciclev10006141m.g' => 'ccl', 'Ciclev10016676m.g' => 'ccl', 'Ciclev10017081m.g' => 'ccl', 'Ciclev10029499m.g' => 'ccl', 'CiPaw.01G166300' => 'cil', 'CiPaw.06G145600' => 'cil', 'CiPaw.13G040100' => 'cil', 'CiPaw.13G135800' => 'cil', 'ClCG01G012230' => 'cla', 'ClCG05G009510' => 'cla', 'ClCG08G008270' => 'cla', 'COL.COLO4_11763' => 'col', 'COL.COLO4_19876' => 'col', 'COL.COLO4_21481' => 'col', 'Cpa.g.sc118.34' => 'cpa', 'Cpa.g.sc32.13' => 'cpa', 'Cpa.g.sc58.103' => 'cpa', 'Cre03.g183850' => 'cre', 'Cre06.g306350' => 'cre', 'Cre07.g334800' => 'cre', 'Cre12.g487900' => 'cre', 'Cre14.g626700' => 'cre', 'Cre16.g658400' => 'cre', 'Cre17.g700950' => 'cre', 'CsaV3_1G014830' => 'csa', 'CsaV3_3G013320' => 'csa', 'CsaV3_3G019210' => 'csa', 'CsaV3_3G019220' => 'csa', 'CsaV3_6G004230' => 'csa', 'CSS0003773' => 'camsi', 'CSS0004563' => 'camsi', 'CSS0013949' => 'camsi', 'CSS0025971' => 'camsi', 'CSS0028570' => 'camsi', 'CSS0033127' => 'camsi', 'CSS0036051' => 'camsi', 'CSS0040087' => 'camsi', 'CSS0043179' => 'camsi', 'DCAR_006161' => 'dca', 'DCAR_010351' => 'dca', 'DCAR_012197' => 'dca', 'DCAR_024162' => 'dca', 'Dinv01030' => 'din', 'Dinv10924' => 'din', 'Dinv11835' => 'din', 'Dinv22841' => 'din', 'Dinv42553' => 'din', 'Duzib052G0560' => 'dzi', 'Duzib132G0389' => 'dzi', 'Duzib150G1181' => 'dzi', 'Duzib168G0623' => 'dzi', 'Duzib170G1036' => 'dzi', 'Duzib212G0200' => 'dzi', 'Duzib248G0194' => 'dzi', 'ECA232G2193' => 'eca', 'ECA233G0302' => 'eca', 'ECA234G2813' => 'eca', 'ECA234G4866' => 'eca', 'ECA240G3932' => 'eca', 'ECA248G0385' => 'eca', 'EL10Ac2g04781' => 'bvu', 'EL10Ac3g06445' => 'bvu', 'EL10Ac7g15825' => 'bvu', 'EL10Ac8g18550' => 'bvu', 'Eucgr.B03849' => 'egr', 'Eucgr.I02744' => 'egr', 'Eucgr.J00264' => 'egr', 'Eucgr.J00493' => 'egr', 'FAN04G2181' => 'fan', 'FAN07G2666' => 'fan', 'FAN11G0024' => 'fan', 'FAN12G1105' => 'fan', 'FAN13G0302' => 'fan', 'FAN15G2781' => 'fan', 'FAN16G1274' => 'fan', 'FAN17G2988' => 'fan', 'FAN18G2621' => 'fan', 'FAN21G0013' => 'fan', 'FAN22G1211' => 'fan', 'FAN25G3626' => 'fan', 'FvH4_2g09491' => 'fve', 'FvH4_3g24910' => 'fve', 'FvH4_4g15630' => 'fve', 'FvH4_5g28820' => 'fve', 'Glyma.01G238000' => 'gma', 'Glyma.05G168400' => 'gma', 'Glyma.08G126800' => 'gma', 'Glyma.08G188500' => 'gma', 'Glyma.10G278900' => 'gma', 'Glyma.11G005700' => 'gma', 'Glyma.11G183300' => 'gma', 'Glyma.12G089200' => 'gma', 'Glyma.12G169400' => 'gma', 'Glyma.12G169500' => 'gma', 'Glyma.12G169600' => 'gma', 'Glyma.20G110800' => 'gma', 'Gohir.A03G192900' => 'ghi', 'Gohir.A03G193000' => 'ghi', 'Gohir.A05G080700' => 'ghi', 'Gohir.A09G216000' => 'ghi', 'Gohir.A12G027700' => 'ghi', 'Gohir.A13G036200' => 'ghi', 'Gohir.A13G222600' => 'ghi', 'Gohir.D02G213900' => 'ghi', 'Gohir.D02G214000' => 'ghi', 'Gohir.D05G083700' => 'ghi', 'Gohir.D05G083800' => 'ghi', 'Gohir.D05G083850' => 'ghi', 'Gohir.D08G015400' => 'ghi', 'Gohir.D09G218400' => 'ghi', 'Gohir.D12G027100' => 'ghi', 'Gohir.D13G034500' => 'ghi', 'Gohir.D13G227400' => 'ghi', 'Gorai.005G241800' => 'gra', 'Gorai.005G241900' => 'gra', 'Gorai.006G239400' => 'gra', 'Gorai.008G027600' => 'gra', 'Gorai.009G085400' => 'gra', 'Gorai.009G085500' => 'gra', 'Gorai.013G039000' => 'gra', 'Gorai.013G194800' => 'gra', 'Gorai.013G257900' => 'gra', 'GSVIVG01000982001' => 'vvi', 'GSVIVG01017981001' => 'vvi', 'HanXRQChr01g0024061' => 'han', 'HanXRQChr09g0247831' => 'han', 'HanXRQChr10g0294611' => 'han', 'HanXRQChr10g0294621' => 'han', 'HanXRQChr11g0346821' => 'han', 'HanXRQChr13g0397461' => 'han', 'HanXRQChr16g0513651' => 'han', 'HanXRQChr16g0513701' => 'han', 'Haze_00897' => 'cav', 'Haze_01745' => 'cav', 'Haze_02486' => 'cav', 'Haze_02487' => 'cav', 'Haze_23374' => 'cav', 'Hma1.2p1_0578F.1_g182520' => 'hma', 'Hma1.2p1_0602F.1_g187350' => 'hma', 'Hma1.2p1_0602F.1_g187360' => 'hma', 'Hma1.2p1_0874F.1_g231320' => 'hma', 'Hma1.2p1_1197F.1_g266210' => 'hma', 'Hma1.2p1_1197F.1_g266220' => 'hma', 'Hma1.2p1_2167F.1_g315895' => 'hma', 'Hma1.2p1_2190F.1_g316640' => 'hma', 'Hma1.2p1_3645F.1_g337153' => 'hma', 'HPP92_004907' => 'vpl', 'HPP92_012134' => 'vpl', 'HPP92_025136' => 'vpl', 'HPP92_026087' => 'vpl', 'Hund06782' => 'sun', 'Hund06784' => 'sun', 'Lalb_Chr01g0004861' => 'lal', 'Lalb_Chr02g0140591' => 'lal', 'Lalb_Chr02g0140611' => 'lal', 'Lalb_Chr03g0028101' => 'lal', 'Lalb_Chr07g0185791' => 'lal', 'Lalb_Chr12g0204491' => 'lal', 'Lalb_Chr13g0295671' => 'lal', 'Lalb_Chr19g0136461' => 'lal', 'Lalb_Chr21g0309191' => 'lal', 'Lj1g0028158' => 'lja', 'Lj1P236T38' => 'lonja', 'Lj2C32G2' => 'lonja', 'Lj2P944T8' => 'lonja', 'Lj2P963T15' => 'lonja', 'Lj3g0011788' => 'lja', 'Lj4g0025027' => 'lja', 'Lj5P255T36' => 'lonja', 'Lj6g0018866' => 'lja', 'Lj6P608T31' => 'lonja', 'LjContig00408g0008879' => 'lja', 'Lsat_1_v5_gn_5_105820' => 'lsa', 'Lsat_1_v5_gn_6_38800' => 'lsa', 'Lsat_1_v5_gn_7_67141' => 'lsa', 'Manes.04G003400' => 'mes', 'Manes.07G020000' => 'mes', 'Manes.07G020100' => 'mes', 'Manes.07G020150' => 'mes', 'Manes.10G061500' => 'mes', 'Manes.10G123200' => 'mes', 'Manes.11G161900' => 'mes', 'Manes.15G029300' => 'mes', 'Mapoly0071s0018' => 'mpo', 'Mapoly0082s0023' => 'mpo', 'Mapoly3477s0001' => 'mpo', 'MBI05_g31233_MAGBIO' => 'mbi', 'MBI09_g05946_MAGBIO' => 'mbi', 'MBI09_g05947_MAGBIO' => 'mbi', 'MBI17_g08346_MAGBIO' => 'mbi', 'MCO04G038' => 'mco', 'MCO09G370' => 'mco', 'MCO13G605' => 'mco', 'MD00G1075500' => 'mdo', 'MD03G1144300' => 'mdo', 'MD08G1236800' => 'mdo', 'MD13G1193300' => 'mdo', 'MD15G1428700' => 'mdo', 'Medtr1g112030' => 'mtr', 'Medtr1g112050' => 'mtr', 'Medtr2g006290' => 'mtr', 'Medtr2g086510' => 'mtr', 'Medtr4g053120' => 'mtr', 'Medtr5g006320' => 'mtr', 'Medtr8g088720' => 'mtr', 'MELO3C004712.2' => 'cme', 'MELO3C006533.2' => 'cme', 'MELO3C019438.2' => 'cme', 'MELO3C019440.2' => 'cme', 'MELO3C019441.2' => 'cme', 'MELO3C019895.2' => 'cme', 'Migut.B00811' => 'egut', 'Migut.D02447' => 'egut', 'Migut.F00875' => 'egut', 'Migut.N00186' => 'egut', 'Migut.N01051' => 'egut', 'Migut.N02491' => 'egut', 'Migut.O00784' => 'egut', 'MSTRG.12367' => 'ama', 'MSTRG.18756' => 'ama', 'MSTRG.21042' => 'ama', 'Nitab4.5_0000559g0040' => 'nta', 'Nitab4.5_0000667g0190' => 'nta', 'Nitab4.5_0000755g0160' => 'nta', 'Nitab4.5_0001216g0080' => 'nta', 'Nitab4.5_0004069g0040' => 'nta', 'Nitab4.5_0004129g0010' => 'nta', 'Nitab4.5_0005744g0030' => 'nta', 'Nitab4.5_0006996g0030' => 'nta', 'Nitab4.5_0008971g0040' => 'nta', 'Nitab4.5_0009769g0020' => 'nta', 'Nitab4.5_0009833g0010' => 'nta', 'Nitab4.5_0013140g0020' => 'nta', 'Nn003s41376' => 'nnu', 'Nn1g01857' => 'nnu', 'Nn1g03611' => 'nnu', 'Nn1g06853' => 'nnu', 'Nn3g18360' => 'nnu', 'Nn4g26328' => 'nnu', 'Nn5g27531' => 'nnu', 'Nn6g34899' => 'nnu', 'Nn7g36299' => 'nnu', 'Oeu021485.1' => 'oeu', 'Oeu022433.1' => 'oeu', 'Oeu032111.1' => 'oeu', 'Oeu051608.1' => 'oeu', 'Os01g0860601' => 'osa', 'Os03g0659200' => 'osa', 'Os03g0835900' => 'osa', 'Os04g0412200' => 'osa', 'Os05g0443500' => 'osa', 'Os07g0251500' => 'osa', 'Os08g0104600' => 'osa', 'Peaxi162Scf00003g00047' => 'pax', 'Peaxi162Scf00003g00052' => 'pax', 'Peaxi162Scf00003g00394' => 'pax', 'Peaxi162Scf00091g00621' => 'pax', 'Peaxi162Scf00152g00146' => 'pax', 'Peaxi162Scf00173g00025' => 'pax', 'Peaxi162Scf00195g00102' => 'pax', 'Peaxi162Scf00402g00013' => 'pax', 'Peaxi162Scf00519g00618' => 'pax', 'PGR004G2838' => 'pgr', 'PGR044G2275' => 'pgr', 'PGR102G1377' => 'pgr', 'PGR119G1245' => 'pgr', 'PGR142G4449' => 'pgr', 'PGSC0003DMG400004532' => 'stu', 'PGSC0003DMG400011950' => 'stu', 'PGSC0003DMG400023391' => 'stu', 'PGSC0003DMG400023985' => 'stu', 'PGSC0003DMG400026360' => 'stu', 'PGSC0003DMG400035711' => 'stu', 'PGSC0003DMG400037286' => 'stu', 'PGSC0003DMG402005881' => 'stu', 'Phvul.002G045400' => 'pvu', 'Phvul.006G216600' => 'pvu', 'Phvul.006G216700' => 'pvu', 'Phvul.006G216800' => 'pvu', 'Phvul.007G022500' => 'pvu', 'Phvul.011G094400' => 'pvu', 'Potri.001G470700' => 'ptr', 'Potri.003G015200' => 'ptr', 'Potri.004G202500' => 'ptr', 'Potri.004G218400' => 'ptr', 'Potri.008G020100' => 'ptr', 'Potri.008G153200' => 'ptr', 'Potri.009G163800' => 'ptr', 'Potri.010G087300' => 'ptr', 'Potri.010G239100' => 'ptr', 'Pp3c10_16100' => 'ppa', 'Pp3c10_16880' => 'ppa', 'Pp3c16_6230' => 'ppa', 'Pp3c17_18910' => 'ppa', 'Pp3c3_22119' => 'ppa', 'Pp3c3_22140' => 'ppa', 'Pp3c4_8159' => 'ppa', 'Pp3c4_8171' => 'ppa', 'Pp3c4_8330' => 'ppa', 'PRCOL_00004098' => 'pco', 'Prupe.1G013900' => 'ppe', 'Prupe.1G226300' => 'ppe', 'Prupe.1G573600' => 'ppe', 'Prupe.6G130100' => 'ppe', 'Psat3g090040' => 'psa', 'Psat4g210440' => 'psa', 'Psat6g231040' => 'psa', 'Psat6g231080' => 'psa', 'Psat7g063000' => 'psa', 'Psat7g188000' => 'psa', 'Psat7g188040' => 'psa', 'PSO017G0206' => 'pso', 'PSO170G0501' => 'pso', 'PSO170G6422' => 'pso', 'PSO210G7739' => 'pso', 'PSO339G1808' => 'pso', 'PSO339G6135' => 'pso', 'PSO384G0010' => 'pso', 'PSO384G0964' => 'pso', 'PSO761G0050' => 'pso', 'PSO782G4085' => 'pso', 'QL01p012264' => 'qlo', 'QL02p099491' => 'qlo', 'QL03p033868' => 'qlo', 'QL04p046678' => 'qlo', 'QL06p002448' => 'qlo', 'RcHm_v2.0_Chr4g0416181' => 'rch', 'RcHm_v2.0_Chr5g0044701' => 'rch', 'RcHm_v2.0_Chr6g0265781' => 'rch', 'RcHm_v2.0_Chr7g0221031' => 'rch', 'Rhsim04G0202000' => 'rsi', 'Rhsim11G0127300' => 'rsi', 'Rhsim13G0111800' => 'rsi', 'Sabra01G0165600' => 'sbr', 'Sabra03G0008300' => 'sbr', 'Sabra04G0136900' => 'sbr', 'Sabra08G0013400' => 'sbr', 'Sabra08G0116800' => 'sbr', 'Sabra09G0128000' => 'sbr', 'Sabra10G0055500' => 'sbr', 'Sabra10G0073300' => 'sbr', 'SalBow3G0385' => 'sbo', 'SalBow3G1119' => 'sbo', 'SalBow3G2005' => 'sbo', 'SalBow6G2563' => 'sbo', 'SalBow6G6386' => 'sbo', 'Sc06g0008800' => 'sci', 'Sc07g0004950' => 'sci', 'Sc09g0005340' => 'sci', 'Sc13g0004410' => 'sci', 'Sc21g0007090' => 'sci', 'Sed0009285' => 'sed', 'Sed0017583' => 'sed', 'Sed0019699' => 'sed', 'Sed0023107' => 'sed', 'SEGI_10916' => 'sgi', 'SEGI_16217' => 'sgi', 'SEGI_19466' => 'sgi', 'SEGI_41115' => 'sgi', 'SGA_v2.0_scaffold111G31534' => 'sas', 'SGA_v2.0_scaffold22G09864' => 'sas', 'SGA_v2.0_scaffold338G49219' => 'sas', 'SGA_v2.0_scaffold92G28298' => 'sas', 'SMO119G0064' => 'smo', 'SMO223G0038' => 'smo', 'SMO347G0584' => 'smo', 'SMO351G0010' => 'smo', 'SMO356G0404' => 'smo', 'Solyc01g103920.3' => 'sly', 'Solyc04g009710.2' => 'sly', 'Solyc05g055280.2' => 'sly', 'Solyc10g044520.3' => 'sly', 'Solyc10g075160.1' => 'sly', 'Solyc11g006910.3' => 'sly', 'Solyc11g068430.3' => 'sly', 'Sopen01g046310' => 'spe', 'Sopen03g001200' => 'spe', 'Sopen04g004830' => 'spe', 'Sopen05g033720' => 'spe', 'Sopen06g030740' => 'spe', 'Sopen10g013090' => 'spe', 'Sopen10g027630' => 'spe', 'Sopen10g027640' => 'spe', 'Sopen11g002820' => 'spe', 'Sopen11g027140' => 'spe', 'Sp1g09680' => 'spa', 'Sp2g03630' => 'spa', 'Sp4g10320' => 'spa', 'Sp6g33400' => 'spa', 'Sp7g13030' => 'spa', 'TAR365G0317' => 'tar', 'TAR376G0979' => 'tar', 'TAR623G1665' => 'tar', 'TAR633G2373' => 'tar', 'TAR636G1400' => 'tar', 'THA.LOC104800529' => 'tha', 'THA.LOC104808547' => 'tha', 'THA.LOC104809615' => 'tha', 'THA.LOC104815724' => 'tha', 'THA.LOC104818480' => 'tha', 'THA.LOC104819179' => 'tha', 'THA.LOC104822270' => 'tha', 'THA.LOC104826425' => 'tha', 'Thecc.02G089700' => 'tca', 'Thecc.04G232300' => 'tca', 'Thecc.09G283400' => 'tca', 'Thhalv10009020m.g' => 'esa', 'Thhalv10015506m.g' => 'esa', 'Thhalv10017364m.g' => 'esa', 'Thhalv10023742m.g' => 'esa', 'Thhalv10026483m.g' => 'esa', 'TPR.G17232' => 'tpr', 'TPR.G2133' => 'tpr', 'TPR.G2498' => 'tpr', 'TPR.G31942' => 'tpr', 'TPR.G37877' => 'tpr', 'TPR.G4571' => 'tpr', 'TWI14G1113' => 'twi', 'TWI15G0426' => 'twi', 'TWI31G1005' => 'twi', 'TWI38G0513' => 'twi', 'TWI38G1484' => 'twi', 'TWI73G1098' => 'twi', 'unitig_26.g10519' => 'ugi', 'unitig_736.g22395' => 'ugi', 'unitig_747.g21234' => 'ugi', 'unitig_747.g21942' => 'ugi', 'vmacro14351' => 'vma', 'VMungo0540G0082' => 'vmu', 'VMungo0540G0405' => 'vmu', 'VMungo0540G1486' => 'vmu', 'VMungo0540G1692' => 'vmu', 'VMungo0720G2473' => 'vmu', 'VMungo1127G1562' => 'vmu', 'VMungo1215G1918' => 'vmu', 'Zm00001eb052650' => 'zma', 'Zm00001eb063710' => 'zma', 'Zm00001eb083950' => 'zma', 'Zm00001eb174420' => 'zma', 'Zm00001eb260140' => 'zma', 'Zm00001eb260150' => 'zma', 'Zm00001eb260160' => 'zma', 'Zm00001eb348290' => 'zma', 'Zm00001eb366870' => 'zma', 'Zm00001eb421930' => 'zma' ), 'gf_id' => 'HOM05D001025', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001025' ), 'data_identifier' => 'HOM05D001025', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001025', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '592', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p22650' => 'bna', 'A01p29720' => 'bna', 'A03p26560' => 'bna', 'A03p68820' => 'bna', 'A04p20980' => 'bna', 'A06p07730' => 'bna', 'A07p18260' => 'bna', 'A08p33710' => 'bna', 'A09p16970' => 'bna', 'A10p27490' => 'bna', 'Aa31LG1G17300' => 'aar', 'Aa31LG1G3910' => 'aar', 'Aa31LG2G9630' => 'aar', 'Aa31LG5G8360' => 'aar', 'Aa31LG9G2410' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4699' => 'aag', 'Actinidia23512' => 'ach', 'Actinidia37080' => 'ach', 'Ah.01g020380' => 'amhyb', 'Ah.08g215710' => 'amhyb', 'Ah.09g225110' => 'amhyb', 'Ah.10g036680' => 'amhyb', 'AL1G21940' => 'aly', 'AL2G15540' => 'aly', 'AL4G21520' => 'aly', 'AL7G40960' => 'aly', 'Aqoxy2G01191' => 'aox', 'Aqoxy2G03393' => 'aox', 'Aqoxy4G02775' => 'aox', 'Aqoxy6G00058' => 'aox', 'arahy.Tifrunner.gnm1.ann1.9X74H2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CW3FX9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R485W7' => 'arhy', 'AT1G10960' => 'ath', 'AT1G60950' => 'ath', 'AT2G27510' => 'ath', 'AT4G14890' => 'ath', 'AT5G10000' => 'ath', 'ATR0665G624' => 'atr', 'ATR0697G138' => 'atr', 'ATR0776G046' => 'atr', 'ATR1134G135' => 'atr', 'Atru.chr12.1025' => 'acertr', 'Atru.chr3.3241' => 'acertr', 'Atru.chr4.2460' => 'acertr', 'AUR62007427' => 'cqu', 'AUR62010960' => 'cqu', 'AUR62012201' => 'cqu', 'AUR62021470' => 'cqu', 'AUR62022834' => 'cqu', 'AUR62033635' => 'cqu', 'AUR62036186' => 'cqu', 'BcaB01g03077' => 'bca', 'BcaB02g10093' => 'bca', 'BcaB04g20295' => 'bca', 'BcaB06g28147' => 'bca', 'BcaB07g31253' => 'bca', 'BcaC01g04946' => 'bca', 'BcaC02g10614' => 'bca', 'BcaC02g10885' => 'bca', 'BcaC04g19356' => 'bca', 'BcaC04g22297' => 'bca', 'BcaC05g24977' => 'bca', 'BcaC06g31823' => 'bca', 'BcaC07g38633' => 'bca', 'BcaC09g49353' => 'bca', 'BcaC09g50168' => 'bca', 'BcaNung00322' => 'bca', 'BcaNung04769' => 'bca', 'BolC1t02753H' => 'bol', 'BolC1t03721H' => 'bol', 'BolC3t15525H' => 'bol', 'BolC4t23903H' => 'bol', 'BolC4t24231H' => 'bol', 'BolC4t27209H' => 'bol', 'BolC5t29671H' => 'bol', 'BolC8t49044H' => 'bol', 'BolC9t54999H' => 'bol', 'BolC9t59517H' => 'bol', 'BraA01t02178Z' => 'bra', 'BraA01t03099Z' => 'bra', 'BraA03t11867Z' => 'bra', 'BraA04t17667Z' => 'bra', 'BraA07t29542Z' => 'bra', 'BraA08t35287Z' => 'bra', 'BraA09t37334Z' => 'bra', 'BraA10t44801Z' => 'bra', 'BraSC39t46181Z' => 'bra', 'C01p28240' => 'bna', 'C01p37530' => 'bna', 'C03p31820' => 'bna', 'C04p24080' => 'bna', 'C04p25790' => 'bna', 'C04p56770' => 'bna', 'C05p09310' => 'bna', 'C09p21010' => 'bna', 'C09p67560' => 'bna', 'CAN.G1324.7' => 'can', 'CAN.G1358.10' => 'can', 'CAN.G1550.2' => 'can', 'CAN.G186.56' => 'can', 'CAN.G1965.1' => 'can', 'CAN.G645.15' => 'can', 'CAN.G798.26' => 'can', 'CAN.G798.27' => 'can', 'CAN.G798.29' => 'can', 'CAN.G919.31' => 'can', 'CANSAT11G0133' => 'cansat', 'CANSAT11G1171' => 'cansat', 'CANSAT11G2056' => 'cansat', 'CANSAT56G1202' => 'cansat', 'CANSAT56G1514' => 'cansat', 'CANSAT78G0455' => 'cansat', 'CARHR011190' => 'chi', 'CARHR051980' => 'chi', 'CARHR120170' => 'chi', 'CARHR203310' => 'chi', 'CARHR221490' => 'chi', 'Carub.0001s1054' => 'cru', 'Carub.0002s0431' => 'cru', 'Carub.0004s0818' => 'cru', 'Carub.0006s0846' => 'cru', 'Carub.0007s2722' => 'cru', 'Ca_00058_v3' => 'car', 'Ca_17831_v3' => 'car', 'Ca_19408_v3' => 'car', 'Ca_24397_v3' => 'car', 'Ca_25664_v3' => 'car', 'CBR_g21818' => 'cbr', 'CBR_g31195' => 'cbr', 'CBR_g32282' => 'cbr', 'CBR_g39599' => 'cbr', 'CBR_g49410' => 'cbr', 'Cc01_g09120' => 'ccan', 'Cc01_g09130' => 'ccan', 'Cc02_g09630' => 'ccan', 'Cc02_g22810' => 'ccan', 'Cc03_g03810' => 'ccan', 'CDE02G3718' => 'cde', 'CDE04G3183' => 'cde', 'CDE07G1046' => 'cde', 'CDE08G0480' => 'cde', 'Cfa005493' => 'cfa', 'Cfa010312' => 'cfa', 'Cfa015648' => 'cfa', 'Ciclev10002793m.g' => 'ccl', 'Ciclev10003356m.g' => 'ccl', 'Ciclev10006141m.g' => 'ccl', 'Ciclev10016676m.g' => 'ccl', 'Ciclev10017081m.g' => 'ccl', 'Ciclev10029499m.g' => 'ccl', 'CiPaw.01G166300' => 'cil', 'CiPaw.06G145600' => 'cil', 'CiPaw.13G040100' => 'cil', 'CiPaw.13G135800' => 'cil', 'ClCG01G012230' => 'cla', 'ClCG05G009510' => 'cla', 'ClCG08G008270' => 'cla', 'COL.COLO4_11763' => 'col', 'COL.COLO4_19876' => 'col', 'COL.COLO4_21481' => 'col', 'Cpa.g.sc118.34' => 'cpa', 'Cpa.g.sc32.13' => 'cpa', 'Cpa.g.sc58.103' => 'cpa', 'Cre03.g183850' => 'cre', 'Cre06.g306350' => 'cre', 'Cre07.g334800' => 'cre', 'Cre12.g487900' => 'cre', 'Cre14.g626700' => 'cre', 'Cre16.g658400' => 'cre', 'Cre17.g700950' => 'cre', 'CsaV3_1G014830' => 'csa', 'CsaV3_3G013320' => 'csa', 'CsaV3_3G019210' => 'csa', 'CsaV3_3G019220' => 'csa', 'CsaV3_6G004230' => 'csa', 'CSS0003773' => 'camsi', 'CSS0004563' => 'camsi', 'CSS0013949' => 'camsi', 'CSS0025971' => 'camsi', 'CSS0028570' => 'camsi', 'CSS0033127' => 'camsi', 'CSS0036051' => 'camsi', 'CSS0040087' => 'camsi', 'CSS0043179' => 'camsi', 'DCAR_006161' => 'dca', 'DCAR_010351' => 'dca', 'DCAR_012197' => 'dca', 'DCAR_024162' => 'dca', 'Dinv01030' => 'din', 'Dinv10924' => 'din', 'Dinv11835' => 'din', 'Dinv22841' => 'din', 'Dinv42553' => 'din', 'Duzib052G0560' => 'dzi', 'Duzib132G0389' => 'dzi', 'Duzib150G1181' => 'dzi', 'Duzib168G0623' => 'dzi', 'Duzib170G1036' => 'dzi', 'Duzib212G0200' => 'dzi', 'Duzib248G0194' => 'dzi', 'ECA232G2193' => 'eca', 'ECA233G0302' => 'eca', 'ECA234G2813' => 'eca', 'ECA234G4866' => 'eca', 'ECA240G3932' => 'eca', 'ECA248G0385' => 'eca', 'EL10Ac2g04781' => 'bvu', 'EL10Ac3g06445' => 'bvu', 'EL10Ac7g15825' => 'bvu', 'EL10Ac8g18550' => 'bvu', 'Eucgr.B03849' => 'egr', 'Eucgr.I02744' => 'egr', 'Eucgr.J00264' => 'egr', 'Eucgr.J00493' => 'egr', 'FAN04G2181' => 'fan', 'FAN07G2666' => 'fan', 'FAN11G0024' => 'fan', 'FAN12G1105' => 'fan', 'FAN13G0302' => 'fan', 'FAN15G2781' => 'fan', 'FAN16G1274' => 'fan', 'FAN17G2988' => 'fan', 'FAN18G2621' => 'fan', 'FAN21G0013' => 'fan', 'FAN22G1211' => 'fan', 'FAN25G3626' => 'fan', 'FvH4_2g09491' => 'fve', 'FvH4_3g24910' => 'fve', 'FvH4_4g15630' => 'fve', 'FvH4_5g28820' => 'fve', 'Glyma.01G238000' => 'gma', 'Glyma.05G168400' => 'gma', 'Glyma.08G126800' => 'gma', 'Glyma.08G188500' => 'gma', 'Glyma.10G278900' => 'gma', 'Glyma.11G005700' => 'gma', 'Glyma.11G183300' => 'gma', 'Glyma.12G089200' => 'gma', 'Glyma.12G169400' => 'gma', 'Glyma.12G169500' => 'gma', 'Glyma.12G169600' => 'gma', 'Glyma.20G110800' => 'gma', 'Gohir.A03G192900' => 'ghi', 'Gohir.A03G193000' => 'ghi', 'Gohir.A05G080700' => 'ghi', 'Gohir.A09G216000' => 'ghi', 'Gohir.A12G027700' => 'ghi', 'Gohir.A13G036200' => 'ghi', 'Gohir.A13G222600' => 'ghi', 'Gohir.D02G213900' => 'ghi', 'Gohir.D02G214000' => 'ghi', 'Gohir.D05G083700' => 'ghi', 'Gohir.D05G083800' => 'ghi', 'Gohir.D05G083850' => 'ghi', 'Gohir.D08G015400' => 'ghi', 'Gohir.D09G218400' => 'ghi', 'Gohir.D12G027100' => 'ghi', 'Gohir.D13G034500' => 'ghi', 'Gohir.D13G227400' => 'ghi', 'Gorai.005G241800' => 'gra', 'Gorai.005G241900' => 'gra', 'Gorai.006G239400' => 'gra', 'Gorai.008G027600' => 'gra', 'Gorai.009G085400' => 'gra', 'Gorai.009G085500' => 'gra', 'Gorai.013G039000' => 'gra', 'Gorai.013G194800' => 'gra', 'Gorai.013G257900' => 'gra', 'GSVIVG01000982001' => 'vvi', 'GSVIVG01017981001' => 'vvi', 'HanXRQChr01g0024061' => 'han', 'HanXRQChr09g0247831' => 'han', 'HanXRQChr10g0294611' => 'han', 'HanXRQChr10g0294621' => 'han', 'HanXRQChr11g0346821' => 'han', 'HanXRQChr13g0397461' => 'han', 'HanXRQChr16g0513651' => 'han', 'HanXRQChr16g0513701' => 'han', 'Haze_00897' => 'cav', 'Haze_01745' => 'cav', 'Haze_02486' => 'cav', 'Haze_02487' => 'cav', 'Haze_23374' => 'cav', 'Hma1.2p1_0578F.1_g182520' => 'hma', 'Hma1.2p1_0602F.1_g187350' => 'hma', 'Hma1.2p1_0602F.1_g187360' => 'hma', 'Hma1.2p1_0874F.1_g231320' => 'hma', 'Hma1.2p1_1197F.1_g266210' => 'hma', 'Hma1.2p1_1197F.1_g266220' => 'hma', 'Hma1.2p1_2167F.1_g315895' => 'hma', 'Hma1.2p1_2190F.1_g316640' => 'hma', 'Hma1.2p1_3645F.1_g337153' => 'hma', 'HPP92_004907' => 'vpl', 'HPP92_012134' => 'vpl', 'HPP92_025136' => 'vpl', 'HPP92_026087' => 'vpl', 'Hund06782' => 'sun', 'Hund06784' => 'sun', 'Lalb_Chr01g0004861' => 'lal', 'Lalb_Chr02g0140591' => 'lal', 'Lalb_Chr02g0140611' => 'lal', 'Lalb_Chr03g0028101' => 'lal', 'Lalb_Chr07g0185791' => 'lal', 'Lalb_Chr12g0204491' => 'lal', 'Lalb_Chr13g0295671' => 'lal', 'Lalb_Chr19g0136461' => 'lal', 'Lalb_Chr21g0309191' => 'lal', 'Lj1g0028158' => 'lja', 'Lj1P236T38' => 'lonja', 'Lj2C32G2' => 'lonja', 'Lj2P944T8' => 'lonja', 'Lj2P963T15' => 'lonja', 'Lj3g0011788' => 'lja', 'Lj4g0025027' => 'lja', 'Lj5P255T36' => 'lonja', 'Lj6g0018866' => 'lja', 'Lj6P608T31' => 'lonja', 'LjContig00408g0008879' => 'lja', 'Lsat_1_v5_gn_5_105820' => 'lsa', 'Lsat_1_v5_gn_6_38800' => 'lsa', 'Lsat_1_v5_gn_7_67141' => 'lsa', 'Manes.04G003400' => 'mes', 'Manes.07G020000' => 'mes', 'Manes.07G020100' => 'mes', 'Manes.07G020150' => 'mes', 'Manes.10G061500' => 'mes', 'Manes.10G123200' => 'mes', 'Manes.11G161900' => 'mes', 'Manes.15G029300' => 'mes', 'Mapoly0071s0018' => 'mpo', 'Mapoly0082s0023' => 'mpo', 'Mapoly3477s0001' => 'mpo', 'MBI05_g31233_MAGBIO' => 'mbi', 'MBI09_g05946_MAGBIO' => 'mbi', 'MBI09_g05947_MAGBIO' => 'mbi', 'MBI17_g08346_MAGBIO' => 'mbi', 'MCO04G038' => 'mco', 'MCO09G370' => 'mco', 'MCO13G605' => 'mco', 'MD00G1075500' => 'mdo', 'MD03G1144300' => 'mdo', 'MD08G1236800' => 'mdo', 'MD13G1193300' => 'mdo', 'MD15G1428700' => 'mdo', 'Medtr1g112030' => 'mtr', 'Medtr1g112050' => 'mtr', 'Medtr2g006290' => 'mtr', 'Medtr2g086510' => 'mtr', 'Medtr4g053120' => 'mtr', 'Medtr5g006320' => 'mtr', 'Medtr8g088720' => 'mtr', 'MELO3C004712.2' => 'cme', 'MELO3C006533.2' => 'cme', 'MELO3C019438.2' => 'cme', 'MELO3C019440.2' => 'cme', 'MELO3C019441.2' => 'cme', 'MELO3C019895.2' => 'cme', 'Migut.B00811' => 'egut', 'Migut.D02447' => 'egut', 'Migut.F00875' => 'egut', 'Migut.N00186' => 'egut', 'Migut.N01051' => 'egut', 'Migut.N02491' => 'egut', 'Migut.O00784' => 'egut', 'MSTRG.12367' => 'ama', 'MSTRG.18756' => 'ama', 'MSTRG.21042' => 'ama', 'Nitab4.5_0000559g0040' => 'nta', 'Nitab4.5_0000667g0190' => 'nta', 'Nitab4.5_0000755g0160' => 'nta', 'Nitab4.5_0001216g0080' => 'nta', 'Nitab4.5_0004069g0040' => 'nta', 'Nitab4.5_0004129g0010' => 'nta', 'Nitab4.5_0005744g0030' => 'nta', 'Nitab4.5_0006996g0030' => 'nta', 'Nitab4.5_0008971g0040' => 'nta', 'Nitab4.5_0009769g0020' => 'nta', 'Nitab4.5_0009833g0010' => 'nta', 'Nitab4.5_0013140g0020' => 'nta', 'Nn003s41376' => 'nnu', 'Nn1g01857' => 'nnu', 'Nn1g03611' => 'nnu', 'Nn1g06853' => 'nnu', 'Nn3g18360' => 'nnu', 'Nn4g26328' => 'nnu', 'Nn5g27531' => 'nnu', 'Nn6g34899' => 'nnu', 'Nn7g36299' => 'nnu', 'Oeu021485.1' => 'oeu', 'Oeu022433.1' => 'oeu', 'Oeu032111.1' => 'oeu', 'Oeu051608.1' => 'oeu', 'Os01g0860601' => 'osa', 'Os03g0659200' => 'osa', 'Os03g0835900' => 'osa', 'Os04g0412200' => 'osa', 'Os05g0443500' => 'osa', 'Os07g0251500' => 'osa', 'Os08g0104600' => 'osa', 'Peaxi162Scf00003g00047' => 'pax', 'Peaxi162Scf00003g00052' => 'pax', 'Peaxi162Scf00003g00394' => 'pax', 'Peaxi162Scf00091g00621' => 'pax', 'Peaxi162Scf00152g00146' => 'pax', 'Peaxi162Scf00173g00025' => 'pax', 'Peaxi162Scf00195g00102' => 'pax', 'Peaxi162Scf00402g00013' => 'pax', 'Peaxi162Scf00519g00618' => 'pax', 'PGR004G2838' => 'pgr', 'PGR044G2275' => 'pgr', 'PGR102G1377' => 'pgr', 'PGR119G1245' => 'pgr', 'PGR142G4449' => 'pgr', 'PGSC0003DMG400004532' => 'stu', 'PGSC0003DMG400011950' => 'stu', 'PGSC0003DMG400023391' => 'stu', 'PGSC0003DMG400023985' => 'stu', 'PGSC0003DMG400026360' => 'stu', 'PGSC0003DMG400035711' => 'stu', 'PGSC0003DMG400037286' => 'stu', 'PGSC0003DMG402005881' => 'stu', 'Phvul.002G045400' => 'pvu', 'Phvul.006G216600' => 'pvu', 'Phvul.006G216700' => 'pvu', 'Phvul.006G216800' => 'pvu', 'Phvul.007G022500' => 'pvu', 'Phvul.011G094400' => 'pvu', 'Potri.001G470700' => 'ptr', 'Potri.003G015200' => 'ptr', 'Potri.004G202500' => 'ptr', 'Potri.004G218400' => 'ptr', 'Potri.008G020100' => 'ptr', 'Potri.008G153200' => 'ptr', 'Potri.009G163800' => 'ptr', 'Potri.010G087300' => 'ptr', 'Potri.010G239100' => 'ptr', 'Pp3c10_16100' => 'ppa', 'Pp3c10_16880' => 'ppa', 'Pp3c16_6230' => 'ppa', 'Pp3c17_18910' => 'ppa', 'Pp3c3_22119' => 'ppa', 'Pp3c3_22140' => 'ppa', 'Pp3c4_8159' => 'ppa', 'Pp3c4_8171' => 'ppa', 'Pp3c4_8330' => 'ppa', 'PRCOL_00004098' => 'pco', 'Prupe.1G013900' => 'ppe', 'Prupe.1G226300' => 'ppe', 'Prupe.1G573600' => 'ppe', 'Prupe.6G130100' => 'ppe', 'Psat3g090040' => 'psa', 'Psat4g210440' => 'psa', 'Psat6g231040' => 'psa', 'Psat6g231080' => 'psa', 'Psat7g063000' => 'psa', 'Psat7g188000' => 'psa', 'Psat7g188040' => 'psa', 'PSO017G0206' => 'pso', 'PSO170G0501' => 'pso', 'PSO170G6422' => 'pso', 'PSO210G7739' => 'pso', 'PSO339G1808' => 'pso', 'PSO339G6135' => 'pso', 'PSO384G0010' => 'pso', 'PSO384G0964' => 'pso', 'PSO761G0050' => 'pso', 'PSO782G4085' => 'pso', 'QL01p012264' => 'qlo', 'QL02p099491' => 'qlo', 'QL03p033868' => 'qlo', 'QL04p046678' => 'qlo', 'QL06p002448' => 'qlo', 'RcHm_v2.0_Chr4g0416181' => 'rch', 'RcHm_v2.0_Chr5g0044701' => 'rch', 'RcHm_v2.0_Chr6g0265781' => 'rch', 'RcHm_v2.0_Chr7g0221031' => 'rch', 'Rhsim04G0202000' => 'rsi', 'Rhsim11G0127300' => 'rsi', 'Rhsim13G0111800' => 'rsi', 'Sabra01G0165600' => 'sbr', 'Sabra03G0008300' => 'sbr', 'Sabra04G0136900' => 'sbr', 'Sabra08G0013400' => 'sbr', 'Sabra08G0116800' => 'sbr', 'Sabra09G0128000' => 'sbr', 'Sabra10G0055500' => 'sbr', 'Sabra10G0073300' => 'sbr', 'SalBow3G0385' => 'sbo', 'SalBow3G1119' => 'sbo', 'SalBow3G2005' => 'sbo', 'SalBow6G2563' => 'sbo', 'SalBow6G6386' => 'sbo', 'Sc06g0008800' => 'sci', 'Sc07g0004950' => 'sci', 'Sc09g0005340' => 'sci', 'Sc13g0004410' => 'sci', 'Sc21g0007090' => 'sci', 'Sed0009285' => 'sed', 'Sed0017583' => 'sed', 'Sed0019699' => 'sed', 'Sed0023107' => 'sed', 'SEGI_10916' => 'sgi', 'SEGI_16217' => 'sgi', 'SEGI_19466' => 'sgi', 'SEGI_41115' => 'sgi', 'SGA_v2.0_scaffold111G31534' => 'sas', 'SGA_v2.0_scaffold22G09864' => 'sas', 'SGA_v2.0_scaffold338G49219' => 'sas', 'SGA_v2.0_scaffold92G28298' => 'sas', 'SMO119G0064' => 'smo', 'SMO223G0038' => 'smo', 'SMO347G0584' => 'smo', 'SMO351G0010' => 'smo', 'SMO356G0404' => 'smo', 'Solyc01g103920.3' => 'sly', 'Solyc04g009710.2' => 'sly', 'Solyc05g055280.2' => 'sly', 'Solyc10g044520.3' => 'sly', 'Solyc10g075160.1' => 'sly', 'Solyc11g006910.3' => 'sly', 'Solyc11g068430.3' => 'sly', 'Sopen01g046310' => 'spe', 'Sopen03g001200' => 'spe', 'Sopen04g004830' => 'spe', 'Sopen05g033720' => 'spe', 'Sopen06g030740' => 'spe', 'Sopen10g013090' => 'spe', 'Sopen10g027630' => 'spe', 'Sopen10g027640' => 'spe', 'Sopen11g002820' => 'spe', 'Sopen11g027140' => 'spe', 'Sp1g09680' => 'spa', 'Sp2g03630' => 'spa', 'Sp4g10320' => 'spa', 'Sp6g33400' => 'spa', 'Sp7g13030' => 'spa', 'TAR365G0317' => 'tar', 'TAR376G0979' => 'tar', 'TAR623G1665' => 'tar', 'TAR633G2373' => 'tar', 'TAR636G1400' => 'tar', 'THA.LOC104800529' => 'tha', 'THA.LOC104808547' => 'tha', 'THA.LOC104809615' => 'tha', 'THA.LOC104815724' => 'tha', 'THA.LOC104818480' => 'tha', 'THA.LOC104819179' => 'tha', 'THA.LOC104822270' => 'tha', 'THA.LOC104826425' => 'tha', 'Thecc.02G089700' => 'tca', 'Thecc.04G232300' => 'tca', 'Thecc.09G283400' => 'tca', 'Thhalv10009020m.g' => 'esa', 'Thhalv10015506m.g' => 'esa', 'Thhalv10017364m.g' => 'esa', 'Thhalv10023742m.g' => 'esa', 'Thhalv10026483m.g' => 'esa', 'TPR.G17232' => 'tpr', 'TPR.G2133' => 'tpr', 'TPR.G2498' => 'tpr', 'TPR.G31942' => 'tpr', 'TPR.G37877' => 'tpr', 'TPR.G4571' => 'tpr', 'TWI14G1113' => 'twi', 'TWI15G0426' => 'twi', 'TWI31G1005' => 'twi', 'TWI38G0513' => 'twi', 'TWI38G1484' => 'twi', 'TWI73G1098' => 'twi', 'unitig_26.g10519' => 'ugi', 'unitig_736.g22395' => 'ugi', 'unitig_747.g21234' => 'ugi', 'unitig_747.g21942' => 'ugi', 'vmacro14351' => 'vma', 'VMungo0540G0082' => 'vmu', 'VMungo0540G0405' => 'vmu', 'VMungo0540G1486' => 'vmu', 'VMungo0540G1692' => 'vmu', 'VMungo0720G2473' => 'vmu', 'VMungo1127G1562' => 'vmu', 'VMungo1215G1918' => 'vmu', 'Zm00001eb052650' => 'zma', 'Zm00001eb063710' => 'zma', 'Zm00001eb083950' => 'zma', 'Zm00001eb174420' => 'zma', 'Zm00001eb260140' => 'zma', 'Zm00001eb260150' => 'zma', 'Zm00001eb260160' => 'zma', 'Zm00001eb348290' => 'zma', 'Zm00001eb366870' => 'zma', 'Zm00001eb421930' => 'zma' ) $gf_id = 'HOM05D001025' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001025' ) $data_identifier = 'HOM05D001025' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 19, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 2, 'amhyb' => (int) 4, 'aly' => (int) 4, 'aox' => (int) 4, 'arhy' => (int) 3, 'ath' => (int) 5, 'atr' => (int) 4, 'acertr' => (int) 3, 'cqu' => (int) 7, 'bca' => (int) 17, 'bol' => (int) 10, 'bra' => (int) 9, 'can' => (int) 10, 'cansat' => (int) 6, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 5, 'cbr' => (int) 5, 'ccan' => (int) 5, 'cde' => (int) 4, 'cfa' => (int) 3, 'ccl' => (int) 6, 'cil' => (int) 4, 'cla' => (int) 3, 'col' => (int) 3, 'cpa' => (int) 3, 'cre' => (int) 7, 'csa' => (int) 5, 'camsi' => (int) 9, 'dca' => (int) 4, 'din' => (int) 5, 'dzi' => (int) 7, 'eca' => (int) 6, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 12, 'fve' => (int) 4, 'gma' => (int) 12, 'ghi' => (int) 17, 'gra' => (int) 9, 'vvi' => (int) 2, 'han' => (int) 8, 'cav' => (int) 5, 'hma' => (int) 9, 'vpl' => (int) 4, 'sun' => (int) 2, 'lal' => (int) 9, 'lja' => (int) 5, 'lonja' => (int) 6, 'lsa' => (int) 3, 'mes' => (int) 8, 'mpo' => (int) 3, 'mbi' => (int) 4, 'mco' => (int) 3, 'mdo' => (int) 5, 'mtr' => (int) 7, 'cme' => (int) 6, 'egut' => (int) 7, 'ama' => (int) 3, 'nta' => (int) 12, 'nnu' => (int) 9, 'oeu' => (int) 4, 'osa' => (int) 7, 'pax' => (int) 9, 'pgr' => (int) 5, 'stu' => (int) 8, 'pvu' => (int) 6, 'ptr' => (int) 9, 'ppa' => (int) 9, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 7, 'pso' => (int) 10, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 3, 'sbr' => (int) 8, 'sbo' => (int) 5, 'sci' => (int) 5, 'sed' => (int) 4, 'sgi' => (int) 4, 'sas' => (int) 4, 'smo' => (int) 5, 'sly' => (int) 7, 'spe' => (int) 10, 'spa' => (int) 5, 'tar' => (int) 5, 'tha' => (int) 8, 'tca' => (int) 3, 'esa' => (int) 5, 'tpr' => (int) 6, 'twi' => (int) 6, 'ugi' => (int) 4, 'vma' => (int) 1, 'vmu' => (int) 7, 'zma' => (int) 10 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb421930' $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' => 'HOM05D001025', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '592', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p22650' => 'bna', 'A01p29720' => 'bna', 'A03p26560' => 'bna', 'A03p68820' => 'bna', 'A04p20980' => 'bna', 'A06p07730' => 'bna', 'A07p18260' => 'bna', 'A08p33710' => 'bna', 'A09p16970' => 'bna', 'A10p27490' => 'bna', 'Aa31LG1G17300' => 'aar', 'Aa31LG1G3910' => 'aar', 'Aa31LG2G9630' => 'aar', 'Aa31LG5G8360' => 'aar', 'Aa31LG9G2410' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4699' => 'aag', 'Actinidia23512' => 'ach', 'Actinidia37080' => 'ach', 'Ah.01g020380' => 'amhyb', 'Ah.08g215710' => 'amhyb', 'Ah.09g225110' => 'amhyb', 'Ah.10g036680' => 'amhyb', 'AL1G21940' => 'aly', 'AL2G15540' => 'aly', 'AL4G21520' => 'aly', 'AL7G40960' => 'aly', 'Aqoxy2G01191' => 'aox', 'Aqoxy2G03393' => 'aox', 'Aqoxy4G02775' => 'aox', 'Aqoxy6G00058' => 'aox', 'arahy.Tifrunner.gnm1.ann1.9X74H2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CW3FX9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R485W7' => 'arhy', 'AT1G10960' => 'ath', 'AT1G60950' => 'ath', 'AT2G27510' => 'ath', 'AT4G14890' => 'ath', 'AT5G10000' => 'ath', 'ATR0665G624' => 'atr', 'ATR0697G138' => 'atr', 'ATR0776G046' => 'atr', 'ATR1134G135' => 'atr', 'Atru.chr12.1025' => 'acertr', 'Atru.chr3.3241' => 'acertr', 'Atru.chr4.2460' => 'acertr', 'AUR62007427' => 'cqu', 'AUR62010960' => 'cqu', 'AUR62012201' => 'cqu', 'AUR62021470' => 'cqu', 'AUR62022834' => 'cqu', 'AUR62033635' => 'cqu', 'AUR62036186' => 'cqu', 'BcaB01g03077' => 'bca', 'BcaB02g10093' => 'bca', 'BcaB04g20295' => 'bca', 'BcaB06g28147' => 'bca', 'BcaB07g31253' => 'bca', 'BcaC01g04946' => 'bca', 'BcaC02g10614' => 'bca', 'BcaC02g10885' => 'bca', 'BcaC04g19356' => 'bca', 'BcaC04g22297' => 'bca', 'BcaC05g24977' => 'bca', 'BcaC06g31823' => 'bca', 'BcaC07g38633' => 'bca', 'BcaC09g49353' => 'bca', 'BcaC09g50168' => 'bca', 'BcaNung00322' => 'bca', 'BcaNung04769' => 'bca', 'BolC1t02753H' => 'bol', 'BolC1t03721H' => 'bol', 'BolC3t15525H' => 'bol', 'BolC4t23903H' => 'bol', 'BolC4t24231H' => 'bol', 'BolC4t27209H' => 'bol', 'BolC5t29671H' => 'bol', 'BolC8t49044H' => 'bol', 'BolC9t54999H' => 'bol', 'BolC9t59517H' => 'bol', 'BraA01t02178Z' => 'bra', 'BraA01t03099Z' => 'bra', 'BraA03t11867Z' => 'bra', 'BraA04t17667Z' => 'bra', 'BraA07t29542Z' => 'bra', 'BraA08t35287Z' => 'bra', 'BraA09t37334Z' => 'bra', 'BraA10t44801Z' => 'bra', 'BraSC39t46181Z' => 'bra', 'C01p28240' => 'bna', 'C01p37530' => 'bna', 'C03p31820' => 'bna', 'C04p24080' => 'bna', 'C04p25790' => 'bna', 'C04p56770' => 'bna', 'C05p09310' => 'bna', 'C09p21010' => 'bna', 'C09p67560' => 'bna', 'CAN.G1324.7' => 'can', 'CAN.G1358.10' => 'can', 'CAN.G1550.2' => 'can', 'CAN.G186.56' => 'can', 'CAN.G1965.1' => 'can', 'CAN.G645.15' => 'can', 'CAN.G798.26' => 'can', 'CAN.G798.27' => 'can', 'CAN.G798.29' => 'can', 'CAN.G919.31' => 'can', 'CANSAT11G0133' => 'cansat', 'CANSAT11G1171' => 'cansat', 'CANSAT11G2056' => 'cansat', 'CANSAT56G1202' => 'cansat', 'CANSAT56G1514' => 'cansat', 'CANSAT78G0455' => 'cansat', 'CARHR011190' => 'chi', 'CARHR051980' => 'chi', 'CARHR120170' => 'chi', 'CARHR203310' => 'chi', 'CARHR221490' => 'chi', 'Carub.0001s1054' => 'cru', 'Carub.0002s0431' => 'cru', 'Carub.0004s0818' => 'cru', 'Carub.0006s0846' => 'cru', 'Carub.0007s2722' => 'cru', 'Ca_00058_v3' => 'car', 'Ca_17831_v3' => 'car', 'Ca_19408_v3' => 'car', 'Ca_24397_v3' => 'car', 'Ca_25664_v3' => 'car', 'CBR_g21818' => 'cbr', 'CBR_g31195' => 'cbr', 'CBR_g32282' => 'cbr', 'CBR_g39599' => 'cbr', 'CBR_g49410' => 'cbr', 'Cc01_g09120' => 'ccan', 'Cc01_g09130' => 'ccan', 'Cc02_g09630' => 'ccan', 'Cc02_g22810' => 'ccan', 'Cc03_g03810' => 'ccan', 'CDE02G3718' => 'cde', 'CDE04G3183' => 'cde', 'CDE07G1046' => 'cde', 'CDE08G0480' => 'cde', 'Cfa005493' => 'cfa', 'Cfa010312' => 'cfa', 'Cfa015648' => 'cfa', 'Ciclev10002793m.g' => 'ccl', 'Ciclev10003356m.g' => 'ccl', 'Ciclev10006141m.g' => 'ccl', 'Ciclev10016676m.g' => 'ccl', 'Ciclev10017081m.g' => 'ccl', 'Ciclev10029499m.g' => 'ccl', 'CiPaw.01G166300' => 'cil', 'CiPaw.06G145600' => 'cil', 'CiPaw.13G040100' => 'cil', 'CiPaw.13G135800' => 'cil', 'ClCG01G012230' => 'cla', 'ClCG05G009510' => 'cla', 'ClCG08G008270' => 'cla', 'COL.COLO4_11763' => 'col', 'COL.COLO4_19876' => 'col', 'COL.COLO4_21481' => 'col', 'Cpa.g.sc118.34' => 'cpa', 'Cpa.g.sc32.13' => 'cpa', 'Cpa.g.sc58.103' => 'cpa', 'Cre03.g183850' => 'cre', 'Cre06.g306350' => 'cre', 'Cre07.g334800' => 'cre', 'Cre12.g487900' => 'cre', 'Cre14.g626700' => 'cre', 'Cre16.g658400' => 'cre', 'Cre17.g700950' => 'cre', 'CsaV3_1G014830' => 'csa', 'CsaV3_3G013320' => 'csa', 'CsaV3_3G019210' => 'csa', 'CsaV3_3G019220' => 'csa', 'CsaV3_6G004230' => 'csa', 'CSS0003773' => 'camsi', 'CSS0004563' => 'camsi', 'CSS0013949' => 'camsi', 'CSS0025971' => 'camsi', 'CSS0028570' => 'camsi', 'CSS0033127' => 'camsi', 'CSS0036051' => 'camsi', 'CSS0040087' => 'camsi', 'CSS0043179' => 'camsi', 'DCAR_006161' => 'dca', 'DCAR_010351' => 'dca', 'DCAR_012197' => 'dca', 'DCAR_024162' => 'dca', 'Dinv01030' => 'din', 'Dinv10924' => 'din', 'Dinv11835' => 'din', 'Dinv22841' => 'din', 'Dinv42553' => 'din', 'Duzib052G0560' => 'dzi', 'Duzib132G0389' => 'dzi', 'Duzib150G1181' => 'dzi', 'Duzib168G0623' => 'dzi', 'Duzib170G1036' => 'dzi', 'Duzib212G0200' => 'dzi', 'Duzib248G0194' => 'dzi', 'ECA232G2193' => 'eca', 'ECA233G0302' => 'eca', 'ECA234G2813' => 'eca', 'ECA234G4866' => 'eca', 'ECA240G3932' => 'eca', 'ECA248G0385' => 'eca', 'EL10Ac2g04781' => 'bvu', 'EL10Ac3g06445' => 'bvu', 'EL10Ac7g15825' => 'bvu', 'EL10Ac8g18550' => 'bvu', 'Eucgr.B03849' => 'egr', 'Eucgr.I02744' => 'egr', 'Eucgr.J00264' => 'egr', 'Eucgr.J00493' => 'egr', 'FAN04G2181' => 'fan', 'FAN07G2666' => 'fan', 'FAN11G0024' => 'fan', 'FAN12G1105' => 'fan', 'FAN13G0302' => 'fan', 'FAN15G2781' => 'fan', 'FAN16G1274' => 'fan', 'FAN17G2988' => 'fan', 'FAN18G2621' => 'fan', 'FAN21G0013' => 'fan', 'FAN22G1211' => 'fan', 'FAN25G3626' => 'fan', 'FvH4_2g09491' => 'fve', 'FvH4_3g24910' => 'fve', 'FvH4_4g15630' => 'fve', 'FvH4_5g28820' => 'fve', 'Glyma.01G238000' => 'gma', 'Glyma.05G168400' => 'gma', 'Glyma.08G126800' => 'gma', 'Glyma.08G188500' => 'gma', 'Glyma.10G278900' => 'gma', 'Glyma.11G005700' => 'gma', 'Glyma.11G183300' => 'gma', 'Glyma.12G089200' => 'gma', 'Glyma.12G169400' => 'gma', 'Glyma.12G169500' => 'gma', 'Glyma.12G169600' => 'gma', 'Glyma.20G110800' => 'gma', 'Gohir.A03G192900' => 'ghi', 'Gohir.A03G193000' => 'ghi', 'Gohir.A05G080700' => 'ghi', 'Gohir.A09G216000' => 'ghi', 'Gohir.A12G027700' => 'ghi', 'Gohir.A13G036200' => 'ghi', 'Gohir.A13G222600' => 'ghi', 'Gohir.D02G213900' => 'ghi', 'Gohir.D02G214000' => 'ghi', 'Gohir.D05G083700' => 'ghi', 'Gohir.D05G083800' => 'ghi', 'Gohir.D05G083850' => 'ghi', 'Gohir.D08G015400' => 'ghi', 'Gohir.D09G218400' => 'ghi', 'Gohir.D12G027100' => 'ghi', 'Gohir.D13G034500' => 'ghi', 'Gohir.D13G227400' => 'ghi', 'Gorai.005G241800' => 'gra', 'Gorai.005G241900' => 'gra', 'Gorai.006G239400' => 'gra', 'Gorai.008G027600' => 'gra', 'Gorai.009G085400' => 'gra', 'Gorai.009G085500' => 'gra', 'Gorai.013G039000' => 'gra', 'Gorai.013G194800' => 'gra', 'Gorai.013G257900' => 'gra', 'GSVIVG01000982001' => 'vvi', 'GSVIVG01017981001' => 'vvi', 'HanXRQChr01g0024061' => 'han', 'HanXRQChr09g0247831' => 'han', 'HanXRQChr10g0294611' => 'han', 'HanXRQChr10g0294621' => 'han', 'HanXRQChr11g0346821' => 'han', 'HanXRQChr13g0397461' => 'han', 'HanXRQChr16g0513651' => 'han', 'HanXRQChr16g0513701' => 'han', 'Haze_00897' => 'cav', 'Haze_01745' => 'cav', 'Haze_02486' => 'cav', 'Haze_02487' => 'cav', 'Haze_23374' => 'cav', 'Hma1.2p1_0578F.1_g182520' => 'hma', 'Hma1.2p1_0602F.1_g187350' => 'hma', 'Hma1.2p1_0602F.1_g187360' => 'hma', 'Hma1.2p1_0874F.1_g231320' => 'hma', 'Hma1.2p1_1197F.1_g266210' => 'hma', 'Hma1.2p1_1197F.1_g266220' => 'hma', 'Hma1.2p1_2167F.1_g315895' => 'hma', 'Hma1.2p1_2190F.1_g316640' => 'hma', 'Hma1.2p1_3645F.1_g337153' => 'hma', 'HPP92_004907' => 'vpl', 'HPP92_012134' => 'vpl', 'HPP92_025136' => 'vpl', 'HPP92_026087' => 'vpl', 'Hund06782' => 'sun', 'Hund06784' => 'sun', 'Lalb_Chr01g0004861' => 'lal', 'Lalb_Chr02g0140591' => 'lal', 'Lalb_Chr02g0140611' => 'lal', 'Lalb_Chr03g0028101' => 'lal', 'Lalb_Chr07g0185791' => 'lal', 'Lalb_Chr12g0204491' => 'lal', 'Lalb_Chr13g0295671' => 'lal', 'Lalb_Chr19g0136461' => 'lal', 'Lalb_Chr21g0309191' => 'lal', 'Lj1g0028158' => 'lja', 'Lj1P236T38' => 'lonja', 'Lj2C32G2' => 'lonja', 'Lj2P944T8' => 'lonja', 'Lj2P963T15' => 'lonja', 'Lj3g0011788' => 'lja', 'Lj4g0025027' => 'lja', 'Lj5P255T36' => 'lonja', 'Lj6g0018866' => 'lja', 'Lj6P608T31' => 'lonja', 'LjContig00408g0008879' => 'lja', 'Lsat_1_v5_gn_5_105820' => 'lsa', 'Lsat_1_v5_gn_6_38800' => 'lsa', 'Lsat_1_v5_gn_7_67141' => 'lsa', 'Manes.04G003400' => 'mes', 'Manes.07G020000' => 'mes', 'Manes.07G020100' => 'mes', 'Manes.07G020150' => 'mes', 'Manes.10G061500' => 'mes', 'Manes.10G123200' => 'mes', 'Manes.11G161900' => 'mes', 'Manes.15G029300' => 'mes', 'Mapoly0071s0018' => 'mpo', 'Mapoly0082s0023' => 'mpo', 'Mapoly3477s0001' => 'mpo', 'MBI05_g31233_MAGBIO' => 'mbi', 'MBI09_g05946_MAGBIO' => 'mbi', 'MBI09_g05947_MAGBIO' => 'mbi', 'MBI17_g08346_MAGBIO' => 'mbi', 'MCO04G038' => 'mco', 'MCO09G370' => 'mco', 'MCO13G605' => 'mco', 'MD00G1075500' => 'mdo', 'MD03G1144300' => 'mdo', 'MD08G1236800' => 'mdo', 'MD13G1193300' => 'mdo', 'MD15G1428700' => 'mdo', 'Medtr1g112030' => 'mtr', 'Medtr1g112050' => 'mtr', 'Medtr2g006290' => 'mtr', 'Medtr2g086510' => 'mtr', 'Medtr4g053120' => 'mtr', 'Medtr5g006320' => 'mtr', 'Medtr8g088720' => 'mtr', 'MELO3C004712.2' => 'cme', 'MELO3C006533.2' => 'cme', 'MELO3C019438.2' => 'cme', 'MELO3C019440.2' => 'cme', 'MELO3C019441.2' => 'cme', 'MELO3C019895.2' => 'cme', 'Migut.B00811' => 'egut', 'Migut.D02447' => 'egut', 'Migut.F00875' => 'egut', 'Migut.N00186' => 'egut', 'Migut.N01051' => 'egut', 'Migut.N02491' => 'egut', 'Migut.O00784' => 'egut', 'MSTRG.12367' => 'ama', 'MSTRG.18756' => 'ama', 'MSTRG.21042' => 'ama', 'Nitab4.5_0000559g0040' => 'nta', 'Nitab4.5_0000667g0190' => 'nta', 'Nitab4.5_0000755g0160' => 'nta', 'Nitab4.5_0001216g0080' => 'nta', 'Nitab4.5_0004069g0040' => 'nta', 'Nitab4.5_0004129g0010' => 'nta', 'Nitab4.5_0005744g0030' => 'nta', 'Nitab4.5_0006996g0030' => 'nta', 'Nitab4.5_0008971g0040' => 'nta', 'Nitab4.5_0009769g0020' => 'nta', 'Nitab4.5_0009833g0010' => 'nta', 'Nitab4.5_0013140g0020' => 'nta', 'Nn003s41376' => 'nnu', 'Nn1g01857' => 'nnu', 'Nn1g03611' => 'nnu', 'Nn1g06853' => 'nnu', 'Nn3g18360' => 'nnu', 'Nn4g26328' => 'nnu', 'Nn5g27531' => 'nnu', 'Nn6g34899' => 'nnu', 'Nn7g36299' => 'nnu', 'Oeu021485.1' => 'oeu', 'Oeu022433.1' => 'oeu', 'Oeu032111.1' => 'oeu', 'Oeu051608.1' => 'oeu', 'Os01g0860601' => 'osa', 'Os03g0659200' => 'osa', 'Os03g0835900' => 'osa', 'Os04g0412200' => 'osa', 'Os05g0443500' => 'osa', 'Os07g0251500' => 'osa', 'Os08g0104600' => 'osa', 'Peaxi162Scf00003g00047' => 'pax', 'Peaxi162Scf00003g00052' => 'pax', 'Peaxi162Scf00003g00394' => 'pax', 'Peaxi162Scf00091g00621' => 'pax', 'Peaxi162Scf00152g00146' => 'pax', 'Peaxi162Scf00173g00025' => 'pax', 'Peaxi162Scf00195g00102' => 'pax', 'Peaxi162Scf00402g00013' => 'pax', 'Peaxi162Scf00519g00618' => 'pax', 'PGR004G2838' => 'pgr', 'PGR044G2275' => 'pgr', 'PGR102G1377' => 'pgr', 'PGR119G1245' => 'pgr', 'PGR142G4449' => 'pgr', 'PGSC0003DMG400004532' => 'stu', 'PGSC0003DMG400011950' => 'stu', 'PGSC0003DMG400023391' => 'stu', 'PGSC0003DMG400023985' => 'stu', 'PGSC0003DMG400026360' => 'stu', 'PGSC0003DMG400035711' => 'stu', 'PGSC0003DMG400037286' => 'stu', 'PGSC0003DMG402005881' => 'stu', 'Phvul.002G045400' => 'pvu', 'Phvul.006G216600' => 'pvu', 'Phvul.006G216700' => 'pvu', 'Phvul.006G216800' => 'pvu', 'Phvul.007G022500' => 'pvu', 'Phvul.011G094400' => 'pvu', 'Potri.001G470700' => 'ptr', 'Potri.003G015200' => 'ptr', 'Potri.004G202500' => 'ptr', 'Potri.004G218400' => 'ptr', 'Potri.008G020100' => 'ptr', 'Potri.008G153200' => 'ptr', 'Potri.009G163800' => 'ptr', 'Potri.010G087300' => 'ptr', 'Potri.010G239100' => 'ptr', 'Pp3c10_16100' => 'ppa', 'Pp3c10_16880' => 'ppa', 'Pp3c16_6230' => 'ppa', 'Pp3c17_18910' => 'ppa', 'Pp3c3_22119' => 'ppa', 'Pp3c3_22140' => 'ppa', 'Pp3c4_8159' => 'ppa', 'Pp3c4_8171' => 'ppa', 'Pp3c4_8330' => 'ppa', 'PRCOL_00004098' => 'pco', 'Prupe.1G013900' => 'ppe', 'Prupe.1G226300' => 'ppe', 'Prupe.1G573600' => 'ppe', 'Prupe.6G130100' => 'ppe', 'Psat3g090040' => 'psa', 'Psat4g210440' => 'psa', 'Psat6g231040' => 'psa', 'Psat6g231080' => 'psa', 'Psat7g063000' => 'psa', 'Psat7g188000' => 'psa', 'Psat7g188040' => 'psa', 'PSO017G0206' => 'pso', 'PSO170G0501' => 'pso', 'PSO170G6422' => 'pso', 'PSO210G7739' => 'pso', 'PSO339G1808' => 'pso', 'PSO339G6135' => 'pso', 'PSO384G0010' => 'pso', 'PSO384G0964' => 'pso', 'PSO761G0050' => 'pso', 'PSO782G4085' => 'pso', 'QL01p012264' => 'qlo', 'QL02p099491' => 'qlo', 'QL03p033868' => 'qlo', 'QL04p046678' => 'qlo', 'QL06p002448' => 'qlo', 'RcHm_v2.0_Chr4g0416181' => 'rch', 'RcHm_v2.0_Chr5g0044701' => 'rch', 'RcHm_v2.0_Chr6g0265781' => 'rch', 'RcHm_v2.0_Chr7g0221031' => 'rch', 'Rhsim04G0202000' => 'rsi', 'Rhsim11G0127300' => 'rsi', 'Rhsim13G0111800' => 'rsi', 'Sabra01G0165600' => 'sbr', 'Sabra03G0008300' => 'sbr', 'Sabra04G0136900' => 'sbr', 'Sabra08G0013400' => 'sbr', 'Sabra08G0116800' => 'sbr', 'Sabra09G0128000' => 'sbr', 'Sabra10G0055500' => 'sbr', 'Sabra10G0073300' => 'sbr', 'SalBow3G0385' => 'sbo', 'SalBow3G1119' => 'sbo', 'SalBow3G2005' => 'sbo', 'SalBow6G2563' => 'sbo', 'SalBow6G6386' => 'sbo', 'Sc06g0008800' => 'sci', 'Sc07g0004950' => 'sci', 'Sc09g0005340' => 'sci', 'Sc13g0004410' => 'sci', 'Sc21g0007090' => 'sci', 'Sed0009285' => 'sed', 'Sed0017583' => 'sed', 'Sed0019699' => 'sed', 'Sed0023107' => 'sed', 'SEGI_10916' => 'sgi', 'SEGI_16217' => 'sgi', 'SEGI_19466' => 'sgi', 'SEGI_41115' => 'sgi', 'SGA_v2.0_scaffold111G31534' => 'sas', 'SGA_v2.0_scaffold22G09864' => 'sas', 'SGA_v2.0_scaffold338G49219' => 'sas', 'SGA_v2.0_scaffold92G28298' => 'sas', 'SMO119G0064' => 'smo', 'SMO223G0038' => 'smo', 'SMO347G0584' => 'smo', 'SMO351G0010' => 'smo', 'SMO356G0404' => 'smo', 'Solyc01g103920.3' => 'sly', 'Solyc04g009710.2' => 'sly', 'Solyc05g055280.2' => 'sly', 'Solyc10g044520.3' => 'sly', 'Solyc10g075160.1' => 'sly', 'Solyc11g006910.3' => 'sly', 'Solyc11g068430.3' => 'sly', 'Sopen01g046310' => 'spe', 'Sopen03g001200' => 'spe', 'Sopen04g004830' => 'spe', 'Sopen05g033720' => 'spe', 'Sopen06g030740' => 'spe', 'Sopen10g013090' => 'spe', 'Sopen10g027630' => 'spe', 'Sopen10g027640' => 'spe', 'Sopen11g002820' => 'spe', 'Sopen11g027140' => 'spe', 'Sp1g09680' => 'spa', 'Sp2g03630' => 'spa', 'Sp4g10320' => 'spa', 'Sp6g33400' => 'spa', 'Sp7g13030' => 'spa', 'TAR365G0317' => 'tar', 'TAR376G0979' => 'tar', 'TAR623G1665' => 'tar', 'TAR633G2373' => 'tar', 'TAR636G1400' => 'tar', 'THA.LOC104800529' => 'tha', 'THA.LOC104808547' => 'tha', 'THA.LOC104809615' => 'tha', 'THA.LOC104815724' => 'tha', 'THA.LOC104818480' => 'tha', 'THA.LOC104819179' => 'tha', 'THA.LOC104822270' => 'tha', 'THA.LOC104826425' => 'tha', 'Thecc.02G089700' => 'tca', 'Thecc.04G232300' => 'tca', 'Thecc.09G283400' => 'tca', 'Thhalv10009020m.g' => 'esa', 'Thhalv10015506m.g' => 'esa', 'Thhalv10017364m.g' => 'esa', 'Thhalv10023742m.g' => 'esa', 'Thhalv10026483m.g' => 'esa', 'TPR.G17232' => 'tpr', 'TPR.G2133' => 'tpr', 'TPR.G2498' => 'tpr', 'TPR.G31942' => 'tpr', 'TPR.G37877' => 'tpr', 'TPR.G4571' => 'tpr', 'TWI14G1113' => 'twi', 'TWI15G0426' => 'twi', 'TWI31G1005' => 'twi', 'TWI38G0513' => 'twi', 'TWI38G1484' => 'twi', 'TWI73G1098' => 'twi', 'unitig_26.g10519' => 'ugi', 'unitig_736.g22395' => 'ugi', 'unitig_747.g21234' => 'ugi', 'unitig_747.g21942' => 'ugi', 'vmacro14351' => 'vma', 'VMungo0540G0082' => 'vmu', 'VMungo0540G0405' => 'vmu', 'VMungo0540G1486' => 'vmu', 'VMungo0540G1692' => 'vmu', 'VMungo0720G2473' => 'vmu', 'VMungo1127G1562' => 'vmu', 'VMungo1215G1918' => 'vmu', 'Zm00001eb052650' => 'zma', 'Zm00001eb063710' => 'zma', 'Zm00001eb083950' => 'zma', 'Zm00001eb174420' => 'zma', 'Zm00001eb260140' => 'zma', 'Zm00001eb260150' => 'zma', 'Zm00001eb260160' => 'zma', 'Zm00001eb348290' => 'zma', 'Zm00001eb366870' => 'zma', 'Zm00001eb421930' => 'zma' ), 'gf_id' => 'HOM05D001025', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001025' ), 'data_identifier' => 'HOM05D001025', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001025', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '592', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p22650' => 'bna', 'A01p29720' => 'bna', 'A03p26560' => 'bna', 'A03p68820' => 'bna', 'A04p20980' => 'bna', 'A06p07730' => 'bna', 'A07p18260' => 'bna', 'A08p33710' => 'bna', 'A09p16970' => 'bna', 'A10p27490' => 'bna', 'Aa31LG1G17300' => 'aar', 'Aa31LG1G3910' => 'aar', 'Aa31LG2G9630' => 'aar', 'Aa31LG5G8360' => 'aar', 'Aa31LG9G2410' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4699' => 'aag', 'Actinidia23512' => 'ach', 'Actinidia37080' => 'ach', 'Ah.01g020380' => 'amhyb', 'Ah.08g215710' => 'amhyb', 'Ah.09g225110' => 'amhyb', 'Ah.10g036680' => 'amhyb', 'AL1G21940' => 'aly', 'AL2G15540' => 'aly', 'AL4G21520' => 'aly', 'AL7G40960' => 'aly', 'Aqoxy2G01191' => 'aox', 'Aqoxy2G03393' => 'aox', 'Aqoxy4G02775' => 'aox', 'Aqoxy6G00058' => 'aox', 'arahy.Tifrunner.gnm1.ann1.9X74H2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CW3FX9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R485W7' => 'arhy', 'AT1G10960' => 'ath', 'AT1G60950' => 'ath', 'AT2G27510' => 'ath', 'AT4G14890' => 'ath', 'AT5G10000' => 'ath', 'ATR0665G624' => 'atr', 'ATR0697G138' => 'atr', 'ATR0776G046' => 'atr', 'ATR1134G135' => 'atr', 'Atru.chr12.1025' => 'acertr', 'Atru.chr3.3241' => 'acertr', 'Atru.chr4.2460' => 'acertr', 'AUR62007427' => 'cqu', 'AUR62010960' => 'cqu', 'AUR62012201' => 'cqu', 'AUR62021470' => 'cqu', 'AUR62022834' => 'cqu', 'AUR62033635' => 'cqu', 'AUR62036186' => 'cqu', 'BcaB01g03077' => 'bca', 'BcaB02g10093' => 'bca', 'BcaB04g20295' => 'bca', 'BcaB06g28147' => 'bca', 'BcaB07g31253' => 'bca', 'BcaC01g04946' => 'bca', 'BcaC02g10614' => 'bca', 'BcaC02g10885' => 'bca', 'BcaC04g19356' => 'bca', 'BcaC04g22297' => 'bca', 'BcaC05g24977' => 'bca', 'BcaC06g31823' => 'bca', 'BcaC07g38633' => 'bca', 'BcaC09g49353' => 'bca', 'BcaC09g50168' => 'bca', 'BcaNung00322' => 'bca', 'BcaNung04769' => 'bca', 'BolC1t02753H' => 'bol', 'BolC1t03721H' => 'bol', 'BolC3t15525H' => 'bol', 'BolC4t23903H' => 'bol', 'BolC4t24231H' => 'bol', 'BolC4t27209H' => 'bol', 'BolC5t29671H' => 'bol', 'BolC8t49044H' => 'bol', 'BolC9t54999H' => 'bol', 'BolC9t59517H' => 'bol', 'BraA01t02178Z' => 'bra', 'BraA01t03099Z' => 'bra', 'BraA03t11867Z' => 'bra', 'BraA04t17667Z' => 'bra', 'BraA07t29542Z' => 'bra', 'BraA08t35287Z' => 'bra', 'BraA09t37334Z' => 'bra', 'BraA10t44801Z' => 'bra', 'BraSC39t46181Z' => 'bra', 'C01p28240' => 'bna', 'C01p37530' => 'bna', 'C03p31820' => 'bna', 'C04p24080' => 'bna', 'C04p25790' => 'bna', 'C04p56770' => 'bna', 'C05p09310' => 'bna', 'C09p21010' => 'bna', 'C09p67560' => 'bna', 'CAN.G1324.7' => 'can', 'CAN.G1358.10' => 'can', 'CAN.G1550.2' => 'can', 'CAN.G186.56' => 'can', 'CAN.G1965.1' => 'can', 'CAN.G645.15' => 'can', 'CAN.G798.26' => 'can', 'CAN.G798.27' => 'can', 'CAN.G798.29' => 'can', 'CAN.G919.31' => 'can', 'CANSAT11G0133' => 'cansat', 'CANSAT11G1171' => 'cansat', 'CANSAT11G2056' => 'cansat', 'CANSAT56G1202' => 'cansat', 'CANSAT56G1514' => 'cansat', 'CANSAT78G0455' => 'cansat', 'CARHR011190' => 'chi', 'CARHR051980' => 'chi', 'CARHR120170' => 'chi', 'CARHR203310' => 'chi', 'CARHR221490' => 'chi', 'Carub.0001s1054' => 'cru', 'Carub.0002s0431' => 'cru', 'Carub.0004s0818' => 'cru', 'Carub.0006s0846' => 'cru', 'Carub.0007s2722' => 'cru', 'Ca_00058_v3' => 'car', 'Ca_17831_v3' => 'car', 'Ca_19408_v3' => 'car', 'Ca_24397_v3' => 'car', 'Ca_25664_v3' => 'car', 'CBR_g21818' => 'cbr', 'CBR_g31195' => 'cbr', 'CBR_g32282' => 'cbr', 'CBR_g39599' => 'cbr', 'CBR_g49410' => 'cbr', 'Cc01_g09120' => 'ccan', 'Cc01_g09130' => 'ccan', 'Cc02_g09630' => 'ccan', 'Cc02_g22810' => 'ccan', 'Cc03_g03810' => 'ccan', 'CDE02G3718' => 'cde', 'CDE04G3183' => 'cde', 'CDE07G1046' => 'cde', 'CDE08G0480' => 'cde', 'Cfa005493' => 'cfa', 'Cfa010312' => 'cfa', 'Cfa015648' => 'cfa', 'Ciclev10002793m.g' => 'ccl', 'Ciclev10003356m.g' => 'ccl', 'Ciclev10006141m.g' => 'ccl', 'Ciclev10016676m.g' => 'ccl', 'Ciclev10017081m.g' => 'ccl', 'Ciclev10029499m.g' => 'ccl', 'CiPaw.01G166300' => 'cil', 'CiPaw.06G145600' => 'cil', 'CiPaw.13G040100' => 'cil', 'CiPaw.13G135800' => 'cil', 'ClCG01G012230' => 'cla', 'ClCG05G009510' => 'cla', 'ClCG08G008270' => 'cla', 'COL.COLO4_11763' => 'col', 'COL.COLO4_19876' => 'col', 'COL.COLO4_21481' => 'col', 'Cpa.g.sc118.34' => 'cpa', 'Cpa.g.sc32.13' => 'cpa', 'Cpa.g.sc58.103' => 'cpa', 'Cre03.g183850' => 'cre', 'Cre06.g306350' => 'cre', 'Cre07.g334800' => 'cre', 'Cre12.g487900' => 'cre', 'Cre14.g626700' => 'cre', 'Cre16.g658400' => 'cre', 'Cre17.g700950' => 'cre', 'CsaV3_1G014830' => 'csa', 'CsaV3_3G013320' => 'csa', 'CsaV3_3G019210' => 'csa', 'CsaV3_3G019220' => 'csa', 'CsaV3_6G004230' => 'csa', 'CSS0003773' => 'camsi', 'CSS0004563' => 'camsi', 'CSS0013949' => 'camsi', 'CSS0025971' => 'camsi', 'CSS0028570' => 'camsi', 'CSS0033127' => 'camsi', 'CSS0036051' => 'camsi', 'CSS0040087' => 'camsi', 'CSS0043179' => 'camsi', 'DCAR_006161' => 'dca', 'DCAR_010351' => 'dca', 'DCAR_012197' => 'dca', 'DCAR_024162' => 'dca', 'Dinv01030' => 'din', 'Dinv10924' => 'din', 'Dinv11835' => 'din', 'Dinv22841' => 'din', 'Dinv42553' => 'din', 'Duzib052G0560' => 'dzi', 'Duzib132G0389' => 'dzi', 'Duzib150G1181' => 'dzi', 'Duzib168G0623' => 'dzi', 'Duzib170G1036' => 'dzi', 'Duzib212G0200' => 'dzi', 'Duzib248G0194' => 'dzi', 'ECA232G2193' => 'eca', 'ECA233G0302' => 'eca', 'ECA234G2813' => 'eca', 'ECA234G4866' => 'eca', 'ECA240G3932' => 'eca', 'ECA248G0385' => 'eca', 'EL10Ac2g04781' => 'bvu', 'EL10Ac3g06445' => 'bvu', 'EL10Ac7g15825' => 'bvu', 'EL10Ac8g18550' => 'bvu', 'Eucgr.B03849' => 'egr', 'Eucgr.I02744' => 'egr', 'Eucgr.J00264' => 'egr', 'Eucgr.J00493' => 'egr', 'FAN04G2181' => 'fan', 'FAN07G2666' => 'fan', 'FAN11G0024' => 'fan', 'FAN12G1105' => 'fan', 'FAN13G0302' => 'fan', 'FAN15G2781' => 'fan', 'FAN16G1274' => 'fan', 'FAN17G2988' => 'fan', 'FAN18G2621' => 'fan', 'FAN21G0013' => 'fan', 'FAN22G1211' => 'fan', 'FAN25G3626' => 'fan', 'FvH4_2g09491' => 'fve', 'FvH4_3g24910' => 'fve', 'FvH4_4g15630' => 'fve', 'FvH4_5g28820' => 'fve', 'Glyma.01G238000' => 'gma', 'Glyma.05G168400' => 'gma', 'Glyma.08G126800' => 'gma', 'Glyma.08G188500' => 'gma', 'Glyma.10G278900' => 'gma', 'Glyma.11G005700' => 'gma', 'Glyma.11G183300' => 'gma', 'Glyma.12G089200' => 'gma', 'Glyma.12G169400' => 'gma', 'Glyma.12G169500' => 'gma', 'Glyma.12G169600' => 'gma', 'Glyma.20G110800' => 'gma', 'Gohir.A03G192900' => 'ghi', 'Gohir.A03G193000' => 'ghi', 'Gohir.A05G080700' => 'ghi', 'Gohir.A09G216000' => 'ghi', 'Gohir.A12G027700' => 'ghi', 'Gohir.A13G036200' => 'ghi', 'Gohir.A13G222600' => 'ghi', 'Gohir.D02G213900' => 'ghi', 'Gohir.D02G214000' => 'ghi', 'Gohir.D05G083700' => 'ghi', 'Gohir.D05G083800' => 'ghi', 'Gohir.D05G083850' => 'ghi', 'Gohir.D08G015400' => 'ghi', 'Gohir.D09G218400' => 'ghi', 'Gohir.D12G027100' => 'ghi', 'Gohir.D13G034500' => 'ghi', 'Gohir.D13G227400' => 'ghi', 'Gorai.005G241800' => 'gra', 'Gorai.005G241900' => 'gra', 'Gorai.006G239400' => 'gra', 'Gorai.008G027600' => 'gra', 'Gorai.009G085400' => 'gra', 'Gorai.009G085500' => 'gra', 'Gorai.013G039000' => 'gra', 'Gorai.013G194800' => 'gra', 'Gorai.013G257900' => 'gra', 'GSVIVG01000982001' => 'vvi', 'GSVIVG01017981001' => 'vvi', 'HanXRQChr01g0024061' => 'han', 'HanXRQChr09g0247831' => 'han', 'HanXRQChr10g0294611' => 'han', 'HanXRQChr10g0294621' => 'han', 'HanXRQChr11g0346821' => 'han', 'HanXRQChr13g0397461' => 'han', 'HanXRQChr16g0513651' => 'han', 'HanXRQChr16g0513701' => 'han', 'Haze_00897' => 'cav', 'Haze_01745' => 'cav', 'Haze_02486' => 'cav', 'Haze_02487' => 'cav', 'Haze_23374' => 'cav', 'Hma1.2p1_0578F.1_g182520' => 'hma', 'Hma1.2p1_0602F.1_g187350' => 'hma', 'Hma1.2p1_0602F.1_g187360' => 'hma', 'Hma1.2p1_0874F.1_g231320' => 'hma', 'Hma1.2p1_1197F.1_g266210' => 'hma', 'Hma1.2p1_1197F.1_g266220' => 'hma', 'Hma1.2p1_2167F.1_g315895' => 'hma', 'Hma1.2p1_2190F.1_g316640' => 'hma', 'Hma1.2p1_3645F.1_g337153' => 'hma', 'HPP92_004907' => 'vpl', 'HPP92_012134' => 'vpl', 'HPP92_025136' => 'vpl', 'HPP92_026087' => 'vpl', 'Hund06782' => 'sun', 'Hund06784' => 'sun', 'Lalb_Chr01g0004861' => 'lal', 'Lalb_Chr02g0140591' => 'lal', 'Lalb_Chr02g0140611' => 'lal', 'Lalb_Chr03g0028101' => 'lal', 'Lalb_Chr07g0185791' => 'lal', 'Lalb_Chr12g0204491' => 'lal', 'Lalb_Chr13g0295671' => 'lal', 'Lalb_Chr19g0136461' => 'lal', 'Lalb_Chr21g0309191' => 'lal', 'Lj1g0028158' => 'lja', 'Lj1P236T38' => 'lonja', 'Lj2C32G2' => 'lonja', 'Lj2P944T8' => 'lonja', 'Lj2P963T15' => 'lonja', 'Lj3g0011788' => 'lja', 'Lj4g0025027' => 'lja', 'Lj5P255T36' => 'lonja', 'Lj6g0018866' => 'lja', 'Lj6P608T31' => 'lonja', 'LjContig00408g0008879' => 'lja', 'Lsat_1_v5_gn_5_105820' => 'lsa', 'Lsat_1_v5_gn_6_38800' => 'lsa', 'Lsat_1_v5_gn_7_67141' => 'lsa', 'Manes.04G003400' => 'mes', 'Manes.07G020000' => 'mes', 'Manes.07G020100' => 'mes', 'Manes.07G020150' => 'mes', 'Manes.10G061500' => 'mes', 'Manes.10G123200' => 'mes', 'Manes.11G161900' => 'mes', 'Manes.15G029300' => 'mes', 'Mapoly0071s0018' => 'mpo', 'Mapoly0082s0023' => 'mpo', 'Mapoly3477s0001' => 'mpo', 'MBI05_g31233_MAGBIO' => 'mbi', 'MBI09_g05946_MAGBIO' => 'mbi', 'MBI09_g05947_MAGBIO' => 'mbi', 'MBI17_g08346_MAGBIO' => 'mbi', 'MCO04G038' => 'mco', 'MCO09G370' => 'mco', 'MCO13G605' => 'mco', 'MD00G1075500' => 'mdo', 'MD03G1144300' => 'mdo', 'MD08G1236800' => 'mdo', 'MD13G1193300' => 'mdo', 'MD15G1428700' => 'mdo', 'Medtr1g112030' => 'mtr', 'Medtr1g112050' => 'mtr', 'Medtr2g006290' => 'mtr', 'Medtr2g086510' => 'mtr', 'Medtr4g053120' => 'mtr', 'Medtr5g006320' => 'mtr', 'Medtr8g088720' => 'mtr', 'MELO3C004712.2' => 'cme', 'MELO3C006533.2' => 'cme', 'MELO3C019438.2' => 'cme', 'MELO3C019440.2' => 'cme', 'MELO3C019441.2' => 'cme', 'MELO3C019895.2' => 'cme', 'Migut.B00811' => 'egut', 'Migut.D02447' => 'egut', 'Migut.F00875' => 'egut', 'Migut.N00186' => 'egut', 'Migut.N01051' => 'egut', 'Migut.N02491' => 'egut', 'Migut.O00784' => 'egut', 'MSTRG.12367' => 'ama', 'MSTRG.18756' => 'ama', 'MSTRG.21042' => 'ama', 'Nitab4.5_0000559g0040' => 'nta', 'Nitab4.5_0000667g0190' => 'nta', 'Nitab4.5_0000755g0160' => 'nta', 'Nitab4.5_0001216g0080' => 'nta', 'Nitab4.5_0004069g0040' => 'nta', 'Nitab4.5_0004129g0010' => 'nta', 'Nitab4.5_0005744g0030' => 'nta', 'Nitab4.5_0006996g0030' => 'nta', 'Nitab4.5_0008971g0040' => 'nta', 'Nitab4.5_0009769g0020' => 'nta', 'Nitab4.5_0009833g0010' => 'nta', 'Nitab4.5_0013140g0020' => 'nta', 'Nn003s41376' => 'nnu', 'Nn1g01857' => 'nnu', 'Nn1g03611' => 'nnu', 'Nn1g06853' => 'nnu', 'Nn3g18360' => 'nnu', 'Nn4g26328' => 'nnu', 'Nn5g27531' => 'nnu', 'Nn6g34899' => 'nnu', 'Nn7g36299' => 'nnu', 'Oeu021485.1' => 'oeu', 'Oeu022433.1' => 'oeu', 'Oeu032111.1' => 'oeu', 'Oeu051608.1' => 'oeu', 'Os01g0860601' => 'osa', 'Os03g0659200' => 'osa', 'Os03g0835900' => 'osa', 'Os04g0412200' => 'osa', 'Os05g0443500' => 'osa', 'Os07g0251500' => 'osa', 'Os08g0104600' => 'osa', 'Peaxi162Scf00003g00047' => 'pax', 'Peaxi162Scf00003g00052' => 'pax', 'Peaxi162Scf00003g00394' => 'pax', 'Peaxi162Scf00091g00621' => 'pax', 'Peaxi162Scf00152g00146' => 'pax', 'Peaxi162Scf00173g00025' => 'pax', 'Peaxi162Scf00195g00102' => 'pax', 'Peaxi162Scf00402g00013' => 'pax', 'Peaxi162Scf00519g00618' => 'pax', 'PGR004G2838' => 'pgr', 'PGR044G2275' => 'pgr', 'PGR102G1377' => 'pgr', 'PGR119G1245' => 'pgr', 'PGR142G4449' => 'pgr', 'PGSC0003DMG400004532' => 'stu', 'PGSC0003DMG400011950' => 'stu', 'PGSC0003DMG400023391' => 'stu', 'PGSC0003DMG400023985' => 'stu', 'PGSC0003DMG400026360' => 'stu', 'PGSC0003DMG400035711' => 'stu', 'PGSC0003DMG400037286' => 'stu', 'PGSC0003DMG402005881' => 'stu', 'Phvul.002G045400' => 'pvu', 'Phvul.006G216600' => 'pvu', 'Phvul.006G216700' => 'pvu', 'Phvul.006G216800' => 'pvu', 'Phvul.007G022500' => 'pvu', 'Phvul.011G094400' => 'pvu', 'Potri.001G470700' => 'ptr', 'Potri.003G015200' => 'ptr', 'Potri.004G202500' => 'ptr', 'Potri.004G218400' => 'ptr', 'Potri.008G020100' => 'ptr', 'Potri.008G153200' => 'ptr', 'Potri.009G163800' => 'ptr', 'Potri.010G087300' => 'ptr', 'Potri.010G239100' => 'ptr', 'Pp3c10_16100' => 'ppa', 'Pp3c10_16880' => 'ppa', 'Pp3c16_6230' => 'ppa', 'Pp3c17_18910' => 'ppa', 'Pp3c3_22119' => 'ppa', 'Pp3c3_22140' => 'ppa', 'Pp3c4_8159' => 'ppa', 'Pp3c4_8171' => 'ppa', 'Pp3c4_8330' => 'ppa', 'PRCOL_00004098' => 'pco', 'Prupe.1G013900' => 'ppe', 'Prupe.1G226300' => 'ppe', 'Prupe.1G573600' => 'ppe', 'Prupe.6G130100' => 'ppe', 'Psat3g090040' => 'psa', 'Psat4g210440' => 'psa', 'Psat6g231040' => 'psa', 'Psat6g231080' => 'psa', 'Psat7g063000' => 'psa', 'Psat7g188000' => 'psa', 'Psat7g188040' => 'psa', 'PSO017G0206' => 'pso', 'PSO170G0501' => 'pso', 'PSO170G6422' => 'pso', 'PSO210G7739' => 'pso', 'PSO339G1808' => 'pso', 'PSO339G6135' => 'pso', 'PSO384G0010' => 'pso', 'PSO384G0964' => 'pso', 'PSO761G0050' => 'pso', 'PSO782G4085' => 'pso', 'QL01p012264' => 'qlo', 'QL02p099491' => 'qlo', 'QL03p033868' => 'qlo', 'QL04p046678' => 'qlo', 'QL06p002448' => 'qlo', 'RcHm_v2.0_Chr4g0416181' => 'rch', 'RcHm_v2.0_Chr5g0044701' => 'rch', 'RcHm_v2.0_Chr6g0265781' => 'rch', 'RcHm_v2.0_Chr7g0221031' => 'rch', 'Rhsim04G0202000' => 'rsi', 'Rhsim11G0127300' => 'rsi', 'Rhsim13G0111800' => 'rsi', 'Sabra01G0165600' => 'sbr', 'Sabra03G0008300' => 'sbr', 'Sabra04G0136900' => 'sbr', 'Sabra08G0013400' => 'sbr', 'Sabra08G0116800' => 'sbr', 'Sabra09G0128000' => 'sbr', 'Sabra10G0055500' => 'sbr', 'Sabra10G0073300' => 'sbr', 'SalBow3G0385' => 'sbo', 'SalBow3G1119' => 'sbo', 'SalBow3G2005' => 'sbo', 'SalBow6G2563' => 'sbo', 'SalBow6G6386' => 'sbo', 'Sc06g0008800' => 'sci', 'Sc07g0004950' => 'sci', 'Sc09g0005340' => 'sci', 'Sc13g0004410' => 'sci', 'Sc21g0007090' => 'sci', 'Sed0009285' => 'sed', 'Sed0017583' => 'sed', 'Sed0019699' => 'sed', 'Sed0023107' => 'sed', 'SEGI_10916' => 'sgi', 'SEGI_16217' => 'sgi', 'SEGI_19466' => 'sgi', 'SEGI_41115' => 'sgi', 'SGA_v2.0_scaffold111G31534' => 'sas', 'SGA_v2.0_scaffold22G09864' => 'sas', 'SGA_v2.0_scaffold338G49219' => 'sas', 'SGA_v2.0_scaffold92G28298' => 'sas', 'SMO119G0064' => 'smo', 'SMO223G0038' => 'smo', 'SMO347G0584' => 'smo', 'SMO351G0010' => 'smo', 'SMO356G0404' => 'smo', 'Solyc01g103920.3' => 'sly', 'Solyc04g009710.2' => 'sly', 'Solyc05g055280.2' => 'sly', 'Solyc10g044520.3' => 'sly', 'Solyc10g075160.1' => 'sly', 'Solyc11g006910.3' => 'sly', 'Solyc11g068430.3' => 'sly', 'Sopen01g046310' => 'spe', 'Sopen03g001200' => 'spe', 'Sopen04g004830' => 'spe', 'Sopen05g033720' => 'spe', 'Sopen06g030740' => 'spe', 'Sopen10g013090' => 'spe', 'Sopen10g027630' => 'spe', 'Sopen10g027640' => 'spe', 'Sopen11g002820' => 'spe', 'Sopen11g027140' => 'spe', 'Sp1g09680' => 'spa', 'Sp2g03630' => 'spa', 'Sp4g10320' => 'spa', 'Sp6g33400' => 'spa', 'Sp7g13030' => 'spa', 'TAR365G0317' => 'tar', 'TAR376G0979' => 'tar', 'TAR623G1665' => 'tar', 'TAR633G2373' => 'tar', 'TAR636G1400' => 'tar', 'THA.LOC104800529' => 'tha', 'THA.LOC104808547' => 'tha', 'THA.LOC104809615' => 'tha', 'THA.LOC104815724' => 'tha', 'THA.LOC104818480' => 'tha', 'THA.LOC104819179' => 'tha', 'THA.LOC104822270' => 'tha', 'THA.LOC104826425' => 'tha', 'Thecc.02G089700' => 'tca', 'Thecc.04G232300' => 'tca', 'Thecc.09G283400' => 'tca', 'Thhalv10009020m.g' => 'esa', 'Thhalv10015506m.g' => 'esa', 'Thhalv10017364m.g' => 'esa', 'Thhalv10023742m.g' => 'esa', 'Thhalv10026483m.g' => 'esa', 'TPR.G17232' => 'tpr', 'TPR.G2133' => 'tpr', 'TPR.G2498' => 'tpr', 'TPR.G31942' => 'tpr', 'TPR.G37877' => 'tpr', 'TPR.G4571' => 'tpr', 'TWI14G1113' => 'twi', 'TWI15G0426' => 'twi', 'TWI31G1005' => 'twi', 'TWI38G0513' => 'twi', 'TWI38G1484' => 'twi', 'TWI73G1098' => 'twi', 'unitig_26.g10519' => 'ugi', 'unitig_736.g22395' => 'ugi', 'unitig_747.g21234' => 'ugi', 'unitig_747.g21942' => 'ugi', 'vmacro14351' => 'vma', 'VMungo0540G0082' => 'vmu', 'VMungo0540G0405' => 'vmu', 'VMungo0540G1486' => 'vmu', 'VMungo0540G1692' => 'vmu', 'VMungo0720G2473' => 'vmu', 'VMungo1127G1562' => 'vmu', 'VMungo1215G1918' => 'vmu', 'Zm00001eb052650' => 'zma', 'Zm00001eb063710' => 'zma', 'Zm00001eb083950' => 'zma', 'Zm00001eb174420' => 'zma', 'Zm00001eb260140' => 'zma', 'Zm00001eb260150' => 'zma', 'Zm00001eb260160' => 'zma', 'Zm00001eb348290' => 'zma', 'Zm00001eb366870' => 'zma', 'Zm00001eb421930' => 'zma' ) $gf_id = 'HOM05D001025' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001025' ) $data_identifier = 'HOM05D001025' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 19, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 2, 'amhyb' => (int) 4, 'aly' => (int) 4, 'aox' => (int) 4, 'arhy' => (int) 3, 'ath' => (int) 5, 'atr' => (int) 4, 'acertr' => (int) 3, 'cqu' => (int) 7, 'bca' => (int) 17, 'bol' => (int) 10, 'bra' => (int) 9, 'can' => (int) 10, 'cansat' => (int) 6, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 5, 'cbr' => (int) 5, 'ccan' => (int) 5, 'cde' => (int) 4, 'cfa' => (int) 3, 'ccl' => (int) 6, 'cil' => (int) 4, 'cla' => (int) 3, 'col' => (int) 3, 'cpa' => (int) 3, 'cre' => (int) 7, 'csa' => (int) 5, 'camsi' => (int) 9, 'dca' => (int) 4, 'din' => (int) 5, 'dzi' => (int) 7, 'eca' => (int) 6, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 12, 'fve' => (int) 4, 'gma' => (int) 12, 'ghi' => (int) 17, 'gra' => (int) 9, 'vvi' => (int) 2, 'han' => (int) 8, 'cav' => (int) 5, 'hma' => (int) 9, 'vpl' => (int) 4, 'sun' => (int) 2, 'lal' => (int) 9, 'lja' => (int) 5, 'lonja' => (int) 6, 'lsa' => (int) 3, 'mes' => (int) 8, 'mpo' => (int) 3, 'mbi' => (int) 4, 'mco' => (int) 3, 'mdo' => (int) 5, 'mtr' => (int) 7, 'cme' => (int) 6, 'egut' => (int) 7, 'ama' => (int) 3, 'nta' => (int) 12, 'nnu' => (int) 9, 'oeu' => (int) 4, 'osa' => (int) 7, 'pax' => (int) 9, 'pgr' => (int) 5, 'stu' => (int) 8, 'pvu' => (int) 6, 'ptr' => (int) 9, 'ppa' => (int) 9, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 7, 'pso' => (int) 10, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 3, 'sbr' => (int) 8, 'sbo' => (int) 5, 'sci' => (int) 5, 'sed' => (int) 4, 'sgi' => (int) 4, 'sas' => (int) 4, 'smo' => (int) 5, 'sly' => (int) 7, 'spe' => (int) 10, 'spa' => (int) 5, 'tar' => (int) 5, 'tha' => (int) 8, 'tca' => (int) 3, 'esa' => (int) 5, 'tpr' => (int) 6, 'twi' => (int) 6, 'ugi' => (int) 4, 'vma' => (int) 1, 'vmu' => (int) 7, 'zma' => (int) 10 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb421930' $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' => 'HOM05D001025', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '592', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p22650' => 'bna', 'A01p29720' => 'bna', 'A03p26560' => 'bna', 'A03p68820' => 'bna', 'A04p20980' => 'bna', 'A06p07730' => 'bna', 'A07p18260' => 'bna', 'A08p33710' => 'bna', 'A09p16970' => 'bna', 'A10p27490' => 'bna', 'Aa31LG1G17300' => 'aar', 'Aa31LG1G3910' => 'aar', 'Aa31LG2G9630' => 'aar', 'Aa31LG5G8360' => 'aar', 'Aa31LG9G2410' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4699' => 'aag', 'Actinidia23512' => 'ach', 'Actinidia37080' => 'ach', 'Ah.01g020380' => 'amhyb', 'Ah.08g215710' => 'amhyb', 'Ah.09g225110' => 'amhyb', 'Ah.10g036680' => 'amhyb', 'AL1G21940' => 'aly', 'AL2G15540' => 'aly', 'AL4G21520' => 'aly', 'AL7G40960' => 'aly', 'Aqoxy2G01191' => 'aox', 'Aqoxy2G03393' => 'aox', 'Aqoxy4G02775' => 'aox', 'Aqoxy6G00058' => 'aox', 'arahy.Tifrunner.gnm1.ann1.9X74H2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CW3FX9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R485W7' => 'arhy', 'AT1G10960' => 'ath', 'AT1G60950' => 'ath', 'AT2G27510' => 'ath', 'AT4G14890' => 'ath', 'AT5G10000' => 'ath', 'ATR0665G624' => 'atr', 'ATR0697G138' => 'atr', 'ATR0776G046' => 'atr', 'ATR1134G135' => 'atr', 'Atru.chr12.1025' => 'acertr', 'Atru.chr3.3241' => 'acertr', 'Atru.chr4.2460' => 'acertr', 'AUR62007427' => 'cqu', 'AUR62010960' => 'cqu', 'AUR62012201' => 'cqu', 'AUR62021470' => 'cqu', 'AUR62022834' => 'cqu', 'AUR62033635' => 'cqu', 'AUR62036186' => 'cqu', 'BcaB01g03077' => 'bca', 'BcaB02g10093' => 'bca', 'BcaB04g20295' => 'bca', 'BcaB06g28147' => 'bca', 'BcaB07g31253' => 'bca', 'BcaC01g04946' => 'bca', 'BcaC02g10614' => 'bca', 'BcaC02g10885' => 'bca', 'BcaC04g19356' => 'bca', 'BcaC04g22297' => 'bca', 'BcaC05g24977' => 'bca', 'BcaC06g31823' => 'bca', 'BcaC07g38633' => 'bca', 'BcaC09g49353' => 'bca', 'BcaC09g50168' => 'bca', 'BcaNung00322' => 'bca', 'BcaNung04769' => 'bca', 'BolC1t02753H' => 'bol', 'BolC1t03721H' => 'bol', 'BolC3t15525H' => 'bol', 'BolC4t23903H' => 'bol', 'BolC4t24231H' => 'bol', 'BolC4t27209H' => 'bol', 'BolC5t29671H' => 'bol', 'BolC8t49044H' => 'bol', 'BolC9t54999H' => 'bol', 'BolC9t59517H' => 'bol', 'BraA01t02178Z' => 'bra', 'BraA01t03099Z' => 'bra', 'BraA03t11867Z' => 'bra', 'BraA04t17667Z' => 'bra', 'BraA07t29542Z' => 'bra', 'BraA08t35287Z' => 'bra', 'BraA09t37334Z' => 'bra', 'BraA10t44801Z' => 'bra', 'BraSC39t46181Z' => 'bra', 'C01p28240' => 'bna', 'C01p37530' => 'bna', 'C03p31820' => 'bna', 'C04p24080' => 'bna', 'C04p25790' => 'bna', 'C04p56770' => 'bna', 'C05p09310' => 'bna', 'C09p21010' => 'bna', 'C09p67560' => 'bna', 'CAN.G1324.7' => 'can', 'CAN.G1358.10' => 'can', 'CAN.G1550.2' => 'can', 'CAN.G186.56' => 'can', 'CAN.G1965.1' => 'can', 'CAN.G645.15' => 'can', 'CAN.G798.26' => 'can', 'CAN.G798.27' => 'can', 'CAN.G798.29' => 'can', 'CAN.G919.31' => 'can', 'CANSAT11G0133' => 'cansat', 'CANSAT11G1171' => 'cansat', 'CANSAT11G2056' => 'cansat', 'CANSAT56G1202' => 'cansat', 'CANSAT56G1514' => 'cansat', 'CANSAT78G0455' => 'cansat', 'CARHR011190' => 'chi', 'CARHR051980' => 'chi', 'CARHR120170' => 'chi', 'CARHR203310' => 'chi', 'CARHR221490' => 'chi', 'Carub.0001s1054' => 'cru', 'Carub.0002s0431' => 'cru', 'Carub.0004s0818' => 'cru', 'Carub.0006s0846' => 'cru', 'Carub.0007s2722' => 'cru', 'Ca_00058_v3' => 'car', 'Ca_17831_v3' => 'car', 'Ca_19408_v3' => 'car', 'Ca_24397_v3' => 'car', 'Ca_25664_v3' => 'car', 'CBR_g21818' => 'cbr', 'CBR_g31195' => 'cbr', 'CBR_g32282' => 'cbr', 'CBR_g39599' => 'cbr', 'CBR_g49410' => 'cbr', 'Cc01_g09120' => 'ccan', 'Cc01_g09130' => 'ccan', 'Cc02_g09630' => 'ccan', 'Cc02_g22810' => 'ccan', 'Cc03_g03810' => 'ccan', 'CDE02G3718' => 'cde', 'CDE04G3183' => 'cde', 'CDE07G1046' => 'cde', 'CDE08G0480' => 'cde', 'Cfa005493' => 'cfa', 'Cfa010312' => 'cfa', 'Cfa015648' => 'cfa', 'Ciclev10002793m.g' => 'ccl', 'Ciclev10003356m.g' => 'ccl', 'Ciclev10006141m.g' => 'ccl', 'Ciclev10016676m.g' => 'ccl', 'Ciclev10017081m.g' => 'ccl', 'Ciclev10029499m.g' => 'ccl', 'CiPaw.01G166300' => 'cil', 'CiPaw.06G145600' => 'cil', 'CiPaw.13G040100' => 'cil', 'CiPaw.13G135800' => 'cil', 'ClCG01G012230' => 'cla', 'ClCG05G009510' => 'cla', 'ClCG08G008270' => 'cla', 'COL.COLO4_11763' => 'col', 'COL.COLO4_19876' => 'col', 'COL.COLO4_21481' => 'col', 'Cpa.g.sc118.34' => 'cpa', 'Cpa.g.sc32.13' => 'cpa', 'Cpa.g.sc58.103' => 'cpa', 'Cre03.g183850' => 'cre', 'Cre06.g306350' => 'cre', 'Cre07.g334800' => 'cre', 'Cre12.g487900' => 'cre', 'Cre14.g626700' => 'cre', 'Cre16.g658400' => 'cre', 'Cre17.g700950' => 'cre', 'CsaV3_1G014830' => 'csa', 'CsaV3_3G013320' => 'csa', 'CsaV3_3G019210' => 'csa', 'CsaV3_3G019220' => 'csa', 'CsaV3_6G004230' => 'csa', 'CSS0003773' => 'camsi', 'CSS0004563' => 'camsi', 'CSS0013949' => 'camsi', 'CSS0025971' => 'camsi', 'CSS0028570' => 'camsi', 'CSS0033127' => 'camsi', 'CSS0036051' => 'camsi', 'CSS0040087' => 'camsi', 'CSS0043179' => 'camsi', 'DCAR_006161' => 'dca', 'DCAR_010351' => 'dca', 'DCAR_012197' => 'dca', 'DCAR_024162' => 'dca', 'Dinv01030' => 'din', 'Dinv10924' => 'din', 'Dinv11835' => 'din', 'Dinv22841' => 'din', 'Dinv42553' => 'din', 'Duzib052G0560' => 'dzi', 'Duzib132G0389' => 'dzi', 'Duzib150G1181' => 'dzi', 'Duzib168G0623' => 'dzi', 'Duzib170G1036' => 'dzi', 'Duzib212G0200' => 'dzi', 'Duzib248G0194' => 'dzi', 'ECA232G2193' => 'eca', 'ECA233G0302' => 'eca', 'ECA234G2813' => 'eca', 'ECA234G4866' => 'eca', 'ECA240G3932' => 'eca', 'ECA248G0385' => 'eca', 'EL10Ac2g04781' => 'bvu', 'EL10Ac3g06445' => 'bvu', 'EL10Ac7g15825' => 'bvu', 'EL10Ac8g18550' => 'bvu', 'Eucgr.B03849' => 'egr', 'Eucgr.I02744' => 'egr', 'Eucgr.J00264' => 'egr', 'Eucgr.J00493' => 'egr', 'FAN04G2181' => 'fan', 'FAN07G2666' => 'fan', 'FAN11G0024' => 'fan', 'FAN12G1105' => 'fan', 'FAN13G0302' => 'fan', 'FAN15G2781' => 'fan', 'FAN16G1274' => 'fan', 'FAN17G2988' => 'fan', 'FAN18G2621' => 'fan', 'FAN21G0013' => 'fan', 'FAN22G1211' => 'fan', 'FAN25G3626' => 'fan', 'FvH4_2g09491' => 'fve', 'FvH4_3g24910' => 'fve', 'FvH4_4g15630' => 'fve', 'FvH4_5g28820' => 'fve', 'Glyma.01G238000' => 'gma', 'Glyma.05G168400' => 'gma', 'Glyma.08G126800' => 'gma', 'Glyma.08G188500' => 'gma', 'Glyma.10G278900' => 'gma', 'Glyma.11G005700' => 'gma', 'Glyma.11G183300' => 'gma', 'Glyma.12G089200' => 'gma', 'Glyma.12G169400' => 'gma', 'Glyma.12G169500' => 'gma', 'Glyma.12G169600' => 'gma', 'Glyma.20G110800' => 'gma', 'Gohir.A03G192900' => 'ghi', 'Gohir.A03G193000' => 'ghi', 'Gohir.A05G080700' => 'ghi', 'Gohir.A09G216000' => 'ghi', 'Gohir.A12G027700' => 'ghi', 'Gohir.A13G036200' => 'ghi', 'Gohir.A13G222600' => 'ghi', 'Gohir.D02G213900' => 'ghi', 'Gohir.D02G214000' => 'ghi', 'Gohir.D05G083700' => 'ghi', 'Gohir.D05G083800' => 'ghi', 'Gohir.D05G083850' => 'ghi', 'Gohir.D08G015400' => 'ghi', 'Gohir.D09G218400' => 'ghi', 'Gohir.D12G027100' => 'ghi', 'Gohir.D13G034500' => 'ghi', 'Gohir.D13G227400' => 'ghi', 'Gorai.005G241800' => 'gra', 'Gorai.005G241900' => 'gra', 'Gorai.006G239400' => 'gra', 'Gorai.008G027600' => 'gra', 'Gorai.009G085400' => 'gra', 'Gorai.009G085500' => 'gra', 'Gorai.013G039000' => 'gra', 'Gorai.013G194800' => 'gra', 'Gorai.013G257900' => 'gra', 'GSVIVG01000982001' => 'vvi', 'GSVIVG01017981001' => 'vvi', 'HanXRQChr01g0024061' => 'han', 'HanXRQChr09g0247831' => 'han', 'HanXRQChr10g0294611' => 'han', 'HanXRQChr10g0294621' => 'han', 'HanXRQChr11g0346821' => 'han', 'HanXRQChr13g0397461' => 'han', 'HanXRQChr16g0513651' => 'han', 'HanXRQChr16g0513701' => 'han', 'Haze_00897' => 'cav', 'Haze_01745' => 'cav', 'Haze_02486' => 'cav', 'Haze_02487' => 'cav', 'Haze_23374' => 'cav', 'Hma1.2p1_0578F.1_g182520' => 'hma', 'Hma1.2p1_0602F.1_g187350' => 'hma', 'Hma1.2p1_0602F.1_g187360' => 'hma', 'Hma1.2p1_0874F.1_g231320' => 'hma', 'Hma1.2p1_1197F.1_g266210' => 'hma', 'Hma1.2p1_1197F.1_g266220' => 'hma', 'Hma1.2p1_2167F.1_g315895' => 'hma', 'Hma1.2p1_2190F.1_g316640' => 'hma', 'Hma1.2p1_3645F.1_g337153' => 'hma', 'HPP92_004907' => 'vpl', 'HPP92_012134' => 'vpl', 'HPP92_025136' => 'vpl', 'HPP92_026087' => 'vpl', 'Hund06782' => 'sun', 'Hund06784' => 'sun', 'Lalb_Chr01g0004861' => 'lal', 'Lalb_Chr02g0140591' => 'lal', 'Lalb_Chr02g0140611' => 'lal', 'Lalb_Chr03g0028101' => 'lal', 'Lalb_Chr07g0185791' => 'lal', 'Lalb_Chr12g0204491' => 'lal', 'Lalb_Chr13g0295671' => 'lal', 'Lalb_Chr19g0136461' => 'lal', 'Lalb_Chr21g0309191' => 'lal', 'Lj1g0028158' => 'lja', 'Lj1P236T38' => 'lonja', 'Lj2C32G2' => 'lonja', 'Lj2P944T8' => 'lonja', 'Lj2P963T15' => 'lonja', 'Lj3g0011788' => 'lja', 'Lj4g0025027' => 'lja', 'Lj5P255T36' => 'lonja', 'Lj6g0018866' => 'lja', 'Lj6P608T31' => 'lonja', 'LjContig00408g0008879' => 'lja', 'Lsat_1_v5_gn_5_105820' => 'lsa', 'Lsat_1_v5_gn_6_38800' => 'lsa', 'Lsat_1_v5_gn_7_67141' => 'lsa', 'Manes.04G003400' => 'mes', 'Manes.07G020000' => 'mes', 'Manes.07G020100' => 'mes', 'Manes.07G020150' => 'mes', 'Manes.10G061500' => 'mes', 'Manes.10G123200' => 'mes', 'Manes.11G161900' => 'mes', 'Manes.15G029300' => 'mes', 'Mapoly0071s0018' => 'mpo', 'Mapoly0082s0023' => 'mpo', 'Mapoly3477s0001' => 'mpo', 'MBI05_g31233_MAGBIO' => 'mbi', 'MBI09_g05946_MAGBIO' => 'mbi', 'MBI09_g05947_MAGBIO' => 'mbi', 'MBI17_g08346_MAGBIO' => 'mbi', 'MCO04G038' => 'mco', 'MCO09G370' => 'mco', 'MCO13G605' => 'mco', 'MD00G1075500' => 'mdo', 'MD03G1144300' => 'mdo', 'MD08G1236800' => 'mdo', 'MD13G1193300' => 'mdo', 'MD15G1428700' => 'mdo', 'Medtr1g112030' => 'mtr', 'Medtr1g112050' => 'mtr', 'Medtr2g006290' => 'mtr', 'Medtr2g086510' => 'mtr', 'Medtr4g053120' => 'mtr', 'Medtr5g006320' => 'mtr', 'Medtr8g088720' => 'mtr', 'MELO3C004712.2' => 'cme', 'MELO3C006533.2' => 'cme', 'MELO3C019438.2' => 'cme', 'MELO3C019440.2' => 'cme', 'MELO3C019441.2' => 'cme', 'MELO3C019895.2' => 'cme', 'Migut.B00811' => 'egut', 'Migut.D02447' => 'egut', 'Migut.F00875' => 'egut', 'Migut.N00186' => 'egut', 'Migut.N01051' => 'egut', 'Migut.N02491' => 'egut', 'Migut.O00784' => 'egut', 'MSTRG.12367' => 'ama', 'MSTRG.18756' => 'ama', 'MSTRG.21042' => 'ama', 'Nitab4.5_0000559g0040' => 'nta', 'Nitab4.5_0000667g0190' => 'nta', 'Nitab4.5_0000755g0160' => 'nta', 'Nitab4.5_0001216g0080' => 'nta', 'Nitab4.5_0004069g0040' => 'nta', 'Nitab4.5_0004129g0010' => 'nta', 'Nitab4.5_0005744g0030' => 'nta', 'Nitab4.5_0006996g0030' => 'nta', 'Nitab4.5_0008971g0040' => 'nta', 'Nitab4.5_0009769g0020' => 'nta', 'Nitab4.5_0009833g0010' => 'nta', 'Nitab4.5_0013140g0020' => 'nta', 'Nn003s41376' => 'nnu', 'Nn1g01857' => 'nnu', 'Nn1g03611' => 'nnu', 'Nn1g06853' => 'nnu', 'Nn3g18360' => 'nnu', 'Nn4g26328' => 'nnu', 'Nn5g27531' => 'nnu', 'Nn6g34899' => 'nnu', 'Nn7g36299' => 'nnu', 'Oeu021485.1' => 'oeu', 'Oeu022433.1' => 'oeu', 'Oeu032111.1' => 'oeu', 'Oeu051608.1' => 'oeu', 'Os01g0860601' => 'osa', 'Os03g0659200' => 'osa', 'Os03g0835900' => 'osa', 'Os04g0412200' => 'osa', 'Os05g0443500' => 'osa', 'Os07g0251500' => 'osa', 'Os08g0104600' => 'osa', 'Peaxi162Scf00003g00047' => 'pax', 'Peaxi162Scf00003g00052' => 'pax', 'Peaxi162Scf00003g00394' => 'pax', 'Peaxi162Scf00091g00621' => 'pax', 'Peaxi162Scf00152g00146' => 'pax', 'Peaxi162Scf00173g00025' => 'pax', 'Peaxi162Scf00195g00102' => 'pax', 'Peaxi162Scf00402g00013' => 'pax', 'Peaxi162Scf00519g00618' => 'pax', 'PGR004G2838' => 'pgr', 'PGR044G2275' => 'pgr', 'PGR102G1377' => 'pgr', 'PGR119G1245' => 'pgr', 'PGR142G4449' => 'pgr', 'PGSC0003DMG400004532' => 'stu', 'PGSC0003DMG400011950' => 'stu', 'PGSC0003DMG400023391' => 'stu', 'PGSC0003DMG400023985' => 'stu', 'PGSC0003DMG400026360' => 'stu', 'PGSC0003DMG400035711' => 'stu', 'PGSC0003DMG400037286' => 'stu', 'PGSC0003DMG402005881' => 'stu', 'Phvul.002G045400' => 'pvu', 'Phvul.006G216600' => 'pvu', 'Phvul.006G216700' => 'pvu', 'Phvul.006G216800' => 'pvu', 'Phvul.007G022500' => 'pvu', 'Phvul.011G094400' => 'pvu', 'Potri.001G470700' => 'ptr', 'Potri.003G015200' => 'ptr', 'Potri.004G202500' => 'ptr', 'Potri.004G218400' => 'ptr', 'Potri.008G020100' => 'ptr', 'Potri.008G153200' => 'ptr', 'Potri.009G163800' => 'ptr', 'Potri.010G087300' => 'ptr', 'Potri.010G239100' => 'ptr', 'Pp3c10_16100' => 'ppa', 'Pp3c10_16880' => 'ppa', 'Pp3c16_6230' => 'ppa', 'Pp3c17_18910' => 'ppa', 'Pp3c3_22119' => 'ppa', 'Pp3c3_22140' => 'ppa', 'Pp3c4_8159' => 'ppa', 'Pp3c4_8171' => 'ppa', 'Pp3c4_8330' => 'ppa', 'PRCOL_00004098' => 'pco', 'Prupe.1G013900' => 'ppe', 'Prupe.1G226300' => 'ppe', 'Prupe.1G573600' => 'ppe', 'Prupe.6G130100' => 'ppe', 'Psat3g090040' => 'psa', 'Psat4g210440' => 'psa', 'Psat6g231040' => 'psa', 'Psat6g231080' => 'psa', 'Psat7g063000' => 'psa', 'Psat7g188000' => 'psa', 'Psat7g188040' => 'psa', 'PSO017G0206' => 'pso', 'PSO170G0501' => 'pso', 'PSO170G6422' => 'pso', 'PSO210G7739' => 'pso', 'PSO339G1808' => 'pso', 'PSO339G6135' => 'pso', 'PSO384G0010' => 'pso', 'PSO384G0964' => 'pso', 'PSO761G0050' => 'pso', 'PSO782G4085' => 'pso', 'QL01p012264' => 'qlo', 'QL02p099491' => 'qlo', 'QL03p033868' => 'qlo', 'QL04p046678' => 'qlo', 'QL06p002448' => 'qlo', 'RcHm_v2.0_Chr4g0416181' => 'rch', 'RcHm_v2.0_Chr5g0044701' => 'rch', 'RcHm_v2.0_Chr6g0265781' => 'rch', 'RcHm_v2.0_Chr7g0221031' => 'rch', 'Rhsim04G0202000' => 'rsi', 'Rhsim11G0127300' => 'rsi', 'Rhsim13G0111800' => 'rsi', 'Sabra01G0165600' => 'sbr', 'Sabra03G0008300' => 'sbr', 'Sabra04G0136900' => 'sbr', 'Sabra08G0013400' => 'sbr', 'Sabra08G0116800' => 'sbr', 'Sabra09G0128000' => 'sbr', 'Sabra10G0055500' => 'sbr', 'Sabra10G0073300' => 'sbr', 'SalBow3G0385' => 'sbo', 'SalBow3G1119' => 'sbo', 'SalBow3G2005' => 'sbo', 'SalBow6G2563' => 'sbo', 'SalBow6G6386' => 'sbo', 'Sc06g0008800' => 'sci', 'Sc07g0004950' => 'sci', 'Sc09g0005340' => 'sci', 'Sc13g0004410' => 'sci', 'Sc21g0007090' => 'sci', 'Sed0009285' => 'sed', 'Sed0017583' => 'sed', 'Sed0019699' => 'sed', 'Sed0023107' => 'sed', 'SEGI_10916' => 'sgi', 'SEGI_16217' => 'sgi', 'SEGI_19466' => 'sgi', 'SEGI_41115' => 'sgi', 'SGA_v2.0_scaffold111G31534' => 'sas', 'SGA_v2.0_scaffold22G09864' => 'sas', 'SGA_v2.0_scaffold338G49219' => 'sas', 'SGA_v2.0_scaffold92G28298' => 'sas', 'SMO119G0064' => 'smo', 'SMO223G0038' => 'smo', 'SMO347G0584' => 'smo', 'SMO351G0010' => 'smo', 'SMO356G0404' => 'smo', 'Solyc01g103920.3' => 'sly', 'Solyc04g009710.2' => 'sly', 'Solyc05g055280.2' => 'sly', 'Solyc10g044520.3' => 'sly', 'Solyc10g075160.1' => 'sly', 'Solyc11g006910.3' => 'sly', 'Solyc11g068430.3' => 'sly', 'Sopen01g046310' => 'spe', 'Sopen03g001200' => 'spe', 'Sopen04g004830' => 'spe', 'Sopen05g033720' => 'spe', 'Sopen06g030740' => 'spe', 'Sopen10g013090' => 'spe', 'Sopen10g027630' => 'spe', 'Sopen10g027640' => 'spe', 'Sopen11g002820' => 'spe', 'Sopen11g027140' => 'spe', 'Sp1g09680' => 'spa', 'Sp2g03630' => 'spa', 'Sp4g10320' => 'spa', 'Sp6g33400' => 'spa', 'Sp7g13030' => 'spa', 'TAR365G0317' => 'tar', 'TAR376G0979' => 'tar', 'TAR623G1665' => 'tar', 'TAR633G2373' => 'tar', 'TAR636G1400' => 'tar', 'THA.LOC104800529' => 'tha', 'THA.LOC104808547' => 'tha', 'THA.LOC104809615' => 'tha', 'THA.LOC104815724' => 'tha', 'THA.LOC104818480' => 'tha', 'THA.LOC104819179' => 'tha', 'THA.LOC104822270' => 'tha', 'THA.LOC104826425' => 'tha', 'Thecc.02G089700' => 'tca', 'Thecc.04G232300' => 'tca', 'Thecc.09G283400' => 'tca', 'Thhalv10009020m.g' => 'esa', 'Thhalv10015506m.g' => 'esa', 'Thhalv10017364m.g' => 'esa', 'Thhalv10023742m.g' => 'esa', 'Thhalv10026483m.g' => 'esa', 'TPR.G17232' => 'tpr', 'TPR.G2133' => 'tpr', 'TPR.G2498' => 'tpr', 'TPR.G31942' => 'tpr', 'TPR.G37877' => 'tpr', 'TPR.G4571' => 'tpr', 'TWI14G1113' => 'twi', 'TWI15G0426' => 'twi', 'TWI31G1005' => 'twi', 'TWI38G0513' => 'twi', 'TWI38G1484' => 'twi', 'TWI73G1098' => 'twi', 'unitig_26.g10519' => 'ugi', 'unitig_736.g22395' => 'ugi', 'unitig_747.g21234' => 'ugi', 'unitig_747.g21942' => 'ugi', 'vmacro14351' => 'vma', 'VMungo0540G0082' => 'vmu', 'VMungo0540G0405' => 'vmu', 'VMungo0540G1486' => 'vmu', 'VMungo0540G1692' => 'vmu', 'VMungo0720G2473' => 'vmu', 'VMungo1127G1562' => 'vmu', 'VMungo1215G1918' => 'vmu', 'Zm00001eb052650' => 'zma', 'Zm00001eb063710' => 'zma', 'Zm00001eb083950' => 'zma', 'Zm00001eb174420' => 'zma', 'Zm00001eb260140' => 'zma', 'Zm00001eb260150' => 'zma', 'Zm00001eb260160' => 'zma', 'Zm00001eb348290' => 'zma', 'Zm00001eb366870' => 'zma', 'Zm00001eb421930' => 'zma' ), 'gf_id' => 'HOM05D001025', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001025' ), 'data_identifier' => 'HOM05D001025', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001025', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '592', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p22650' => 'bna', 'A01p29720' => 'bna', 'A03p26560' => 'bna', 'A03p68820' => 'bna', 'A04p20980' => 'bna', 'A06p07730' => 'bna', 'A07p18260' => 'bna', 'A08p33710' => 'bna', 'A09p16970' => 'bna', 'A10p27490' => 'bna', 'Aa31LG1G17300' => 'aar', 'Aa31LG1G3910' => 'aar', 'Aa31LG2G9630' => 'aar', 'Aa31LG5G8360' => 'aar', 'Aa31LG9G2410' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4699' => 'aag', 'Actinidia23512' => 'ach', 'Actinidia37080' => 'ach', 'Ah.01g020380' => 'amhyb', 'Ah.08g215710' => 'amhyb', 'Ah.09g225110' => 'amhyb', 'Ah.10g036680' => 'amhyb', 'AL1G21940' => 'aly', 'AL2G15540' => 'aly', 'AL4G21520' => 'aly', 'AL7G40960' => 'aly', 'Aqoxy2G01191' => 'aox', 'Aqoxy2G03393' => 'aox', 'Aqoxy4G02775' => 'aox', 'Aqoxy6G00058' => 'aox', 'arahy.Tifrunner.gnm1.ann1.9X74H2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CW3FX9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R485W7' => 'arhy', 'AT1G10960' => 'ath', 'AT1G60950' => 'ath', 'AT2G27510' => 'ath', 'AT4G14890' => 'ath', 'AT5G10000' => 'ath', 'ATR0665G624' => 'atr', 'ATR0697G138' => 'atr', 'ATR0776G046' => 'atr', 'ATR1134G135' => 'atr', 'Atru.chr12.1025' => 'acertr', 'Atru.chr3.3241' => 'acertr', 'Atru.chr4.2460' => 'acertr', 'AUR62007427' => 'cqu', 'AUR62010960' => 'cqu', 'AUR62012201' => 'cqu', 'AUR62021470' => 'cqu', 'AUR62022834' => 'cqu', 'AUR62033635' => 'cqu', 'AUR62036186' => 'cqu', 'BcaB01g03077' => 'bca', 'BcaB02g10093' => 'bca', 'BcaB04g20295' => 'bca', 'BcaB06g28147' => 'bca', 'BcaB07g31253' => 'bca', 'BcaC01g04946' => 'bca', 'BcaC02g10614' => 'bca', 'BcaC02g10885' => 'bca', 'BcaC04g19356' => 'bca', 'BcaC04g22297' => 'bca', 'BcaC05g24977' => 'bca', 'BcaC06g31823' => 'bca', 'BcaC07g38633' => 'bca', 'BcaC09g49353' => 'bca', 'BcaC09g50168' => 'bca', 'BcaNung00322' => 'bca', 'BcaNung04769' => 'bca', 'BolC1t02753H' => 'bol', 'BolC1t03721H' => 'bol', 'BolC3t15525H' => 'bol', 'BolC4t23903H' => 'bol', 'BolC4t24231H' => 'bol', 'BolC4t27209H' => 'bol', 'BolC5t29671H' => 'bol', 'BolC8t49044H' => 'bol', 'BolC9t54999H' => 'bol', 'BolC9t59517H' => 'bol', 'BraA01t02178Z' => 'bra', 'BraA01t03099Z' => 'bra', 'BraA03t11867Z' => 'bra', 'BraA04t17667Z' => 'bra', 'BraA07t29542Z' => 'bra', 'BraA08t35287Z' => 'bra', 'BraA09t37334Z' => 'bra', 'BraA10t44801Z' => 'bra', 'BraSC39t46181Z' => 'bra', 'C01p28240' => 'bna', 'C01p37530' => 'bna', 'C03p31820' => 'bna', 'C04p24080' => 'bna', 'C04p25790' => 'bna', 'C04p56770' => 'bna', 'C05p09310' => 'bna', 'C09p21010' => 'bna', 'C09p67560' => 'bna', 'CAN.G1324.7' => 'can', 'CAN.G1358.10' => 'can', 'CAN.G1550.2' => 'can', 'CAN.G186.56' => 'can', 'CAN.G1965.1' => 'can', 'CAN.G645.15' => 'can', 'CAN.G798.26' => 'can', 'CAN.G798.27' => 'can', 'CAN.G798.29' => 'can', 'CAN.G919.31' => 'can', 'CANSAT11G0133' => 'cansat', 'CANSAT11G1171' => 'cansat', 'CANSAT11G2056' => 'cansat', 'CANSAT56G1202' => 'cansat', 'CANSAT56G1514' => 'cansat', 'CANSAT78G0455' => 'cansat', 'CARHR011190' => 'chi', 'CARHR051980' => 'chi', 'CARHR120170' => 'chi', 'CARHR203310' => 'chi', 'CARHR221490' => 'chi', 'Carub.0001s1054' => 'cru', 'Carub.0002s0431' => 'cru', 'Carub.0004s0818' => 'cru', 'Carub.0006s0846' => 'cru', 'Carub.0007s2722' => 'cru', 'Ca_00058_v3' => 'car', 'Ca_17831_v3' => 'car', 'Ca_19408_v3' => 'car', 'Ca_24397_v3' => 'car', 'Ca_25664_v3' => 'car', 'CBR_g21818' => 'cbr', 'CBR_g31195' => 'cbr', 'CBR_g32282' => 'cbr', 'CBR_g39599' => 'cbr', 'CBR_g49410' => 'cbr', 'Cc01_g09120' => 'ccan', 'Cc01_g09130' => 'ccan', 'Cc02_g09630' => 'ccan', 'Cc02_g22810' => 'ccan', 'Cc03_g03810' => 'ccan', 'CDE02G3718' => 'cde', 'CDE04G3183' => 'cde', 'CDE07G1046' => 'cde', 'CDE08G0480' => 'cde', 'Cfa005493' => 'cfa', 'Cfa010312' => 'cfa', 'Cfa015648' => 'cfa', 'Ciclev10002793m.g' => 'ccl', 'Ciclev10003356m.g' => 'ccl', 'Ciclev10006141m.g' => 'ccl', 'Ciclev10016676m.g' => 'ccl', 'Ciclev10017081m.g' => 'ccl', 'Ciclev10029499m.g' => 'ccl', 'CiPaw.01G166300' => 'cil', 'CiPaw.06G145600' => 'cil', 'CiPaw.13G040100' => 'cil', 'CiPaw.13G135800' => 'cil', 'ClCG01G012230' => 'cla', 'ClCG05G009510' => 'cla', 'ClCG08G008270' => 'cla', 'COL.COLO4_11763' => 'col', 'COL.COLO4_19876' => 'col', 'COL.COLO4_21481' => 'col', 'Cpa.g.sc118.34' => 'cpa', 'Cpa.g.sc32.13' => 'cpa', 'Cpa.g.sc58.103' => 'cpa', 'Cre03.g183850' => 'cre', 'Cre06.g306350' => 'cre', 'Cre07.g334800' => 'cre', 'Cre12.g487900' => 'cre', 'Cre14.g626700' => 'cre', 'Cre16.g658400' => 'cre', 'Cre17.g700950' => 'cre', 'CsaV3_1G014830' => 'csa', 'CsaV3_3G013320' => 'csa', 'CsaV3_3G019210' => 'csa', 'CsaV3_3G019220' => 'csa', 'CsaV3_6G004230' => 'csa', 'CSS0003773' => 'camsi', 'CSS0004563' => 'camsi', 'CSS0013949' => 'camsi', 'CSS0025971' => 'camsi', 'CSS0028570' => 'camsi', 'CSS0033127' => 'camsi', 'CSS0036051' => 'camsi', 'CSS0040087' => 'camsi', 'CSS0043179' => 'camsi', 'DCAR_006161' => 'dca', 'DCAR_010351' => 'dca', 'DCAR_012197' => 'dca', 'DCAR_024162' => 'dca', 'Dinv01030' => 'din', 'Dinv10924' => 'din', 'Dinv11835' => 'din', 'Dinv22841' => 'din', 'Dinv42553' => 'din', 'Duzib052G0560' => 'dzi', 'Duzib132G0389' => 'dzi', 'Duzib150G1181' => 'dzi', 'Duzib168G0623' => 'dzi', 'Duzib170G1036' => 'dzi', 'Duzib212G0200' => 'dzi', 'Duzib248G0194' => 'dzi', 'ECA232G2193' => 'eca', 'ECA233G0302' => 'eca', 'ECA234G2813' => 'eca', 'ECA234G4866' => 'eca', 'ECA240G3932' => 'eca', 'ECA248G0385' => 'eca', 'EL10Ac2g04781' => 'bvu', 'EL10Ac3g06445' => 'bvu', 'EL10Ac7g15825' => 'bvu', 'EL10Ac8g18550' => 'bvu', 'Eucgr.B03849' => 'egr', 'Eucgr.I02744' => 'egr', 'Eucgr.J00264' => 'egr', 'Eucgr.J00493' => 'egr', 'FAN04G2181' => 'fan', 'FAN07G2666' => 'fan', 'FAN11G0024' => 'fan', 'FAN12G1105' => 'fan', 'FAN13G0302' => 'fan', 'FAN15G2781' => 'fan', 'FAN16G1274' => 'fan', 'FAN17G2988' => 'fan', 'FAN18G2621' => 'fan', 'FAN21G0013' => 'fan', 'FAN22G1211' => 'fan', 'FAN25G3626' => 'fan', 'FvH4_2g09491' => 'fve', 'FvH4_3g24910' => 'fve', 'FvH4_4g15630' => 'fve', 'FvH4_5g28820' => 'fve', 'Glyma.01G238000' => 'gma', 'Glyma.05G168400' => 'gma', 'Glyma.08G126800' => 'gma', 'Glyma.08G188500' => 'gma', 'Glyma.10G278900' => 'gma', 'Glyma.11G005700' => 'gma', 'Glyma.11G183300' => 'gma', 'Glyma.12G089200' => 'gma', 'Glyma.12G169400' => 'gma', 'Glyma.12G169500' => 'gma', 'Glyma.12G169600' => 'gma', 'Glyma.20G110800' => 'gma', 'Gohir.A03G192900' => 'ghi', 'Gohir.A03G193000' => 'ghi', 'Gohir.A05G080700' => 'ghi', 'Gohir.A09G216000' => 'ghi', 'Gohir.A12G027700' => 'ghi', 'Gohir.A13G036200' => 'ghi', 'Gohir.A13G222600' => 'ghi', 'Gohir.D02G213900' => 'ghi', 'Gohir.D02G214000' => 'ghi', 'Gohir.D05G083700' => 'ghi', 'Gohir.D05G083800' => 'ghi', 'Gohir.D05G083850' => 'ghi', 'Gohir.D08G015400' => 'ghi', 'Gohir.D09G218400' => 'ghi', 'Gohir.D12G027100' => 'ghi', 'Gohir.D13G034500' => 'ghi', 'Gohir.D13G227400' => 'ghi', 'Gorai.005G241800' => 'gra', 'Gorai.005G241900' => 'gra', 'Gorai.006G239400' => 'gra', 'Gorai.008G027600' => 'gra', 'Gorai.009G085400' => 'gra', 'Gorai.009G085500' => 'gra', 'Gorai.013G039000' => 'gra', 'Gorai.013G194800' => 'gra', 'Gorai.013G257900' => 'gra', 'GSVIVG01000982001' => 'vvi', 'GSVIVG01017981001' => 'vvi', 'HanXRQChr01g0024061' => 'han', 'HanXRQChr09g0247831' => 'han', 'HanXRQChr10g0294611' => 'han', 'HanXRQChr10g0294621' => 'han', 'HanXRQChr11g0346821' => 'han', 'HanXRQChr13g0397461' => 'han', 'HanXRQChr16g0513651' => 'han', 'HanXRQChr16g0513701' => 'han', 'Haze_00897' => 'cav', 'Haze_01745' => 'cav', 'Haze_02486' => 'cav', 'Haze_02487' => 'cav', 'Haze_23374' => 'cav', 'Hma1.2p1_0578F.1_g182520' => 'hma', 'Hma1.2p1_0602F.1_g187350' => 'hma', 'Hma1.2p1_0602F.1_g187360' => 'hma', 'Hma1.2p1_0874F.1_g231320' => 'hma', 'Hma1.2p1_1197F.1_g266210' => 'hma', 'Hma1.2p1_1197F.1_g266220' => 'hma', 'Hma1.2p1_2167F.1_g315895' => 'hma', 'Hma1.2p1_2190F.1_g316640' => 'hma', 'Hma1.2p1_3645F.1_g337153' => 'hma', 'HPP92_004907' => 'vpl', 'HPP92_012134' => 'vpl', 'HPP92_025136' => 'vpl', 'HPP92_026087' => 'vpl', 'Hund06782' => 'sun', 'Hund06784' => 'sun', 'Lalb_Chr01g0004861' => 'lal', 'Lalb_Chr02g0140591' => 'lal', 'Lalb_Chr02g0140611' => 'lal', 'Lalb_Chr03g0028101' => 'lal', 'Lalb_Chr07g0185791' => 'lal', 'Lalb_Chr12g0204491' => 'lal', 'Lalb_Chr13g0295671' => 'lal', 'Lalb_Chr19g0136461' => 'lal', 'Lalb_Chr21g0309191' => 'lal', 'Lj1g0028158' => 'lja', 'Lj1P236T38' => 'lonja', 'Lj2C32G2' => 'lonja', 'Lj2P944T8' => 'lonja', 'Lj2P963T15' => 'lonja', 'Lj3g0011788' => 'lja', 'Lj4g0025027' => 'lja', 'Lj5P255T36' => 'lonja', 'Lj6g0018866' => 'lja', 'Lj6P608T31' => 'lonja', 'LjContig00408g0008879' => 'lja', 'Lsat_1_v5_gn_5_105820' => 'lsa', 'Lsat_1_v5_gn_6_38800' => 'lsa', 'Lsat_1_v5_gn_7_67141' => 'lsa', 'Manes.04G003400' => 'mes', 'Manes.07G020000' => 'mes', 'Manes.07G020100' => 'mes', 'Manes.07G020150' => 'mes', 'Manes.10G061500' => 'mes', 'Manes.10G123200' => 'mes', 'Manes.11G161900' => 'mes', 'Manes.15G029300' => 'mes', 'Mapoly0071s0018' => 'mpo', 'Mapoly0082s0023' => 'mpo', 'Mapoly3477s0001' => 'mpo', 'MBI05_g31233_MAGBIO' => 'mbi', 'MBI09_g05946_MAGBIO' => 'mbi', 'MBI09_g05947_MAGBIO' => 'mbi', 'MBI17_g08346_MAGBIO' => 'mbi', 'MCO04G038' => 'mco', 'MCO09G370' => 'mco', 'MCO13G605' => 'mco', 'MD00G1075500' => 'mdo', 'MD03G1144300' => 'mdo', 'MD08G1236800' => 'mdo', 'MD13G1193300' => 'mdo', 'MD15G1428700' => 'mdo', 'Medtr1g112030' => 'mtr', 'Medtr1g112050' => 'mtr', 'Medtr2g006290' => 'mtr', 'Medtr2g086510' => 'mtr', 'Medtr4g053120' => 'mtr', 'Medtr5g006320' => 'mtr', 'Medtr8g088720' => 'mtr', 'MELO3C004712.2' => 'cme', 'MELO3C006533.2' => 'cme', 'MELO3C019438.2' => 'cme', 'MELO3C019440.2' => 'cme', 'MELO3C019441.2' => 'cme', 'MELO3C019895.2' => 'cme', 'Migut.B00811' => 'egut', 'Migut.D02447' => 'egut', 'Migut.F00875' => 'egut', 'Migut.N00186' => 'egut', 'Migut.N01051' => 'egut', 'Migut.N02491' => 'egut', 'Migut.O00784' => 'egut', 'MSTRG.12367' => 'ama', 'MSTRG.18756' => 'ama', 'MSTRG.21042' => 'ama', 'Nitab4.5_0000559g0040' => 'nta', 'Nitab4.5_0000667g0190' => 'nta', 'Nitab4.5_0000755g0160' => 'nta', 'Nitab4.5_0001216g0080' => 'nta', 'Nitab4.5_0004069g0040' => 'nta', 'Nitab4.5_0004129g0010' => 'nta', 'Nitab4.5_0005744g0030' => 'nta', 'Nitab4.5_0006996g0030' => 'nta', 'Nitab4.5_0008971g0040' => 'nta', 'Nitab4.5_0009769g0020' => 'nta', 'Nitab4.5_0009833g0010' => 'nta', 'Nitab4.5_0013140g0020' => 'nta', 'Nn003s41376' => 'nnu', 'Nn1g01857' => 'nnu', 'Nn1g03611' => 'nnu', 'Nn1g06853' => 'nnu', 'Nn3g18360' => 'nnu', 'Nn4g26328' => 'nnu', 'Nn5g27531' => 'nnu', 'Nn6g34899' => 'nnu', 'Nn7g36299' => 'nnu', 'Oeu021485.1' => 'oeu', 'Oeu022433.1' => 'oeu', 'Oeu032111.1' => 'oeu', 'Oeu051608.1' => 'oeu', 'Os01g0860601' => 'osa', 'Os03g0659200' => 'osa', 'Os03g0835900' => 'osa', 'Os04g0412200' => 'osa', 'Os05g0443500' => 'osa', 'Os07g0251500' => 'osa', 'Os08g0104600' => 'osa', 'Peaxi162Scf00003g00047' => 'pax', 'Peaxi162Scf00003g00052' => 'pax', 'Peaxi162Scf00003g00394' => 'pax', 'Peaxi162Scf00091g00621' => 'pax', 'Peaxi162Scf00152g00146' => 'pax', 'Peaxi162Scf00173g00025' => 'pax', 'Peaxi162Scf00195g00102' => 'pax', 'Peaxi162Scf00402g00013' => 'pax', 'Peaxi162Scf00519g00618' => 'pax', 'PGR004G2838' => 'pgr', 'PGR044G2275' => 'pgr', 'PGR102G1377' => 'pgr', 'PGR119G1245' => 'pgr', 'PGR142G4449' => 'pgr', 'PGSC0003DMG400004532' => 'stu', 'PGSC0003DMG400011950' => 'stu', 'PGSC0003DMG400023391' => 'stu', 'PGSC0003DMG400023985' => 'stu', 'PGSC0003DMG400026360' => 'stu', 'PGSC0003DMG400035711' => 'stu', 'PGSC0003DMG400037286' => 'stu', 'PGSC0003DMG402005881' => 'stu', 'Phvul.002G045400' => 'pvu', 'Phvul.006G216600' => 'pvu', 'Phvul.006G216700' => 'pvu', 'Phvul.006G216800' => 'pvu', 'Phvul.007G022500' => 'pvu', 'Phvul.011G094400' => 'pvu', 'Potri.001G470700' => 'ptr', 'Potri.003G015200' => 'ptr', 'Potri.004G202500' => 'ptr', 'Potri.004G218400' => 'ptr', 'Potri.008G020100' => 'ptr', 'Potri.008G153200' => 'ptr', 'Potri.009G163800' => 'ptr', 'Potri.010G087300' => 'ptr', 'Potri.010G239100' => 'ptr', 'Pp3c10_16100' => 'ppa', 'Pp3c10_16880' => 'ppa', 'Pp3c16_6230' => 'ppa', 'Pp3c17_18910' => 'ppa', 'Pp3c3_22119' => 'ppa', 'Pp3c3_22140' => 'ppa', 'Pp3c4_8159' => 'ppa', 'Pp3c4_8171' => 'ppa', 'Pp3c4_8330' => 'ppa', 'PRCOL_00004098' => 'pco', 'Prupe.1G013900' => 'ppe', 'Prupe.1G226300' => 'ppe', 'Prupe.1G573600' => 'ppe', 'Prupe.6G130100' => 'ppe', 'Psat3g090040' => 'psa', 'Psat4g210440' => 'psa', 'Psat6g231040' => 'psa', 'Psat6g231080' => 'psa', 'Psat7g063000' => 'psa', 'Psat7g188000' => 'psa', 'Psat7g188040' => 'psa', 'PSO017G0206' => 'pso', 'PSO170G0501' => 'pso', 'PSO170G6422' => 'pso', 'PSO210G7739' => 'pso', 'PSO339G1808' => 'pso', 'PSO339G6135' => 'pso', 'PSO384G0010' => 'pso', 'PSO384G0964' => 'pso', 'PSO761G0050' => 'pso', 'PSO782G4085' => 'pso', 'QL01p012264' => 'qlo', 'QL02p099491' => 'qlo', 'QL03p033868' => 'qlo', 'QL04p046678' => 'qlo', 'QL06p002448' => 'qlo', 'RcHm_v2.0_Chr4g0416181' => 'rch', 'RcHm_v2.0_Chr5g0044701' => 'rch', 'RcHm_v2.0_Chr6g0265781' => 'rch', 'RcHm_v2.0_Chr7g0221031' => 'rch', 'Rhsim04G0202000' => 'rsi', 'Rhsim11G0127300' => 'rsi', 'Rhsim13G0111800' => 'rsi', 'Sabra01G0165600' => 'sbr', 'Sabra03G0008300' => 'sbr', 'Sabra04G0136900' => 'sbr', 'Sabra08G0013400' => 'sbr', 'Sabra08G0116800' => 'sbr', 'Sabra09G0128000' => 'sbr', 'Sabra10G0055500' => 'sbr', 'Sabra10G0073300' => 'sbr', 'SalBow3G0385' => 'sbo', 'SalBow3G1119' => 'sbo', 'SalBow3G2005' => 'sbo', 'SalBow6G2563' => 'sbo', 'SalBow6G6386' => 'sbo', 'Sc06g0008800' => 'sci', 'Sc07g0004950' => 'sci', 'Sc09g0005340' => 'sci', 'Sc13g0004410' => 'sci', 'Sc21g0007090' => 'sci', 'Sed0009285' => 'sed', 'Sed0017583' => 'sed', 'Sed0019699' => 'sed', 'Sed0023107' => 'sed', 'SEGI_10916' => 'sgi', 'SEGI_16217' => 'sgi', 'SEGI_19466' => 'sgi', 'SEGI_41115' => 'sgi', 'SGA_v2.0_scaffold111G31534' => 'sas', 'SGA_v2.0_scaffold22G09864' => 'sas', 'SGA_v2.0_scaffold338G49219' => 'sas', 'SGA_v2.0_scaffold92G28298' => 'sas', 'SMO119G0064' => 'smo', 'SMO223G0038' => 'smo', 'SMO347G0584' => 'smo', 'SMO351G0010' => 'smo', 'SMO356G0404' => 'smo', 'Solyc01g103920.3' => 'sly', 'Solyc04g009710.2' => 'sly', 'Solyc05g055280.2' => 'sly', 'Solyc10g044520.3' => 'sly', 'Solyc10g075160.1' => 'sly', 'Solyc11g006910.3' => 'sly', 'Solyc11g068430.3' => 'sly', 'Sopen01g046310' => 'spe', 'Sopen03g001200' => 'spe', 'Sopen04g004830' => 'spe', 'Sopen05g033720' => 'spe', 'Sopen06g030740' => 'spe', 'Sopen10g013090' => 'spe', 'Sopen10g027630' => 'spe', 'Sopen10g027640' => 'spe', 'Sopen11g002820' => 'spe', 'Sopen11g027140' => 'spe', 'Sp1g09680' => 'spa', 'Sp2g03630' => 'spa', 'Sp4g10320' => 'spa', 'Sp6g33400' => 'spa', 'Sp7g13030' => 'spa', 'TAR365G0317' => 'tar', 'TAR376G0979' => 'tar', 'TAR623G1665' => 'tar', 'TAR633G2373' => 'tar', 'TAR636G1400' => 'tar', 'THA.LOC104800529' => 'tha', 'THA.LOC104808547' => 'tha', 'THA.LOC104809615' => 'tha', 'THA.LOC104815724' => 'tha', 'THA.LOC104818480' => 'tha', 'THA.LOC104819179' => 'tha', 'THA.LOC104822270' => 'tha', 'THA.LOC104826425' => 'tha', 'Thecc.02G089700' => 'tca', 'Thecc.04G232300' => 'tca', 'Thecc.09G283400' => 'tca', 'Thhalv10009020m.g' => 'esa', 'Thhalv10015506m.g' => 'esa', 'Thhalv10017364m.g' => 'esa', 'Thhalv10023742m.g' => 'esa', 'Thhalv10026483m.g' => 'esa', 'TPR.G17232' => 'tpr', 'TPR.G2133' => 'tpr', 'TPR.G2498' => 'tpr', 'TPR.G31942' => 'tpr', 'TPR.G37877' => 'tpr', 'TPR.G4571' => 'tpr', 'TWI14G1113' => 'twi', 'TWI15G0426' => 'twi', 'TWI31G1005' => 'twi', 'TWI38G0513' => 'twi', 'TWI38G1484' => 'twi', 'TWI73G1098' => 'twi', 'unitig_26.g10519' => 'ugi', 'unitig_736.g22395' => 'ugi', 'unitig_747.g21234' => 'ugi', 'unitig_747.g21942' => 'ugi', 'vmacro14351' => 'vma', 'VMungo0540G0082' => 'vmu', 'VMungo0540G0405' => 'vmu', 'VMungo0540G1486' => 'vmu', 'VMungo0540G1692' => 'vmu', 'VMungo0720G2473' => 'vmu', 'VMungo1127G1562' => 'vmu', 'VMungo1215G1918' => 'vmu', 'Zm00001eb052650' => 'zma', 'Zm00001eb063710' => 'zma', 'Zm00001eb083950' => 'zma', 'Zm00001eb174420' => 'zma', 'Zm00001eb260140' => 'zma', 'Zm00001eb260150' => 'zma', 'Zm00001eb260160' => 'zma', 'Zm00001eb348290' => 'zma', 'Zm00001eb366870' => 'zma', 'Zm00001eb421930' => 'zma' ) $gf_id = 'HOM05D001025' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001025' ) $data_identifier = 'HOM05D001025' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 19, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 2, 'amhyb' => (int) 4, 'aly' => (int) 4, 'aox' => (int) 4, 'arhy' => (int) 3, 'ath' => (int) 5, 'atr' => (int) 4, 'acertr' => (int) 3, 'cqu' => (int) 7, 'bca' => (int) 17, 'bol' => (int) 10, 'bra' => (int) 9, 'can' => (int) 10, 'cansat' => (int) 6, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 5, 'cbr' => (int) 5, 'ccan' => (int) 5, 'cde' => (int) 4, 'cfa' => (int) 3, 'ccl' => (int) 6, 'cil' => (int) 4, 'cla' => (int) 3, 'col' => (int) 3, 'cpa' => (int) 3, 'cre' => (int) 7, 'csa' => (int) 5, 'camsi' => (int) 9, 'dca' => (int) 4, 'din' => (int) 5, 'dzi' => (int) 7, 'eca' => (int) 6, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 12, 'fve' => (int) 4, 'gma' => (int) 12, 'ghi' => (int) 17, 'gra' => (int) 9, 'vvi' => (int) 2, 'han' => (int) 8, 'cav' => (int) 5, 'hma' => (int) 9, 'vpl' => (int) 4, 'sun' => (int) 2, 'lal' => (int) 9, 'lja' => (int) 5, 'lonja' => (int) 6, 'lsa' => (int) 3, 'mes' => (int) 8, 'mpo' => (int) 3, 'mbi' => (int) 4, 'mco' => (int) 3, 'mdo' => (int) 5, 'mtr' => (int) 7, 'cme' => (int) 6, 'egut' => (int) 7, 'ama' => (int) 3, 'nta' => (int) 12, 'nnu' => (int) 9, 'oeu' => (int) 4, 'osa' => (int) 7, 'pax' => (int) 9, 'pgr' => (int) 5, 'stu' => (int) 8, 'pvu' => (int) 6, 'ptr' => (int) 9, 'ppa' => (int) 9, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 7, 'pso' => (int) 10, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 3, 'sbr' => (int) 8, 'sbo' => (int) 5, 'sci' => (int) 5, 'sed' => (int) 4, 'sgi' => (int) 4, 'sas' => (int) 4, 'smo' => (int) 5, 'sly' => (int) 7, 'spe' => (int) 10, 'spa' => (int) 5, 'tar' => (int) 5, 'tha' => (int) 8, 'tca' => (int) 3, 'esa' => (int) 5, 'tpr' => (int) 6, 'twi' => (int) 6, 'ugi' => (int) 4, 'vma' => (int) 1, 'vmu' => (int) 7, 'zma' => (int) 10 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb421930' $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' => 'HOM05D001025', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '592', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p22650' => 'bna', 'A01p29720' => 'bna', 'A03p26560' => 'bna', 'A03p68820' => 'bna', 'A04p20980' => 'bna', 'A06p07730' => 'bna', 'A07p18260' => 'bna', 'A08p33710' => 'bna', 'A09p16970' => 'bna', 'A10p27490' => 'bna', 'Aa31LG1G17300' => 'aar', 'Aa31LG1G3910' => 'aar', 'Aa31LG2G9630' => 'aar', 'Aa31LG5G8360' => 'aar', 'Aa31LG9G2410' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4699' => 'aag', 'Actinidia23512' => 'ach', 'Actinidia37080' => 'ach', 'Ah.01g020380' => 'amhyb', 'Ah.08g215710' => 'amhyb', 'Ah.09g225110' => 'amhyb', 'Ah.10g036680' => 'amhyb', 'AL1G21940' => 'aly', 'AL2G15540' => 'aly', 'AL4G21520' => 'aly', 'AL7G40960' => 'aly', 'Aqoxy2G01191' => 'aox', 'Aqoxy2G03393' => 'aox', 'Aqoxy4G02775' => 'aox', 'Aqoxy6G00058' => 'aox', 'arahy.Tifrunner.gnm1.ann1.9X74H2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CW3FX9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R485W7' => 'arhy', 'AT1G10960' => 'ath', 'AT1G60950' => 'ath', 'AT2G27510' => 'ath', 'AT4G14890' => 'ath', 'AT5G10000' => 'ath', 'ATR0665G624' => 'atr', 'ATR0697G138' => 'atr', 'ATR0776G046' => 'atr', 'ATR1134G135' => 'atr', 'Atru.chr12.1025' => 'acertr', 'Atru.chr3.3241' => 'acertr', 'Atru.chr4.2460' => 'acertr', 'AUR62007427' => 'cqu', 'AUR62010960' => 'cqu', 'AUR62012201' => 'cqu', 'AUR62021470' => 'cqu', 'AUR62022834' => 'cqu', 'AUR62033635' => 'cqu', 'AUR62036186' => 'cqu', 'BcaB01g03077' => 'bca', 'BcaB02g10093' => 'bca', 'BcaB04g20295' => 'bca', 'BcaB06g28147' => 'bca', 'BcaB07g31253' => 'bca', 'BcaC01g04946' => 'bca', 'BcaC02g10614' => 'bca', 'BcaC02g10885' => 'bca', 'BcaC04g19356' => 'bca', 'BcaC04g22297' => 'bca', 'BcaC05g24977' => 'bca', 'BcaC06g31823' => 'bca', 'BcaC07g38633' => 'bca', 'BcaC09g49353' => 'bca', 'BcaC09g50168' => 'bca', 'BcaNung00322' => 'bca', 'BcaNung04769' => 'bca', 'BolC1t02753H' => 'bol', 'BolC1t03721H' => 'bol', 'BolC3t15525H' => 'bol', 'BolC4t23903H' => 'bol', 'BolC4t24231H' => 'bol', 'BolC4t27209H' => 'bol', 'BolC5t29671H' => 'bol', 'BolC8t49044H' => 'bol', 'BolC9t54999H' => 'bol', 'BolC9t59517H' => 'bol', 'BraA01t02178Z' => 'bra', 'BraA01t03099Z' => 'bra', 'BraA03t11867Z' => 'bra', 'BraA04t17667Z' => 'bra', 'BraA07t29542Z' => 'bra', 'BraA08t35287Z' => 'bra', 'BraA09t37334Z' => 'bra', 'BraA10t44801Z' => 'bra', 'BraSC39t46181Z' => 'bra', 'C01p28240' => 'bna', 'C01p37530' => 'bna', 'C03p31820' => 'bna', 'C04p24080' => 'bna', 'C04p25790' => 'bna', 'C04p56770' => 'bna', 'C05p09310' => 'bna', 'C09p21010' => 'bna', 'C09p67560' => 'bna', 'CAN.G1324.7' => 'can', 'CAN.G1358.10' => 'can', 'CAN.G1550.2' => 'can', 'CAN.G186.56' => 'can', 'CAN.G1965.1' => 'can', 'CAN.G645.15' => 'can', 'CAN.G798.26' => 'can', 'CAN.G798.27' => 'can', 'CAN.G798.29' => 'can', 'CAN.G919.31' => 'can', 'CANSAT11G0133' => 'cansat', 'CANSAT11G1171' => 'cansat', 'CANSAT11G2056' => 'cansat', 'CANSAT56G1202' => 'cansat', 'CANSAT56G1514' => 'cansat', 'CANSAT78G0455' => 'cansat', 'CARHR011190' => 'chi', 'CARHR051980' => 'chi', 'CARHR120170' => 'chi', 'CARHR203310' => 'chi', 'CARHR221490' => 'chi', 'Carub.0001s1054' => 'cru', 'Carub.0002s0431' => 'cru', 'Carub.0004s0818' => 'cru', 'Carub.0006s0846' => 'cru', 'Carub.0007s2722' => 'cru', 'Ca_00058_v3' => 'car', 'Ca_17831_v3' => 'car', 'Ca_19408_v3' => 'car', 'Ca_24397_v3' => 'car', 'Ca_25664_v3' => 'car', 'CBR_g21818' => 'cbr', 'CBR_g31195' => 'cbr', 'CBR_g32282' => 'cbr', 'CBR_g39599' => 'cbr', 'CBR_g49410' => 'cbr', 'Cc01_g09120' => 'ccan', 'Cc01_g09130' => 'ccan', 'Cc02_g09630' => 'ccan', 'Cc02_g22810' => 'ccan', 'Cc03_g03810' => 'ccan', 'CDE02G3718' => 'cde', 'CDE04G3183' => 'cde', 'CDE07G1046' => 'cde', 'CDE08G0480' => 'cde', 'Cfa005493' => 'cfa', 'Cfa010312' => 'cfa', 'Cfa015648' => 'cfa', 'Ciclev10002793m.g' => 'ccl', 'Ciclev10003356m.g' => 'ccl', 'Ciclev10006141m.g' => 'ccl', 'Ciclev10016676m.g' => 'ccl', 'Ciclev10017081m.g' => 'ccl', 'Ciclev10029499m.g' => 'ccl', 'CiPaw.01G166300' => 'cil', 'CiPaw.06G145600' => 'cil', 'CiPaw.13G040100' => 'cil', 'CiPaw.13G135800' => 'cil', 'ClCG01G012230' => 'cla', 'ClCG05G009510' => 'cla', 'ClCG08G008270' => 'cla', 'COL.COLO4_11763' => 'col', 'COL.COLO4_19876' => 'col', 'COL.COLO4_21481' => 'col', 'Cpa.g.sc118.34' => 'cpa', 'Cpa.g.sc32.13' => 'cpa', 'Cpa.g.sc58.103' => 'cpa', 'Cre03.g183850' => 'cre', 'Cre06.g306350' => 'cre', 'Cre07.g334800' => 'cre', 'Cre12.g487900' => 'cre', 'Cre14.g626700' => 'cre', 'Cre16.g658400' => 'cre', 'Cre17.g700950' => 'cre', 'CsaV3_1G014830' => 'csa', 'CsaV3_3G013320' => 'csa', 'CsaV3_3G019210' => 'csa', 'CsaV3_3G019220' => 'csa', 'CsaV3_6G004230' => 'csa', 'CSS0003773' => 'camsi', 'CSS0004563' => 'camsi', 'CSS0013949' => 'camsi', 'CSS0025971' => 'camsi', 'CSS0028570' => 'camsi', 'CSS0033127' => 'camsi', 'CSS0036051' => 'camsi', 'CSS0040087' => 'camsi', 'CSS0043179' => 'camsi', 'DCAR_006161' => 'dca', 'DCAR_010351' => 'dca', 'DCAR_012197' => 'dca', 'DCAR_024162' => 'dca', 'Dinv01030' => 'din', 'Dinv10924' => 'din', 'Dinv11835' => 'din', 'Dinv22841' => 'din', 'Dinv42553' => 'din', 'Duzib052G0560' => 'dzi', 'Duzib132G0389' => 'dzi', 'Duzib150G1181' => 'dzi', 'Duzib168G0623' => 'dzi', 'Duzib170G1036' => 'dzi', 'Duzib212G0200' => 'dzi', 'Duzib248G0194' => 'dzi', 'ECA232G2193' => 'eca', 'ECA233G0302' => 'eca', 'ECA234G2813' => 'eca', 'ECA234G4866' => 'eca', 'ECA240G3932' => 'eca', 'ECA248G0385' => 'eca', 'EL10Ac2g04781' => 'bvu', 'EL10Ac3g06445' => 'bvu', 'EL10Ac7g15825' => 'bvu', 'EL10Ac8g18550' => 'bvu', 'Eucgr.B03849' => 'egr', 'Eucgr.I02744' => 'egr', 'Eucgr.J00264' => 'egr', 'Eucgr.J00493' => 'egr', 'FAN04G2181' => 'fan', 'FAN07G2666' => 'fan', 'FAN11G0024' => 'fan', 'FAN12G1105' => 'fan', 'FAN13G0302' => 'fan', 'FAN15G2781' => 'fan', 'FAN16G1274' => 'fan', 'FAN17G2988' => 'fan', 'FAN18G2621' => 'fan', 'FAN21G0013' => 'fan', 'FAN22G1211' => 'fan', 'FAN25G3626' => 'fan', 'FvH4_2g09491' => 'fve', 'FvH4_3g24910' => 'fve', 'FvH4_4g15630' => 'fve', 'FvH4_5g28820' => 'fve', 'Glyma.01G238000' => 'gma', 'Glyma.05G168400' => 'gma', 'Glyma.08G126800' => 'gma', 'Glyma.08G188500' => 'gma', 'Glyma.10G278900' => 'gma', 'Glyma.11G005700' => 'gma', 'Glyma.11G183300' => 'gma', 'Glyma.12G089200' => 'gma', 'Glyma.12G169400' => 'gma', 'Glyma.12G169500' => 'gma', 'Glyma.12G169600' => 'gma', 'Glyma.20G110800' => 'gma', 'Gohir.A03G192900' => 'ghi', 'Gohir.A03G193000' => 'ghi', 'Gohir.A05G080700' => 'ghi', 'Gohir.A09G216000' => 'ghi', 'Gohir.A12G027700' => 'ghi', 'Gohir.A13G036200' => 'ghi', 'Gohir.A13G222600' => 'ghi', 'Gohir.D02G213900' => 'ghi', 'Gohir.D02G214000' => 'ghi', 'Gohir.D05G083700' => 'ghi', 'Gohir.D05G083800' => 'ghi', 'Gohir.D05G083850' => 'ghi', 'Gohir.D08G015400' => 'ghi', 'Gohir.D09G218400' => 'ghi', 'Gohir.D12G027100' => 'ghi', 'Gohir.D13G034500' => 'ghi', 'Gohir.D13G227400' => 'ghi', 'Gorai.005G241800' => 'gra', 'Gorai.005G241900' => 'gra', 'Gorai.006G239400' => 'gra', 'Gorai.008G027600' => 'gra', 'Gorai.009G085400' => 'gra', 'Gorai.009G085500' => 'gra', 'Gorai.013G039000' => 'gra', 'Gorai.013G194800' => 'gra', 'Gorai.013G257900' => 'gra', 'GSVIVG01000982001' => 'vvi', 'GSVIVG01017981001' => 'vvi', 'HanXRQChr01g0024061' => 'han', 'HanXRQChr09g0247831' => 'han', 'HanXRQChr10g0294611' => 'han', 'HanXRQChr10g0294621' => 'han', 'HanXRQChr11g0346821' => 'han', 'HanXRQChr13g0397461' => 'han', 'HanXRQChr16g0513651' => 'han', 'HanXRQChr16g0513701' => 'han', 'Haze_00897' => 'cav', 'Haze_01745' => 'cav', 'Haze_02486' => 'cav', 'Haze_02487' => 'cav', 'Haze_23374' => 'cav', 'Hma1.2p1_0578F.1_g182520' => 'hma', 'Hma1.2p1_0602F.1_g187350' => 'hma', 'Hma1.2p1_0602F.1_g187360' => 'hma', 'Hma1.2p1_0874F.1_g231320' => 'hma', 'Hma1.2p1_1197F.1_g266210' => 'hma', 'Hma1.2p1_1197F.1_g266220' => 'hma', 'Hma1.2p1_2167F.1_g315895' => 'hma', 'Hma1.2p1_2190F.1_g316640' => 'hma', 'Hma1.2p1_3645F.1_g337153' => 'hma', 'HPP92_004907' => 'vpl', 'HPP92_012134' => 'vpl', 'HPP92_025136' => 'vpl', 'HPP92_026087' => 'vpl', 'Hund06782' => 'sun', 'Hund06784' => 'sun', 'Lalb_Chr01g0004861' => 'lal', 'Lalb_Chr02g0140591' => 'lal', 'Lalb_Chr02g0140611' => 'lal', 'Lalb_Chr03g0028101' => 'lal', 'Lalb_Chr07g0185791' => 'lal', 'Lalb_Chr12g0204491' => 'lal', 'Lalb_Chr13g0295671' => 'lal', 'Lalb_Chr19g0136461' => 'lal', 'Lalb_Chr21g0309191' => 'lal', 'Lj1g0028158' => 'lja', 'Lj1P236T38' => 'lonja', 'Lj2C32G2' => 'lonja', 'Lj2P944T8' => 'lonja', 'Lj2P963T15' => 'lonja', 'Lj3g0011788' => 'lja', 'Lj4g0025027' => 'lja', 'Lj5P255T36' => 'lonja', 'Lj6g0018866' => 'lja', 'Lj6P608T31' => 'lonja', 'LjContig00408g0008879' => 'lja', 'Lsat_1_v5_gn_5_105820' => 'lsa', 'Lsat_1_v5_gn_6_38800' => 'lsa', 'Lsat_1_v5_gn_7_67141' => 'lsa', 'Manes.04G003400' => 'mes', 'Manes.07G020000' => 'mes', 'Manes.07G020100' => 'mes', 'Manes.07G020150' => 'mes', 'Manes.10G061500' => 'mes', 'Manes.10G123200' => 'mes', 'Manes.11G161900' => 'mes', 'Manes.15G029300' => 'mes', 'Mapoly0071s0018' => 'mpo', 'Mapoly0082s0023' => 'mpo', 'Mapoly3477s0001' => 'mpo', 'MBI05_g31233_MAGBIO' => 'mbi', 'MBI09_g05946_MAGBIO' => 'mbi', 'MBI09_g05947_MAGBIO' => 'mbi', 'MBI17_g08346_MAGBIO' => 'mbi', 'MCO04G038' => 'mco', 'MCO09G370' => 'mco', 'MCO13G605' => 'mco', 'MD00G1075500' => 'mdo', 'MD03G1144300' => 'mdo', 'MD08G1236800' => 'mdo', 'MD13G1193300' => 'mdo', 'MD15G1428700' => 'mdo', 'Medtr1g112030' => 'mtr', 'Medtr1g112050' => 'mtr', 'Medtr2g006290' => 'mtr', 'Medtr2g086510' => 'mtr', 'Medtr4g053120' => 'mtr', 'Medtr5g006320' => 'mtr', 'Medtr8g088720' => 'mtr', 'MELO3C004712.2' => 'cme', 'MELO3C006533.2' => 'cme', 'MELO3C019438.2' => 'cme', 'MELO3C019440.2' => 'cme', 'MELO3C019441.2' => 'cme', 'MELO3C019895.2' => 'cme', 'Migut.B00811' => 'egut', 'Migut.D02447' => 'egut', 'Migut.F00875' => 'egut', 'Migut.N00186' => 'egut', 'Migut.N01051' => 'egut', 'Migut.N02491' => 'egut', 'Migut.O00784' => 'egut', 'MSTRG.12367' => 'ama', 'MSTRG.18756' => 'ama', 'MSTRG.21042' => 'ama', 'Nitab4.5_0000559g0040' => 'nta', 'Nitab4.5_0000667g0190' => 'nta', 'Nitab4.5_0000755g0160' => 'nta', 'Nitab4.5_0001216g0080' => 'nta', 'Nitab4.5_0004069g0040' => 'nta', 'Nitab4.5_0004129g0010' => 'nta', 'Nitab4.5_0005744g0030' => 'nta', 'Nitab4.5_0006996g0030' => 'nta', 'Nitab4.5_0008971g0040' => 'nta', 'Nitab4.5_0009769g0020' => 'nta', 'Nitab4.5_0009833g0010' => 'nta', 'Nitab4.5_0013140g0020' => 'nta', 'Nn003s41376' => 'nnu', 'Nn1g01857' => 'nnu', 'Nn1g03611' => 'nnu', 'Nn1g06853' => 'nnu', 'Nn3g18360' => 'nnu', 'Nn4g26328' => 'nnu', 'Nn5g27531' => 'nnu', 'Nn6g34899' => 'nnu', 'Nn7g36299' => 'nnu', 'Oeu021485.1' => 'oeu', 'Oeu022433.1' => 'oeu', 'Oeu032111.1' => 'oeu', 'Oeu051608.1' => 'oeu', 'Os01g0860601' => 'osa', 'Os03g0659200' => 'osa', 'Os03g0835900' => 'osa', 'Os04g0412200' => 'osa', 'Os05g0443500' => 'osa', 'Os07g0251500' => 'osa', 'Os08g0104600' => 'osa', 'Peaxi162Scf00003g00047' => 'pax', 'Peaxi162Scf00003g00052' => 'pax', 'Peaxi162Scf00003g00394' => 'pax', 'Peaxi162Scf00091g00621' => 'pax', 'Peaxi162Scf00152g00146' => 'pax', 'Peaxi162Scf00173g00025' => 'pax', 'Peaxi162Scf00195g00102' => 'pax', 'Peaxi162Scf00402g00013' => 'pax', 'Peaxi162Scf00519g00618' => 'pax', 'PGR004G2838' => 'pgr', 'PGR044G2275' => 'pgr', 'PGR102G1377' => 'pgr', 'PGR119G1245' => 'pgr', 'PGR142G4449' => 'pgr', 'PGSC0003DMG400004532' => 'stu', 'PGSC0003DMG400011950' => 'stu', 'PGSC0003DMG400023391' => 'stu', 'PGSC0003DMG400023985' => 'stu', 'PGSC0003DMG400026360' => 'stu', 'PGSC0003DMG400035711' => 'stu', 'PGSC0003DMG400037286' => 'stu', 'PGSC0003DMG402005881' => 'stu', 'Phvul.002G045400' => 'pvu', 'Phvul.006G216600' => 'pvu', 'Phvul.006G216700' => 'pvu', 'Phvul.006G216800' => 'pvu', 'Phvul.007G022500' => 'pvu', 'Phvul.011G094400' => 'pvu', 'Potri.001G470700' => 'ptr', 'Potri.003G015200' => 'ptr', 'Potri.004G202500' => 'ptr', 'Potri.004G218400' => 'ptr', 'Potri.008G020100' => 'ptr', 'Potri.008G153200' => 'ptr', 'Potri.009G163800' => 'ptr', 'Potri.010G087300' => 'ptr', 'Potri.010G239100' => 'ptr', 'Pp3c10_16100' => 'ppa', 'Pp3c10_16880' => 'ppa', 'Pp3c16_6230' => 'ppa', 'Pp3c17_18910' => 'ppa', 'Pp3c3_22119' => 'ppa', 'Pp3c3_22140' => 'ppa', 'Pp3c4_8159' => 'ppa', 'Pp3c4_8171' => 'ppa', 'Pp3c4_8330' => 'ppa', 'PRCOL_00004098' => 'pco', 'Prupe.1G013900' => 'ppe', 'Prupe.1G226300' => 'ppe', 'Prupe.1G573600' => 'ppe', 'Prupe.6G130100' => 'ppe', 'Psat3g090040' => 'psa', 'Psat4g210440' => 'psa', 'Psat6g231040' => 'psa', 'Psat6g231080' => 'psa', 'Psat7g063000' => 'psa', 'Psat7g188000' => 'psa', 'Psat7g188040' => 'psa', 'PSO017G0206' => 'pso', 'PSO170G0501' => 'pso', 'PSO170G6422' => 'pso', 'PSO210G7739' => 'pso', 'PSO339G1808' => 'pso', 'PSO339G6135' => 'pso', 'PSO384G0010' => 'pso', 'PSO384G0964' => 'pso', 'PSO761G0050' => 'pso', 'PSO782G4085' => 'pso', 'QL01p012264' => 'qlo', 'QL02p099491' => 'qlo', 'QL03p033868' => 'qlo', 'QL04p046678' => 'qlo', 'QL06p002448' => 'qlo', 'RcHm_v2.0_Chr4g0416181' => 'rch', 'RcHm_v2.0_Chr5g0044701' => 'rch', 'RcHm_v2.0_Chr6g0265781' => 'rch', 'RcHm_v2.0_Chr7g0221031' => 'rch', 'Rhsim04G0202000' => 'rsi', 'Rhsim11G0127300' => 'rsi', 'Rhsim13G0111800' => 'rsi', 'Sabra01G0165600' => 'sbr', 'Sabra03G0008300' => 'sbr', 'Sabra04G0136900' => 'sbr', 'Sabra08G0013400' => 'sbr', 'Sabra08G0116800' => 'sbr', 'Sabra09G0128000' => 'sbr', 'Sabra10G0055500' => 'sbr', 'Sabra10G0073300' => 'sbr', 'SalBow3G0385' => 'sbo', 'SalBow3G1119' => 'sbo', 'SalBow3G2005' => 'sbo', 'SalBow6G2563' => 'sbo', 'SalBow6G6386' => 'sbo', 'Sc06g0008800' => 'sci', 'Sc07g0004950' => 'sci', 'Sc09g0005340' => 'sci', 'Sc13g0004410' => 'sci', 'Sc21g0007090' => 'sci', 'Sed0009285' => 'sed', 'Sed0017583' => 'sed', 'Sed0019699' => 'sed', 'Sed0023107' => 'sed', 'SEGI_10916' => 'sgi', 'SEGI_16217' => 'sgi', 'SEGI_19466' => 'sgi', 'SEGI_41115' => 'sgi', 'SGA_v2.0_scaffold111G31534' => 'sas', 'SGA_v2.0_scaffold22G09864' => 'sas', 'SGA_v2.0_scaffold338G49219' => 'sas', 'SGA_v2.0_scaffold92G28298' => 'sas', 'SMO119G0064' => 'smo', 'SMO223G0038' => 'smo', 'SMO347G0584' => 'smo', 'SMO351G0010' => 'smo', 'SMO356G0404' => 'smo', 'Solyc01g103920.3' => 'sly', 'Solyc04g009710.2' => 'sly', 'Solyc05g055280.2' => 'sly', 'Solyc10g044520.3' => 'sly', 'Solyc10g075160.1' => 'sly', 'Solyc11g006910.3' => 'sly', 'Solyc11g068430.3' => 'sly', 'Sopen01g046310' => 'spe', 'Sopen03g001200' => 'spe', 'Sopen04g004830' => 'spe', 'Sopen05g033720' => 'spe', 'Sopen06g030740' => 'spe', 'Sopen10g013090' => 'spe', 'Sopen10g027630' => 'spe', 'Sopen10g027640' => 'spe', 'Sopen11g002820' => 'spe', 'Sopen11g027140' => 'spe', 'Sp1g09680' => 'spa', 'Sp2g03630' => 'spa', 'Sp4g10320' => 'spa', 'Sp6g33400' => 'spa', 'Sp7g13030' => 'spa', 'TAR365G0317' => 'tar', 'TAR376G0979' => 'tar', 'TAR623G1665' => 'tar', 'TAR633G2373' => 'tar', 'TAR636G1400' => 'tar', 'THA.LOC104800529' => 'tha', 'THA.LOC104808547' => 'tha', 'THA.LOC104809615' => 'tha', 'THA.LOC104815724' => 'tha', 'THA.LOC104818480' => 'tha', 'THA.LOC104819179' => 'tha', 'THA.LOC104822270' => 'tha', 'THA.LOC104826425' => 'tha', 'Thecc.02G089700' => 'tca', 'Thecc.04G232300' => 'tca', 'Thecc.09G283400' => 'tca', 'Thhalv10009020m.g' => 'esa', 'Thhalv10015506m.g' => 'esa', 'Thhalv10017364m.g' => 'esa', 'Thhalv10023742m.g' => 'esa', 'Thhalv10026483m.g' => 'esa', 'TPR.G17232' => 'tpr', 'TPR.G2133' => 'tpr', 'TPR.G2498' => 'tpr', 'TPR.G31942' => 'tpr', 'TPR.G37877' => 'tpr', 'TPR.G4571' => 'tpr', 'TWI14G1113' => 'twi', 'TWI15G0426' => 'twi', 'TWI31G1005' => 'twi', 'TWI38G0513' => 'twi', 'TWI38G1484' => 'twi', 'TWI73G1098' => 'twi', 'unitig_26.g10519' => 'ugi', 'unitig_736.g22395' => 'ugi', 'unitig_747.g21234' => 'ugi', 'unitig_747.g21942' => 'ugi', 'vmacro14351' => 'vma', 'VMungo0540G0082' => 'vmu', 'VMungo0540G0405' => 'vmu', 'VMungo0540G1486' => 'vmu', 'VMungo0540G1692' => 'vmu', 'VMungo0720G2473' => 'vmu', 'VMungo1127G1562' => 'vmu', 'VMungo1215G1918' => 'vmu', 'Zm00001eb052650' => 'zma', 'Zm00001eb063710' => 'zma', 'Zm00001eb083950' => 'zma', 'Zm00001eb174420' => 'zma', 'Zm00001eb260140' => 'zma', 'Zm00001eb260150' => 'zma', 'Zm00001eb260160' => 'zma', 'Zm00001eb348290' => 'zma', 'Zm00001eb366870' => 'zma', 'Zm00001eb421930' => 'zma' ), 'gf_id' => 'HOM05D001025', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001025' ), 'data_identifier' => 'HOM05D001025', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001025', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '592', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p22650' => 'bna', 'A01p29720' => 'bna', 'A03p26560' => 'bna', 'A03p68820' => 'bna', 'A04p20980' => 'bna', 'A06p07730' => 'bna', 'A07p18260' => 'bna', 'A08p33710' => 'bna', 'A09p16970' => 'bna', 'A10p27490' => 'bna', 'Aa31LG1G17300' => 'aar', 'Aa31LG1G3910' => 'aar', 'Aa31LG2G9630' => 'aar', 'Aa31LG5G8360' => 'aar', 'Aa31LG9G2410' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4699' => 'aag', 'Actinidia23512' => 'ach', 'Actinidia37080' => 'ach', 'Ah.01g020380' => 'amhyb', 'Ah.08g215710' => 'amhyb', 'Ah.09g225110' => 'amhyb', 'Ah.10g036680' => 'amhyb', 'AL1G21940' => 'aly', 'AL2G15540' => 'aly', 'AL4G21520' => 'aly', 'AL7G40960' => 'aly', 'Aqoxy2G01191' => 'aox', 'Aqoxy2G03393' => 'aox', 'Aqoxy4G02775' => 'aox', 'Aqoxy6G00058' => 'aox', 'arahy.Tifrunner.gnm1.ann1.9X74H2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CW3FX9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R485W7' => 'arhy', 'AT1G10960' => 'ath', 'AT1G60950' => 'ath', 'AT2G27510' => 'ath', 'AT4G14890' => 'ath', 'AT5G10000' => 'ath', 'ATR0665G624' => 'atr', 'ATR0697G138' => 'atr', 'ATR0776G046' => 'atr', 'ATR1134G135' => 'atr', 'Atru.chr12.1025' => 'acertr', 'Atru.chr3.3241' => 'acertr', 'Atru.chr4.2460' => 'acertr', 'AUR62007427' => 'cqu', 'AUR62010960' => 'cqu', 'AUR62012201' => 'cqu', 'AUR62021470' => 'cqu', 'AUR62022834' => 'cqu', 'AUR62033635' => 'cqu', 'AUR62036186' => 'cqu', 'BcaB01g03077' => 'bca', 'BcaB02g10093' => 'bca', 'BcaB04g20295' => 'bca', 'BcaB06g28147' => 'bca', 'BcaB07g31253' => 'bca', 'BcaC01g04946' => 'bca', 'BcaC02g10614' => 'bca', 'BcaC02g10885' => 'bca', 'BcaC04g19356' => 'bca', 'BcaC04g22297' => 'bca', 'BcaC05g24977' => 'bca', 'BcaC06g31823' => 'bca', 'BcaC07g38633' => 'bca', 'BcaC09g49353' => 'bca', 'BcaC09g50168' => 'bca', 'BcaNung00322' => 'bca', 'BcaNung04769' => 'bca', 'BolC1t02753H' => 'bol', 'BolC1t03721H' => 'bol', 'BolC3t15525H' => 'bol', 'BolC4t23903H' => 'bol', 'BolC4t24231H' => 'bol', 'BolC4t27209H' => 'bol', 'BolC5t29671H' => 'bol', 'BolC8t49044H' => 'bol', 'BolC9t54999H' => 'bol', 'BolC9t59517H' => 'bol', 'BraA01t02178Z' => 'bra', 'BraA01t03099Z' => 'bra', 'BraA03t11867Z' => 'bra', 'BraA04t17667Z' => 'bra', 'BraA07t29542Z' => 'bra', 'BraA08t35287Z' => 'bra', 'BraA09t37334Z' => 'bra', 'BraA10t44801Z' => 'bra', 'BraSC39t46181Z' => 'bra', 'C01p28240' => 'bna', 'C01p37530' => 'bna', 'C03p31820' => 'bna', 'C04p24080' => 'bna', 'C04p25790' => 'bna', 'C04p56770' => 'bna', 'C05p09310' => 'bna', 'C09p21010' => 'bna', 'C09p67560' => 'bna', 'CAN.G1324.7' => 'can', 'CAN.G1358.10' => 'can', 'CAN.G1550.2' => 'can', 'CAN.G186.56' => 'can', 'CAN.G1965.1' => 'can', 'CAN.G645.15' => 'can', 'CAN.G798.26' => 'can', 'CAN.G798.27' => 'can', 'CAN.G798.29' => 'can', 'CAN.G919.31' => 'can', 'CANSAT11G0133' => 'cansat', 'CANSAT11G1171' => 'cansat', 'CANSAT11G2056' => 'cansat', 'CANSAT56G1202' => 'cansat', 'CANSAT56G1514' => 'cansat', 'CANSAT78G0455' => 'cansat', 'CARHR011190' => 'chi', 'CARHR051980' => 'chi', 'CARHR120170' => 'chi', 'CARHR203310' => 'chi', 'CARHR221490' => 'chi', 'Carub.0001s1054' => 'cru', 'Carub.0002s0431' => 'cru', 'Carub.0004s0818' => 'cru', 'Carub.0006s0846' => 'cru', 'Carub.0007s2722' => 'cru', 'Ca_00058_v3' => 'car', 'Ca_17831_v3' => 'car', 'Ca_19408_v3' => 'car', 'Ca_24397_v3' => 'car', 'Ca_25664_v3' => 'car', 'CBR_g21818' => 'cbr', 'CBR_g31195' => 'cbr', 'CBR_g32282' => 'cbr', 'CBR_g39599' => 'cbr', 'CBR_g49410' => 'cbr', 'Cc01_g09120' => 'ccan', 'Cc01_g09130' => 'ccan', 'Cc02_g09630' => 'ccan', 'Cc02_g22810' => 'ccan', 'Cc03_g03810' => 'ccan', 'CDE02G3718' => 'cde', 'CDE04G3183' => 'cde', 'CDE07G1046' => 'cde', 'CDE08G0480' => 'cde', 'Cfa005493' => 'cfa', 'Cfa010312' => 'cfa', 'Cfa015648' => 'cfa', 'Ciclev10002793m.g' => 'ccl', 'Ciclev10003356m.g' => 'ccl', 'Ciclev10006141m.g' => 'ccl', 'Ciclev10016676m.g' => 'ccl', 'Ciclev10017081m.g' => 'ccl', 'Ciclev10029499m.g' => 'ccl', 'CiPaw.01G166300' => 'cil', 'CiPaw.06G145600' => 'cil', 'CiPaw.13G040100' => 'cil', 'CiPaw.13G135800' => 'cil', 'ClCG01G012230' => 'cla', 'ClCG05G009510' => 'cla', 'ClCG08G008270' => 'cla', 'COL.COLO4_11763' => 'col', 'COL.COLO4_19876' => 'col', 'COL.COLO4_21481' => 'col', 'Cpa.g.sc118.34' => 'cpa', 'Cpa.g.sc32.13' => 'cpa', 'Cpa.g.sc58.103' => 'cpa', 'Cre03.g183850' => 'cre', 'Cre06.g306350' => 'cre', 'Cre07.g334800' => 'cre', 'Cre12.g487900' => 'cre', 'Cre14.g626700' => 'cre', 'Cre16.g658400' => 'cre', 'Cre17.g700950' => 'cre', 'CsaV3_1G014830' => 'csa', 'CsaV3_3G013320' => 'csa', 'CsaV3_3G019210' => 'csa', 'CsaV3_3G019220' => 'csa', 'CsaV3_6G004230' => 'csa', 'CSS0003773' => 'camsi', 'CSS0004563' => 'camsi', 'CSS0013949' => 'camsi', 'CSS0025971' => 'camsi', 'CSS0028570' => 'camsi', 'CSS0033127' => 'camsi', 'CSS0036051' => 'camsi', 'CSS0040087' => 'camsi', 'CSS0043179' => 'camsi', 'DCAR_006161' => 'dca', 'DCAR_010351' => 'dca', 'DCAR_012197' => 'dca', 'DCAR_024162' => 'dca', 'Dinv01030' => 'din', 'Dinv10924' => 'din', 'Dinv11835' => 'din', 'Dinv22841' => 'din', 'Dinv42553' => 'din', 'Duzib052G0560' => 'dzi', 'Duzib132G0389' => 'dzi', 'Duzib150G1181' => 'dzi', 'Duzib168G0623' => 'dzi', 'Duzib170G1036' => 'dzi', 'Duzib212G0200' => 'dzi', 'Duzib248G0194' => 'dzi', 'ECA232G2193' => 'eca', 'ECA233G0302' => 'eca', 'ECA234G2813' => 'eca', 'ECA234G4866' => 'eca', 'ECA240G3932' => 'eca', 'ECA248G0385' => 'eca', 'EL10Ac2g04781' => 'bvu', 'EL10Ac3g06445' => 'bvu', 'EL10Ac7g15825' => 'bvu', 'EL10Ac8g18550' => 'bvu', 'Eucgr.B03849' => 'egr', 'Eucgr.I02744' => 'egr', 'Eucgr.J00264' => 'egr', 'Eucgr.J00493' => 'egr', 'FAN04G2181' => 'fan', 'FAN07G2666' => 'fan', 'FAN11G0024' => 'fan', 'FAN12G1105' => 'fan', 'FAN13G0302' => 'fan', 'FAN15G2781' => 'fan', 'FAN16G1274' => 'fan', 'FAN17G2988' => 'fan', 'FAN18G2621' => 'fan', 'FAN21G0013' => 'fan', 'FAN22G1211' => 'fan', 'FAN25G3626' => 'fan', 'FvH4_2g09491' => 'fve', 'FvH4_3g24910' => 'fve', 'FvH4_4g15630' => 'fve', 'FvH4_5g28820' => 'fve', 'Glyma.01G238000' => 'gma', 'Glyma.05G168400' => 'gma', 'Glyma.08G126800' => 'gma', 'Glyma.08G188500' => 'gma', 'Glyma.10G278900' => 'gma', 'Glyma.11G005700' => 'gma', 'Glyma.11G183300' => 'gma', 'Glyma.12G089200' => 'gma', 'Glyma.12G169400' => 'gma', 'Glyma.12G169500' => 'gma', 'Glyma.12G169600' => 'gma', 'Glyma.20G110800' => 'gma', 'Gohir.A03G192900' => 'ghi', 'Gohir.A03G193000' => 'ghi', 'Gohir.A05G080700' => 'ghi', 'Gohir.A09G216000' => 'ghi', 'Gohir.A12G027700' => 'ghi', 'Gohir.A13G036200' => 'ghi', 'Gohir.A13G222600' => 'ghi', 'Gohir.D02G213900' => 'ghi', 'Gohir.D02G214000' => 'ghi', 'Gohir.D05G083700' => 'ghi', 'Gohir.D05G083800' => 'ghi', 'Gohir.D05G083850' => 'ghi', 'Gohir.D08G015400' => 'ghi', 'Gohir.D09G218400' => 'ghi', 'Gohir.D12G027100' => 'ghi', 'Gohir.D13G034500' => 'ghi', 'Gohir.D13G227400' => 'ghi', 'Gorai.005G241800' => 'gra', 'Gorai.005G241900' => 'gra', 'Gorai.006G239400' => 'gra', 'Gorai.008G027600' => 'gra', 'Gorai.009G085400' => 'gra', 'Gorai.009G085500' => 'gra', 'Gorai.013G039000' => 'gra', 'Gorai.013G194800' => 'gra', 'Gorai.013G257900' => 'gra', 'GSVIVG01000982001' => 'vvi', 'GSVIVG01017981001' => 'vvi', 'HanXRQChr01g0024061' => 'han', 'HanXRQChr09g0247831' => 'han', 'HanXRQChr10g0294611' => 'han', 'HanXRQChr10g0294621' => 'han', 'HanXRQChr11g0346821' => 'han', 'HanXRQChr13g0397461' => 'han', 'HanXRQChr16g0513651' => 'han', 'HanXRQChr16g0513701' => 'han', 'Haze_00897' => 'cav', 'Haze_01745' => 'cav', 'Haze_02486' => 'cav', 'Haze_02487' => 'cav', 'Haze_23374' => 'cav', 'Hma1.2p1_0578F.1_g182520' => 'hma', 'Hma1.2p1_0602F.1_g187350' => 'hma', 'Hma1.2p1_0602F.1_g187360' => 'hma', 'Hma1.2p1_0874F.1_g231320' => 'hma', 'Hma1.2p1_1197F.1_g266210' => 'hma', 'Hma1.2p1_1197F.1_g266220' => 'hma', 'Hma1.2p1_2167F.1_g315895' => 'hma', 'Hma1.2p1_2190F.1_g316640' => 'hma', 'Hma1.2p1_3645F.1_g337153' => 'hma', 'HPP92_004907' => 'vpl', 'HPP92_012134' => 'vpl', 'HPP92_025136' => 'vpl', 'HPP92_026087' => 'vpl', 'Hund06782' => 'sun', 'Hund06784' => 'sun', 'Lalb_Chr01g0004861' => 'lal', 'Lalb_Chr02g0140591' => 'lal', 'Lalb_Chr02g0140611' => 'lal', 'Lalb_Chr03g0028101' => 'lal', 'Lalb_Chr07g0185791' => 'lal', 'Lalb_Chr12g0204491' => 'lal', 'Lalb_Chr13g0295671' => 'lal', 'Lalb_Chr19g0136461' => 'lal', 'Lalb_Chr21g0309191' => 'lal', 'Lj1g0028158' => 'lja', 'Lj1P236T38' => 'lonja', 'Lj2C32G2' => 'lonja', 'Lj2P944T8' => 'lonja', 'Lj2P963T15' => 'lonja', 'Lj3g0011788' => 'lja', 'Lj4g0025027' => 'lja', 'Lj5P255T36' => 'lonja', 'Lj6g0018866' => 'lja', 'Lj6P608T31' => 'lonja', 'LjContig00408g0008879' => 'lja', 'Lsat_1_v5_gn_5_105820' => 'lsa', 'Lsat_1_v5_gn_6_38800' => 'lsa', 'Lsat_1_v5_gn_7_67141' => 'lsa', 'Manes.04G003400' => 'mes', 'Manes.07G020000' => 'mes', 'Manes.07G020100' => 'mes', 'Manes.07G020150' => 'mes', 'Manes.10G061500' => 'mes', 'Manes.10G123200' => 'mes', 'Manes.11G161900' => 'mes', 'Manes.15G029300' => 'mes', 'Mapoly0071s0018' => 'mpo', 'Mapoly0082s0023' => 'mpo', 'Mapoly3477s0001' => 'mpo', 'MBI05_g31233_MAGBIO' => 'mbi', 'MBI09_g05946_MAGBIO' => 'mbi', 'MBI09_g05947_MAGBIO' => 'mbi', 'MBI17_g08346_MAGBIO' => 'mbi', 'MCO04G038' => 'mco', 'MCO09G370' => 'mco', 'MCO13G605' => 'mco', 'MD00G1075500' => 'mdo', 'MD03G1144300' => 'mdo', 'MD08G1236800' => 'mdo', 'MD13G1193300' => 'mdo', 'MD15G1428700' => 'mdo', 'Medtr1g112030' => 'mtr', 'Medtr1g112050' => 'mtr', 'Medtr2g006290' => 'mtr', 'Medtr2g086510' => 'mtr', 'Medtr4g053120' => 'mtr', 'Medtr5g006320' => 'mtr', 'Medtr8g088720' => 'mtr', 'MELO3C004712.2' => 'cme', 'MELO3C006533.2' => 'cme', 'MELO3C019438.2' => 'cme', 'MELO3C019440.2' => 'cme', 'MELO3C019441.2' => 'cme', 'MELO3C019895.2' => 'cme', 'Migut.B00811' => 'egut', 'Migut.D02447' => 'egut', 'Migut.F00875' => 'egut', 'Migut.N00186' => 'egut', 'Migut.N01051' => 'egut', 'Migut.N02491' => 'egut', 'Migut.O00784' => 'egut', 'MSTRG.12367' => 'ama', 'MSTRG.18756' => 'ama', 'MSTRG.21042' => 'ama', 'Nitab4.5_0000559g0040' => 'nta', 'Nitab4.5_0000667g0190' => 'nta', 'Nitab4.5_0000755g0160' => 'nta', 'Nitab4.5_0001216g0080' => 'nta', 'Nitab4.5_0004069g0040' => 'nta', 'Nitab4.5_0004129g0010' => 'nta', 'Nitab4.5_0005744g0030' => 'nta', 'Nitab4.5_0006996g0030' => 'nta', 'Nitab4.5_0008971g0040' => 'nta', 'Nitab4.5_0009769g0020' => 'nta', 'Nitab4.5_0009833g0010' => 'nta', 'Nitab4.5_0013140g0020' => 'nta', 'Nn003s41376' => 'nnu', 'Nn1g01857' => 'nnu', 'Nn1g03611' => 'nnu', 'Nn1g06853' => 'nnu', 'Nn3g18360' => 'nnu', 'Nn4g26328' => 'nnu', 'Nn5g27531' => 'nnu', 'Nn6g34899' => 'nnu', 'Nn7g36299' => 'nnu', 'Oeu021485.1' => 'oeu', 'Oeu022433.1' => 'oeu', 'Oeu032111.1' => 'oeu', 'Oeu051608.1' => 'oeu', 'Os01g0860601' => 'osa', 'Os03g0659200' => 'osa', 'Os03g0835900' => 'osa', 'Os04g0412200' => 'osa', 'Os05g0443500' => 'osa', 'Os07g0251500' => 'osa', 'Os08g0104600' => 'osa', 'Peaxi162Scf00003g00047' => 'pax', 'Peaxi162Scf00003g00052' => 'pax', 'Peaxi162Scf00003g00394' => 'pax', 'Peaxi162Scf00091g00621' => 'pax', 'Peaxi162Scf00152g00146' => 'pax', 'Peaxi162Scf00173g00025' => 'pax', 'Peaxi162Scf00195g00102' => 'pax', 'Peaxi162Scf00402g00013' => 'pax', 'Peaxi162Scf00519g00618' => 'pax', 'PGR004G2838' => 'pgr', 'PGR044G2275' => 'pgr', 'PGR102G1377' => 'pgr', 'PGR119G1245' => 'pgr', 'PGR142G4449' => 'pgr', 'PGSC0003DMG400004532' => 'stu', 'PGSC0003DMG400011950' => 'stu', 'PGSC0003DMG400023391' => 'stu', 'PGSC0003DMG400023985' => 'stu', 'PGSC0003DMG400026360' => 'stu', 'PGSC0003DMG400035711' => 'stu', 'PGSC0003DMG400037286' => 'stu', 'PGSC0003DMG402005881' => 'stu', 'Phvul.002G045400' => 'pvu', 'Phvul.006G216600' => 'pvu', 'Phvul.006G216700' => 'pvu', 'Phvul.006G216800' => 'pvu', 'Phvul.007G022500' => 'pvu', 'Phvul.011G094400' => 'pvu', 'Potri.001G470700' => 'ptr', 'Potri.003G015200' => 'ptr', 'Potri.004G202500' => 'ptr', 'Potri.004G218400' => 'ptr', 'Potri.008G020100' => 'ptr', 'Potri.008G153200' => 'ptr', 'Potri.009G163800' => 'ptr', 'Potri.010G087300' => 'ptr', 'Potri.010G239100' => 'ptr', 'Pp3c10_16100' => 'ppa', 'Pp3c10_16880' => 'ppa', 'Pp3c16_6230' => 'ppa', 'Pp3c17_18910' => 'ppa', 'Pp3c3_22119' => 'ppa', 'Pp3c3_22140' => 'ppa', 'Pp3c4_8159' => 'ppa', 'Pp3c4_8171' => 'ppa', 'Pp3c4_8330' => 'ppa', 'PRCOL_00004098' => 'pco', 'Prupe.1G013900' => 'ppe', 'Prupe.1G226300' => 'ppe', 'Prupe.1G573600' => 'ppe', 'Prupe.6G130100' => 'ppe', 'Psat3g090040' => 'psa', 'Psat4g210440' => 'psa', 'Psat6g231040' => 'psa', 'Psat6g231080' => 'psa', 'Psat7g063000' => 'psa', 'Psat7g188000' => 'psa', 'Psat7g188040' => 'psa', 'PSO017G0206' => 'pso', 'PSO170G0501' => 'pso', 'PSO170G6422' => 'pso', 'PSO210G7739' => 'pso', 'PSO339G1808' => 'pso', 'PSO339G6135' => 'pso', 'PSO384G0010' => 'pso', 'PSO384G0964' => 'pso', 'PSO761G0050' => 'pso', 'PSO782G4085' => 'pso', 'QL01p012264' => 'qlo', 'QL02p099491' => 'qlo', 'QL03p033868' => 'qlo', 'QL04p046678' => 'qlo', 'QL06p002448' => 'qlo', 'RcHm_v2.0_Chr4g0416181' => 'rch', 'RcHm_v2.0_Chr5g0044701' => 'rch', 'RcHm_v2.0_Chr6g0265781' => 'rch', 'RcHm_v2.0_Chr7g0221031' => 'rch', 'Rhsim04G0202000' => 'rsi', 'Rhsim11G0127300' => 'rsi', 'Rhsim13G0111800' => 'rsi', 'Sabra01G0165600' => 'sbr', 'Sabra03G0008300' => 'sbr', 'Sabra04G0136900' => 'sbr', 'Sabra08G0013400' => 'sbr', 'Sabra08G0116800' => 'sbr', 'Sabra09G0128000' => 'sbr', 'Sabra10G0055500' => 'sbr', 'Sabra10G0073300' => 'sbr', 'SalBow3G0385' => 'sbo', 'SalBow3G1119' => 'sbo', 'SalBow3G2005' => 'sbo', 'SalBow6G2563' => 'sbo', 'SalBow6G6386' => 'sbo', 'Sc06g0008800' => 'sci', 'Sc07g0004950' => 'sci', 'Sc09g0005340' => 'sci', 'Sc13g0004410' => 'sci', 'Sc21g0007090' => 'sci', 'Sed0009285' => 'sed', 'Sed0017583' => 'sed', 'Sed0019699' => 'sed', 'Sed0023107' => 'sed', 'SEGI_10916' => 'sgi', 'SEGI_16217' => 'sgi', 'SEGI_19466' => 'sgi', 'SEGI_41115' => 'sgi', 'SGA_v2.0_scaffold111G31534' => 'sas', 'SGA_v2.0_scaffold22G09864' => 'sas', 'SGA_v2.0_scaffold338G49219' => 'sas', 'SGA_v2.0_scaffold92G28298' => 'sas', 'SMO119G0064' => 'smo', 'SMO223G0038' => 'smo', 'SMO347G0584' => 'smo', 'SMO351G0010' => 'smo', 'SMO356G0404' => 'smo', 'Solyc01g103920.3' => 'sly', 'Solyc04g009710.2' => 'sly', 'Solyc05g055280.2' => 'sly', 'Solyc10g044520.3' => 'sly', 'Solyc10g075160.1' => 'sly', 'Solyc11g006910.3' => 'sly', 'Solyc11g068430.3' => 'sly', 'Sopen01g046310' => 'spe', 'Sopen03g001200' => 'spe', 'Sopen04g004830' => 'spe', 'Sopen05g033720' => 'spe', 'Sopen06g030740' => 'spe', 'Sopen10g013090' => 'spe', 'Sopen10g027630' => 'spe', 'Sopen10g027640' => 'spe', 'Sopen11g002820' => 'spe', 'Sopen11g027140' => 'spe', 'Sp1g09680' => 'spa', 'Sp2g03630' => 'spa', 'Sp4g10320' => 'spa', 'Sp6g33400' => 'spa', 'Sp7g13030' => 'spa', 'TAR365G0317' => 'tar', 'TAR376G0979' => 'tar', 'TAR623G1665' => 'tar', 'TAR633G2373' => 'tar', 'TAR636G1400' => 'tar', 'THA.LOC104800529' => 'tha', 'THA.LOC104808547' => 'tha', 'THA.LOC104809615' => 'tha', 'THA.LOC104815724' => 'tha', 'THA.LOC104818480' => 'tha', 'THA.LOC104819179' => 'tha', 'THA.LOC104822270' => 'tha', 'THA.LOC104826425' => 'tha', 'Thecc.02G089700' => 'tca', 'Thecc.04G232300' => 'tca', 'Thecc.09G283400' => 'tca', 'Thhalv10009020m.g' => 'esa', 'Thhalv10015506m.g' => 'esa', 'Thhalv10017364m.g' => 'esa', 'Thhalv10023742m.g' => 'esa', 'Thhalv10026483m.g' => 'esa', 'TPR.G17232' => 'tpr', 'TPR.G2133' => 'tpr', 'TPR.G2498' => 'tpr', 'TPR.G31942' => 'tpr', 'TPR.G37877' => 'tpr', 'TPR.G4571' => 'tpr', 'TWI14G1113' => 'twi', 'TWI15G0426' => 'twi', 'TWI31G1005' => 'twi', 'TWI38G0513' => 'twi', 'TWI38G1484' => 'twi', 'TWI73G1098' => 'twi', 'unitig_26.g10519' => 'ugi', 'unitig_736.g22395' => 'ugi', 'unitig_747.g21234' => 'ugi', 'unitig_747.g21942' => 'ugi', 'vmacro14351' => 'vma', 'VMungo0540G0082' => 'vmu', 'VMungo0540G0405' => 'vmu', 'VMungo0540G1486' => 'vmu', 'VMungo0540G1692' => 'vmu', 'VMungo0720G2473' => 'vmu', 'VMungo1127G1562' => 'vmu', 'VMungo1215G1918' => 'vmu', 'Zm00001eb052650' => 'zma', 'Zm00001eb063710' => 'zma', 'Zm00001eb083950' => 'zma', 'Zm00001eb174420' => 'zma', 'Zm00001eb260140' => 'zma', 'Zm00001eb260150' => 'zma', 'Zm00001eb260160' => 'zma', 'Zm00001eb348290' => 'zma', 'Zm00001eb366870' => 'zma', 'Zm00001eb421930' => 'zma' ) $gf_id = 'HOM05D001025' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001025' ) $data_identifier = 'HOM05D001025' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 19, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 2, 'amhyb' => (int) 4, 'aly' => (int) 4, 'aox' => (int) 4, 'arhy' => (int) 3, 'ath' => (int) 5, 'atr' => (int) 4, 'acertr' => (int) 3, 'cqu' => (int) 7, 'bca' => (int) 17, 'bol' => (int) 10, 'bra' => (int) 9, 'can' => (int) 10, 'cansat' => (int) 6, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 5, 'cbr' => (int) 5, 'ccan' => (int) 5, 'cde' => (int) 4, 'cfa' => (int) 3, 'ccl' => (int) 6, 'cil' => (int) 4, 'cla' => (int) 3, 'col' => (int) 3, 'cpa' => (int) 3, 'cre' => (int) 7, 'csa' => (int) 5, 'camsi' => (int) 9, 'dca' => (int) 4, 'din' => (int) 5, 'dzi' => (int) 7, 'eca' => (int) 6, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 12, 'fve' => (int) 4, 'gma' => (int) 12, 'ghi' => (int) 17, 'gra' => (int) 9, 'vvi' => (int) 2, 'han' => (int) 8, 'cav' => (int) 5, 'hma' => (int) 9, 'vpl' => (int) 4, 'sun' => (int) 2, 'lal' => (int) 9, 'lja' => (int) 5, 'lonja' => (int) 6, 'lsa' => (int) 3, 'mes' => (int) 8, 'mpo' => (int) 3, 'mbi' => (int) 4, 'mco' => (int) 3, 'mdo' => (int) 5, 'mtr' => (int) 7, 'cme' => (int) 6, 'egut' => (int) 7, 'ama' => (int) 3, 'nta' => (int) 12, 'nnu' => (int) 9, 'oeu' => (int) 4, 'osa' => (int) 7, 'pax' => (int) 9, 'pgr' => (int) 5, 'stu' => (int) 8, 'pvu' => (int) 6, 'ptr' => (int) 9, 'ppa' => (int) 9, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 7, 'pso' => (int) 10, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 3, 'sbr' => (int) 8, 'sbo' => (int) 5, 'sci' => (int) 5, 'sed' => (int) 4, 'sgi' => (int) 4, 'sas' => (int) 4, 'smo' => (int) 5, 'sly' => (int) 7, 'spe' => (int) 10, 'spa' => (int) 5, 'tar' => (int) 5, 'tha' => (int) 8, 'tca' => (int) 3, 'esa' => (int) 5, 'tpr' => (int) 6, 'twi' => (int) 6, 'ugi' => (int) 4, 'vma' => (int) 1, 'vmu' => (int) 7, 'zma' => (int) 10 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb421930' $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' => 'HOM05D001025', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '592', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p22650' => 'bna', 'A01p29720' => 'bna', 'A03p26560' => 'bna', 'A03p68820' => 'bna', 'A04p20980' => 'bna', 'A06p07730' => 'bna', 'A07p18260' => 'bna', 'A08p33710' => 'bna', 'A09p16970' => 'bna', 'A10p27490' => 'bna', 'Aa31LG1G17300' => 'aar', 'Aa31LG1G3910' => 'aar', 'Aa31LG2G9630' => 'aar', 'Aa31LG5G8360' => 'aar', 'Aa31LG9G2410' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4699' => 'aag', 'Actinidia23512' => 'ach', 'Actinidia37080' => 'ach', 'Ah.01g020380' => 'amhyb', 'Ah.08g215710' => 'amhyb', 'Ah.09g225110' => 'amhyb', 'Ah.10g036680' => 'amhyb', 'AL1G21940' => 'aly', 'AL2G15540' => 'aly', 'AL4G21520' => 'aly', 'AL7G40960' => 'aly', 'Aqoxy2G01191' => 'aox', 'Aqoxy2G03393' => 'aox', 'Aqoxy4G02775' => 'aox', 'Aqoxy6G00058' => 'aox', 'arahy.Tifrunner.gnm1.ann1.9X74H2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CW3FX9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R485W7' => 'arhy', 'AT1G10960' => 'ath', 'AT1G60950' => 'ath', 'AT2G27510' => 'ath', 'AT4G14890' => 'ath', 'AT5G10000' => 'ath', 'ATR0665G624' => 'atr', 'ATR0697G138' => 'atr', 'ATR0776G046' => 'atr', 'ATR1134G135' => 'atr', 'Atru.chr12.1025' => 'acertr', 'Atru.chr3.3241' => 'acertr', 'Atru.chr4.2460' => 'acertr', 'AUR62007427' => 'cqu', 'AUR62010960' => 'cqu', 'AUR62012201' => 'cqu', 'AUR62021470' => 'cqu', 'AUR62022834' => 'cqu', 'AUR62033635' => 'cqu', 'AUR62036186' => 'cqu', 'BcaB01g03077' => 'bca', 'BcaB02g10093' => 'bca', 'BcaB04g20295' => 'bca', 'BcaB06g28147' => 'bca', 'BcaB07g31253' => 'bca', 'BcaC01g04946' => 'bca', 'BcaC02g10614' => 'bca', 'BcaC02g10885' => 'bca', 'BcaC04g19356' => 'bca', 'BcaC04g22297' => 'bca', 'BcaC05g24977' => 'bca', 'BcaC06g31823' => 'bca', 'BcaC07g38633' => 'bca', 'BcaC09g49353' => 'bca', 'BcaC09g50168' => 'bca', 'BcaNung00322' => 'bca', 'BcaNung04769' => 'bca', 'BolC1t02753H' => 'bol', 'BolC1t03721H' => 'bol', 'BolC3t15525H' => 'bol', 'BolC4t23903H' => 'bol', 'BolC4t24231H' => 'bol', 'BolC4t27209H' => 'bol', 'BolC5t29671H' => 'bol', 'BolC8t49044H' => 'bol', 'BolC9t54999H' => 'bol', 'BolC9t59517H' => 'bol', 'BraA01t02178Z' => 'bra', 'BraA01t03099Z' => 'bra', 'BraA03t11867Z' => 'bra', 'BraA04t17667Z' => 'bra', 'BraA07t29542Z' => 'bra', 'BraA08t35287Z' => 'bra', 'BraA09t37334Z' => 'bra', 'BraA10t44801Z' => 'bra', 'BraSC39t46181Z' => 'bra', 'C01p28240' => 'bna', 'C01p37530' => 'bna', 'C03p31820' => 'bna', 'C04p24080' => 'bna', 'C04p25790' => 'bna', 'C04p56770' => 'bna', 'C05p09310' => 'bna', 'C09p21010' => 'bna', 'C09p67560' => 'bna', 'CAN.G1324.7' => 'can', 'CAN.G1358.10' => 'can', 'CAN.G1550.2' => 'can', 'CAN.G186.56' => 'can', 'CAN.G1965.1' => 'can', 'CAN.G645.15' => 'can', 'CAN.G798.26' => 'can', 'CAN.G798.27' => 'can', 'CAN.G798.29' => 'can', 'CAN.G919.31' => 'can', 'CANSAT11G0133' => 'cansat', 'CANSAT11G1171' => 'cansat', 'CANSAT11G2056' => 'cansat', 'CANSAT56G1202' => 'cansat', 'CANSAT56G1514' => 'cansat', 'CANSAT78G0455' => 'cansat', 'CARHR011190' => 'chi', 'CARHR051980' => 'chi', 'CARHR120170' => 'chi', 'CARHR203310' => 'chi', 'CARHR221490' => 'chi', 'Carub.0001s1054' => 'cru', 'Carub.0002s0431' => 'cru', 'Carub.0004s0818' => 'cru', 'Carub.0006s0846' => 'cru', 'Carub.0007s2722' => 'cru', 'Ca_00058_v3' => 'car', 'Ca_17831_v3' => 'car', 'Ca_19408_v3' => 'car', 'Ca_24397_v3' => 'car', 'Ca_25664_v3' => 'car', 'CBR_g21818' => 'cbr', 'CBR_g31195' => 'cbr', 'CBR_g32282' => 'cbr', 'CBR_g39599' => 'cbr', 'CBR_g49410' => 'cbr', 'Cc01_g09120' => 'ccan', 'Cc01_g09130' => 'ccan', 'Cc02_g09630' => 'ccan', 'Cc02_g22810' => 'ccan', 'Cc03_g03810' => 'ccan', 'CDE02G3718' => 'cde', 'CDE04G3183' => 'cde', 'CDE07G1046' => 'cde', 'CDE08G0480' => 'cde', 'Cfa005493' => 'cfa', 'Cfa010312' => 'cfa', 'Cfa015648' => 'cfa', 'Ciclev10002793m.g' => 'ccl', 'Ciclev10003356m.g' => 'ccl', 'Ciclev10006141m.g' => 'ccl', 'Ciclev10016676m.g' => 'ccl', 'Ciclev10017081m.g' => 'ccl', 'Ciclev10029499m.g' => 'ccl', 'CiPaw.01G166300' => 'cil', 'CiPaw.06G145600' => 'cil', 'CiPaw.13G040100' => 'cil', 'CiPaw.13G135800' => 'cil', 'ClCG01G012230' => 'cla', 'ClCG05G009510' => 'cla', 'ClCG08G008270' => 'cla', 'COL.COLO4_11763' => 'col', 'COL.COLO4_19876' => 'col', 'COL.COLO4_21481' => 'col', 'Cpa.g.sc118.34' => 'cpa', 'Cpa.g.sc32.13' => 'cpa', 'Cpa.g.sc58.103' => 'cpa', 'Cre03.g183850' => 'cre', 'Cre06.g306350' => 'cre', 'Cre07.g334800' => 'cre', 'Cre12.g487900' => 'cre', 'Cre14.g626700' => 'cre', 'Cre16.g658400' => 'cre', 'Cre17.g700950' => 'cre', 'CsaV3_1G014830' => 'csa', 'CsaV3_3G013320' => 'csa', 'CsaV3_3G019210' => 'csa', 'CsaV3_3G019220' => 'csa', 'CsaV3_6G004230' => 'csa', 'CSS0003773' => 'camsi', 'CSS0004563' => 'camsi', 'CSS0013949' => 'camsi', 'CSS0025971' => 'camsi', 'CSS0028570' => 'camsi', 'CSS0033127' => 'camsi', 'CSS0036051' => 'camsi', 'CSS0040087' => 'camsi', 'CSS0043179' => 'camsi', 'DCAR_006161' => 'dca', 'DCAR_010351' => 'dca', 'DCAR_012197' => 'dca', 'DCAR_024162' => 'dca', 'Dinv01030' => 'din', 'Dinv10924' => 'din', 'Dinv11835' => 'din', 'Dinv22841' => 'din', 'Dinv42553' => 'din', 'Duzib052G0560' => 'dzi', 'Duzib132G0389' => 'dzi', 'Duzib150G1181' => 'dzi', 'Duzib168G0623' => 'dzi', 'Duzib170G1036' => 'dzi', 'Duzib212G0200' => 'dzi', 'Duzib248G0194' => 'dzi', 'ECA232G2193' => 'eca', 'ECA233G0302' => 'eca', 'ECA234G2813' => 'eca', 'ECA234G4866' => 'eca', 'ECA240G3932' => 'eca', 'ECA248G0385' => 'eca', 'EL10Ac2g04781' => 'bvu', 'EL10Ac3g06445' => 'bvu', 'EL10Ac7g15825' => 'bvu', 'EL10Ac8g18550' => 'bvu', 'Eucgr.B03849' => 'egr', 'Eucgr.I02744' => 'egr', 'Eucgr.J00264' => 'egr', 'Eucgr.J00493' => 'egr', 'FAN04G2181' => 'fan', 'FAN07G2666' => 'fan', 'FAN11G0024' => 'fan', 'FAN12G1105' => 'fan', 'FAN13G0302' => 'fan', 'FAN15G2781' => 'fan', 'FAN16G1274' => 'fan', 'FAN17G2988' => 'fan', 'FAN18G2621' => 'fan', 'FAN21G0013' => 'fan', 'FAN22G1211' => 'fan', 'FAN25G3626' => 'fan', 'FvH4_2g09491' => 'fve', 'FvH4_3g24910' => 'fve', 'FvH4_4g15630' => 'fve', 'FvH4_5g28820' => 'fve', 'Glyma.01G238000' => 'gma', 'Glyma.05G168400' => 'gma', 'Glyma.08G126800' => 'gma', 'Glyma.08G188500' => 'gma', 'Glyma.10G278900' => 'gma', 'Glyma.11G005700' => 'gma', 'Glyma.11G183300' => 'gma', 'Glyma.12G089200' => 'gma', 'Glyma.12G169400' => 'gma', 'Glyma.12G169500' => 'gma', 'Glyma.12G169600' => 'gma', 'Glyma.20G110800' => 'gma', 'Gohir.A03G192900' => 'ghi', 'Gohir.A03G193000' => 'ghi', 'Gohir.A05G080700' => 'ghi', 'Gohir.A09G216000' => 'ghi', 'Gohir.A12G027700' => 'ghi', 'Gohir.A13G036200' => 'ghi', 'Gohir.A13G222600' => 'ghi', 'Gohir.D02G213900' => 'ghi', 'Gohir.D02G214000' => 'ghi', 'Gohir.D05G083700' => 'ghi', 'Gohir.D05G083800' => 'ghi', 'Gohir.D05G083850' => 'ghi', 'Gohir.D08G015400' => 'ghi', 'Gohir.D09G218400' => 'ghi', 'Gohir.D12G027100' => 'ghi', 'Gohir.D13G034500' => 'ghi', 'Gohir.D13G227400' => 'ghi', 'Gorai.005G241800' => 'gra', 'Gorai.005G241900' => 'gra', 'Gorai.006G239400' => 'gra', 'Gorai.008G027600' => 'gra', 'Gorai.009G085400' => 'gra', 'Gorai.009G085500' => 'gra', 'Gorai.013G039000' => 'gra', 'Gorai.013G194800' => 'gra', 'Gorai.013G257900' => 'gra', 'GSVIVG01000982001' => 'vvi', 'GSVIVG01017981001' => 'vvi', 'HanXRQChr01g0024061' => 'han', 'HanXRQChr09g0247831' => 'han', 'HanXRQChr10g0294611' => 'han', 'HanXRQChr10g0294621' => 'han', 'HanXRQChr11g0346821' => 'han', 'HanXRQChr13g0397461' => 'han', 'HanXRQChr16g0513651' => 'han', 'HanXRQChr16g0513701' => 'han', 'Haze_00897' => 'cav', 'Haze_01745' => 'cav', 'Haze_02486' => 'cav', 'Haze_02487' => 'cav', 'Haze_23374' => 'cav', 'Hma1.2p1_0578F.1_g182520' => 'hma', 'Hma1.2p1_0602F.1_g187350' => 'hma', 'Hma1.2p1_0602F.1_g187360' => 'hma', 'Hma1.2p1_0874F.1_g231320' => 'hma', 'Hma1.2p1_1197F.1_g266210' => 'hma', 'Hma1.2p1_1197F.1_g266220' => 'hma', 'Hma1.2p1_2167F.1_g315895' => 'hma', 'Hma1.2p1_2190F.1_g316640' => 'hma', 'Hma1.2p1_3645F.1_g337153' => 'hma', 'HPP92_004907' => 'vpl', 'HPP92_012134' => 'vpl', 'HPP92_025136' => 'vpl', 'HPP92_026087' => 'vpl', 'Hund06782' => 'sun', 'Hund06784' => 'sun', 'Lalb_Chr01g0004861' => 'lal', 'Lalb_Chr02g0140591' => 'lal', 'Lalb_Chr02g0140611' => 'lal', 'Lalb_Chr03g0028101' => 'lal', 'Lalb_Chr07g0185791' => 'lal', 'Lalb_Chr12g0204491' => 'lal', 'Lalb_Chr13g0295671' => 'lal', 'Lalb_Chr19g0136461' => 'lal', 'Lalb_Chr21g0309191' => 'lal', 'Lj1g0028158' => 'lja', 'Lj1P236T38' => 'lonja', 'Lj2C32G2' => 'lonja', 'Lj2P944T8' => 'lonja', 'Lj2P963T15' => 'lonja', 'Lj3g0011788' => 'lja', 'Lj4g0025027' => 'lja', 'Lj5P255T36' => 'lonja', 'Lj6g0018866' => 'lja', 'Lj6P608T31' => 'lonja', 'LjContig00408g0008879' => 'lja', 'Lsat_1_v5_gn_5_105820' => 'lsa', 'Lsat_1_v5_gn_6_38800' => 'lsa', 'Lsat_1_v5_gn_7_67141' => 'lsa', 'Manes.04G003400' => 'mes', 'Manes.07G020000' => 'mes', 'Manes.07G020100' => 'mes', 'Manes.07G020150' => 'mes', 'Manes.10G061500' => 'mes', 'Manes.10G123200' => 'mes', 'Manes.11G161900' => 'mes', 'Manes.15G029300' => 'mes', 'Mapoly0071s0018' => 'mpo', 'Mapoly0082s0023' => 'mpo', 'Mapoly3477s0001' => 'mpo', 'MBI05_g31233_MAGBIO' => 'mbi', 'MBI09_g05946_MAGBIO' => 'mbi', 'MBI09_g05947_MAGBIO' => 'mbi', 'MBI17_g08346_MAGBIO' => 'mbi', 'MCO04G038' => 'mco', 'MCO09G370' => 'mco', 'MCO13G605' => 'mco', 'MD00G1075500' => 'mdo', 'MD03G1144300' => 'mdo', 'MD08G1236800' => 'mdo', 'MD13G1193300' => 'mdo', 'MD15G1428700' => 'mdo', 'Medtr1g112030' => 'mtr', 'Medtr1g112050' => 'mtr', 'Medtr2g006290' => 'mtr', 'Medtr2g086510' => 'mtr', 'Medtr4g053120' => 'mtr', 'Medtr5g006320' => 'mtr', 'Medtr8g088720' => 'mtr', 'MELO3C004712.2' => 'cme', 'MELO3C006533.2' => 'cme', 'MELO3C019438.2' => 'cme', 'MELO3C019440.2' => 'cme', 'MELO3C019441.2' => 'cme', 'MELO3C019895.2' => 'cme', 'Migut.B00811' => 'egut', 'Migut.D02447' => 'egut', 'Migut.F00875' => 'egut', 'Migut.N00186' => 'egut', 'Migut.N01051' => 'egut', 'Migut.N02491' => 'egut', 'Migut.O00784' => 'egut', 'MSTRG.12367' => 'ama', 'MSTRG.18756' => 'ama', 'MSTRG.21042' => 'ama', 'Nitab4.5_0000559g0040' => 'nta', 'Nitab4.5_0000667g0190' => 'nta', 'Nitab4.5_0000755g0160' => 'nta', 'Nitab4.5_0001216g0080' => 'nta', 'Nitab4.5_0004069g0040' => 'nta', 'Nitab4.5_0004129g0010' => 'nta', 'Nitab4.5_0005744g0030' => 'nta', 'Nitab4.5_0006996g0030' => 'nta', 'Nitab4.5_0008971g0040' => 'nta', 'Nitab4.5_0009769g0020' => 'nta', 'Nitab4.5_0009833g0010' => 'nta', 'Nitab4.5_0013140g0020' => 'nta', 'Nn003s41376' => 'nnu', 'Nn1g01857' => 'nnu', 'Nn1g03611' => 'nnu', 'Nn1g06853' => 'nnu', 'Nn3g18360' => 'nnu', 'Nn4g26328' => 'nnu', 'Nn5g27531' => 'nnu', 'Nn6g34899' => 'nnu', 'Nn7g36299' => 'nnu', 'Oeu021485.1' => 'oeu', 'Oeu022433.1' => 'oeu', 'Oeu032111.1' => 'oeu', 'Oeu051608.1' => 'oeu', 'Os01g0860601' => 'osa', 'Os03g0659200' => 'osa', 'Os03g0835900' => 'osa', 'Os04g0412200' => 'osa', 'Os05g0443500' => 'osa', 'Os07g0251500' => 'osa', 'Os08g0104600' => 'osa', 'Peaxi162Scf00003g00047' => 'pax', 'Peaxi162Scf00003g00052' => 'pax', 'Peaxi162Scf00003g00394' => 'pax', 'Peaxi162Scf00091g00621' => 'pax', 'Peaxi162Scf00152g00146' => 'pax', 'Peaxi162Scf00173g00025' => 'pax', 'Peaxi162Scf00195g00102' => 'pax', 'Peaxi162Scf00402g00013' => 'pax', 'Peaxi162Scf00519g00618' => 'pax', 'PGR004G2838' => 'pgr', 'PGR044G2275' => 'pgr', 'PGR102G1377' => 'pgr', 'PGR119G1245' => 'pgr', 'PGR142G4449' => 'pgr', 'PGSC0003DMG400004532' => 'stu', 'PGSC0003DMG400011950' => 'stu', 'PGSC0003DMG400023391' => 'stu', 'PGSC0003DMG400023985' => 'stu', 'PGSC0003DMG400026360' => 'stu', 'PGSC0003DMG400035711' => 'stu', 'PGSC0003DMG400037286' => 'stu', 'PGSC0003DMG402005881' => 'stu', 'Phvul.002G045400' => 'pvu', 'Phvul.006G216600' => 'pvu', 'Phvul.006G216700' => 'pvu', 'Phvul.006G216800' => 'pvu', 'Phvul.007G022500' => 'pvu', 'Phvul.011G094400' => 'pvu', 'Potri.001G470700' => 'ptr', 'Potri.003G015200' => 'ptr', 'Potri.004G202500' => 'ptr', 'Potri.004G218400' => 'ptr', 'Potri.008G020100' => 'ptr', 'Potri.008G153200' => 'ptr', 'Potri.009G163800' => 'ptr', 'Potri.010G087300' => 'ptr', 'Potri.010G239100' => 'ptr', 'Pp3c10_16100' => 'ppa', 'Pp3c10_16880' => 'ppa', 'Pp3c16_6230' => 'ppa', 'Pp3c17_18910' => 'ppa', 'Pp3c3_22119' => 'ppa', 'Pp3c3_22140' => 'ppa', 'Pp3c4_8159' => 'ppa', 'Pp3c4_8171' => 'ppa', 'Pp3c4_8330' => 'ppa', 'PRCOL_00004098' => 'pco', 'Prupe.1G013900' => 'ppe', 'Prupe.1G226300' => 'ppe', 'Prupe.1G573600' => 'ppe', 'Prupe.6G130100' => 'ppe', 'Psat3g090040' => 'psa', 'Psat4g210440' => 'psa', 'Psat6g231040' => 'psa', 'Psat6g231080' => 'psa', 'Psat7g063000' => 'psa', 'Psat7g188000' => 'psa', 'Psat7g188040' => 'psa', 'PSO017G0206' => 'pso', 'PSO170G0501' => 'pso', 'PSO170G6422' => 'pso', 'PSO210G7739' => 'pso', 'PSO339G1808' => 'pso', 'PSO339G6135' => 'pso', 'PSO384G0010' => 'pso', 'PSO384G0964' => 'pso', 'PSO761G0050' => 'pso', 'PSO782G4085' => 'pso', 'QL01p012264' => 'qlo', 'QL02p099491' => 'qlo', 'QL03p033868' => 'qlo', 'QL04p046678' => 'qlo', 'QL06p002448' => 'qlo', 'RcHm_v2.0_Chr4g0416181' => 'rch', 'RcHm_v2.0_Chr5g0044701' => 'rch', 'RcHm_v2.0_Chr6g0265781' => 'rch', 'RcHm_v2.0_Chr7g0221031' => 'rch', 'Rhsim04G0202000' => 'rsi', 'Rhsim11G0127300' => 'rsi', 'Rhsim13G0111800' => 'rsi', 'Sabra01G0165600' => 'sbr', 'Sabra03G0008300' => 'sbr', 'Sabra04G0136900' => 'sbr', 'Sabra08G0013400' => 'sbr', 'Sabra08G0116800' => 'sbr', 'Sabra09G0128000' => 'sbr', 'Sabra10G0055500' => 'sbr', 'Sabra10G0073300' => 'sbr', 'SalBow3G0385' => 'sbo', 'SalBow3G1119' => 'sbo', 'SalBow3G2005' => 'sbo', 'SalBow6G2563' => 'sbo', 'SalBow6G6386' => 'sbo', 'Sc06g0008800' => 'sci', 'Sc07g0004950' => 'sci', 'Sc09g0005340' => 'sci', 'Sc13g0004410' => 'sci', 'Sc21g0007090' => 'sci', 'Sed0009285' => 'sed', 'Sed0017583' => 'sed', 'Sed0019699' => 'sed', 'Sed0023107' => 'sed', 'SEGI_10916' => 'sgi', 'SEGI_16217' => 'sgi', 'SEGI_19466' => 'sgi', 'SEGI_41115' => 'sgi', 'SGA_v2.0_scaffold111G31534' => 'sas', 'SGA_v2.0_scaffold22G09864' => 'sas', 'SGA_v2.0_scaffold338G49219' => 'sas', 'SGA_v2.0_scaffold92G28298' => 'sas', 'SMO119G0064' => 'smo', 'SMO223G0038' => 'smo', 'SMO347G0584' => 'smo', 'SMO351G0010' => 'smo', 'SMO356G0404' => 'smo', 'Solyc01g103920.3' => 'sly', 'Solyc04g009710.2' => 'sly', 'Solyc05g055280.2' => 'sly', 'Solyc10g044520.3' => 'sly', 'Solyc10g075160.1' => 'sly', 'Solyc11g006910.3' => 'sly', 'Solyc11g068430.3' => 'sly', 'Sopen01g046310' => 'spe', 'Sopen03g001200' => 'spe', 'Sopen04g004830' => 'spe', 'Sopen05g033720' => 'spe', 'Sopen06g030740' => 'spe', 'Sopen10g013090' => 'spe', 'Sopen10g027630' => 'spe', 'Sopen10g027640' => 'spe', 'Sopen11g002820' => 'spe', 'Sopen11g027140' => 'spe', 'Sp1g09680' => 'spa', 'Sp2g03630' => 'spa', 'Sp4g10320' => 'spa', 'Sp6g33400' => 'spa', 'Sp7g13030' => 'spa', 'TAR365G0317' => 'tar', 'TAR376G0979' => 'tar', 'TAR623G1665' => 'tar', 'TAR633G2373' => 'tar', 'TAR636G1400' => 'tar', 'THA.LOC104800529' => 'tha', 'THA.LOC104808547' => 'tha', 'THA.LOC104809615' => 'tha', 'THA.LOC104815724' => 'tha', 'THA.LOC104818480' => 'tha', 'THA.LOC104819179' => 'tha', 'THA.LOC104822270' => 'tha', 'THA.LOC104826425' => 'tha', 'Thecc.02G089700' => 'tca', 'Thecc.04G232300' => 'tca', 'Thecc.09G283400' => 'tca', 'Thhalv10009020m.g' => 'esa', 'Thhalv10015506m.g' => 'esa', 'Thhalv10017364m.g' => 'esa', 'Thhalv10023742m.g' => 'esa', 'Thhalv10026483m.g' => 'esa', 'TPR.G17232' => 'tpr', 'TPR.G2133' => 'tpr', 'TPR.G2498' => 'tpr', 'TPR.G31942' => 'tpr', 'TPR.G37877' => 'tpr', 'TPR.G4571' => 'tpr', 'TWI14G1113' => 'twi', 'TWI15G0426' => 'twi', 'TWI31G1005' => 'twi', 'TWI38G0513' => 'twi', 'TWI38G1484' => 'twi', 'TWI73G1098' => 'twi', 'unitig_26.g10519' => 'ugi', 'unitig_736.g22395' => 'ugi', 'unitig_747.g21234' => 'ugi', 'unitig_747.g21942' => 'ugi', 'vmacro14351' => 'vma', 'VMungo0540G0082' => 'vmu', 'VMungo0540G0405' => 'vmu', 'VMungo0540G1486' => 'vmu', 'VMungo0540G1692' => 'vmu', 'VMungo0720G2473' => 'vmu', 'VMungo1127G1562' => 'vmu', 'VMungo1215G1918' => 'vmu', 'Zm00001eb052650' => 'zma', 'Zm00001eb063710' => 'zma', 'Zm00001eb083950' => 'zma', 'Zm00001eb174420' => 'zma', 'Zm00001eb260140' => 'zma', 'Zm00001eb260150' => 'zma', 'Zm00001eb260160' => 'zma', 'Zm00001eb348290' => 'zma', 'Zm00001eb366870' => 'zma', 'Zm00001eb421930' => 'zma' ), 'gf_id' => 'HOM05D001025', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001025' ), 'data_identifier' => 'HOM05D001025', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001025', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '592', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p22650' => 'bna', 'A01p29720' => 'bna', 'A03p26560' => 'bna', 'A03p68820' => 'bna', 'A04p20980' => 'bna', 'A06p07730' => 'bna', 'A07p18260' => 'bna', 'A08p33710' => 'bna', 'A09p16970' => 'bna', 'A10p27490' => 'bna', 'Aa31LG1G17300' => 'aar', 'Aa31LG1G3910' => 'aar', 'Aa31LG2G9630' => 'aar', 'Aa31LG5G8360' => 'aar', 'Aa31LG9G2410' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4699' => 'aag', 'Actinidia23512' => 'ach', 'Actinidia37080' => 'ach', 'Ah.01g020380' => 'amhyb', 'Ah.08g215710' => 'amhyb', 'Ah.09g225110' => 'amhyb', 'Ah.10g036680' => 'amhyb', 'AL1G21940' => 'aly', 'AL2G15540' => 'aly', 'AL4G21520' => 'aly', 'AL7G40960' => 'aly', 'Aqoxy2G01191' => 'aox', 'Aqoxy2G03393' => 'aox', 'Aqoxy4G02775' => 'aox', 'Aqoxy6G00058' => 'aox', 'arahy.Tifrunner.gnm1.ann1.9X74H2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CW3FX9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R485W7' => 'arhy', 'AT1G10960' => 'ath', 'AT1G60950' => 'ath', 'AT2G27510' => 'ath', 'AT4G14890' => 'ath', 'AT5G10000' => 'ath', 'ATR0665G624' => 'atr', 'ATR0697G138' => 'atr', 'ATR0776G046' => 'atr', 'ATR1134G135' => 'atr', 'Atru.chr12.1025' => 'acertr', 'Atru.chr3.3241' => 'acertr', 'Atru.chr4.2460' => 'acertr', 'AUR62007427' => 'cqu', 'AUR62010960' => 'cqu', 'AUR62012201' => 'cqu', 'AUR62021470' => 'cqu', 'AUR62022834' => 'cqu', 'AUR62033635' => 'cqu', 'AUR62036186' => 'cqu', 'BcaB01g03077' => 'bca', 'BcaB02g10093' => 'bca', 'BcaB04g20295' => 'bca', 'BcaB06g28147' => 'bca', 'BcaB07g31253' => 'bca', 'BcaC01g04946' => 'bca', 'BcaC02g10614' => 'bca', 'BcaC02g10885' => 'bca', 'BcaC04g19356' => 'bca', 'BcaC04g22297' => 'bca', 'BcaC05g24977' => 'bca', 'BcaC06g31823' => 'bca', 'BcaC07g38633' => 'bca', 'BcaC09g49353' => 'bca', 'BcaC09g50168' => 'bca', 'BcaNung00322' => 'bca', 'BcaNung04769' => 'bca', 'BolC1t02753H' => 'bol', 'BolC1t03721H' => 'bol', 'BolC3t15525H' => 'bol', 'BolC4t23903H' => 'bol', 'BolC4t24231H' => 'bol', 'BolC4t27209H' => 'bol', 'BolC5t29671H' => 'bol', 'BolC8t49044H' => 'bol', 'BolC9t54999H' => 'bol', 'BolC9t59517H' => 'bol', 'BraA01t02178Z' => 'bra', 'BraA01t03099Z' => 'bra', 'BraA03t11867Z' => 'bra', 'BraA04t17667Z' => 'bra', 'BraA07t29542Z' => 'bra', 'BraA08t35287Z' => 'bra', 'BraA09t37334Z' => 'bra', 'BraA10t44801Z' => 'bra', 'BraSC39t46181Z' => 'bra', 'C01p28240' => 'bna', 'C01p37530' => 'bna', 'C03p31820' => 'bna', 'C04p24080' => 'bna', 'C04p25790' => 'bna', 'C04p56770' => 'bna', 'C05p09310' => 'bna', 'C09p21010' => 'bna', 'C09p67560' => 'bna', 'CAN.G1324.7' => 'can', 'CAN.G1358.10' => 'can', 'CAN.G1550.2' => 'can', 'CAN.G186.56' => 'can', 'CAN.G1965.1' => 'can', 'CAN.G645.15' => 'can', 'CAN.G798.26' => 'can', 'CAN.G798.27' => 'can', 'CAN.G798.29' => 'can', 'CAN.G919.31' => 'can', 'CANSAT11G0133' => 'cansat', 'CANSAT11G1171' => 'cansat', 'CANSAT11G2056' => 'cansat', 'CANSAT56G1202' => 'cansat', 'CANSAT56G1514' => 'cansat', 'CANSAT78G0455' => 'cansat', 'CARHR011190' => 'chi', 'CARHR051980' => 'chi', 'CARHR120170' => 'chi', 'CARHR203310' => 'chi', 'CARHR221490' => 'chi', 'Carub.0001s1054' => 'cru', 'Carub.0002s0431' => 'cru', 'Carub.0004s0818' => 'cru', 'Carub.0006s0846' => 'cru', 'Carub.0007s2722' => 'cru', 'Ca_00058_v3' => 'car', 'Ca_17831_v3' => 'car', 'Ca_19408_v3' => 'car', 'Ca_24397_v3' => 'car', 'Ca_25664_v3' => 'car', 'CBR_g21818' => 'cbr', 'CBR_g31195' => 'cbr', 'CBR_g32282' => 'cbr', 'CBR_g39599' => 'cbr', 'CBR_g49410' => 'cbr', 'Cc01_g09120' => 'ccan', 'Cc01_g09130' => 'ccan', 'Cc02_g09630' => 'ccan', 'Cc02_g22810' => 'ccan', 'Cc03_g03810' => 'ccan', 'CDE02G3718' => 'cde', 'CDE04G3183' => 'cde', 'CDE07G1046' => 'cde', 'CDE08G0480' => 'cde', 'Cfa005493' => 'cfa', 'Cfa010312' => 'cfa', 'Cfa015648' => 'cfa', 'Ciclev10002793m.g' => 'ccl', 'Ciclev10003356m.g' => 'ccl', 'Ciclev10006141m.g' => 'ccl', 'Ciclev10016676m.g' => 'ccl', 'Ciclev10017081m.g' => 'ccl', 'Ciclev10029499m.g' => 'ccl', 'CiPaw.01G166300' => 'cil', 'CiPaw.06G145600' => 'cil', 'CiPaw.13G040100' => 'cil', 'CiPaw.13G135800' => 'cil', 'ClCG01G012230' => 'cla', 'ClCG05G009510' => 'cla', 'ClCG08G008270' => 'cla', 'COL.COLO4_11763' => 'col', 'COL.COLO4_19876' => 'col', 'COL.COLO4_21481' => 'col', 'Cpa.g.sc118.34' => 'cpa', 'Cpa.g.sc32.13' => 'cpa', 'Cpa.g.sc58.103' => 'cpa', 'Cre03.g183850' => 'cre', 'Cre06.g306350' => 'cre', 'Cre07.g334800' => 'cre', 'Cre12.g487900' => 'cre', 'Cre14.g626700' => 'cre', 'Cre16.g658400' => 'cre', 'Cre17.g700950' => 'cre', 'CsaV3_1G014830' => 'csa', 'CsaV3_3G013320' => 'csa', 'CsaV3_3G019210' => 'csa', 'CsaV3_3G019220' => 'csa', 'CsaV3_6G004230' => 'csa', 'CSS0003773' => 'camsi', 'CSS0004563' => 'camsi', 'CSS0013949' => 'camsi', 'CSS0025971' => 'camsi', 'CSS0028570' => 'camsi', 'CSS0033127' => 'camsi', 'CSS0036051' => 'camsi', 'CSS0040087' => 'camsi', 'CSS0043179' => 'camsi', 'DCAR_006161' => 'dca', 'DCAR_010351' => 'dca', 'DCAR_012197' => 'dca', 'DCAR_024162' => 'dca', 'Dinv01030' => 'din', 'Dinv10924' => 'din', 'Dinv11835' => 'din', 'Dinv22841' => 'din', 'Dinv42553' => 'din', 'Duzib052G0560' => 'dzi', 'Duzib132G0389' => 'dzi', 'Duzib150G1181' => 'dzi', 'Duzib168G0623' => 'dzi', 'Duzib170G1036' => 'dzi', 'Duzib212G0200' => 'dzi', 'Duzib248G0194' => 'dzi', 'ECA232G2193' => 'eca', 'ECA233G0302' => 'eca', 'ECA234G2813' => 'eca', 'ECA234G4866' => 'eca', 'ECA240G3932' => 'eca', 'ECA248G0385' => 'eca', 'EL10Ac2g04781' => 'bvu', 'EL10Ac3g06445' => 'bvu', 'EL10Ac7g15825' => 'bvu', 'EL10Ac8g18550' => 'bvu', 'Eucgr.B03849' => 'egr', 'Eucgr.I02744' => 'egr', 'Eucgr.J00264' => 'egr', 'Eucgr.J00493' => 'egr', 'FAN04G2181' => 'fan', 'FAN07G2666' => 'fan', 'FAN11G0024' => 'fan', 'FAN12G1105' => 'fan', 'FAN13G0302' => 'fan', 'FAN15G2781' => 'fan', 'FAN16G1274' => 'fan', 'FAN17G2988' => 'fan', 'FAN18G2621' => 'fan', 'FAN21G0013' => 'fan', 'FAN22G1211' => 'fan', 'FAN25G3626' => 'fan', 'FvH4_2g09491' => 'fve', 'FvH4_3g24910' => 'fve', 'FvH4_4g15630' => 'fve', 'FvH4_5g28820' => 'fve', 'Glyma.01G238000' => 'gma', 'Glyma.05G168400' => 'gma', 'Glyma.08G126800' => 'gma', 'Glyma.08G188500' => 'gma', 'Glyma.10G278900' => 'gma', 'Glyma.11G005700' => 'gma', 'Glyma.11G183300' => 'gma', 'Glyma.12G089200' => 'gma', 'Glyma.12G169400' => 'gma', 'Glyma.12G169500' => 'gma', 'Glyma.12G169600' => 'gma', 'Glyma.20G110800' => 'gma', 'Gohir.A03G192900' => 'ghi', 'Gohir.A03G193000' => 'ghi', 'Gohir.A05G080700' => 'ghi', 'Gohir.A09G216000' => 'ghi', 'Gohir.A12G027700' => 'ghi', 'Gohir.A13G036200' => 'ghi', 'Gohir.A13G222600' => 'ghi', 'Gohir.D02G213900' => 'ghi', 'Gohir.D02G214000' => 'ghi', 'Gohir.D05G083700' => 'ghi', 'Gohir.D05G083800' => 'ghi', 'Gohir.D05G083850' => 'ghi', 'Gohir.D08G015400' => 'ghi', 'Gohir.D09G218400' => 'ghi', 'Gohir.D12G027100' => 'ghi', 'Gohir.D13G034500' => 'ghi', 'Gohir.D13G227400' => 'ghi', 'Gorai.005G241800' => 'gra', 'Gorai.005G241900' => 'gra', 'Gorai.006G239400' => 'gra', 'Gorai.008G027600' => 'gra', 'Gorai.009G085400' => 'gra', 'Gorai.009G085500' => 'gra', 'Gorai.013G039000' => 'gra', 'Gorai.013G194800' => 'gra', 'Gorai.013G257900' => 'gra', 'GSVIVG01000982001' => 'vvi', 'GSVIVG01017981001' => 'vvi', 'HanXRQChr01g0024061' => 'han', 'HanXRQChr09g0247831' => 'han', 'HanXRQChr10g0294611' => 'han', 'HanXRQChr10g0294621' => 'han', 'HanXRQChr11g0346821' => 'han', 'HanXRQChr13g0397461' => 'han', 'HanXRQChr16g0513651' => 'han', 'HanXRQChr16g0513701' => 'han', 'Haze_00897' => 'cav', 'Haze_01745' => 'cav', 'Haze_02486' => 'cav', 'Haze_02487' => 'cav', 'Haze_23374' => 'cav', 'Hma1.2p1_0578F.1_g182520' => 'hma', 'Hma1.2p1_0602F.1_g187350' => 'hma', 'Hma1.2p1_0602F.1_g187360' => 'hma', 'Hma1.2p1_0874F.1_g231320' => 'hma', 'Hma1.2p1_1197F.1_g266210' => 'hma', 'Hma1.2p1_1197F.1_g266220' => 'hma', 'Hma1.2p1_2167F.1_g315895' => 'hma', 'Hma1.2p1_2190F.1_g316640' => 'hma', 'Hma1.2p1_3645F.1_g337153' => 'hma', 'HPP92_004907' => 'vpl', 'HPP92_012134' => 'vpl', 'HPP92_025136' => 'vpl', 'HPP92_026087' => 'vpl', 'Hund06782' => 'sun', 'Hund06784' => 'sun', 'Lalb_Chr01g0004861' => 'lal', 'Lalb_Chr02g0140591' => 'lal', 'Lalb_Chr02g0140611' => 'lal', 'Lalb_Chr03g0028101' => 'lal', 'Lalb_Chr07g0185791' => 'lal', 'Lalb_Chr12g0204491' => 'lal', 'Lalb_Chr13g0295671' => 'lal', 'Lalb_Chr19g0136461' => 'lal', 'Lalb_Chr21g0309191' => 'lal', 'Lj1g0028158' => 'lja', 'Lj1P236T38' => 'lonja', 'Lj2C32G2' => 'lonja', 'Lj2P944T8' => 'lonja', 'Lj2P963T15' => 'lonja', 'Lj3g0011788' => 'lja', 'Lj4g0025027' => 'lja', 'Lj5P255T36' => 'lonja', 'Lj6g0018866' => 'lja', 'Lj6P608T31' => 'lonja', 'LjContig00408g0008879' => 'lja', 'Lsat_1_v5_gn_5_105820' => 'lsa', 'Lsat_1_v5_gn_6_38800' => 'lsa', 'Lsat_1_v5_gn_7_67141' => 'lsa', 'Manes.04G003400' => 'mes', 'Manes.07G020000' => 'mes', 'Manes.07G020100' => 'mes', 'Manes.07G020150' => 'mes', 'Manes.10G061500' => 'mes', 'Manes.10G123200' => 'mes', 'Manes.11G161900' => 'mes', 'Manes.15G029300' => 'mes', 'Mapoly0071s0018' => 'mpo', 'Mapoly0082s0023' => 'mpo', 'Mapoly3477s0001' => 'mpo', 'MBI05_g31233_MAGBIO' => 'mbi', 'MBI09_g05946_MAGBIO' => 'mbi', 'MBI09_g05947_MAGBIO' => 'mbi', 'MBI17_g08346_MAGBIO' => 'mbi', 'MCO04G038' => 'mco', 'MCO09G370' => 'mco', 'MCO13G605' => 'mco', 'MD00G1075500' => 'mdo', 'MD03G1144300' => 'mdo', 'MD08G1236800' => 'mdo', 'MD13G1193300' => 'mdo', 'MD15G1428700' => 'mdo', 'Medtr1g112030' => 'mtr', 'Medtr1g112050' => 'mtr', 'Medtr2g006290' => 'mtr', 'Medtr2g086510' => 'mtr', 'Medtr4g053120' => 'mtr', 'Medtr5g006320' => 'mtr', 'Medtr8g088720' => 'mtr', 'MELO3C004712.2' => 'cme', 'MELO3C006533.2' => 'cme', 'MELO3C019438.2' => 'cme', 'MELO3C019440.2' => 'cme', 'MELO3C019441.2' => 'cme', 'MELO3C019895.2' => 'cme', 'Migut.B00811' => 'egut', 'Migut.D02447' => 'egut', 'Migut.F00875' => 'egut', 'Migut.N00186' => 'egut', 'Migut.N01051' => 'egut', 'Migut.N02491' => 'egut', 'Migut.O00784' => 'egut', 'MSTRG.12367' => 'ama', 'MSTRG.18756' => 'ama', 'MSTRG.21042' => 'ama', 'Nitab4.5_0000559g0040' => 'nta', 'Nitab4.5_0000667g0190' => 'nta', 'Nitab4.5_0000755g0160' => 'nta', 'Nitab4.5_0001216g0080' => 'nta', 'Nitab4.5_0004069g0040' => 'nta', 'Nitab4.5_0004129g0010' => 'nta', 'Nitab4.5_0005744g0030' => 'nta', 'Nitab4.5_0006996g0030' => 'nta', 'Nitab4.5_0008971g0040' => 'nta', 'Nitab4.5_0009769g0020' => 'nta', 'Nitab4.5_0009833g0010' => 'nta', 'Nitab4.5_0013140g0020' => 'nta', 'Nn003s41376' => 'nnu', 'Nn1g01857' => 'nnu', 'Nn1g03611' => 'nnu', 'Nn1g06853' => 'nnu', 'Nn3g18360' => 'nnu', 'Nn4g26328' => 'nnu', 'Nn5g27531' => 'nnu', 'Nn6g34899' => 'nnu', 'Nn7g36299' => 'nnu', 'Oeu021485.1' => 'oeu', 'Oeu022433.1' => 'oeu', 'Oeu032111.1' => 'oeu', 'Oeu051608.1' => 'oeu', 'Os01g0860601' => 'osa', 'Os03g0659200' => 'osa', 'Os03g0835900' => 'osa', 'Os04g0412200' => 'osa', 'Os05g0443500' => 'osa', 'Os07g0251500' => 'osa', 'Os08g0104600' => 'osa', 'Peaxi162Scf00003g00047' => 'pax', 'Peaxi162Scf00003g00052' => 'pax', 'Peaxi162Scf00003g00394' => 'pax', 'Peaxi162Scf00091g00621' => 'pax', 'Peaxi162Scf00152g00146' => 'pax', 'Peaxi162Scf00173g00025' => 'pax', 'Peaxi162Scf00195g00102' => 'pax', 'Peaxi162Scf00402g00013' => 'pax', 'Peaxi162Scf00519g00618' => 'pax', 'PGR004G2838' => 'pgr', 'PGR044G2275' => 'pgr', 'PGR102G1377' => 'pgr', 'PGR119G1245' => 'pgr', 'PGR142G4449' => 'pgr', 'PGSC0003DMG400004532' => 'stu', 'PGSC0003DMG400011950' => 'stu', 'PGSC0003DMG400023391' => 'stu', 'PGSC0003DMG400023985' => 'stu', 'PGSC0003DMG400026360' => 'stu', 'PGSC0003DMG400035711' => 'stu', 'PGSC0003DMG400037286' => 'stu', 'PGSC0003DMG402005881' => 'stu', 'Phvul.002G045400' => 'pvu', 'Phvul.006G216600' => 'pvu', 'Phvul.006G216700' => 'pvu', 'Phvul.006G216800' => 'pvu', 'Phvul.007G022500' => 'pvu', 'Phvul.011G094400' => 'pvu', 'Potri.001G470700' => 'ptr', 'Potri.003G015200' => 'ptr', 'Potri.004G202500' => 'ptr', 'Potri.004G218400' => 'ptr', 'Potri.008G020100' => 'ptr', 'Potri.008G153200' => 'ptr', 'Potri.009G163800' => 'ptr', 'Potri.010G087300' => 'ptr', 'Potri.010G239100' => 'ptr', 'Pp3c10_16100' => 'ppa', 'Pp3c10_16880' => 'ppa', 'Pp3c16_6230' => 'ppa', 'Pp3c17_18910' => 'ppa', 'Pp3c3_22119' => 'ppa', 'Pp3c3_22140' => 'ppa', 'Pp3c4_8159' => 'ppa', 'Pp3c4_8171' => 'ppa', 'Pp3c4_8330' => 'ppa', 'PRCOL_00004098' => 'pco', 'Prupe.1G013900' => 'ppe', 'Prupe.1G226300' => 'ppe', 'Prupe.1G573600' => 'ppe', 'Prupe.6G130100' => 'ppe', 'Psat3g090040' => 'psa', 'Psat4g210440' => 'psa', 'Psat6g231040' => 'psa', 'Psat6g231080' => 'psa', 'Psat7g063000' => 'psa', 'Psat7g188000' => 'psa', 'Psat7g188040' => 'psa', 'PSO017G0206' => 'pso', 'PSO170G0501' => 'pso', 'PSO170G6422' => 'pso', 'PSO210G7739' => 'pso', 'PSO339G1808' => 'pso', 'PSO339G6135' => 'pso', 'PSO384G0010' => 'pso', 'PSO384G0964' => 'pso', 'PSO761G0050' => 'pso', 'PSO782G4085' => 'pso', 'QL01p012264' => 'qlo', 'QL02p099491' => 'qlo', 'QL03p033868' => 'qlo', 'QL04p046678' => 'qlo', 'QL06p002448' => 'qlo', 'RcHm_v2.0_Chr4g0416181' => 'rch', 'RcHm_v2.0_Chr5g0044701' => 'rch', 'RcHm_v2.0_Chr6g0265781' => 'rch', 'RcHm_v2.0_Chr7g0221031' => 'rch', 'Rhsim04G0202000' => 'rsi', 'Rhsim11G0127300' => 'rsi', 'Rhsim13G0111800' => 'rsi', 'Sabra01G0165600' => 'sbr', 'Sabra03G0008300' => 'sbr', 'Sabra04G0136900' => 'sbr', 'Sabra08G0013400' => 'sbr', 'Sabra08G0116800' => 'sbr', 'Sabra09G0128000' => 'sbr', 'Sabra10G0055500' => 'sbr', 'Sabra10G0073300' => 'sbr', 'SalBow3G0385' => 'sbo', 'SalBow3G1119' => 'sbo', 'SalBow3G2005' => 'sbo', 'SalBow6G2563' => 'sbo', 'SalBow6G6386' => 'sbo', 'Sc06g0008800' => 'sci', 'Sc07g0004950' => 'sci', 'Sc09g0005340' => 'sci', 'Sc13g0004410' => 'sci', 'Sc21g0007090' => 'sci', 'Sed0009285' => 'sed', 'Sed0017583' => 'sed', 'Sed0019699' => 'sed', 'Sed0023107' => 'sed', 'SEGI_10916' => 'sgi', 'SEGI_16217' => 'sgi', 'SEGI_19466' => 'sgi', 'SEGI_41115' => 'sgi', 'SGA_v2.0_scaffold111G31534' => 'sas', 'SGA_v2.0_scaffold22G09864' => 'sas', 'SGA_v2.0_scaffold338G49219' => 'sas', 'SGA_v2.0_scaffold92G28298' => 'sas', 'SMO119G0064' => 'smo', 'SMO223G0038' => 'smo', 'SMO347G0584' => 'smo', 'SMO351G0010' => 'smo', 'SMO356G0404' => 'smo', 'Solyc01g103920.3' => 'sly', 'Solyc04g009710.2' => 'sly', 'Solyc05g055280.2' => 'sly', 'Solyc10g044520.3' => 'sly', 'Solyc10g075160.1' => 'sly', 'Solyc11g006910.3' => 'sly', 'Solyc11g068430.3' => 'sly', 'Sopen01g046310' => 'spe', 'Sopen03g001200' => 'spe', 'Sopen04g004830' => 'spe', 'Sopen05g033720' => 'spe', 'Sopen06g030740' => 'spe', 'Sopen10g013090' => 'spe', 'Sopen10g027630' => 'spe', 'Sopen10g027640' => 'spe', 'Sopen11g002820' => 'spe', 'Sopen11g027140' => 'spe', 'Sp1g09680' => 'spa', 'Sp2g03630' => 'spa', 'Sp4g10320' => 'spa', 'Sp6g33400' => 'spa', 'Sp7g13030' => 'spa', 'TAR365G0317' => 'tar', 'TAR376G0979' => 'tar', 'TAR623G1665' => 'tar', 'TAR633G2373' => 'tar', 'TAR636G1400' => 'tar', 'THA.LOC104800529' => 'tha', 'THA.LOC104808547' => 'tha', 'THA.LOC104809615' => 'tha', 'THA.LOC104815724' => 'tha', 'THA.LOC104818480' => 'tha', 'THA.LOC104819179' => 'tha', 'THA.LOC104822270' => 'tha', 'THA.LOC104826425' => 'tha', 'Thecc.02G089700' => 'tca', 'Thecc.04G232300' => 'tca', 'Thecc.09G283400' => 'tca', 'Thhalv10009020m.g' => 'esa', 'Thhalv10015506m.g' => 'esa', 'Thhalv10017364m.g' => 'esa', 'Thhalv10023742m.g' => 'esa', 'Thhalv10026483m.g' => 'esa', 'TPR.G17232' => 'tpr', 'TPR.G2133' => 'tpr', 'TPR.G2498' => 'tpr', 'TPR.G31942' => 'tpr', 'TPR.G37877' => 'tpr', 'TPR.G4571' => 'tpr', 'TWI14G1113' => 'twi', 'TWI15G0426' => 'twi', 'TWI31G1005' => 'twi', 'TWI38G0513' => 'twi', 'TWI38G1484' => 'twi', 'TWI73G1098' => 'twi', 'unitig_26.g10519' => 'ugi', 'unitig_736.g22395' => 'ugi', 'unitig_747.g21234' => 'ugi', 'unitig_747.g21942' => 'ugi', 'vmacro14351' => 'vma', 'VMungo0540G0082' => 'vmu', 'VMungo0540G0405' => 'vmu', 'VMungo0540G1486' => 'vmu', 'VMungo0540G1692' => 'vmu', 'VMungo0720G2473' => 'vmu', 'VMungo1127G1562' => 'vmu', 'VMungo1215G1918' => 'vmu', 'Zm00001eb052650' => 'zma', 'Zm00001eb063710' => 'zma', 'Zm00001eb083950' => 'zma', 'Zm00001eb174420' => 'zma', 'Zm00001eb260140' => 'zma', 'Zm00001eb260150' => 'zma', 'Zm00001eb260160' => 'zma', 'Zm00001eb348290' => 'zma', 'Zm00001eb366870' => 'zma', 'Zm00001eb421930' => 'zma' ) $gf_id = 'HOM05D001025' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001025' ) $data_identifier = 'HOM05D001025' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 19, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 2, 'amhyb' => (int) 4, 'aly' => (int) 4, 'aox' => (int) 4, 'arhy' => (int) 3, 'ath' => (int) 5, 'atr' => (int) 4, 'acertr' => (int) 3, 'cqu' => (int) 7, 'bca' => (int) 17, 'bol' => (int) 10, 'bra' => (int) 9, 'can' => (int) 10, 'cansat' => (int) 6, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 5, 'cbr' => (int) 5, 'ccan' => (int) 5, 'cde' => (int) 4, 'cfa' => (int) 3, 'ccl' => (int) 6, 'cil' => (int) 4, 'cla' => (int) 3, 'col' => (int) 3, 'cpa' => (int) 3, 'cre' => (int) 7, 'csa' => (int) 5, 'camsi' => (int) 9, 'dca' => (int) 4, 'din' => (int) 5, 'dzi' => (int) 7, 'eca' => (int) 6, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 12, 'fve' => (int) 4, 'gma' => (int) 12, 'ghi' => (int) 17, 'gra' => (int) 9, 'vvi' => (int) 2, 'han' => (int) 8, 'cav' => (int) 5, 'hma' => (int) 9, 'vpl' => (int) 4, 'sun' => (int) 2, 'lal' => (int) 9, 'lja' => (int) 5, 'lonja' => (int) 6, 'lsa' => (int) 3, 'mes' => (int) 8, 'mpo' => (int) 3, 'mbi' => (int) 4, 'mco' => (int) 3, 'mdo' => (int) 5, 'mtr' => (int) 7, 'cme' => (int) 6, 'egut' => (int) 7, 'ama' => (int) 3, 'nta' => (int) 12, 'nnu' => (int) 9, 'oeu' => (int) 4, 'osa' => (int) 7, 'pax' => (int) 9, 'pgr' => (int) 5, 'stu' => (int) 8, 'pvu' => (int) 6, 'ptr' => (int) 9, 'ppa' => (int) 9, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 7, 'pso' => (int) 10, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 3, 'sbr' => (int) 8, 'sbo' => (int) 5, 'sci' => (int) 5, 'sed' => (int) 4, 'sgi' => (int) 4, 'sas' => (int) 4, 'smo' => (int) 5, 'sly' => (int) 7, 'spe' => (int) 10, 'spa' => (int) 5, 'tar' => (int) 5, 'tha' => (int) 8, 'tca' => (int) 3, 'esa' => (int) 5, 'tpr' => (int) 6, 'twi' => (int) 6, 'ugi' => (int) 4, 'vma' => (int) 1, 'vmu' => (int) 7, 'zma' => (int) 10 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb421930' $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' => 'HOM05D001025', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '592', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p22650' => 'bna', 'A01p29720' => 'bna', 'A03p26560' => 'bna', 'A03p68820' => 'bna', 'A04p20980' => 'bna', 'A06p07730' => 'bna', 'A07p18260' => 'bna', 'A08p33710' => 'bna', 'A09p16970' => 'bna', 'A10p27490' => 'bna', 'Aa31LG1G17300' => 'aar', 'Aa31LG1G3910' => 'aar', 'Aa31LG2G9630' => 'aar', 'Aa31LG5G8360' => 'aar', 'Aa31LG9G2410' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4699' => 'aag', 'Actinidia23512' => 'ach', 'Actinidia37080' => 'ach', 'Ah.01g020380' => 'amhyb', 'Ah.08g215710' => 'amhyb', 'Ah.09g225110' => 'amhyb', 'Ah.10g036680' => 'amhyb', 'AL1G21940' => 'aly', 'AL2G15540' => 'aly', 'AL4G21520' => 'aly', 'AL7G40960' => 'aly', 'Aqoxy2G01191' => 'aox', 'Aqoxy2G03393' => 'aox', 'Aqoxy4G02775' => 'aox', 'Aqoxy6G00058' => 'aox', 'arahy.Tifrunner.gnm1.ann1.9X74H2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CW3FX9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R485W7' => 'arhy', 'AT1G10960' => 'ath', 'AT1G60950' => 'ath', 'AT2G27510' => 'ath', 'AT4G14890' => 'ath', 'AT5G10000' => 'ath', 'ATR0665G624' => 'atr', 'ATR0697G138' => 'atr', 'ATR0776G046' => 'atr', 'ATR1134G135' => 'atr', 'Atru.chr12.1025' => 'acertr', 'Atru.chr3.3241' => 'acertr', 'Atru.chr4.2460' => 'acertr', 'AUR62007427' => 'cqu', 'AUR62010960' => 'cqu', 'AUR62012201' => 'cqu', 'AUR62021470' => 'cqu', 'AUR62022834' => 'cqu', 'AUR62033635' => 'cqu', 'AUR62036186' => 'cqu', 'BcaB01g03077' => 'bca', 'BcaB02g10093' => 'bca', 'BcaB04g20295' => 'bca', 'BcaB06g28147' => 'bca', 'BcaB07g31253' => 'bca', 'BcaC01g04946' => 'bca', 'BcaC02g10614' => 'bca', 'BcaC02g10885' => 'bca', 'BcaC04g19356' => 'bca', 'BcaC04g22297' => 'bca', 'BcaC05g24977' => 'bca', 'BcaC06g31823' => 'bca', 'BcaC07g38633' => 'bca', 'BcaC09g49353' => 'bca', 'BcaC09g50168' => 'bca', 'BcaNung00322' => 'bca', 'BcaNung04769' => 'bca', 'BolC1t02753H' => 'bol', 'BolC1t03721H' => 'bol', 'BolC3t15525H' => 'bol', 'BolC4t23903H' => 'bol', 'BolC4t24231H' => 'bol', 'BolC4t27209H' => 'bol', 'BolC5t29671H' => 'bol', 'BolC8t49044H' => 'bol', 'BolC9t54999H' => 'bol', 'BolC9t59517H' => 'bol', 'BraA01t02178Z' => 'bra', 'BraA01t03099Z' => 'bra', 'BraA03t11867Z' => 'bra', 'BraA04t17667Z' => 'bra', 'BraA07t29542Z' => 'bra', 'BraA08t35287Z' => 'bra', 'BraA09t37334Z' => 'bra', 'BraA10t44801Z' => 'bra', 'BraSC39t46181Z' => 'bra', 'C01p28240' => 'bna', 'C01p37530' => 'bna', 'C03p31820' => 'bna', 'C04p24080' => 'bna', 'C04p25790' => 'bna', 'C04p56770' => 'bna', 'C05p09310' => 'bna', 'C09p21010' => 'bna', 'C09p67560' => 'bna', 'CAN.G1324.7' => 'can', 'CAN.G1358.10' => 'can', 'CAN.G1550.2' => 'can', 'CAN.G186.56' => 'can', 'CAN.G1965.1' => 'can', 'CAN.G645.15' => 'can', 'CAN.G798.26' => 'can', 'CAN.G798.27' => 'can', 'CAN.G798.29' => 'can', 'CAN.G919.31' => 'can', 'CANSAT11G0133' => 'cansat', 'CANSAT11G1171' => 'cansat', 'CANSAT11G2056' => 'cansat', 'CANSAT56G1202' => 'cansat', 'CANSAT56G1514' => 'cansat', 'CANSAT78G0455' => 'cansat', 'CARHR011190' => 'chi', 'CARHR051980' => 'chi', 'CARHR120170' => 'chi', 'CARHR203310' => 'chi', 'CARHR221490' => 'chi', 'Carub.0001s1054' => 'cru', 'Carub.0002s0431' => 'cru', 'Carub.0004s0818' => 'cru', 'Carub.0006s0846' => 'cru', 'Carub.0007s2722' => 'cru', 'Ca_00058_v3' => 'car', 'Ca_17831_v3' => 'car', 'Ca_19408_v3' => 'car', 'Ca_24397_v3' => 'car', 'Ca_25664_v3' => 'car', 'CBR_g21818' => 'cbr', 'CBR_g31195' => 'cbr', 'CBR_g32282' => 'cbr', 'CBR_g39599' => 'cbr', 'CBR_g49410' => 'cbr', 'Cc01_g09120' => 'ccan', 'Cc01_g09130' => 'ccan', 'Cc02_g09630' => 'ccan', 'Cc02_g22810' => 'ccan', 'Cc03_g03810' => 'ccan', 'CDE02G3718' => 'cde', 'CDE04G3183' => 'cde', 'CDE07G1046' => 'cde', 'CDE08G0480' => 'cde', 'Cfa005493' => 'cfa', 'Cfa010312' => 'cfa', 'Cfa015648' => 'cfa', 'Ciclev10002793m.g' => 'ccl', 'Ciclev10003356m.g' => 'ccl', 'Ciclev10006141m.g' => 'ccl', 'Ciclev10016676m.g' => 'ccl', 'Ciclev10017081m.g' => 'ccl', 'Ciclev10029499m.g' => 'ccl', 'CiPaw.01G166300' => 'cil', 'CiPaw.06G145600' => 'cil', 'CiPaw.13G040100' => 'cil', 'CiPaw.13G135800' => 'cil', 'ClCG01G012230' => 'cla', 'ClCG05G009510' => 'cla', 'ClCG08G008270' => 'cla', 'COL.COLO4_11763' => 'col', 'COL.COLO4_19876' => 'col', 'COL.COLO4_21481' => 'col', 'Cpa.g.sc118.34' => 'cpa', 'Cpa.g.sc32.13' => 'cpa', 'Cpa.g.sc58.103' => 'cpa', 'Cre03.g183850' => 'cre', 'Cre06.g306350' => 'cre', 'Cre07.g334800' => 'cre', 'Cre12.g487900' => 'cre', 'Cre14.g626700' => 'cre', 'Cre16.g658400' => 'cre', 'Cre17.g700950' => 'cre', 'CsaV3_1G014830' => 'csa', 'CsaV3_3G013320' => 'csa', 'CsaV3_3G019210' => 'csa', 'CsaV3_3G019220' => 'csa', 'CsaV3_6G004230' => 'csa', 'CSS0003773' => 'camsi', 'CSS0004563' => 'camsi', 'CSS0013949' => 'camsi', 'CSS0025971' => 'camsi', 'CSS0028570' => 'camsi', 'CSS0033127' => 'camsi', 'CSS0036051' => 'camsi', 'CSS0040087' => 'camsi', 'CSS0043179' => 'camsi', 'DCAR_006161' => 'dca', 'DCAR_010351' => 'dca', 'DCAR_012197' => 'dca', 'DCAR_024162' => 'dca', 'Dinv01030' => 'din', 'Dinv10924' => 'din', 'Dinv11835' => 'din', 'Dinv22841' => 'din', 'Dinv42553' => 'din', 'Duzib052G0560' => 'dzi', 'Duzib132G0389' => 'dzi', 'Duzib150G1181' => 'dzi', 'Duzib168G0623' => 'dzi', 'Duzib170G1036' => 'dzi', 'Duzib212G0200' => 'dzi', 'Duzib248G0194' => 'dzi', 'ECA232G2193' => 'eca', 'ECA233G0302' => 'eca', 'ECA234G2813' => 'eca', 'ECA234G4866' => 'eca', 'ECA240G3932' => 'eca', 'ECA248G0385' => 'eca', 'EL10Ac2g04781' => 'bvu', 'EL10Ac3g06445' => 'bvu', 'EL10Ac7g15825' => 'bvu', 'EL10Ac8g18550' => 'bvu', 'Eucgr.B03849' => 'egr', 'Eucgr.I02744' => 'egr', 'Eucgr.J00264' => 'egr', 'Eucgr.J00493' => 'egr', 'FAN04G2181' => 'fan', 'FAN07G2666' => 'fan', 'FAN11G0024' => 'fan', 'FAN12G1105' => 'fan', 'FAN13G0302' => 'fan', 'FAN15G2781' => 'fan', 'FAN16G1274' => 'fan', 'FAN17G2988' => 'fan', 'FAN18G2621' => 'fan', 'FAN21G0013' => 'fan', 'FAN22G1211' => 'fan', 'FAN25G3626' => 'fan', 'FvH4_2g09491' => 'fve', 'FvH4_3g24910' => 'fve', 'FvH4_4g15630' => 'fve', 'FvH4_5g28820' => 'fve', 'Glyma.01G238000' => 'gma', 'Glyma.05G168400' => 'gma', 'Glyma.08G126800' => 'gma', 'Glyma.08G188500' => 'gma', 'Glyma.10G278900' => 'gma', 'Glyma.11G005700' => 'gma', 'Glyma.11G183300' => 'gma', 'Glyma.12G089200' => 'gma', 'Glyma.12G169400' => 'gma', 'Glyma.12G169500' => 'gma', 'Glyma.12G169600' => 'gma', 'Glyma.20G110800' => 'gma', 'Gohir.A03G192900' => 'ghi', 'Gohir.A03G193000' => 'ghi', 'Gohir.A05G080700' => 'ghi', 'Gohir.A09G216000' => 'ghi', 'Gohir.A12G027700' => 'ghi', 'Gohir.A13G036200' => 'ghi', 'Gohir.A13G222600' => 'ghi', 'Gohir.D02G213900' => 'ghi', 'Gohir.D02G214000' => 'ghi', 'Gohir.D05G083700' => 'ghi', 'Gohir.D05G083800' => 'ghi', 'Gohir.D05G083850' => 'ghi', 'Gohir.D08G015400' => 'ghi', 'Gohir.D09G218400' => 'ghi', 'Gohir.D12G027100' => 'ghi', 'Gohir.D13G034500' => 'ghi', 'Gohir.D13G227400' => 'ghi', 'Gorai.005G241800' => 'gra', 'Gorai.005G241900' => 'gra', 'Gorai.006G239400' => 'gra', 'Gorai.008G027600' => 'gra', 'Gorai.009G085400' => 'gra', 'Gorai.009G085500' => 'gra', 'Gorai.013G039000' => 'gra', 'Gorai.013G194800' => 'gra', 'Gorai.013G257900' => 'gra', 'GSVIVG01000982001' => 'vvi', 'GSVIVG01017981001' => 'vvi', 'HanXRQChr01g0024061' => 'han', 'HanXRQChr09g0247831' => 'han', 'HanXRQChr10g0294611' => 'han', 'HanXRQChr10g0294621' => 'han', 'HanXRQChr11g0346821' => 'han', 'HanXRQChr13g0397461' => 'han', 'HanXRQChr16g0513651' => 'han', 'HanXRQChr16g0513701' => 'han', 'Haze_00897' => 'cav', 'Haze_01745' => 'cav', 'Haze_02486' => 'cav', 'Haze_02487' => 'cav', 'Haze_23374' => 'cav', 'Hma1.2p1_0578F.1_g182520' => 'hma', 'Hma1.2p1_0602F.1_g187350' => 'hma', 'Hma1.2p1_0602F.1_g187360' => 'hma', 'Hma1.2p1_0874F.1_g231320' => 'hma', 'Hma1.2p1_1197F.1_g266210' => 'hma', 'Hma1.2p1_1197F.1_g266220' => 'hma', 'Hma1.2p1_2167F.1_g315895' => 'hma', 'Hma1.2p1_2190F.1_g316640' => 'hma', 'Hma1.2p1_3645F.1_g337153' => 'hma', 'HPP92_004907' => 'vpl', 'HPP92_012134' => 'vpl', 'HPP92_025136' => 'vpl', 'HPP92_026087' => 'vpl', 'Hund06782' => 'sun', 'Hund06784' => 'sun', 'Lalb_Chr01g0004861' => 'lal', 'Lalb_Chr02g0140591' => 'lal', 'Lalb_Chr02g0140611' => 'lal', 'Lalb_Chr03g0028101' => 'lal', 'Lalb_Chr07g0185791' => 'lal', 'Lalb_Chr12g0204491' => 'lal', 'Lalb_Chr13g0295671' => 'lal', 'Lalb_Chr19g0136461' => 'lal', 'Lalb_Chr21g0309191' => 'lal', 'Lj1g0028158' => 'lja', 'Lj1P236T38' => 'lonja', 'Lj2C32G2' => 'lonja', 'Lj2P944T8' => 'lonja', 'Lj2P963T15' => 'lonja', 'Lj3g0011788' => 'lja', 'Lj4g0025027' => 'lja', 'Lj5P255T36' => 'lonja', 'Lj6g0018866' => 'lja', 'Lj6P608T31' => 'lonja', 'LjContig00408g0008879' => 'lja', 'Lsat_1_v5_gn_5_105820' => 'lsa', 'Lsat_1_v5_gn_6_38800' => 'lsa', 'Lsat_1_v5_gn_7_67141' => 'lsa', 'Manes.04G003400' => 'mes', 'Manes.07G020000' => 'mes', 'Manes.07G020100' => 'mes', 'Manes.07G020150' => 'mes', 'Manes.10G061500' => 'mes', 'Manes.10G123200' => 'mes', 'Manes.11G161900' => 'mes', 'Manes.15G029300' => 'mes', 'Mapoly0071s0018' => 'mpo', 'Mapoly0082s0023' => 'mpo', 'Mapoly3477s0001' => 'mpo', 'MBI05_g31233_MAGBIO' => 'mbi', 'MBI09_g05946_MAGBIO' => 'mbi', 'MBI09_g05947_MAGBIO' => 'mbi', 'MBI17_g08346_MAGBIO' => 'mbi', 'MCO04G038' => 'mco', 'MCO09G370' => 'mco', 'MCO13G605' => 'mco', 'MD00G1075500' => 'mdo', 'MD03G1144300' => 'mdo', 'MD08G1236800' => 'mdo', 'MD13G1193300' => 'mdo', 'MD15G1428700' => 'mdo', 'Medtr1g112030' => 'mtr', 'Medtr1g112050' => 'mtr', 'Medtr2g006290' => 'mtr', 'Medtr2g086510' => 'mtr', 'Medtr4g053120' => 'mtr', 'Medtr5g006320' => 'mtr', 'Medtr8g088720' => 'mtr', 'MELO3C004712.2' => 'cme', 'MELO3C006533.2' => 'cme', 'MELO3C019438.2' => 'cme', 'MELO3C019440.2' => 'cme', 'MELO3C019441.2' => 'cme', 'MELO3C019895.2' => 'cme', 'Migut.B00811' => 'egut', 'Migut.D02447' => 'egut', 'Migut.F00875' => 'egut', 'Migut.N00186' => 'egut', 'Migut.N01051' => 'egut', 'Migut.N02491' => 'egut', 'Migut.O00784' => 'egut', 'MSTRG.12367' => 'ama', 'MSTRG.18756' => 'ama', 'MSTRG.21042' => 'ama', 'Nitab4.5_0000559g0040' => 'nta', 'Nitab4.5_0000667g0190' => 'nta', 'Nitab4.5_0000755g0160' => 'nta', 'Nitab4.5_0001216g0080' => 'nta', 'Nitab4.5_0004069g0040' => 'nta', 'Nitab4.5_0004129g0010' => 'nta', 'Nitab4.5_0005744g0030' => 'nta', 'Nitab4.5_0006996g0030' => 'nta', 'Nitab4.5_0008971g0040' => 'nta', 'Nitab4.5_0009769g0020' => 'nta', 'Nitab4.5_0009833g0010' => 'nta', 'Nitab4.5_0013140g0020' => 'nta', 'Nn003s41376' => 'nnu', 'Nn1g01857' => 'nnu', 'Nn1g03611' => 'nnu', 'Nn1g06853' => 'nnu', 'Nn3g18360' => 'nnu', 'Nn4g26328' => 'nnu', 'Nn5g27531' => 'nnu', 'Nn6g34899' => 'nnu', 'Nn7g36299' => 'nnu', 'Oeu021485.1' => 'oeu', 'Oeu022433.1' => 'oeu', 'Oeu032111.1' => 'oeu', 'Oeu051608.1' => 'oeu', 'Os01g0860601' => 'osa', 'Os03g0659200' => 'osa', 'Os03g0835900' => 'osa', 'Os04g0412200' => 'osa', 'Os05g0443500' => 'osa', 'Os07g0251500' => 'osa', 'Os08g0104600' => 'osa', 'Peaxi162Scf00003g00047' => 'pax', 'Peaxi162Scf00003g00052' => 'pax', 'Peaxi162Scf00003g00394' => 'pax', 'Peaxi162Scf00091g00621' => 'pax', 'Peaxi162Scf00152g00146' => 'pax', 'Peaxi162Scf00173g00025' => 'pax', 'Peaxi162Scf00195g00102' => 'pax', 'Peaxi162Scf00402g00013' => 'pax', 'Peaxi162Scf00519g00618' => 'pax', 'PGR004G2838' => 'pgr', 'PGR044G2275' => 'pgr', 'PGR102G1377' => 'pgr', 'PGR119G1245' => 'pgr', 'PGR142G4449' => 'pgr', 'PGSC0003DMG400004532' => 'stu', 'PGSC0003DMG400011950' => 'stu', 'PGSC0003DMG400023391' => 'stu', 'PGSC0003DMG400023985' => 'stu', 'PGSC0003DMG400026360' => 'stu', 'PGSC0003DMG400035711' => 'stu', 'PGSC0003DMG400037286' => 'stu', 'PGSC0003DMG402005881' => 'stu', 'Phvul.002G045400' => 'pvu', 'Phvul.006G216600' => 'pvu', 'Phvul.006G216700' => 'pvu', 'Phvul.006G216800' => 'pvu', 'Phvul.007G022500' => 'pvu', 'Phvul.011G094400' => 'pvu', 'Potri.001G470700' => 'ptr', 'Potri.003G015200' => 'ptr', 'Potri.004G202500' => 'ptr', 'Potri.004G218400' => 'ptr', 'Potri.008G020100' => 'ptr', 'Potri.008G153200' => 'ptr', 'Potri.009G163800' => 'ptr', 'Potri.010G087300' => 'ptr', 'Potri.010G239100' => 'ptr', 'Pp3c10_16100' => 'ppa', 'Pp3c10_16880' => 'ppa', 'Pp3c16_6230' => 'ppa', 'Pp3c17_18910' => 'ppa', 'Pp3c3_22119' => 'ppa', 'Pp3c3_22140' => 'ppa', 'Pp3c4_8159' => 'ppa', 'Pp3c4_8171' => 'ppa', 'Pp3c4_8330' => 'ppa', 'PRCOL_00004098' => 'pco', 'Prupe.1G013900' => 'ppe', 'Prupe.1G226300' => 'ppe', 'Prupe.1G573600' => 'ppe', 'Prupe.6G130100' => 'ppe', 'Psat3g090040' => 'psa', 'Psat4g210440' => 'psa', 'Psat6g231040' => 'psa', 'Psat6g231080' => 'psa', 'Psat7g063000' => 'psa', 'Psat7g188000' => 'psa', 'Psat7g188040' => 'psa', 'PSO017G0206' => 'pso', 'PSO170G0501' => 'pso', 'PSO170G6422' => 'pso', 'PSO210G7739' => 'pso', 'PSO339G1808' => 'pso', 'PSO339G6135' => 'pso', 'PSO384G0010' => 'pso', 'PSO384G0964' => 'pso', 'PSO761G0050' => 'pso', 'PSO782G4085' => 'pso', 'QL01p012264' => 'qlo', 'QL02p099491' => 'qlo', 'QL03p033868' => 'qlo', 'QL04p046678' => 'qlo', 'QL06p002448' => 'qlo', 'RcHm_v2.0_Chr4g0416181' => 'rch', 'RcHm_v2.0_Chr5g0044701' => 'rch', 'RcHm_v2.0_Chr6g0265781' => 'rch', 'RcHm_v2.0_Chr7g0221031' => 'rch', 'Rhsim04G0202000' => 'rsi', 'Rhsim11G0127300' => 'rsi', 'Rhsim13G0111800' => 'rsi', 'Sabra01G0165600' => 'sbr', 'Sabra03G0008300' => 'sbr', 'Sabra04G0136900' => 'sbr', 'Sabra08G0013400' => 'sbr', 'Sabra08G0116800' => 'sbr', 'Sabra09G0128000' => 'sbr', 'Sabra10G0055500' => 'sbr', 'Sabra10G0073300' => 'sbr', 'SalBow3G0385' => 'sbo', 'SalBow3G1119' => 'sbo', 'SalBow3G2005' => 'sbo', 'SalBow6G2563' => 'sbo', 'SalBow6G6386' => 'sbo', 'Sc06g0008800' => 'sci', 'Sc07g0004950' => 'sci', 'Sc09g0005340' => 'sci', 'Sc13g0004410' => 'sci', 'Sc21g0007090' => 'sci', 'Sed0009285' => 'sed', 'Sed0017583' => 'sed', 'Sed0019699' => 'sed', 'Sed0023107' => 'sed', 'SEGI_10916' => 'sgi', 'SEGI_16217' => 'sgi', 'SEGI_19466' => 'sgi', 'SEGI_41115' => 'sgi', 'SGA_v2.0_scaffold111G31534' => 'sas', 'SGA_v2.0_scaffold22G09864' => 'sas', 'SGA_v2.0_scaffold338G49219' => 'sas', 'SGA_v2.0_scaffold92G28298' => 'sas', 'SMO119G0064' => 'smo', 'SMO223G0038' => 'smo', 'SMO347G0584' => 'smo', 'SMO351G0010' => 'smo', 'SMO356G0404' => 'smo', 'Solyc01g103920.3' => 'sly', 'Solyc04g009710.2' => 'sly', 'Solyc05g055280.2' => 'sly', 'Solyc10g044520.3' => 'sly', 'Solyc10g075160.1' => 'sly', 'Solyc11g006910.3' => 'sly', 'Solyc11g068430.3' => 'sly', 'Sopen01g046310' => 'spe', 'Sopen03g001200' => 'spe', 'Sopen04g004830' => 'spe', 'Sopen05g033720' => 'spe', 'Sopen06g030740' => 'spe', 'Sopen10g013090' => 'spe', 'Sopen10g027630' => 'spe', 'Sopen10g027640' => 'spe', 'Sopen11g002820' => 'spe', 'Sopen11g027140' => 'spe', 'Sp1g09680' => 'spa', 'Sp2g03630' => 'spa', 'Sp4g10320' => 'spa', 'Sp6g33400' => 'spa', 'Sp7g13030' => 'spa', 'TAR365G0317' => 'tar', 'TAR376G0979' => 'tar', 'TAR623G1665' => 'tar', 'TAR633G2373' => 'tar', 'TAR636G1400' => 'tar', 'THA.LOC104800529' => 'tha', 'THA.LOC104808547' => 'tha', 'THA.LOC104809615' => 'tha', 'THA.LOC104815724' => 'tha', 'THA.LOC104818480' => 'tha', 'THA.LOC104819179' => 'tha', 'THA.LOC104822270' => 'tha', 'THA.LOC104826425' => 'tha', 'Thecc.02G089700' => 'tca', 'Thecc.04G232300' => 'tca', 'Thecc.09G283400' => 'tca', 'Thhalv10009020m.g' => 'esa', 'Thhalv10015506m.g' => 'esa', 'Thhalv10017364m.g' => 'esa', 'Thhalv10023742m.g' => 'esa', 'Thhalv10026483m.g' => 'esa', 'TPR.G17232' => 'tpr', 'TPR.G2133' => 'tpr', 'TPR.G2498' => 'tpr', 'TPR.G31942' => 'tpr', 'TPR.G37877' => 'tpr', 'TPR.G4571' => 'tpr', 'TWI14G1113' => 'twi', 'TWI15G0426' => 'twi', 'TWI31G1005' => 'twi', 'TWI38G0513' => 'twi', 'TWI38G1484' => 'twi', 'TWI73G1098' => 'twi', 'unitig_26.g10519' => 'ugi', 'unitig_736.g22395' => 'ugi', 'unitig_747.g21234' => 'ugi', 'unitig_747.g21942' => 'ugi', 'vmacro14351' => 'vma', 'VMungo0540G0082' => 'vmu', 'VMungo0540G0405' => 'vmu', 'VMungo0540G1486' => 'vmu', 'VMungo0540G1692' => 'vmu', 'VMungo0720G2473' => 'vmu', 'VMungo1127G1562' => 'vmu', 'VMungo1215G1918' => 'vmu', 'Zm00001eb052650' => 'zma', 'Zm00001eb063710' => 'zma', 'Zm00001eb083950' => 'zma', 'Zm00001eb174420' => 'zma', 'Zm00001eb260140' => 'zma', 'Zm00001eb260150' => 'zma', 'Zm00001eb260160' => 'zma', 'Zm00001eb348290' => 'zma', 'Zm00001eb366870' => 'zma', 'Zm00001eb421930' => 'zma' ), 'gf_id' => 'HOM05D001025', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001025' ), 'data_identifier' => 'HOM05D001025', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001025', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '592', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p22650' => 'bna', 'A01p29720' => 'bna', 'A03p26560' => 'bna', 'A03p68820' => 'bna', 'A04p20980' => 'bna', 'A06p07730' => 'bna', 'A07p18260' => 'bna', 'A08p33710' => 'bna', 'A09p16970' => 'bna', 'A10p27490' => 'bna', 'Aa31LG1G17300' => 'aar', 'Aa31LG1G3910' => 'aar', 'Aa31LG2G9630' => 'aar', 'Aa31LG5G8360' => 'aar', 'Aa31LG9G2410' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4699' => 'aag', 'Actinidia23512' => 'ach', 'Actinidia37080' => 'ach', 'Ah.01g020380' => 'amhyb', 'Ah.08g215710' => 'amhyb', 'Ah.09g225110' => 'amhyb', 'Ah.10g036680' => 'amhyb', 'AL1G21940' => 'aly', 'AL2G15540' => 'aly', 'AL4G21520' => 'aly', 'AL7G40960' => 'aly', 'Aqoxy2G01191' => 'aox', 'Aqoxy2G03393' => 'aox', 'Aqoxy4G02775' => 'aox', 'Aqoxy6G00058' => 'aox', 'arahy.Tifrunner.gnm1.ann1.9X74H2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CW3FX9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R485W7' => 'arhy', 'AT1G10960' => 'ath', 'AT1G60950' => 'ath', 'AT2G27510' => 'ath', 'AT4G14890' => 'ath', 'AT5G10000' => 'ath', 'ATR0665G624' => 'atr', 'ATR0697G138' => 'atr', 'ATR0776G046' => 'atr', 'ATR1134G135' => 'atr', 'Atru.chr12.1025' => 'acertr', 'Atru.chr3.3241' => 'acertr', 'Atru.chr4.2460' => 'acertr', 'AUR62007427' => 'cqu', 'AUR62010960' => 'cqu', 'AUR62012201' => 'cqu', 'AUR62021470' => 'cqu', 'AUR62022834' => 'cqu', 'AUR62033635' => 'cqu', 'AUR62036186' => 'cqu', 'BcaB01g03077' => 'bca', 'BcaB02g10093' => 'bca', 'BcaB04g20295' => 'bca', 'BcaB06g28147' => 'bca', 'BcaB07g31253' => 'bca', 'BcaC01g04946' => 'bca', 'BcaC02g10614' => 'bca', 'BcaC02g10885' => 'bca', 'BcaC04g19356' => 'bca', 'BcaC04g22297' => 'bca', 'BcaC05g24977' => 'bca', 'BcaC06g31823' => 'bca', 'BcaC07g38633' => 'bca', 'BcaC09g49353' => 'bca', 'BcaC09g50168' => 'bca', 'BcaNung00322' => 'bca', 'BcaNung04769' => 'bca', 'BolC1t02753H' => 'bol', 'BolC1t03721H' => 'bol', 'BolC3t15525H' => 'bol', 'BolC4t23903H' => 'bol', 'BolC4t24231H' => 'bol', 'BolC4t27209H' => 'bol', 'BolC5t29671H' => 'bol', 'BolC8t49044H' => 'bol', 'BolC9t54999H' => 'bol', 'BolC9t59517H' => 'bol', 'BraA01t02178Z' => 'bra', 'BraA01t03099Z' => 'bra', 'BraA03t11867Z' => 'bra', 'BraA04t17667Z' => 'bra', 'BraA07t29542Z' => 'bra', 'BraA08t35287Z' => 'bra', 'BraA09t37334Z' => 'bra', 'BraA10t44801Z' => 'bra', 'BraSC39t46181Z' => 'bra', 'C01p28240' => 'bna', 'C01p37530' => 'bna', 'C03p31820' => 'bna', 'C04p24080' => 'bna', 'C04p25790' => 'bna', 'C04p56770' => 'bna', 'C05p09310' => 'bna', 'C09p21010' => 'bna', 'C09p67560' => 'bna', 'CAN.G1324.7' => 'can', 'CAN.G1358.10' => 'can', 'CAN.G1550.2' => 'can', 'CAN.G186.56' => 'can', 'CAN.G1965.1' => 'can', 'CAN.G645.15' => 'can', 'CAN.G798.26' => 'can', 'CAN.G798.27' => 'can', 'CAN.G798.29' => 'can', 'CAN.G919.31' => 'can', 'CANSAT11G0133' => 'cansat', 'CANSAT11G1171' => 'cansat', 'CANSAT11G2056' => 'cansat', 'CANSAT56G1202' => 'cansat', 'CANSAT56G1514' => 'cansat', 'CANSAT78G0455' => 'cansat', 'CARHR011190' => 'chi', 'CARHR051980' => 'chi', 'CARHR120170' => 'chi', 'CARHR203310' => 'chi', 'CARHR221490' => 'chi', 'Carub.0001s1054' => 'cru', 'Carub.0002s0431' => 'cru', 'Carub.0004s0818' => 'cru', 'Carub.0006s0846' => 'cru', 'Carub.0007s2722' => 'cru', 'Ca_00058_v3' => 'car', 'Ca_17831_v3' => 'car', 'Ca_19408_v3' => 'car', 'Ca_24397_v3' => 'car', 'Ca_25664_v3' => 'car', 'CBR_g21818' => 'cbr', 'CBR_g31195' => 'cbr', 'CBR_g32282' => 'cbr', 'CBR_g39599' => 'cbr', 'CBR_g49410' => 'cbr', 'Cc01_g09120' => 'ccan', 'Cc01_g09130' => 'ccan', 'Cc02_g09630' => 'ccan', 'Cc02_g22810' => 'ccan', 'Cc03_g03810' => 'ccan', 'CDE02G3718' => 'cde', 'CDE04G3183' => 'cde', 'CDE07G1046' => 'cde', 'CDE08G0480' => 'cde', 'Cfa005493' => 'cfa', 'Cfa010312' => 'cfa', 'Cfa015648' => 'cfa', 'Ciclev10002793m.g' => 'ccl', 'Ciclev10003356m.g' => 'ccl', 'Ciclev10006141m.g' => 'ccl', 'Ciclev10016676m.g' => 'ccl', 'Ciclev10017081m.g' => 'ccl', 'Ciclev10029499m.g' => 'ccl', 'CiPaw.01G166300' => 'cil', 'CiPaw.06G145600' => 'cil', 'CiPaw.13G040100' => 'cil', 'CiPaw.13G135800' => 'cil', 'ClCG01G012230' => 'cla', 'ClCG05G009510' => 'cla', 'ClCG08G008270' => 'cla', 'COL.COLO4_11763' => 'col', 'COL.COLO4_19876' => 'col', 'COL.COLO4_21481' => 'col', 'Cpa.g.sc118.34' => 'cpa', 'Cpa.g.sc32.13' => 'cpa', 'Cpa.g.sc58.103' => 'cpa', 'Cre03.g183850' => 'cre', 'Cre06.g306350' => 'cre', 'Cre07.g334800' => 'cre', 'Cre12.g487900' => 'cre', 'Cre14.g626700' => 'cre', 'Cre16.g658400' => 'cre', 'Cre17.g700950' => 'cre', 'CsaV3_1G014830' => 'csa', 'CsaV3_3G013320' => 'csa', 'CsaV3_3G019210' => 'csa', 'CsaV3_3G019220' => 'csa', 'CsaV3_6G004230' => 'csa', 'CSS0003773' => 'camsi', 'CSS0004563' => 'camsi', 'CSS0013949' => 'camsi', 'CSS0025971' => 'camsi', 'CSS0028570' => 'camsi', 'CSS0033127' => 'camsi', 'CSS0036051' => 'camsi', 'CSS0040087' => 'camsi', 'CSS0043179' => 'camsi', 'DCAR_006161' => 'dca', 'DCAR_010351' => 'dca', 'DCAR_012197' => 'dca', 'DCAR_024162' => 'dca', 'Dinv01030' => 'din', 'Dinv10924' => 'din', 'Dinv11835' => 'din', 'Dinv22841' => 'din', 'Dinv42553' => 'din', 'Duzib052G0560' => 'dzi', 'Duzib132G0389' => 'dzi', 'Duzib150G1181' => 'dzi', 'Duzib168G0623' => 'dzi', 'Duzib170G1036' => 'dzi', 'Duzib212G0200' => 'dzi', 'Duzib248G0194' => 'dzi', 'ECA232G2193' => 'eca', 'ECA233G0302' => 'eca', 'ECA234G2813' => 'eca', 'ECA234G4866' => 'eca', 'ECA240G3932' => 'eca', 'ECA248G0385' => 'eca', 'EL10Ac2g04781' => 'bvu', 'EL10Ac3g06445' => 'bvu', 'EL10Ac7g15825' => 'bvu', 'EL10Ac8g18550' => 'bvu', 'Eucgr.B03849' => 'egr', 'Eucgr.I02744' => 'egr', 'Eucgr.J00264' => 'egr', 'Eucgr.J00493' => 'egr', 'FAN04G2181' => 'fan', 'FAN07G2666' => 'fan', 'FAN11G0024' => 'fan', 'FAN12G1105' => 'fan', 'FAN13G0302' => 'fan', 'FAN15G2781' => 'fan', 'FAN16G1274' => 'fan', 'FAN17G2988' => 'fan', 'FAN18G2621' => 'fan', 'FAN21G0013' => 'fan', 'FAN22G1211' => 'fan', 'FAN25G3626' => 'fan', 'FvH4_2g09491' => 'fve', 'FvH4_3g24910' => 'fve', 'FvH4_4g15630' => 'fve', 'FvH4_5g28820' => 'fve', 'Glyma.01G238000' => 'gma', 'Glyma.05G168400' => 'gma', 'Glyma.08G126800' => 'gma', 'Glyma.08G188500' => 'gma', 'Glyma.10G278900' => 'gma', 'Glyma.11G005700' => 'gma', 'Glyma.11G183300' => 'gma', 'Glyma.12G089200' => 'gma', 'Glyma.12G169400' => 'gma', 'Glyma.12G169500' => 'gma', 'Glyma.12G169600' => 'gma', 'Glyma.20G110800' => 'gma', 'Gohir.A03G192900' => 'ghi', 'Gohir.A03G193000' => 'ghi', 'Gohir.A05G080700' => 'ghi', 'Gohir.A09G216000' => 'ghi', 'Gohir.A12G027700' => 'ghi', 'Gohir.A13G036200' => 'ghi', 'Gohir.A13G222600' => 'ghi', 'Gohir.D02G213900' => 'ghi', 'Gohir.D02G214000' => 'ghi', 'Gohir.D05G083700' => 'ghi', 'Gohir.D05G083800' => 'ghi', 'Gohir.D05G083850' => 'ghi', 'Gohir.D08G015400' => 'ghi', 'Gohir.D09G218400' => 'ghi', 'Gohir.D12G027100' => 'ghi', 'Gohir.D13G034500' => 'ghi', 'Gohir.D13G227400' => 'ghi', 'Gorai.005G241800' => 'gra', 'Gorai.005G241900' => 'gra', 'Gorai.006G239400' => 'gra', 'Gorai.008G027600' => 'gra', 'Gorai.009G085400' => 'gra', 'Gorai.009G085500' => 'gra', 'Gorai.013G039000' => 'gra', 'Gorai.013G194800' => 'gra', 'Gorai.013G257900' => 'gra', 'GSVIVG01000982001' => 'vvi', 'GSVIVG01017981001' => 'vvi', 'HanXRQChr01g0024061' => 'han', 'HanXRQChr09g0247831' => 'han', 'HanXRQChr10g0294611' => 'han', 'HanXRQChr10g0294621' => 'han', 'HanXRQChr11g0346821' => 'han', 'HanXRQChr13g0397461' => 'han', 'HanXRQChr16g0513651' => 'han', 'HanXRQChr16g0513701' => 'han', 'Haze_00897' => 'cav', 'Haze_01745' => 'cav', 'Haze_02486' => 'cav', 'Haze_02487' => 'cav', 'Haze_23374' => 'cav', 'Hma1.2p1_0578F.1_g182520' => 'hma', 'Hma1.2p1_0602F.1_g187350' => 'hma', 'Hma1.2p1_0602F.1_g187360' => 'hma', 'Hma1.2p1_0874F.1_g231320' => 'hma', 'Hma1.2p1_1197F.1_g266210' => 'hma', 'Hma1.2p1_1197F.1_g266220' => 'hma', 'Hma1.2p1_2167F.1_g315895' => 'hma', 'Hma1.2p1_2190F.1_g316640' => 'hma', 'Hma1.2p1_3645F.1_g337153' => 'hma', 'HPP92_004907' => 'vpl', 'HPP92_012134' => 'vpl', 'HPP92_025136' => 'vpl', 'HPP92_026087' => 'vpl', 'Hund06782' => 'sun', 'Hund06784' => 'sun', 'Lalb_Chr01g0004861' => 'lal', 'Lalb_Chr02g0140591' => 'lal', 'Lalb_Chr02g0140611' => 'lal', 'Lalb_Chr03g0028101' => 'lal', 'Lalb_Chr07g0185791' => 'lal', 'Lalb_Chr12g0204491' => 'lal', 'Lalb_Chr13g0295671' => 'lal', 'Lalb_Chr19g0136461' => 'lal', 'Lalb_Chr21g0309191' => 'lal', 'Lj1g0028158' => 'lja', 'Lj1P236T38' => 'lonja', 'Lj2C32G2' => 'lonja', 'Lj2P944T8' => 'lonja', 'Lj2P963T15' => 'lonja', 'Lj3g0011788' => 'lja', 'Lj4g0025027' => 'lja', 'Lj5P255T36' => 'lonja', 'Lj6g0018866' => 'lja', 'Lj6P608T31' => 'lonja', 'LjContig00408g0008879' => 'lja', 'Lsat_1_v5_gn_5_105820' => 'lsa', 'Lsat_1_v5_gn_6_38800' => 'lsa', 'Lsat_1_v5_gn_7_67141' => 'lsa', 'Manes.04G003400' => 'mes', 'Manes.07G020000' => 'mes', 'Manes.07G020100' => 'mes', 'Manes.07G020150' => 'mes', 'Manes.10G061500' => 'mes', 'Manes.10G123200' => 'mes', 'Manes.11G161900' => 'mes', 'Manes.15G029300' => 'mes', 'Mapoly0071s0018' => 'mpo', 'Mapoly0082s0023' => 'mpo', 'Mapoly3477s0001' => 'mpo', 'MBI05_g31233_MAGBIO' => 'mbi', 'MBI09_g05946_MAGBIO' => 'mbi', 'MBI09_g05947_MAGBIO' => 'mbi', 'MBI17_g08346_MAGBIO' => 'mbi', 'MCO04G038' => 'mco', 'MCO09G370' => 'mco', 'MCO13G605' => 'mco', 'MD00G1075500' => 'mdo', 'MD03G1144300' => 'mdo', 'MD08G1236800' => 'mdo', 'MD13G1193300' => 'mdo', 'MD15G1428700' => 'mdo', 'Medtr1g112030' => 'mtr', 'Medtr1g112050' => 'mtr', 'Medtr2g006290' => 'mtr', 'Medtr2g086510' => 'mtr', 'Medtr4g053120' => 'mtr', 'Medtr5g006320' => 'mtr', 'Medtr8g088720' => 'mtr', 'MELO3C004712.2' => 'cme', 'MELO3C006533.2' => 'cme', 'MELO3C019438.2' => 'cme', 'MELO3C019440.2' => 'cme', 'MELO3C019441.2' => 'cme', 'MELO3C019895.2' => 'cme', 'Migut.B00811' => 'egut', 'Migut.D02447' => 'egut', 'Migut.F00875' => 'egut', 'Migut.N00186' => 'egut', 'Migut.N01051' => 'egut', 'Migut.N02491' => 'egut', 'Migut.O00784' => 'egut', 'MSTRG.12367' => 'ama', 'MSTRG.18756' => 'ama', 'MSTRG.21042' => 'ama', 'Nitab4.5_0000559g0040' => 'nta', 'Nitab4.5_0000667g0190' => 'nta', 'Nitab4.5_0000755g0160' => 'nta', 'Nitab4.5_0001216g0080' => 'nta', 'Nitab4.5_0004069g0040' => 'nta', 'Nitab4.5_0004129g0010' => 'nta', 'Nitab4.5_0005744g0030' => 'nta', 'Nitab4.5_0006996g0030' => 'nta', 'Nitab4.5_0008971g0040' => 'nta', 'Nitab4.5_0009769g0020' => 'nta', 'Nitab4.5_0009833g0010' => 'nta', 'Nitab4.5_0013140g0020' => 'nta', 'Nn003s41376' => 'nnu', 'Nn1g01857' => 'nnu', 'Nn1g03611' => 'nnu', 'Nn1g06853' => 'nnu', 'Nn3g18360' => 'nnu', 'Nn4g26328' => 'nnu', 'Nn5g27531' => 'nnu', 'Nn6g34899' => 'nnu', 'Nn7g36299' => 'nnu', 'Oeu021485.1' => 'oeu', 'Oeu022433.1' => 'oeu', 'Oeu032111.1' => 'oeu', 'Oeu051608.1' => 'oeu', 'Os01g0860601' => 'osa', 'Os03g0659200' => 'osa', 'Os03g0835900' => 'osa', 'Os04g0412200' => 'osa', 'Os05g0443500' => 'osa', 'Os07g0251500' => 'osa', 'Os08g0104600' => 'osa', 'Peaxi162Scf00003g00047' => 'pax', 'Peaxi162Scf00003g00052' => 'pax', 'Peaxi162Scf00003g00394' => 'pax', 'Peaxi162Scf00091g00621' => 'pax', 'Peaxi162Scf00152g00146' => 'pax', 'Peaxi162Scf00173g00025' => 'pax', 'Peaxi162Scf00195g00102' => 'pax', 'Peaxi162Scf00402g00013' => 'pax', 'Peaxi162Scf00519g00618' => 'pax', 'PGR004G2838' => 'pgr', 'PGR044G2275' => 'pgr', 'PGR102G1377' => 'pgr', 'PGR119G1245' => 'pgr', 'PGR142G4449' => 'pgr', 'PGSC0003DMG400004532' => 'stu', 'PGSC0003DMG400011950' => 'stu', 'PGSC0003DMG400023391' => 'stu', 'PGSC0003DMG400023985' => 'stu', 'PGSC0003DMG400026360' => 'stu', 'PGSC0003DMG400035711' => 'stu', 'PGSC0003DMG400037286' => 'stu', 'PGSC0003DMG402005881' => 'stu', 'Phvul.002G045400' => 'pvu', 'Phvul.006G216600' => 'pvu', 'Phvul.006G216700' => 'pvu', 'Phvul.006G216800' => 'pvu', 'Phvul.007G022500' => 'pvu', 'Phvul.011G094400' => 'pvu', 'Potri.001G470700' => 'ptr', 'Potri.003G015200' => 'ptr', 'Potri.004G202500' => 'ptr', 'Potri.004G218400' => 'ptr', 'Potri.008G020100' => 'ptr', 'Potri.008G153200' => 'ptr', 'Potri.009G163800' => 'ptr', 'Potri.010G087300' => 'ptr', 'Potri.010G239100' => 'ptr', 'Pp3c10_16100' => 'ppa', 'Pp3c10_16880' => 'ppa', 'Pp3c16_6230' => 'ppa', 'Pp3c17_18910' => 'ppa', 'Pp3c3_22119' => 'ppa', 'Pp3c3_22140' => 'ppa', 'Pp3c4_8159' => 'ppa', 'Pp3c4_8171' => 'ppa', 'Pp3c4_8330' => 'ppa', 'PRCOL_00004098' => 'pco', 'Prupe.1G013900' => 'ppe', 'Prupe.1G226300' => 'ppe', 'Prupe.1G573600' => 'ppe', 'Prupe.6G130100' => 'ppe', 'Psat3g090040' => 'psa', 'Psat4g210440' => 'psa', 'Psat6g231040' => 'psa', 'Psat6g231080' => 'psa', 'Psat7g063000' => 'psa', 'Psat7g188000' => 'psa', 'Psat7g188040' => 'psa', 'PSO017G0206' => 'pso', 'PSO170G0501' => 'pso', 'PSO170G6422' => 'pso', 'PSO210G7739' => 'pso', 'PSO339G1808' => 'pso', 'PSO339G6135' => 'pso', 'PSO384G0010' => 'pso', 'PSO384G0964' => 'pso', 'PSO761G0050' => 'pso', 'PSO782G4085' => 'pso', 'QL01p012264' => 'qlo', 'QL02p099491' => 'qlo', 'QL03p033868' => 'qlo', 'QL04p046678' => 'qlo', 'QL06p002448' => 'qlo', 'RcHm_v2.0_Chr4g0416181' => 'rch', 'RcHm_v2.0_Chr5g0044701' => 'rch', 'RcHm_v2.0_Chr6g0265781' => 'rch', 'RcHm_v2.0_Chr7g0221031' => 'rch', 'Rhsim04G0202000' => 'rsi', 'Rhsim11G0127300' => 'rsi', 'Rhsim13G0111800' => 'rsi', 'Sabra01G0165600' => 'sbr', 'Sabra03G0008300' => 'sbr', 'Sabra04G0136900' => 'sbr', 'Sabra08G0013400' => 'sbr', 'Sabra08G0116800' => 'sbr', 'Sabra09G0128000' => 'sbr', 'Sabra10G0055500' => 'sbr', 'Sabra10G0073300' => 'sbr', 'SalBow3G0385' => 'sbo', 'SalBow3G1119' => 'sbo', 'SalBow3G2005' => 'sbo', 'SalBow6G2563' => 'sbo', 'SalBow6G6386' => 'sbo', 'Sc06g0008800' => 'sci', 'Sc07g0004950' => 'sci', 'Sc09g0005340' => 'sci', 'Sc13g0004410' => 'sci', 'Sc21g0007090' => 'sci', 'Sed0009285' => 'sed', 'Sed0017583' => 'sed', 'Sed0019699' => 'sed', 'Sed0023107' => 'sed', 'SEGI_10916' => 'sgi', 'SEGI_16217' => 'sgi', 'SEGI_19466' => 'sgi', 'SEGI_41115' => 'sgi', 'SGA_v2.0_scaffold111G31534' => 'sas', 'SGA_v2.0_scaffold22G09864' => 'sas', 'SGA_v2.0_scaffold338G49219' => 'sas', 'SGA_v2.0_scaffold92G28298' => 'sas', 'SMO119G0064' => 'smo', 'SMO223G0038' => 'smo', 'SMO347G0584' => 'smo', 'SMO351G0010' => 'smo', 'SMO356G0404' => 'smo', 'Solyc01g103920.3' => 'sly', 'Solyc04g009710.2' => 'sly', 'Solyc05g055280.2' => 'sly', 'Solyc10g044520.3' => 'sly', 'Solyc10g075160.1' => 'sly', 'Solyc11g006910.3' => 'sly', 'Solyc11g068430.3' => 'sly', 'Sopen01g046310' => 'spe', 'Sopen03g001200' => 'spe', 'Sopen04g004830' => 'spe', 'Sopen05g033720' => 'spe', 'Sopen06g030740' => 'spe', 'Sopen10g013090' => 'spe', 'Sopen10g027630' => 'spe', 'Sopen10g027640' => 'spe', 'Sopen11g002820' => 'spe', 'Sopen11g027140' => 'spe', 'Sp1g09680' => 'spa', 'Sp2g03630' => 'spa', 'Sp4g10320' => 'spa', 'Sp6g33400' => 'spa', 'Sp7g13030' => 'spa', 'TAR365G0317' => 'tar', 'TAR376G0979' => 'tar', 'TAR623G1665' => 'tar', 'TAR633G2373' => 'tar', 'TAR636G1400' => 'tar', 'THA.LOC104800529' => 'tha', 'THA.LOC104808547' => 'tha', 'THA.LOC104809615' => 'tha', 'THA.LOC104815724' => 'tha', 'THA.LOC104818480' => 'tha', 'THA.LOC104819179' => 'tha', 'THA.LOC104822270' => 'tha', 'THA.LOC104826425' => 'tha', 'Thecc.02G089700' => 'tca', 'Thecc.04G232300' => 'tca', 'Thecc.09G283400' => 'tca', 'Thhalv10009020m.g' => 'esa', 'Thhalv10015506m.g' => 'esa', 'Thhalv10017364m.g' => 'esa', 'Thhalv10023742m.g' => 'esa', 'Thhalv10026483m.g' => 'esa', 'TPR.G17232' => 'tpr', 'TPR.G2133' => 'tpr', 'TPR.G2498' => 'tpr', 'TPR.G31942' => 'tpr', 'TPR.G37877' => 'tpr', 'TPR.G4571' => 'tpr', 'TWI14G1113' => 'twi', 'TWI15G0426' => 'twi', 'TWI31G1005' => 'twi', 'TWI38G0513' => 'twi', 'TWI38G1484' => 'twi', 'TWI73G1098' => 'twi', 'unitig_26.g10519' => 'ugi', 'unitig_736.g22395' => 'ugi', 'unitig_747.g21234' => 'ugi', 'unitig_747.g21942' => 'ugi', 'vmacro14351' => 'vma', 'VMungo0540G0082' => 'vmu', 'VMungo0540G0405' => 'vmu', 'VMungo0540G1486' => 'vmu', 'VMungo0540G1692' => 'vmu', 'VMungo0720G2473' => 'vmu', 'VMungo1127G1562' => 'vmu', 'VMungo1215G1918' => 'vmu', 'Zm00001eb052650' => 'zma', 'Zm00001eb063710' => 'zma', 'Zm00001eb083950' => 'zma', 'Zm00001eb174420' => 'zma', 'Zm00001eb260140' => 'zma', 'Zm00001eb260150' => 'zma', 'Zm00001eb260160' => 'zma', 'Zm00001eb348290' => 'zma', 'Zm00001eb366870' => 'zma', 'Zm00001eb421930' => 'zma' ) $gf_id = 'HOM05D001025' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001025' ) $data_identifier = 'HOM05D001025' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 19, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 2, 'amhyb' => (int) 4, 'aly' => (int) 4, 'aox' => (int) 4, 'arhy' => (int) 3, 'ath' => (int) 5, 'atr' => (int) 4, 'acertr' => (int) 3, 'cqu' => (int) 7, 'bca' => (int) 17, 'bol' => (int) 10, 'bra' => (int) 9, 'can' => (int) 10, 'cansat' => (int) 6, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 5, 'cbr' => (int) 5, 'ccan' => (int) 5, 'cde' => (int) 4, 'cfa' => (int) 3, 'ccl' => (int) 6, 'cil' => (int) 4, 'cla' => (int) 3, 'col' => (int) 3, 'cpa' => (int) 3, 'cre' => (int) 7, 'csa' => (int) 5, 'camsi' => (int) 9, 'dca' => (int) 4, 'din' => (int) 5, 'dzi' => (int) 7, 'eca' => (int) 6, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 12, 'fve' => (int) 4, 'gma' => (int) 12, 'ghi' => (int) 17, 'gra' => (int) 9, 'vvi' => (int) 2, 'han' => (int) 8, 'cav' => (int) 5, 'hma' => (int) 9, 'vpl' => (int) 4, 'sun' => (int) 2, 'lal' => (int) 9, 'lja' => (int) 5, 'lonja' => (int) 6, 'lsa' => (int) 3, 'mes' => (int) 8, 'mpo' => (int) 3, 'mbi' => (int) 4, 'mco' => (int) 3, 'mdo' => (int) 5, 'mtr' => (int) 7, 'cme' => (int) 6, 'egut' => (int) 7, 'ama' => (int) 3, 'nta' => (int) 12, 'nnu' => (int) 9, 'oeu' => (int) 4, 'osa' => (int) 7, 'pax' => (int) 9, 'pgr' => (int) 5, 'stu' => (int) 8, 'pvu' => (int) 6, 'ptr' => (int) 9, 'ppa' => (int) 9, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 7, 'pso' => (int) 10, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 3, 'sbr' => (int) 8, 'sbo' => (int) 5, 'sci' => (int) 5, 'sed' => (int) 4, 'sgi' => (int) 4, 'sas' => (int) 4, 'smo' => (int) 5, 'sly' => (int) 7, 'spe' => (int) 10, 'spa' => (int) 5, 'tar' => (int) 5, 'tha' => (int) 8, 'tca' => (int) 3, 'esa' => (int) 5, 'tpr' => (int) 6, 'twi' => (int) 6, 'ugi' => (int) 4, 'vma' => (int) 1, 'vmu' => (int) 7, 'zma' => (int) 10 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb421930' $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' => 'HOM05D001025', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '592', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p22650' => 'bna', 'A01p29720' => 'bna', 'A03p26560' => 'bna', 'A03p68820' => 'bna', 'A04p20980' => 'bna', 'A06p07730' => 'bna', 'A07p18260' => 'bna', 'A08p33710' => 'bna', 'A09p16970' => 'bna', 'A10p27490' => 'bna', 'Aa31LG1G17300' => 'aar', 'Aa31LG1G3910' => 'aar', 'Aa31LG2G9630' => 'aar', 'Aa31LG5G8360' => 'aar', 'Aa31LG9G2410' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4699' => 'aag', 'Actinidia23512' => 'ach', 'Actinidia37080' => 'ach', 'Ah.01g020380' => 'amhyb', 'Ah.08g215710' => 'amhyb', 'Ah.09g225110' => 'amhyb', 'Ah.10g036680' => 'amhyb', 'AL1G21940' => 'aly', 'AL2G15540' => 'aly', 'AL4G21520' => 'aly', 'AL7G40960' => 'aly', 'Aqoxy2G01191' => 'aox', 'Aqoxy2G03393' => 'aox', 'Aqoxy4G02775' => 'aox', 'Aqoxy6G00058' => 'aox', 'arahy.Tifrunner.gnm1.ann1.9X74H2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CW3FX9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R485W7' => 'arhy', 'AT1G10960' => 'ath', 'AT1G60950' => 'ath', 'AT2G27510' => 'ath', 'AT4G14890' => 'ath', 'AT5G10000' => 'ath', 'ATR0665G624' => 'atr', 'ATR0697G138' => 'atr', 'ATR0776G046' => 'atr', 'ATR1134G135' => 'atr', 'Atru.chr12.1025' => 'acertr', 'Atru.chr3.3241' => 'acertr', 'Atru.chr4.2460' => 'acertr', 'AUR62007427' => 'cqu', 'AUR62010960' => 'cqu', 'AUR62012201' => 'cqu', 'AUR62021470' => 'cqu', 'AUR62022834' => 'cqu', 'AUR62033635' => 'cqu', 'AUR62036186' => 'cqu', 'BcaB01g03077' => 'bca', 'BcaB02g10093' => 'bca', 'BcaB04g20295' => 'bca', 'BcaB06g28147' => 'bca', 'BcaB07g31253' => 'bca', 'BcaC01g04946' => 'bca', 'BcaC02g10614' => 'bca', 'BcaC02g10885' => 'bca', 'BcaC04g19356' => 'bca', 'BcaC04g22297' => 'bca', 'BcaC05g24977' => 'bca', 'BcaC06g31823' => 'bca', 'BcaC07g38633' => 'bca', 'BcaC09g49353' => 'bca', 'BcaC09g50168' => 'bca', 'BcaNung00322' => 'bca', 'BcaNung04769' => 'bca', 'BolC1t02753H' => 'bol', 'BolC1t03721H' => 'bol', 'BolC3t15525H' => 'bol', 'BolC4t23903H' => 'bol', 'BolC4t24231H' => 'bol', 'BolC4t27209H' => 'bol', 'BolC5t29671H' => 'bol', 'BolC8t49044H' => 'bol', 'BolC9t54999H' => 'bol', 'BolC9t59517H' => 'bol', 'BraA01t02178Z' => 'bra', 'BraA01t03099Z' => 'bra', 'BraA03t11867Z' => 'bra', 'BraA04t17667Z' => 'bra', 'BraA07t29542Z' => 'bra', 'BraA08t35287Z' => 'bra', 'BraA09t37334Z' => 'bra', 'BraA10t44801Z' => 'bra', 'BraSC39t46181Z' => 'bra', 'C01p28240' => 'bna', 'C01p37530' => 'bna', 'C03p31820' => 'bna', 'C04p24080' => 'bna', 'C04p25790' => 'bna', 'C04p56770' => 'bna', 'C05p09310' => 'bna', 'C09p21010' => 'bna', 'C09p67560' => 'bna', 'CAN.G1324.7' => 'can', 'CAN.G1358.10' => 'can', 'CAN.G1550.2' => 'can', 'CAN.G186.56' => 'can', 'CAN.G1965.1' => 'can', 'CAN.G645.15' => 'can', 'CAN.G798.26' => 'can', 'CAN.G798.27' => 'can', 'CAN.G798.29' => 'can', 'CAN.G919.31' => 'can', 'CANSAT11G0133' => 'cansat', 'CANSAT11G1171' => 'cansat', 'CANSAT11G2056' => 'cansat', 'CANSAT56G1202' => 'cansat', 'CANSAT56G1514' => 'cansat', 'CANSAT78G0455' => 'cansat', 'CARHR011190' => 'chi', 'CARHR051980' => 'chi', 'CARHR120170' => 'chi', 'CARHR203310' => 'chi', 'CARHR221490' => 'chi', 'Carub.0001s1054' => 'cru', 'Carub.0002s0431' => 'cru', 'Carub.0004s0818' => 'cru', 'Carub.0006s0846' => 'cru', 'Carub.0007s2722' => 'cru', 'Ca_00058_v3' => 'car', 'Ca_17831_v3' => 'car', 'Ca_19408_v3' => 'car', 'Ca_24397_v3' => 'car', 'Ca_25664_v3' => 'car', 'CBR_g21818' => 'cbr', 'CBR_g31195' => 'cbr', 'CBR_g32282' => 'cbr', 'CBR_g39599' => 'cbr', 'CBR_g49410' => 'cbr', 'Cc01_g09120' => 'ccan', 'Cc01_g09130' => 'ccan', 'Cc02_g09630' => 'ccan', 'Cc02_g22810' => 'ccan', 'Cc03_g03810' => 'ccan', 'CDE02G3718' => 'cde', 'CDE04G3183' => 'cde', 'CDE07G1046' => 'cde', 'CDE08G0480' => 'cde', 'Cfa005493' => 'cfa', 'Cfa010312' => 'cfa', 'Cfa015648' => 'cfa', 'Ciclev10002793m.g' => 'ccl', 'Ciclev10003356m.g' => 'ccl', 'Ciclev10006141m.g' => 'ccl', 'Ciclev10016676m.g' => 'ccl', 'Ciclev10017081m.g' => 'ccl', 'Ciclev10029499m.g' => 'ccl', 'CiPaw.01G166300' => 'cil', 'CiPaw.06G145600' => 'cil', 'CiPaw.13G040100' => 'cil', 'CiPaw.13G135800' => 'cil', 'ClCG01G012230' => 'cla', 'ClCG05G009510' => 'cla', 'ClCG08G008270' => 'cla', 'COL.COLO4_11763' => 'col', 'COL.COLO4_19876' => 'col', 'COL.COLO4_21481' => 'col', 'Cpa.g.sc118.34' => 'cpa', 'Cpa.g.sc32.13' => 'cpa', 'Cpa.g.sc58.103' => 'cpa', 'Cre03.g183850' => 'cre', 'Cre06.g306350' => 'cre', 'Cre07.g334800' => 'cre', 'Cre12.g487900' => 'cre', 'Cre14.g626700' => 'cre', 'Cre16.g658400' => 'cre', 'Cre17.g700950' => 'cre', 'CsaV3_1G014830' => 'csa', 'CsaV3_3G013320' => 'csa', 'CsaV3_3G019210' => 'csa', 'CsaV3_3G019220' => 'csa', 'CsaV3_6G004230' => 'csa', 'CSS0003773' => 'camsi', 'CSS0004563' => 'camsi', 'CSS0013949' => 'camsi', 'CSS0025971' => 'camsi', 'CSS0028570' => 'camsi', 'CSS0033127' => 'camsi', 'CSS0036051' => 'camsi', 'CSS0040087' => 'camsi', 'CSS0043179' => 'camsi', 'DCAR_006161' => 'dca', 'DCAR_010351' => 'dca', 'DCAR_012197' => 'dca', 'DCAR_024162' => 'dca', 'Dinv01030' => 'din', 'Dinv10924' => 'din', 'Dinv11835' => 'din', 'Dinv22841' => 'din', 'Dinv42553' => 'din', 'Duzib052G0560' => 'dzi', 'Duzib132G0389' => 'dzi', 'Duzib150G1181' => 'dzi', 'Duzib168G0623' => 'dzi', 'Duzib170G1036' => 'dzi', 'Duzib212G0200' => 'dzi', 'Duzib248G0194' => 'dzi', 'ECA232G2193' => 'eca', 'ECA233G0302' => 'eca', 'ECA234G2813' => 'eca', 'ECA234G4866' => 'eca', 'ECA240G3932' => 'eca', 'ECA248G0385' => 'eca', 'EL10Ac2g04781' => 'bvu', 'EL10Ac3g06445' => 'bvu', 'EL10Ac7g15825' => 'bvu', 'EL10Ac8g18550' => 'bvu', 'Eucgr.B03849' => 'egr', 'Eucgr.I02744' => 'egr', 'Eucgr.J00264' => 'egr', 'Eucgr.J00493' => 'egr', 'FAN04G2181' => 'fan', 'FAN07G2666' => 'fan', 'FAN11G0024' => 'fan', 'FAN12G1105' => 'fan', 'FAN13G0302' => 'fan', 'FAN15G2781' => 'fan', 'FAN16G1274' => 'fan', 'FAN17G2988' => 'fan', 'FAN18G2621' => 'fan', 'FAN21G0013' => 'fan', 'FAN22G1211' => 'fan', 'FAN25G3626' => 'fan', 'FvH4_2g09491' => 'fve', 'FvH4_3g24910' => 'fve', 'FvH4_4g15630' => 'fve', 'FvH4_5g28820' => 'fve', 'Glyma.01G238000' => 'gma', 'Glyma.05G168400' => 'gma', 'Glyma.08G126800' => 'gma', 'Glyma.08G188500' => 'gma', 'Glyma.10G278900' => 'gma', 'Glyma.11G005700' => 'gma', 'Glyma.11G183300' => 'gma', 'Glyma.12G089200' => 'gma', 'Glyma.12G169400' => 'gma', 'Glyma.12G169500' => 'gma', 'Glyma.12G169600' => 'gma', 'Glyma.20G110800' => 'gma', 'Gohir.A03G192900' => 'ghi', 'Gohir.A03G193000' => 'ghi', 'Gohir.A05G080700' => 'ghi', 'Gohir.A09G216000' => 'ghi', 'Gohir.A12G027700' => 'ghi', 'Gohir.A13G036200' => 'ghi', 'Gohir.A13G222600' => 'ghi', 'Gohir.D02G213900' => 'ghi', 'Gohir.D02G214000' => 'ghi', 'Gohir.D05G083700' => 'ghi', 'Gohir.D05G083800' => 'ghi', 'Gohir.D05G083850' => 'ghi', 'Gohir.D08G015400' => 'ghi', 'Gohir.D09G218400' => 'ghi', 'Gohir.D12G027100' => 'ghi', 'Gohir.D13G034500' => 'ghi', 'Gohir.D13G227400' => 'ghi', 'Gorai.005G241800' => 'gra', 'Gorai.005G241900' => 'gra', 'Gorai.006G239400' => 'gra', 'Gorai.008G027600' => 'gra', 'Gorai.009G085400' => 'gra', 'Gorai.009G085500' => 'gra', 'Gorai.013G039000' => 'gra', 'Gorai.013G194800' => 'gra', 'Gorai.013G257900' => 'gra', 'GSVIVG01000982001' => 'vvi', 'GSVIVG01017981001' => 'vvi', 'HanXRQChr01g0024061' => 'han', 'HanXRQChr09g0247831' => 'han', 'HanXRQChr10g0294611' => 'han', 'HanXRQChr10g0294621' => 'han', 'HanXRQChr11g0346821' => 'han', 'HanXRQChr13g0397461' => 'han', 'HanXRQChr16g0513651' => 'han', 'HanXRQChr16g0513701' => 'han', 'Haze_00897' => 'cav', 'Haze_01745' => 'cav', 'Haze_02486' => 'cav', 'Haze_02487' => 'cav', 'Haze_23374' => 'cav', 'Hma1.2p1_0578F.1_g182520' => 'hma', 'Hma1.2p1_0602F.1_g187350' => 'hma', 'Hma1.2p1_0602F.1_g187360' => 'hma', 'Hma1.2p1_0874F.1_g231320' => 'hma', 'Hma1.2p1_1197F.1_g266210' => 'hma', 'Hma1.2p1_1197F.1_g266220' => 'hma', 'Hma1.2p1_2167F.1_g315895' => 'hma', 'Hma1.2p1_2190F.1_g316640' => 'hma', 'Hma1.2p1_3645F.1_g337153' => 'hma', 'HPP92_004907' => 'vpl', 'HPP92_012134' => 'vpl', 'HPP92_025136' => 'vpl', 'HPP92_026087' => 'vpl', 'Hund06782' => 'sun', 'Hund06784' => 'sun', 'Lalb_Chr01g0004861' => 'lal', 'Lalb_Chr02g0140591' => 'lal', 'Lalb_Chr02g0140611' => 'lal', 'Lalb_Chr03g0028101' => 'lal', 'Lalb_Chr07g0185791' => 'lal', 'Lalb_Chr12g0204491' => 'lal', 'Lalb_Chr13g0295671' => 'lal', 'Lalb_Chr19g0136461' => 'lal', 'Lalb_Chr21g0309191' => 'lal', 'Lj1g0028158' => 'lja', 'Lj1P236T38' => 'lonja', 'Lj2C32G2' => 'lonja', 'Lj2P944T8' => 'lonja', 'Lj2P963T15' => 'lonja', 'Lj3g0011788' => 'lja', 'Lj4g0025027' => 'lja', 'Lj5P255T36' => 'lonja', 'Lj6g0018866' => 'lja', 'Lj6P608T31' => 'lonja', 'LjContig00408g0008879' => 'lja', 'Lsat_1_v5_gn_5_105820' => 'lsa', 'Lsat_1_v5_gn_6_38800' => 'lsa', 'Lsat_1_v5_gn_7_67141' => 'lsa', 'Manes.04G003400' => 'mes', 'Manes.07G020000' => 'mes', 'Manes.07G020100' => 'mes', 'Manes.07G020150' => 'mes', 'Manes.10G061500' => 'mes', 'Manes.10G123200' => 'mes', 'Manes.11G161900' => 'mes', 'Manes.15G029300' => 'mes', 'Mapoly0071s0018' => 'mpo', 'Mapoly0082s0023' => 'mpo', 'Mapoly3477s0001' => 'mpo', 'MBI05_g31233_MAGBIO' => 'mbi', 'MBI09_g05946_MAGBIO' => 'mbi', 'MBI09_g05947_MAGBIO' => 'mbi', 'MBI17_g08346_MAGBIO' => 'mbi', 'MCO04G038' => 'mco', 'MCO09G370' => 'mco', 'MCO13G605' => 'mco', 'MD00G1075500' => 'mdo', 'MD03G1144300' => 'mdo', 'MD08G1236800' => 'mdo', 'MD13G1193300' => 'mdo', 'MD15G1428700' => 'mdo', 'Medtr1g112030' => 'mtr', 'Medtr1g112050' => 'mtr', 'Medtr2g006290' => 'mtr', 'Medtr2g086510' => 'mtr', 'Medtr4g053120' => 'mtr', 'Medtr5g006320' => 'mtr', 'Medtr8g088720' => 'mtr', 'MELO3C004712.2' => 'cme', 'MELO3C006533.2' => 'cme', 'MELO3C019438.2' => 'cme', 'MELO3C019440.2' => 'cme', 'MELO3C019441.2' => 'cme', 'MELO3C019895.2' => 'cme', 'Migut.B00811' => 'egut', 'Migut.D02447' => 'egut', 'Migut.F00875' => 'egut', 'Migut.N00186' => 'egut', 'Migut.N01051' => 'egut', 'Migut.N02491' => 'egut', 'Migut.O00784' => 'egut', 'MSTRG.12367' => 'ama', 'MSTRG.18756' => 'ama', 'MSTRG.21042' => 'ama', 'Nitab4.5_0000559g0040' => 'nta', 'Nitab4.5_0000667g0190' => 'nta', 'Nitab4.5_0000755g0160' => 'nta', 'Nitab4.5_0001216g0080' => 'nta', 'Nitab4.5_0004069g0040' => 'nta', 'Nitab4.5_0004129g0010' => 'nta', 'Nitab4.5_0005744g0030' => 'nta', 'Nitab4.5_0006996g0030' => 'nta', 'Nitab4.5_0008971g0040' => 'nta', 'Nitab4.5_0009769g0020' => 'nta', 'Nitab4.5_0009833g0010' => 'nta', 'Nitab4.5_0013140g0020' => 'nta', 'Nn003s41376' => 'nnu', 'Nn1g01857' => 'nnu', 'Nn1g03611' => 'nnu', 'Nn1g06853' => 'nnu', 'Nn3g18360' => 'nnu', 'Nn4g26328' => 'nnu', 'Nn5g27531' => 'nnu', 'Nn6g34899' => 'nnu', 'Nn7g36299' => 'nnu', 'Oeu021485.1' => 'oeu', 'Oeu022433.1' => 'oeu', 'Oeu032111.1' => 'oeu', 'Oeu051608.1' => 'oeu', 'Os01g0860601' => 'osa', 'Os03g0659200' => 'osa', 'Os03g0835900' => 'osa', 'Os04g0412200' => 'osa', 'Os05g0443500' => 'osa', 'Os07g0251500' => 'osa', 'Os08g0104600' => 'osa', 'Peaxi162Scf00003g00047' => 'pax', 'Peaxi162Scf00003g00052' => 'pax', 'Peaxi162Scf00003g00394' => 'pax', 'Peaxi162Scf00091g00621' => 'pax', 'Peaxi162Scf00152g00146' => 'pax', 'Peaxi162Scf00173g00025' => 'pax', 'Peaxi162Scf00195g00102' => 'pax', 'Peaxi162Scf00402g00013' => 'pax', 'Peaxi162Scf00519g00618' => 'pax', 'PGR004G2838' => 'pgr', 'PGR044G2275' => 'pgr', 'PGR102G1377' => 'pgr', 'PGR119G1245' => 'pgr', 'PGR142G4449' => 'pgr', 'PGSC0003DMG400004532' => 'stu', 'PGSC0003DMG400011950' => 'stu', 'PGSC0003DMG400023391' => 'stu', 'PGSC0003DMG400023985' => 'stu', 'PGSC0003DMG400026360' => 'stu', 'PGSC0003DMG400035711' => 'stu', 'PGSC0003DMG400037286' => 'stu', 'PGSC0003DMG402005881' => 'stu', 'Phvul.002G045400' => 'pvu', 'Phvul.006G216600' => 'pvu', 'Phvul.006G216700' => 'pvu', 'Phvul.006G216800' => 'pvu', 'Phvul.007G022500' => 'pvu', 'Phvul.011G094400' => 'pvu', 'Potri.001G470700' => 'ptr', 'Potri.003G015200' => 'ptr', 'Potri.004G202500' => 'ptr', 'Potri.004G218400' => 'ptr', 'Potri.008G020100' => 'ptr', 'Potri.008G153200' => 'ptr', 'Potri.009G163800' => 'ptr', 'Potri.010G087300' => 'ptr', 'Potri.010G239100' => 'ptr', 'Pp3c10_16100' => 'ppa', 'Pp3c10_16880' => 'ppa', 'Pp3c16_6230' => 'ppa', 'Pp3c17_18910' => 'ppa', 'Pp3c3_22119' => 'ppa', 'Pp3c3_22140' => 'ppa', 'Pp3c4_8159' => 'ppa', 'Pp3c4_8171' => 'ppa', 'Pp3c4_8330' => 'ppa', 'PRCOL_00004098' => 'pco', 'Prupe.1G013900' => 'ppe', 'Prupe.1G226300' => 'ppe', 'Prupe.1G573600' => 'ppe', 'Prupe.6G130100' => 'ppe', 'Psat3g090040' => 'psa', 'Psat4g210440' => 'psa', 'Psat6g231040' => 'psa', 'Psat6g231080' => 'psa', 'Psat7g063000' => 'psa', 'Psat7g188000' => 'psa', 'Psat7g188040' => 'psa', 'PSO017G0206' => 'pso', 'PSO170G0501' => 'pso', 'PSO170G6422' => 'pso', 'PSO210G7739' => 'pso', 'PSO339G1808' => 'pso', 'PSO339G6135' => 'pso', 'PSO384G0010' => 'pso', 'PSO384G0964' => 'pso', 'PSO761G0050' => 'pso', 'PSO782G4085' => 'pso', 'QL01p012264' => 'qlo', 'QL02p099491' => 'qlo', 'QL03p033868' => 'qlo', 'QL04p046678' => 'qlo', 'QL06p002448' => 'qlo', 'RcHm_v2.0_Chr4g0416181' => 'rch', 'RcHm_v2.0_Chr5g0044701' => 'rch', 'RcHm_v2.0_Chr6g0265781' => 'rch', 'RcHm_v2.0_Chr7g0221031' => 'rch', 'Rhsim04G0202000' => 'rsi', 'Rhsim11G0127300' => 'rsi', 'Rhsim13G0111800' => 'rsi', 'Sabra01G0165600' => 'sbr', 'Sabra03G0008300' => 'sbr', 'Sabra04G0136900' => 'sbr', 'Sabra08G0013400' => 'sbr', 'Sabra08G0116800' => 'sbr', 'Sabra09G0128000' => 'sbr', 'Sabra10G0055500' => 'sbr', 'Sabra10G0073300' => 'sbr', 'SalBow3G0385' => 'sbo', 'SalBow3G1119' => 'sbo', 'SalBow3G2005' => 'sbo', 'SalBow6G2563' => 'sbo', 'SalBow6G6386' => 'sbo', 'Sc06g0008800' => 'sci', 'Sc07g0004950' => 'sci', 'Sc09g0005340' => 'sci', 'Sc13g0004410' => 'sci', 'Sc21g0007090' => 'sci', 'Sed0009285' => 'sed', 'Sed0017583' => 'sed', 'Sed0019699' => 'sed', 'Sed0023107' => 'sed', 'SEGI_10916' => 'sgi', 'SEGI_16217' => 'sgi', 'SEGI_19466' => 'sgi', 'SEGI_41115' => 'sgi', 'SGA_v2.0_scaffold111G31534' => 'sas', 'SGA_v2.0_scaffold22G09864' => 'sas', 'SGA_v2.0_scaffold338G49219' => 'sas', 'SGA_v2.0_scaffold92G28298' => 'sas', 'SMO119G0064' => 'smo', 'SMO223G0038' => 'smo', 'SMO347G0584' => 'smo', 'SMO351G0010' => 'smo', 'SMO356G0404' => 'smo', 'Solyc01g103920.3' => 'sly', 'Solyc04g009710.2' => 'sly', 'Solyc05g055280.2' => 'sly', 'Solyc10g044520.3' => 'sly', 'Solyc10g075160.1' => 'sly', 'Solyc11g006910.3' => 'sly', 'Solyc11g068430.3' => 'sly', 'Sopen01g046310' => 'spe', 'Sopen03g001200' => 'spe', 'Sopen04g004830' => 'spe', 'Sopen05g033720' => 'spe', 'Sopen06g030740' => 'spe', 'Sopen10g013090' => 'spe', 'Sopen10g027630' => 'spe', 'Sopen10g027640' => 'spe', 'Sopen11g002820' => 'spe', 'Sopen11g027140' => 'spe', 'Sp1g09680' => 'spa', 'Sp2g03630' => 'spa', 'Sp4g10320' => 'spa', 'Sp6g33400' => 'spa', 'Sp7g13030' => 'spa', 'TAR365G0317' => 'tar', 'TAR376G0979' => 'tar', 'TAR623G1665' => 'tar', 'TAR633G2373' => 'tar', 'TAR636G1400' => 'tar', 'THA.LOC104800529' => 'tha', 'THA.LOC104808547' => 'tha', 'THA.LOC104809615' => 'tha', 'THA.LOC104815724' => 'tha', 'THA.LOC104818480' => 'tha', 'THA.LOC104819179' => 'tha', 'THA.LOC104822270' => 'tha', 'THA.LOC104826425' => 'tha', 'Thecc.02G089700' => 'tca', 'Thecc.04G232300' => 'tca', 'Thecc.09G283400' => 'tca', 'Thhalv10009020m.g' => 'esa', 'Thhalv10015506m.g' => 'esa', 'Thhalv10017364m.g' => 'esa', 'Thhalv10023742m.g' => 'esa', 'Thhalv10026483m.g' => 'esa', 'TPR.G17232' => 'tpr', 'TPR.G2133' => 'tpr', 'TPR.G2498' => 'tpr', 'TPR.G31942' => 'tpr', 'TPR.G37877' => 'tpr', 'TPR.G4571' => 'tpr', 'TWI14G1113' => 'twi', 'TWI15G0426' => 'twi', 'TWI31G1005' => 'twi', 'TWI38G0513' => 'twi', 'TWI38G1484' => 'twi', 'TWI73G1098' => 'twi', 'unitig_26.g10519' => 'ugi', 'unitig_736.g22395' => 'ugi', 'unitig_747.g21234' => 'ugi', 'unitig_747.g21942' => 'ugi', 'vmacro14351' => 'vma', 'VMungo0540G0082' => 'vmu', 'VMungo0540G0405' => 'vmu', 'VMungo0540G1486' => 'vmu', 'VMungo0540G1692' => 'vmu', 'VMungo0720G2473' => 'vmu', 'VMungo1127G1562' => 'vmu', 'VMungo1215G1918' => 'vmu', 'Zm00001eb052650' => 'zma', 'Zm00001eb063710' => 'zma', 'Zm00001eb083950' => 'zma', 'Zm00001eb174420' => 'zma', 'Zm00001eb260140' => 'zma', 'Zm00001eb260150' => 'zma', 'Zm00001eb260160' => 'zma', 'Zm00001eb348290' => 'zma', 'Zm00001eb366870' => 'zma', 'Zm00001eb421930' => 'zma' ), 'gf_id' => 'HOM05D001025', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001025' ), 'data_identifier' => 'HOM05D001025', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001025', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '592', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p22650' => 'bna', 'A01p29720' => 'bna', 'A03p26560' => 'bna', 'A03p68820' => 'bna', 'A04p20980' => 'bna', 'A06p07730' => 'bna', 'A07p18260' => 'bna', 'A08p33710' => 'bna', 'A09p16970' => 'bna', 'A10p27490' => 'bna', 'Aa31LG1G17300' => 'aar', 'Aa31LG1G3910' => 'aar', 'Aa31LG2G9630' => 'aar', 'Aa31LG5G8360' => 'aar', 'Aa31LG9G2410' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4699' => 'aag', 'Actinidia23512' => 'ach', 'Actinidia37080' => 'ach', 'Ah.01g020380' => 'amhyb', 'Ah.08g215710' => 'amhyb', 'Ah.09g225110' => 'amhyb', 'Ah.10g036680' => 'amhyb', 'AL1G21940' => 'aly', 'AL2G15540' => 'aly', 'AL4G21520' => 'aly', 'AL7G40960' => 'aly', 'Aqoxy2G01191' => 'aox', 'Aqoxy2G03393' => 'aox', 'Aqoxy4G02775' => 'aox', 'Aqoxy6G00058' => 'aox', 'arahy.Tifrunner.gnm1.ann1.9X74H2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CW3FX9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R485W7' => 'arhy', 'AT1G10960' => 'ath', 'AT1G60950' => 'ath', 'AT2G27510' => 'ath', 'AT4G14890' => 'ath', 'AT5G10000' => 'ath', 'ATR0665G624' => 'atr', 'ATR0697G138' => 'atr', 'ATR0776G046' => 'atr', 'ATR1134G135' => 'atr', 'Atru.chr12.1025' => 'acertr', 'Atru.chr3.3241' => 'acertr', 'Atru.chr4.2460' => 'acertr', 'AUR62007427' => 'cqu', 'AUR62010960' => 'cqu', 'AUR62012201' => 'cqu', 'AUR62021470' => 'cqu', 'AUR62022834' => 'cqu', 'AUR62033635' => 'cqu', 'AUR62036186' => 'cqu', 'BcaB01g03077' => 'bca', 'BcaB02g10093' => 'bca', 'BcaB04g20295' => 'bca', 'BcaB06g28147' => 'bca', 'BcaB07g31253' => 'bca', 'BcaC01g04946' => 'bca', 'BcaC02g10614' => 'bca', 'BcaC02g10885' => 'bca', 'BcaC04g19356' => 'bca', 'BcaC04g22297' => 'bca', 'BcaC05g24977' => 'bca', 'BcaC06g31823' => 'bca', 'BcaC07g38633' => 'bca', 'BcaC09g49353' => 'bca', 'BcaC09g50168' => 'bca', 'BcaNung00322' => 'bca', 'BcaNung04769' => 'bca', 'BolC1t02753H' => 'bol', 'BolC1t03721H' => 'bol', 'BolC3t15525H' => 'bol', 'BolC4t23903H' => 'bol', 'BolC4t24231H' => 'bol', 'BolC4t27209H' => 'bol', 'BolC5t29671H' => 'bol', 'BolC8t49044H' => 'bol', 'BolC9t54999H' => 'bol', 'BolC9t59517H' => 'bol', 'BraA01t02178Z' => 'bra', 'BraA01t03099Z' => 'bra', 'BraA03t11867Z' => 'bra', 'BraA04t17667Z' => 'bra', 'BraA07t29542Z' => 'bra', 'BraA08t35287Z' => 'bra', 'BraA09t37334Z' => 'bra', 'BraA10t44801Z' => 'bra', 'BraSC39t46181Z' => 'bra', 'C01p28240' => 'bna', 'C01p37530' => 'bna', 'C03p31820' => 'bna', 'C04p24080' => 'bna', 'C04p25790' => 'bna', 'C04p56770' => 'bna', 'C05p09310' => 'bna', 'C09p21010' => 'bna', 'C09p67560' => 'bna', 'CAN.G1324.7' => 'can', 'CAN.G1358.10' => 'can', 'CAN.G1550.2' => 'can', 'CAN.G186.56' => 'can', 'CAN.G1965.1' => 'can', 'CAN.G645.15' => 'can', 'CAN.G798.26' => 'can', 'CAN.G798.27' => 'can', 'CAN.G798.29' => 'can', 'CAN.G919.31' => 'can', 'CANSAT11G0133' => 'cansat', 'CANSAT11G1171' => 'cansat', 'CANSAT11G2056' => 'cansat', 'CANSAT56G1202' => 'cansat', 'CANSAT56G1514' => 'cansat', 'CANSAT78G0455' => 'cansat', 'CARHR011190' => 'chi', 'CARHR051980' => 'chi', 'CARHR120170' => 'chi', 'CARHR203310' => 'chi', 'CARHR221490' => 'chi', 'Carub.0001s1054' => 'cru', 'Carub.0002s0431' => 'cru', 'Carub.0004s0818' => 'cru', 'Carub.0006s0846' => 'cru', 'Carub.0007s2722' => 'cru', 'Ca_00058_v3' => 'car', 'Ca_17831_v3' => 'car', 'Ca_19408_v3' => 'car', 'Ca_24397_v3' => 'car', 'Ca_25664_v3' => 'car', 'CBR_g21818' => 'cbr', 'CBR_g31195' => 'cbr', 'CBR_g32282' => 'cbr', 'CBR_g39599' => 'cbr', 'CBR_g49410' => 'cbr', 'Cc01_g09120' => 'ccan', 'Cc01_g09130' => 'ccan', 'Cc02_g09630' => 'ccan', 'Cc02_g22810' => 'ccan', 'Cc03_g03810' => 'ccan', 'CDE02G3718' => 'cde', 'CDE04G3183' => 'cde', 'CDE07G1046' => 'cde', 'CDE08G0480' => 'cde', 'Cfa005493' => 'cfa', 'Cfa010312' => 'cfa', 'Cfa015648' => 'cfa', 'Ciclev10002793m.g' => 'ccl', 'Ciclev10003356m.g' => 'ccl', 'Ciclev10006141m.g' => 'ccl', 'Ciclev10016676m.g' => 'ccl', 'Ciclev10017081m.g' => 'ccl', 'Ciclev10029499m.g' => 'ccl', 'CiPaw.01G166300' => 'cil', 'CiPaw.06G145600' => 'cil', 'CiPaw.13G040100' => 'cil', 'CiPaw.13G135800' => 'cil', 'ClCG01G012230' => 'cla', 'ClCG05G009510' => 'cla', 'ClCG08G008270' => 'cla', 'COL.COLO4_11763' => 'col', 'COL.COLO4_19876' => 'col', 'COL.COLO4_21481' => 'col', 'Cpa.g.sc118.34' => 'cpa', 'Cpa.g.sc32.13' => 'cpa', 'Cpa.g.sc58.103' => 'cpa', 'Cre03.g183850' => 'cre', 'Cre06.g306350' => 'cre', 'Cre07.g334800' => 'cre', 'Cre12.g487900' => 'cre', 'Cre14.g626700' => 'cre', 'Cre16.g658400' => 'cre', 'Cre17.g700950' => 'cre', 'CsaV3_1G014830' => 'csa', 'CsaV3_3G013320' => 'csa', 'CsaV3_3G019210' => 'csa', 'CsaV3_3G019220' => 'csa', 'CsaV3_6G004230' => 'csa', 'CSS0003773' => 'camsi', 'CSS0004563' => 'camsi', 'CSS0013949' => 'camsi', 'CSS0025971' => 'camsi', 'CSS0028570' => 'camsi', 'CSS0033127' => 'camsi', 'CSS0036051' => 'camsi', 'CSS0040087' => 'camsi', 'CSS0043179' => 'camsi', 'DCAR_006161' => 'dca', 'DCAR_010351' => 'dca', 'DCAR_012197' => 'dca', 'DCAR_024162' => 'dca', 'Dinv01030' => 'din', 'Dinv10924' => 'din', 'Dinv11835' => 'din', 'Dinv22841' => 'din', 'Dinv42553' => 'din', 'Duzib052G0560' => 'dzi', 'Duzib132G0389' => 'dzi', 'Duzib150G1181' => 'dzi', 'Duzib168G0623' => 'dzi', 'Duzib170G1036' => 'dzi', 'Duzib212G0200' => 'dzi', 'Duzib248G0194' => 'dzi', 'ECA232G2193' => 'eca', 'ECA233G0302' => 'eca', 'ECA234G2813' => 'eca', 'ECA234G4866' => 'eca', 'ECA240G3932' => 'eca', 'ECA248G0385' => 'eca', 'EL10Ac2g04781' => 'bvu', 'EL10Ac3g06445' => 'bvu', 'EL10Ac7g15825' => 'bvu', 'EL10Ac8g18550' => 'bvu', 'Eucgr.B03849' => 'egr', 'Eucgr.I02744' => 'egr', 'Eucgr.J00264' => 'egr', 'Eucgr.J00493' => 'egr', 'FAN04G2181' => 'fan', 'FAN07G2666' => 'fan', 'FAN11G0024' => 'fan', 'FAN12G1105' => 'fan', 'FAN13G0302' => 'fan', 'FAN15G2781' => 'fan', 'FAN16G1274' => 'fan', 'FAN17G2988' => 'fan', 'FAN18G2621' => 'fan', 'FAN21G0013' => 'fan', 'FAN22G1211' => 'fan', 'FAN25G3626' => 'fan', 'FvH4_2g09491' => 'fve', 'FvH4_3g24910' => 'fve', 'FvH4_4g15630' => 'fve', 'FvH4_5g28820' => 'fve', 'Glyma.01G238000' => 'gma', 'Glyma.05G168400' => 'gma', 'Glyma.08G126800' => 'gma', 'Glyma.08G188500' => 'gma', 'Glyma.10G278900' => 'gma', 'Glyma.11G005700' => 'gma', 'Glyma.11G183300' => 'gma', 'Glyma.12G089200' => 'gma', 'Glyma.12G169400' => 'gma', 'Glyma.12G169500' => 'gma', 'Glyma.12G169600' => 'gma', 'Glyma.20G110800' => 'gma', 'Gohir.A03G192900' => 'ghi', 'Gohir.A03G193000' => 'ghi', 'Gohir.A05G080700' => 'ghi', 'Gohir.A09G216000' => 'ghi', 'Gohir.A12G027700' => 'ghi', 'Gohir.A13G036200' => 'ghi', 'Gohir.A13G222600' => 'ghi', 'Gohir.D02G213900' => 'ghi', 'Gohir.D02G214000' => 'ghi', 'Gohir.D05G083700' => 'ghi', 'Gohir.D05G083800' => 'ghi', 'Gohir.D05G083850' => 'ghi', 'Gohir.D08G015400' => 'ghi', 'Gohir.D09G218400' => 'ghi', 'Gohir.D12G027100' => 'ghi', 'Gohir.D13G034500' => 'ghi', 'Gohir.D13G227400' => 'ghi', 'Gorai.005G241800' => 'gra', 'Gorai.005G241900' => 'gra', 'Gorai.006G239400' => 'gra', 'Gorai.008G027600' => 'gra', 'Gorai.009G085400' => 'gra', 'Gorai.009G085500' => 'gra', 'Gorai.013G039000' => 'gra', 'Gorai.013G194800' => 'gra', 'Gorai.013G257900' => 'gra', 'GSVIVG01000982001' => 'vvi', 'GSVIVG01017981001' => 'vvi', 'HanXRQChr01g0024061' => 'han', 'HanXRQChr09g0247831' => 'han', 'HanXRQChr10g0294611' => 'han', 'HanXRQChr10g0294621' => 'han', 'HanXRQChr11g0346821' => 'han', 'HanXRQChr13g0397461' => 'han', 'HanXRQChr16g0513651' => 'han', 'HanXRQChr16g0513701' => 'han', 'Haze_00897' => 'cav', 'Haze_01745' => 'cav', 'Haze_02486' => 'cav', 'Haze_02487' => 'cav', 'Haze_23374' => 'cav', 'Hma1.2p1_0578F.1_g182520' => 'hma', 'Hma1.2p1_0602F.1_g187350' => 'hma', 'Hma1.2p1_0602F.1_g187360' => 'hma', 'Hma1.2p1_0874F.1_g231320' => 'hma', 'Hma1.2p1_1197F.1_g266210' => 'hma', 'Hma1.2p1_1197F.1_g266220' => 'hma', 'Hma1.2p1_2167F.1_g315895' => 'hma', 'Hma1.2p1_2190F.1_g316640' => 'hma', 'Hma1.2p1_3645F.1_g337153' => 'hma', 'HPP92_004907' => 'vpl', 'HPP92_012134' => 'vpl', 'HPP92_025136' => 'vpl', 'HPP92_026087' => 'vpl', 'Hund06782' => 'sun', 'Hund06784' => 'sun', 'Lalb_Chr01g0004861' => 'lal', 'Lalb_Chr02g0140591' => 'lal', 'Lalb_Chr02g0140611' => 'lal', 'Lalb_Chr03g0028101' => 'lal', 'Lalb_Chr07g0185791' => 'lal', 'Lalb_Chr12g0204491' => 'lal', 'Lalb_Chr13g0295671' => 'lal', 'Lalb_Chr19g0136461' => 'lal', 'Lalb_Chr21g0309191' => 'lal', 'Lj1g0028158' => 'lja', 'Lj1P236T38' => 'lonja', 'Lj2C32G2' => 'lonja', 'Lj2P944T8' => 'lonja', 'Lj2P963T15' => 'lonja', 'Lj3g0011788' => 'lja', 'Lj4g0025027' => 'lja', 'Lj5P255T36' => 'lonja', 'Lj6g0018866' => 'lja', 'Lj6P608T31' => 'lonja', 'LjContig00408g0008879' => 'lja', 'Lsat_1_v5_gn_5_105820' => 'lsa', 'Lsat_1_v5_gn_6_38800' => 'lsa', 'Lsat_1_v5_gn_7_67141' => 'lsa', 'Manes.04G003400' => 'mes', 'Manes.07G020000' => 'mes', 'Manes.07G020100' => 'mes', 'Manes.07G020150' => 'mes', 'Manes.10G061500' => 'mes', 'Manes.10G123200' => 'mes', 'Manes.11G161900' => 'mes', 'Manes.15G029300' => 'mes', 'Mapoly0071s0018' => 'mpo', 'Mapoly0082s0023' => 'mpo', 'Mapoly3477s0001' => 'mpo', 'MBI05_g31233_MAGBIO' => 'mbi', 'MBI09_g05946_MAGBIO' => 'mbi', 'MBI09_g05947_MAGBIO' => 'mbi', 'MBI17_g08346_MAGBIO' => 'mbi', 'MCO04G038' => 'mco', 'MCO09G370' => 'mco', 'MCO13G605' => 'mco', 'MD00G1075500' => 'mdo', 'MD03G1144300' => 'mdo', 'MD08G1236800' => 'mdo', 'MD13G1193300' => 'mdo', 'MD15G1428700' => 'mdo', 'Medtr1g112030' => 'mtr', 'Medtr1g112050' => 'mtr', 'Medtr2g006290' => 'mtr', 'Medtr2g086510' => 'mtr', 'Medtr4g053120' => 'mtr', 'Medtr5g006320' => 'mtr', 'Medtr8g088720' => 'mtr', 'MELO3C004712.2' => 'cme', 'MELO3C006533.2' => 'cme', 'MELO3C019438.2' => 'cme', 'MELO3C019440.2' => 'cme', 'MELO3C019441.2' => 'cme', 'MELO3C019895.2' => 'cme', 'Migut.B00811' => 'egut', 'Migut.D02447' => 'egut', 'Migut.F00875' => 'egut', 'Migut.N00186' => 'egut', 'Migut.N01051' => 'egut', 'Migut.N02491' => 'egut', 'Migut.O00784' => 'egut', 'MSTRG.12367' => 'ama', 'MSTRG.18756' => 'ama', 'MSTRG.21042' => 'ama', 'Nitab4.5_0000559g0040' => 'nta', 'Nitab4.5_0000667g0190' => 'nta', 'Nitab4.5_0000755g0160' => 'nta', 'Nitab4.5_0001216g0080' => 'nta', 'Nitab4.5_0004069g0040' => 'nta', 'Nitab4.5_0004129g0010' => 'nta', 'Nitab4.5_0005744g0030' => 'nta', 'Nitab4.5_0006996g0030' => 'nta', 'Nitab4.5_0008971g0040' => 'nta', 'Nitab4.5_0009769g0020' => 'nta', 'Nitab4.5_0009833g0010' => 'nta', 'Nitab4.5_0013140g0020' => 'nta', 'Nn003s41376' => 'nnu', 'Nn1g01857' => 'nnu', 'Nn1g03611' => 'nnu', 'Nn1g06853' => 'nnu', 'Nn3g18360' => 'nnu', 'Nn4g26328' => 'nnu', 'Nn5g27531' => 'nnu', 'Nn6g34899' => 'nnu', 'Nn7g36299' => 'nnu', 'Oeu021485.1' => 'oeu', 'Oeu022433.1' => 'oeu', 'Oeu032111.1' => 'oeu', 'Oeu051608.1' => 'oeu', 'Os01g0860601' => 'osa', 'Os03g0659200' => 'osa', 'Os03g0835900' => 'osa', 'Os04g0412200' => 'osa', 'Os05g0443500' => 'osa', 'Os07g0251500' => 'osa', 'Os08g0104600' => 'osa', 'Peaxi162Scf00003g00047' => 'pax', 'Peaxi162Scf00003g00052' => 'pax', 'Peaxi162Scf00003g00394' => 'pax', 'Peaxi162Scf00091g00621' => 'pax', 'Peaxi162Scf00152g00146' => 'pax', 'Peaxi162Scf00173g00025' => 'pax', 'Peaxi162Scf00195g00102' => 'pax', 'Peaxi162Scf00402g00013' => 'pax', 'Peaxi162Scf00519g00618' => 'pax', 'PGR004G2838' => 'pgr', 'PGR044G2275' => 'pgr', 'PGR102G1377' => 'pgr', 'PGR119G1245' => 'pgr', 'PGR142G4449' => 'pgr', 'PGSC0003DMG400004532' => 'stu', 'PGSC0003DMG400011950' => 'stu', 'PGSC0003DMG400023391' => 'stu', 'PGSC0003DMG400023985' => 'stu', 'PGSC0003DMG400026360' => 'stu', 'PGSC0003DMG400035711' => 'stu', 'PGSC0003DMG400037286' => 'stu', 'PGSC0003DMG402005881' => 'stu', 'Phvul.002G045400' => 'pvu', 'Phvul.006G216600' => 'pvu', 'Phvul.006G216700' => 'pvu', 'Phvul.006G216800' => 'pvu', 'Phvul.007G022500' => 'pvu', 'Phvul.011G094400' => 'pvu', 'Potri.001G470700' => 'ptr', 'Potri.003G015200' => 'ptr', 'Potri.004G202500' => 'ptr', 'Potri.004G218400' => 'ptr', 'Potri.008G020100' => 'ptr', 'Potri.008G153200' => 'ptr', 'Potri.009G163800' => 'ptr', 'Potri.010G087300' => 'ptr', 'Potri.010G239100' => 'ptr', 'Pp3c10_16100' => 'ppa', 'Pp3c10_16880' => 'ppa', 'Pp3c16_6230' => 'ppa', 'Pp3c17_18910' => 'ppa', 'Pp3c3_22119' => 'ppa', 'Pp3c3_22140' => 'ppa', 'Pp3c4_8159' => 'ppa', 'Pp3c4_8171' => 'ppa', 'Pp3c4_8330' => 'ppa', 'PRCOL_00004098' => 'pco', 'Prupe.1G013900' => 'ppe', 'Prupe.1G226300' => 'ppe', 'Prupe.1G573600' => 'ppe', 'Prupe.6G130100' => 'ppe', 'Psat3g090040' => 'psa', 'Psat4g210440' => 'psa', 'Psat6g231040' => 'psa', 'Psat6g231080' => 'psa', 'Psat7g063000' => 'psa', 'Psat7g188000' => 'psa', 'Psat7g188040' => 'psa', 'PSO017G0206' => 'pso', 'PSO170G0501' => 'pso', 'PSO170G6422' => 'pso', 'PSO210G7739' => 'pso', 'PSO339G1808' => 'pso', 'PSO339G6135' => 'pso', 'PSO384G0010' => 'pso', 'PSO384G0964' => 'pso', 'PSO761G0050' => 'pso', 'PSO782G4085' => 'pso', 'QL01p012264' => 'qlo', 'QL02p099491' => 'qlo', 'QL03p033868' => 'qlo', 'QL04p046678' => 'qlo', 'QL06p002448' => 'qlo', 'RcHm_v2.0_Chr4g0416181' => 'rch', 'RcHm_v2.0_Chr5g0044701' => 'rch', 'RcHm_v2.0_Chr6g0265781' => 'rch', 'RcHm_v2.0_Chr7g0221031' => 'rch', 'Rhsim04G0202000' => 'rsi', 'Rhsim11G0127300' => 'rsi', 'Rhsim13G0111800' => 'rsi', 'Sabra01G0165600' => 'sbr', 'Sabra03G0008300' => 'sbr', 'Sabra04G0136900' => 'sbr', 'Sabra08G0013400' => 'sbr', 'Sabra08G0116800' => 'sbr', 'Sabra09G0128000' => 'sbr', 'Sabra10G0055500' => 'sbr', 'Sabra10G0073300' => 'sbr', 'SalBow3G0385' => 'sbo', 'SalBow3G1119' => 'sbo', 'SalBow3G2005' => 'sbo', 'SalBow6G2563' => 'sbo', 'SalBow6G6386' => 'sbo', 'Sc06g0008800' => 'sci', 'Sc07g0004950' => 'sci', 'Sc09g0005340' => 'sci', 'Sc13g0004410' => 'sci', 'Sc21g0007090' => 'sci', 'Sed0009285' => 'sed', 'Sed0017583' => 'sed', 'Sed0019699' => 'sed', 'Sed0023107' => 'sed', 'SEGI_10916' => 'sgi', 'SEGI_16217' => 'sgi', 'SEGI_19466' => 'sgi', 'SEGI_41115' => 'sgi', 'SGA_v2.0_scaffold111G31534' => 'sas', 'SGA_v2.0_scaffold22G09864' => 'sas', 'SGA_v2.0_scaffold338G49219' => 'sas', 'SGA_v2.0_scaffold92G28298' => 'sas', 'SMO119G0064' => 'smo', 'SMO223G0038' => 'smo', 'SMO347G0584' => 'smo', 'SMO351G0010' => 'smo', 'SMO356G0404' => 'smo', 'Solyc01g103920.3' => 'sly', 'Solyc04g009710.2' => 'sly', 'Solyc05g055280.2' => 'sly', 'Solyc10g044520.3' => 'sly', 'Solyc10g075160.1' => 'sly', 'Solyc11g006910.3' => 'sly', 'Solyc11g068430.3' => 'sly', 'Sopen01g046310' => 'spe', 'Sopen03g001200' => 'spe', 'Sopen04g004830' => 'spe', 'Sopen05g033720' => 'spe', 'Sopen06g030740' => 'spe', 'Sopen10g013090' => 'spe', 'Sopen10g027630' => 'spe', 'Sopen10g027640' => 'spe', 'Sopen11g002820' => 'spe', 'Sopen11g027140' => 'spe', 'Sp1g09680' => 'spa', 'Sp2g03630' => 'spa', 'Sp4g10320' => 'spa', 'Sp6g33400' => 'spa', 'Sp7g13030' => 'spa', 'TAR365G0317' => 'tar', 'TAR376G0979' => 'tar', 'TAR623G1665' => 'tar', 'TAR633G2373' => 'tar', 'TAR636G1400' => 'tar', 'THA.LOC104800529' => 'tha', 'THA.LOC104808547' => 'tha', 'THA.LOC104809615' => 'tha', 'THA.LOC104815724' => 'tha', 'THA.LOC104818480' => 'tha', 'THA.LOC104819179' => 'tha', 'THA.LOC104822270' => 'tha', 'THA.LOC104826425' => 'tha', 'Thecc.02G089700' => 'tca', 'Thecc.04G232300' => 'tca', 'Thecc.09G283400' => 'tca', 'Thhalv10009020m.g' => 'esa', 'Thhalv10015506m.g' => 'esa', 'Thhalv10017364m.g' => 'esa', 'Thhalv10023742m.g' => 'esa', 'Thhalv10026483m.g' => 'esa', 'TPR.G17232' => 'tpr', 'TPR.G2133' => 'tpr', 'TPR.G2498' => 'tpr', 'TPR.G31942' => 'tpr', 'TPR.G37877' => 'tpr', 'TPR.G4571' => 'tpr', 'TWI14G1113' => 'twi', 'TWI15G0426' => 'twi', 'TWI31G1005' => 'twi', 'TWI38G0513' => 'twi', 'TWI38G1484' => 'twi', 'TWI73G1098' => 'twi', 'unitig_26.g10519' => 'ugi', 'unitig_736.g22395' => 'ugi', 'unitig_747.g21234' => 'ugi', 'unitig_747.g21942' => 'ugi', 'vmacro14351' => 'vma', 'VMungo0540G0082' => 'vmu', 'VMungo0540G0405' => 'vmu', 'VMungo0540G1486' => 'vmu', 'VMungo0540G1692' => 'vmu', 'VMungo0720G2473' => 'vmu', 'VMungo1127G1562' => 'vmu', 'VMungo1215G1918' => 'vmu', 'Zm00001eb052650' => 'zma', 'Zm00001eb063710' => 'zma', 'Zm00001eb083950' => 'zma', 'Zm00001eb174420' => 'zma', 'Zm00001eb260140' => 'zma', 'Zm00001eb260150' => 'zma', 'Zm00001eb260160' => 'zma', 'Zm00001eb348290' => 'zma', 'Zm00001eb366870' => 'zma', 'Zm00001eb421930' => 'zma' ) $gf_id = 'HOM05D001025' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001025' ) $data_identifier = 'HOM05D001025' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 19, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 2, 'amhyb' => (int) 4, 'aly' => (int) 4, 'aox' => (int) 4, 'arhy' => (int) 3, 'ath' => (int) 5, 'atr' => (int) 4, 'acertr' => (int) 3, 'cqu' => (int) 7, 'bca' => (int) 17, 'bol' => (int) 10, 'bra' => (int) 9, 'can' => (int) 10, 'cansat' => (int) 6, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 5, 'cbr' => (int) 5, 'ccan' => (int) 5, 'cde' => (int) 4, 'cfa' => (int) 3, 'ccl' => (int) 6, 'cil' => (int) 4, 'cla' => (int) 3, 'col' => (int) 3, 'cpa' => (int) 3, 'cre' => (int) 7, 'csa' => (int) 5, 'camsi' => (int) 9, 'dca' => (int) 4, 'din' => (int) 5, 'dzi' => (int) 7, 'eca' => (int) 6, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 12, 'fve' => (int) 4, 'gma' => (int) 12, 'ghi' => (int) 17, 'gra' => (int) 9, 'vvi' => (int) 2, 'han' => (int) 8, 'cav' => (int) 5, 'hma' => (int) 9, 'vpl' => (int) 4, 'sun' => (int) 2, 'lal' => (int) 9, 'lja' => (int) 5, 'lonja' => (int) 6, 'lsa' => (int) 3, 'mes' => (int) 8, 'mpo' => (int) 3, 'mbi' => (int) 4, 'mco' => (int) 3, 'mdo' => (int) 5, 'mtr' => (int) 7, 'cme' => (int) 6, 'egut' => (int) 7, 'ama' => (int) 3, 'nta' => (int) 12, 'nnu' => (int) 9, 'oeu' => (int) 4, 'osa' => (int) 7, 'pax' => (int) 9, 'pgr' => (int) 5, 'stu' => (int) 8, 'pvu' => (int) 6, 'ptr' => (int) 9, 'ppa' => (int) 9, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 7, 'pso' => (int) 10, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 3, 'sbr' => (int) 8, 'sbo' => (int) 5, 'sci' => (int) 5, 'sed' => (int) 4, 'sgi' => (int) 4, 'sas' => (int) 4, 'smo' => (int) 5, 'sly' => (int) 7, 'spe' => (int) 10, 'spa' => (int) 5, 'tar' => (int) 5, 'tha' => (int) 8, 'tca' => (int) 3, 'esa' => (int) 5, 'tpr' => (int) 6, 'twi' => (int) 6, 'ugi' => (int) 4, 'vma' => (int) 1, 'vmu' => (int) 7, 'zma' => (int) 10 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb421930' $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' => 'HOM05D001025', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '592', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p22650' => 'bna', 'A01p29720' => 'bna', 'A03p26560' => 'bna', 'A03p68820' => 'bna', 'A04p20980' => 'bna', 'A06p07730' => 'bna', 'A07p18260' => 'bna', 'A08p33710' => 'bna', 'A09p16970' => 'bna', 'A10p27490' => 'bna', 'Aa31LG1G17300' => 'aar', 'Aa31LG1G3910' => 'aar', 'Aa31LG2G9630' => 'aar', 'Aa31LG5G8360' => 'aar', 'Aa31LG9G2410' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4699' => 'aag', 'Actinidia23512' => 'ach', 'Actinidia37080' => 'ach', 'Ah.01g020380' => 'amhyb', 'Ah.08g215710' => 'amhyb', 'Ah.09g225110' => 'amhyb', 'Ah.10g036680' => 'amhyb', 'AL1G21940' => 'aly', 'AL2G15540' => 'aly', 'AL4G21520' => 'aly', 'AL7G40960' => 'aly', 'Aqoxy2G01191' => 'aox', 'Aqoxy2G03393' => 'aox', 'Aqoxy4G02775' => 'aox', 'Aqoxy6G00058' => 'aox', 'arahy.Tifrunner.gnm1.ann1.9X74H2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CW3FX9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R485W7' => 'arhy', 'AT1G10960' => 'ath', 'AT1G60950' => 'ath', 'AT2G27510' => 'ath', 'AT4G14890' => 'ath', 'AT5G10000' => 'ath', 'ATR0665G624' => 'atr', 'ATR0697G138' => 'atr', 'ATR0776G046' => 'atr', 'ATR1134G135' => 'atr', 'Atru.chr12.1025' => 'acertr', 'Atru.chr3.3241' => 'acertr', 'Atru.chr4.2460' => 'acertr', 'AUR62007427' => 'cqu', 'AUR62010960' => 'cqu', 'AUR62012201' => 'cqu', 'AUR62021470' => 'cqu', 'AUR62022834' => 'cqu', 'AUR62033635' => 'cqu', 'AUR62036186' => 'cqu', 'BcaB01g03077' => 'bca', 'BcaB02g10093' => 'bca', 'BcaB04g20295' => 'bca', 'BcaB06g28147' => 'bca', 'BcaB07g31253' => 'bca', 'BcaC01g04946' => 'bca', 'BcaC02g10614' => 'bca', 'BcaC02g10885' => 'bca', 'BcaC04g19356' => 'bca', 'BcaC04g22297' => 'bca', 'BcaC05g24977' => 'bca', 'BcaC06g31823' => 'bca', 'BcaC07g38633' => 'bca', 'BcaC09g49353' => 'bca', 'BcaC09g50168' => 'bca', 'BcaNung00322' => 'bca', 'BcaNung04769' => 'bca', 'BolC1t02753H' => 'bol', 'BolC1t03721H' => 'bol', 'BolC3t15525H' => 'bol', 'BolC4t23903H' => 'bol', 'BolC4t24231H' => 'bol', 'BolC4t27209H' => 'bol', 'BolC5t29671H' => 'bol', 'BolC8t49044H' => 'bol', 'BolC9t54999H' => 'bol', 'BolC9t59517H' => 'bol', 'BraA01t02178Z' => 'bra', 'BraA01t03099Z' => 'bra', 'BraA03t11867Z' => 'bra', 'BraA04t17667Z' => 'bra', 'BraA07t29542Z' => 'bra', 'BraA08t35287Z' => 'bra', 'BraA09t37334Z' => 'bra', 'BraA10t44801Z' => 'bra', 'BraSC39t46181Z' => 'bra', 'C01p28240' => 'bna', 'C01p37530' => 'bna', 'C03p31820' => 'bna', 'C04p24080' => 'bna', 'C04p25790' => 'bna', 'C04p56770' => 'bna', 'C05p09310' => 'bna', 'C09p21010' => 'bna', 'C09p67560' => 'bna', 'CAN.G1324.7' => 'can', 'CAN.G1358.10' => 'can', 'CAN.G1550.2' => 'can', 'CAN.G186.56' => 'can', 'CAN.G1965.1' => 'can', 'CAN.G645.15' => 'can', 'CAN.G798.26' => 'can', 'CAN.G798.27' => 'can', 'CAN.G798.29' => 'can', 'CAN.G919.31' => 'can', 'CANSAT11G0133' => 'cansat', 'CANSAT11G1171' => 'cansat', 'CANSAT11G2056' => 'cansat', 'CANSAT56G1202' => 'cansat', 'CANSAT56G1514' => 'cansat', 'CANSAT78G0455' => 'cansat', 'CARHR011190' => 'chi', 'CARHR051980' => 'chi', 'CARHR120170' => 'chi', 'CARHR203310' => 'chi', 'CARHR221490' => 'chi', 'Carub.0001s1054' => 'cru', 'Carub.0002s0431' => 'cru', 'Carub.0004s0818' => 'cru', 'Carub.0006s0846' => 'cru', 'Carub.0007s2722' => 'cru', 'Ca_00058_v3' => 'car', 'Ca_17831_v3' => 'car', 'Ca_19408_v3' => 'car', 'Ca_24397_v3' => 'car', 'Ca_25664_v3' => 'car', 'CBR_g21818' => 'cbr', 'CBR_g31195' => 'cbr', 'CBR_g32282' => 'cbr', 'CBR_g39599' => 'cbr', 'CBR_g49410' => 'cbr', 'Cc01_g09120' => 'ccan', 'Cc01_g09130' => 'ccan', 'Cc02_g09630' => 'ccan', 'Cc02_g22810' => 'ccan', 'Cc03_g03810' => 'ccan', 'CDE02G3718' => 'cde', 'CDE04G3183' => 'cde', 'CDE07G1046' => 'cde', 'CDE08G0480' => 'cde', 'Cfa005493' => 'cfa', 'Cfa010312' => 'cfa', 'Cfa015648' => 'cfa', 'Ciclev10002793m.g' => 'ccl', 'Ciclev10003356m.g' => 'ccl', 'Ciclev10006141m.g' => 'ccl', 'Ciclev10016676m.g' => 'ccl', 'Ciclev10017081m.g' => 'ccl', 'Ciclev10029499m.g' => 'ccl', 'CiPaw.01G166300' => 'cil', 'CiPaw.06G145600' => 'cil', 'CiPaw.13G040100' => 'cil', 'CiPaw.13G135800' => 'cil', 'ClCG01G012230' => 'cla', 'ClCG05G009510' => 'cla', 'ClCG08G008270' => 'cla', 'COL.COLO4_11763' => 'col', 'COL.COLO4_19876' => 'col', 'COL.COLO4_21481' => 'col', 'Cpa.g.sc118.34' => 'cpa', 'Cpa.g.sc32.13' => 'cpa', 'Cpa.g.sc58.103' => 'cpa', 'Cre03.g183850' => 'cre', 'Cre06.g306350' => 'cre', 'Cre07.g334800' => 'cre', 'Cre12.g487900' => 'cre', 'Cre14.g626700' => 'cre', 'Cre16.g658400' => 'cre', 'Cre17.g700950' => 'cre', 'CsaV3_1G014830' => 'csa', 'CsaV3_3G013320' => 'csa', 'CsaV3_3G019210' => 'csa', 'CsaV3_3G019220' => 'csa', 'CsaV3_6G004230' => 'csa', 'CSS0003773' => 'camsi', 'CSS0004563' => 'camsi', 'CSS0013949' => 'camsi', 'CSS0025971' => 'camsi', 'CSS0028570' => 'camsi', 'CSS0033127' => 'camsi', 'CSS0036051' => 'camsi', 'CSS0040087' => 'camsi', 'CSS0043179' => 'camsi', 'DCAR_006161' => 'dca', 'DCAR_010351' => 'dca', 'DCAR_012197' => 'dca', 'DCAR_024162' => 'dca', 'Dinv01030' => 'din', 'Dinv10924' => 'din', 'Dinv11835' => 'din', 'Dinv22841' => 'din', 'Dinv42553' => 'din', 'Duzib052G0560' => 'dzi', 'Duzib132G0389' => 'dzi', 'Duzib150G1181' => 'dzi', 'Duzib168G0623' => 'dzi', 'Duzib170G1036' => 'dzi', 'Duzib212G0200' => 'dzi', 'Duzib248G0194' => 'dzi', 'ECA232G2193' => 'eca', 'ECA233G0302' => 'eca', 'ECA234G2813' => 'eca', 'ECA234G4866' => 'eca', 'ECA240G3932' => 'eca', 'ECA248G0385' => 'eca', 'EL10Ac2g04781' => 'bvu', 'EL10Ac3g06445' => 'bvu', 'EL10Ac7g15825' => 'bvu', 'EL10Ac8g18550' => 'bvu', 'Eucgr.B03849' => 'egr', 'Eucgr.I02744' => 'egr', 'Eucgr.J00264' => 'egr', 'Eucgr.J00493' => 'egr', 'FAN04G2181' => 'fan', 'FAN07G2666' => 'fan', 'FAN11G0024' => 'fan', 'FAN12G1105' => 'fan', 'FAN13G0302' => 'fan', 'FAN15G2781' => 'fan', 'FAN16G1274' => 'fan', 'FAN17G2988' => 'fan', 'FAN18G2621' => 'fan', 'FAN21G0013' => 'fan', 'FAN22G1211' => 'fan', 'FAN25G3626' => 'fan', 'FvH4_2g09491' => 'fve', 'FvH4_3g24910' => 'fve', 'FvH4_4g15630' => 'fve', 'FvH4_5g28820' => 'fve', 'Glyma.01G238000' => 'gma', 'Glyma.05G168400' => 'gma', 'Glyma.08G126800' => 'gma', 'Glyma.08G188500' => 'gma', 'Glyma.10G278900' => 'gma', 'Glyma.11G005700' => 'gma', 'Glyma.11G183300' => 'gma', 'Glyma.12G089200' => 'gma', 'Glyma.12G169400' => 'gma', 'Glyma.12G169500' => 'gma', 'Glyma.12G169600' => 'gma', 'Glyma.20G110800' => 'gma', 'Gohir.A03G192900' => 'ghi', 'Gohir.A03G193000' => 'ghi', 'Gohir.A05G080700' => 'ghi', 'Gohir.A09G216000' => 'ghi', 'Gohir.A12G027700' => 'ghi', 'Gohir.A13G036200' => 'ghi', 'Gohir.A13G222600' => 'ghi', 'Gohir.D02G213900' => 'ghi', 'Gohir.D02G214000' => 'ghi', 'Gohir.D05G083700' => 'ghi', 'Gohir.D05G083800' => 'ghi', 'Gohir.D05G083850' => 'ghi', 'Gohir.D08G015400' => 'ghi', 'Gohir.D09G218400' => 'ghi', 'Gohir.D12G027100' => 'ghi', 'Gohir.D13G034500' => 'ghi', 'Gohir.D13G227400' => 'ghi', 'Gorai.005G241800' => 'gra', 'Gorai.005G241900' => 'gra', 'Gorai.006G239400' => 'gra', 'Gorai.008G027600' => 'gra', 'Gorai.009G085400' => 'gra', 'Gorai.009G085500' => 'gra', 'Gorai.013G039000' => 'gra', 'Gorai.013G194800' => 'gra', 'Gorai.013G257900' => 'gra', 'GSVIVG01000982001' => 'vvi', 'GSVIVG01017981001' => 'vvi', 'HanXRQChr01g0024061' => 'han', 'HanXRQChr09g0247831' => 'han', 'HanXRQChr10g0294611' => 'han', 'HanXRQChr10g0294621' => 'han', 'HanXRQChr11g0346821' => 'han', 'HanXRQChr13g0397461' => 'han', 'HanXRQChr16g0513651' => 'han', 'HanXRQChr16g0513701' => 'han', 'Haze_00897' => 'cav', 'Haze_01745' => 'cav', 'Haze_02486' => 'cav', 'Haze_02487' => 'cav', 'Haze_23374' => 'cav', 'Hma1.2p1_0578F.1_g182520' => 'hma', 'Hma1.2p1_0602F.1_g187350' => 'hma', 'Hma1.2p1_0602F.1_g187360' => 'hma', 'Hma1.2p1_0874F.1_g231320' => 'hma', 'Hma1.2p1_1197F.1_g266210' => 'hma', 'Hma1.2p1_1197F.1_g266220' => 'hma', 'Hma1.2p1_2167F.1_g315895' => 'hma', 'Hma1.2p1_2190F.1_g316640' => 'hma', 'Hma1.2p1_3645F.1_g337153' => 'hma', 'HPP92_004907' => 'vpl', 'HPP92_012134' => 'vpl', 'HPP92_025136' => 'vpl', 'HPP92_026087' => 'vpl', 'Hund06782' => 'sun', 'Hund06784' => 'sun', 'Lalb_Chr01g0004861' => 'lal', 'Lalb_Chr02g0140591' => 'lal', 'Lalb_Chr02g0140611' => 'lal', 'Lalb_Chr03g0028101' => 'lal', 'Lalb_Chr07g0185791' => 'lal', 'Lalb_Chr12g0204491' => 'lal', 'Lalb_Chr13g0295671' => 'lal', 'Lalb_Chr19g0136461' => 'lal', 'Lalb_Chr21g0309191' => 'lal', 'Lj1g0028158' => 'lja', 'Lj1P236T38' => 'lonja', 'Lj2C32G2' => 'lonja', 'Lj2P944T8' => 'lonja', 'Lj2P963T15' => 'lonja', 'Lj3g0011788' => 'lja', 'Lj4g0025027' => 'lja', 'Lj5P255T36' => 'lonja', 'Lj6g0018866' => 'lja', 'Lj6P608T31' => 'lonja', 'LjContig00408g0008879' => 'lja', 'Lsat_1_v5_gn_5_105820' => 'lsa', 'Lsat_1_v5_gn_6_38800' => 'lsa', 'Lsat_1_v5_gn_7_67141' => 'lsa', 'Manes.04G003400' => 'mes', 'Manes.07G020000' => 'mes', 'Manes.07G020100' => 'mes', 'Manes.07G020150' => 'mes', 'Manes.10G061500' => 'mes', 'Manes.10G123200' => 'mes', 'Manes.11G161900' => 'mes', 'Manes.15G029300' => 'mes', 'Mapoly0071s0018' => 'mpo', 'Mapoly0082s0023' => 'mpo', 'Mapoly3477s0001' => 'mpo', 'MBI05_g31233_MAGBIO' => 'mbi', 'MBI09_g05946_MAGBIO' => 'mbi', 'MBI09_g05947_MAGBIO' => 'mbi', 'MBI17_g08346_MAGBIO' => 'mbi', 'MCO04G038' => 'mco', 'MCO09G370' => 'mco', 'MCO13G605' => 'mco', 'MD00G1075500' => 'mdo', 'MD03G1144300' => 'mdo', 'MD08G1236800' => 'mdo', 'MD13G1193300' => 'mdo', 'MD15G1428700' => 'mdo', 'Medtr1g112030' => 'mtr', 'Medtr1g112050' => 'mtr', 'Medtr2g006290' => 'mtr', 'Medtr2g086510' => 'mtr', 'Medtr4g053120' => 'mtr', 'Medtr5g006320' => 'mtr', 'Medtr8g088720' => 'mtr', 'MELO3C004712.2' => 'cme', 'MELO3C006533.2' => 'cme', 'MELO3C019438.2' => 'cme', 'MELO3C019440.2' => 'cme', 'MELO3C019441.2' => 'cme', 'MELO3C019895.2' => 'cme', 'Migut.B00811' => 'egut', 'Migut.D02447' => 'egut', 'Migut.F00875' => 'egut', 'Migut.N00186' => 'egut', 'Migut.N01051' => 'egut', 'Migut.N02491' => 'egut', 'Migut.O00784' => 'egut', 'MSTRG.12367' => 'ama', 'MSTRG.18756' => 'ama', 'MSTRG.21042' => 'ama', 'Nitab4.5_0000559g0040' => 'nta', 'Nitab4.5_0000667g0190' => 'nta', 'Nitab4.5_0000755g0160' => 'nta', 'Nitab4.5_0001216g0080' => 'nta', 'Nitab4.5_0004069g0040' => 'nta', 'Nitab4.5_0004129g0010' => 'nta', 'Nitab4.5_0005744g0030' => 'nta', 'Nitab4.5_0006996g0030' => 'nta', 'Nitab4.5_0008971g0040' => 'nta', 'Nitab4.5_0009769g0020' => 'nta', 'Nitab4.5_0009833g0010' => 'nta', 'Nitab4.5_0013140g0020' => 'nta', 'Nn003s41376' => 'nnu', 'Nn1g01857' => 'nnu', 'Nn1g03611' => 'nnu', 'Nn1g06853' => 'nnu', 'Nn3g18360' => 'nnu', 'Nn4g26328' => 'nnu', 'Nn5g27531' => 'nnu', 'Nn6g34899' => 'nnu', 'Nn7g36299' => 'nnu', 'Oeu021485.1' => 'oeu', 'Oeu022433.1' => 'oeu', 'Oeu032111.1' => 'oeu', 'Oeu051608.1' => 'oeu', 'Os01g0860601' => 'osa', 'Os03g0659200' => 'osa', 'Os03g0835900' => 'osa', 'Os04g0412200' => 'osa', 'Os05g0443500' => 'osa', 'Os07g0251500' => 'osa', 'Os08g0104600' => 'osa', 'Peaxi162Scf00003g00047' => 'pax', 'Peaxi162Scf00003g00052' => 'pax', 'Peaxi162Scf00003g00394' => 'pax', 'Peaxi162Scf00091g00621' => 'pax', 'Peaxi162Scf00152g00146' => 'pax', 'Peaxi162Scf00173g00025' => 'pax', 'Peaxi162Scf00195g00102' => 'pax', 'Peaxi162Scf00402g00013' => 'pax', 'Peaxi162Scf00519g00618' => 'pax', 'PGR004G2838' => 'pgr', 'PGR044G2275' => 'pgr', 'PGR102G1377' => 'pgr', 'PGR119G1245' => 'pgr', 'PGR142G4449' => 'pgr', 'PGSC0003DMG400004532' => 'stu', 'PGSC0003DMG400011950' => 'stu', 'PGSC0003DMG400023391' => 'stu', 'PGSC0003DMG400023985' => 'stu', 'PGSC0003DMG400026360' => 'stu', 'PGSC0003DMG400035711' => 'stu', 'PGSC0003DMG400037286' => 'stu', 'PGSC0003DMG402005881' => 'stu', 'Phvul.002G045400' => 'pvu', 'Phvul.006G216600' => 'pvu', 'Phvul.006G216700' => 'pvu', 'Phvul.006G216800' => 'pvu', 'Phvul.007G022500' => 'pvu', 'Phvul.011G094400' => 'pvu', 'Potri.001G470700' => 'ptr', 'Potri.003G015200' => 'ptr', 'Potri.004G202500' => 'ptr', 'Potri.004G218400' => 'ptr', 'Potri.008G020100' => 'ptr', 'Potri.008G153200' => 'ptr', 'Potri.009G163800' => 'ptr', 'Potri.010G087300' => 'ptr', 'Potri.010G239100' => 'ptr', 'Pp3c10_16100' => 'ppa', 'Pp3c10_16880' => 'ppa', 'Pp3c16_6230' => 'ppa', 'Pp3c17_18910' => 'ppa', 'Pp3c3_22119' => 'ppa', 'Pp3c3_22140' => 'ppa', 'Pp3c4_8159' => 'ppa', 'Pp3c4_8171' => 'ppa', 'Pp3c4_8330' => 'ppa', 'PRCOL_00004098' => 'pco', 'Prupe.1G013900' => 'ppe', 'Prupe.1G226300' => 'ppe', 'Prupe.1G573600' => 'ppe', 'Prupe.6G130100' => 'ppe', 'Psat3g090040' => 'psa', 'Psat4g210440' => 'psa', 'Psat6g231040' => 'psa', 'Psat6g231080' => 'psa', 'Psat7g063000' => 'psa', 'Psat7g188000' => 'psa', 'Psat7g188040' => 'psa', 'PSO017G0206' => 'pso', 'PSO170G0501' => 'pso', 'PSO170G6422' => 'pso', 'PSO210G7739' => 'pso', 'PSO339G1808' => 'pso', 'PSO339G6135' => 'pso', 'PSO384G0010' => 'pso', 'PSO384G0964' => 'pso', 'PSO761G0050' => 'pso', 'PSO782G4085' => 'pso', 'QL01p012264' => 'qlo', 'QL02p099491' => 'qlo', 'QL03p033868' => 'qlo', 'QL04p046678' => 'qlo', 'QL06p002448' => 'qlo', 'RcHm_v2.0_Chr4g0416181' => 'rch', 'RcHm_v2.0_Chr5g0044701' => 'rch', 'RcHm_v2.0_Chr6g0265781' => 'rch', 'RcHm_v2.0_Chr7g0221031' => 'rch', 'Rhsim04G0202000' => 'rsi', 'Rhsim11G0127300' => 'rsi', 'Rhsim13G0111800' => 'rsi', 'Sabra01G0165600' => 'sbr', 'Sabra03G0008300' => 'sbr', 'Sabra04G0136900' => 'sbr', 'Sabra08G0013400' => 'sbr', 'Sabra08G0116800' => 'sbr', 'Sabra09G0128000' => 'sbr', 'Sabra10G0055500' => 'sbr', 'Sabra10G0073300' => 'sbr', 'SalBow3G0385' => 'sbo', 'SalBow3G1119' => 'sbo', 'SalBow3G2005' => 'sbo', 'SalBow6G2563' => 'sbo', 'SalBow6G6386' => 'sbo', 'Sc06g0008800' => 'sci', 'Sc07g0004950' => 'sci', 'Sc09g0005340' => 'sci', 'Sc13g0004410' => 'sci', 'Sc21g0007090' => 'sci', 'Sed0009285' => 'sed', 'Sed0017583' => 'sed', 'Sed0019699' => 'sed', 'Sed0023107' => 'sed', 'SEGI_10916' => 'sgi', 'SEGI_16217' => 'sgi', 'SEGI_19466' => 'sgi', 'SEGI_41115' => 'sgi', 'SGA_v2.0_scaffold111G31534' => 'sas', 'SGA_v2.0_scaffold22G09864' => 'sas', 'SGA_v2.0_scaffold338G49219' => 'sas', 'SGA_v2.0_scaffold92G28298' => 'sas', 'SMO119G0064' => 'smo', 'SMO223G0038' => 'smo', 'SMO347G0584' => 'smo', 'SMO351G0010' => 'smo', 'SMO356G0404' => 'smo', 'Solyc01g103920.3' => 'sly', 'Solyc04g009710.2' => 'sly', 'Solyc05g055280.2' => 'sly', 'Solyc10g044520.3' => 'sly', 'Solyc10g075160.1' => 'sly', 'Solyc11g006910.3' => 'sly', 'Solyc11g068430.3' => 'sly', 'Sopen01g046310' => 'spe', 'Sopen03g001200' => 'spe', 'Sopen04g004830' => 'spe', 'Sopen05g033720' => 'spe', 'Sopen06g030740' => 'spe', 'Sopen10g013090' => 'spe', 'Sopen10g027630' => 'spe', 'Sopen10g027640' => 'spe', 'Sopen11g002820' => 'spe', 'Sopen11g027140' => 'spe', 'Sp1g09680' => 'spa', 'Sp2g03630' => 'spa', 'Sp4g10320' => 'spa', 'Sp6g33400' => 'spa', 'Sp7g13030' => 'spa', 'TAR365G0317' => 'tar', 'TAR376G0979' => 'tar', 'TAR623G1665' => 'tar', 'TAR633G2373' => 'tar', 'TAR636G1400' => 'tar', 'THA.LOC104800529' => 'tha', 'THA.LOC104808547' => 'tha', 'THA.LOC104809615' => 'tha', 'THA.LOC104815724' => 'tha', 'THA.LOC104818480' => 'tha', 'THA.LOC104819179' => 'tha', 'THA.LOC104822270' => 'tha', 'THA.LOC104826425' => 'tha', 'Thecc.02G089700' => 'tca', 'Thecc.04G232300' => 'tca', 'Thecc.09G283400' => 'tca', 'Thhalv10009020m.g' => 'esa', 'Thhalv10015506m.g' => 'esa', 'Thhalv10017364m.g' => 'esa', 'Thhalv10023742m.g' => 'esa', 'Thhalv10026483m.g' => 'esa', 'TPR.G17232' => 'tpr', 'TPR.G2133' => 'tpr', 'TPR.G2498' => 'tpr', 'TPR.G31942' => 'tpr', 'TPR.G37877' => 'tpr', 'TPR.G4571' => 'tpr', 'TWI14G1113' => 'twi', 'TWI15G0426' => 'twi', 'TWI31G1005' => 'twi', 'TWI38G0513' => 'twi', 'TWI38G1484' => 'twi', 'TWI73G1098' => 'twi', 'unitig_26.g10519' => 'ugi', 'unitig_736.g22395' => 'ugi', 'unitig_747.g21234' => 'ugi', 'unitig_747.g21942' => 'ugi', 'vmacro14351' => 'vma', 'VMungo0540G0082' => 'vmu', 'VMungo0540G0405' => 'vmu', 'VMungo0540G1486' => 'vmu', 'VMungo0540G1692' => 'vmu', 'VMungo0720G2473' => 'vmu', 'VMungo1127G1562' => 'vmu', 'VMungo1215G1918' => 'vmu', 'Zm00001eb052650' => 'zma', 'Zm00001eb063710' => 'zma', 'Zm00001eb083950' => 'zma', 'Zm00001eb174420' => 'zma', 'Zm00001eb260140' => 'zma', 'Zm00001eb260150' => 'zma', 'Zm00001eb260160' => 'zma', 'Zm00001eb348290' => 'zma', 'Zm00001eb366870' => 'zma', 'Zm00001eb421930' => 'zma' ), 'gf_id' => 'HOM05D001025', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001025' ), 'data_identifier' => 'HOM05D001025', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001025', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '592', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p22650' => 'bna', 'A01p29720' => 'bna', 'A03p26560' => 'bna', 'A03p68820' => 'bna', 'A04p20980' => 'bna', 'A06p07730' => 'bna', 'A07p18260' => 'bna', 'A08p33710' => 'bna', 'A09p16970' => 'bna', 'A10p27490' => 'bna', 'Aa31LG1G17300' => 'aar', 'Aa31LG1G3910' => 'aar', 'Aa31LG2G9630' => 'aar', 'Aa31LG5G8360' => 'aar', 'Aa31LG9G2410' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4699' => 'aag', 'Actinidia23512' => 'ach', 'Actinidia37080' => 'ach', 'Ah.01g020380' => 'amhyb', 'Ah.08g215710' => 'amhyb', 'Ah.09g225110' => 'amhyb', 'Ah.10g036680' => 'amhyb', 'AL1G21940' => 'aly', 'AL2G15540' => 'aly', 'AL4G21520' => 'aly', 'AL7G40960' => 'aly', 'Aqoxy2G01191' => 'aox', 'Aqoxy2G03393' => 'aox', 'Aqoxy4G02775' => 'aox', 'Aqoxy6G00058' => 'aox', 'arahy.Tifrunner.gnm1.ann1.9X74H2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CW3FX9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R485W7' => 'arhy', 'AT1G10960' => 'ath', 'AT1G60950' => 'ath', 'AT2G27510' => 'ath', 'AT4G14890' => 'ath', 'AT5G10000' => 'ath', 'ATR0665G624' => 'atr', 'ATR0697G138' => 'atr', 'ATR0776G046' => 'atr', 'ATR1134G135' => 'atr', 'Atru.chr12.1025' => 'acertr', 'Atru.chr3.3241' => 'acertr', 'Atru.chr4.2460' => 'acertr', 'AUR62007427' => 'cqu', 'AUR62010960' => 'cqu', 'AUR62012201' => 'cqu', 'AUR62021470' => 'cqu', 'AUR62022834' => 'cqu', 'AUR62033635' => 'cqu', 'AUR62036186' => 'cqu', 'BcaB01g03077' => 'bca', 'BcaB02g10093' => 'bca', 'BcaB04g20295' => 'bca', 'BcaB06g28147' => 'bca', 'BcaB07g31253' => 'bca', 'BcaC01g04946' => 'bca', 'BcaC02g10614' => 'bca', 'BcaC02g10885' => 'bca', 'BcaC04g19356' => 'bca', 'BcaC04g22297' => 'bca', 'BcaC05g24977' => 'bca', 'BcaC06g31823' => 'bca', 'BcaC07g38633' => 'bca', 'BcaC09g49353' => 'bca', 'BcaC09g50168' => 'bca', 'BcaNung00322' => 'bca', 'BcaNung04769' => 'bca', 'BolC1t02753H' => 'bol', 'BolC1t03721H' => 'bol', 'BolC3t15525H' => 'bol', 'BolC4t23903H' => 'bol', 'BolC4t24231H' => 'bol', 'BolC4t27209H' => 'bol', 'BolC5t29671H' => 'bol', 'BolC8t49044H' => 'bol', 'BolC9t54999H' => 'bol', 'BolC9t59517H' => 'bol', 'BraA01t02178Z' => 'bra', 'BraA01t03099Z' => 'bra', 'BraA03t11867Z' => 'bra', 'BraA04t17667Z' => 'bra', 'BraA07t29542Z' => 'bra', 'BraA08t35287Z' => 'bra', 'BraA09t37334Z' => 'bra', 'BraA10t44801Z' => 'bra', 'BraSC39t46181Z' => 'bra', 'C01p28240' => 'bna', 'C01p37530' => 'bna', 'C03p31820' => 'bna', 'C04p24080' => 'bna', 'C04p25790' => 'bna', 'C04p56770' => 'bna', 'C05p09310' => 'bna', 'C09p21010' => 'bna', 'C09p67560' => 'bna', 'CAN.G1324.7' => 'can', 'CAN.G1358.10' => 'can', 'CAN.G1550.2' => 'can', 'CAN.G186.56' => 'can', 'CAN.G1965.1' => 'can', 'CAN.G645.15' => 'can', 'CAN.G798.26' => 'can', 'CAN.G798.27' => 'can', 'CAN.G798.29' => 'can', 'CAN.G919.31' => 'can', 'CANSAT11G0133' => 'cansat', 'CANSAT11G1171' => 'cansat', 'CANSAT11G2056' => 'cansat', 'CANSAT56G1202' => 'cansat', 'CANSAT56G1514' => 'cansat', 'CANSAT78G0455' => 'cansat', 'CARHR011190' => 'chi', 'CARHR051980' => 'chi', 'CARHR120170' => 'chi', 'CARHR203310' => 'chi', 'CARHR221490' => 'chi', 'Carub.0001s1054' => 'cru', 'Carub.0002s0431' => 'cru', 'Carub.0004s0818' => 'cru', 'Carub.0006s0846' => 'cru', 'Carub.0007s2722' => 'cru', 'Ca_00058_v3' => 'car', 'Ca_17831_v3' => 'car', 'Ca_19408_v3' => 'car', 'Ca_24397_v3' => 'car', 'Ca_25664_v3' => 'car', 'CBR_g21818' => 'cbr', 'CBR_g31195' => 'cbr', 'CBR_g32282' => 'cbr', 'CBR_g39599' => 'cbr', 'CBR_g49410' => 'cbr', 'Cc01_g09120' => 'ccan', 'Cc01_g09130' => 'ccan', 'Cc02_g09630' => 'ccan', 'Cc02_g22810' => 'ccan', 'Cc03_g03810' => 'ccan', 'CDE02G3718' => 'cde', 'CDE04G3183' => 'cde', 'CDE07G1046' => 'cde', 'CDE08G0480' => 'cde', 'Cfa005493' => 'cfa', 'Cfa010312' => 'cfa', 'Cfa015648' => 'cfa', 'Ciclev10002793m.g' => 'ccl', 'Ciclev10003356m.g' => 'ccl', 'Ciclev10006141m.g' => 'ccl', 'Ciclev10016676m.g' => 'ccl', 'Ciclev10017081m.g' => 'ccl', 'Ciclev10029499m.g' => 'ccl', 'CiPaw.01G166300' => 'cil', 'CiPaw.06G145600' => 'cil', 'CiPaw.13G040100' => 'cil', 'CiPaw.13G135800' => 'cil', 'ClCG01G012230' => 'cla', 'ClCG05G009510' => 'cla', 'ClCG08G008270' => 'cla', 'COL.COLO4_11763' => 'col', 'COL.COLO4_19876' => 'col', 'COL.COLO4_21481' => 'col', 'Cpa.g.sc118.34' => 'cpa', 'Cpa.g.sc32.13' => 'cpa', 'Cpa.g.sc58.103' => 'cpa', 'Cre03.g183850' => 'cre', 'Cre06.g306350' => 'cre', 'Cre07.g334800' => 'cre', 'Cre12.g487900' => 'cre', 'Cre14.g626700' => 'cre', 'Cre16.g658400' => 'cre', 'Cre17.g700950' => 'cre', 'CsaV3_1G014830' => 'csa', 'CsaV3_3G013320' => 'csa', 'CsaV3_3G019210' => 'csa', 'CsaV3_3G019220' => 'csa', 'CsaV3_6G004230' => 'csa', 'CSS0003773' => 'camsi', 'CSS0004563' => 'camsi', 'CSS0013949' => 'camsi', 'CSS0025971' => 'camsi', 'CSS0028570' => 'camsi', 'CSS0033127' => 'camsi', 'CSS0036051' => 'camsi', 'CSS0040087' => 'camsi', 'CSS0043179' => 'camsi', 'DCAR_006161' => 'dca', 'DCAR_010351' => 'dca', 'DCAR_012197' => 'dca', 'DCAR_024162' => 'dca', 'Dinv01030' => 'din', 'Dinv10924' => 'din', 'Dinv11835' => 'din', 'Dinv22841' => 'din', 'Dinv42553' => 'din', 'Duzib052G0560' => 'dzi', 'Duzib132G0389' => 'dzi', 'Duzib150G1181' => 'dzi', 'Duzib168G0623' => 'dzi', 'Duzib170G1036' => 'dzi', 'Duzib212G0200' => 'dzi', 'Duzib248G0194' => 'dzi', 'ECA232G2193' => 'eca', 'ECA233G0302' => 'eca', 'ECA234G2813' => 'eca', 'ECA234G4866' => 'eca', 'ECA240G3932' => 'eca', 'ECA248G0385' => 'eca', 'EL10Ac2g04781' => 'bvu', 'EL10Ac3g06445' => 'bvu', 'EL10Ac7g15825' => 'bvu', 'EL10Ac8g18550' => 'bvu', 'Eucgr.B03849' => 'egr', 'Eucgr.I02744' => 'egr', 'Eucgr.J00264' => 'egr', 'Eucgr.J00493' => 'egr', 'FAN04G2181' => 'fan', 'FAN07G2666' => 'fan', 'FAN11G0024' => 'fan', 'FAN12G1105' => 'fan', 'FAN13G0302' => 'fan', 'FAN15G2781' => 'fan', 'FAN16G1274' => 'fan', 'FAN17G2988' => 'fan', 'FAN18G2621' => 'fan', 'FAN21G0013' => 'fan', 'FAN22G1211' => 'fan', 'FAN25G3626' => 'fan', 'FvH4_2g09491' => 'fve', 'FvH4_3g24910' => 'fve', 'FvH4_4g15630' => 'fve', 'FvH4_5g28820' => 'fve', 'Glyma.01G238000' => 'gma', 'Glyma.05G168400' => 'gma', 'Glyma.08G126800' => 'gma', 'Glyma.08G188500' => 'gma', 'Glyma.10G278900' => 'gma', 'Glyma.11G005700' => 'gma', 'Glyma.11G183300' => 'gma', 'Glyma.12G089200' => 'gma', 'Glyma.12G169400' => 'gma', 'Glyma.12G169500' => 'gma', 'Glyma.12G169600' => 'gma', 'Glyma.20G110800' => 'gma', 'Gohir.A03G192900' => 'ghi', 'Gohir.A03G193000' => 'ghi', 'Gohir.A05G080700' => 'ghi', 'Gohir.A09G216000' => 'ghi', 'Gohir.A12G027700' => 'ghi', 'Gohir.A13G036200' => 'ghi', 'Gohir.A13G222600' => 'ghi', 'Gohir.D02G213900' => 'ghi', 'Gohir.D02G214000' => 'ghi', 'Gohir.D05G083700' => 'ghi', 'Gohir.D05G083800' => 'ghi', 'Gohir.D05G083850' => 'ghi', 'Gohir.D08G015400' => 'ghi', 'Gohir.D09G218400' => 'ghi', 'Gohir.D12G027100' => 'ghi', 'Gohir.D13G034500' => 'ghi', 'Gohir.D13G227400' => 'ghi', 'Gorai.005G241800' => 'gra', 'Gorai.005G241900' => 'gra', 'Gorai.006G239400' => 'gra', 'Gorai.008G027600' => 'gra', 'Gorai.009G085400' => 'gra', 'Gorai.009G085500' => 'gra', 'Gorai.013G039000' => 'gra', 'Gorai.013G194800' => 'gra', 'Gorai.013G257900' => 'gra', 'GSVIVG01000982001' => 'vvi', 'GSVIVG01017981001' => 'vvi', 'HanXRQChr01g0024061' => 'han', 'HanXRQChr09g0247831' => 'han', 'HanXRQChr10g0294611' => 'han', 'HanXRQChr10g0294621' => 'han', 'HanXRQChr11g0346821' => 'han', 'HanXRQChr13g0397461' => 'han', 'HanXRQChr16g0513651' => 'han', 'HanXRQChr16g0513701' => 'han', 'Haze_00897' => 'cav', 'Haze_01745' => 'cav', 'Haze_02486' => 'cav', 'Haze_02487' => 'cav', 'Haze_23374' => 'cav', 'Hma1.2p1_0578F.1_g182520' => 'hma', 'Hma1.2p1_0602F.1_g187350' => 'hma', 'Hma1.2p1_0602F.1_g187360' => 'hma', 'Hma1.2p1_0874F.1_g231320' => 'hma', 'Hma1.2p1_1197F.1_g266210' => 'hma', 'Hma1.2p1_1197F.1_g266220' => 'hma', 'Hma1.2p1_2167F.1_g315895' => 'hma', 'Hma1.2p1_2190F.1_g316640' => 'hma', 'Hma1.2p1_3645F.1_g337153' => 'hma', 'HPP92_004907' => 'vpl', 'HPP92_012134' => 'vpl', 'HPP92_025136' => 'vpl', 'HPP92_026087' => 'vpl', 'Hund06782' => 'sun', 'Hund06784' => 'sun', 'Lalb_Chr01g0004861' => 'lal', 'Lalb_Chr02g0140591' => 'lal', 'Lalb_Chr02g0140611' => 'lal', 'Lalb_Chr03g0028101' => 'lal', 'Lalb_Chr07g0185791' => 'lal', 'Lalb_Chr12g0204491' => 'lal', 'Lalb_Chr13g0295671' => 'lal', 'Lalb_Chr19g0136461' => 'lal', 'Lalb_Chr21g0309191' => 'lal', 'Lj1g0028158' => 'lja', 'Lj1P236T38' => 'lonja', 'Lj2C32G2' => 'lonja', 'Lj2P944T8' => 'lonja', 'Lj2P963T15' => 'lonja', 'Lj3g0011788' => 'lja', 'Lj4g0025027' => 'lja', 'Lj5P255T36' => 'lonja', 'Lj6g0018866' => 'lja', 'Lj6P608T31' => 'lonja', 'LjContig00408g0008879' => 'lja', 'Lsat_1_v5_gn_5_105820' => 'lsa', 'Lsat_1_v5_gn_6_38800' => 'lsa', 'Lsat_1_v5_gn_7_67141' => 'lsa', 'Manes.04G003400' => 'mes', 'Manes.07G020000' => 'mes', 'Manes.07G020100' => 'mes', 'Manes.07G020150' => 'mes', 'Manes.10G061500' => 'mes', 'Manes.10G123200' => 'mes', 'Manes.11G161900' => 'mes', 'Manes.15G029300' => 'mes', 'Mapoly0071s0018' => 'mpo', 'Mapoly0082s0023' => 'mpo', 'Mapoly3477s0001' => 'mpo', 'MBI05_g31233_MAGBIO' => 'mbi', 'MBI09_g05946_MAGBIO' => 'mbi', 'MBI09_g05947_MAGBIO' => 'mbi', 'MBI17_g08346_MAGBIO' => 'mbi', 'MCO04G038' => 'mco', 'MCO09G370' => 'mco', 'MCO13G605' => 'mco', 'MD00G1075500' => 'mdo', 'MD03G1144300' => 'mdo', 'MD08G1236800' => 'mdo', 'MD13G1193300' => 'mdo', 'MD15G1428700' => 'mdo', 'Medtr1g112030' => 'mtr', 'Medtr1g112050' => 'mtr', 'Medtr2g006290' => 'mtr', 'Medtr2g086510' => 'mtr', 'Medtr4g053120' => 'mtr', 'Medtr5g006320' => 'mtr', 'Medtr8g088720' => 'mtr', 'MELO3C004712.2' => 'cme', 'MELO3C006533.2' => 'cme', 'MELO3C019438.2' => 'cme', 'MELO3C019440.2' => 'cme', 'MELO3C019441.2' => 'cme', 'MELO3C019895.2' => 'cme', 'Migut.B00811' => 'egut', 'Migut.D02447' => 'egut', 'Migut.F00875' => 'egut', 'Migut.N00186' => 'egut', 'Migut.N01051' => 'egut', 'Migut.N02491' => 'egut', 'Migut.O00784' => 'egut', 'MSTRG.12367' => 'ama', 'MSTRG.18756' => 'ama', 'MSTRG.21042' => 'ama', 'Nitab4.5_0000559g0040' => 'nta', 'Nitab4.5_0000667g0190' => 'nta', 'Nitab4.5_0000755g0160' => 'nta', 'Nitab4.5_0001216g0080' => 'nta', 'Nitab4.5_0004069g0040' => 'nta', 'Nitab4.5_0004129g0010' => 'nta', 'Nitab4.5_0005744g0030' => 'nta', 'Nitab4.5_0006996g0030' => 'nta', 'Nitab4.5_0008971g0040' => 'nta', 'Nitab4.5_0009769g0020' => 'nta', 'Nitab4.5_0009833g0010' => 'nta', 'Nitab4.5_0013140g0020' => 'nta', 'Nn003s41376' => 'nnu', 'Nn1g01857' => 'nnu', 'Nn1g03611' => 'nnu', 'Nn1g06853' => 'nnu', 'Nn3g18360' => 'nnu', 'Nn4g26328' => 'nnu', 'Nn5g27531' => 'nnu', 'Nn6g34899' => 'nnu', 'Nn7g36299' => 'nnu', 'Oeu021485.1' => 'oeu', 'Oeu022433.1' => 'oeu', 'Oeu032111.1' => 'oeu', 'Oeu051608.1' => 'oeu', 'Os01g0860601' => 'osa', 'Os03g0659200' => 'osa', 'Os03g0835900' => 'osa', 'Os04g0412200' => 'osa', 'Os05g0443500' => 'osa', 'Os07g0251500' => 'osa', 'Os08g0104600' => 'osa', 'Peaxi162Scf00003g00047' => 'pax', 'Peaxi162Scf00003g00052' => 'pax', 'Peaxi162Scf00003g00394' => 'pax', 'Peaxi162Scf00091g00621' => 'pax', 'Peaxi162Scf00152g00146' => 'pax', 'Peaxi162Scf00173g00025' => 'pax', 'Peaxi162Scf00195g00102' => 'pax', 'Peaxi162Scf00402g00013' => 'pax', 'Peaxi162Scf00519g00618' => 'pax', 'PGR004G2838' => 'pgr', 'PGR044G2275' => 'pgr', 'PGR102G1377' => 'pgr', 'PGR119G1245' => 'pgr', 'PGR142G4449' => 'pgr', 'PGSC0003DMG400004532' => 'stu', 'PGSC0003DMG400011950' => 'stu', 'PGSC0003DMG400023391' => 'stu', 'PGSC0003DMG400023985' => 'stu', 'PGSC0003DMG400026360' => 'stu', 'PGSC0003DMG400035711' => 'stu', 'PGSC0003DMG400037286' => 'stu', 'PGSC0003DMG402005881' => 'stu', 'Phvul.002G045400' => 'pvu', 'Phvul.006G216600' => 'pvu', 'Phvul.006G216700' => 'pvu', 'Phvul.006G216800' => 'pvu', 'Phvul.007G022500' => 'pvu', 'Phvul.011G094400' => 'pvu', 'Potri.001G470700' => 'ptr', 'Potri.003G015200' => 'ptr', 'Potri.004G202500' => 'ptr', 'Potri.004G218400' => 'ptr', 'Potri.008G020100' => 'ptr', 'Potri.008G153200' => 'ptr', 'Potri.009G163800' => 'ptr', 'Potri.010G087300' => 'ptr', 'Potri.010G239100' => 'ptr', 'Pp3c10_16100' => 'ppa', 'Pp3c10_16880' => 'ppa', 'Pp3c16_6230' => 'ppa', 'Pp3c17_18910' => 'ppa', 'Pp3c3_22119' => 'ppa', 'Pp3c3_22140' => 'ppa', 'Pp3c4_8159' => 'ppa', 'Pp3c4_8171' => 'ppa', 'Pp3c4_8330' => 'ppa', 'PRCOL_00004098' => 'pco', 'Prupe.1G013900' => 'ppe', 'Prupe.1G226300' => 'ppe', 'Prupe.1G573600' => 'ppe', 'Prupe.6G130100' => 'ppe', 'Psat3g090040' => 'psa', 'Psat4g210440' => 'psa', 'Psat6g231040' => 'psa', 'Psat6g231080' => 'psa', 'Psat7g063000' => 'psa', 'Psat7g188000' => 'psa', 'Psat7g188040' => 'psa', 'PSO017G0206' => 'pso', 'PSO170G0501' => 'pso', 'PSO170G6422' => 'pso', 'PSO210G7739' => 'pso', 'PSO339G1808' => 'pso', 'PSO339G6135' => 'pso', 'PSO384G0010' => 'pso', 'PSO384G0964' => 'pso', 'PSO761G0050' => 'pso', 'PSO782G4085' => 'pso', 'QL01p012264' => 'qlo', 'QL02p099491' => 'qlo', 'QL03p033868' => 'qlo', 'QL04p046678' => 'qlo', 'QL06p002448' => 'qlo', 'RcHm_v2.0_Chr4g0416181' => 'rch', 'RcHm_v2.0_Chr5g0044701' => 'rch', 'RcHm_v2.0_Chr6g0265781' => 'rch', 'RcHm_v2.0_Chr7g0221031' => 'rch', 'Rhsim04G0202000' => 'rsi', 'Rhsim11G0127300' => 'rsi', 'Rhsim13G0111800' => 'rsi', 'Sabra01G0165600' => 'sbr', 'Sabra03G0008300' => 'sbr', 'Sabra04G0136900' => 'sbr', 'Sabra08G0013400' => 'sbr', 'Sabra08G0116800' => 'sbr', 'Sabra09G0128000' => 'sbr', 'Sabra10G0055500' => 'sbr', 'Sabra10G0073300' => 'sbr', 'SalBow3G0385' => 'sbo', 'SalBow3G1119' => 'sbo', 'SalBow3G2005' => 'sbo', 'SalBow6G2563' => 'sbo', 'SalBow6G6386' => 'sbo', 'Sc06g0008800' => 'sci', 'Sc07g0004950' => 'sci', 'Sc09g0005340' => 'sci', 'Sc13g0004410' => 'sci', 'Sc21g0007090' => 'sci', 'Sed0009285' => 'sed', 'Sed0017583' => 'sed', 'Sed0019699' => 'sed', 'Sed0023107' => 'sed', 'SEGI_10916' => 'sgi', 'SEGI_16217' => 'sgi', 'SEGI_19466' => 'sgi', 'SEGI_41115' => 'sgi', 'SGA_v2.0_scaffold111G31534' => 'sas', 'SGA_v2.0_scaffold22G09864' => 'sas', 'SGA_v2.0_scaffold338G49219' => 'sas', 'SGA_v2.0_scaffold92G28298' => 'sas', 'SMO119G0064' => 'smo', 'SMO223G0038' => 'smo', 'SMO347G0584' => 'smo', 'SMO351G0010' => 'smo', 'SMO356G0404' => 'smo', 'Solyc01g103920.3' => 'sly', 'Solyc04g009710.2' => 'sly', 'Solyc05g055280.2' => 'sly', 'Solyc10g044520.3' => 'sly', 'Solyc10g075160.1' => 'sly', 'Solyc11g006910.3' => 'sly', 'Solyc11g068430.3' => 'sly', 'Sopen01g046310' => 'spe', 'Sopen03g001200' => 'spe', 'Sopen04g004830' => 'spe', 'Sopen05g033720' => 'spe', 'Sopen06g030740' => 'spe', 'Sopen10g013090' => 'spe', 'Sopen10g027630' => 'spe', 'Sopen10g027640' => 'spe', 'Sopen11g002820' => 'spe', 'Sopen11g027140' => 'spe', 'Sp1g09680' => 'spa', 'Sp2g03630' => 'spa', 'Sp4g10320' => 'spa', 'Sp6g33400' => 'spa', 'Sp7g13030' => 'spa', 'TAR365G0317' => 'tar', 'TAR376G0979' => 'tar', 'TAR623G1665' => 'tar', 'TAR633G2373' => 'tar', 'TAR636G1400' => 'tar', 'THA.LOC104800529' => 'tha', 'THA.LOC104808547' => 'tha', 'THA.LOC104809615' => 'tha', 'THA.LOC104815724' => 'tha', 'THA.LOC104818480' => 'tha', 'THA.LOC104819179' => 'tha', 'THA.LOC104822270' => 'tha', 'THA.LOC104826425' => 'tha', 'Thecc.02G089700' => 'tca', 'Thecc.04G232300' => 'tca', 'Thecc.09G283400' => 'tca', 'Thhalv10009020m.g' => 'esa', 'Thhalv10015506m.g' => 'esa', 'Thhalv10017364m.g' => 'esa', 'Thhalv10023742m.g' => 'esa', 'Thhalv10026483m.g' => 'esa', 'TPR.G17232' => 'tpr', 'TPR.G2133' => 'tpr', 'TPR.G2498' => 'tpr', 'TPR.G31942' => 'tpr', 'TPR.G37877' => 'tpr', 'TPR.G4571' => 'tpr', 'TWI14G1113' => 'twi', 'TWI15G0426' => 'twi', 'TWI31G1005' => 'twi', 'TWI38G0513' => 'twi', 'TWI38G1484' => 'twi', 'TWI73G1098' => 'twi', 'unitig_26.g10519' => 'ugi', 'unitig_736.g22395' => 'ugi', 'unitig_747.g21234' => 'ugi', 'unitig_747.g21942' => 'ugi', 'vmacro14351' => 'vma', 'VMungo0540G0082' => 'vmu', 'VMungo0540G0405' => 'vmu', 'VMungo0540G1486' => 'vmu', 'VMungo0540G1692' => 'vmu', 'VMungo0720G2473' => 'vmu', 'VMungo1127G1562' => 'vmu', 'VMungo1215G1918' => 'vmu', 'Zm00001eb052650' => 'zma', 'Zm00001eb063710' => 'zma', 'Zm00001eb083950' => 'zma', 'Zm00001eb174420' => 'zma', 'Zm00001eb260140' => 'zma', 'Zm00001eb260150' => 'zma', 'Zm00001eb260160' => 'zma', 'Zm00001eb348290' => 'zma', 'Zm00001eb366870' => 'zma', 'Zm00001eb421930' => 'zma' ) $gf_id = 'HOM05D001025' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001025' ) $data_identifier = 'HOM05D001025' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 19, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 2, 'amhyb' => (int) 4, 'aly' => (int) 4, 'aox' => (int) 4, 'arhy' => (int) 3, 'ath' => (int) 5, 'atr' => (int) 4, 'acertr' => (int) 3, 'cqu' => (int) 7, 'bca' => (int) 17, 'bol' => (int) 10, 'bra' => (int) 9, 'can' => (int) 10, 'cansat' => (int) 6, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 5, 'cbr' => (int) 5, 'ccan' => (int) 5, 'cde' => (int) 4, 'cfa' => (int) 3, 'ccl' => (int) 6, 'cil' => (int) 4, 'cla' => (int) 3, 'col' => (int) 3, 'cpa' => (int) 3, 'cre' => (int) 7, 'csa' => (int) 5, 'camsi' => (int) 9, 'dca' => (int) 4, 'din' => (int) 5, 'dzi' => (int) 7, 'eca' => (int) 6, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 12, 'fve' => (int) 4, 'gma' => (int) 12, 'ghi' => (int) 17, 'gra' => (int) 9, 'vvi' => (int) 2, 'han' => (int) 8, 'cav' => (int) 5, 'hma' => (int) 9, 'vpl' => (int) 4, 'sun' => (int) 2, 'lal' => (int) 9, 'lja' => (int) 5, 'lonja' => (int) 6, 'lsa' => (int) 3, 'mes' => (int) 8, 'mpo' => (int) 3, 'mbi' => (int) 4, 'mco' => (int) 3, 'mdo' => (int) 5, 'mtr' => (int) 7, 'cme' => (int) 6, 'egut' => (int) 7, 'ama' => (int) 3, 'nta' => (int) 12, 'nnu' => (int) 9, 'oeu' => (int) 4, 'osa' => (int) 7, 'pax' => (int) 9, 'pgr' => (int) 5, 'stu' => (int) 8, 'pvu' => (int) 6, 'ptr' => (int) 9, 'ppa' => (int) 9, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 7, 'pso' => (int) 10, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 3, 'sbr' => (int) 8, 'sbo' => (int) 5, 'sci' => (int) 5, 'sed' => (int) 4, 'sgi' => (int) 4, 'sas' => (int) 4, 'smo' => (int) 5, 'sly' => (int) 7, 'spe' => (int) 10, 'spa' => (int) 5, 'tar' => (int) 5, 'tha' => (int) 8, 'tca' => (int) 3, 'esa' => (int) 5, 'tpr' => (int) 6, 'twi' => (int) 6, 'ugi' => (int) 4, 'vma' => (int) 1, 'vmu' => (int) 7, 'zma' => (int) 10 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb421930' $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' => 'HOM05D001025', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '592', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p22650' => 'bna', 'A01p29720' => 'bna', 'A03p26560' => 'bna', 'A03p68820' => 'bna', 'A04p20980' => 'bna', 'A06p07730' => 'bna', 'A07p18260' => 'bna', 'A08p33710' => 'bna', 'A09p16970' => 'bna', 'A10p27490' => 'bna', 'Aa31LG1G17300' => 'aar', 'Aa31LG1G3910' => 'aar', 'Aa31LG2G9630' => 'aar', 'Aa31LG5G8360' => 'aar', 'Aa31LG9G2410' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4699' => 'aag', 'Actinidia23512' => 'ach', 'Actinidia37080' => 'ach', 'Ah.01g020380' => 'amhyb', 'Ah.08g215710' => 'amhyb', 'Ah.09g225110' => 'amhyb', 'Ah.10g036680' => 'amhyb', 'AL1G21940' => 'aly', 'AL2G15540' => 'aly', 'AL4G21520' => 'aly', 'AL7G40960' => 'aly', 'Aqoxy2G01191' => 'aox', 'Aqoxy2G03393' => 'aox', 'Aqoxy4G02775' => 'aox', 'Aqoxy6G00058' => 'aox', 'arahy.Tifrunner.gnm1.ann1.9X74H2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CW3FX9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R485W7' => 'arhy', 'AT1G10960' => 'ath', 'AT1G60950' => 'ath', 'AT2G27510' => 'ath', 'AT4G14890' => 'ath', 'AT5G10000' => 'ath', 'ATR0665G624' => 'atr', 'ATR0697G138' => 'atr', 'ATR0776G046' => 'atr', 'ATR1134G135' => 'atr', 'Atru.chr12.1025' => 'acertr', 'Atru.chr3.3241' => 'acertr', 'Atru.chr4.2460' => 'acertr', 'AUR62007427' => 'cqu', 'AUR62010960' => 'cqu', 'AUR62012201' => 'cqu', 'AUR62021470' => 'cqu', 'AUR62022834' => 'cqu', 'AUR62033635' => 'cqu', 'AUR62036186' => 'cqu', 'BcaB01g03077' => 'bca', 'BcaB02g10093' => 'bca', 'BcaB04g20295' => 'bca', 'BcaB06g28147' => 'bca', 'BcaB07g31253' => 'bca', 'BcaC01g04946' => 'bca', 'BcaC02g10614' => 'bca', 'BcaC02g10885' => 'bca', 'BcaC04g19356' => 'bca', 'BcaC04g22297' => 'bca', 'BcaC05g24977' => 'bca', 'BcaC06g31823' => 'bca', 'BcaC07g38633' => 'bca', 'BcaC09g49353' => 'bca', 'BcaC09g50168' => 'bca', 'BcaNung00322' => 'bca', 'BcaNung04769' => 'bca', 'BolC1t02753H' => 'bol', 'BolC1t03721H' => 'bol', 'BolC3t15525H' => 'bol', 'BolC4t23903H' => 'bol', 'BolC4t24231H' => 'bol', 'BolC4t27209H' => 'bol', 'BolC5t29671H' => 'bol', 'BolC8t49044H' => 'bol', 'BolC9t54999H' => 'bol', 'BolC9t59517H' => 'bol', 'BraA01t02178Z' => 'bra', 'BraA01t03099Z' => 'bra', 'BraA03t11867Z' => 'bra', 'BraA04t17667Z' => 'bra', 'BraA07t29542Z' => 'bra', 'BraA08t35287Z' => 'bra', 'BraA09t37334Z' => 'bra', 'BraA10t44801Z' => 'bra', 'BraSC39t46181Z' => 'bra', 'C01p28240' => 'bna', 'C01p37530' => 'bna', 'C03p31820' => 'bna', 'C04p24080' => 'bna', 'C04p25790' => 'bna', 'C04p56770' => 'bna', 'C05p09310' => 'bna', 'C09p21010' => 'bna', 'C09p67560' => 'bna', 'CAN.G1324.7' => 'can', 'CAN.G1358.10' => 'can', 'CAN.G1550.2' => 'can', 'CAN.G186.56' => 'can', 'CAN.G1965.1' => 'can', 'CAN.G645.15' => 'can', 'CAN.G798.26' => 'can', 'CAN.G798.27' => 'can', 'CAN.G798.29' => 'can', 'CAN.G919.31' => 'can', 'CANSAT11G0133' => 'cansat', 'CANSAT11G1171' => 'cansat', 'CANSAT11G2056' => 'cansat', 'CANSAT56G1202' => 'cansat', 'CANSAT56G1514' => 'cansat', 'CANSAT78G0455' => 'cansat', 'CARHR011190' => 'chi', 'CARHR051980' => 'chi', 'CARHR120170' => 'chi', 'CARHR203310' => 'chi', 'CARHR221490' => 'chi', 'Carub.0001s1054' => 'cru', 'Carub.0002s0431' => 'cru', 'Carub.0004s0818' => 'cru', 'Carub.0006s0846' => 'cru', 'Carub.0007s2722' => 'cru', 'Ca_00058_v3' => 'car', 'Ca_17831_v3' => 'car', 'Ca_19408_v3' => 'car', 'Ca_24397_v3' => 'car', 'Ca_25664_v3' => 'car', 'CBR_g21818' => 'cbr', 'CBR_g31195' => 'cbr', 'CBR_g32282' => 'cbr', 'CBR_g39599' => 'cbr', 'CBR_g49410' => 'cbr', 'Cc01_g09120' => 'ccan', 'Cc01_g09130' => 'ccan', 'Cc02_g09630' => 'ccan', 'Cc02_g22810' => 'ccan', 'Cc03_g03810' => 'ccan', 'CDE02G3718' => 'cde', 'CDE04G3183' => 'cde', 'CDE07G1046' => 'cde', 'CDE08G0480' => 'cde', 'Cfa005493' => 'cfa', 'Cfa010312' => 'cfa', 'Cfa015648' => 'cfa', 'Ciclev10002793m.g' => 'ccl', 'Ciclev10003356m.g' => 'ccl', 'Ciclev10006141m.g' => 'ccl', 'Ciclev10016676m.g' => 'ccl', 'Ciclev10017081m.g' => 'ccl', 'Ciclev10029499m.g' => 'ccl', 'CiPaw.01G166300' => 'cil', 'CiPaw.06G145600' => 'cil', 'CiPaw.13G040100' => 'cil', 'CiPaw.13G135800' => 'cil', 'ClCG01G012230' => 'cla', 'ClCG05G009510' => 'cla', 'ClCG08G008270' => 'cla', 'COL.COLO4_11763' => 'col', 'COL.COLO4_19876' => 'col', 'COL.COLO4_21481' => 'col', 'Cpa.g.sc118.34' => 'cpa', 'Cpa.g.sc32.13' => 'cpa', 'Cpa.g.sc58.103' => 'cpa', 'Cre03.g183850' => 'cre', 'Cre06.g306350' => 'cre', 'Cre07.g334800' => 'cre', 'Cre12.g487900' => 'cre', 'Cre14.g626700' => 'cre', 'Cre16.g658400' => 'cre', 'Cre17.g700950' => 'cre', 'CsaV3_1G014830' => 'csa', 'CsaV3_3G013320' => 'csa', 'CsaV3_3G019210' => 'csa', 'CsaV3_3G019220' => 'csa', 'CsaV3_6G004230' => 'csa', 'CSS0003773' => 'camsi', 'CSS0004563' => 'camsi', 'CSS0013949' => 'camsi', 'CSS0025971' => 'camsi', 'CSS0028570' => 'camsi', 'CSS0033127' => 'camsi', 'CSS0036051' => 'camsi', 'CSS0040087' => 'camsi', 'CSS0043179' => 'camsi', 'DCAR_006161' => 'dca', 'DCAR_010351' => 'dca', 'DCAR_012197' => 'dca', 'DCAR_024162' => 'dca', 'Dinv01030' => 'din', 'Dinv10924' => 'din', 'Dinv11835' => 'din', 'Dinv22841' => 'din', 'Dinv42553' => 'din', 'Duzib052G0560' => 'dzi', 'Duzib132G0389' => 'dzi', 'Duzib150G1181' => 'dzi', 'Duzib168G0623' => 'dzi', 'Duzib170G1036' => 'dzi', 'Duzib212G0200' => 'dzi', 'Duzib248G0194' => 'dzi', 'ECA232G2193' => 'eca', 'ECA233G0302' => 'eca', 'ECA234G2813' => 'eca', 'ECA234G4866' => 'eca', 'ECA240G3932' => 'eca', 'ECA248G0385' => 'eca', 'EL10Ac2g04781' => 'bvu', 'EL10Ac3g06445' => 'bvu', 'EL10Ac7g15825' => 'bvu', 'EL10Ac8g18550' => 'bvu', 'Eucgr.B03849' => 'egr', 'Eucgr.I02744' => 'egr', 'Eucgr.J00264' => 'egr', 'Eucgr.J00493' => 'egr', 'FAN04G2181' => 'fan', 'FAN07G2666' => 'fan', 'FAN11G0024' => 'fan', 'FAN12G1105' => 'fan', 'FAN13G0302' => 'fan', 'FAN15G2781' => 'fan', 'FAN16G1274' => 'fan', 'FAN17G2988' => 'fan', 'FAN18G2621' => 'fan', 'FAN21G0013' => 'fan', 'FAN22G1211' => 'fan', 'FAN25G3626' => 'fan', 'FvH4_2g09491' => 'fve', 'FvH4_3g24910' => 'fve', 'FvH4_4g15630' => 'fve', 'FvH4_5g28820' => 'fve', 'Glyma.01G238000' => 'gma', 'Glyma.05G168400' => 'gma', 'Glyma.08G126800' => 'gma', 'Glyma.08G188500' => 'gma', 'Glyma.10G278900' => 'gma', 'Glyma.11G005700' => 'gma', 'Glyma.11G183300' => 'gma', 'Glyma.12G089200' => 'gma', 'Glyma.12G169400' => 'gma', 'Glyma.12G169500' => 'gma', 'Glyma.12G169600' => 'gma', 'Glyma.20G110800' => 'gma', 'Gohir.A03G192900' => 'ghi', 'Gohir.A03G193000' => 'ghi', 'Gohir.A05G080700' => 'ghi', 'Gohir.A09G216000' => 'ghi', 'Gohir.A12G027700' => 'ghi', 'Gohir.A13G036200' => 'ghi', 'Gohir.A13G222600' => 'ghi', 'Gohir.D02G213900' => 'ghi', 'Gohir.D02G214000' => 'ghi', 'Gohir.D05G083700' => 'ghi', 'Gohir.D05G083800' => 'ghi', 'Gohir.D05G083850' => 'ghi', 'Gohir.D08G015400' => 'ghi', 'Gohir.D09G218400' => 'ghi', 'Gohir.D12G027100' => 'ghi', 'Gohir.D13G034500' => 'ghi', 'Gohir.D13G227400' => 'ghi', 'Gorai.005G241800' => 'gra', 'Gorai.005G241900' => 'gra', 'Gorai.006G239400' => 'gra', 'Gorai.008G027600' => 'gra', 'Gorai.009G085400' => 'gra', 'Gorai.009G085500' => 'gra', 'Gorai.013G039000' => 'gra', 'Gorai.013G194800' => 'gra', 'Gorai.013G257900' => 'gra', 'GSVIVG01000982001' => 'vvi', 'GSVIVG01017981001' => 'vvi', 'HanXRQChr01g0024061' => 'han', 'HanXRQChr09g0247831' => 'han', 'HanXRQChr10g0294611' => 'han', 'HanXRQChr10g0294621' => 'han', 'HanXRQChr11g0346821' => 'han', 'HanXRQChr13g0397461' => 'han', 'HanXRQChr16g0513651' => 'han', 'HanXRQChr16g0513701' => 'han', 'Haze_00897' => 'cav', 'Haze_01745' => 'cav', 'Haze_02486' => 'cav', 'Haze_02487' => 'cav', 'Haze_23374' => 'cav', 'Hma1.2p1_0578F.1_g182520' => 'hma', 'Hma1.2p1_0602F.1_g187350' => 'hma', 'Hma1.2p1_0602F.1_g187360' => 'hma', 'Hma1.2p1_0874F.1_g231320' => 'hma', 'Hma1.2p1_1197F.1_g266210' => 'hma', 'Hma1.2p1_1197F.1_g266220' => 'hma', 'Hma1.2p1_2167F.1_g315895' => 'hma', 'Hma1.2p1_2190F.1_g316640' => 'hma', 'Hma1.2p1_3645F.1_g337153' => 'hma', 'HPP92_004907' => 'vpl', 'HPP92_012134' => 'vpl', 'HPP92_025136' => 'vpl', 'HPP92_026087' => 'vpl', 'Hund06782' => 'sun', 'Hund06784' => 'sun', 'Lalb_Chr01g0004861' => 'lal', 'Lalb_Chr02g0140591' => 'lal', 'Lalb_Chr02g0140611' => 'lal', 'Lalb_Chr03g0028101' => 'lal', 'Lalb_Chr07g0185791' => 'lal', 'Lalb_Chr12g0204491' => 'lal', 'Lalb_Chr13g0295671' => 'lal', 'Lalb_Chr19g0136461' => 'lal', 'Lalb_Chr21g0309191' => 'lal', 'Lj1g0028158' => 'lja', 'Lj1P236T38' => 'lonja', 'Lj2C32G2' => 'lonja', 'Lj2P944T8' => 'lonja', 'Lj2P963T15' => 'lonja', 'Lj3g0011788' => 'lja', 'Lj4g0025027' => 'lja', 'Lj5P255T36' => 'lonja', 'Lj6g0018866' => 'lja', 'Lj6P608T31' => 'lonja', 'LjContig00408g0008879' => 'lja', 'Lsat_1_v5_gn_5_105820' => 'lsa', 'Lsat_1_v5_gn_6_38800' => 'lsa', 'Lsat_1_v5_gn_7_67141' => 'lsa', 'Manes.04G003400' => 'mes', 'Manes.07G020000' => 'mes', 'Manes.07G020100' => 'mes', 'Manes.07G020150' => 'mes', 'Manes.10G061500' => 'mes', 'Manes.10G123200' => 'mes', 'Manes.11G161900' => 'mes', 'Manes.15G029300' => 'mes', 'Mapoly0071s0018' => 'mpo', 'Mapoly0082s0023' => 'mpo', 'Mapoly3477s0001' => 'mpo', 'MBI05_g31233_MAGBIO' => 'mbi', 'MBI09_g05946_MAGBIO' => 'mbi', 'MBI09_g05947_MAGBIO' => 'mbi', 'MBI17_g08346_MAGBIO' => 'mbi', 'MCO04G038' => 'mco', 'MCO09G370' => 'mco', 'MCO13G605' => 'mco', 'MD00G1075500' => 'mdo', 'MD03G1144300' => 'mdo', 'MD08G1236800' => 'mdo', 'MD13G1193300' => 'mdo', 'MD15G1428700' => 'mdo', 'Medtr1g112030' => 'mtr', 'Medtr1g112050' => 'mtr', 'Medtr2g006290' => 'mtr', 'Medtr2g086510' => 'mtr', 'Medtr4g053120' => 'mtr', 'Medtr5g006320' => 'mtr', 'Medtr8g088720' => 'mtr', 'MELO3C004712.2' => 'cme', 'MELO3C006533.2' => 'cme', 'MELO3C019438.2' => 'cme', 'MELO3C019440.2' => 'cme', 'MELO3C019441.2' => 'cme', 'MELO3C019895.2' => 'cme', 'Migut.B00811' => 'egut', 'Migut.D02447' => 'egut', 'Migut.F00875' => 'egut', 'Migut.N00186' => 'egut', 'Migut.N01051' => 'egut', 'Migut.N02491' => 'egut', 'Migut.O00784' => 'egut', 'MSTRG.12367' => 'ama', 'MSTRG.18756' => 'ama', 'MSTRG.21042' => 'ama', 'Nitab4.5_0000559g0040' => 'nta', 'Nitab4.5_0000667g0190' => 'nta', 'Nitab4.5_0000755g0160' => 'nta', 'Nitab4.5_0001216g0080' => 'nta', 'Nitab4.5_0004069g0040' => 'nta', 'Nitab4.5_0004129g0010' => 'nta', 'Nitab4.5_0005744g0030' => 'nta', 'Nitab4.5_0006996g0030' => 'nta', 'Nitab4.5_0008971g0040' => 'nta', 'Nitab4.5_0009769g0020' => 'nta', 'Nitab4.5_0009833g0010' => 'nta', 'Nitab4.5_0013140g0020' => 'nta', 'Nn003s41376' => 'nnu', 'Nn1g01857' => 'nnu', 'Nn1g03611' => 'nnu', 'Nn1g06853' => 'nnu', 'Nn3g18360' => 'nnu', 'Nn4g26328' => 'nnu', 'Nn5g27531' => 'nnu', 'Nn6g34899' => 'nnu', 'Nn7g36299' => 'nnu', 'Oeu021485.1' => 'oeu', 'Oeu022433.1' => 'oeu', 'Oeu032111.1' => 'oeu', 'Oeu051608.1' => 'oeu', 'Os01g0860601' => 'osa', 'Os03g0659200' => 'osa', 'Os03g0835900' => 'osa', 'Os04g0412200' => 'osa', 'Os05g0443500' => 'osa', 'Os07g0251500' => 'osa', 'Os08g0104600' => 'osa', 'Peaxi162Scf00003g00047' => 'pax', 'Peaxi162Scf00003g00052' => 'pax', 'Peaxi162Scf00003g00394' => 'pax', 'Peaxi162Scf00091g00621' => 'pax', 'Peaxi162Scf00152g00146' => 'pax', 'Peaxi162Scf00173g00025' => 'pax', 'Peaxi162Scf00195g00102' => 'pax', 'Peaxi162Scf00402g00013' => 'pax', 'Peaxi162Scf00519g00618' => 'pax', 'PGR004G2838' => 'pgr', 'PGR044G2275' => 'pgr', 'PGR102G1377' => 'pgr', 'PGR119G1245' => 'pgr', 'PGR142G4449' => 'pgr', 'PGSC0003DMG400004532' => 'stu', 'PGSC0003DMG400011950' => 'stu', 'PGSC0003DMG400023391' => 'stu', 'PGSC0003DMG400023985' => 'stu', 'PGSC0003DMG400026360' => 'stu', 'PGSC0003DMG400035711' => 'stu', 'PGSC0003DMG400037286' => 'stu', 'PGSC0003DMG402005881' => 'stu', 'Phvul.002G045400' => 'pvu', 'Phvul.006G216600' => 'pvu', 'Phvul.006G216700' => 'pvu', 'Phvul.006G216800' => 'pvu', 'Phvul.007G022500' => 'pvu', 'Phvul.011G094400' => 'pvu', 'Potri.001G470700' => 'ptr', 'Potri.003G015200' => 'ptr', 'Potri.004G202500' => 'ptr', 'Potri.004G218400' => 'ptr', 'Potri.008G020100' => 'ptr', 'Potri.008G153200' => 'ptr', 'Potri.009G163800' => 'ptr', 'Potri.010G087300' => 'ptr', 'Potri.010G239100' => 'ptr', 'Pp3c10_16100' => 'ppa', 'Pp3c10_16880' => 'ppa', 'Pp3c16_6230' => 'ppa', 'Pp3c17_18910' => 'ppa', 'Pp3c3_22119' => 'ppa', 'Pp3c3_22140' => 'ppa', 'Pp3c4_8159' => 'ppa', 'Pp3c4_8171' => 'ppa', 'Pp3c4_8330' => 'ppa', 'PRCOL_00004098' => 'pco', 'Prupe.1G013900' => 'ppe', 'Prupe.1G226300' => 'ppe', 'Prupe.1G573600' => 'ppe', 'Prupe.6G130100' => 'ppe', 'Psat3g090040' => 'psa', 'Psat4g210440' => 'psa', 'Psat6g231040' => 'psa', 'Psat6g231080' => 'psa', 'Psat7g063000' => 'psa', 'Psat7g188000' => 'psa', 'Psat7g188040' => 'psa', 'PSO017G0206' => 'pso', 'PSO170G0501' => 'pso', 'PSO170G6422' => 'pso', 'PSO210G7739' => 'pso', 'PSO339G1808' => 'pso', 'PSO339G6135' => 'pso', 'PSO384G0010' => 'pso', 'PSO384G0964' => 'pso', 'PSO761G0050' => 'pso', 'PSO782G4085' => 'pso', 'QL01p012264' => 'qlo', 'QL02p099491' => 'qlo', 'QL03p033868' => 'qlo', 'QL04p046678' => 'qlo', 'QL06p002448' => 'qlo', 'RcHm_v2.0_Chr4g0416181' => 'rch', 'RcHm_v2.0_Chr5g0044701' => 'rch', 'RcHm_v2.0_Chr6g0265781' => 'rch', 'RcHm_v2.0_Chr7g0221031' => 'rch', 'Rhsim04G0202000' => 'rsi', 'Rhsim11G0127300' => 'rsi', 'Rhsim13G0111800' => 'rsi', 'Sabra01G0165600' => 'sbr', 'Sabra03G0008300' => 'sbr', 'Sabra04G0136900' => 'sbr', 'Sabra08G0013400' => 'sbr', 'Sabra08G0116800' => 'sbr', 'Sabra09G0128000' => 'sbr', 'Sabra10G0055500' => 'sbr', 'Sabra10G0073300' => 'sbr', 'SalBow3G0385' => 'sbo', 'SalBow3G1119' => 'sbo', 'SalBow3G2005' => 'sbo', 'SalBow6G2563' => 'sbo', 'SalBow6G6386' => 'sbo', 'Sc06g0008800' => 'sci', 'Sc07g0004950' => 'sci', 'Sc09g0005340' => 'sci', 'Sc13g0004410' => 'sci', 'Sc21g0007090' => 'sci', 'Sed0009285' => 'sed', 'Sed0017583' => 'sed', 'Sed0019699' => 'sed', 'Sed0023107' => 'sed', 'SEGI_10916' => 'sgi', 'SEGI_16217' => 'sgi', 'SEGI_19466' => 'sgi', 'SEGI_41115' => 'sgi', 'SGA_v2.0_scaffold111G31534' => 'sas', 'SGA_v2.0_scaffold22G09864' => 'sas', 'SGA_v2.0_scaffold338G49219' => 'sas', 'SGA_v2.0_scaffold92G28298' => 'sas', 'SMO119G0064' => 'smo', 'SMO223G0038' => 'smo', 'SMO347G0584' => 'smo', 'SMO351G0010' => 'smo', 'SMO356G0404' => 'smo', 'Solyc01g103920.3' => 'sly', 'Solyc04g009710.2' => 'sly', 'Solyc05g055280.2' => 'sly', 'Solyc10g044520.3' => 'sly', 'Solyc10g075160.1' => 'sly', 'Solyc11g006910.3' => 'sly', 'Solyc11g068430.3' => 'sly', 'Sopen01g046310' => 'spe', 'Sopen03g001200' => 'spe', 'Sopen04g004830' => 'spe', 'Sopen05g033720' => 'spe', 'Sopen06g030740' => 'spe', 'Sopen10g013090' => 'spe', 'Sopen10g027630' => 'spe', 'Sopen10g027640' => 'spe', 'Sopen11g002820' => 'spe', 'Sopen11g027140' => 'spe', 'Sp1g09680' => 'spa', 'Sp2g03630' => 'spa', 'Sp4g10320' => 'spa', 'Sp6g33400' => 'spa', 'Sp7g13030' => 'spa', 'TAR365G0317' => 'tar', 'TAR376G0979' => 'tar', 'TAR623G1665' => 'tar', 'TAR633G2373' => 'tar', 'TAR636G1400' => 'tar', 'THA.LOC104800529' => 'tha', 'THA.LOC104808547' => 'tha', 'THA.LOC104809615' => 'tha', 'THA.LOC104815724' => 'tha', 'THA.LOC104818480' => 'tha', 'THA.LOC104819179' => 'tha', 'THA.LOC104822270' => 'tha', 'THA.LOC104826425' => 'tha', 'Thecc.02G089700' => 'tca', 'Thecc.04G232300' => 'tca', 'Thecc.09G283400' => 'tca', 'Thhalv10009020m.g' => 'esa', 'Thhalv10015506m.g' => 'esa', 'Thhalv10017364m.g' => 'esa', 'Thhalv10023742m.g' => 'esa', 'Thhalv10026483m.g' => 'esa', 'TPR.G17232' => 'tpr', 'TPR.G2133' => 'tpr', 'TPR.G2498' => 'tpr', 'TPR.G31942' => 'tpr', 'TPR.G37877' => 'tpr', 'TPR.G4571' => 'tpr', 'TWI14G1113' => 'twi', 'TWI15G0426' => 'twi', 'TWI31G1005' => 'twi', 'TWI38G0513' => 'twi', 'TWI38G1484' => 'twi', 'TWI73G1098' => 'twi', 'unitig_26.g10519' => 'ugi', 'unitig_736.g22395' => 'ugi', 'unitig_747.g21234' => 'ugi', 'unitig_747.g21942' => 'ugi', 'vmacro14351' => 'vma', 'VMungo0540G0082' => 'vmu', 'VMungo0540G0405' => 'vmu', 'VMungo0540G1486' => 'vmu', 'VMungo0540G1692' => 'vmu', 'VMungo0720G2473' => 'vmu', 'VMungo1127G1562' => 'vmu', 'VMungo1215G1918' => 'vmu', 'Zm00001eb052650' => 'zma', 'Zm00001eb063710' => 'zma', 'Zm00001eb083950' => 'zma', 'Zm00001eb174420' => 'zma', 'Zm00001eb260140' => 'zma', 'Zm00001eb260150' => 'zma', 'Zm00001eb260160' => 'zma', 'Zm00001eb348290' => 'zma', 'Zm00001eb366870' => 'zma', 'Zm00001eb421930' => 'zma' ), 'gf_id' => 'HOM05D001025', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001025' ), 'data_identifier' => 'HOM05D001025', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001025', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '592', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p22650' => 'bna', 'A01p29720' => 'bna', 'A03p26560' => 'bna', 'A03p68820' => 'bna', 'A04p20980' => 'bna', 'A06p07730' => 'bna', 'A07p18260' => 'bna', 'A08p33710' => 'bna', 'A09p16970' => 'bna', 'A10p27490' => 'bna', 'Aa31LG1G17300' => 'aar', 'Aa31LG1G3910' => 'aar', 'Aa31LG2G9630' => 'aar', 'Aa31LG5G8360' => 'aar', 'Aa31LG9G2410' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4699' => 'aag', 'Actinidia23512' => 'ach', 'Actinidia37080' => 'ach', 'Ah.01g020380' => 'amhyb', 'Ah.08g215710' => 'amhyb', 'Ah.09g225110' => 'amhyb', 'Ah.10g036680' => 'amhyb', 'AL1G21940' => 'aly', 'AL2G15540' => 'aly', 'AL4G21520' => 'aly', 'AL7G40960' => 'aly', 'Aqoxy2G01191' => 'aox', 'Aqoxy2G03393' => 'aox', 'Aqoxy4G02775' => 'aox', 'Aqoxy6G00058' => 'aox', 'arahy.Tifrunner.gnm1.ann1.9X74H2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CW3FX9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R485W7' => 'arhy', 'AT1G10960' => 'ath', 'AT1G60950' => 'ath', 'AT2G27510' => 'ath', 'AT4G14890' => 'ath', 'AT5G10000' => 'ath', 'ATR0665G624' => 'atr', 'ATR0697G138' => 'atr', 'ATR0776G046' => 'atr', 'ATR1134G135' => 'atr', 'Atru.chr12.1025' => 'acertr', 'Atru.chr3.3241' => 'acertr', 'Atru.chr4.2460' => 'acertr', 'AUR62007427' => 'cqu', 'AUR62010960' => 'cqu', 'AUR62012201' => 'cqu', 'AUR62021470' => 'cqu', 'AUR62022834' => 'cqu', 'AUR62033635' => 'cqu', 'AUR62036186' => 'cqu', 'BcaB01g03077' => 'bca', 'BcaB02g10093' => 'bca', 'BcaB04g20295' => 'bca', 'BcaB06g28147' => 'bca', 'BcaB07g31253' => 'bca', 'BcaC01g04946' => 'bca', 'BcaC02g10614' => 'bca', 'BcaC02g10885' => 'bca', 'BcaC04g19356' => 'bca', 'BcaC04g22297' => 'bca', 'BcaC05g24977' => 'bca', 'BcaC06g31823' => 'bca', 'BcaC07g38633' => 'bca', 'BcaC09g49353' => 'bca', 'BcaC09g50168' => 'bca', 'BcaNung00322' => 'bca', 'BcaNung04769' => 'bca', 'BolC1t02753H' => 'bol', 'BolC1t03721H' => 'bol', 'BolC3t15525H' => 'bol', 'BolC4t23903H' => 'bol', 'BolC4t24231H' => 'bol', 'BolC4t27209H' => 'bol', 'BolC5t29671H' => 'bol', 'BolC8t49044H' => 'bol', 'BolC9t54999H' => 'bol', 'BolC9t59517H' => 'bol', 'BraA01t02178Z' => 'bra', 'BraA01t03099Z' => 'bra', 'BraA03t11867Z' => 'bra', 'BraA04t17667Z' => 'bra', 'BraA07t29542Z' => 'bra', 'BraA08t35287Z' => 'bra', 'BraA09t37334Z' => 'bra', 'BraA10t44801Z' => 'bra', 'BraSC39t46181Z' => 'bra', 'C01p28240' => 'bna', 'C01p37530' => 'bna', 'C03p31820' => 'bna', 'C04p24080' => 'bna', 'C04p25790' => 'bna', 'C04p56770' => 'bna', 'C05p09310' => 'bna', 'C09p21010' => 'bna', 'C09p67560' => 'bna', 'CAN.G1324.7' => 'can', 'CAN.G1358.10' => 'can', 'CAN.G1550.2' => 'can', 'CAN.G186.56' => 'can', 'CAN.G1965.1' => 'can', 'CAN.G645.15' => 'can', 'CAN.G798.26' => 'can', 'CAN.G798.27' => 'can', 'CAN.G798.29' => 'can', 'CAN.G919.31' => 'can', 'CANSAT11G0133' => 'cansat', 'CANSAT11G1171' => 'cansat', 'CANSAT11G2056' => 'cansat', 'CANSAT56G1202' => 'cansat', 'CANSAT56G1514' => 'cansat', 'CANSAT78G0455' => 'cansat', 'CARHR011190' => 'chi', 'CARHR051980' => 'chi', 'CARHR120170' => 'chi', 'CARHR203310' => 'chi', 'CARHR221490' => 'chi', 'Carub.0001s1054' => 'cru', 'Carub.0002s0431' => 'cru', 'Carub.0004s0818' => 'cru', 'Carub.0006s0846' => 'cru', 'Carub.0007s2722' => 'cru', 'Ca_00058_v3' => 'car', 'Ca_17831_v3' => 'car', 'Ca_19408_v3' => 'car', 'Ca_24397_v3' => 'car', 'Ca_25664_v3' => 'car', 'CBR_g21818' => 'cbr', 'CBR_g31195' => 'cbr', 'CBR_g32282' => 'cbr', 'CBR_g39599' => 'cbr', 'CBR_g49410' => 'cbr', 'Cc01_g09120' => 'ccan', 'Cc01_g09130' => 'ccan', 'Cc02_g09630' => 'ccan', 'Cc02_g22810' => 'ccan', 'Cc03_g03810' => 'ccan', 'CDE02G3718' => 'cde', 'CDE04G3183' => 'cde', 'CDE07G1046' => 'cde', 'CDE08G0480' => 'cde', 'Cfa005493' => 'cfa', 'Cfa010312' => 'cfa', 'Cfa015648' => 'cfa', 'Ciclev10002793m.g' => 'ccl', 'Ciclev10003356m.g' => 'ccl', 'Ciclev10006141m.g' => 'ccl', 'Ciclev10016676m.g' => 'ccl', 'Ciclev10017081m.g' => 'ccl', 'Ciclev10029499m.g' => 'ccl', 'CiPaw.01G166300' => 'cil', 'CiPaw.06G145600' => 'cil', 'CiPaw.13G040100' => 'cil', 'CiPaw.13G135800' => 'cil', 'ClCG01G012230' => 'cla', 'ClCG05G009510' => 'cla', 'ClCG08G008270' => 'cla', 'COL.COLO4_11763' => 'col', 'COL.COLO4_19876' => 'col', 'COL.COLO4_21481' => 'col', 'Cpa.g.sc118.34' => 'cpa', 'Cpa.g.sc32.13' => 'cpa', 'Cpa.g.sc58.103' => 'cpa', 'Cre03.g183850' => 'cre', 'Cre06.g306350' => 'cre', 'Cre07.g334800' => 'cre', 'Cre12.g487900' => 'cre', 'Cre14.g626700' => 'cre', 'Cre16.g658400' => 'cre', 'Cre17.g700950' => 'cre', 'CsaV3_1G014830' => 'csa', 'CsaV3_3G013320' => 'csa', 'CsaV3_3G019210' => 'csa', 'CsaV3_3G019220' => 'csa', 'CsaV3_6G004230' => 'csa', 'CSS0003773' => 'camsi', 'CSS0004563' => 'camsi', 'CSS0013949' => 'camsi', 'CSS0025971' => 'camsi', 'CSS0028570' => 'camsi', 'CSS0033127' => 'camsi', 'CSS0036051' => 'camsi', 'CSS0040087' => 'camsi', 'CSS0043179' => 'camsi', 'DCAR_006161' => 'dca', 'DCAR_010351' => 'dca', 'DCAR_012197' => 'dca', 'DCAR_024162' => 'dca', 'Dinv01030' => 'din', 'Dinv10924' => 'din', 'Dinv11835' => 'din', 'Dinv22841' => 'din', 'Dinv42553' => 'din', 'Duzib052G0560' => 'dzi', 'Duzib132G0389' => 'dzi', 'Duzib150G1181' => 'dzi', 'Duzib168G0623' => 'dzi', 'Duzib170G1036' => 'dzi', 'Duzib212G0200' => 'dzi', 'Duzib248G0194' => 'dzi', 'ECA232G2193' => 'eca', 'ECA233G0302' => 'eca', 'ECA234G2813' => 'eca', 'ECA234G4866' => 'eca', 'ECA240G3932' => 'eca', 'ECA248G0385' => 'eca', 'EL10Ac2g04781' => 'bvu', 'EL10Ac3g06445' => 'bvu', 'EL10Ac7g15825' => 'bvu', 'EL10Ac8g18550' => 'bvu', 'Eucgr.B03849' => 'egr', 'Eucgr.I02744' => 'egr', 'Eucgr.J00264' => 'egr', 'Eucgr.J00493' => 'egr', 'FAN04G2181' => 'fan', 'FAN07G2666' => 'fan', 'FAN11G0024' => 'fan', 'FAN12G1105' => 'fan', 'FAN13G0302' => 'fan', 'FAN15G2781' => 'fan', 'FAN16G1274' => 'fan', 'FAN17G2988' => 'fan', 'FAN18G2621' => 'fan', 'FAN21G0013' => 'fan', 'FAN22G1211' => 'fan', 'FAN25G3626' => 'fan', 'FvH4_2g09491' => 'fve', 'FvH4_3g24910' => 'fve', 'FvH4_4g15630' => 'fve', 'FvH4_5g28820' => 'fve', 'Glyma.01G238000' => 'gma', 'Glyma.05G168400' => 'gma', 'Glyma.08G126800' => 'gma', 'Glyma.08G188500' => 'gma', 'Glyma.10G278900' => 'gma', 'Glyma.11G005700' => 'gma', 'Glyma.11G183300' => 'gma', 'Glyma.12G089200' => 'gma', 'Glyma.12G169400' => 'gma', 'Glyma.12G169500' => 'gma', 'Glyma.12G169600' => 'gma', 'Glyma.20G110800' => 'gma', 'Gohir.A03G192900' => 'ghi', 'Gohir.A03G193000' => 'ghi', 'Gohir.A05G080700' => 'ghi', 'Gohir.A09G216000' => 'ghi', 'Gohir.A12G027700' => 'ghi', 'Gohir.A13G036200' => 'ghi', 'Gohir.A13G222600' => 'ghi', 'Gohir.D02G213900' => 'ghi', 'Gohir.D02G214000' => 'ghi', 'Gohir.D05G083700' => 'ghi', 'Gohir.D05G083800' => 'ghi', 'Gohir.D05G083850' => 'ghi', 'Gohir.D08G015400' => 'ghi', 'Gohir.D09G218400' => 'ghi', 'Gohir.D12G027100' => 'ghi', 'Gohir.D13G034500' => 'ghi', 'Gohir.D13G227400' => 'ghi', 'Gorai.005G241800' => 'gra', 'Gorai.005G241900' => 'gra', 'Gorai.006G239400' => 'gra', 'Gorai.008G027600' => 'gra', 'Gorai.009G085400' => 'gra', 'Gorai.009G085500' => 'gra', 'Gorai.013G039000' => 'gra', 'Gorai.013G194800' => 'gra', 'Gorai.013G257900' => 'gra', 'GSVIVG01000982001' => 'vvi', 'GSVIVG01017981001' => 'vvi', 'HanXRQChr01g0024061' => 'han', 'HanXRQChr09g0247831' => 'han', 'HanXRQChr10g0294611' => 'han', 'HanXRQChr10g0294621' => 'han', 'HanXRQChr11g0346821' => 'han', 'HanXRQChr13g0397461' => 'han', 'HanXRQChr16g0513651' => 'han', 'HanXRQChr16g0513701' => 'han', 'Haze_00897' => 'cav', 'Haze_01745' => 'cav', 'Haze_02486' => 'cav', 'Haze_02487' => 'cav', 'Haze_23374' => 'cav', 'Hma1.2p1_0578F.1_g182520' => 'hma', 'Hma1.2p1_0602F.1_g187350' => 'hma', 'Hma1.2p1_0602F.1_g187360' => 'hma', 'Hma1.2p1_0874F.1_g231320' => 'hma', 'Hma1.2p1_1197F.1_g266210' => 'hma', 'Hma1.2p1_1197F.1_g266220' => 'hma', 'Hma1.2p1_2167F.1_g315895' => 'hma', 'Hma1.2p1_2190F.1_g316640' => 'hma', 'Hma1.2p1_3645F.1_g337153' => 'hma', 'HPP92_004907' => 'vpl', 'HPP92_012134' => 'vpl', 'HPP92_025136' => 'vpl', 'HPP92_026087' => 'vpl', 'Hund06782' => 'sun', 'Hund06784' => 'sun', 'Lalb_Chr01g0004861' => 'lal', 'Lalb_Chr02g0140591' => 'lal', 'Lalb_Chr02g0140611' => 'lal', 'Lalb_Chr03g0028101' => 'lal', 'Lalb_Chr07g0185791' => 'lal', 'Lalb_Chr12g0204491' => 'lal', 'Lalb_Chr13g0295671' => 'lal', 'Lalb_Chr19g0136461' => 'lal', 'Lalb_Chr21g0309191' => 'lal', 'Lj1g0028158' => 'lja', 'Lj1P236T38' => 'lonja', 'Lj2C32G2' => 'lonja', 'Lj2P944T8' => 'lonja', 'Lj2P963T15' => 'lonja', 'Lj3g0011788' => 'lja', 'Lj4g0025027' => 'lja', 'Lj5P255T36' => 'lonja', 'Lj6g0018866' => 'lja', 'Lj6P608T31' => 'lonja', 'LjContig00408g0008879' => 'lja', 'Lsat_1_v5_gn_5_105820' => 'lsa', 'Lsat_1_v5_gn_6_38800' => 'lsa', 'Lsat_1_v5_gn_7_67141' => 'lsa', 'Manes.04G003400' => 'mes', 'Manes.07G020000' => 'mes', 'Manes.07G020100' => 'mes', 'Manes.07G020150' => 'mes', 'Manes.10G061500' => 'mes', 'Manes.10G123200' => 'mes', 'Manes.11G161900' => 'mes', 'Manes.15G029300' => 'mes', 'Mapoly0071s0018' => 'mpo', 'Mapoly0082s0023' => 'mpo', 'Mapoly3477s0001' => 'mpo', 'MBI05_g31233_MAGBIO' => 'mbi', 'MBI09_g05946_MAGBIO' => 'mbi', 'MBI09_g05947_MAGBIO' => 'mbi', 'MBI17_g08346_MAGBIO' => 'mbi', 'MCO04G038' => 'mco', 'MCO09G370' => 'mco', 'MCO13G605' => 'mco', 'MD00G1075500' => 'mdo', 'MD03G1144300' => 'mdo', 'MD08G1236800' => 'mdo', 'MD13G1193300' => 'mdo', 'MD15G1428700' => 'mdo', 'Medtr1g112030' => 'mtr', 'Medtr1g112050' => 'mtr', 'Medtr2g006290' => 'mtr', 'Medtr2g086510' => 'mtr', 'Medtr4g053120' => 'mtr', 'Medtr5g006320' => 'mtr', 'Medtr8g088720' => 'mtr', 'MELO3C004712.2' => 'cme', 'MELO3C006533.2' => 'cme', 'MELO3C019438.2' => 'cme', 'MELO3C019440.2' => 'cme', 'MELO3C019441.2' => 'cme', 'MELO3C019895.2' => 'cme', 'Migut.B00811' => 'egut', 'Migut.D02447' => 'egut', 'Migut.F00875' => 'egut', 'Migut.N00186' => 'egut', 'Migut.N01051' => 'egut', 'Migut.N02491' => 'egut', 'Migut.O00784' => 'egut', 'MSTRG.12367' => 'ama', 'MSTRG.18756' => 'ama', 'MSTRG.21042' => 'ama', 'Nitab4.5_0000559g0040' => 'nta', 'Nitab4.5_0000667g0190' => 'nta', 'Nitab4.5_0000755g0160' => 'nta', 'Nitab4.5_0001216g0080' => 'nta', 'Nitab4.5_0004069g0040' => 'nta', 'Nitab4.5_0004129g0010' => 'nta', 'Nitab4.5_0005744g0030' => 'nta', 'Nitab4.5_0006996g0030' => 'nta', 'Nitab4.5_0008971g0040' => 'nta', 'Nitab4.5_0009769g0020' => 'nta', 'Nitab4.5_0009833g0010' => 'nta', 'Nitab4.5_0013140g0020' => 'nta', 'Nn003s41376' => 'nnu', 'Nn1g01857' => 'nnu', 'Nn1g03611' => 'nnu', 'Nn1g06853' => 'nnu', 'Nn3g18360' => 'nnu', 'Nn4g26328' => 'nnu', 'Nn5g27531' => 'nnu', 'Nn6g34899' => 'nnu', 'Nn7g36299' => 'nnu', 'Oeu021485.1' => 'oeu', 'Oeu022433.1' => 'oeu', 'Oeu032111.1' => 'oeu', 'Oeu051608.1' => 'oeu', 'Os01g0860601' => 'osa', 'Os03g0659200' => 'osa', 'Os03g0835900' => 'osa', 'Os04g0412200' => 'osa', 'Os05g0443500' => 'osa', 'Os07g0251500' => 'osa', 'Os08g0104600' => 'osa', 'Peaxi162Scf00003g00047' => 'pax', 'Peaxi162Scf00003g00052' => 'pax', 'Peaxi162Scf00003g00394' => 'pax', 'Peaxi162Scf00091g00621' => 'pax', 'Peaxi162Scf00152g00146' => 'pax', 'Peaxi162Scf00173g00025' => 'pax', 'Peaxi162Scf00195g00102' => 'pax', 'Peaxi162Scf00402g00013' => 'pax', 'Peaxi162Scf00519g00618' => 'pax', 'PGR004G2838' => 'pgr', 'PGR044G2275' => 'pgr', 'PGR102G1377' => 'pgr', 'PGR119G1245' => 'pgr', 'PGR142G4449' => 'pgr', 'PGSC0003DMG400004532' => 'stu', 'PGSC0003DMG400011950' => 'stu', 'PGSC0003DMG400023391' => 'stu', 'PGSC0003DMG400023985' => 'stu', 'PGSC0003DMG400026360' => 'stu', 'PGSC0003DMG400035711' => 'stu', 'PGSC0003DMG400037286' => 'stu', 'PGSC0003DMG402005881' => 'stu', 'Phvul.002G045400' => 'pvu', 'Phvul.006G216600' => 'pvu', 'Phvul.006G216700' => 'pvu', 'Phvul.006G216800' => 'pvu', 'Phvul.007G022500' => 'pvu', 'Phvul.011G094400' => 'pvu', 'Potri.001G470700' => 'ptr', 'Potri.003G015200' => 'ptr', 'Potri.004G202500' => 'ptr', 'Potri.004G218400' => 'ptr', 'Potri.008G020100' => 'ptr', 'Potri.008G153200' => 'ptr', 'Potri.009G163800' => 'ptr', 'Potri.010G087300' => 'ptr', 'Potri.010G239100' => 'ptr', 'Pp3c10_16100' => 'ppa', 'Pp3c10_16880' => 'ppa', 'Pp3c16_6230' => 'ppa', 'Pp3c17_18910' => 'ppa', 'Pp3c3_22119' => 'ppa', 'Pp3c3_22140' => 'ppa', 'Pp3c4_8159' => 'ppa', 'Pp3c4_8171' => 'ppa', 'Pp3c4_8330' => 'ppa', 'PRCOL_00004098' => 'pco', 'Prupe.1G013900' => 'ppe', 'Prupe.1G226300' => 'ppe', 'Prupe.1G573600' => 'ppe', 'Prupe.6G130100' => 'ppe', 'Psat3g090040' => 'psa', 'Psat4g210440' => 'psa', 'Psat6g231040' => 'psa', 'Psat6g231080' => 'psa', 'Psat7g063000' => 'psa', 'Psat7g188000' => 'psa', 'Psat7g188040' => 'psa', 'PSO017G0206' => 'pso', 'PSO170G0501' => 'pso', 'PSO170G6422' => 'pso', 'PSO210G7739' => 'pso', 'PSO339G1808' => 'pso', 'PSO339G6135' => 'pso', 'PSO384G0010' => 'pso', 'PSO384G0964' => 'pso', 'PSO761G0050' => 'pso', 'PSO782G4085' => 'pso', 'QL01p012264' => 'qlo', 'QL02p099491' => 'qlo', 'QL03p033868' => 'qlo', 'QL04p046678' => 'qlo', 'QL06p002448' => 'qlo', 'RcHm_v2.0_Chr4g0416181' => 'rch', 'RcHm_v2.0_Chr5g0044701' => 'rch', 'RcHm_v2.0_Chr6g0265781' => 'rch', 'RcHm_v2.0_Chr7g0221031' => 'rch', 'Rhsim04G0202000' => 'rsi', 'Rhsim11G0127300' => 'rsi', 'Rhsim13G0111800' => 'rsi', 'Sabra01G0165600' => 'sbr', 'Sabra03G0008300' => 'sbr', 'Sabra04G0136900' => 'sbr', 'Sabra08G0013400' => 'sbr', 'Sabra08G0116800' => 'sbr', 'Sabra09G0128000' => 'sbr', 'Sabra10G0055500' => 'sbr', 'Sabra10G0073300' => 'sbr', 'SalBow3G0385' => 'sbo', 'SalBow3G1119' => 'sbo', 'SalBow3G2005' => 'sbo', 'SalBow6G2563' => 'sbo', 'SalBow6G6386' => 'sbo', 'Sc06g0008800' => 'sci', 'Sc07g0004950' => 'sci', 'Sc09g0005340' => 'sci', 'Sc13g0004410' => 'sci', 'Sc21g0007090' => 'sci', 'Sed0009285' => 'sed', 'Sed0017583' => 'sed', 'Sed0019699' => 'sed', 'Sed0023107' => 'sed', 'SEGI_10916' => 'sgi', 'SEGI_16217' => 'sgi', 'SEGI_19466' => 'sgi', 'SEGI_41115' => 'sgi', 'SGA_v2.0_scaffold111G31534' => 'sas', 'SGA_v2.0_scaffold22G09864' => 'sas', 'SGA_v2.0_scaffold338G49219' => 'sas', 'SGA_v2.0_scaffold92G28298' => 'sas', 'SMO119G0064' => 'smo', 'SMO223G0038' => 'smo', 'SMO347G0584' => 'smo', 'SMO351G0010' => 'smo', 'SMO356G0404' => 'smo', 'Solyc01g103920.3' => 'sly', 'Solyc04g009710.2' => 'sly', 'Solyc05g055280.2' => 'sly', 'Solyc10g044520.3' => 'sly', 'Solyc10g075160.1' => 'sly', 'Solyc11g006910.3' => 'sly', 'Solyc11g068430.3' => 'sly', 'Sopen01g046310' => 'spe', 'Sopen03g001200' => 'spe', 'Sopen04g004830' => 'spe', 'Sopen05g033720' => 'spe', 'Sopen06g030740' => 'spe', 'Sopen10g013090' => 'spe', 'Sopen10g027630' => 'spe', 'Sopen10g027640' => 'spe', 'Sopen11g002820' => 'spe', 'Sopen11g027140' => 'spe', 'Sp1g09680' => 'spa', 'Sp2g03630' => 'spa', 'Sp4g10320' => 'spa', 'Sp6g33400' => 'spa', 'Sp7g13030' => 'spa', 'TAR365G0317' => 'tar', 'TAR376G0979' => 'tar', 'TAR623G1665' => 'tar', 'TAR633G2373' => 'tar', 'TAR636G1400' => 'tar', 'THA.LOC104800529' => 'tha', 'THA.LOC104808547' => 'tha', 'THA.LOC104809615' => 'tha', 'THA.LOC104815724' => 'tha', 'THA.LOC104818480' => 'tha', 'THA.LOC104819179' => 'tha', 'THA.LOC104822270' => 'tha', 'THA.LOC104826425' => 'tha', 'Thecc.02G089700' => 'tca', 'Thecc.04G232300' => 'tca', 'Thecc.09G283400' => 'tca', 'Thhalv10009020m.g' => 'esa', 'Thhalv10015506m.g' => 'esa', 'Thhalv10017364m.g' => 'esa', 'Thhalv10023742m.g' => 'esa', 'Thhalv10026483m.g' => 'esa', 'TPR.G17232' => 'tpr', 'TPR.G2133' => 'tpr', 'TPR.G2498' => 'tpr', 'TPR.G31942' => 'tpr', 'TPR.G37877' => 'tpr', 'TPR.G4571' => 'tpr', 'TWI14G1113' => 'twi', 'TWI15G0426' => 'twi', 'TWI31G1005' => 'twi', 'TWI38G0513' => 'twi', 'TWI38G1484' => 'twi', 'TWI73G1098' => 'twi', 'unitig_26.g10519' => 'ugi', 'unitig_736.g22395' => 'ugi', 'unitig_747.g21234' => 'ugi', 'unitig_747.g21942' => 'ugi', 'vmacro14351' => 'vma', 'VMungo0540G0082' => 'vmu', 'VMungo0540G0405' => 'vmu', 'VMungo0540G1486' => 'vmu', 'VMungo0540G1692' => 'vmu', 'VMungo0720G2473' => 'vmu', 'VMungo1127G1562' => 'vmu', 'VMungo1215G1918' => 'vmu', 'Zm00001eb052650' => 'zma', 'Zm00001eb063710' => 'zma', 'Zm00001eb083950' => 'zma', 'Zm00001eb174420' => 'zma', 'Zm00001eb260140' => 'zma', 'Zm00001eb260150' => 'zma', 'Zm00001eb260160' => 'zma', 'Zm00001eb348290' => 'zma', 'Zm00001eb366870' => 'zma', 'Zm00001eb421930' => 'zma' ) $gf_id = 'HOM05D001025' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001025' ) $data_identifier = 'HOM05D001025' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 19, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 2, 'amhyb' => (int) 4, 'aly' => (int) 4, 'aox' => (int) 4, 'arhy' => (int) 3, 'ath' => (int) 5, 'atr' => (int) 4, 'acertr' => (int) 3, 'cqu' => (int) 7, 'bca' => (int) 17, 'bol' => (int) 10, 'bra' => (int) 9, 'can' => (int) 10, 'cansat' => (int) 6, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 5, 'cbr' => (int) 5, 'ccan' => (int) 5, 'cde' => (int) 4, 'cfa' => (int) 3, 'ccl' => (int) 6, 'cil' => (int) 4, 'cla' => (int) 3, 'col' => (int) 3, 'cpa' => (int) 3, 'cre' => (int) 7, 'csa' => (int) 5, 'camsi' => (int) 9, 'dca' => (int) 4, 'din' => (int) 5, 'dzi' => (int) 7, 'eca' => (int) 6, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 12, 'fve' => (int) 4, 'gma' => (int) 12, 'ghi' => (int) 17, 'gra' => (int) 9, 'vvi' => (int) 2, 'han' => (int) 8, 'cav' => (int) 5, 'hma' => (int) 9, 'vpl' => (int) 4, 'sun' => (int) 2, 'lal' => (int) 9, 'lja' => (int) 5, 'lonja' => (int) 6, 'lsa' => (int) 3, 'mes' => (int) 8, 'mpo' => (int) 3, 'mbi' => (int) 4, 'mco' => (int) 3, 'mdo' => (int) 5, 'mtr' => (int) 7, 'cme' => (int) 6, 'egut' => (int) 7, 'ama' => (int) 3, 'nta' => (int) 12, 'nnu' => (int) 9, 'oeu' => (int) 4, 'osa' => (int) 7, 'pax' => (int) 9, 'pgr' => (int) 5, 'stu' => (int) 8, 'pvu' => (int) 6, 'ptr' => (int) 9, 'ppa' => (int) 9, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 7, 'pso' => (int) 10, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 3, 'sbr' => (int) 8, 'sbo' => (int) 5, 'sci' => (int) 5, 'sed' => (int) 4, 'sgi' => (int) 4, 'sas' => (int) 4, 'smo' => (int) 5, 'sly' => (int) 7, 'spe' => (int) 10, 'spa' => (int) 5, 'tar' => (int) 5, 'tha' => (int) 8, 'tca' => (int) 3, 'esa' => (int) 5, 'tpr' => (int) 6, 'twi' => (int) 6, 'ugi' => (int) 4, 'vma' => (int) 1, 'vmu' => (int) 7, 'zma' => (int) 10 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb421930' $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' => 'HOM05D001025', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '592', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p22650' => 'bna', 'A01p29720' => 'bna', 'A03p26560' => 'bna', 'A03p68820' => 'bna', 'A04p20980' => 'bna', 'A06p07730' => 'bna', 'A07p18260' => 'bna', 'A08p33710' => 'bna', 'A09p16970' => 'bna', 'A10p27490' => 'bna', 'Aa31LG1G17300' => 'aar', 'Aa31LG1G3910' => 'aar', 'Aa31LG2G9630' => 'aar', 'Aa31LG5G8360' => 'aar', 'Aa31LG9G2410' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4699' => 'aag', 'Actinidia23512' => 'ach', 'Actinidia37080' => 'ach', 'Ah.01g020380' => 'amhyb', 'Ah.08g215710' => 'amhyb', 'Ah.09g225110' => 'amhyb', 'Ah.10g036680' => 'amhyb', 'AL1G21940' => 'aly', 'AL2G15540' => 'aly', 'AL4G21520' => 'aly', 'AL7G40960' => 'aly', 'Aqoxy2G01191' => 'aox', 'Aqoxy2G03393' => 'aox', 'Aqoxy4G02775' => 'aox', 'Aqoxy6G00058' => 'aox', 'arahy.Tifrunner.gnm1.ann1.9X74H2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CW3FX9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R485W7' => 'arhy', 'AT1G10960' => 'ath', 'AT1G60950' => 'ath', 'AT2G27510' => 'ath', 'AT4G14890' => 'ath', 'AT5G10000' => 'ath', 'ATR0665G624' => 'atr', 'ATR0697G138' => 'atr', 'ATR0776G046' => 'atr', 'ATR1134G135' => 'atr', 'Atru.chr12.1025' => 'acertr', 'Atru.chr3.3241' => 'acertr', 'Atru.chr4.2460' => 'acertr', 'AUR62007427' => 'cqu', 'AUR62010960' => 'cqu', 'AUR62012201' => 'cqu', 'AUR62021470' => 'cqu', 'AUR62022834' => 'cqu', 'AUR62033635' => 'cqu', 'AUR62036186' => 'cqu', 'BcaB01g03077' => 'bca', 'BcaB02g10093' => 'bca', 'BcaB04g20295' => 'bca', 'BcaB06g28147' => 'bca', 'BcaB07g31253' => 'bca', 'BcaC01g04946' => 'bca', 'BcaC02g10614' => 'bca', 'BcaC02g10885' => 'bca', 'BcaC04g19356' => 'bca', 'BcaC04g22297' => 'bca', 'BcaC05g24977' => 'bca', 'BcaC06g31823' => 'bca', 'BcaC07g38633' => 'bca', 'BcaC09g49353' => 'bca', 'BcaC09g50168' => 'bca', 'BcaNung00322' => 'bca', 'BcaNung04769' => 'bca', 'BolC1t02753H' => 'bol', 'BolC1t03721H' => 'bol', 'BolC3t15525H' => 'bol', 'BolC4t23903H' => 'bol', 'BolC4t24231H' => 'bol', 'BolC4t27209H' => 'bol', 'BolC5t29671H' => 'bol', 'BolC8t49044H' => 'bol', 'BolC9t54999H' => 'bol', 'BolC9t59517H' => 'bol', 'BraA01t02178Z' => 'bra', 'BraA01t03099Z' => 'bra', 'BraA03t11867Z' => 'bra', 'BraA04t17667Z' => 'bra', 'BraA07t29542Z' => 'bra', 'BraA08t35287Z' => 'bra', 'BraA09t37334Z' => 'bra', 'BraA10t44801Z' => 'bra', 'BraSC39t46181Z' => 'bra', 'C01p28240' => 'bna', 'C01p37530' => 'bna', 'C03p31820' => 'bna', 'C04p24080' => 'bna', 'C04p25790' => 'bna', 'C04p56770' => 'bna', 'C05p09310' => 'bna', 'C09p21010' => 'bna', 'C09p67560' => 'bna', 'CAN.G1324.7' => 'can', 'CAN.G1358.10' => 'can', 'CAN.G1550.2' => 'can', 'CAN.G186.56' => 'can', 'CAN.G1965.1' => 'can', 'CAN.G645.15' => 'can', 'CAN.G798.26' => 'can', 'CAN.G798.27' => 'can', 'CAN.G798.29' => 'can', 'CAN.G919.31' => 'can', 'CANSAT11G0133' => 'cansat', 'CANSAT11G1171' => 'cansat', 'CANSAT11G2056' => 'cansat', 'CANSAT56G1202' => 'cansat', 'CANSAT56G1514' => 'cansat', 'CANSAT78G0455' => 'cansat', 'CARHR011190' => 'chi', 'CARHR051980' => 'chi', 'CARHR120170' => 'chi', 'CARHR203310' => 'chi', 'CARHR221490' => 'chi', 'Carub.0001s1054' => 'cru', 'Carub.0002s0431' => 'cru', 'Carub.0004s0818' => 'cru', 'Carub.0006s0846' => 'cru', 'Carub.0007s2722' => 'cru', 'Ca_00058_v3' => 'car', 'Ca_17831_v3' => 'car', 'Ca_19408_v3' => 'car', 'Ca_24397_v3' => 'car', 'Ca_25664_v3' => 'car', 'CBR_g21818' => 'cbr', 'CBR_g31195' => 'cbr', 'CBR_g32282' => 'cbr', 'CBR_g39599' => 'cbr', 'CBR_g49410' => 'cbr', 'Cc01_g09120' => 'ccan', 'Cc01_g09130' => 'ccan', 'Cc02_g09630' => 'ccan', 'Cc02_g22810' => 'ccan', 'Cc03_g03810' => 'ccan', 'CDE02G3718' => 'cde', 'CDE04G3183' => 'cde', 'CDE07G1046' => 'cde', 'CDE08G0480' => 'cde', 'Cfa005493' => 'cfa', 'Cfa010312' => 'cfa', 'Cfa015648' => 'cfa', 'Ciclev10002793m.g' => 'ccl', 'Ciclev10003356m.g' => 'ccl', 'Ciclev10006141m.g' => 'ccl', 'Ciclev10016676m.g' => 'ccl', 'Ciclev10017081m.g' => 'ccl', 'Ciclev10029499m.g' => 'ccl', 'CiPaw.01G166300' => 'cil', 'CiPaw.06G145600' => 'cil', 'CiPaw.13G040100' => 'cil', 'CiPaw.13G135800' => 'cil', 'ClCG01G012230' => 'cla', 'ClCG05G009510' => 'cla', 'ClCG08G008270' => 'cla', 'COL.COLO4_11763' => 'col', 'COL.COLO4_19876' => 'col', 'COL.COLO4_21481' => 'col', 'Cpa.g.sc118.34' => 'cpa', 'Cpa.g.sc32.13' => 'cpa', 'Cpa.g.sc58.103' => 'cpa', 'Cre03.g183850' => 'cre', 'Cre06.g306350' => 'cre', 'Cre07.g334800' => 'cre', 'Cre12.g487900' => 'cre', 'Cre14.g626700' => 'cre', 'Cre16.g658400' => 'cre', 'Cre17.g700950' => 'cre', 'CsaV3_1G014830' => 'csa', 'CsaV3_3G013320' => 'csa', 'CsaV3_3G019210' => 'csa', 'CsaV3_3G019220' => 'csa', 'CsaV3_6G004230' => 'csa', 'CSS0003773' => 'camsi', 'CSS0004563' => 'camsi', 'CSS0013949' => 'camsi', 'CSS0025971' => 'camsi', 'CSS0028570' => 'camsi', 'CSS0033127' => 'camsi', 'CSS0036051' => 'camsi', 'CSS0040087' => 'camsi', 'CSS0043179' => 'camsi', 'DCAR_006161' => 'dca', 'DCAR_010351' => 'dca', 'DCAR_012197' => 'dca', 'DCAR_024162' => 'dca', 'Dinv01030' => 'din', 'Dinv10924' => 'din', 'Dinv11835' => 'din', 'Dinv22841' => 'din', 'Dinv42553' => 'din', 'Duzib052G0560' => 'dzi', 'Duzib132G0389' => 'dzi', 'Duzib150G1181' => 'dzi', 'Duzib168G0623' => 'dzi', 'Duzib170G1036' => 'dzi', 'Duzib212G0200' => 'dzi', 'Duzib248G0194' => 'dzi', 'ECA232G2193' => 'eca', 'ECA233G0302' => 'eca', 'ECA234G2813' => 'eca', 'ECA234G4866' => 'eca', 'ECA240G3932' => 'eca', 'ECA248G0385' => 'eca', 'EL10Ac2g04781' => 'bvu', 'EL10Ac3g06445' => 'bvu', 'EL10Ac7g15825' => 'bvu', 'EL10Ac8g18550' => 'bvu', 'Eucgr.B03849' => 'egr', 'Eucgr.I02744' => 'egr', 'Eucgr.J00264' => 'egr', 'Eucgr.J00493' => 'egr', 'FAN04G2181' => 'fan', 'FAN07G2666' => 'fan', 'FAN11G0024' => 'fan', 'FAN12G1105' => 'fan', 'FAN13G0302' => 'fan', 'FAN15G2781' => 'fan', 'FAN16G1274' => 'fan', 'FAN17G2988' => 'fan', 'FAN18G2621' => 'fan', 'FAN21G0013' => 'fan', 'FAN22G1211' => 'fan', 'FAN25G3626' => 'fan', 'FvH4_2g09491' => 'fve', 'FvH4_3g24910' => 'fve', 'FvH4_4g15630' => 'fve', 'FvH4_5g28820' => 'fve', 'Glyma.01G238000' => 'gma', 'Glyma.05G168400' => 'gma', 'Glyma.08G126800' => 'gma', 'Glyma.08G188500' => 'gma', 'Glyma.10G278900' => 'gma', 'Glyma.11G005700' => 'gma', 'Glyma.11G183300' => 'gma', 'Glyma.12G089200' => 'gma', 'Glyma.12G169400' => 'gma', 'Glyma.12G169500' => 'gma', 'Glyma.12G169600' => 'gma', 'Glyma.20G110800' => 'gma', 'Gohir.A03G192900' => 'ghi', 'Gohir.A03G193000' => 'ghi', 'Gohir.A05G080700' => 'ghi', 'Gohir.A09G216000' => 'ghi', 'Gohir.A12G027700' => 'ghi', 'Gohir.A13G036200' => 'ghi', 'Gohir.A13G222600' => 'ghi', 'Gohir.D02G213900' => 'ghi', 'Gohir.D02G214000' => 'ghi', 'Gohir.D05G083700' => 'ghi', 'Gohir.D05G083800' => 'ghi', 'Gohir.D05G083850' => 'ghi', 'Gohir.D08G015400' => 'ghi', 'Gohir.D09G218400' => 'ghi', 'Gohir.D12G027100' => 'ghi', 'Gohir.D13G034500' => 'ghi', 'Gohir.D13G227400' => 'ghi', 'Gorai.005G241800' => 'gra', 'Gorai.005G241900' => 'gra', 'Gorai.006G239400' => 'gra', 'Gorai.008G027600' => 'gra', 'Gorai.009G085400' => 'gra', 'Gorai.009G085500' => 'gra', 'Gorai.013G039000' => 'gra', 'Gorai.013G194800' => 'gra', 'Gorai.013G257900' => 'gra', 'GSVIVG01000982001' => 'vvi', 'GSVIVG01017981001' => 'vvi', 'HanXRQChr01g0024061' => 'han', 'HanXRQChr09g0247831' => 'han', 'HanXRQChr10g0294611' => 'han', 'HanXRQChr10g0294621' => 'han', 'HanXRQChr11g0346821' => 'han', 'HanXRQChr13g0397461' => 'han', 'HanXRQChr16g0513651' => 'han', 'HanXRQChr16g0513701' => 'han', 'Haze_00897' => 'cav', 'Haze_01745' => 'cav', 'Haze_02486' => 'cav', 'Haze_02487' => 'cav', 'Haze_23374' => 'cav', 'Hma1.2p1_0578F.1_g182520' => 'hma', 'Hma1.2p1_0602F.1_g187350' => 'hma', 'Hma1.2p1_0602F.1_g187360' => 'hma', 'Hma1.2p1_0874F.1_g231320' => 'hma', 'Hma1.2p1_1197F.1_g266210' => 'hma', 'Hma1.2p1_1197F.1_g266220' => 'hma', 'Hma1.2p1_2167F.1_g315895' => 'hma', 'Hma1.2p1_2190F.1_g316640' => 'hma', 'Hma1.2p1_3645F.1_g337153' => 'hma', 'HPP92_004907' => 'vpl', 'HPP92_012134' => 'vpl', 'HPP92_025136' => 'vpl', 'HPP92_026087' => 'vpl', 'Hund06782' => 'sun', 'Hund06784' => 'sun', 'Lalb_Chr01g0004861' => 'lal', 'Lalb_Chr02g0140591' => 'lal', 'Lalb_Chr02g0140611' => 'lal', 'Lalb_Chr03g0028101' => 'lal', 'Lalb_Chr07g0185791' => 'lal', 'Lalb_Chr12g0204491' => 'lal', 'Lalb_Chr13g0295671' => 'lal', 'Lalb_Chr19g0136461' => 'lal', 'Lalb_Chr21g0309191' => 'lal', 'Lj1g0028158' => 'lja', 'Lj1P236T38' => 'lonja', 'Lj2C32G2' => 'lonja', 'Lj2P944T8' => 'lonja', 'Lj2P963T15' => 'lonja', 'Lj3g0011788' => 'lja', 'Lj4g0025027' => 'lja', 'Lj5P255T36' => 'lonja', 'Lj6g0018866' => 'lja', 'Lj6P608T31' => 'lonja', 'LjContig00408g0008879' => 'lja', 'Lsat_1_v5_gn_5_105820' => 'lsa', 'Lsat_1_v5_gn_6_38800' => 'lsa', 'Lsat_1_v5_gn_7_67141' => 'lsa', 'Manes.04G003400' => 'mes', 'Manes.07G020000' => 'mes', 'Manes.07G020100' => 'mes', 'Manes.07G020150' => 'mes', 'Manes.10G061500' => 'mes', 'Manes.10G123200' => 'mes', 'Manes.11G161900' => 'mes', 'Manes.15G029300' => 'mes', 'Mapoly0071s0018' => 'mpo', 'Mapoly0082s0023' => 'mpo', 'Mapoly3477s0001' => 'mpo', 'MBI05_g31233_MAGBIO' => 'mbi', 'MBI09_g05946_MAGBIO' => 'mbi', 'MBI09_g05947_MAGBIO' => 'mbi', 'MBI17_g08346_MAGBIO' => 'mbi', 'MCO04G038' => 'mco', 'MCO09G370' => 'mco', 'MCO13G605' => 'mco', 'MD00G1075500' => 'mdo', 'MD03G1144300' => 'mdo', 'MD08G1236800' => 'mdo', 'MD13G1193300' => 'mdo', 'MD15G1428700' => 'mdo', 'Medtr1g112030' => 'mtr', 'Medtr1g112050' => 'mtr', 'Medtr2g006290' => 'mtr', 'Medtr2g086510' => 'mtr', 'Medtr4g053120' => 'mtr', 'Medtr5g006320' => 'mtr', 'Medtr8g088720' => 'mtr', 'MELO3C004712.2' => 'cme', 'MELO3C006533.2' => 'cme', 'MELO3C019438.2' => 'cme', 'MELO3C019440.2' => 'cme', 'MELO3C019441.2' => 'cme', 'MELO3C019895.2' => 'cme', 'Migut.B00811' => 'egut', 'Migut.D02447' => 'egut', 'Migut.F00875' => 'egut', 'Migut.N00186' => 'egut', 'Migut.N01051' => 'egut', 'Migut.N02491' => 'egut', 'Migut.O00784' => 'egut', 'MSTRG.12367' => 'ama', 'MSTRG.18756' => 'ama', 'MSTRG.21042' => 'ama', 'Nitab4.5_0000559g0040' => 'nta', 'Nitab4.5_0000667g0190' => 'nta', 'Nitab4.5_0000755g0160' => 'nta', 'Nitab4.5_0001216g0080' => 'nta', 'Nitab4.5_0004069g0040' => 'nta', 'Nitab4.5_0004129g0010' => 'nta', 'Nitab4.5_0005744g0030' => 'nta', 'Nitab4.5_0006996g0030' => 'nta', 'Nitab4.5_0008971g0040' => 'nta', 'Nitab4.5_0009769g0020' => 'nta', 'Nitab4.5_0009833g0010' => 'nta', 'Nitab4.5_0013140g0020' => 'nta', 'Nn003s41376' => 'nnu', 'Nn1g01857' => 'nnu', 'Nn1g03611' => 'nnu', 'Nn1g06853' => 'nnu', 'Nn3g18360' => 'nnu', 'Nn4g26328' => 'nnu', 'Nn5g27531' => 'nnu', 'Nn6g34899' => 'nnu', 'Nn7g36299' => 'nnu', 'Oeu021485.1' => 'oeu', 'Oeu022433.1' => 'oeu', 'Oeu032111.1' => 'oeu', 'Oeu051608.1' => 'oeu', 'Os01g0860601' => 'osa', 'Os03g0659200' => 'osa', 'Os03g0835900' => 'osa', 'Os04g0412200' => 'osa', 'Os05g0443500' => 'osa', 'Os07g0251500' => 'osa', 'Os08g0104600' => 'osa', 'Peaxi162Scf00003g00047' => 'pax', 'Peaxi162Scf00003g00052' => 'pax', 'Peaxi162Scf00003g00394' => 'pax', 'Peaxi162Scf00091g00621' => 'pax', 'Peaxi162Scf00152g00146' => 'pax', 'Peaxi162Scf00173g00025' => 'pax', 'Peaxi162Scf00195g00102' => 'pax', 'Peaxi162Scf00402g00013' => 'pax', 'Peaxi162Scf00519g00618' => 'pax', 'PGR004G2838' => 'pgr', 'PGR044G2275' => 'pgr', 'PGR102G1377' => 'pgr', 'PGR119G1245' => 'pgr', 'PGR142G4449' => 'pgr', 'PGSC0003DMG400004532' => 'stu', 'PGSC0003DMG400011950' => 'stu', 'PGSC0003DMG400023391' => 'stu', 'PGSC0003DMG400023985' => 'stu', 'PGSC0003DMG400026360' => 'stu', 'PGSC0003DMG400035711' => 'stu', 'PGSC0003DMG400037286' => 'stu', 'PGSC0003DMG402005881' => 'stu', 'Phvul.002G045400' => 'pvu', 'Phvul.006G216600' => 'pvu', 'Phvul.006G216700' => 'pvu', 'Phvul.006G216800' => 'pvu', 'Phvul.007G022500' => 'pvu', 'Phvul.011G094400' => 'pvu', 'Potri.001G470700' => 'ptr', 'Potri.003G015200' => 'ptr', 'Potri.004G202500' => 'ptr', 'Potri.004G218400' => 'ptr', 'Potri.008G020100' => 'ptr', 'Potri.008G153200' => 'ptr', 'Potri.009G163800' => 'ptr', 'Potri.010G087300' => 'ptr', 'Potri.010G239100' => 'ptr', 'Pp3c10_16100' => 'ppa', 'Pp3c10_16880' => 'ppa', 'Pp3c16_6230' => 'ppa', 'Pp3c17_18910' => 'ppa', 'Pp3c3_22119' => 'ppa', 'Pp3c3_22140' => 'ppa', 'Pp3c4_8159' => 'ppa', 'Pp3c4_8171' => 'ppa', 'Pp3c4_8330' => 'ppa', 'PRCOL_00004098' => 'pco', 'Prupe.1G013900' => 'ppe', 'Prupe.1G226300' => 'ppe', 'Prupe.1G573600' => 'ppe', 'Prupe.6G130100' => 'ppe', 'Psat3g090040' => 'psa', 'Psat4g210440' => 'psa', 'Psat6g231040' => 'psa', 'Psat6g231080' => 'psa', 'Psat7g063000' => 'psa', 'Psat7g188000' => 'psa', 'Psat7g188040' => 'psa', 'PSO017G0206' => 'pso', 'PSO170G0501' => 'pso', 'PSO170G6422' => 'pso', 'PSO210G7739' => 'pso', 'PSO339G1808' => 'pso', 'PSO339G6135' => 'pso', 'PSO384G0010' => 'pso', 'PSO384G0964' => 'pso', 'PSO761G0050' => 'pso', 'PSO782G4085' => 'pso', 'QL01p012264' => 'qlo', 'QL02p099491' => 'qlo', 'QL03p033868' => 'qlo', 'QL04p046678' => 'qlo', 'QL06p002448' => 'qlo', 'RcHm_v2.0_Chr4g0416181' => 'rch', 'RcHm_v2.0_Chr5g0044701' => 'rch', 'RcHm_v2.0_Chr6g0265781' => 'rch', 'RcHm_v2.0_Chr7g0221031' => 'rch', 'Rhsim04G0202000' => 'rsi', 'Rhsim11G0127300' => 'rsi', 'Rhsim13G0111800' => 'rsi', 'Sabra01G0165600' => 'sbr', 'Sabra03G0008300' => 'sbr', 'Sabra04G0136900' => 'sbr', 'Sabra08G0013400' => 'sbr', 'Sabra08G0116800' => 'sbr', 'Sabra09G0128000' => 'sbr', 'Sabra10G0055500' => 'sbr', 'Sabra10G0073300' => 'sbr', 'SalBow3G0385' => 'sbo', 'SalBow3G1119' => 'sbo', 'SalBow3G2005' => 'sbo', 'SalBow6G2563' => 'sbo', 'SalBow6G6386' => 'sbo', 'Sc06g0008800' => 'sci', 'Sc07g0004950' => 'sci', 'Sc09g0005340' => 'sci', 'Sc13g0004410' => 'sci', 'Sc21g0007090' => 'sci', 'Sed0009285' => 'sed', 'Sed0017583' => 'sed', 'Sed0019699' => 'sed', 'Sed0023107' => 'sed', 'SEGI_10916' => 'sgi', 'SEGI_16217' => 'sgi', 'SEGI_19466' => 'sgi', 'SEGI_41115' => 'sgi', 'SGA_v2.0_scaffold111G31534' => 'sas', 'SGA_v2.0_scaffold22G09864' => 'sas', 'SGA_v2.0_scaffold338G49219' => 'sas', 'SGA_v2.0_scaffold92G28298' => 'sas', 'SMO119G0064' => 'smo', 'SMO223G0038' => 'smo', 'SMO347G0584' => 'smo', 'SMO351G0010' => 'smo', 'SMO356G0404' => 'smo', 'Solyc01g103920.3' => 'sly', 'Solyc04g009710.2' => 'sly', 'Solyc05g055280.2' => 'sly', 'Solyc10g044520.3' => 'sly', 'Solyc10g075160.1' => 'sly', 'Solyc11g006910.3' => 'sly', 'Solyc11g068430.3' => 'sly', 'Sopen01g046310' => 'spe', 'Sopen03g001200' => 'spe', 'Sopen04g004830' => 'spe', 'Sopen05g033720' => 'spe', 'Sopen06g030740' => 'spe', 'Sopen10g013090' => 'spe', 'Sopen10g027630' => 'spe', 'Sopen10g027640' => 'spe', 'Sopen11g002820' => 'spe', 'Sopen11g027140' => 'spe', 'Sp1g09680' => 'spa', 'Sp2g03630' => 'spa', 'Sp4g10320' => 'spa', 'Sp6g33400' => 'spa', 'Sp7g13030' => 'spa', 'TAR365G0317' => 'tar', 'TAR376G0979' => 'tar', 'TAR623G1665' => 'tar', 'TAR633G2373' => 'tar', 'TAR636G1400' => 'tar', 'THA.LOC104800529' => 'tha', 'THA.LOC104808547' => 'tha', 'THA.LOC104809615' => 'tha', 'THA.LOC104815724' => 'tha', 'THA.LOC104818480' => 'tha', 'THA.LOC104819179' => 'tha', 'THA.LOC104822270' => 'tha', 'THA.LOC104826425' => 'tha', 'Thecc.02G089700' => 'tca', 'Thecc.04G232300' => 'tca', 'Thecc.09G283400' => 'tca', 'Thhalv10009020m.g' => 'esa', 'Thhalv10015506m.g' => 'esa', 'Thhalv10017364m.g' => 'esa', 'Thhalv10023742m.g' => 'esa', 'Thhalv10026483m.g' => 'esa', 'TPR.G17232' => 'tpr', 'TPR.G2133' => 'tpr', 'TPR.G2498' => 'tpr', 'TPR.G31942' => 'tpr', 'TPR.G37877' => 'tpr', 'TPR.G4571' => 'tpr', 'TWI14G1113' => 'twi', 'TWI15G0426' => 'twi', 'TWI31G1005' => 'twi', 'TWI38G0513' => 'twi', 'TWI38G1484' => 'twi', 'TWI73G1098' => 'twi', 'unitig_26.g10519' => 'ugi', 'unitig_736.g22395' => 'ugi', 'unitig_747.g21234' => 'ugi', 'unitig_747.g21942' => 'ugi', 'vmacro14351' => 'vma', 'VMungo0540G0082' => 'vmu', 'VMungo0540G0405' => 'vmu', 'VMungo0540G1486' => 'vmu', 'VMungo0540G1692' => 'vmu', 'VMungo0720G2473' => 'vmu', 'VMungo1127G1562' => 'vmu', 'VMungo1215G1918' => 'vmu', 'Zm00001eb052650' => 'zma', 'Zm00001eb063710' => 'zma', 'Zm00001eb083950' => 'zma', 'Zm00001eb174420' => 'zma', 'Zm00001eb260140' => 'zma', 'Zm00001eb260150' => 'zma', 'Zm00001eb260160' => 'zma', 'Zm00001eb348290' => 'zma', 'Zm00001eb366870' => 'zma', 'Zm00001eb421930' => 'zma' ), 'gf_id' => 'HOM05D001025', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001025' ), 'data_identifier' => 'HOM05D001025', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001025', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '592', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p22650' => 'bna', 'A01p29720' => 'bna', 'A03p26560' => 'bna', 'A03p68820' => 'bna', 'A04p20980' => 'bna', 'A06p07730' => 'bna', 'A07p18260' => 'bna', 'A08p33710' => 'bna', 'A09p16970' => 'bna', 'A10p27490' => 'bna', 'Aa31LG1G17300' => 'aar', 'Aa31LG1G3910' => 'aar', 'Aa31LG2G9630' => 'aar', 'Aa31LG5G8360' => 'aar', 'Aa31LG9G2410' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4699' => 'aag', 'Actinidia23512' => 'ach', 'Actinidia37080' => 'ach', 'Ah.01g020380' => 'amhyb', 'Ah.08g215710' => 'amhyb', 'Ah.09g225110' => 'amhyb', 'Ah.10g036680' => 'amhyb', 'AL1G21940' => 'aly', 'AL2G15540' => 'aly', 'AL4G21520' => 'aly', 'AL7G40960' => 'aly', 'Aqoxy2G01191' => 'aox', 'Aqoxy2G03393' => 'aox', 'Aqoxy4G02775' => 'aox', 'Aqoxy6G00058' => 'aox', 'arahy.Tifrunner.gnm1.ann1.9X74H2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CW3FX9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R485W7' => 'arhy', 'AT1G10960' => 'ath', 'AT1G60950' => 'ath', 'AT2G27510' => 'ath', 'AT4G14890' => 'ath', 'AT5G10000' => 'ath', 'ATR0665G624' => 'atr', 'ATR0697G138' => 'atr', 'ATR0776G046' => 'atr', 'ATR1134G135' => 'atr', 'Atru.chr12.1025' => 'acertr', 'Atru.chr3.3241' => 'acertr', 'Atru.chr4.2460' => 'acertr', 'AUR62007427' => 'cqu', 'AUR62010960' => 'cqu', 'AUR62012201' => 'cqu', 'AUR62021470' => 'cqu', 'AUR62022834' => 'cqu', 'AUR62033635' => 'cqu', 'AUR62036186' => 'cqu', 'BcaB01g03077' => 'bca', 'BcaB02g10093' => 'bca', 'BcaB04g20295' => 'bca', 'BcaB06g28147' => 'bca', 'BcaB07g31253' => 'bca', 'BcaC01g04946' => 'bca', 'BcaC02g10614' => 'bca', 'BcaC02g10885' => 'bca', 'BcaC04g19356' => 'bca', 'BcaC04g22297' => 'bca', 'BcaC05g24977' => 'bca', 'BcaC06g31823' => 'bca', 'BcaC07g38633' => 'bca', 'BcaC09g49353' => 'bca', 'BcaC09g50168' => 'bca', 'BcaNung00322' => 'bca', 'BcaNung04769' => 'bca', 'BolC1t02753H' => 'bol', 'BolC1t03721H' => 'bol', 'BolC3t15525H' => 'bol', 'BolC4t23903H' => 'bol', 'BolC4t24231H' => 'bol', 'BolC4t27209H' => 'bol', 'BolC5t29671H' => 'bol', 'BolC8t49044H' => 'bol', 'BolC9t54999H' => 'bol', 'BolC9t59517H' => 'bol', 'BraA01t02178Z' => 'bra', 'BraA01t03099Z' => 'bra', 'BraA03t11867Z' => 'bra', 'BraA04t17667Z' => 'bra', 'BraA07t29542Z' => 'bra', 'BraA08t35287Z' => 'bra', 'BraA09t37334Z' => 'bra', 'BraA10t44801Z' => 'bra', 'BraSC39t46181Z' => 'bra', 'C01p28240' => 'bna', 'C01p37530' => 'bna', 'C03p31820' => 'bna', 'C04p24080' => 'bna', 'C04p25790' => 'bna', 'C04p56770' => 'bna', 'C05p09310' => 'bna', 'C09p21010' => 'bna', 'C09p67560' => 'bna', 'CAN.G1324.7' => 'can', 'CAN.G1358.10' => 'can', 'CAN.G1550.2' => 'can', 'CAN.G186.56' => 'can', 'CAN.G1965.1' => 'can', 'CAN.G645.15' => 'can', 'CAN.G798.26' => 'can', 'CAN.G798.27' => 'can', 'CAN.G798.29' => 'can', 'CAN.G919.31' => 'can', 'CANSAT11G0133' => 'cansat', 'CANSAT11G1171' => 'cansat', 'CANSAT11G2056' => 'cansat', 'CANSAT56G1202' => 'cansat', 'CANSAT56G1514' => 'cansat', 'CANSAT78G0455' => 'cansat', 'CARHR011190' => 'chi', 'CARHR051980' => 'chi', 'CARHR120170' => 'chi', 'CARHR203310' => 'chi', 'CARHR221490' => 'chi', 'Carub.0001s1054' => 'cru', 'Carub.0002s0431' => 'cru', 'Carub.0004s0818' => 'cru', 'Carub.0006s0846' => 'cru', 'Carub.0007s2722' => 'cru', 'Ca_00058_v3' => 'car', 'Ca_17831_v3' => 'car', 'Ca_19408_v3' => 'car', 'Ca_24397_v3' => 'car', 'Ca_25664_v3' => 'car', 'CBR_g21818' => 'cbr', 'CBR_g31195' => 'cbr', 'CBR_g32282' => 'cbr', 'CBR_g39599' => 'cbr', 'CBR_g49410' => 'cbr', 'Cc01_g09120' => 'ccan', 'Cc01_g09130' => 'ccan', 'Cc02_g09630' => 'ccan', 'Cc02_g22810' => 'ccan', 'Cc03_g03810' => 'ccan', 'CDE02G3718' => 'cde', 'CDE04G3183' => 'cde', 'CDE07G1046' => 'cde', 'CDE08G0480' => 'cde', 'Cfa005493' => 'cfa', 'Cfa010312' => 'cfa', 'Cfa015648' => 'cfa', 'Ciclev10002793m.g' => 'ccl', 'Ciclev10003356m.g' => 'ccl', 'Ciclev10006141m.g' => 'ccl', 'Ciclev10016676m.g' => 'ccl', 'Ciclev10017081m.g' => 'ccl', 'Ciclev10029499m.g' => 'ccl', 'CiPaw.01G166300' => 'cil', 'CiPaw.06G145600' => 'cil', 'CiPaw.13G040100' => 'cil', 'CiPaw.13G135800' => 'cil', 'ClCG01G012230' => 'cla', 'ClCG05G009510' => 'cla', 'ClCG08G008270' => 'cla', 'COL.COLO4_11763' => 'col', 'COL.COLO4_19876' => 'col', 'COL.COLO4_21481' => 'col', 'Cpa.g.sc118.34' => 'cpa', 'Cpa.g.sc32.13' => 'cpa', 'Cpa.g.sc58.103' => 'cpa', 'Cre03.g183850' => 'cre', 'Cre06.g306350' => 'cre', 'Cre07.g334800' => 'cre', 'Cre12.g487900' => 'cre', 'Cre14.g626700' => 'cre', 'Cre16.g658400' => 'cre', 'Cre17.g700950' => 'cre', 'CsaV3_1G014830' => 'csa', 'CsaV3_3G013320' => 'csa', 'CsaV3_3G019210' => 'csa', 'CsaV3_3G019220' => 'csa', 'CsaV3_6G004230' => 'csa', 'CSS0003773' => 'camsi', 'CSS0004563' => 'camsi', 'CSS0013949' => 'camsi', 'CSS0025971' => 'camsi', 'CSS0028570' => 'camsi', 'CSS0033127' => 'camsi', 'CSS0036051' => 'camsi', 'CSS0040087' => 'camsi', 'CSS0043179' => 'camsi', 'DCAR_006161' => 'dca', 'DCAR_010351' => 'dca', 'DCAR_012197' => 'dca', 'DCAR_024162' => 'dca', 'Dinv01030' => 'din', 'Dinv10924' => 'din', 'Dinv11835' => 'din', 'Dinv22841' => 'din', 'Dinv42553' => 'din', 'Duzib052G0560' => 'dzi', 'Duzib132G0389' => 'dzi', 'Duzib150G1181' => 'dzi', 'Duzib168G0623' => 'dzi', 'Duzib170G1036' => 'dzi', 'Duzib212G0200' => 'dzi', 'Duzib248G0194' => 'dzi', 'ECA232G2193' => 'eca', 'ECA233G0302' => 'eca', 'ECA234G2813' => 'eca', 'ECA234G4866' => 'eca', 'ECA240G3932' => 'eca', 'ECA248G0385' => 'eca', 'EL10Ac2g04781' => 'bvu', 'EL10Ac3g06445' => 'bvu', 'EL10Ac7g15825' => 'bvu', 'EL10Ac8g18550' => 'bvu', 'Eucgr.B03849' => 'egr', 'Eucgr.I02744' => 'egr', 'Eucgr.J00264' => 'egr', 'Eucgr.J00493' => 'egr', 'FAN04G2181' => 'fan', 'FAN07G2666' => 'fan', 'FAN11G0024' => 'fan', 'FAN12G1105' => 'fan', 'FAN13G0302' => 'fan', 'FAN15G2781' => 'fan', 'FAN16G1274' => 'fan', 'FAN17G2988' => 'fan', 'FAN18G2621' => 'fan', 'FAN21G0013' => 'fan', 'FAN22G1211' => 'fan', 'FAN25G3626' => 'fan', 'FvH4_2g09491' => 'fve', 'FvH4_3g24910' => 'fve', 'FvH4_4g15630' => 'fve', 'FvH4_5g28820' => 'fve', 'Glyma.01G238000' => 'gma', 'Glyma.05G168400' => 'gma', 'Glyma.08G126800' => 'gma', 'Glyma.08G188500' => 'gma', 'Glyma.10G278900' => 'gma', 'Glyma.11G005700' => 'gma', 'Glyma.11G183300' => 'gma', 'Glyma.12G089200' => 'gma', 'Glyma.12G169400' => 'gma', 'Glyma.12G169500' => 'gma', 'Glyma.12G169600' => 'gma', 'Glyma.20G110800' => 'gma', 'Gohir.A03G192900' => 'ghi', 'Gohir.A03G193000' => 'ghi', 'Gohir.A05G080700' => 'ghi', 'Gohir.A09G216000' => 'ghi', 'Gohir.A12G027700' => 'ghi', 'Gohir.A13G036200' => 'ghi', 'Gohir.A13G222600' => 'ghi', 'Gohir.D02G213900' => 'ghi', 'Gohir.D02G214000' => 'ghi', 'Gohir.D05G083700' => 'ghi', 'Gohir.D05G083800' => 'ghi', 'Gohir.D05G083850' => 'ghi', 'Gohir.D08G015400' => 'ghi', 'Gohir.D09G218400' => 'ghi', 'Gohir.D12G027100' => 'ghi', 'Gohir.D13G034500' => 'ghi', 'Gohir.D13G227400' => 'ghi', 'Gorai.005G241800' => 'gra', 'Gorai.005G241900' => 'gra', 'Gorai.006G239400' => 'gra', 'Gorai.008G027600' => 'gra', 'Gorai.009G085400' => 'gra', 'Gorai.009G085500' => 'gra', 'Gorai.013G039000' => 'gra', 'Gorai.013G194800' => 'gra', 'Gorai.013G257900' => 'gra', 'GSVIVG01000982001' => 'vvi', 'GSVIVG01017981001' => 'vvi', 'HanXRQChr01g0024061' => 'han', 'HanXRQChr09g0247831' => 'han', 'HanXRQChr10g0294611' => 'han', 'HanXRQChr10g0294621' => 'han', 'HanXRQChr11g0346821' => 'han', 'HanXRQChr13g0397461' => 'han', 'HanXRQChr16g0513651' => 'han', 'HanXRQChr16g0513701' => 'han', 'Haze_00897' => 'cav', 'Haze_01745' => 'cav', 'Haze_02486' => 'cav', 'Haze_02487' => 'cav', 'Haze_23374' => 'cav', 'Hma1.2p1_0578F.1_g182520' => 'hma', 'Hma1.2p1_0602F.1_g187350' => 'hma', 'Hma1.2p1_0602F.1_g187360' => 'hma', 'Hma1.2p1_0874F.1_g231320' => 'hma', 'Hma1.2p1_1197F.1_g266210' => 'hma', 'Hma1.2p1_1197F.1_g266220' => 'hma', 'Hma1.2p1_2167F.1_g315895' => 'hma', 'Hma1.2p1_2190F.1_g316640' => 'hma', 'Hma1.2p1_3645F.1_g337153' => 'hma', 'HPP92_004907' => 'vpl', 'HPP92_012134' => 'vpl', 'HPP92_025136' => 'vpl', 'HPP92_026087' => 'vpl', 'Hund06782' => 'sun', 'Hund06784' => 'sun', 'Lalb_Chr01g0004861' => 'lal', 'Lalb_Chr02g0140591' => 'lal', 'Lalb_Chr02g0140611' => 'lal', 'Lalb_Chr03g0028101' => 'lal', 'Lalb_Chr07g0185791' => 'lal', 'Lalb_Chr12g0204491' => 'lal', 'Lalb_Chr13g0295671' => 'lal', 'Lalb_Chr19g0136461' => 'lal', 'Lalb_Chr21g0309191' => 'lal', 'Lj1g0028158' => 'lja', 'Lj1P236T38' => 'lonja', 'Lj2C32G2' => 'lonja', 'Lj2P944T8' => 'lonja', 'Lj2P963T15' => 'lonja', 'Lj3g0011788' => 'lja', 'Lj4g0025027' => 'lja', 'Lj5P255T36' => 'lonja', 'Lj6g0018866' => 'lja', 'Lj6P608T31' => 'lonja', 'LjContig00408g0008879' => 'lja', 'Lsat_1_v5_gn_5_105820' => 'lsa', 'Lsat_1_v5_gn_6_38800' => 'lsa', 'Lsat_1_v5_gn_7_67141' => 'lsa', 'Manes.04G003400' => 'mes', 'Manes.07G020000' => 'mes', 'Manes.07G020100' => 'mes', 'Manes.07G020150' => 'mes', 'Manes.10G061500' => 'mes', 'Manes.10G123200' => 'mes', 'Manes.11G161900' => 'mes', 'Manes.15G029300' => 'mes', 'Mapoly0071s0018' => 'mpo', 'Mapoly0082s0023' => 'mpo', 'Mapoly3477s0001' => 'mpo', 'MBI05_g31233_MAGBIO' => 'mbi', 'MBI09_g05946_MAGBIO' => 'mbi', 'MBI09_g05947_MAGBIO' => 'mbi', 'MBI17_g08346_MAGBIO' => 'mbi', 'MCO04G038' => 'mco', 'MCO09G370' => 'mco', 'MCO13G605' => 'mco', 'MD00G1075500' => 'mdo', 'MD03G1144300' => 'mdo', 'MD08G1236800' => 'mdo', 'MD13G1193300' => 'mdo', 'MD15G1428700' => 'mdo', 'Medtr1g112030' => 'mtr', 'Medtr1g112050' => 'mtr', 'Medtr2g006290' => 'mtr', 'Medtr2g086510' => 'mtr', 'Medtr4g053120' => 'mtr', 'Medtr5g006320' => 'mtr', 'Medtr8g088720' => 'mtr', 'MELO3C004712.2' => 'cme', 'MELO3C006533.2' => 'cme', 'MELO3C019438.2' => 'cme', 'MELO3C019440.2' => 'cme', 'MELO3C019441.2' => 'cme', 'MELO3C019895.2' => 'cme', 'Migut.B00811' => 'egut', 'Migut.D02447' => 'egut', 'Migut.F00875' => 'egut', 'Migut.N00186' => 'egut', 'Migut.N01051' => 'egut', 'Migut.N02491' => 'egut', 'Migut.O00784' => 'egut', 'MSTRG.12367' => 'ama', 'MSTRG.18756' => 'ama', 'MSTRG.21042' => 'ama', 'Nitab4.5_0000559g0040' => 'nta', 'Nitab4.5_0000667g0190' => 'nta', 'Nitab4.5_0000755g0160' => 'nta', 'Nitab4.5_0001216g0080' => 'nta', 'Nitab4.5_0004069g0040' => 'nta', 'Nitab4.5_0004129g0010' => 'nta', 'Nitab4.5_0005744g0030' => 'nta', 'Nitab4.5_0006996g0030' => 'nta', 'Nitab4.5_0008971g0040' => 'nta', 'Nitab4.5_0009769g0020' => 'nta', 'Nitab4.5_0009833g0010' => 'nta', 'Nitab4.5_0013140g0020' => 'nta', 'Nn003s41376' => 'nnu', 'Nn1g01857' => 'nnu', 'Nn1g03611' => 'nnu', 'Nn1g06853' => 'nnu', 'Nn3g18360' => 'nnu', 'Nn4g26328' => 'nnu', 'Nn5g27531' => 'nnu', 'Nn6g34899' => 'nnu', 'Nn7g36299' => 'nnu', 'Oeu021485.1' => 'oeu', 'Oeu022433.1' => 'oeu', 'Oeu032111.1' => 'oeu', 'Oeu051608.1' => 'oeu', 'Os01g0860601' => 'osa', 'Os03g0659200' => 'osa', 'Os03g0835900' => 'osa', 'Os04g0412200' => 'osa', 'Os05g0443500' => 'osa', 'Os07g0251500' => 'osa', 'Os08g0104600' => 'osa', 'Peaxi162Scf00003g00047' => 'pax', 'Peaxi162Scf00003g00052' => 'pax', 'Peaxi162Scf00003g00394' => 'pax', 'Peaxi162Scf00091g00621' => 'pax', 'Peaxi162Scf00152g00146' => 'pax', 'Peaxi162Scf00173g00025' => 'pax', 'Peaxi162Scf00195g00102' => 'pax', 'Peaxi162Scf00402g00013' => 'pax', 'Peaxi162Scf00519g00618' => 'pax', 'PGR004G2838' => 'pgr', 'PGR044G2275' => 'pgr', 'PGR102G1377' => 'pgr', 'PGR119G1245' => 'pgr', 'PGR142G4449' => 'pgr', 'PGSC0003DMG400004532' => 'stu', 'PGSC0003DMG400011950' => 'stu', 'PGSC0003DMG400023391' => 'stu', 'PGSC0003DMG400023985' => 'stu', 'PGSC0003DMG400026360' => 'stu', 'PGSC0003DMG400035711' => 'stu', 'PGSC0003DMG400037286' => 'stu', 'PGSC0003DMG402005881' => 'stu', 'Phvul.002G045400' => 'pvu', 'Phvul.006G216600' => 'pvu', 'Phvul.006G216700' => 'pvu', 'Phvul.006G216800' => 'pvu', 'Phvul.007G022500' => 'pvu', 'Phvul.011G094400' => 'pvu', 'Potri.001G470700' => 'ptr', 'Potri.003G015200' => 'ptr', 'Potri.004G202500' => 'ptr', 'Potri.004G218400' => 'ptr', 'Potri.008G020100' => 'ptr', 'Potri.008G153200' => 'ptr', 'Potri.009G163800' => 'ptr', 'Potri.010G087300' => 'ptr', 'Potri.010G239100' => 'ptr', 'Pp3c10_16100' => 'ppa', 'Pp3c10_16880' => 'ppa', 'Pp3c16_6230' => 'ppa', 'Pp3c17_18910' => 'ppa', 'Pp3c3_22119' => 'ppa', 'Pp3c3_22140' => 'ppa', 'Pp3c4_8159' => 'ppa', 'Pp3c4_8171' => 'ppa', 'Pp3c4_8330' => 'ppa', 'PRCOL_00004098' => 'pco', 'Prupe.1G013900' => 'ppe', 'Prupe.1G226300' => 'ppe', 'Prupe.1G573600' => 'ppe', 'Prupe.6G130100' => 'ppe', 'Psat3g090040' => 'psa', 'Psat4g210440' => 'psa', 'Psat6g231040' => 'psa', 'Psat6g231080' => 'psa', 'Psat7g063000' => 'psa', 'Psat7g188000' => 'psa', 'Psat7g188040' => 'psa', 'PSO017G0206' => 'pso', 'PSO170G0501' => 'pso', 'PSO170G6422' => 'pso', 'PSO210G7739' => 'pso', 'PSO339G1808' => 'pso', 'PSO339G6135' => 'pso', 'PSO384G0010' => 'pso', 'PSO384G0964' => 'pso', 'PSO761G0050' => 'pso', 'PSO782G4085' => 'pso', 'QL01p012264' => 'qlo', 'QL02p099491' => 'qlo', 'QL03p033868' => 'qlo', 'QL04p046678' => 'qlo', 'QL06p002448' => 'qlo', 'RcHm_v2.0_Chr4g0416181' => 'rch', 'RcHm_v2.0_Chr5g0044701' => 'rch', 'RcHm_v2.0_Chr6g0265781' => 'rch', 'RcHm_v2.0_Chr7g0221031' => 'rch', 'Rhsim04G0202000' => 'rsi', 'Rhsim11G0127300' => 'rsi', 'Rhsim13G0111800' => 'rsi', 'Sabra01G0165600' => 'sbr', 'Sabra03G0008300' => 'sbr', 'Sabra04G0136900' => 'sbr', 'Sabra08G0013400' => 'sbr', 'Sabra08G0116800' => 'sbr', 'Sabra09G0128000' => 'sbr', 'Sabra10G0055500' => 'sbr', 'Sabra10G0073300' => 'sbr', 'SalBow3G0385' => 'sbo', 'SalBow3G1119' => 'sbo', 'SalBow3G2005' => 'sbo', 'SalBow6G2563' => 'sbo', 'SalBow6G6386' => 'sbo', 'Sc06g0008800' => 'sci', 'Sc07g0004950' => 'sci', 'Sc09g0005340' => 'sci', 'Sc13g0004410' => 'sci', 'Sc21g0007090' => 'sci', 'Sed0009285' => 'sed', 'Sed0017583' => 'sed', 'Sed0019699' => 'sed', 'Sed0023107' => 'sed', 'SEGI_10916' => 'sgi', 'SEGI_16217' => 'sgi', 'SEGI_19466' => 'sgi', 'SEGI_41115' => 'sgi', 'SGA_v2.0_scaffold111G31534' => 'sas', 'SGA_v2.0_scaffold22G09864' => 'sas', 'SGA_v2.0_scaffold338G49219' => 'sas', 'SGA_v2.0_scaffold92G28298' => 'sas', 'SMO119G0064' => 'smo', 'SMO223G0038' => 'smo', 'SMO347G0584' => 'smo', 'SMO351G0010' => 'smo', 'SMO356G0404' => 'smo', 'Solyc01g103920.3' => 'sly', 'Solyc04g009710.2' => 'sly', 'Solyc05g055280.2' => 'sly', 'Solyc10g044520.3' => 'sly', 'Solyc10g075160.1' => 'sly', 'Solyc11g006910.3' => 'sly', 'Solyc11g068430.3' => 'sly', 'Sopen01g046310' => 'spe', 'Sopen03g001200' => 'spe', 'Sopen04g004830' => 'spe', 'Sopen05g033720' => 'spe', 'Sopen06g030740' => 'spe', 'Sopen10g013090' => 'spe', 'Sopen10g027630' => 'spe', 'Sopen10g027640' => 'spe', 'Sopen11g002820' => 'spe', 'Sopen11g027140' => 'spe', 'Sp1g09680' => 'spa', 'Sp2g03630' => 'spa', 'Sp4g10320' => 'spa', 'Sp6g33400' => 'spa', 'Sp7g13030' => 'spa', 'TAR365G0317' => 'tar', 'TAR376G0979' => 'tar', 'TAR623G1665' => 'tar', 'TAR633G2373' => 'tar', 'TAR636G1400' => 'tar', 'THA.LOC104800529' => 'tha', 'THA.LOC104808547' => 'tha', 'THA.LOC104809615' => 'tha', 'THA.LOC104815724' => 'tha', 'THA.LOC104818480' => 'tha', 'THA.LOC104819179' => 'tha', 'THA.LOC104822270' => 'tha', 'THA.LOC104826425' => 'tha', 'Thecc.02G089700' => 'tca', 'Thecc.04G232300' => 'tca', 'Thecc.09G283400' => 'tca', 'Thhalv10009020m.g' => 'esa', 'Thhalv10015506m.g' => 'esa', 'Thhalv10017364m.g' => 'esa', 'Thhalv10023742m.g' => 'esa', 'Thhalv10026483m.g' => 'esa', 'TPR.G17232' => 'tpr', 'TPR.G2133' => 'tpr', 'TPR.G2498' => 'tpr', 'TPR.G31942' => 'tpr', 'TPR.G37877' => 'tpr', 'TPR.G4571' => 'tpr', 'TWI14G1113' => 'twi', 'TWI15G0426' => 'twi', 'TWI31G1005' => 'twi', 'TWI38G0513' => 'twi', 'TWI38G1484' => 'twi', 'TWI73G1098' => 'twi', 'unitig_26.g10519' => 'ugi', 'unitig_736.g22395' => 'ugi', 'unitig_747.g21234' => 'ugi', 'unitig_747.g21942' => 'ugi', 'vmacro14351' => 'vma', 'VMungo0540G0082' => 'vmu', 'VMungo0540G0405' => 'vmu', 'VMungo0540G1486' => 'vmu', 'VMungo0540G1692' => 'vmu', 'VMungo0720G2473' => 'vmu', 'VMungo1127G1562' => 'vmu', 'VMungo1215G1918' => 'vmu', 'Zm00001eb052650' => 'zma', 'Zm00001eb063710' => 'zma', 'Zm00001eb083950' => 'zma', 'Zm00001eb174420' => 'zma', 'Zm00001eb260140' => 'zma', 'Zm00001eb260150' => 'zma', 'Zm00001eb260160' => 'zma', 'Zm00001eb348290' => 'zma', 'Zm00001eb366870' => 'zma', 'Zm00001eb421930' => 'zma' ) $gf_id = 'HOM05D001025' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001025' ) $data_identifier = 'HOM05D001025' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 19, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 2, 'amhyb' => (int) 4, 'aly' => (int) 4, 'aox' => (int) 4, 'arhy' => (int) 3, 'ath' => (int) 5, 'atr' => (int) 4, 'acertr' => (int) 3, 'cqu' => (int) 7, 'bca' => (int) 17, 'bol' => (int) 10, 'bra' => (int) 9, 'can' => (int) 10, 'cansat' => (int) 6, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 5, 'cbr' => (int) 5, 'ccan' => (int) 5, 'cde' => (int) 4, 'cfa' => (int) 3, 'ccl' => (int) 6, 'cil' => (int) 4, 'cla' => (int) 3, 'col' => (int) 3, 'cpa' => (int) 3, 'cre' => (int) 7, 'csa' => (int) 5, 'camsi' => (int) 9, 'dca' => (int) 4, 'din' => (int) 5, 'dzi' => (int) 7, 'eca' => (int) 6, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 12, 'fve' => (int) 4, 'gma' => (int) 12, 'ghi' => (int) 17, 'gra' => (int) 9, 'vvi' => (int) 2, 'han' => (int) 8, 'cav' => (int) 5, 'hma' => (int) 9, 'vpl' => (int) 4, 'sun' => (int) 2, 'lal' => (int) 9, 'lja' => (int) 5, 'lonja' => (int) 6, 'lsa' => (int) 3, 'mes' => (int) 8, 'mpo' => (int) 3, 'mbi' => (int) 4, 'mco' => (int) 3, 'mdo' => (int) 5, 'mtr' => (int) 7, 'cme' => (int) 6, 'egut' => (int) 7, 'ama' => (int) 3, 'nta' => (int) 12, 'nnu' => (int) 9, 'oeu' => (int) 4, 'osa' => (int) 7, 'pax' => (int) 9, 'pgr' => (int) 5, 'stu' => (int) 8, 'pvu' => (int) 6, 'ptr' => (int) 9, 'ppa' => (int) 9, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 7, 'pso' => (int) 10, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 3, 'sbr' => (int) 8, 'sbo' => (int) 5, 'sci' => (int) 5, 'sed' => (int) 4, 'sgi' => (int) 4, 'sas' => (int) 4, 'smo' => (int) 5, 'sly' => (int) 7, 'spe' => (int) 10, 'spa' => (int) 5, 'tar' => (int) 5, 'tha' => (int) 8, 'tca' => (int) 3, 'esa' => (int) 5, 'tpr' => (int) 6, 'twi' => (int) 6, 'ugi' => (int) 4, 'vma' => (int) 1, 'vmu' => (int) 7, 'zma' => (int) 10 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb421930' $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' => 'HOM05D001025', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '592', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p22650' => 'bna', 'A01p29720' => 'bna', 'A03p26560' => 'bna', 'A03p68820' => 'bna', 'A04p20980' => 'bna', 'A06p07730' => 'bna', 'A07p18260' => 'bna', 'A08p33710' => 'bna', 'A09p16970' => 'bna', 'A10p27490' => 'bna', 'Aa31LG1G17300' => 'aar', 'Aa31LG1G3910' => 'aar', 'Aa31LG2G9630' => 'aar', 'Aa31LG5G8360' => 'aar', 'Aa31LG9G2410' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4699' => 'aag', 'Actinidia23512' => 'ach', 'Actinidia37080' => 'ach', 'Ah.01g020380' => 'amhyb', 'Ah.08g215710' => 'amhyb', 'Ah.09g225110' => 'amhyb', 'Ah.10g036680' => 'amhyb', 'AL1G21940' => 'aly', 'AL2G15540' => 'aly', 'AL4G21520' => 'aly', 'AL7G40960' => 'aly', 'Aqoxy2G01191' => 'aox', 'Aqoxy2G03393' => 'aox', 'Aqoxy4G02775' => 'aox', 'Aqoxy6G00058' => 'aox', 'arahy.Tifrunner.gnm1.ann1.9X74H2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CW3FX9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R485W7' => 'arhy', 'AT1G10960' => 'ath', 'AT1G60950' => 'ath', 'AT2G27510' => 'ath', 'AT4G14890' => 'ath', 'AT5G10000' => 'ath', 'ATR0665G624' => 'atr', 'ATR0697G138' => 'atr', 'ATR0776G046' => 'atr', 'ATR1134G135' => 'atr', 'Atru.chr12.1025' => 'acertr', 'Atru.chr3.3241' => 'acertr', 'Atru.chr4.2460' => 'acertr', 'AUR62007427' => 'cqu', 'AUR62010960' => 'cqu', 'AUR62012201' => 'cqu', 'AUR62021470' => 'cqu', 'AUR62022834' => 'cqu', 'AUR62033635' => 'cqu', 'AUR62036186' => 'cqu', 'BcaB01g03077' => 'bca', 'BcaB02g10093' => 'bca', 'BcaB04g20295' => 'bca', 'BcaB06g28147' => 'bca', 'BcaB07g31253' => 'bca', 'BcaC01g04946' => 'bca', 'BcaC02g10614' => 'bca', 'BcaC02g10885' => 'bca', 'BcaC04g19356' => 'bca', 'BcaC04g22297' => 'bca', 'BcaC05g24977' => 'bca', 'BcaC06g31823' => 'bca', 'BcaC07g38633' => 'bca', 'BcaC09g49353' => 'bca', 'BcaC09g50168' => 'bca', 'BcaNung00322' => 'bca', 'BcaNung04769' => 'bca', 'BolC1t02753H' => 'bol', 'BolC1t03721H' => 'bol', 'BolC3t15525H' => 'bol', 'BolC4t23903H' => 'bol', 'BolC4t24231H' => 'bol', 'BolC4t27209H' => 'bol', 'BolC5t29671H' => 'bol', 'BolC8t49044H' => 'bol', 'BolC9t54999H' => 'bol', 'BolC9t59517H' => 'bol', 'BraA01t02178Z' => 'bra', 'BraA01t03099Z' => 'bra', 'BraA03t11867Z' => 'bra', 'BraA04t17667Z' => 'bra', 'BraA07t29542Z' => 'bra', 'BraA08t35287Z' => 'bra', 'BraA09t37334Z' => 'bra', 'BraA10t44801Z' => 'bra', 'BraSC39t46181Z' => 'bra', 'C01p28240' => 'bna', 'C01p37530' => 'bna', 'C03p31820' => 'bna', 'C04p24080' => 'bna', 'C04p25790' => 'bna', 'C04p56770' => 'bna', 'C05p09310' => 'bna', 'C09p21010' => 'bna', 'C09p67560' => 'bna', 'CAN.G1324.7' => 'can', 'CAN.G1358.10' => 'can', 'CAN.G1550.2' => 'can', 'CAN.G186.56' => 'can', 'CAN.G1965.1' => 'can', 'CAN.G645.15' => 'can', 'CAN.G798.26' => 'can', 'CAN.G798.27' => 'can', 'CAN.G798.29' => 'can', 'CAN.G919.31' => 'can', 'CANSAT11G0133' => 'cansat', 'CANSAT11G1171' => 'cansat', 'CANSAT11G2056' => 'cansat', 'CANSAT56G1202' => 'cansat', 'CANSAT56G1514' => 'cansat', 'CANSAT78G0455' => 'cansat', 'CARHR011190' => 'chi', 'CARHR051980' => 'chi', 'CARHR120170' => 'chi', 'CARHR203310' => 'chi', 'CARHR221490' => 'chi', 'Carub.0001s1054' => 'cru', 'Carub.0002s0431' => 'cru', 'Carub.0004s0818' => 'cru', 'Carub.0006s0846' => 'cru', 'Carub.0007s2722' => 'cru', 'Ca_00058_v3' => 'car', 'Ca_17831_v3' => 'car', 'Ca_19408_v3' => 'car', 'Ca_24397_v3' => 'car', 'Ca_25664_v3' => 'car', 'CBR_g21818' => 'cbr', 'CBR_g31195' => 'cbr', 'CBR_g32282' => 'cbr', 'CBR_g39599' => 'cbr', 'CBR_g49410' => 'cbr', 'Cc01_g09120' => 'ccan', 'Cc01_g09130' => 'ccan', 'Cc02_g09630' => 'ccan', 'Cc02_g22810' => 'ccan', 'Cc03_g03810' => 'ccan', 'CDE02G3718' => 'cde', 'CDE04G3183' => 'cde', 'CDE07G1046' => 'cde', 'CDE08G0480' => 'cde', 'Cfa005493' => 'cfa', 'Cfa010312' => 'cfa', 'Cfa015648' => 'cfa', 'Ciclev10002793m.g' => 'ccl', 'Ciclev10003356m.g' => 'ccl', 'Ciclev10006141m.g' => 'ccl', 'Ciclev10016676m.g' => 'ccl', 'Ciclev10017081m.g' => 'ccl', 'Ciclev10029499m.g' => 'ccl', 'CiPaw.01G166300' => 'cil', 'CiPaw.06G145600' => 'cil', 'CiPaw.13G040100' => 'cil', 'CiPaw.13G135800' => 'cil', 'ClCG01G012230' => 'cla', 'ClCG05G009510' => 'cla', 'ClCG08G008270' => 'cla', 'COL.COLO4_11763' => 'col', 'COL.COLO4_19876' => 'col', 'COL.COLO4_21481' => 'col', 'Cpa.g.sc118.34' => 'cpa', 'Cpa.g.sc32.13' => 'cpa', 'Cpa.g.sc58.103' => 'cpa', 'Cre03.g183850' => 'cre', 'Cre06.g306350' => 'cre', 'Cre07.g334800' => 'cre', 'Cre12.g487900' => 'cre', 'Cre14.g626700' => 'cre', 'Cre16.g658400' => 'cre', 'Cre17.g700950' => 'cre', 'CsaV3_1G014830' => 'csa', 'CsaV3_3G013320' => 'csa', 'CsaV3_3G019210' => 'csa', 'CsaV3_3G019220' => 'csa', 'CsaV3_6G004230' => 'csa', 'CSS0003773' => 'camsi', 'CSS0004563' => 'camsi', 'CSS0013949' => 'camsi', 'CSS0025971' => 'camsi', 'CSS0028570' => 'camsi', 'CSS0033127' => 'camsi', 'CSS0036051' => 'camsi', 'CSS0040087' => 'camsi', 'CSS0043179' => 'camsi', 'DCAR_006161' => 'dca', 'DCAR_010351' => 'dca', 'DCAR_012197' => 'dca', 'DCAR_024162' => 'dca', 'Dinv01030' => 'din', 'Dinv10924' => 'din', 'Dinv11835' => 'din', 'Dinv22841' => 'din', 'Dinv42553' => 'din', 'Duzib052G0560' => 'dzi', 'Duzib132G0389' => 'dzi', 'Duzib150G1181' => 'dzi', 'Duzib168G0623' => 'dzi', 'Duzib170G1036' => 'dzi', 'Duzib212G0200' => 'dzi', 'Duzib248G0194' => 'dzi', 'ECA232G2193' => 'eca', 'ECA233G0302' => 'eca', 'ECA234G2813' => 'eca', 'ECA234G4866' => 'eca', 'ECA240G3932' => 'eca', 'ECA248G0385' => 'eca', 'EL10Ac2g04781' => 'bvu', 'EL10Ac3g06445' => 'bvu', 'EL10Ac7g15825' => 'bvu', 'EL10Ac8g18550' => 'bvu', 'Eucgr.B03849' => 'egr', 'Eucgr.I02744' => 'egr', 'Eucgr.J00264' => 'egr', 'Eucgr.J00493' => 'egr', 'FAN04G2181' => 'fan', 'FAN07G2666' => 'fan', 'FAN11G0024' => 'fan', 'FAN12G1105' => 'fan', 'FAN13G0302' => 'fan', 'FAN15G2781' => 'fan', 'FAN16G1274' => 'fan', 'FAN17G2988' => 'fan', 'FAN18G2621' => 'fan', 'FAN21G0013' => 'fan', 'FAN22G1211' => 'fan', 'FAN25G3626' => 'fan', 'FvH4_2g09491' => 'fve', 'FvH4_3g24910' => 'fve', 'FvH4_4g15630' => 'fve', 'FvH4_5g28820' => 'fve', 'Glyma.01G238000' => 'gma', 'Glyma.05G168400' => 'gma', 'Glyma.08G126800' => 'gma', 'Glyma.08G188500' => 'gma', 'Glyma.10G278900' => 'gma', 'Glyma.11G005700' => 'gma', 'Glyma.11G183300' => 'gma', 'Glyma.12G089200' => 'gma', 'Glyma.12G169400' => 'gma', 'Glyma.12G169500' => 'gma', 'Glyma.12G169600' => 'gma', 'Glyma.20G110800' => 'gma', 'Gohir.A03G192900' => 'ghi', 'Gohir.A03G193000' => 'ghi', 'Gohir.A05G080700' => 'ghi', 'Gohir.A09G216000' => 'ghi', 'Gohir.A12G027700' => 'ghi', 'Gohir.A13G036200' => 'ghi', 'Gohir.A13G222600' => 'ghi', 'Gohir.D02G213900' => 'ghi', 'Gohir.D02G214000' => 'ghi', 'Gohir.D05G083700' => 'ghi', 'Gohir.D05G083800' => 'ghi', 'Gohir.D05G083850' => 'ghi', 'Gohir.D08G015400' => 'ghi', 'Gohir.D09G218400' => 'ghi', 'Gohir.D12G027100' => 'ghi', 'Gohir.D13G034500' => 'ghi', 'Gohir.D13G227400' => 'ghi', 'Gorai.005G241800' => 'gra', 'Gorai.005G241900' => 'gra', 'Gorai.006G239400' => 'gra', 'Gorai.008G027600' => 'gra', 'Gorai.009G085400' => 'gra', 'Gorai.009G085500' => 'gra', 'Gorai.013G039000' => 'gra', 'Gorai.013G194800' => 'gra', 'Gorai.013G257900' => 'gra', 'GSVIVG01000982001' => 'vvi', 'GSVIVG01017981001' => 'vvi', 'HanXRQChr01g0024061' => 'han', 'HanXRQChr09g0247831' => 'han', 'HanXRQChr10g0294611' => 'han', 'HanXRQChr10g0294621' => 'han', 'HanXRQChr11g0346821' => 'han', 'HanXRQChr13g0397461' => 'han', 'HanXRQChr16g0513651' => 'han', 'HanXRQChr16g0513701' => 'han', 'Haze_00897' => 'cav', 'Haze_01745' => 'cav', 'Haze_02486' => 'cav', 'Haze_02487' => 'cav', 'Haze_23374' => 'cav', 'Hma1.2p1_0578F.1_g182520' => 'hma', 'Hma1.2p1_0602F.1_g187350' => 'hma', 'Hma1.2p1_0602F.1_g187360' => 'hma', 'Hma1.2p1_0874F.1_g231320' => 'hma', 'Hma1.2p1_1197F.1_g266210' => 'hma', 'Hma1.2p1_1197F.1_g266220' => 'hma', 'Hma1.2p1_2167F.1_g315895' => 'hma', 'Hma1.2p1_2190F.1_g316640' => 'hma', 'Hma1.2p1_3645F.1_g337153' => 'hma', 'HPP92_004907' => 'vpl', 'HPP92_012134' => 'vpl', 'HPP92_025136' => 'vpl', 'HPP92_026087' => 'vpl', 'Hund06782' => 'sun', 'Hund06784' => 'sun', 'Lalb_Chr01g0004861' => 'lal', 'Lalb_Chr02g0140591' => 'lal', 'Lalb_Chr02g0140611' => 'lal', 'Lalb_Chr03g0028101' => 'lal', 'Lalb_Chr07g0185791' => 'lal', 'Lalb_Chr12g0204491' => 'lal', 'Lalb_Chr13g0295671' => 'lal', 'Lalb_Chr19g0136461' => 'lal', 'Lalb_Chr21g0309191' => 'lal', 'Lj1g0028158' => 'lja', 'Lj1P236T38' => 'lonja', 'Lj2C32G2' => 'lonja', 'Lj2P944T8' => 'lonja', 'Lj2P963T15' => 'lonja', 'Lj3g0011788' => 'lja', 'Lj4g0025027' => 'lja', 'Lj5P255T36' => 'lonja', 'Lj6g0018866' => 'lja', 'Lj6P608T31' => 'lonja', 'LjContig00408g0008879' => 'lja', 'Lsat_1_v5_gn_5_105820' => 'lsa', 'Lsat_1_v5_gn_6_38800' => 'lsa', 'Lsat_1_v5_gn_7_67141' => 'lsa', 'Manes.04G003400' => 'mes', 'Manes.07G020000' => 'mes', 'Manes.07G020100' => 'mes', 'Manes.07G020150' => 'mes', 'Manes.10G061500' => 'mes', 'Manes.10G123200' => 'mes', 'Manes.11G161900' => 'mes', 'Manes.15G029300' => 'mes', 'Mapoly0071s0018' => 'mpo', 'Mapoly0082s0023' => 'mpo', 'Mapoly3477s0001' => 'mpo', 'MBI05_g31233_MAGBIO' => 'mbi', 'MBI09_g05946_MAGBIO' => 'mbi', 'MBI09_g05947_MAGBIO' => 'mbi', 'MBI17_g08346_MAGBIO' => 'mbi', 'MCO04G038' => 'mco', 'MCO09G370' => 'mco', 'MCO13G605' => 'mco', 'MD00G1075500' => 'mdo', 'MD03G1144300' => 'mdo', 'MD08G1236800' => 'mdo', 'MD13G1193300' => 'mdo', 'MD15G1428700' => 'mdo', 'Medtr1g112030' => 'mtr', 'Medtr1g112050' => 'mtr', 'Medtr2g006290' => 'mtr', 'Medtr2g086510' => 'mtr', 'Medtr4g053120' => 'mtr', 'Medtr5g006320' => 'mtr', 'Medtr8g088720' => 'mtr', 'MELO3C004712.2' => 'cme', 'MELO3C006533.2' => 'cme', 'MELO3C019438.2' => 'cme', 'MELO3C019440.2' => 'cme', 'MELO3C019441.2' => 'cme', 'MELO3C019895.2' => 'cme', 'Migut.B00811' => 'egut', 'Migut.D02447' => 'egut', 'Migut.F00875' => 'egut', 'Migut.N00186' => 'egut', 'Migut.N01051' => 'egut', 'Migut.N02491' => 'egut', 'Migut.O00784' => 'egut', 'MSTRG.12367' => 'ama', 'MSTRG.18756' => 'ama', 'MSTRG.21042' => 'ama', 'Nitab4.5_0000559g0040' => 'nta', 'Nitab4.5_0000667g0190' => 'nta', 'Nitab4.5_0000755g0160' => 'nta', 'Nitab4.5_0001216g0080' => 'nta', 'Nitab4.5_0004069g0040' => 'nta', 'Nitab4.5_0004129g0010' => 'nta', 'Nitab4.5_0005744g0030' => 'nta', 'Nitab4.5_0006996g0030' => 'nta', 'Nitab4.5_0008971g0040' => 'nta', 'Nitab4.5_0009769g0020' => 'nta', 'Nitab4.5_0009833g0010' => 'nta', 'Nitab4.5_0013140g0020' => 'nta', 'Nn003s41376' => 'nnu', 'Nn1g01857' => 'nnu', 'Nn1g03611' => 'nnu', 'Nn1g06853' => 'nnu', 'Nn3g18360' => 'nnu', 'Nn4g26328' => 'nnu', 'Nn5g27531' => 'nnu', 'Nn6g34899' => 'nnu', 'Nn7g36299' => 'nnu', 'Oeu021485.1' => 'oeu', 'Oeu022433.1' => 'oeu', 'Oeu032111.1' => 'oeu', 'Oeu051608.1' => 'oeu', 'Os01g0860601' => 'osa', 'Os03g0659200' => 'osa', 'Os03g0835900' => 'osa', 'Os04g0412200' => 'osa', 'Os05g0443500' => 'osa', 'Os07g0251500' => 'osa', 'Os08g0104600' => 'osa', 'Peaxi162Scf00003g00047' => 'pax', 'Peaxi162Scf00003g00052' => 'pax', 'Peaxi162Scf00003g00394' => 'pax', 'Peaxi162Scf00091g00621' => 'pax', 'Peaxi162Scf00152g00146' => 'pax', 'Peaxi162Scf00173g00025' => 'pax', 'Peaxi162Scf00195g00102' => 'pax', 'Peaxi162Scf00402g00013' => 'pax', 'Peaxi162Scf00519g00618' => 'pax', 'PGR004G2838' => 'pgr', 'PGR044G2275' => 'pgr', 'PGR102G1377' => 'pgr', 'PGR119G1245' => 'pgr', 'PGR142G4449' => 'pgr', 'PGSC0003DMG400004532' => 'stu', 'PGSC0003DMG400011950' => 'stu', 'PGSC0003DMG400023391' => 'stu', 'PGSC0003DMG400023985' => 'stu', 'PGSC0003DMG400026360' => 'stu', 'PGSC0003DMG400035711' => 'stu', 'PGSC0003DMG400037286' => 'stu', 'PGSC0003DMG402005881' => 'stu', 'Phvul.002G045400' => 'pvu', 'Phvul.006G216600' => 'pvu', 'Phvul.006G216700' => 'pvu', 'Phvul.006G216800' => 'pvu', 'Phvul.007G022500' => 'pvu', 'Phvul.011G094400' => 'pvu', 'Potri.001G470700' => 'ptr', 'Potri.003G015200' => 'ptr', 'Potri.004G202500' => 'ptr', 'Potri.004G218400' => 'ptr', 'Potri.008G020100' => 'ptr', 'Potri.008G153200' => 'ptr', 'Potri.009G163800' => 'ptr', 'Potri.010G087300' => 'ptr', 'Potri.010G239100' => 'ptr', 'Pp3c10_16100' => 'ppa', 'Pp3c10_16880' => 'ppa', 'Pp3c16_6230' => 'ppa', 'Pp3c17_18910' => 'ppa', 'Pp3c3_22119' => 'ppa', 'Pp3c3_22140' => 'ppa', 'Pp3c4_8159' => 'ppa', 'Pp3c4_8171' => 'ppa', 'Pp3c4_8330' => 'ppa', 'PRCOL_00004098' => 'pco', 'Prupe.1G013900' => 'ppe', 'Prupe.1G226300' => 'ppe', 'Prupe.1G573600' => 'ppe', 'Prupe.6G130100' => 'ppe', 'Psat3g090040' => 'psa', 'Psat4g210440' => 'psa', 'Psat6g231040' => 'psa', 'Psat6g231080' => 'psa', 'Psat7g063000' => 'psa', 'Psat7g188000' => 'psa', 'Psat7g188040' => 'psa', 'PSO017G0206' => 'pso', 'PSO170G0501' => 'pso', 'PSO170G6422' => 'pso', 'PSO210G7739' => 'pso', 'PSO339G1808' => 'pso', 'PSO339G6135' => 'pso', 'PSO384G0010' => 'pso', 'PSO384G0964' => 'pso', 'PSO761G0050' => 'pso', 'PSO782G4085' => 'pso', 'QL01p012264' => 'qlo', 'QL02p099491' => 'qlo', 'QL03p033868' => 'qlo', 'QL04p046678' => 'qlo', 'QL06p002448' => 'qlo', 'RcHm_v2.0_Chr4g0416181' => 'rch', 'RcHm_v2.0_Chr5g0044701' => 'rch', 'RcHm_v2.0_Chr6g0265781' => 'rch', 'RcHm_v2.0_Chr7g0221031' => 'rch', 'Rhsim04G0202000' => 'rsi', 'Rhsim11G0127300' => 'rsi', 'Rhsim13G0111800' => 'rsi', 'Sabra01G0165600' => 'sbr', 'Sabra03G0008300' => 'sbr', 'Sabra04G0136900' => 'sbr', 'Sabra08G0013400' => 'sbr', 'Sabra08G0116800' => 'sbr', 'Sabra09G0128000' => 'sbr', 'Sabra10G0055500' => 'sbr', 'Sabra10G0073300' => 'sbr', 'SalBow3G0385' => 'sbo', 'SalBow3G1119' => 'sbo', 'SalBow3G2005' => 'sbo', 'SalBow6G2563' => 'sbo', 'SalBow6G6386' => 'sbo', 'Sc06g0008800' => 'sci', 'Sc07g0004950' => 'sci', 'Sc09g0005340' => 'sci', 'Sc13g0004410' => 'sci', 'Sc21g0007090' => 'sci', 'Sed0009285' => 'sed', 'Sed0017583' => 'sed', 'Sed0019699' => 'sed', 'Sed0023107' => 'sed', 'SEGI_10916' => 'sgi', 'SEGI_16217' => 'sgi', 'SEGI_19466' => 'sgi', 'SEGI_41115' => 'sgi', 'SGA_v2.0_scaffold111G31534' => 'sas', 'SGA_v2.0_scaffold22G09864' => 'sas', 'SGA_v2.0_scaffold338G49219' => 'sas', 'SGA_v2.0_scaffold92G28298' => 'sas', 'SMO119G0064' => 'smo', 'SMO223G0038' => 'smo', 'SMO347G0584' => 'smo', 'SMO351G0010' => 'smo', 'SMO356G0404' => 'smo', 'Solyc01g103920.3' => 'sly', 'Solyc04g009710.2' => 'sly', 'Solyc05g055280.2' => 'sly', 'Solyc10g044520.3' => 'sly', 'Solyc10g075160.1' => 'sly', 'Solyc11g006910.3' => 'sly', 'Solyc11g068430.3' => 'sly', 'Sopen01g046310' => 'spe', 'Sopen03g001200' => 'spe', 'Sopen04g004830' => 'spe', 'Sopen05g033720' => 'spe', 'Sopen06g030740' => 'spe', 'Sopen10g013090' => 'spe', 'Sopen10g027630' => 'spe', 'Sopen10g027640' => 'spe', 'Sopen11g002820' => 'spe', 'Sopen11g027140' => 'spe', 'Sp1g09680' => 'spa', 'Sp2g03630' => 'spa', 'Sp4g10320' => 'spa', 'Sp6g33400' => 'spa', 'Sp7g13030' => 'spa', 'TAR365G0317' => 'tar', 'TAR376G0979' => 'tar', 'TAR623G1665' => 'tar', 'TAR633G2373' => 'tar', 'TAR636G1400' => 'tar', 'THA.LOC104800529' => 'tha', 'THA.LOC104808547' => 'tha', 'THA.LOC104809615' => 'tha', 'THA.LOC104815724' => 'tha', 'THA.LOC104818480' => 'tha', 'THA.LOC104819179' => 'tha', 'THA.LOC104822270' => 'tha', 'THA.LOC104826425' => 'tha', 'Thecc.02G089700' => 'tca', 'Thecc.04G232300' => 'tca', 'Thecc.09G283400' => 'tca', 'Thhalv10009020m.g' => 'esa', 'Thhalv10015506m.g' => 'esa', 'Thhalv10017364m.g' => 'esa', 'Thhalv10023742m.g' => 'esa', 'Thhalv10026483m.g' => 'esa', 'TPR.G17232' => 'tpr', 'TPR.G2133' => 'tpr', 'TPR.G2498' => 'tpr', 'TPR.G31942' => 'tpr', 'TPR.G37877' => 'tpr', 'TPR.G4571' => 'tpr', 'TWI14G1113' => 'twi', 'TWI15G0426' => 'twi', 'TWI31G1005' => 'twi', 'TWI38G0513' => 'twi', 'TWI38G1484' => 'twi', 'TWI73G1098' => 'twi', 'unitig_26.g10519' => 'ugi', 'unitig_736.g22395' => 'ugi', 'unitig_747.g21234' => 'ugi', 'unitig_747.g21942' => 'ugi', 'vmacro14351' => 'vma', 'VMungo0540G0082' => 'vmu', 'VMungo0540G0405' => 'vmu', 'VMungo0540G1486' => 'vmu', 'VMungo0540G1692' => 'vmu', 'VMungo0720G2473' => 'vmu', 'VMungo1127G1562' => 'vmu', 'VMungo1215G1918' => 'vmu', 'Zm00001eb052650' => 'zma', 'Zm00001eb063710' => 'zma', 'Zm00001eb083950' => 'zma', 'Zm00001eb174420' => 'zma', 'Zm00001eb260140' => 'zma', 'Zm00001eb260150' => 'zma', 'Zm00001eb260160' => 'zma', 'Zm00001eb348290' => 'zma', 'Zm00001eb366870' => 'zma', 'Zm00001eb421930' => 'zma' ), 'gf_id' => 'HOM05D001025', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001025' ), 'data_identifier' => 'HOM05D001025', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001025', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '592', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p22650' => 'bna', 'A01p29720' => 'bna', 'A03p26560' => 'bna', 'A03p68820' => 'bna', 'A04p20980' => 'bna', 'A06p07730' => 'bna', 'A07p18260' => 'bna', 'A08p33710' => 'bna', 'A09p16970' => 'bna', 'A10p27490' => 'bna', 'Aa31LG1G17300' => 'aar', 'Aa31LG1G3910' => 'aar', 'Aa31LG2G9630' => 'aar', 'Aa31LG5G8360' => 'aar', 'Aa31LG9G2410' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4699' => 'aag', 'Actinidia23512' => 'ach', 'Actinidia37080' => 'ach', 'Ah.01g020380' => 'amhyb', 'Ah.08g215710' => 'amhyb', 'Ah.09g225110' => 'amhyb', 'Ah.10g036680' => 'amhyb', 'AL1G21940' => 'aly', 'AL2G15540' => 'aly', 'AL4G21520' => 'aly', 'AL7G40960' => 'aly', 'Aqoxy2G01191' => 'aox', 'Aqoxy2G03393' => 'aox', 'Aqoxy4G02775' => 'aox', 'Aqoxy6G00058' => 'aox', 'arahy.Tifrunner.gnm1.ann1.9X74H2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CW3FX9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R485W7' => 'arhy', 'AT1G10960' => 'ath', 'AT1G60950' => 'ath', 'AT2G27510' => 'ath', 'AT4G14890' => 'ath', 'AT5G10000' => 'ath', 'ATR0665G624' => 'atr', 'ATR0697G138' => 'atr', 'ATR0776G046' => 'atr', 'ATR1134G135' => 'atr', 'Atru.chr12.1025' => 'acertr', 'Atru.chr3.3241' => 'acertr', 'Atru.chr4.2460' => 'acertr', 'AUR62007427' => 'cqu', 'AUR62010960' => 'cqu', 'AUR62012201' => 'cqu', 'AUR62021470' => 'cqu', 'AUR62022834' => 'cqu', 'AUR62033635' => 'cqu', 'AUR62036186' => 'cqu', 'BcaB01g03077' => 'bca', 'BcaB02g10093' => 'bca', 'BcaB04g20295' => 'bca', 'BcaB06g28147' => 'bca', 'BcaB07g31253' => 'bca', 'BcaC01g04946' => 'bca', 'BcaC02g10614' => 'bca', 'BcaC02g10885' => 'bca', 'BcaC04g19356' => 'bca', 'BcaC04g22297' => 'bca', 'BcaC05g24977' => 'bca', 'BcaC06g31823' => 'bca', 'BcaC07g38633' => 'bca', 'BcaC09g49353' => 'bca', 'BcaC09g50168' => 'bca', 'BcaNung00322' => 'bca', 'BcaNung04769' => 'bca', 'BolC1t02753H' => 'bol', 'BolC1t03721H' => 'bol', 'BolC3t15525H' => 'bol', 'BolC4t23903H' => 'bol', 'BolC4t24231H' => 'bol', 'BolC4t27209H' => 'bol', 'BolC5t29671H' => 'bol', 'BolC8t49044H' => 'bol', 'BolC9t54999H' => 'bol', 'BolC9t59517H' => 'bol', 'BraA01t02178Z' => 'bra', 'BraA01t03099Z' => 'bra', 'BraA03t11867Z' => 'bra', 'BraA04t17667Z' => 'bra', 'BraA07t29542Z' => 'bra', 'BraA08t35287Z' => 'bra', 'BraA09t37334Z' => 'bra', 'BraA10t44801Z' => 'bra', 'BraSC39t46181Z' => 'bra', 'C01p28240' => 'bna', 'C01p37530' => 'bna', 'C03p31820' => 'bna', 'C04p24080' => 'bna', 'C04p25790' => 'bna', 'C04p56770' => 'bna', 'C05p09310' => 'bna', 'C09p21010' => 'bna', 'C09p67560' => 'bna', 'CAN.G1324.7' => 'can', 'CAN.G1358.10' => 'can', 'CAN.G1550.2' => 'can', 'CAN.G186.56' => 'can', 'CAN.G1965.1' => 'can', 'CAN.G645.15' => 'can', 'CAN.G798.26' => 'can', 'CAN.G798.27' => 'can', 'CAN.G798.29' => 'can', 'CAN.G919.31' => 'can', 'CANSAT11G0133' => 'cansat', 'CANSAT11G1171' => 'cansat', 'CANSAT11G2056' => 'cansat', 'CANSAT56G1202' => 'cansat', 'CANSAT56G1514' => 'cansat', 'CANSAT78G0455' => 'cansat', 'CARHR011190' => 'chi', 'CARHR051980' => 'chi', 'CARHR120170' => 'chi', 'CARHR203310' => 'chi', 'CARHR221490' => 'chi', 'Carub.0001s1054' => 'cru', 'Carub.0002s0431' => 'cru', 'Carub.0004s0818' => 'cru', 'Carub.0006s0846' => 'cru', 'Carub.0007s2722' => 'cru', 'Ca_00058_v3' => 'car', 'Ca_17831_v3' => 'car', 'Ca_19408_v3' => 'car', 'Ca_24397_v3' => 'car', 'Ca_25664_v3' => 'car', 'CBR_g21818' => 'cbr', 'CBR_g31195' => 'cbr', 'CBR_g32282' => 'cbr', 'CBR_g39599' => 'cbr', 'CBR_g49410' => 'cbr', 'Cc01_g09120' => 'ccan', 'Cc01_g09130' => 'ccan', 'Cc02_g09630' => 'ccan', 'Cc02_g22810' => 'ccan', 'Cc03_g03810' => 'ccan', 'CDE02G3718' => 'cde', 'CDE04G3183' => 'cde', 'CDE07G1046' => 'cde', 'CDE08G0480' => 'cde', 'Cfa005493' => 'cfa', 'Cfa010312' => 'cfa', 'Cfa015648' => 'cfa', 'Ciclev10002793m.g' => 'ccl', 'Ciclev10003356m.g' => 'ccl', 'Ciclev10006141m.g' => 'ccl', 'Ciclev10016676m.g' => 'ccl', 'Ciclev10017081m.g' => 'ccl', 'Ciclev10029499m.g' => 'ccl', 'CiPaw.01G166300' => 'cil', 'CiPaw.06G145600' => 'cil', 'CiPaw.13G040100' => 'cil', 'CiPaw.13G135800' => 'cil', 'ClCG01G012230' => 'cla', 'ClCG05G009510' => 'cla', 'ClCG08G008270' => 'cla', 'COL.COLO4_11763' => 'col', 'COL.COLO4_19876' => 'col', 'COL.COLO4_21481' => 'col', 'Cpa.g.sc118.34' => 'cpa', 'Cpa.g.sc32.13' => 'cpa', 'Cpa.g.sc58.103' => 'cpa', 'Cre03.g183850' => 'cre', 'Cre06.g306350' => 'cre', 'Cre07.g334800' => 'cre', 'Cre12.g487900' => 'cre', 'Cre14.g626700' => 'cre', 'Cre16.g658400' => 'cre', 'Cre17.g700950' => 'cre', 'CsaV3_1G014830' => 'csa', 'CsaV3_3G013320' => 'csa', 'CsaV3_3G019210' => 'csa', 'CsaV3_3G019220' => 'csa', 'CsaV3_6G004230' => 'csa', 'CSS0003773' => 'camsi', 'CSS0004563' => 'camsi', 'CSS0013949' => 'camsi', 'CSS0025971' => 'camsi', 'CSS0028570' => 'camsi', 'CSS0033127' => 'camsi', 'CSS0036051' => 'camsi', 'CSS0040087' => 'camsi', 'CSS0043179' => 'camsi', 'DCAR_006161' => 'dca', 'DCAR_010351' => 'dca', 'DCAR_012197' => 'dca', 'DCAR_024162' => 'dca', 'Dinv01030' => 'din', 'Dinv10924' => 'din', 'Dinv11835' => 'din', 'Dinv22841' => 'din', 'Dinv42553' => 'din', 'Duzib052G0560' => 'dzi', 'Duzib132G0389' => 'dzi', 'Duzib150G1181' => 'dzi', 'Duzib168G0623' => 'dzi', 'Duzib170G1036' => 'dzi', 'Duzib212G0200' => 'dzi', 'Duzib248G0194' => 'dzi', 'ECA232G2193' => 'eca', 'ECA233G0302' => 'eca', 'ECA234G2813' => 'eca', 'ECA234G4866' => 'eca', 'ECA240G3932' => 'eca', 'ECA248G0385' => 'eca', 'EL10Ac2g04781' => 'bvu', 'EL10Ac3g06445' => 'bvu', 'EL10Ac7g15825' => 'bvu', 'EL10Ac8g18550' => 'bvu', 'Eucgr.B03849' => 'egr', 'Eucgr.I02744' => 'egr', 'Eucgr.J00264' => 'egr', 'Eucgr.J00493' => 'egr', 'FAN04G2181' => 'fan', 'FAN07G2666' => 'fan', 'FAN11G0024' => 'fan', 'FAN12G1105' => 'fan', 'FAN13G0302' => 'fan', 'FAN15G2781' => 'fan', 'FAN16G1274' => 'fan', 'FAN17G2988' => 'fan', 'FAN18G2621' => 'fan', 'FAN21G0013' => 'fan', 'FAN22G1211' => 'fan', 'FAN25G3626' => 'fan', 'FvH4_2g09491' => 'fve', 'FvH4_3g24910' => 'fve', 'FvH4_4g15630' => 'fve', 'FvH4_5g28820' => 'fve', 'Glyma.01G238000' => 'gma', 'Glyma.05G168400' => 'gma', 'Glyma.08G126800' => 'gma', 'Glyma.08G188500' => 'gma', 'Glyma.10G278900' => 'gma', 'Glyma.11G005700' => 'gma', 'Glyma.11G183300' => 'gma', 'Glyma.12G089200' => 'gma', 'Glyma.12G169400' => 'gma', 'Glyma.12G169500' => 'gma', 'Glyma.12G169600' => 'gma', 'Glyma.20G110800' => 'gma', 'Gohir.A03G192900' => 'ghi', 'Gohir.A03G193000' => 'ghi', 'Gohir.A05G080700' => 'ghi', 'Gohir.A09G216000' => 'ghi', 'Gohir.A12G027700' => 'ghi', 'Gohir.A13G036200' => 'ghi', 'Gohir.A13G222600' => 'ghi', 'Gohir.D02G213900' => 'ghi', 'Gohir.D02G214000' => 'ghi', 'Gohir.D05G083700' => 'ghi', 'Gohir.D05G083800' => 'ghi', 'Gohir.D05G083850' => 'ghi', 'Gohir.D08G015400' => 'ghi', 'Gohir.D09G218400' => 'ghi', 'Gohir.D12G027100' => 'ghi', 'Gohir.D13G034500' => 'ghi', 'Gohir.D13G227400' => 'ghi', 'Gorai.005G241800' => 'gra', 'Gorai.005G241900' => 'gra', 'Gorai.006G239400' => 'gra', 'Gorai.008G027600' => 'gra', 'Gorai.009G085400' => 'gra', 'Gorai.009G085500' => 'gra', 'Gorai.013G039000' => 'gra', 'Gorai.013G194800' => 'gra', 'Gorai.013G257900' => 'gra', 'GSVIVG01000982001' => 'vvi', 'GSVIVG01017981001' => 'vvi', 'HanXRQChr01g0024061' => 'han', 'HanXRQChr09g0247831' => 'han', 'HanXRQChr10g0294611' => 'han', 'HanXRQChr10g0294621' => 'han', 'HanXRQChr11g0346821' => 'han', 'HanXRQChr13g0397461' => 'han', 'HanXRQChr16g0513651' => 'han', 'HanXRQChr16g0513701' => 'han', 'Haze_00897' => 'cav', 'Haze_01745' => 'cav', 'Haze_02486' => 'cav', 'Haze_02487' => 'cav', 'Haze_23374' => 'cav', 'Hma1.2p1_0578F.1_g182520' => 'hma', 'Hma1.2p1_0602F.1_g187350' => 'hma', 'Hma1.2p1_0602F.1_g187360' => 'hma', 'Hma1.2p1_0874F.1_g231320' => 'hma', 'Hma1.2p1_1197F.1_g266210' => 'hma', 'Hma1.2p1_1197F.1_g266220' => 'hma', 'Hma1.2p1_2167F.1_g315895' => 'hma', 'Hma1.2p1_2190F.1_g316640' => 'hma', 'Hma1.2p1_3645F.1_g337153' => 'hma', 'HPP92_004907' => 'vpl', 'HPP92_012134' => 'vpl', 'HPP92_025136' => 'vpl', 'HPP92_026087' => 'vpl', 'Hund06782' => 'sun', 'Hund06784' => 'sun', 'Lalb_Chr01g0004861' => 'lal', 'Lalb_Chr02g0140591' => 'lal', 'Lalb_Chr02g0140611' => 'lal', 'Lalb_Chr03g0028101' => 'lal', 'Lalb_Chr07g0185791' => 'lal', 'Lalb_Chr12g0204491' => 'lal', 'Lalb_Chr13g0295671' => 'lal', 'Lalb_Chr19g0136461' => 'lal', 'Lalb_Chr21g0309191' => 'lal', 'Lj1g0028158' => 'lja', 'Lj1P236T38' => 'lonja', 'Lj2C32G2' => 'lonja', 'Lj2P944T8' => 'lonja', 'Lj2P963T15' => 'lonja', 'Lj3g0011788' => 'lja', 'Lj4g0025027' => 'lja', 'Lj5P255T36' => 'lonja', 'Lj6g0018866' => 'lja', 'Lj6P608T31' => 'lonja', 'LjContig00408g0008879' => 'lja', 'Lsat_1_v5_gn_5_105820' => 'lsa', 'Lsat_1_v5_gn_6_38800' => 'lsa', 'Lsat_1_v5_gn_7_67141' => 'lsa', 'Manes.04G003400' => 'mes', 'Manes.07G020000' => 'mes', 'Manes.07G020100' => 'mes', 'Manes.07G020150' => 'mes', 'Manes.10G061500' => 'mes', 'Manes.10G123200' => 'mes', 'Manes.11G161900' => 'mes', 'Manes.15G029300' => 'mes', 'Mapoly0071s0018' => 'mpo', 'Mapoly0082s0023' => 'mpo', 'Mapoly3477s0001' => 'mpo', 'MBI05_g31233_MAGBIO' => 'mbi', 'MBI09_g05946_MAGBIO' => 'mbi', 'MBI09_g05947_MAGBIO' => 'mbi', 'MBI17_g08346_MAGBIO' => 'mbi', 'MCO04G038' => 'mco', 'MCO09G370' => 'mco', 'MCO13G605' => 'mco', 'MD00G1075500' => 'mdo', 'MD03G1144300' => 'mdo', 'MD08G1236800' => 'mdo', 'MD13G1193300' => 'mdo', 'MD15G1428700' => 'mdo', 'Medtr1g112030' => 'mtr', 'Medtr1g112050' => 'mtr', 'Medtr2g006290' => 'mtr', 'Medtr2g086510' => 'mtr', 'Medtr4g053120' => 'mtr', 'Medtr5g006320' => 'mtr', 'Medtr8g088720' => 'mtr', 'MELO3C004712.2' => 'cme', 'MELO3C006533.2' => 'cme', 'MELO3C019438.2' => 'cme', 'MELO3C019440.2' => 'cme', 'MELO3C019441.2' => 'cme', 'MELO3C019895.2' => 'cme', 'Migut.B00811' => 'egut', 'Migut.D02447' => 'egut', 'Migut.F00875' => 'egut', 'Migut.N00186' => 'egut', 'Migut.N01051' => 'egut', 'Migut.N02491' => 'egut', 'Migut.O00784' => 'egut', 'MSTRG.12367' => 'ama', 'MSTRG.18756' => 'ama', 'MSTRG.21042' => 'ama', 'Nitab4.5_0000559g0040' => 'nta', 'Nitab4.5_0000667g0190' => 'nta', 'Nitab4.5_0000755g0160' => 'nta', 'Nitab4.5_0001216g0080' => 'nta', 'Nitab4.5_0004069g0040' => 'nta', 'Nitab4.5_0004129g0010' => 'nta', 'Nitab4.5_0005744g0030' => 'nta', 'Nitab4.5_0006996g0030' => 'nta', 'Nitab4.5_0008971g0040' => 'nta', 'Nitab4.5_0009769g0020' => 'nta', 'Nitab4.5_0009833g0010' => 'nta', 'Nitab4.5_0013140g0020' => 'nta', 'Nn003s41376' => 'nnu', 'Nn1g01857' => 'nnu', 'Nn1g03611' => 'nnu', 'Nn1g06853' => 'nnu', 'Nn3g18360' => 'nnu', 'Nn4g26328' => 'nnu', 'Nn5g27531' => 'nnu', 'Nn6g34899' => 'nnu', 'Nn7g36299' => 'nnu', 'Oeu021485.1' => 'oeu', 'Oeu022433.1' => 'oeu', 'Oeu032111.1' => 'oeu', 'Oeu051608.1' => 'oeu', 'Os01g0860601' => 'osa', 'Os03g0659200' => 'osa', 'Os03g0835900' => 'osa', 'Os04g0412200' => 'osa', 'Os05g0443500' => 'osa', 'Os07g0251500' => 'osa', 'Os08g0104600' => 'osa', 'Peaxi162Scf00003g00047' => 'pax', 'Peaxi162Scf00003g00052' => 'pax', 'Peaxi162Scf00003g00394' => 'pax', 'Peaxi162Scf00091g00621' => 'pax', 'Peaxi162Scf00152g00146' => 'pax', 'Peaxi162Scf00173g00025' => 'pax', 'Peaxi162Scf00195g00102' => 'pax', 'Peaxi162Scf00402g00013' => 'pax', 'Peaxi162Scf00519g00618' => 'pax', 'PGR004G2838' => 'pgr', 'PGR044G2275' => 'pgr', 'PGR102G1377' => 'pgr', 'PGR119G1245' => 'pgr', 'PGR142G4449' => 'pgr', 'PGSC0003DMG400004532' => 'stu', 'PGSC0003DMG400011950' => 'stu', 'PGSC0003DMG400023391' => 'stu', 'PGSC0003DMG400023985' => 'stu', 'PGSC0003DMG400026360' => 'stu', 'PGSC0003DMG400035711' => 'stu', 'PGSC0003DMG400037286' => 'stu', 'PGSC0003DMG402005881' => 'stu', 'Phvul.002G045400' => 'pvu', 'Phvul.006G216600' => 'pvu', 'Phvul.006G216700' => 'pvu', 'Phvul.006G216800' => 'pvu', 'Phvul.007G022500' => 'pvu', 'Phvul.011G094400' => 'pvu', 'Potri.001G470700' => 'ptr', 'Potri.003G015200' => 'ptr', 'Potri.004G202500' => 'ptr', 'Potri.004G218400' => 'ptr', 'Potri.008G020100' => 'ptr', 'Potri.008G153200' => 'ptr', 'Potri.009G163800' => 'ptr', 'Potri.010G087300' => 'ptr', 'Potri.010G239100' => 'ptr', 'Pp3c10_16100' => 'ppa', 'Pp3c10_16880' => 'ppa', 'Pp3c16_6230' => 'ppa', 'Pp3c17_18910' => 'ppa', 'Pp3c3_22119' => 'ppa', 'Pp3c3_22140' => 'ppa', 'Pp3c4_8159' => 'ppa', 'Pp3c4_8171' => 'ppa', 'Pp3c4_8330' => 'ppa', 'PRCOL_00004098' => 'pco', 'Prupe.1G013900' => 'ppe', 'Prupe.1G226300' => 'ppe', 'Prupe.1G573600' => 'ppe', 'Prupe.6G130100' => 'ppe', 'Psat3g090040' => 'psa', 'Psat4g210440' => 'psa', 'Psat6g231040' => 'psa', 'Psat6g231080' => 'psa', 'Psat7g063000' => 'psa', 'Psat7g188000' => 'psa', 'Psat7g188040' => 'psa', 'PSO017G0206' => 'pso', 'PSO170G0501' => 'pso', 'PSO170G6422' => 'pso', 'PSO210G7739' => 'pso', 'PSO339G1808' => 'pso', 'PSO339G6135' => 'pso', 'PSO384G0010' => 'pso', 'PSO384G0964' => 'pso', 'PSO761G0050' => 'pso', 'PSO782G4085' => 'pso', 'QL01p012264' => 'qlo', 'QL02p099491' => 'qlo', 'QL03p033868' => 'qlo', 'QL04p046678' => 'qlo', 'QL06p002448' => 'qlo', 'RcHm_v2.0_Chr4g0416181' => 'rch', 'RcHm_v2.0_Chr5g0044701' => 'rch', 'RcHm_v2.0_Chr6g0265781' => 'rch', 'RcHm_v2.0_Chr7g0221031' => 'rch', 'Rhsim04G0202000' => 'rsi', 'Rhsim11G0127300' => 'rsi', 'Rhsim13G0111800' => 'rsi', 'Sabra01G0165600' => 'sbr', 'Sabra03G0008300' => 'sbr', 'Sabra04G0136900' => 'sbr', 'Sabra08G0013400' => 'sbr', 'Sabra08G0116800' => 'sbr', 'Sabra09G0128000' => 'sbr', 'Sabra10G0055500' => 'sbr', 'Sabra10G0073300' => 'sbr', 'SalBow3G0385' => 'sbo', 'SalBow3G1119' => 'sbo', 'SalBow3G2005' => 'sbo', 'SalBow6G2563' => 'sbo', 'SalBow6G6386' => 'sbo', 'Sc06g0008800' => 'sci', 'Sc07g0004950' => 'sci', 'Sc09g0005340' => 'sci', 'Sc13g0004410' => 'sci', 'Sc21g0007090' => 'sci', 'Sed0009285' => 'sed', 'Sed0017583' => 'sed', 'Sed0019699' => 'sed', 'Sed0023107' => 'sed', 'SEGI_10916' => 'sgi', 'SEGI_16217' => 'sgi', 'SEGI_19466' => 'sgi', 'SEGI_41115' => 'sgi', 'SGA_v2.0_scaffold111G31534' => 'sas', 'SGA_v2.0_scaffold22G09864' => 'sas', 'SGA_v2.0_scaffold338G49219' => 'sas', 'SGA_v2.0_scaffold92G28298' => 'sas', 'SMO119G0064' => 'smo', 'SMO223G0038' => 'smo', 'SMO347G0584' => 'smo', 'SMO351G0010' => 'smo', 'SMO356G0404' => 'smo', 'Solyc01g103920.3' => 'sly', 'Solyc04g009710.2' => 'sly', 'Solyc05g055280.2' => 'sly', 'Solyc10g044520.3' => 'sly', 'Solyc10g075160.1' => 'sly', 'Solyc11g006910.3' => 'sly', 'Solyc11g068430.3' => 'sly', 'Sopen01g046310' => 'spe', 'Sopen03g001200' => 'spe', 'Sopen04g004830' => 'spe', 'Sopen05g033720' => 'spe', 'Sopen06g030740' => 'spe', 'Sopen10g013090' => 'spe', 'Sopen10g027630' => 'spe', 'Sopen10g027640' => 'spe', 'Sopen11g002820' => 'spe', 'Sopen11g027140' => 'spe', 'Sp1g09680' => 'spa', 'Sp2g03630' => 'spa', 'Sp4g10320' => 'spa', 'Sp6g33400' => 'spa', 'Sp7g13030' => 'spa', 'TAR365G0317' => 'tar', 'TAR376G0979' => 'tar', 'TAR623G1665' => 'tar', 'TAR633G2373' => 'tar', 'TAR636G1400' => 'tar', 'THA.LOC104800529' => 'tha', 'THA.LOC104808547' => 'tha', 'THA.LOC104809615' => 'tha', 'THA.LOC104815724' => 'tha', 'THA.LOC104818480' => 'tha', 'THA.LOC104819179' => 'tha', 'THA.LOC104822270' => 'tha', 'THA.LOC104826425' => 'tha', 'Thecc.02G089700' => 'tca', 'Thecc.04G232300' => 'tca', 'Thecc.09G283400' => 'tca', 'Thhalv10009020m.g' => 'esa', 'Thhalv10015506m.g' => 'esa', 'Thhalv10017364m.g' => 'esa', 'Thhalv10023742m.g' => 'esa', 'Thhalv10026483m.g' => 'esa', 'TPR.G17232' => 'tpr', 'TPR.G2133' => 'tpr', 'TPR.G2498' => 'tpr', 'TPR.G31942' => 'tpr', 'TPR.G37877' => 'tpr', 'TPR.G4571' => 'tpr', 'TWI14G1113' => 'twi', 'TWI15G0426' => 'twi', 'TWI31G1005' => 'twi', 'TWI38G0513' => 'twi', 'TWI38G1484' => 'twi', 'TWI73G1098' => 'twi', 'unitig_26.g10519' => 'ugi', 'unitig_736.g22395' => 'ugi', 'unitig_747.g21234' => 'ugi', 'unitig_747.g21942' => 'ugi', 'vmacro14351' => 'vma', 'VMungo0540G0082' => 'vmu', 'VMungo0540G0405' => 'vmu', 'VMungo0540G1486' => 'vmu', 'VMungo0540G1692' => 'vmu', 'VMungo0720G2473' => 'vmu', 'VMungo1127G1562' => 'vmu', 'VMungo1215G1918' => 'vmu', 'Zm00001eb052650' => 'zma', 'Zm00001eb063710' => 'zma', 'Zm00001eb083950' => 'zma', 'Zm00001eb174420' => 'zma', 'Zm00001eb260140' => 'zma', 'Zm00001eb260150' => 'zma', 'Zm00001eb260160' => 'zma', 'Zm00001eb348290' => 'zma', 'Zm00001eb366870' => 'zma', 'Zm00001eb421930' => 'zma' ) $gf_id = 'HOM05D001025' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001025' ) $data_identifier = 'HOM05D001025' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 19, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 2, 'amhyb' => (int) 4, 'aly' => (int) 4, 'aox' => (int) 4, 'arhy' => (int) 3, 'ath' => (int) 5, 'atr' => (int) 4, 'acertr' => (int) 3, 'cqu' => (int) 7, 'bca' => (int) 17, 'bol' => (int) 10, 'bra' => (int) 9, 'can' => (int) 10, 'cansat' => (int) 6, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 5, 'cbr' => (int) 5, 'ccan' => (int) 5, 'cde' => (int) 4, 'cfa' => (int) 3, 'ccl' => (int) 6, 'cil' => (int) 4, 'cla' => (int) 3, 'col' => (int) 3, 'cpa' => (int) 3, 'cre' => (int) 7, 'csa' => (int) 5, 'camsi' => (int) 9, 'dca' => (int) 4, 'din' => (int) 5, 'dzi' => (int) 7, 'eca' => (int) 6, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 12, 'fve' => (int) 4, 'gma' => (int) 12, 'ghi' => (int) 17, 'gra' => (int) 9, 'vvi' => (int) 2, 'han' => (int) 8, 'cav' => (int) 5, 'hma' => (int) 9, 'vpl' => (int) 4, 'sun' => (int) 2, 'lal' => (int) 9, 'lja' => (int) 5, 'lonja' => (int) 6, 'lsa' => (int) 3, 'mes' => (int) 8, 'mpo' => (int) 3, 'mbi' => (int) 4, 'mco' => (int) 3, 'mdo' => (int) 5, 'mtr' => (int) 7, 'cme' => (int) 6, 'egut' => (int) 7, 'ama' => (int) 3, 'nta' => (int) 12, 'nnu' => (int) 9, 'oeu' => (int) 4, 'osa' => (int) 7, 'pax' => (int) 9, 'pgr' => (int) 5, 'stu' => (int) 8, 'pvu' => (int) 6, 'ptr' => (int) 9, 'ppa' => (int) 9, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 7, 'pso' => (int) 10, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 3, 'sbr' => (int) 8, 'sbo' => (int) 5, 'sci' => (int) 5, 'sed' => (int) 4, 'sgi' => (int) 4, 'sas' => (int) 4, 'smo' => (int) 5, 'sly' => (int) 7, 'spe' => (int) 10, 'spa' => (int) 5, 'tar' => (int) 5, 'tha' => (int) 8, 'tca' => (int) 3, 'esa' => (int) 5, 'tpr' => (int) 6, 'twi' => (int) 6, 'ugi' => (int) 4, 'vma' => (int) 1, 'vmu' => (int) 7, 'zma' => (int) 10 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb421930' $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' => 'HOM05D001025', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '592', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p22650' => 'bna', 'A01p29720' => 'bna', 'A03p26560' => 'bna', 'A03p68820' => 'bna', 'A04p20980' => 'bna', 'A06p07730' => 'bna', 'A07p18260' => 'bna', 'A08p33710' => 'bna', 'A09p16970' => 'bna', 'A10p27490' => 'bna', 'Aa31LG1G17300' => 'aar', 'Aa31LG1G3910' => 'aar', 'Aa31LG2G9630' => 'aar', 'Aa31LG5G8360' => 'aar', 'Aa31LG9G2410' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4699' => 'aag', 'Actinidia23512' => 'ach', 'Actinidia37080' => 'ach', 'Ah.01g020380' => 'amhyb', 'Ah.08g215710' => 'amhyb', 'Ah.09g225110' => 'amhyb', 'Ah.10g036680' => 'amhyb', 'AL1G21940' => 'aly', 'AL2G15540' => 'aly', 'AL4G21520' => 'aly', 'AL7G40960' => 'aly', 'Aqoxy2G01191' => 'aox', 'Aqoxy2G03393' => 'aox', 'Aqoxy4G02775' => 'aox', 'Aqoxy6G00058' => 'aox', 'arahy.Tifrunner.gnm1.ann1.9X74H2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CW3FX9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R485W7' => 'arhy', 'AT1G10960' => 'ath', 'AT1G60950' => 'ath', 'AT2G27510' => 'ath', 'AT4G14890' => 'ath', 'AT5G10000' => 'ath', 'ATR0665G624' => 'atr', 'ATR0697G138' => 'atr', 'ATR0776G046' => 'atr', 'ATR1134G135' => 'atr', 'Atru.chr12.1025' => 'acertr', 'Atru.chr3.3241' => 'acertr', 'Atru.chr4.2460' => 'acertr', 'AUR62007427' => 'cqu', 'AUR62010960' => 'cqu', 'AUR62012201' => 'cqu', 'AUR62021470' => 'cqu', 'AUR62022834' => 'cqu', 'AUR62033635' => 'cqu', 'AUR62036186' => 'cqu', 'BcaB01g03077' => 'bca', 'BcaB02g10093' => 'bca', 'BcaB04g20295' => 'bca', 'BcaB06g28147' => 'bca', 'BcaB07g31253' => 'bca', 'BcaC01g04946' => 'bca', 'BcaC02g10614' => 'bca', 'BcaC02g10885' => 'bca', 'BcaC04g19356' => 'bca', 'BcaC04g22297' => 'bca', 'BcaC05g24977' => 'bca', 'BcaC06g31823' => 'bca', 'BcaC07g38633' => 'bca', 'BcaC09g49353' => 'bca', 'BcaC09g50168' => 'bca', 'BcaNung00322' => 'bca', 'BcaNung04769' => 'bca', 'BolC1t02753H' => 'bol', 'BolC1t03721H' => 'bol', 'BolC3t15525H' => 'bol', 'BolC4t23903H' => 'bol', 'BolC4t24231H' => 'bol', 'BolC4t27209H' => 'bol', 'BolC5t29671H' => 'bol', 'BolC8t49044H' => 'bol', 'BolC9t54999H' => 'bol', 'BolC9t59517H' => 'bol', 'BraA01t02178Z' => 'bra', 'BraA01t03099Z' => 'bra', 'BraA03t11867Z' => 'bra', 'BraA04t17667Z' => 'bra', 'BraA07t29542Z' => 'bra', 'BraA08t35287Z' => 'bra', 'BraA09t37334Z' => 'bra', 'BraA10t44801Z' => 'bra', 'BraSC39t46181Z' => 'bra', 'C01p28240' => 'bna', 'C01p37530' => 'bna', 'C03p31820' => 'bna', 'C04p24080' => 'bna', 'C04p25790' => 'bna', 'C04p56770' => 'bna', 'C05p09310' => 'bna', 'C09p21010' => 'bna', 'C09p67560' => 'bna', 'CAN.G1324.7' => 'can', 'CAN.G1358.10' => 'can', 'CAN.G1550.2' => 'can', 'CAN.G186.56' => 'can', 'CAN.G1965.1' => 'can', 'CAN.G645.15' => 'can', 'CAN.G798.26' => 'can', 'CAN.G798.27' => 'can', 'CAN.G798.29' => 'can', 'CAN.G919.31' => 'can', 'CANSAT11G0133' => 'cansat', 'CANSAT11G1171' => 'cansat', 'CANSAT11G2056' => 'cansat', 'CANSAT56G1202' => 'cansat', 'CANSAT56G1514' => 'cansat', 'CANSAT78G0455' => 'cansat', 'CARHR011190' => 'chi', 'CARHR051980' => 'chi', 'CARHR120170' => 'chi', 'CARHR203310' => 'chi', 'CARHR221490' => 'chi', 'Carub.0001s1054' => 'cru', 'Carub.0002s0431' => 'cru', 'Carub.0004s0818' => 'cru', 'Carub.0006s0846' => 'cru', 'Carub.0007s2722' => 'cru', 'Ca_00058_v3' => 'car', 'Ca_17831_v3' => 'car', 'Ca_19408_v3' => 'car', 'Ca_24397_v3' => 'car', 'Ca_25664_v3' => 'car', 'CBR_g21818' => 'cbr', 'CBR_g31195' => 'cbr', 'CBR_g32282' => 'cbr', 'CBR_g39599' => 'cbr', 'CBR_g49410' => 'cbr', 'Cc01_g09120' => 'ccan', 'Cc01_g09130' => 'ccan', 'Cc02_g09630' => 'ccan', 'Cc02_g22810' => 'ccan', 'Cc03_g03810' => 'ccan', 'CDE02G3718' => 'cde', 'CDE04G3183' => 'cde', 'CDE07G1046' => 'cde', 'CDE08G0480' => 'cde', 'Cfa005493' => 'cfa', 'Cfa010312' => 'cfa', 'Cfa015648' => 'cfa', 'Ciclev10002793m.g' => 'ccl', 'Ciclev10003356m.g' => 'ccl', 'Ciclev10006141m.g' => 'ccl', 'Ciclev10016676m.g' => 'ccl', 'Ciclev10017081m.g' => 'ccl', 'Ciclev10029499m.g' => 'ccl', 'CiPaw.01G166300' => 'cil', 'CiPaw.06G145600' => 'cil', 'CiPaw.13G040100' => 'cil', 'CiPaw.13G135800' => 'cil', 'ClCG01G012230' => 'cla', 'ClCG05G009510' => 'cla', 'ClCG08G008270' => 'cla', 'COL.COLO4_11763' => 'col', 'COL.COLO4_19876' => 'col', 'COL.COLO4_21481' => 'col', 'Cpa.g.sc118.34' => 'cpa', 'Cpa.g.sc32.13' => 'cpa', 'Cpa.g.sc58.103' => 'cpa', 'Cre03.g183850' => 'cre', 'Cre06.g306350' => 'cre', 'Cre07.g334800' => 'cre', 'Cre12.g487900' => 'cre', 'Cre14.g626700' => 'cre', 'Cre16.g658400' => 'cre', 'Cre17.g700950' => 'cre', 'CsaV3_1G014830' => 'csa', 'CsaV3_3G013320' => 'csa', 'CsaV3_3G019210' => 'csa', 'CsaV3_3G019220' => 'csa', 'CsaV3_6G004230' => 'csa', 'CSS0003773' => 'camsi', 'CSS0004563' => 'camsi', 'CSS0013949' => 'camsi', 'CSS0025971' => 'camsi', 'CSS0028570' => 'camsi', 'CSS0033127' => 'camsi', 'CSS0036051' => 'camsi', 'CSS0040087' => 'camsi', 'CSS0043179' => 'camsi', 'DCAR_006161' => 'dca', 'DCAR_010351' => 'dca', 'DCAR_012197' => 'dca', 'DCAR_024162' => 'dca', 'Dinv01030' => 'din', 'Dinv10924' => 'din', 'Dinv11835' => 'din', 'Dinv22841' => 'din', 'Dinv42553' => 'din', 'Duzib052G0560' => 'dzi', 'Duzib132G0389' => 'dzi', 'Duzib150G1181' => 'dzi', 'Duzib168G0623' => 'dzi', 'Duzib170G1036' => 'dzi', 'Duzib212G0200' => 'dzi', 'Duzib248G0194' => 'dzi', 'ECA232G2193' => 'eca', 'ECA233G0302' => 'eca', 'ECA234G2813' => 'eca', 'ECA234G4866' => 'eca', 'ECA240G3932' => 'eca', 'ECA248G0385' => 'eca', 'EL10Ac2g04781' => 'bvu', 'EL10Ac3g06445' => 'bvu', 'EL10Ac7g15825' => 'bvu', 'EL10Ac8g18550' => 'bvu', 'Eucgr.B03849' => 'egr', 'Eucgr.I02744' => 'egr', 'Eucgr.J00264' => 'egr', 'Eucgr.J00493' => 'egr', 'FAN04G2181' => 'fan', 'FAN07G2666' => 'fan', 'FAN11G0024' => 'fan', 'FAN12G1105' => 'fan', 'FAN13G0302' => 'fan', 'FAN15G2781' => 'fan', 'FAN16G1274' => 'fan', 'FAN17G2988' => 'fan', 'FAN18G2621' => 'fan', 'FAN21G0013' => 'fan', 'FAN22G1211' => 'fan', 'FAN25G3626' => 'fan', 'FvH4_2g09491' => 'fve', 'FvH4_3g24910' => 'fve', 'FvH4_4g15630' => 'fve', 'FvH4_5g28820' => 'fve', 'Glyma.01G238000' => 'gma', 'Glyma.05G168400' => 'gma', 'Glyma.08G126800' => 'gma', 'Glyma.08G188500' => 'gma', 'Glyma.10G278900' => 'gma', 'Glyma.11G005700' => 'gma', 'Glyma.11G183300' => 'gma', 'Glyma.12G089200' => 'gma', 'Glyma.12G169400' => 'gma', 'Glyma.12G169500' => 'gma', 'Glyma.12G169600' => 'gma', 'Glyma.20G110800' => 'gma', 'Gohir.A03G192900' => 'ghi', 'Gohir.A03G193000' => 'ghi', 'Gohir.A05G080700' => 'ghi', 'Gohir.A09G216000' => 'ghi', 'Gohir.A12G027700' => 'ghi', 'Gohir.A13G036200' => 'ghi', 'Gohir.A13G222600' => 'ghi', 'Gohir.D02G213900' => 'ghi', 'Gohir.D02G214000' => 'ghi', 'Gohir.D05G083700' => 'ghi', 'Gohir.D05G083800' => 'ghi', 'Gohir.D05G083850' => 'ghi', 'Gohir.D08G015400' => 'ghi', 'Gohir.D09G218400' => 'ghi', 'Gohir.D12G027100' => 'ghi', 'Gohir.D13G034500' => 'ghi', 'Gohir.D13G227400' => 'ghi', 'Gorai.005G241800' => 'gra', 'Gorai.005G241900' => 'gra', 'Gorai.006G239400' => 'gra', 'Gorai.008G027600' => 'gra', 'Gorai.009G085400' => 'gra', 'Gorai.009G085500' => 'gra', 'Gorai.013G039000' => 'gra', 'Gorai.013G194800' => 'gra', 'Gorai.013G257900' => 'gra', 'GSVIVG01000982001' => 'vvi', 'GSVIVG01017981001' => 'vvi', 'HanXRQChr01g0024061' => 'han', 'HanXRQChr09g0247831' => 'han', 'HanXRQChr10g0294611' => 'han', 'HanXRQChr10g0294621' => 'han', 'HanXRQChr11g0346821' => 'han', 'HanXRQChr13g0397461' => 'han', 'HanXRQChr16g0513651' => 'han', 'HanXRQChr16g0513701' => 'han', 'Haze_00897' => 'cav', 'Haze_01745' => 'cav', 'Haze_02486' => 'cav', 'Haze_02487' => 'cav', 'Haze_23374' => 'cav', 'Hma1.2p1_0578F.1_g182520' => 'hma', 'Hma1.2p1_0602F.1_g187350' => 'hma', 'Hma1.2p1_0602F.1_g187360' => 'hma', 'Hma1.2p1_0874F.1_g231320' => 'hma', 'Hma1.2p1_1197F.1_g266210' => 'hma', 'Hma1.2p1_1197F.1_g266220' => 'hma', 'Hma1.2p1_2167F.1_g315895' => 'hma', 'Hma1.2p1_2190F.1_g316640' => 'hma', 'Hma1.2p1_3645F.1_g337153' => 'hma', 'HPP92_004907' => 'vpl', 'HPP92_012134' => 'vpl', 'HPP92_025136' => 'vpl', 'HPP92_026087' => 'vpl', 'Hund06782' => 'sun', 'Hund06784' => 'sun', 'Lalb_Chr01g0004861' => 'lal', 'Lalb_Chr02g0140591' => 'lal', 'Lalb_Chr02g0140611' => 'lal', 'Lalb_Chr03g0028101' => 'lal', 'Lalb_Chr07g0185791' => 'lal', 'Lalb_Chr12g0204491' => 'lal', 'Lalb_Chr13g0295671' => 'lal', 'Lalb_Chr19g0136461' => 'lal', 'Lalb_Chr21g0309191' => 'lal', 'Lj1g0028158' => 'lja', 'Lj1P236T38' => 'lonja', 'Lj2C32G2' => 'lonja', 'Lj2P944T8' => 'lonja', 'Lj2P963T15' => 'lonja', 'Lj3g0011788' => 'lja', 'Lj4g0025027' => 'lja', 'Lj5P255T36' => 'lonja', 'Lj6g0018866' => 'lja', 'Lj6P608T31' => 'lonja', 'LjContig00408g0008879' => 'lja', 'Lsat_1_v5_gn_5_105820' => 'lsa', 'Lsat_1_v5_gn_6_38800' => 'lsa', 'Lsat_1_v5_gn_7_67141' => 'lsa', 'Manes.04G003400' => 'mes', 'Manes.07G020000' => 'mes', 'Manes.07G020100' => 'mes', 'Manes.07G020150' => 'mes', 'Manes.10G061500' => 'mes', 'Manes.10G123200' => 'mes', 'Manes.11G161900' => 'mes', 'Manes.15G029300' => 'mes', 'Mapoly0071s0018' => 'mpo', 'Mapoly0082s0023' => 'mpo', 'Mapoly3477s0001' => 'mpo', 'MBI05_g31233_MAGBIO' => 'mbi', 'MBI09_g05946_MAGBIO' => 'mbi', 'MBI09_g05947_MAGBIO' => 'mbi', 'MBI17_g08346_MAGBIO' => 'mbi', 'MCO04G038' => 'mco', 'MCO09G370' => 'mco', 'MCO13G605' => 'mco', 'MD00G1075500' => 'mdo', 'MD03G1144300' => 'mdo', 'MD08G1236800' => 'mdo', 'MD13G1193300' => 'mdo', 'MD15G1428700' => 'mdo', 'Medtr1g112030' => 'mtr', 'Medtr1g112050' => 'mtr', 'Medtr2g006290' => 'mtr', 'Medtr2g086510' => 'mtr', 'Medtr4g053120' => 'mtr', 'Medtr5g006320' => 'mtr', 'Medtr8g088720' => 'mtr', 'MELO3C004712.2' => 'cme', 'MELO3C006533.2' => 'cme', 'MELO3C019438.2' => 'cme', 'MELO3C019440.2' => 'cme', 'MELO3C019441.2' => 'cme', 'MELO3C019895.2' => 'cme', 'Migut.B00811' => 'egut', 'Migut.D02447' => 'egut', 'Migut.F00875' => 'egut', 'Migut.N00186' => 'egut', 'Migut.N01051' => 'egut', 'Migut.N02491' => 'egut', 'Migut.O00784' => 'egut', 'MSTRG.12367' => 'ama', 'MSTRG.18756' => 'ama', 'MSTRG.21042' => 'ama', 'Nitab4.5_0000559g0040' => 'nta', 'Nitab4.5_0000667g0190' => 'nta', 'Nitab4.5_0000755g0160' => 'nta', 'Nitab4.5_0001216g0080' => 'nta', 'Nitab4.5_0004069g0040' => 'nta', 'Nitab4.5_0004129g0010' => 'nta', 'Nitab4.5_0005744g0030' => 'nta', 'Nitab4.5_0006996g0030' => 'nta', 'Nitab4.5_0008971g0040' => 'nta', 'Nitab4.5_0009769g0020' => 'nta', 'Nitab4.5_0009833g0010' => 'nta', 'Nitab4.5_0013140g0020' => 'nta', 'Nn003s41376' => 'nnu', 'Nn1g01857' => 'nnu', 'Nn1g03611' => 'nnu', 'Nn1g06853' => 'nnu', 'Nn3g18360' => 'nnu', 'Nn4g26328' => 'nnu', 'Nn5g27531' => 'nnu', 'Nn6g34899' => 'nnu', 'Nn7g36299' => 'nnu', 'Oeu021485.1' => 'oeu', 'Oeu022433.1' => 'oeu', 'Oeu032111.1' => 'oeu', 'Oeu051608.1' => 'oeu', 'Os01g0860601' => 'osa', 'Os03g0659200' => 'osa', 'Os03g0835900' => 'osa', 'Os04g0412200' => 'osa', 'Os05g0443500' => 'osa', 'Os07g0251500' => 'osa', 'Os08g0104600' => 'osa', 'Peaxi162Scf00003g00047' => 'pax', 'Peaxi162Scf00003g00052' => 'pax', 'Peaxi162Scf00003g00394' => 'pax', 'Peaxi162Scf00091g00621' => 'pax', 'Peaxi162Scf00152g00146' => 'pax', 'Peaxi162Scf00173g00025' => 'pax', 'Peaxi162Scf00195g00102' => 'pax', 'Peaxi162Scf00402g00013' => 'pax', 'Peaxi162Scf00519g00618' => 'pax', 'PGR004G2838' => 'pgr', 'PGR044G2275' => 'pgr', 'PGR102G1377' => 'pgr', 'PGR119G1245' => 'pgr', 'PGR142G4449' => 'pgr', 'PGSC0003DMG400004532' => 'stu', 'PGSC0003DMG400011950' => 'stu', 'PGSC0003DMG400023391' => 'stu', 'PGSC0003DMG400023985' => 'stu', 'PGSC0003DMG400026360' => 'stu', 'PGSC0003DMG400035711' => 'stu', 'PGSC0003DMG400037286' => 'stu', 'PGSC0003DMG402005881' => 'stu', 'Phvul.002G045400' => 'pvu', 'Phvul.006G216600' => 'pvu', 'Phvul.006G216700' => 'pvu', 'Phvul.006G216800' => 'pvu', 'Phvul.007G022500' => 'pvu', 'Phvul.011G094400' => 'pvu', 'Potri.001G470700' => 'ptr', 'Potri.003G015200' => 'ptr', 'Potri.004G202500' => 'ptr', 'Potri.004G218400' => 'ptr', 'Potri.008G020100' => 'ptr', 'Potri.008G153200' => 'ptr', 'Potri.009G163800' => 'ptr', 'Potri.010G087300' => 'ptr', 'Potri.010G239100' => 'ptr', 'Pp3c10_16100' => 'ppa', 'Pp3c10_16880' => 'ppa', 'Pp3c16_6230' => 'ppa', 'Pp3c17_18910' => 'ppa', 'Pp3c3_22119' => 'ppa', 'Pp3c3_22140' => 'ppa', 'Pp3c4_8159' => 'ppa', 'Pp3c4_8171' => 'ppa', 'Pp3c4_8330' => 'ppa', 'PRCOL_00004098' => 'pco', 'Prupe.1G013900' => 'ppe', 'Prupe.1G226300' => 'ppe', 'Prupe.1G573600' => 'ppe', 'Prupe.6G130100' => 'ppe', 'Psat3g090040' => 'psa', 'Psat4g210440' => 'psa', 'Psat6g231040' => 'psa', 'Psat6g231080' => 'psa', 'Psat7g063000' => 'psa', 'Psat7g188000' => 'psa', 'Psat7g188040' => 'psa', 'PSO017G0206' => 'pso', 'PSO170G0501' => 'pso', 'PSO170G6422' => 'pso', 'PSO210G7739' => 'pso', 'PSO339G1808' => 'pso', 'PSO339G6135' => 'pso', 'PSO384G0010' => 'pso', 'PSO384G0964' => 'pso', 'PSO761G0050' => 'pso', 'PSO782G4085' => 'pso', 'QL01p012264' => 'qlo', 'QL02p099491' => 'qlo', 'QL03p033868' => 'qlo', 'QL04p046678' => 'qlo', 'QL06p002448' => 'qlo', 'RcHm_v2.0_Chr4g0416181' => 'rch', 'RcHm_v2.0_Chr5g0044701' => 'rch', 'RcHm_v2.0_Chr6g0265781' => 'rch', 'RcHm_v2.0_Chr7g0221031' => 'rch', 'Rhsim04G0202000' => 'rsi', 'Rhsim11G0127300' => 'rsi', 'Rhsim13G0111800' => 'rsi', 'Sabra01G0165600' => 'sbr', 'Sabra03G0008300' => 'sbr', 'Sabra04G0136900' => 'sbr', 'Sabra08G0013400' => 'sbr', 'Sabra08G0116800' => 'sbr', 'Sabra09G0128000' => 'sbr', 'Sabra10G0055500' => 'sbr', 'Sabra10G0073300' => 'sbr', 'SalBow3G0385' => 'sbo', 'SalBow3G1119' => 'sbo', 'SalBow3G2005' => 'sbo', 'SalBow6G2563' => 'sbo', 'SalBow6G6386' => 'sbo', 'Sc06g0008800' => 'sci', 'Sc07g0004950' => 'sci', 'Sc09g0005340' => 'sci', 'Sc13g0004410' => 'sci', 'Sc21g0007090' => 'sci', 'Sed0009285' => 'sed', 'Sed0017583' => 'sed', 'Sed0019699' => 'sed', 'Sed0023107' => 'sed', 'SEGI_10916' => 'sgi', 'SEGI_16217' => 'sgi', 'SEGI_19466' => 'sgi', 'SEGI_41115' => 'sgi', 'SGA_v2.0_scaffold111G31534' => 'sas', 'SGA_v2.0_scaffold22G09864' => 'sas', 'SGA_v2.0_scaffold338G49219' => 'sas', 'SGA_v2.0_scaffold92G28298' => 'sas', 'SMO119G0064' => 'smo', 'SMO223G0038' => 'smo', 'SMO347G0584' => 'smo', 'SMO351G0010' => 'smo', 'SMO356G0404' => 'smo', 'Solyc01g103920.3' => 'sly', 'Solyc04g009710.2' => 'sly', 'Solyc05g055280.2' => 'sly', 'Solyc10g044520.3' => 'sly', 'Solyc10g075160.1' => 'sly', 'Solyc11g006910.3' => 'sly', 'Solyc11g068430.3' => 'sly', 'Sopen01g046310' => 'spe', 'Sopen03g001200' => 'spe', 'Sopen04g004830' => 'spe', 'Sopen05g033720' => 'spe', 'Sopen06g030740' => 'spe', 'Sopen10g013090' => 'spe', 'Sopen10g027630' => 'spe', 'Sopen10g027640' => 'spe', 'Sopen11g002820' => 'spe', 'Sopen11g027140' => 'spe', 'Sp1g09680' => 'spa', 'Sp2g03630' => 'spa', 'Sp4g10320' => 'spa', 'Sp6g33400' => 'spa', 'Sp7g13030' => 'spa', 'TAR365G0317' => 'tar', 'TAR376G0979' => 'tar', 'TAR623G1665' => 'tar', 'TAR633G2373' => 'tar', 'TAR636G1400' => 'tar', 'THA.LOC104800529' => 'tha', 'THA.LOC104808547' => 'tha', 'THA.LOC104809615' => 'tha', 'THA.LOC104815724' => 'tha', 'THA.LOC104818480' => 'tha', 'THA.LOC104819179' => 'tha', 'THA.LOC104822270' => 'tha', 'THA.LOC104826425' => 'tha', 'Thecc.02G089700' => 'tca', 'Thecc.04G232300' => 'tca', 'Thecc.09G283400' => 'tca', 'Thhalv10009020m.g' => 'esa', 'Thhalv10015506m.g' => 'esa', 'Thhalv10017364m.g' => 'esa', 'Thhalv10023742m.g' => 'esa', 'Thhalv10026483m.g' => 'esa', 'TPR.G17232' => 'tpr', 'TPR.G2133' => 'tpr', 'TPR.G2498' => 'tpr', 'TPR.G31942' => 'tpr', 'TPR.G37877' => 'tpr', 'TPR.G4571' => 'tpr', 'TWI14G1113' => 'twi', 'TWI15G0426' => 'twi', 'TWI31G1005' => 'twi', 'TWI38G0513' => 'twi', 'TWI38G1484' => 'twi', 'TWI73G1098' => 'twi', 'unitig_26.g10519' => 'ugi', 'unitig_736.g22395' => 'ugi', 'unitig_747.g21234' => 'ugi', 'unitig_747.g21942' => 'ugi', 'vmacro14351' => 'vma', 'VMungo0540G0082' => 'vmu', 'VMungo0540G0405' => 'vmu', 'VMungo0540G1486' => 'vmu', 'VMungo0540G1692' => 'vmu', 'VMungo0720G2473' => 'vmu', 'VMungo1127G1562' => 'vmu', 'VMungo1215G1918' => 'vmu', 'Zm00001eb052650' => 'zma', 'Zm00001eb063710' => 'zma', 'Zm00001eb083950' => 'zma', 'Zm00001eb174420' => 'zma', 'Zm00001eb260140' => 'zma', 'Zm00001eb260150' => 'zma', 'Zm00001eb260160' => 'zma', 'Zm00001eb348290' => 'zma', 'Zm00001eb366870' => 'zma', 'Zm00001eb421930' => 'zma' ), 'gf_id' => 'HOM05D001025', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001025' ), 'data_identifier' => 'HOM05D001025', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001025', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '592', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p22650' => 'bna', 'A01p29720' => 'bna', 'A03p26560' => 'bna', 'A03p68820' => 'bna', 'A04p20980' => 'bna', 'A06p07730' => 'bna', 'A07p18260' => 'bna', 'A08p33710' => 'bna', 'A09p16970' => 'bna', 'A10p27490' => 'bna', 'Aa31LG1G17300' => 'aar', 'Aa31LG1G3910' => 'aar', 'Aa31LG2G9630' => 'aar', 'Aa31LG5G8360' => 'aar', 'Aa31LG9G2410' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4699' => 'aag', 'Actinidia23512' => 'ach', 'Actinidia37080' => 'ach', 'Ah.01g020380' => 'amhyb', 'Ah.08g215710' => 'amhyb', 'Ah.09g225110' => 'amhyb', 'Ah.10g036680' => 'amhyb', 'AL1G21940' => 'aly', 'AL2G15540' => 'aly', 'AL4G21520' => 'aly', 'AL7G40960' => 'aly', 'Aqoxy2G01191' => 'aox', 'Aqoxy2G03393' => 'aox', 'Aqoxy4G02775' => 'aox', 'Aqoxy6G00058' => 'aox', 'arahy.Tifrunner.gnm1.ann1.9X74H2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CW3FX9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R485W7' => 'arhy', 'AT1G10960' => 'ath', 'AT1G60950' => 'ath', 'AT2G27510' => 'ath', 'AT4G14890' => 'ath', 'AT5G10000' => 'ath', 'ATR0665G624' => 'atr', 'ATR0697G138' => 'atr', 'ATR0776G046' => 'atr', 'ATR1134G135' => 'atr', 'Atru.chr12.1025' => 'acertr', 'Atru.chr3.3241' => 'acertr', 'Atru.chr4.2460' => 'acertr', 'AUR62007427' => 'cqu', 'AUR62010960' => 'cqu', 'AUR62012201' => 'cqu', 'AUR62021470' => 'cqu', 'AUR62022834' => 'cqu', 'AUR62033635' => 'cqu', 'AUR62036186' => 'cqu', 'BcaB01g03077' => 'bca', 'BcaB02g10093' => 'bca', 'BcaB04g20295' => 'bca', 'BcaB06g28147' => 'bca', 'BcaB07g31253' => 'bca', 'BcaC01g04946' => 'bca', 'BcaC02g10614' => 'bca', 'BcaC02g10885' => 'bca', 'BcaC04g19356' => 'bca', 'BcaC04g22297' => 'bca', 'BcaC05g24977' => 'bca', 'BcaC06g31823' => 'bca', 'BcaC07g38633' => 'bca', 'BcaC09g49353' => 'bca', 'BcaC09g50168' => 'bca', 'BcaNung00322' => 'bca', 'BcaNung04769' => 'bca', 'BolC1t02753H' => 'bol', 'BolC1t03721H' => 'bol', 'BolC3t15525H' => 'bol', 'BolC4t23903H' => 'bol', 'BolC4t24231H' => 'bol', 'BolC4t27209H' => 'bol', 'BolC5t29671H' => 'bol', 'BolC8t49044H' => 'bol', 'BolC9t54999H' => 'bol', 'BolC9t59517H' => 'bol', 'BraA01t02178Z' => 'bra', 'BraA01t03099Z' => 'bra', 'BraA03t11867Z' => 'bra', 'BraA04t17667Z' => 'bra', 'BraA07t29542Z' => 'bra', 'BraA08t35287Z' => 'bra', 'BraA09t37334Z' => 'bra', 'BraA10t44801Z' => 'bra', 'BraSC39t46181Z' => 'bra', 'C01p28240' => 'bna', 'C01p37530' => 'bna', 'C03p31820' => 'bna', 'C04p24080' => 'bna', 'C04p25790' => 'bna', 'C04p56770' => 'bna', 'C05p09310' => 'bna', 'C09p21010' => 'bna', 'C09p67560' => 'bna', 'CAN.G1324.7' => 'can', 'CAN.G1358.10' => 'can', 'CAN.G1550.2' => 'can', 'CAN.G186.56' => 'can', 'CAN.G1965.1' => 'can', 'CAN.G645.15' => 'can', 'CAN.G798.26' => 'can', 'CAN.G798.27' => 'can', 'CAN.G798.29' => 'can', 'CAN.G919.31' => 'can', 'CANSAT11G0133' => 'cansat', 'CANSAT11G1171' => 'cansat', 'CANSAT11G2056' => 'cansat', 'CANSAT56G1202' => 'cansat', 'CANSAT56G1514' => 'cansat', 'CANSAT78G0455' => 'cansat', 'CARHR011190' => 'chi', 'CARHR051980' => 'chi', 'CARHR120170' => 'chi', 'CARHR203310' => 'chi', 'CARHR221490' => 'chi', 'Carub.0001s1054' => 'cru', 'Carub.0002s0431' => 'cru', 'Carub.0004s0818' => 'cru', 'Carub.0006s0846' => 'cru', 'Carub.0007s2722' => 'cru', 'Ca_00058_v3' => 'car', 'Ca_17831_v3' => 'car', 'Ca_19408_v3' => 'car', 'Ca_24397_v3' => 'car', 'Ca_25664_v3' => 'car', 'CBR_g21818' => 'cbr', 'CBR_g31195' => 'cbr', 'CBR_g32282' => 'cbr', 'CBR_g39599' => 'cbr', 'CBR_g49410' => 'cbr', 'Cc01_g09120' => 'ccan', 'Cc01_g09130' => 'ccan', 'Cc02_g09630' => 'ccan', 'Cc02_g22810' => 'ccan', 'Cc03_g03810' => 'ccan', 'CDE02G3718' => 'cde', 'CDE04G3183' => 'cde', 'CDE07G1046' => 'cde', 'CDE08G0480' => 'cde', 'Cfa005493' => 'cfa', 'Cfa010312' => 'cfa', 'Cfa015648' => 'cfa', 'Ciclev10002793m.g' => 'ccl', 'Ciclev10003356m.g' => 'ccl', 'Ciclev10006141m.g' => 'ccl', 'Ciclev10016676m.g' => 'ccl', 'Ciclev10017081m.g' => 'ccl', 'Ciclev10029499m.g' => 'ccl', 'CiPaw.01G166300' => 'cil', 'CiPaw.06G145600' => 'cil', 'CiPaw.13G040100' => 'cil', 'CiPaw.13G135800' => 'cil', 'ClCG01G012230' => 'cla', 'ClCG05G009510' => 'cla', 'ClCG08G008270' => 'cla', 'COL.COLO4_11763' => 'col', 'COL.COLO4_19876' => 'col', 'COL.COLO4_21481' => 'col', 'Cpa.g.sc118.34' => 'cpa', 'Cpa.g.sc32.13' => 'cpa', 'Cpa.g.sc58.103' => 'cpa', 'Cre03.g183850' => 'cre', 'Cre06.g306350' => 'cre', 'Cre07.g334800' => 'cre', 'Cre12.g487900' => 'cre', 'Cre14.g626700' => 'cre', 'Cre16.g658400' => 'cre', 'Cre17.g700950' => 'cre', 'CsaV3_1G014830' => 'csa', 'CsaV3_3G013320' => 'csa', 'CsaV3_3G019210' => 'csa', 'CsaV3_3G019220' => 'csa', 'CsaV3_6G004230' => 'csa', 'CSS0003773' => 'camsi', 'CSS0004563' => 'camsi', 'CSS0013949' => 'camsi', 'CSS0025971' => 'camsi', 'CSS0028570' => 'camsi', 'CSS0033127' => 'camsi', 'CSS0036051' => 'camsi', 'CSS0040087' => 'camsi', 'CSS0043179' => 'camsi', 'DCAR_006161' => 'dca', 'DCAR_010351' => 'dca', 'DCAR_012197' => 'dca', 'DCAR_024162' => 'dca', 'Dinv01030' => 'din', 'Dinv10924' => 'din', 'Dinv11835' => 'din', 'Dinv22841' => 'din', 'Dinv42553' => 'din', 'Duzib052G0560' => 'dzi', 'Duzib132G0389' => 'dzi', 'Duzib150G1181' => 'dzi', 'Duzib168G0623' => 'dzi', 'Duzib170G1036' => 'dzi', 'Duzib212G0200' => 'dzi', 'Duzib248G0194' => 'dzi', 'ECA232G2193' => 'eca', 'ECA233G0302' => 'eca', 'ECA234G2813' => 'eca', 'ECA234G4866' => 'eca', 'ECA240G3932' => 'eca', 'ECA248G0385' => 'eca', 'EL10Ac2g04781' => 'bvu', 'EL10Ac3g06445' => 'bvu', 'EL10Ac7g15825' => 'bvu', 'EL10Ac8g18550' => 'bvu', 'Eucgr.B03849' => 'egr', 'Eucgr.I02744' => 'egr', 'Eucgr.J00264' => 'egr', 'Eucgr.J00493' => 'egr', 'FAN04G2181' => 'fan', 'FAN07G2666' => 'fan', 'FAN11G0024' => 'fan', 'FAN12G1105' => 'fan', 'FAN13G0302' => 'fan', 'FAN15G2781' => 'fan', 'FAN16G1274' => 'fan', 'FAN17G2988' => 'fan', 'FAN18G2621' => 'fan', 'FAN21G0013' => 'fan', 'FAN22G1211' => 'fan', 'FAN25G3626' => 'fan', 'FvH4_2g09491' => 'fve', 'FvH4_3g24910' => 'fve', 'FvH4_4g15630' => 'fve', 'FvH4_5g28820' => 'fve', 'Glyma.01G238000' => 'gma', 'Glyma.05G168400' => 'gma', 'Glyma.08G126800' => 'gma', 'Glyma.08G188500' => 'gma', 'Glyma.10G278900' => 'gma', 'Glyma.11G005700' => 'gma', 'Glyma.11G183300' => 'gma', 'Glyma.12G089200' => 'gma', 'Glyma.12G169400' => 'gma', 'Glyma.12G169500' => 'gma', 'Glyma.12G169600' => 'gma', 'Glyma.20G110800' => 'gma', 'Gohir.A03G192900' => 'ghi', 'Gohir.A03G193000' => 'ghi', 'Gohir.A05G080700' => 'ghi', 'Gohir.A09G216000' => 'ghi', 'Gohir.A12G027700' => 'ghi', 'Gohir.A13G036200' => 'ghi', 'Gohir.A13G222600' => 'ghi', 'Gohir.D02G213900' => 'ghi', 'Gohir.D02G214000' => 'ghi', 'Gohir.D05G083700' => 'ghi', 'Gohir.D05G083800' => 'ghi', 'Gohir.D05G083850' => 'ghi', 'Gohir.D08G015400' => 'ghi', 'Gohir.D09G218400' => 'ghi', 'Gohir.D12G027100' => 'ghi', 'Gohir.D13G034500' => 'ghi', 'Gohir.D13G227400' => 'ghi', 'Gorai.005G241800' => 'gra', 'Gorai.005G241900' => 'gra', 'Gorai.006G239400' => 'gra', 'Gorai.008G027600' => 'gra', 'Gorai.009G085400' => 'gra', 'Gorai.009G085500' => 'gra', 'Gorai.013G039000' => 'gra', 'Gorai.013G194800' => 'gra', 'Gorai.013G257900' => 'gra', 'GSVIVG01000982001' => 'vvi', 'GSVIVG01017981001' => 'vvi', 'HanXRQChr01g0024061' => 'han', 'HanXRQChr09g0247831' => 'han', 'HanXRQChr10g0294611' => 'han', 'HanXRQChr10g0294621' => 'han', 'HanXRQChr11g0346821' => 'han', 'HanXRQChr13g0397461' => 'han', 'HanXRQChr16g0513651' => 'han', 'HanXRQChr16g0513701' => 'han', 'Haze_00897' => 'cav', 'Haze_01745' => 'cav', 'Haze_02486' => 'cav', 'Haze_02487' => 'cav', 'Haze_23374' => 'cav', 'Hma1.2p1_0578F.1_g182520' => 'hma', 'Hma1.2p1_0602F.1_g187350' => 'hma', 'Hma1.2p1_0602F.1_g187360' => 'hma', 'Hma1.2p1_0874F.1_g231320' => 'hma', 'Hma1.2p1_1197F.1_g266210' => 'hma', 'Hma1.2p1_1197F.1_g266220' => 'hma', 'Hma1.2p1_2167F.1_g315895' => 'hma', 'Hma1.2p1_2190F.1_g316640' => 'hma', 'Hma1.2p1_3645F.1_g337153' => 'hma', 'HPP92_004907' => 'vpl', 'HPP92_012134' => 'vpl', 'HPP92_025136' => 'vpl', 'HPP92_026087' => 'vpl', 'Hund06782' => 'sun', 'Hund06784' => 'sun', 'Lalb_Chr01g0004861' => 'lal', 'Lalb_Chr02g0140591' => 'lal', 'Lalb_Chr02g0140611' => 'lal', 'Lalb_Chr03g0028101' => 'lal', 'Lalb_Chr07g0185791' => 'lal', 'Lalb_Chr12g0204491' => 'lal', 'Lalb_Chr13g0295671' => 'lal', 'Lalb_Chr19g0136461' => 'lal', 'Lalb_Chr21g0309191' => 'lal', 'Lj1g0028158' => 'lja', 'Lj1P236T38' => 'lonja', 'Lj2C32G2' => 'lonja', 'Lj2P944T8' => 'lonja', 'Lj2P963T15' => 'lonja', 'Lj3g0011788' => 'lja', 'Lj4g0025027' => 'lja', 'Lj5P255T36' => 'lonja', 'Lj6g0018866' => 'lja', 'Lj6P608T31' => 'lonja', 'LjContig00408g0008879' => 'lja', 'Lsat_1_v5_gn_5_105820' => 'lsa', 'Lsat_1_v5_gn_6_38800' => 'lsa', 'Lsat_1_v5_gn_7_67141' => 'lsa', 'Manes.04G003400' => 'mes', 'Manes.07G020000' => 'mes', 'Manes.07G020100' => 'mes', 'Manes.07G020150' => 'mes', 'Manes.10G061500' => 'mes', 'Manes.10G123200' => 'mes', 'Manes.11G161900' => 'mes', 'Manes.15G029300' => 'mes', 'Mapoly0071s0018' => 'mpo', 'Mapoly0082s0023' => 'mpo', 'Mapoly3477s0001' => 'mpo', 'MBI05_g31233_MAGBIO' => 'mbi', 'MBI09_g05946_MAGBIO' => 'mbi', 'MBI09_g05947_MAGBIO' => 'mbi', 'MBI17_g08346_MAGBIO' => 'mbi', 'MCO04G038' => 'mco', 'MCO09G370' => 'mco', 'MCO13G605' => 'mco', 'MD00G1075500' => 'mdo', 'MD03G1144300' => 'mdo', 'MD08G1236800' => 'mdo', 'MD13G1193300' => 'mdo', 'MD15G1428700' => 'mdo', 'Medtr1g112030' => 'mtr', 'Medtr1g112050' => 'mtr', 'Medtr2g006290' => 'mtr', 'Medtr2g086510' => 'mtr', 'Medtr4g053120' => 'mtr', 'Medtr5g006320' => 'mtr', 'Medtr8g088720' => 'mtr', 'MELO3C004712.2' => 'cme', 'MELO3C006533.2' => 'cme', 'MELO3C019438.2' => 'cme', 'MELO3C019440.2' => 'cme', 'MELO3C019441.2' => 'cme', 'MELO3C019895.2' => 'cme', 'Migut.B00811' => 'egut', 'Migut.D02447' => 'egut', 'Migut.F00875' => 'egut', 'Migut.N00186' => 'egut', 'Migut.N01051' => 'egut', 'Migut.N02491' => 'egut', 'Migut.O00784' => 'egut', 'MSTRG.12367' => 'ama', 'MSTRG.18756' => 'ama', 'MSTRG.21042' => 'ama', 'Nitab4.5_0000559g0040' => 'nta', 'Nitab4.5_0000667g0190' => 'nta', 'Nitab4.5_0000755g0160' => 'nta', 'Nitab4.5_0001216g0080' => 'nta', 'Nitab4.5_0004069g0040' => 'nta', 'Nitab4.5_0004129g0010' => 'nta', 'Nitab4.5_0005744g0030' => 'nta', 'Nitab4.5_0006996g0030' => 'nta', 'Nitab4.5_0008971g0040' => 'nta', 'Nitab4.5_0009769g0020' => 'nta', 'Nitab4.5_0009833g0010' => 'nta', 'Nitab4.5_0013140g0020' => 'nta', 'Nn003s41376' => 'nnu', 'Nn1g01857' => 'nnu', 'Nn1g03611' => 'nnu', 'Nn1g06853' => 'nnu', 'Nn3g18360' => 'nnu', 'Nn4g26328' => 'nnu', 'Nn5g27531' => 'nnu', 'Nn6g34899' => 'nnu', 'Nn7g36299' => 'nnu', 'Oeu021485.1' => 'oeu', 'Oeu022433.1' => 'oeu', 'Oeu032111.1' => 'oeu', 'Oeu051608.1' => 'oeu', 'Os01g0860601' => 'osa', 'Os03g0659200' => 'osa', 'Os03g0835900' => 'osa', 'Os04g0412200' => 'osa', 'Os05g0443500' => 'osa', 'Os07g0251500' => 'osa', 'Os08g0104600' => 'osa', 'Peaxi162Scf00003g00047' => 'pax', 'Peaxi162Scf00003g00052' => 'pax', 'Peaxi162Scf00003g00394' => 'pax', 'Peaxi162Scf00091g00621' => 'pax', 'Peaxi162Scf00152g00146' => 'pax', 'Peaxi162Scf00173g00025' => 'pax', 'Peaxi162Scf00195g00102' => 'pax', 'Peaxi162Scf00402g00013' => 'pax', 'Peaxi162Scf00519g00618' => 'pax', 'PGR004G2838' => 'pgr', 'PGR044G2275' => 'pgr', 'PGR102G1377' => 'pgr', 'PGR119G1245' => 'pgr', 'PGR142G4449' => 'pgr', 'PGSC0003DMG400004532' => 'stu', 'PGSC0003DMG400011950' => 'stu', 'PGSC0003DMG400023391' => 'stu', 'PGSC0003DMG400023985' => 'stu', 'PGSC0003DMG400026360' => 'stu', 'PGSC0003DMG400035711' => 'stu', 'PGSC0003DMG400037286' => 'stu', 'PGSC0003DMG402005881' => 'stu', 'Phvul.002G045400' => 'pvu', 'Phvul.006G216600' => 'pvu', 'Phvul.006G216700' => 'pvu', 'Phvul.006G216800' => 'pvu', 'Phvul.007G022500' => 'pvu', 'Phvul.011G094400' => 'pvu', 'Potri.001G470700' => 'ptr', 'Potri.003G015200' => 'ptr', 'Potri.004G202500' => 'ptr', 'Potri.004G218400' => 'ptr', 'Potri.008G020100' => 'ptr', 'Potri.008G153200' => 'ptr', 'Potri.009G163800' => 'ptr', 'Potri.010G087300' => 'ptr', 'Potri.010G239100' => 'ptr', 'Pp3c10_16100' => 'ppa', 'Pp3c10_16880' => 'ppa', 'Pp3c16_6230' => 'ppa', 'Pp3c17_18910' => 'ppa', 'Pp3c3_22119' => 'ppa', 'Pp3c3_22140' => 'ppa', 'Pp3c4_8159' => 'ppa', 'Pp3c4_8171' => 'ppa', 'Pp3c4_8330' => 'ppa', 'PRCOL_00004098' => 'pco', 'Prupe.1G013900' => 'ppe', 'Prupe.1G226300' => 'ppe', 'Prupe.1G573600' => 'ppe', 'Prupe.6G130100' => 'ppe', 'Psat3g090040' => 'psa', 'Psat4g210440' => 'psa', 'Psat6g231040' => 'psa', 'Psat6g231080' => 'psa', 'Psat7g063000' => 'psa', 'Psat7g188000' => 'psa', 'Psat7g188040' => 'psa', 'PSO017G0206' => 'pso', 'PSO170G0501' => 'pso', 'PSO170G6422' => 'pso', 'PSO210G7739' => 'pso', 'PSO339G1808' => 'pso', 'PSO339G6135' => 'pso', 'PSO384G0010' => 'pso', 'PSO384G0964' => 'pso', 'PSO761G0050' => 'pso', 'PSO782G4085' => 'pso', 'QL01p012264' => 'qlo', 'QL02p099491' => 'qlo', 'QL03p033868' => 'qlo', 'QL04p046678' => 'qlo', 'QL06p002448' => 'qlo', 'RcHm_v2.0_Chr4g0416181' => 'rch', 'RcHm_v2.0_Chr5g0044701' => 'rch', 'RcHm_v2.0_Chr6g0265781' => 'rch', 'RcHm_v2.0_Chr7g0221031' => 'rch', 'Rhsim04G0202000' => 'rsi', 'Rhsim11G0127300' => 'rsi', 'Rhsim13G0111800' => 'rsi', 'Sabra01G0165600' => 'sbr', 'Sabra03G0008300' => 'sbr', 'Sabra04G0136900' => 'sbr', 'Sabra08G0013400' => 'sbr', 'Sabra08G0116800' => 'sbr', 'Sabra09G0128000' => 'sbr', 'Sabra10G0055500' => 'sbr', 'Sabra10G0073300' => 'sbr', 'SalBow3G0385' => 'sbo', 'SalBow3G1119' => 'sbo', 'SalBow3G2005' => 'sbo', 'SalBow6G2563' => 'sbo', 'SalBow6G6386' => 'sbo', 'Sc06g0008800' => 'sci', 'Sc07g0004950' => 'sci', 'Sc09g0005340' => 'sci', 'Sc13g0004410' => 'sci', 'Sc21g0007090' => 'sci', 'Sed0009285' => 'sed', 'Sed0017583' => 'sed', 'Sed0019699' => 'sed', 'Sed0023107' => 'sed', 'SEGI_10916' => 'sgi', 'SEGI_16217' => 'sgi', 'SEGI_19466' => 'sgi', 'SEGI_41115' => 'sgi', 'SGA_v2.0_scaffold111G31534' => 'sas', 'SGA_v2.0_scaffold22G09864' => 'sas', 'SGA_v2.0_scaffold338G49219' => 'sas', 'SGA_v2.0_scaffold92G28298' => 'sas', 'SMO119G0064' => 'smo', 'SMO223G0038' => 'smo', 'SMO347G0584' => 'smo', 'SMO351G0010' => 'smo', 'SMO356G0404' => 'smo', 'Solyc01g103920.3' => 'sly', 'Solyc04g009710.2' => 'sly', 'Solyc05g055280.2' => 'sly', 'Solyc10g044520.3' => 'sly', 'Solyc10g075160.1' => 'sly', 'Solyc11g006910.3' => 'sly', 'Solyc11g068430.3' => 'sly', 'Sopen01g046310' => 'spe', 'Sopen03g001200' => 'spe', 'Sopen04g004830' => 'spe', 'Sopen05g033720' => 'spe', 'Sopen06g030740' => 'spe', 'Sopen10g013090' => 'spe', 'Sopen10g027630' => 'spe', 'Sopen10g027640' => 'spe', 'Sopen11g002820' => 'spe', 'Sopen11g027140' => 'spe', 'Sp1g09680' => 'spa', 'Sp2g03630' => 'spa', 'Sp4g10320' => 'spa', 'Sp6g33400' => 'spa', 'Sp7g13030' => 'spa', 'TAR365G0317' => 'tar', 'TAR376G0979' => 'tar', 'TAR623G1665' => 'tar', 'TAR633G2373' => 'tar', 'TAR636G1400' => 'tar', 'THA.LOC104800529' => 'tha', 'THA.LOC104808547' => 'tha', 'THA.LOC104809615' => 'tha', 'THA.LOC104815724' => 'tha', 'THA.LOC104818480' => 'tha', 'THA.LOC104819179' => 'tha', 'THA.LOC104822270' => 'tha', 'THA.LOC104826425' => 'tha', 'Thecc.02G089700' => 'tca', 'Thecc.04G232300' => 'tca', 'Thecc.09G283400' => 'tca', 'Thhalv10009020m.g' => 'esa', 'Thhalv10015506m.g' => 'esa', 'Thhalv10017364m.g' => 'esa', 'Thhalv10023742m.g' => 'esa', 'Thhalv10026483m.g' => 'esa', 'TPR.G17232' => 'tpr', 'TPR.G2133' => 'tpr', 'TPR.G2498' => 'tpr', 'TPR.G31942' => 'tpr', 'TPR.G37877' => 'tpr', 'TPR.G4571' => 'tpr', 'TWI14G1113' => 'twi', 'TWI15G0426' => 'twi', 'TWI31G1005' => 'twi', 'TWI38G0513' => 'twi', 'TWI38G1484' => 'twi', 'TWI73G1098' => 'twi', 'unitig_26.g10519' => 'ugi', 'unitig_736.g22395' => 'ugi', 'unitig_747.g21234' => 'ugi', 'unitig_747.g21942' => 'ugi', 'vmacro14351' => 'vma', 'VMungo0540G0082' => 'vmu', 'VMungo0540G0405' => 'vmu', 'VMungo0540G1486' => 'vmu', 'VMungo0540G1692' => 'vmu', 'VMungo0720G2473' => 'vmu', 'VMungo1127G1562' => 'vmu', 'VMungo1215G1918' => 'vmu', 'Zm00001eb052650' => 'zma', 'Zm00001eb063710' => 'zma', 'Zm00001eb083950' => 'zma', 'Zm00001eb174420' => 'zma', 'Zm00001eb260140' => 'zma', 'Zm00001eb260150' => 'zma', 'Zm00001eb260160' => 'zma', 'Zm00001eb348290' => 'zma', 'Zm00001eb366870' => 'zma', 'Zm00001eb421930' => 'zma' ) $gf_id = 'HOM05D001025' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001025' ) $data_identifier = 'HOM05D001025' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 19, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 2, 'amhyb' => (int) 4, 'aly' => (int) 4, 'aox' => (int) 4, 'arhy' => (int) 3, 'ath' => (int) 5, 'atr' => (int) 4, 'acertr' => (int) 3, 'cqu' => (int) 7, 'bca' => (int) 17, 'bol' => (int) 10, 'bra' => (int) 9, 'can' => (int) 10, 'cansat' => (int) 6, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 5, 'cbr' => (int) 5, 'ccan' => (int) 5, 'cde' => (int) 4, 'cfa' => (int) 3, 'ccl' => (int) 6, 'cil' => (int) 4, 'cla' => (int) 3, 'col' => (int) 3, 'cpa' => (int) 3, 'cre' => (int) 7, 'csa' => (int) 5, 'camsi' => (int) 9, 'dca' => (int) 4, 'din' => (int) 5, 'dzi' => (int) 7, 'eca' => (int) 6, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 12, 'fve' => (int) 4, 'gma' => (int) 12, 'ghi' => (int) 17, 'gra' => (int) 9, 'vvi' => (int) 2, 'han' => (int) 8, 'cav' => (int) 5, 'hma' => (int) 9, 'vpl' => (int) 4, 'sun' => (int) 2, 'lal' => (int) 9, 'lja' => (int) 5, 'lonja' => (int) 6, 'lsa' => (int) 3, 'mes' => (int) 8, 'mpo' => (int) 3, 'mbi' => (int) 4, 'mco' => (int) 3, 'mdo' => (int) 5, 'mtr' => (int) 7, 'cme' => (int) 6, 'egut' => (int) 7, 'ama' => (int) 3, 'nta' => (int) 12, 'nnu' => (int) 9, 'oeu' => (int) 4, 'osa' => (int) 7, 'pax' => (int) 9, 'pgr' => (int) 5, 'stu' => (int) 8, 'pvu' => (int) 6, 'ptr' => (int) 9, 'ppa' => (int) 9, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 7, 'pso' => (int) 10, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 3, 'sbr' => (int) 8, 'sbo' => (int) 5, 'sci' => (int) 5, 'sed' => (int) 4, 'sgi' => (int) 4, 'sas' => (int) 4, 'smo' => (int) 5, 'sly' => (int) 7, 'spe' => (int) 10, 'spa' => (int) 5, 'tar' => (int) 5, 'tha' => (int) 8, 'tca' => (int) 3, 'esa' => (int) 5, 'tpr' => (int) 6, 'twi' => (int) 6, 'ugi' => (int) 4, 'vma' => (int) 1, 'vmu' => (int) 7, 'zma' => (int) 10 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb421930' $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' => 'HOM05D001025', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '592', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p22650' => 'bna', 'A01p29720' => 'bna', 'A03p26560' => 'bna', 'A03p68820' => 'bna', 'A04p20980' => 'bna', 'A06p07730' => 'bna', 'A07p18260' => 'bna', 'A08p33710' => 'bna', 'A09p16970' => 'bna', 'A10p27490' => 'bna', 'Aa31LG1G17300' => 'aar', 'Aa31LG1G3910' => 'aar', 'Aa31LG2G9630' => 'aar', 'Aa31LG5G8360' => 'aar', 'Aa31LG9G2410' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4699' => 'aag', 'Actinidia23512' => 'ach', 'Actinidia37080' => 'ach', 'Ah.01g020380' => 'amhyb', 'Ah.08g215710' => 'amhyb', 'Ah.09g225110' => 'amhyb', 'Ah.10g036680' => 'amhyb', 'AL1G21940' => 'aly', 'AL2G15540' => 'aly', 'AL4G21520' => 'aly', 'AL7G40960' => 'aly', 'Aqoxy2G01191' => 'aox', 'Aqoxy2G03393' => 'aox', 'Aqoxy4G02775' => 'aox', 'Aqoxy6G00058' => 'aox', 'arahy.Tifrunner.gnm1.ann1.9X74H2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CW3FX9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R485W7' => 'arhy', 'AT1G10960' => 'ath', 'AT1G60950' => 'ath', 'AT2G27510' => 'ath', 'AT4G14890' => 'ath', 'AT5G10000' => 'ath', 'ATR0665G624' => 'atr', 'ATR0697G138' => 'atr', 'ATR0776G046' => 'atr', 'ATR1134G135' => 'atr', 'Atru.chr12.1025' => 'acertr', 'Atru.chr3.3241' => 'acertr', 'Atru.chr4.2460' => 'acertr', 'AUR62007427' => 'cqu', 'AUR62010960' => 'cqu', 'AUR62012201' => 'cqu', 'AUR62021470' => 'cqu', 'AUR62022834' => 'cqu', 'AUR62033635' => 'cqu', 'AUR62036186' => 'cqu', 'BcaB01g03077' => 'bca', 'BcaB02g10093' => 'bca', 'BcaB04g20295' => 'bca', 'BcaB06g28147' => 'bca', 'BcaB07g31253' => 'bca', 'BcaC01g04946' => 'bca', 'BcaC02g10614' => 'bca', 'BcaC02g10885' => 'bca', 'BcaC04g19356' => 'bca', 'BcaC04g22297' => 'bca', 'BcaC05g24977' => 'bca', 'BcaC06g31823' => 'bca', 'BcaC07g38633' => 'bca', 'BcaC09g49353' => 'bca', 'BcaC09g50168' => 'bca', 'BcaNung00322' => 'bca', 'BcaNung04769' => 'bca', 'BolC1t02753H' => 'bol', 'BolC1t03721H' => 'bol', 'BolC3t15525H' => 'bol', 'BolC4t23903H' => 'bol', 'BolC4t24231H' => 'bol', 'BolC4t27209H' => 'bol', 'BolC5t29671H' => 'bol', 'BolC8t49044H' => 'bol', 'BolC9t54999H' => 'bol', 'BolC9t59517H' => 'bol', 'BraA01t02178Z' => 'bra', 'BraA01t03099Z' => 'bra', 'BraA03t11867Z' => 'bra', 'BraA04t17667Z' => 'bra', 'BraA07t29542Z' => 'bra', 'BraA08t35287Z' => 'bra', 'BraA09t37334Z' => 'bra', 'BraA10t44801Z' => 'bra', 'BraSC39t46181Z' => 'bra', 'C01p28240' => 'bna', 'C01p37530' => 'bna', 'C03p31820' => 'bna', 'C04p24080' => 'bna', 'C04p25790' => 'bna', 'C04p56770' => 'bna', 'C05p09310' => 'bna', 'C09p21010' => 'bna', 'C09p67560' => 'bna', 'CAN.G1324.7' => 'can', 'CAN.G1358.10' => 'can', 'CAN.G1550.2' => 'can', 'CAN.G186.56' => 'can', 'CAN.G1965.1' => 'can', 'CAN.G645.15' => 'can', 'CAN.G798.26' => 'can', 'CAN.G798.27' => 'can', 'CAN.G798.29' => 'can', 'CAN.G919.31' => 'can', 'CANSAT11G0133' => 'cansat', 'CANSAT11G1171' => 'cansat', 'CANSAT11G2056' => 'cansat', 'CANSAT56G1202' => 'cansat', 'CANSAT56G1514' => 'cansat', 'CANSAT78G0455' => 'cansat', 'CARHR011190' => 'chi', 'CARHR051980' => 'chi', 'CARHR120170' => 'chi', 'CARHR203310' => 'chi', 'CARHR221490' => 'chi', 'Carub.0001s1054' => 'cru', 'Carub.0002s0431' => 'cru', 'Carub.0004s0818' => 'cru', 'Carub.0006s0846' => 'cru', 'Carub.0007s2722' => 'cru', 'Ca_00058_v3' => 'car', 'Ca_17831_v3' => 'car', 'Ca_19408_v3' => 'car', 'Ca_24397_v3' => 'car', 'Ca_25664_v3' => 'car', 'CBR_g21818' => 'cbr', 'CBR_g31195' => 'cbr', 'CBR_g32282' => 'cbr', 'CBR_g39599' => 'cbr', 'CBR_g49410' => 'cbr', 'Cc01_g09120' => 'ccan', 'Cc01_g09130' => 'ccan', 'Cc02_g09630' => 'ccan', 'Cc02_g22810' => 'ccan', 'Cc03_g03810' => 'ccan', 'CDE02G3718' => 'cde', 'CDE04G3183' => 'cde', 'CDE07G1046' => 'cde', 'CDE08G0480' => 'cde', 'Cfa005493' => 'cfa', 'Cfa010312' => 'cfa', 'Cfa015648' => 'cfa', 'Ciclev10002793m.g' => 'ccl', 'Ciclev10003356m.g' => 'ccl', 'Ciclev10006141m.g' => 'ccl', 'Ciclev10016676m.g' => 'ccl', 'Ciclev10017081m.g' => 'ccl', 'Ciclev10029499m.g' => 'ccl', 'CiPaw.01G166300' => 'cil', 'CiPaw.06G145600' => 'cil', 'CiPaw.13G040100' => 'cil', 'CiPaw.13G135800' => 'cil', 'ClCG01G012230' => 'cla', 'ClCG05G009510' => 'cla', 'ClCG08G008270' => 'cla', 'COL.COLO4_11763' => 'col', 'COL.COLO4_19876' => 'col', 'COL.COLO4_21481' => 'col', 'Cpa.g.sc118.34' => 'cpa', 'Cpa.g.sc32.13' => 'cpa', 'Cpa.g.sc58.103' => 'cpa', 'Cre03.g183850' => 'cre', 'Cre06.g306350' => 'cre', 'Cre07.g334800' => 'cre', 'Cre12.g487900' => 'cre', 'Cre14.g626700' => 'cre', 'Cre16.g658400' => 'cre', 'Cre17.g700950' => 'cre', 'CsaV3_1G014830' => 'csa', 'CsaV3_3G013320' => 'csa', 'CsaV3_3G019210' => 'csa', 'CsaV3_3G019220' => 'csa', 'CsaV3_6G004230' => 'csa', 'CSS0003773' => 'camsi', 'CSS0004563' => 'camsi', 'CSS0013949' => 'camsi', 'CSS0025971' => 'camsi', 'CSS0028570' => 'camsi', 'CSS0033127' => 'camsi', 'CSS0036051' => 'camsi', 'CSS0040087' => 'camsi', 'CSS0043179' => 'camsi', 'DCAR_006161' => 'dca', 'DCAR_010351' => 'dca', 'DCAR_012197' => 'dca', 'DCAR_024162' => 'dca', 'Dinv01030' => 'din', 'Dinv10924' => 'din', 'Dinv11835' => 'din', 'Dinv22841' => 'din', 'Dinv42553' => 'din', 'Duzib052G0560' => 'dzi', 'Duzib132G0389' => 'dzi', 'Duzib150G1181' => 'dzi', 'Duzib168G0623' => 'dzi', 'Duzib170G1036' => 'dzi', 'Duzib212G0200' => 'dzi', 'Duzib248G0194' => 'dzi', 'ECA232G2193' => 'eca', 'ECA233G0302' => 'eca', 'ECA234G2813' => 'eca', 'ECA234G4866' => 'eca', 'ECA240G3932' => 'eca', 'ECA248G0385' => 'eca', 'EL10Ac2g04781' => 'bvu', 'EL10Ac3g06445' => 'bvu', 'EL10Ac7g15825' => 'bvu', 'EL10Ac8g18550' => 'bvu', 'Eucgr.B03849' => 'egr', 'Eucgr.I02744' => 'egr', 'Eucgr.J00264' => 'egr', 'Eucgr.J00493' => 'egr', 'FAN04G2181' => 'fan', 'FAN07G2666' => 'fan', 'FAN11G0024' => 'fan', 'FAN12G1105' => 'fan', 'FAN13G0302' => 'fan', 'FAN15G2781' => 'fan', 'FAN16G1274' => 'fan', 'FAN17G2988' => 'fan', 'FAN18G2621' => 'fan', 'FAN21G0013' => 'fan', 'FAN22G1211' => 'fan', 'FAN25G3626' => 'fan', 'FvH4_2g09491' => 'fve', 'FvH4_3g24910' => 'fve', 'FvH4_4g15630' => 'fve', 'FvH4_5g28820' => 'fve', 'Glyma.01G238000' => 'gma', 'Glyma.05G168400' => 'gma', 'Glyma.08G126800' => 'gma', 'Glyma.08G188500' => 'gma', 'Glyma.10G278900' => 'gma', 'Glyma.11G005700' => 'gma', 'Glyma.11G183300' => 'gma', 'Glyma.12G089200' => 'gma', 'Glyma.12G169400' => 'gma', 'Glyma.12G169500' => 'gma', 'Glyma.12G169600' => 'gma', 'Glyma.20G110800' => 'gma', 'Gohir.A03G192900' => 'ghi', 'Gohir.A03G193000' => 'ghi', 'Gohir.A05G080700' => 'ghi', 'Gohir.A09G216000' => 'ghi', 'Gohir.A12G027700' => 'ghi', 'Gohir.A13G036200' => 'ghi', 'Gohir.A13G222600' => 'ghi', 'Gohir.D02G213900' => 'ghi', 'Gohir.D02G214000' => 'ghi', 'Gohir.D05G083700' => 'ghi', 'Gohir.D05G083800' => 'ghi', 'Gohir.D05G083850' => 'ghi', 'Gohir.D08G015400' => 'ghi', 'Gohir.D09G218400' => 'ghi', 'Gohir.D12G027100' => 'ghi', 'Gohir.D13G034500' => 'ghi', 'Gohir.D13G227400' => 'ghi', 'Gorai.005G241800' => 'gra', 'Gorai.005G241900' => 'gra', 'Gorai.006G239400' => 'gra', 'Gorai.008G027600' => 'gra', 'Gorai.009G085400' => 'gra', 'Gorai.009G085500' => 'gra', 'Gorai.013G039000' => 'gra', 'Gorai.013G194800' => 'gra', 'Gorai.013G257900' => 'gra', 'GSVIVG01000982001' => 'vvi', 'GSVIVG01017981001' => 'vvi', 'HanXRQChr01g0024061' => 'han', 'HanXRQChr09g0247831' => 'han', 'HanXRQChr10g0294611' => 'han', 'HanXRQChr10g0294621' => 'han', 'HanXRQChr11g0346821' => 'han', 'HanXRQChr13g0397461' => 'han', 'HanXRQChr16g0513651' => 'han', 'HanXRQChr16g0513701' => 'han', 'Haze_00897' => 'cav', 'Haze_01745' => 'cav', 'Haze_02486' => 'cav', 'Haze_02487' => 'cav', 'Haze_23374' => 'cav', 'Hma1.2p1_0578F.1_g182520' => 'hma', 'Hma1.2p1_0602F.1_g187350' => 'hma', 'Hma1.2p1_0602F.1_g187360' => 'hma', 'Hma1.2p1_0874F.1_g231320' => 'hma', 'Hma1.2p1_1197F.1_g266210' => 'hma', 'Hma1.2p1_1197F.1_g266220' => 'hma', 'Hma1.2p1_2167F.1_g315895' => 'hma', 'Hma1.2p1_2190F.1_g316640' => 'hma', 'Hma1.2p1_3645F.1_g337153' => 'hma', 'HPP92_004907' => 'vpl', 'HPP92_012134' => 'vpl', 'HPP92_025136' => 'vpl', 'HPP92_026087' => 'vpl', 'Hund06782' => 'sun', 'Hund06784' => 'sun', 'Lalb_Chr01g0004861' => 'lal', 'Lalb_Chr02g0140591' => 'lal', 'Lalb_Chr02g0140611' => 'lal', 'Lalb_Chr03g0028101' => 'lal', 'Lalb_Chr07g0185791' => 'lal', 'Lalb_Chr12g0204491' => 'lal', 'Lalb_Chr13g0295671' => 'lal', 'Lalb_Chr19g0136461' => 'lal', 'Lalb_Chr21g0309191' => 'lal', 'Lj1g0028158' => 'lja', 'Lj1P236T38' => 'lonja', 'Lj2C32G2' => 'lonja', 'Lj2P944T8' => 'lonja', 'Lj2P963T15' => 'lonja', 'Lj3g0011788' => 'lja', 'Lj4g0025027' => 'lja', 'Lj5P255T36' => 'lonja', 'Lj6g0018866' => 'lja', 'Lj6P608T31' => 'lonja', 'LjContig00408g0008879' => 'lja', 'Lsat_1_v5_gn_5_105820' => 'lsa', 'Lsat_1_v5_gn_6_38800' => 'lsa', 'Lsat_1_v5_gn_7_67141' => 'lsa', 'Manes.04G003400' => 'mes', 'Manes.07G020000' => 'mes', 'Manes.07G020100' => 'mes', 'Manes.07G020150' => 'mes', 'Manes.10G061500' => 'mes', 'Manes.10G123200' => 'mes', 'Manes.11G161900' => 'mes', 'Manes.15G029300' => 'mes', 'Mapoly0071s0018' => 'mpo', 'Mapoly0082s0023' => 'mpo', 'Mapoly3477s0001' => 'mpo', 'MBI05_g31233_MAGBIO' => 'mbi', 'MBI09_g05946_MAGBIO' => 'mbi', 'MBI09_g05947_MAGBIO' => 'mbi', 'MBI17_g08346_MAGBIO' => 'mbi', 'MCO04G038' => 'mco', 'MCO09G370' => 'mco', 'MCO13G605' => 'mco', 'MD00G1075500' => 'mdo', 'MD03G1144300' => 'mdo', 'MD08G1236800' => 'mdo', 'MD13G1193300' => 'mdo', 'MD15G1428700' => 'mdo', 'Medtr1g112030' => 'mtr', 'Medtr1g112050' => 'mtr', 'Medtr2g006290' => 'mtr', 'Medtr2g086510' => 'mtr', 'Medtr4g053120' => 'mtr', 'Medtr5g006320' => 'mtr', 'Medtr8g088720' => 'mtr', 'MELO3C004712.2' => 'cme', 'MELO3C006533.2' => 'cme', 'MELO3C019438.2' => 'cme', 'MELO3C019440.2' => 'cme', 'MELO3C019441.2' => 'cme', 'MELO3C019895.2' => 'cme', 'Migut.B00811' => 'egut', 'Migut.D02447' => 'egut', 'Migut.F00875' => 'egut', 'Migut.N00186' => 'egut', 'Migut.N01051' => 'egut', 'Migut.N02491' => 'egut', 'Migut.O00784' => 'egut', 'MSTRG.12367' => 'ama', 'MSTRG.18756' => 'ama', 'MSTRG.21042' => 'ama', 'Nitab4.5_0000559g0040' => 'nta', 'Nitab4.5_0000667g0190' => 'nta', 'Nitab4.5_0000755g0160' => 'nta', 'Nitab4.5_0001216g0080' => 'nta', 'Nitab4.5_0004069g0040' => 'nta', 'Nitab4.5_0004129g0010' => 'nta', 'Nitab4.5_0005744g0030' => 'nta', 'Nitab4.5_0006996g0030' => 'nta', 'Nitab4.5_0008971g0040' => 'nta', 'Nitab4.5_0009769g0020' => 'nta', 'Nitab4.5_0009833g0010' => 'nta', 'Nitab4.5_0013140g0020' => 'nta', 'Nn003s41376' => 'nnu', 'Nn1g01857' => 'nnu', 'Nn1g03611' => 'nnu', 'Nn1g06853' => 'nnu', 'Nn3g18360' => 'nnu', 'Nn4g26328' => 'nnu', 'Nn5g27531' => 'nnu', 'Nn6g34899' => 'nnu', 'Nn7g36299' => 'nnu', 'Oeu021485.1' => 'oeu', 'Oeu022433.1' => 'oeu', 'Oeu032111.1' => 'oeu', 'Oeu051608.1' => 'oeu', 'Os01g0860601' => 'osa', 'Os03g0659200' => 'osa', 'Os03g0835900' => 'osa', 'Os04g0412200' => 'osa', 'Os05g0443500' => 'osa', 'Os07g0251500' => 'osa', 'Os08g0104600' => 'osa', 'Peaxi162Scf00003g00047' => 'pax', 'Peaxi162Scf00003g00052' => 'pax', 'Peaxi162Scf00003g00394' => 'pax', 'Peaxi162Scf00091g00621' => 'pax', 'Peaxi162Scf00152g00146' => 'pax', 'Peaxi162Scf00173g00025' => 'pax', 'Peaxi162Scf00195g00102' => 'pax', 'Peaxi162Scf00402g00013' => 'pax', 'Peaxi162Scf00519g00618' => 'pax', 'PGR004G2838' => 'pgr', 'PGR044G2275' => 'pgr', 'PGR102G1377' => 'pgr', 'PGR119G1245' => 'pgr', 'PGR142G4449' => 'pgr', 'PGSC0003DMG400004532' => 'stu', 'PGSC0003DMG400011950' => 'stu', 'PGSC0003DMG400023391' => 'stu', 'PGSC0003DMG400023985' => 'stu', 'PGSC0003DMG400026360' => 'stu', 'PGSC0003DMG400035711' => 'stu', 'PGSC0003DMG400037286' => 'stu', 'PGSC0003DMG402005881' => 'stu', 'Phvul.002G045400' => 'pvu', 'Phvul.006G216600' => 'pvu', 'Phvul.006G216700' => 'pvu', 'Phvul.006G216800' => 'pvu', 'Phvul.007G022500' => 'pvu', 'Phvul.011G094400' => 'pvu', 'Potri.001G470700' => 'ptr', 'Potri.003G015200' => 'ptr', 'Potri.004G202500' => 'ptr', 'Potri.004G218400' => 'ptr', 'Potri.008G020100' => 'ptr', 'Potri.008G153200' => 'ptr', 'Potri.009G163800' => 'ptr', 'Potri.010G087300' => 'ptr', 'Potri.010G239100' => 'ptr', 'Pp3c10_16100' => 'ppa', 'Pp3c10_16880' => 'ppa', 'Pp3c16_6230' => 'ppa', 'Pp3c17_18910' => 'ppa', 'Pp3c3_22119' => 'ppa', 'Pp3c3_22140' => 'ppa', 'Pp3c4_8159' => 'ppa', 'Pp3c4_8171' => 'ppa', 'Pp3c4_8330' => 'ppa', 'PRCOL_00004098' => 'pco', 'Prupe.1G013900' => 'ppe', 'Prupe.1G226300' => 'ppe', 'Prupe.1G573600' => 'ppe', 'Prupe.6G130100' => 'ppe', 'Psat3g090040' => 'psa', 'Psat4g210440' => 'psa', 'Psat6g231040' => 'psa', 'Psat6g231080' => 'psa', 'Psat7g063000' => 'psa', 'Psat7g188000' => 'psa', 'Psat7g188040' => 'psa', 'PSO017G0206' => 'pso', 'PSO170G0501' => 'pso', 'PSO170G6422' => 'pso', 'PSO210G7739' => 'pso', 'PSO339G1808' => 'pso', 'PSO339G6135' => 'pso', 'PSO384G0010' => 'pso', 'PSO384G0964' => 'pso', 'PSO761G0050' => 'pso', 'PSO782G4085' => 'pso', 'QL01p012264' => 'qlo', 'QL02p099491' => 'qlo', 'QL03p033868' => 'qlo', 'QL04p046678' => 'qlo', 'QL06p002448' => 'qlo', 'RcHm_v2.0_Chr4g0416181' => 'rch', 'RcHm_v2.0_Chr5g0044701' => 'rch', 'RcHm_v2.0_Chr6g0265781' => 'rch', 'RcHm_v2.0_Chr7g0221031' => 'rch', 'Rhsim04G0202000' => 'rsi', 'Rhsim11G0127300' => 'rsi', 'Rhsim13G0111800' => 'rsi', 'Sabra01G0165600' => 'sbr', 'Sabra03G0008300' => 'sbr', 'Sabra04G0136900' => 'sbr', 'Sabra08G0013400' => 'sbr', 'Sabra08G0116800' => 'sbr', 'Sabra09G0128000' => 'sbr', 'Sabra10G0055500' => 'sbr', 'Sabra10G0073300' => 'sbr', 'SalBow3G0385' => 'sbo', 'SalBow3G1119' => 'sbo', 'SalBow3G2005' => 'sbo', 'SalBow6G2563' => 'sbo', 'SalBow6G6386' => 'sbo', 'Sc06g0008800' => 'sci', 'Sc07g0004950' => 'sci', 'Sc09g0005340' => 'sci', 'Sc13g0004410' => 'sci', 'Sc21g0007090' => 'sci', 'Sed0009285' => 'sed', 'Sed0017583' => 'sed', 'Sed0019699' => 'sed', 'Sed0023107' => 'sed', 'SEGI_10916' => 'sgi', 'SEGI_16217' => 'sgi', 'SEGI_19466' => 'sgi', 'SEGI_41115' => 'sgi', 'SGA_v2.0_scaffold111G31534' => 'sas', 'SGA_v2.0_scaffold22G09864' => 'sas', 'SGA_v2.0_scaffold338G49219' => 'sas', 'SGA_v2.0_scaffold92G28298' => 'sas', 'SMO119G0064' => 'smo', 'SMO223G0038' => 'smo', 'SMO347G0584' => 'smo', 'SMO351G0010' => 'smo', 'SMO356G0404' => 'smo', 'Solyc01g103920.3' => 'sly', 'Solyc04g009710.2' => 'sly', 'Solyc05g055280.2' => 'sly', 'Solyc10g044520.3' => 'sly', 'Solyc10g075160.1' => 'sly', 'Solyc11g006910.3' => 'sly', 'Solyc11g068430.3' => 'sly', 'Sopen01g046310' => 'spe', 'Sopen03g001200' => 'spe', 'Sopen04g004830' => 'spe', 'Sopen05g033720' => 'spe', 'Sopen06g030740' => 'spe', 'Sopen10g013090' => 'spe', 'Sopen10g027630' => 'spe', 'Sopen10g027640' => 'spe', 'Sopen11g002820' => 'spe', 'Sopen11g027140' => 'spe', 'Sp1g09680' => 'spa', 'Sp2g03630' => 'spa', 'Sp4g10320' => 'spa', 'Sp6g33400' => 'spa', 'Sp7g13030' => 'spa', 'TAR365G0317' => 'tar', 'TAR376G0979' => 'tar', 'TAR623G1665' => 'tar', 'TAR633G2373' => 'tar', 'TAR636G1400' => 'tar', 'THA.LOC104800529' => 'tha', 'THA.LOC104808547' => 'tha', 'THA.LOC104809615' => 'tha', 'THA.LOC104815724' => 'tha', 'THA.LOC104818480' => 'tha', 'THA.LOC104819179' => 'tha', 'THA.LOC104822270' => 'tha', 'THA.LOC104826425' => 'tha', 'Thecc.02G089700' => 'tca', 'Thecc.04G232300' => 'tca', 'Thecc.09G283400' => 'tca', 'Thhalv10009020m.g' => 'esa', 'Thhalv10015506m.g' => 'esa', 'Thhalv10017364m.g' => 'esa', 'Thhalv10023742m.g' => 'esa', 'Thhalv10026483m.g' => 'esa', 'TPR.G17232' => 'tpr', 'TPR.G2133' => 'tpr', 'TPR.G2498' => 'tpr', 'TPR.G31942' => 'tpr', 'TPR.G37877' => 'tpr', 'TPR.G4571' => 'tpr', 'TWI14G1113' => 'twi', 'TWI15G0426' => 'twi', 'TWI31G1005' => 'twi', 'TWI38G0513' => 'twi', 'TWI38G1484' => 'twi', 'TWI73G1098' => 'twi', 'unitig_26.g10519' => 'ugi', 'unitig_736.g22395' => 'ugi', 'unitig_747.g21234' => 'ugi', 'unitig_747.g21942' => 'ugi', 'vmacro14351' => 'vma', 'VMungo0540G0082' => 'vmu', 'VMungo0540G0405' => 'vmu', 'VMungo0540G1486' => 'vmu', 'VMungo0540G1692' => 'vmu', 'VMungo0720G2473' => 'vmu', 'VMungo1127G1562' => 'vmu', 'VMungo1215G1918' => 'vmu', 'Zm00001eb052650' => 'zma', 'Zm00001eb063710' => 'zma', 'Zm00001eb083950' => 'zma', 'Zm00001eb174420' => 'zma', 'Zm00001eb260140' => 'zma', 'Zm00001eb260150' => 'zma', 'Zm00001eb260160' => 'zma', 'Zm00001eb348290' => 'zma', 'Zm00001eb366870' => 'zma', 'Zm00001eb421930' => 'zma' ), 'gf_id' => 'HOM05D001025', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001025' ), 'data_identifier' => 'HOM05D001025', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001025', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '592', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p22650' => 'bna', 'A01p29720' => 'bna', 'A03p26560' => 'bna', 'A03p68820' => 'bna', 'A04p20980' => 'bna', 'A06p07730' => 'bna', 'A07p18260' => 'bna', 'A08p33710' => 'bna', 'A09p16970' => 'bna', 'A10p27490' => 'bna', 'Aa31LG1G17300' => 'aar', 'Aa31LG1G3910' => 'aar', 'Aa31LG2G9630' => 'aar', 'Aa31LG5G8360' => 'aar', 'Aa31LG9G2410' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4699' => 'aag', 'Actinidia23512' => 'ach', 'Actinidia37080' => 'ach', 'Ah.01g020380' => 'amhyb', 'Ah.08g215710' => 'amhyb', 'Ah.09g225110' => 'amhyb', 'Ah.10g036680' => 'amhyb', 'AL1G21940' => 'aly', 'AL2G15540' => 'aly', 'AL4G21520' => 'aly', 'AL7G40960' => 'aly', 'Aqoxy2G01191' => 'aox', 'Aqoxy2G03393' => 'aox', 'Aqoxy4G02775' => 'aox', 'Aqoxy6G00058' => 'aox', 'arahy.Tifrunner.gnm1.ann1.9X74H2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CW3FX9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R485W7' => 'arhy', 'AT1G10960' => 'ath', 'AT1G60950' => 'ath', 'AT2G27510' => 'ath', 'AT4G14890' => 'ath', 'AT5G10000' => 'ath', 'ATR0665G624' => 'atr', 'ATR0697G138' => 'atr', 'ATR0776G046' => 'atr', 'ATR1134G135' => 'atr', 'Atru.chr12.1025' => 'acertr', 'Atru.chr3.3241' => 'acertr', 'Atru.chr4.2460' => 'acertr', 'AUR62007427' => 'cqu', 'AUR62010960' => 'cqu', 'AUR62012201' => 'cqu', 'AUR62021470' => 'cqu', 'AUR62022834' => 'cqu', 'AUR62033635' => 'cqu', 'AUR62036186' => 'cqu', 'BcaB01g03077' => 'bca', 'BcaB02g10093' => 'bca', 'BcaB04g20295' => 'bca', 'BcaB06g28147' => 'bca', 'BcaB07g31253' => 'bca', 'BcaC01g04946' => 'bca', 'BcaC02g10614' => 'bca', 'BcaC02g10885' => 'bca', 'BcaC04g19356' => 'bca', 'BcaC04g22297' => 'bca', 'BcaC05g24977' => 'bca', 'BcaC06g31823' => 'bca', 'BcaC07g38633' => 'bca', 'BcaC09g49353' => 'bca', 'BcaC09g50168' => 'bca', 'BcaNung00322' => 'bca', 'BcaNung04769' => 'bca', 'BolC1t02753H' => 'bol', 'BolC1t03721H' => 'bol', 'BolC3t15525H' => 'bol', 'BolC4t23903H' => 'bol', 'BolC4t24231H' => 'bol', 'BolC4t27209H' => 'bol', 'BolC5t29671H' => 'bol', 'BolC8t49044H' => 'bol', 'BolC9t54999H' => 'bol', 'BolC9t59517H' => 'bol', 'BraA01t02178Z' => 'bra', 'BraA01t03099Z' => 'bra', 'BraA03t11867Z' => 'bra', 'BraA04t17667Z' => 'bra', 'BraA07t29542Z' => 'bra', 'BraA08t35287Z' => 'bra', 'BraA09t37334Z' => 'bra', 'BraA10t44801Z' => 'bra', 'BraSC39t46181Z' => 'bra', 'C01p28240' => 'bna', 'C01p37530' => 'bna', 'C03p31820' => 'bna', 'C04p24080' => 'bna', 'C04p25790' => 'bna', 'C04p56770' => 'bna', 'C05p09310' => 'bna', 'C09p21010' => 'bna', 'C09p67560' => 'bna', 'CAN.G1324.7' => 'can', 'CAN.G1358.10' => 'can', 'CAN.G1550.2' => 'can', 'CAN.G186.56' => 'can', 'CAN.G1965.1' => 'can', 'CAN.G645.15' => 'can', 'CAN.G798.26' => 'can', 'CAN.G798.27' => 'can', 'CAN.G798.29' => 'can', 'CAN.G919.31' => 'can', 'CANSAT11G0133' => 'cansat', 'CANSAT11G1171' => 'cansat', 'CANSAT11G2056' => 'cansat', 'CANSAT56G1202' => 'cansat', 'CANSAT56G1514' => 'cansat', 'CANSAT78G0455' => 'cansat', 'CARHR011190' => 'chi', 'CARHR051980' => 'chi', 'CARHR120170' => 'chi', 'CARHR203310' => 'chi', 'CARHR221490' => 'chi', 'Carub.0001s1054' => 'cru', 'Carub.0002s0431' => 'cru', 'Carub.0004s0818' => 'cru', 'Carub.0006s0846' => 'cru', 'Carub.0007s2722' => 'cru', 'Ca_00058_v3' => 'car', 'Ca_17831_v3' => 'car', 'Ca_19408_v3' => 'car', 'Ca_24397_v3' => 'car', 'Ca_25664_v3' => 'car', 'CBR_g21818' => 'cbr', 'CBR_g31195' => 'cbr', 'CBR_g32282' => 'cbr', 'CBR_g39599' => 'cbr', 'CBR_g49410' => 'cbr', 'Cc01_g09120' => 'ccan', 'Cc01_g09130' => 'ccan', 'Cc02_g09630' => 'ccan', 'Cc02_g22810' => 'ccan', 'Cc03_g03810' => 'ccan', 'CDE02G3718' => 'cde', 'CDE04G3183' => 'cde', 'CDE07G1046' => 'cde', 'CDE08G0480' => 'cde', 'Cfa005493' => 'cfa', 'Cfa010312' => 'cfa', 'Cfa015648' => 'cfa', 'Ciclev10002793m.g' => 'ccl', 'Ciclev10003356m.g' => 'ccl', 'Ciclev10006141m.g' => 'ccl', 'Ciclev10016676m.g' => 'ccl', 'Ciclev10017081m.g' => 'ccl', 'Ciclev10029499m.g' => 'ccl', 'CiPaw.01G166300' => 'cil', 'CiPaw.06G145600' => 'cil', 'CiPaw.13G040100' => 'cil', 'CiPaw.13G135800' => 'cil', 'ClCG01G012230' => 'cla', 'ClCG05G009510' => 'cla', 'ClCG08G008270' => 'cla', 'COL.COLO4_11763' => 'col', 'COL.COLO4_19876' => 'col', 'COL.COLO4_21481' => 'col', 'Cpa.g.sc118.34' => 'cpa', 'Cpa.g.sc32.13' => 'cpa', 'Cpa.g.sc58.103' => 'cpa', 'Cre03.g183850' => 'cre', 'Cre06.g306350' => 'cre', 'Cre07.g334800' => 'cre', 'Cre12.g487900' => 'cre', 'Cre14.g626700' => 'cre', 'Cre16.g658400' => 'cre', 'Cre17.g700950' => 'cre', 'CsaV3_1G014830' => 'csa', 'CsaV3_3G013320' => 'csa', 'CsaV3_3G019210' => 'csa', 'CsaV3_3G019220' => 'csa', 'CsaV3_6G004230' => 'csa', 'CSS0003773' => 'camsi', 'CSS0004563' => 'camsi', 'CSS0013949' => 'camsi', 'CSS0025971' => 'camsi', 'CSS0028570' => 'camsi', 'CSS0033127' => 'camsi', 'CSS0036051' => 'camsi', 'CSS0040087' => 'camsi', 'CSS0043179' => 'camsi', 'DCAR_006161' => 'dca', 'DCAR_010351' => 'dca', 'DCAR_012197' => 'dca', 'DCAR_024162' => 'dca', 'Dinv01030' => 'din', 'Dinv10924' => 'din', 'Dinv11835' => 'din', 'Dinv22841' => 'din', 'Dinv42553' => 'din', 'Duzib052G0560' => 'dzi', 'Duzib132G0389' => 'dzi', 'Duzib150G1181' => 'dzi', 'Duzib168G0623' => 'dzi', 'Duzib170G1036' => 'dzi', 'Duzib212G0200' => 'dzi', 'Duzib248G0194' => 'dzi', 'ECA232G2193' => 'eca', 'ECA233G0302' => 'eca', 'ECA234G2813' => 'eca', 'ECA234G4866' => 'eca', 'ECA240G3932' => 'eca', 'ECA248G0385' => 'eca', 'EL10Ac2g04781' => 'bvu', 'EL10Ac3g06445' => 'bvu', 'EL10Ac7g15825' => 'bvu', 'EL10Ac8g18550' => 'bvu', 'Eucgr.B03849' => 'egr', 'Eucgr.I02744' => 'egr', 'Eucgr.J00264' => 'egr', 'Eucgr.J00493' => 'egr', 'FAN04G2181' => 'fan', 'FAN07G2666' => 'fan', 'FAN11G0024' => 'fan', 'FAN12G1105' => 'fan', 'FAN13G0302' => 'fan', 'FAN15G2781' => 'fan', 'FAN16G1274' => 'fan', 'FAN17G2988' => 'fan', 'FAN18G2621' => 'fan', 'FAN21G0013' => 'fan', 'FAN22G1211' => 'fan', 'FAN25G3626' => 'fan', 'FvH4_2g09491' => 'fve', 'FvH4_3g24910' => 'fve', 'FvH4_4g15630' => 'fve', 'FvH4_5g28820' => 'fve', 'Glyma.01G238000' => 'gma', 'Glyma.05G168400' => 'gma', 'Glyma.08G126800' => 'gma', 'Glyma.08G188500' => 'gma', 'Glyma.10G278900' => 'gma', 'Glyma.11G005700' => 'gma', 'Glyma.11G183300' => 'gma', 'Glyma.12G089200' => 'gma', 'Glyma.12G169400' => 'gma', 'Glyma.12G169500' => 'gma', 'Glyma.12G169600' => 'gma', 'Glyma.20G110800' => 'gma', 'Gohir.A03G192900' => 'ghi', 'Gohir.A03G193000' => 'ghi', 'Gohir.A05G080700' => 'ghi', 'Gohir.A09G216000' => 'ghi', 'Gohir.A12G027700' => 'ghi', 'Gohir.A13G036200' => 'ghi', 'Gohir.A13G222600' => 'ghi', 'Gohir.D02G213900' => 'ghi', 'Gohir.D02G214000' => 'ghi', 'Gohir.D05G083700' => 'ghi', 'Gohir.D05G083800' => 'ghi', 'Gohir.D05G083850' => 'ghi', 'Gohir.D08G015400' => 'ghi', 'Gohir.D09G218400' => 'ghi', 'Gohir.D12G027100' => 'ghi', 'Gohir.D13G034500' => 'ghi', 'Gohir.D13G227400' => 'ghi', 'Gorai.005G241800' => 'gra', 'Gorai.005G241900' => 'gra', 'Gorai.006G239400' => 'gra', 'Gorai.008G027600' => 'gra', 'Gorai.009G085400' => 'gra', 'Gorai.009G085500' => 'gra', 'Gorai.013G039000' => 'gra', 'Gorai.013G194800' => 'gra', 'Gorai.013G257900' => 'gra', 'GSVIVG01000982001' => 'vvi', 'GSVIVG01017981001' => 'vvi', 'HanXRQChr01g0024061' => 'han', 'HanXRQChr09g0247831' => 'han', 'HanXRQChr10g0294611' => 'han', 'HanXRQChr10g0294621' => 'han', 'HanXRQChr11g0346821' => 'han', 'HanXRQChr13g0397461' => 'han', 'HanXRQChr16g0513651' => 'han', 'HanXRQChr16g0513701' => 'han', 'Haze_00897' => 'cav', 'Haze_01745' => 'cav', 'Haze_02486' => 'cav', 'Haze_02487' => 'cav', 'Haze_23374' => 'cav', 'Hma1.2p1_0578F.1_g182520' => 'hma', 'Hma1.2p1_0602F.1_g187350' => 'hma', 'Hma1.2p1_0602F.1_g187360' => 'hma', 'Hma1.2p1_0874F.1_g231320' => 'hma', 'Hma1.2p1_1197F.1_g266210' => 'hma', 'Hma1.2p1_1197F.1_g266220' => 'hma', 'Hma1.2p1_2167F.1_g315895' => 'hma', 'Hma1.2p1_2190F.1_g316640' => 'hma', 'Hma1.2p1_3645F.1_g337153' => 'hma', 'HPP92_004907' => 'vpl', 'HPP92_012134' => 'vpl', 'HPP92_025136' => 'vpl', 'HPP92_026087' => 'vpl', 'Hund06782' => 'sun', 'Hund06784' => 'sun', 'Lalb_Chr01g0004861' => 'lal', 'Lalb_Chr02g0140591' => 'lal', 'Lalb_Chr02g0140611' => 'lal', 'Lalb_Chr03g0028101' => 'lal', 'Lalb_Chr07g0185791' => 'lal', 'Lalb_Chr12g0204491' => 'lal', 'Lalb_Chr13g0295671' => 'lal', 'Lalb_Chr19g0136461' => 'lal', 'Lalb_Chr21g0309191' => 'lal', 'Lj1g0028158' => 'lja', 'Lj1P236T38' => 'lonja', 'Lj2C32G2' => 'lonja', 'Lj2P944T8' => 'lonja', 'Lj2P963T15' => 'lonja', 'Lj3g0011788' => 'lja', 'Lj4g0025027' => 'lja', 'Lj5P255T36' => 'lonja', 'Lj6g0018866' => 'lja', 'Lj6P608T31' => 'lonja', 'LjContig00408g0008879' => 'lja', 'Lsat_1_v5_gn_5_105820' => 'lsa', 'Lsat_1_v5_gn_6_38800' => 'lsa', 'Lsat_1_v5_gn_7_67141' => 'lsa', 'Manes.04G003400' => 'mes', 'Manes.07G020000' => 'mes', 'Manes.07G020100' => 'mes', 'Manes.07G020150' => 'mes', 'Manes.10G061500' => 'mes', 'Manes.10G123200' => 'mes', 'Manes.11G161900' => 'mes', 'Manes.15G029300' => 'mes', 'Mapoly0071s0018' => 'mpo', 'Mapoly0082s0023' => 'mpo', 'Mapoly3477s0001' => 'mpo', 'MBI05_g31233_MAGBIO' => 'mbi', 'MBI09_g05946_MAGBIO' => 'mbi', 'MBI09_g05947_MAGBIO' => 'mbi', 'MBI17_g08346_MAGBIO' => 'mbi', 'MCO04G038' => 'mco', 'MCO09G370' => 'mco', 'MCO13G605' => 'mco', 'MD00G1075500' => 'mdo', 'MD03G1144300' => 'mdo', 'MD08G1236800' => 'mdo', 'MD13G1193300' => 'mdo', 'MD15G1428700' => 'mdo', 'Medtr1g112030' => 'mtr', 'Medtr1g112050' => 'mtr', 'Medtr2g006290' => 'mtr', 'Medtr2g086510' => 'mtr', 'Medtr4g053120' => 'mtr', 'Medtr5g006320' => 'mtr', 'Medtr8g088720' => 'mtr', 'MELO3C004712.2' => 'cme', 'MELO3C006533.2' => 'cme', 'MELO3C019438.2' => 'cme', 'MELO3C019440.2' => 'cme', 'MELO3C019441.2' => 'cme', 'MELO3C019895.2' => 'cme', 'Migut.B00811' => 'egut', 'Migut.D02447' => 'egut', 'Migut.F00875' => 'egut', 'Migut.N00186' => 'egut', 'Migut.N01051' => 'egut', 'Migut.N02491' => 'egut', 'Migut.O00784' => 'egut', 'MSTRG.12367' => 'ama', 'MSTRG.18756' => 'ama', 'MSTRG.21042' => 'ama', 'Nitab4.5_0000559g0040' => 'nta', 'Nitab4.5_0000667g0190' => 'nta', 'Nitab4.5_0000755g0160' => 'nta', 'Nitab4.5_0001216g0080' => 'nta', 'Nitab4.5_0004069g0040' => 'nta', 'Nitab4.5_0004129g0010' => 'nta', 'Nitab4.5_0005744g0030' => 'nta', 'Nitab4.5_0006996g0030' => 'nta', 'Nitab4.5_0008971g0040' => 'nta', 'Nitab4.5_0009769g0020' => 'nta', 'Nitab4.5_0009833g0010' => 'nta', 'Nitab4.5_0013140g0020' => 'nta', 'Nn003s41376' => 'nnu', 'Nn1g01857' => 'nnu', 'Nn1g03611' => 'nnu', 'Nn1g06853' => 'nnu', 'Nn3g18360' => 'nnu', 'Nn4g26328' => 'nnu', 'Nn5g27531' => 'nnu', 'Nn6g34899' => 'nnu', 'Nn7g36299' => 'nnu', 'Oeu021485.1' => 'oeu', 'Oeu022433.1' => 'oeu', 'Oeu032111.1' => 'oeu', 'Oeu051608.1' => 'oeu', 'Os01g0860601' => 'osa', 'Os03g0659200' => 'osa', 'Os03g0835900' => 'osa', 'Os04g0412200' => 'osa', 'Os05g0443500' => 'osa', 'Os07g0251500' => 'osa', 'Os08g0104600' => 'osa', 'Peaxi162Scf00003g00047' => 'pax', 'Peaxi162Scf00003g00052' => 'pax', 'Peaxi162Scf00003g00394' => 'pax', 'Peaxi162Scf00091g00621' => 'pax', 'Peaxi162Scf00152g00146' => 'pax', 'Peaxi162Scf00173g00025' => 'pax', 'Peaxi162Scf00195g00102' => 'pax', 'Peaxi162Scf00402g00013' => 'pax', 'Peaxi162Scf00519g00618' => 'pax', 'PGR004G2838' => 'pgr', 'PGR044G2275' => 'pgr', 'PGR102G1377' => 'pgr', 'PGR119G1245' => 'pgr', 'PGR142G4449' => 'pgr', 'PGSC0003DMG400004532' => 'stu', 'PGSC0003DMG400011950' => 'stu', 'PGSC0003DMG400023391' => 'stu', 'PGSC0003DMG400023985' => 'stu', 'PGSC0003DMG400026360' => 'stu', 'PGSC0003DMG400035711' => 'stu', 'PGSC0003DMG400037286' => 'stu', 'PGSC0003DMG402005881' => 'stu', 'Phvul.002G045400' => 'pvu', 'Phvul.006G216600' => 'pvu', 'Phvul.006G216700' => 'pvu', 'Phvul.006G216800' => 'pvu', 'Phvul.007G022500' => 'pvu', 'Phvul.011G094400' => 'pvu', 'Potri.001G470700' => 'ptr', 'Potri.003G015200' => 'ptr', 'Potri.004G202500' => 'ptr', 'Potri.004G218400' => 'ptr', 'Potri.008G020100' => 'ptr', 'Potri.008G153200' => 'ptr', 'Potri.009G163800' => 'ptr', 'Potri.010G087300' => 'ptr', 'Potri.010G239100' => 'ptr', 'Pp3c10_16100' => 'ppa', 'Pp3c10_16880' => 'ppa', 'Pp3c16_6230' => 'ppa', 'Pp3c17_18910' => 'ppa', 'Pp3c3_22119' => 'ppa', 'Pp3c3_22140' => 'ppa', 'Pp3c4_8159' => 'ppa', 'Pp3c4_8171' => 'ppa', 'Pp3c4_8330' => 'ppa', 'PRCOL_00004098' => 'pco', 'Prupe.1G013900' => 'ppe', 'Prupe.1G226300' => 'ppe', 'Prupe.1G573600' => 'ppe', 'Prupe.6G130100' => 'ppe', 'Psat3g090040' => 'psa', 'Psat4g210440' => 'psa', 'Psat6g231040' => 'psa', 'Psat6g231080' => 'psa', 'Psat7g063000' => 'psa', 'Psat7g188000' => 'psa', 'Psat7g188040' => 'psa', 'PSO017G0206' => 'pso', 'PSO170G0501' => 'pso', 'PSO170G6422' => 'pso', 'PSO210G7739' => 'pso', 'PSO339G1808' => 'pso', 'PSO339G6135' => 'pso', 'PSO384G0010' => 'pso', 'PSO384G0964' => 'pso', 'PSO761G0050' => 'pso', 'PSO782G4085' => 'pso', 'QL01p012264' => 'qlo', 'QL02p099491' => 'qlo', 'QL03p033868' => 'qlo', 'QL04p046678' => 'qlo', 'QL06p002448' => 'qlo', 'RcHm_v2.0_Chr4g0416181' => 'rch', 'RcHm_v2.0_Chr5g0044701' => 'rch', 'RcHm_v2.0_Chr6g0265781' => 'rch', 'RcHm_v2.0_Chr7g0221031' => 'rch', 'Rhsim04G0202000' => 'rsi', 'Rhsim11G0127300' => 'rsi', 'Rhsim13G0111800' => 'rsi', 'Sabra01G0165600' => 'sbr', 'Sabra03G0008300' => 'sbr', 'Sabra04G0136900' => 'sbr', 'Sabra08G0013400' => 'sbr', 'Sabra08G0116800' => 'sbr', 'Sabra09G0128000' => 'sbr', 'Sabra10G0055500' => 'sbr', 'Sabra10G0073300' => 'sbr', 'SalBow3G0385' => 'sbo', 'SalBow3G1119' => 'sbo', 'SalBow3G2005' => 'sbo', 'SalBow6G2563' => 'sbo', 'SalBow6G6386' => 'sbo', 'Sc06g0008800' => 'sci', 'Sc07g0004950' => 'sci', 'Sc09g0005340' => 'sci', 'Sc13g0004410' => 'sci', 'Sc21g0007090' => 'sci', 'Sed0009285' => 'sed', 'Sed0017583' => 'sed', 'Sed0019699' => 'sed', 'Sed0023107' => 'sed', 'SEGI_10916' => 'sgi', 'SEGI_16217' => 'sgi', 'SEGI_19466' => 'sgi', 'SEGI_41115' => 'sgi', 'SGA_v2.0_scaffold111G31534' => 'sas', 'SGA_v2.0_scaffold22G09864' => 'sas', 'SGA_v2.0_scaffold338G49219' => 'sas', 'SGA_v2.0_scaffold92G28298' => 'sas', 'SMO119G0064' => 'smo', 'SMO223G0038' => 'smo', 'SMO347G0584' => 'smo', 'SMO351G0010' => 'smo', 'SMO356G0404' => 'smo', 'Solyc01g103920.3' => 'sly', 'Solyc04g009710.2' => 'sly', 'Solyc05g055280.2' => 'sly', 'Solyc10g044520.3' => 'sly', 'Solyc10g075160.1' => 'sly', 'Solyc11g006910.3' => 'sly', 'Solyc11g068430.3' => 'sly', 'Sopen01g046310' => 'spe', 'Sopen03g001200' => 'spe', 'Sopen04g004830' => 'spe', 'Sopen05g033720' => 'spe', 'Sopen06g030740' => 'spe', 'Sopen10g013090' => 'spe', 'Sopen10g027630' => 'spe', 'Sopen10g027640' => 'spe', 'Sopen11g002820' => 'spe', 'Sopen11g027140' => 'spe', 'Sp1g09680' => 'spa', 'Sp2g03630' => 'spa', 'Sp4g10320' => 'spa', 'Sp6g33400' => 'spa', 'Sp7g13030' => 'spa', 'TAR365G0317' => 'tar', 'TAR376G0979' => 'tar', 'TAR623G1665' => 'tar', 'TAR633G2373' => 'tar', 'TAR636G1400' => 'tar', 'THA.LOC104800529' => 'tha', 'THA.LOC104808547' => 'tha', 'THA.LOC104809615' => 'tha', 'THA.LOC104815724' => 'tha', 'THA.LOC104818480' => 'tha', 'THA.LOC104819179' => 'tha', 'THA.LOC104822270' => 'tha', 'THA.LOC104826425' => 'tha', 'Thecc.02G089700' => 'tca', 'Thecc.04G232300' => 'tca', 'Thecc.09G283400' => 'tca', 'Thhalv10009020m.g' => 'esa', 'Thhalv10015506m.g' => 'esa', 'Thhalv10017364m.g' => 'esa', 'Thhalv10023742m.g' => 'esa', 'Thhalv10026483m.g' => 'esa', 'TPR.G17232' => 'tpr', 'TPR.G2133' => 'tpr', 'TPR.G2498' => 'tpr', 'TPR.G31942' => 'tpr', 'TPR.G37877' => 'tpr', 'TPR.G4571' => 'tpr', 'TWI14G1113' => 'twi', 'TWI15G0426' => 'twi', 'TWI31G1005' => 'twi', 'TWI38G0513' => 'twi', 'TWI38G1484' => 'twi', 'TWI73G1098' => 'twi', 'unitig_26.g10519' => 'ugi', 'unitig_736.g22395' => 'ugi', 'unitig_747.g21234' => 'ugi', 'unitig_747.g21942' => 'ugi', 'vmacro14351' => 'vma', 'VMungo0540G0082' => 'vmu', 'VMungo0540G0405' => 'vmu', 'VMungo0540G1486' => 'vmu', 'VMungo0540G1692' => 'vmu', 'VMungo0720G2473' => 'vmu', 'VMungo1127G1562' => 'vmu', 'VMungo1215G1918' => 'vmu', 'Zm00001eb052650' => 'zma', 'Zm00001eb063710' => 'zma', 'Zm00001eb083950' => 'zma', 'Zm00001eb174420' => 'zma', 'Zm00001eb260140' => 'zma', 'Zm00001eb260150' => 'zma', 'Zm00001eb260160' => 'zma', 'Zm00001eb348290' => 'zma', 'Zm00001eb366870' => 'zma', 'Zm00001eb421930' => 'zma' ) $gf_id = 'HOM05D001025' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001025' ) $data_identifier = 'HOM05D001025' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 19, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 2, 'amhyb' => (int) 4, 'aly' => (int) 4, 'aox' => (int) 4, 'arhy' => (int) 3, 'ath' => (int) 5, 'atr' => (int) 4, 'acertr' => (int) 3, 'cqu' => (int) 7, 'bca' => (int) 17, 'bol' => (int) 10, 'bra' => (int) 9, 'can' => (int) 10, 'cansat' => (int) 6, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 5, 'cbr' => (int) 5, 'ccan' => (int) 5, 'cde' => (int) 4, 'cfa' => (int) 3, 'ccl' => (int) 6, 'cil' => (int) 4, 'cla' => (int) 3, 'col' => (int) 3, 'cpa' => (int) 3, 'cre' => (int) 7, 'csa' => (int) 5, 'camsi' => (int) 9, 'dca' => (int) 4, 'din' => (int) 5, 'dzi' => (int) 7, 'eca' => (int) 6, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 12, 'fve' => (int) 4, 'gma' => (int) 12, 'ghi' => (int) 17, 'gra' => (int) 9, 'vvi' => (int) 2, 'han' => (int) 8, 'cav' => (int) 5, 'hma' => (int) 9, 'vpl' => (int) 4, 'sun' => (int) 2, 'lal' => (int) 9, 'lja' => (int) 5, 'lonja' => (int) 6, 'lsa' => (int) 3, 'mes' => (int) 8, 'mpo' => (int) 3, 'mbi' => (int) 4, 'mco' => (int) 3, 'mdo' => (int) 5, 'mtr' => (int) 7, 'cme' => (int) 6, 'egut' => (int) 7, 'ama' => (int) 3, 'nta' => (int) 12, 'nnu' => (int) 9, 'oeu' => (int) 4, 'osa' => (int) 7, 'pax' => (int) 9, 'pgr' => (int) 5, 'stu' => (int) 8, 'pvu' => (int) 6, 'ptr' => (int) 9, 'ppa' => (int) 9, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 7, 'pso' => (int) 10, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 3, 'sbr' => (int) 8, 'sbo' => (int) 5, 'sci' => (int) 5, 'sed' => (int) 4, 'sgi' => (int) 4, 'sas' => (int) 4, 'smo' => (int) 5, 'sly' => (int) 7, 'spe' => (int) 10, 'spa' => (int) 5, 'tar' => (int) 5, 'tha' => (int) 8, 'tca' => (int) 3, 'esa' => (int) 5, 'tpr' => (int) 6, 'twi' => (int) 6, 'ugi' => (int) 4, 'vma' => (int) 1, 'vmu' => (int) 7, 'zma' => (int) 10 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb421930' $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' => 'HOM05D001025', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '592', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p22650' => 'bna', 'A01p29720' => 'bna', 'A03p26560' => 'bna', 'A03p68820' => 'bna', 'A04p20980' => 'bna', 'A06p07730' => 'bna', 'A07p18260' => 'bna', 'A08p33710' => 'bna', 'A09p16970' => 'bna', 'A10p27490' => 'bna', 'Aa31LG1G17300' => 'aar', 'Aa31LG1G3910' => 'aar', 'Aa31LG2G9630' => 'aar', 'Aa31LG5G8360' => 'aar', 'Aa31LG9G2410' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4699' => 'aag', 'Actinidia23512' => 'ach', 'Actinidia37080' => 'ach', 'Ah.01g020380' => 'amhyb', 'Ah.08g215710' => 'amhyb', 'Ah.09g225110' => 'amhyb', 'Ah.10g036680' => 'amhyb', 'AL1G21940' => 'aly', 'AL2G15540' => 'aly', 'AL4G21520' => 'aly', 'AL7G40960' => 'aly', 'Aqoxy2G01191' => 'aox', 'Aqoxy2G03393' => 'aox', 'Aqoxy4G02775' => 'aox', 'Aqoxy6G00058' => 'aox', 'arahy.Tifrunner.gnm1.ann1.9X74H2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CW3FX9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R485W7' => 'arhy', 'AT1G10960' => 'ath', 'AT1G60950' => 'ath', 'AT2G27510' => 'ath', 'AT4G14890' => 'ath', 'AT5G10000' => 'ath', 'ATR0665G624' => 'atr', 'ATR0697G138' => 'atr', 'ATR0776G046' => 'atr', 'ATR1134G135' => 'atr', 'Atru.chr12.1025' => 'acertr', 'Atru.chr3.3241' => 'acertr', 'Atru.chr4.2460' => 'acertr', 'AUR62007427' => 'cqu', 'AUR62010960' => 'cqu', 'AUR62012201' => 'cqu', 'AUR62021470' => 'cqu', 'AUR62022834' => 'cqu', 'AUR62033635' => 'cqu', 'AUR62036186' => 'cqu', 'BcaB01g03077' => 'bca', 'BcaB02g10093' => 'bca', 'BcaB04g20295' => 'bca', 'BcaB06g28147' => 'bca', 'BcaB07g31253' => 'bca', 'BcaC01g04946' => 'bca', 'BcaC02g10614' => 'bca', 'BcaC02g10885' => 'bca', 'BcaC04g19356' => 'bca', 'BcaC04g22297' => 'bca', 'BcaC05g24977' => 'bca', 'BcaC06g31823' => 'bca', 'BcaC07g38633' => 'bca', 'BcaC09g49353' => 'bca', 'BcaC09g50168' => 'bca', 'BcaNung00322' => 'bca', 'BcaNung04769' => 'bca', 'BolC1t02753H' => 'bol', 'BolC1t03721H' => 'bol', 'BolC3t15525H' => 'bol', 'BolC4t23903H' => 'bol', 'BolC4t24231H' => 'bol', 'BolC4t27209H' => 'bol', 'BolC5t29671H' => 'bol', 'BolC8t49044H' => 'bol', 'BolC9t54999H' => 'bol', 'BolC9t59517H' => 'bol', 'BraA01t02178Z' => 'bra', 'BraA01t03099Z' => 'bra', 'BraA03t11867Z' => 'bra', 'BraA04t17667Z' => 'bra', 'BraA07t29542Z' => 'bra', 'BraA08t35287Z' => 'bra', 'BraA09t37334Z' => 'bra', 'BraA10t44801Z' => 'bra', 'BraSC39t46181Z' => 'bra', 'C01p28240' => 'bna', 'C01p37530' => 'bna', 'C03p31820' => 'bna', 'C04p24080' => 'bna', 'C04p25790' => 'bna', 'C04p56770' => 'bna', 'C05p09310' => 'bna', 'C09p21010' => 'bna', 'C09p67560' => 'bna', 'CAN.G1324.7' => 'can', 'CAN.G1358.10' => 'can', 'CAN.G1550.2' => 'can', 'CAN.G186.56' => 'can', 'CAN.G1965.1' => 'can', 'CAN.G645.15' => 'can', 'CAN.G798.26' => 'can', 'CAN.G798.27' => 'can', 'CAN.G798.29' => 'can', 'CAN.G919.31' => 'can', 'CANSAT11G0133' => 'cansat', 'CANSAT11G1171' => 'cansat', 'CANSAT11G2056' => 'cansat', 'CANSAT56G1202' => 'cansat', 'CANSAT56G1514' => 'cansat', 'CANSAT78G0455' => 'cansat', 'CARHR011190' => 'chi', 'CARHR051980' => 'chi', 'CARHR120170' => 'chi', 'CARHR203310' => 'chi', 'CARHR221490' => 'chi', 'Carub.0001s1054' => 'cru', 'Carub.0002s0431' => 'cru', 'Carub.0004s0818' => 'cru', 'Carub.0006s0846' => 'cru', 'Carub.0007s2722' => 'cru', 'Ca_00058_v3' => 'car', 'Ca_17831_v3' => 'car', 'Ca_19408_v3' => 'car', 'Ca_24397_v3' => 'car', 'Ca_25664_v3' => 'car', 'CBR_g21818' => 'cbr', 'CBR_g31195' => 'cbr', 'CBR_g32282' => 'cbr', 'CBR_g39599' => 'cbr', 'CBR_g49410' => 'cbr', 'Cc01_g09120' => 'ccan', 'Cc01_g09130' => 'ccan', 'Cc02_g09630' => 'ccan', 'Cc02_g22810' => 'ccan', 'Cc03_g03810' => 'ccan', 'CDE02G3718' => 'cde', 'CDE04G3183' => 'cde', 'CDE07G1046' => 'cde', 'CDE08G0480' => 'cde', 'Cfa005493' => 'cfa', 'Cfa010312' => 'cfa', 'Cfa015648' => 'cfa', 'Ciclev10002793m.g' => 'ccl', 'Ciclev10003356m.g' => 'ccl', 'Ciclev10006141m.g' => 'ccl', 'Ciclev10016676m.g' => 'ccl', 'Ciclev10017081m.g' => 'ccl', 'Ciclev10029499m.g' => 'ccl', 'CiPaw.01G166300' => 'cil', 'CiPaw.06G145600' => 'cil', 'CiPaw.13G040100' => 'cil', 'CiPaw.13G135800' => 'cil', 'ClCG01G012230' => 'cla', 'ClCG05G009510' => 'cla', 'ClCG08G008270' => 'cla', 'COL.COLO4_11763' => 'col', 'COL.COLO4_19876' => 'col', 'COL.COLO4_21481' => 'col', 'Cpa.g.sc118.34' => 'cpa', 'Cpa.g.sc32.13' => 'cpa', 'Cpa.g.sc58.103' => 'cpa', 'Cre03.g183850' => 'cre', 'Cre06.g306350' => 'cre', 'Cre07.g334800' => 'cre', 'Cre12.g487900' => 'cre', 'Cre14.g626700' => 'cre', 'Cre16.g658400' => 'cre', 'Cre17.g700950' => 'cre', 'CsaV3_1G014830' => 'csa', 'CsaV3_3G013320' => 'csa', 'CsaV3_3G019210' => 'csa', 'CsaV3_3G019220' => 'csa', 'CsaV3_6G004230' => 'csa', 'CSS0003773' => 'camsi', 'CSS0004563' => 'camsi', 'CSS0013949' => 'camsi', 'CSS0025971' => 'camsi', 'CSS0028570' => 'camsi', 'CSS0033127' => 'camsi', 'CSS0036051' => 'camsi', 'CSS0040087' => 'camsi', 'CSS0043179' => 'camsi', 'DCAR_006161' => 'dca', 'DCAR_010351' => 'dca', 'DCAR_012197' => 'dca', 'DCAR_024162' => 'dca', 'Dinv01030' => 'din', 'Dinv10924' => 'din', 'Dinv11835' => 'din', 'Dinv22841' => 'din', 'Dinv42553' => 'din', 'Duzib052G0560' => 'dzi', 'Duzib132G0389' => 'dzi', 'Duzib150G1181' => 'dzi', 'Duzib168G0623' => 'dzi', 'Duzib170G1036' => 'dzi', 'Duzib212G0200' => 'dzi', 'Duzib248G0194' => 'dzi', 'ECA232G2193' => 'eca', 'ECA233G0302' => 'eca', 'ECA234G2813' => 'eca', 'ECA234G4866' => 'eca', 'ECA240G3932' => 'eca', 'ECA248G0385' => 'eca', 'EL10Ac2g04781' => 'bvu', 'EL10Ac3g06445' => 'bvu', 'EL10Ac7g15825' => 'bvu', 'EL10Ac8g18550' => 'bvu', 'Eucgr.B03849' => 'egr', 'Eucgr.I02744' => 'egr', 'Eucgr.J00264' => 'egr', 'Eucgr.J00493' => 'egr', 'FAN04G2181' => 'fan', 'FAN07G2666' => 'fan', 'FAN11G0024' => 'fan', 'FAN12G1105' => 'fan', 'FAN13G0302' => 'fan', 'FAN15G2781' => 'fan', 'FAN16G1274' => 'fan', 'FAN17G2988' => 'fan', 'FAN18G2621' => 'fan', 'FAN21G0013' => 'fan', 'FAN22G1211' => 'fan', 'FAN25G3626' => 'fan', 'FvH4_2g09491' => 'fve', 'FvH4_3g24910' => 'fve', 'FvH4_4g15630' => 'fve', 'FvH4_5g28820' => 'fve', 'Glyma.01G238000' => 'gma', 'Glyma.05G168400' => 'gma', 'Glyma.08G126800' => 'gma', 'Glyma.08G188500' => 'gma', 'Glyma.10G278900' => 'gma', 'Glyma.11G005700' => 'gma', 'Glyma.11G183300' => 'gma', 'Glyma.12G089200' => 'gma', 'Glyma.12G169400' => 'gma', 'Glyma.12G169500' => 'gma', 'Glyma.12G169600' => 'gma', 'Glyma.20G110800' => 'gma', 'Gohir.A03G192900' => 'ghi', 'Gohir.A03G193000' => 'ghi', 'Gohir.A05G080700' => 'ghi', 'Gohir.A09G216000' => 'ghi', 'Gohir.A12G027700' => 'ghi', 'Gohir.A13G036200' => 'ghi', 'Gohir.A13G222600' => 'ghi', 'Gohir.D02G213900' => 'ghi', 'Gohir.D02G214000' => 'ghi', 'Gohir.D05G083700' => 'ghi', 'Gohir.D05G083800' => 'ghi', 'Gohir.D05G083850' => 'ghi', 'Gohir.D08G015400' => 'ghi', 'Gohir.D09G218400' => 'ghi', 'Gohir.D12G027100' => 'ghi', 'Gohir.D13G034500' => 'ghi', 'Gohir.D13G227400' => 'ghi', 'Gorai.005G241800' => 'gra', 'Gorai.005G241900' => 'gra', 'Gorai.006G239400' => 'gra', 'Gorai.008G027600' => 'gra', 'Gorai.009G085400' => 'gra', 'Gorai.009G085500' => 'gra', 'Gorai.013G039000' => 'gra', 'Gorai.013G194800' => 'gra', 'Gorai.013G257900' => 'gra', 'GSVIVG01000982001' => 'vvi', 'GSVIVG01017981001' => 'vvi', 'HanXRQChr01g0024061' => 'han', 'HanXRQChr09g0247831' => 'han', 'HanXRQChr10g0294611' => 'han', 'HanXRQChr10g0294621' => 'han', 'HanXRQChr11g0346821' => 'han', 'HanXRQChr13g0397461' => 'han', 'HanXRQChr16g0513651' => 'han', 'HanXRQChr16g0513701' => 'han', 'Haze_00897' => 'cav', 'Haze_01745' => 'cav', 'Haze_02486' => 'cav', 'Haze_02487' => 'cav', 'Haze_23374' => 'cav', 'Hma1.2p1_0578F.1_g182520' => 'hma', 'Hma1.2p1_0602F.1_g187350' => 'hma', 'Hma1.2p1_0602F.1_g187360' => 'hma', 'Hma1.2p1_0874F.1_g231320' => 'hma', 'Hma1.2p1_1197F.1_g266210' => 'hma', 'Hma1.2p1_1197F.1_g266220' => 'hma', 'Hma1.2p1_2167F.1_g315895' => 'hma', 'Hma1.2p1_2190F.1_g316640' => 'hma', 'Hma1.2p1_3645F.1_g337153' => 'hma', 'HPP92_004907' => 'vpl', 'HPP92_012134' => 'vpl', 'HPP92_025136' => 'vpl', 'HPP92_026087' => 'vpl', 'Hund06782' => 'sun', 'Hund06784' => 'sun', 'Lalb_Chr01g0004861' => 'lal', 'Lalb_Chr02g0140591' => 'lal', 'Lalb_Chr02g0140611' => 'lal', 'Lalb_Chr03g0028101' => 'lal', 'Lalb_Chr07g0185791' => 'lal', 'Lalb_Chr12g0204491' => 'lal', 'Lalb_Chr13g0295671' => 'lal', 'Lalb_Chr19g0136461' => 'lal', 'Lalb_Chr21g0309191' => 'lal', 'Lj1g0028158' => 'lja', 'Lj1P236T38' => 'lonja', 'Lj2C32G2' => 'lonja', 'Lj2P944T8' => 'lonja', 'Lj2P963T15' => 'lonja', 'Lj3g0011788' => 'lja', 'Lj4g0025027' => 'lja', 'Lj5P255T36' => 'lonja', 'Lj6g0018866' => 'lja', 'Lj6P608T31' => 'lonja', 'LjContig00408g0008879' => 'lja', 'Lsat_1_v5_gn_5_105820' => 'lsa', 'Lsat_1_v5_gn_6_38800' => 'lsa', 'Lsat_1_v5_gn_7_67141' => 'lsa', 'Manes.04G003400' => 'mes', 'Manes.07G020000' => 'mes', 'Manes.07G020100' => 'mes', 'Manes.07G020150' => 'mes', 'Manes.10G061500' => 'mes', 'Manes.10G123200' => 'mes', 'Manes.11G161900' => 'mes', 'Manes.15G029300' => 'mes', 'Mapoly0071s0018' => 'mpo', 'Mapoly0082s0023' => 'mpo', 'Mapoly3477s0001' => 'mpo', 'MBI05_g31233_MAGBIO' => 'mbi', 'MBI09_g05946_MAGBIO' => 'mbi', 'MBI09_g05947_MAGBIO' => 'mbi', 'MBI17_g08346_MAGBIO' => 'mbi', 'MCO04G038' => 'mco', 'MCO09G370' => 'mco', 'MCO13G605' => 'mco', 'MD00G1075500' => 'mdo', 'MD03G1144300' => 'mdo', 'MD08G1236800' => 'mdo', 'MD13G1193300' => 'mdo', 'MD15G1428700' => 'mdo', 'Medtr1g112030' => 'mtr', 'Medtr1g112050' => 'mtr', 'Medtr2g006290' => 'mtr', 'Medtr2g086510' => 'mtr', 'Medtr4g053120' => 'mtr', 'Medtr5g006320' => 'mtr', 'Medtr8g088720' => 'mtr', 'MELO3C004712.2' => 'cme', 'MELO3C006533.2' => 'cme', 'MELO3C019438.2' => 'cme', 'MELO3C019440.2' => 'cme', 'MELO3C019441.2' => 'cme', 'MELO3C019895.2' => 'cme', 'Migut.B00811' => 'egut', 'Migut.D02447' => 'egut', 'Migut.F00875' => 'egut', 'Migut.N00186' => 'egut', 'Migut.N01051' => 'egut', 'Migut.N02491' => 'egut', 'Migut.O00784' => 'egut', 'MSTRG.12367' => 'ama', 'MSTRG.18756' => 'ama', 'MSTRG.21042' => 'ama', 'Nitab4.5_0000559g0040' => 'nta', 'Nitab4.5_0000667g0190' => 'nta', 'Nitab4.5_0000755g0160' => 'nta', 'Nitab4.5_0001216g0080' => 'nta', 'Nitab4.5_0004069g0040' => 'nta', 'Nitab4.5_0004129g0010' => 'nta', 'Nitab4.5_0005744g0030' => 'nta', 'Nitab4.5_0006996g0030' => 'nta', 'Nitab4.5_0008971g0040' => 'nta', 'Nitab4.5_0009769g0020' => 'nta', 'Nitab4.5_0009833g0010' => 'nta', 'Nitab4.5_0013140g0020' => 'nta', 'Nn003s41376' => 'nnu', 'Nn1g01857' => 'nnu', 'Nn1g03611' => 'nnu', 'Nn1g06853' => 'nnu', 'Nn3g18360' => 'nnu', 'Nn4g26328' => 'nnu', 'Nn5g27531' => 'nnu', 'Nn6g34899' => 'nnu', 'Nn7g36299' => 'nnu', 'Oeu021485.1' => 'oeu', 'Oeu022433.1' => 'oeu', 'Oeu032111.1' => 'oeu', 'Oeu051608.1' => 'oeu', 'Os01g0860601' => 'osa', 'Os03g0659200' => 'osa', 'Os03g0835900' => 'osa', 'Os04g0412200' => 'osa', 'Os05g0443500' => 'osa', 'Os07g0251500' => 'osa', 'Os08g0104600' => 'osa', 'Peaxi162Scf00003g00047' => 'pax', 'Peaxi162Scf00003g00052' => 'pax', 'Peaxi162Scf00003g00394' => 'pax', 'Peaxi162Scf00091g00621' => 'pax', 'Peaxi162Scf00152g00146' => 'pax', 'Peaxi162Scf00173g00025' => 'pax', 'Peaxi162Scf00195g00102' => 'pax', 'Peaxi162Scf00402g00013' => 'pax', 'Peaxi162Scf00519g00618' => 'pax', 'PGR004G2838' => 'pgr', 'PGR044G2275' => 'pgr', 'PGR102G1377' => 'pgr', 'PGR119G1245' => 'pgr', 'PGR142G4449' => 'pgr', 'PGSC0003DMG400004532' => 'stu', 'PGSC0003DMG400011950' => 'stu', 'PGSC0003DMG400023391' => 'stu', 'PGSC0003DMG400023985' => 'stu', 'PGSC0003DMG400026360' => 'stu', 'PGSC0003DMG400035711' => 'stu', 'PGSC0003DMG400037286' => 'stu', 'PGSC0003DMG402005881' => 'stu', 'Phvul.002G045400' => 'pvu', 'Phvul.006G216600' => 'pvu', 'Phvul.006G216700' => 'pvu', 'Phvul.006G216800' => 'pvu', 'Phvul.007G022500' => 'pvu', 'Phvul.011G094400' => 'pvu', 'Potri.001G470700' => 'ptr', 'Potri.003G015200' => 'ptr', 'Potri.004G202500' => 'ptr', 'Potri.004G218400' => 'ptr', 'Potri.008G020100' => 'ptr', 'Potri.008G153200' => 'ptr', 'Potri.009G163800' => 'ptr', 'Potri.010G087300' => 'ptr', 'Potri.010G239100' => 'ptr', 'Pp3c10_16100' => 'ppa', 'Pp3c10_16880' => 'ppa', 'Pp3c16_6230' => 'ppa', 'Pp3c17_18910' => 'ppa', 'Pp3c3_22119' => 'ppa', 'Pp3c3_22140' => 'ppa', 'Pp3c4_8159' => 'ppa', 'Pp3c4_8171' => 'ppa', 'Pp3c4_8330' => 'ppa', 'PRCOL_00004098' => 'pco', 'Prupe.1G013900' => 'ppe', 'Prupe.1G226300' => 'ppe', 'Prupe.1G573600' => 'ppe', 'Prupe.6G130100' => 'ppe', 'Psat3g090040' => 'psa', 'Psat4g210440' => 'psa', 'Psat6g231040' => 'psa', 'Psat6g231080' => 'psa', 'Psat7g063000' => 'psa', 'Psat7g188000' => 'psa', 'Psat7g188040' => 'psa', 'PSO017G0206' => 'pso', 'PSO170G0501' => 'pso', 'PSO170G6422' => 'pso', 'PSO210G7739' => 'pso', 'PSO339G1808' => 'pso', 'PSO339G6135' => 'pso', 'PSO384G0010' => 'pso', 'PSO384G0964' => 'pso', 'PSO761G0050' => 'pso', 'PSO782G4085' => 'pso', 'QL01p012264' => 'qlo', 'QL02p099491' => 'qlo', 'QL03p033868' => 'qlo', 'QL04p046678' => 'qlo', 'QL06p002448' => 'qlo', 'RcHm_v2.0_Chr4g0416181' => 'rch', 'RcHm_v2.0_Chr5g0044701' => 'rch', 'RcHm_v2.0_Chr6g0265781' => 'rch', 'RcHm_v2.0_Chr7g0221031' => 'rch', 'Rhsim04G0202000' => 'rsi', 'Rhsim11G0127300' => 'rsi', 'Rhsim13G0111800' => 'rsi', 'Sabra01G0165600' => 'sbr', 'Sabra03G0008300' => 'sbr', 'Sabra04G0136900' => 'sbr', 'Sabra08G0013400' => 'sbr', 'Sabra08G0116800' => 'sbr', 'Sabra09G0128000' => 'sbr', 'Sabra10G0055500' => 'sbr', 'Sabra10G0073300' => 'sbr', 'SalBow3G0385' => 'sbo', 'SalBow3G1119' => 'sbo', 'SalBow3G2005' => 'sbo', 'SalBow6G2563' => 'sbo', 'SalBow6G6386' => 'sbo', 'Sc06g0008800' => 'sci', 'Sc07g0004950' => 'sci', 'Sc09g0005340' => 'sci', 'Sc13g0004410' => 'sci', 'Sc21g0007090' => 'sci', 'Sed0009285' => 'sed', 'Sed0017583' => 'sed', 'Sed0019699' => 'sed', 'Sed0023107' => 'sed', 'SEGI_10916' => 'sgi', 'SEGI_16217' => 'sgi', 'SEGI_19466' => 'sgi', 'SEGI_41115' => 'sgi', 'SGA_v2.0_scaffold111G31534' => 'sas', 'SGA_v2.0_scaffold22G09864' => 'sas', 'SGA_v2.0_scaffold338G49219' => 'sas', 'SGA_v2.0_scaffold92G28298' => 'sas', 'SMO119G0064' => 'smo', 'SMO223G0038' => 'smo', 'SMO347G0584' => 'smo', 'SMO351G0010' => 'smo', 'SMO356G0404' => 'smo', 'Solyc01g103920.3' => 'sly', 'Solyc04g009710.2' => 'sly', 'Solyc05g055280.2' => 'sly', 'Solyc10g044520.3' => 'sly', 'Solyc10g075160.1' => 'sly', 'Solyc11g006910.3' => 'sly', 'Solyc11g068430.3' => 'sly', 'Sopen01g046310' => 'spe', 'Sopen03g001200' => 'spe', 'Sopen04g004830' => 'spe', 'Sopen05g033720' => 'spe', 'Sopen06g030740' => 'spe', 'Sopen10g013090' => 'spe', 'Sopen10g027630' => 'spe', 'Sopen10g027640' => 'spe', 'Sopen11g002820' => 'spe', 'Sopen11g027140' => 'spe', 'Sp1g09680' => 'spa', 'Sp2g03630' => 'spa', 'Sp4g10320' => 'spa', 'Sp6g33400' => 'spa', 'Sp7g13030' => 'spa', 'TAR365G0317' => 'tar', 'TAR376G0979' => 'tar', 'TAR623G1665' => 'tar', 'TAR633G2373' => 'tar', 'TAR636G1400' => 'tar', 'THA.LOC104800529' => 'tha', 'THA.LOC104808547' => 'tha', 'THA.LOC104809615' => 'tha', 'THA.LOC104815724' => 'tha', 'THA.LOC104818480' => 'tha', 'THA.LOC104819179' => 'tha', 'THA.LOC104822270' => 'tha', 'THA.LOC104826425' => 'tha', 'Thecc.02G089700' => 'tca', 'Thecc.04G232300' => 'tca', 'Thecc.09G283400' => 'tca', 'Thhalv10009020m.g' => 'esa', 'Thhalv10015506m.g' => 'esa', 'Thhalv10017364m.g' => 'esa', 'Thhalv10023742m.g' => 'esa', 'Thhalv10026483m.g' => 'esa', 'TPR.G17232' => 'tpr', 'TPR.G2133' => 'tpr', 'TPR.G2498' => 'tpr', 'TPR.G31942' => 'tpr', 'TPR.G37877' => 'tpr', 'TPR.G4571' => 'tpr', 'TWI14G1113' => 'twi', 'TWI15G0426' => 'twi', 'TWI31G1005' => 'twi', 'TWI38G0513' => 'twi', 'TWI38G1484' => 'twi', 'TWI73G1098' => 'twi', 'unitig_26.g10519' => 'ugi', 'unitig_736.g22395' => 'ugi', 'unitig_747.g21234' => 'ugi', 'unitig_747.g21942' => 'ugi', 'vmacro14351' => 'vma', 'VMungo0540G0082' => 'vmu', 'VMungo0540G0405' => 'vmu', 'VMungo0540G1486' => 'vmu', 'VMungo0540G1692' => 'vmu', 'VMungo0720G2473' => 'vmu', 'VMungo1127G1562' => 'vmu', 'VMungo1215G1918' => 'vmu', 'Zm00001eb052650' => 'zma', 'Zm00001eb063710' => 'zma', 'Zm00001eb083950' => 'zma', 'Zm00001eb174420' => 'zma', 'Zm00001eb260140' => 'zma', 'Zm00001eb260150' => 'zma', 'Zm00001eb260160' => 'zma', 'Zm00001eb348290' => 'zma', 'Zm00001eb366870' => 'zma', 'Zm00001eb421930' => 'zma' ), 'gf_id' => 'HOM05D001025', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001025' ), 'data_identifier' => 'HOM05D001025', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001025', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '592', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p22650' => 'bna', 'A01p29720' => 'bna', 'A03p26560' => 'bna', 'A03p68820' => 'bna', 'A04p20980' => 'bna', 'A06p07730' => 'bna', 'A07p18260' => 'bna', 'A08p33710' => 'bna', 'A09p16970' => 'bna', 'A10p27490' => 'bna', 'Aa31LG1G17300' => 'aar', 'Aa31LG1G3910' => 'aar', 'Aa31LG2G9630' => 'aar', 'Aa31LG5G8360' => 'aar', 'Aa31LG9G2410' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4699' => 'aag', 'Actinidia23512' => 'ach', 'Actinidia37080' => 'ach', 'Ah.01g020380' => 'amhyb', 'Ah.08g215710' => 'amhyb', 'Ah.09g225110' => 'amhyb', 'Ah.10g036680' => 'amhyb', 'AL1G21940' => 'aly', 'AL2G15540' => 'aly', 'AL4G21520' => 'aly', 'AL7G40960' => 'aly', 'Aqoxy2G01191' => 'aox', 'Aqoxy2G03393' => 'aox', 'Aqoxy4G02775' => 'aox', 'Aqoxy6G00058' => 'aox', 'arahy.Tifrunner.gnm1.ann1.9X74H2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CW3FX9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R485W7' => 'arhy', 'AT1G10960' => 'ath', 'AT1G60950' => 'ath', 'AT2G27510' => 'ath', 'AT4G14890' => 'ath', 'AT5G10000' => 'ath', 'ATR0665G624' => 'atr', 'ATR0697G138' => 'atr', 'ATR0776G046' => 'atr', 'ATR1134G135' => 'atr', 'Atru.chr12.1025' => 'acertr', 'Atru.chr3.3241' => 'acertr', 'Atru.chr4.2460' => 'acertr', 'AUR62007427' => 'cqu', 'AUR62010960' => 'cqu', 'AUR62012201' => 'cqu', 'AUR62021470' => 'cqu', 'AUR62022834' => 'cqu', 'AUR62033635' => 'cqu', 'AUR62036186' => 'cqu', 'BcaB01g03077' => 'bca', 'BcaB02g10093' => 'bca', 'BcaB04g20295' => 'bca', 'BcaB06g28147' => 'bca', 'BcaB07g31253' => 'bca', 'BcaC01g04946' => 'bca', 'BcaC02g10614' => 'bca', 'BcaC02g10885' => 'bca', 'BcaC04g19356' => 'bca', 'BcaC04g22297' => 'bca', 'BcaC05g24977' => 'bca', 'BcaC06g31823' => 'bca', 'BcaC07g38633' => 'bca', 'BcaC09g49353' => 'bca', 'BcaC09g50168' => 'bca', 'BcaNung00322' => 'bca', 'BcaNung04769' => 'bca', 'BolC1t02753H' => 'bol', 'BolC1t03721H' => 'bol', 'BolC3t15525H' => 'bol', 'BolC4t23903H' => 'bol', 'BolC4t24231H' => 'bol', 'BolC4t27209H' => 'bol', 'BolC5t29671H' => 'bol', 'BolC8t49044H' => 'bol', 'BolC9t54999H' => 'bol', 'BolC9t59517H' => 'bol', 'BraA01t02178Z' => 'bra', 'BraA01t03099Z' => 'bra', 'BraA03t11867Z' => 'bra', 'BraA04t17667Z' => 'bra', 'BraA07t29542Z' => 'bra', 'BraA08t35287Z' => 'bra', 'BraA09t37334Z' => 'bra', 'BraA10t44801Z' => 'bra', 'BraSC39t46181Z' => 'bra', 'C01p28240' => 'bna', 'C01p37530' => 'bna', 'C03p31820' => 'bna', 'C04p24080' => 'bna', 'C04p25790' => 'bna', 'C04p56770' => 'bna', 'C05p09310' => 'bna', 'C09p21010' => 'bna', 'C09p67560' => 'bna', 'CAN.G1324.7' => 'can', 'CAN.G1358.10' => 'can', 'CAN.G1550.2' => 'can', 'CAN.G186.56' => 'can', 'CAN.G1965.1' => 'can', 'CAN.G645.15' => 'can', 'CAN.G798.26' => 'can', 'CAN.G798.27' => 'can', 'CAN.G798.29' => 'can', 'CAN.G919.31' => 'can', 'CANSAT11G0133' => 'cansat', 'CANSAT11G1171' => 'cansat', 'CANSAT11G2056' => 'cansat', 'CANSAT56G1202' => 'cansat', 'CANSAT56G1514' => 'cansat', 'CANSAT78G0455' => 'cansat', 'CARHR011190' => 'chi', 'CARHR051980' => 'chi', 'CARHR120170' => 'chi', 'CARHR203310' => 'chi', 'CARHR221490' => 'chi', 'Carub.0001s1054' => 'cru', 'Carub.0002s0431' => 'cru', 'Carub.0004s0818' => 'cru', 'Carub.0006s0846' => 'cru', 'Carub.0007s2722' => 'cru', 'Ca_00058_v3' => 'car', 'Ca_17831_v3' => 'car', 'Ca_19408_v3' => 'car', 'Ca_24397_v3' => 'car', 'Ca_25664_v3' => 'car', 'CBR_g21818' => 'cbr', 'CBR_g31195' => 'cbr', 'CBR_g32282' => 'cbr', 'CBR_g39599' => 'cbr', 'CBR_g49410' => 'cbr', 'Cc01_g09120' => 'ccan', 'Cc01_g09130' => 'ccan', 'Cc02_g09630' => 'ccan', 'Cc02_g22810' => 'ccan', 'Cc03_g03810' => 'ccan', 'CDE02G3718' => 'cde', 'CDE04G3183' => 'cde', 'CDE07G1046' => 'cde', 'CDE08G0480' => 'cde', 'Cfa005493' => 'cfa', 'Cfa010312' => 'cfa', 'Cfa015648' => 'cfa', 'Ciclev10002793m.g' => 'ccl', 'Ciclev10003356m.g' => 'ccl', 'Ciclev10006141m.g' => 'ccl', 'Ciclev10016676m.g' => 'ccl', 'Ciclev10017081m.g' => 'ccl', 'Ciclev10029499m.g' => 'ccl', 'CiPaw.01G166300' => 'cil', 'CiPaw.06G145600' => 'cil', 'CiPaw.13G040100' => 'cil', 'CiPaw.13G135800' => 'cil', 'ClCG01G012230' => 'cla', 'ClCG05G009510' => 'cla', 'ClCG08G008270' => 'cla', 'COL.COLO4_11763' => 'col', 'COL.COLO4_19876' => 'col', 'COL.COLO4_21481' => 'col', 'Cpa.g.sc118.34' => 'cpa', 'Cpa.g.sc32.13' => 'cpa', 'Cpa.g.sc58.103' => 'cpa', 'Cre03.g183850' => 'cre', 'Cre06.g306350' => 'cre', 'Cre07.g334800' => 'cre', 'Cre12.g487900' => 'cre', 'Cre14.g626700' => 'cre', 'Cre16.g658400' => 'cre', 'Cre17.g700950' => 'cre', 'CsaV3_1G014830' => 'csa', 'CsaV3_3G013320' => 'csa', 'CsaV3_3G019210' => 'csa', 'CsaV3_3G019220' => 'csa', 'CsaV3_6G004230' => 'csa', 'CSS0003773' => 'camsi', 'CSS0004563' => 'camsi', 'CSS0013949' => 'camsi', 'CSS0025971' => 'camsi', 'CSS0028570' => 'camsi', 'CSS0033127' => 'camsi', 'CSS0036051' => 'camsi', 'CSS0040087' => 'camsi', 'CSS0043179' => 'camsi', 'DCAR_006161' => 'dca', 'DCAR_010351' => 'dca', 'DCAR_012197' => 'dca', 'DCAR_024162' => 'dca', 'Dinv01030' => 'din', 'Dinv10924' => 'din', 'Dinv11835' => 'din', 'Dinv22841' => 'din', 'Dinv42553' => 'din', 'Duzib052G0560' => 'dzi', 'Duzib132G0389' => 'dzi', 'Duzib150G1181' => 'dzi', 'Duzib168G0623' => 'dzi', 'Duzib170G1036' => 'dzi', 'Duzib212G0200' => 'dzi', 'Duzib248G0194' => 'dzi', 'ECA232G2193' => 'eca', 'ECA233G0302' => 'eca', 'ECA234G2813' => 'eca', 'ECA234G4866' => 'eca', 'ECA240G3932' => 'eca', 'ECA248G0385' => 'eca', 'EL10Ac2g04781' => 'bvu', 'EL10Ac3g06445' => 'bvu', 'EL10Ac7g15825' => 'bvu', 'EL10Ac8g18550' => 'bvu', 'Eucgr.B03849' => 'egr', 'Eucgr.I02744' => 'egr', 'Eucgr.J00264' => 'egr', 'Eucgr.J00493' => 'egr', 'FAN04G2181' => 'fan', 'FAN07G2666' => 'fan', 'FAN11G0024' => 'fan', 'FAN12G1105' => 'fan', 'FAN13G0302' => 'fan', 'FAN15G2781' => 'fan', 'FAN16G1274' => 'fan', 'FAN17G2988' => 'fan', 'FAN18G2621' => 'fan', 'FAN21G0013' => 'fan', 'FAN22G1211' => 'fan', 'FAN25G3626' => 'fan', 'FvH4_2g09491' => 'fve', 'FvH4_3g24910' => 'fve', 'FvH4_4g15630' => 'fve', 'FvH4_5g28820' => 'fve', 'Glyma.01G238000' => 'gma', 'Glyma.05G168400' => 'gma', 'Glyma.08G126800' => 'gma', 'Glyma.08G188500' => 'gma', 'Glyma.10G278900' => 'gma', 'Glyma.11G005700' => 'gma', 'Glyma.11G183300' => 'gma', 'Glyma.12G089200' => 'gma', 'Glyma.12G169400' => 'gma', 'Glyma.12G169500' => 'gma', 'Glyma.12G169600' => 'gma', 'Glyma.20G110800' => 'gma', 'Gohir.A03G192900' => 'ghi', 'Gohir.A03G193000' => 'ghi', 'Gohir.A05G080700' => 'ghi', 'Gohir.A09G216000' => 'ghi', 'Gohir.A12G027700' => 'ghi', 'Gohir.A13G036200' => 'ghi', 'Gohir.A13G222600' => 'ghi', 'Gohir.D02G213900' => 'ghi', 'Gohir.D02G214000' => 'ghi', 'Gohir.D05G083700' => 'ghi', 'Gohir.D05G083800' => 'ghi', 'Gohir.D05G083850' => 'ghi', 'Gohir.D08G015400' => 'ghi', 'Gohir.D09G218400' => 'ghi', 'Gohir.D12G027100' => 'ghi', 'Gohir.D13G034500' => 'ghi', 'Gohir.D13G227400' => 'ghi', 'Gorai.005G241800' => 'gra', 'Gorai.005G241900' => 'gra', 'Gorai.006G239400' => 'gra', 'Gorai.008G027600' => 'gra', 'Gorai.009G085400' => 'gra', 'Gorai.009G085500' => 'gra', 'Gorai.013G039000' => 'gra', 'Gorai.013G194800' => 'gra', 'Gorai.013G257900' => 'gra', 'GSVIVG01000982001' => 'vvi', 'GSVIVG01017981001' => 'vvi', 'HanXRQChr01g0024061' => 'han', 'HanXRQChr09g0247831' => 'han', 'HanXRQChr10g0294611' => 'han', 'HanXRQChr10g0294621' => 'han', 'HanXRQChr11g0346821' => 'han', 'HanXRQChr13g0397461' => 'han', 'HanXRQChr16g0513651' => 'han', 'HanXRQChr16g0513701' => 'han', 'Haze_00897' => 'cav', 'Haze_01745' => 'cav', 'Haze_02486' => 'cav', 'Haze_02487' => 'cav', 'Haze_23374' => 'cav', 'Hma1.2p1_0578F.1_g182520' => 'hma', 'Hma1.2p1_0602F.1_g187350' => 'hma', 'Hma1.2p1_0602F.1_g187360' => 'hma', 'Hma1.2p1_0874F.1_g231320' => 'hma', 'Hma1.2p1_1197F.1_g266210' => 'hma', 'Hma1.2p1_1197F.1_g266220' => 'hma', 'Hma1.2p1_2167F.1_g315895' => 'hma', 'Hma1.2p1_2190F.1_g316640' => 'hma', 'Hma1.2p1_3645F.1_g337153' => 'hma', 'HPP92_004907' => 'vpl', 'HPP92_012134' => 'vpl', 'HPP92_025136' => 'vpl', 'HPP92_026087' => 'vpl', 'Hund06782' => 'sun', 'Hund06784' => 'sun', 'Lalb_Chr01g0004861' => 'lal', 'Lalb_Chr02g0140591' => 'lal', 'Lalb_Chr02g0140611' => 'lal', 'Lalb_Chr03g0028101' => 'lal', 'Lalb_Chr07g0185791' => 'lal', 'Lalb_Chr12g0204491' => 'lal', 'Lalb_Chr13g0295671' => 'lal', 'Lalb_Chr19g0136461' => 'lal', 'Lalb_Chr21g0309191' => 'lal', 'Lj1g0028158' => 'lja', 'Lj1P236T38' => 'lonja', 'Lj2C32G2' => 'lonja', 'Lj2P944T8' => 'lonja', 'Lj2P963T15' => 'lonja', 'Lj3g0011788' => 'lja', 'Lj4g0025027' => 'lja', 'Lj5P255T36' => 'lonja', 'Lj6g0018866' => 'lja', 'Lj6P608T31' => 'lonja', 'LjContig00408g0008879' => 'lja', 'Lsat_1_v5_gn_5_105820' => 'lsa', 'Lsat_1_v5_gn_6_38800' => 'lsa', 'Lsat_1_v5_gn_7_67141' => 'lsa', 'Manes.04G003400' => 'mes', 'Manes.07G020000' => 'mes', 'Manes.07G020100' => 'mes', 'Manes.07G020150' => 'mes', 'Manes.10G061500' => 'mes', 'Manes.10G123200' => 'mes', 'Manes.11G161900' => 'mes', 'Manes.15G029300' => 'mes', 'Mapoly0071s0018' => 'mpo', 'Mapoly0082s0023' => 'mpo', 'Mapoly3477s0001' => 'mpo', 'MBI05_g31233_MAGBIO' => 'mbi', 'MBI09_g05946_MAGBIO' => 'mbi', 'MBI09_g05947_MAGBIO' => 'mbi', 'MBI17_g08346_MAGBIO' => 'mbi', 'MCO04G038' => 'mco', 'MCO09G370' => 'mco', 'MCO13G605' => 'mco', 'MD00G1075500' => 'mdo', 'MD03G1144300' => 'mdo', 'MD08G1236800' => 'mdo', 'MD13G1193300' => 'mdo', 'MD15G1428700' => 'mdo', 'Medtr1g112030' => 'mtr', 'Medtr1g112050' => 'mtr', 'Medtr2g006290' => 'mtr', 'Medtr2g086510' => 'mtr', 'Medtr4g053120' => 'mtr', 'Medtr5g006320' => 'mtr', 'Medtr8g088720' => 'mtr', 'MELO3C004712.2' => 'cme', 'MELO3C006533.2' => 'cme', 'MELO3C019438.2' => 'cme', 'MELO3C019440.2' => 'cme', 'MELO3C019441.2' => 'cme', 'MELO3C019895.2' => 'cme', 'Migut.B00811' => 'egut', 'Migut.D02447' => 'egut', 'Migut.F00875' => 'egut', 'Migut.N00186' => 'egut', 'Migut.N01051' => 'egut', 'Migut.N02491' => 'egut', 'Migut.O00784' => 'egut', 'MSTRG.12367' => 'ama', 'MSTRG.18756' => 'ama', 'MSTRG.21042' => 'ama', 'Nitab4.5_0000559g0040' => 'nta', 'Nitab4.5_0000667g0190' => 'nta', 'Nitab4.5_0000755g0160' => 'nta', 'Nitab4.5_0001216g0080' => 'nta', 'Nitab4.5_0004069g0040' => 'nta', 'Nitab4.5_0004129g0010' => 'nta', 'Nitab4.5_0005744g0030' => 'nta', 'Nitab4.5_0006996g0030' => 'nta', 'Nitab4.5_0008971g0040' => 'nta', 'Nitab4.5_0009769g0020' => 'nta', 'Nitab4.5_0009833g0010' => 'nta', 'Nitab4.5_0013140g0020' => 'nta', 'Nn003s41376' => 'nnu', 'Nn1g01857' => 'nnu', 'Nn1g03611' => 'nnu', 'Nn1g06853' => 'nnu', 'Nn3g18360' => 'nnu', 'Nn4g26328' => 'nnu', 'Nn5g27531' => 'nnu', 'Nn6g34899' => 'nnu', 'Nn7g36299' => 'nnu', 'Oeu021485.1' => 'oeu', 'Oeu022433.1' => 'oeu', 'Oeu032111.1' => 'oeu', 'Oeu051608.1' => 'oeu', 'Os01g0860601' => 'osa', 'Os03g0659200' => 'osa', 'Os03g0835900' => 'osa', 'Os04g0412200' => 'osa', 'Os05g0443500' => 'osa', 'Os07g0251500' => 'osa', 'Os08g0104600' => 'osa', 'Peaxi162Scf00003g00047' => 'pax', 'Peaxi162Scf00003g00052' => 'pax', 'Peaxi162Scf00003g00394' => 'pax', 'Peaxi162Scf00091g00621' => 'pax', 'Peaxi162Scf00152g00146' => 'pax', 'Peaxi162Scf00173g00025' => 'pax', 'Peaxi162Scf00195g00102' => 'pax', 'Peaxi162Scf00402g00013' => 'pax', 'Peaxi162Scf00519g00618' => 'pax', 'PGR004G2838' => 'pgr', 'PGR044G2275' => 'pgr', 'PGR102G1377' => 'pgr', 'PGR119G1245' => 'pgr', 'PGR142G4449' => 'pgr', 'PGSC0003DMG400004532' => 'stu', 'PGSC0003DMG400011950' => 'stu', 'PGSC0003DMG400023391' => 'stu', 'PGSC0003DMG400023985' => 'stu', 'PGSC0003DMG400026360' => 'stu', 'PGSC0003DMG400035711' => 'stu', 'PGSC0003DMG400037286' => 'stu', 'PGSC0003DMG402005881' => 'stu', 'Phvul.002G045400' => 'pvu', 'Phvul.006G216600' => 'pvu', 'Phvul.006G216700' => 'pvu', 'Phvul.006G216800' => 'pvu', 'Phvul.007G022500' => 'pvu', 'Phvul.011G094400' => 'pvu', 'Potri.001G470700' => 'ptr', 'Potri.003G015200' => 'ptr', 'Potri.004G202500' => 'ptr', 'Potri.004G218400' => 'ptr', 'Potri.008G020100' => 'ptr', 'Potri.008G153200' => 'ptr', 'Potri.009G163800' => 'ptr', 'Potri.010G087300' => 'ptr', 'Potri.010G239100' => 'ptr', 'Pp3c10_16100' => 'ppa', 'Pp3c10_16880' => 'ppa', 'Pp3c16_6230' => 'ppa', 'Pp3c17_18910' => 'ppa', 'Pp3c3_22119' => 'ppa', 'Pp3c3_22140' => 'ppa', 'Pp3c4_8159' => 'ppa', 'Pp3c4_8171' => 'ppa', 'Pp3c4_8330' => 'ppa', 'PRCOL_00004098' => 'pco', 'Prupe.1G013900' => 'ppe', 'Prupe.1G226300' => 'ppe', 'Prupe.1G573600' => 'ppe', 'Prupe.6G130100' => 'ppe', 'Psat3g090040' => 'psa', 'Psat4g210440' => 'psa', 'Psat6g231040' => 'psa', 'Psat6g231080' => 'psa', 'Psat7g063000' => 'psa', 'Psat7g188000' => 'psa', 'Psat7g188040' => 'psa', 'PSO017G0206' => 'pso', 'PSO170G0501' => 'pso', 'PSO170G6422' => 'pso', 'PSO210G7739' => 'pso', 'PSO339G1808' => 'pso', 'PSO339G6135' => 'pso', 'PSO384G0010' => 'pso', 'PSO384G0964' => 'pso', 'PSO761G0050' => 'pso', 'PSO782G4085' => 'pso', 'QL01p012264' => 'qlo', 'QL02p099491' => 'qlo', 'QL03p033868' => 'qlo', 'QL04p046678' => 'qlo', 'QL06p002448' => 'qlo', 'RcHm_v2.0_Chr4g0416181' => 'rch', 'RcHm_v2.0_Chr5g0044701' => 'rch', 'RcHm_v2.0_Chr6g0265781' => 'rch', 'RcHm_v2.0_Chr7g0221031' => 'rch', 'Rhsim04G0202000' => 'rsi', 'Rhsim11G0127300' => 'rsi', 'Rhsim13G0111800' => 'rsi', 'Sabra01G0165600' => 'sbr', 'Sabra03G0008300' => 'sbr', 'Sabra04G0136900' => 'sbr', 'Sabra08G0013400' => 'sbr', 'Sabra08G0116800' => 'sbr', 'Sabra09G0128000' => 'sbr', 'Sabra10G0055500' => 'sbr', 'Sabra10G0073300' => 'sbr', 'SalBow3G0385' => 'sbo', 'SalBow3G1119' => 'sbo', 'SalBow3G2005' => 'sbo', 'SalBow6G2563' => 'sbo', 'SalBow6G6386' => 'sbo', 'Sc06g0008800' => 'sci', 'Sc07g0004950' => 'sci', 'Sc09g0005340' => 'sci', 'Sc13g0004410' => 'sci', 'Sc21g0007090' => 'sci', 'Sed0009285' => 'sed', 'Sed0017583' => 'sed', 'Sed0019699' => 'sed', 'Sed0023107' => 'sed', 'SEGI_10916' => 'sgi', 'SEGI_16217' => 'sgi', 'SEGI_19466' => 'sgi', 'SEGI_41115' => 'sgi', 'SGA_v2.0_scaffold111G31534' => 'sas', 'SGA_v2.0_scaffold22G09864' => 'sas', 'SGA_v2.0_scaffold338G49219' => 'sas', 'SGA_v2.0_scaffold92G28298' => 'sas', 'SMO119G0064' => 'smo', 'SMO223G0038' => 'smo', 'SMO347G0584' => 'smo', 'SMO351G0010' => 'smo', 'SMO356G0404' => 'smo', 'Solyc01g103920.3' => 'sly', 'Solyc04g009710.2' => 'sly', 'Solyc05g055280.2' => 'sly', 'Solyc10g044520.3' => 'sly', 'Solyc10g075160.1' => 'sly', 'Solyc11g006910.3' => 'sly', 'Solyc11g068430.3' => 'sly', 'Sopen01g046310' => 'spe', 'Sopen03g001200' => 'spe', 'Sopen04g004830' => 'spe', 'Sopen05g033720' => 'spe', 'Sopen06g030740' => 'spe', 'Sopen10g013090' => 'spe', 'Sopen10g027630' => 'spe', 'Sopen10g027640' => 'spe', 'Sopen11g002820' => 'spe', 'Sopen11g027140' => 'spe', 'Sp1g09680' => 'spa', 'Sp2g03630' => 'spa', 'Sp4g10320' => 'spa', 'Sp6g33400' => 'spa', 'Sp7g13030' => 'spa', 'TAR365G0317' => 'tar', 'TAR376G0979' => 'tar', 'TAR623G1665' => 'tar', 'TAR633G2373' => 'tar', 'TAR636G1400' => 'tar', 'THA.LOC104800529' => 'tha', 'THA.LOC104808547' => 'tha', 'THA.LOC104809615' => 'tha', 'THA.LOC104815724' => 'tha', 'THA.LOC104818480' => 'tha', 'THA.LOC104819179' => 'tha', 'THA.LOC104822270' => 'tha', 'THA.LOC104826425' => 'tha', 'Thecc.02G089700' => 'tca', 'Thecc.04G232300' => 'tca', 'Thecc.09G283400' => 'tca', 'Thhalv10009020m.g' => 'esa', 'Thhalv10015506m.g' => 'esa', 'Thhalv10017364m.g' => 'esa', 'Thhalv10023742m.g' => 'esa', 'Thhalv10026483m.g' => 'esa', 'TPR.G17232' => 'tpr', 'TPR.G2133' => 'tpr', 'TPR.G2498' => 'tpr', 'TPR.G31942' => 'tpr', 'TPR.G37877' => 'tpr', 'TPR.G4571' => 'tpr', 'TWI14G1113' => 'twi', 'TWI15G0426' => 'twi', 'TWI31G1005' => 'twi', 'TWI38G0513' => 'twi', 'TWI38G1484' => 'twi', 'TWI73G1098' => 'twi', 'unitig_26.g10519' => 'ugi', 'unitig_736.g22395' => 'ugi', 'unitig_747.g21234' => 'ugi', 'unitig_747.g21942' => 'ugi', 'vmacro14351' => 'vma', 'VMungo0540G0082' => 'vmu', 'VMungo0540G0405' => 'vmu', 'VMungo0540G1486' => 'vmu', 'VMungo0540G1692' => 'vmu', 'VMungo0720G2473' => 'vmu', 'VMungo1127G1562' => 'vmu', 'VMungo1215G1918' => 'vmu', 'Zm00001eb052650' => 'zma', 'Zm00001eb063710' => 'zma', 'Zm00001eb083950' => 'zma', 'Zm00001eb174420' => 'zma', 'Zm00001eb260140' => 'zma', 'Zm00001eb260150' => 'zma', 'Zm00001eb260160' => 'zma', 'Zm00001eb348290' => 'zma', 'Zm00001eb366870' => 'zma', 'Zm00001eb421930' => 'zma' ) $gf_id = 'HOM05D001025' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001025' ) $data_identifier = 'HOM05D001025' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 19, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 2, 'amhyb' => (int) 4, 'aly' => (int) 4, 'aox' => (int) 4, 'arhy' => (int) 3, 'ath' => (int) 5, 'atr' => (int) 4, 'acertr' => (int) 3, 'cqu' => (int) 7, 'bca' => (int) 17, 'bol' => (int) 10, 'bra' => (int) 9, 'can' => (int) 10, 'cansat' => (int) 6, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 5, 'cbr' => (int) 5, 'ccan' => (int) 5, 'cde' => (int) 4, 'cfa' => (int) 3, 'ccl' => (int) 6, 'cil' => (int) 4, 'cla' => (int) 3, 'col' => (int) 3, 'cpa' => (int) 3, 'cre' => (int) 7, 'csa' => (int) 5, 'camsi' => (int) 9, 'dca' => (int) 4, 'din' => (int) 5, 'dzi' => (int) 7, 'eca' => (int) 6, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 12, 'fve' => (int) 4, 'gma' => (int) 12, 'ghi' => (int) 17, 'gra' => (int) 9, 'vvi' => (int) 2, 'han' => (int) 8, 'cav' => (int) 5, 'hma' => (int) 9, 'vpl' => (int) 4, 'sun' => (int) 2, 'lal' => (int) 9, 'lja' => (int) 5, 'lonja' => (int) 6, 'lsa' => (int) 3, 'mes' => (int) 8, 'mpo' => (int) 3, 'mbi' => (int) 4, 'mco' => (int) 3, 'mdo' => (int) 5, 'mtr' => (int) 7, 'cme' => (int) 6, 'egut' => (int) 7, 'ama' => (int) 3, 'nta' => (int) 12, 'nnu' => (int) 9, 'oeu' => (int) 4, 'osa' => (int) 7, 'pax' => (int) 9, 'pgr' => (int) 5, 'stu' => (int) 8, 'pvu' => (int) 6, 'ptr' => (int) 9, 'ppa' => (int) 9, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 7, 'pso' => (int) 10, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 3, 'sbr' => (int) 8, 'sbo' => (int) 5, 'sci' => (int) 5, 'sed' => (int) 4, 'sgi' => (int) 4, 'sas' => (int) 4, 'smo' => (int) 5, 'sly' => (int) 7, 'spe' => (int) 10, 'spa' => (int) 5, 'tar' => (int) 5, 'tha' => (int) 8, 'tca' => (int) 3, 'esa' => (int) 5, 'tpr' => (int) 6, 'twi' => (int) 6, 'ugi' => (int) 4, 'vma' => (int) 1, 'vmu' => (int) 7, 'zma' => (int) 10 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb421930' $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' => 'HOM05D001025', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '592', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p22650' => 'bna', 'A01p29720' => 'bna', 'A03p26560' => 'bna', 'A03p68820' => 'bna', 'A04p20980' => 'bna', 'A06p07730' => 'bna', 'A07p18260' => 'bna', 'A08p33710' => 'bna', 'A09p16970' => 'bna', 'A10p27490' => 'bna', 'Aa31LG1G17300' => 'aar', 'Aa31LG1G3910' => 'aar', 'Aa31LG2G9630' => 'aar', 'Aa31LG5G8360' => 'aar', 'Aa31LG9G2410' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4699' => 'aag', 'Actinidia23512' => 'ach', 'Actinidia37080' => 'ach', 'Ah.01g020380' => 'amhyb', 'Ah.08g215710' => 'amhyb', 'Ah.09g225110' => 'amhyb', 'Ah.10g036680' => 'amhyb', 'AL1G21940' => 'aly', 'AL2G15540' => 'aly', 'AL4G21520' => 'aly', 'AL7G40960' => 'aly', 'Aqoxy2G01191' => 'aox', 'Aqoxy2G03393' => 'aox', 'Aqoxy4G02775' => 'aox', 'Aqoxy6G00058' => 'aox', 'arahy.Tifrunner.gnm1.ann1.9X74H2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CW3FX9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R485W7' => 'arhy', 'AT1G10960' => 'ath', 'AT1G60950' => 'ath', 'AT2G27510' => 'ath', 'AT4G14890' => 'ath', 'AT5G10000' => 'ath', 'ATR0665G624' => 'atr', 'ATR0697G138' => 'atr', 'ATR0776G046' => 'atr', 'ATR1134G135' => 'atr', 'Atru.chr12.1025' => 'acertr', 'Atru.chr3.3241' => 'acertr', 'Atru.chr4.2460' => 'acertr', 'AUR62007427' => 'cqu', 'AUR62010960' => 'cqu', 'AUR62012201' => 'cqu', 'AUR62021470' => 'cqu', 'AUR62022834' => 'cqu', 'AUR62033635' => 'cqu', 'AUR62036186' => 'cqu', 'BcaB01g03077' => 'bca', 'BcaB02g10093' => 'bca', 'BcaB04g20295' => 'bca', 'BcaB06g28147' => 'bca', 'BcaB07g31253' => 'bca', 'BcaC01g04946' => 'bca', 'BcaC02g10614' => 'bca', 'BcaC02g10885' => 'bca', 'BcaC04g19356' => 'bca', 'BcaC04g22297' => 'bca', 'BcaC05g24977' => 'bca', 'BcaC06g31823' => 'bca', 'BcaC07g38633' => 'bca', 'BcaC09g49353' => 'bca', 'BcaC09g50168' => 'bca', 'BcaNung00322' => 'bca', 'BcaNung04769' => 'bca', 'BolC1t02753H' => 'bol', 'BolC1t03721H' => 'bol', 'BolC3t15525H' => 'bol', 'BolC4t23903H' => 'bol', 'BolC4t24231H' => 'bol', 'BolC4t27209H' => 'bol', 'BolC5t29671H' => 'bol', 'BolC8t49044H' => 'bol', 'BolC9t54999H' => 'bol', 'BolC9t59517H' => 'bol', 'BraA01t02178Z' => 'bra', 'BraA01t03099Z' => 'bra', 'BraA03t11867Z' => 'bra', 'BraA04t17667Z' => 'bra', 'BraA07t29542Z' => 'bra', 'BraA08t35287Z' => 'bra', 'BraA09t37334Z' => 'bra', 'BraA10t44801Z' => 'bra', 'BraSC39t46181Z' => 'bra', 'C01p28240' => 'bna', 'C01p37530' => 'bna', 'C03p31820' => 'bna', 'C04p24080' => 'bna', 'C04p25790' => 'bna', 'C04p56770' => 'bna', 'C05p09310' => 'bna', 'C09p21010' => 'bna', 'C09p67560' => 'bna', 'CAN.G1324.7' => 'can', 'CAN.G1358.10' => 'can', 'CAN.G1550.2' => 'can', 'CAN.G186.56' => 'can', 'CAN.G1965.1' => 'can', 'CAN.G645.15' => 'can', 'CAN.G798.26' => 'can', 'CAN.G798.27' => 'can', 'CAN.G798.29' => 'can', 'CAN.G919.31' => 'can', 'CANSAT11G0133' => 'cansat', 'CANSAT11G1171' => 'cansat', 'CANSAT11G2056' => 'cansat', 'CANSAT56G1202' => 'cansat', 'CANSAT56G1514' => 'cansat', 'CANSAT78G0455' => 'cansat', 'CARHR011190' => 'chi', 'CARHR051980' => 'chi', 'CARHR120170' => 'chi', 'CARHR203310' => 'chi', 'CARHR221490' => 'chi', 'Carub.0001s1054' => 'cru', 'Carub.0002s0431' => 'cru', 'Carub.0004s0818' => 'cru', 'Carub.0006s0846' => 'cru', 'Carub.0007s2722' => 'cru', 'Ca_00058_v3' => 'car', 'Ca_17831_v3' => 'car', 'Ca_19408_v3' => 'car', 'Ca_24397_v3' => 'car', 'Ca_25664_v3' => 'car', 'CBR_g21818' => 'cbr', 'CBR_g31195' => 'cbr', 'CBR_g32282' => 'cbr', 'CBR_g39599' => 'cbr', 'CBR_g49410' => 'cbr', 'Cc01_g09120' => 'ccan', 'Cc01_g09130' => 'ccan', 'Cc02_g09630' => 'ccan', 'Cc02_g22810' => 'ccan', 'Cc03_g03810' => 'ccan', 'CDE02G3718' => 'cde', 'CDE04G3183' => 'cde', 'CDE07G1046' => 'cde', 'CDE08G0480' => 'cde', 'Cfa005493' => 'cfa', 'Cfa010312' => 'cfa', 'Cfa015648' => 'cfa', 'Ciclev10002793m.g' => 'ccl', 'Ciclev10003356m.g' => 'ccl', 'Ciclev10006141m.g' => 'ccl', 'Ciclev10016676m.g' => 'ccl', 'Ciclev10017081m.g' => 'ccl', 'Ciclev10029499m.g' => 'ccl', 'CiPaw.01G166300' => 'cil', 'CiPaw.06G145600' => 'cil', 'CiPaw.13G040100' => 'cil', 'CiPaw.13G135800' => 'cil', 'ClCG01G012230' => 'cla', 'ClCG05G009510' => 'cla', 'ClCG08G008270' => 'cla', 'COL.COLO4_11763' => 'col', 'COL.COLO4_19876' => 'col', 'COL.COLO4_21481' => 'col', 'Cpa.g.sc118.34' => 'cpa', 'Cpa.g.sc32.13' => 'cpa', 'Cpa.g.sc58.103' => 'cpa', 'Cre03.g183850' => 'cre', 'Cre06.g306350' => 'cre', 'Cre07.g334800' => 'cre', 'Cre12.g487900' => 'cre', 'Cre14.g626700' => 'cre', 'Cre16.g658400' => 'cre', 'Cre17.g700950' => 'cre', 'CsaV3_1G014830' => 'csa', 'CsaV3_3G013320' => 'csa', 'CsaV3_3G019210' => 'csa', 'CsaV3_3G019220' => 'csa', 'CsaV3_6G004230' => 'csa', 'CSS0003773' => 'camsi', 'CSS0004563' => 'camsi', 'CSS0013949' => 'camsi', 'CSS0025971' => 'camsi', 'CSS0028570' => 'camsi', 'CSS0033127' => 'camsi', 'CSS0036051' => 'camsi', 'CSS0040087' => 'camsi', 'CSS0043179' => 'camsi', 'DCAR_006161' => 'dca', 'DCAR_010351' => 'dca', 'DCAR_012197' => 'dca', 'DCAR_024162' => 'dca', 'Dinv01030' => 'din', 'Dinv10924' => 'din', 'Dinv11835' => 'din', 'Dinv22841' => 'din', 'Dinv42553' => 'din', 'Duzib052G0560' => 'dzi', 'Duzib132G0389' => 'dzi', 'Duzib150G1181' => 'dzi', 'Duzib168G0623' => 'dzi', 'Duzib170G1036' => 'dzi', 'Duzib212G0200' => 'dzi', 'Duzib248G0194' => 'dzi', 'ECA232G2193' => 'eca', 'ECA233G0302' => 'eca', 'ECA234G2813' => 'eca', 'ECA234G4866' => 'eca', 'ECA240G3932' => 'eca', 'ECA248G0385' => 'eca', 'EL10Ac2g04781' => 'bvu', 'EL10Ac3g06445' => 'bvu', 'EL10Ac7g15825' => 'bvu', 'EL10Ac8g18550' => 'bvu', 'Eucgr.B03849' => 'egr', 'Eucgr.I02744' => 'egr', 'Eucgr.J00264' => 'egr', 'Eucgr.J00493' => 'egr', 'FAN04G2181' => 'fan', 'FAN07G2666' => 'fan', 'FAN11G0024' => 'fan', 'FAN12G1105' => 'fan', 'FAN13G0302' => 'fan', 'FAN15G2781' => 'fan', 'FAN16G1274' => 'fan', 'FAN17G2988' => 'fan', 'FAN18G2621' => 'fan', 'FAN21G0013' => 'fan', 'FAN22G1211' => 'fan', 'FAN25G3626' => 'fan', 'FvH4_2g09491' => 'fve', 'FvH4_3g24910' => 'fve', 'FvH4_4g15630' => 'fve', 'FvH4_5g28820' => 'fve', 'Glyma.01G238000' => 'gma', 'Glyma.05G168400' => 'gma', 'Glyma.08G126800' => 'gma', 'Glyma.08G188500' => 'gma', 'Glyma.10G278900' => 'gma', 'Glyma.11G005700' => 'gma', 'Glyma.11G183300' => 'gma', 'Glyma.12G089200' => 'gma', 'Glyma.12G169400' => 'gma', 'Glyma.12G169500' => 'gma', 'Glyma.12G169600' => 'gma', 'Glyma.20G110800' => 'gma', 'Gohir.A03G192900' => 'ghi', 'Gohir.A03G193000' => 'ghi', 'Gohir.A05G080700' => 'ghi', 'Gohir.A09G216000' => 'ghi', 'Gohir.A12G027700' => 'ghi', 'Gohir.A13G036200' => 'ghi', 'Gohir.A13G222600' => 'ghi', 'Gohir.D02G213900' => 'ghi', 'Gohir.D02G214000' => 'ghi', 'Gohir.D05G083700' => 'ghi', 'Gohir.D05G083800' => 'ghi', 'Gohir.D05G083850' => 'ghi', 'Gohir.D08G015400' => 'ghi', 'Gohir.D09G218400' => 'ghi', 'Gohir.D12G027100' => 'ghi', 'Gohir.D13G034500' => 'ghi', 'Gohir.D13G227400' => 'ghi', 'Gorai.005G241800' => 'gra', 'Gorai.005G241900' => 'gra', 'Gorai.006G239400' => 'gra', 'Gorai.008G027600' => 'gra', 'Gorai.009G085400' => 'gra', 'Gorai.009G085500' => 'gra', 'Gorai.013G039000' => 'gra', 'Gorai.013G194800' => 'gra', 'Gorai.013G257900' => 'gra', 'GSVIVG01000982001' => 'vvi', 'GSVIVG01017981001' => 'vvi', 'HanXRQChr01g0024061' => 'han', 'HanXRQChr09g0247831' => 'han', 'HanXRQChr10g0294611' => 'han', 'HanXRQChr10g0294621' => 'han', 'HanXRQChr11g0346821' => 'han', 'HanXRQChr13g0397461' => 'han', 'HanXRQChr16g0513651' => 'han', 'HanXRQChr16g0513701' => 'han', 'Haze_00897' => 'cav', 'Haze_01745' => 'cav', 'Haze_02486' => 'cav', 'Haze_02487' => 'cav', 'Haze_23374' => 'cav', 'Hma1.2p1_0578F.1_g182520' => 'hma', 'Hma1.2p1_0602F.1_g187350' => 'hma', 'Hma1.2p1_0602F.1_g187360' => 'hma', 'Hma1.2p1_0874F.1_g231320' => 'hma', 'Hma1.2p1_1197F.1_g266210' => 'hma', 'Hma1.2p1_1197F.1_g266220' => 'hma', 'Hma1.2p1_2167F.1_g315895' => 'hma', 'Hma1.2p1_2190F.1_g316640' => 'hma', 'Hma1.2p1_3645F.1_g337153' => 'hma', 'HPP92_004907' => 'vpl', 'HPP92_012134' => 'vpl', 'HPP92_025136' => 'vpl', 'HPP92_026087' => 'vpl', 'Hund06782' => 'sun', 'Hund06784' => 'sun', 'Lalb_Chr01g0004861' => 'lal', 'Lalb_Chr02g0140591' => 'lal', 'Lalb_Chr02g0140611' => 'lal', 'Lalb_Chr03g0028101' => 'lal', 'Lalb_Chr07g0185791' => 'lal', 'Lalb_Chr12g0204491' => 'lal', 'Lalb_Chr13g0295671' => 'lal', 'Lalb_Chr19g0136461' => 'lal', 'Lalb_Chr21g0309191' => 'lal', 'Lj1g0028158' => 'lja', 'Lj1P236T38' => 'lonja', 'Lj2C32G2' => 'lonja', 'Lj2P944T8' => 'lonja', 'Lj2P963T15' => 'lonja', 'Lj3g0011788' => 'lja', 'Lj4g0025027' => 'lja', 'Lj5P255T36' => 'lonja', 'Lj6g0018866' => 'lja', 'Lj6P608T31' => 'lonja', 'LjContig00408g0008879' => 'lja', 'Lsat_1_v5_gn_5_105820' => 'lsa', 'Lsat_1_v5_gn_6_38800' => 'lsa', 'Lsat_1_v5_gn_7_67141' => 'lsa', 'Manes.04G003400' => 'mes', 'Manes.07G020000' => 'mes', 'Manes.07G020100' => 'mes', 'Manes.07G020150' => 'mes', 'Manes.10G061500' => 'mes', 'Manes.10G123200' => 'mes', 'Manes.11G161900' => 'mes', 'Manes.15G029300' => 'mes', 'Mapoly0071s0018' => 'mpo', 'Mapoly0082s0023' => 'mpo', 'Mapoly3477s0001' => 'mpo', 'MBI05_g31233_MAGBIO' => 'mbi', 'MBI09_g05946_MAGBIO' => 'mbi', 'MBI09_g05947_MAGBIO' => 'mbi', 'MBI17_g08346_MAGBIO' => 'mbi', 'MCO04G038' => 'mco', 'MCO09G370' => 'mco', 'MCO13G605' => 'mco', 'MD00G1075500' => 'mdo', 'MD03G1144300' => 'mdo', 'MD08G1236800' => 'mdo', 'MD13G1193300' => 'mdo', 'MD15G1428700' => 'mdo', 'Medtr1g112030' => 'mtr', 'Medtr1g112050' => 'mtr', 'Medtr2g006290' => 'mtr', 'Medtr2g086510' => 'mtr', 'Medtr4g053120' => 'mtr', 'Medtr5g006320' => 'mtr', 'Medtr8g088720' => 'mtr', 'MELO3C004712.2' => 'cme', 'MELO3C006533.2' => 'cme', 'MELO3C019438.2' => 'cme', 'MELO3C019440.2' => 'cme', 'MELO3C019441.2' => 'cme', 'MELO3C019895.2' => 'cme', 'Migut.B00811' => 'egut', 'Migut.D02447' => 'egut', 'Migut.F00875' => 'egut', 'Migut.N00186' => 'egut', 'Migut.N01051' => 'egut', 'Migut.N02491' => 'egut', 'Migut.O00784' => 'egut', 'MSTRG.12367' => 'ama', 'MSTRG.18756' => 'ama', 'MSTRG.21042' => 'ama', 'Nitab4.5_0000559g0040' => 'nta', 'Nitab4.5_0000667g0190' => 'nta', 'Nitab4.5_0000755g0160' => 'nta', 'Nitab4.5_0001216g0080' => 'nta', 'Nitab4.5_0004069g0040' => 'nta', 'Nitab4.5_0004129g0010' => 'nta', 'Nitab4.5_0005744g0030' => 'nta', 'Nitab4.5_0006996g0030' => 'nta', 'Nitab4.5_0008971g0040' => 'nta', 'Nitab4.5_0009769g0020' => 'nta', 'Nitab4.5_0009833g0010' => 'nta', 'Nitab4.5_0013140g0020' => 'nta', 'Nn003s41376' => 'nnu', 'Nn1g01857' => 'nnu', 'Nn1g03611' => 'nnu', 'Nn1g06853' => 'nnu', 'Nn3g18360' => 'nnu', 'Nn4g26328' => 'nnu', 'Nn5g27531' => 'nnu', 'Nn6g34899' => 'nnu', 'Nn7g36299' => 'nnu', 'Oeu021485.1' => 'oeu', 'Oeu022433.1' => 'oeu', 'Oeu032111.1' => 'oeu', 'Oeu051608.1' => 'oeu', 'Os01g0860601' => 'osa', 'Os03g0659200' => 'osa', 'Os03g0835900' => 'osa', 'Os04g0412200' => 'osa', 'Os05g0443500' => 'osa', 'Os07g0251500' => 'osa', 'Os08g0104600' => 'osa', 'Peaxi162Scf00003g00047' => 'pax', 'Peaxi162Scf00003g00052' => 'pax', 'Peaxi162Scf00003g00394' => 'pax', 'Peaxi162Scf00091g00621' => 'pax', 'Peaxi162Scf00152g00146' => 'pax', 'Peaxi162Scf00173g00025' => 'pax', 'Peaxi162Scf00195g00102' => 'pax', 'Peaxi162Scf00402g00013' => 'pax', 'Peaxi162Scf00519g00618' => 'pax', 'PGR004G2838' => 'pgr', 'PGR044G2275' => 'pgr', 'PGR102G1377' => 'pgr', 'PGR119G1245' => 'pgr', 'PGR142G4449' => 'pgr', 'PGSC0003DMG400004532' => 'stu', 'PGSC0003DMG400011950' => 'stu', 'PGSC0003DMG400023391' => 'stu', 'PGSC0003DMG400023985' => 'stu', 'PGSC0003DMG400026360' => 'stu', 'PGSC0003DMG400035711' => 'stu', 'PGSC0003DMG400037286' => 'stu', 'PGSC0003DMG402005881' => 'stu', 'Phvul.002G045400' => 'pvu', 'Phvul.006G216600' => 'pvu', 'Phvul.006G216700' => 'pvu', 'Phvul.006G216800' => 'pvu', 'Phvul.007G022500' => 'pvu', 'Phvul.011G094400' => 'pvu', 'Potri.001G470700' => 'ptr', 'Potri.003G015200' => 'ptr', 'Potri.004G202500' => 'ptr', 'Potri.004G218400' => 'ptr', 'Potri.008G020100' => 'ptr', 'Potri.008G153200' => 'ptr', 'Potri.009G163800' => 'ptr', 'Potri.010G087300' => 'ptr', 'Potri.010G239100' => 'ptr', 'Pp3c10_16100' => 'ppa', 'Pp3c10_16880' => 'ppa', 'Pp3c16_6230' => 'ppa', 'Pp3c17_18910' => 'ppa', 'Pp3c3_22119' => 'ppa', 'Pp3c3_22140' => 'ppa', 'Pp3c4_8159' => 'ppa', 'Pp3c4_8171' => 'ppa', 'Pp3c4_8330' => 'ppa', 'PRCOL_00004098' => 'pco', 'Prupe.1G013900' => 'ppe', 'Prupe.1G226300' => 'ppe', 'Prupe.1G573600' => 'ppe', 'Prupe.6G130100' => 'ppe', 'Psat3g090040' => 'psa', 'Psat4g210440' => 'psa', 'Psat6g231040' => 'psa', 'Psat6g231080' => 'psa', 'Psat7g063000' => 'psa', 'Psat7g188000' => 'psa', 'Psat7g188040' => 'psa', 'PSO017G0206' => 'pso', 'PSO170G0501' => 'pso', 'PSO170G6422' => 'pso', 'PSO210G7739' => 'pso', 'PSO339G1808' => 'pso', 'PSO339G6135' => 'pso', 'PSO384G0010' => 'pso', 'PSO384G0964' => 'pso', 'PSO761G0050' => 'pso', 'PSO782G4085' => 'pso', 'QL01p012264' => 'qlo', 'QL02p099491' => 'qlo', 'QL03p033868' => 'qlo', 'QL04p046678' => 'qlo', 'QL06p002448' => 'qlo', 'RcHm_v2.0_Chr4g0416181' => 'rch', 'RcHm_v2.0_Chr5g0044701' => 'rch', 'RcHm_v2.0_Chr6g0265781' => 'rch', 'RcHm_v2.0_Chr7g0221031' => 'rch', 'Rhsim04G0202000' => 'rsi', 'Rhsim11G0127300' => 'rsi', 'Rhsim13G0111800' => 'rsi', 'Sabra01G0165600' => 'sbr', 'Sabra03G0008300' => 'sbr', 'Sabra04G0136900' => 'sbr', 'Sabra08G0013400' => 'sbr', 'Sabra08G0116800' => 'sbr', 'Sabra09G0128000' => 'sbr', 'Sabra10G0055500' => 'sbr', 'Sabra10G0073300' => 'sbr', 'SalBow3G0385' => 'sbo', 'SalBow3G1119' => 'sbo', 'SalBow3G2005' => 'sbo', 'SalBow6G2563' => 'sbo', 'SalBow6G6386' => 'sbo', 'Sc06g0008800' => 'sci', 'Sc07g0004950' => 'sci', 'Sc09g0005340' => 'sci', 'Sc13g0004410' => 'sci', 'Sc21g0007090' => 'sci', 'Sed0009285' => 'sed', 'Sed0017583' => 'sed', 'Sed0019699' => 'sed', 'Sed0023107' => 'sed', 'SEGI_10916' => 'sgi', 'SEGI_16217' => 'sgi', 'SEGI_19466' => 'sgi', 'SEGI_41115' => 'sgi', 'SGA_v2.0_scaffold111G31534' => 'sas', 'SGA_v2.0_scaffold22G09864' => 'sas', 'SGA_v2.0_scaffold338G49219' => 'sas', 'SGA_v2.0_scaffold92G28298' => 'sas', 'SMO119G0064' => 'smo', 'SMO223G0038' => 'smo', 'SMO347G0584' => 'smo', 'SMO351G0010' => 'smo', 'SMO356G0404' => 'smo', 'Solyc01g103920.3' => 'sly', 'Solyc04g009710.2' => 'sly', 'Solyc05g055280.2' => 'sly', 'Solyc10g044520.3' => 'sly', 'Solyc10g075160.1' => 'sly', 'Solyc11g006910.3' => 'sly', 'Solyc11g068430.3' => 'sly', 'Sopen01g046310' => 'spe', 'Sopen03g001200' => 'spe', 'Sopen04g004830' => 'spe', 'Sopen05g033720' => 'spe', 'Sopen06g030740' => 'spe', 'Sopen10g013090' => 'spe', 'Sopen10g027630' => 'spe', 'Sopen10g027640' => 'spe', 'Sopen11g002820' => 'spe', 'Sopen11g027140' => 'spe', 'Sp1g09680' => 'spa', 'Sp2g03630' => 'spa', 'Sp4g10320' => 'spa', 'Sp6g33400' => 'spa', 'Sp7g13030' => 'spa', 'TAR365G0317' => 'tar', 'TAR376G0979' => 'tar', 'TAR623G1665' => 'tar', 'TAR633G2373' => 'tar', 'TAR636G1400' => 'tar', 'THA.LOC104800529' => 'tha', 'THA.LOC104808547' => 'tha', 'THA.LOC104809615' => 'tha', 'THA.LOC104815724' => 'tha', 'THA.LOC104818480' => 'tha', 'THA.LOC104819179' => 'tha', 'THA.LOC104822270' => 'tha', 'THA.LOC104826425' => 'tha', 'Thecc.02G089700' => 'tca', 'Thecc.04G232300' => 'tca', 'Thecc.09G283400' => 'tca', 'Thhalv10009020m.g' => 'esa', 'Thhalv10015506m.g' => 'esa', 'Thhalv10017364m.g' => 'esa', 'Thhalv10023742m.g' => 'esa', 'Thhalv10026483m.g' => 'esa', 'TPR.G17232' => 'tpr', 'TPR.G2133' => 'tpr', 'TPR.G2498' => 'tpr', 'TPR.G31942' => 'tpr', 'TPR.G37877' => 'tpr', 'TPR.G4571' => 'tpr', 'TWI14G1113' => 'twi', 'TWI15G0426' => 'twi', 'TWI31G1005' => 'twi', 'TWI38G0513' => 'twi', 'TWI38G1484' => 'twi', 'TWI73G1098' => 'twi', 'unitig_26.g10519' => 'ugi', 'unitig_736.g22395' => 'ugi', 'unitig_747.g21234' => 'ugi', 'unitig_747.g21942' => 'ugi', 'vmacro14351' => 'vma', 'VMungo0540G0082' => 'vmu', 'VMungo0540G0405' => 'vmu', 'VMungo0540G1486' => 'vmu', 'VMungo0540G1692' => 'vmu', 'VMungo0720G2473' => 'vmu', 'VMungo1127G1562' => 'vmu', 'VMungo1215G1918' => 'vmu', 'Zm00001eb052650' => 'zma', 'Zm00001eb063710' => 'zma', 'Zm00001eb083950' => 'zma', 'Zm00001eb174420' => 'zma', 'Zm00001eb260140' => 'zma', 'Zm00001eb260150' => 'zma', 'Zm00001eb260160' => 'zma', 'Zm00001eb348290' => 'zma', 'Zm00001eb366870' => 'zma', 'Zm00001eb421930' => 'zma' ), 'gf_id' => 'HOM05D001025', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001025' ), 'data_identifier' => 'HOM05D001025', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001025', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '592', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p22650' => 'bna', 'A01p29720' => 'bna', 'A03p26560' => 'bna', 'A03p68820' => 'bna', 'A04p20980' => 'bna', 'A06p07730' => 'bna', 'A07p18260' => 'bna', 'A08p33710' => 'bna', 'A09p16970' => 'bna', 'A10p27490' => 'bna', 'Aa31LG1G17300' => 'aar', 'Aa31LG1G3910' => 'aar', 'Aa31LG2G9630' => 'aar', 'Aa31LG5G8360' => 'aar', 'Aa31LG9G2410' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4699' => 'aag', 'Actinidia23512' => 'ach', 'Actinidia37080' => 'ach', 'Ah.01g020380' => 'amhyb', 'Ah.08g215710' => 'amhyb', 'Ah.09g225110' => 'amhyb', 'Ah.10g036680' => 'amhyb', 'AL1G21940' => 'aly', 'AL2G15540' => 'aly', 'AL4G21520' => 'aly', 'AL7G40960' => 'aly', 'Aqoxy2G01191' => 'aox', 'Aqoxy2G03393' => 'aox', 'Aqoxy4G02775' => 'aox', 'Aqoxy6G00058' => 'aox', 'arahy.Tifrunner.gnm1.ann1.9X74H2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CW3FX9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R485W7' => 'arhy', 'AT1G10960' => 'ath', 'AT1G60950' => 'ath', 'AT2G27510' => 'ath', 'AT4G14890' => 'ath', 'AT5G10000' => 'ath', 'ATR0665G624' => 'atr', 'ATR0697G138' => 'atr', 'ATR0776G046' => 'atr', 'ATR1134G135' => 'atr', 'Atru.chr12.1025' => 'acertr', 'Atru.chr3.3241' => 'acertr', 'Atru.chr4.2460' => 'acertr', 'AUR62007427' => 'cqu', 'AUR62010960' => 'cqu', 'AUR62012201' => 'cqu', 'AUR62021470' => 'cqu', 'AUR62022834' => 'cqu', 'AUR62033635' => 'cqu', 'AUR62036186' => 'cqu', 'BcaB01g03077' => 'bca', 'BcaB02g10093' => 'bca', 'BcaB04g20295' => 'bca', 'BcaB06g28147' => 'bca', 'BcaB07g31253' => 'bca', 'BcaC01g04946' => 'bca', 'BcaC02g10614' => 'bca', 'BcaC02g10885' => 'bca', 'BcaC04g19356' => 'bca', 'BcaC04g22297' => 'bca', 'BcaC05g24977' => 'bca', 'BcaC06g31823' => 'bca', 'BcaC07g38633' => 'bca', 'BcaC09g49353' => 'bca', 'BcaC09g50168' => 'bca', 'BcaNung00322' => 'bca', 'BcaNung04769' => 'bca', 'BolC1t02753H' => 'bol', 'BolC1t03721H' => 'bol', 'BolC3t15525H' => 'bol', 'BolC4t23903H' => 'bol', 'BolC4t24231H' => 'bol', 'BolC4t27209H' => 'bol', 'BolC5t29671H' => 'bol', 'BolC8t49044H' => 'bol', 'BolC9t54999H' => 'bol', 'BolC9t59517H' => 'bol', 'BraA01t02178Z' => 'bra', 'BraA01t03099Z' => 'bra', 'BraA03t11867Z' => 'bra', 'BraA04t17667Z' => 'bra', 'BraA07t29542Z' => 'bra', 'BraA08t35287Z' => 'bra', 'BraA09t37334Z' => 'bra', 'BraA10t44801Z' => 'bra', 'BraSC39t46181Z' => 'bra', 'C01p28240' => 'bna', 'C01p37530' => 'bna', 'C03p31820' => 'bna', 'C04p24080' => 'bna', 'C04p25790' => 'bna', 'C04p56770' => 'bna', 'C05p09310' => 'bna', 'C09p21010' => 'bna', 'C09p67560' => 'bna', 'CAN.G1324.7' => 'can', 'CAN.G1358.10' => 'can', 'CAN.G1550.2' => 'can', 'CAN.G186.56' => 'can', 'CAN.G1965.1' => 'can', 'CAN.G645.15' => 'can', 'CAN.G798.26' => 'can', 'CAN.G798.27' => 'can', 'CAN.G798.29' => 'can', 'CAN.G919.31' => 'can', 'CANSAT11G0133' => 'cansat', 'CANSAT11G1171' => 'cansat', 'CANSAT11G2056' => 'cansat', 'CANSAT56G1202' => 'cansat', 'CANSAT56G1514' => 'cansat', 'CANSAT78G0455' => 'cansat', 'CARHR011190' => 'chi', 'CARHR051980' => 'chi', 'CARHR120170' => 'chi', 'CARHR203310' => 'chi', 'CARHR221490' => 'chi', 'Carub.0001s1054' => 'cru', 'Carub.0002s0431' => 'cru', 'Carub.0004s0818' => 'cru', 'Carub.0006s0846' => 'cru', 'Carub.0007s2722' => 'cru', 'Ca_00058_v3' => 'car', 'Ca_17831_v3' => 'car', 'Ca_19408_v3' => 'car', 'Ca_24397_v3' => 'car', 'Ca_25664_v3' => 'car', 'CBR_g21818' => 'cbr', 'CBR_g31195' => 'cbr', 'CBR_g32282' => 'cbr', 'CBR_g39599' => 'cbr', 'CBR_g49410' => 'cbr', 'Cc01_g09120' => 'ccan', 'Cc01_g09130' => 'ccan', 'Cc02_g09630' => 'ccan', 'Cc02_g22810' => 'ccan', 'Cc03_g03810' => 'ccan', 'CDE02G3718' => 'cde', 'CDE04G3183' => 'cde', 'CDE07G1046' => 'cde', 'CDE08G0480' => 'cde', 'Cfa005493' => 'cfa', 'Cfa010312' => 'cfa', 'Cfa015648' => 'cfa', 'Ciclev10002793m.g' => 'ccl', 'Ciclev10003356m.g' => 'ccl', 'Ciclev10006141m.g' => 'ccl', 'Ciclev10016676m.g' => 'ccl', 'Ciclev10017081m.g' => 'ccl', 'Ciclev10029499m.g' => 'ccl', 'CiPaw.01G166300' => 'cil', 'CiPaw.06G145600' => 'cil', 'CiPaw.13G040100' => 'cil', 'CiPaw.13G135800' => 'cil', 'ClCG01G012230' => 'cla', 'ClCG05G009510' => 'cla', 'ClCG08G008270' => 'cla', 'COL.COLO4_11763' => 'col', 'COL.COLO4_19876' => 'col', 'COL.COLO4_21481' => 'col', 'Cpa.g.sc118.34' => 'cpa', 'Cpa.g.sc32.13' => 'cpa', 'Cpa.g.sc58.103' => 'cpa', 'Cre03.g183850' => 'cre', 'Cre06.g306350' => 'cre', 'Cre07.g334800' => 'cre', 'Cre12.g487900' => 'cre', 'Cre14.g626700' => 'cre', 'Cre16.g658400' => 'cre', 'Cre17.g700950' => 'cre', 'CsaV3_1G014830' => 'csa', 'CsaV3_3G013320' => 'csa', 'CsaV3_3G019210' => 'csa', 'CsaV3_3G019220' => 'csa', 'CsaV3_6G004230' => 'csa', 'CSS0003773' => 'camsi', 'CSS0004563' => 'camsi', 'CSS0013949' => 'camsi', 'CSS0025971' => 'camsi', 'CSS0028570' => 'camsi', 'CSS0033127' => 'camsi', 'CSS0036051' => 'camsi', 'CSS0040087' => 'camsi', 'CSS0043179' => 'camsi', 'DCAR_006161' => 'dca', 'DCAR_010351' => 'dca', 'DCAR_012197' => 'dca', 'DCAR_024162' => 'dca', 'Dinv01030' => 'din', 'Dinv10924' => 'din', 'Dinv11835' => 'din', 'Dinv22841' => 'din', 'Dinv42553' => 'din', 'Duzib052G0560' => 'dzi', 'Duzib132G0389' => 'dzi', 'Duzib150G1181' => 'dzi', 'Duzib168G0623' => 'dzi', 'Duzib170G1036' => 'dzi', 'Duzib212G0200' => 'dzi', 'Duzib248G0194' => 'dzi', 'ECA232G2193' => 'eca', 'ECA233G0302' => 'eca', 'ECA234G2813' => 'eca', 'ECA234G4866' => 'eca', 'ECA240G3932' => 'eca', 'ECA248G0385' => 'eca', 'EL10Ac2g04781' => 'bvu', 'EL10Ac3g06445' => 'bvu', 'EL10Ac7g15825' => 'bvu', 'EL10Ac8g18550' => 'bvu', 'Eucgr.B03849' => 'egr', 'Eucgr.I02744' => 'egr', 'Eucgr.J00264' => 'egr', 'Eucgr.J00493' => 'egr', 'FAN04G2181' => 'fan', 'FAN07G2666' => 'fan', 'FAN11G0024' => 'fan', 'FAN12G1105' => 'fan', 'FAN13G0302' => 'fan', 'FAN15G2781' => 'fan', 'FAN16G1274' => 'fan', 'FAN17G2988' => 'fan', 'FAN18G2621' => 'fan', 'FAN21G0013' => 'fan', 'FAN22G1211' => 'fan', 'FAN25G3626' => 'fan', 'FvH4_2g09491' => 'fve', 'FvH4_3g24910' => 'fve', 'FvH4_4g15630' => 'fve', 'FvH4_5g28820' => 'fve', 'Glyma.01G238000' => 'gma', 'Glyma.05G168400' => 'gma', 'Glyma.08G126800' => 'gma', 'Glyma.08G188500' => 'gma', 'Glyma.10G278900' => 'gma', 'Glyma.11G005700' => 'gma', 'Glyma.11G183300' => 'gma', 'Glyma.12G089200' => 'gma', 'Glyma.12G169400' => 'gma', 'Glyma.12G169500' => 'gma', 'Glyma.12G169600' => 'gma', 'Glyma.20G110800' => 'gma', 'Gohir.A03G192900' => 'ghi', 'Gohir.A03G193000' => 'ghi', 'Gohir.A05G080700' => 'ghi', 'Gohir.A09G216000' => 'ghi', 'Gohir.A12G027700' => 'ghi', 'Gohir.A13G036200' => 'ghi', 'Gohir.A13G222600' => 'ghi', 'Gohir.D02G213900' => 'ghi', 'Gohir.D02G214000' => 'ghi', 'Gohir.D05G083700' => 'ghi', 'Gohir.D05G083800' => 'ghi', 'Gohir.D05G083850' => 'ghi', 'Gohir.D08G015400' => 'ghi', 'Gohir.D09G218400' => 'ghi', 'Gohir.D12G027100' => 'ghi', 'Gohir.D13G034500' => 'ghi', 'Gohir.D13G227400' => 'ghi', 'Gorai.005G241800' => 'gra', 'Gorai.005G241900' => 'gra', 'Gorai.006G239400' => 'gra', 'Gorai.008G027600' => 'gra', 'Gorai.009G085400' => 'gra', 'Gorai.009G085500' => 'gra', 'Gorai.013G039000' => 'gra', 'Gorai.013G194800' => 'gra', 'Gorai.013G257900' => 'gra', 'GSVIVG01000982001' => 'vvi', 'GSVIVG01017981001' => 'vvi', 'HanXRQChr01g0024061' => 'han', 'HanXRQChr09g0247831' => 'han', 'HanXRQChr10g0294611' => 'han', 'HanXRQChr10g0294621' => 'han', 'HanXRQChr11g0346821' => 'han', 'HanXRQChr13g0397461' => 'han', 'HanXRQChr16g0513651' => 'han', 'HanXRQChr16g0513701' => 'han', 'Haze_00897' => 'cav', 'Haze_01745' => 'cav', 'Haze_02486' => 'cav', 'Haze_02487' => 'cav', 'Haze_23374' => 'cav', 'Hma1.2p1_0578F.1_g182520' => 'hma', 'Hma1.2p1_0602F.1_g187350' => 'hma', 'Hma1.2p1_0602F.1_g187360' => 'hma', 'Hma1.2p1_0874F.1_g231320' => 'hma', 'Hma1.2p1_1197F.1_g266210' => 'hma', 'Hma1.2p1_1197F.1_g266220' => 'hma', 'Hma1.2p1_2167F.1_g315895' => 'hma', 'Hma1.2p1_2190F.1_g316640' => 'hma', 'Hma1.2p1_3645F.1_g337153' => 'hma', 'HPP92_004907' => 'vpl', 'HPP92_012134' => 'vpl', 'HPP92_025136' => 'vpl', 'HPP92_026087' => 'vpl', 'Hund06782' => 'sun', 'Hund06784' => 'sun', 'Lalb_Chr01g0004861' => 'lal', 'Lalb_Chr02g0140591' => 'lal', 'Lalb_Chr02g0140611' => 'lal', 'Lalb_Chr03g0028101' => 'lal', 'Lalb_Chr07g0185791' => 'lal', 'Lalb_Chr12g0204491' => 'lal', 'Lalb_Chr13g0295671' => 'lal', 'Lalb_Chr19g0136461' => 'lal', 'Lalb_Chr21g0309191' => 'lal', 'Lj1g0028158' => 'lja', 'Lj1P236T38' => 'lonja', 'Lj2C32G2' => 'lonja', 'Lj2P944T8' => 'lonja', 'Lj2P963T15' => 'lonja', 'Lj3g0011788' => 'lja', 'Lj4g0025027' => 'lja', 'Lj5P255T36' => 'lonja', 'Lj6g0018866' => 'lja', 'Lj6P608T31' => 'lonja', 'LjContig00408g0008879' => 'lja', 'Lsat_1_v5_gn_5_105820' => 'lsa', 'Lsat_1_v5_gn_6_38800' => 'lsa', 'Lsat_1_v5_gn_7_67141' => 'lsa', 'Manes.04G003400' => 'mes', 'Manes.07G020000' => 'mes', 'Manes.07G020100' => 'mes', 'Manes.07G020150' => 'mes', 'Manes.10G061500' => 'mes', 'Manes.10G123200' => 'mes', 'Manes.11G161900' => 'mes', 'Manes.15G029300' => 'mes', 'Mapoly0071s0018' => 'mpo', 'Mapoly0082s0023' => 'mpo', 'Mapoly3477s0001' => 'mpo', 'MBI05_g31233_MAGBIO' => 'mbi', 'MBI09_g05946_MAGBIO' => 'mbi', 'MBI09_g05947_MAGBIO' => 'mbi', 'MBI17_g08346_MAGBIO' => 'mbi', 'MCO04G038' => 'mco', 'MCO09G370' => 'mco', 'MCO13G605' => 'mco', 'MD00G1075500' => 'mdo', 'MD03G1144300' => 'mdo', 'MD08G1236800' => 'mdo', 'MD13G1193300' => 'mdo', 'MD15G1428700' => 'mdo', 'Medtr1g112030' => 'mtr', 'Medtr1g112050' => 'mtr', 'Medtr2g006290' => 'mtr', 'Medtr2g086510' => 'mtr', 'Medtr4g053120' => 'mtr', 'Medtr5g006320' => 'mtr', 'Medtr8g088720' => 'mtr', 'MELO3C004712.2' => 'cme', 'MELO3C006533.2' => 'cme', 'MELO3C019438.2' => 'cme', 'MELO3C019440.2' => 'cme', 'MELO3C019441.2' => 'cme', 'MELO3C019895.2' => 'cme', 'Migut.B00811' => 'egut', 'Migut.D02447' => 'egut', 'Migut.F00875' => 'egut', 'Migut.N00186' => 'egut', 'Migut.N01051' => 'egut', 'Migut.N02491' => 'egut', 'Migut.O00784' => 'egut', 'MSTRG.12367' => 'ama', 'MSTRG.18756' => 'ama', 'MSTRG.21042' => 'ama', 'Nitab4.5_0000559g0040' => 'nta', 'Nitab4.5_0000667g0190' => 'nta', 'Nitab4.5_0000755g0160' => 'nta', 'Nitab4.5_0001216g0080' => 'nta', 'Nitab4.5_0004069g0040' => 'nta', 'Nitab4.5_0004129g0010' => 'nta', 'Nitab4.5_0005744g0030' => 'nta', 'Nitab4.5_0006996g0030' => 'nta', 'Nitab4.5_0008971g0040' => 'nta', 'Nitab4.5_0009769g0020' => 'nta', 'Nitab4.5_0009833g0010' => 'nta', 'Nitab4.5_0013140g0020' => 'nta', 'Nn003s41376' => 'nnu', 'Nn1g01857' => 'nnu', 'Nn1g03611' => 'nnu', 'Nn1g06853' => 'nnu', 'Nn3g18360' => 'nnu', 'Nn4g26328' => 'nnu', 'Nn5g27531' => 'nnu', 'Nn6g34899' => 'nnu', 'Nn7g36299' => 'nnu', 'Oeu021485.1' => 'oeu', 'Oeu022433.1' => 'oeu', 'Oeu032111.1' => 'oeu', 'Oeu051608.1' => 'oeu', 'Os01g0860601' => 'osa', 'Os03g0659200' => 'osa', 'Os03g0835900' => 'osa', 'Os04g0412200' => 'osa', 'Os05g0443500' => 'osa', 'Os07g0251500' => 'osa', 'Os08g0104600' => 'osa', 'Peaxi162Scf00003g00047' => 'pax', 'Peaxi162Scf00003g00052' => 'pax', 'Peaxi162Scf00003g00394' => 'pax', 'Peaxi162Scf00091g00621' => 'pax', 'Peaxi162Scf00152g00146' => 'pax', 'Peaxi162Scf00173g00025' => 'pax', 'Peaxi162Scf00195g00102' => 'pax', 'Peaxi162Scf00402g00013' => 'pax', 'Peaxi162Scf00519g00618' => 'pax', 'PGR004G2838' => 'pgr', 'PGR044G2275' => 'pgr', 'PGR102G1377' => 'pgr', 'PGR119G1245' => 'pgr', 'PGR142G4449' => 'pgr', 'PGSC0003DMG400004532' => 'stu', 'PGSC0003DMG400011950' => 'stu', 'PGSC0003DMG400023391' => 'stu', 'PGSC0003DMG400023985' => 'stu', 'PGSC0003DMG400026360' => 'stu', 'PGSC0003DMG400035711' => 'stu', 'PGSC0003DMG400037286' => 'stu', 'PGSC0003DMG402005881' => 'stu', 'Phvul.002G045400' => 'pvu', 'Phvul.006G216600' => 'pvu', 'Phvul.006G216700' => 'pvu', 'Phvul.006G216800' => 'pvu', 'Phvul.007G022500' => 'pvu', 'Phvul.011G094400' => 'pvu', 'Potri.001G470700' => 'ptr', 'Potri.003G015200' => 'ptr', 'Potri.004G202500' => 'ptr', 'Potri.004G218400' => 'ptr', 'Potri.008G020100' => 'ptr', 'Potri.008G153200' => 'ptr', 'Potri.009G163800' => 'ptr', 'Potri.010G087300' => 'ptr', 'Potri.010G239100' => 'ptr', 'Pp3c10_16100' => 'ppa', 'Pp3c10_16880' => 'ppa', 'Pp3c16_6230' => 'ppa', 'Pp3c17_18910' => 'ppa', 'Pp3c3_22119' => 'ppa', 'Pp3c3_22140' => 'ppa', 'Pp3c4_8159' => 'ppa', 'Pp3c4_8171' => 'ppa', 'Pp3c4_8330' => 'ppa', 'PRCOL_00004098' => 'pco', 'Prupe.1G013900' => 'ppe', 'Prupe.1G226300' => 'ppe', 'Prupe.1G573600' => 'ppe', 'Prupe.6G130100' => 'ppe', 'Psat3g090040' => 'psa', 'Psat4g210440' => 'psa', 'Psat6g231040' => 'psa', 'Psat6g231080' => 'psa', 'Psat7g063000' => 'psa', 'Psat7g188000' => 'psa', 'Psat7g188040' => 'psa', 'PSO017G0206' => 'pso', 'PSO170G0501' => 'pso', 'PSO170G6422' => 'pso', 'PSO210G7739' => 'pso', 'PSO339G1808' => 'pso', 'PSO339G6135' => 'pso', 'PSO384G0010' => 'pso', 'PSO384G0964' => 'pso', 'PSO761G0050' => 'pso', 'PSO782G4085' => 'pso', 'QL01p012264' => 'qlo', 'QL02p099491' => 'qlo', 'QL03p033868' => 'qlo', 'QL04p046678' => 'qlo', 'QL06p002448' => 'qlo', 'RcHm_v2.0_Chr4g0416181' => 'rch', 'RcHm_v2.0_Chr5g0044701' => 'rch', 'RcHm_v2.0_Chr6g0265781' => 'rch', 'RcHm_v2.0_Chr7g0221031' => 'rch', 'Rhsim04G0202000' => 'rsi', 'Rhsim11G0127300' => 'rsi', 'Rhsim13G0111800' => 'rsi', 'Sabra01G0165600' => 'sbr', 'Sabra03G0008300' => 'sbr', 'Sabra04G0136900' => 'sbr', 'Sabra08G0013400' => 'sbr', 'Sabra08G0116800' => 'sbr', 'Sabra09G0128000' => 'sbr', 'Sabra10G0055500' => 'sbr', 'Sabra10G0073300' => 'sbr', 'SalBow3G0385' => 'sbo', 'SalBow3G1119' => 'sbo', 'SalBow3G2005' => 'sbo', 'SalBow6G2563' => 'sbo', 'SalBow6G6386' => 'sbo', 'Sc06g0008800' => 'sci', 'Sc07g0004950' => 'sci', 'Sc09g0005340' => 'sci', 'Sc13g0004410' => 'sci', 'Sc21g0007090' => 'sci', 'Sed0009285' => 'sed', 'Sed0017583' => 'sed', 'Sed0019699' => 'sed', 'Sed0023107' => 'sed', 'SEGI_10916' => 'sgi', 'SEGI_16217' => 'sgi', 'SEGI_19466' => 'sgi', 'SEGI_41115' => 'sgi', 'SGA_v2.0_scaffold111G31534' => 'sas', 'SGA_v2.0_scaffold22G09864' => 'sas', 'SGA_v2.0_scaffold338G49219' => 'sas', 'SGA_v2.0_scaffold92G28298' => 'sas', 'SMO119G0064' => 'smo', 'SMO223G0038' => 'smo', 'SMO347G0584' => 'smo', 'SMO351G0010' => 'smo', 'SMO356G0404' => 'smo', 'Solyc01g103920.3' => 'sly', 'Solyc04g009710.2' => 'sly', 'Solyc05g055280.2' => 'sly', 'Solyc10g044520.3' => 'sly', 'Solyc10g075160.1' => 'sly', 'Solyc11g006910.3' => 'sly', 'Solyc11g068430.3' => 'sly', 'Sopen01g046310' => 'spe', 'Sopen03g001200' => 'spe', 'Sopen04g004830' => 'spe', 'Sopen05g033720' => 'spe', 'Sopen06g030740' => 'spe', 'Sopen10g013090' => 'spe', 'Sopen10g027630' => 'spe', 'Sopen10g027640' => 'spe', 'Sopen11g002820' => 'spe', 'Sopen11g027140' => 'spe', 'Sp1g09680' => 'spa', 'Sp2g03630' => 'spa', 'Sp4g10320' => 'spa', 'Sp6g33400' => 'spa', 'Sp7g13030' => 'spa', 'TAR365G0317' => 'tar', 'TAR376G0979' => 'tar', 'TAR623G1665' => 'tar', 'TAR633G2373' => 'tar', 'TAR636G1400' => 'tar', 'THA.LOC104800529' => 'tha', 'THA.LOC104808547' => 'tha', 'THA.LOC104809615' => 'tha', 'THA.LOC104815724' => 'tha', 'THA.LOC104818480' => 'tha', 'THA.LOC104819179' => 'tha', 'THA.LOC104822270' => 'tha', 'THA.LOC104826425' => 'tha', 'Thecc.02G089700' => 'tca', 'Thecc.04G232300' => 'tca', 'Thecc.09G283400' => 'tca', 'Thhalv10009020m.g' => 'esa', 'Thhalv10015506m.g' => 'esa', 'Thhalv10017364m.g' => 'esa', 'Thhalv10023742m.g' => 'esa', 'Thhalv10026483m.g' => 'esa', 'TPR.G17232' => 'tpr', 'TPR.G2133' => 'tpr', 'TPR.G2498' => 'tpr', 'TPR.G31942' => 'tpr', 'TPR.G37877' => 'tpr', 'TPR.G4571' => 'tpr', 'TWI14G1113' => 'twi', 'TWI15G0426' => 'twi', 'TWI31G1005' => 'twi', 'TWI38G0513' => 'twi', 'TWI38G1484' => 'twi', 'TWI73G1098' => 'twi', 'unitig_26.g10519' => 'ugi', 'unitig_736.g22395' => 'ugi', 'unitig_747.g21234' => 'ugi', 'unitig_747.g21942' => 'ugi', 'vmacro14351' => 'vma', 'VMungo0540G0082' => 'vmu', 'VMungo0540G0405' => 'vmu', 'VMungo0540G1486' => 'vmu', 'VMungo0540G1692' => 'vmu', 'VMungo0720G2473' => 'vmu', 'VMungo1127G1562' => 'vmu', 'VMungo1215G1918' => 'vmu', 'Zm00001eb052650' => 'zma', 'Zm00001eb063710' => 'zma', 'Zm00001eb083950' => 'zma', 'Zm00001eb174420' => 'zma', 'Zm00001eb260140' => 'zma', 'Zm00001eb260150' => 'zma', 'Zm00001eb260160' => 'zma', 'Zm00001eb348290' => 'zma', 'Zm00001eb366870' => 'zma', 'Zm00001eb421930' => 'zma' ) $gf_id = 'HOM05D001025' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001025' ) $data_identifier = 'HOM05D001025' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 19, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 2, 'amhyb' => (int) 4, 'aly' => (int) 4, 'aox' => (int) 4, 'arhy' => (int) 3, 'ath' => (int) 5, 'atr' => (int) 4, 'acertr' => (int) 3, 'cqu' => (int) 7, 'bca' => (int) 17, 'bol' => (int) 10, 'bra' => (int) 9, 'can' => (int) 10, 'cansat' => (int) 6, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 5, 'cbr' => (int) 5, 'ccan' => (int) 5, 'cde' => (int) 4, 'cfa' => (int) 3, 'ccl' => (int) 6, 'cil' => (int) 4, 'cla' => (int) 3, 'col' => (int) 3, 'cpa' => (int) 3, 'cre' => (int) 7, 'csa' => (int) 5, 'camsi' => (int) 9, 'dca' => (int) 4, 'din' => (int) 5, 'dzi' => (int) 7, 'eca' => (int) 6, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 12, 'fve' => (int) 4, 'gma' => (int) 12, 'ghi' => (int) 17, 'gra' => (int) 9, 'vvi' => (int) 2, 'han' => (int) 8, 'cav' => (int) 5, 'hma' => (int) 9, 'vpl' => (int) 4, 'sun' => (int) 2, 'lal' => (int) 9, 'lja' => (int) 5, 'lonja' => (int) 6, 'lsa' => (int) 3, 'mes' => (int) 8, 'mpo' => (int) 3, 'mbi' => (int) 4, 'mco' => (int) 3, 'mdo' => (int) 5, 'mtr' => (int) 7, 'cme' => (int) 6, 'egut' => (int) 7, 'ama' => (int) 3, 'nta' => (int) 12, 'nnu' => (int) 9, 'oeu' => (int) 4, 'osa' => (int) 7, 'pax' => (int) 9, 'pgr' => (int) 5, 'stu' => (int) 8, 'pvu' => (int) 6, 'ptr' => (int) 9, 'ppa' => (int) 9, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 7, 'pso' => (int) 10, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 3, 'sbr' => (int) 8, 'sbo' => (int) 5, 'sci' => (int) 5, 'sed' => (int) 4, 'sgi' => (int) 4, 'sas' => (int) 4, 'smo' => (int) 5, 'sly' => (int) 7, 'spe' => (int) 10, 'spa' => (int) 5, 'tar' => (int) 5, 'tha' => (int) 8, 'tca' => (int) 3, 'esa' => (int) 5, 'tpr' => (int) 6, 'twi' => (int) 6, 'ugi' => (int) 4, 'vma' => (int) 1, 'vmu' => (int) 7, 'zma' => (int) 10 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb421930' $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' => 'HOM05D001025', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '592', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p22650' => 'bna', 'A01p29720' => 'bna', 'A03p26560' => 'bna', 'A03p68820' => 'bna', 'A04p20980' => 'bna', 'A06p07730' => 'bna', 'A07p18260' => 'bna', 'A08p33710' => 'bna', 'A09p16970' => 'bna', 'A10p27490' => 'bna', 'Aa31LG1G17300' => 'aar', 'Aa31LG1G3910' => 'aar', 'Aa31LG2G9630' => 'aar', 'Aa31LG5G8360' => 'aar', 'Aa31LG9G2410' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4699' => 'aag', 'Actinidia23512' => 'ach', 'Actinidia37080' => 'ach', 'Ah.01g020380' => 'amhyb', 'Ah.08g215710' => 'amhyb', 'Ah.09g225110' => 'amhyb', 'Ah.10g036680' => 'amhyb', 'AL1G21940' => 'aly', 'AL2G15540' => 'aly', 'AL4G21520' => 'aly', 'AL7G40960' => 'aly', 'Aqoxy2G01191' => 'aox', 'Aqoxy2G03393' => 'aox', 'Aqoxy4G02775' => 'aox', 'Aqoxy6G00058' => 'aox', 'arahy.Tifrunner.gnm1.ann1.9X74H2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CW3FX9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R485W7' => 'arhy', 'AT1G10960' => 'ath', 'AT1G60950' => 'ath', 'AT2G27510' => 'ath', 'AT4G14890' => 'ath', 'AT5G10000' => 'ath', 'ATR0665G624' => 'atr', 'ATR0697G138' => 'atr', 'ATR0776G046' => 'atr', 'ATR1134G135' => 'atr', 'Atru.chr12.1025' => 'acertr', 'Atru.chr3.3241' => 'acertr', 'Atru.chr4.2460' => 'acertr', 'AUR62007427' => 'cqu', 'AUR62010960' => 'cqu', 'AUR62012201' => 'cqu', 'AUR62021470' => 'cqu', 'AUR62022834' => 'cqu', 'AUR62033635' => 'cqu', 'AUR62036186' => 'cqu', 'BcaB01g03077' => 'bca', 'BcaB02g10093' => 'bca', 'BcaB04g20295' => 'bca', 'BcaB06g28147' => 'bca', 'BcaB07g31253' => 'bca', 'BcaC01g04946' => 'bca', 'BcaC02g10614' => 'bca', 'BcaC02g10885' => 'bca', 'BcaC04g19356' => 'bca', 'BcaC04g22297' => 'bca', 'BcaC05g24977' => 'bca', 'BcaC06g31823' => 'bca', 'BcaC07g38633' => 'bca', 'BcaC09g49353' => 'bca', 'BcaC09g50168' => 'bca', 'BcaNung00322' => 'bca', 'BcaNung04769' => 'bca', 'BolC1t02753H' => 'bol', 'BolC1t03721H' => 'bol', 'BolC3t15525H' => 'bol', 'BolC4t23903H' => 'bol', 'BolC4t24231H' => 'bol', 'BolC4t27209H' => 'bol', 'BolC5t29671H' => 'bol', 'BolC8t49044H' => 'bol', 'BolC9t54999H' => 'bol', 'BolC9t59517H' => 'bol', 'BraA01t02178Z' => 'bra', 'BraA01t03099Z' => 'bra', 'BraA03t11867Z' => 'bra', 'BraA04t17667Z' => 'bra', 'BraA07t29542Z' => 'bra', 'BraA08t35287Z' => 'bra', 'BraA09t37334Z' => 'bra', 'BraA10t44801Z' => 'bra', 'BraSC39t46181Z' => 'bra', 'C01p28240' => 'bna', 'C01p37530' => 'bna', 'C03p31820' => 'bna', 'C04p24080' => 'bna', 'C04p25790' => 'bna', 'C04p56770' => 'bna', 'C05p09310' => 'bna', 'C09p21010' => 'bna', 'C09p67560' => 'bna', 'CAN.G1324.7' => 'can', 'CAN.G1358.10' => 'can', 'CAN.G1550.2' => 'can', 'CAN.G186.56' => 'can', 'CAN.G1965.1' => 'can', 'CAN.G645.15' => 'can', 'CAN.G798.26' => 'can', 'CAN.G798.27' => 'can', 'CAN.G798.29' => 'can', 'CAN.G919.31' => 'can', 'CANSAT11G0133' => 'cansat', 'CANSAT11G1171' => 'cansat', 'CANSAT11G2056' => 'cansat', 'CANSAT56G1202' => 'cansat', 'CANSAT56G1514' => 'cansat', 'CANSAT78G0455' => 'cansat', 'CARHR011190' => 'chi', 'CARHR051980' => 'chi', 'CARHR120170' => 'chi', 'CARHR203310' => 'chi', 'CARHR221490' => 'chi', 'Carub.0001s1054' => 'cru', 'Carub.0002s0431' => 'cru', 'Carub.0004s0818' => 'cru', 'Carub.0006s0846' => 'cru', 'Carub.0007s2722' => 'cru', 'Ca_00058_v3' => 'car', 'Ca_17831_v3' => 'car', 'Ca_19408_v3' => 'car', 'Ca_24397_v3' => 'car', 'Ca_25664_v3' => 'car', 'CBR_g21818' => 'cbr', 'CBR_g31195' => 'cbr', 'CBR_g32282' => 'cbr', 'CBR_g39599' => 'cbr', 'CBR_g49410' => 'cbr', 'Cc01_g09120' => 'ccan', 'Cc01_g09130' => 'ccan', 'Cc02_g09630' => 'ccan', 'Cc02_g22810' => 'ccan', 'Cc03_g03810' => 'ccan', 'CDE02G3718' => 'cde', 'CDE04G3183' => 'cde', 'CDE07G1046' => 'cde', 'CDE08G0480' => 'cde', 'Cfa005493' => 'cfa', 'Cfa010312' => 'cfa', 'Cfa015648' => 'cfa', 'Ciclev10002793m.g' => 'ccl', 'Ciclev10003356m.g' => 'ccl', 'Ciclev10006141m.g' => 'ccl', 'Ciclev10016676m.g' => 'ccl', 'Ciclev10017081m.g' => 'ccl', 'Ciclev10029499m.g' => 'ccl', 'CiPaw.01G166300' => 'cil', 'CiPaw.06G145600' => 'cil', 'CiPaw.13G040100' => 'cil', 'CiPaw.13G135800' => 'cil', 'ClCG01G012230' => 'cla', 'ClCG05G009510' => 'cla', 'ClCG08G008270' => 'cla', 'COL.COLO4_11763' => 'col', 'COL.COLO4_19876' => 'col', 'COL.COLO4_21481' => 'col', 'Cpa.g.sc118.34' => 'cpa', 'Cpa.g.sc32.13' => 'cpa', 'Cpa.g.sc58.103' => 'cpa', 'Cre03.g183850' => 'cre', 'Cre06.g306350' => 'cre', 'Cre07.g334800' => 'cre', 'Cre12.g487900' => 'cre', 'Cre14.g626700' => 'cre', 'Cre16.g658400' => 'cre', 'Cre17.g700950' => 'cre', 'CsaV3_1G014830' => 'csa', 'CsaV3_3G013320' => 'csa', 'CsaV3_3G019210' => 'csa', 'CsaV3_3G019220' => 'csa', 'CsaV3_6G004230' => 'csa', 'CSS0003773' => 'camsi', 'CSS0004563' => 'camsi', 'CSS0013949' => 'camsi', 'CSS0025971' => 'camsi', 'CSS0028570' => 'camsi', 'CSS0033127' => 'camsi', 'CSS0036051' => 'camsi', 'CSS0040087' => 'camsi', 'CSS0043179' => 'camsi', 'DCAR_006161' => 'dca', 'DCAR_010351' => 'dca', 'DCAR_012197' => 'dca', 'DCAR_024162' => 'dca', 'Dinv01030' => 'din', 'Dinv10924' => 'din', 'Dinv11835' => 'din', 'Dinv22841' => 'din', 'Dinv42553' => 'din', 'Duzib052G0560' => 'dzi', 'Duzib132G0389' => 'dzi', 'Duzib150G1181' => 'dzi', 'Duzib168G0623' => 'dzi', 'Duzib170G1036' => 'dzi', 'Duzib212G0200' => 'dzi', 'Duzib248G0194' => 'dzi', 'ECA232G2193' => 'eca', 'ECA233G0302' => 'eca', 'ECA234G2813' => 'eca', 'ECA234G4866' => 'eca', 'ECA240G3932' => 'eca', 'ECA248G0385' => 'eca', 'EL10Ac2g04781' => 'bvu', 'EL10Ac3g06445' => 'bvu', 'EL10Ac7g15825' => 'bvu', 'EL10Ac8g18550' => 'bvu', 'Eucgr.B03849' => 'egr', 'Eucgr.I02744' => 'egr', 'Eucgr.J00264' => 'egr', 'Eucgr.J00493' => 'egr', 'FAN04G2181' => 'fan', 'FAN07G2666' => 'fan', 'FAN11G0024' => 'fan', 'FAN12G1105' => 'fan', 'FAN13G0302' => 'fan', 'FAN15G2781' => 'fan', 'FAN16G1274' => 'fan', 'FAN17G2988' => 'fan', 'FAN18G2621' => 'fan', 'FAN21G0013' => 'fan', 'FAN22G1211' => 'fan', 'FAN25G3626' => 'fan', 'FvH4_2g09491' => 'fve', 'FvH4_3g24910' => 'fve', 'FvH4_4g15630' => 'fve', 'FvH4_5g28820' => 'fve', 'Glyma.01G238000' => 'gma', 'Glyma.05G168400' => 'gma', 'Glyma.08G126800' => 'gma', 'Glyma.08G188500' => 'gma', 'Glyma.10G278900' => 'gma', 'Glyma.11G005700' => 'gma', 'Glyma.11G183300' => 'gma', 'Glyma.12G089200' => 'gma', 'Glyma.12G169400' => 'gma', 'Glyma.12G169500' => 'gma', 'Glyma.12G169600' => 'gma', 'Glyma.20G110800' => 'gma', 'Gohir.A03G192900' => 'ghi', 'Gohir.A03G193000' => 'ghi', 'Gohir.A05G080700' => 'ghi', 'Gohir.A09G216000' => 'ghi', 'Gohir.A12G027700' => 'ghi', 'Gohir.A13G036200' => 'ghi', 'Gohir.A13G222600' => 'ghi', 'Gohir.D02G213900' => 'ghi', 'Gohir.D02G214000' => 'ghi', 'Gohir.D05G083700' => 'ghi', 'Gohir.D05G083800' => 'ghi', 'Gohir.D05G083850' => 'ghi', 'Gohir.D08G015400' => 'ghi', 'Gohir.D09G218400' => 'ghi', 'Gohir.D12G027100' => 'ghi', 'Gohir.D13G034500' => 'ghi', 'Gohir.D13G227400' => 'ghi', 'Gorai.005G241800' => 'gra', 'Gorai.005G241900' => 'gra', 'Gorai.006G239400' => 'gra', 'Gorai.008G027600' => 'gra', 'Gorai.009G085400' => 'gra', 'Gorai.009G085500' => 'gra', 'Gorai.013G039000' => 'gra', 'Gorai.013G194800' => 'gra', 'Gorai.013G257900' => 'gra', 'GSVIVG01000982001' => 'vvi', 'GSVIVG01017981001' => 'vvi', 'HanXRQChr01g0024061' => 'han', 'HanXRQChr09g0247831' => 'han', 'HanXRQChr10g0294611' => 'han', 'HanXRQChr10g0294621' => 'han', 'HanXRQChr11g0346821' => 'han', 'HanXRQChr13g0397461' => 'han', 'HanXRQChr16g0513651' => 'han', 'HanXRQChr16g0513701' => 'han', 'Haze_00897' => 'cav', 'Haze_01745' => 'cav', 'Haze_02486' => 'cav', 'Haze_02487' => 'cav', 'Haze_23374' => 'cav', 'Hma1.2p1_0578F.1_g182520' => 'hma', 'Hma1.2p1_0602F.1_g187350' => 'hma', 'Hma1.2p1_0602F.1_g187360' => 'hma', 'Hma1.2p1_0874F.1_g231320' => 'hma', 'Hma1.2p1_1197F.1_g266210' => 'hma', 'Hma1.2p1_1197F.1_g266220' => 'hma', 'Hma1.2p1_2167F.1_g315895' => 'hma', 'Hma1.2p1_2190F.1_g316640' => 'hma', 'Hma1.2p1_3645F.1_g337153' => 'hma', 'HPP92_004907' => 'vpl', 'HPP92_012134' => 'vpl', 'HPP92_025136' => 'vpl', 'HPP92_026087' => 'vpl', 'Hund06782' => 'sun', 'Hund06784' => 'sun', 'Lalb_Chr01g0004861' => 'lal', 'Lalb_Chr02g0140591' => 'lal', 'Lalb_Chr02g0140611' => 'lal', 'Lalb_Chr03g0028101' => 'lal', 'Lalb_Chr07g0185791' => 'lal', 'Lalb_Chr12g0204491' => 'lal', 'Lalb_Chr13g0295671' => 'lal', 'Lalb_Chr19g0136461' => 'lal', 'Lalb_Chr21g0309191' => 'lal', 'Lj1g0028158' => 'lja', 'Lj1P236T38' => 'lonja', 'Lj2C32G2' => 'lonja', 'Lj2P944T8' => 'lonja', 'Lj2P963T15' => 'lonja', 'Lj3g0011788' => 'lja', 'Lj4g0025027' => 'lja', 'Lj5P255T36' => 'lonja', 'Lj6g0018866' => 'lja', 'Lj6P608T31' => 'lonja', 'LjContig00408g0008879' => 'lja', 'Lsat_1_v5_gn_5_105820' => 'lsa', 'Lsat_1_v5_gn_6_38800' => 'lsa', 'Lsat_1_v5_gn_7_67141' => 'lsa', 'Manes.04G003400' => 'mes', 'Manes.07G020000' => 'mes', 'Manes.07G020100' => 'mes', 'Manes.07G020150' => 'mes', 'Manes.10G061500' => 'mes', 'Manes.10G123200' => 'mes', 'Manes.11G161900' => 'mes', 'Manes.15G029300' => 'mes', 'Mapoly0071s0018' => 'mpo', 'Mapoly0082s0023' => 'mpo', 'Mapoly3477s0001' => 'mpo', 'MBI05_g31233_MAGBIO' => 'mbi', 'MBI09_g05946_MAGBIO' => 'mbi', 'MBI09_g05947_MAGBIO' => 'mbi', 'MBI17_g08346_MAGBIO' => 'mbi', 'MCO04G038' => 'mco', 'MCO09G370' => 'mco', 'MCO13G605' => 'mco', 'MD00G1075500' => 'mdo', 'MD03G1144300' => 'mdo', 'MD08G1236800' => 'mdo', 'MD13G1193300' => 'mdo', 'MD15G1428700' => 'mdo', 'Medtr1g112030' => 'mtr', 'Medtr1g112050' => 'mtr', 'Medtr2g006290' => 'mtr', 'Medtr2g086510' => 'mtr', 'Medtr4g053120' => 'mtr', 'Medtr5g006320' => 'mtr', 'Medtr8g088720' => 'mtr', 'MELO3C004712.2' => 'cme', 'MELO3C006533.2' => 'cme', 'MELO3C019438.2' => 'cme', 'MELO3C019440.2' => 'cme', 'MELO3C019441.2' => 'cme', 'MELO3C019895.2' => 'cme', 'Migut.B00811' => 'egut', 'Migut.D02447' => 'egut', 'Migut.F00875' => 'egut', 'Migut.N00186' => 'egut', 'Migut.N01051' => 'egut', 'Migut.N02491' => 'egut', 'Migut.O00784' => 'egut', 'MSTRG.12367' => 'ama', 'MSTRG.18756' => 'ama', 'MSTRG.21042' => 'ama', 'Nitab4.5_0000559g0040' => 'nta', 'Nitab4.5_0000667g0190' => 'nta', 'Nitab4.5_0000755g0160' => 'nta', 'Nitab4.5_0001216g0080' => 'nta', 'Nitab4.5_0004069g0040' => 'nta', 'Nitab4.5_0004129g0010' => 'nta', 'Nitab4.5_0005744g0030' => 'nta', 'Nitab4.5_0006996g0030' => 'nta', 'Nitab4.5_0008971g0040' => 'nta', 'Nitab4.5_0009769g0020' => 'nta', 'Nitab4.5_0009833g0010' => 'nta', 'Nitab4.5_0013140g0020' => 'nta', 'Nn003s41376' => 'nnu', 'Nn1g01857' => 'nnu', 'Nn1g03611' => 'nnu', 'Nn1g06853' => 'nnu', 'Nn3g18360' => 'nnu', 'Nn4g26328' => 'nnu', 'Nn5g27531' => 'nnu', 'Nn6g34899' => 'nnu', 'Nn7g36299' => 'nnu', 'Oeu021485.1' => 'oeu', 'Oeu022433.1' => 'oeu', 'Oeu032111.1' => 'oeu', 'Oeu051608.1' => 'oeu', 'Os01g0860601' => 'osa', 'Os03g0659200' => 'osa', 'Os03g0835900' => 'osa', 'Os04g0412200' => 'osa', 'Os05g0443500' => 'osa', 'Os07g0251500' => 'osa', 'Os08g0104600' => 'osa', 'Peaxi162Scf00003g00047' => 'pax', 'Peaxi162Scf00003g00052' => 'pax', 'Peaxi162Scf00003g00394' => 'pax', 'Peaxi162Scf00091g00621' => 'pax', 'Peaxi162Scf00152g00146' => 'pax', 'Peaxi162Scf00173g00025' => 'pax', 'Peaxi162Scf00195g00102' => 'pax', 'Peaxi162Scf00402g00013' => 'pax', 'Peaxi162Scf00519g00618' => 'pax', 'PGR004G2838' => 'pgr', 'PGR044G2275' => 'pgr', 'PGR102G1377' => 'pgr', 'PGR119G1245' => 'pgr', 'PGR142G4449' => 'pgr', 'PGSC0003DMG400004532' => 'stu', 'PGSC0003DMG400011950' => 'stu', 'PGSC0003DMG400023391' => 'stu', 'PGSC0003DMG400023985' => 'stu', 'PGSC0003DMG400026360' => 'stu', 'PGSC0003DMG400035711' => 'stu', 'PGSC0003DMG400037286' => 'stu', 'PGSC0003DMG402005881' => 'stu', 'Phvul.002G045400' => 'pvu', 'Phvul.006G216600' => 'pvu', 'Phvul.006G216700' => 'pvu', 'Phvul.006G216800' => 'pvu', 'Phvul.007G022500' => 'pvu', 'Phvul.011G094400' => 'pvu', 'Potri.001G470700' => 'ptr', 'Potri.003G015200' => 'ptr', 'Potri.004G202500' => 'ptr', 'Potri.004G218400' => 'ptr', 'Potri.008G020100' => 'ptr', 'Potri.008G153200' => 'ptr', 'Potri.009G163800' => 'ptr', 'Potri.010G087300' => 'ptr', 'Potri.010G239100' => 'ptr', 'Pp3c10_16100' => 'ppa', 'Pp3c10_16880' => 'ppa', 'Pp3c16_6230' => 'ppa', 'Pp3c17_18910' => 'ppa', 'Pp3c3_22119' => 'ppa', 'Pp3c3_22140' => 'ppa', 'Pp3c4_8159' => 'ppa', 'Pp3c4_8171' => 'ppa', 'Pp3c4_8330' => 'ppa', 'PRCOL_00004098' => 'pco', 'Prupe.1G013900' => 'ppe', 'Prupe.1G226300' => 'ppe', 'Prupe.1G573600' => 'ppe', 'Prupe.6G130100' => 'ppe', 'Psat3g090040' => 'psa', 'Psat4g210440' => 'psa', 'Psat6g231040' => 'psa', 'Psat6g231080' => 'psa', 'Psat7g063000' => 'psa', 'Psat7g188000' => 'psa', 'Psat7g188040' => 'psa', 'PSO017G0206' => 'pso', 'PSO170G0501' => 'pso', 'PSO170G6422' => 'pso', 'PSO210G7739' => 'pso', 'PSO339G1808' => 'pso', 'PSO339G6135' => 'pso', 'PSO384G0010' => 'pso', 'PSO384G0964' => 'pso', 'PSO761G0050' => 'pso', 'PSO782G4085' => 'pso', 'QL01p012264' => 'qlo', 'QL02p099491' => 'qlo', 'QL03p033868' => 'qlo', 'QL04p046678' => 'qlo', 'QL06p002448' => 'qlo', 'RcHm_v2.0_Chr4g0416181' => 'rch', 'RcHm_v2.0_Chr5g0044701' => 'rch', 'RcHm_v2.0_Chr6g0265781' => 'rch', 'RcHm_v2.0_Chr7g0221031' => 'rch', 'Rhsim04G0202000' => 'rsi', 'Rhsim11G0127300' => 'rsi', 'Rhsim13G0111800' => 'rsi', 'Sabra01G0165600' => 'sbr', 'Sabra03G0008300' => 'sbr', 'Sabra04G0136900' => 'sbr', 'Sabra08G0013400' => 'sbr', 'Sabra08G0116800' => 'sbr', 'Sabra09G0128000' => 'sbr', 'Sabra10G0055500' => 'sbr', 'Sabra10G0073300' => 'sbr', 'SalBow3G0385' => 'sbo', 'SalBow3G1119' => 'sbo', 'SalBow3G2005' => 'sbo', 'SalBow6G2563' => 'sbo', 'SalBow6G6386' => 'sbo', 'Sc06g0008800' => 'sci', 'Sc07g0004950' => 'sci', 'Sc09g0005340' => 'sci', 'Sc13g0004410' => 'sci', 'Sc21g0007090' => 'sci', 'Sed0009285' => 'sed', 'Sed0017583' => 'sed', 'Sed0019699' => 'sed', 'Sed0023107' => 'sed', 'SEGI_10916' => 'sgi', 'SEGI_16217' => 'sgi', 'SEGI_19466' => 'sgi', 'SEGI_41115' => 'sgi', 'SGA_v2.0_scaffold111G31534' => 'sas', 'SGA_v2.0_scaffold22G09864' => 'sas', 'SGA_v2.0_scaffold338G49219' => 'sas', 'SGA_v2.0_scaffold92G28298' => 'sas', 'SMO119G0064' => 'smo', 'SMO223G0038' => 'smo', 'SMO347G0584' => 'smo', 'SMO351G0010' => 'smo', 'SMO356G0404' => 'smo', 'Solyc01g103920.3' => 'sly', 'Solyc04g009710.2' => 'sly', 'Solyc05g055280.2' => 'sly', 'Solyc10g044520.3' => 'sly', 'Solyc10g075160.1' => 'sly', 'Solyc11g006910.3' => 'sly', 'Solyc11g068430.3' => 'sly', 'Sopen01g046310' => 'spe', 'Sopen03g001200' => 'spe', 'Sopen04g004830' => 'spe', 'Sopen05g033720' => 'spe', 'Sopen06g030740' => 'spe', 'Sopen10g013090' => 'spe', 'Sopen10g027630' => 'spe', 'Sopen10g027640' => 'spe', 'Sopen11g002820' => 'spe', 'Sopen11g027140' => 'spe', 'Sp1g09680' => 'spa', 'Sp2g03630' => 'spa', 'Sp4g10320' => 'spa', 'Sp6g33400' => 'spa', 'Sp7g13030' => 'spa', 'TAR365G0317' => 'tar', 'TAR376G0979' => 'tar', 'TAR623G1665' => 'tar', 'TAR633G2373' => 'tar', 'TAR636G1400' => 'tar', 'THA.LOC104800529' => 'tha', 'THA.LOC104808547' => 'tha', 'THA.LOC104809615' => 'tha', 'THA.LOC104815724' => 'tha', 'THA.LOC104818480' => 'tha', 'THA.LOC104819179' => 'tha', 'THA.LOC104822270' => 'tha', 'THA.LOC104826425' => 'tha', 'Thecc.02G089700' => 'tca', 'Thecc.04G232300' => 'tca', 'Thecc.09G283400' => 'tca', 'Thhalv10009020m.g' => 'esa', 'Thhalv10015506m.g' => 'esa', 'Thhalv10017364m.g' => 'esa', 'Thhalv10023742m.g' => 'esa', 'Thhalv10026483m.g' => 'esa', 'TPR.G17232' => 'tpr', 'TPR.G2133' => 'tpr', 'TPR.G2498' => 'tpr', 'TPR.G31942' => 'tpr', 'TPR.G37877' => 'tpr', 'TPR.G4571' => 'tpr', 'TWI14G1113' => 'twi', 'TWI15G0426' => 'twi', 'TWI31G1005' => 'twi', 'TWI38G0513' => 'twi', 'TWI38G1484' => 'twi', 'TWI73G1098' => 'twi', 'unitig_26.g10519' => 'ugi', 'unitig_736.g22395' => 'ugi', 'unitig_747.g21234' => 'ugi', 'unitig_747.g21942' => 'ugi', 'vmacro14351' => 'vma', 'VMungo0540G0082' => 'vmu', 'VMungo0540G0405' => 'vmu', 'VMungo0540G1486' => 'vmu', 'VMungo0540G1692' => 'vmu', 'VMungo0720G2473' => 'vmu', 'VMungo1127G1562' => 'vmu', 'VMungo1215G1918' => 'vmu', 'Zm00001eb052650' => 'zma', 'Zm00001eb063710' => 'zma', 'Zm00001eb083950' => 'zma', 'Zm00001eb174420' => 'zma', 'Zm00001eb260140' => 'zma', 'Zm00001eb260150' => 'zma', 'Zm00001eb260160' => 'zma', 'Zm00001eb348290' => 'zma', 'Zm00001eb366870' => 'zma', 'Zm00001eb421930' => 'zma' ), 'gf_id' => 'HOM05D001025', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001025' ), 'data_identifier' => 'HOM05D001025', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001025', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '592', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p22650' => 'bna', 'A01p29720' => 'bna', 'A03p26560' => 'bna', 'A03p68820' => 'bna', 'A04p20980' => 'bna', 'A06p07730' => 'bna', 'A07p18260' => 'bna', 'A08p33710' => 'bna', 'A09p16970' => 'bna', 'A10p27490' => 'bna', 'Aa31LG1G17300' => 'aar', 'Aa31LG1G3910' => 'aar', 'Aa31LG2G9630' => 'aar', 'Aa31LG5G8360' => 'aar', 'Aa31LG9G2410' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4699' => 'aag', 'Actinidia23512' => 'ach', 'Actinidia37080' => 'ach', 'Ah.01g020380' => 'amhyb', 'Ah.08g215710' => 'amhyb', 'Ah.09g225110' => 'amhyb', 'Ah.10g036680' => 'amhyb', 'AL1G21940' => 'aly', 'AL2G15540' => 'aly', 'AL4G21520' => 'aly', 'AL7G40960' => 'aly', 'Aqoxy2G01191' => 'aox', 'Aqoxy2G03393' => 'aox', 'Aqoxy4G02775' => 'aox', 'Aqoxy6G00058' => 'aox', 'arahy.Tifrunner.gnm1.ann1.9X74H2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CW3FX9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R485W7' => 'arhy', 'AT1G10960' => 'ath', 'AT1G60950' => 'ath', 'AT2G27510' => 'ath', 'AT4G14890' => 'ath', 'AT5G10000' => 'ath', 'ATR0665G624' => 'atr', 'ATR0697G138' => 'atr', 'ATR0776G046' => 'atr', 'ATR1134G135' => 'atr', 'Atru.chr12.1025' => 'acertr', 'Atru.chr3.3241' => 'acertr', 'Atru.chr4.2460' => 'acertr', 'AUR62007427' => 'cqu', 'AUR62010960' => 'cqu', 'AUR62012201' => 'cqu', 'AUR62021470' => 'cqu', 'AUR62022834' => 'cqu', 'AUR62033635' => 'cqu', 'AUR62036186' => 'cqu', 'BcaB01g03077' => 'bca', 'BcaB02g10093' => 'bca', 'BcaB04g20295' => 'bca', 'BcaB06g28147' => 'bca', 'BcaB07g31253' => 'bca', 'BcaC01g04946' => 'bca', 'BcaC02g10614' => 'bca', 'BcaC02g10885' => 'bca', 'BcaC04g19356' => 'bca', 'BcaC04g22297' => 'bca', 'BcaC05g24977' => 'bca', 'BcaC06g31823' => 'bca', 'BcaC07g38633' => 'bca', 'BcaC09g49353' => 'bca', 'BcaC09g50168' => 'bca', 'BcaNung00322' => 'bca', 'BcaNung04769' => 'bca', 'BolC1t02753H' => 'bol', 'BolC1t03721H' => 'bol', 'BolC3t15525H' => 'bol', 'BolC4t23903H' => 'bol', 'BolC4t24231H' => 'bol', 'BolC4t27209H' => 'bol', 'BolC5t29671H' => 'bol', 'BolC8t49044H' => 'bol', 'BolC9t54999H' => 'bol', 'BolC9t59517H' => 'bol', 'BraA01t02178Z' => 'bra', 'BraA01t03099Z' => 'bra', 'BraA03t11867Z' => 'bra', 'BraA04t17667Z' => 'bra', 'BraA07t29542Z' => 'bra', 'BraA08t35287Z' => 'bra', 'BraA09t37334Z' => 'bra', 'BraA10t44801Z' => 'bra', 'BraSC39t46181Z' => 'bra', 'C01p28240' => 'bna', 'C01p37530' => 'bna', 'C03p31820' => 'bna', 'C04p24080' => 'bna', 'C04p25790' => 'bna', 'C04p56770' => 'bna', 'C05p09310' => 'bna', 'C09p21010' => 'bna', 'C09p67560' => 'bna', 'CAN.G1324.7' => 'can', 'CAN.G1358.10' => 'can', 'CAN.G1550.2' => 'can', 'CAN.G186.56' => 'can', 'CAN.G1965.1' => 'can', 'CAN.G645.15' => 'can', 'CAN.G798.26' => 'can', 'CAN.G798.27' => 'can', 'CAN.G798.29' => 'can', 'CAN.G919.31' => 'can', 'CANSAT11G0133' => 'cansat', 'CANSAT11G1171' => 'cansat', 'CANSAT11G2056' => 'cansat', 'CANSAT56G1202' => 'cansat', 'CANSAT56G1514' => 'cansat', 'CANSAT78G0455' => 'cansat', 'CARHR011190' => 'chi', 'CARHR051980' => 'chi', 'CARHR120170' => 'chi', 'CARHR203310' => 'chi', 'CARHR221490' => 'chi', 'Carub.0001s1054' => 'cru', 'Carub.0002s0431' => 'cru', 'Carub.0004s0818' => 'cru', 'Carub.0006s0846' => 'cru', 'Carub.0007s2722' => 'cru', 'Ca_00058_v3' => 'car', 'Ca_17831_v3' => 'car', 'Ca_19408_v3' => 'car', 'Ca_24397_v3' => 'car', 'Ca_25664_v3' => 'car', 'CBR_g21818' => 'cbr', 'CBR_g31195' => 'cbr', 'CBR_g32282' => 'cbr', 'CBR_g39599' => 'cbr', 'CBR_g49410' => 'cbr', 'Cc01_g09120' => 'ccan', 'Cc01_g09130' => 'ccan', 'Cc02_g09630' => 'ccan', 'Cc02_g22810' => 'ccan', 'Cc03_g03810' => 'ccan', 'CDE02G3718' => 'cde', 'CDE04G3183' => 'cde', 'CDE07G1046' => 'cde', 'CDE08G0480' => 'cde', 'Cfa005493' => 'cfa', 'Cfa010312' => 'cfa', 'Cfa015648' => 'cfa', 'Ciclev10002793m.g' => 'ccl', 'Ciclev10003356m.g' => 'ccl', 'Ciclev10006141m.g' => 'ccl', 'Ciclev10016676m.g' => 'ccl', 'Ciclev10017081m.g' => 'ccl', 'Ciclev10029499m.g' => 'ccl', 'CiPaw.01G166300' => 'cil', 'CiPaw.06G145600' => 'cil', 'CiPaw.13G040100' => 'cil', 'CiPaw.13G135800' => 'cil', 'ClCG01G012230' => 'cla', 'ClCG05G009510' => 'cla', 'ClCG08G008270' => 'cla', 'COL.COLO4_11763' => 'col', 'COL.COLO4_19876' => 'col', 'COL.COLO4_21481' => 'col', 'Cpa.g.sc118.34' => 'cpa', 'Cpa.g.sc32.13' => 'cpa', 'Cpa.g.sc58.103' => 'cpa', 'Cre03.g183850' => 'cre', 'Cre06.g306350' => 'cre', 'Cre07.g334800' => 'cre', 'Cre12.g487900' => 'cre', 'Cre14.g626700' => 'cre', 'Cre16.g658400' => 'cre', 'Cre17.g700950' => 'cre', 'CsaV3_1G014830' => 'csa', 'CsaV3_3G013320' => 'csa', 'CsaV3_3G019210' => 'csa', 'CsaV3_3G019220' => 'csa', 'CsaV3_6G004230' => 'csa', 'CSS0003773' => 'camsi', 'CSS0004563' => 'camsi', 'CSS0013949' => 'camsi', 'CSS0025971' => 'camsi', 'CSS0028570' => 'camsi', 'CSS0033127' => 'camsi', 'CSS0036051' => 'camsi', 'CSS0040087' => 'camsi', 'CSS0043179' => 'camsi', 'DCAR_006161' => 'dca', 'DCAR_010351' => 'dca', 'DCAR_012197' => 'dca', 'DCAR_024162' => 'dca', 'Dinv01030' => 'din', 'Dinv10924' => 'din', 'Dinv11835' => 'din', 'Dinv22841' => 'din', 'Dinv42553' => 'din', 'Duzib052G0560' => 'dzi', 'Duzib132G0389' => 'dzi', 'Duzib150G1181' => 'dzi', 'Duzib168G0623' => 'dzi', 'Duzib170G1036' => 'dzi', 'Duzib212G0200' => 'dzi', 'Duzib248G0194' => 'dzi', 'ECA232G2193' => 'eca', 'ECA233G0302' => 'eca', 'ECA234G2813' => 'eca', 'ECA234G4866' => 'eca', 'ECA240G3932' => 'eca', 'ECA248G0385' => 'eca', 'EL10Ac2g04781' => 'bvu', 'EL10Ac3g06445' => 'bvu', 'EL10Ac7g15825' => 'bvu', 'EL10Ac8g18550' => 'bvu', 'Eucgr.B03849' => 'egr', 'Eucgr.I02744' => 'egr', 'Eucgr.J00264' => 'egr', 'Eucgr.J00493' => 'egr', 'FAN04G2181' => 'fan', 'FAN07G2666' => 'fan', 'FAN11G0024' => 'fan', 'FAN12G1105' => 'fan', 'FAN13G0302' => 'fan', 'FAN15G2781' => 'fan', 'FAN16G1274' => 'fan', 'FAN17G2988' => 'fan', 'FAN18G2621' => 'fan', 'FAN21G0013' => 'fan', 'FAN22G1211' => 'fan', 'FAN25G3626' => 'fan', 'FvH4_2g09491' => 'fve', 'FvH4_3g24910' => 'fve', 'FvH4_4g15630' => 'fve', 'FvH4_5g28820' => 'fve', 'Glyma.01G238000' => 'gma', 'Glyma.05G168400' => 'gma', 'Glyma.08G126800' => 'gma', 'Glyma.08G188500' => 'gma', 'Glyma.10G278900' => 'gma', 'Glyma.11G005700' => 'gma', 'Glyma.11G183300' => 'gma', 'Glyma.12G089200' => 'gma', 'Glyma.12G169400' => 'gma', 'Glyma.12G169500' => 'gma', 'Glyma.12G169600' => 'gma', 'Glyma.20G110800' => 'gma', 'Gohir.A03G192900' => 'ghi', 'Gohir.A03G193000' => 'ghi', 'Gohir.A05G080700' => 'ghi', 'Gohir.A09G216000' => 'ghi', 'Gohir.A12G027700' => 'ghi', 'Gohir.A13G036200' => 'ghi', 'Gohir.A13G222600' => 'ghi', 'Gohir.D02G213900' => 'ghi', 'Gohir.D02G214000' => 'ghi', 'Gohir.D05G083700' => 'ghi', 'Gohir.D05G083800' => 'ghi', 'Gohir.D05G083850' => 'ghi', 'Gohir.D08G015400' => 'ghi', 'Gohir.D09G218400' => 'ghi', 'Gohir.D12G027100' => 'ghi', 'Gohir.D13G034500' => 'ghi', 'Gohir.D13G227400' => 'ghi', 'Gorai.005G241800' => 'gra', 'Gorai.005G241900' => 'gra', 'Gorai.006G239400' => 'gra', 'Gorai.008G027600' => 'gra', 'Gorai.009G085400' => 'gra', 'Gorai.009G085500' => 'gra', 'Gorai.013G039000' => 'gra', 'Gorai.013G194800' => 'gra', 'Gorai.013G257900' => 'gra', 'GSVIVG01000982001' => 'vvi', 'GSVIVG01017981001' => 'vvi', 'HanXRQChr01g0024061' => 'han', 'HanXRQChr09g0247831' => 'han', 'HanXRQChr10g0294611' => 'han', 'HanXRQChr10g0294621' => 'han', 'HanXRQChr11g0346821' => 'han', 'HanXRQChr13g0397461' => 'han', 'HanXRQChr16g0513651' => 'han', 'HanXRQChr16g0513701' => 'han', 'Haze_00897' => 'cav', 'Haze_01745' => 'cav', 'Haze_02486' => 'cav', 'Haze_02487' => 'cav', 'Haze_23374' => 'cav', 'Hma1.2p1_0578F.1_g182520' => 'hma', 'Hma1.2p1_0602F.1_g187350' => 'hma', 'Hma1.2p1_0602F.1_g187360' => 'hma', 'Hma1.2p1_0874F.1_g231320' => 'hma', 'Hma1.2p1_1197F.1_g266210' => 'hma', 'Hma1.2p1_1197F.1_g266220' => 'hma', 'Hma1.2p1_2167F.1_g315895' => 'hma', 'Hma1.2p1_2190F.1_g316640' => 'hma', 'Hma1.2p1_3645F.1_g337153' => 'hma', 'HPP92_004907' => 'vpl', 'HPP92_012134' => 'vpl', 'HPP92_025136' => 'vpl', 'HPP92_026087' => 'vpl', 'Hund06782' => 'sun', 'Hund06784' => 'sun', 'Lalb_Chr01g0004861' => 'lal', 'Lalb_Chr02g0140591' => 'lal', 'Lalb_Chr02g0140611' => 'lal', 'Lalb_Chr03g0028101' => 'lal', 'Lalb_Chr07g0185791' => 'lal', 'Lalb_Chr12g0204491' => 'lal', 'Lalb_Chr13g0295671' => 'lal', 'Lalb_Chr19g0136461' => 'lal', 'Lalb_Chr21g0309191' => 'lal', 'Lj1g0028158' => 'lja', 'Lj1P236T38' => 'lonja', 'Lj2C32G2' => 'lonja', 'Lj2P944T8' => 'lonja', 'Lj2P963T15' => 'lonja', 'Lj3g0011788' => 'lja', 'Lj4g0025027' => 'lja', 'Lj5P255T36' => 'lonja', 'Lj6g0018866' => 'lja', 'Lj6P608T31' => 'lonja', 'LjContig00408g0008879' => 'lja', 'Lsat_1_v5_gn_5_105820' => 'lsa', 'Lsat_1_v5_gn_6_38800' => 'lsa', 'Lsat_1_v5_gn_7_67141' => 'lsa', 'Manes.04G003400' => 'mes', 'Manes.07G020000' => 'mes', 'Manes.07G020100' => 'mes', 'Manes.07G020150' => 'mes', 'Manes.10G061500' => 'mes', 'Manes.10G123200' => 'mes', 'Manes.11G161900' => 'mes', 'Manes.15G029300' => 'mes', 'Mapoly0071s0018' => 'mpo', 'Mapoly0082s0023' => 'mpo', 'Mapoly3477s0001' => 'mpo', 'MBI05_g31233_MAGBIO' => 'mbi', 'MBI09_g05946_MAGBIO' => 'mbi', 'MBI09_g05947_MAGBIO' => 'mbi', 'MBI17_g08346_MAGBIO' => 'mbi', 'MCO04G038' => 'mco', 'MCO09G370' => 'mco', 'MCO13G605' => 'mco', 'MD00G1075500' => 'mdo', 'MD03G1144300' => 'mdo', 'MD08G1236800' => 'mdo', 'MD13G1193300' => 'mdo', 'MD15G1428700' => 'mdo', 'Medtr1g112030' => 'mtr', 'Medtr1g112050' => 'mtr', 'Medtr2g006290' => 'mtr', 'Medtr2g086510' => 'mtr', 'Medtr4g053120' => 'mtr', 'Medtr5g006320' => 'mtr', 'Medtr8g088720' => 'mtr', 'MELO3C004712.2' => 'cme', 'MELO3C006533.2' => 'cme', 'MELO3C019438.2' => 'cme', 'MELO3C019440.2' => 'cme', 'MELO3C019441.2' => 'cme', 'MELO3C019895.2' => 'cme', 'Migut.B00811' => 'egut', 'Migut.D02447' => 'egut', 'Migut.F00875' => 'egut', 'Migut.N00186' => 'egut', 'Migut.N01051' => 'egut', 'Migut.N02491' => 'egut', 'Migut.O00784' => 'egut', 'MSTRG.12367' => 'ama', 'MSTRG.18756' => 'ama', 'MSTRG.21042' => 'ama', 'Nitab4.5_0000559g0040' => 'nta', 'Nitab4.5_0000667g0190' => 'nta', 'Nitab4.5_0000755g0160' => 'nta', 'Nitab4.5_0001216g0080' => 'nta', 'Nitab4.5_0004069g0040' => 'nta', 'Nitab4.5_0004129g0010' => 'nta', 'Nitab4.5_0005744g0030' => 'nta', 'Nitab4.5_0006996g0030' => 'nta', 'Nitab4.5_0008971g0040' => 'nta', 'Nitab4.5_0009769g0020' => 'nta', 'Nitab4.5_0009833g0010' => 'nta', 'Nitab4.5_0013140g0020' => 'nta', 'Nn003s41376' => 'nnu', 'Nn1g01857' => 'nnu', 'Nn1g03611' => 'nnu', 'Nn1g06853' => 'nnu', 'Nn3g18360' => 'nnu', 'Nn4g26328' => 'nnu', 'Nn5g27531' => 'nnu', 'Nn6g34899' => 'nnu', 'Nn7g36299' => 'nnu', 'Oeu021485.1' => 'oeu', 'Oeu022433.1' => 'oeu', 'Oeu032111.1' => 'oeu', 'Oeu051608.1' => 'oeu', 'Os01g0860601' => 'osa', 'Os03g0659200' => 'osa', 'Os03g0835900' => 'osa', 'Os04g0412200' => 'osa', 'Os05g0443500' => 'osa', 'Os07g0251500' => 'osa', 'Os08g0104600' => 'osa', 'Peaxi162Scf00003g00047' => 'pax', 'Peaxi162Scf00003g00052' => 'pax', 'Peaxi162Scf00003g00394' => 'pax', 'Peaxi162Scf00091g00621' => 'pax', 'Peaxi162Scf00152g00146' => 'pax', 'Peaxi162Scf00173g00025' => 'pax', 'Peaxi162Scf00195g00102' => 'pax', 'Peaxi162Scf00402g00013' => 'pax', 'Peaxi162Scf00519g00618' => 'pax', 'PGR004G2838' => 'pgr', 'PGR044G2275' => 'pgr', 'PGR102G1377' => 'pgr', 'PGR119G1245' => 'pgr', 'PGR142G4449' => 'pgr', 'PGSC0003DMG400004532' => 'stu', 'PGSC0003DMG400011950' => 'stu', 'PGSC0003DMG400023391' => 'stu', 'PGSC0003DMG400023985' => 'stu', 'PGSC0003DMG400026360' => 'stu', 'PGSC0003DMG400035711' => 'stu', 'PGSC0003DMG400037286' => 'stu', 'PGSC0003DMG402005881' => 'stu', 'Phvul.002G045400' => 'pvu', 'Phvul.006G216600' => 'pvu', 'Phvul.006G216700' => 'pvu', 'Phvul.006G216800' => 'pvu', 'Phvul.007G022500' => 'pvu', 'Phvul.011G094400' => 'pvu', 'Potri.001G470700' => 'ptr', 'Potri.003G015200' => 'ptr', 'Potri.004G202500' => 'ptr', 'Potri.004G218400' => 'ptr', 'Potri.008G020100' => 'ptr', 'Potri.008G153200' => 'ptr', 'Potri.009G163800' => 'ptr', 'Potri.010G087300' => 'ptr', 'Potri.010G239100' => 'ptr', 'Pp3c10_16100' => 'ppa', 'Pp3c10_16880' => 'ppa', 'Pp3c16_6230' => 'ppa', 'Pp3c17_18910' => 'ppa', 'Pp3c3_22119' => 'ppa', 'Pp3c3_22140' => 'ppa', 'Pp3c4_8159' => 'ppa', 'Pp3c4_8171' => 'ppa', 'Pp3c4_8330' => 'ppa', 'PRCOL_00004098' => 'pco', 'Prupe.1G013900' => 'ppe', 'Prupe.1G226300' => 'ppe', 'Prupe.1G573600' => 'ppe', 'Prupe.6G130100' => 'ppe', 'Psat3g090040' => 'psa', 'Psat4g210440' => 'psa', 'Psat6g231040' => 'psa', 'Psat6g231080' => 'psa', 'Psat7g063000' => 'psa', 'Psat7g188000' => 'psa', 'Psat7g188040' => 'psa', 'PSO017G0206' => 'pso', 'PSO170G0501' => 'pso', 'PSO170G6422' => 'pso', 'PSO210G7739' => 'pso', 'PSO339G1808' => 'pso', 'PSO339G6135' => 'pso', 'PSO384G0010' => 'pso', 'PSO384G0964' => 'pso', 'PSO761G0050' => 'pso', 'PSO782G4085' => 'pso', 'QL01p012264' => 'qlo', 'QL02p099491' => 'qlo', 'QL03p033868' => 'qlo', 'QL04p046678' => 'qlo', 'QL06p002448' => 'qlo', 'RcHm_v2.0_Chr4g0416181' => 'rch', 'RcHm_v2.0_Chr5g0044701' => 'rch', 'RcHm_v2.0_Chr6g0265781' => 'rch', 'RcHm_v2.0_Chr7g0221031' => 'rch', 'Rhsim04G0202000' => 'rsi', 'Rhsim11G0127300' => 'rsi', 'Rhsim13G0111800' => 'rsi', 'Sabra01G0165600' => 'sbr', 'Sabra03G0008300' => 'sbr', 'Sabra04G0136900' => 'sbr', 'Sabra08G0013400' => 'sbr', 'Sabra08G0116800' => 'sbr', 'Sabra09G0128000' => 'sbr', 'Sabra10G0055500' => 'sbr', 'Sabra10G0073300' => 'sbr', 'SalBow3G0385' => 'sbo', 'SalBow3G1119' => 'sbo', 'SalBow3G2005' => 'sbo', 'SalBow6G2563' => 'sbo', 'SalBow6G6386' => 'sbo', 'Sc06g0008800' => 'sci', 'Sc07g0004950' => 'sci', 'Sc09g0005340' => 'sci', 'Sc13g0004410' => 'sci', 'Sc21g0007090' => 'sci', 'Sed0009285' => 'sed', 'Sed0017583' => 'sed', 'Sed0019699' => 'sed', 'Sed0023107' => 'sed', 'SEGI_10916' => 'sgi', 'SEGI_16217' => 'sgi', 'SEGI_19466' => 'sgi', 'SEGI_41115' => 'sgi', 'SGA_v2.0_scaffold111G31534' => 'sas', 'SGA_v2.0_scaffold22G09864' => 'sas', 'SGA_v2.0_scaffold338G49219' => 'sas', 'SGA_v2.0_scaffold92G28298' => 'sas', 'SMO119G0064' => 'smo', 'SMO223G0038' => 'smo', 'SMO347G0584' => 'smo', 'SMO351G0010' => 'smo', 'SMO356G0404' => 'smo', 'Solyc01g103920.3' => 'sly', 'Solyc04g009710.2' => 'sly', 'Solyc05g055280.2' => 'sly', 'Solyc10g044520.3' => 'sly', 'Solyc10g075160.1' => 'sly', 'Solyc11g006910.3' => 'sly', 'Solyc11g068430.3' => 'sly', 'Sopen01g046310' => 'spe', 'Sopen03g001200' => 'spe', 'Sopen04g004830' => 'spe', 'Sopen05g033720' => 'spe', 'Sopen06g030740' => 'spe', 'Sopen10g013090' => 'spe', 'Sopen10g027630' => 'spe', 'Sopen10g027640' => 'spe', 'Sopen11g002820' => 'spe', 'Sopen11g027140' => 'spe', 'Sp1g09680' => 'spa', 'Sp2g03630' => 'spa', 'Sp4g10320' => 'spa', 'Sp6g33400' => 'spa', 'Sp7g13030' => 'spa', 'TAR365G0317' => 'tar', 'TAR376G0979' => 'tar', 'TAR623G1665' => 'tar', 'TAR633G2373' => 'tar', 'TAR636G1400' => 'tar', 'THA.LOC104800529' => 'tha', 'THA.LOC104808547' => 'tha', 'THA.LOC104809615' => 'tha', 'THA.LOC104815724' => 'tha', 'THA.LOC104818480' => 'tha', 'THA.LOC104819179' => 'tha', 'THA.LOC104822270' => 'tha', 'THA.LOC104826425' => 'tha', 'Thecc.02G089700' => 'tca', 'Thecc.04G232300' => 'tca', 'Thecc.09G283400' => 'tca', 'Thhalv10009020m.g' => 'esa', 'Thhalv10015506m.g' => 'esa', 'Thhalv10017364m.g' => 'esa', 'Thhalv10023742m.g' => 'esa', 'Thhalv10026483m.g' => 'esa', 'TPR.G17232' => 'tpr', 'TPR.G2133' => 'tpr', 'TPR.G2498' => 'tpr', 'TPR.G31942' => 'tpr', 'TPR.G37877' => 'tpr', 'TPR.G4571' => 'tpr', 'TWI14G1113' => 'twi', 'TWI15G0426' => 'twi', 'TWI31G1005' => 'twi', 'TWI38G0513' => 'twi', 'TWI38G1484' => 'twi', 'TWI73G1098' => 'twi', 'unitig_26.g10519' => 'ugi', 'unitig_736.g22395' => 'ugi', 'unitig_747.g21234' => 'ugi', 'unitig_747.g21942' => 'ugi', 'vmacro14351' => 'vma', 'VMungo0540G0082' => 'vmu', 'VMungo0540G0405' => 'vmu', 'VMungo0540G1486' => 'vmu', 'VMungo0540G1692' => 'vmu', 'VMungo0720G2473' => 'vmu', 'VMungo1127G1562' => 'vmu', 'VMungo1215G1918' => 'vmu', 'Zm00001eb052650' => 'zma', 'Zm00001eb063710' => 'zma', 'Zm00001eb083950' => 'zma', 'Zm00001eb174420' => 'zma', 'Zm00001eb260140' => 'zma', 'Zm00001eb260150' => 'zma', 'Zm00001eb260160' => 'zma', 'Zm00001eb348290' => 'zma', 'Zm00001eb366870' => 'zma', 'Zm00001eb421930' => 'zma' ) $gf_id = 'HOM05D001025' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001025' ) $data_identifier = 'HOM05D001025' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 19, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 2, 'amhyb' => (int) 4, 'aly' => (int) 4, 'aox' => (int) 4, 'arhy' => (int) 3, 'ath' => (int) 5, 'atr' => (int) 4, 'acertr' => (int) 3, 'cqu' => (int) 7, 'bca' => (int) 17, 'bol' => (int) 10, 'bra' => (int) 9, 'can' => (int) 10, 'cansat' => (int) 6, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 5, 'cbr' => (int) 5, 'ccan' => (int) 5, 'cde' => (int) 4, 'cfa' => (int) 3, 'ccl' => (int) 6, 'cil' => (int) 4, 'cla' => (int) 3, 'col' => (int) 3, 'cpa' => (int) 3, 'cre' => (int) 7, 'csa' => (int) 5, 'camsi' => (int) 9, 'dca' => (int) 4, 'din' => (int) 5, 'dzi' => (int) 7, 'eca' => (int) 6, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 12, 'fve' => (int) 4, 'gma' => (int) 12, 'ghi' => (int) 17, 'gra' => (int) 9, 'vvi' => (int) 2, 'han' => (int) 8, 'cav' => (int) 5, 'hma' => (int) 9, 'vpl' => (int) 4, 'sun' => (int) 2, 'lal' => (int) 9, 'lja' => (int) 5, 'lonja' => (int) 6, 'lsa' => (int) 3, 'mes' => (int) 8, 'mpo' => (int) 3, 'mbi' => (int) 4, 'mco' => (int) 3, 'mdo' => (int) 5, 'mtr' => (int) 7, 'cme' => (int) 6, 'egut' => (int) 7, 'ama' => (int) 3, 'nta' => (int) 12, 'nnu' => (int) 9, 'oeu' => (int) 4, 'osa' => (int) 7, 'pax' => (int) 9, 'pgr' => (int) 5, 'stu' => (int) 8, 'pvu' => (int) 6, 'ptr' => (int) 9, 'ppa' => (int) 9, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 7, 'pso' => (int) 10, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 3, 'sbr' => (int) 8, 'sbo' => (int) 5, 'sci' => (int) 5, 'sed' => (int) 4, 'sgi' => (int) 4, 'sas' => (int) 4, 'smo' => (int) 5, 'sly' => (int) 7, 'spe' => (int) 10, 'spa' => (int) 5, 'tar' => (int) 5, 'tha' => (int) 8, 'tca' => (int) 3, 'esa' => (int) 5, 'tpr' => (int) 6, 'twi' => (int) 6, 'ugi' => (int) 4, 'vma' => (int) 1, 'vmu' => (int) 7, 'zma' => (int) 10 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb421930' $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' => 'HOM05D001025', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '592', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p22650' => 'bna', 'A01p29720' => 'bna', 'A03p26560' => 'bna', 'A03p68820' => 'bna', 'A04p20980' => 'bna', 'A06p07730' => 'bna', 'A07p18260' => 'bna', 'A08p33710' => 'bna', 'A09p16970' => 'bna', 'A10p27490' => 'bna', 'Aa31LG1G17300' => 'aar', 'Aa31LG1G3910' => 'aar', 'Aa31LG2G9630' => 'aar', 'Aa31LG5G8360' => 'aar', 'Aa31LG9G2410' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4699' => 'aag', 'Actinidia23512' => 'ach', 'Actinidia37080' => 'ach', 'Ah.01g020380' => 'amhyb', 'Ah.08g215710' => 'amhyb', 'Ah.09g225110' => 'amhyb', 'Ah.10g036680' => 'amhyb', 'AL1G21940' => 'aly', 'AL2G15540' => 'aly', 'AL4G21520' => 'aly', 'AL7G40960' => 'aly', 'Aqoxy2G01191' => 'aox', 'Aqoxy2G03393' => 'aox', 'Aqoxy4G02775' => 'aox', 'Aqoxy6G00058' => 'aox', 'arahy.Tifrunner.gnm1.ann1.9X74H2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CW3FX9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R485W7' => 'arhy', 'AT1G10960' => 'ath', 'AT1G60950' => 'ath', 'AT2G27510' => 'ath', 'AT4G14890' => 'ath', 'AT5G10000' => 'ath', 'ATR0665G624' => 'atr', 'ATR0697G138' => 'atr', 'ATR0776G046' => 'atr', 'ATR1134G135' => 'atr', 'Atru.chr12.1025' => 'acertr', 'Atru.chr3.3241' => 'acertr', 'Atru.chr4.2460' => 'acertr', 'AUR62007427' => 'cqu', 'AUR62010960' => 'cqu', 'AUR62012201' => 'cqu', 'AUR62021470' => 'cqu', 'AUR62022834' => 'cqu', 'AUR62033635' => 'cqu', 'AUR62036186' => 'cqu', 'BcaB01g03077' => 'bca', 'BcaB02g10093' => 'bca', 'BcaB04g20295' => 'bca', 'BcaB06g28147' => 'bca', 'BcaB07g31253' => 'bca', 'BcaC01g04946' => 'bca', 'BcaC02g10614' => 'bca', 'BcaC02g10885' => 'bca', 'BcaC04g19356' => 'bca', 'BcaC04g22297' => 'bca', 'BcaC05g24977' => 'bca', 'BcaC06g31823' => 'bca', 'BcaC07g38633' => 'bca', 'BcaC09g49353' => 'bca', 'BcaC09g50168' => 'bca', 'BcaNung00322' => 'bca', 'BcaNung04769' => 'bca', 'BolC1t02753H' => 'bol', 'BolC1t03721H' => 'bol', 'BolC3t15525H' => 'bol', 'BolC4t23903H' => 'bol', 'BolC4t24231H' => 'bol', 'BolC4t27209H' => 'bol', 'BolC5t29671H' => 'bol', 'BolC8t49044H' => 'bol', 'BolC9t54999H' => 'bol', 'BolC9t59517H' => 'bol', 'BraA01t02178Z' => 'bra', 'BraA01t03099Z' => 'bra', 'BraA03t11867Z' => 'bra', 'BraA04t17667Z' => 'bra', 'BraA07t29542Z' => 'bra', 'BraA08t35287Z' => 'bra', 'BraA09t37334Z' => 'bra', 'BraA10t44801Z' => 'bra', 'BraSC39t46181Z' => 'bra', 'C01p28240' => 'bna', 'C01p37530' => 'bna', 'C03p31820' => 'bna', 'C04p24080' => 'bna', 'C04p25790' => 'bna', 'C04p56770' => 'bna', 'C05p09310' => 'bna', 'C09p21010' => 'bna', 'C09p67560' => 'bna', 'CAN.G1324.7' => 'can', 'CAN.G1358.10' => 'can', 'CAN.G1550.2' => 'can', 'CAN.G186.56' => 'can', 'CAN.G1965.1' => 'can', 'CAN.G645.15' => 'can', 'CAN.G798.26' => 'can', 'CAN.G798.27' => 'can', 'CAN.G798.29' => 'can', 'CAN.G919.31' => 'can', 'CANSAT11G0133' => 'cansat', 'CANSAT11G1171' => 'cansat', 'CANSAT11G2056' => 'cansat', 'CANSAT56G1202' => 'cansat', 'CANSAT56G1514' => 'cansat', 'CANSAT78G0455' => 'cansat', 'CARHR011190' => 'chi', 'CARHR051980' => 'chi', 'CARHR120170' => 'chi', 'CARHR203310' => 'chi', 'CARHR221490' => 'chi', 'Carub.0001s1054' => 'cru', 'Carub.0002s0431' => 'cru', 'Carub.0004s0818' => 'cru', 'Carub.0006s0846' => 'cru', 'Carub.0007s2722' => 'cru', 'Ca_00058_v3' => 'car', 'Ca_17831_v3' => 'car', 'Ca_19408_v3' => 'car', 'Ca_24397_v3' => 'car', 'Ca_25664_v3' => 'car', 'CBR_g21818' => 'cbr', 'CBR_g31195' => 'cbr', 'CBR_g32282' => 'cbr', 'CBR_g39599' => 'cbr', 'CBR_g49410' => 'cbr', 'Cc01_g09120' => 'ccan', 'Cc01_g09130' => 'ccan', 'Cc02_g09630' => 'ccan', 'Cc02_g22810' => 'ccan', 'Cc03_g03810' => 'ccan', 'CDE02G3718' => 'cde', 'CDE04G3183' => 'cde', 'CDE07G1046' => 'cde', 'CDE08G0480' => 'cde', 'Cfa005493' => 'cfa', 'Cfa010312' => 'cfa', 'Cfa015648' => 'cfa', 'Ciclev10002793m.g' => 'ccl', 'Ciclev10003356m.g' => 'ccl', 'Ciclev10006141m.g' => 'ccl', 'Ciclev10016676m.g' => 'ccl', 'Ciclev10017081m.g' => 'ccl', 'Ciclev10029499m.g' => 'ccl', 'CiPaw.01G166300' => 'cil', 'CiPaw.06G145600' => 'cil', 'CiPaw.13G040100' => 'cil', 'CiPaw.13G135800' => 'cil', 'ClCG01G012230' => 'cla', 'ClCG05G009510' => 'cla', 'ClCG08G008270' => 'cla', 'COL.COLO4_11763' => 'col', 'COL.COLO4_19876' => 'col', 'COL.COLO4_21481' => 'col', 'Cpa.g.sc118.34' => 'cpa', 'Cpa.g.sc32.13' => 'cpa', 'Cpa.g.sc58.103' => 'cpa', 'Cre03.g183850' => 'cre', 'Cre06.g306350' => 'cre', 'Cre07.g334800' => 'cre', 'Cre12.g487900' => 'cre', 'Cre14.g626700' => 'cre', 'Cre16.g658400' => 'cre', 'Cre17.g700950' => 'cre', 'CsaV3_1G014830' => 'csa', 'CsaV3_3G013320' => 'csa', 'CsaV3_3G019210' => 'csa', 'CsaV3_3G019220' => 'csa', 'CsaV3_6G004230' => 'csa', 'CSS0003773' => 'camsi', 'CSS0004563' => 'camsi', 'CSS0013949' => 'camsi', 'CSS0025971' => 'camsi', 'CSS0028570' => 'camsi', 'CSS0033127' => 'camsi', 'CSS0036051' => 'camsi', 'CSS0040087' => 'camsi', 'CSS0043179' => 'camsi', 'DCAR_006161' => 'dca', 'DCAR_010351' => 'dca', 'DCAR_012197' => 'dca', 'DCAR_024162' => 'dca', 'Dinv01030' => 'din', 'Dinv10924' => 'din', 'Dinv11835' => 'din', 'Dinv22841' => 'din', 'Dinv42553' => 'din', 'Duzib052G0560' => 'dzi', 'Duzib132G0389' => 'dzi', 'Duzib150G1181' => 'dzi', 'Duzib168G0623' => 'dzi', 'Duzib170G1036' => 'dzi', 'Duzib212G0200' => 'dzi', 'Duzib248G0194' => 'dzi', 'ECA232G2193' => 'eca', 'ECA233G0302' => 'eca', 'ECA234G2813' => 'eca', 'ECA234G4866' => 'eca', 'ECA240G3932' => 'eca', 'ECA248G0385' => 'eca', 'EL10Ac2g04781' => 'bvu', 'EL10Ac3g06445' => 'bvu', 'EL10Ac7g15825' => 'bvu', 'EL10Ac8g18550' => 'bvu', 'Eucgr.B03849' => 'egr', 'Eucgr.I02744' => 'egr', 'Eucgr.J00264' => 'egr', 'Eucgr.J00493' => 'egr', 'FAN04G2181' => 'fan', 'FAN07G2666' => 'fan', 'FAN11G0024' => 'fan', 'FAN12G1105' => 'fan', 'FAN13G0302' => 'fan', 'FAN15G2781' => 'fan', 'FAN16G1274' => 'fan', 'FAN17G2988' => 'fan', 'FAN18G2621' => 'fan', 'FAN21G0013' => 'fan', 'FAN22G1211' => 'fan', 'FAN25G3626' => 'fan', 'FvH4_2g09491' => 'fve', 'FvH4_3g24910' => 'fve', 'FvH4_4g15630' => 'fve', 'FvH4_5g28820' => 'fve', 'Glyma.01G238000' => 'gma', 'Glyma.05G168400' => 'gma', 'Glyma.08G126800' => 'gma', 'Glyma.08G188500' => 'gma', 'Glyma.10G278900' => 'gma', 'Glyma.11G005700' => 'gma', 'Glyma.11G183300' => 'gma', 'Glyma.12G089200' => 'gma', 'Glyma.12G169400' => 'gma', 'Glyma.12G169500' => 'gma', 'Glyma.12G169600' => 'gma', 'Glyma.20G110800' => 'gma', 'Gohir.A03G192900' => 'ghi', 'Gohir.A03G193000' => 'ghi', 'Gohir.A05G080700' => 'ghi', 'Gohir.A09G216000' => 'ghi', 'Gohir.A12G027700' => 'ghi', 'Gohir.A13G036200' => 'ghi', 'Gohir.A13G222600' => 'ghi', 'Gohir.D02G213900' => 'ghi', 'Gohir.D02G214000' => 'ghi', 'Gohir.D05G083700' => 'ghi', 'Gohir.D05G083800' => 'ghi', 'Gohir.D05G083850' => 'ghi', 'Gohir.D08G015400' => 'ghi', 'Gohir.D09G218400' => 'ghi', 'Gohir.D12G027100' => 'ghi', 'Gohir.D13G034500' => 'ghi', 'Gohir.D13G227400' => 'ghi', 'Gorai.005G241800' => 'gra', 'Gorai.005G241900' => 'gra', 'Gorai.006G239400' => 'gra', 'Gorai.008G027600' => 'gra', 'Gorai.009G085400' => 'gra', 'Gorai.009G085500' => 'gra', 'Gorai.013G039000' => 'gra', 'Gorai.013G194800' => 'gra', 'Gorai.013G257900' => 'gra', 'GSVIVG01000982001' => 'vvi', 'GSVIVG01017981001' => 'vvi', 'HanXRQChr01g0024061' => 'han', 'HanXRQChr09g0247831' => 'han', 'HanXRQChr10g0294611' => 'han', 'HanXRQChr10g0294621' => 'han', 'HanXRQChr11g0346821' => 'han', 'HanXRQChr13g0397461' => 'han', 'HanXRQChr16g0513651' => 'han', 'HanXRQChr16g0513701' => 'han', 'Haze_00897' => 'cav', 'Haze_01745' => 'cav', 'Haze_02486' => 'cav', 'Haze_02487' => 'cav', 'Haze_23374' => 'cav', 'Hma1.2p1_0578F.1_g182520' => 'hma', 'Hma1.2p1_0602F.1_g187350' => 'hma', 'Hma1.2p1_0602F.1_g187360' => 'hma', 'Hma1.2p1_0874F.1_g231320' => 'hma', 'Hma1.2p1_1197F.1_g266210' => 'hma', 'Hma1.2p1_1197F.1_g266220' => 'hma', 'Hma1.2p1_2167F.1_g315895' => 'hma', 'Hma1.2p1_2190F.1_g316640' => 'hma', 'Hma1.2p1_3645F.1_g337153' => 'hma', 'HPP92_004907' => 'vpl', 'HPP92_012134' => 'vpl', 'HPP92_025136' => 'vpl', 'HPP92_026087' => 'vpl', 'Hund06782' => 'sun', 'Hund06784' => 'sun', 'Lalb_Chr01g0004861' => 'lal', 'Lalb_Chr02g0140591' => 'lal', 'Lalb_Chr02g0140611' => 'lal', 'Lalb_Chr03g0028101' => 'lal', 'Lalb_Chr07g0185791' => 'lal', 'Lalb_Chr12g0204491' => 'lal', 'Lalb_Chr13g0295671' => 'lal', 'Lalb_Chr19g0136461' => 'lal', 'Lalb_Chr21g0309191' => 'lal', 'Lj1g0028158' => 'lja', 'Lj1P236T38' => 'lonja', 'Lj2C32G2' => 'lonja', 'Lj2P944T8' => 'lonja', 'Lj2P963T15' => 'lonja', 'Lj3g0011788' => 'lja', 'Lj4g0025027' => 'lja', 'Lj5P255T36' => 'lonja', 'Lj6g0018866' => 'lja', 'Lj6P608T31' => 'lonja', 'LjContig00408g0008879' => 'lja', 'Lsat_1_v5_gn_5_105820' => 'lsa', 'Lsat_1_v5_gn_6_38800' => 'lsa', 'Lsat_1_v5_gn_7_67141' => 'lsa', 'Manes.04G003400' => 'mes', 'Manes.07G020000' => 'mes', 'Manes.07G020100' => 'mes', 'Manes.07G020150' => 'mes', 'Manes.10G061500' => 'mes', 'Manes.10G123200' => 'mes', 'Manes.11G161900' => 'mes', 'Manes.15G029300' => 'mes', 'Mapoly0071s0018' => 'mpo', 'Mapoly0082s0023' => 'mpo', 'Mapoly3477s0001' => 'mpo', 'MBI05_g31233_MAGBIO' => 'mbi', 'MBI09_g05946_MAGBIO' => 'mbi', 'MBI09_g05947_MAGBIO' => 'mbi', 'MBI17_g08346_MAGBIO' => 'mbi', 'MCO04G038' => 'mco', 'MCO09G370' => 'mco', 'MCO13G605' => 'mco', 'MD00G1075500' => 'mdo', 'MD03G1144300' => 'mdo', 'MD08G1236800' => 'mdo', 'MD13G1193300' => 'mdo', 'MD15G1428700' => 'mdo', 'Medtr1g112030' => 'mtr', 'Medtr1g112050' => 'mtr', 'Medtr2g006290' => 'mtr', 'Medtr2g086510' => 'mtr', 'Medtr4g053120' => 'mtr', 'Medtr5g006320' => 'mtr', 'Medtr8g088720' => 'mtr', 'MELO3C004712.2' => 'cme', 'MELO3C006533.2' => 'cme', 'MELO3C019438.2' => 'cme', 'MELO3C019440.2' => 'cme', 'MELO3C019441.2' => 'cme', 'MELO3C019895.2' => 'cme', 'Migut.B00811' => 'egut', 'Migut.D02447' => 'egut', 'Migut.F00875' => 'egut', 'Migut.N00186' => 'egut', 'Migut.N01051' => 'egut', 'Migut.N02491' => 'egut', 'Migut.O00784' => 'egut', 'MSTRG.12367' => 'ama', 'MSTRG.18756' => 'ama', 'MSTRG.21042' => 'ama', 'Nitab4.5_0000559g0040' => 'nta', 'Nitab4.5_0000667g0190' => 'nta', 'Nitab4.5_0000755g0160' => 'nta', 'Nitab4.5_0001216g0080' => 'nta', 'Nitab4.5_0004069g0040' => 'nta', 'Nitab4.5_0004129g0010' => 'nta', 'Nitab4.5_0005744g0030' => 'nta', 'Nitab4.5_0006996g0030' => 'nta', 'Nitab4.5_0008971g0040' => 'nta', 'Nitab4.5_0009769g0020' => 'nta', 'Nitab4.5_0009833g0010' => 'nta', 'Nitab4.5_0013140g0020' => 'nta', 'Nn003s41376' => 'nnu', 'Nn1g01857' => 'nnu', 'Nn1g03611' => 'nnu', 'Nn1g06853' => 'nnu', 'Nn3g18360' => 'nnu', 'Nn4g26328' => 'nnu', 'Nn5g27531' => 'nnu', 'Nn6g34899' => 'nnu', 'Nn7g36299' => 'nnu', 'Oeu021485.1' => 'oeu', 'Oeu022433.1' => 'oeu', 'Oeu032111.1' => 'oeu', 'Oeu051608.1' => 'oeu', 'Os01g0860601' => 'osa', 'Os03g0659200' => 'osa', 'Os03g0835900' => 'osa', 'Os04g0412200' => 'osa', 'Os05g0443500' => 'osa', 'Os07g0251500' => 'osa', 'Os08g0104600' => 'osa', 'Peaxi162Scf00003g00047' => 'pax', 'Peaxi162Scf00003g00052' => 'pax', 'Peaxi162Scf00003g00394' => 'pax', 'Peaxi162Scf00091g00621' => 'pax', 'Peaxi162Scf00152g00146' => 'pax', 'Peaxi162Scf00173g00025' => 'pax', 'Peaxi162Scf00195g00102' => 'pax', 'Peaxi162Scf00402g00013' => 'pax', 'Peaxi162Scf00519g00618' => 'pax', 'PGR004G2838' => 'pgr', 'PGR044G2275' => 'pgr', 'PGR102G1377' => 'pgr', 'PGR119G1245' => 'pgr', 'PGR142G4449' => 'pgr', 'PGSC0003DMG400004532' => 'stu', 'PGSC0003DMG400011950' => 'stu', 'PGSC0003DMG400023391' => 'stu', 'PGSC0003DMG400023985' => 'stu', 'PGSC0003DMG400026360' => 'stu', 'PGSC0003DMG400035711' => 'stu', 'PGSC0003DMG400037286' => 'stu', 'PGSC0003DMG402005881' => 'stu', 'Phvul.002G045400' => 'pvu', 'Phvul.006G216600' => 'pvu', 'Phvul.006G216700' => 'pvu', 'Phvul.006G216800' => 'pvu', 'Phvul.007G022500' => 'pvu', 'Phvul.011G094400' => 'pvu', 'Potri.001G470700' => 'ptr', 'Potri.003G015200' => 'ptr', 'Potri.004G202500' => 'ptr', 'Potri.004G218400' => 'ptr', 'Potri.008G020100' => 'ptr', 'Potri.008G153200' => 'ptr', 'Potri.009G163800' => 'ptr', 'Potri.010G087300' => 'ptr', 'Potri.010G239100' => 'ptr', 'Pp3c10_16100' => 'ppa', 'Pp3c10_16880' => 'ppa', 'Pp3c16_6230' => 'ppa', 'Pp3c17_18910' => 'ppa', 'Pp3c3_22119' => 'ppa', 'Pp3c3_22140' => 'ppa', 'Pp3c4_8159' => 'ppa', 'Pp3c4_8171' => 'ppa', 'Pp3c4_8330' => 'ppa', 'PRCOL_00004098' => 'pco', 'Prupe.1G013900' => 'ppe', 'Prupe.1G226300' => 'ppe', 'Prupe.1G573600' => 'ppe', 'Prupe.6G130100' => 'ppe', 'Psat3g090040' => 'psa', 'Psat4g210440' => 'psa', 'Psat6g231040' => 'psa', 'Psat6g231080' => 'psa', 'Psat7g063000' => 'psa', 'Psat7g188000' => 'psa', 'Psat7g188040' => 'psa', 'PSO017G0206' => 'pso', 'PSO170G0501' => 'pso', 'PSO170G6422' => 'pso', 'PSO210G7739' => 'pso', 'PSO339G1808' => 'pso', 'PSO339G6135' => 'pso', 'PSO384G0010' => 'pso', 'PSO384G0964' => 'pso', 'PSO761G0050' => 'pso', 'PSO782G4085' => 'pso', 'QL01p012264' => 'qlo', 'QL02p099491' => 'qlo', 'QL03p033868' => 'qlo', 'QL04p046678' => 'qlo', 'QL06p002448' => 'qlo', 'RcHm_v2.0_Chr4g0416181' => 'rch', 'RcHm_v2.0_Chr5g0044701' => 'rch', 'RcHm_v2.0_Chr6g0265781' => 'rch', 'RcHm_v2.0_Chr7g0221031' => 'rch', 'Rhsim04G0202000' => 'rsi', 'Rhsim11G0127300' => 'rsi', 'Rhsim13G0111800' => 'rsi', 'Sabra01G0165600' => 'sbr', 'Sabra03G0008300' => 'sbr', 'Sabra04G0136900' => 'sbr', 'Sabra08G0013400' => 'sbr', 'Sabra08G0116800' => 'sbr', 'Sabra09G0128000' => 'sbr', 'Sabra10G0055500' => 'sbr', 'Sabra10G0073300' => 'sbr', 'SalBow3G0385' => 'sbo', 'SalBow3G1119' => 'sbo', 'SalBow3G2005' => 'sbo', 'SalBow6G2563' => 'sbo', 'SalBow6G6386' => 'sbo', 'Sc06g0008800' => 'sci', 'Sc07g0004950' => 'sci', 'Sc09g0005340' => 'sci', 'Sc13g0004410' => 'sci', 'Sc21g0007090' => 'sci', 'Sed0009285' => 'sed', 'Sed0017583' => 'sed', 'Sed0019699' => 'sed', 'Sed0023107' => 'sed', 'SEGI_10916' => 'sgi', 'SEGI_16217' => 'sgi', 'SEGI_19466' => 'sgi', 'SEGI_41115' => 'sgi', 'SGA_v2.0_scaffold111G31534' => 'sas', 'SGA_v2.0_scaffold22G09864' => 'sas', 'SGA_v2.0_scaffold338G49219' => 'sas', 'SGA_v2.0_scaffold92G28298' => 'sas', 'SMO119G0064' => 'smo', 'SMO223G0038' => 'smo', 'SMO347G0584' => 'smo', 'SMO351G0010' => 'smo', 'SMO356G0404' => 'smo', 'Solyc01g103920.3' => 'sly', 'Solyc04g009710.2' => 'sly', 'Solyc05g055280.2' => 'sly', 'Solyc10g044520.3' => 'sly', 'Solyc10g075160.1' => 'sly', 'Solyc11g006910.3' => 'sly', 'Solyc11g068430.3' => 'sly', 'Sopen01g046310' => 'spe', 'Sopen03g001200' => 'spe', 'Sopen04g004830' => 'spe', 'Sopen05g033720' => 'spe', 'Sopen06g030740' => 'spe', 'Sopen10g013090' => 'spe', 'Sopen10g027630' => 'spe', 'Sopen10g027640' => 'spe', 'Sopen11g002820' => 'spe', 'Sopen11g027140' => 'spe', 'Sp1g09680' => 'spa', 'Sp2g03630' => 'spa', 'Sp4g10320' => 'spa', 'Sp6g33400' => 'spa', 'Sp7g13030' => 'spa', 'TAR365G0317' => 'tar', 'TAR376G0979' => 'tar', 'TAR623G1665' => 'tar', 'TAR633G2373' => 'tar', 'TAR636G1400' => 'tar', 'THA.LOC104800529' => 'tha', 'THA.LOC104808547' => 'tha', 'THA.LOC104809615' => 'tha', 'THA.LOC104815724' => 'tha', 'THA.LOC104818480' => 'tha', 'THA.LOC104819179' => 'tha', 'THA.LOC104822270' => 'tha', 'THA.LOC104826425' => 'tha', 'Thecc.02G089700' => 'tca', 'Thecc.04G232300' => 'tca', 'Thecc.09G283400' => 'tca', 'Thhalv10009020m.g' => 'esa', 'Thhalv10015506m.g' => 'esa', 'Thhalv10017364m.g' => 'esa', 'Thhalv10023742m.g' => 'esa', 'Thhalv10026483m.g' => 'esa', 'TPR.G17232' => 'tpr', 'TPR.G2133' => 'tpr', 'TPR.G2498' => 'tpr', 'TPR.G31942' => 'tpr', 'TPR.G37877' => 'tpr', 'TPR.G4571' => 'tpr', 'TWI14G1113' => 'twi', 'TWI15G0426' => 'twi', 'TWI31G1005' => 'twi', 'TWI38G0513' => 'twi', 'TWI38G1484' => 'twi', 'TWI73G1098' => 'twi', 'unitig_26.g10519' => 'ugi', 'unitig_736.g22395' => 'ugi', 'unitig_747.g21234' => 'ugi', 'unitig_747.g21942' => 'ugi', 'vmacro14351' => 'vma', 'VMungo0540G0082' => 'vmu', 'VMungo0540G0405' => 'vmu', 'VMungo0540G1486' => 'vmu', 'VMungo0540G1692' => 'vmu', 'VMungo0720G2473' => 'vmu', 'VMungo1127G1562' => 'vmu', 'VMungo1215G1918' => 'vmu', 'Zm00001eb052650' => 'zma', 'Zm00001eb063710' => 'zma', 'Zm00001eb083950' => 'zma', 'Zm00001eb174420' => 'zma', 'Zm00001eb260140' => 'zma', 'Zm00001eb260150' => 'zma', 'Zm00001eb260160' => 'zma', 'Zm00001eb348290' => 'zma', 'Zm00001eb366870' => 'zma', 'Zm00001eb421930' => 'zma' ), 'gf_id' => 'HOM05D001025', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001025' ), 'data_identifier' => 'HOM05D001025', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001025', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '592', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p22650' => 'bna', 'A01p29720' => 'bna', 'A03p26560' => 'bna', 'A03p68820' => 'bna', 'A04p20980' => 'bna', 'A06p07730' => 'bna', 'A07p18260' => 'bna', 'A08p33710' => 'bna', 'A09p16970' => 'bna', 'A10p27490' => 'bna', 'Aa31LG1G17300' => 'aar', 'Aa31LG1G3910' => 'aar', 'Aa31LG2G9630' => 'aar', 'Aa31LG5G8360' => 'aar', 'Aa31LG9G2410' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4699' => 'aag', 'Actinidia23512' => 'ach', 'Actinidia37080' => 'ach', 'Ah.01g020380' => 'amhyb', 'Ah.08g215710' => 'amhyb', 'Ah.09g225110' => 'amhyb', 'Ah.10g036680' => 'amhyb', 'AL1G21940' => 'aly', 'AL2G15540' => 'aly', 'AL4G21520' => 'aly', 'AL7G40960' => 'aly', 'Aqoxy2G01191' => 'aox', 'Aqoxy2G03393' => 'aox', 'Aqoxy4G02775' => 'aox', 'Aqoxy6G00058' => 'aox', 'arahy.Tifrunner.gnm1.ann1.9X74H2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CW3FX9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R485W7' => 'arhy', 'AT1G10960' => 'ath', 'AT1G60950' => 'ath', 'AT2G27510' => 'ath', 'AT4G14890' => 'ath', 'AT5G10000' => 'ath', 'ATR0665G624' => 'atr', 'ATR0697G138' => 'atr', 'ATR0776G046' => 'atr', 'ATR1134G135' => 'atr', 'Atru.chr12.1025' => 'acertr', 'Atru.chr3.3241' => 'acertr', 'Atru.chr4.2460' => 'acertr', 'AUR62007427' => 'cqu', 'AUR62010960' => 'cqu', 'AUR62012201' => 'cqu', 'AUR62021470' => 'cqu', 'AUR62022834' => 'cqu', 'AUR62033635' => 'cqu', 'AUR62036186' => 'cqu', 'BcaB01g03077' => 'bca', 'BcaB02g10093' => 'bca', 'BcaB04g20295' => 'bca', 'BcaB06g28147' => 'bca', 'BcaB07g31253' => 'bca', 'BcaC01g04946' => 'bca', 'BcaC02g10614' => 'bca', 'BcaC02g10885' => 'bca', 'BcaC04g19356' => 'bca', 'BcaC04g22297' => 'bca', 'BcaC05g24977' => 'bca', 'BcaC06g31823' => 'bca', 'BcaC07g38633' => 'bca', 'BcaC09g49353' => 'bca', 'BcaC09g50168' => 'bca', 'BcaNung00322' => 'bca', 'BcaNung04769' => 'bca', 'BolC1t02753H' => 'bol', 'BolC1t03721H' => 'bol', 'BolC3t15525H' => 'bol', 'BolC4t23903H' => 'bol', 'BolC4t24231H' => 'bol', 'BolC4t27209H' => 'bol', 'BolC5t29671H' => 'bol', 'BolC8t49044H' => 'bol', 'BolC9t54999H' => 'bol', 'BolC9t59517H' => 'bol', 'BraA01t02178Z' => 'bra', 'BraA01t03099Z' => 'bra', 'BraA03t11867Z' => 'bra', 'BraA04t17667Z' => 'bra', 'BraA07t29542Z' => 'bra', 'BraA08t35287Z' => 'bra', 'BraA09t37334Z' => 'bra', 'BraA10t44801Z' => 'bra', 'BraSC39t46181Z' => 'bra', 'C01p28240' => 'bna', 'C01p37530' => 'bna', 'C03p31820' => 'bna', 'C04p24080' => 'bna', 'C04p25790' => 'bna', 'C04p56770' => 'bna', 'C05p09310' => 'bna', 'C09p21010' => 'bna', 'C09p67560' => 'bna', 'CAN.G1324.7' => 'can', 'CAN.G1358.10' => 'can', 'CAN.G1550.2' => 'can', 'CAN.G186.56' => 'can', 'CAN.G1965.1' => 'can', 'CAN.G645.15' => 'can', 'CAN.G798.26' => 'can', 'CAN.G798.27' => 'can', 'CAN.G798.29' => 'can', 'CAN.G919.31' => 'can', 'CANSAT11G0133' => 'cansat', 'CANSAT11G1171' => 'cansat', 'CANSAT11G2056' => 'cansat', 'CANSAT56G1202' => 'cansat', 'CANSAT56G1514' => 'cansat', 'CANSAT78G0455' => 'cansat', 'CARHR011190' => 'chi', 'CARHR051980' => 'chi', 'CARHR120170' => 'chi', 'CARHR203310' => 'chi', 'CARHR221490' => 'chi', 'Carub.0001s1054' => 'cru', 'Carub.0002s0431' => 'cru', 'Carub.0004s0818' => 'cru', 'Carub.0006s0846' => 'cru', 'Carub.0007s2722' => 'cru', 'Ca_00058_v3' => 'car', 'Ca_17831_v3' => 'car', 'Ca_19408_v3' => 'car', 'Ca_24397_v3' => 'car', 'Ca_25664_v3' => 'car', 'CBR_g21818' => 'cbr', 'CBR_g31195' => 'cbr', 'CBR_g32282' => 'cbr', 'CBR_g39599' => 'cbr', 'CBR_g49410' => 'cbr', 'Cc01_g09120' => 'ccan', 'Cc01_g09130' => 'ccan', 'Cc02_g09630' => 'ccan', 'Cc02_g22810' => 'ccan', 'Cc03_g03810' => 'ccan', 'CDE02G3718' => 'cde', 'CDE04G3183' => 'cde', 'CDE07G1046' => 'cde', 'CDE08G0480' => 'cde', 'Cfa005493' => 'cfa', 'Cfa010312' => 'cfa', 'Cfa015648' => 'cfa', 'Ciclev10002793m.g' => 'ccl', 'Ciclev10003356m.g' => 'ccl', 'Ciclev10006141m.g' => 'ccl', 'Ciclev10016676m.g' => 'ccl', 'Ciclev10017081m.g' => 'ccl', 'Ciclev10029499m.g' => 'ccl', 'CiPaw.01G166300' => 'cil', 'CiPaw.06G145600' => 'cil', 'CiPaw.13G040100' => 'cil', 'CiPaw.13G135800' => 'cil', 'ClCG01G012230' => 'cla', 'ClCG05G009510' => 'cla', 'ClCG08G008270' => 'cla', 'COL.COLO4_11763' => 'col', 'COL.COLO4_19876' => 'col', 'COL.COLO4_21481' => 'col', 'Cpa.g.sc118.34' => 'cpa', 'Cpa.g.sc32.13' => 'cpa', 'Cpa.g.sc58.103' => 'cpa', 'Cre03.g183850' => 'cre', 'Cre06.g306350' => 'cre', 'Cre07.g334800' => 'cre', 'Cre12.g487900' => 'cre', 'Cre14.g626700' => 'cre', 'Cre16.g658400' => 'cre', 'Cre17.g700950' => 'cre', 'CsaV3_1G014830' => 'csa', 'CsaV3_3G013320' => 'csa', 'CsaV3_3G019210' => 'csa', 'CsaV3_3G019220' => 'csa', 'CsaV3_6G004230' => 'csa', 'CSS0003773' => 'camsi', 'CSS0004563' => 'camsi', 'CSS0013949' => 'camsi', 'CSS0025971' => 'camsi', 'CSS0028570' => 'camsi', 'CSS0033127' => 'camsi', 'CSS0036051' => 'camsi', 'CSS0040087' => 'camsi', 'CSS0043179' => 'camsi', 'DCAR_006161' => 'dca', 'DCAR_010351' => 'dca', 'DCAR_012197' => 'dca', 'DCAR_024162' => 'dca', 'Dinv01030' => 'din', 'Dinv10924' => 'din', 'Dinv11835' => 'din', 'Dinv22841' => 'din', 'Dinv42553' => 'din', 'Duzib052G0560' => 'dzi', 'Duzib132G0389' => 'dzi', 'Duzib150G1181' => 'dzi', 'Duzib168G0623' => 'dzi', 'Duzib170G1036' => 'dzi', 'Duzib212G0200' => 'dzi', 'Duzib248G0194' => 'dzi', 'ECA232G2193' => 'eca', 'ECA233G0302' => 'eca', 'ECA234G2813' => 'eca', 'ECA234G4866' => 'eca', 'ECA240G3932' => 'eca', 'ECA248G0385' => 'eca', 'EL10Ac2g04781' => 'bvu', 'EL10Ac3g06445' => 'bvu', 'EL10Ac7g15825' => 'bvu', 'EL10Ac8g18550' => 'bvu', 'Eucgr.B03849' => 'egr', 'Eucgr.I02744' => 'egr', 'Eucgr.J00264' => 'egr', 'Eucgr.J00493' => 'egr', 'FAN04G2181' => 'fan', 'FAN07G2666' => 'fan', 'FAN11G0024' => 'fan', 'FAN12G1105' => 'fan', 'FAN13G0302' => 'fan', 'FAN15G2781' => 'fan', 'FAN16G1274' => 'fan', 'FAN17G2988' => 'fan', 'FAN18G2621' => 'fan', 'FAN21G0013' => 'fan', 'FAN22G1211' => 'fan', 'FAN25G3626' => 'fan', 'FvH4_2g09491' => 'fve', 'FvH4_3g24910' => 'fve', 'FvH4_4g15630' => 'fve', 'FvH4_5g28820' => 'fve', 'Glyma.01G238000' => 'gma', 'Glyma.05G168400' => 'gma', 'Glyma.08G126800' => 'gma', 'Glyma.08G188500' => 'gma', 'Glyma.10G278900' => 'gma', 'Glyma.11G005700' => 'gma', 'Glyma.11G183300' => 'gma', 'Glyma.12G089200' => 'gma', 'Glyma.12G169400' => 'gma', 'Glyma.12G169500' => 'gma', 'Glyma.12G169600' => 'gma', 'Glyma.20G110800' => 'gma', 'Gohir.A03G192900' => 'ghi', 'Gohir.A03G193000' => 'ghi', 'Gohir.A05G080700' => 'ghi', 'Gohir.A09G216000' => 'ghi', 'Gohir.A12G027700' => 'ghi', 'Gohir.A13G036200' => 'ghi', 'Gohir.A13G222600' => 'ghi', 'Gohir.D02G213900' => 'ghi', 'Gohir.D02G214000' => 'ghi', 'Gohir.D05G083700' => 'ghi', 'Gohir.D05G083800' => 'ghi', 'Gohir.D05G083850' => 'ghi', 'Gohir.D08G015400' => 'ghi', 'Gohir.D09G218400' => 'ghi', 'Gohir.D12G027100' => 'ghi', 'Gohir.D13G034500' => 'ghi', 'Gohir.D13G227400' => 'ghi', 'Gorai.005G241800' => 'gra', 'Gorai.005G241900' => 'gra', 'Gorai.006G239400' => 'gra', 'Gorai.008G027600' => 'gra', 'Gorai.009G085400' => 'gra', 'Gorai.009G085500' => 'gra', 'Gorai.013G039000' => 'gra', 'Gorai.013G194800' => 'gra', 'Gorai.013G257900' => 'gra', 'GSVIVG01000982001' => 'vvi', 'GSVIVG01017981001' => 'vvi', 'HanXRQChr01g0024061' => 'han', 'HanXRQChr09g0247831' => 'han', 'HanXRQChr10g0294611' => 'han', 'HanXRQChr10g0294621' => 'han', 'HanXRQChr11g0346821' => 'han', 'HanXRQChr13g0397461' => 'han', 'HanXRQChr16g0513651' => 'han', 'HanXRQChr16g0513701' => 'han', 'Haze_00897' => 'cav', 'Haze_01745' => 'cav', 'Haze_02486' => 'cav', 'Haze_02487' => 'cav', 'Haze_23374' => 'cav', 'Hma1.2p1_0578F.1_g182520' => 'hma', 'Hma1.2p1_0602F.1_g187350' => 'hma', 'Hma1.2p1_0602F.1_g187360' => 'hma', 'Hma1.2p1_0874F.1_g231320' => 'hma', 'Hma1.2p1_1197F.1_g266210' => 'hma', 'Hma1.2p1_1197F.1_g266220' => 'hma', 'Hma1.2p1_2167F.1_g315895' => 'hma', 'Hma1.2p1_2190F.1_g316640' => 'hma', 'Hma1.2p1_3645F.1_g337153' => 'hma', 'HPP92_004907' => 'vpl', 'HPP92_012134' => 'vpl', 'HPP92_025136' => 'vpl', 'HPP92_026087' => 'vpl', 'Hund06782' => 'sun', 'Hund06784' => 'sun', 'Lalb_Chr01g0004861' => 'lal', 'Lalb_Chr02g0140591' => 'lal', 'Lalb_Chr02g0140611' => 'lal', 'Lalb_Chr03g0028101' => 'lal', 'Lalb_Chr07g0185791' => 'lal', 'Lalb_Chr12g0204491' => 'lal', 'Lalb_Chr13g0295671' => 'lal', 'Lalb_Chr19g0136461' => 'lal', 'Lalb_Chr21g0309191' => 'lal', 'Lj1g0028158' => 'lja', 'Lj1P236T38' => 'lonja', 'Lj2C32G2' => 'lonja', 'Lj2P944T8' => 'lonja', 'Lj2P963T15' => 'lonja', 'Lj3g0011788' => 'lja', 'Lj4g0025027' => 'lja', 'Lj5P255T36' => 'lonja', 'Lj6g0018866' => 'lja', 'Lj6P608T31' => 'lonja', 'LjContig00408g0008879' => 'lja', 'Lsat_1_v5_gn_5_105820' => 'lsa', 'Lsat_1_v5_gn_6_38800' => 'lsa', 'Lsat_1_v5_gn_7_67141' => 'lsa', 'Manes.04G003400' => 'mes', 'Manes.07G020000' => 'mes', 'Manes.07G020100' => 'mes', 'Manes.07G020150' => 'mes', 'Manes.10G061500' => 'mes', 'Manes.10G123200' => 'mes', 'Manes.11G161900' => 'mes', 'Manes.15G029300' => 'mes', 'Mapoly0071s0018' => 'mpo', 'Mapoly0082s0023' => 'mpo', 'Mapoly3477s0001' => 'mpo', 'MBI05_g31233_MAGBIO' => 'mbi', 'MBI09_g05946_MAGBIO' => 'mbi', 'MBI09_g05947_MAGBIO' => 'mbi', 'MBI17_g08346_MAGBIO' => 'mbi', 'MCO04G038' => 'mco', 'MCO09G370' => 'mco', 'MCO13G605' => 'mco', 'MD00G1075500' => 'mdo', 'MD03G1144300' => 'mdo', 'MD08G1236800' => 'mdo', 'MD13G1193300' => 'mdo', 'MD15G1428700' => 'mdo', 'Medtr1g112030' => 'mtr', 'Medtr1g112050' => 'mtr', 'Medtr2g006290' => 'mtr', 'Medtr2g086510' => 'mtr', 'Medtr4g053120' => 'mtr', 'Medtr5g006320' => 'mtr', 'Medtr8g088720' => 'mtr', 'MELO3C004712.2' => 'cme', 'MELO3C006533.2' => 'cme', 'MELO3C019438.2' => 'cme', 'MELO3C019440.2' => 'cme', 'MELO3C019441.2' => 'cme', 'MELO3C019895.2' => 'cme', 'Migut.B00811' => 'egut', 'Migut.D02447' => 'egut', 'Migut.F00875' => 'egut', 'Migut.N00186' => 'egut', 'Migut.N01051' => 'egut', 'Migut.N02491' => 'egut', 'Migut.O00784' => 'egut', 'MSTRG.12367' => 'ama', 'MSTRG.18756' => 'ama', 'MSTRG.21042' => 'ama', 'Nitab4.5_0000559g0040' => 'nta', 'Nitab4.5_0000667g0190' => 'nta', 'Nitab4.5_0000755g0160' => 'nta', 'Nitab4.5_0001216g0080' => 'nta', 'Nitab4.5_0004069g0040' => 'nta', 'Nitab4.5_0004129g0010' => 'nta', 'Nitab4.5_0005744g0030' => 'nta', 'Nitab4.5_0006996g0030' => 'nta', 'Nitab4.5_0008971g0040' => 'nta', 'Nitab4.5_0009769g0020' => 'nta', 'Nitab4.5_0009833g0010' => 'nta', 'Nitab4.5_0013140g0020' => 'nta', 'Nn003s41376' => 'nnu', 'Nn1g01857' => 'nnu', 'Nn1g03611' => 'nnu', 'Nn1g06853' => 'nnu', 'Nn3g18360' => 'nnu', 'Nn4g26328' => 'nnu', 'Nn5g27531' => 'nnu', 'Nn6g34899' => 'nnu', 'Nn7g36299' => 'nnu', 'Oeu021485.1' => 'oeu', 'Oeu022433.1' => 'oeu', 'Oeu032111.1' => 'oeu', 'Oeu051608.1' => 'oeu', 'Os01g0860601' => 'osa', 'Os03g0659200' => 'osa', 'Os03g0835900' => 'osa', 'Os04g0412200' => 'osa', 'Os05g0443500' => 'osa', 'Os07g0251500' => 'osa', 'Os08g0104600' => 'osa', 'Peaxi162Scf00003g00047' => 'pax', 'Peaxi162Scf00003g00052' => 'pax', 'Peaxi162Scf00003g00394' => 'pax', 'Peaxi162Scf00091g00621' => 'pax', 'Peaxi162Scf00152g00146' => 'pax', 'Peaxi162Scf00173g00025' => 'pax', 'Peaxi162Scf00195g00102' => 'pax', 'Peaxi162Scf00402g00013' => 'pax', 'Peaxi162Scf00519g00618' => 'pax', 'PGR004G2838' => 'pgr', 'PGR044G2275' => 'pgr', 'PGR102G1377' => 'pgr', 'PGR119G1245' => 'pgr', 'PGR142G4449' => 'pgr', 'PGSC0003DMG400004532' => 'stu', 'PGSC0003DMG400011950' => 'stu', 'PGSC0003DMG400023391' => 'stu', 'PGSC0003DMG400023985' => 'stu', 'PGSC0003DMG400026360' => 'stu', 'PGSC0003DMG400035711' => 'stu', 'PGSC0003DMG400037286' => 'stu', 'PGSC0003DMG402005881' => 'stu', 'Phvul.002G045400' => 'pvu', 'Phvul.006G216600' => 'pvu', 'Phvul.006G216700' => 'pvu', 'Phvul.006G216800' => 'pvu', 'Phvul.007G022500' => 'pvu', 'Phvul.011G094400' => 'pvu', 'Potri.001G470700' => 'ptr', 'Potri.003G015200' => 'ptr', 'Potri.004G202500' => 'ptr', 'Potri.004G218400' => 'ptr', 'Potri.008G020100' => 'ptr', 'Potri.008G153200' => 'ptr', 'Potri.009G163800' => 'ptr', 'Potri.010G087300' => 'ptr', 'Potri.010G239100' => 'ptr', 'Pp3c10_16100' => 'ppa', 'Pp3c10_16880' => 'ppa', 'Pp3c16_6230' => 'ppa', 'Pp3c17_18910' => 'ppa', 'Pp3c3_22119' => 'ppa', 'Pp3c3_22140' => 'ppa', 'Pp3c4_8159' => 'ppa', 'Pp3c4_8171' => 'ppa', 'Pp3c4_8330' => 'ppa', 'PRCOL_00004098' => 'pco', 'Prupe.1G013900' => 'ppe', 'Prupe.1G226300' => 'ppe', 'Prupe.1G573600' => 'ppe', 'Prupe.6G130100' => 'ppe', 'Psat3g090040' => 'psa', 'Psat4g210440' => 'psa', 'Psat6g231040' => 'psa', 'Psat6g231080' => 'psa', 'Psat7g063000' => 'psa', 'Psat7g188000' => 'psa', 'Psat7g188040' => 'psa', 'PSO017G0206' => 'pso', 'PSO170G0501' => 'pso', 'PSO170G6422' => 'pso', 'PSO210G7739' => 'pso', 'PSO339G1808' => 'pso', 'PSO339G6135' => 'pso', 'PSO384G0010' => 'pso', 'PSO384G0964' => 'pso', 'PSO761G0050' => 'pso', 'PSO782G4085' => 'pso', 'QL01p012264' => 'qlo', 'QL02p099491' => 'qlo', 'QL03p033868' => 'qlo', 'QL04p046678' => 'qlo', 'QL06p002448' => 'qlo', 'RcHm_v2.0_Chr4g0416181' => 'rch', 'RcHm_v2.0_Chr5g0044701' => 'rch', 'RcHm_v2.0_Chr6g0265781' => 'rch', 'RcHm_v2.0_Chr7g0221031' => 'rch', 'Rhsim04G0202000' => 'rsi', 'Rhsim11G0127300' => 'rsi', 'Rhsim13G0111800' => 'rsi', 'Sabra01G0165600' => 'sbr', 'Sabra03G0008300' => 'sbr', 'Sabra04G0136900' => 'sbr', 'Sabra08G0013400' => 'sbr', 'Sabra08G0116800' => 'sbr', 'Sabra09G0128000' => 'sbr', 'Sabra10G0055500' => 'sbr', 'Sabra10G0073300' => 'sbr', 'SalBow3G0385' => 'sbo', 'SalBow3G1119' => 'sbo', 'SalBow3G2005' => 'sbo', 'SalBow6G2563' => 'sbo', 'SalBow6G6386' => 'sbo', 'Sc06g0008800' => 'sci', 'Sc07g0004950' => 'sci', 'Sc09g0005340' => 'sci', 'Sc13g0004410' => 'sci', 'Sc21g0007090' => 'sci', 'Sed0009285' => 'sed', 'Sed0017583' => 'sed', 'Sed0019699' => 'sed', 'Sed0023107' => 'sed', 'SEGI_10916' => 'sgi', 'SEGI_16217' => 'sgi', 'SEGI_19466' => 'sgi', 'SEGI_41115' => 'sgi', 'SGA_v2.0_scaffold111G31534' => 'sas', 'SGA_v2.0_scaffold22G09864' => 'sas', 'SGA_v2.0_scaffold338G49219' => 'sas', 'SGA_v2.0_scaffold92G28298' => 'sas', 'SMO119G0064' => 'smo', 'SMO223G0038' => 'smo', 'SMO347G0584' => 'smo', 'SMO351G0010' => 'smo', 'SMO356G0404' => 'smo', 'Solyc01g103920.3' => 'sly', 'Solyc04g009710.2' => 'sly', 'Solyc05g055280.2' => 'sly', 'Solyc10g044520.3' => 'sly', 'Solyc10g075160.1' => 'sly', 'Solyc11g006910.3' => 'sly', 'Solyc11g068430.3' => 'sly', 'Sopen01g046310' => 'spe', 'Sopen03g001200' => 'spe', 'Sopen04g004830' => 'spe', 'Sopen05g033720' => 'spe', 'Sopen06g030740' => 'spe', 'Sopen10g013090' => 'spe', 'Sopen10g027630' => 'spe', 'Sopen10g027640' => 'spe', 'Sopen11g002820' => 'spe', 'Sopen11g027140' => 'spe', 'Sp1g09680' => 'spa', 'Sp2g03630' => 'spa', 'Sp4g10320' => 'spa', 'Sp6g33400' => 'spa', 'Sp7g13030' => 'spa', 'TAR365G0317' => 'tar', 'TAR376G0979' => 'tar', 'TAR623G1665' => 'tar', 'TAR633G2373' => 'tar', 'TAR636G1400' => 'tar', 'THA.LOC104800529' => 'tha', 'THA.LOC104808547' => 'tha', 'THA.LOC104809615' => 'tha', 'THA.LOC104815724' => 'tha', 'THA.LOC104818480' => 'tha', 'THA.LOC104819179' => 'tha', 'THA.LOC104822270' => 'tha', 'THA.LOC104826425' => 'tha', 'Thecc.02G089700' => 'tca', 'Thecc.04G232300' => 'tca', 'Thecc.09G283400' => 'tca', 'Thhalv10009020m.g' => 'esa', 'Thhalv10015506m.g' => 'esa', 'Thhalv10017364m.g' => 'esa', 'Thhalv10023742m.g' => 'esa', 'Thhalv10026483m.g' => 'esa', 'TPR.G17232' => 'tpr', 'TPR.G2133' => 'tpr', 'TPR.G2498' => 'tpr', 'TPR.G31942' => 'tpr', 'TPR.G37877' => 'tpr', 'TPR.G4571' => 'tpr', 'TWI14G1113' => 'twi', 'TWI15G0426' => 'twi', 'TWI31G1005' => 'twi', 'TWI38G0513' => 'twi', 'TWI38G1484' => 'twi', 'TWI73G1098' => 'twi', 'unitig_26.g10519' => 'ugi', 'unitig_736.g22395' => 'ugi', 'unitig_747.g21234' => 'ugi', 'unitig_747.g21942' => 'ugi', 'vmacro14351' => 'vma', 'VMungo0540G0082' => 'vmu', 'VMungo0540G0405' => 'vmu', 'VMungo0540G1486' => 'vmu', 'VMungo0540G1692' => 'vmu', 'VMungo0720G2473' => 'vmu', 'VMungo1127G1562' => 'vmu', 'VMungo1215G1918' => 'vmu', 'Zm00001eb052650' => 'zma', 'Zm00001eb063710' => 'zma', 'Zm00001eb083950' => 'zma', 'Zm00001eb174420' => 'zma', 'Zm00001eb260140' => 'zma', 'Zm00001eb260150' => 'zma', 'Zm00001eb260160' => 'zma', 'Zm00001eb348290' => 'zma', 'Zm00001eb366870' => 'zma', 'Zm00001eb421930' => 'zma' ) $gf_id = 'HOM05D001025' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001025' ) $data_identifier = 'HOM05D001025' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 19, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 2, 'amhyb' => (int) 4, 'aly' => (int) 4, 'aox' => (int) 4, 'arhy' => (int) 3, 'ath' => (int) 5, 'atr' => (int) 4, 'acertr' => (int) 3, 'cqu' => (int) 7, 'bca' => (int) 17, 'bol' => (int) 10, 'bra' => (int) 9, 'can' => (int) 10, 'cansat' => (int) 6, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 5, 'cbr' => (int) 5, 'ccan' => (int) 5, 'cde' => (int) 4, 'cfa' => (int) 3, 'ccl' => (int) 6, 'cil' => (int) 4, 'cla' => (int) 3, 'col' => (int) 3, 'cpa' => (int) 3, 'cre' => (int) 7, 'csa' => (int) 5, 'camsi' => (int) 9, 'dca' => (int) 4, 'din' => (int) 5, 'dzi' => (int) 7, 'eca' => (int) 6, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 12, 'fve' => (int) 4, 'gma' => (int) 12, 'ghi' => (int) 17, 'gra' => (int) 9, 'vvi' => (int) 2, 'han' => (int) 8, 'cav' => (int) 5, 'hma' => (int) 9, 'vpl' => (int) 4, 'sun' => (int) 2, 'lal' => (int) 9, 'lja' => (int) 5, 'lonja' => (int) 6, 'lsa' => (int) 3, 'mes' => (int) 8, 'mpo' => (int) 3, 'mbi' => (int) 4, 'mco' => (int) 3, 'mdo' => (int) 5, 'mtr' => (int) 7, 'cme' => (int) 6, 'egut' => (int) 7, 'ama' => (int) 3, 'nta' => (int) 12, 'nnu' => (int) 9, 'oeu' => (int) 4, 'osa' => (int) 7, 'pax' => (int) 9, 'pgr' => (int) 5, 'stu' => (int) 8, 'pvu' => (int) 6, 'ptr' => (int) 9, 'ppa' => (int) 9, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 7, 'pso' => (int) 10, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 3, 'sbr' => (int) 8, 'sbo' => (int) 5, 'sci' => (int) 5, 'sed' => (int) 4, 'sgi' => (int) 4, 'sas' => (int) 4, 'smo' => (int) 5, 'sly' => (int) 7, 'spe' => (int) 10, 'spa' => (int) 5, 'tar' => (int) 5, 'tha' => (int) 8, 'tca' => (int) 3, 'esa' => (int) 5, 'tpr' => (int) 6, 'twi' => (int) 6, 'ugi' => (int) 4, 'vma' => (int) 1, 'vmu' => (int) 7, 'zma' => (int) 10 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb421930' $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' => 'HOM05D001025', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '592', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p22650' => 'bna', 'A01p29720' => 'bna', 'A03p26560' => 'bna', 'A03p68820' => 'bna', 'A04p20980' => 'bna', 'A06p07730' => 'bna', 'A07p18260' => 'bna', 'A08p33710' => 'bna', 'A09p16970' => 'bna', 'A10p27490' => 'bna', 'Aa31LG1G17300' => 'aar', 'Aa31LG1G3910' => 'aar', 'Aa31LG2G9630' => 'aar', 'Aa31LG5G8360' => 'aar', 'Aa31LG9G2410' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4699' => 'aag', 'Actinidia23512' => 'ach', 'Actinidia37080' => 'ach', 'Ah.01g020380' => 'amhyb', 'Ah.08g215710' => 'amhyb', 'Ah.09g225110' => 'amhyb', 'Ah.10g036680' => 'amhyb', 'AL1G21940' => 'aly', 'AL2G15540' => 'aly', 'AL4G21520' => 'aly', 'AL7G40960' => 'aly', 'Aqoxy2G01191' => 'aox', 'Aqoxy2G03393' => 'aox', 'Aqoxy4G02775' => 'aox', 'Aqoxy6G00058' => 'aox', 'arahy.Tifrunner.gnm1.ann1.9X74H2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CW3FX9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R485W7' => 'arhy', 'AT1G10960' => 'ath', 'AT1G60950' => 'ath', 'AT2G27510' => 'ath', 'AT4G14890' => 'ath', 'AT5G10000' => 'ath', 'ATR0665G624' => 'atr', 'ATR0697G138' => 'atr', 'ATR0776G046' => 'atr', 'ATR1134G135' => 'atr', 'Atru.chr12.1025' => 'acertr', 'Atru.chr3.3241' => 'acertr', 'Atru.chr4.2460' => 'acertr', 'AUR62007427' => 'cqu', 'AUR62010960' => 'cqu', 'AUR62012201' => 'cqu', 'AUR62021470' => 'cqu', 'AUR62022834' => 'cqu', 'AUR62033635' => 'cqu', 'AUR62036186' => 'cqu', 'BcaB01g03077' => 'bca', 'BcaB02g10093' => 'bca', 'BcaB04g20295' => 'bca', 'BcaB06g28147' => 'bca', 'BcaB07g31253' => 'bca', 'BcaC01g04946' => 'bca', 'BcaC02g10614' => 'bca', 'BcaC02g10885' => 'bca', 'BcaC04g19356' => 'bca', 'BcaC04g22297' => 'bca', 'BcaC05g24977' => 'bca', 'BcaC06g31823' => 'bca', 'BcaC07g38633' => 'bca', 'BcaC09g49353' => 'bca', 'BcaC09g50168' => 'bca', 'BcaNung00322' => 'bca', 'BcaNung04769' => 'bca', 'BolC1t02753H' => 'bol', 'BolC1t03721H' => 'bol', 'BolC3t15525H' => 'bol', 'BolC4t23903H' => 'bol', 'BolC4t24231H' => 'bol', 'BolC4t27209H' => 'bol', 'BolC5t29671H' => 'bol', 'BolC8t49044H' => 'bol', 'BolC9t54999H' => 'bol', 'BolC9t59517H' => 'bol', 'BraA01t02178Z' => 'bra', 'BraA01t03099Z' => 'bra', 'BraA03t11867Z' => 'bra', 'BraA04t17667Z' => 'bra', 'BraA07t29542Z' => 'bra', 'BraA08t35287Z' => 'bra', 'BraA09t37334Z' => 'bra', 'BraA10t44801Z' => 'bra', 'BraSC39t46181Z' => 'bra', 'C01p28240' => 'bna', 'C01p37530' => 'bna', 'C03p31820' => 'bna', 'C04p24080' => 'bna', 'C04p25790' => 'bna', 'C04p56770' => 'bna', 'C05p09310' => 'bna', 'C09p21010' => 'bna', 'C09p67560' => 'bna', 'CAN.G1324.7' => 'can', 'CAN.G1358.10' => 'can', 'CAN.G1550.2' => 'can', 'CAN.G186.56' => 'can', 'CAN.G1965.1' => 'can', 'CAN.G645.15' => 'can', 'CAN.G798.26' => 'can', 'CAN.G798.27' => 'can', 'CAN.G798.29' => 'can', 'CAN.G919.31' => 'can', 'CANSAT11G0133' => 'cansat', 'CANSAT11G1171' => 'cansat', 'CANSAT11G2056' => 'cansat', 'CANSAT56G1202' => 'cansat', 'CANSAT56G1514' => 'cansat', 'CANSAT78G0455' => 'cansat', 'CARHR011190' => 'chi', 'CARHR051980' => 'chi', 'CARHR120170' => 'chi', 'CARHR203310' => 'chi', 'CARHR221490' => 'chi', 'Carub.0001s1054' => 'cru', 'Carub.0002s0431' => 'cru', 'Carub.0004s0818' => 'cru', 'Carub.0006s0846' => 'cru', 'Carub.0007s2722' => 'cru', 'Ca_00058_v3' => 'car', 'Ca_17831_v3' => 'car', 'Ca_19408_v3' => 'car', 'Ca_24397_v3' => 'car', 'Ca_25664_v3' => 'car', 'CBR_g21818' => 'cbr', 'CBR_g31195' => 'cbr', 'CBR_g32282' => 'cbr', 'CBR_g39599' => 'cbr', 'CBR_g49410' => 'cbr', 'Cc01_g09120' => 'ccan', 'Cc01_g09130' => 'ccan', 'Cc02_g09630' => 'ccan', 'Cc02_g22810' => 'ccan', 'Cc03_g03810' => 'ccan', 'CDE02G3718' => 'cde', 'CDE04G3183' => 'cde', 'CDE07G1046' => 'cde', 'CDE08G0480' => 'cde', 'Cfa005493' => 'cfa', 'Cfa010312' => 'cfa', 'Cfa015648' => 'cfa', 'Ciclev10002793m.g' => 'ccl', 'Ciclev10003356m.g' => 'ccl', 'Ciclev10006141m.g' => 'ccl', 'Ciclev10016676m.g' => 'ccl', 'Ciclev10017081m.g' => 'ccl', 'Ciclev10029499m.g' => 'ccl', 'CiPaw.01G166300' => 'cil', 'CiPaw.06G145600' => 'cil', 'CiPaw.13G040100' => 'cil', 'CiPaw.13G135800' => 'cil', 'ClCG01G012230' => 'cla', 'ClCG05G009510' => 'cla', 'ClCG08G008270' => 'cla', 'COL.COLO4_11763' => 'col', 'COL.COLO4_19876' => 'col', 'COL.COLO4_21481' => 'col', 'Cpa.g.sc118.34' => 'cpa', 'Cpa.g.sc32.13' => 'cpa', 'Cpa.g.sc58.103' => 'cpa', 'Cre03.g183850' => 'cre', 'Cre06.g306350' => 'cre', 'Cre07.g334800' => 'cre', 'Cre12.g487900' => 'cre', 'Cre14.g626700' => 'cre', 'Cre16.g658400' => 'cre', 'Cre17.g700950' => 'cre', 'CsaV3_1G014830' => 'csa', 'CsaV3_3G013320' => 'csa', 'CsaV3_3G019210' => 'csa', 'CsaV3_3G019220' => 'csa', 'CsaV3_6G004230' => 'csa', 'CSS0003773' => 'camsi', 'CSS0004563' => 'camsi', 'CSS0013949' => 'camsi', 'CSS0025971' => 'camsi', 'CSS0028570' => 'camsi', 'CSS0033127' => 'camsi', 'CSS0036051' => 'camsi', 'CSS0040087' => 'camsi', 'CSS0043179' => 'camsi', 'DCAR_006161' => 'dca', 'DCAR_010351' => 'dca', 'DCAR_012197' => 'dca', 'DCAR_024162' => 'dca', 'Dinv01030' => 'din', 'Dinv10924' => 'din', 'Dinv11835' => 'din', 'Dinv22841' => 'din', 'Dinv42553' => 'din', 'Duzib052G0560' => 'dzi', 'Duzib132G0389' => 'dzi', 'Duzib150G1181' => 'dzi', 'Duzib168G0623' => 'dzi', 'Duzib170G1036' => 'dzi', 'Duzib212G0200' => 'dzi', 'Duzib248G0194' => 'dzi', 'ECA232G2193' => 'eca', 'ECA233G0302' => 'eca', 'ECA234G2813' => 'eca', 'ECA234G4866' => 'eca', 'ECA240G3932' => 'eca', 'ECA248G0385' => 'eca', 'EL10Ac2g04781' => 'bvu', 'EL10Ac3g06445' => 'bvu', 'EL10Ac7g15825' => 'bvu', 'EL10Ac8g18550' => 'bvu', 'Eucgr.B03849' => 'egr', 'Eucgr.I02744' => 'egr', 'Eucgr.J00264' => 'egr', 'Eucgr.J00493' => 'egr', 'FAN04G2181' => 'fan', 'FAN07G2666' => 'fan', 'FAN11G0024' => 'fan', 'FAN12G1105' => 'fan', 'FAN13G0302' => 'fan', 'FAN15G2781' => 'fan', 'FAN16G1274' => 'fan', 'FAN17G2988' => 'fan', 'FAN18G2621' => 'fan', 'FAN21G0013' => 'fan', 'FAN22G1211' => 'fan', 'FAN25G3626' => 'fan', 'FvH4_2g09491' => 'fve', 'FvH4_3g24910' => 'fve', 'FvH4_4g15630' => 'fve', 'FvH4_5g28820' => 'fve', 'Glyma.01G238000' => 'gma', 'Glyma.05G168400' => 'gma', 'Glyma.08G126800' => 'gma', 'Glyma.08G188500' => 'gma', 'Glyma.10G278900' => 'gma', 'Glyma.11G005700' => 'gma', 'Glyma.11G183300' => 'gma', 'Glyma.12G089200' => 'gma', 'Glyma.12G169400' => 'gma', 'Glyma.12G169500' => 'gma', 'Glyma.12G169600' => 'gma', 'Glyma.20G110800' => 'gma', 'Gohir.A03G192900' => 'ghi', 'Gohir.A03G193000' => 'ghi', 'Gohir.A05G080700' => 'ghi', 'Gohir.A09G216000' => 'ghi', 'Gohir.A12G027700' => 'ghi', 'Gohir.A13G036200' => 'ghi', 'Gohir.A13G222600' => 'ghi', 'Gohir.D02G213900' => 'ghi', 'Gohir.D02G214000' => 'ghi', 'Gohir.D05G083700' => 'ghi', 'Gohir.D05G083800' => 'ghi', 'Gohir.D05G083850' => 'ghi', 'Gohir.D08G015400' => 'ghi', 'Gohir.D09G218400' => 'ghi', 'Gohir.D12G027100' => 'ghi', 'Gohir.D13G034500' => 'ghi', 'Gohir.D13G227400' => 'ghi', 'Gorai.005G241800' => 'gra', 'Gorai.005G241900' => 'gra', 'Gorai.006G239400' => 'gra', 'Gorai.008G027600' => 'gra', 'Gorai.009G085400' => 'gra', 'Gorai.009G085500' => 'gra', 'Gorai.013G039000' => 'gra', 'Gorai.013G194800' => 'gra', 'Gorai.013G257900' => 'gra', 'GSVIVG01000982001' => 'vvi', 'GSVIVG01017981001' => 'vvi', 'HanXRQChr01g0024061' => 'han', 'HanXRQChr09g0247831' => 'han', 'HanXRQChr10g0294611' => 'han', 'HanXRQChr10g0294621' => 'han', 'HanXRQChr11g0346821' => 'han', 'HanXRQChr13g0397461' => 'han', 'HanXRQChr16g0513651' => 'han', 'HanXRQChr16g0513701' => 'han', 'Haze_00897' => 'cav', 'Haze_01745' => 'cav', 'Haze_02486' => 'cav', 'Haze_02487' => 'cav', 'Haze_23374' => 'cav', 'Hma1.2p1_0578F.1_g182520' => 'hma', 'Hma1.2p1_0602F.1_g187350' => 'hma', 'Hma1.2p1_0602F.1_g187360' => 'hma', 'Hma1.2p1_0874F.1_g231320' => 'hma', 'Hma1.2p1_1197F.1_g266210' => 'hma', 'Hma1.2p1_1197F.1_g266220' => 'hma', 'Hma1.2p1_2167F.1_g315895' => 'hma', 'Hma1.2p1_2190F.1_g316640' => 'hma', 'Hma1.2p1_3645F.1_g337153' => 'hma', 'HPP92_004907' => 'vpl', 'HPP92_012134' => 'vpl', 'HPP92_025136' => 'vpl', 'HPP92_026087' => 'vpl', 'Hund06782' => 'sun', 'Hund06784' => 'sun', 'Lalb_Chr01g0004861' => 'lal', 'Lalb_Chr02g0140591' => 'lal', 'Lalb_Chr02g0140611' => 'lal', 'Lalb_Chr03g0028101' => 'lal', 'Lalb_Chr07g0185791' => 'lal', 'Lalb_Chr12g0204491' => 'lal', 'Lalb_Chr13g0295671' => 'lal', 'Lalb_Chr19g0136461' => 'lal', 'Lalb_Chr21g0309191' => 'lal', 'Lj1g0028158' => 'lja', 'Lj1P236T38' => 'lonja', 'Lj2C32G2' => 'lonja', 'Lj2P944T8' => 'lonja', 'Lj2P963T15' => 'lonja', 'Lj3g0011788' => 'lja', 'Lj4g0025027' => 'lja', 'Lj5P255T36' => 'lonja', 'Lj6g0018866' => 'lja', 'Lj6P608T31' => 'lonja', 'LjContig00408g0008879' => 'lja', 'Lsat_1_v5_gn_5_105820' => 'lsa', 'Lsat_1_v5_gn_6_38800' => 'lsa', 'Lsat_1_v5_gn_7_67141' => 'lsa', 'Manes.04G003400' => 'mes', 'Manes.07G020000' => 'mes', 'Manes.07G020100' => 'mes', 'Manes.07G020150' => 'mes', 'Manes.10G061500' => 'mes', 'Manes.10G123200' => 'mes', 'Manes.11G161900' => 'mes', 'Manes.15G029300' => 'mes', 'Mapoly0071s0018' => 'mpo', 'Mapoly0082s0023' => 'mpo', 'Mapoly3477s0001' => 'mpo', 'MBI05_g31233_MAGBIO' => 'mbi', 'MBI09_g05946_MAGBIO' => 'mbi', 'MBI09_g05947_MAGBIO' => 'mbi', 'MBI17_g08346_MAGBIO' => 'mbi', 'MCO04G038' => 'mco', 'MCO09G370' => 'mco', 'MCO13G605' => 'mco', 'MD00G1075500' => 'mdo', 'MD03G1144300' => 'mdo', 'MD08G1236800' => 'mdo', 'MD13G1193300' => 'mdo', 'MD15G1428700' => 'mdo', 'Medtr1g112030' => 'mtr', 'Medtr1g112050' => 'mtr', 'Medtr2g006290' => 'mtr', 'Medtr2g086510' => 'mtr', 'Medtr4g053120' => 'mtr', 'Medtr5g006320' => 'mtr', 'Medtr8g088720' => 'mtr', 'MELO3C004712.2' => 'cme', 'MELO3C006533.2' => 'cme', 'MELO3C019438.2' => 'cme', 'MELO3C019440.2' => 'cme', 'MELO3C019441.2' => 'cme', 'MELO3C019895.2' => 'cme', 'Migut.B00811' => 'egut', 'Migut.D02447' => 'egut', 'Migut.F00875' => 'egut', 'Migut.N00186' => 'egut', 'Migut.N01051' => 'egut', 'Migut.N02491' => 'egut', 'Migut.O00784' => 'egut', 'MSTRG.12367' => 'ama', 'MSTRG.18756' => 'ama', 'MSTRG.21042' => 'ama', 'Nitab4.5_0000559g0040' => 'nta', 'Nitab4.5_0000667g0190' => 'nta', 'Nitab4.5_0000755g0160' => 'nta', 'Nitab4.5_0001216g0080' => 'nta', 'Nitab4.5_0004069g0040' => 'nta', 'Nitab4.5_0004129g0010' => 'nta', 'Nitab4.5_0005744g0030' => 'nta', 'Nitab4.5_0006996g0030' => 'nta', 'Nitab4.5_0008971g0040' => 'nta', 'Nitab4.5_0009769g0020' => 'nta', 'Nitab4.5_0009833g0010' => 'nta', 'Nitab4.5_0013140g0020' => 'nta', 'Nn003s41376' => 'nnu', 'Nn1g01857' => 'nnu', 'Nn1g03611' => 'nnu', 'Nn1g06853' => 'nnu', 'Nn3g18360' => 'nnu', 'Nn4g26328' => 'nnu', 'Nn5g27531' => 'nnu', 'Nn6g34899' => 'nnu', 'Nn7g36299' => 'nnu', 'Oeu021485.1' => 'oeu', 'Oeu022433.1' => 'oeu', 'Oeu032111.1' => 'oeu', 'Oeu051608.1' => 'oeu', 'Os01g0860601' => 'osa', 'Os03g0659200' => 'osa', 'Os03g0835900' => 'osa', 'Os04g0412200' => 'osa', 'Os05g0443500' => 'osa', 'Os07g0251500' => 'osa', 'Os08g0104600' => 'osa', 'Peaxi162Scf00003g00047' => 'pax', 'Peaxi162Scf00003g00052' => 'pax', 'Peaxi162Scf00003g00394' => 'pax', 'Peaxi162Scf00091g00621' => 'pax', 'Peaxi162Scf00152g00146' => 'pax', 'Peaxi162Scf00173g00025' => 'pax', 'Peaxi162Scf00195g00102' => 'pax', 'Peaxi162Scf00402g00013' => 'pax', 'Peaxi162Scf00519g00618' => 'pax', 'PGR004G2838' => 'pgr', 'PGR044G2275' => 'pgr', 'PGR102G1377' => 'pgr', 'PGR119G1245' => 'pgr', 'PGR142G4449' => 'pgr', 'PGSC0003DMG400004532' => 'stu', 'PGSC0003DMG400011950' => 'stu', 'PGSC0003DMG400023391' => 'stu', 'PGSC0003DMG400023985' => 'stu', 'PGSC0003DMG400026360' => 'stu', 'PGSC0003DMG400035711' => 'stu', 'PGSC0003DMG400037286' => 'stu', 'PGSC0003DMG402005881' => 'stu', 'Phvul.002G045400' => 'pvu', 'Phvul.006G216600' => 'pvu', 'Phvul.006G216700' => 'pvu', 'Phvul.006G216800' => 'pvu', 'Phvul.007G022500' => 'pvu', 'Phvul.011G094400' => 'pvu', 'Potri.001G470700' => 'ptr', 'Potri.003G015200' => 'ptr', 'Potri.004G202500' => 'ptr', 'Potri.004G218400' => 'ptr', 'Potri.008G020100' => 'ptr', 'Potri.008G153200' => 'ptr', 'Potri.009G163800' => 'ptr', 'Potri.010G087300' => 'ptr', 'Potri.010G239100' => 'ptr', 'Pp3c10_16100' => 'ppa', 'Pp3c10_16880' => 'ppa', 'Pp3c16_6230' => 'ppa', 'Pp3c17_18910' => 'ppa', 'Pp3c3_22119' => 'ppa', 'Pp3c3_22140' => 'ppa', 'Pp3c4_8159' => 'ppa', 'Pp3c4_8171' => 'ppa', 'Pp3c4_8330' => 'ppa', 'PRCOL_00004098' => 'pco', 'Prupe.1G013900' => 'ppe', 'Prupe.1G226300' => 'ppe', 'Prupe.1G573600' => 'ppe', 'Prupe.6G130100' => 'ppe', 'Psat3g090040' => 'psa', 'Psat4g210440' => 'psa', 'Psat6g231040' => 'psa', 'Psat6g231080' => 'psa', 'Psat7g063000' => 'psa', 'Psat7g188000' => 'psa', 'Psat7g188040' => 'psa', 'PSO017G0206' => 'pso', 'PSO170G0501' => 'pso', 'PSO170G6422' => 'pso', 'PSO210G7739' => 'pso', 'PSO339G1808' => 'pso', 'PSO339G6135' => 'pso', 'PSO384G0010' => 'pso', 'PSO384G0964' => 'pso', 'PSO761G0050' => 'pso', 'PSO782G4085' => 'pso', 'QL01p012264' => 'qlo', 'QL02p099491' => 'qlo', 'QL03p033868' => 'qlo', 'QL04p046678' => 'qlo', 'QL06p002448' => 'qlo', 'RcHm_v2.0_Chr4g0416181' => 'rch', 'RcHm_v2.0_Chr5g0044701' => 'rch', 'RcHm_v2.0_Chr6g0265781' => 'rch', 'RcHm_v2.0_Chr7g0221031' => 'rch', 'Rhsim04G0202000' => 'rsi', 'Rhsim11G0127300' => 'rsi', 'Rhsim13G0111800' => 'rsi', 'Sabra01G0165600' => 'sbr', 'Sabra03G0008300' => 'sbr', 'Sabra04G0136900' => 'sbr', 'Sabra08G0013400' => 'sbr', 'Sabra08G0116800' => 'sbr', 'Sabra09G0128000' => 'sbr', 'Sabra10G0055500' => 'sbr', 'Sabra10G0073300' => 'sbr', 'SalBow3G0385' => 'sbo', 'SalBow3G1119' => 'sbo', 'SalBow3G2005' => 'sbo', 'SalBow6G2563' => 'sbo', 'SalBow6G6386' => 'sbo', 'Sc06g0008800' => 'sci', 'Sc07g0004950' => 'sci', 'Sc09g0005340' => 'sci', 'Sc13g0004410' => 'sci', 'Sc21g0007090' => 'sci', 'Sed0009285' => 'sed', 'Sed0017583' => 'sed', 'Sed0019699' => 'sed', 'Sed0023107' => 'sed', 'SEGI_10916' => 'sgi', 'SEGI_16217' => 'sgi', 'SEGI_19466' => 'sgi', 'SEGI_41115' => 'sgi', 'SGA_v2.0_scaffold111G31534' => 'sas', 'SGA_v2.0_scaffold22G09864' => 'sas', 'SGA_v2.0_scaffold338G49219' => 'sas', 'SGA_v2.0_scaffold92G28298' => 'sas', 'SMO119G0064' => 'smo', 'SMO223G0038' => 'smo', 'SMO347G0584' => 'smo', 'SMO351G0010' => 'smo', 'SMO356G0404' => 'smo', 'Solyc01g103920.3' => 'sly', 'Solyc04g009710.2' => 'sly', 'Solyc05g055280.2' => 'sly', 'Solyc10g044520.3' => 'sly', 'Solyc10g075160.1' => 'sly', 'Solyc11g006910.3' => 'sly', 'Solyc11g068430.3' => 'sly', 'Sopen01g046310' => 'spe', 'Sopen03g001200' => 'spe', 'Sopen04g004830' => 'spe', 'Sopen05g033720' => 'spe', 'Sopen06g030740' => 'spe', 'Sopen10g013090' => 'spe', 'Sopen10g027630' => 'spe', 'Sopen10g027640' => 'spe', 'Sopen11g002820' => 'spe', 'Sopen11g027140' => 'spe', 'Sp1g09680' => 'spa', 'Sp2g03630' => 'spa', 'Sp4g10320' => 'spa', 'Sp6g33400' => 'spa', 'Sp7g13030' => 'spa', 'TAR365G0317' => 'tar', 'TAR376G0979' => 'tar', 'TAR623G1665' => 'tar', 'TAR633G2373' => 'tar', 'TAR636G1400' => 'tar', 'THA.LOC104800529' => 'tha', 'THA.LOC104808547' => 'tha', 'THA.LOC104809615' => 'tha', 'THA.LOC104815724' => 'tha', 'THA.LOC104818480' => 'tha', 'THA.LOC104819179' => 'tha', 'THA.LOC104822270' => 'tha', 'THA.LOC104826425' => 'tha', 'Thecc.02G089700' => 'tca', 'Thecc.04G232300' => 'tca', 'Thecc.09G283400' => 'tca', 'Thhalv10009020m.g' => 'esa', 'Thhalv10015506m.g' => 'esa', 'Thhalv10017364m.g' => 'esa', 'Thhalv10023742m.g' => 'esa', 'Thhalv10026483m.g' => 'esa', 'TPR.G17232' => 'tpr', 'TPR.G2133' => 'tpr', 'TPR.G2498' => 'tpr', 'TPR.G31942' => 'tpr', 'TPR.G37877' => 'tpr', 'TPR.G4571' => 'tpr', 'TWI14G1113' => 'twi', 'TWI15G0426' => 'twi', 'TWI31G1005' => 'twi', 'TWI38G0513' => 'twi', 'TWI38G1484' => 'twi', 'TWI73G1098' => 'twi', 'unitig_26.g10519' => 'ugi', 'unitig_736.g22395' => 'ugi', 'unitig_747.g21234' => 'ugi', 'unitig_747.g21942' => 'ugi', 'vmacro14351' => 'vma', 'VMungo0540G0082' => 'vmu', 'VMungo0540G0405' => 'vmu', 'VMungo0540G1486' => 'vmu', 'VMungo0540G1692' => 'vmu', 'VMungo0720G2473' => 'vmu', 'VMungo1127G1562' => 'vmu', 'VMungo1215G1918' => 'vmu', 'Zm00001eb052650' => 'zma', 'Zm00001eb063710' => 'zma', 'Zm00001eb083950' => 'zma', 'Zm00001eb174420' => 'zma', 'Zm00001eb260140' => 'zma', 'Zm00001eb260150' => 'zma', 'Zm00001eb260160' => 'zma', 'Zm00001eb348290' => 'zma', 'Zm00001eb366870' => 'zma', 'Zm00001eb421930' => 'zma' ), 'gf_id' => 'HOM05D001025', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001025' ), 'data_identifier' => 'HOM05D001025', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001025', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '592', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p22650' => 'bna', 'A01p29720' => 'bna', 'A03p26560' => 'bna', 'A03p68820' => 'bna', 'A04p20980' => 'bna', 'A06p07730' => 'bna', 'A07p18260' => 'bna', 'A08p33710' => 'bna', 'A09p16970' => 'bna', 'A10p27490' => 'bna', 'Aa31LG1G17300' => 'aar', 'Aa31LG1G3910' => 'aar', 'Aa31LG2G9630' => 'aar', 'Aa31LG5G8360' => 'aar', 'Aa31LG9G2410' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4699' => 'aag', 'Actinidia23512' => 'ach', 'Actinidia37080' => 'ach', 'Ah.01g020380' => 'amhyb', 'Ah.08g215710' => 'amhyb', 'Ah.09g225110' => 'amhyb', 'Ah.10g036680' => 'amhyb', 'AL1G21940' => 'aly', 'AL2G15540' => 'aly', 'AL4G21520' => 'aly', 'AL7G40960' => 'aly', 'Aqoxy2G01191' => 'aox', 'Aqoxy2G03393' => 'aox', 'Aqoxy4G02775' => 'aox', 'Aqoxy6G00058' => 'aox', 'arahy.Tifrunner.gnm1.ann1.9X74H2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CW3FX9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R485W7' => 'arhy', 'AT1G10960' => 'ath', 'AT1G60950' => 'ath', 'AT2G27510' => 'ath', 'AT4G14890' => 'ath', 'AT5G10000' => 'ath', 'ATR0665G624' => 'atr', 'ATR0697G138' => 'atr', 'ATR0776G046' => 'atr', 'ATR1134G135' => 'atr', 'Atru.chr12.1025' => 'acertr', 'Atru.chr3.3241' => 'acertr', 'Atru.chr4.2460' => 'acertr', 'AUR62007427' => 'cqu', 'AUR62010960' => 'cqu', 'AUR62012201' => 'cqu', 'AUR62021470' => 'cqu', 'AUR62022834' => 'cqu', 'AUR62033635' => 'cqu', 'AUR62036186' => 'cqu', 'BcaB01g03077' => 'bca', 'BcaB02g10093' => 'bca', 'BcaB04g20295' => 'bca', 'BcaB06g28147' => 'bca', 'BcaB07g31253' => 'bca', 'BcaC01g04946' => 'bca', 'BcaC02g10614' => 'bca', 'BcaC02g10885' => 'bca', 'BcaC04g19356' => 'bca', 'BcaC04g22297' => 'bca', 'BcaC05g24977' => 'bca', 'BcaC06g31823' => 'bca', 'BcaC07g38633' => 'bca', 'BcaC09g49353' => 'bca', 'BcaC09g50168' => 'bca', 'BcaNung00322' => 'bca', 'BcaNung04769' => 'bca', 'BolC1t02753H' => 'bol', 'BolC1t03721H' => 'bol', 'BolC3t15525H' => 'bol', 'BolC4t23903H' => 'bol', 'BolC4t24231H' => 'bol', 'BolC4t27209H' => 'bol', 'BolC5t29671H' => 'bol', 'BolC8t49044H' => 'bol', 'BolC9t54999H' => 'bol', 'BolC9t59517H' => 'bol', 'BraA01t02178Z' => 'bra', 'BraA01t03099Z' => 'bra', 'BraA03t11867Z' => 'bra', 'BraA04t17667Z' => 'bra', 'BraA07t29542Z' => 'bra', 'BraA08t35287Z' => 'bra', 'BraA09t37334Z' => 'bra', 'BraA10t44801Z' => 'bra', 'BraSC39t46181Z' => 'bra', 'C01p28240' => 'bna', 'C01p37530' => 'bna', 'C03p31820' => 'bna', 'C04p24080' => 'bna', 'C04p25790' => 'bna', 'C04p56770' => 'bna', 'C05p09310' => 'bna', 'C09p21010' => 'bna', 'C09p67560' => 'bna', 'CAN.G1324.7' => 'can', 'CAN.G1358.10' => 'can', 'CAN.G1550.2' => 'can', 'CAN.G186.56' => 'can', 'CAN.G1965.1' => 'can', 'CAN.G645.15' => 'can', 'CAN.G798.26' => 'can', 'CAN.G798.27' => 'can', 'CAN.G798.29' => 'can', 'CAN.G919.31' => 'can', 'CANSAT11G0133' => 'cansat', 'CANSAT11G1171' => 'cansat', 'CANSAT11G2056' => 'cansat', 'CANSAT56G1202' => 'cansat', 'CANSAT56G1514' => 'cansat', 'CANSAT78G0455' => 'cansat', 'CARHR011190' => 'chi', 'CARHR051980' => 'chi', 'CARHR120170' => 'chi', 'CARHR203310' => 'chi', 'CARHR221490' => 'chi', 'Carub.0001s1054' => 'cru', 'Carub.0002s0431' => 'cru', 'Carub.0004s0818' => 'cru', 'Carub.0006s0846' => 'cru', 'Carub.0007s2722' => 'cru', 'Ca_00058_v3' => 'car', 'Ca_17831_v3' => 'car', 'Ca_19408_v3' => 'car', 'Ca_24397_v3' => 'car', 'Ca_25664_v3' => 'car', 'CBR_g21818' => 'cbr', 'CBR_g31195' => 'cbr', 'CBR_g32282' => 'cbr', 'CBR_g39599' => 'cbr', 'CBR_g49410' => 'cbr', 'Cc01_g09120' => 'ccan', 'Cc01_g09130' => 'ccan', 'Cc02_g09630' => 'ccan', 'Cc02_g22810' => 'ccan', 'Cc03_g03810' => 'ccan', 'CDE02G3718' => 'cde', 'CDE04G3183' => 'cde', 'CDE07G1046' => 'cde', 'CDE08G0480' => 'cde', 'Cfa005493' => 'cfa', 'Cfa010312' => 'cfa', 'Cfa015648' => 'cfa', 'Ciclev10002793m.g' => 'ccl', 'Ciclev10003356m.g' => 'ccl', 'Ciclev10006141m.g' => 'ccl', 'Ciclev10016676m.g' => 'ccl', 'Ciclev10017081m.g' => 'ccl', 'Ciclev10029499m.g' => 'ccl', 'CiPaw.01G166300' => 'cil', 'CiPaw.06G145600' => 'cil', 'CiPaw.13G040100' => 'cil', 'CiPaw.13G135800' => 'cil', 'ClCG01G012230' => 'cla', 'ClCG05G009510' => 'cla', 'ClCG08G008270' => 'cla', 'COL.COLO4_11763' => 'col', 'COL.COLO4_19876' => 'col', 'COL.COLO4_21481' => 'col', 'Cpa.g.sc118.34' => 'cpa', 'Cpa.g.sc32.13' => 'cpa', 'Cpa.g.sc58.103' => 'cpa', 'Cre03.g183850' => 'cre', 'Cre06.g306350' => 'cre', 'Cre07.g334800' => 'cre', 'Cre12.g487900' => 'cre', 'Cre14.g626700' => 'cre', 'Cre16.g658400' => 'cre', 'Cre17.g700950' => 'cre', 'CsaV3_1G014830' => 'csa', 'CsaV3_3G013320' => 'csa', 'CsaV3_3G019210' => 'csa', 'CsaV3_3G019220' => 'csa', 'CsaV3_6G004230' => 'csa', 'CSS0003773' => 'camsi', 'CSS0004563' => 'camsi', 'CSS0013949' => 'camsi', 'CSS0025971' => 'camsi', 'CSS0028570' => 'camsi', 'CSS0033127' => 'camsi', 'CSS0036051' => 'camsi', 'CSS0040087' => 'camsi', 'CSS0043179' => 'camsi', 'DCAR_006161' => 'dca', 'DCAR_010351' => 'dca', 'DCAR_012197' => 'dca', 'DCAR_024162' => 'dca', 'Dinv01030' => 'din', 'Dinv10924' => 'din', 'Dinv11835' => 'din', 'Dinv22841' => 'din', 'Dinv42553' => 'din', 'Duzib052G0560' => 'dzi', 'Duzib132G0389' => 'dzi', 'Duzib150G1181' => 'dzi', 'Duzib168G0623' => 'dzi', 'Duzib170G1036' => 'dzi', 'Duzib212G0200' => 'dzi', 'Duzib248G0194' => 'dzi', 'ECA232G2193' => 'eca', 'ECA233G0302' => 'eca', 'ECA234G2813' => 'eca', 'ECA234G4866' => 'eca', 'ECA240G3932' => 'eca', 'ECA248G0385' => 'eca', 'EL10Ac2g04781' => 'bvu', 'EL10Ac3g06445' => 'bvu', 'EL10Ac7g15825' => 'bvu', 'EL10Ac8g18550' => 'bvu', 'Eucgr.B03849' => 'egr', 'Eucgr.I02744' => 'egr', 'Eucgr.J00264' => 'egr', 'Eucgr.J00493' => 'egr', 'FAN04G2181' => 'fan', 'FAN07G2666' => 'fan', 'FAN11G0024' => 'fan', 'FAN12G1105' => 'fan', 'FAN13G0302' => 'fan', 'FAN15G2781' => 'fan', 'FAN16G1274' => 'fan', 'FAN17G2988' => 'fan', 'FAN18G2621' => 'fan', 'FAN21G0013' => 'fan', 'FAN22G1211' => 'fan', 'FAN25G3626' => 'fan', 'FvH4_2g09491' => 'fve', 'FvH4_3g24910' => 'fve', 'FvH4_4g15630' => 'fve', 'FvH4_5g28820' => 'fve', 'Glyma.01G238000' => 'gma', 'Glyma.05G168400' => 'gma', 'Glyma.08G126800' => 'gma', 'Glyma.08G188500' => 'gma', 'Glyma.10G278900' => 'gma', 'Glyma.11G005700' => 'gma', 'Glyma.11G183300' => 'gma', 'Glyma.12G089200' => 'gma', 'Glyma.12G169400' => 'gma', 'Glyma.12G169500' => 'gma', 'Glyma.12G169600' => 'gma', 'Glyma.20G110800' => 'gma', 'Gohir.A03G192900' => 'ghi', 'Gohir.A03G193000' => 'ghi', 'Gohir.A05G080700' => 'ghi', 'Gohir.A09G216000' => 'ghi', 'Gohir.A12G027700' => 'ghi', 'Gohir.A13G036200' => 'ghi', 'Gohir.A13G222600' => 'ghi', 'Gohir.D02G213900' => 'ghi', 'Gohir.D02G214000' => 'ghi', 'Gohir.D05G083700' => 'ghi', 'Gohir.D05G083800' => 'ghi', 'Gohir.D05G083850' => 'ghi', 'Gohir.D08G015400' => 'ghi', 'Gohir.D09G218400' => 'ghi', 'Gohir.D12G027100' => 'ghi', 'Gohir.D13G034500' => 'ghi', 'Gohir.D13G227400' => 'ghi', 'Gorai.005G241800' => 'gra', 'Gorai.005G241900' => 'gra', 'Gorai.006G239400' => 'gra', 'Gorai.008G027600' => 'gra', 'Gorai.009G085400' => 'gra', 'Gorai.009G085500' => 'gra', 'Gorai.013G039000' => 'gra', 'Gorai.013G194800' => 'gra', 'Gorai.013G257900' => 'gra', 'GSVIVG01000982001' => 'vvi', 'GSVIVG01017981001' => 'vvi', 'HanXRQChr01g0024061' => 'han', 'HanXRQChr09g0247831' => 'han', 'HanXRQChr10g0294611' => 'han', 'HanXRQChr10g0294621' => 'han', 'HanXRQChr11g0346821' => 'han', 'HanXRQChr13g0397461' => 'han', 'HanXRQChr16g0513651' => 'han', 'HanXRQChr16g0513701' => 'han', 'Haze_00897' => 'cav', 'Haze_01745' => 'cav', 'Haze_02486' => 'cav', 'Haze_02487' => 'cav', 'Haze_23374' => 'cav', 'Hma1.2p1_0578F.1_g182520' => 'hma', 'Hma1.2p1_0602F.1_g187350' => 'hma', 'Hma1.2p1_0602F.1_g187360' => 'hma', 'Hma1.2p1_0874F.1_g231320' => 'hma', 'Hma1.2p1_1197F.1_g266210' => 'hma', 'Hma1.2p1_1197F.1_g266220' => 'hma', 'Hma1.2p1_2167F.1_g315895' => 'hma', 'Hma1.2p1_2190F.1_g316640' => 'hma', 'Hma1.2p1_3645F.1_g337153' => 'hma', 'HPP92_004907' => 'vpl', 'HPP92_012134' => 'vpl', 'HPP92_025136' => 'vpl', 'HPP92_026087' => 'vpl', 'Hund06782' => 'sun', 'Hund06784' => 'sun', 'Lalb_Chr01g0004861' => 'lal', 'Lalb_Chr02g0140591' => 'lal', 'Lalb_Chr02g0140611' => 'lal', 'Lalb_Chr03g0028101' => 'lal', 'Lalb_Chr07g0185791' => 'lal', 'Lalb_Chr12g0204491' => 'lal', 'Lalb_Chr13g0295671' => 'lal', 'Lalb_Chr19g0136461' => 'lal', 'Lalb_Chr21g0309191' => 'lal', 'Lj1g0028158' => 'lja', 'Lj1P236T38' => 'lonja', 'Lj2C32G2' => 'lonja', 'Lj2P944T8' => 'lonja', 'Lj2P963T15' => 'lonja', 'Lj3g0011788' => 'lja', 'Lj4g0025027' => 'lja', 'Lj5P255T36' => 'lonja', 'Lj6g0018866' => 'lja', 'Lj6P608T31' => 'lonja', 'LjContig00408g0008879' => 'lja', 'Lsat_1_v5_gn_5_105820' => 'lsa', 'Lsat_1_v5_gn_6_38800' => 'lsa', 'Lsat_1_v5_gn_7_67141' => 'lsa', 'Manes.04G003400' => 'mes', 'Manes.07G020000' => 'mes', 'Manes.07G020100' => 'mes', 'Manes.07G020150' => 'mes', 'Manes.10G061500' => 'mes', 'Manes.10G123200' => 'mes', 'Manes.11G161900' => 'mes', 'Manes.15G029300' => 'mes', 'Mapoly0071s0018' => 'mpo', 'Mapoly0082s0023' => 'mpo', 'Mapoly3477s0001' => 'mpo', 'MBI05_g31233_MAGBIO' => 'mbi', 'MBI09_g05946_MAGBIO' => 'mbi', 'MBI09_g05947_MAGBIO' => 'mbi', 'MBI17_g08346_MAGBIO' => 'mbi', 'MCO04G038' => 'mco', 'MCO09G370' => 'mco', 'MCO13G605' => 'mco', 'MD00G1075500' => 'mdo', 'MD03G1144300' => 'mdo', 'MD08G1236800' => 'mdo', 'MD13G1193300' => 'mdo', 'MD15G1428700' => 'mdo', 'Medtr1g112030' => 'mtr', 'Medtr1g112050' => 'mtr', 'Medtr2g006290' => 'mtr', 'Medtr2g086510' => 'mtr', 'Medtr4g053120' => 'mtr', 'Medtr5g006320' => 'mtr', 'Medtr8g088720' => 'mtr', 'MELO3C004712.2' => 'cme', 'MELO3C006533.2' => 'cme', 'MELO3C019438.2' => 'cme', 'MELO3C019440.2' => 'cme', 'MELO3C019441.2' => 'cme', 'MELO3C019895.2' => 'cme', 'Migut.B00811' => 'egut', 'Migut.D02447' => 'egut', 'Migut.F00875' => 'egut', 'Migut.N00186' => 'egut', 'Migut.N01051' => 'egut', 'Migut.N02491' => 'egut', 'Migut.O00784' => 'egut', 'MSTRG.12367' => 'ama', 'MSTRG.18756' => 'ama', 'MSTRG.21042' => 'ama', 'Nitab4.5_0000559g0040' => 'nta', 'Nitab4.5_0000667g0190' => 'nta', 'Nitab4.5_0000755g0160' => 'nta', 'Nitab4.5_0001216g0080' => 'nta', 'Nitab4.5_0004069g0040' => 'nta', 'Nitab4.5_0004129g0010' => 'nta', 'Nitab4.5_0005744g0030' => 'nta', 'Nitab4.5_0006996g0030' => 'nta', 'Nitab4.5_0008971g0040' => 'nta', 'Nitab4.5_0009769g0020' => 'nta', 'Nitab4.5_0009833g0010' => 'nta', 'Nitab4.5_0013140g0020' => 'nta', 'Nn003s41376' => 'nnu', 'Nn1g01857' => 'nnu', 'Nn1g03611' => 'nnu', 'Nn1g06853' => 'nnu', 'Nn3g18360' => 'nnu', 'Nn4g26328' => 'nnu', 'Nn5g27531' => 'nnu', 'Nn6g34899' => 'nnu', 'Nn7g36299' => 'nnu', 'Oeu021485.1' => 'oeu', 'Oeu022433.1' => 'oeu', 'Oeu032111.1' => 'oeu', 'Oeu051608.1' => 'oeu', 'Os01g0860601' => 'osa', 'Os03g0659200' => 'osa', 'Os03g0835900' => 'osa', 'Os04g0412200' => 'osa', 'Os05g0443500' => 'osa', 'Os07g0251500' => 'osa', 'Os08g0104600' => 'osa', 'Peaxi162Scf00003g00047' => 'pax', 'Peaxi162Scf00003g00052' => 'pax', 'Peaxi162Scf00003g00394' => 'pax', 'Peaxi162Scf00091g00621' => 'pax', 'Peaxi162Scf00152g00146' => 'pax', 'Peaxi162Scf00173g00025' => 'pax', 'Peaxi162Scf00195g00102' => 'pax', 'Peaxi162Scf00402g00013' => 'pax', 'Peaxi162Scf00519g00618' => 'pax', 'PGR004G2838' => 'pgr', 'PGR044G2275' => 'pgr', 'PGR102G1377' => 'pgr', 'PGR119G1245' => 'pgr', 'PGR142G4449' => 'pgr', 'PGSC0003DMG400004532' => 'stu', 'PGSC0003DMG400011950' => 'stu', 'PGSC0003DMG400023391' => 'stu', 'PGSC0003DMG400023985' => 'stu', 'PGSC0003DMG400026360' => 'stu', 'PGSC0003DMG400035711' => 'stu', 'PGSC0003DMG400037286' => 'stu', 'PGSC0003DMG402005881' => 'stu', 'Phvul.002G045400' => 'pvu', 'Phvul.006G216600' => 'pvu', 'Phvul.006G216700' => 'pvu', 'Phvul.006G216800' => 'pvu', 'Phvul.007G022500' => 'pvu', 'Phvul.011G094400' => 'pvu', 'Potri.001G470700' => 'ptr', 'Potri.003G015200' => 'ptr', 'Potri.004G202500' => 'ptr', 'Potri.004G218400' => 'ptr', 'Potri.008G020100' => 'ptr', 'Potri.008G153200' => 'ptr', 'Potri.009G163800' => 'ptr', 'Potri.010G087300' => 'ptr', 'Potri.010G239100' => 'ptr', 'Pp3c10_16100' => 'ppa', 'Pp3c10_16880' => 'ppa', 'Pp3c16_6230' => 'ppa', 'Pp3c17_18910' => 'ppa', 'Pp3c3_22119' => 'ppa', 'Pp3c3_22140' => 'ppa', 'Pp3c4_8159' => 'ppa', 'Pp3c4_8171' => 'ppa', 'Pp3c4_8330' => 'ppa', 'PRCOL_00004098' => 'pco', 'Prupe.1G013900' => 'ppe', 'Prupe.1G226300' => 'ppe', 'Prupe.1G573600' => 'ppe', 'Prupe.6G130100' => 'ppe', 'Psat3g090040' => 'psa', 'Psat4g210440' => 'psa', 'Psat6g231040' => 'psa', 'Psat6g231080' => 'psa', 'Psat7g063000' => 'psa', 'Psat7g188000' => 'psa', 'Psat7g188040' => 'psa', 'PSO017G0206' => 'pso', 'PSO170G0501' => 'pso', 'PSO170G6422' => 'pso', 'PSO210G7739' => 'pso', 'PSO339G1808' => 'pso', 'PSO339G6135' => 'pso', 'PSO384G0010' => 'pso', 'PSO384G0964' => 'pso', 'PSO761G0050' => 'pso', 'PSO782G4085' => 'pso', 'QL01p012264' => 'qlo', 'QL02p099491' => 'qlo', 'QL03p033868' => 'qlo', 'QL04p046678' => 'qlo', 'QL06p002448' => 'qlo', 'RcHm_v2.0_Chr4g0416181' => 'rch', 'RcHm_v2.0_Chr5g0044701' => 'rch', 'RcHm_v2.0_Chr6g0265781' => 'rch', 'RcHm_v2.0_Chr7g0221031' => 'rch', 'Rhsim04G0202000' => 'rsi', 'Rhsim11G0127300' => 'rsi', 'Rhsim13G0111800' => 'rsi', 'Sabra01G0165600' => 'sbr', 'Sabra03G0008300' => 'sbr', 'Sabra04G0136900' => 'sbr', 'Sabra08G0013400' => 'sbr', 'Sabra08G0116800' => 'sbr', 'Sabra09G0128000' => 'sbr', 'Sabra10G0055500' => 'sbr', 'Sabra10G0073300' => 'sbr', 'SalBow3G0385' => 'sbo', 'SalBow3G1119' => 'sbo', 'SalBow3G2005' => 'sbo', 'SalBow6G2563' => 'sbo', 'SalBow6G6386' => 'sbo', 'Sc06g0008800' => 'sci', 'Sc07g0004950' => 'sci', 'Sc09g0005340' => 'sci', 'Sc13g0004410' => 'sci', 'Sc21g0007090' => 'sci', 'Sed0009285' => 'sed', 'Sed0017583' => 'sed', 'Sed0019699' => 'sed', 'Sed0023107' => 'sed', 'SEGI_10916' => 'sgi', 'SEGI_16217' => 'sgi', 'SEGI_19466' => 'sgi', 'SEGI_41115' => 'sgi', 'SGA_v2.0_scaffold111G31534' => 'sas', 'SGA_v2.0_scaffold22G09864' => 'sas', 'SGA_v2.0_scaffold338G49219' => 'sas', 'SGA_v2.0_scaffold92G28298' => 'sas', 'SMO119G0064' => 'smo', 'SMO223G0038' => 'smo', 'SMO347G0584' => 'smo', 'SMO351G0010' => 'smo', 'SMO356G0404' => 'smo', 'Solyc01g103920.3' => 'sly', 'Solyc04g009710.2' => 'sly', 'Solyc05g055280.2' => 'sly', 'Solyc10g044520.3' => 'sly', 'Solyc10g075160.1' => 'sly', 'Solyc11g006910.3' => 'sly', 'Solyc11g068430.3' => 'sly', 'Sopen01g046310' => 'spe', 'Sopen03g001200' => 'spe', 'Sopen04g004830' => 'spe', 'Sopen05g033720' => 'spe', 'Sopen06g030740' => 'spe', 'Sopen10g013090' => 'spe', 'Sopen10g027630' => 'spe', 'Sopen10g027640' => 'spe', 'Sopen11g002820' => 'spe', 'Sopen11g027140' => 'spe', 'Sp1g09680' => 'spa', 'Sp2g03630' => 'spa', 'Sp4g10320' => 'spa', 'Sp6g33400' => 'spa', 'Sp7g13030' => 'spa', 'TAR365G0317' => 'tar', 'TAR376G0979' => 'tar', 'TAR623G1665' => 'tar', 'TAR633G2373' => 'tar', 'TAR636G1400' => 'tar', 'THA.LOC104800529' => 'tha', 'THA.LOC104808547' => 'tha', 'THA.LOC104809615' => 'tha', 'THA.LOC104815724' => 'tha', 'THA.LOC104818480' => 'tha', 'THA.LOC104819179' => 'tha', 'THA.LOC104822270' => 'tha', 'THA.LOC104826425' => 'tha', 'Thecc.02G089700' => 'tca', 'Thecc.04G232300' => 'tca', 'Thecc.09G283400' => 'tca', 'Thhalv10009020m.g' => 'esa', 'Thhalv10015506m.g' => 'esa', 'Thhalv10017364m.g' => 'esa', 'Thhalv10023742m.g' => 'esa', 'Thhalv10026483m.g' => 'esa', 'TPR.G17232' => 'tpr', 'TPR.G2133' => 'tpr', 'TPR.G2498' => 'tpr', 'TPR.G31942' => 'tpr', 'TPR.G37877' => 'tpr', 'TPR.G4571' => 'tpr', 'TWI14G1113' => 'twi', 'TWI15G0426' => 'twi', 'TWI31G1005' => 'twi', 'TWI38G0513' => 'twi', 'TWI38G1484' => 'twi', 'TWI73G1098' => 'twi', 'unitig_26.g10519' => 'ugi', 'unitig_736.g22395' => 'ugi', 'unitig_747.g21234' => 'ugi', 'unitig_747.g21942' => 'ugi', 'vmacro14351' => 'vma', 'VMungo0540G0082' => 'vmu', 'VMungo0540G0405' => 'vmu', 'VMungo0540G1486' => 'vmu', 'VMungo0540G1692' => 'vmu', 'VMungo0720G2473' => 'vmu', 'VMungo1127G1562' => 'vmu', 'VMungo1215G1918' => 'vmu', 'Zm00001eb052650' => 'zma', 'Zm00001eb063710' => 'zma', 'Zm00001eb083950' => 'zma', 'Zm00001eb174420' => 'zma', 'Zm00001eb260140' => 'zma', 'Zm00001eb260150' => 'zma', 'Zm00001eb260160' => 'zma', 'Zm00001eb348290' => 'zma', 'Zm00001eb366870' => 'zma', 'Zm00001eb421930' => 'zma' ) $gf_id = 'HOM05D001025' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001025' ) $data_identifier = 'HOM05D001025' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 19, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 2, 'amhyb' => (int) 4, 'aly' => (int) 4, 'aox' => (int) 4, 'arhy' => (int) 3, 'ath' => (int) 5, 'atr' => (int) 4, 'acertr' => (int) 3, 'cqu' => (int) 7, 'bca' => (int) 17, 'bol' => (int) 10, 'bra' => (int) 9, 'can' => (int) 10, 'cansat' => (int) 6, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 5, 'cbr' => (int) 5, 'ccan' => (int) 5, 'cde' => (int) 4, 'cfa' => (int) 3, 'ccl' => (int) 6, 'cil' => (int) 4, 'cla' => (int) 3, 'col' => (int) 3, 'cpa' => (int) 3, 'cre' => (int) 7, 'csa' => (int) 5, 'camsi' => (int) 9, 'dca' => (int) 4, 'din' => (int) 5, 'dzi' => (int) 7, 'eca' => (int) 6, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 12, 'fve' => (int) 4, 'gma' => (int) 12, 'ghi' => (int) 17, 'gra' => (int) 9, 'vvi' => (int) 2, 'han' => (int) 8, 'cav' => (int) 5, 'hma' => (int) 9, 'vpl' => (int) 4, 'sun' => (int) 2, 'lal' => (int) 9, 'lja' => (int) 5, 'lonja' => (int) 6, 'lsa' => (int) 3, 'mes' => (int) 8, 'mpo' => (int) 3, 'mbi' => (int) 4, 'mco' => (int) 3, 'mdo' => (int) 5, 'mtr' => (int) 7, 'cme' => (int) 6, 'egut' => (int) 7, 'ama' => (int) 3, 'nta' => (int) 12, 'nnu' => (int) 9, 'oeu' => (int) 4, 'osa' => (int) 7, 'pax' => (int) 9, 'pgr' => (int) 5, 'stu' => (int) 8, 'pvu' => (int) 6, 'ptr' => (int) 9, 'ppa' => (int) 9, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 7, 'pso' => (int) 10, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 3, 'sbr' => (int) 8, 'sbo' => (int) 5, 'sci' => (int) 5, 'sed' => (int) 4, 'sgi' => (int) 4, 'sas' => (int) 4, 'smo' => (int) 5, 'sly' => (int) 7, 'spe' => (int) 10, 'spa' => (int) 5, 'tar' => (int) 5, 'tha' => (int) 8, 'tca' => (int) 3, 'esa' => (int) 5, 'tpr' => (int) 6, 'twi' => (int) 6, 'ugi' => (int) 4, 'vma' => (int) 1, 'vmu' => (int) 7, 'zma' => (int) 10 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb421930' $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' => 'HOM05D001025', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '592', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p22650' => 'bna', 'A01p29720' => 'bna', 'A03p26560' => 'bna', 'A03p68820' => 'bna', 'A04p20980' => 'bna', 'A06p07730' => 'bna', 'A07p18260' => 'bna', 'A08p33710' => 'bna', 'A09p16970' => 'bna', 'A10p27490' => 'bna', 'Aa31LG1G17300' => 'aar', 'Aa31LG1G3910' => 'aar', 'Aa31LG2G9630' => 'aar', 'Aa31LG5G8360' => 'aar', 'Aa31LG9G2410' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4699' => 'aag', 'Actinidia23512' => 'ach', 'Actinidia37080' => 'ach', 'Ah.01g020380' => 'amhyb', 'Ah.08g215710' => 'amhyb', 'Ah.09g225110' => 'amhyb', 'Ah.10g036680' => 'amhyb', 'AL1G21940' => 'aly', 'AL2G15540' => 'aly', 'AL4G21520' => 'aly', 'AL7G40960' => 'aly', 'Aqoxy2G01191' => 'aox', 'Aqoxy2G03393' => 'aox', 'Aqoxy4G02775' => 'aox', 'Aqoxy6G00058' => 'aox', 'arahy.Tifrunner.gnm1.ann1.9X74H2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CW3FX9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R485W7' => 'arhy', 'AT1G10960' => 'ath', 'AT1G60950' => 'ath', 'AT2G27510' => 'ath', 'AT4G14890' => 'ath', 'AT5G10000' => 'ath', 'ATR0665G624' => 'atr', 'ATR0697G138' => 'atr', 'ATR0776G046' => 'atr', 'ATR1134G135' => 'atr', 'Atru.chr12.1025' => 'acertr', 'Atru.chr3.3241' => 'acertr', 'Atru.chr4.2460' => 'acertr', 'AUR62007427' => 'cqu', 'AUR62010960' => 'cqu', 'AUR62012201' => 'cqu', 'AUR62021470' => 'cqu', 'AUR62022834' => 'cqu', 'AUR62033635' => 'cqu', 'AUR62036186' => 'cqu', 'BcaB01g03077' => 'bca', 'BcaB02g10093' => 'bca', 'BcaB04g20295' => 'bca', 'BcaB06g28147' => 'bca', 'BcaB07g31253' => 'bca', 'BcaC01g04946' => 'bca', 'BcaC02g10614' => 'bca', 'BcaC02g10885' => 'bca', 'BcaC04g19356' => 'bca', 'BcaC04g22297' => 'bca', 'BcaC05g24977' => 'bca', 'BcaC06g31823' => 'bca', 'BcaC07g38633' => 'bca', 'BcaC09g49353' => 'bca', 'BcaC09g50168' => 'bca', 'BcaNung00322' => 'bca', 'BcaNung04769' => 'bca', 'BolC1t02753H' => 'bol', 'BolC1t03721H' => 'bol', 'BolC3t15525H' => 'bol', 'BolC4t23903H' => 'bol', 'BolC4t24231H' => 'bol', 'BolC4t27209H' => 'bol', 'BolC5t29671H' => 'bol', 'BolC8t49044H' => 'bol', 'BolC9t54999H' => 'bol', 'BolC9t59517H' => 'bol', 'BraA01t02178Z' => 'bra', 'BraA01t03099Z' => 'bra', 'BraA03t11867Z' => 'bra', 'BraA04t17667Z' => 'bra', 'BraA07t29542Z' => 'bra', 'BraA08t35287Z' => 'bra', 'BraA09t37334Z' => 'bra', 'BraA10t44801Z' => 'bra', 'BraSC39t46181Z' => 'bra', 'C01p28240' => 'bna', 'C01p37530' => 'bna', 'C03p31820' => 'bna', 'C04p24080' => 'bna', 'C04p25790' => 'bna', 'C04p56770' => 'bna', 'C05p09310' => 'bna', 'C09p21010' => 'bna', 'C09p67560' => 'bna', 'CAN.G1324.7' => 'can', 'CAN.G1358.10' => 'can', 'CAN.G1550.2' => 'can', 'CAN.G186.56' => 'can', 'CAN.G1965.1' => 'can', 'CAN.G645.15' => 'can', 'CAN.G798.26' => 'can', 'CAN.G798.27' => 'can', 'CAN.G798.29' => 'can', 'CAN.G919.31' => 'can', 'CANSAT11G0133' => 'cansat', 'CANSAT11G1171' => 'cansat', 'CANSAT11G2056' => 'cansat', 'CANSAT56G1202' => 'cansat', 'CANSAT56G1514' => 'cansat', 'CANSAT78G0455' => 'cansat', 'CARHR011190' => 'chi', 'CARHR051980' => 'chi', 'CARHR120170' => 'chi', 'CARHR203310' => 'chi', 'CARHR221490' => 'chi', 'Carub.0001s1054' => 'cru', 'Carub.0002s0431' => 'cru', 'Carub.0004s0818' => 'cru', 'Carub.0006s0846' => 'cru', 'Carub.0007s2722' => 'cru', 'Ca_00058_v3' => 'car', 'Ca_17831_v3' => 'car', 'Ca_19408_v3' => 'car', 'Ca_24397_v3' => 'car', 'Ca_25664_v3' => 'car', 'CBR_g21818' => 'cbr', 'CBR_g31195' => 'cbr', 'CBR_g32282' => 'cbr', 'CBR_g39599' => 'cbr', 'CBR_g49410' => 'cbr', 'Cc01_g09120' => 'ccan', 'Cc01_g09130' => 'ccan', 'Cc02_g09630' => 'ccan', 'Cc02_g22810' => 'ccan', 'Cc03_g03810' => 'ccan', 'CDE02G3718' => 'cde', 'CDE04G3183' => 'cde', 'CDE07G1046' => 'cde', 'CDE08G0480' => 'cde', 'Cfa005493' => 'cfa', 'Cfa010312' => 'cfa', 'Cfa015648' => 'cfa', 'Ciclev10002793m.g' => 'ccl', 'Ciclev10003356m.g' => 'ccl', 'Ciclev10006141m.g' => 'ccl', 'Ciclev10016676m.g' => 'ccl', 'Ciclev10017081m.g' => 'ccl', 'Ciclev10029499m.g' => 'ccl', 'CiPaw.01G166300' => 'cil', 'CiPaw.06G145600' => 'cil', 'CiPaw.13G040100' => 'cil', 'CiPaw.13G135800' => 'cil', 'ClCG01G012230' => 'cla', 'ClCG05G009510' => 'cla', 'ClCG08G008270' => 'cla', 'COL.COLO4_11763' => 'col', 'COL.COLO4_19876' => 'col', 'COL.COLO4_21481' => 'col', 'Cpa.g.sc118.34' => 'cpa', 'Cpa.g.sc32.13' => 'cpa', 'Cpa.g.sc58.103' => 'cpa', 'Cre03.g183850' => 'cre', 'Cre06.g306350' => 'cre', 'Cre07.g334800' => 'cre', 'Cre12.g487900' => 'cre', 'Cre14.g626700' => 'cre', 'Cre16.g658400' => 'cre', 'Cre17.g700950' => 'cre', 'CsaV3_1G014830' => 'csa', 'CsaV3_3G013320' => 'csa', 'CsaV3_3G019210' => 'csa', 'CsaV3_3G019220' => 'csa', 'CsaV3_6G004230' => 'csa', 'CSS0003773' => 'camsi', 'CSS0004563' => 'camsi', 'CSS0013949' => 'camsi', 'CSS0025971' => 'camsi', 'CSS0028570' => 'camsi', 'CSS0033127' => 'camsi', 'CSS0036051' => 'camsi', 'CSS0040087' => 'camsi', 'CSS0043179' => 'camsi', 'DCAR_006161' => 'dca', 'DCAR_010351' => 'dca', 'DCAR_012197' => 'dca', 'DCAR_024162' => 'dca', 'Dinv01030' => 'din', 'Dinv10924' => 'din', 'Dinv11835' => 'din', 'Dinv22841' => 'din', 'Dinv42553' => 'din', 'Duzib052G0560' => 'dzi', 'Duzib132G0389' => 'dzi', 'Duzib150G1181' => 'dzi', 'Duzib168G0623' => 'dzi', 'Duzib170G1036' => 'dzi', 'Duzib212G0200' => 'dzi', 'Duzib248G0194' => 'dzi', 'ECA232G2193' => 'eca', 'ECA233G0302' => 'eca', 'ECA234G2813' => 'eca', 'ECA234G4866' => 'eca', 'ECA240G3932' => 'eca', 'ECA248G0385' => 'eca', 'EL10Ac2g04781' => 'bvu', 'EL10Ac3g06445' => 'bvu', 'EL10Ac7g15825' => 'bvu', 'EL10Ac8g18550' => 'bvu', 'Eucgr.B03849' => 'egr', 'Eucgr.I02744' => 'egr', 'Eucgr.J00264' => 'egr', 'Eucgr.J00493' => 'egr', 'FAN04G2181' => 'fan', 'FAN07G2666' => 'fan', 'FAN11G0024' => 'fan', 'FAN12G1105' => 'fan', 'FAN13G0302' => 'fan', 'FAN15G2781' => 'fan', 'FAN16G1274' => 'fan', 'FAN17G2988' => 'fan', 'FAN18G2621' => 'fan', 'FAN21G0013' => 'fan', 'FAN22G1211' => 'fan', 'FAN25G3626' => 'fan', 'FvH4_2g09491' => 'fve', 'FvH4_3g24910' => 'fve', 'FvH4_4g15630' => 'fve', 'FvH4_5g28820' => 'fve', 'Glyma.01G238000' => 'gma', 'Glyma.05G168400' => 'gma', 'Glyma.08G126800' => 'gma', 'Glyma.08G188500' => 'gma', 'Glyma.10G278900' => 'gma', 'Glyma.11G005700' => 'gma', 'Glyma.11G183300' => 'gma', 'Glyma.12G089200' => 'gma', 'Glyma.12G169400' => 'gma', 'Glyma.12G169500' => 'gma', 'Glyma.12G169600' => 'gma', 'Glyma.20G110800' => 'gma', 'Gohir.A03G192900' => 'ghi', 'Gohir.A03G193000' => 'ghi', 'Gohir.A05G080700' => 'ghi', 'Gohir.A09G216000' => 'ghi', 'Gohir.A12G027700' => 'ghi', 'Gohir.A13G036200' => 'ghi', 'Gohir.A13G222600' => 'ghi', 'Gohir.D02G213900' => 'ghi', 'Gohir.D02G214000' => 'ghi', 'Gohir.D05G083700' => 'ghi', 'Gohir.D05G083800' => 'ghi', 'Gohir.D05G083850' => 'ghi', 'Gohir.D08G015400' => 'ghi', 'Gohir.D09G218400' => 'ghi', 'Gohir.D12G027100' => 'ghi', 'Gohir.D13G034500' => 'ghi', 'Gohir.D13G227400' => 'ghi', 'Gorai.005G241800' => 'gra', 'Gorai.005G241900' => 'gra', 'Gorai.006G239400' => 'gra', 'Gorai.008G027600' => 'gra', 'Gorai.009G085400' => 'gra', 'Gorai.009G085500' => 'gra', 'Gorai.013G039000' => 'gra', 'Gorai.013G194800' => 'gra', 'Gorai.013G257900' => 'gra', 'GSVIVG01000982001' => 'vvi', 'GSVIVG01017981001' => 'vvi', 'HanXRQChr01g0024061' => 'han', 'HanXRQChr09g0247831' => 'han', 'HanXRQChr10g0294611' => 'han', 'HanXRQChr10g0294621' => 'han', 'HanXRQChr11g0346821' => 'han', 'HanXRQChr13g0397461' => 'han', 'HanXRQChr16g0513651' => 'han', 'HanXRQChr16g0513701' => 'han', 'Haze_00897' => 'cav', 'Haze_01745' => 'cav', 'Haze_02486' => 'cav', 'Haze_02487' => 'cav', 'Haze_23374' => 'cav', 'Hma1.2p1_0578F.1_g182520' => 'hma', 'Hma1.2p1_0602F.1_g187350' => 'hma', 'Hma1.2p1_0602F.1_g187360' => 'hma', 'Hma1.2p1_0874F.1_g231320' => 'hma', 'Hma1.2p1_1197F.1_g266210' => 'hma', 'Hma1.2p1_1197F.1_g266220' => 'hma', 'Hma1.2p1_2167F.1_g315895' => 'hma', 'Hma1.2p1_2190F.1_g316640' => 'hma', 'Hma1.2p1_3645F.1_g337153' => 'hma', 'HPP92_004907' => 'vpl', 'HPP92_012134' => 'vpl', 'HPP92_025136' => 'vpl', 'HPP92_026087' => 'vpl', 'Hund06782' => 'sun', 'Hund06784' => 'sun', 'Lalb_Chr01g0004861' => 'lal', 'Lalb_Chr02g0140591' => 'lal', 'Lalb_Chr02g0140611' => 'lal', 'Lalb_Chr03g0028101' => 'lal', 'Lalb_Chr07g0185791' => 'lal', 'Lalb_Chr12g0204491' => 'lal', 'Lalb_Chr13g0295671' => 'lal', 'Lalb_Chr19g0136461' => 'lal', 'Lalb_Chr21g0309191' => 'lal', 'Lj1g0028158' => 'lja', 'Lj1P236T38' => 'lonja', 'Lj2C32G2' => 'lonja', 'Lj2P944T8' => 'lonja', 'Lj2P963T15' => 'lonja', 'Lj3g0011788' => 'lja', 'Lj4g0025027' => 'lja', 'Lj5P255T36' => 'lonja', 'Lj6g0018866' => 'lja', 'Lj6P608T31' => 'lonja', 'LjContig00408g0008879' => 'lja', 'Lsat_1_v5_gn_5_105820' => 'lsa', 'Lsat_1_v5_gn_6_38800' => 'lsa', 'Lsat_1_v5_gn_7_67141' => 'lsa', 'Manes.04G003400' => 'mes', 'Manes.07G020000' => 'mes', 'Manes.07G020100' => 'mes', 'Manes.07G020150' => 'mes', 'Manes.10G061500' => 'mes', 'Manes.10G123200' => 'mes', 'Manes.11G161900' => 'mes', 'Manes.15G029300' => 'mes', 'Mapoly0071s0018' => 'mpo', 'Mapoly0082s0023' => 'mpo', 'Mapoly3477s0001' => 'mpo', 'MBI05_g31233_MAGBIO' => 'mbi', 'MBI09_g05946_MAGBIO' => 'mbi', 'MBI09_g05947_MAGBIO' => 'mbi', 'MBI17_g08346_MAGBIO' => 'mbi', 'MCO04G038' => 'mco', 'MCO09G370' => 'mco', 'MCO13G605' => 'mco', 'MD00G1075500' => 'mdo', 'MD03G1144300' => 'mdo', 'MD08G1236800' => 'mdo', 'MD13G1193300' => 'mdo', 'MD15G1428700' => 'mdo', 'Medtr1g112030' => 'mtr', 'Medtr1g112050' => 'mtr', 'Medtr2g006290' => 'mtr', 'Medtr2g086510' => 'mtr', 'Medtr4g053120' => 'mtr', 'Medtr5g006320' => 'mtr', 'Medtr8g088720' => 'mtr', 'MELO3C004712.2' => 'cme', 'MELO3C006533.2' => 'cme', 'MELO3C019438.2' => 'cme', 'MELO3C019440.2' => 'cme', 'MELO3C019441.2' => 'cme', 'MELO3C019895.2' => 'cme', 'Migut.B00811' => 'egut', 'Migut.D02447' => 'egut', 'Migut.F00875' => 'egut', 'Migut.N00186' => 'egut', 'Migut.N01051' => 'egut', 'Migut.N02491' => 'egut', 'Migut.O00784' => 'egut', 'MSTRG.12367' => 'ama', 'MSTRG.18756' => 'ama', 'MSTRG.21042' => 'ama', 'Nitab4.5_0000559g0040' => 'nta', 'Nitab4.5_0000667g0190' => 'nta', 'Nitab4.5_0000755g0160' => 'nta', 'Nitab4.5_0001216g0080' => 'nta', 'Nitab4.5_0004069g0040' => 'nta', 'Nitab4.5_0004129g0010' => 'nta', 'Nitab4.5_0005744g0030' => 'nta', 'Nitab4.5_0006996g0030' => 'nta', 'Nitab4.5_0008971g0040' => 'nta', 'Nitab4.5_0009769g0020' => 'nta', 'Nitab4.5_0009833g0010' => 'nta', 'Nitab4.5_0013140g0020' => 'nta', 'Nn003s41376' => 'nnu', 'Nn1g01857' => 'nnu', 'Nn1g03611' => 'nnu', 'Nn1g06853' => 'nnu', 'Nn3g18360' => 'nnu', 'Nn4g26328' => 'nnu', 'Nn5g27531' => 'nnu', 'Nn6g34899' => 'nnu', 'Nn7g36299' => 'nnu', 'Oeu021485.1' => 'oeu', 'Oeu022433.1' => 'oeu', 'Oeu032111.1' => 'oeu', 'Oeu051608.1' => 'oeu', 'Os01g0860601' => 'osa', 'Os03g0659200' => 'osa', 'Os03g0835900' => 'osa', 'Os04g0412200' => 'osa', 'Os05g0443500' => 'osa', 'Os07g0251500' => 'osa', 'Os08g0104600' => 'osa', 'Peaxi162Scf00003g00047' => 'pax', 'Peaxi162Scf00003g00052' => 'pax', 'Peaxi162Scf00003g00394' => 'pax', 'Peaxi162Scf00091g00621' => 'pax', 'Peaxi162Scf00152g00146' => 'pax', 'Peaxi162Scf00173g00025' => 'pax', 'Peaxi162Scf00195g00102' => 'pax', 'Peaxi162Scf00402g00013' => 'pax', 'Peaxi162Scf00519g00618' => 'pax', 'PGR004G2838' => 'pgr', 'PGR044G2275' => 'pgr', 'PGR102G1377' => 'pgr', 'PGR119G1245' => 'pgr', 'PGR142G4449' => 'pgr', 'PGSC0003DMG400004532' => 'stu', 'PGSC0003DMG400011950' => 'stu', 'PGSC0003DMG400023391' => 'stu', 'PGSC0003DMG400023985' => 'stu', 'PGSC0003DMG400026360' => 'stu', 'PGSC0003DMG400035711' => 'stu', 'PGSC0003DMG400037286' => 'stu', 'PGSC0003DMG402005881' => 'stu', 'Phvul.002G045400' => 'pvu', 'Phvul.006G216600' => 'pvu', 'Phvul.006G216700' => 'pvu', 'Phvul.006G216800' => 'pvu', 'Phvul.007G022500' => 'pvu', 'Phvul.011G094400' => 'pvu', 'Potri.001G470700' => 'ptr', 'Potri.003G015200' => 'ptr', 'Potri.004G202500' => 'ptr', 'Potri.004G218400' => 'ptr', 'Potri.008G020100' => 'ptr', 'Potri.008G153200' => 'ptr', 'Potri.009G163800' => 'ptr', 'Potri.010G087300' => 'ptr', 'Potri.010G239100' => 'ptr', 'Pp3c10_16100' => 'ppa', 'Pp3c10_16880' => 'ppa', 'Pp3c16_6230' => 'ppa', 'Pp3c17_18910' => 'ppa', 'Pp3c3_22119' => 'ppa', 'Pp3c3_22140' => 'ppa', 'Pp3c4_8159' => 'ppa', 'Pp3c4_8171' => 'ppa', 'Pp3c4_8330' => 'ppa', 'PRCOL_00004098' => 'pco', 'Prupe.1G013900' => 'ppe', 'Prupe.1G226300' => 'ppe', 'Prupe.1G573600' => 'ppe', 'Prupe.6G130100' => 'ppe', 'Psat3g090040' => 'psa', 'Psat4g210440' => 'psa', 'Psat6g231040' => 'psa', 'Psat6g231080' => 'psa', 'Psat7g063000' => 'psa', 'Psat7g188000' => 'psa', 'Psat7g188040' => 'psa', 'PSO017G0206' => 'pso', 'PSO170G0501' => 'pso', 'PSO170G6422' => 'pso', 'PSO210G7739' => 'pso', 'PSO339G1808' => 'pso', 'PSO339G6135' => 'pso', 'PSO384G0010' => 'pso', 'PSO384G0964' => 'pso', 'PSO761G0050' => 'pso', 'PSO782G4085' => 'pso', 'QL01p012264' => 'qlo', 'QL02p099491' => 'qlo', 'QL03p033868' => 'qlo', 'QL04p046678' => 'qlo', 'QL06p002448' => 'qlo', 'RcHm_v2.0_Chr4g0416181' => 'rch', 'RcHm_v2.0_Chr5g0044701' => 'rch', 'RcHm_v2.0_Chr6g0265781' => 'rch', 'RcHm_v2.0_Chr7g0221031' => 'rch', 'Rhsim04G0202000' => 'rsi', 'Rhsim11G0127300' => 'rsi', 'Rhsim13G0111800' => 'rsi', 'Sabra01G0165600' => 'sbr', 'Sabra03G0008300' => 'sbr', 'Sabra04G0136900' => 'sbr', 'Sabra08G0013400' => 'sbr', 'Sabra08G0116800' => 'sbr', 'Sabra09G0128000' => 'sbr', 'Sabra10G0055500' => 'sbr', 'Sabra10G0073300' => 'sbr', 'SalBow3G0385' => 'sbo', 'SalBow3G1119' => 'sbo', 'SalBow3G2005' => 'sbo', 'SalBow6G2563' => 'sbo', 'SalBow6G6386' => 'sbo', 'Sc06g0008800' => 'sci', 'Sc07g0004950' => 'sci', 'Sc09g0005340' => 'sci', 'Sc13g0004410' => 'sci', 'Sc21g0007090' => 'sci', 'Sed0009285' => 'sed', 'Sed0017583' => 'sed', 'Sed0019699' => 'sed', 'Sed0023107' => 'sed', 'SEGI_10916' => 'sgi', 'SEGI_16217' => 'sgi', 'SEGI_19466' => 'sgi', 'SEGI_41115' => 'sgi', 'SGA_v2.0_scaffold111G31534' => 'sas', 'SGA_v2.0_scaffold22G09864' => 'sas', 'SGA_v2.0_scaffold338G49219' => 'sas', 'SGA_v2.0_scaffold92G28298' => 'sas', 'SMO119G0064' => 'smo', 'SMO223G0038' => 'smo', 'SMO347G0584' => 'smo', 'SMO351G0010' => 'smo', 'SMO356G0404' => 'smo', 'Solyc01g103920.3' => 'sly', 'Solyc04g009710.2' => 'sly', 'Solyc05g055280.2' => 'sly', 'Solyc10g044520.3' => 'sly', 'Solyc10g075160.1' => 'sly', 'Solyc11g006910.3' => 'sly', 'Solyc11g068430.3' => 'sly', 'Sopen01g046310' => 'spe', 'Sopen03g001200' => 'spe', 'Sopen04g004830' => 'spe', 'Sopen05g033720' => 'spe', 'Sopen06g030740' => 'spe', 'Sopen10g013090' => 'spe', 'Sopen10g027630' => 'spe', 'Sopen10g027640' => 'spe', 'Sopen11g002820' => 'spe', 'Sopen11g027140' => 'spe', 'Sp1g09680' => 'spa', 'Sp2g03630' => 'spa', 'Sp4g10320' => 'spa', 'Sp6g33400' => 'spa', 'Sp7g13030' => 'spa', 'TAR365G0317' => 'tar', 'TAR376G0979' => 'tar', 'TAR623G1665' => 'tar', 'TAR633G2373' => 'tar', 'TAR636G1400' => 'tar', 'THA.LOC104800529' => 'tha', 'THA.LOC104808547' => 'tha', 'THA.LOC104809615' => 'tha', 'THA.LOC104815724' => 'tha', 'THA.LOC104818480' => 'tha', 'THA.LOC104819179' => 'tha', 'THA.LOC104822270' => 'tha', 'THA.LOC104826425' => 'tha', 'Thecc.02G089700' => 'tca', 'Thecc.04G232300' => 'tca', 'Thecc.09G283400' => 'tca', 'Thhalv10009020m.g' => 'esa', 'Thhalv10015506m.g' => 'esa', 'Thhalv10017364m.g' => 'esa', 'Thhalv10023742m.g' => 'esa', 'Thhalv10026483m.g' => 'esa', 'TPR.G17232' => 'tpr', 'TPR.G2133' => 'tpr', 'TPR.G2498' => 'tpr', 'TPR.G31942' => 'tpr', 'TPR.G37877' => 'tpr', 'TPR.G4571' => 'tpr', 'TWI14G1113' => 'twi', 'TWI15G0426' => 'twi', 'TWI31G1005' => 'twi', 'TWI38G0513' => 'twi', 'TWI38G1484' => 'twi', 'TWI73G1098' => 'twi', 'unitig_26.g10519' => 'ugi', 'unitig_736.g22395' => 'ugi', 'unitig_747.g21234' => 'ugi', 'unitig_747.g21942' => 'ugi', 'vmacro14351' => 'vma', 'VMungo0540G0082' => 'vmu', 'VMungo0540G0405' => 'vmu', 'VMungo0540G1486' => 'vmu', 'VMungo0540G1692' => 'vmu', 'VMungo0720G2473' => 'vmu', 'VMungo1127G1562' => 'vmu', 'VMungo1215G1918' => 'vmu', 'Zm00001eb052650' => 'zma', 'Zm00001eb063710' => 'zma', 'Zm00001eb083950' => 'zma', 'Zm00001eb174420' => 'zma', 'Zm00001eb260140' => 'zma', 'Zm00001eb260150' => 'zma', 'Zm00001eb260160' => 'zma', 'Zm00001eb348290' => 'zma', 'Zm00001eb366870' => 'zma', 'Zm00001eb421930' => 'zma' ), 'gf_id' => 'HOM05D001025', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001025' ), 'data_identifier' => 'HOM05D001025', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001025', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '592', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p22650' => 'bna', 'A01p29720' => 'bna', 'A03p26560' => 'bna', 'A03p68820' => 'bna', 'A04p20980' => 'bna', 'A06p07730' => 'bna', 'A07p18260' => 'bna', 'A08p33710' => 'bna', 'A09p16970' => 'bna', 'A10p27490' => 'bna', 'Aa31LG1G17300' => 'aar', 'Aa31LG1G3910' => 'aar', 'Aa31LG2G9630' => 'aar', 'Aa31LG5G8360' => 'aar', 'Aa31LG9G2410' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4699' => 'aag', 'Actinidia23512' => 'ach', 'Actinidia37080' => 'ach', 'Ah.01g020380' => 'amhyb', 'Ah.08g215710' => 'amhyb', 'Ah.09g225110' => 'amhyb', 'Ah.10g036680' => 'amhyb', 'AL1G21940' => 'aly', 'AL2G15540' => 'aly', 'AL4G21520' => 'aly', 'AL7G40960' => 'aly', 'Aqoxy2G01191' => 'aox', 'Aqoxy2G03393' => 'aox', 'Aqoxy4G02775' => 'aox', 'Aqoxy6G00058' => 'aox', 'arahy.Tifrunner.gnm1.ann1.9X74H2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CW3FX9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R485W7' => 'arhy', 'AT1G10960' => 'ath', 'AT1G60950' => 'ath', 'AT2G27510' => 'ath', 'AT4G14890' => 'ath', 'AT5G10000' => 'ath', 'ATR0665G624' => 'atr', 'ATR0697G138' => 'atr', 'ATR0776G046' => 'atr', 'ATR1134G135' => 'atr', 'Atru.chr12.1025' => 'acertr', 'Atru.chr3.3241' => 'acertr', 'Atru.chr4.2460' => 'acertr', 'AUR62007427' => 'cqu', 'AUR62010960' => 'cqu', 'AUR62012201' => 'cqu', 'AUR62021470' => 'cqu', 'AUR62022834' => 'cqu', 'AUR62033635' => 'cqu', 'AUR62036186' => 'cqu', 'BcaB01g03077' => 'bca', 'BcaB02g10093' => 'bca', 'BcaB04g20295' => 'bca', 'BcaB06g28147' => 'bca', 'BcaB07g31253' => 'bca', 'BcaC01g04946' => 'bca', 'BcaC02g10614' => 'bca', 'BcaC02g10885' => 'bca', 'BcaC04g19356' => 'bca', 'BcaC04g22297' => 'bca', 'BcaC05g24977' => 'bca', 'BcaC06g31823' => 'bca', 'BcaC07g38633' => 'bca', 'BcaC09g49353' => 'bca', 'BcaC09g50168' => 'bca', 'BcaNung00322' => 'bca', 'BcaNung04769' => 'bca', 'BolC1t02753H' => 'bol', 'BolC1t03721H' => 'bol', 'BolC3t15525H' => 'bol', 'BolC4t23903H' => 'bol', 'BolC4t24231H' => 'bol', 'BolC4t27209H' => 'bol', 'BolC5t29671H' => 'bol', 'BolC8t49044H' => 'bol', 'BolC9t54999H' => 'bol', 'BolC9t59517H' => 'bol', 'BraA01t02178Z' => 'bra', 'BraA01t03099Z' => 'bra', 'BraA03t11867Z' => 'bra', 'BraA04t17667Z' => 'bra', 'BraA07t29542Z' => 'bra', 'BraA08t35287Z' => 'bra', 'BraA09t37334Z' => 'bra', 'BraA10t44801Z' => 'bra', 'BraSC39t46181Z' => 'bra', 'C01p28240' => 'bna', 'C01p37530' => 'bna', 'C03p31820' => 'bna', 'C04p24080' => 'bna', 'C04p25790' => 'bna', 'C04p56770' => 'bna', 'C05p09310' => 'bna', 'C09p21010' => 'bna', 'C09p67560' => 'bna', 'CAN.G1324.7' => 'can', 'CAN.G1358.10' => 'can', 'CAN.G1550.2' => 'can', 'CAN.G186.56' => 'can', 'CAN.G1965.1' => 'can', 'CAN.G645.15' => 'can', 'CAN.G798.26' => 'can', 'CAN.G798.27' => 'can', 'CAN.G798.29' => 'can', 'CAN.G919.31' => 'can', 'CANSAT11G0133' => 'cansat', 'CANSAT11G1171' => 'cansat', 'CANSAT11G2056' => 'cansat', 'CANSAT56G1202' => 'cansat', 'CANSAT56G1514' => 'cansat', 'CANSAT78G0455' => 'cansat', 'CARHR011190' => 'chi', 'CARHR051980' => 'chi', 'CARHR120170' => 'chi', 'CARHR203310' => 'chi', 'CARHR221490' => 'chi', 'Carub.0001s1054' => 'cru', 'Carub.0002s0431' => 'cru', 'Carub.0004s0818' => 'cru', 'Carub.0006s0846' => 'cru', 'Carub.0007s2722' => 'cru', 'Ca_00058_v3' => 'car', 'Ca_17831_v3' => 'car', 'Ca_19408_v3' => 'car', 'Ca_24397_v3' => 'car', 'Ca_25664_v3' => 'car', 'CBR_g21818' => 'cbr', 'CBR_g31195' => 'cbr', 'CBR_g32282' => 'cbr', 'CBR_g39599' => 'cbr', 'CBR_g49410' => 'cbr', 'Cc01_g09120' => 'ccan', 'Cc01_g09130' => 'ccan', 'Cc02_g09630' => 'ccan', 'Cc02_g22810' => 'ccan', 'Cc03_g03810' => 'ccan', 'CDE02G3718' => 'cde', 'CDE04G3183' => 'cde', 'CDE07G1046' => 'cde', 'CDE08G0480' => 'cde', 'Cfa005493' => 'cfa', 'Cfa010312' => 'cfa', 'Cfa015648' => 'cfa', 'Ciclev10002793m.g' => 'ccl', 'Ciclev10003356m.g' => 'ccl', 'Ciclev10006141m.g' => 'ccl', 'Ciclev10016676m.g' => 'ccl', 'Ciclev10017081m.g' => 'ccl', 'Ciclev10029499m.g' => 'ccl', 'CiPaw.01G166300' => 'cil', 'CiPaw.06G145600' => 'cil', 'CiPaw.13G040100' => 'cil', 'CiPaw.13G135800' => 'cil', 'ClCG01G012230' => 'cla', 'ClCG05G009510' => 'cla', 'ClCG08G008270' => 'cla', 'COL.COLO4_11763' => 'col', 'COL.COLO4_19876' => 'col', 'COL.COLO4_21481' => 'col', 'Cpa.g.sc118.34' => 'cpa', 'Cpa.g.sc32.13' => 'cpa', 'Cpa.g.sc58.103' => 'cpa', 'Cre03.g183850' => 'cre', 'Cre06.g306350' => 'cre', 'Cre07.g334800' => 'cre', 'Cre12.g487900' => 'cre', 'Cre14.g626700' => 'cre', 'Cre16.g658400' => 'cre', 'Cre17.g700950' => 'cre', 'CsaV3_1G014830' => 'csa', 'CsaV3_3G013320' => 'csa', 'CsaV3_3G019210' => 'csa', 'CsaV3_3G019220' => 'csa', 'CsaV3_6G004230' => 'csa', 'CSS0003773' => 'camsi', 'CSS0004563' => 'camsi', 'CSS0013949' => 'camsi', 'CSS0025971' => 'camsi', 'CSS0028570' => 'camsi', 'CSS0033127' => 'camsi', 'CSS0036051' => 'camsi', 'CSS0040087' => 'camsi', 'CSS0043179' => 'camsi', 'DCAR_006161' => 'dca', 'DCAR_010351' => 'dca', 'DCAR_012197' => 'dca', 'DCAR_024162' => 'dca', 'Dinv01030' => 'din', 'Dinv10924' => 'din', 'Dinv11835' => 'din', 'Dinv22841' => 'din', 'Dinv42553' => 'din', 'Duzib052G0560' => 'dzi', 'Duzib132G0389' => 'dzi', 'Duzib150G1181' => 'dzi', 'Duzib168G0623' => 'dzi', 'Duzib170G1036' => 'dzi', 'Duzib212G0200' => 'dzi', 'Duzib248G0194' => 'dzi', 'ECA232G2193' => 'eca', 'ECA233G0302' => 'eca', 'ECA234G2813' => 'eca', 'ECA234G4866' => 'eca', 'ECA240G3932' => 'eca', 'ECA248G0385' => 'eca', 'EL10Ac2g04781' => 'bvu', 'EL10Ac3g06445' => 'bvu', 'EL10Ac7g15825' => 'bvu', 'EL10Ac8g18550' => 'bvu', 'Eucgr.B03849' => 'egr', 'Eucgr.I02744' => 'egr', 'Eucgr.J00264' => 'egr', 'Eucgr.J00493' => 'egr', 'FAN04G2181' => 'fan', 'FAN07G2666' => 'fan', 'FAN11G0024' => 'fan', 'FAN12G1105' => 'fan', 'FAN13G0302' => 'fan', 'FAN15G2781' => 'fan', 'FAN16G1274' => 'fan', 'FAN17G2988' => 'fan', 'FAN18G2621' => 'fan', 'FAN21G0013' => 'fan', 'FAN22G1211' => 'fan', 'FAN25G3626' => 'fan', 'FvH4_2g09491' => 'fve', 'FvH4_3g24910' => 'fve', 'FvH4_4g15630' => 'fve', 'FvH4_5g28820' => 'fve', 'Glyma.01G238000' => 'gma', 'Glyma.05G168400' => 'gma', 'Glyma.08G126800' => 'gma', 'Glyma.08G188500' => 'gma', 'Glyma.10G278900' => 'gma', 'Glyma.11G005700' => 'gma', 'Glyma.11G183300' => 'gma', 'Glyma.12G089200' => 'gma', 'Glyma.12G169400' => 'gma', 'Glyma.12G169500' => 'gma', 'Glyma.12G169600' => 'gma', 'Glyma.20G110800' => 'gma', 'Gohir.A03G192900' => 'ghi', 'Gohir.A03G193000' => 'ghi', 'Gohir.A05G080700' => 'ghi', 'Gohir.A09G216000' => 'ghi', 'Gohir.A12G027700' => 'ghi', 'Gohir.A13G036200' => 'ghi', 'Gohir.A13G222600' => 'ghi', 'Gohir.D02G213900' => 'ghi', 'Gohir.D02G214000' => 'ghi', 'Gohir.D05G083700' => 'ghi', 'Gohir.D05G083800' => 'ghi', 'Gohir.D05G083850' => 'ghi', 'Gohir.D08G015400' => 'ghi', 'Gohir.D09G218400' => 'ghi', 'Gohir.D12G027100' => 'ghi', 'Gohir.D13G034500' => 'ghi', 'Gohir.D13G227400' => 'ghi', 'Gorai.005G241800' => 'gra', 'Gorai.005G241900' => 'gra', 'Gorai.006G239400' => 'gra', 'Gorai.008G027600' => 'gra', 'Gorai.009G085400' => 'gra', 'Gorai.009G085500' => 'gra', 'Gorai.013G039000' => 'gra', 'Gorai.013G194800' => 'gra', 'Gorai.013G257900' => 'gra', 'GSVIVG01000982001' => 'vvi', 'GSVIVG01017981001' => 'vvi', 'HanXRQChr01g0024061' => 'han', 'HanXRQChr09g0247831' => 'han', 'HanXRQChr10g0294611' => 'han', 'HanXRQChr10g0294621' => 'han', 'HanXRQChr11g0346821' => 'han', 'HanXRQChr13g0397461' => 'han', 'HanXRQChr16g0513651' => 'han', 'HanXRQChr16g0513701' => 'han', 'Haze_00897' => 'cav', 'Haze_01745' => 'cav', 'Haze_02486' => 'cav', 'Haze_02487' => 'cav', 'Haze_23374' => 'cav', 'Hma1.2p1_0578F.1_g182520' => 'hma', 'Hma1.2p1_0602F.1_g187350' => 'hma', 'Hma1.2p1_0602F.1_g187360' => 'hma', 'Hma1.2p1_0874F.1_g231320' => 'hma', 'Hma1.2p1_1197F.1_g266210' => 'hma', 'Hma1.2p1_1197F.1_g266220' => 'hma', 'Hma1.2p1_2167F.1_g315895' => 'hma', 'Hma1.2p1_2190F.1_g316640' => 'hma', 'Hma1.2p1_3645F.1_g337153' => 'hma', 'HPP92_004907' => 'vpl', 'HPP92_012134' => 'vpl', 'HPP92_025136' => 'vpl', 'HPP92_026087' => 'vpl', 'Hund06782' => 'sun', 'Hund06784' => 'sun', 'Lalb_Chr01g0004861' => 'lal', 'Lalb_Chr02g0140591' => 'lal', 'Lalb_Chr02g0140611' => 'lal', 'Lalb_Chr03g0028101' => 'lal', 'Lalb_Chr07g0185791' => 'lal', 'Lalb_Chr12g0204491' => 'lal', 'Lalb_Chr13g0295671' => 'lal', 'Lalb_Chr19g0136461' => 'lal', 'Lalb_Chr21g0309191' => 'lal', 'Lj1g0028158' => 'lja', 'Lj1P236T38' => 'lonja', 'Lj2C32G2' => 'lonja', 'Lj2P944T8' => 'lonja', 'Lj2P963T15' => 'lonja', 'Lj3g0011788' => 'lja', 'Lj4g0025027' => 'lja', 'Lj5P255T36' => 'lonja', 'Lj6g0018866' => 'lja', 'Lj6P608T31' => 'lonja', 'LjContig00408g0008879' => 'lja', 'Lsat_1_v5_gn_5_105820' => 'lsa', 'Lsat_1_v5_gn_6_38800' => 'lsa', 'Lsat_1_v5_gn_7_67141' => 'lsa', 'Manes.04G003400' => 'mes', 'Manes.07G020000' => 'mes', 'Manes.07G020100' => 'mes', 'Manes.07G020150' => 'mes', 'Manes.10G061500' => 'mes', 'Manes.10G123200' => 'mes', 'Manes.11G161900' => 'mes', 'Manes.15G029300' => 'mes', 'Mapoly0071s0018' => 'mpo', 'Mapoly0082s0023' => 'mpo', 'Mapoly3477s0001' => 'mpo', 'MBI05_g31233_MAGBIO' => 'mbi', 'MBI09_g05946_MAGBIO' => 'mbi', 'MBI09_g05947_MAGBIO' => 'mbi', 'MBI17_g08346_MAGBIO' => 'mbi', 'MCO04G038' => 'mco', 'MCO09G370' => 'mco', 'MCO13G605' => 'mco', 'MD00G1075500' => 'mdo', 'MD03G1144300' => 'mdo', 'MD08G1236800' => 'mdo', 'MD13G1193300' => 'mdo', 'MD15G1428700' => 'mdo', 'Medtr1g112030' => 'mtr', 'Medtr1g112050' => 'mtr', 'Medtr2g006290' => 'mtr', 'Medtr2g086510' => 'mtr', 'Medtr4g053120' => 'mtr', 'Medtr5g006320' => 'mtr', 'Medtr8g088720' => 'mtr', 'MELO3C004712.2' => 'cme', 'MELO3C006533.2' => 'cme', 'MELO3C019438.2' => 'cme', 'MELO3C019440.2' => 'cme', 'MELO3C019441.2' => 'cme', 'MELO3C019895.2' => 'cme', 'Migut.B00811' => 'egut', 'Migut.D02447' => 'egut', 'Migut.F00875' => 'egut', 'Migut.N00186' => 'egut', 'Migut.N01051' => 'egut', 'Migut.N02491' => 'egut', 'Migut.O00784' => 'egut', 'MSTRG.12367' => 'ama', 'MSTRG.18756' => 'ama', 'MSTRG.21042' => 'ama', 'Nitab4.5_0000559g0040' => 'nta', 'Nitab4.5_0000667g0190' => 'nta', 'Nitab4.5_0000755g0160' => 'nta', 'Nitab4.5_0001216g0080' => 'nta', 'Nitab4.5_0004069g0040' => 'nta', 'Nitab4.5_0004129g0010' => 'nta', 'Nitab4.5_0005744g0030' => 'nta', 'Nitab4.5_0006996g0030' => 'nta', 'Nitab4.5_0008971g0040' => 'nta', 'Nitab4.5_0009769g0020' => 'nta', 'Nitab4.5_0009833g0010' => 'nta', 'Nitab4.5_0013140g0020' => 'nta', 'Nn003s41376' => 'nnu', 'Nn1g01857' => 'nnu', 'Nn1g03611' => 'nnu', 'Nn1g06853' => 'nnu', 'Nn3g18360' => 'nnu', 'Nn4g26328' => 'nnu', 'Nn5g27531' => 'nnu', 'Nn6g34899' => 'nnu', 'Nn7g36299' => 'nnu', 'Oeu021485.1' => 'oeu', 'Oeu022433.1' => 'oeu', 'Oeu032111.1' => 'oeu', 'Oeu051608.1' => 'oeu', 'Os01g0860601' => 'osa', 'Os03g0659200' => 'osa', 'Os03g0835900' => 'osa', 'Os04g0412200' => 'osa', 'Os05g0443500' => 'osa', 'Os07g0251500' => 'osa', 'Os08g0104600' => 'osa', 'Peaxi162Scf00003g00047' => 'pax', 'Peaxi162Scf00003g00052' => 'pax', 'Peaxi162Scf00003g00394' => 'pax', 'Peaxi162Scf00091g00621' => 'pax', 'Peaxi162Scf00152g00146' => 'pax', 'Peaxi162Scf00173g00025' => 'pax', 'Peaxi162Scf00195g00102' => 'pax', 'Peaxi162Scf00402g00013' => 'pax', 'Peaxi162Scf00519g00618' => 'pax', 'PGR004G2838' => 'pgr', 'PGR044G2275' => 'pgr', 'PGR102G1377' => 'pgr', 'PGR119G1245' => 'pgr', 'PGR142G4449' => 'pgr', 'PGSC0003DMG400004532' => 'stu', 'PGSC0003DMG400011950' => 'stu', 'PGSC0003DMG400023391' => 'stu', 'PGSC0003DMG400023985' => 'stu', 'PGSC0003DMG400026360' => 'stu', 'PGSC0003DMG400035711' => 'stu', 'PGSC0003DMG400037286' => 'stu', 'PGSC0003DMG402005881' => 'stu', 'Phvul.002G045400' => 'pvu', 'Phvul.006G216600' => 'pvu', 'Phvul.006G216700' => 'pvu', 'Phvul.006G216800' => 'pvu', 'Phvul.007G022500' => 'pvu', 'Phvul.011G094400' => 'pvu', 'Potri.001G470700' => 'ptr', 'Potri.003G015200' => 'ptr', 'Potri.004G202500' => 'ptr', 'Potri.004G218400' => 'ptr', 'Potri.008G020100' => 'ptr', 'Potri.008G153200' => 'ptr', 'Potri.009G163800' => 'ptr', 'Potri.010G087300' => 'ptr', 'Potri.010G239100' => 'ptr', 'Pp3c10_16100' => 'ppa', 'Pp3c10_16880' => 'ppa', 'Pp3c16_6230' => 'ppa', 'Pp3c17_18910' => 'ppa', 'Pp3c3_22119' => 'ppa', 'Pp3c3_22140' => 'ppa', 'Pp3c4_8159' => 'ppa', 'Pp3c4_8171' => 'ppa', 'Pp3c4_8330' => 'ppa', 'PRCOL_00004098' => 'pco', 'Prupe.1G013900' => 'ppe', 'Prupe.1G226300' => 'ppe', 'Prupe.1G573600' => 'ppe', 'Prupe.6G130100' => 'ppe', 'Psat3g090040' => 'psa', 'Psat4g210440' => 'psa', 'Psat6g231040' => 'psa', 'Psat6g231080' => 'psa', 'Psat7g063000' => 'psa', 'Psat7g188000' => 'psa', 'Psat7g188040' => 'psa', 'PSO017G0206' => 'pso', 'PSO170G0501' => 'pso', 'PSO170G6422' => 'pso', 'PSO210G7739' => 'pso', 'PSO339G1808' => 'pso', 'PSO339G6135' => 'pso', 'PSO384G0010' => 'pso', 'PSO384G0964' => 'pso', 'PSO761G0050' => 'pso', 'PSO782G4085' => 'pso', 'QL01p012264' => 'qlo', 'QL02p099491' => 'qlo', 'QL03p033868' => 'qlo', 'QL04p046678' => 'qlo', 'QL06p002448' => 'qlo', 'RcHm_v2.0_Chr4g0416181' => 'rch', 'RcHm_v2.0_Chr5g0044701' => 'rch', 'RcHm_v2.0_Chr6g0265781' => 'rch', 'RcHm_v2.0_Chr7g0221031' => 'rch', 'Rhsim04G0202000' => 'rsi', 'Rhsim11G0127300' => 'rsi', 'Rhsim13G0111800' => 'rsi', 'Sabra01G0165600' => 'sbr', 'Sabra03G0008300' => 'sbr', 'Sabra04G0136900' => 'sbr', 'Sabra08G0013400' => 'sbr', 'Sabra08G0116800' => 'sbr', 'Sabra09G0128000' => 'sbr', 'Sabra10G0055500' => 'sbr', 'Sabra10G0073300' => 'sbr', 'SalBow3G0385' => 'sbo', 'SalBow3G1119' => 'sbo', 'SalBow3G2005' => 'sbo', 'SalBow6G2563' => 'sbo', 'SalBow6G6386' => 'sbo', 'Sc06g0008800' => 'sci', 'Sc07g0004950' => 'sci', 'Sc09g0005340' => 'sci', 'Sc13g0004410' => 'sci', 'Sc21g0007090' => 'sci', 'Sed0009285' => 'sed', 'Sed0017583' => 'sed', 'Sed0019699' => 'sed', 'Sed0023107' => 'sed', 'SEGI_10916' => 'sgi', 'SEGI_16217' => 'sgi', 'SEGI_19466' => 'sgi', 'SEGI_41115' => 'sgi', 'SGA_v2.0_scaffold111G31534' => 'sas', 'SGA_v2.0_scaffold22G09864' => 'sas', 'SGA_v2.0_scaffold338G49219' => 'sas', 'SGA_v2.0_scaffold92G28298' => 'sas', 'SMO119G0064' => 'smo', 'SMO223G0038' => 'smo', 'SMO347G0584' => 'smo', 'SMO351G0010' => 'smo', 'SMO356G0404' => 'smo', 'Solyc01g103920.3' => 'sly', 'Solyc04g009710.2' => 'sly', 'Solyc05g055280.2' => 'sly', 'Solyc10g044520.3' => 'sly', 'Solyc10g075160.1' => 'sly', 'Solyc11g006910.3' => 'sly', 'Solyc11g068430.3' => 'sly', 'Sopen01g046310' => 'spe', 'Sopen03g001200' => 'spe', 'Sopen04g004830' => 'spe', 'Sopen05g033720' => 'spe', 'Sopen06g030740' => 'spe', 'Sopen10g013090' => 'spe', 'Sopen10g027630' => 'spe', 'Sopen10g027640' => 'spe', 'Sopen11g002820' => 'spe', 'Sopen11g027140' => 'spe', 'Sp1g09680' => 'spa', 'Sp2g03630' => 'spa', 'Sp4g10320' => 'spa', 'Sp6g33400' => 'spa', 'Sp7g13030' => 'spa', 'TAR365G0317' => 'tar', 'TAR376G0979' => 'tar', 'TAR623G1665' => 'tar', 'TAR633G2373' => 'tar', 'TAR636G1400' => 'tar', 'THA.LOC104800529' => 'tha', 'THA.LOC104808547' => 'tha', 'THA.LOC104809615' => 'tha', 'THA.LOC104815724' => 'tha', 'THA.LOC104818480' => 'tha', 'THA.LOC104819179' => 'tha', 'THA.LOC104822270' => 'tha', 'THA.LOC104826425' => 'tha', 'Thecc.02G089700' => 'tca', 'Thecc.04G232300' => 'tca', 'Thecc.09G283400' => 'tca', 'Thhalv10009020m.g' => 'esa', 'Thhalv10015506m.g' => 'esa', 'Thhalv10017364m.g' => 'esa', 'Thhalv10023742m.g' => 'esa', 'Thhalv10026483m.g' => 'esa', 'TPR.G17232' => 'tpr', 'TPR.G2133' => 'tpr', 'TPR.G2498' => 'tpr', 'TPR.G31942' => 'tpr', 'TPR.G37877' => 'tpr', 'TPR.G4571' => 'tpr', 'TWI14G1113' => 'twi', 'TWI15G0426' => 'twi', 'TWI31G1005' => 'twi', 'TWI38G0513' => 'twi', 'TWI38G1484' => 'twi', 'TWI73G1098' => 'twi', 'unitig_26.g10519' => 'ugi', 'unitig_736.g22395' => 'ugi', 'unitig_747.g21234' => 'ugi', 'unitig_747.g21942' => 'ugi', 'vmacro14351' => 'vma', 'VMungo0540G0082' => 'vmu', 'VMungo0540G0405' => 'vmu', 'VMungo0540G1486' => 'vmu', 'VMungo0540G1692' => 'vmu', 'VMungo0720G2473' => 'vmu', 'VMungo1127G1562' => 'vmu', 'VMungo1215G1918' => 'vmu', 'Zm00001eb052650' => 'zma', 'Zm00001eb063710' => 'zma', 'Zm00001eb083950' => 'zma', 'Zm00001eb174420' => 'zma', 'Zm00001eb260140' => 'zma', 'Zm00001eb260150' => 'zma', 'Zm00001eb260160' => 'zma', 'Zm00001eb348290' => 'zma', 'Zm00001eb366870' => 'zma', 'Zm00001eb421930' => 'zma' ) $gf_id = 'HOM05D001025' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001025' ) $data_identifier = 'HOM05D001025' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 19, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 2, 'amhyb' => (int) 4, 'aly' => (int) 4, 'aox' => (int) 4, 'arhy' => (int) 3, 'ath' => (int) 5, 'atr' => (int) 4, 'acertr' => (int) 3, 'cqu' => (int) 7, 'bca' => (int) 17, 'bol' => (int) 10, 'bra' => (int) 9, 'can' => (int) 10, 'cansat' => (int) 6, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 5, 'cbr' => (int) 5, 'ccan' => (int) 5, 'cde' => (int) 4, 'cfa' => (int) 3, 'ccl' => (int) 6, 'cil' => (int) 4, 'cla' => (int) 3, 'col' => (int) 3, 'cpa' => (int) 3, 'cre' => (int) 7, 'csa' => (int) 5, 'camsi' => (int) 9, 'dca' => (int) 4, 'din' => (int) 5, 'dzi' => (int) 7, 'eca' => (int) 6, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 12, 'fve' => (int) 4, 'gma' => (int) 12, 'ghi' => (int) 17, 'gra' => (int) 9, 'vvi' => (int) 2, 'han' => (int) 8, 'cav' => (int) 5, 'hma' => (int) 9, 'vpl' => (int) 4, 'sun' => (int) 2, 'lal' => (int) 9, 'lja' => (int) 5, 'lonja' => (int) 6, 'lsa' => (int) 3, 'mes' => (int) 8, 'mpo' => (int) 3, 'mbi' => (int) 4, 'mco' => (int) 3, 'mdo' => (int) 5, 'mtr' => (int) 7, 'cme' => (int) 6, 'egut' => (int) 7, 'ama' => (int) 3, 'nta' => (int) 12, 'nnu' => (int) 9, 'oeu' => (int) 4, 'osa' => (int) 7, 'pax' => (int) 9, 'pgr' => (int) 5, 'stu' => (int) 8, 'pvu' => (int) 6, 'ptr' => (int) 9, 'ppa' => (int) 9, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 7, 'pso' => (int) 10, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 3, 'sbr' => (int) 8, 'sbo' => (int) 5, 'sci' => (int) 5, 'sed' => (int) 4, 'sgi' => (int) 4, 'sas' => (int) 4, 'smo' => (int) 5, 'sly' => (int) 7, 'spe' => (int) 10, 'spa' => (int) 5, 'tar' => (int) 5, 'tha' => (int) 8, 'tca' => (int) 3, 'esa' => (int) 5, 'tpr' => (int) 6, 'twi' => (int) 6, 'ugi' => (int) 4, 'vma' => (int) 1, 'vmu' => (int) 7, 'zma' => (int) 10 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb421930' $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' => 'HOM05D001025', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '592', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p22650' => 'bna', 'A01p29720' => 'bna', 'A03p26560' => 'bna', 'A03p68820' => 'bna', 'A04p20980' => 'bna', 'A06p07730' => 'bna', 'A07p18260' => 'bna', 'A08p33710' => 'bna', 'A09p16970' => 'bna', 'A10p27490' => 'bna', 'Aa31LG1G17300' => 'aar', 'Aa31LG1G3910' => 'aar', 'Aa31LG2G9630' => 'aar', 'Aa31LG5G8360' => 'aar', 'Aa31LG9G2410' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4699' => 'aag', 'Actinidia23512' => 'ach', 'Actinidia37080' => 'ach', 'Ah.01g020380' => 'amhyb', 'Ah.08g215710' => 'amhyb', 'Ah.09g225110' => 'amhyb', 'Ah.10g036680' => 'amhyb', 'AL1G21940' => 'aly', 'AL2G15540' => 'aly', 'AL4G21520' => 'aly', 'AL7G40960' => 'aly', 'Aqoxy2G01191' => 'aox', 'Aqoxy2G03393' => 'aox', 'Aqoxy4G02775' => 'aox', 'Aqoxy6G00058' => 'aox', 'arahy.Tifrunner.gnm1.ann1.9X74H2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CW3FX9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R485W7' => 'arhy', 'AT1G10960' => 'ath', 'AT1G60950' => 'ath', 'AT2G27510' => 'ath', 'AT4G14890' => 'ath', 'AT5G10000' => 'ath', 'ATR0665G624' => 'atr', 'ATR0697G138' => 'atr', 'ATR0776G046' => 'atr', 'ATR1134G135' => 'atr', 'Atru.chr12.1025' => 'acertr', 'Atru.chr3.3241' => 'acertr', 'Atru.chr4.2460' => 'acertr', 'AUR62007427' => 'cqu', 'AUR62010960' => 'cqu', 'AUR62012201' => 'cqu', 'AUR62021470' => 'cqu', 'AUR62022834' => 'cqu', 'AUR62033635' => 'cqu', 'AUR62036186' => 'cqu', 'BcaB01g03077' => 'bca', 'BcaB02g10093' => 'bca', 'BcaB04g20295' => 'bca', 'BcaB06g28147' => 'bca', 'BcaB07g31253' => 'bca', 'BcaC01g04946' => 'bca', 'BcaC02g10614' => 'bca', 'BcaC02g10885' => 'bca', 'BcaC04g19356' => 'bca', 'BcaC04g22297' => 'bca', 'BcaC05g24977' => 'bca', 'BcaC06g31823' => 'bca', 'BcaC07g38633' => 'bca', 'BcaC09g49353' => 'bca', 'BcaC09g50168' => 'bca', 'BcaNung00322' => 'bca', 'BcaNung04769' => 'bca', 'BolC1t02753H' => 'bol', 'BolC1t03721H' => 'bol', 'BolC3t15525H' => 'bol', 'BolC4t23903H' => 'bol', 'BolC4t24231H' => 'bol', 'BolC4t27209H' => 'bol', 'BolC5t29671H' => 'bol', 'BolC8t49044H' => 'bol', 'BolC9t54999H' => 'bol', 'BolC9t59517H' => 'bol', 'BraA01t02178Z' => 'bra', 'BraA01t03099Z' => 'bra', 'BraA03t11867Z' => 'bra', 'BraA04t17667Z' => 'bra', 'BraA07t29542Z' => 'bra', 'BraA08t35287Z' => 'bra', 'BraA09t37334Z' => 'bra', 'BraA10t44801Z' => 'bra', 'BraSC39t46181Z' => 'bra', 'C01p28240' => 'bna', 'C01p37530' => 'bna', 'C03p31820' => 'bna', 'C04p24080' => 'bna', 'C04p25790' => 'bna', 'C04p56770' => 'bna', 'C05p09310' => 'bna', 'C09p21010' => 'bna', 'C09p67560' => 'bna', 'CAN.G1324.7' => 'can', 'CAN.G1358.10' => 'can', 'CAN.G1550.2' => 'can', 'CAN.G186.56' => 'can', 'CAN.G1965.1' => 'can', 'CAN.G645.15' => 'can', 'CAN.G798.26' => 'can', 'CAN.G798.27' => 'can', 'CAN.G798.29' => 'can', 'CAN.G919.31' => 'can', 'CANSAT11G0133' => 'cansat', 'CANSAT11G1171' => 'cansat', 'CANSAT11G2056' => 'cansat', 'CANSAT56G1202' => 'cansat', 'CANSAT56G1514' => 'cansat', 'CANSAT78G0455' => 'cansat', 'CARHR011190' => 'chi', 'CARHR051980' => 'chi', 'CARHR120170' => 'chi', 'CARHR203310' => 'chi', 'CARHR221490' => 'chi', 'Carub.0001s1054' => 'cru', 'Carub.0002s0431' => 'cru', 'Carub.0004s0818' => 'cru', 'Carub.0006s0846' => 'cru', 'Carub.0007s2722' => 'cru', 'Ca_00058_v3' => 'car', 'Ca_17831_v3' => 'car', 'Ca_19408_v3' => 'car', 'Ca_24397_v3' => 'car', 'Ca_25664_v3' => 'car', 'CBR_g21818' => 'cbr', 'CBR_g31195' => 'cbr', 'CBR_g32282' => 'cbr', 'CBR_g39599' => 'cbr', 'CBR_g49410' => 'cbr', 'Cc01_g09120' => 'ccan', 'Cc01_g09130' => 'ccan', 'Cc02_g09630' => 'ccan', 'Cc02_g22810' => 'ccan', 'Cc03_g03810' => 'ccan', 'CDE02G3718' => 'cde', 'CDE04G3183' => 'cde', 'CDE07G1046' => 'cde', 'CDE08G0480' => 'cde', 'Cfa005493' => 'cfa', 'Cfa010312' => 'cfa', 'Cfa015648' => 'cfa', 'Ciclev10002793m.g' => 'ccl', 'Ciclev10003356m.g' => 'ccl', 'Ciclev10006141m.g' => 'ccl', 'Ciclev10016676m.g' => 'ccl', 'Ciclev10017081m.g' => 'ccl', 'Ciclev10029499m.g' => 'ccl', 'CiPaw.01G166300' => 'cil', 'CiPaw.06G145600' => 'cil', 'CiPaw.13G040100' => 'cil', 'CiPaw.13G135800' => 'cil', 'ClCG01G012230' => 'cla', 'ClCG05G009510' => 'cla', 'ClCG08G008270' => 'cla', 'COL.COLO4_11763' => 'col', 'COL.COLO4_19876' => 'col', 'COL.COLO4_21481' => 'col', 'Cpa.g.sc118.34' => 'cpa', 'Cpa.g.sc32.13' => 'cpa', 'Cpa.g.sc58.103' => 'cpa', 'Cre03.g183850' => 'cre', 'Cre06.g306350' => 'cre', 'Cre07.g334800' => 'cre', 'Cre12.g487900' => 'cre', 'Cre14.g626700' => 'cre', 'Cre16.g658400' => 'cre', 'Cre17.g700950' => 'cre', 'CsaV3_1G014830' => 'csa', 'CsaV3_3G013320' => 'csa', 'CsaV3_3G019210' => 'csa', 'CsaV3_3G019220' => 'csa', 'CsaV3_6G004230' => 'csa', 'CSS0003773' => 'camsi', 'CSS0004563' => 'camsi', 'CSS0013949' => 'camsi', 'CSS0025971' => 'camsi', 'CSS0028570' => 'camsi', 'CSS0033127' => 'camsi', 'CSS0036051' => 'camsi', 'CSS0040087' => 'camsi', 'CSS0043179' => 'camsi', 'DCAR_006161' => 'dca', 'DCAR_010351' => 'dca', 'DCAR_012197' => 'dca', 'DCAR_024162' => 'dca', 'Dinv01030' => 'din', 'Dinv10924' => 'din', 'Dinv11835' => 'din', 'Dinv22841' => 'din', 'Dinv42553' => 'din', 'Duzib052G0560' => 'dzi', 'Duzib132G0389' => 'dzi', 'Duzib150G1181' => 'dzi', 'Duzib168G0623' => 'dzi', 'Duzib170G1036' => 'dzi', 'Duzib212G0200' => 'dzi', 'Duzib248G0194' => 'dzi', 'ECA232G2193' => 'eca', 'ECA233G0302' => 'eca', 'ECA234G2813' => 'eca', 'ECA234G4866' => 'eca', 'ECA240G3932' => 'eca', 'ECA248G0385' => 'eca', 'EL10Ac2g04781' => 'bvu', 'EL10Ac3g06445' => 'bvu', 'EL10Ac7g15825' => 'bvu', 'EL10Ac8g18550' => 'bvu', 'Eucgr.B03849' => 'egr', 'Eucgr.I02744' => 'egr', 'Eucgr.J00264' => 'egr', 'Eucgr.J00493' => 'egr', 'FAN04G2181' => 'fan', 'FAN07G2666' => 'fan', 'FAN11G0024' => 'fan', 'FAN12G1105' => 'fan', 'FAN13G0302' => 'fan', 'FAN15G2781' => 'fan', 'FAN16G1274' => 'fan', 'FAN17G2988' => 'fan', 'FAN18G2621' => 'fan', 'FAN21G0013' => 'fan', 'FAN22G1211' => 'fan', 'FAN25G3626' => 'fan', 'FvH4_2g09491' => 'fve', 'FvH4_3g24910' => 'fve', 'FvH4_4g15630' => 'fve', 'FvH4_5g28820' => 'fve', 'Glyma.01G238000' => 'gma', 'Glyma.05G168400' => 'gma', 'Glyma.08G126800' => 'gma', 'Glyma.08G188500' => 'gma', 'Glyma.10G278900' => 'gma', 'Glyma.11G005700' => 'gma', 'Glyma.11G183300' => 'gma', 'Glyma.12G089200' => 'gma', 'Glyma.12G169400' => 'gma', 'Glyma.12G169500' => 'gma', 'Glyma.12G169600' => 'gma', 'Glyma.20G110800' => 'gma', 'Gohir.A03G192900' => 'ghi', 'Gohir.A03G193000' => 'ghi', 'Gohir.A05G080700' => 'ghi', 'Gohir.A09G216000' => 'ghi', 'Gohir.A12G027700' => 'ghi', 'Gohir.A13G036200' => 'ghi', 'Gohir.A13G222600' => 'ghi', 'Gohir.D02G213900' => 'ghi', 'Gohir.D02G214000' => 'ghi', 'Gohir.D05G083700' => 'ghi', 'Gohir.D05G083800' => 'ghi', 'Gohir.D05G083850' => 'ghi', 'Gohir.D08G015400' => 'ghi', 'Gohir.D09G218400' => 'ghi', 'Gohir.D12G027100' => 'ghi', 'Gohir.D13G034500' => 'ghi', 'Gohir.D13G227400' => 'ghi', 'Gorai.005G241800' => 'gra', 'Gorai.005G241900' => 'gra', 'Gorai.006G239400' => 'gra', 'Gorai.008G027600' => 'gra', 'Gorai.009G085400' => 'gra', 'Gorai.009G085500' => 'gra', 'Gorai.013G039000' => 'gra', 'Gorai.013G194800' => 'gra', 'Gorai.013G257900' => 'gra', 'GSVIVG01000982001' => 'vvi', 'GSVIVG01017981001' => 'vvi', 'HanXRQChr01g0024061' => 'han', 'HanXRQChr09g0247831' => 'han', 'HanXRQChr10g0294611' => 'han', 'HanXRQChr10g0294621' => 'han', 'HanXRQChr11g0346821' => 'han', 'HanXRQChr13g0397461' => 'han', 'HanXRQChr16g0513651' => 'han', 'HanXRQChr16g0513701' => 'han', 'Haze_00897' => 'cav', 'Haze_01745' => 'cav', 'Haze_02486' => 'cav', 'Haze_02487' => 'cav', 'Haze_23374' => 'cav', 'Hma1.2p1_0578F.1_g182520' => 'hma', 'Hma1.2p1_0602F.1_g187350' => 'hma', 'Hma1.2p1_0602F.1_g187360' => 'hma', 'Hma1.2p1_0874F.1_g231320' => 'hma', 'Hma1.2p1_1197F.1_g266210' => 'hma', 'Hma1.2p1_1197F.1_g266220' => 'hma', 'Hma1.2p1_2167F.1_g315895' => 'hma', 'Hma1.2p1_2190F.1_g316640' => 'hma', 'Hma1.2p1_3645F.1_g337153' => 'hma', 'HPP92_004907' => 'vpl', 'HPP92_012134' => 'vpl', 'HPP92_025136' => 'vpl', 'HPP92_026087' => 'vpl', 'Hund06782' => 'sun', 'Hund06784' => 'sun', 'Lalb_Chr01g0004861' => 'lal', 'Lalb_Chr02g0140591' => 'lal', 'Lalb_Chr02g0140611' => 'lal', 'Lalb_Chr03g0028101' => 'lal', 'Lalb_Chr07g0185791' => 'lal', 'Lalb_Chr12g0204491' => 'lal', 'Lalb_Chr13g0295671' => 'lal', 'Lalb_Chr19g0136461' => 'lal', 'Lalb_Chr21g0309191' => 'lal', 'Lj1g0028158' => 'lja', 'Lj1P236T38' => 'lonja', 'Lj2C32G2' => 'lonja', 'Lj2P944T8' => 'lonja', 'Lj2P963T15' => 'lonja', 'Lj3g0011788' => 'lja', 'Lj4g0025027' => 'lja', 'Lj5P255T36' => 'lonja', 'Lj6g0018866' => 'lja', 'Lj6P608T31' => 'lonja', 'LjContig00408g0008879' => 'lja', 'Lsat_1_v5_gn_5_105820' => 'lsa', 'Lsat_1_v5_gn_6_38800' => 'lsa', 'Lsat_1_v5_gn_7_67141' => 'lsa', 'Manes.04G003400' => 'mes', 'Manes.07G020000' => 'mes', 'Manes.07G020100' => 'mes', 'Manes.07G020150' => 'mes', 'Manes.10G061500' => 'mes', 'Manes.10G123200' => 'mes', 'Manes.11G161900' => 'mes', 'Manes.15G029300' => 'mes', 'Mapoly0071s0018' => 'mpo', 'Mapoly0082s0023' => 'mpo', 'Mapoly3477s0001' => 'mpo', 'MBI05_g31233_MAGBIO' => 'mbi', 'MBI09_g05946_MAGBIO' => 'mbi', 'MBI09_g05947_MAGBIO' => 'mbi', 'MBI17_g08346_MAGBIO' => 'mbi', 'MCO04G038' => 'mco', 'MCO09G370' => 'mco', 'MCO13G605' => 'mco', 'MD00G1075500' => 'mdo', 'MD03G1144300' => 'mdo', 'MD08G1236800' => 'mdo', 'MD13G1193300' => 'mdo', 'MD15G1428700' => 'mdo', 'Medtr1g112030' => 'mtr', 'Medtr1g112050' => 'mtr', 'Medtr2g006290' => 'mtr', 'Medtr2g086510' => 'mtr', 'Medtr4g053120' => 'mtr', 'Medtr5g006320' => 'mtr', 'Medtr8g088720' => 'mtr', 'MELO3C004712.2' => 'cme', 'MELO3C006533.2' => 'cme', 'MELO3C019438.2' => 'cme', 'MELO3C019440.2' => 'cme', 'MELO3C019441.2' => 'cme', 'MELO3C019895.2' => 'cme', 'Migut.B00811' => 'egut', 'Migut.D02447' => 'egut', 'Migut.F00875' => 'egut', 'Migut.N00186' => 'egut', 'Migut.N01051' => 'egut', 'Migut.N02491' => 'egut', 'Migut.O00784' => 'egut', 'MSTRG.12367' => 'ama', 'MSTRG.18756' => 'ama', 'MSTRG.21042' => 'ama', 'Nitab4.5_0000559g0040' => 'nta', 'Nitab4.5_0000667g0190' => 'nta', 'Nitab4.5_0000755g0160' => 'nta', 'Nitab4.5_0001216g0080' => 'nta', 'Nitab4.5_0004069g0040' => 'nta', 'Nitab4.5_0004129g0010' => 'nta', 'Nitab4.5_0005744g0030' => 'nta', 'Nitab4.5_0006996g0030' => 'nta', 'Nitab4.5_0008971g0040' => 'nta', 'Nitab4.5_0009769g0020' => 'nta', 'Nitab4.5_0009833g0010' => 'nta', 'Nitab4.5_0013140g0020' => 'nta', 'Nn003s41376' => 'nnu', 'Nn1g01857' => 'nnu', 'Nn1g03611' => 'nnu', 'Nn1g06853' => 'nnu', 'Nn3g18360' => 'nnu', 'Nn4g26328' => 'nnu', 'Nn5g27531' => 'nnu', 'Nn6g34899' => 'nnu', 'Nn7g36299' => 'nnu', 'Oeu021485.1' => 'oeu', 'Oeu022433.1' => 'oeu', 'Oeu032111.1' => 'oeu', 'Oeu051608.1' => 'oeu', 'Os01g0860601' => 'osa', 'Os03g0659200' => 'osa', 'Os03g0835900' => 'osa', 'Os04g0412200' => 'osa', 'Os05g0443500' => 'osa', 'Os07g0251500' => 'osa', 'Os08g0104600' => 'osa', 'Peaxi162Scf00003g00047' => 'pax', 'Peaxi162Scf00003g00052' => 'pax', 'Peaxi162Scf00003g00394' => 'pax', 'Peaxi162Scf00091g00621' => 'pax', 'Peaxi162Scf00152g00146' => 'pax', 'Peaxi162Scf00173g00025' => 'pax', 'Peaxi162Scf00195g00102' => 'pax', 'Peaxi162Scf00402g00013' => 'pax', 'Peaxi162Scf00519g00618' => 'pax', 'PGR004G2838' => 'pgr', 'PGR044G2275' => 'pgr', 'PGR102G1377' => 'pgr', 'PGR119G1245' => 'pgr', 'PGR142G4449' => 'pgr', 'PGSC0003DMG400004532' => 'stu', 'PGSC0003DMG400011950' => 'stu', 'PGSC0003DMG400023391' => 'stu', 'PGSC0003DMG400023985' => 'stu', 'PGSC0003DMG400026360' => 'stu', 'PGSC0003DMG400035711' => 'stu', 'PGSC0003DMG400037286' => 'stu', 'PGSC0003DMG402005881' => 'stu', 'Phvul.002G045400' => 'pvu', 'Phvul.006G216600' => 'pvu', 'Phvul.006G216700' => 'pvu', 'Phvul.006G216800' => 'pvu', 'Phvul.007G022500' => 'pvu', 'Phvul.011G094400' => 'pvu', 'Potri.001G470700' => 'ptr', 'Potri.003G015200' => 'ptr', 'Potri.004G202500' => 'ptr', 'Potri.004G218400' => 'ptr', 'Potri.008G020100' => 'ptr', 'Potri.008G153200' => 'ptr', 'Potri.009G163800' => 'ptr', 'Potri.010G087300' => 'ptr', 'Potri.010G239100' => 'ptr', 'Pp3c10_16100' => 'ppa', 'Pp3c10_16880' => 'ppa', 'Pp3c16_6230' => 'ppa', 'Pp3c17_18910' => 'ppa', 'Pp3c3_22119' => 'ppa', 'Pp3c3_22140' => 'ppa', 'Pp3c4_8159' => 'ppa', 'Pp3c4_8171' => 'ppa', 'Pp3c4_8330' => 'ppa', 'PRCOL_00004098' => 'pco', 'Prupe.1G013900' => 'ppe', 'Prupe.1G226300' => 'ppe', 'Prupe.1G573600' => 'ppe', 'Prupe.6G130100' => 'ppe', 'Psat3g090040' => 'psa', 'Psat4g210440' => 'psa', 'Psat6g231040' => 'psa', 'Psat6g231080' => 'psa', 'Psat7g063000' => 'psa', 'Psat7g188000' => 'psa', 'Psat7g188040' => 'psa', 'PSO017G0206' => 'pso', 'PSO170G0501' => 'pso', 'PSO170G6422' => 'pso', 'PSO210G7739' => 'pso', 'PSO339G1808' => 'pso', 'PSO339G6135' => 'pso', 'PSO384G0010' => 'pso', 'PSO384G0964' => 'pso', 'PSO761G0050' => 'pso', 'PSO782G4085' => 'pso', 'QL01p012264' => 'qlo', 'QL02p099491' => 'qlo', 'QL03p033868' => 'qlo', 'QL04p046678' => 'qlo', 'QL06p002448' => 'qlo', 'RcHm_v2.0_Chr4g0416181' => 'rch', 'RcHm_v2.0_Chr5g0044701' => 'rch', 'RcHm_v2.0_Chr6g0265781' => 'rch', 'RcHm_v2.0_Chr7g0221031' => 'rch', 'Rhsim04G0202000' => 'rsi', 'Rhsim11G0127300' => 'rsi', 'Rhsim13G0111800' => 'rsi', 'Sabra01G0165600' => 'sbr', 'Sabra03G0008300' => 'sbr', 'Sabra04G0136900' => 'sbr', 'Sabra08G0013400' => 'sbr', 'Sabra08G0116800' => 'sbr', 'Sabra09G0128000' => 'sbr', 'Sabra10G0055500' => 'sbr', 'Sabra10G0073300' => 'sbr', 'SalBow3G0385' => 'sbo', 'SalBow3G1119' => 'sbo', 'SalBow3G2005' => 'sbo', 'SalBow6G2563' => 'sbo', 'SalBow6G6386' => 'sbo', 'Sc06g0008800' => 'sci', 'Sc07g0004950' => 'sci', 'Sc09g0005340' => 'sci', 'Sc13g0004410' => 'sci', 'Sc21g0007090' => 'sci', 'Sed0009285' => 'sed', 'Sed0017583' => 'sed', 'Sed0019699' => 'sed', 'Sed0023107' => 'sed', 'SEGI_10916' => 'sgi', 'SEGI_16217' => 'sgi', 'SEGI_19466' => 'sgi', 'SEGI_41115' => 'sgi', 'SGA_v2.0_scaffold111G31534' => 'sas', 'SGA_v2.0_scaffold22G09864' => 'sas', 'SGA_v2.0_scaffold338G49219' => 'sas', 'SGA_v2.0_scaffold92G28298' => 'sas', 'SMO119G0064' => 'smo', 'SMO223G0038' => 'smo', 'SMO347G0584' => 'smo', 'SMO351G0010' => 'smo', 'SMO356G0404' => 'smo', 'Solyc01g103920.3' => 'sly', 'Solyc04g009710.2' => 'sly', 'Solyc05g055280.2' => 'sly', 'Solyc10g044520.3' => 'sly', 'Solyc10g075160.1' => 'sly', 'Solyc11g006910.3' => 'sly', 'Solyc11g068430.3' => 'sly', 'Sopen01g046310' => 'spe', 'Sopen03g001200' => 'spe', 'Sopen04g004830' => 'spe', 'Sopen05g033720' => 'spe', 'Sopen06g030740' => 'spe', 'Sopen10g013090' => 'spe', 'Sopen10g027630' => 'spe', 'Sopen10g027640' => 'spe', 'Sopen11g002820' => 'spe', 'Sopen11g027140' => 'spe', 'Sp1g09680' => 'spa', 'Sp2g03630' => 'spa', 'Sp4g10320' => 'spa', 'Sp6g33400' => 'spa', 'Sp7g13030' => 'spa', 'TAR365G0317' => 'tar', 'TAR376G0979' => 'tar', 'TAR623G1665' => 'tar', 'TAR633G2373' => 'tar', 'TAR636G1400' => 'tar', 'THA.LOC104800529' => 'tha', 'THA.LOC104808547' => 'tha', 'THA.LOC104809615' => 'tha', 'THA.LOC104815724' => 'tha', 'THA.LOC104818480' => 'tha', 'THA.LOC104819179' => 'tha', 'THA.LOC104822270' => 'tha', 'THA.LOC104826425' => 'tha', 'Thecc.02G089700' => 'tca', 'Thecc.04G232300' => 'tca', 'Thecc.09G283400' => 'tca', 'Thhalv10009020m.g' => 'esa', 'Thhalv10015506m.g' => 'esa', 'Thhalv10017364m.g' => 'esa', 'Thhalv10023742m.g' => 'esa', 'Thhalv10026483m.g' => 'esa', 'TPR.G17232' => 'tpr', 'TPR.G2133' => 'tpr', 'TPR.G2498' => 'tpr', 'TPR.G31942' => 'tpr', 'TPR.G37877' => 'tpr', 'TPR.G4571' => 'tpr', 'TWI14G1113' => 'twi', 'TWI15G0426' => 'twi', 'TWI31G1005' => 'twi', 'TWI38G0513' => 'twi', 'TWI38G1484' => 'twi', 'TWI73G1098' => 'twi', 'unitig_26.g10519' => 'ugi', 'unitig_736.g22395' => 'ugi', 'unitig_747.g21234' => 'ugi', 'unitig_747.g21942' => 'ugi', 'vmacro14351' => 'vma', 'VMungo0540G0082' => 'vmu', 'VMungo0540G0405' => 'vmu', 'VMungo0540G1486' => 'vmu', 'VMungo0540G1692' => 'vmu', 'VMungo0720G2473' => 'vmu', 'VMungo1127G1562' => 'vmu', 'VMungo1215G1918' => 'vmu', 'Zm00001eb052650' => 'zma', 'Zm00001eb063710' => 'zma', 'Zm00001eb083950' => 'zma', 'Zm00001eb174420' => 'zma', 'Zm00001eb260140' => 'zma', 'Zm00001eb260150' => 'zma', 'Zm00001eb260160' => 'zma', 'Zm00001eb348290' => 'zma', 'Zm00001eb366870' => 'zma', 'Zm00001eb421930' => 'zma' ), 'gf_id' => 'HOM05D001025', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001025' ), 'data_identifier' => 'HOM05D001025', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001025', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '592', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p22650' => 'bna', 'A01p29720' => 'bna', 'A03p26560' => 'bna', 'A03p68820' => 'bna', 'A04p20980' => 'bna', 'A06p07730' => 'bna', 'A07p18260' => 'bna', 'A08p33710' => 'bna', 'A09p16970' => 'bna', 'A10p27490' => 'bna', 'Aa31LG1G17300' => 'aar', 'Aa31LG1G3910' => 'aar', 'Aa31LG2G9630' => 'aar', 'Aa31LG5G8360' => 'aar', 'Aa31LG9G2410' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4699' => 'aag', 'Actinidia23512' => 'ach', 'Actinidia37080' => 'ach', 'Ah.01g020380' => 'amhyb', 'Ah.08g215710' => 'amhyb', 'Ah.09g225110' => 'amhyb', 'Ah.10g036680' => 'amhyb', 'AL1G21940' => 'aly', 'AL2G15540' => 'aly', 'AL4G21520' => 'aly', 'AL7G40960' => 'aly', 'Aqoxy2G01191' => 'aox', 'Aqoxy2G03393' => 'aox', 'Aqoxy4G02775' => 'aox', 'Aqoxy6G00058' => 'aox', 'arahy.Tifrunner.gnm1.ann1.9X74H2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CW3FX9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R485W7' => 'arhy', 'AT1G10960' => 'ath', 'AT1G60950' => 'ath', 'AT2G27510' => 'ath', 'AT4G14890' => 'ath', 'AT5G10000' => 'ath', 'ATR0665G624' => 'atr', 'ATR0697G138' => 'atr', 'ATR0776G046' => 'atr', 'ATR1134G135' => 'atr', 'Atru.chr12.1025' => 'acertr', 'Atru.chr3.3241' => 'acertr', 'Atru.chr4.2460' => 'acertr', 'AUR62007427' => 'cqu', 'AUR62010960' => 'cqu', 'AUR62012201' => 'cqu', 'AUR62021470' => 'cqu', 'AUR62022834' => 'cqu', 'AUR62033635' => 'cqu', 'AUR62036186' => 'cqu', 'BcaB01g03077' => 'bca', 'BcaB02g10093' => 'bca', 'BcaB04g20295' => 'bca', 'BcaB06g28147' => 'bca', 'BcaB07g31253' => 'bca', 'BcaC01g04946' => 'bca', 'BcaC02g10614' => 'bca', 'BcaC02g10885' => 'bca', 'BcaC04g19356' => 'bca', 'BcaC04g22297' => 'bca', 'BcaC05g24977' => 'bca', 'BcaC06g31823' => 'bca', 'BcaC07g38633' => 'bca', 'BcaC09g49353' => 'bca', 'BcaC09g50168' => 'bca', 'BcaNung00322' => 'bca', 'BcaNung04769' => 'bca', 'BolC1t02753H' => 'bol', 'BolC1t03721H' => 'bol', 'BolC3t15525H' => 'bol', 'BolC4t23903H' => 'bol', 'BolC4t24231H' => 'bol', 'BolC4t27209H' => 'bol', 'BolC5t29671H' => 'bol', 'BolC8t49044H' => 'bol', 'BolC9t54999H' => 'bol', 'BolC9t59517H' => 'bol', 'BraA01t02178Z' => 'bra', 'BraA01t03099Z' => 'bra', 'BraA03t11867Z' => 'bra', 'BraA04t17667Z' => 'bra', 'BraA07t29542Z' => 'bra', 'BraA08t35287Z' => 'bra', 'BraA09t37334Z' => 'bra', 'BraA10t44801Z' => 'bra', 'BraSC39t46181Z' => 'bra', 'C01p28240' => 'bna', 'C01p37530' => 'bna', 'C03p31820' => 'bna', 'C04p24080' => 'bna', 'C04p25790' => 'bna', 'C04p56770' => 'bna', 'C05p09310' => 'bna', 'C09p21010' => 'bna', 'C09p67560' => 'bna', 'CAN.G1324.7' => 'can', 'CAN.G1358.10' => 'can', 'CAN.G1550.2' => 'can', 'CAN.G186.56' => 'can', 'CAN.G1965.1' => 'can', 'CAN.G645.15' => 'can', 'CAN.G798.26' => 'can', 'CAN.G798.27' => 'can', 'CAN.G798.29' => 'can', 'CAN.G919.31' => 'can', 'CANSAT11G0133' => 'cansat', 'CANSAT11G1171' => 'cansat', 'CANSAT11G2056' => 'cansat', 'CANSAT56G1202' => 'cansat', 'CANSAT56G1514' => 'cansat', 'CANSAT78G0455' => 'cansat', 'CARHR011190' => 'chi', 'CARHR051980' => 'chi', 'CARHR120170' => 'chi', 'CARHR203310' => 'chi', 'CARHR221490' => 'chi', 'Carub.0001s1054' => 'cru', 'Carub.0002s0431' => 'cru', 'Carub.0004s0818' => 'cru', 'Carub.0006s0846' => 'cru', 'Carub.0007s2722' => 'cru', 'Ca_00058_v3' => 'car', 'Ca_17831_v3' => 'car', 'Ca_19408_v3' => 'car', 'Ca_24397_v3' => 'car', 'Ca_25664_v3' => 'car', 'CBR_g21818' => 'cbr', 'CBR_g31195' => 'cbr', 'CBR_g32282' => 'cbr', 'CBR_g39599' => 'cbr', 'CBR_g49410' => 'cbr', 'Cc01_g09120' => 'ccan', 'Cc01_g09130' => 'ccan', 'Cc02_g09630' => 'ccan', 'Cc02_g22810' => 'ccan', 'Cc03_g03810' => 'ccan', 'CDE02G3718' => 'cde', 'CDE04G3183' => 'cde', 'CDE07G1046' => 'cde', 'CDE08G0480' => 'cde', 'Cfa005493' => 'cfa', 'Cfa010312' => 'cfa', 'Cfa015648' => 'cfa', 'Ciclev10002793m.g' => 'ccl', 'Ciclev10003356m.g' => 'ccl', 'Ciclev10006141m.g' => 'ccl', 'Ciclev10016676m.g' => 'ccl', 'Ciclev10017081m.g' => 'ccl', 'Ciclev10029499m.g' => 'ccl', 'CiPaw.01G166300' => 'cil', 'CiPaw.06G145600' => 'cil', 'CiPaw.13G040100' => 'cil', 'CiPaw.13G135800' => 'cil', 'ClCG01G012230' => 'cla', 'ClCG05G009510' => 'cla', 'ClCG08G008270' => 'cla', 'COL.COLO4_11763' => 'col', 'COL.COLO4_19876' => 'col', 'COL.COLO4_21481' => 'col', 'Cpa.g.sc118.34' => 'cpa', 'Cpa.g.sc32.13' => 'cpa', 'Cpa.g.sc58.103' => 'cpa', 'Cre03.g183850' => 'cre', 'Cre06.g306350' => 'cre', 'Cre07.g334800' => 'cre', 'Cre12.g487900' => 'cre', 'Cre14.g626700' => 'cre', 'Cre16.g658400' => 'cre', 'Cre17.g700950' => 'cre', 'CsaV3_1G014830' => 'csa', 'CsaV3_3G013320' => 'csa', 'CsaV3_3G019210' => 'csa', 'CsaV3_3G019220' => 'csa', 'CsaV3_6G004230' => 'csa', 'CSS0003773' => 'camsi', 'CSS0004563' => 'camsi', 'CSS0013949' => 'camsi', 'CSS0025971' => 'camsi', 'CSS0028570' => 'camsi', 'CSS0033127' => 'camsi', 'CSS0036051' => 'camsi', 'CSS0040087' => 'camsi', 'CSS0043179' => 'camsi', 'DCAR_006161' => 'dca', 'DCAR_010351' => 'dca', 'DCAR_012197' => 'dca', 'DCAR_024162' => 'dca', 'Dinv01030' => 'din', 'Dinv10924' => 'din', 'Dinv11835' => 'din', 'Dinv22841' => 'din', 'Dinv42553' => 'din', 'Duzib052G0560' => 'dzi', 'Duzib132G0389' => 'dzi', 'Duzib150G1181' => 'dzi', 'Duzib168G0623' => 'dzi', 'Duzib170G1036' => 'dzi', 'Duzib212G0200' => 'dzi', 'Duzib248G0194' => 'dzi', 'ECA232G2193' => 'eca', 'ECA233G0302' => 'eca', 'ECA234G2813' => 'eca', 'ECA234G4866' => 'eca', 'ECA240G3932' => 'eca', 'ECA248G0385' => 'eca', 'EL10Ac2g04781' => 'bvu', 'EL10Ac3g06445' => 'bvu', 'EL10Ac7g15825' => 'bvu', 'EL10Ac8g18550' => 'bvu', 'Eucgr.B03849' => 'egr', 'Eucgr.I02744' => 'egr', 'Eucgr.J00264' => 'egr', 'Eucgr.J00493' => 'egr', 'FAN04G2181' => 'fan', 'FAN07G2666' => 'fan', 'FAN11G0024' => 'fan', 'FAN12G1105' => 'fan', 'FAN13G0302' => 'fan', 'FAN15G2781' => 'fan', 'FAN16G1274' => 'fan', 'FAN17G2988' => 'fan', 'FAN18G2621' => 'fan', 'FAN21G0013' => 'fan', 'FAN22G1211' => 'fan', 'FAN25G3626' => 'fan', 'FvH4_2g09491' => 'fve', 'FvH4_3g24910' => 'fve', 'FvH4_4g15630' => 'fve', 'FvH4_5g28820' => 'fve', 'Glyma.01G238000' => 'gma', 'Glyma.05G168400' => 'gma', 'Glyma.08G126800' => 'gma', 'Glyma.08G188500' => 'gma', 'Glyma.10G278900' => 'gma', 'Glyma.11G005700' => 'gma', 'Glyma.11G183300' => 'gma', 'Glyma.12G089200' => 'gma', 'Glyma.12G169400' => 'gma', 'Glyma.12G169500' => 'gma', 'Glyma.12G169600' => 'gma', 'Glyma.20G110800' => 'gma', 'Gohir.A03G192900' => 'ghi', 'Gohir.A03G193000' => 'ghi', 'Gohir.A05G080700' => 'ghi', 'Gohir.A09G216000' => 'ghi', 'Gohir.A12G027700' => 'ghi', 'Gohir.A13G036200' => 'ghi', 'Gohir.A13G222600' => 'ghi', 'Gohir.D02G213900' => 'ghi', 'Gohir.D02G214000' => 'ghi', 'Gohir.D05G083700' => 'ghi', 'Gohir.D05G083800' => 'ghi', 'Gohir.D05G083850' => 'ghi', 'Gohir.D08G015400' => 'ghi', 'Gohir.D09G218400' => 'ghi', 'Gohir.D12G027100' => 'ghi', 'Gohir.D13G034500' => 'ghi', 'Gohir.D13G227400' => 'ghi', 'Gorai.005G241800' => 'gra', 'Gorai.005G241900' => 'gra', 'Gorai.006G239400' => 'gra', 'Gorai.008G027600' => 'gra', 'Gorai.009G085400' => 'gra', 'Gorai.009G085500' => 'gra', 'Gorai.013G039000' => 'gra', 'Gorai.013G194800' => 'gra', 'Gorai.013G257900' => 'gra', 'GSVIVG01000982001' => 'vvi', 'GSVIVG01017981001' => 'vvi', 'HanXRQChr01g0024061' => 'han', 'HanXRQChr09g0247831' => 'han', 'HanXRQChr10g0294611' => 'han', 'HanXRQChr10g0294621' => 'han', 'HanXRQChr11g0346821' => 'han', 'HanXRQChr13g0397461' => 'han', 'HanXRQChr16g0513651' => 'han', 'HanXRQChr16g0513701' => 'han', 'Haze_00897' => 'cav', 'Haze_01745' => 'cav', 'Haze_02486' => 'cav', 'Haze_02487' => 'cav', 'Haze_23374' => 'cav', 'Hma1.2p1_0578F.1_g182520' => 'hma', 'Hma1.2p1_0602F.1_g187350' => 'hma', 'Hma1.2p1_0602F.1_g187360' => 'hma', 'Hma1.2p1_0874F.1_g231320' => 'hma', 'Hma1.2p1_1197F.1_g266210' => 'hma', 'Hma1.2p1_1197F.1_g266220' => 'hma', 'Hma1.2p1_2167F.1_g315895' => 'hma', 'Hma1.2p1_2190F.1_g316640' => 'hma', 'Hma1.2p1_3645F.1_g337153' => 'hma', 'HPP92_004907' => 'vpl', 'HPP92_012134' => 'vpl', 'HPP92_025136' => 'vpl', 'HPP92_026087' => 'vpl', 'Hund06782' => 'sun', 'Hund06784' => 'sun', 'Lalb_Chr01g0004861' => 'lal', 'Lalb_Chr02g0140591' => 'lal', 'Lalb_Chr02g0140611' => 'lal', 'Lalb_Chr03g0028101' => 'lal', 'Lalb_Chr07g0185791' => 'lal', 'Lalb_Chr12g0204491' => 'lal', 'Lalb_Chr13g0295671' => 'lal', 'Lalb_Chr19g0136461' => 'lal', 'Lalb_Chr21g0309191' => 'lal', 'Lj1g0028158' => 'lja', 'Lj1P236T38' => 'lonja', 'Lj2C32G2' => 'lonja', 'Lj2P944T8' => 'lonja', 'Lj2P963T15' => 'lonja', 'Lj3g0011788' => 'lja', 'Lj4g0025027' => 'lja', 'Lj5P255T36' => 'lonja', 'Lj6g0018866' => 'lja', 'Lj6P608T31' => 'lonja', 'LjContig00408g0008879' => 'lja', 'Lsat_1_v5_gn_5_105820' => 'lsa', 'Lsat_1_v5_gn_6_38800' => 'lsa', 'Lsat_1_v5_gn_7_67141' => 'lsa', 'Manes.04G003400' => 'mes', 'Manes.07G020000' => 'mes', 'Manes.07G020100' => 'mes', 'Manes.07G020150' => 'mes', 'Manes.10G061500' => 'mes', 'Manes.10G123200' => 'mes', 'Manes.11G161900' => 'mes', 'Manes.15G029300' => 'mes', 'Mapoly0071s0018' => 'mpo', 'Mapoly0082s0023' => 'mpo', 'Mapoly3477s0001' => 'mpo', 'MBI05_g31233_MAGBIO' => 'mbi', 'MBI09_g05946_MAGBIO' => 'mbi', 'MBI09_g05947_MAGBIO' => 'mbi', 'MBI17_g08346_MAGBIO' => 'mbi', 'MCO04G038' => 'mco', 'MCO09G370' => 'mco', 'MCO13G605' => 'mco', 'MD00G1075500' => 'mdo', 'MD03G1144300' => 'mdo', 'MD08G1236800' => 'mdo', 'MD13G1193300' => 'mdo', 'MD15G1428700' => 'mdo', 'Medtr1g112030' => 'mtr', 'Medtr1g112050' => 'mtr', 'Medtr2g006290' => 'mtr', 'Medtr2g086510' => 'mtr', 'Medtr4g053120' => 'mtr', 'Medtr5g006320' => 'mtr', 'Medtr8g088720' => 'mtr', 'MELO3C004712.2' => 'cme', 'MELO3C006533.2' => 'cme', 'MELO3C019438.2' => 'cme', 'MELO3C019440.2' => 'cme', 'MELO3C019441.2' => 'cme', 'MELO3C019895.2' => 'cme', 'Migut.B00811' => 'egut', 'Migut.D02447' => 'egut', 'Migut.F00875' => 'egut', 'Migut.N00186' => 'egut', 'Migut.N01051' => 'egut', 'Migut.N02491' => 'egut', 'Migut.O00784' => 'egut', 'MSTRG.12367' => 'ama', 'MSTRG.18756' => 'ama', 'MSTRG.21042' => 'ama', 'Nitab4.5_0000559g0040' => 'nta', 'Nitab4.5_0000667g0190' => 'nta', 'Nitab4.5_0000755g0160' => 'nta', 'Nitab4.5_0001216g0080' => 'nta', 'Nitab4.5_0004069g0040' => 'nta', 'Nitab4.5_0004129g0010' => 'nta', 'Nitab4.5_0005744g0030' => 'nta', 'Nitab4.5_0006996g0030' => 'nta', 'Nitab4.5_0008971g0040' => 'nta', 'Nitab4.5_0009769g0020' => 'nta', 'Nitab4.5_0009833g0010' => 'nta', 'Nitab4.5_0013140g0020' => 'nta', 'Nn003s41376' => 'nnu', 'Nn1g01857' => 'nnu', 'Nn1g03611' => 'nnu', 'Nn1g06853' => 'nnu', 'Nn3g18360' => 'nnu', 'Nn4g26328' => 'nnu', 'Nn5g27531' => 'nnu', 'Nn6g34899' => 'nnu', 'Nn7g36299' => 'nnu', 'Oeu021485.1' => 'oeu', 'Oeu022433.1' => 'oeu', 'Oeu032111.1' => 'oeu', 'Oeu051608.1' => 'oeu', 'Os01g0860601' => 'osa', 'Os03g0659200' => 'osa', 'Os03g0835900' => 'osa', 'Os04g0412200' => 'osa', 'Os05g0443500' => 'osa', 'Os07g0251500' => 'osa', 'Os08g0104600' => 'osa', 'Peaxi162Scf00003g00047' => 'pax', 'Peaxi162Scf00003g00052' => 'pax', 'Peaxi162Scf00003g00394' => 'pax', 'Peaxi162Scf00091g00621' => 'pax', 'Peaxi162Scf00152g00146' => 'pax', 'Peaxi162Scf00173g00025' => 'pax', 'Peaxi162Scf00195g00102' => 'pax', 'Peaxi162Scf00402g00013' => 'pax', 'Peaxi162Scf00519g00618' => 'pax', 'PGR004G2838' => 'pgr', 'PGR044G2275' => 'pgr', 'PGR102G1377' => 'pgr', 'PGR119G1245' => 'pgr', 'PGR142G4449' => 'pgr', 'PGSC0003DMG400004532' => 'stu', 'PGSC0003DMG400011950' => 'stu', 'PGSC0003DMG400023391' => 'stu', 'PGSC0003DMG400023985' => 'stu', 'PGSC0003DMG400026360' => 'stu', 'PGSC0003DMG400035711' => 'stu', 'PGSC0003DMG400037286' => 'stu', 'PGSC0003DMG402005881' => 'stu', 'Phvul.002G045400' => 'pvu', 'Phvul.006G216600' => 'pvu', 'Phvul.006G216700' => 'pvu', 'Phvul.006G216800' => 'pvu', 'Phvul.007G022500' => 'pvu', 'Phvul.011G094400' => 'pvu', 'Potri.001G470700' => 'ptr', 'Potri.003G015200' => 'ptr', 'Potri.004G202500' => 'ptr', 'Potri.004G218400' => 'ptr', 'Potri.008G020100' => 'ptr', 'Potri.008G153200' => 'ptr', 'Potri.009G163800' => 'ptr', 'Potri.010G087300' => 'ptr', 'Potri.010G239100' => 'ptr', 'Pp3c10_16100' => 'ppa', 'Pp3c10_16880' => 'ppa', 'Pp3c16_6230' => 'ppa', 'Pp3c17_18910' => 'ppa', 'Pp3c3_22119' => 'ppa', 'Pp3c3_22140' => 'ppa', 'Pp3c4_8159' => 'ppa', 'Pp3c4_8171' => 'ppa', 'Pp3c4_8330' => 'ppa', 'PRCOL_00004098' => 'pco', 'Prupe.1G013900' => 'ppe', 'Prupe.1G226300' => 'ppe', 'Prupe.1G573600' => 'ppe', 'Prupe.6G130100' => 'ppe', 'Psat3g090040' => 'psa', 'Psat4g210440' => 'psa', 'Psat6g231040' => 'psa', 'Psat6g231080' => 'psa', 'Psat7g063000' => 'psa', 'Psat7g188000' => 'psa', 'Psat7g188040' => 'psa', 'PSO017G0206' => 'pso', 'PSO170G0501' => 'pso', 'PSO170G6422' => 'pso', 'PSO210G7739' => 'pso', 'PSO339G1808' => 'pso', 'PSO339G6135' => 'pso', 'PSO384G0010' => 'pso', 'PSO384G0964' => 'pso', 'PSO761G0050' => 'pso', 'PSO782G4085' => 'pso', 'QL01p012264' => 'qlo', 'QL02p099491' => 'qlo', 'QL03p033868' => 'qlo', 'QL04p046678' => 'qlo', 'QL06p002448' => 'qlo', 'RcHm_v2.0_Chr4g0416181' => 'rch', 'RcHm_v2.0_Chr5g0044701' => 'rch', 'RcHm_v2.0_Chr6g0265781' => 'rch', 'RcHm_v2.0_Chr7g0221031' => 'rch', 'Rhsim04G0202000' => 'rsi', 'Rhsim11G0127300' => 'rsi', 'Rhsim13G0111800' => 'rsi', 'Sabra01G0165600' => 'sbr', 'Sabra03G0008300' => 'sbr', 'Sabra04G0136900' => 'sbr', 'Sabra08G0013400' => 'sbr', 'Sabra08G0116800' => 'sbr', 'Sabra09G0128000' => 'sbr', 'Sabra10G0055500' => 'sbr', 'Sabra10G0073300' => 'sbr', 'SalBow3G0385' => 'sbo', 'SalBow3G1119' => 'sbo', 'SalBow3G2005' => 'sbo', 'SalBow6G2563' => 'sbo', 'SalBow6G6386' => 'sbo', 'Sc06g0008800' => 'sci', 'Sc07g0004950' => 'sci', 'Sc09g0005340' => 'sci', 'Sc13g0004410' => 'sci', 'Sc21g0007090' => 'sci', 'Sed0009285' => 'sed', 'Sed0017583' => 'sed', 'Sed0019699' => 'sed', 'Sed0023107' => 'sed', 'SEGI_10916' => 'sgi', 'SEGI_16217' => 'sgi', 'SEGI_19466' => 'sgi', 'SEGI_41115' => 'sgi', 'SGA_v2.0_scaffold111G31534' => 'sas', 'SGA_v2.0_scaffold22G09864' => 'sas', 'SGA_v2.0_scaffold338G49219' => 'sas', 'SGA_v2.0_scaffold92G28298' => 'sas', 'SMO119G0064' => 'smo', 'SMO223G0038' => 'smo', 'SMO347G0584' => 'smo', 'SMO351G0010' => 'smo', 'SMO356G0404' => 'smo', 'Solyc01g103920.3' => 'sly', 'Solyc04g009710.2' => 'sly', 'Solyc05g055280.2' => 'sly', 'Solyc10g044520.3' => 'sly', 'Solyc10g075160.1' => 'sly', 'Solyc11g006910.3' => 'sly', 'Solyc11g068430.3' => 'sly', 'Sopen01g046310' => 'spe', 'Sopen03g001200' => 'spe', 'Sopen04g004830' => 'spe', 'Sopen05g033720' => 'spe', 'Sopen06g030740' => 'spe', 'Sopen10g013090' => 'spe', 'Sopen10g027630' => 'spe', 'Sopen10g027640' => 'spe', 'Sopen11g002820' => 'spe', 'Sopen11g027140' => 'spe', 'Sp1g09680' => 'spa', 'Sp2g03630' => 'spa', 'Sp4g10320' => 'spa', 'Sp6g33400' => 'spa', 'Sp7g13030' => 'spa', 'TAR365G0317' => 'tar', 'TAR376G0979' => 'tar', 'TAR623G1665' => 'tar', 'TAR633G2373' => 'tar', 'TAR636G1400' => 'tar', 'THA.LOC104800529' => 'tha', 'THA.LOC104808547' => 'tha', 'THA.LOC104809615' => 'tha', 'THA.LOC104815724' => 'tha', 'THA.LOC104818480' => 'tha', 'THA.LOC104819179' => 'tha', 'THA.LOC104822270' => 'tha', 'THA.LOC104826425' => 'tha', 'Thecc.02G089700' => 'tca', 'Thecc.04G232300' => 'tca', 'Thecc.09G283400' => 'tca', 'Thhalv10009020m.g' => 'esa', 'Thhalv10015506m.g' => 'esa', 'Thhalv10017364m.g' => 'esa', 'Thhalv10023742m.g' => 'esa', 'Thhalv10026483m.g' => 'esa', 'TPR.G17232' => 'tpr', 'TPR.G2133' => 'tpr', 'TPR.G2498' => 'tpr', 'TPR.G31942' => 'tpr', 'TPR.G37877' => 'tpr', 'TPR.G4571' => 'tpr', 'TWI14G1113' => 'twi', 'TWI15G0426' => 'twi', 'TWI31G1005' => 'twi', 'TWI38G0513' => 'twi', 'TWI38G1484' => 'twi', 'TWI73G1098' => 'twi', 'unitig_26.g10519' => 'ugi', 'unitig_736.g22395' => 'ugi', 'unitig_747.g21234' => 'ugi', 'unitig_747.g21942' => 'ugi', 'vmacro14351' => 'vma', 'VMungo0540G0082' => 'vmu', 'VMungo0540G0405' => 'vmu', 'VMungo0540G1486' => 'vmu', 'VMungo0540G1692' => 'vmu', 'VMungo0720G2473' => 'vmu', 'VMungo1127G1562' => 'vmu', 'VMungo1215G1918' => 'vmu', 'Zm00001eb052650' => 'zma', 'Zm00001eb063710' => 'zma', 'Zm00001eb083950' => 'zma', 'Zm00001eb174420' => 'zma', 'Zm00001eb260140' => 'zma', 'Zm00001eb260150' => 'zma', 'Zm00001eb260160' => 'zma', 'Zm00001eb348290' => 'zma', 'Zm00001eb366870' => 'zma', 'Zm00001eb421930' => 'zma' ) $gf_id = 'HOM05D001025' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001025' ) $data_identifier = 'HOM05D001025' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 19, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 2, 'amhyb' => (int) 4, 'aly' => (int) 4, 'aox' => (int) 4, 'arhy' => (int) 3, 'ath' => (int) 5, 'atr' => (int) 4, 'acertr' => (int) 3, 'cqu' => (int) 7, 'bca' => (int) 17, 'bol' => (int) 10, 'bra' => (int) 9, 'can' => (int) 10, 'cansat' => (int) 6, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 5, 'cbr' => (int) 5, 'ccan' => (int) 5, 'cde' => (int) 4, 'cfa' => (int) 3, 'ccl' => (int) 6, 'cil' => (int) 4, 'cla' => (int) 3, 'col' => (int) 3, 'cpa' => (int) 3, 'cre' => (int) 7, 'csa' => (int) 5, 'camsi' => (int) 9, 'dca' => (int) 4, 'din' => (int) 5, 'dzi' => (int) 7, 'eca' => (int) 6, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 12, 'fve' => (int) 4, 'gma' => (int) 12, 'ghi' => (int) 17, 'gra' => (int) 9, 'vvi' => (int) 2, 'han' => (int) 8, 'cav' => (int) 5, 'hma' => (int) 9, 'vpl' => (int) 4, 'sun' => (int) 2, 'lal' => (int) 9, 'lja' => (int) 5, 'lonja' => (int) 6, 'lsa' => (int) 3, 'mes' => (int) 8, 'mpo' => (int) 3, 'mbi' => (int) 4, 'mco' => (int) 3, 'mdo' => (int) 5, 'mtr' => (int) 7, 'cme' => (int) 6, 'egut' => (int) 7, 'ama' => (int) 3, 'nta' => (int) 12, 'nnu' => (int) 9, 'oeu' => (int) 4, 'osa' => (int) 7, 'pax' => (int) 9, 'pgr' => (int) 5, 'stu' => (int) 8, 'pvu' => (int) 6, 'ptr' => (int) 9, 'ppa' => (int) 9, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 7, 'pso' => (int) 10, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 3, 'sbr' => (int) 8, 'sbo' => (int) 5, 'sci' => (int) 5, 'sed' => (int) 4, 'sgi' => (int) 4, 'sas' => (int) 4, 'smo' => (int) 5, 'sly' => (int) 7, 'spe' => (int) 10, 'spa' => (int) 5, 'tar' => (int) 5, 'tha' => (int) 8, 'tca' => (int) 3, 'esa' => (int) 5, 'tpr' => (int) 6, 'twi' => (int) 6, 'ugi' => (int) 4, 'vma' => (int) 1, 'vmu' => (int) 7, 'zma' => (int) 10 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb421930' $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' => 'HOM05D001025', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '592', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p22650' => 'bna', 'A01p29720' => 'bna', 'A03p26560' => 'bna', 'A03p68820' => 'bna', 'A04p20980' => 'bna', 'A06p07730' => 'bna', 'A07p18260' => 'bna', 'A08p33710' => 'bna', 'A09p16970' => 'bna', 'A10p27490' => 'bna', 'Aa31LG1G17300' => 'aar', 'Aa31LG1G3910' => 'aar', 'Aa31LG2G9630' => 'aar', 'Aa31LG5G8360' => 'aar', 'Aa31LG9G2410' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4699' => 'aag', 'Actinidia23512' => 'ach', 'Actinidia37080' => 'ach', 'Ah.01g020380' => 'amhyb', 'Ah.08g215710' => 'amhyb', 'Ah.09g225110' => 'amhyb', 'Ah.10g036680' => 'amhyb', 'AL1G21940' => 'aly', 'AL2G15540' => 'aly', 'AL4G21520' => 'aly', 'AL7G40960' => 'aly', 'Aqoxy2G01191' => 'aox', 'Aqoxy2G03393' => 'aox', 'Aqoxy4G02775' => 'aox', 'Aqoxy6G00058' => 'aox', 'arahy.Tifrunner.gnm1.ann1.9X74H2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CW3FX9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R485W7' => 'arhy', 'AT1G10960' => 'ath', 'AT1G60950' => 'ath', 'AT2G27510' => 'ath', 'AT4G14890' => 'ath', 'AT5G10000' => 'ath', 'ATR0665G624' => 'atr', 'ATR0697G138' => 'atr', 'ATR0776G046' => 'atr', 'ATR1134G135' => 'atr', 'Atru.chr12.1025' => 'acertr', 'Atru.chr3.3241' => 'acertr', 'Atru.chr4.2460' => 'acertr', 'AUR62007427' => 'cqu', 'AUR62010960' => 'cqu', 'AUR62012201' => 'cqu', 'AUR62021470' => 'cqu', 'AUR62022834' => 'cqu', 'AUR62033635' => 'cqu', 'AUR62036186' => 'cqu', 'BcaB01g03077' => 'bca', 'BcaB02g10093' => 'bca', 'BcaB04g20295' => 'bca', 'BcaB06g28147' => 'bca', 'BcaB07g31253' => 'bca', 'BcaC01g04946' => 'bca', 'BcaC02g10614' => 'bca', 'BcaC02g10885' => 'bca', 'BcaC04g19356' => 'bca', 'BcaC04g22297' => 'bca', 'BcaC05g24977' => 'bca', 'BcaC06g31823' => 'bca', 'BcaC07g38633' => 'bca', 'BcaC09g49353' => 'bca', 'BcaC09g50168' => 'bca', 'BcaNung00322' => 'bca', 'BcaNung04769' => 'bca', 'BolC1t02753H' => 'bol', 'BolC1t03721H' => 'bol', 'BolC3t15525H' => 'bol', 'BolC4t23903H' => 'bol', 'BolC4t24231H' => 'bol', 'BolC4t27209H' => 'bol', 'BolC5t29671H' => 'bol', 'BolC8t49044H' => 'bol', 'BolC9t54999H' => 'bol', 'BolC9t59517H' => 'bol', 'BraA01t02178Z' => 'bra', 'BraA01t03099Z' => 'bra', 'BraA03t11867Z' => 'bra', 'BraA04t17667Z' => 'bra', 'BraA07t29542Z' => 'bra', 'BraA08t35287Z' => 'bra', 'BraA09t37334Z' => 'bra', 'BraA10t44801Z' => 'bra', 'BraSC39t46181Z' => 'bra', 'C01p28240' => 'bna', 'C01p37530' => 'bna', 'C03p31820' => 'bna', 'C04p24080' => 'bna', 'C04p25790' => 'bna', 'C04p56770' => 'bna', 'C05p09310' => 'bna', 'C09p21010' => 'bna', 'C09p67560' => 'bna', 'CAN.G1324.7' => 'can', 'CAN.G1358.10' => 'can', 'CAN.G1550.2' => 'can', 'CAN.G186.56' => 'can', 'CAN.G1965.1' => 'can', 'CAN.G645.15' => 'can', 'CAN.G798.26' => 'can', 'CAN.G798.27' => 'can', 'CAN.G798.29' => 'can', 'CAN.G919.31' => 'can', 'CANSAT11G0133' => 'cansat', 'CANSAT11G1171' => 'cansat', 'CANSAT11G2056' => 'cansat', 'CANSAT56G1202' => 'cansat', 'CANSAT56G1514' => 'cansat', 'CANSAT78G0455' => 'cansat', 'CARHR011190' => 'chi', 'CARHR051980' => 'chi', 'CARHR120170' => 'chi', 'CARHR203310' => 'chi', 'CARHR221490' => 'chi', 'Carub.0001s1054' => 'cru', 'Carub.0002s0431' => 'cru', 'Carub.0004s0818' => 'cru', 'Carub.0006s0846' => 'cru', 'Carub.0007s2722' => 'cru', 'Ca_00058_v3' => 'car', 'Ca_17831_v3' => 'car', 'Ca_19408_v3' => 'car', 'Ca_24397_v3' => 'car', 'Ca_25664_v3' => 'car', 'CBR_g21818' => 'cbr', 'CBR_g31195' => 'cbr', 'CBR_g32282' => 'cbr', 'CBR_g39599' => 'cbr', 'CBR_g49410' => 'cbr', 'Cc01_g09120' => 'ccan', 'Cc01_g09130' => 'ccan', 'Cc02_g09630' => 'ccan', 'Cc02_g22810' => 'ccan', 'Cc03_g03810' => 'ccan', 'CDE02G3718' => 'cde', 'CDE04G3183' => 'cde', 'CDE07G1046' => 'cde', 'CDE08G0480' => 'cde', 'Cfa005493' => 'cfa', 'Cfa010312' => 'cfa', 'Cfa015648' => 'cfa', 'Ciclev10002793m.g' => 'ccl', 'Ciclev10003356m.g' => 'ccl', 'Ciclev10006141m.g' => 'ccl', 'Ciclev10016676m.g' => 'ccl', 'Ciclev10017081m.g' => 'ccl', 'Ciclev10029499m.g' => 'ccl', 'CiPaw.01G166300' => 'cil', 'CiPaw.06G145600' => 'cil', 'CiPaw.13G040100' => 'cil', 'CiPaw.13G135800' => 'cil', 'ClCG01G012230' => 'cla', 'ClCG05G009510' => 'cla', 'ClCG08G008270' => 'cla', 'COL.COLO4_11763' => 'col', 'COL.COLO4_19876' => 'col', 'COL.COLO4_21481' => 'col', 'Cpa.g.sc118.34' => 'cpa', 'Cpa.g.sc32.13' => 'cpa', 'Cpa.g.sc58.103' => 'cpa', 'Cre03.g183850' => 'cre', 'Cre06.g306350' => 'cre', 'Cre07.g334800' => 'cre', 'Cre12.g487900' => 'cre', 'Cre14.g626700' => 'cre', 'Cre16.g658400' => 'cre', 'Cre17.g700950' => 'cre', 'CsaV3_1G014830' => 'csa', 'CsaV3_3G013320' => 'csa', 'CsaV3_3G019210' => 'csa', 'CsaV3_3G019220' => 'csa', 'CsaV3_6G004230' => 'csa', 'CSS0003773' => 'camsi', 'CSS0004563' => 'camsi', 'CSS0013949' => 'camsi', 'CSS0025971' => 'camsi', 'CSS0028570' => 'camsi', 'CSS0033127' => 'camsi', 'CSS0036051' => 'camsi', 'CSS0040087' => 'camsi', 'CSS0043179' => 'camsi', 'DCAR_006161' => 'dca', 'DCAR_010351' => 'dca', 'DCAR_012197' => 'dca', 'DCAR_024162' => 'dca', 'Dinv01030' => 'din', 'Dinv10924' => 'din', 'Dinv11835' => 'din', 'Dinv22841' => 'din', 'Dinv42553' => 'din', 'Duzib052G0560' => 'dzi', 'Duzib132G0389' => 'dzi', 'Duzib150G1181' => 'dzi', 'Duzib168G0623' => 'dzi', 'Duzib170G1036' => 'dzi', 'Duzib212G0200' => 'dzi', 'Duzib248G0194' => 'dzi', 'ECA232G2193' => 'eca', 'ECA233G0302' => 'eca', 'ECA234G2813' => 'eca', 'ECA234G4866' => 'eca', 'ECA240G3932' => 'eca', 'ECA248G0385' => 'eca', 'EL10Ac2g04781' => 'bvu', 'EL10Ac3g06445' => 'bvu', 'EL10Ac7g15825' => 'bvu', 'EL10Ac8g18550' => 'bvu', 'Eucgr.B03849' => 'egr', 'Eucgr.I02744' => 'egr', 'Eucgr.J00264' => 'egr', 'Eucgr.J00493' => 'egr', 'FAN04G2181' => 'fan', 'FAN07G2666' => 'fan', 'FAN11G0024' => 'fan', 'FAN12G1105' => 'fan', 'FAN13G0302' => 'fan', 'FAN15G2781' => 'fan', 'FAN16G1274' => 'fan', 'FAN17G2988' => 'fan', 'FAN18G2621' => 'fan', 'FAN21G0013' => 'fan', 'FAN22G1211' => 'fan', 'FAN25G3626' => 'fan', 'FvH4_2g09491' => 'fve', 'FvH4_3g24910' => 'fve', 'FvH4_4g15630' => 'fve', 'FvH4_5g28820' => 'fve', 'Glyma.01G238000' => 'gma', 'Glyma.05G168400' => 'gma', 'Glyma.08G126800' => 'gma', 'Glyma.08G188500' => 'gma', 'Glyma.10G278900' => 'gma', 'Glyma.11G005700' => 'gma', 'Glyma.11G183300' => 'gma', 'Glyma.12G089200' => 'gma', 'Glyma.12G169400' => 'gma', 'Glyma.12G169500' => 'gma', 'Glyma.12G169600' => 'gma', 'Glyma.20G110800' => 'gma', 'Gohir.A03G192900' => 'ghi', 'Gohir.A03G193000' => 'ghi', 'Gohir.A05G080700' => 'ghi', 'Gohir.A09G216000' => 'ghi', 'Gohir.A12G027700' => 'ghi', 'Gohir.A13G036200' => 'ghi', 'Gohir.A13G222600' => 'ghi', 'Gohir.D02G213900' => 'ghi', 'Gohir.D02G214000' => 'ghi', 'Gohir.D05G083700' => 'ghi', 'Gohir.D05G083800' => 'ghi', 'Gohir.D05G083850' => 'ghi', 'Gohir.D08G015400' => 'ghi', 'Gohir.D09G218400' => 'ghi', 'Gohir.D12G027100' => 'ghi', 'Gohir.D13G034500' => 'ghi', 'Gohir.D13G227400' => 'ghi', 'Gorai.005G241800' => 'gra', 'Gorai.005G241900' => 'gra', 'Gorai.006G239400' => 'gra', 'Gorai.008G027600' => 'gra', 'Gorai.009G085400' => 'gra', 'Gorai.009G085500' => 'gra', 'Gorai.013G039000' => 'gra', 'Gorai.013G194800' => 'gra', 'Gorai.013G257900' => 'gra', 'GSVIVG01000982001' => 'vvi', 'GSVIVG01017981001' => 'vvi', 'HanXRQChr01g0024061' => 'han', 'HanXRQChr09g0247831' => 'han', 'HanXRQChr10g0294611' => 'han', 'HanXRQChr10g0294621' => 'han', 'HanXRQChr11g0346821' => 'han', 'HanXRQChr13g0397461' => 'han', 'HanXRQChr16g0513651' => 'han', 'HanXRQChr16g0513701' => 'han', 'Haze_00897' => 'cav', 'Haze_01745' => 'cav', 'Haze_02486' => 'cav', 'Haze_02487' => 'cav', 'Haze_23374' => 'cav', 'Hma1.2p1_0578F.1_g182520' => 'hma', 'Hma1.2p1_0602F.1_g187350' => 'hma', 'Hma1.2p1_0602F.1_g187360' => 'hma', 'Hma1.2p1_0874F.1_g231320' => 'hma', 'Hma1.2p1_1197F.1_g266210' => 'hma', 'Hma1.2p1_1197F.1_g266220' => 'hma', 'Hma1.2p1_2167F.1_g315895' => 'hma', 'Hma1.2p1_2190F.1_g316640' => 'hma', 'Hma1.2p1_3645F.1_g337153' => 'hma', 'HPP92_004907' => 'vpl', 'HPP92_012134' => 'vpl', 'HPP92_025136' => 'vpl', 'HPP92_026087' => 'vpl', 'Hund06782' => 'sun', 'Hund06784' => 'sun', 'Lalb_Chr01g0004861' => 'lal', 'Lalb_Chr02g0140591' => 'lal', 'Lalb_Chr02g0140611' => 'lal', 'Lalb_Chr03g0028101' => 'lal', 'Lalb_Chr07g0185791' => 'lal', 'Lalb_Chr12g0204491' => 'lal', 'Lalb_Chr13g0295671' => 'lal', 'Lalb_Chr19g0136461' => 'lal', 'Lalb_Chr21g0309191' => 'lal', 'Lj1g0028158' => 'lja', 'Lj1P236T38' => 'lonja', 'Lj2C32G2' => 'lonja', 'Lj2P944T8' => 'lonja', 'Lj2P963T15' => 'lonja', 'Lj3g0011788' => 'lja', 'Lj4g0025027' => 'lja', 'Lj5P255T36' => 'lonja', 'Lj6g0018866' => 'lja', 'Lj6P608T31' => 'lonja', 'LjContig00408g0008879' => 'lja', 'Lsat_1_v5_gn_5_105820' => 'lsa', 'Lsat_1_v5_gn_6_38800' => 'lsa', 'Lsat_1_v5_gn_7_67141' => 'lsa', 'Manes.04G003400' => 'mes', 'Manes.07G020000' => 'mes', 'Manes.07G020100' => 'mes', 'Manes.07G020150' => 'mes', 'Manes.10G061500' => 'mes', 'Manes.10G123200' => 'mes', 'Manes.11G161900' => 'mes', 'Manes.15G029300' => 'mes', 'Mapoly0071s0018' => 'mpo', 'Mapoly0082s0023' => 'mpo', 'Mapoly3477s0001' => 'mpo', 'MBI05_g31233_MAGBIO' => 'mbi', 'MBI09_g05946_MAGBIO' => 'mbi', 'MBI09_g05947_MAGBIO' => 'mbi', 'MBI17_g08346_MAGBIO' => 'mbi', 'MCO04G038' => 'mco', 'MCO09G370' => 'mco', 'MCO13G605' => 'mco', 'MD00G1075500' => 'mdo', 'MD03G1144300' => 'mdo', 'MD08G1236800' => 'mdo', 'MD13G1193300' => 'mdo', 'MD15G1428700' => 'mdo', 'Medtr1g112030' => 'mtr', 'Medtr1g112050' => 'mtr', 'Medtr2g006290' => 'mtr', 'Medtr2g086510' => 'mtr', 'Medtr4g053120' => 'mtr', 'Medtr5g006320' => 'mtr', 'Medtr8g088720' => 'mtr', 'MELO3C004712.2' => 'cme', 'MELO3C006533.2' => 'cme', 'MELO3C019438.2' => 'cme', 'MELO3C019440.2' => 'cme', 'MELO3C019441.2' => 'cme', 'MELO3C019895.2' => 'cme', 'Migut.B00811' => 'egut', 'Migut.D02447' => 'egut', 'Migut.F00875' => 'egut', 'Migut.N00186' => 'egut', 'Migut.N01051' => 'egut', 'Migut.N02491' => 'egut', 'Migut.O00784' => 'egut', 'MSTRG.12367' => 'ama', 'MSTRG.18756' => 'ama', 'MSTRG.21042' => 'ama', 'Nitab4.5_0000559g0040' => 'nta', 'Nitab4.5_0000667g0190' => 'nta', 'Nitab4.5_0000755g0160' => 'nta', 'Nitab4.5_0001216g0080' => 'nta', 'Nitab4.5_0004069g0040' => 'nta', 'Nitab4.5_0004129g0010' => 'nta', 'Nitab4.5_0005744g0030' => 'nta', 'Nitab4.5_0006996g0030' => 'nta', 'Nitab4.5_0008971g0040' => 'nta', 'Nitab4.5_0009769g0020' => 'nta', 'Nitab4.5_0009833g0010' => 'nta', 'Nitab4.5_0013140g0020' => 'nta', 'Nn003s41376' => 'nnu', 'Nn1g01857' => 'nnu', 'Nn1g03611' => 'nnu', 'Nn1g06853' => 'nnu', 'Nn3g18360' => 'nnu', 'Nn4g26328' => 'nnu', 'Nn5g27531' => 'nnu', 'Nn6g34899' => 'nnu', 'Nn7g36299' => 'nnu', 'Oeu021485.1' => 'oeu', 'Oeu022433.1' => 'oeu', 'Oeu032111.1' => 'oeu', 'Oeu051608.1' => 'oeu', 'Os01g0860601' => 'osa', 'Os03g0659200' => 'osa', 'Os03g0835900' => 'osa', 'Os04g0412200' => 'osa', 'Os05g0443500' => 'osa', 'Os07g0251500' => 'osa', 'Os08g0104600' => 'osa', 'Peaxi162Scf00003g00047' => 'pax', 'Peaxi162Scf00003g00052' => 'pax', 'Peaxi162Scf00003g00394' => 'pax', 'Peaxi162Scf00091g00621' => 'pax', 'Peaxi162Scf00152g00146' => 'pax', 'Peaxi162Scf00173g00025' => 'pax', 'Peaxi162Scf00195g00102' => 'pax', 'Peaxi162Scf00402g00013' => 'pax', 'Peaxi162Scf00519g00618' => 'pax', 'PGR004G2838' => 'pgr', 'PGR044G2275' => 'pgr', 'PGR102G1377' => 'pgr', 'PGR119G1245' => 'pgr', 'PGR142G4449' => 'pgr', 'PGSC0003DMG400004532' => 'stu', 'PGSC0003DMG400011950' => 'stu', 'PGSC0003DMG400023391' => 'stu', 'PGSC0003DMG400023985' => 'stu', 'PGSC0003DMG400026360' => 'stu', 'PGSC0003DMG400035711' => 'stu', 'PGSC0003DMG400037286' => 'stu', 'PGSC0003DMG402005881' => 'stu', 'Phvul.002G045400' => 'pvu', 'Phvul.006G216600' => 'pvu', 'Phvul.006G216700' => 'pvu', 'Phvul.006G216800' => 'pvu', 'Phvul.007G022500' => 'pvu', 'Phvul.011G094400' => 'pvu', 'Potri.001G470700' => 'ptr', 'Potri.003G015200' => 'ptr', 'Potri.004G202500' => 'ptr', 'Potri.004G218400' => 'ptr', 'Potri.008G020100' => 'ptr', 'Potri.008G153200' => 'ptr', 'Potri.009G163800' => 'ptr', 'Potri.010G087300' => 'ptr', 'Potri.010G239100' => 'ptr', 'Pp3c10_16100' => 'ppa', 'Pp3c10_16880' => 'ppa', 'Pp3c16_6230' => 'ppa', 'Pp3c17_18910' => 'ppa', 'Pp3c3_22119' => 'ppa', 'Pp3c3_22140' => 'ppa', 'Pp3c4_8159' => 'ppa', 'Pp3c4_8171' => 'ppa', 'Pp3c4_8330' => 'ppa', 'PRCOL_00004098' => 'pco', 'Prupe.1G013900' => 'ppe', 'Prupe.1G226300' => 'ppe', 'Prupe.1G573600' => 'ppe', 'Prupe.6G130100' => 'ppe', 'Psat3g090040' => 'psa', 'Psat4g210440' => 'psa', 'Psat6g231040' => 'psa', 'Psat6g231080' => 'psa', 'Psat7g063000' => 'psa', 'Psat7g188000' => 'psa', 'Psat7g188040' => 'psa', 'PSO017G0206' => 'pso', 'PSO170G0501' => 'pso', 'PSO170G6422' => 'pso', 'PSO210G7739' => 'pso', 'PSO339G1808' => 'pso', 'PSO339G6135' => 'pso', 'PSO384G0010' => 'pso', 'PSO384G0964' => 'pso', 'PSO761G0050' => 'pso', 'PSO782G4085' => 'pso', 'QL01p012264' => 'qlo', 'QL02p099491' => 'qlo', 'QL03p033868' => 'qlo', 'QL04p046678' => 'qlo', 'QL06p002448' => 'qlo', 'RcHm_v2.0_Chr4g0416181' => 'rch', 'RcHm_v2.0_Chr5g0044701' => 'rch', 'RcHm_v2.0_Chr6g0265781' => 'rch', 'RcHm_v2.0_Chr7g0221031' => 'rch', 'Rhsim04G0202000' => 'rsi', 'Rhsim11G0127300' => 'rsi', 'Rhsim13G0111800' => 'rsi', 'Sabra01G0165600' => 'sbr', 'Sabra03G0008300' => 'sbr', 'Sabra04G0136900' => 'sbr', 'Sabra08G0013400' => 'sbr', 'Sabra08G0116800' => 'sbr', 'Sabra09G0128000' => 'sbr', 'Sabra10G0055500' => 'sbr', 'Sabra10G0073300' => 'sbr', 'SalBow3G0385' => 'sbo', 'SalBow3G1119' => 'sbo', 'SalBow3G2005' => 'sbo', 'SalBow6G2563' => 'sbo', 'SalBow6G6386' => 'sbo', 'Sc06g0008800' => 'sci', 'Sc07g0004950' => 'sci', 'Sc09g0005340' => 'sci', 'Sc13g0004410' => 'sci', 'Sc21g0007090' => 'sci', 'Sed0009285' => 'sed', 'Sed0017583' => 'sed', 'Sed0019699' => 'sed', 'Sed0023107' => 'sed', 'SEGI_10916' => 'sgi', 'SEGI_16217' => 'sgi', 'SEGI_19466' => 'sgi', 'SEGI_41115' => 'sgi', 'SGA_v2.0_scaffold111G31534' => 'sas', 'SGA_v2.0_scaffold22G09864' => 'sas', 'SGA_v2.0_scaffold338G49219' => 'sas', 'SGA_v2.0_scaffold92G28298' => 'sas', 'SMO119G0064' => 'smo', 'SMO223G0038' => 'smo', 'SMO347G0584' => 'smo', 'SMO351G0010' => 'smo', 'SMO356G0404' => 'smo', 'Solyc01g103920.3' => 'sly', 'Solyc04g009710.2' => 'sly', 'Solyc05g055280.2' => 'sly', 'Solyc10g044520.3' => 'sly', 'Solyc10g075160.1' => 'sly', 'Solyc11g006910.3' => 'sly', 'Solyc11g068430.3' => 'sly', 'Sopen01g046310' => 'spe', 'Sopen03g001200' => 'spe', 'Sopen04g004830' => 'spe', 'Sopen05g033720' => 'spe', 'Sopen06g030740' => 'spe', 'Sopen10g013090' => 'spe', 'Sopen10g027630' => 'spe', 'Sopen10g027640' => 'spe', 'Sopen11g002820' => 'spe', 'Sopen11g027140' => 'spe', 'Sp1g09680' => 'spa', 'Sp2g03630' => 'spa', 'Sp4g10320' => 'spa', 'Sp6g33400' => 'spa', 'Sp7g13030' => 'spa', 'TAR365G0317' => 'tar', 'TAR376G0979' => 'tar', 'TAR623G1665' => 'tar', 'TAR633G2373' => 'tar', 'TAR636G1400' => 'tar', 'THA.LOC104800529' => 'tha', 'THA.LOC104808547' => 'tha', 'THA.LOC104809615' => 'tha', 'THA.LOC104815724' => 'tha', 'THA.LOC104818480' => 'tha', 'THA.LOC104819179' => 'tha', 'THA.LOC104822270' => 'tha', 'THA.LOC104826425' => 'tha', 'Thecc.02G089700' => 'tca', 'Thecc.04G232300' => 'tca', 'Thecc.09G283400' => 'tca', 'Thhalv10009020m.g' => 'esa', 'Thhalv10015506m.g' => 'esa', 'Thhalv10017364m.g' => 'esa', 'Thhalv10023742m.g' => 'esa', 'Thhalv10026483m.g' => 'esa', 'TPR.G17232' => 'tpr', 'TPR.G2133' => 'tpr', 'TPR.G2498' => 'tpr', 'TPR.G31942' => 'tpr', 'TPR.G37877' => 'tpr', 'TPR.G4571' => 'tpr', 'TWI14G1113' => 'twi', 'TWI15G0426' => 'twi', 'TWI31G1005' => 'twi', 'TWI38G0513' => 'twi', 'TWI38G1484' => 'twi', 'TWI73G1098' => 'twi', 'unitig_26.g10519' => 'ugi', 'unitig_736.g22395' => 'ugi', 'unitig_747.g21234' => 'ugi', 'unitig_747.g21942' => 'ugi', 'vmacro14351' => 'vma', 'VMungo0540G0082' => 'vmu', 'VMungo0540G0405' => 'vmu', 'VMungo0540G1486' => 'vmu', 'VMungo0540G1692' => 'vmu', 'VMungo0720G2473' => 'vmu', 'VMungo1127G1562' => 'vmu', 'VMungo1215G1918' => 'vmu', 'Zm00001eb052650' => 'zma', 'Zm00001eb063710' => 'zma', 'Zm00001eb083950' => 'zma', 'Zm00001eb174420' => 'zma', 'Zm00001eb260140' => 'zma', 'Zm00001eb260150' => 'zma', 'Zm00001eb260160' => 'zma', 'Zm00001eb348290' => 'zma', 'Zm00001eb366870' => 'zma', 'Zm00001eb421930' => 'zma' ), 'gf_id' => 'HOM05D001025', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001025' ), 'data_identifier' => 'HOM05D001025', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001025', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '592', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p22650' => 'bna', 'A01p29720' => 'bna', 'A03p26560' => 'bna', 'A03p68820' => 'bna', 'A04p20980' => 'bna', 'A06p07730' => 'bna', 'A07p18260' => 'bna', 'A08p33710' => 'bna', 'A09p16970' => 'bna', 'A10p27490' => 'bna', 'Aa31LG1G17300' => 'aar', 'Aa31LG1G3910' => 'aar', 'Aa31LG2G9630' => 'aar', 'Aa31LG5G8360' => 'aar', 'Aa31LG9G2410' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4699' => 'aag', 'Actinidia23512' => 'ach', 'Actinidia37080' => 'ach', 'Ah.01g020380' => 'amhyb', 'Ah.08g215710' => 'amhyb', 'Ah.09g225110' => 'amhyb', 'Ah.10g036680' => 'amhyb', 'AL1G21940' => 'aly', 'AL2G15540' => 'aly', 'AL4G21520' => 'aly', 'AL7G40960' => 'aly', 'Aqoxy2G01191' => 'aox', 'Aqoxy2G03393' => 'aox', 'Aqoxy4G02775' => 'aox', 'Aqoxy6G00058' => 'aox', 'arahy.Tifrunner.gnm1.ann1.9X74H2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CW3FX9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R485W7' => 'arhy', 'AT1G10960' => 'ath', 'AT1G60950' => 'ath', 'AT2G27510' => 'ath', 'AT4G14890' => 'ath', 'AT5G10000' => 'ath', 'ATR0665G624' => 'atr', 'ATR0697G138' => 'atr', 'ATR0776G046' => 'atr', 'ATR1134G135' => 'atr', 'Atru.chr12.1025' => 'acertr', 'Atru.chr3.3241' => 'acertr', 'Atru.chr4.2460' => 'acertr', 'AUR62007427' => 'cqu', 'AUR62010960' => 'cqu', 'AUR62012201' => 'cqu', 'AUR62021470' => 'cqu', 'AUR62022834' => 'cqu', 'AUR62033635' => 'cqu', 'AUR62036186' => 'cqu', 'BcaB01g03077' => 'bca', 'BcaB02g10093' => 'bca', 'BcaB04g20295' => 'bca', 'BcaB06g28147' => 'bca', 'BcaB07g31253' => 'bca', 'BcaC01g04946' => 'bca', 'BcaC02g10614' => 'bca', 'BcaC02g10885' => 'bca', 'BcaC04g19356' => 'bca', 'BcaC04g22297' => 'bca', 'BcaC05g24977' => 'bca', 'BcaC06g31823' => 'bca', 'BcaC07g38633' => 'bca', 'BcaC09g49353' => 'bca', 'BcaC09g50168' => 'bca', 'BcaNung00322' => 'bca', 'BcaNung04769' => 'bca', 'BolC1t02753H' => 'bol', 'BolC1t03721H' => 'bol', 'BolC3t15525H' => 'bol', 'BolC4t23903H' => 'bol', 'BolC4t24231H' => 'bol', 'BolC4t27209H' => 'bol', 'BolC5t29671H' => 'bol', 'BolC8t49044H' => 'bol', 'BolC9t54999H' => 'bol', 'BolC9t59517H' => 'bol', 'BraA01t02178Z' => 'bra', 'BraA01t03099Z' => 'bra', 'BraA03t11867Z' => 'bra', 'BraA04t17667Z' => 'bra', 'BraA07t29542Z' => 'bra', 'BraA08t35287Z' => 'bra', 'BraA09t37334Z' => 'bra', 'BraA10t44801Z' => 'bra', 'BraSC39t46181Z' => 'bra', 'C01p28240' => 'bna', 'C01p37530' => 'bna', 'C03p31820' => 'bna', 'C04p24080' => 'bna', 'C04p25790' => 'bna', 'C04p56770' => 'bna', 'C05p09310' => 'bna', 'C09p21010' => 'bna', 'C09p67560' => 'bna', 'CAN.G1324.7' => 'can', 'CAN.G1358.10' => 'can', 'CAN.G1550.2' => 'can', 'CAN.G186.56' => 'can', 'CAN.G1965.1' => 'can', 'CAN.G645.15' => 'can', 'CAN.G798.26' => 'can', 'CAN.G798.27' => 'can', 'CAN.G798.29' => 'can', 'CAN.G919.31' => 'can', 'CANSAT11G0133' => 'cansat', 'CANSAT11G1171' => 'cansat', 'CANSAT11G2056' => 'cansat', 'CANSAT56G1202' => 'cansat', 'CANSAT56G1514' => 'cansat', 'CANSAT78G0455' => 'cansat', 'CARHR011190' => 'chi', 'CARHR051980' => 'chi', 'CARHR120170' => 'chi', 'CARHR203310' => 'chi', 'CARHR221490' => 'chi', 'Carub.0001s1054' => 'cru', 'Carub.0002s0431' => 'cru', 'Carub.0004s0818' => 'cru', 'Carub.0006s0846' => 'cru', 'Carub.0007s2722' => 'cru', 'Ca_00058_v3' => 'car', 'Ca_17831_v3' => 'car', 'Ca_19408_v3' => 'car', 'Ca_24397_v3' => 'car', 'Ca_25664_v3' => 'car', 'CBR_g21818' => 'cbr', 'CBR_g31195' => 'cbr', 'CBR_g32282' => 'cbr', 'CBR_g39599' => 'cbr', 'CBR_g49410' => 'cbr', 'Cc01_g09120' => 'ccan', 'Cc01_g09130' => 'ccan', 'Cc02_g09630' => 'ccan', 'Cc02_g22810' => 'ccan', 'Cc03_g03810' => 'ccan', 'CDE02G3718' => 'cde', 'CDE04G3183' => 'cde', 'CDE07G1046' => 'cde', 'CDE08G0480' => 'cde', 'Cfa005493' => 'cfa', 'Cfa010312' => 'cfa', 'Cfa015648' => 'cfa', 'Ciclev10002793m.g' => 'ccl', 'Ciclev10003356m.g' => 'ccl', 'Ciclev10006141m.g' => 'ccl', 'Ciclev10016676m.g' => 'ccl', 'Ciclev10017081m.g' => 'ccl', 'Ciclev10029499m.g' => 'ccl', 'CiPaw.01G166300' => 'cil', 'CiPaw.06G145600' => 'cil', 'CiPaw.13G040100' => 'cil', 'CiPaw.13G135800' => 'cil', 'ClCG01G012230' => 'cla', 'ClCG05G009510' => 'cla', 'ClCG08G008270' => 'cla', 'COL.COLO4_11763' => 'col', 'COL.COLO4_19876' => 'col', 'COL.COLO4_21481' => 'col', 'Cpa.g.sc118.34' => 'cpa', 'Cpa.g.sc32.13' => 'cpa', 'Cpa.g.sc58.103' => 'cpa', 'Cre03.g183850' => 'cre', 'Cre06.g306350' => 'cre', 'Cre07.g334800' => 'cre', 'Cre12.g487900' => 'cre', 'Cre14.g626700' => 'cre', 'Cre16.g658400' => 'cre', 'Cre17.g700950' => 'cre', 'CsaV3_1G014830' => 'csa', 'CsaV3_3G013320' => 'csa', 'CsaV3_3G019210' => 'csa', 'CsaV3_3G019220' => 'csa', 'CsaV3_6G004230' => 'csa', 'CSS0003773' => 'camsi', 'CSS0004563' => 'camsi', 'CSS0013949' => 'camsi', 'CSS0025971' => 'camsi', 'CSS0028570' => 'camsi', 'CSS0033127' => 'camsi', 'CSS0036051' => 'camsi', 'CSS0040087' => 'camsi', 'CSS0043179' => 'camsi', 'DCAR_006161' => 'dca', 'DCAR_010351' => 'dca', 'DCAR_012197' => 'dca', 'DCAR_024162' => 'dca', 'Dinv01030' => 'din', 'Dinv10924' => 'din', 'Dinv11835' => 'din', 'Dinv22841' => 'din', 'Dinv42553' => 'din', 'Duzib052G0560' => 'dzi', 'Duzib132G0389' => 'dzi', 'Duzib150G1181' => 'dzi', 'Duzib168G0623' => 'dzi', 'Duzib170G1036' => 'dzi', 'Duzib212G0200' => 'dzi', 'Duzib248G0194' => 'dzi', 'ECA232G2193' => 'eca', 'ECA233G0302' => 'eca', 'ECA234G2813' => 'eca', 'ECA234G4866' => 'eca', 'ECA240G3932' => 'eca', 'ECA248G0385' => 'eca', 'EL10Ac2g04781' => 'bvu', 'EL10Ac3g06445' => 'bvu', 'EL10Ac7g15825' => 'bvu', 'EL10Ac8g18550' => 'bvu', 'Eucgr.B03849' => 'egr', 'Eucgr.I02744' => 'egr', 'Eucgr.J00264' => 'egr', 'Eucgr.J00493' => 'egr', 'FAN04G2181' => 'fan', 'FAN07G2666' => 'fan', 'FAN11G0024' => 'fan', 'FAN12G1105' => 'fan', 'FAN13G0302' => 'fan', 'FAN15G2781' => 'fan', 'FAN16G1274' => 'fan', 'FAN17G2988' => 'fan', 'FAN18G2621' => 'fan', 'FAN21G0013' => 'fan', 'FAN22G1211' => 'fan', 'FAN25G3626' => 'fan', 'FvH4_2g09491' => 'fve', 'FvH4_3g24910' => 'fve', 'FvH4_4g15630' => 'fve', 'FvH4_5g28820' => 'fve', 'Glyma.01G238000' => 'gma', 'Glyma.05G168400' => 'gma', 'Glyma.08G126800' => 'gma', 'Glyma.08G188500' => 'gma', 'Glyma.10G278900' => 'gma', 'Glyma.11G005700' => 'gma', 'Glyma.11G183300' => 'gma', 'Glyma.12G089200' => 'gma', 'Glyma.12G169400' => 'gma', 'Glyma.12G169500' => 'gma', 'Glyma.12G169600' => 'gma', 'Glyma.20G110800' => 'gma', 'Gohir.A03G192900' => 'ghi', 'Gohir.A03G193000' => 'ghi', 'Gohir.A05G080700' => 'ghi', 'Gohir.A09G216000' => 'ghi', 'Gohir.A12G027700' => 'ghi', 'Gohir.A13G036200' => 'ghi', 'Gohir.A13G222600' => 'ghi', 'Gohir.D02G213900' => 'ghi', 'Gohir.D02G214000' => 'ghi', 'Gohir.D05G083700' => 'ghi', 'Gohir.D05G083800' => 'ghi', 'Gohir.D05G083850' => 'ghi', 'Gohir.D08G015400' => 'ghi', 'Gohir.D09G218400' => 'ghi', 'Gohir.D12G027100' => 'ghi', 'Gohir.D13G034500' => 'ghi', 'Gohir.D13G227400' => 'ghi', 'Gorai.005G241800' => 'gra', 'Gorai.005G241900' => 'gra', 'Gorai.006G239400' => 'gra', 'Gorai.008G027600' => 'gra', 'Gorai.009G085400' => 'gra', 'Gorai.009G085500' => 'gra', 'Gorai.013G039000' => 'gra', 'Gorai.013G194800' => 'gra', 'Gorai.013G257900' => 'gra', 'GSVIVG01000982001' => 'vvi', 'GSVIVG01017981001' => 'vvi', 'HanXRQChr01g0024061' => 'han', 'HanXRQChr09g0247831' => 'han', 'HanXRQChr10g0294611' => 'han', 'HanXRQChr10g0294621' => 'han', 'HanXRQChr11g0346821' => 'han', 'HanXRQChr13g0397461' => 'han', 'HanXRQChr16g0513651' => 'han', 'HanXRQChr16g0513701' => 'han', 'Haze_00897' => 'cav', 'Haze_01745' => 'cav', 'Haze_02486' => 'cav', 'Haze_02487' => 'cav', 'Haze_23374' => 'cav', 'Hma1.2p1_0578F.1_g182520' => 'hma', 'Hma1.2p1_0602F.1_g187350' => 'hma', 'Hma1.2p1_0602F.1_g187360' => 'hma', 'Hma1.2p1_0874F.1_g231320' => 'hma', 'Hma1.2p1_1197F.1_g266210' => 'hma', 'Hma1.2p1_1197F.1_g266220' => 'hma', 'Hma1.2p1_2167F.1_g315895' => 'hma', 'Hma1.2p1_2190F.1_g316640' => 'hma', 'Hma1.2p1_3645F.1_g337153' => 'hma', 'HPP92_004907' => 'vpl', 'HPP92_012134' => 'vpl', 'HPP92_025136' => 'vpl', 'HPP92_026087' => 'vpl', 'Hund06782' => 'sun', 'Hund06784' => 'sun', 'Lalb_Chr01g0004861' => 'lal', 'Lalb_Chr02g0140591' => 'lal', 'Lalb_Chr02g0140611' => 'lal', 'Lalb_Chr03g0028101' => 'lal', 'Lalb_Chr07g0185791' => 'lal', 'Lalb_Chr12g0204491' => 'lal', 'Lalb_Chr13g0295671' => 'lal', 'Lalb_Chr19g0136461' => 'lal', 'Lalb_Chr21g0309191' => 'lal', 'Lj1g0028158' => 'lja', 'Lj1P236T38' => 'lonja', 'Lj2C32G2' => 'lonja', 'Lj2P944T8' => 'lonja', 'Lj2P963T15' => 'lonja', 'Lj3g0011788' => 'lja', 'Lj4g0025027' => 'lja', 'Lj5P255T36' => 'lonja', 'Lj6g0018866' => 'lja', 'Lj6P608T31' => 'lonja', 'LjContig00408g0008879' => 'lja', 'Lsat_1_v5_gn_5_105820' => 'lsa', 'Lsat_1_v5_gn_6_38800' => 'lsa', 'Lsat_1_v5_gn_7_67141' => 'lsa', 'Manes.04G003400' => 'mes', 'Manes.07G020000' => 'mes', 'Manes.07G020100' => 'mes', 'Manes.07G020150' => 'mes', 'Manes.10G061500' => 'mes', 'Manes.10G123200' => 'mes', 'Manes.11G161900' => 'mes', 'Manes.15G029300' => 'mes', 'Mapoly0071s0018' => 'mpo', 'Mapoly0082s0023' => 'mpo', 'Mapoly3477s0001' => 'mpo', 'MBI05_g31233_MAGBIO' => 'mbi', 'MBI09_g05946_MAGBIO' => 'mbi', 'MBI09_g05947_MAGBIO' => 'mbi', 'MBI17_g08346_MAGBIO' => 'mbi', 'MCO04G038' => 'mco', 'MCO09G370' => 'mco', 'MCO13G605' => 'mco', 'MD00G1075500' => 'mdo', 'MD03G1144300' => 'mdo', 'MD08G1236800' => 'mdo', 'MD13G1193300' => 'mdo', 'MD15G1428700' => 'mdo', 'Medtr1g112030' => 'mtr', 'Medtr1g112050' => 'mtr', 'Medtr2g006290' => 'mtr', 'Medtr2g086510' => 'mtr', 'Medtr4g053120' => 'mtr', 'Medtr5g006320' => 'mtr', 'Medtr8g088720' => 'mtr', 'MELO3C004712.2' => 'cme', 'MELO3C006533.2' => 'cme', 'MELO3C019438.2' => 'cme', 'MELO3C019440.2' => 'cme', 'MELO3C019441.2' => 'cme', 'MELO3C019895.2' => 'cme', 'Migut.B00811' => 'egut', 'Migut.D02447' => 'egut', 'Migut.F00875' => 'egut', 'Migut.N00186' => 'egut', 'Migut.N01051' => 'egut', 'Migut.N02491' => 'egut', 'Migut.O00784' => 'egut', 'MSTRG.12367' => 'ama', 'MSTRG.18756' => 'ama', 'MSTRG.21042' => 'ama', 'Nitab4.5_0000559g0040' => 'nta', 'Nitab4.5_0000667g0190' => 'nta', 'Nitab4.5_0000755g0160' => 'nta', 'Nitab4.5_0001216g0080' => 'nta', 'Nitab4.5_0004069g0040' => 'nta', 'Nitab4.5_0004129g0010' => 'nta', 'Nitab4.5_0005744g0030' => 'nta', 'Nitab4.5_0006996g0030' => 'nta', 'Nitab4.5_0008971g0040' => 'nta', 'Nitab4.5_0009769g0020' => 'nta', 'Nitab4.5_0009833g0010' => 'nta', 'Nitab4.5_0013140g0020' => 'nta', 'Nn003s41376' => 'nnu', 'Nn1g01857' => 'nnu', 'Nn1g03611' => 'nnu', 'Nn1g06853' => 'nnu', 'Nn3g18360' => 'nnu', 'Nn4g26328' => 'nnu', 'Nn5g27531' => 'nnu', 'Nn6g34899' => 'nnu', 'Nn7g36299' => 'nnu', 'Oeu021485.1' => 'oeu', 'Oeu022433.1' => 'oeu', 'Oeu032111.1' => 'oeu', 'Oeu051608.1' => 'oeu', 'Os01g0860601' => 'osa', 'Os03g0659200' => 'osa', 'Os03g0835900' => 'osa', 'Os04g0412200' => 'osa', 'Os05g0443500' => 'osa', 'Os07g0251500' => 'osa', 'Os08g0104600' => 'osa', 'Peaxi162Scf00003g00047' => 'pax', 'Peaxi162Scf00003g00052' => 'pax', 'Peaxi162Scf00003g00394' => 'pax', 'Peaxi162Scf00091g00621' => 'pax', 'Peaxi162Scf00152g00146' => 'pax', 'Peaxi162Scf00173g00025' => 'pax', 'Peaxi162Scf00195g00102' => 'pax', 'Peaxi162Scf00402g00013' => 'pax', 'Peaxi162Scf00519g00618' => 'pax', 'PGR004G2838' => 'pgr', 'PGR044G2275' => 'pgr', 'PGR102G1377' => 'pgr', 'PGR119G1245' => 'pgr', 'PGR142G4449' => 'pgr', 'PGSC0003DMG400004532' => 'stu', 'PGSC0003DMG400011950' => 'stu', 'PGSC0003DMG400023391' => 'stu', 'PGSC0003DMG400023985' => 'stu', 'PGSC0003DMG400026360' => 'stu', 'PGSC0003DMG400035711' => 'stu', 'PGSC0003DMG400037286' => 'stu', 'PGSC0003DMG402005881' => 'stu', 'Phvul.002G045400' => 'pvu', 'Phvul.006G216600' => 'pvu', 'Phvul.006G216700' => 'pvu', 'Phvul.006G216800' => 'pvu', 'Phvul.007G022500' => 'pvu', 'Phvul.011G094400' => 'pvu', 'Potri.001G470700' => 'ptr', 'Potri.003G015200' => 'ptr', 'Potri.004G202500' => 'ptr', 'Potri.004G218400' => 'ptr', 'Potri.008G020100' => 'ptr', 'Potri.008G153200' => 'ptr', 'Potri.009G163800' => 'ptr', 'Potri.010G087300' => 'ptr', 'Potri.010G239100' => 'ptr', 'Pp3c10_16100' => 'ppa', 'Pp3c10_16880' => 'ppa', 'Pp3c16_6230' => 'ppa', 'Pp3c17_18910' => 'ppa', 'Pp3c3_22119' => 'ppa', 'Pp3c3_22140' => 'ppa', 'Pp3c4_8159' => 'ppa', 'Pp3c4_8171' => 'ppa', 'Pp3c4_8330' => 'ppa', 'PRCOL_00004098' => 'pco', 'Prupe.1G013900' => 'ppe', 'Prupe.1G226300' => 'ppe', 'Prupe.1G573600' => 'ppe', 'Prupe.6G130100' => 'ppe', 'Psat3g090040' => 'psa', 'Psat4g210440' => 'psa', 'Psat6g231040' => 'psa', 'Psat6g231080' => 'psa', 'Psat7g063000' => 'psa', 'Psat7g188000' => 'psa', 'Psat7g188040' => 'psa', 'PSO017G0206' => 'pso', 'PSO170G0501' => 'pso', 'PSO170G6422' => 'pso', 'PSO210G7739' => 'pso', 'PSO339G1808' => 'pso', 'PSO339G6135' => 'pso', 'PSO384G0010' => 'pso', 'PSO384G0964' => 'pso', 'PSO761G0050' => 'pso', 'PSO782G4085' => 'pso', 'QL01p012264' => 'qlo', 'QL02p099491' => 'qlo', 'QL03p033868' => 'qlo', 'QL04p046678' => 'qlo', 'QL06p002448' => 'qlo', 'RcHm_v2.0_Chr4g0416181' => 'rch', 'RcHm_v2.0_Chr5g0044701' => 'rch', 'RcHm_v2.0_Chr6g0265781' => 'rch', 'RcHm_v2.0_Chr7g0221031' => 'rch', 'Rhsim04G0202000' => 'rsi', 'Rhsim11G0127300' => 'rsi', 'Rhsim13G0111800' => 'rsi', 'Sabra01G0165600' => 'sbr', 'Sabra03G0008300' => 'sbr', 'Sabra04G0136900' => 'sbr', 'Sabra08G0013400' => 'sbr', 'Sabra08G0116800' => 'sbr', 'Sabra09G0128000' => 'sbr', 'Sabra10G0055500' => 'sbr', 'Sabra10G0073300' => 'sbr', 'SalBow3G0385' => 'sbo', 'SalBow3G1119' => 'sbo', 'SalBow3G2005' => 'sbo', 'SalBow6G2563' => 'sbo', 'SalBow6G6386' => 'sbo', 'Sc06g0008800' => 'sci', 'Sc07g0004950' => 'sci', 'Sc09g0005340' => 'sci', 'Sc13g0004410' => 'sci', 'Sc21g0007090' => 'sci', 'Sed0009285' => 'sed', 'Sed0017583' => 'sed', 'Sed0019699' => 'sed', 'Sed0023107' => 'sed', 'SEGI_10916' => 'sgi', 'SEGI_16217' => 'sgi', 'SEGI_19466' => 'sgi', 'SEGI_41115' => 'sgi', 'SGA_v2.0_scaffold111G31534' => 'sas', 'SGA_v2.0_scaffold22G09864' => 'sas', 'SGA_v2.0_scaffold338G49219' => 'sas', 'SGA_v2.0_scaffold92G28298' => 'sas', 'SMO119G0064' => 'smo', 'SMO223G0038' => 'smo', 'SMO347G0584' => 'smo', 'SMO351G0010' => 'smo', 'SMO356G0404' => 'smo', 'Solyc01g103920.3' => 'sly', 'Solyc04g009710.2' => 'sly', 'Solyc05g055280.2' => 'sly', 'Solyc10g044520.3' => 'sly', 'Solyc10g075160.1' => 'sly', 'Solyc11g006910.3' => 'sly', 'Solyc11g068430.3' => 'sly', 'Sopen01g046310' => 'spe', 'Sopen03g001200' => 'spe', 'Sopen04g004830' => 'spe', 'Sopen05g033720' => 'spe', 'Sopen06g030740' => 'spe', 'Sopen10g013090' => 'spe', 'Sopen10g027630' => 'spe', 'Sopen10g027640' => 'spe', 'Sopen11g002820' => 'spe', 'Sopen11g027140' => 'spe', 'Sp1g09680' => 'spa', 'Sp2g03630' => 'spa', 'Sp4g10320' => 'spa', 'Sp6g33400' => 'spa', 'Sp7g13030' => 'spa', 'TAR365G0317' => 'tar', 'TAR376G0979' => 'tar', 'TAR623G1665' => 'tar', 'TAR633G2373' => 'tar', 'TAR636G1400' => 'tar', 'THA.LOC104800529' => 'tha', 'THA.LOC104808547' => 'tha', 'THA.LOC104809615' => 'tha', 'THA.LOC104815724' => 'tha', 'THA.LOC104818480' => 'tha', 'THA.LOC104819179' => 'tha', 'THA.LOC104822270' => 'tha', 'THA.LOC104826425' => 'tha', 'Thecc.02G089700' => 'tca', 'Thecc.04G232300' => 'tca', 'Thecc.09G283400' => 'tca', 'Thhalv10009020m.g' => 'esa', 'Thhalv10015506m.g' => 'esa', 'Thhalv10017364m.g' => 'esa', 'Thhalv10023742m.g' => 'esa', 'Thhalv10026483m.g' => 'esa', 'TPR.G17232' => 'tpr', 'TPR.G2133' => 'tpr', 'TPR.G2498' => 'tpr', 'TPR.G31942' => 'tpr', 'TPR.G37877' => 'tpr', 'TPR.G4571' => 'tpr', 'TWI14G1113' => 'twi', 'TWI15G0426' => 'twi', 'TWI31G1005' => 'twi', 'TWI38G0513' => 'twi', 'TWI38G1484' => 'twi', 'TWI73G1098' => 'twi', 'unitig_26.g10519' => 'ugi', 'unitig_736.g22395' => 'ugi', 'unitig_747.g21234' => 'ugi', 'unitig_747.g21942' => 'ugi', 'vmacro14351' => 'vma', 'VMungo0540G0082' => 'vmu', 'VMungo0540G0405' => 'vmu', 'VMungo0540G1486' => 'vmu', 'VMungo0540G1692' => 'vmu', 'VMungo0720G2473' => 'vmu', 'VMungo1127G1562' => 'vmu', 'VMungo1215G1918' => 'vmu', 'Zm00001eb052650' => 'zma', 'Zm00001eb063710' => 'zma', 'Zm00001eb083950' => 'zma', 'Zm00001eb174420' => 'zma', 'Zm00001eb260140' => 'zma', 'Zm00001eb260150' => 'zma', 'Zm00001eb260160' => 'zma', 'Zm00001eb348290' => 'zma', 'Zm00001eb366870' => 'zma', 'Zm00001eb421930' => 'zma' ) $gf_id = 'HOM05D001025' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001025' ) $data_identifier = 'HOM05D001025' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 19, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 2, 'amhyb' => (int) 4, 'aly' => (int) 4, 'aox' => (int) 4, 'arhy' => (int) 3, 'ath' => (int) 5, 'atr' => (int) 4, 'acertr' => (int) 3, 'cqu' => (int) 7, 'bca' => (int) 17, 'bol' => (int) 10, 'bra' => (int) 9, 'can' => (int) 10, 'cansat' => (int) 6, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 5, 'cbr' => (int) 5, 'ccan' => (int) 5, 'cde' => (int) 4, 'cfa' => (int) 3, 'ccl' => (int) 6, 'cil' => (int) 4, 'cla' => (int) 3, 'col' => (int) 3, 'cpa' => (int) 3, 'cre' => (int) 7, 'csa' => (int) 5, 'camsi' => (int) 9, 'dca' => (int) 4, 'din' => (int) 5, 'dzi' => (int) 7, 'eca' => (int) 6, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 12, 'fve' => (int) 4, 'gma' => (int) 12, 'ghi' => (int) 17, 'gra' => (int) 9, 'vvi' => (int) 2, 'han' => (int) 8, 'cav' => (int) 5, 'hma' => (int) 9, 'vpl' => (int) 4, 'sun' => (int) 2, 'lal' => (int) 9, 'lja' => (int) 5, 'lonja' => (int) 6, 'lsa' => (int) 3, 'mes' => (int) 8, 'mpo' => (int) 3, 'mbi' => (int) 4, 'mco' => (int) 3, 'mdo' => (int) 5, 'mtr' => (int) 7, 'cme' => (int) 6, 'egut' => (int) 7, 'ama' => (int) 3, 'nta' => (int) 12, 'nnu' => (int) 9, 'oeu' => (int) 4, 'osa' => (int) 7, 'pax' => (int) 9, 'pgr' => (int) 5, 'stu' => (int) 8, 'pvu' => (int) 6, 'ptr' => (int) 9, 'ppa' => (int) 9, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 7, 'pso' => (int) 10, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 3, 'sbr' => (int) 8, 'sbo' => (int) 5, 'sci' => (int) 5, 'sed' => (int) 4, 'sgi' => (int) 4, 'sas' => (int) 4, 'smo' => (int) 5, 'sly' => (int) 7, 'spe' => (int) 10, 'spa' => (int) 5, 'tar' => (int) 5, 'tha' => (int) 8, 'tca' => (int) 3, 'esa' => (int) 5, 'tpr' => (int) 6, 'twi' => (int) 6, 'ugi' => (int) 4, 'vma' => (int) 1, 'vmu' => (int) 7, 'zma' => (int) 10 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb421930' $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' => 'HOM05D001025', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '592', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p22650' => 'bna', 'A01p29720' => 'bna', 'A03p26560' => 'bna', 'A03p68820' => 'bna', 'A04p20980' => 'bna', 'A06p07730' => 'bna', 'A07p18260' => 'bna', 'A08p33710' => 'bna', 'A09p16970' => 'bna', 'A10p27490' => 'bna', 'Aa31LG1G17300' => 'aar', 'Aa31LG1G3910' => 'aar', 'Aa31LG2G9630' => 'aar', 'Aa31LG5G8360' => 'aar', 'Aa31LG9G2410' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4699' => 'aag', 'Actinidia23512' => 'ach', 'Actinidia37080' => 'ach', 'Ah.01g020380' => 'amhyb', 'Ah.08g215710' => 'amhyb', 'Ah.09g225110' => 'amhyb', 'Ah.10g036680' => 'amhyb', 'AL1G21940' => 'aly', 'AL2G15540' => 'aly', 'AL4G21520' => 'aly', 'AL7G40960' => 'aly', 'Aqoxy2G01191' => 'aox', 'Aqoxy2G03393' => 'aox', 'Aqoxy4G02775' => 'aox', 'Aqoxy6G00058' => 'aox', 'arahy.Tifrunner.gnm1.ann1.9X74H2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CW3FX9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R485W7' => 'arhy', 'AT1G10960' => 'ath', 'AT1G60950' => 'ath', 'AT2G27510' => 'ath', 'AT4G14890' => 'ath', 'AT5G10000' => 'ath', 'ATR0665G624' => 'atr', 'ATR0697G138' => 'atr', 'ATR0776G046' => 'atr', 'ATR1134G135' => 'atr', 'Atru.chr12.1025' => 'acertr', 'Atru.chr3.3241' => 'acertr', 'Atru.chr4.2460' => 'acertr', 'AUR62007427' => 'cqu', 'AUR62010960' => 'cqu', 'AUR62012201' => 'cqu', 'AUR62021470' => 'cqu', 'AUR62022834' => 'cqu', 'AUR62033635' => 'cqu', 'AUR62036186' => 'cqu', 'BcaB01g03077' => 'bca', 'BcaB02g10093' => 'bca', 'BcaB04g20295' => 'bca', 'BcaB06g28147' => 'bca', 'BcaB07g31253' => 'bca', 'BcaC01g04946' => 'bca', 'BcaC02g10614' => 'bca', 'BcaC02g10885' => 'bca', 'BcaC04g19356' => 'bca', 'BcaC04g22297' => 'bca', 'BcaC05g24977' => 'bca', 'BcaC06g31823' => 'bca', 'BcaC07g38633' => 'bca', 'BcaC09g49353' => 'bca', 'BcaC09g50168' => 'bca', 'BcaNung00322' => 'bca', 'BcaNung04769' => 'bca', 'BolC1t02753H' => 'bol', 'BolC1t03721H' => 'bol', 'BolC3t15525H' => 'bol', 'BolC4t23903H' => 'bol', 'BolC4t24231H' => 'bol', 'BolC4t27209H' => 'bol', 'BolC5t29671H' => 'bol', 'BolC8t49044H' => 'bol', 'BolC9t54999H' => 'bol', 'BolC9t59517H' => 'bol', 'BraA01t02178Z' => 'bra', 'BraA01t03099Z' => 'bra', 'BraA03t11867Z' => 'bra', 'BraA04t17667Z' => 'bra', 'BraA07t29542Z' => 'bra', 'BraA08t35287Z' => 'bra', 'BraA09t37334Z' => 'bra', 'BraA10t44801Z' => 'bra', 'BraSC39t46181Z' => 'bra', 'C01p28240' => 'bna', 'C01p37530' => 'bna', 'C03p31820' => 'bna', 'C04p24080' => 'bna', 'C04p25790' => 'bna', 'C04p56770' => 'bna', 'C05p09310' => 'bna', 'C09p21010' => 'bna', 'C09p67560' => 'bna', 'CAN.G1324.7' => 'can', 'CAN.G1358.10' => 'can', 'CAN.G1550.2' => 'can', 'CAN.G186.56' => 'can', 'CAN.G1965.1' => 'can', 'CAN.G645.15' => 'can', 'CAN.G798.26' => 'can', 'CAN.G798.27' => 'can', 'CAN.G798.29' => 'can', 'CAN.G919.31' => 'can', 'CANSAT11G0133' => 'cansat', 'CANSAT11G1171' => 'cansat', 'CANSAT11G2056' => 'cansat', 'CANSAT56G1202' => 'cansat', 'CANSAT56G1514' => 'cansat', 'CANSAT78G0455' => 'cansat', 'CARHR011190' => 'chi', 'CARHR051980' => 'chi', 'CARHR120170' => 'chi', 'CARHR203310' => 'chi', 'CARHR221490' => 'chi', 'Carub.0001s1054' => 'cru', 'Carub.0002s0431' => 'cru', 'Carub.0004s0818' => 'cru', 'Carub.0006s0846' => 'cru', 'Carub.0007s2722' => 'cru', 'Ca_00058_v3' => 'car', 'Ca_17831_v3' => 'car', 'Ca_19408_v3' => 'car', 'Ca_24397_v3' => 'car', 'Ca_25664_v3' => 'car', 'CBR_g21818' => 'cbr', 'CBR_g31195' => 'cbr', 'CBR_g32282' => 'cbr', 'CBR_g39599' => 'cbr', 'CBR_g49410' => 'cbr', 'Cc01_g09120' => 'ccan', 'Cc01_g09130' => 'ccan', 'Cc02_g09630' => 'ccan', 'Cc02_g22810' => 'ccan', 'Cc03_g03810' => 'ccan', 'CDE02G3718' => 'cde', 'CDE04G3183' => 'cde', 'CDE07G1046' => 'cde', 'CDE08G0480' => 'cde', 'Cfa005493' => 'cfa', 'Cfa010312' => 'cfa', 'Cfa015648' => 'cfa', 'Ciclev10002793m.g' => 'ccl', 'Ciclev10003356m.g' => 'ccl', 'Ciclev10006141m.g' => 'ccl', 'Ciclev10016676m.g' => 'ccl', 'Ciclev10017081m.g' => 'ccl', 'Ciclev10029499m.g' => 'ccl', 'CiPaw.01G166300' => 'cil', 'CiPaw.06G145600' => 'cil', 'CiPaw.13G040100' => 'cil', 'CiPaw.13G135800' => 'cil', 'ClCG01G012230' => 'cla', 'ClCG05G009510' => 'cla', 'ClCG08G008270' => 'cla', 'COL.COLO4_11763' => 'col', 'COL.COLO4_19876' => 'col', 'COL.COLO4_21481' => 'col', 'Cpa.g.sc118.34' => 'cpa', 'Cpa.g.sc32.13' => 'cpa', 'Cpa.g.sc58.103' => 'cpa', 'Cre03.g183850' => 'cre', 'Cre06.g306350' => 'cre', 'Cre07.g334800' => 'cre', 'Cre12.g487900' => 'cre', 'Cre14.g626700' => 'cre', 'Cre16.g658400' => 'cre', 'Cre17.g700950' => 'cre', 'CsaV3_1G014830' => 'csa', 'CsaV3_3G013320' => 'csa', 'CsaV3_3G019210' => 'csa', 'CsaV3_3G019220' => 'csa', 'CsaV3_6G004230' => 'csa', 'CSS0003773' => 'camsi', 'CSS0004563' => 'camsi', 'CSS0013949' => 'camsi', 'CSS0025971' => 'camsi', 'CSS0028570' => 'camsi', 'CSS0033127' => 'camsi', 'CSS0036051' => 'camsi', 'CSS0040087' => 'camsi', 'CSS0043179' => 'camsi', 'DCAR_006161' => 'dca', 'DCAR_010351' => 'dca', 'DCAR_012197' => 'dca', 'DCAR_024162' => 'dca', 'Dinv01030' => 'din', 'Dinv10924' => 'din', 'Dinv11835' => 'din', 'Dinv22841' => 'din', 'Dinv42553' => 'din', 'Duzib052G0560' => 'dzi', 'Duzib132G0389' => 'dzi', 'Duzib150G1181' => 'dzi', 'Duzib168G0623' => 'dzi', 'Duzib170G1036' => 'dzi', 'Duzib212G0200' => 'dzi', 'Duzib248G0194' => 'dzi', 'ECA232G2193' => 'eca', 'ECA233G0302' => 'eca', 'ECA234G2813' => 'eca', 'ECA234G4866' => 'eca', 'ECA240G3932' => 'eca', 'ECA248G0385' => 'eca', 'EL10Ac2g04781' => 'bvu', 'EL10Ac3g06445' => 'bvu', 'EL10Ac7g15825' => 'bvu', 'EL10Ac8g18550' => 'bvu', 'Eucgr.B03849' => 'egr', 'Eucgr.I02744' => 'egr', 'Eucgr.J00264' => 'egr', 'Eucgr.J00493' => 'egr', 'FAN04G2181' => 'fan', 'FAN07G2666' => 'fan', 'FAN11G0024' => 'fan', 'FAN12G1105' => 'fan', 'FAN13G0302' => 'fan', 'FAN15G2781' => 'fan', 'FAN16G1274' => 'fan', 'FAN17G2988' => 'fan', 'FAN18G2621' => 'fan', 'FAN21G0013' => 'fan', 'FAN22G1211' => 'fan', 'FAN25G3626' => 'fan', 'FvH4_2g09491' => 'fve', 'FvH4_3g24910' => 'fve', 'FvH4_4g15630' => 'fve', 'FvH4_5g28820' => 'fve', 'Glyma.01G238000' => 'gma', 'Glyma.05G168400' => 'gma', 'Glyma.08G126800' => 'gma', 'Glyma.08G188500' => 'gma', 'Glyma.10G278900' => 'gma', 'Glyma.11G005700' => 'gma', 'Glyma.11G183300' => 'gma', 'Glyma.12G089200' => 'gma', 'Glyma.12G169400' => 'gma', 'Glyma.12G169500' => 'gma', 'Glyma.12G169600' => 'gma', 'Glyma.20G110800' => 'gma', 'Gohir.A03G192900' => 'ghi', 'Gohir.A03G193000' => 'ghi', 'Gohir.A05G080700' => 'ghi', 'Gohir.A09G216000' => 'ghi', 'Gohir.A12G027700' => 'ghi', 'Gohir.A13G036200' => 'ghi', 'Gohir.A13G222600' => 'ghi', 'Gohir.D02G213900' => 'ghi', 'Gohir.D02G214000' => 'ghi', 'Gohir.D05G083700' => 'ghi', 'Gohir.D05G083800' => 'ghi', 'Gohir.D05G083850' => 'ghi', 'Gohir.D08G015400' => 'ghi', 'Gohir.D09G218400' => 'ghi', 'Gohir.D12G027100' => 'ghi', 'Gohir.D13G034500' => 'ghi', 'Gohir.D13G227400' => 'ghi', 'Gorai.005G241800' => 'gra', 'Gorai.005G241900' => 'gra', 'Gorai.006G239400' => 'gra', 'Gorai.008G027600' => 'gra', 'Gorai.009G085400' => 'gra', 'Gorai.009G085500' => 'gra', 'Gorai.013G039000' => 'gra', 'Gorai.013G194800' => 'gra', 'Gorai.013G257900' => 'gra', 'GSVIVG01000982001' => 'vvi', 'GSVIVG01017981001' => 'vvi', 'HanXRQChr01g0024061' => 'han', 'HanXRQChr09g0247831' => 'han', 'HanXRQChr10g0294611' => 'han', 'HanXRQChr10g0294621' => 'han', 'HanXRQChr11g0346821' => 'han', 'HanXRQChr13g0397461' => 'han', 'HanXRQChr16g0513651' => 'han', 'HanXRQChr16g0513701' => 'han', 'Haze_00897' => 'cav', 'Haze_01745' => 'cav', 'Haze_02486' => 'cav', 'Haze_02487' => 'cav', 'Haze_23374' => 'cav', 'Hma1.2p1_0578F.1_g182520' => 'hma', 'Hma1.2p1_0602F.1_g187350' => 'hma', 'Hma1.2p1_0602F.1_g187360' => 'hma', 'Hma1.2p1_0874F.1_g231320' => 'hma', 'Hma1.2p1_1197F.1_g266210' => 'hma', 'Hma1.2p1_1197F.1_g266220' => 'hma', 'Hma1.2p1_2167F.1_g315895' => 'hma', 'Hma1.2p1_2190F.1_g316640' => 'hma', 'Hma1.2p1_3645F.1_g337153' => 'hma', 'HPP92_004907' => 'vpl', 'HPP92_012134' => 'vpl', 'HPP92_025136' => 'vpl', 'HPP92_026087' => 'vpl', 'Hund06782' => 'sun', 'Hund06784' => 'sun', 'Lalb_Chr01g0004861' => 'lal', 'Lalb_Chr02g0140591' => 'lal', 'Lalb_Chr02g0140611' => 'lal', 'Lalb_Chr03g0028101' => 'lal', 'Lalb_Chr07g0185791' => 'lal', 'Lalb_Chr12g0204491' => 'lal', 'Lalb_Chr13g0295671' => 'lal', 'Lalb_Chr19g0136461' => 'lal', 'Lalb_Chr21g0309191' => 'lal', 'Lj1g0028158' => 'lja', 'Lj1P236T38' => 'lonja', 'Lj2C32G2' => 'lonja', 'Lj2P944T8' => 'lonja', 'Lj2P963T15' => 'lonja', 'Lj3g0011788' => 'lja', 'Lj4g0025027' => 'lja', 'Lj5P255T36' => 'lonja', 'Lj6g0018866' => 'lja', 'Lj6P608T31' => 'lonja', 'LjContig00408g0008879' => 'lja', 'Lsat_1_v5_gn_5_105820' => 'lsa', 'Lsat_1_v5_gn_6_38800' => 'lsa', 'Lsat_1_v5_gn_7_67141' => 'lsa', 'Manes.04G003400' => 'mes', 'Manes.07G020000' => 'mes', 'Manes.07G020100' => 'mes', 'Manes.07G020150' => 'mes', 'Manes.10G061500' => 'mes', 'Manes.10G123200' => 'mes', 'Manes.11G161900' => 'mes', 'Manes.15G029300' => 'mes', 'Mapoly0071s0018' => 'mpo', 'Mapoly0082s0023' => 'mpo', 'Mapoly3477s0001' => 'mpo', 'MBI05_g31233_MAGBIO' => 'mbi', 'MBI09_g05946_MAGBIO' => 'mbi', 'MBI09_g05947_MAGBIO' => 'mbi', 'MBI17_g08346_MAGBIO' => 'mbi', 'MCO04G038' => 'mco', 'MCO09G370' => 'mco', 'MCO13G605' => 'mco', 'MD00G1075500' => 'mdo', 'MD03G1144300' => 'mdo', 'MD08G1236800' => 'mdo', 'MD13G1193300' => 'mdo', 'MD15G1428700' => 'mdo', 'Medtr1g112030' => 'mtr', 'Medtr1g112050' => 'mtr', 'Medtr2g006290' => 'mtr', 'Medtr2g086510' => 'mtr', 'Medtr4g053120' => 'mtr', 'Medtr5g006320' => 'mtr', 'Medtr8g088720' => 'mtr', 'MELO3C004712.2' => 'cme', 'MELO3C006533.2' => 'cme', 'MELO3C019438.2' => 'cme', 'MELO3C019440.2' => 'cme', 'MELO3C019441.2' => 'cme', 'MELO3C019895.2' => 'cme', 'Migut.B00811' => 'egut', 'Migut.D02447' => 'egut', 'Migut.F00875' => 'egut', 'Migut.N00186' => 'egut', 'Migut.N01051' => 'egut', 'Migut.N02491' => 'egut', 'Migut.O00784' => 'egut', 'MSTRG.12367' => 'ama', 'MSTRG.18756' => 'ama', 'MSTRG.21042' => 'ama', 'Nitab4.5_0000559g0040' => 'nta', 'Nitab4.5_0000667g0190' => 'nta', 'Nitab4.5_0000755g0160' => 'nta', 'Nitab4.5_0001216g0080' => 'nta', 'Nitab4.5_0004069g0040' => 'nta', 'Nitab4.5_0004129g0010' => 'nta', 'Nitab4.5_0005744g0030' => 'nta', 'Nitab4.5_0006996g0030' => 'nta', 'Nitab4.5_0008971g0040' => 'nta', 'Nitab4.5_0009769g0020' => 'nta', 'Nitab4.5_0009833g0010' => 'nta', 'Nitab4.5_0013140g0020' => 'nta', 'Nn003s41376' => 'nnu', 'Nn1g01857' => 'nnu', 'Nn1g03611' => 'nnu', 'Nn1g06853' => 'nnu', 'Nn3g18360' => 'nnu', 'Nn4g26328' => 'nnu', 'Nn5g27531' => 'nnu', 'Nn6g34899' => 'nnu', 'Nn7g36299' => 'nnu', 'Oeu021485.1' => 'oeu', 'Oeu022433.1' => 'oeu', 'Oeu032111.1' => 'oeu', 'Oeu051608.1' => 'oeu', 'Os01g0860601' => 'osa', 'Os03g0659200' => 'osa', 'Os03g0835900' => 'osa', 'Os04g0412200' => 'osa', 'Os05g0443500' => 'osa', 'Os07g0251500' => 'osa', 'Os08g0104600' => 'osa', 'Peaxi162Scf00003g00047' => 'pax', 'Peaxi162Scf00003g00052' => 'pax', 'Peaxi162Scf00003g00394' => 'pax', 'Peaxi162Scf00091g00621' => 'pax', 'Peaxi162Scf00152g00146' => 'pax', 'Peaxi162Scf00173g00025' => 'pax', 'Peaxi162Scf00195g00102' => 'pax', 'Peaxi162Scf00402g00013' => 'pax', 'Peaxi162Scf00519g00618' => 'pax', 'PGR004G2838' => 'pgr', 'PGR044G2275' => 'pgr', 'PGR102G1377' => 'pgr', 'PGR119G1245' => 'pgr', 'PGR142G4449' => 'pgr', 'PGSC0003DMG400004532' => 'stu', 'PGSC0003DMG400011950' => 'stu', 'PGSC0003DMG400023391' => 'stu', 'PGSC0003DMG400023985' => 'stu', 'PGSC0003DMG400026360' => 'stu', 'PGSC0003DMG400035711' => 'stu', 'PGSC0003DMG400037286' => 'stu', 'PGSC0003DMG402005881' => 'stu', 'Phvul.002G045400' => 'pvu', 'Phvul.006G216600' => 'pvu', 'Phvul.006G216700' => 'pvu', 'Phvul.006G216800' => 'pvu', 'Phvul.007G022500' => 'pvu', 'Phvul.011G094400' => 'pvu', 'Potri.001G470700' => 'ptr', 'Potri.003G015200' => 'ptr', 'Potri.004G202500' => 'ptr', 'Potri.004G218400' => 'ptr', 'Potri.008G020100' => 'ptr', 'Potri.008G153200' => 'ptr', 'Potri.009G163800' => 'ptr', 'Potri.010G087300' => 'ptr', 'Potri.010G239100' => 'ptr', 'Pp3c10_16100' => 'ppa', 'Pp3c10_16880' => 'ppa', 'Pp3c16_6230' => 'ppa', 'Pp3c17_18910' => 'ppa', 'Pp3c3_22119' => 'ppa', 'Pp3c3_22140' => 'ppa', 'Pp3c4_8159' => 'ppa', 'Pp3c4_8171' => 'ppa', 'Pp3c4_8330' => 'ppa', 'PRCOL_00004098' => 'pco', 'Prupe.1G013900' => 'ppe', 'Prupe.1G226300' => 'ppe', 'Prupe.1G573600' => 'ppe', 'Prupe.6G130100' => 'ppe', 'Psat3g090040' => 'psa', 'Psat4g210440' => 'psa', 'Psat6g231040' => 'psa', 'Psat6g231080' => 'psa', 'Psat7g063000' => 'psa', 'Psat7g188000' => 'psa', 'Psat7g188040' => 'psa', 'PSO017G0206' => 'pso', 'PSO170G0501' => 'pso', 'PSO170G6422' => 'pso', 'PSO210G7739' => 'pso', 'PSO339G1808' => 'pso', 'PSO339G6135' => 'pso', 'PSO384G0010' => 'pso', 'PSO384G0964' => 'pso', 'PSO761G0050' => 'pso', 'PSO782G4085' => 'pso', 'QL01p012264' => 'qlo', 'QL02p099491' => 'qlo', 'QL03p033868' => 'qlo', 'QL04p046678' => 'qlo', 'QL06p002448' => 'qlo', 'RcHm_v2.0_Chr4g0416181' => 'rch', 'RcHm_v2.0_Chr5g0044701' => 'rch', 'RcHm_v2.0_Chr6g0265781' => 'rch', 'RcHm_v2.0_Chr7g0221031' => 'rch', 'Rhsim04G0202000' => 'rsi', 'Rhsim11G0127300' => 'rsi', 'Rhsim13G0111800' => 'rsi', 'Sabra01G0165600' => 'sbr', 'Sabra03G0008300' => 'sbr', 'Sabra04G0136900' => 'sbr', 'Sabra08G0013400' => 'sbr', 'Sabra08G0116800' => 'sbr', 'Sabra09G0128000' => 'sbr', 'Sabra10G0055500' => 'sbr', 'Sabra10G0073300' => 'sbr', 'SalBow3G0385' => 'sbo', 'SalBow3G1119' => 'sbo', 'SalBow3G2005' => 'sbo', 'SalBow6G2563' => 'sbo', 'SalBow6G6386' => 'sbo', 'Sc06g0008800' => 'sci', 'Sc07g0004950' => 'sci', 'Sc09g0005340' => 'sci', 'Sc13g0004410' => 'sci', 'Sc21g0007090' => 'sci', 'Sed0009285' => 'sed', 'Sed0017583' => 'sed', 'Sed0019699' => 'sed', 'Sed0023107' => 'sed', 'SEGI_10916' => 'sgi', 'SEGI_16217' => 'sgi', 'SEGI_19466' => 'sgi', 'SEGI_41115' => 'sgi', 'SGA_v2.0_scaffold111G31534' => 'sas', 'SGA_v2.0_scaffold22G09864' => 'sas', 'SGA_v2.0_scaffold338G49219' => 'sas', 'SGA_v2.0_scaffold92G28298' => 'sas', 'SMO119G0064' => 'smo', 'SMO223G0038' => 'smo', 'SMO347G0584' => 'smo', 'SMO351G0010' => 'smo', 'SMO356G0404' => 'smo', 'Solyc01g103920.3' => 'sly', 'Solyc04g009710.2' => 'sly', 'Solyc05g055280.2' => 'sly', 'Solyc10g044520.3' => 'sly', 'Solyc10g075160.1' => 'sly', 'Solyc11g006910.3' => 'sly', 'Solyc11g068430.3' => 'sly', 'Sopen01g046310' => 'spe', 'Sopen03g001200' => 'spe', 'Sopen04g004830' => 'spe', 'Sopen05g033720' => 'spe', 'Sopen06g030740' => 'spe', 'Sopen10g013090' => 'spe', 'Sopen10g027630' => 'spe', 'Sopen10g027640' => 'spe', 'Sopen11g002820' => 'spe', 'Sopen11g027140' => 'spe', 'Sp1g09680' => 'spa', 'Sp2g03630' => 'spa', 'Sp4g10320' => 'spa', 'Sp6g33400' => 'spa', 'Sp7g13030' => 'spa', 'TAR365G0317' => 'tar', 'TAR376G0979' => 'tar', 'TAR623G1665' => 'tar', 'TAR633G2373' => 'tar', 'TAR636G1400' => 'tar', 'THA.LOC104800529' => 'tha', 'THA.LOC104808547' => 'tha', 'THA.LOC104809615' => 'tha', 'THA.LOC104815724' => 'tha', 'THA.LOC104818480' => 'tha', 'THA.LOC104819179' => 'tha', 'THA.LOC104822270' => 'tha', 'THA.LOC104826425' => 'tha', 'Thecc.02G089700' => 'tca', 'Thecc.04G232300' => 'tca', 'Thecc.09G283400' => 'tca', 'Thhalv10009020m.g' => 'esa', 'Thhalv10015506m.g' => 'esa', 'Thhalv10017364m.g' => 'esa', 'Thhalv10023742m.g' => 'esa', 'Thhalv10026483m.g' => 'esa', 'TPR.G17232' => 'tpr', 'TPR.G2133' => 'tpr', 'TPR.G2498' => 'tpr', 'TPR.G31942' => 'tpr', 'TPR.G37877' => 'tpr', 'TPR.G4571' => 'tpr', 'TWI14G1113' => 'twi', 'TWI15G0426' => 'twi', 'TWI31G1005' => 'twi', 'TWI38G0513' => 'twi', 'TWI38G1484' => 'twi', 'TWI73G1098' => 'twi', 'unitig_26.g10519' => 'ugi', 'unitig_736.g22395' => 'ugi', 'unitig_747.g21234' => 'ugi', 'unitig_747.g21942' => 'ugi', 'vmacro14351' => 'vma', 'VMungo0540G0082' => 'vmu', 'VMungo0540G0405' => 'vmu', 'VMungo0540G1486' => 'vmu', 'VMungo0540G1692' => 'vmu', 'VMungo0720G2473' => 'vmu', 'VMungo1127G1562' => 'vmu', 'VMungo1215G1918' => 'vmu', 'Zm00001eb052650' => 'zma', 'Zm00001eb063710' => 'zma', 'Zm00001eb083950' => 'zma', 'Zm00001eb174420' => 'zma', 'Zm00001eb260140' => 'zma', 'Zm00001eb260150' => 'zma', 'Zm00001eb260160' => 'zma', 'Zm00001eb348290' => 'zma', 'Zm00001eb366870' => 'zma', 'Zm00001eb421930' => 'zma' ), 'gf_id' => 'HOM05D001025', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001025' ), 'data_identifier' => 'HOM05D001025', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001025', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '592', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p22650' => 'bna', 'A01p29720' => 'bna', 'A03p26560' => 'bna', 'A03p68820' => 'bna', 'A04p20980' => 'bna', 'A06p07730' => 'bna', 'A07p18260' => 'bna', 'A08p33710' => 'bna', 'A09p16970' => 'bna', 'A10p27490' => 'bna', 'Aa31LG1G17300' => 'aar', 'Aa31LG1G3910' => 'aar', 'Aa31LG2G9630' => 'aar', 'Aa31LG5G8360' => 'aar', 'Aa31LG9G2410' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4699' => 'aag', 'Actinidia23512' => 'ach', 'Actinidia37080' => 'ach', 'Ah.01g020380' => 'amhyb', 'Ah.08g215710' => 'amhyb', 'Ah.09g225110' => 'amhyb', 'Ah.10g036680' => 'amhyb', 'AL1G21940' => 'aly', 'AL2G15540' => 'aly', 'AL4G21520' => 'aly', 'AL7G40960' => 'aly', 'Aqoxy2G01191' => 'aox', 'Aqoxy2G03393' => 'aox', 'Aqoxy4G02775' => 'aox', 'Aqoxy6G00058' => 'aox', 'arahy.Tifrunner.gnm1.ann1.9X74H2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CW3FX9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R485W7' => 'arhy', 'AT1G10960' => 'ath', 'AT1G60950' => 'ath', 'AT2G27510' => 'ath', 'AT4G14890' => 'ath', 'AT5G10000' => 'ath', 'ATR0665G624' => 'atr', 'ATR0697G138' => 'atr', 'ATR0776G046' => 'atr', 'ATR1134G135' => 'atr', 'Atru.chr12.1025' => 'acertr', 'Atru.chr3.3241' => 'acertr', 'Atru.chr4.2460' => 'acertr', 'AUR62007427' => 'cqu', 'AUR62010960' => 'cqu', 'AUR62012201' => 'cqu', 'AUR62021470' => 'cqu', 'AUR62022834' => 'cqu', 'AUR62033635' => 'cqu', 'AUR62036186' => 'cqu', 'BcaB01g03077' => 'bca', 'BcaB02g10093' => 'bca', 'BcaB04g20295' => 'bca', 'BcaB06g28147' => 'bca', 'BcaB07g31253' => 'bca', 'BcaC01g04946' => 'bca', 'BcaC02g10614' => 'bca', 'BcaC02g10885' => 'bca', 'BcaC04g19356' => 'bca', 'BcaC04g22297' => 'bca', 'BcaC05g24977' => 'bca', 'BcaC06g31823' => 'bca', 'BcaC07g38633' => 'bca', 'BcaC09g49353' => 'bca', 'BcaC09g50168' => 'bca', 'BcaNung00322' => 'bca', 'BcaNung04769' => 'bca', 'BolC1t02753H' => 'bol', 'BolC1t03721H' => 'bol', 'BolC3t15525H' => 'bol', 'BolC4t23903H' => 'bol', 'BolC4t24231H' => 'bol', 'BolC4t27209H' => 'bol', 'BolC5t29671H' => 'bol', 'BolC8t49044H' => 'bol', 'BolC9t54999H' => 'bol', 'BolC9t59517H' => 'bol', 'BraA01t02178Z' => 'bra', 'BraA01t03099Z' => 'bra', 'BraA03t11867Z' => 'bra', 'BraA04t17667Z' => 'bra', 'BraA07t29542Z' => 'bra', 'BraA08t35287Z' => 'bra', 'BraA09t37334Z' => 'bra', 'BraA10t44801Z' => 'bra', 'BraSC39t46181Z' => 'bra', 'C01p28240' => 'bna', 'C01p37530' => 'bna', 'C03p31820' => 'bna', 'C04p24080' => 'bna', 'C04p25790' => 'bna', 'C04p56770' => 'bna', 'C05p09310' => 'bna', 'C09p21010' => 'bna', 'C09p67560' => 'bna', 'CAN.G1324.7' => 'can', 'CAN.G1358.10' => 'can', 'CAN.G1550.2' => 'can', 'CAN.G186.56' => 'can', 'CAN.G1965.1' => 'can', 'CAN.G645.15' => 'can', 'CAN.G798.26' => 'can', 'CAN.G798.27' => 'can', 'CAN.G798.29' => 'can', 'CAN.G919.31' => 'can', 'CANSAT11G0133' => 'cansat', 'CANSAT11G1171' => 'cansat', 'CANSAT11G2056' => 'cansat', 'CANSAT56G1202' => 'cansat', 'CANSAT56G1514' => 'cansat', 'CANSAT78G0455' => 'cansat', 'CARHR011190' => 'chi', 'CARHR051980' => 'chi', 'CARHR120170' => 'chi', 'CARHR203310' => 'chi', 'CARHR221490' => 'chi', 'Carub.0001s1054' => 'cru', 'Carub.0002s0431' => 'cru', 'Carub.0004s0818' => 'cru', 'Carub.0006s0846' => 'cru', 'Carub.0007s2722' => 'cru', 'Ca_00058_v3' => 'car', 'Ca_17831_v3' => 'car', 'Ca_19408_v3' => 'car', 'Ca_24397_v3' => 'car', 'Ca_25664_v3' => 'car', 'CBR_g21818' => 'cbr', 'CBR_g31195' => 'cbr', 'CBR_g32282' => 'cbr', 'CBR_g39599' => 'cbr', 'CBR_g49410' => 'cbr', 'Cc01_g09120' => 'ccan', 'Cc01_g09130' => 'ccan', 'Cc02_g09630' => 'ccan', 'Cc02_g22810' => 'ccan', 'Cc03_g03810' => 'ccan', 'CDE02G3718' => 'cde', 'CDE04G3183' => 'cde', 'CDE07G1046' => 'cde', 'CDE08G0480' => 'cde', 'Cfa005493' => 'cfa', 'Cfa010312' => 'cfa', 'Cfa015648' => 'cfa', 'Ciclev10002793m.g' => 'ccl', 'Ciclev10003356m.g' => 'ccl', 'Ciclev10006141m.g' => 'ccl', 'Ciclev10016676m.g' => 'ccl', 'Ciclev10017081m.g' => 'ccl', 'Ciclev10029499m.g' => 'ccl', 'CiPaw.01G166300' => 'cil', 'CiPaw.06G145600' => 'cil', 'CiPaw.13G040100' => 'cil', 'CiPaw.13G135800' => 'cil', 'ClCG01G012230' => 'cla', 'ClCG05G009510' => 'cla', 'ClCG08G008270' => 'cla', 'COL.COLO4_11763' => 'col', 'COL.COLO4_19876' => 'col', 'COL.COLO4_21481' => 'col', 'Cpa.g.sc118.34' => 'cpa', 'Cpa.g.sc32.13' => 'cpa', 'Cpa.g.sc58.103' => 'cpa', 'Cre03.g183850' => 'cre', 'Cre06.g306350' => 'cre', 'Cre07.g334800' => 'cre', 'Cre12.g487900' => 'cre', 'Cre14.g626700' => 'cre', 'Cre16.g658400' => 'cre', 'Cre17.g700950' => 'cre', 'CsaV3_1G014830' => 'csa', 'CsaV3_3G013320' => 'csa', 'CsaV3_3G019210' => 'csa', 'CsaV3_3G019220' => 'csa', 'CsaV3_6G004230' => 'csa', 'CSS0003773' => 'camsi', 'CSS0004563' => 'camsi', 'CSS0013949' => 'camsi', 'CSS0025971' => 'camsi', 'CSS0028570' => 'camsi', 'CSS0033127' => 'camsi', 'CSS0036051' => 'camsi', 'CSS0040087' => 'camsi', 'CSS0043179' => 'camsi', 'DCAR_006161' => 'dca', 'DCAR_010351' => 'dca', 'DCAR_012197' => 'dca', 'DCAR_024162' => 'dca', 'Dinv01030' => 'din', 'Dinv10924' => 'din', 'Dinv11835' => 'din', 'Dinv22841' => 'din', 'Dinv42553' => 'din', 'Duzib052G0560' => 'dzi', 'Duzib132G0389' => 'dzi', 'Duzib150G1181' => 'dzi', 'Duzib168G0623' => 'dzi', 'Duzib170G1036' => 'dzi', 'Duzib212G0200' => 'dzi', 'Duzib248G0194' => 'dzi', 'ECA232G2193' => 'eca', 'ECA233G0302' => 'eca', 'ECA234G2813' => 'eca', 'ECA234G4866' => 'eca', 'ECA240G3932' => 'eca', 'ECA248G0385' => 'eca', 'EL10Ac2g04781' => 'bvu', 'EL10Ac3g06445' => 'bvu', 'EL10Ac7g15825' => 'bvu', 'EL10Ac8g18550' => 'bvu', 'Eucgr.B03849' => 'egr', 'Eucgr.I02744' => 'egr', 'Eucgr.J00264' => 'egr', 'Eucgr.J00493' => 'egr', 'FAN04G2181' => 'fan', 'FAN07G2666' => 'fan', 'FAN11G0024' => 'fan', 'FAN12G1105' => 'fan', 'FAN13G0302' => 'fan', 'FAN15G2781' => 'fan', 'FAN16G1274' => 'fan', 'FAN17G2988' => 'fan', 'FAN18G2621' => 'fan', 'FAN21G0013' => 'fan', 'FAN22G1211' => 'fan', 'FAN25G3626' => 'fan', 'FvH4_2g09491' => 'fve', 'FvH4_3g24910' => 'fve', 'FvH4_4g15630' => 'fve', 'FvH4_5g28820' => 'fve', 'Glyma.01G238000' => 'gma', 'Glyma.05G168400' => 'gma', 'Glyma.08G126800' => 'gma', 'Glyma.08G188500' => 'gma', 'Glyma.10G278900' => 'gma', 'Glyma.11G005700' => 'gma', 'Glyma.11G183300' => 'gma', 'Glyma.12G089200' => 'gma', 'Glyma.12G169400' => 'gma', 'Glyma.12G169500' => 'gma', 'Glyma.12G169600' => 'gma', 'Glyma.20G110800' => 'gma', 'Gohir.A03G192900' => 'ghi', 'Gohir.A03G193000' => 'ghi', 'Gohir.A05G080700' => 'ghi', 'Gohir.A09G216000' => 'ghi', 'Gohir.A12G027700' => 'ghi', 'Gohir.A13G036200' => 'ghi', 'Gohir.A13G222600' => 'ghi', 'Gohir.D02G213900' => 'ghi', 'Gohir.D02G214000' => 'ghi', 'Gohir.D05G083700' => 'ghi', 'Gohir.D05G083800' => 'ghi', 'Gohir.D05G083850' => 'ghi', 'Gohir.D08G015400' => 'ghi', 'Gohir.D09G218400' => 'ghi', 'Gohir.D12G027100' => 'ghi', 'Gohir.D13G034500' => 'ghi', 'Gohir.D13G227400' => 'ghi', 'Gorai.005G241800' => 'gra', 'Gorai.005G241900' => 'gra', 'Gorai.006G239400' => 'gra', 'Gorai.008G027600' => 'gra', 'Gorai.009G085400' => 'gra', 'Gorai.009G085500' => 'gra', 'Gorai.013G039000' => 'gra', 'Gorai.013G194800' => 'gra', 'Gorai.013G257900' => 'gra', 'GSVIVG01000982001' => 'vvi', 'GSVIVG01017981001' => 'vvi', 'HanXRQChr01g0024061' => 'han', 'HanXRQChr09g0247831' => 'han', 'HanXRQChr10g0294611' => 'han', 'HanXRQChr10g0294621' => 'han', 'HanXRQChr11g0346821' => 'han', 'HanXRQChr13g0397461' => 'han', 'HanXRQChr16g0513651' => 'han', 'HanXRQChr16g0513701' => 'han', 'Haze_00897' => 'cav', 'Haze_01745' => 'cav', 'Haze_02486' => 'cav', 'Haze_02487' => 'cav', 'Haze_23374' => 'cav', 'Hma1.2p1_0578F.1_g182520' => 'hma', 'Hma1.2p1_0602F.1_g187350' => 'hma', 'Hma1.2p1_0602F.1_g187360' => 'hma', 'Hma1.2p1_0874F.1_g231320' => 'hma', 'Hma1.2p1_1197F.1_g266210' => 'hma', 'Hma1.2p1_1197F.1_g266220' => 'hma', 'Hma1.2p1_2167F.1_g315895' => 'hma', 'Hma1.2p1_2190F.1_g316640' => 'hma', 'Hma1.2p1_3645F.1_g337153' => 'hma', 'HPP92_004907' => 'vpl', 'HPP92_012134' => 'vpl', 'HPP92_025136' => 'vpl', 'HPP92_026087' => 'vpl', 'Hund06782' => 'sun', 'Hund06784' => 'sun', 'Lalb_Chr01g0004861' => 'lal', 'Lalb_Chr02g0140591' => 'lal', 'Lalb_Chr02g0140611' => 'lal', 'Lalb_Chr03g0028101' => 'lal', 'Lalb_Chr07g0185791' => 'lal', 'Lalb_Chr12g0204491' => 'lal', 'Lalb_Chr13g0295671' => 'lal', 'Lalb_Chr19g0136461' => 'lal', 'Lalb_Chr21g0309191' => 'lal', 'Lj1g0028158' => 'lja', 'Lj1P236T38' => 'lonja', 'Lj2C32G2' => 'lonja', 'Lj2P944T8' => 'lonja', 'Lj2P963T15' => 'lonja', 'Lj3g0011788' => 'lja', 'Lj4g0025027' => 'lja', 'Lj5P255T36' => 'lonja', 'Lj6g0018866' => 'lja', 'Lj6P608T31' => 'lonja', 'LjContig00408g0008879' => 'lja', 'Lsat_1_v5_gn_5_105820' => 'lsa', 'Lsat_1_v5_gn_6_38800' => 'lsa', 'Lsat_1_v5_gn_7_67141' => 'lsa', 'Manes.04G003400' => 'mes', 'Manes.07G020000' => 'mes', 'Manes.07G020100' => 'mes', 'Manes.07G020150' => 'mes', 'Manes.10G061500' => 'mes', 'Manes.10G123200' => 'mes', 'Manes.11G161900' => 'mes', 'Manes.15G029300' => 'mes', 'Mapoly0071s0018' => 'mpo', 'Mapoly0082s0023' => 'mpo', 'Mapoly3477s0001' => 'mpo', 'MBI05_g31233_MAGBIO' => 'mbi', 'MBI09_g05946_MAGBIO' => 'mbi', 'MBI09_g05947_MAGBIO' => 'mbi', 'MBI17_g08346_MAGBIO' => 'mbi', 'MCO04G038' => 'mco', 'MCO09G370' => 'mco', 'MCO13G605' => 'mco', 'MD00G1075500' => 'mdo', 'MD03G1144300' => 'mdo', 'MD08G1236800' => 'mdo', 'MD13G1193300' => 'mdo', 'MD15G1428700' => 'mdo', 'Medtr1g112030' => 'mtr', 'Medtr1g112050' => 'mtr', 'Medtr2g006290' => 'mtr', 'Medtr2g086510' => 'mtr', 'Medtr4g053120' => 'mtr', 'Medtr5g006320' => 'mtr', 'Medtr8g088720' => 'mtr', 'MELO3C004712.2' => 'cme', 'MELO3C006533.2' => 'cme', 'MELO3C019438.2' => 'cme', 'MELO3C019440.2' => 'cme', 'MELO3C019441.2' => 'cme', 'MELO3C019895.2' => 'cme', 'Migut.B00811' => 'egut', 'Migut.D02447' => 'egut', 'Migut.F00875' => 'egut', 'Migut.N00186' => 'egut', 'Migut.N01051' => 'egut', 'Migut.N02491' => 'egut', 'Migut.O00784' => 'egut', 'MSTRG.12367' => 'ama', 'MSTRG.18756' => 'ama', 'MSTRG.21042' => 'ama', 'Nitab4.5_0000559g0040' => 'nta', 'Nitab4.5_0000667g0190' => 'nta', 'Nitab4.5_0000755g0160' => 'nta', 'Nitab4.5_0001216g0080' => 'nta', 'Nitab4.5_0004069g0040' => 'nta', 'Nitab4.5_0004129g0010' => 'nta', 'Nitab4.5_0005744g0030' => 'nta', 'Nitab4.5_0006996g0030' => 'nta', 'Nitab4.5_0008971g0040' => 'nta', 'Nitab4.5_0009769g0020' => 'nta', 'Nitab4.5_0009833g0010' => 'nta', 'Nitab4.5_0013140g0020' => 'nta', 'Nn003s41376' => 'nnu', 'Nn1g01857' => 'nnu', 'Nn1g03611' => 'nnu', 'Nn1g06853' => 'nnu', 'Nn3g18360' => 'nnu', 'Nn4g26328' => 'nnu', 'Nn5g27531' => 'nnu', 'Nn6g34899' => 'nnu', 'Nn7g36299' => 'nnu', 'Oeu021485.1' => 'oeu', 'Oeu022433.1' => 'oeu', 'Oeu032111.1' => 'oeu', 'Oeu051608.1' => 'oeu', 'Os01g0860601' => 'osa', 'Os03g0659200' => 'osa', 'Os03g0835900' => 'osa', 'Os04g0412200' => 'osa', 'Os05g0443500' => 'osa', 'Os07g0251500' => 'osa', 'Os08g0104600' => 'osa', 'Peaxi162Scf00003g00047' => 'pax', 'Peaxi162Scf00003g00052' => 'pax', 'Peaxi162Scf00003g00394' => 'pax', 'Peaxi162Scf00091g00621' => 'pax', 'Peaxi162Scf00152g00146' => 'pax', 'Peaxi162Scf00173g00025' => 'pax', 'Peaxi162Scf00195g00102' => 'pax', 'Peaxi162Scf00402g00013' => 'pax', 'Peaxi162Scf00519g00618' => 'pax', 'PGR004G2838' => 'pgr', 'PGR044G2275' => 'pgr', 'PGR102G1377' => 'pgr', 'PGR119G1245' => 'pgr', 'PGR142G4449' => 'pgr', 'PGSC0003DMG400004532' => 'stu', 'PGSC0003DMG400011950' => 'stu', 'PGSC0003DMG400023391' => 'stu', 'PGSC0003DMG400023985' => 'stu', 'PGSC0003DMG400026360' => 'stu', 'PGSC0003DMG400035711' => 'stu', 'PGSC0003DMG400037286' => 'stu', 'PGSC0003DMG402005881' => 'stu', 'Phvul.002G045400' => 'pvu', 'Phvul.006G216600' => 'pvu', 'Phvul.006G216700' => 'pvu', 'Phvul.006G216800' => 'pvu', 'Phvul.007G022500' => 'pvu', 'Phvul.011G094400' => 'pvu', 'Potri.001G470700' => 'ptr', 'Potri.003G015200' => 'ptr', 'Potri.004G202500' => 'ptr', 'Potri.004G218400' => 'ptr', 'Potri.008G020100' => 'ptr', 'Potri.008G153200' => 'ptr', 'Potri.009G163800' => 'ptr', 'Potri.010G087300' => 'ptr', 'Potri.010G239100' => 'ptr', 'Pp3c10_16100' => 'ppa', 'Pp3c10_16880' => 'ppa', 'Pp3c16_6230' => 'ppa', 'Pp3c17_18910' => 'ppa', 'Pp3c3_22119' => 'ppa', 'Pp3c3_22140' => 'ppa', 'Pp3c4_8159' => 'ppa', 'Pp3c4_8171' => 'ppa', 'Pp3c4_8330' => 'ppa', 'PRCOL_00004098' => 'pco', 'Prupe.1G013900' => 'ppe', 'Prupe.1G226300' => 'ppe', 'Prupe.1G573600' => 'ppe', 'Prupe.6G130100' => 'ppe', 'Psat3g090040' => 'psa', 'Psat4g210440' => 'psa', 'Psat6g231040' => 'psa', 'Psat6g231080' => 'psa', 'Psat7g063000' => 'psa', 'Psat7g188000' => 'psa', 'Psat7g188040' => 'psa', 'PSO017G0206' => 'pso', 'PSO170G0501' => 'pso', 'PSO170G6422' => 'pso', 'PSO210G7739' => 'pso', 'PSO339G1808' => 'pso', 'PSO339G6135' => 'pso', 'PSO384G0010' => 'pso', 'PSO384G0964' => 'pso', 'PSO761G0050' => 'pso', 'PSO782G4085' => 'pso', 'QL01p012264' => 'qlo', 'QL02p099491' => 'qlo', 'QL03p033868' => 'qlo', 'QL04p046678' => 'qlo', 'QL06p002448' => 'qlo', 'RcHm_v2.0_Chr4g0416181' => 'rch', 'RcHm_v2.0_Chr5g0044701' => 'rch', 'RcHm_v2.0_Chr6g0265781' => 'rch', 'RcHm_v2.0_Chr7g0221031' => 'rch', 'Rhsim04G0202000' => 'rsi', 'Rhsim11G0127300' => 'rsi', 'Rhsim13G0111800' => 'rsi', 'Sabra01G0165600' => 'sbr', 'Sabra03G0008300' => 'sbr', 'Sabra04G0136900' => 'sbr', 'Sabra08G0013400' => 'sbr', 'Sabra08G0116800' => 'sbr', 'Sabra09G0128000' => 'sbr', 'Sabra10G0055500' => 'sbr', 'Sabra10G0073300' => 'sbr', 'SalBow3G0385' => 'sbo', 'SalBow3G1119' => 'sbo', 'SalBow3G2005' => 'sbo', 'SalBow6G2563' => 'sbo', 'SalBow6G6386' => 'sbo', 'Sc06g0008800' => 'sci', 'Sc07g0004950' => 'sci', 'Sc09g0005340' => 'sci', 'Sc13g0004410' => 'sci', 'Sc21g0007090' => 'sci', 'Sed0009285' => 'sed', 'Sed0017583' => 'sed', 'Sed0019699' => 'sed', 'Sed0023107' => 'sed', 'SEGI_10916' => 'sgi', 'SEGI_16217' => 'sgi', 'SEGI_19466' => 'sgi', 'SEGI_41115' => 'sgi', 'SGA_v2.0_scaffold111G31534' => 'sas', 'SGA_v2.0_scaffold22G09864' => 'sas', 'SGA_v2.0_scaffold338G49219' => 'sas', 'SGA_v2.0_scaffold92G28298' => 'sas', 'SMO119G0064' => 'smo', 'SMO223G0038' => 'smo', 'SMO347G0584' => 'smo', 'SMO351G0010' => 'smo', 'SMO356G0404' => 'smo', 'Solyc01g103920.3' => 'sly', 'Solyc04g009710.2' => 'sly', 'Solyc05g055280.2' => 'sly', 'Solyc10g044520.3' => 'sly', 'Solyc10g075160.1' => 'sly', 'Solyc11g006910.3' => 'sly', 'Solyc11g068430.3' => 'sly', 'Sopen01g046310' => 'spe', 'Sopen03g001200' => 'spe', 'Sopen04g004830' => 'spe', 'Sopen05g033720' => 'spe', 'Sopen06g030740' => 'spe', 'Sopen10g013090' => 'spe', 'Sopen10g027630' => 'spe', 'Sopen10g027640' => 'spe', 'Sopen11g002820' => 'spe', 'Sopen11g027140' => 'spe', 'Sp1g09680' => 'spa', 'Sp2g03630' => 'spa', 'Sp4g10320' => 'spa', 'Sp6g33400' => 'spa', 'Sp7g13030' => 'spa', 'TAR365G0317' => 'tar', 'TAR376G0979' => 'tar', 'TAR623G1665' => 'tar', 'TAR633G2373' => 'tar', 'TAR636G1400' => 'tar', 'THA.LOC104800529' => 'tha', 'THA.LOC104808547' => 'tha', 'THA.LOC104809615' => 'tha', 'THA.LOC104815724' => 'tha', 'THA.LOC104818480' => 'tha', 'THA.LOC104819179' => 'tha', 'THA.LOC104822270' => 'tha', 'THA.LOC104826425' => 'tha', 'Thecc.02G089700' => 'tca', 'Thecc.04G232300' => 'tca', 'Thecc.09G283400' => 'tca', 'Thhalv10009020m.g' => 'esa', 'Thhalv10015506m.g' => 'esa', 'Thhalv10017364m.g' => 'esa', 'Thhalv10023742m.g' => 'esa', 'Thhalv10026483m.g' => 'esa', 'TPR.G17232' => 'tpr', 'TPR.G2133' => 'tpr', 'TPR.G2498' => 'tpr', 'TPR.G31942' => 'tpr', 'TPR.G37877' => 'tpr', 'TPR.G4571' => 'tpr', 'TWI14G1113' => 'twi', 'TWI15G0426' => 'twi', 'TWI31G1005' => 'twi', 'TWI38G0513' => 'twi', 'TWI38G1484' => 'twi', 'TWI73G1098' => 'twi', 'unitig_26.g10519' => 'ugi', 'unitig_736.g22395' => 'ugi', 'unitig_747.g21234' => 'ugi', 'unitig_747.g21942' => 'ugi', 'vmacro14351' => 'vma', 'VMungo0540G0082' => 'vmu', 'VMungo0540G0405' => 'vmu', 'VMungo0540G1486' => 'vmu', 'VMungo0540G1692' => 'vmu', 'VMungo0720G2473' => 'vmu', 'VMungo1127G1562' => 'vmu', 'VMungo1215G1918' => 'vmu', 'Zm00001eb052650' => 'zma', 'Zm00001eb063710' => 'zma', 'Zm00001eb083950' => 'zma', 'Zm00001eb174420' => 'zma', 'Zm00001eb260140' => 'zma', 'Zm00001eb260150' => 'zma', 'Zm00001eb260160' => 'zma', 'Zm00001eb348290' => 'zma', 'Zm00001eb366870' => 'zma', 'Zm00001eb421930' => 'zma' ) $gf_id = 'HOM05D001025' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001025' ) $data_identifier = 'HOM05D001025' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 19, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 2, 'amhyb' => (int) 4, 'aly' => (int) 4, 'aox' => (int) 4, 'arhy' => (int) 3, 'ath' => (int) 5, 'atr' => (int) 4, 'acertr' => (int) 3, 'cqu' => (int) 7, 'bca' => (int) 17, 'bol' => (int) 10, 'bra' => (int) 9, 'can' => (int) 10, 'cansat' => (int) 6, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 5, 'cbr' => (int) 5, 'ccan' => (int) 5, 'cde' => (int) 4, 'cfa' => (int) 3, 'ccl' => (int) 6, 'cil' => (int) 4, 'cla' => (int) 3, 'col' => (int) 3, 'cpa' => (int) 3, 'cre' => (int) 7, 'csa' => (int) 5, 'camsi' => (int) 9, 'dca' => (int) 4, 'din' => (int) 5, 'dzi' => (int) 7, 'eca' => (int) 6, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 12, 'fve' => (int) 4, 'gma' => (int) 12, 'ghi' => (int) 17, 'gra' => (int) 9, 'vvi' => (int) 2, 'han' => (int) 8, 'cav' => (int) 5, 'hma' => (int) 9, 'vpl' => (int) 4, 'sun' => (int) 2, 'lal' => (int) 9, 'lja' => (int) 5, 'lonja' => (int) 6, 'lsa' => (int) 3, 'mes' => (int) 8, 'mpo' => (int) 3, 'mbi' => (int) 4, 'mco' => (int) 3, 'mdo' => (int) 5, 'mtr' => (int) 7, 'cme' => (int) 6, 'egut' => (int) 7, 'ama' => (int) 3, 'nta' => (int) 12, 'nnu' => (int) 9, 'oeu' => (int) 4, 'osa' => (int) 7, 'pax' => (int) 9, 'pgr' => (int) 5, 'stu' => (int) 8, 'pvu' => (int) 6, 'ptr' => (int) 9, 'ppa' => (int) 9, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 7, 'pso' => (int) 10, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 3, 'sbr' => (int) 8, 'sbo' => (int) 5, 'sci' => (int) 5, 'sed' => (int) 4, 'sgi' => (int) 4, 'sas' => (int) 4, 'smo' => (int) 5, 'sly' => (int) 7, 'spe' => (int) 10, 'spa' => (int) 5, 'tar' => (int) 5, 'tha' => (int) 8, 'tca' => (int) 3, 'esa' => (int) 5, 'tpr' => (int) 6, 'twi' => (int) 6, 'ugi' => (int) 4, 'vma' => (int) 1, 'vmu' => (int) 7, 'zma' => (int) 10 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb421930' $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' => 'HOM05D001025', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '592', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p22650' => 'bna', 'A01p29720' => 'bna', 'A03p26560' => 'bna', 'A03p68820' => 'bna', 'A04p20980' => 'bna', 'A06p07730' => 'bna', 'A07p18260' => 'bna', 'A08p33710' => 'bna', 'A09p16970' => 'bna', 'A10p27490' => 'bna', 'Aa31LG1G17300' => 'aar', 'Aa31LG1G3910' => 'aar', 'Aa31LG2G9630' => 'aar', 'Aa31LG5G8360' => 'aar', 'Aa31LG9G2410' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4699' => 'aag', 'Actinidia23512' => 'ach', 'Actinidia37080' => 'ach', 'Ah.01g020380' => 'amhyb', 'Ah.08g215710' => 'amhyb', 'Ah.09g225110' => 'amhyb', 'Ah.10g036680' => 'amhyb', 'AL1G21940' => 'aly', 'AL2G15540' => 'aly', 'AL4G21520' => 'aly', 'AL7G40960' => 'aly', 'Aqoxy2G01191' => 'aox', 'Aqoxy2G03393' => 'aox', 'Aqoxy4G02775' => 'aox', 'Aqoxy6G00058' => 'aox', 'arahy.Tifrunner.gnm1.ann1.9X74H2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CW3FX9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R485W7' => 'arhy', 'AT1G10960' => 'ath', 'AT1G60950' => 'ath', 'AT2G27510' => 'ath', 'AT4G14890' => 'ath', 'AT5G10000' => 'ath', 'ATR0665G624' => 'atr', 'ATR0697G138' => 'atr', 'ATR0776G046' => 'atr', 'ATR1134G135' => 'atr', 'Atru.chr12.1025' => 'acertr', 'Atru.chr3.3241' => 'acertr', 'Atru.chr4.2460' => 'acertr', 'AUR62007427' => 'cqu', 'AUR62010960' => 'cqu', 'AUR62012201' => 'cqu', 'AUR62021470' => 'cqu', 'AUR62022834' => 'cqu', 'AUR62033635' => 'cqu', 'AUR62036186' => 'cqu', 'BcaB01g03077' => 'bca', 'BcaB02g10093' => 'bca', 'BcaB04g20295' => 'bca', 'BcaB06g28147' => 'bca', 'BcaB07g31253' => 'bca', 'BcaC01g04946' => 'bca', 'BcaC02g10614' => 'bca', 'BcaC02g10885' => 'bca', 'BcaC04g19356' => 'bca', 'BcaC04g22297' => 'bca', 'BcaC05g24977' => 'bca', 'BcaC06g31823' => 'bca', 'BcaC07g38633' => 'bca', 'BcaC09g49353' => 'bca', 'BcaC09g50168' => 'bca', 'BcaNung00322' => 'bca', 'BcaNung04769' => 'bca', 'BolC1t02753H' => 'bol', 'BolC1t03721H' => 'bol', 'BolC3t15525H' => 'bol', 'BolC4t23903H' => 'bol', 'BolC4t24231H' => 'bol', 'BolC4t27209H' => 'bol', 'BolC5t29671H' => 'bol', 'BolC8t49044H' => 'bol', 'BolC9t54999H' => 'bol', 'BolC9t59517H' => 'bol', 'BraA01t02178Z' => 'bra', 'BraA01t03099Z' => 'bra', 'BraA03t11867Z' => 'bra', 'BraA04t17667Z' => 'bra', 'BraA07t29542Z' => 'bra', 'BraA08t35287Z' => 'bra', 'BraA09t37334Z' => 'bra', 'BraA10t44801Z' => 'bra', 'BraSC39t46181Z' => 'bra', 'C01p28240' => 'bna', 'C01p37530' => 'bna', 'C03p31820' => 'bna', 'C04p24080' => 'bna', 'C04p25790' => 'bna', 'C04p56770' => 'bna', 'C05p09310' => 'bna', 'C09p21010' => 'bna', 'C09p67560' => 'bna', 'CAN.G1324.7' => 'can', 'CAN.G1358.10' => 'can', 'CAN.G1550.2' => 'can', 'CAN.G186.56' => 'can', 'CAN.G1965.1' => 'can', 'CAN.G645.15' => 'can', 'CAN.G798.26' => 'can', 'CAN.G798.27' => 'can', 'CAN.G798.29' => 'can', 'CAN.G919.31' => 'can', 'CANSAT11G0133' => 'cansat', 'CANSAT11G1171' => 'cansat', 'CANSAT11G2056' => 'cansat', 'CANSAT56G1202' => 'cansat', 'CANSAT56G1514' => 'cansat', 'CANSAT78G0455' => 'cansat', 'CARHR011190' => 'chi', 'CARHR051980' => 'chi', 'CARHR120170' => 'chi', 'CARHR203310' => 'chi', 'CARHR221490' => 'chi', 'Carub.0001s1054' => 'cru', 'Carub.0002s0431' => 'cru', 'Carub.0004s0818' => 'cru', 'Carub.0006s0846' => 'cru', 'Carub.0007s2722' => 'cru', 'Ca_00058_v3' => 'car', 'Ca_17831_v3' => 'car', 'Ca_19408_v3' => 'car', 'Ca_24397_v3' => 'car', 'Ca_25664_v3' => 'car', 'CBR_g21818' => 'cbr', 'CBR_g31195' => 'cbr', 'CBR_g32282' => 'cbr', 'CBR_g39599' => 'cbr', 'CBR_g49410' => 'cbr', 'Cc01_g09120' => 'ccan', 'Cc01_g09130' => 'ccan', 'Cc02_g09630' => 'ccan', 'Cc02_g22810' => 'ccan', 'Cc03_g03810' => 'ccan', 'CDE02G3718' => 'cde', 'CDE04G3183' => 'cde', 'CDE07G1046' => 'cde', 'CDE08G0480' => 'cde', 'Cfa005493' => 'cfa', 'Cfa010312' => 'cfa', 'Cfa015648' => 'cfa', 'Ciclev10002793m.g' => 'ccl', 'Ciclev10003356m.g' => 'ccl', 'Ciclev10006141m.g' => 'ccl', 'Ciclev10016676m.g' => 'ccl', 'Ciclev10017081m.g' => 'ccl', 'Ciclev10029499m.g' => 'ccl', 'CiPaw.01G166300' => 'cil', 'CiPaw.06G145600' => 'cil', 'CiPaw.13G040100' => 'cil', 'CiPaw.13G135800' => 'cil', 'ClCG01G012230' => 'cla', 'ClCG05G009510' => 'cla', 'ClCG08G008270' => 'cla', 'COL.COLO4_11763' => 'col', 'COL.COLO4_19876' => 'col', 'COL.COLO4_21481' => 'col', 'Cpa.g.sc118.34' => 'cpa', 'Cpa.g.sc32.13' => 'cpa', 'Cpa.g.sc58.103' => 'cpa', 'Cre03.g183850' => 'cre', 'Cre06.g306350' => 'cre', 'Cre07.g334800' => 'cre', 'Cre12.g487900' => 'cre', 'Cre14.g626700' => 'cre', 'Cre16.g658400' => 'cre', 'Cre17.g700950' => 'cre', 'CsaV3_1G014830' => 'csa', 'CsaV3_3G013320' => 'csa', 'CsaV3_3G019210' => 'csa', 'CsaV3_3G019220' => 'csa', 'CsaV3_6G004230' => 'csa', 'CSS0003773' => 'camsi', 'CSS0004563' => 'camsi', 'CSS0013949' => 'camsi', 'CSS0025971' => 'camsi', 'CSS0028570' => 'camsi', 'CSS0033127' => 'camsi', 'CSS0036051' => 'camsi', 'CSS0040087' => 'camsi', 'CSS0043179' => 'camsi', 'DCAR_006161' => 'dca', 'DCAR_010351' => 'dca', 'DCAR_012197' => 'dca', 'DCAR_024162' => 'dca', 'Dinv01030' => 'din', 'Dinv10924' => 'din', 'Dinv11835' => 'din', 'Dinv22841' => 'din', 'Dinv42553' => 'din', 'Duzib052G0560' => 'dzi', 'Duzib132G0389' => 'dzi', 'Duzib150G1181' => 'dzi', 'Duzib168G0623' => 'dzi', 'Duzib170G1036' => 'dzi', 'Duzib212G0200' => 'dzi', 'Duzib248G0194' => 'dzi', 'ECA232G2193' => 'eca', 'ECA233G0302' => 'eca', 'ECA234G2813' => 'eca', 'ECA234G4866' => 'eca', 'ECA240G3932' => 'eca', 'ECA248G0385' => 'eca', 'EL10Ac2g04781' => 'bvu', 'EL10Ac3g06445' => 'bvu', 'EL10Ac7g15825' => 'bvu', 'EL10Ac8g18550' => 'bvu', 'Eucgr.B03849' => 'egr', 'Eucgr.I02744' => 'egr', 'Eucgr.J00264' => 'egr', 'Eucgr.J00493' => 'egr', 'FAN04G2181' => 'fan', 'FAN07G2666' => 'fan', 'FAN11G0024' => 'fan', 'FAN12G1105' => 'fan', 'FAN13G0302' => 'fan', 'FAN15G2781' => 'fan', 'FAN16G1274' => 'fan', 'FAN17G2988' => 'fan', 'FAN18G2621' => 'fan', 'FAN21G0013' => 'fan', 'FAN22G1211' => 'fan', 'FAN25G3626' => 'fan', 'FvH4_2g09491' => 'fve', 'FvH4_3g24910' => 'fve', 'FvH4_4g15630' => 'fve', 'FvH4_5g28820' => 'fve', 'Glyma.01G238000' => 'gma', 'Glyma.05G168400' => 'gma', 'Glyma.08G126800' => 'gma', 'Glyma.08G188500' => 'gma', 'Glyma.10G278900' => 'gma', 'Glyma.11G005700' => 'gma', 'Glyma.11G183300' => 'gma', 'Glyma.12G089200' => 'gma', 'Glyma.12G169400' => 'gma', 'Glyma.12G169500' => 'gma', 'Glyma.12G169600' => 'gma', 'Glyma.20G110800' => 'gma', 'Gohir.A03G192900' => 'ghi', 'Gohir.A03G193000' => 'ghi', 'Gohir.A05G080700' => 'ghi', 'Gohir.A09G216000' => 'ghi', 'Gohir.A12G027700' => 'ghi', 'Gohir.A13G036200' => 'ghi', 'Gohir.A13G222600' => 'ghi', 'Gohir.D02G213900' => 'ghi', 'Gohir.D02G214000' => 'ghi', 'Gohir.D05G083700' => 'ghi', 'Gohir.D05G083800' => 'ghi', 'Gohir.D05G083850' => 'ghi', 'Gohir.D08G015400' => 'ghi', 'Gohir.D09G218400' => 'ghi', 'Gohir.D12G027100' => 'ghi', 'Gohir.D13G034500' => 'ghi', 'Gohir.D13G227400' => 'ghi', 'Gorai.005G241800' => 'gra', 'Gorai.005G241900' => 'gra', 'Gorai.006G239400' => 'gra', 'Gorai.008G027600' => 'gra', 'Gorai.009G085400' => 'gra', 'Gorai.009G085500' => 'gra', 'Gorai.013G039000' => 'gra', 'Gorai.013G194800' => 'gra', 'Gorai.013G257900' => 'gra', 'GSVIVG01000982001' => 'vvi', 'GSVIVG01017981001' => 'vvi', 'HanXRQChr01g0024061' => 'han', 'HanXRQChr09g0247831' => 'han', 'HanXRQChr10g0294611' => 'han', 'HanXRQChr10g0294621' => 'han', 'HanXRQChr11g0346821' => 'han', 'HanXRQChr13g0397461' => 'han', 'HanXRQChr16g0513651' => 'han', 'HanXRQChr16g0513701' => 'han', 'Haze_00897' => 'cav', 'Haze_01745' => 'cav', 'Haze_02486' => 'cav', 'Haze_02487' => 'cav', 'Haze_23374' => 'cav', 'Hma1.2p1_0578F.1_g182520' => 'hma', 'Hma1.2p1_0602F.1_g187350' => 'hma', 'Hma1.2p1_0602F.1_g187360' => 'hma', 'Hma1.2p1_0874F.1_g231320' => 'hma', 'Hma1.2p1_1197F.1_g266210' => 'hma', 'Hma1.2p1_1197F.1_g266220' => 'hma', 'Hma1.2p1_2167F.1_g315895' => 'hma', 'Hma1.2p1_2190F.1_g316640' => 'hma', 'Hma1.2p1_3645F.1_g337153' => 'hma', 'HPP92_004907' => 'vpl', 'HPP92_012134' => 'vpl', 'HPP92_025136' => 'vpl', 'HPP92_026087' => 'vpl', 'Hund06782' => 'sun', 'Hund06784' => 'sun', 'Lalb_Chr01g0004861' => 'lal', 'Lalb_Chr02g0140591' => 'lal', 'Lalb_Chr02g0140611' => 'lal', 'Lalb_Chr03g0028101' => 'lal', 'Lalb_Chr07g0185791' => 'lal', 'Lalb_Chr12g0204491' => 'lal', 'Lalb_Chr13g0295671' => 'lal', 'Lalb_Chr19g0136461' => 'lal', 'Lalb_Chr21g0309191' => 'lal', 'Lj1g0028158' => 'lja', 'Lj1P236T38' => 'lonja', 'Lj2C32G2' => 'lonja', 'Lj2P944T8' => 'lonja', 'Lj2P963T15' => 'lonja', 'Lj3g0011788' => 'lja', 'Lj4g0025027' => 'lja', 'Lj5P255T36' => 'lonja', 'Lj6g0018866' => 'lja', 'Lj6P608T31' => 'lonja', 'LjContig00408g0008879' => 'lja', 'Lsat_1_v5_gn_5_105820' => 'lsa', 'Lsat_1_v5_gn_6_38800' => 'lsa', 'Lsat_1_v5_gn_7_67141' => 'lsa', 'Manes.04G003400' => 'mes', 'Manes.07G020000' => 'mes', 'Manes.07G020100' => 'mes', 'Manes.07G020150' => 'mes', 'Manes.10G061500' => 'mes', 'Manes.10G123200' => 'mes', 'Manes.11G161900' => 'mes', 'Manes.15G029300' => 'mes', 'Mapoly0071s0018' => 'mpo', 'Mapoly0082s0023' => 'mpo', 'Mapoly3477s0001' => 'mpo', 'MBI05_g31233_MAGBIO' => 'mbi', 'MBI09_g05946_MAGBIO' => 'mbi', 'MBI09_g05947_MAGBIO' => 'mbi', 'MBI17_g08346_MAGBIO' => 'mbi', 'MCO04G038' => 'mco', 'MCO09G370' => 'mco', 'MCO13G605' => 'mco', 'MD00G1075500' => 'mdo', 'MD03G1144300' => 'mdo', 'MD08G1236800' => 'mdo', 'MD13G1193300' => 'mdo', 'MD15G1428700' => 'mdo', 'Medtr1g112030' => 'mtr', 'Medtr1g112050' => 'mtr', 'Medtr2g006290' => 'mtr', 'Medtr2g086510' => 'mtr', 'Medtr4g053120' => 'mtr', 'Medtr5g006320' => 'mtr', 'Medtr8g088720' => 'mtr', 'MELO3C004712.2' => 'cme', 'MELO3C006533.2' => 'cme', 'MELO3C019438.2' => 'cme', 'MELO3C019440.2' => 'cme', 'MELO3C019441.2' => 'cme', 'MELO3C019895.2' => 'cme', 'Migut.B00811' => 'egut', 'Migut.D02447' => 'egut', 'Migut.F00875' => 'egut', 'Migut.N00186' => 'egut', 'Migut.N01051' => 'egut', 'Migut.N02491' => 'egut', 'Migut.O00784' => 'egut', 'MSTRG.12367' => 'ama', 'MSTRG.18756' => 'ama', 'MSTRG.21042' => 'ama', 'Nitab4.5_0000559g0040' => 'nta', 'Nitab4.5_0000667g0190' => 'nta', 'Nitab4.5_0000755g0160' => 'nta', 'Nitab4.5_0001216g0080' => 'nta', 'Nitab4.5_0004069g0040' => 'nta', 'Nitab4.5_0004129g0010' => 'nta', 'Nitab4.5_0005744g0030' => 'nta', 'Nitab4.5_0006996g0030' => 'nta', 'Nitab4.5_0008971g0040' => 'nta', 'Nitab4.5_0009769g0020' => 'nta', 'Nitab4.5_0009833g0010' => 'nta', 'Nitab4.5_0013140g0020' => 'nta', 'Nn003s41376' => 'nnu', 'Nn1g01857' => 'nnu', 'Nn1g03611' => 'nnu', 'Nn1g06853' => 'nnu', 'Nn3g18360' => 'nnu', 'Nn4g26328' => 'nnu', 'Nn5g27531' => 'nnu', 'Nn6g34899' => 'nnu', 'Nn7g36299' => 'nnu', 'Oeu021485.1' => 'oeu', 'Oeu022433.1' => 'oeu', 'Oeu032111.1' => 'oeu', 'Oeu051608.1' => 'oeu', 'Os01g0860601' => 'osa', 'Os03g0659200' => 'osa', 'Os03g0835900' => 'osa', 'Os04g0412200' => 'osa', 'Os05g0443500' => 'osa', 'Os07g0251500' => 'osa', 'Os08g0104600' => 'osa', 'Peaxi162Scf00003g00047' => 'pax', 'Peaxi162Scf00003g00052' => 'pax', 'Peaxi162Scf00003g00394' => 'pax', 'Peaxi162Scf00091g00621' => 'pax', 'Peaxi162Scf00152g00146' => 'pax', 'Peaxi162Scf00173g00025' => 'pax', 'Peaxi162Scf00195g00102' => 'pax', 'Peaxi162Scf00402g00013' => 'pax', 'Peaxi162Scf00519g00618' => 'pax', 'PGR004G2838' => 'pgr', 'PGR044G2275' => 'pgr', 'PGR102G1377' => 'pgr', 'PGR119G1245' => 'pgr', 'PGR142G4449' => 'pgr', 'PGSC0003DMG400004532' => 'stu', 'PGSC0003DMG400011950' => 'stu', 'PGSC0003DMG400023391' => 'stu', 'PGSC0003DMG400023985' => 'stu', 'PGSC0003DMG400026360' => 'stu', 'PGSC0003DMG400035711' => 'stu', 'PGSC0003DMG400037286' => 'stu', 'PGSC0003DMG402005881' => 'stu', 'Phvul.002G045400' => 'pvu', 'Phvul.006G216600' => 'pvu', 'Phvul.006G216700' => 'pvu', 'Phvul.006G216800' => 'pvu', 'Phvul.007G022500' => 'pvu', 'Phvul.011G094400' => 'pvu', 'Potri.001G470700' => 'ptr', 'Potri.003G015200' => 'ptr', 'Potri.004G202500' => 'ptr', 'Potri.004G218400' => 'ptr', 'Potri.008G020100' => 'ptr', 'Potri.008G153200' => 'ptr', 'Potri.009G163800' => 'ptr', 'Potri.010G087300' => 'ptr', 'Potri.010G239100' => 'ptr', 'Pp3c10_16100' => 'ppa', 'Pp3c10_16880' => 'ppa', 'Pp3c16_6230' => 'ppa', 'Pp3c17_18910' => 'ppa', 'Pp3c3_22119' => 'ppa', 'Pp3c3_22140' => 'ppa', 'Pp3c4_8159' => 'ppa', 'Pp3c4_8171' => 'ppa', 'Pp3c4_8330' => 'ppa', 'PRCOL_00004098' => 'pco', 'Prupe.1G013900' => 'ppe', 'Prupe.1G226300' => 'ppe', 'Prupe.1G573600' => 'ppe', 'Prupe.6G130100' => 'ppe', 'Psat3g090040' => 'psa', 'Psat4g210440' => 'psa', 'Psat6g231040' => 'psa', 'Psat6g231080' => 'psa', 'Psat7g063000' => 'psa', 'Psat7g188000' => 'psa', 'Psat7g188040' => 'psa', 'PSO017G0206' => 'pso', 'PSO170G0501' => 'pso', 'PSO170G6422' => 'pso', 'PSO210G7739' => 'pso', 'PSO339G1808' => 'pso', 'PSO339G6135' => 'pso', 'PSO384G0010' => 'pso', 'PSO384G0964' => 'pso', 'PSO761G0050' => 'pso', 'PSO782G4085' => 'pso', 'QL01p012264' => 'qlo', 'QL02p099491' => 'qlo', 'QL03p033868' => 'qlo', 'QL04p046678' => 'qlo', 'QL06p002448' => 'qlo', 'RcHm_v2.0_Chr4g0416181' => 'rch', 'RcHm_v2.0_Chr5g0044701' => 'rch', 'RcHm_v2.0_Chr6g0265781' => 'rch', 'RcHm_v2.0_Chr7g0221031' => 'rch', 'Rhsim04G0202000' => 'rsi', 'Rhsim11G0127300' => 'rsi', 'Rhsim13G0111800' => 'rsi', 'Sabra01G0165600' => 'sbr', 'Sabra03G0008300' => 'sbr', 'Sabra04G0136900' => 'sbr', 'Sabra08G0013400' => 'sbr', 'Sabra08G0116800' => 'sbr', 'Sabra09G0128000' => 'sbr', 'Sabra10G0055500' => 'sbr', 'Sabra10G0073300' => 'sbr', 'SalBow3G0385' => 'sbo', 'SalBow3G1119' => 'sbo', 'SalBow3G2005' => 'sbo', 'SalBow6G2563' => 'sbo', 'SalBow6G6386' => 'sbo', 'Sc06g0008800' => 'sci', 'Sc07g0004950' => 'sci', 'Sc09g0005340' => 'sci', 'Sc13g0004410' => 'sci', 'Sc21g0007090' => 'sci', 'Sed0009285' => 'sed', 'Sed0017583' => 'sed', 'Sed0019699' => 'sed', 'Sed0023107' => 'sed', 'SEGI_10916' => 'sgi', 'SEGI_16217' => 'sgi', 'SEGI_19466' => 'sgi', 'SEGI_41115' => 'sgi', 'SGA_v2.0_scaffold111G31534' => 'sas', 'SGA_v2.0_scaffold22G09864' => 'sas', 'SGA_v2.0_scaffold338G49219' => 'sas', 'SGA_v2.0_scaffold92G28298' => 'sas', 'SMO119G0064' => 'smo', 'SMO223G0038' => 'smo', 'SMO347G0584' => 'smo', 'SMO351G0010' => 'smo', 'SMO356G0404' => 'smo', 'Solyc01g103920.3' => 'sly', 'Solyc04g009710.2' => 'sly', 'Solyc05g055280.2' => 'sly', 'Solyc10g044520.3' => 'sly', 'Solyc10g075160.1' => 'sly', 'Solyc11g006910.3' => 'sly', 'Solyc11g068430.3' => 'sly', 'Sopen01g046310' => 'spe', 'Sopen03g001200' => 'spe', 'Sopen04g004830' => 'spe', 'Sopen05g033720' => 'spe', 'Sopen06g030740' => 'spe', 'Sopen10g013090' => 'spe', 'Sopen10g027630' => 'spe', 'Sopen10g027640' => 'spe', 'Sopen11g002820' => 'spe', 'Sopen11g027140' => 'spe', 'Sp1g09680' => 'spa', 'Sp2g03630' => 'spa', 'Sp4g10320' => 'spa', 'Sp6g33400' => 'spa', 'Sp7g13030' => 'spa', 'TAR365G0317' => 'tar', 'TAR376G0979' => 'tar', 'TAR623G1665' => 'tar', 'TAR633G2373' => 'tar', 'TAR636G1400' => 'tar', 'THA.LOC104800529' => 'tha', 'THA.LOC104808547' => 'tha', 'THA.LOC104809615' => 'tha', 'THA.LOC104815724' => 'tha', 'THA.LOC104818480' => 'tha', 'THA.LOC104819179' => 'tha', 'THA.LOC104822270' => 'tha', 'THA.LOC104826425' => 'tha', 'Thecc.02G089700' => 'tca', 'Thecc.04G232300' => 'tca', 'Thecc.09G283400' => 'tca', 'Thhalv10009020m.g' => 'esa', 'Thhalv10015506m.g' => 'esa', 'Thhalv10017364m.g' => 'esa', 'Thhalv10023742m.g' => 'esa', 'Thhalv10026483m.g' => 'esa', 'TPR.G17232' => 'tpr', 'TPR.G2133' => 'tpr', 'TPR.G2498' => 'tpr', 'TPR.G31942' => 'tpr', 'TPR.G37877' => 'tpr', 'TPR.G4571' => 'tpr', 'TWI14G1113' => 'twi', 'TWI15G0426' => 'twi', 'TWI31G1005' => 'twi', 'TWI38G0513' => 'twi', 'TWI38G1484' => 'twi', 'TWI73G1098' => 'twi', 'unitig_26.g10519' => 'ugi', 'unitig_736.g22395' => 'ugi', 'unitig_747.g21234' => 'ugi', 'unitig_747.g21942' => 'ugi', 'vmacro14351' => 'vma', 'VMungo0540G0082' => 'vmu', 'VMungo0540G0405' => 'vmu', 'VMungo0540G1486' => 'vmu', 'VMungo0540G1692' => 'vmu', 'VMungo0720G2473' => 'vmu', 'VMungo1127G1562' => 'vmu', 'VMungo1215G1918' => 'vmu', 'Zm00001eb052650' => 'zma', 'Zm00001eb063710' => 'zma', 'Zm00001eb083950' => 'zma', 'Zm00001eb174420' => 'zma', 'Zm00001eb260140' => 'zma', 'Zm00001eb260150' => 'zma', 'Zm00001eb260160' => 'zma', 'Zm00001eb348290' => 'zma', 'Zm00001eb366870' => 'zma', 'Zm00001eb421930' => 'zma' ), 'gf_id' => 'HOM05D001025', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001025' ), 'data_identifier' => 'HOM05D001025', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001025', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '592', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p22650' => 'bna', 'A01p29720' => 'bna', 'A03p26560' => 'bna', 'A03p68820' => 'bna', 'A04p20980' => 'bna', 'A06p07730' => 'bna', 'A07p18260' => 'bna', 'A08p33710' => 'bna', 'A09p16970' => 'bna', 'A10p27490' => 'bna', 'Aa31LG1G17300' => 'aar', 'Aa31LG1G3910' => 'aar', 'Aa31LG2G9630' => 'aar', 'Aa31LG5G8360' => 'aar', 'Aa31LG9G2410' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4699' => 'aag', 'Actinidia23512' => 'ach', 'Actinidia37080' => 'ach', 'Ah.01g020380' => 'amhyb', 'Ah.08g215710' => 'amhyb', 'Ah.09g225110' => 'amhyb', 'Ah.10g036680' => 'amhyb', 'AL1G21940' => 'aly', 'AL2G15540' => 'aly', 'AL4G21520' => 'aly', 'AL7G40960' => 'aly', 'Aqoxy2G01191' => 'aox', 'Aqoxy2G03393' => 'aox', 'Aqoxy4G02775' => 'aox', 'Aqoxy6G00058' => 'aox', 'arahy.Tifrunner.gnm1.ann1.9X74H2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CW3FX9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R485W7' => 'arhy', 'AT1G10960' => 'ath', 'AT1G60950' => 'ath', 'AT2G27510' => 'ath', 'AT4G14890' => 'ath', 'AT5G10000' => 'ath', 'ATR0665G624' => 'atr', 'ATR0697G138' => 'atr', 'ATR0776G046' => 'atr', 'ATR1134G135' => 'atr', 'Atru.chr12.1025' => 'acertr', 'Atru.chr3.3241' => 'acertr', 'Atru.chr4.2460' => 'acertr', 'AUR62007427' => 'cqu', 'AUR62010960' => 'cqu', 'AUR62012201' => 'cqu', 'AUR62021470' => 'cqu', 'AUR62022834' => 'cqu', 'AUR62033635' => 'cqu', 'AUR62036186' => 'cqu', 'BcaB01g03077' => 'bca', 'BcaB02g10093' => 'bca', 'BcaB04g20295' => 'bca', 'BcaB06g28147' => 'bca', 'BcaB07g31253' => 'bca', 'BcaC01g04946' => 'bca', 'BcaC02g10614' => 'bca', 'BcaC02g10885' => 'bca', 'BcaC04g19356' => 'bca', 'BcaC04g22297' => 'bca', 'BcaC05g24977' => 'bca', 'BcaC06g31823' => 'bca', 'BcaC07g38633' => 'bca', 'BcaC09g49353' => 'bca', 'BcaC09g50168' => 'bca', 'BcaNung00322' => 'bca', 'BcaNung04769' => 'bca', 'BolC1t02753H' => 'bol', 'BolC1t03721H' => 'bol', 'BolC3t15525H' => 'bol', 'BolC4t23903H' => 'bol', 'BolC4t24231H' => 'bol', 'BolC4t27209H' => 'bol', 'BolC5t29671H' => 'bol', 'BolC8t49044H' => 'bol', 'BolC9t54999H' => 'bol', 'BolC9t59517H' => 'bol', 'BraA01t02178Z' => 'bra', 'BraA01t03099Z' => 'bra', 'BraA03t11867Z' => 'bra', 'BraA04t17667Z' => 'bra', 'BraA07t29542Z' => 'bra', 'BraA08t35287Z' => 'bra', 'BraA09t37334Z' => 'bra', 'BraA10t44801Z' => 'bra', 'BraSC39t46181Z' => 'bra', 'C01p28240' => 'bna', 'C01p37530' => 'bna', 'C03p31820' => 'bna', 'C04p24080' => 'bna', 'C04p25790' => 'bna', 'C04p56770' => 'bna', 'C05p09310' => 'bna', 'C09p21010' => 'bna', 'C09p67560' => 'bna', 'CAN.G1324.7' => 'can', 'CAN.G1358.10' => 'can', 'CAN.G1550.2' => 'can', 'CAN.G186.56' => 'can', 'CAN.G1965.1' => 'can', 'CAN.G645.15' => 'can', 'CAN.G798.26' => 'can', 'CAN.G798.27' => 'can', 'CAN.G798.29' => 'can', 'CAN.G919.31' => 'can', 'CANSAT11G0133' => 'cansat', 'CANSAT11G1171' => 'cansat', 'CANSAT11G2056' => 'cansat', 'CANSAT56G1202' => 'cansat', 'CANSAT56G1514' => 'cansat', 'CANSAT78G0455' => 'cansat', 'CARHR011190' => 'chi', 'CARHR051980' => 'chi', 'CARHR120170' => 'chi', 'CARHR203310' => 'chi', 'CARHR221490' => 'chi', 'Carub.0001s1054' => 'cru', 'Carub.0002s0431' => 'cru', 'Carub.0004s0818' => 'cru', 'Carub.0006s0846' => 'cru', 'Carub.0007s2722' => 'cru', 'Ca_00058_v3' => 'car', 'Ca_17831_v3' => 'car', 'Ca_19408_v3' => 'car', 'Ca_24397_v3' => 'car', 'Ca_25664_v3' => 'car', 'CBR_g21818' => 'cbr', 'CBR_g31195' => 'cbr', 'CBR_g32282' => 'cbr', 'CBR_g39599' => 'cbr', 'CBR_g49410' => 'cbr', 'Cc01_g09120' => 'ccan', 'Cc01_g09130' => 'ccan', 'Cc02_g09630' => 'ccan', 'Cc02_g22810' => 'ccan', 'Cc03_g03810' => 'ccan', 'CDE02G3718' => 'cde', 'CDE04G3183' => 'cde', 'CDE07G1046' => 'cde', 'CDE08G0480' => 'cde', 'Cfa005493' => 'cfa', 'Cfa010312' => 'cfa', 'Cfa015648' => 'cfa', 'Ciclev10002793m.g' => 'ccl', 'Ciclev10003356m.g' => 'ccl', 'Ciclev10006141m.g' => 'ccl', 'Ciclev10016676m.g' => 'ccl', 'Ciclev10017081m.g' => 'ccl', 'Ciclev10029499m.g' => 'ccl', 'CiPaw.01G166300' => 'cil', 'CiPaw.06G145600' => 'cil', 'CiPaw.13G040100' => 'cil', 'CiPaw.13G135800' => 'cil', 'ClCG01G012230' => 'cla', 'ClCG05G009510' => 'cla', 'ClCG08G008270' => 'cla', 'COL.COLO4_11763' => 'col', 'COL.COLO4_19876' => 'col', 'COL.COLO4_21481' => 'col', 'Cpa.g.sc118.34' => 'cpa', 'Cpa.g.sc32.13' => 'cpa', 'Cpa.g.sc58.103' => 'cpa', 'Cre03.g183850' => 'cre', 'Cre06.g306350' => 'cre', 'Cre07.g334800' => 'cre', 'Cre12.g487900' => 'cre', 'Cre14.g626700' => 'cre', 'Cre16.g658400' => 'cre', 'Cre17.g700950' => 'cre', 'CsaV3_1G014830' => 'csa', 'CsaV3_3G013320' => 'csa', 'CsaV3_3G019210' => 'csa', 'CsaV3_3G019220' => 'csa', 'CsaV3_6G004230' => 'csa', 'CSS0003773' => 'camsi', 'CSS0004563' => 'camsi', 'CSS0013949' => 'camsi', 'CSS0025971' => 'camsi', 'CSS0028570' => 'camsi', 'CSS0033127' => 'camsi', 'CSS0036051' => 'camsi', 'CSS0040087' => 'camsi', 'CSS0043179' => 'camsi', 'DCAR_006161' => 'dca', 'DCAR_010351' => 'dca', 'DCAR_012197' => 'dca', 'DCAR_024162' => 'dca', 'Dinv01030' => 'din', 'Dinv10924' => 'din', 'Dinv11835' => 'din', 'Dinv22841' => 'din', 'Dinv42553' => 'din', 'Duzib052G0560' => 'dzi', 'Duzib132G0389' => 'dzi', 'Duzib150G1181' => 'dzi', 'Duzib168G0623' => 'dzi', 'Duzib170G1036' => 'dzi', 'Duzib212G0200' => 'dzi', 'Duzib248G0194' => 'dzi', 'ECA232G2193' => 'eca', 'ECA233G0302' => 'eca', 'ECA234G2813' => 'eca', 'ECA234G4866' => 'eca', 'ECA240G3932' => 'eca', 'ECA248G0385' => 'eca', 'EL10Ac2g04781' => 'bvu', 'EL10Ac3g06445' => 'bvu', 'EL10Ac7g15825' => 'bvu', 'EL10Ac8g18550' => 'bvu', 'Eucgr.B03849' => 'egr', 'Eucgr.I02744' => 'egr', 'Eucgr.J00264' => 'egr', 'Eucgr.J00493' => 'egr', 'FAN04G2181' => 'fan', 'FAN07G2666' => 'fan', 'FAN11G0024' => 'fan', 'FAN12G1105' => 'fan', 'FAN13G0302' => 'fan', 'FAN15G2781' => 'fan', 'FAN16G1274' => 'fan', 'FAN17G2988' => 'fan', 'FAN18G2621' => 'fan', 'FAN21G0013' => 'fan', 'FAN22G1211' => 'fan', 'FAN25G3626' => 'fan', 'FvH4_2g09491' => 'fve', 'FvH4_3g24910' => 'fve', 'FvH4_4g15630' => 'fve', 'FvH4_5g28820' => 'fve', 'Glyma.01G238000' => 'gma', 'Glyma.05G168400' => 'gma', 'Glyma.08G126800' => 'gma', 'Glyma.08G188500' => 'gma', 'Glyma.10G278900' => 'gma', 'Glyma.11G005700' => 'gma', 'Glyma.11G183300' => 'gma', 'Glyma.12G089200' => 'gma', 'Glyma.12G169400' => 'gma', 'Glyma.12G169500' => 'gma', 'Glyma.12G169600' => 'gma', 'Glyma.20G110800' => 'gma', 'Gohir.A03G192900' => 'ghi', 'Gohir.A03G193000' => 'ghi', 'Gohir.A05G080700' => 'ghi', 'Gohir.A09G216000' => 'ghi', 'Gohir.A12G027700' => 'ghi', 'Gohir.A13G036200' => 'ghi', 'Gohir.A13G222600' => 'ghi', 'Gohir.D02G213900' => 'ghi', 'Gohir.D02G214000' => 'ghi', 'Gohir.D05G083700' => 'ghi', 'Gohir.D05G083800' => 'ghi', 'Gohir.D05G083850' => 'ghi', 'Gohir.D08G015400' => 'ghi', 'Gohir.D09G218400' => 'ghi', 'Gohir.D12G027100' => 'ghi', 'Gohir.D13G034500' => 'ghi', 'Gohir.D13G227400' => 'ghi', 'Gorai.005G241800' => 'gra', 'Gorai.005G241900' => 'gra', 'Gorai.006G239400' => 'gra', 'Gorai.008G027600' => 'gra', 'Gorai.009G085400' => 'gra', 'Gorai.009G085500' => 'gra', 'Gorai.013G039000' => 'gra', 'Gorai.013G194800' => 'gra', 'Gorai.013G257900' => 'gra', 'GSVIVG01000982001' => 'vvi', 'GSVIVG01017981001' => 'vvi', 'HanXRQChr01g0024061' => 'han', 'HanXRQChr09g0247831' => 'han', 'HanXRQChr10g0294611' => 'han', 'HanXRQChr10g0294621' => 'han', 'HanXRQChr11g0346821' => 'han', 'HanXRQChr13g0397461' => 'han', 'HanXRQChr16g0513651' => 'han', 'HanXRQChr16g0513701' => 'han', 'Haze_00897' => 'cav', 'Haze_01745' => 'cav', 'Haze_02486' => 'cav', 'Haze_02487' => 'cav', 'Haze_23374' => 'cav', 'Hma1.2p1_0578F.1_g182520' => 'hma', 'Hma1.2p1_0602F.1_g187350' => 'hma', 'Hma1.2p1_0602F.1_g187360' => 'hma', 'Hma1.2p1_0874F.1_g231320' => 'hma', 'Hma1.2p1_1197F.1_g266210' => 'hma', 'Hma1.2p1_1197F.1_g266220' => 'hma', 'Hma1.2p1_2167F.1_g315895' => 'hma', 'Hma1.2p1_2190F.1_g316640' => 'hma', 'Hma1.2p1_3645F.1_g337153' => 'hma', 'HPP92_004907' => 'vpl', 'HPP92_012134' => 'vpl', 'HPP92_025136' => 'vpl', 'HPP92_026087' => 'vpl', 'Hund06782' => 'sun', 'Hund06784' => 'sun', 'Lalb_Chr01g0004861' => 'lal', 'Lalb_Chr02g0140591' => 'lal', 'Lalb_Chr02g0140611' => 'lal', 'Lalb_Chr03g0028101' => 'lal', 'Lalb_Chr07g0185791' => 'lal', 'Lalb_Chr12g0204491' => 'lal', 'Lalb_Chr13g0295671' => 'lal', 'Lalb_Chr19g0136461' => 'lal', 'Lalb_Chr21g0309191' => 'lal', 'Lj1g0028158' => 'lja', 'Lj1P236T38' => 'lonja', 'Lj2C32G2' => 'lonja', 'Lj2P944T8' => 'lonja', 'Lj2P963T15' => 'lonja', 'Lj3g0011788' => 'lja', 'Lj4g0025027' => 'lja', 'Lj5P255T36' => 'lonja', 'Lj6g0018866' => 'lja', 'Lj6P608T31' => 'lonja', 'LjContig00408g0008879' => 'lja', 'Lsat_1_v5_gn_5_105820' => 'lsa', 'Lsat_1_v5_gn_6_38800' => 'lsa', 'Lsat_1_v5_gn_7_67141' => 'lsa', 'Manes.04G003400' => 'mes', 'Manes.07G020000' => 'mes', 'Manes.07G020100' => 'mes', 'Manes.07G020150' => 'mes', 'Manes.10G061500' => 'mes', 'Manes.10G123200' => 'mes', 'Manes.11G161900' => 'mes', 'Manes.15G029300' => 'mes', 'Mapoly0071s0018' => 'mpo', 'Mapoly0082s0023' => 'mpo', 'Mapoly3477s0001' => 'mpo', 'MBI05_g31233_MAGBIO' => 'mbi', 'MBI09_g05946_MAGBIO' => 'mbi', 'MBI09_g05947_MAGBIO' => 'mbi', 'MBI17_g08346_MAGBIO' => 'mbi', 'MCO04G038' => 'mco', 'MCO09G370' => 'mco', 'MCO13G605' => 'mco', 'MD00G1075500' => 'mdo', 'MD03G1144300' => 'mdo', 'MD08G1236800' => 'mdo', 'MD13G1193300' => 'mdo', 'MD15G1428700' => 'mdo', 'Medtr1g112030' => 'mtr', 'Medtr1g112050' => 'mtr', 'Medtr2g006290' => 'mtr', 'Medtr2g086510' => 'mtr', 'Medtr4g053120' => 'mtr', 'Medtr5g006320' => 'mtr', 'Medtr8g088720' => 'mtr', 'MELO3C004712.2' => 'cme', 'MELO3C006533.2' => 'cme', 'MELO3C019438.2' => 'cme', 'MELO3C019440.2' => 'cme', 'MELO3C019441.2' => 'cme', 'MELO3C019895.2' => 'cme', 'Migut.B00811' => 'egut', 'Migut.D02447' => 'egut', 'Migut.F00875' => 'egut', 'Migut.N00186' => 'egut', 'Migut.N01051' => 'egut', 'Migut.N02491' => 'egut', 'Migut.O00784' => 'egut', 'MSTRG.12367' => 'ama', 'MSTRG.18756' => 'ama', 'MSTRG.21042' => 'ama', 'Nitab4.5_0000559g0040' => 'nta', 'Nitab4.5_0000667g0190' => 'nta', 'Nitab4.5_0000755g0160' => 'nta', 'Nitab4.5_0001216g0080' => 'nta', 'Nitab4.5_0004069g0040' => 'nta', 'Nitab4.5_0004129g0010' => 'nta', 'Nitab4.5_0005744g0030' => 'nta', 'Nitab4.5_0006996g0030' => 'nta', 'Nitab4.5_0008971g0040' => 'nta', 'Nitab4.5_0009769g0020' => 'nta', 'Nitab4.5_0009833g0010' => 'nta', 'Nitab4.5_0013140g0020' => 'nta', 'Nn003s41376' => 'nnu', 'Nn1g01857' => 'nnu', 'Nn1g03611' => 'nnu', 'Nn1g06853' => 'nnu', 'Nn3g18360' => 'nnu', 'Nn4g26328' => 'nnu', 'Nn5g27531' => 'nnu', 'Nn6g34899' => 'nnu', 'Nn7g36299' => 'nnu', 'Oeu021485.1' => 'oeu', 'Oeu022433.1' => 'oeu', 'Oeu032111.1' => 'oeu', 'Oeu051608.1' => 'oeu', 'Os01g0860601' => 'osa', 'Os03g0659200' => 'osa', 'Os03g0835900' => 'osa', 'Os04g0412200' => 'osa', 'Os05g0443500' => 'osa', 'Os07g0251500' => 'osa', 'Os08g0104600' => 'osa', 'Peaxi162Scf00003g00047' => 'pax', 'Peaxi162Scf00003g00052' => 'pax', 'Peaxi162Scf00003g00394' => 'pax', 'Peaxi162Scf00091g00621' => 'pax', 'Peaxi162Scf00152g00146' => 'pax', 'Peaxi162Scf00173g00025' => 'pax', 'Peaxi162Scf00195g00102' => 'pax', 'Peaxi162Scf00402g00013' => 'pax', 'Peaxi162Scf00519g00618' => 'pax', 'PGR004G2838' => 'pgr', 'PGR044G2275' => 'pgr', 'PGR102G1377' => 'pgr', 'PGR119G1245' => 'pgr', 'PGR142G4449' => 'pgr', 'PGSC0003DMG400004532' => 'stu', 'PGSC0003DMG400011950' => 'stu', 'PGSC0003DMG400023391' => 'stu', 'PGSC0003DMG400023985' => 'stu', 'PGSC0003DMG400026360' => 'stu', 'PGSC0003DMG400035711' => 'stu', 'PGSC0003DMG400037286' => 'stu', 'PGSC0003DMG402005881' => 'stu', 'Phvul.002G045400' => 'pvu', 'Phvul.006G216600' => 'pvu', 'Phvul.006G216700' => 'pvu', 'Phvul.006G216800' => 'pvu', 'Phvul.007G022500' => 'pvu', 'Phvul.011G094400' => 'pvu', 'Potri.001G470700' => 'ptr', 'Potri.003G015200' => 'ptr', 'Potri.004G202500' => 'ptr', 'Potri.004G218400' => 'ptr', 'Potri.008G020100' => 'ptr', 'Potri.008G153200' => 'ptr', 'Potri.009G163800' => 'ptr', 'Potri.010G087300' => 'ptr', 'Potri.010G239100' => 'ptr', 'Pp3c10_16100' => 'ppa', 'Pp3c10_16880' => 'ppa', 'Pp3c16_6230' => 'ppa', 'Pp3c17_18910' => 'ppa', 'Pp3c3_22119' => 'ppa', 'Pp3c3_22140' => 'ppa', 'Pp3c4_8159' => 'ppa', 'Pp3c4_8171' => 'ppa', 'Pp3c4_8330' => 'ppa', 'PRCOL_00004098' => 'pco', 'Prupe.1G013900' => 'ppe', 'Prupe.1G226300' => 'ppe', 'Prupe.1G573600' => 'ppe', 'Prupe.6G130100' => 'ppe', 'Psat3g090040' => 'psa', 'Psat4g210440' => 'psa', 'Psat6g231040' => 'psa', 'Psat6g231080' => 'psa', 'Psat7g063000' => 'psa', 'Psat7g188000' => 'psa', 'Psat7g188040' => 'psa', 'PSO017G0206' => 'pso', 'PSO170G0501' => 'pso', 'PSO170G6422' => 'pso', 'PSO210G7739' => 'pso', 'PSO339G1808' => 'pso', 'PSO339G6135' => 'pso', 'PSO384G0010' => 'pso', 'PSO384G0964' => 'pso', 'PSO761G0050' => 'pso', 'PSO782G4085' => 'pso', 'QL01p012264' => 'qlo', 'QL02p099491' => 'qlo', 'QL03p033868' => 'qlo', 'QL04p046678' => 'qlo', 'QL06p002448' => 'qlo', 'RcHm_v2.0_Chr4g0416181' => 'rch', 'RcHm_v2.0_Chr5g0044701' => 'rch', 'RcHm_v2.0_Chr6g0265781' => 'rch', 'RcHm_v2.0_Chr7g0221031' => 'rch', 'Rhsim04G0202000' => 'rsi', 'Rhsim11G0127300' => 'rsi', 'Rhsim13G0111800' => 'rsi', 'Sabra01G0165600' => 'sbr', 'Sabra03G0008300' => 'sbr', 'Sabra04G0136900' => 'sbr', 'Sabra08G0013400' => 'sbr', 'Sabra08G0116800' => 'sbr', 'Sabra09G0128000' => 'sbr', 'Sabra10G0055500' => 'sbr', 'Sabra10G0073300' => 'sbr', 'SalBow3G0385' => 'sbo', 'SalBow3G1119' => 'sbo', 'SalBow3G2005' => 'sbo', 'SalBow6G2563' => 'sbo', 'SalBow6G6386' => 'sbo', 'Sc06g0008800' => 'sci', 'Sc07g0004950' => 'sci', 'Sc09g0005340' => 'sci', 'Sc13g0004410' => 'sci', 'Sc21g0007090' => 'sci', 'Sed0009285' => 'sed', 'Sed0017583' => 'sed', 'Sed0019699' => 'sed', 'Sed0023107' => 'sed', 'SEGI_10916' => 'sgi', 'SEGI_16217' => 'sgi', 'SEGI_19466' => 'sgi', 'SEGI_41115' => 'sgi', 'SGA_v2.0_scaffold111G31534' => 'sas', 'SGA_v2.0_scaffold22G09864' => 'sas', 'SGA_v2.0_scaffold338G49219' => 'sas', 'SGA_v2.0_scaffold92G28298' => 'sas', 'SMO119G0064' => 'smo', 'SMO223G0038' => 'smo', 'SMO347G0584' => 'smo', 'SMO351G0010' => 'smo', 'SMO356G0404' => 'smo', 'Solyc01g103920.3' => 'sly', 'Solyc04g009710.2' => 'sly', 'Solyc05g055280.2' => 'sly', 'Solyc10g044520.3' => 'sly', 'Solyc10g075160.1' => 'sly', 'Solyc11g006910.3' => 'sly', 'Solyc11g068430.3' => 'sly', 'Sopen01g046310' => 'spe', 'Sopen03g001200' => 'spe', 'Sopen04g004830' => 'spe', 'Sopen05g033720' => 'spe', 'Sopen06g030740' => 'spe', 'Sopen10g013090' => 'spe', 'Sopen10g027630' => 'spe', 'Sopen10g027640' => 'spe', 'Sopen11g002820' => 'spe', 'Sopen11g027140' => 'spe', 'Sp1g09680' => 'spa', 'Sp2g03630' => 'spa', 'Sp4g10320' => 'spa', 'Sp6g33400' => 'spa', 'Sp7g13030' => 'spa', 'TAR365G0317' => 'tar', 'TAR376G0979' => 'tar', 'TAR623G1665' => 'tar', 'TAR633G2373' => 'tar', 'TAR636G1400' => 'tar', 'THA.LOC104800529' => 'tha', 'THA.LOC104808547' => 'tha', 'THA.LOC104809615' => 'tha', 'THA.LOC104815724' => 'tha', 'THA.LOC104818480' => 'tha', 'THA.LOC104819179' => 'tha', 'THA.LOC104822270' => 'tha', 'THA.LOC104826425' => 'tha', 'Thecc.02G089700' => 'tca', 'Thecc.04G232300' => 'tca', 'Thecc.09G283400' => 'tca', 'Thhalv10009020m.g' => 'esa', 'Thhalv10015506m.g' => 'esa', 'Thhalv10017364m.g' => 'esa', 'Thhalv10023742m.g' => 'esa', 'Thhalv10026483m.g' => 'esa', 'TPR.G17232' => 'tpr', 'TPR.G2133' => 'tpr', 'TPR.G2498' => 'tpr', 'TPR.G31942' => 'tpr', 'TPR.G37877' => 'tpr', 'TPR.G4571' => 'tpr', 'TWI14G1113' => 'twi', 'TWI15G0426' => 'twi', 'TWI31G1005' => 'twi', 'TWI38G0513' => 'twi', 'TWI38G1484' => 'twi', 'TWI73G1098' => 'twi', 'unitig_26.g10519' => 'ugi', 'unitig_736.g22395' => 'ugi', 'unitig_747.g21234' => 'ugi', 'unitig_747.g21942' => 'ugi', 'vmacro14351' => 'vma', 'VMungo0540G0082' => 'vmu', 'VMungo0540G0405' => 'vmu', 'VMungo0540G1486' => 'vmu', 'VMungo0540G1692' => 'vmu', 'VMungo0720G2473' => 'vmu', 'VMungo1127G1562' => 'vmu', 'VMungo1215G1918' => 'vmu', 'Zm00001eb052650' => 'zma', 'Zm00001eb063710' => 'zma', 'Zm00001eb083950' => 'zma', 'Zm00001eb174420' => 'zma', 'Zm00001eb260140' => 'zma', 'Zm00001eb260150' => 'zma', 'Zm00001eb260160' => 'zma', 'Zm00001eb348290' => 'zma', 'Zm00001eb366870' => 'zma', 'Zm00001eb421930' => 'zma' ) $gf_id = 'HOM05D001025' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001025' ) $data_identifier = 'HOM05D001025' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 19, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 2, 'amhyb' => (int) 4, 'aly' => (int) 4, 'aox' => (int) 4, 'arhy' => (int) 3, 'ath' => (int) 5, 'atr' => (int) 4, 'acertr' => (int) 3, 'cqu' => (int) 7, 'bca' => (int) 17, 'bol' => (int) 10, 'bra' => (int) 9, 'can' => (int) 10, 'cansat' => (int) 6, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 5, 'cbr' => (int) 5, 'ccan' => (int) 5, 'cde' => (int) 4, 'cfa' => (int) 3, 'ccl' => (int) 6, 'cil' => (int) 4, 'cla' => (int) 3, 'col' => (int) 3, 'cpa' => (int) 3, 'cre' => (int) 7, 'csa' => (int) 5, 'camsi' => (int) 9, 'dca' => (int) 4, 'din' => (int) 5, 'dzi' => (int) 7, 'eca' => (int) 6, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 12, 'fve' => (int) 4, 'gma' => (int) 12, 'ghi' => (int) 17, 'gra' => (int) 9, 'vvi' => (int) 2, 'han' => (int) 8, 'cav' => (int) 5, 'hma' => (int) 9, 'vpl' => (int) 4, 'sun' => (int) 2, 'lal' => (int) 9, 'lja' => (int) 5, 'lonja' => (int) 6, 'lsa' => (int) 3, 'mes' => (int) 8, 'mpo' => (int) 3, 'mbi' => (int) 4, 'mco' => (int) 3, 'mdo' => (int) 5, 'mtr' => (int) 7, 'cme' => (int) 6, 'egut' => (int) 7, 'ama' => (int) 3, 'nta' => (int) 12, 'nnu' => (int) 9, 'oeu' => (int) 4, 'osa' => (int) 7, 'pax' => (int) 9, 'pgr' => (int) 5, 'stu' => (int) 8, 'pvu' => (int) 6, 'ptr' => (int) 9, 'ppa' => (int) 9, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 7, 'pso' => (int) 10, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 3, 'sbr' => (int) 8, 'sbo' => (int) 5, 'sci' => (int) 5, 'sed' => (int) 4, 'sgi' => (int) 4, 'sas' => (int) 4, 'smo' => (int) 5, 'sly' => (int) 7, 'spe' => (int) 10, 'spa' => (int) 5, 'tar' => (int) 5, 'tha' => (int) 8, 'tca' => (int) 3, 'esa' => (int) 5, 'tpr' => (int) 6, 'twi' => (int) 6, 'ugi' => (int) 4, 'vma' => (int) 1, 'vmu' => (int) 7, 'zma' => (int) 10 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb421930' $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' => 'HOM05D001025', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '592', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p22650' => 'bna', 'A01p29720' => 'bna', 'A03p26560' => 'bna', 'A03p68820' => 'bna', 'A04p20980' => 'bna', 'A06p07730' => 'bna', 'A07p18260' => 'bna', 'A08p33710' => 'bna', 'A09p16970' => 'bna', 'A10p27490' => 'bna', 'Aa31LG1G17300' => 'aar', 'Aa31LG1G3910' => 'aar', 'Aa31LG2G9630' => 'aar', 'Aa31LG5G8360' => 'aar', 'Aa31LG9G2410' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4699' => 'aag', 'Actinidia23512' => 'ach', 'Actinidia37080' => 'ach', 'Ah.01g020380' => 'amhyb', 'Ah.08g215710' => 'amhyb', 'Ah.09g225110' => 'amhyb', 'Ah.10g036680' => 'amhyb', 'AL1G21940' => 'aly', 'AL2G15540' => 'aly', 'AL4G21520' => 'aly', 'AL7G40960' => 'aly', 'Aqoxy2G01191' => 'aox', 'Aqoxy2G03393' => 'aox', 'Aqoxy4G02775' => 'aox', 'Aqoxy6G00058' => 'aox', 'arahy.Tifrunner.gnm1.ann1.9X74H2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CW3FX9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R485W7' => 'arhy', 'AT1G10960' => 'ath', 'AT1G60950' => 'ath', 'AT2G27510' => 'ath', 'AT4G14890' => 'ath', 'AT5G10000' => 'ath', 'ATR0665G624' => 'atr', 'ATR0697G138' => 'atr', 'ATR0776G046' => 'atr', 'ATR1134G135' => 'atr', 'Atru.chr12.1025' => 'acertr', 'Atru.chr3.3241' => 'acertr', 'Atru.chr4.2460' => 'acertr', 'AUR62007427' => 'cqu', 'AUR62010960' => 'cqu', 'AUR62012201' => 'cqu', 'AUR62021470' => 'cqu', 'AUR62022834' => 'cqu', 'AUR62033635' => 'cqu', 'AUR62036186' => 'cqu', 'BcaB01g03077' => 'bca', 'BcaB02g10093' => 'bca', 'BcaB04g20295' => 'bca', 'BcaB06g28147' => 'bca', 'BcaB07g31253' => 'bca', 'BcaC01g04946' => 'bca', 'BcaC02g10614' => 'bca', 'BcaC02g10885' => 'bca', 'BcaC04g19356' => 'bca', 'BcaC04g22297' => 'bca', 'BcaC05g24977' => 'bca', 'BcaC06g31823' => 'bca', 'BcaC07g38633' => 'bca', 'BcaC09g49353' => 'bca', 'BcaC09g50168' => 'bca', 'BcaNung00322' => 'bca', 'BcaNung04769' => 'bca', 'BolC1t02753H' => 'bol', 'BolC1t03721H' => 'bol', 'BolC3t15525H' => 'bol', 'BolC4t23903H' => 'bol', 'BolC4t24231H' => 'bol', 'BolC4t27209H' => 'bol', 'BolC5t29671H' => 'bol', 'BolC8t49044H' => 'bol', 'BolC9t54999H' => 'bol', 'BolC9t59517H' => 'bol', 'BraA01t02178Z' => 'bra', 'BraA01t03099Z' => 'bra', 'BraA03t11867Z' => 'bra', 'BraA04t17667Z' => 'bra', 'BraA07t29542Z' => 'bra', 'BraA08t35287Z' => 'bra', 'BraA09t37334Z' => 'bra', 'BraA10t44801Z' => 'bra', 'BraSC39t46181Z' => 'bra', 'C01p28240' => 'bna', 'C01p37530' => 'bna', 'C03p31820' => 'bna', 'C04p24080' => 'bna', 'C04p25790' => 'bna', 'C04p56770' => 'bna', 'C05p09310' => 'bna', 'C09p21010' => 'bna', 'C09p67560' => 'bna', 'CAN.G1324.7' => 'can', 'CAN.G1358.10' => 'can', 'CAN.G1550.2' => 'can', 'CAN.G186.56' => 'can', 'CAN.G1965.1' => 'can', 'CAN.G645.15' => 'can', 'CAN.G798.26' => 'can', 'CAN.G798.27' => 'can', 'CAN.G798.29' => 'can', 'CAN.G919.31' => 'can', 'CANSAT11G0133' => 'cansat', 'CANSAT11G1171' => 'cansat', 'CANSAT11G2056' => 'cansat', 'CANSAT56G1202' => 'cansat', 'CANSAT56G1514' => 'cansat', 'CANSAT78G0455' => 'cansat', 'CARHR011190' => 'chi', 'CARHR051980' => 'chi', 'CARHR120170' => 'chi', 'CARHR203310' => 'chi', 'CARHR221490' => 'chi', 'Carub.0001s1054' => 'cru', 'Carub.0002s0431' => 'cru', 'Carub.0004s0818' => 'cru', 'Carub.0006s0846' => 'cru', 'Carub.0007s2722' => 'cru', 'Ca_00058_v3' => 'car', 'Ca_17831_v3' => 'car', 'Ca_19408_v3' => 'car', 'Ca_24397_v3' => 'car', 'Ca_25664_v3' => 'car', 'CBR_g21818' => 'cbr', 'CBR_g31195' => 'cbr', 'CBR_g32282' => 'cbr', 'CBR_g39599' => 'cbr', 'CBR_g49410' => 'cbr', 'Cc01_g09120' => 'ccan', 'Cc01_g09130' => 'ccan', 'Cc02_g09630' => 'ccan', 'Cc02_g22810' => 'ccan', 'Cc03_g03810' => 'ccan', 'CDE02G3718' => 'cde', 'CDE04G3183' => 'cde', 'CDE07G1046' => 'cde', 'CDE08G0480' => 'cde', 'Cfa005493' => 'cfa', 'Cfa010312' => 'cfa', 'Cfa015648' => 'cfa', 'Ciclev10002793m.g' => 'ccl', 'Ciclev10003356m.g' => 'ccl', 'Ciclev10006141m.g' => 'ccl', 'Ciclev10016676m.g' => 'ccl', 'Ciclev10017081m.g' => 'ccl', 'Ciclev10029499m.g' => 'ccl', 'CiPaw.01G166300' => 'cil', 'CiPaw.06G145600' => 'cil', 'CiPaw.13G040100' => 'cil', 'CiPaw.13G135800' => 'cil', 'ClCG01G012230' => 'cla', 'ClCG05G009510' => 'cla', 'ClCG08G008270' => 'cla', 'COL.COLO4_11763' => 'col', 'COL.COLO4_19876' => 'col', 'COL.COLO4_21481' => 'col', 'Cpa.g.sc118.34' => 'cpa', 'Cpa.g.sc32.13' => 'cpa', 'Cpa.g.sc58.103' => 'cpa', 'Cre03.g183850' => 'cre', 'Cre06.g306350' => 'cre', 'Cre07.g334800' => 'cre', 'Cre12.g487900' => 'cre', 'Cre14.g626700' => 'cre', 'Cre16.g658400' => 'cre', 'Cre17.g700950' => 'cre', 'CsaV3_1G014830' => 'csa', 'CsaV3_3G013320' => 'csa', 'CsaV3_3G019210' => 'csa', 'CsaV3_3G019220' => 'csa', 'CsaV3_6G004230' => 'csa', 'CSS0003773' => 'camsi', 'CSS0004563' => 'camsi', 'CSS0013949' => 'camsi', 'CSS0025971' => 'camsi', 'CSS0028570' => 'camsi', 'CSS0033127' => 'camsi', 'CSS0036051' => 'camsi', 'CSS0040087' => 'camsi', 'CSS0043179' => 'camsi', 'DCAR_006161' => 'dca', 'DCAR_010351' => 'dca', 'DCAR_012197' => 'dca', 'DCAR_024162' => 'dca', 'Dinv01030' => 'din', 'Dinv10924' => 'din', 'Dinv11835' => 'din', 'Dinv22841' => 'din', 'Dinv42553' => 'din', 'Duzib052G0560' => 'dzi', 'Duzib132G0389' => 'dzi', 'Duzib150G1181' => 'dzi', 'Duzib168G0623' => 'dzi', 'Duzib170G1036' => 'dzi', 'Duzib212G0200' => 'dzi', 'Duzib248G0194' => 'dzi', 'ECA232G2193' => 'eca', 'ECA233G0302' => 'eca', 'ECA234G2813' => 'eca', 'ECA234G4866' => 'eca', 'ECA240G3932' => 'eca', 'ECA248G0385' => 'eca', 'EL10Ac2g04781' => 'bvu', 'EL10Ac3g06445' => 'bvu', 'EL10Ac7g15825' => 'bvu', 'EL10Ac8g18550' => 'bvu', 'Eucgr.B03849' => 'egr', 'Eucgr.I02744' => 'egr', 'Eucgr.J00264' => 'egr', 'Eucgr.J00493' => 'egr', 'FAN04G2181' => 'fan', 'FAN07G2666' => 'fan', 'FAN11G0024' => 'fan', 'FAN12G1105' => 'fan', 'FAN13G0302' => 'fan', 'FAN15G2781' => 'fan', 'FAN16G1274' => 'fan', 'FAN17G2988' => 'fan', 'FAN18G2621' => 'fan', 'FAN21G0013' => 'fan', 'FAN22G1211' => 'fan', 'FAN25G3626' => 'fan', 'FvH4_2g09491' => 'fve', 'FvH4_3g24910' => 'fve', 'FvH4_4g15630' => 'fve', 'FvH4_5g28820' => 'fve', 'Glyma.01G238000' => 'gma', 'Glyma.05G168400' => 'gma', 'Glyma.08G126800' => 'gma', 'Glyma.08G188500' => 'gma', 'Glyma.10G278900' => 'gma', 'Glyma.11G005700' => 'gma', 'Glyma.11G183300' => 'gma', 'Glyma.12G089200' => 'gma', 'Glyma.12G169400' => 'gma', 'Glyma.12G169500' => 'gma', 'Glyma.12G169600' => 'gma', 'Glyma.20G110800' => 'gma', 'Gohir.A03G192900' => 'ghi', 'Gohir.A03G193000' => 'ghi', 'Gohir.A05G080700' => 'ghi', 'Gohir.A09G216000' => 'ghi', 'Gohir.A12G027700' => 'ghi', 'Gohir.A13G036200' => 'ghi', 'Gohir.A13G222600' => 'ghi', 'Gohir.D02G213900' => 'ghi', 'Gohir.D02G214000' => 'ghi', 'Gohir.D05G083700' => 'ghi', 'Gohir.D05G083800' => 'ghi', 'Gohir.D05G083850' => 'ghi', 'Gohir.D08G015400' => 'ghi', 'Gohir.D09G218400' => 'ghi', 'Gohir.D12G027100' => 'ghi', 'Gohir.D13G034500' => 'ghi', 'Gohir.D13G227400' => 'ghi', 'Gorai.005G241800' => 'gra', 'Gorai.005G241900' => 'gra', 'Gorai.006G239400' => 'gra', 'Gorai.008G027600' => 'gra', 'Gorai.009G085400' => 'gra', 'Gorai.009G085500' => 'gra', 'Gorai.013G039000' => 'gra', 'Gorai.013G194800' => 'gra', 'Gorai.013G257900' => 'gra', 'GSVIVG01000982001' => 'vvi', 'GSVIVG01017981001' => 'vvi', 'HanXRQChr01g0024061' => 'han', 'HanXRQChr09g0247831' => 'han', 'HanXRQChr10g0294611' => 'han', 'HanXRQChr10g0294621' => 'han', 'HanXRQChr11g0346821' => 'han', 'HanXRQChr13g0397461' => 'han', 'HanXRQChr16g0513651' => 'han', 'HanXRQChr16g0513701' => 'han', 'Haze_00897' => 'cav', 'Haze_01745' => 'cav', 'Haze_02486' => 'cav', 'Haze_02487' => 'cav', 'Haze_23374' => 'cav', 'Hma1.2p1_0578F.1_g182520' => 'hma', 'Hma1.2p1_0602F.1_g187350' => 'hma', 'Hma1.2p1_0602F.1_g187360' => 'hma', 'Hma1.2p1_0874F.1_g231320' => 'hma', 'Hma1.2p1_1197F.1_g266210' => 'hma', 'Hma1.2p1_1197F.1_g266220' => 'hma', 'Hma1.2p1_2167F.1_g315895' => 'hma', 'Hma1.2p1_2190F.1_g316640' => 'hma', 'Hma1.2p1_3645F.1_g337153' => 'hma', 'HPP92_004907' => 'vpl', 'HPP92_012134' => 'vpl', 'HPP92_025136' => 'vpl', 'HPP92_026087' => 'vpl', 'Hund06782' => 'sun', 'Hund06784' => 'sun', 'Lalb_Chr01g0004861' => 'lal', 'Lalb_Chr02g0140591' => 'lal', 'Lalb_Chr02g0140611' => 'lal', 'Lalb_Chr03g0028101' => 'lal', 'Lalb_Chr07g0185791' => 'lal', 'Lalb_Chr12g0204491' => 'lal', 'Lalb_Chr13g0295671' => 'lal', 'Lalb_Chr19g0136461' => 'lal', 'Lalb_Chr21g0309191' => 'lal', 'Lj1g0028158' => 'lja', 'Lj1P236T38' => 'lonja', 'Lj2C32G2' => 'lonja', 'Lj2P944T8' => 'lonja', 'Lj2P963T15' => 'lonja', 'Lj3g0011788' => 'lja', 'Lj4g0025027' => 'lja', 'Lj5P255T36' => 'lonja', 'Lj6g0018866' => 'lja', 'Lj6P608T31' => 'lonja', 'LjContig00408g0008879' => 'lja', 'Lsat_1_v5_gn_5_105820' => 'lsa', 'Lsat_1_v5_gn_6_38800' => 'lsa', 'Lsat_1_v5_gn_7_67141' => 'lsa', 'Manes.04G003400' => 'mes', 'Manes.07G020000' => 'mes', 'Manes.07G020100' => 'mes', 'Manes.07G020150' => 'mes', 'Manes.10G061500' => 'mes', 'Manes.10G123200' => 'mes', 'Manes.11G161900' => 'mes', 'Manes.15G029300' => 'mes', 'Mapoly0071s0018' => 'mpo', 'Mapoly0082s0023' => 'mpo', 'Mapoly3477s0001' => 'mpo', 'MBI05_g31233_MAGBIO' => 'mbi', 'MBI09_g05946_MAGBIO' => 'mbi', 'MBI09_g05947_MAGBIO' => 'mbi', 'MBI17_g08346_MAGBIO' => 'mbi', 'MCO04G038' => 'mco', 'MCO09G370' => 'mco', 'MCO13G605' => 'mco', 'MD00G1075500' => 'mdo', 'MD03G1144300' => 'mdo', 'MD08G1236800' => 'mdo', 'MD13G1193300' => 'mdo', 'MD15G1428700' => 'mdo', 'Medtr1g112030' => 'mtr', 'Medtr1g112050' => 'mtr', 'Medtr2g006290' => 'mtr', 'Medtr2g086510' => 'mtr', 'Medtr4g053120' => 'mtr', 'Medtr5g006320' => 'mtr', 'Medtr8g088720' => 'mtr', 'MELO3C004712.2' => 'cme', 'MELO3C006533.2' => 'cme', 'MELO3C019438.2' => 'cme', 'MELO3C019440.2' => 'cme', 'MELO3C019441.2' => 'cme', 'MELO3C019895.2' => 'cme', 'Migut.B00811' => 'egut', 'Migut.D02447' => 'egut', 'Migut.F00875' => 'egut', 'Migut.N00186' => 'egut', 'Migut.N01051' => 'egut', 'Migut.N02491' => 'egut', 'Migut.O00784' => 'egut', 'MSTRG.12367' => 'ama', 'MSTRG.18756' => 'ama', 'MSTRG.21042' => 'ama', 'Nitab4.5_0000559g0040' => 'nta', 'Nitab4.5_0000667g0190' => 'nta', 'Nitab4.5_0000755g0160' => 'nta', 'Nitab4.5_0001216g0080' => 'nta', 'Nitab4.5_0004069g0040' => 'nta', 'Nitab4.5_0004129g0010' => 'nta', 'Nitab4.5_0005744g0030' => 'nta', 'Nitab4.5_0006996g0030' => 'nta', 'Nitab4.5_0008971g0040' => 'nta', 'Nitab4.5_0009769g0020' => 'nta', 'Nitab4.5_0009833g0010' => 'nta', 'Nitab4.5_0013140g0020' => 'nta', 'Nn003s41376' => 'nnu', 'Nn1g01857' => 'nnu', 'Nn1g03611' => 'nnu', 'Nn1g06853' => 'nnu', 'Nn3g18360' => 'nnu', 'Nn4g26328' => 'nnu', 'Nn5g27531' => 'nnu', 'Nn6g34899' => 'nnu', 'Nn7g36299' => 'nnu', 'Oeu021485.1' => 'oeu', 'Oeu022433.1' => 'oeu', 'Oeu032111.1' => 'oeu', 'Oeu051608.1' => 'oeu', 'Os01g0860601' => 'osa', 'Os03g0659200' => 'osa', 'Os03g0835900' => 'osa', 'Os04g0412200' => 'osa', 'Os05g0443500' => 'osa', 'Os07g0251500' => 'osa', 'Os08g0104600' => 'osa', 'Peaxi162Scf00003g00047' => 'pax', 'Peaxi162Scf00003g00052' => 'pax', 'Peaxi162Scf00003g00394' => 'pax', 'Peaxi162Scf00091g00621' => 'pax', 'Peaxi162Scf00152g00146' => 'pax', 'Peaxi162Scf00173g00025' => 'pax', 'Peaxi162Scf00195g00102' => 'pax', 'Peaxi162Scf00402g00013' => 'pax', 'Peaxi162Scf00519g00618' => 'pax', 'PGR004G2838' => 'pgr', 'PGR044G2275' => 'pgr', 'PGR102G1377' => 'pgr', 'PGR119G1245' => 'pgr', 'PGR142G4449' => 'pgr', 'PGSC0003DMG400004532' => 'stu', 'PGSC0003DMG400011950' => 'stu', 'PGSC0003DMG400023391' => 'stu', 'PGSC0003DMG400023985' => 'stu', 'PGSC0003DMG400026360' => 'stu', 'PGSC0003DMG400035711' => 'stu', 'PGSC0003DMG400037286' => 'stu', 'PGSC0003DMG402005881' => 'stu', 'Phvul.002G045400' => 'pvu', 'Phvul.006G216600' => 'pvu', 'Phvul.006G216700' => 'pvu', 'Phvul.006G216800' => 'pvu', 'Phvul.007G022500' => 'pvu', 'Phvul.011G094400' => 'pvu', 'Potri.001G470700' => 'ptr', 'Potri.003G015200' => 'ptr', 'Potri.004G202500' => 'ptr', 'Potri.004G218400' => 'ptr', 'Potri.008G020100' => 'ptr', 'Potri.008G153200' => 'ptr', 'Potri.009G163800' => 'ptr', 'Potri.010G087300' => 'ptr', 'Potri.010G239100' => 'ptr', 'Pp3c10_16100' => 'ppa', 'Pp3c10_16880' => 'ppa', 'Pp3c16_6230' => 'ppa', 'Pp3c17_18910' => 'ppa', 'Pp3c3_22119' => 'ppa', 'Pp3c3_22140' => 'ppa', 'Pp3c4_8159' => 'ppa', 'Pp3c4_8171' => 'ppa', 'Pp3c4_8330' => 'ppa', 'PRCOL_00004098' => 'pco', 'Prupe.1G013900' => 'ppe', 'Prupe.1G226300' => 'ppe', 'Prupe.1G573600' => 'ppe', 'Prupe.6G130100' => 'ppe', 'Psat3g090040' => 'psa', 'Psat4g210440' => 'psa', 'Psat6g231040' => 'psa', 'Psat6g231080' => 'psa', 'Psat7g063000' => 'psa', 'Psat7g188000' => 'psa', 'Psat7g188040' => 'psa', 'PSO017G0206' => 'pso', 'PSO170G0501' => 'pso', 'PSO170G6422' => 'pso', 'PSO210G7739' => 'pso', 'PSO339G1808' => 'pso', 'PSO339G6135' => 'pso', 'PSO384G0010' => 'pso', 'PSO384G0964' => 'pso', 'PSO761G0050' => 'pso', 'PSO782G4085' => 'pso', 'QL01p012264' => 'qlo', 'QL02p099491' => 'qlo', 'QL03p033868' => 'qlo', 'QL04p046678' => 'qlo', 'QL06p002448' => 'qlo', 'RcHm_v2.0_Chr4g0416181' => 'rch', 'RcHm_v2.0_Chr5g0044701' => 'rch', 'RcHm_v2.0_Chr6g0265781' => 'rch', 'RcHm_v2.0_Chr7g0221031' => 'rch', 'Rhsim04G0202000' => 'rsi', 'Rhsim11G0127300' => 'rsi', 'Rhsim13G0111800' => 'rsi', 'Sabra01G0165600' => 'sbr', 'Sabra03G0008300' => 'sbr', 'Sabra04G0136900' => 'sbr', 'Sabra08G0013400' => 'sbr', 'Sabra08G0116800' => 'sbr', 'Sabra09G0128000' => 'sbr', 'Sabra10G0055500' => 'sbr', 'Sabra10G0073300' => 'sbr', 'SalBow3G0385' => 'sbo', 'SalBow3G1119' => 'sbo', 'SalBow3G2005' => 'sbo', 'SalBow6G2563' => 'sbo', 'SalBow6G6386' => 'sbo', 'Sc06g0008800' => 'sci', 'Sc07g0004950' => 'sci', 'Sc09g0005340' => 'sci', 'Sc13g0004410' => 'sci', 'Sc21g0007090' => 'sci', 'Sed0009285' => 'sed', 'Sed0017583' => 'sed', 'Sed0019699' => 'sed', 'Sed0023107' => 'sed', 'SEGI_10916' => 'sgi', 'SEGI_16217' => 'sgi', 'SEGI_19466' => 'sgi', 'SEGI_41115' => 'sgi', 'SGA_v2.0_scaffold111G31534' => 'sas', 'SGA_v2.0_scaffold22G09864' => 'sas', 'SGA_v2.0_scaffold338G49219' => 'sas', 'SGA_v2.0_scaffold92G28298' => 'sas', 'SMO119G0064' => 'smo', 'SMO223G0038' => 'smo', 'SMO347G0584' => 'smo', 'SMO351G0010' => 'smo', 'SMO356G0404' => 'smo', 'Solyc01g103920.3' => 'sly', 'Solyc04g009710.2' => 'sly', 'Solyc05g055280.2' => 'sly', 'Solyc10g044520.3' => 'sly', 'Solyc10g075160.1' => 'sly', 'Solyc11g006910.3' => 'sly', 'Solyc11g068430.3' => 'sly', 'Sopen01g046310' => 'spe', 'Sopen03g001200' => 'spe', 'Sopen04g004830' => 'spe', 'Sopen05g033720' => 'spe', 'Sopen06g030740' => 'spe', 'Sopen10g013090' => 'spe', 'Sopen10g027630' => 'spe', 'Sopen10g027640' => 'spe', 'Sopen11g002820' => 'spe', 'Sopen11g027140' => 'spe', 'Sp1g09680' => 'spa', 'Sp2g03630' => 'spa', 'Sp4g10320' => 'spa', 'Sp6g33400' => 'spa', 'Sp7g13030' => 'spa', 'TAR365G0317' => 'tar', 'TAR376G0979' => 'tar', 'TAR623G1665' => 'tar', 'TAR633G2373' => 'tar', 'TAR636G1400' => 'tar', 'THA.LOC104800529' => 'tha', 'THA.LOC104808547' => 'tha', 'THA.LOC104809615' => 'tha', 'THA.LOC104815724' => 'tha', 'THA.LOC104818480' => 'tha', 'THA.LOC104819179' => 'tha', 'THA.LOC104822270' => 'tha', 'THA.LOC104826425' => 'tha', 'Thecc.02G089700' => 'tca', 'Thecc.04G232300' => 'tca', 'Thecc.09G283400' => 'tca', 'Thhalv10009020m.g' => 'esa', 'Thhalv10015506m.g' => 'esa', 'Thhalv10017364m.g' => 'esa', 'Thhalv10023742m.g' => 'esa', 'Thhalv10026483m.g' => 'esa', 'TPR.G17232' => 'tpr', 'TPR.G2133' => 'tpr', 'TPR.G2498' => 'tpr', 'TPR.G31942' => 'tpr', 'TPR.G37877' => 'tpr', 'TPR.G4571' => 'tpr', 'TWI14G1113' => 'twi', 'TWI15G0426' => 'twi', 'TWI31G1005' => 'twi', 'TWI38G0513' => 'twi', 'TWI38G1484' => 'twi', 'TWI73G1098' => 'twi', 'unitig_26.g10519' => 'ugi', 'unitig_736.g22395' => 'ugi', 'unitig_747.g21234' => 'ugi', 'unitig_747.g21942' => 'ugi', 'vmacro14351' => 'vma', 'VMungo0540G0082' => 'vmu', 'VMungo0540G0405' => 'vmu', 'VMungo0540G1486' => 'vmu', 'VMungo0540G1692' => 'vmu', 'VMungo0720G2473' => 'vmu', 'VMungo1127G1562' => 'vmu', 'VMungo1215G1918' => 'vmu', 'Zm00001eb052650' => 'zma', 'Zm00001eb063710' => 'zma', 'Zm00001eb083950' => 'zma', 'Zm00001eb174420' => 'zma', 'Zm00001eb260140' => 'zma', 'Zm00001eb260150' => 'zma', 'Zm00001eb260160' => 'zma', 'Zm00001eb348290' => 'zma', 'Zm00001eb366870' => 'zma', 'Zm00001eb421930' => 'zma' ), 'gf_id' => 'HOM05D001025', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001025' ), 'data_identifier' => 'HOM05D001025', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001025', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '592', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p22650' => 'bna', 'A01p29720' => 'bna', 'A03p26560' => 'bna', 'A03p68820' => 'bna', 'A04p20980' => 'bna', 'A06p07730' => 'bna', 'A07p18260' => 'bna', 'A08p33710' => 'bna', 'A09p16970' => 'bna', 'A10p27490' => 'bna', 'Aa31LG1G17300' => 'aar', 'Aa31LG1G3910' => 'aar', 'Aa31LG2G9630' => 'aar', 'Aa31LG5G8360' => 'aar', 'Aa31LG9G2410' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4699' => 'aag', 'Actinidia23512' => 'ach', 'Actinidia37080' => 'ach', 'Ah.01g020380' => 'amhyb', 'Ah.08g215710' => 'amhyb', 'Ah.09g225110' => 'amhyb', 'Ah.10g036680' => 'amhyb', 'AL1G21940' => 'aly', 'AL2G15540' => 'aly', 'AL4G21520' => 'aly', 'AL7G40960' => 'aly', 'Aqoxy2G01191' => 'aox', 'Aqoxy2G03393' => 'aox', 'Aqoxy4G02775' => 'aox', 'Aqoxy6G00058' => 'aox', 'arahy.Tifrunner.gnm1.ann1.9X74H2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CW3FX9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R485W7' => 'arhy', 'AT1G10960' => 'ath', 'AT1G60950' => 'ath', 'AT2G27510' => 'ath', 'AT4G14890' => 'ath', 'AT5G10000' => 'ath', 'ATR0665G624' => 'atr', 'ATR0697G138' => 'atr', 'ATR0776G046' => 'atr', 'ATR1134G135' => 'atr', 'Atru.chr12.1025' => 'acertr', 'Atru.chr3.3241' => 'acertr', 'Atru.chr4.2460' => 'acertr', 'AUR62007427' => 'cqu', 'AUR62010960' => 'cqu', 'AUR62012201' => 'cqu', 'AUR62021470' => 'cqu', 'AUR62022834' => 'cqu', 'AUR62033635' => 'cqu', 'AUR62036186' => 'cqu', 'BcaB01g03077' => 'bca', 'BcaB02g10093' => 'bca', 'BcaB04g20295' => 'bca', 'BcaB06g28147' => 'bca', 'BcaB07g31253' => 'bca', 'BcaC01g04946' => 'bca', 'BcaC02g10614' => 'bca', 'BcaC02g10885' => 'bca', 'BcaC04g19356' => 'bca', 'BcaC04g22297' => 'bca', 'BcaC05g24977' => 'bca', 'BcaC06g31823' => 'bca', 'BcaC07g38633' => 'bca', 'BcaC09g49353' => 'bca', 'BcaC09g50168' => 'bca', 'BcaNung00322' => 'bca', 'BcaNung04769' => 'bca', 'BolC1t02753H' => 'bol', 'BolC1t03721H' => 'bol', 'BolC3t15525H' => 'bol', 'BolC4t23903H' => 'bol', 'BolC4t24231H' => 'bol', 'BolC4t27209H' => 'bol', 'BolC5t29671H' => 'bol', 'BolC8t49044H' => 'bol', 'BolC9t54999H' => 'bol', 'BolC9t59517H' => 'bol', 'BraA01t02178Z' => 'bra', 'BraA01t03099Z' => 'bra', 'BraA03t11867Z' => 'bra', 'BraA04t17667Z' => 'bra', 'BraA07t29542Z' => 'bra', 'BraA08t35287Z' => 'bra', 'BraA09t37334Z' => 'bra', 'BraA10t44801Z' => 'bra', 'BraSC39t46181Z' => 'bra', 'C01p28240' => 'bna', 'C01p37530' => 'bna', 'C03p31820' => 'bna', 'C04p24080' => 'bna', 'C04p25790' => 'bna', 'C04p56770' => 'bna', 'C05p09310' => 'bna', 'C09p21010' => 'bna', 'C09p67560' => 'bna', 'CAN.G1324.7' => 'can', 'CAN.G1358.10' => 'can', 'CAN.G1550.2' => 'can', 'CAN.G186.56' => 'can', 'CAN.G1965.1' => 'can', 'CAN.G645.15' => 'can', 'CAN.G798.26' => 'can', 'CAN.G798.27' => 'can', 'CAN.G798.29' => 'can', 'CAN.G919.31' => 'can', 'CANSAT11G0133' => 'cansat', 'CANSAT11G1171' => 'cansat', 'CANSAT11G2056' => 'cansat', 'CANSAT56G1202' => 'cansat', 'CANSAT56G1514' => 'cansat', 'CANSAT78G0455' => 'cansat', 'CARHR011190' => 'chi', 'CARHR051980' => 'chi', 'CARHR120170' => 'chi', 'CARHR203310' => 'chi', 'CARHR221490' => 'chi', 'Carub.0001s1054' => 'cru', 'Carub.0002s0431' => 'cru', 'Carub.0004s0818' => 'cru', 'Carub.0006s0846' => 'cru', 'Carub.0007s2722' => 'cru', 'Ca_00058_v3' => 'car', 'Ca_17831_v3' => 'car', 'Ca_19408_v3' => 'car', 'Ca_24397_v3' => 'car', 'Ca_25664_v3' => 'car', 'CBR_g21818' => 'cbr', 'CBR_g31195' => 'cbr', 'CBR_g32282' => 'cbr', 'CBR_g39599' => 'cbr', 'CBR_g49410' => 'cbr', 'Cc01_g09120' => 'ccan', 'Cc01_g09130' => 'ccan', 'Cc02_g09630' => 'ccan', 'Cc02_g22810' => 'ccan', 'Cc03_g03810' => 'ccan', 'CDE02G3718' => 'cde', 'CDE04G3183' => 'cde', 'CDE07G1046' => 'cde', 'CDE08G0480' => 'cde', 'Cfa005493' => 'cfa', 'Cfa010312' => 'cfa', 'Cfa015648' => 'cfa', 'Ciclev10002793m.g' => 'ccl', 'Ciclev10003356m.g' => 'ccl', 'Ciclev10006141m.g' => 'ccl', 'Ciclev10016676m.g' => 'ccl', 'Ciclev10017081m.g' => 'ccl', 'Ciclev10029499m.g' => 'ccl', 'CiPaw.01G166300' => 'cil', 'CiPaw.06G145600' => 'cil', 'CiPaw.13G040100' => 'cil', 'CiPaw.13G135800' => 'cil', 'ClCG01G012230' => 'cla', 'ClCG05G009510' => 'cla', 'ClCG08G008270' => 'cla', 'COL.COLO4_11763' => 'col', 'COL.COLO4_19876' => 'col', 'COL.COLO4_21481' => 'col', 'Cpa.g.sc118.34' => 'cpa', 'Cpa.g.sc32.13' => 'cpa', 'Cpa.g.sc58.103' => 'cpa', 'Cre03.g183850' => 'cre', 'Cre06.g306350' => 'cre', 'Cre07.g334800' => 'cre', 'Cre12.g487900' => 'cre', 'Cre14.g626700' => 'cre', 'Cre16.g658400' => 'cre', 'Cre17.g700950' => 'cre', 'CsaV3_1G014830' => 'csa', 'CsaV3_3G013320' => 'csa', 'CsaV3_3G019210' => 'csa', 'CsaV3_3G019220' => 'csa', 'CsaV3_6G004230' => 'csa', 'CSS0003773' => 'camsi', 'CSS0004563' => 'camsi', 'CSS0013949' => 'camsi', 'CSS0025971' => 'camsi', 'CSS0028570' => 'camsi', 'CSS0033127' => 'camsi', 'CSS0036051' => 'camsi', 'CSS0040087' => 'camsi', 'CSS0043179' => 'camsi', 'DCAR_006161' => 'dca', 'DCAR_010351' => 'dca', 'DCAR_012197' => 'dca', 'DCAR_024162' => 'dca', 'Dinv01030' => 'din', 'Dinv10924' => 'din', 'Dinv11835' => 'din', 'Dinv22841' => 'din', 'Dinv42553' => 'din', 'Duzib052G0560' => 'dzi', 'Duzib132G0389' => 'dzi', 'Duzib150G1181' => 'dzi', 'Duzib168G0623' => 'dzi', 'Duzib170G1036' => 'dzi', 'Duzib212G0200' => 'dzi', 'Duzib248G0194' => 'dzi', 'ECA232G2193' => 'eca', 'ECA233G0302' => 'eca', 'ECA234G2813' => 'eca', 'ECA234G4866' => 'eca', 'ECA240G3932' => 'eca', 'ECA248G0385' => 'eca', 'EL10Ac2g04781' => 'bvu', 'EL10Ac3g06445' => 'bvu', 'EL10Ac7g15825' => 'bvu', 'EL10Ac8g18550' => 'bvu', 'Eucgr.B03849' => 'egr', 'Eucgr.I02744' => 'egr', 'Eucgr.J00264' => 'egr', 'Eucgr.J00493' => 'egr', 'FAN04G2181' => 'fan', 'FAN07G2666' => 'fan', 'FAN11G0024' => 'fan', 'FAN12G1105' => 'fan', 'FAN13G0302' => 'fan', 'FAN15G2781' => 'fan', 'FAN16G1274' => 'fan', 'FAN17G2988' => 'fan', 'FAN18G2621' => 'fan', 'FAN21G0013' => 'fan', 'FAN22G1211' => 'fan', 'FAN25G3626' => 'fan', 'FvH4_2g09491' => 'fve', 'FvH4_3g24910' => 'fve', 'FvH4_4g15630' => 'fve', 'FvH4_5g28820' => 'fve', 'Glyma.01G238000' => 'gma', 'Glyma.05G168400' => 'gma', 'Glyma.08G126800' => 'gma', 'Glyma.08G188500' => 'gma', 'Glyma.10G278900' => 'gma', 'Glyma.11G005700' => 'gma', 'Glyma.11G183300' => 'gma', 'Glyma.12G089200' => 'gma', 'Glyma.12G169400' => 'gma', 'Glyma.12G169500' => 'gma', 'Glyma.12G169600' => 'gma', 'Glyma.20G110800' => 'gma', 'Gohir.A03G192900' => 'ghi', 'Gohir.A03G193000' => 'ghi', 'Gohir.A05G080700' => 'ghi', 'Gohir.A09G216000' => 'ghi', 'Gohir.A12G027700' => 'ghi', 'Gohir.A13G036200' => 'ghi', 'Gohir.A13G222600' => 'ghi', 'Gohir.D02G213900' => 'ghi', 'Gohir.D02G214000' => 'ghi', 'Gohir.D05G083700' => 'ghi', 'Gohir.D05G083800' => 'ghi', 'Gohir.D05G083850' => 'ghi', 'Gohir.D08G015400' => 'ghi', 'Gohir.D09G218400' => 'ghi', 'Gohir.D12G027100' => 'ghi', 'Gohir.D13G034500' => 'ghi', 'Gohir.D13G227400' => 'ghi', 'Gorai.005G241800' => 'gra', 'Gorai.005G241900' => 'gra', 'Gorai.006G239400' => 'gra', 'Gorai.008G027600' => 'gra', 'Gorai.009G085400' => 'gra', 'Gorai.009G085500' => 'gra', 'Gorai.013G039000' => 'gra', 'Gorai.013G194800' => 'gra', 'Gorai.013G257900' => 'gra', 'GSVIVG01000982001' => 'vvi', 'GSVIVG01017981001' => 'vvi', 'HanXRQChr01g0024061' => 'han', 'HanXRQChr09g0247831' => 'han', 'HanXRQChr10g0294611' => 'han', 'HanXRQChr10g0294621' => 'han', 'HanXRQChr11g0346821' => 'han', 'HanXRQChr13g0397461' => 'han', 'HanXRQChr16g0513651' => 'han', 'HanXRQChr16g0513701' => 'han', 'Haze_00897' => 'cav', 'Haze_01745' => 'cav', 'Haze_02486' => 'cav', 'Haze_02487' => 'cav', 'Haze_23374' => 'cav', 'Hma1.2p1_0578F.1_g182520' => 'hma', 'Hma1.2p1_0602F.1_g187350' => 'hma', 'Hma1.2p1_0602F.1_g187360' => 'hma', 'Hma1.2p1_0874F.1_g231320' => 'hma', 'Hma1.2p1_1197F.1_g266210' => 'hma', 'Hma1.2p1_1197F.1_g266220' => 'hma', 'Hma1.2p1_2167F.1_g315895' => 'hma', 'Hma1.2p1_2190F.1_g316640' => 'hma', 'Hma1.2p1_3645F.1_g337153' => 'hma', 'HPP92_004907' => 'vpl', 'HPP92_012134' => 'vpl', 'HPP92_025136' => 'vpl', 'HPP92_026087' => 'vpl', 'Hund06782' => 'sun', 'Hund06784' => 'sun', 'Lalb_Chr01g0004861' => 'lal', 'Lalb_Chr02g0140591' => 'lal', 'Lalb_Chr02g0140611' => 'lal', 'Lalb_Chr03g0028101' => 'lal', 'Lalb_Chr07g0185791' => 'lal', 'Lalb_Chr12g0204491' => 'lal', 'Lalb_Chr13g0295671' => 'lal', 'Lalb_Chr19g0136461' => 'lal', 'Lalb_Chr21g0309191' => 'lal', 'Lj1g0028158' => 'lja', 'Lj1P236T38' => 'lonja', 'Lj2C32G2' => 'lonja', 'Lj2P944T8' => 'lonja', 'Lj2P963T15' => 'lonja', 'Lj3g0011788' => 'lja', 'Lj4g0025027' => 'lja', 'Lj5P255T36' => 'lonja', 'Lj6g0018866' => 'lja', 'Lj6P608T31' => 'lonja', 'LjContig00408g0008879' => 'lja', 'Lsat_1_v5_gn_5_105820' => 'lsa', 'Lsat_1_v5_gn_6_38800' => 'lsa', 'Lsat_1_v5_gn_7_67141' => 'lsa', 'Manes.04G003400' => 'mes', 'Manes.07G020000' => 'mes', 'Manes.07G020100' => 'mes', 'Manes.07G020150' => 'mes', 'Manes.10G061500' => 'mes', 'Manes.10G123200' => 'mes', 'Manes.11G161900' => 'mes', 'Manes.15G029300' => 'mes', 'Mapoly0071s0018' => 'mpo', 'Mapoly0082s0023' => 'mpo', 'Mapoly3477s0001' => 'mpo', 'MBI05_g31233_MAGBIO' => 'mbi', 'MBI09_g05946_MAGBIO' => 'mbi', 'MBI09_g05947_MAGBIO' => 'mbi', 'MBI17_g08346_MAGBIO' => 'mbi', 'MCO04G038' => 'mco', 'MCO09G370' => 'mco', 'MCO13G605' => 'mco', 'MD00G1075500' => 'mdo', 'MD03G1144300' => 'mdo', 'MD08G1236800' => 'mdo', 'MD13G1193300' => 'mdo', 'MD15G1428700' => 'mdo', 'Medtr1g112030' => 'mtr', 'Medtr1g112050' => 'mtr', 'Medtr2g006290' => 'mtr', 'Medtr2g086510' => 'mtr', 'Medtr4g053120' => 'mtr', 'Medtr5g006320' => 'mtr', 'Medtr8g088720' => 'mtr', 'MELO3C004712.2' => 'cme', 'MELO3C006533.2' => 'cme', 'MELO3C019438.2' => 'cme', 'MELO3C019440.2' => 'cme', 'MELO3C019441.2' => 'cme', 'MELO3C019895.2' => 'cme', 'Migut.B00811' => 'egut', 'Migut.D02447' => 'egut', 'Migut.F00875' => 'egut', 'Migut.N00186' => 'egut', 'Migut.N01051' => 'egut', 'Migut.N02491' => 'egut', 'Migut.O00784' => 'egut', 'MSTRG.12367' => 'ama', 'MSTRG.18756' => 'ama', 'MSTRG.21042' => 'ama', 'Nitab4.5_0000559g0040' => 'nta', 'Nitab4.5_0000667g0190' => 'nta', 'Nitab4.5_0000755g0160' => 'nta', 'Nitab4.5_0001216g0080' => 'nta', 'Nitab4.5_0004069g0040' => 'nta', 'Nitab4.5_0004129g0010' => 'nta', 'Nitab4.5_0005744g0030' => 'nta', 'Nitab4.5_0006996g0030' => 'nta', 'Nitab4.5_0008971g0040' => 'nta', 'Nitab4.5_0009769g0020' => 'nta', 'Nitab4.5_0009833g0010' => 'nta', 'Nitab4.5_0013140g0020' => 'nta', 'Nn003s41376' => 'nnu', 'Nn1g01857' => 'nnu', 'Nn1g03611' => 'nnu', 'Nn1g06853' => 'nnu', 'Nn3g18360' => 'nnu', 'Nn4g26328' => 'nnu', 'Nn5g27531' => 'nnu', 'Nn6g34899' => 'nnu', 'Nn7g36299' => 'nnu', 'Oeu021485.1' => 'oeu', 'Oeu022433.1' => 'oeu', 'Oeu032111.1' => 'oeu', 'Oeu051608.1' => 'oeu', 'Os01g0860601' => 'osa', 'Os03g0659200' => 'osa', 'Os03g0835900' => 'osa', 'Os04g0412200' => 'osa', 'Os05g0443500' => 'osa', 'Os07g0251500' => 'osa', 'Os08g0104600' => 'osa', 'Peaxi162Scf00003g00047' => 'pax', 'Peaxi162Scf00003g00052' => 'pax', 'Peaxi162Scf00003g00394' => 'pax', 'Peaxi162Scf00091g00621' => 'pax', 'Peaxi162Scf00152g00146' => 'pax', 'Peaxi162Scf00173g00025' => 'pax', 'Peaxi162Scf00195g00102' => 'pax', 'Peaxi162Scf00402g00013' => 'pax', 'Peaxi162Scf00519g00618' => 'pax', 'PGR004G2838' => 'pgr', 'PGR044G2275' => 'pgr', 'PGR102G1377' => 'pgr', 'PGR119G1245' => 'pgr', 'PGR142G4449' => 'pgr', 'PGSC0003DMG400004532' => 'stu', 'PGSC0003DMG400011950' => 'stu', 'PGSC0003DMG400023391' => 'stu', 'PGSC0003DMG400023985' => 'stu', 'PGSC0003DMG400026360' => 'stu', 'PGSC0003DMG400035711' => 'stu', 'PGSC0003DMG400037286' => 'stu', 'PGSC0003DMG402005881' => 'stu', 'Phvul.002G045400' => 'pvu', 'Phvul.006G216600' => 'pvu', 'Phvul.006G216700' => 'pvu', 'Phvul.006G216800' => 'pvu', 'Phvul.007G022500' => 'pvu', 'Phvul.011G094400' => 'pvu', 'Potri.001G470700' => 'ptr', 'Potri.003G015200' => 'ptr', 'Potri.004G202500' => 'ptr', 'Potri.004G218400' => 'ptr', 'Potri.008G020100' => 'ptr', 'Potri.008G153200' => 'ptr', 'Potri.009G163800' => 'ptr', 'Potri.010G087300' => 'ptr', 'Potri.010G239100' => 'ptr', 'Pp3c10_16100' => 'ppa', 'Pp3c10_16880' => 'ppa', 'Pp3c16_6230' => 'ppa', 'Pp3c17_18910' => 'ppa', 'Pp3c3_22119' => 'ppa', 'Pp3c3_22140' => 'ppa', 'Pp3c4_8159' => 'ppa', 'Pp3c4_8171' => 'ppa', 'Pp3c4_8330' => 'ppa', 'PRCOL_00004098' => 'pco', 'Prupe.1G013900' => 'ppe', 'Prupe.1G226300' => 'ppe', 'Prupe.1G573600' => 'ppe', 'Prupe.6G130100' => 'ppe', 'Psat3g090040' => 'psa', 'Psat4g210440' => 'psa', 'Psat6g231040' => 'psa', 'Psat6g231080' => 'psa', 'Psat7g063000' => 'psa', 'Psat7g188000' => 'psa', 'Psat7g188040' => 'psa', 'PSO017G0206' => 'pso', 'PSO170G0501' => 'pso', 'PSO170G6422' => 'pso', 'PSO210G7739' => 'pso', 'PSO339G1808' => 'pso', 'PSO339G6135' => 'pso', 'PSO384G0010' => 'pso', 'PSO384G0964' => 'pso', 'PSO761G0050' => 'pso', 'PSO782G4085' => 'pso', 'QL01p012264' => 'qlo', 'QL02p099491' => 'qlo', 'QL03p033868' => 'qlo', 'QL04p046678' => 'qlo', 'QL06p002448' => 'qlo', 'RcHm_v2.0_Chr4g0416181' => 'rch', 'RcHm_v2.0_Chr5g0044701' => 'rch', 'RcHm_v2.0_Chr6g0265781' => 'rch', 'RcHm_v2.0_Chr7g0221031' => 'rch', 'Rhsim04G0202000' => 'rsi', 'Rhsim11G0127300' => 'rsi', 'Rhsim13G0111800' => 'rsi', 'Sabra01G0165600' => 'sbr', 'Sabra03G0008300' => 'sbr', 'Sabra04G0136900' => 'sbr', 'Sabra08G0013400' => 'sbr', 'Sabra08G0116800' => 'sbr', 'Sabra09G0128000' => 'sbr', 'Sabra10G0055500' => 'sbr', 'Sabra10G0073300' => 'sbr', 'SalBow3G0385' => 'sbo', 'SalBow3G1119' => 'sbo', 'SalBow3G2005' => 'sbo', 'SalBow6G2563' => 'sbo', 'SalBow6G6386' => 'sbo', 'Sc06g0008800' => 'sci', 'Sc07g0004950' => 'sci', 'Sc09g0005340' => 'sci', 'Sc13g0004410' => 'sci', 'Sc21g0007090' => 'sci', 'Sed0009285' => 'sed', 'Sed0017583' => 'sed', 'Sed0019699' => 'sed', 'Sed0023107' => 'sed', 'SEGI_10916' => 'sgi', 'SEGI_16217' => 'sgi', 'SEGI_19466' => 'sgi', 'SEGI_41115' => 'sgi', 'SGA_v2.0_scaffold111G31534' => 'sas', 'SGA_v2.0_scaffold22G09864' => 'sas', 'SGA_v2.0_scaffold338G49219' => 'sas', 'SGA_v2.0_scaffold92G28298' => 'sas', 'SMO119G0064' => 'smo', 'SMO223G0038' => 'smo', 'SMO347G0584' => 'smo', 'SMO351G0010' => 'smo', 'SMO356G0404' => 'smo', 'Solyc01g103920.3' => 'sly', 'Solyc04g009710.2' => 'sly', 'Solyc05g055280.2' => 'sly', 'Solyc10g044520.3' => 'sly', 'Solyc10g075160.1' => 'sly', 'Solyc11g006910.3' => 'sly', 'Solyc11g068430.3' => 'sly', 'Sopen01g046310' => 'spe', 'Sopen03g001200' => 'spe', 'Sopen04g004830' => 'spe', 'Sopen05g033720' => 'spe', 'Sopen06g030740' => 'spe', 'Sopen10g013090' => 'spe', 'Sopen10g027630' => 'spe', 'Sopen10g027640' => 'spe', 'Sopen11g002820' => 'spe', 'Sopen11g027140' => 'spe', 'Sp1g09680' => 'spa', 'Sp2g03630' => 'spa', 'Sp4g10320' => 'spa', 'Sp6g33400' => 'spa', 'Sp7g13030' => 'spa', 'TAR365G0317' => 'tar', 'TAR376G0979' => 'tar', 'TAR623G1665' => 'tar', 'TAR633G2373' => 'tar', 'TAR636G1400' => 'tar', 'THA.LOC104800529' => 'tha', 'THA.LOC104808547' => 'tha', 'THA.LOC104809615' => 'tha', 'THA.LOC104815724' => 'tha', 'THA.LOC104818480' => 'tha', 'THA.LOC104819179' => 'tha', 'THA.LOC104822270' => 'tha', 'THA.LOC104826425' => 'tha', 'Thecc.02G089700' => 'tca', 'Thecc.04G232300' => 'tca', 'Thecc.09G283400' => 'tca', 'Thhalv10009020m.g' => 'esa', 'Thhalv10015506m.g' => 'esa', 'Thhalv10017364m.g' => 'esa', 'Thhalv10023742m.g' => 'esa', 'Thhalv10026483m.g' => 'esa', 'TPR.G17232' => 'tpr', 'TPR.G2133' => 'tpr', 'TPR.G2498' => 'tpr', 'TPR.G31942' => 'tpr', 'TPR.G37877' => 'tpr', 'TPR.G4571' => 'tpr', 'TWI14G1113' => 'twi', 'TWI15G0426' => 'twi', 'TWI31G1005' => 'twi', 'TWI38G0513' => 'twi', 'TWI38G1484' => 'twi', 'TWI73G1098' => 'twi', 'unitig_26.g10519' => 'ugi', 'unitig_736.g22395' => 'ugi', 'unitig_747.g21234' => 'ugi', 'unitig_747.g21942' => 'ugi', 'vmacro14351' => 'vma', 'VMungo0540G0082' => 'vmu', 'VMungo0540G0405' => 'vmu', 'VMungo0540G1486' => 'vmu', 'VMungo0540G1692' => 'vmu', 'VMungo0720G2473' => 'vmu', 'VMungo1127G1562' => 'vmu', 'VMungo1215G1918' => 'vmu', 'Zm00001eb052650' => 'zma', 'Zm00001eb063710' => 'zma', 'Zm00001eb083950' => 'zma', 'Zm00001eb174420' => 'zma', 'Zm00001eb260140' => 'zma', 'Zm00001eb260150' => 'zma', 'Zm00001eb260160' => 'zma', 'Zm00001eb348290' => 'zma', 'Zm00001eb366870' => 'zma', 'Zm00001eb421930' => 'zma' ) $gf_id = 'HOM05D001025' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001025' ) $data_identifier = 'HOM05D001025' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 19, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 2, 'amhyb' => (int) 4, 'aly' => (int) 4, 'aox' => (int) 4, 'arhy' => (int) 3, 'ath' => (int) 5, 'atr' => (int) 4, 'acertr' => (int) 3, 'cqu' => (int) 7, 'bca' => (int) 17, 'bol' => (int) 10, 'bra' => (int) 9, 'can' => (int) 10, 'cansat' => (int) 6, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 5, 'cbr' => (int) 5, 'ccan' => (int) 5, 'cde' => (int) 4, 'cfa' => (int) 3, 'ccl' => (int) 6, 'cil' => (int) 4, 'cla' => (int) 3, 'col' => (int) 3, 'cpa' => (int) 3, 'cre' => (int) 7, 'csa' => (int) 5, 'camsi' => (int) 9, 'dca' => (int) 4, 'din' => (int) 5, 'dzi' => (int) 7, 'eca' => (int) 6, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 12, 'fve' => (int) 4, 'gma' => (int) 12, 'ghi' => (int) 17, 'gra' => (int) 9, 'vvi' => (int) 2, 'han' => (int) 8, 'cav' => (int) 5, 'hma' => (int) 9, 'vpl' => (int) 4, 'sun' => (int) 2, 'lal' => (int) 9, 'lja' => (int) 5, 'lonja' => (int) 6, 'lsa' => (int) 3, 'mes' => (int) 8, 'mpo' => (int) 3, 'mbi' => (int) 4, 'mco' => (int) 3, 'mdo' => (int) 5, 'mtr' => (int) 7, 'cme' => (int) 6, 'egut' => (int) 7, 'ama' => (int) 3, 'nta' => (int) 12, 'nnu' => (int) 9, 'oeu' => (int) 4, 'osa' => (int) 7, 'pax' => (int) 9, 'pgr' => (int) 5, 'stu' => (int) 8, 'pvu' => (int) 6, 'ptr' => (int) 9, 'ppa' => (int) 9, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 7, 'pso' => (int) 10, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 3, 'sbr' => (int) 8, 'sbo' => (int) 5, 'sci' => (int) 5, 'sed' => (int) 4, 'sgi' => (int) 4, 'sas' => (int) 4, 'smo' => (int) 5, 'sly' => (int) 7, 'spe' => (int) 10, 'spa' => (int) 5, 'tar' => (int) 5, 'tha' => (int) 8, 'tca' => (int) 3, 'esa' => (int) 5, 'tpr' => (int) 6, 'twi' => (int) 6, 'ugi' => (int) 4, 'vma' => (int) 1, 'vmu' => (int) 7, 'zma' => (int) 10 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb421930' $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' => 'HOM05D001025', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '592', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p22650' => 'bna', 'A01p29720' => 'bna', 'A03p26560' => 'bna', 'A03p68820' => 'bna', 'A04p20980' => 'bna', 'A06p07730' => 'bna', 'A07p18260' => 'bna', 'A08p33710' => 'bna', 'A09p16970' => 'bna', 'A10p27490' => 'bna', 'Aa31LG1G17300' => 'aar', 'Aa31LG1G3910' => 'aar', 'Aa31LG2G9630' => 'aar', 'Aa31LG5G8360' => 'aar', 'Aa31LG9G2410' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4699' => 'aag', 'Actinidia23512' => 'ach', 'Actinidia37080' => 'ach', 'Ah.01g020380' => 'amhyb', 'Ah.08g215710' => 'amhyb', 'Ah.09g225110' => 'amhyb', 'Ah.10g036680' => 'amhyb', 'AL1G21940' => 'aly', 'AL2G15540' => 'aly', 'AL4G21520' => 'aly', 'AL7G40960' => 'aly', 'Aqoxy2G01191' => 'aox', 'Aqoxy2G03393' => 'aox', 'Aqoxy4G02775' => 'aox', 'Aqoxy6G00058' => 'aox', 'arahy.Tifrunner.gnm1.ann1.9X74H2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CW3FX9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R485W7' => 'arhy', 'AT1G10960' => 'ath', 'AT1G60950' => 'ath', 'AT2G27510' => 'ath', 'AT4G14890' => 'ath', 'AT5G10000' => 'ath', 'ATR0665G624' => 'atr', 'ATR0697G138' => 'atr', 'ATR0776G046' => 'atr', 'ATR1134G135' => 'atr', 'Atru.chr12.1025' => 'acertr', 'Atru.chr3.3241' => 'acertr', 'Atru.chr4.2460' => 'acertr', 'AUR62007427' => 'cqu', 'AUR62010960' => 'cqu', 'AUR62012201' => 'cqu', 'AUR62021470' => 'cqu', 'AUR62022834' => 'cqu', 'AUR62033635' => 'cqu', 'AUR62036186' => 'cqu', 'BcaB01g03077' => 'bca', 'BcaB02g10093' => 'bca', 'BcaB04g20295' => 'bca', 'BcaB06g28147' => 'bca', 'BcaB07g31253' => 'bca', 'BcaC01g04946' => 'bca', 'BcaC02g10614' => 'bca', 'BcaC02g10885' => 'bca', 'BcaC04g19356' => 'bca', 'BcaC04g22297' => 'bca', 'BcaC05g24977' => 'bca', 'BcaC06g31823' => 'bca', 'BcaC07g38633' => 'bca', 'BcaC09g49353' => 'bca', 'BcaC09g50168' => 'bca', 'BcaNung00322' => 'bca', 'BcaNung04769' => 'bca', 'BolC1t02753H' => 'bol', 'BolC1t03721H' => 'bol', 'BolC3t15525H' => 'bol', 'BolC4t23903H' => 'bol', 'BolC4t24231H' => 'bol', 'BolC4t27209H' => 'bol', 'BolC5t29671H' => 'bol', 'BolC8t49044H' => 'bol', 'BolC9t54999H' => 'bol', 'BolC9t59517H' => 'bol', 'BraA01t02178Z' => 'bra', 'BraA01t03099Z' => 'bra', 'BraA03t11867Z' => 'bra', 'BraA04t17667Z' => 'bra', 'BraA07t29542Z' => 'bra', 'BraA08t35287Z' => 'bra', 'BraA09t37334Z' => 'bra', 'BraA10t44801Z' => 'bra', 'BraSC39t46181Z' => 'bra', 'C01p28240' => 'bna', 'C01p37530' => 'bna', 'C03p31820' => 'bna', 'C04p24080' => 'bna', 'C04p25790' => 'bna', 'C04p56770' => 'bna', 'C05p09310' => 'bna', 'C09p21010' => 'bna', 'C09p67560' => 'bna', 'CAN.G1324.7' => 'can', 'CAN.G1358.10' => 'can', 'CAN.G1550.2' => 'can', 'CAN.G186.56' => 'can', 'CAN.G1965.1' => 'can', 'CAN.G645.15' => 'can', 'CAN.G798.26' => 'can', 'CAN.G798.27' => 'can', 'CAN.G798.29' => 'can', 'CAN.G919.31' => 'can', 'CANSAT11G0133' => 'cansat', 'CANSAT11G1171' => 'cansat', 'CANSAT11G2056' => 'cansat', 'CANSAT56G1202' => 'cansat', 'CANSAT56G1514' => 'cansat', 'CANSAT78G0455' => 'cansat', 'CARHR011190' => 'chi', 'CARHR051980' => 'chi', 'CARHR120170' => 'chi', 'CARHR203310' => 'chi', 'CARHR221490' => 'chi', 'Carub.0001s1054' => 'cru', 'Carub.0002s0431' => 'cru', 'Carub.0004s0818' => 'cru', 'Carub.0006s0846' => 'cru', 'Carub.0007s2722' => 'cru', 'Ca_00058_v3' => 'car', 'Ca_17831_v3' => 'car', 'Ca_19408_v3' => 'car', 'Ca_24397_v3' => 'car', 'Ca_25664_v3' => 'car', 'CBR_g21818' => 'cbr', 'CBR_g31195' => 'cbr', 'CBR_g32282' => 'cbr', 'CBR_g39599' => 'cbr', 'CBR_g49410' => 'cbr', 'Cc01_g09120' => 'ccan', 'Cc01_g09130' => 'ccan', 'Cc02_g09630' => 'ccan', 'Cc02_g22810' => 'ccan', 'Cc03_g03810' => 'ccan', 'CDE02G3718' => 'cde', 'CDE04G3183' => 'cde', 'CDE07G1046' => 'cde', 'CDE08G0480' => 'cde', 'Cfa005493' => 'cfa', 'Cfa010312' => 'cfa', 'Cfa015648' => 'cfa', 'Ciclev10002793m.g' => 'ccl', 'Ciclev10003356m.g' => 'ccl', 'Ciclev10006141m.g' => 'ccl', 'Ciclev10016676m.g' => 'ccl', 'Ciclev10017081m.g' => 'ccl', 'Ciclev10029499m.g' => 'ccl', 'CiPaw.01G166300' => 'cil', 'CiPaw.06G145600' => 'cil', 'CiPaw.13G040100' => 'cil', 'CiPaw.13G135800' => 'cil', 'ClCG01G012230' => 'cla', 'ClCG05G009510' => 'cla', 'ClCG08G008270' => 'cla', 'COL.COLO4_11763' => 'col', 'COL.COLO4_19876' => 'col', 'COL.COLO4_21481' => 'col', 'Cpa.g.sc118.34' => 'cpa', 'Cpa.g.sc32.13' => 'cpa', 'Cpa.g.sc58.103' => 'cpa', 'Cre03.g183850' => 'cre', 'Cre06.g306350' => 'cre', 'Cre07.g334800' => 'cre', 'Cre12.g487900' => 'cre', 'Cre14.g626700' => 'cre', 'Cre16.g658400' => 'cre', 'Cre17.g700950' => 'cre', 'CsaV3_1G014830' => 'csa', 'CsaV3_3G013320' => 'csa', 'CsaV3_3G019210' => 'csa', 'CsaV3_3G019220' => 'csa', 'CsaV3_6G004230' => 'csa', 'CSS0003773' => 'camsi', 'CSS0004563' => 'camsi', 'CSS0013949' => 'camsi', 'CSS0025971' => 'camsi', 'CSS0028570' => 'camsi', 'CSS0033127' => 'camsi', 'CSS0036051' => 'camsi', 'CSS0040087' => 'camsi', 'CSS0043179' => 'camsi', 'DCAR_006161' => 'dca', 'DCAR_010351' => 'dca', 'DCAR_012197' => 'dca', 'DCAR_024162' => 'dca', 'Dinv01030' => 'din', 'Dinv10924' => 'din', 'Dinv11835' => 'din', 'Dinv22841' => 'din', 'Dinv42553' => 'din', 'Duzib052G0560' => 'dzi', 'Duzib132G0389' => 'dzi', 'Duzib150G1181' => 'dzi', 'Duzib168G0623' => 'dzi', 'Duzib170G1036' => 'dzi', 'Duzib212G0200' => 'dzi', 'Duzib248G0194' => 'dzi', 'ECA232G2193' => 'eca', 'ECA233G0302' => 'eca', 'ECA234G2813' => 'eca', 'ECA234G4866' => 'eca', 'ECA240G3932' => 'eca', 'ECA248G0385' => 'eca', 'EL10Ac2g04781' => 'bvu', 'EL10Ac3g06445' => 'bvu', 'EL10Ac7g15825' => 'bvu', 'EL10Ac8g18550' => 'bvu', 'Eucgr.B03849' => 'egr', 'Eucgr.I02744' => 'egr', 'Eucgr.J00264' => 'egr', 'Eucgr.J00493' => 'egr', 'FAN04G2181' => 'fan', 'FAN07G2666' => 'fan', 'FAN11G0024' => 'fan', 'FAN12G1105' => 'fan', 'FAN13G0302' => 'fan', 'FAN15G2781' => 'fan', 'FAN16G1274' => 'fan', 'FAN17G2988' => 'fan', 'FAN18G2621' => 'fan', 'FAN21G0013' => 'fan', 'FAN22G1211' => 'fan', 'FAN25G3626' => 'fan', 'FvH4_2g09491' => 'fve', 'FvH4_3g24910' => 'fve', 'FvH4_4g15630' => 'fve', 'FvH4_5g28820' => 'fve', 'Glyma.01G238000' => 'gma', 'Glyma.05G168400' => 'gma', 'Glyma.08G126800' => 'gma', 'Glyma.08G188500' => 'gma', 'Glyma.10G278900' => 'gma', 'Glyma.11G005700' => 'gma', 'Glyma.11G183300' => 'gma', 'Glyma.12G089200' => 'gma', 'Glyma.12G169400' => 'gma', 'Glyma.12G169500' => 'gma', 'Glyma.12G169600' => 'gma', 'Glyma.20G110800' => 'gma', 'Gohir.A03G192900' => 'ghi', 'Gohir.A03G193000' => 'ghi', 'Gohir.A05G080700' => 'ghi', 'Gohir.A09G216000' => 'ghi', 'Gohir.A12G027700' => 'ghi', 'Gohir.A13G036200' => 'ghi', 'Gohir.A13G222600' => 'ghi', 'Gohir.D02G213900' => 'ghi', 'Gohir.D02G214000' => 'ghi', 'Gohir.D05G083700' => 'ghi', 'Gohir.D05G083800' => 'ghi', 'Gohir.D05G083850' => 'ghi', 'Gohir.D08G015400' => 'ghi', 'Gohir.D09G218400' => 'ghi', 'Gohir.D12G027100' => 'ghi', 'Gohir.D13G034500' => 'ghi', 'Gohir.D13G227400' => 'ghi', 'Gorai.005G241800' => 'gra', 'Gorai.005G241900' => 'gra', 'Gorai.006G239400' => 'gra', 'Gorai.008G027600' => 'gra', 'Gorai.009G085400' => 'gra', 'Gorai.009G085500' => 'gra', 'Gorai.013G039000' => 'gra', 'Gorai.013G194800' => 'gra', 'Gorai.013G257900' => 'gra', 'GSVIVG01000982001' => 'vvi', 'GSVIVG01017981001' => 'vvi', 'HanXRQChr01g0024061' => 'han', 'HanXRQChr09g0247831' => 'han', 'HanXRQChr10g0294611' => 'han', 'HanXRQChr10g0294621' => 'han', 'HanXRQChr11g0346821' => 'han', 'HanXRQChr13g0397461' => 'han', 'HanXRQChr16g0513651' => 'han', 'HanXRQChr16g0513701' => 'han', 'Haze_00897' => 'cav', 'Haze_01745' => 'cav', 'Haze_02486' => 'cav', 'Haze_02487' => 'cav', 'Haze_23374' => 'cav', 'Hma1.2p1_0578F.1_g182520' => 'hma', 'Hma1.2p1_0602F.1_g187350' => 'hma', 'Hma1.2p1_0602F.1_g187360' => 'hma', 'Hma1.2p1_0874F.1_g231320' => 'hma', 'Hma1.2p1_1197F.1_g266210' => 'hma', 'Hma1.2p1_1197F.1_g266220' => 'hma', 'Hma1.2p1_2167F.1_g315895' => 'hma', 'Hma1.2p1_2190F.1_g316640' => 'hma', 'Hma1.2p1_3645F.1_g337153' => 'hma', 'HPP92_004907' => 'vpl', 'HPP92_012134' => 'vpl', 'HPP92_025136' => 'vpl', 'HPP92_026087' => 'vpl', 'Hund06782' => 'sun', 'Hund06784' => 'sun', 'Lalb_Chr01g0004861' => 'lal', 'Lalb_Chr02g0140591' => 'lal', 'Lalb_Chr02g0140611' => 'lal', 'Lalb_Chr03g0028101' => 'lal', 'Lalb_Chr07g0185791' => 'lal', 'Lalb_Chr12g0204491' => 'lal', 'Lalb_Chr13g0295671' => 'lal', 'Lalb_Chr19g0136461' => 'lal', 'Lalb_Chr21g0309191' => 'lal', 'Lj1g0028158' => 'lja', 'Lj1P236T38' => 'lonja', 'Lj2C32G2' => 'lonja', 'Lj2P944T8' => 'lonja', 'Lj2P963T15' => 'lonja', 'Lj3g0011788' => 'lja', 'Lj4g0025027' => 'lja', 'Lj5P255T36' => 'lonja', 'Lj6g0018866' => 'lja', 'Lj6P608T31' => 'lonja', 'LjContig00408g0008879' => 'lja', 'Lsat_1_v5_gn_5_105820' => 'lsa', 'Lsat_1_v5_gn_6_38800' => 'lsa', 'Lsat_1_v5_gn_7_67141' => 'lsa', 'Manes.04G003400' => 'mes', 'Manes.07G020000' => 'mes', 'Manes.07G020100' => 'mes', 'Manes.07G020150' => 'mes', 'Manes.10G061500' => 'mes', 'Manes.10G123200' => 'mes', 'Manes.11G161900' => 'mes', 'Manes.15G029300' => 'mes', 'Mapoly0071s0018' => 'mpo', 'Mapoly0082s0023' => 'mpo', 'Mapoly3477s0001' => 'mpo', 'MBI05_g31233_MAGBIO' => 'mbi', 'MBI09_g05946_MAGBIO' => 'mbi', 'MBI09_g05947_MAGBIO' => 'mbi', 'MBI17_g08346_MAGBIO' => 'mbi', 'MCO04G038' => 'mco', 'MCO09G370' => 'mco', 'MCO13G605' => 'mco', 'MD00G1075500' => 'mdo', 'MD03G1144300' => 'mdo', 'MD08G1236800' => 'mdo', 'MD13G1193300' => 'mdo', 'MD15G1428700' => 'mdo', 'Medtr1g112030' => 'mtr', 'Medtr1g112050' => 'mtr', 'Medtr2g006290' => 'mtr', 'Medtr2g086510' => 'mtr', 'Medtr4g053120' => 'mtr', 'Medtr5g006320' => 'mtr', 'Medtr8g088720' => 'mtr', 'MELO3C004712.2' => 'cme', 'MELO3C006533.2' => 'cme', 'MELO3C019438.2' => 'cme', 'MELO3C019440.2' => 'cme', 'MELO3C019441.2' => 'cme', 'MELO3C019895.2' => 'cme', 'Migut.B00811' => 'egut', 'Migut.D02447' => 'egut', 'Migut.F00875' => 'egut', 'Migut.N00186' => 'egut', 'Migut.N01051' => 'egut', 'Migut.N02491' => 'egut', 'Migut.O00784' => 'egut', 'MSTRG.12367' => 'ama', 'MSTRG.18756' => 'ama', 'MSTRG.21042' => 'ama', 'Nitab4.5_0000559g0040' => 'nta', 'Nitab4.5_0000667g0190' => 'nta', 'Nitab4.5_0000755g0160' => 'nta', 'Nitab4.5_0001216g0080' => 'nta', 'Nitab4.5_0004069g0040' => 'nta', 'Nitab4.5_0004129g0010' => 'nta', 'Nitab4.5_0005744g0030' => 'nta', 'Nitab4.5_0006996g0030' => 'nta', 'Nitab4.5_0008971g0040' => 'nta', 'Nitab4.5_0009769g0020' => 'nta', 'Nitab4.5_0009833g0010' => 'nta', 'Nitab4.5_0013140g0020' => 'nta', 'Nn003s41376' => 'nnu', 'Nn1g01857' => 'nnu', 'Nn1g03611' => 'nnu', 'Nn1g06853' => 'nnu', 'Nn3g18360' => 'nnu', 'Nn4g26328' => 'nnu', 'Nn5g27531' => 'nnu', 'Nn6g34899' => 'nnu', 'Nn7g36299' => 'nnu', 'Oeu021485.1' => 'oeu', 'Oeu022433.1' => 'oeu', 'Oeu032111.1' => 'oeu', 'Oeu051608.1' => 'oeu', 'Os01g0860601' => 'osa', 'Os03g0659200' => 'osa', 'Os03g0835900' => 'osa', 'Os04g0412200' => 'osa', 'Os05g0443500' => 'osa', 'Os07g0251500' => 'osa', 'Os08g0104600' => 'osa', 'Peaxi162Scf00003g00047' => 'pax', 'Peaxi162Scf00003g00052' => 'pax', 'Peaxi162Scf00003g00394' => 'pax', 'Peaxi162Scf00091g00621' => 'pax', 'Peaxi162Scf00152g00146' => 'pax', 'Peaxi162Scf00173g00025' => 'pax', 'Peaxi162Scf00195g00102' => 'pax', 'Peaxi162Scf00402g00013' => 'pax', 'Peaxi162Scf00519g00618' => 'pax', 'PGR004G2838' => 'pgr', 'PGR044G2275' => 'pgr', 'PGR102G1377' => 'pgr', 'PGR119G1245' => 'pgr', 'PGR142G4449' => 'pgr', 'PGSC0003DMG400004532' => 'stu', 'PGSC0003DMG400011950' => 'stu', 'PGSC0003DMG400023391' => 'stu', 'PGSC0003DMG400023985' => 'stu', 'PGSC0003DMG400026360' => 'stu', 'PGSC0003DMG400035711' => 'stu', 'PGSC0003DMG400037286' => 'stu', 'PGSC0003DMG402005881' => 'stu', 'Phvul.002G045400' => 'pvu', 'Phvul.006G216600' => 'pvu', 'Phvul.006G216700' => 'pvu', 'Phvul.006G216800' => 'pvu', 'Phvul.007G022500' => 'pvu', 'Phvul.011G094400' => 'pvu', 'Potri.001G470700' => 'ptr', 'Potri.003G015200' => 'ptr', 'Potri.004G202500' => 'ptr', 'Potri.004G218400' => 'ptr', 'Potri.008G020100' => 'ptr', 'Potri.008G153200' => 'ptr', 'Potri.009G163800' => 'ptr', 'Potri.010G087300' => 'ptr', 'Potri.010G239100' => 'ptr', 'Pp3c10_16100' => 'ppa', 'Pp3c10_16880' => 'ppa', 'Pp3c16_6230' => 'ppa', 'Pp3c17_18910' => 'ppa', 'Pp3c3_22119' => 'ppa', 'Pp3c3_22140' => 'ppa', 'Pp3c4_8159' => 'ppa', 'Pp3c4_8171' => 'ppa', 'Pp3c4_8330' => 'ppa', 'PRCOL_00004098' => 'pco', 'Prupe.1G013900' => 'ppe', 'Prupe.1G226300' => 'ppe', 'Prupe.1G573600' => 'ppe', 'Prupe.6G130100' => 'ppe', 'Psat3g090040' => 'psa', 'Psat4g210440' => 'psa', 'Psat6g231040' => 'psa', 'Psat6g231080' => 'psa', 'Psat7g063000' => 'psa', 'Psat7g188000' => 'psa', 'Psat7g188040' => 'psa', 'PSO017G0206' => 'pso', 'PSO170G0501' => 'pso', 'PSO170G6422' => 'pso', 'PSO210G7739' => 'pso', 'PSO339G1808' => 'pso', 'PSO339G6135' => 'pso', 'PSO384G0010' => 'pso', 'PSO384G0964' => 'pso', 'PSO761G0050' => 'pso', 'PSO782G4085' => 'pso', 'QL01p012264' => 'qlo', 'QL02p099491' => 'qlo', 'QL03p033868' => 'qlo', 'QL04p046678' => 'qlo', 'QL06p002448' => 'qlo', 'RcHm_v2.0_Chr4g0416181' => 'rch', 'RcHm_v2.0_Chr5g0044701' => 'rch', 'RcHm_v2.0_Chr6g0265781' => 'rch', 'RcHm_v2.0_Chr7g0221031' => 'rch', 'Rhsim04G0202000' => 'rsi', 'Rhsim11G0127300' => 'rsi', 'Rhsim13G0111800' => 'rsi', 'Sabra01G0165600' => 'sbr', 'Sabra03G0008300' => 'sbr', 'Sabra04G0136900' => 'sbr', 'Sabra08G0013400' => 'sbr', 'Sabra08G0116800' => 'sbr', 'Sabra09G0128000' => 'sbr', 'Sabra10G0055500' => 'sbr', 'Sabra10G0073300' => 'sbr', 'SalBow3G0385' => 'sbo', 'SalBow3G1119' => 'sbo', 'SalBow3G2005' => 'sbo', 'SalBow6G2563' => 'sbo', 'SalBow6G6386' => 'sbo', 'Sc06g0008800' => 'sci', 'Sc07g0004950' => 'sci', 'Sc09g0005340' => 'sci', 'Sc13g0004410' => 'sci', 'Sc21g0007090' => 'sci', 'Sed0009285' => 'sed', 'Sed0017583' => 'sed', 'Sed0019699' => 'sed', 'Sed0023107' => 'sed', 'SEGI_10916' => 'sgi', 'SEGI_16217' => 'sgi', 'SEGI_19466' => 'sgi', 'SEGI_41115' => 'sgi', 'SGA_v2.0_scaffold111G31534' => 'sas', 'SGA_v2.0_scaffold22G09864' => 'sas', 'SGA_v2.0_scaffold338G49219' => 'sas', 'SGA_v2.0_scaffold92G28298' => 'sas', 'SMO119G0064' => 'smo', 'SMO223G0038' => 'smo', 'SMO347G0584' => 'smo', 'SMO351G0010' => 'smo', 'SMO356G0404' => 'smo', 'Solyc01g103920.3' => 'sly', 'Solyc04g009710.2' => 'sly', 'Solyc05g055280.2' => 'sly', 'Solyc10g044520.3' => 'sly', 'Solyc10g075160.1' => 'sly', 'Solyc11g006910.3' => 'sly', 'Solyc11g068430.3' => 'sly', 'Sopen01g046310' => 'spe', 'Sopen03g001200' => 'spe', 'Sopen04g004830' => 'spe', 'Sopen05g033720' => 'spe', 'Sopen06g030740' => 'spe', 'Sopen10g013090' => 'spe', 'Sopen10g027630' => 'spe', 'Sopen10g027640' => 'spe', 'Sopen11g002820' => 'spe', 'Sopen11g027140' => 'spe', 'Sp1g09680' => 'spa', 'Sp2g03630' => 'spa', 'Sp4g10320' => 'spa', 'Sp6g33400' => 'spa', 'Sp7g13030' => 'spa', 'TAR365G0317' => 'tar', 'TAR376G0979' => 'tar', 'TAR623G1665' => 'tar', 'TAR633G2373' => 'tar', 'TAR636G1400' => 'tar', 'THA.LOC104800529' => 'tha', 'THA.LOC104808547' => 'tha', 'THA.LOC104809615' => 'tha', 'THA.LOC104815724' => 'tha', 'THA.LOC104818480' => 'tha', 'THA.LOC104819179' => 'tha', 'THA.LOC104822270' => 'tha', 'THA.LOC104826425' => 'tha', 'Thecc.02G089700' => 'tca', 'Thecc.04G232300' => 'tca', 'Thecc.09G283400' => 'tca', 'Thhalv10009020m.g' => 'esa', 'Thhalv10015506m.g' => 'esa', 'Thhalv10017364m.g' => 'esa', 'Thhalv10023742m.g' => 'esa', 'Thhalv10026483m.g' => 'esa', 'TPR.G17232' => 'tpr', 'TPR.G2133' => 'tpr', 'TPR.G2498' => 'tpr', 'TPR.G31942' => 'tpr', 'TPR.G37877' => 'tpr', 'TPR.G4571' => 'tpr', 'TWI14G1113' => 'twi', 'TWI15G0426' => 'twi', 'TWI31G1005' => 'twi', 'TWI38G0513' => 'twi', 'TWI38G1484' => 'twi', 'TWI73G1098' => 'twi', 'unitig_26.g10519' => 'ugi', 'unitig_736.g22395' => 'ugi', 'unitig_747.g21234' => 'ugi', 'unitig_747.g21942' => 'ugi', 'vmacro14351' => 'vma', 'VMungo0540G0082' => 'vmu', 'VMungo0540G0405' => 'vmu', 'VMungo0540G1486' => 'vmu', 'VMungo0540G1692' => 'vmu', 'VMungo0720G2473' => 'vmu', 'VMungo1127G1562' => 'vmu', 'VMungo1215G1918' => 'vmu', 'Zm00001eb052650' => 'zma', 'Zm00001eb063710' => 'zma', 'Zm00001eb083950' => 'zma', 'Zm00001eb174420' => 'zma', 'Zm00001eb260140' => 'zma', 'Zm00001eb260150' => 'zma', 'Zm00001eb260160' => 'zma', 'Zm00001eb348290' => 'zma', 'Zm00001eb366870' => 'zma', 'Zm00001eb421930' => 'zma' ), 'gf_id' => 'HOM05D001025', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001025' ), 'data_identifier' => 'HOM05D001025', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001025', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '592', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p22650' => 'bna', 'A01p29720' => 'bna', 'A03p26560' => 'bna', 'A03p68820' => 'bna', 'A04p20980' => 'bna', 'A06p07730' => 'bna', 'A07p18260' => 'bna', 'A08p33710' => 'bna', 'A09p16970' => 'bna', 'A10p27490' => 'bna', 'Aa31LG1G17300' => 'aar', 'Aa31LG1G3910' => 'aar', 'Aa31LG2G9630' => 'aar', 'Aa31LG5G8360' => 'aar', 'Aa31LG9G2410' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4699' => 'aag', 'Actinidia23512' => 'ach', 'Actinidia37080' => 'ach', 'Ah.01g020380' => 'amhyb', 'Ah.08g215710' => 'amhyb', 'Ah.09g225110' => 'amhyb', 'Ah.10g036680' => 'amhyb', 'AL1G21940' => 'aly', 'AL2G15540' => 'aly', 'AL4G21520' => 'aly', 'AL7G40960' => 'aly', 'Aqoxy2G01191' => 'aox', 'Aqoxy2G03393' => 'aox', 'Aqoxy4G02775' => 'aox', 'Aqoxy6G00058' => 'aox', 'arahy.Tifrunner.gnm1.ann1.9X74H2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CW3FX9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R485W7' => 'arhy', 'AT1G10960' => 'ath', 'AT1G60950' => 'ath', 'AT2G27510' => 'ath', 'AT4G14890' => 'ath', 'AT5G10000' => 'ath', 'ATR0665G624' => 'atr', 'ATR0697G138' => 'atr', 'ATR0776G046' => 'atr', 'ATR1134G135' => 'atr', 'Atru.chr12.1025' => 'acertr', 'Atru.chr3.3241' => 'acertr', 'Atru.chr4.2460' => 'acertr', 'AUR62007427' => 'cqu', 'AUR62010960' => 'cqu', 'AUR62012201' => 'cqu', 'AUR62021470' => 'cqu', 'AUR62022834' => 'cqu', 'AUR62033635' => 'cqu', 'AUR62036186' => 'cqu', 'BcaB01g03077' => 'bca', 'BcaB02g10093' => 'bca', 'BcaB04g20295' => 'bca', 'BcaB06g28147' => 'bca', 'BcaB07g31253' => 'bca', 'BcaC01g04946' => 'bca', 'BcaC02g10614' => 'bca', 'BcaC02g10885' => 'bca', 'BcaC04g19356' => 'bca', 'BcaC04g22297' => 'bca', 'BcaC05g24977' => 'bca', 'BcaC06g31823' => 'bca', 'BcaC07g38633' => 'bca', 'BcaC09g49353' => 'bca', 'BcaC09g50168' => 'bca', 'BcaNung00322' => 'bca', 'BcaNung04769' => 'bca', 'BolC1t02753H' => 'bol', 'BolC1t03721H' => 'bol', 'BolC3t15525H' => 'bol', 'BolC4t23903H' => 'bol', 'BolC4t24231H' => 'bol', 'BolC4t27209H' => 'bol', 'BolC5t29671H' => 'bol', 'BolC8t49044H' => 'bol', 'BolC9t54999H' => 'bol', 'BolC9t59517H' => 'bol', 'BraA01t02178Z' => 'bra', 'BraA01t03099Z' => 'bra', 'BraA03t11867Z' => 'bra', 'BraA04t17667Z' => 'bra', 'BraA07t29542Z' => 'bra', 'BraA08t35287Z' => 'bra', 'BraA09t37334Z' => 'bra', 'BraA10t44801Z' => 'bra', 'BraSC39t46181Z' => 'bra', 'C01p28240' => 'bna', 'C01p37530' => 'bna', 'C03p31820' => 'bna', 'C04p24080' => 'bna', 'C04p25790' => 'bna', 'C04p56770' => 'bna', 'C05p09310' => 'bna', 'C09p21010' => 'bna', 'C09p67560' => 'bna', 'CAN.G1324.7' => 'can', 'CAN.G1358.10' => 'can', 'CAN.G1550.2' => 'can', 'CAN.G186.56' => 'can', 'CAN.G1965.1' => 'can', 'CAN.G645.15' => 'can', 'CAN.G798.26' => 'can', 'CAN.G798.27' => 'can', 'CAN.G798.29' => 'can', 'CAN.G919.31' => 'can', 'CANSAT11G0133' => 'cansat', 'CANSAT11G1171' => 'cansat', 'CANSAT11G2056' => 'cansat', 'CANSAT56G1202' => 'cansat', 'CANSAT56G1514' => 'cansat', 'CANSAT78G0455' => 'cansat', 'CARHR011190' => 'chi', 'CARHR051980' => 'chi', 'CARHR120170' => 'chi', 'CARHR203310' => 'chi', 'CARHR221490' => 'chi', 'Carub.0001s1054' => 'cru', 'Carub.0002s0431' => 'cru', 'Carub.0004s0818' => 'cru', 'Carub.0006s0846' => 'cru', 'Carub.0007s2722' => 'cru', 'Ca_00058_v3' => 'car', 'Ca_17831_v3' => 'car', 'Ca_19408_v3' => 'car', 'Ca_24397_v3' => 'car', 'Ca_25664_v3' => 'car', 'CBR_g21818' => 'cbr', 'CBR_g31195' => 'cbr', 'CBR_g32282' => 'cbr', 'CBR_g39599' => 'cbr', 'CBR_g49410' => 'cbr', 'Cc01_g09120' => 'ccan', 'Cc01_g09130' => 'ccan', 'Cc02_g09630' => 'ccan', 'Cc02_g22810' => 'ccan', 'Cc03_g03810' => 'ccan', 'CDE02G3718' => 'cde', 'CDE04G3183' => 'cde', 'CDE07G1046' => 'cde', 'CDE08G0480' => 'cde', 'Cfa005493' => 'cfa', 'Cfa010312' => 'cfa', 'Cfa015648' => 'cfa', 'Ciclev10002793m.g' => 'ccl', 'Ciclev10003356m.g' => 'ccl', 'Ciclev10006141m.g' => 'ccl', 'Ciclev10016676m.g' => 'ccl', 'Ciclev10017081m.g' => 'ccl', 'Ciclev10029499m.g' => 'ccl', 'CiPaw.01G166300' => 'cil', 'CiPaw.06G145600' => 'cil', 'CiPaw.13G040100' => 'cil', 'CiPaw.13G135800' => 'cil', 'ClCG01G012230' => 'cla', 'ClCG05G009510' => 'cla', 'ClCG08G008270' => 'cla', 'COL.COLO4_11763' => 'col', 'COL.COLO4_19876' => 'col', 'COL.COLO4_21481' => 'col', 'Cpa.g.sc118.34' => 'cpa', 'Cpa.g.sc32.13' => 'cpa', 'Cpa.g.sc58.103' => 'cpa', 'Cre03.g183850' => 'cre', 'Cre06.g306350' => 'cre', 'Cre07.g334800' => 'cre', 'Cre12.g487900' => 'cre', 'Cre14.g626700' => 'cre', 'Cre16.g658400' => 'cre', 'Cre17.g700950' => 'cre', 'CsaV3_1G014830' => 'csa', 'CsaV3_3G013320' => 'csa', 'CsaV3_3G019210' => 'csa', 'CsaV3_3G019220' => 'csa', 'CsaV3_6G004230' => 'csa', 'CSS0003773' => 'camsi', 'CSS0004563' => 'camsi', 'CSS0013949' => 'camsi', 'CSS0025971' => 'camsi', 'CSS0028570' => 'camsi', 'CSS0033127' => 'camsi', 'CSS0036051' => 'camsi', 'CSS0040087' => 'camsi', 'CSS0043179' => 'camsi', 'DCAR_006161' => 'dca', 'DCAR_010351' => 'dca', 'DCAR_012197' => 'dca', 'DCAR_024162' => 'dca', 'Dinv01030' => 'din', 'Dinv10924' => 'din', 'Dinv11835' => 'din', 'Dinv22841' => 'din', 'Dinv42553' => 'din', 'Duzib052G0560' => 'dzi', 'Duzib132G0389' => 'dzi', 'Duzib150G1181' => 'dzi', 'Duzib168G0623' => 'dzi', 'Duzib170G1036' => 'dzi', 'Duzib212G0200' => 'dzi', 'Duzib248G0194' => 'dzi', 'ECA232G2193' => 'eca', 'ECA233G0302' => 'eca', 'ECA234G2813' => 'eca', 'ECA234G4866' => 'eca', 'ECA240G3932' => 'eca', 'ECA248G0385' => 'eca', 'EL10Ac2g04781' => 'bvu', 'EL10Ac3g06445' => 'bvu', 'EL10Ac7g15825' => 'bvu', 'EL10Ac8g18550' => 'bvu', 'Eucgr.B03849' => 'egr', 'Eucgr.I02744' => 'egr', 'Eucgr.J00264' => 'egr', 'Eucgr.J00493' => 'egr', 'FAN04G2181' => 'fan', 'FAN07G2666' => 'fan', 'FAN11G0024' => 'fan', 'FAN12G1105' => 'fan', 'FAN13G0302' => 'fan', 'FAN15G2781' => 'fan', 'FAN16G1274' => 'fan', 'FAN17G2988' => 'fan', 'FAN18G2621' => 'fan', 'FAN21G0013' => 'fan', 'FAN22G1211' => 'fan', 'FAN25G3626' => 'fan', 'FvH4_2g09491' => 'fve', 'FvH4_3g24910' => 'fve', 'FvH4_4g15630' => 'fve', 'FvH4_5g28820' => 'fve', 'Glyma.01G238000' => 'gma', 'Glyma.05G168400' => 'gma', 'Glyma.08G126800' => 'gma', 'Glyma.08G188500' => 'gma', 'Glyma.10G278900' => 'gma', 'Glyma.11G005700' => 'gma', 'Glyma.11G183300' => 'gma', 'Glyma.12G089200' => 'gma', 'Glyma.12G169400' => 'gma', 'Glyma.12G169500' => 'gma', 'Glyma.12G169600' => 'gma', 'Glyma.20G110800' => 'gma', 'Gohir.A03G192900' => 'ghi', 'Gohir.A03G193000' => 'ghi', 'Gohir.A05G080700' => 'ghi', 'Gohir.A09G216000' => 'ghi', 'Gohir.A12G027700' => 'ghi', 'Gohir.A13G036200' => 'ghi', 'Gohir.A13G222600' => 'ghi', 'Gohir.D02G213900' => 'ghi', 'Gohir.D02G214000' => 'ghi', 'Gohir.D05G083700' => 'ghi', 'Gohir.D05G083800' => 'ghi', 'Gohir.D05G083850' => 'ghi', 'Gohir.D08G015400' => 'ghi', 'Gohir.D09G218400' => 'ghi', 'Gohir.D12G027100' => 'ghi', 'Gohir.D13G034500' => 'ghi', 'Gohir.D13G227400' => 'ghi', 'Gorai.005G241800' => 'gra', 'Gorai.005G241900' => 'gra', 'Gorai.006G239400' => 'gra', 'Gorai.008G027600' => 'gra', 'Gorai.009G085400' => 'gra', 'Gorai.009G085500' => 'gra', 'Gorai.013G039000' => 'gra', 'Gorai.013G194800' => 'gra', 'Gorai.013G257900' => 'gra', 'GSVIVG01000982001' => 'vvi', 'GSVIVG01017981001' => 'vvi', 'HanXRQChr01g0024061' => 'han', 'HanXRQChr09g0247831' => 'han', 'HanXRQChr10g0294611' => 'han', 'HanXRQChr10g0294621' => 'han', 'HanXRQChr11g0346821' => 'han', 'HanXRQChr13g0397461' => 'han', 'HanXRQChr16g0513651' => 'han', 'HanXRQChr16g0513701' => 'han', 'Haze_00897' => 'cav', 'Haze_01745' => 'cav', 'Haze_02486' => 'cav', 'Haze_02487' => 'cav', 'Haze_23374' => 'cav', 'Hma1.2p1_0578F.1_g182520' => 'hma', 'Hma1.2p1_0602F.1_g187350' => 'hma', 'Hma1.2p1_0602F.1_g187360' => 'hma', 'Hma1.2p1_0874F.1_g231320' => 'hma', 'Hma1.2p1_1197F.1_g266210' => 'hma', 'Hma1.2p1_1197F.1_g266220' => 'hma', 'Hma1.2p1_2167F.1_g315895' => 'hma', 'Hma1.2p1_2190F.1_g316640' => 'hma', 'Hma1.2p1_3645F.1_g337153' => 'hma', 'HPP92_004907' => 'vpl', 'HPP92_012134' => 'vpl', 'HPP92_025136' => 'vpl', 'HPP92_026087' => 'vpl', 'Hund06782' => 'sun', 'Hund06784' => 'sun', 'Lalb_Chr01g0004861' => 'lal', 'Lalb_Chr02g0140591' => 'lal', 'Lalb_Chr02g0140611' => 'lal', 'Lalb_Chr03g0028101' => 'lal', 'Lalb_Chr07g0185791' => 'lal', 'Lalb_Chr12g0204491' => 'lal', 'Lalb_Chr13g0295671' => 'lal', 'Lalb_Chr19g0136461' => 'lal', 'Lalb_Chr21g0309191' => 'lal', 'Lj1g0028158' => 'lja', 'Lj1P236T38' => 'lonja', 'Lj2C32G2' => 'lonja', 'Lj2P944T8' => 'lonja', 'Lj2P963T15' => 'lonja', 'Lj3g0011788' => 'lja', 'Lj4g0025027' => 'lja', 'Lj5P255T36' => 'lonja', 'Lj6g0018866' => 'lja', 'Lj6P608T31' => 'lonja', 'LjContig00408g0008879' => 'lja', 'Lsat_1_v5_gn_5_105820' => 'lsa', 'Lsat_1_v5_gn_6_38800' => 'lsa', 'Lsat_1_v5_gn_7_67141' => 'lsa', 'Manes.04G003400' => 'mes', 'Manes.07G020000' => 'mes', 'Manes.07G020100' => 'mes', 'Manes.07G020150' => 'mes', 'Manes.10G061500' => 'mes', 'Manes.10G123200' => 'mes', 'Manes.11G161900' => 'mes', 'Manes.15G029300' => 'mes', 'Mapoly0071s0018' => 'mpo', 'Mapoly0082s0023' => 'mpo', 'Mapoly3477s0001' => 'mpo', 'MBI05_g31233_MAGBIO' => 'mbi', 'MBI09_g05946_MAGBIO' => 'mbi', 'MBI09_g05947_MAGBIO' => 'mbi', 'MBI17_g08346_MAGBIO' => 'mbi', 'MCO04G038' => 'mco', 'MCO09G370' => 'mco', 'MCO13G605' => 'mco', 'MD00G1075500' => 'mdo', 'MD03G1144300' => 'mdo', 'MD08G1236800' => 'mdo', 'MD13G1193300' => 'mdo', 'MD15G1428700' => 'mdo', 'Medtr1g112030' => 'mtr', 'Medtr1g112050' => 'mtr', 'Medtr2g006290' => 'mtr', 'Medtr2g086510' => 'mtr', 'Medtr4g053120' => 'mtr', 'Medtr5g006320' => 'mtr', 'Medtr8g088720' => 'mtr', 'MELO3C004712.2' => 'cme', 'MELO3C006533.2' => 'cme', 'MELO3C019438.2' => 'cme', 'MELO3C019440.2' => 'cme', 'MELO3C019441.2' => 'cme', 'MELO3C019895.2' => 'cme', 'Migut.B00811' => 'egut', 'Migut.D02447' => 'egut', 'Migut.F00875' => 'egut', 'Migut.N00186' => 'egut', 'Migut.N01051' => 'egut', 'Migut.N02491' => 'egut', 'Migut.O00784' => 'egut', 'MSTRG.12367' => 'ama', 'MSTRG.18756' => 'ama', 'MSTRG.21042' => 'ama', 'Nitab4.5_0000559g0040' => 'nta', 'Nitab4.5_0000667g0190' => 'nta', 'Nitab4.5_0000755g0160' => 'nta', 'Nitab4.5_0001216g0080' => 'nta', 'Nitab4.5_0004069g0040' => 'nta', 'Nitab4.5_0004129g0010' => 'nta', 'Nitab4.5_0005744g0030' => 'nta', 'Nitab4.5_0006996g0030' => 'nta', 'Nitab4.5_0008971g0040' => 'nta', 'Nitab4.5_0009769g0020' => 'nta', 'Nitab4.5_0009833g0010' => 'nta', 'Nitab4.5_0013140g0020' => 'nta', 'Nn003s41376' => 'nnu', 'Nn1g01857' => 'nnu', 'Nn1g03611' => 'nnu', 'Nn1g06853' => 'nnu', 'Nn3g18360' => 'nnu', 'Nn4g26328' => 'nnu', 'Nn5g27531' => 'nnu', 'Nn6g34899' => 'nnu', 'Nn7g36299' => 'nnu', 'Oeu021485.1' => 'oeu', 'Oeu022433.1' => 'oeu', 'Oeu032111.1' => 'oeu', 'Oeu051608.1' => 'oeu', 'Os01g0860601' => 'osa', 'Os03g0659200' => 'osa', 'Os03g0835900' => 'osa', 'Os04g0412200' => 'osa', 'Os05g0443500' => 'osa', 'Os07g0251500' => 'osa', 'Os08g0104600' => 'osa', 'Peaxi162Scf00003g00047' => 'pax', 'Peaxi162Scf00003g00052' => 'pax', 'Peaxi162Scf00003g00394' => 'pax', 'Peaxi162Scf00091g00621' => 'pax', 'Peaxi162Scf00152g00146' => 'pax', 'Peaxi162Scf00173g00025' => 'pax', 'Peaxi162Scf00195g00102' => 'pax', 'Peaxi162Scf00402g00013' => 'pax', 'Peaxi162Scf00519g00618' => 'pax', 'PGR004G2838' => 'pgr', 'PGR044G2275' => 'pgr', 'PGR102G1377' => 'pgr', 'PGR119G1245' => 'pgr', 'PGR142G4449' => 'pgr', 'PGSC0003DMG400004532' => 'stu', 'PGSC0003DMG400011950' => 'stu', 'PGSC0003DMG400023391' => 'stu', 'PGSC0003DMG400023985' => 'stu', 'PGSC0003DMG400026360' => 'stu', 'PGSC0003DMG400035711' => 'stu', 'PGSC0003DMG400037286' => 'stu', 'PGSC0003DMG402005881' => 'stu', 'Phvul.002G045400' => 'pvu', 'Phvul.006G216600' => 'pvu', 'Phvul.006G216700' => 'pvu', 'Phvul.006G216800' => 'pvu', 'Phvul.007G022500' => 'pvu', 'Phvul.011G094400' => 'pvu', 'Potri.001G470700' => 'ptr', 'Potri.003G015200' => 'ptr', 'Potri.004G202500' => 'ptr', 'Potri.004G218400' => 'ptr', 'Potri.008G020100' => 'ptr', 'Potri.008G153200' => 'ptr', 'Potri.009G163800' => 'ptr', 'Potri.010G087300' => 'ptr', 'Potri.010G239100' => 'ptr', 'Pp3c10_16100' => 'ppa', 'Pp3c10_16880' => 'ppa', 'Pp3c16_6230' => 'ppa', 'Pp3c17_18910' => 'ppa', 'Pp3c3_22119' => 'ppa', 'Pp3c3_22140' => 'ppa', 'Pp3c4_8159' => 'ppa', 'Pp3c4_8171' => 'ppa', 'Pp3c4_8330' => 'ppa', 'PRCOL_00004098' => 'pco', 'Prupe.1G013900' => 'ppe', 'Prupe.1G226300' => 'ppe', 'Prupe.1G573600' => 'ppe', 'Prupe.6G130100' => 'ppe', 'Psat3g090040' => 'psa', 'Psat4g210440' => 'psa', 'Psat6g231040' => 'psa', 'Psat6g231080' => 'psa', 'Psat7g063000' => 'psa', 'Psat7g188000' => 'psa', 'Psat7g188040' => 'psa', 'PSO017G0206' => 'pso', 'PSO170G0501' => 'pso', 'PSO170G6422' => 'pso', 'PSO210G7739' => 'pso', 'PSO339G1808' => 'pso', 'PSO339G6135' => 'pso', 'PSO384G0010' => 'pso', 'PSO384G0964' => 'pso', 'PSO761G0050' => 'pso', 'PSO782G4085' => 'pso', 'QL01p012264' => 'qlo', 'QL02p099491' => 'qlo', 'QL03p033868' => 'qlo', 'QL04p046678' => 'qlo', 'QL06p002448' => 'qlo', 'RcHm_v2.0_Chr4g0416181' => 'rch', 'RcHm_v2.0_Chr5g0044701' => 'rch', 'RcHm_v2.0_Chr6g0265781' => 'rch', 'RcHm_v2.0_Chr7g0221031' => 'rch', 'Rhsim04G0202000' => 'rsi', 'Rhsim11G0127300' => 'rsi', 'Rhsim13G0111800' => 'rsi', 'Sabra01G0165600' => 'sbr', 'Sabra03G0008300' => 'sbr', 'Sabra04G0136900' => 'sbr', 'Sabra08G0013400' => 'sbr', 'Sabra08G0116800' => 'sbr', 'Sabra09G0128000' => 'sbr', 'Sabra10G0055500' => 'sbr', 'Sabra10G0073300' => 'sbr', 'SalBow3G0385' => 'sbo', 'SalBow3G1119' => 'sbo', 'SalBow3G2005' => 'sbo', 'SalBow6G2563' => 'sbo', 'SalBow6G6386' => 'sbo', 'Sc06g0008800' => 'sci', 'Sc07g0004950' => 'sci', 'Sc09g0005340' => 'sci', 'Sc13g0004410' => 'sci', 'Sc21g0007090' => 'sci', 'Sed0009285' => 'sed', 'Sed0017583' => 'sed', 'Sed0019699' => 'sed', 'Sed0023107' => 'sed', 'SEGI_10916' => 'sgi', 'SEGI_16217' => 'sgi', 'SEGI_19466' => 'sgi', 'SEGI_41115' => 'sgi', 'SGA_v2.0_scaffold111G31534' => 'sas', 'SGA_v2.0_scaffold22G09864' => 'sas', 'SGA_v2.0_scaffold338G49219' => 'sas', 'SGA_v2.0_scaffold92G28298' => 'sas', 'SMO119G0064' => 'smo', 'SMO223G0038' => 'smo', 'SMO347G0584' => 'smo', 'SMO351G0010' => 'smo', 'SMO356G0404' => 'smo', 'Solyc01g103920.3' => 'sly', 'Solyc04g009710.2' => 'sly', 'Solyc05g055280.2' => 'sly', 'Solyc10g044520.3' => 'sly', 'Solyc10g075160.1' => 'sly', 'Solyc11g006910.3' => 'sly', 'Solyc11g068430.3' => 'sly', 'Sopen01g046310' => 'spe', 'Sopen03g001200' => 'spe', 'Sopen04g004830' => 'spe', 'Sopen05g033720' => 'spe', 'Sopen06g030740' => 'spe', 'Sopen10g013090' => 'spe', 'Sopen10g027630' => 'spe', 'Sopen10g027640' => 'spe', 'Sopen11g002820' => 'spe', 'Sopen11g027140' => 'spe', 'Sp1g09680' => 'spa', 'Sp2g03630' => 'spa', 'Sp4g10320' => 'spa', 'Sp6g33400' => 'spa', 'Sp7g13030' => 'spa', 'TAR365G0317' => 'tar', 'TAR376G0979' => 'tar', 'TAR623G1665' => 'tar', 'TAR633G2373' => 'tar', 'TAR636G1400' => 'tar', 'THA.LOC104800529' => 'tha', 'THA.LOC104808547' => 'tha', 'THA.LOC104809615' => 'tha', 'THA.LOC104815724' => 'tha', 'THA.LOC104818480' => 'tha', 'THA.LOC104819179' => 'tha', 'THA.LOC104822270' => 'tha', 'THA.LOC104826425' => 'tha', 'Thecc.02G089700' => 'tca', 'Thecc.04G232300' => 'tca', 'Thecc.09G283400' => 'tca', 'Thhalv10009020m.g' => 'esa', 'Thhalv10015506m.g' => 'esa', 'Thhalv10017364m.g' => 'esa', 'Thhalv10023742m.g' => 'esa', 'Thhalv10026483m.g' => 'esa', 'TPR.G17232' => 'tpr', 'TPR.G2133' => 'tpr', 'TPR.G2498' => 'tpr', 'TPR.G31942' => 'tpr', 'TPR.G37877' => 'tpr', 'TPR.G4571' => 'tpr', 'TWI14G1113' => 'twi', 'TWI15G0426' => 'twi', 'TWI31G1005' => 'twi', 'TWI38G0513' => 'twi', 'TWI38G1484' => 'twi', 'TWI73G1098' => 'twi', 'unitig_26.g10519' => 'ugi', 'unitig_736.g22395' => 'ugi', 'unitig_747.g21234' => 'ugi', 'unitig_747.g21942' => 'ugi', 'vmacro14351' => 'vma', 'VMungo0540G0082' => 'vmu', 'VMungo0540G0405' => 'vmu', 'VMungo0540G1486' => 'vmu', 'VMungo0540G1692' => 'vmu', 'VMungo0720G2473' => 'vmu', 'VMungo1127G1562' => 'vmu', 'VMungo1215G1918' => 'vmu', 'Zm00001eb052650' => 'zma', 'Zm00001eb063710' => 'zma', 'Zm00001eb083950' => 'zma', 'Zm00001eb174420' => 'zma', 'Zm00001eb260140' => 'zma', 'Zm00001eb260150' => 'zma', 'Zm00001eb260160' => 'zma', 'Zm00001eb348290' => 'zma', 'Zm00001eb366870' => 'zma', 'Zm00001eb421930' => 'zma' ) $gf_id = 'HOM05D001025' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001025' ) $data_identifier = 'HOM05D001025' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 19, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 2, 'amhyb' => (int) 4, 'aly' => (int) 4, 'aox' => (int) 4, 'arhy' => (int) 3, 'ath' => (int) 5, 'atr' => (int) 4, 'acertr' => (int) 3, 'cqu' => (int) 7, 'bca' => (int) 17, 'bol' => (int) 10, 'bra' => (int) 9, 'can' => (int) 10, 'cansat' => (int) 6, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 5, 'cbr' => (int) 5, 'ccan' => (int) 5, 'cde' => (int) 4, 'cfa' => (int) 3, 'ccl' => (int) 6, 'cil' => (int) 4, 'cla' => (int) 3, 'col' => (int) 3, 'cpa' => (int) 3, 'cre' => (int) 7, 'csa' => (int) 5, 'camsi' => (int) 9, 'dca' => (int) 4, 'din' => (int) 5, 'dzi' => (int) 7, 'eca' => (int) 6, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 12, 'fve' => (int) 4, 'gma' => (int) 12, 'ghi' => (int) 17, 'gra' => (int) 9, 'vvi' => (int) 2, 'han' => (int) 8, 'cav' => (int) 5, 'hma' => (int) 9, 'vpl' => (int) 4, 'sun' => (int) 2, 'lal' => (int) 9, 'lja' => (int) 5, 'lonja' => (int) 6, 'lsa' => (int) 3, 'mes' => (int) 8, 'mpo' => (int) 3, 'mbi' => (int) 4, 'mco' => (int) 3, 'mdo' => (int) 5, 'mtr' => (int) 7, 'cme' => (int) 6, 'egut' => (int) 7, 'ama' => (int) 3, 'nta' => (int) 12, 'nnu' => (int) 9, 'oeu' => (int) 4, 'osa' => (int) 7, 'pax' => (int) 9, 'pgr' => (int) 5, 'stu' => (int) 8, 'pvu' => (int) 6, 'ptr' => (int) 9, 'ppa' => (int) 9, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 7, 'pso' => (int) 10, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 3, 'sbr' => (int) 8, 'sbo' => (int) 5, 'sci' => (int) 5, 'sed' => (int) 4, 'sgi' => (int) 4, 'sas' => (int) 4, 'smo' => (int) 5, 'sly' => (int) 7, 'spe' => (int) 10, 'spa' => (int) 5, 'tar' => (int) 5, 'tha' => (int) 8, 'tca' => (int) 3, 'esa' => (int) 5, 'tpr' => (int) 6, 'twi' => (int) 6, 'ugi' => (int) 4, 'vma' => (int) 1, 'vmu' => (int) 7, 'zma' => (int) 10 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb421930' $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' => 'HOM05D001025', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '592', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p22650' => 'bna', 'A01p29720' => 'bna', 'A03p26560' => 'bna', 'A03p68820' => 'bna', 'A04p20980' => 'bna', 'A06p07730' => 'bna', 'A07p18260' => 'bna', 'A08p33710' => 'bna', 'A09p16970' => 'bna', 'A10p27490' => 'bna', 'Aa31LG1G17300' => 'aar', 'Aa31LG1G3910' => 'aar', 'Aa31LG2G9630' => 'aar', 'Aa31LG5G8360' => 'aar', 'Aa31LG9G2410' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4699' => 'aag', 'Actinidia23512' => 'ach', 'Actinidia37080' => 'ach', 'Ah.01g020380' => 'amhyb', 'Ah.08g215710' => 'amhyb', 'Ah.09g225110' => 'amhyb', 'Ah.10g036680' => 'amhyb', 'AL1G21940' => 'aly', 'AL2G15540' => 'aly', 'AL4G21520' => 'aly', 'AL7G40960' => 'aly', 'Aqoxy2G01191' => 'aox', 'Aqoxy2G03393' => 'aox', 'Aqoxy4G02775' => 'aox', 'Aqoxy6G00058' => 'aox', 'arahy.Tifrunner.gnm1.ann1.9X74H2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CW3FX9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R485W7' => 'arhy', 'AT1G10960' => 'ath', 'AT1G60950' => 'ath', 'AT2G27510' => 'ath', 'AT4G14890' => 'ath', 'AT5G10000' => 'ath', 'ATR0665G624' => 'atr', 'ATR0697G138' => 'atr', 'ATR0776G046' => 'atr', 'ATR1134G135' => 'atr', 'Atru.chr12.1025' => 'acertr', 'Atru.chr3.3241' => 'acertr', 'Atru.chr4.2460' => 'acertr', 'AUR62007427' => 'cqu', 'AUR62010960' => 'cqu', 'AUR62012201' => 'cqu', 'AUR62021470' => 'cqu', 'AUR62022834' => 'cqu', 'AUR62033635' => 'cqu', 'AUR62036186' => 'cqu', 'BcaB01g03077' => 'bca', 'BcaB02g10093' => 'bca', 'BcaB04g20295' => 'bca', 'BcaB06g28147' => 'bca', 'BcaB07g31253' => 'bca', 'BcaC01g04946' => 'bca', 'BcaC02g10614' => 'bca', 'BcaC02g10885' => 'bca', 'BcaC04g19356' => 'bca', 'BcaC04g22297' => 'bca', 'BcaC05g24977' => 'bca', 'BcaC06g31823' => 'bca', 'BcaC07g38633' => 'bca', 'BcaC09g49353' => 'bca', 'BcaC09g50168' => 'bca', 'BcaNung00322' => 'bca', 'BcaNung04769' => 'bca', 'BolC1t02753H' => 'bol', 'BolC1t03721H' => 'bol', 'BolC3t15525H' => 'bol', 'BolC4t23903H' => 'bol', 'BolC4t24231H' => 'bol', 'BolC4t27209H' => 'bol', 'BolC5t29671H' => 'bol', 'BolC8t49044H' => 'bol', 'BolC9t54999H' => 'bol', 'BolC9t59517H' => 'bol', 'BraA01t02178Z' => 'bra', 'BraA01t03099Z' => 'bra', 'BraA03t11867Z' => 'bra', 'BraA04t17667Z' => 'bra', 'BraA07t29542Z' => 'bra', 'BraA08t35287Z' => 'bra', 'BraA09t37334Z' => 'bra', 'BraA10t44801Z' => 'bra', 'BraSC39t46181Z' => 'bra', 'C01p28240' => 'bna', 'C01p37530' => 'bna', 'C03p31820' => 'bna', 'C04p24080' => 'bna', 'C04p25790' => 'bna', 'C04p56770' => 'bna', 'C05p09310' => 'bna', 'C09p21010' => 'bna', 'C09p67560' => 'bna', 'CAN.G1324.7' => 'can', 'CAN.G1358.10' => 'can', 'CAN.G1550.2' => 'can', 'CAN.G186.56' => 'can', 'CAN.G1965.1' => 'can', 'CAN.G645.15' => 'can', 'CAN.G798.26' => 'can', 'CAN.G798.27' => 'can', 'CAN.G798.29' => 'can', 'CAN.G919.31' => 'can', 'CANSAT11G0133' => 'cansat', 'CANSAT11G1171' => 'cansat', 'CANSAT11G2056' => 'cansat', 'CANSAT56G1202' => 'cansat', 'CANSAT56G1514' => 'cansat', 'CANSAT78G0455' => 'cansat', 'CARHR011190' => 'chi', 'CARHR051980' => 'chi', 'CARHR120170' => 'chi', 'CARHR203310' => 'chi', 'CARHR221490' => 'chi', 'Carub.0001s1054' => 'cru', 'Carub.0002s0431' => 'cru', 'Carub.0004s0818' => 'cru', 'Carub.0006s0846' => 'cru', 'Carub.0007s2722' => 'cru', 'Ca_00058_v3' => 'car', 'Ca_17831_v3' => 'car', 'Ca_19408_v3' => 'car', 'Ca_24397_v3' => 'car', 'Ca_25664_v3' => 'car', 'CBR_g21818' => 'cbr', 'CBR_g31195' => 'cbr', 'CBR_g32282' => 'cbr', 'CBR_g39599' => 'cbr', 'CBR_g49410' => 'cbr', 'Cc01_g09120' => 'ccan', 'Cc01_g09130' => 'ccan', 'Cc02_g09630' => 'ccan', 'Cc02_g22810' => 'ccan', 'Cc03_g03810' => 'ccan', 'CDE02G3718' => 'cde', 'CDE04G3183' => 'cde', 'CDE07G1046' => 'cde', 'CDE08G0480' => 'cde', 'Cfa005493' => 'cfa', 'Cfa010312' => 'cfa', 'Cfa015648' => 'cfa', 'Ciclev10002793m.g' => 'ccl', 'Ciclev10003356m.g' => 'ccl', 'Ciclev10006141m.g' => 'ccl', 'Ciclev10016676m.g' => 'ccl', 'Ciclev10017081m.g' => 'ccl', 'Ciclev10029499m.g' => 'ccl', 'CiPaw.01G166300' => 'cil', 'CiPaw.06G145600' => 'cil', 'CiPaw.13G040100' => 'cil', 'CiPaw.13G135800' => 'cil', 'ClCG01G012230' => 'cla', 'ClCG05G009510' => 'cla', 'ClCG08G008270' => 'cla', 'COL.COLO4_11763' => 'col', 'COL.COLO4_19876' => 'col', 'COL.COLO4_21481' => 'col', 'Cpa.g.sc118.34' => 'cpa', 'Cpa.g.sc32.13' => 'cpa', 'Cpa.g.sc58.103' => 'cpa', 'Cre03.g183850' => 'cre', 'Cre06.g306350' => 'cre', 'Cre07.g334800' => 'cre', 'Cre12.g487900' => 'cre', 'Cre14.g626700' => 'cre', 'Cre16.g658400' => 'cre', 'Cre17.g700950' => 'cre', 'CsaV3_1G014830' => 'csa', 'CsaV3_3G013320' => 'csa', 'CsaV3_3G019210' => 'csa', 'CsaV3_3G019220' => 'csa', 'CsaV3_6G004230' => 'csa', 'CSS0003773' => 'camsi', 'CSS0004563' => 'camsi', 'CSS0013949' => 'camsi', 'CSS0025971' => 'camsi', 'CSS0028570' => 'camsi', 'CSS0033127' => 'camsi', 'CSS0036051' => 'camsi', 'CSS0040087' => 'camsi', 'CSS0043179' => 'camsi', 'DCAR_006161' => 'dca', 'DCAR_010351' => 'dca', 'DCAR_012197' => 'dca', 'DCAR_024162' => 'dca', 'Dinv01030' => 'din', 'Dinv10924' => 'din', 'Dinv11835' => 'din', 'Dinv22841' => 'din', 'Dinv42553' => 'din', 'Duzib052G0560' => 'dzi', 'Duzib132G0389' => 'dzi', 'Duzib150G1181' => 'dzi', 'Duzib168G0623' => 'dzi', 'Duzib170G1036' => 'dzi', 'Duzib212G0200' => 'dzi', 'Duzib248G0194' => 'dzi', 'ECA232G2193' => 'eca', 'ECA233G0302' => 'eca', 'ECA234G2813' => 'eca', 'ECA234G4866' => 'eca', 'ECA240G3932' => 'eca', 'ECA248G0385' => 'eca', 'EL10Ac2g04781' => 'bvu', 'EL10Ac3g06445' => 'bvu', 'EL10Ac7g15825' => 'bvu', 'EL10Ac8g18550' => 'bvu', 'Eucgr.B03849' => 'egr', 'Eucgr.I02744' => 'egr', 'Eucgr.J00264' => 'egr', 'Eucgr.J00493' => 'egr', 'FAN04G2181' => 'fan', 'FAN07G2666' => 'fan', 'FAN11G0024' => 'fan', 'FAN12G1105' => 'fan', 'FAN13G0302' => 'fan', 'FAN15G2781' => 'fan', 'FAN16G1274' => 'fan', 'FAN17G2988' => 'fan', 'FAN18G2621' => 'fan', 'FAN21G0013' => 'fan', 'FAN22G1211' => 'fan', 'FAN25G3626' => 'fan', 'FvH4_2g09491' => 'fve', 'FvH4_3g24910' => 'fve', 'FvH4_4g15630' => 'fve', 'FvH4_5g28820' => 'fve', 'Glyma.01G238000' => 'gma', 'Glyma.05G168400' => 'gma', 'Glyma.08G126800' => 'gma', 'Glyma.08G188500' => 'gma', 'Glyma.10G278900' => 'gma', 'Glyma.11G005700' => 'gma', 'Glyma.11G183300' => 'gma', 'Glyma.12G089200' => 'gma', 'Glyma.12G169400' => 'gma', 'Glyma.12G169500' => 'gma', 'Glyma.12G169600' => 'gma', 'Glyma.20G110800' => 'gma', 'Gohir.A03G192900' => 'ghi', 'Gohir.A03G193000' => 'ghi', 'Gohir.A05G080700' => 'ghi', 'Gohir.A09G216000' => 'ghi', 'Gohir.A12G027700' => 'ghi', 'Gohir.A13G036200' => 'ghi', 'Gohir.A13G222600' => 'ghi', 'Gohir.D02G213900' => 'ghi', 'Gohir.D02G214000' => 'ghi', 'Gohir.D05G083700' => 'ghi', 'Gohir.D05G083800' => 'ghi', 'Gohir.D05G083850' => 'ghi', 'Gohir.D08G015400' => 'ghi', 'Gohir.D09G218400' => 'ghi', 'Gohir.D12G027100' => 'ghi', 'Gohir.D13G034500' => 'ghi', 'Gohir.D13G227400' => 'ghi', 'Gorai.005G241800' => 'gra', 'Gorai.005G241900' => 'gra', 'Gorai.006G239400' => 'gra', 'Gorai.008G027600' => 'gra', 'Gorai.009G085400' => 'gra', 'Gorai.009G085500' => 'gra', 'Gorai.013G039000' => 'gra', 'Gorai.013G194800' => 'gra', 'Gorai.013G257900' => 'gra', 'GSVIVG01000982001' => 'vvi', 'GSVIVG01017981001' => 'vvi', 'HanXRQChr01g0024061' => 'han', 'HanXRQChr09g0247831' => 'han', 'HanXRQChr10g0294611' => 'han', 'HanXRQChr10g0294621' => 'han', 'HanXRQChr11g0346821' => 'han', 'HanXRQChr13g0397461' => 'han', 'HanXRQChr16g0513651' => 'han', 'HanXRQChr16g0513701' => 'han', 'Haze_00897' => 'cav', 'Haze_01745' => 'cav', 'Haze_02486' => 'cav', 'Haze_02487' => 'cav', 'Haze_23374' => 'cav', 'Hma1.2p1_0578F.1_g182520' => 'hma', 'Hma1.2p1_0602F.1_g187350' => 'hma', 'Hma1.2p1_0602F.1_g187360' => 'hma', 'Hma1.2p1_0874F.1_g231320' => 'hma', 'Hma1.2p1_1197F.1_g266210' => 'hma', 'Hma1.2p1_1197F.1_g266220' => 'hma', 'Hma1.2p1_2167F.1_g315895' => 'hma', 'Hma1.2p1_2190F.1_g316640' => 'hma', 'Hma1.2p1_3645F.1_g337153' => 'hma', 'HPP92_004907' => 'vpl', 'HPP92_012134' => 'vpl', 'HPP92_025136' => 'vpl', 'HPP92_026087' => 'vpl', 'Hund06782' => 'sun', 'Hund06784' => 'sun', 'Lalb_Chr01g0004861' => 'lal', 'Lalb_Chr02g0140591' => 'lal', 'Lalb_Chr02g0140611' => 'lal', 'Lalb_Chr03g0028101' => 'lal', 'Lalb_Chr07g0185791' => 'lal', 'Lalb_Chr12g0204491' => 'lal', 'Lalb_Chr13g0295671' => 'lal', 'Lalb_Chr19g0136461' => 'lal', 'Lalb_Chr21g0309191' => 'lal', 'Lj1g0028158' => 'lja', 'Lj1P236T38' => 'lonja', 'Lj2C32G2' => 'lonja', 'Lj2P944T8' => 'lonja', 'Lj2P963T15' => 'lonja', 'Lj3g0011788' => 'lja', 'Lj4g0025027' => 'lja', 'Lj5P255T36' => 'lonja', 'Lj6g0018866' => 'lja', 'Lj6P608T31' => 'lonja', 'LjContig00408g0008879' => 'lja', 'Lsat_1_v5_gn_5_105820' => 'lsa', 'Lsat_1_v5_gn_6_38800' => 'lsa', 'Lsat_1_v5_gn_7_67141' => 'lsa', 'Manes.04G003400' => 'mes', 'Manes.07G020000' => 'mes', 'Manes.07G020100' => 'mes', 'Manes.07G020150' => 'mes', 'Manes.10G061500' => 'mes', 'Manes.10G123200' => 'mes', 'Manes.11G161900' => 'mes', 'Manes.15G029300' => 'mes', 'Mapoly0071s0018' => 'mpo', 'Mapoly0082s0023' => 'mpo', 'Mapoly3477s0001' => 'mpo', 'MBI05_g31233_MAGBIO' => 'mbi', 'MBI09_g05946_MAGBIO' => 'mbi', 'MBI09_g05947_MAGBIO' => 'mbi', 'MBI17_g08346_MAGBIO' => 'mbi', 'MCO04G038' => 'mco', 'MCO09G370' => 'mco', 'MCO13G605' => 'mco', 'MD00G1075500' => 'mdo', 'MD03G1144300' => 'mdo', 'MD08G1236800' => 'mdo', 'MD13G1193300' => 'mdo', 'MD15G1428700' => 'mdo', 'Medtr1g112030' => 'mtr', 'Medtr1g112050' => 'mtr', 'Medtr2g006290' => 'mtr', 'Medtr2g086510' => 'mtr', 'Medtr4g053120' => 'mtr', 'Medtr5g006320' => 'mtr', 'Medtr8g088720' => 'mtr', 'MELO3C004712.2' => 'cme', 'MELO3C006533.2' => 'cme', 'MELO3C019438.2' => 'cme', 'MELO3C019440.2' => 'cme', 'MELO3C019441.2' => 'cme', 'MELO3C019895.2' => 'cme', 'Migut.B00811' => 'egut', 'Migut.D02447' => 'egut', 'Migut.F00875' => 'egut', 'Migut.N00186' => 'egut', 'Migut.N01051' => 'egut', 'Migut.N02491' => 'egut', 'Migut.O00784' => 'egut', 'MSTRG.12367' => 'ama', 'MSTRG.18756' => 'ama', 'MSTRG.21042' => 'ama', 'Nitab4.5_0000559g0040' => 'nta', 'Nitab4.5_0000667g0190' => 'nta', 'Nitab4.5_0000755g0160' => 'nta', 'Nitab4.5_0001216g0080' => 'nta', 'Nitab4.5_0004069g0040' => 'nta', 'Nitab4.5_0004129g0010' => 'nta', 'Nitab4.5_0005744g0030' => 'nta', 'Nitab4.5_0006996g0030' => 'nta', 'Nitab4.5_0008971g0040' => 'nta', 'Nitab4.5_0009769g0020' => 'nta', 'Nitab4.5_0009833g0010' => 'nta', 'Nitab4.5_0013140g0020' => 'nta', 'Nn003s41376' => 'nnu', 'Nn1g01857' => 'nnu', 'Nn1g03611' => 'nnu', 'Nn1g06853' => 'nnu', 'Nn3g18360' => 'nnu', 'Nn4g26328' => 'nnu', 'Nn5g27531' => 'nnu', 'Nn6g34899' => 'nnu', 'Nn7g36299' => 'nnu', 'Oeu021485.1' => 'oeu', 'Oeu022433.1' => 'oeu', 'Oeu032111.1' => 'oeu', 'Oeu051608.1' => 'oeu', 'Os01g0860601' => 'osa', 'Os03g0659200' => 'osa', 'Os03g0835900' => 'osa', 'Os04g0412200' => 'osa', 'Os05g0443500' => 'osa', 'Os07g0251500' => 'osa', 'Os08g0104600' => 'osa', 'Peaxi162Scf00003g00047' => 'pax', 'Peaxi162Scf00003g00052' => 'pax', 'Peaxi162Scf00003g00394' => 'pax', 'Peaxi162Scf00091g00621' => 'pax', 'Peaxi162Scf00152g00146' => 'pax', 'Peaxi162Scf00173g00025' => 'pax', 'Peaxi162Scf00195g00102' => 'pax', 'Peaxi162Scf00402g00013' => 'pax', 'Peaxi162Scf00519g00618' => 'pax', 'PGR004G2838' => 'pgr', 'PGR044G2275' => 'pgr', 'PGR102G1377' => 'pgr', 'PGR119G1245' => 'pgr', 'PGR142G4449' => 'pgr', 'PGSC0003DMG400004532' => 'stu', 'PGSC0003DMG400011950' => 'stu', 'PGSC0003DMG400023391' => 'stu', 'PGSC0003DMG400023985' => 'stu', 'PGSC0003DMG400026360' => 'stu', 'PGSC0003DMG400035711' => 'stu', 'PGSC0003DMG400037286' => 'stu', 'PGSC0003DMG402005881' => 'stu', 'Phvul.002G045400' => 'pvu', 'Phvul.006G216600' => 'pvu', 'Phvul.006G216700' => 'pvu', 'Phvul.006G216800' => 'pvu', 'Phvul.007G022500' => 'pvu', 'Phvul.011G094400' => 'pvu', 'Potri.001G470700' => 'ptr', 'Potri.003G015200' => 'ptr', 'Potri.004G202500' => 'ptr', 'Potri.004G218400' => 'ptr', 'Potri.008G020100' => 'ptr', 'Potri.008G153200' => 'ptr', 'Potri.009G163800' => 'ptr', 'Potri.010G087300' => 'ptr', 'Potri.010G239100' => 'ptr', 'Pp3c10_16100' => 'ppa', 'Pp3c10_16880' => 'ppa', 'Pp3c16_6230' => 'ppa', 'Pp3c17_18910' => 'ppa', 'Pp3c3_22119' => 'ppa', 'Pp3c3_22140' => 'ppa', 'Pp3c4_8159' => 'ppa', 'Pp3c4_8171' => 'ppa', 'Pp3c4_8330' => 'ppa', 'PRCOL_00004098' => 'pco', 'Prupe.1G013900' => 'ppe', 'Prupe.1G226300' => 'ppe', 'Prupe.1G573600' => 'ppe', 'Prupe.6G130100' => 'ppe', 'Psat3g090040' => 'psa', 'Psat4g210440' => 'psa', 'Psat6g231040' => 'psa', 'Psat6g231080' => 'psa', 'Psat7g063000' => 'psa', 'Psat7g188000' => 'psa', 'Psat7g188040' => 'psa', 'PSO017G0206' => 'pso', 'PSO170G0501' => 'pso', 'PSO170G6422' => 'pso', 'PSO210G7739' => 'pso', 'PSO339G1808' => 'pso', 'PSO339G6135' => 'pso', 'PSO384G0010' => 'pso', 'PSO384G0964' => 'pso', 'PSO761G0050' => 'pso', 'PSO782G4085' => 'pso', 'QL01p012264' => 'qlo', 'QL02p099491' => 'qlo', 'QL03p033868' => 'qlo', 'QL04p046678' => 'qlo', 'QL06p002448' => 'qlo', 'RcHm_v2.0_Chr4g0416181' => 'rch', 'RcHm_v2.0_Chr5g0044701' => 'rch', 'RcHm_v2.0_Chr6g0265781' => 'rch', 'RcHm_v2.0_Chr7g0221031' => 'rch', 'Rhsim04G0202000' => 'rsi', 'Rhsim11G0127300' => 'rsi', 'Rhsim13G0111800' => 'rsi', 'Sabra01G0165600' => 'sbr', 'Sabra03G0008300' => 'sbr', 'Sabra04G0136900' => 'sbr', 'Sabra08G0013400' => 'sbr', 'Sabra08G0116800' => 'sbr', 'Sabra09G0128000' => 'sbr', 'Sabra10G0055500' => 'sbr', 'Sabra10G0073300' => 'sbr', 'SalBow3G0385' => 'sbo', 'SalBow3G1119' => 'sbo', 'SalBow3G2005' => 'sbo', 'SalBow6G2563' => 'sbo', 'SalBow6G6386' => 'sbo', 'Sc06g0008800' => 'sci', 'Sc07g0004950' => 'sci', 'Sc09g0005340' => 'sci', 'Sc13g0004410' => 'sci', 'Sc21g0007090' => 'sci', 'Sed0009285' => 'sed', 'Sed0017583' => 'sed', 'Sed0019699' => 'sed', 'Sed0023107' => 'sed', 'SEGI_10916' => 'sgi', 'SEGI_16217' => 'sgi', 'SEGI_19466' => 'sgi', 'SEGI_41115' => 'sgi', 'SGA_v2.0_scaffold111G31534' => 'sas', 'SGA_v2.0_scaffold22G09864' => 'sas', 'SGA_v2.0_scaffold338G49219' => 'sas', 'SGA_v2.0_scaffold92G28298' => 'sas', 'SMO119G0064' => 'smo', 'SMO223G0038' => 'smo', 'SMO347G0584' => 'smo', 'SMO351G0010' => 'smo', 'SMO356G0404' => 'smo', 'Solyc01g103920.3' => 'sly', 'Solyc04g009710.2' => 'sly', 'Solyc05g055280.2' => 'sly', 'Solyc10g044520.3' => 'sly', 'Solyc10g075160.1' => 'sly', 'Solyc11g006910.3' => 'sly', 'Solyc11g068430.3' => 'sly', 'Sopen01g046310' => 'spe', 'Sopen03g001200' => 'spe', 'Sopen04g004830' => 'spe', 'Sopen05g033720' => 'spe', 'Sopen06g030740' => 'spe', 'Sopen10g013090' => 'spe', 'Sopen10g027630' => 'spe', 'Sopen10g027640' => 'spe', 'Sopen11g002820' => 'spe', 'Sopen11g027140' => 'spe', 'Sp1g09680' => 'spa', 'Sp2g03630' => 'spa', 'Sp4g10320' => 'spa', 'Sp6g33400' => 'spa', 'Sp7g13030' => 'spa', 'TAR365G0317' => 'tar', 'TAR376G0979' => 'tar', 'TAR623G1665' => 'tar', 'TAR633G2373' => 'tar', 'TAR636G1400' => 'tar', 'THA.LOC104800529' => 'tha', 'THA.LOC104808547' => 'tha', 'THA.LOC104809615' => 'tha', 'THA.LOC104815724' => 'tha', 'THA.LOC104818480' => 'tha', 'THA.LOC104819179' => 'tha', 'THA.LOC104822270' => 'tha', 'THA.LOC104826425' => 'tha', 'Thecc.02G089700' => 'tca', 'Thecc.04G232300' => 'tca', 'Thecc.09G283400' => 'tca', 'Thhalv10009020m.g' => 'esa', 'Thhalv10015506m.g' => 'esa', 'Thhalv10017364m.g' => 'esa', 'Thhalv10023742m.g' => 'esa', 'Thhalv10026483m.g' => 'esa', 'TPR.G17232' => 'tpr', 'TPR.G2133' => 'tpr', 'TPR.G2498' => 'tpr', 'TPR.G31942' => 'tpr', 'TPR.G37877' => 'tpr', 'TPR.G4571' => 'tpr', 'TWI14G1113' => 'twi', 'TWI15G0426' => 'twi', 'TWI31G1005' => 'twi', 'TWI38G0513' => 'twi', 'TWI38G1484' => 'twi', 'TWI73G1098' => 'twi', 'unitig_26.g10519' => 'ugi', 'unitig_736.g22395' => 'ugi', 'unitig_747.g21234' => 'ugi', 'unitig_747.g21942' => 'ugi', 'vmacro14351' => 'vma', 'VMungo0540G0082' => 'vmu', 'VMungo0540G0405' => 'vmu', 'VMungo0540G1486' => 'vmu', 'VMungo0540G1692' => 'vmu', 'VMungo0720G2473' => 'vmu', 'VMungo1127G1562' => 'vmu', 'VMungo1215G1918' => 'vmu', 'Zm00001eb052650' => 'zma', 'Zm00001eb063710' => 'zma', 'Zm00001eb083950' => 'zma', 'Zm00001eb174420' => 'zma', 'Zm00001eb260140' => 'zma', 'Zm00001eb260150' => 'zma', 'Zm00001eb260160' => 'zma', 'Zm00001eb348290' => 'zma', 'Zm00001eb366870' => 'zma', 'Zm00001eb421930' => 'zma' ), 'gf_id' => 'HOM05D001025', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001025' ), 'data_identifier' => 'HOM05D001025', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001025', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '592', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p22650' => 'bna', 'A01p29720' => 'bna', 'A03p26560' => 'bna', 'A03p68820' => 'bna', 'A04p20980' => 'bna', 'A06p07730' => 'bna', 'A07p18260' => 'bna', 'A08p33710' => 'bna', 'A09p16970' => 'bna', 'A10p27490' => 'bna', 'Aa31LG1G17300' => 'aar', 'Aa31LG1G3910' => 'aar', 'Aa31LG2G9630' => 'aar', 'Aa31LG5G8360' => 'aar', 'Aa31LG9G2410' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4699' => 'aag', 'Actinidia23512' => 'ach', 'Actinidia37080' => 'ach', 'Ah.01g020380' => 'amhyb', 'Ah.08g215710' => 'amhyb', 'Ah.09g225110' => 'amhyb', 'Ah.10g036680' => 'amhyb', 'AL1G21940' => 'aly', 'AL2G15540' => 'aly', 'AL4G21520' => 'aly', 'AL7G40960' => 'aly', 'Aqoxy2G01191' => 'aox', 'Aqoxy2G03393' => 'aox', 'Aqoxy4G02775' => 'aox', 'Aqoxy6G00058' => 'aox', 'arahy.Tifrunner.gnm1.ann1.9X74H2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CW3FX9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R485W7' => 'arhy', 'AT1G10960' => 'ath', 'AT1G60950' => 'ath', 'AT2G27510' => 'ath', 'AT4G14890' => 'ath', 'AT5G10000' => 'ath', 'ATR0665G624' => 'atr', 'ATR0697G138' => 'atr', 'ATR0776G046' => 'atr', 'ATR1134G135' => 'atr', 'Atru.chr12.1025' => 'acertr', 'Atru.chr3.3241' => 'acertr', 'Atru.chr4.2460' => 'acertr', 'AUR62007427' => 'cqu', 'AUR62010960' => 'cqu', 'AUR62012201' => 'cqu', 'AUR62021470' => 'cqu', 'AUR62022834' => 'cqu', 'AUR62033635' => 'cqu', 'AUR62036186' => 'cqu', 'BcaB01g03077' => 'bca', 'BcaB02g10093' => 'bca', 'BcaB04g20295' => 'bca', 'BcaB06g28147' => 'bca', 'BcaB07g31253' => 'bca', 'BcaC01g04946' => 'bca', 'BcaC02g10614' => 'bca', 'BcaC02g10885' => 'bca', 'BcaC04g19356' => 'bca', 'BcaC04g22297' => 'bca', 'BcaC05g24977' => 'bca', 'BcaC06g31823' => 'bca', 'BcaC07g38633' => 'bca', 'BcaC09g49353' => 'bca', 'BcaC09g50168' => 'bca', 'BcaNung00322' => 'bca', 'BcaNung04769' => 'bca', 'BolC1t02753H' => 'bol', 'BolC1t03721H' => 'bol', 'BolC3t15525H' => 'bol', 'BolC4t23903H' => 'bol', 'BolC4t24231H' => 'bol', 'BolC4t27209H' => 'bol', 'BolC5t29671H' => 'bol', 'BolC8t49044H' => 'bol', 'BolC9t54999H' => 'bol', 'BolC9t59517H' => 'bol', 'BraA01t02178Z' => 'bra', 'BraA01t03099Z' => 'bra', 'BraA03t11867Z' => 'bra', 'BraA04t17667Z' => 'bra', 'BraA07t29542Z' => 'bra', 'BraA08t35287Z' => 'bra', 'BraA09t37334Z' => 'bra', 'BraA10t44801Z' => 'bra', 'BraSC39t46181Z' => 'bra', 'C01p28240' => 'bna', 'C01p37530' => 'bna', 'C03p31820' => 'bna', 'C04p24080' => 'bna', 'C04p25790' => 'bna', 'C04p56770' => 'bna', 'C05p09310' => 'bna', 'C09p21010' => 'bna', 'C09p67560' => 'bna', 'CAN.G1324.7' => 'can', 'CAN.G1358.10' => 'can', 'CAN.G1550.2' => 'can', 'CAN.G186.56' => 'can', 'CAN.G1965.1' => 'can', 'CAN.G645.15' => 'can', 'CAN.G798.26' => 'can', 'CAN.G798.27' => 'can', 'CAN.G798.29' => 'can', 'CAN.G919.31' => 'can', 'CANSAT11G0133' => 'cansat', 'CANSAT11G1171' => 'cansat', 'CANSAT11G2056' => 'cansat', 'CANSAT56G1202' => 'cansat', 'CANSAT56G1514' => 'cansat', 'CANSAT78G0455' => 'cansat', 'CARHR011190' => 'chi', 'CARHR051980' => 'chi', 'CARHR120170' => 'chi', 'CARHR203310' => 'chi', 'CARHR221490' => 'chi', 'Carub.0001s1054' => 'cru', 'Carub.0002s0431' => 'cru', 'Carub.0004s0818' => 'cru', 'Carub.0006s0846' => 'cru', 'Carub.0007s2722' => 'cru', 'Ca_00058_v3' => 'car', 'Ca_17831_v3' => 'car', 'Ca_19408_v3' => 'car', 'Ca_24397_v3' => 'car', 'Ca_25664_v3' => 'car', 'CBR_g21818' => 'cbr', 'CBR_g31195' => 'cbr', 'CBR_g32282' => 'cbr', 'CBR_g39599' => 'cbr', 'CBR_g49410' => 'cbr', 'Cc01_g09120' => 'ccan', 'Cc01_g09130' => 'ccan', 'Cc02_g09630' => 'ccan', 'Cc02_g22810' => 'ccan', 'Cc03_g03810' => 'ccan', 'CDE02G3718' => 'cde', 'CDE04G3183' => 'cde', 'CDE07G1046' => 'cde', 'CDE08G0480' => 'cde', 'Cfa005493' => 'cfa', 'Cfa010312' => 'cfa', 'Cfa015648' => 'cfa', 'Ciclev10002793m.g' => 'ccl', 'Ciclev10003356m.g' => 'ccl', 'Ciclev10006141m.g' => 'ccl', 'Ciclev10016676m.g' => 'ccl', 'Ciclev10017081m.g' => 'ccl', 'Ciclev10029499m.g' => 'ccl', 'CiPaw.01G166300' => 'cil', 'CiPaw.06G145600' => 'cil', 'CiPaw.13G040100' => 'cil', 'CiPaw.13G135800' => 'cil', 'ClCG01G012230' => 'cla', 'ClCG05G009510' => 'cla', 'ClCG08G008270' => 'cla', 'COL.COLO4_11763' => 'col', 'COL.COLO4_19876' => 'col', 'COL.COLO4_21481' => 'col', 'Cpa.g.sc118.34' => 'cpa', 'Cpa.g.sc32.13' => 'cpa', 'Cpa.g.sc58.103' => 'cpa', 'Cre03.g183850' => 'cre', 'Cre06.g306350' => 'cre', 'Cre07.g334800' => 'cre', 'Cre12.g487900' => 'cre', 'Cre14.g626700' => 'cre', 'Cre16.g658400' => 'cre', 'Cre17.g700950' => 'cre', 'CsaV3_1G014830' => 'csa', 'CsaV3_3G013320' => 'csa', 'CsaV3_3G019210' => 'csa', 'CsaV3_3G019220' => 'csa', 'CsaV3_6G004230' => 'csa', 'CSS0003773' => 'camsi', 'CSS0004563' => 'camsi', 'CSS0013949' => 'camsi', 'CSS0025971' => 'camsi', 'CSS0028570' => 'camsi', 'CSS0033127' => 'camsi', 'CSS0036051' => 'camsi', 'CSS0040087' => 'camsi', 'CSS0043179' => 'camsi', 'DCAR_006161' => 'dca', 'DCAR_010351' => 'dca', 'DCAR_012197' => 'dca', 'DCAR_024162' => 'dca', 'Dinv01030' => 'din', 'Dinv10924' => 'din', 'Dinv11835' => 'din', 'Dinv22841' => 'din', 'Dinv42553' => 'din', 'Duzib052G0560' => 'dzi', 'Duzib132G0389' => 'dzi', 'Duzib150G1181' => 'dzi', 'Duzib168G0623' => 'dzi', 'Duzib170G1036' => 'dzi', 'Duzib212G0200' => 'dzi', 'Duzib248G0194' => 'dzi', 'ECA232G2193' => 'eca', 'ECA233G0302' => 'eca', 'ECA234G2813' => 'eca', 'ECA234G4866' => 'eca', 'ECA240G3932' => 'eca', 'ECA248G0385' => 'eca', 'EL10Ac2g04781' => 'bvu', 'EL10Ac3g06445' => 'bvu', 'EL10Ac7g15825' => 'bvu', 'EL10Ac8g18550' => 'bvu', 'Eucgr.B03849' => 'egr', 'Eucgr.I02744' => 'egr', 'Eucgr.J00264' => 'egr', 'Eucgr.J00493' => 'egr', 'FAN04G2181' => 'fan', 'FAN07G2666' => 'fan', 'FAN11G0024' => 'fan', 'FAN12G1105' => 'fan', 'FAN13G0302' => 'fan', 'FAN15G2781' => 'fan', 'FAN16G1274' => 'fan', 'FAN17G2988' => 'fan', 'FAN18G2621' => 'fan', 'FAN21G0013' => 'fan', 'FAN22G1211' => 'fan', 'FAN25G3626' => 'fan', 'FvH4_2g09491' => 'fve', 'FvH4_3g24910' => 'fve', 'FvH4_4g15630' => 'fve', 'FvH4_5g28820' => 'fve', 'Glyma.01G238000' => 'gma', 'Glyma.05G168400' => 'gma', 'Glyma.08G126800' => 'gma', 'Glyma.08G188500' => 'gma', 'Glyma.10G278900' => 'gma', 'Glyma.11G005700' => 'gma', 'Glyma.11G183300' => 'gma', 'Glyma.12G089200' => 'gma', 'Glyma.12G169400' => 'gma', 'Glyma.12G169500' => 'gma', 'Glyma.12G169600' => 'gma', 'Glyma.20G110800' => 'gma', 'Gohir.A03G192900' => 'ghi', 'Gohir.A03G193000' => 'ghi', 'Gohir.A05G080700' => 'ghi', 'Gohir.A09G216000' => 'ghi', 'Gohir.A12G027700' => 'ghi', 'Gohir.A13G036200' => 'ghi', 'Gohir.A13G222600' => 'ghi', 'Gohir.D02G213900' => 'ghi', 'Gohir.D02G214000' => 'ghi', 'Gohir.D05G083700' => 'ghi', 'Gohir.D05G083800' => 'ghi', 'Gohir.D05G083850' => 'ghi', 'Gohir.D08G015400' => 'ghi', 'Gohir.D09G218400' => 'ghi', 'Gohir.D12G027100' => 'ghi', 'Gohir.D13G034500' => 'ghi', 'Gohir.D13G227400' => 'ghi', 'Gorai.005G241800' => 'gra', 'Gorai.005G241900' => 'gra', 'Gorai.006G239400' => 'gra', 'Gorai.008G027600' => 'gra', 'Gorai.009G085400' => 'gra', 'Gorai.009G085500' => 'gra', 'Gorai.013G039000' => 'gra', 'Gorai.013G194800' => 'gra', 'Gorai.013G257900' => 'gra', 'GSVIVG01000982001' => 'vvi', 'GSVIVG01017981001' => 'vvi', 'HanXRQChr01g0024061' => 'han', 'HanXRQChr09g0247831' => 'han', 'HanXRQChr10g0294611' => 'han', 'HanXRQChr10g0294621' => 'han', 'HanXRQChr11g0346821' => 'han', 'HanXRQChr13g0397461' => 'han', 'HanXRQChr16g0513651' => 'han', 'HanXRQChr16g0513701' => 'han', 'Haze_00897' => 'cav', 'Haze_01745' => 'cav', 'Haze_02486' => 'cav', 'Haze_02487' => 'cav', 'Haze_23374' => 'cav', 'Hma1.2p1_0578F.1_g182520' => 'hma', 'Hma1.2p1_0602F.1_g187350' => 'hma', 'Hma1.2p1_0602F.1_g187360' => 'hma', 'Hma1.2p1_0874F.1_g231320' => 'hma', 'Hma1.2p1_1197F.1_g266210' => 'hma', 'Hma1.2p1_1197F.1_g266220' => 'hma', 'Hma1.2p1_2167F.1_g315895' => 'hma', 'Hma1.2p1_2190F.1_g316640' => 'hma', 'Hma1.2p1_3645F.1_g337153' => 'hma', 'HPP92_004907' => 'vpl', 'HPP92_012134' => 'vpl', 'HPP92_025136' => 'vpl', 'HPP92_026087' => 'vpl', 'Hund06782' => 'sun', 'Hund06784' => 'sun', 'Lalb_Chr01g0004861' => 'lal', 'Lalb_Chr02g0140591' => 'lal', 'Lalb_Chr02g0140611' => 'lal', 'Lalb_Chr03g0028101' => 'lal', 'Lalb_Chr07g0185791' => 'lal', 'Lalb_Chr12g0204491' => 'lal', 'Lalb_Chr13g0295671' => 'lal', 'Lalb_Chr19g0136461' => 'lal', 'Lalb_Chr21g0309191' => 'lal', 'Lj1g0028158' => 'lja', 'Lj1P236T38' => 'lonja', 'Lj2C32G2' => 'lonja', 'Lj2P944T8' => 'lonja', 'Lj2P963T15' => 'lonja', 'Lj3g0011788' => 'lja', 'Lj4g0025027' => 'lja', 'Lj5P255T36' => 'lonja', 'Lj6g0018866' => 'lja', 'Lj6P608T31' => 'lonja', 'LjContig00408g0008879' => 'lja', 'Lsat_1_v5_gn_5_105820' => 'lsa', 'Lsat_1_v5_gn_6_38800' => 'lsa', 'Lsat_1_v5_gn_7_67141' => 'lsa', 'Manes.04G003400' => 'mes', 'Manes.07G020000' => 'mes', 'Manes.07G020100' => 'mes', 'Manes.07G020150' => 'mes', 'Manes.10G061500' => 'mes', 'Manes.10G123200' => 'mes', 'Manes.11G161900' => 'mes', 'Manes.15G029300' => 'mes', 'Mapoly0071s0018' => 'mpo', 'Mapoly0082s0023' => 'mpo', 'Mapoly3477s0001' => 'mpo', 'MBI05_g31233_MAGBIO' => 'mbi', 'MBI09_g05946_MAGBIO' => 'mbi', 'MBI09_g05947_MAGBIO' => 'mbi', 'MBI17_g08346_MAGBIO' => 'mbi', 'MCO04G038' => 'mco', 'MCO09G370' => 'mco', 'MCO13G605' => 'mco', 'MD00G1075500' => 'mdo', 'MD03G1144300' => 'mdo', 'MD08G1236800' => 'mdo', 'MD13G1193300' => 'mdo', 'MD15G1428700' => 'mdo', 'Medtr1g112030' => 'mtr', 'Medtr1g112050' => 'mtr', 'Medtr2g006290' => 'mtr', 'Medtr2g086510' => 'mtr', 'Medtr4g053120' => 'mtr', 'Medtr5g006320' => 'mtr', 'Medtr8g088720' => 'mtr', 'MELO3C004712.2' => 'cme', 'MELO3C006533.2' => 'cme', 'MELO3C019438.2' => 'cme', 'MELO3C019440.2' => 'cme', 'MELO3C019441.2' => 'cme', 'MELO3C019895.2' => 'cme', 'Migut.B00811' => 'egut', 'Migut.D02447' => 'egut', 'Migut.F00875' => 'egut', 'Migut.N00186' => 'egut', 'Migut.N01051' => 'egut', 'Migut.N02491' => 'egut', 'Migut.O00784' => 'egut', 'MSTRG.12367' => 'ama', 'MSTRG.18756' => 'ama', 'MSTRG.21042' => 'ama', 'Nitab4.5_0000559g0040' => 'nta', 'Nitab4.5_0000667g0190' => 'nta', 'Nitab4.5_0000755g0160' => 'nta', 'Nitab4.5_0001216g0080' => 'nta', 'Nitab4.5_0004069g0040' => 'nta', 'Nitab4.5_0004129g0010' => 'nta', 'Nitab4.5_0005744g0030' => 'nta', 'Nitab4.5_0006996g0030' => 'nta', 'Nitab4.5_0008971g0040' => 'nta', 'Nitab4.5_0009769g0020' => 'nta', 'Nitab4.5_0009833g0010' => 'nta', 'Nitab4.5_0013140g0020' => 'nta', 'Nn003s41376' => 'nnu', 'Nn1g01857' => 'nnu', 'Nn1g03611' => 'nnu', 'Nn1g06853' => 'nnu', 'Nn3g18360' => 'nnu', 'Nn4g26328' => 'nnu', 'Nn5g27531' => 'nnu', 'Nn6g34899' => 'nnu', 'Nn7g36299' => 'nnu', 'Oeu021485.1' => 'oeu', 'Oeu022433.1' => 'oeu', 'Oeu032111.1' => 'oeu', 'Oeu051608.1' => 'oeu', 'Os01g0860601' => 'osa', 'Os03g0659200' => 'osa', 'Os03g0835900' => 'osa', 'Os04g0412200' => 'osa', 'Os05g0443500' => 'osa', 'Os07g0251500' => 'osa', 'Os08g0104600' => 'osa', 'Peaxi162Scf00003g00047' => 'pax', 'Peaxi162Scf00003g00052' => 'pax', 'Peaxi162Scf00003g00394' => 'pax', 'Peaxi162Scf00091g00621' => 'pax', 'Peaxi162Scf00152g00146' => 'pax', 'Peaxi162Scf00173g00025' => 'pax', 'Peaxi162Scf00195g00102' => 'pax', 'Peaxi162Scf00402g00013' => 'pax', 'Peaxi162Scf00519g00618' => 'pax', 'PGR004G2838' => 'pgr', 'PGR044G2275' => 'pgr', 'PGR102G1377' => 'pgr', 'PGR119G1245' => 'pgr', 'PGR142G4449' => 'pgr', 'PGSC0003DMG400004532' => 'stu', 'PGSC0003DMG400011950' => 'stu', 'PGSC0003DMG400023391' => 'stu', 'PGSC0003DMG400023985' => 'stu', 'PGSC0003DMG400026360' => 'stu', 'PGSC0003DMG400035711' => 'stu', 'PGSC0003DMG400037286' => 'stu', 'PGSC0003DMG402005881' => 'stu', 'Phvul.002G045400' => 'pvu', 'Phvul.006G216600' => 'pvu', 'Phvul.006G216700' => 'pvu', 'Phvul.006G216800' => 'pvu', 'Phvul.007G022500' => 'pvu', 'Phvul.011G094400' => 'pvu', 'Potri.001G470700' => 'ptr', 'Potri.003G015200' => 'ptr', 'Potri.004G202500' => 'ptr', 'Potri.004G218400' => 'ptr', 'Potri.008G020100' => 'ptr', 'Potri.008G153200' => 'ptr', 'Potri.009G163800' => 'ptr', 'Potri.010G087300' => 'ptr', 'Potri.010G239100' => 'ptr', 'Pp3c10_16100' => 'ppa', 'Pp3c10_16880' => 'ppa', 'Pp3c16_6230' => 'ppa', 'Pp3c17_18910' => 'ppa', 'Pp3c3_22119' => 'ppa', 'Pp3c3_22140' => 'ppa', 'Pp3c4_8159' => 'ppa', 'Pp3c4_8171' => 'ppa', 'Pp3c4_8330' => 'ppa', 'PRCOL_00004098' => 'pco', 'Prupe.1G013900' => 'ppe', 'Prupe.1G226300' => 'ppe', 'Prupe.1G573600' => 'ppe', 'Prupe.6G130100' => 'ppe', 'Psat3g090040' => 'psa', 'Psat4g210440' => 'psa', 'Psat6g231040' => 'psa', 'Psat6g231080' => 'psa', 'Psat7g063000' => 'psa', 'Psat7g188000' => 'psa', 'Psat7g188040' => 'psa', 'PSO017G0206' => 'pso', 'PSO170G0501' => 'pso', 'PSO170G6422' => 'pso', 'PSO210G7739' => 'pso', 'PSO339G1808' => 'pso', 'PSO339G6135' => 'pso', 'PSO384G0010' => 'pso', 'PSO384G0964' => 'pso', 'PSO761G0050' => 'pso', 'PSO782G4085' => 'pso', 'QL01p012264' => 'qlo', 'QL02p099491' => 'qlo', 'QL03p033868' => 'qlo', 'QL04p046678' => 'qlo', 'QL06p002448' => 'qlo', 'RcHm_v2.0_Chr4g0416181' => 'rch', 'RcHm_v2.0_Chr5g0044701' => 'rch', 'RcHm_v2.0_Chr6g0265781' => 'rch', 'RcHm_v2.0_Chr7g0221031' => 'rch', 'Rhsim04G0202000' => 'rsi', 'Rhsim11G0127300' => 'rsi', 'Rhsim13G0111800' => 'rsi', 'Sabra01G0165600' => 'sbr', 'Sabra03G0008300' => 'sbr', 'Sabra04G0136900' => 'sbr', 'Sabra08G0013400' => 'sbr', 'Sabra08G0116800' => 'sbr', 'Sabra09G0128000' => 'sbr', 'Sabra10G0055500' => 'sbr', 'Sabra10G0073300' => 'sbr', 'SalBow3G0385' => 'sbo', 'SalBow3G1119' => 'sbo', 'SalBow3G2005' => 'sbo', 'SalBow6G2563' => 'sbo', 'SalBow6G6386' => 'sbo', 'Sc06g0008800' => 'sci', 'Sc07g0004950' => 'sci', 'Sc09g0005340' => 'sci', 'Sc13g0004410' => 'sci', 'Sc21g0007090' => 'sci', 'Sed0009285' => 'sed', 'Sed0017583' => 'sed', 'Sed0019699' => 'sed', 'Sed0023107' => 'sed', 'SEGI_10916' => 'sgi', 'SEGI_16217' => 'sgi', 'SEGI_19466' => 'sgi', 'SEGI_41115' => 'sgi', 'SGA_v2.0_scaffold111G31534' => 'sas', 'SGA_v2.0_scaffold22G09864' => 'sas', 'SGA_v2.0_scaffold338G49219' => 'sas', 'SGA_v2.0_scaffold92G28298' => 'sas', 'SMO119G0064' => 'smo', 'SMO223G0038' => 'smo', 'SMO347G0584' => 'smo', 'SMO351G0010' => 'smo', 'SMO356G0404' => 'smo', 'Solyc01g103920.3' => 'sly', 'Solyc04g009710.2' => 'sly', 'Solyc05g055280.2' => 'sly', 'Solyc10g044520.3' => 'sly', 'Solyc10g075160.1' => 'sly', 'Solyc11g006910.3' => 'sly', 'Solyc11g068430.3' => 'sly', 'Sopen01g046310' => 'spe', 'Sopen03g001200' => 'spe', 'Sopen04g004830' => 'spe', 'Sopen05g033720' => 'spe', 'Sopen06g030740' => 'spe', 'Sopen10g013090' => 'spe', 'Sopen10g027630' => 'spe', 'Sopen10g027640' => 'spe', 'Sopen11g002820' => 'spe', 'Sopen11g027140' => 'spe', 'Sp1g09680' => 'spa', 'Sp2g03630' => 'spa', 'Sp4g10320' => 'spa', 'Sp6g33400' => 'spa', 'Sp7g13030' => 'spa', 'TAR365G0317' => 'tar', 'TAR376G0979' => 'tar', 'TAR623G1665' => 'tar', 'TAR633G2373' => 'tar', 'TAR636G1400' => 'tar', 'THA.LOC104800529' => 'tha', 'THA.LOC104808547' => 'tha', 'THA.LOC104809615' => 'tha', 'THA.LOC104815724' => 'tha', 'THA.LOC104818480' => 'tha', 'THA.LOC104819179' => 'tha', 'THA.LOC104822270' => 'tha', 'THA.LOC104826425' => 'tha', 'Thecc.02G089700' => 'tca', 'Thecc.04G232300' => 'tca', 'Thecc.09G283400' => 'tca', 'Thhalv10009020m.g' => 'esa', 'Thhalv10015506m.g' => 'esa', 'Thhalv10017364m.g' => 'esa', 'Thhalv10023742m.g' => 'esa', 'Thhalv10026483m.g' => 'esa', 'TPR.G17232' => 'tpr', 'TPR.G2133' => 'tpr', 'TPR.G2498' => 'tpr', 'TPR.G31942' => 'tpr', 'TPR.G37877' => 'tpr', 'TPR.G4571' => 'tpr', 'TWI14G1113' => 'twi', 'TWI15G0426' => 'twi', 'TWI31G1005' => 'twi', 'TWI38G0513' => 'twi', 'TWI38G1484' => 'twi', 'TWI73G1098' => 'twi', 'unitig_26.g10519' => 'ugi', 'unitig_736.g22395' => 'ugi', 'unitig_747.g21234' => 'ugi', 'unitig_747.g21942' => 'ugi', 'vmacro14351' => 'vma', 'VMungo0540G0082' => 'vmu', 'VMungo0540G0405' => 'vmu', 'VMungo0540G1486' => 'vmu', 'VMungo0540G1692' => 'vmu', 'VMungo0720G2473' => 'vmu', 'VMungo1127G1562' => 'vmu', 'VMungo1215G1918' => 'vmu', 'Zm00001eb052650' => 'zma', 'Zm00001eb063710' => 'zma', 'Zm00001eb083950' => 'zma', 'Zm00001eb174420' => 'zma', 'Zm00001eb260140' => 'zma', 'Zm00001eb260150' => 'zma', 'Zm00001eb260160' => 'zma', 'Zm00001eb348290' => 'zma', 'Zm00001eb366870' => 'zma', 'Zm00001eb421930' => 'zma' ) $gf_id = 'HOM05D001025' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001025' ) $data_identifier = 'HOM05D001025' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 19, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 2, 'amhyb' => (int) 4, 'aly' => (int) 4, 'aox' => (int) 4, 'arhy' => (int) 3, 'ath' => (int) 5, 'atr' => (int) 4, 'acertr' => (int) 3, 'cqu' => (int) 7, 'bca' => (int) 17, 'bol' => (int) 10, 'bra' => (int) 9, 'can' => (int) 10, 'cansat' => (int) 6, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 5, 'cbr' => (int) 5, 'ccan' => (int) 5, 'cde' => (int) 4, 'cfa' => (int) 3, 'ccl' => (int) 6, 'cil' => (int) 4, 'cla' => (int) 3, 'col' => (int) 3, 'cpa' => (int) 3, 'cre' => (int) 7, 'csa' => (int) 5, 'camsi' => (int) 9, 'dca' => (int) 4, 'din' => (int) 5, 'dzi' => (int) 7, 'eca' => (int) 6, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 12, 'fve' => (int) 4, 'gma' => (int) 12, 'ghi' => (int) 17, 'gra' => (int) 9, 'vvi' => (int) 2, 'han' => (int) 8, 'cav' => (int) 5, 'hma' => (int) 9, 'vpl' => (int) 4, 'sun' => (int) 2, 'lal' => (int) 9, 'lja' => (int) 5, 'lonja' => (int) 6, 'lsa' => (int) 3, 'mes' => (int) 8, 'mpo' => (int) 3, 'mbi' => (int) 4, 'mco' => (int) 3, 'mdo' => (int) 5, 'mtr' => (int) 7, 'cme' => (int) 6, 'egut' => (int) 7, 'ama' => (int) 3, 'nta' => (int) 12, 'nnu' => (int) 9, 'oeu' => (int) 4, 'osa' => (int) 7, 'pax' => (int) 9, 'pgr' => (int) 5, 'stu' => (int) 8, 'pvu' => (int) 6, 'ptr' => (int) 9, 'ppa' => (int) 9, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 7, 'pso' => (int) 10, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 3, 'sbr' => (int) 8, 'sbo' => (int) 5, 'sci' => (int) 5, 'sed' => (int) 4, 'sgi' => (int) 4, 'sas' => (int) 4, 'smo' => (int) 5, 'sly' => (int) 7, 'spe' => (int) 10, 'spa' => (int) 5, 'tar' => (int) 5, 'tha' => (int) 8, 'tca' => (int) 3, 'esa' => (int) 5, 'tpr' => (int) 6, 'twi' => (int) 6, 'ugi' => (int) 4, 'vma' => (int) 1, 'vmu' => (int) 7, 'zma' => (int) 10 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb421930' $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' => 'HOM05D001025', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '592', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p22650' => 'bna', 'A01p29720' => 'bna', 'A03p26560' => 'bna', 'A03p68820' => 'bna', 'A04p20980' => 'bna', 'A06p07730' => 'bna', 'A07p18260' => 'bna', 'A08p33710' => 'bna', 'A09p16970' => 'bna', 'A10p27490' => 'bna', 'Aa31LG1G17300' => 'aar', 'Aa31LG1G3910' => 'aar', 'Aa31LG2G9630' => 'aar', 'Aa31LG5G8360' => 'aar', 'Aa31LG9G2410' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4699' => 'aag', 'Actinidia23512' => 'ach', 'Actinidia37080' => 'ach', 'Ah.01g020380' => 'amhyb', 'Ah.08g215710' => 'amhyb', 'Ah.09g225110' => 'amhyb', 'Ah.10g036680' => 'amhyb', 'AL1G21940' => 'aly', 'AL2G15540' => 'aly', 'AL4G21520' => 'aly', 'AL7G40960' => 'aly', 'Aqoxy2G01191' => 'aox', 'Aqoxy2G03393' => 'aox', 'Aqoxy4G02775' => 'aox', 'Aqoxy6G00058' => 'aox', 'arahy.Tifrunner.gnm1.ann1.9X74H2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CW3FX9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R485W7' => 'arhy', 'AT1G10960' => 'ath', 'AT1G60950' => 'ath', 'AT2G27510' => 'ath', 'AT4G14890' => 'ath', 'AT5G10000' => 'ath', 'ATR0665G624' => 'atr', 'ATR0697G138' => 'atr', 'ATR0776G046' => 'atr', 'ATR1134G135' => 'atr', 'Atru.chr12.1025' => 'acertr', 'Atru.chr3.3241' => 'acertr', 'Atru.chr4.2460' => 'acertr', 'AUR62007427' => 'cqu', 'AUR62010960' => 'cqu', 'AUR62012201' => 'cqu', 'AUR62021470' => 'cqu', 'AUR62022834' => 'cqu', 'AUR62033635' => 'cqu', 'AUR62036186' => 'cqu', 'BcaB01g03077' => 'bca', 'BcaB02g10093' => 'bca', 'BcaB04g20295' => 'bca', 'BcaB06g28147' => 'bca', 'BcaB07g31253' => 'bca', 'BcaC01g04946' => 'bca', 'BcaC02g10614' => 'bca', 'BcaC02g10885' => 'bca', 'BcaC04g19356' => 'bca', 'BcaC04g22297' => 'bca', 'BcaC05g24977' => 'bca', 'BcaC06g31823' => 'bca', 'BcaC07g38633' => 'bca', 'BcaC09g49353' => 'bca', 'BcaC09g50168' => 'bca', 'BcaNung00322' => 'bca', 'BcaNung04769' => 'bca', 'BolC1t02753H' => 'bol', 'BolC1t03721H' => 'bol', 'BolC3t15525H' => 'bol', 'BolC4t23903H' => 'bol', 'BolC4t24231H' => 'bol', 'BolC4t27209H' => 'bol', 'BolC5t29671H' => 'bol', 'BolC8t49044H' => 'bol', 'BolC9t54999H' => 'bol', 'BolC9t59517H' => 'bol', 'BraA01t02178Z' => 'bra', 'BraA01t03099Z' => 'bra', 'BraA03t11867Z' => 'bra', 'BraA04t17667Z' => 'bra', 'BraA07t29542Z' => 'bra', 'BraA08t35287Z' => 'bra', 'BraA09t37334Z' => 'bra', 'BraA10t44801Z' => 'bra', 'BraSC39t46181Z' => 'bra', 'C01p28240' => 'bna', 'C01p37530' => 'bna', 'C03p31820' => 'bna', 'C04p24080' => 'bna', 'C04p25790' => 'bna', 'C04p56770' => 'bna', 'C05p09310' => 'bna', 'C09p21010' => 'bna', 'C09p67560' => 'bna', 'CAN.G1324.7' => 'can', 'CAN.G1358.10' => 'can', 'CAN.G1550.2' => 'can', 'CAN.G186.56' => 'can', 'CAN.G1965.1' => 'can', 'CAN.G645.15' => 'can', 'CAN.G798.26' => 'can', 'CAN.G798.27' => 'can', 'CAN.G798.29' => 'can', 'CAN.G919.31' => 'can', 'CANSAT11G0133' => 'cansat', 'CANSAT11G1171' => 'cansat', 'CANSAT11G2056' => 'cansat', 'CANSAT56G1202' => 'cansat', 'CANSAT56G1514' => 'cansat', 'CANSAT78G0455' => 'cansat', 'CARHR011190' => 'chi', 'CARHR051980' => 'chi', 'CARHR120170' => 'chi', 'CARHR203310' => 'chi', 'CARHR221490' => 'chi', 'Carub.0001s1054' => 'cru', 'Carub.0002s0431' => 'cru', 'Carub.0004s0818' => 'cru', 'Carub.0006s0846' => 'cru', 'Carub.0007s2722' => 'cru', 'Ca_00058_v3' => 'car', 'Ca_17831_v3' => 'car', 'Ca_19408_v3' => 'car', 'Ca_24397_v3' => 'car', 'Ca_25664_v3' => 'car', 'CBR_g21818' => 'cbr', 'CBR_g31195' => 'cbr', 'CBR_g32282' => 'cbr', 'CBR_g39599' => 'cbr', 'CBR_g49410' => 'cbr', 'Cc01_g09120' => 'ccan', 'Cc01_g09130' => 'ccan', 'Cc02_g09630' => 'ccan', 'Cc02_g22810' => 'ccan', 'Cc03_g03810' => 'ccan', 'CDE02G3718' => 'cde', 'CDE04G3183' => 'cde', 'CDE07G1046' => 'cde', 'CDE08G0480' => 'cde', 'Cfa005493' => 'cfa', 'Cfa010312' => 'cfa', 'Cfa015648' => 'cfa', 'Ciclev10002793m.g' => 'ccl', 'Ciclev10003356m.g' => 'ccl', 'Ciclev10006141m.g' => 'ccl', 'Ciclev10016676m.g' => 'ccl', 'Ciclev10017081m.g' => 'ccl', 'Ciclev10029499m.g' => 'ccl', 'CiPaw.01G166300' => 'cil', 'CiPaw.06G145600' => 'cil', 'CiPaw.13G040100' => 'cil', 'CiPaw.13G135800' => 'cil', 'ClCG01G012230' => 'cla', 'ClCG05G009510' => 'cla', 'ClCG08G008270' => 'cla', 'COL.COLO4_11763' => 'col', 'COL.COLO4_19876' => 'col', 'COL.COLO4_21481' => 'col', 'Cpa.g.sc118.34' => 'cpa', 'Cpa.g.sc32.13' => 'cpa', 'Cpa.g.sc58.103' => 'cpa', 'Cre03.g183850' => 'cre', 'Cre06.g306350' => 'cre', 'Cre07.g334800' => 'cre', 'Cre12.g487900' => 'cre', 'Cre14.g626700' => 'cre', 'Cre16.g658400' => 'cre', 'Cre17.g700950' => 'cre', 'CsaV3_1G014830' => 'csa', 'CsaV3_3G013320' => 'csa', 'CsaV3_3G019210' => 'csa', 'CsaV3_3G019220' => 'csa', 'CsaV3_6G004230' => 'csa', 'CSS0003773' => 'camsi', 'CSS0004563' => 'camsi', 'CSS0013949' => 'camsi', 'CSS0025971' => 'camsi', 'CSS0028570' => 'camsi', 'CSS0033127' => 'camsi', 'CSS0036051' => 'camsi', 'CSS0040087' => 'camsi', 'CSS0043179' => 'camsi', 'DCAR_006161' => 'dca', 'DCAR_010351' => 'dca', 'DCAR_012197' => 'dca', 'DCAR_024162' => 'dca', 'Dinv01030' => 'din', 'Dinv10924' => 'din', 'Dinv11835' => 'din', 'Dinv22841' => 'din', 'Dinv42553' => 'din', 'Duzib052G0560' => 'dzi', 'Duzib132G0389' => 'dzi', 'Duzib150G1181' => 'dzi', 'Duzib168G0623' => 'dzi', 'Duzib170G1036' => 'dzi', 'Duzib212G0200' => 'dzi', 'Duzib248G0194' => 'dzi', 'ECA232G2193' => 'eca', 'ECA233G0302' => 'eca', 'ECA234G2813' => 'eca', 'ECA234G4866' => 'eca', 'ECA240G3932' => 'eca', 'ECA248G0385' => 'eca', 'EL10Ac2g04781' => 'bvu', 'EL10Ac3g06445' => 'bvu', 'EL10Ac7g15825' => 'bvu', 'EL10Ac8g18550' => 'bvu', 'Eucgr.B03849' => 'egr', 'Eucgr.I02744' => 'egr', 'Eucgr.J00264' => 'egr', 'Eucgr.J00493' => 'egr', 'FAN04G2181' => 'fan', 'FAN07G2666' => 'fan', 'FAN11G0024' => 'fan', 'FAN12G1105' => 'fan', 'FAN13G0302' => 'fan', 'FAN15G2781' => 'fan', 'FAN16G1274' => 'fan', 'FAN17G2988' => 'fan', 'FAN18G2621' => 'fan', 'FAN21G0013' => 'fan', 'FAN22G1211' => 'fan', 'FAN25G3626' => 'fan', 'FvH4_2g09491' => 'fve', 'FvH4_3g24910' => 'fve', 'FvH4_4g15630' => 'fve', 'FvH4_5g28820' => 'fve', 'Glyma.01G238000' => 'gma', 'Glyma.05G168400' => 'gma', 'Glyma.08G126800' => 'gma', 'Glyma.08G188500' => 'gma', 'Glyma.10G278900' => 'gma', 'Glyma.11G005700' => 'gma', 'Glyma.11G183300' => 'gma', 'Glyma.12G089200' => 'gma', 'Glyma.12G169400' => 'gma', 'Glyma.12G169500' => 'gma', 'Glyma.12G169600' => 'gma', 'Glyma.20G110800' => 'gma', 'Gohir.A03G192900' => 'ghi', 'Gohir.A03G193000' => 'ghi', 'Gohir.A05G080700' => 'ghi', 'Gohir.A09G216000' => 'ghi', 'Gohir.A12G027700' => 'ghi', 'Gohir.A13G036200' => 'ghi', 'Gohir.A13G222600' => 'ghi', 'Gohir.D02G213900' => 'ghi', 'Gohir.D02G214000' => 'ghi', 'Gohir.D05G083700' => 'ghi', 'Gohir.D05G083800' => 'ghi', 'Gohir.D05G083850' => 'ghi', 'Gohir.D08G015400' => 'ghi', 'Gohir.D09G218400' => 'ghi', 'Gohir.D12G027100' => 'ghi', 'Gohir.D13G034500' => 'ghi', 'Gohir.D13G227400' => 'ghi', 'Gorai.005G241800' => 'gra', 'Gorai.005G241900' => 'gra', 'Gorai.006G239400' => 'gra', 'Gorai.008G027600' => 'gra', 'Gorai.009G085400' => 'gra', 'Gorai.009G085500' => 'gra', 'Gorai.013G039000' => 'gra', 'Gorai.013G194800' => 'gra', 'Gorai.013G257900' => 'gra', 'GSVIVG01000982001' => 'vvi', 'GSVIVG01017981001' => 'vvi', 'HanXRQChr01g0024061' => 'han', 'HanXRQChr09g0247831' => 'han', 'HanXRQChr10g0294611' => 'han', 'HanXRQChr10g0294621' => 'han', 'HanXRQChr11g0346821' => 'han', 'HanXRQChr13g0397461' => 'han', 'HanXRQChr16g0513651' => 'han', 'HanXRQChr16g0513701' => 'han', 'Haze_00897' => 'cav', 'Haze_01745' => 'cav', 'Haze_02486' => 'cav', 'Haze_02487' => 'cav', 'Haze_23374' => 'cav', 'Hma1.2p1_0578F.1_g182520' => 'hma', 'Hma1.2p1_0602F.1_g187350' => 'hma', 'Hma1.2p1_0602F.1_g187360' => 'hma', 'Hma1.2p1_0874F.1_g231320' => 'hma', 'Hma1.2p1_1197F.1_g266210' => 'hma', 'Hma1.2p1_1197F.1_g266220' => 'hma', 'Hma1.2p1_2167F.1_g315895' => 'hma', 'Hma1.2p1_2190F.1_g316640' => 'hma', 'Hma1.2p1_3645F.1_g337153' => 'hma', 'HPP92_004907' => 'vpl', 'HPP92_012134' => 'vpl', 'HPP92_025136' => 'vpl', 'HPP92_026087' => 'vpl', 'Hund06782' => 'sun', 'Hund06784' => 'sun', 'Lalb_Chr01g0004861' => 'lal', 'Lalb_Chr02g0140591' => 'lal', 'Lalb_Chr02g0140611' => 'lal', 'Lalb_Chr03g0028101' => 'lal', 'Lalb_Chr07g0185791' => 'lal', 'Lalb_Chr12g0204491' => 'lal', 'Lalb_Chr13g0295671' => 'lal', 'Lalb_Chr19g0136461' => 'lal', 'Lalb_Chr21g0309191' => 'lal', 'Lj1g0028158' => 'lja', 'Lj1P236T38' => 'lonja', 'Lj2C32G2' => 'lonja', 'Lj2P944T8' => 'lonja', 'Lj2P963T15' => 'lonja', 'Lj3g0011788' => 'lja', 'Lj4g0025027' => 'lja', 'Lj5P255T36' => 'lonja', 'Lj6g0018866' => 'lja', 'Lj6P608T31' => 'lonja', 'LjContig00408g0008879' => 'lja', 'Lsat_1_v5_gn_5_105820' => 'lsa', 'Lsat_1_v5_gn_6_38800' => 'lsa', 'Lsat_1_v5_gn_7_67141' => 'lsa', 'Manes.04G003400' => 'mes', 'Manes.07G020000' => 'mes', 'Manes.07G020100' => 'mes', 'Manes.07G020150' => 'mes', 'Manes.10G061500' => 'mes', 'Manes.10G123200' => 'mes', 'Manes.11G161900' => 'mes', 'Manes.15G029300' => 'mes', 'Mapoly0071s0018' => 'mpo', 'Mapoly0082s0023' => 'mpo', 'Mapoly3477s0001' => 'mpo', 'MBI05_g31233_MAGBIO' => 'mbi', 'MBI09_g05946_MAGBIO' => 'mbi', 'MBI09_g05947_MAGBIO' => 'mbi', 'MBI17_g08346_MAGBIO' => 'mbi', 'MCO04G038' => 'mco', 'MCO09G370' => 'mco', 'MCO13G605' => 'mco', 'MD00G1075500' => 'mdo', 'MD03G1144300' => 'mdo', 'MD08G1236800' => 'mdo', 'MD13G1193300' => 'mdo', 'MD15G1428700' => 'mdo', 'Medtr1g112030' => 'mtr', 'Medtr1g112050' => 'mtr', 'Medtr2g006290' => 'mtr', 'Medtr2g086510' => 'mtr', 'Medtr4g053120' => 'mtr', 'Medtr5g006320' => 'mtr', 'Medtr8g088720' => 'mtr', 'MELO3C004712.2' => 'cme', 'MELO3C006533.2' => 'cme', 'MELO3C019438.2' => 'cme', 'MELO3C019440.2' => 'cme', 'MELO3C019441.2' => 'cme', 'MELO3C019895.2' => 'cme', 'Migut.B00811' => 'egut', 'Migut.D02447' => 'egut', 'Migut.F00875' => 'egut', 'Migut.N00186' => 'egut', 'Migut.N01051' => 'egut', 'Migut.N02491' => 'egut', 'Migut.O00784' => 'egut', 'MSTRG.12367' => 'ama', 'MSTRG.18756' => 'ama', 'MSTRG.21042' => 'ama', 'Nitab4.5_0000559g0040' => 'nta', 'Nitab4.5_0000667g0190' => 'nta', 'Nitab4.5_0000755g0160' => 'nta', 'Nitab4.5_0001216g0080' => 'nta', 'Nitab4.5_0004069g0040' => 'nta', 'Nitab4.5_0004129g0010' => 'nta', 'Nitab4.5_0005744g0030' => 'nta', 'Nitab4.5_0006996g0030' => 'nta', 'Nitab4.5_0008971g0040' => 'nta', 'Nitab4.5_0009769g0020' => 'nta', 'Nitab4.5_0009833g0010' => 'nta', 'Nitab4.5_0013140g0020' => 'nta', 'Nn003s41376' => 'nnu', 'Nn1g01857' => 'nnu', 'Nn1g03611' => 'nnu', 'Nn1g06853' => 'nnu', 'Nn3g18360' => 'nnu', 'Nn4g26328' => 'nnu', 'Nn5g27531' => 'nnu', 'Nn6g34899' => 'nnu', 'Nn7g36299' => 'nnu', 'Oeu021485.1' => 'oeu', 'Oeu022433.1' => 'oeu', 'Oeu032111.1' => 'oeu', 'Oeu051608.1' => 'oeu', 'Os01g0860601' => 'osa', 'Os03g0659200' => 'osa', 'Os03g0835900' => 'osa', 'Os04g0412200' => 'osa', 'Os05g0443500' => 'osa', 'Os07g0251500' => 'osa', 'Os08g0104600' => 'osa', 'Peaxi162Scf00003g00047' => 'pax', 'Peaxi162Scf00003g00052' => 'pax', 'Peaxi162Scf00003g00394' => 'pax', 'Peaxi162Scf00091g00621' => 'pax', 'Peaxi162Scf00152g00146' => 'pax', 'Peaxi162Scf00173g00025' => 'pax', 'Peaxi162Scf00195g00102' => 'pax', 'Peaxi162Scf00402g00013' => 'pax', 'Peaxi162Scf00519g00618' => 'pax', 'PGR004G2838' => 'pgr', 'PGR044G2275' => 'pgr', 'PGR102G1377' => 'pgr', 'PGR119G1245' => 'pgr', 'PGR142G4449' => 'pgr', 'PGSC0003DMG400004532' => 'stu', 'PGSC0003DMG400011950' => 'stu', 'PGSC0003DMG400023391' => 'stu', 'PGSC0003DMG400023985' => 'stu', 'PGSC0003DMG400026360' => 'stu', 'PGSC0003DMG400035711' => 'stu', 'PGSC0003DMG400037286' => 'stu', 'PGSC0003DMG402005881' => 'stu', 'Phvul.002G045400' => 'pvu', 'Phvul.006G216600' => 'pvu', 'Phvul.006G216700' => 'pvu', 'Phvul.006G216800' => 'pvu', 'Phvul.007G022500' => 'pvu', 'Phvul.011G094400' => 'pvu', 'Potri.001G470700' => 'ptr', 'Potri.003G015200' => 'ptr', 'Potri.004G202500' => 'ptr', 'Potri.004G218400' => 'ptr', 'Potri.008G020100' => 'ptr', 'Potri.008G153200' => 'ptr', 'Potri.009G163800' => 'ptr', 'Potri.010G087300' => 'ptr', 'Potri.010G239100' => 'ptr', 'Pp3c10_16100' => 'ppa', 'Pp3c10_16880' => 'ppa', 'Pp3c16_6230' => 'ppa', 'Pp3c17_18910' => 'ppa', 'Pp3c3_22119' => 'ppa', 'Pp3c3_22140' => 'ppa', 'Pp3c4_8159' => 'ppa', 'Pp3c4_8171' => 'ppa', 'Pp3c4_8330' => 'ppa', 'PRCOL_00004098' => 'pco', 'Prupe.1G013900' => 'ppe', 'Prupe.1G226300' => 'ppe', 'Prupe.1G573600' => 'ppe', 'Prupe.6G130100' => 'ppe', 'Psat3g090040' => 'psa', 'Psat4g210440' => 'psa', 'Psat6g231040' => 'psa', 'Psat6g231080' => 'psa', 'Psat7g063000' => 'psa', 'Psat7g188000' => 'psa', 'Psat7g188040' => 'psa', 'PSO017G0206' => 'pso', 'PSO170G0501' => 'pso', 'PSO170G6422' => 'pso', 'PSO210G7739' => 'pso', 'PSO339G1808' => 'pso', 'PSO339G6135' => 'pso', 'PSO384G0010' => 'pso', 'PSO384G0964' => 'pso', 'PSO761G0050' => 'pso', 'PSO782G4085' => 'pso', 'QL01p012264' => 'qlo', 'QL02p099491' => 'qlo', 'QL03p033868' => 'qlo', 'QL04p046678' => 'qlo', 'QL06p002448' => 'qlo', 'RcHm_v2.0_Chr4g0416181' => 'rch', 'RcHm_v2.0_Chr5g0044701' => 'rch', 'RcHm_v2.0_Chr6g0265781' => 'rch', 'RcHm_v2.0_Chr7g0221031' => 'rch', 'Rhsim04G0202000' => 'rsi', 'Rhsim11G0127300' => 'rsi', 'Rhsim13G0111800' => 'rsi', 'Sabra01G0165600' => 'sbr', 'Sabra03G0008300' => 'sbr', 'Sabra04G0136900' => 'sbr', 'Sabra08G0013400' => 'sbr', 'Sabra08G0116800' => 'sbr', 'Sabra09G0128000' => 'sbr', 'Sabra10G0055500' => 'sbr', 'Sabra10G0073300' => 'sbr', 'SalBow3G0385' => 'sbo', 'SalBow3G1119' => 'sbo', 'SalBow3G2005' => 'sbo', 'SalBow6G2563' => 'sbo', 'SalBow6G6386' => 'sbo', 'Sc06g0008800' => 'sci', 'Sc07g0004950' => 'sci', 'Sc09g0005340' => 'sci', 'Sc13g0004410' => 'sci', 'Sc21g0007090' => 'sci', 'Sed0009285' => 'sed', 'Sed0017583' => 'sed', 'Sed0019699' => 'sed', 'Sed0023107' => 'sed', 'SEGI_10916' => 'sgi', 'SEGI_16217' => 'sgi', 'SEGI_19466' => 'sgi', 'SEGI_41115' => 'sgi', 'SGA_v2.0_scaffold111G31534' => 'sas', 'SGA_v2.0_scaffold22G09864' => 'sas', 'SGA_v2.0_scaffold338G49219' => 'sas', 'SGA_v2.0_scaffold92G28298' => 'sas', 'SMO119G0064' => 'smo', 'SMO223G0038' => 'smo', 'SMO347G0584' => 'smo', 'SMO351G0010' => 'smo', 'SMO356G0404' => 'smo', 'Solyc01g103920.3' => 'sly', 'Solyc04g009710.2' => 'sly', 'Solyc05g055280.2' => 'sly', 'Solyc10g044520.3' => 'sly', 'Solyc10g075160.1' => 'sly', 'Solyc11g006910.3' => 'sly', 'Solyc11g068430.3' => 'sly', 'Sopen01g046310' => 'spe', 'Sopen03g001200' => 'spe', 'Sopen04g004830' => 'spe', 'Sopen05g033720' => 'spe', 'Sopen06g030740' => 'spe', 'Sopen10g013090' => 'spe', 'Sopen10g027630' => 'spe', 'Sopen10g027640' => 'spe', 'Sopen11g002820' => 'spe', 'Sopen11g027140' => 'spe', 'Sp1g09680' => 'spa', 'Sp2g03630' => 'spa', 'Sp4g10320' => 'spa', 'Sp6g33400' => 'spa', 'Sp7g13030' => 'spa', 'TAR365G0317' => 'tar', 'TAR376G0979' => 'tar', 'TAR623G1665' => 'tar', 'TAR633G2373' => 'tar', 'TAR636G1400' => 'tar', 'THA.LOC104800529' => 'tha', 'THA.LOC104808547' => 'tha', 'THA.LOC104809615' => 'tha', 'THA.LOC104815724' => 'tha', 'THA.LOC104818480' => 'tha', 'THA.LOC104819179' => 'tha', 'THA.LOC104822270' => 'tha', 'THA.LOC104826425' => 'tha', 'Thecc.02G089700' => 'tca', 'Thecc.04G232300' => 'tca', 'Thecc.09G283400' => 'tca', 'Thhalv10009020m.g' => 'esa', 'Thhalv10015506m.g' => 'esa', 'Thhalv10017364m.g' => 'esa', 'Thhalv10023742m.g' => 'esa', 'Thhalv10026483m.g' => 'esa', 'TPR.G17232' => 'tpr', 'TPR.G2133' => 'tpr', 'TPR.G2498' => 'tpr', 'TPR.G31942' => 'tpr', 'TPR.G37877' => 'tpr', 'TPR.G4571' => 'tpr', 'TWI14G1113' => 'twi', 'TWI15G0426' => 'twi', 'TWI31G1005' => 'twi', 'TWI38G0513' => 'twi', 'TWI38G1484' => 'twi', 'TWI73G1098' => 'twi', 'unitig_26.g10519' => 'ugi', 'unitig_736.g22395' => 'ugi', 'unitig_747.g21234' => 'ugi', 'unitig_747.g21942' => 'ugi', 'vmacro14351' => 'vma', 'VMungo0540G0082' => 'vmu', 'VMungo0540G0405' => 'vmu', 'VMungo0540G1486' => 'vmu', 'VMungo0540G1692' => 'vmu', 'VMungo0720G2473' => 'vmu', 'VMungo1127G1562' => 'vmu', 'VMungo1215G1918' => 'vmu', 'Zm00001eb052650' => 'zma', 'Zm00001eb063710' => 'zma', 'Zm00001eb083950' => 'zma', 'Zm00001eb174420' => 'zma', 'Zm00001eb260140' => 'zma', 'Zm00001eb260150' => 'zma', 'Zm00001eb260160' => 'zma', 'Zm00001eb348290' => 'zma', 'Zm00001eb366870' => 'zma', 'Zm00001eb421930' => 'zma' ), 'gf_id' => 'HOM05D001025', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001025' ), 'data_identifier' => 'HOM05D001025', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001025', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '592', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p22650' => 'bna', 'A01p29720' => 'bna', 'A03p26560' => 'bna', 'A03p68820' => 'bna', 'A04p20980' => 'bna', 'A06p07730' => 'bna', 'A07p18260' => 'bna', 'A08p33710' => 'bna', 'A09p16970' => 'bna', 'A10p27490' => 'bna', 'Aa31LG1G17300' => 'aar', 'Aa31LG1G3910' => 'aar', 'Aa31LG2G9630' => 'aar', 'Aa31LG5G8360' => 'aar', 'Aa31LG9G2410' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4699' => 'aag', 'Actinidia23512' => 'ach', 'Actinidia37080' => 'ach', 'Ah.01g020380' => 'amhyb', 'Ah.08g215710' => 'amhyb', 'Ah.09g225110' => 'amhyb', 'Ah.10g036680' => 'amhyb', 'AL1G21940' => 'aly', 'AL2G15540' => 'aly', 'AL4G21520' => 'aly', 'AL7G40960' => 'aly', 'Aqoxy2G01191' => 'aox', 'Aqoxy2G03393' => 'aox', 'Aqoxy4G02775' => 'aox', 'Aqoxy6G00058' => 'aox', 'arahy.Tifrunner.gnm1.ann1.9X74H2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CW3FX9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R485W7' => 'arhy', 'AT1G10960' => 'ath', 'AT1G60950' => 'ath', 'AT2G27510' => 'ath', 'AT4G14890' => 'ath', 'AT5G10000' => 'ath', 'ATR0665G624' => 'atr', 'ATR0697G138' => 'atr', 'ATR0776G046' => 'atr', 'ATR1134G135' => 'atr', 'Atru.chr12.1025' => 'acertr', 'Atru.chr3.3241' => 'acertr', 'Atru.chr4.2460' => 'acertr', 'AUR62007427' => 'cqu', 'AUR62010960' => 'cqu', 'AUR62012201' => 'cqu', 'AUR62021470' => 'cqu', 'AUR62022834' => 'cqu', 'AUR62033635' => 'cqu', 'AUR62036186' => 'cqu', 'BcaB01g03077' => 'bca', 'BcaB02g10093' => 'bca', 'BcaB04g20295' => 'bca', 'BcaB06g28147' => 'bca', 'BcaB07g31253' => 'bca', 'BcaC01g04946' => 'bca', 'BcaC02g10614' => 'bca', 'BcaC02g10885' => 'bca', 'BcaC04g19356' => 'bca', 'BcaC04g22297' => 'bca', 'BcaC05g24977' => 'bca', 'BcaC06g31823' => 'bca', 'BcaC07g38633' => 'bca', 'BcaC09g49353' => 'bca', 'BcaC09g50168' => 'bca', 'BcaNung00322' => 'bca', 'BcaNung04769' => 'bca', 'BolC1t02753H' => 'bol', 'BolC1t03721H' => 'bol', 'BolC3t15525H' => 'bol', 'BolC4t23903H' => 'bol', 'BolC4t24231H' => 'bol', 'BolC4t27209H' => 'bol', 'BolC5t29671H' => 'bol', 'BolC8t49044H' => 'bol', 'BolC9t54999H' => 'bol', 'BolC9t59517H' => 'bol', 'BraA01t02178Z' => 'bra', 'BraA01t03099Z' => 'bra', 'BraA03t11867Z' => 'bra', 'BraA04t17667Z' => 'bra', 'BraA07t29542Z' => 'bra', 'BraA08t35287Z' => 'bra', 'BraA09t37334Z' => 'bra', 'BraA10t44801Z' => 'bra', 'BraSC39t46181Z' => 'bra', 'C01p28240' => 'bna', 'C01p37530' => 'bna', 'C03p31820' => 'bna', 'C04p24080' => 'bna', 'C04p25790' => 'bna', 'C04p56770' => 'bna', 'C05p09310' => 'bna', 'C09p21010' => 'bna', 'C09p67560' => 'bna', 'CAN.G1324.7' => 'can', 'CAN.G1358.10' => 'can', 'CAN.G1550.2' => 'can', 'CAN.G186.56' => 'can', 'CAN.G1965.1' => 'can', 'CAN.G645.15' => 'can', 'CAN.G798.26' => 'can', 'CAN.G798.27' => 'can', 'CAN.G798.29' => 'can', 'CAN.G919.31' => 'can', 'CANSAT11G0133' => 'cansat', 'CANSAT11G1171' => 'cansat', 'CANSAT11G2056' => 'cansat', 'CANSAT56G1202' => 'cansat', 'CANSAT56G1514' => 'cansat', 'CANSAT78G0455' => 'cansat', 'CARHR011190' => 'chi', 'CARHR051980' => 'chi', 'CARHR120170' => 'chi', 'CARHR203310' => 'chi', 'CARHR221490' => 'chi', 'Carub.0001s1054' => 'cru', 'Carub.0002s0431' => 'cru', 'Carub.0004s0818' => 'cru', 'Carub.0006s0846' => 'cru', 'Carub.0007s2722' => 'cru', 'Ca_00058_v3' => 'car', 'Ca_17831_v3' => 'car', 'Ca_19408_v3' => 'car', 'Ca_24397_v3' => 'car', 'Ca_25664_v3' => 'car', 'CBR_g21818' => 'cbr', 'CBR_g31195' => 'cbr', 'CBR_g32282' => 'cbr', 'CBR_g39599' => 'cbr', 'CBR_g49410' => 'cbr', 'Cc01_g09120' => 'ccan', 'Cc01_g09130' => 'ccan', 'Cc02_g09630' => 'ccan', 'Cc02_g22810' => 'ccan', 'Cc03_g03810' => 'ccan', 'CDE02G3718' => 'cde', 'CDE04G3183' => 'cde', 'CDE07G1046' => 'cde', 'CDE08G0480' => 'cde', 'Cfa005493' => 'cfa', 'Cfa010312' => 'cfa', 'Cfa015648' => 'cfa', 'Ciclev10002793m.g' => 'ccl', 'Ciclev10003356m.g' => 'ccl', 'Ciclev10006141m.g' => 'ccl', 'Ciclev10016676m.g' => 'ccl', 'Ciclev10017081m.g' => 'ccl', 'Ciclev10029499m.g' => 'ccl', 'CiPaw.01G166300' => 'cil', 'CiPaw.06G145600' => 'cil', 'CiPaw.13G040100' => 'cil', 'CiPaw.13G135800' => 'cil', 'ClCG01G012230' => 'cla', 'ClCG05G009510' => 'cla', 'ClCG08G008270' => 'cla', 'COL.COLO4_11763' => 'col', 'COL.COLO4_19876' => 'col', 'COL.COLO4_21481' => 'col', 'Cpa.g.sc118.34' => 'cpa', 'Cpa.g.sc32.13' => 'cpa', 'Cpa.g.sc58.103' => 'cpa', 'Cre03.g183850' => 'cre', 'Cre06.g306350' => 'cre', 'Cre07.g334800' => 'cre', 'Cre12.g487900' => 'cre', 'Cre14.g626700' => 'cre', 'Cre16.g658400' => 'cre', 'Cre17.g700950' => 'cre', 'CsaV3_1G014830' => 'csa', 'CsaV3_3G013320' => 'csa', 'CsaV3_3G019210' => 'csa', 'CsaV3_3G019220' => 'csa', 'CsaV3_6G004230' => 'csa', 'CSS0003773' => 'camsi', 'CSS0004563' => 'camsi', 'CSS0013949' => 'camsi', 'CSS0025971' => 'camsi', 'CSS0028570' => 'camsi', 'CSS0033127' => 'camsi', 'CSS0036051' => 'camsi', 'CSS0040087' => 'camsi', 'CSS0043179' => 'camsi', 'DCAR_006161' => 'dca', 'DCAR_010351' => 'dca', 'DCAR_012197' => 'dca', 'DCAR_024162' => 'dca', 'Dinv01030' => 'din', 'Dinv10924' => 'din', 'Dinv11835' => 'din', 'Dinv22841' => 'din', 'Dinv42553' => 'din', 'Duzib052G0560' => 'dzi', 'Duzib132G0389' => 'dzi', 'Duzib150G1181' => 'dzi', 'Duzib168G0623' => 'dzi', 'Duzib170G1036' => 'dzi', 'Duzib212G0200' => 'dzi', 'Duzib248G0194' => 'dzi', 'ECA232G2193' => 'eca', 'ECA233G0302' => 'eca', 'ECA234G2813' => 'eca', 'ECA234G4866' => 'eca', 'ECA240G3932' => 'eca', 'ECA248G0385' => 'eca', 'EL10Ac2g04781' => 'bvu', 'EL10Ac3g06445' => 'bvu', 'EL10Ac7g15825' => 'bvu', 'EL10Ac8g18550' => 'bvu', 'Eucgr.B03849' => 'egr', 'Eucgr.I02744' => 'egr', 'Eucgr.J00264' => 'egr', 'Eucgr.J00493' => 'egr', 'FAN04G2181' => 'fan', 'FAN07G2666' => 'fan', 'FAN11G0024' => 'fan', 'FAN12G1105' => 'fan', 'FAN13G0302' => 'fan', 'FAN15G2781' => 'fan', 'FAN16G1274' => 'fan', 'FAN17G2988' => 'fan', 'FAN18G2621' => 'fan', 'FAN21G0013' => 'fan', 'FAN22G1211' => 'fan', 'FAN25G3626' => 'fan', 'FvH4_2g09491' => 'fve', 'FvH4_3g24910' => 'fve', 'FvH4_4g15630' => 'fve', 'FvH4_5g28820' => 'fve', 'Glyma.01G238000' => 'gma', 'Glyma.05G168400' => 'gma', 'Glyma.08G126800' => 'gma', 'Glyma.08G188500' => 'gma', 'Glyma.10G278900' => 'gma', 'Glyma.11G005700' => 'gma', 'Glyma.11G183300' => 'gma', 'Glyma.12G089200' => 'gma', 'Glyma.12G169400' => 'gma', 'Glyma.12G169500' => 'gma', 'Glyma.12G169600' => 'gma', 'Glyma.20G110800' => 'gma', 'Gohir.A03G192900' => 'ghi', 'Gohir.A03G193000' => 'ghi', 'Gohir.A05G080700' => 'ghi', 'Gohir.A09G216000' => 'ghi', 'Gohir.A12G027700' => 'ghi', 'Gohir.A13G036200' => 'ghi', 'Gohir.A13G222600' => 'ghi', 'Gohir.D02G213900' => 'ghi', 'Gohir.D02G214000' => 'ghi', 'Gohir.D05G083700' => 'ghi', 'Gohir.D05G083800' => 'ghi', 'Gohir.D05G083850' => 'ghi', 'Gohir.D08G015400' => 'ghi', 'Gohir.D09G218400' => 'ghi', 'Gohir.D12G027100' => 'ghi', 'Gohir.D13G034500' => 'ghi', 'Gohir.D13G227400' => 'ghi', 'Gorai.005G241800' => 'gra', 'Gorai.005G241900' => 'gra', 'Gorai.006G239400' => 'gra', 'Gorai.008G027600' => 'gra', 'Gorai.009G085400' => 'gra', 'Gorai.009G085500' => 'gra', 'Gorai.013G039000' => 'gra', 'Gorai.013G194800' => 'gra', 'Gorai.013G257900' => 'gra', 'GSVIVG01000982001' => 'vvi', 'GSVIVG01017981001' => 'vvi', 'HanXRQChr01g0024061' => 'han', 'HanXRQChr09g0247831' => 'han', 'HanXRQChr10g0294611' => 'han', 'HanXRQChr10g0294621' => 'han', 'HanXRQChr11g0346821' => 'han', 'HanXRQChr13g0397461' => 'han', 'HanXRQChr16g0513651' => 'han', 'HanXRQChr16g0513701' => 'han', 'Haze_00897' => 'cav', 'Haze_01745' => 'cav', 'Haze_02486' => 'cav', 'Haze_02487' => 'cav', 'Haze_23374' => 'cav', 'Hma1.2p1_0578F.1_g182520' => 'hma', 'Hma1.2p1_0602F.1_g187350' => 'hma', 'Hma1.2p1_0602F.1_g187360' => 'hma', 'Hma1.2p1_0874F.1_g231320' => 'hma', 'Hma1.2p1_1197F.1_g266210' => 'hma', 'Hma1.2p1_1197F.1_g266220' => 'hma', 'Hma1.2p1_2167F.1_g315895' => 'hma', 'Hma1.2p1_2190F.1_g316640' => 'hma', 'Hma1.2p1_3645F.1_g337153' => 'hma', 'HPP92_004907' => 'vpl', 'HPP92_012134' => 'vpl', 'HPP92_025136' => 'vpl', 'HPP92_026087' => 'vpl', 'Hund06782' => 'sun', 'Hund06784' => 'sun', 'Lalb_Chr01g0004861' => 'lal', 'Lalb_Chr02g0140591' => 'lal', 'Lalb_Chr02g0140611' => 'lal', 'Lalb_Chr03g0028101' => 'lal', 'Lalb_Chr07g0185791' => 'lal', 'Lalb_Chr12g0204491' => 'lal', 'Lalb_Chr13g0295671' => 'lal', 'Lalb_Chr19g0136461' => 'lal', 'Lalb_Chr21g0309191' => 'lal', 'Lj1g0028158' => 'lja', 'Lj1P236T38' => 'lonja', 'Lj2C32G2' => 'lonja', 'Lj2P944T8' => 'lonja', 'Lj2P963T15' => 'lonja', 'Lj3g0011788' => 'lja', 'Lj4g0025027' => 'lja', 'Lj5P255T36' => 'lonja', 'Lj6g0018866' => 'lja', 'Lj6P608T31' => 'lonja', 'LjContig00408g0008879' => 'lja', 'Lsat_1_v5_gn_5_105820' => 'lsa', 'Lsat_1_v5_gn_6_38800' => 'lsa', 'Lsat_1_v5_gn_7_67141' => 'lsa', 'Manes.04G003400' => 'mes', 'Manes.07G020000' => 'mes', 'Manes.07G020100' => 'mes', 'Manes.07G020150' => 'mes', 'Manes.10G061500' => 'mes', 'Manes.10G123200' => 'mes', 'Manes.11G161900' => 'mes', 'Manes.15G029300' => 'mes', 'Mapoly0071s0018' => 'mpo', 'Mapoly0082s0023' => 'mpo', 'Mapoly3477s0001' => 'mpo', 'MBI05_g31233_MAGBIO' => 'mbi', 'MBI09_g05946_MAGBIO' => 'mbi', 'MBI09_g05947_MAGBIO' => 'mbi', 'MBI17_g08346_MAGBIO' => 'mbi', 'MCO04G038' => 'mco', 'MCO09G370' => 'mco', 'MCO13G605' => 'mco', 'MD00G1075500' => 'mdo', 'MD03G1144300' => 'mdo', 'MD08G1236800' => 'mdo', 'MD13G1193300' => 'mdo', 'MD15G1428700' => 'mdo', 'Medtr1g112030' => 'mtr', 'Medtr1g112050' => 'mtr', 'Medtr2g006290' => 'mtr', 'Medtr2g086510' => 'mtr', 'Medtr4g053120' => 'mtr', 'Medtr5g006320' => 'mtr', 'Medtr8g088720' => 'mtr', 'MELO3C004712.2' => 'cme', 'MELO3C006533.2' => 'cme', 'MELO3C019438.2' => 'cme', 'MELO3C019440.2' => 'cme', 'MELO3C019441.2' => 'cme', 'MELO3C019895.2' => 'cme', 'Migut.B00811' => 'egut', 'Migut.D02447' => 'egut', 'Migut.F00875' => 'egut', 'Migut.N00186' => 'egut', 'Migut.N01051' => 'egut', 'Migut.N02491' => 'egut', 'Migut.O00784' => 'egut', 'MSTRG.12367' => 'ama', 'MSTRG.18756' => 'ama', 'MSTRG.21042' => 'ama', 'Nitab4.5_0000559g0040' => 'nta', 'Nitab4.5_0000667g0190' => 'nta', 'Nitab4.5_0000755g0160' => 'nta', 'Nitab4.5_0001216g0080' => 'nta', 'Nitab4.5_0004069g0040' => 'nta', 'Nitab4.5_0004129g0010' => 'nta', 'Nitab4.5_0005744g0030' => 'nta', 'Nitab4.5_0006996g0030' => 'nta', 'Nitab4.5_0008971g0040' => 'nta', 'Nitab4.5_0009769g0020' => 'nta', 'Nitab4.5_0009833g0010' => 'nta', 'Nitab4.5_0013140g0020' => 'nta', 'Nn003s41376' => 'nnu', 'Nn1g01857' => 'nnu', 'Nn1g03611' => 'nnu', 'Nn1g06853' => 'nnu', 'Nn3g18360' => 'nnu', 'Nn4g26328' => 'nnu', 'Nn5g27531' => 'nnu', 'Nn6g34899' => 'nnu', 'Nn7g36299' => 'nnu', 'Oeu021485.1' => 'oeu', 'Oeu022433.1' => 'oeu', 'Oeu032111.1' => 'oeu', 'Oeu051608.1' => 'oeu', 'Os01g0860601' => 'osa', 'Os03g0659200' => 'osa', 'Os03g0835900' => 'osa', 'Os04g0412200' => 'osa', 'Os05g0443500' => 'osa', 'Os07g0251500' => 'osa', 'Os08g0104600' => 'osa', 'Peaxi162Scf00003g00047' => 'pax', 'Peaxi162Scf00003g00052' => 'pax', 'Peaxi162Scf00003g00394' => 'pax', 'Peaxi162Scf00091g00621' => 'pax', 'Peaxi162Scf00152g00146' => 'pax', 'Peaxi162Scf00173g00025' => 'pax', 'Peaxi162Scf00195g00102' => 'pax', 'Peaxi162Scf00402g00013' => 'pax', 'Peaxi162Scf00519g00618' => 'pax', 'PGR004G2838' => 'pgr', 'PGR044G2275' => 'pgr', 'PGR102G1377' => 'pgr', 'PGR119G1245' => 'pgr', 'PGR142G4449' => 'pgr', 'PGSC0003DMG400004532' => 'stu', 'PGSC0003DMG400011950' => 'stu', 'PGSC0003DMG400023391' => 'stu', 'PGSC0003DMG400023985' => 'stu', 'PGSC0003DMG400026360' => 'stu', 'PGSC0003DMG400035711' => 'stu', 'PGSC0003DMG400037286' => 'stu', 'PGSC0003DMG402005881' => 'stu', 'Phvul.002G045400' => 'pvu', 'Phvul.006G216600' => 'pvu', 'Phvul.006G216700' => 'pvu', 'Phvul.006G216800' => 'pvu', 'Phvul.007G022500' => 'pvu', 'Phvul.011G094400' => 'pvu', 'Potri.001G470700' => 'ptr', 'Potri.003G015200' => 'ptr', 'Potri.004G202500' => 'ptr', 'Potri.004G218400' => 'ptr', 'Potri.008G020100' => 'ptr', 'Potri.008G153200' => 'ptr', 'Potri.009G163800' => 'ptr', 'Potri.010G087300' => 'ptr', 'Potri.010G239100' => 'ptr', 'Pp3c10_16100' => 'ppa', 'Pp3c10_16880' => 'ppa', 'Pp3c16_6230' => 'ppa', 'Pp3c17_18910' => 'ppa', 'Pp3c3_22119' => 'ppa', 'Pp3c3_22140' => 'ppa', 'Pp3c4_8159' => 'ppa', 'Pp3c4_8171' => 'ppa', 'Pp3c4_8330' => 'ppa', 'PRCOL_00004098' => 'pco', 'Prupe.1G013900' => 'ppe', 'Prupe.1G226300' => 'ppe', 'Prupe.1G573600' => 'ppe', 'Prupe.6G130100' => 'ppe', 'Psat3g090040' => 'psa', 'Psat4g210440' => 'psa', 'Psat6g231040' => 'psa', 'Psat6g231080' => 'psa', 'Psat7g063000' => 'psa', 'Psat7g188000' => 'psa', 'Psat7g188040' => 'psa', 'PSO017G0206' => 'pso', 'PSO170G0501' => 'pso', 'PSO170G6422' => 'pso', 'PSO210G7739' => 'pso', 'PSO339G1808' => 'pso', 'PSO339G6135' => 'pso', 'PSO384G0010' => 'pso', 'PSO384G0964' => 'pso', 'PSO761G0050' => 'pso', 'PSO782G4085' => 'pso', 'QL01p012264' => 'qlo', 'QL02p099491' => 'qlo', 'QL03p033868' => 'qlo', 'QL04p046678' => 'qlo', 'QL06p002448' => 'qlo', 'RcHm_v2.0_Chr4g0416181' => 'rch', 'RcHm_v2.0_Chr5g0044701' => 'rch', 'RcHm_v2.0_Chr6g0265781' => 'rch', 'RcHm_v2.0_Chr7g0221031' => 'rch', 'Rhsim04G0202000' => 'rsi', 'Rhsim11G0127300' => 'rsi', 'Rhsim13G0111800' => 'rsi', 'Sabra01G0165600' => 'sbr', 'Sabra03G0008300' => 'sbr', 'Sabra04G0136900' => 'sbr', 'Sabra08G0013400' => 'sbr', 'Sabra08G0116800' => 'sbr', 'Sabra09G0128000' => 'sbr', 'Sabra10G0055500' => 'sbr', 'Sabra10G0073300' => 'sbr', 'SalBow3G0385' => 'sbo', 'SalBow3G1119' => 'sbo', 'SalBow3G2005' => 'sbo', 'SalBow6G2563' => 'sbo', 'SalBow6G6386' => 'sbo', 'Sc06g0008800' => 'sci', 'Sc07g0004950' => 'sci', 'Sc09g0005340' => 'sci', 'Sc13g0004410' => 'sci', 'Sc21g0007090' => 'sci', 'Sed0009285' => 'sed', 'Sed0017583' => 'sed', 'Sed0019699' => 'sed', 'Sed0023107' => 'sed', 'SEGI_10916' => 'sgi', 'SEGI_16217' => 'sgi', 'SEGI_19466' => 'sgi', 'SEGI_41115' => 'sgi', 'SGA_v2.0_scaffold111G31534' => 'sas', 'SGA_v2.0_scaffold22G09864' => 'sas', 'SGA_v2.0_scaffold338G49219' => 'sas', 'SGA_v2.0_scaffold92G28298' => 'sas', 'SMO119G0064' => 'smo', 'SMO223G0038' => 'smo', 'SMO347G0584' => 'smo', 'SMO351G0010' => 'smo', 'SMO356G0404' => 'smo', 'Solyc01g103920.3' => 'sly', 'Solyc04g009710.2' => 'sly', 'Solyc05g055280.2' => 'sly', 'Solyc10g044520.3' => 'sly', 'Solyc10g075160.1' => 'sly', 'Solyc11g006910.3' => 'sly', 'Solyc11g068430.3' => 'sly', 'Sopen01g046310' => 'spe', 'Sopen03g001200' => 'spe', 'Sopen04g004830' => 'spe', 'Sopen05g033720' => 'spe', 'Sopen06g030740' => 'spe', 'Sopen10g013090' => 'spe', 'Sopen10g027630' => 'spe', 'Sopen10g027640' => 'spe', 'Sopen11g002820' => 'spe', 'Sopen11g027140' => 'spe', 'Sp1g09680' => 'spa', 'Sp2g03630' => 'spa', 'Sp4g10320' => 'spa', 'Sp6g33400' => 'spa', 'Sp7g13030' => 'spa', 'TAR365G0317' => 'tar', 'TAR376G0979' => 'tar', 'TAR623G1665' => 'tar', 'TAR633G2373' => 'tar', 'TAR636G1400' => 'tar', 'THA.LOC104800529' => 'tha', 'THA.LOC104808547' => 'tha', 'THA.LOC104809615' => 'tha', 'THA.LOC104815724' => 'tha', 'THA.LOC104818480' => 'tha', 'THA.LOC104819179' => 'tha', 'THA.LOC104822270' => 'tha', 'THA.LOC104826425' => 'tha', 'Thecc.02G089700' => 'tca', 'Thecc.04G232300' => 'tca', 'Thecc.09G283400' => 'tca', 'Thhalv10009020m.g' => 'esa', 'Thhalv10015506m.g' => 'esa', 'Thhalv10017364m.g' => 'esa', 'Thhalv10023742m.g' => 'esa', 'Thhalv10026483m.g' => 'esa', 'TPR.G17232' => 'tpr', 'TPR.G2133' => 'tpr', 'TPR.G2498' => 'tpr', 'TPR.G31942' => 'tpr', 'TPR.G37877' => 'tpr', 'TPR.G4571' => 'tpr', 'TWI14G1113' => 'twi', 'TWI15G0426' => 'twi', 'TWI31G1005' => 'twi', 'TWI38G0513' => 'twi', 'TWI38G1484' => 'twi', 'TWI73G1098' => 'twi', 'unitig_26.g10519' => 'ugi', 'unitig_736.g22395' => 'ugi', 'unitig_747.g21234' => 'ugi', 'unitig_747.g21942' => 'ugi', 'vmacro14351' => 'vma', 'VMungo0540G0082' => 'vmu', 'VMungo0540G0405' => 'vmu', 'VMungo0540G1486' => 'vmu', 'VMungo0540G1692' => 'vmu', 'VMungo0720G2473' => 'vmu', 'VMungo1127G1562' => 'vmu', 'VMungo1215G1918' => 'vmu', 'Zm00001eb052650' => 'zma', 'Zm00001eb063710' => 'zma', 'Zm00001eb083950' => 'zma', 'Zm00001eb174420' => 'zma', 'Zm00001eb260140' => 'zma', 'Zm00001eb260150' => 'zma', 'Zm00001eb260160' => 'zma', 'Zm00001eb348290' => 'zma', 'Zm00001eb366870' => 'zma', 'Zm00001eb421930' => 'zma' ) $gf_id = 'HOM05D001025' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001025' ) $data_identifier = 'HOM05D001025' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 19, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 2, 'amhyb' => (int) 4, 'aly' => (int) 4, 'aox' => (int) 4, 'arhy' => (int) 3, 'ath' => (int) 5, 'atr' => (int) 4, 'acertr' => (int) 3, 'cqu' => (int) 7, 'bca' => (int) 17, 'bol' => (int) 10, 'bra' => (int) 9, 'can' => (int) 10, 'cansat' => (int) 6, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 5, 'cbr' => (int) 5, 'ccan' => (int) 5, 'cde' => (int) 4, 'cfa' => (int) 3, 'ccl' => (int) 6, 'cil' => (int) 4, 'cla' => (int) 3, 'col' => (int) 3, 'cpa' => (int) 3, 'cre' => (int) 7, 'csa' => (int) 5, 'camsi' => (int) 9, 'dca' => (int) 4, 'din' => (int) 5, 'dzi' => (int) 7, 'eca' => (int) 6, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 12, 'fve' => (int) 4, 'gma' => (int) 12, 'ghi' => (int) 17, 'gra' => (int) 9, 'vvi' => (int) 2, 'han' => (int) 8, 'cav' => (int) 5, 'hma' => (int) 9, 'vpl' => (int) 4, 'sun' => (int) 2, 'lal' => (int) 9, 'lja' => (int) 5, 'lonja' => (int) 6, 'lsa' => (int) 3, 'mes' => (int) 8, 'mpo' => (int) 3, 'mbi' => (int) 4, 'mco' => (int) 3, 'mdo' => (int) 5, 'mtr' => (int) 7, 'cme' => (int) 6, 'egut' => (int) 7, 'ama' => (int) 3, 'nta' => (int) 12, 'nnu' => (int) 9, 'oeu' => (int) 4, 'osa' => (int) 7, 'pax' => (int) 9, 'pgr' => (int) 5, 'stu' => (int) 8, 'pvu' => (int) 6, 'ptr' => (int) 9, 'ppa' => (int) 9, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 7, 'pso' => (int) 10, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 3, 'sbr' => (int) 8, 'sbo' => (int) 5, 'sci' => (int) 5, 'sed' => (int) 4, 'sgi' => (int) 4, 'sas' => (int) 4, 'smo' => (int) 5, 'sly' => (int) 7, 'spe' => (int) 10, 'spa' => (int) 5, 'tar' => (int) 5, 'tha' => (int) 8, 'tca' => (int) 3, 'esa' => (int) 5, 'tpr' => (int) 6, 'twi' => (int) 6, 'ugi' => (int) 4, 'vma' => (int) 1, 'vmu' => (int) 7, 'zma' => (int) 10 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb421930' $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' => 'HOM05D001025', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '592', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p22650' => 'bna', 'A01p29720' => 'bna', 'A03p26560' => 'bna', 'A03p68820' => 'bna', 'A04p20980' => 'bna', 'A06p07730' => 'bna', 'A07p18260' => 'bna', 'A08p33710' => 'bna', 'A09p16970' => 'bna', 'A10p27490' => 'bna', 'Aa31LG1G17300' => 'aar', 'Aa31LG1G3910' => 'aar', 'Aa31LG2G9630' => 'aar', 'Aa31LG5G8360' => 'aar', 'Aa31LG9G2410' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4699' => 'aag', 'Actinidia23512' => 'ach', 'Actinidia37080' => 'ach', 'Ah.01g020380' => 'amhyb', 'Ah.08g215710' => 'amhyb', 'Ah.09g225110' => 'amhyb', 'Ah.10g036680' => 'amhyb', 'AL1G21940' => 'aly', 'AL2G15540' => 'aly', 'AL4G21520' => 'aly', 'AL7G40960' => 'aly', 'Aqoxy2G01191' => 'aox', 'Aqoxy2G03393' => 'aox', 'Aqoxy4G02775' => 'aox', 'Aqoxy6G00058' => 'aox', 'arahy.Tifrunner.gnm1.ann1.9X74H2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CW3FX9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R485W7' => 'arhy', 'AT1G10960' => 'ath', 'AT1G60950' => 'ath', 'AT2G27510' => 'ath', 'AT4G14890' => 'ath', 'AT5G10000' => 'ath', 'ATR0665G624' => 'atr', 'ATR0697G138' => 'atr', 'ATR0776G046' => 'atr', 'ATR1134G135' => 'atr', 'Atru.chr12.1025' => 'acertr', 'Atru.chr3.3241' => 'acertr', 'Atru.chr4.2460' => 'acertr', 'AUR62007427' => 'cqu', 'AUR62010960' => 'cqu', 'AUR62012201' => 'cqu', 'AUR62021470' => 'cqu', 'AUR62022834' => 'cqu', 'AUR62033635' => 'cqu', 'AUR62036186' => 'cqu', 'BcaB01g03077' => 'bca', 'BcaB02g10093' => 'bca', 'BcaB04g20295' => 'bca', 'BcaB06g28147' => 'bca', 'BcaB07g31253' => 'bca', 'BcaC01g04946' => 'bca', 'BcaC02g10614' => 'bca', 'BcaC02g10885' => 'bca', 'BcaC04g19356' => 'bca', 'BcaC04g22297' => 'bca', 'BcaC05g24977' => 'bca', 'BcaC06g31823' => 'bca', 'BcaC07g38633' => 'bca', 'BcaC09g49353' => 'bca', 'BcaC09g50168' => 'bca', 'BcaNung00322' => 'bca', 'BcaNung04769' => 'bca', 'BolC1t02753H' => 'bol', 'BolC1t03721H' => 'bol', 'BolC3t15525H' => 'bol', 'BolC4t23903H' => 'bol', 'BolC4t24231H' => 'bol', 'BolC4t27209H' => 'bol', 'BolC5t29671H' => 'bol', 'BolC8t49044H' => 'bol', 'BolC9t54999H' => 'bol', 'BolC9t59517H' => 'bol', 'BraA01t02178Z' => 'bra', 'BraA01t03099Z' => 'bra', 'BraA03t11867Z' => 'bra', 'BraA04t17667Z' => 'bra', 'BraA07t29542Z' => 'bra', 'BraA08t35287Z' => 'bra', 'BraA09t37334Z' => 'bra', 'BraA10t44801Z' => 'bra', 'BraSC39t46181Z' => 'bra', 'C01p28240' => 'bna', 'C01p37530' => 'bna', 'C03p31820' => 'bna', 'C04p24080' => 'bna', 'C04p25790' => 'bna', 'C04p56770' => 'bna', 'C05p09310' => 'bna', 'C09p21010' => 'bna', 'C09p67560' => 'bna', 'CAN.G1324.7' => 'can', 'CAN.G1358.10' => 'can', 'CAN.G1550.2' => 'can', 'CAN.G186.56' => 'can', 'CAN.G1965.1' => 'can', 'CAN.G645.15' => 'can', 'CAN.G798.26' => 'can', 'CAN.G798.27' => 'can', 'CAN.G798.29' => 'can', 'CAN.G919.31' => 'can', 'CANSAT11G0133' => 'cansat', 'CANSAT11G1171' => 'cansat', 'CANSAT11G2056' => 'cansat', 'CANSAT56G1202' => 'cansat', 'CANSAT56G1514' => 'cansat', 'CANSAT78G0455' => 'cansat', 'CARHR011190' => 'chi', 'CARHR051980' => 'chi', 'CARHR120170' => 'chi', 'CARHR203310' => 'chi', 'CARHR221490' => 'chi', 'Carub.0001s1054' => 'cru', 'Carub.0002s0431' => 'cru', 'Carub.0004s0818' => 'cru', 'Carub.0006s0846' => 'cru', 'Carub.0007s2722' => 'cru', 'Ca_00058_v3' => 'car', 'Ca_17831_v3' => 'car', 'Ca_19408_v3' => 'car', 'Ca_24397_v3' => 'car', 'Ca_25664_v3' => 'car', 'CBR_g21818' => 'cbr', 'CBR_g31195' => 'cbr', 'CBR_g32282' => 'cbr', 'CBR_g39599' => 'cbr', 'CBR_g49410' => 'cbr', 'Cc01_g09120' => 'ccan', 'Cc01_g09130' => 'ccan', 'Cc02_g09630' => 'ccan', 'Cc02_g22810' => 'ccan', 'Cc03_g03810' => 'ccan', 'CDE02G3718' => 'cde', 'CDE04G3183' => 'cde', 'CDE07G1046' => 'cde', 'CDE08G0480' => 'cde', 'Cfa005493' => 'cfa', 'Cfa010312' => 'cfa', 'Cfa015648' => 'cfa', 'Ciclev10002793m.g' => 'ccl', 'Ciclev10003356m.g' => 'ccl', 'Ciclev10006141m.g' => 'ccl', 'Ciclev10016676m.g' => 'ccl', 'Ciclev10017081m.g' => 'ccl', 'Ciclev10029499m.g' => 'ccl', 'CiPaw.01G166300' => 'cil', 'CiPaw.06G145600' => 'cil', 'CiPaw.13G040100' => 'cil', 'CiPaw.13G135800' => 'cil', 'ClCG01G012230' => 'cla', 'ClCG05G009510' => 'cla', 'ClCG08G008270' => 'cla', 'COL.COLO4_11763' => 'col', 'COL.COLO4_19876' => 'col', 'COL.COLO4_21481' => 'col', 'Cpa.g.sc118.34' => 'cpa', 'Cpa.g.sc32.13' => 'cpa', 'Cpa.g.sc58.103' => 'cpa', 'Cre03.g183850' => 'cre', 'Cre06.g306350' => 'cre', 'Cre07.g334800' => 'cre', 'Cre12.g487900' => 'cre', 'Cre14.g626700' => 'cre', 'Cre16.g658400' => 'cre', 'Cre17.g700950' => 'cre', 'CsaV3_1G014830' => 'csa', 'CsaV3_3G013320' => 'csa', 'CsaV3_3G019210' => 'csa', 'CsaV3_3G019220' => 'csa', 'CsaV3_6G004230' => 'csa', 'CSS0003773' => 'camsi', 'CSS0004563' => 'camsi', 'CSS0013949' => 'camsi', 'CSS0025971' => 'camsi', 'CSS0028570' => 'camsi', 'CSS0033127' => 'camsi', 'CSS0036051' => 'camsi', 'CSS0040087' => 'camsi', 'CSS0043179' => 'camsi', 'DCAR_006161' => 'dca', 'DCAR_010351' => 'dca', 'DCAR_012197' => 'dca', 'DCAR_024162' => 'dca', 'Dinv01030' => 'din', 'Dinv10924' => 'din', 'Dinv11835' => 'din', 'Dinv22841' => 'din', 'Dinv42553' => 'din', 'Duzib052G0560' => 'dzi', 'Duzib132G0389' => 'dzi', 'Duzib150G1181' => 'dzi', 'Duzib168G0623' => 'dzi', 'Duzib170G1036' => 'dzi', 'Duzib212G0200' => 'dzi', 'Duzib248G0194' => 'dzi', 'ECA232G2193' => 'eca', 'ECA233G0302' => 'eca', 'ECA234G2813' => 'eca', 'ECA234G4866' => 'eca', 'ECA240G3932' => 'eca', 'ECA248G0385' => 'eca', 'EL10Ac2g04781' => 'bvu', 'EL10Ac3g06445' => 'bvu', 'EL10Ac7g15825' => 'bvu', 'EL10Ac8g18550' => 'bvu', 'Eucgr.B03849' => 'egr', 'Eucgr.I02744' => 'egr', 'Eucgr.J00264' => 'egr', 'Eucgr.J00493' => 'egr', 'FAN04G2181' => 'fan', 'FAN07G2666' => 'fan', 'FAN11G0024' => 'fan', 'FAN12G1105' => 'fan', 'FAN13G0302' => 'fan', 'FAN15G2781' => 'fan', 'FAN16G1274' => 'fan', 'FAN17G2988' => 'fan', 'FAN18G2621' => 'fan', 'FAN21G0013' => 'fan', 'FAN22G1211' => 'fan', 'FAN25G3626' => 'fan', 'FvH4_2g09491' => 'fve', 'FvH4_3g24910' => 'fve', 'FvH4_4g15630' => 'fve', 'FvH4_5g28820' => 'fve', 'Glyma.01G238000' => 'gma', 'Glyma.05G168400' => 'gma', 'Glyma.08G126800' => 'gma', 'Glyma.08G188500' => 'gma', 'Glyma.10G278900' => 'gma', 'Glyma.11G005700' => 'gma', 'Glyma.11G183300' => 'gma', 'Glyma.12G089200' => 'gma', 'Glyma.12G169400' => 'gma', 'Glyma.12G169500' => 'gma', 'Glyma.12G169600' => 'gma', 'Glyma.20G110800' => 'gma', 'Gohir.A03G192900' => 'ghi', 'Gohir.A03G193000' => 'ghi', 'Gohir.A05G080700' => 'ghi', 'Gohir.A09G216000' => 'ghi', 'Gohir.A12G027700' => 'ghi', 'Gohir.A13G036200' => 'ghi', 'Gohir.A13G222600' => 'ghi', 'Gohir.D02G213900' => 'ghi', 'Gohir.D02G214000' => 'ghi', 'Gohir.D05G083700' => 'ghi', 'Gohir.D05G083800' => 'ghi', 'Gohir.D05G083850' => 'ghi', 'Gohir.D08G015400' => 'ghi', 'Gohir.D09G218400' => 'ghi', 'Gohir.D12G027100' => 'ghi', 'Gohir.D13G034500' => 'ghi', 'Gohir.D13G227400' => 'ghi', 'Gorai.005G241800' => 'gra', 'Gorai.005G241900' => 'gra', 'Gorai.006G239400' => 'gra', 'Gorai.008G027600' => 'gra', 'Gorai.009G085400' => 'gra', 'Gorai.009G085500' => 'gra', 'Gorai.013G039000' => 'gra', 'Gorai.013G194800' => 'gra', 'Gorai.013G257900' => 'gra', 'GSVIVG01000982001' => 'vvi', 'GSVIVG01017981001' => 'vvi', 'HanXRQChr01g0024061' => 'han', 'HanXRQChr09g0247831' => 'han', 'HanXRQChr10g0294611' => 'han', 'HanXRQChr10g0294621' => 'han', 'HanXRQChr11g0346821' => 'han', 'HanXRQChr13g0397461' => 'han', 'HanXRQChr16g0513651' => 'han', 'HanXRQChr16g0513701' => 'han', 'Haze_00897' => 'cav', 'Haze_01745' => 'cav', 'Haze_02486' => 'cav', 'Haze_02487' => 'cav', 'Haze_23374' => 'cav', 'Hma1.2p1_0578F.1_g182520' => 'hma', 'Hma1.2p1_0602F.1_g187350' => 'hma', 'Hma1.2p1_0602F.1_g187360' => 'hma', 'Hma1.2p1_0874F.1_g231320' => 'hma', 'Hma1.2p1_1197F.1_g266210' => 'hma', 'Hma1.2p1_1197F.1_g266220' => 'hma', 'Hma1.2p1_2167F.1_g315895' => 'hma', 'Hma1.2p1_2190F.1_g316640' => 'hma', 'Hma1.2p1_3645F.1_g337153' => 'hma', 'HPP92_004907' => 'vpl', 'HPP92_012134' => 'vpl', 'HPP92_025136' => 'vpl', 'HPP92_026087' => 'vpl', 'Hund06782' => 'sun', 'Hund06784' => 'sun', 'Lalb_Chr01g0004861' => 'lal', 'Lalb_Chr02g0140591' => 'lal', 'Lalb_Chr02g0140611' => 'lal', 'Lalb_Chr03g0028101' => 'lal', 'Lalb_Chr07g0185791' => 'lal', 'Lalb_Chr12g0204491' => 'lal', 'Lalb_Chr13g0295671' => 'lal', 'Lalb_Chr19g0136461' => 'lal', 'Lalb_Chr21g0309191' => 'lal', 'Lj1g0028158' => 'lja', 'Lj1P236T38' => 'lonja', 'Lj2C32G2' => 'lonja', 'Lj2P944T8' => 'lonja', 'Lj2P963T15' => 'lonja', 'Lj3g0011788' => 'lja', 'Lj4g0025027' => 'lja', 'Lj5P255T36' => 'lonja', 'Lj6g0018866' => 'lja', 'Lj6P608T31' => 'lonja', 'LjContig00408g0008879' => 'lja', 'Lsat_1_v5_gn_5_105820' => 'lsa', 'Lsat_1_v5_gn_6_38800' => 'lsa', 'Lsat_1_v5_gn_7_67141' => 'lsa', 'Manes.04G003400' => 'mes', 'Manes.07G020000' => 'mes', 'Manes.07G020100' => 'mes', 'Manes.07G020150' => 'mes', 'Manes.10G061500' => 'mes', 'Manes.10G123200' => 'mes', 'Manes.11G161900' => 'mes', 'Manes.15G029300' => 'mes', 'Mapoly0071s0018' => 'mpo', 'Mapoly0082s0023' => 'mpo', 'Mapoly3477s0001' => 'mpo', 'MBI05_g31233_MAGBIO' => 'mbi', 'MBI09_g05946_MAGBIO' => 'mbi', 'MBI09_g05947_MAGBIO' => 'mbi', 'MBI17_g08346_MAGBIO' => 'mbi', 'MCO04G038' => 'mco', 'MCO09G370' => 'mco', 'MCO13G605' => 'mco', 'MD00G1075500' => 'mdo', 'MD03G1144300' => 'mdo', 'MD08G1236800' => 'mdo', 'MD13G1193300' => 'mdo', 'MD15G1428700' => 'mdo', 'Medtr1g112030' => 'mtr', 'Medtr1g112050' => 'mtr', 'Medtr2g006290' => 'mtr', 'Medtr2g086510' => 'mtr', 'Medtr4g053120' => 'mtr', 'Medtr5g006320' => 'mtr', 'Medtr8g088720' => 'mtr', 'MELO3C004712.2' => 'cme', 'MELO3C006533.2' => 'cme', 'MELO3C019438.2' => 'cme', 'MELO3C019440.2' => 'cme', 'MELO3C019441.2' => 'cme', 'MELO3C019895.2' => 'cme', 'Migut.B00811' => 'egut', 'Migut.D02447' => 'egut', 'Migut.F00875' => 'egut', 'Migut.N00186' => 'egut', 'Migut.N01051' => 'egut', 'Migut.N02491' => 'egut', 'Migut.O00784' => 'egut', 'MSTRG.12367' => 'ama', 'MSTRG.18756' => 'ama', 'MSTRG.21042' => 'ama', 'Nitab4.5_0000559g0040' => 'nta', 'Nitab4.5_0000667g0190' => 'nta', 'Nitab4.5_0000755g0160' => 'nta', 'Nitab4.5_0001216g0080' => 'nta', 'Nitab4.5_0004069g0040' => 'nta', 'Nitab4.5_0004129g0010' => 'nta', 'Nitab4.5_0005744g0030' => 'nta', 'Nitab4.5_0006996g0030' => 'nta', 'Nitab4.5_0008971g0040' => 'nta', 'Nitab4.5_0009769g0020' => 'nta', 'Nitab4.5_0009833g0010' => 'nta', 'Nitab4.5_0013140g0020' => 'nta', 'Nn003s41376' => 'nnu', 'Nn1g01857' => 'nnu', 'Nn1g03611' => 'nnu', 'Nn1g06853' => 'nnu', 'Nn3g18360' => 'nnu', 'Nn4g26328' => 'nnu', 'Nn5g27531' => 'nnu', 'Nn6g34899' => 'nnu', 'Nn7g36299' => 'nnu', 'Oeu021485.1' => 'oeu', 'Oeu022433.1' => 'oeu', 'Oeu032111.1' => 'oeu', 'Oeu051608.1' => 'oeu', 'Os01g0860601' => 'osa', 'Os03g0659200' => 'osa', 'Os03g0835900' => 'osa', 'Os04g0412200' => 'osa', 'Os05g0443500' => 'osa', 'Os07g0251500' => 'osa', 'Os08g0104600' => 'osa', 'Peaxi162Scf00003g00047' => 'pax', 'Peaxi162Scf00003g00052' => 'pax', 'Peaxi162Scf00003g00394' => 'pax', 'Peaxi162Scf00091g00621' => 'pax', 'Peaxi162Scf00152g00146' => 'pax', 'Peaxi162Scf00173g00025' => 'pax', 'Peaxi162Scf00195g00102' => 'pax', 'Peaxi162Scf00402g00013' => 'pax', 'Peaxi162Scf00519g00618' => 'pax', 'PGR004G2838' => 'pgr', 'PGR044G2275' => 'pgr', 'PGR102G1377' => 'pgr', 'PGR119G1245' => 'pgr', 'PGR142G4449' => 'pgr', 'PGSC0003DMG400004532' => 'stu', 'PGSC0003DMG400011950' => 'stu', 'PGSC0003DMG400023391' => 'stu', 'PGSC0003DMG400023985' => 'stu', 'PGSC0003DMG400026360' => 'stu', 'PGSC0003DMG400035711' => 'stu', 'PGSC0003DMG400037286' => 'stu', 'PGSC0003DMG402005881' => 'stu', 'Phvul.002G045400' => 'pvu', 'Phvul.006G216600' => 'pvu', 'Phvul.006G216700' => 'pvu', 'Phvul.006G216800' => 'pvu', 'Phvul.007G022500' => 'pvu', 'Phvul.011G094400' => 'pvu', 'Potri.001G470700' => 'ptr', 'Potri.003G015200' => 'ptr', 'Potri.004G202500' => 'ptr', 'Potri.004G218400' => 'ptr', 'Potri.008G020100' => 'ptr', 'Potri.008G153200' => 'ptr', 'Potri.009G163800' => 'ptr', 'Potri.010G087300' => 'ptr', 'Potri.010G239100' => 'ptr', 'Pp3c10_16100' => 'ppa', 'Pp3c10_16880' => 'ppa', 'Pp3c16_6230' => 'ppa', 'Pp3c17_18910' => 'ppa', 'Pp3c3_22119' => 'ppa', 'Pp3c3_22140' => 'ppa', 'Pp3c4_8159' => 'ppa', 'Pp3c4_8171' => 'ppa', 'Pp3c4_8330' => 'ppa', 'PRCOL_00004098' => 'pco', 'Prupe.1G013900' => 'ppe', 'Prupe.1G226300' => 'ppe', 'Prupe.1G573600' => 'ppe', 'Prupe.6G130100' => 'ppe', 'Psat3g090040' => 'psa', 'Psat4g210440' => 'psa', 'Psat6g231040' => 'psa', 'Psat6g231080' => 'psa', 'Psat7g063000' => 'psa', 'Psat7g188000' => 'psa', 'Psat7g188040' => 'psa', 'PSO017G0206' => 'pso', 'PSO170G0501' => 'pso', 'PSO170G6422' => 'pso', 'PSO210G7739' => 'pso', 'PSO339G1808' => 'pso', 'PSO339G6135' => 'pso', 'PSO384G0010' => 'pso', 'PSO384G0964' => 'pso', 'PSO761G0050' => 'pso', 'PSO782G4085' => 'pso', 'QL01p012264' => 'qlo', 'QL02p099491' => 'qlo', 'QL03p033868' => 'qlo', 'QL04p046678' => 'qlo', 'QL06p002448' => 'qlo', 'RcHm_v2.0_Chr4g0416181' => 'rch', 'RcHm_v2.0_Chr5g0044701' => 'rch', 'RcHm_v2.0_Chr6g0265781' => 'rch', 'RcHm_v2.0_Chr7g0221031' => 'rch', 'Rhsim04G0202000' => 'rsi', 'Rhsim11G0127300' => 'rsi', 'Rhsim13G0111800' => 'rsi', 'Sabra01G0165600' => 'sbr', 'Sabra03G0008300' => 'sbr', 'Sabra04G0136900' => 'sbr', 'Sabra08G0013400' => 'sbr', 'Sabra08G0116800' => 'sbr', 'Sabra09G0128000' => 'sbr', 'Sabra10G0055500' => 'sbr', 'Sabra10G0073300' => 'sbr', 'SalBow3G0385' => 'sbo', 'SalBow3G1119' => 'sbo', 'SalBow3G2005' => 'sbo', 'SalBow6G2563' => 'sbo', 'SalBow6G6386' => 'sbo', 'Sc06g0008800' => 'sci', 'Sc07g0004950' => 'sci', 'Sc09g0005340' => 'sci', 'Sc13g0004410' => 'sci', 'Sc21g0007090' => 'sci', 'Sed0009285' => 'sed', 'Sed0017583' => 'sed', 'Sed0019699' => 'sed', 'Sed0023107' => 'sed', 'SEGI_10916' => 'sgi', 'SEGI_16217' => 'sgi', 'SEGI_19466' => 'sgi', 'SEGI_41115' => 'sgi', 'SGA_v2.0_scaffold111G31534' => 'sas', 'SGA_v2.0_scaffold22G09864' => 'sas', 'SGA_v2.0_scaffold338G49219' => 'sas', 'SGA_v2.0_scaffold92G28298' => 'sas', 'SMO119G0064' => 'smo', 'SMO223G0038' => 'smo', 'SMO347G0584' => 'smo', 'SMO351G0010' => 'smo', 'SMO356G0404' => 'smo', 'Solyc01g103920.3' => 'sly', 'Solyc04g009710.2' => 'sly', 'Solyc05g055280.2' => 'sly', 'Solyc10g044520.3' => 'sly', 'Solyc10g075160.1' => 'sly', 'Solyc11g006910.3' => 'sly', 'Solyc11g068430.3' => 'sly', 'Sopen01g046310' => 'spe', 'Sopen03g001200' => 'spe', 'Sopen04g004830' => 'spe', 'Sopen05g033720' => 'spe', 'Sopen06g030740' => 'spe', 'Sopen10g013090' => 'spe', 'Sopen10g027630' => 'spe', 'Sopen10g027640' => 'spe', 'Sopen11g002820' => 'spe', 'Sopen11g027140' => 'spe', 'Sp1g09680' => 'spa', 'Sp2g03630' => 'spa', 'Sp4g10320' => 'spa', 'Sp6g33400' => 'spa', 'Sp7g13030' => 'spa', 'TAR365G0317' => 'tar', 'TAR376G0979' => 'tar', 'TAR623G1665' => 'tar', 'TAR633G2373' => 'tar', 'TAR636G1400' => 'tar', 'THA.LOC104800529' => 'tha', 'THA.LOC104808547' => 'tha', 'THA.LOC104809615' => 'tha', 'THA.LOC104815724' => 'tha', 'THA.LOC104818480' => 'tha', 'THA.LOC104819179' => 'tha', 'THA.LOC104822270' => 'tha', 'THA.LOC104826425' => 'tha', 'Thecc.02G089700' => 'tca', 'Thecc.04G232300' => 'tca', 'Thecc.09G283400' => 'tca', 'Thhalv10009020m.g' => 'esa', 'Thhalv10015506m.g' => 'esa', 'Thhalv10017364m.g' => 'esa', 'Thhalv10023742m.g' => 'esa', 'Thhalv10026483m.g' => 'esa', 'TPR.G17232' => 'tpr', 'TPR.G2133' => 'tpr', 'TPR.G2498' => 'tpr', 'TPR.G31942' => 'tpr', 'TPR.G37877' => 'tpr', 'TPR.G4571' => 'tpr', 'TWI14G1113' => 'twi', 'TWI15G0426' => 'twi', 'TWI31G1005' => 'twi', 'TWI38G0513' => 'twi', 'TWI38G1484' => 'twi', 'TWI73G1098' => 'twi', 'unitig_26.g10519' => 'ugi', 'unitig_736.g22395' => 'ugi', 'unitig_747.g21234' => 'ugi', 'unitig_747.g21942' => 'ugi', 'vmacro14351' => 'vma', 'VMungo0540G0082' => 'vmu', 'VMungo0540G0405' => 'vmu', 'VMungo0540G1486' => 'vmu', 'VMungo0540G1692' => 'vmu', 'VMungo0720G2473' => 'vmu', 'VMungo1127G1562' => 'vmu', 'VMungo1215G1918' => 'vmu', 'Zm00001eb052650' => 'zma', 'Zm00001eb063710' => 'zma', 'Zm00001eb083950' => 'zma', 'Zm00001eb174420' => 'zma', 'Zm00001eb260140' => 'zma', 'Zm00001eb260150' => 'zma', 'Zm00001eb260160' => 'zma', 'Zm00001eb348290' => 'zma', 'Zm00001eb366870' => 'zma', 'Zm00001eb421930' => 'zma' ), 'gf_id' => 'HOM05D001025', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001025' ), 'data_identifier' => 'HOM05D001025', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001025', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '592', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p22650' => 'bna', 'A01p29720' => 'bna', 'A03p26560' => 'bna', 'A03p68820' => 'bna', 'A04p20980' => 'bna', 'A06p07730' => 'bna', 'A07p18260' => 'bna', 'A08p33710' => 'bna', 'A09p16970' => 'bna', 'A10p27490' => 'bna', 'Aa31LG1G17300' => 'aar', 'Aa31LG1G3910' => 'aar', 'Aa31LG2G9630' => 'aar', 'Aa31LG5G8360' => 'aar', 'Aa31LG9G2410' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4699' => 'aag', 'Actinidia23512' => 'ach', 'Actinidia37080' => 'ach', 'Ah.01g020380' => 'amhyb', 'Ah.08g215710' => 'amhyb', 'Ah.09g225110' => 'amhyb', 'Ah.10g036680' => 'amhyb', 'AL1G21940' => 'aly', 'AL2G15540' => 'aly', 'AL4G21520' => 'aly', 'AL7G40960' => 'aly', 'Aqoxy2G01191' => 'aox', 'Aqoxy2G03393' => 'aox', 'Aqoxy4G02775' => 'aox', 'Aqoxy6G00058' => 'aox', 'arahy.Tifrunner.gnm1.ann1.9X74H2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CW3FX9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R485W7' => 'arhy', 'AT1G10960' => 'ath', 'AT1G60950' => 'ath', 'AT2G27510' => 'ath', 'AT4G14890' => 'ath', 'AT5G10000' => 'ath', 'ATR0665G624' => 'atr', 'ATR0697G138' => 'atr', 'ATR0776G046' => 'atr', 'ATR1134G135' => 'atr', 'Atru.chr12.1025' => 'acertr', 'Atru.chr3.3241' => 'acertr', 'Atru.chr4.2460' => 'acertr', 'AUR62007427' => 'cqu', 'AUR62010960' => 'cqu', 'AUR62012201' => 'cqu', 'AUR62021470' => 'cqu', 'AUR62022834' => 'cqu', 'AUR62033635' => 'cqu', 'AUR62036186' => 'cqu', 'BcaB01g03077' => 'bca', 'BcaB02g10093' => 'bca', 'BcaB04g20295' => 'bca', 'BcaB06g28147' => 'bca', 'BcaB07g31253' => 'bca', 'BcaC01g04946' => 'bca', 'BcaC02g10614' => 'bca', 'BcaC02g10885' => 'bca', 'BcaC04g19356' => 'bca', 'BcaC04g22297' => 'bca', 'BcaC05g24977' => 'bca', 'BcaC06g31823' => 'bca', 'BcaC07g38633' => 'bca', 'BcaC09g49353' => 'bca', 'BcaC09g50168' => 'bca', 'BcaNung00322' => 'bca', 'BcaNung04769' => 'bca', 'BolC1t02753H' => 'bol', 'BolC1t03721H' => 'bol', 'BolC3t15525H' => 'bol', 'BolC4t23903H' => 'bol', 'BolC4t24231H' => 'bol', 'BolC4t27209H' => 'bol', 'BolC5t29671H' => 'bol', 'BolC8t49044H' => 'bol', 'BolC9t54999H' => 'bol', 'BolC9t59517H' => 'bol', 'BraA01t02178Z' => 'bra', 'BraA01t03099Z' => 'bra', 'BraA03t11867Z' => 'bra', 'BraA04t17667Z' => 'bra', 'BraA07t29542Z' => 'bra', 'BraA08t35287Z' => 'bra', 'BraA09t37334Z' => 'bra', 'BraA10t44801Z' => 'bra', 'BraSC39t46181Z' => 'bra', 'C01p28240' => 'bna', 'C01p37530' => 'bna', 'C03p31820' => 'bna', 'C04p24080' => 'bna', 'C04p25790' => 'bna', 'C04p56770' => 'bna', 'C05p09310' => 'bna', 'C09p21010' => 'bna', 'C09p67560' => 'bna', 'CAN.G1324.7' => 'can', 'CAN.G1358.10' => 'can', 'CAN.G1550.2' => 'can', 'CAN.G186.56' => 'can', 'CAN.G1965.1' => 'can', 'CAN.G645.15' => 'can', 'CAN.G798.26' => 'can', 'CAN.G798.27' => 'can', 'CAN.G798.29' => 'can', 'CAN.G919.31' => 'can', 'CANSAT11G0133' => 'cansat', 'CANSAT11G1171' => 'cansat', 'CANSAT11G2056' => 'cansat', 'CANSAT56G1202' => 'cansat', 'CANSAT56G1514' => 'cansat', 'CANSAT78G0455' => 'cansat', 'CARHR011190' => 'chi', 'CARHR051980' => 'chi', 'CARHR120170' => 'chi', 'CARHR203310' => 'chi', 'CARHR221490' => 'chi', 'Carub.0001s1054' => 'cru', 'Carub.0002s0431' => 'cru', 'Carub.0004s0818' => 'cru', 'Carub.0006s0846' => 'cru', 'Carub.0007s2722' => 'cru', 'Ca_00058_v3' => 'car', 'Ca_17831_v3' => 'car', 'Ca_19408_v3' => 'car', 'Ca_24397_v3' => 'car', 'Ca_25664_v3' => 'car', 'CBR_g21818' => 'cbr', 'CBR_g31195' => 'cbr', 'CBR_g32282' => 'cbr', 'CBR_g39599' => 'cbr', 'CBR_g49410' => 'cbr', 'Cc01_g09120' => 'ccan', 'Cc01_g09130' => 'ccan', 'Cc02_g09630' => 'ccan', 'Cc02_g22810' => 'ccan', 'Cc03_g03810' => 'ccan', 'CDE02G3718' => 'cde', 'CDE04G3183' => 'cde', 'CDE07G1046' => 'cde', 'CDE08G0480' => 'cde', 'Cfa005493' => 'cfa', 'Cfa010312' => 'cfa', 'Cfa015648' => 'cfa', 'Ciclev10002793m.g' => 'ccl', 'Ciclev10003356m.g' => 'ccl', 'Ciclev10006141m.g' => 'ccl', 'Ciclev10016676m.g' => 'ccl', 'Ciclev10017081m.g' => 'ccl', 'Ciclev10029499m.g' => 'ccl', 'CiPaw.01G166300' => 'cil', 'CiPaw.06G145600' => 'cil', 'CiPaw.13G040100' => 'cil', 'CiPaw.13G135800' => 'cil', 'ClCG01G012230' => 'cla', 'ClCG05G009510' => 'cla', 'ClCG08G008270' => 'cla', 'COL.COLO4_11763' => 'col', 'COL.COLO4_19876' => 'col', 'COL.COLO4_21481' => 'col', 'Cpa.g.sc118.34' => 'cpa', 'Cpa.g.sc32.13' => 'cpa', 'Cpa.g.sc58.103' => 'cpa', 'Cre03.g183850' => 'cre', 'Cre06.g306350' => 'cre', 'Cre07.g334800' => 'cre', 'Cre12.g487900' => 'cre', 'Cre14.g626700' => 'cre', 'Cre16.g658400' => 'cre', 'Cre17.g700950' => 'cre', 'CsaV3_1G014830' => 'csa', 'CsaV3_3G013320' => 'csa', 'CsaV3_3G019210' => 'csa', 'CsaV3_3G019220' => 'csa', 'CsaV3_6G004230' => 'csa', 'CSS0003773' => 'camsi', 'CSS0004563' => 'camsi', 'CSS0013949' => 'camsi', 'CSS0025971' => 'camsi', 'CSS0028570' => 'camsi', 'CSS0033127' => 'camsi', 'CSS0036051' => 'camsi', 'CSS0040087' => 'camsi', 'CSS0043179' => 'camsi', 'DCAR_006161' => 'dca', 'DCAR_010351' => 'dca', 'DCAR_012197' => 'dca', 'DCAR_024162' => 'dca', 'Dinv01030' => 'din', 'Dinv10924' => 'din', 'Dinv11835' => 'din', 'Dinv22841' => 'din', 'Dinv42553' => 'din', 'Duzib052G0560' => 'dzi', 'Duzib132G0389' => 'dzi', 'Duzib150G1181' => 'dzi', 'Duzib168G0623' => 'dzi', 'Duzib170G1036' => 'dzi', 'Duzib212G0200' => 'dzi', 'Duzib248G0194' => 'dzi', 'ECA232G2193' => 'eca', 'ECA233G0302' => 'eca', 'ECA234G2813' => 'eca', 'ECA234G4866' => 'eca', 'ECA240G3932' => 'eca', 'ECA248G0385' => 'eca', 'EL10Ac2g04781' => 'bvu', 'EL10Ac3g06445' => 'bvu', 'EL10Ac7g15825' => 'bvu', 'EL10Ac8g18550' => 'bvu', 'Eucgr.B03849' => 'egr', 'Eucgr.I02744' => 'egr', 'Eucgr.J00264' => 'egr', 'Eucgr.J00493' => 'egr', 'FAN04G2181' => 'fan', 'FAN07G2666' => 'fan', 'FAN11G0024' => 'fan', 'FAN12G1105' => 'fan', 'FAN13G0302' => 'fan', 'FAN15G2781' => 'fan', 'FAN16G1274' => 'fan', 'FAN17G2988' => 'fan', 'FAN18G2621' => 'fan', 'FAN21G0013' => 'fan', 'FAN22G1211' => 'fan', 'FAN25G3626' => 'fan', 'FvH4_2g09491' => 'fve', 'FvH4_3g24910' => 'fve', 'FvH4_4g15630' => 'fve', 'FvH4_5g28820' => 'fve', 'Glyma.01G238000' => 'gma', 'Glyma.05G168400' => 'gma', 'Glyma.08G126800' => 'gma', 'Glyma.08G188500' => 'gma', 'Glyma.10G278900' => 'gma', 'Glyma.11G005700' => 'gma', 'Glyma.11G183300' => 'gma', 'Glyma.12G089200' => 'gma', 'Glyma.12G169400' => 'gma', 'Glyma.12G169500' => 'gma', 'Glyma.12G169600' => 'gma', 'Glyma.20G110800' => 'gma', 'Gohir.A03G192900' => 'ghi', 'Gohir.A03G193000' => 'ghi', 'Gohir.A05G080700' => 'ghi', 'Gohir.A09G216000' => 'ghi', 'Gohir.A12G027700' => 'ghi', 'Gohir.A13G036200' => 'ghi', 'Gohir.A13G222600' => 'ghi', 'Gohir.D02G213900' => 'ghi', 'Gohir.D02G214000' => 'ghi', 'Gohir.D05G083700' => 'ghi', 'Gohir.D05G083800' => 'ghi', 'Gohir.D05G083850' => 'ghi', 'Gohir.D08G015400' => 'ghi', 'Gohir.D09G218400' => 'ghi', 'Gohir.D12G027100' => 'ghi', 'Gohir.D13G034500' => 'ghi', 'Gohir.D13G227400' => 'ghi', 'Gorai.005G241800' => 'gra', 'Gorai.005G241900' => 'gra', 'Gorai.006G239400' => 'gra', 'Gorai.008G027600' => 'gra', 'Gorai.009G085400' => 'gra', 'Gorai.009G085500' => 'gra', 'Gorai.013G039000' => 'gra', 'Gorai.013G194800' => 'gra', 'Gorai.013G257900' => 'gra', 'GSVIVG01000982001' => 'vvi', 'GSVIVG01017981001' => 'vvi', 'HanXRQChr01g0024061' => 'han', 'HanXRQChr09g0247831' => 'han', 'HanXRQChr10g0294611' => 'han', 'HanXRQChr10g0294621' => 'han', 'HanXRQChr11g0346821' => 'han', 'HanXRQChr13g0397461' => 'han', 'HanXRQChr16g0513651' => 'han', 'HanXRQChr16g0513701' => 'han', 'Haze_00897' => 'cav', 'Haze_01745' => 'cav', 'Haze_02486' => 'cav', 'Haze_02487' => 'cav', 'Haze_23374' => 'cav', 'Hma1.2p1_0578F.1_g182520' => 'hma', 'Hma1.2p1_0602F.1_g187350' => 'hma', 'Hma1.2p1_0602F.1_g187360' => 'hma', 'Hma1.2p1_0874F.1_g231320' => 'hma', 'Hma1.2p1_1197F.1_g266210' => 'hma', 'Hma1.2p1_1197F.1_g266220' => 'hma', 'Hma1.2p1_2167F.1_g315895' => 'hma', 'Hma1.2p1_2190F.1_g316640' => 'hma', 'Hma1.2p1_3645F.1_g337153' => 'hma', 'HPP92_004907' => 'vpl', 'HPP92_012134' => 'vpl', 'HPP92_025136' => 'vpl', 'HPP92_026087' => 'vpl', 'Hund06782' => 'sun', 'Hund06784' => 'sun', 'Lalb_Chr01g0004861' => 'lal', 'Lalb_Chr02g0140591' => 'lal', 'Lalb_Chr02g0140611' => 'lal', 'Lalb_Chr03g0028101' => 'lal', 'Lalb_Chr07g0185791' => 'lal', 'Lalb_Chr12g0204491' => 'lal', 'Lalb_Chr13g0295671' => 'lal', 'Lalb_Chr19g0136461' => 'lal', 'Lalb_Chr21g0309191' => 'lal', 'Lj1g0028158' => 'lja', 'Lj1P236T38' => 'lonja', 'Lj2C32G2' => 'lonja', 'Lj2P944T8' => 'lonja', 'Lj2P963T15' => 'lonja', 'Lj3g0011788' => 'lja', 'Lj4g0025027' => 'lja', 'Lj5P255T36' => 'lonja', 'Lj6g0018866' => 'lja', 'Lj6P608T31' => 'lonja', 'LjContig00408g0008879' => 'lja', 'Lsat_1_v5_gn_5_105820' => 'lsa', 'Lsat_1_v5_gn_6_38800' => 'lsa', 'Lsat_1_v5_gn_7_67141' => 'lsa', 'Manes.04G003400' => 'mes', 'Manes.07G020000' => 'mes', 'Manes.07G020100' => 'mes', 'Manes.07G020150' => 'mes', 'Manes.10G061500' => 'mes', 'Manes.10G123200' => 'mes', 'Manes.11G161900' => 'mes', 'Manes.15G029300' => 'mes', 'Mapoly0071s0018' => 'mpo', 'Mapoly0082s0023' => 'mpo', 'Mapoly3477s0001' => 'mpo', 'MBI05_g31233_MAGBIO' => 'mbi', 'MBI09_g05946_MAGBIO' => 'mbi', 'MBI09_g05947_MAGBIO' => 'mbi', 'MBI17_g08346_MAGBIO' => 'mbi', 'MCO04G038' => 'mco', 'MCO09G370' => 'mco', 'MCO13G605' => 'mco', 'MD00G1075500' => 'mdo', 'MD03G1144300' => 'mdo', 'MD08G1236800' => 'mdo', 'MD13G1193300' => 'mdo', 'MD15G1428700' => 'mdo', 'Medtr1g112030' => 'mtr', 'Medtr1g112050' => 'mtr', 'Medtr2g006290' => 'mtr', 'Medtr2g086510' => 'mtr', 'Medtr4g053120' => 'mtr', 'Medtr5g006320' => 'mtr', 'Medtr8g088720' => 'mtr', 'MELO3C004712.2' => 'cme', 'MELO3C006533.2' => 'cme', 'MELO3C019438.2' => 'cme', 'MELO3C019440.2' => 'cme', 'MELO3C019441.2' => 'cme', 'MELO3C019895.2' => 'cme', 'Migut.B00811' => 'egut', 'Migut.D02447' => 'egut', 'Migut.F00875' => 'egut', 'Migut.N00186' => 'egut', 'Migut.N01051' => 'egut', 'Migut.N02491' => 'egut', 'Migut.O00784' => 'egut', 'MSTRG.12367' => 'ama', 'MSTRG.18756' => 'ama', 'MSTRG.21042' => 'ama', 'Nitab4.5_0000559g0040' => 'nta', 'Nitab4.5_0000667g0190' => 'nta', 'Nitab4.5_0000755g0160' => 'nta', 'Nitab4.5_0001216g0080' => 'nta', 'Nitab4.5_0004069g0040' => 'nta', 'Nitab4.5_0004129g0010' => 'nta', 'Nitab4.5_0005744g0030' => 'nta', 'Nitab4.5_0006996g0030' => 'nta', 'Nitab4.5_0008971g0040' => 'nta', 'Nitab4.5_0009769g0020' => 'nta', 'Nitab4.5_0009833g0010' => 'nta', 'Nitab4.5_0013140g0020' => 'nta', 'Nn003s41376' => 'nnu', 'Nn1g01857' => 'nnu', 'Nn1g03611' => 'nnu', 'Nn1g06853' => 'nnu', 'Nn3g18360' => 'nnu', 'Nn4g26328' => 'nnu', 'Nn5g27531' => 'nnu', 'Nn6g34899' => 'nnu', 'Nn7g36299' => 'nnu', 'Oeu021485.1' => 'oeu', 'Oeu022433.1' => 'oeu', 'Oeu032111.1' => 'oeu', 'Oeu051608.1' => 'oeu', 'Os01g0860601' => 'osa', 'Os03g0659200' => 'osa', 'Os03g0835900' => 'osa', 'Os04g0412200' => 'osa', 'Os05g0443500' => 'osa', 'Os07g0251500' => 'osa', 'Os08g0104600' => 'osa', 'Peaxi162Scf00003g00047' => 'pax', 'Peaxi162Scf00003g00052' => 'pax', 'Peaxi162Scf00003g00394' => 'pax', 'Peaxi162Scf00091g00621' => 'pax', 'Peaxi162Scf00152g00146' => 'pax', 'Peaxi162Scf00173g00025' => 'pax', 'Peaxi162Scf00195g00102' => 'pax', 'Peaxi162Scf00402g00013' => 'pax', 'Peaxi162Scf00519g00618' => 'pax', 'PGR004G2838' => 'pgr', 'PGR044G2275' => 'pgr', 'PGR102G1377' => 'pgr', 'PGR119G1245' => 'pgr', 'PGR142G4449' => 'pgr', 'PGSC0003DMG400004532' => 'stu', 'PGSC0003DMG400011950' => 'stu', 'PGSC0003DMG400023391' => 'stu', 'PGSC0003DMG400023985' => 'stu', 'PGSC0003DMG400026360' => 'stu', 'PGSC0003DMG400035711' => 'stu', 'PGSC0003DMG400037286' => 'stu', 'PGSC0003DMG402005881' => 'stu', 'Phvul.002G045400' => 'pvu', 'Phvul.006G216600' => 'pvu', 'Phvul.006G216700' => 'pvu', 'Phvul.006G216800' => 'pvu', 'Phvul.007G022500' => 'pvu', 'Phvul.011G094400' => 'pvu', 'Potri.001G470700' => 'ptr', 'Potri.003G015200' => 'ptr', 'Potri.004G202500' => 'ptr', 'Potri.004G218400' => 'ptr', 'Potri.008G020100' => 'ptr', 'Potri.008G153200' => 'ptr', 'Potri.009G163800' => 'ptr', 'Potri.010G087300' => 'ptr', 'Potri.010G239100' => 'ptr', 'Pp3c10_16100' => 'ppa', 'Pp3c10_16880' => 'ppa', 'Pp3c16_6230' => 'ppa', 'Pp3c17_18910' => 'ppa', 'Pp3c3_22119' => 'ppa', 'Pp3c3_22140' => 'ppa', 'Pp3c4_8159' => 'ppa', 'Pp3c4_8171' => 'ppa', 'Pp3c4_8330' => 'ppa', 'PRCOL_00004098' => 'pco', 'Prupe.1G013900' => 'ppe', 'Prupe.1G226300' => 'ppe', 'Prupe.1G573600' => 'ppe', 'Prupe.6G130100' => 'ppe', 'Psat3g090040' => 'psa', 'Psat4g210440' => 'psa', 'Psat6g231040' => 'psa', 'Psat6g231080' => 'psa', 'Psat7g063000' => 'psa', 'Psat7g188000' => 'psa', 'Psat7g188040' => 'psa', 'PSO017G0206' => 'pso', 'PSO170G0501' => 'pso', 'PSO170G6422' => 'pso', 'PSO210G7739' => 'pso', 'PSO339G1808' => 'pso', 'PSO339G6135' => 'pso', 'PSO384G0010' => 'pso', 'PSO384G0964' => 'pso', 'PSO761G0050' => 'pso', 'PSO782G4085' => 'pso', 'QL01p012264' => 'qlo', 'QL02p099491' => 'qlo', 'QL03p033868' => 'qlo', 'QL04p046678' => 'qlo', 'QL06p002448' => 'qlo', 'RcHm_v2.0_Chr4g0416181' => 'rch', 'RcHm_v2.0_Chr5g0044701' => 'rch', 'RcHm_v2.0_Chr6g0265781' => 'rch', 'RcHm_v2.0_Chr7g0221031' => 'rch', 'Rhsim04G0202000' => 'rsi', 'Rhsim11G0127300' => 'rsi', 'Rhsim13G0111800' => 'rsi', 'Sabra01G0165600' => 'sbr', 'Sabra03G0008300' => 'sbr', 'Sabra04G0136900' => 'sbr', 'Sabra08G0013400' => 'sbr', 'Sabra08G0116800' => 'sbr', 'Sabra09G0128000' => 'sbr', 'Sabra10G0055500' => 'sbr', 'Sabra10G0073300' => 'sbr', 'SalBow3G0385' => 'sbo', 'SalBow3G1119' => 'sbo', 'SalBow3G2005' => 'sbo', 'SalBow6G2563' => 'sbo', 'SalBow6G6386' => 'sbo', 'Sc06g0008800' => 'sci', 'Sc07g0004950' => 'sci', 'Sc09g0005340' => 'sci', 'Sc13g0004410' => 'sci', 'Sc21g0007090' => 'sci', 'Sed0009285' => 'sed', 'Sed0017583' => 'sed', 'Sed0019699' => 'sed', 'Sed0023107' => 'sed', 'SEGI_10916' => 'sgi', 'SEGI_16217' => 'sgi', 'SEGI_19466' => 'sgi', 'SEGI_41115' => 'sgi', 'SGA_v2.0_scaffold111G31534' => 'sas', 'SGA_v2.0_scaffold22G09864' => 'sas', 'SGA_v2.0_scaffold338G49219' => 'sas', 'SGA_v2.0_scaffold92G28298' => 'sas', 'SMO119G0064' => 'smo', 'SMO223G0038' => 'smo', 'SMO347G0584' => 'smo', 'SMO351G0010' => 'smo', 'SMO356G0404' => 'smo', 'Solyc01g103920.3' => 'sly', 'Solyc04g009710.2' => 'sly', 'Solyc05g055280.2' => 'sly', 'Solyc10g044520.3' => 'sly', 'Solyc10g075160.1' => 'sly', 'Solyc11g006910.3' => 'sly', 'Solyc11g068430.3' => 'sly', 'Sopen01g046310' => 'spe', 'Sopen03g001200' => 'spe', 'Sopen04g004830' => 'spe', 'Sopen05g033720' => 'spe', 'Sopen06g030740' => 'spe', 'Sopen10g013090' => 'spe', 'Sopen10g027630' => 'spe', 'Sopen10g027640' => 'spe', 'Sopen11g002820' => 'spe', 'Sopen11g027140' => 'spe', 'Sp1g09680' => 'spa', 'Sp2g03630' => 'spa', 'Sp4g10320' => 'spa', 'Sp6g33400' => 'spa', 'Sp7g13030' => 'spa', 'TAR365G0317' => 'tar', 'TAR376G0979' => 'tar', 'TAR623G1665' => 'tar', 'TAR633G2373' => 'tar', 'TAR636G1400' => 'tar', 'THA.LOC104800529' => 'tha', 'THA.LOC104808547' => 'tha', 'THA.LOC104809615' => 'tha', 'THA.LOC104815724' => 'tha', 'THA.LOC104818480' => 'tha', 'THA.LOC104819179' => 'tha', 'THA.LOC104822270' => 'tha', 'THA.LOC104826425' => 'tha', 'Thecc.02G089700' => 'tca', 'Thecc.04G232300' => 'tca', 'Thecc.09G283400' => 'tca', 'Thhalv10009020m.g' => 'esa', 'Thhalv10015506m.g' => 'esa', 'Thhalv10017364m.g' => 'esa', 'Thhalv10023742m.g' => 'esa', 'Thhalv10026483m.g' => 'esa', 'TPR.G17232' => 'tpr', 'TPR.G2133' => 'tpr', 'TPR.G2498' => 'tpr', 'TPR.G31942' => 'tpr', 'TPR.G37877' => 'tpr', 'TPR.G4571' => 'tpr', 'TWI14G1113' => 'twi', 'TWI15G0426' => 'twi', 'TWI31G1005' => 'twi', 'TWI38G0513' => 'twi', 'TWI38G1484' => 'twi', 'TWI73G1098' => 'twi', 'unitig_26.g10519' => 'ugi', 'unitig_736.g22395' => 'ugi', 'unitig_747.g21234' => 'ugi', 'unitig_747.g21942' => 'ugi', 'vmacro14351' => 'vma', 'VMungo0540G0082' => 'vmu', 'VMungo0540G0405' => 'vmu', 'VMungo0540G1486' => 'vmu', 'VMungo0540G1692' => 'vmu', 'VMungo0720G2473' => 'vmu', 'VMungo1127G1562' => 'vmu', 'VMungo1215G1918' => 'vmu', 'Zm00001eb052650' => 'zma', 'Zm00001eb063710' => 'zma', 'Zm00001eb083950' => 'zma', 'Zm00001eb174420' => 'zma', 'Zm00001eb260140' => 'zma', 'Zm00001eb260150' => 'zma', 'Zm00001eb260160' => 'zma', 'Zm00001eb348290' => 'zma', 'Zm00001eb366870' => 'zma', 'Zm00001eb421930' => 'zma' ) $gf_id = 'HOM05D001025' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001025' ) $data_identifier = 'HOM05D001025' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 19, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 2, 'amhyb' => (int) 4, 'aly' => (int) 4, 'aox' => (int) 4, 'arhy' => (int) 3, 'ath' => (int) 5, 'atr' => (int) 4, 'acertr' => (int) 3, 'cqu' => (int) 7, 'bca' => (int) 17, 'bol' => (int) 10, 'bra' => (int) 9, 'can' => (int) 10, 'cansat' => (int) 6, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 5, 'cbr' => (int) 5, 'ccan' => (int) 5, 'cde' => (int) 4, 'cfa' => (int) 3, 'ccl' => (int) 6, 'cil' => (int) 4, 'cla' => (int) 3, 'col' => (int) 3, 'cpa' => (int) 3, 'cre' => (int) 7, 'csa' => (int) 5, 'camsi' => (int) 9, 'dca' => (int) 4, 'din' => (int) 5, 'dzi' => (int) 7, 'eca' => (int) 6, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 12, 'fve' => (int) 4, 'gma' => (int) 12, 'ghi' => (int) 17, 'gra' => (int) 9, 'vvi' => (int) 2, 'han' => (int) 8, 'cav' => (int) 5, 'hma' => (int) 9, 'vpl' => (int) 4, 'sun' => (int) 2, 'lal' => (int) 9, 'lja' => (int) 5, 'lonja' => (int) 6, 'lsa' => (int) 3, 'mes' => (int) 8, 'mpo' => (int) 3, 'mbi' => (int) 4, 'mco' => (int) 3, 'mdo' => (int) 5, 'mtr' => (int) 7, 'cme' => (int) 6, 'egut' => (int) 7, 'ama' => (int) 3, 'nta' => (int) 12, 'nnu' => (int) 9, 'oeu' => (int) 4, 'osa' => (int) 7, 'pax' => (int) 9, 'pgr' => (int) 5, 'stu' => (int) 8, 'pvu' => (int) 6, 'ptr' => (int) 9, 'ppa' => (int) 9, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 7, 'pso' => (int) 10, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 3, 'sbr' => (int) 8, 'sbo' => (int) 5, 'sci' => (int) 5, 'sed' => (int) 4, 'sgi' => (int) 4, 'sas' => (int) 4, 'smo' => (int) 5, 'sly' => (int) 7, 'spe' => (int) 10, 'spa' => (int) 5, 'tar' => (int) 5, 'tha' => (int) 8, 'tca' => (int) 3, 'esa' => (int) 5, 'tpr' => (int) 6, 'twi' => (int) 6, 'ugi' => (int) 4, 'vma' => (int) 1, 'vmu' => (int) 7, 'zma' => (int) 10 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb421930' $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' => 'HOM05D001025', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '592', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p22650' => 'bna', 'A01p29720' => 'bna', 'A03p26560' => 'bna', 'A03p68820' => 'bna', 'A04p20980' => 'bna', 'A06p07730' => 'bna', 'A07p18260' => 'bna', 'A08p33710' => 'bna', 'A09p16970' => 'bna', 'A10p27490' => 'bna', 'Aa31LG1G17300' => 'aar', 'Aa31LG1G3910' => 'aar', 'Aa31LG2G9630' => 'aar', 'Aa31LG5G8360' => 'aar', 'Aa31LG9G2410' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4699' => 'aag', 'Actinidia23512' => 'ach', 'Actinidia37080' => 'ach', 'Ah.01g020380' => 'amhyb', 'Ah.08g215710' => 'amhyb', 'Ah.09g225110' => 'amhyb', 'Ah.10g036680' => 'amhyb', 'AL1G21940' => 'aly', 'AL2G15540' => 'aly', 'AL4G21520' => 'aly', 'AL7G40960' => 'aly', 'Aqoxy2G01191' => 'aox', 'Aqoxy2G03393' => 'aox', 'Aqoxy4G02775' => 'aox', 'Aqoxy6G00058' => 'aox', 'arahy.Tifrunner.gnm1.ann1.9X74H2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CW3FX9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R485W7' => 'arhy', 'AT1G10960' => 'ath', 'AT1G60950' => 'ath', 'AT2G27510' => 'ath', 'AT4G14890' => 'ath', 'AT5G10000' => 'ath', 'ATR0665G624' => 'atr', 'ATR0697G138' => 'atr', 'ATR0776G046' => 'atr', 'ATR1134G135' => 'atr', 'Atru.chr12.1025' => 'acertr', 'Atru.chr3.3241' => 'acertr', 'Atru.chr4.2460' => 'acertr', 'AUR62007427' => 'cqu', 'AUR62010960' => 'cqu', 'AUR62012201' => 'cqu', 'AUR62021470' => 'cqu', 'AUR62022834' => 'cqu', 'AUR62033635' => 'cqu', 'AUR62036186' => 'cqu', 'BcaB01g03077' => 'bca', 'BcaB02g10093' => 'bca', 'BcaB04g20295' => 'bca', 'BcaB06g28147' => 'bca', 'BcaB07g31253' => 'bca', 'BcaC01g04946' => 'bca', 'BcaC02g10614' => 'bca', 'BcaC02g10885' => 'bca', 'BcaC04g19356' => 'bca', 'BcaC04g22297' => 'bca', 'BcaC05g24977' => 'bca', 'BcaC06g31823' => 'bca', 'BcaC07g38633' => 'bca', 'BcaC09g49353' => 'bca', 'BcaC09g50168' => 'bca', 'BcaNung00322' => 'bca', 'BcaNung04769' => 'bca', 'BolC1t02753H' => 'bol', 'BolC1t03721H' => 'bol', 'BolC3t15525H' => 'bol', 'BolC4t23903H' => 'bol', 'BolC4t24231H' => 'bol', 'BolC4t27209H' => 'bol', 'BolC5t29671H' => 'bol', 'BolC8t49044H' => 'bol', 'BolC9t54999H' => 'bol', 'BolC9t59517H' => 'bol', 'BraA01t02178Z' => 'bra', 'BraA01t03099Z' => 'bra', 'BraA03t11867Z' => 'bra', 'BraA04t17667Z' => 'bra', 'BraA07t29542Z' => 'bra', 'BraA08t35287Z' => 'bra', 'BraA09t37334Z' => 'bra', 'BraA10t44801Z' => 'bra', 'BraSC39t46181Z' => 'bra', 'C01p28240' => 'bna', 'C01p37530' => 'bna', 'C03p31820' => 'bna', 'C04p24080' => 'bna', 'C04p25790' => 'bna', 'C04p56770' => 'bna', 'C05p09310' => 'bna', 'C09p21010' => 'bna', 'C09p67560' => 'bna', 'CAN.G1324.7' => 'can', 'CAN.G1358.10' => 'can', 'CAN.G1550.2' => 'can', 'CAN.G186.56' => 'can', 'CAN.G1965.1' => 'can', 'CAN.G645.15' => 'can', 'CAN.G798.26' => 'can', 'CAN.G798.27' => 'can', 'CAN.G798.29' => 'can', 'CAN.G919.31' => 'can', 'CANSAT11G0133' => 'cansat', 'CANSAT11G1171' => 'cansat', 'CANSAT11G2056' => 'cansat', 'CANSAT56G1202' => 'cansat', 'CANSAT56G1514' => 'cansat', 'CANSAT78G0455' => 'cansat', 'CARHR011190' => 'chi', 'CARHR051980' => 'chi', 'CARHR120170' => 'chi', 'CARHR203310' => 'chi', 'CARHR221490' => 'chi', 'Carub.0001s1054' => 'cru', 'Carub.0002s0431' => 'cru', 'Carub.0004s0818' => 'cru', 'Carub.0006s0846' => 'cru', 'Carub.0007s2722' => 'cru', 'Ca_00058_v3' => 'car', 'Ca_17831_v3' => 'car', 'Ca_19408_v3' => 'car', 'Ca_24397_v3' => 'car', 'Ca_25664_v3' => 'car', 'CBR_g21818' => 'cbr', 'CBR_g31195' => 'cbr', 'CBR_g32282' => 'cbr', 'CBR_g39599' => 'cbr', 'CBR_g49410' => 'cbr', 'Cc01_g09120' => 'ccan', 'Cc01_g09130' => 'ccan', 'Cc02_g09630' => 'ccan', 'Cc02_g22810' => 'ccan', 'Cc03_g03810' => 'ccan', 'CDE02G3718' => 'cde', 'CDE04G3183' => 'cde', 'CDE07G1046' => 'cde', 'CDE08G0480' => 'cde', 'Cfa005493' => 'cfa', 'Cfa010312' => 'cfa', 'Cfa015648' => 'cfa', 'Ciclev10002793m.g' => 'ccl', 'Ciclev10003356m.g' => 'ccl', 'Ciclev10006141m.g' => 'ccl', 'Ciclev10016676m.g' => 'ccl', 'Ciclev10017081m.g' => 'ccl', 'Ciclev10029499m.g' => 'ccl', 'CiPaw.01G166300' => 'cil', 'CiPaw.06G145600' => 'cil', 'CiPaw.13G040100' => 'cil', 'CiPaw.13G135800' => 'cil', 'ClCG01G012230' => 'cla', 'ClCG05G009510' => 'cla', 'ClCG08G008270' => 'cla', 'COL.COLO4_11763' => 'col', 'COL.COLO4_19876' => 'col', 'COL.COLO4_21481' => 'col', 'Cpa.g.sc118.34' => 'cpa', 'Cpa.g.sc32.13' => 'cpa', 'Cpa.g.sc58.103' => 'cpa', 'Cre03.g183850' => 'cre', 'Cre06.g306350' => 'cre', 'Cre07.g334800' => 'cre', 'Cre12.g487900' => 'cre', 'Cre14.g626700' => 'cre', 'Cre16.g658400' => 'cre', 'Cre17.g700950' => 'cre', 'CsaV3_1G014830' => 'csa', 'CsaV3_3G013320' => 'csa', 'CsaV3_3G019210' => 'csa', 'CsaV3_3G019220' => 'csa', 'CsaV3_6G004230' => 'csa', 'CSS0003773' => 'camsi', 'CSS0004563' => 'camsi', 'CSS0013949' => 'camsi', 'CSS0025971' => 'camsi', 'CSS0028570' => 'camsi', 'CSS0033127' => 'camsi', 'CSS0036051' => 'camsi', 'CSS0040087' => 'camsi', 'CSS0043179' => 'camsi', 'DCAR_006161' => 'dca', 'DCAR_010351' => 'dca', 'DCAR_012197' => 'dca', 'DCAR_024162' => 'dca', 'Dinv01030' => 'din', 'Dinv10924' => 'din', 'Dinv11835' => 'din', 'Dinv22841' => 'din', 'Dinv42553' => 'din', 'Duzib052G0560' => 'dzi', 'Duzib132G0389' => 'dzi', 'Duzib150G1181' => 'dzi', 'Duzib168G0623' => 'dzi', 'Duzib170G1036' => 'dzi', 'Duzib212G0200' => 'dzi', 'Duzib248G0194' => 'dzi', 'ECA232G2193' => 'eca', 'ECA233G0302' => 'eca', 'ECA234G2813' => 'eca', 'ECA234G4866' => 'eca', 'ECA240G3932' => 'eca', 'ECA248G0385' => 'eca', 'EL10Ac2g04781' => 'bvu', 'EL10Ac3g06445' => 'bvu', 'EL10Ac7g15825' => 'bvu', 'EL10Ac8g18550' => 'bvu', 'Eucgr.B03849' => 'egr', 'Eucgr.I02744' => 'egr', 'Eucgr.J00264' => 'egr', 'Eucgr.J00493' => 'egr', 'FAN04G2181' => 'fan', 'FAN07G2666' => 'fan', 'FAN11G0024' => 'fan', 'FAN12G1105' => 'fan', 'FAN13G0302' => 'fan', 'FAN15G2781' => 'fan', 'FAN16G1274' => 'fan', 'FAN17G2988' => 'fan', 'FAN18G2621' => 'fan', 'FAN21G0013' => 'fan', 'FAN22G1211' => 'fan', 'FAN25G3626' => 'fan', 'FvH4_2g09491' => 'fve', 'FvH4_3g24910' => 'fve', 'FvH4_4g15630' => 'fve', 'FvH4_5g28820' => 'fve', 'Glyma.01G238000' => 'gma', 'Glyma.05G168400' => 'gma', 'Glyma.08G126800' => 'gma', 'Glyma.08G188500' => 'gma', 'Glyma.10G278900' => 'gma', 'Glyma.11G005700' => 'gma', 'Glyma.11G183300' => 'gma', 'Glyma.12G089200' => 'gma', 'Glyma.12G169400' => 'gma', 'Glyma.12G169500' => 'gma', 'Glyma.12G169600' => 'gma', 'Glyma.20G110800' => 'gma', 'Gohir.A03G192900' => 'ghi', 'Gohir.A03G193000' => 'ghi', 'Gohir.A05G080700' => 'ghi', 'Gohir.A09G216000' => 'ghi', 'Gohir.A12G027700' => 'ghi', 'Gohir.A13G036200' => 'ghi', 'Gohir.A13G222600' => 'ghi', 'Gohir.D02G213900' => 'ghi', 'Gohir.D02G214000' => 'ghi', 'Gohir.D05G083700' => 'ghi', 'Gohir.D05G083800' => 'ghi', 'Gohir.D05G083850' => 'ghi', 'Gohir.D08G015400' => 'ghi', 'Gohir.D09G218400' => 'ghi', 'Gohir.D12G027100' => 'ghi', 'Gohir.D13G034500' => 'ghi', 'Gohir.D13G227400' => 'ghi', 'Gorai.005G241800' => 'gra', 'Gorai.005G241900' => 'gra', 'Gorai.006G239400' => 'gra', 'Gorai.008G027600' => 'gra', 'Gorai.009G085400' => 'gra', 'Gorai.009G085500' => 'gra', 'Gorai.013G039000' => 'gra', 'Gorai.013G194800' => 'gra', 'Gorai.013G257900' => 'gra', 'GSVIVG01000982001' => 'vvi', 'GSVIVG01017981001' => 'vvi', 'HanXRQChr01g0024061' => 'han', 'HanXRQChr09g0247831' => 'han', 'HanXRQChr10g0294611' => 'han', 'HanXRQChr10g0294621' => 'han', 'HanXRQChr11g0346821' => 'han', 'HanXRQChr13g0397461' => 'han', 'HanXRQChr16g0513651' => 'han', 'HanXRQChr16g0513701' => 'han', 'Haze_00897' => 'cav', 'Haze_01745' => 'cav', 'Haze_02486' => 'cav', 'Haze_02487' => 'cav', 'Haze_23374' => 'cav', 'Hma1.2p1_0578F.1_g182520' => 'hma', 'Hma1.2p1_0602F.1_g187350' => 'hma', 'Hma1.2p1_0602F.1_g187360' => 'hma', 'Hma1.2p1_0874F.1_g231320' => 'hma', 'Hma1.2p1_1197F.1_g266210' => 'hma', 'Hma1.2p1_1197F.1_g266220' => 'hma', 'Hma1.2p1_2167F.1_g315895' => 'hma', 'Hma1.2p1_2190F.1_g316640' => 'hma', 'Hma1.2p1_3645F.1_g337153' => 'hma', 'HPP92_004907' => 'vpl', 'HPP92_012134' => 'vpl', 'HPP92_025136' => 'vpl', 'HPP92_026087' => 'vpl', 'Hund06782' => 'sun', 'Hund06784' => 'sun', 'Lalb_Chr01g0004861' => 'lal', 'Lalb_Chr02g0140591' => 'lal', 'Lalb_Chr02g0140611' => 'lal', 'Lalb_Chr03g0028101' => 'lal', 'Lalb_Chr07g0185791' => 'lal', 'Lalb_Chr12g0204491' => 'lal', 'Lalb_Chr13g0295671' => 'lal', 'Lalb_Chr19g0136461' => 'lal', 'Lalb_Chr21g0309191' => 'lal', 'Lj1g0028158' => 'lja', 'Lj1P236T38' => 'lonja', 'Lj2C32G2' => 'lonja', 'Lj2P944T8' => 'lonja', 'Lj2P963T15' => 'lonja', 'Lj3g0011788' => 'lja', 'Lj4g0025027' => 'lja', 'Lj5P255T36' => 'lonja', 'Lj6g0018866' => 'lja', 'Lj6P608T31' => 'lonja', 'LjContig00408g0008879' => 'lja', 'Lsat_1_v5_gn_5_105820' => 'lsa', 'Lsat_1_v5_gn_6_38800' => 'lsa', 'Lsat_1_v5_gn_7_67141' => 'lsa', 'Manes.04G003400' => 'mes', 'Manes.07G020000' => 'mes', 'Manes.07G020100' => 'mes', 'Manes.07G020150' => 'mes', 'Manes.10G061500' => 'mes', 'Manes.10G123200' => 'mes', 'Manes.11G161900' => 'mes', 'Manes.15G029300' => 'mes', 'Mapoly0071s0018' => 'mpo', 'Mapoly0082s0023' => 'mpo', 'Mapoly3477s0001' => 'mpo', 'MBI05_g31233_MAGBIO' => 'mbi', 'MBI09_g05946_MAGBIO' => 'mbi', 'MBI09_g05947_MAGBIO' => 'mbi', 'MBI17_g08346_MAGBIO' => 'mbi', 'MCO04G038' => 'mco', 'MCO09G370' => 'mco', 'MCO13G605' => 'mco', 'MD00G1075500' => 'mdo', 'MD03G1144300' => 'mdo', 'MD08G1236800' => 'mdo', 'MD13G1193300' => 'mdo', 'MD15G1428700' => 'mdo', 'Medtr1g112030' => 'mtr', 'Medtr1g112050' => 'mtr', 'Medtr2g006290' => 'mtr', 'Medtr2g086510' => 'mtr', 'Medtr4g053120' => 'mtr', 'Medtr5g006320' => 'mtr', 'Medtr8g088720' => 'mtr', 'MELO3C004712.2' => 'cme', 'MELO3C006533.2' => 'cme', 'MELO3C019438.2' => 'cme', 'MELO3C019440.2' => 'cme', 'MELO3C019441.2' => 'cme', 'MELO3C019895.2' => 'cme', 'Migut.B00811' => 'egut', 'Migut.D02447' => 'egut', 'Migut.F00875' => 'egut', 'Migut.N00186' => 'egut', 'Migut.N01051' => 'egut', 'Migut.N02491' => 'egut', 'Migut.O00784' => 'egut', 'MSTRG.12367' => 'ama', 'MSTRG.18756' => 'ama', 'MSTRG.21042' => 'ama', 'Nitab4.5_0000559g0040' => 'nta', 'Nitab4.5_0000667g0190' => 'nta', 'Nitab4.5_0000755g0160' => 'nta', 'Nitab4.5_0001216g0080' => 'nta', 'Nitab4.5_0004069g0040' => 'nta', 'Nitab4.5_0004129g0010' => 'nta', 'Nitab4.5_0005744g0030' => 'nta', 'Nitab4.5_0006996g0030' => 'nta', 'Nitab4.5_0008971g0040' => 'nta', 'Nitab4.5_0009769g0020' => 'nta', 'Nitab4.5_0009833g0010' => 'nta', 'Nitab4.5_0013140g0020' => 'nta', 'Nn003s41376' => 'nnu', 'Nn1g01857' => 'nnu', 'Nn1g03611' => 'nnu', 'Nn1g06853' => 'nnu', 'Nn3g18360' => 'nnu', 'Nn4g26328' => 'nnu', 'Nn5g27531' => 'nnu', 'Nn6g34899' => 'nnu', 'Nn7g36299' => 'nnu', 'Oeu021485.1' => 'oeu', 'Oeu022433.1' => 'oeu', 'Oeu032111.1' => 'oeu', 'Oeu051608.1' => 'oeu', 'Os01g0860601' => 'osa', 'Os03g0659200' => 'osa', 'Os03g0835900' => 'osa', 'Os04g0412200' => 'osa', 'Os05g0443500' => 'osa', 'Os07g0251500' => 'osa', 'Os08g0104600' => 'osa', 'Peaxi162Scf00003g00047' => 'pax', 'Peaxi162Scf00003g00052' => 'pax', 'Peaxi162Scf00003g00394' => 'pax', 'Peaxi162Scf00091g00621' => 'pax', 'Peaxi162Scf00152g00146' => 'pax', 'Peaxi162Scf00173g00025' => 'pax', 'Peaxi162Scf00195g00102' => 'pax', 'Peaxi162Scf00402g00013' => 'pax', 'Peaxi162Scf00519g00618' => 'pax', 'PGR004G2838' => 'pgr', 'PGR044G2275' => 'pgr', 'PGR102G1377' => 'pgr', 'PGR119G1245' => 'pgr', 'PGR142G4449' => 'pgr', 'PGSC0003DMG400004532' => 'stu', 'PGSC0003DMG400011950' => 'stu', 'PGSC0003DMG400023391' => 'stu', 'PGSC0003DMG400023985' => 'stu', 'PGSC0003DMG400026360' => 'stu', 'PGSC0003DMG400035711' => 'stu', 'PGSC0003DMG400037286' => 'stu', 'PGSC0003DMG402005881' => 'stu', 'Phvul.002G045400' => 'pvu', 'Phvul.006G216600' => 'pvu', 'Phvul.006G216700' => 'pvu', 'Phvul.006G216800' => 'pvu', 'Phvul.007G022500' => 'pvu', 'Phvul.011G094400' => 'pvu', 'Potri.001G470700' => 'ptr', 'Potri.003G015200' => 'ptr', 'Potri.004G202500' => 'ptr', 'Potri.004G218400' => 'ptr', 'Potri.008G020100' => 'ptr', 'Potri.008G153200' => 'ptr', 'Potri.009G163800' => 'ptr', 'Potri.010G087300' => 'ptr', 'Potri.010G239100' => 'ptr', 'Pp3c10_16100' => 'ppa', 'Pp3c10_16880' => 'ppa', 'Pp3c16_6230' => 'ppa', 'Pp3c17_18910' => 'ppa', 'Pp3c3_22119' => 'ppa', 'Pp3c3_22140' => 'ppa', 'Pp3c4_8159' => 'ppa', 'Pp3c4_8171' => 'ppa', 'Pp3c4_8330' => 'ppa', 'PRCOL_00004098' => 'pco', 'Prupe.1G013900' => 'ppe', 'Prupe.1G226300' => 'ppe', 'Prupe.1G573600' => 'ppe', 'Prupe.6G130100' => 'ppe', 'Psat3g090040' => 'psa', 'Psat4g210440' => 'psa', 'Psat6g231040' => 'psa', 'Psat6g231080' => 'psa', 'Psat7g063000' => 'psa', 'Psat7g188000' => 'psa', 'Psat7g188040' => 'psa', 'PSO017G0206' => 'pso', 'PSO170G0501' => 'pso', 'PSO170G6422' => 'pso', 'PSO210G7739' => 'pso', 'PSO339G1808' => 'pso', 'PSO339G6135' => 'pso', 'PSO384G0010' => 'pso', 'PSO384G0964' => 'pso', 'PSO761G0050' => 'pso', 'PSO782G4085' => 'pso', 'QL01p012264' => 'qlo', 'QL02p099491' => 'qlo', 'QL03p033868' => 'qlo', 'QL04p046678' => 'qlo', 'QL06p002448' => 'qlo', 'RcHm_v2.0_Chr4g0416181' => 'rch', 'RcHm_v2.0_Chr5g0044701' => 'rch', 'RcHm_v2.0_Chr6g0265781' => 'rch', 'RcHm_v2.0_Chr7g0221031' => 'rch', 'Rhsim04G0202000' => 'rsi', 'Rhsim11G0127300' => 'rsi', 'Rhsim13G0111800' => 'rsi', 'Sabra01G0165600' => 'sbr', 'Sabra03G0008300' => 'sbr', 'Sabra04G0136900' => 'sbr', 'Sabra08G0013400' => 'sbr', 'Sabra08G0116800' => 'sbr', 'Sabra09G0128000' => 'sbr', 'Sabra10G0055500' => 'sbr', 'Sabra10G0073300' => 'sbr', 'SalBow3G0385' => 'sbo', 'SalBow3G1119' => 'sbo', 'SalBow3G2005' => 'sbo', 'SalBow6G2563' => 'sbo', 'SalBow6G6386' => 'sbo', 'Sc06g0008800' => 'sci', 'Sc07g0004950' => 'sci', 'Sc09g0005340' => 'sci', 'Sc13g0004410' => 'sci', 'Sc21g0007090' => 'sci', 'Sed0009285' => 'sed', 'Sed0017583' => 'sed', 'Sed0019699' => 'sed', 'Sed0023107' => 'sed', 'SEGI_10916' => 'sgi', 'SEGI_16217' => 'sgi', 'SEGI_19466' => 'sgi', 'SEGI_41115' => 'sgi', 'SGA_v2.0_scaffold111G31534' => 'sas', 'SGA_v2.0_scaffold22G09864' => 'sas', 'SGA_v2.0_scaffold338G49219' => 'sas', 'SGA_v2.0_scaffold92G28298' => 'sas', 'SMO119G0064' => 'smo', 'SMO223G0038' => 'smo', 'SMO347G0584' => 'smo', 'SMO351G0010' => 'smo', 'SMO356G0404' => 'smo', 'Solyc01g103920.3' => 'sly', 'Solyc04g009710.2' => 'sly', 'Solyc05g055280.2' => 'sly', 'Solyc10g044520.3' => 'sly', 'Solyc10g075160.1' => 'sly', 'Solyc11g006910.3' => 'sly', 'Solyc11g068430.3' => 'sly', 'Sopen01g046310' => 'spe', 'Sopen03g001200' => 'spe', 'Sopen04g004830' => 'spe', 'Sopen05g033720' => 'spe', 'Sopen06g030740' => 'spe', 'Sopen10g013090' => 'spe', 'Sopen10g027630' => 'spe', 'Sopen10g027640' => 'spe', 'Sopen11g002820' => 'spe', 'Sopen11g027140' => 'spe', 'Sp1g09680' => 'spa', 'Sp2g03630' => 'spa', 'Sp4g10320' => 'spa', 'Sp6g33400' => 'spa', 'Sp7g13030' => 'spa', 'TAR365G0317' => 'tar', 'TAR376G0979' => 'tar', 'TAR623G1665' => 'tar', 'TAR633G2373' => 'tar', 'TAR636G1400' => 'tar', 'THA.LOC104800529' => 'tha', 'THA.LOC104808547' => 'tha', 'THA.LOC104809615' => 'tha', 'THA.LOC104815724' => 'tha', 'THA.LOC104818480' => 'tha', 'THA.LOC104819179' => 'tha', 'THA.LOC104822270' => 'tha', 'THA.LOC104826425' => 'tha', 'Thecc.02G089700' => 'tca', 'Thecc.04G232300' => 'tca', 'Thecc.09G283400' => 'tca', 'Thhalv10009020m.g' => 'esa', 'Thhalv10015506m.g' => 'esa', 'Thhalv10017364m.g' => 'esa', 'Thhalv10023742m.g' => 'esa', 'Thhalv10026483m.g' => 'esa', 'TPR.G17232' => 'tpr', 'TPR.G2133' => 'tpr', 'TPR.G2498' => 'tpr', 'TPR.G31942' => 'tpr', 'TPR.G37877' => 'tpr', 'TPR.G4571' => 'tpr', 'TWI14G1113' => 'twi', 'TWI15G0426' => 'twi', 'TWI31G1005' => 'twi', 'TWI38G0513' => 'twi', 'TWI38G1484' => 'twi', 'TWI73G1098' => 'twi', 'unitig_26.g10519' => 'ugi', 'unitig_736.g22395' => 'ugi', 'unitig_747.g21234' => 'ugi', 'unitig_747.g21942' => 'ugi', 'vmacro14351' => 'vma', 'VMungo0540G0082' => 'vmu', 'VMungo0540G0405' => 'vmu', 'VMungo0540G1486' => 'vmu', 'VMungo0540G1692' => 'vmu', 'VMungo0720G2473' => 'vmu', 'VMungo1127G1562' => 'vmu', 'VMungo1215G1918' => 'vmu', 'Zm00001eb052650' => 'zma', 'Zm00001eb063710' => 'zma', 'Zm00001eb083950' => 'zma', 'Zm00001eb174420' => 'zma', 'Zm00001eb260140' => 'zma', 'Zm00001eb260150' => 'zma', 'Zm00001eb260160' => 'zma', 'Zm00001eb348290' => 'zma', 'Zm00001eb366870' => 'zma', 'Zm00001eb421930' => 'zma' ), 'gf_id' => 'HOM05D001025', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001025' ), 'data_identifier' => 'HOM05D001025', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001025', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '592', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p22650' => 'bna', 'A01p29720' => 'bna', 'A03p26560' => 'bna', 'A03p68820' => 'bna', 'A04p20980' => 'bna', 'A06p07730' => 'bna', 'A07p18260' => 'bna', 'A08p33710' => 'bna', 'A09p16970' => 'bna', 'A10p27490' => 'bna', 'Aa31LG1G17300' => 'aar', 'Aa31LG1G3910' => 'aar', 'Aa31LG2G9630' => 'aar', 'Aa31LG5G8360' => 'aar', 'Aa31LG9G2410' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4699' => 'aag', 'Actinidia23512' => 'ach', 'Actinidia37080' => 'ach', 'Ah.01g020380' => 'amhyb', 'Ah.08g215710' => 'amhyb', 'Ah.09g225110' => 'amhyb', 'Ah.10g036680' => 'amhyb', 'AL1G21940' => 'aly', 'AL2G15540' => 'aly', 'AL4G21520' => 'aly', 'AL7G40960' => 'aly', 'Aqoxy2G01191' => 'aox', 'Aqoxy2G03393' => 'aox', 'Aqoxy4G02775' => 'aox', 'Aqoxy6G00058' => 'aox', 'arahy.Tifrunner.gnm1.ann1.9X74H2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CW3FX9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R485W7' => 'arhy', 'AT1G10960' => 'ath', 'AT1G60950' => 'ath', 'AT2G27510' => 'ath', 'AT4G14890' => 'ath', 'AT5G10000' => 'ath', 'ATR0665G624' => 'atr', 'ATR0697G138' => 'atr', 'ATR0776G046' => 'atr', 'ATR1134G135' => 'atr', 'Atru.chr12.1025' => 'acertr', 'Atru.chr3.3241' => 'acertr', 'Atru.chr4.2460' => 'acertr', 'AUR62007427' => 'cqu', 'AUR62010960' => 'cqu', 'AUR62012201' => 'cqu', 'AUR62021470' => 'cqu', 'AUR62022834' => 'cqu', 'AUR62033635' => 'cqu', 'AUR62036186' => 'cqu', 'BcaB01g03077' => 'bca', 'BcaB02g10093' => 'bca', 'BcaB04g20295' => 'bca', 'BcaB06g28147' => 'bca', 'BcaB07g31253' => 'bca', 'BcaC01g04946' => 'bca', 'BcaC02g10614' => 'bca', 'BcaC02g10885' => 'bca', 'BcaC04g19356' => 'bca', 'BcaC04g22297' => 'bca', 'BcaC05g24977' => 'bca', 'BcaC06g31823' => 'bca', 'BcaC07g38633' => 'bca', 'BcaC09g49353' => 'bca', 'BcaC09g50168' => 'bca', 'BcaNung00322' => 'bca', 'BcaNung04769' => 'bca', 'BolC1t02753H' => 'bol', 'BolC1t03721H' => 'bol', 'BolC3t15525H' => 'bol', 'BolC4t23903H' => 'bol', 'BolC4t24231H' => 'bol', 'BolC4t27209H' => 'bol', 'BolC5t29671H' => 'bol', 'BolC8t49044H' => 'bol', 'BolC9t54999H' => 'bol', 'BolC9t59517H' => 'bol', 'BraA01t02178Z' => 'bra', 'BraA01t03099Z' => 'bra', 'BraA03t11867Z' => 'bra', 'BraA04t17667Z' => 'bra', 'BraA07t29542Z' => 'bra', 'BraA08t35287Z' => 'bra', 'BraA09t37334Z' => 'bra', 'BraA10t44801Z' => 'bra', 'BraSC39t46181Z' => 'bra', 'C01p28240' => 'bna', 'C01p37530' => 'bna', 'C03p31820' => 'bna', 'C04p24080' => 'bna', 'C04p25790' => 'bna', 'C04p56770' => 'bna', 'C05p09310' => 'bna', 'C09p21010' => 'bna', 'C09p67560' => 'bna', 'CAN.G1324.7' => 'can', 'CAN.G1358.10' => 'can', 'CAN.G1550.2' => 'can', 'CAN.G186.56' => 'can', 'CAN.G1965.1' => 'can', 'CAN.G645.15' => 'can', 'CAN.G798.26' => 'can', 'CAN.G798.27' => 'can', 'CAN.G798.29' => 'can', 'CAN.G919.31' => 'can', 'CANSAT11G0133' => 'cansat', 'CANSAT11G1171' => 'cansat', 'CANSAT11G2056' => 'cansat', 'CANSAT56G1202' => 'cansat', 'CANSAT56G1514' => 'cansat', 'CANSAT78G0455' => 'cansat', 'CARHR011190' => 'chi', 'CARHR051980' => 'chi', 'CARHR120170' => 'chi', 'CARHR203310' => 'chi', 'CARHR221490' => 'chi', 'Carub.0001s1054' => 'cru', 'Carub.0002s0431' => 'cru', 'Carub.0004s0818' => 'cru', 'Carub.0006s0846' => 'cru', 'Carub.0007s2722' => 'cru', 'Ca_00058_v3' => 'car', 'Ca_17831_v3' => 'car', 'Ca_19408_v3' => 'car', 'Ca_24397_v3' => 'car', 'Ca_25664_v3' => 'car', 'CBR_g21818' => 'cbr', 'CBR_g31195' => 'cbr', 'CBR_g32282' => 'cbr', 'CBR_g39599' => 'cbr', 'CBR_g49410' => 'cbr', 'Cc01_g09120' => 'ccan', 'Cc01_g09130' => 'ccan', 'Cc02_g09630' => 'ccan', 'Cc02_g22810' => 'ccan', 'Cc03_g03810' => 'ccan', 'CDE02G3718' => 'cde', 'CDE04G3183' => 'cde', 'CDE07G1046' => 'cde', 'CDE08G0480' => 'cde', 'Cfa005493' => 'cfa', 'Cfa010312' => 'cfa', 'Cfa015648' => 'cfa', 'Ciclev10002793m.g' => 'ccl', 'Ciclev10003356m.g' => 'ccl', 'Ciclev10006141m.g' => 'ccl', 'Ciclev10016676m.g' => 'ccl', 'Ciclev10017081m.g' => 'ccl', 'Ciclev10029499m.g' => 'ccl', 'CiPaw.01G166300' => 'cil', 'CiPaw.06G145600' => 'cil', 'CiPaw.13G040100' => 'cil', 'CiPaw.13G135800' => 'cil', 'ClCG01G012230' => 'cla', 'ClCG05G009510' => 'cla', 'ClCG08G008270' => 'cla', 'COL.COLO4_11763' => 'col', 'COL.COLO4_19876' => 'col', 'COL.COLO4_21481' => 'col', 'Cpa.g.sc118.34' => 'cpa', 'Cpa.g.sc32.13' => 'cpa', 'Cpa.g.sc58.103' => 'cpa', 'Cre03.g183850' => 'cre', 'Cre06.g306350' => 'cre', 'Cre07.g334800' => 'cre', 'Cre12.g487900' => 'cre', 'Cre14.g626700' => 'cre', 'Cre16.g658400' => 'cre', 'Cre17.g700950' => 'cre', 'CsaV3_1G014830' => 'csa', 'CsaV3_3G013320' => 'csa', 'CsaV3_3G019210' => 'csa', 'CsaV3_3G019220' => 'csa', 'CsaV3_6G004230' => 'csa', 'CSS0003773' => 'camsi', 'CSS0004563' => 'camsi', 'CSS0013949' => 'camsi', 'CSS0025971' => 'camsi', 'CSS0028570' => 'camsi', 'CSS0033127' => 'camsi', 'CSS0036051' => 'camsi', 'CSS0040087' => 'camsi', 'CSS0043179' => 'camsi', 'DCAR_006161' => 'dca', 'DCAR_010351' => 'dca', 'DCAR_012197' => 'dca', 'DCAR_024162' => 'dca', 'Dinv01030' => 'din', 'Dinv10924' => 'din', 'Dinv11835' => 'din', 'Dinv22841' => 'din', 'Dinv42553' => 'din', 'Duzib052G0560' => 'dzi', 'Duzib132G0389' => 'dzi', 'Duzib150G1181' => 'dzi', 'Duzib168G0623' => 'dzi', 'Duzib170G1036' => 'dzi', 'Duzib212G0200' => 'dzi', 'Duzib248G0194' => 'dzi', 'ECA232G2193' => 'eca', 'ECA233G0302' => 'eca', 'ECA234G2813' => 'eca', 'ECA234G4866' => 'eca', 'ECA240G3932' => 'eca', 'ECA248G0385' => 'eca', 'EL10Ac2g04781' => 'bvu', 'EL10Ac3g06445' => 'bvu', 'EL10Ac7g15825' => 'bvu', 'EL10Ac8g18550' => 'bvu', 'Eucgr.B03849' => 'egr', 'Eucgr.I02744' => 'egr', 'Eucgr.J00264' => 'egr', 'Eucgr.J00493' => 'egr', 'FAN04G2181' => 'fan', 'FAN07G2666' => 'fan', 'FAN11G0024' => 'fan', 'FAN12G1105' => 'fan', 'FAN13G0302' => 'fan', 'FAN15G2781' => 'fan', 'FAN16G1274' => 'fan', 'FAN17G2988' => 'fan', 'FAN18G2621' => 'fan', 'FAN21G0013' => 'fan', 'FAN22G1211' => 'fan', 'FAN25G3626' => 'fan', 'FvH4_2g09491' => 'fve', 'FvH4_3g24910' => 'fve', 'FvH4_4g15630' => 'fve', 'FvH4_5g28820' => 'fve', 'Glyma.01G238000' => 'gma', 'Glyma.05G168400' => 'gma', 'Glyma.08G126800' => 'gma', 'Glyma.08G188500' => 'gma', 'Glyma.10G278900' => 'gma', 'Glyma.11G005700' => 'gma', 'Glyma.11G183300' => 'gma', 'Glyma.12G089200' => 'gma', 'Glyma.12G169400' => 'gma', 'Glyma.12G169500' => 'gma', 'Glyma.12G169600' => 'gma', 'Glyma.20G110800' => 'gma', 'Gohir.A03G192900' => 'ghi', 'Gohir.A03G193000' => 'ghi', 'Gohir.A05G080700' => 'ghi', 'Gohir.A09G216000' => 'ghi', 'Gohir.A12G027700' => 'ghi', 'Gohir.A13G036200' => 'ghi', 'Gohir.A13G222600' => 'ghi', 'Gohir.D02G213900' => 'ghi', 'Gohir.D02G214000' => 'ghi', 'Gohir.D05G083700' => 'ghi', 'Gohir.D05G083800' => 'ghi', 'Gohir.D05G083850' => 'ghi', 'Gohir.D08G015400' => 'ghi', 'Gohir.D09G218400' => 'ghi', 'Gohir.D12G027100' => 'ghi', 'Gohir.D13G034500' => 'ghi', 'Gohir.D13G227400' => 'ghi', 'Gorai.005G241800' => 'gra', 'Gorai.005G241900' => 'gra', 'Gorai.006G239400' => 'gra', 'Gorai.008G027600' => 'gra', 'Gorai.009G085400' => 'gra', 'Gorai.009G085500' => 'gra', 'Gorai.013G039000' => 'gra', 'Gorai.013G194800' => 'gra', 'Gorai.013G257900' => 'gra', 'GSVIVG01000982001' => 'vvi', 'GSVIVG01017981001' => 'vvi', 'HanXRQChr01g0024061' => 'han', 'HanXRQChr09g0247831' => 'han', 'HanXRQChr10g0294611' => 'han', 'HanXRQChr10g0294621' => 'han', 'HanXRQChr11g0346821' => 'han', 'HanXRQChr13g0397461' => 'han', 'HanXRQChr16g0513651' => 'han', 'HanXRQChr16g0513701' => 'han', 'Haze_00897' => 'cav', 'Haze_01745' => 'cav', 'Haze_02486' => 'cav', 'Haze_02487' => 'cav', 'Haze_23374' => 'cav', 'Hma1.2p1_0578F.1_g182520' => 'hma', 'Hma1.2p1_0602F.1_g187350' => 'hma', 'Hma1.2p1_0602F.1_g187360' => 'hma', 'Hma1.2p1_0874F.1_g231320' => 'hma', 'Hma1.2p1_1197F.1_g266210' => 'hma', 'Hma1.2p1_1197F.1_g266220' => 'hma', 'Hma1.2p1_2167F.1_g315895' => 'hma', 'Hma1.2p1_2190F.1_g316640' => 'hma', 'Hma1.2p1_3645F.1_g337153' => 'hma', 'HPP92_004907' => 'vpl', 'HPP92_012134' => 'vpl', 'HPP92_025136' => 'vpl', 'HPP92_026087' => 'vpl', 'Hund06782' => 'sun', 'Hund06784' => 'sun', 'Lalb_Chr01g0004861' => 'lal', 'Lalb_Chr02g0140591' => 'lal', 'Lalb_Chr02g0140611' => 'lal', 'Lalb_Chr03g0028101' => 'lal', 'Lalb_Chr07g0185791' => 'lal', 'Lalb_Chr12g0204491' => 'lal', 'Lalb_Chr13g0295671' => 'lal', 'Lalb_Chr19g0136461' => 'lal', 'Lalb_Chr21g0309191' => 'lal', 'Lj1g0028158' => 'lja', 'Lj1P236T38' => 'lonja', 'Lj2C32G2' => 'lonja', 'Lj2P944T8' => 'lonja', 'Lj2P963T15' => 'lonja', 'Lj3g0011788' => 'lja', 'Lj4g0025027' => 'lja', 'Lj5P255T36' => 'lonja', 'Lj6g0018866' => 'lja', 'Lj6P608T31' => 'lonja', 'LjContig00408g0008879' => 'lja', 'Lsat_1_v5_gn_5_105820' => 'lsa', 'Lsat_1_v5_gn_6_38800' => 'lsa', 'Lsat_1_v5_gn_7_67141' => 'lsa', 'Manes.04G003400' => 'mes', 'Manes.07G020000' => 'mes', 'Manes.07G020100' => 'mes', 'Manes.07G020150' => 'mes', 'Manes.10G061500' => 'mes', 'Manes.10G123200' => 'mes', 'Manes.11G161900' => 'mes', 'Manes.15G029300' => 'mes', 'Mapoly0071s0018' => 'mpo', 'Mapoly0082s0023' => 'mpo', 'Mapoly3477s0001' => 'mpo', 'MBI05_g31233_MAGBIO' => 'mbi', 'MBI09_g05946_MAGBIO' => 'mbi', 'MBI09_g05947_MAGBIO' => 'mbi', 'MBI17_g08346_MAGBIO' => 'mbi', 'MCO04G038' => 'mco', 'MCO09G370' => 'mco', 'MCO13G605' => 'mco', 'MD00G1075500' => 'mdo', 'MD03G1144300' => 'mdo', 'MD08G1236800' => 'mdo', 'MD13G1193300' => 'mdo', 'MD15G1428700' => 'mdo', 'Medtr1g112030' => 'mtr', 'Medtr1g112050' => 'mtr', 'Medtr2g006290' => 'mtr', 'Medtr2g086510' => 'mtr', 'Medtr4g053120' => 'mtr', 'Medtr5g006320' => 'mtr', 'Medtr8g088720' => 'mtr', 'MELO3C004712.2' => 'cme', 'MELO3C006533.2' => 'cme', 'MELO3C019438.2' => 'cme', 'MELO3C019440.2' => 'cme', 'MELO3C019441.2' => 'cme', 'MELO3C019895.2' => 'cme', 'Migut.B00811' => 'egut', 'Migut.D02447' => 'egut', 'Migut.F00875' => 'egut', 'Migut.N00186' => 'egut', 'Migut.N01051' => 'egut', 'Migut.N02491' => 'egut', 'Migut.O00784' => 'egut', 'MSTRG.12367' => 'ama', 'MSTRG.18756' => 'ama', 'MSTRG.21042' => 'ama', 'Nitab4.5_0000559g0040' => 'nta', 'Nitab4.5_0000667g0190' => 'nta', 'Nitab4.5_0000755g0160' => 'nta', 'Nitab4.5_0001216g0080' => 'nta', 'Nitab4.5_0004069g0040' => 'nta', 'Nitab4.5_0004129g0010' => 'nta', 'Nitab4.5_0005744g0030' => 'nta', 'Nitab4.5_0006996g0030' => 'nta', 'Nitab4.5_0008971g0040' => 'nta', 'Nitab4.5_0009769g0020' => 'nta', 'Nitab4.5_0009833g0010' => 'nta', 'Nitab4.5_0013140g0020' => 'nta', 'Nn003s41376' => 'nnu', 'Nn1g01857' => 'nnu', 'Nn1g03611' => 'nnu', 'Nn1g06853' => 'nnu', 'Nn3g18360' => 'nnu', 'Nn4g26328' => 'nnu', 'Nn5g27531' => 'nnu', 'Nn6g34899' => 'nnu', 'Nn7g36299' => 'nnu', 'Oeu021485.1' => 'oeu', 'Oeu022433.1' => 'oeu', 'Oeu032111.1' => 'oeu', 'Oeu051608.1' => 'oeu', 'Os01g0860601' => 'osa', 'Os03g0659200' => 'osa', 'Os03g0835900' => 'osa', 'Os04g0412200' => 'osa', 'Os05g0443500' => 'osa', 'Os07g0251500' => 'osa', 'Os08g0104600' => 'osa', 'Peaxi162Scf00003g00047' => 'pax', 'Peaxi162Scf00003g00052' => 'pax', 'Peaxi162Scf00003g00394' => 'pax', 'Peaxi162Scf00091g00621' => 'pax', 'Peaxi162Scf00152g00146' => 'pax', 'Peaxi162Scf00173g00025' => 'pax', 'Peaxi162Scf00195g00102' => 'pax', 'Peaxi162Scf00402g00013' => 'pax', 'Peaxi162Scf00519g00618' => 'pax', 'PGR004G2838' => 'pgr', 'PGR044G2275' => 'pgr', 'PGR102G1377' => 'pgr', 'PGR119G1245' => 'pgr', 'PGR142G4449' => 'pgr', 'PGSC0003DMG400004532' => 'stu', 'PGSC0003DMG400011950' => 'stu', 'PGSC0003DMG400023391' => 'stu', 'PGSC0003DMG400023985' => 'stu', 'PGSC0003DMG400026360' => 'stu', 'PGSC0003DMG400035711' => 'stu', 'PGSC0003DMG400037286' => 'stu', 'PGSC0003DMG402005881' => 'stu', 'Phvul.002G045400' => 'pvu', 'Phvul.006G216600' => 'pvu', 'Phvul.006G216700' => 'pvu', 'Phvul.006G216800' => 'pvu', 'Phvul.007G022500' => 'pvu', 'Phvul.011G094400' => 'pvu', 'Potri.001G470700' => 'ptr', 'Potri.003G015200' => 'ptr', 'Potri.004G202500' => 'ptr', 'Potri.004G218400' => 'ptr', 'Potri.008G020100' => 'ptr', 'Potri.008G153200' => 'ptr', 'Potri.009G163800' => 'ptr', 'Potri.010G087300' => 'ptr', 'Potri.010G239100' => 'ptr', 'Pp3c10_16100' => 'ppa', 'Pp3c10_16880' => 'ppa', 'Pp3c16_6230' => 'ppa', 'Pp3c17_18910' => 'ppa', 'Pp3c3_22119' => 'ppa', 'Pp3c3_22140' => 'ppa', 'Pp3c4_8159' => 'ppa', 'Pp3c4_8171' => 'ppa', 'Pp3c4_8330' => 'ppa', 'PRCOL_00004098' => 'pco', 'Prupe.1G013900' => 'ppe', 'Prupe.1G226300' => 'ppe', 'Prupe.1G573600' => 'ppe', 'Prupe.6G130100' => 'ppe', 'Psat3g090040' => 'psa', 'Psat4g210440' => 'psa', 'Psat6g231040' => 'psa', 'Psat6g231080' => 'psa', 'Psat7g063000' => 'psa', 'Psat7g188000' => 'psa', 'Psat7g188040' => 'psa', 'PSO017G0206' => 'pso', 'PSO170G0501' => 'pso', 'PSO170G6422' => 'pso', 'PSO210G7739' => 'pso', 'PSO339G1808' => 'pso', 'PSO339G6135' => 'pso', 'PSO384G0010' => 'pso', 'PSO384G0964' => 'pso', 'PSO761G0050' => 'pso', 'PSO782G4085' => 'pso', 'QL01p012264' => 'qlo', 'QL02p099491' => 'qlo', 'QL03p033868' => 'qlo', 'QL04p046678' => 'qlo', 'QL06p002448' => 'qlo', 'RcHm_v2.0_Chr4g0416181' => 'rch', 'RcHm_v2.0_Chr5g0044701' => 'rch', 'RcHm_v2.0_Chr6g0265781' => 'rch', 'RcHm_v2.0_Chr7g0221031' => 'rch', 'Rhsim04G0202000' => 'rsi', 'Rhsim11G0127300' => 'rsi', 'Rhsim13G0111800' => 'rsi', 'Sabra01G0165600' => 'sbr', 'Sabra03G0008300' => 'sbr', 'Sabra04G0136900' => 'sbr', 'Sabra08G0013400' => 'sbr', 'Sabra08G0116800' => 'sbr', 'Sabra09G0128000' => 'sbr', 'Sabra10G0055500' => 'sbr', 'Sabra10G0073300' => 'sbr', 'SalBow3G0385' => 'sbo', 'SalBow3G1119' => 'sbo', 'SalBow3G2005' => 'sbo', 'SalBow6G2563' => 'sbo', 'SalBow6G6386' => 'sbo', 'Sc06g0008800' => 'sci', 'Sc07g0004950' => 'sci', 'Sc09g0005340' => 'sci', 'Sc13g0004410' => 'sci', 'Sc21g0007090' => 'sci', 'Sed0009285' => 'sed', 'Sed0017583' => 'sed', 'Sed0019699' => 'sed', 'Sed0023107' => 'sed', 'SEGI_10916' => 'sgi', 'SEGI_16217' => 'sgi', 'SEGI_19466' => 'sgi', 'SEGI_41115' => 'sgi', 'SGA_v2.0_scaffold111G31534' => 'sas', 'SGA_v2.0_scaffold22G09864' => 'sas', 'SGA_v2.0_scaffold338G49219' => 'sas', 'SGA_v2.0_scaffold92G28298' => 'sas', 'SMO119G0064' => 'smo', 'SMO223G0038' => 'smo', 'SMO347G0584' => 'smo', 'SMO351G0010' => 'smo', 'SMO356G0404' => 'smo', 'Solyc01g103920.3' => 'sly', 'Solyc04g009710.2' => 'sly', 'Solyc05g055280.2' => 'sly', 'Solyc10g044520.3' => 'sly', 'Solyc10g075160.1' => 'sly', 'Solyc11g006910.3' => 'sly', 'Solyc11g068430.3' => 'sly', 'Sopen01g046310' => 'spe', 'Sopen03g001200' => 'spe', 'Sopen04g004830' => 'spe', 'Sopen05g033720' => 'spe', 'Sopen06g030740' => 'spe', 'Sopen10g013090' => 'spe', 'Sopen10g027630' => 'spe', 'Sopen10g027640' => 'spe', 'Sopen11g002820' => 'spe', 'Sopen11g027140' => 'spe', 'Sp1g09680' => 'spa', 'Sp2g03630' => 'spa', 'Sp4g10320' => 'spa', 'Sp6g33400' => 'spa', 'Sp7g13030' => 'spa', 'TAR365G0317' => 'tar', 'TAR376G0979' => 'tar', 'TAR623G1665' => 'tar', 'TAR633G2373' => 'tar', 'TAR636G1400' => 'tar', 'THA.LOC104800529' => 'tha', 'THA.LOC104808547' => 'tha', 'THA.LOC104809615' => 'tha', 'THA.LOC104815724' => 'tha', 'THA.LOC104818480' => 'tha', 'THA.LOC104819179' => 'tha', 'THA.LOC104822270' => 'tha', 'THA.LOC104826425' => 'tha', 'Thecc.02G089700' => 'tca', 'Thecc.04G232300' => 'tca', 'Thecc.09G283400' => 'tca', 'Thhalv10009020m.g' => 'esa', 'Thhalv10015506m.g' => 'esa', 'Thhalv10017364m.g' => 'esa', 'Thhalv10023742m.g' => 'esa', 'Thhalv10026483m.g' => 'esa', 'TPR.G17232' => 'tpr', 'TPR.G2133' => 'tpr', 'TPR.G2498' => 'tpr', 'TPR.G31942' => 'tpr', 'TPR.G37877' => 'tpr', 'TPR.G4571' => 'tpr', 'TWI14G1113' => 'twi', 'TWI15G0426' => 'twi', 'TWI31G1005' => 'twi', 'TWI38G0513' => 'twi', 'TWI38G1484' => 'twi', 'TWI73G1098' => 'twi', 'unitig_26.g10519' => 'ugi', 'unitig_736.g22395' => 'ugi', 'unitig_747.g21234' => 'ugi', 'unitig_747.g21942' => 'ugi', 'vmacro14351' => 'vma', 'VMungo0540G0082' => 'vmu', 'VMungo0540G0405' => 'vmu', 'VMungo0540G1486' => 'vmu', 'VMungo0540G1692' => 'vmu', 'VMungo0720G2473' => 'vmu', 'VMungo1127G1562' => 'vmu', 'VMungo1215G1918' => 'vmu', 'Zm00001eb052650' => 'zma', 'Zm00001eb063710' => 'zma', 'Zm00001eb083950' => 'zma', 'Zm00001eb174420' => 'zma', 'Zm00001eb260140' => 'zma', 'Zm00001eb260150' => 'zma', 'Zm00001eb260160' => 'zma', 'Zm00001eb348290' => 'zma', 'Zm00001eb366870' => 'zma', 'Zm00001eb421930' => 'zma' ) $gf_id = 'HOM05D001025' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001025' ) $data_identifier = 'HOM05D001025' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 19, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 2, 'amhyb' => (int) 4, 'aly' => (int) 4, 'aox' => (int) 4, 'arhy' => (int) 3, 'ath' => (int) 5, 'atr' => (int) 4, 'acertr' => (int) 3, 'cqu' => (int) 7, 'bca' => (int) 17, 'bol' => (int) 10, 'bra' => (int) 9, 'can' => (int) 10, 'cansat' => (int) 6, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 5, 'cbr' => (int) 5, 'ccan' => (int) 5, 'cde' => (int) 4, 'cfa' => (int) 3, 'ccl' => (int) 6, 'cil' => (int) 4, 'cla' => (int) 3, 'col' => (int) 3, 'cpa' => (int) 3, 'cre' => (int) 7, 'csa' => (int) 5, 'camsi' => (int) 9, 'dca' => (int) 4, 'din' => (int) 5, 'dzi' => (int) 7, 'eca' => (int) 6, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 12, 'fve' => (int) 4, 'gma' => (int) 12, 'ghi' => (int) 17, 'gra' => (int) 9, 'vvi' => (int) 2, 'han' => (int) 8, 'cav' => (int) 5, 'hma' => (int) 9, 'vpl' => (int) 4, 'sun' => (int) 2, 'lal' => (int) 9, 'lja' => (int) 5, 'lonja' => (int) 6, 'lsa' => (int) 3, 'mes' => (int) 8, 'mpo' => (int) 3, 'mbi' => (int) 4, 'mco' => (int) 3, 'mdo' => (int) 5, 'mtr' => (int) 7, 'cme' => (int) 6, 'egut' => (int) 7, 'ama' => (int) 3, 'nta' => (int) 12, 'nnu' => (int) 9, 'oeu' => (int) 4, 'osa' => (int) 7, 'pax' => (int) 9, 'pgr' => (int) 5, 'stu' => (int) 8, 'pvu' => (int) 6, 'ptr' => (int) 9, 'ppa' => (int) 9, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 7, 'pso' => (int) 10, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 3, 'sbr' => (int) 8, 'sbo' => (int) 5, 'sci' => (int) 5, 'sed' => (int) 4, 'sgi' => (int) 4, 'sas' => (int) 4, 'smo' => (int) 5, 'sly' => (int) 7, 'spe' => (int) 10, 'spa' => (int) 5, 'tar' => (int) 5, 'tha' => (int) 8, 'tca' => (int) 3, 'esa' => (int) 5, 'tpr' => (int) 6, 'twi' => (int) 6, 'ugi' => (int) 4, 'vma' => (int) 1, 'vmu' => (int) 7, 'zma' => (int) 10 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb421930' $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' => 'HOM05D001025', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '592', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p22650' => 'bna', 'A01p29720' => 'bna', 'A03p26560' => 'bna', 'A03p68820' => 'bna', 'A04p20980' => 'bna', 'A06p07730' => 'bna', 'A07p18260' => 'bna', 'A08p33710' => 'bna', 'A09p16970' => 'bna', 'A10p27490' => 'bna', 'Aa31LG1G17300' => 'aar', 'Aa31LG1G3910' => 'aar', 'Aa31LG2G9630' => 'aar', 'Aa31LG5G8360' => 'aar', 'Aa31LG9G2410' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4699' => 'aag', 'Actinidia23512' => 'ach', 'Actinidia37080' => 'ach', 'Ah.01g020380' => 'amhyb', 'Ah.08g215710' => 'amhyb', 'Ah.09g225110' => 'amhyb', 'Ah.10g036680' => 'amhyb', 'AL1G21940' => 'aly', 'AL2G15540' => 'aly', 'AL4G21520' => 'aly', 'AL7G40960' => 'aly', 'Aqoxy2G01191' => 'aox', 'Aqoxy2G03393' => 'aox', 'Aqoxy4G02775' => 'aox', 'Aqoxy6G00058' => 'aox', 'arahy.Tifrunner.gnm1.ann1.9X74H2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CW3FX9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R485W7' => 'arhy', 'AT1G10960' => 'ath', 'AT1G60950' => 'ath', 'AT2G27510' => 'ath', 'AT4G14890' => 'ath', 'AT5G10000' => 'ath', 'ATR0665G624' => 'atr', 'ATR0697G138' => 'atr', 'ATR0776G046' => 'atr', 'ATR1134G135' => 'atr', 'Atru.chr12.1025' => 'acertr', 'Atru.chr3.3241' => 'acertr', 'Atru.chr4.2460' => 'acertr', 'AUR62007427' => 'cqu', 'AUR62010960' => 'cqu', 'AUR62012201' => 'cqu', 'AUR62021470' => 'cqu', 'AUR62022834' => 'cqu', 'AUR62033635' => 'cqu', 'AUR62036186' => 'cqu', 'BcaB01g03077' => 'bca', 'BcaB02g10093' => 'bca', 'BcaB04g20295' => 'bca', 'BcaB06g28147' => 'bca', 'BcaB07g31253' => 'bca', 'BcaC01g04946' => 'bca', 'BcaC02g10614' => 'bca', 'BcaC02g10885' => 'bca', 'BcaC04g19356' => 'bca', 'BcaC04g22297' => 'bca', 'BcaC05g24977' => 'bca', 'BcaC06g31823' => 'bca', 'BcaC07g38633' => 'bca', 'BcaC09g49353' => 'bca', 'BcaC09g50168' => 'bca', 'BcaNung00322' => 'bca', 'BcaNung04769' => 'bca', 'BolC1t02753H' => 'bol', 'BolC1t03721H' => 'bol', 'BolC3t15525H' => 'bol', 'BolC4t23903H' => 'bol', 'BolC4t24231H' => 'bol', 'BolC4t27209H' => 'bol', 'BolC5t29671H' => 'bol', 'BolC8t49044H' => 'bol', 'BolC9t54999H' => 'bol', 'BolC9t59517H' => 'bol', 'BraA01t02178Z' => 'bra', 'BraA01t03099Z' => 'bra', 'BraA03t11867Z' => 'bra', 'BraA04t17667Z' => 'bra', 'BraA07t29542Z' => 'bra', 'BraA08t35287Z' => 'bra', 'BraA09t37334Z' => 'bra', 'BraA10t44801Z' => 'bra', 'BraSC39t46181Z' => 'bra', 'C01p28240' => 'bna', 'C01p37530' => 'bna', 'C03p31820' => 'bna', 'C04p24080' => 'bna', 'C04p25790' => 'bna', 'C04p56770' => 'bna', 'C05p09310' => 'bna', 'C09p21010' => 'bna', 'C09p67560' => 'bna', 'CAN.G1324.7' => 'can', 'CAN.G1358.10' => 'can', 'CAN.G1550.2' => 'can', 'CAN.G186.56' => 'can', 'CAN.G1965.1' => 'can', 'CAN.G645.15' => 'can', 'CAN.G798.26' => 'can', 'CAN.G798.27' => 'can', 'CAN.G798.29' => 'can', 'CAN.G919.31' => 'can', 'CANSAT11G0133' => 'cansat', 'CANSAT11G1171' => 'cansat', 'CANSAT11G2056' => 'cansat', 'CANSAT56G1202' => 'cansat', 'CANSAT56G1514' => 'cansat', 'CANSAT78G0455' => 'cansat', 'CARHR011190' => 'chi', 'CARHR051980' => 'chi', 'CARHR120170' => 'chi', 'CARHR203310' => 'chi', 'CARHR221490' => 'chi', 'Carub.0001s1054' => 'cru', 'Carub.0002s0431' => 'cru', 'Carub.0004s0818' => 'cru', 'Carub.0006s0846' => 'cru', 'Carub.0007s2722' => 'cru', 'Ca_00058_v3' => 'car', 'Ca_17831_v3' => 'car', 'Ca_19408_v3' => 'car', 'Ca_24397_v3' => 'car', 'Ca_25664_v3' => 'car', 'CBR_g21818' => 'cbr', 'CBR_g31195' => 'cbr', 'CBR_g32282' => 'cbr', 'CBR_g39599' => 'cbr', 'CBR_g49410' => 'cbr', 'Cc01_g09120' => 'ccan', 'Cc01_g09130' => 'ccan', 'Cc02_g09630' => 'ccan', 'Cc02_g22810' => 'ccan', 'Cc03_g03810' => 'ccan', 'CDE02G3718' => 'cde', 'CDE04G3183' => 'cde', 'CDE07G1046' => 'cde', 'CDE08G0480' => 'cde', 'Cfa005493' => 'cfa', 'Cfa010312' => 'cfa', 'Cfa015648' => 'cfa', 'Ciclev10002793m.g' => 'ccl', 'Ciclev10003356m.g' => 'ccl', 'Ciclev10006141m.g' => 'ccl', 'Ciclev10016676m.g' => 'ccl', 'Ciclev10017081m.g' => 'ccl', 'Ciclev10029499m.g' => 'ccl', 'CiPaw.01G166300' => 'cil', 'CiPaw.06G145600' => 'cil', 'CiPaw.13G040100' => 'cil', 'CiPaw.13G135800' => 'cil', 'ClCG01G012230' => 'cla', 'ClCG05G009510' => 'cla', 'ClCG08G008270' => 'cla', 'COL.COLO4_11763' => 'col', 'COL.COLO4_19876' => 'col', 'COL.COLO4_21481' => 'col', 'Cpa.g.sc118.34' => 'cpa', 'Cpa.g.sc32.13' => 'cpa', 'Cpa.g.sc58.103' => 'cpa', 'Cre03.g183850' => 'cre', 'Cre06.g306350' => 'cre', 'Cre07.g334800' => 'cre', 'Cre12.g487900' => 'cre', 'Cre14.g626700' => 'cre', 'Cre16.g658400' => 'cre', 'Cre17.g700950' => 'cre', 'CsaV3_1G014830' => 'csa', 'CsaV3_3G013320' => 'csa', 'CsaV3_3G019210' => 'csa', 'CsaV3_3G019220' => 'csa', 'CsaV3_6G004230' => 'csa', 'CSS0003773' => 'camsi', 'CSS0004563' => 'camsi', 'CSS0013949' => 'camsi', 'CSS0025971' => 'camsi', 'CSS0028570' => 'camsi', 'CSS0033127' => 'camsi', 'CSS0036051' => 'camsi', 'CSS0040087' => 'camsi', 'CSS0043179' => 'camsi', 'DCAR_006161' => 'dca', 'DCAR_010351' => 'dca', 'DCAR_012197' => 'dca', 'DCAR_024162' => 'dca', 'Dinv01030' => 'din', 'Dinv10924' => 'din', 'Dinv11835' => 'din', 'Dinv22841' => 'din', 'Dinv42553' => 'din', 'Duzib052G0560' => 'dzi', 'Duzib132G0389' => 'dzi', 'Duzib150G1181' => 'dzi', 'Duzib168G0623' => 'dzi', 'Duzib170G1036' => 'dzi', 'Duzib212G0200' => 'dzi', 'Duzib248G0194' => 'dzi', 'ECA232G2193' => 'eca', 'ECA233G0302' => 'eca', 'ECA234G2813' => 'eca', 'ECA234G4866' => 'eca', 'ECA240G3932' => 'eca', 'ECA248G0385' => 'eca', 'EL10Ac2g04781' => 'bvu', 'EL10Ac3g06445' => 'bvu', 'EL10Ac7g15825' => 'bvu', 'EL10Ac8g18550' => 'bvu', 'Eucgr.B03849' => 'egr', 'Eucgr.I02744' => 'egr', 'Eucgr.J00264' => 'egr', 'Eucgr.J00493' => 'egr', 'FAN04G2181' => 'fan', 'FAN07G2666' => 'fan', 'FAN11G0024' => 'fan', 'FAN12G1105' => 'fan', 'FAN13G0302' => 'fan', 'FAN15G2781' => 'fan', 'FAN16G1274' => 'fan', 'FAN17G2988' => 'fan', 'FAN18G2621' => 'fan', 'FAN21G0013' => 'fan', 'FAN22G1211' => 'fan', 'FAN25G3626' => 'fan', 'FvH4_2g09491' => 'fve', 'FvH4_3g24910' => 'fve', 'FvH4_4g15630' => 'fve', 'FvH4_5g28820' => 'fve', 'Glyma.01G238000' => 'gma', 'Glyma.05G168400' => 'gma', 'Glyma.08G126800' => 'gma', 'Glyma.08G188500' => 'gma', 'Glyma.10G278900' => 'gma', 'Glyma.11G005700' => 'gma', 'Glyma.11G183300' => 'gma', 'Glyma.12G089200' => 'gma', 'Glyma.12G169400' => 'gma', 'Glyma.12G169500' => 'gma', 'Glyma.12G169600' => 'gma', 'Glyma.20G110800' => 'gma', 'Gohir.A03G192900' => 'ghi', 'Gohir.A03G193000' => 'ghi', 'Gohir.A05G080700' => 'ghi', 'Gohir.A09G216000' => 'ghi', 'Gohir.A12G027700' => 'ghi', 'Gohir.A13G036200' => 'ghi', 'Gohir.A13G222600' => 'ghi', 'Gohir.D02G213900' => 'ghi', 'Gohir.D02G214000' => 'ghi', 'Gohir.D05G083700' => 'ghi', 'Gohir.D05G083800' => 'ghi', 'Gohir.D05G083850' => 'ghi', 'Gohir.D08G015400' => 'ghi', 'Gohir.D09G218400' => 'ghi', 'Gohir.D12G027100' => 'ghi', 'Gohir.D13G034500' => 'ghi', 'Gohir.D13G227400' => 'ghi', 'Gorai.005G241800' => 'gra', 'Gorai.005G241900' => 'gra', 'Gorai.006G239400' => 'gra', 'Gorai.008G027600' => 'gra', 'Gorai.009G085400' => 'gra', 'Gorai.009G085500' => 'gra', 'Gorai.013G039000' => 'gra', 'Gorai.013G194800' => 'gra', 'Gorai.013G257900' => 'gra', 'GSVIVG01000982001' => 'vvi', 'GSVIVG01017981001' => 'vvi', 'HanXRQChr01g0024061' => 'han', 'HanXRQChr09g0247831' => 'han', 'HanXRQChr10g0294611' => 'han', 'HanXRQChr10g0294621' => 'han', 'HanXRQChr11g0346821' => 'han', 'HanXRQChr13g0397461' => 'han', 'HanXRQChr16g0513651' => 'han', 'HanXRQChr16g0513701' => 'han', 'Haze_00897' => 'cav', 'Haze_01745' => 'cav', 'Haze_02486' => 'cav', 'Haze_02487' => 'cav', 'Haze_23374' => 'cav', 'Hma1.2p1_0578F.1_g182520' => 'hma', 'Hma1.2p1_0602F.1_g187350' => 'hma', 'Hma1.2p1_0602F.1_g187360' => 'hma', 'Hma1.2p1_0874F.1_g231320' => 'hma', 'Hma1.2p1_1197F.1_g266210' => 'hma', 'Hma1.2p1_1197F.1_g266220' => 'hma', 'Hma1.2p1_2167F.1_g315895' => 'hma', 'Hma1.2p1_2190F.1_g316640' => 'hma', 'Hma1.2p1_3645F.1_g337153' => 'hma', 'HPP92_004907' => 'vpl', 'HPP92_012134' => 'vpl', 'HPP92_025136' => 'vpl', 'HPP92_026087' => 'vpl', 'Hund06782' => 'sun', 'Hund06784' => 'sun', 'Lalb_Chr01g0004861' => 'lal', 'Lalb_Chr02g0140591' => 'lal', 'Lalb_Chr02g0140611' => 'lal', 'Lalb_Chr03g0028101' => 'lal', 'Lalb_Chr07g0185791' => 'lal', 'Lalb_Chr12g0204491' => 'lal', 'Lalb_Chr13g0295671' => 'lal', 'Lalb_Chr19g0136461' => 'lal', 'Lalb_Chr21g0309191' => 'lal', 'Lj1g0028158' => 'lja', 'Lj1P236T38' => 'lonja', 'Lj2C32G2' => 'lonja', 'Lj2P944T8' => 'lonja', 'Lj2P963T15' => 'lonja', 'Lj3g0011788' => 'lja', 'Lj4g0025027' => 'lja', 'Lj5P255T36' => 'lonja', 'Lj6g0018866' => 'lja', 'Lj6P608T31' => 'lonja', 'LjContig00408g0008879' => 'lja', 'Lsat_1_v5_gn_5_105820' => 'lsa', 'Lsat_1_v5_gn_6_38800' => 'lsa', 'Lsat_1_v5_gn_7_67141' => 'lsa', 'Manes.04G003400' => 'mes', 'Manes.07G020000' => 'mes', 'Manes.07G020100' => 'mes', 'Manes.07G020150' => 'mes', 'Manes.10G061500' => 'mes', 'Manes.10G123200' => 'mes', 'Manes.11G161900' => 'mes', 'Manes.15G029300' => 'mes', 'Mapoly0071s0018' => 'mpo', 'Mapoly0082s0023' => 'mpo', 'Mapoly3477s0001' => 'mpo', 'MBI05_g31233_MAGBIO' => 'mbi', 'MBI09_g05946_MAGBIO' => 'mbi', 'MBI09_g05947_MAGBIO' => 'mbi', 'MBI17_g08346_MAGBIO' => 'mbi', 'MCO04G038' => 'mco', 'MCO09G370' => 'mco', 'MCO13G605' => 'mco', 'MD00G1075500' => 'mdo', 'MD03G1144300' => 'mdo', 'MD08G1236800' => 'mdo', 'MD13G1193300' => 'mdo', 'MD15G1428700' => 'mdo', 'Medtr1g112030' => 'mtr', 'Medtr1g112050' => 'mtr', 'Medtr2g006290' => 'mtr', 'Medtr2g086510' => 'mtr', 'Medtr4g053120' => 'mtr', 'Medtr5g006320' => 'mtr', 'Medtr8g088720' => 'mtr', 'MELO3C004712.2' => 'cme', 'MELO3C006533.2' => 'cme', 'MELO3C019438.2' => 'cme', 'MELO3C019440.2' => 'cme', 'MELO3C019441.2' => 'cme', 'MELO3C019895.2' => 'cme', 'Migut.B00811' => 'egut', 'Migut.D02447' => 'egut', 'Migut.F00875' => 'egut', 'Migut.N00186' => 'egut', 'Migut.N01051' => 'egut', 'Migut.N02491' => 'egut', 'Migut.O00784' => 'egut', 'MSTRG.12367' => 'ama', 'MSTRG.18756' => 'ama', 'MSTRG.21042' => 'ama', 'Nitab4.5_0000559g0040' => 'nta', 'Nitab4.5_0000667g0190' => 'nta', 'Nitab4.5_0000755g0160' => 'nta', 'Nitab4.5_0001216g0080' => 'nta', 'Nitab4.5_0004069g0040' => 'nta', 'Nitab4.5_0004129g0010' => 'nta', 'Nitab4.5_0005744g0030' => 'nta', 'Nitab4.5_0006996g0030' => 'nta', 'Nitab4.5_0008971g0040' => 'nta', 'Nitab4.5_0009769g0020' => 'nta', 'Nitab4.5_0009833g0010' => 'nta', 'Nitab4.5_0013140g0020' => 'nta', 'Nn003s41376' => 'nnu', 'Nn1g01857' => 'nnu', 'Nn1g03611' => 'nnu', 'Nn1g06853' => 'nnu', 'Nn3g18360' => 'nnu', 'Nn4g26328' => 'nnu', 'Nn5g27531' => 'nnu', 'Nn6g34899' => 'nnu', 'Nn7g36299' => 'nnu', 'Oeu021485.1' => 'oeu', 'Oeu022433.1' => 'oeu', 'Oeu032111.1' => 'oeu', 'Oeu051608.1' => 'oeu', 'Os01g0860601' => 'osa', 'Os03g0659200' => 'osa', 'Os03g0835900' => 'osa', 'Os04g0412200' => 'osa', 'Os05g0443500' => 'osa', 'Os07g0251500' => 'osa', 'Os08g0104600' => 'osa', 'Peaxi162Scf00003g00047' => 'pax', 'Peaxi162Scf00003g00052' => 'pax', 'Peaxi162Scf00003g00394' => 'pax', 'Peaxi162Scf00091g00621' => 'pax', 'Peaxi162Scf00152g00146' => 'pax', 'Peaxi162Scf00173g00025' => 'pax', 'Peaxi162Scf00195g00102' => 'pax', 'Peaxi162Scf00402g00013' => 'pax', 'Peaxi162Scf00519g00618' => 'pax', 'PGR004G2838' => 'pgr', 'PGR044G2275' => 'pgr', 'PGR102G1377' => 'pgr', 'PGR119G1245' => 'pgr', 'PGR142G4449' => 'pgr', 'PGSC0003DMG400004532' => 'stu', 'PGSC0003DMG400011950' => 'stu', 'PGSC0003DMG400023391' => 'stu', 'PGSC0003DMG400023985' => 'stu', 'PGSC0003DMG400026360' => 'stu', 'PGSC0003DMG400035711' => 'stu', 'PGSC0003DMG400037286' => 'stu', 'PGSC0003DMG402005881' => 'stu', 'Phvul.002G045400' => 'pvu', 'Phvul.006G216600' => 'pvu', 'Phvul.006G216700' => 'pvu', 'Phvul.006G216800' => 'pvu', 'Phvul.007G022500' => 'pvu', 'Phvul.011G094400' => 'pvu', 'Potri.001G470700' => 'ptr', 'Potri.003G015200' => 'ptr', 'Potri.004G202500' => 'ptr', 'Potri.004G218400' => 'ptr', 'Potri.008G020100' => 'ptr', 'Potri.008G153200' => 'ptr', 'Potri.009G163800' => 'ptr', 'Potri.010G087300' => 'ptr', 'Potri.010G239100' => 'ptr', 'Pp3c10_16100' => 'ppa', 'Pp3c10_16880' => 'ppa', 'Pp3c16_6230' => 'ppa', 'Pp3c17_18910' => 'ppa', 'Pp3c3_22119' => 'ppa', 'Pp3c3_22140' => 'ppa', 'Pp3c4_8159' => 'ppa', 'Pp3c4_8171' => 'ppa', 'Pp3c4_8330' => 'ppa', 'PRCOL_00004098' => 'pco', 'Prupe.1G013900' => 'ppe', 'Prupe.1G226300' => 'ppe', 'Prupe.1G573600' => 'ppe', 'Prupe.6G130100' => 'ppe', 'Psat3g090040' => 'psa', 'Psat4g210440' => 'psa', 'Psat6g231040' => 'psa', 'Psat6g231080' => 'psa', 'Psat7g063000' => 'psa', 'Psat7g188000' => 'psa', 'Psat7g188040' => 'psa', 'PSO017G0206' => 'pso', 'PSO170G0501' => 'pso', 'PSO170G6422' => 'pso', 'PSO210G7739' => 'pso', 'PSO339G1808' => 'pso', 'PSO339G6135' => 'pso', 'PSO384G0010' => 'pso', 'PSO384G0964' => 'pso', 'PSO761G0050' => 'pso', 'PSO782G4085' => 'pso', 'QL01p012264' => 'qlo', 'QL02p099491' => 'qlo', 'QL03p033868' => 'qlo', 'QL04p046678' => 'qlo', 'QL06p002448' => 'qlo', 'RcHm_v2.0_Chr4g0416181' => 'rch', 'RcHm_v2.0_Chr5g0044701' => 'rch', 'RcHm_v2.0_Chr6g0265781' => 'rch', 'RcHm_v2.0_Chr7g0221031' => 'rch', 'Rhsim04G0202000' => 'rsi', 'Rhsim11G0127300' => 'rsi', 'Rhsim13G0111800' => 'rsi', 'Sabra01G0165600' => 'sbr', 'Sabra03G0008300' => 'sbr', 'Sabra04G0136900' => 'sbr', 'Sabra08G0013400' => 'sbr', 'Sabra08G0116800' => 'sbr', 'Sabra09G0128000' => 'sbr', 'Sabra10G0055500' => 'sbr', 'Sabra10G0073300' => 'sbr', 'SalBow3G0385' => 'sbo', 'SalBow3G1119' => 'sbo', 'SalBow3G2005' => 'sbo', 'SalBow6G2563' => 'sbo', 'SalBow6G6386' => 'sbo', 'Sc06g0008800' => 'sci', 'Sc07g0004950' => 'sci', 'Sc09g0005340' => 'sci', 'Sc13g0004410' => 'sci', 'Sc21g0007090' => 'sci', 'Sed0009285' => 'sed', 'Sed0017583' => 'sed', 'Sed0019699' => 'sed', 'Sed0023107' => 'sed', 'SEGI_10916' => 'sgi', 'SEGI_16217' => 'sgi', 'SEGI_19466' => 'sgi', 'SEGI_41115' => 'sgi', 'SGA_v2.0_scaffold111G31534' => 'sas', 'SGA_v2.0_scaffold22G09864' => 'sas', 'SGA_v2.0_scaffold338G49219' => 'sas', 'SGA_v2.0_scaffold92G28298' => 'sas', 'SMO119G0064' => 'smo', 'SMO223G0038' => 'smo', 'SMO347G0584' => 'smo', 'SMO351G0010' => 'smo', 'SMO356G0404' => 'smo', 'Solyc01g103920.3' => 'sly', 'Solyc04g009710.2' => 'sly', 'Solyc05g055280.2' => 'sly', 'Solyc10g044520.3' => 'sly', 'Solyc10g075160.1' => 'sly', 'Solyc11g006910.3' => 'sly', 'Solyc11g068430.3' => 'sly', 'Sopen01g046310' => 'spe', 'Sopen03g001200' => 'spe', 'Sopen04g004830' => 'spe', 'Sopen05g033720' => 'spe', 'Sopen06g030740' => 'spe', 'Sopen10g013090' => 'spe', 'Sopen10g027630' => 'spe', 'Sopen10g027640' => 'spe', 'Sopen11g002820' => 'spe', 'Sopen11g027140' => 'spe', 'Sp1g09680' => 'spa', 'Sp2g03630' => 'spa', 'Sp4g10320' => 'spa', 'Sp6g33400' => 'spa', 'Sp7g13030' => 'spa', 'TAR365G0317' => 'tar', 'TAR376G0979' => 'tar', 'TAR623G1665' => 'tar', 'TAR633G2373' => 'tar', 'TAR636G1400' => 'tar', 'THA.LOC104800529' => 'tha', 'THA.LOC104808547' => 'tha', 'THA.LOC104809615' => 'tha', 'THA.LOC104815724' => 'tha', 'THA.LOC104818480' => 'tha', 'THA.LOC104819179' => 'tha', 'THA.LOC104822270' => 'tha', 'THA.LOC104826425' => 'tha', 'Thecc.02G089700' => 'tca', 'Thecc.04G232300' => 'tca', 'Thecc.09G283400' => 'tca', 'Thhalv10009020m.g' => 'esa', 'Thhalv10015506m.g' => 'esa', 'Thhalv10017364m.g' => 'esa', 'Thhalv10023742m.g' => 'esa', 'Thhalv10026483m.g' => 'esa', 'TPR.G17232' => 'tpr', 'TPR.G2133' => 'tpr', 'TPR.G2498' => 'tpr', 'TPR.G31942' => 'tpr', 'TPR.G37877' => 'tpr', 'TPR.G4571' => 'tpr', 'TWI14G1113' => 'twi', 'TWI15G0426' => 'twi', 'TWI31G1005' => 'twi', 'TWI38G0513' => 'twi', 'TWI38G1484' => 'twi', 'TWI73G1098' => 'twi', 'unitig_26.g10519' => 'ugi', 'unitig_736.g22395' => 'ugi', 'unitig_747.g21234' => 'ugi', 'unitig_747.g21942' => 'ugi', 'vmacro14351' => 'vma', 'VMungo0540G0082' => 'vmu', 'VMungo0540G0405' => 'vmu', 'VMungo0540G1486' => 'vmu', 'VMungo0540G1692' => 'vmu', 'VMungo0720G2473' => 'vmu', 'VMungo1127G1562' => 'vmu', 'VMungo1215G1918' => 'vmu', 'Zm00001eb052650' => 'zma', 'Zm00001eb063710' => 'zma', 'Zm00001eb083950' => 'zma', 'Zm00001eb174420' => 'zma', 'Zm00001eb260140' => 'zma', 'Zm00001eb260150' => 'zma', 'Zm00001eb260160' => 'zma', 'Zm00001eb348290' => 'zma', 'Zm00001eb366870' => 'zma', 'Zm00001eb421930' => 'zma' ), 'gf_id' => 'HOM05D001025', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001025' ), 'data_identifier' => 'HOM05D001025', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001025', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '592', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p22650' => 'bna', 'A01p29720' => 'bna', 'A03p26560' => 'bna', 'A03p68820' => 'bna', 'A04p20980' => 'bna', 'A06p07730' => 'bna', 'A07p18260' => 'bna', 'A08p33710' => 'bna', 'A09p16970' => 'bna', 'A10p27490' => 'bna', 'Aa31LG1G17300' => 'aar', 'Aa31LG1G3910' => 'aar', 'Aa31LG2G9630' => 'aar', 'Aa31LG5G8360' => 'aar', 'Aa31LG9G2410' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4699' => 'aag', 'Actinidia23512' => 'ach', 'Actinidia37080' => 'ach', 'Ah.01g020380' => 'amhyb', 'Ah.08g215710' => 'amhyb', 'Ah.09g225110' => 'amhyb', 'Ah.10g036680' => 'amhyb', 'AL1G21940' => 'aly', 'AL2G15540' => 'aly', 'AL4G21520' => 'aly', 'AL7G40960' => 'aly', 'Aqoxy2G01191' => 'aox', 'Aqoxy2G03393' => 'aox', 'Aqoxy4G02775' => 'aox', 'Aqoxy6G00058' => 'aox', 'arahy.Tifrunner.gnm1.ann1.9X74H2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CW3FX9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R485W7' => 'arhy', 'AT1G10960' => 'ath', 'AT1G60950' => 'ath', 'AT2G27510' => 'ath', 'AT4G14890' => 'ath', 'AT5G10000' => 'ath', 'ATR0665G624' => 'atr', 'ATR0697G138' => 'atr', 'ATR0776G046' => 'atr', 'ATR1134G135' => 'atr', 'Atru.chr12.1025' => 'acertr', 'Atru.chr3.3241' => 'acertr', 'Atru.chr4.2460' => 'acertr', 'AUR62007427' => 'cqu', 'AUR62010960' => 'cqu', 'AUR62012201' => 'cqu', 'AUR62021470' => 'cqu', 'AUR62022834' => 'cqu', 'AUR62033635' => 'cqu', 'AUR62036186' => 'cqu', 'BcaB01g03077' => 'bca', 'BcaB02g10093' => 'bca', 'BcaB04g20295' => 'bca', 'BcaB06g28147' => 'bca', 'BcaB07g31253' => 'bca', 'BcaC01g04946' => 'bca', 'BcaC02g10614' => 'bca', 'BcaC02g10885' => 'bca', 'BcaC04g19356' => 'bca', 'BcaC04g22297' => 'bca', 'BcaC05g24977' => 'bca', 'BcaC06g31823' => 'bca', 'BcaC07g38633' => 'bca', 'BcaC09g49353' => 'bca', 'BcaC09g50168' => 'bca', 'BcaNung00322' => 'bca', 'BcaNung04769' => 'bca', 'BolC1t02753H' => 'bol', 'BolC1t03721H' => 'bol', 'BolC3t15525H' => 'bol', 'BolC4t23903H' => 'bol', 'BolC4t24231H' => 'bol', 'BolC4t27209H' => 'bol', 'BolC5t29671H' => 'bol', 'BolC8t49044H' => 'bol', 'BolC9t54999H' => 'bol', 'BolC9t59517H' => 'bol', 'BraA01t02178Z' => 'bra', 'BraA01t03099Z' => 'bra', 'BraA03t11867Z' => 'bra', 'BraA04t17667Z' => 'bra', 'BraA07t29542Z' => 'bra', 'BraA08t35287Z' => 'bra', 'BraA09t37334Z' => 'bra', 'BraA10t44801Z' => 'bra', 'BraSC39t46181Z' => 'bra', 'C01p28240' => 'bna', 'C01p37530' => 'bna', 'C03p31820' => 'bna', 'C04p24080' => 'bna', 'C04p25790' => 'bna', 'C04p56770' => 'bna', 'C05p09310' => 'bna', 'C09p21010' => 'bna', 'C09p67560' => 'bna', 'CAN.G1324.7' => 'can', 'CAN.G1358.10' => 'can', 'CAN.G1550.2' => 'can', 'CAN.G186.56' => 'can', 'CAN.G1965.1' => 'can', 'CAN.G645.15' => 'can', 'CAN.G798.26' => 'can', 'CAN.G798.27' => 'can', 'CAN.G798.29' => 'can', 'CAN.G919.31' => 'can', 'CANSAT11G0133' => 'cansat', 'CANSAT11G1171' => 'cansat', 'CANSAT11G2056' => 'cansat', 'CANSAT56G1202' => 'cansat', 'CANSAT56G1514' => 'cansat', 'CANSAT78G0455' => 'cansat', 'CARHR011190' => 'chi', 'CARHR051980' => 'chi', 'CARHR120170' => 'chi', 'CARHR203310' => 'chi', 'CARHR221490' => 'chi', 'Carub.0001s1054' => 'cru', 'Carub.0002s0431' => 'cru', 'Carub.0004s0818' => 'cru', 'Carub.0006s0846' => 'cru', 'Carub.0007s2722' => 'cru', 'Ca_00058_v3' => 'car', 'Ca_17831_v3' => 'car', 'Ca_19408_v3' => 'car', 'Ca_24397_v3' => 'car', 'Ca_25664_v3' => 'car', 'CBR_g21818' => 'cbr', 'CBR_g31195' => 'cbr', 'CBR_g32282' => 'cbr', 'CBR_g39599' => 'cbr', 'CBR_g49410' => 'cbr', 'Cc01_g09120' => 'ccan', 'Cc01_g09130' => 'ccan', 'Cc02_g09630' => 'ccan', 'Cc02_g22810' => 'ccan', 'Cc03_g03810' => 'ccan', 'CDE02G3718' => 'cde', 'CDE04G3183' => 'cde', 'CDE07G1046' => 'cde', 'CDE08G0480' => 'cde', 'Cfa005493' => 'cfa', 'Cfa010312' => 'cfa', 'Cfa015648' => 'cfa', 'Ciclev10002793m.g' => 'ccl', 'Ciclev10003356m.g' => 'ccl', 'Ciclev10006141m.g' => 'ccl', 'Ciclev10016676m.g' => 'ccl', 'Ciclev10017081m.g' => 'ccl', 'Ciclev10029499m.g' => 'ccl', 'CiPaw.01G166300' => 'cil', 'CiPaw.06G145600' => 'cil', 'CiPaw.13G040100' => 'cil', 'CiPaw.13G135800' => 'cil', 'ClCG01G012230' => 'cla', 'ClCG05G009510' => 'cla', 'ClCG08G008270' => 'cla', 'COL.COLO4_11763' => 'col', 'COL.COLO4_19876' => 'col', 'COL.COLO4_21481' => 'col', 'Cpa.g.sc118.34' => 'cpa', 'Cpa.g.sc32.13' => 'cpa', 'Cpa.g.sc58.103' => 'cpa', 'Cre03.g183850' => 'cre', 'Cre06.g306350' => 'cre', 'Cre07.g334800' => 'cre', 'Cre12.g487900' => 'cre', 'Cre14.g626700' => 'cre', 'Cre16.g658400' => 'cre', 'Cre17.g700950' => 'cre', 'CsaV3_1G014830' => 'csa', 'CsaV3_3G013320' => 'csa', 'CsaV3_3G019210' => 'csa', 'CsaV3_3G019220' => 'csa', 'CsaV3_6G004230' => 'csa', 'CSS0003773' => 'camsi', 'CSS0004563' => 'camsi', 'CSS0013949' => 'camsi', 'CSS0025971' => 'camsi', 'CSS0028570' => 'camsi', 'CSS0033127' => 'camsi', 'CSS0036051' => 'camsi', 'CSS0040087' => 'camsi', 'CSS0043179' => 'camsi', 'DCAR_006161' => 'dca', 'DCAR_010351' => 'dca', 'DCAR_012197' => 'dca', 'DCAR_024162' => 'dca', 'Dinv01030' => 'din', 'Dinv10924' => 'din', 'Dinv11835' => 'din', 'Dinv22841' => 'din', 'Dinv42553' => 'din', 'Duzib052G0560' => 'dzi', 'Duzib132G0389' => 'dzi', 'Duzib150G1181' => 'dzi', 'Duzib168G0623' => 'dzi', 'Duzib170G1036' => 'dzi', 'Duzib212G0200' => 'dzi', 'Duzib248G0194' => 'dzi', 'ECA232G2193' => 'eca', 'ECA233G0302' => 'eca', 'ECA234G2813' => 'eca', 'ECA234G4866' => 'eca', 'ECA240G3932' => 'eca', 'ECA248G0385' => 'eca', 'EL10Ac2g04781' => 'bvu', 'EL10Ac3g06445' => 'bvu', 'EL10Ac7g15825' => 'bvu', 'EL10Ac8g18550' => 'bvu', 'Eucgr.B03849' => 'egr', 'Eucgr.I02744' => 'egr', 'Eucgr.J00264' => 'egr', 'Eucgr.J00493' => 'egr', 'FAN04G2181' => 'fan', 'FAN07G2666' => 'fan', 'FAN11G0024' => 'fan', 'FAN12G1105' => 'fan', 'FAN13G0302' => 'fan', 'FAN15G2781' => 'fan', 'FAN16G1274' => 'fan', 'FAN17G2988' => 'fan', 'FAN18G2621' => 'fan', 'FAN21G0013' => 'fan', 'FAN22G1211' => 'fan', 'FAN25G3626' => 'fan', 'FvH4_2g09491' => 'fve', 'FvH4_3g24910' => 'fve', 'FvH4_4g15630' => 'fve', 'FvH4_5g28820' => 'fve', 'Glyma.01G238000' => 'gma', 'Glyma.05G168400' => 'gma', 'Glyma.08G126800' => 'gma', 'Glyma.08G188500' => 'gma', 'Glyma.10G278900' => 'gma', 'Glyma.11G005700' => 'gma', 'Glyma.11G183300' => 'gma', 'Glyma.12G089200' => 'gma', 'Glyma.12G169400' => 'gma', 'Glyma.12G169500' => 'gma', 'Glyma.12G169600' => 'gma', 'Glyma.20G110800' => 'gma', 'Gohir.A03G192900' => 'ghi', 'Gohir.A03G193000' => 'ghi', 'Gohir.A05G080700' => 'ghi', 'Gohir.A09G216000' => 'ghi', 'Gohir.A12G027700' => 'ghi', 'Gohir.A13G036200' => 'ghi', 'Gohir.A13G222600' => 'ghi', 'Gohir.D02G213900' => 'ghi', 'Gohir.D02G214000' => 'ghi', 'Gohir.D05G083700' => 'ghi', 'Gohir.D05G083800' => 'ghi', 'Gohir.D05G083850' => 'ghi', 'Gohir.D08G015400' => 'ghi', 'Gohir.D09G218400' => 'ghi', 'Gohir.D12G027100' => 'ghi', 'Gohir.D13G034500' => 'ghi', 'Gohir.D13G227400' => 'ghi', 'Gorai.005G241800' => 'gra', 'Gorai.005G241900' => 'gra', 'Gorai.006G239400' => 'gra', 'Gorai.008G027600' => 'gra', 'Gorai.009G085400' => 'gra', 'Gorai.009G085500' => 'gra', 'Gorai.013G039000' => 'gra', 'Gorai.013G194800' => 'gra', 'Gorai.013G257900' => 'gra', 'GSVIVG01000982001' => 'vvi', 'GSVIVG01017981001' => 'vvi', 'HanXRQChr01g0024061' => 'han', 'HanXRQChr09g0247831' => 'han', 'HanXRQChr10g0294611' => 'han', 'HanXRQChr10g0294621' => 'han', 'HanXRQChr11g0346821' => 'han', 'HanXRQChr13g0397461' => 'han', 'HanXRQChr16g0513651' => 'han', 'HanXRQChr16g0513701' => 'han', 'Haze_00897' => 'cav', 'Haze_01745' => 'cav', 'Haze_02486' => 'cav', 'Haze_02487' => 'cav', 'Haze_23374' => 'cav', 'Hma1.2p1_0578F.1_g182520' => 'hma', 'Hma1.2p1_0602F.1_g187350' => 'hma', 'Hma1.2p1_0602F.1_g187360' => 'hma', 'Hma1.2p1_0874F.1_g231320' => 'hma', 'Hma1.2p1_1197F.1_g266210' => 'hma', 'Hma1.2p1_1197F.1_g266220' => 'hma', 'Hma1.2p1_2167F.1_g315895' => 'hma', 'Hma1.2p1_2190F.1_g316640' => 'hma', 'Hma1.2p1_3645F.1_g337153' => 'hma', 'HPP92_004907' => 'vpl', 'HPP92_012134' => 'vpl', 'HPP92_025136' => 'vpl', 'HPP92_026087' => 'vpl', 'Hund06782' => 'sun', 'Hund06784' => 'sun', 'Lalb_Chr01g0004861' => 'lal', 'Lalb_Chr02g0140591' => 'lal', 'Lalb_Chr02g0140611' => 'lal', 'Lalb_Chr03g0028101' => 'lal', 'Lalb_Chr07g0185791' => 'lal', 'Lalb_Chr12g0204491' => 'lal', 'Lalb_Chr13g0295671' => 'lal', 'Lalb_Chr19g0136461' => 'lal', 'Lalb_Chr21g0309191' => 'lal', 'Lj1g0028158' => 'lja', 'Lj1P236T38' => 'lonja', 'Lj2C32G2' => 'lonja', 'Lj2P944T8' => 'lonja', 'Lj2P963T15' => 'lonja', 'Lj3g0011788' => 'lja', 'Lj4g0025027' => 'lja', 'Lj5P255T36' => 'lonja', 'Lj6g0018866' => 'lja', 'Lj6P608T31' => 'lonja', 'LjContig00408g0008879' => 'lja', 'Lsat_1_v5_gn_5_105820' => 'lsa', 'Lsat_1_v5_gn_6_38800' => 'lsa', 'Lsat_1_v5_gn_7_67141' => 'lsa', 'Manes.04G003400' => 'mes', 'Manes.07G020000' => 'mes', 'Manes.07G020100' => 'mes', 'Manes.07G020150' => 'mes', 'Manes.10G061500' => 'mes', 'Manes.10G123200' => 'mes', 'Manes.11G161900' => 'mes', 'Manes.15G029300' => 'mes', 'Mapoly0071s0018' => 'mpo', 'Mapoly0082s0023' => 'mpo', 'Mapoly3477s0001' => 'mpo', 'MBI05_g31233_MAGBIO' => 'mbi', 'MBI09_g05946_MAGBIO' => 'mbi', 'MBI09_g05947_MAGBIO' => 'mbi', 'MBI17_g08346_MAGBIO' => 'mbi', 'MCO04G038' => 'mco', 'MCO09G370' => 'mco', 'MCO13G605' => 'mco', 'MD00G1075500' => 'mdo', 'MD03G1144300' => 'mdo', 'MD08G1236800' => 'mdo', 'MD13G1193300' => 'mdo', 'MD15G1428700' => 'mdo', 'Medtr1g112030' => 'mtr', 'Medtr1g112050' => 'mtr', 'Medtr2g006290' => 'mtr', 'Medtr2g086510' => 'mtr', 'Medtr4g053120' => 'mtr', 'Medtr5g006320' => 'mtr', 'Medtr8g088720' => 'mtr', 'MELO3C004712.2' => 'cme', 'MELO3C006533.2' => 'cme', 'MELO3C019438.2' => 'cme', 'MELO3C019440.2' => 'cme', 'MELO3C019441.2' => 'cme', 'MELO3C019895.2' => 'cme', 'Migut.B00811' => 'egut', 'Migut.D02447' => 'egut', 'Migut.F00875' => 'egut', 'Migut.N00186' => 'egut', 'Migut.N01051' => 'egut', 'Migut.N02491' => 'egut', 'Migut.O00784' => 'egut', 'MSTRG.12367' => 'ama', 'MSTRG.18756' => 'ama', 'MSTRG.21042' => 'ama', 'Nitab4.5_0000559g0040' => 'nta', 'Nitab4.5_0000667g0190' => 'nta', 'Nitab4.5_0000755g0160' => 'nta', 'Nitab4.5_0001216g0080' => 'nta', 'Nitab4.5_0004069g0040' => 'nta', 'Nitab4.5_0004129g0010' => 'nta', 'Nitab4.5_0005744g0030' => 'nta', 'Nitab4.5_0006996g0030' => 'nta', 'Nitab4.5_0008971g0040' => 'nta', 'Nitab4.5_0009769g0020' => 'nta', 'Nitab4.5_0009833g0010' => 'nta', 'Nitab4.5_0013140g0020' => 'nta', 'Nn003s41376' => 'nnu', 'Nn1g01857' => 'nnu', 'Nn1g03611' => 'nnu', 'Nn1g06853' => 'nnu', 'Nn3g18360' => 'nnu', 'Nn4g26328' => 'nnu', 'Nn5g27531' => 'nnu', 'Nn6g34899' => 'nnu', 'Nn7g36299' => 'nnu', 'Oeu021485.1' => 'oeu', 'Oeu022433.1' => 'oeu', 'Oeu032111.1' => 'oeu', 'Oeu051608.1' => 'oeu', 'Os01g0860601' => 'osa', 'Os03g0659200' => 'osa', 'Os03g0835900' => 'osa', 'Os04g0412200' => 'osa', 'Os05g0443500' => 'osa', 'Os07g0251500' => 'osa', 'Os08g0104600' => 'osa', 'Peaxi162Scf00003g00047' => 'pax', 'Peaxi162Scf00003g00052' => 'pax', 'Peaxi162Scf00003g00394' => 'pax', 'Peaxi162Scf00091g00621' => 'pax', 'Peaxi162Scf00152g00146' => 'pax', 'Peaxi162Scf00173g00025' => 'pax', 'Peaxi162Scf00195g00102' => 'pax', 'Peaxi162Scf00402g00013' => 'pax', 'Peaxi162Scf00519g00618' => 'pax', 'PGR004G2838' => 'pgr', 'PGR044G2275' => 'pgr', 'PGR102G1377' => 'pgr', 'PGR119G1245' => 'pgr', 'PGR142G4449' => 'pgr', 'PGSC0003DMG400004532' => 'stu', 'PGSC0003DMG400011950' => 'stu', 'PGSC0003DMG400023391' => 'stu', 'PGSC0003DMG400023985' => 'stu', 'PGSC0003DMG400026360' => 'stu', 'PGSC0003DMG400035711' => 'stu', 'PGSC0003DMG400037286' => 'stu', 'PGSC0003DMG402005881' => 'stu', 'Phvul.002G045400' => 'pvu', 'Phvul.006G216600' => 'pvu', 'Phvul.006G216700' => 'pvu', 'Phvul.006G216800' => 'pvu', 'Phvul.007G022500' => 'pvu', 'Phvul.011G094400' => 'pvu', 'Potri.001G470700' => 'ptr', 'Potri.003G015200' => 'ptr', 'Potri.004G202500' => 'ptr', 'Potri.004G218400' => 'ptr', 'Potri.008G020100' => 'ptr', 'Potri.008G153200' => 'ptr', 'Potri.009G163800' => 'ptr', 'Potri.010G087300' => 'ptr', 'Potri.010G239100' => 'ptr', 'Pp3c10_16100' => 'ppa', 'Pp3c10_16880' => 'ppa', 'Pp3c16_6230' => 'ppa', 'Pp3c17_18910' => 'ppa', 'Pp3c3_22119' => 'ppa', 'Pp3c3_22140' => 'ppa', 'Pp3c4_8159' => 'ppa', 'Pp3c4_8171' => 'ppa', 'Pp3c4_8330' => 'ppa', 'PRCOL_00004098' => 'pco', 'Prupe.1G013900' => 'ppe', 'Prupe.1G226300' => 'ppe', 'Prupe.1G573600' => 'ppe', 'Prupe.6G130100' => 'ppe', 'Psat3g090040' => 'psa', 'Psat4g210440' => 'psa', 'Psat6g231040' => 'psa', 'Psat6g231080' => 'psa', 'Psat7g063000' => 'psa', 'Psat7g188000' => 'psa', 'Psat7g188040' => 'psa', 'PSO017G0206' => 'pso', 'PSO170G0501' => 'pso', 'PSO170G6422' => 'pso', 'PSO210G7739' => 'pso', 'PSO339G1808' => 'pso', 'PSO339G6135' => 'pso', 'PSO384G0010' => 'pso', 'PSO384G0964' => 'pso', 'PSO761G0050' => 'pso', 'PSO782G4085' => 'pso', 'QL01p012264' => 'qlo', 'QL02p099491' => 'qlo', 'QL03p033868' => 'qlo', 'QL04p046678' => 'qlo', 'QL06p002448' => 'qlo', 'RcHm_v2.0_Chr4g0416181' => 'rch', 'RcHm_v2.0_Chr5g0044701' => 'rch', 'RcHm_v2.0_Chr6g0265781' => 'rch', 'RcHm_v2.0_Chr7g0221031' => 'rch', 'Rhsim04G0202000' => 'rsi', 'Rhsim11G0127300' => 'rsi', 'Rhsim13G0111800' => 'rsi', 'Sabra01G0165600' => 'sbr', 'Sabra03G0008300' => 'sbr', 'Sabra04G0136900' => 'sbr', 'Sabra08G0013400' => 'sbr', 'Sabra08G0116800' => 'sbr', 'Sabra09G0128000' => 'sbr', 'Sabra10G0055500' => 'sbr', 'Sabra10G0073300' => 'sbr', 'SalBow3G0385' => 'sbo', 'SalBow3G1119' => 'sbo', 'SalBow3G2005' => 'sbo', 'SalBow6G2563' => 'sbo', 'SalBow6G6386' => 'sbo', 'Sc06g0008800' => 'sci', 'Sc07g0004950' => 'sci', 'Sc09g0005340' => 'sci', 'Sc13g0004410' => 'sci', 'Sc21g0007090' => 'sci', 'Sed0009285' => 'sed', 'Sed0017583' => 'sed', 'Sed0019699' => 'sed', 'Sed0023107' => 'sed', 'SEGI_10916' => 'sgi', 'SEGI_16217' => 'sgi', 'SEGI_19466' => 'sgi', 'SEGI_41115' => 'sgi', 'SGA_v2.0_scaffold111G31534' => 'sas', 'SGA_v2.0_scaffold22G09864' => 'sas', 'SGA_v2.0_scaffold338G49219' => 'sas', 'SGA_v2.0_scaffold92G28298' => 'sas', 'SMO119G0064' => 'smo', 'SMO223G0038' => 'smo', 'SMO347G0584' => 'smo', 'SMO351G0010' => 'smo', 'SMO356G0404' => 'smo', 'Solyc01g103920.3' => 'sly', 'Solyc04g009710.2' => 'sly', 'Solyc05g055280.2' => 'sly', 'Solyc10g044520.3' => 'sly', 'Solyc10g075160.1' => 'sly', 'Solyc11g006910.3' => 'sly', 'Solyc11g068430.3' => 'sly', 'Sopen01g046310' => 'spe', 'Sopen03g001200' => 'spe', 'Sopen04g004830' => 'spe', 'Sopen05g033720' => 'spe', 'Sopen06g030740' => 'spe', 'Sopen10g013090' => 'spe', 'Sopen10g027630' => 'spe', 'Sopen10g027640' => 'spe', 'Sopen11g002820' => 'spe', 'Sopen11g027140' => 'spe', 'Sp1g09680' => 'spa', 'Sp2g03630' => 'spa', 'Sp4g10320' => 'spa', 'Sp6g33400' => 'spa', 'Sp7g13030' => 'spa', 'TAR365G0317' => 'tar', 'TAR376G0979' => 'tar', 'TAR623G1665' => 'tar', 'TAR633G2373' => 'tar', 'TAR636G1400' => 'tar', 'THA.LOC104800529' => 'tha', 'THA.LOC104808547' => 'tha', 'THA.LOC104809615' => 'tha', 'THA.LOC104815724' => 'tha', 'THA.LOC104818480' => 'tha', 'THA.LOC104819179' => 'tha', 'THA.LOC104822270' => 'tha', 'THA.LOC104826425' => 'tha', 'Thecc.02G089700' => 'tca', 'Thecc.04G232300' => 'tca', 'Thecc.09G283400' => 'tca', 'Thhalv10009020m.g' => 'esa', 'Thhalv10015506m.g' => 'esa', 'Thhalv10017364m.g' => 'esa', 'Thhalv10023742m.g' => 'esa', 'Thhalv10026483m.g' => 'esa', 'TPR.G17232' => 'tpr', 'TPR.G2133' => 'tpr', 'TPR.G2498' => 'tpr', 'TPR.G31942' => 'tpr', 'TPR.G37877' => 'tpr', 'TPR.G4571' => 'tpr', 'TWI14G1113' => 'twi', 'TWI15G0426' => 'twi', 'TWI31G1005' => 'twi', 'TWI38G0513' => 'twi', 'TWI38G1484' => 'twi', 'TWI73G1098' => 'twi', 'unitig_26.g10519' => 'ugi', 'unitig_736.g22395' => 'ugi', 'unitig_747.g21234' => 'ugi', 'unitig_747.g21942' => 'ugi', 'vmacro14351' => 'vma', 'VMungo0540G0082' => 'vmu', 'VMungo0540G0405' => 'vmu', 'VMungo0540G1486' => 'vmu', 'VMungo0540G1692' => 'vmu', 'VMungo0720G2473' => 'vmu', 'VMungo1127G1562' => 'vmu', 'VMungo1215G1918' => 'vmu', 'Zm00001eb052650' => 'zma', 'Zm00001eb063710' => 'zma', 'Zm00001eb083950' => 'zma', 'Zm00001eb174420' => 'zma', 'Zm00001eb260140' => 'zma', 'Zm00001eb260150' => 'zma', 'Zm00001eb260160' => 'zma', 'Zm00001eb348290' => 'zma', 'Zm00001eb366870' => 'zma', 'Zm00001eb421930' => 'zma' ) $gf_id = 'HOM05D001025' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001025' ) $data_identifier = 'HOM05D001025' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 19, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 2, 'amhyb' => (int) 4, 'aly' => (int) 4, 'aox' => (int) 4, 'arhy' => (int) 3, 'ath' => (int) 5, 'atr' => (int) 4, 'acertr' => (int) 3, 'cqu' => (int) 7, 'bca' => (int) 17, 'bol' => (int) 10, 'bra' => (int) 9, 'can' => (int) 10, 'cansat' => (int) 6, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 5, 'cbr' => (int) 5, 'ccan' => (int) 5, 'cde' => (int) 4, 'cfa' => (int) 3, 'ccl' => (int) 6, 'cil' => (int) 4, 'cla' => (int) 3, 'col' => (int) 3, 'cpa' => (int) 3, 'cre' => (int) 7, 'csa' => (int) 5, 'camsi' => (int) 9, 'dca' => (int) 4, 'din' => (int) 5, 'dzi' => (int) 7, 'eca' => (int) 6, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 12, 'fve' => (int) 4, 'gma' => (int) 12, 'ghi' => (int) 17, 'gra' => (int) 9, 'vvi' => (int) 2, 'han' => (int) 8, 'cav' => (int) 5, 'hma' => (int) 9, 'vpl' => (int) 4, 'sun' => (int) 2, 'lal' => (int) 9, 'lja' => (int) 5, 'lonja' => (int) 6, 'lsa' => (int) 3, 'mes' => (int) 8, 'mpo' => (int) 3, 'mbi' => (int) 4, 'mco' => (int) 3, 'mdo' => (int) 5, 'mtr' => (int) 7, 'cme' => (int) 6, 'egut' => (int) 7, 'ama' => (int) 3, 'nta' => (int) 12, 'nnu' => (int) 9, 'oeu' => (int) 4, 'osa' => (int) 7, 'pax' => (int) 9, 'pgr' => (int) 5, 'stu' => (int) 8, 'pvu' => (int) 6, 'ptr' => (int) 9, 'ppa' => (int) 9, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 7, 'pso' => (int) 10, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 3, 'sbr' => (int) 8, 'sbo' => (int) 5, 'sci' => (int) 5, 'sed' => (int) 4, 'sgi' => (int) 4, 'sas' => (int) 4, 'smo' => (int) 5, 'sly' => (int) 7, 'spe' => (int) 10, 'spa' => (int) 5, 'tar' => (int) 5, 'tha' => (int) 8, 'tca' => (int) 3, 'esa' => (int) 5, 'tpr' => (int) 6, 'twi' => (int) 6, 'ugi' => (int) 4, 'vma' => (int) 1, 'vmu' => (int) 7, 'zma' => (int) 10 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb421930' $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' => 'HOM05D001025', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '592', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p22650' => 'bna', 'A01p29720' => 'bna', 'A03p26560' => 'bna', 'A03p68820' => 'bna', 'A04p20980' => 'bna', 'A06p07730' => 'bna', 'A07p18260' => 'bna', 'A08p33710' => 'bna', 'A09p16970' => 'bna', 'A10p27490' => 'bna', 'Aa31LG1G17300' => 'aar', 'Aa31LG1G3910' => 'aar', 'Aa31LG2G9630' => 'aar', 'Aa31LG5G8360' => 'aar', 'Aa31LG9G2410' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4699' => 'aag', 'Actinidia23512' => 'ach', 'Actinidia37080' => 'ach', 'Ah.01g020380' => 'amhyb', 'Ah.08g215710' => 'amhyb', 'Ah.09g225110' => 'amhyb', 'Ah.10g036680' => 'amhyb', 'AL1G21940' => 'aly', 'AL2G15540' => 'aly', 'AL4G21520' => 'aly', 'AL7G40960' => 'aly', 'Aqoxy2G01191' => 'aox', 'Aqoxy2G03393' => 'aox', 'Aqoxy4G02775' => 'aox', 'Aqoxy6G00058' => 'aox', 'arahy.Tifrunner.gnm1.ann1.9X74H2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CW3FX9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R485W7' => 'arhy', 'AT1G10960' => 'ath', 'AT1G60950' => 'ath', 'AT2G27510' => 'ath', 'AT4G14890' => 'ath', 'AT5G10000' => 'ath', 'ATR0665G624' => 'atr', 'ATR0697G138' => 'atr', 'ATR0776G046' => 'atr', 'ATR1134G135' => 'atr', 'Atru.chr12.1025' => 'acertr', 'Atru.chr3.3241' => 'acertr', 'Atru.chr4.2460' => 'acertr', 'AUR62007427' => 'cqu', 'AUR62010960' => 'cqu', 'AUR62012201' => 'cqu', 'AUR62021470' => 'cqu', 'AUR62022834' => 'cqu', 'AUR62033635' => 'cqu', 'AUR62036186' => 'cqu', 'BcaB01g03077' => 'bca', 'BcaB02g10093' => 'bca', 'BcaB04g20295' => 'bca', 'BcaB06g28147' => 'bca', 'BcaB07g31253' => 'bca', 'BcaC01g04946' => 'bca', 'BcaC02g10614' => 'bca', 'BcaC02g10885' => 'bca', 'BcaC04g19356' => 'bca', 'BcaC04g22297' => 'bca', 'BcaC05g24977' => 'bca', 'BcaC06g31823' => 'bca', 'BcaC07g38633' => 'bca', 'BcaC09g49353' => 'bca', 'BcaC09g50168' => 'bca', 'BcaNung00322' => 'bca', 'BcaNung04769' => 'bca', 'BolC1t02753H' => 'bol', 'BolC1t03721H' => 'bol', 'BolC3t15525H' => 'bol', 'BolC4t23903H' => 'bol', 'BolC4t24231H' => 'bol', 'BolC4t27209H' => 'bol', 'BolC5t29671H' => 'bol', 'BolC8t49044H' => 'bol', 'BolC9t54999H' => 'bol', 'BolC9t59517H' => 'bol', 'BraA01t02178Z' => 'bra', 'BraA01t03099Z' => 'bra', 'BraA03t11867Z' => 'bra', 'BraA04t17667Z' => 'bra', 'BraA07t29542Z' => 'bra', 'BraA08t35287Z' => 'bra', 'BraA09t37334Z' => 'bra', 'BraA10t44801Z' => 'bra', 'BraSC39t46181Z' => 'bra', 'C01p28240' => 'bna', 'C01p37530' => 'bna', 'C03p31820' => 'bna', 'C04p24080' => 'bna', 'C04p25790' => 'bna', 'C04p56770' => 'bna', 'C05p09310' => 'bna', 'C09p21010' => 'bna', 'C09p67560' => 'bna', 'CAN.G1324.7' => 'can', 'CAN.G1358.10' => 'can', 'CAN.G1550.2' => 'can', 'CAN.G186.56' => 'can', 'CAN.G1965.1' => 'can', 'CAN.G645.15' => 'can', 'CAN.G798.26' => 'can', 'CAN.G798.27' => 'can', 'CAN.G798.29' => 'can', 'CAN.G919.31' => 'can', 'CANSAT11G0133' => 'cansat', 'CANSAT11G1171' => 'cansat', 'CANSAT11G2056' => 'cansat', 'CANSAT56G1202' => 'cansat', 'CANSAT56G1514' => 'cansat', 'CANSAT78G0455' => 'cansat', 'CARHR011190' => 'chi', 'CARHR051980' => 'chi', 'CARHR120170' => 'chi', 'CARHR203310' => 'chi', 'CARHR221490' => 'chi', 'Carub.0001s1054' => 'cru', 'Carub.0002s0431' => 'cru', 'Carub.0004s0818' => 'cru', 'Carub.0006s0846' => 'cru', 'Carub.0007s2722' => 'cru', 'Ca_00058_v3' => 'car', 'Ca_17831_v3' => 'car', 'Ca_19408_v3' => 'car', 'Ca_24397_v3' => 'car', 'Ca_25664_v3' => 'car', 'CBR_g21818' => 'cbr', 'CBR_g31195' => 'cbr', 'CBR_g32282' => 'cbr', 'CBR_g39599' => 'cbr', 'CBR_g49410' => 'cbr', 'Cc01_g09120' => 'ccan', 'Cc01_g09130' => 'ccan', 'Cc02_g09630' => 'ccan', 'Cc02_g22810' => 'ccan', 'Cc03_g03810' => 'ccan', 'CDE02G3718' => 'cde', 'CDE04G3183' => 'cde', 'CDE07G1046' => 'cde', 'CDE08G0480' => 'cde', 'Cfa005493' => 'cfa', 'Cfa010312' => 'cfa', 'Cfa015648' => 'cfa', 'Ciclev10002793m.g' => 'ccl', 'Ciclev10003356m.g' => 'ccl', 'Ciclev10006141m.g' => 'ccl', 'Ciclev10016676m.g' => 'ccl', 'Ciclev10017081m.g' => 'ccl', 'Ciclev10029499m.g' => 'ccl', 'CiPaw.01G166300' => 'cil', 'CiPaw.06G145600' => 'cil', 'CiPaw.13G040100' => 'cil', 'CiPaw.13G135800' => 'cil', 'ClCG01G012230' => 'cla', 'ClCG05G009510' => 'cla', 'ClCG08G008270' => 'cla', 'COL.COLO4_11763' => 'col', 'COL.COLO4_19876' => 'col', 'COL.COLO4_21481' => 'col', 'Cpa.g.sc118.34' => 'cpa', 'Cpa.g.sc32.13' => 'cpa', 'Cpa.g.sc58.103' => 'cpa', 'Cre03.g183850' => 'cre', 'Cre06.g306350' => 'cre', 'Cre07.g334800' => 'cre', 'Cre12.g487900' => 'cre', 'Cre14.g626700' => 'cre', 'Cre16.g658400' => 'cre', 'Cre17.g700950' => 'cre', 'CsaV3_1G014830' => 'csa', 'CsaV3_3G013320' => 'csa', 'CsaV3_3G019210' => 'csa', 'CsaV3_3G019220' => 'csa', 'CsaV3_6G004230' => 'csa', 'CSS0003773' => 'camsi', 'CSS0004563' => 'camsi', 'CSS0013949' => 'camsi', 'CSS0025971' => 'camsi', 'CSS0028570' => 'camsi', 'CSS0033127' => 'camsi', 'CSS0036051' => 'camsi', 'CSS0040087' => 'camsi', 'CSS0043179' => 'camsi', 'DCAR_006161' => 'dca', 'DCAR_010351' => 'dca', 'DCAR_012197' => 'dca', 'DCAR_024162' => 'dca', 'Dinv01030' => 'din', 'Dinv10924' => 'din', 'Dinv11835' => 'din', 'Dinv22841' => 'din', 'Dinv42553' => 'din', 'Duzib052G0560' => 'dzi', 'Duzib132G0389' => 'dzi', 'Duzib150G1181' => 'dzi', 'Duzib168G0623' => 'dzi', 'Duzib170G1036' => 'dzi', 'Duzib212G0200' => 'dzi', 'Duzib248G0194' => 'dzi', 'ECA232G2193' => 'eca', 'ECA233G0302' => 'eca', 'ECA234G2813' => 'eca', 'ECA234G4866' => 'eca', 'ECA240G3932' => 'eca', 'ECA248G0385' => 'eca', 'EL10Ac2g04781' => 'bvu', 'EL10Ac3g06445' => 'bvu', 'EL10Ac7g15825' => 'bvu', 'EL10Ac8g18550' => 'bvu', 'Eucgr.B03849' => 'egr', 'Eucgr.I02744' => 'egr', 'Eucgr.J00264' => 'egr', 'Eucgr.J00493' => 'egr', 'FAN04G2181' => 'fan', 'FAN07G2666' => 'fan', 'FAN11G0024' => 'fan', 'FAN12G1105' => 'fan', 'FAN13G0302' => 'fan', 'FAN15G2781' => 'fan', 'FAN16G1274' => 'fan', 'FAN17G2988' => 'fan', 'FAN18G2621' => 'fan', 'FAN21G0013' => 'fan', 'FAN22G1211' => 'fan', 'FAN25G3626' => 'fan', 'FvH4_2g09491' => 'fve', 'FvH4_3g24910' => 'fve', 'FvH4_4g15630' => 'fve', 'FvH4_5g28820' => 'fve', 'Glyma.01G238000' => 'gma', 'Glyma.05G168400' => 'gma', 'Glyma.08G126800' => 'gma', 'Glyma.08G188500' => 'gma', 'Glyma.10G278900' => 'gma', 'Glyma.11G005700' => 'gma', 'Glyma.11G183300' => 'gma', 'Glyma.12G089200' => 'gma', 'Glyma.12G169400' => 'gma', 'Glyma.12G169500' => 'gma', 'Glyma.12G169600' => 'gma', 'Glyma.20G110800' => 'gma', 'Gohir.A03G192900' => 'ghi', 'Gohir.A03G193000' => 'ghi', 'Gohir.A05G080700' => 'ghi', 'Gohir.A09G216000' => 'ghi', 'Gohir.A12G027700' => 'ghi', 'Gohir.A13G036200' => 'ghi', 'Gohir.A13G222600' => 'ghi', 'Gohir.D02G213900' => 'ghi', 'Gohir.D02G214000' => 'ghi', 'Gohir.D05G083700' => 'ghi', 'Gohir.D05G083800' => 'ghi', 'Gohir.D05G083850' => 'ghi', 'Gohir.D08G015400' => 'ghi', 'Gohir.D09G218400' => 'ghi', 'Gohir.D12G027100' => 'ghi', 'Gohir.D13G034500' => 'ghi', 'Gohir.D13G227400' => 'ghi', 'Gorai.005G241800' => 'gra', 'Gorai.005G241900' => 'gra', 'Gorai.006G239400' => 'gra', 'Gorai.008G027600' => 'gra', 'Gorai.009G085400' => 'gra', 'Gorai.009G085500' => 'gra', 'Gorai.013G039000' => 'gra', 'Gorai.013G194800' => 'gra', 'Gorai.013G257900' => 'gra', 'GSVIVG01000982001' => 'vvi', 'GSVIVG01017981001' => 'vvi', 'HanXRQChr01g0024061' => 'han', 'HanXRQChr09g0247831' => 'han', 'HanXRQChr10g0294611' => 'han', 'HanXRQChr10g0294621' => 'han', 'HanXRQChr11g0346821' => 'han', 'HanXRQChr13g0397461' => 'han', 'HanXRQChr16g0513651' => 'han', 'HanXRQChr16g0513701' => 'han', 'Haze_00897' => 'cav', 'Haze_01745' => 'cav', 'Haze_02486' => 'cav', 'Haze_02487' => 'cav', 'Haze_23374' => 'cav', 'Hma1.2p1_0578F.1_g182520' => 'hma', 'Hma1.2p1_0602F.1_g187350' => 'hma', 'Hma1.2p1_0602F.1_g187360' => 'hma', 'Hma1.2p1_0874F.1_g231320' => 'hma', 'Hma1.2p1_1197F.1_g266210' => 'hma', 'Hma1.2p1_1197F.1_g266220' => 'hma', 'Hma1.2p1_2167F.1_g315895' => 'hma', 'Hma1.2p1_2190F.1_g316640' => 'hma', 'Hma1.2p1_3645F.1_g337153' => 'hma', 'HPP92_004907' => 'vpl', 'HPP92_012134' => 'vpl', 'HPP92_025136' => 'vpl', 'HPP92_026087' => 'vpl', 'Hund06782' => 'sun', 'Hund06784' => 'sun', 'Lalb_Chr01g0004861' => 'lal', 'Lalb_Chr02g0140591' => 'lal', 'Lalb_Chr02g0140611' => 'lal', 'Lalb_Chr03g0028101' => 'lal', 'Lalb_Chr07g0185791' => 'lal', 'Lalb_Chr12g0204491' => 'lal', 'Lalb_Chr13g0295671' => 'lal', 'Lalb_Chr19g0136461' => 'lal', 'Lalb_Chr21g0309191' => 'lal', 'Lj1g0028158' => 'lja', 'Lj1P236T38' => 'lonja', 'Lj2C32G2' => 'lonja', 'Lj2P944T8' => 'lonja', 'Lj2P963T15' => 'lonja', 'Lj3g0011788' => 'lja', 'Lj4g0025027' => 'lja', 'Lj5P255T36' => 'lonja', 'Lj6g0018866' => 'lja', 'Lj6P608T31' => 'lonja', 'LjContig00408g0008879' => 'lja', 'Lsat_1_v5_gn_5_105820' => 'lsa', 'Lsat_1_v5_gn_6_38800' => 'lsa', 'Lsat_1_v5_gn_7_67141' => 'lsa', 'Manes.04G003400' => 'mes', 'Manes.07G020000' => 'mes', 'Manes.07G020100' => 'mes', 'Manes.07G020150' => 'mes', 'Manes.10G061500' => 'mes', 'Manes.10G123200' => 'mes', 'Manes.11G161900' => 'mes', 'Manes.15G029300' => 'mes', 'Mapoly0071s0018' => 'mpo', 'Mapoly0082s0023' => 'mpo', 'Mapoly3477s0001' => 'mpo', 'MBI05_g31233_MAGBIO' => 'mbi', 'MBI09_g05946_MAGBIO' => 'mbi', 'MBI09_g05947_MAGBIO' => 'mbi', 'MBI17_g08346_MAGBIO' => 'mbi', 'MCO04G038' => 'mco', 'MCO09G370' => 'mco', 'MCO13G605' => 'mco', 'MD00G1075500' => 'mdo', 'MD03G1144300' => 'mdo', 'MD08G1236800' => 'mdo', 'MD13G1193300' => 'mdo', 'MD15G1428700' => 'mdo', 'Medtr1g112030' => 'mtr', 'Medtr1g112050' => 'mtr', 'Medtr2g006290' => 'mtr', 'Medtr2g086510' => 'mtr', 'Medtr4g053120' => 'mtr', 'Medtr5g006320' => 'mtr', 'Medtr8g088720' => 'mtr', 'MELO3C004712.2' => 'cme', 'MELO3C006533.2' => 'cme', 'MELO3C019438.2' => 'cme', 'MELO3C019440.2' => 'cme', 'MELO3C019441.2' => 'cme', 'MELO3C019895.2' => 'cme', 'Migut.B00811' => 'egut', 'Migut.D02447' => 'egut', 'Migut.F00875' => 'egut', 'Migut.N00186' => 'egut', 'Migut.N01051' => 'egut', 'Migut.N02491' => 'egut', 'Migut.O00784' => 'egut', 'MSTRG.12367' => 'ama', 'MSTRG.18756' => 'ama', 'MSTRG.21042' => 'ama', 'Nitab4.5_0000559g0040' => 'nta', 'Nitab4.5_0000667g0190' => 'nta', 'Nitab4.5_0000755g0160' => 'nta', 'Nitab4.5_0001216g0080' => 'nta', 'Nitab4.5_0004069g0040' => 'nta', 'Nitab4.5_0004129g0010' => 'nta', 'Nitab4.5_0005744g0030' => 'nta', 'Nitab4.5_0006996g0030' => 'nta', 'Nitab4.5_0008971g0040' => 'nta', 'Nitab4.5_0009769g0020' => 'nta', 'Nitab4.5_0009833g0010' => 'nta', 'Nitab4.5_0013140g0020' => 'nta', 'Nn003s41376' => 'nnu', 'Nn1g01857' => 'nnu', 'Nn1g03611' => 'nnu', 'Nn1g06853' => 'nnu', 'Nn3g18360' => 'nnu', 'Nn4g26328' => 'nnu', 'Nn5g27531' => 'nnu', 'Nn6g34899' => 'nnu', 'Nn7g36299' => 'nnu', 'Oeu021485.1' => 'oeu', 'Oeu022433.1' => 'oeu', 'Oeu032111.1' => 'oeu', 'Oeu051608.1' => 'oeu', 'Os01g0860601' => 'osa', 'Os03g0659200' => 'osa', 'Os03g0835900' => 'osa', 'Os04g0412200' => 'osa', 'Os05g0443500' => 'osa', 'Os07g0251500' => 'osa', 'Os08g0104600' => 'osa', 'Peaxi162Scf00003g00047' => 'pax', 'Peaxi162Scf00003g00052' => 'pax', 'Peaxi162Scf00003g00394' => 'pax', 'Peaxi162Scf00091g00621' => 'pax', 'Peaxi162Scf00152g00146' => 'pax', 'Peaxi162Scf00173g00025' => 'pax', 'Peaxi162Scf00195g00102' => 'pax', 'Peaxi162Scf00402g00013' => 'pax', 'Peaxi162Scf00519g00618' => 'pax', 'PGR004G2838' => 'pgr', 'PGR044G2275' => 'pgr', 'PGR102G1377' => 'pgr', 'PGR119G1245' => 'pgr', 'PGR142G4449' => 'pgr', 'PGSC0003DMG400004532' => 'stu', 'PGSC0003DMG400011950' => 'stu', 'PGSC0003DMG400023391' => 'stu', 'PGSC0003DMG400023985' => 'stu', 'PGSC0003DMG400026360' => 'stu', 'PGSC0003DMG400035711' => 'stu', 'PGSC0003DMG400037286' => 'stu', 'PGSC0003DMG402005881' => 'stu', 'Phvul.002G045400' => 'pvu', 'Phvul.006G216600' => 'pvu', 'Phvul.006G216700' => 'pvu', 'Phvul.006G216800' => 'pvu', 'Phvul.007G022500' => 'pvu', 'Phvul.011G094400' => 'pvu', 'Potri.001G470700' => 'ptr', 'Potri.003G015200' => 'ptr', 'Potri.004G202500' => 'ptr', 'Potri.004G218400' => 'ptr', 'Potri.008G020100' => 'ptr', 'Potri.008G153200' => 'ptr', 'Potri.009G163800' => 'ptr', 'Potri.010G087300' => 'ptr', 'Potri.010G239100' => 'ptr', 'Pp3c10_16100' => 'ppa', 'Pp3c10_16880' => 'ppa', 'Pp3c16_6230' => 'ppa', 'Pp3c17_18910' => 'ppa', 'Pp3c3_22119' => 'ppa', 'Pp3c3_22140' => 'ppa', 'Pp3c4_8159' => 'ppa', 'Pp3c4_8171' => 'ppa', 'Pp3c4_8330' => 'ppa', 'PRCOL_00004098' => 'pco', 'Prupe.1G013900' => 'ppe', 'Prupe.1G226300' => 'ppe', 'Prupe.1G573600' => 'ppe', 'Prupe.6G130100' => 'ppe', 'Psat3g090040' => 'psa', 'Psat4g210440' => 'psa', 'Psat6g231040' => 'psa', 'Psat6g231080' => 'psa', 'Psat7g063000' => 'psa', 'Psat7g188000' => 'psa', 'Psat7g188040' => 'psa', 'PSO017G0206' => 'pso', 'PSO170G0501' => 'pso', 'PSO170G6422' => 'pso', 'PSO210G7739' => 'pso', 'PSO339G1808' => 'pso', 'PSO339G6135' => 'pso', 'PSO384G0010' => 'pso', 'PSO384G0964' => 'pso', 'PSO761G0050' => 'pso', 'PSO782G4085' => 'pso', 'QL01p012264' => 'qlo', 'QL02p099491' => 'qlo', 'QL03p033868' => 'qlo', 'QL04p046678' => 'qlo', 'QL06p002448' => 'qlo', 'RcHm_v2.0_Chr4g0416181' => 'rch', 'RcHm_v2.0_Chr5g0044701' => 'rch', 'RcHm_v2.0_Chr6g0265781' => 'rch', 'RcHm_v2.0_Chr7g0221031' => 'rch', 'Rhsim04G0202000' => 'rsi', 'Rhsim11G0127300' => 'rsi', 'Rhsim13G0111800' => 'rsi', 'Sabra01G0165600' => 'sbr', 'Sabra03G0008300' => 'sbr', 'Sabra04G0136900' => 'sbr', 'Sabra08G0013400' => 'sbr', 'Sabra08G0116800' => 'sbr', 'Sabra09G0128000' => 'sbr', 'Sabra10G0055500' => 'sbr', 'Sabra10G0073300' => 'sbr', 'SalBow3G0385' => 'sbo', 'SalBow3G1119' => 'sbo', 'SalBow3G2005' => 'sbo', 'SalBow6G2563' => 'sbo', 'SalBow6G6386' => 'sbo', 'Sc06g0008800' => 'sci', 'Sc07g0004950' => 'sci', 'Sc09g0005340' => 'sci', 'Sc13g0004410' => 'sci', 'Sc21g0007090' => 'sci', 'Sed0009285' => 'sed', 'Sed0017583' => 'sed', 'Sed0019699' => 'sed', 'Sed0023107' => 'sed', 'SEGI_10916' => 'sgi', 'SEGI_16217' => 'sgi', 'SEGI_19466' => 'sgi', 'SEGI_41115' => 'sgi', 'SGA_v2.0_scaffold111G31534' => 'sas', 'SGA_v2.0_scaffold22G09864' => 'sas', 'SGA_v2.0_scaffold338G49219' => 'sas', 'SGA_v2.0_scaffold92G28298' => 'sas', 'SMO119G0064' => 'smo', 'SMO223G0038' => 'smo', 'SMO347G0584' => 'smo', 'SMO351G0010' => 'smo', 'SMO356G0404' => 'smo', 'Solyc01g103920.3' => 'sly', 'Solyc04g009710.2' => 'sly', 'Solyc05g055280.2' => 'sly', 'Solyc10g044520.3' => 'sly', 'Solyc10g075160.1' => 'sly', 'Solyc11g006910.3' => 'sly', 'Solyc11g068430.3' => 'sly', 'Sopen01g046310' => 'spe', 'Sopen03g001200' => 'spe', 'Sopen04g004830' => 'spe', 'Sopen05g033720' => 'spe', 'Sopen06g030740' => 'spe', 'Sopen10g013090' => 'spe', 'Sopen10g027630' => 'spe', 'Sopen10g027640' => 'spe', 'Sopen11g002820' => 'spe', 'Sopen11g027140' => 'spe', 'Sp1g09680' => 'spa', 'Sp2g03630' => 'spa', 'Sp4g10320' => 'spa', 'Sp6g33400' => 'spa', 'Sp7g13030' => 'spa', 'TAR365G0317' => 'tar', 'TAR376G0979' => 'tar', 'TAR623G1665' => 'tar', 'TAR633G2373' => 'tar', 'TAR636G1400' => 'tar', 'THA.LOC104800529' => 'tha', 'THA.LOC104808547' => 'tha', 'THA.LOC104809615' => 'tha', 'THA.LOC104815724' => 'tha', 'THA.LOC104818480' => 'tha', 'THA.LOC104819179' => 'tha', 'THA.LOC104822270' => 'tha', 'THA.LOC104826425' => 'tha', 'Thecc.02G089700' => 'tca', 'Thecc.04G232300' => 'tca', 'Thecc.09G283400' => 'tca', 'Thhalv10009020m.g' => 'esa', 'Thhalv10015506m.g' => 'esa', 'Thhalv10017364m.g' => 'esa', 'Thhalv10023742m.g' => 'esa', 'Thhalv10026483m.g' => 'esa', 'TPR.G17232' => 'tpr', 'TPR.G2133' => 'tpr', 'TPR.G2498' => 'tpr', 'TPR.G31942' => 'tpr', 'TPR.G37877' => 'tpr', 'TPR.G4571' => 'tpr', 'TWI14G1113' => 'twi', 'TWI15G0426' => 'twi', 'TWI31G1005' => 'twi', 'TWI38G0513' => 'twi', 'TWI38G1484' => 'twi', 'TWI73G1098' => 'twi', 'unitig_26.g10519' => 'ugi', 'unitig_736.g22395' => 'ugi', 'unitig_747.g21234' => 'ugi', 'unitig_747.g21942' => 'ugi', 'vmacro14351' => 'vma', 'VMungo0540G0082' => 'vmu', 'VMungo0540G0405' => 'vmu', 'VMungo0540G1486' => 'vmu', 'VMungo0540G1692' => 'vmu', 'VMungo0720G2473' => 'vmu', 'VMungo1127G1562' => 'vmu', 'VMungo1215G1918' => 'vmu', 'Zm00001eb052650' => 'zma', 'Zm00001eb063710' => 'zma', 'Zm00001eb083950' => 'zma', 'Zm00001eb174420' => 'zma', 'Zm00001eb260140' => 'zma', 'Zm00001eb260150' => 'zma', 'Zm00001eb260160' => 'zma', 'Zm00001eb348290' => 'zma', 'Zm00001eb366870' => 'zma', 'Zm00001eb421930' => 'zma' ), 'gf_id' => 'HOM05D001025', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001025' ), 'data_identifier' => 'HOM05D001025', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001025', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '592', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p22650' => 'bna', 'A01p29720' => 'bna', 'A03p26560' => 'bna', 'A03p68820' => 'bna', 'A04p20980' => 'bna', 'A06p07730' => 'bna', 'A07p18260' => 'bna', 'A08p33710' => 'bna', 'A09p16970' => 'bna', 'A10p27490' => 'bna', 'Aa31LG1G17300' => 'aar', 'Aa31LG1G3910' => 'aar', 'Aa31LG2G9630' => 'aar', 'Aa31LG5G8360' => 'aar', 'Aa31LG9G2410' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4699' => 'aag', 'Actinidia23512' => 'ach', 'Actinidia37080' => 'ach', 'Ah.01g020380' => 'amhyb', 'Ah.08g215710' => 'amhyb', 'Ah.09g225110' => 'amhyb', 'Ah.10g036680' => 'amhyb', 'AL1G21940' => 'aly', 'AL2G15540' => 'aly', 'AL4G21520' => 'aly', 'AL7G40960' => 'aly', 'Aqoxy2G01191' => 'aox', 'Aqoxy2G03393' => 'aox', 'Aqoxy4G02775' => 'aox', 'Aqoxy6G00058' => 'aox', 'arahy.Tifrunner.gnm1.ann1.9X74H2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CW3FX9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R485W7' => 'arhy', 'AT1G10960' => 'ath', 'AT1G60950' => 'ath', 'AT2G27510' => 'ath', 'AT4G14890' => 'ath', 'AT5G10000' => 'ath', 'ATR0665G624' => 'atr', 'ATR0697G138' => 'atr', 'ATR0776G046' => 'atr', 'ATR1134G135' => 'atr', 'Atru.chr12.1025' => 'acertr', 'Atru.chr3.3241' => 'acertr', 'Atru.chr4.2460' => 'acertr', 'AUR62007427' => 'cqu', 'AUR62010960' => 'cqu', 'AUR62012201' => 'cqu', 'AUR62021470' => 'cqu', 'AUR62022834' => 'cqu', 'AUR62033635' => 'cqu', 'AUR62036186' => 'cqu', 'BcaB01g03077' => 'bca', 'BcaB02g10093' => 'bca', 'BcaB04g20295' => 'bca', 'BcaB06g28147' => 'bca', 'BcaB07g31253' => 'bca', 'BcaC01g04946' => 'bca', 'BcaC02g10614' => 'bca', 'BcaC02g10885' => 'bca', 'BcaC04g19356' => 'bca', 'BcaC04g22297' => 'bca', 'BcaC05g24977' => 'bca', 'BcaC06g31823' => 'bca', 'BcaC07g38633' => 'bca', 'BcaC09g49353' => 'bca', 'BcaC09g50168' => 'bca', 'BcaNung00322' => 'bca', 'BcaNung04769' => 'bca', 'BolC1t02753H' => 'bol', 'BolC1t03721H' => 'bol', 'BolC3t15525H' => 'bol', 'BolC4t23903H' => 'bol', 'BolC4t24231H' => 'bol', 'BolC4t27209H' => 'bol', 'BolC5t29671H' => 'bol', 'BolC8t49044H' => 'bol', 'BolC9t54999H' => 'bol', 'BolC9t59517H' => 'bol', 'BraA01t02178Z' => 'bra', 'BraA01t03099Z' => 'bra', 'BraA03t11867Z' => 'bra', 'BraA04t17667Z' => 'bra', 'BraA07t29542Z' => 'bra', 'BraA08t35287Z' => 'bra', 'BraA09t37334Z' => 'bra', 'BraA10t44801Z' => 'bra', 'BraSC39t46181Z' => 'bra', 'C01p28240' => 'bna', 'C01p37530' => 'bna', 'C03p31820' => 'bna', 'C04p24080' => 'bna', 'C04p25790' => 'bna', 'C04p56770' => 'bna', 'C05p09310' => 'bna', 'C09p21010' => 'bna', 'C09p67560' => 'bna', 'CAN.G1324.7' => 'can', 'CAN.G1358.10' => 'can', 'CAN.G1550.2' => 'can', 'CAN.G186.56' => 'can', 'CAN.G1965.1' => 'can', 'CAN.G645.15' => 'can', 'CAN.G798.26' => 'can', 'CAN.G798.27' => 'can', 'CAN.G798.29' => 'can', 'CAN.G919.31' => 'can', 'CANSAT11G0133' => 'cansat', 'CANSAT11G1171' => 'cansat', 'CANSAT11G2056' => 'cansat', 'CANSAT56G1202' => 'cansat', 'CANSAT56G1514' => 'cansat', 'CANSAT78G0455' => 'cansat', 'CARHR011190' => 'chi', 'CARHR051980' => 'chi', 'CARHR120170' => 'chi', 'CARHR203310' => 'chi', 'CARHR221490' => 'chi', 'Carub.0001s1054' => 'cru', 'Carub.0002s0431' => 'cru', 'Carub.0004s0818' => 'cru', 'Carub.0006s0846' => 'cru', 'Carub.0007s2722' => 'cru', 'Ca_00058_v3' => 'car', 'Ca_17831_v3' => 'car', 'Ca_19408_v3' => 'car', 'Ca_24397_v3' => 'car', 'Ca_25664_v3' => 'car', 'CBR_g21818' => 'cbr', 'CBR_g31195' => 'cbr', 'CBR_g32282' => 'cbr', 'CBR_g39599' => 'cbr', 'CBR_g49410' => 'cbr', 'Cc01_g09120' => 'ccan', 'Cc01_g09130' => 'ccan', 'Cc02_g09630' => 'ccan', 'Cc02_g22810' => 'ccan', 'Cc03_g03810' => 'ccan', 'CDE02G3718' => 'cde', 'CDE04G3183' => 'cde', 'CDE07G1046' => 'cde', 'CDE08G0480' => 'cde', 'Cfa005493' => 'cfa', 'Cfa010312' => 'cfa', 'Cfa015648' => 'cfa', 'Ciclev10002793m.g' => 'ccl', 'Ciclev10003356m.g' => 'ccl', 'Ciclev10006141m.g' => 'ccl', 'Ciclev10016676m.g' => 'ccl', 'Ciclev10017081m.g' => 'ccl', 'Ciclev10029499m.g' => 'ccl', 'CiPaw.01G166300' => 'cil', 'CiPaw.06G145600' => 'cil', 'CiPaw.13G040100' => 'cil', 'CiPaw.13G135800' => 'cil', 'ClCG01G012230' => 'cla', 'ClCG05G009510' => 'cla', 'ClCG08G008270' => 'cla', 'COL.COLO4_11763' => 'col', 'COL.COLO4_19876' => 'col', 'COL.COLO4_21481' => 'col', 'Cpa.g.sc118.34' => 'cpa', 'Cpa.g.sc32.13' => 'cpa', 'Cpa.g.sc58.103' => 'cpa', 'Cre03.g183850' => 'cre', 'Cre06.g306350' => 'cre', 'Cre07.g334800' => 'cre', 'Cre12.g487900' => 'cre', 'Cre14.g626700' => 'cre', 'Cre16.g658400' => 'cre', 'Cre17.g700950' => 'cre', 'CsaV3_1G014830' => 'csa', 'CsaV3_3G013320' => 'csa', 'CsaV3_3G019210' => 'csa', 'CsaV3_3G019220' => 'csa', 'CsaV3_6G004230' => 'csa', 'CSS0003773' => 'camsi', 'CSS0004563' => 'camsi', 'CSS0013949' => 'camsi', 'CSS0025971' => 'camsi', 'CSS0028570' => 'camsi', 'CSS0033127' => 'camsi', 'CSS0036051' => 'camsi', 'CSS0040087' => 'camsi', 'CSS0043179' => 'camsi', 'DCAR_006161' => 'dca', 'DCAR_010351' => 'dca', 'DCAR_012197' => 'dca', 'DCAR_024162' => 'dca', 'Dinv01030' => 'din', 'Dinv10924' => 'din', 'Dinv11835' => 'din', 'Dinv22841' => 'din', 'Dinv42553' => 'din', 'Duzib052G0560' => 'dzi', 'Duzib132G0389' => 'dzi', 'Duzib150G1181' => 'dzi', 'Duzib168G0623' => 'dzi', 'Duzib170G1036' => 'dzi', 'Duzib212G0200' => 'dzi', 'Duzib248G0194' => 'dzi', 'ECA232G2193' => 'eca', 'ECA233G0302' => 'eca', 'ECA234G2813' => 'eca', 'ECA234G4866' => 'eca', 'ECA240G3932' => 'eca', 'ECA248G0385' => 'eca', 'EL10Ac2g04781' => 'bvu', 'EL10Ac3g06445' => 'bvu', 'EL10Ac7g15825' => 'bvu', 'EL10Ac8g18550' => 'bvu', 'Eucgr.B03849' => 'egr', 'Eucgr.I02744' => 'egr', 'Eucgr.J00264' => 'egr', 'Eucgr.J00493' => 'egr', 'FAN04G2181' => 'fan', 'FAN07G2666' => 'fan', 'FAN11G0024' => 'fan', 'FAN12G1105' => 'fan', 'FAN13G0302' => 'fan', 'FAN15G2781' => 'fan', 'FAN16G1274' => 'fan', 'FAN17G2988' => 'fan', 'FAN18G2621' => 'fan', 'FAN21G0013' => 'fan', 'FAN22G1211' => 'fan', 'FAN25G3626' => 'fan', 'FvH4_2g09491' => 'fve', 'FvH4_3g24910' => 'fve', 'FvH4_4g15630' => 'fve', 'FvH4_5g28820' => 'fve', 'Glyma.01G238000' => 'gma', 'Glyma.05G168400' => 'gma', 'Glyma.08G126800' => 'gma', 'Glyma.08G188500' => 'gma', 'Glyma.10G278900' => 'gma', 'Glyma.11G005700' => 'gma', 'Glyma.11G183300' => 'gma', 'Glyma.12G089200' => 'gma', 'Glyma.12G169400' => 'gma', 'Glyma.12G169500' => 'gma', 'Glyma.12G169600' => 'gma', 'Glyma.20G110800' => 'gma', 'Gohir.A03G192900' => 'ghi', 'Gohir.A03G193000' => 'ghi', 'Gohir.A05G080700' => 'ghi', 'Gohir.A09G216000' => 'ghi', 'Gohir.A12G027700' => 'ghi', 'Gohir.A13G036200' => 'ghi', 'Gohir.A13G222600' => 'ghi', 'Gohir.D02G213900' => 'ghi', 'Gohir.D02G214000' => 'ghi', 'Gohir.D05G083700' => 'ghi', 'Gohir.D05G083800' => 'ghi', 'Gohir.D05G083850' => 'ghi', 'Gohir.D08G015400' => 'ghi', 'Gohir.D09G218400' => 'ghi', 'Gohir.D12G027100' => 'ghi', 'Gohir.D13G034500' => 'ghi', 'Gohir.D13G227400' => 'ghi', 'Gorai.005G241800' => 'gra', 'Gorai.005G241900' => 'gra', 'Gorai.006G239400' => 'gra', 'Gorai.008G027600' => 'gra', 'Gorai.009G085400' => 'gra', 'Gorai.009G085500' => 'gra', 'Gorai.013G039000' => 'gra', 'Gorai.013G194800' => 'gra', 'Gorai.013G257900' => 'gra', 'GSVIVG01000982001' => 'vvi', 'GSVIVG01017981001' => 'vvi', 'HanXRQChr01g0024061' => 'han', 'HanXRQChr09g0247831' => 'han', 'HanXRQChr10g0294611' => 'han', 'HanXRQChr10g0294621' => 'han', 'HanXRQChr11g0346821' => 'han', 'HanXRQChr13g0397461' => 'han', 'HanXRQChr16g0513651' => 'han', 'HanXRQChr16g0513701' => 'han', 'Haze_00897' => 'cav', 'Haze_01745' => 'cav', 'Haze_02486' => 'cav', 'Haze_02487' => 'cav', 'Haze_23374' => 'cav', 'Hma1.2p1_0578F.1_g182520' => 'hma', 'Hma1.2p1_0602F.1_g187350' => 'hma', 'Hma1.2p1_0602F.1_g187360' => 'hma', 'Hma1.2p1_0874F.1_g231320' => 'hma', 'Hma1.2p1_1197F.1_g266210' => 'hma', 'Hma1.2p1_1197F.1_g266220' => 'hma', 'Hma1.2p1_2167F.1_g315895' => 'hma', 'Hma1.2p1_2190F.1_g316640' => 'hma', 'Hma1.2p1_3645F.1_g337153' => 'hma', 'HPP92_004907' => 'vpl', 'HPP92_012134' => 'vpl', 'HPP92_025136' => 'vpl', 'HPP92_026087' => 'vpl', 'Hund06782' => 'sun', 'Hund06784' => 'sun', 'Lalb_Chr01g0004861' => 'lal', 'Lalb_Chr02g0140591' => 'lal', 'Lalb_Chr02g0140611' => 'lal', 'Lalb_Chr03g0028101' => 'lal', 'Lalb_Chr07g0185791' => 'lal', 'Lalb_Chr12g0204491' => 'lal', 'Lalb_Chr13g0295671' => 'lal', 'Lalb_Chr19g0136461' => 'lal', 'Lalb_Chr21g0309191' => 'lal', 'Lj1g0028158' => 'lja', 'Lj1P236T38' => 'lonja', 'Lj2C32G2' => 'lonja', 'Lj2P944T8' => 'lonja', 'Lj2P963T15' => 'lonja', 'Lj3g0011788' => 'lja', 'Lj4g0025027' => 'lja', 'Lj5P255T36' => 'lonja', 'Lj6g0018866' => 'lja', 'Lj6P608T31' => 'lonja', 'LjContig00408g0008879' => 'lja', 'Lsat_1_v5_gn_5_105820' => 'lsa', 'Lsat_1_v5_gn_6_38800' => 'lsa', 'Lsat_1_v5_gn_7_67141' => 'lsa', 'Manes.04G003400' => 'mes', 'Manes.07G020000' => 'mes', 'Manes.07G020100' => 'mes', 'Manes.07G020150' => 'mes', 'Manes.10G061500' => 'mes', 'Manes.10G123200' => 'mes', 'Manes.11G161900' => 'mes', 'Manes.15G029300' => 'mes', 'Mapoly0071s0018' => 'mpo', 'Mapoly0082s0023' => 'mpo', 'Mapoly3477s0001' => 'mpo', 'MBI05_g31233_MAGBIO' => 'mbi', 'MBI09_g05946_MAGBIO' => 'mbi', 'MBI09_g05947_MAGBIO' => 'mbi', 'MBI17_g08346_MAGBIO' => 'mbi', 'MCO04G038' => 'mco', 'MCO09G370' => 'mco', 'MCO13G605' => 'mco', 'MD00G1075500' => 'mdo', 'MD03G1144300' => 'mdo', 'MD08G1236800' => 'mdo', 'MD13G1193300' => 'mdo', 'MD15G1428700' => 'mdo', 'Medtr1g112030' => 'mtr', 'Medtr1g112050' => 'mtr', 'Medtr2g006290' => 'mtr', 'Medtr2g086510' => 'mtr', 'Medtr4g053120' => 'mtr', 'Medtr5g006320' => 'mtr', 'Medtr8g088720' => 'mtr', 'MELO3C004712.2' => 'cme', 'MELO3C006533.2' => 'cme', 'MELO3C019438.2' => 'cme', 'MELO3C019440.2' => 'cme', 'MELO3C019441.2' => 'cme', 'MELO3C019895.2' => 'cme', 'Migut.B00811' => 'egut', 'Migut.D02447' => 'egut', 'Migut.F00875' => 'egut', 'Migut.N00186' => 'egut', 'Migut.N01051' => 'egut', 'Migut.N02491' => 'egut', 'Migut.O00784' => 'egut', 'MSTRG.12367' => 'ama', 'MSTRG.18756' => 'ama', 'MSTRG.21042' => 'ama', 'Nitab4.5_0000559g0040' => 'nta', 'Nitab4.5_0000667g0190' => 'nta', 'Nitab4.5_0000755g0160' => 'nta', 'Nitab4.5_0001216g0080' => 'nta', 'Nitab4.5_0004069g0040' => 'nta', 'Nitab4.5_0004129g0010' => 'nta', 'Nitab4.5_0005744g0030' => 'nta', 'Nitab4.5_0006996g0030' => 'nta', 'Nitab4.5_0008971g0040' => 'nta', 'Nitab4.5_0009769g0020' => 'nta', 'Nitab4.5_0009833g0010' => 'nta', 'Nitab4.5_0013140g0020' => 'nta', 'Nn003s41376' => 'nnu', 'Nn1g01857' => 'nnu', 'Nn1g03611' => 'nnu', 'Nn1g06853' => 'nnu', 'Nn3g18360' => 'nnu', 'Nn4g26328' => 'nnu', 'Nn5g27531' => 'nnu', 'Nn6g34899' => 'nnu', 'Nn7g36299' => 'nnu', 'Oeu021485.1' => 'oeu', 'Oeu022433.1' => 'oeu', 'Oeu032111.1' => 'oeu', 'Oeu051608.1' => 'oeu', 'Os01g0860601' => 'osa', 'Os03g0659200' => 'osa', 'Os03g0835900' => 'osa', 'Os04g0412200' => 'osa', 'Os05g0443500' => 'osa', 'Os07g0251500' => 'osa', 'Os08g0104600' => 'osa', 'Peaxi162Scf00003g00047' => 'pax', 'Peaxi162Scf00003g00052' => 'pax', 'Peaxi162Scf00003g00394' => 'pax', 'Peaxi162Scf00091g00621' => 'pax', 'Peaxi162Scf00152g00146' => 'pax', 'Peaxi162Scf00173g00025' => 'pax', 'Peaxi162Scf00195g00102' => 'pax', 'Peaxi162Scf00402g00013' => 'pax', 'Peaxi162Scf00519g00618' => 'pax', 'PGR004G2838' => 'pgr', 'PGR044G2275' => 'pgr', 'PGR102G1377' => 'pgr', 'PGR119G1245' => 'pgr', 'PGR142G4449' => 'pgr', 'PGSC0003DMG400004532' => 'stu', 'PGSC0003DMG400011950' => 'stu', 'PGSC0003DMG400023391' => 'stu', 'PGSC0003DMG400023985' => 'stu', 'PGSC0003DMG400026360' => 'stu', 'PGSC0003DMG400035711' => 'stu', 'PGSC0003DMG400037286' => 'stu', 'PGSC0003DMG402005881' => 'stu', 'Phvul.002G045400' => 'pvu', 'Phvul.006G216600' => 'pvu', 'Phvul.006G216700' => 'pvu', 'Phvul.006G216800' => 'pvu', 'Phvul.007G022500' => 'pvu', 'Phvul.011G094400' => 'pvu', 'Potri.001G470700' => 'ptr', 'Potri.003G015200' => 'ptr', 'Potri.004G202500' => 'ptr', 'Potri.004G218400' => 'ptr', 'Potri.008G020100' => 'ptr', 'Potri.008G153200' => 'ptr', 'Potri.009G163800' => 'ptr', 'Potri.010G087300' => 'ptr', 'Potri.010G239100' => 'ptr', 'Pp3c10_16100' => 'ppa', 'Pp3c10_16880' => 'ppa', 'Pp3c16_6230' => 'ppa', 'Pp3c17_18910' => 'ppa', 'Pp3c3_22119' => 'ppa', 'Pp3c3_22140' => 'ppa', 'Pp3c4_8159' => 'ppa', 'Pp3c4_8171' => 'ppa', 'Pp3c4_8330' => 'ppa', 'PRCOL_00004098' => 'pco', 'Prupe.1G013900' => 'ppe', 'Prupe.1G226300' => 'ppe', 'Prupe.1G573600' => 'ppe', 'Prupe.6G130100' => 'ppe', 'Psat3g090040' => 'psa', 'Psat4g210440' => 'psa', 'Psat6g231040' => 'psa', 'Psat6g231080' => 'psa', 'Psat7g063000' => 'psa', 'Psat7g188000' => 'psa', 'Psat7g188040' => 'psa', 'PSO017G0206' => 'pso', 'PSO170G0501' => 'pso', 'PSO170G6422' => 'pso', 'PSO210G7739' => 'pso', 'PSO339G1808' => 'pso', 'PSO339G6135' => 'pso', 'PSO384G0010' => 'pso', 'PSO384G0964' => 'pso', 'PSO761G0050' => 'pso', 'PSO782G4085' => 'pso', 'QL01p012264' => 'qlo', 'QL02p099491' => 'qlo', 'QL03p033868' => 'qlo', 'QL04p046678' => 'qlo', 'QL06p002448' => 'qlo', 'RcHm_v2.0_Chr4g0416181' => 'rch', 'RcHm_v2.0_Chr5g0044701' => 'rch', 'RcHm_v2.0_Chr6g0265781' => 'rch', 'RcHm_v2.0_Chr7g0221031' => 'rch', 'Rhsim04G0202000' => 'rsi', 'Rhsim11G0127300' => 'rsi', 'Rhsim13G0111800' => 'rsi', 'Sabra01G0165600' => 'sbr', 'Sabra03G0008300' => 'sbr', 'Sabra04G0136900' => 'sbr', 'Sabra08G0013400' => 'sbr', 'Sabra08G0116800' => 'sbr', 'Sabra09G0128000' => 'sbr', 'Sabra10G0055500' => 'sbr', 'Sabra10G0073300' => 'sbr', 'SalBow3G0385' => 'sbo', 'SalBow3G1119' => 'sbo', 'SalBow3G2005' => 'sbo', 'SalBow6G2563' => 'sbo', 'SalBow6G6386' => 'sbo', 'Sc06g0008800' => 'sci', 'Sc07g0004950' => 'sci', 'Sc09g0005340' => 'sci', 'Sc13g0004410' => 'sci', 'Sc21g0007090' => 'sci', 'Sed0009285' => 'sed', 'Sed0017583' => 'sed', 'Sed0019699' => 'sed', 'Sed0023107' => 'sed', 'SEGI_10916' => 'sgi', 'SEGI_16217' => 'sgi', 'SEGI_19466' => 'sgi', 'SEGI_41115' => 'sgi', 'SGA_v2.0_scaffold111G31534' => 'sas', 'SGA_v2.0_scaffold22G09864' => 'sas', 'SGA_v2.0_scaffold338G49219' => 'sas', 'SGA_v2.0_scaffold92G28298' => 'sas', 'SMO119G0064' => 'smo', 'SMO223G0038' => 'smo', 'SMO347G0584' => 'smo', 'SMO351G0010' => 'smo', 'SMO356G0404' => 'smo', 'Solyc01g103920.3' => 'sly', 'Solyc04g009710.2' => 'sly', 'Solyc05g055280.2' => 'sly', 'Solyc10g044520.3' => 'sly', 'Solyc10g075160.1' => 'sly', 'Solyc11g006910.3' => 'sly', 'Solyc11g068430.3' => 'sly', 'Sopen01g046310' => 'spe', 'Sopen03g001200' => 'spe', 'Sopen04g004830' => 'spe', 'Sopen05g033720' => 'spe', 'Sopen06g030740' => 'spe', 'Sopen10g013090' => 'spe', 'Sopen10g027630' => 'spe', 'Sopen10g027640' => 'spe', 'Sopen11g002820' => 'spe', 'Sopen11g027140' => 'spe', 'Sp1g09680' => 'spa', 'Sp2g03630' => 'spa', 'Sp4g10320' => 'spa', 'Sp6g33400' => 'spa', 'Sp7g13030' => 'spa', 'TAR365G0317' => 'tar', 'TAR376G0979' => 'tar', 'TAR623G1665' => 'tar', 'TAR633G2373' => 'tar', 'TAR636G1400' => 'tar', 'THA.LOC104800529' => 'tha', 'THA.LOC104808547' => 'tha', 'THA.LOC104809615' => 'tha', 'THA.LOC104815724' => 'tha', 'THA.LOC104818480' => 'tha', 'THA.LOC104819179' => 'tha', 'THA.LOC104822270' => 'tha', 'THA.LOC104826425' => 'tha', 'Thecc.02G089700' => 'tca', 'Thecc.04G232300' => 'tca', 'Thecc.09G283400' => 'tca', 'Thhalv10009020m.g' => 'esa', 'Thhalv10015506m.g' => 'esa', 'Thhalv10017364m.g' => 'esa', 'Thhalv10023742m.g' => 'esa', 'Thhalv10026483m.g' => 'esa', 'TPR.G17232' => 'tpr', 'TPR.G2133' => 'tpr', 'TPR.G2498' => 'tpr', 'TPR.G31942' => 'tpr', 'TPR.G37877' => 'tpr', 'TPR.G4571' => 'tpr', 'TWI14G1113' => 'twi', 'TWI15G0426' => 'twi', 'TWI31G1005' => 'twi', 'TWI38G0513' => 'twi', 'TWI38G1484' => 'twi', 'TWI73G1098' => 'twi', 'unitig_26.g10519' => 'ugi', 'unitig_736.g22395' => 'ugi', 'unitig_747.g21234' => 'ugi', 'unitig_747.g21942' => 'ugi', 'vmacro14351' => 'vma', 'VMungo0540G0082' => 'vmu', 'VMungo0540G0405' => 'vmu', 'VMungo0540G1486' => 'vmu', 'VMungo0540G1692' => 'vmu', 'VMungo0720G2473' => 'vmu', 'VMungo1127G1562' => 'vmu', 'VMungo1215G1918' => 'vmu', 'Zm00001eb052650' => 'zma', 'Zm00001eb063710' => 'zma', 'Zm00001eb083950' => 'zma', 'Zm00001eb174420' => 'zma', 'Zm00001eb260140' => 'zma', 'Zm00001eb260150' => 'zma', 'Zm00001eb260160' => 'zma', 'Zm00001eb348290' => 'zma', 'Zm00001eb366870' => 'zma', 'Zm00001eb421930' => 'zma' ) $gf_id = 'HOM05D001025' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001025' ) $data_identifier = 'HOM05D001025' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 19, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 2, 'amhyb' => (int) 4, 'aly' => (int) 4, 'aox' => (int) 4, 'arhy' => (int) 3, 'ath' => (int) 5, 'atr' => (int) 4, 'acertr' => (int) 3, 'cqu' => (int) 7, 'bca' => (int) 17, 'bol' => (int) 10, 'bra' => (int) 9, 'can' => (int) 10, 'cansat' => (int) 6, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 5, 'cbr' => (int) 5, 'ccan' => (int) 5, 'cde' => (int) 4, 'cfa' => (int) 3, 'ccl' => (int) 6, 'cil' => (int) 4, 'cla' => (int) 3, 'col' => (int) 3, 'cpa' => (int) 3, 'cre' => (int) 7, 'csa' => (int) 5, 'camsi' => (int) 9, 'dca' => (int) 4, 'din' => (int) 5, 'dzi' => (int) 7, 'eca' => (int) 6, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 12, 'fve' => (int) 4, 'gma' => (int) 12, 'ghi' => (int) 17, 'gra' => (int) 9, 'vvi' => (int) 2, 'han' => (int) 8, 'cav' => (int) 5, 'hma' => (int) 9, 'vpl' => (int) 4, 'sun' => (int) 2, 'lal' => (int) 9, 'lja' => (int) 5, 'lonja' => (int) 6, 'lsa' => (int) 3, 'mes' => (int) 8, 'mpo' => (int) 3, 'mbi' => (int) 4, 'mco' => (int) 3, 'mdo' => (int) 5, 'mtr' => (int) 7, 'cme' => (int) 6, 'egut' => (int) 7, 'ama' => (int) 3, 'nta' => (int) 12, 'nnu' => (int) 9, 'oeu' => (int) 4, 'osa' => (int) 7, 'pax' => (int) 9, 'pgr' => (int) 5, 'stu' => (int) 8, 'pvu' => (int) 6, 'ptr' => (int) 9, 'ppa' => (int) 9, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 7, 'pso' => (int) 10, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 3, 'sbr' => (int) 8, 'sbo' => (int) 5, 'sci' => (int) 5, 'sed' => (int) 4, 'sgi' => (int) 4, 'sas' => (int) 4, 'smo' => (int) 5, 'sly' => (int) 7, 'spe' => (int) 10, 'spa' => (int) 5, 'tar' => (int) 5, 'tha' => (int) 8, 'tca' => (int) 3, 'esa' => (int) 5, 'tpr' => (int) 6, 'twi' => (int) 6, 'ugi' => (int) 4, 'vma' => (int) 1, 'vmu' => (int) 7, 'zma' => (int) 10 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb421930' $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' => 'HOM05D001025', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '592', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p22650' => 'bna', 'A01p29720' => 'bna', 'A03p26560' => 'bna', 'A03p68820' => 'bna', 'A04p20980' => 'bna', 'A06p07730' => 'bna', 'A07p18260' => 'bna', 'A08p33710' => 'bna', 'A09p16970' => 'bna', 'A10p27490' => 'bna', 'Aa31LG1G17300' => 'aar', 'Aa31LG1G3910' => 'aar', 'Aa31LG2G9630' => 'aar', 'Aa31LG5G8360' => 'aar', 'Aa31LG9G2410' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4699' => 'aag', 'Actinidia23512' => 'ach', 'Actinidia37080' => 'ach', 'Ah.01g020380' => 'amhyb', 'Ah.08g215710' => 'amhyb', 'Ah.09g225110' => 'amhyb', 'Ah.10g036680' => 'amhyb', 'AL1G21940' => 'aly', 'AL2G15540' => 'aly', 'AL4G21520' => 'aly', 'AL7G40960' => 'aly', 'Aqoxy2G01191' => 'aox', 'Aqoxy2G03393' => 'aox', 'Aqoxy4G02775' => 'aox', 'Aqoxy6G00058' => 'aox', 'arahy.Tifrunner.gnm1.ann1.9X74H2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CW3FX9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R485W7' => 'arhy', 'AT1G10960' => 'ath', 'AT1G60950' => 'ath', 'AT2G27510' => 'ath', 'AT4G14890' => 'ath', 'AT5G10000' => 'ath', 'ATR0665G624' => 'atr', 'ATR0697G138' => 'atr', 'ATR0776G046' => 'atr', 'ATR1134G135' => 'atr', 'Atru.chr12.1025' => 'acertr', 'Atru.chr3.3241' => 'acertr', 'Atru.chr4.2460' => 'acertr', 'AUR62007427' => 'cqu', 'AUR62010960' => 'cqu', 'AUR62012201' => 'cqu', 'AUR62021470' => 'cqu', 'AUR62022834' => 'cqu', 'AUR62033635' => 'cqu', 'AUR62036186' => 'cqu', 'BcaB01g03077' => 'bca', 'BcaB02g10093' => 'bca', 'BcaB04g20295' => 'bca', 'BcaB06g28147' => 'bca', 'BcaB07g31253' => 'bca', 'BcaC01g04946' => 'bca', 'BcaC02g10614' => 'bca', 'BcaC02g10885' => 'bca', 'BcaC04g19356' => 'bca', 'BcaC04g22297' => 'bca', 'BcaC05g24977' => 'bca', 'BcaC06g31823' => 'bca', 'BcaC07g38633' => 'bca', 'BcaC09g49353' => 'bca', 'BcaC09g50168' => 'bca', 'BcaNung00322' => 'bca', 'BcaNung04769' => 'bca', 'BolC1t02753H' => 'bol', 'BolC1t03721H' => 'bol', 'BolC3t15525H' => 'bol', 'BolC4t23903H' => 'bol', 'BolC4t24231H' => 'bol', 'BolC4t27209H' => 'bol', 'BolC5t29671H' => 'bol', 'BolC8t49044H' => 'bol', 'BolC9t54999H' => 'bol', 'BolC9t59517H' => 'bol', 'BraA01t02178Z' => 'bra', 'BraA01t03099Z' => 'bra', 'BraA03t11867Z' => 'bra', 'BraA04t17667Z' => 'bra', 'BraA07t29542Z' => 'bra', 'BraA08t35287Z' => 'bra', 'BraA09t37334Z' => 'bra', 'BraA10t44801Z' => 'bra', 'BraSC39t46181Z' => 'bra', 'C01p28240' => 'bna', 'C01p37530' => 'bna', 'C03p31820' => 'bna', 'C04p24080' => 'bna', 'C04p25790' => 'bna', 'C04p56770' => 'bna', 'C05p09310' => 'bna', 'C09p21010' => 'bna', 'C09p67560' => 'bna', 'CAN.G1324.7' => 'can', 'CAN.G1358.10' => 'can', 'CAN.G1550.2' => 'can', 'CAN.G186.56' => 'can', 'CAN.G1965.1' => 'can', 'CAN.G645.15' => 'can', 'CAN.G798.26' => 'can', 'CAN.G798.27' => 'can', 'CAN.G798.29' => 'can', 'CAN.G919.31' => 'can', 'CANSAT11G0133' => 'cansat', 'CANSAT11G1171' => 'cansat', 'CANSAT11G2056' => 'cansat', 'CANSAT56G1202' => 'cansat', 'CANSAT56G1514' => 'cansat', 'CANSAT78G0455' => 'cansat', 'CARHR011190' => 'chi', 'CARHR051980' => 'chi', 'CARHR120170' => 'chi', 'CARHR203310' => 'chi', 'CARHR221490' => 'chi', 'Carub.0001s1054' => 'cru', 'Carub.0002s0431' => 'cru', 'Carub.0004s0818' => 'cru', 'Carub.0006s0846' => 'cru', 'Carub.0007s2722' => 'cru', 'Ca_00058_v3' => 'car', 'Ca_17831_v3' => 'car', 'Ca_19408_v3' => 'car', 'Ca_24397_v3' => 'car', 'Ca_25664_v3' => 'car', 'CBR_g21818' => 'cbr', 'CBR_g31195' => 'cbr', 'CBR_g32282' => 'cbr', 'CBR_g39599' => 'cbr', 'CBR_g49410' => 'cbr', 'Cc01_g09120' => 'ccan', 'Cc01_g09130' => 'ccan', 'Cc02_g09630' => 'ccan', 'Cc02_g22810' => 'ccan', 'Cc03_g03810' => 'ccan', 'CDE02G3718' => 'cde', 'CDE04G3183' => 'cde', 'CDE07G1046' => 'cde', 'CDE08G0480' => 'cde', 'Cfa005493' => 'cfa', 'Cfa010312' => 'cfa', 'Cfa015648' => 'cfa', 'Ciclev10002793m.g' => 'ccl', 'Ciclev10003356m.g' => 'ccl', 'Ciclev10006141m.g' => 'ccl', 'Ciclev10016676m.g' => 'ccl', 'Ciclev10017081m.g' => 'ccl', 'Ciclev10029499m.g' => 'ccl', 'CiPaw.01G166300' => 'cil', 'CiPaw.06G145600' => 'cil', 'CiPaw.13G040100' => 'cil', 'CiPaw.13G135800' => 'cil', 'ClCG01G012230' => 'cla', 'ClCG05G009510' => 'cla', 'ClCG08G008270' => 'cla', 'COL.COLO4_11763' => 'col', 'COL.COLO4_19876' => 'col', 'COL.COLO4_21481' => 'col', 'Cpa.g.sc118.34' => 'cpa', 'Cpa.g.sc32.13' => 'cpa', 'Cpa.g.sc58.103' => 'cpa', 'Cre03.g183850' => 'cre', 'Cre06.g306350' => 'cre', 'Cre07.g334800' => 'cre', 'Cre12.g487900' => 'cre', 'Cre14.g626700' => 'cre', 'Cre16.g658400' => 'cre', 'Cre17.g700950' => 'cre', 'CsaV3_1G014830' => 'csa', 'CsaV3_3G013320' => 'csa', 'CsaV3_3G019210' => 'csa', 'CsaV3_3G019220' => 'csa', 'CsaV3_6G004230' => 'csa', 'CSS0003773' => 'camsi', 'CSS0004563' => 'camsi', 'CSS0013949' => 'camsi', 'CSS0025971' => 'camsi', 'CSS0028570' => 'camsi', 'CSS0033127' => 'camsi', 'CSS0036051' => 'camsi', 'CSS0040087' => 'camsi', 'CSS0043179' => 'camsi', 'DCAR_006161' => 'dca', 'DCAR_010351' => 'dca', 'DCAR_012197' => 'dca', 'DCAR_024162' => 'dca', 'Dinv01030' => 'din', 'Dinv10924' => 'din', 'Dinv11835' => 'din', 'Dinv22841' => 'din', 'Dinv42553' => 'din', 'Duzib052G0560' => 'dzi', 'Duzib132G0389' => 'dzi', 'Duzib150G1181' => 'dzi', 'Duzib168G0623' => 'dzi', 'Duzib170G1036' => 'dzi', 'Duzib212G0200' => 'dzi', 'Duzib248G0194' => 'dzi', 'ECA232G2193' => 'eca', 'ECA233G0302' => 'eca', 'ECA234G2813' => 'eca', 'ECA234G4866' => 'eca', 'ECA240G3932' => 'eca', 'ECA248G0385' => 'eca', 'EL10Ac2g04781' => 'bvu', 'EL10Ac3g06445' => 'bvu', 'EL10Ac7g15825' => 'bvu', 'EL10Ac8g18550' => 'bvu', 'Eucgr.B03849' => 'egr', 'Eucgr.I02744' => 'egr', 'Eucgr.J00264' => 'egr', 'Eucgr.J00493' => 'egr', 'FAN04G2181' => 'fan', 'FAN07G2666' => 'fan', 'FAN11G0024' => 'fan', 'FAN12G1105' => 'fan', 'FAN13G0302' => 'fan', 'FAN15G2781' => 'fan', 'FAN16G1274' => 'fan', 'FAN17G2988' => 'fan', 'FAN18G2621' => 'fan', 'FAN21G0013' => 'fan', 'FAN22G1211' => 'fan', 'FAN25G3626' => 'fan', 'FvH4_2g09491' => 'fve', 'FvH4_3g24910' => 'fve', 'FvH4_4g15630' => 'fve', 'FvH4_5g28820' => 'fve', 'Glyma.01G238000' => 'gma', 'Glyma.05G168400' => 'gma', 'Glyma.08G126800' => 'gma', 'Glyma.08G188500' => 'gma', 'Glyma.10G278900' => 'gma', 'Glyma.11G005700' => 'gma', 'Glyma.11G183300' => 'gma', 'Glyma.12G089200' => 'gma', 'Glyma.12G169400' => 'gma', 'Glyma.12G169500' => 'gma', 'Glyma.12G169600' => 'gma', 'Glyma.20G110800' => 'gma', 'Gohir.A03G192900' => 'ghi', 'Gohir.A03G193000' => 'ghi', 'Gohir.A05G080700' => 'ghi', 'Gohir.A09G216000' => 'ghi', 'Gohir.A12G027700' => 'ghi', 'Gohir.A13G036200' => 'ghi', 'Gohir.A13G222600' => 'ghi', 'Gohir.D02G213900' => 'ghi', 'Gohir.D02G214000' => 'ghi', 'Gohir.D05G083700' => 'ghi', 'Gohir.D05G083800' => 'ghi', 'Gohir.D05G083850' => 'ghi', 'Gohir.D08G015400' => 'ghi', 'Gohir.D09G218400' => 'ghi', 'Gohir.D12G027100' => 'ghi', 'Gohir.D13G034500' => 'ghi', 'Gohir.D13G227400' => 'ghi', 'Gorai.005G241800' => 'gra', 'Gorai.005G241900' => 'gra', 'Gorai.006G239400' => 'gra', 'Gorai.008G027600' => 'gra', 'Gorai.009G085400' => 'gra', 'Gorai.009G085500' => 'gra', 'Gorai.013G039000' => 'gra', 'Gorai.013G194800' => 'gra', 'Gorai.013G257900' => 'gra', 'GSVIVG01000982001' => 'vvi', 'GSVIVG01017981001' => 'vvi', 'HanXRQChr01g0024061' => 'han', 'HanXRQChr09g0247831' => 'han', 'HanXRQChr10g0294611' => 'han', 'HanXRQChr10g0294621' => 'han', 'HanXRQChr11g0346821' => 'han', 'HanXRQChr13g0397461' => 'han', 'HanXRQChr16g0513651' => 'han', 'HanXRQChr16g0513701' => 'han', 'Haze_00897' => 'cav', 'Haze_01745' => 'cav', 'Haze_02486' => 'cav', 'Haze_02487' => 'cav', 'Haze_23374' => 'cav', 'Hma1.2p1_0578F.1_g182520' => 'hma', 'Hma1.2p1_0602F.1_g187350' => 'hma', 'Hma1.2p1_0602F.1_g187360' => 'hma', 'Hma1.2p1_0874F.1_g231320' => 'hma', 'Hma1.2p1_1197F.1_g266210' => 'hma', 'Hma1.2p1_1197F.1_g266220' => 'hma', 'Hma1.2p1_2167F.1_g315895' => 'hma', 'Hma1.2p1_2190F.1_g316640' => 'hma', 'Hma1.2p1_3645F.1_g337153' => 'hma', 'HPP92_004907' => 'vpl', 'HPP92_012134' => 'vpl', 'HPP92_025136' => 'vpl', 'HPP92_026087' => 'vpl', 'Hund06782' => 'sun', 'Hund06784' => 'sun', 'Lalb_Chr01g0004861' => 'lal', 'Lalb_Chr02g0140591' => 'lal', 'Lalb_Chr02g0140611' => 'lal', 'Lalb_Chr03g0028101' => 'lal', 'Lalb_Chr07g0185791' => 'lal', 'Lalb_Chr12g0204491' => 'lal', 'Lalb_Chr13g0295671' => 'lal', 'Lalb_Chr19g0136461' => 'lal', 'Lalb_Chr21g0309191' => 'lal', 'Lj1g0028158' => 'lja', 'Lj1P236T38' => 'lonja', 'Lj2C32G2' => 'lonja', 'Lj2P944T8' => 'lonja', 'Lj2P963T15' => 'lonja', 'Lj3g0011788' => 'lja', 'Lj4g0025027' => 'lja', 'Lj5P255T36' => 'lonja', 'Lj6g0018866' => 'lja', 'Lj6P608T31' => 'lonja', 'LjContig00408g0008879' => 'lja', 'Lsat_1_v5_gn_5_105820' => 'lsa', 'Lsat_1_v5_gn_6_38800' => 'lsa', 'Lsat_1_v5_gn_7_67141' => 'lsa', 'Manes.04G003400' => 'mes', 'Manes.07G020000' => 'mes', 'Manes.07G020100' => 'mes', 'Manes.07G020150' => 'mes', 'Manes.10G061500' => 'mes', 'Manes.10G123200' => 'mes', 'Manes.11G161900' => 'mes', 'Manes.15G029300' => 'mes', 'Mapoly0071s0018' => 'mpo', 'Mapoly0082s0023' => 'mpo', 'Mapoly3477s0001' => 'mpo', 'MBI05_g31233_MAGBIO' => 'mbi', 'MBI09_g05946_MAGBIO' => 'mbi', 'MBI09_g05947_MAGBIO' => 'mbi', 'MBI17_g08346_MAGBIO' => 'mbi', 'MCO04G038' => 'mco', 'MCO09G370' => 'mco', 'MCO13G605' => 'mco', 'MD00G1075500' => 'mdo', 'MD03G1144300' => 'mdo', 'MD08G1236800' => 'mdo', 'MD13G1193300' => 'mdo', 'MD15G1428700' => 'mdo', 'Medtr1g112030' => 'mtr', 'Medtr1g112050' => 'mtr', 'Medtr2g006290' => 'mtr', 'Medtr2g086510' => 'mtr', 'Medtr4g053120' => 'mtr', 'Medtr5g006320' => 'mtr', 'Medtr8g088720' => 'mtr', 'MELO3C004712.2' => 'cme', 'MELO3C006533.2' => 'cme', 'MELO3C019438.2' => 'cme', 'MELO3C019440.2' => 'cme', 'MELO3C019441.2' => 'cme', 'MELO3C019895.2' => 'cme', 'Migut.B00811' => 'egut', 'Migut.D02447' => 'egut', 'Migut.F00875' => 'egut', 'Migut.N00186' => 'egut', 'Migut.N01051' => 'egut', 'Migut.N02491' => 'egut', 'Migut.O00784' => 'egut', 'MSTRG.12367' => 'ama', 'MSTRG.18756' => 'ama', 'MSTRG.21042' => 'ama', 'Nitab4.5_0000559g0040' => 'nta', 'Nitab4.5_0000667g0190' => 'nta', 'Nitab4.5_0000755g0160' => 'nta', 'Nitab4.5_0001216g0080' => 'nta', 'Nitab4.5_0004069g0040' => 'nta', 'Nitab4.5_0004129g0010' => 'nta', 'Nitab4.5_0005744g0030' => 'nta', 'Nitab4.5_0006996g0030' => 'nta', 'Nitab4.5_0008971g0040' => 'nta', 'Nitab4.5_0009769g0020' => 'nta', 'Nitab4.5_0009833g0010' => 'nta', 'Nitab4.5_0013140g0020' => 'nta', 'Nn003s41376' => 'nnu', 'Nn1g01857' => 'nnu', 'Nn1g03611' => 'nnu', 'Nn1g06853' => 'nnu', 'Nn3g18360' => 'nnu', 'Nn4g26328' => 'nnu', 'Nn5g27531' => 'nnu', 'Nn6g34899' => 'nnu', 'Nn7g36299' => 'nnu', 'Oeu021485.1' => 'oeu', 'Oeu022433.1' => 'oeu', 'Oeu032111.1' => 'oeu', 'Oeu051608.1' => 'oeu', 'Os01g0860601' => 'osa', 'Os03g0659200' => 'osa', 'Os03g0835900' => 'osa', 'Os04g0412200' => 'osa', 'Os05g0443500' => 'osa', 'Os07g0251500' => 'osa', 'Os08g0104600' => 'osa', 'Peaxi162Scf00003g00047' => 'pax', 'Peaxi162Scf00003g00052' => 'pax', 'Peaxi162Scf00003g00394' => 'pax', 'Peaxi162Scf00091g00621' => 'pax', 'Peaxi162Scf00152g00146' => 'pax', 'Peaxi162Scf00173g00025' => 'pax', 'Peaxi162Scf00195g00102' => 'pax', 'Peaxi162Scf00402g00013' => 'pax', 'Peaxi162Scf00519g00618' => 'pax', 'PGR004G2838' => 'pgr', 'PGR044G2275' => 'pgr', 'PGR102G1377' => 'pgr', 'PGR119G1245' => 'pgr', 'PGR142G4449' => 'pgr', 'PGSC0003DMG400004532' => 'stu', 'PGSC0003DMG400011950' => 'stu', 'PGSC0003DMG400023391' => 'stu', 'PGSC0003DMG400023985' => 'stu', 'PGSC0003DMG400026360' => 'stu', 'PGSC0003DMG400035711' => 'stu', 'PGSC0003DMG400037286' => 'stu', 'PGSC0003DMG402005881' => 'stu', 'Phvul.002G045400' => 'pvu', 'Phvul.006G216600' => 'pvu', 'Phvul.006G216700' => 'pvu', 'Phvul.006G216800' => 'pvu', 'Phvul.007G022500' => 'pvu', 'Phvul.011G094400' => 'pvu', 'Potri.001G470700' => 'ptr', 'Potri.003G015200' => 'ptr', 'Potri.004G202500' => 'ptr', 'Potri.004G218400' => 'ptr', 'Potri.008G020100' => 'ptr', 'Potri.008G153200' => 'ptr', 'Potri.009G163800' => 'ptr', 'Potri.010G087300' => 'ptr', 'Potri.010G239100' => 'ptr', 'Pp3c10_16100' => 'ppa', 'Pp3c10_16880' => 'ppa', 'Pp3c16_6230' => 'ppa', 'Pp3c17_18910' => 'ppa', 'Pp3c3_22119' => 'ppa', 'Pp3c3_22140' => 'ppa', 'Pp3c4_8159' => 'ppa', 'Pp3c4_8171' => 'ppa', 'Pp3c4_8330' => 'ppa', 'PRCOL_00004098' => 'pco', 'Prupe.1G013900' => 'ppe', 'Prupe.1G226300' => 'ppe', 'Prupe.1G573600' => 'ppe', 'Prupe.6G130100' => 'ppe', 'Psat3g090040' => 'psa', 'Psat4g210440' => 'psa', 'Psat6g231040' => 'psa', 'Psat6g231080' => 'psa', 'Psat7g063000' => 'psa', 'Psat7g188000' => 'psa', 'Psat7g188040' => 'psa', 'PSO017G0206' => 'pso', 'PSO170G0501' => 'pso', 'PSO170G6422' => 'pso', 'PSO210G7739' => 'pso', 'PSO339G1808' => 'pso', 'PSO339G6135' => 'pso', 'PSO384G0010' => 'pso', 'PSO384G0964' => 'pso', 'PSO761G0050' => 'pso', 'PSO782G4085' => 'pso', 'QL01p012264' => 'qlo', 'QL02p099491' => 'qlo', 'QL03p033868' => 'qlo', 'QL04p046678' => 'qlo', 'QL06p002448' => 'qlo', 'RcHm_v2.0_Chr4g0416181' => 'rch', 'RcHm_v2.0_Chr5g0044701' => 'rch', 'RcHm_v2.0_Chr6g0265781' => 'rch', 'RcHm_v2.0_Chr7g0221031' => 'rch', 'Rhsim04G0202000' => 'rsi', 'Rhsim11G0127300' => 'rsi', 'Rhsim13G0111800' => 'rsi', 'Sabra01G0165600' => 'sbr', 'Sabra03G0008300' => 'sbr', 'Sabra04G0136900' => 'sbr', 'Sabra08G0013400' => 'sbr', 'Sabra08G0116800' => 'sbr', 'Sabra09G0128000' => 'sbr', 'Sabra10G0055500' => 'sbr', 'Sabra10G0073300' => 'sbr', 'SalBow3G0385' => 'sbo', 'SalBow3G1119' => 'sbo', 'SalBow3G2005' => 'sbo', 'SalBow6G2563' => 'sbo', 'SalBow6G6386' => 'sbo', 'Sc06g0008800' => 'sci', 'Sc07g0004950' => 'sci', 'Sc09g0005340' => 'sci', 'Sc13g0004410' => 'sci', 'Sc21g0007090' => 'sci', 'Sed0009285' => 'sed', 'Sed0017583' => 'sed', 'Sed0019699' => 'sed', 'Sed0023107' => 'sed', 'SEGI_10916' => 'sgi', 'SEGI_16217' => 'sgi', 'SEGI_19466' => 'sgi', 'SEGI_41115' => 'sgi', 'SGA_v2.0_scaffold111G31534' => 'sas', 'SGA_v2.0_scaffold22G09864' => 'sas', 'SGA_v2.0_scaffold338G49219' => 'sas', 'SGA_v2.0_scaffold92G28298' => 'sas', 'SMO119G0064' => 'smo', 'SMO223G0038' => 'smo', 'SMO347G0584' => 'smo', 'SMO351G0010' => 'smo', 'SMO356G0404' => 'smo', 'Solyc01g103920.3' => 'sly', 'Solyc04g009710.2' => 'sly', 'Solyc05g055280.2' => 'sly', 'Solyc10g044520.3' => 'sly', 'Solyc10g075160.1' => 'sly', 'Solyc11g006910.3' => 'sly', 'Solyc11g068430.3' => 'sly', 'Sopen01g046310' => 'spe', 'Sopen03g001200' => 'spe', 'Sopen04g004830' => 'spe', 'Sopen05g033720' => 'spe', 'Sopen06g030740' => 'spe', 'Sopen10g013090' => 'spe', 'Sopen10g027630' => 'spe', 'Sopen10g027640' => 'spe', 'Sopen11g002820' => 'spe', 'Sopen11g027140' => 'spe', 'Sp1g09680' => 'spa', 'Sp2g03630' => 'spa', 'Sp4g10320' => 'spa', 'Sp6g33400' => 'spa', 'Sp7g13030' => 'spa', 'TAR365G0317' => 'tar', 'TAR376G0979' => 'tar', 'TAR623G1665' => 'tar', 'TAR633G2373' => 'tar', 'TAR636G1400' => 'tar', 'THA.LOC104800529' => 'tha', 'THA.LOC104808547' => 'tha', 'THA.LOC104809615' => 'tha', 'THA.LOC104815724' => 'tha', 'THA.LOC104818480' => 'tha', 'THA.LOC104819179' => 'tha', 'THA.LOC104822270' => 'tha', 'THA.LOC104826425' => 'tha', 'Thecc.02G089700' => 'tca', 'Thecc.04G232300' => 'tca', 'Thecc.09G283400' => 'tca', 'Thhalv10009020m.g' => 'esa', 'Thhalv10015506m.g' => 'esa', 'Thhalv10017364m.g' => 'esa', 'Thhalv10023742m.g' => 'esa', 'Thhalv10026483m.g' => 'esa', 'TPR.G17232' => 'tpr', 'TPR.G2133' => 'tpr', 'TPR.G2498' => 'tpr', 'TPR.G31942' => 'tpr', 'TPR.G37877' => 'tpr', 'TPR.G4571' => 'tpr', 'TWI14G1113' => 'twi', 'TWI15G0426' => 'twi', 'TWI31G1005' => 'twi', 'TWI38G0513' => 'twi', 'TWI38G1484' => 'twi', 'TWI73G1098' => 'twi', 'unitig_26.g10519' => 'ugi', 'unitig_736.g22395' => 'ugi', 'unitig_747.g21234' => 'ugi', 'unitig_747.g21942' => 'ugi', 'vmacro14351' => 'vma', 'VMungo0540G0082' => 'vmu', 'VMungo0540G0405' => 'vmu', 'VMungo0540G1486' => 'vmu', 'VMungo0540G1692' => 'vmu', 'VMungo0720G2473' => 'vmu', 'VMungo1127G1562' => 'vmu', 'VMungo1215G1918' => 'vmu', 'Zm00001eb052650' => 'zma', 'Zm00001eb063710' => 'zma', 'Zm00001eb083950' => 'zma', 'Zm00001eb174420' => 'zma', 'Zm00001eb260140' => 'zma', 'Zm00001eb260150' => 'zma', 'Zm00001eb260160' => 'zma', 'Zm00001eb348290' => 'zma', 'Zm00001eb366870' => 'zma', 'Zm00001eb421930' => 'zma' ), 'gf_id' => 'HOM05D001025', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001025' ), 'data_identifier' => 'HOM05D001025', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001025', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '592', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p22650' => 'bna', 'A01p29720' => 'bna', 'A03p26560' => 'bna', 'A03p68820' => 'bna', 'A04p20980' => 'bna', 'A06p07730' => 'bna', 'A07p18260' => 'bna', 'A08p33710' => 'bna', 'A09p16970' => 'bna', 'A10p27490' => 'bna', 'Aa31LG1G17300' => 'aar', 'Aa31LG1G3910' => 'aar', 'Aa31LG2G9630' => 'aar', 'Aa31LG5G8360' => 'aar', 'Aa31LG9G2410' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4699' => 'aag', 'Actinidia23512' => 'ach', 'Actinidia37080' => 'ach', 'Ah.01g020380' => 'amhyb', 'Ah.08g215710' => 'amhyb', 'Ah.09g225110' => 'amhyb', 'Ah.10g036680' => 'amhyb', 'AL1G21940' => 'aly', 'AL2G15540' => 'aly', 'AL4G21520' => 'aly', 'AL7G40960' => 'aly', 'Aqoxy2G01191' => 'aox', 'Aqoxy2G03393' => 'aox', 'Aqoxy4G02775' => 'aox', 'Aqoxy6G00058' => 'aox', 'arahy.Tifrunner.gnm1.ann1.9X74H2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CW3FX9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R485W7' => 'arhy', 'AT1G10960' => 'ath', 'AT1G60950' => 'ath', 'AT2G27510' => 'ath', 'AT4G14890' => 'ath', 'AT5G10000' => 'ath', 'ATR0665G624' => 'atr', 'ATR0697G138' => 'atr', 'ATR0776G046' => 'atr', 'ATR1134G135' => 'atr', 'Atru.chr12.1025' => 'acertr', 'Atru.chr3.3241' => 'acertr', 'Atru.chr4.2460' => 'acertr', 'AUR62007427' => 'cqu', 'AUR62010960' => 'cqu', 'AUR62012201' => 'cqu', 'AUR62021470' => 'cqu', 'AUR62022834' => 'cqu', 'AUR62033635' => 'cqu', 'AUR62036186' => 'cqu', 'BcaB01g03077' => 'bca', 'BcaB02g10093' => 'bca', 'BcaB04g20295' => 'bca', 'BcaB06g28147' => 'bca', 'BcaB07g31253' => 'bca', 'BcaC01g04946' => 'bca', 'BcaC02g10614' => 'bca', 'BcaC02g10885' => 'bca', 'BcaC04g19356' => 'bca', 'BcaC04g22297' => 'bca', 'BcaC05g24977' => 'bca', 'BcaC06g31823' => 'bca', 'BcaC07g38633' => 'bca', 'BcaC09g49353' => 'bca', 'BcaC09g50168' => 'bca', 'BcaNung00322' => 'bca', 'BcaNung04769' => 'bca', 'BolC1t02753H' => 'bol', 'BolC1t03721H' => 'bol', 'BolC3t15525H' => 'bol', 'BolC4t23903H' => 'bol', 'BolC4t24231H' => 'bol', 'BolC4t27209H' => 'bol', 'BolC5t29671H' => 'bol', 'BolC8t49044H' => 'bol', 'BolC9t54999H' => 'bol', 'BolC9t59517H' => 'bol', 'BraA01t02178Z' => 'bra', 'BraA01t03099Z' => 'bra', 'BraA03t11867Z' => 'bra', 'BraA04t17667Z' => 'bra', 'BraA07t29542Z' => 'bra', 'BraA08t35287Z' => 'bra', 'BraA09t37334Z' => 'bra', 'BraA10t44801Z' => 'bra', 'BraSC39t46181Z' => 'bra', 'C01p28240' => 'bna', 'C01p37530' => 'bna', 'C03p31820' => 'bna', 'C04p24080' => 'bna', 'C04p25790' => 'bna', 'C04p56770' => 'bna', 'C05p09310' => 'bna', 'C09p21010' => 'bna', 'C09p67560' => 'bna', 'CAN.G1324.7' => 'can', 'CAN.G1358.10' => 'can', 'CAN.G1550.2' => 'can', 'CAN.G186.56' => 'can', 'CAN.G1965.1' => 'can', 'CAN.G645.15' => 'can', 'CAN.G798.26' => 'can', 'CAN.G798.27' => 'can', 'CAN.G798.29' => 'can', 'CAN.G919.31' => 'can', 'CANSAT11G0133' => 'cansat', 'CANSAT11G1171' => 'cansat', 'CANSAT11G2056' => 'cansat', 'CANSAT56G1202' => 'cansat', 'CANSAT56G1514' => 'cansat', 'CANSAT78G0455' => 'cansat', 'CARHR011190' => 'chi', 'CARHR051980' => 'chi', 'CARHR120170' => 'chi', 'CARHR203310' => 'chi', 'CARHR221490' => 'chi', 'Carub.0001s1054' => 'cru', 'Carub.0002s0431' => 'cru', 'Carub.0004s0818' => 'cru', 'Carub.0006s0846' => 'cru', 'Carub.0007s2722' => 'cru', 'Ca_00058_v3' => 'car', 'Ca_17831_v3' => 'car', 'Ca_19408_v3' => 'car', 'Ca_24397_v3' => 'car', 'Ca_25664_v3' => 'car', 'CBR_g21818' => 'cbr', 'CBR_g31195' => 'cbr', 'CBR_g32282' => 'cbr', 'CBR_g39599' => 'cbr', 'CBR_g49410' => 'cbr', 'Cc01_g09120' => 'ccan', 'Cc01_g09130' => 'ccan', 'Cc02_g09630' => 'ccan', 'Cc02_g22810' => 'ccan', 'Cc03_g03810' => 'ccan', 'CDE02G3718' => 'cde', 'CDE04G3183' => 'cde', 'CDE07G1046' => 'cde', 'CDE08G0480' => 'cde', 'Cfa005493' => 'cfa', 'Cfa010312' => 'cfa', 'Cfa015648' => 'cfa', 'Ciclev10002793m.g' => 'ccl', 'Ciclev10003356m.g' => 'ccl', 'Ciclev10006141m.g' => 'ccl', 'Ciclev10016676m.g' => 'ccl', 'Ciclev10017081m.g' => 'ccl', 'Ciclev10029499m.g' => 'ccl', 'CiPaw.01G166300' => 'cil', 'CiPaw.06G145600' => 'cil', 'CiPaw.13G040100' => 'cil', 'CiPaw.13G135800' => 'cil', 'ClCG01G012230' => 'cla', 'ClCG05G009510' => 'cla', 'ClCG08G008270' => 'cla', 'COL.COLO4_11763' => 'col', 'COL.COLO4_19876' => 'col', 'COL.COLO4_21481' => 'col', 'Cpa.g.sc118.34' => 'cpa', 'Cpa.g.sc32.13' => 'cpa', 'Cpa.g.sc58.103' => 'cpa', 'Cre03.g183850' => 'cre', 'Cre06.g306350' => 'cre', 'Cre07.g334800' => 'cre', 'Cre12.g487900' => 'cre', 'Cre14.g626700' => 'cre', 'Cre16.g658400' => 'cre', 'Cre17.g700950' => 'cre', 'CsaV3_1G014830' => 'csa', 'CsaV3_3G013320' => 'csa', 'CsaV3_3G019210' => 'csa', 'CsaV3_3G019220' => 'csa', 'CsaV3_6G004230' => 'csa', 'CSS0003773' => 'camsi', 'CSS0004563' => 'camsi', 'CSS0013949' => 'camsi', 'CSS0025971' => 'camsi', 'CSS0028570' => 'camsi', 'CSS0033127' => 'camsi', 'CSS0036051' => 'camsi', 'CSS0040087' => 'camsi', 'CSS0043179' => 'camsi', 'DCAR_006161' => 'dca', 'DCAR_010351' => 'dca', 'DCAR_012197' => 'dca', 'DCAR_024162' => 'dca', 'Dinv01030' => 'din', 'Dinv10924' => 'din', 'Dinv11835' => 'din', 'Dinv22841' => 'din', 'Dinv42553' => 'din', 'Duzib052G0560' => 'dzi', 'Duzib132G0389' => 'dzi', 'Duzib150G1181' => 'dzi', 'Duzib168G0623' => 'dzi', 'Duzib170G1036' => 'dzi', 'Duzib212G0200' => 'dzi', 'Duzib248G0194' => 'dzi', 'ECA232G2193' => 'eca', 'ECA233G0302' => 'eca', 'ECA234G2813' => 'eca', 'ECA234G4866' => 'eca', 'ECA240G3932' => 'eca', 'ECA248G0385' => 'eca', 'EL10Ac2g04781' => 'bvu', 'EL10Ac3g06445' => 'bvu', 'EL10Ac7g15825' => 'bvu', 'EL10Ac8g18550' => 'bvu', 'Eucgr.B03849' => 'egr', 'Eucgr.I02744' => 'egr', 'Eucgr.J00264' => 'egr', 'Eucgr.J00493' => 'egr', 'FAN04G2181' => 'fan', 'FAN07G2666' => 'fan', 'FAN11G0024' => 'fan', 'FAN12G1105' => 'fan', 'FAN13G0302' => 'fan', 'FAN15G2781' => 'fan', 'FAN16G1274' => 'fan', 'FAN17G2988' => 'fan', 'FAN18G2621' => 'fan', 'FAN21G0013' => 'fan', 'FAN22G1211' => 'fan', 'FAN25G3626' => 'fan', 'FvH4_2g09491' => 'fve', 'FvH4_3g24910' => 'fve', 'FvH4_4g15630' => 'fve', 'FvH4_5g28820' => 'fve', 'Glyma.01G238000' => 'gma', 'Glyma.05G168400' => 'gma', 'Glyma.08G126800' => 'gma', 'Glyma.08G188500' => 'gma', 'Glyma.10G278900' => 'gma', 'Glyma.11G005700' => 'gma', 'Glyma.11G183300' => 'gma', 'Glyma.12G089200' => 'gma', 'Glyma.12G169400' => 'gma', 'Glyma.12G169500' => 'gma', 'Glyma.12G169600' => 'gma', 'Glyma.20G110800' => 'gma', 'Gohir.A03G192900' => 'ghi', 'Gohir.A03G193000' => 'ghi', 'Gohir.A05G080700' => 'ghi', 'Gohir.A09G216000' => 'ghi', 'Gohir.A12G027700' => 'ghi', 'Gohir.A13G036200' => 'ghi', 'Gohir.A13G222600' => 'ghi', 'Gohir.D02G213900' => 'ghi', 'Gohir.D02G214000' => 'ghi', 'Gohir.D05G083700' => 'ghi', 'Gohir.D05G083800' => 'ghi', 'Gohir.D05G083850' => 'ghi', 'Gohir.D08G015400' => 'ghi', 'Gohir.D09G218400' => 'ghi', 'Gohir.D12G027100' => 'ghi', 'Gohir.D13G034500' => 'ghi', 'Gohir.D13G227400' => 'ghi', 'Gorai.005G241800' => 'gra', 'Gorai.005G241900' => 'gra', 'Gorai.006G239400' => 'gra', 'Gorai.008G027600' => 'gra', 'Gorai.009G085400' => 'gra', 'Gorai.009G085500' => 'gra', 'Gorai.013G039000' => 'gra', 'Gorai.013G194800' => 'gra', 'Gorai.013G257900' => 'gra', 'GSVIVG01000982001' => 'vvi', 'GSVIVG01017981001' => 'vvi', 'HanXRQChr01g0024061' => 'han', 'HanXRQChr09g0247831' => 'han', 'HanXRQChr10g0294611' => 'han', 'HanXRQChr10g0294621' => 'han', 'HanXRQChr11g0346821' => 'han', 'HanXRQChr13g0397461' => 'han', 'HanXRQChr16g0513651' => 'han', 'HanXRQChr16g0513701' => 'han', 'Haze_00897' => 'cav', 'Haze_01745' => 'cav', 'Haze_02486' => 'cav', 'Haze_02487' => 'cav', 'Haze_23374' => 'cav', 'Hma1.2p1_0578F.1_g182520' => 'hma', 'Hma1.2p1_0602F.1_g187350' => 'hma', 'Hma1.2p1_0602F.1_g187360' => 'hma', 'Hma1.2p1_0874F.1_g231320' => 'hma', 'Hma1.2p1_1197F.1_g266210' => 'hma', 'Hma1.2p1_1197F.1_g266220' => 'hma', 'Hma1.2p1_2167F.1_g315895' => 'hma', 'Hma1.2p1_2190F.1_g316640' => 'hma', 'Hma1.2p1_3645F.1_g337153' => 'hma', 'HPP92_004907' => 'vpl', 'HPP92_012134' => 'vpl', 'HPP92_025136' => 'vpl', 'HPP92_026087' => 'vpl', 'Hund06782' => 'sun', 'Hund06784' => 'sun', 'Lalb_Chr01g0004861' => 'lal', 'Lalb_Chr02g0140591' => 'lal', 'Lalb_Chr02g0140611' => 'lal', 'Lalb_Chr03g0028101' => 'lal', 'Lalb_Chr07g0185791' => 'lal', 'Lalb_Chr12g0204491' => 'lal', 'Lalb_Chr13g0295671' => 'lal', 'Lalb_Chr19g0136461' => 'lal', 'Lalb_Chr21g0309191' => 'lal', 'Lj1g0028158' => 'lja', 'Lj1P236T38' => 'lonja', 'Lj2C32G2' => 'lonja', 'Lj2P944T8' => 'lonja', 'Lj2P963T15' => 'lonja', 'Lj3g0011788' => 'lja', 'Lj4g0025027' => 'lja', 'Lj5P255T36' => 'lonja', 'Lj6g0018866' => 'lja', 'Lj6P608T31' => 'lonja', 'LjContig00408g0008879' => 'lja', 'Lsat_1_v5_gn_5_105820' => 'lsa', 'Lsat_1_v5_gn_6_38800' => 'lsa', 'Lsat_1_v5_gn_7_67141' => 'lsa', 'Manes.04G003400' => 'mes', 'Manes.07G020000' => 'mes', 'Manes.07G020100' => 'mes', 'Manes.07G020150' => 'mes', 'Manes.10G061500' => 'mes', 'Manes.10G123200' => 'mes', 'Manes.11G161900' => 'mes', 'Manes.15G029300' => 'mes', 'Mapoly0071s0018' => 'mpo', 'Mapoly0082s0023' => 'mpo', 'Mapoly3477s0001' => 'mpo', 'MBI05_g31233_MAGBIO' => 'mbi', 'MBI09_g05946_MAGBIO' => 'mbi', 'MBI09_g05947_MAGBIO' => 'mbi', 'MBI17_g08346_MAGBIO' => 'mbi', 'MCO04G038' => 'mco', 'MCO09G370' => 'mco', 'MCO13G605' => 'mco', 'MD00G1075500' => 'mdo', 'MD03G1144300' => 'mdo', 'MD08G1236800' => 'mdo', 'MD13G1193300' => 'mdo', 'MD15G1428700' => 'mdo', 'Medtr1g112030' => 'mtr', 'Medtr1g112050' => 'mtr', 'Medtr2g006290' => 'mtr', 'Medtr2g086510' => 'mtr', 'Medtr4g053120' => 'mtr', 'Medtr5g006320' => 'mtr', 'Medtr8g088720' => 'mtr', 'MELO3C004712.2' => 'cme', 'MELO3C006533.2' => 'cme', 'MELO3C019438.2' => 'cme', 'MELO3C019440.2' => 'cme', 'MELO3C019441.2' => 'cme', 'MELO3C019895.2' => 'cme', 'Migut.B00811' => 'egut', 'Migut.D02447' => 'egut', 'Migut.F00875' => 'egut', 'Migut.N00186' => 'egut', 'Migut.N01051' => 'egut', 'Migut.N02491' => 'egut', 'Migut.O00784' => 'egut', 'MSTRG.12367' => 'ama', 'MSTRG.18756' => 'ama', 'MSTRG.21042' => 'ama', 'Nitab4.5_0000559g0040' => 'nta', 'Nitab4.5_0000667g0190' => 'nta', 'Nitab4.5_0000755g0160' => 'nta', 'Nitab4.5_0001216g0080' => 'nta', 'Nitab4.5_0004069g0040' => 'nta', 'Nitab4.5_0004129g0010' => 'nta', 'Nitab4.5_0005744g0030' => 'nta', 'Nitab4.5_0006996g0030' => 'nta', 'Nitab4.5_0008971g0040' => 'nta', 'Nitab4.5_0009769g0020' => 'nta', 'Nitab4.5_0009833g0010' => 'nta', 'Nitab4.5_0013140g0020' => 'nta', 'Nn003s41376' => 'nnu', 'Nn1g01857' => 'nnu', 'Nn1g03611' => 'nnu', 'Nn1g06853' => 'nnu', 'Nn3g18360' => 'nnu', 'Nn4g26328' => 'nnu', 'Nn5g27531' => 'nnu', 'Nn6g34899' => 'nnu', 'Nn7g36299' => 'nnu', 'Oeu021485.1' => 'oeu', 'Oeu022433.1' => 'oeu', 'Oeu032111.1' => 'oeu', 'Oeu051608.1' => 'oeu', 'Os01g0860601' => 'osa', 'Os03g0659200' => 'osa', 'Os03g0835900' => 'osa', 'Os04g0412200' => 'osa', 'Os05g0443500' => 'osa', 'Os07g0251500' => 'osa', 'Os08g0104600' => 'osa', 'Peaxi162Scf00003g00047' => 'pax', 'Peaxi162Scf00003g00052' => 'pax', 'Peaxi162Scf00003g00394' => 'pax', 'Peaxi162Scf00091g00621' => 'pax', 'Peaxi162Scf00152g00146' => 'pax', 'Peaxi162Scf00173g00025' => 'pax', 'Peaxi162Scf00195g00102' => 'pax', 'Peaxi162Scf00402g00013' => 'pax', 'Peaxi162Scf00519g00618' => 'pax', 'PGR004G2838' => 'pgr', 'PGR044G2275' => 'pgr', 'PGR102G1377' => 'pgr', 'PGR119G1245' => 'pgr', 'PGR142G4449' => 'pgr', 'PGSC0003DMG400004532' => 'stu', 'PGSC0003DMG400011950' => 'stu', 'PGSC0003DMG400023391' => 'stu', 'PGSC0003DMG400023985' => 'stu', 'PGSC0003DMG400026360' => 'stu', 'PGSC0003DMG400035711' => 'stu', 'PGSC0003DMG400037286' => 'stu', 'PGSC0003DMG402005881' => 'stu', 'Phvul.002G045400' => 'pvu', 'Phvul.006G216600' => 'pvu', 'Phvul.006G216700' => 'pvu', 'Phvul.006G216800' => 'pvu', 'Phvul.007G022500' => 'pvu', 'Phvul.011G094400' => 'pvu', 'Potri.001G470700' => 'ptr', 'Potri.003G015200' => 'ptr', 'Potri.004G202500' => 'ptr', 'Potri.004G218400' => 'ptr', 'Potri.008G020100' => 'ptr', 'Potri.008G153200' => 'ptr', 'Potri.009G163800' => 'ptr', 'Potri.010G087300' => 'ptr', 'Potri.010G239100' => 'ptr', 'Pp3c10_16100' => 'ppa', 'Pp3c10_16880' => 'ppa', 'Pp3c16_6230' => 'ppa', 'Pp3c17_18910' => 'ppa', 'Pp3c3_22119' => 'ppa', 'Pp3c3_22140' => 'ppa', 'Pp3c4_8159' => 'ppa', 'Pp3c4_8171' => 'ppa', 'Pp3c4_8330' => 'ppa', 'PRCOL_00004098' => 'pco', 'Prupe.1G013900' => 'ppe', 'Prupe.1G226300' => 'ppe', 'Prupe.1G573600' => 'ppe', 'Prupe.6G130100' => 'ppe', 'Psat3g090040' => 'psa', 'Psat4g210440' => 'psa', 'Psat6g231040' => 'psa', 'Psat6g231080' => 'psa', 'Psat7g063000' => 'psa', 'Psat7g188000' => 'psa', 'Psat7g188040' => 'psa', 'PSO017G0206' => 'pso', 'PSO170G0501' => 'pso', 'PSO170G6422' => 'pso', 'PSO210G7739' => 'pso', 'PSO339G1808' => 'pso', 'PSO339G6135' => 'pso', 'PSO384G0010' => 'pso', 'PSO384G0964' => 'pso', 'PSO761G0050' => 'pso', 'PSO782G4085' => 'pso', 'QL01p012264' => 'qlo', 'QL02p099491' => 'qlo', 'QL03p033868' => 'qlo', 'QL04p046678' => 'qlo', 'QL06p002448' => 'qlo', 'RcHm_v2.0_Chr4g0416181' => 'rch', 'RcHm_v2.0_Chr5g0044701' => 'rch', 'RcHm_v2.0_Chr6g0265781' => 'rch', 'RcHm_v2.0_Chr7g0221031' => 'rch', 'Rhsim04G0202000' => 'rsi', 'Rhsim11G0127300' => 'rsi', 'Rhsim13G0111800' => 'rsi', 'Sabra01G0165600' => 'sbr', 'Sabra03G0008300' => 'sbr', 'Sabra04G0136900' => 'sbr', 'Sabra08G0013400' => 'sbr', 'Sabra08G0116800' => 'sbr', 'Sabra09G0128000' => 'sbr', 'Sabra10G0055500' => 'sbr', 'Sabra10G0073300' => 'sbr', 'SalBow3G0385' => 'sbo', 'SalBow3G1119' => 'sbo', 'SalBow3G2005' => 'sbo', 'SalBow6G2563' => 'sbo', 'SalBow6G6386' => 'sbo', 'Sc06g0008800' => 'sci', 'Sc07g0004950' => 'sci', 'Sc09g0005340' => 'sci', 'Sc13g0004410' => 'sci', 'Sc21g0007090' => 'sci', 'Sed0009285' => 'sed', 'Sed0017583' => 'sed', 'Sed0019699' => 'sed', 'Sed0023107' => 'sed', 'SEGI_10916' => 'sgi', 'SEGI_16217' => 'sgi', 'SEGI_19466' => 'sgi', 'SEGI_41115' => 'sgi', 'SGA_v2.0_scaffold111G31534' => 'sas', 'SGA_v2.0_scaffold22G09864' => 'sas', 'SGA_v2.0_scaffold338G49219' => 'sas', 'SGA_v2.0_scaffold92G28298' => 'sas', 'SMO119G0064' => 'smo', 'SMO223G0038' => 'smo', 'SMO347G0584' => 'smo', 'SMO351G0010' => 'smo', 'SMO356G0404' => 'smo', 'Solyc01g103920.3' => 'sly', 'Solyc04g009710.2' => 'sly', 'Solyc05g055280.2' => 'sly', 'Solyc10g044520.3' => 'sly', 'Solyc10g075160.1' => 'sly', 'Solyc11g006910.3' => 'sly', 'Solyc11g068430.3' => 'sly', 'Sopen01g046310' => 'spe', 'Sopen03g001200' => 'spe', 'Sopen04g004830' => 'spe', 'Sopen05g033720' => 'spe', 'Sopen06g030740' => 'spe', 'Sopen10g013090' => 'spe', 'Sopen10g027630' => 'spe', 'Sopen10g027640' => 'spe', 'Sopen11g002820' => 'spe', 'Sopen11g027140' => 'spe', 'Sp1g09680' => 'spa', 'Sp2g03630' => 'spa', 'Sp4g10320' => 'spa', 'Sp6g33400' => 'spa', 'Sp7g13030' => 'spa', 'TAR365G0317' => 'tar', 'TAR376G0979' => 'tar', 'TAR623G1665' => 'tar', 'TAR633G2373' => 'tar', 'TAR636G1400' => 'tar', 'THA.LOC104800529' => 'tha', 'THA.LOC104808547' => 'tha', 'THA.LOC104809615' => 'tha', 'THA.LOC104815724' => 'tha', 'THA.LOC104818480' => 'tha', 'THA.LOC104819179' => 'tha', 'THA.LOC104822270' => 'tha', 'THA.LOC104826425' => 'tha', 'Thecc.02G089700' => 'tca', 'Thecc.04G232300' => 'tca', 'Thecc.09G283400' => 'tca', 'Thhalv10009020m.g' => 'esa', 'Thhalv10015506m.g' => 'esa', 'Thhalv10017364m.g' => 'esa', 'Thhalv10023742m.g' => 'esa', 'Thhalv10026483m.g' => 'esa', 'TPR.G17232' => 'tpr', 'TPR.G2133' => 'tpr', 'TPR.G2498' => 'tpr', 'TPR.G31942' => 'tpr', 'TPR.G37877' => 'tpr', 'TPR.G4571' => 'tpr', 'TWI14G1113' => 'twi', 'TWI15G0426' => 'twi', 'TWI31G1005' => 'twi', 'TWI38G0513' => 'twi', 'TWI38G1484' => 'twi', 'TWI73G1098' => 'twi', 'unitig_26.g10519' => 'ugi', 'unitig_736.g22395' => 'ugi', 'unitig_747.g21234' => 'ugi', 'unitig_747.g21942' => 'ugi', 'vmacro14351' => 'vma', 'VMungo0540G0082' => 'vmu', 'VMungo0540G0405' => 'vmu', 'VMungo0540G1486' => 'vmu', 'VMungo0540G1692' => 'vmu', 'VMungo0720G2473' => 'vmu', 'VMungo1127G1562' => 'vmu', 'VMungo1215G1918' => 'vmu', 'Zm00001eb052650' => 'zma', 'Zm00001eb063710' => 'zma', 'Zm00001eb083950' => 'zma', 'Zm00001eb174420' => 'zma', 'Zm00001eb260140' => 'zma', 'Zm00001eb260150' => 'zma', 'Zm00001eb260160' => 'zma', 'Zm00001eb348290' => 'zma', 'Zm00001eb366870' => 'zma', 'Zm00001eb421930' => 'zma' ) $gf_id = 'HOM05D001025' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001025' ) $data_identifier = 'HOM05D001025' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 19, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 2, 'amhyb' => (int) 4, 'aly' => (int) 4, 'aox' => (int) 4, 'arhy' => (int) 3, 'ath' => (int) 5, 'atr' => (int) 4, 'acertr' => (int) 3, 'cqu' => (int) 7, 'bca' => (int) 17, 'bol' => (int) 10, 'bra' => (int) 9, 'can' => (int) 10, 'cansat' => (int) 6, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 5, 'cbr' => (int) 5, 'ccan' => (int) 5, 'cde' => (int) 4, 'cfa' => (int) 3, 'ccl' => (int) 6, 'cil' => (int) 4, 'cla' => (int) 3, 'col' => (int) 3, 'cpa' => (int) 3, 'cre' => (int) 7, 'csa' => (int) 5, 'camsi' => (int) 9, 'dca' => (int) 4, 'din' => (int) 5, 'dzi' => (int) 7, 'eca' => (int) 6, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 12, 'fve' => (int) 4, 'gma' => (int) 12, 'ghi' => (int) 17, 'gra' => (int) 9, 'vvi' => (int) 2, 'han' => (int) 8, 'cav' => (int) 5, 'hma' => (int) 9, 'vpl' => (int) 4, 'sun' => (int) 2, 'lal' => (int) 9, 'lja' => (int) 5, 'lonja' => (int) 6, 'lsa' => (int) 3, 'mes' => (int) 8, 'mpo' => (int) 3, 'mbi' => (int) 4, 'mco' => (int) 3, 'mdo' => (int) 5, 'mtr' => (int) 7, 'cme' => (int) 6, 'egut' => (int) 7, 'ama' => (int) 3, 'nta' => (int) 12, 'nnu' => (int) 9, 'oeu' => (int) 4, 'osa' => (int) 7, 'pax' => (int) 9, 'pgr' => (int) 5, 'stu' => (int) 8, 'pvu' => (int) 6, 'ptr' => (int) 9, 'ppa' => (int) 9, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 7, 'pso' => (int) 10, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 3, 'sbr' => (int) 8, 'sbo' => (int) 5, 'sci' => (int) 5, 'sed' => (int) 4, 'sgi' => (int) 4, 'sas' => (int) 4, 'smo' => (int) 5, 'sly' => (int) 7, 'spe' => (int) 10, 'spa' => (int) 5, 'tar' => (int) 5, 'tha' => (int) 8, 'tca' => (int) 3, 'esa' => (int) 5, 'tpr' => (int) 6, 'twi' => (int) 6, 'ugi' => (int) 4, 'vma' => (int) 1, 'vmu' => (int) 7, 'zma' => (int) 10 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb421930' $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' => 'HOM05D001025', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '592', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p22650' => 'bna', 'A01p29720' => 'bna', 'A03p26560' => 'bna', 'A03p68820' => 'bna', 'A04p20980' => 'bna', 'A06p07730' => 'bna', 'A07p18260' => 'bna', 'A08p33710' => 'bna', 'A09p16970' => 'bna', 'A10p27490' => 'bna', 'Aa31LG1G17300' => 'aar', 'Aa31LG1G3910' => 'aar', 'Aa31LG2G9630' => 'aar', 'Aa31LG5G8360' => 'aar', 'Aa31LG9G2410' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4699' => 'aag', 'Actinidia23512' => 'ach', 'Actinidia37080' => 'ach', 'Ah.01g020380' => 'amhyb', 'Ah.08g215710' => 'amhyb', 'Ah.09g225110' => 'amhyb', 'Ah.10g036680' => 'amhyb', 'AL1G21940' => 'aly', 'AL2G15540' => 'aly', 'AL4G21520' => 'aly', 'AL7G40960' => 'aly', 'Aqoxy2G01191' => 'aox', 'Aqoxy2G03393' => 'aox', 'Aqoxy4G02775' => 'aox', 'Aqoxy6G00058' => 'aox', 'arahy.Tifrunner.gnm1.ann1.9X74H2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CW3FX9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R485W7' => 'arhy', 'AT1G10960' => 'ath', 'AT1G60950' => 'ath', 'AT2G27510' => 'ath', 'AT4G14890' => 'ath', 'AT5G10000' => 'ath', 'ATR0665G624' => 'atr', 'ATR0697G138' => 'atr', 'ATR0776G046' => 'atr', 'ATR1134G135' => 'atr', 'Atru.chr12.1025' => 'acertr', 'Atru.chr3.3241' => 'acertr', 'Atru.chr4.2460' => 'acertr', 'AUR62007427' => 'cqu', 'AUR62010960' => 'cqu', 'AUR62012201' => 'cqu', 'AUR62021470' => 'cqu', 'AUR62022834' => 'cqu', 'AUR62033635' => 'cqu', 'AUR62036186' => 'cqu', 'BcaB01g03077' => 'bca', 'BcaB02g10093' => 'bca', 'BcaB04g20295' => 'bca', 'BcaB06g28147' => 'bca', 'BcaB07g31253' => 'bca', 'BcaC01g04946' => 'bca', 'BcaC02g10614' => 'bca', 'BcaC02g10885' => 'bca', 'BcaC04g19356' => 'bca', 'BcaC04g22297' => 'bca', 'BcaC05g24977' => 'bca', 'BcaC06g31823' => 'bca', 'BcaC07g38633' => 'bca', 'BcaC09g49353' => 'bca', 'BcaC09g50168' => 'bca', 'BcaNung00322' => 'bca', 'BcaNung04769' => 'bca', 'BolC1t02753H' => 'bol', 'BolC1t03721H' => 'bol', 'BolC3t15525H' => 'bol', 'BolC4t23903H' => 'bol', 'BolC4t24231H' => 'bol', 'BolC4t27209H' => 'bol', 'BolC5t29671H' => 'bol', 'BolC8t49044H' => 'bol', 'BolC9t54999H' => 'bol', 'BolC9t59517H' => 'bol', 'BraA01t02178Z' => 'bra', 'BraA01t03099Z' => 'bra', 'BraA03t11867Z' => 'bra', 'BraA04t17667Z' => 'bra', 'BraA07t29542Z' => 'bra', 'BraA08t35287Z' => 'bra', 'BraA09t37334Z' => 'bra', 'BraA10t44801Z' => 'bra', 'BraSC39t46181Z' => 'bra', 'C01p28240' => 'bna', 'C01p37530' => 'bna', 'C03p31820' => 'bna', 'C04p24080' => 'bna', 'C04p25790' => 'bna', 'C04p56770' => 'bna', 'C05p09310' => 'bna', 'C09p21010' => 'bna', 'C09p67560' => 'bna', 'CAN.G1324.7' => 'can', 'CAN.G1358.10' => 'can', 'CAN.G1550.2' => 'can', 'CAN.G186.56' => 'can', 'CAN.G1965.1' => 'can', 'CAN.G645.15' => 'can', 'CAN.G798.26' => 'can', 'CAN.G798.27' => 'can', 'CAN.G798.29' => 'can', 'CAN.G919.31' => 'can', 'CANSAT11G0133' => 'cansat', 'CANSAT11G1171' => 'cansat', 'CANSAT11G2056' => 'cansat', 'CANSAT56G1202' => 'cansat', 'CANSAT56G1514' => 'cansat', 'CANSAT78G0455' => 'cansat', 'CARHR011190' => 'chi', 'CARHR051980' => 'chi', 'CARHR120170' => 'chi', 'CARHR203310' => 'chi', 'CARHR221490' => 'chi', 'Carub.0001s1054' => 'cru', 'Carub.0002s0431' => 'cru', 'Carub.0004s0818' => 'cru', 'Carub.0006s0846' => 'cru', 'Carub.0007s2722' => 'cru', 'Ca_00058_v3' => 'car', 'Ca_17831_v3' => 'car', 'Ca_19408_v3' => 'car', 'Ca_24397_v3' => 'car', 'Ca_25664_v3' => 'car', 'CBR_g21818' => 'cbr', 'CBR_g31195' => 'cbr', 'CBR_g32282' => 'cbr', 'CBR_g39599' => 'cbr', 'CBR_g49410' => 'cbr', 'Cc01_g09120' => 'ccan', 'Cc01_g09130' => 'ccan', 'Cc02_g09630' => 'ccan', 'Cc02_g22810' => 'ccan', 'Cc03_g03810' => 'ccan', 'CDE02G3718' => 'cde', 'CDE04G3183' => 'cde', 'CDE07G1046' => 'cde', 'CDE08G0480' => 'cde', 'Cfa005493' => 'cfa', 'Cfa010312' => 'cfa', 'Cfa015648' => 'cfa', 'Ciclev10002793m.g' => 'ccl', 'Ciclev10003356m.g' => 'ccl', 'Ciclev10006141m.g' => 'ccl', 'Ciclev10016676m.g' => 'ccl', 'Ciclev10017081m.g' => 'ccl', 'Ciclev10029499m.g' => 'ccl', 'CiPaw.01G166300' => 'cil', 'CiPaw.06G145600' => 'cil', 'CiPaw.13G040100' => 'cil', 'CiPaw.13G135800' => 'cil', 'ClCG01G012230' => 'cla', 'ClCG05G009510' => 'cla', 'ClCG08G008270' => 'cla', 'COL.COLO4_11763' => 'col', 'COL.COLO4_19876' => 'col', 'COL.COLO4_21481' => 'col', 'Cpa.g.sc118.34' => 'cpa', 'Cpa.g.sc32.13' => 'cpa', 'Cpa.g.sc58.103' => 'cpa', 'Cre03.g183850' => 'cre', 'Cre06.g306350' => 'cre', 'Cre07.g334800' => 'cre', 'Cre12.g487900' => 'cre', 'Cre14.g626700' => 'cre', 'Cre16.g658400' => 'cre', 'Cre17.g700950' => 'cre', 'CsaV3_1G014830' => 'csa', 'CsaV3_3G013320' => 'csa', 'CsaV3_3G019210' => 'csa', 'CsaV3_3G019220' => 'csa', 'CsaV3_6G004230' => 'csa', 'CSS0003773' => 'camsi', 'CSS0004563' => 'camsi', 'CSS0013949' => 'camsi', 'CSS0025971' => 'camsi', 'CSS0028570' => 'camsi', 'CSS0033127' => 'camsi', 'CSS0036051' => 'camsi', 'CSS0040087' => 'camsi', 'CSS0043179' => 'camsi', 'DCAR_006161' => 'dca', 'DCAR_010351' => 'dca', 'DCAR_012197' => 'dca', 'DCAR_024162' => 'dca', 'Dinv01030' => 'din', 'Dinv10924' => 'din', 'Dinv11835' => 'din', 'Dinv22841' => 'din', 'Dinv42553' => 'din', 'Duzib052G0560' => 'dzi', 'Duzib132G0389' => 'dzi', 'Duzib150G1181' => 'dzi', 'Duzib168G0623' => 'dzi', 'Duzib170G1036' => 'dzi', 'Duzib212G0200' => 'dzi', 'Duzib248G0194' => 'dzi', 'ECA232G2193' => 'eca', 'ECA233G0302' => 'eca', 'ECA234G2813' => 'eca', 'ECA234G4866' => 'eca', 'ECA240G3932' => 'eca', 'ECA248G0385' => 'eca', 'EL10Ac2g04781' => 'bvu', 'EL10Ac3g06445' => 'bvu', 'EL10Ac7g15825' => 'bvu', 'EL10Ac8g18550' => 'bvu', 'Eucgr.B03849' => 'egr', 'Eucgr.I02744' => 'egr', 'Eucgr.J00264' => 'egr', 'Eucgr.J00493' => 'egr', 'FAN04G2181' => 'fan', 'FAN07G2666' => 'fan', 'FAN11G0024' => 'fan', 'FAN12G1105' => 'fan', 'FAN13G0302' => 'fan', 'FAN15G2781' => 'fan', 'FAN16G1274' => 'fan', 'FAN17G2988' => 'fan', 'FAN18G2621' => 'fan', 'FAN21G0013' => 'fan', 'FAN22G1211' => 'fan', 'FAN25G3626' => 'fan', 'FvH4_2g09491' => 'fve', 'FvH4_3g24910' => 'fve', 'FvH4_4g15630' => 'fve', 'FvH4_5g28820' => 'fve', 'Glyma.01G238000' => 'gma', 'Glyma.05G168400' => 'gma', 'Glyma.08G126800' => 'gma', 'Glyma.08G188500' => 'gma', 'Glyma.10G278900' => 'gma', 'Glyma.11G005700' => 'gma', 'Glyma.11G183300' => 'gma', 'Glyma.12G089200' => 'gma', 'Glyma.12G169400' => 'gma', 'Glyma.12G169500' => 'gma', 'Glyma.12G169600' => 'gma', 'Glyma.20G110800' => 'gma', 'Gohir.A03G192900' => 'ghi', 'Gohir.A03G193000' => 'ghi', 'Gohir.A05G080700' => 'ghi', 'Gohir.A09G216000' => 'ghi', 'Gohir.A12G027700' => 'ghi', 'Gohir.A13G036200' => 'ghi', 'Gohir.A13G222600' => 'ghi', 'Gohir.D02G213900' => 'ghi', 'Gohir.D02G214000' => 'ghi', 'Gohir.D05G083700' => 'ghi', 'Gohir.D05G083800' => 'ghi', 'Gohir.D05G083850' => 'ghi', 'Gohir.D08G015400' => 'ghi', 'Gohir.D09G218400' => 'ghi', 'Gohir.D12G027100' => 'ghi', 'Gohir.D13G034500' => 'ghi', 'Gohir.D13G227400' => 'ghi', 'Gorai.005G241800' => 'gra', 'Gorai.005G241900' => 'gra', 'Gorai.006G239400' => 'gra', 'Gorai.008G027600' => 'gra', 'Gorai.009G085400' => 'gra', 'Gorai.009G085500' => 'gra', 'Gorai.013G039000' => 'gra', 'Gorai.013G194800' => 'gra', 'Gorai.013G257900' => 'gra', 'GSVIVG01000982001' => 'vvi', 'GSVIVG01017981001' => 'vvi', 'HanXRQChr01g0024061' => 'han', 'HanXRQChr09g0247831' => 'han', 'HanXRQChr10g0294611' => 'han', 'HanXRQChr10g0294621' => 'han', 'HanXRQChr11g0346821' => 'han', 'HanXRQChr13g0397461' => 'han', 'HanXRQChr16g0513651' => 'han', 'HanXRQChr16g0513701' => 'han', 'Haze_00897' => 'cav', 'Haze_01745' => 'cav', 'Haze_02486' => 'cav', 'Haze_02487' => 'cav', 'Haze_23374' => 'cav', 'Hma1.2p1_0578F.1_g182520' => 'hma', 'Hma1.2p1_0602F.1_g187350' => 'hma', 'Hma1.2p1_0602F.1_g187360' => 'hma', 'Hma1.2p1_0874F.1_g231320' => 'hma', 'Hma1.2p1_1197F.1_g266210' => 'hma', 'Hma1.2p1_1197F.1_g266220' => 'hma', 'Hma1.2p1_2167F.1_g315895' => 'hma', 'Hma1.2p1_2190F.1_g316640' => 'hma', 'Hma1.2p1_3645F.1_g337153' => 'hma', 'HPP92_004907' => 'vpl', 'HPP92_012134' => 'vpl', 'HPP92_025136' => 'vpl', 'HPP92_026087' => 'vpl', 'Hund06782' => 'sun', 'Hund06784' => 'sun', 'Lalb_Chr01g0004861' => 'lal', 'Lalb_Chr02g0140591' => 'lal', 'Lalb_Chr02g0140611' => 'lal', 'Lalb_Chr03g0028101' => 'lal', 'Lalb_Chr07g0185791' => 'lal', 'Lalb_Chr12g0204491' => 'lal', 'Lalb_Chr13g0295671' => 'lal', 'Lalb_Chr19g0136461' => 'lal', 'Lalb_Chr21g0309191' => 'lal', 'Lj1g0028158' => 'lja', 'Lj1P236T38' => 'lonja', 'Lj2C32G2' => 'lonja', 'Lj2P944T8' => 'lonja', 'Lj2P963T15' => 'lonja', 'Lj3g0011788' => 'lja', 'Lj4g0025027' => 'lja', 'Lj5P255T36' => 'lonja', 'Lj6g0018866' => 'lja', 'Lj6P608T31' => 'lonja', 'LjContig00408g0008879' => 'lja', 'Lsat_1_v5_gn_5_105820' => 'lsa', 'Lsat_1_v5_gn_6_38800' => 'lsa', 'Lsat_1_v5_gn_7_67141' => 'lsa', 'Manes.04G003400' => 'mes', 'Manes.07G020000' => 'mes', 'Manes.07G020100' => 'mes', 'Manes.07G020150' => 'mes', 'Manes.10G061500' => 'mes', 'Manes.10G123200' => 'mes', 'Manes.11G161900' => 'mes', 'Manes.15G029300' => 'mes', 'Mapoly0071s0018' => 'mpo', 'Mapoly0082s0023' => 'mpo', 'Mapoly3477s0001' => 'mpo', 'MBI05_g31233_MAGBIO' => 'mbi', 'MBI09_g05946_MAGBIO' => 'mbi', 'MBI09_g05947_MAGBIO' => 'mbi', 'MBI17_g08346_MAGBIO' => 'mbi', 'MCO04G038' => 'mco', 'MCO09G370' => 'mco', 'MCO13G605' => 'mco', 'MD00G1075500' => 'mdo', 'MD03G1144300' => 'mdo', 'MD08G1236800' => 'mdo', 'MD13G1193300' => 'mdo', 'MD15G1428700' => 'mdo', 'Medtr1g112030' => 'mtr', 'Medtr1g112050' => 'mtr', 'Medtr2g006290' => 'mtr', 'Medtr2g086510' => 'mtr', 'Medtr4g053120' => 'mtr', 'Medtr5g006320' => 'mtr', 'Medtr8g088720' => 'mtr', 'MELO3C004712.2' => 'cme', 'MELO3C006533.2' => 'cme', 'MELO3C019438.2' => 'cme', 'MELO3C019440.2' => 'cme', 'MELO3C019441.2' => 'cme', 'MELO3C019895.2' => 'cme', 'Migut.B00811' => 'egut', 'Migut.D02447' => 'egut', 'Migut.F00875' => 'egut', 'Migut.N00186' => 'egut', 'Migut.N01051' => 'egut', 'Migut.N02491' => 'egut', 'Migut.O00784' => 'egut', 'MSTRG.12367' => 'ama', 'MSTRG.18756' => 'ama', 'MSTRG.21042' => 'ama', 'Nitab4.5_0000559g0040' => 'nta', 'Nitab4.5_0000667g0190' => 'nta', 'Nitab4.5_0000755g0160' => 'nta', 'Nitab4.5_0001216g0080' => 'nta', 'Nitab4.5_0004069g0040' => 'nta', 'Nitab4.5_0004129g0010' => 'nta', 'Nitab4.5_0005744g0030' => 'nta', 'Nitab4.5_0006996g0030' => 'nta', 'Nitab4.5_0008971g0040' => 'nta', 'Nitab4.5_0009769g0020' => 'nta', 'Nitab4.5_0009833g0010' => 'nta', 'Nitab4.5_0013140g0020' => 'nta', 'Nn003s41376' => 'nnu', 'Nn1g01857' => 'nnu', 'Nn1g03611' => 'nnu', 'Nn1g06853' => 'nnu', 'Nn3g18360' => 'nnu', 'Nn4g26328' => 'nnu', 'Nn5g27531' => 'nnu', 'Nn6g34899' => 'nnu', 'Nn7g36299' => 'nnu', 'Oeu021485.1' => 'oeu', 'Oeu022433.1' => 'oeu', 'Oeu032111.1' => 'oeu', 'Oeu051608.1' => 'oeu', 'Os01g0860601' => 'osa', 'Os03g0659200' => 'osa', 'Os03g0835900' => 'osa', 'Os04g0412200' => 'osa', 'Os05g0443500' => 'osa', 'Os07g0251500' => 'osa', 'Os08g0104600' => 'osa', 'Peaxi162Scf00003g00047' => 'pax', 'Peaxi162Scf00003g00052' => 'pax', 'Peaxi162Scf00003g00394' => 'pax', 'Peaxi162Scf00091g00621' => 'pax', 'Peaxi162Scf00152g00146' => 'pax', 'Peaxi162Scf00173g00025' => 'pax', 'Peaxi162Scf00195g00102' => 'pax', 'Peaxi162Scf00402g00013' => 'pax', 'Peaxi162Scf00519g00618' => 'pax', 'PGR004G2838' => 'pgr', 'PGR044G2275' => 'pgr', 'PGR102G1377' => 'pgr', 'PGR119G1245' => 'pgr', 'PGR142G4449' => 'pgr', 'PGSC0003DMG400004532' => 'stu', 'PGSC0003DMG400011950' => 'stu', 'PGSC0003DMG400023391' => 'stu', 'PGSC0003DMG400023985' => 'stu', 'PGSC0003DMG400026360' => 'stu', 'PGSC0003DMG400035711' => 'stu', 'PGSC0003DMG400037286' => 'stu', 'PGSC0003DMG402005881' => 'stu', 'Phvul.002G045400' => 'pvu', 'Phvul.006G216600' => 'pvu', 'Phvul.006G216700' => 'pvu', 'Phvul.006G216800' => 'pvu', 'Phvul.007G022500' => 'pvu', 'Phvul.011G094400' => 'pvu', 'Potri.001G470700' => 'ptr', 'Potri.003G015200' => 'ptr', 'Potri.004G202500' => 'ptr', 'Potri.004G218400' => 'ptr', 'Potri.008G020100' => 'ptr', 'Potri.008G153200' => 'ptr', 'Potri.009G163800' => 'ptr', 'Potri.010G087300' => 'ptr', 'Potri.010G239100' => 'ptr', 'Pp3c10_16100' => 'ppa', 'Pp3c10_16880' => 'ppa', 'Pp3c16_6230' => 'ppa', 'Pp3c17_18910' => 'ppa', 'Pp3c3_22119' => 'ppa', 'Pp3c3_22140' => 'ppa', 'Pp3c4_8159' => 'ppa', 'Pp3c4_8171' => 'ppa', 'Pp3c4_8330' => 'ppa', 'PRCOL_00004098' => 'pco', 'Prupe.1G013900' => 'ppe', 'Prupe.1G226300' => 'ppe', 'Prupe.1G573600' => 'ppe', 'Prupe.6G130100' => 'ppe', 'Psat3g090040' => 'psa', 'Psat4g210440' => 'psa', 'Psat6g231040' => 'psa', 'Psat6g231080' => 'psa', 'Psat7g063000' => 'psa', 'Psat7g188000' => 'psa', 'Psat7g188040' => 'psa', 'PSO017G0206' => 'pso', 'PSO170G0501' => 'pso', 'PSO170G6422' => 'pso', 'PSO210G7739' => 'pso', 'PSO339G1808' => 'pso', 'PSO339G6135' => 'pso', 'PSO384G0010' => 'pso', 'PSO384G0964' => 'pso', 'PSO761G0050' => 'pso', 'PSO782G4085' => 'pso', 'QL01p012264' => 'qlo', 'QL02p099491' => 'qlo', 'QL03p033868' => 'qlo', 'QL04p046678' => 'qlo', 'QL06p002448' => 'qlo', 'RcHm_v2.0_Chr4g0416181' => 'rch', 'RcHm_v2.0_Chr5g0044701' => 'rch', 'RcHm_v2.0_Chr6g0265781' => 'rch', 'RcHm_v2.0_Chr7g0221031' => 'rch', 'Rhsim04G0202000' => 'rsi', 'Rhsim11G0127300' => 'rsi', 'Rhsim13G0111800' => 'rsi', 'Sabra01G0165600' => 'sbr', 'Sabra03G0008300' => 'sbr', 'Sabra04G0136900' => 'sbr', 'Sabra08G0013400' => 'sbr', 'Sabra08G0116800' => 'sbr', 'Sabra09G0128000' => 'sbr', 'Sabra10G0055500' => 'sbr', 'Sabra10G0073300' => 'sbr', 'SalBow3G0385' => 'sbo', 'SalBow3G1119' => 'sbo', 'SalBow3G2005' => 'sbo', 'SalBow6G2563' => 'sbo', 'SalBow6G6386' => 'sbo', 'Sc06g0008800' => 'sci', 'Sc07g0004950' => 'sci', 'Sc09g0005340' => 'sci', 'Sc13g0004410' => 'sci', 'Sc21g0007090' => 'sci', 'Sed0009285' => 'sed', 'Sed0017583' => 'sed', 'Sed0019699' => 'sed', 'Sed0023107' => 'sed', 'SEGI_10916' => 'sgi', 'SEGI_16217' => 'sgi', 'SEGI_19466' => 'sgi', 'SEGI_41115' => 'sgi', 'SGA_v2.0_scaffold111G31534' => 'sas', 'SGA_v2.0_scaffold22G09864' => 'sas', 'SGA_v2.0_scaffold338G49219' => 'sas', 'SGA_v2.0_scaffold92G28298' => 'sas', 'SMO119G0064' => 'smo', 'SMO223G0038' => 'smo', 'SMO347G0584' => 'smo', 'SMO351G0010' => 'smo', 'SMO356G0404' => 'smo', 'Solyc01g103920.3' => 'sly', 'Solyc04g009710.2' => 'sly', 'Solyc05g055280.2' => 'sly', 'Solyc10g044520.3' => 'sly', 'Solyc10g075160.1' => 'sly', 'Solyc11g006910.3' => 'sly', 'Solyc11g068430.3' => 'sly', 'Sopen01g046310' => 'spe', 'Sopen03g001200' => 'spe', 'Sopen04g004830' => 'spe', 'Sopen05g033720' => 'spe', 'Sopen06g030740' => 'spe', 'Sopen10g013090' => 'spe', 'Sopen10g027630' => 'spe', 'Sopen10g027640' => 'spe', 'Sopen11g002820' => 'spe', 'Sopen11g027140' => 'spe', 'Sp1g09680' => 'spa', 'Sp2g03630' => 'spa', 'Sp4g10320' => 'spa', 'Sp6g33400' => 'spa', 'Sp7g13030' => 'spa', 'TAR365G0317' => 'tar', 'TAR376G0979' => 'tar', 'TAR623G1665' => 'tar', 'TAR633G2373' => 'tar', 'TAR636G1400' => 'tar', 'THA.LOC104800529' => 'tha', 'THA.LOC104808547' => 'tha', 'THA.LOC104809615' => 'tha', 'THA.LOC104815724' => 'tha', 'THA.LOC104818480' => 'tha', 'THA.LOC104819179' => 'tha', 'THA.LOC104822270' => 'tha', 'THA.LOC104826425' => 'tha', 'Thecc.02G089700' => 'tca', 'Thecc.04G232300' => 'tca', 'Thecc.09G283400' => 'tca', 'Thhalv10009020m.g' => 'esa', 'Thhalv10015506m.g' => 'esa', 'Thhalv10017364m.g' => 'esa', 'Thhalv10023742m.g' => 'esa', 'Thhalv10026483m.g' => 'esa', 'TPR.G17232' => 'tpr', 'TPR.G2133' => 'tpr', 'TPR.G2498' => 'tpr', 'TPR.G31942' => 'tpr', 'TPR.G37877' => 'tpr', 'TPR.G4571' => 'tpr', 'TWI14G1113' => 'twi', 'TWI15G0426' => 'twi', 'TWI31G1005' => 'twi', 'TWI38G0513' => 'twi', 'TWI38G1484' => 'twi', 'TWI73G1098' => 'twi', 'unitig_26.g10519' => 'ugi', 'unitig_736.g22395' => 'ugi', 'unitig_747.g21234' => 'ugi', 'unitig_747.g21942' => 'ugi', 'vmacro14351' => 'vma', 'VMungo0540G0082' => 'vmu', 'VMungo0540G0405' => 'vmu', 'VMungo0540G1486' => 'vmu', 'VMungo0540G1692' => 'vmu', 'VMungo0720G2473' => 'vmu', 'VMungo1127G1562' => 'vmu', 'VMungo1215G1918' => 'vmu', 'Zm00001eb052650' => 'zma', 'Zm00001eb063710' => 'zma', 'Zm00001eb083950' => 'zma', 'Zm00001eb174420' => 'zma', 'Zm00001eb260140' => 'zma', 'Zm00001eb260150' => 'zma', 'Zm00001eb260160' => 'zma', 'Zm00001eb348290' => 'zma', 'Zm00001eb366870' => 'zma', 'Zm00001eb421930' => 'zma' ), 'gf_id' => 'HOM05D001025', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001025' ), 'data_identifier' => 'HOM05D001025', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001025', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '592', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p22650' => 'bna', 'A01p29720' => 'bna', 'A03p26560' => 'bna', 'A03p68820' => 'bna', 'A04p20980' => 'bna', 'A06p07730' => 'bna', 'A07p18260' => 'bna', 'A08p33710' => 'bna', 'A09p16970' => 'bna', 'A10p27490' => 'bna', 'Aa31LG1G17300' => 'aar', 'Aa31LG1G3910' => 'aar', 'Aa31LG2G9630' => 'aar', 'Aa31LG5G8360' => 'aar', 'Aa31LG9G2410' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4699' => 'aag', 'Actinidia23512' => 'ach', 'Actinidia37080' => 'ach', 'Ah.01g020380' => 'amhyb', 'Ah.08g215710' => 'amhyb', 'Ah.09g225110' => 'amhyb', 'Ah.10g036680' => 'amhyb', 'AL1G21940' => 'aly', 'AL2G15540' => 'aly', 'AL4G21520' => 'aly', 'AL7G40960' => 'aly', 'Aqoxy2G01191' => 'aox', 'Aqoxy2G03393' => 'aox', 'Aqoxy4G02775' => 'aox', 'Aqoxy6G00058' => 'aox', 'arahy.Tifrunner.gnm1.ann1.9X74H2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CW3FX9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R485W7' => 'arhy', 'AT1G10960' => 'ath', 'AT1G60950' => 'ath', 'AT2G27510' => 'ath', 'AT4G14890' => 'ath', 'AT5G10000' => 'ath', 'ATR0665G624' => 'atr', 'ATR0697G138' => 'atr', 'ATR0776G046' => 'atr', 'ATR1134G135' => 'atr', 'Atru.chr12.1025' => 'acertr', 'Atru.chr3.3241' => 'acertr', 'Atru.chr4.2460' => 'acertr', 'AUR62007427' => 'cqu', 'AUR62010960' => 'cqu', 'AUR62012201' => 'cqu', 'AUR62021470' => 'cqu', 'AUR62022834' => 'cqu', 'AUR62033635' => 'cqu', 'AUR62036186' => 'cqu', 'BcaB01g03077' => 'bca', 'BcaB02g10093' => 'bca', 'BcaB04g20295' => 'bca', 'BcaB06g28147' => 'bca', 'BcaB07g31253' => 'bca', 'BcaC01g04946' => 'bca', 'BcaC02g10614' => 'bca', 'BcaC02g10885' => 'bca', 'BcaC04g19356' => 'bca', 'BcaC04g22297' => 'bca', 'BcaC05g24977' => 'bca', 'BcaC06g31823' => 'bca', 'BcaC07g38633' => 'bca', 'BcaC09g49353' => 'bca', 'BcaC09g50168' => 'bca', 'BcaNung00322' => 'bca', 'BcaNung04769' => 'bca', 'BolC1t02753H' => 'bol', 'BolC1t03721H' => 'bol', 'BolC3t15525H' => 'bol', 'BolC4t23903H' => 'bol', 'BolC4t24231H' => 'bol', 'BolC4t27209H' => 'bol', 'BolC5t29671H' => 'bol', 'BolC8t49044H' => 'bol', 'BolC9t54999H' => 'bol', 'BolC9t59517H' => 'bol', 'BraA01t02178Z' => 'bra', 'BraA01t03099Z' => 'bra', 'BraA03t11867Z' => 'bra', 'BraA04t17667Z' => 'bra', 'BraA07t29542Z' => 'bra', 'BraA08t35287Z' => 'bra', 'BraA09t37334Z' => 'bra', 'BraA10t44801Z' => 'bra', 'BraSC39t46181Z' => 'bra', 'C01p28240' => 'bna', 'C01p37530' => 'bna', 'C03p31820' => 'bna', 'C04p24080' => 'bna', 'C04p25790' => 'bna', 'C04p56770' => 'bna', 'C05p09310' => 'bna', 'C09p21010' => 'bna', 'C09p67560' => 'bna', 'CAN.G1324.7' => 'can', 'CAN.G1358.10' => 'can', 'CAN.G1550.2' => 'can', 'CAN.G186.56' => 'can', 'CAN.G1965.1' => 'can', 'CAN.G645.15' => 'can', 'CAN.G798.26' => 'can', 'CAN.G798.27' => 'can', 'CAN.G798.29' => 'can', 'CAN.G919.31' => 'can', 'CANSAT11G0133' => 'cansat', 'CANSAT11G1171' => 'cansat', 'CANSAT11G2056' => 'cansat', 'CANSAT56G1202' => 'cansat', 'CANSAT56G1514' => 'cansat', 'CANSAT78G0455' => 'cansat', 'CARHR011190' => 'chi', 'CARHR051980' => 'chi', 'CARHR120170' => 'chi', 'CARHR203310' => 'chi', 'CARHR221490' => 'chi', 'Carub.0001s1054' => 'cru', 'Carub.0002s0431' => 'cru', 'Carub.0004s0818' => 'cru', 'Carub.0006s0846' => 'cru', 'Carub.0007s2722' => 'cru', 'Ca_00058_v3' => 'car', 'Ca_17831_v3' => 'car', 'Ca_19408_v3' => 'car', 'Ca_24397_v3' => 'car', 'Ca_25664_v3' => 'car', 'CBR_g21818' => 'cbr', 'CBR_g31195' => 'cbr', 'CBR_g32282' => 'cbr', 'CBR_g39599' => 'cbr', 'CBR_g49410' => 'cbr', 'Cc01_g09120' => 'ccan', 'Cc01_g09130' => 'ccan', 'Cc02_g09630' => 'ccan', 'Cc02_g22810' => 'ccan', 'Cc03_g03810' => 'ccan', 'CDE02G3718' => 'cde', 'CDE04G3183' => 'cde', 'CDE07G1046' => 'cde', 'CDE08G0480' => 'cde', 'Cfa005493' => 'cfa', 'Cfa010312' => 'cfa', 'Cfa015648' => 'cfa', 'Ciclev10002793m.g' => 'ccl', 'Ciclev10003356m.g' => 'ccl', 'Ciclev10006141m.g' => 'ccl', 'Ciclev10016676m.g' => 'ccl', 'Ciclev10017081m.g' => 'ccl', 'Ciclev10029499m.g' => 'ccl', 'CiPaw.01G166300' => 'cil', 'CiPaw.06G145600' => 'cil', 'CiPaw.13G040100' => 'cil', 'CiPaw.13G135800' => 'cil', 'ClCG01G012230' => 'cla', 'ClCG05G009510' => 'cla', 'ClCG08G008270' => 'cla', 'COL.COLO4_11763' => 'col', 'COL.COLO4_19876' => 'col', 'COL.COLO4_21481' => 'col', 'Cpa.g.sc118.34' => 'cpa', 'Cpa.g.sc32.13' => 'cpa', 'Cpa.g.sc58.103' => 'cpa', 'Cre03.g183850' => 'cre', 'Cre06.g306350' => 'cre', 'Cre07.g334800' => 'cre', 'Cre12.g487900' => 'cre', 'Cre14.g626700' => 'cre', 'Cre16.g658400' => 'cre', 'Cre17.g700950' => 'cre', 'CsaV3_1G014830' => 'csa', 'CsaV3_3G013320' => 'csa', 'CsaV3_3G019210' => 'csa', 'CsaV3_3G019220' => 'csa', 'CsaV3_6G004230' => 'csa', 'CSS0003773' => 'camsi', 'CSS0004563' => 'camsi', 'CSS0013949' => 'camsi', 'CSS0025971' => 'camsi', 'CSS0028570' => 'camsi', 'CSS0033127' => 'camsi', 'CSS0036051' => 'camsi', 'CSS0040087' => 'camsi', 'CSS0043179' => 'camsi', 'DCAR_006161' => 'dca', 'DCAR_010351' => 'dca', 'DCAR_012197' => 'dca', 'DCAR_024162' => 'dca', 'Dinv01030' => 'din', 'Dinv10924' => 'din', 'Dinv11835' => 'din', 'Dinv22841' => 'din', 'Dinv42553' => 'din', 'Duzib052G0560' => 'dzi', 'Duzib132G0389' => 'dzi', 'Duzib150G1181' => 'dzi', 'Duzib168G0623' => 'dzi', 'Duzib170G1036' => 'dzi', 'Duzib212G0200' => 'dzi', 'Duzib248G0194' => 'dzi', 'ECA232G2193' => 'eca', 'ECA233G0302' => 'eca', 'ECA234G2813' => 'eca', 'ECA234G4866' => 'eca', 'ECA240G3932' => 'eca', 'ECA248G0385' => 'eca', 'EL10Ac2g04781' => 'bvu', 'EL10Ac3g06445' => 'bvu', 'EL10Ac7g15825' => 'bvu', 'EL10Ac8g18550' => 'bvu', 'Eucgr.B03849' => 'egr', 'Eucgr.I02744' => 'egr', 'Eucgr.J00264' => 'egr', 'Eucgr.J00493' => 'egr', 'FAN04G2181' => 'fan', 'FAN07G2666' => 'fan', 'FAN11G0024' => 'fan', 'FAN12G1105' => 'fan', 'FAN13G0302' => 'fan', 'FAN15G2781' => 'fan', 'FAN16G1274' => 'fan', 'FAN17G2988' => 'fan', 'FAN18G2621' => 'fan', 'FAN21G0013' => 'fan', 'FAN22G1211' => 'fan', 'FAN25G3626' => 'fan', 'FvH4_2g09491' => 'fve', 'FvH4_3g24910' => 'fve', 'FvH4_4g15630' => 'fve', 'FvH4_5g28820' => 'fve', 'Glyma.01G238000' => 'gma', 'Glyma.05G168400' => 'gma', 'Glyma.08G126800' => 'gma', 'Glyma.08G188500' => 'gma', 'Glyma.10G278900' => 'gma', 'Glyma.11G005700' => 'gma', 'Glyma.11G183300' => 'gma', 'Glyma.12G089200' => 'gma', 'Glyma.12G169400' => 'gma', 'Glyma.12G169500' => 'gma', 'Glyma.12G169600' => 'gma', 'Glyma.20G110800' => 'gma', 'Gohir.A03G192900' => 'ghi', 'Gohir.A03G193000' => 'ghi', 'Gohir.A05G080700' => 'ghi', 'Gohir.A09G216000' => 'ghi', 'Gohir.A12G027700' => 'ghi', 'Gohir.A13G036200' => 'ghi', 'Gohir.A13G222600' => 'ghi', 'Gohir.D02G213900' => 'ghi', 'Gohir.D02G214000' => 'ghi', 'Gohir.D05G083700' => 'ghi', 'Gohir.D05G083800' => 'ghi', 'Gohir.D05G083850' => 'ghi', 'Gohir.D08G015400' => 'ghi', 'Gohir.D09G218400' => 'ghi', 'Gohir.D12G027100' => 'ghi', 'Gohir.D13G034500' => 'ghi', 'Gohir.D13G227400' => 'ghi', 'Gorai.005G241800' => 'gra', 'Gorai.005G241900' => 'gra', 'Gorai.006G239400' => 'gra', 'Gorai.008G027600' => 'gra', 'Gorai.009G085400' => 'gra', 'Gorai.009G085500' => 'gra', 'Gorai.013G039000' => 'gra', 'Gorai.013G194800' => 'gra', 'Gorai.013G257900' => 'gra', 'GSVIVG01000982001' => 'vvi', 'GSVIVG01017981001' => 'vvi', 'HanXRQChr01g0024061' => 'han', 'HanXRQChr09g0247831' => 'han', 'HanXRQChr10g0294611' => 'han', 'HanXRQChr10g0294621' => 'han', 'HanXRQChr11g0346821' => 'han', 'HanXRQChr13g0397461' => 'han', 'HanXRQChr16g0513651' => 'han', 'HanXRQChr16g0513701' => 'han', 'Haze_00897' => 'cav', 'Haze_01745' => 'cav', 'Haze_02486' => 'cav', 'Haze_02487' => 'cav', 'Haze_23374' => 'cav', 'Hma1.2p1_0578F.1_g182520' => 'hma', 'Hma1.2p1_0602F.1_g187350' => 'hma', 'Hma1.2p1_0602F.1_g187360' => 'hma', 'Hma1.2p1_0874F.1_g231320' => 'hma', 'Hma1.2p1_1197F.1_g266210' => 'hma', 'Hma1.2p1_1197F.1_g266220' => 'hma', 'Hma1.2p1_2167F.1_g315895' => 'hma', 'Hma1.2p1_2190F.1_g316640' => 'hma', 'Hma1.2p1_3645F.1_g337153' => 'hma', 'HPP92_004907' => 'vpl', 'HPP92_012134' => 'vpl', 'HPP92_025136' => 'vpl', 'HPP92_026087' => 'vpl', 'Hund06782' => 'sun', 'Hund06784' => 'sun', 'Lalb_Chr01g0004861' => 'lal', 'Lalb_Chr02g0140591' => 'lal', 'Lalb_Chr02g0140611' => 'lal', 'Lalb_Chr03g0028101' => 'lal', 'Lalb_Chr07g0185791' => 'lal', 'Lalb_Chr12g0204491' => 'lal', 'Lalb_Chr13g0295671' => 'lal', 'Lalb_Chr19g0136461' => 'lal', 'Lalb_Chr21g0309191' => 'lal', 'Lj1g0028158' => 'lja', 'Lj1P236T38' => 'lonja', 'Lj2C32G2' => 'lonja', 'Lj2P944T8' => 'lonja', 'Lj2P963T15' => 'lonja', 'Lj3g0011788' => 'lja', 'Lj4g0025027' => 'lja', 'Lj5P255T36' => 'lonja', 'Lj6g0018866' => 'lja', 'Lj6P608T31' => 'lonja', 'LjContig00408g0008879' => 'lja', 'Lsat_1_v5_gn_5_105820' => 'lsa', 'Lsat_1_v5_gn_6_38800' => 'lsa', 'Lsat_1_v5_gn_7_67141' => 'lsa', 'Manes.04G003400' => 'mes', 'Manes.07G020000' => 'mes', 'Manes.07G020100' => 'mes', 'Manes.07G020150' => 'mes', 'Manes.10G061500' => 'mes', 'Manes.10G123200' => 'mes', 'Manes.11G161900' => 'mes', 'Manes.15G029300' => 'mes', 'Mapoly0071s0018' => 'mpo', 'Mapoly0082s0023' => 'mpo', 'Mapoly3477s0001' => 'mpo', 'MBI05_g31233_MAGBIO' => 'mbi', 'MBI09_g05946_MAGBIO' => 'mbi', 'MBI09_g05947_MAGBIO' => 'mbi', 'MBI17_g08346_MAGBIO' => 'mbi', 'MCO04G038' => 'mco', 'MCO09G370' => 'mco', 'MCO13G605' => 'mco', 'MD00G1075500' => 'mdo', 'MD03G1144300' => 'mdo', 'MD08G1236800' => 'mdo', 'MD13G1193300' => 'mdo', 'MD15G1428700' => 'mdo', 'Medtr1g112030' => 'mtr', 'Medtr1g112050' => 'mtr', 'Medtr2g006290' => 'mtr', 'Medtr2g086510' => 'mtr', 'Medtr4g053120' => 'mtr', 'Medtr5g006320' => 'mtr', 'Medtr8g088720' => 'mtr', 'MELO3C004712.2' => 'cme', 'MELO3C006533.2' => 'cme', 'MELO3C019438.2' => 'cme', 'MELO3C019440.2' => 'cme', 'MELO3C019441.2' => 'cme', 'MELO3C019895.2' => 'cme', 'Migut.B00811' => 'egut', 'Migut.D02447' => 'egut', 'Migut.F00875' => 'egut', 'Migut.N00186' => 'egut', 'Migut.N01051' => 'egut', 'Migut.N02491' => 'egut', 'Migut.O00784' => 'egut', 'MSTRG.12367' => 'ama', 'MSTRG.18756' => 'ama', 'MSTRG.21042' => 'ama', 'Nitab4.5_0000559g0040' => 'nta', 'Nitab4.5_0000667g0190' => 'nta', 'Nitab4.5_0000755g0160' => 'nta', 'Nitab4.5_0001216g0080' => 'nta', 'Nitab4.5_0004069g0040' => 'nta', 'Nitab4.5_0004129g0010' => 'nta', 'Nitab4.5_0005744g0030' => 'nta', 'Nitab4.5_0006996g0030' => 'nta', 'Nitab4.5_0008971g0040' => 'nta', 'Nitab4.5_0009769g0020' => 'nta', 'Nitab4.5_0009833g0010' => 'nta', 'Nitab4.5_0013140g0020' => 'nta', 'Nn003s41376' => 'nnu', 'Nn1g01857' => 'nnu', 'Nn1g03611' => 'nnu', 'Nn1g06853' => 'nnu', 'Nn3g18360' => 'nnu', 'Nn4g26328' => 'nnu', 'Nn5g27531' => 'nnu', 'Nn6g34899' => 'nnu', 'Nn7g36299' => 'nnu', 'Oeu021485.1' => 'oeu', 'Oeu022433.1' => 'oeu', 'Oeu032111.1' => 'oeu', 'Oeu051608.1' => 'oeu', 'Os01g0860601' => 'osa', 'Os03g0659200' => 'osa', 'Os03g0835900' => 'osa', 'Os04g0412200' => 'osa', 'Os05g0443500' => 'osa', 'Os07g0251500' => 'osa', 'Os08g0104600' => 'osa', 'Peaxi162Scf00003g00047' => 'pax', 'Peaxi162Scf00003g00052' => 'pax', 'Peaxi162Scf00003g00394' => 'pax', 'Peaxi162Scf00091g00621' => 'pax', 'Peaxi162Scf00152g00146' => 'pax', 'Peaxi162Scf00173g00025' => 'pax', 'Peaxi162Scf00195g00102' => 'pax', 'Peaxi162Scf00402g00013' => 'pax', 'Peaxi162Scf00519g00618' => 'pax', 'PGR004G2838' => 'pgr', 'PGR044G2275' => 'pgr', 'PGR102G1377' => 'pgr', 'PGR119G1245' => 'pgr', 'PGR142G4449' => 'pgr', 'PGSC0003DMG400004532' => 'stu', 'PGSC0003DMG400011950' => 'stu', 'PGSC0003DMG400023391' => 'stu', 'PGSC0003DMG400023985' => 'stu', 'PGSC0003DMG400026360' => 'stu', 'PGSC0003DMG400035711' => 'stu', 'PGSC0003DMG400037286' => 'stu', 'PGSC0003DMG402005881' => 'stu', 'Phvul.002G045400' => 'pvu', 'Phvul.006G216600' => 'pvu', 'Phvul.006G216700' => 'pvu', 'Phvul.006G216800' => 'pvu', 'Phvul.007G022500' => 'pvu', 'Phvul.011G094400' => 'pvu', 'Potri.001G470700' => 'ptr', 'Potri.003G015200' => 'ptr', 'Potri.004G202500' => 'ptr', 'Potri.004G218400' => 'ptr', 'Potri.008G020100' => 'ptr', 'Potri.008G153200' => 'ptr', 'Potri.009G163800' => 'ptr', 'Potri.010G087300' => 'ptr', 'Potri.010G239100' => 'ptr', 'Pp3c10_16100' => 'ppa', 'Pp3c10_16880' => 'ppa', 'Pp3c16_6230' => 'ppa', 'Pp3c17_18910' => 'ppa', 'Pp3c3_22119' => 'ppa', 'Pp3c3_22140' => 'ppa', 'Pp3c4_8159' => 'ppa', 'Pp3c4_8171' => 'ppa', 'Pp3c4_8330' => 'ppa', 'PRCOL_00004098' => 'pco', 'Prupe.1G013900' => 'ppe', 'Prupe.1G226300' => 'ppe', 'Prupe.1G573600' => 'ppe', 'Prupe.6G130100' => 'ppe', 'Psat3g090040' => 'psa', 'Psat4g210440' => 'psa', 'Psat6g231040' => 'psa', 'Psat6g231080' => 'psa', 'Psat7g063000' => 'psa', 'Psat7g188000' => 'psa', 'Psat7g188040' => 'psa', 'PSO017G0206' => 'pso', 'PSO170G0501' => 'pso', 'PSO170G6422' => 'pso', 'PSO210G7739' => 'pso', 'PSO339G1808' => 'pso', 'PSO339G6135' => 'pso', 'PSO384G0010' => 'pso', 'PSO384G0964' => 'pso', 'PSO761G0050' => 'pso', 'PSO782G4085' => 'pso', 'QL01p012264' => 'qlo', 'QL02p099491' => 'qlo', 'QL03p033868' => 'qlo', 'QL04p046678' => 'qlo', 'QL06p002448' => 'qlo', 'RcHm_v2.0_Chr4g0416181' => 'rch', 'RcHm_v2.0_Chr5g0044701' => 'rch', 'RcHm_v2.0_Chr6g0265781' => 'rch', 'RcHm_v2.0_Chr7g0221031' => 'rch', 'Rhsim04G0202000' => 'rsi', 'Rhsim11G0127300' => 'rsi', 'Rhsim13G0111800' => 'rsi', 'Sabra01G0165600' => 'sbr', 'Sabra03G0008300' => 'sbr', 'Sabra04G0136900' => 'sbr', 'Sabra08G0013400' => 'sbr', 'Sabra08G0116800' => 'sbr', 'Sabra09G0128000' => 'sbr', 'Sabra10G0055500' => 'sbr', 'Sabra10G0073300' => 'sbr', 'SalBow3G0385' => 'sbo', 'SalBow3G1119' => 'sbo', 'SalBow3G2005' => 'sbo', 'SalBow6G2563' => 'sbo', 'SalBow6G6386' => 'sbo', 'Sc06g0008800' => 'sci', 'Sc07g0004950' => 'sci', 'Sc09g0005340' => 'sci', 'Sc13g0004410' => 'sci', 'Sc21g0007090' => 'sci', 'Sed0009285' => 'sed', 'Sed0017583' => 'sed', 'Sed0019699' => 'sed', 'Sed0023107' => 'sed', 'SEGI_10916' => 'sgi', 'SEGI_16217' => 'sgi', 'SEGI_19466' => 'sgi', 'SEGI_41115' => 'sgi', 'SGA_v2.0_scaffold111G31534' => 'sas', 'SGA_v2.0_scaffold22G09864' => 'sas', 'SGA_v2.0_scaffold338G49219' => 'sas', 'SGA_v2.0_scaffold92G28298' => 'sas', 'SMO119G0064' => 'smo', 'SMO223G0038' => 'smo', 'SMO347G0584' => 'smo', 'SMO351G0010' => 'smo', 'SMO356G0404' => 'smo', 'Solyc01g103920.3' => 'sly', 'Solyc04g009710.2' => 'sly', 'Solyc05g055280.2' => 'sly', 'Solyc10g044520.3' => 'sly', 'Solyc10g075160.1' => 'sly', 'Solyc11g006910.3' => 'sly', 'Solyc11g068430.3' => 'sly', 'Sopen01g046310' => 'spe', 'Sopen03g001200' => 'spe', 'Sopen04g004830' => 'spe', 'Sopen05g033720' => 'spe', 'Sopen06g030740' => 'spe', 'Sopen10g013090' => 'spe', 'Sopen10g027630' => 'spe', 'Sopen10g027640' => 'spe', 'Sopen11g002820' => 'spe', 'Sopen11g027140' => 'spe', 'Sp1g09680' => 'spa', 'Sp2g03630' => 'spa', 'Sp4g10320' => 'spa', 'Sp6g33400' => 'spa', 'Sp7g13030' => 'spa', 'TAR365G0317' => 'tar', 'TAR376G0979' => 'tar', 'TAR623G1665' => 'tar', 'TAR633G2373' => 'tar', 'TAR636G1400' => 'tar', 'THA.LOC104800529' => 'tha', 'THA.LOC104808547' => 'tha', 'THA.LOC104809615' => 'tha', 'THA.LOC104815724' => 'tha', 'THA.LOC104818480' => 'tha', 'THA.LOC104819179' => 'tha', 'THA.LOC104822270' => 'tha', 'THA.LOC104826425' => 'tha', 'Thecc.02G089700' => 'tca', 'Thecc.04G232300' => 'tca', 'Thecc.09G283400' => 'tca', 'Thhalv10009020m.g' => 'esa', 'Thhalv10015506m.g' => 'esa', 'Thhalv10017364m.g' => 'esa', 'Thhalv10023742m.g' => 'esa', 'Thhalv10026483m.g' => 'esa', 'TPR.G17232' => 'tpr', 'TPR.G2133' => 'tpr', 'TPR.G2498' => 'tpr', 'TPR.G31942' => 'tpr', 'TPR.G37877' => 'tpr', 'TPR.G4571' => 'tpr', 'TWI14G1113' => 'twi', 'TWI15G0426' => 'twi', 'TWI31G1005' => 'twi', 'TWI38G0513' => 'twi', 'TWI38G1484' => 'twi', 'TWI73G1098' => 'twi', 'unitig_26.g10519' => 'ugi', 'unitig_736.g22395' => 'ugi', 'unitig_747.g21234' => 'ugi', 'unitig_747.g21942' => 'ugi', 'vmacro14351' => 'vma', 'VMungo0540G0082' => 'vmu', 'VMungo0540G0405' => 'vmu', 'VMungo0540G1486' => 'vmu', 'VMungo0540G1692' => 'vmu', 'VMungo0720G2473' => 'vmu', 'VMungo1127G1562' => 'vmu', 'VMungo1215G1918' => 'vmu', 'Zm00001eb052650' => 'zma', 'Zm00001eb063710' => 'zma', 'Zm00001eb083950' => 'zma', 'Zm00001eb174420' => 'zma', 'Zm00001eb260140' => 'zma', 'Zm00001eb260150' => 'zma', 'Zm00001eb260160' => 'zma', 'Zm00001eb348290' => 'zma', 'Zm00001eb366870' => 'zma', 'Zm00001eb421930' => 'zma' ) $gf_id = 'HOM05D001025' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001025' ) $data_identifier = 'HOM05D001025' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 19, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 2, 'amhyb' => (int) 4, 'aly' => (int) 4, 'aox' => (int) 4, 'arhy' => (int) 3, 'ath' => (int) 5, 'atr' => (int) 4, 'acertr' => (int) 3, 'cqu' => (int) 7, 'bca' => (int) 17, 'bol' => (int) 10, 'bra' => (int) 9, 'can' => (int) 10, 'cansat' => (int) 6, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 5, 'cbr' => (int) 5, 'ccan' => (int) 5, 'cde' => (int) 4, 'cfa' => (int) 3, 'ccl' => (int) 6, 'cil' => (int) 4, 'cla' => (int) 3, 'col' => (int) 3, 'cpa' => (int) 3, 'cre' => (int) 7, 'csa' => (int) 5, 'camsi' => (int) 9, 'dca' => (int) 4, 'din' => (int) 5, 'dzi' => (int) 7, 'eca' => (int) 6, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 12, 'fve' => (int) 4, 'gma' => (int) 12, 'ghi' => (int) 17, 'gra' => (int) 9, 'vvi' => (int) 2, 'han' => (int) 8, 'cav' => (int) 5, 'hma' => (int) 9, 'vpl' => (int) 4, 'sun' => (int) 2, 'lal' => (int) 9, 'lja' => (int) 5, 'lonja' => (int) 6, 'lsa' => (int) 3, 'mes' => (int) 8, 'mpo' => (int) 3, 'mbi' => (int) 4, 'mco' => (int) 3, 'mdo' => (int) 5, 'mtr' => (int) 7, 'cme' => (int) 6, 'egut' => (int) 7, 'ama' => (int) 3, 'nta' => (int) 12, 'nnu' => (int) 9, 'oeu' => (int) 4, 'osa' => (int) 7, 'pax' => (int) 9, 'pgr' => (int) 5, 'stu' => (int) 8, 'pvu' => (int) 6, 'ptr' => (int) 9, 'ppa' => (int) 9, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 7, 'pso' => (int) 10, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 3, 'sbr' => (int) 8, 'sbo' => (int) 5, 'sci' => (int) 5, 'sed' => (int) 4, 'sgi' => (int) 4, 'sas' => (int) 4, 'smo' => (int) 5, 'sly' => (int) 7, 'spe' => (int) 10, 'spa' => (int) 5, 'tar' => (int) 5, 'tha' => (int) 8, 'tca' => (int) 3, 'esa' => (int) 5, 'tpr' => (int) 6, 'twi' => (int) 6, 'ugi' => (int) 4, 'vma' => (int) 1, 'vmu' => (int) 7, 'zma' => (int) 10 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb421930' $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' => 'HOM05D001025', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '592', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p22650' => 'bna', 'A01p29720' => 'bna', 'A03p26560' => 'bna', 'A03p68820' => 'bna', 'A04p20980' => 'bna', 'A06p07730' => 'bna', 'A07p18260' => 'bna', 'A08p33710' => 'bna', 'A09p16970' => 'bna', 'A10p27490' => 'bna', 'Aa31LG1G17300' => 'aar', 'Aa31LG1G3910' => 'aar', 'Aa31LG2G9630' => 'aar', 'Aa31LG5G8360' => 'aar', 'Aa31LG9G2410' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4699' => 'aag', 'Actinidia23512' => 'ach', 'Actinidia37080' => 'ach', 'Ah.01g020380' => 'amhyb', 'Ah.08g215710' => 'amhyb', 'Ah.09g225110' => 'amhyb', 'Ah.10g036680' => 'amhyb', 'AL1G21940' => 'aly', 'AL2G15540' => 'aly', 'AL4G21520' => 'aly', 'AL7G40960' => 'aly', 'Aqoxy2G01191' => 'aox', 'Aqoxy2G03393' => 'aox', 'Aqoxy4G02775' => 'aox', 'Aqoxy6G00058' => 'aox', 'arahy.Tifrunner.gnm1.ann1.9X74H2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CW3FX9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R485W7' => 'arhy', 'AT1G10960' => 'ath', 'AT1G60950' => 'ath', 'AT2G27510' => 'ath', 'AT4G14890' => 'ath', 'AT5G10000' => 'ath', 'ATR0665G624' => 'atr', 'ATR0697G138' => 'atr', 'ATR0776G046' => 'atr', 'ATR1134G135' => 'atr', 'Atru.chr12.1025' => 'acertr', 'Atru.chr3.3241' => 'acertr', 'Atru.chr4.2460' => 'acertr', 'AUR62007427' => 'cqu', 'AUR62010960' => 'cqu', 'AUR62012201' => 'cqu', 'AUR62021470' => 'cqu', 'AUR62022834' => 'cqu', 'AUR62033635' => 'cqu', 'AUR62036186' => 'cqu', 'BcaB01g03077' => 'bca', 'BcaB02g10093' => 'bca', 'BcaB04g20295' => 'bca', 'BcaB06g28147' => 'bca', 'BcaB07g31253' => 'bca', 'BcaC01g04946' => 'bca', 'BcaC02g10614' => 'bca', 'BcaC02g10885' => 'bca', 'BcaC04g19356' => 'bca', 'BcaC04g22297' => 'bca', 'BcaC05g24977' => 'bca', 'BcaC06g31823' => 'bca', 'BcaC07g38633' => 'bca', 'BcaC09g49353' => 'bca', 'BcaC09g50168' => 'bca', 'BcaNung00322' => 'bca', 'BcaNung04769' => 'bca', 'BolC1t02753H' => 'bol', 'BolC1t03721H' => 'bol', 'BolC3t15525H' => 'bol', 'BolC4t23903H' => 'bol', 'BolC4t24231H' => 'bol', 'BolC4t27209H' => 'bol', 'BolC5t29671H' => 'bol', 'BolC8t49044H' => 'bol', 'BolC9t54999H' => 'bol', 'BolC9t59517H' => 'bol', 'BraA01t02178Z' => 'bra', 'BraA01t03099Z' => 'bra', 'BraA03t11867Z' => 'bra', 'BraA04t17667Z' => 'bra', 'BraA07t29542Z' => 'bra', 'BraA08t35287Z' => 'bra', 'BraA09t37334Z' => 'bra', 'BraA10t44801Z' => 'bra', 'BraSC39t46181Z' => 'bra', 'C01p28240' => 'bna', 'C01p37530' => 'bna', 'C03p31820' => 'bna', 'C04p24080' => 'bna', 'C04p25790' => 'bna', 'C04p56770' => 'bna', 'C05p09310' => 'bna', 'C09p21010' => 'bna', 'C09p67560' => 'bna', 'CAN.G1324.7' => 'can', 'CAN.G1358.10' => 'can', 'CAN.G1550.2' => 'can', 'CAN.G186.56' => 'can', 'CAN.G1965.1' => 'can', 'CAN.G645.15' => 'can', 'CAN.G798.26' => 'can', 'CAN.G798.27' => 'can', 'CAN.G798.29' => 'can', 'CAN.G919.31' => 'can', 'CANSAT11G0133' => 'cansat', 'CANSAT11G1171' => 'cansat', 'CANSAT11G2056' => 'cansat', 'CANSAT56G1202' => 'cansat', 'CANSAT56G1514' => 'cansat', 'CANSAT78G0455' => 'cansat', 'CARHR011190' => 'chi', 'CARHR051980' => 'chi', 'CARHR120170' => 'chi', 'CARHR203310' => 'chi', 'CARHR221490' => 'chi', 'Carub.0001s1054' => 'cru', 'Carub.0002s0431' => 'cru', 'Carub.0004s0818' => 'cru', 'Carub.0006s0846' => 'cru', 'Carub.0007s2722' => 'cru', 'Ca_00058_v3' => 'car', 'Ca_17831_v3' => 'car', 'Ca_19408_v3' => 'car', 'Ca_24397_v3' => 'car', 'Ca_25664_v3' => 'car', 'CBR_g21818' => 'cbr', 'CBR_g31195' => 'cbr', 'CBR_g32282' => 'cbr', 'CBR_g39599' => 'cbr', 'CBR_g49410' => 'cbr', 'Cc01_g09120' => 'ccan', 'Cc01_g09130' => 'ccan', 'Cc02_g09630' => 'ccan', 'Cc02_g22810' => 'ccan', 'Cc03_g03810' => 'ccan', 'CDE02G3718' => 'cde', 'CDE04G3183' => 'cde', 'CDE07G1046' => 'cde', 'CDE08G0480' => 'cde', 'Cfa005493' => 'cfa', 'Cfa010312' => 'cfa', 'Cfa015648' => 'cfa', 'Ciclev10002793m.g' => 'ccl', 'Ciclev10003356m.g' => 'ccl', 'Ciclev10006141m.g' => 'ccl', 'Ciclev10016676m.g' => 'ccl', 'Ciclev10017081m.g' => 'ccl', 'Ciclev10029499m.g' => 'ccl', 'CiPaw.01G166300' => 'cil', 'CiPaw.06G145600' => 'cil', 'CiPaw.13G040100' => 'cil', 'CiPaw.13G135800' => 'cil', 'ClCG01G012230' => 'cla', 'ClCG05G009510' => 'cla', 'ClCG08G008270' => 'cla', 'COL.COLO4_11763' => 'col', 'COL.COLO4_19876' => 'col', 'COL.COLO4_21481' => 'col', 'Cpa.g.sc118.34' => 'cpa', 'Cpa.g.sc32.13' => 'cpa', 'Cpa.g.sc58.103' => 'cpa', 'Cre03.g183850' => 'cre', 'Cre06.g306350' => 'cre', 'Cre07.g334800' => 'cre', 'Cre12.g487900' => 'cre', 'Cre14.g626700' => 'cre', 'Cre16.g658400' => 'cre', 'Cre17.g700950' => 'cre', 'CsaV3_1G014830' => 'csa', 'CsaV3_3G013320' => 'csa', 'CsaV3_3G019210' => 'csa', 'CsaV3_3G019220' => 'csa', 'CsaV3_6G004230' => 'csa', 'CSS0003773' => 'camsi', 'CSS0004563' => 'camsi', 'CSS0013949' => 'camsi', 'CSS0025971' => 'camsi', 'CSS0028570' => 'camsi', 'CSS0033127' => 'camsi', 'CSS0036051' => 'camsi', 'CSS0040087' => 'camsi', 'CSS0043179' => 'camsi', 'DCAR_006161' => 'dca', 'DCAR_010351' => 'dca', 'DCAR_012197' => 'dca', 'DCAR_024162' => 'dca', 'Dinv01030' => 'din', 'Dinv10924' => 'din', 'Dinv11835' => 'din', 'Dinv22841' => 'din', 'Dinv42553' => 'din', 'Duzib052G0560' => 'dzi', 'Duzib132G0389' => 'dzi', 'Duzib150G1181' => 'dzi', 'Duzib168G0623' => 'dzi', 'Duzib170G1036' => 'dzi', 'Duzib212G0200' => 'dzi', 'Duzib248G0194' => 'dzi', 'ECA232G2193' => 'eca', 'ECA233G0302' => 'eca', 'ECA234G2813' => 'eca', 'ECA234G4866' => 'eca', 'ECA240G3932' => 'eca', 'ECA248G0385' => 'eca', 'EL10Ac2g04781' => 'bvu', 'EL10Ac3g06445' => 'bvu', 'EL10Ac7g15825' => 'bvu', 'EL10Ac8g18550' => 'bvu', 'Eucgr.B03849' => 'egr', 'Eucgr.I02744' => 'egr', 'Eucgr.J00264' => 'egr', 'Eucgr.J00493' => 'egr', 'FAN04G2181' => 'fan', 'FAN07G2666' => 'fan', 'FAN11G0024' => 'fan', 'FAN12G1105' => 'fan', 'FAN13G0302' => 'fan', 'FAN15G2781' => 'fan', 'FAN16G1274' => 'fan', 'FAN17G2988' => 'fan', 'FAN18G2621' => 'fan', 'FAN21G0013' => 'fan', 'FAN22G1211' => 'fan', 'FAN25G3626' => 'fan', 'FvH4_2g09491' => 'fve', 'FvH4_3g24910' => 'fve', 'FvH4_4g15630' => 'fve', 'FvH4_5g28820' => 'fve', 'Glyma.01G238000' => 'gma', 'Glyma.05G168400' => 'gma', 'Glyma.08G126800' => 'gma', 'Glyma.08G188500' => 'gma', 'Glyma.10G278900' => 'gma', 'Glyma.11G005700' => 'gma', 'Glyma.11G183300' => 'gma', 'Glyma.12G089200' => 'gma', 'Glyma.12G169400' => 'gma', 'Glyma.12G169500' => 'gma', 'Glyma.12G169600' => 'gma', 'Glyma.20G110800' => 'gma', 'Gohir.A03G192900' => 'ghi', 'Gohir.A03G193000' => 'ghi', 'Gohir.A05G080700' => 'ghi', 'Gohir.A09G216000' => 'ghi', 'Gohir.A12G027700' => 'ghi', 'Gohir.A13G036200' => 'ghi', 'Gohir.A13G222600' => 'ghi', 'Gohir.D02G213900' => 'ghi', 'Gohir.D02G214000' => 'ghi', 'Gohir.D05G083700' => 'ghi', 'Gohir.D05G083800' => 'ghi', 'Gohir.D05G083850' => 'ghi', 'Gohir.D08G015400' => 'ghi', 'Gohir.D09G218400' => 'ghi', 'Gohir.D12G027100' => 'ghi', 'Gohir.D13G034500' => 'ghi', 'Gohir.D13G227400' => 'ghi', 'Gorai.005G241800' => 'gra', 'Gorai.005G241900' => 'gra', 'Gorai.006G239400' => 'gra', 'Gorai.008G027600' => 'gra', 'Gorai.009G085400' => 'gra', 'Gorai.009G085500' => 'gra', 'Gorai.013G039000' => 'gra', 'Gorai.013G194800' => 'gra', 'Gorai.013G257900' => 'gra', 'GSVIVG01000982001' => 'vvi', 'GSVIVG01017981001' => 'vvi', 'HanXRQChr01g0024061' => 'han', 'HanXRQChr09g0247831' => 'han', 'HanXRQChr10g0294611' => 'han', 'HanXRQChr10g0294621' => 'han', 'HanXRQChr11g0346821' => 'han', 'HanXRQChr13g0397461' => 'han', 'HanXRQChr16g0513651' => 'han', 'HanXRQChr16g0513701' => 'han', 'Haze_00897' => 'cav', 'Haze_01745' => 'cav', 'Haze_02486' => 'cav', 'Haze_02487' => 'cav', 'Haze_23374' => 'cav', 'Hma1.2p1_0578F.1_g182520' => 'hma', 'Hma1.2p1_0602F.1_g187350' => 'hma', 'Hma1.2p1_0602F.1_g187360' => 'hma', 'Hma1.2p1_0874F.1_g231320' => 'hma', 'Hma1.2p1_1197F.1_g266210' => 'hma', 'Hma1.2p1_1197F.1_g266220' => 'hma', 'Hma1.2p1_2167F.1_g315895' => 'hma', 'Hma1.2p1_2190F.1_g316640' => 'hma', 'Hma1.2p1_3645F.1_g337153' => 'hma', 'HPP92_004907' => 'vpl', 'HPP92_012134' => 'vpl', 'HPP92_025136' => 'vpl', 'HPP92_026087' => 'vpl', 'Hund06782' => 'sun', 'Hund06784' => 'sun', 'Lalb_Chr01g0004861' => 'lal', 'Lalb_Chr02g0140591' => 'lal', 'Lalb_Chr02g0140611' => 'lal', 'Lalb_Chr03g0028101' => 'lal', 'Lalb_Chr07g0185791' => 'lal', 'Lalb_Chr12g0204491' => 'lal', 'Lalb_Chr13g0295671' => 'lal', 'Lalb_Chr19g0136461' => 'lal', 'Lalb_Chr21g0309191' => 'lal', 'Lj1g0028158' => 'lja', 'Lj1P236T38' => 'lonja', 'Lj2C32G2' => 'lonja', 'Lj2P944T8' => 'lonja', 'Lj2P963T15' => 'lonja', 'Lj3g0011788' => 'lja', 'Lj4g0025027' => 'lja', 'Lj5P255T36' => 'lonja', 'Lj6g0018866' => 'lja', 'Lj6P608T31' => 'lonja', 'LjContig00408g0008879' => 'lja', 'Lsat_1_v5_gn_5_105820' => 'lsa', 'Lsat_1_v5_gn_6_38800' => 'lsa', 'Lsat_1_v5_gn_7_67141' => 'lsa', 'Manes.04G003400' => 'mes', 'Manes.07G020000' => 'mes', 'Manes.07G020100' => 'mes', 'Manes.07G020150' => 'mes', 'Manes.10G061500' => 'mes', 'Manes.10G123200' => 'mes', 'Manes.11G161900' => 'mes', 'Manes.15G029300' => 'mes', 'Mapoly0071s0018' => 'mpo', 'Mapoly0082s0023' => 'mpo', 'Mapoly3477s0001' => 'mpo', 'MBI05_g31233_MAGBIO' => 'mbi', 'MBI09_g05946_MAGBIO' => 'mbi', 'MBI09_g05947_MAGBIO' => 'mbi', 'MBI17_g08346_MAGBIO' => 'mbi', 'MCO04G038' => 'mco', 'MCO09G370' => 'mco', 'MCO13G605' => 'mco', 'MD00G1075500' => 'mdo', 'MD03G1144300' => 'mdo', 'MD08G1236800' => 'mdo', 'MD13G1193300' => 'mdo', 'MD15G1428700' => 'mdo', 'Medtr1g112030' => 'mtr', 'Medtr1g112050' => 'mtr', 'Medtr2g006290' => 'mtr', 'Medtr2g086510' => 'mtr', 'Medtr4g053120' => 'mtr', 'Medtr5g006320' => 'mtr', 'Medtr8g088720' => 'mtr', 'MELO3C004712.2' => 'cme', 'MELO3C006533.2' => 'cme', 'MELO3C019438.2' => 'cme', 'MELO3C019440.2' => 'cme', 'MELO3C019441.2' => 'cme', 'MELO3C019895.2' => 'cme', 'Migut.B00811' => 'egut', 'Migut.D02447' => 'egut', 'Migut.F00875' => 'egut', 'Migut.N00186' => 'egut', 'Migut.N01051' => 'egut', 'Migut.N02491' => 'egut', 'Migut.O00784' => 'egut', 'MSTRG.12367' => 'ama', 'MSTRG.18756' => 'ama', 'MSTRG.21042' => 'ama', 'Nitab4.5_0000559g0040' => 'nta', 'Nitab4.5_0000667g0190' => 'nta', 'Nitab4.5_0000755g0160' => 'nta', 'Nitab4.5_0001216g0080' => 'nta', 'Nitab4.5_0004069g0040' => 'nta', 'Nitab4.5_0004129g0010' => 'nta', 'Nitab4.5_0005744g0030' => 'nta', 'Nitab4.5_0006996g0030' => 'nta', 'Nitab4.5_0008971g0040' => 'nta', 'Nitab4.5_0009769g0020' => 'nta', 'Nitab4.5_0009833g0010' => 'nta', 'Nitab4.5_0013140g0020' => 'nta', 'Nn003s41376' => 'nnu', 'Nn1g01857' => 'nnu', 'Nn1g03611' => 'nnu', 'Nn1g06853' => 'nnu', 'Nn3g18360' => 'nnu', 'Nn4g26328' => 'nnu', 'Nn5g27531' => 'nnu', 'Nn6g34899' => 'nnu', 'Nn7g36299' => 'nnu', 'Oeu021485.1' => 'oeu', 'Oeu022433.1' => 'oeu', 'Oeu032111.1' => 'oeu', 'Oeu051608.1' => 'oeu', 'Os01g0860601' => 'osa', 'Os03g0659200' => 'osa', 'Os03g0835900' => 'osa', 'Os04g0412200' => 'osa', 'Os05g0443500' => 'osa', 'Os07g0251500' => 'osa', 'Os08g0104600' => 'osa', 'Peaxi162Scf00003g00047' => 'pax', 'Peaxi162Scf00003g00052' => 'pax', 'Peaxi162Scf00003g00394' => 'pax', 'Peaxi162Scf00091g00621' => 'pax', 'Peaxi162Scf00152g00146' => 'pax', 'Peaxi162Scf00173g00025' => 'pax', 'Peaxi162Scf00195g00102' => 'pax', 'Peaxi162Scf00402g00013' => 'pax', 'Peaxi162Scf00519g00618' => 'pax', 'PGR004G2838' => 'pgr', 'PGR044G2275' => 'pgr', 'PGR102G1377' => 'pgr', 'PGR119G1245' => 'pgr', 'PGR142G4449' => 'pgr', 'PGSC0003DMG400004532' => 'stu', 'PGSC0003DMG400011950' => 'stu', 'PGSC0003DMG400023391' => 'stu', 'PGSC0003DMG400023985' => 'stu', 'PGSC0003DMG400026360' => 'stu', 'PGSC0003DMG400035711' => 'stu', 'PGSC0003DMG400037286' => 'stu', 'PGSC0003DMG402005881' => 'stu', 'Phvul.002G045400' => 'pvu', 'Phvul.006G216600' => 'pvu', 'Phvul.006G216700' => 'pvu', 'Phvul.006G216800' => 'pvu', 'Phvul.007G022500' => 'pvu', 'Phvul.011G094400' => 'pvu', 'Potri.001G470700' => 'ptr', 'Potri.003G015200' => 'ptr', 'Potri.004G202500' => 'ptr', 'Potri.004G218400' => 'ptr', 'Potri.008G020100' => 'ptr', 'Potri.008G153200' => 'ptr', 'Potri.009G163800' => 'ptr', 'Potri.010G087300' => 'ptr', 'Potri.010G239100' => 'ptr', 'Pp3c10_16100' => 'ppa', 'Pp3c10_16880' => 'ppa', 'Pp3c16_6230' => 'ppa', 'Pp3c17_18910' => 'ppa', 'Pp3c3_22119' => 'ppa', 'Pp3c3_22140' => 'ppa', 'Pp3c4_8159' => 'ppa', 'Pp3c4_8171' => 'ppa', 'Pp3c4_8330' => 'ppa', 'PRCOL_00004098' => 'pco', 'Prupe.1G013900' => 'ppe', 'Prupe.1G226300' => 'ppe', 'Prupe.1G573600' => 'ppe', 'Prupe.6G130100' => 'ppe', 'Psat3g090040' => 'psa', 'Psat4g210440' => 'psa', 'Psat6g231040' => 'psa', 'Psat6g231080' => 'psa', 'Psat7g063000' => 'psa', 'Psat7g188000' => 'psa', 'Psat7g188040' => 'psa', 'PSO017G0206' => 'pso', 'PSO170G0501' => 'pso', 'PSO170G6422' => 'pso', 'PSO210G7739' => 'pso', 'PSO339G1808' => 'pso', 'PSO339G6135' => 'pso', 'PSO384G0010' => 'pso', 'PSO384G0964' => 'pso', 'PSO761G0050' => 'pso', 'PSO782G4085' => 'pso', 'QL01p012264' => 'qlo', 'QL02p099491' => 'qlo', 'QL03p033868' => 'qlo', 'QL04p046678' => 'qlo', 'QL06p002448' => 'qlo', 'RcHm_v2.0_Chr4g0416181' => 'rch', 'RcHm_v2.0_Chr5g0044701' => 'rch', 'RcHm_v2.0_Chr6g0265781' => 'rch', 'RcHm_v2.0_Chr7g0221031' => 'rch', 'Rhsim04G0202000' => 'rsi', 'Rhsim11G0127300' => 'rsi', 'Rhsim13G0111800' => 'rsi', 'Sabra01G0165600' => 'sbr', 'Sabra03G0008300' => 'sbr', 'Sabra04G0136900' => 'sbr', 'Sabra08G0013400' => 'sbr', 'Sabra08G0116800' => 'sbr', 'Sabra09G0128000' => 'sbr', 'Sabra10G0055500' => 'sbr', 'Sabra10G0073300' => 'sbr', 'SalBow3G0385' => 'sbo', 'SalBow3G1119' => 'sbo', 'SalBow3G2005' => 'sbo', 'SalBow6G2563' => 'sbo', 'SalBow6G6386' => 'sbo', 'Sc06g0008800' => 'sci', 'Sc07g0004950' => 'sci', 'Sc09g0005340' => 'sci', 'Sc13g0004410' => 'sci', 'Sc21g0007090' => 'sci', 'Sed0009285' => 'sed', 'Sed0017583' => 'sed', 'Sed0019699' => 'sed', 'Sed0023107' => 'sed', 'SEGI_10916' => 'sgi', 'SEGI_16217' => 'sgi', 'SEGI_19466' => 'sgi', 'SEGI_41115' => 'sgi', 'SGA_v2.0_scaffold111G31534' => 'sas', 'SGA_v2.0_scaffold22G09864' => 'sas', 'SGA_v2.0_scaffold338G49219' => 'sas', 'SGA_v2.0_scaffold92G28298' => 'sas', 'SMO119G0064' => 'smo', 'SMO223G0038' => 'smo', 'SMO347G0584' => 'smo', 'SMO351G0010' => 'smo', 'SMO356G0404' => 'smo', 'Solyc01g103920.3' => 'sly', 'Solyc04g009710.2' => 'sly', 'Solyc05g055280.2' => 'sly', 'Solyc10g044520.3' => 'sly', 'Solyc10g075160.1' => 'sly', 'Solyc11g006910.3' => 'sly', 'Solyc11g068430.3' => 'sly', 'Sopen01g046310' => 'spe', 'Sopen03g001200' => 'spe', 'Sopen04g004830' => 'spe', 'Sopen05g033720' => 'spe', 'Sopen06g030740' => 'spe', 'Sopen10g013090' => 'spe', 'Sopen10g027630' => 'spe', 'Sopen10g027640' => 'spe', 'Sopen11g002820' => 'spe', 'Sopen11g027140' => 'spe', 'Sp1g09680' => 'spa', 'Sp2g03630' => 'spa', 'Sp4g10320' => 'spa', 'Sp6g33400' => 'spa', 'Sp7g13030' => 'spa', 'TAR365G0317' => 'tar', 'TAR376G0979' => 'tar', 'TAR623G1665' => 'tar', 'TAR633G2373' => 'tar', 'TAR636G1400' => 'tar', 'THA.LOC104800529' => 'tha', 'THA.LOC104808547' => 'tha', 'THA.LOC104809615' => 'tha', 'THA.LOC104815724' => 'tha', 'THA.LOC104818480' => 'tha', 'THA.LOC104819179' => 'tha', 'THA.LOC104822270' => 'tha', 'THA.LOC104826425' => 'tha', 'Thecc.02G089700' => 'tca', 'Thecc.04G232300' => 'tca', 'Thecc.09G283400' => 'tca', 'Thhalv10009020m.g' => 'esa', 'Thhalv10015506m.g' => 'esa', 'Thhalv10017364m.g' => 'esa', 'Thhalv10023742m.g' => 'esa', 'Thhalv10026483m.g' => 'esa', 'TPR.G17232' => 'tpr', 'TPR.G2133' => 'tpr', 'TPR.G2498' => 'tpr', 'TPR.G31942' => 'tpr', 'TPR.G37877' => 'tpr', 'TPR.G4571' => 'tpr', 'TWI14G1113' => 'twi', 'TWI15G0426' => 'twi', 'TWI31G1005' => 'twi', 'TWI38G0513' => 'twi', 'TWI38G1484' => 'twi', 'TWI73G1098' => 'twi', 'unitig_26.g10519' => 'ugi', 'unitig_736.g22395' => 'ugi', 'unitig_747.g21234' => 'ugi', 'unitig_747.g21942' => 'ugi', 'vmacro14351' => 'vma', 'VMungo0540G0082' => 'vmu', 'VMungo0540G0405' => 'vmu', 'VMungo0540G1486' => 'vmu', 'VMungo0540G1692' => 'vmu', 'VMungo0720G2473' => 'vmu', 'VMungo1127G1562' => 'vmu', 'VMungo1215G1918' => 'vmu', 'Zm00001eb052650' => 'zma', 'Zm00001eb063710' => 'zma', 'Zm00001eb083950' => 'zma', 'Zm00001eb174420' => 'zma', 'Zm00001eb260140' => 'zma', 'Zm00001eb260150' => 'zma', 'Zm00001eb260160' => 'zma', 'Zm00001eb348290' => 'zma', 'Zm00001eb366870' => 'zma', 'Zm00001eb421930' => 'zma' ), 'gf_id' => 'HOM05D001025', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001025' ), 'data_identifier' => 'HOM05D001025', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001025', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '592', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p22650' => 'bna', 'A01p29720' => 'bna', 'A03p26560' => 'bna', 'A03p68820' => 'bna', 'A04p20980' => 'bna', 'A06p07730' => 'bna', 'A07p18260' => 'bna', 'A08p33710' => 'bna', 'A09p16970' => 'bna', 'A10p27490' => 'bna', 'Aa31LG1G17300' => 'aar', 'Aa31LG1G3910' => 'aar', 'Aa31LG2G9630' => 'aar', 'Aa31LG5G8360' => 'aar', 'Aa31LG9G2410' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4699' => 'aag', 'Actinidia23512' => 'ach', 'Actinidia37080' => 'ach', 'Ah.01g020380' => 'amhyb', 'Ah.08g215710' => 'amhyb', 'Ah.09g225110' => 'amhyb', 'Ah.10g036680' => 'amhyb', 'AL1G21940' => 'aly', 'AL2G15540' => 'aly', 'AL4G21520' => 'aly', 'AL7G40960' => 'aly', 'Aqoxy2G01191' => 'aox', 'Aqoxy2G03393' => 'aox', 'Aqoxy4G02775' => 'aox', 'Aqoxy6G00058' => 'aox', 'arahy.Tifrunner.gnm1.ann1.9X74H2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CW3FX9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R485W7' => 'arhy', 'AT1G10960' => 'ath', 'AT1G60950' => 'ath', 'AT2G27510' => 'ath', 'AT4G14890' => 'ath', 'AT5G10000' => 'ath', 'ATR0665G624' => 'atr', 'ATR0697G138' => 'atr', 'ATR0776G046' => 'atr', 'ATR1134G135' => 'atr', 'Atru.chr12.1025' => 'acertr', 'Atru.chr3.3241' => 'acertr', 'Atru.chr4.2460' => 'acertr', 'AUR62007427' => 'cqu', 'AUR62010960' => 'cqu', 'AUR62012201' => 'cqu', 'AUR62021470' => 'cqu', 'AUR62022834' => 'cqu', 'AUR62033635' => 'cqu', 'AUR62036186' => 'cqu', 'BcaB01g03077' => 'bca', 'BcaB02g10093' => 'bca', 'BcaB04g20295' => 'bca', 'BcaB06g28147' => 'bca', 'BcaB07g31253' => 'bca', 'BcaC01g04946' => 'bca', 'BcaC02g10614' => 'bca', 'BcaC02g10885' => 'bca', 'BcaC04g19356' => 'bca', 'BcaC04g22297' => 'bca', 'BcaC05g24977' => 'bca', 'BcaC06g31823' => 'bca', 'BcaC07g38633' => 'bca', 'BcaC09g49353' => 'bca', 'BcaC09g50168' => 'bca', 'BcaNung00322' => 'bca', 'BcaNung04769' => 'bca', 'BolC1t02753H' => 'bol', 'BolC1t03721H' => 'bol', 'BolC3t15525H' => 'bol', 'BolC4t23903H' => 'bol', 'BolC4t24231H' => 'bol', 'BolC4t27209H' => 'bol', 'BolC5t29671H' => 'bol', 'BolC8t49044H' => 'bol', 'BolC9t54999H' => 'bol', 'BolC9t59517H' => 'bol', 'BraA01t02178Z' => 'bra', 'BraA01t03099Z' => 'bra', 'BraA03t11867Z' => 'bra', 'BraA04t17667Z' => 'bra', 'BraA07t29542Z' => 'bra', 'BraA08t35287Z' => 'bra', 'BraA09t37334Z' => 'bra', 'BraA10t44801Z' => 'bra', 'BraSC39t46181Z' => 'bra', 'C01p28240' => 'bna', 'C01p37530' => 'bna', 'C03p31820' => 'bna', 'C04p24080' => 'bna', 'C04p25790' => 'bna', 'C04p56770' => 'bna', 'C05p09310' => 'bna', 'C09p21010' => 'bna', 'C09p67560' => 'bna', 'CAN.G1324.7' => 'can', 'CAN.G1358.10' => 'can', 'CAN.G1550.2' => 'can', 'CAN.G186.56' => 'can', 'CAN.G1965.1' => 'can', 'CAN.G645.15' => 'can', 'CAN.G798.26' => 'can', 'CAN.G798.27' => 'can', 'CAN.G798.29' => 'can', 'CAN.G919.31' => 'can', 'CANSAT11G0133' => 'cansat', 'CANSAT11G1171' => 'cansat', 'CANSAT11G2056' => 'cansat', 'CANSAT56G1202' => 'cansat', 'CANSAT56G1514' => 'cansat', 'CANSAT78G0455' => 'cansat', 'CARHR011190' => 'chi', 'CARHR051980' => 'chi', 'CARHR120170' => 'chi', 'CARHR203310' => 'chi', 'CARHR221490' => 'chi', 'Carub.0001s1054' => 'cru', 'Carub.0002s0431' => 'cru', 'Carub.0004s0818' => 'cru', 'Carub.0006s0846' => 'cru', 'Carub.0007s2722' => 'cru', 'Ca_00058_v3' => 'car', 'Ca_17831_v3' => 'car', 'Ca_19408_v3' => 'car', 'Ca_24397_v3' => 'car', 'Ca_25664_v3' => 'car', 'CBR_g21818' => 'cbr', 'CBR_g31195' => 'cbr', 'CBR_g32282' => 'cbr', 'CBR_g39599' => 'cbr', 'CBR_g49410' => 'cbr', 'Cc01_g09120' => 'ccan', 'Cc01_g09130' => 'ccan', 'Cc02_g09630' => 'ccan', 'Cc02_g22810' => 'ccan', 'Cc03_g03810' => 'ccan', 'CDE02G3718' => 'cde', 'CDE04G3183' => 'cde', 'CDE07G1046' => 'cde', 'CDE08G0480' => 'cde', 'Cfa005493' => 'cfa', 'Cfa010312' => 'cfa', 'Cfa015648' => 'cfa', 'Ciclev10002793m.g' => 'ccl', 'Ciclev10003356m.g' => 'ccl', 'Ciclev10006141m.g' => 'ccl', 'Ciclev10016676m.g' => 'ccl', 'Ciclev10017081m.g' => 'ccl', 'Ciclev10029499m.g' => 'ccl', 'CiPaw.01G166300' => 'cil', 'CiPaw.06G145600' => 'cil', 'CiPaw.13G040100' => 'cil', 'CiPaw.13G135800' => 'cil', 'ClCG01G012230' => 'cla', 'ClCG05G009510' => 'cla', 'ClCG08G008270' => 'cla', 'COL.COLO4_11763' => 'col', 'COL.COLO4_19876' => 'col', 'COL.COLO4_21481' => 'col', 'Cpa.g.sc118.34' => 'cpa', 'Cpa.g.sc32.13' => 'cpa', 'Cpa.g.sc58.103' => 'cpa', 'Cre03.g183850' => 'cre', 'Cre06.g306350' => 'cre', 'Cre07.g334800' => 'cre', 'Cre12.g487900' => 'cre', 'Cre14.g626700' => 'cre', 'Cre16.g658400' => 'cre', 'Cre17.g700950' => 'cre', 'CsaV3_1G014830' => 'csa', 'CsaV3_3G013320' => 'csa', 'CsaV3_3G019210' => 'csa', 'CsaV3_3G019220' => 'csa', 'CsaV3_6G004230' => 'csa', 'CSS0003773' => 'camsi', 'CSS0004563' => 'camsi', 'CSS0013949' => 'camsi', 'CSS0025971' => 'camsi', 'CSS0028570' => 'camsi', 'CSS0033127' => 'camsi', 'CSS0036051' => 'camsi', 'CSS0040087' => 'camsi', 'CSS0043179' => 'camsi', 'DCAR_006161' => 'dca', 'DCAR_010351' => 'dca', 'DCAR_012197' => 'dca', 'DCAR_024162' => 'dca', 'Dinv01030' => 'din', 'Dinv10924' => 'din', 'Dinv11835' => 'din', 'Dinv22841' => 'din', 'Dinv42553' => 'din', 'Duzib052G0560' => 'dzi', 'Duzib132G0389' => 'dzi', 'Duzib150G1181' => 'dzi', 'Duzib168G0623' => 'dzi', 'Duzib170G1036' => 'dzi', 'Duzib212G0200' => 'dzi', 'Duzib248G0194' => 'dzi', 'ECA232G2193' => 'eca', 'ECA233G0302' => 'eca', 'ECA234G2813' => 'eca', 'ECA234G4866' => 'eca', 'ECA240G3932' => 'eca', 'ECA248G0385' => 'eca', 'EL10Ac2g04781' => 'bvu', 'EL10Ac3g06445' => 'bvu', 'EL10Ac7g15825' => 'bvu', 'EL10Ac8g18550' => 'bvu', 'Eucgr.B03849' => 'egr', 'Eucgr.I02744' => 'egr', 'Eucgr.J00264' => 'egr', 'Eucgr.J00493' => 'egr', 'FAN04G2181' => 'fan', 'FAN07G2666' => 'fan', 'FAN11G0024' => 'fan', 'FAN12G1105' => 'fan', 'FAN13G0302' => 'fan', 'FAN15G2781' => 'fan', 'FAN16G1274' => 'fan', 'FAN17G2988' => 'fan', 'FAN18G2621' => 'fan', 'FAN21G0013' => 'fan', 'FAN22G1211' => 'fan', 'FAN25G3626' => 'fan', 'FvH4_2g09491' => 'fve', 'FvH4_3g24910' => 'fve', 'FvH4_4g15630' => 'fve', 'FvH4_5g28820' => 'fve', 'Glyma.01G238000' => 'gma', 'Glyma.05G168400' => 'gma', 'Glyma.08G126800' => 'gma', 'Glyma.08G188500' => 'gma', 'Glyma.10G278900' => 'gma', 'Glyma.11G005700' => 'gma', 'Glyma.11G183300' => 'gma', 'Glyma.12G089200' => 'gma', 'Glyma.12G169400' => 'gma', 'Glyma.12G169500' => 'gma', 'Glyma.12G169600' => 'gma', 'Glyma.20G110800' => 'gma', 'Gohir.A03G192900' => 'ghi', 'Gohir.A03G193000' => 'ghi', 'Gohir.A05G080700' => 'ghi', 'Gohir.A09G216000' => 'ghi', 'Gohir.A12G027700' => 'ghi', 'Gohir.A13G036200' => 'ghi', 'Gohir.A13G222600' => 'ghi', 'Gohir.D02G213900' => 'ghi', 'Gohir.D02G214000' => 'ghi', 'Gohir.D05G083700' => 'ghi', 'Gohir.D05G083800' => 'ghi', 'Gohir.D05G083850' => 'ghi', 'Gohir.D08G015400' => 'ghi', 'Gohir.D09G218400' => 'ghi', 'Gohir.D12G027100' => 'ghi', 'Gohir.D13G034500' => 'ghi', 'Gohir.D13G227400' => 'ghi', 'Gorai.005G241800' => 'gra', 'Gorai.005G241900' => 'gra', 'Gorai.006G239400' => 'gra', 'Gorai.008G027600' => 'gra', 'Gorai.009G085400' => 'gra', 'Gorai.009G085500' => 'gra', 'Gorai.013G039000' => 'gra', 'Gorai.013G194800' => 'gra', 'Gorai.013G257900' => 'gra', 'GSVIVG01000982001' => 'vvi', 'GSVIVG01017981001' => 'vvi', 'HanXRQChr01g0024061' => 'han', 'HanXRQChr09g0247831' => 'han', 'HanXRQChr10g0294611' => 'han', 'HanXRQChr10g0294621' => 'han', 'HanXRQChr11g0346821' => 'han', 'HanXRQChr13g0397461' => 'han', 'HanXRQChr16g0513651' => 'han', 'HanXRQChr16g0513701' => 'han', 'Haze_00897' => 'cav', 'Haze_01745' => 'cav', 'Haze_02486' => 'cav', 'Haze_02487' => 'cav', 'Haze_23374' => 'cav', 'Hma1.2p1_0578F.1_g182520' => 'hma', 'Hma1.2p1_0602F.1_g187350' => 'hma', 'Hma1.2p1_0602F.1_g187360' => 'hma', 'Hma1.2p1_0874F.1_g231320' => 'hma', 'Hma1.2p1_1197F.1_g266210' => 'hma', 'Hma1.2p1_1197F.1_g266220' => 'hma', 'Hma1.2p1_2167F.1_g315895' => 'hma', 'Hma1.2p1_2190F.1_g316640' => 'hma', 'Hma1.2p1_3645F.1_g337153' => 'hma', 'HPP92_004907' => 'vpl', 'HPP92_012134' => 'vpl', 'HPP92_025136' => 'vpl', 'HPP92_026087' => 'vpl', 'Hund06782' => 'sun', 'Hund06784' => 'sun', 'Lalb_Chr01g0004861' => 'lal', 'Lalb_Chr02g0140591' => 'lal', 'Lalb_Chr02g0140611' => 'lal', 'Lalb_Chr03g0028101' => 'lal', 'Lalb_Chr07g0185791' => 'lal', 'Lalb_Chr12g0204491' => 'lal', 'Lalb_Chr13g0295671' => 'lal', 'Lalb_Chr19g0136461' => 'lal', 'Lalb_Chr21g0309191' => 'lal', 'Lj1g0028158' => 'lja', 'Lj1P236T38' => 'lonja', 'Lj2C32G2' => 'lonja', 'Lj2P944T8' => 'lonja', 'Lj2P963T15' => 'lonja', 'Lj3g0011788' => 'lja', 'Lj4g0025027' => 'lja', 'Lj5P255T36' => 'lonja', 'Lj6g0018866' => 'lja', 'Lj6P608T31' => 'lonja', 'LjContig00408g0008879' => 'lja', 'Lsat_1_v5_gn_5_105820' => 'lsa', 'Lsat_1_v5_gn_6_38800' => 'lsa', 'Lsat_1_v5_gn_7_67141' => 'lsa', 'Manes.04G003400' => 'mes', 'Manes.07G020000' => 'mes', 'Manes.07G020100' => 'mes', 'Manes.07G020150' => 'mes', 'Manes.10G061500' => 'mes', 'Manes.10G123200' => 'mes', 'Manes.11G161900' => 'mes', 'Manes.15G029300' => 'mes', 'Mapoly0071s0018' => 'mpo', 'Mapoly0082s0023' => 'mpo', 'Mapoly3477s0001' => 'mpo', 'MBI05_g31233_MAGBIO' => 'mbi', 'MBI09_g05946_MAGBIO' => 'mbi', 'MBI09_g05947_MAGBIO' => 'mbi', 'MBI17_g08346_MAGBIO' => 'mbi', 'MCO04G038' => 'mco', 'MCO09G370' => 'mco', 'MCO13G605' => 'mco', 'MD00G1075500' => 'mdo', 'MD03G1144300' => 'mdo', 'MD08G1236800' => 'mdo', 'MD13G1193300' => 'mdo', 'MD15G1428700' => 'mdo', 'Medtr1g112030' => 'mtr', 'Medtr1g112050' => 'mtr', 'Medtr2g006290' => 'mtr', 'Medtr2g086510' => 'mtr', 'Medtr4g053120' => 'mtr', 'Medtr5g006320' => 'mtr', 'Medtr8g088720' => 'mtr', 'MELO3C004712.2' => 'cme', 'MELO3C006533.2' => 'cme', 'MELO3C019438.2' => 'cme', 'MELO3C019440.2' => 'cme', 'MELO3C019441.2' => 'cme', 'MELO3C019895.2' => 'cme', 'Migut.B00811' => 'egut', 'Migut.D02447' => 'egut', 'Migut.F00875' => 'egut', 'Migut.N00186' => 'egut', 'Migut.N01051' => 'egut', 'Migut.N02491' => 'egut', 'Migut.O00784' => 'egut', 'MSTRG.12367' => 'ama', 'MSTRG.18756' => 'ama', 'MSTRG.21042' => 'ama', 'Nitab4.5_0000559g0040' => 'nta', 'Nitab4.5_0000667g0190' => 'nta', 'Nitab4.5_0000755g0160' => 'nta', 'Nitab4.5_0001216g0080' => 'nta', 'Nitab4.5_0004069g0040' => 'nta', 'Nitab4.5_0004129g0010' => 'nta', 'Nitab4.5_0005744g0030' => 'nta', 'Nitab4.5_0006996g0030' => 'nta', 'Nitab4.5_0008971g0040' => 'nta', 'Nitab4.5_0009769g0020' => 'nta', 'Nitab4.5_0009833g0010' => 'nta', 'Nitab4.5_0013140g0020' => 'nta', 'Nn003s41376' => 'nnu', 'Nn1g01857' => 'nnu', 'Nn1g03611' => 'nnu', 'Nn1g06853' => 'nnu', 'Nn3g18360' => 'nnu', 'Nn4g26328' => 'nnu', 'Nn5g27531' => 'nnu', 'Nn6g34899' => 'nnu', 'Nn7g36299' => 'nnu', 'Oeu021485.1' => 'oeu', 'Oeu022433.1' => 'oeu', 'Oeu032111.1' => 'oeu', 'Oeu051608.1' => 'oeu', 'Os01g0860601' => 'osa', 'Os03g0659200' => 'osa', 'Os03g0835900' => 'osa', 'Os04g0412200' => 'osa', 'Os05g0443500' => 'osa', 'Os07g0251500' => 'osa', 'Os08g0104600' => 'osa', 'Peaxi162Scf00003g00047' => 'pax', 'Peaxi162Scf00003g00052' => 'pax', 'Peaxi162Scf00003g00394' => 'pax', 'Peaxi162Scf00091g00621' => 'pax', 'Peaxi162Scf00152g00146' => 'pax', 'Peaxi162Scf00173g00025' => 'pax', 'Peaxi162Scf00195g00102' => 'pax', 'Peaxi162Scf00402g00013' => 'pax', 'Peaxi162Scf00519g00618' => 'pax', 'PGR004G2838' => 'pgr', 'PGR044G2275' => 'pgr', 'PGR102G1377' => 'pgr', 'PGR119G1245' => 'pgr', 'PGR142G4449' => 'pgr', 'PGSC0003DMG400004532' => 'stu', 'PGSC0003DMG400011950' => 'stu', 'PGSC0003DMG400023391' => 'stu', 'PGSC0003DMG400023985' => 'stu', 'PGSC0003DMG400026360' => 'stu', 'PGSC0003DMG400035711' => 'stu', 'PGSC0003DMG400037286' => 'stu', 'PGSC0003DMG402005881' => 'stu', 'Phvul.002G045400' => 'pvu', 'Phvul.006G216600' => 'pvu', 'Phvul.006G216700' => 'pvu', 'Phvul.006G216800' => 'pvu', 'Phvul.007G022500' => 'pvu', 'Phvul.011G094400' => 'pvu', 'Potri.001G470700' => 'ptr', 'Potri.003G015200' => 'ptr', 'Potri.004G202500' => 'ptr', 'Potri.004G218400' => 'ptr', 'Potri.008G020100' => 'ptr', 'Potri.008G153200' => 'ptr', 'Potri.009G163800' => 'ptr', 'Potri.010G087300' => 'ptr', 'Potri.010G239100' => 'ptr', 'Pp3c10_16100' => 'ppa', 'Pp3c10_16880' => 'ppa', 'Pp3c16_6230' => 'ppa', 'Pp3c17_18910' => 'ppa', 'Pp3c3_22119' => 'ppa', 'Pp3c3_22140' => 'ppa', 'Pp3c4_8159' => 'ppa', 'Pp3c4_8171' => 'ppa', 'Pp3c4_8330' => 'ppa', 'PRCOL_00004098' => 'pco', 'Prupe.1G013900' => 'ppe', 'Prupe.1G226300' => 'ppe', 'Prupe.1G573600' => 'ppe', 'Prupe.6G130100' => 'ppe', 'Psat3g090040' => 'psa', 'Psat4g210440' => 'psa', 'Psat6g231040' => 'psa', 'Psat6g231080' => 'psa', 'Psat7g063000' => 'psa', 'Psat7g188000' => 'psa', 'Psat7g188040' => 'psa', 'PSO017G0206' => 'pso', 'PSO170G0501' => 'pso', 'PSO170G6422' => 'pso', 'PSO210G7739' => 'pso', 'PSO339G1808' => 'pso', 'PSO339G6135' => 'pso', 'PSO384G0010' => 'pso', 'PSO384G0964' => 'pso', 'PSO761G0050' => 'pso', 'PSO782G4085' => 'pso', 'QL01p012264' => 'qlo', 'QL02p099491' => 'qlo', 'QL03p033868' => 'qlo', 'QL04p046678' => 'qlo', 'QL06p002448' => 'qlo', 'RcHm_v2.0_Chr4g0416181' => 'rch', 'RcHm_v2.0_Chr5g0044701' => 'rch', 'RcHm_v2.0_Chr6g0265781' => 'rch', 'RcHm_v2.0_Chr7g0221031' => 'rch', 'Rhsim04G0202000' => 'rsi', 'Rhsim11G0127300' => 'rsi', 'Rhsim13G0111800' => 'rsi', 'Sabra01G0165600' => 'sbr', 'Sabra03G0008300' => 'sbr', 'Sabra04G0136900' => 'sbr', 'Sabra08G0013400' => 'sbr', 'Sabra08G0116800' => 'sbr', 'Sabra09G0128000' => 'sbr', 'Sabra10G0055500' => 'sbr', 'Sabra10G0073300' => 'sbr', 'SalBow3G0385' => 'sbo', 'SalBow3G1119' => 'sbo', 'SalBow3G2005' => 'sbo', 'SalBow6G2563' => 'sbo', 'SalBow6G6386' => 'sbo', 'Sc06g0008800' => 'sci', 'Sc07g0004950' => 'sci', 'Sc09g0005340' => 'sci', 'Sc13g0004410' => 'sci', 'Sc21g0007090' => 'sci', 'Sed0009285' => 'sed', 'Sed0017583' => 'sed', 'Sed0019699' => 'sed', 'Sed0023107' => 'sed', 'SEGI_10916' => 'sgi', 'SEGI_16217' => 'sgi', 'SEGI_19466' => 'sgi', 'SEGI_41115' => 'sgi', 'SGA_v2.0_scaffold111G31534' => 'sas', 'SGA_v2.0_scaffold22G09864' => 'sas', 'SGA_v2.0_scaffold338G49219' => 'sas', 'SGA_v2.0_scaffold92G28298' => 'sas', 'SMO119G0064' => 'smo', 'SMO223G0038' => 'smo', 'SMO347G0584' => 'smo', 'SMO351G0010' => 'smo', 'SMO356G0404' => 'smo', 'Solyc01g103920.3' => 'sly', 'Solyc04g009710.2' => 'sly', 'Solyc05g055280.2' => 'sly', 'Solyc10g044520.3' => 'sly', 'Solyc10g075160.1' => 'sly', 'Solyc11g006910.3' => 'sly', 'Solyc11g068430.3' => 'sly', 'Sopen01g046310' => 'spe', 'Sopen03g001200' => 'spe', 'Sopen04g004830' => 'spe', 'Sopen05g033720' => 'spe', 'Sopen06g030740' => 'spe', 'Sopen10g013090' => 'spe', 'Sopen10g027630' => 'spe', 'Sopen10g027640' => 'spe', 'Sopen11g002820' => 'spe', 'Sopen11g027140' => 'spe', 'Sp1g09680' => 'spa', 'Sp2g03630' => 'spa', 'Sp4g10320' => 'spa', 'Sp6g33400' => 'spa', 'Sp7g13030' => 'spa', 'TAR365G0317' => 'tar', 'TAR376G0979' => 'tar', 'TAR623G1665' => 'tar', 'TAR633G2373' => 'tar', 'TAR636G1400' => 'tar', 'THA.LOC104800529' => 'tha', 'THA.LOC104808547' => 'tha', 'THA.LOC104809615' => 'tha', 'THA.LOC104815724' => 'tha', 'THA.LOC104818480' => 'tha', 'THA.LOC104819179' => 'tha', 'THA.LOC104822270' => 'tha', 'THA.LOC104826425' => 'tha', 'Thecc.02G089700' => 'tca', 'Thecc.04G232300' => 'tca', 'Thecc.09G283400' => 'tca', 'Thhalv10009020m.g' => 'esa', 'Thhalv10015506m.g' => 'esa', 'Thhalv10017364m.g' => 'esa', 'Thhalv10023742m.g' => 'esa', 'Thhalv10026483m.g' => 'esa', 'TPR.G17232' => 'tpr', 'TPR.G2133' => 'tpr', 'TPR.G2498' => 'tpr', 'TPR.G31942' => 'tpr', 'TPR.G37877' => 'tpr', 'TPR.G4571' => 'tpr', 'TWI14G1113' => 'twi', 'TWI15G0426' => 'twi', 'TWI31G1005' => 'twi', 'TWI38G0513' => 'twi', 'TWI38G1484' => 'twi', 'TWI73G1098' => 'twi', 'unitig_26.g10519' => 'ugi', 'unitig_736.g22395' => 'ugi', 'unitig_747.g21234' => 'ugi', 'unitig_747.g21942' => 'ugi', 'vmacro14351' => 'vma', 'VMungo0540G0082' => 'vmu', 'VMungo0540G0405' => 'vmu', 'VMungo0540G1486' => 'vmu', 'VMungo0540G1692' => 'vmu', 'VMungo0720G2473' => 'vmu', 'VMungo1127G1562' => 'vmu', 'VMungo1215G1918' => 'vmu', 'Zm00001eb052650' => 'zma', 'Zm00001eb063710' => 'zma', 'Zm00001eb083950' => 'zma', 'Zm00001eb174420' => 'zma', 'Zm00001eb260140' => 'zma', 'Zm00001eb260150' => 'zma', 'Zm00001eb260160' => 'zma', 'Zm00001eb348290' => 'zma', 'Zm00001eb366870' => 'zma', 'Zm00001eb421930' => 'zma' ) $gf_id = 'HOM05D001025' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001025' ) $data_identifier = 'HOM05D001025' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 19, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 2, 'amhyb' => (int) 4, 'aly' => (int) 4, 'aox' => (int) 4, 'arhy' => (int) 3, 'ath' => (int) 5, 'atr' => (int) 4, 'acertr' => (int) 3, 'cqu' => (int) 7, 'bca' => (int) 17, 'bol' => (int) 10, 'bra' => (int) 9, 'can' => (int) 10, 'cansat' => (int) 6, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 5, 'cbr' => (int) 5, 'ccan' => (int) 5, 'cde' => (int) 4, 'cfa' => (int) 3, 'ccl' => (int) 6, 'cil' => (int) 4, 'cla' => (int) 3, 'col' => (int) 3, 'cpa' => (int) 3, 'cre' => (int) 7, 'csa' => (int) 5, 'camsi' => (int) 9, 'dca' => (int) 4, 'din' => (int) 5, 'dzi' => (int) 7, 'eca' => (int) 6, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 12, 'fve' => (int) 4, 'gma' => (int) 12, 'ghi' => (int) 17, 'gra' => (int) 9, 'vvi' => (int) 2, 'han' => (int) 8, 'cav' => (int) 5, 'hma' => (int) 9, 'vpl' => (int) 4, 'sun' => (int) 2, 'lal' => (int) 9, 'lja' => (int) 5, 'lonja' => (int) 6, 'lsa' => (int) 3, 'mes' => (int) 8, 'mpo' => (int) 3, 'mbi' => (int) 4, 'mco' => (int) 3, 'mdo' => (int) 5, 'mtr' => (int) 7, 'cme' => (int) 6, 'egut' => (int) 7, 'ama' => (int) 3, 'nta' => (int) 12, 'nnu' => (int) 9, 'oeu' => (int) 4, 'osa' => (int) 7, 'pax' => (int) 9, 'pgr' => (int) 5, 'stu' => (int) 8, 'pvu' => (int) 6, 'ptr' => (int) 9, 'ppa' => (int) 9, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 7, 'pso' => (int) 10, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 3, 'sbr' => (int) 8, 'sbo' => (int) 5, 'sci' => (int) 5, 'sed' => (int) 4, 'sgi' => (int) 4, 'sas' => (int) 4, 'smo' => (int) 5, 'sly' => (int) 7, 'spe' => (int) 10, 'spa' => (int) 5, 'tar' => (int) 5, 'tha' => (int) 8, 'tca' => (int) 3, 'esa' => (int) 5, 'tpr' => (int) 6, 'twi' => (int) 6, 'ugi' => (int) 4, 'vma' => (int) 1, 'vmu' => (int) 7, 'zma' => (int) 10 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb421930' $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' => 'HOM05D001025', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '592', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p22650' => 'bna', 'A01p29720' => 'bna', 'A03p26560' => 'bna', 'A03p68820' => 'bna', 'A04p20980' => 'bna', 'A06p07730' => 'bna', 'A07p18260' => 'bna', 'A08p33710' => 'bna', 'A09p16970' => 'bna', 'A10p27490' => 'bna', 'Aa31LG1G17300' => 'aar', 'Aa31LG1G3910' => 'aar', 'Aa31LG2G9630' => 'aar', 'Aa31LG5G8360' => 'aar', 'Aa31LG9G2410' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4699' => 'aag', 'Actinidia23512' => 'ach', 'Actinidia37080' => 'ach', 'Ah.01g020380' => 'amhyb', 'Ah.08g215710' => 'amhyb', 'Ah.09g225110' => 'amhyb', 'Ah.10g036680' => 'amhyb', 'AL1G21940' => 'aly', 'AL2G15540' => 'aly', 'AL4G21520' => 'aly', 'AL7G40960' => 'aly', 'Aqoxy2G01191' => 'aox', 'Aqoxy2G03393' => 'aox', 'Aqoxy4G02775' => 'aox', 'Aqoxy6G00058' => 'aox', 'arahy.Tifrunner.gnm1.ann1.9X74H2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CW3FX9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R485W7' => 'arhy', 'AT1G10960' => 'ath', 'AT1G60950' => 'ath', 'AT2G27510' => 'ath', 'AT4G14890' => 'ath', 'AT5G10000' => 'ath', 'ATR0665G624' => 'atr', 'ATR0697G138' => 'atr', 'ATR0776G046' => 'atr', 'ATR1134G135' => 'atr', 'Atru.chr12.1025' => 'acertr', 'Atru.chr3.3241' => 'acertr', 'Atru.chr4.2460' => 'acertr', 'AUR62007427' => 'cqu', 'AUR62010960' => 'cqu', 'AUR62012201' => 'cqu', 'AUR62021470' => 'cqu', 'AUR62022834' => 'cqu', 'AUR62033635' => 'cqu', 'AUR62036186' => 'cqu', 'BcaB01g03077' => 'bca', 'BcaB02g10093' => 'bca', 'BcaB04g20295' => 'bca', 'BcaB06g28147' => 'bca', 'BcaB07g31253' => 'bca', 'BcaC01g04946' => 'bca', 'BcaC02g10614' => 'bca', 'BcaC02g10885' => 'bca', 'BcaC04g19356' => 'bca', 'BcaC04g22297' => 'bca', 'BcaC05g24977' => 'bca', 'BcaC06g31823' => 'bca', 'BcaC07g38633' => 'bca', 'BcaC09g49353' => 'bca', 'BcaC09g50168' => 'bca', 'BcaNung00322' => 'bca', 'BcaNung04769' => 'bca', 'BolC1t02753H' => 'bol', 'BolC1t03721H' => 'bol', 'BolC3t15525H' => 'bol', 'BolC4t23903H' => 'bol', 'BolC4t24231H' => 'bol', 'BolC4t27209H' => 'bol', 'BolC5t29671H' => 'bol', 'BolC8t49044H' => 'bol', 'BolC9t54999H' => 'bol', 'BolC9t59517H' => 'bol', 'BraA01t02178Z' => 'bra', 'BraA01t03099Z' => 'bra', 'BraA03t11867Z' => 'bra', 'BraA04t17667Z' => 'bra', 'BraA07t29542Z' => 'bra', 'BraA08t35287Z' => 'bra', 'BraA09t37334Z' => 'bra', 'BraA10t44801Z' => 'bra', 'BraSC39t46181Z' => 'bra', 'C01p28240' => 'bna', 'C01p37530' => 'bna', 'C03p31820' => 'bna', 'C04p24080' => 'bna', 'C04p25790' => 'bna', 'C04p56770' => 'bna', 'C05p09310' => 'bna', 'C09p21010' => 'bna', 'C09p67560' => 'bna', 'CAN.G1324.7' => 'can', 'CAN.G1358.10' => 'can', 'CAN.G1550.2' => 'can', 'CAN.G186.56' => 'can', 'CAN.G1965.1' => 'can', 'CAN.G645.15' => 'can', 'CAN.G798.26' => 'can', 'CAN.G798.27' => 'can', 'CAN.G798.29' => 'can', 'CAN.G919.31' => 'can', 'CANSAT11G0133' => 'cansat', 'CANSAT11G1171' => 'cansat', 'CANSAT11G2056' => 'cansat', 'CANSAT56G1202' => 'cansat', 'CANSAT56G1514' => 'cansat', 'CANSAT78G0455' => 'cansat', 'CARHR011190' => 'chi', 'CARHR051980' => 'chi', 'CARHR120170' => 'chi', 'CARHR203310' => 'chi', 'CARHR221490' => 'chi', 'Carub.0001s1054' => 'cru', 'Carub.0002s0431' => 'cru', 'Carub.0004s0818' => 'cru', 'Carub.0006s0846' => 'cru', 'Carub.0007s2722' => 'cru', 'Ca_00058_v3' => 'car', 'Ca_17831_v3' => 'car', 'Ca_19408_v3' => 'car', 'Ca_24397_v3' => 'car', 'Ca_25664_v3' => 'car', 'CBR_g21818' => 'cbr', 'CBR_g31195' => 'cbr', 'CBR_g32282' => 'cbr', 'CBR_g39599' => 'cbr', 'CBR_g49410' => 'cbr', 'Cc01_g09120' => 'ccan', 'Cc01_g09130' => 'ccan', 'Cc02_g09630' => 'ccan', 'Cc02_g22810' => 'ccan', 'Cc03_g03810' => 'ccan', 'CDE02G3718' => 'cde', 'CDE04G3183' => 'cde', 'CDE07G1046' => 'cde', 'CDE08G0480' => 'cde', 'Cfa005493' => 'cfa', 'Cfa010312' => 'cfa', 'Cfa015648' => 'cfa', 'Ciclev10002793m.g' => 'ccl', 'Ciclev10003356m.g' => 'ccl', 'Ciclev10006141m.g' => 'ccl', 'Ciclev10016676m.g' => 'ccl', 'Ciclev10017081m.g' => 'ccl', 'Ciclev10029499m.g' => 'ccl', 'CiPaw.01G166300' => 'cil', 'CiPaw.06G145600' => 'cil', 'CiPaw.13G040100' => 'cil', 'CiPaw.13G135800' => 'cil', 'ClCG01G012230' => 'cla', 'ClCG05G009510' => 'cla', 'ClCG08G008270' => 'cla', 'COL.COLO4_11763' => 'col', 'COL.COLO4_19876' => 'col', 'COL.COLO4_21481' => 'col', 'Cpa.g.sc118.34' => 'cpa', 'Cpa.g.sc32.13' => 'cpa', 'Cpa.g.sc58.103' => 'cpa', 'Cre03.g183850' => 'cre', 'Cre06.g306350' => 'cre', 'Cre07.g334800' => 'cre', 'Cre12.g487900' => 'cre', 'Cre14.g626700' => 'cre', 'Cre16.g658400' => 'cre', 'Cre17.g700950' => 'cre', 'CsaV3_1G014830' => 'csa', 'CsaV3_3G013320' => 'csa', 'CsaV3_3G019210' => 'csa', 'CsaV3_3G019220' => 'csa', 'CsaV3_6G004230' => 'csa', 'CSS0003773' => 'camsi', 'CSS0004563' => 'camsi', 'CSS0013949' => 'camsi', 'CSS0025971' => 'camsi', 'CSS0028570' => 'camsi', 'CSS0033127' => 'camsi', 'CSS0036051' => 'camsi', 'CSS0040087' => 'camsi', 'CSS0043179' => 'camsi', 'DCAR_006161' => 'dca', 'DCAR_010351' => 'dca', 'DCAR_012197' => 'dca', 'DCAR_024162' => 'dca', 'Dinv01030' => 'din', 'Dinv10924' => 'din', 'Dinv11835' => 'din', 'Dinv22841' => 'din', 'Dinv42553' => 'din', 'Duzib052G0560' => 'dzi', 'Duzib132G0389' => 'dzi', 'Duzib150G1181' => 'dzi', 'Duzib168G0623' => 'dzi', 'Duzib170G1036' => 'dzi', 'Duzib212G0200' => 'dzi', 'Duzib248G0194' => 'dzi', 'ECA232G2193' => 'eca', 'ECA233G0302' => 'eca', 'ECA234G2813' => 'eca', 'ECA234G4866' => 'eca', 'ECA240G3932' => 'eca', 'ECA248G0385' => 'eca', 'EL10Ac2g04781' => 'bvu', 'EL10Ac3g06445' => 'bvu', 'EL10Ac7g15825' => 'bvu', 'EL10Ac8g18550' => 'bvu', 'Eucgr.B03849' => 'egr', 'Eucgr.I02744' => 'egr', 'Eucgr.J00264' => 'egr', 'Eucgr.J00493' => 'egr', 'FAN04G2181' => 'fan', 'FAN07G2666' => 'fan', 'FAN11G0024' => 'fan', 'FAN12G1105' => 'fan', 'FAN13G0302' => 'fan', 'FAN15G2781' => 'fan', 'FAN16G1274' => 'fan', 'FAN17G2988' => 'fan', 'FAN18G2621' => 'fan', 'FAN21G0013' => 'fan', 'FAN22G1211' => 'fan', 'FAN25G3626' => 'fan', 'FvH4_2g09491' => 'fve', 'FvH4_3g24910' => 'fve', 'FvH4_4g15630' => 'fve', 'FvH4_5g28820' => 'fve', 'Glyma.01G238000' => 'gma', 'Glyma.05G168400' => 'gma', 'Glyma.08G126800' => 'gma', 'Glyma.08G188500' => 'gma', 'Glyma.10G278900' => 'gma', 'Glyma.11G005700' => 'gma', 'Glyma.11G183300' => 'gma', 'Glyma.12G089200' => 'gma', 'Glyma.12G169400' => 'gma', 'Glyma.12G169500' => 'gma', 'Glyma.12G169600' => 'gma', 'Glyma.20G110800' => 'gma', 'Gohir.A03G192900' => 'ghi', 'Gohir.A03G193000' => 'ghi', 'Gohir.A05G080700' => 'ghi', 'Gohir.A09G216000' => 'ghi', 'Gohir.A12G027700' => 'ghi', 'Gohir.A13G036200' => 'ghi', 'Gohir.A13G222600' => 'ghi', 'Gohir.D02G213900' => 'ghi', 'Gohir.D02G214000' => 'ghi', 'Gohir.D05G083700' => 'ghi', 'Gohir.D05G083800' => 'ghi', 'Gohir.D05G083850' => 'ghi', 'Gohir.D08G015400' => 'ghi', 'Gohir.D09G218400' => 'ghi', 'Gohir.D12G027100' => 'ghi', 'Gohir.D13G034500' => 'ghi', 'Gohir.D13G227400' => 'ghi', 'Gorai.005G241800' => 'gra', 'Gorai.005G241900' => 'gra', 'Gorai.006G239400' => 'gra', 'Gorai.008G027600' => 'gra', 'Gorai.009G085400' => 'gra', 'Gorai.009G085500' => 'gra', 'Gorai.013G039000' => 'gra', 'Gorai.013G194800' => 'gra', 'Gorai.013G257900' => 'gra', 'GSVIVG01000982001' => 'vvi', 'GSVIVG01017981001' => 'vvi', 'HanXRQChr01g0024061' => 'han', 'HanXRQChr09g0247831' => 'han', 'HanXRQChr10g0294611' => 'han', 'HanXRQChr10g0294621' => 'han', 'HanXRQChr11g0346821' => 'han', 'HanXRQChr13g0397461' => 'han', 'HanXRQChr16g0513651' => 'han', 'HanXRQChr16g0513701' => 'han', 'Haze_00897' => 'cav', 'Haze_01745' => 'cav', 'Haze_02486' => 'cav', 'Haze_02487' => 'cav', 'Haze_23374' => 'cav', 'Hma1.2p1_0578F.1_g182520' => 'hma', 'Hma1.2p1_0602F.1_g187350' => 'hma', 'Hma1.2p1_0602F.1_g187360' => 'hma', 'Hma1.2p1_0874F.1_g231320' => 'hma', 'Hma1.2p1_1197F.1_g266210' => 'hma', 'Hma1.2p1_1197F.1_g266220' => 'hma', 'Hma1.2p1_2167F.1_g315895' => 'hma', 'Hma1.2p1_2190F.1_g316640' => 'hma', 'Hma1.2p1_3645F.1_g337153' => 'hma', 'HPP92_004907' => 'vpl', 'HPP92_012134' => 'vpl', 'HPP92_025136' => 'vpl', 'HPP92_026087' => 'vpl', 'Hund06782' => 'sun', 'Hund06784' => 'sun', 'Lalb_Chr01g0004861' => 'lal', 'Lalb_Chr02g0140591' => 'lal', 'Lalb_Chr02g0140611' => 'lal', 'Lalb_Chr03g0028101' => 'lal', 'Lalb_Chr07g0185791' => 'lal', 'Lalb_Chr12g0204491' => 'lal', 'Lalb_Chr13g0295671' => 'lal', 'Lalb_Chr19g0136461' => 'lal', 'Lalb_Chr21g0309191' => 'lal', 'Lj1g0028158' => 'lja', 'Lj1P236T38' => 'lonja', 'Lj2C32G2' => 'lonja', 'Lj2P944T8' => 'lonja', 'Lj2P963T15' => 'lonja', 'Lj3g0011788' => 'lja', 'Lj4g0025027' => 'lja', 'Lj5P255T36' => 'lonja', 'Lj6g0018866' => 'lja', 'Lj6P608T31' => 'lonja', 'LjContig00408g0008879' => 'lja', 'Lsat_1_v5_gn_5_105820' => 'lsa', 'Lsat_1_v5_gn_6_38800' => 'lsa', 'Lsat_1_v5_gn_7_67141' => 'lsa', 'Manes.04G003400' => 'mes', 'Manes.07G020000' => 'mes', 'Manes.07G020100' => 'mes', 'Manes.07G020150' => 'mes', 'Manes.10G061500' => 'mes', 'Manes.10G123200' => 'mes', 'Manes.11G161900' => 'mes', 'Manes.15G029300' => 'mes', 'Mapoly0071s0018' => 'mpo', 'Mapoly0082s0023' => 'mpo', 'Mapoly3477s0001' => 'mpo', 'MBI05_g31233_MAGBIO' => 'mbi', 'MBI09_g05946_MAGBIO' => 'mbi', 'MBI09_g05947_MAGBIO' => 'mbi', 'MBI17_g08346_MAGBIO' => 'mbi', 'MCO04G038' => 'mco', 'MCO09G370' => 'mco', 'MCO13G605' => 'mco', 'MD00G1075500' => 'mdo', 'MD03G1144300' => 'mdo', 'MD08G1236800' => 'mdo', 'MD13G1193300' => 'mdo', 'MD15G1428700' => 'mdo', 'Medtr1g112030' => 'mtr', 'Medtr1g112050' => 'mtr', 'Medtr2g006290' => 'mtr', 'Medtr2g086510' => 'mtr', 'Medtr4g053120' => 'mtr', 'Medtr5g006320' => 'mtr', 'Medtr8g088720' => 'mtr', 'MELO3C004712.2' => 'cme', 'MELO3C006533.2' => 'cme', 'MELO3C019438.2' => 'cme', 'MELO3C019440.2' => 'cme', 'MELO3C019441.2' => 'cme', 'MELO3C019895.2' => 'cme', 'Migut.B00811' => 'egut', 'Migut.D02447' => 'egut', 'Migut.F00875' => 'egut', 'Migut.N00186' => 'egut', 'Migut.N01051' => 'egut', 'Migut.N02491' => 'egut', 'Migut.O00784' => 'egut', 'MSTRG.12367' => 'ama', 'MSTRG.18756' => 'ama', 'MSTRG.21042' => 'ama', 'Nitab4.5_0000559g0040' => 'nta', 'Nitab4.5_0000667g0190' => 'nta', 'Nitab4.5_0000755g0160' => 'nta', 'Nitab4.5_0001216g0080' => 'nta', 'Nitab4.5_0004069g0040' => 'nta', 'Nitab4.5_0004129g0010' => 'nta', 'Nitab4.5_0005744g0030' => 'nta', 'Nitab4.5_0006996g0030' => 'nta', 'Nitab4.5_0008971g0040' => 'nta', 'Nitab4.5_0009769g0020' => 'nta', 'Nitab4.5_0009833g0010' => 'nta', 'Nitab4.5_0013140g0020' => 'nta', 'Nn003s41376' => 'nnu', 'Nn1g01857' => 'nnu', 'Nn1g03611' => 'nnu', 'Nn1g06853' => 'nnu', 'Nn3g18360' => 'nnu', 'Nn4g26328' => 'nnu', 'Nn5g27531' => 'nnu', 'Nn6g34899' => 'nnu', 'Nn7g36299' => 'nnu', 'Oeu021485.1' => 'oeu', 'Oeu022433.1' => 'oeu', 'Oeu032111.1' => 'oeu', 'Oeu051608.1' => 'oeu', 'Os01g0860601' => 'osa', 'Os03g0659200' => 'osa', 'Os03g0835900' => 'osa', 'Os04g0412200' => 'osa', 'Os05g0443500' => 'osa', 'Os07g0251500' => 'osa', 'Os08g0104600' => 'osa', 'Peaxi162Scf00003g00047' => 'pax', 'Peaxi162Scf00003g00052' => 'pax', 'Peaxi162Scf00003g00394' => 'pax', 'Peaxi162Scf00091g00621' => 'pax', 'Peaxi162Scf00152g00146' => 'pax', 'Peaxi162Scf00173g00025' => 'pax', 'Peaxi162Scf00195g00102' => 'pax', 'Peaxi162Scf00402g00013' => 'pax', 'Peaxi162Scf00519g00618' => 'pax', 'PGR004G2838' => 'pgr', 'PGR044G2275' => 'pgr', 'PGR102G1377' => 'pgr', 'PGR119G1245' => 'pgr', 'PGR142G4449' => 'pgr', 'PGSC0003DMG400004532' => 'stu', 'PGSC0003DMG400011950' => 'stu', 'PGSC0003DMG400023391' => 'stu', 'PGSC0003DMG400023985' => 'stu', 'PGSC0003DMG400026360' => 'stu', 'PGSC0003DMG400035711' => 'stu', 'PGSC0003DMG400037286' => 'stu', 'PGSC0003DMG402005881' => 'stu', 'Phvul.002G045400' => 'pvu', 'Phvul.006G216600' => 'pvu', 'Phvul.006G216700' => 'pvu', 'Phvul.006G216800' => 'pvu', 'Phvul.007G022500' => 'pvu', 'Phvul.011G094400' => 'pvu', 'Potri.001G470700' => 'ptr', 'Potri.003G015200' => 'ptr', 'Potri.004G202500' => 'ptr', 'Potri.004G218400' => 'ptr', 'Potri.008G020100' => 'ptr', 'Potri.008G153200' => 'ptr', 'Potri.009G163800' => 'ptr', 'Potri.010G087300' => 'ptr', 'Potri.010G239100' => 'ptr', 'Pp3c10_16100' => 'ppa', 'Pp3c10_16880' => 'ppa', 'Pp3c16_6230' => 'ppa', 'Pp3c17_18910' => 'ppa', 'Pp3c3_22119' => 'ppa', 'Pp3c3_22140' => 'ppa', 'Pp3c4_8159' => 'ppa', 'Pp3c4_8171' => 'ppa', 'Pp3c4_8330' => 'ppa', 'PRCOL_00004098' => 'pco', 'Prupe.1G013900' => 'ppe', 'Prupe.1G226300' => 'ppe', 'Prupe.1G573600' => 'ppe', 'Prupe.6G130100' => 'ppe', 'Psat3g090040' => 'psa', 'Psat4g210440' => 'psa', 'Psat6g231040' => 'psa', 'Psat6g231080' => 'psa', 'Psat7g063000' => 'psa', 'Psat7g188000' => 'psa', 'Psat7g188040' => 'psa', 'PSO017G0206' => 'pso', 'PSO170G0501' => 'pso', 'PSO170G6422' => 'pso', 'PSO210G7739' => 'pso', 'PSO339G1808' => 'pso', 'PSO339G6135' => 'pso', 'PSO384G0010' => 'pso', 'PSO384G0964' => 'pso', 'PSO761G0050' => 'pso', 'PSO782G4085' => 'pso', 'QL01p012264' => 'qlo', 'QL02p099491' => 'qlo', 'QL03p033868' => 'qlo', 'QL04p046678' => 'qlo', 'QL06p002448' => 'qlo', 'RcHm_v2.0_Chr4g0416181' => 'rch', 'RcHm_v2.0_Chr5g0044701' => 'rch', 'RcHm_v2.0_Chr6g0265781' => 'rch', 'RcHm_v2.0_Chr7g0221031' => 'rch', 'Rhsim04G0202000' => 'rsi', 'Rhsim11G0127300' => 'rsi', 'Rhsim13G0111800' => 'rsi', 'Sabra01G0165600' => 'sbr', 'Sabra03G0008300' => 'sbr', 'Sabra04G0136900' => 'sbr', 'Sabra08G0013400' => 'sbr', 'Sabra08G0116800' => 'sbr', 'Sabra09G0128000' => 'sbr', 'Sabra10G0055500' => 'sbr', 'Sabra10G0073300' => 'sbr', 'SalBow3G0385' => 'sbo', 'SalBow3G1119' => 'sbo', 'SalBow3G2005' => 'sbo', 'SalBow6G2563' => 'sbo', 'SalBow6G6386' => 'sbo', 'Sc06g0008800' => 'sci', 'Sc07g0004950' => 'sci', 'Sc09g0005340' => 'sci', 'Sc13g0004410' => 'sci', 'Sc21g0007090' => 'sci', 'Sed0009285' => 'sed', 'Sed0017583' => 'sed', 'Sed0019699' => 'sed', 'Sed0023107' => 'sed', 'SEGI_10916' => 'sgi', 'SEGI_16217' => 'sgi', 'SEGI_19466' => 'sgi', 'SEGI_41115' => 'sgi', 'SGA_v2.0_scaffold111G31534' => 'sas', 'SGA_v2.0_scaffold22G09864' => 'sas', 'SGA_v2.0_scaffold338G49219' => 'sas', 'SGA_v2.0_scaffold92G28298' => 'sas', 'SMO119G0064' => 'smo', 'SMO223G0038' => 'smo', 'SMO347G0584' => 'smo', 'SMO351G0010' => 'smo', 'SMO356G0404' => 'smo', 'Solyc01g103920.3' => 'sly', 'Solyc04g009710.2' => 'sly', 'Solyc05g055280.2' => 'sly', 'Solyc10g044520.3' => 'sly', 'Solyc10g075160.1' => 'sly', 'Solyc11g006910.3' => 'sly', 'Solyc11g068430.3' => 'sly', 'Sopen01g046310' => 'spe', 'Sopen03g001200' => 'spe', 'Sopen04g004830' => 'spe', 'Sopen05g033720' => 'spe', 'Sopen06g030740' => 'spe', 'Sopen10g013090' => 'spe', 'Sopen10g027630' => 'spe', 'Sopen10g027640' => 'spe', 'Sopen11g002820' => 'spe', 'Sopen11g027140' => 'spe', 'Sp1g09680' => 'spa', 'Sp2g03630' => 'spa', 'Sp4g10320' => 'spa', 'Sp6g33400' => 'spa', 'Sp7g13030' => 'spa', 'TAR365G0317' => 'tar', 'TAR376G0979' => 'tar', 'TAR623G1665' => 'tar', 'TAR633G2373' => 'tar', 'TAR636G1400' => 'tar', 'THA.LOC104800529' => 'tha', 'THA.LOC104808547' => 'tha', 'THA.LOC104809615' => 'tha', 'THA.LOC104815724' => 'tha', 'THA.LOC104818480' => 'tha', 'THA.LOC104819179' => 'tha', 'THA.LOC104822270' => 'tha', 'THA.LOC104826425' => 'tha', 'Thecc.02G089700' => 'tca', 'Thecc.04G232300' => 'tca', 'Thecc.09G283400' => 'tca', 'Thhalv10009020m.g' => 'esa', 'Thhalv10015506m.g' => 'esa', 'Thhalv10017364m.g' => 'esa', 'Thhalv10023742m.g' => 'esa', 'Thhalv10026483m.g' => 'esa', 'TPR.G17232' => 'tpr', 'TPR.G2133' => 'tpr', 'TPR.G2498' => 'tpr', 'TPR.G31942' => 'tpr', 'TPR.G37877' => 'tpr', 'TPR.G4571' => 'tpr', 'TWI14G1113' => 'twi', 'TWI15G0426' => 'twi', 'TWI31G1005' => 'twi', 'TWI38G0513' => 'twi', 'TWI38G1484' => 'twi', 'TWI73G1098' => 'twi', 'unitig_26.g10519' => 'ugi', 'unitig_736.g22395' => 'ugi', 'unitig_747.g21234' => 'ugi', 'unitig_747.g21942' => 'ugi', 'vmacro14351' => 'vma', 'VMungo0540G0082' => 'vmu', 'VMungo0540G0405' => 'vmu', 'VMungo0540G1486' => 'vmu', 'VMungo0540G1692' => 'vmu', 'VMungo0720G2473' => 'vmu', 'VMungo1127G1562' => 'vmu', 'VMungo1215G1918' => 'vmu', 'Zm00001eb052650' => 'zma', 'Zm00001eb063710' => 'zma', 'Zm00001eb083950' => 'zma', 'Zm00001eb174420' => 'zma', 'Zm00001eb260140' => 'zma', 'Zm00001eb260150' => 'zma', 'Zm00001eb260160' => 'zma', 'Zm00001eb348290' => 'zma', 'Zm00001eb366870' => 'zma', 'Zm00001eb421930' => 'zma' ), 'gf_id' => 'HOM05D001025', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001025' ), 'data_identifier' => 'HOM05D001025', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001025', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '592', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p22650' => 'bna', 'A01p29720' => 'bna', 'A03p26560' => 'bna', 'A03p68820' => 'bna', 'A04p20980' => 'bna', 'A06p07730' => 'bna', 'A07p18260' => 'bna', 'A08p33710' => 'bna', 'A09p16970' => 'bna', 'A10p27490' => 'bna', 'Aa31LG1G17300' => 'aar', 'Aa31LG1G3910' => 'aar', 'Aa31LG2G9630' => 'aar', 'Aa31LG5G8360' => 'aar', 'Aa31LG9G2410' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4699' => 'aag', 'Actinidia23512' => 'ach', 'Actinidia37080' => 'ach', 'Ah.01g020380' => 'amhyb', 'Ah.08g215710' => 'amhyb', 'Ah.09g225110' => 'amhyb', 'Ah.10g036680' => 'amhyb', 'AL1G21940' => 'aly', 'AL2G15540' => 'aly', 'AL4G21520' => 'aly', 'AL7G40960' => 'aly', 'Aqoxy2G01191' => 'aox', 'Aqoxy2G03393' => 'aox', 'Aqoxy4G02775' => 'aox', 'Aqoxy6G00058' => 'aox', 'arahy.Tifrunner.gnm1.ann1.9X74H2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CW3FX9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R485W7' => 'arhy', 'AT1G10960' => 'ath', 'AT1G60950' => 'ath', 'AT2G27510' => 'ath', 'AT4G14890' => 'ath', 'AT5G10000' => 'ath', 'ATR0665G624' => 'atr', 'ATR0697G138' => 'atr', 'ATR0776G046' => 'atr', 'ATR1134G135' => 'atr', 'Atru.chr12.1025' => 'acertr', 'Atru.chr3.3241' => 'acertr', 'Atru.chr4.2460' => 'acertr', 'AUR62007427' => 'cqu', 'AUR62010960' => 'cqu', 'AUR62012201' => 'cqu', 'AUR62021470' => 'cqu', 'AUR62022834' => 'cqu', 'AUR62033635' => 'cqu', 'AUR62036186' => 'cqu', 'BcaB01g03077' => 'bca', 'BcaB02g10093' => 'bca', 'BcaB04g20295' => 'bca', 'BcaB06g28147' => 'bca', 'BcaB07g31253' => 'bca', 'BcaC01g04946' => 'bca', 'BcaC02g10614' => 'bca', 'BcaC02g10885' => 'bca', 'BcaC04g19356' => 'bca', 'BcaC04g22297' => 'bca', 'BcaC05g24977' => 'bca', 'BcaC06g31823' => 'bca', 'BcaC07g38633' => 'bca', 'BcaC09g49353' => 'bca', 'BcaC09g50168' => 'bca', 'BcaNung00322' => 'bca', 'BcaNung04769' => 'bca', 'BolC1t02753H' => 'bol', 'BolC1t03721H' => 'bol', 'BolC3t15525H' => 'bol', 'BolC4t23903H' => 'bol', 'BolC4t24231H' => 'bol', 'BolC4t27209H' => 'bol', 'BolC5t29671H' => 'bol', 'BolC8t49044H' => 'bol', 'BolC9t54999H' => 'bol', 'BolC9t59517H' => 'bol', 'BraA01t02178Z' => 'bra', 'BraA01t03099Z' => 'bra', 'BraA03t11867Z' => 'bra', 'BraA04t17667Z' => 'bra', 'BraA07t29542Z' => 'bra', 'BraA08t35287Z' => 'bra', 'BraA09t37334Z' => 'bra', 'BraA10t44801Z' => 'bra', 'BraSC39t46181Z' => 'bra', 'C01p28240' => 'bna', 'C01p37530' => 'bna', 'C03p31820' => 'bna', 'C04p24080' => 'bna', 'C04p25790' => 'bna', 'C04p56770' => 'bna', 'C05p09310' => 'bna', 'C09p21010' => 'bna', 'C09p67560' => 'bna', 'CAN.G1324.7' => 'can', 'CAN.G1358.10' => 'can', 'CAN.G1550.2' => 'can', 'CAN.G186.56' => 'can', 'CAN.G1965.1' => 'can', 'CAN.G645.15' => 'can', 'CAN.G798.26' => 'can', 'CAN.G798.27' => 'can', 'CAN.G798.29' => 'can', 'CAN.G919.31' => 'can', 'CANSAT11G0133' => 'cansat', 'CANSAT11G1171' => 'cansat', 'CANSAT11G2056' => 'cansat', 'CANSAT56G1202' => 'cansat', 'CANSAT56G1514' => 'cansat', 'CANSAT78G0455' => 'cansat', 'CARHR011190' => 'chi', 'CARHR051980' => 'chi', 'CARHR120170' => 'chi', 'CARHR203310' => 'chi', 'CARHR221490' => 'chi', 'Carub.0001s1054' => 'cru', 'Carub.0002s0431' => 'cru', 'Carub.0004s0818' => 'cru', 'Carub.0006s0846' => 'cru', 'Carub.0007s2722' => 'cru', 'Ca_00058_v3' => 'car', 'Ca_17831_v3' => 'car', 'Ca_19408_v3' => 'car', 'Ca_24397_v3' => 'car', 'Ca_25664_v3' => 'car', 'CBR_g21818' => 'cbr', 'CBR_g31195' => 'cbr', 'CBR_g32282' => 'cbr', 'CBR_g39599' => 'cbr', 'CBR_g49410' => 'cbr', 'Cc01_g09120' => 'ccan', 'Cc01_g09130' => 'ccan', 'Cc02_g09630' => 'ccan', 'Cc02_g22810' => 'ccan', 'Cc03_g03810' => 'ccan', 'CDE02G3718' => 'cde', 'CDE04G3183' => 'cde', 'CDE07G1046' => 'cde', 'CDE08G0480' => 'cde', 'Cfa005493' => 'cfa', 'Cfa010312' => 'cfa', 'Cfa015648' => 'cfa', 'Ciclev10002793m.g' => 'ccl', 'Ciclev10003356m.g' => 'ccl', 'Ciclev10006141m.g' => 'ccl', 'Ciclev10016676m.g' => 'ccl', 'Ciclev10017081m.g' => 'ccl', 'Ciclev10029499m.g' => 'ccl', 'CiPaw.01G166300' => 'cil', 'CiPaw.06G145600' => 'cil', 'CiPaw.13G040100' => 'cil', 'CiPaw.13G135800' => 'cil', 'ClCG01G012230' => 'cla', 'ClCG05G009510' => 'cla', 'ClCG08G008270' => 'cla', 'COL.COLO4_11763' => 'col', 'COL.COLO4_19876' => 'col', 'COL.COLO4_21481' => 'col', 'Cpa.g.sc118.34' => 'cpa', 'Cpa.g.sc32.13' => 'cpa', 'Cpa.g.sc58.103' => 'cpa', 'Cre03.g183850' => 'cre', 'Cre06.g306350' => 'cre', 'Cre07.g334800' => 'cre', 'Cre12.g487900' => 'cre', 'Cre14.g626700' => 'cre', 'Cre16.g658400' => 'cre', 'Cre17.g700950' => 'cre', 'CsaV3_1G014830' => 'csa', 'CsaV3_3G013320' => 'csa', 'CsaV3_3G019210' => 'csa', 'CsaV3_3G019220' => 'csa', 'CsaV3_6G004230' => 'csa', 'CSS0003773' => 'camsi', 'CSS0004563' => 'camsi', 'CSS0013949' => 'camsi', 'CSS0025971' => 'camsi', 'CSS0028570' => 'camsi', 'CSS0033127' => 'camsi', 'CSS0036051' => 'camsi', 'CSS0040087' => 'camsi', 'CSS0043179' => 'camsi', 'DCAR_006161' => 'dca', 'DCAR_010351' => 'dca', 'DCAR_012197' => 'dca', 'DCAR_024162' => 'dca', 'Dinv01030' => 'din', 'Dinv10924' => 'din', 'Dinv11835' => 'din', 'Dinv22841' => 'din', 'Dinv42553' => 'din', 'Duzib052G0560' => 'dzi', 'Duzib132G0389' => 'dzi', 'Duzib150G1181' => 'dzi', 'Duzib168G0623' => 'dzi', 'Duzib170G1036' => 'dzi', 'Duzib212G0200' => 'dzi', 'Duzib248G0194' => 'dzi', 'ECA232G2193' => 'eca', 'ECA233G0302' => 'eca', 'ECA234G2813' => 'eca', 'ECA234G4866' => 'eca', 'ECA240G3932' => 'eca', 'ECA248G0385' => 'eca', 'EL10Ac2g04781' => 'bvu', 'EL10Ac3g06445' => 'bvu', 'EL10Ac7g15825' => 'bvu', 'EL10Ac8g18550' => 'bvu', 'Eucgr.B03849' => 'egr', 'Eucgr.I02744' => 'egr', 'Eucgr.J00264' => 'egr', 'Eucgr.J00493' => 'egr', 'FAN04G2181' => 'fan', 'FAN07G2666' => 'fan', 'FAN11G0024' => 'fan', 'FAN12G1105' => 'fan', 'FAN13G0302' => 'fan', 'FAN15G2781' => 'fan', 'FAN16G1274' => 'fan', 'FAN17G2988' => 'fan', 'FAN18G2621' => 'fan', 'FAN21G0013' => 'fan', 'FAN22G1211' => 'fan', 'FAN25G3626' => 'fan', 'FvH4_2g09491' => 'fve', 'FvH4_3g24910' => 'fve', 'FvH4_4g15630' => 'fve', 'FvH4_5g28820' => 'fve', 'Glyma.01G238000' => 'gma', 'Glyma.05G168400' => 'gma', 'Glyma.08G126800' => 'gma', 'Glyma.08G188500' => 'gma', 'Glyma.10G278900' => 'gma', 'Glyma.11G005700' => 'gma', 'Glyma.11G183300' => 'gma', 'Glyma.12G089200' => 'gma', 'Glyma.12G169400' => 'gma', 'Glyma.12G169500' => 'gma', 'Glyma.12G169600' => 'gma', 'Glyma.20G110800' => 'gma', 'Gohir.A03G192900' => 'ghi', 'Gohir.A03G193000' => 'ghi', 'Gohir.A05G080700' => 'ghi', 'Gohir.A09G216000' => 'ghi', 'Gohir.A12G027700' => 'ghi', 'Gohir.A13G036200' => 'ghi', 'Gohir.A13G222600' => 'ghi', 'Gohir.D02G213900' => 'ghi', 'Gohir.D02G214000' => 'ghi', 'Gohir.D05G083700' => 'ghi', 'Gohir.D05G083800' => 'ghi', 'Gohir.D05G083850' => 'ghi', 'Gohir.D08G015400' => 'ghi', 'Gohir.D09G218400' => 'ghi', 'Gohir.D12G027100' => 'ghi', 'Gohir.D13G034500' => 'ghi', 'Gohir.D13G227400' => 'ghi', 'Gorai.005G241800' => 'gra', 'Gorai.005G241900' => 'gra', 'Gorai.006G239400' => 'gra', 'Gorai.008G027600' => 'gra', 'Gorai.009G085400' => 'gra', 'Gorai.009G085500' => 'gra', 'Gorai.013G039000' => 'gra', 'Gorai.013G194800' => 'gra', 'Gorai.013G257900' => 'gra', 'GSVIVG01000982001' => 'vvi', 'GSVIVG01017981001' => 'vvi', 'HanXRQChr01g0024061' => 'han', 'HanXRQChr09g0247831' => 'han', 'HanXRQChr10g0294611' => 'han', 'HanXRQChr10g0294621' => 'han', 'HanXRQChr11g0346821' => 'han', 'HanXRQChr13g0397461' => 'han', 'HanXRQChr16g0513651' => 'han', 'HanXRQChr16g0513701' => 'han', 'Haze_00897' => 'cav', 'Haze_01745' => 'cav', 'Haze_02486' => 'cav', 'Haze_02487' => 'cav', 'Haze_23374' => 'cav', 'Hma1.2p1_0578F.1_g182520' => 'hma', 'Hma1.2p1_0602F.1_g187350' => 'hma', 'Hma1.2p1_0602F.1_g187360' => 'hma', 'Hma1.2p1_0874F.1_g231320' => 'hma', 'Hma1.2p1_1197F.1_g266210' => 'hma', 'Hma1.2p1_1197F.1_g266220' => 'hma', 'Hma1.2p1_2167F.1_g315895' => 'hma', 'Hma1.2p1_2190F.1_g316640' => 'hma', 'Hma1.2p1_3645F.1_g337153' => 'hma', 'HPP92_004907' => 'vpl', 'HPP92_012134' => 'vpl', 'HPP92_025136' => 'vpl', 'HPP92_026087' => 'vpl', 'Hund06782' => 'sun', 'Hund06784' => 'sun', 'Lalb_Chr01g0004861' => 'lal', 'Lalb_Chr02g0140591' => 'lal', 'Lalb_Chr02g0140611' => 'lal', 'Lalb_Chr03g0028101' => 'lal', 'Lalb_Chr07g0185791' => 'lal', 'Lalb_Chr12g0204491' => 'lal', 'Lalb_Chr13g0295671' => 'lal', 'Lalb_Chr19g0136461' => 'lal', 'Lalb_Chr21g0309191' => 'lal', 'Lj1g0028158' => 'lja', 'Lj1P236T38' => 'lonja', 'Lj2C32G2' => 'lonja', 'Lj2P944T8' => 'lonja', 'Lj2P963T15' => 'lonja', 'Lj3g0011788' => 'lja', 'Lj4g0025027' => 'lja', 'Lj5P255T36' => 'lonja', 'Lj6g0018866' => 'lja', 'Lj6P608T31' => 'lonja', 'LjContig00408g0008879' => 'lja', 'Lsat_1_v5_gn_5_105820' => 'lsa', 'Lsat_1_v5_gn_6_38800' => 'lsa', 'Lsat_1_v5_gn_7_67141' => 'lsa', 'Manes.04G003400' => 'mes', 'Manes.07G020000' => 'mes', 'Manes.07G020100' => 'mes', 'Manes.07G020150' => 'mes', 'Manes.10G061500' => 'mes', 'Manes.10G123200' => 'mes', 'Manes.11G161900' => 'mes', 'Manes.15G029300' => 'mes', 'Mapoly0071s0018' => 'mpo', 'Mapoly0082s0023' => 'mpo', 'Mapoly3477s0001' => 'mpo', 'MBI05_g31233_MAGBIO' => 'mbi', 'MBI09_g05946_MAGBIO' => 'mbi', 'MBI09_g05947_MAGBIO' => 'mbi', 'MBI17_g08346_MAGBIO' => 'mbi', 'MCO04G038' => 'mco', 'MCO09G370' => 'mco', 'MCO13G605' => 'mco', 'MD00G1075500' => 'mdo', 'MD03G1144300' => 'mdo', 'MD08G1236800' => 'mdo', 'MD13G1193300' => 'mdo', 'MD15G1428700' => 'mdo', 'Medtr1g112030' => 'mtr', 'Medtr1g112050' => 'mtr', 'Medtr2g006290' => 'mtr', 'Medtr2g086510' => 'mtr', 'Medtr4g053120' => 'mtr', 'Medtr5g006320' => 'mtr', 'Medtr8g088720' => 'mtr', 'MELO3C004712.2' => 'cme', 'MELO3C006533.2' => 'cme', 'MELO3C019438.2' => 'cme', 'MELO3C019440.2' => 'cme', 'MELO3C019441.2' => 'cme', 'MELO3C019895.2' => 'cme', 'Migut.B00811' => 'egut', 'Migut.D02447' => 'egut', 'Migut.F00875' => 'egut', 'Migut.N00186' => 'egut', 'Migut.N01051' => 'egut', 'Migut.N02491' => 'egut', 'Migut.O00784' => 'egut', 'MSTRG.12367' => 'ama', 'MSTRG.18756' => 'ama', 'MSTRG.21042' => 'ama', 'Nitab4.5_0000559g0040' => 'nta', 'Nitab4.5_0000667g0190' => 'nta', 'Nitab4.5_0000755g0160' => 'nta', 'Nitab4.5_0001216g0080' => 'nta', 'Nitab4.5_0004069g0040' => 'nta', 'Nitab4.5_0004129g0010' => 'nta', 'Nitab4.5_0005744g0030' => 'nta', 'Nitab4.5_0006996g0030' => 'nta', 'Nitab4.5_0008971g0040' => 'nta', 'Nitab4.5_0009769g0020' => 'nta', 'Nitab4.5_0009833g0010' => 'nta', 'Nitab4.5_0013140g0020' => 'nta', 'Nn003s41376' => 'nnu', 'Nn1g01857' => 'nnu', 'Nn1g03611' => 'nnu', 'Nn1g06853' => 'nnu', 'Nn3g18360' => 'nnu', 'Nn4g26328' => 'nnu', 'Nn5g27531' => 'nnu', 'Nn6g34899' => 'nnu', 'Nn7g36299' => 'nnu', 'Oeu021485.1' => 'oeu', 'Oeu022433.1' => 'oeu', 'Oeu032111.1' => 'oeu', 'Oeu051608.1' => 'oeu', 'Os01g0860601' => 'osa', 'Os03g0659200' => 'osa', 'Os03g0835900' => 'osa', 'Os04g0412200' => 'osa', 'Os05g0443500' => 'osa', 'Os07g0251500' => 'osa', 'Os08g0104600' => 'osa', 'Peaxi162Scf00003g00047' => 'pax', 'Peaxi162Scf00003g00052' => 'pax', 'Peaxi162Scf00003g00394' => 'pax', 'Peaxi162Scf00091g00621' => 'pax', 'Peaxi162Scf00152g00146' => 'pax', 'Peaxi162Scf00173g00025' => 'pax', 'Peaxi162Scf00195g00102' => 'pax', 'Peaxi162Scf00402g00013' => 'pax', 'Peaxi162Scf00519g00618' => 'pax', 'PGR004G2838' => 'pgr', 'PGR044G2275' => 'pgr', 'PGR102G1377' => 'pgr', 'PGR119G1245' => 'pgr', 'PGR142G4449' => 'pgr', 'PGSC0003DMG400004532' => 'stu', 'PGSC0003DMG400011950' => 'stu', 'PGSC0003DMG400023391' => 'stu', 'PGSC0003DMG400023985' => 'stu', 'PGSC0003DMG400026360' => 'stu', 'PGSC0003DMG400035711' => 'stu', 'PGSC0003DMG400037286' => 'stu', 'PGSC0003DMG402005881' => 'stu', 'Phvul.002G045400' => 'pvu', 'Phvul.006G216600' => 'pvu', 'Phvul.006G216700' => 'pvu', 'Phvul.006G216800' => 'pvu', 'Phvul.007G022500' => 'pvu', 'Phvul.011G094400' => 'pvu', 'Potri.001G470700' => 'ptr', 'Potri.003G015200' => 'ptr', 'Potri.004G202500' => 'ptr', 'Potri.004G218400' => 'ptr', 'Potri.008G020100' => 'ptr', 'Potri.008G153200' => 'ptr', 'Potri.009G163800' => 'ptr', 'Potri.010G087300' => 'ptr', 'Potri.010G239100' => 'ptr', 'Pp3c10_16100' => 'ppa', 'Pp3c10_16880' => 'ppa', 'Pp3c16_6230' => 'ppa', 'Pp3c17_18910' => 'ppa', 'Pp3c3_22119' => 'ppa', 'Pp3c3_22140' => 'ppa', 'Pp3c4_8159' => 'ppa', 'Pp3c4_8171' => 'ppa', 'Pp3c4_8330' => 'ppa', 'PRCOL_00004098' => 'pco', 'Prupe.1G013900' => 'ppe', 'Prupe.1G226300' => 'ppe', 'Prupe.1G573600' => 'ppe', 'Prupe.6G130100' => 'ppe', 'Psat3g090040' => 'psa', 'Psat4g210440' => 'psa', 'Psat6g231040' => 'psa', 'Psat6g231080' => 'psa', 'Psat7g063000' => 'psa', 'Psat7g188000' => 'psa', 'Psat7g188040' => 'psa', 'PSO017G0206' => 'pso', 'PSO170G0501' => 'pso', 'PSO170G6422' => 'pso', 'PSO210G7739' => 'pso', 'PSO339G1808' => 'pso', 'PSO339G6135' => 'pso', 'PSO384G0010' => 'pso', 'PSO384G0964' => 'pso', 'PSO761G0050' => 'pso', 'PSO782G4085' => 'pso', 'QL01p012264' => 'qlo', 'QL02p099491' => 'qlo', 'QL03p033868' => 'qlo', 'QL04p046678' => 'qlo', 'QL06p002448' => 'qlo', 'RcHm_v2.0_Chr4g0416181' => 'rch', 'RcHm_v2.0_Chr5g0044701' => 'rch', 'RcHm_v2.0_Chr6g0265781' => 'rch', 'RcHm_v2.0_Chr7g0221031' => 'rch', 'Rhsim04G0202000' => 'rsi', 'Rhsim11G0127300' => 'rsi', 'Rhsim13G0111800' => 'rsi', 'Sabra01G0165600' => 'sbr', 'Sabra03G0008300' => 'sbr', 'Sabra04G0136900' => 'sbr', 'Sabra08G0013400' => 'sbr', 'Sabra08G0116800' => 'sbr', 'Sabra09G0128000' => 'sbr', 'Sabra10G0055500' => 'sbr', 'Sabra10G0073300' => 'sbr', 'SalBow3G0385' => 'sbo', 'SalBow3G1119' => 'sbo', 'SalBow3G2005' => 'sbo', 'SalBow6G2563' => 'sbo', 'SalBow6G6386' => 'sbo', 'Sc06g0008800' => 'sci', 'Sc07g0004950' => 'sci', 'Sc09g0005340' => 'sci', 'Sc13g0004410' => 'sci', 'Sc21g0007090' => 'sci', 'Sed0009285' => 'sed', 'Sed0017583' => 'sed', 'Sed0019699' => 'sed', 'Sed0023107' => 'sed', 'SEGI_10916' => 'sgi', 'SEGI_16217' => 'sgi', 'SEGI_19466' => 'sgi', 'SEGI_41115' => 'sgi', 'SGA_v2.0_scaffold111G31534' => 'sas', 'SGA_v2.0_scaffold22G09864' => 'sas', 'SGA_v2.0_scaffold338G49219' => 'sas', 'SGA_v2.0_scaffold92G28298' => 'sas', 'SMO119G0064' => 'smo', 'SMO223G0038' => 'smo', 'SMO347G0584' => 'smo', 'SMO351G0010' => 'smo', 'SMO356G0404' => 'smo', 'Solyc01g103920.3' => 'sly', 'Solyc04g009710.2' => 'sly', 'Solyc05g055280.2' => 'sly', 'Solyc10g044520.3' => 'sly', 'Solyc10g075160.1' => 'sly', 'Solyc11g006910.3' => 'sly', 'Solyc11g068430.3' => 'sly', 'Sopen01g046310' => 'spe', 'Sopen03g001200' => 'spe', 'Sopen04g004830' => 'spe', 'Sopen05g033720' => 'spe', 'Sopen06g030740' => 'spe', 'Sopen10g013090' => 'spe', 'Sopen10g027630' => 'spe', 'Sopen10g027640' => 'spe', 'Sopen11g002820' => 'spe', 'Sopen11g027140' => 'spe', 'Sp1g09680' => 'spa', 'Sp2g03630' => 'spa', 'Sp4g10320' => 'spa', 'Sp6g33400' => 'spa', 'Sp7g13030' => 'spa', 'TAR365G0317' => 'tar', 'TAR376G0979' => 'tar', 'TAR623G1665' => 'tar', 'TAR633G2373' => 'tar', 'TAR636G1400' => 'tar', 'THA.LOC104800529' => 'tha', 'THA.LOC104808547' => 'tha', 'THA.LOC104809615' => 'tha', 'THA.LOC104815724' => 'tha', 'THA.LOC104818480' => 'tha', 'THA.LOC104819179' => 'tha', 'THA.LOC104822270' => 'tha', 'THA.LOC104826425' => 'tha', 'Thecc.02G089700' => 'tca', 'Thecc.04G232300' => 'tca', 'Thecc.09G283400' => 'tca', 'Thhalv10009020m.g' => 'esa', 'Thhalv10015506m.g' => 'esa', 'Thhalv10017364m.g' => 'esa', 'Thhalv10023742m.g' => 'esa', 'Thhalv10026483m.g' => 'esa', 'TPR.G17232' => 'tpr', 'TPR.G2133' => 'tpr', 'TPR.G2498' => 'tpr', 'TPR.G31942' => 'tpr', 'TPR.G37877' => 'tpr', 'TPR.G4571' => 'tpr', 'TWI14G1113' => 'twi', 'TWI15G0426' => 'twi', 'TWI31G1005' => 'twi', 'TWI38G0513' => 'twi', 'TWI38G1484' => 'twi', 'TWI73G1098' => 'twi', 'unitig_26.g10519' => 'ugi', 'unitig_736.g22395' => 'ugi', 'unitig_747.g21234' => 'ugi', 'unitig_747.g21942' => 'ugi', 'vmacro14351' => 'vma', 'VMungo0540G0082' => 'vmu', 'VMungo0540G0405' => 'vmu', 'VMungo0540G1486' => 'vmu', 'VMungo0540G1692' => 'vmu', 'VMungo0720G2473' => 'vmu', 'VMungo1127G1562' => 'vmu', 'VMungo1215G1918' => 'vmu', 'Zm00001eb052650' => 'zma', 'Zm00001eb063710' => 'zma', 'Zm00001eb083950' => 'zma', 'Zm00001eb174420' => 'zma', 'Zm00001eb260140' => 'zma', 'Zm00001eb260150' => 'zma', 'Zm00001eb260160' => 'zma', 'Zm00001eb348290' => 'zma', 'Zm00001eb366870' => 'zma', 'Zm00001eb421930' => 'zma' ) $gf_id = 'HOM05D001025' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001025' ) $data_identifier = 'HOM05D001025' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 19, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 2, 'amhyb' => (int) 4, 'aly' => (int) 4, 'aox' => (int) 4, 'arhy' => (int) 3, 'ath' => (int) 5, 'atr' => (int) 4, 'acertr' => (int) 3, 'cqu' => (int) 7, 'bca' => (int) 17, 'bol' => (int) 10, 'bra' => (int) 9, 'can' => (int) 10, 'cansat' => (int) 6, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 5, 'cbr' => (int) 5, 'ccan' => (int) 5, 'cde' => (int) 4, 'cfa' => (int) 3, 'ccl' => (int) 6, 'cil' => (int) 4, 'cla' => (int) 3, 'col' => (int) 3, 'cpa' => (int) 3, 'cre' => (int) 7, 'csa' => (int) 5, 'camsi' => (int) 9, 'dca' => (int) 4, 'din' => (int) 5, 'dzi' => (int) 7, 'eca' => (int) 6, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 12, 'fve' => (int) 4, 'gma' => (int) 12, 'ghi' => (int) 17, 'gra' => (int) 9, 'vvi' => (int) 2, 'han' => (int) 8, 'cav' => (int) 5, 'hma' => (int) 9, 'vpl' => (int) 4, 'sun' => (int) 2, 'lal' => (int) 9, 'lja' => (int) 5, 'lonja' => (int) 6, 'lsa' => (int) 3, 'mes' => (int) 8, 'mpo' => (int) 3, 'mbi' => (int) 4, 'mco' => (int) 3, 'mdo' => (int) 5, 'mtr' => (int) 7, 'cme' => (int) 6, 'egut' => (int) 7, 'ama' => (int) 3, 'nta' => (int) 12, 'nnu' => (int) 9, 'oeu' => (int) 4, 'osa' => (int) 7, 'pax' => (int) 9, 'pgr' => (int) 5, 'stu' => (int) 8, 'pvu' => (int) 6, 'ptr' => (int) 9, 'ppa' => (int) 9, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 7, 'pso' => (int) 10, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 3, 'sbr' => (int) 8, 'sbo' => (int) 5, 'sci' => (int) 5, 'sed' => (int) 4, 'sgi' => (int) 4, 'sas' => (int) 4, 'smo' => (int) 5, 'sly' => (int) 7, 'spe' => (int) 10, 'spa' => (int) 5, 'tar' => (int) 5, 'tha' => (int) 8, 'tca' => (int) 3, 'esa' => (int) 5, 'tpr' => (int) 6, 'twi' => (int) 6, 'ugi' => (int) 4, 'vma' => (int) 1, 'vmu' => (int) 7, 'zma' => (int) 10 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb421930' $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' => 'HOM05D001025', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '592', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p22650' => 'bna', 'A01p29720' => 'bna', 'A03p26560' => 'bna', 'A03p68820' => 'bna', 'A04p20980' => 'bna', 'A06p07730' => 'bna', 'A07p18260' => 'bna', 'A08p33710' => 'bna', 'A09p16970' => 'bna', 'A10p27490' => 'bna', 'Aa31LG1G17300' => 'aar', 'Aa31LG1G3910' => 'aar', 'Aa31LG2G9630' => 'aar', 'Aa31LG5G8360' => 'aar', 'Aa31LG9G2410' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4699' => 'aag', 'Actinidia23512' => 'ach', 'Actinidia37080' => 'ach', 'Ah.01g020380' => 'amhyb', 'Ah.08g215710' => 'amhyb', 'Ah.09g225110' => 'amhyb', 'Ah.10g036680' => 'amhyb', 'AL1G21940' => 'aly', 'AL2G15540' => 'aly', 'AL4G21520' => 'aly', 'AL7G40960' => 'aly', 'Aqoxy2G01191' => 'aox', 'Aqoxy2G03393' => 'aox', 'Aqoxy4G02775' => 'aox', 'Aqoxy6G00058' => 'aox', 'arahy.Tifrunner.gnm1.ann1.9X74H2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CW3FX9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R485W7' => 'arhy', 'AT1G10960' => 'ath', 'AT1G60950' => 'ath', 'AT2G27510' => 'ath', 'AT4G14890' => 'ath', 'AT5G10000' => 'ath', 'ATR0665G624' => 'atr', 'ATR0697G138' => 'atr', 'ATR0776G046' => 'atr', 'ATR1134G135' => 'atr', 'Atru.chr12.1025' => 'acertr', 'Atru.chr3.3241' => 'acertr', 'Atru.chr4.2460' => 'acertr', 'AUR62007427' => 'cqu', 'AUR62010960' => 'cqu', 'AUR62012201' => 'cqu', 'AUR62021470' => 'cqu', 'AUR62022834' => 'cqu', 'AUR62033635' => 'cqu', 'AUR62036186' => 'cqu', 'BcaB01g03077' => 'bca', 'BcaB02g10093' => 'bca', 'BcaB04g20295' => 'bca', 'BcaB06g28147' => 'bca', 'BcaB07g31253' => 'bca', 'BcaC01g04946' => 'bca', 'BcaC02g10614' => 'bca', 'BcaC02g10885' => 'bca', 'BcaC04g19356' => 'bca', 'BcaC04g22297' => 'bca', 'BcaC05g24977' => 'bca', 'BcaC06g31823' => 'bca', 'BcaC07g38633' => 'bca', 'BcaC09g49353' => 'bca', 'BcaC09g50168' => 'bca', 'BcaNung00322' => 'bca', 'BcaNung04769' => 'bca', 'BolC1t02753H' => 'bol', 'BolC1t03721H' => 'bol', 'BolC3t15525H' => 'bol', 'BolC4t23903H' => 'bol', 'BolC4t24231H' => 'bol', 'BolC4t27209H' => 'bol', 'BolC5t29671H' => 'bol', 'BolC8t49044H' => 'bol', 'BolC9t54999H' => 'bol', 'BolC9t59517H' => 'bol', 'BraA01t02178Z' => 'bra', 'BraA01t03099Z' => 'bra', 'BraA03t11867Z' => 'bra', 'BraA04t17667Z' => 'bra', 'BraA07t29542Z' => 'bra', 'BraA08t35287Z' => 'bra', 'BraA09t37334Z' => 'bra', 'BraA10t44801Z' => 'bra', 'BraSC39t46181Z' => 'bra', 'C01p28240' => 'bna', 'C01p37530' => 'bna', 'C03p31820' => 'bna', 'C04p24080' => 'bna', 'C04p25790' => 'bna', 'C04p56770' => 'bna', 'C05p09310' => 'bna', 'C09p21010' => 'bna', 'C09p67560' => 'bna', 'CAN.G1324.7' => 'can', 'CAN.G1358.10' => 'can', 'CAN.G1550.2' => 'can', 'CAN.G186.56' => 'can', 'CAN.G1965.1' => 'can', 'CAN.G645.15' => 'can', 'CAN.G798.26' => 'can', 'CAN.G798.27' => 'can', 'CAN.G798.29' => 'can', 'CAN.G919.31' => 'can', 'CANSAT11G0133' => 'cansat', 'CANSAT11G1171' => 'cansat', 'CANSAT11G2056' => 'cansat', 'CANSAT56G1202' => 'cansat', 'CANSAT56G1514' => 'cansat', 'CANSAT78G0455' => 'cansat', 'CARHR011190' => 'chi', 'CARHR051980' => 'chi', 'CARHR120170' => 'chi', 'CARHR203310' => 'chi', 'CARHR221490' => 'chi', 'Carub.0001s1054' => 'cru', 'Carub.0002s0431' => 'cru', 'Carub.0004s0818' => 'cru', 'Carub.0006s0846' => 'cru', 'Carub.0007s2722' => 'cru', 'Ca_00058_v3' => 'car', 'Ca_17831_v3' => 'car', 'Ca_19408_v3' => 'car', 'Ca_24397_v3' => 'car', 'Ca_25664_v3' => 'car', 'CBR_g21818' => 'cbr', 'CBR_g31195' => 'cbr', 'CBR_g32282' => 'cbr', 'CBR_g39599' => 'cbr', 'CBR_g49410' => 'cbr', 'Cc01_g09120' => 'ccan', 'Cc01_g09130' => 'ccan', 'Cc02_g09630' => 'ccan', 'Cc02_g22810' => 'ccan', 'Cc03_g03810' => 'ccan', 'CDE02G3718' => 'cde', 'CDE04G3183' => 'cde', 'CDE07G1046' => 'cde', 'CDE08G0480' => 'cde', 'Cfa005493' => 'cfa', 'Cfa010312' => 'cfa', 'Cfa015648' => 'cfa', 'Ciclev10002793m.g' => 'ccl', 'Ciclev10003356m.g' => 'ccl', 'Ciclev10006141m.g' => 'ccl', 'Ciclev10016676m.g' => 'ccl', 'Ciclev10017081m.g' => 'ccl', 'Ciclev10029499m.g' => 'ccl', 'CiPaw.01G166300' => 'cil', 'CiPaw.06G145600' => 'cil', 'CiPaw.13G040100' => 'cil', 'CiPaw.13G135800' => 'cil', 'ClCG01G012230' => 'cla', 'ClCG05G009510' => 'cla', 'ClCG08G008270' => 'cla', 'COL.COLO4_11763' => 'col', 'COL.COLO4_19876' => 'col', 'COL.COLO4_21481' => 'col', 'Cpa.g.sc118.34' => 'cpa', 'Cpa.g.sc32.13' => 'cpa', 'Cpa.g.sc58.103' => 'cpa', 'Cre03.g183850' => 'cre', 'Cre06.g306350' => 'cre', 'Cre07.g334800' => 'cre', 'Cre12.g487900' => 'cre', 'Cre14.g626700' => 'cre', 'Cre16.g658400' => 'cre', 'Cre17.g700950' => 'cre', 'CsaV3_1G014830' => 'csa', 'CsaV3_3G013320' => 'csa', 'CsaV3_3G019210' => 'csa', 'CsaV3_3G019220' => 'csa', 'CsaV3_6G004230' => 'csa', 'CSS0003773' => 'camsi', 'CSS0004563' => 'camsi', 'CSS0013949' => 'camsi', 'CSS0025971' => 'camsi', 'CSS0028570' => 'camsi', 'CSS0033127' => 'camsi', 'CSS0036051' => 'camsi', 'CSS0040087' => 'camsi', 'CSS0043179' => 'camsi', 'DCAR_006161' => 'dca', 'DCAR_010351' => 'dca', 'DCAR_012197' => 'dca', 'DCAR_024162' => 'dca', 'Dinv01030' => 'din', 'Dinv10924' => 'din', 'Dinv11835' => 'din', 'Dinv22841' => 'din', 'Dinv42553' => 'din', 'Duzib052G0560' => 'dzi', 'Duzib132G0389' => 'dzi', 'Duzib150G1181' => 'dzi', 'Duzib168G0623' => 'dzi', 'Duzib170G1036' => 'dzi', 'Duzib212G0200' => 'dzi', 'Duzib248G0194' => 'dzi', 'ECA232G2193' => 'eca', 'ECA233G0302' => 'eca', 'ECA234G2813' => 'eca', 'ECA234G4866' => 'eca', 'ECA240G3932' => 'eca', 'ECA248G0385' => 'eca', 'EL10Ac2g04781' => 'bvu', 'EL10Ac3g06445' => 'bvu', 'EL10Ac7g15825' => 'bvu', 'EL10Ac8g18550' => 'bvu', 'Eucgr.B03849' => 'egr', 'Eucgr.I02744' => 'egr', 'Eucgr.J00264' => 'egr', 'Eucgr.J00493' => 'egr', 'FAN04G2181' => 'fan', 'FAN07G2666' => 'fan', 'FAN11G0024' => 'fan', 'FAN12G1105' => 'fan', 'FAN13G0302' => 'fan', 'FAN15G2781' => 'fan', 'FAN16G1274' => 'fan', 'FAN17G2988' => 'fan', 'FAN18G2621' => 'fan', 'FAN21G0013' => 'fan', 'FAN22G1211' => 'fan', 'FAN25G3626' => 'fan', 'FvH4_2g09491' => 'fve', 'FvH4_3g24910' => 'fve', 'FvH4_4g15630' => 'fve', 'FvH4_5g28820' => 'fve', 'Glyma.01G238000' => 'gma', 'Glyma.05G168400' => 'gma', 'Glyma.08G126800' => 'gma', 'Glyma.08G188500' => 'gma', 'Glyma.10G278900' => 'gma', 'Glyma.11G005700' => 'gma', 'Glyma.11G183300' => 'gma', 'Glyma.12G089200' => 'gma', 'Glyma.12G169400' => 'gma', 'Glyma.12G169500' => 'gma', 'Glyma.12G169600' => 'gma', 'Glyma.20G110800' => 'gma', 'Gohir.A03G192900' => 'ghi', 'Gohir.A03G193000' => 'ghi', 'Gohir.A05G080700' => 'ghi', 'Gohir.A09G216000' => 'ghi', 'Gohir.A12G027700' => 'ghi', 'Gohir.A13G036200' => 'ghi', 'Gohir.A13G222600' => 'ghi', 'Gohir.D02G213900' => 'ghi', 'Gohir.D02G214000' => 'ghi', 'Gohir.D05G083700' => 'ghi', 'Gohir.D05G083800' => 'ghi', 'Gohir.D05G083850' => 'ghi', 'Gohir.D08G015400' => 'ghi', 'Gohir.D09G218400' => 'ghi', 'Gohir.D12G027100' => 'ghi', 'Gohir.D13G034500' => 'ghi', 'Gohir.D13G227400' => 'ghi', 'Gorai.005G241800' => 'gra', 'Gorai.005G241900' => 'gra', 'Gorai.006G239400' => 'gra', 'Gorai.008G027600' => 'gra', 'Gorai.009G085400' => 'gra', 'Gorai.009G085500' => 'gra', 'Gorai.013G039000' => 'gra', 'Gorai.013G194800' => 'gra', 'Gorai.013G257900' => 'gra', 'GSVIVG01000982001' => 'vvi', 'GSVIVG01017981001' => 'vvi', 'HanXRQChr01g0024061' => 'han', 'HanXRQChr09g0247831' => 'han', 'HanXRQChr10g0294611' => 'han', 'HanXRQChr10g0294621' => 'han', 'HanXRQChr11g0346821' => 'han', 'HanXRQChr13g0397461' => 'han', 'HanXRQChr16g0513651' => 'han', 'HanXRQChr16g0513701' => 'han', 'Haze_00897' => 'cav', 'Haze_01745' => 'cav', 'Haze_02486' => 'cav', 'Haze_02487' => 'cav', 'Haze_23374' => 'cav', 'Hma1.2p1_0578F.1_g182520' => 'hma', 'Hma1.2p1_0602F.1_g187350' => 'hma', 'Hma1.2p1_0602F.1_g187360' => 'hma', 'Hma1.2p1_0874F.1_g231320' => 'hma', 'Hma1.2p1_1197F.1_g266210' => 'hma', 'Hma1.2p1_1197F.1_g266220' => 'hma', 'Hma1.2p1_2167F.1_g315895' => 'hma', 'Hma1.2p1_2190F.1_g316640' => 'hma', 'Hma1.2p1_3645F.1_g337153' => 'hma', 'HPP92_004907' => 'vpl', 'HPP92_012134' => 'vpl', 'HPP92_025136' => 'vpl', 'HPP92_026087' => 'vpl', 'Hund06782' => 'sun', 'Hund06784' => 'sun', 'Lalb_Chr01g0004861' => 'lal', 'Lalb_Chr02g0140591' => 'lal', 'Lalb_Chr02g0140611' => 'lal', 'Lalb_Chr03g0028101' => 'lal', 'Lalb_Chr07g0185791' => 'lal', 'Lalb_Chr12g0204491' => 'lal', 'Lalb_Chr13g0295671' => 'lal', 'Lalb_Chr19g0136461' => 'lal', 'Lalb_Chr21g0309191' => 'lal', 'Lj1g0028158' => 'lja', 'Lj1P236T38' => 'lonja', 'Lj2C32G2' => 'lonja', 'Lj2P944T8' => 'lonja', 'Lj2P963T15' => 'lonja', 'Lj3g0011788' => 'lja', 'Lj4g0025027' => 'lja', 'Lj5P255T36' => 'lonja', 'Lj6g0018866' => 'lja', 'Lj6P608T31' => 'lonja', 'LjContig00408g0008879' => 'lja', 'Lsat_1_v5_gn_5_105820' => 'lsa', 'Lsat_1_v5_gn_6_38800' => 'lsa', 'Lsat_1_v5_gn_7_67141' => 'lsa', 'Manes.04G003400' => 'mes', 'Manes.07G020000' => 'mes', 'Manes.07G020100' => 'mes', 'Manes.07G020150' => 'mes', 'Manes.10G061500' => 'mes', 'Manes.10G123200' => 'mes', 'Manes.11G161900' => 'mes', 'Manes.15G029300' => 'mes', 'Mapoly0071s0018' => 'mpo', 'Mapoly0082s0023' => 'mpo', 'Mapoly3477s0001' => 'mpo', 'MBI05_g31233_MAGBIO' => 'mbi', 'MBI09_g05946_MAGBIO' => 'mbi', 'MBI09_g05947_MAGBIO' => 'mbi', 'MBI17_g08346_MAGBIO' => 'mbi', 'MCO04G038' => 'mco', 'MCO09G370' => 'mco', 'MCO13G605' => 'mco', 'MD00G1075500' => 'mdo', 'MD03G1144300' => 'mdo', 'MD08G1236800' => 'mdo', 'MD13G1193300' => 'mdo', 'MD15G1428700' => 'mdo', 'Medtr1g112030' => 'mtr', 'Medtr1g112050' => 'mtr', 'Medtr2g006290' => 'mtr', 'Medtr2g086510' => 'mtr', 'Medtr4g053120' => 'mtr', 'Medtr5g006320' => 'mtr', 'Medtr8g088720' => 'mtr', 'MELO3C004712.2' => 'cme', 'MELO3C006533.2' => 'cme', 'MELO3C019438.2' => 'cme', 'MELO3C019440.2' => 'cme', 'MELO3C019441.2' => 'cme', 'MELO3C019895.2' => 'cme', 'Migut.B00811' => 'egut', 'Migut.D02447' => 'egut', 'Migut.F00875' => 'egut', 'Migut.N00186' => 'egut', 'Migut.N01051' => 'egut', 'Migut.N02491' => 'egut', 'Migut.O00784' => 'egut', 'MSTRG.12367' => 'ama', 'MSTRG.18756' => 'ama', 'MSTRG.21042' => 'ama', 'Nitab4.5_0000559g0040' => 'nta', 'Nitab4.5_0000667g0190' => 'nta', 'Nitab4.5_0000755g0160' => 'nta', 'Nitab4.5_0001216g0080' => 'nta', 'Nitab4.5_0004069g0040' => 'nta', 'Nitab4.5_0004129g0010' => 'nta', 'Nitab4.5_0005744g0030' => 'nta', 'Nitab4.5_0006996g0030' => 'nta', 'Nitab4.5_0008971g0040' => 'nta', 'Nitab4.5_0009769g0020' => 'nta', 'Nitab4.5_0009833g0010' => 'nta', 'Nitab4.5_0013140g0020' => 'nta', 'Nn003s41376' => 'nnu', 'Nn1g01857' => 'nnu', 'Nn1g03611' => 'nnu', 'Nn1g06853' => 'nnu', 'Nn3g18360' => 'nnu', 'Nn4g26328' => 'nnu', 'Nn5g27531' => 'nnu', 'Nn6g34899' => 'nnu', 'Nn7g36299' => 'nnu', 'Oeu021485.1' => 'oeu', 'Oeu022433.1' => 'oeu', 'Oeu032111.1' => 'oeu', 'Oeu051608.1' => 'oeu', 'Os01g0860601' => 'osa', 'Os03g0659200' => 'osa', 'Os03g0835900' => 'osa', 'Os04g0412200' => 'osa', 'Os05g0443500' => 'osa', 'Os07g0251500' => 'osa', 'Os08g0104600' => 'osa', 'Peaxi162Scf00003g00047' => 'pax', 'Peaxi162Scf00003g00052' => 'pax', 'Peaxi162Scf00003g00394' => 'pax', 'Peaxi162Scf00091g00621' => 'pax', 'Peaxi162Scf00152g00146' => 'pax', 'Peaxi162Scf00173g00025' => 'pax', 'Peaxi162Scf00195g00102' => 'pax', 'Peaxi162Scf00402g00013' => 'pax', 'Peaxi162Scf00519g00618' => 'pax', 'PGR004G2838' => 'pgr', 'PGR044G2275' => 'pgr', 'PGR102G1377' => 'pgr', 'PGR119G1245' => 'pgr', 'PGR142G4449' => 'pgr', 'PGSC0003DMG400004532' => 'stu', 'PGSC0003DMG400011950' => 'stu', 'PGSC0003DMG400023391' => 'stu', 'PGSC0003DMG400023985' => 'stu', 'PGSC0003DMG400026360' => 'stu', 'PGSC0003DMG400035711' => 'stu', 'PGSC0003DMG400037286' => 'stu', 'PGSC0003DMG402005881' => 'stu', 'Phvul.002G045400' => 'pvu', 'Phvul.006G216600' => 'pvu', 'Phvul.006G216700' => 'pvu', 'Phvul.006G216800' => 'pvu', 'Phvul.007G022500' => 'pvu', 'Phvul.011G094400' => 'pvu', 'Potri.001G470700' => 'ptr', 'Potri.003G015200' => 'ptr', 'Potri.004G202500' => 'ptr', 'Potri.004G218400' => 'ptr', 'Potri.008G020100' => 'ptr', 'Potri.008G153200' => 'ptr', 'Potri.009G163800' => 'ptr', 'Potri.010G087300' => 'ptr', 'Potri.010G239100' => 'ptr', 'Pp3c10_16100' => 'ppa', 'Pp3c10_16880' => 'ppa', 'Pp3c16_6230' => 'ppa', 'Pp3c17_18910' => 'ppa', 'Pp3c3_22119' => 'ppa', 'Pp3c3_22140' => 'ppa', 'Pp3c4_8159' => 'ppa', 'Pp3c4_8171' => 'ppa', 'Pp3c4_8330' => 'ppa', 'PRCOL_00004098' => 'pco', 'Prupe.1G013900' => 'ppe', 'Prupe.1G226300' => 'ppe', 'Prupe.1G573600' => 'ppe', 'Prupe.6G130100' => 'ppe', 'Psat3g090040' => 'psa', 'Psat4g210440' => 'psa', 'Psat6g231040' => 'psa', 'Psat6g231080' => 'psa', 'Psat7g063000' => 'psa', 'Psat7g188000' => 'psa', 'Psat7g188040' => 'psa', 'PSO017G0206' => 'pso', 'PSO170G0501' => 'pso', 'PSO170G6422' => 'pso', 'PSO210G7739' => 'pso', 'PSO339G1808' => 'pso', 'PSO339G6135' => 'pso', 'PSO384G0010' => 'pso', 'PSO384G0964' => 'pso', 'PSO761G0050' => 'pso', 'PSO782G4085' => 'pso', 'QL01p012264' => 'qlo', 'QL02p099491' => 'qlo', 'QL03p033868' => 'qlo', 'QL04p046678' => 'qlo', 'QL06p002448' => 'qlo', 'RcHm_v2.0_Chr4g0416181' => 'rch', 'RcHm_v2.0_Chr5g0044701' => 'rch', 'RcHm_v2.0_Chr6g0265781' => 'rch', 'RcHm_v2.0_Chr7g0221031' => 'rch', 'Rhsim04G0202000' => 'rsi', 'Rhsim11G0127300' => 'rsi', 'Rhsim13G0111800' => 'rsi', 'Sabra01G0165600' => 'sbr', 'Sabra03G0008300' => 'sbr', 'Sabra04G0136900' => 'sbr', 'Sabra08G0013400' => 'sbr', 'Sabra08G0116800' => 'sbr', 'Sabra09G0128000' => 'sbr', 'Sabra10G0055500' => 'sbr', 'Sabra10G0073300' => 'sbr', 'SalBow3G0385' => 'sbo', 'SalBow3G1119' => 'sbo', 'SalBow3G2005' => 'sbo', 'SalBow6G2563' => 'sbo', 'SalBow6G6386' => 'sbo', 'Sc06g0008800' => 'sci', 'Sc07g0004950' => 'sci', 'Sc09g0005340' => 'sci', 'Sc13g0004410' => 'sci', 'Sc21g0007090' => 'sci', 'Sed0009285' => 'sed', 'Sed0017583' => 'sed', 'Sed0019699' => 'sed', 'Sed0023107' => 'sed', 'SEGI_10916' => 'sgi', 'SEGI_16217' => 'sgi', 'SEGI_19466' => 'sgi', 'SEGI_41115' => 'sgi', 'SGA_v2.0_scaffold111G31534' => 'sas', 'SGA_v2.0_scaffold22G09864' => 'sas', 'SGA_v2.0_scaffold338G49219' => 'sas', 'SGA_v2.0_scaffold92G28298' => 'sas', 'SMO119G0064' => 'smo', 'SMO223G0038' => 'smo', 'SMO347G0584' => 'smo', 'SMO351G0010' => 'smo', 'SMO356G0404' => 'smo', 'Solyc01g103920.3' => 'sly', 'Solyc04g009710.2' => 'sly', 'Solyc05g055280.2' => 'sly', 'Solyc10g044520.3' => 'sly', 'Solyc10g075160.1' => 'sly', 'Solyc11g006910.3' => 'sly', 'Solyc11g068430.3' => 'sly', 'Sopen01g046310' => 'spe', 'Sopen03g001200' => 'spe', 'Sopen04g004830' => 'spe', 'Sopen05g033720' => 'spe', 'Sopen06g030740' => 'spe', 'Sopen10g013090' => 'spe', 'Sopen10g027630' => 'spe', 'Sopen10g027640' => 'spe', 'Sopen11g002820' => 'spe', 'Sopen11g027140' => 'spe', 'Sp1g09680' => 'spa', 'Sp2g03630' => 'spa', 'Sp4g10320' => 'spa', 'Sp6g33400' => 'spa', 'Sp7g13030' => 'spa', 'TAR365G0317' => 'tar', 'TAR376G0979' => 'tar', 'TAR623G1665' => 'tar', 'TAR633G2373' => 'tar', 'TAR636G1400' => 'tar', 'THA.LOC104800529' => 'tha', 'THA.LOC104808547' => 'tha', 'THA.LOC104809615' => 'tha', 'THA.LOC104815724' => 'tha', 'THA.LOC104818480' => 'tha', 'THA.LOC104819179' => 'tha', 'THA.LOC104822270' => 'tha', 'THA.LOC104826425' => 'tha', 'Thecc.02G089700' => 'tca', 'Thecc.04G232300' => 'tca', 'Thecc.09G283400' => 'tca', 'Thhalv10009020m.g' => 'esa', 'Thhalv10015506m.g' => 'esa', 'Thhalv10017364m.g' => 'esa', 'Thhalv10023742m.g' => 'esa', 'Thhalv10026483m.g' => 'esa', 'TPR.G17232' => 'tpr', 'TPR.G2133' => 'tpr', 'TPR.G2498' => 'tpr', 'TPR.G31942' => 'tpr', 'TPR.G37877' => 'tpr', 'TPR.G4571' => 'tpr', 'TWI14G1113' => 'twi', 'TWI15G0426' => 'twi', 'TWI31G1005' => 'twi', 'TWI38G0513' => 'twi', 'TWI38G1484' => 'twi', 'TWI73G1098' => 'twi', 'unitig_26.g10519' => 'ugi', 'unitig_736.g22395' => 'ugi', 'unitig_747.g21234' => 'ugi', 'unitig_747.g21942' => 'ugi', 'vmacro14351' => 'vma', 'VMungo0540G0082' => 'vmu', 'VMungo0540G0405' => 'vmu', 'VMungo0540G1486' => 'vmu', 'VMungo0540G1692' => 'vmu', 'VMungo0720G2473' => 'vmu', 'VMungo1127G1562' => 'vmu', 'VMungo1215G1918' => 'vmu', 'Zm00001eb052650' => 'zma', 'Zm00001eb063710' => 'zma', 'Zm00001eb083950' => 'zma', 'Zm00001eb174420' => 'zma', 'Zm00001eb260140' => 'zma', 'Zm00001eb260150' => 'zma', 'Zm00001eb260160' => 'zma', 'Zm00001eb348290' => 'zma', 'Zm00001eb366870' => 'zma', 'Zm00001eb421930' => 'zma' ), 'gf_id' => 'HOM05D001025', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001025' ), 'data_identifier' => 'HOM05D001025', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001025', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '592', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p22650' => 'bna', 'A01p29720' => 'bna', 'A03p26560' => 'bna', 'A03p68820' => 'bna', 'A04p20980' => 'bna', 'A06p07730' => 'bna', 'A07p18260' => 'bna', 'A08p33710' => 'bna', 'A09p16970' => 'bna', 'A10p27490' => 'bna', 'Aa31LG1G17300' => 'aar', 'Aa31LG1G3910' => 'aar', 'Aa31LG2G9630' => 'aar', 'Aa31LG5G8360' => 'aar', 'Aa31LG9G2410' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4699' => 'aag', 'Actinidia23512' => 'ach', 'Actinidia37080' => 'ach', 'Ah.01g020380' => 'amhyb', 'Ah.08g215710' => 'amhyb', 'Ah.09g225110' => 'amhyb', 'Ah.10g036680' => 'amhyb', 'AL1G21940' => 'aly', 'AL2G15540' => 'aly', 'AL4G21520' => 'aly', 'AL7G40960' => 'aly', 'Aqoxy2G01191' => 'aox', 'Aqoxy2G03393' => 'aox', 'Aqoxy4G02775' => 'aox', 'Aqoxy6G00058' => 'aox', 'arahy.Tifrunner.gnm1.ann1.9X74H2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CW3FX9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R485W7' => 'arhy', 'AT1G10960' => 'ath', 'AT1G60950' => 'ath', 'AT2G27510' => 'ath', 'AT4G14890' => 'ath', 'AT5G10000' => 'ath', 'ATR0665G624' => 'atr', 'ATR0697G138' => 'atr', 'ATR0776G046' => 'atr', 'ATR1134G135' => 'atr', 'Atru.chr12.1025' => 'acertr', 'Atru.chr3.3241' => 'acertr', 'Atru.chr4.2460' => 'acertr', 'AUR62007427' => 'cqu', 'AUR62010960' => 'cqu', 'AUR62012201' => 'cqu', 'AUR62021470' => 'cqu', 'AUR62022834' => 'cqu', 'AUR62033635' => 'cqu', 'AUR62036186' => 'cqu', 'BcaB01g03077' => 'bca', 'BcaB02g10093' => 'bca', 'BcaB04g20295' => 'bca', 'BcaB06g28147' => 'bca', 'BcaB07g31253' => 'bca', 'BcaC01g04946' => 'bca', 'BcaC02g10614' => 'bca', 'BcaC02g10885' => 'bca', 'BcaC04g19356' => 'bca', 'BcaC04g22297' => 'bca', 'BcaC05g24977' => 'bca', 'BcaC06g31823' => 'bca', 'BcaC07g38633' => 'bca', 'BcaC09g49353' => 'bca', 'BcaC09g50168' => 'bca', 'BcaNung00322' => 'bca', 'BcaNung04769' => 'bca', 'BolC1t02753H' => 'bol', 'BolC1t03721H' => 'bol', 'BolC3t15525H' => 'bol', 'BolC4t23903H' => 'bol', 'BolC4t24231H' => 'bol', 'BolC4t27209H' => 'bol', 'BolC5t29671H' => 'bol', 'BolC8t49044H' => 'bol', 'BolC9t54999H' => 'bol', 'BolC9t59517H' => 'bol', 'BraA01t02178Z' => 'bra', 'BraA01t03099Z' => 'bra', 'BraA03t11867Z' => 'bra', 'BraA04t17667Z' => 'bra', 'BraA07t29542Z' => 'bra', 'BraA08t35287Z' => 'bra', 'BraA09t37334Z' => 'bra', 'BraA10t44801Z' => 'bra', 'BraSC39t46181Z' => 'bra', 'C01p28240' => 'bna', 'C01p37530' => 'bna', 'C03p31820' => 'bna', 'C04p24080' => 'bna', 'C04p25790' => 'bna', 'C04p56770' => 'bna', 'C05p09310' => 'bna', 'C09p21010' => 'bna', 'C09p67560' => 'bna', 'CAN.G1324.7' => 'can', 'CAN.G1358.10' => 'can', 'CAN.G1550.2' => 'can', 'CAN.G186.56' => 'can', 'CAN.G1965.1' => 'can', 'CAN.G645.15' => 'can', 'CAN.G798.26' => 'can', 'CAN.G798.27' => 'can', 'CAN.G798.29' => 'can', 'CAN.G919.31' => 'can', 'CANSAT11G0133' => 'cansat', 'CANSAT11G1171' => 'cansat', 'CANSAT11G2056' => 'cansat', 'CANSAT56G1202' => 'cansat', 'CANSAT56G1514' => 'cansat', 'CANSAT78G0455' => 'cansat', 'CARHR011190' => 'chi', 'CARHR051980' => 'chi', 'CARHR120170' => 'chi', 'CARHR203310' => 'chi', 'CARHR221490' => 'chi', 'Carub.0001s1054' => 'cru', 'Carub.0002s0431' => 'cru', 'Carub.0004s0818' => 'cru', 'Carub.0006s0846' => 'cru', 'Carub.0007s2722' => 'cru', 'Ca_00058_v3' => 'car', 'Ca_17831_v3' => 'car', 'Ca_19408_v3' => 'car', 'Ca_24397_v3' => 'car', 'Ca_25664_v3' => 'car', 'CBR_g21818' => 'cbr', 'CBR_g31195' => 'cbr', 'CBR_g32282' => 'cbr', 'CBR_g39599' => 'cbr', 'CBR_g49410' => 'cbr', 'Cc01_g09120' => 'ccan', 'Cc01_g09130' => 'ccan', 'Cc02_g09630' => 'ccan', 'Cc02_g22810' => 'ccan', 'Cc03_g03810' => 'ccan', 'CDE02G3718' => 'cde', 'CDE04G3183' => 'cde', 'CDE07G1046' => 'cde', 'CDE08G0480' => 'cde', 'Cfa005493' => 'cfa', 'Cfa010312' => 'cfa', 'Cfa015648' => 'cfa', 'Ciclev10002793m.g' => 'ccl', 'Ciclev10003356m.g' => 'ccl', 'Ciclev10006141m.g' => 'ccl', 'Ciclev10016676m.g' => 'ccl', 'Ciclev10017081m.g' => 'ccl', 'Ciclev10029499m.g' => 'ccl', 'CiPaw.01G166300' => 'cil', 'CiPaw.06G145600' => 'cil', 'CiPaw.13G040100' => 'cil', 'CiPaw.13G135800' => 'cil', 'ClCG01G012230' => 'cla', 'ClCG05G009510' => 'cla', 'ClCG08G008270' => 'cla', 'COL.COLO4_11763' => 'col', 'COL.COLO4_19876' => 'col', 'COL.COLO4_21481' => 'col', 'Cpa.g.sc118.34' => 'cpa', 'Cpa.g.sc32.13' => 'cpa', 'Cpa.g.sc58.103' => 'cpa', 'Cre03.g183850' => 'cre', 'Cre06.g306350' => 'cre', 'Cre07.g334800' => 'cre', 'Cre12.g487900' => 'cre', 'Cre14.g626700' => 'cre', 'Cre16.g658400' => 'cre', 'Cre17.g700950' => 'cre', 'CsaV3_1G014830' => 'csa', 'CsaV3_3G013320' => 'csa', 'CsaV3_3G019210' => 'csa', 'CsaV3_3G019220' => 'csa', 'CsaV3_6G004230' => 'csa', 'CSS0003773' => 'camsi', 'CSS0004563' => 'camsi', 'CSS0013949' => 'camsi', 'CSS0025971' => 'camsi', 'CSS0028570' => 'camsi', 'CSS0033127' => 'camsi', 'CSS0036051' => 'camsi', 'CSS0040087' => 'camsi', 'CSS0043179' => 'camsi', 'DCAR_006161' => 'dca', 'DCAR_010351' => 'dca', 'DCAR_012197' => 'dca', 'DCAR_024162' => 'dca', 'Dinv01030' => 'din', 'Dinv10924' => 'din', 'Dinv11835' => 'din', 'Dinv22841' => 'din', 'Dinv42553' => 'din', 'Duzib052G0560' => 'dzi', 'Duzib132G0389' => 'dzi', 'Duzib150G1181' => 'dzi', 'Duzib168G0623' => 'dzi', 'Duzib170G1036' => 'dzi', 'Duzib212G0200' => 'dzi', 'Duzib248G0194' => 'dzi', 'ECA232G2193' => 'eca', 'ECA233G0302' => 'eca', 'ECA234G2813' => 'eca', 'ECA234G4866' => 'eca', 'ECA240G3932' => 'eca', 'ECA248G0385' => 'eca', 'EL10Ac2g04781' => 'bvu', 'EL10Ac3g06445' => 'bvu', 'EL10Ac7g15825' => 'bvu', 'EL10Ac8g18550' => 'bvu', 'Eucgr.B03849' => 'egr', 'Eucgr.I02744' => 'egr', 'Eucgr.J00264' => 'egr', 'Eucgr.J00493' => 'egr', 'FAN04G2181' => 'fan', 'FAN07G2666' => 'fan', 'FAN11G0024' => 'fan', 'FAN12G1105' => 'fan', 'FAN13G0302' => 'fan', 'FAN15G2781' => 'fan', 'FAN16G1274' => 'fan', 'FAN17G2988' => 'fan', 'FAN18G2621' => 'fan', 'FAN21G0013' => 'fan', 'FAN22G1211' => 'fan', 'FAN25G3626' => 'fan', 'FvH4_2g09491' => 'fve', 'FvH4_3g24910' => 'fve', 'FvH4_4g15630' => 'fve', 'FvH4_5g28820' => 'fve', 'Glyma.01G238000' => 'gma', 'Glyma.05G168400' => 'gma', 'Glyma.08G126800' => 'gma', 'Glyma.08G188500' => 'gma', 'Glyma.10G278900' => 'gma', 'Glyma.11G005700' => 'gma', 'Glyma.11G183300' => 'gma', 'Glyma.12G089200' => 'gma', 'Glyma.12G169400' => 'gma', 'Glyma.12G169500' => 'gma', 'Glyma.12G169600' => 'gma', 'Glyma.20G110800' => 'gma', 'Gohir.A03G192900' => 'ghi', 'Gohir.A03G193000' => 'ghi', 'Gohir.A05G080700' => 'ghi', 'Gohir.A09G216000' => 'ghi', 'Gohir.A12G027700' => 'ghi', 'Gohir.A13G036200' => 'ghi', 'Gohir.A13G222600' => 'ghi', 'Gohir.D02G213900' => 'ghi', 'Gohir.D02G214000' => 'ghi', 'Gohir.D05G083700' => 'ghi', 'Gohir.D05G083800' => 'ghi', 'Gohir.D05G083850' => 'ghi', 'Gohir.D08G015400' => 'ghi', 'Gohir.D09G218400' => 'ghi', 'Gohir.D12G027100' => 'ghi', 'Gohir.D13G034500' => 'ghi', 'Gohir.D13G227400' => 'ghi', 'Gorai.005G241800' => 'gra', 'Gorai.005G241900' => 'gra', 'Gorai.006G239400' => 'gra', 'Gorai.008G027600' => 'gra', 'Gorai.009G085400' => 'gra', 'Gorai.009G085500' => 'gra', 'Gorai.013G039000' => 'gra', 'Gorai.013G194800' => 'gra', 'Gorai.013G257900' => 'gra', 'GSVIVG01000982001' => 'vvi', 'GSVIVG01017981001' => 'vvi', 'HanXRQChr01g0024061' => 'han', 'HanXRQChr09g0247831' => 'han', 'HanXRQChr10g0294611' => 'han', 'HanXRQChr10g0294621' => 'han', 'HanXRQChr11g0346821' => 'han', 'HanXRQChr13g0397461' => 'han', 'HanXRQChr16g0513651' => 'han', 'HanXRQChr16g0513701' => 'han', 'Haze_00897' => 'cav', 'Haze_01745' => 'cav', 'Haze_02486' => 'cav', 'Haze_02487' => 'cav', 'Haze_23374' => 'cav', 'Hma1.2p1_0578F.1_g182520' => 'hma', 'Hma1.2p1_0602F.1_g187350' => 'hma', 'Hma1.2p1_0602F.1_g187360' => 'hma', 'Hma1.2p1_0874F.1_g231320' => 'hma', 'Hma1.2p1_1197F.1_g266210' => 'hma', 'Hma1.2p1_1197F.1_g266220' => 'hma', 'Hma1.2p1_2167F.1_g315895' => 'hma', 'Hma1.2p1_2190F.1_g316640' => 'hma', 'Hma1.2p1_3645F.1_g337153' => 'hma', 'HPP92_004907' => 'vpl', 'HPP92_012134' => 'vpl', 'HPP92_025136' => 'vpl', 'HPP92_026087' => 'vpl', 'Hund06782' => 'sun', 'Hund06784' => 'sun', 'Lalb_Chr01g0004861' => 'lal', 'Lalb_Chr02g0140591' => 'lal', 'Lalb_Chr02g0140611' => 'lal', 'Lalb_Chr03g0028101' => 'lal', 'Lalb_Chr07g0185791' => 'lal', 'Lalb_Chr12g0204491' => 'lal', 'Lalb_Chr13g0295671' => 'lal', 'Lalb_Chr19g0136461' => 'lal', 'Lalb_Chr21g0309191' => 'lal', 'Lj1g0028158' => 'lja', 'Lj1P236T38' => 'lonja', 'Lj2C32G2' => 'lonja', 'Lj2P944T8' => 'lonja', 'Lj2P963T15' => 'lonja', 'Lj3g0011788' => 'lja', 'Lj4g0025027' => 'lja', 'Lj5P255T36' => 'lonja', 'Lj6g0018866' => 'lja', 'Lj6P608T31' => 'lonja', 'LjContig00408g0008879' => 'lja', 'Lsat_1_v5_gn_5_105820' => 'lsa', 'Lsat_1_v5_gn_6_38800' => 'lsa', 'Lsat_1_v5_gn_7_67141' => 'lsa', 'Manes.04G003400' => 'mes', 'Manes.07G020000' => 'mes', 'Manes.07G020100' => 'mes', 'Manes.07G020150' => 'mes', 'Manes.10G061500' => 'mes', 'Manes.10G123200' => 'mes', 'Manes.11G161900' => 'mes', 'Manes.15G029300' => 'mes', 'Mapoly0071s0018' => 'mpo', 'Mapoly0082s0023' => 'mpo', 'Mapoly3477s0001' => 'mpo', 'MBI05_g31233_MAGBIO' => 'mbi', 'MBI09_g05946_MAGBIO' => 'mbi', 'MBI09_g05947_MAGBIO' => 'mbi', 'MBI17_g08346_MAGBIO' => 'mbi', 'MCO04G038' => 'mco', 'MCO09G370' => 'mco', 'MCO13G605' => 'mco', 'MD00G1075500' => 'mdo', 'MD03G1144300' => 'mdo', 'MD08G1236800' => 'mdo', 'MD13G1193300' => 'mdo', 'MD15G1428700' => 'mdo', 'Medtr1g112030' => 'mtr', 'Medtr1g112050' => 'mtr', 'Medtr2g006290' => 'mtr', 'Medtr2g086510' => 'mtr', 'Medtr4g053120' => 'mtr', 'Medtr5g006320' => 'mtr', 'Medtr8g088720' => 'mtr', 'MELO3C004712.2' => 'cme', 'MELO3C006533.2' => 'cme', 'MELO3C019438.2' => 'cme', 'MELO3C019440.2' => 'cme', 'MELO3C019441.2' => 'cme', 'MELO3C019895.2' => 'cme', 'Migut.B00811' => 'egut', 'Migut.D02447' => 'egut', 'Migut.F00875' => 'egut', 'Migut.N00186' => 'egut', 'Migut.N01051' => 'egut', 'Migut.N02491' => 'egut', 'Migut.O00784' => 'egut', 'MSTRG.12367' => 'ama', 'MSTRG.18756' => 'ama', 'MSTRG.21042' => 'ama', 'Nitab4.5_0000559g0040' => 'nta', 'Nitab4.5_0000667g0190' => 'nta', 'Nitab4.5_0000755g0160' => 'nta', 'Nitab4.5_0001216g0080' => 'nta', 'Nitab4.5_0004069g0040' => 'nta', 'Nitab4.5_0004129g0010' => 'nta', 'Nitab4.5_0005744g0030' => 'nta', 'Nitab4.5_0006996g0030' => 'nta', 'Nitab4.5_0008971g0040' => 'nta', 'Nitab4.5_0009769g0020' => 'nta', 'Nitab4.5_0009833g0010' => 'nta', 'Nitab4.5_0013140g0020' => 'nta', 'Nn003s41376' => 'nnu', 'Nn1g01857' => 'nnu', 'Nn1g03611' => 'nnu', 'Nn1g06853' => 'nnu', 'Nn3g18360' => 'nnu', 'Nn4g26328' => 'nnu', 'Nn5g27531' => 'nnu', 'Nn6g34899' => 'nnu', 'Nn7g36299' => 'nnu', 'Oeu021485.1' => 'oeu', 'Oeu022433.1' => 'oeu', 'Oeu032111.1' => 'oeu', 'Oeu051608.1' => 'oeu', 'Os01g0860601' => 'osa', 'Os03g0659200' => 'osa', 'Os03g0835900' => 'osa', 'Os04g0412200' => 'osa', 'Os05g0443500' => 'osa', 'Os07g0251500' => 'osa', 'Os08g0104600' => 'osa', 'Peaxi162Scf00003g00047' => 'pax', 'Peaxi162Scf00003g00052' => 'pax', 'Peaxi162Scf00003g00394' => 'pax', 'Peaxi162Scf00091g00621' => 'pax', 'Peaxi162Scf00152g00146' => 'pax', 'Peaxi162Scf00173g00025' => 'pax', 'Peaxi162Scf00195g00102' => 'pax', 'Peaxi162Scf00402g00013' => 'pax', 'Peaxi162Scf00519g00618' => 'pax', 'PGR004G2838' => 'pgr', 'PGR044G2275' => 'pgr', 'PGR102G1377' => 'pgr', 'PGR119G1245' => 'pgr', 'PGR142G4449' => 'pgr', 'PGSC0003DMG400004532' => 'stu', 'PGSC0003DMG400011950' => 'stu', 'PGSC0003DMG400023391' => 'stu', 'PGSC0003DMG400023985' => 'stu', 'PGSC0003DMG400026360' => 'stu', 'PGSC0003DMG400035711' => 'stu', 'PGSC0003DMG400037286' => 'stu', 'PGSC0003DMG402005881' => 'stu', 'Phvul.002G045400' => 'pvu', 'Phvul.006G216600' => 'pvu', 'Phvul.006G216700' => 'pvu', 'Phvul.006G216800' => 'pvu', 'Phvul.007G022500' => 'pvu', 'Phvul.011G094400' => 'pvu', 'Potri.001G470700' => 'ptr', 'Potri.003G015200' => 'ptr', 'Potri.004G202500' => 'ptr', 'Potri.004G218400' => 'ptr', 'Potri.008G020100' => 'ptr', 'Potri.008G153200' => 'ptr', 'Potri.009G163800' => 'ptr', 'Potri.010G087300' => 'ptr', 'Potri.010G239100' => 'ptr', 'Pp3c10_16100' => 'ppa', 'Pp3c10_16880' => 'ppa', 'Pp3c16_6230' => 'ppa', 'Pp3c17_18910' => 'ppa', 'Pp3c3_22119' => 'ppa', 'Pp3c3_22140' => 'ppa', 'Pp3c4_8159' => 'ppa', 'Pp3c4_8171' => 'ppa', 'Pp3c4_8330' => 'ppa', 'PRCOL_00004098' => 'pco', 'Prupe.1G013900' => 'ppe', 'Prupe.1G226300' => 'ppe', 'Prupe.1G573600' => 'ppe', 'Prupe.6G130100' => 'ppe', 'Psat3g090040' => 'psa', 'Psat4g210440' => 'psa', 'Psat6g231040' => 'psa', 'Psat6g231080' => 'psa', 'Psat7g063000' => 'psa', 'Psat7g188000' => 'psa', 'Psat7g188040' => 'psa', 'PSO017G0206' => 'pso', 'PSO170G0501' => 'pso', 'PSO170G6422' => 'pso', 'PSO210G7739' => 'pso', 'PSO339G1808' => 'pso', 'PSO339G6135' => 'pso', 'PSO384G0010' => 'pso', 'PSO384G0964' => 'pso', 'PSO761G0050' => 'pso', 'PSO782G4085' => 'pso', 'QL01p012264' => 'qlo', 'QL02p099491' => 'qlo', 'QL03p033868' => 'qlo', 'QL04p046678' => 'qlo', 'QL06p002448' => 'qlo', 'RcHm_v2.0_Chr4g0416181' => 'rch', 'RcHm_v2.0_Chr5g0044701' => 'rch', 'RcHm_v2.0_Chr6g0265781' => 'rch', 'RcHm_v2.0_Chr7g0221031' => 'rch', 'Rhsim04G0202000' => 'rsi', 'Rhsim11G0127300' => 'rsi', 'Rhsim13G0111800' => 'rsi', 'Sabra01G0165600' => 'sbr', 'Sabra03G0008300' => 'sbr', 'Sabra04G0136900' => 'sbr', 'Sabra08G0013400' => 'sbr', 'Sabra08G0116800' => 'sbr', 'Sabra09G0128000' => 'sbr', 'Sabra10G0055500' => 'sbr', 'Sabra10G0073300' => 'sbr', 'SalBow3G0385' => 'sbo', 'SalBow3G1119' => 'sbo', 'SalBow3G2005' => 'sbo', 'SalBow6G2563' => 'sbo', 'SalBow6G6386' => 'sbo', 'Sc06g0008800' => 'sci', 'Sc07g0004950' => 'sci', 'Sc09g0005340' => 'sci', 'Sc13g0004410' => 'sci', 'Sc21g0007090' => 'sci', 'Sed0009285' => 'sed', 'Sed0017583' => 'sed', 'Sed0019699' => 'sed', 'Sed0023107' => 'sed', 'SEGI_10916' => 'sgi', 'SEGI_16217' => 'sgi', 'SEGI_19466' => 'sgi', 'SEGI_41115' => 'sgi', 'SGA_v2.0_scaffold111G31534' => 'sas', 'SGA_v2.0_scaffold22G09864' => 'sas', 'SGA_v2.0_scaffold338G49219' => 'sas', 'SGA_v2.0_scaffold92G28298' => 'sas', 'SMO119G0064' => 'smo', 'SMO223G0038' => 'smo', 'SMO347G0584' => 'smo', 'SMO351G0010' => 'smo', 'SMO356G0404' => 'smo', 'Solyc01g103920.3' => 'sly', 'Solyc04g009710.2' => 'sly', 'Solyc05g055280.2' => 'sly', 'Solyc10g044520.3' => 'sly', 'Solyc10g075160.1' => 'sly', 'Solyc11g006910.3' => 'sly', 'Solyc11g068430.3' => 'sly', 'Sopen01g046310' => 'spe', 'Sopen03g001200' => 'spe', 'Sopen04g004830' => 'spe', 'Sopen05g033720' => 'spe', 'Sopen06g030740' => 'spe', 'Sopen10g013090' => 'spe', 'Sopen10g027630' => 'spe', 'Sopen10g027640' => 'spe', 'Sopen11g002820' => 'spe', 'Sopen11g027140' => 'spe', 'Sp1g09680' => 'spa', 'Sp2g03630' => 'spa', 'Sp4g10320' => 'spa', 'Sp6g33400' => 'spa', 'Sp7g13030' => 'spa', 'TAR365G0317' => 'tar', 'TAR376G0979' => 'tar', 'TAR623G1665' => 'tar', 'TAR633G2373' => 'tar', 'TAR636G1400' => 'tar', 'THA.LOC104800529' => 'tha', 'THA.LOC104808547' => 'tha', 'THA.LOC104809615' => 'tha', 'THA.LOC104815724' => 'tha', 'THA.LOC104818480' => 'tha', 'THA.LOC104819179' => 'tha', 'THA.LOC104822270' => 'tha', 'THA.LOC104826425' => 'tha', 'Thecc.02G089700' => 'tca', 'Thecc.04G232300' => 'tca', 'Thecc.09G283400' => 'tca', 'Thhalv10009020m.g' => 'esa', 'Thhalv10015506m.g' => 'esa', 'Thhalv10017364m.g' => 'esa', 'Thhalv10023742m.g' => 'esa', 'Thhalv10026483m.g' => 'esa', 'TPR.G17232' => 'tpr', 'TPR.G2133' => 'tpr', 'TPR.G2498' => 'tpr', 'TPR.G31942' => 'tpr', 'TPR.G37877' => 'tpr', 'TPR.G4571' => 'tpr', 'TWI14G1113' => 'twi', 'TWI15G0426' => 'twi', 'TWI31G1005' => 'twi', 'TWI38G0513' => 'twi', 'TWI38G1484' => 'twi', 'TWI73G1098' => 'twi', 'unitig_26.g10519' => 'ugi', 'unitig_736.g22395' => 'ugi', 'unitig_747.g21234' => 'ugi', 'unitig_747.g21942' => 'ugi', 'vmacro14351' => 'vma', 'VMungo0540G0082' => 'vmu', 'VMungo0540G0405' => 'vmu', 'VMungo0540G1486' => 'vmu', 'VMungo0540G1692' => 'vmu', 'VMungo0720G2473' => 'vmu', 'VMungo1127G1562' => 'vmu', 'VMungo1215G1918' => 'vmu', 'Zm00001eb052650' => 'zma', 'Zm00001eb063710' => 'zma', 'Zm00001eb083950' => 'zma', 'Zm00001eb174420' => 'zma', 'Zm00001eb260140' => 'zma', 'Zm00001eb260150' => 'zma', 'Zm00001eb260160' => 'zma', 'Zm00001eb348290' => 'zma', 'Zm00001eb366870' => 'zma', 'Zm00001eb421930' => 'zma' ) $gf_id = 'HOM05D001025' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001025' ) $data_identifier = 'HOM05D001025' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 19, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 2, 'amhyb' => (int) 4, 'aly' => (int) 4, 'aox' => (int) 4, 'arhy' => (int) 3, 'ath' => (int) 5, 'atr' => (int) 4, 'acertr' => (int) 3, 'cqu' => (int) 7, 'bca' => (int) 17, 'bol' => (int) 10, 'bra' => (int) 9, 'can' => (int) 10, 'cansat' => (int) 6, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 5, 'cbr' => (int) 5, 'ccan' => (int) 5, 'cde' => (int) 4, 'cfa' => (int) 3, 'ccl' => (int) 6, 'cil' => (int) 4, 'cla' => (int) 3, 'col' => (int) 3, 'cpa' => (int) 3, 'cre' => (int) 7, 'csa' => (int) 5, 'camsi' => (int) 9, 'dca' => (int) 4, 'din' => (int) 5, 'dzi' => (int) 7, 'eca' => (int) 6, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 12, 'fve' => (int) 4, 'gma' => (int) 12, 'ghi' => (int) 17, 'gra' => (int) 9, 'vvi' => (int) 2, 'han' => (int) 8, 'cav' => (int) 5, 'hma' => (int) 9, 'vpl' => (int) 4, 'sun' => (int) 2, 'lal' => (int) 9, 'lja' => (int) 5, 'lonja' => (int) 6, 'lsa' => (int) 3, 'mes' => (int) 8, 'mpo' => (int) 3, 'mbi' => (int) 4, 'mco' => (int) 3, 'mdo' => (int) 5, 'mtr' => (int) 7, 'cme' => (int) 6, 'egut' => (int) 7, 'ama' => (int) 3, 'nta' => (int) 12, 'nnu' => (int) 9, 'oeu' => (int) 4, 'osa' => (int) 7, 'pax' => (int) 9, 'pgr' => (int) 5, 'stu' => (int) 8, 'pvu' => (int) 6, 'ptr' => (int) 9, 'ppa' => (int) 9, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 7, 'pso' => (int) 10, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 3, 'sbr' => (int) 8, 'sbo' => (int) 5, 'sci' => (int) 5, 'sed' => (int) 4, 'sgi' => (int) 4, 'sas' => (int) 4, 'smo' => (int) 5, 'sly' => (int) 7, 'spe' => (int) 10, 'spa' => (int) 5, 'tar' => (int) 5, 'tha' => (int) 8, 'tca' => (int) 3, 'esa' => (int) 5, 'tpr' => (int) 6, 'twi' => (int) 6, 'ugi' => (int) 4, 'vma' => (int) 1, 'vmu' => (int) 7, 'zma' => (int) 10 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb421930' $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' => 'HOM05D001025', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '592', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p22650' => 'bna', 'A01p29720' => 'bna', 'A03p26560' => 'bna', 'A03p68820' => 'bna', 'A04p20980' => 'bna', 'A06p07730' => 'bna', 'A07p18260' => 'bna', 'A08p33710' => 'bna', 'A09p16970' => 'bna', 'A10p27490' => 'bna', 'Aa31LG1G17300' => 'aar', 'Aa31LG1G3910' => 'aar', 'Aa31LG2G9630' => 'aar', 'Aa31LG5G8360' => 'aar', 'Aa31LG9G2410' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4699' => 'aag', 'Actinidia23512' => 'ach', 'Actinidia37080' => 'ach', 'Ah.01g020380' => 'amhyb', 'Ah.08g215710' => 'amhyb', 'Ah.09g225110' => 'amhyb', 'Ah.10g036680' => 'amhyb', 'AL1G21940' => 'aly', 'AL2G15540' => 'aly', 'AL4G21520' => 'aly', 'AL7G40960' => 'aly', 'Aqoxy2G01191' => 'aox', 'Aqoxy2G03393' => 'aox', 'Aqoxy4G02775' => 'aox', 'Aqoxy6G00058' => 'aox', 'arahy.Tifrunner.gnm1.ann1.9X74H2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CW3FX9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R485W7' => 'arhy', 'AT1G10960' => 'ath', 'AT1G60950' => 'ath', 'AT2G27510' => 'ath', 'AT4G14890' => 'ath', 'AT5G10000' => 'ath', 'ATR0665G624' => 'atr', 'ATR0697G138' => 'atr', 'ATR0776G046' => 'atr', 'ATR1134G135' => 'atr', 'Atru.chr12.1025' => 'acertr', 'Atru.chr3.3241' => 'acertr', 'Atru.chr4.2460' => 'acertr', 'AUR62007427' => 'cqu', 'AUR62010960' => 'cqu', 'AUR62012201' => 'cqu', 'AUR62021470' => 'cqu', 'AUR62022834' => 'cqu', 'AUR62033635' => 'cqu', 'AUR62036186' => 'cqu', 'BcaB01g03077' => 'bca', 'BcaB02g10093' => 'bca', 'BcaB04g20295' => 'bca', 'BcaB06g28147' => 'bca', 'BcaB07g31253' => 'bca', 'BcaC01g04946' => 'bca', 'BcaC02g10614' => 'bca', 'BcaC02g10885' => 'bca', 'BcaC04g19356' => 'bca', 'BcaC04g22297' => 'bca', 'BcaC05g24977' => 'bca', 'BcaC06g31823' => 'bca', 'BcaC07g38633' => 'bca', 'BcaC09g49353' => 'bca', 'BcaC09g50168' => 'bca', 'BcaNung00322' => 'bca', 'BcaNung04769' => 'bca', 'BolC1t02753H' => 'bol', 'BolC1t03721H' => 'bol', 'BolC3t15525H' => 'bol', 'BolC4t23903H' => 'bol', 'BolC4t24231H' => 'bol', 'BolC4t27209H' => 'bol', 'BolC5t29671H' => 'bol', 'BolC8t49044H' => 'bol', 'BolC9t54999H' => 'bol', 'BolC9t59517H' => 'bol', 'BraA01t02178Z' => 'bra', 'BraA01t03099Z' => 'bra', 'BraA03t11867Z' => 'bra', 'BraA04t17667Z' => 'bra', 'BraA07t29542Z' => 'bra', 'BraA08t35287Z' => 'bra', 'BraA09t37334Z' => 'bra', 'BraA10t44801Z' => 'bra', 'BraSC39t46181Z' => 'bra', 'C01p28240' => 'bna', 'C01p37530' => 'bna', 'C03p31820' => 'bna', 'C04p24080' => 'bna', 'C04p25790' => 'bna', 'C04p56770' => 'bna', 'C05p09310' => 'bna', 'C09p21010' => 'bna', 'C09p67560' => 'bna', 'CAN.G1324.7' => 'can', 'CAN.G1358.10' => 'can', 'CAN.G1550.2' => 'can', 'CAN.G186.56' => 'can', 'CAN.G1965.1' => 'can', 'CAN.G645.15' => 'can', 'CAN.G798.26' => 'can', 'CAN.G798.27' => 'can', 'CAN.G798.29' => 'can', 'CAN.G919.31' => 'can', 'CANSAT11G0133' => 'cansat', 'CANSAT11G1171' => 'cansat', 'CANSAT11G2056' => 'cansat', 'CANSAT56G1202' => 'cansat', 'CANSAT56G1514' => 'cansat', 'CANSAT78G0455' => 'cansat', 'CARHR011190' => 'chi', 'CARHR051980' => 'chi', 'CARHR120170' => 'chi', 'CARHR203310' => 'chi', 'CARHR221490' => 'chi', 'Carub.0001s1054' => 'cru', 'Carub.0002s0431' => 'cru', 'Carub.0004s0818' => 'cru', 'Carub.0006s0846' => 'cru', 'Carub.0007s2722' => 'cru', 'Ca_00058_v3' => 'car', 'Ca_17831_v3' => 'car', 'Ca_19408_v3' => 'car', 'Ca_24397_v3' => 'car', 'Ca_25664_v3' => 'car', 'CBR_g21818' => 'cbr', 'CBR_g31195' => 'cbr', 'CBR_g32282' => 'cbr', 'CBR_g39599' => 'cbr', 'CBR_g49410' => 'cbr', 'Cc01_g09120' => 'ccan', 'Cc01_g09130' => 'ccan', 'Cc02_g09630' => 'ccan', 'Cc02_g22810' => 'ccan', 'Cc03_g03810' => 'ccan', 'CDE02G3718' => 'cde', 'CDE04G3183' => 'cde', 'CDE07G1046' => 'cde', 'CDE08G0480' => 'cde', 'Cfa005493' => 'cfa', 'Cfa010312' => 'cfa', 'Cfa015648' => 'cfa', 'Ciclev10002793m.g' => 'ccl', 'Ciclev10003356m.g' => 'ccl', 'Ciclev10006141m.g' => 'ccl', 'Ciclev10016676m.g' => 'ccl', 'Ciclev10017081m.g' => 'ccl', 'Ciclev10029499m.g' => 'ccl', 'CiPaw.01G166300' => 'cil', 'CiPaw.06G145600' => 'cil', 'CiPaw.13G040100' => 'cil', 'CiPaw.13G135800' => 'cil', 'ClCG01G012230' => 'cla', 'ClCG05G009510' => 'cla', 'ClCG08G008270' => 'cla', 'COL.COLO4_11763' => 'col', 'COL.COLO4_19876' => 'col', 'COL.COLO4_21481' => 'col', 'Cpa.g.sc118.34' => 'cpa', 'Cpa.g.sc32.13' => 'cpa', 'Cpa.g.sc58.103' => 'cpa', 'Cre03.g183850' => 'cre', 'Cre06.g306350' => 'cre', 'Cre07.g334800' => 'cre', 'Cre12.g487900' => 'cre', 'Cre14.g626700' => 'cre', 'Cre16.g658400' => 'cre', 'Cre17.g700950' => 'cre', 'CsaV3_1G014830' => 'csa', 'CsaV3_3G013320' => 'csa', 'CsaV3_3G019210' => 'csa', 'CsaV3_3G019220' => 'csa', 'CsaV3_6G004230' => 'csa', 'CSS0003773' => 'camsi', 'CSS0004563' => 'camsi', 'CSS0013949' => 'camsi', 'CSS0025971' => 'camsi', 'CSS0028570' => 'camsi', 'CSS0033127' => 'camsi', 'CSS0036051' => 'camsi', 'CSS0040087' => 'camsi', 'CSS0043179' => 'camsi', 'DCAR_006161' => 'dca', 'DCAR_010351' => 'dca', 'DCAR_012197' => 'dca', 'DCAR_024162' => 'dca', 'Dinv01030' => 'din', 'Dinv10924' => 'din', 'Dinv11835' => 'din', 'Dinv22841' => 'din', 'Dinv42553' => 'din', 'Duzib052G0560' => 'dzi', 'Duzib132G0389' => 'dzi', 'Duzib150G1181' => 'dzi', 'Duzib168G0623' => 'dzi', 'Duzib170G1036' => 'dzi', 'Duzib212G0200' => 'dzi', 'Duzib248G0194' => 'dzi', 'ECA232G2193' => 'eca', 'ECA233G0302' => 'eca', 'ECA234G2813' => 'eca', 'ECA234G4866' => 'eca', 'ECA240G3932' => 'eca', 'ECA248G0385' => 'eca', 'EL10Ac2g04781' => 'bvu', 'EL10Ac3g06445' => 'bvu', 'EL10Ac7g15825' => 'bvu', 'EL10Ac8g18550' => 'bvu', 'Eucgr.B03849' => 'egr', 'Eucgr.I02744' => 'egr', 'Eucgr.J00264' => 'egr', 'Eucgr.J00493' => 'egr', 'FAN04G2181' => 'fan', 'FAN07G2666' => 'fan', 'FAN11G0024' => 'fan', 'FAN12G1105' => 'fan', 'FAN13G0302' => 'fan', 'FAN15G2781' => 'fan', 'FAN16G1274' => 'fan', 'FAN17G2988' => 'fan', 'FAN18G2621' => 'fan', 'FAN21G0013' => 'fan', 'FAN22G1211' => 'fan', 'FAN25G3626' => 'fan', 'FvH4_2g09491' => 'fve', 'FvH4_3g24910' => 'fve', 'FvH4_4g15630' => 'fve', 'FvH4_5g28820' => 'fve', 'Glyma.01G238000' => 'gma', 'Glyma.05G168400' => 'gma', 'Glyma.08G126800' => 'gma', 'Glyma.08G188500' => 'gma', 'Glyma.10G278900' => 'gma', 'Glyma.11G005700' => 'gma', 'Glyma.11G183300' => 'gma', 'Glyma.12G089200' => 'gma', 'Glyma.12G169400' => 'gma', 'Glyma.12G169500' => 'gma', 'Glyma.12G169600' => 'gma', 'Glyma.20G110800' => 'gma', 'Gohir.A03G192900' => 'ghi', 'Gohir.A03G193000' => 'ghi', 'Gohir.A05G080700' => 'ghi', 'Gohir.A09G216000' => 'ghi', 'Gohir.A12G027700' => 'ghi', 'Gohir.A13G036200' => 'ghi', 'Gohir.A13G222600' => 'ghi', 'Gohir.D02G213900' => 'ghi', 'Gohir.D02G214000' => 'ghi', 'Gohir.D05G083700' => 'ghi', 'Gohir.D05G083800' => 'ghi', 'Gohir.D05G083850' => 'ghi', 'Gohir.D08G015400' => 'ghi', 'Gohir.D09G218400' => 'ghi', 'Gohir.D12G027100' => 'ghi', 'Gohir.D13G034500' => 'ghi', 'Gohir.D13G227400' => 'ghi', 'Gorai.005G241800' => 'gra', 'Gorai.005G241900' => 'gra', 'Gorai.006G239400' => 'gra', 'Gorai.008G027600' => 'gra', 'Gorai.009G085400' => 'gra', 'Gorai.009G085500' => 'gra', 'Gorai.013G039000' => 'gra', 'Gorai.013G194800' => 'gra', 'Gorai.013G257900' => 'gra', 'GSVIVG01000982001' => 'vvi', 'GSVIVG01017981001' => 'vvi', 'HanXRQChr01g0024061' => 'han', 'HanXRQChr09g0247831' => 'han', 'HanXRQChr10g0294611' => 'han', 'HanXRQChr10g0294621' => 'han', 'HanXRQChr11g0346821' => 'han', 'HanXRQChr13g0397461' => 'han', 'HanXRQChr16g0513651' => 'han', 'HanXRQChr16g0513701' => 'han', 'Haze_00897' => 'cav', 'Haze_01745' => 'cav', 'Haze_02486' => 'cav', 'Haze_02487' => 'cav', 'Haze_23374' => 'cav', 'Hma1.2p1_0578F.1_g182520' => 'hma', 'Hma1.2p1_0602F.1_g187350' => 'hma', 'Hma1.2p1_0602F.1_g187360' => 'hma', 'Hma1.2p1_0874F.1_g231320' => 'hma', 'Hma1.2p1_1197F.1_g266210' => 'hma', 'Hma1.2p1_1197F.1_g266220' => 'hma', 'Hma1.2p1_2167F.1_g315895' => 'hma', 'Hma1.2p1_2190F.1_g316640' => 'hma', 'Hma1.2p1_3645F.1_g337153' => 'hma', 'HPP92_004907' => 'vpl', 'HPP92_012134' => 'vpl', 'HPP92_025136' => 'vpl', 'HPP92_026087' => 'vpl', 'Hund06782' => 'sun', 'Hund06784' => 'sun', 'Lalb_Chr01g0004861' => 'lal', 'Lalb_Chr02g0140591' => 'lal', 'Lalb_Chr02g0140611' => 'lal', 'Lalb_Chr03g0028101' => 'lal', 'Lalb_Chr07g0185791' => 'lal', 'Lalb_Chr12g0204491' => 'lal', 'Lalb_Chr13g0295671' => 'lal', 'Lalb_Chr19g0136461' => 'lal', 'Lalb_Chr21g0309191' => 'lal', 'Lj1g0028158' => 'lja', 'Lj1P236T38' => 'lonja', 'Lj2C32G2' => 'lonja', 'Lj2P944T8' => 'lonja', 'Lj2P963T15' => 'lonja', 'Lj3g0011788' => 'lja', 'Lj4g0025027' => 'lja', 'Lj5P255T36' => 'lonja', 'Lj6g0018866' => 'lja', 'Lj6P608T31' => 'lonja', 'LjContig00408g0008879' => 'lja', 'Lsat_1_v5_gn_5_105820' => 'lsa', 'Lsat_1_v5_gn_6_38800' => 'lsa', 'Lsat_1_v5_gn_7_67141' => 'lsa', 'Manes.04G003400' => 'mes', 'Manes.07G020000' => 'mes', 'Manes.07G020100' => 'mes', 'Manes.07G020150' => 'mes', 'Manes.10G061500' => 'mes', 'Manes.10G123200' => 'mes', 'Manes.11G161900' => 'mes', 'Manes.15G029300' => 'mes', 'Mapoly0071s0018' => 'mpo', 'Mapoly0082s0023' => 'mpo', 'Mapoly3477s0001' => 'mpo', 'MBI05_g31233_MAGBIO' => 'mbi', 'MBI09_g05946_MAGBIO' => 'mbi', 'MBI09_g05947_MAGBIO' => 'mbi', 'MBI17_g08346_MAGBIO' => 'mbi', 'MCO04G038' => 'mco', 'MCO09G370' => 'mco', 'MCO13G605' => 'mco', 'MD00G1075500' => 'mdo', 'MD03G1144300' => 'mdo', 'MD08G1236800' => 'mdo', 'MD13G1193300' => 'mdo', 'MD15G1428700' => 'mdo', 'Medtr1g112030' => 'mtr', 'Medtr1g112050' => 'mtr', 'Medtr2g006290' => 'mtr', 'Medtr2g086510' => 'mtr', 'Medtr4g053120' => 'mtr', 'Medtr5g006320' => 'mtr', 'Medtr8g088720' => 'mtr', 'MELO3C004712.2' => 'cme', 'MELO3C006533.2' => 'cme', 'MELO3C019438.2' => 'cme', 'MELO3C019440.2' => 'cme', 'MELO3C019441.2' => 'cme', 'MELO3C019895.2' => 'cme', 'Migut.B00811' => 'egut', 'Migut.D02447' => 'egut', 'Migut.F00875' => 'egut', 'Migut.N00186' => 'egut', 'Migut.N01051' => 'egut', 'Migut.N02491' => 'egut', 'Migut.O00784' => 'egut', 'MSTRG.12367' => 'ama', 'MSTRG.18756' => 'ama', 'MSTRG.21042' => 'ama', 'Nitab4.5_0000559g0040' => 'nta', 'Nitab4.5_0000667g0190' => 'nta', 'Nitab4.5_0000755g0160' => 'nta', 'Nitab4.5_0001216g0080' => 'nta', 'Nitab4.5_0004069g0040' => 'nta', 'Nitab4.5_0004129g0010' => 'nta', 'Nitab4.5_0005744g0030' => 'nta', 'Nitab4.5_0006996g0030' => 'nta', 'Nitab4.5_0008971g0040' => 'nta', 'Nitab4.5_0009769g0020' => 'nta', 'Nitab4.5_0009833g0010' => 'nta', 'Nitab4.5_0013140g0020' => 'nta', 'Nn003s41376' => 'nnu', 'Nn1g01857' => 'nnu', 'Nn1g03611' => 'nnu', 'Nn1g06853' => 'nnu', 'Nn3g18360' => 'nnu', 'Nn4g26328' => 'nnu', 'Nn5g27531' => 'nnu', 'Nn6g34899' => 'nnu', 'Nn7g36299' => 'nnu', 'Oeu021485.1' => 'oeu', 'Oeu022433.1' => 'oeu', 'Oeu032111.1' => 'oeu', 'Oeu051608.1' => 'oeu', 'Os01g0860601' => 'osa', 'Os03g0659200' => 'osa', 'Os03g0835900' => 'osa', 'Os04g0412200' => 'osa', 'Os05g0443500' => 'osa', 'Os07g0251500' => 'osa', 'Os08g0104600' => 'osa', 'Peaxi162Scf00003g00047' => 'pax', 'Peaxi162Scf00003g00052' => 'pax', 'Peaxi162Scf00003g00394' => 'pax', 'Peaxi162Scf00091g00621' => 'pax', 'Peaxi162Scf00152g00146' => 'pax', 'Peaxi162Scf00173g00025' => 'pax', 'Peaxi162Scf00195g00102' => 'pax', 'Peaxi162Scf00402g00013' => 'pax', 'Peaxi162Scf00519g00618' => 'pax', 'PGR004G2838' => 'pgr', 'PGR044G2275' => 'pgr', 'PGR102G1377' => 'pgr', 'PGR119G1245' => 'pgr', 'PGR142G4449' => 'pgr', 'PGSC0003DMG400004532' => 'stu', 'PGSC0003DMG400011950' => 'stu', 'PGSC0003DMG400023391' => 'stu', 'PGSC0003DMG400023985' => 'stu', 'PGSC0003DMG400026360' => 'stu', 'PGSC0003DMG400035711' => 'stu', 'PGSC0003DMG400037286' => 'stu', 'PGSC0003DMG402005881' => 'stu', 'Phvul.002G045400' => 'pvu', 'Phvul.006G216600' => 'pvu', 'Phvul.006G216700' => 'pvu', 'Phvul.006G216800' => 'pvu', 'Phvul.007G022500' => 'pvu', 'Phvul.011G094400' => 'pvu', 'Potri.001G470700' => 'ptr', 'Potri.003G015200' => 'ptr', 'Potri.004G202500' => 'ptr', 'Potri.004G218400' => 'ptr', 'Potri.008G020100' => 'ptr', 'Potri.008G153200' => 'ptr', 'Potri.009G163800' => 'ptr', 'Potri.010G087300' => 'ptr', 'Potri.010G239100' => 'ptr', 'Pp3c10_16100' => 'ppa', 'Pp3c10_16880' => 'ppa', 'Pp3c16_6230' => 'ppa', 'Pp3c17_18910' => 'ppa', 'Pp3c3_22119' => 'ppa', 'Pp3c3_22140' => 'ppa', 'Pp3c4_8159' => 'ppa', 'Pp3c4_8171' => 'ppa', 'Pp3c4_8330' => 'ppa', 'PRCOL_00004098' => 'pco', 'Prupe.1G013900' => 'ppe', 'Prupe.1G226300' => 'ppe', 'Prupe.1G573600' => 'ppe', 'Prupe.6G130100' => 'ppe', 'Psat3g090040' => 'psa', 'Psat4g210440' => 'psa', 'Psat6g231040' => 'psa', 'Psat6g231080' => 'psa', 'Psat7g063000' => 'psa', 'Psat7g188000' => 'psa', 'Psat7g188040' => 'psa', 'PSO017G0206' => 'pso', 'PSO170G0501' => 'pso', 'PSO170G6422' => 'pso', 'PSO210G7739' => 'pso', 'PSO339G1808' => 'pso', 'PSO339G6135' => 'pso', 'PSO384G0010' => 'pso', 'PSO384G0964' => 'pso', 'PSO761G0050' => 'pso', 'PSO782G4085' => 'pso', 'QL01p012264' => 'qlo', 'QL02p099491' => 'qlo', 'QL03p033868' => 'qlo', 'QL04p046678' => 'qlo', 'QL06p002448' => 'qlo', 'RcHm_v2.0_Chr4g0416181' => 'rch', 'RcHm_v2.0_Chr5g0044701' => 'rch', 'RcHm_v2.0_Chr6g0265781' => 'rch', 'RcHm_v2.0_Chr7g0221031' => 'rch', 'Rhsim04G0202000' => 'rsi', 'Rhsim11G0127300' => 'rsi', 'Rhsim13G0111800' => 'rsi', 'Sabra01G0165600' => 'sbr', 'Sabra03G0008300' => 'sbr', 'Sabra04G0136900' => 'sbr', 'Sabra08G0013400' => 'sbr', 'Sabra08G0116800' => 'sbr', 'Sabra09G0128000' => 'sbr', 'Sabra10G0055500' => 'sbr', 'Sabra10G0073300' => 'sbr', 'SalBow3G0385' => 'sbo', 'SalBow3G1119' => 'sbo', 'SalBow3G2005' => 'sbo', 'SalBow6G2563' => 'sbo', 'SalBow6G6386' => 'sbo', 'Sc06g0008800' => 'sci', 'Sc07g0004950' => 'sci', 'Sc09g0005340' => 'sci', 'Sc13g0004410' => 'sci', 'Sc21g0007090' => 'sci', 'Sed0009285' => 'sed', 'Sed0017583' => 'sed', 'Sed0019699' => 'sed', 'Sed0023107' => 'sed', 'SEGI_10916' => 'sgi', 'SEGI_16217' => 'sgi', 'SEGI_19466' => 'sgi', 'SEGI_41115' => 'sgi', 'SGA_v2.0_scaffold111G31534' => 'sas', 'SGA_v2.0_scaffold22G09864' => 'sas', 'SGA_v2.0_scaffold338G49219' => 'sas', 'SGA_v2.0_scaffold92G28298' => 'sas', 'SMO119G0064' => 'smo', 'SMO223G0038' => 'smo', 'SMO347G0584' => 'smo', 'SMO351G0010' => 'smo', 'SMO356G0404' => 'smo', 'Solyc01g103920.3' => 'sly', 'Solyc04g009710.2' => 'sly', 'Solyc05g055280.2' => 'sly', 'Solyc10g044520.3' => 'sly', 'Solyc10g075160.1' => 'sly', 'Solyc11g006910.3' => 'sly', 'Solyc11g068430.3' => 'sly', 'Sopen01g046310' => 'spe', 'Sopen03g001200' => 'spe', 'Sopen04g004830' => 'spe', 'Sopen05g033720' => 'spe', 'Sopen06g030740' => 'spe', 'Sopen10g013090' => 'spe', 'Sopen10g027630' => 'spe', 'Sopen10g027640' => 'spe', 'Sopen11g002820' => 'spe', 'Sopen11g027140' => 'spe', 'Sp1g09680' => 'spa', 'Sp2g03630' => 'spa', 'Sp4g10320' => 'spa', 'Sp6g33400' => 'spa', 'Sp7g13030' => 'spa', 'TAR365G0317' => 'tar', 'TAR376G0979' => 'tar', 'TAR623G1665' => 'tar', 'TAR633G2373' => 'tar', 'TAR636G1400' => 'tar', 'THA.LOC104800529' => 'tha', 'THA.LOC104808547' => 'tha', 'THA.LOC104809615' => 'tha', 'THA.LOC104815724' => 'tha', 'THA.LOC104818480' => 'tha', 'THA.LOC104819179' => 'tha', 'THA.LOC104822270' => 'tha', 'THA.LOC104826425' => 'tha', 'Thecc.02G089700' => 'tca', 'Thecc.04G232300' => 'tca', 'Thecc.09G283400' => 'tca', 'Thhalv10009020m.g' => 'esa', 'Thhalv10015506m.g' => 'esa', 'Thhalv10017364m.g' => 'esa', 'Thhalv10023742m.g' => 'esa', 'Thhalv10026483m.g' => 'esa', 'TPR.G17232' => 'tpr', 'TPR.G2133' => 'tpr', 'TPR.G2498' => 'tpr', 'TPR.G31942' => 'tpr', 'TPR.G37877' => 'tpr', 'TPR.G4571' => 'tpr', 'TWI14G1113' => 'twi', 'TWI15G0426' => 'twi', 'TWI31G1005' => 'twi', 'TWI38G0513' => 'twi', 'TWI38G1484' => 'twi', 'TWI73G1098' => 'twi', 'unitig_26.g10519' => 'ugi', 'unitig_736.g22395' => 'ugi', 'unitig_747.g21234' => 'ugi', 'unitig_747.g21942' => 'ugi', 'vmacro14351' => 'vma', 'VMungo0540G0082' => 'vmu', 'VMungo0540G0405' => 'vmu', 'VMungo0540G1486' => 'vmu', 'VMungo0540G1692' => 'vmu', 'VMungo0720G2473' => 'vmu', 'VMungo1127G1562' => 'vmu', 'VMungo1215G1918' => 'vmu', 'Zm00001eb052650' => 'zma', 'Zm00001eb063710' => 'zma', 'Zm00001eb083950' => 'zma', 'Zm00001eb174420' => 'zma', 'Zm00001eb260140' => 'zma', 'Zm00001eb260150' => 'zma', 'Zm00001eb260160' => 'zma', 'Zm00001eb348290' => 'zma', 'Zm00001eb366870' => 'zma', 'Zm00001eb421930' => 'zma' ), 'gf_id' => 'HOM05D001025', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001025' ), 'data_identifier' => 'HOM05D001025', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001025', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '592', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p22650' => 'bna', 'A01p29720' => 'bna', 'A03p26560' => 'bna', 'A03p68820' => 'bna', 'A04p20980' => 'bna', 'A06p07730' => 'bna', 'A07p18260' => 'bna', 'A08p33710' => 'bna', 'A09p16970' => 'bna', 'A10p27490' => 'bna', 'Aa31LG1G17300' => 'aar', 'Aa31LG1G3910' => 'aar', 'Aa31LG2G9630' => 'aar', 'Aa31LG5G8360' => 'aar', 'Aa31LG9G2410' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4699' => 'aag', 'Actinidia23512' => 'ach', 'Actinidia37080' => 'ach', 'Ah.01g020380' => 'amhyb', 'Ah.08g215710' => 'amhyb', 'Ah.09g225110' => 'amhyb', 'Ah.10g036680' => 'amhyb', 'AL1G21940' => 'aly', 'AL2G15540' => 'aly', 'AL4G21520' => 'aly', 'AL7G40960' => 'aly', 'Aqoxy2G01191' => 'aox', 'Aqoxy2G03393' => 'aox', 'Aqoxy4G02775' => 'aox', 'Aqoxy6G00058' => 'aox', 'arahy.Tifrunner.gnm1.ann1.9X74H2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CW3FX9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R485W7' => 'arhy', 'AT1G10960' => 'ath', 'AT1G60950' => 'ath', 'AT2G27510' => 'ath', 'AT4G14890' => 'ath', 'AT5G10000' => 'ath', 'ATR0665G624' => 'atr', 'ATR0697G138' => 'atr', 'ATR0776G046' => 'atr', 'ATR1134G135' => 'atr', 'Atru.chr12.1025' => 'acertr', 'Atru.chr3.3241' => 'acertr', 'Atru.chr4.2460' => 'acertr', 'AUR62007427' => 'cqu', 'AUR62010960' => 'cqu', 'AUR62012201' => 'cqu', 'AUR62021470' => 'cqu', 'AUR62022834' => 'cqu', 'AUR62033635' => 'cqu', 'AUR62036186' => 'cqu', 'BcaB01g03077' => 'bca', 'BcaB02g10093' => 'bca', 'BcaB04g20295' => 'bca', 'BcaB06g28147' => 'bca', 'BcaB07g31253' => 'bca', 'BcaC01g04946' => 'bca', 'BcaC02g10614' => 'bca', 'BcaC02g10885' => 'bca', 'BcaC04g19356' => 'bca', 'BcaC04g22297' => 'bca', 'BcaC05g24977' => 'bca', 'BcaC06g31823' => 'bca', 'BcaC07g38633' => 'bca', 'BcaC09g49353' => 'bca', 'BcaC09g50168' => 'bca', 'BcaNung00322' => 'bca', 'BcaNung04769' => 'bca', 'BolC1t02753H' => 'bol', 'BolC1t03721H' => 'bol', 'BolC3t15525H' => 'bol', 'BolC4t23903H' => 'bol', 'BolC4t24231H' => 'bol', 'BolC4t27209H' => 'bol', 'BolC5t29671H' => 'bol', 'BolC8t49044H' => 'bol', 'BolC9t54999H' => 'bol', 'BolC9t59517H' => 'bol', 'BraA01t02178Z' => 'bra', 'BraA01t03099Z' => 'bra', 'BraA03t11867Z' => 'bra', 'BraA04t17667Z' => 'bra', 'BraA07t29542Z' => 'bra', 'BraA08t35287Z' => 'bra', 'BraA09t37334Z' => 'bra', 'BraA10t44801Z' => 'bra', 'BraSC39t46181Z' => 'bra', 'C01p28240' => 'bna', 'C01p37530' => 'bna', 'C03p31820' => 'bna', 'C04p24080' => 'bna', 'C04p25790' => 'bna', 'C04p56770' => 'bna', 'C05p09310' => 'bna', 'C09p21010' => 'bna', 'C09p67560' => 'bna', 'CAN.G1324.7' => 'can', 'CAN.G1358.10' => 'can', 'CAN.G1550.2' => 'can', 'CAN.G186.56' => 'can', 'CAN.G1965.1' => 'can', 'CAN.G645.15' => 'can', 'CAN.G798.26' => 'can', 'CAN.G798.27' => 'can', 'CAN.G798.29' => 'can', 'CAN.G919.31' => 'can', 'CANSAT11G0133' => 'cansat', 'CANSAT11G1171' => 'cansat', 'CANSAT11G2056' => 'cansat', 'CANSAT56G1202' => 'cansat', 'CANSAT56G1514' => 'cansat', 'CANSAT78G0455' => 'cansat', 'CARHR011190' => 'chi', 'CARHR051980' => 'chi', 'CARHR120170' => 'chi', 'CARHR203310' => 'chi', 'CARHR221490' => 'chi', 'Carub.0001s1054' => 'cru', 'Carub.0002s0431' => 'cru', 'Carub.0004s0818' => 'cru', 'Carub.0006s0846' => 'cru', 'Carub.0007s2722' => 'cru', 'Ca_00058_v3' => 'car', 'Ca_17831_v3' => 'car', 'Ca_19408_v3' => 'car', 'Ca_24397_v3' => 'car', 'Ca_25664_v3' => 'car', 'CBR_g21818' => 'cbr', 'CBR_g31195' => 'cbr', 'CBR_g32282' => 'cbr', 'CBR_g39599' => 'cbr', 'CBR_g49410' => 'cbr', 'Cc01_g09120' => 'ccan', 'Cc01_g09130' => 'ccan', 'Cc02_g09630' => 'ccan', 'Cc02_g22810' => 'ccan', 'Cc03_g03810' => 'ccan', 'CDE02G3718' => 'cde', 'CDE04G3183' => 'cde', 'CDE07G1046' => 'cde', 'CDE08G0480' => 'cde', 'Cfa005493' => 'cfa', 'Cfa010312' => 'cfa', 'Cfa015648' => 'cfa', 'Ciclev10002793m.g' => 'ccl', 'Ciclev10003356m.g' => 'ccl', 'Ciclev10006141m.g' => 'ccl', 'Ciclev10016676m.g' => 'ccl', 'Ciclev10017081m.g' => 'ccl', 'Ciclev10029499m.g' => 'ccl', 'CiPaw.01G166300' => 'cil', 'CiPaw.06G145600' => 'cil', 'CiPaw.13G040100' => 'cil', 'CiPaw.13G135800' => 'cil', 'ClCG01G012230' => 'cla', 'ClCG05G009510' => 'cla', 'ClCG08G008270' => 'cla', 'COL.COLO4_11763' => 'col', 'COL.COLO4_19876' => 'col', 'COL.COLO4_21481' => 'col', 'Cpa.g.sc118.34' => 'cpa', 'Cpa.g.sc32.13' => 'cpa', 'Cpa.g.sc58.103' => 'cpa', 'Cre03.g183850' => 'cre', 'Cre06.g306350' => 'cre', 'Cre07.g334800' => 'cre', 'Cre12.g487900' => 'cre', 'Cre14.g626700' => 'cre', 'Cre16.g658400' => 'cre', 'Cre17.g700950' => 'cre', 'CsaV3_1G014830' => 'csa', 'CsaV3_3G013320' => 'csa', 'CsaV3_3G019210' => 'csa', 'CsaV3_3G019220' => 'csa', 'CsaV3_6G004230' => 'csa', 'CSS0003773' => 'camsi', 'CSS0004563' => 'camsi', 'CSS0013949' => 'camsi', 'CSS0025971' => 'camsi', 'CSS0028570' => 'camsi', 'CSS0033127' => 'camsi', 'CSS0036051' => 'camsi', 'CSS0040087' => 'camsi', 'CSS0043179' => 'camsi', 'DCAR_006161' => 'dca', 'DCAR_010351' => 'dca', 'DCAR_012197' => 'dca', 'DCAR_024162' => 'dca', 'Dinv01030' => 'din', 'Dinv10924' => 'din', 'Dinv11835' => 'din', 'Dinv22841' => 'din', 'Dinv42553' => 'din', 'Duzib052G0560' => 'dzi', 'Duzib132G0389' => 'dzi', 'Duzib150G1181' => 'dzi', 'Duzib168G0623' => 'dzi', 'Duzib170G1036' => 'dzi', 'Duzib212G0200' => 'dzi', 'Duzib248G0194' => 'dzi', 'ECA232G2193' => 'eca', 'ECA233G0302' => 'eca', 'ECA234G2813' => 'eca', 'ECA234G4866' => 'eca', 'ECA240G3932' => 'eca', 'ECA248G0385' => 'eca', 'EL10Ac2g04781' => 'bvu', 'EL10Ac3g06445' => 'bvu', 'EL10Ac7g15825' => 'bvu', 'EL10Ac8g18550' => 'bvu', 'Eucgr.B03849' => 'egr', 'Eucgr.I02744' => 'egr', 'Eucgr.J00264' => 'egr', 'Eucgr.J00493' => 'egr', 'FAN04G2181' => 'fan', 'FAN07G2666' => 'fan', 'FAN11G0024' => 'fan', 'FAN12G1105' => 'fan', 'FAN13G0302' => 'fan', 'FAN15G2781' => 'fan', 'FAN16G1274' => 'fan', 'FAN17G2988' => 'fan', 'FAN18G2621' => 'fan', 'FAN21G0013' => 'fan', 'FAN22G1211' => 'fan', 'FAN25G3626' => 'fan', 'FvH4_2g09491' => 'fve', 'FvH4_3g24910' => 'fve', 'FvH4_4g15630' => 'fve', 'FvH4_5g28820' => 'fve', 'Glyma.01G238000' => 'gma', 'Glyma.05G168400' => 'gma', 'Glyma.08G126800' => 'gma', 'Glyma.08G188500' => 'gma', 'Glyma.10G278900' => 'gma', 'Glyma.11G005700' => 'gma', 'Glyma.11G183300' => 'gma', 'Glyma.12G089200' => 'gma', 'Glyma.12G169400' => 'gma', 'Glyma.12G169500' => 'gma', 'Glyma.12G169600' => 'gma', 'Glyma.20G110800' => 'gma', 'Gohir.A03G192900' => 'ghi', 'Gohir.A03G193000' => 'ghi', 'Gohir.A05G080700' => 'ghi', 'Gohir.A09G216000' => 'ghi', 'Gohir.A12G027700' => 'ghi', 'Gohir.A13G036200' => 'ghi', 'Gohir.A13G222600' => 'ghi', 'Gohir.D02G213900' => 'ghi', 'Gohir.D02G214000' => 'ghi', 'Gohir.D05G083700' => 'ghi', 'Gohir.D05G083800' => 'ghi', 'Gohir.D05G083850' => 'ghi', 'Gohir.D08G015400' => 'ghi', 'Gohir.D09G218400' => 'ghi', 'Gohir.D12G027100' => 'ghi', 'Gohir.D13G034500' => 'ghi', 'Gohir.D13G227400' => 'ghi', 'Gorai.005G241800' => 'gra', 'Gorai.005G241900' => 'gra', 'Gorai.006G239400' => 'gra', 'Gorai.008G027600' => 'gra', 'Gorai.009G085400' => 'gra', 'Gorai.009G085500' => 'gra', 'Gorai.013G039000' => 'gra', 'Gorai.013G194800' => 'gra', 'Gorai.013G257900' => 'gra', 'GSVIVG01000982001' => 'vvi', 'GSVIVG01017981001' => 'vvi', 'HanXRQChr01g0024061' => 'han', 'HanXRQChr09g0247831' => 'han', 'HanXRQChr10g0294611' => 'han', 'HanXRQChr10g0294621' => 'han', 'HanXRQChr11g0346821' => 'han', 'HanXRQChr13g0397461' => 'han', 'HanXRQChr16g0513651' => 'han', 'HanXRQChr16g0513701' => 'han', 'Haze_00897' => 'cav', 'Haze_01745' => 'cav', 'Haze_02486' => 'cav', 'Haze_02487' => 'cav', 'Haze_23374' => 'cav', 'Hma1.2p1_0578F.1_g182520' => 'hma', 'Hma1.2p1_0602F.1_g187350' => 'hma', 'Hma1.2p1_0602F.1_g187360' => 'hma', 'Hma1.2p1_0874F.1_g231320' => 'hma', 'Hma1.2p1_1197F.1_g266210' => 'hma', 'Hma1.2p1_1197F.1_g266220' => 'hma', 'Hma1.2p1_2167F.1_g315895' => 'hma', 'Hma1.2p1_2190F.1_g316640' => 'hma', 'Hma1.2p1_3645F.1_g337153' => 'hma', 'HPP92_004907' => 'vpl', 'HPP92_012134' => 'vpl', 'HPP92_025136' => 'vpl', 'HPP92_026087' => 'vpl', 'Hund06782' => 'sun', 'Hund06784' => 'sun', 'Lalb_Chr01g0004861' => 'lal', 'Lalb_Chr02g0140591' => 'lal', 'Lalb_Chr02g0140611' => 'lal', 'Lalb_Chr03g0028101' => 'lal', 'Lalb_Chr07g0185791' => 'lal', 'Lalb_Chr12g0204491' => 'lal', 'Lalb_Chr13g0295671' => 'lal', 'Lalb_Chr19g0136461' => 'lal', 'Lalb_Chr21g0309191' => 'lal', 'Lj1g0028158' => 'lja', 'Lj1P236T38' => 'lonja', 'Lj2C32G2' => 'lonja', 'Lj2P944T8' => 'lonja', 'Lj2P963T15' => 'lonja', 'Lj3g0011788' => 'lja', 'Lj4g0025027' => 'lja', 'Lj5P255T36' => 'lonja', 'Lj6g0018866' => 'lja', 'Lj6P608T31' => 'lonja', 'LjContig00408g0008879' => 'lja', 'Lsat_1_v5_gn_5_105820' => 'lsa', 'Lsat_1_v5_gn_6_38800' => 'lsa', 'Lsat_1_v5_gn_7_67141' => 'lsa', 'Manes.04G003400' => 'mes', 'Manes.07G020000' => 'mes', 'Manes.07G020100' => 'mes', 'Manes.07G020150' => 'mes', 'Manes.10G061500' => 'mes', 'Manes.10G123200' => 'mes', 'Manes.11G161900' => 'mes', 'Manes.15G029300' => 'mes', 'Mapoly0071s0018' => 'mpo', 'Mapoly0082s0023' => 'mpo', 'Mapoly3477s0001' => 'mpo', 'MBI05_g31233_MAGBIO' => 'mbi', 'MBI09_g05946_MAGBIO' => 'mbi', 'MBI09_g05947_MAGBIO' => 'mbi', 'MBI17_g08346_MAGBIO' => 'mbi', 'MCO04G038' => 'mco', 'MCO09G370' => 'mco', 'MCO13G605' => 'mco', 'MD00G1075500' => 'mdo', 'MD03G1144300' => 'mdo', 'MD08G1236800' => 'mdo', 'MD13G1193300' => 'mdo', 'MD15G1428700' => 'mdo', 'Medtr1g112030' => 'mtr', 'Medtr1g112050' => 'mtr', 'Medtr2g006290' => 'mtr', 'Medtr2g086510' => 'mtr', 'Medtr4g053120' => 'mtr', 'Medtr5g006320' => 'mtr', 'Medtr8g088720' => 'mtr', 'MELO3C004712.2' => 'cme', 'MELO3C006533.2' => 'cme', 'MELO3C019438.2' => 'cme', 'MELO3C019440.2' => 'cme', 'MELO3C019441.2' => 'cme', 'MELO3C019895.2' => 'cme', 'Migut.B00811' => 'egut', 'Migut.D02447' => 'egut', 'Migut.F00875' => 'egut', 'Migut.N00186' => 'egut', 'Migut.N01051' => 'egut', 'Migut.N02491' => 'egut', 'Migut.O00784' => 'egut', 'MSTRG.12367' => 'ama', 'MSTRG.18756' => 'ama', 'MSTRG.21042' => 'ama', 'Nitab4.5_0000559g0040' => 'nta', 'Nitab4.5_0000667g0190' => 'nta', 'Nitab4.5_0000755g0160' => 'nta', 'Nitab4.5_0001216g0080' => 'nta', 'Nitab4.5_0004069g0040' => 'nta', 'Nitab4.5_0004129g0010' => 'nta', 'Nitab4.5_0005744g0030' => 'nta', 'Nitab4.5_0006996g0030' => 'nta', 'Nitab4.5_0008971g0040' => 'nta', 'Nitab4.5_0009769g0020' => 'nta', 'Nitab4.5_0009833g0010' => 'nta', 'Nitab4.5_0013140g0020' => 'nta', 'Nn003s41376' => 'nnu', 'Nn1g01857' => 'nnu', 'Nn1g03611' => 'nnu', 'Nn1g06853' => 'nnu', 'Nn3g18360' => 'nnu', 'Nn4g26328' => 'nnu', 'Nn5g27531' => 'nnu', 'Nn6g34899' => 'nnu', 'Nn7g36299' => 'nnu', 'Oeu021485.1' => 'oeu', 'Oeu022433.1' => 'oeu', 'Oeu032111.1' => 'oeu', 'Oeu051608.1' => 'oeu', 'Os01g0860601' => 'osa', 'Os03g0659200' => 'osa', 'Os03g0835900' => 'osa', 'Os04g0412200' => 'osa', 'Os05g0443500' => 'osa', 'Os07g0251500' => 'osa', 'Os08g0104600' => 'osa', 'Peaxi162Scf00003g00047' => 'pax', 'Peaxi162Scf00003g00052' => 'pax', 'Peaxi162Scf00003g00394' => 'pax', 'Peaxi162Scf00091g00621' => 'pax', 'Peaxi162Scf00152g00146' => 'pax', 'Peaxi162Scf00173g00025' => 'pax', 'Peaxi162Scf00195g00102' => 'pax', 'Peaxi162Scf00402g00013' => 'pax', 'Peaxi162Scf00519g00618' => 'pax', 'PGR004G2838' => 'pgr', 'PGR044G2275' => 'pgr', 'PGR102G1377' => 'pgr', 'PGR119G1245' => 'pgr', 'PGR142G4449' => 'pgr', 'PGSC0003DMG400004532' => 'stu', 'PGSC0003DMG400011950' => 'stu', 'PGSC0003DMG400023391' => 'stu', 'PGSC0003DMG400023985' => 'stu', 'PGSC0003DMG400026360' => 'stu', 'PGSC0003DMG400035711' => 'stu', 'PGSC0003DMG400037286' => 'stu', 'PGSC0003DMG402005881' => 'stu', 'Phvul.002G045400' => 'pvu', 'Phvul.006G216600' => 'pvu', 'Phvul.006G216700' => 'pvu', 'Phvul.006G216800' => 'pvu', 'Phvul.007G022500' => 'pvu', 'Phvul.011G094400' => 'pvu', 'Potri.001G470700' => 'ptr', 'Potri.003G015200' => 'ptr', 'Potri.004G202500' => 'ptr', 'Potri.004G218400' => 'ptr', 'Potri.008G020100' => 'ptr', 'Potri.008G153200' => 'ptr', 'Potri.009G163800' => 'ptr', 'Potri.010G087300' => 'ptr', 'Potri.010G239100' => 'ptr', 'Pp3c10_16100' => 'ppa', 'Pp3c10_16880' => 'ppa', 'Pp3c16_6230' => 'ppa', 'Pp3c17_18910' => 'ppa', 'Pp3c3_22119' => 'ppa', 'Pp3c3_22140' => 'ppa', 'Pp3c4_8159' => 'ppa', 'Pp3c4_8171' => 'ppa', 'Pp3c4_8330' => 'ppa', 'PRCOL_00004098' => 'pco', 'Prupe.1G013900' => 'ppe', 'Prupe.1G226300' => 'ppe', 'Prupe.1G573600' => 'ppe', 'Prupe.6G130100' => 'ppe', 'Psat3g090040' => 'psa', 'Psat4g210440' => 'psa', 'Psat6g231040' => 'psa', 'Psat6g231080' => 'psa', 'Psat7g063000' => 'psa', 'Psat7g188000' => 'psa', 'Psat7g188040' => 'psa', 'PSO017G0206' => 'pso', 'PSO170G0501' => 'pso', 'PSO170G6422' => 'pso', 'PSO210G7739' => 'pso', 'PSO339G1808' => 'pso', 'PSO339G6135' => 'pso', 'PSO384G0010' => 'pso', 'PSO384G0964' => 'pso', 'PSO761G0050' => 'pso', 'PSO782G4085' => 'pso', 'QL01p012264' => 'qlo', 'QL02p099491' => 'qlo', 'QL03p033868' => 'qlo', 'QL04p046678' => 'qlo', 'QL06p002448' => 'qlo', 'RcHm_v2.0_Chr4g0416181' => 'rch', 'RcHm_v2.0_Chr5g0044701' => 'rch', 'RcHm_v2.0_Chr6g0265781' => 'rch', 'RcHm_v2.0_Chr7g0221031' => 'rch', 'Rhsim04G0202000' => 'rsi', 'Rhsim11G0127300' => 'rsi', 'Rhsim13G0111800' => 'rsi', 'Sabra01G0165600' => 'sbr', 'Sabra03G0008300' => 'sbr', 'Sabra04G0136900' => 'sbr', 'Sabra08G0013400' => 'sbr', 'Sabra08G0116800' => 'sbr', 'Sabra09G0128000' => 'sbr', 'Sabra10G0055500' => 'sbr', 'Sabra10G0073300' => 'sbr', 'SalBow3G0385' => 'sbo', 'SalBow3G1119' => 'sbo', 'SalBow3G2005' => 'sbo', 'SalBow6G2563' => 'sbo', 'SalBow6G6386' => 'sbo', 'Sc06g0008800' => 'sci', 'Sc07g0004950' => 'sci', 'Sc09g0005340' => 'sci', 'Sc13g0004410' => 'sci', 'Sc21g0007090' => 'sci', 'Sed0009285' => 'sed', 'Sed0017583' => 'sed', 'Sed0019699' => 'sed', 'Sed0023107' => 'sed', 'SEGI_10916' => 'sgi', 'SEGI_16217' => 'sgi', 'SEGI_19466' => 'sgi', 'SEGI_41115' => 'sgi', 'SGA_v2.0_scaffold111G31534' => 'sas', 'SGA_v2.0_scaffold22G09864' => 'sas', 'SGA_v2.0_scaffold338G49219' => 'sas', 'SGA_v2.0_scaffold92G28298' => 'sas', 'SMO119G0064' => 'smo', 'SMO223G0038' => 'smo', 'SMO347G0584' => 'smo', 'SMO351G0010' => 'smo', 'SMO356G0404' => 'smo', 'Solyc01g103920.3' => 'sly', 'Solyc04g009710.2' => 'sly', 'Solyc05g055280.2' => 'sly', 'Solyc10g044520.3' => 'sly', 'Solyc10g075160.1' => 'sly', 'Solyc11g006910.3' => 'sly', 'Solyc11g068430.3' => 'sly', 'Sopen01g046310' => 'spe', 'Sopen03g001200' => 'spe', 'Sopen04g004830' => 'spe', 'Sopen05g033720' => 'spe', 'Sopen06g030740' => 'spe', 'Sopen10g013090' => 'spe', 'Sopen10g027630' => 'spe', 'Sopen10g027640' => 'spe', 'Sopen11g002820' => 'spe', 'Sopen11g027140' => 'spe', 'Sp1g09680' => 'spa', 'Sp2g03630' => 'spa', 'Sp4g10320' => 'spa', 'Sp6g33400' => 'spa', 'Sp7g13030' => 'spa', 'TAR365G0317' => 'tar', 'TAR376G0979' => 'tar', 'TAR623G1665' => 'tar', 'TAR633G2373' => 'tar', 'TAR636G1400' => 'tar', 'THA.LOC104800529' => 'tha', 'THA.LOC104808547' => 'tha', 'THA.LOC104809615' => 'tha', 'THA.LOC104815724' => 'tha', 'THA.LOC104818480' => 'tha', 'THA.LOC104819179' => 'tha', 'THA.LOC104822270' => 'tha', 'THA.LOC104826425' => 'tha', 'Thecc.02G089700' => 'tca', 'Thecc.04G232300' => 'tca', 'Thecc.09G283400' => 'tca', 'Thhalv10009020m.g' => 'esa', 'Thhalv10015506m.g' => 'esa', 'Thhalv10017364m.g' => 'esa', 'Thhalv10023742m.g' => 'esa', 'Thhalv10026483m.g' => 'esa', 'TPR.G17232' => 'tpr', 'TPR.G2133' => 'tpr', 'TPR.G2498' => 'tpr', 'TPR.G31942' => 'tpr', 'TPR.G37877' => 'tpr', 'TPR.G4571' => 'tpr', 'TWI14G1113' => 'twi', 'TWI15G0426' => 'twi', 'TWI31G1005' => 'twi', 'TWI38G0513' => 'twi', 'TWI38G1484' => 'twi', 'TWI73G1098' => 'twi', 'unitig_26.g10519' => 'ugi', 'unitig_736.g22395' => 'ugi', 'unitig_747.g21234' => 'ugi', 'unitig_747.g21942' => 'ugi', 'vmacro14351' => 'vma', 'VMungo0540G0082' => 'vmu', 'VMungo0540G0405' => 'vmu', 'VMungo0540G1486' => 'vmu', 'VMungo0540G1692' => 'vmu', 'VMungo0720G2473' => 'vmu', 'VMungo1127G1562' => 'vmu', 'VMungo1215G1918' => 'vmu', 'Zm00001eb052650' => 'zma', 'Zm00001eb063710' => 'zma', 'Zm00001eb083950' => 'zma', 'Zm00001eb174420' => 'zma', 'Zm00001eb260140' => 'zma', 'Zm00001eb260150' => 'zma', 'Zm00001eb260160' => 'zma', 'Zm00001eb348290' => 'zma', 'Zm00001eb366870' => 'zma', 'Zm00001eb421930' => 'zma' ) $gf_id = 'HOM05D001025' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001025' ) $data_identifier = 'HOM05D001025' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 19, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 2, 'amhyb' => (int) 4, 'aly' => (int) 4, 'aox' => (int) 4, 'arhy' => (int) 3, 'ath' => (int) 5, 'atr' => (int) 4, 'acertr' => (int) 3, 'cqu' => (int) 7, 'bca' => (int) 17, 'bol' => (int) 10, 'bra' => (int) 9, 'can' => (int) 10, 'cansat' => (int) 6, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 5, 'cbr' => (int) 5, 'ccan' => (int) 5, 'cde' => (int) 4, 'cfa' => (int) 3, 'ccl' => (int) 6, 'cil' => (int) 4, 'cla' => (int) 3, 'col' => (int) 3, 'cpa' => (int) 3, 'cre' => (int) 7, 'csa' => (int) 5, 'camsi' => (int) 9, 'dca' => (int) 4, 'din' => (int) 5, 'dzi' => (int) 7, 'eca' => (int) 6, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 12, 'fve' => (int) 4, 'gma' => (int) 12, 'ghi' => (int) 17, 'gra' => (int) 9, 'vvi' => (int) 2, 'han' => (int) 8, 'cav' => (int) 5, 'hma' => (int) 9, 'vpl' => (int) 4, 'sun' => (int) 2, 'lal' => (int) 9, 'lja' => (int) 5, 'lonja' => (int) 6, 'lsa' => (int) 3, 'mes' => (int) 8, 'mpo' => (int) 3, 'mbi' => (int) 4, 'mco' => (int) 3, 'mdo' => (int) 5, 'mtr' => (int) 7, 'cme' => (int) 6, 'egut' => (int) 7, 'ama' => (int) 3, 'nta' => (int) 12, 'nnu' => (int) 9, 'oeu' => (int) 4, 'osa' => (int) 7, 'pax' => (int) 9, 'pgr' => (int) 5, 'stu' => (int) 8, 'pvu' => (int) 6, 'ptr' => (int) 9, 'ppa' => (int) 9, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 7, 'pso' => (int) 10, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 3, 'sbr' => (int) 8, 'sbo' => (int) 5, 'sci' => (int) 5, 'sed' => (int) 4, 'sgi' => (int) 4, 'sas' => (int) 4, 'smo' => (int) 5, 'sly' => (int) 7, 'spe' => (int) 10, 'spa' => (int) 5, 'tar' => (int) 5, 'tha' => (int) 8, 'tca' => (int) 3, 'esa' => (int) 5, 'tpr' => (int) 6, 'twi' => (int) 6, 'ugi' => (int) 4, 'vma' => (int) 1, 'vmu' => (int) 7, 'zma' => (int) 10 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb421930' $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' => 'HOM05D001025', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '592', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p22650' => 'bna', 'A01p29720' => 'bna', 'A03p26560' => 'bna', 'A03p68820' => 'bna', 'A04p20980' => 'bna', 'A06p07730' => 'bna', 'A07p18260' => 'bna', 'A08p33710' => 'bna', 'A09p16970' => 'bna', 'A10p27490' => 'bna', 'Aa31LG1G17300' => 'aar', 'Aa31LG1G3910' => 'aar', 'Aa31LG2G9630' => 'aar', 'Aa31LG5G8360' => 'aar', 'Aa31LG9G2410' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4699' => 'aag', 'Actinidia23512' => 'ach', 'Actinidia37080' => 'ach', 'Ah.01g020380' => 'amhyb', 'Ah.08g215710' => 'amhyb', 'Ah.09g225110' => 'amhyb', 'Ah.10g036680' => 'amhyb', 'AL1G21940' => 'aly', 'AL2G15540' => 'aly', 'AL4G21520' => 'aly', 'AL7G40960' => 'aly', 'Aqoxy2G01191' => 'aox', 'Aqoxy2G03393' => 'aox', 'Aqoxy4G02775' => 'aox', 'Aqoxy6G00058' => 'aox', 'arahy.Tifrunner.gnm1.ann1.9X74H2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CW3FX9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R485W7' => 'arhy', 'AT1G10960' => 'ath', 'AT1G60950' => 'ath', 'AT2G27510' => 'ath', 'AT4G14890' => 'ath', 'AT5G10000' => 'ath', 'ATR0665G624' => 'atr', 'ATR0697G138' => 'atr', 'ATR0776G046' => 'atr', 'ATR1134G135' => 'atr', 'Atru.chr12.1025' => 'acertr', 'Atru.chr3.3241' => 'acertr', 'Atru.chr4.2460' => 'acertr', 'AUR62007427' => 'cqu', 'AUR62010960' => 'cqu', 'AUR62012201' => 'cqu', 'AUR62021470' => 'cqu', 'AUR62022834' => 'cqu', 'AUR62033635' => 'cqu', 'AUR62036186' => 'cqu', 'BcaB01g03077' => 'bca', 'BcaB02g10093' => 'bca', 'BcaB04g20295' => 'bca', 'BcaB06g28147' => 'bca', 'BcaB07g31253' => 'bca', 'BcaC01g04946' => 'bca', 'BcaC02g10614' => 'bca', 'BcaC02g10885' => 'bca', 'BcaC04g19356' => 'bca', 'BcaC04g22297' => 'bca', 'BcaC05g24977' => 'bca', 'BcaC06g31823' => 'bca', 'BcaC07g38633' => 'bca', 'BcaC09g49353' => 'bca', 'BcaC09g50168' => 'bca', 'BcaNung00322' => 'bca', 'BcaNung04769' => 'bca', 'BolC1t02753H' => 'bol', 'BolC1t03721H' => 'bol', 'BolC3t15525H' => 'bol', 'BolC4t23903H' => 'bol', 'BolC4t24231H' => 'bol', 'BolC4t27209H' => 'bol', 'BolC5t29671H' => 'bol', 'BolC8t49044H' => 'bol', 'BolC9t54999H' => 'bol', 'BolC9t59517H' => 'bol', 'BraA01t02178Z' => 'bra', 'BraA01t03099Z' => 'bra', 'BraA03t11867Z' => 'bra', 'BraA04t17667Z' => 'bra', 'BraA07t29542Z' => 'bra', 'BraA08t35287Z' => 'bra', 'BraA09t37334Z' => 'bra', 'BraA10t44801Z' => 'bra', 'BraSC39t46181Z' => 'bra', 'C01p28240' => 'bna', 'C01p37530' => 'bna', 'C03p31820' => 'bna', 'C04p24080' => 'bna', 'C04p25790' => 'bna', 'C04p56770' => 'bna', 'C05p09310' => 'bna', 'C09p21010' => 'bna', 'C09p67560' => 'bna', 'CAN.G1324.7' => 'can', 'CAN.G1358.10' => 'can', 'CAN.G1550.2' => 'can', 'CAN.G186.56' => 'can', 'CAN.G1965.1' => 'can', 'CAN.G645.15' => 'can', 'CAN.G798.26' => 'can', 'CAN.G798.27' => 'can', 'CAN.G798.29' => 'can', 'CAN.G919.31' => 'can', 'CANSAT11G0133' => 'cansat', 'CANSAT11G1171' => 'cansat', 'CANSAT11G2056' => 'cansat', 'CANSAT56G1202' => 'cansat', 'CANSAT56G1514' => 'cansat', 'CANSAT78G0455' => 'cansat', 'CARHR011190' => 'chi', 'CARHR051980' => 'chi', 'CARHR120170' => 'chi', 'CARHR203310' => 'chi', 'CARHR221490' => 'chi', 'Carub.0001s1054' => 'cru', 'Carub.0002s0431' => 'cru', 'Carub.0004s0818' => 'cru', 'Carub.0006s0846' => 'cru', 'Carub.0007s2722' => 'cru', 'Ca_00058_v3' => 'car', 'Ca_17831_v3' => 'car', 'Ca_19408_v3' => 'car', 'Ca_24397_v3' => 'car', 'Ca_25664_v3' => 'car', 'CBR_g21818' => 'cbr', 'CBR_g31195' => 'cbr', 'CBR_g32282' => 'cbr', 'CBR_g39599' => 'cbr', 'CBR_g49410' => 'cbr', 'Cc01_g09120' => 'ccan', 'Cc01_g09130' => 'ccan', 'Cc02_g09630' => 'ccan', 'Cc02_g22810' => 'ccan', 'Cc03_g03810' => 'ccan', 'CDE02G3718' => 'cde', 'CDE04G3183' => 'cde', 'CDE07G1046' => 'cde', 'CDE08G0480' => 'cde', 'Cfa005493' => 'cfa', 'Cfa010312' => 'cfa', 'Cfa015648' => 'cfa', 'Ciclev10002793m.g' => 'ccl', 'Ciclev10003356m.g' => 'ccl', 'Ciclev10006141m.g' => 'ccl', 'Ciclev10016676m.g' => 'ccl', 'Ciclev10017081m.g' => 'ccl', 'Ciclev10029499m.g' => 'ccl', 'CiPaw.01G166300' => 'cil', 'CiPaw.06G145600' => 'cil', 'CiPaw.13G040100' => 'cil', 'CiPaw.13G135800' => 'cil', 'ClCG01G012230' => 'cla', 'ClCG05G009510' => 'cla', 'ClCG08G008270' => 'cla', 'COL.COLO4_11763' => 'col', 'COL.COLO4_19876' => 'col', 'COL.COLO4_21481' => 'col', 'Cpa.g.sc118.34' => 'cpa', 'Cpa.g.sc32.13' => 'cpa', 'Cpa.g.sc58.103' => 'cpa', 'Cre03.g183850' => 'cre', 'Cre06.g306350' => 'cre', 'Cre07.g334800' => 'cre', 'Cre12.g487900' => 'cre', 'Cre14.g626700' => 'cre', 'Cre16.g658400' => 'cre', 'Cre17.g700950' => 'cre', 'CsaV3_1G014830' => 'csa', 'CsaV3_3G013320' => 'csa', 'CsaV3_3G019210' => 'csa', 'CsaV3_3G019220' => 'csa', 'CsaV3_6G004230' => 'csa', 'CSS0003773' => 'camsi', 'CSS0004563' => 'camsi', 'CSS0013949' => 'camsi', 'CSS0025971' => 'camsi', 'CSS0028570' => 'camsi', 'CSS0033127' => 'camsi', 'CSS0036051' => 'camsi', 'CSS0040087' => 'camsi', 'CSS0043179' => 'camsi', 'DCAR_006161' => 'dca', 'DCAR_010351' => 'dca', 'DCAR_012197' => 'dca', 'DCAR_024162' => 'dca', 'Dinv01030' => 'din', 'Dinv10924' => 'din', 'Dinv11835' => 'din', 'Dinv22841' => 'din', 'Dinv42553' => 'din', 'Duzib052G0560' => 'dzi', 'Duzib132G0389' => 'dzi', 'Duzib150G1181' => 'dzi', 'Duzib168G0623' => 'dzi', 'Duzib170G1036' => 'dzi', 'Duzib212G0200' => 'dzi', 'Duzib248G0194' => 'dzi', 'ECA232G2193' => 'eca', 'ECA233G0302' => 'eca', 'ECA234G2813' => 'eca', 'ECA234G4866' => 'eca', 'ECA240G3932' => 'eca', 'ECA248G0385' => 'eca', 'EL10Ac2g04781' => 'bvu', 'EL10Ac3g06445' => 'bvu', 'EL10Ac7g15825' => 'bvu', 'EL10Ac8g18550' => 'bvu', 'Eucgr.B03849' => 'egr', 'Eucgr.I02744' => 'egr', 'Eucgr.J00264' => 'egr', 'Eucgr.J00493' => 'egr', 'FAN04G2181' => 'fan', 'FAN07G2666' => 'fan', 'FAN11G0024' => 'fan', 'FAN12G1105' => 'fan', 'FAN13G0302' => 'fan', 'FAN15G2781' => 'fan', 'FAN16G1274' => 'fan', 'FAN17G2988' => 'fan', 'FAN18G2621' => 'fan', 'FAN21G0013' => 'fan', 'FAN22G1211' => 'fan', 'FAN25G3626' => 'fan', 'FvH4_2g09491' => 'fve', 'FvH4_3g24910' => 'fve', 'FvH4_4g15630' => 'fve', 'FvH4_5g28820' => 'fve', 'Glyma.01G238000' => 'gma', 'Glyma.05G168400' => 'gma', 'Glyma.08G126800' => 'gma', 'Glyma.08G188500' => 'gma', 'Glyma.10G278900' => 'gma', 'Glyma.11G005700' => 'gma', 'Glyma.11G183300' => 'gma', 'Glyma.12G089200' => 'gma', 'Glyma.12G169400' => 'gma', 'Glyma.12G169500' => 'gma', 'Glyma.12G169600' => 'gma', 'Glyma.20G110800' => 'gma', 'Gohir.A03G192900' => 'ghi', 'Gohir.A03G193000' => 'ghi', 'Gohir.A05G080700' => 'ghi', 'Gohir.A09G216000' => 'ghi', 'Gohir.A12G027700' => 'ghi', 'Gohir.A13G036200' => 'ghi', 'Gohir.A13G222600' => 'ghi', 'Gohir.D02G213900' => 'ghi', 'Gohir.D02G214000' => 'ghi', 'Gohir.D05G083700' => 'ghi', 'Gohir.D05G083800' => 'ghi', 'Gohir.D05G083850' => 'ghi', 'Gohir.D08G015400' => 'ghi', 'Gohir.D09G218400' => 'ghi', 'Gohir.D12G027100' => 'ghi', 'Gohir.D13G034500' => 'ghi', 'Gohir.D13G227400' => 'ghi', 'Gorai.005G241800' => 'gra', 'Gorai.005G241900' => 'gra', 'Gorai.006G239400' => 'gra', 'Gorai.008G027600' => 'gra', 'Gorai.009G085400' => 'gra', 'Gorai.009G085500' => 'gra', 'Gorai.013G039000' => 'gra', 'Gorai.013G194800' => 'gra', 'Gorai.013G257900' => 'gra', 'GSVIVG01000982001' => 'vvi', 'GSVIVG01017981001' => 'vvi', 'HanXRQChr01g0024061' => 'han', 'HanXRQChr09g0247831' => 'han', 'HanXRQChr10g0294611' => 'han', 'HanXRQChr10g0294621' => 'han', 'HanXRQChr11g0346821' => 'han', 'HanXRQChr13g0397461' => 'han', 'HanXRQChr16g0513651' => 'han', 'HanXRQChr16g0513701' => 'han', 'Haze_00897' => 'cav', 'Haze_01745' => 'cav', 'Haze_02486' => 'cav', 'Haze_02487' => 'cav', 'Haze_23374' => 'cav', 'Hma1.2p1_0578F.1_g182520' => 'hma', 'Hma1.2p1_0602F.1_g187350' => 'hma', 'Hma1.2p1_0602F.1_g187360' => 'hma', 'Hma1.2p1_0874F.1_g231320' => 'hma', 'Hma1.2p1_1197F.1_g266210' => 'hma', 'Hma1.2p1_1197F.1_g266220' => 'hma', 'Hma1.2p1_2167F.1_g315895' => 'hma', 'Hma1.2p1_2190F.1_g316640' => 'hma', 'Hma1.2p1_3645F.1_g337153' => 'hma', 'HPP92_004907' => 'vpl', 'HPP92_012134' => 'vpl', 'HPP92_025136' => 'vpl', 'HPP92_026087' => 'vpl', 'Hund06782' => 'sun', 'Hund06784' => 'sun', 'Lalb_Chr01g0004861' => 'lal', 'Lalb_Chr02g0140591' => 'lal', 'Lalb_Chr02g0140611' => 'lal', 'Lalb_Chr03g0028101' => 'lal', 'Lalb_Chr07g0185791' => 'lal', 'Lalb_Chr12g0204491' => 'lal', 'Lalb_Chr13g0295671' => 'lal', 'Lalb_Chr19g0136461' => 'lal', 'Lalb_Chr21g0309191' => 'lal', 'Lj1g0028158' => 'lja', 'Lj1P236T38' => 'lonja', 'Lj2C32G2' => 'lonja', 'Lj2P944T8' => 'lonja', 'Lj2P963T15' => 'lonja', 'Lj3g0011788' => 'lja', 'Lj4g0025027' => 'lja', 'Lj5P255T36' => 'lonja', 'Lj6g0018866' => 'lja', 'Lj6P608T31' => 'lonja', 'LjContig00408g0008879' => 'lja', 'Lsat_1_v5_gn_5_105820' => 'lsa', 'Lsat_1_v5_gn_6_38800' => 'lsa', 'Lsat_1_v5_gn_7_67141' => 'lsa', 'Manes.04G003400' => 'mes', 'Manes.07G020000' => 'mes', 'Manes.07G020100' => 'mes', 'Manes.07G020150' => 'mes', 'Manes.10G061500' => 'mes', 'Manes.10G123200' => 'mes', 'Manes.11G161900' => 'mes', 'Manes.15G029300' => 'mes', 'Mapoly0071s0018' => 'mpo', 'Mapoly0082s0023' => 'mpo', 'Mapoly3477s0001' => 'mpo', 'MBI05_g31233_MAGBIO' => 'mbi', 'MBI09_g05946_MAGBIO' => 'mbi', 'MBI09_g05947_MAGBIO' => 'mbi', 'MBI17_g08346_MAGBIO' => 'mbi', 'MCO04G038' => 'mco', 'MCO09G370' => 'mco', 'MCO13G605' => 'mco', 'MD00G1075500' => 'mdo', 'MD03G1144300' => 'mdo', 'MD08G1236800' => 'mdo', 'MD13G1193300' => 'mdo', 'MD15G1428700' => 'mdo', 'Medtr1g112030' => 'mtr', 'Medtr1g112050' => 'mtr', 'Medtr2g006290' => 'mtr', 'Medtr2g086510' => 'mtr', 'Medtr4g053120' => 'mtr', 'Medtr5g006320' => 'mtr', 'Medtr8g088720' => 'mtr', 'MELO3C004712.2' => 'cme', 'MELO3C006533.2' => 'cme', 'MELO3C019438.2' => 'cme', 'MELO3C019440.2' => 'cme', 'MELO3C019441.2' => 'cme', 'MELO3C019895.2' => 'cme', 'Migut.B00811' => 'egut', 'Migut.D02447' => 'egut', 'Migut.F00875' => 'egut', 'Migut.N00186' => 'egut', 'Migut.N01051' => 'egut', 'Migut.N02491' => 'egut', 'Migut.O00784' => 'egut', 'MSTRG.12367' => 'ama', 'MSTRG.18756' => 'ama', 'MSTRG.21042' => 'ama', 'Nitab4.5_0000559g0040' => 'nta', 'Nitab4.5_0000667g0190' => 'nta', 'Nitab4.5_0000755g0160' => 'nta', 'Nitab4.5_0001216g0080' => 'nta', 'Nitab4.5_0004069g0040' => 'nta', 'Nitab4.5_0004129g0010' => 'nta', 'Nitab4.5_0005744g0030' => 'nta', 'Nitab4.5_0006996g0030' => 'nta', 'Nitab4.5_0008971g0040' => 'nta', 'Nitab4.5_0009769g0020' => 'nta', 'Nitab4.5_0009833g0010' => 'nta', 'Nitab4.5_0013140g0020' => 'nta', 'Nn003s41376' => 'nnu', 'Nn1g01857' => 'nnu', 'Nn1g03611' => 'nnu', 'Nn1g06853' => 'nnu', 'Nn3g18360' => 'nnu', 'Nn4g26328' => 'nnu', 'Nn5g27531' => 'nnu', 'Nn6g34899' => 'nnu', 'Nn7g36299' => 'nnu', 'Oeu021485.1' => 'oeu', 'Oeu022433.1' => 'oeu', 'Oeu032111.1' => 'oeu', 'Oeu051608.1' => 'oeu', 'Os01g0860601' => 'osa', 'Os03g0659200' => 'osa', 'Os03g0835900' => 'osa', 'Os04g0412200' => 'osa', 'Os05g0443500' => 'osa', 'Os07g0251500' => 'osa', 'Os08g0104600' => 'osa', 'Peaxi162Scf00003g00047' => 'pax', 'Peaxi162Scf00003g00052' => 'pax', 'Peaxi162Scf00003g00394' => 'pax', 'Peaxi162Scf00091g00621' => 'pax', 'Peaxi162Scf00152g00146' => 'pax', 'Peaxi162Scf00173g00025' => 'pax', 'Peaxi162Scf00195g00102' => 'pax', 'Peaxi162Scf00402g00013' => 'pax', 'Peaxi162Scf00519g00618' => 'pax', 'PGR004G2838' => 'pgr', 'PGR044G2275' => 'pgr', 'PGR102G1377' => 'pgr', 'PGR119G1245' => 'pgr', 'PGR142G4449' => 'pgr', 'PGSC0003DMG400004532' => 'stu', 'PGSC0003DMG400011950' => 'stu', 'PGSC0003DMG400023391' => 'stu', 'PGSC0003DMG400023985' => 'stu', 'PGSC0003DMG400026360' => 'stu', 'PGSC0003DMG400035711' => 'stu', 'PGSC0003DMG400037286' => 'stu', 'PGSC0003DMG402005881' => 'stu', 'Phvul.002G045400' => 'pvu', 'Phvul.006G216600' => 'pvu', 'Phvul.006G216700' => 'pvu', 'Phvul.006G216800' => 'pvu', 'Phvul.007G022500' => 'pvu', 'Phvul.011G094400' => 'pvu', 'Potri.001G470700' => 'ptr', 'Potri.003G015200' => 'ptr', 'Potri.004G202500' => 'ptr', 'Potri.004G218400' => 'ptr', 'Potri.008G020100' => 'ptr', 'Potri.008G153200' => 'ptr', 'Potri.009G163800' => 'ptr', 'Potri.010G087300' => 'ptr', 'Potri.010G239100' => 'ptr', 'Pp3c10_16100' => 'ppa', 'Pp3c10_16880' => 'ppa', 'Pp3c16_6230' => 'ppa', 'Pp3c17_18910' => 'ppa', 'Pp3c3_22119' => 'ppa', 'Pp3c3_22140' => 'ppa', 'Pp3c4_8159' => 'ppa', 'Pp3c4_8171' => 'ppa', 'Pp3c4_8330' => 'ppa', 'PRCOL_00004098' => 'pco', 'Prupe.1G013900' => 'ppe', 'Prupe.1G226300' => 'ppe', 'Prupe.1G573600' => 'ppe', 'Prupe.6G130100' => 'ppe', 'Psat3g090040' => 'psa', 'Psat4g210440' => 'psa', 'Psat6g231040' => 'psa', 'Psat6g231080' => 'psa', 'Psat7g063000' => 'psa', 'Psat7g188000' => 'psa', 'Psat7g188040' => 'psa', 'PSO017G0206' => 'pso', 'PSO170G0501' => 'pso', 'PSO170G6422' => 'pso', 'PSO210G7739' => 'pso', 'PSO339G1808' => 'pso', 'PSO339G6135' => 'pso', 'PSO384G0010' => 'pso', 'PSO384G0964' => 'pso', 'PSO761G0050' => 'pso', 'PSO782G4085' => 'pso', 'QL01p012264' => 'qlo', 'QL02p099491' => 'qlo', 'QL03p033868' => 'qlo', 'QL04p046678' => 'qlo', 'QL06p002448' => 'qlo', 'RcHm_v2.0_Chr4g0416181' => 'rch', 'RcHm_v2.0_Chr5g0044701' => 'rch', 'RcHm_v2.0_Chr6g0265781' => 'rch', 'RcHm_v2.0_Chr7g0221031' => 'rch', 'Rhsim04G0202000' => 'rsi', 'Rhsim11G0127300' => 'rsi', 'Rhsim13G0111800' => 'rsi', 'Sabra01G0165600' => 'sbr', 'Sabra03G0008300' => 'sbr', 'Sabra04G0136900' => 'sbr', 'Sabra08G0013400' => 'sbr', 'Sabra08G0116800' => 'sbr', 'Sabra09G0128000' => 'sbr', 'Sabra10G0055500' => 'sbr', 'Sabra10G0073300' => 'sbr', 'SalBow3G0385' => 'sbo', 'SalBow3G1119' => 'sbo', 'SalBow3G2005' => 'sbo', 'SalBow6G2563' => 'sbo', 'SalBow6G6386' => 'sbo', 'Sc06g0008800' => 'sci', 'Sc07g0004950' => 'sci', 'Sc09g0005340' => 'sci', 'Sc13g0004410' => 'sci', 'Sc21g0007090' => 'sci', 'Sed0009285' => 'sed', 'Sed0017583' => 'sed', 'Sed0019699' => 'sed', 'Sed0023107' => 'sed', 'SEGI_10916' => 'sgi', 'SEGI_16217' => 'sgi', 'SEGI_19466' => 'sgi', 'SEGI_41115' => 'sgi', 'SGA_v2.0_scaffold111G31534' => 'sas', 'SGA_v2.0_scaffold22G09864' => 'sas', 'SGA_v2.0_scaffold338G49219' => 'sas', 'SGA_v2.0_scaffold92G28298' => 'sas', 'SMO119G0064' => 'smo', 'SMO223G0038' => 'smo', 'SMO347G0584' => 'smo', 'SMO351G0010' => 'smo', 'SMO356G0404' => 'smo', 'Solyc01g103920.3' => 'sly', 'Solyc04g009710.2' => 'sly', 'Solyc05g055280.2' => 'sly', 'Solyc10g044520.3' => 'sly', 'Solyc10g075160.1' => 'sly', 'Solyc11g006910.3' => 'sly', 'Solyc11g068430.3' => 'sly', 'Sopen01g046310' => 'spe', 'Sopen03g001200' => 'spe', 'Sopen04g004830' => 'spe', 'Sopen05g033720' => 'spe', 'Sopen06g030740' => 'spe', 'Sopen10g013090' => 'spe', 'Sopen10g027630' => 'spe', 'Sopen10g027640' => 'spe', 'Sopen11g002820' => 'spe', 'Sopen11g027140' => 'spe', 'Sp1g09680' => 'spa', 'Sp2g03630' => 'spa', 'Sp4g10320' => 'spa', 'Sp6g33400' => 'spa', 'Sp7g13030' => 'spa', 'TAR365G0317' => 'tar', 'TAR376G0979' => 'tar', 'TAR623G1665' => 'tar', 'TAR633G2373' => 'tar', 'TAR636G1400' => 'tar', 'THA.LOC104800529' => 'tha', 'THA.LOC104808547' => 'tha', 'THA.LOC104809615' => 'tha', 'THA.LOC104815724' => 'tha', 'THA.LOC104818480' => 'tha', 'THA.LOC104819179' => 'tha', 'THA.LOC104822270' => 'tha', 'THA.LOC104826425' => 'tha', 'Thecc.02G089700' => 'tca', 'Thecc.04G232300' => 'tca', 'Thecc.09G283400' => 'tca', 'Thhalv10009020m.g' => 'esa', 'Thhalv10015506m.g' => 'esa', 'Thhalv10017364m.g' => 'esa', 'Thhalv10023742m.g' => 'esa', 'Thhalv10026483m.g' => 'esa', 'TPR.G17232' => 'tpr', 'TPR.G2133' => 'tpr', 'TPR.G2498' => 'tpr', 'TPR.G31942' => 'tpr', 'TPR.G37877' => 'tpr', 'TPR.G4571' => 'tpr', 'TWI14G1113' => 'twi', 'TWI15G0426' => 'twi', 'TWI31G1005' => 'twi', 'TWI38G0513' => 'twi', 'TWI38G1484' => 'twi', 'TWI73G1098' => 'twi', 'unitig_26.g10519' => 'ugi', 'unitig_736.g22395' => 'ugi', 'unitig_747.g21234' => 'ugi', 'unitig_747.g21942' => 'ugi', 'vmacro14351' => 'vma', 'VMungo0540G0082' => 'vmu', 'VMungo0540G0405' => 'vmu', 'VMungo0540G1486' => 'vmu', 'VMungo0540G1692' => 'vmu', 'VMungo0720G2473' => 'vmu', 'VMungo1127G1562' => 'vmu', 'VMungo1215G1918' => 'vmu', 'Zm00001eb052650' => 'zma', 'Zm00001eb063710' => 'zma', 'Zm00001eb083950' => 'zma', 'Zm00001eb174420' => 'zma', 'Zm00001eb260140' => 'zma', 'Zm00001eb260150' => 'zma', 'Zm00001eb260160' => 'zma', 'Zm00001eb348290' => 'zma', 'Zm00001eb366870' => 'zma', 'Zm00001eb421930' => 'zma' ), 'gf_id' => 'HOM05D001025', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001025' ), 'data_identifier' => 'HOM05D001025', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001025', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '592', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p22650' => 'bna', 'A01p29720' => 'bna', 'A03p26560' => 'bna', 'A03p68820' => 'bna', 'A04p20980' => 'bna', 'A06p07730' => 'bna', 'A07p18260' => 'bna', 'A08p33710' => 'bna', 'A09p16970' => 'bna', 'A10p27490' => 'bna', 'Aa31LG1G17300' => 'aar', 'Aa31LG1G3910' => 'aar', 'Aa31LG2G9630' => 'aar', 'Aa31LG5G8360' => 'aar', 'Aa31LG9G2410' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4699' => 'aag', 'Actinidia23512' => 'ach', 'Actinidia37080' => 'ach', 'Ah.01g020380' => 'amhyb', 'Ah.08g215710' => 'amhyb', 'Ah.09g225110' => 'amhyb', 'Ah.10g036680' => 'amhyb', 'AL1G21940' => 'aly', 'AL2G15540' => 'aly', 'AL4G21520' => 'aly', 'AL7G40960' => 'aly', 'Aqoxy2G01191' => 'aox', 'Aqoxy2G03393' => 'aox', 'Aqoxy4G02775' => 'aox', 'Aqoxy6G00058' => 'aox', 'arahy.Tifrunner.gnm1.ann1.9X74H2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CW3FX9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R485W7' => 'arhy', 'AT1G10960' => 'ath', 'AT1G60950' => 'ath', 'AT2G27510' => 'ath', 'AT4G14890' => 'ath', 'AT5G10000' => 'ath', 'ATR0665G624' => 'atr', 'ATR0697G138' => 'atr', 'ATR0776G046' => 'atr', 'ATR1134G135' => 'atr', 'Atru.chr12.1025' => 'acertr', 'Atru.chr3.3241' => 'acertr', 'Atru.chr4.2460' => 'acertr', 'AUR62007427' => 'cqu', 'AUR62010960' => 'cqu', 'AUR62012201' => 'cqu', 'AUR62021470' => 'cqu', 'AUR62022834' => 'cqu', 'AUR62033635' => 'cqu', 'AUR62036186' => 'cqu', 'BcaB01g03077' => 'bca', 'BcaB02g10093' => 'bca', 'BcaB04g20295' => 'bca', 'BcaB06g28147' => 'bca', 'BcaB07g31253' => 'bca', 'BcaC01g04946' => 'bca', 'BcaC02g10614' => 'bca', 'BcaC02g10885' => 'bca', 'BcaC04g19356' => 'bca', 'BcaC04g22297' => 'bca', 'BcaC05g24977' => 'bca', 'BcaC06g31823' => 'bca', 'BcaC07g38633' => 'bca', 'BcaC09g49353' => 'bca', 'BcaC09g50168' => 'bca', 'BcaNung00322' => 'bca', 'BcaNung04769' => 'bca', 'BolC1t02753H' => 'bol', 'BolC1t03721H' => 'bol', 'BolC3t15525H' => 'bol', 'BolC4t23903H' => 'bol', 'BolC4t24231H' => 'bol', 'BolC4t27209H' => 'bol', 'BolC5t29671H' => 'bol', 'BolC8t49044H' => 'bol', 'BolC9t54999H' => 'bol', 'BolC9t59517H' => 'bol', 'BraA01t02178Z' => 'bra', 'BraA01t03099Z' => 'bra', 'BraA03t11867Z' => 'bra', 'BraA04t17667Z' => 'bra', 'BraA07t29542Z' => 'bra', 'BraA08t35287Z' => 'bra', 'BraA09t37334Z' => 'bra', 'BraA10t44801Z' => 'bra', 'BraSC39t46181Z' => 'bra', 'C01p28240' => 'bna', 'C01p37530' => 'bna', 'C03p31820' => 'bna', 'C04p24080' => 'bna', 'C04p25790' => 'bna', 'C04p56770' => 'bna', 'C05p09310' => 'bna', 'C09p21010' => 'bna', 'C09p67560' => 'bna', 'CAN.G1324.7' => 'can', 'CAN.G1358.10' => 'can', 'CAN.G1550.2' => 'can', 'CAN.G186.56' => 'can', 'CAN.G1965.1' => 'can', 'CAN.G645.15' => 'can', 'CAN.G798.26' => 'can', 'CAN.G798.27' => 'can', 'CAN.G798.29' => 'can', 'CAN.G919.31' => 'can', 'CANSAT11G0133' => 'cansat', 'CANSAT11G1171' => 'cansat', 'CANSAT11G2056' => 'cansat', 'CANSAT56G1202' => 'cansat', 'CANSAT56G1514' => 'cansat', 'CANSAT78G0455' => 'cansat', 'CARHR011190' => 'chi', 'CARHR051980' => 'chi', 'CARHR120170' => 'chi', 'CARHR203310' => 'chi', 'CARHR221490' => 'chi', 'Carub.0001s1054' => 'cru', 'Carub.0002s0431' => 'cru', 'Carub.0004s0818' => 'cru', 'Carub.0006s0846' => 'cru', 'Carub.0007s2722' => 'cru', 'Ca_00058_v3' => 'car', 'Ca_17831_v3' => 'car', 'Ca_19408_v3' => 'car', 'Ca_24397_v3' => 'car', 'Ca_25664_v3' => 'car', 'CBR_g21818' => 'cbr', 'CBR_g31195' => 'cbr', 'CBR_g32282' => 'cbr', 'CBR_g39599' => 'cbr', 'CBR_g49410' => 'cbr', 'Cc01_g09120' => 'ccan', 'Cc01_g09130' => 'ccan', 'Cc02_g09630' => 'ccan', 'Cc02_g22810' => 'ccan', 'Cc03_g03810' => 'ccan', 'CDE02G3718' => 'cde', 'CDE04G3183' => 'cde', 'CDE07G1046' => 'cde', 'CDE08G0480' => 'cde', 'Cfa005493' => 'cfa', 'Cfa010312' => 'cfa', 'Cfa015648' => 'cfa', 'Ciclev10002793m.g' => 'ccl', 'Ciclev10003356m.g' => 'ccl', 'Ciclev10006141m.g' => 'ccl', 'Ciclev10016676m.g' => 'ccl', 'Ciclev10017081m.g' => 'ccl', 'Ciclev10029499m.g' => 'ccl', 'CiPaw.01G166300' => 'cil', 'CiPaw.06G145600' => 'cil', 'CiPaw.13G040100' => 'cil', 'CiPaw.13G135800' => 'cil', 'ClCG01G012230' => 'cla', 'ClCG05G009510' => 'cla', 'ClCG08G008270' => 'cla', 'COL.COLO4_11763' => 'col', 'COL.COLO4_19876' => 'col', 'COL.COLO4_21481' => 'col', 'Cpa.g.sc118.34' => 'cpa', 'Cpa.g.sc32.13' => 'cpa', 'Cpa.g.sc58.103' => 'cpa', 'Cre03.g183850' => 'cre', 'Cre06.g306350' => 'cre', 'Cre07.g334800' => 'cre', 'Cre12.g487900' => 'cre', 'Cre14.g626700' => 'cre', 'Cre16.g658400' => 'cre', 'Cre17.g700950' => 'cre', 'CsaV3_1G014830' => 'csa', 'CsaV3_3G013320' => 'csa', 'CsaV3_3G019210' => 'csa', 'CsaV3_3G019220' => 'csa', 'CsaV3_6G004230' => 'csa', 'CSS0003773' => 'camsi', 'CSS0004563' => 'camsi', 'CSS0013949' => 'camsi', 'CSS0025971' => 'camsi', 'CSS0028570' => 'camsi', 'CSS0033127' => 'camsi', 'CSS0036051' => 'camsi', 'CSS0040087' => 'camsi', 'CSS0043179' => 'camsi', 'DCAR_006161' => 'dca', 'DCAR_010351' => 'dca', 'DCAR_012197' => 'dca', 'DCAR_024162' => 'dca', 'Dinv01030' => 'din', 'Dinv10924' => 'din', 'Dinv11835' => 'din', 'Dinv22841' => 'din', 'Dinv42553' => 'din', 'Duzib052G0560' => 'dzi', 'Duzib132G0389' => 'dzi', 'Duzib150G1181' => 'dzi', 'Duzib168G0623' => 'dzi', 'Duzib170G1036' => 'dzi', 'Duzib212G0200' => 'dzi', 'Duzib248G0194' => 'dzi', 'ECA232G2193' => 'eca', 'ECA233G0302' => 'eca', 'ECA234G2813' => 'eca', 'ECA234G4866' => 'eca', 'ECA240G3932' => 'eca', 'ECA248G0385' => 'eca', 'EL10Ac2g04781' => 'bvu', 'EL10Ac3g06445' => 'bvu', 'EL10Ac7g15825' => 'bvu', 'EL10Ac8g18550' => 'bvu', 'Eucgr.B03849' => 'egr', 'Eucgr.I02744' => 'egr', 'Eucgr.J00264' => 'egr', 'Eucgr.J00493' => 'egr', 'FAN04G2181' => 'fan', 'FAN07G2666' => 'fan', 'FAN11G0024' => 'fan', 'FAN12G1105' => 'fan', 'FAN13G0302' => 'fan', 'FAN15G2781' => 'fan', 'FAN16G1274' => 'fan', 'FAN17G2988' => 'fan', 'FAN18G2621' => 'fan', 'FAN21G0013' => 'fan', 'FAN22G1211' => 'fan', 'FAN25G3626' => 'fan', 'FvH4_2g09491' => 'fve', 'FvH4_3g24910' => 'fve', 'FvH4_4g15630' => 'fve', 'FvH4_5g28820' => 'fve', 'Glyma.01G238000' => 'gma', 'Glyma.05G168400' => 'gma', 'Glyma.08G126800' => 'gma', 'Glyma.08G188500' => 'gma', 'Glyma.10G278900' => 'gma', 'Glyma.11G005700' => 'gma', 'Glyma.11G183300' => 'gma', 'Glyma.12G089200' => 'gma', 'Glyma.12G169400' => 'gma', 'Glyma.12G169500' => 'gma', 'Glyma.12G169600' => 'gma', 'Glyma.20G110800' => 'gma', 'Gohir.A03G192900' => 'ghi', 'Gohir.A03G193000' => 'ghi', 'Gohir.A05G080700' => 'ghi', 'Gohir.A09G216000' => 'ghi', 'Gohir.A12G027700' => 'ghi', 'Gohir.A13G036200' => 'ghi', 'Gohir.A13G222600' => 'ghi', 'Gohir.D02G213900' => 'ghi', 'Gohir.D02G214000' => 'ghi', 'Gohir.D05G083700' => 'ghi', 'Gohir.D05G083800' => 'ghi', 'Gohir.D05G083850' => 'ghi', 'Gohir.D08G015400' => 'ghi', 'Gohir.D09G218400' => 'ghi', 'Gohir.D12G027100' => 'ghi', 'Gohir.D13G034500' => 'ghi', 'Gohir.D13G227400' => 'ghi', 'Gorai.005G241800' => 'gra', 'Gorai.005G241900' => 'gra', 'Gorai.006G239400' => 'gra', 'Gorai.008G027600' => 'gra', 'Gorai.009G085400' => 'gra', 'Gorai.009G085500' => 'gra', 'Gorai.013G039000' => 'gra', 'Gorai.013G194800' => 'gra', 'Gorai.013G257900' => 'gra', 'GSVIVG01000982001' => 'vvi', 'GSVIVG01017981001' => 'vvi', 'HanXRQChr01g0024061' => 'han', 'HanXRQChr09g0247831' => 'han', 'HanXRQChr10g0294611' => 'han', 'HanXRQChr10g0294621' => 'han', 'HanXRQChr11g0346821' => 'han', 'HanXRQChr13g0397461' => 'han', 'HanXRQChr16g0513651' => 'han', 'HanXRQChr16g0513701' => 'han', 'Haze_00897' => 'cav', 'Haze_01745' => 'cav', 'Haze_02486' => 'cav', 'Haze_02487' => 'cav', 'Haze_23374' => 'cav', 'Hma1.2p1_0578F.1_g182520' => 'hma', 'Hma1.2p1_0602F.1_g187350' => 'hma', 'Hma1.2p1_0602F.1_g187360' => 'hma', 'Hma1.2p1_0874F.1_g231320' => 'hma', 'Hma1.2p1_1197F.1_g266210' => 'hma', 'Hma1.2p1_1197F.1_g266220' => 'hma', 'Hma1.2p1_2167F.1_g315895' => 'hma', 'Hma1.2p1_2190F.1_g316640' => 'hma', 'Hma1.2p1_3645F.1_g337153' => 'hma', 'HPP92_004907' => 'vpl', 'HPP92_012134' => 'vpl', 'HPP92_025136' => 'vpl', 'HPP92_026087' => 'vpl', 'Hund06782' => 'sun', 'Hund06784' => 'sun', 'Lalb_Chr01g0004861' => 'lal', 'Lalb_Chr02g0140591' => 'lal', 'Lalb_Chr02g0140611' => 'lal', 'Lalb_Chr03g0028101' => 'lal', 'Lalb_Chr07g0185791' => 'lal', 'Lalb_Chr12g0204491' => 'lal', 'Lalb_Chr13g0295671' => 'lal', 'Lalb_Chr19g0136461' => 'lal', 'Lalb_Chr21g0309191' => 'lal', 'Lj1g0028158' => 'lja', 'Lj1P236T38' => 'lonja', 'Lj2C32G2' => 'lonja', 'Lj2P944T8' => 'lonja', 'Lj2P963T15' => 'lonja', 'Lj3g0011788' => 'lja', 'Lj4g0025027' => 'lja', 'Lj5P255T36' => 'lonja', 'Lj6g0018866' => 'lja', 'Lj6P608T31' => 'lonja', 'LjContig00408g0008879' => 'lja', 'Lsat_1_v5_gn_5_105820' => 'lsa', 'Lsat_1_v5_gn_6_38800' => 'lsa', 'Lsat_1_v5_gn_7_67141' => 'lsa', 'Manes.04G003400' => 'mes', 'Manes.07G020000' => 'mes', 'Manes.07G020100' => 'mes', 'Manes.07G020150' => 'mes', 'Manes.10G061500' => 'mes', 'Manes.10G123200' => 'mes', 'Manes.11G161900' => 'mes', 'Manes.15G029300' => 'mes', 'Mapoly0071s0018' => 'mpo', 'Mapoly0082s0023' => 'mpo', 'Mapoly3477s0001' => 'mpo', 'MBI05_g31233_MAGBIO' => 'mbi', 'MBI09_g05946_MAGBIO' => 'mbi', 'MBI09_g05947_MAGBIO' => 'mbi', 'MBI17_g08346_MAGBIO' => 'mbi', 'MCO04G038' => 'mco', 'MCO09G370' => 'mco', 'MCO13G605' => 'mco', 'MD00G1075500' => 'mdo', 'MD03G1144300' => 'mdo', 'MD08G1236800' => 'mdo', 'MD13G1193300' => 'mdo', 'MD15G1428700' => 'mdo', 'Medtr1g112030' => 'mtr', 'Medtr1g112050' => 'mtr', 'Medtr2g006290' => 'mtr', 'Medtr2g086510' => 'mtr', 'Medtr4g053120' => 'mtr', 'Medtr5g006320' => 'mtr', 'Medtr8g088720' => 'mtr', 'MELO3C004712.2' => 'cme', 'MELO3C006533.2' => 'cme', 'MELO3C019438.2' => 'cme', 'MELO3C019440.2' => 'cme', 'MELO3C019441.2' => 'cme', 'MELO3C019895.2' => 'cme', 'Migut.B00811' => 'egut', 'Migut.D02447' => 'egut', 'Migut.F00875' => 'egut', 'Migut.N00186' => 'egut', 'Migut.N01051' => 'egut', 'Migut.N02491' => 'egut', 'Migut.O00784' => 'egut', 'MSTRG.12367' => 'ama', 'MSTRG.18756' => 'ama', 'MSTRG.21042' => 'ama', 'Nitab4.5_0000559g0040' => 'nta', 'Nitab4.5_0000667g0190' => 'nta', 'Nitab4.5_0000755g0160' => 'nta', 'Nitab4.5_0001216g0080' => 'nta', 'Nitab4.5_0004069g0040' => 'nta', 'Nitab4.5_0004129g0010' => 'nta', 'Nitab4.5_0005744g0030' => 'nta', 'Nitab4.5_0006996g0030' => 'nta', 'Nitab4.5_0008971g0040' => 'nta', 'Nitab4.5_0009769g0020' => 'nta', 'Nitab4.5_0009833g0010' => 'nta', 'Nitab4.5_0013140g0020' => 'nta', 'Nn003s41376' => 'nnu', 'Nn1g01857' => 'nnu', 'Nn1g03611' => 'nnu', 'Nn1g06853' => 'nnu', 'Nn3g18360' => 'nnu', 'Nn4g26328' => 'nnu', 'Nn5g27531' => 'nnu', 'Nn6g34899' => 'nnu', 'Nn7g36299' => 'nnu', 'Oeu021485.1' => 'oeu', 'Oeu022433.1' => 'oeu', 'Oeu032111.1' => 'oeu', 'Oeu051608.1' => 'oeu', 'Os01g0860601' => 'osa', 'Os03g0659200' => 'osa', 'Os03g0835900' => 'osa', 'Os04g0412200' => 'osa', 'Os05g0443500' => 'osa', 'Os07g0251500' => 'osa', 'Os08g0104600' => 'osa', 'Peaxi162Scf00003g00047' => 'pax', 'Peaxi162Scf00003g00052' => 'pax', 'Peaxi162Scf00003g00394' => 'pax', 'Peaxi162Scf00091g00621' => 'pax', 'Peaxi162Scf00152g00146' => 'pax', 'Peaxi162Scf00173g00025' => 'pax', 'Peaxi162Scf00195g00102' => 'pax', 'Peaxi162Scf00402g00013' => 'pax', 'Peaxi162Scf00519g00618' => 'pax', 'PGR004G2838' => 'pgr', 'PGR044G2275' => 'pgr', 'PGR102G1377' => 'pgr', 'PGR119G1245' => 'pgr', 'PGR142G4449' => 'pgr', 'PGSC0003DMG400004532' => 'stu', 'PGSC0003DMG400011950' => 'stu', 'PGSC0003DMG400023391' => 'stu', 'PGSC0003DMG400023985' => 'stu', 'PGSC0003DMG400026360' => 'stu', 'PGSC0003DMG400035711' => 'stu', 'PGSC0003DMG400037286' => 'stu', 'PGSC0003DMG402005881' => 'stu', 'Phvul.002G045400' => 'pvu', 'Phvul.006G216600' => 'pvu', 'Phvul.006G216700' => 'pvu', 'Phvul.006G216800' => 'pvu', 'Phvul.007G022500' => 'pvu', 'Phvul.011G094400' => 'pvu', 'Potri.001G470700' => 'ptr', 'Potri.003G015200' => 'ptr', 'Potri.004G202500' => 'ptr', 'Potri.004G218400' => 'ptr', 'Potri.008G020100' => 'ptr', 'Potri.008G153200' => 'ptr', 'Potri.009G163800' => 'ptr', 'Potri.010G087300' => 'ptr', 'Potri.010G239100' => 'ptr', 'Pp3c10_16100' => 'ppa', 'Pp3c10_16880' => 'ppa', 'Pp3c16_6230' => 'ppa', 'Pp3c17_18910' => 'ppa', 'Pp3c3_22119' => 'ppa', 'Pp3c3_22140' => 'ppa', 'Pp3c4_8159' => 'ppa', 'Pp3c4_8171' => 'ppa', 'Pp3c4_8330' => 'ppa', 'PRCOL_00004098' => 'pco', 'Prupe.1G013900' => 'ppe', 'Prupe.1G226300' => 'ppe', 'Prupe.1G573600' => 'ppe', 'Prupe.6G130100' => 'ppe', 'Psat3g090040' => 'psa', 'Psat4g210440' => 'psa', 'Psat6g231040' => 'psa', 'Psat6g231080' => 'psa', 'Psat7g063000' => 'psa', 'Psat7g188000' => 'psa', 'Psat7g188040' => 'psa', 'PSO017G0206' => 'pso', 'PSO170G0501' => 'pso', 'PSO170G6422' => 'pso', 'PSO210G7739' => 'pso', 'PSO339G1808' => 'pso', 'PSO339G6135' => 'pso', 'PSO384G0010' => 'pso', 'PSO384G0964' => 'pso', 'PSO761G0050' => 'pso', 'PSO782G4085' => 'pso', 'QL01p012264' => 'qlo', 'QL02p099491' => 'qlo', 'QL03p033868' => 'qlo', 'QL04p046678' => 'qlo', 'QL06p002448' => 'qlo', 'RcHm_v2.0_Chr4g0416181' => 'rch', 'RcHm_v2.0_Chr5g0044701' => 'rch', 'RcHm_v2.0_Chr6g0265781' => 'rch', 'RcHm_v2.0_Chr7g0221031' => 'rch', 'Rhsim04G0202000' => 'rsi', 'Rhsim11G0127300' => 'rsi', 'Rhsim13G0111800' => 'rsi', 'Sabra01G0165600' => 'sbr', 'Sabra03G0008300' => 'sbr', 'Sabra04G0136900' => 'sbr', 'Sabra08G0013400' => 'sbr', 'Sabra08G0116800' => 'sbr', 'Sabra09G0128000' => 'sbr', 'Sabra10G0055500' => 'sbr', 'Sabra10G0073300' => 'sbr', 'SalBow3G0385' => 'sbo', 'SalBow3G1119' => 'sbo', 'SalBow3G2005' => 'sbo', 'SalBow6G2563' => 'sbo', 'SalBow6G6386' => 'sbo', 'Sc06g0008800' => 'sci', 'Sc07g0004950' => 'sci', 'Sc09g0005340' => 'sci', 'Sc13g0004410' => 'sci', 'Sc21g0007090' => 'sci', 'Sed0009285' => 'sed', 'Sed0017583' => 'sed', 'Sed0019699' => 'sed', 'Sed0023107' => 'sed', 'SEGI_10916' => 'sgi', 'SEGI_16217' => 'sgi', 'SEGI_19466' => 'sgi', 'SEGI_41115' => 'sgi', 'SGA_v2.0_scaffold111G31534' => 'sas', 'SGA_v2.0_scaffold22G09864' => 'sas', 'SGA_v2.0_scaffold338G49219' => 'sas', 'SGA_v2.0_scaffold92G28298' => 'sas', 'SMO119G0064' => 'smo', 'SMO223G0038' => 'smo', 'SMO347G0584' => 'smo', 'SMO351G0010' => 'smo', 'SMO356G0404' => 'smo', 'Solyc01g103920.3' => 'sly', 'Solyc04g009710.2' => 'sly', 'Solyc05g055280.2' => 'sly', 'Solyc10g044520.3' => 'sly', 'Solyc10g075160.1' => 'sly', 'Solyc11g006910.3' => 'sly', 'Solyc11g068430.3' => 'sly', 'Sopen01g046310' => 'spe', 'Sopen03g001200' => 'spe', 'Sopen04g004830' => 'spe', 'Sopen05g033720' => 'spe', 'Sopen06g030740' => 'spe', 'Sopen10g013090' => 'spe', 'Sopen10g027630' => 'spe', 'Sopen10g027640' => 'spe', 'Sopen11g002820' => 'spe', 'Sopen11g027140' => 'spe', 'Sp1g09680' => 'spa', 'Sp2g03630' => 'spa', 'Sp4g10320' => 'spa', 'Sp6g33400' => 'spa', 'Sp7g13030' => 'spa', 'TAR365G0317' => 'tar', 'TAR376G0979' => 'tar', 'TAR623G1665' => 'tar', 'TAR633G2373' => 'tar', 'TAR636G1400' => 'tar', 'THA.LOC104800529' => 'tha', 'THA.LOC104808547' => 'tha', 'THA.LOC104809615' => 'tha', 'THA.LOC104815724' => 'tha', 'THA.LOC104818480' => 'tha', 'THA.LOC104819179' => 'tha', 'THA.LOC104822270' => 'tha', 'THA.LOC104826425' => 'tha', 'Thecc.02G089700' => 'tca', 'Thecc.04G232300' => 'tca', 'Thecc.09G283400' => 'tca', 'Thhalv10009020m.g' => 'esa', 'Thhalv10015506m.g' => 'esa', 'Thhalv10017364m.g' => 'esa', 'Thhalv10023742m.g' => 'esa', 'Thhalv10026483m.g' => 'esa', 'TPR.G17232' => 'tpr', 'TPR.G2133' => 'tpr', 'TPR.G2498' => 'tpr', 'TPR.G31942' => 'tpr', 'TPR.G37877' => 'tpr', 'TPR.G4571' => 'tpr', 'TWI14G1113' => 'twi', 'TWI15G0426' => 'twi', 'TWI31G1005' => 'twi', 'TWI38G0513' => 'twi', 'TWI38G1484' => 'twi', 'TWI73G1098' => 'twi', 'unitig_26.g10519' => 'ugi', 'unitig_736.g22395' => 'ugi', 'unitig_747.g21234' => 'ugi', 'unitig_747.g21942' => 'ugi', 'vmacro14351' => 'vma', 'VMungo0540G0082' => 'vmu', 'VMungo0540G0405' => 'vmu', 'VMungo0540G1486' => 'vmu', 'VMungo0540G1692' => 'vmu', 'VMungo0720G2473' => 'vmu', 'VMungo1127G1562' => 'vmu', 'VMungo1215G1918' => 'vmu', 'Zm00001eb052650' => 'zma', 'Zm00001eb063710' => 'zma', 'Zm00001eb083950' => 'zma', 'Zm00001eb174420' => 'zma', 'Zm00001eb260140' => 'zma', 'Zm00001eb260150' => 'zma', 'Zm00001eb260160' => 'zma', 'Zm00001eb348290' => 'zma', 'Zm00001eb366870' => 'zma', 'Zm00001eb421930' => 'zma' ) $gf_id = 'HOM05D001025' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001025' ) $data_identifier = 'HOM05D001025' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 19, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 2, 'amhyb' => (int) 4, 'aly' => (int) 4, 'aox' => (int) 4, 'arhy' => (int) 3, 'ath' => (int) 5, 'atr' => (int) 4, 'acertr' => (int) 3, 'cqu' => (int) 7, 'bca' => (int) 17, 'bol' => (int) 10, 'bra' => (int) 9, 'can' => (int) 10, 'cansat' => (int) 6, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 5, 'cbr' => (int) 5, 'ccan' => (int) 5, 'cde' => (int) 4, 'cfa' => (int) 3, 'ccl' => (int) 6, 'cil' => (int) 4, 'cla' => (int) 3, 'col' => (int) 3, 'cpa' => (int) 3, 'cre' => (int) 7, 'csa' => (int) 5, 'camsi' => (int) 9, 'dca' => (int) 4, 'din' => (int) 5, 'dzi' => (int) 7, 'eca' => (int) 6, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 12, 'fve' => (int) 4, 'gma' => (int) 12, 'ghi' => (int) 17, 'gra' => (int) 9, 'vvi' => (int) 2, 'han' => (int) 8, 'cav' => (int) 5, 'hma' => (int) 9, 'vpl' => (int) 4, 'sun' => (int) 2, 'lal' => (int) 9, 'lja' => (int) 5, 'lonja' => (int) 6, 'lsa' => (int) 3, 'mes' => (int) 8, 'mpo' => (int) 3, 'mbi' => (int) 4, 'mco' => (int) 3, 'mdo' => (int) 5, 'mtr' => (int) 7, 'cme' => (int) 6, 'egut' => (int) 7, 'ama' => (int) 3, 'nta' => (int) 12, 'nnu' => (int) 9, 'oeu' => (int) 4, 'osa' => (int) 7, 'pax' => (int) 9, 'pgr' => (int) 5, 'stu' => (int) 8, 'pvu' => (int) 6, 'ptr' => (int) 9, 'ppa' => (int) 9, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 7, 'pso' => (int) 10, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 3, 'sbr' => (int) 8, 'sbo' => (int) 5, 'sci' => (int) 5, 'sed' => (int) 4, 'sgi' => (int) 4, 'sas' => (int) 4, 'smo' => (int) 5, 'sly' => (int) 7, 'spe' => (int) 10, 'spa' => (int) 5, 'tar' => (int) 5, 'tha' => (int) 8, 'tca' => (int) 3, 'esa' => (int) 5, 'tpr' => (int) 6, 'twi' => (int) 6, 'ugi' => (int) 4, 'vma' => (int) 1, 'vmu' => (int) 7, 'zma' => (int) 10 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb421930' $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' => 'HOM05D001025', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '592', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p22650' => 'bna', 'A01p29720' => 'bna', 'A03p26560' => 'bna', 'A03p68820' => 'bna', 'A04p20980' => 'bna', 'A06p07730' => 'bna', 'A07p18260' => 'bna', 'A08p33710' => 'bna', 'A09p16970' => 'bna', 'A10p27490' => 'bna', 'Aa31LG1G17300' => 'aar', 'Aa31LG1G3910' => 'aar', 'Aa31LG2G9630' => 'aar', 'Aa31LG5G8360' => 'aar', 'Aa31LG9G2410' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4699' => 'aag', 'Actinidia23512' => 'ach', 'Actinidia37080' => 'ach', 'Ah.01g020380' => 'amhyb', 'Ah.08g215710' => 'amhyb', 'Ah.09g225110' => 'amhyb', 'Ah.10g036680' => 'amhyb', 'AL1G21940' => 'aly', 'AL2G15540' => 'aly', 'AL4G21520' => 'aly', 'AL7G40960' => 'aly', 'Aqoxy2G01191' => 'aox', 'Aqoxy2G03393' => 'aox', 'Aqoxy4G02775' => 'aox', 'Aqoxy6G00058' => 'aox', 'arahy.Tifrunner.gnm1.ann1.9X74H2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CW3FX9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R485W7' => 'arhy', 'AT1G10960' => 'ath', 'AT1G60950' => 'ath', 'AT2G27510' => 'ath', 'AT4G14890' => 'ath', 'AT5G10000' => 'ath', 'ATR0665G624' => 'atr', 'ATR0697G138' => 'atr', 'ATR0776G046' => 'atr', 'ATR1134G135' => 'atr', 'Atru.chr12.1025' => 'acertr', 'Atru.chr3.3241' => 'acertr', 'Atru.chr4.2460' => 'acertr', 'AUR62007427' => 'cqu', 'AUR62010960' => 'cqu', 'AUR62012201' => 'cqu', 'AUR62021470' => 'cqu', 'AUR62022834' => 'cqu', 'AUR62033635' => 'cqu', 'AUR62036186' => 'cqu', 'BcaB01g03077' => 'bca', 'BcaB02g10093' => 'bca', 'BcaB04g20295' => 'bca', 'BcaB06g28147' => 'bca', 'BcaB07g31253' => 'bca', 'BcaC01g04946' => 'bca', 'BcaC02g10614' => 'bca', 'BcaC02g10885' => 'bca', 'BcaC04g19356' => 'bca', 'BcaC04g22297' => 'bca', 'BcaC05g24977' => 'bca', 'BcaC06g31823' => 'bca', 'BcaC07g38633' => 'bca', 'BcaC09g49353' => 'bca', 'BcaC09g50168' => 'bca', 'BcaNung00322' => 'bca', 'BcaNung04769' => 'bca', 'BolC1t02753H' => 'bol', 'BolC1t03721H' => 'bol', 'BolC3t15525H' => 'bol', 'BolC4t23903H' => 'bol', 'BolC4t24231H' => 'bol', 'BolC4t27209H' => 'bol', 'BolC5t29671H' => 'bol', 'BolC8t49044H' => 'bol', 'BolC9t54999H' => 'bol', 'BolC9t59517H' => 'bol', 'BraA01t02178Z' => 'bra', 'BraA01t03099Z' => 'bra', 'BraA03t11867Z' => 'bra', 'BraA04t17667Z' => 'bra', 'BraA07t29542Z' => 'bra', 'BraA08t35287Z' => 'bra', 'BraA09t37334Z' => 'bra', 'BraA10t44801Z' => 'bra', 'BraSC39t46181Z' => 'bra', 'C01p28240' => 'bna', 'C01p37530' => 'bna', 'C03p31820' => 'bna', 'C04p24080' => 'bna', 'C04p25790' => 'bna', 'C04p56770' => 'bna', 'C05p09310' => 'bna', 'C09p21010' => 'bna', 'C09p67560' => 'bna', 'CAN.G1324.7' => 'can', 'CAN.G1358.10' => 'can', 'CAN.G1550.2' => 'can', 'CAN.G186.56' => 'can', 'CAN.G1965.1' => 'can', 'CAN.G645.15' => 'can', 'CAN.G798.26' => 'can', 'CAN.G798.27' => 'can', 'CAN.G798.29' => 'can', 'CAN.G919.31' => 'can', 'CANSAT11G0133' => 'cansat', 'CANSAT11G1171' => 'cansat', 'CANSAT11G2056' => 'cansat', 'CANSAT56G1202' => 'cansat', 'CANSAT56G1514' => 'cansat', 'CANSAT78G0455' => 'cansat', 'CARHR011190' => 'chi', 'CARHR051980' => 'chi', 'CARHR120170' => 'chi', 'CARHR203310' => 'chi', 'CARHR221490' => 'chi', 'Carub.0001s1054' => 'cru', 'Carub.0002s0431' => 'cru', 'Carub.0004s0818' => 'cru', 'Carub.0006s0846' => 'cru', 'Carub.0007s2722' => 'cru', 'Ca_00058_v3' => 'car', 'Ca_17831_v3' => 'car', 'Ca_19408_v3' => 'car', 'Ca_24397_v3' => 'car', 'Ca_25664_v3' => 'car', 'CBR_g21818' => 'cbr', 'CBR_g31195' => 'cbr', 'CBR_g32282' => 'cbr', 'CBR_g39599' => 'cbr', 'CBR_g49410' => 'cbr', 'Cc01_g09120' => 'ccan', 'Cc01_g09130' => 'ccan', 'Cc02_g09630' => 'ccan', 'Cc02_g22810' => 'ccan', 'Cc03_g03810' => 'ccan', 'CDE02G3718' => 'cde', 'CDE04G3183' => 'cde', 'CDE07G1046' => 'cde', 'CDE08G0480' => 'cde', 'Cfa005493' => 'cfa', 'Cfa010312' => 'cfa', 'Cfa015648' => 'cfa', 'Ciclev10002793m.g' => 'ccl', 'Ciclev10003356m.g' => 'ccl', 'Ciclev10006141m.g' => 'ccl', 'Ciclev10016676m.g' => 'ccl', 'Ciclev10017081m.g' => 'ccl', 'Ciclev10029499m.g' => 'ccl', 'CiPaw.01G166300' => 'cil', 'CiPaw.06G145600' => 'cil', 'CiPaw.13G040100' => 'cil', 'CiPaw.13G135800' => 'cil', 'ClCG01G012230' => 'cla', 'ClCG05G009510' => 'cla', 'ClCG08G008270' => 'cla', 'COL.COLO4_11763' => 'col', 'COL.COLO4_19876' => 'col', 'COL.COLO4_21481' => 'col', 'Cpa.g.sc118.34' => 'cpa', 'Cpa.g.sc32.13' => 'cpa', 'Cpa.g.sc58.103' => 'cpa', 'Cre03.g183850' => 'cre', 'Cre06.g306350' => 'cre', 'Cre07.g334800' => 'cre', 'Cre12.g487900' => 'cre', 'Cre14.g626700' => 'cre', 'Cre16.g658400' => 'cre', 'Cre17.g700950' => 'cre', 'CsaV3_1G014830' => 'csa', 'CsaV3_3G013320' => 'csa', 'CsaV3_3G019210' => 'csa', 'CsaV3_3G019220' => 'csa', 'CsaV3_6G004230' => 'csa', 'CSS0003773' => 'camsi', 'CSS0004563' => 'camsi', 'CSS0013949' => 'camsi', 'CSS0025971' => 'camsi', 'CSS0028570' => 'camsi', 'CSS0033127' => 'camsi', 'CSS0036051' => 'camsi', 'CSS0040087' => 'camsi', 'CSS0043179' => 'camsi', 'DCAR_006161' => 'dca', 'DCAR_010351' => 'dca', 'DCAR_012197' => 'dca', 'DCAR_024162' => 'dca', 'Dinv01030' => 'din', 'Dinv10924' => 'din', 'Dinv11835' => 'din', 'Dinv22841' => 'din', 'Dinv42553' => 'din', 'Duzib052G0560' => 'dzi', 'Duzib132G0389' => 'dzi', 'Duzib150G1181' => 'dzi', 'Duzib168G0623' => 'dzi', 'Duzib170G1036' => 'dzi', 'Duzib212G0200' => 'dzi', 'Duzib248G0194' => 'dzi', 'ECA232G2193' => 'eca', 'ECA233G0302' => 'eca', 'ECA234G2813' => 'eca', 'ECA234G4866' => 'eca', 'ECA240G3932' => 'eca', 'ECA248G0385' => 'eca', 'EL10Ac2g04781' => 'bvu', 'EL10Ac3g06445' => 'bvu', 'EL10Ac7g15825' => 'bvu', 'EL10Ac8g18550' => 'bvu', 'Eucgr.B03849' => 'egr', 'Eucgr.I02744' => 'egr', 'Eucgr.J00264' => 'egr', 'Eucgr.J00493' => 'egr', 'FAN04G2181' => 'fan', 'FAN07G2666' => 'fan', 'FAN11G0024' => 'fan', 'FAN12G1105' => 'fan', 'FAN13G0302' => 'fan', 'FAN15G2781' => 'fan', 'FAN16G1274' => 'fan', 'FAN17G2988' => 'fan', 'FAN18G2621' => 'fan', 'FAN21G0013' => 'fan', 'FAN22G1211' => 'fan', 'FAN25G3626' => 'fan', 'FvH4_2g09491' => 'fve', 'FvH4_3g24910' => 'fve', 'FvH4_4g15630' => 'fve', 'FvH4_5g28820' => 'fve', 'Glyma.01G238000' => 'gma', 'Glyma.05G168400' => 'gma', 'Glyma.08G126800' => 'gma', 'Glyma.08G188500' => 'gma', 'Glyma.10G278900' => 'gma', 'Glyma.11G005700' => 'gma', 'Glyma.11G183300' => 'gma', 'Glyma.12G089200' => 'gma', 'Glyma.12G169400' => 'gma', 'Glyma.12G169500' => 'gma', 'Glyma.12G169600' => 'gma', 'Glyma.20G110800' => 'gma', 'Gohir.A03G192900' => 'ghi', 'Gohir.A03G193000' => 'ghi', 'Gohir.A05G080700' => 'ghi', 'Gohir.A09G216000' => 'ghi', 'Gohir.A12G027700' => 'ghi', 'Gohir.A13G036200' => 'ghi', 'Gohir.A13G222600' => 'ghi', 'Gohir.D02G213900' => 'ghi', 'Gohir.D02G214000' => 'ghi', 'Gohir.D05G083700' => 'ghi', 'Gohir.D05G083800' => 'ghi', 'Gohir.D05G083850' => 'ghi', 'Gohir.D08G015400' => 'ghi', 'Gohir.D09G218400' => 'ghi', 'Gohir.D12G027100' => 'ghi', 'Gohir.D13G034500' => 'ghi', 'Gohir.D13G227400' => 'ghi', 'Gorai.005G241800' => 'gra', 'Gorai.005G241900' => 'gra', 'Gorai.006G239400' => 'gra', 'Gorai.008G027600' => 'gra', 'Gorai.009G085400' => 'gra', 'Gorai.009G085500' => 'gra', 'Gorai.013G039000' => 'gra', 'Gorai.013G194800' => 'gra', 'Gorai.013G257900' => 'gra', 'GSVIVG01000982001' => 'vvi', 'GSVIVG01017981001' => 'vvi', 'HanXRQChr01g0024061' => 'han', 'HanXRQChr09g0247831' => 'han', 'HanXRQChr10g0294611' => 'han', 'HanXRQChr10g0294621' => 'han', 'HanXRQChr11g0346821' => 'han', 'HanXRQChr13g0397461' => 'han', 'HanXRQChr16g0513651' => 'han', 'HanXRQChr16g0513701' => 'han', 'Haze_00897' => 'cav', 'Haze_01745' => 'cav', 'Haze_02486' => 'cav', 'Haze_02487' => 'cav', 'Haze_23374' => 'cav', 'Hma1.2p1_0578F.1_g182520' => 'hma', 'Hma1.2p1_0602F.1_g187350' => 'hma', 'Hma1.2p1_0602F.1_g187360' => 'hma', 'Hma1.2p1_0874F.1_g231320' => 'hma', 'Hma1.2p1_1197F.1_g266210' => 'hma', 'Hma1.2p1_1197F.1_g266220' => 'hma', 'Hma1.2p1_2167F.1_g315895' => 'hma', 'Hma1.2p1_2190F.1_g316640' => 'hma', 'Hma1.2p1_3645F.1_g337153' => 'hma', 'HPP92_004907' => 'vpl', 'HPP92_012134' => 'vpl', 'HPP92_025136' => 'vpl', 'HPP92_026087' => 'vpl', 'Hund06782' => 'sun', 'Hund06784' => 'sun', 'Lalb_Chr01g0004861' => 'lal', 'Lalb_Chr02g0140591' => 'lal', 'Lalb_Chr02g0140611' => 'lal', 'Lalb_Chr03g0028101' => 'lal', 'Lalb_Chr07g0185791' => 'lal', 'Lalb_Chr12g0204491' => 'lal', 'Lalb_Chr13g0295671' => 'lal', 'Lalb_Chr19g0136461' => 'lal', 'Lalb_Chr21g0309191' => 'lal', 'Lj1g0028158' => 'lja', 'Lj1P236T38' => 'lonja', 'Lj2C32G2' => 'lonja', 'Lj2P944T8' => 'lonja', 'Lj2P963T15' => 'lonja', 'Lj3g0011788' => 'lja', 'Lj4g0025027' => 'lja', 'Lj5P255T36' => 'lonja', 'Lj6g0018866' => 'lja', 'Lj6P608T31' => 'lonja', 'LjContig00408g0008879' => 'lja', 'Lsat_1_v5_gn_5_105820' => 'lsa', 'Lsat_1_v5_gn_6_38800' => 'lsa', 'Lsat_1_v5_gn_7_67141' => 'lsa', 'Manes.04G003400' => 'mes', 'Manes.07G020000' => 'mes', 'Manes.07G020100' => 'mes', 'Manes.07G020150' => 'mes', 'Manes.10G061500' => 'mes', 'Manes.10G123200' => 'mes', 'Manes.11G161900' => 'mes', 'Manes.15G029300' => 'mes', 'Mapoly0071s0018' => 'mpo', 'Mapoly0082s0023' => 'mpo', 'Mapoly3477s0001' => 'mpo', 'MBI05_g31233_MAGBIO' => 'mbi', 'MBI09_g05946_MAGBIO' => 'mbi', 'MBI09_g05947_MAGBIO' => 'mbi', 'MBI17_g08346_MAGBIO' => 'mbi', 'MCO04G038' => 'mco', 'MCO09G370' => 'mco', 'MCO13G605' => 'mco', 'MD00G1075500' => 'mdo', 'MD03G1144300' => 'mdo', 'MD08G1236800' => 'mdo', 'MD13G1193300' => 'mdo', 'MD15G1428700' => 'mdo', 'Medtr1g112030' => 'mtr', 'Medtr1g112050' => 'mtr', 'Medtr2g006290' => 'mtr', 'Medtr2g086510' => 'mtr', 'Medtr4g053120' => 'mtr', 'Medtr5g006320' => 'mtr', 'Medtr8g088720' => 'mtr', 'MELO3C004712.2' => 'cme', 'MELO3C006533.2' => 'cme', 'MELO3C019438.2' => 'cme', 'MELO3C019440.2' => 'cme', 'MELO3C019441.2' => 'cme', 'MELO3C019895.2' => 'cme', 'Migut.B00811' => 'egut', 'Migut.D02447' => 'egut', 'Migut.F00875' => 'egut', 'Migut.N00186' => 'egut', 'Migut.N01051' => 'egut', 'Migut.N02491' => 'egut', 'Migut.O00784' => 'egut', 'MSTRG.12367' => 'ama', 'MSTRG.18756' => 'ama', 'MSTRG.21042' => 'ama', 'Nitab4.5_0000559g0040' => 'nta', 'Nitab4.5_0000667g0190' => 'nta', 'Nitab4.5_0000755g0160' => 'nta', 'Nitab4.5_0001216g0080' => 'nta', 'Nitab4.5_0004069g0040' => 'nta', 'Nitab4.5_0004129g0010' => 'nta', 'Nitab4.5_0005744g0030' => 'nta', 'Nitab4.5_0006996g0030' => 'nta', 'Nitab4.5_0008971g0040' => 'nta', 'Nitab4.5_0009769g0020' => 'nta', 'Nitab4.5_0009833g0010' => 'nta', 'Nitab4.5_0013140g0020' => 'nta', 'Nn003s41376' => 'nnu', 'Nn1g01857' => 'nnu', 'Nn1g03611' => 'nnu', 'Nn1g06853' => 'nnu', 'Nn3g18360' => 'nnu', 'Nn4g26328' => 'nnu', 'Nn5g27531' => 'nnu', 'Nn6g34899' => 'nnu', 'Nn7g36299' => 'nnu', 'Oeu021485.1' => 'oeu', 'Oeu022433.1' => 'oeu', 'Oeu032111.1' => 'oeu', 'Oeu051608.1' => 'oeu', 'Os01g0860601' => 'osa', 'Os03g0659200' => 'osa', 'Os03g0835900' => 'osa', 'Os04g0412200' => 'osa', 'Os05g0443500' => 'osa', 'Os07g0251500' => 'osa', 'Os08g0104600' => 'osa', 'Peaxi162Scf00003g00047' => 'pax', 'Peaxi162Scf00003g00052' => 'pax', 'Peaxi162Scf00003g00394' => 'pax', 'Peaxi162Scf00091g00621' => 'pax', 'Peaxi162Scf00152g00146' => 'pax', 'Peaxi162Scf00173g00025' => 'pax', 'Peaxi162Scf00195g00102' => 'pax', 'Peaxi162Scf00402g00013' => 'pax', 'Peaxi162Scf00519g00618' => 'pax', 'PGR004G2838' => 'pgr', 'PGR044G2275' => 'pgr', 'PGR102G1377' => 'pgr', 'PGR119G1245' => 'pgr', 'PGR142G4449' => 'pgr', 'PGSC0003DMG400004532' => 'stu', 'PGSC0003DMG400011950' => 'stu', 'PGSC0003DMG400023391' => 'stu', 'PGSC0003DMG400023985' => 'stu', 'PGSC0003DMG400026360' => 'stu', 'PGSC0003DMG400035711' => 'stu', 'PGSC0003DMG400037286' => 'stu', 'PGSC0003DMG402005881' => 'stu', 'Phvul.002G045400' => 'pvu', 'Phvul.006G216600' => 'pvu', 'Phvul.006G216700' => 'pvu', 'Phvul.006G216800' => 'pvu', 'Phvul.007G022500' => 'pvu', 'Phvul.011G094400' => 'pvu', 'Potri.001G470700' => 'ptr', 'Potri.003G015200' => 'ptr', 'Potri.004G202500' => 'ptr', 'Potri.004G218400' => 'ptr', 'Potri.008G020100' => 'ptr', 'Potri.008G153200' => 'ptr', 'Potri.009G163800' => 'ptr', 'Potri.010G087300' => 'ptr', 'Potri.010G239100' => 'ptr', 'Pp3c10_16100' => 'ppa', 'Pp3c10_16880' => 'ppa', 'Pp3c16_6230' => 'ppa', 'Pp3c17_18910' => 'ppa', 'Pp3c3_22119' => 'ppa', 'Pp3c3_22140' => 'ppa', 'Pp3c4_8159' => 'ppa', 'Pp3c4_8171' => 'ppa', 'Pp3c4_8330' => 'ppa', 'PRCOL_00004098' => 'pco', 'Prupe.1G013900' => 'ppe', 'Prupe.1G226300' => 'ppe', 'Prupe.1G573600' => 'ppe', 'Prupe.6G130100' => 'ppe', 'Psat3g090040' => 'psa', 'Psat4g210440' => 'psa', 'Psat6g231040' => 'psa', 'Psat6g231080' => 'psa', 'Psat7g063000' => 'psa', 'Psat7g188000' => 'psa', 'Psat7g188040' => 'psa', 'PSO017G0206' => 'pso', 'PSO170G0501' => 'pso', 'PSO170G6422' => 'pso', 'PSO210G7739' => 'pso', 'PSO339G1808' => 'pso', 'PSO339G6135' => 'pso', 'PSO384G0010' => 'pso', 'PSO384G0964' => 'pso', 'PSO761G0050' => 'pso', 'PSO782G4085' => 'pso', 'QL01p012264' => 'qlo', 'QL02p099491' => 'qlo', 'QL03p033868' => 'qlo', 'QL04p046678' => 'qlo', 'QL06p002448' => 'qlo', 'RcHm_v2.0_Chr4g0416181' => 'rch', 'RcHm_v2.0_Chr5g0044701' => 'rch', 'RcHm_v2.0_Chr6g0265781' => 'rch', 'RcHm_v2.0_Chr7g0221031' => 'rch', 'Rhsim04G0202000' => 'rsi', 'Rhsim11G0127300' => 'rsi', 'Rhsim13G0111800' => 'rsi', 'Sabra01G0165600' => 'sbr', 'Sabra03G0008300' => 'sbr', 'Sabra04G0136900' => 'sbr', 'Sabra08G0013400' => 'sbr', 'Sabra08G0116800' => 'sbr', 'Sabra09G0128000' => 'sbr', 'Sabra10G0055500' => 'sbr', 'Sabra10G0073300' => 'sbr', 'SalBow3G0385' => 'sbo', 'SalBow3G1119' => 'sbo', 'SalBow3G2005' => 'sbo', 'SalBow6G2563' => 'sbo', 'SalBow6G6386' => 'sbo', 'Sc06g0008800' => 'sci', 'Sc07g0004950' => 'sci', 'Sc09g0005340' => 'sci', 'Sc13g0004410' => 'sci', 'Sc21g0007090' => 'sci', 'Sed0009285' => 'sed', 'Sed0017583' => 'sed', 'Sed0019699' => 'sed', 'Sed0023107' => 'sed', 'SEGI_10916' => 'sgi', 'SEGI_16217' => 'sgi', 'SEGI_19466' => 'sgi', 'SEGI_41115' => 'sgi', 'SGA_v2.0_scaffold111G31534' => 'sas', 'SGA_v2.0_scaffold22G09864' => 'sas', 'SGA_v2.0_scaffold338G49219' => 'sas', 'SGA_v2.0_scaffold92G28298' => 'sas', 'SMO119G0064' => 'smo', 'SMO223G0038' => 'smo', 'SMO347G0584' => 'smo', 'SMO351G0010' => 'smo', 'SMO356G0404' => 'smo', 'Solyc01g103920.3' => 'sly', 'Solyc04g009710.2' => 'sly', 'Solyc05g055280.2' => 'sly', 'Solyc10g044520.3' => 'sly', 'Solyc10g075160.1' => 'sly', 'Solyc11g006910.3' => 'sly', 'Solyc11g068430.3' => 'sly', 'Sopen01g046310' => 'spe', 'Sopen03g001200' => 'spe', 'Sopen04g004830' => 'spe', 'Sopen05g033720' => 'spe', 'Sopen06g030740' => 'spe', 'Sopen10g013090' => 'spe', 'Sopen10g027630' => 'spe', 'Sopen10g027640' => 'spe', 'Sopen11g002820' => 'spe', 'Sopen11g027140' => 'spe', 'Sp1g09680' => 'spa', 'Sp2g03630' => 'spa', 'Sp4g10320' => 'spa', 'Sp6g33400' => 'spa', 'Sp7g13030' => 'spa', 'TAR365G0317' => 'tar', 'TAR376G0979' => 'tar', 'TAR623G1665' => 'tar', 'TAR633G2373' => 'tar', 'TAR636G1400' => 'tar', 'THA.LOC104800529' => 'tha', 'THA.LOC104808547' => 'tha', 'THA.LOC104809615' => 'tha', 'THA.LOC104815724' => 'tha', 'THA.LOC104818480' => 'tha', 'THA.LOC104819179' => 'tha', 'THA.LOC104822270' => 'tha', 'THA.LOC104826425' => 'tha', 'Thecc.02G089700' => 'tca', 'Thecc.04G232300' => 'tca', 'Thecc.09G283400' => 'tca', 'Thhalv10009020m.g' => 'esa', 'Thhalv10015506m.g' => 'esa', 'Thhalv10017364m.g' => 'esa', 'Thhalv10023742m.g' => 'esa', 'Thhalv10026483m.g' => 'esa', 'TPR.G17232' => 'tpr', 'TPR.G2133' => 'tpr', 'TPR.G2498' => 'tpr', 'TPR.G31942' => 'tpr', 'TPR.G37877' => 'tpr', 'TPR.G4571' => 'tpr', 'TWI14G1113' => 'twi', 'TWI15G0426' => 'twi', 'TWI31G1005' => 'twi', 'TWI38G0513' => 'twi', 'TWI38G1484' => 'twi', 'TWI73G1098' => 'twi', 'unitig_26.g10519' => 'ugi', 'unitig_736.g22395' => 'ugi', 'unitig_747.g21234' => 'ugi', 'unitig_747.g21942' => 'ugi', 'vmacro14351' => 'vma', 'VMungo0540G0082' => 'vmu', 'VMungo0540G0405' => 'vmu', 'VMungo0540G1486' => 'vmu', 'VMungo0540G1692' => 'vmu', 'VMungo0720G2473' => 'vmu', 'VMungo1127G1562' => 'vmu', 'VMungo1215G1918' => 'vmu', 'Zm00001eb052650' => 'zma', 'Zm00001eb063710' => 'zma', 'Zm00001eb083950' => 'zma', 'Zm00001eb174420' => 'zma', 'Zm00001eb260140' => 'zma', 'Zm00001eb260150' => 'zma', 'Zm00001eb260160' => 'zma', 'Zm00001eb348290' => 'zma', 'Zm00001eb366870' => 'zma', 'Zm00001eb421930' => 'zma' ), 'gf_id' => 'HOM05D001025', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001025' ), 'data_identifier' => 'HOM05D001025', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001025', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '592', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p22650' => 'bna', 'A01p29720' => 'bna', 'A03p26560' => 'bna', 'A03p68820' => 'bna', 'A04p20980' => 'bna', 'A06p07730' => 'bna', 'A07p18260' => 'bna', 'A08p33710' => 'bna', 'A09p16970' => 'bna', 'A10p27490' => 'bna', 'Aa31LG1G17300' => 'aar', 'Aa31LG1G3910' => 'aar', 'Aa31LG2G9630' => 'aar', 'Aa31LG5G8360' => 'aar', 'Aa31LG9G2410' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4699' => 'aag', 'Actinidia23512' => 'ach', 'Actinidia37080' => 'ach', 'Ah.01g020380' => 'amhyb', 'Ah.08g215710' => 'amhyb', 'Ah.09g225110' => 'amhyb', 'Ah.10g036680' => 'amhyb', 'AL1G21940' => 'aly', 'AL2G15540' => 'aly', 'AL4G21520' => 'aly', 'AL7G40960' => 'aly', 'Aqoxy2G01191' => 'aox', 'Aqoxy2G03393' => 'aox', 'Aqoxy4G02775' => 'aox', 'Aqoxy6G00058' => 'aox', 'arahy.Tifrunner.gnm1.ann1.9X74H2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CW3FX9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R485W7' => 'arhy', 'AT1G10960' => 'ath', 'AT1G60950' => 'ath', 'AT2G27510' => 'ath', 'AT4G14890' => 'ath', 'AT5G10000' => 'ath', 'ATR0665G624' => 'atr', 'ATR0697G138' => 'atr', 'ATR0776G046' => 'atr', 'ATR1134G135' => 'atr', 'Atru.chr12.1025' => 'acertr', 'Atru.chr3.3241' => 'acertr', 'Atru.chr4.2460' => 'acertr', 'AUR62007427' => 'cqu', 'AUR62010960' => 'cqu', 'AUR62012201' => 'cqu', 'AUR62021470' => 'cqu', 'AUR62022834' => 'cqu', 'AUR62033635' => 'cqu', 'AUR62036186' => 'cqu', 'BcaB01g03077' => 'bca', 'BcaB02g10093' => 'bca', 'BcaB04g20295' => 'bca', 'BcaB06g28147' => 'bca', 'BcaB07g31253' => 'bca', 'BcaC01g04946' => 'bca', 'BcaC02g10614' => 'bca', 'BcaC02g10885' => 'bca', 'BcaC04g19356' => 'bca', 'BcaC04g22297' => 'bca', 'BcaC05g24977' => 'bca', 'BcaC06g31823' => 'bca', 'BcaC07g38633' => 'bca', 'BcaC09g49353' => 'bca', 'BcaC09g50168' => 'bca', 'BcaNung00322' => 'bca', 'BcaNung04769' => 'bca', 'BolC1t02753H' => 'bol', 'BolC1t03721H' => 'bol', 'BolC3t15525H' => 'bol', 'BolC4t23903H' => 'bol', 'BolC4t24231H' => 'bol', 'BolC4t27209H' => 'bol', 'BolC5t29671H' => 'bol', 'BolC8t49044H' => 'bol', 'BolC9t54999H' => 'bol', 'BolC9t59517H' => 'bol', 'BraA01t02178Z' => 'bra', 'BraA01t03099Z' => 'bra', 'BraA03t11867Z' => 'bra', 'BraA04t17667Z' => 'bra', 'BraA07t29542Z' => 'bra', 'BraA08t35287Z' => 'bra', 'BraA09t37334Z' => 'bra', 'BraA10t44801Z' => 'bra', 'BraSC39t46181Z' => 'bra', 'C01p28240' => 'bna', 'C01p37530' => 'bna', 'C03p31820' => 'bna', 'C04p24080' => 'bna', 'C04p25790' => 'bna', 'C04p56770' => 'bna', 'C05p09310' => 'bna', 'C09p21010' => 'bna', 'C09p67560' => 'bna', 'CAN.G1324.7' => 'can', 'CAN.G1358.10' => 'can', 'CAN.G1550.2' => 'can', 'CAN.G186.56' => 'can', 'CAN.G1965.1' => 'can', 'CAN.G645.15' => 'can', 'CAN.G798.26' => 'can', 'CAN.G798.27' => 'can', 'CAN.G798.29' => 'can', 'CAN.G919.31' => 'can', 'CANSAT11G0133' => 'cansat', 'CANSAT11G1171' => 'cansat', 'CANSAT11G2056' => 'cansat', 'CANSAT56G1202' => 'cansat', 'CANSAT56G1514' => 'cansat', 'CANSAT78G0455' => 'cansat', 'CARHR011190' => 'chi', 'CARHR051980' => 'chi', 'CARHR120170' => 'chi', 'CARHR203310' => 'chi', 'CARHR221490' => 'chi', 'Carub.0001s1054' => 'cru', 'Carub.0002s0431' => 'cru', 'Carub.0004s0818' => 'cru', 'Carub.0006s0846' => 'cru', 'Carub.0007s2722' => 'cru', 'Ca_00058_v3' => 'car', 'Ca_17831_v3' => 'car', 'Ca_19408_v3' => 'car', 'Ca_24397_v3' => 'car', 'Ca_25664_v3' => 'car', 'CBR_g21818' => 'cbr', 'CBR_g31195' => 'cbr', 'CBR_g32282' => 'cbr', 'CBR_g39599' => 'cbr', 'CBR_g49410' => 'cbr', 'Cc01_g09120' => 'ccan', 'Cc01_g09130' => 'ccan', 'Cc02_g09630' => 'ccan', 'Cc02_g22810' => 'ccan', 'Cc03_g03810' => 'ccan', 'CDE02G3718' => 'cde', 'CDE04G3183' => 'cde', 'CDE07G1046' => 'cde', 'CDE08G0480' => 'cde', 'Cfa005493' => 'cfa', 'Cfa010312' => 'cfa', 'Cfa015648' => 'cfa', 'Ciclev10002793m.g' => 'ccl', 'Ciclev10003356m.g' => 'ccl', 'Ciclev10006141m.g' => 'ccl', 'Ciclev10016676m.g' => 'ccl', 'Ciclev10017081m.g' => 'ccl', 'Ciclev10029499m.g' => 'ccl', 'CiPaw.01G166300' => 'cil', 'CiPaw.06G145600' => 'cil', 'CiPaw.13G040100' => 'cil', 'CiPaw.13G135800' => 'cil', 'ClCG01G012230' => 'cla', 'ClCG05G009510' => 'cla', 'ClCG08G008270' => 'cla', 'COL.COLO4_11763' => 'col', 'COL.COLO4_19876' => 'col', 'COL.COLO4_21481' => 'col', 'Cpa.g.sc118.34' => 'cpa', 'Cpa.g.sc32.13' => 'cpa', 'Cpa.g.sc58.103' => 'cpa', 'Cre03.g183850' => 'cre', 'Cre06.g306350' => 'cre', 'Cre07.g334800' => 'cre', 'Cre12.g487900' => 'cre', 'Cre14.g626700' => 'cre', 'Cre16.g658400' => 'cre', 'Cre17.g700950' => 'cre', 'CsaV3_1G014830' => 'csa', 'CsaV3_3G013320' => 'csa', 'CsaV3_3G019210' => 'csa', 'CsaV3_3G019220' => 'csa', 'CsaV3_6G004230' => 'csa', 'CSS0003773' => 'camsi', 'CSS0004563' => 'camsi', 'CSS0013949' => 'camsi', 'CSS0025971' => 'camsi', 'CSS0028570' => 'camsi', 'CSS0033127' => 'camsi', 'CSS0036051' => 'camsi', 'CSS0040087' => 'camsi', 'CSS0043179' => 'camsi', 'DCAR_006161' => 'dca', 'DCAR_010351' => 'dca', 'DCAR_012197' => 'dca', 'DCAR_024162' => 'dca', 'Dinv01030' => 'din', 'Dinv10924' => 'din', 'Dinv11835' => 'din', 'Dinv22841' => 'din', 'Dinv42553' => 'din', 'Duzib052G0560' => 'dzi', 'Duzib132G0389' => 'dzi', 'Duzib150G1181' => 'dzi', 'Duzib168G0623' => 'dzi', 'Duzib170G1036' => 'dzi', 'Duzib212G0200' => 'dzi', 'Duzib248G0194' => 'dzi', 'ECA232G2193' => 'eca', 'ECA233G0302' => 'eca', 'ECA234G2813' => 'eca', 'ECA234G4866' => 'eca', 'ECA240G3932' => 'eca', 'ECA248G0385' => 'eca', 'EL10Ac2g04781' => 'bvu', 'EL10Ac3g06445' => 'bvu', 'EL10Ac7g15825' => 'bvu', 'EL10Ac8g18550' => 'bvu', 'Eucgr.B03849' => 'egr', 'Eucgr.I02744' => 'egr', 'Eucgr.J00264' => 'egr', 'Eucgr.J00493' => 'egr', 'FAN04G2181' => 'fan', 'FAN07G2666' => 'fan', 'FAN11G0024' => 'fan', 'FAN12G1105' => 'fan', 'FAN13G0302' => 'fan', 'FAN15G2781' => 'fan', 'FAN16G1274' => 'fan', 'FAN17G2988' => 'fan', 'FAN18G2621' => 'fan', 'FAN21G0013' => 'fan', 'FAN22G1211' => 'fan', 'FAN25G3626' => 'fan', 'FvH4_2g09491' => 'fve', 'FvH4_3g24910' => 'fve', 'FvH4_4g15630' => 'fve', 'FvH4_5g28820' => 'fve', 'Glyma.01G238000' => 'gma', 'Glyma.05G168400' => 'gma', 'Glyma.08G126800' => 'gma', 'Glyma.08G188500' => 'gma', 'Glyma.10G278900' => 'gma', 'Glyma.11G005700' => 'gma', 'Glyma.11G183300' => 'gma', 'Glyma.12G089200' => 'gma', 'Glyma.12G169400' => 'gma', 'Glyma.12G169500' => 'gma', 'Glyma.12G169600' => 'gma', 'Glyma.20G110800' => 'gma', 'Gohir.A03G192900' => 'ghi', 'Gohir.A03G193000' => 'ghi', 'Gohir.A05G080700' => 'ghi', 'Gohir.A09G216000' => 'ghi', 'Gohir.A12G027700' => 'ghi', 'Gohir.A13G036200' => 'ghi', 'Gohir.A13G222600' => 'ghi', 'Gohir.D02G213900' => 'ghi', 'Gohir.D02G214000' => 'ghi', 'Gohir.D05G083700' => 'ghi', 'Gohir.D05G083800' => 'ghi', 'Gohir.D05G083850' => 'ghi', 'Gohir.D08G015400' => 'ghi', 'Gohir.D09G218400' => 'ghi', 'Gohir.D12G027100' => 'ghi', 'Gohir.D13G034500' => 'ghi', 'Gohir.D13G227400' => 'ghi', 'Gorai.005G241800' => 'gra', 'Gorai.005G241900' => 'gra', 'Gorai.006G239400' => 'gra', 'Gorai.008G027600' => 'gra', 'Gorai.009G085400' => 'gra', 'Gorai.009G085500' => 'gra', 'Gorai.013G039000' => 'gra', 'Gorai.013G194800' => 'gra', 'Gorai.013G257900' => 'gra', 'GSVIVG01000982001' => 'vvi', 'GSVIVG01017981001' => 'vvi', 'HanXRQChr01g0024061' => 'han', 'HanXRQChr09g0247831' => 'han', 'HanXRQChr10g0294611' => 'han', 'HanXRQChr10g0294621' => 'han', 'HanXRQChr11g0346821' => 'han', 'HanXRQChr13g0397461' => 'han', 'HanXRQChr16g0513651' => 'han', 'HanXRQChr16g0513701' => 'han', 'Haze_00897' => 'cav', 'Haze_01745' => 'cav', 'Haze_02486' => 'cav', 'Haze_02487' => 'cav', 'Haze_23374' => 'cav', 'Hma1.2p1_0578F.1_g182520' => 'hma', 'Hma1.2p1_0602F.1_g187350' => 'hma', 'Hma1.2p1_0602F.1_g187360' => 'hma', 'Hma1.2p1_0874F.1_g231320' => 'hma', 'Hma1.2p1_1197F.1_g266210' => 'hma', 'Hma1.2p1_1197F.1_g266220' => 'hma', 'Hma1.2p1_2167F.1_g315895' => 'hma', 'Hma1.2p1_2190F.1_g316640' => 'hma', 'Hma1.2p1_3645F.1_g337153' => 'hma', 'HPP92_004907' => 'vpl', 'HPP92_012134' => 'vpl', 'HPP92_025136' => 'vpl', 'HPP92_026087' => 'vpl', 'Hund06782' => 'sun', 'Hund06784' => 'sun', 'Lalb_Chr01g0004861' => 'lal', 'Lalb_Chr02g0140591' => 'lal', 'Lalb_Chr02g0140611' => 'lal', 'Lalb_Chr03g0028101' => 'lal', 'Lalb_Chr07g0185791' => 'lal', 'Lalb_Chr12g0204491' => 'lal', 'Lalb_Chr13g0295671' => 'lal', 'Lalb_Chr19g0136461' => 'lal', 'Lalb_Chr21g0309191' => 'lal', 'Lj1g0028158' => 'lja', 'Lj1P236T38' => 'lonja', 'Lj2C32G2' => 'lonja', 'Lj2P944T8' => 'lonja', 'Lj2P963T15' => 'lonja', 'Lj3g0011788' => 'lja', 'Lj4g0025027' => 'lja', 'Lj5P255T36' => 'lonja', 'Lj6g0018866' => 'lja', 'Lj6P608T31' => 'lonja', 'LjContig00408g0008879' => 'lja', 'Lsat_1_v5_gn_5_105820' => 'lsa', 'Lsat_1_v5_gn_6_38800' => 'lsa', 'Lsat_1_v5_gn_7_67141' => 'lsa', 'Manes.04G003400' => 'mes', 'Manes.07G020000' => 'mes', 'Manes.07G020100' => 'mes', 'Manes.07G020150' => 'mes', 'Manes.10G061500' => 'mes', 'Manes.10G123200' => 'mes', 'Manes.11G161900' => 'mes', 'Manes.15G029300' => 'mes', 'Mapoly0071s0018' => 'mpo', 'Mapoly0082s0023' => 'mpo', 'Mapoly3477s0001' => 'mpo', 'MBI05_g31233_MAGBIO' => 'mbi', 'MBI09_g05946_MAGBIO' => 'mbi', 'MBI09_g05947_MAGBIO' => 'mbi', 'MBI17_g08346_MAGBIO' => 'mbi', 'MCO04G038' => 'mco', 'MCO09G370' => 'mco', 'MCO13G605' => 'mco', 'MD00G1075500' => 'mdo', 'MD03G1144300' => 'mdo', 'MD08G1236800' => 'mdo', 'MD13G1193300' => 'mdo', 'MD15G1428700' => 'mdo', 'Medtr1g112030' => 'mtr', 'Medtr1g112050' => 'mtr', 'Medtr2g006290' => 'mtr', 'Medtr2g086510' => 'mtr', 'Medtr4g053120' => 'mtr', 'Medtr5g006320' => 'mtr', 'Medtr8g088720' => 'mtr', 'MELO3C004712.2' => 'cme', 'MELO3C006533.2' => 'cme', 'MELO3C019438.2' => 'cme', 'MELO3C019440.2' => 'cme', 'MELO3C019441.2' => 'cme', 'MELO3C019895.2' => 'cme', 'Migut.B00811' => 'egut', 'Migut.D02447' => 'egut', 'Migut.F00875' => 'egut', 'Migut.N00186' => 'egut', 'Migut.N01051' => 'egut', 'Migut.N02491' => 'egut', 'Migut.O00784' => 'egut', 'MSTRG.12367' => 'ama', 'MSTRG.18756' => 'ama', 'MSTRG.21042' => 'ama', 'Nitab4.5_0000559g0040' => 'nta', 'Nitab4.5_0000667g0190' => 'nta', 'Nitab4.5_0000755g0160' => 'nta', 'Nitab4.5_0001216g0080' => 'nta', 'Nitab4.5_0004069g0040' => 'nta', 'Nitab4.5_0004129g0010' => 'nta', 'Nitab4.5_0005744g0030' => 'nta', 'Nitab4.5_0006996g0030' => 'nta', 'Nitab4.5_0008971g0040' => 'nta', 'Nitab4.5_0009769g0020' => 'nta', 'Nitab4.5_0009833g0010' => 'nta', 'Nitab4.5_0013140g0020' => 'nta', 'Nn003s41376' => 'nnu', 'Nn1g01857' => 'nnu', 'Nn1g03611' => 'nnu', 'Nn1g06853' => 'nnu', 'Nn3g18360' => 'nnu', 'Nn4g26328' => 'nnu', 'Nn5g27531' => 'nnu', 'Nn6g34899' => 'nnu', 'Nn7g36299' => 'nnu', 'Oeu021485.1' => 'oeu', 'Oeu022433.1' => 'oeu', 'Oeu032111.1' => 'oeu', 'Oeu051608.1' => 'oeu', 'Os01g0860601' => 'osa', 'Os03g0659200' => 'osa', 'Os03g0835900' => 'osa', 'Os04g0412200' => 'osa', 'Os05g0443500' => 'osa', 'Os07g0251500' => 'osa', 'Os08g0104600' => 'osa', 'Peaxi162Scf00003g00047' => 'pax', 'Peaxi162Scf00003g00052' => 'pax', 'Peaxi162Scf00003g00394' => 'pax', 'Peaxi162Scf00091g00621' => 'pax', 'Peaxi162Scf00152g00146' => 'pax', 'Peaxi162Scf00173g00025' => 'pax', 'Peaxi162Scf00195g00102' => 'pax', 'Peaxi162Scf00402g00013' => 'pax', 'Peaxi162Scf00519g00618' => 'pax', 'PGR004G2838' => 'pgr', 'PGR044G2275' => 'pgr', 'PGR102G1377' => 'pgr', 'PGR119G1245' => 'pgr', 'PGR142G4449' => 'pgr', 'PGSC0003DMG400004532' => 'stu', 'PGSC0003DMG400011950' => 'stu', 'PGSC0003DMG400023391' => 'stu', 'PGSC0003DMG400023985' => 'stu', 'PGSC0003DMG400026360' => 'stu', 'PGSC0003DMG400035711' => 'stu', 'PGSC0003DMG400037286' => 'stu', 'PGSC0003DMG402005881' => 'stu', 'Phvul.002G045400' => 'pvu', 'Phvul.006G216600' => 'pvu', 'Phvul.006G216700' => 'pvu', 'Phvul.006G216800' => 'pvu', 'Phvul.007G022500' => 'pvu', 'Phvul.011G094400' => 'pvu', 'Potri.001G470700' => 'ptr', 'Potri.003G015200' => 'ptr', 'Potri.004G202500' => 'ptr', 'Potri.004G218400' => 'ptr', 'Potri.008G020100' => 'ptr', 'Potri.008G153200' => 'ptr', 'Potri.009G163800' => 'ptr', 'Potri.010G087300' => 'ptr', 'Potri.010G239100' => 'ptr', 'Pp3c10_16100' => 'ppa', 'Pp3c10_16880' => 'ppa', 'Pp3c16_6230' => 'ppa', 'Pp3c17_18910' => 'ppa', 'Pp3c3_22119' => 'ppa', 'Pp3c3_22140' => 'ppa', 'Pp3c4_8159' => 'ppa', 'Pp3c4_8171' => 'ppa', 'Pp3c4_8330' => 'ppa', 'PRCOL_00004098' => 'pco', 'Prupe.1G013900' => 'ppe', 'Prupe.1G226300' => 'ppe', 'Prupe.1G573600' => 'ppe', 'Prupe.6G130100' => 'ppe', 'Psat3g090040' => 'psa', 'Psat4g210440' => 'psa', 'Psat6g231040' => 'psa', 'Psat6g231080' => 'psa', 'Psat7g063000' => 'psa', 'Psat7g188000' => 'psa', 'Psat7g188040' => 'psa', 'PSO017G0206' => 'pso', 'PSO170G0501' => 'pso', 'PSO170G6422' => 'pso', 'PSO210G7739' => 'pso', 'PSO339G1808' => 'pso', 'PSO339G6135' => 'pso', 'PSO384G0010' => 'pso', 'PSO384G0964' => 'pso', 'PSO761G0050' => 'pso', 'PSO782G4085' => 'pso', 'QL01p012264' => 'qlo', 'QL02p099491' => 'qlo', 'QL03p033868' => 'qlo', 'QL04p046678' => 'qlo', 'QL06p002448' => 'qlo', 'RcHm_v2.0_Chr4g0416181' => 'rch', 'RcHm_v2.0_Chr5g0044701' => 'rch', 'RcHm_v2.0_Chr6g0265781' => 'rch', 'RcHm_v2.0_Chr7g0221031' => 'rch', 'Rhsim04G0202000' => 'rsi', 'Rhsim11G0127300' => 'rsi', 'Rhsim13G0111800' => 'rsi', 'Sabra01G0165600' => 'sbr', 'Sabra03G0008300' => 'sbr', 'Sabra04G0136900' => 'sbr', 'Sabra08G0013400' => 'sbr', 'Sabra08G0116800' => 'sbr', 'Sabra09G0128000' => 'sbr', 'Sabra10G0055500' => 'sbr', 'Sabra10G0073300' => 'sbr', 'SalBow3G0385' => 'sbo', 'SalBow3G1119' => 'sbo', 'SalBow3G2005' => 'sbo', 'SalBow6G2563' => 'sbo', 'SalBow6G6386' => 'sbo', 'Sc06g0008800' => 'sci', 'Sc07g0004950' => 'sci', 'Sc09g0005340' => 'sci', 'Sc13g0004410' => 'sci', 'Sc21g0007090' => 'sci', 'Sed0009285' => 'sed', 'Sed0017583' => 'sed', 'Sed0019699' => 'sed', 'Sed0023107' => 'sed', 'SEGI_10916' => 'sgi', 'SEGI_16217' => 'sgi', 'SEGI_19466' => 'sgi', 'SEGI_41115' => 'sgi', 'SGA_v2.0_scaffold111G31534' => 'sas', 'SGA_v2.0_scaffold22G09864' => 'sas', 'SGA_v2.0_scaffold338G49219' => 'sas', 'SGA_v2.0_scaffold92G28298' => 'sas', 'SMO119G0064' => 'smo', 'SMO223G0038' => 'smo', 'SMO347G0584' => 'smo', 'SMO351G0010' => 'smo', 'SMO356G0404' => 'smo', 'Solyc01g103920.3' => 'sly', 'Solyc04g009710.2' => 'sly', 'Solyc05g055280.2' => 'sly', 'Solyc10g044520.3' => 'sly', 'Solyc10g075160.1' => 'sly', 'Solyc11g006910.3' => 'sly', 'Solyc11g068430.3' => 'sly', 'Sopen01g046310' => 'spe', 'Sopen03g001200' => 'spe', 'Sopen04g004830' => 'spe', 'Sopen05g033720' => 'spe', 'Sopen06g030740' => 'spe', 'Sopen10g013090' => 'spe', 'Sopen10g027630' => 'spe', 'Sopen10g027640' => 'spe', 'Sopen11g002820' => 'spe', 'Sopen11g027140' => 'spe', 'Sp1g09680' => 'spa', 'Sp2g03630' => 'spa', 'Sp4g10320' => 'spa', 'Sp6g33400' => 'spa', 'Sp7g13030' => 'spa', 'TAR365G0317' => 'tar', 'TAR376G0979' => 'tar', 'TAR623G1665' => 'tar', 'TAR633G2373' => 'tar', 'TAR636G1400' => 'tar', 'THA.LOC104800529' => 'tha', 'THA.LOC104808547' => 'tha', 'THA.LOC104809615' => 'tha', 'THA.LOC104815724' => 'tha', 'THA.LOC104818480' => 'tha', 'THA.LOC104819179' => 'tha', 'THA.LOC104822270' => 'tha', 'THA.LOC104826425' => 'tha', 'Thecc.02G089700' => 'tca', 'Thecc.04G232300' => 'tca', 'Thecc.09G283400' => 'tca', 'Thhalv10009020m.g' => 'esa', 'Thhalv10015506m.g' => 'esa', 'Thhalv10017364m.g' => 'esa', 'Thhalv10023742m.g' => 'esa', 'Thhalv10026483m.g' => 'esa', 'TPR.G17232' => 'tpr', 'TPR.G2133' => 'tpr', 'TPR.G2498' => 'tpr', 'TPR.G31942' => 'tpr', 'TPR.G37877' => 'tpr', 'TPR.G4571' => 'tpr', 'TWI14G1113' => 'twi', 'TWI15G0426' => 'twi', 'TWI31G1005' => 'twi', 'TWI38G0513' => 'twi', 'TWI38G1484' => 'twi', 'TWI73G1098' => 'twi', 'unitig_26.g10519' => 'ugi', 'unitig_736.g22395' => 'ugi', 'unitig_747.g21234' => 'ugi', 'unitig_747.g21942' => 'ugi', 'vmacro14351' => 'vma', 'VMungo0540G0082' => 'vmu', 'VMungo0540G0405' => 'vmu', 'VMungo0540G1486' => 'vmu', 'VMungo0540G1692' => 'vmu', 'VMungo0720G2473' => 'vmu', 'VMungo1127G1562' => 'vmu', 'VMungo1215G1918' => 'vmu', 'Zm00001eb052650' => 'zma', 'Zm00001eb063710' => 'zma', 'Zm00001eb083950' => 'zma', 'Zm00001eb174420' => 'zma', 'Zm00001eb260140' => 'zma', 'Zm00001eb260150' => 'zma', 'Zm00001eb260160' => 'zma', 'Zm00001eb348290' => 'zma', 'Zm00001eb366870' => 'zma', 'Zm00001eb421930' => 'zma' ) $gf_id = 'HOM05D001025' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001025' ) $data_identifier = 'HOM05D001025' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 19, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 2, 'amhyb' => (int) 4, 'aly' => (int) 4, 'aox' => (int) 4, 'arhy' => (int) 3, 'ath' => (int) 5, 'atr' => (int) 4, 'acertr' => (int) 3, 'cqu' => (int) 7, 'bca' => (int) 17, 'bol' => (int) 10, 'bra' => (int) 9, 'can' => (int) 10, 'cansat' => (int) 6, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 5, 'cbr' => (int) 5, 'ccan' => (int) 5, 'cde' => (int) 4, 'cfa' => (int) 3, 'ccl' => (int) 6, 'cil' => (int) 4, 'cla' => (int) 3, 'col' => (int) 3, 'cpa' => (int) 3, 'cre' => (int) 7, 'csa' => (int) 5, 'camsi' => (int) 9, 'dca' => (int) 4, 'din' => (int) 5, 'dzi' => (int) 7, 'eca' => (int) 6, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 12, 'fve' => (int) 4, 'gma' => (int) 12, 'ghi' => (int) 17, 'gra' => (int) 9, 'vvi' => (int) 2, 'han' => (int) 8, 'cav' => (int) 5, 'hma' => (int) 9, 'vpl' => (int) 4, 'sun' => (int) 2, 'lal' => (int) 9, 'lja' => (int) 5, 'lonja' => (int) 6, 'lsa' => (int) 3, 'mes' => (int) 8, 'mpo' => (int) 3, 'mbi' => (int) 4, 'mco' => (int) 3, 'mdo' => (int) 5, 'mtr' => (int) 7, 'cme' => (int) 6, 'egut' => (int) 7, 'ama' => (int) 3, 'nta' => (int) 12, 'nnu' => (int) 9, 'oeu' => (int) 4, 'osa' => (int) 7, 'pax' => (int) 9, 'pgr' => (int) 5, 'stu' => (int) 8, 'pvu' => (int) 6, 'ptr' => (int) 9, 'ppa' => (int) 9, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 7, 'pso' => (int) 10, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 3, 'sbr' => (int) 8, 'sbo' => (int) 5, 'sci' => (int) 5, 'sed' => (int) 4, 'sgi' => (int) 4, 'sas' => (int) 4, 'smo' => (int) 5, 'sly' => (int) 7, 'spe' => (int) 10, 'spa' => (int) 5, 'tar' => (int) 5, 'tha' => (int) 8, 'tca' => (int) 3, 'esa' => (int) 5, 'tpr' => (int) 6, 'twi' => (int) 6, 'ugi' => (int) 4, 'vma' => (int) 1, 'vmu' => (int) 7, 'zma' => (int) 10 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb421930' $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' => 'HOM05D001025', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '592', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p22650' => 'bna', 'A01p29720' => 'bna', 'A03p26560' => 'bna', 'A03p68820' => 'bna', 'A04p20980' => 'bna', 'A06p07730' => 'bna', 'A07p18260' => 'bna', 'A08p33710' => 'bna', 'A09p16970' => 'bna', 'A10p27490' => 'bna', 'Aa31LG1G17300' => 'aar', 'Aa31LG1G3910' => 'aar', 'Aa31LG2G9630' => 'aar', 'Aa31LG5G8360' => 'aar', 'Aa31LG9G2410' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4699' => 'aag', 'Actinidia23512' => 'ach', 'Actinidia37080' => 'ach', 'Ah.01g020380' => 'amhyb', 'Ah.08g215710' => 'amhyb', 'Ah.09g225110' => 'amhyb', 'Ah.10g036680' => 'amhyb', 'AL1G21940' => 'aly', 'AL2G15540' => 'aly', 'AL4G21520' => 'aly', 'AL7G40960' => 'aly', 'Aqoxy2G01191' => 'aox', 'Aqoxy2G03393' => 'aox', 'Aqoxy4G02775' => 'aox', 'Aqoxy6G00058' => 'aox', 'arahy.Tifrunner.gnm1.ann1.9X74H2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CW3FX9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R485W7' => 'arhy', 'AT1G10960' => 'ath', 'AT1G60950' => 'ath', 'AT2G27510' => 'ath', 'AT4G14890' => 'ath', 'AT5G10000' => 'ath', 'ATR0665G624' => 'atr', 'ATR0697G138' => 'atr', 'ATR0776G046' => 'atr', 'ATR1134G135' => 'atr', 'Atru.chr12.1025' => 'acertr', 'Atru.chr3.3241' => 'acertr', 'Atru.chr4.2460' => 'acertr', 'AUR62007427' => 'cqu', 'AUR62010960' => 'cqu', 'AUR62012201' => 'cqu', 'AUR62021470' => 'cqu', 'AUR62022834' => 'cqu', 'AUR62033635' => 'cqu', 'AUR62036186' => 'cqu', 'BcaB01g03077' => 'bca', 'BcaB02g10093' => 'bca', 'BcaB04g20295' => 'bca', 'BcaB06g28147' => 'bca', 'BcaB07g31253' => 'bca', 'BcaC01g04946' => 'bca', 'BcaC02g10614' => 'bca', 'BcaC02g10885' => 'bca', 'BcaC04g19356' => 'bca', 'BcaC04g22297' => 'bca', 'BcaC05g24977' => 'bca', 'BcaC06g31823' => 'bca', 'BcaC07g38633' => 'bca', 'BcaC09g49353' => 'bca', 'BcaC09g50168' => 'bca', 'BcaNung00322' => 'bca', 'BcaNung04769' => 'bca', 'BolC1t02753H' => 'bol', 'BolC1t03721H' => 'bol', 'BolC3t15525H' => 'bol', 'BolC4t23903H' => 'bol', 'BolC4t24231H' => 'bol', 'BolC4t27209H' => 'bol', 'BolC5t29671H' => 'bol', 'BolC8t49044H' => 'bol', 'BolC9t54999H' => 'bol', 'BolC9t59517H' => 'bol', 'BraA01t02178Z' => 'bra', 'BraA01t03099Z' => 'bra', 'BraA03t11867Z' => 'bra', 'BraA04t17667Z' => 'bra', 'BraA07t29542Z' => 'bra', 'BraA08t35287Z' => 'bra', 'BraA09t37334Z' => 'bra', 'BraA10t44801Z' => 'bra', 'BraSC39t46181Z' => 'bra', 'C01p28240' => 'bna', 'C01p37530' => 'bna', 'C03p31820' => 'bna', 'C04p24080' => 'bna', 'C04p25790' => 'bna', 'C04p56770' => 'bna', 'C05p09310' => 'bna', 'C09p21010' => 'bna', 'C09p67560' => 'bna', 'CAN.G1324.7' => 'can', 'CAN.G1358.10' => 'can', 'CAN.G1550.2' => 'can', 'CAN.G186.56' => 'can', 'CAN.G1965.1' => 'can', 'CAN.G645.15' => 'can', 'CAN.G798.26' => 'can', 'CAN.G798.27' => 'can', 'CAN.G798.29' => 'can', 'CAN.G919.31' => 'can', 'CANSAT11G0133' => 'cansat', 'CANSAT11G1171' => 'cansat', 'CANSAT11G2056' => 'cansat', 'CANSAT56G1202' => 'cansat', 'CANSAT56G1514' => 'cansat', 'CANSAT78G0455' => 'cansat', 'CARHR011190' => 'chi', 'CARHR051980' => 'chi', 'CARHR120170' => 'chi', 'CARHR203310' => 'chi', 'CARHR221490' => 'chi', 'Carub.0001s1054' => 'cru', 'Carub.0002s0431' => 'cru', 'Carub.0004s0818' => 'cru', 'Carub.0006s0846' => 'cru', 'Carub.0007s2722' => 'cru', 'Ca_00058_v3' => 'car', 'Ca_17831_v3' => 'car', 'Ca_19408_v3' => 'car', 'Ca_24397_v3' => 'car', 'Ca_25664_v3' => 'car', 'CBR_g21818' => 'cbr', 'CBR_g31195' => 'cbr', 'CBR_g32282' => 'cbr', 'CBR_g39599' => 'cbr', 'CBR_g49410' => 'cbr', 'Cc01_g09120' => 'ccan', 'Cc01_g09130' => 'ccan', 'Cc02_g09630' => 'ccan', 'Cc02_g22810' => 'ccan', 'Cc03_g03810' => 'ccan', 'CDE02G3718' => 'cde', 'CDE04G3183' => 'cde', 'CDE07G1046' => 'cde', 'CDE08G0480' => 'cde', 'Cfa005493' => 'cfa', 'Cfa010312' => 'cfa', 'Cfa015648' => 'cfa', 'Ciclev10002793m.g' => 'ccl', 'Ciclev10003356m.g' => 'ccl', 'Ciclev10006141m.g' => 'ccl', 'Ciclev10016676m.g' => 'ccl', 'Ciclev10017081m.g' => 'ccl', 'Ciclev10029499m.g' => 'ccl', 'CiPaw.01G166300' => 'cil', 'CiPaw.06G145600' => 'cil', 'CiPaw.13G040100' => 'cil', 'CiPaw.13G135800' => 'cil', 'ClCG01G012230' => 'cla', 'ClCG05G009510' => 'cla', 'ClCG08G008270' => 'cla', 'COL.COLO4_11763' => 'col', 'COL.COLO4_19876' => 'col', 'COL.COLO4_21481' => 'col', 'Cpa.g.sc118.34' => 'cpa', 'Cpa.g.sc32.13' => 'cpa', 'Cpa.g.sc58.103' => 'cpa', 'Cre03.g183850' => 'cre', 'Cre06.g306350' => 'cre', 'Cre07.g334800' => 'cre', 'Cre12.g487900' => 'cre', 'Cre14.g626700' => 'cre', 'Cre16.g658400' => 'cre', 'Cre17.g700950' => 'cre', 'CsaV3_1G014830' => 'csa', 'CsaV3_3G013320' => 'csa', 'CsaV3_3G019210' => 'csa', 'CsaV3_3G019220' => 'csa', 'CsaV3_6G004230' => 'csa', 'CSS0003773' => 'camsi', 'CSS0004563' => 'camsi', 'CSS0013949' => 'camsi', 'CSS0025971' => 'camsi', 'CSS0028570' => 'camsi', 'CSS0033127' => 'camsi', 'CSS0036051' => 'camsi', 'CSS0040087' => 'camsi', 'CSS0043179' => 'camsi', 'DCAR_006161' => 'dca', 'DCAR_010351' => 'dca', 'DCAR_012197' => 'dca', 'DCAR_024162' => 'dca', 'Dinv01030' => 'din', 'Dinv10924' => 'din', 'Dinv11835' => 'din', 'Dinv22841' => 'din', 'Dinv42553' => 'din', 'Duzib052G0560' => 'dzi', 'Duzib132G0389' => 'dzi', 'Duzib150G1181' => 'dzi', 'Duzib168G0623' => 'dzi', 'Duzib170G1036' => 'dzi', 'Duzib212G0200' => 'dzi', 'Duzib248G0194' => 'dzi', 'ECA232G2193' => 'eca', 'ECA233G0302' => 'eca', 'ECA234G2813' => 'eca', 'ECA234G4866' => 'eca', 'ECA240G3932' => 'eca', 'ECA248G0385' => 'eca', 'EL10Ac2g04781' => 'bvu', 'EL10Ac3g06445' => 'bvu', 'EL10Ac7g15825' => 'bvu', 'EL10Ac8g18550' => 'bvu', 'Eucgr.B03849' => 'egr', 'Eucgr.I02744' => 'egr', 'Eucgr.J00264' => 'egr', 'Eucgr.J00493' => 'egr', 'FAN04G2181' => 'fan', 'FAN07G2666' => 'fan', 'FAN11G0024' => 'fan', 'FAN12G1105' => 'fan', 'FAN13G0302' => 'fan', 'FAN15G2781' => 'fan', 'FAN16G1274' => 'fan', 'FAN17G2988' => 'fan', 'FAN18G2621' => 'fan', 'FAN21G0013' => 'fan', 'FAN22G1211' => 'fan', 'FAN25G3626' => 'fan', 'FvH4_2g09491' => 'fve', 'FvH4_3g24910' => 'fve', 'FvH4_4g15630' => 'fve', 'FvH4_5g28820' => 'fve', 'Glyma.01G238000' => 'gma', 'Glyma.05G168400' => 'gma', 'Glyma.08G126800' => 'gma', 'Glyma.08G188500' => 'gma', 'Glyma.10G278900' => 'gma', 'Glyma.11G005700' => 'gma', 'Glyma.11G183300' => 'gma', 'Glyma.12G089200' => 'gma', 'Glyma.12G169400' => 'gma', 'Glyma.12G169500' => 'gma', 'Glyma.12G169600' => 'gma', 'Glyma.20G110800' => 'gma', 'Gohir.A03G192900' => 'ghi', 'Gohir.A03G193000' => 'ghi', 'Gohir.A05G080700' => 'ghi', 'Gohir.A09G216000' => 'ghi', 'Gohir.A12G027700' => 'ghi', 'Gohir.A13G036200' => 'ghi', 'Gohir.A13G222600' => 'ghi', 'Gohir.D02G213900' => 'ghi', 'Gohir.D02G214000' => 'ghi', 'Gohir.D05G083700' => 'ghi', 'Gohir.D05G083800' => 'ghi', 'Gohir.D05G083850' => 'ghi', 'Gohir.D08G015400' => 'ghi', 'Gohir.D09G218400' => 'ghi', 'Gohir.D12G027100' => 'ghi', 'Gohir.D13G034500' => 'ghi', 'Gohir.D13G227400' => 'ghi', 'Gorai.005G241800' => 'gra', 'Gorai.005G241900' => 'gra', 'Gorai.006G239400' => 'gra', 'Gorai.008G027600' => 'gra', 'Gorai.009G085400' => 'gra', 'Gorai.009G085500' => 'gra', 'Gorai.013G039000' => 'gra', 'Gorai.013G194800' => 'gra', 'Gorai.013G257900' => 'gra', 'GSVIVG01000982001' => 'vvi', 'GSVIVG01017981001' => 'vvi', 'HanXRQChr01g0024061' => 'han', 'HanXRQChr09g0247831' => 'han', 'HanXRQChr10g0294611' => 'han', 'HanXRQChr10g0294621' => 'han', 'HanXRQChr11g0346821' => 'han', 'HanXRQChr13g0397461' => 'han', 'HanXRQChr16g0513651' => 'han', 'HanXRQChr16g0513701' => 'han', 'Haze_00897' => 'cav', 'Haze_01745' => 'cav', 'Haze_02486' => 'cav', 'Haze_02487' => 'cav', 'Haze_23374' => 'cav', 'Hma1.2p1_0578F.1_g182520' => 'hma', 'Hma1.2p1_0602F.1_g187350' => 'hma', 'Hma1.2p1_0602F.1_g187360' => 'hma', 'Hma1.2p1_0874F.1_g231320' => 'hma', 'Hma1.2p1_1197F.1_g266210' => 'hma', 'Hma1.2p1_1197F.1_g266220' => 'hma', 'Hma1.2p1_2167F.1_g315895' => 'hma', 'Hma1.2p1_2190F.1_g316640' => 'hma', 'Hma1.2p1_3645F.1_g337153' => 'hma', 'HPP92_004907' => 'vpl', 'HPP92_012134' => 'vpl', 'HPP92_025136' => 'vpl', 'HPP92_026087' => 'vpl', 'Hund06782' => 'sun', 'Hund06784' => 'sun', 'Lalb_Chr01g0004861' => 'lal', 'Lalb_Chr02g0140591' => 'lal', 'Lalb_Chr02g0140611' => 'lal', 'Lalb_Chr03g0028101' => 'lal', 'Lalb_Chr07g0185791' => 'lal', 'Lalb_Chr12g0204491' => 'lal', 'Lalb_Chr13g0295671' => 'lal', 'Lalb_Chr19g0136461' => 'lal', 'Lalb_Chr21g0309191' => 'lal', 'Lj1g0028158' => 'lja', 'Lj1P236T38' => 'lonja', 'Lj2C32G2' => 'lonja', 'Lj2P944T8' => 'lonja', 'Lj2P963T15' => 'lonja', 'Lj3g0011788' => 'lja', 'Lj4g0025027' => 'lja', 'Lj5P255T36' => 'lonja', 'Lj6g0018866' => 'lja', 'Lj6P608T31' => 'lonja', 'LjContig00408g0008879' => 'lja', 'Lsat_1_v5_gn_5_105820' => 'lsa', 'Lsat_1_v5_gn_6_38800' => 'lsa', 'Lsat_1_v5_gn_7_67141' => 'lsa', 'Manes.04G003400' => 'mes', 'Manes.07G020000' => 'mes', 'Manes.07G020100' => 'mes', 'Manes.07G020150' => 'mes', 'Manes.10G061500' => 'mes', 'Manes.10G123200' => 'mes', 'Manes.11G161900' => 'mes', 'Manes.15G029300' => 'mes', 'Mapoly0071s0018' => 'mpo', 'Mapoly0082s0023' => 'mpo', 'Mapoly3477s0001' => 'mpo', 'MBI05_g31233_MAGBIO' => 'mbi', 'MBI09_g05946_MAGBIO' => 'mbi', 'MBI09_g05947_MAGBIO' => 'mbi', 'MBI17_g08346_MAGBIO' => 'mbi', 'MCO04G038' => 'mco', 'MCO09G370' => 'mco', 'MCO13G605' => 'mco', 'MD00G1075500' => 'mdo', 'MD03G1144300' => 'mdo', 'MD08G1236800' => 'mdo', 'MD13G1193300' => 'mdo', 'MD15G1428700' => 'mdo', 'Medtr1g112030' => 'mtr', 'Medtr1g112050' => 'mtr', 'Medtr2g006290' => 'mtr', 'Medtr2g086510' => 'mtr', 'Medtr4g053120' => 'mtr', 'Medtr5g006320' => 'mtr', 'Medtr8g088720' => 'mtr', 'MELO3C004712.2' => 'cme', 'MELO3C006533.2' => 'cme', 'MELO3C019438.2' => 'cme', 'MELO3C019440.2' => 'cme', 'MELO3C019441.2' => 'cme', 'MELO3C019895.2' => 'cme', 'Migut.B00811' => 'egut', 'Migut.D02447' => 'egut', 'Migut.F00875' => 'egut', 'Migut.N00186' => 'egut', 'Migut.N01051' => 'egut', 'Migut.N02491' => 'egut', 'Migut.O00784' => 'egut', 'MSTRG.12367' => 'ama', 'MSTRG.18756' => 'ama', 'MSTRG.21042' => 'ama', 'Nitab4.5_0000559g0040' => 'nta', 'Nitab4.5_0000667g0190' => 'nta', 'Nitab4.5_0000755g0160' => 'nta', 'Nitab4.5_0001216g0080' => 'nta', 'Nitab4.5_0004069g0040' => 'nta', 'Nitab4.5_0004129g0010' => 'nta', 'Nitab4.5_0005744g0030' => 'nta', 'Nitab4.5_0006996g0030' => 'nta', 'Nitab4.5_0008971g0040' => 'nta', 'Nitab4.5_0009769g0020' => 'nta', 'Nitab4.5_0009833g0010' => 'nta', 'Nitab4.5_0013140g0020' => 'nta', 'Nn003s41376' => 'nnu', 'Nn1g01857' => 'nnu', 'Nn1g03611' => 'nnu', 'Nn1g06853' => 'nnu', 'Nn3g18360' => 'nnu', 'Nn4g26328' => 'nnu', 'Nn5g27531' => 'nnu', 'Nn6g34899' => 'nnu', 'Nn7g36299' => 'nnu', 'Oeu021485.1' => 'oeu', 'Oeu022433.1' => 'oeu', 'Oeu032111.1' => 'oeu', 'Oeu051608.1' => 'oeu', 'Os01g0860601' => 'osa', 'Os03g0659200' => 'osa', 'Os03g0835900' => 'osa', 'Os04g0412200' => 'osa', 'Os05g0443500' => 'osa', 'Os07g0251500' => 'osa', 'Os08g0104600' => 'osa', 'Peaxi162Scf00003g00047' => 'pax', 'Peaxi162Scf00003g00052' => 'pax', 'Peaxi162Scf00003g00394' => 'pax', 'Peaxi162Scf00091g00621' => 'pax', 'Peaxi162Scf00152g00146' => 'pax', 'Peaxi162Scf00173g00025' => 'pax', 'Peaxi162Scf00195g00102' => 'pax', 'Peaxi162Scf00402g00013' => 'pax', 'Peaxi162Scf00519g00618' => 'pax', 'PGR004G2838' => 'pgr', 'PGR044G2275' => 'pgr', 'PGR102G1377' => 'pgr', 'PGR119G1245' => 'pgr', 'PGR142G4449' => 'pgr', 'PGSC0003DMG400004532' => 'stu', 'PGSC0003DMG400011950' => 'stu', 'PGSC0003DMG400023391' => 'stu', 'PGSC0003DMG400023985' => 'stu', 'PGSC0003DMG400026360' => 'stu', 'PGSC0003DMG400035711' => 'stu', 'PGSC0003DMG400037286' => 'stu', 'PGSC0003DMG402005881' => 'stu', 'Phvul.002G045400' => 'pvu', 'Phvul.006G216600' => 'pvu', 'Phvul.006G216700' => 'pvu', 'Phvul.006G216800' => 'pvu', 'Phvul.007G022500' => 'pvu', 'Phvul.011G094400' => 'pvu', 'Potri.001G470700' => 'ptr', 'Potri.003G015200' => 'ptr', 'Potri.004G202500' => 'ptr', 'Potri.004G218400' => 'ptr', 'Potri.008G020100' => 'ptr', 'Potri.008G153200' => 'ptr', 'Potri.009G163800' => 'ptr', 'Potri.010G087300' => 'ptr', 'Potri.010G239100' => 'ptr', 'Pp3c10_16100' => 'ppa', 'Pp3c10_16880' => 'ppa', 'Pp3c16_6230' => 'ppa', 'Pp3c17_18910' => 'ppa', 'Pp3c3_22119' => 'ppa', 'Pp3c3_22140' => 'ppa', 'Pp3c4_8159' => 'ppa', 'Pp3c4_8171' => 'ppa', 'Pp3c4_8330' => 'ppa', 'PRCOL_00004098' => 'pco', 'Prupe.1G013900' => 'ppe', 'Prupe.1G226300' => 'ppe', 'Prupe.1G573600' => 'ppe', 'Prupe.6G130100' => 'ppe', 'Psat3g090040' => 'psa', 'Psat4g210440' => 'psa', 'Psat6g231040' => 'psa', 'Psat6g231080' => 'psa', 'Psat7g063000' => 'psa', 'Psat7g188000' => 'psa', 'Psat7g188040' => 'psa', 'PSO017G0206' => 'pso', 'PSO170G0501' => 'pso', 'PSO170G6422' => 'pso', 'PSO210G7739' => 'pso', 'PSO339G1808' => 'pso', 'PSO339G6135' => 'pso', 'PSO384G0010' => 'pso', 'PSO384G0964' => 'pso', 'PSO761G0050' => 'pso', 'PSO782G4085' => 'pso', 'QL01p012264' => 'qlo', 'QL02p099491' => 'qlo', 'QL03p033868' => 'qlo', 'QL04p046678' => 'qlo', 'QL06p002448' => 'qlo', 'RcHm_v2.0_Chr4g0416181' => 'rch', 'RcHm_v2.0_Chr5g0044701' => 'rch', 'RcHm_v2.0_Chr6g0265781' => 'rch', 'RcHm_v2.0_Chr7g0221031' => 'rch', 'Rhsim04G0202000' => 'rsi', 'Rhsim11G0127300' => 'rsi', 'Rhsim13G0111800' => 'rsi', 'Sabra01G0165600' => 'sbr', 'Sabra03G0008300' => 'sbr', 'Sabra04G0136900' => 'sbr', 'Sabra08G0013400' => 'sbr', 'Sabra08G0116800' => 'sbr', 'Sabra09G0128000' => 'sbr', 'Sabra10G0055500' => 'sbr', 'Sabra10G0073300' => 'sbr', 'SalBow3G0385' => 'sbo', 'SalBow3G1119' => 'sbo', 'SalBow3G2005' => 'sbo', 'SalBow6G2563' => 'sbo', 'SalBow6G6386' => 'sbo', 'Sc06g0008800' => 'sci', 'Sc07g0004950' => 'sci', 'Sc09g0005340' => 'sci', 'Sc13g0004410' => 'sci', 'Sc21g0007090' => 'sci', 'Sed0009285' => 'sed', 'Sed0017583' => 'sed', 'Sed0019699' => 'sed', 'Sed0023107' => 'sed', 'SEGI_10916' => 'sgi', 'SEGI_16217' => 'sgi', 'SEGI_19466' => 'sgi', 'SEGI_41115' => 'sgi', 'SGA_v2.0_scaffold111G31534' => 'sas', 'SGA_v2.0_scaffold22G09864' => 'sas', 'SGA_v2.0_scaffold338G49219' => 'sas', 'SGA_v2.0_scaffold92G28298' => 'sas', 'SMO119G0064' => 'smo', 'SMO223G0038' => 'smo', 'SMO347G0584' => 'smo', 'SMO351G0010' => 'smo', 'SMO356G0404' => 'smo', 'Solyc01g103920.3' => 'sly', 'Solyc04g009710.2' => 'sly', 'Solyc05g055280.2' => 'sly', 'Solyc10g044520.3' => 'sly', 'Solyc10g075160.1' => 'sly', 'Solyc11g006910.3' => 'sly', 'Solyc11g068430.3' => 'sly', 'Sopen01g046310' => 'spe', 'Sopen03g001200' => 'spe', 'Sopen04g004830' => 'spe', 'Sopen05g033720' => 'spe', 'Sopen06g030740' => 'spe', 'Sopen10g013090' => 'spe', 'Sopen10g027630' => 'spe', 'Sopen10g027640' => 'spe', 'Sopen11g002820' => 'spe', 'Sopen11g027140' => 'spe', 'Sp1g09680' => 'spa', 'Sp2g03630' => 'spa', 'Sp4g10320' => 'spa', 'Sp6g33400' => 'spa', 'Sp7g13030' => 'spa', 'TAR365G0317' => 'tar', 'TAR376G0979' => 'tar', 'TAR623G1665' => 'tar', 'TAR633G2373' => 'tar', 'TAR636G1400' => 'tar', 'THA.LOC104800529' => 'tha', 'THA.LOC104808547' => 'tha', 'THA.LOC104809615' => 'tha', 'THA.LOC104815724' => 'tha', 'THA.LOC104818480' => 'tha', 'THA.LOC104819179' => 'tha', 'THA.LOC104822270' => 'tha', 'THA.LOC104826425' => 'tha', 'Thecc.02G089700' => 'tca', 'Thecc.04G232300' => 'tca', 'Thecc.09G283400' => 'tca', 'Thhalv10009020m.g' => 'esa', 'Thhalv10015506m.g' => 'esa', 'Thhalv10017364m.g' => 'esa', 'Thhalv10023742m.g' => 'esa', 'Thhalv10026483m.g' => 'esa', 'TPR.G17232' => 'tpr', 'TPR.G2133' => 'tpr', 'TPR.G2498' => 'tpr', 'TPR.G31942' => 'tpr', 'TPR.G37877' => 'tpr', 'TPR.G4571' => 'tpr', 'TWI14G1113' => 'twi', 'TWI15G0426' => 'twi', 'TWI31G1005' => 'twi', 'TWI38G0513' => 'twi', 'TWI38G1484' => 'twi', 'TWI73G1098' => 'twi', 'unitig_26.g10519' => 'ugi', 'unitig_736.g22395' => 'ugi', 'unitig_747.g21234' => 'ugi', 'unitig_747.g21942' => 'ugi', 'vmacro14351' => 'vma', 'VMungo0540G0082' => 'vmu', 'VMungo0540G0405' => 'vmu', 'VMungo0540G1486' => 'vmu', 'VMungo0540G1692' => 'vmu', 'VMungo0720G2473' => 'vmu', 'VMungo1127G1562' => 'vmu', 'VMungo1215G1918' => 'vmu', 'Zm00001eb052650' => 'zma', 'Zm00001eb063710' => 'zma', 'Zm00001eb083950' => 'zma', 'Zm00001eb174420' => 'zma', 'Zm00001eb260140' => 'zma', 'Zm00001eb260150' => 'zma', 'Zm00001eb260160' => 'zma', 'Zm00001eb348290' => 'zma', 'Zm00001eb366870' => 'zma', 'Zm00001eb421930' => 'zma' ), 'gf_id' => 'HOM05D001025', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001025' ), 'data_identifier' => 'HOM05D001025', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001025', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '592', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p22650' => 'bna', 'A01p29720' => 'bna', 'A03p26560' => 'bna', 'A03p68820' => 'bna', 'A04p20980' => 'bna', 'A06p07730' => 'bna', 'A07p18260' => 'bna', 'A08p33710' => 'bna', 'A09p16970' => 'bna', 'A10p27490' => 'bna', 'Aa31LG1G17300' => 'aar', 'Aa31LG1G3910' => 'aar', 'Aa31LG2G9630' => 'aar', 'Aa31LG5G8360' => 'aar', 'Aa31LG9G2410' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4699' => 'aag', 'Actinidia23512' => 'ach', 'Actinidia37080' => 'ach', 'Ah.01g020380' => 'amhyb', 'Ah.08g215710' => 'amhyb', 'Ah.09g225110' => 'amhyb', 'Ah.10g036680' => 'amhyb', 'AL1G21940' => 'aly', 'AL2G15540' => 'aly', 'AL4G21520' => 'aly', 'AL7G40960' => 'aly', 'Aqoxy2G01191' => 'aox', 'Aqoxy2G03393' => 'aox', 'Aqoxy4G02775' => 'aox', 'Aqoxy6G00058' => 'aox', 'arahy.Tifrunner.gnm1.ann1.9X74H2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CW3FX9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R485W7' => 'arhy', 'AT1G10960' => 'ath', 'AT1G60950' => 'ath', 'AT2G27510' => 'ath', 'AT4G14890' => 'ath', 'AT5G10000' => 'ath', 'ATR0665G624' => 'atr', 'ATR0697G138' => 'atr', 'ATR0776G046' => 'atr', 'ATR1134G135' => 'atr', 'Atru.chr12.1025' => 'acertr', 'Atru.chr3.3241' => 'acertr', 'Atru.chr4.2460' => 'acertr', 'AUR62007427' => 'cqu', 'AUR62010960' => 'cqu', 'AUR62012201' => 'cqu', 'AUR62021470' => 'cqu', 'AUR62022834' => 'cqu', 'AUR62033635' => 'cqu', 'AUR62036186' => 'cqu', 'BcaB01g03077' => 'bca', 'BcaB02g10093' => 'bca', 'BcaB04g20295' => 'bca', 'BcaB06g28147' => 'bca', 'BcaB07g31253' => 'bca', 'BcaC01g04946' => 'bca', 'BcaC02g10614' => 'bca', 'BcaC02g10885' => 'bca', 'BcaC04g19356' => 'bca', 'BcaC04g22297' => 'bca', 'BcaC05g24977' => 'bca', 'BcaC06g31823' => 'bca', 'BcaC07g38633' => 'bca', 'BcaC09g49353' => 'bca', 'BcaC09g50168' => 'bca', 'BcaNung00322' => 'bca', 'BcaNung04769' => 'bca', 'BolC1t02753H' => 'bol', 'BolC1t03721H' => 'bol', 'BolC3t15525H' => 'bol', 'BolC4t23903H' => 'bol', 'BolC4t24231H' => 'bol', 'BolC4t27209H' => 'bol', 'BolC5t29671H' => 'bol', 'BolC8t49044H' => 'bol', 'BolC9t54999H' => 'bol', 'BolC9t59517H' => 'bol', 'BraA01t02178Z' => 'bra', 'BraA01t03099Z' => 'bra', 'BraA03t11867Z' => 'bra', 'BraA04t17667Z' => 'bra', 'BraA07t29542Z' => 'bra', 'BraA08t35287Z' => 'bra', 'BraA09t37334Z' => 'bra', 'BraA10t44801Z' => 'bra', 'BraSC39t46181Z' => 'bra', 'C01p28240' => 'bna', 'C01p37530' => 'bna', 'C03p31820' => 'bna', 'C04p24080' => 'bna', 'C04p25790' => 'bna', 'C04p56770' => 'bna', 'C05p09310' => 'bna', 'C09p21010' => 'bna', 'C09p67560' => 'bna', 'CAN.G1324.7' => 'can', 'CAN.G1358.10' => 'can', 'CAN.G1550.2' => 'can', 'CAN.G186.56' => 'can', 'CAN.G1965.1' => 'can', 'CAN.G645.15' => 'can', 'CAN.G798.26' => 'can', 'CAN.G798.27' => 'can', 'CAN.G798.29' => 'can', 'CAN.G919.31' => 'can', 'CANSAT11G0133' => 'cansat', 'CANSAT11G1171' => 'cansat', 'CANSAT11G2056' => 'cansat', 'CANSAT56G1202' => 'cansat', 'CANSAT56G1514' => 'cansat', 'CANSAT78G0455' => 'cansat', 'CARHR011190' => 'chi', 'CARHR051980' => 'chi', 'CARHR120170' => 'chi', 'CARHR203310' => 'chi', 'CARHR221490' => 'chi', 'Carub.0001s1054' => 'cru', 'Carub.0002s0431' => 'cru', 'Carub.0004s0818' => 'cru', 'Carub.0006s0846' => 'cru', 'Carub.0007s2722' => 'cru', 'Ca_00058_v3' => 'car', 'Ca_17831_v3' => 'car', 'Ca_19408_v3' => 'car', 'Ca_24397_v3' => 'car', 'Ca_25664_v3' => 'car', 'CBR_g21818' => 'cbr', 'CBR_g31195' => 'cbr', 'CBR_g32282' => 'cbr', 'CBR_g39599' => 'cbr', 'CBR_g49410' => 'cbr', 'Cc01_g09120' => 'ccan', 'Cc01_g09130' => 'ccan', 'Cc02_g09630' => 'ccan', 'Cc02_g22810' => 'ccan', 'Cc03_g03810' => 'ccan', 'CDE02G3718' => 'cde', 'CDE04G3183' => 'cde', 'CDE07G1046' => 'cde', 'CDE08G0480' => 'cde', 'Cfa005493' => 'cfa', 'Cfa010312' => 'cfa', 'Cfa015648' => 'cfa', 'Ciclev10002793m.g' => 'ccl', 'Ciclev10003356m.g' => 'ccl', 'Ciclev10006141m.g' => 'ccl', 'Ciclev10016676m.g' => 'ccl', 'Ciclev10017081m.g' => 'ccl', 'Ciclev10029499m.g' => 'ccl', 'CiPaw.01G166300' => 'cil', 'CiPaw.06G145600' => 'cil', 'CiPaw.13G040100' => 'cil', 'CiPaw.13G135800' => 'cil', 'ClCG01G012230' => 'cla', 'ClCG05G009510' => 'cla', 'ClCG08G008270' => 'cla', 'COL.COLO4_11763' => 'col', 'COL.COLO4_19876' => 'col', 'COL.COLO4_21481' => 'col', 'Cpa.g.sc118.34' => 'cpa', 'Cpa.g.sc32.13' => 'cpa', 'Cpa.g.sc58.103' => 'cpa', 'Cre03.g183850' => 'cre', 'Cre06.g306350' => 'cre', 'Cre07.g334800' => 'cre', 'Cre12.g487900' => 'cre', 'Cre14.g626700' => 'cre', 'Cre16.g658400' => 'cre', 'Cre17.g700950' => 'cre', 'CsaV3_1G014830' => 'csa', 'CsaV3_3G013320' => 'csa', 'CsaV3_3G019210' => 'csa', 'CsaV3_3G019220' => 'csa', 'CsaV3_6G004230' => 'csa', 'CSS0003773' => 'camsi', 'CSS0004563' => 'camsi', 'CSS0013949' => 'camsi', 'CSS0025971' => 'camsi', 'CSS0028570' => 'camsi', 'CSS0033127' => 'camsi', 'CSS0036051' => 'camsi', 'CSS0040087' => 'camsi', 'CSS0043179' => 'camsi', 'DCAR_006161' => 'dca', 'DCAR_010351' => 'dca', 'DCAR_012197' => 'dca', 'DCAR_024162' => 'dca', 'Dinv01030' => 'din', 'Dinv10924' => 'din', 'Dinv11835' => 'din', 'Dinv22841' => 'din', 'Dinv42553' => 'din', 'Duzib052G0560' => 'dzi', 'Duzib132G0389' => 'dzi', 'Duzib150G1181' => 'dzi', 'Duzib168G0623' => 'dzi', 'Duzib170G1036' => 'dzi', 'Duzib212G0200' => 'dzi', 'Duzib248G0194' => 'dzi', 'ECA232G2193' => 'eca', 'ECA233G0302' => 'eca', 'ECA234G2813' => 'eca', 'ECA234G4866' => 'eca', 'ECA240G3932' => 'eca', 'ECA248G0385' => 'eca', 'EL10Ac2g04781' => 'bvu', 'EL10Ac3g06445' => 'bvu', 'EL10Ac7g15825' => 'bvu', 'EL10Ac8g18550' => 'bvu', 'Eucgr.B03849' => 'egr', 'Eucgr.I02744' => 'egr', 'Eucgr.J00264' => 'egr', 'Eucgr.J00493' => 'egr', 'FAN04G2181' => 'fan', 'FAN07G2666' => 'fan', 'FAN11G0024' => 'fan', 'FAN12G1105' => 'fan', 'FAN13G0302' => 'fan', 'FAN15G2781' => 'fan', 'FAN16G1274' => 'fan', 'FAN17G2988' => 'fan', 'FAN18G2621' => 'fan', 'FAN21G0013' => 'fan', 'FAN22G1211' => 'fan', 'FAN25G3626' => 'fan', 'FvH4_2g09491' => 'fve', 'FvH4_3g24910' => 'fve', 'FvH4_4g15630' => 'fve', 'FvH4_5g28820' => 'fve', 'Glyma.01G238000' => 'gma', 'Glyma.05G168400' => 'gma', 'Glyma.08G126800' => 'gma', 'Glyma.08G188500' => 'gma', 'Glyma.10G278900' => 'gma', 'Glyma.11G005700' => 'gma', 'Glyma.11G183300' => 'gma', 'Glyma.12G089200' => 'gma', 'Glyma.12G169400' => 'gma', 'Glyma.12G169500' => 'gma', 'Glyma.12G169600' => 'gma', 'Glyma.20G110800' => 'gma', 'Gohir.A03G192900' => 'ghi', 'Gohir.A03G193000' => 'ghi', 'Gohir.A05G080700' => 'ghi', 'Gohir.A09G216000' => 'ghi', 'Gohir.A12G027700' => 'ghi', 'Gohir.A13G036200' => 'ghi', 'Gohir.A13G222600' => 'ghi', 'Gohir.D02G213900' => 'ghi', 'Gohir.D02G214000' => 'ghi', 'Gohir.D05G083700' => 'ghi', 'Gohir.D05G083800' => 'ghi', 'Gohir.D05G083850' => 'ghi', 'Gohir.D08G015400' => 'ghi', 'Gohir.D09G218400' => 'ghi', 'Gohir.D12G027100' => 'ghi', 'Gohir.D13G034500' => 'ghi', 'Gohir.D13G227400' => 'ghi', 'Gorai.005G241800' => 'gra', 'Gorai.005G241900' => 'gra', 'Gorai.006G239400' => 'gra', 'Gorai.008G027600' => 'gra', 'Gorai.009G085400' => 'gra', 'Gorai.009G085500' => 'gra', 'Gorai.013G039000' => 'gra', 'Gorai.013G194800' => 'gra', 'Gorai.013G257900' => 'gra', 'GSVIVG01000982001' => 'vvi', 'GSVIVG01017981001' => 'vvi', 'HanXRQChr01g0024061' => 'han', 'HanXRQChr09g0247831' => 'han', 'HanXRQChr10g0294611' => 'han', 'HanXRQChr10g0294621' => 'han', 'HanXRQChr11g0346821' => 'han', 'HanXRQChr13g0397461' => 'han', 'HanXRQChr16g0513651' => 'han', 'HanXRQChr16g0513701' => 'han', 'Haze_00897' => 'cav', 'Haze_01745' => 'cav', 'Haze_02486' => 'cav', 'Haze_02487' => 'cav', 'Haze_23374' => 'cav', 'Hma1.2p1_0578F.1_g182520' => 'hma', 'Hma1.2p1_0602F.1_g187350' => 'hma', 'Hma1.2p1_0602F.1_g187360' => 'hma', 'Hma1.2p1_0874F.1_g231320' => 'hma', 'Hma1.2p1_1197F.1_g266210' => 'hma', 'Hma1.2p1_1197F.1_g266220' => 'hma', 'Hma1.2p1_2167F.1_g315895' => 'hma', 'Hma1.2p1_2190F.1_g316640' => 'hma', 'Hma1.2p1_3645F.1_g337153' => 'hma', 'HPP92_004907' => 'vpl', 'HPP92_012134' => 'vpl', 'HPP92_025136' => 'vpl', 'HPP92_026087' => 'vpl', 'Hund06782' => 'sun', 'Hund06784' => 'sun', 'Lalb_Chr01g0004861' => 'lal', 'Lalb_Chr02g0140591' => 'lal', 'Lalb_Chr02g0140611' => 'lal', 'Lalb_Chr03g0028101' => 'lal', 'Lalb_Chr07g0185791' => 'lal', 'Lalb_Chr12g0204491' => 'lal', 'Lalb_Chr13g0295671' => 'lal', 'Lalb_Chr19g0136461' => 'lal', 'Lalb_Chr21g0309191' => 'lal', 'Lj1g0028158' => 'lja', 'Lj1P236T38' => 'lonja', 'Lj2C32G2' => 'lonja', 'Lj2P944T8' => 'lonja', 'Lj2P963T15' => 'lonja', 'Lj3g0011788' => 'lja', 'Lj4g0025027' => 'lja', 'Lj5P255T36' => 'lonja', 'Lj6g0018866' => 'lja', 'Lj6P608T31' => 'lonja', 'LjContig00408g0008879' => 'lja', 'Lsat_1_v5_gn_5_105820' => 'lsa', 'Lsat_1_v5_gn_6_38800' => 'lsa', 'Lsat_1_v5_gn_7_67141' => 'lsa', 'Manes.04G003400' => 'mes', 'Manes.07G020000' => 'mes', 'Manes.07G020100' => 'mes', 'Manes.07G020150' => 'mes', 'Manes.10G061500' => 'mes', 'Manes.10G123200' => 'mes', 'Manes.11G161900' => 'mes', 'Manes.15G029300' => 'mes', 'Mapoly0071s0018' => 'mpo', 'Mapoly0082s0023' => 'mpo', 'Mapoly3477s0001' => 'mpo', 'MBI05_g31233_MAGBIO' => 'mbi', 'MBI09_g05946_MAGBIO' => 'mbi', 'MBI09_g05947_MAGBIO' => 'mbi', 'MBI17_g08346_MAGBIO' => 'mbi', 'MCO04G038' => 'mco', 'MCO09G370' => 'mco', 'MCO13G605' => 'mco', 'MD00G1075500' => 'mdo', 'MD03G1144300' => 'mdo', 'MD08G1236800' => 'mdo', 'MD13G1193300' => 'mdo', 'MD15G1428700' => 'mdo', 'Medtr1g112030' => 'mtr', 'Medtr1g112050' => 'mtr', 'Medtr2g006290' => 'mtr', 'Medtr2g086510' => 'mtr', 'Medtr4g053120' => 'mtr', 'Medtr5g006320' => 'mtr', 'Medtr8g088720' => 'mtr', 'MELO3C004712.2' => 'cme', 'MELO3C006533.2' => 'cme', 'MELO3C019438.2' => 'cme', 'MELO3C019440.2' => 'cme', 'MELO3C019441.2' => 'cme', 'MELO3C019895.2' => 'cme', 'Migut.B00811' => 'egut', 'Migut.D02447' => 'egut', 'Migut.F00875' => 'egut', 'Migut.N00186' => 'egut', 'Migut.N01051' => 'egut', 'Migut.N02491' => 'egut', 'Migut.O00784' => 'egut', 'MSTRG.12367' => 'ama', 'MSTRG.18756' => 'ama', 'MSTRG.21042' => 'ama', 'Nitab4.5_0000559g0040' => 'nta', 'Nitab4.5_0000667g0190' => 'nta', 'Nitab4.5_0000755g0160' => 'nta', 'Nitab4.5_0001216g0080' => 'nta', 'Nitab4.5_0004069g0040' => 'nta', 'Nitab4.5_0004129g0010' => 'nta', 'Nitab4.5_0005744g0030' => 'nta', 'Nitab4.5_0006996g0030' => 'nta', 'Nitab4.5_0008971g0040' => 'nta', 'Nitab4.5_0009769g0020' => 'nta', 'Nitab4.5_0009833g0010' => 'nta', 'Nitab4.5_0013140g0020' => 'nta', 'Nn003s41376' => 'nnu', 'Nn1g01857' => 'nnu', 'Nn1g03611' => 'nnu', 'Nn1g06853' => 'nnu', 'Nn3g18360' => 'nnu', 'Nn4g26328' => 'nnu', 'Nn5g27531' => 'nnu', 'Nn6g34899' => 'nnu', 'Nn7g36299' => 'nnu', 'Oeu021485.1' => 'oeu', 'Oeu022433.1' => 'oeu', 'Oeu032111.1' => 'oeu', 'Oeu051608.1' => 'oeu', 'Os01g0860601' => 'osa', 'Os03g0659200' => 'osa', 'Os03g0835900' => 'osa', 'Os04g0412200' => 'osa', 'Os05g0443500' => 'osa', 'Os07g0251500' => 'osa', 'Os08g0104600' => 'osa', 'Peaxi162Scf00003g00047' => 'pax', 'Peaxi162Scf00003g00052' => 'pax', 'Peaxi162Scf00003g00394' => 'pax', 'Peaxi162Scf00091g00621' => 'pax', 'Peaxi162Scf00152g00146' => 'pax', 'Peaxi162Scf00173g00025' => 'pax', 'Peaxi162Scf00195g00102' => 'pax', 'Peaxi162Scf00402g00013' => 'pax', 'Peaxi162Scf00519g00618' => 'pax', 'PGR004G2838' => 'pgr', 'PGR044G2275' => 'pgr', 'PGR102G1377' => 'pgr', 'PGR119G1245' => 'pgr', 'PGR142G4449' => 'pgr', 'PGSC0003DMG400004532' => 'stu', 'PGSC0003DMG400011950' => 'stu', 'PGSC0003DMG400023391' => 'stu', 'PGSC0003DMG400023985' => 'stu', 'PGSC0003DMG400026360' => 'stu', 'PGSC0003DMG400035711' => 'stu', 'PGSC0003DMG400037286' => 'stu', 'PGSC0003DMG402005881' => 'stu', 'Phvul.002G045400' => 'pvu', 'Phvul.006G216600' => 'pvu', 'Phvul.006G216700' => 'pvu', 'Phvul.006G216800' => 'pvu', 'Phvul.007G022500' => 'pvu', 'Phvul.011G094400' => 'pvu', 'Potri.001G470700' => 'ptr', 'Potri.003G015200' => 'ptr', 'Potri.004G202500' => 'ptr', 'Potri.004G218400' => 'ptr', 'Potri.008G020100' => 'ptr', 'Potri.008G153200' => 'ptr', 'Potri.009G163800' => 'ptr', 'Potri.010G087300' => 'ptr', 'Potri.010G239100' => 'ptr', 'Pp3c10_16100' => 'ppa', 'Pp3c10_16880' => 'ppa', 'Pp3c16_6230' => 'ppa', 'Pp3c17_18910' => 'ppa', 'Pp3c3_22119' => 'ppa', 'Pp3c3_22140' => 'ppa', 'Pp3c4_8159' => 'ppa', 'Pp3c4_8171' => 'ppa', 'Pp3c4_8330' => 'ppa', 'PRCOL_00004098' => 'pco', 'Prupe.1G013900' => 'ppe', 'Prupe.1G226300' => 'ppe', 'Prupe.1G573600' => 'ppe', 'Prupe.6G130100' => 'ppe', 'Psat3g090040' => 'psa', 'Psat4g210440' => 'psa', 'Psat6g231040' => 'psa', 'Psat6g231080' => 'psa', 'Psat7g063000' => 'psa', 'Psat7g188000' => 'psa', 'Psat7g188040' => 'psa', 'PSO017G0206' => 'pso', 'PSO170G0501' => 'pso', 'PSO170G6422' => 'pso', 'PSO210G7739' => 'pso', 'PSO339G1808' => 'pso', 'PSO339G6135' => 'pso', 'PSO384G0010' => 'pso', 'PSO384G0964' => 'pso', 'PSO761G0050' => 'pso', 'PSO782G4085' => 'pso', 'QL01p012264' => 'qlo', 'QL02p099491' => 'qlo', 'QL03p033868' => 'qlo', 'QL04p046678' => 'qlo', 'QL06p002448' => 'qlo', 'RcHm_v2.0_Chr4g0416181' => 'rch', 'RcHm_v2.0_Chr5g0044701' => 'rch', 'RcHm_v2.0_Chr6g0265781' => 'rch', 'RcHm_v2.0_Chr7g0221031' => 'rch', 'Rhsim04G0202000' => 'rsi', 'Rhsim11G0127300' => 'rsi', 'Rhsim13G0111800' => 'rsi', 'Sabra01G0165600' => 'sbr', 'Sabra03G0008300' => 'sbr', 'Sabra04G0136900' => 'sbr', 'Sabra08G0013400' => 'sbr', 'Sabra08G0116800' => 'sbr', 'Sabra09G0128000' => 'sbr', 'Sabra10G0055500' => 'sbr', 'Sabra10G0073300' => 'sbr', 'SalBow3G0385' => 'sbo', 'SalBow3G1119' => 'sbo', 'SalBow3G2005' => 'sbo', 'SalBow6G2563' => 'sbo', 'SalBow6G6386' => 'sbo', 'Sc06g0008800' => 'sci', 'Sc07g0004950' => 'sci', 'Sc09g0005340' => 'sci', 'Sc13g0004410' => 'sci', 'Sc21g0007090' => 'sci', 'Sed0009285' => 'sed', 'Sed0017583' => 'sed', 'Sed0019699' => 'sed', 'Sed0023107' => 'sed', 'SEGI_10916' => 'sgi', 'SEGI_16217' => 'sgi', 'SEGI_19466' => 'sgi', 'SEGI_41115' => 'sgi', 'SGA_v2.0_scaffold111G31534' => 'sas', 'SGA_v2.0_scaffold22G09864' => 'sas', 'SGA_v2.0_scaffold338G49219' => 'sas', 'SGA_v2.0_scaffold92G28298' => 'sas', 'SMO119G0064' => 'smo', 'SMO223G0038' => 'smo', 'SMO347G0584' => 'smo', 'SMO351G0010' => 'smo', 'SMO356G0404' => 'smo', 'Solyc01g103920.3' => 'sly', 'Solyc04g009710.2' => 'sly', 'Solyc05g055280.2' => 'sly', 'Solyc10g044520.3' => 'sly', 'Solyc10g075160.1' => 'sly', 'Solyc11g006910.3' => 'sly', 'Solyc11g068430.3' => 'sly', 'Sopen01g046310' => 'spe', 'Sopen03g001200' => 'spe', 'Sopen04g004830' => 'spe', 'Sopen05g033720' => 'spe', 'Sopen06g030740' => 'spe', 'Sopen10g013090' => 'spe', 'Sopen10g027630' => 'spe', 'Sopen10g027640' => 'spe', 'Sopen11g002820' => 'spe', 'Sopen11g027140' => 'spe', 'Sp1g09680' => 'spa', 'Sp2g03630' => 'spa', 'Sp4g10320' => 'spa', 'Sp6g33400' => 'spa', 'Sp7g13030' => 'spa', 'TAR365G0317' => 'tar', 'TAR376G0979' => 'tar', 'TAR623G1665' => 'tar', 'TAR633G2373' => 'tar', 'TAR636G1400' => 'tar', 'THA.LOC104800529' => 'tha', 'THA.LOC104808547' => 'tha', 'THA.LOC104809615' => 'tha', 'THA.LOC104815724' => 'tha', 'THA.LOC104818480' => 'tha', 'THA.LOC104819179' => 'tha', 'THA.LOC104822270' => 'tha', 'THA.LOC104826425' => 'tha', 'Thecc.02G089700' => 'tca', 'Thecc.04G232300' => 'tca', 'Thecc.09G283400' => 'tca', 'Thhalv10009020m.g' => 'esa', 'Thhalv10015506m.g' => 'esa', 'Thhalv10017364m.g' => 'esa', 'Thhalv10023742m.g' => 'esa', 'Thhalv10026483m.g' => 'esa', 'TPR.G17232' => 'tpr', 'TPR.G2133' => 'tpr', 'TPR.G2498' => 'tpr', 'TPR.G31942' => 'tpr', 'TPR.G37877' => 'tpr', 'TPR.G4571' => 'tpr', 'TWI14G1113' => 'twi', 'TWI15G0426' => 'twi', 'TWI31G1005' => 'twi', 'TWI38G0513' => 'twi', 'TWI38G1484' => 'twi', 'TWI73G1098' => 'twi', 'unitig_26.g10519' => 'ugi', 'unitig_736.g22395' => 'ugi', 'unitig_747.g21234' => 'ugi', 'unitig_747.g21942' => 'ugi', 'vmacro14351' => 'vma', 'VMungo0540G0082' => 'vmu', 'VMungo0540G0405' => 'vmu', 'VMungo0540G1486' => 'vmu', 'VMungo0540G1692' => 'vmu', 'VMungo0720G2473' => 'vmu', 'VMungo1127G1562' => 'vmu', 'VMungo1215G1918' => 'vmu', 'Zm00001eb052650' => 'zma', 'Zm00001eb063710' => 'zma', 'Zm00001eb083950' => 'zma', 'Zm00001eb174420' => 'zma', 'Zm00001eb260140' => 'zma', 'Zm00001eb260150' => 'zma', 'Zm00001eb260160' => 'zma', 'Zm00001eb348290' => 'zma', 'Zm00001eb366870' => 'zma', 'Zm00001eb421930' => 'zma' ) $gf_id = 'HOM05D001025' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001025' ) $data_identifier = 'HOM05D001025' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 19, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 2, 'amhyb' => (int) 4, 'aly' => (int) 4, 'aox' => (int) 4, 'arhy' => (int) 3, 'ath' => (int) 5, 'atr' => (int) 4, 'acertr' => (int) 3, 'cqu' => (int) 7, 'bca' => (int) 17, 'bol' => (int) 10, 'bra' => (int) 9, 'can' => (int) 10, 'cansat' => (int) 6, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 5, 'cbr' => (int) 5, 'ccan' => (int) 5, 'cde' => (int) 4, 'cfa' => (int) 3, 'ccl' => (int) 6, 'cil' => (int) 4, 'cla' => (int) 3, 'col' => (int) 3, 'cpa' => (int) 3, 'cre' => (int) 7, 'csa' => (int) 5, 'camsi' => (int) 9, 'dca' => (int) 4, 'din' => (int) 5, 'dzi' => (int) 7, 'eca' => (int) 6, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 12, 'fve' => (int) 4, 'gma' => (int) 12, 'ghi' => (int) 17, 'gra' => (int) 9, 'vvi' => (int) 2, 'han' => (int) 8, 'cav' => (int) 5, 'hma' => (int) 9, 'vpl' => (int) 4, 'sun' => (int) 2, 'lal' => (int) 9, 'lja' => (int) 5, 'lonja' => (int) 6, 'lsa' => (int) 3, 'mes' => (int) 8, 'mpo' => (int) 3, 'mbi' => (int) 4, 'mco' => (int) 3, 'mdo' => (int) 5, 'mtr' => (int) 7, 'cme' => (int) 6, 'egut' => (int) 7, 'ama' => (int) 3, 'nta' => (int) 12, 'nnu' => (int) 9, 'oeu' => (int) 4, 'osa' => (int) 7, 'pax' => (int) 9, 'pgr' => (int) 5, 'stu' => (int) 8, 'pvu' => (int) 6, 'ptr' => (int) 9, 'ppa' => (int) 9, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 7, 'pso' => (int) 10, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 3, 'sbr' => (int) 8, 'sbo' => (int) 5, 'sci' => (int) 5, 'sed' => (int) 4, 'sgi' => (int) 4, 'sas' => (int) 4, 'smo' => (int) 5, 'sly' => (int) 7, 'spe' => (int) 10, 'spa' => (int) 5, 'tar' => (int) 5, 'tha' => (int) 8, 'tca' => (int) 3, 'esa' => (int) 5, 'tpr' => (int) 6, 'twi' => (int) 6, 'ugi' => (int) 4, 'vma' => (int) 1, 'vmu' => (int) 7, 'zma' => (int) 10 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb421930' $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' => 'HOM05D001025', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '592', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p22650' => 'bna', 'A01p29720' => 'bna', 'A03p26560' => 'bna', 'A03p68820' => 'bna', 'A04p20980' => 'bna', 'A06p07730' => 'bna', 'A07p18260' => 'bna', 'A08p33710' => 'bna', 'A09p16970' => 'bna', 'A10p27490' => 'bna', 'Aa31LG1G17300' => 'aar', 'Aa31LG1G3910' => 'aar', 'Aa31LG2G9630' => 'aar', 'Aa31LG5G8360' => 'aar', 'Aa31LG9G2410' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4699' => 'aag', 'Actinidia23512' => 'ach', 'Actinidia37080' => 'ach', 'Ah.01g020380' => 'amhyb', 'Ah.08g215710' => 'amhyb', 'Ah.09g225110' => 'amhyb', 'Ah.10g036680' => 'amhyb', 'AL1G21940' => 'aly', 'AL2G15540' => 'aly', 'AL4G21520' => 'aly', 'AL7G40960' => 'aly', 'Aqoxy2G01191' => 'aox', 'Aqoxy2G03393' => 'aox', 'Aqoxy4G02775' => 'aox', 'Aqoxy6G00058' => 'aox', 'arahy.Tifrunner.gnm1.ann1.9X74H2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CW3FX9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R485W7' => 'arhy', 'AT1G10960' => 'ath', 'AT1G60950' => 'ath', 'AT2G27510' => 'ath', 'AT4G14890' => 'ath', 'AT5G10000' => 'ath', 'ATR0665G624' => 'atr', 'ATR0697G138' => 'atr', 'ATR0776G046' => 'atr', 'ATR1134G135' => 'atr', 'Atru.chr12.1025' => 'acertr', 'Atru.chr3.3241' => 'acertr', 'Atru.chr4.2460' => 'acertr', 'AUR62007427' => 'cqu', 'AUR62010960' => 'cqu', 'AUR62012201' => 'cqu', 'AUR62021470' => 'cqu', 'AUR62022834' => 'cqu', 'AUR62033635' => 'cqu', 'AUR62036186' => 'cqu', 'BcaB01g03077' => 'bca', 'BcaB02g10093' => 'bca', 'BcaB04g20295' => 'bca', 'BcaB06g28147' => 'bca', 'BcaB07g31253' => 'bca', 'BcaC01g04946' => 'bca', 'BcaC02g10614' => 'bca', 'BcaC02g10885' => 'bca', 'BcaC04g19356' => 'bca', 'BcaC04g22297' => 'bca', 'BcaC05g24977' => 'bca', 'BcaC06g31823' => 'bca', 'BcaC07g38633' => 'bca', 'BcaC09g49353' => 'bca', 'BcaC09g50168' => 'bca', 'BcaNung00322' => 'bca', 'BcaNung04769' => 'bca', 'BolC1t02753H' => 'bol', 'BolC1t03721H' => 'bol', 'BolC3t15525H' => 'bol', 'BolC4t23903H' => 'bol', 'BolC4t24231H' => 'bol', 'BolC4t27209H' => 'bol', 'BolC5t29671H' => 'bol', 'BolC8t49044H' => 'bol', 'BolC9t54999H' => 'bol', 'BolC9t59517H' => 'bol', 'BraA01t02178Z' => 'bra', 'BraA01t03099Z' => 'bra', 'BraA03t11867Z' => 'bra', 'BraA04t17667Z' => 'bra', 'BraA07t29542Z' => 'bra', 'BraA08t35287Z' => 'bra', 'BraA09t37334Z' => 'bra', 'BraA10t44801Z' => 'bra', 'BraSC39t46181Z' => 'bra', 'C01p28240' => 'bna', 'C01p37530' => 'bna', 'C03p31820' => 'bna', 'C04p24080' => 'bna', 'C04p25790' => 'bna', 'C04p56770' => 'bna', 'C05p09310' => 'bna', 'C09p21010' => 'bna', 'C09p67560' => 'bna', 'CAN.G1324.7' => 'can', 'CAN.G1358.10' => 'can', 'CAN.G1550.2' => 'can', 'CAN.G186.56' => 'can', 'CAN.G1965.1' => 'can', 'CAN.G645.15' => 'can', 'CAN.G798.26' => 'can', 'CAN.G798.27' => 'can', 'CAN.G798.29' => 'can', 'CAN.G919.31' => 'can', 'CANSAT11G0133' => 'cansat', 'CANSAT11G1171' => 'cansat', 'CANSAT11G2056' => 'cansat', 'CANSAT56G1202' => 'cansat', 'CANSAT56G1514' => 'cansat', 'CANSAT78G0455' => 'cansat', 'CARHR011190' => 'chi', 'CARHR051980' => 'chi', 'CARHR120170' => 'chi', 'CARHR203310' => 'chi', 'CARHR221490' => 'chi', 'Carub.0001s1054' => 'cru', 'Carub.0002s0431' => 'cru', 'Carub.0004s0818' => 'cru', 'Carub.0006s0846' => 'cru', 'Carub.0007s2722' => 'cru', 'Ca_00058_v3' => 'car', 'Ca_17831_v3' => 'car', 'Ca_19408_v3' => 'car', 'Ca_24397_v3' => 'car', 'Ca_25664_v3' => 'car', 'CBR_g21818' => 'cbr', 'CBR_g31195' => 'cbr', 'CBR_g32282' => 'cbr', 'CBR_g39599' => 'cbr', 'CBR_g49410' => 'cbr', 'Cc01_g09120' => 'ccan', 'Cc01_g09130' => 'ccan', 'Cc02_g09630' => 'ccan', 'Cc02_g22810' => 'ccan', 'Cc03_g03810' => 'ccan', 'CDE02G3718' => 'cde', 'CDE04G3183' => 'cde', 'CDE07G1046' => 'cde', 'CDE08G0480' => 'cde', 'Cfa005493' => 'cfa', 'Cfa010312' => 'cfa', 'Cfa015648' => 'cfa', 'Ciclev10002793m.g' => 'ccl', 'Ciclev10003356m.g' => 'ccl', 'Ciclev10006141m.g' => 'ccl', 'Ciclev10016676m.g' => 'ccl', 'Ciclev10017081m.g' => 'ccl', 'Ciclev10029499m.g' => 'ccl', 'CiPaw.01G166300' => 'cil', 'CiPaw.06G145600' => 'cil', 'CiPaw.13G040100' => 'cil', 'CiPaw.13G135800' => 'cil', 'ClCG01G012230' => 'cla', 'ClCG05G009510' => 'cla', 'ClCG08G008270' => 'cla', 'COL.COLO4_11763' => 'col', 'COL.COLO4_19876' => 'col', 'COL.COLO4_21481' => 'col', 'Cpa.g.sc118.34' => 'cpa', 'Cpa.g.sc32.13' => 'cpa', 'Cpa.g.sc58.103' => 'cpa', 'Cre03.g183850' => 'cre', 'Cre06.g306350' => 'cre', 'Cre07.g334800' => 'cre', 'Cre12.g487900' => 'cre', 'Cre14.g626700' => 'cre', 'Cre16.g658400' => 'cre', 'Cre17.g700950' => 'cre', 'CsaV3_1G014830' => 'csa', 'CsaV3_3G013320' => 'csa', 'CsaV3_3G019210' => 'csa', 'CsaV3_3G019220' => 'csa', 'CsaV3_6G004230' => 'csa', 'CSS0003773' => 'camsi', 'CSS0004563' => 'camsi', 'CSS0013949' => 'camsi', 'CSS0025971' => 'camsi', 'CSS0028570' => 'camsi', 'CSS0033127' => 'camsi', 'CSS0036051' => 'camsi', 'CSS0040087' => 'camsi', 'CSS0043179' => 'camsi', 'DCAR_006161' => 'dca', 'DCAR_010351' => 'dca', 'DCAR_012197' => 'dca', 'DCAR_024162' => 'dca', 'Dinv01030' => 'din', 'Dinv10924' => 'din', 'Dinv11835' => 'din', 'Dinv22841' => 'din', 'Dinv42553' => 'din', 'Duzib052G0560' => 'dzi', 'Duzib132G0389' => 'dzi', 'Duzib150G1181' => 'dzi', 'Duzib168G0623' => 'dzi', 'Duzib170G1036' => 'dzi', 'Duzib212G0200' => 'dzi', 'Duzib248G0194' => 'dzi', 'ECA232G2193' => 'eca', 'ECA233G0302' => 'eca', 'ECA234G2813' => 'eca', 'ECA234G4866' => 'eca', 'ECA240G3932' => 'eca', 'ECA248G0385' => 'eca', 'EL10Ac2g04781' => 'bvu', 'EL10Ac3g06445' => 'bvu', 'EL10Ac7g15825' => 'bvu', 'EL10Ac8g18550' => 'bvu', 'Eucgr.B03849' => 'egr', 'Eucgr.I02744' => 'egr', 'Eucgr.J00264' => 'egr', 'Eucgr.J00493' => 'egr', 'FAN04G2181' => 'fan', 'FAN07G2666' => 'fan', 'FAN11G0024' => 'fan', 'FAN12G1105' => 'fan', 'FAN13G0302' => 'fan', 'FAN15G2781' => 'fan', 'FAN16G1274' => 'fan', 'FAN17G2988' => 'fan', 'FAN18G2621' => 'fan', 'FAN21G0013' => 'fan', 'FAN22G1211' => 'fan', 'FAN25G3626' => 'fan', 'FvH4_2g09491' => 'fve', 'FvH4_3g24910' => 'fve', 'FvH4_4g15630' => 'fve', 'FvH4_5g28820' => 'fve', 'Glyma.01G238000' => 'gma', 'Glyma.05G168400' => 'gma', 'Glyma.08G126800' => 'gma', 'Glyma.08G188500' => 'gma', 'Glyma.10G278900' => 'gma', 'Glyma.11G005700' => 'gma', 'Glyma.11G183300' => 'gma', 'Glyma.12G089200' => 'gma', 'Glyma.12G169400' => 'gma', 'Glyma.12G169500' => 'gma', 'Glyma.12G169600' => 'gma', 'Glyma.20G110800' => 'gma', 'Gohir.A03G192900' => 'ghi', 'Gohir.A03G193000' => 'ghi', 'Gohir.A05G080700' => 'ghi', 'Gohir.A09G216000' => 'ghi', 'Gohir.A12G027700' => 'ghi', 'Gohir.A13G036200' => 'ghi', 'Gohir.A13G222600' => 'ghi', 'Gohir.D02G213900' => 'ghi', 'Gohir.D02G214000' => 'ghi', 'Gohir.D05G083700' => 'ghi', 'Gohir.D05G083800' => 'ghi', 'Gohir.D05G083850' => 'ghi', 'Gohir.D08G015400' => 'ghi', 'Gohir.D09G218400' => 'ghi', 'Gohir.D12G027100' => 'ghi', 'Gohir.D13G034500' => 'ghi', 'Gohir.D13G227400' => 'ghi', 'Gorai.005G241800' => 'gra', 'Gorai.005G241900' => 'gra', 'Gorai.006G239400' => 'gra', 'Gorai.008G027600' => 'gra', 'Gorai.009G085400' => 'gra', 'Gorai.009G085500' => 'gra', 'Gorai.013G039000' => 'gra', 'Gorai.013G194800' => 'gra', 'Gorai.013G257900' => 'gra', 'GSVIVG01000982001' => 'vvi', 'GSVIVG01017981001' => 'vvi', 'HanXRQChr01g0024061' => 'han', 'HanXRQChr09g0247831' => 'han', 'HanXRQChr10g0294611' => 'han', 'HanXRQChr10g0294621' => 'han', 'HanXRQChr11g0346821' => 'han', 'HanXRQChr13g0397461' => 'han', 'HanXRQChr16g0513651' => 'han', 'HanXRQChr16g0513701' => 'han', 'Haze_00897' => 'cav', 'Haze_01745' => 'cav', 'Haze_02486' => 'cav', 'Haze_02487' => 'cav', 'Haze_23374' => 'cav', 'Hma1.2p1_0578F.1_g182520' => 'hma', 'Hma1.2p1_0602F.1_g187350' => 'hma', 'Hma1.2p1_0602F.1_g187360' => 'hma', 'Hma1.2p1_0874F.1_g231320' => 'hma', 'Hma1.2p1_1197F.1_g266210' => 'hma', 'Hma1.2p1_1197F.1_g266220' => 'hma', 'Hma1.2p1_2167F.1_g315895' => 'hma', 'Hma1.2p1_2190F.1_g316640' => 'hma', 'Hma1.2p1_3645F.1_g337153' => 'hma', 'HPP92_004907' => 'vpl', 'HPP92_012134' => 'vpl', 'HPP92_025136' => 'vpl', 'HPP92_026087' => 'vpl', 'Hund06782' => 'sun', 'Hund06784' => 'sun', 'Lalb_Chr01g0004861' => 'lal', 'Lalb_Chr02g0140591' => 'lal', 'Lalb_Chr02g0140611' => 'lal', 'Lalb_Chr03g0028101' => 'lal', 'Lalb_Chr07g0185791' => 'lal', 'Lalb_Chr12g0204491' => 'lal', 'Lalb_Chr13g0295671' => 'lal', 'Lalb_Chr19g0136461' => 'lal', 'Lalb_Chr21g0309191' => 'lal', 'Lj1g0028158' => 'lja', 'Lj1P236T38' => 'lonja', 'Lj2C32G2' => 'lonja', 'Lj2P944T8' => 'lonja', 'Lj2P963T15' => 'lonja', 'Lj3g0011788' => 'lja', 'Lj4g0025027' => 'lja', 'Lj5P255T36' => 'lonja', 'Lj6g0018866' => 'lja', 'Lj6P608T31' => 'lonja', 'LjContig00408g0008879' => 'lja', 'Lsat_1_v5_gn_5_105820' => 'lsa', 'Lsat_1_v5_gn_6_38800' => 'lsa', 'Lsat_1_v5_gn_7_67141' => 'lsa', 'Manes.04G003400' => 'mes', 'Manes.07G020000' => 'mes', 'Manes.07G020100' => 'mes', 'Manes.07G020150' => 'mes', 'Manes.10G061500' => 'mes', 'Manes.10G123200' => 'mes', 'Manes.11G161900' => 'mes', 'Manes.15G029300' => 'mes', 'Mapoly0071s0018' => 'mpo', 'Mapoly0082s0023' => 'mpo', 'Mapoly3477s0001' => 'mpo', 'MBI05_g31233_MAGBIO' => 'mbi', 'MBI09_g05946_MAGBIO' => 'mbi', 'MBI09_g05947_MAGBIO' => 'mbi', 'MBI17_g08346_MAGBIO' => 'mbi', 'MCO04G038' => 'mco', 'MCO09G370' => 'mco', 'MCO13G605' => 'mco', 'MD00G1075500' => 'mdo', 'MD03G1144300' => 'mdo', 'MD08G1236800' => 'mdo', 'MD13G1193300' => 'mdo', 'MD15G1428700' => 'mdo', 'Medtr1g112030' => 'mtr', 'Medtr1g112050' => 'mtr', 'Medtr2g006290' => 'mtr', 'Medtr2g086510' => 'mtr', 'Medtr4g053120' => 'mtr', 'Medtr5g006320' => 'mtr', 'Medtr8g088720' => 'mtr', 'MELO3C004712.2' => 'cme', 'MELO3C006533.2' => 'cme', 'MELO3C019438.2' => 'cme', 'MELO3C019440.2' => 'cme', 'MELO3C019441.2' => 'cme', 'MELO3C019895.2' => 'cme', 'Migut.B00811' => 'egut', 'Migut.D02447' => 'egut', 'Migut.F00875' => 'egut', 'Migut.N00186' => 'egut', 'Migut.N01051' => 'egut', 'Migut.N02491' => 'egut', 'Migut.O00784' => 'egut', 'MSTRG.12367' => 'ama', 'MSTRG.18756' => 'ama', 'MSTRG.21042' => 'ama', 'Nitab4.5_0000559g0040' => 'nta', 'Nitab4.5_0000667g0190' => 'nta', 'Nitab4.5_0000755g0160' => 'nta', 'Nitab4.5_0001216g0080' => 'nta', 'Nitab4.5_0004069g0040' => 'nta', 'Nitab4.5_0004129g0010' => 'nta', 'Nitab4.5_0005744g0030' => 'nta', 'Nitab4.5_0006996g0030' => 'nta', 'Nitab4.5_0008971g0040' => 'nta', 'Nitab4.5_0009769g0020' => 'nta', 'Nitab4.5_0009833g0010' => 'nta', 'Nitab4.5_0013140g0020' => 'nta', 'Nn003s41376' => 'nnu', 'Nn1g01857' => 'nnu', 'Nn1g03611' => 'nnu', 'Nn1g06853' => 'nnu', 'Nn3g18360' => 'nnu', 'Nn4g26328' => 'nnu', 'Nn5g27531' => 'nnu', 'Nn6g34899' => 'nnu', 'Nn7g36299' => 'nnu', 'Oeu021485.1' => 'oeu', 'Oeu022433.1' => 'oeu', 'Oeu032111.1' => 'oeu', 'Oeu051608.1' => 'oeu', 'Os01g0860601' => 'osa', 'Os03g0659200' => 'osa', 'Os03g0835900' => 'osa', 'Os04g0412200' => 'osa', 'Os05g0443500' => 'osa', 'Os07g0251500' => 'osa', 'Os08g0104600' => 'osa', 'Peaxi162Scf00003g00047' => 'pax', 'Peaxi162Scf00003g00052' => 'pax', 'Peaxi162Scf00003g00394' => 'pax', 'Peaxi162Scf00091g00621' => 'pax', 'Peaxi162Scf00152g00146' => 'pax', 'Peaxi162Scf00173g00025' => 'pax', 'Peaxi162Scf00195g00102' => 'pax', 'Peaxi162Scf00402g00013' => 'pax', 'Peaxi162Scf00519g00618' => 'pax', 'PGR004G2838' => 'pgr', 'PGR044G2275' => 'pgr', 'PGR102G1377' => 'pgr', 'PGR119G1245' => 'pgr', 'PGR142G4449' => 'pgr', 'PGSC0003DMG400004532' => 'stu', 'PGSC0003DMG400011950' => 'stu', 'PGSC0003DMG400023391' => 'stu', 'PGSC0003DMG400023985' => 'stu', 'PGSC0003DMG400026360' => 'stu', 'PGSC0003DMG400035711' => 'stu', 'PGSC0003DMG400037286' => 'stu', 'PGSC0003DMG402005881' => 'stu', 'Phvul.002G045400' => 'pvu', 'Phvul.006G216600' => 'pvu', 'Phvul.006G216700' => 'pvu', 'Phvul.006G216800' => 'pvu', 'Phvul.007G022500' => 'pvu', 'Phvul.011G094400' => 'pvu', 'Potri.001G470700' => 'ptr', 'Potri.003G015200' => 'ptr', 'Potri.004G202500' => 'ptr', 'Potri.004G218400' => 'ptr', 'Potri.008G020100' => 'ptr', 'Potri.008G153200' => 'ptr', 'Potri.009G163800' => 'ptr', 'Potri.010G087300' => 'ptr', 'Potri.010G239100' => 'ptr', 'Pp3c10_16100' => 'ppa', 'Pp3c10_16880' => 'ppa', 'Pp3c16_6230' => 'ppa', 'Pp3c17_18910' => 'ppa', 'Pp3c3_22119' => 'ppa', 'Pp3c3_22140' => 'ppa', 'Pp3c4_8159' => 'ppa', 'Pp3c4_8171' => 'ppa', 'Pp3c4_8330' => 'ppa', 'PRCOL_00004098' => 'pco', 'Prupe.1G013900' => 'ppe', 'Prupe.1G226300' => 'ppe', 'Prupe.1G573600' => 'ppe', 'Prupe.6G130100' => 'ppe', 'Psat3g090040' => 'psa', 'Psat4g210440' => 'psa', 'Psat6g231040' => 'psa', 'Psat6g231080' => 'psa', 'Psat7g063000' => 'psa', 'Psat7g188000' => 'psa', 'Psat7g188040' => 'psa', 'PSO017G0206' => 'pso', 'PSO170G0501' => 'pso', 'PSO170G6422' => 'pso', 'PSO210G7739' => 'pso', 'PSO339G1808' => 'pso', 'PSO339G6135' => 'pso', 'PSO384G0010' => 'pso', 'PSO384G0964' => 'pso', 'PSO761G0050' => 'pso', 'PSO782G4085' => 'pso', 'QL01p012264' => 'qlo', 'QL02p099491' => 'qlo', 'QL03p033868' => 'qlo', 'QL04p046678' => 'qlo', 'QL06p002448' => 'qlo', 'RcHm_v2.0_Chr4g0416181' => 'rch', 'RcHm_v2.0_Chr5g0044701' => 'rch', 'RcHm_v2.0_Chr6g0265781' => 'rch', 'RcHm_v2.0_Chr7g0221031' => 'rch', 'Rhsim04G0202000' => 'rsi', 'Rhsim11G0127300' => 'rsi', 'Rhsim13G0111800' => 'rsi', 'Sabra01G0165600' => 'sbr', 'Sabra03G0008300' => 'sbr', 'Sabra04G0136900' => 'sbr', 'Sabra08G0013400' => 'sbr', 'Sabra08G0116800' => 'sbr', 'Sabra09G0128000' => 'sbr', 'Sabra10G0055500' => 'sbr', 'Sabra10G0073300' => 'sbr', 'SalBow3G0385' => 'sbo', 'SalBow3G1119' => 'sbo', 'SalBow3G2005' => 'sbo', 'SalBow6G2563' => 'sbo', 'SalBow6G6386' => 'sbo', 'Sc06g0008800' => 'sci', 'Sc07g0004950' => 'sci', 'Sc09g0005340' => 'sci', 'Sc13g0004410' => 'sci', 'Sc21g0007090' => 'sci', 'Sed0009285' => 'sed', 'Sed0017583' => 'sed', 'Sed0019699' => 'sed', 'Sed0023107' => 'sed', 'SEGI_10916' => 'sgi', 'SEGI_16217' => 'sgi', 'SEGI_19466' => 'sgi', 'SEGI_41115' => 'sgi', 'SGA_v2.0_scaffold111G31534' => 'sas', 'SGA_v2.0_scaffold22G09864' => 'sas', 'SGA_v2.0_scaffold338G49219' => 'sas', 'SGA_v2.0_scaffold92G28298' => 'sas', 'SMO119G0064' => 'smo', 'SMO223G0038' => 'smo', 'SMO347G0584' => 'smo', 'SMO351G0010' => 'smo', 'SMO356G0404' => 'smo', 'Solyc01g103920.3' => 'sly', 'Solyc04g009710.2' => 'sly', 'Solyc05g055280.2' => 'sly', 'Solyc10g044520.3' => 'sly', 'Solyc10g075160.1' => 'sly', 'Solyc11g006910.3' => 'sly', 'Solyc11g068430.3' => 'sly', 'Sopen01g046310' => 'spe', 'Sopen03g001200' => 'spe', 'Sopen04g004830' => 'spe', 'Sopen05g033720' => 'spe', 'Sopen06g030740' => 'spe', 'Sopen10g013090' => 'spe', 'Sopen10g027630' => 'spe', 'Sopen10g027640' => 'spe', 'Sopen11g002820' => 'spe', 'Sopen11g027140' => 'spe', 'Sp1g09680' => 'spa', 'Sp2g03630' => 'spa', 'Sp4g10320' => 'spa', 'Sp6g33400' => 'spa', 'Sp7g13030' => 'spa', 'TAR365G0317' => 'tar', 'TAR376G0979' => 'tar', 'TAR623G1665' => 'tar', 'TAR633G2373' => 'tar', 'TAR636G1400' => 'tar', 'THA.LOC104800529' => 'tha', 'THA.LOC104808547' => 'tha', 'THA.LOC104809615' => 'tha', 'THA.LOC104815724' => 'tha', 'THA.LOC104818480' => 'tha', 'THA.LOC104819179' => 'tha', 'THA.LOC104822270' => 'tha', 'THA.LOC104826425' => 'tha', 'Thecc.02G089700' => 'tca', 'Thecc.04G232300' => 'tca', 'Thecc.09G283400' => 'tca', 'Thhalv10009020m.g' => 'esa', 'Thhalv10015506m.g' => 'esa', 'Thhalv10017364m.g' => 'esa', 'Thhalv10023742m.g' => 'esa', 'Thhalv10026483m.g' => 'esa', 'TPR.G17232' => 'tpr', 'TPR.G2133' => 'tpr', 'TPR.G2498' => 'tpr', 'TPR.G31942' => 'tpr', 'TPR.G37877' => 'tpr', 'TPR.G4571' => 'tpr', 'TWI14G1113' => 'twi', 'TWI15G0426' => 'twi', 'TWI31G1005' => 'twi', 'TWI38G0513' => 'twi', 'TWI38G1484' => 'twi', 'TWI73G1098' => 'twi', 'unitig_26.g10519' => 'ugi', 'unitig_736.g22395' => 'ugi', 'unitig_747.g21234' => 'ugi', 'unitig_747.g21942' => 'ugi', 'vmacro14351' => 'vma', 'VMungo0540G0082' => 'vmu', 'VMungo0540G0405' => 'vmu', 'VMungo0540G1486' => 'vmu', 'VMungo0540G1692' => 'vmu', 'VMungo0720G2473' => 'vmu', 'VMungo1127G1562' => 'vmu', 'VMungo1215G1918' => 'vmu', 'Zm00001eb052650' => 'zma', 'Zm00001eb063710' => 'zma', 'Zm00001eb083950' => 'zma', 'Zm00001eb174420' => 'zma', 'Zm00001eb260140' => 'zma', 'Zm00001eb260150' => 'zma', 'Zm00001eb260160' => 'zma', 'Zm00001eb348290' => 'zma', 'Zm00001eb366870' => 'zma', 'Zm00001eb421930' => 'zma' ), 'gf_id' => 'HOM05D001025', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001025' ), 'data_identifier' => 'HOM05D001025', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001025', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '592', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p22650' => 'bna', 'A01p29720' => 'bna', 'A03p26560' => 'bna', 'A03p68820' => 'bna', 'A04p20980' => 'bna', 'A06p07730' => 'bna', 'A07p18260' => 'bna', 'A08p33710' => 'bna', 'A09p16970' => 'bna', 'A10p27490' => 'bna', 'Aa31LG1G17300' => 'aar', 'Aa31LG1G3910' => 'aar', 'Aa31LG2G9630' => 'aar', 'Aa31LG5G8360' => 'aar', 'Aa31LG9G2410' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4699' => 'aag', 'Actinidia23512' => 'ach', 'Actinidia37080' => 'ach', 'Ah.01g020380' => 'amhyb', 'Ah.08g215710' => 'amhyb', 'Ah.09g225110' => 'amhyb', 'Ah.10g036680' => 'amhyb', 'AL1G21940' => 'aly', 'AL2G15540' => 'aly', 'AL4G21520' => 'aly', 'AL7G40960' => 'aly', 'Aqoxy2G01191' => 'aox', 'Aqoxy2G03393' => 'aox', 'Aqoxy4G02775' => 'aox', 'Aqoxy6G00058' => 'aox', 'arahy.Tifrunner.gnm1.ann1.9X74H2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CW3FX9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R485W7' => 'arhy', 'AT1G10960' => 'ath', 'AT1G60950' => 'ath', 'AT2G27510' => 'ath', 'AT4G14890' => 'ath', 'AT5G10000' => 'ath', 'ATR0665G624' => 'atr', 'ATR0697G138' => 'atr', 'ATR0776G046' => 'atr', 'ATR1134G135' => 'atr', 'Atru.chr12.1025' => 'acertr', 'Atru.chr3.3241' => 'acertr', 'Atru.chr4.2460' => 'acertr', 'AUR62007427' => 'cqu', 'AUR62010960' => 'cqu', 'AUR62012201' => 'cqu', 'AUR62021470' => 'cqu', 'AUR62022834' => 'cqu', 'AUR62033635' => 'cqu', 'AUR62036186' => 'cqu', 'BcaB01g03077' => 'bca', 'BcaB02g10093' => 'bca', 'BcaB04g20295' => 'bca', 'BcaB06g28147' => 'bca', 'BcaB07g31253' => 'bca', 'BcaC01g04946' => 'bca', 'BcaC02g10614' => 'bca', 'BcaC02g10885' => 'bca', 'BcaC04g19356' => 'bca', 'BcaC04g22297' => 'bca', 'BcaC05g24977' => 'bca', 'BcaC06g31823' => 'bca', 'BcaC07g38633' => 'bca', 'BcaC09g49353' => 'bca', 'BcaC09g50168' => 'bca', 'BcaNung00322' => 'bca', 'BcaNung04769' => 'bca', 'BolC1t02753H' => 'bol', 'BolC1t03721H' => 'bol', 'BolC3t15525H' => 'bol', 'BolC4t23903H' => 'bol', 'BolC4t24231H' => 'bol', 'BolC4t27209H' => 'bol', 'BolC5t29671H' => 'bol', 'BolC8t49044H' => 'bol', 'BolC9t54999H' => 'bol', 'BolC9t59517H' => 'bol', 'BraA01t02178Z' => 'bra', 'BraA01t03099Z' => 'bra', 'BraA03t11867Z' => 'bra', 'BraA04t17667Z' => 'bra', 'BraA07t29542Z' => 'bra', 'BraA08t35287Z' => 'bra', 'BraA09t37334Z' => 'bra', 'BraA10t44801Z' => 'bra', 'BraSC39t46181Z' => 'bra', 'C01p28240' => 'bna', 'C01p37530' => 'bna', 'C03p31820' => 'bna', 'C04p24080' => 'bna', 'C04p25790' => 'bna', 'C04p56770' => 'bna', 'C05p09310' => 'bna', 'C09p21010' => 'bna', 'C09p67560' => 'bna', 'CAN.G1324.7' => 'can', 'CAN.G1358.10' => 'can', 'CAN.G1550.2' => 'can', 'CAN.G186.56' => 'can', 'CAN.G1965.1' => 'can', 'CAN.G645.15' => 'can', 'CAN.G798.26' => 'can', 'CAN.G798.27' => 'can', 'CAN.G798.29' => 'can', 'CAN.G919.31' => 'can', 'CANSAT11G0133' => 'cansat', 'CANSAT11G1171' => 'cansat', 'CANSAT11G2056' => 'cansat', 'CANSAT56G1202' => 'cansat', 'CANSAT56G1514' => 'cansat', 'CANSAT78G0455' => 'cansat', 'CARHR011190' => 'chi', 'CARHR051980' => 'chi', 'CARHR120170' => 'chi', 'CARHR203310' => 'chi', 'CARHR221490' => 'chi', 'Carub.0001s1054' => 'cru', 'Carub.0002s0431' => 'cru', 'Carub.0004s0818' => 'cru', 'Carub.0006s0846' => 'cru', 'Carub.0007s2722' => 'cru', 'Ca_00058_v3' => 'car', 'Ca_17831_v3' => 'car', 'Ca_19408_v3' => 'car', 'Ca_24397_v3' => 'car', 'Ca_25664_v3' => 'car', 'CBR_g21818' => 'cbr', 'CBR_g31195' => 'cbr', 'CBR_g32282' => 'cbr', 'CBR_g39599' => 'cbr', 'CBR_g49410' => 'cbr', 'Cc01_g09120' => 'ccan', 'Cc01_g09130' => 'ccan', 'Cc02_g09630' => 'ccan', 'Cc02_g22810' => 'ccan', 'Cc03_g03810' => 'ccan', 'CDE02G3718' => 'cde', 'CDE04G3183' => 'cde', 'CDE07G1046' => 'cde', 'CDE08G0480' => 'cde', 'Cfa005493' => 'cfa', 'Cfa010312' => 'cfa', 'Cfa015648' => 'cfa', 'Ciclev10002793m.g' => 'ccl', 'Ciclev10003356m.g' => 'ccl', 'Ciclev10006141m.g' => 'ccl', 'Ciclev10016676m.g' => 'ccl', 'Ciclev10017081m.g' => 'ccl', 'Ciclev10029499m.g' => 'ccl', 'CiPaw.01G166300' => 'cil', 'CiPaw.06G145600' => 'cil', 'CiPaw.13G040100' => 'cil', 'CiPaw.13G135800' => 'cil', 'ClCG01G012230' => 'cla', 'ClCG05G009510' => 'cla', 'ClCG08G008270' => 'cla', 'COL.COLO4_11763' => 'col', 'COL.COLO4_19876' => 'col', 'COL.COLO4_21481' => 'col', 'Cpa.g.sc118.34' => 'cpa', 'Cpa.g.sc32.13' => 'cpa', 'Cpa.g.sc58.103' => 'cpa', 'Cre03.g183850' => 'cre', 'Cre06.g306350' => 'cre', 'Cre07.g334800' => 'cre', 'Cre12.g487900' => 'cre', 'Cre14.g626700' => 'cre', 'Cre16.g658400' => 'cre', 'Cre17.g700950' => 'cre', 'CsaV3_1G014830' => 'csa', 'CsaV3_3G013320' => 'csa', 'CsaV3_3G019210' => 'csa', 'CsaV3_3G019220' => 'csa', 'CsaV3_6G004230' => 'csa', 'CSS0003773' => 'camsi', 'CSS0004563' => 'camsi', 'CSS0013949' => 'camsi', 'CSS0025971' => 'camsi', 'CSS0028570' => 'camsi', 'CSS0033127' => 'camsi', 'CSS0036051' => 'camsi', 'CSS0040087' => 'camsi', 'CSS0043179' => 'camsi', 'DCAR_006161' => 'dca', 'DCAR_010351' => 'dca', 'DCAR_012197' => 'dca', 'DCAR_024162' => 'dca', 'Dinv01030' => 'din', 'Dinv10924' => 'din', 'Dinv11835' => 'din', 'Dinv22841' => 'din', 'Dinv42553' => 'din', 'Duzib052G0560' => 'dzi', 'Duzib132G0389' => 'dzi', 'Duzib150G1181' => 'dzi', 'Duzib168G0623' => 'dzi', 'Duzib170G1036' => 'dzi', 'Duzib212G0200' => 'dzi', 'Duzib248G0194' => 'dzi', 'ECA232G2193' => 'eca', 'ECA233G0302' => 'eca', 'ECA234G2813' => 'eca', 'ECA234G4866' => 'eca', 'ECA240G3932' => 'eca', 'ECA248G0385' => 'eca', 'EL10Ac2g04781' => 'bvu', 'EL10Ac3g06445' => 'bvu', 'EL10Ac7g15825' => 'bvu', 'EL10Ac8g18550' => 'bvu', 'Eucgr.B03849' => 'egr', 'Eucgr.I02744' => 'egr', 'Eucgr.J00264' => 'egr', 'Eucgr.J00493' => 'egr', 'FAN04G2181' => 'fan', 'FAN07G2666' => 'fan', 'FAN11G0024' => 'fan', 'FAN12G1105' => 'fan', 'FAN13G0302' => 'fan', 'FAN15G2781' => 'fan', 'FAN16G1274' => 'fan', 'FAN17G2988' => 'fan', 'FAN18G2621' => 'fan', 'FAN21G0013' => 'fan', 'FAN22G1211' => 'fan', 'FAN25G3626' => 'fan', 'FvH4_2g09491' => 'fve', 'FvH4_3g24910' => 'fve', 'FvH4_4g15630' => 'fve', 'FvH4_5g28820' => 'fve', 'Glyma.01G238000' => 'gma', 'Glyma.05G168400' => 'gma', 'Glyma.08G126800' => 'gma', 'Glyma.08G188500' => 'gma', 'Glyma.10G278900' => 'gma', 'Glyma.11G005700' => 'gma', 'Glyma.11G183300' => 'gma', 'Glyma.12G089200' => 'gma', 'Glyma.12G169400' => 'gma', 'Glyma.12G169500' => 'gma', 'Glyma.12G169600' => 'gma', 'Glyma.20G110800' => 'gma', 'Gohir.A03G192900' => 'ghi', 'Gohir.A03G193000' => 'ghi', 'Gohir.A05G080700' => 'ghi', 'Gohir.A09G216000' => 'ghi', 'Gohir.A12G027700' => 'ghi', 'Gohir.A13G036200' => 'ghi', 'Gohir.A13G222600' => 'ghi', 'Gohir.D02G213900' => 'ghi', 'Gohir.D02G214000' => 'ghi', 'Gohir.D05G083700' => 'ghi', 'Gohir.D05G083800' => 'ghi', 'Gohir.D05G083850' => 'ghi', 'Gohir.D08G015400' => 'ghi', 'Gohir.D09G218400' => 'ghi', 'Gohir.D12G027100' => 'ghi', 'Gohir.D13G034500' => 'ghi', 'Gohir.D13G227400' => 'ghi', 'Gorai.005G241800' => 'gra', 'Gorai.005G241900' => 'gra', 'Gorai.006G239400' => 'gra', 'Gorai.008G027600' => 'gra', 'Gorai.009G085400' => 'gra', 'Gorai.009G085500' => 'gra', 'Gorai.013G039000' => 'gra', 'Gorai.013G194800' => 'gra', 'Gorai.013G257900' => 'gra', 'GSVIVG01000982001' => 'vvi', 'GSVIVG01017981001' => 'vvi', 'HanXRQChr01g0024061' => 'han', 'HanXRQChr09g0247831' => 'han', 'HanXRQChr10g0294611' => 'han', 'HanXRQChr10g0294621' => 'han', 'HanXRQChr11g0346821' => 'han', 'HanXRQChr13g0397461' => 'han', 'HanXRQChr16g0513651' => 'han', 'HanXRQChr16g0513701' => 'han', 'Haze_00897' => 'cav', 'Haze_01745' => 'cav', 'Haze_02486' => 'cav', 'Haze_02487' => 'cav', 'Haze_23374' => 'cav', 'Hma1.2p1_0578F.1_g182520' => 'hma', 'Hma1.2p1_0602F.1_g187350' => 'hma', 'Hma1.2p1_0602F.1_g187360' => 'hma', 'Hma1.2p1_0874F.1_g231320' => 'hma', 'Hma1.2p1_1197F.1_g266210' => 'hma', 'Hma1.2p1_1197F.1_g266220' => 'hma', 'Hma1.2p1_2167F.1_g315895' => 'hma', 'Hma1.2p1_2190F.1_g316640' => 'hma', 'Hma1.2p1_3645F.1_g337153' => 'hma', 'HPP92_004907' => 'vpl', 'HPP92_012134' => 'vpl', 'HPP92_025136' => 'vpl', 'HPP92_026087' => 'vpl', 'Hund06782' => 'sun', 'Hund06784' => 'sun', 'Lalb_Chr01g0004861' => 'lal', 'Lalb_Chr02g0140591' => 'lal', 'Lalb_Chr02g0140611' => 'lal', 'Lalb_Chr03g0028101' => 'lal', 'Lalb_Chr07g0185791' => 'lal', 'Lalb_Chr12g0204491' => 'lal', 'Lalb_Chr13g0295671' => 'lal', 'Lalb_Chr19g0136461' => 'lal', 'Lalb_Chr21g0309191' => 'lal', 'Lj1g0028158' => 'lja', 'Lj1P236T38' => 'lonja', 'Lj2C32G2' => 'lonja', 'Lj2P944T8' => 'lonja', 'Lj2P963T15' => 'lonja', 'Lj3g0011788' => 'lja', 'Lj4g0025027' => 'lja', 'Lj5P255T36' => 'lonja', 'Lj6g0018866' => 'lja', 'Lj6P608T31' => 'lonja', 'LjContig00408g0008879' => 'lja', 'Lsat_1_v5_gn_5_105820' => 'lsa', 'Lsat_1_v5_gn_6_38800' => 'lsa', 'Lsat_1_v5_gn_7_67141' => 'lsa', 'Manes.04G003400' => 'mes', 'Manes.07G020000' => 'mes', 'Manes.07G020100' => 'mes', 'Manes.07G020150' => 'mes', 'Manes.10G061500' => 'mes', 'Manes.10G123200' => 'mes', 'Manes.11G161900' => 'mes', 'Manes.15G029300' => 'mes', 'Mapoly0071s0018' => 'mpo', 'Mapoly0082s0023' => 'mpo', 'Mapoly3477s0001' => 'mpo', 'MBI05_g31233_MAGBIO' => 'mbi', 'MBI09_g05946_MAGBIO' => 'mbi', 'MBI09_g05947_MAGBIO' => 'mbi', 'MBI17_g08346_MAGBIO' => 'mbi', 'MCO04G038' => 'mco', 'MCO09G370' => 'mco', 'MCO13G605' => 'mco', 'MD00G1075500' => 'mdo', 'MD03G1144300' => 'mdo', 'MD08G1236800' => 'mdo', 'MD13G1193300' => 'mdo', 'MD15G1428700' => 'mdo', 'Medtr1g112030' => 'mtr', 'Medtr1g112050' => 'mtr', 'Medtr2g006290' => 'mtr', 'Medtr2g086510' => 'mtr', 'Medtr4g053120' => 'mtr', 'Medtr5g006320' => 'mtr', 'Medtr8g088720' => 'mtr', 'MELO3C004712.2' => 'cme', 'MELO3C006533.2' => 'cme', 'MELO3C019438.2' => 'cme', 'MELO3C019440.2' => 'cme', 'MELO3C019441.2' => 'cme', 'MELO3C019895.2' => 'cme', 'Migut.B00811' => 'egut', 'Migut.D02447' => 'egut', 'Migut.F00875' => 'egut', 'Migut.N00186' => 'egut', 'Migut.N01051' => 'egut', 'Migut.N02491' => 'egut', 'Migut.O00784' => 'egut', 'MSTRG.12367' => 'ama', 'MSTRG.18756' => 'ama', 'MSTRG.21042' => 'ama', 'Nitab4.5_0000559g0040' => 'nta', 'Nitab4.5_0000667g0190' => 'nta', 'Nitab4.5_0000755g0160' => 'nta', 'Nitab4.5_0001216g0080' => 'nta', 'Nitab4.5_0004069g0040' => 'nta', 'Nitab4.5_0004129g0010' => 'nta', 'Nitab4.5_0005744g0030' => 'nta', 'Nitab4.5_0006996g0030' => 'nta', 'Nitab4.5_0008971g0040' => 'nta', 'Nitab4.5_0009769g0020' => 'nta', 'Nitab4.5_0009833g0010' => 'nta', 'Nitab4.5_0013140g0020' => 'nta', 'Nn003s41376' => 'nnu', 'Nn1g01857' => 'nnu', 'Nn1g03611' => 'nnu', 'Nn1g06853' => 'nnu', 'Nn3g18360' => 'nnu', 'Nn4g26328' => 'nnu', 'Nn5g27531' => 'nnu', 'Nn6g34899' => 'nnu', 'Nn7g36299' => 'nnu', 'Oeu021485.1' => 'oeu', 'Oeu022433.1' => 'oeu', 'Oeu032111.1' => 'oeu', 'Oeu051608.1' => 'oeu', 'Os01g0860601' => 'osa', 'Os03g0659200' => 'osa', 'Os03g0835900' => 'osa', 'Os04g0412200' => 'osa', 'Os05g0443500' => 'osa', 'Os07g0251500' => 'osa', 'Os08g0104600' => 'osa', 'Peaxi162Scf00003g00047' => 'pax', 'Peaxi162Scf00003g00052' => 'pax', 'Peaxi162Scf00003g00394' => 'pax', 'Peaxi162Scf00091g00621' => 'pax', 'Peaxi162Scf00152g00146' => 'pax', 'Peaxi162Scf00173g00025' => 'pax', 'Peaxi162Scf00195g00102' => 'pax', 'Peaxi162Scf00402g00013' => 'pax', 'Peaxi162Scf00519g00618' => 'pax', 'PGR004G2838' => 'pgr', 'PGR044G2275' => 'pgr', 'PGR102G1377' => 'pgr', 'PGR119G1245' => 'pgr', 'PGR142G4449' => 'pgr', 'PGSC0003DMG400004532' => 'stu', 'PGSC0003DMG400011950' => 'stu', 'PGSC0003DMG400023391' => 'stu', 'PGSC0003DMG400023985' => 'stu', 'PGSC0003DMG400026360' => 'stu', 'PGSC0003DMG400035711' => 'stu', 'PGSC0003DMG400037286' => 'stu', 'PGSC0003DMG402005881' => 'stu', 'Phvul.002G045400' => 'pvu', 'Phvul.006G216600' => 'pvu', 'Phvul.006G216700' => 'pvu', 'Phvul.006G216800' => 'pvu', 'Phvul.007G022500' => 'pvu', 'Phvul.011G094400' => 'pvu', 'Potri.001G470700' => 'ptr', 'Potri.003G015200' => 'ptr', 'Potri.004G202500' => 'ptr', 'Potri.004G218400' => 'ptr', 'Potri.008G020100' => 'ptr', 'Potri.008G153200' => 'ptr', 'Potri.009G163800' => 'ptr', 'Potri.010G087300' => 'ptr', 'Potri.010G239100' => 'ptr', 'Pp3c10_16100' => 'ppa', 'Pp3c10_16880' => 'ppa', 'Pp3c16_6230' => 'ppa', 'Pp3c17_18910' => 'ppa', 'Pp3c3_22119' => 'ppa', 'Pp3c3_22140' => 'ppa', 'Pp3c4_8159' => 'ppa', 'Pp3c4_8171' => 'ppa', 'Pp3c4_8330' => 'ppa', 'PRCOL_00004098' => 'pco', 'Prupe.1G013900' => 'ppe', 'Prupe.1G226300' => 'ppe', 'Prupe.1G573600' => 'ppe', 'Prupe.6G130100' => 'ppe', 'Psat3g090040' => 'psa', 'Psat4g210440' => 'psa', 'Psat6g231040' => 'psa', 'Psat6g231080' => 'psa', 'Psat7g063000' => 'psa', 'Psat7g188000' => 'psa', 'Psat7g188040' => 'psa', 'PSO017G0206' => 'pso', 'PSO170G0501' => 'pso', 'PSO170G6422' => 'pso', 'PSO210G7739' => 'pso', 'PSO339G1808' => 'pso', 'PSO339G6135' => 'pso', 'PSO384G0010' => 'pso', 'PSO384G0964' => 'pso', 'PSO761G0050' => 'pso', 'PSO782G4085' => 'pso', 'QL01p012264' => 'qlo', 'QL02p099491' => 'qlo', 'QL03p033868' => 'qlo', 'QL04p046678' => 'qlo', 'QL06p002448' => 'qlo', 'RcHm_v2.0_Chr4g0416181' => 'rch', 'RcHm_v2.0_Chr5g0044701' => 'rch', 'RcHm_v2.0_Chr6g0265781' => 'rch', 'RcHm_v2.0_Chr7g0221031' => 'rch', 'Rhsim04G0202000' => 'rsi', 'Rhsim11G0127300' => 'rsi', 'Rhsim13G0111800' => 'rsi', 'Sabra01G0165600' => 'sbr', 'Sabra03G0008300' => 'sbr', 'Sabra04G0136900' => 'sbr', 'Sabra08G0013400' => 'sbr', 'Sabra08G0116800' => 'sbr', 'Sabra09G0128000' => 'sbr', 'Sabra10G0055500' => 'sbr', 'Sabra10G0073300' => 'sbr', 'SalBow3G0385' => 'sbo', 'SalBow3G1119' => 'sbo', 'SalBow3G2005' => 'sbo', 'SalBow6G2563' => 'sbo', 'SalBow6G6386' => 'sbo', 'Sc06g0008800' => 'sci', 'Sc07g0004950' => 'sci', 'Sc09g0005340' => 'sci', 'Sc13g0004410' => 'sci', 'Sc21g0007090' => 'sci', 'Sed0009285' => 'sed', 'Sed0017583' => 'sed', 'Sed0019699' => 'sed', 'Sed0023107' => 'sed', 'SEGI_10916' => 'sgi', 'SEGI_16217' => 'sgi', 'SEGI_19466' => 'sgi', 'SEGI_41115' => 'sgi', 'SGA_v2.0_scaffold111G31534' => 'sas', 'SGA_v2.0_scaffold22G09864' => 'sas', 'SGA_v2.0_scaffold338G49219' => 'sas', 'SGA_v2.0_scaffold92G28298' => 'sas', 'SMO119G0064' => 'smo', 'SMO223G0038' => 'smo', 'SMO347G0584' => 'smo', 'SMO351G0010' => 'smo', 'SMO356G0404' => 'smo', 'Solyc01g103920.3' => 'sly', 'Solyc04g009710.2' => 'sly', 'Solyc05g055280.2' => 'sly', 'Solyc10g044520.3' => 'sly', 'Solyc10g075160.1' => 'sly', 'Solyc11g006910.3' => 'sly', 'Solyc11g068430.3' => 'sly', 'Sopen01g046310' => 'spe', 'Sopen03g001200' => 'spe', 'Sopen04g004830' => 'spe', 'Sopen05g033720' => 'spe', 'Sopen06g030740' => 'spe', 'Sopen10g013090' => 'spe', 'Sopen10g027630' => 'spe', 'Sopen10g027640' => 'spe', 'Sopen11g002820' => 'spe', 'Sopen11g027140' => 'spe', 'Sp1g09680' => 'spa', 'Sp2g03630' => 'spa', 'Sp4g10320' => 'spa', 'Sp6g33400' => 'spa', 'Sp7g13030' => 'spa', 'TAR365G0317' => 'tar', 'TAR376G0979' => 'tar', 'TAR623G1665' => 'tar', 'TAR633G2373' => 'tar', 'TAR636G1400' => 'tar', 'THA.LOC104800529' => 'tha', 'THA.LOC104808547' => 'tha', 'THA.LOC104809615' => 'tha', 'THA.LOC104815724' => 'tha', 'THA.LOC104818480' => 'tha', 'THA.LOC104819179' => 'tha', 'THA.LOC104822270' => 'tha', 'THA.LOC104826425' => 'tha', 'Thecc.02G089700' => 'tca', 'Thecc.04G232300' => 'tca', 'Thecc.09G283400' => 'tca', 'Thhalv10009020m.g' => 'esa', 'Thhalv10015506m.g' => 'esa', 'Thhalv10017364m.g' => 'esa', 'Thhalv10023742m.g' => 'esa', 'Thhalv10026483m.g' => 'esa', 'TPR.G17232' => 'tpr', 'TPR.G2133' => 'tpr', 'TPR.G2498' => 'tpr', 'TPR.G31942' => 'tpr', 'TPR.G37877' => 'tpr', 'TPR.G4571' => 'tpr', 'TWI14G1113' => 'twi', 'TWI15G0426' => 'twi', 'TWI31G1005' => 'twi', 'TWI38G0513' => 'twi', 'TWI38G1484' => 'twi', 'TWI73G1098' => 'twi', 'unitig_26.g10519' => 'ugi', 'unitig_736.g22395' => 'ugi', 'unitig_747.g21234' => 'ugi', 'unitig_747.g21942' => 'ugi', 'vmacro14351' => 'vma', 'VMungo0540G0082' => 'vmu', 'VMungo0540G0405' => 'vmu', 'VMungo0540G1486' => 'vmu', 'VMungo0540G1692' => 'vmu', 'VMungo0720G2473' => 'vmu', 'VMungo1127G1562' => 'vmu', 'VMungo1215G1918' => 'vmu', 'Zm00001eb052650' => 'zma', 'Zm00001eb063710' => 'zma', 'Zm00001eb083950' => 'zma', 'Zm00001eb174420' => 'zma', 'Zm00001eb260140' => 'zma', 'Zm00001eb260150' => 'zma', 'Zm00001eb260160' => 'zma', 'Zm00001eb348290' => 'zma', 'Zm00001eb366870' => 'zma', 'Zm00001eb421930' => 'zma' ) $gf_id = 'HOM05D001025' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001025' ) $data_identifier = 'HOM05D001025' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 19, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 2, 'amhyb' => (int) 4, 'aly' => (int) 4, 'aox' => (int) 4, 'arhy' => (int) 3, 'ath' => (int) 5, 'atr' => (int) 4, 'acertr' => (int) 3, 'cqu' => (int) 7, 'bca' => (int) 17, 'bol' => (int) 10, 'bra' => (int) 9, 'can' => (int) 10, 'cansat' => (int) 6, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 5, 'cbr' => (int) 5, 'ccan' => (int) 5, 'cde' => (int) 4, 'cfa' => (int) 3, 'ccl' => (int) 6, 'cil' => (int) 4, 'cla' => (int) 3, 'col' => (int) 3, 'cpa' => (int) 3, 'cre' => (int) 7, 'csa' => (int) 5, 'camsi' => (int) 9, 'dca' => (int) 4, 'din' => (int) 5, 'dzi' => (int) 7, 'eca' => (int) 6, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 12, 'fve' => (int) 4, 'gma' => (int) 12, 'ghi' => (int) 17, 'gra' => (int) 9, 'vvi' => (int) 2, 'han' => (int) 8, 'cav' => (int) 5, 'hma' => (int) 9, 'vpl' => (int) 4, 'sun' => (int) 2, 'lal' => (int) 9, 'lja' => (int) 5, 'lonja' => (int) 6, 'lsa' => (int) 3, 'mes' => (int) 8, 'mpo' => (int) 3, 'mbi' => (int) 4, 'mco' => (int) 3, 'mdo' => (int) 5, 'mtr' => (int) 7, 'cme' => (int) 6, 'egut' => (int) 7, 'ama' => (int) 3, 'nta' => (int) 12, 'nnu' => (int) 9, 'oeu' => (int) 4, 'osa' => (int) 7, 'pax' => (int) 9, 'pgr' => (int) 5, 'stu' => (int) 8, 'pvu' => (int) 6, 'ptr' => (int) 9, 'ppa' => (int) 9, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 7, 'pso' => (int) 10, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 3, 'sbr' => (int) 8, 'sbo' => (int) 5, 'sci' => (int) 5, 'sed' => (int) 4, 'sgi' => (int) 4, 'sas' => (int) 4, 'smo' => (int) 5, 'sly' => (int) 7, 'spe' => (int) 10, 'spa' => (int) 5, 'tar' => (int) 5, 'tha' => (int) 8, 'tca' => (int) 3, 'esa' => (int) 5, 'tpr' => (int) 6, 'twi' => (int) 6, 'ugi' => (int) 4, 'vma' => (int) 1, 'vmu' => (int) 7, 'zma' => (int) 10 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb421930' $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' => 'HOM05D001025', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '592', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p22650' => 'bna', 'A01p29720' => 'bna', 'A03p26560' => 'bna', 'A03p68820' => 'bna', 'A04p20980' => 'bna', 'A06p07730' => 'bna', 'A07p18260' => 'bna', 'A08p33710' => 'bna', 'A09p16970' => 'bna', 'A10p27490' => 'bna', 'Aa31LG1G17300' => 'aar', 'Aa31LG1G3910' => 'aar', 'Aa31LG2G9630' => 'aar', 'Aa31LG5G8360' => 'aar', 'Aa31LG9G2410' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4699' => 'aag', 'Actinidia23512' => 'ach', 'Actinidia37080' => 'ach', 'Ah.01g020380' => 'amhyb', 'Ah.08g215710' => 'amhyb', 'Ah.09g225110' => 'amhyb', 'Ah.10g036680' => 'amhyb', 'AL1G21940' => 'aly', 'AL2G15540' => 'aly', 'AL4G21520' => 'aly', 'AL7G40960' => 'aly', 'Aqoxy2G01191' => 'aox', 'Aqoxy2G03393' => 'aox', 'Aqoxy4G02775' => 'aox', 'Aqoxy6G00058' => 'aox', 'arahy.Tifrunner.gnm1.ann1.9X74H2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CW3FX9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R485W7' => 'arhy', 'AT1G10960' => 'ath', 'AT1G60950' => 'ath', 'AT2G27510' => 'ath', 'AT4G14890' => 'ath', 'AT5G10000' => 'ath', 'ATR0665G624' => 'atr', 'ATR0697G138' => 'atr', 'ATR0776G046' => 'atr', 'ATR1134G135' => 'atr', 'Atru.chr12.1025' => 'acertr', 'Atru.chr3.3241' => 'acertr', 'Atru.chr4.2460' => 'acertr', 'AUR62007427' => 'cqu', 'AUR62010960' => 'cqu', 'AUR62012201' => 'cqu', 'AUR62021470' => 'cqu', 'AUR62022834' => 'cqu', 'AUR62033635' => 'cqu', 'AUR62036186' => 'cqu', 'BcaB01g03077' => 'bca', 'BcaB02g10093' => 'bca', 'BcaB04g20295' => 'bca', 'BcaB06g28147' => 'bca', 'BcaB07g31253' => 'bca', 'BcaC01g04946' => 'bca', 'BcaC02g10614' => 'bca', 'BcaC02g10885' => 'bca', 'BcaC04g19356' => 'bca', 'BcaC04g22297' => 'bca', 'BcaC05g24977' => 'bca', 'BcaC06g31823' => 'bca', 'BcaC07g38633' => 'bca', 'BcaC09g49353' => 'bca', 'BcaC09g50168' => 'bca', 'BcaNung00322' => 'bca', 'BcaNung04769' => 'bca', 'BolC1t02753H' => 'bol', 'BolC1t03721H' => 'bol', 'BolC3t15525H' => 'bol', 'BolC4t23903H' => 'bol', 'BolC4t24231H' => 'bol', 'BolC4t27209H' => 'bol', 'BolC5t29671H' => 'bol', 'BolC8t49044H' => 'bol', 'BolC9t54999H' => 'bol', 'BolC9t59517H' => 'bol', 'BraA01t02178Z' => 'bra', 'BraA01t03099Z' => 'bra', 'BraA03t11867Z' => 'bra', 'BraA04t17667Z' => 'bra', 'BraA07t29542Z' => 'bra', 'BraA08t35287Z' => 'bra', 'BraA09t37334Z' => 'bra', 'BraA10t44801Z' => 'bra', 'BraSC39t46181Z' => 'bra', 'C01p28240' => 'bna', 'C01p37530' => 'bna', 'C03p31820' => 'bna', 'C04p24080' => 'bna', 'C04p25790' => 'bna', 'C04p56770' => 'bna', 'C05p09310' => 'bna', 'C09p21010' => 'bna', 'C09p67560' => 'bna', 'CAN.G1324.7' => 'can', 'CAN.G1358.10' => 'can', 'CAN.G1550.2' => 'can', 'CAN.G186.56' => 'can', 'CAN.G1965.1' => 'can', 'CAN.G645.15' => 'can', 'CAN.G798.26' => 'can', 'CAN.G798.27' => 'can', 'CAN.G798.29' => 'can', 'CAN.G919.31' => 'can', 'CANSAT11G0133' => 'cansat', 'CANSAT11G1171' => 'cansat', 'CANSAT11G2056' => 'cansat', 'CANSAT56G1202' => 'cansat', 'CANSAT56G1514' => 'cansat', 'CANSAT78G0455' => 'cansat', 'CARHR011190' => 'chi', 'CARHR051980' => 'chi', 'CARHR120170' => 'chi', 'CARHR203310' => 'chi', 'CARHR221490' => 'chi', 'Carub.0001s1054' => 'cru', 'Carub.0002s0431' => 'cru', 'Carub.0004s0818' => 'cru', 'Carub.0006s0846' => 'cru', 'Carub.0007s2722' => 'cru', 'Ca_00058_v3' => 'car', 'Ca_17831_v3' => 'car', 'Ca_19408_v3' => 'car', 'Ca_24397_v3' => 'car', 'Ca_25664_v3' => 'car', 'CBR_g21818' => 'cbr', 'CBR_g31195' => 'cbr', 'CBR_g32282' => 'cbr', 'CBR_g39599' => 'cbr', 'CBR_g49410' => 'cbr', 'Cc01_g09120' => 'ccan', 'Cc01_g09130' => 'ccan', 'Cc02_g09630' => 'ccan', 'Cc02_g22810' => 'ccan', 'Cc03_g03810' => 'ccan', 'CDE02G3718' => 'cde', 'CDE04G3183' => 'cde', 'CDE07G1046' => 'cde', 'CDE08G0480' => 'cde', 'Cfa005493' => 'cfa', 'Cfa010312' => 'cfa', 'Cfa015648' => 'cfa', 'Ciclev10002793m.g' => 'ccl', 'Ciclev10003356m.g' => 'ccl', 'Ciclev10006141m.g' => 'ccl', 'Ciclev10016676m.g' => 'ccl', 'Ciclev10017081m.g' => 'ccl', 'Ciclev10029499m.g' => 'ccl', 'CiPaw.01G166300' => 'cil', 'CiPaw.06G145600' => 'cil', 'CiPaw.13G040100' => 'cil', 'CiPaw.13G135800' => 'cil', 'ClCG01G012230' => 'cla', 'ClCG05G009510' => 'cla', 'ClCG08G008270' => 'cla', 'COL.COLO4_11763' => 'col', 'COL.COLO4_19876' => 'col', 'COL.COLO4_21481' => 'col', 'Cpa.g.sc118.34' => 'cpa', 'Cpa.g.sc32.13' => 'cpa', 'Cpa.g.sc58.103' => 'cpa', 'Cre03.g183850' => 'cre', 'Cre06.g306350' => 'cre', 'Cre07.g334800' => 'cre', 'Cre12.g487900' => 'cre', 'Cre14.g626700' => 'cre', 'Cre16.g658400' => 'cre', 'Cre17.g700950' => 'cre', 'CsaV3_1G014830' => 'csa', 'CsaV3_3G013320' => 'csa', 'CsaV3_3G019210' => 'csa', 'CsaV3_3G019220' => 'csa', 'CsaV3_6G004230' => 'csa', 'CSS0003773' => 'camsi', 'CSS0004563' => 'camsi', 'CSS0013949' => 'camsi', 'CSS0025971' => 'camsi', 'CSS0028570' => 'camsi', 'CSS0033127' => 'camsi', 'CSS0036051' => 'camsi', 'CSS0040087' => 'camsi', 'CSS0043179' => 'camsi', 'DCAR_006161' => 'dca', 'DCAR_010351' => 'dca', 'DCAR_012197' => 'dca', 'DCAR_024162' => 'dca', 'Dinv01030' => 'din', 'Dinv10924' => 'din', 'Dinv11835' => 'din', 'Dinv22841' => 'din', 'Dinv42553' => 'din', 'Duzib052G0560' => 'dzi', 'Duzib132G0389' => 'dzi', 'Duzib150G1181' => 'dzi', 'Duzib168G0623' => 'dzi', 'Duzib170G1036' => 'dzi', 'Duzib212G0200' => 'dzi', 'Duzib248G0194' => 'dzi', 'ECA232G2193' => 'eca', 'ECA233G0302' => 'eca', 'ECA234G2813' => 'eca', 'ECA234G4866' => 'eca', 'ECA240G3932' => 'eca', 'ECA248G0385' => 'eca', 'EL10Ac2g04781' => 'bvu', 'EL10Ac3g06445' => 'bvu', 'EL10Ac7g15825' => 'bvu', 'EL10Ac8g18550' => 'bvu', 'Eucgr.B03849' => 'egr', 'Eucgr.I02744' => 'egr', 'Eucgr.J00264' => 'egr', 'Eucgr.J00493' => 'egr', 'FAN04G2181' => 'fan', 'FAN07G2666' => 'fan', 'FAN11G0024' => 'fan', 'FAN12G1105' => 'fan', 'FAN13G0302' => 'fan', 'FAN15G2781' => 'fan', 'FAN16G1274' => 'fan', 'FAN17G2988' => 'fan', 'FAN18G2621' => 'fan', 'FAN21G0013' => 'fan', 'FAN22G1211' => 'fan', 'FAN25G3626' => 'fan', 'FvH4_2g09491' => 'fve', 'FvH4_3g24910' => 'fve', 'FvH4_4g15630' => 'fve', 'FvH4_5g28820' => 'fve', 'Glyma.01G238000' => 'gma', 'Glyma.05G168400' => 'gma', 'Glyma.08G126800' => 'gma', 'Glyma.08G188500' => 'gma', 'Glyma.10G278900' => 'gma', 'Glyma.11G005700' => 'gma', 'Glyma.11G183300' => 'gma', 'Glyma.12G089200' => 'gma', 'Glyma.12G169400' => 'gma', 'Glyma.12G169500' => 'gma', 'Glyma.12G169600' => 'gma', 'Glyma.20G110800' => 'gma', 'Gohir.A03G192900' => 'ghi', 'Gohir.A03G193000' => 'ghi', 'Gohir.A05G080700' => 'ghi', 'Gohir.A09G216000' => 'ghi', 'Gohir.A12G027700' => 'ghi', 'Gohir.A13G036200' => 'ghi', 'Gohir.A13G222600' => 'ghi', 'Gohir.D02G213900' => 'ghi', 'Gohir.D02G214000' => 'ghi', 'Gohir.D05G083700' => 'ghi', 'Gohir.D05G083800' => 'ghi', 'Gohir.D05G083850' => 'ghi', 'Gohir.D08G015400' => 'ghi', 'Gohir.D09G218400' => 'ghi', 'Gohir.D12G027100' => 'ghi', 'Gohir.D13G034500' => 'ghi', 'Gohir.D13G227400' => 'ghi', 'Gorai.005G241800' => 'gra', 'Gorai.005G241900' => 'gra', 'Gorai.006G239400' => 'gra', 'Gorai.008G027600' => 'gra', 'Gorai.009G085400' => 'gra', 'Gorai.009G085500' => 'gra', 'Gorai.013G039000' => 'gra', 'Gorai.013G194800' => 'gra', 'Gorai.013G257900' => 'gra', 'GSVIVG01000982001' => 'vvi', 'GSVIVG01017981001' => 'vvi', 'HanXRQChr01g0024061' => 'han', 'HanXRQChr09g0247831' => 'han', 'HanXRQChr10g0294611' => 'han', 'HanXRQChr10g0294621' => 'han', 'HanXRQChr11g0346821' => 'han', 'HanXRQChr13g0397461' => 'han', 'HanXRQChr16g0513651' => 'han', 'HanXRQChr16g0513701' => 'han', 'Haze_00897' => 'cav', 'Haze_01745' => 'cav', 'Haze_02486' => 'cav', 'Haze_02487' => 'cav', 'Haze_23374' => 'cav', 'Hma1.2p1_0578F.1_g182520' => 'hma', 'Hma1.2p1_0602F.1_g187350' => 'hma', 'Hma1.2p1_0602F.1_g187360' => 'hma', 'Hma1.2p1_0874F.1_g231320' => 'hma', 'Hma1.2p1_1197F.1_g266210' => 'hma', 'Hma1.2p1_1197F.1_g266220' => 'hma', 'Hma1.2p1_2167F.1_g315895' => 'hma', 'Hma1.2p1_2190F.1_g316640' => 'hma', 'Hma1.2p1_3645F.1_g337153' => 'hma', 'HPP92_004907' => 'vpl', 'HPP92_012134' => 'vpl', 'HPP92_025136' => 'vpl', 'HPP92_026087' => 'vpl', 'Hund06782' => 'sun', 'Hund06784' => 'sun', 'Lalb_Chr01g0004861' => 'lal', 'Lalb_Chr02g0140591' => 'lal', 'Lalb_Chr02g0140611' => 'lal', 'Lalb_Chr03g0028101' => 'lal', 'Lalb_Chr07g0185791' => 'lal', 'Lalb_Chr12g0204491' => 'lal', 'Lalb_Chr13g0295671' => 'lal', 'Lalb_Chr19g0136461' => 'lal', 'Lalb_Chr21g0309191' => 'lal', 'Lj1g0028158' => 'lja', 'Lj1P236T38' => 'lonja', 'Lj2C32G2' => 'lonja', 'Lj2P944T8' => 'lonja', 'Lj2P963T15' => 'lonja', 'Lj3g0011788' => 'lja', 'Lj4g0025027' => 'lja', 'Lj5P255T36' => 'lonja', 'Lj6g0018866' => 'lja', 'Lj6P608T31' => 'lonja', 'LjContig00408g0008879' => 'lja', 'Lsat_1_v5_gn_5_105820' => 'lsa', 'Lsat_1_v5_gn_6_38800' => 'lsa', 'Lsat_1_v5_gn_7_67141' => 'lsa', 'Manes.04G003400' => 'mes', 'Manes.07G020000' => 'mes', 'Manes.07G020100' => 'mes', 'Manes.07G020150' => 'mes', 'Manes.10G061500' => 'mes', 'Manes.10G123200' => 'mes', 'Manes.11G161900' => 'mes', 'Manes.15G029300' => 'mes', 'Mapoly0071s0018' => 'mpo', 'Mapoly0082s0023' => 'mpo', 'Mapoly3477s0001' => 'mpo', 'MBI05_g31233_MAGBIO' => 'mbi', 'MBI09_g05946_MAGBIO' => 'mbi', 'MBI09_g05947_MAGBIO' => 'mbi', 'MBI17_g08346_MAGBIO' => 'mbi', 'MCO04G038' => 'mco', 'MCO09G370' => 'mco', 'MCO13G605' => 'mco', 'MD00G1075500' => 'mdo', 'MD03G1144300' => 'mdo', 'MD08G1236800' => 'mdo', 'MD13G1193300' => 'mdo', 'MD15G1428700' => 'mdo', 'Medtr1g112030' => 'mtr', 'Medtr1g112050' => 'mtr', 'Medtr2g006290' => 'mtr', 'Medtr2g086510' => 'mtr', 'Medtr4g053120' => 'mtr', 'Medtr5g006320' => 'mtr', 'Medtr8g088720' => 'mtr', 'MELO3C004712.2' => 'cme', 'MELO3C006533.2' => 'cme', 'MELO3C019438.2' => 'cme', 'MELO3C019440.2' => 'cme', 'MELO3C019441.2' => 'cme', 'MELO3C019895.2' => 'cme', 'Migut.B00811' => 'egut', 'Migut.D02447' => 'egut', 'Migut.F00875' => 'egut', 'Migut.N00186' => 'egut', 'Migut.N01051' => 'egut', 'Migut.N02491' => 'egut', 'Migut.O00784' => 'egut', 'MSTRG.12367' => 'ama', 'MSTRG.18756' => 'ama', 'MSTRG.21042' => 'ama', 'Nitab4.5_0000559g0040' => 'nta', 'Nitab4.5_0000667g0190' => 'nta', 'Nitab4.5_0000755g0160' => 'nta', 'Nitab4.5_0001216g0080' => 'nta', 'Nitab4.5_0004069g0040' => 'nta', 'Nitab4.5_0004129g0010' => 'nta', 'Nitab4.5_0005744g0030' => 'nta', 'Nitab4.5_0006996g0030' => 'nta', 'Nitab4.5_0008971g0040' => 'nta', 'Nitab4.5_0009769g0020' => 'nta', 'Nitab4.5_0009833g0010' => 'nta', 'Nitab4.5_0013140g0020' => 'nta', 'Nn003s41376' => 'nnu', 'Nn1g01857' => 'nnu', 'Nn1g03611' => 'nnu', 'Nn1g06853' => 'nnu', 'Nn3g18360' => 'nnu', 'Nn4g26328' => 'nnu', 'Nn5g27531' => 'nnu', 'Nn6g34899' => 'nnu', 'Nn7g36299' => 'nnu', 'Oeu021485.1' => 'oeu', 'Oeu022433.1' => 'oeu', 'Oeu032111.1' => 'oeu', 'Oeu051608.1' => 'oeu', 'Os01g0860601' => 'osa', 'Os03g0659200' => 'osa', 'Os03g0835900' => 'osa', 'Os04g0412200' => 'osa', 'Os05g0443500' => 'osa', 'Os07g0251500' => 'osa', 'Os08g0104600' => 'osa', 'Peaxi162Scf00003g00047' => 'pax', 'Peaxi162Scf00003g00052' => 'pax', 'Peaxi162Scf00003g00394' => 'pax', 'Peaxi162Scf00091g00621' => 'pax', 'Peaxi162Scf00152g00146' => 'pax', 'Peaxi162Scf00173g00025' => 'pax', 'Peaxi162Scf00195g00102' => 'pax', 'Peaxi162Scf00402g00013' => 'pax', 'Peaxi162Scf00519g00618' => 'pax', 'PGR004G2838' => 'pgr', 'PGR044G2275' => 'pgr', 'PGR102G1377' => 'pgr', 'PGR119G1245' => 'pgr', 'PGR142G4449' => 'pgr', 'PGSC0003DMG400004532' => 'stu', 'PGSC0003DMG400011950' => 'stu', 'PGSC0003DMG400023391' => 'stu', 'PGSC0003DMG400023985' => 'stu', 'PGSC0003DMG400026360' => 'stu', 'PGSC0003DMG400035711' => 'stu', 'PGSC0003DMG400037286' => 'stu', 'PGSC0003DMG402005881' => 'stu', 'Phvul.002G045400' => 'pvu', 'Phvul.006G216600' => 'pvu', 'Phvul.006G216700' => 'pvu', 'Phvul.006G216800' => 'pvu', 'Phvul.007G022500' => 'pvu', 'Phvul.011G094400' => 'pvu', 'Potri.001G470700' => 'ptr', 'Potri.003G015200' => 'ptr', 'Potri.004G202500' => 'ptr', 'Potri.004G218400' => 'ptr', 'Potri.008G020100' => 'ptr', 'Potri.008G153200' => 'ptr', 'Potri.009G163800' => 'ptr', 'Potri.010G087300' => 'ptr', 'Potri.010G239100' => 'ptr', 'Pp3c10_16100' => 'ppa', 'Pp3c10_16880' => 'ppa', 'Pp3c16_6230' => 'ppa', 'Pp3c17_18910' => 'ppa', 'Pp3c3_22119' => 'ppa', 'Pp3c3_22140' => 'ppa', 'Pp3c4_8159' => 'ppa', 'Pp3c4_8171' => 'ppa', 'Pp3c4_8330' => 'ppa', 'PRCOL_00004098' => 'pco', 'Prupe.1G013900' => 'ppe', 'Prupe.1G226300' => 'ppe', 'Prupe.1G573600' => 'ppe', 'Prupe.6G130100' => 'ppe', 'Psat3g090040' => 'psa', 'Psat4g210440' => 'psa', 'Psat6g231040' => 'psa', 'Psat6g231080' => 'psa', 'Psat7g063000' => 'psa', 'Psat7g188000' => 'psa', 'Psat7g188040' => 'psa', 'PSO017G0206' => 'pso', 'PSO170G0501' => 'pso', 'PSO170G6422' => 'pso', 'PSO210G7739' => 'pso', 'PSO339G1808' => 'pso', 'PSO339G6135' => 'pso', 'PSO384G0010' => 'pso', 'PSO384G0964' => 'pso', 'PSO761G0050' => 'pso', 'PSO782G4085' => 'pso', 'QL01p012264' => 'qlo', 'QL02p099491' => 'qlo', 'QL03p033868' => 'qlo', 'QL04p046678' => 'qlo', 'QL06p002448' => 'qlo', 'RcHm_v2.0_Chr4g0416181' => 'rch', 'RcHm_v2.0_Chr5g0044701' => 'rch', 'RcHm_v2.0_Chr6g0265781' => 'rch', 'RcHm_v2.0_Chr7g0221031' => 'rch', 'Rhsim04G0202000' => 'rsi', 'Rhsim11G0127300' => 'rsi', 'Rhsim13G0111800' => 'rsi', 'Sabra01G0165600' => 'sbr', 'Sabra03G0008300' => 'sbr', 'Sabra04G0136900' => 'sbr', 'Sabra08G0013400' => 'sbr', 'Sabra08G0116800' => 'sbr', 'Sabra09G0128000' => 'sbr', 'Sabra10G0055500' => 'sbr', 'Sabra10G0073300' => 'sbr', 'SalBow3G0385' => 'sbo', 'SalBow3G1119' => 'sbo', 'SalBow3G2005' => 'sbo', 'SalBow6G2563' => 'sbo', 'SalBow6G6386' => 'sbo', 'Sc06g0008800' => 'sci', 'Sc07g0004950' => 'sci', 'Sc09g0005340' => 'sci', 'Sc13g0004410' => 'sci', 'Sc21g0007090' => 'sci', 'Sed0009285' => 'sed', 'Sed0017583' => 'sed', 'Sed0019699' => 'sed', 'Sed0023107' => 'sed', 'SEGI_10916' => 'sgi', 'SEGI_16217' => 'sgi', 'SEGI_19466' => 'sgi', 'SEGI_41115' => 'sgi', 'SGA_v2.0_scaffold111G31534' => 'sas', 'SGA_v2.0_scaffold22G09864' => 'sas', 'SGA_v2.0_scaffold338G49219' => 'sas', 'SGA_v2.0_scaffold92G28298' => 'sas', 'SMO119G0064' => 'smo', 'SMO223G0038' => 'smo', 'SMO347G0584' => 'smo', 'SMO351G0010' => 'smo', 'SMO356G0404' => 'smo', 'Solyc01g103920.3' => 'sly', 'Solyc04g009710.2' => 'sly', 'Solyc05g055280.2' => 'sly', 'Solyc10g044520.3' => 'sly', 'Solyc10g075160.1' => 'sly', 'Solyc11g006910.3' => 'sly', 'Solyc11g068430.3' => 'sly', 'Sopen01g046310' => 'spe', 'Sopen03g001200' => 'spe', 'Sopen04g004830' => 'spe', 'Sopen05g033720' => 'spe', 'Sopen06g030740' => 'spe', 'Sopen10g013090' => 'spe', 'Sopen10g027630' => 'spe', 'Sopen10g027640' => 'spe', 'Sopen11g002820' => 'spe', 'Sopen11g027140' => 'spe', 'Sp1g09680' => 'spa', 'Sp2g03630' => 'spa', 'Sp4g10320' => 'spa', 'Sp6g33400' => 'spa', 'Sp7g13030' => 'spa', 'TAR365G0317' => 'tar', 'TAR376G0979' => 'tar', 'TAR623G1665' => 'tar', 'TAR633G2373' => 'tar', 'TAR636G1400' => 'tar', 'THA.LOC104800529' => 'tha', 'THA.LOC104808547' => 'tha', 'THA.LOC104809615' => 'tha', 'THA.LOC104815724' => 'tha', 'THA.LOC104818480' => 'tha', 'THA.LOC104819179' => 'tha', 'THA.LOC104822270' => 'tha', 'THA.LOC104826425' => 'tha', 'Thecc.02G089700' => 'tca', 'Thecc.04G232300' => 'tca', 'Thecc.09G283400' => 'tca', 'Thhalv10009020m.g' => 'esa', 'Thhalv10015506m.g' => 'esa', 'Thhalv10017364m.g' => 'esa', 'Thhalv10023742m.g' => 'esa', 'Thhalv10026483m.g' => 'esa', 'TPR.G17232' => 'tpr', 'TPR.G2133' => 'tpr', 'TPR.G2498' => 'tpr', 'TPR.G31942' => 'tpr', 'TPR.G37877' => 'tpr', 'TPR.G4571' => 'tpr', 'TWI14G1113' => 'twi', 'TWI15G0426' => 'twi', 'TWI31G1005' => 'twi', 'TWI38G0513' => 'twi', 'TWI38G1484' => 'twi', 'TWI73G1098' => 'twi', 'unitig_26.g10519' => 'ugi', 'unitig_736.g22395' => 'ugi', 'unitig_747.g21234' => 'ugi', 'unitig_747.g21942' => 'ugi', 'vmacro14351' => 'vma', 'VMungo0540G0082' => 'vmu', 'VMungo0540G0405' => 'vmu', 'VMungo0540G1486' => 'vmu', 'VMungo0540G1692' => 'vmu', 'VMungo0720G2473' => 'vmu', 'VMungo1127G1562' => 'vmu', 'VMungo1215G1918' => 'vmu', 'Zm00001eb052650' => 'zma', 'Zm00001eb063710' => 'zma', 'Zm00001eb083950' => 'zma', 'Zm00001eb174420' => 'zma', 'Zm00001eb260140' => 'zma', 'Zm00001eb260150' => 'zma', 'Zm00001eb260160' => 'zma', 'Zm00001eb348290' => 'zma', 'Zm00001eb366870' => 'zma', 'Zm00001eb421930' => 'zma' ), 'gf_id' => 'HOM05D001025', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001025' ), 'data_identifier' => 'HOM05D001025', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001025', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '592', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p22650' => 'bna', 'A01p29720' => 'bna', 'A03p26560' => 'bna', 'A03p68820' => 'bna', 'A04p20980' => 'bna', 'A06p07730' => 'bna', 'A07p18260' => 'bna', 'A08p33710' => 'bna', 'A09p16970' => 'bna', 'A10p27490' => 'bna', 'Aa31LG1G17300' => 'aar', 'Aa31LG1G3910' => 'aar', 'Aa31LG2G9630' => 'aar', 'Aa31LG5G8360' => 'aar', 'Aa31LG9G2410' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4699' => 'aag', 'Actinidia23512' => 'ach', 'Actinidia37080' => 'ach', 'Ah.01g020380' => 'amhyb', 'Ah.08g215710' => 'amhyb', 'Ah.09g225110' => 'amhyb', 'Ah.10g036680' => 'amhyb', 'AL1G21940' => 'aly', 'AL2G15540' => 'aly', 'AL4G21520' => 'aly', 'AL7G40960' => 'aly', 'Aqoxy2G01191' => 'aox', 'Aqoxy2G03393' => 'aox', 'Aqoxy4G02775' => 'aox', 'Aqoxy6G00058' => 'aox', 'arahy.Tifrunner.gnm1.ann1.9X74H2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CW3FX9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R485W7' => 'arhy', 'AT1G10960' => 'ath', 'AT1G60950' => 'ath', 'AT2G27510' => 'ath', 'AT4G14890' => 'ath', 'AT5G10000' => 'ath', 'ATR0665G624' => 'atr', 'ATR0697G138' => 'atr', 'ATR0776G046' => 'atr', 'ATR1134G135' => 'atr', 'Atru.chr12.1025' => 'acertr', 'Atru.chr3.3241' => 'acertr', 'Atru.chr4.2460' => 'acertr', 'AUR62007427' => 'cqu', 'AUR62010960' => 'cqu', 'AUR62012201' => 'cqu', 'AUR62021470' => 'cqu', 'AUR62022834' => 'cqu', 'AUR62033635' => 'cqu', 'AUR62036186' => 'cqu', 'BcaB01g03077' => 'bca', 'BcaB02g10093' => 'bca', 'BcaB04g20295' => 'bca', 'BcaB06g28147' => 'bca', 'BcaB07g31253' => 'bca', 'BcaC01g04946' => 'bca', 'BcaC02g10614' => 'bca', 'BcaC02g10885' => 'bca', 'BcaC04g19356' => 'bca', 'BcaC04g22297' => 'bca', 'BcaC05g24977' => 'bca', 'BcaC06g31823' => 'bca', 'BcaC07g38633' => 'bca', 'BcaC09g49353' => 'bca', 'BcaC09g50168' => 'bca', 'BcaNung00322' => 'bca', 'BcaNung04769' => 'bca', 'BolC1t02753H' => 'bol', 'BolC1t03721H' => 'bol', 'BolC3t15525H' => 'bol', 'BolC4t23903H' => 'bol', 'BolC4t24231H' => 'bol', 'BolC4t27209H' => 'bol', 'BolC5t29671H' => 'bol', 'BolC8t49044H' => 'bol', 'BolC9t54999H' => 'bol', 'BolC9t59517H' => 'bol', 'BraA01t02178Z' => 'bra', 'BraA01t03099Z' => 'bra', 'BraA03t11867Z' => 'bra', 'BraA04t17667Z' => 'bra', 'BraA07t29542Z' => 'bra', 'BraA08t35287Z' => 'bra', 'BraA09t37334Z' => 'bra', 'BraA10t44801Z' => 'bra', 'BraSC39t46181Z' => 'bra', 'C01p28240' => 'bna', 'C01p37530' => 'bna', 'C03p31820' => 'bna', 'C04p24080' => 'bna', 'C04p25790' => 'bna', 'C04p56770' => 'bna', 'C05p09310' => 'bna', 'C09p21010' => 'bna', 'C09p67560' => 'bna', 'CAN.G1324.7' => 'can', 'CAN.G1358.10' => 'can', 'CAN.G1550.2' => 'can', 'CAN.G186.56' => 'can', 'CAN.G1965.1' => 'can', 'CAN.G645.15' => 'can', 'CAN.G798.26' => 'can', 'CAN.G798.27' => 'can', 'CAN.G798.29' => 'can', 'CAN.G919.31' => 'can', 'CANSAT11G0133' => 'cansat', 'CANSAT11G1171' => 'cansat', 'CANSAT11G2056' => 'cansat', 'CANSAT56G1202' => 'cansat', 'CANSAT56G1514' => 'cansat', 'CANSAT78G0455' => 'cansat', 'CARHR011190' => 'chi', 'CARHR051980' => 'chi', 'CARHR120170' => 'chi', 'CARHR203310' => 'chi', 'CARHR221490' => 'chi', 'Carub.0001s1054' => 'cru', 'Carub.0002s0431' => 'cru', 'Carub.0004s0818' => 'cru', 'Carub.0006s0846' => 'cru', 'Carub.0007s2722' => 'cru', 'Ca_00058_v3' => 'car', 'Ca_17831_v3' => 'car', 'Ca_19408_v3' => 'car', 'Ca_24397_v3' => 'car', 'Ca_25664_v3' => 'car', 'CBR_g21818' => 'cbr', 'CBR_g31195' => 'cbr', 'CBR_g32282' => 'cbr', 'CBR_g39599' => 'cbr', 'CBR_g49410' => 'cbr', 'Cc01_g09120' => 'ccan', 'Cc01_g09130' => 'ccan', 'Cc02_g09630' => 'ccan', 'Cc02_g22810' => 'ccan', 'Cc03_g03810' => 'ccan', 'CDE02G3718' => 'cde', 'CDE04G3183' => 'cde', 'CDE07G1046' => 'cde', 'CDE08G0480' => 'cde', 'Cfa005493' => 'cfa', 'Cfa010312' => 'cfa', 'Cfa015648' => 'cfa', 'Ciclev10002793m.g' => 'ccl', 'Ciclev10003356m.g' => 'ccl', 'Ciclev10006141m.g' => 'ccl', 'Ciclev10016676m.g' => 'ccl', 'Ciclev10017081m.g' => 'ccl', 'Ciclev10029499m.g' => 'ccl', 'CiPaw.01G166300' => 'cil', 'CiPaw.06G145600' => 'cil', 'CiPaw.13G040100' => 'cil', 'CiPaw.13G135800' => 'cil', 'ClCG01G012230' => 'cla', 'ClCG05G009510' => 'cla', 'ClCG08G008270' => 'cla', 'COL.COLO4_11763' => 'col', 'COL.COLO4_19876' => 'col', 'COL.COLO4_21481' => 'col', 'Cpa.g.sc118.34' => 'cpa', 'Cpa.g.sc32.13' => 'cpa', 'Cpa.g.sc58.103' => 'cpa', 'Cre03.g183850' => 'cre', 'Cre06.g306350' => 'cre', 'Cre07.g334800' => 'cre', 'Cre12.g487900' => 'cre', 'Cre14.g626700' => 'cre', 'Cre16.g658400' => 'cre', 'Cre17.g700950' => 'cre', 'CsaV3_1G014830' => 'csa', 'CsaV3_3G013320' => 'csa', 'CsaV3_3G019210' => 'csa', 'CsaV3_3G019220' => 'csa', 'CsaV3_6G004230' => 'csa', 'CSS0003773' => 'camsi', 'CSS0004563' => 'camsi', 'CSS0013949' => 'camsi', 'CSS0025971' => 'camsi', 'CSS0028570' => 'camsi', 'CSS0033127' => 'camsi', 'CSS0036051' => 'camsi', 'CSS0040087' => 'camsi', 'CSS0043179' => 'camsi', 'DCAR_006161' => 'dca', 'DCAR_010351' => 'dca', 'DCAR_012197' => 'dca', 'DCAR_024162' => 'dca', 'Dinv01030' => 'din', 'Dinv10924' => 'din', 'Dinv11835' => 'din', 'Dinv22841' => 'din', 'Dinv42553' => 'din', 'Duzib052G0560' => 'dzi', 'Duzib132G0389' => 'dzi', 'Duzib150G1181' => 'dzi', 'Duzib168G0623' => 'dzi', 'Duzib170G1036' => 'dzi', 'Duzib212G0200' => 'dzi', 'Duzib248G0194' => 'dzi', 'ECA232G2193' => 'eca', 'ECA233G0302' => 'eca', 'ECA234G2813' => 'eca', 'ECA234G4866' => 'eca', 'ECA240G3932' => 'eca', 'ECA248G0385' => 'eca', 'EL10Ac2g04781' => 'bvu', 'EL10Ac3g06445' => 'bvu', 'EL10Ac7g15825' => 'bvu', 'EL10Ac8g18550' => 'bvu', 'Eucgr.B03849' => 'egr', 'Eucgr.I02744' => 'egr', 'Eucgr.J00264' => 'egr', 'Eucgr.J00493' => 'egr', 'FAN04G2181' => 'fan', 'FAN07G2666' => 'fan', 'FAN11G0024' => 'fan', 'FAN12G1105' => 'fan', 'FAN13G0302' => 'fan', 'FAN15G2781' => 'fan', 'FAN16G1274' => 'fan', 'FAN17G2988' => 'fan', 'FAN18G2621' => 'fan', 'FAN21G0013' => 'fan', 'FAN22G1211' => 'fan', 'FAN25G3626' => 'fan', 'FvH4_2g09491' => 'fve', 'FvH4_3g24910' => 'fve', 'FvH4_4g15630' => 'fve', 'FvH4_5g28820' => 'fve', 'Glyma.01G238000' => 'gma', 'Glyma.05G168400' => 'gma', 'Glyma.08G126800' => 'gma', 'Glyma.08G188500' => 'gma', 'Glyma.10G278900' => 'gma', 'Glyma.11G005700' => 'gma', 'Glyma.11G183300' => 'gma', 'Glyma.12G089200' => 'gma', 'Glyma.12G169400' => 'gma', 'Glyma.12G169500' => 'gma', 'Glyma.12G169600' => 'gma', 'Glyma.20G110800' => 'gma', 'Gohir.A03G192900' => 'ghi', 'Gohir.A03G193000' => 'ghi', 'Gohir.A05G080700' => 'ghi', 'Gohir.A09G216000' => 'ghi', 'Gohir.A12G027700' => 'ghi', 'Gohir.A13G036200' => 'ghi', 'Gohir.A13G222600' => 'ghi', 'Gohir.D02G213900' => 'ghi', 'Gohir.D02G214000' => 'ghi', 'Gohir.D05G083700' => 'ghi', 'Gohir.D05G083800' => 'ghi', 'Gohir.D05G083850' => 'ghi', 'Gohir.D08G015400' => 'ghi', 'Gohir.D09G218400' => 'ghi', 'Gohir.D12G027100' => 'ghi', 'Gohir.D13G034500' => 'ghi', 'Gohir.D13G227400' => 'ghi', 'Gorai.005G241800' => 'gra', 'Gorai.005G241900' => 'gra', 'Gorai.006G239400' => 'gra', 'Gorai.008G027600' => 'gra', 'Gorai.009G085400' => 'gra', 'Gorai.009G085500' => 'gra', 'Gorai.013G039000' => 'gra', 'Gorai.013G194800' => 'gra', 'Gorai.013G257900' => 'gra', 'GSVIVG01000982001' => 'vvi', 'GSVIVG01017981001' => 'vvi', 'HanXRQChr01g0024061' => 'han', 'HanXRQChr09g0247831' => 'han', 'HanXRQChr10g0294611' => 'han', 'HanXRQChr10g0294621' => 'han', 'HanXRQChr11g0346821' => 'han', 'HanXRQChr13g0397461' => 'han', 'HanXRQChr16g0513651' => 'han', 'HanXRQChr16g0513701' => 'han', 'Haze_00897' => 'cav', 'Haze_01745' => 'cav', 'Haze_02486' => 'cav', 'Haze_02487' => 'cav', 'Haze_23374' => 'cav', 'Hma1.2p1_0578F.1_g182520' => 'hma', 'Hma1.2p1_0602F.1_g187350' => 'hma', 'Hma1.2p1_0602F.1_g187360' => 'hma', 'Hma1.2p1_0874F.1_g231320' => 'hma', 'Hma1.2p1_1197F.1_g266210' => 'hma', 'Hma1.2p1_1197F.1_g266220' => 'hma', 'Hma1.2p1_2167F.1_g315895' => 'hma', 'Hma1.2p1_2190F.1_g316640' => 'hma', 'Hma1.2p1_3645F.1_g337153' => 'hma', 'HPP92_004907' => 'vpl', 'HPP92_012134' => 'vpl', 'HPP92_025136' => 'vpl', 'HPP92_026087' => 'vpl', 'Hund06782' => 'sun', 'Hund06784' => 'sun', 'Lalb_Chr01g0004861' => 'lal', 'Lalb_Chr02g0140591' => 'lal', 'Lalb_Chr02g0140611' => 'lal', 'Lalb_Chr03g0028101' => 'lal', 'Lalb_Chr07g0185791' => 'lal', 'Lalb_Chr12g0204491' => 'lal', 'Lalb_Chr13g0295671' => 'lal', 'Lalb_Chr19g0136461' => 'lal', 'Lalb_Chr21g0309191' => 'lal', 'Lj1g0028158' => 'lja', 'Lj1P236T38' => 'lonja', 'Lj2C32G2' => 'lonja', 'Lj2P944T8' => 'lonja', 'Lj2P963T15' => 'lonja', 'Lj3g0011788' => 'lja', 'Lj4g0025027' => 'lja', 'Lj5P255T36' => 'lonja', 'Lj6g0018866' => 'lja', 'Lj6P608T31' => 'lonja', 'LjContig00408g0008879' => 'lja', 'Lsat_1_v5_gn_5_105820' => 'lsa', 'Lsat_1_v5_gn_6_38800' => 'lsa', 'Lsat_1_v5_gn_7_67141' => 'lsa', 'Manes.04G003400' => 'mes', 'Manes.07G020000' => 'mes', 'Manes.07G020100' => 'mes', 'Manes.07G020150' => 'mes', 'Manes.10G061500' => 'mes', 'Manes.10G123200' => 'mes', 'Manes.11G161900' => 'mes', 'Manes.15G029300' => 'mes', 'Mapoly0071s0018' => 'mpo', 'Mapoly0082s0023' => 'mpo', 'Mapoly3477s0001' => 'mpo', 'MBI05_g31233_MAGBIO' => 'mbi', 'MBI09_g05946_MAGBIO' => 'mbi', 'MBI09_g05947_MAGBIO' => 'mbi', 'MBI17_g08346_MAGBIO' => 'mbi', 'MCO04G038' => 'mco', 'MCO09G370' => 'mco', 'MCO13G605' => 'mco', 'MD00G1075500' => 'mdo', 'MD03G1144300' => 'mdo', 'MD08G1236800' => 'mdo', 'MD13G1193300' => 'mdo', 'MD15G1428700' => 'mdo', 'Medtr1g112030' => 'mtr', 'Medtr1g112050' => 'mtr', 'Medtr2g006290' => 'mtr', 'Medtr2g086510' => 'mtr', 'Medtr4g053120' => 'mtr', 'Medtr5g006320' => 'mtr', 'Medtr8g088720' => 'mtr', 'MELO3C004712.2' => 'cme', 'MELO3C006533.2' => 'cme', 'MELO3C019438.2' => 'cme', 'MELO3C019440.2' => 'cme', 'MELO3C019441.2' => 'cme', 'MELO3C019895.2' => 'cme', 'Migut.B00811' => 'egut', 'Migut.D02447' => 'egut', 'Migut.F00875' => 'egut', 'Migut.N00186' => 'egut', 'Migut.N01051' => 'egut', 'Migut.N02491' => 'egut', 'Migut.O00784' => 'egut', 'MSTRG.12367' => 'ama', 'MSTRG.18756' => 'ama', 'MSTRG.21042' => 'ama', 'Nitab4.5_0000559g0040' => 'nta', 'Nitab4.5_0000667g0190' => 'nta', 'Nitab4.5_0000755g0160' => 'nta', 'Nitab4.5_0001216g0080' => 'nta', 'Nitab4.5_0004069g0040' => 'nta', 'Nitab4.5_0004129g0010' => 'nta', 'Nitab4.5_0005744g0030' => 'nta', 'Nitab4.5_0006996g0030' => 'nta', 'Nitab4.5_0008971g0040' => 'nta', 'Nitab4.5_0009769g0020' => 'nta', 'Nitab4.5_0009833g0010' => 'nta', 'Nitab4.5_0013140g0020' => 'nta', 'Nn003s41376' => 'nnu', 'Nn1g01857' => 'nnu', 'Nn1g03611' => 'nnu', 'Nn1g06853' => 'nnu', 'Nn3g18360' => 'nnu', 'Nn4g26328' => 'nnu', 'Nn5g27531' => 'nnu', 'Nn6g34899' => 'nnu', 'Nn7g36299' => 'nnu', 'Oeu021485.1' => 'oeu', 'Oeu022433.1' => 'oeu', 'Oeu032111.1' => 'oeu', 'Oeu051608.1' => 'oeu', 'Os01g0860601' => 'osa', 'Os03g0659200' => 'osa', 'Os03g0835900' => 'osa', 'Os04g0412200' => 'osa', 'Os05g0443500' => 'osa', 'Os07g0251500' => 'osa', 'Os08g0104600' => 'osa', 'Peaxi162Scf00003g00047' => 'pax', 'Peaxi162Scf00003g00052' => 'pax', 'Peaxi162Scf00003g00394' => 'pax', 'Peaxi162Scf00091g00621' => 'pax', 'Peaxi162Scf00152g00146' => 'pax', 'Peaxi162Scf00173g00025' => 'pax', 'Peaxi162Scf00195g00102' => 'pax', 'Peaxi162Scf00402g00013' => 'pax', 'Peaxi162Scf00519g00618' => 'pax', 'PGR004G2838' => 'pgr', 'PGR044G2275' => 'pgr', 'PGR102G1377' => 'pgr', 'PGR119G1245' => 'pgr', 'PGR142G4449' => 'pgr', 'PGSC0003DMG400004532' => 'stu', 'PGSC0003DMG400011950' => 'stu', 'PGSC0003DMG400023391' => 'stu', 'PGSC0003DMG400023985' => 'stu', 'PGSC0003DMG400026360' => 'stu', 'PGSC0003DMG400035711' => 'stu', 'PGSC0003DMG400037286' => 'stu', 'PGSC0003DMG402005881' => 'stu', 'Phvul.002G045400' => 'pvu', 'Phvul.006G216600' => 'pvu', 'Phvul.006G216700' => 'pvu', 'Phvul.006G216800' => 'pvu', 'Phvul.007G022500' => 'pvu', 'Phvul.011G094400' => 'pvu', 'Potri.001G470700' => 'ptr', 'Potri.003G015200' => 'ptr', 'Potri.004G202500' => 'ptr', 'Potri.004G218400' => 'ptr', 'Potri.008G020100' => 'ptr', 'Potri.008G153200' => 'ptr', 'Potri.009G163800' => 'ptr', 'Potri.010G087300' => 'ptr', 'Potri.010G239100' => 'ptr', 'Pp3c10_16100' => 'ppa', 'Pp3c10_16880' => 'ppa', 'Pp3c16_6230' => 'ppa', 'Pp3c17_18910' => 'ppa', 'Pp3c3_22119' => 'ppa', 'Pp3c3_22140' => 'ppa', 'Pp3c4_8159' => 'ppa', 'Pp3c4_8171' => 'ppa', 'Pp3c4_8330' => 'ppa', 'PRCOL_00004098' => 'pco', 'Prupe.1G013900' => 'ppe', 'Prupe.1G226300' => 'ppe', 'Prupe.1G573600' => 'ppe', 'Prupe.6G130100' => 'ppe', 'Psat3g090040' => 'psa', 'Psat4g210440' => 'psa', 'Psat6g231040' => 'psa', 'Psat6g231080' => 'psa', 'Psat7g063000' => 'psa', 'Psat7g188000' => 'psa', 'Psat7g188040' => 'psa', 'PSO017G0206' => 'pso', 'PSO170G0501' => 'pso', 'PSO170G6422' => 'pso', 'PSO210G7739' => 'pso', 'PSO339G1808' => 'pso', 'PSO339G6135' => 'pso', 'PSO384G0010' => 'pso', 'PSO384G0964' => 'pso', 'PSO761G0050' => 'pso', 'PSO782G4085' => 'pso', 'QL01p012264' => 'qlo', 'QL02p099491' => 'qlo', 'QL03p033868' => 'qlo', 'QL04p046678' => 'qlo', 'QL06p002448' => 'qlo', 'RcHm_v2.0_Chr4g0416181' => 'rch', 'RcHm_v2.0_Chr5g0044701' => 'rch', 'RcHm_v2.0_Chr6g0265781' => 'rch', 'RcHm_v2.0_Chr7g0221031' => 'rch', 'Rhsim04G0202000' => 'rsi', 'Rhsim11G0127300' => 'rsi', 'Rhsim13G0111800' => 'rsi', 'Sabra01G0165600' => 'sbr', 'Sabra03G0008300' => 'sbr', 'Sabra04G0136900' => 'sbr', 'Sabra08G0013400' => 'sbr', 'Sabra08G0116800' => 'sbr', 'Sabra09G0128000' => 'sbr', 'Sabra10G0055500' => 'sbr', 'Sabra10G0073300' => 'sbr', 'SalBow3G0385' => 'sbo', 'SalBow3G1119' => 'sbo', 'SalBow3G2005' => 'sbo', 'SalBow6G2563' => 'sbo', 'SalBow6G6386' => 'sbo', 'Sc06g0008800' => 'sci', 'Sc07g0004950' => 'sci', 'Sc09g0005340' => 'sci', 'Sc13g0004410' => 'sci', 'Sc21g0007090' => 'sci', 'Sed0009285' => 'sed', 'Sed0017583' => 'sed', 'Sed0019699' => 'sed', 'Sed0023107' => 'sed', 'SEGI_10916' => 'sgi', 'SEGI_16217' => 'sgi', 'SEGI_19466' => 'sgi', 'SEGI_41115' => 'sgi', 'SGA_v2.0_scaffold111G31534' => 'sas', 'SGA_v2.0_scaffold22G09864' => 'sas', 'SGA_v2.0_scaffold338G49219' => 'sas', 'SGA_v2.0_scaffold92G28298' => 'sas', 'SMO119G0064' => 'smo', 'SMO223G0038' => 'smo', 'SMO347G0584' => 'smo', 'SMO351G0010' => 'smo', 'SMO356G0404' => 'smo', 'Solyc01g103920.3' => 'sly', 'Solyc04g009710.2' => 'sly', 'Solyc05g055280.2' => 'sly', 'Solyc10g044520.3' => 'sly', 'Solyc10g075160.1' => 'sly', 'Solyc11g006910.3' => 'sly', 'Solyc11g068430.3' => 'sly', 'Sopen01g046310' => 'spe', 'Sopen03g001200' => 'spe', 'Sopen04g004830' => 'spe', 'Sopen05g033720' => 'spe', 'Sopen06g030740' => 'spe', 'Sopen10g013090' => 'spe', 'Sopen10g027630' => 'spe', 'Sopen10g027640' => 'spe', 'Sopen11g002820' => 'spe', 'Sopen11g027140' => 'spe', 'Sp1g09680' => 'spa', 'Sp2g03630' => 'spa', 'Sp4g10320' => 'spa', 'Sp6g33400' => 'spa', 'Sp7g13030' => 'spa', 'TAR365G0317' => 'tar', 'TAR376G0979' => 'tar', 'TAR623G1665' => 'tar', 'TAR633G2373' => 'tar', 'TAR636G1400' => 'tar', 'THA.LOC104800529' => 'tha', 'THA.LOC104808547' => 'tha', 'THA.LOC104809615' => 'tha', 'THA.LOC104815724' => 'tha', 'THA.LOC104818480' => 'tha', 'THA.LOC104819179' => 'tha', 'THA.LOC104822270' => 'tha', 'THA.LOC104826425' => 'tha', 'Thecc.02G089700' => 'tca', 'Thecc.04G232300' => 'tca', 'Thecc.09G283400' => 'tca', 'Thhalv10009020m.g' => 'esa', 'Thhalv10015506m.g' => 'esa', 'Thhalv10017364m.g' => 'esa', 'Thhalv10023742m.g' => 'esa', 'Thhalv10026483m.g' => 'esa', 'TPR.G17232' => 'tpr', 'TPR.G2133' => 'tpr', 'TPR.G2498' => 'tpr', 'TPR.G31942' => 'tpr', 'TPR.G37877' => 'tpr', 'TPR.G4571' => 'tpr', 'TWI14G1113' => 'twi', 'TWI15G0426' => 'twi', 'TWI31G1005' => 'twi', 'TWI38G0513' => 'twi', 'TWI38G1484' => 'twi', 'TWI73G1098' => 'twi', 'unitig_26.g10519' => 'ugi', 'unitig_736.g22395' => 'ugi', 'unitig_747.g21234' => 'ugi', 'unitig_747.g21942' => 'ugi', 'vmacro14351' => 'vma', 'VMungo0540G0082' => 'vmu', 'VMungo0540G0405' => 'vmu', 'VMungo0540G1486' => 'vmu', 'VMungo0540G1692' => 'vmu', 'VMungo0720G2473' => 'vmu', 'VMungo1127G1562' => 'vmu', 'VMungo1215G1918' => 'vmu', 'Zm00001eb052650' => 'zma', 'Zm00001eb063710' => 'zma', 'Zm00001eb083950' => 'zma', 'Zm00001eb174420' => 'zma', 'Zm00001eb260140' => 'zma', 'Zm00001eb260150' => 'zma', 'Zm00001eb260160' => 'zma', 'Zm00001eb348290' => 'zma', 'Zm00001eb366870' => 'zma', 'Zm00001eb421930' => 'zma' ) $gf_id = 'HOM05D001025' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001025' ) $data_identifier = 'HOM05D001025' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 19, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 2, 'amhyb' => (int) 4, 'aly' => (int) 4, 'aox' => (int) 4, 'arhy' => (int) 3, 'ath' => (int) 5, 'atr' => (int) 4, 'acertr' => (int) 3, 'cqu' => (int) 7, 'bca' => (int) 17, 'bol' => (int) 10, 'bra' => (int) 9, 'can' => (int) 10, 'cansat' => (int) 6, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 5, 'cbr' => (int) 5, 'ccan' => (int) 5, 'cde' => (int) 4, 'cfa' => (int) 3, 'ccl' => (int) 6, 'cil' => (int) 4, 'cla' => (int) 3, 'col' => (int) 3, 'cpa' => (int) 3, 'cre' => (int) 7, 'csa' => (int) 5, 'camsi' => (int) 9, 'dca' => (int) 4, 'din' => (int) 5, 'dzi' => (int) 7, 'eca' => (int) 6, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 12, 'fve' => (int) 4, 'gma' => (int) 12, 'ghi' => (int) 17, 'gra' => (int) 9, 'vvi' => (int) 2, 'han' => (int) 8, 'cav' => (int) 5, 'hma' => (int) 9, 'vpl' => (int) 4, 'sun' => (int) 2, 'lal' => (int) 9, 'lja' => (int) 5, 'lonja' => (int) 6, 'lsa' => (int) 3, 'mes' => (int) 8, 'mpo' => (int) 3, 'mbi' => (int) 4, 'mco' => (int) 3, 'mdo' => (int) 5, 'mtr' => (int) 7, 'cme' => (int) 6, 'egut' => (int) 7, 'ama' => (int) 3, 'nta' => (int) 12, 'nnu' => (int) 9, 'oeu' => (int) 4, 'osa' => (int) 7, 'pax' => (int) 9, 'pgr' => (int) 5, 'stu' => (int) 8, 'pvu' => (int) 6, 'ptr' => (int) 9, 'ppa' => (int) 9, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 7, 'pso' => (int) 10, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 3, 'sbr' => (int) 8, 'sbo' => (int) 5, 'sci' => (int) 5, 'sed' => (int) 4, 'sgi' => (int) 4, 'sas' => (int) 4, 'smo' => (int) 5, 'sly' => (int) 7, 'spe' => (int) 10, 'spa' => (int) 5, 'tar' => (int) 5, 'tha' => (int) 8, 'tca' => (int) 3, 'esa' => (int) 5, 'tpr' => (int) 6, 'twi' => (int) 6, 'ugi' => (int) 4, 'vma' => (int) 1, 'vmu' => (int) 7, 'zma' => (int) 10 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb421930' $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' => 'HOM05D001025', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '592', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p22650' => 'bna', 'A01p29720' => 'bna', 'A03p26560' => 'bna', 'A03p68820' => 'bna', 'A04p20980' => 'bna', 'A06p07730' => 'bna', 'A07p18260' => 'bna', 'A08p33710' => 'bna', 'A09p16970' => 'bna', 'A10p27490' => 'bna', 'Aa31LG1G17300' => 'aar', 'Aa31LG1G3910' => 'aar', 'Aa31LG2G9630' => 'aar', 'Aa31LG5G8360' => 'aar', 'Aa31LG9G2410' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4699' => 'aag', 'Actinidia23512' => 'ach', 'Actinidia37080' => 'ach', 'Ah.01g020380' => 'amhyb', 'Ah.08g215710' => 'amhyb', 'Ah.09g225110' => 'amhyb', 'Ah.10g036680' => 'amhyb', 'AL1G21940' => 'aly', 'AL2G15540' => 'aly', 'AL4G21520' => 'aly', 'AL7G40960' => 'aly', 'Aqoxy2G01191' => 'aox', 'Aqoxy2G03393' => 'aox', 'Aqoxy4G02775' => 'aox', 'Aqoxy6G00058' => 'aox', 'arahy.Tifrunner.gnm1.ann1.9X74H2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CW3FX9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R485W7' => 'arhy', 'AT1G10960' => 'ath', 'AT1G60950' => 'ath', 'AT2G27510' => 'ath', 'AT4G14890' => 'ath', 'AT5G10000' => 'ath', 'ATR0665G624' => 'atr', 'ATR0697G138' => 'atr', 'ATR0776G046' => 'atr', 'ATR1134G135' => 'atr', 'Atru.chr12.1025' => 'acertr', 'Atru.chr3.3241' => 'acertr', 'Atru.chr4.2460' => 'acertr', 'AUR62007427' => 'cqu', 'AUR62010960' => 'cqu', 'AUR62012201' => 'cqu', 'AUR62021470' => 'cqu', 'AUR62022834' => 'cqu', 'AUR62033635' => 'cqu', 'AUR62036186' => 'cqu', 'BcaB01g03077' => 'bca', 'BcaB02g10093' => 'bca', 'BcaB04g20295' => 'bca', 'BcaB06g28147' => 'bca', 'BcaB07g31253' => 'bca', 'BcaC01g04946' => 'bca', 'BcaC02g10614' => 'bca', 'BcaC02g10885' => 'bca', 'BcaC04g19356' => 'bca', 'BcaC04g22297' => 'bca', 'BcaC05g24977' => 'bca', 'BcaC06g31823' => 'bca', 'BcaC07g38633' => 'bca', 'BcaC09g49353' => 'bca', 'BcaC09g50168' => 'bca', 'BcaNung00322' => 'bca', 'BcaNung04769' => 'bca', 'BolC1t02753H' => 'bol', 'BolC1t03721H' => 'bol', 'BolC3t15525H' => 'bol', 'BolC4t23903H' => 'bol', 'BolC4t24231H' => 'bol', 'BolC4t27209H' => 'bol', 'BolC5t29671H' => 'bol', 'BolC8t49044H' => 'bol', 'BolC9t54999H' => 'bol', 'BolC9t59517H' => 'bol', 'BraA01t02178Z' => 'bra', 'BraA01t03099Z' => 'bra', 'BraA03t11867Z' => 'bra', 'BraA04t17667Z' => 'bra', 'BraA07t29542Z' => 'bra', 'BraA08t35287Z' => 'bra', 'BraA09t37334Z' => 'bra', 'BraA10t44801Z' => 'bra', 'BraSC39t46181Z' => 'bra', 'C01p28240' => 'bna', 'C01p37530' => 'bna', 'C03p31820' => 'bna', 'C04p24080' => 'bna', 'C04p25790' => 'bna', 'C04p56770' => 'bna', 'C05p09310' => 'bna', 'C09p21010' => 'bna', 'C09p67560' => 'bna', 'CAN.G1324.7' => 'can', 'CAN.G1358.10' => 'can', 'CAN.G1550.2' => 'can', 'CAN.G186.56' => 'can', 'CAN.G1965.1' => 'can', 'CAN.G645.15' => 'can', 'CAN.G798.26' => 'can', 'CAN.G798.27' => 'can', 'CAN.G798.29' => 'can', 'CAN.G919.31' => 'can', 'CANSAT11G0133' => 'cansat', 'CANSAT11G1171' => 'cansat', 'CANSAT11G2056' => 'cansat', 'CANSAT56G1202' => 'cansat', 'CANSAT56G1514' => 'cansat', 'CANSAT78G0455' => 'cansat', 'CARHR011190' => 'chi', 'CARHR051980' => 'chi', 'CARHR120170' => 'chi', 'CARHR203310' => 'chi', 'CARHR221490' => 'chi', 'Carub.0001s1054' => 'cru', 'Carub.0002s0431' => 'cru', 'Carub.0004s0818' => 'cru', 'Carub.0006s0846' => 'cru', 'Carub.0007s2722' => 'cru', 'Ca_00058_v3' => 'car', 'Ca_17831_v3' => 'car', 'Ca_19408_v3' => 'car', 'Ca_24397_v3' => 'car', 'Ca_25664_v3' => 'car', 'CBR_g21818' => 'cbr', 'CBR_g31195' => 'cbr', 'CBR_g32282' => 'cbr', 'CBR_g39599' => 'cbr', 'CBR_g49410' => 'cbr', 'Cc01_g09120' => 'ccan', 'Cc01_g09130' => 'ccan', 'Cc02_g09630' => 'ccan', 'Cc02_g22810' => 'ccan', 'Cc03_g03810' => 'ccan', 'CDE02G3718' => 'cde', 'CDE04G3183' => 'cde', 'CDE07G1046' => 'cde', 'CDE08G0480' => 'cde', 'Cfa005493' => 'cfa', 'Cfa010312' => 'cfa', 'Cfa015648' => 'cfa', 'Ciclev10002793m.g' => 'ccl', 'Ciclev10003356m.g' => 'ccl', 'Ciclev10006141m.g' => 'ccl', 'Ciclev10016676m.g' => 'ccl', 'Ciclev10017081m.g' => 'ccl', 'Ciclev10029499m.g' => 'ccl', 'CiPaw.01G166300' => 'cil', 'CiPaw.06G145600' => 'cil', 'CiPaw.13G040100' => 'cil', 'CiPaw.13G135800' => 'cil', 'ClCG01G012230' => 'cla', 'ClCG05G009510' => 'cla', 'ClCG08G008270' => 'cla', 'COL.COLO4_11763' => 'col', 'COL.COLO4_19876' => 'col', 'COL.COLO4_21481' => 'col', 'Cpa.g.sc118.34' => 'cpa', 'Cpa.g.sc32.13' => 'cpa', 'Cpa.g.sc58.103' => 'cpa', 'Cre03.g183850' => 'cre', 'Cre06.g306350' => 'cre', 'Cre07.g334800' => 'cre', 'Cre12.g487900' => 'cre', 'Cre14.g626700' => 'cre', 'Cre16.g658400' => 'cre', 'Cre17.g700950' => 'cre', 'CsaV3_1G014830' => 'csa', 'CsaV3_3G013320' => 'csa', 'CsaV3_3G019210' => 'csa', 'CsaV3_3G019220' => 'csa', 'CsaV3_6G004230' => 'csa', 'CSS0003773' => 'camsi', 'CSS0004563' => 'camsi', 'CSS0013949' => 'camsi', 'CSS0025971' => 'camsi', 'CSS0028570' => 'camsi', 'CSS0033127' => 'camsi', 'CSS0036051' => 'camsi', 'CSS0040087' => 'camsi', 'CSS0043179' => 'camsi', 'DCAR_006161' => 'dca', 'DCAR_010351' => 'dca', 'DCAR_012197' => 'dca', 'DCAR_024162' => 'dca', 'Dinv01030' => 'din', 'Dinv10924' => 'din', 'Dinv11835' => 'din', 'Dinv22841' => 'din', 'Dinv42553' => 'din', 'Duzib052G0560' => 'dzi', 'Duzib132G0389' => 'dzi', 'Duzib150G1181' => 'dzi', 'Duzib168G0623' => 'dzi', 'Duzib170G1036' => 'dzi', 'Duzib212G0200' => 'dzi', 'Duzib248G0194' => 'dzi', 'ECA232G2193' => 'eca', 'ECA233G0302' => 'eca', 'ECA234G2813' => 'eca', 'ECA234G4866' => 'eca', 'ECA240G3932' => 'eca', 'ECA248G0385' => 'eca', 'EL10Ac2g04781' => 'bvu', 'EL10Ac3g06445' => 'bvu', 'EL10Ac7g15825' => 'bvu', 'EL10Ac8g18550' => 'bvu', 'Eucgr.B03849' => 'egr', 'Eucgr.I02744' => 'egr', 'Eucgr.J00264' => 'egr', 'Eucgr.J00493' => 'egr', 'FAN04G2181' => 'fan', 'FAN07G2666' => 'fan', 'FAN11G0024' => 'fan', 'FAN12G1105' => 'fan', 'FAN13G0302' => 'fan', 'FAN15G2781' => 'fan', 'FAN16G1274' => 'fan', 'FAN17G2988' => 'fan', 'FAN18G2621' => 'fan', 'FAN21G0013' => 'fan', 'FAN22G1211' => 'fan', 'FAN25G3626' => 'fan', 'FvH4_2g09491' => 'fve', 'FvH4_3g24910' => 'fve', 'FvH4_4g15630' => 'fve', 'FvH4_5g28820' => 'fve', 'Glyma.01G238000' => 'gma', 'Glyma.05G168400' => 'gma', 'Glyma.08G126800' => 'gma', 'Glyma.08G188500' => 'gma', 'Glyma.10G278900' => 'gma', 'Glyma.11G005700' => 'gma', 'Glyma.11G183300' => 'gma', 'Glyma.12G089200' => 'gma', 'Glyma.12G169400' => 'gma', 'Glyma.12G169500' => 'gma', 'Glyma.12G169600' => 'gma', 'Glyma.20G110800' => 'gma', 'Gohir.A03G192900' => 'ghi', 'Gohir.A03G193000' => 'ghi', 'Gohir.A05G080700' => 'ghi', 'Gohir.A09G216000' => 'ghi', 'Gohir.A12G027700' => 'ghi', 'Gohir.A13G036200' => 'ghi', 'Gohir.A13G222600' => 'ghi', 'Gohir.D02G213900' => 'ghi', 'Gohir.D02G214000' => 'ghi', 'Gohir.D05G083700' => 'ghi', 'Gohir.D05G083800' => 'ghi', 'Gohir.D05G083850' => 'ghi', 'Gohir.D08G015400' => 'ghi', 'Gohir.D09G218400' => 'ghi', 'Gohir.D12G027100' => 'ghi', 'Gohir.D13G034500' => 'ghi', 'Gohir.D13G227400' => 'ghi', 'Gorai.005G241800' => 'gra', 'Gorai.005G241900' => 'gra', 'Gorai.006G239400' => 'gra', 'Gorai.008G027600' => 'gra', 'Gorai.009G085400' => 'gra', 'Gorai.009G085500' => 'gra', 'Gorai.013G039000' => 'gra', 'Gorai.013G194800' => 'gra', 'Gorai.013G257900' => 'gra', 'GSVIVG01000982001' => 'vvi', 'GSVIVG01017981001' => 'vvi', 'HanXRQChr01g0024061' => 'han', 'HanXRQChr09g0247831' => 'han', 'HanXRQChr10g0294611' => 'han', 'HanXRQChr10g0294621' => 'han', 'HanXRQChr11g0346821' => 'han', 'HanXRQChr13g0397461' => 'han', 'HanXRQChr16g0513651' => 'han', 'HanXRQChr16g0513701' => 'han', 'Haze_00897' => 'cav', 'Haze_01745' => 'cav', 'Haze_02486' => 'cav', 'Haze_02487' => 'cav', 'Haze_23374' => 'cav', 'Hma1.2p1_0578F.1_g182520' => 'hma', 'Hma1.2p1_0602F.1_g187350' => 'hma', 'Hma1.2p1_0602F.1_g187360' => 'hma', 'Hma1.2p1_0874F.1_g231320' => 'hma', 'Hma1.2p1_1197F.1_g266210' => 'hma', 'Hma1.2p1_1197F.1_g266220' => 'hma', 'Hma1.2p1_2167F.1_g315895' => 'hma', 'Hma1.2p1_2190F.1_g316640' => 'hma', 'Hma1.2p1_3645F.1_g337153' => 'hma', 'HPP92_004907' => 'vpl', 'HPP92_012134' => 'vpl', 'HPP92_025136' => 'vpl', 'HPP92_026087' => 'vpl', 'Hund06782' => 'sun', 'Hund06784' => 'sun', 'Lalb_Chr01g0004861' => 'lal', 'Lalb_Chr02g0140591' => 'lal', 'Lalb_Chr02g0140611' => 'lal', 'Lalb_Chr03g0028101' => 'lal', 'Lalb_Chr07g0185791' => 'lal', 'Lalb_Chr12g0204491' => 'lal', 'Lalb_Chr13g0295671' => 'lal', 'Lalb_Chr19g0136461' => 'lal', 'Lalb_Chr21g0309191' => 'lal', 'Lj1g0028158' => 'lja', 'Lj1P236T38' => 'lonja', 'Lj2C32G2' => 'lonja', 'Lj2P944T8' => 'lonja', 'Lj2P963T15' => 'lonja', 'Lj3g0011788' => 'lja', 'Lj4g0025027' => 'lja', 'Lj5P255T36' => 'lonja', 'Lj6g0018866' => 'lja', 'Lj6P608T31' => 'lonja', 'LjContig00408g0008879' => 'lja', 'Lsat_1_v5_gn_5_105820' => 'lsa', 'Lsat_1_v5_gn_6_38800' => 'lsa', 'Lsat_1_v5_gn_7_67141' => 'lsa', 'Manes.04G003400' => 'mes', 'Manes.07G020000' => 'mes', 'Manes.07G020100' => 'mes', 'Manes.07G020150' => 'mes', 'Manes.10G061500' => 'mes', 'Manes.10G123200' => 'mes', 'Manes.11G161900' => 'mes', 'Manes.15G029300' => 'mes', 'Mapoly0071s0018' => 'mpo', 'Mapoly0082s0023' => 'mpo', 'Mapoly3477s0001' => 'mpo', 'MBI05_g31233_MAGBIO' => 'mbi', 'MBI09_g05946_MAGBIO' => 'mbi', 'MBI09_g05947_MAGBIO' => 'mbi', 'MBI17_g08346_MAGBIO' => 'mbi', 'MCO04G038' => 'mco', 'MCO09G370' => 'mco', 'MCO13G605' => 'mco', 'MD00G1075500' => 'mdo', 'MD03G1144300' => 'mdo', 'MD08G1236800' => 'mdo', 'MD13G1193300' => 'mdo', 'MD15G1428700' => 'mdo', 'Medtr1g112030' => 'mtr', 'Medtr1g112050' => 'mtr', 'Medtr2g006290' => 'mtr', 'Medtr2g086510' => 'mtr', 'Medtr4g053120' => 'mtr', 'Medtr5g006320' => 'mtr', 'Medtr8g088720' => 'mtr', 'MELO3C004712.2' => 'cme', 'MELO3C006533.2' => 'cme', 'MELO3C019438.2' => 'cme', 'MELO3C019440.2' => 'cme', 'MELO3C019441.2' => 'cme', 'MELO3C019895.2' => 'cme', 'Migut.B00811' => 'egut', 'Migut.D02447' => 'egut', 'Migut.F00875' => 'egut', 'Migut.N00186' => 'egut', 'Migut.N01051' => 'egut', 'Migut.N02491' => 'egut', 'Migut.O00784' => 'egut', 'MSTRG.12367' => 'ama', 'MSTRG.18756' => 'ama', 'MSTRG.21042' => 'ama', 'Nitab4.5_0000559g0040' => 'nta', 'Nitab4.5_0000667g0190' => 'nta', 'Nitab4.5_0000755g0160' => 'nta', 'Nitab4.5_0001216g0080' => 'nta', 'Nitab4.5_0004069g0040' => 'nta', 'Nitab4.5_0004129g0010' => 'nta', 'Nitab4.5_0005744g0030' => 'nta', 'Nitab4.5_0006996g0030' => 'nta', 'Nitab4.5_0008971g0040' => 'nta', 'Nitab4.5_0009769g0020' => 'nta', 'Nitab4.5_0009833g0010' => 'nta', 'Nitab4.5_0013140g0020' => 'nta', 'Nn003s41376' => 'nnu', 'Nn1g01857' => 'nnu', 'Nn1g03611' => 'nnu', 'Nn1g06853' => 'nnu', 'Nn3g18360' => 'nnu', 'Nn4g26328' => 'nnu', 'Nn5g27531' => 'nnu', 'Nn6g34899' => 'nnu', 'Nn7g36299' => 'nnu', 'Oeu021485.1' => 'oeu', 'Oeu022433.1' => 'oeu', 'Oeu032111.1' => 'oeu', 'Oeu051608.1' => 'oeu', 'Os01g0860601' => 'osa', 'Os03g0659200' => 'osa', 'Os03g0835900' => 'osa', 'Os04g0412200' => 'osa', 'Os05g0443500' => 'osa', 'Os07g0251500' => 'osa', 'Os08g0104600' => 'osa', 'Peaxi162Scf00003g00047' => 'pax', 'Peaxi162Scf00003g00052' => 'pax', 'Peaxi162Scf00003g00394' => 'pax', 'Peaxi162Scf00091g00621' => 'pax', 'Peaxi162Scf00152g00146' => 'pax', 'Peaxi162Scf00173g00025' => 'pax', 'Peaxi162Scf00195g00102' => 'pax', 'Peaxi162Scf00402g00013' => 'pax', 'Peaxi162Scf00519g00618' => 'pax', 'PGR004G2838' => 'pgr', 'PGR044G2275' => 'pgr', 'PGR102G1377' => 'pgr', 'PGR119G1245' => 'pgr', 'PGR142G4449' => 'pgr', 'PGSC0003DMG400004532' => 'stu', 'PGSC0003DMG400011950' => 'stu', 'PGSC0003DMG400023391' => 'stu', 'PGSC0003DMG400023985' => 'stu', 'PGSC0003DMG400026360' => 'stu', 'PGSC0003DMG400035711' => 'stu', 'PGSC0003DMG400037286' => 'stu', 'PGSC0003DMG402005881' => 'stu', 'Phvul.002G045400' => 'pvu', 'Phvul.006G216600' => 'pvu', 'Phvul.006G216700' => 'pvu', 'Phvul.006G216800' => 'pvu', 'Phvul.007G022500' => 'pvu', 'Phvul.011G094400' => 'pvu', 'Potri.001G470700' => 'ptr', 'Potri.003G015200' => 'ptr', 'Potri.004G202500' => 'ptr', 'Potri.004G218400' => 'ptr', 'Potri.008G020100' => 'ptr', 'Potri.008G153200' => 'ptr', 'Potri.009G163800' => 'ptr', 'Potri.010G087300' => 'ptr', 'Potri.010G239100' => 'ptr', 'Pp3c10_16100' => 'ppa', 'Pp3c10_16880' => 'ppa', 'Pp3c16_6230' => 'ppa', 'Pp3c17_18910' => 'ppa', 'Pp3c3_22119' => 'ppa', 'Pp3c3_22140' => 'ppa', 'Pp3c4_8159' => 'ppa', 'Pp3c4_8171' => 'ppa', 'Pp3c4_8330' => 'ppa', 'PRCOL_00004098' => 'pco', 'Prupe.1G013900' => 'ppe', 'Prupe.1G226300' => 'ppe', 'Prupe.1G573600' => 'ppe', 'Prupe.6G130100' => 'ppe', 'Psat3g090040' => 'psa', 'Psat4g210440' => 'psa', 'Psat6g231040' => 'psa', 'Psat6g231080' => 'psa', 'Psat7g063000' => 'psa', 'Psat7g188000' => 'psa', 'Psat7g188040' => 'psa', 'PSO017G0206' => 'pso', 'PSO170G0501' => 'pso', 'PSO170G6422' => 'pso', 'PSO210G7739' => 'pso', 'PSO339G1808' => 'pso', 'PSO339G6135' => 'pso', 'PSO384G0010' => 'pso', 'PSO384G0964' => 'pso', 'PSO761G0050' => 'pso', 'PSO782G4085' => 'pso', 'QL01p012264' => 'qlo', 'QL02p099491' => 'qlo', 'QL03p033868' => 'qlo', 'QL04p046678' => 'qlo', 'QL06p002448' => 'qlo', 'RcHm_v2.0_Chr4g0416181' => 'rch', 'RcHm_v2.0_Chr5g0044701' => 'rch', 'RcHm_v2.0_Chr6g0265781' => 'rch', 'RcHm_v2.0_Chr7g0221031' => 'rch', 'Rhsim04G0202000' => 'rsi', 'Rhsim11G0127300' => 'rsi', 'Rhsim13G0111800' => 'rsi', 'Sabra01G0165600' => 'sbr', 'Sabra03G0008300' => 'sbr', 'Sabra04G0136900' => 'sbr', 'Sabra08G0013400' => 'sbr', 'Sabra08G0116800' => 'sbr', 'Sabra09G0128000' => 'sbr', 'Sabra10G0055500' => 'sbr', 'Sabra10G0073300' => 'sbr', 'SalBow3G0385' => 'sbo', 'SalBow3G1119' => 'sbo', 'SalBow3G2005' => 'sbo', 'SalBow6G2563' => 'sbo', 'SalBow6G6386' => 'sbo', 'Sc06g0008800' => 'sci', 'Sc07g0004950' => 'sci', 'Sc09g0005340' => 'sci', 'Sc13g0004410' => 'sci', 'Sc21g0007090' => 'sci', 'Sed0009285' => 'sed', 'Sed0017583' => 'sed', 'Sed0019699' => 'sed', 'Sed0023107' => 'sed', 'SEGI_10916' => 'sgi', 'SEGI_16217' => 'sgi', 'SEGI_19466' => 'sgi', 'SEGI_41115' => 'sgi', 'SGA_v2.0_scaffold111G31534' => 'sas', 'SGA_v2.0_scaffold22G09864' => 'sas', 'SGA_v2.0_scaffold338G49219' => 'sas', 'SGA_v2.0_scaffold92G28298' => 'sas', 'SMO119G0064' => 'smo', 'SMO223G0038' => 'smo', 'SMO347G0584' => 'smo', 'SMO351G0010' => 'smo', 'SMO356G0404' => 'smo', 'Solyc01g103920.3' => 'sly', 'Solyc04g009710.2' => 'sly', 'Solyc05g055280.2' => 'sly', 'Solyc10g044520.3' => 'sly', 'Solyc10g075160.1' => 'sly', 'Solyc11g006910.3' => 'sly', 'Solyc11g068430.3' => 'sly', 'Sopen01g046310' => 'spe', 'Sopen03g001200' => 'spe', 'Sopen04g004830' => 'spe', 'Sopen05g033720' => 'spe', 'Sopen06g030740' => 'spe', 'Sopen10g013090' => 'spe', 'Sopen10g027630' => 'spe', 'Sopen10g027640' => 'spe', 'Sopen11g002820' => 'spe', 'Sopen11g027140' => 'spe', 'Sp1g09680' => 'spa', 'Sp2g03630' => 'spa', 'Sp4g10320' => 'spa', 'Sp6g33400' => 'spa', 'Sp7g13030' => 'spa', 'TAR365G0317' => 'tar', 'TAR376G0979' => 'tar', 'TAR623G1665' => 'tar', 'TAR633G2373' => 'tar', 'TAR636G1400' => 'tar', 'THA.LOC104800529' => 'tha', 'THA.LOC104808547' => 'tha', 'THA.LOC104809615' => 'tha', 'THA.LOC104815724' => 'tha', 'THA.LOC104818480' => 'tha', 'THA.LOC104819179' => 'tha', 'THA.LOC104822270' => 'tha', 'THA.LOC104826425' => 'tha', 'Thecc.02G089700' => 'tca', 'Thecc.04G232300' => 'tca', 'Thecc.09G283400' => 'tca', 'Thhalv10009020m.g' => 'esa', 'Thhalv10015506m.g' => 'esa', 'Thhalv10017364m.g' => 'esa', 'Thhalv10023742m.g' => 'esa', 'Thhalv10026483m.g' => 'esa', 'TPR.G17232' => 'tpr', 'TPR.G2133' => 'tpr', 'TPR.G2498' => 'tpr', 'TPR.G31942' => 'tpr', 'TPR.G37877' => 'tpr', 'TPR.G4571' => 'tpr', 'TWI14G1113' => 'twi', 'TWI15G0426' => 'twi', 'TWI31G1005' => 'twi', 'TWI38G0513' => 'twi', 'TWI38G1484' => 'twi', 'TWI73G1098' => 'twi', 'unitig_26.g10519' => 'ugi', 'unitig_736.g22395' => 'ugi', 'unitig_747.g21234' => 'ugi', 'unitig_747.g21942' => 'ugi', 'vmacro14351' => 'vma', 'VMungo0540G0082' => 'vmu', 'VMungo0540G0405' => 'vmu', 'VMungo0540G1486' => 'vmu', 'VMungo0540G1692' => 'vmu', 'VMungo0720G2473' => 'vmu', 'VMungo1127G1562' => 'vmu', 'VMungo1215G1918' => 'vmu', 'Zm00001eb052650' => 'zma', 'Zm00001eb063710' => 'zma', 'Zm00001eb083950' => 'zma', 'Zm00001eb174420' => 'zma', 'Zm00001eb260140' => 'zma', 'Zm00001eb260150' => 'zma', 'Zm00001eb260160' => 'zma', 'Zm00001eb348290' => 'zma', 'Zm00001eb366870' => 'zma', 'Zm00001eb421930' => 'zma' ), 'gf_id' => 'HOM05D001025', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001025' ), 'data_identifier' => 'HOM05D001025', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001025', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '592', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p22650' => 'bna', 'A01p29720' => 'bna', 'A03p26560' => 'bna', 'A03p68820' => 'bna', 'A04p20980' => 'bna', 'A06p07730' => 'bna', 'A07p18260' => 'bna', 'A08p33710' => 'bna', 'A09p16970' => 'bna', 'A10p27490' => 'bna', 'Aa31LG1G17300' => 'aar', 'Aa31LG1G3910' => 'aar', 'Aa31LG2G9630' => 'aar', 'Aa31LG5G8360' => 'aar', 'Aa31LG9G2410' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4699' => 'aag', 'Actinidia23512' => 'ach', 'Actinidia37080' => 'ach', 'Ah.01g020380' => 'amhyb', 'Ah.08g215710' => 'amhyb', 'Ah.09g225110' => 'amhyb', 'Ah.10g036680' => 'amhyb', 'AL1G21940' => 'aly', 'AL2G15540' => 'aly', 'AL4G21520' => 'aly', 'AL7G40960' => 'aly', 'Aqoxy2G01191' => 'aox', 'Aqoxy2G03393' => 'aox', 'Aqoxy4G02775' => 'aox', 'Aqoxy6G00058' => 'aox', 'arahy.Tifrunner.gnm1.ann1.9X74H2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CW3FX9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R485W7' => 'arhy', 'AT1G10960' => 'ath', 'AT1G60950' => 'ath', 'AT2G27510' => 'ath', 'AT4G14890' => 'ath', 'AT5G10000' => 'ath', 'ATR0665G624' => 'atr', 'ATR0697G138' => 'atr', 'ATR0776G046' => 'atr', 'ATR1134G135' => 'atr', 'Atru.chr12.1025' => 'acertr', 'Atru.chr3.3241' => 'acertr', 'Atru.chr4.2460' => 'acertr', 'AUR62007427' => 'cqu', 'AUR62010960' => 'cqu', 'AUR62012201' => 'cqu', 'AUR62021470' => 'cqu', 'AUR62022834' => 'cqu', 'AUR62033635' => 'cqu', 'AUR62036186' => 'cqu', 'BcaB01g03077' => 'bca', 'BcaB02g10093' => 'bca', 'BcaB04g20295' => 'bca', 'BcaB06g28147' => 'bca', 'BcaB07g31253' => 'bca', 'BcaC01g04946' => 'bca', 'BcaC02g10614' => 'bca', 'BcaC02g10885' => 'bca', 'BcaC04g19356' => 'bca', 'BcaC04g22297' => 'bca', 'BcaC05g24977' => 'bca', 'BcaC06g31823' => 'bca', 'BcaC07g38633' => 'bca', 'BcaC09g49353' => 'bca', 'BcaC09g50168' => 'bca', 'BcaNung00322' => 'bca', 'BcaNung04769' => 'bca', 'BolC1t02753H' => 'bol', 'BolC1t03721H' => 'bol', 'BolC3t15525H' => 'bol', 'BolC4t23903H' => 'bol', 'BolC4t24231H' => 'bol', 'BolC4t27209H' => 'bol', 'BolC5t29671H' => 'bol', 'BolC8t49044H' => 'bol', 'BolC9t54999H' => 'bol', 'BolC9t59517H' => 'bol', 'BraA01t02178Z' => 'bra', 'BraA01t03099Z' => 'bra', 'BraA03t11867Z' => 'bra', 'BraA04t17667Z' => 'bra', 'BraA07t29542Z' => 'bra', 'BraA08t35287Z' => 'bra', 'BraA09t37334Z' => 'bra', 'BraA10t44801Z' => 'bra', 'BraSC39t46181Z' => 'bra', 'C01p28240' => 'bna', 'C01p37530' => 'bna', 'C03p31820' => 'bna', 'C04p24080' => 'bna', 'C04p25790' => 'bna', 'C04p56770' => 'bna', 'C05p09310' => 'bna', 'C09p21010' => 'bna', 'C09p67560' => 'bna', 'CAN.G1324.7' => 'can', 'CAN.G1358.10' => 'can', 'CAN.G1550.2' => 'can', 'CAN.G186.56' => 'can', 'CAN.G1965.1' => 'can', 'CAN.G645.15' => 'can', 'CAN.G798.26' => 'can', 'CAN.G798.27' => 'can', 'CAN.G798.29' => 'can', 'CAN.G919.31' => 'can', 'CANSAT11G0133' => 'cansat', 'CANSAT11G1171' => 'cansat', 'CANSAT11G2056' => 'cansat', 'CANSAT56G1202' => 'cansat', 'CANSAT56G1514' => 'cansat', 'CANSAT78G0455' => 'cansat', 'CARHR011190' => 'chi', 'CARHR051980' => 'chi', 'CARHR120170' => 'chi', 'CARHR203310' => 'chi', 'CARHR221490' => 'chi', 'Carub.0001s1054' => 'cru', 'Carub.0002s0431' => 'cru', 'Carub.0004s0818' => 'cru', 'Carub.0006s0846' => 'cru', 'Carub.0007s2722' => 'cru', 'Ca_00058_v3' => 'car', 'Ca_17831_v3' => 'car', 'Ca_19408_v3' => 'car', 'Ca_24397_v3' => 'car', 'Ca_25664_v3' => 'car', 'CBR_g21818' => 'cbr', 'CBR_g31195' => 'cbr', 'CBR_g32282' => 'cbr', 'CBR_g39599' => 'cbr', 'CBR_g49410' => 'cbr', 'Cc01_g09120' => 'ccan', 'Cc01_g09130' => 'ccan', 'Cc02_g09630' => 'ccan', 'Cc02_g22810' => 'ccan', 'Cc03_g03810' => 'ccan', 'CDE02G3718' => 'cde', 'CDE04G3183' => 'cde', 'CDE07G1046' => 'cde', 'CDE08G0480' => 'cde', 'Cfa005493' => 'cfa', 'Cfa010312' => 'cfa', 'Cfa015648' => 'cfa', 'Ciclev10002793m.g' => 'ccl', 'Ciclev10003356m.g' => 'ccl', 'Ciclev10006141m.g' => 'ccl', 'Ciclev10016676m.g' => 'ccl', 'Ciclev10017081m.g' => 'ccl', 'Ciclev10029499m.g' => 'ccl', 'CiPaw.01G166300' => 'cil', 'CiPaw.06G145600' => 'cil', 'CiPaw.13G040100' => 'cil', 'CiPaw.13G135800' => 'cil', 'ClCG01G012230' => 'cla', 'ClCG05G009510' => 'cla', 'ClCG08G008270' => 'cla', 'COL.COLO4_11763' => 'col', 'COL.COLO4_19876' => 'col', 'COL.COLO4_21481' => 'col', 'Cpa.g.sc118.34' => 'cpa', 'Cpa.g.sc32.13' => 'cpa', 'Cpa.g.sc58.103' => 'cpa', 'Cre03.g183850' => 'cre', 'Cre06.g306350' => 'cre', 'Cre07.g334800' => 'cre', 'Cre12.g487900' => 'cre', 'Cre14.g626700' => 'cre', 'Cre16.g658400' => 'cre', 'Cre17.g700950' => 'cre', 'CsaV3_1G014830' => 'csa', 'CsaV3_3G013320' => 'csa', 'CsaV3_3G019210' => 'csa', 'CsaV3_3G019220' => 'csa', 'CsaV3_6G004230' => 'csa', 'CSS0003773' => 'camsi', 'CSS0004563' => 'camsi', 'CSS0013949' => 'camsi', 'CSS0025971' => 'camsi', 'CSS0028570' => 'camsi', 'CSS0033127' => 'camsi', 'CSS0036051' => 'camsi', 'CSS0040087' => 'camsi', 'CSS0043179' => 'camsi', 'DCAR_006161' => 'dca', 'DCAR_010351' => 'dca', 'DCAR_012197' => 'dca', 'DCAR_024162' => 'dca', 'Dinv01030' => 'din', 'Dinv10924' => 'din', 'Dinv11835' => 'din', 'Dinv22841' => 'din', 'Dinv42553' => 'din', 'Duzib052G0560' => 'dzi', 'Duzib132G0389' => 'dzi', 'Duzib150G1181' => 'dzi', 'Duzib168G0623' => 'dzi', 'Duzib170G1036' => 'dzi', 'Duzib212G0200' => 'dzi', 'Duzib248G0194' => 'dzi', 'ECA232G2193' => 'eca', 'ECA233G0302' => 'eca', 'ECA234G2813' => 'eca', 'ECA234G4866' => 'eca', 'ECA240G3932' => 'eca', 'ECA248G0385' => 'eca', 'EL10Ac2g04781' => 'bvu', 'EL10Ac3g06445' => 'bvu', 'EL10Ac7g15825' => 'bvu', 'EL10Ac8g18550' => 'bvu', 'Eucgr.B03849' => 'egr', 'Eucgr.I02744' => 'egr', 'Eucgr.J00264' => 'egr', 'Eucgr.J00493' => 'egr', 'FAN04G2181' => 'fan', 'FAN07G2666' => 'fan', 'FAN11G0024' => 'fan', 'FAN12G1105' => 'fan', 'FAN13G0302' => 'fan', 'FAN15G2781' => 'fan', 'FAN16G1274' => 'fan', 'FAN17G2988' => 'fan', 'FAN18G2621' => 'fan', 'FAN21G0013' => 'fan', 'FAN22G1211' => 'fan', 'FAN25G3626' => 'fan', 'FvH4_2g09491' => 'fve', 'FvH4_3g24910' => 'fve', 'FvH4_4g15630' => 'fve', 'FvH4_5g28820' => 'fve', 'Glyma.01G238000' => 'gma', 'Glyma.05G168400' => 'gma', 'Glyma.08G126800' => 'gma', 'Glyma.08G188500' => 'gma', 'Glyma.10G278900' => 'gma', 'Glyma.11G005700' => 'gma', 'Glyma.11G183300' => 'gma', 'Glyma.12G089200' => 'gma', 'Glyma.12G169400' => 'gma', 'Glyma.12G169500' => 'gma', 'Glyma.12G169600' => 'gma', 'Glyma.20G110800' => 'gma', 'Gohir.A03G192900' => 'ghi', 'Gohir.A03G193000' => 'ghi', 'Gohir.A05G080700' => 'ghi', 'Gohir.A09G216000' => 'ghi', 'Gohir.A12G027700' => 'ghi', 'Gohir.A13G036200' => 'ghi', 'Gohir.A13G222600' => 'ghi', 'Gohir.D02G213900' => 'ghi', 'Gohir.D02G214000' => 'ghi', 'Gohir.D05G083700' => 'ghi', 'Gohir.D05G083800' => 'ghi', 'Gohir.D05G083850' => 'ghi', 'Gohir.D08G015400' => 'ghi', 'Gohir.D09G218400' => 'ghi', 'Gohir.D12G027100' => 'ghi', 'Gohir.D13G034500' => 'ghi', 'Gohir.D13G227400' => 'ghi', 'Gorai.005G241800' => 'gra', 'Gorai.005G241900' => 'gra', 'Gorai.006G239400' => 'gra', 'Gorai.008G027600' => 'gra', 'Gorai.009G085400' => 'gra', 'Gorai.009G085500' => 'gra', 'Gorai.013G039000' => 'gra', 'Gorai.013G194800' => 'gra', 'Gorai.013G257900' => 'gra', 'GSVIVG01000982001' => 'vvi', 'GSVIVG01017981001' => 'vvi', 'HanXRQChr01g0024061' => 'han', 'HanXRQChr09g0247831' => 'han', 'HanXRQChr10g0294611' => 'han', 'HanXRQChr10g0294621' => 'han', 'HanXRQChr11g0346821' => 'han', 'HanXRQChr13g0397461' => 'han', 'HanXRQChr16g0513651' => 'han', 'HanXRQChr16g0513701' => 'han', 'Haze_00897' => 'cav', 'Haze_01745' => 'cav', 'Haze_02486' => 'cav', 'Haze_02487' => 'cav', 'Haze_23374' => 'cav', 'Hma1.2p1_0578F.1_g182520' => 'hma', 'Hma1.2p1_0602F.1_g187350' => 'hma', 'Hma1.2p1_0602F.1_g187360' => 'hma', 'Hma1.2p1_0874F.1_g231320' => 'hma', 'Hma1.2p1_1197F.1_g266210' => 'hma', 'Hma1.2p1_1197F.1_g266220' => 'hma', 'Hma1.2p1_2167F.1_g315895' => 'hma', 'Hma1.2p1_2190F.1_g316640' => 'hma', 'Hma1.2p1_3645F.1_g337153' => 'hma', 'HPP92_004907' => 'vpl', 'HPP92_012134' => 'vpl', 'HPP92_025136' => 'vpl', 'HPP92_026087' => 'vpl', 'Hund06782' => 'sun', 'Hund06784' => 'sun', 'Lalb_Chr01g0004861' => 'lal', 'Lalb_Chr02g0140591' => 'lal', 'Lalb_Chr02g0140611' => 'lal', 'Lalb_Chr03g0028101' => 'lal', 'Lalb_Chr07g0185791' => 'lal', 'Lalb_Chr12g0204491' => 'lal', 'Lalb_Chr13g0295671' => 'lal', 'Lalb_Chr19g0136461' => 'lal', 'Lalb_Chr21g0309191' => 'lal', 'Lj1g0028158' => 'lja', 'Lj1P236T38' => 'lonja', 'Lj2C32G2' => 'lonja', 'Lj2P944T8' => 'lonja', 'Lj2P963T15' => 'lonja', 'Lj3g0011788' => 'lja', 'Lj4g0025027' => 'lja', 'Lj5P255T36' => 'lonja', 'Lj6g0018866' => 'lja', 'Lj6P608T31' => 'lonja', 'LjContig00408g0008879' => 'lja', 'Lsat_1_v5_gn_5_105820' => 'lsa', 'Lsat_1_v5_gn_6_38800' => 'lsa', 'Lsat_1_v5_gn_7_67141' => 'lsa', 'Manes.04G003400' => 'mes', 'Manes.07G020000' => 'mes', 'Manes.07G020100' => 'mes', 'Manes.07G020150' => 'mes', 'Manes.10G061500' => 'mes', 'Manes.10G123200' => 'mes', 'Manes.11G161900' => 'mes', 'Manes.15G029300' => 'mes', 'Mapoly0071s0018' => 'mpo', 'Mapoly0082s0023' => 'mpo', 'Mapoly3477s0001' => 'mpo', 'MBI05_g31233_MAGBIO' => 'mbi', 'MBI09_g05946_MAGBIO' => 'mbi', 'MBI09_g05947_MAGBIO' => 'mbi', 'MBI17_g08346_MAGBIO' => 'mbi', 'MCO04G038' => 'mco', 'MCO09G370' => 'mco', 'MCO13G605' => 'mco', 'MD00G1075500' => 'mdo', 'MD03G1144300' => 'mdo', 'MD08G1236800' => 'mdo', 'MD13G1193300' => 'mdo', 'MD15G1428700' => 'mdo', 'Medtr1g112030' => 'mtr', 'Medtr1g112050' => 'mtr', 'Medtr2g006290' => 'mtr', 'Medtr2g086510' => 'mtr', 'Medtr4g053120' => 'mtr', 'Medtr5g006320' => 'mtr', 'Medtr8g088720' => 'mtr', 'MELO3C004712.2' => 'cme', 'MELO3C006533.2' => 'cme', 'MELO3C019438.2' => 'cme', 'MELO3C019440.2' => 'cme', 'MELO3C019441.2' => 'cme', 'MELO3C019895.2' => 'cme', 'Migut.B00811' => 'egut', 'Migut.D02447' => 'egut', 'Migut.F00875' => 'egut', 'Migut.N00186' => 'egut', 'Migut.N01051' => 'egut', 'Migut.N02491' => 'egut', 'Migut.O00784' => 'egut', 'MSTRG.12367' => 'ama', 'MSTRG.18756' => 'ama', 'MSTRG.21042' => 'ama', 'Nitab4.5_0000559g0040' => 'nta', 'Nitab4.5_0000667g0190' => 'nta', 'Nitab4.5_0000755g0160' => 'nta', 'Nitab4.5_0001216g0080' => 'nta', 'Nitab4.5_0004069g0040' => 'nta', 'Nitab4.5_0004129g0010' => 'nta', 'Nitab4.5_0005744g0030' => 'nta', 'Nitab4.5_0006996g0030' => 'nta', 'Nitab4.5_0008971g0040' => 'nta', 'Nitab4.5_0009769g0020' => 'nta', 'Nitab4.5_0009833g0010' => 'nta', 'Nitab4.5_0013140g0020' => 'nta', 'Nn003s41376' => 'nnu', 'Nn1g01857' => 'nnu', 'Nn1g03611' => 'nnu', 'Nn1g06853' => 'nnu', 'Nn3g18360' => 'nnu', 'Nn4g26328' => 'nnu', 'Nn5g27531' => 'nnu', 'Nn6g34899' => 'nnu', 'Nn7g36299' => 'nnu', 'Oeu021485.1' => 'oeu', 'Oeu022433.1' => 'oeu', 'Oeu032111.1' => 'oeu', 'Oeu051608.1' => 'oeu', 'Os01g0860601' => 'osa', 'Os03g0659200' => 'osa', 'Os03g0835900' => 'osa', 'Os04g0412200' => 'osa', 'Os05g0443500' => 'osa', 'Os07g0251500' => 'osa', 'Os08g0104600' => 'osa', 'Peaxi162Scf00003g00047' => 'pax', 'Peaxi162Scf00003g00052' => 'pax', 'Peaxi162Scf00003g00394' => 'pax', 'Peaxi162Scf00091g00621' => 'pax', 'Peaxi162Scf00152g00146' => 'pax', 'Peaxi162Scf00173g00025' => 'pax', 'Peaxi162Scf00195g00102' => 'pax', 'Peaxi162Scf00402g00013' => 'pax', 'Peaxi162Scf00519g00618' => 'pax', 'PGR004G2838' => 'pgr', 'PGR044G2275' => 'pgr', 'PGR102G1377' => 'pgr', 'PGR119G1245' => 'pgr', 'PGR142G4449' => 'pgr', 'PGSC0003DMG400004532' => 'stu', 'PGSC0003DMG400011950' => 'stu', 'PGSC0003DMG400023391' => 'stu', 'PGSC0003DMG400023985' => 'stu', 'PGSC0003DMG400026360' => 'stu', 'PGSC0003DMG400035711' => 'stu', 'PGSC0003DMG400037286' => 'stu', 'PGSC0003DMG402005881' => 'stu', 'Phvul.002G045400' => 'pvu', 'Phvul.006G216600' => 'pvu', 'Phvul.006G216700' => 'pvu', 'Phvul.006G216800' => 'pvu', 'Phvul.007G022500' => 'pvu', 'Phvul.011G094400' => 'pvu', 'Potri.001G470700' => 'ptr', 'Potri.003G015200' => 'ptr', 'Potri.004G202500' => 'ptr', 'Potri.004G218400' => 'ptr', 'Potri.008G020100' => 'ptr', 'Potri.008G153200' => 'ptr', 'Potri.009G163800' => 'ptr', 'Potri.010G087300' => 'ptr', 'Potri.010G239100' => 'ptr', 'Pp3c10_16100' => 'ppa', 'Pp3c10_16880' => 'ppa', 'Pp3c16_6230' => 'ppa', 'Pp3c17_18910' => 'ppa', 'Pp3c3_22119' => 'ppa', 'Pp3c3_22140' => 'ppa', 'Pp3c4_8159' => 'ppa', 'Pp3c4_8171' => 'ppa', 'Pp3c4_8330' => 'ppa', 'PRCOL_00004098' => 'pco', 'Prupe.1G013900' => 'ppe', 'Prupe.1G226300' => 'ppe', 'Prupe.1G573600' => 'ppe', 'Prupe.6G130100' => 'ppe', 'Psat3g090040' => 'psa', 'Psat4g210440' => 'psa', 'Psat6g231040' => 'psa', 'Psat6g231080' => 'psa', 'Psat7g063000' => 'psa', 'Psat7g188000' => 'psa', 'Psat7g188040' => 'psa', 'PSO017G0206' => 'pso', 'PSO170G0501' => 'pso', 'PSO170G6422' => 'pso', 'PSO210G7739' => 'pso', 'PSO339G1808' => 'pso', 'PSO339G6135' => 'pso', 'PSO384G0010' => 'pso', 'PSO384G0964' => 'pso', 'PSO761G0050' => 'pso', 'PSO782G4085' => 'pso', 'QL01p012264' => 'qlo', 'QL02p099491' => 'qlo', 'QL03p033868' => 'qlo', 'QL04p046678' => 'qlo', 'QL06p002448' => 'qlo', 'RcHm_v2.0_Chr4g0416181' => 'rch', 'RcHm_v2.0_Chr5g0044701' => 'rch', 'RcHm_v2.0_Chr6g0265781' => 'rch', 'RcHm_v2.0_Chr7g0221031' => 'rch', 'Rhsim04G0202000' => 'rsi', 'Rhsim11G0127300' => 'rsi', 'Rhsim13G0111800' => 'rsi', 'Sabra01G0165600' => 'sbr', 'Sabra03G0008300' => 'sbr', 'Sabra04G0136900' => 'sbr', 'Sabra08G0013400' => 'sbr', 'Sabra08G0116800' => 'sbr', 'Sabra09G0128000' => 'sbr', 'Sabra10G0055500' => 'sbr', 'Sabra10G0073300' => 'sbr', 'SalBow3G0385' => 'sbo', 'SalBow3G1119' => 'sbo', 'SalBow3G2005' => 'sbo', 'SalBow6G2563' => 'sbo', 'SalBow6G6386' => 'sbo', 'Sc06g0008800' => 'sci', 'Sc07g0004950' => 'sci', 'Sc09g0005340' => 'sci', 'Sc13g0004410' => 'sci', 'Sc21g0007090' => 'sci', 'Sed0009285' => 'sed', 'Sed0017583' => 'sed', 'Sed0019699' => 'sed', 'Sed0023107' => 'sed', 'SEGI_10916' => 'sgi', 'SEGI_16217' => 'sgi', 'SEGI_19466' => 'sgi', 'SEGI_41115' => 'sgi', 'SGA_v2.0_scaffold111G31534' => 'sas', 'SGA_v2.0_scaffold22G09864' => 'sas', 'SGA_v2.0_scaffold338G49219' => 'sas', 'SGA_v2.0_scaffold92G28298' => 'sas', 'SMO119G0064' => 'smo', 'SMO223G0038' => 'smo', 'SMO347G0584' => 'smo', 'SMO351G0010' => 'smo', 'SMO356G0404' => 'smo', 'Solyc01g103920.3' => 'sly', 'Solyc04g009710.2' => 'sly', 'Solyc05g055280.2' => 'sly', 'Solyc10g044520.3' => 'sly', 'Solyc10g075160.1' => 'sly', 'Solyc11g006910.3' => 'sly', 'Solyc11g068430.3' => 'sly', 'Sopen01g046310' => 'spe', 'Sopen03g001200' => 'spe', 'Sopen04g004830' => 'spe', 'Sopen05g033720' => 'spe', 'Sopen06g030740' => 'spe', 'Sopen10g013090' => 'spe', 'Sopen10g027630' => 'spe', 'Sopen10g027640' => 'spe', 'Sopen11g002820' => 'spe', 'Sopen11g027140' => 'spe', 'Sp1g09680' => 'spa', 'Sp2g03630' => 'spa', 'Sp4g10320' => 'spa', 'Sp6g33400' => 'spa', 'Sp7g13030' => 'spa', 'TAR365G0317' => 'tar', 'TAR376G0979' => 'tar', 'TAR623G1665' => 'tar', 'TAR633G2373' => 'tar', 'TAR636G1400' => 'tar', 'THA.LOC104800529' => 'tha', 'THA.LOC104808547' => 'tha', 'THA.LOC104809615' => 'tha', 'THA.LOC104815724' => 'tha', 'THA.LOC104818480' => 'tha', 'THA.LOC104819179' => 'tha', 'THA.LOC104822270' => 'tha', 'THA.LOC104826425' => 'tha', 'Thecc.02G089700' => 'tca', 'Thecc.04G232300' => 'tca', 'Thecc.09G283400' => 'tca', 'Thhalv10009020m.g' => 'esa', 'Thhalv10015506m.g' => 'esa', 'Thhalv10017364m.g' => 'esa', 'Thhalv10023742m.g' => 'esa', 'Thhalv10026483m.g' => 'esa', 'TPR.G17232' => 'tpr', 'TPR.G2133' => 'tpr', 'TPR.G2498' => 'tpr', 'TPR.G31942' => 'tpr', 'TPR.G37877' => 'tpr', 'TPR.G4571' => 'tpr', 'TWI14G1113' => 'twi', 'TWI15G0426' => 'twi', 'TWI31G1005' => 'twi', 'TWI38G0513' => 'twi', 'TWI38G1484' => 'twi', 'TWI73G1098' => 'twi', 'unitig_26.g10519' => 'ugi', 'unitig_736.g22395' => 'ugi', 'unitig_747.g21234' => 'ugi', 'unitig_747.g21942' => 'ugi', 'vmacro14351' => 'vma', 'VMungo0540G0082' => 'vmu', 'VMungo0540G0405' => 'vmu', 'VMungo0540G1486' => 'vmu', 'VMungo0540G1692' => 'vmu', 'VMungo0720G2473' => 'vmu', 'VMungo1127G1562' => 'vmu', 'VMungo1215G1918' => 'vmu', 'Zm00001eb052650' => 'zma', 'Zm00001eb063710' => 'zma', 'Zm00001eb083950' => 'zma', 'Zm00001eb174420' => 'zma', 'Zm00001eb260140' => 'zma', 'Zm00001eb260150' => 'zma', 'Zm00001eb260160' => 'zma', 'Zm00001eb348290' => 'zma', 'Zm00001eb366870' => 'zma', 'Zm00001eb421930' => 'zma' ) $gf_id = 'HOM05D001025' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001025' ) $data_identifier = 'HOM05D001025' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 19, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 2, 'amhyb' => (int) 4, 'aly' => (int) 4, 'aox' => (int) 4, 'arhy' => (int) 3, 'ath' => (int) 5, 'atr' => (int) 4, 'acertr' => (int) 3, 'cqu' => (int) 7, 'bca' => (int) 17, 'bol' => (int) 10, 'bra' => (int) 9, 'can' => (int) 10, 'cansat' => (int) 6, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 5, 'cbr' => (int) 5, 'ccan' => (int) 5, 'cde' => (int) 4, 'cfa' => (int) 3, 'ccl' => (int) 6, 'cil' => (int) 4, 'cla' => (int) 3, 'col' => (int) 3, 'cpa' => (int) 3, 'cre' => (int) 7, 'csa' => (int) 5, 'camsi' => (int) 9, 'dca' => (int) 4, 'din' => (int) 5, 'dzi' => (int) 7, 'eca' => (int) 6, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 12, 'fve' => (int) 4, 'gma' => (int) 12, 'ghi' => (int) 17, 'gra' => (int) 9, 'vvi' => (int) 2, 'han' => (int) 8, 'cav' => (int) 5, 'hma' => (int) 9, 'vpl' => (int) 4, 'sun' => (int) 2, 'lal' => (int) 9, 'lja' => (int) 5, 'lonja' => (int) 6, 'lsa' => (int) 3, 'mes' => (int) 8, 'mpo' => (int) 3, 'mbi' => (int) 4, 'mco' => (int) 3, 'mdo' => (int) 5, 'mtr' => (int) 7, 'cme' => (int) 6, 'egut' => (int) 7, 'ama' => (int) 3, 'nta' => (int) 12, 'nnu' => (int) 9, 'oeu' => (int) 4, 'osa' => (int) 7, 'pax' => (int) 9, 'pgr' => (int) 5, 'stu' => (int) 8, 'pvu' => (int) 6, 'ptr' => (int) 9, 'ppa' => (int) 9, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 7, 'pso' => (int) 10, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 3, 'sbr' => (int) 8, 'sbo' => (int) 5, 'sci' => (int) 5, 'sed' => (int) 4, 'sgi' => (int) 4, 'sas' => (int) 4, 'smo' => (int) 5, 'sly' => (int) 7, 'spe' => (int) 10, 'spa' => (int) 5, 'tar' => (int) 5, 'tha' => (int) 8, 'tca' => (int) 3, 'esa' => (int) 5, 'tpr' => (int) 6, 'twi' => (int) 6, 'ugi' => (int) 4, 'vma' => (int) 1, 'vmu' => (int) 7, 'zma' => (int) 10 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb421930' $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' => 'HOM05D001025', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '592', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p22650' => 'bna', 'A01p29720' => 'bna', 'A03p26560' => 'bna', 'A03p68820' => 'bna', 'A04p20980' => 'bna', 'A06p07730' => 'bna', 'A07p18260' => 'bna', 'A08p33710' => 'bna', 'A09p16970' => 'bna', 'A10p27490' => 'bna', 'Aa31LG1G17300' => 'aar', 'Aa31LG1G3910' => 'aar', 'Aa31LG2G9630' => 'aar', 'Aa31LG5G8360' => 'aar', 'Aa31LG9G2410' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4699' => 'aag', 'Actinidia23512' => 'ach', 'Actinidia37080' => 'ach', 'Ah.01g020380' => 'amhyb', 'Ah.08g215710' => 'amhyb', 'Ah.09g225110' => 'amhyb', 'Ah.10g036680' => 'amhyb', 'AL1G21940' => 'aly', 'AL2G15540' => 'aly', 'AL4G21520' => 'aly', 'AL7G40960' => 'aly', 'Aqoxy2G01191' => 'aox', 'Aqoxy2G03393' => 'aox', 'Aqoxy4G02775' => 'aox', 'Aqoxy6G00058' => 'aox', 'arahy.Tifrunner.gnm1.ann1.9X74H2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CW3FX9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R485W7' => 'arhy', 'AT1G10960' => 'ath', 'AT1G60950' => 'ath', 'AT2G27510' => 'ath', 'AT4G14890' => 'ath', 'AT5G10000' => 'ath', 'ATR0665G624' => 'atr', 'ATR0697G138' => 'atr', 'ATR0776G046' => 'atr', 'ATR1134G135' => 'atr', 'Atru.chr12.1025' => 'acertr', 'Atru.chr3.3241' => 'acertr', 'Atru.chr4.2460' => 'acertr', 'AUR62007427' => 'cqu', 'AUR62010960' => 'cqu', 'AUR62012201' => 'cqu', 'AUR62021470' => 'cqu', 'AUR62022834' => 'cqu', 'AUR62033635' => 'cqu', 'AUR62036186' => 'cqu', 'BcaB01g03077' => 'bca', 'BcaB02g10093' => 'bca', 'BcaB04g20295' => 'bca', 'BcaB06g28147' => 'bca', 'BcaB07g31253' => 'bca', 'BcaC01g04946' => 'bca', 'BcaC02g10614' => 'bca', 'BcaC02g10885' => 'bca', 'BcaC04g19356' => 'bca', 'BcaC04g22297' => 'bca', 'BcaC05g24977' => 'bca', 'BcaC06g31823' => 'bca', 'BcaC07g38633' => 'bca', 'BcaC09g49353' => 'bca', 'BcaC09g50168' => 'bca', 'BcaNung00322' => 'bca', 'BcaNung04769' => 'bca', 'BolC1t02753H' => 'bol', 'BolC1t03721H' => 'bol', 'BolC3t15525H' => 'bol', 'BolC4t23903H' => 'bol', 'BolC4t24231H' => 'bol', 'BolC4t27209H' => 'bol', 'BolC5t29671H' => 'bol', 'BolC8t49044H' => 'bol', 'BolC9t54999H' => 'bol', 'BolC9t59517H' => 'bol', 'BraA01t02178Z' => 'bra', 'BraA01t03099Z' => 'bra', 'BraA03t11867Z' => 'bra', 'BraA04t17667Z' => 'bra', 'BraA07t29542Z' => 'bra', 'BraA08t35287Z' => 'bra', 'BraA09t37334Z' => 'bra', 'BraA10t44801Z' => 'bra', 'BraSC39t46181Z' => 'bra', 'C01p28240' => 'bna', 'C01p37530' => 'bna', 'C03p31820' => 'bna', 'C04p24080' => 'bna', 'C04p25790' => 'bna', 'C04p56770' => 'bna', 'C05p09310' => 'bna', 'C09p21010' => 'bna', 'C09p67560' => 'bna', 'CAN.G1324.7' => 'can', 'CAN.G1358.10' => 'can', 'CAN.G1550.2' => 'can', 'CAN.G186.56' => 'can', 'CAN.G1965.1' => 'can', 'CAN.G645.15' => 'can', 'CAN.G798.26' => 'can', 'CAN.G798.27' => 'can', 'CAN.G798.29' => 'can', 'CAN.G919.31' => 'can', 'CANSAT11G0133' => 'cansat', 'CANSAT11G1171' => 'cansat', 'CANSAT11G2056' => 'cansat', 'CANSAT56G1202' => 'cansat', 'CANSAT56G1514' => 'cansat', 'CANSAT78G0455' => 'cansat', 'CARHR011190' => 'chi', 'CARHR051980' => 'chi', 'CARHR120170' => 'chi', 'CARHR203310' => 'chi', 'CARHR221490' => 'chi', 'Carub.0001s1054' => 'cru', 'Carub.0002s0431' => 'cru', 'Carub.0004s0818' => 'cru', 'Carub.0006s0846' => 'cru', 'Carub.0007s2722' => 'cru', 'Ca_00058_v3' => 'car', 'Ca_17831_v3' => 'car', 'Ca_19408_v3' => 'car', 'Ca_24397_v3' => 'car', 'Ca_25664_v3' => 'car', 'CBR_g21818' => 'cbr', 'CBR_g31195' => 'cbr', 'CBR_g32282' => 'cbr', 'CBR_g39599' => 'cbr', 'CBR_g49410' => 'cbr', 'Cc01_g09120' => 'ccan', 'Cc01_g09130' => 'ccan', 'Cc02_g09630' => 'ccan', 'Cc02_g22810' => 'ccan', 'Cc03_g03810' => 'ccan', 'CDE02G3718' => 'cde', 'CDE04G3183' => 'cde', 'CDE07G1046' => 'cde', 'CDE08G0480' => 'cde', 'Cfa005493' => 'cfa', 'Cfa010312' => 'cfa', 'Cfa015648' => 'cfa', 'Ciclev10002793m.g' => 'ccl', 'Ciclev10003356m.g' => 'ccl', 'Ciclev10006141m.g' => 'ccl', 'Ciclev10016676m.g' => 'ccl', 'Ciclev10017081m.g' => 'ccl', 'Ciclev10029499m.g' => 'ccl', 'CiPaw.01G166300' => 'cil', 'CiPaw.06G145600' => 'cil', 'CiPaw.13G040100' => 'cil', 'CiPaw.13G135800' => 'cil', 'ClCG01G012230' => 'cla', 'ClCG05G009510' => 'cla', 'ClCG08G008270' => 'cla', 'COL.COLO4_11763' => 'col', 'COL.COLO4_19876' => 'col', 'COL.COLO4_21481' => 'col', 'Cpa.g.sc118.34' => 'cpa', 'Cpa.g.sc32.13' => 'cpa', 'Cpa.g.sc58.103' => 'cpa', 'Cre03.g183850' => 'cre', 'Cre06.g306350' => 'cre', 'Cre07.g334800' => 'cre', 'Cre12.g487900' => 'cre', 'Cre14.g626700' => 'cre', 'Cre16.g658400' => 'cre', 'Cre17.g700950' => 'cre', 'CsaV3_1G014830' => 'csa', 'CsaV3_3G013320' => 'csa', 'CsaV3_3G019210' => 'csa', 'CsaV3_3G019220' => 'csa', 'CsaV3_6G004230' => 'csa', 'CSS0003773' => 'camsi', 'CSS0004563' => 'camsi', 'CSS0013949' => 'camsi', 'CSS0025971' => 'camsi', 'CSS0028570' => 'camsi', 'CSS0033127' => 'camsi', 'CSS0036051' => 'camsi', 'CSS0040087' => 'camsi', 'CSS0043179' => 'camsi', 'DCAR_006161' => 'dca', 'DCAR_010351' => 'dca', 'DCAR_012197' => 'dca', 'DCAR_024162' => 'dca', 'Dinv01030' => 'din', 'Dinv10924' => 'din', 'Dinv11835' => 'din', 'Dinv22841' => 'din', 'Dinv42553' => 'din', 'Duzib052G0560' => 'dzi', 'Duzib132G0389' => 'dzi', 'Duzib150G1181' => 'dzi', 'Duzib168G0623' => 'dzi', 'Duzib170G1036' => 'dzi', 'Duzib212G0200' => 'dzi', 'Duzib248G0194' => 'dzi', 'ECA232G2193' => 'eca', 'ECA233G0302' => 'eca', 'ECA234G2813' => 'eca', 'ECA234G4866' => 'eca', 'ECA240G3932' => 'eca', 'ECA248G0385' => 'eca', 'EL10Ac2g04781' => 'bvu', 'EL10Ac3g06445' => 'bvu', 'EL10Ac7g15825' => 'bvu', 'EL10Ac8g18550' => 'bvu', 'Eucgr.B03849' => 'egr', 'Eucgr.I02744' => 'egr', 'Eucgr.J00264' => 'egr', 'Eucgr.J00493' => 'egr', 'FAN04G2181' => 'fan', 'FAN07G2666' => 'fan', 'FAN11G0024' => 'fan', 'FAN12G1105' => 'fan', 'FAN13G0302' => 'fan', 'FAN15G2781' => 'fan', 'FAN16G1274' => 'fan', 'FAN17G2988' => 'fan', 'FAN18G2621' => 'fan', 'FAN21G0013' => 'fan', 'FAN22G1211' => 'fan', 'FAN25G3626' => 'fan', 'FvH4_2g09491' => 'fve', 'FvH4_3g24910' => 'fve', 'FvH4_4g15630' => 'fve', 'FvH4_5g28820' => 'fve', 'Glyma.01G238000' => 'gma', 'Glyma.05G168400' => 'gma', 'Glyma.08G126800' => 'gma', 'Glyma.08G188500' => 'gma', 'Glyma.10G278900' => 'gma', 'Glyma.11G005700' => 'gma', 'Glyma.11G183300' => 'gma', 'Glyma.12G089200' => 'gma', 'Glyma.12G169400' => 'gma', 'Glyma.12G169500' => 'gma', 'Glyma.12G169600' => 'gma', 'Glyma.20G110800' => 'gma', 'Gohir.A03G192900' => 'ghi', 'Gohir.A03G193000' => 'ghi', 'Gohir.A05G080700' => 'ghi', 'Gohir.A09G216000' => 'ghi', 'Gohir.A12G027700' => 'ghi', 'Gohir.A13G036200' => 'ghi', 'Gohir.A13G222600' => 'ghi', 'Gohir.D02G213900' => 'ghi', 'Gohir.D02G214000' => 'ghi', 'Gohir.D05G083700' => 'ghi', 'Gohir.D05G083800' => 'ghi', 'Gohir.D05G083850' => 'ghi', 'Gohir.D08G015400' => 'ghi', 'Gohir.D09G218400' => 'ghi', 'Gohir.D12G027100' => 'ghi', 'Gohir.D13G034500' => 'ghi', 'Gohir.D13G227400' => 'ghi', 'Gorai.005G241800' => 'gra', 'Gorai.005G241900' => 'gra', 'Gorai.006G239400' => 'gra', 'Gorai.008G027600' => 'gra', 'Gorai.009G085400' => 'gra', 'Gorai.009G085500' => 'gra', 'Gorai.013G039000' => 'gra', 'Gorai.013G194800' => 'gra', 'Gorai.013G257900' => 'gra', 'GSVIVG01000982001' => 'vvi', 'GSVIVG01017981001' => 'vvi', 'HanXRQChr01g0024061' => 'han', 'HanXRQChr09g0247831' => 'han', 'HanXRQChr10g0294611' => 'han', 'HanXRQChr10g0294621' => 'han', 'HanXRQChr11g0346821' => 'han', 'HanXRQChr13g0397461' => 'han', 'HanXRQChr16g0513651' => 'han', 'HanXRQChr16g0513701' => 'han', 'Haze_00897' => 'cav', 'Haze_01745' => 'cav', 'Haze_02486' => 'cav', 'Haze_02487' => 'cav', 'Haze_23374' => 'cav', 'Hma1.2p1_0578F.1_g182520' => 'hma', 'Hma1.2p1_0602F.1_g187350' => 'hma', 'Hma1.2p1_0602F.1_g187360' => 'hma', 'Hma1.2p1_0874F.1_g231320' => 'hma', 'Hma1.2p1_1197F.1_g266210' => 'hma', 'Hma1.2p1_1197F.1_g266220' => 'hma', 'Hma1.2p1_2167F.1_g315895' => 'hma', 'Hma1.2p1_2190F.1_g316640' => 'hma', 'Hma1.2p1_3645F.1_g337153' => 'hma', 'HPP92_004907' => 'vpl', 'HPP92_012134' => 'vpl', 'HPP92_025136' => 'vpl', 'HPP92_026087' => 'vpl', 'Hund06782' => 'sun', 'Hund06784' => 'sun', 'Lalb_Chr01g0004861' => 'lal', 'Lalb_Chr02g0140591' => 'lal', 'Lalb_Chr02g0140611' => 'lal', 'Lalb_Chr03g0028101' => 'lal', 'Lalb_Chr07g0185791' => 'lal', 'Lalb_Chr12g0204491' => 'lal', 'Lalb_Chr13g0295671' => 'lal', 'Lalb_Chr19g0136461' => 'lal', 'Lalb_Chr21g0309191' => 'lal', 'Lj1g0028158' => 'lja', 'Lj1P236T38' => 'lonja', 'Lj2C32G2' => 'lonja', 'Lj2P944T8' => 'lonja', 'Lj2P963T15' => 'lonja', 'Lj3g0011788' => 'lja', 'Lj4g0025027' => 'lja', 'Lj5P255T36' => 'lonja', 'Lj6g0018866' => 'lja', 'Lj6P608T31' => 'lonja', 'LjContig00408g0008879' => 'lja', 'Lsat_1_v5_gn_5_105820' => 'lsa', 'Lsat_1_v5_gn_6_38800' => 'lsa', 'Lsat_1_v5_gn_7_67141' => 'lsa', 'Manes.04G003400' => 'mes', 'Manes.07G020000' => 'mes', 'Manes.07G020100' => 'mes', 'Manes.07G020150' => 'mes', 'Manes.10G061500' => 'mes', 'Manes.10G123200' => 'mes', 'Manes.11G161900' => 'mes', 'Manes.15G029300' => 'mes', 'Mapoly0071s0018' => 'mpo', 'Mapoly0082s0023' => 'mpo', 'Mapoly3477s0001' => 'mpo', 'MBI05_g31233_MAGBIO' => 'mbi', 'MBI09_g05946_MAGBIO' => 'mbi', 'MBI09_g05947_MAGBIO' => 'mbi', 'MBI17_g08346_MAGBIO' => 'mbi', 'MCO04G038' => 'mco', 'MCO09G370' => 'mco', 'MCO13G605' => 'mco', 'MD00G1075500' => 'mdo', 'MD03G1144300' => 'mdo', 'MD08G1236800' => 'mdo', 'MD13G1193300' => 'mdo', 'MD15G1428700' => 'mdo', 'Medtr1g112030' => 'mtr', 'Medtr1g112050' => 'mtr', 'Medtr2g006290' => 'mtr', 'Medtr2g086510' => 'mtr', 'Medtr4g053120' => 'mtr', 'Medtr5g006320' => 'mtr', 'Medtr8g088720' => 'mtr', 'MELO3C004712.2' => 'cme', 'MELO3C006533.2' => 'cme', 'MELO3C019438.2' => 'cme', 'MELO3C019440.2' => 'cme', 'MELO3C019441.2' => 'cme', 'MELO3C019895.2' => 'cme', 'Migut.B00811' => 'egut', 'Migut.D02447' => 'egut', 'Migut.F00875' => 'egut', 'Migut.N00186' => 'egut', 'Migut.N01051' => 'egut', 'Migut.N02491' => 'egut', 'Migut.O00784' => 'egut', 'MSTRG.12367' => 'ama', 'MSTRG.18756' => 'ama', 'MSTRG.21042' => 'ama', 'Nitab4.5_0000559g0040' => 'nta', 'Nitab4.5_0000667g0190' => 'nta', 'Nitab4.5_0000755g0160' => 'nta', 'Nitab4.5_0001216g0080' => 'nta', 'Nitab4.5_0004069g0040' => 'nta', 'Nitab4.5_0004129g0010' => 'nta', 'Nitab4.5_0005744g0030' => 'nta', 'Nitab4.5_0006996g0030' => 'nta', 'Nitab4.5_0008971g0040' => 'nta', 'Nitab4.5_0009769g0020' => 'nta', 'Nitab4.5_0009833g0010' => 'nta', 'Nitab4.5_0013140g0020' => 'nta', 'Nn003s41376' => 'nnu', 'Nn1g01857' => 'nnu', 'Nn1g03611' => 'nnu', 'Nn1g06853' => 'nnu', 'Nn3g18360' => 'nnu', 'Nn4g26328' => 'nnu', 'Nn5g27531' => 'nnu', 'Nn6g34899' => 'nnu', 'Nn7g36299' => 'nnu', 'Oeu021485.1' => 'oeu', 'Oeu022433.1' => 'oeu', 'Oeu032111.1' => 'oeu', 'Oeu051608.1' => 'oeu', 'Os01g0860601' => 'osa', 'Os03g0659200' => 'osa', 'Os03g0835900' => 'osa', 'Os04g0412200' => 'osa', 'Os05g0443500' => 'osa', 'Os07g0251500' => 'osa', 'Os08g0104600' => 'osa', 'Peaxi162Scf00003g00047' => 'pax', 'Peaxi162Scf00003g00052' => 'pax', 'Peaxi162Scf00003g00394' => 'pax', 'Peaxi162Scf00091g00621' => 'pax', 'Peaxi162Scf00152g00146' => 'pax', 'Peaxi162Scf00173g00025' => 'pax', 'Peaxi162Scf00195g00102' => 'pax', 'Peaxi162Scf00402g00013' => 'pax', 'Peaxi162Scf00519g00618' => 'pax', 'PGR004G2838' => 'pgr', 'PGR044G2275' => 'pgr', 'PGR102G1377' => 'pgr', 'PGR119G1245' => 'pgr', 'PGR142G4449' => 'pgr', 'PGSC0003DMG400004532' => 'stu', 'PGSC0003DMG400011950' => 'stu', 'PGSC0003DMG400023391' => 'stu', 'PGSC0003DMG400023985' => 'stu', 'PGSC0003DMG400026360' => 'stu', 'PGSC0003DMG400035711' => 'stu', 'PGSC0003DMG400037286' => 'stu', 'PGSC0003DMG402005881' => 'stu', 'Phvul.002G045400' => 'pvu', 'Phvul.006G216600' => 'pvu', 'Phvul.006G216700' => 'pvu', 'Phvul.006G216800' => 'pvu', 'Phvul.007G022500' => 'pvu', 'Phvul.011G094400' => 'pvu', 'Potri.001G470700' => 'ptr', 'Potri.003G015200' => 'ptr', 'Potri.004G202500' => 'ptr', 'Potri.004G218400' => 'ptr', 'Potri.008G020100' => 'ptr', 'Potri.008G153200' => 'ptr', 'Potri.009G163800' => 'ptr', 'Potri.010G087300' => 'ptr', 'Potri.010G239100' => 'ptr', 'Pp3c10_16100' => 'ppa', 'Pp3c10_16880' => 'ppa', 'Pp3c16_6230' => 'ppa', 'Pp3c17_18910' => 'ppa', 'Pp3c3_22119' => 'ppa', 'Pp3c3_22140' => 'ppa', 'Pp3c4_8159' => 'ppa', 'Pp3c4_8171' => 'ppa', 'Pp3c4_8330' => 'ppa', 'PRCOL_00004098' => 'pco', 'Prupe.1G013900' => 'ppe', 'Prupe.1G226300' => 'ppe', 'Prupe.1G573600' => 'ppe', 'Prupe.6G130100' => 'ppe', 'Psat3g090040' => 'psa', 'Psat4g210440' => 'psa', 'Psat6g231040' => 'psa', 'Psat6g231080' => 'psa', 'Psat7g063000' => 'psa', 'Psat7g188000' => 'psa', 'Psat7g188040' => 'psa', 'PSO017G0206' => 'pso', 'PSO170G0501' => 'pso', 'PSO170G6422' => 'pso', 'PSO210G7739' => 'pso', 'PSO339G1808' => 'pso', 'PSO339G6135' => 'pso', 'PSO384G0010' => 'pso', 'PSO384G0964' => 'pso', 'PSO761G0050' => 'pso', 'PSO782G4085' => 'pso', 'QL01p012264' => 'qlo', 'QL02p099491' => 'qlo', 'QL03p033868' => 'qlo', 'QL04p046678' => 'qlo', 'QL06p002448' => 'qlo', 'RcHm_v2.0_Chr4g0416181' => 'rch', 'RcHm_v2.0_Chr5g0044701' => 'rch', 'RcHm_v2.0_Chr6g0265781' => 'rch', 'RcHm_v2.0_Chr7g0221031' => 'rch', 'Rhsim04G0202000' => 'rsi', 'Rhsim11G0127300' => 'rsi', 'Rhsim13G0111800' => 'rsi', 'Sabra01G0165600' => 'sbr', 'Sabra03G0008300' => 'sbr', 'Sabra04G0136900' => 'sbr', 'Sabra08G0013400' => 'sbr', 'Sabra08G0116800' => 'sbr', 'Sabra09G0128000' => 'sbr', 'Sabra10G0055500' => 'sbr', 'Sabra10G0073300' => 'sbr', 'SalBow3G0385' => 'sbo', 'SalBow3G1119' => 'sbo', 'SalBow3G2005' => 'sbo', 'SalBow6G2563' => 'sbo', 'SalBow6G6386' => 'sbo', 'Sc06g0008800' => 'sci', 'Sc07g0004950' => 'sci', 'Sc09g0005340' => 'sci', 'Sc13g0004410' => 'sci', 'Sc21g0007090' => 'sci', 'Sed0009285' => 'sed', 'Sed0017583' => 'sed', 'Sed0019699' => 'sed', 'Sed0023107' => 'sed', 'SEGI_10916' => 'sgi', 'SEGI_16217' => 'sgi', 'SEGI_19466' => 'sgi', 'SEGI_41115' => 'sgi', 'SGA_v2.0_scaffold111G31534' => 'sas', 'SGA_v2.0_scaffold22G09864' => 'sas', 'SGA_v2.0_scaffold338G49219' => 'sas', 'SGA_v2.0_scaffold92G28298' => 'sas', 'SMO119G0064' => 'smo', 'SMO223G0038' => 'smo', 'SMO347G0584' => 'smo', 'SMO351G0010' => 'smo', 'SMO356G0404' => 'smo', 'Solyc01g103920.3' => 'sly', 'Solyc04g009710.2' => 'sly', 'Solyc05g055280.2' => 'sly', 'Solyc10g044520.3' => 'sly', 'Solyc10g075160.1' => 'sly', 'Solyc11g006910.3' => 'sly', 'Solyc11g068430.3' => 'sly', 'Sopen01g046310' => 'spe', 'Sopen03g001200' => 'spe', 'Sopen04g004830' => 'spe', 'Sopen05g033720' => 'spe', 'Sopen06g030740' => 'spe', 'Sopen10g013090' => 'spe', 'Sopen10g027630' => 'spe', 'Sopen10g027640' => 'spe', 'Sopen11g002820' => 'spe', 'Sopen11g027140' => 'spe', 'Sp1g09680' => 'spa', 'Sp2g03630' => 'spa', 'Sp4g10320' => 'spa', 'Sp6g33400' => 'spa', 'Sp7g13030' => 'spa', 'TAR365G0317' => 'tar', 'TAR376G0979' => 'tar', 'TAR623G1665' => 'tar', 'TAR633G2373' => 'tar', 'TAR636G1400' => 'tar', 'THA.LOC104800529' => 'tha', 'THA.LOC104808547' => 'tha', 'THA.LOC104809615' => 'tha', 'THA.LOC104815724' => 'tha', 'THA.LOC104818480' => 'tha', 'THA.LOC104819179' => 'tha', 'THA.LOC104822270' => 'tha', 'THA.LOC104826425' => 'tha', 'Thecc.02G089700' => 'tca', 'Thecc.04G232300' => 'tca', 'Thecc.09G283400' => 'tca', 'Thhalv10009020m.g' => 'esa', 'Thhalv10015506m.g' => 'esa', 'Thhalv10017364m.g' => 'esa', 'Thhalv10023742m.g' => 'esa', 'Thhalv10026483m.g' => 'esa', 'TPR.G17232' => 'tpr', 'TPR.G2133' => 'tpr', 'TPR.G2498' => 'tpr', 'TPR.G31942' => 'tpr', 'TPR.G37877' => 'tpr', 'TPR.G4571' => 'tpr', 'TWI14G1113' => 'twi', 'TWI15G0426' => 'twi', 'TWI31G1005' => 'twi', 'TWI38G0513' => 'twi', 'TWI38G1484' => 'twi', 'TWI73G1098' => 'twi', 'unitig_26.g10519' => 'ugi', 'unitig_736.g22395' => 'ugi', 'unitig_747.g21234' => 'ugi', 'unitig_747.g21942' => 'ugi', 'vmacro14351' => 'vma', 'VMungo0540G0082' => 'vmu', 'VMungo0540G0405' => 'vmu', 'VMungo0540G1486' => 'vmu', 'VMungo0540G1692' => 'vmu', 'VMungo0720G2473' => 'vmu', 'VMungo1127G1562' => 'vmu', 'VMungo1215G1918' => 'vmu', 'Zm00001eb052650' => 'zma', 'Zm00001eb063710' => 'zma', 'Zm00001eb083950' => 'zma', 'Zm00001eb174420' => 'zma', 'Zm00001eb260140' => 'zma', 'Zm00001eb260150' => 'zma', 'Zm00001eb260160' => 'zma', 'Zm00001eb348290' => 'zma', 'Zm00001eb366870' => 'zma', 'Zm00001eb421930' => 'zma' ), 'gf_id' => 'HOM05D001025', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001025' ), 'data_identifier' => 'HOM05D001025', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001025', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '592', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p22650' => 'bna', 'A01p29720' => 'bna', 'A03p26560' => 'bna', 'A03p68820' => 'bna', 'A04p20980' => 'bna', 'A06p07730' => 'bna', 'A07p18260' => 'bna', 'A08p33710' => 'bna', 'A09p16970' => 'bna', 'A10p27490' => 'bna', 'Aa31LG1G17300' => 'aar', 'Aa31LG1G3910' => 'aar', 'Aa31LG2G9630' => 'aar', 'Aa31LG5G8360' => 'aar', 'Aa31LG9G2410' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4699' => 'aag', 'Actinidia23512' => 'ach', 'Actinidia37080' => 'ach', 'Ah.01g020380' => 'amhyb', 'Ah.08g215710' => 'amhyb', 'Ah.09g225110' => 'amhyb', 'Ah.10g036680' => 'amhyb', 'AL1G21940' => 'aly', 'AL2G15540' => 'aly', 'AL4G21520' => 'aly', 'AL7G40960' => 'aly', 'Aqoxy2G01191' => 'aox', 'Aqoxy2G03393' => 'aox', 'Aqoxy4G02775' => 'aox', 'Aqoxy6G00058' => 'aox', 'arahy.Tifrunner.gnm1.ann1.9X74H2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CW3FX9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R485W7' => 'arhy', 'AT1G10960' => 'ath', 'AT1G60950' => 'ath', 'AT2G27510' => 'ath', 'AT4G14890' => 'ath', 'AT5G10000' => 'ath', 'ATR0665G624' => 'atr', 'ATR0697G138' => 'atr', 'ATR0776G046' => 'atr', 'ATR1134G135' => 'atr', 'Atru.chr12.1025' => 'acertr', 'Atru.chr3.3241' => 'acertr', 'Atru.chr4.2460' => 'acertr', 'AUR62007427' => 'cqu', 'AUR62010960' => 'cqu', 'AUR62012201' => 'cqu', 'AUR62021470' => 'cqu', 'AUR62022834' => 'cqu', 'AUR62033635' => 'cqu', 'AUR62036186' => 'cqu', 'BcaB01g03077' => 'bca', 'BcaB02g10093' => 'bca', 'BcaB04g20295' => 'bca', 'BcaB06g28147' => 'bca', 'BcaB07g31253' => 'bca', 'BcaC01g04946' => 'bca', 'BcaC02g10614' => 'bca', 'BcaC02g10885' => 'bca', 'BcaC04g19356' => 'bca', 'BcaC04g22297' => 'bca', 'BcaC05g24977' => 'bca', 'BcaC06g31823' => 'bca', 'BcaC07g38633' => 'bca', 'BcaC09g49353' => 'bca', 'BcaC09g50168' => 'bca', 'BcaNung00322' => 'bca', 'BcaNung04769' => 'bca', 'BolC1t02753H' => 'bol', 'BolC1t03721H' => 'bol', 'BolC3t15525H' => 'bol', 'BolC4t23903H' => 'bol', 'BolC4t24231H' => 'bol', 'BolC4t27209H' => 'bol', 'BolC5t29671H' => 'bol', 'BolC8t49044H' => 'bol', 'BolC9t54999H' => 'bol', 'BolC9t59517H' => 'bol', 'BraA01t02178Z' => 'bra', 'BraA01t03099Z' => 'bra', 'BraA03t11867Z' => 'bra', 'BraA04t17667Z' => 'bra', 'BraA07t29542Z' => 'bra', 'BraA08t35287Z' => 'bra', 'BraA09t37334Z' => 'bra', 'BraA10t44801Z' => 'bra', 'BraSC39t46181Z' => 'bra', 'C01p28240' => 'bna', 'C01p37530' => 'bna', 'C03p31820' => 'bna', 'C04p24080' => 'bna', 'C04p25790' => 'bna', 'C04p56770' => 'bna', 'C05p09310' => 'bna', 'C09p21010' => 'bna', 'C09p67560' => 'bna', 'CAN.G1324.7' => 'can', 'CAN.G1358.10' => 'can', 'CAN.G1550.2' => 'can', 'CAN.G186.56' => 'can', 'CAN.G1965.1' => 'can', 'CAN.G645.15' => 'can', 'CAN.G798.26' => 'can', 'CAN.G798.27' => 'can', 'CAN.G798.29' => 'can', 'CAN.G919.31' => 'can', 'CANSAT11G0133' => 'cansat', 'CANSAT11G1171' => 'cansat', 'CANSAT11G2056' => 'cansat', 'CANSAT56G1202' => 'cansat', 'CANSAT56G1514' => 'cansat', 'CANSAT78G0455' => 'cansat', 'CARHR011190' => 'chi', 'CARHR051980' => 'chi', 'CARHR120170' => 'chi', 'CARHR203310' => 'chi', 'CARHR221490' => 'chi', 'Carub.0001s1054' => 'cru', 'Carub.0002s0431' => 'cru', 'Carub.0004s0818' => 'cru', 'Carub.0006s0846' => 'cru', 'Carub.0007s2722' => 'cru', 'Ca_00058_v3' => 'car', 'Ca_17831_v3' => 'car', 'Ca_19408_v3' => 'car', 'Ca_24397_v3' => 'car', 'Ca_25664_v3' => 'car', 'CBR_g21818' => 'cbr', 'CBR_g31195' => 'cbr', 'CBR_g32282' => 'cbr', 'CBR_g39599' => 'cbr', 'CBR_g49410' => 'cbr', 'Cc01_g09120' => 'ccan', 'Cc01_g09130' => 'ccan', 'Cc02_g09630' => 'ccan', 'Cc02_g22810' => 'ccan', 'Cc03_g03810' => 'ccan', 'CDE02G3718' => 'cde', 'CDE04G3183' => 'cde', 'CDE07G1046' => 'cde', 'CDE08G0480' => 'cde', 'Cfa005493' => 'cfa', 'Cfa010312' => 'cfa', 'Cfa015648' => 'cfa', 'Ciclev10002793m.g' => 'ccl', 'Ciclev10003356m.g' => 'ccl', 'Ciclev10006141m.g' => 'ccl', 'Ciclev10016676m.g' => 'ccl', 'Ciclev10017081m.g' => 'ccl', 'Ciclev10029499m.g' => 'ccl', 'CiPaw.01G166300' => 'cil', 'CiPaw.06G145600' => 'cil', 'CiPaw.13G040100' => 'cil', 'CiPaw.13G135800' => 'cil', 'ClCG01G012230' => 'cla', 'ClCG05G009510' => 'cla', 'ClCG08G008270' => 'cla', 'COL.COLO4_11763' => 'col', 'COL.COLO4_19876' => 'col', 'COL.COLO4_21481' => 'col', 'Cpa.g.sc118.34' => 'cpa', 'Cpa.g.sc32.13' => 'cpa', 'Cpa.g.sc58.103' => 'cpa', 'Cre03.g183850' => 'cre', 'Cre06.g306350' => 'cre', 'Cre07.g334800' => 'cre', 'Cre12.g487900' => 'cre', 'Cre14.g626700' => 'cre', 'Cre16.g658400' => 'cre', 'Cre17.g700950' => 'cre', 'CsaV3_1G014830' => 'csa', 'CsaV3_3G013320' => 'csa', 'CsaV3_3G019210' => 'csa', 'CsaV3_3G019220' => 'csa', 'CsaV3_6G004230' => 'csa', 'CSS0003773' => 'camsi', 'CSS0004563' => 'camsi', 'CSS0013949' => 'camsi', 'CSS0025971' => 'camsi', 'CSS0028570' => 'camsi', 'CSS0033127' => 'camsi', 'CSS0036051' => 'camsi', 'CSS0040087' => 'camsi', 'CSS0043179' => 'camsi', 'DCAR_006161' => 'dca', 'DCAR_010351' => 'dca', 'DCAR_012197' => 'dca', 'DCAR_024162' => 'dca', 'Dinv01030' => 'din', 'Dinv10924' => 'din', 'Dinv11835' => 'din', 'Dinv22841' => 'din', 'Dinv42553' => 'din', 'Duzib052G0560' => 'dzi', 'Duzib132G0389' => 'dzi', 'Duzib150G1181' => 'dzi', 'Duzib168G0623' => 'dzi', 'Duzib170G1036' => 'dzi', 'Duzib212G0200' => 'dzi', 'Duzib248G0194' => 'dzi', 'ECA232G2193' => 'eca', 'ECA233G0302' => 'eca', 'ECA234G2813' => 'eca', 'ECA234G4866' => 'eca', 'ECA240G3932' => 'eca', 'ECA248G0385' => 'eca', 'EL10Ac2g04781' => 'bvu', 'EL10Ac3g06445' => 'bvu', 'EL10Ac7g15825' => 'bvu', 'EL10Ac8g18550' => 'bvu', 'Eucgr.B03849' => 'egr', 'Eucgr.I02744' => 'egr', 'Eucgr.J00264' => 'egr', 'Eucgr.J00493' => 'egr', 'FAN04G2181' => 'fan', 'FAN07G2666' => 'fan', 'FAN11G0024' => 'fan', 'FAN12G1105' => 'fan', 'FAN13G0302' => 'fan', 'FAN15G2781' => 'fan', 'FAN16G1274' => 'fan', 'FAN17G2988' => 'fan', 'FAN18G2621' => 'fan', 'FAN21G0013' => 'fan', 'FAN22G1211' => 'fan', 'FAN25G3626' => 'fan', 'FvH4_2g09491' => 'fve', 'FvH4_3g24910' => 'fve', 'FvH4_4g15630' => 'fve', 'FvH4_5g28820' => 'fve', 'Glyma.01G238000' => 'gma', 'Glyma.05G168400' => 'gma', 'Glyma.08G126800' => 'gma', 'Glyma.08G188500' => 'gma', 'Glyma.10G278900' => 'gma', 'Glyma.11G005700' => 'gma', 'Glyma.11G183300' => 'gma', 'Glyma.12G089200' => 'gma', 'Glyma.12G169400' => 'gma', 'Glyma.12G169500' => 'gma', 'Glyma.12G169600' => 'gma', 'Glyma.20G110800' => 'gma', 'Gohir.A03G192900' => 'ghi', 'Gohir.A03G193000' => 'ghi', 'Gohir.A05G080700' => 'ghi', 'Gohir.A09G216000' => 'ghi', 'Gohir.A12G027700' => 'ghi', 'Gohir.A13G036200' => 'ghi', 'Gohir.A13G222600' => 'ghi', 'Gohir.D02G213900' => 'ghi', 'Gohir.D02G214000' => 'ghi', 'Gohir.D05G083700' => 'ghi', 'Gohir.D05G083800' => 'ghi', 'Gohir.D05G083850' => 'ghi', 'Gohir.D08G015400' => 'ghi', 'Gohir.D09G218400' => 'ghi', 'Gohir.D12G027100' => 'ghi', 'Gohir.D13G034500' => 'ghi', 'Gohir.D13G227400' => 'ghi', 'Gorai.005G241800' => 'gra', 'Gorai.005G241900' => 'gra', 'Gorai.006G239400' => 'gra', 'Gorai.008G027600' => 'gra', 'Gorai.009G085400' => 'gra', 'Gorai.009G085500' => 'gra', 'Gorai.013G039000' => 'gra', 'Gorai.013G194800' => 'gra', 'Gorai.013G257900' => 'gra', 'GSVIVG01000982001' => 'vvi', 'GSVIVG01017981001' => 'vvi', 'HanXRQChr01g0024061' => 'han', 'HanXRQChr09g0247831' => 'han', 'HanXRQChr10g0294611' => 'han', 'HanXRQChr10g0294621' => 'han', 'HanXRQChr11g0346821' => 'han', 'HanXRQChr13g0397461' => 'han', 'HanXRQChr16g0513651' => 'han', 'HanXRQChr16g0513701' => 'han', 'Haze_00897' => 'cav', 'Haze_01745' => 'cav', 'Haze_02486' => 'cav', 'Haze_02487' => 'cav', 'Haze_23374' => 'cav', 'Hma1.2p1_0578F.1_g182520' => 'hma', 'Hma1.2p1_0602F.1_g187350' => 'hma', 'Hma1.2p1_0602F.1_g187360' => 'hma', 'Hma1.2p1_0874F.1_g231320' => 'hma', 'Hma1.2p1_1197F.1_g266210' => 'hma', 'Hma1.2p1_1197F.1_g266220' => 'hma', 'Hma1.2p1_2167F.1_g315895' => 'hma', 'Hma1.2p1_2190F.1_g316640' => 'hma', 'Hma1.2p1_3645F.1_g337153' => 'hma', 'HPP92_004907' => 'vpl', 'HPP92_012134' => 'vpl', 'HPP92_025136' => 'vpl', 'HPP92_026087' => 'vpl', 'Hund06782' => 'sun', 'Hund06784' => 'sun', 'Lalb_Chr01g0004861' => 'lal', 'Lalb_Chr02g0140591' => 'lal', 'Lalb_Chr02g0140611' => 'lal', 'Lalb_Chr03g0028101' => 'lal', 'Lalb_Chr07g0185791' => 'lal', 'Lalb_Chr12g0204491' => 'lal', 'Lalb_Chr13g0295671' => 'lal', 'Lalb_Chr19g0136461' => 'lal', 'Lalb_Chr21g0309191' => 'lal', 'Lj1g0028158' => 'lja', 'Lj1P236T38' => 'lonja', 'Lj2C32G2' => 'lonja', 'Lj2P944T8' => 'lonja', 'Lj2P963T15' => 'lonja', 'Lj3g0011788' => 'lja', 'Lj4g0025027' => 'lja', 'Lj5P255T36' => 'lonja', 'Lj6g0018866' => 'lja', 'Lj6P608T31' => 'lonja', 'LjContig00408g0008879' => 'lja', 'Lsat_1_v5_gn_5_105820' => 'lsa', 'Lsat_1_v5_gn_6_38800' => 'lsa', 'Lsat_1_v5_gn_7_67141' => 'lsa', 'Manes.04G003400' => 'mes', 'Manes.07G020000' => 'mes', 'Manes.07G020100' => 'mes', 'Manes.07G020150' => 'mes', 'Manes.10G061500' => 'mes', 'Manes.10G123200' => 'mes', 'Manes.11G161900' => 'mes', 'Manes.15G029300' => 'mes', 'Mapoly0071s0018' => 'mpo', 'Mapoly0082s0023' => 'mpo', 'Mapoly3477s0001' => 'mpo', 'MBI05_g31233_MAGBIO' => 'mbi', 'MBI09_g05946_MAGBIO' => 'mbi', 'MBI09_g05947_MAGBIO' => 'mbi', 'MBI17_g08346_MAGBIO' => 'mbi', 'MCO04G038' => 'mco', 'MCO09G370' => 'mco', 'MCO13G605' => 'mco', 'MD00G1075500' => 'mdo', 'MD03G1144300' => 'mdo', 'MD08G1236800' => 'mdo', 'MD13G1193300' => 'mdo', 'MD15G1428700' => 'mdo', 'Medtr1g112030' => 'mtr', 'Medtr1g112050' => 'mtr', 'Medtr2g006290' => 'mtr', 'Medtr2g086510' => 'mtr', 'Medtr4g053120' => 'mtr', 'Medtr5g006320' => 'mtr', 'Medtr8g088720' => 'mtr', 'MELO3C004712.2' => 'cme', 'MELO3C006533.2' => 'cme', 'MELO3C019438.2' => 'cme', 'MELO3C019440.2' => 'cme', 'MELO3C019441.2' => 'cme', 'MELO3C019895.2' => 'cme', 'Migut.B00811' => 'egut', 'Migut.D02447' => 'egut', 'Migut.F00875' => 'egut', 'Migut.N00186' => 'egut', 'Migut.N01051' => 'egut', 'Migut.N02491' => 'egut', 'Migut.O00784' => 'egut', 'MSTRG.12367' => 'ama', 'MSTRG.18756' => 'ama', 'MSTRG.21042' => 'ama', 'Nitab4.5_0000559g0040' => 'nta', 'Nitab4.5_0000667g0190' => 'nta', 'Nitab4.5_0000755g0160' => 'nta', 'Nitab4.5_0001216g0080' => 'nta', 'Nitab4.5_0004069g0040' => 'nta', 'Nitab4.5_0004129g0010' => 'nta', 'Nitab4.5_0005744g0030' => 'nta', 'Nitab4.5_0006996g0030' => 'nta', 'Nitab4.5_0008971g0040' => 'nta', 'Nitab4.5_0009769g0020' => 'nta', 'Nitab4.5_0009833g0010' => 'nta', 'Nitab4.5_0013140g0020' => 'nta', 'Nn003s41376' => 'nnu', 'Nn1g01857' => 'nnu', 'Nn1g03611' => 'nnu', 'Nn1g06853' => 'nnu', 'Nn3g18360' => 'nnu', 'Nn4g26328' => 'nnu', 'Nn5g27531' => 'nnu', 'Nn6g34899' => 'nnu', 'Nn7g36299' => 'nnu', 'Oeu021485.1' => 'oeu', 'Oeu022433.1' => 'oeu', 'Oeu032111.1' => 'oeu', 'Oeu051608.1' => 'oeu', 'Os01g0860601' => 'osa', 'Os03g0659200' => 'osa', 'Os03g0835900' => 'osa', 'Os04g0412200' => 'osa', 'Os05g0443500' => 'osa', 'Os07g0251500' => 'osa', 'Os08g0104600' => 'osa', 'Peaxi162Scf00003g00047' => 'pax', 'Peaxi162Scf00003g00052' => 'pax', 'Peaxi162Scf00003g00394' => 'pax', 'Peaxi162Scf00091g00621' => 'pax', 'Peaxi162Scf00152g00146' => 'pax', 'Peaxi162Scf00173g00025' => 'pax', 'Peaxi162Scf00195g00102' => 'pax', 'Peaxi162Scf00402g00013' => 'pax', 'Peaxi162Scf00519g00618' => 'pax', 'PGR004G2838' => 'pgr', 'PGR044G2275' => 'pgr', 'PGR102G1377' => 'pgr', 'PGR119G1245' => 'pgr', 'PGR142G4449' => 'pgr', 'PGSC0003DMG400004532' => 'stu', 'PGSC0003DMG400011950' => 'stu', 'PGSC0003DMG400023391' => 'stu', 'PGSC0003DMG400023985' => 'stu', 'PGSC0003DMG400026360' => 'stu', 'PGSC0003DMG400035711' => 'stu', 'PGSC0003DMG400037286' => 'stu', 'PGSC0003DMG402005881' => 'stu', 'Phvul.002G045400' => 'pvu', 'Phvul.006G216600' => 'pvu', 'Phvul.006G216700' => 'pvu', 'Phvul.006G216800' => 'pvu', 'Phvul.007G022500' => 'pvu', 'Phvul.011G094400' => 'pvu', 'Potri.001G470700' => 'ptr', 'Potri.003G015200' => 'ptr', 'Potri.004G202500' => 'ptr', 'Potri.004G218400' => 'ptr', 'Potri.008G020100' => 'ptr', 'Potri.008G153200' => 'ptr', 'Potri.009G163800' => 'ptr', 'Potri.010G087300' => 'ptr', 'Potri.010G239100' => 'ptr', 'Pp3c10_16100' => 'ppa', 'Pp3c10_16880' => 'ppa', 'Pp3c16_6230' => 'ppa', 'Pp3c17_18910' => 'ppa', 'Pp3c3_22119' => 'ppa', 'Pp3c3_22140' => 'ppa', 'Pp3c4_8159' => 'ppa', 'Pp3c4_8171' => 'ppa', 'Pp3c4_8330' => 'ppa', 'PRCOL_00004098' => 'pco', 'Prupe.1G013900' => 'ppe', 'Prupe.1G226300' => 'ppe', 'Prupe.1G573600' => 'ppe', 'Prupe.6G130100' => 'ppe', 'Psat3g090040' => 'psa', 'Psat4g210440' => 'psa', 'Psat6g231040' => 'psa', 'Psat6g231080' => 'psa', 'Psat7g063000' => 'psa', 'Psat7g188000' => 'psa', 'Psat7g188040' => 'psa', 'PSO017G0206' => 'pso', 'PSO170G0501' => 'pso', 'PSO170G6422' => 'pso', 'PSO210G7739' => 'pso', 'PSO339G1808' => 'pso', 'PSO339G6135' => 'pso', 'PSO384G0010' => 'pso', 'PSO384G0964' => 'pso', 'PSO761G0050' => 'pso', 'PSO782G4085' => 'pso', 'QL01p012264' => 'qlo', 'QL02p099491' => 'qlo', 'QL03p033868' => 'qlo', 'QL04p046678' => 'qlo', 'QL06p002448' => 'qlo', 'RcHm_v2.0_Chr4g0416181' => 'rch', 'RcHm_v2.0_Chr5g0044701' => 'rch', 'RcHm_v2.0_Chr6g0265781' => 'rch', 'RcHm_v2.0_Chr7g0221031' => 'rch', 'Rhsim04G0202000' => 'rsi', 'Rhsim11G0127300' => 'rsi', 'Rhsim13G0111800' => 'rsi', 'Sabra01G0165600' => 'sbr', 'Sabra03G0008300' => 'sbr', 'Sabra04G0136900' => 'sbr', 'Sabra08G0013400' => 'sbr', 'Sabra08G0116800' => 'sbr', 'Sabra09G0128000' => 'sbr', 'Sabra10G0055500' => 'sbr', 'Sabra10G0073300' => 'sbr', 'SalBow3G0385' => 'sbo', 'SalBow3G1119' => 'sbo', 'SalBow3G2005' => 'sbo', 'SalBow6G2563' => 'sbo', 'SalBow6G6386' => 'sbo', 'Sc06g0008800' => 'sci', 'Sc07g0004950' => 'sci', 'Sc09g0005340' => 'sci', 'Sc13g0004410' => 'sci', 'Sc21g0007090' => 'sci', 'Sed0009285' => 'sed', 'Sed0017583' => 'sed', 'Sed0019699' => 'sed', 'Sed0023107' => 'sed', 'SEGI_10916' => 'sgi', 'SEGI_16217' => 'sgi', 'SEGI_19466' => 'sgi', 'SEGI_41115' => 'sgi', 'SGA_v2.0_scaffold111G31534' => 'sas', 'SGA_v2.0_scaffold22G09864' => 'sas', 'SGA_v2.0_scaffold338G49219' => 'sas', 'SGA_v2.0_scaffold92G28298' => 'sas', 'SMO119G0064' => 'smo', 'SMO223G0038' => 'smo', 'SMO347G0584' => 'smo', 'SMO351G0010' => 'smo', 'SMO356G0404' => 'smo', 'Solyc01g103920.3' => 'sly', 'Solyc04g009710.2' => 'sly', 'Solyc05g055280.2' => 'sly', 'Solyc10g044520.3' => 'sly', 'Solyc10g075160.1' => 'sly', 'Solyc11g006910.3' => 'sly', 'Solyc11g068430.3' => 'sly', 'Sopen01g046310' => 'spe', 'Sopen03g001200' => 'spe', 'Sopen04g004830' => 'spe', 'Sopen05g033720' => 'spe', 'Sopen06g030740' => 'spe', 'Sopen10g013090' => 'spe', 'Sopen10g027630' => 'spe', 'Sopen10g027640' => 'spe', 'Sopen11g002820' => 'spe', 'Sopen11g027140' => 'spe', 'Sp1g09680' => 'spa', 'Sp2g03630' => 'spa', 'Sp4g10320' => 'spa', 'Sp6g33400' => 'spa', 'Sp7g13030' => 'spa', 'TAR365G0317' => 'tar', 'TAR376G0979' => 'tar', 'TAR623G1665' => 'tar', 'TAR633G2373' => 'tar', 'TAR636G1400' => 'tar', 'THA.LOC104800529' => 'tha', 'THA.LOC104808547' => 'tha', 'THA.LOC104809615' => 'tha', 'THA.LOC104815724' => 'tha', 'THA.LOC104818480' => 'tha', 'THA.LOC104819179' => 'tha', 'THA.LOC104822270' => 'tha', 'THA.LOC104826425' => 'tha', 'Thecc.02G089700' => 'tca', 'Thecc.04G232300' => 'tca', 'Thecc.09G283400' => 'tca', 'Thhalv10009020m.g' => 'esa', 'Thhalv10015506m.g' => 'esa', 'Thhalv10017364m.g' => 'esa', 'Thhalv10023742m.g' => 'esa', 'Thhalv10026483m.g' => 'esa', 'TPR.G17232' => 'tpr', 'TPR.G2133' => 'tpr', 'TPR.G2498' => 'tpr', 'TPR.G31942' => 'tpr', 'TPR.G37877' => 'tpr', 'TPR.G4571' => 'tpr', 'TWI14G1113' => 'twi', 'TWI15G0426' => 'twi', 'TWI31G1005' => 'twi', 'TWI38G0513' => 'twi', 'TWI38G1484' => 'twi', 'TWI73G1098' => 'twi', 'unitig_26.g10519' => 'ugi', 'unitig_736.g22395' => 'ugi', 'unitig_747.g21234' => 'ugi', 'unitig_747.g21942' => 'ugi', 'vmacro14351' => 'vma', 'VMungo0540G0082' => 'vmu', 'VMungo0540G0405' => 'vmu', 'VMungo0540G1486' => 'vmu', 'VMungo0540G1692' => 'vmu', 'VMungo0720G2473' => 'vmu', 'VMungo1127G1562' => 'vmu', 'VMungo1215G1918' => 'vmu', 'Zm00001eb052650' => 'zma', 'Zm00001eb063710' => 'zma', 'Zm00001eb083950' => 'zma', 'Zm00001eb174420' => 'zma', 'Zm00001eb260140' => 'zma', 'Zm00001eb260150' => 'zma', 'Zm00001eb260160' => 'zma', 'Zm00001eb348290' => 'zma', 'Zm00001eb366870' => 'zma', 'Zm00001eb421930' => 'zma' ) $gf_id = 'HOM05D001025' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001025' ) $data_identifier = 'HOM05D001025' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 19, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 2, 'amhyb' => (int) 4, 'aly' => (int) 4, 'aox' => (int) 4, 'arhy' => (int) 3, 'ath' => (int) 5, 'atr' => (int) 4, 'acertr' => (int) 3, 'cqu' => (int) 7, 'bca' => (int) 17, 'bol' => (int) 10, 'bra' => (int) 9, 'can' => (int) 10, 'cansat' => (int) 6, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 5, 'cbr' => (int) 5, 'ccan' => (int) 5, 'cde' => (int) 4, 'cfa' => (int) 3, 'ccl' => (int) 6, 'cil' => (int) 4, 'cla' => (int) 3, 'col' => (int) 3, 'cpa' => (int) 3, 'cre' => (int) 7, 'csa' => (int) 5, 'camsi' => (int) 9, 'dca' => (int) 4, 'din' => (int) 5, 'dzi' => (int) 7, 'eca' => (int) 6, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 12, 'fve' => (int) 4, 'gma' => (int) 12, 'ghi' => (int) 17, 'gra' => (int) 9, 'vvi' => (int) 2, 'han' => (int) 8, 'cav' => (int) 5, 'hma' => (int) 9, 'vpl' => (int) 4, 'sun' => (int) 2, 'lal' => (int) 9, 'lja' => (int) 5, 'lonja' => (int) 6, 'lsa' => (int) 3, 'mes' => (int) 8, 'mpo' => (int) 3, 'mbi' => (int) 4, 'mco' => (int) 3, 'mdo' => (int) 5, 'mtr' => (int) 7, 'cme' => (int) 6, 'egut' => (int) 7, 'ama' => (int) 3, 'nta' => (int) 12, 'nnu' => (int) 9, 'oeu' => (int) 4, 'osa' => (int) 7, 'pax' => (int) 9, 'pgr' => (int) 5, 'stu' => (int) 8, 'pvu' => (int) 6, 'ptr' => (int) 9, 'ppa' => (int) 9, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 7, 'pso' => (int) 10, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 3, 'sbr' => (int) 8, 'sbo' => (int) 5, 'sci' => (int) 5, 'sed' => (int) 4, 'sgi' => (int) 4, 'sas' => (int) 4, 'smo' => (int) 5, 'sly' => (int) 7, 'spe' => (int) 10, 'spa' => (int) 5, 'tar' => (int) 5, 'tha' => (int) 8, 'tca' => (int) 3, 'esa' => (int) 5, 'tpr' => (int) 6, 'twi' => (int) 6, 'ugi' => (int) 4, 'vma' => (int) 1, 'vmu' => (int) 7, 'zma' => (int) 10 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb421930' $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' => 'HOM05D001025', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '592', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p22650' => 'bna', 'A01p29720' => 'bna', 'A03p26560' => 'bna', 'A03p68820' => 'bna', 'A04p20980' => 'bna', 'A06p07730' => 'bna', 'A07p18260' => 'bna', 'A08p33710' => 'bna', 'A09p16970' => 'bna', 'A10p27490' => 'bna', 'Aa31LG1G17300' => 'aar', 'Aa31LG1G3910' => 'aar', 'Aa31LG2G9630' => 'aar', 'Aa31LG5G8360' => 'aar', 'Aa31LG9G2410' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4699' => 'aag', 'Actinidia23512' => 'ach', 'Actinidia37080' => 'ach', 'Ah.01g020380' => 'amhyb', 'Ah.08g215710' => 'amhyb', 'Ah.09g225110' => 'amhyb', 'Ah.10g036680' => 'amhyb', 'AL1G21940' => 'aly', 'AL2G15540' => 'aly', 'AL4G21520' => 'aly', 'AL7G40960' => 'aly', 'Aqoxy2G01191' => 'aox', 'Aqoxy2G03393' => 'aox', 'Aqoxy4G02775' => 'aox', 'Aqoxy6G00058' => 'aox', 'arahy.Tifrunner.gnm1.ann1.9X74H2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CW3FX9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R485W7' => 'arhy', 'AT1G10960' => 'ath', 'AT1G60950' => 'ath', 'AT2G27510' => 'ath', 'AT4G14890' => 'ath', 'AT5G10000' => 'ath', 'ATR0665G624' => 'atr', 'ATR0697G138' => 'atr', 'ATR0776G046' => 'atr', 'ATR1134G135' => 'atr', 'Atru.chr12.1025' => 'acertr', 'Atru.chr3.3241' => 'acertr', 'Atru.chr4.2460' => 'acertr', 'AUR62007427' => 'cqu', 'AUR62010960' => 'cqu', 'AUR62012201' => 'cqu', 'AUR62021470' => 'cqu', 'AUR62022834' => 'cqu', 'AUR62033635' => 'cqu', 'AUR62036186' => 'cqu', 'BcaB01g03077' => 'bca', 'BcaB02g10093' => 'bca', 'BcaB04g20295' => 'bca', 'BcaB06g28147' => 'bca', 'BcaB07g31253' => 'bca', 'BcaC01g04946' => 'bca', 'BcaC02g10614' => 'bca', 'BcaC02g10885' => 'bca', 'BcaC04g19356' => 'bca', 'BcaC04g22297' => 'bca', 'BcaC05g24977' => 'bca', 'BcaC06g31823' => 'bca', 'BcaC07g38633' => 'bca', 'BcaC09g49353' => 'bca', 'BcaC09g50168' => 'bca', 'BcaNung00322' => 'bca', 'BcaNung04769' => 'bca', 'BolC1t02753H' => 'bol', 'BolC1t03721H' => 'bol', 'BolC3t15525H' => 'bol', 'BolC4t23903H' => 'bol', 'BolC4t24231H' => 'bol', 'BolC4t27209H' => 'bol', 'BolC5t29671H' => 'bol', 'BolC8t49044H' => 'bol', 'BolC9t54999H' => 'bol', 'BolC9t59517H' => 'bol', 'BraA01t02178Z' => 'bra', 'BraA01t03099Z' => 'bra', 'BraA03t11867Z' => 'bra', 'BraA04t17667Z' => 'bra', 'BraA07t29542Z' => 'bra', 'BraA08t35287Z' => 'bra', 'BraA09t37334Z' => 'bra', 'BraA10t44801Z' => 'bra', 'BraSC39t46181Z' => 'bra', 'C01p28240' => 'bna', 'C01p37530' => 'bna', 'C03p31820' => 'bna', 'C04p24080' => 'bna', 'C04p25790' => 'bna', 'C04p56770' => 'bna', 'C05p09310' => 'bna', 'C09p21010' => 'bna', 'C09p67560' => 'bna', 'CAN.G1324.7' => 'can', 'CAN.G1358.10' => 'can', 'CAN.G1550.2' => 'can', 'CAN.G186.56' => 'can', 'CAN.G1965.1' => 'can', 'CAN.G645.15' => 'can', 'CAN.G798.26' => 'can', 'CAN.G798.27' => 'can', 'CAN.G798.29' => 'can', 'CAN.G919.31' => 'can', 'CANSAT11G0133' => 'cansat', 'CANSAT11G1171' => 'cansat', 'CANSAT11G2056' => 'cansat', 'CANSAT56G1202' => 'cansat', 'CANSAT56G1514' => 'cansat', 'CANSAT78G0455' => 'cansat', 'CARHR011190' => 'chi', 'CARHR051980' => 'chi', 'CARHR120170' => 'chi', 'CARHR203310' => 'chi', 'CARHR221490' => 'chi', 'Carub.0001s1054' => 'cru', 'Carub.0002s0431' => 'cru', 'Carub.0004s0818' => 'cru', 'Carub.0006s0846' => 'cru', 'Carub.0007s2722' => 'cru', 'Ca_00058_v3' => 'car', 'Ca_17831_v3' => 'car', 'Ca_19408_v3' => 'car', 'Ca_24397_v3' => 'car', 'Ca_25664_v3' => 'car', 'CBR_g21818' => 'cbr', 'CBR_g31195' => 'cbr', 'CBR_g32282' => 'cbr', 'CBR_g39599' => 'cbr', 'CBR_g49410' => 'cbr', 'Cc01_g09120' => 'ccan', 'Cc01_g09130' => 'ccan', 'Cc02_g09630' => 'ccan', 'Cc02_g22810' => 'ccan', 'Cc03_g03810' => 'ccan', 'CDE02G3718' => 'cde', 'CDE04G3183' => 'cde', 'CDE07G1046' => 'cde', 'CDE08G0480' => 'cde', 'Cfa005493' => 'cfa', 'Cfa010312' => 'cfa', 'Cfa015648' => 'cfa', 'Ciclev10002793m.g' => 'ccl', 'Ciclev10003356m.g' => 'ccl', 'Ciclev10006141m.g' => 'ccl', 'Ciclev10016676m.g' => 'ccl', 'Ciclev10017081m.g' => 'ccl', 'Ciclev10029499m.g' => 'ccl', 'CiPaw.01G166300' => 'cil', 'CiPaw.06G145600' => 'cil', 'CiPaw.13G040100' => 'cil', 'CiPaw.13G135800' => 'cil', 'ClCG01G012230' => 'cla', 'ClCG05G009510' => 'cla', 'ClCG08G008270' => 'cla', 'COL.COLO4_11763' => 'col', 'COL.COLO4_19876' => 'col', 'COL.COLO4_21481' => 'col', 'Cpa.g.sc118.34' => 'cpa', 'Cpa.g.sc32.13' => 'cpa', 'Cpa.g.sc58.103' => 'cpa', 'Cre03.g183850' => 'cre', 'Cre06.g306350' => 'cre', 'Cre07.g334800' => 'cre', 'Cre12.g487900' => 'cre', 'Cre14.g626700' => 'cre', 'Cre16.g658400' => 'cre', 'Cre17.g700950' => 'cre', 'CsaV3_1G014830' => 'csa', 'CsaV3_3G013320' => 'csa', 'CsaV3_3G019210' => 'csa', 'CsaV3_3G019220' => 'csa', 'CsaV3_6G004230' => 'csa', 'CSS0003773' => 'camsi', 'CSS0004563' => 'camsi', 'CSS0013949' => 'camsi', 'CSS0025971' => 'camsi', 'CSS0028570' => 'camsi', 'CSS0033127' => 'camsi', 'CSS0036051' => 'camsi', 'CSS0040087' => 'camsi', 'CSS0043179' => 'camsi', 'DCAR_006161' => 'dca', 'DCAR_010351' => 'dca', 'DCAR_012197' => 'dca', 'DCAR_024162' => 'dca', 'Dinv01030' => 'din', 'Dinv10924' => 'din', 'Dinv11835' => 'din', 'Dinv22841' => 'din', 'Dinv42553' => 'din', 'Duzib052G0560' => 'dzi', 'Duzib132G0389' => 'dzi', 'Duzib150G1181' => 'dzi', 'Duzib168G0623' => 'dzi', 'Duzib170G1036' => 'dzi', 'Duzib212G0200' => 'dzi', 'Duzib248G0194' => 'dzi', 'ECA232G2193' => 'eca', 'ECA233G0302' => 'eca', 'ECA234G2813' => 'eca', 'ECA234G4866' => 'eca', 'ECA240G3932' => 'eca', 'ECA248G0385' => 'eca', 'EL10Ac2g04781' => 'bvu', 'EL10Ac3g06445' => 'bvu', 'EL10Ac7g15825' => 'bvu', 'EL10Ac8g18550' => 'bvu', 'Eucgr.B03849' => 'egr', 'Eucgr.I02744' => 'egr', 'Eucgr.J00264' => 'egr', 'Eucgr.J00493' => 'egr', 'FAN04G2181' => 'fan', 'FAN07G2666' => 'fan', 'FAN11G0024' => 'fan', 'FAN12G1105' => 'fan', 'FAN13G0302' => 'fan', 'FAN15G2781' => 'fan', 'FAN16G1274' => 'fan', 'FAN17G2988' => 'fan', 'FAN18G2621' => 'fan', 'FAN21G0013' => 'fan', 'FAN22G1211' => 'fan', 'FAN25G3626' => 'fan', 'FvH4_2g09491' => 'fve', 'FvH4_3g24910' => 'fve', 'FvH4_4g15630' => 'fve', 'FvH4_5g28820' => 'fve', 'Glyma.01G238000' => 'gma', 'Glyma.05G168400' => 'gma', 'Glyma.08G126800' => 'gma', 'Glyma.08G188500' => 'gma', 'Glyma.10G278900' => 'gma', 'Glyma.11G005700' => 'gma', 'Glyma.11G183300' => 'gma', 'Glyma.12G089200' => 'gma', 'Glyma.12G169400' => 'gma', 'Glyma.12G169500' => 'gma', 'Glyma.12G169600' => 'gma', 'Glyma.20G110800' => 'gma', 'Gohir.A03G192900' => 'ghi', 'Gohir.A03G193000' => 'ghi', 'Gohir.A05G080700' => 'ghi', 'Gohir.A09G216000' => 'ghi', 'Gohir.A12G027700' => 'ghi', 'Gohir.A13G036200' => 'ghi', 'Gohir.A13G222600' => 'ghi', 'Gohir.D02G213900' => 'ghi', 'Gohir.D02G214000' => 'ghi', 'Gohir.D05G083700' => 'ghi', 'Gohir.D05G083800' => 'ghi', 'Gohir.D05G083850' => 'ghi', 'Gohir.D08G015400' => 'ghi', 'Gohir.D09G218400' => 'ghi', 'Gohir.D12G027100' => 'ghi', 'Gohir.D13G034500' => 'ghi', 'Gohir.D13G227400' => 'ghi', 'Gorai.005G241800' => 'gra', 'Gorai.005G241900' => 'gra', 'Gorai.006G239400' => 'gra', 'Gorai.008G027600' => 'gra', 'Gorai.009G085400' => 'gra', 'Gorai.009G085500' => 'gra', 'Gorai.013G039000' => 'gra', 'Gorai.013G194800' => 'gra', 'Gorai.013G257900' => 'gra', 'GSVIVG01000982001' => 'vvi', 'GSVIVG01017981001' => 'vvi', 'HanXRQChr01g0024061' => 'han', 'HanXRQChr09g0247831' => 'han', 'HanXRQChr10g0294611' => 'han', 'HanXRQChr10g0294621' => 'han', 'HanXRQChr11g0346821' => 'han', 'HanXRQChr13g0397461' => 'han', 'HanXRQChr16g0513651' => 'han', 'HanXRQChr16g0513701' => 'han', 'Haze_00897' => 'cav', 'Haze_01745' => 'cav', 'Haze_02486' => 'cav', 'Haze_02487' => 'cav', 'Haze_23374' => 'cav', 'Hma1.2p1_0578F.1_g182520' => 'hma', 'Hma1.2p1_0602F.1_g187350' => 'hma', 'Hma1.2p1_0602F.1_g187360' => 'hma', 'Hma1.2p1_0874F.1_g231320' => 'hma', 'Hma1.2p1_1197F.1_g266210' => 'hma', 'Hma1.2p1_1197F.1_g266220' => 'hma', 'Hma1.2p1_2167F.1_g315895' => 'hma', 'Hma1.2p1_2190F.1_g316640' => 'hma', 'Hma1.2p1_3645F.1_g337153' => 'hma', 'HPP92_004907' => 'vpl', 'HPP92_012134' => 'vpl', 'HPP92_025136' => 'vpl', 'HPP92_026087' => 'vpl', 'Hund06782' => 'sun', 'Hund06784' => 'sun', 'Lalb_Chr01g0004861' => 'lal', 'Lalb_Chr02g0140591' => 'lal', 'Lalb_Chr02g0140611' => 'lal', 'Lalb_Chr03g0028101' => 'lal', 'Lalb_Chr07g0185791' => 'lal', 'Lalb_Chr12g0204491' => 'lal', 'Lalb_Chr13g0295671' => 'lal', 'Lalb_Chr19g0136461' => 'lal', 'Lalb_Chr21g0309191' => 'lal', 'Lj1g0028158' => 'lja', 'Lj1P236T38' => 'lonja', 'Lj2C32G2' => 'lonja', 'Lj2P944T8' => 'lonja', 'Lj2P963T15' => 'lonja', 'Lj3g0011788' => 'lja', 'Lj4g0025027' => 'lja', 'Lj5P255T36' => 'lonja', 'Lj6g0018866' => 'lja', 'Lj6P608T31' => 'lonja', 'LjContig00408g0008879' => 'lja', 'Lsat_1_v5_gn_5_105820' => 'lsa', 'Lsat_1_v5_gn_6_38800' => 'lsa', 'Lsat_1_v5_gn_7_67141' => 'lsa', 'Manes.04G003400' => 'mes', 'Manes.07G020000' => 'mes', 'Manes.07G020100' => 'mes', 'Manes.07G020150' => 'mes', 'Manes.10G061500' => 'mes', 'Manes.10G123200' => 'mes', 'Manes.11G161900' => 'mes', 'Manes.15G029300' => 'mes', 'Mapoly0071s0018' => 'mpo', 'Mapoly0082s0023' => 'mpo', 'Mapoly3477s0001' => 'mpo', 'MBI05_g31233_MAGBIO' => 'mbi', 'MBI09_g05946_MAGBIO' => 'mbi', 'MBI09_g05947_MAGBIO' => 'mbi', 'MBI17_g08346_MAGBIO' => 'mbi', 'MCO04G038' => 'mco', 'MCO09G370' => 'mco', 'MCO13G605' => 'mco', 'MD00G1075500' => 'mdo', 'MD03G1144300' => 'mdo', 'MD08G1236800' => 'mdo', 'MD13G1193300' => 'mdo', 'MD15G1428700' => 'mdo', 'Medtr1g112030' => 'mtr', 'Medtr1g112050' => 'mtr', 'Medtr2g006290' => 'mtr', 'Medtr2g086510' => 'mtr', 'Medtr4g053120' => 'mtr', 'Medtr5g006320' => 'mtr', 'Medtr8g088720' => 'mtr', 'MELO3C004712.2' => 'cme', 'MELO3C006533.2' => 'cme', 'MELO3C019438.2' => 'cme', 'MELO3C019440.2' => 'cme', 'MELO3C019441.2' => 'cme', 'MELO3C019895.2' => 'cme', 'Migut.B00811' => 'egut', 'Migut.D02447' => 'egut', 'Migut.F00875' => 'egut', 'Migut.N00186' => 'egut', 'Migut.N01051' => 'egut', 'Migut.N02491' => 'egut', 'Migut.O00784' => 'egut', 'MSTRG.12367' => 'ama', 'MSTRG.18756' => 'ama', 'MSTRG.21042' => 'ama', 'Nitab4.5_0000559g0040' => 'nta', 'Nitab4.5_0000667g0190' => 'nta', 'Nitab4.5_0000755g0160' => 'nta', 'Nitab4.5_0001216g0080' => 'nta', 'Nitab4.5_0004069g0040' => 'nta', 'Nitab4.5_0004129g0010' => 'nta', 'Nitab4.5_0005744g0030' => 'nta', 'Nitab4.5_0006996g0030' => 'nta', 'Nitab4.5_0008971g0040' => 'nta', 'Nitab4.5_0009769g0020' => 'nta', 'Nitab4.5_0009833g0010' => 'nta', 'Nitab4.5_0013140g0020' => 'nta', 'Nn003s41376' => 'nnu', 'Nn1g01857' => 'nnu', 'Nn1g03611' => 'nnu', 'Nn1g06853' => 'nnu', 'Nn3g18360' => 'nnu', 'Nn4g26328' => 'nnu', 'Nn5g27531' => 'nnu', 'Nn6g34899' => 'nnu', 'Nn7g36299' => 'nnu', 'Oeu021485.1' => 'oeu', 'Oeu022433.1' => 'oeu', 'Oeu032111.1' => 'oeu', 'Oeu051608.1' => 'oeu', 'Os01g0860601' => 'osa', 'Os03g0659200' => 'osa', 'Os03g0835900' => 'osa', 'Os04g0412200' => 'osa', 'Os05g0443500' => 'osa', 'Os07g0251500' => 'osa', 'Os08g0104600' => 'osa', 'Peaxi162Scf00003g00047' => 'pax', 'Peaxi162Scf00003g00052' => 'pax', 'Peaxi162Scf00003g00394' => 'pax', 'Peaxi162Scf00091g00621' => 'pax', 'Peaxi162Scf00152g00146' => 'pax', 'Peaxi162Scf00173g00025' => 'pax', 'Peaxi162Scf00195g00102' => 'pax', 'Peaxi162Scf00402g00013' => 'pax', 'Peaxi162Scf00519g00618' => 'pax', 'PGR004G2838' => 'pgr', 'PGR044G2275' => 'pgr', 'PGR102G1377' => 'pgr', 'PGR119G1245' => 'pgr', 'PGR142G4449' => 'pgr', 'PGSC0003DMG400004532' => 'stu', 'PGSC0003DMG400011950' => 'stu', 'PGSC0003DMG400023391' => 'stu', 'PGSC0003DMG400023985' => 'stu', 'PGSC0003DMG400026360' => 'stu', 'PGSC0003DMG400035711' => 'stu', 'PGSC0003DMG400037286' => 'stu', 'PGSC0003DMG402005881' => 'stu', 'Phvul.002G045400' => 'pvu', 'Phvul.006G216600' => 'pvu', 'Phvul.006G216700' => 'pvu', 'Phvul.006G216800' => 'pvu', 'Phvul.007G022500' => 'pvu', 'Phvul.011G094400' => 'pvu', 'Potri.001G470700' => 'ptr', 'Potri.003G015200' => 'ptr', 'Potri.004G202500' => 'ptr', 'Potri.004G218400' => 'ptr', 'Potri.008G020100' => 'ptr', 'Potri.008G153200' => 'ptr', 'Potri.009G163800' => 'ptr', 'Potri.010G087300' => 'ptr', 'Potri.010G239100' => 'ptr', 'Pp3c10_16100' => 'ppa', 'Pp3c10_16880' => 'ppa', 'Pp3c16_6230' => 'ppa', 'Pp3c17_18910' => 'ppa', 'Pp3c3_22119' => 'ppa', 'Pp3c3_22140' => 'ppa', 'Pp3c4_8159' => 'ppa', 'Pp3c4_8171' => 'ppa', 'Pp3c4_8330' => 'ppa', 'PRCOL_00004098' => 'pco', 'Prupe.1G013900' => 'ppe', 'Prupe.1G226300' => 'ppe', 'Prupe.1G573600' => 'ppe', 'Prupe.6G130100' => 'ppe', 'Psat3g090040' => 'psa', 'Psat4g210440' => 'psa', 'Psat6g231040' => 'psa', 'Psat6g231080' => 'psa', 'Psat7g063000' => 'psa', 'Psat7g188000' => 'psa', 'Psat7g188040' => 'psa', 'PSO017G0206' => 'pso', 'PSO170G0501' => 'pso', 'PSO170G6422' => 'pso', 'PSO210G7739' => 'pso', 'PSO339G1808' => 'pso', 'PSO339G6135' => 'pso', 'PSO384G0010' => 'pso', 'PSO384G0964' => 'pso', 'PSO761G0050' => 'pso', 'PSO782G4085' => 'pso', 'QL01p012264' => 'qlo', 'QL02p099491' => 'qlo', 'QL03p033868' => 'qlo', 'QL04p046678' => 'qlo', 'QL06p002448' => 'qlo', 'RcHm_v2.0_Chr4g0416181' => 'rch', 'RcHm_v2.0_Chr5g0044701' => 'rch', 'RcHm_v2.0_Chr6g0265781' => 'rch', 'RcHm_v2.0_Chr7g0221031' => 'rch', 'Rhsim04G0202000' => 'rsi', 'Rhsim11G0127300' => 'rsi', 'Rhsim13G0111800' => 'rsi', 'Sabra01G0165600' => 'sbr', 'Sabra03G0008300' => 'sbr', 'Sabra04G0136900' => 'sbr', 'Sabra08G0013400' => 'sbr', 'Sabra08G0116800' => 'sbr', 'Sabra09G0128000' => 'sbr', 'Sabra10G0055500' => 'sbr', 'Sabra10G0073300' => 'sbr', 'SalBow3G0385' => 'sbo', 'SalBow3G1119' => 'sbo', 'SalBow3G2005' => 'sbo', 'SalBow6G2563' => 'sbo', 'SalBow6G6386' => 'sbo', 'Sc06g0008800' => 'sci', 'Sc07g0004950' => 'sci', 'Sc09g0005340' => 'sci', 'Sc13g0004410' => 'sci', 'Sc21g0007090' => 'sci', 'Sed0009285' => 'sed', 'Sed0017583' => 'sed', 'Sed0019699' => 'sed', 'Sed0023107' => 'sed', 'SEGI_10916' => 'sgi', 'SEGI_16217' => 'sgi', 'SEGI_19466' => 'sgi', 'SEGI_41115' => 'sgi', 'SGA_v2.0_scaffold111G31534' => 'sas', 'SGA_v2.0_scaffold22G09864' => 'sas', 'SGA_v2.0_scaffold338G49219' => 'sas', 'SGA_v2.0_scaffold92G28298' => 'sas', 'SMO119G0064' => 'smo', 'SMO223G0038' => 'smo', 'SMO347G0584' => 'smo', 'SMO351G0010' => 'smo', 'SMO356G0404' => 'smo', 'Solyc01g103920.3' => 'sly', 'Solyc04g009710.2' => 'sly', 'Solyc05g055280.2' => 'sly', 'Solyc10g044520.3' => 'sly', 'Solyc10g075160.1' => 'sly', 'Solyc11g006910.3' => 'sly', 'Solyc11g068430.3' => 'sly', 'Sopen01g046310' => 'spe', 'Sopen03g001200' => 'spe', 'Sopen04g004830' => 'spe', 'Sopen05g033720' => 'spe', 'Sopen06g030740' => 'spe', 'Sopen10g013090' => 'spe', 'Sopen10g027630' => 'spe', 'Sopen10g027640' => 'spe', 'Sopen11g002820' => 'spe', 'Sopen11g027140' => 'spe', 'Sp1g09680' => 'spa', 'Sp2g03630' => 'spa', 'Sp4g10320' => 'spa', 'Sp6g33400' => 'spa', 'Sp7g13030' => 'spa', 'TAR365G0317' => 'tar', 'TAR376G0979' => 'tar', 'TAR623G1665' => 'tar', 'TAR633G2373' => 'tar', 'TAR636G1400' => 'tar', 'THA.LOC104800529' => 'tha', 'THA.LOC104808547' => 'tha', 'THA.LOC104809615' => 'tha', 'THA.LOC104815724' => 'tha', 'THA.LOC104818480' => 'tha', 'THA.LOC104819179' => 'tha', 'THA.LOC104822270' => 'tha', 'THA.LOC104826425' => 'tha', 'Thecc.02G089700' => 'tca', 'Thecc.04G232300' => 'tca', 'Thecc.09G283400' => 'tca', 'Thhalv10009020m.g' => 'esa', 'Thhalv10015506m.g' => 'esa', 'Thhalv10017364m.g' => 'esa', 'Thhalv10023742m.g' => 'esa', 'Thhalv10026483m.g' => 'esa', 'TPR.G17232' => 'tpr', 'TPR.G2133' => 'tpr', 'TPR.G2498' => 'tpr', 'TPR.G31942' => 'tpr', 'TPR.G37877' => 'tpr', 'TPR.G4571' => 'tpr', 'TWI14G1113' => 'twi', 'TWI15G0426' => 'twi', 'TWI31G1005' => 'twi', 'TWI38G0513' => 'twi', 'TWI38G1484' => 'twi', 'TWI73G1098' => 'twi', 'unitig_26.g10519' => 'ugi', 'unitig_736.g22395' => 'ugi', 'unitig_747.g21234' => 'ugi', 'unitig_747.g21942' => 'ugi', 'vmacro14351' => 'vma', 'VMungo0540G0082' => 'vmu', 'VMungo0540G0405' => 'vmu', 'VMungo0540G1486' => 'vmu', 'VMungo0540G1692' => 'vmu', 'VMungo0720G2473' => 'vmu', 'VMungo1127G1562' => 'vmu', 'VMungo1215G1918' => 'vmu', 'Zm00001eb052650' => 'zma', 'Zm00001eb063710' => 'zma', 'Zm00001eb083950' => 'zma', 'Zm00001eb174420' => 'zma', 'Zm00001eb260140' => 'zma', 'Zm00001eb260150' => 'zma', 'Zm00001eb260160' => 'zma', 'Zm00001eb348290' => 'zma', 'Zm00001eb366870' => 'zma', 'Zm00001eb421930' => 'zma' ), 'gf_id' => 'HOM05D001025', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001025' ), 'data_identifier' => 'HOM05D001025', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001025', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '592', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p22650' => 'bna', 'A01p29720' => 'bna', 'A03p26560' => 'bna', 'A03p68820' => 'bna', 'A04p20980' => 'bna', 'A06p07730' => 'bna', 'A07p18260' => 'bna', 'A08p33710' => 'bna', 'A09p16970' => 'bna', 'A10p27490' => 'bna', 'Aa31LG1G17300' => 'aar', 'Aa31LG1G3910' => 'aar', 'Aa31LG2G9630' => 'aar', 'Aa31LG5G8360' => 'aar', 'Aa31LG9G2410' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4699' => 'aag', 'Actinidia23512' => 'ach', 'Actinidia37080' => 'ach', 'Ah.01g020380' => 'amhyb', 'Ah.08g215710' => 'amhyb', 'Ah.09g225110' => 'amhyb', 'Ah.10g036680' => 'amhyb', 'AL1G21940' => 'aly', 'AL2G15540' => 'aly', 'AL4G21520' => 'aly', 'AL7G40960' => 'aly', 'Aqoxy2G01191' => 'aox', 'Aqoxy2G03393' => 'aox', 'Aqoxy4G02775' => 'aox', 'Aqoxy6G00058' => 'aox', 'arahy.Tifrunner.gnm1.ann1.9X74H2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CW3FX9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R485W7' => 'arhy', 'AT1G10960' => 'ath', 'AT1G60950' => 'ath', 'AT2G27510' => 'ath', 'AT4G14890' => 'ath', 'AT5G10000' => 'ath', 'ATR0665G624' => 'atr', 'ATR0697G138' => 'atr', 'ATR0776G046' => 'atr', 'ATR1134G135' => 'atr', 'Atru.chr12.1025' => 'acertr', 'Atru.chr3.3241' => 'acertr', 'Atru.chr4.2460' => 'acertr', 'AUR62007427' => 'cqu', 'AUR62010960' => 'cqu', 'AUR62012201' => 'cqu', 'AUR62021470' => 'cqu', 'AUR62022834' => 'cqu', 'AUR62033635' => 'cqu', 'AUR62036186' => 'cqu', 'BcaB01g03077' => 'bca', 'BcaB02g10093' => 'bca', 'BcaB04g20295' => 'bca', 'BcaB06g28147' => 'bca', 'BcaB07g31253' => 'bca', 'BcaC01g04946' => 'bca', 'BcaC02g10614' => 'bca', 'BcaC02g10885' => 'bca', 'BcaC04g19356' => 'bca', 'BcaC04g22297' => 'bca', 'BcaC05g24977' => 'bca', 'BcaC06g31823' => 'bca', 'BcaC07g38633' => 'bca', 'BcaC09g49353' => 'bca', 'BcaC09g50168' => 'bca', 'BcaNung00322' => 'bca', 'BcaNung04769' => 'bca', 'BolC1t02753H' => 'bol', 'BolC1t03721H' => 'bol', 'BolC3t15525H' => 'bol', 'BolC4t23903H' => 'bol', 'BolC4t24231H' => 'bol', 'BolC4t27209H' => 'bol', 'BolC5t29671H' => 'bol', 'BolC8t49044H' => 'bol', 'BolC9t54999H' => 'bol', 'BolC9t59517H' => 'bol', 'BraA01t02178Z' => 'bra', 'BraA01t03099Z' => 'bra', 'BraA03t11867Z' => 'bra', 'BraA04t17667Z' => 'bra', 'BraA07t29542Z' => 'bra', 'BraA08t35287Z' => 'bra', 'BraA09t37334Z' => 'bra', 'BraA10t44801Z' => 'bra', 'BraSC39t46181Z' => 'bra', 'C01p28240' => 'bna', 'C01p37530' => 'bna', 'C03p31820' => 'bna', 'C04p24080' => 'bna', 'C04p25790' => 'bna', 'C04p56770' => 'bna', 'C05p09310' => 'bna', 'C09p21010' => 'bna', 'C09p67560' => 'bna', 'CAN.G1324.7' => 'can', 'CAN.G1358.10' => 'can', 'CAN.G1550.2' => 'can', 'CAN.G186.56' => 'can', 'CAN.G1965.1' => 'can', 'CAN.G645.15' => 'can', 'CAN.G798.26' => 'can', 'CAN.G798.27' => 'can', 'CAN.G798.29' => 'can', 'CAN.G919.31' => 'can', 'CANSAT11G0133' => 'cansat', 'CANSAT11G1171' => 'cansat', 'CANSAT11G2056' => 'cansat', 'CANSAT56G1202' => 'cansat', 'CANSAT56G1514' => 'cansat', 'CANSAT78G0455' => 'cansat', 'CARHR011190' => 'chi', 'CARHR051980' => 'chi', 'CARHR120170' => 'chi', 'CARHR203310' => 'chi', 'CARHR221490' => 'chi', 'Carub.0001s1054' => 'cru', 'Carub.0002s0431' => 'cru', 'Carub.0004s0818' => 'cru', 'Carub.0006s0846' => 'cru', 'Carub.0007s2722' => 'cru', 'Ca_00058_v3' => 'car', 'Ca_17831_v3' => 'car', 'Ca_19408_v3' => 'car', 'Ca_24397_v3' => 'car', 'Ca_25664_v3' => 'car', 'CBR_g21818' => 'cbr', 'CBR_g31195' => 'cbr', 'CBR_g32282' => 'cbr', 'CBR_g39599' => 'cbr', 'CBR_g49410' => 'cbr', 'Cc01_g09120' => 'ccan', 'Cc01_g09130' => 'ccan', 'Cc02_g09630' => 'ccan', 'Cc02_g22810' => 'ccan', 'Cc03_g03810' => 'ccan', 'CDE02G3718' => 'cde', 'CDE04G3183' => 'cde', 'CDE07G1046' => 'cde', 'CDE08G0480' => 'cde', 'Cfa005493' => 'cfa', 'Cfa010312' => 'cfa', 'Cfa015648' => 'cfa', 'Ciclev10002793m.g' => 'ccl', 'Ciclev10003356m.g' => 'ccl', 'Ciclev10006141m.g' => 'ccl', 'Ciclev10016676m.g' => 'ccl', 'Ciclev10017081m.g' => 'ccl', 'Ciclev10029499m.g' => 'ccl', 'CiPaw.01G166300' => 'cil', 'CiPaw.06G145600' => 'cil', 'CiPaw.13G040100' => 'cil', 'CiPaw.13G135800' => 'cil', 'ClCG01G012230' => 'cla', 'ClCG05G009510' => 'cla', 'ClCG08G008270' => 'cla', 'COL.COLO4_11763' => 'col', 'COL.COLO4_19876' => 'col', 'COL.COLO4_21481' => 'col', 'Cpa.g.sc118.34' => 'cpa', 'Cpa.g.sc32.13' => 'cpa', 'Cpa.g.sc58.103' => 'cpa', 'Cre03.g183850' => 'cre', 'Cre06.g306350' => 'cre', 'Cre07.g334800' => 'cre', 'Cre12.g487900' => 'cre', 'Cre14.g626700' => 'cre', 'Cre16.g658400' => 'cre', 'Cre17.g700950' => 'cre', 'CsaV3_1G014830' => 'csa', 'CsaV3_3G013320' => 'csa', 'CsaV3_3G019210' => 'csa', 'CsaV3_3G019220' => 'csa', 'CsaV3_6G004230' => 'csa', 'CSS0003773' => 'camsi', 'CSS0004563' => 'camsi', 'CSS0013949' => 'camsi', 'CSS0025971' => 'camsi', 'CSS0028570' => 'camsi', 'CSS0033127' => 'camsi', 'CSS0036051' => 'camsi', 'CSS0040087' => 'camsi', 'CSS0043179' => 'camsi', 'DCAR_006161' => 'dca', 'DCAR_010351' => 'dca', 'DCAR_012197' => 'dca', 'DCAR_024162' => 'dca', 'Dinv01030' => 'din', 'Dinv10924' => 'din', 'Dinv11835' => 'din', 'Dinv22841' => 'din', 'Dinv42553' => 'din', 'Duzib052G0560' => 'dzi', 'Duzib132G0389' => 'dzi', 'Duzib150G1181' => 'dzi', 'Duzib168G0623' => 'dzi', 'Duzib170G1036' => 'dzi', 'Duzib212G0200' => 'dzi', 'Duzib248G0194' => 'dzi', 'ECA232G2193' => 'eca', 'ECA233G0302' => 'eca', 'ECA234G2813' => 'eca', 'ECA234G4866' => 'eca', 'ECA240G3932' => 'eca', 'ECA248G0385' => 'eca', 'EL10Ac2g04781' => 'bvu', 'EL10Ac3g06445' => 'bvu', 'EL10Ac7g15825' => 'bvu', 'EL10Ac8g18550' => 'bvu', 'Eucgr.B03849' => 'egr', 'Eucgr.I02744' => 'egr', 'Eucgr.J00264' => 'egr', 'Eucgr.J00493' => 'egr', 'FAN04G2181' => 'fan', 'FAN07G2666' => 'fan', 'FAN11G0024' => 'fan', 'FAN12G1105' => 'fan', 'FAN13G0302' => 'fan', 'FAN15G2781' => 'fan', 'FAN16G1274' => 'fan', 'FAN17G2988' => 'fan', 'FAN18G2621' => 'fan', 'FAN21G0013' => 'fan', 'FAN22G1211' => 'fan', 'FAN25G3626' => 'fan', 'FvH4_2g09491' => 'fve', 'FvH4_3g24910' => 'fve', 'FvH4_4g15630' => 'fve', 'FvH4_5g28820' => 'fve', 'Glyma.01G238000' => 'gma', 'Glyma.05G168400' => 'gma', 'Glyma.08G126800' => 'gma', 'Glyma.08G188500' => 'gma', 'Glyma.10G278900' => 'gma', 'Glyma.11G005700' => 'gma', 'Glyma.11G183300' => 'gma', 'Glyma.12G089200' => 'gma', 'Glyma.12G169400' => 'gma', 'Glyma.12G169500' => 'gma', 'Glyma.12G169600' => 'gma', 'Glyma.20G110800' => 'gma', 'Gohir.A03G192900' => 'ghi', 'Gohir.A03G193000' => 'ghi', 'Gohir.A05G080700' => 'ghi', 'Gohir.A09G216000' => 'ghi', 'Gohir.A12G027700' => 'ghi', 'Gohir.A13G036200' => 'ghi', 'Gohir.A13G222600' => 'ghi', 'Gohir.D02G213900' => 'ghi', 'Gohir.D02G214000' => 'ghi', 'Gohir.D05G083700' => 'ghi', 'Gohir.D05G083800' => 'ghi', 'Gohir.D05G083850' => 'ghi', 'Gohir.D08G015400' => 'ghi', 'Gohir.D09G218400' => 'ghi', 'Gohir.D12G027100' => 'ghi', 'Gohir.D13G034500' => 'ghi', 'Gohir.D13G227400' => 'ghi', 'Gorai.005G241800' => 'gra', 'Gorai.005G241900' => 'gra', 'Gorai.006G239400' => 'gra', 'Gorai.008G027600' => 'gra', 'Gorai.009G085400' => 'gra', 'Gorai.009G085500' => 'gra', 'Gorai.013G039000' => 'gra', 'Gorai.013G194800' => 'gra', 'Gorai.013G257900' => 'gra', 'GSVIVG01000982001' => 'vvi', 'GSVIVG01017981001' => 'vvi', 'HanXRQChr01g0024061' => 'han', 'HanXRQChr09g0247831' => 'han', 'HanXRQChr10g0294611' => 'han', 'HanXRQChr10g0294621' => 'han', 'HanXRQChr11g0346821' => 'han', 'HanXRQChr13g0397461' => 'han', 'HanXRQChr16g0513651' => 'han', 'HanXRQChr16g0513701' => 'han', 'Haze_00897' => 'cav', 'Haze_01745' => 'cav', 'Haze_02486' => 'cav', 'Haze_02487' => 'cav', 'Haze_23374' => 'cav', 'Hma1.2p1_0578F.1_g182520' => 'hma', 'Hma1.2p1_0602F.1_g187350' => 'hma', 'Hma1.2p1_0602F.1_g187360' => 'hma', 'Hma1.2p1_0874F.1_g231320' => 'hma', 'Hma1.2p1_1197F.1_g266210' => 'hma', 'Hma1.2p1_1197F.1_g266220' => 'hma', 'Hma1.2p1_2167F.1_g315895' => 'hma', 'Hma1.2p1_2190F.1_g316640' => 'hma', 'Hma1.2p1_3645F.1_g337153' => 'hma', 'HPP92_004907' => 'vpl', 'HPP92_012134' => 'vpl', 'HPP92_025136' => 'vpl', 'HPP92_026087' => 'vpl', 'Hund06782' => 'sun', 'Hund06784' => 'sun', 'Lalb_Chr01g0004861' => 'lal', 'Lalb_Chr02g0140591' => 'lal', 'Lalb_Chr02g0140611' => 'lal', 'Lalb_Chr03g0028101' => 'lal', 'Lalb_Chr07g0185791' => 'lal', 'Lalb_Chr12g0204491' => 'lal', 'Lalb_Chr13g0295671' => 'lal', 'Lalb_Chr19g0136461' => 'lal', 'Lalb_Chr21g0309191' => 'lal', 'Lj1g0028158' => 'lja', 'Lj1P236T38' => 'lonja', 'Lj2C32G2' => 'lonja', 'Lj2P944T8' => 'lonja', 'Lj2P963T15' => 'lonja', 'Lj3g0011788' => 'lja', 'Lj4g0025027' => 'lja', 'Lj5P255T36' => 'lonja', 'Lj6g0018866' => 'lja', 'Lj6P608T31' => 'lonja', 'LjContig00408g0008879' => 'lja', 'Lsat_1_v5_gn_5_105820' => 'lsa', 'Lsat_1_v5_gn_6_38800' => 'lsa', 'Lsat_1_v5_gn_7_67141' => 'lsa', 'Manes.04G003400' => 'mes', 'Manes.07G020000' => 'mes', 'Manes.07G020100' => 'mes', 'Manes.07G020150' => 'mes', 'Manes.10G061500' => 'mes', 'Manes.10G123200' => 'mes', 'Manes.11G161900' => 'mes', 'Manes.15G029300' => 'mes', 'Mapoly0071s0018' => 'mpo', 'Mapoly0082s0023' => 'mpo', 'Mapoly3477s0001' => 'mpo', 'MBI05_g31233_MAGBIO' => 'mbi', 'MBI09_g05946_MAGBIO' => 'mbi', 'MBI09_g05947_MAGBIO' => 'mbi', 'MBI17_g08346_MAGBIO' => 'mbi', 'MCO04G038' => 'mco', 'MCO09G370' => 'mco', 'MCO13G605' => 'mco', 'MD00G1075500' => 'mdo', 'MD03G1144300' => 'mdo', 'MD08G1236800' => 'mdo', 'MD13G1193300' => 'mdo', 'MD15G1428700' => 'mdo', 'Medtr1g112030' => 'mtr', 'Medtr1g112050' => 'mtr', 'Medtr2g006290' => 'mtr', 'Medtr2g086510' => 'mtr', 'Medtr4g053120' => 'mtr', 'Medtr5g006320' => 'mtr', 'Medtr8g088720' => 'mtr', 'MELO3C004712.2' => 'cme', 'MELO3C006533.2' => 'cme', 'MELO3C019438.2' => 'cme', 'MELO3C019440.2' => 'cme', 'MELO3C019441.2' => 'cme', 'MELO3C019895.2' => 'cme', 'Migut.B00811' => 'egut', 'Migut.D02447' => 'egut', 'Migut.F00875' => 'egut', 'Migut.N00186' => 'egut', 'Migut.N01051' => 'egut', 'Migut.N02491' => 'egut', 'Migut.O00784' => 'egut', 'MSTRG.12367' => 'ama', 'MSTRG.18756' => 'ama', 'MSTRG.21042' => 'ama', 'Nitab4.5_0000559g0040' => 'nta', 'Nitab4.5_0000667g0190' => 'nta', 'Nitab4.5_0000755g0160' => 'nta', 'Nitab4.5_0001216g0080' => 'nta', 'Nitab4.5_0004069g0040' => 'nta', 'Nitab4.5_0004129g0010' => 'nta', 'Nitab4.5_0005744g0030' => 'nta', 'Nitab4.5_0006996g0030' => 'nta', 'Nitab4.5_0008971g0040' => 'nta', 'Nitab4.5_0009769g0020' => 'nta', 'Nitab4.5_0009833g0010' => 'nta', 'Nitab4.5_0013140g0020' => 'nta', 'Nn003s41376' => 'nnu', 'Nn1g01857' => 'nnu', 'Nn1g03611' => 'nnu', 'Nn1g06853' => 'nnu', 'Nn3g18360' => 'nnu', 'Nn4g26328' => 'nnu', 'Nn5g27531' => 'nnu', 'Nn6g34899' => 'nnu', 'Nn7g36299' => 'nnu', 'Oeu021485.1' => 'oeu', 'Oeu022433.1' => 'oeu', 'Oeu032111.1' => 'oeu', 'Oeu051608.1' => 'oeu', 'Os01g0860601' => 'osa', 'Os03g0659200' => 'osa', 'Os03g0835900' => 'osa', 'Os04g0412200' => 'osa', 'Os05g0443500' => 'osa', 'Os07g0251500' => 'osa', 'Os08g0104600' => 'osa', 'Peaxi162Scf00003g00047' => 'pax', 'Peaxi162Scf00003g00052' => 'pax', 'Peaxi162Scf00003g00394' => 'pax', 'Peaxi162Scf00091g00621' => 'pax', 'Peaxi162Scf00152g00146' => 'pax', 'Peaxi162Scf00173g00025' => 'pax', 'Peaxi162Scf00195g00102' => 'pax', 'Peaxi162Scf00402g00013' => 'pax', 'Peaxi162Scf00519g00618' => 'pax', 'PGR004G2838' => 'pgr', 'PGR044G2275' => 'pgr', 'PGR102G1377' => 'pgr', 'PGR119G1245' => 'pgr', 'PGR142G4449' => 'pgr', 'PGSC0003DMG400004532' => 'stu', 'PGSC0003DMG400011950' => 'stu', 'PGSC0003DMG400023391' => 'stu', 'PGSC0003DMG400023985' => 'stu', 'PGSC0003DMG400026360' => 'stu', 'PGSC0003DMG400035711' => 'stu', 'PGSC0003DMG400037286' => 'stu', 'PGSC0003DMG402005881' => 'stu', 'Phvul.002G045400' => 'pvu', 'Phvul.006G216600' => 'pvu', 'Phvul.006G216700' => 'pvu', 'Phvul.006G216800' => 'pvu', 'Phvul.007G022500' => 'pvu', 'Phvul.011G094400' => 'pvu', 'Potri.001G470700' => 'ptr', 'Potri.003G015200' => 'ptr', 'Potri.004G202500' => 'ptr', 'Potri.004G218400' => 'ptr', 'Potri.008G020100' => 'ptr', 'Potri.008G153200' => 'ptr', 'Potri.009G163800' => 'ptr', 'Potri.010G087300' => 'ptr', 'Potri.010G239100' => 'ptr', 'Pp3c10_16100' => 'ppa', 'Pp3c10_16880' => 'ppa', 'Pp3c16_6230' => 'ppa', 'Pp3c17_18910' => 'ppa', 'Pp3c3_22119' => 'ppa', 'Pp3c3_22140' => 'ppa', 'Pp3c4_8159' => 'ppa', 'Pp3c4_8171' => 'ppa', 'Pp3c4_8330' => 'ppa', 'PRCOL_00004098' => 'pco', 'Prupe.1G013900' => 'ppe', 'Prupe.1G226300' => 'ppe', 'Prupe.1G573600' => 'ppe', 'Prupe.6G130100' => 'ppe', 'Psat3g090040' => 'psa', 'Psat4g210440' => 'psa', 'Psat6g231040' => 'psa', 'Psat6g231080' => 'psa', 'Psat7g063000' => 'psa', 'Psat7g188000' => 'psa', 'Psat7g188040' => 'psa', 'PSO017G0206' => 'pso', 'PSO170G0501' => 'pso', 'PSO170G6422' => 'pso', 'PSO210G7739' => 'pso', 'PSO339G1808' => 'pso', 'PSO339G6135' => 'pso', 'PSO384G0010' => 'pso', 'PSO384G0964' => 'pso', 'PSO761G0050' => 'pso', 'PSO782G4085' => 'pso', 'QL01p012264' => 'qlo', 'QL02p099491' => 'qlo', 'QL03p033868' => 'qlo', 'QL04p046678' => 'qlo', 'QL06p002448' => 'qlo', 'RcHm_v2.0_Chr4g0416181' => 'rch', 'RcHm_v2.0_Chr5g0044701' => 'rch', 'RcHm_v2.0_Chr6g0265781' => 'rch', 'RcHm_v2.0_Chr7g0221031' => 'rch', 'Rhsim04G0202000' => 'rsi', 'Rhsim11G0127300' => 'rsi', 'Rhsim13G0111800' => 'rsi', 'Sabra01G0165600' => 'sbr', 'Sabra03G0008300' => 'sbr', 'Sabra04G0136900' => 'sbr', 'Sabra08G0013400' => 'sbr', 'Sabra08G0116800' => 'sbr', 'Sabra09G0128000' => 'sbr', 'Sabra10G0055500' => 'sbr', 'Sabra10G0073300' => 'sbr', 'SalBow3G0385' => 'sbo', 'SalBow3G1119' => 'sbo', 'SalBow3G2005' => 'sbo', 'SalBow6G2563' => 'sbo', 'SalBow6G6386' => 'sbo', 'Sc06g0008800' => 'sci', 'Sc07g0004950' => 'sci', 'Sc09g0005340' => 'sci', 'Sc13g0004410' => 'sci', 'Sc21g0007090' => 'sci', 'Sed0009285' => 'sed', 'Sed0017583' => 'sed', 'Sed0019699' => 'sed', 'Sed0023107' => 'sed', 'SEGI_10916' => 'sgi', 'SEGI_16217' => 'sgi', 'SEGI_19466' => 'sgi', 'SEGI_41115' => 'sgi', 'SGA_v2.0_scaffold111G31534' => 'sas', 'SGA_v2.0_scaffold22G09864' => 'sas', 'SGA_v2.0_scaffold338G49219' => 'sas', 'SGA_v2.0_scaffold92G28298' => 'sas', 'SMO119G0064' => 'smo', 'SMO223G0038' => 'smo', 'SMO347G0584' => 'smo', 'SMO351G0010' => 'smo', 'SMO356G0404' => 'smo', 'Solyc01g103920.3' => 'sly', 'Solyc04g009710.2' => 'sly', 'Solyc05g055280.2' => 'sly', 'Solyc10g044520.3' => 'sly', 'Solyc10g075160.1' => 'sly', 'Solyc11g006910.3' => 'sly', 'Solyc11g068430.3' => 'sly', 'Sopen01g046310' => 'spe', 'Sopen03g001200' => 'spe', 'Sopen04g004830' => 'spe', 'Sopen05g033720' => 'spe', 'Sopen06g030740' => 'spe', 'Sopen10g013090' => 'spe', 'Sopen10g027630' => 'spe', 'Sopen10g027640' => 'spe', 'Sopen11g002820' => 'spe', 'Sopen11g027140' => 'spe', 'Sp1g09680' => 'spa', 'Sp2g03630' => 'spa', 'Sp4g10320' => 'spa', 'Sp6g33400' => 'spa', 'Sp7g13030' => 'spa', 'TAR365G0317' => 'tar', 'TAR376G0979' => 'tar', 'TAR623G1665' => 'tar', 'TAR633G2373' => 'tar', 'TAR636G1400' => 'tar', 'THA.LOC104800529' => 'tha', 'THA.LOC104808547' => 'tha', 'THA.LOC104809615' => 'tha', 'THA.LOC104815724' => 'tha', 'THA.LOC104818480' => 'tha', 'THA.LOC104819179' => 'tha', 'THA.LOC104822270' => 'tha', 'THA.LOC104826425' => 'tha', 'Thecc.02G089700' => 'tca', 'Thecc.04G232300' => 'tca', 'Thecc.09G283400' => 'tca', 'Thhalv10009020m.g' => 'esa', 'Thhalv10015506m.g' => 'esa', 'Thhalv10017364m.g' => 'esa', 'Thhalv10023742m.g' => 'esa', 'Thhalv10026483m.g' => 'esa', 'TPR.G17232' => 'tpr', 'TPR.G2133' => 'tpr', 'TPR.G2498' => 'tpr', 'TPR.G31942' => 'tpr', 'TPR.G37877' => 'tpr', 'TPR.G4571' => 'tpr', 'TWI14G1113' => 'twi', 'TWI15G0426' => 'twi', 'TWI31G1005' => 'twi', 'TWI38G0513' => 'twi', 'TWI38G1484' => 'twi', 'TWI73G1098' => 'twi', 'unitig_26.g10519' => 'ugi', 'unitig_736.g22395' => 'ugi', 'unitig_747.g21234' => 'ugi', 'unitig_747.g21942' => 'ugi', 'vmacro14351' => 'vma', 'VMungo0540G0082' => 'vmu', 'VMungo0540G0405' => 'vmu', 'VMungo0540G1486' => 'vmu', 'VMungo0540G1692' => 'vmu', 'VMungo0720G2473' => 'vmu', 'VMungo1127G1562' => 'vmu', 'VMungo1215G1918' => 'vmu', 'Zm00001eb052650' => 'zma', 'Zm00001eb063710' => 'zma', 'Zm00001eb083950' => 'zma', 'Zm00001eb174420' => 'zma', 'Zm00001eb260140' => 'zma', 'Zm00001eb260150' => 'zma', 'Zm00001eb260160' => 'zma', 'Zm00001eb348290' => 'zma', 'Zm00001eb366870' => 'zma', 'Zm00001eb421930' => 'zma' ) $gf_id = 'HOM05D001025' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001025' ) $data_identifier = 'HOM05D001025' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 19, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 2, 'amhyb' => (int) 4, 'aly' => (int) 4, 'aox' => (int) 4, 'arhy' => (int) 3, 'ath' => (int) 5, 'atr' => (int) 4, 'acertr' => (int) 3, 'cqu' => (int) 7, 'bca' => (int) 17, 'bol' => (int) 10, 'bra' => (int) 9, 'can' => (int) 10, 'cansat' => (int) 6, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 5, 'cbr' => (int) 5, 'ccan' => (int) 5, 'cde' => (int) 4, 'cfa' => (int) 3, 'ccl' => (int) 6, 'cil' => (int) 4, 'cla' => (int) 3, 'col' => (int) 3, 'cpa' => (int) 3, 'cre' => (int) 7, 'csa' => (int) 5, 'camsi' => (int) 9, 'dca' => (int) 4, 'din' => (int) 5, 'dzi' => (int) 7, 'eca' => (int) 6, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 12, 'fve' => (int) 4, 'gma' => (int) 12, 'ghi' => (int) 17, 'gra' => (int) 9, 'vvi' => (int) 2, 'han' => (int) 8, 'cav' => (int) 5, 'hma' => (int) 9, 'vpl' => (int) 4, 'sun' => (int) 2, 'lal' => (int) 9, 'lja' => (int) 5, 'lonja' => (int) 6, 'lsa' => (int) 3, 'mes' => (int) 8, 'mpo' => (int) 3, 'mbi' => (int) 4, 'mco' => (int) 3, 'mdo' => (int) 5, 'mtr' => (int) 7, 'cme' => (int) 6, 'egut' => (int) 7, 'ama' => (int) 3, 'nta' => (int) 12, 'nnu' => (int) 9, 'oeu' => (int) 4, 'osa' => (int) 7, 'pax' => (int) 9, 'pgr' => (int) 5, 'stu' => (int) 8, 'pvu' => (int) 6, 'ptr' => (int) 9, 'ppa' => (int) 9, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 7, 'pso' => (int) 10, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 3, 'sbr' => (int) 8, 'sbo' => (int) 5, 'sci' => (int) 5, 'sed' => (int) 4, 'sgi' => (int) 4, 'sas' => (int) 4, 'smo' => (int) 5, 'sly' => (int) 7, 'spe' => (int) 10, 'spa' => (int) 5, 'tar' => (int) 5, 'tha' => (int) 8, 'tca' => (int) 3, 'esa' => (int) 5, 'tpr' => (int) 6, 'twi' => (int) 6, 'ugi' => (int) 4, 'vma' => (int) 1, 'vmu' => (int) 7, 'zma' => (int) 10 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb421930' $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' => 'HOM05D001025', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '592', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p22650' => 'bna', 'A01p29720' => 'bna', 'A03p26560' => 'bna', 'A03p68820' => 'bna', 'A04p20980' => 'bna', 'A06p07730' => 'bna', 'A07p18260' => 'bna', 'A08p33710' => 'bna', 'A09p16970' => 'bna', 'A10p27490' => 'bna', 'Aa31LG1G17300' => 'aar', 'Aa31LG1G3910' => 'aar', 'Aa31LG2G9630' => 'aar', 'Aa31LG5G8360' => 'aar', 'Aa31LG9G2410' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4699' => 'aag', 'Actinidia23512' => 'ach', 'Actinidia37080' => 'ach', 'Ah.01g020380' => 'amhyb', 'Ah.08g215710' => 'amhyb', 'Ah.09g225110' => 'amhyb', 'Ah.10g036680' => 'amhyb', 'AL1G21940' => 'aly', 'AL2G15540' => 'aly', 'AL4G21520' => 'aly', 'AL7G40960' => 'aly', 'Aqoxy2G01191' => 'aox', 'Aqoxy2G03393' => 'aox', 'Aqoxy4G02775' => 'aox', 'Aqoxy6G00058' => 'aox', 'arahy.Tifrunner.gnm1.ann1.9X74H2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CW3FX9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R485W7' => 'arhy', 'AT1G10960' => 'ath', 'AT1G60950' => 'ath', 'AT2G27510' => 'ath', 'AT4G14890' => 'ath', 'AT5G10000' => 'ath', 'ATR0665G624' => 'atr', 'ATR0697G138' => 'atr', 'ATR0776G046' => 'atr', 'ATR1134G135' => 'atr', 'Atru.chr12.1025' => 'acertr', 'Atru.chr3.3241' => 'acertr', 'Atru.chr4.2460' => 'acertr', 'AUR62007427' => 'cqu', 'AUR62010960' => 'cqu', 'AUR62012201' => 'cqu', 'AUR62021470' => 'cqu', 'AUR62022834' => 'cqu', 'AUR62033635' => 'cqu', 'AUR62036186' => 'cqu', 'BcaB01g03077' => 'bca', 'BcaB02g10093' => 'bca', 'BcaB04g20295' => 'bca', 'BcaB06g28147' => 'bca', 'BcaB07g31253' => 'bca', 'BcaC01g04946' => 'bca', 'BcaC02g10614' => 'bca', 'BcaC02g10885' => 'bca', 'BcaC04g19356' => 'bca', 'BcaC04g22297' => 'bca', 'BcaC05g24977' => 'bca', 'BcaC06g31823' => 'bca', 'BcaC07g38633' => 'bca', 'BcaC09g49353' => 'bca', 'BcaC09g50168' => 'bca', 'BcaNung00322' => 'bca', 'BcaNung04769' => 'bca', 'BolC1t02753H' => 'bol', 'BolC1t03721H' => 'bol', 'BolC3t15525H' => 'bol', 'BolC4t23903H' => 'bol', 'BolC4t24231H' => 'bol', 'BolC4t27209H' => 'bol', 'BolC5t29671H' => 'bol', 'BolC8t49044H' => 'bol', 'BolC9t54999H' => 'bol', 'BolC9t59517H' => 'bol', 'BraA01t02178Z' => 'bra', 'BraA01t03099Z' => 'bra', 'BraA03t11867Z' => 'bra', 'BraA04t17667Z' => 'bra', 'BraA07t29542Z' => 'bra', 'BraA08t35287Z' => 'bra', 'BraA09t37334Z' => 'bra', 'BraA10t44801Z' => 'bra', 'BraSC39t46181Z' => 'bra', 'C01p28240' => 'bna', 'C01p37530' => 'bna', 'C03p31820' => 'bna', 'C04p24080' => 'bna', 'C04p25790' => 'bna', 'C04p56770' => 'bna', 'C05p09310' => 'bna', 'C09p21010' => 'bna', 'C09p67560' => 'bna', 'CAN.G1324.7' => 'can', 'CAN.G1358.10' => 'can', 'CAN.G1550.2' => 'can', 'CAN.G186.56' => 'can', 'CAN.G1965.1' => 'can', 'CAN.G645.15' => 'can', 'CAN.G798.26' => 'can', 'CAN.G798.27' => 'can', 'CAN.G798.29' => 'can', 'CAN.G919.31' => 'can', 'CANSAT11G0133' => 'cansat', 'CANSAT11G1171' => 'cansat', 'CANSAT11G2056' => 'cansat', 'CANSAT56G1202' => 'cansat', 'CANSAT56G1514' => 'cansat', 'CANSAT78G0455' => 'cansat', 'CARHR011190' => 'chi', 'CARHR051980' => 'chi', 'CARHR120170' => 'chi', 'CARHR203310' => 'chi', 'CARHR221490' => 'chi', 'Carub.0001s1054' => 'cru', 'Carub.0002s0431' => 'cru', 'Carub.0004s0818' => 'cru', 'Carub.0006s0846' => 'cru', 'Carub.0007s2722' => 'cru', 'Ca_00058_v3' => 'car', 'Ca_17831_v3' => 'car', 'Ca_19408_v3' => 'car', 'Ca_24397_v3' => 'car', 'Ca_25664_v3' => 'car', 'CBR_g21818' => 'cbr', 'CBR_g31195' => 'cbr', 'CBR_g32282' => 'cbr', 'CBR_g39599' => 'cbr', 'CBR_g49410' => 'cbr', 'Cc01_g09120' => 'ccan', 'Cc01_g09130' => 'ccan', 'Cc02_g09630' => 'ccan', 'Cc02_g22810' => 'ccan', 'Cc03_g03810' => 'ccan', 'CDE02G3718' => 'cde', 'CDE04G3183' => 'cde', 'CDE07G1046' => 'cde', 'CDE08G0480' => 'cde', 'Cfa005493' => 'cfa', 'Cfa010312' => 'cfa', 'Cfa015648' => 'cfa', 'Ciclev10002793m.g' => 'ccl', 'Ciclev10003356m.g' => 'ccl', 'Ciclev10006141m.g' => 'ccl', 'Ciclev10016676m.g' => 'ccl', 'Ciclev10017081m.g' => 'ccl', 'Ciclev10029499m.g' => 'ccl', 'CiPaw.01G166300' => 'cil', 'CiPaw.06G145600' => 'cil', 'CiPaw.13G040100' => 'cil', 'CiPaw.13G135800' => 'cil', 'ClCG01G012230' => 'cla', 'ClCG05G009510' => 'cla', 'ClCG08G008270' => 'cla', 'COL.COLO4_11763' => 'col', 'COL.COLO4_19876' => 'col', 'COL.COLO4_21481' => 'col', 'Cpa.g.sc118.34' => 'cpa', 'Cpa.g.sc32.13' => 'cpa', 'Cpa.g.sc58.103' => 'cpa', 'Cre03.g183850' => 'cre', 'Cre06.g306350' => 'cre', 'Cre07.g334800' => 'cre', 'Cre12.g487900' => 'cre', 'Cre14.g626700' => 'cre', 'Cre16.g658400' => 'cre', 'Cre17.g700950' => 'cre', 'CsaV3_1G014830' => 'csa', 'CsaV3_3G013320' => 'csa', 'CsaV3_3G019210' => 'csa', 'CsaV3_3G019220' => 'csa', 'CsaV3_6G004230' => 'csa', 'CSS0003773' => 'camsi', 'CSS0004563' => 'camsi', 'CSS0013949' => 'camsi', 'CSS0025971' => 'camsi', 'CSS0028570' => 'camsi', 'CSS0033127' => 'camsi', 'CSS0036051' => 'camsi', 'CSS0040087' => 'camsi', 'CSS0043179' => 'camsi', 'DCAR_006161' => 'dca', 'DCAR_010351' => 'dca', 'DCAR_012197' => 'dca', 'DCAR_024162' => 'dca', 'Dinv01030' => 'din', 'Dinv10924' => 'din', 'Dinv11835' => 'din', 'Dinv22841' => 'din', 'Dinv42553' => 'din', 'Duzib052G0560' => 'dzi', 'Duzib132G0389' => 'dzi', 'Duzib150G1181' => 'dzi', 'Duzib168G0623' => 'dzi', 'Duzib170G1036' => 'dzi', 'Duzib212G0200' => 'dzi', 'Duzib248G0194' => 'dzi', 'ECA232G2193' => 'eca', 'ECA233G0302' => 'eca', 'ECA234G2813' => 'eca', 'ECA234G4866' => 'eca', 'ECA240G3932' => 'eca', 'ECA248G0385' => 'eca', 'EL10Ac2g04781' => 'bvu', 'EL10Ac3g06445' => 'bvu', 'EL10Ac7g15825' => 'bvu', 'EL10Ac8g18550' => 'bvu', 'Eucgr.B03849' => 'egr', 'Eucgr.I02744' => 'egr', 'Eucgr.J00264' => 'egr', 'Eucgr.J00493' => 'egr', 'FAN04G2181' => 'fan', 'FAN07G2666' => 'fan', 'FAN11G0024' => 'fan', 'FAN12G1105' => 'fan', 'FAN13G0302' => 'fan', 'FAN15G2781' => 'fan', 'FAN16G1274' => 'fan', 'FAN17G2988' => 'fan', 'FAN18G2621' => 'fan', 'FAN21G0013' => 'fan', 'FAN22G1211' => 'fan', 'FAN25G3626' => 'fan', 'FvH4_2g09491' => 'fve', 'FvH4_3g24910' => 'fve', 'FvH4_4g15630' => 'fve', 'FvH4_5g28820' => 'fve', 'Glyma.01G238000' => 'gma', 'Glyma.05G168400' => 'gma', 'Glyma.08G126800' => 'gma', 'Glyma.08G188500' => 'gma', 'Glyma.10G278900' => 'gma', 'Glyma.11G005700' => 'gma', 'Glyma.11G183300' => 'gma', 'Glyma.12G089200' => 'gma', 'Glyma.12G169400' => 'gma', 'Glyma.12G169500' => 'gma', 'Glyma.12G169600' => 'gma', 'Glyma.20G110800' => 'gma', 'Gohir.A03G192900' => 'ghi', 'Gohir.A03G193000' => 'ghi', 'Gohir.A05G080700' => 'ghi', 'Gohir.A09G216000' => 'ghi', 'Gohir.A12G027700' => 'ghi', 'Gohir.A13G036200' => 'ghi', 'Gohir.A13G222600' => 'ghi', 'Gohir.D02G213900' => 'ghi', 'Gohir.D02G214000' => 'ghi', 'Gohir.D05G083700' => 'ghi', 'Gohir.D05G083800' => 'ghi', 'Gohir.D05G083850' => 'ghi', 'Gohir.D08G015400' => 'ghi', 'Gohir.D09G218400' => 'ghi', 'Gohir.D12G027100' => 'ghi', 'Gohir.D13G034500' => 'ghi', 'Gohir.D13G227400' => 'ghi', 'Gorai.005G241800' => 'gra', 'Gorai.005G241900' => 'gra', 'Gorai.006G239400' => 'gra', 'Gorai.008G027600' => 'gra', 'Gorai.009G085400' => 'gra', 'Gorai.009G085500' => 'gra', 'Gorai.013G039000' => 'gra', 'Gorai.013G194800' => 'gra', 'Gorai.013G257900' => 'gra', 'GSVIVG01000982001' => 'vvi', 'GSVIVG01017981001' => 'vvi', 'HanXRQChr01g0024061' => 'han', 'HanXRQChr09g0247831' => 'han', 'HanXRQChr10g0294611' => 'han', 'HanXRQChr10g0294621' => 'han', 'HanXRQChr11g0346821' => 'han', 'HanXRQChr13g0397461' => 'han', 'HanXRQChr16g0513651' => 'han', 'HanXRQChr16g0513701' => 'han', 'Haze_00897' => 'cav', 'Haze_01745' => 'cav', 'Haze_02486' => 'cav', 'Haze_02487' => 'cav', 'Haze_23374' => 'cav', 'Hma1.2p1_0578F.1_g182520' => 'hma', 'Hma1.2p1_0602F.1_g187350' => 'hma', 'Hma1.2p1_0602F.1_g187360' => 'hma', 'Hma1.2p1_0874F.1_g231320' => 'hma', 'Hma1.2p1_1197F.1_g266210' => 'hma', 'Hma1.2p1_1197F.1_g266220' => 'hma', 'Hma1.2p1_2167F.1_g315895' => 'hma', 'Hma1.2p1_2190F.1_g316640' => 'hma', 'Hma1.2p1_3645F.1_g337153' => 'hma', 'HPP92_004907' => 'vpl', 'HPP92_012134' => 'vpl', 'HPP92_025136' => 'vpl', 'HPP92_026087' => 'vpl', 'Hund06782' => 'sun', 'Hund06784' => 'sun', 'Lalb_Chr01g0004861' => 'lal', 'Lalb_Chr02g0140591' => 'lal', 'Lalb_Chr02g0140611' => 'lal', 'Lalb_Chr03g0028101' => 'lal', 'Lalb_Chr07g0185791' => 'lal', 'Lalb_Chr12g0204491' => 'lal', 'Lalb_Chr13g0295671' => 'lal', 'Lalb_Chr19g0136461' => 'lal', 'Lalb_Chr21g0309191' => 'lal', 'Lj1g0028158' => 'lja', 'Lj1P236T38' => 'lonja', 'Lj2C32G2' => 'lonja', 'Lj2P944T8' => 'lonja', 'Lj2P963T15' => 'lonja', 'Lj3g0011788' => 'lja', 'Lj4g0025027' => 'lja', 'Lj5P255T36' => 'lonja', 'Lj6g0018866' => 'lja', 'Lj6P608T31' => 'lonja', 'LjContig00408g0008879' => 'lja', 'Lsat_1_v5_gn_5_105820' => 'lsa', 'Lsat_1_v5_gn_6_38800' => 'lsa', 'Lsat_1_v5_gn_7_67141' => 'lsa', 'Manes.04G003400' => 'mes', 'Manes.07G020000' => 'mes', 'Manes.07G020100' => 'mes', 'Manes.07G020150' => 'mes', 'Manes.10G061500' => 'mes', 'Manes.10G123200' => 'mes', 'Manes.11G161900' => 'mes', 'Manes.15G029300' => 'mes', 'Mapoly0071s0018' => 'mpo', 'Mapoly0082s0023' => 'mpo', 'Mapoly3477s0001' => 'mpo', 'MBI05_g31233_MAGBIO' => 'mbi', 'MBI09_g05946_MAGBIO' => 'mbi', 'MBI09_g05947_MAGBIO' => 'mbi', 'MBI17_g08346_MAGBIO' => 'mbi', 'MCO04G038' => 'mco', 'MCO09G370' => 'mco', 'MCO13G605' => 'mco', 'MD00G1075500' => 'mdo', 'MD03G1144300' => 'mdo', 'MD08G1236800' => 'mdo', 'MD13G1193300' => 'mdo', 'MD15G1428700' => 'mdo', 'Medtr1g112030' => 'mtr', 'Medtr1g112050' => 'mtr', 'Medtr2g006290' => 'mtr', 'Medtr2g086510' => 'mtr', 'Medtr4g053120' => 'mtr', 'Medtr5g006320' => 'mtr', 'Medtr8g088720' => 'mtr', 'MELO3C004712.2' => 'cme', 'MELO3C006533.2' => 'cme', 'MELO3C019438.2' => 'cme', 'MELO3C019440.2' => 'cme', 'MELO3C019441.2' => 'cme', 'MELO3C019895.2' => 'cme', 'Migut.B00811' => 'egut', 'Migut.D02447' => 'egut', 'Migut.F00875' => 'egut', 'Migut.N00186' => 'egut', 'Migut.N01051' => 'egut', 'Migut.N02491' => 'egut', 'Migut.O00784' => 'egut', 'MSTRG.12367' => 'ama', 'MSTRG.18756' => 'ama', 'MSTRG.21042' => 'ama', 'Nitab4.5_0000559g0040' => 'nta', 'Nitab4.5_0000667g0190' => 'nta', 'Nitab4.5_0000755g0160' => 'nta', 'Nitab4.5_0001216g0080' => 'nta', 'Nitab4.5_0004069g0040' => 'nta', 'Nitab4.5_0004129g0010' => 'nta', 'Nitab4.5_0005744g0030' => 'nta', 'Nitab4.5_0006996g0030' => 'nta', 'Nitab4.5_0008971g0040' => 'nta', 'Nitab4.5_0009769g0020' => 'nta', 'Nitab4.5_0009833g0010' => 'nta', 'Nitab4.5_0013140g0020' => 'nta', 'Nn003s41376' => 'nnu', 'Nn1g01857' => 'nnu', 'Nn1g03611' => 'nnu', 'Nn1g06853' => 'nnu', 'Nn3g18360' => 'nnu', 'Nn4g26328' => 'nnu', 'Nn5g27531' => 'nnu', 'Nn6g34899' => 'nnu', 'Nn7g36299' => 'nnu', 'Oeu021485.1' => 'oeu', 'Oeu022433.1' => 'oeu', 'Oeu032111.1' => 'oeu', 'Oeu051608.1' => 'oeu', 'Os01g0860601' => 'osa', 'Os03g0659200' => 'osa', 'Os03g0835900' => 'osa', 'Os04g0412200' => 'osa', 'Os05g0443500' => 'osa', 'Os07g0251500' => 'osa', 'Os08g0104600' => 'osa', 'Peaxi162Scf00003g00047' => 'pax', 'Peaxi162Scf00003g00052' => 'pax', 'Peaxi162Scf00003g00394' => 'pax', 'Peaxi162Scf00091g00621' => 'pax', 'Peaxi162Scf00152g00146' => 'pax', 'Peaxi162Scf00173g00025' => 'pax', 'Peaxi162Scf00195g00102' => 'pax', 'Peaxi162Scf00402g00013' => 'pax', 'Peaxi162Scf00519g00618' => 'pax', 'PGR004G2838' => 'pgr', 'PGR044G2275' => 'pgr', 'PGR102G1377' => 'pgr', 'PGR119G1245' => 'pgr', 'PGR142G4449' => 'pgr', 'PGSC0003DMG400004532' => 'stu', 'PGSC0003DMG400011950' => 'stu', 'PGSC0003DMG400023391' => 'stu', 'PGSC0003DMG400023985' => 'stu', 'PGSC0003DMG400026360' => 'stu', 'PGSC0003DMG400035711' => 'stu', 'PGSC0003DMG400037286' => 'stu', 'PGSC0003DMG402005881' => 'stu', 'Phvul.002G045400' => 'pvu', 'Phvul.006G216600' => 'pvu', 'Phvul.006G216700' => 'pvu', 'Phvul.006G216800' => 'pvu', 'Phvul.007G022500' => 'pvu', 'Phvul.011G094400' => 'pvu', 'Potri.001G470700' => 'ptr', 'Potri.003G015200' => 'ptr', 'Potri.004G202500' => 'ptr', 'Potri.004G218400' => 'ptr', 'Potri.008G020100' => 'ptr', 'Potri.008G153200' => 'ptr', 'Potri.009G163800' => 'ptr', 'Potri.010G087300' => 'ptr', 'Potri.010G239100' => 'ptr', 'Pp3c10_16100' => 'ppa', 'Pp3c10_16880' => 'ppa', 'Pp3c16_6230' => 'ppa', 'Pp3c17_18910' => 'ppa', 'Pp3c3_22119' => 'ppa', 'Pp3c3_22140' => 'ppa', 'Pp3c4_8159' => 'ppa', 'Pp3c4_8171' => 'ppa', 'Pp3c4_8330' => 'ppa', 'PRCOL_00004098' => 'pco', 'Prupe.1G013900' => 'ppe', 'Prupe.1G226300' => 'ppe', 'Prupe.1G573600' => 'ppe', 'Prupe.6G130100' => 'ppe', 'Psat3g090040' => 'psa', 'Psat4g210440' => 'psa', 'Psat6g231040' => 'psa', 'Psat6g231080' => 'psa', 'Psat7g063000' => 'psa', 'Psat7g188000' => 'psa', 'Psat7g188040' => 'psa', 'PSO017G0206' => 'pso', 'PSO170G0501' => 'pso', 'PSO170G6422' => 'pso', 'PSO210G7739' => 'pso', 'PSO339G1808' => 'pso', 'PSO339G6135' => 'pso', 'PSO384G0010' => 'pso', 'PSO384G0964' => 'pso', 'PSO761G0050' => 'pso', 'PSO782G4085' => 'pso', 'QL01p012264' => 'qlo', 'QL02p099491' => 'qlo', 'QL03p033868' => 'qlo', 'QL04p046678' => 'qlo', 'QL06p002448' => 'qlo', 'RcHm_v2.0_Chr4g0416181' => 'rch', 'RcHm_v2.0_Chr5g0044701' => 'rch', 'RcHm_v2.0_Chr6g0265781' => 'rch', 'RcHm_v2.0_Chr7g0221031' => 'rch', 'Rhsim04G0202000' => 'rsi', 'Rhsim11G0127300' => 'rsi', 'Rhsim13G0111800' => 'rsi', 'Sabra01G0165600' => 'sbr', 'Sabra03G0008300' => 'sbr', 'Sabra04G0136900' => 'sbr', 'Sabra08G0013400' => 'sbr', 'Sabra08G0116800' => 'sbr', 'Sabra09G0128000' => 'sbr', 'Sabra10G0055500' => 'sbr', 'Sabra10G0073300' => 'sbr', 'SalBow3G0385' => 'sbo', 'SalBow3G1119' => 'sbo', 'SalBow3G2005' => 'sbo', 'SalBow6G2563' => 'sbo', 'SalBow6G6386' => 'sbo', 'Sc06g0008800' => 'sci', 'Sc07g0004950' => 'sci', 'Sc09g0005340' => 'sci', 'Sc13g0004410' => 'sci', 'Sc21g0007090' => 'sci', 'Sed0009285' => 'sed', 'Sed0017583' => 'sed', 'Sed0019699' => 'sed', 'Sed0023107' => 'sed', 'SEGI_10916' => 'sgi', 'SEGI_16217' => 'sgi', 'SEGI_19466' => 'sgi', 'SEGI_41115' => 'sgi', 'SGA_v2.0_scaffold111G31534' => 'sas', 'SGA_v2.0_scaffold22G09864' => 'sas', 'SGA_v2.0_scaffold338G49219' => 'sas', 'SGA_v2.0_scaffold92G28298' => 'sas', 'SMO119G0064' => 'smo', 'SMO223G0038' => 'smo', 'SMO347G0584' => 'smo', 'SMO351G0010' => 'smo', 'SMO356G0404' => 'smo', 'Solyc01g103920.3' => 'sly', 'Solyc04g009710.2' => 'sly', 'Solyc05g055280.2' => 'sly', 'Solyc10g044520.3' => 'sly', 'Solyc10g075160.1' => 'sly', 'Solyc11g006910.3' => 'sly', 'Solyc11g068430.3' => 'sly', 'Sopen01g046310' => 'spe', 'Sopen03g001200' => 'spe', 'Sopen04g004830' => 'spe', 'Sopen05g033720' => 'spe', 'Sopen06g030740' => 'spe', 'Sopen10g013090' => 'spe', 'Sopen10g027630' => 'spe', 'Sopen10g027640' => 'spe', 'Sopen11g002820' => 'spe', 'Sopen11g027140' => 'spe', 'Sp1g09680' => 'spa', 'Sp2g03630' => 'spa', 'Sp4g10320' => 'spa', 'Sp6g33400' => 'spa', 'Sp7g13030' => 'spa', 'TAR365G0317' => 'tar', 'TAR376G0979' => 'tar', 'TAR623G1665' => 'tar', 'TAR633G2373' => 'tar', 'TAR636G1400' => 'tar', 'THA.LOC104800529' => 'tha', 'THA.LOC104808547' => 'tha', 'THA.LOC104809615' => 'tha', 'THA.LOC104815724' => 'tha', 'THA.LOC104818480' => 'tha', 'THA.LOC104819179' => 'tha', 'THA.LOC104822270' => 'tha', 'THA.LOC104826425' => 'tha', 'Thecc.02G089700' => 'tca', 'Thecc.04G232300' => 'tca', 'Thecc.09G283400' => 'tca', 'Thhalv10009020m.g' => 'esa', 'Thhalv10015506m.g' => 'esa', 'Thhalv10017364m.g' => 'esa', 'Thhalv10023742m.g' => 'esa', 'Thhalv10026483m.g' => 'esa', 'TPR.G17232' => 'tpr', 'TPR.G2133' => 'tpr', 'TPR.G2498' => 'tpr', 'TPR.G31942' => 'tpr', 'TPR.G37877' => 'tpr', 'TPR.G4571' => 'tpr', 'TWI14G1113' => 'twi', 'TWI15G0426' => 'twi', 'TWI31G1005' => 'twi', 'TWI38G0513' => 'twi', 'TWI38G1484' => 'twi', 'TWI73G1098' => 'twi', 'unitig_26.g10519' => 'ugi', 'unitig_736.g22395' => 'ugi', 'unitig_747.g21234' => 'ugi', 'unitig_747.g21942' => 'ugi', 'vmacro14351' => 'vma', 'VMungo0540G0082' => 'vmu', 'VMungo0540G0405' => 'vmu', 'VMungo0540G1486' => 'vmu', 'VMungo0540G1692' => 'vmu', 'VMungo0720G2473' => 'vmu', 'VMungo1127G1562' => 'vmu', 'VMungo1215G1918' => 'vmu', 'Zm00001eb052650' => 'zma', 'Zm00001eb063710' => 'zma', 'Zm00001eb083950' => 'zma', 'Zm00001eb174420' => 'zma', 'Zm00001eb260140' => 'zma', 'Zm00001eb260150' => 'zma', 'Zm00001eb260160' => 'zma', 'Zm00001eb348290' => 'zma', 'Zm00001eb366870' => 'zma', 'Zm00001eb421930' => 'zma' ), 'gf_id' => 'HOM05D001025', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001025' ), 'data_identifier' => 'HOM05D001025', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001025', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '592', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p22650' => 'bna', 'A01p29720' => 'bna', 'A03p26560' => 'bna', 'A03p68820' => 'bna', 'A04p20980' => 'bna', 'A06p07730' => 'bna', 'A07p18260' => 'bna', 'A08p33710' => 'bna', 'A09p16970' => 'bna', 'A10p27490' => 'bna', 'Aa31LG1G17300' => 'aar', 'Aa31LG1G3910' => 'aar', 'Aa31LG2G9630' => 'aar', 'Aa31LG5G8360' => 'aar', 'Aa31LG9G2410' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4699' => 'aag', 'Actinidia23512' => 'ach', 'Actinidia37080' => 'ach', 'Ah.01g020380' => 'amhyb', 'Ah.08g215710' => 'amhyb', 'Ah.09g225110' => 'amhyb', 'Ah.10g036680' => 'amhyb', 'AL1G21940' => 'aly', 'AL2G15540' => 'aly', 'AL4G21520' => 'aly', 'AL7G40960' => 'aly', 'Aqoxy2G01191' => 'aox', 'Aqoxy2G03393' => 'aox', 'Aqoxy4G02775' => 'aox', 'Aqoxy6G00058' => 'aox', 'arahy.Tifrunner.gnm1.ann1.9X74H2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CW3FX9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R485W7' => 'arhy', 'AT1G10960' => 'ath', 'AT1G60950' => 'ath', 'AT2G27510' => 'ath', 'AT4G14890' => 'ath', 'AT5G10000' => 'ath', 'ATR0665G624' => 'atr', 'ATR0697G138' => 'atr', 'ATR0776G046' => 'atr', 'ATR1134G135' => 'atr', 'Atru.chr12.1025' => 'acertr', 'Atru.chr3.3241' => 'acertr', 'Atru.chr4.2460' => 'acertr', 'AUR62007427' => 'cqu', 'AUR62010960' => 'cqu', 'AUR62012201' => 'cqu', 'AUR62021470' => 'cqu', 'AUR62022834' => 'cqu', 'AUR62033635' => 'cqu', 'AUR62036186' => 'cqu', 'BcaB01g03077' => 'bca', 'BcaB02g10093' => 'bca', 'BcaB04g20295' => 'bca', 'BcaB06g28147' => 'bca', 'BcaB07g31253' => 'bca', 'BcaC01g04946' => 'bca', 'BcaC02g10614' => 'bca', 'BcaC02g10885' => 'bca', 'BcaC04g19356' => 'bca', 'BcaC04g22297' => 'bca', 'BcaC05g24977' => 'bca', 'BcaC06g31823' => 'bca', 'BcaC07g38633' => 'bca', 'BcaC09g49353' => 'bca', 'BcaC09g50168' => 'bca', 'BcaNung00322' => 'bca', 'BcaNung04769' => 'bca', 'BolC1t02753H' => 'bol', 'BolC1t03721H' => 'bol', 'BolC3t15525H' => 'bol', 'BolC4t23903H' => 'bol', 'BolC4t24231H' => 'bol', 'BolC4t27209H' => 'bol', 'BolC5t29671H' => 'bol', 'BolC8t49044H' => 'bol', 'BolC9t54999H' => 'bol', 'BolC9t59517H' => 'bol', 'BraA01t02178Z' => 'bra', 'BraA01t03099Z' => 'bra', 'BraA03t11867Z' => 'bra', 'BraA04t17667Z' => 'bra', 'BraA07t29542Z' => 'bra', 'BraA08t35287Z' => 'bra', 'BraA09t37334Z' => 'bra', 'BraA10t44801Z' => 'bra', 'BraSC39t46181Z' => 'bra', 'C01p28240' => 'bna', 'C01p37530' => 'bna', 'C03p31820' => 'bna', 'C04p24080' => 'bna', 'C04p25790' => 'bna', 'C04p56770' => 'bna', 'C05p09310' => 'bna', 'C09p21010' => 'bna', 'C09p67560' => 'bna', 'CAN.G1324.7' => 'can', 'CAN.G1358.10' => 'can', 'CAN.G1550.2' => 'can', 'CAN.G186.56' => 'can', 'CAN.G1965.1' => 'can', 'CAN.G645.15' => 'can', 'CAN.G798.26' => 'can', 'CAN.G798.27' => 'can', 'CAN.G798.29' => 'can', 'CAN.G919.31' => 'can', 'CANSAT11G0133' => 'cansat', 'CANSAT11G1171' => 'cansat', 'CANSAT11G2056' => 'cansat', 'CANSAT56G1202' => 'cansat', 'CANSAT56G1514' => 'cansat', 'CANSAT78G0455' => 'cansat', 'CARHR011190' => 'chi', 'CARHR051980' => 'chi', 'CARHR120170' => 'chi', 'CARHR203310' => 'chi', 'CARHR221490' => 'chi', 'Carub.0001s1054' => 'cru', 'Carub.0002s0431' => 'cru', 'Carub.0004s0818' => 'cru', 'Carub.0006s0846' => 'cru', 'Carub.0007s2722' => 'cru', 'Ca_00058_v3' => 'car', 'Ca_17831_v3' => 'car', 'Ca_19408_v3' => 'car', 'Ca_24397_v3' => 'car', 'Ca_25664_v3' => 'car', 'CBR_g21818' => 'cbr', 'CBR_g31195' => 'cbr', 'CBR_g32282' => 'cbr', 'CBR_g39599' => 'cbr', 'CBR_g49410' => 'cbr', 'Cc01_g09120' => 'ccan', 'Cc01_g09130' => 'ccan', 'Cc02_g09630' => 'ccan', 'Cc02_g22810' => 'ccan', 'Cc03_g03810' => 'ccan', 'CDE02G3718' => 'cde', 'CDE04G3183' => 'cde', 'CDE07G1046' => 'cde', 'CDE08G0480' => 'cde', 'Cfa005493' => 'cfa', 'Cfa010312' => 'cfa', 'Cfa015648' => 'cfa', 'Ciclev10002793m.g' => 'ccl', 'Ciclev10003356m.g' => 'ccl', 'Ciclev10006141m.g' => 'ccl', 'Ciclev10016676m.g' => 'ccl', 'Ciclev10017081m.g' => 'ccl', 'Ciclev10029499m.g' => 'ccl', 'CiPaw.01G166300' => 'cil', 'CiPaw.06G145600' => 'cil', 'CiPaw.13G040100' => 'cil', 'CiPaw.13G135800' => 'cil', 'ClCG01G012230' => 'cla', 'ClCG05G009510' => 'cla', 'ClCG08G008270' => 'cla', 'COL.COLO4_11763' => 'col', 'COL.COLO4_19876' => 'col', 'COL.COLO4_21481' => 'col', 'Cpa.g.sc118.34' => 'cpa', 'Cpa.g.sc32.13' => 'cpa', 'Cpa.g.sc58.103' => 'cpa', 'Cre03.g183850' => 'cre', 'Cre06.g306350' => 'cre', 'Cre07.g334800' => 'cre', 'Cre12.g487900' => 'cre', 'Cre14.g626700' => 'cre', 'Cre16.g658400' => 'cre', 'Cre17.g700950' => 'cre', 'CsaV3_1G014830' => 'csa', 'CsaV3_3G013320' => 'csa', 'CsaV3_3G019210' => 'csa', 'CsaV3_3G019220' => 'csa', 'CsaV3_6G004230' => 'csa', 'CSS0003773' => 'camsi', 'CSS0004563' => 'camsi', 'CSS0013949' => 'camsi', 'CSS0025971' => 'camsi', 'CSS0028570' => 'camsi', 'CSS0033127' => 'camsi', 'CSS0036051' => 'camsi', 'CSS0040087' => 'camsi', 'CSS0043179' => 'camsi', 'DCAR_006161' => 'dca', 'DCAR_010351' => 'dca', 'DCAR_012197' => 'dca', 'DCAR_024162' => 'dca', 'Dinv01030' => 'din', 'Dinv10924' => 'din', 'Dinv11835' => 'din', 'Dinv22841' => 'din', 'Dinv42553' => 'din', 'Duzib052G0560' => 'dzi', 'Duzib132G0389' => 'dzi', 'Duzib150G1181' => 'dzi', 'Duzib168G0623' => 'dzi', 'Duzib170G1036' => 'dzi', 'Duzib212G0200' => 'dzi', 'Duzib248G0194' => 'dzi', 'ECA232G2193' => 'eca', 'ECA233G0302' => 'eca', 'ECA234G2813' => 'eca', 'ECA234G4866' => 'eca', 'ECA240G3932' => 'eca', 'ECA248G0385' => 'eca', 'EL10Ac2g04781' => 'bvu', 'EL10Ac3g06445' => 'bvu', 'EL10Ac7g15825' => 'bvu', 'EL10Ac8g18550' => 'bvu', 'Eucgr.B03849' => 'egr', 'Eucgr.I02744' => 'egr', 'Eucgr.J00264' => 'egr', 'Eucgr.J00493' => 'egr', 'FAN04G2181' => 'fan', 'FAN07G2666' => 'fan', 'FAN11G0024' => 'fan', 'FAN12G1105' => 'fan', 'FAN13G0302' => 'fan', 'FAN15G2781' => 'fan', 'FAN16G1274' => 'fan', 'FAN17G2988' => 'fan', 'FAN18G2621' => 'fan', 'FAN21G0013' => 'fan', 'FAN22G1211' => 'fan', 'FAN25G3626' => 'fan', 'FvH4_2g09491' => 'fve', 'FvH4_3g24910' => 'fve', 'FvH4_4g15630' => 'fve', 'FvH4_5g28820' => 'fve', 'Glyma.01G238000' => 'gma', 'Glyma.05G168400' => 'gma', 'Glyma.08G126800' => 'gma', 'Glyma.08G188500' => 'gma', 'Glyma.10G278900' => 'gma', 'Glyma.11G005700' => 'gma', 'Glyma.11G183300' => 'gma', 'Glyma.12G089200' => 'gma', 'Glyma.12G169400' => 'gma', 'Glyma.12G169500' => 'gma', 'Glyma.12G169600' => 'gma', 'Glyma.20G110800' => 'gma', 'Gohir.A03G192900' => 'ghi', 'Gohir.A03G193000' => 'ghi', 'Gohir.A05G080700' => 'ghi', 'Gohir.A09G216000' => 'ghi', 'Gohir.A12G027700' => 'ghi', 'Gohir.A13G036200' => 'ghi', 'Gohir.A13G222600' => 'ghi', 'Gohir.D02G213900' => 'ghi', 'Gohir.D02G214000' => 'ghi', 'Gohir.D05G083700' => 'ghi', 'Gohir.D05G083800' => 'ghi', 'Gohir.D05G083850' => 'ghi', 'Gohir.D08G015400' => 'ghi', 'Gohir.D09G218400' => 'ghi', 'Gohir.D12G027100' => 'ghi', 'Gohir.D13G034500' => 'ghi', 'Gohir.D13G227400' => 'ghi', 'Gorai.005G241800' => 'gra', 'Gorai.005G241900' => 'gra', 'Gorai.006G239400' => 'gra', 'Gorai.008G027600' => 'gra', 'Gorai.009G085400' => 'gra', 'Gorai.009G085500' => 'gra', 'Gorai.013G039000' => 'gra', 'Gorai.013G194800' => 'gra', 'Gorai.013G257900' => 'gra', 'GSVIVG01000982001' => 'vvi', 'GSVIVG01017981001' => 'vvi', 'HanXRQChr01g0024061' => 'han', 'HanXRQChr09g0247831' => 'han', 'HanXRQChr10g0294611' => 'han', 'HanXRQChr10g0294621' => 'han', 'HanXRQChr11g0346821' => 'han', 'HanXRQChr13g0397461' => 'han', 'HanXRQChr16g0513651' => 'han', 'HanXRQChr16g0513701' => 'han', 'Haze_00897' => 'cav', 'Haze_01745' => 'cav', 'Haze_02486' => 'cav', 'Haze_02487' => 'cav', 'Haze_23374' => 'cav', 'Hma1.2p1_0578F.1_g182520' => 'hma', 'Hma1.2p1_0602F.1_g187350' => 'hma', 'Hma1.2p1_0602F.1_g187360' => 'hma', 'Hma1.2p1_0874F.1_g231320' => 'hma', 'Hma1.2p1_1197F.1_g266210' => 'hma', 'Hma1.2p1_1197F.1_g266220' => 'hma', 'Hma1.2p1_2167F.1_g315895' => 'hma', 'Hma1.2p1_2190F.1_g316640' => 'hma', 'Hma1.2p1_3645F.1_g337153' => 'hma', 'HPP92_004907' => 'vpl', 'HPP92_012134' => 'vpl', 'HPP92_025136' => 'vpl', 'HPP92_026087' => 'vpl', 'Hund06782' => 'sun', 'Hund06784' => 'sun', 'Lalb_Chr01g0004861' => 'lal', 'Lalb_Chr02g0140591' => 'lal', 'Lalb_Chr02g0140611' => 'lal', 'Lalb_Chr03g0028101' => 'lal', 'Lalb_Chr07g0185791' => 'lal', 'Lalb_Chr12g0204491' => 'lal', 'Lalb_Chr13g0295671' => 'lal', 'Lalb_Chr19g0136461' => 'lal', 'Lalb_Chr21g0309191' => 'lal', 'Lj1g0028158' => 'lja', 'Lj1P236T38' => 'lonja', 'Lj2C32G2' => 'lonja', 'Lj2P944T8' => 'lonja', 'Lj2P963T15' => 'lonja', 'Lj3g0011788' => 'lja', 'Lj4g0025027' => 'lja', 'Lj5P255T36' => 'lonja', 'Lj6g0018866' => 'lja', 'Lj6P608T31' => 'lonja', 'LjContig00408g0008879' => 'lja', 'Lsat_1_v5_gn_5_105820' => 'lsa', 'Lsat_1_v5_gn_6_38800' => 'lsa', 'Lsat_1_v5_gn_7_67141' => 'lsa', 'Manes.04G003400' => 'mes', 'Manes.07G020000' => 'mes', 'Manes.07G020100' => 'mes', 'Manes.07G020150' => 'mes', 'Manes.10G061500' => 'mes', 'Manes.10G123200' => 'mes', 'Manes.11G161900' => 'mes', 'Manes.15G029300' => 'mes', 'Mapoly0071s0018' => 'mpo', 'Mapoly0082s0023' => 'mpo', 'Mapoly3477s0001' => 'mpo', 'MBI05_g31233_MAGBIO' => 'mbi', 'MBI09_g05946_MAGBIO' => 'mbi', 'MBI09_g05947_MAGBIO' => 'mbi', 'MBI17_g08346_MAGBIO' => 'mbi', 'MCO04G038' => 'mco', 'MCO09G370' => 'mco', 'MCO13G605' => 'mco', 'MD00G1075500' => 'mdo', 'MD03G1144300' => 'mdo', 'MD08G1236800' => 'mdo', 'MD13G1193300' => 'mdo', 'MD15G1428700' => 'mdo', 'Medtr1g112030' => 'mtr', 'Medtr1g112050' => 'mtr', 'Medtr2g006290' => 'mtr', 'Medtr2g086510' => 'mtr', 'Medtr4g053120' => 'mtr', 'Medtr5g006320' => 'mtr', 'Medtr8g088720' => 'mtr', 'MELO3C004712.2' => 'cme', 'MELO3C006533.2' => 'cme', 'MELO3C019438.2' => 'cme', 'MELO3C019440.2' => 'cme', 'MELO3C019441.2' => 'cme', 'MELO3C019895.2' => 'cme', 'Migut.B00811' => 'egut', 'Migut.D02447' => 'egut', 'Migut.F00875' => 'egut', 'Migut.N00186' => 'egut', 'Migut.N01051' => 'egut', 'Migut.N02491' => 'egut', 'Migut.O00784' => 'egut', 'MSTRG.12367' => 'ama', 'MSTRG.18756' => 'ama', 'MSTRG.21042' => 'ama', 'Nitab4.5_0000559g0040' => 'nta', 'Nitab4.5_0000667g0190' => 'nta', 'Nitab4.5_0000755g0160' => 'nta', 'Nitab4.5_0001216g0080' => 'nta', 'Nitab4.5_0004069g0040' => 'nta', 'Nitab4.5_0004129g0010' => 'nta', 'Nitab4.5_0005744g0030' => 'nta', 'Nitab4.5_0006996g0030' => 'nta', 'Nitab4.5_0008971g0040' => 'nta', 'Nitab4.5_0009769g0020' => 'nta', 'Nitab4.5_0009833g0010' => 'nta', 'Nitab4.5_0013140g0020' => 'nta', 'Nn003s41376' => 'nnu', 'Nn1g01857' => 'nnu', 'Nn1g03611' => 'nnu', 'Nn1g06853' => 'nnu', 'Nn3g18360' => 'nnu', 'Nn4g26328' => 'nnu', 'Nn5g27531' => 'nnu', 'Nn6g34899' => 'nnu', 'Nn7g36299' => 'nnu', 'Oeu021485.1' => 'oeu', 'Oeu022433.1' => 'oeu', 'Oeu032111.1' => 'oeu', 'Oeu051608.1' => 'oeu', 'Os01g0860601' => 'osa', 'Os03g0659200' => 'osa', 'Os03g0835900' => 'osa', 'Os04g0412200' => 'osa', 'Os05g0443500' => 'osa', 'Os07g0251500' => 'osa', 'Os08g0104600' => 'osa', 'Peaxi162Scf00003g00047' => 'pax', 'Peaxi162Scf00003g00052' => 'pax', 'Peaxi162Scf00003g00394' => 'pax', 'Peaxi162Scf00091g00621' => 'pax', 'Peaxi162Scf00152g00146' => 'pax', 'Peaxi162Scf00173g00025' => 'pax', 'Peaxi162Scf00195g00102' => 'pax', 'Peaxi162Scf00402g00013' => 'pax', 'Peaxi162Scf00519g00618' => 'pax', 'PGR004G2838' => 'pgr', 'PGR044G2275' => 'pgr', 'PGR102G1377' => 'pgr', 'PGR119G1245' => 'pgr', 'PGR142G4449' => 'pgr', 'PGSC0003DMG400004532' => 'stu', 'PGSC0003DMG400011950' => 'stu', 'PGSC0003DMG400023391' => 'stu', 'PGSC0003DMG400023985' => 'stu', 'PGSC0003DMG400026360' => 'stu', 'PGSC0003DMG400035711' => 'stu', 'PGSC0003DMG400037286' => 'stu', 'PGSC0003DMG402005881' => 'stu', 'Phvul.002G045400' => 'pvu', 'Phvul.006G216600' => 'pvu', 'Phvul.006G216700' => 'pvu', 'Phvul.006G216800' => 'pvu', 'Phvul.007G022500' => 'pvu', 'Phvul.011G094400' => 'pvu', 'Potri.001G470700' => 'ptr', 'Potri.003G015200' => 'ptr', 'Potri.004G202500' => 'ptr', 'Potri.004G218400' => 'ptr', 'Potri.008G020100' => 'ptr', 'Potri.008G153200' => 'ptr', 'Potri.009G163800' => 'ptr', 'Potri.010G087300' => 'ptr', 'Potri.010G239100' => 'ptr', 'Pp3c10_16100' => 'ppa', 'Pp3c10_16880' => 'ppa', 'Pp3c16_6230' => 'ppa', 'Pp3c17_18910' => 'ppa', 'Pp3c3_22119' => 'ppa', 'Pp3c3_22140' => 'ppa', 'Pp3c4_8159' => 'ppa', 'Pp3c4_8171' => 'ppa', 'Pp3c4_8330' => 'ppa', 'PRCOL_00004098' => 'pco', 'Prupe.1G013900' => 'ppe', 'Prupe.1G226300' => 'ppe', 'Prupe.1G573600' => 'ppe', 'Prupe.6G130100' => 'ppe', 'Psat3g090040' => 'psa', 'Psat4g210440' => 'psa', 'Psat6g231040' => 'psa', 'Psat6g231080' => 'psa', 'Psat7g063000' => 'psa', 'Psat7g188000' => 'psa', 'Psat7g188040' => 'psa', 'PSO017G0206' => 'pso', 'PSO170G0501' => 'pso', 'PSO170G6422' => 'pso', 'PSO210G7739' => 'pso', 'PSO339G1808' => 'pso', 'PSO339G6135' => 'pso', 'PSO384G0010' => 'pso', 'PSO384G0964' => 'pso', 'PSO761G0050' => 'pso', 'PSO782G4085' => 'pso', 'QL01p012264' => 'qlo', 'QL02p099491' => 'qlo', 'QL03p033868' => 'qlo', 'QL04p046678' => 'qlo', 'QL06p002448' => 'qlo', 'RcHm_v2.0_Chr4g0416181' => 'rch', 'RcHm_v2.0_Chr5g0044701' => 'rch', 'RcHm_v2.0_Chr6g0265781' => 'rch', 'RcHm_v2.0_Chr7g0221031' => 'rch', 'Rhsim04G0202000' => 'rsi', 'Rhsim11G0127300' => 'rsi', 'Rhsim13G0111800' => 'rsi', 'Sabra01G0165600' => 'sbr', 'Sabra03G0008300' => 'sbr', 'Sabra04G0136900' => 'sbr', 'Sabra08G0013400' => 'sbr', 'Sabra08G0116800' => 'sbr', 'Sabra09G0128000' => 'sbr', 'Sabra10G0055500' => 'sbr', 'Sabra10G0073300' => 'sbr', 'SalBow3G0385' => 'sbo', 'SalBow3G1119' => 'sbo', 'SalBow3G2005' => 'sbo', 'SalBow6G2563' => 'sbo', 'SalBow6G6386' => 'sbo', 'Sc06g0008800' => 'sci', 'Sc07g0004950' => 'sci', 'Sc09g0005340' => 'sci', 'Sc13g0004410' => 'sci', 'Sc21g0007090' => 'sci', 'Sed0009285' => 'sed', 'Sed0017583' => 'sed', 'Sed0019699' => 'sed', 'Sed0023107' => 'sed', 'SEGI_10916' => 'sgi', 'SEGI_16217' => 'sgi', 'SEGI_19466' => 'sgi', 'SEGI_41115' => 'sgi', 'SGA_v2.0_scaffold111G31534' => 'sas', 'SGA_v2.0_scaffold22G09864' => 'sas', 'SGA_v2.0_scaffold338G49219' => 'sas', 'SGA_v2.0_scaffold92G28298' => 'sas', 'SMO119G0064' => 'smo', 'SMO223G0038' => 'smo', 'SMO347G0584' => 'smo', 'SMO351G0010' => 'smo', 'SMO356G0404' => 'smo', 'Solyc01g103920.3' => 'sly', 'Solyc04g009710.2' => 'sly', 'Solyc05g055280.2' => 'sly', 'Solyc10g044520.3' => 'sly', 'Solyc10g075160.1' => 'sly', 'Solyc11g006910.3' => 'sly', 'Solyc11g068430.3' => 'sly', 'Sopen01g046310' => 'spe', 'Sopen03g001200' => 'spe', 'Sopen04g004830' => 'spe', 'Sopen05g033720' => 'spe', 'Sopen06g030740' => 'spe', 'Sopen10g013090' => 'spe', 'Sopen10g027630' => 'spe', 'Sopen10g027640' => 'spe', 'Sopen11g002820' => 'spe', 'Sopen11g027140' => 'spe', 'Sp1g09680' => 'spa', 'Sp2g03630' => 'spa', 'Sp4g10320' => 'spa', 'Sp6g33400' => 'spa', 'Sp7g13030' => 'spa', 'TAR365G0317' => 'tar', 'TAR376G0979' => 'tar', 'TAR623G1665' => 'tar', 'TAR633G2373' => 'tar', 'TAR636G1400' => 'tar', 'THA.LOC104800529' => 'tha', 'THA.LOC104808547' => 'tha', 'THA.LOC104809615' => 'tha', 'THA.LOC104815724' => 'tha', 'THA.LOC104818480' => 'tha', 'THA.LOC104819179' => 'tha', 'THA.LOC104822270' => 'tha', 'THA.LOC104826425' => 'tha', 'Thecc.02G089700' => 'tca', 'Thecc.04G232300' => 'tca', 'Thecc.09G283400' => 'tca', 'Thhalv10009020m.g' => 'esa', 'Thhalv10015506m.g' => 'esa', 'Thhalv10017364m.g' => 'esa', 'Thhalv10023742m.g' => 'esa', 'Thhalv10026483m.g' => 'esa', 'TPR.G17232' => 'tpr', 'TPR.G2133' => 'tpr', 'TPR.G2498' => 'tpr', 'TPR.G31942' => 'tpr', 'TPR.G37877' => 'tpr', 'TPR.G4571' => 'tpr', 'TWI14G1113' => 'twi', 'TWI15G0426' => 'twi', 'TWI31G1005' => 'twi', 'TWI38G0513' => 'twi', 'TWI38G1484' => 'twi', 'TWI73G1098' => 'twi', 'unitig_26.g10519' => 'ugi', 'unitig_736.g22395' => 'ugi', 'unitig_747.g21234' => 'ugi', 'unitig_747.g21942' => 'ugi', 'vmacro14351' => 'vma', 'VMungo0540G0082' => 'vmu', 'VMungo0540G0405' => 'vmu', 'VMungo0540G1486' => 'vmu', 'VMungo0540G1692' => 'vmu', 'VMungo0720G2473' => 'vmu', 'VMungo1127G1562' => 'vmu', 'VMungo1215G1918' => 'vmu', 'Zm00001eb052650' => 'zma', 'Zm00001eb063710' => 'zma', 'Zm00001eb083950' => 'zma', 'Zm00001eb174420' => 'zma', 'Zm00001eb260140' => 'zma', 'Zm00001eb260150' => 'zma', 'Zm00001eb260160' => 'zma', 'Zm00001eb348290' => 'zma', 'Zm00001eb366870' => 'zma', 'Zm00001eb421930' => 'zma' ) $gf_id = 'HOM05D001025' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001025' ) $data_identifier = 'HOM05D001025' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 19, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 2, 'amhyb' => (int) 4, 'aly' => (int) 4, 'aox' => (int) 4, 'arhy' => (int) 3, 'ath' => (int) 5, 'atr' => (int) 4, 'acertr' => (int) 3, 'cqu' => (int) 7, 'bca' => (int) 17, 'bol' => (int) 10, 'bra' => (int) 9, 'can' => (int) 10, 'cansat' => (int) 6, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 5, 'cbr' => (int) 5, 'ccan' => (int) 5, 'cde' => (int) 4, 'cfa' => (int) 3, 'ccl' => (int) 6, 'cil' => (int) 4, 'cla' => (int) 3, 'col' => (int) 3, 'cpa' => (int) 3, 'cre' => (int) 7, 'csa' => (int) 5, 'camsi' => (int) 9, 'dca' => (int) 4, 'din' => (int) 5, 'dzi' => (int) 7, 'eca' => (int) 6, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 12, 'fve' => (int) 4, 'gma' => (int) 12, 'ghi' => (int) 17, 'gra' => (int) 9, 'vvi' => (int) 2, 'han' => (int) 8, 'cav' => (int) 5, 'hma' => (int) 9, 'vpl' => (int) 4, 'sun' => (int) 2, 'lal' => (int) 9, 'lja' => (int) 5, 'lonja' => (int) 6, 'lsa' => (int) 3, 'mes' => (int) 8, 'mpo' => (int) 3, 'mbi' => (int) 4, 'mco' => (int) 3, 'mdo' => (int) 5, 'mtr' => (int) 7, 'cme' => (int) 6, 'egut' => (int) 7, 'ama' => (int) 3, 'nta' => (int) 12, 'nnu' => (int) 9, 'oeu' => (int) 4, 'osa' => (int) 7, 'pax' => (int) 9, 'pgr' => (int) 5, 'stu' => (int) 8, 'pvu' => (int) 6, 'ptr' => (int) 9, 'ppa' => (int) 9, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 7, 'pso' => (int) 10, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 3, 'sbr' => (int) 8, 'sbo' => (int) 5, 'sci' => (int) 5, 'sed' => (int) 4, 'sgi' => (int) 4, 'sas' => (int) 4, 'smo' => (int) 5, 'sly' => (int) 7, 'spe' => (int) 10, 'spa' => (int) 5, 'tar' => (int) 5, 'tha' => (int) 8, 'tca' => (int) 3, 'esa' => (int) 5, 'tpr' => (int) 6, 'twi' => (int) 6, 'ugi' => (int) 4, 'vma' => (int) 1, 'vmu' => (int) 7, 'zma' => (int) 10 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb421930' $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' => 'HOM05D001025', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '592', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p22650' => 'bna', 'A01p29720' => 'bna', 'A03p26560' => 'bna', 'A03p68820' => 'bna', 'A04p20980' => 'bna', 'A06p07730' => 'bna', 'A07p18260' => 'bna', 'A08p33710' => 'bna', 'A09p16970' => 'bna', 'A10p27490' => 'bna', 'Aa31LG1G17300' => 'aar', 'Aa31LG1G3910' => 'aar', 'Aa31LG2G9630' => 'aar', 'Aa31LG5G8360' => 'aar', 'Aa31LG9G2410' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4699' => 'aag', 'Actinidia23512' => 'ach', 'Actinidia37080' => 'ach', 'Ah.01g020380' => 'amhyb', 'Ah.08g215710' => 'amhyb', 'Ah.09g225110' => 'amhyb', 'Ah.10g036680' => 'amhyb', 'AL1G21940' => 'aly', 'AL2G15540' => 'aly', 'AL4G21520' => 'aly', 'AL7G40960' => 'aly', 'Aqoxy2G01191' => 'aox', 'Aqoxy2G03393' => 'aox', 'Aqoxy4G02775' => 'aox', 'Aqoxy6G00058' => 'aox', 'arahy.Tifrunner.gnm1.ann1.9X74H2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CW3FX9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R485W7' => 'arhy', 'AT1G10960' => 'ath', 'AT1G60950' => 'ath', 'AT2G27510' => 'ath', 'AT4G14890' => 'ath', 'AT5G10000' => 'ath', 'ATR0665G624' => 'atr', 'ATR0697G138' => 'atr', 'ATR0776G046' => 'atr', 'ATR1134G135' => 'atr', 'Atru.chr12.1025' => 'acertr', 'Atru.chr3.3241' => 'acertr', 'Atru.chr4.2460' => 'acertr', 'AUR62007427' => 'cqu', 'AUR62010960' => 'cqu', 'AUR62012201' => 'cqu', 'AUR62021470' => 'cqu', 'AUR62022834' => 'cqu', 'AUR62033635' => 'cqu', 'AUR62036186' => 'cqu', 'BcaB01g03077' => 'bca', 'BcaB02g10093' => 'bca', 'BcaB04g20295' => 'bca', 'BcaB06g28147' => 'bca', 'BcaB07g31253' => 'bca', 'BcaC01g04946' => 'bca', 'BcaC02g10614' => 'bca', 'BcaC02g10885' => 'bca', 'BcaC04g19356' => 'bca', 'BcaC04g22297' => 'bca', 'BcaC05g24977' => 'bca', 'BcaC06g31823' => 'bca', 'BcaC07g38633' => 'bca', 'BcaC09g49353' => 'bca', 'BcaC09g50168' => 'bca', 'BcaNung00322' => 'bca', 'BcaNung04769' => 'bca', 'BolC1t02753H' => 'bol', 'BolC1t03721H' => 'bol', 'BolC3t15525H' => 'bol', 'BolC4t23903H' => 'bol', 'BolC4t24231H' => 'bol', 'BolC4t27209H' => 'bol', 'BolC5t29671H' => 'bol', 'BolC8t49044H' => 'bol', 'BolC9t54999H' => 'bol', 'BolC9t59517H' => 'bol', 'BraA01t02178Z' => 'bra', 'BraA01t03099Z' => 'bra', 'BraA03t11867Z' => 'bra', 'BraA04t17667Z' => 'bra', 'BraA07t29542Z' => 'bra', 'BraA08t35287Z' => 'bra', 'BraA09t37334Z' => 'bra', 'BraA10t44801Z' => 'bra', 'BraSC39t46181Z' => 'bra', 'C01p28240' => 'bna', 'C01p37530' => 'bna', 'C03p31820' => 'bna', 'C04p24080' => 'bna', 'C04p25790' => 'bna', 'C04p56770' => 'bna', 'C05p09310' => 'bna', 'C09p21010' => 'bna', 'C09p67560' => 'bna', 'CAN.G1324.7' => 'can', 'CAN.G1358.10' => 'can', 'CAN.G1550.2' => 'can', 'CAN.G186.56' => 'can', 'CAN.G1965.1' => 'can', 'CAN.G645.15' => 'can', 'CAN.G798.26' => 'can', 'CAN.G798.27' => 'can', 'CAN.G798.29' => 'can', 'CAN.G919.31' => 'can', 'CANSAT11G0133' => 'cansat', 'CANSAT11G1171' => 'cansat', 'CANSAT11G2056' => 'cansat', 'CANSAT56G1202' => 'cansat', 'CANSAT56G1514' => 'cansat', 'CANSAT78G0455' => 'cansat', 'CARHR011190' => 'chi', 'CARHR051980' => 'chi', 'CARHR120170' => 'chi', 'CARHR203310' => 'chi', 'CARHR221490' => 'chi', 'Carub.0001s1054' => 'cru', 'Carub.0002s0431' => 'cru', 'Carub.0004s0818' => 'cru', 'Carub.0006s0846' => 'cru', 'Carub.0007s2722' => 'cru', 'Ca_00058_v3' => 'car', 'Ca_17831_v3' => 'car', 'Ca_19408_v3' => 'car', 'Ca_24397_v3' => 'car', 'Ca_25664_v3' => 'car', 'CBR_g21818' => 'cbr', 'CBR_g31195' => 'cbr', 'CBR_g32282' => 'cbr', 'CBR_g39599' => 'cbr', 'CBR_g49410' => 'cbr', 'Cc01_g09120' => 'ccan', 'Cc01_g09130' => 'ccan', 'Cc02_g09630' => 'ccan', 'Cc02_g22810' => 'ccan', 'Cc03_g03810' => 'ccan', 'CDE02G3718' => 'cde', 'CDE04G3183' => 'cde', 'CDE07G1046' => 'cde', 'CDE08G0480' => 'cde', 'Cfa005493' => 'cfa', 'Cfa010312' => 'cfa', 'Cfa015648' => 'cfa', 'Ciclev10002793m.g' => 'ccl', 'Ciclev10003356m.g' => 'ccl', 'Ciclev10006141m.g' => 'ccl', 'Ciclev10016676m.g' => 'ccl', 'Ciclev10017081m.g' => 'ccl', 'Ciclev10029499m.g' => 'ccl', 'CiPaw.01G166300' => 'cil', 'CiPaw.06G145600' => 'cil', 'CiPaw.13G040100' => 'cil', 'CiPaw.13G135800' => 'cil', 'ClCG01G012230' => 'cla', 'ClCG05G009510' => 'cla', 'ClCG08G008270' => 'cla', 'COL.COLO4_11763' => 'col', 'COL.COLO4_19876' => 'col', 'COL.COLO4_21481' => 'col', 'Cpa.g.sc118.34' => 'cpa', 'Cpa.g.sc32.13' => 'cpa', 'Cpa.g.sc58.103' => 'cpa', 'Cre03.g183850' => 'cre', 'Cre06.g306350' => 'cre', 'Cre07.g334800' => 'cre', 'Cre12.g487900' => 'cre', 'Cre14.g626700' => 'cre', 'Cre16.g658400' => 'cre', 'Cre17.g700950' => 'cre', 'CsaV3_1G014830' => 'csa', 'CsaV3_3G013320' => 'csa', 'CsaV3_3G019210' => 'csa', 'CsaV3_3G019220' => 'csa', 'CsaV3_6G004230' => 'csa', 'CSS0003773' => 'camsi', 'CSS0004563' => 'camsi', 'CSS0013949' => 'camsi', 'CSS0025971' => 'camsi', 'CSS0028570' => 'camsi', 'CSS0033127' => 'camsi', 'CSS0036051' => 'camsi', 'CSS0040087' => 'camsi', 'CSS0043179' => 'camsi', 'DCAR_006161' => 'dca', 'DCAR_010351' => 'dca', 'DCAR_012197' => 'dca', 'DCAR_024162' => 'dca', 'Dinv01030' => 'din', 'Dinv10924' => 'din', 'Dinv11835' => 'din', 'Dinv22841' => 'din', 'Dinv42553' => 'din', 'Duzib052G0560' => 'dzi', 'Duzib132G0389' => 'dzi', 'Duzib150G1181' => 'dzi', 'Duzib168G0623' => 'dzi', 'Duzib170G1036' => 'dzi', 'Duzib212G0200' => 'dzi', 'Duzib248G0194' => 'dzi', 'ECA232G2193' => 'eca', 'ECA233G0302' => 'eca', 'ECA234G2813' => 'eca', 'ECA234G4866' => 'eca', 'ECA240G3932' => 'eca', 'ECA248G0385' => 'eca', 'EL10Ac2g04781' => 'bvu', 'EL10Ac3g06445' => 'bvu', 'EL10Ac7g15825' => 'bvu', 'EL10Ac8g18550' => 'bvu', 'Eucgr.B03849' => 'egr', 'Eucgr.I02744' => 'egr', 'Eucgr.J00264' => 'egr', 'Eucgr.J00493' => 'egr', 'FAN04G2181' => 'fan', 'FAN07G2666' => 'fan', 'FAN11G0024' => 'fan', 'FAN12G1105' => 'fan', 'FAN13G0302' => 'fan', 'FAN15G2781' => 'fan', 'FAN16G1274' => 'fan', 'FAN17G2988' => 'fan', 'FAN18G2621' => 'fan', 'FAN21G0013' => 'fan', 'FAN22G1211' => 'fan', 'FAN25G3626' => 'fan', 'FvH4_2g09491' => 'fve', 'FvH4_3g24910' => 'fve', 'FvH4_4g15630' => 'fve', 'FvH4_5g28820' => 'fve', 'Glyma.01G238000' => 'gma', 'Glyma.05G168400' => 'gma', 'Glyma.08G126800' => 'gma', 'Glyma.08G188500' => 'gma', 'Glyma.10G278900' => 'gma', 'Glyma.11G005700' => 'gma', 'Glyma.11G183300' => 'gma', 'Glyma.12G089200' => 'gma', 'Glyma.12G169400' => 'gma', 'Glyma.12G169500' => 'gma', 'Glyma.12G169600' => 'gma', 'Glyma.20G110800' => 'gma', 'Gohir.A03G192900' => 'ghi', 'Gohir.A03G193000' => 'ghi', 'Gohir.A05G080700' => 'ghi', 'Gohir.A09G216000' => 'ghi', 'Gohir.A12G027700' => 'ghi', 'Gohir.A13G036200' => 'ghi', 'Gohir.A13G222600' => 'ghi', 'Gohir.D02G213900' => 'ghi', 'Gohir.D02G214000' => 'ghi', 'Gohir.D05G083700' => 'ghi', 'Gohir.D05G083800' => 'ghi', 'Gohir.D05G083850' => 'ghi', 'Gohir.D08G015400' => 'ghi', 'Gohir.D09G218400' => 'ghi', 'Gohir.D12G027100' => 'ghi', 'Gohir.D13G034500' => 'ghi', 'Gohir.D13G227400' => 'ghi', 'Gorai.005G241800' => 'gra', 'Gorai.005G241900' => 'gra', 'Gorai.006G239400' => 'gra', 'Gorai.008G027600' => 'gra', 'Gorai.009G085400' => 'gra', 'Gorai.009G085500' => 'gra', 'Gorai.013G039000' => 'gra', 'Gorai.013G194800' => 'gra', 'Gorai.013G257900' => 'gra', 'GSVIVG01000982001' => 'vvi', 'GSVIVG01017981001' => 'vvi', 'HanXRQChr01g0024061' => 'han', 'HanXRQChr09g0247831' => 'han', 'HanXRQChr10g0294611' => 'han', 'HanXRQChr10g0294621' => 'han', 'HanXRQChr11g0346821' => 'han', 'HanXRQChr13g0397461' => 'han', 'HanXRQChr16g0513651' => 'han', 'HanXRQChr16g0513701' => 'han', 'Haze_00897' => 'cav', 'Haze_01745' => 'cav', 'Haze_02486' => 'cav', 'Haze_02487' => 'cav', 'Haze_23374' => 'cav', 'Hma1.2p1_0578F.1_g182520' => 'hma', 'Hma1.2p1_0602F.1_g187350' => 'hma', 'Hma1.2p1_0602F.1_g187360' => 'hma', 'Hma1.2p1_0874F.1_g231320' => 'hma', 'Hma1.2p1_1197F.1_g266210' => 'hma', 'Hma1.2p1_1197F.1_g266220' => 'hma', 'Hma1.2p1_2167F.1_g315895' => 'hma', 'Hma1.2p1_2190F.1_g316640' => 'hma', 'Hma1.2p1_3645F.1_g337153' => 'hma', 'HPP92_004907' => 'vpl', 'HPP92_012134' => 'vpl', 'HPP92_025136' => 'vpl', 'HPP92_026087' => 'vpl', 'Hund06782' => 'sun', 'Hund06784' => 'sun', 'Lalb_Chr01g0004861' => 'lal', 'Lalb_Chr02g0140591' => 'lal', 'Lalb_Chr02g0140611' => 'lal', 'Lalb_Chr03g0028101' => 'lal', 'Lalb_Chr07g0185791' => 'lal', 'Lalb_Chr12g0204491' => 'lal', 'Lalb_Chr13g0295671' => 'lal', 'Lalb_Chr19g0136461' => 'lal', 'Lalb_Chr21g0309191' => 'lal', 'Lj1g0028158' => 'lja', 'Lj1P236T38' => 'lonja', 'Lj2C32G2' => 'lonja', 'Lj2P944T8' => 'lonja', 'Lj2P963T15' => 'lonja', 'Lj3g0011788' => 'lja', 'Lj4g0025027' => 'lja', 'Lj5P255T36' => 'lonja', 'Lj6g0018866' => 'lja', 'Lj6P608T31' => 'lonja', 'LjContig00408g0008879' => 'lja', 'Lsat_1_v5_gn_5_105820' => 'lsa', 'Lsat_1_v5_gn_6_38800' => 'lsa', 'Lsat_1_v5_gn_7_67141' => 'lsa', 'Manes.04G003400' => 'mes', 'Manes.07G020000' => 'mes', 'Manes.07G020100' => 'mes', 'Manes.07G020150' => 'mes', 'Manes.10G061500' => 'mes', 'Manes.10G123200' => 'mes', 'Manes.11G161900' => 'mes', 'Manes.15G029300' => 'mes', 'Mapoly0071s0018' => 'mpo', 'Mapoly0082s0023' => 'mpo', 'Mapoly3477s0001' => 'mpo', 'MBI05_g31233_MAGBIO' => 'mbi', 'MBI09_g05946_MAGBIO' => 'mbi', 'MBI09_g05947_MAGBIO' => 'mbi', 'MBI17_g08346_MAGBIO' => 'mbi', 'MCO04G038' => 'mco', 'MCO09G370' => 'mco', 'MCO13G605' => 'mco', 'MD00G1075500' => 'mdo', 'MD03G1144300' => 'mdo', 'MD08G1236800' => 'mdo', 'MD13G1193300' => 'mdo', 'MD15G1428700' => 'mdo', 'Medtr1g112030' => 'mtr', 'Medtr1g112050' => 'mtr', 'Medtr2g006290' => 'mtr', 'Medtr2g086510' => 'mtr', 'Medtr4g053120' => 'mtr', 'Medtr5g006320' => 'mtr', 'Medtr8g088720' => 'mtr', 'MELO3C004712.2' => 'cme', 'MELO3C006533.2' => 'cme', 'MELO3C019438.2' => 'cme', 'MELO3C019440.2' => 'cme', 'MELO3C019441.2' => 'cme', 'MELO3C019895.2' => 'cme', 'Migut.B00811' => 'egut', 'Migut.D02447' => 'egut', 'Migut.F00875' => 'egut', 'Migut.N00186' => 'egut', 'Migut.N01051' => 'egut', 'Migut.N02491' => 'egut', 'Migut.O00784' => 'egut', 'MSTRG.12367' => 'ama', 'MSTRG.18756' => 'ama', 'MSTRG.21042' => 'ama', 'Nitab4.5_0000559g0040' => 'nta', 'Nitab4.5_0000667g0190' => 'nta', 'Nitab4.5_0000755g0160' => 'nta', 'Nitab4.5_0001216g0080' => 'nta', 'Nitab4.5_0004069g0040' => 'nta', 'Nitab4.5_0004129g0010' => 'nta', 'Nitab4.5_0005744g0030' => 'nta', 'Nitab4.5_0006996g0030' => 'nta', 'Nitab4.5_0008971g0040' => 'nta', 'Nitab4.5_0009769g0020' => 'nta', 'Nitab4.5_0009833g0010' => 'nta', 'Nitab4.5_0013140g0020' => 'nta', 'Nn003s41376' => 'nnu', 'Nn1g01857' => 'nnu', 'Nn1g03611' => 'nnu', 'Nn1g06853' => 'nnu', 'Nn3g18360' => 'nnu', 'Nn4g26328' => 'nnu', 'Nn5g27531' => 'nnu', 'Nn6g34899' => 'nnu', 'Nn7g36299' => 'nnu', 'Oeu021485.1' => 'oeu', 'Oeu022433.1' => 'oeu', 'Oeu032111.1' => 'oeu', 'Oeu051608.1' => 'oeu', 'Os01g0860601' => 'osa', 'Os03g0659200' => 'osa', 'Os03g0835900' => 'osa', 'Os04g0412200' => 'osa', 'Os05g0443500' => 'osa', 'Os07g0251500' => 'osa', 'Os08g0104600' => 'osa', 'Peaxi162Scf00003g00047' => 'pax', 'Peaxi162Scf00003g00052' => 'pax', 'Peaxi162Scf00003g00394' => 'pax', 'Peaxi162Scf00091g00621' => 'pax', 'Peaxi162Scf00152g00146' => 'pax', 'Peaxi162Scf00173g00025' => 'pax', 'Peaxi162Scf00195g00102' => 'pax', 'Peaxi162Scf00402g00013' => 'pax', 'Peaxi162Scf00519g00618' => 'pax', 'PGR004G2838' => 'pgr', 'PGR044G2275' => 'pgr', 'PGR102G1377' => 'pgr', 'PGR119G1245' => 'pgr', 'PGR142G4449' => 'pgr', 'PGSC0003DMG400004532' => 'stu', 'PGSC0003DMG400011950' => 'stu', 'PGSC0003DMG400023391' => 'stu', 'PGSC0003DMG400023985' => 'stu', 'PGSC0003DMG400026360' => 'stu', 'PGSC0003DMG400035711' => 'stu', 'PGSC0003DMG400037286' => 'stu', 'PGSC0003DMG402005881' => 'stu', 'Phvul.002G045400' => 'pvu', 'Phvul.006G216600' => 'pvu', 'Phvul.006G216700' => 'pvu', 'Phvul.006G216800' => 'pvu', 'Phvul.007G022500' => 'pvu', 'Phvul.011G094400' => 'pvu', 'Potri.001G470700' => 'ptr', 'Potri.003G015200' => 'ptr', 'Potri.004G202500' => 'ptr', 'Potri.004G218400' => 'ptr', 'Potri.008G020100' => 'ptr', 'Potri.008G153200' => 'ptr', 'Potri.009G163800' => 'ptr', 'Potri.010G087300' => 'ptr', 'Potri.010G239100' => 'ptr', 'Pp3c10_16100' => 'ppa', 'Pp3c10_16880' => 'ppa', 'Pp3c16_6230' => 'ppa', 'Pp3c17_18910' => 'ppa', 'Pp3c3_22119' => 'ppa', 'Pp3c3_22140' => 'ppa', 'Pp3c4_8159' => 'ppa', 'Pp3c4_8171' => 'ppa', 'Pp3c4_8330' => 'ppa', 'PRCOL_00004098' => 'pco', 'Prupe.1G013900' => 'ppe', 'Prupe.1G226300' => 'ppe', 'Prupe.1G573600' => 'ppe', 'Prupe.6G130100' => 'ppe', 'Psat3g090040' => 'psa', 'Psat4g210440' => 'psa', 'Psat6g231040' => 'psa', 'Psat6g231080' => 'psa', 'Psat7g063000' => 'psa', 'Psat7g188000' => 'psa', 'Psat7g188040' => 'psa', 'PSO017G0206' => 'pso', 'PSO170G0501' => 'pso', 'PSO170G6422' => 'pso', 'PSO210G7739' => 'pso', 'PSO339G1808' => 'pso', 'PSO339G6135' => 'pso', 'PSO384G0010' => 'pso', 'PSO384G0964' => 'pso', 'PSO761G0050' => 'pso', 'PSO782G4085' => 'pso', 'QL01p012264' => 'qlo', 'QL02p099491' => 'qlo', 'QL03p033868' => 'qlo', 'QL04p046678' => 'qlo', 'QL06p002448' => 'qlo', 'RcHm_v2.0_Chr4g0416181' => 'rch', 'RcHm_v2.0_Chr5g0044701' => 'rch', 'RcHm_v2.0_Chr6g0265781' => 'rch', 'RcHm_v2.0_Chr7g0221031' => 'rch', 'Rhsim04G0202000' => 'rsi', 'Rhsim11G0127300' => 'rsi', 'Rhsim13G0111800' => 'rsi', 'Sabra01G0165600' => 'sbr', 'Sabra03G0008300' => 'sbr', 'Sabra04G0136900' => 'sbr', 'Sabra08G0013400' => 'sbr', 'Sabra08G0116800' => 'sbr', 'Sabra09G0128000' => 'sbr', 'Sabra10G0055500' => 'sbr', 'Sabra10G0073300' => 'sbr', 'SalBow3G0385' => 'sbo', 'SalBow3G1119' => 'sbo', 'SalBow3G2005' => 'sbo', 'SalBow6G2563' => 'sbo', 'SalBow6G6386' => 'sbo', 'Sc06g0008800' => 'sci', 'Sc07g0004950' => 'sci', 'Sc09g0005340' => 'sci', 'Sc13g0004410' => 'sci', 'Sc21g0007090' => 'sci', 'Sed0009285' => 'sed', 'Sed0017583' => 'sed', 'Sed0019699' => 'sed', 'Sed0023107' => 'sed', 'SEGI_10916' => 'sgi', 'SEGI_16217' => 'sgi', 'SEGI_19466' => 'sgi', 'SEGI_41115' => 'sgi', 'SGA_v2.0_scaffold111G31534' => 'sas', 'SGA_v2.0_scaffold22G09864' => 'sas', 'SGA_v2.0_scaffold338G49219' => 'sas', 'SGA_v2.0_scaffold92G28298' => 'sas', 'SMO119G0064' => 'smo', 'SMO223G0038' => 'smo', 'SMO347G0584' => 'smo', 'SMO351G0010' => 'smo', 'SMO356G0404' => 'smo', 'Solyc01g103920.3' => 'sly', 'Solyc04g009710.2' => 'sly', 'Solyc05g055280.2' => 'sly', 'Solyc10g044520.3' => 'sly', 'Solyc10g075160.1' => 'sly', 'Solyc11g006910.3' => 'sly', 'Solyc11g068430.3' => 'sly', 'Sopen01g046310' => 'spe', 'Sopen03g001200' => 'spe', 'Sopen04g004830' => 'spe', 'Sopen05g033720' => 'spe', 'Sopen06g030740' => 'spe', 'Sopen10g013090' => 'spe', 'Sopen10g027630' => 'spe', 'Sopen10g027640' => 'spe', 'Sopen11g002820' => 'spe', 'Sopen11g027140' => 'spe', 'Sp1g09680' => 'spa', 'Sp2g03630' => 'spa', 'Sp4g10320' => 'spa', 'Sp6g33400' => 'spa', 'Sp7g13030' => 'spa', 'TAR365G0317' => 'tar', 'TAR376G0979' => 'tar', 'TAR623G1665' => 'tar', 'TAR633G2373' => 'tar', 'TAR636G1400' => 'tar', 'THA.LOC104800529' => 'tha', 'THA.LOC104808547' => 'tha', 'THA.LOC104809615' => 'tha', 'THA.LOC104815724' => 'tha', 'THA.LOC104818480' => 'tha', 'THA.LOC104819179' => 'tha', 'THA.LOC104822270' => 'tha', 'THA.LOC104826425' => 'tha', 'Thecc.02G089700' => 'tca', 'Thecc.04G232300' => 'tca', 'Thecc.09G283400' => 'tca', 'Thhalv10009020m.g' => 'esa', 'Thhalv10015506m.g' => 'esa', 'Thhalv10017364m.g' => 'esa', 'Thhalv10023742m.g' => 'esa', 'Thhalv10026483m.g' => 'esa', 'TPR.G17232' => 'tpr', 'TPR.G2133' => 'tpr', 'TPR.G2498' => 'tpr', 'TPR.G31942' => 'tpr', 'TPR.G37877' => 'tpr', 'TPR.G4571' => 'tpr', 'TWI14G1113' => 'twi', 'TWI15G0426' => 'twi', 'TWI31G1005' => 'twi', 'TWI38G0513' => 'twi', 'TWI38G1484' => 'twi', 'TWI73G1098' => 'twi', 'unitig_26.g10519' => 'ugi', 'unitig_736.g22395' => 'ugi', 'unitig_747.g21234' => 'ugi', 'unitig_747.g21942' => 'ugi', 'vmacro14351' => 'vma', 'VMungo0540G0082' => 'vmu', 'VMungo0540G0405' => 'vmu', 'VMungo0540G1486' => 'vmu', 'VMungo0540G1692' => 'vmu', 'VMungo0720G2473' => 'vmu', 'VMungo1127G1562' => 'vmu', 'VMungo1215G1918' => 'vmu', 'Zm00001eb052650' => 'zma', 'Zm00001eb063710' => 'zma', 'Zm00001eb083950' => 'zma', 'Zm00001eb174420' => 'zma', 'Zm00001eb260140' => 'zma', 'Zm00001eb260150' => 'zma', 'Zm00001eb260160' => 'zma', 'Zm00001eb348290' => 'zma', 'Zm00001eb366870' => 'zma', 'Zm00001eb421930' => 'zma' ), 'gf_id' => 'HOM05D001025', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001025' ), 'data_identifier' => 'HOM05D001025', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001025', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '592', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p22650' => 'bna', 'A01p29720' => 'bna', 'A03p26560' => 'bna', 'A03p68820' => 'bna', 'A04p20980' => 'bna', 'A06p07730' => 'bna', 'A07p18260' => 'bna', 'A08p33710' => 'bna', 'A09p16970' => 'bna', 'A10p27490' => 'bna', 'Aa31LG1G17300' => 'aar', 'Aa31LG1G3910' => 'aar', 'Aa31LG2G9630' => 'aar', 'Aa31LG5G8360' => 'aar', 'Aa31LG9G2410' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4699' => 'aag', 'Actinidia23512' => 'ach', 'Actinidia37080' => 'ach', 'Ah.01g020380' => 'amhyb', 'Ah.08g215710' => 'amhyb', 'Ah.09g225110' => 'amhyb', 'Ah.10g036680' => 'amhyb', 'AL1G21940' => 'aly', 'AL2G15540' => 'aly', 'AL4G21520' => 'aly', 'AL7G40960' => 'aly', 'Aqoxy2G01191' => 'aox', 'Aqoxy2G03393' => 'aox', 'Aqoxy4G02775' => 'aox', 'Aqoxy6G00058' => 'aox', 'arahy.Tifrunner.gnm1.ann1.9X74H2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CW3FX9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R485W7' => 'arhy', 'AT1G10960' => 'ath', 'AT1G60950' => 'ath', 'AT2G27510' => 'ath', 'AT4G14890' => 'ath', 'AT5G10000' => 'ath', 'ATR0665G624' => 'atr', 'ATR0697G138' => 'atr', 'ATR0776G046' => 'atr', 'ATR1134G135' => 'atr', 'Atru.chr12.1025' => 'acertr', 'Atru.chr3.3241' => 'acertr', 'Atru.chr4.2460' => 'acertr', 'AUR62007427' => 'cqu', 'AUR62010960' => 'cqu', 'AUR62012201' => 'cqu', 'AUR62021470' => 'cqu', 'AUR62022834' => 'cqu', 'AUR62033635' => 'cqu', 'AUR62036186' => 'cqu', 'BcaB01g03077' => 'bca', 'BcaB02g10093' => 'bca', 'BcaB04g20295' => 'bca', 'BcaB06g28147' => 'bca', 'BcaB07g31253' => 'bca', 'BcaC01g04946' => 'bca', 'BcaC02g10614' => 'bca', 'BcaC02g10885' => 'bca', 'BcaC04g19356' => 'bca', 'BcaC04g22297' => 'bca', 'BcaC05g24977' => 'bca', 'BcaC06g31823' => 'bca', 'BcaC07g38633' => 'bca', 'BcaC09g49353' => 'bca', 'BcaC09g50168' => 'bca', 'BcaNung00322' => 'bca', 'BcaNung04769' => 'bca', 'BolC1t02753H' => 'bol', 'BolC1t03721H' => 'bol', 'BolC3t15525H' => 'bol', 'BolC4t23903H' => 'bol', 'BolC4t24231H' => 'bol', 'BolC4t27209H' => 'bol', 'BolC5t29671H' => 'bol', 'BolC8t49044H' => 'bol', 'BolC9t54999H' => 'bol', 'BolC9t59517H' => 'bol', 'BraA01t02178Z' => 'bra', 'BraA01t03099Z' => 'bra', 'BraA03t11867Z' => 'bra', 'BraA04t17667Z' => 'bra', 'BraA07t29542Z' => 'bra', 'BraA08t35287Z' => 'bra', 'BraA09t37334Z' => 'bra', 'BraA10t44801Z' => 'bra', 'BraSC39t46181Z' => 'bra', 'C01p28240' => 'bna', 'C01p37530' => 'bna', 'C03p31820' => 'bna', 'C04p24080' => 'bna', 'C04p25790' => 'bna', 'C04p56770' => 'bna', 'C05p09310' => 'bna', 'C09p21010' => 'bna', 'C09p67560' => 'bna', 'CAN.G1324.7' => 'can', 'CAN.G1358.10' => 'can', 'CAN.G1550.2' => 'can', 'CAN.G186.56' => 'can', 'CAN.G1965.1' => 'can', 'CAN.G645.15' => 'can', 'CAN.G798.26' => 'can', 'CAN.G798.27' => 'can', 'CAN.G798.29' => 'can', 'CAN.G919.31' => 'can', 'CANSAT11G0133' => 'cansat', 'CANSAT11G1171' => 'cansat', 'CANSAT11G2056' => 'cansat', 'CANSAT56G1202' => 'cansat', 'CANSAT56G1514' => 'cansat', 'CANSAT78G0455' => 'cansat', 'CARHR011190' => 'chi', 'CARHR051980' => 'chi', 'CARHR120170' => 'chi', 'CARHR203310' => 'chi', 'CARHR221490' => 'chi', 'Carub.0001s1054' => 'cru', 'Carub.0002s0431' => 'cru', 'Carub.0004s0818' => 'cru', 'Carub.0006s0846' => 'cru', 'Carub.0007s2722' => 'cru', 'Ca_00058_v3' => 'car', 'Ca_17831_v3' => 'car', 'Ca_19408_v3' => 'car', 'Ca_24397_v3' => 'car', 'Ca_25664_v3' => 'car', 'CBR_g21818' => 'cbr', 'CBR_g31195' => 'cbr', 'CBR_g32282' => 'cbr', 'CBR_g39599' => 'cbr', 'CBR_g49410' => 'cbr', 'Cc01_g09120' => 'ccan', 'Cc01_g09130' => 'ccan', 'Cc02_g09630' => 'ccan', 'Cc02_g22810' => 'ccan', 'Cc03_g03810' => 'ccan', 'CDE02G3718' => 'cde', 'CDE04G3183' => 'cde', 'CDE07G1046' => 'cde', 'CDE08G0480' => 'cde', 'Cfa005493' => 'cfa', 'Cfa010312' => 'cfa', 'Cfa015648' => 'cfa', 'Ciclev10002793m.g' => 'ccl', 'Ciclev10003356m.g' => 'ccl', 'Ciclev10006141m.g' => 'ccl', 'Ciclev10016676m.g' => 'ccl', 'Ciclev10017081m.g' => 'ccl', 'Ciclev10029499m.g' => 'ccl', 'CiPaw.01G166300' => 'cil', 'CiPaw.06G145600' => 'cil', 'CiPaw.13G040100' => 'cil', 'CiPaw.13G135800' => 'cil', 'ClCG01G012230' => 'cla', 'ClCG05G009510' => 'cla', 'ClCG08G008270' => 'cla', 'COL.COLO4_11763' => 'col', 'COL.COLO4_19876' => 'col', 'COL.COLO4_21481' => 'col', 'Cpa.g.sc118.34' => 'cpa', 'Cpa.g.sc32.13' => 'cpa', 'Cpa.g.sc58.103' => 'cpa', 'Cre03.g183850' => 'cre', 'Cre06.g306350' => 'cre', 'Cre07.g334800' => 'cre', 'Cre12.g487900' => 'cre', 'Cre14.g626700' => 'cre', 'Cre16.g658400' => 'cre', 'Cre17.g700950' => 'cre', 'CsaV3_1G014830' => 'csa', 'CsaV3_3G013320' => 'csa', 'CsaV3_3G019210' => 'csa', 'CsaV3_3G019220' => 'csa', 'CsaV3_6G004230' => 'csa', 'CSS0003773' => 'camsi', 'CSS0004563' => 'camsi', 'CSS0013949' => 'camsi', 'CSS0025971' => 'camsi', 'CSS0028570' => 'camsi', 'CSS0033127' => 'camsi', 'CSS0036051' => 'camsi', 'CSS0040087' => 'camsi', 'CSS0043179' => 'camsi', 'DCAR_006161' => 'dca', 'DCAR_010351' => 'dca', 'DCAR_012197' => 'dca', 'DCAR_024162' => 'dca', 'Dinv01030' => 'din', 'Dinv10924' => 'din', 'Dinv11835' => 'din', 'Dinv22841' => 'din', 'Dinv42553' => 'din', 'Duzib052G0560' => 'dzi', 'Duzib132G0389' => 'dzi', 'Duzib150G1181' => 'dzi', 'Duzib168G0623' => 'dzi', 'Duzib170G1036' => 'dzi', 'Duzib212G0200' => 'dzi', 'Duzib248G0194' => 'dzi', 'ECA232G2193' => 'eca', 'ECA233G0302' => 'eca', 'ECA234G2813' => 'eca', 'ECA234G4866' => 'eca', 'ECA240G3932' => 'eca', 'ECA248G0385' => 'eca', 'EL10Ac2g04781' => 'bvu', 'EL10Ac3g06445' => 'bvu', 'EL10Ac7g15825' => 'bvu', 'EL10Ac8g18550' => 'bvu', 'Eucgr.B03849' => 'egr', 'Eucgr.I02744' => 'egr', 'Eucgr.J00264' => 'egr', 'Eucgr.J00493' => 'egr', 'FAN04G2181' => 'fan', 'FAN07G2666' => 'fan', 'FAN11G0024' => 'fan', 'FAN12G1105' => 'fan', 'FAN13G0302' => 'fan', 'FAN15G2781' => 'fan', 'FAN16G1274' => 'fan', 'FAN17G2988' => 'fan', 'FAN18G2621' => 'fan', 'FAN21G0013' => 'fan', 'FAN22G1211' => 'fan', 'FAN25G3626' => 'fan', 'FvH4_2g09491' => 'fve', 'FvH4_3g24910' => 'fve', 'FvH4_4g15630' => 'fve', 'FvH4_5g28820' => 'fve', 'Glyma.01G238000' => 'gma', 'Glyma.05G168400' => 'gma', 'Glyma.08G126800' => 'gma', 'Glyma.08G188500' => 'gma', 'Glyma.10G278900' => 'gma', 'Glyma.11G005700' => 'gma', 'Glyma.11G183300' => 'gma', 'Glyma.12G089200' => 'gma', 'Glyma.12G169400' => 'gma', 'Glyma.12G169500' => 'gma', 'Glyma.12G169600' => 'gma', 'Glyma.20G110800' => 'gma', 'Gohir.A03G192900' => 'ghi', 'Gohir.A03G193000' => 'ghi', 'Gohir.A05G080700' => 'ghi', 'Gohir.A09G216000' => 'ghi', 'Gohir.A12G027700' => 'ghi', 'Gohir.A13G036200' => 'ghi', 'Gohir.A13G222600' => 'ghi', 'Gohir.D02G213900' => 'ghi', 'Gohir.D02G214000' => 'ghi', 'Gohir.D05G083700' => 'ghi', 'Gohir.D05G083800' => 'ghi', 'Gohir.D05G083850' => 'ghi', 'Gohir.D08G015400' => 'ghi', 'Gohir.D09G218400' => 'ghi', 'Gohir.D12G027100' => 'ghi', 'Gohir.D13G034500' => 'ghi', 'Gohir.D13G227400' => 'ghi', 'Gorai.005G241800' => 'gra', 'Gorai.005G241900' => 'gra', 'Gorai.006G239400' => 'gra', 'Gorai.008G027600' => 'gra', 'Gorai.009G085400' => 'gra', 'Gorai.009G085500' => 'gra', 'Gorai.013G039000' => 'gra', 'Gorai.013G194800' => 'gra', 'Gorai.013G257900' => 'gra', 'GSVIVG01000982001' => 'vvi', 'GSVIVG01017981001' => 'vvi', 'HanXRQChr01g0024061' => 'han', 'HanXRQChr09g0247831' => 'han', 'HanXRQChr10g0294611' => 'han', 'HanXRQChr10g0294621' => 'han', 'HanXRQChr11g0346821' => 'han', 'HanXRQChr13g0397461' => 'han', 'HanXRQChr16g0513651' => 'han', 'HanXRQChr16g0513701' => 'han', 'Haze_00897' => 'cav', 'Haze_01745' => 'cav', 'Haze_02486' => 'cav', 'Haze_02487' => 'cav', 'Haze_23374' => 'cav', 'Hma1.2p1_0578F.1_g182520' => 'hma', 'Hma1.2p1_0602F.1_g187350' => 'hma', 'Hma1.2p1_0602F.1_g187360' => 'hma', 'Hma1.2p1_0874F.1_g231320' => 'hma', 'Hma1.2p1_1197F.1_g266210' => 'hma', 'Hma1.2p1_1197F.1_g266220' => 'hma', 'Hma1.2p1_2167F.1_g315895' => 'hma', 'Hma1.2p1_2190F.1_g316640' => 'hma', 'Hma1.2p1_3645F.1_g337153' => 'hma', 'HPP92_004907' => 'vpl', 'HPP92_012134' => 'vpl', 'HPP92_025136' => 'vpl', 'HPP92_026087' => 'vpl', 'Hund06782' => 'sun', 'Hund06784' => 'sun', 'Lalb_Chr01g0004861' => 'lal', 'Lalb_Chr02g0140591' => 'lal', 'Lalb_Chr02g0140611' => 'lal', 'Lalb_Chr03g0028101' => 'lal', 'Lalb_Chr07g0185791' => 'lal', 'Lalb_Chr12g0204491' => 'lal', 'Lalb_Chr13g0295671' => 'lal', 'Lalb_Chr19g0136461' => 'lal', 'Lalb_Chr21g0309191' => 'lal', 'Lj1g0028158' => 'lja', 'Lj1P236T38' => 'lonja', 'Lj2C32G2' => 'lonja', 'Lj2P944T8' => 'lonja', 'Lj2P963T15' => 'lonja', 'Lj3g0011788' => 'lja', 'Lj4g0025027' => 'lja', 'Lj5P255T36' => 'lonja', 'Lj6g0018866' => 'lja', 'Lj6P608T31' => 'lonja', 'LjContig00408g0008879' => 'lja', 'Lsat_1_v5_gn_5_105820' => 'lsa', 'Lsat_1_v5_gn_6_38800' => 'lsa', 'Lsat_1_v5_gn_7_67141' => 'lsa', 'Manes.04G003400' => 'mes', 'Manes.07G020000' => 'mes', 'Manes.07G020100' => 'mes', 'Manes.07G020150' => 'mes', 'Manes.10G061500' => 'mes', 'Manes.10G123200' => 'mes', 'Manes.11G161900' => 'mes', 'Manes.15G029300' => 'mes', 'Mapoly0071s0018' => 'mpo', 'Mapoly0082s0023' => 'mpo', 'Mapoly3477s0001' => 'mpo', 'MBI05_g31233_MAGBIO' => 'mbi', 'MBI09_g05946_MAGBIO' => 'mbi', 'MBI09_g05947_MAGBIO' => 'mbi', 'MBI17_g08346_MAGBIO' => 'mbi', 'MCO04G038' => 'mco', 'MCO09G370' => 'mco', 'MCO13G605' => 'mco', 'MD00G1075500' => 'mdo', 'MD03G1144300' => 'mdo', 'MD08G1236800' => 'mdo', 'MD13G1193300' => 'mdo', 'MD15G1428700' => 'mdo', 'Medtr1g112030' => 'mtr', 'Medtr1g112050' => 'mtr', 'Medtr2g006290' => 'mtr', 'Medtr2g086510' => 'mtr', 'Medtr4g053120' => 'mtr', 'Medtr5g006320' => 'mtr', 'Medtr8g088720' => 'mtr', 'MELO3C004712.2' => 'cme', 'MELO3C006533.2' => 'cme', 'MELO3C019438.2' => 'cme', 'MELO3C019440.2' => 'cme', 'MELO3C019441.2' => 'cme', 'MELO3C019895.2' => 'cme', 'Migut.B00811' => 'egut', 'Migut.D02447' => 'egut', 'Migut.F00875' => 'egut', 'Migut.N00186' => 'egut', 'Migut.N01051' => 'egut', 'Migut.N02491' => 'egut', 'Migut.O00784' => 'egut', 'MSTRG.12367' => 'ama', 'MSTRG.18756' => 'ama', 'MSTRG.21042' => 'ama', 'Nitab4.5_0000559g0040' => 'nta', 'Nitab4.5_0000667g0190' => 'nta', 'Nitab4.5_0000755g0160' => 'nta', 'Nitab4.5_0001216g0080' => 'nta', 'Nitab4.5_0004069g0040' => 'nta', 'Nitab4.5_0004129g0010' => 'nta', 'Nitab4.5_0005744g0030' => 'nta', 'Nitab4.5_0006996g0030' => 'nta', 'Nitab4.5_0008971g0040' => 'nta', 'Nitab4.5_0009769g0020' => 'nta', 'Nitab4.5_0009833g0010' => 'nta', 'Nitab4.5_0013140g0020' => 'nta', 'Nn003s41376' => 'nnu', 'Nn1g01857' => 'nnu', 'Nn1g03611' => 'nnu', 'Nn1g06853' => 'nnu', 'Nn3g18360' => 'nnu', 'Nn4g26328' => 'nnu', 'Nn5g27531' => 'nnu', 'Nn6g34899' => 'nnu', 'Nn7g36299' => 'nnu', 'Oeu021485.1' => 'oeu', 'Oeu022433.1' => 'oeu', 'Oeu032111.1' => 'oeu', 'Oeu051608.1' => 'oeu', 'Os01g0860601' => 'osa', 'Os03g0659200' => 'osa', 'Os03g0835900' => 'osa', 'Os04g0412200' => 'osa', 'Os05g0443500' => 'osa', 'Os07g0251500' => 'osa', 'Os08g0104600' => 'osa', 'Peaxi162Scf00003g00047' => 'pax', 'Peaxi162Scf00003g00052' => 'pax', 'Peaxi162Scf00003g00394' => 'pax', 'Peaxi162Scf00091g00621' => 'pax', 'Peaxi162Scf00152g00146' => 'pax', 'Peaxi162Scf00173g00025' => 'pax', 'Peaxi162Scf00195g00102' => 'pax', 'Peaxi162Scf00402g00013' => 'pax', 'Peaxi162Scf00519g00618' => 'pax', 'PGR004G2838' => 'pgr', 'PGR044G2275' => 'pgr', 'PGR102G1377' => 'pgr', 'PGR119G1245' => 'pgr', 'PGR142G4449' => 'pgr', 'PGSC0003DMG400004532' => 'stu', 'PGSC0003DMG400011950' => 'stu', 'PGSC0003DMG400023391' => 'stu', 'PGSC0003DMG400023985' => 'stu', 'PGSC0003DMG400026360' => 'stu', 'PGSC0003DMG400035711' => 'stu', 'PGSC0003DMG400037286' => 'stu', 'PGSC0003DMG402005881' => 'stu', 'Phvul.002G045400' => 'pvu', 'Phvul.006G216600' => 'pvu', 'Phvul.006G216700' => 'pvu', 'Phvul.006G216800' => 'pvu', 'Phvul.007G022500' => 'pvu', 'Phvul.011G094400' => 'pvu', 'Potri.001G470700' => 'ptr', 'Potri.003G015200' => 'ptr', 'Potri.004G202500' => 'ptr', 'Potri.004G218400' => 'ptr', 'Potri.008G020100' => 'ptr', 'Potri.008G153200' => 'ptr', 'Potri.009G163800' => 'ptr', 'Potri.010G087300' => 'ptr', 'Potri.010G239100' => 'ptr', 'Pp3c10_16100' => 'ppa', 'Pp3c10_16880' => 'ppa', 'Pp3c16_6230' => 'ppa', 'Pp3c17_18910' => 'ppa', 'Pp3c3_22119' => 'ppa', 'Pp3c3_22140' => 'ppa', 'Pp3c4_8159' => 'ppa', 'Pp3c4_8171' => 'ppa', 'Pp3c4_8330' => 'ppa', 'PRCOL_00004098' => 'pco', 'Prupe.1G013900' => 'ppe', 'Prupe.1G226300' => 'ppe', 'Prupe.1G573600' => 'ppe', 'Prupe.6G130100' => 'ppe', 'Psat3g090040' => 'psa', 'Psat4g210440' => 'psa', 'Psat6g231040' => 'psa', 'Psat6g231080' => 'psa', 'Psat7g063000' => 'psa', 'Psat7g188000' => 'psa', 'Psat7g188040' => 'psa', 'PSO017G0206' => 'pso', 'PSO170G0501' => 'pso', 'PSO170G6422' => 'pso', 'PSO210G7739' => 'pso', 'PSO339G1808' => 'pso', 'PSO339G6135' => 'pso', 'PSO384G0010' => 'pso', 'PSO384G0964' => 'pso', 'PSO761G0050' => 'pso', 'PSO782G4085' => 'pso', 'QL01p012264' => 'qlo', 'QL02p099491' => 'qlo', 'QL03p033868' => 'qlo', 'QL04p046678' => 'qlo', 'QL06p002448' => 'qlo', 'RcHm_v2.0_Chr4g0416181' => 'rch', 'RcHm_v2.0_Chr5g0044701' => 'rch', 'RcHm_v2.0_Chr6g0265781' => 'rch', 'RcHm_v2.0_Chr7g0221031' => 'rch', 'Rhsim04G0202000' => 'rsi', 'Rhsim11G0127300' => 'rsi', 'Rhsim13G0111800' => 'rsi', 'Sabra01G0165600' => 'sbr', 'Sabra03G0008300' => 'sbr', 'Sabra04G0136900' => 'sbr', 'Sabra08G0013400' => 'sbr', 'Sabra08G0116800' => 'sbr', 'Sabra09G0128000' => 'sbr', 'Sabra10G0055500' => 'sbr', 'Sabra10G0073300' => 'sbr', 'SalBow3G0385' => 'sbo', 'SalBow3G1119' => 'sbo', 'SalBow3G2005' => 'sbo', 'SalBow6G2563' => 'sbo', 'SalBow6G6386' => 'sbo', 'Sc06g0008800' => 'sci', 'Sc07g0004950' => 'sci', 'Sc09g0005340' => 'sci', 'Sc13g0004410' => 'sci', 'Sc21g0007090' => 'sci', 'Sed0009285' => 'sed', 'Sed0017583' => 'sed', 'Sed0019699' => 'sed', 'Sed0023107' => 'sed', 'SEGI_10916' => 'sgi', 'SEGI_16217' => 'sgi', 'SEGI_19466' => 'sgi', 'SEGI_41115' => 'sgi', 'SGA_v2.0_scaffold111G31534' => 'sas', 'SGA_v2.0_scaffold22G09864' => 'sas', 'SGA_v2.0_scaffold338G49219' => 'sas', 'SGA_v2.0_scaffold92G28298' => 'sas', 'SMO119G0064' => 'smo', 'SMO223G0038' => 'smo', 'SMO347G0584' => 'smo', 'SMO351G0010' => 'smo', 'SMO356G0404' => 'smo', 'Solyc01g103920.3' => 'sly', 'Solyc04g009710.2' => 'sly', 'Solyc05g055280.2' => 'sly', 'Solyc10g044520.3' => 'sly', 'Solyc10g075160.1' => 'sly', 'Solyc11g006910.3' => 'sly', 'Solyc11g068430.3' => 'sly', 'Sopen01g046310' => 'spe', 'Sopen03g001200' => 'spe', 'Sopen04g004830' => 'spe', 'Sopen05g033720' => 'spe', 'Sopen06g030740' => 'spe', 'Sopen10g013090' => 'spe', 'Sopen10g027630' => 'spe', 'Sopen10g027640' => 'spe', 'Sopen11g002820' => 'spe', 'Sopen11g027140' => 'spe', 'Sp1g09680' => 'spa', 'Sp2g03630' => 'spa', 'Sp4g10320' => 'spa', 'Sp6g33400' => 'spa', 'Sp7g13030' => 'spa', 'TAR365G0317' => 'tar', 'TAR376G0979' => 'tar', 'TAR623G1665' => 'tar', 'TAR633G2373' => 'tar', 'TAR636G1400' => 'tar', 'THA.LOC104800529' => 'tha', 'THA.LOC104808547' => 'tha', 'THA.LOC104809615' => 'tha', 'THA.LOC104815724' => 'tha', 'THA.LOC104818480' => 'tha', 'THA.LOC104819179' => 'tha', 'THA.LOC104822270' => 'tha', 'THA.LOC104826425' => 'tha', 'Thecc.02G089700' => 'tca', 'Thecc.04G232300' => 'tca', 'Thecc.09G283400' => 'tca', 'Thhalv10009020m.g' => 'esa', 'Thhalv10015506m.g' => 'esa', 'Thhalv10017364m.g' => 'esa', 'Thhalv10023742m.g' => 'esa', 'Thhalv10026483m.g' => 'esa', 'TPR.G17232' => 'tpr', 'TPR.G2133' => 'tpr', 'TPR.G2498' => 'tpr', 'TPR.G31942' => 'tpr', 'TPR.G37877' => 'tpr', 'TPR.G4571' => 'tpr', 'TWI14G1113' => 'twi', 'TWI15G0426' => 'twi', 'TWI31G1005' => 'twi', 'TWI38G0513' => 'twi', 'TWI38G1484' => 'twi', 'TWI73G1098' => 'twi', 'unitig_26.g10519' => 'ugi', 'unitig_736.g22395' => 'ugi', 'unitig_747.g21234' => 'ugi', 'unitig_747.g21942' => 'ugi', 'vmacro14351' => 'vma', 'VMungo0540G0082' => 'vmu', 'VMungo0540G0405' => 'vmu', 'VMungo0540G1486' => 'vmu', 'VMungo0540G1692' => 'vmu', 'VMungo0720G2473' => 'vmu', 'VMungo1127G1562' => 'vmu', 'VMungo1215G1918' => 'vmu', 'Zm00001eb052650' => 'zma', 'Zm00001eb063710' => 'zma', 'Zm00001eb083950' => 'zma', 'Zm00001eb174420' => 'zma', 'Zm00001eb260140' => 'zma', 'Zm00001eb260150' => 'zma', 'Zm00001eb260160' => 'zma', 'Zm00001eb348290' => 'zma', 'Zm00001eb366870' => 'zma', 'Zm00001eb421930' => 'zma' ) $gf_id = 'HOM05D001025' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001025' ) $data_identifier = 'HOM05D001025' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 19, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 2, 'amhyb' => (int) 4, 'aly' => (int) 4, 'aox' => (int) 4, 'arhy' => (int) 3, 'ath' => (int) 5, 'atr' => (int) 4, 'acertr' => (int) 3, 'cqu' => (int) 7, 'bca' => (int) 17, 'bol' => (int) 10, 'bra' => (int) 9, 'can' => (int) 10, 'cansat' => (int) 6, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 5, 'cbr' => (int) 5, 'ccan' => (int) 5, 'cde' => (int) 4, 'cfa' => (int) 3, 'ccl' => (int) 6, 'cil' => (int) 4, 'cla' => (int) 3, 'col' => (int) 3, 'cpa' => (int) 3, 'cre' => (int) 7, 'csa' => (int) 5, 'camsi' => (int) 9, 'dca' => (int) 4, 'din' => (int) 5, 'dzi' => (int) 7, 'eca' => (int) 6, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 12, 'fve' => (int) 4, 'gma' => (int) 12, 'ghi' => (int) 17, 'gra' => (int) 9, 'vvi' => (int) 2, 'han' => (int) 8, 'cav' => (int) 5, 'hma' => (int) 9, 'vpl' => (int) 4, 'sun' => (int) 2, 'lal' => (int) 9, 'lja' => (int) 5, 'lonja' => (int) 6, 'lsa' => (int) 3, 'mes' => (int) 8, 'mpo' => (int) 3, 'mbi' => (int) 4, 'mco' => (int) 3, 'mdo' => (int) 5, 'mtr' => (int) 7, 'cme' => (int) 6, 'egut' => (int) 7, 'ama' => (int) 3, 'nta' => (int) 12, 'nnu' => (int) 9, 'oeu' => (int) 4, 'osa' => (int) 7, 'pax' => (int) 9, 'pgr' => (int) 5, 'stu' => (int) 8, 'pvu' => (int) 6, 'ptr' => (int) 9, 'ppa' => (int) 9, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 7, 'pso' => (int) 10, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 3, 'sbr' => (int) 8, 'sbo' => (int) 5, 'sci' => (int) 5, 'sed' => (int) 4, 'sgi' => (int) 4, 'sas' => (int) 4, 'smo' => (int) 5, 'sly' => (int) 7, 'spe' => (int) 10, 'spa' => (int) 5, 'tar' => (int) 5, 'tha' => (int) 8, 'tca' => (int) 3, 'esa' => (int) 5, 'tpr' => (int) 6, 'twi' => (int) 6, 'ugi' => (int) 4, 'vma' => (int) 1, 'vmu' => (int) 7, 'zma' => (int) 10 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb421930' $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' => 'HOM05D001025', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '592', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p22650' => 'bna', 'A01p29720' => 'bna', 'A03p26560' => 'bna', 'A03p68820' => 'bna', 'A04p20980' => 'bna', 'A06p07730' => 'bna', 'A07p18260' => 'bna', 'A08p33710' => 'bna', 'A09p16970' => 'bna', 'A10p27490' => 'bna', 'Aa31LG1G17300' => 'aar', 'Aa31LG1G3910' => 'aar', 'Aa31LG2G9630' => 'aar', 'Aa31LG5G8360' => 'aar', 'Aa31LG9G2410' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4699' => 'aag', 'Actinidia23512' => 'ach', 'Actinidia37080' => 'ach', 'Ah.01g020380' => 'amhyb', 'Ah.08g215710' => 'amhyb', 'Ah.09g225110' => 'amhyb', 'Ah.10g036680' => 'amhyb', 'AL1G21940' => 'aly', 'AL2G15540' => 'aly', 'AL4G21520' => 'aly', 'AL7G40960' => 'aly', 'Aqoxy2G01191' => 'aox', 'Aqoxy2G03393' => 'aox', 'Aqoxy4G02775' => 'aox', 'Aqoxy6G00058' => 'aox', 'arahy.Tifrunner.gnm1.ann1.9X74H2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CW3FX9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R485W7' => 'arhy', 'AT1G10960' => 'ath', 'AT1G60950' => 'ath', 'AT2G27510' => 'ath', 'AT4G14890' => 'ath', 'AT5G10000' => 'ath', 'ATR0665G624' => 'atr', 'ATR0697G138' => 'atr', 'ATR0776G046' => 'atr', 'ATR1134G135' => 'atr', 'Atru.chr12.1025' => 'acertr', 'Atru.chr3.3241' => 'acertr', 'Atru.chr4.2460' => 'acertr', 'AUR62007427' => 'cqu', 'AUR62010960' => 'cqu', 'AUR62012201' => 'cqu', 'AUR62021470' => 'cqu', 'AUR62022834' => 'cqu', 'AUR62033635' => 'cqu', 'AUR62036186' => 'cqu', 'BcaB01g03077' => 'bca', 'BcaB02g10093' => 'bca', 'BcaB04g20295' => 'bca', 'BcaB06g28147' => 'bca', 'BcaB07g31253' => 'bca', 'BcaC01g04946' => 'bca', 'BcaC02g10614' => 'bca', 'BcaC02g10885' => 'bca', 'BcaC04g19356' => 'bca', 'BcaC04g22297' => 'bca', 'BcaC05g24977' => 'bca', 'BcaC06g31823' => 'bca', 'BcaC07g38633' => 'bca', 'BcaC09g49353' => 'bca', 'BcaC09g50168' => 'bca', 'BcaNung00322' => 'bca', 'BcaNung04769' => 'bca', 'BolC1t02753H' => 'bol', 'BolC1t03721H' => 'bol', 'BolC3t15525H' => 'bol', 'BolC4t23903H' => 'bol', 'BolC4t24231H' => 'bol', 'BolC4t27209H' => 'bol', 'BolC5t29671H' => 'bol', 'BolC8t49044H' => 'bol', 'BolC9t54999H' => 'bol', 'BolC9t59517H' => 'bol', 'BraA01t02178Z' => 'bra', 'BraA01t03099Z' => 'bra', 'BraA03t11867Z' => 'bra', 'BraA04t17667Z' => 'bra', 'BraA07t29542Z' => 'bra', 'BraA08t35287Z' => 'bra', 'BraA09t37334Z' => 'bra', 'BraA10t44801Z' => 'bra', 'BraSC39t46181Z' => 'bra', 'C01p28240' => 'bna', 'C01p37530' => 'bna', 'C03p31820' => 'bna', 'C04p24080' => 'bna', 'C04p25790' => 'bna', 'C04p56770' => 'bna', 'C05p09310' => 'bna', 'C09p21010' => 'bna', 'C09p67560' => 'bna', 'CAN.G1324.7' => 'can', 'CAN.G1358.10' => 'can', 'CAN.G1550.2' => 'can', 'CAN.G186.56' => 'can', 'CAN.G1965.1' => 'can', 'CAN.G645.15' => 'can', 'CAN.G798.26' => 'can', 'CAN.G798.27' => 'can', 'CAN.G798.29' => 'can', 'CAN.G919.31' => 'can', 'CANSAT11G0133' => 'cansat', 'CANSAT11G1171' => 'cansat', 'CANSAT11G2056' => 'cansat', 'CANSAT56G1202' => 'cansat', 'CANSAT56G1514' => 'cansat', 'CANSAT78G0455' => 'cansat', 'CARHR011190' => 'chi', 'CARHR051980' => 'chi', 'CARHR120170' => 'chi', 'CARHR203310' => 'chi', 'CARHR221490' => 'chi', 'Carub.0001s1054' => 'cru', 'Carub.0002s0431' => 'cru', 'Carub.0004s0818' => 'cru', 'Carub.0006s0846' => 'cru', 'Carub.0007s2722' => 'cru', 'Ca_00058_v3' => 'car', 'Ca_17831_v3' => 'car', 'Ca_19408_v3' => 'car', 'Ca_24397_v3' => 'car', 'Ca_25664_v3' => 'car', 'CBR_g21818' => 'cbr', 'CBR_g31195' => 'cbr', 'CBR_g32282' => 'cbr', 'CBR_g39599' => 'cbr', 'CBR_g49410' => 'cbr', 'Cc01_g09120' => 'ccan', 'Cc01_g09130' => 'ccan', 'Cc02_g09630' => 'ccan', 'Cc02_g22810' => 'ccan', 'Cc03_g03810' => 'ccan', 'CDE02G3718' => 'cde', 'CDE04G3183' => 'cde', 'CDE07G1046' => 'cde', 'CDE08G0480' => 'cde', 'Cfa005493' => 'cfa', 'Cfa010312' => 'cfa', 'Cfa015648' => 'cfa', 'Ciclev10002793m.g' => 'ccl', 'Ciclev10003356m.g' => 'ccl', 'Ciclev10006141m.g' => 'ccl', 'Ciclev10016676m.g' => 'ccl', 'Ciclev10017081m.g' => 'ccl', 'Ciclev10029499m.g' => 'ccl', 'CiPaw.01G166300' => 'cil', 'CiPaw.06G145600' => 'cil', 'CiPaw.13G040100' => 'cil', 'CiPaw.13G135800' => 'cil', 'ClCG01G012230' => 'cla', 'ClCG05G009510' => 'cla', 'ClCG08G008270' => 'cla', 'COL.COLO4_11763' => 'col', 'COL.COLO4_19876' => 'col', 'COL.COLO4_21481' => 'col', 'Cpa.g.sc118.34' => 'cpa', 'Cpa.g.sc32.13' => 'cpa', 'Cpa.g.sc58.103' => 'cpa', 'Cre03.g183850' => 'cre', 'Cre06.g306350' => 'cre', 'Cre07.g334800' => 'cre', 'Cre12.g487900' => 'cre', 'Cre14.g626700' => 'cre', 'Cre16.g658400' => 'cre', 'Cre17.g700950' => 'cre', 'CsaV3_1G014830' => 'csa', 'CsaV3_3G013320' => 'csa', 'CsaV3_3G019210' => 'csa', 'CsaV3_3G019220' => 'csa', 'CsaV3_6G004230' => 'csa', 'CSS0003773' => 'camsi', 'CSS0004563' => 'camsi', 'CSS0013949' => 'camsi', 'CSS0025971' => 'camsi', 'CSS0028570' => 'camsi', 'CSS0033127' => 'camsi', 'CSS0036051' => 'camsi', 'CSS0040087' => 'camsi', 'CSS0043179' => 'camsi', 'DCAR_006161' => 'dca', 'DCAR_010351' => 'dca', 'DCAR_012197' => 'dca', 'DCAR_024162' => 'dca', 'Dinv01030' => 'din', 'Dinv10924' => 'din', 'Dinv11835' => 'din', 'Dinv22841' => 'din', 'Dinv42553' => 'din', 'Duzib052G0560' => 'dzi', 'Duzib132G0389' => 'dzi', 'Duzib150G1181' => 'dzi', 'Duzib168G0623' => 'dzi', 'Duzib170G1036' => 'dzi', 'Duzib212G0200' => 'dzi', 'Duzib248G0194' => 'dzi', 'ECA232G2193' => 'eca', 'ECA233G0302' => 'eca', 'ECA234G2813' => 'eca', 'ECA234G4866' => 'eca', 'ECA240G3932' => 'eca', 'ECA248G0385' => 'eca', 'EL10Ac2g04781' => 'bvu', 'EL10Ac3g06445' => 'bvu', 'EL10Ac7g15825' => 'bvu', 'EL10Ac8g18550' => 'bvu', 'Eucgr.B03849' => 'egr', 'Eucgr.I02744' => 'egr', 'Eucgr.J00264' => 'egr', 'Eucgr.J00493' => 'egr', 'FAN04G2181' => 'fan', 'FAN07G2666' => 'fan', 'FAN11G0024' => 'fan', 'FAN12G1105' => 'fan', 'FAN13G0302' => 'fan', 'FAN15G2781' => 'fan', 'FAN16G1274' => 'fan', 'FAN17G2988' => 'fan', 'FAN18G2621' => 'fan', 'FAN21G0013' => 'fan', 'FAN22G1211' => 'fan', 'FAN25G3626' => 'fan', 'FvH4_2g09491' => 'fve', 'FvH4_3g24910' => 'fve', 'FvH4_4g15630' => 'fve', 'FvH4_5g28820' => 'fve', 'Glyma.01G238000' => 'gma', 'Glyma.05G168400' => 'gma', 'Glyma.08G126800' => 'gma', 'Glyma.08G188500' => 'gma', 'Glyma.10G278900' => 'gma', 'Glyma.11G005700' => 'gma', 'Glyma.11G183300' => 'gma', 'Glyma.12G089200' => 'gma', 'Glyma.12G169400' => 'gma', 'Glyma.12G169500' => 'gma', 'Glyma.12G169600' => 'gma', 'Glyma.20G110800' => 'gma', 'Gohir.A03G192900' => 'ghi', 'Gohir.A03G193000' => 'ghi', 'Gohir.A05G080700' => 'ghi', 'Gohir.A09G216000' => 'ghi', 'Gohir.A12G027700' => 'ghi', 'Gohir.A13G036200' => 'ghi', 'Gohir.A13G222600' => 'ghi', 'Gohir.D02G213900' => 'ghi', 'Gohir.D02G214000' => 'ghi', 'Gohir.D05G083700' => 'ghi', 'Gohir.D05G083800' => 'ghi', 'Gohir.D05G083850' => 'ghi', 'Gohir.D08G015400' => 'ghi', 'Gohir.D09G218400' => 'ghi', 'Gohir.D12G027100' => 'ghi', 'Gohir.D13G034500' => 'ghi', 'Gohir.D13G227400' => 'ghi', 'Gorai.005G241800' => 'gra', 'Gorai.005G241900' => 'gra', 'Gorai.006G239400' => 'gra', 'Gorai.008G027600' => 'gra', 'Gorai.009G085400' => 'gra', 'Gorai.009G085500' => 'gra', 'Gorai.013G039000' => 'gra', 'Gorai.013G194800' => 'gra', 'Gorai.013G257900' => 'gra', 'GSVIVG01000982001' => 'vvi', 'GSVIVG01017981001' => 'vvi', 'HanXRQChr01g0024061' => 'han', 'HanXRQChr09g0247831' => 'han', 'HanXRQChr10g0294611' => 'han', 'HanXRQChr10g0294621' => 'han', 'HanXRQChr11g0346821' => 'han', 'HanXRQChr13g0397461' => 'han', 'HanXRQChr16g0513651' => 'han', 'HanXRQChr16g0513701' => 'han', 'Haze_00897' => 'cav', 'Haze_01745' => 'cav', 'Haze_02486' => 'cav', 'Haze_02487' => 'cav', 'Haze_23374' => 'cav', 'Hma1.2p1_0578F.1_g182520' => 'hma', 'Hma1.2p1_0602F.1_g187350' => 'hma', 'Hma1.2p1_0602F.1_g187360' => 'hma', 'Hma1.2p1_0874F.1_g231320' => 'hma', 'Hma1.2p1_1197F.1_g266210' => 'hma', 'Hma1.2p1_1197F.1_g266220' => 'hma', 'Hma1.2p1_2167F.1_g315895' => 'hma', 'Hma1.2p1_2190F.1_g316640' => 'hma', 'Hma1.2p1_3645F.1_g337153' => 'hma', 'HPP92_004907' => 'vpl', 'HPP92_012134' => 'vpl', 'HPP92_025136' => 'vpl', 'HPP92_026087' => 'vpl', 'Hund06782' => 'sun', 'Hund06784' => 'sun', 'Lalb_Chr01g0004861' => 'lal', 'Lalb_Chr02g0140591' => 'lal', 'Lalb_Chr02g0140611' => 'lal', 'Lalb_Chr03g0028101' => 'lal', 'Lalb_Chr07g0185791' => 'lal', 'Lalb_Chr12g0204491' => 'lal', 'Lalb_Chr13g0295671' => 'lal', 'Lalb_Chr19g0136461' => 'lal', 'Lalb_Chr21g0309191' => 'lal', 'Lj1g0028158' => 'lja', 'Lj1P236T38' => 'lonja', 'Lj2C32G2' => 'lonja', 'Lj2P944T8' => 'lonja', 'Lj2P963T15' => 'lonja', 'Lj3g0011788' => 'lja', 'Lj4g0025027' => 'lja', 'Lj5P255T36' => 'lonja', 'Lj6g0018866' => 'lja', 'Lj6P608T31' => 'lonja', 'LjContig00408g0008879' => 'lja', 'Lsat_1_v5_gn_5_105820' => 'lsa', 'Lsat_1_v5_gn_6_38800' => 'lsa', 'Lsat_1_v5_gn_7_67141' => 'lsa', 'Manes.04G003400' => 'mes', 'Manes.07G020000' => 'mes', 'Manes.07G020100' => 'mes', 'Manes.07G020150' => 'mes', 'Manes.10G061500' => 'mes', 'Manes.10G123200' => 'mes', 'Manes.11G161900' => 'mes', 'Manes.15G029300' => 'mes', 'Mapoly0071s0018' => 'mpo', 'Mapoly0082s0023' => 'mpo', 'Mapoly3477s0001' => 'mpo', 'MBI05_g31233_MAGBIO' => 'mbi', 'MBI09_g05946_MAGBIO' => 'mbi', 'MBI09_g05947_MAGBIO' => 'mbi', 'MBI17_g08346_MAGBIO' => 'mbi', 'MCO04G038' => 'mco', 'MCO09G370' => 'mco', 'MCO13G605' => 'mco', 'MD00G1075500' => 'mdo', 'MD03G1144300' => 'mdo', 'MD08G1236800' => 'mdo', 'MD13G1193300' => 'mdo', 'MD15G1428700' => 'mdo', 'Medtr1g112030' => 'mtr', 'Medtr1g112050' => 'mtr', 'Medtr2g006290' => 'mtr', 'Medtr2g086510' => 'mtr', 'Medtr4g053120' => 'mtr', 'Medtr5g006320' => 'mtr', 'Medtr8g088720' => 'mtr', 'MELO3C004712.2' => 'cme', 'MELO3C006533.2' => 'cme', 'MELO3C019438.2' => 'cme', 'MELO3C019440.2' => 'cme', 'MELO3C019441.2' => 'cme', 'MELO3C019895.2' => 'cme', 'Migut.B00811' => 'egut', 'Migut.D02447' => 'egut', 'Migut.F00875' => 'egut', 'Migut.N00186' => 'egut', 'Migut.N01051' => 'egut', 'Migut.N02491' => 'egut', 'Migut.O00784' => 'egut', 'MSTRG.12367' => 'ama', 'MSTRG.18756' => 'ama', 'MSTRG.21042' => 'ama', 'Nitab4.5_0000559g0040' => 'nta', 'Nitab4.5_0000667g0190' => 'nta', 'Nitab4.5_0000755g0160' => 'nta', 'Nitab4.5_0001216g0080' => 'nta', 'Nitab4.5_0004069g0040' => 'nta', 'Nitab4.5_0004129g0010' => 'nta', 'Nitab4.5_0005744g0030' => 'nta', 'Nitab4.5_0006996g0030' => 'nta', 'Nitab4.5_0008971g0040' => 'nta', 'Nitab4.5_0009769g0020' => 'nta', 'Nitab4.5_0009833g0010' => 'nta', 'Nitab4.5_0013140g0020' => 'nta', 'Nn003s41376' => 'nnu', 'Nn1g01857' => 'nnu', 'Nn1g03611' => 'nnu', 'Nn1g06853' => 'nnu', 'Nn3g18360' => 'nnu', 'Nn4g26328' => 'nnu', 'Nn5g27531' => 'nnu', 'Nn6g34899' => 'nnu', 'Nn7g36299' => 'nnu', 'Oeu021485.1' => 'oeu', 'Oeu022433.1' => 'oeu', 'Oeu032111.1' => 'oeu', 'Oeu051608.1' => 'oeu', 'Os01g0860601' => 'osa', 'Os03g0659200' => 'osa', 'Os03g0835900' => 'osa', 'Os04g0412200' => 'osa', 'Os05g0443500' => 'osa', 'Os07g0251500' => 'osa', 'Os08g0104600' => 'osa', 'Peaxi162Scf00003g00047' => 'pax', 'Peaxi162Scf00003g00052' => 'pax', 'Peaxi162Scf00003g00394' => 'pax', 'Peaxi162Scf00091g00621' => 'pax', 'Peaxi162Scf00152g00146' => 'pax', 'Peaxi162Scf00173g00025' => 'pax', 'Peaxi162Scf00195g00102' => 'pax', 'Peaxi162Scf00402g00013' => 'pax', 'Peaxi162Scf00519g00618' => 'pax', 'PGR004G2838' => 'pgr', 'PGR044G2275' => 'pgr', 'PGR102G1377' => 'pgr', 'PGR119G1245' => 'pgr', 'PGR142G4449' => 'pgr', 'PGSC0003DMG400004532' => 'stu', 'PGSC0003DMG400011950' => 'stu', 'PGSC0003DMG400023391' => 'stu', 'PGSC0003DMG400023985' => 'stu', 'PGSC0003DMG400026360' => 'stu', 'PGSC0003DMG400035711' => 'stu', 'PGSC0003DMG400037286' => 'stu', 'PGSC0003DMG402005881' => 'stu', 'Phvul.002G045400' => 'pvu', 'Phvul.006G216600' => 'pvu', 'Phvul.006G216700' => 'pvu', 'Phvul.006G216800' => 'pvu', 'Phvul.007G022500' => 'pvu', 'Phvul.011G094400' => 'pvu', 'Potri.001G470700' => 'ptr', 'Potri.003G015200' => 'ptr', 'Potri.004G202500' => 'ptr', 'Potri.004G218400' => 'ptr', 'Potri.008G020100' => 'ptr', 'Potri.008G153200' => 'ptr', 'Potri.009G163800' => 'ptr', 'Potri.010G087300' => 'ptr', 'Potri.010G239100' => 'ptr', 'Pp3c10_16100' => 'ppa', 'Pp3c10_16880' => 'ppa', 'Pp3c16_6230' => 'ppa', 'Pp3c17_18910' => 'ppa', 'Pp3c3_22119' => 'ppa', 'Pp3c3_22140' => 'ppa', 'Pp3c4_8159' => 'ppa', 'Pp3c4_8171' => 'ppa', 'Pp3c4_8330' => 'ppa', 'PRCOL_00004098' => 'pco', 'Prupe.1G013900' => 'ppe', 'Prupe.1G226300' => 'ppe', 'Prupe.1G573600' => 'ppe', 'Prupe.6G130100' => 'ppe', 'Psat3g090040' => 'psa', 'Psat4g210440' => 'psa', 'Psat6g231040' => 'psa', 'Psat6g231080' => 'psa', 'Psat7g063000' => 'psa', 'Psat7g188000' => 'psa', 'Psat7g188040' => 'psa', 'PSO017G0206' => 'pso', 'PSO170G0501' => 'pso', 'PSO170G6422' => 'pso', 'PSO210G7739' => 'pso', 'PSO339G1808' => 'pso', 'PSO339G6135' => 'pso', 'PSO384G0010' => 'pso', 'PSO384G0964' => 'pso', 'PSO761G0050' => 'pso', 'PSO782G4085' => 'pso', 'QL01p012264' => 'qlo', 'QL02p099491' => 'qlo', 'QL03p033868' => 'qlo', 'QL04p046678' => 'qlo', 'QL06p002448' => 'qlo', 'RcHm_v2.0_Chr4g0416181' => 'rch', 'RcHm_v2.0_Chr5g0044701' => 'rch', 'RcHm_v2.0_Chr6g0265781' => 'rch', 'RcHm_v2.0_Chr7g0221031' => 'rch', 'Rhsim04G0202000' => 'rsi', 'Rhsim11G0127300' => 'rsi', 'Rhsim13G0111800' => 'rsi', 'Sabra01G0165600' => 'sbr', 'Sabra03G0008300' => 'sbr', 'Sabra04G0136900' => 'sbr', 'Sabra08G0013400' => 'sbr', 'Sabra08G0116800' => 'sbr', 'Sabra09G0128000' => 'sbr', 'Sabra10G0055500' => 'sbr', 'Sabra10G0073300' => 'sbr', 'SalBow3G0385' => 'sbo', 'SalBow3G1119' => 'sbo', 'SalBow3G2005' => 'sbo', 'SalBow6G2563' => 'sbo', 'SalBow6G6386' => 'sbo', 'Sc06g0008800' => 'sci', 'Sc07g0004950' => 'sci', 'Sc09g0005340' => 'sci', 'Sc13g0004410' => 'sci', 'Sc21g0007090' => 'sci', 'Sed0009285' => 'sed', 'Sed0017583' => 'sed', 'Sed0019699' => 'sed', 'Sed0023107' => 'sed', 'SEGI_10916' => 'sgi', 'SEGI_16217' => 'sgi', 'SEGI_19466' => 'sgi', 'SEGI_41115' => 'sgi', 'SGA_v2.0_scaffold111G31534' => 'sas', 'SGA_v2.0_scaffold22G09864' => 'sas', 'SGA_v2.0_scaffold338G49219' => 'sas', 'SGA_v2.0_scaffold92G28298' => 'sas', 'SMO119G0064' => 'smo', 'SMO223G0038' => 'smo', 'SMO347G0584' => 'smo', 'SMO351G0010' => 'smo', 'SMO356G0404' => 'smo', 'Solyc01g103920.3' => 'sly', 'Solyc04g009710.2' => 'sly', 'Solyc05g055280.2' => 'sly', 'Solyc10g044520.3' => 'sly', 'Solyc10g075160.1' => 'sly', 'Solyc11g006910.3' => 'sly', 'Solyc11g068430.3' => 'sly', 'Sopen01g046310' => 'spe', 'Sopen03g001200' => 'spe', 'Sopen04g004830' => 'spe', 'Sopen05g033720' => 'spe', 'Sopen06g030740' => 'spe', 'Sopen10g013090' => 'spe', 'Sopen10g027630' => 'spe', 'Sopen10g027640' => 'spe', 'Sopen11g002820' => 'spe', 'Sopen11g027140' => 'spe', 'Sp1g09680' => 'spa', 'Sp2g03630' => 'spa', 'Sp4g10320' => 'spa', 'Sp6g33400' => 'spa', 'Sp7g13030' => 'spa', 'TAR365G0317' => 'tar', 'TAR376G0979' => 'tar', 'TAR623G1665' => 'tar', 'TAR633G2373' => 'tar', 'TAR636G1400' => 'tar', 'THA.LOC104800529' => 'tha', 'THA.LOC104808547' => 'tha', 'THA.LOC104809615' => 'tha', 'THA.LOC104815724' => 'tha', 'THA.LOC104818480' => 'tha', 'THA.LOC104819179' => 'tha', 'THA.LOC104822270' => 'tha', 'THA.LOC104826425' => 'tha', 'Thecc.02G089700' => 'tca', 'Thecc.04G232300' => 'tca', 'Thecc.09G283400' => 'tca', 'Thhalv10009020m.g' => 'esa', 'Thhalv10015506m.g' => 'esa', 'Thhalv10017364m.g' => 'esa', 'Thhalv10023742m.g' => 'esa', 'Thhalv10026483m.g' => 'esa', 'TPR.G17232' => 'tpr', 'TPR.G2133' => 'tpr', 'TPR.G2498' => 'tpr', 'TPR.G31942' => 'tpr', 'TPR.G37877' => 'tpr', 'TPR.G4571' => 'tpr', 'TWI14G1113' => 'twi', 'TWI15G0426' => 'twi', 'TWI31G1005' => 'twi', 'TWI38G0513' => 'twi', 'TWI38G1484' => 'twi', 'TWI73G1098' => 'twi', 'unitig_26.g10519' => 'ugi', 'unitig_736.g22395' => 'ugi', 'unitig_747.g21234' => 'ugi', 'unitig_747.g21942' => 'ugi', 'vmacro14351' => 'vma', 'VMungo0540G0082' => 'vmu', 'VMungo0540G0405' => 'vmu', 'VMungo0540G1486' => 'vmu', 'VMungo0540G1692' => 'vmu', 'VMungo0720G2473' => 'vmu', 'VMungo1127G1562' => 'vmu', 'VMungo1215G1918' => 'vmu', 'Zm00001eb052650' => 'zma', 'Zm00001eb063710' => 'zma', 'Zm00001eb083950' => 'zma', 'Zm00001eb174420' => 'zma', 'Zm00001eb260140' => 'zma', 'Zm00001eb260150' => 'zma', 'Zm00001eb260160' => 'zma', 'Zm00001eb348290' => 'zma', 'Zm00001eb366870' => 'zma', 'Zm00001eb421930' => 'zma' ), 'gf_id' => 'HOM05D001025', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001025' ), 'data_identifier' => 'HOM05D001025', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001025', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '592', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p22650' => 'bna', 'A01p29720' => 'bna', 'A03p26560' => 'bna', 'A03p68820' => 'bna', 'A04p20980' => 'bna', 'A06p07730' => 'bna', 'A07p18260' => 'bna', 'A08p33710' => 'bna', 'A09p16970' => 'bna', 'A10p27490' => 'bna', 'Aa31LG1G17300' => 'aar', 'Aa31LG1G3910' => 'aar', 'Aa31LG2G9630' => 'aar', 'Aa31LG5G8360' => 'aar', 'Aa31LG9G2410' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4699' => 'aag', 'Actinidia23512' => 'ach', 'Actinidia37080' => 'ach', 'Ah.01g020380' => 'amhyb', 'Ah.08g215710' => 'amhyb', 'Ah.09g225110' => 'amhyb', 'Ah.10g036680' => 'amhyb', 'AL1G21940' => 'aly', 'AL2G15540' => 'aly', 'AL4G21520' => 'aly', 'AL7G40960' => 'aly', 'Aqoxy2G01191' => 'aox', 'Aqoxy2G03393' => 'aox', 'Aqoxy4G02775' => 'aox', 'Aqoxy6G00058' => 'aox', 'arahy.Tifrunner.gnm1.ann1.9X74H2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CW3FX9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R485W7' => 'arhy', 'AT1G10960' => 'ath', 'AT1G60950' => 'ath', 'AT2G27510' => 'ath', 'AT4G14890' => 'ath', 'AT5G10000' => 'ath', 'ATR0665G624' => 'atr', 'ATR0697G138' => 'atr', 'ATR0776G046' => 'atr', 'ATR1134G135' => 'atr', 'Atru.chr12.1025' => 'acertr', 'Atru.chr3.3241' => 'acertr', 'Atru.chr4.2460' => 'acertr', 'AUR62007427' => 'cqu', 'AUR62010960' => 'cqu', 'AUR62012201' => 'cqu', 'AUR62021470' => 'cqu', 'AUR62022834' => 'cqu', 'AUR62033635' => 'cqu', 'AUR62036186' => 'cqu', 'BcaB01g03077' => 'bca', 'BcaB02g10093' => 'bca', 'BcaB04g20295' => 'bca', 'BcaB06g28147' => 'bca', 'BcaB07g31253' => 'bca', 'BcaC01g04946' => 'bca', 'BcaC02g10614' => 'bca', 'BcaC02g10885' => 'bca', 'BcaC04g19356' => 'bca', 'BcaC04g22297' => 'bca', 'BcaC05g24977' => 'bca', 'BcaC06g31823' => 'bca', 'BcaC07g38633' => 'bca', 'BcaC09g49353' => 'bca', 'BcaC09g50168' => 'bca', 'BcaNung00322' => 'bca', 'BcaNung04769' => 'bca', 'BolC1t02753H' => 'bol', 'BolC1t03721H' => 'bol', 'BolC3t15525H' => 'bol', 'BolC4t23903H' => 'bol', 'BolC4t24231H' => 'bol', 'BolC4t27209H' => 'bol', 'BolC5t29671H' => 'bol', 'BolC8t49044H' => 'bol', 'BolC9t54999H' => 'bol', 'BolC9t59517H' => 'bol', 'BraA01t02178Z' => 'bra', 'BraA01t03099Z' => 'bra', 'BraA03t11867Z' => 'bra', 'BraA04t17667Z' => 'bra', 'BraA07t29542Z' => 'bra', 'BraA08t35287Z' => 'bra', 'BraA09t37334Z' => 'bra', 'BraA10t44801Z' => 'bra', 'BraSC39t46181Z' => 'bra', 'C01p28240' => 'bna', 'C01p37530' => 'bna', 'C03p31820' => 'bna', 'C04p24080' => 'bna', 'C04p25790' => 'bna', 'C04p56770' => 'bna', 'C05p09310' => 'bna', 'C09p21010' => 'bna', 'C09p67560' => 'bna', 'CAN.G1324.7' => 'can', 'CAN.G1358.10' => 'can', 'CAN.G1550.2' => 'can', 'CAN.G186.56' => 'can', 'CAN.G1965.1' => 'can', 'CAN.G645.15' => 'can', 'CAN.G798.26' => 'can', 'CAN.G798.27' => 'can', 'CAN.G798.29' => 'can', 'CAN.G919.31' => 'can', 'CANSAT11G0133' => 'cansat', 'CANSAT11G1171' => 'cansat', 'CANSAT11G2056' => 'cansat', 'CANSAT56G1202' => 'cansat', 'CANSAT56G1514' => 'cansat', 'CANSAT78G0455' => 'cansat', 'CARHR011190' => 'chi', 'CARHR051980' => 'chi', 'CARHR120170' => 'chi', 'CARHR203310' => 'chi', 'CARHR221490' => 'chi', 'Carub.0001s1054' => 'cru', 'Carub.0002s0431' => 'cru', 'Carub.0004s0818' => 'cru', 'Carub.0006s0846' => 'cru', 'Carub.0007s2722' => 'cru', 'Ca_00058_v3' => 'car', 'Ca_17831_v3' => 'car', 'Ca_19408_v3' => 'car', 'Ca_24397_v3' => 'car', 'Ca_25664_v3' => 'car', 'CBR_g21818' => 'cbr', 'CBR_g31195' => 'cbr', 'CBR_g32282' => 'cbr', 'CBR_g39599' => 'cbr', 'CBR_g49410' => 'cbr', 'Cc01_g09120' => 'ccan', 'Cc01_g09130' => 'ccan', 'Cc02_g09630' => 'ccan', 'Cc02_g22810' => 'ccan', 'Cc03_g03810' => 'ccan', 'CDE02G3718' => 'cde', 'CDE04G3183' => 'cde', 'CDE07G1046' => 'cde', 'CDE08G0480' => 'cde', 'Cfa005493' => 'cfa', 'Cfa010312' => 'cfa', 'Cfa015648' => 'cfa', 'Ciclev10002793m.g' => 'ccl', 'Ciclev10003356m.g' => 'ccl', 'Ciclev10006141m.g' => 'ccl', 'Ciclev10016676m.g' => 'ccl', 'Ciclev10017081m.g' => 'ccl', 'Ciclev10029499m.g' => 'ccl', 'CiPaw.01G166300' => 'cil', 'CiPaw.06G145600' => 'cil', 'CiPaw.13G040100' => 'cil', 'CiPaw.13G135800' => 'cil', 'ClCG01G012230' => 'cla', 'ClCG05G009510' => 'cla', 'ClCG08G008270' => 'cla', 'COL.COLO4_11763' => 'col', 'COL.COLO4_19876' => 'col', 'COL.COLO4_21481' => 'col', 'Cpa.g.sc118.34' => 'cpa', 'Cpa.g.sc32.13' => 'cpa', 'Cpa.g.sc58.103' => 'cpa', 'Cre03.g183850' => 'cre', 'Cre06.g306350' => 'cre', 'Cre07.g334800' => 'cre', 'Cre12.g487900' => 'cre', 'Cre14.g626700' => 'cre', 'Cre16.g658400' => 'cre', 'Cre17.g700950' => 'cre', 'CsaV3_1G014830' => 'csa', 'CsaV3_3G013320' => 'csa', 'CsaV3_3G019210' => 'csa', 'CsaV3_3G019220' => 'csa', 'CsaV3_6G004230' => 'csa', 'CSS0003773' => 'camsi', 'CSS0004563' => 'camsi', 'CSS0013949' => 'camsi', 'CSS0025971' => 'camsi', 'CSS0028570' => 'camsi', 'CSS0033127' => 'camsi', 'CSS0036051' => 'camsi', 'CSS0040087' => 'camsi', 'CSS0043179' => 'camsi', 'DCAR_006161' => 'dca', 'DCAR_010351' => 'dca', 'DCAR_012197' => 'dca', 'DCAR_024162' => 'dca', 'Dinv01030' => 'din', 'Dinv10924' => 'din', 'Dinv11835' => 'din', 'Dinv22841' => 'din', 'Dinv42553' => 'din', 'Duzib052G0560' => 'dzi', 'Duzib132G0389' => 'dzi', 'Duzib150G1181' => 'dzi', 'Duzib168G0623' => 'dzi', 'Duzib170G1036' => 'dzi', 'Duzib212G0200' => 'dzi', 'Duzib248G0194' => 'dzi', 'ECA232G2193' => 'eca', 'ECA233G0302' => 'eca', 'ECA234G2813' => 'eca', 'ECA234G4866' => 'eca', 'ECA240G3932' => 'eca', 'ECA248G0385' => 'eca', 'EL10Ac2g04781' => 'bvu', 'EL10Ac3g06445' => 'bvu', 'EL10Ac7g15825' => 'bvu', 'EL10Ac8g18550' => 'bvu', 'Eucgr.B03849' => 'egr', 'Eucgr.I02744' => 'egr', 'Eucgr.J00264' => 'egr', 'Eucgr.J00493' => 'egr', 'FAN04G2181' => 'fan', 'FAN07G2666' => 'fan', 'FAN11G0024' => 'fan', 'FAN12G1105' => 'fan', 'FAN13G0302' => 'fan', 'FAN15G2781' => 'fan', 'FAN16G1274' => 'fan', 'FAN17G2988' => 'fan', 'FAN18G2621' => 'fan', 'FAN21G0013' => 'fan', 'FAN22G1211' => 'fan', 'FAN25G3626' => 'fan', 'FvH4_2g09491' => 'fve', 'FvH4_3g24910' => 'fve', 'FvH4_4g15630' => 'fve', 'FvH4_5g28820' => 'fve', 'Glyma.01G238000' => 'gma', 'Glyma.05G168400' => 'gma', 'Glyma.08G126800' => 'gma', 'Glyma.08G188500' => 'gma', 'Glyma.10G278900' => 'gma', 'Glyma.11G005700' => 'gma', 'Glyma.11G183300' => 'gma', 'Glyma.12G089200' => 'gma', 'Glyma.12G169400' => 'gma', 'Glyma.12G169500' => 'gma', 'Glyma.12G169600' => 'gma', 'Glyma.20G110800' => 'gma', 'Gohir.A03G192900' => 'ghi', 'Gohir.A03G193000' => 'ghi', 'Gohir.A05G080700' => 'ghi', 'Gohir.A09G216000' => 'ghi', 'Gohir.A12G027700' => 'ghi', 'Gohir.A13G036200' => 'ghi', 'Gohir.A13G222600' => 'ghi', 'Gohir.D02G213900' => 'ghi', 'Gohir.D02G214000' => 'ghi', 'Gohir.D05G083700' => 'ghi', 'Gohir.D05G083800' => 'ghi', 'Gohir.D05G083850' => 'ghi', 'Gohir.D08G015400' => 'ghi', 'Gohir.D09G218400' => 'ghi', 'Gohir.D12G027100' => 'ghi', 'Gohir.D13G034500' => 'ghi', 'Gohir.D13G227400' => 'ghi', 'Gorai.005G241800' => 'gra', 'Gorai.005G241900' => 'gra', 'Gorai.006G239400' => 'gra', 'Gorai.008G027600' => 'gra', 'Gorai.009G085400' => 'gra', 'Gorai.009G085500' => 'gra', 'Gorai.013G039000' => 'gra', 'Gorai.013G194800' => 'gra', 'Gorai.013G257900' => 'gra', 'GSVIVG01000982001' => 'vvi', 'GSVIVG01017981001' => 'vvi', 'HanXRQChr01g0024061' => 'han', 'HanXRQChr09g0247831' => 'han', 'HanXRQChr10g0294611' => 'han', 'HanXRQChr10g0294621' => 'han', 'HanXRQChr11g0346821' => 'han', 'HanXRQChr13g0397461' => 'han', 'HanXRQChr16g0513651' => 'han', 'HanXRQChr16g0513701' => 'han', 'Haze_00897' => 'cav', 'Haze_01745' => 'cav', 'Haze_02486' => 'cav', 'Haze_02487' => 'cav', 'Haze_23374' => 'cav', 'Hma1.2p1_0578F.1_g182520' => 'hma', 'Hma1.2p1_0602F.1_g187350' => 'hma', 'Hma1.2p1_0602F.1_g187360' => 'hma', 'Hma1.2p1_0874F.1_g231320' => 'hma', 'Hma1.2p1_1197F.1_g266210' => 'hma', 'Hma1.2p1_1197F.1_g266220' => 'hma', 'Hma1.2p1_2167F.1_g315895' => 'hma', 'Hma1.2p1_2190F.1_g316640' => 'hma', 'Hma1.2p1_3645F.1_g337153' => 'hma', 'HPP92_004907' => 'vpl', 'HPP92_012134' => 'vpl', 'HPP92_025136' => 'vpl', 'HPP92_026087' => 'vpl', 'Hund06782' => 'sun', 'Hund06784' => 'sun', 'Lalb_Chr01g0004861' => 'lal', 'Lalb_Chr02g0140591' => 'lal', 'Lalb_Chr02g0140611' => 'lal', 'Lalb_Chr03g0028101' => 'lal', 'Lalb_Chr07g0185791' => 'lal', 'Lalb_Chr12g0204491' => 'lal', 'Lalb_Chr13g0295671' => 'lal', 'Lalb_Chr19g0136461' => 'lal', 'Lalb_Chr21g0309191' => 'lal', 'Lj1g0028158' => 'lja', 'Lj1P236T38' => 'lonja', 'Lj2C32G2' => 'lonja', 'Lj2P944T8' => 'lonja', 'Lj2P963T15' => 'lonja', 'Lj3g0011788' => 'lja', 'Lj4g0025027' => 'lja', 'Lj5P255T36' => 'lonja', 'Lj6g0018866' => 'lja', 'Lj6P608T31' => 'lonja', 'LjContig00408g0008879' => 'lja', 'Lsat_1_v5_gn_5_105820' => 'lsa', 'Lsat_1_v5_gn_6_38800' => 'lsa', 'Lsat_1_v5_gn_7_67141' => 'lsa', 'Manes.04G003400' => 'mes', 'Manes.07G020000' => 'mes', 'Manes.07G020100' => 'mes', 'Manes.07G020150' => 'mes', 'Manes.10G061500' => 'mes', 'Manes.10G123200' => 'mes', 'Manes.11G161900' => 'mes', 'Manes.15G029300' => 'mes', 'Mapoly0071s0018' => 'mpo', 'Mapoly0082s0023' => 'mpo', 'Mapoly3477s0001' => 'mpo', 'MBI05_g31233_MAGBIO' => 'mbi', 'MBI09_g05946_MAGBIO' => 'mbi', 'MBI09_g05947_MAGBIO' => 'mbi', 'MBI17_g08346_MAGBIO' => 'mbi', 'MCO04G038' => 'mco', 'MCO09G370' => 'mco', 'MCO13G605' => 'mco', 'MD00G1075500' => 'mdo', 'MD03G1144300' => 'mdo', 'MD08G1236800' => 'mdo', 'MD13G1193300' => 'mdo', 'MD15G1428700' => 'mdo', 'Medtr1g112030' => 'mtr', 'Medtr1g112050' => 'mtr', 'Medtr2g006290' => 'mtr', 'Medtr2g086510' => 'mtr', 'Medtr4g053120' => 'mtr', 'Medtr5g006320' => 'mtr', 'Medtr8g088720' => 'mtr', 'MELO3C004712.2' => 'cme', 'MELO3C006533.2' => 'cme', 'MELO3C019438.2' => 'cme', 'MELO3C019440.2' => 'cme', 'MELO3C019441.2' => 'cme', 'MELO3C019895.2' => 'cme', 'Migut.B00811' => 'egut', 'Migut.D02447' => 'egut', 'Migut.F00875' => 'egut', 'Migut.N00186' => 'egut', 'Migut.N01051' => 'egut', 'Migut.N02491' => 'egut', 'Migut.O00784' => 'egut', 'MSTRG.12367' => 'ama', 'MSTRG.18756' => 'ama', 'MSTRG.21042' => 'ama', 'Nitab4.5_0000559g0040' => 'nta', 'Nitab4.5_0000667g0190' => 'nta', 'Nitab4.5_0000755g0160' => 'nta', 'Nitab4.5_0001216g0080' => 'nta', 'Nitab4.5_0004069g0040' => 'nta', 'Nitab4.5_0004129g0010' => 'nta', 'Nitab4.5_0005744g0030' => 'nta', 'Nitab4.5_0006996g0030' => 'nta', 'Nitab4.5_0008971g0040' => 'nta', 'Nitab4.5_0009769g0020' => 'nta', 'Nitab4.5_0009833g0010' => 'nta', 'Nitab4.5_0013140g0020' => 'nta', 'Nn003s41376' => 'nnu', 'Nn1g01857' => 'nnu', 'Nn1g03611' => 'nnu', 'Nn1g06853' => 'nnu', 'Nn3g18360' => 'nnu', 'Nn4g26328' => 'nnu', 'Nn5g27531' => 'nnu', 'Nn6g34899' => 'nnu', 'Nn7g36299' => 'nnu', 'Oeu021485.1' => 'oeu', 'Oeu022433.1' => 'oeu', 'Oeu032111.1' => 'oeu', 'Oeu051608.1' => 'oeu', 'Os01g0860601' => 'osa', 'Os03g0659200' => 'osa', 'Os03g0835900' => 'osa', 'Os04g0412200' => 'osa', 'Os05g0443500' => 'osa', 'Os07g0251500' => 'osa', 'Os08g0104600' => 'osa', 'Peaxi162Scf00003g00047' => 'pax', 'Peaxi162Scf00003g00052' => 'pax', 'Peaxi162Scf00003g00394' => 'pax', 'Peaxi162Scf00091g00621' => 'pax', 'Peaxi162Scf00152g00146' => 'pax', 'Peaxi162Scf00173g00025' => 'pax', 'Peaxi162Scf00195g00102' => 'pax', 'Peaxi162Scf00402g00013' => 'pax', 'Peaxi162Scf00519g00618' => 'pax', 'PGR004G2838' => 'pgr', 'PGR044G2275' => 'pgr', 'PGR102G1377' => 'pgr', 'PGR119G1245' => 'pgr', 'PGR142G4449' => 'pgr', 'PGSC0003DMG400004532' => 'stu', 'PGSC0003DMG400011950' => 'stu', 'PGSC0003DMG400023391' => 'stu', 'PGSC0003DMG400023985' => 'stu', 'PGSC0003DMG400026360' => 'stu', 'PGSC0003DMG400035711' => 'stu', 'PGSC0003DMG400037286' => 'stu', 'PGSC0003DMG402005881' => 'stu', 'Phvul.002G045400' => 'pvu', 'Phvul.006G216600' => 'pvu', 'Phvul.006G216700' => 'pvu', 'Phvul.006G216800' => 'pvu', 'Phvul.007G022500' => 'pvu', 'Phvul.011G094400' => 'pvu', 'Potri.001G470700' => 'ptr', 'Potri.003G015200' => 'ptr', 'Potri.004G202500' => 'ptr', 'Potri.004G218400' => 'ptr', 'Potri.008G020100' => 'ptr', 'Potri.008G153200' => 'ptr', 'Potri.009G163800' => 'ptr', 'Potri.010G087300' => 'ptr', 'Potri.010G239100' => 'ptr', 'Pp3c10_16100' => 'ppa', 'Pp3c10_16880' => 'ppa', 'Pp3c16_6230' => 'ppa', 'Pp3c17_18910' => 'ppa', 'Pp3c3_22119' => 'ppa', 'Pp3c3_22140' => 'ppa', 'Pp3c4_8159' => 'ppa', 'Pp3c4_8171' => 'ppa', 'Pp3c4_8330' => 'ppa', 'PRCOL_00004098' => 'pco', 'Prupe.1G013900' => 'ppe', 'Prupe.1G226300' => 'ppe', 'Prupe.1G573600' => 'ppe', 'Prupe.6G130100' => 'ppe', 'Psat3g090040' => 'psa', 'Psat4g210440' => 'psa', 'Psat6g231040' => 'psa', 'Psat6g231080' => 'psa', 'Psat7g063000' => 'psa', 'Psat7g188000' => 'psa', 'Psat7g188040' => 'psa', 'PSO017G0206' => 'pso', 'PSO170G0501' => 'pso', 'PSO170G6422' => 'pso', 'PSO210G7739' => 'pso', 'PSO339G1808' => 'pso', 'PSO339G6135' => 'pso', 'PSO384G0010' => 'pso', 'PSO384G0964' => 'pso', 'PSO761G0050' => 'pso', 'PSO782G4085' => 'pso', 'QL01p012264' => 'qlo', 'QL02p099491' => 'qlo', 'QL03p033868' => 'qlo', 'QL04p046678' => 'qlo', 'QL06p002448' => 'qlo', 'RcHm_v2.0_Chr4g0416181' => 'rch', 'RcHm_v2.0_Chr5g0044701' => 'rch', 'RcHm_v2.0_Chr6g0265781' => 'rch', 'RcHm_v2.0_Chr7g0221031' => 'rch', 'Rhsim04G0202000' => 'rsi', 'Rhsim11G0127300' => 'rsi', 'Rhsim13G0111800' => 'rsi', 'Sabra01G0165600' => 'sbr', 'Sabra03G0008300' => 'sbr', 'Sabra04G0136900' => 'sbr', 'Sabra08G0013400' => 'sbr', 'Sabra08G0116800' => 'sbr', 'Sabra09G0128000' => 'sbr', 'Sabra10G0055500' => 'sbr', 'Sabra10G0073300' => 'sbr', 'SalBow3G0385' => 'sbo', 'SalBow3G1119' => 'sbo', 'SalBow3G2005' => 'sbo', 'SalBow6G2563' => 'sbo', 'SalBow6G6386' => 'sbo', 'Sc06g0008800' => 'sci', 'Sc07g0004950' => 'sci', 'Sc09g0005340' => 'sci', 'Sc13g0004410' => 'sci', 'Sc21g0007090' => 'sci', 'Sed0009285' => 'sed', 'Sed0017583' => 'sed', 'Sed0019699' => 'sed', 'Sed0023107' => 'sed', 'SEGI_10916' => 'sgi', 'SEGI_16217' => 'sgi', 'SEGI_19466' => 'sgi', 'SEGI_41115' => 'sgi', 'SGA_v2.0_scaffold111G31534' => 'sas', 'SGA_v2.0_scaffold22G09864' => 'sas', 'SGA_v2.0_scaffold338G49219' => 'sas', 'SGA_v2.0_scaffold92G28298' => 'sas', 'SMO119G0064' => 'smo', 'SMO223G0038' => 'smo', 'SMO347G0584' => 'smo', 'SMO351G0010' => 'smo', 'SMO356G0404' => 'smo', 'Solyc01g103920.3' => 'sly', 'Solyc04g009710.2' => 'sly', 'Solyc05g055280.2' => 'sly', 'Solyc10g044520.3' => 'sly', 'Solyc10g075160.1' => 'sly', 'Solyc11g006910.3' => 'sly', 'Solyc11g068430.3' => 'sly', 'Sopen01g046310' => 'spe', 'Sopen03g001200' => 'spe', 'Sopen04g004830' => 'spe', 'Sopen05g033720' => 'spe', 'Sopen06g030740' => 'spe', 'Sopen10g013090' => 'spe', 'Sopen10g027630' => 'spe', 'Sopen10g027640' => 'spe', 'Sopen11g002820' => 'spe', 'Sopen11g027140' => 'spe', 'Sp1g09680' => 'spa', 'Sp2g03630' => 'spa', 'Sp4g10320' => 'spa', 'Sp6g33400' => 'spa', 'Sp7g13030' => 'spa', 'TAR365G0317' => 'tar', 'TAR376G0979' => 'tar', 'TAR623G1665' => 'tar', 'TAR633G2373' => 'tar', 'TAR636G1400' => 'tar', 'THA.LOC104800529' => 'tha', 'THA.LOC104808547' => 'tha', 'THA.LOC104809615' => 'tha', 'THA.LOC104815724' => 'tha', 'THA.LOC104818480' => 'tha', 'THA.LOC104819179' => 'tha', 'THA.LOC104822270' => 'tha', 'THA.LOC104826425' => 'tha', 'Thecc.02G089700' => 'tca', 'Thecc.04G232300' => 'tca', 'Thecc.09G283400' => 'tca', 'Thhalv10009020m.g' => 'esa', 'Thhalv10015506m.g' => 'esa', 'Thhalv10017364m.g' => 'esa', 'Thhalv10023742m.g' => 'esa', 'Thhalv10026483m.g' => 'esa', 'TPR.G17232' => 'tpr', 'TPR.G2133' => 'tpr', 'TPR.G2498' => 'tpr', 'TPR.G31942' => 'tpr', 'TPR.G37877' => 'tpr', 'TPR.G4571' => 'tpr', 'TWI14G1113' => 'twi', 'TWI15G0426' => 'twi', 'TWI31G1005' => 'twi', 'TWI38G0513' => 'twi', 'TWI38G1484' => 'twi', 'TWI73G1098' => 'twi', 'unitig_26.g10519' => 'ugi', 'unitig_736.g22395' => 'ugi', 'unitig_747.g21234' => 'ugi', 'unitig_747.g21942' => 'ugi', 'vmacro14351' => 'vma', 'VMungo0540G0082' => 'vmu', 'VMungo0540G0405' => 'vmu', 'VMungo0540G1486' => 'vmu', 'VMungo0540G1692' => 'vmu', 'VMungo0720G2473' => 'vmu', 'VMungo1127G1562' => 'vmu', 'VMungo1215G1918' => 'vmu', 'Zm00001eb052650' => 'zma', 'Zm00001eb063710' => 'zma', 'Zm00001eb083950' => 'zma', 'Zm00001eb174420' => 'zma', 'Zm00001eb260140' => 'zma', 'Zm00001eb260150' => 'zma', 'Zm00001eb260160' => 'zma', 'Zm00001eb348290' => 'zma', 'Zm00001eb366870' => 'zma', 'Zm00001eb421930' => 'zma' ) $gf_id = 'HOM05D001025' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001025' ) $data_identifier = 'HOM05D001025' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 19, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 2, 'amhyb' => (int) 4, 'aly' => (int) 4, 'aox' => (int) 4, 'arhy' => (int) 3, 'ath' => (int) 5, 'atr' => (int) 4, 'acertr' => (int) 3, 'cqu' => (int) 7, 'bca' => (int) 17, 'bol' => (int) 10, 'bra' => (int) 9, 'can' => (int) 10, 'cansat' => (int) 6, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 5, 'cbr' => (int) 5, 'ccan' => (int) 5, 'cde' => (int) 4, 'cfa' => (int) 3, 'ccl' => (int) 6, 'cil' => (int) 4, 'cla' => (int) 3, 'col' => (int) 3, 'cpa' => (int) 3, 'cre' => (int) 7, 'csa' => (int) 5, 'camsi' => (int) 9, 'dca' => (int) 4, 'din' => (int) 5, 'dzi' => (int) 7, 'eca' => (int) 6, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 12, 'fve' => (int) 4, 'gma' => (int) 12, 'ghi' => (int) 17, 'gra' => (int) 9, 'vvi' => (int) 2, 'han' => (int) 8, 'cav' => (int) 5, 'hma' => (int) 9, 'vpl' => (int) 4, 'sun' => (int) 2, 'lal' => (int) 9, 'lja' => (int) 5, 'lonja' => (int) 6, 'lsa' => (int) 3, 'mes' => (int) 8, 'mpo' => (int) 3, 'mbi' => (int) 4, 'mco' => (int) 3, 'mdo' => (int) 5, 'mtr' => (int) 7, 'cme' => (int) 6, 'egut' => (int) 7, 'ama' => (int) 3, 'nta' => (int) 12, 'nnu' => (int) 9, 'oeu' => (int) 4, 'osa' => (int) 7, 'pax' => (int) 9, 'pgr' => (int) 5, 'stu' => (int) 8, 'pvu' => (int) 6, 'ptr' => (int) 9, 'ppa' => (int) 9, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 7, 'pso' => (int) 10, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 3, 'sbr' => (int) 8, 'sbo' => (int) 5, 'sci' => (int) 5, 'sed' => (int) 4, 'sgi' => (int) 4, 'sas' => (int) 4, 'smo' => (int) 5, 'sly' => (int) 7, 'spe' => (int) 10, 'spa' => (int) 5, 'tar' => (int) 5, 'tha' => (int) 8, 'tca' => (int) 3, 'esa' => (int) 5, 'tpr' => (int) 6, 'twi' => (int) 6, 'ugi' => (int) 4, 'vma' => (int) 1, 'vmu' => (int) 7, 'zma' => (int) 10 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb421930' $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' => 'HOM05D001025', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '592', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p22650' => 'bna', 'A01p29720' => 'bna', 'A03p26560' => 'bna', 'A03p68820' => 'bna', 'A04p20980' => 'bna', 'A06p07730' => 'bna', 'A07p18260' => 'bna', 'A08p33710' => 'bna', 'A09p16970' => 'bna', 'A10p27490' => 'bna', 'Aa31LG1G17300' => 'aar', 'Aa31LG1G3910' => 'aar', 'Aa31LG2G9630' => 'aar', 'Aa31LG5G8360' => 'aar', 'Aa31LG9G2410' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4699' => 'aag', 'Actinidia23512' => 'ach', 'Actinidia37080' => 'ach', 'Ah.01g020380' => 'amhyb', 'Ah.08g215710' => 'amhyb', 'Ah.09g225110' => 'amhyb', 'Ah.10g036680' => 'amhyb', 'AL1G21940' => 'aly', 'AL2G15540' => 'aly', 'AL4G21520' => 'aly', 'AL7G40960' => 'aly', 'Aqoxy2G01191' => 'aox', 'Aqoxy2G03393' => 'aox', 'Aqoxy4G02775' => 'aox', 'Aqoxy6G00058' => 'aox', 'arahy.Tifrunner.gnm1.ann1.9X74H2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CW3FX9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R485W7' => 'arhy', 'AT1G10960' => 'ath', 'AT1G60950' => 'ath', 'AT2G27510' => 'ath', 'AT4G14890' => 'ath', 'AT5G10000' => 'ath', 'ATR0665G624' => 'atr', 'ATR0697G138' => 'atr', 'ATR0776G046' => 'atr', 'ATR1134G135' => 'atr', 'Atru.chr12.1025' => 'acertr', 'Atru.chr3.3241' => 'acertr', 'Atru.chr4.2460' => 'acertr', 'AUR62007427' => 'cqu', 'AUR62010960' => 'cqu', 'AUR62012201' => 'cqu', 'AUR62021470' => 'cqu', 'AUR62022834' => 'cqu', 'AUR62033635' => 'cqu', 'AUR62036186' => 'cqu', 'BcaB01g03077' => 'bca', 'BcaB02g10093' => 'bca', 'BcaB04g20295' => 'bca', 'BcaB06g28147' => 'bca', 'BcaB07g31253' => 'bca', 'BcaC01g04946' => 'bca', 'BcaC02g10614' => 'bca', 'BcaC02g10885' => 'bca', 'BcaC04g19356' => 'bca', 'BcaC04g22297' => 'bca', 'BcaC05g24977' => 'bca', 'BcaC06g31823' => 'bca', 'BcaC07g38633' => 'bca', 'BcaC09g49353' => 'bca', 'BcaC09g50168' => 'bca', 'BcaNung00322' => 'bca', 'BcaNung04769' => 'bca', 'BolC1t02753H' => 'bol', 'BolC1t03721H' => 'bol', 'BolC3t15525H' => 'bol', 'BolC4t23903H' => 'bol', 'BolC4t24231H' => 'bol', 'BolC4t27209H' => 'bol', 'BolC5t29671H' => 'bol', 'BolC8t49044H' => 'bol', 'BolC9t54999H' => 'bol', 'BolC9t59517H' => 'bol', 'BraA01t02178Z' => 'bra', 'BraA01t03099Z' => 'bra', 'BraA03t11867Z' => 'bra', 'BraA04t17667Z' => 'bra', 'BraA07t29542Z' => 'bra', 'BraA08t35287Z' => 'bra', 'BraA09t37334Z' => 'bra', 'BraA10t44801Z' => 'bra', 'BraSC39t46181Z' => 'bra', 'C01p28240' => 'bna', 'C01p37530' => 'bna', 'C03p31820' => 'bna', 'C04p24080' => 'bna', 'C04p25790' => 'bna', 'C04p56770' => 'bna', 'C05p09310' => 'bna', 'C09p21010' => 'bna', 'C09p67560' => 'bna', 'CAN.G1324.7' => 'can', 'CAN.G1358.10' => 'can', 'CAN.G1550.2' => 'can', 'CAN.G186.56' => 'can', 'CAN.G1965.1' => 'can', 'CAN.G645.15' => 'can', 'CAN.G798.26' => 'can', 'CAN.G798.27' => 'can', 'CAN.G798.29' => 'can', 'CAN.G919.31' => 'can', 'CANSAT11G0133' => 'cansat', 'CANSAT11G1171' => 'cansat', 'CANSAT11G2056' => 'cansat', 'CANSAT56G1202' => 'cansat', 'CANSAT56G1514' => 'cansat', 'CANSAT78G0455' => 'cansat', 'CARHR011190' => 'chi', 'CARHR051980' => 'chi', 'CARHR120170' => 'chi', 'CARHR203310' => 'chi', 'CARHR221490' => 'chi', 'Carub.0001s1054' => 'cru', 'Carub.0002s0431' => 'cru', 'Carub.0004s0818' => 'cru', 'Carub.0006s0846' => 'cru', 'Carub.0007s2722' => 'cru', 'Ca_00058_v3' => 'car', 'Ca_17831_v3' => 'car', 'Ca_19408_v3' => 'car', 'Ca_24397_v3' => 'car', 'Ca_25664_v3' => 'car', 'CBR_g21818' => 'cbr', 'CBR_g31195' => 'cbr', 'CBR_g32282' => 'cbr', 'CBR_g39599' => 'cbr', 'CBR_g49410' => 'cbr', 'Cc01_g09120' => 'ccan', 'Cc01_g09130' => 'ccan', 'Cc02_g09630' => 'ccan', 'Cc02_g22810' => 'ccan', 'Cc03_g03810' => 'ccan', 'CDE02G3718' => 'cde', 'CDE04G3183' => 'cde', 'CDE07G1046' => 'cde', 'CDE08G0480' => 'cde', 'Cfa005493' => 'cfa', 'Cfa010312' => 'cfa', 'Cfa015648' => 'cfa', 'Ciclev10002793m.g' => 'ccl', 'Ciclev10003356m.g' => 'ccl', 'Ciclev10006141m.g' => 'ccl', 'Ciclev10016676m.g' => 'ccl', 'Ciclev10017081m.g' => 'ccl', 'Ciclev10029499m.g' => 'ccl', 'CiPaw.01G166300' => 'cil', 'CiPaw.06G145600' => 'cil', 'CiPaw.13G040100' => 'cil', 'CiPaw.13G135800' => 'cil', 'ClCG01G012230' => 'cla', 'ClCG05G009510' => 'cla', 'ClCG08G008270' => 'cla', 'COL.COLO4_11763' => 'col', 'COL.COLO4_19876' => 'col', 'COL.COLO4_21481' => 'col', 'Cpa.g.sc118.34' => 'cpa', 'Cpa.g.sc32.13' => 'cpa', 'Cpa.g.sc58.103' => 'cpa', 'Cre03.g183850' => 'cre', 'Cre06.g306350' => 'cre', 'Cre07.g334800' => 'cre', 'Cre12.g487900' => 'cre', 'Cre14.g626700' => 'cre', 'Cre16.g658400' => 'cre', 'Cre17.g700950' => 'cre', 'CsaV3_1G014830' => 'csa', 'CsaV3_3G013320' => 'csa', 'CsaV3_3G019210' => 'csa', 'CsaV3_3G019220' => 'csa', 'CsaV3_6G004230' => 'csa', 'CSS0003773' => 'camsi', 'CSS0004563' => 'camsi', 'CSS0013949' => 'camsi', 'CSS0025971' => 'camsi', 'CSS0028570' => 'camsi', 'CSS0033127' => 'camsi', 'CSS0036051' => 'camsi', 'CSS0040087' => 'camsi', 'CSS0043179' => 'camsi', 'DCAR_006161' => 'dca', 'DCAR_010351' => 'dca', 'DCAR_012197' => 'dca', 'DCAR_024162' => 'dca', 'Dinv01030' => 'din', 'Dinv10924' => 'din', 'Dinv11835' => 'din', 'Dinv22841' => 'din', 'Dinv42553' => 'din', 'Duzib052G0560' => 'dzi', 'Duzib132G0389' => 'dzi', 'Duzib150G1181' => 'dzi', 'Duzib168G0623' => 'dzi', 'Duzib170G1036' => 'dzi', 'Duzib212G0200' => 'dzi', 'Duzib248G0194' => 'dzi', 'ECA232G2193' => 'eca', 'ECA233G0302' => 'eca', 'ECA234G2813' => 'eca', 'ECA234G4866' => 'eca', 'ECA240G3932' => 'eca', 'ECA248G0385' => 'eca', 'EL10Ac2g04781' => 'bvu', 'EL10Ac3g06445' => 'bvu', 'EL10Ac7g15825' => 'bvu', 'EL10Ac8g18550' => 'bvu', 'Eucgr.B03849' => 'egr', 'Eucgr.I02744' => 'egr', 'Eucgr.J00264' => 'egr', 'Eucgr.J00493' => 'egr', 'FAN04G2181' => 'fan', 'FAN07G2666' => 'fan', 'FAN11G0024' => 'fan', 'FAN12G1105' => 'fan', 'FAN13G0302' => 'fan', 'FAN15G2781' => 'fan', 'FAN16G1274' => 'fan', 'FAN17G2988' => 'fan', 'FAN18G2621' => 'fan', 'FAN21G0013' => 'fan', 'FAN22G1211' => 'fan', 'FAN25G3626' => 'fan', 'FvH4_2g09491' => 'fve', 'FvH4_3g24910' => 'fve', 'FvH4_4g15630' => 'fve', 'FvH4_5g28820' => 'fve', 'Glyma.01G238000' => 'gma', 'Glyma.05G168400' => 'gma', 'Glyma.08G126800' => 'gma', 'Glyma.08G188500' => 'gma', 'Glyma.10G278900' => 'gma', 'Glyma.11G005700' => 'gma', 'Glyma.11G183300' => 'gma', 'Glyma.12G089200' => 'gma', 'Glyma.12G169400' => 'gma', 'Glyma.12G169500' => 'gma', 'Glyma.12G169600' => 'gma', 'Glyma.20G110800' => 'gma', 'Gohir.A03G192900' => 'ghi', 'Gohir.A03G193000' => 'ghi', 'Gohir.A05G080700' => 'ghi', 'Gohir.A09G216000' => 'ghi', 'Gohir.A12G027700' => 'ghi', 'Gohir.A13G036200' => 'ghi', 'Gohir.A13G222600' => 'ghi', 'Gohir.D02G213900' => 'ghi', 'Gohir.D02G214000' => 'ghi', 'Gohir.D05G083700' => 'ghi', 'Gohir.D05G083800' => 'ghi', 'Gohir.D05G083850' => 'ghi', 'Gohir.D08G015400' => 'ghi', 'Gohir.D09G218400' => 'ghi', 'Gohir.D12G027100' => 'ghi', 'Gohir.D13G034500' => 'ghi', 'Gohir.D13G227400' => 'ghi', 'Gorai.005G241800' => 'gra', 'Gorai.005G241900' => 'gra', 'Gorai.006G239400' => 'gra', 'Gorai.008G027600' => 'gra', 'Gorai.009G085400' => 'gra', 'Gorai.009G085500' => 'gra', 'Gorai.013G039000' => 'gra', 'Gorai.013G194800' => 'gra', 'Gorai.013G257900' => 'gra', 'GSVIVG01000982001' => 'vvi', 'GSVIVG01017981001' => 'vvi', 'HanXRQChr01g0024061' => 'han', 'HanXRQChr09g0247831' => 'han', 'HanXRQChr10g0294611' => 'han', 'HanXRQChr10g0294621' => 'han', 'HanXRQChr11g0346821' => 'han', 'HanXRQChr13g0397461' => 'han', 'HanXRQChr16g0513651' => 'han', 'HanXRQChr16g0513701' => 'han', 'Haze_00897' => 'cav', 'Haze_01745' => 'cav', 'Haze_02486' => 'cav', 'Haze_02487' => 'cav', 'Haze_23374' => 'cav', 'Hma1.2p1_0578F.1_g182520' => 'hma', 'Hma1.2p1_0602F.1_g187350' => 'hma', 'Hma1.2p1_0602F.1_g187360' => 'hma', 'Hma1.2p1_0874F.1_g231320' => 'hma', 'Hma1.2p1_1197F.1_g266210' => 'hma', 'Hma1.2p1_1197F.1_g266220' => 'hma', 'Hma1.2p1_2167F.1_g315895' => 'hma', 'Hma1.2p1_2190F.1_g316640' => 'hma', 'Hma1.2p1_3645F.1_g337153' => 'hma', 'HPP92_004907' => 'vpl', 'HPP92_012134' => 'vpl', 'HPP92_025136' => 'vpl', 'HPP92_026087' => 'vpl', 'Hund06782' => 'sun', 'Hund06784' => 'sun', 'Lalb_Chr01g0004861' => 'lal', 'Lalb_Chr02g0140591' => 'lal', 'Lalb_Chr02g0140611' => 'lal', 'Lalb_Chr03g0028101' => 'lal', 'Lalb_Chr07g0185791' => 'lal', 'Lalb_Chr12g0204491' => 'lal', 'Lalb_Chr13g0295671' => 'lal', 'Lalb_Chr19g0136461' => 'lal', 'Lalb_Chr21g0309191' => 'lal', 'Lj1g0028158' => 'lja', 'Lj1P236T38' => 'lonja', 'Lj2C32G2' => 'lonja', 'Lj2P944T8' => 'lonja', 'Lj2P963T15' => 'lonja', 'Lj3g0011788' => 'lja', 'Lj4g0025027' => 'lja', 'Lj5P255T36' => 'lonja', 'Lj6g0018866' => 'lja', 'Lj6P608T31' => 'lonja', 'LjContig00408g0008879' => 'lja', 'Lsat_1_v5_gn_5_105820' => 'lsa', 'Lsat_1_v5_gn_6_38800' => 'lsa', 'Lsat_1_v5_gn_7_67141' => 'lsa', 'Manes.04G003400' => 'mes', 'Manes.07G020000' => 'mes', 'Manes.07G020100' => 'mes', 'Manes.07G020150' => 'mes', 'Manes.10G061500' => 'mes', 'Manes.10G123200' => 'mes', 'Manes.11G161900' => 'mes', 'Manes.15G029300' => 'mes', 'Mapoly0071s0018' => 'mpo', 'Mapoly0082s0023' => 'mpo', 'Mapoly3477s0001' => 'mpo', 'MBI05_g31233_MAGBIO' => 'mbi', 'MBI09_g05946_MAGBIO' => 'mbi', 'MBI09_g05947_MAGBIO' => 'mbi', 'MBI17_g08346_MAGBIO' => 'mbi', 'MCO04G038' => 'mco', 'MCO09G370' => 'mco', 'MCO13G605' => 'mco', 'MD00G1075500' => 'mdo', 'MD03G1144300' => 'mdo', 'MD08G1236800' => 'mdo', 'MD13G1193300' => 'mdo', 'MD15G1428700' => 'mdo', 'Medtr1g112030' => 'mtr', 'Medtr1g112050' => 'mtr', 'Medtr2g006290' => 'mtr', 'Medtr2g086510' => 'mtr', 'Medtr4g053120' => 'mtr', 'Medtr5g006320' => 'mtr', 'Medtr8g088720' => 'mtr', 'MELO3C004712.2' => 'cme', 'MELO3C006533.2' => 'cme', 'MELO3C019438.2' => 'cme', 'MELO3C019440.2' => 'cme', 'MELO3C019441.2' => 'cme', 'MELO3C019895.2' => 'cme', 'Migut.B00811' => 'egut', 'Migut.D02447' => 'egut', 'Migut.F00875' => 'egut', 'Migut.N00186' => 'egut', 'Migut.N01051' => 'egut', 'Migut.N02491' => 'egut', 'Migut.O00784' => 'egut', 'MSTRG.12367' => 'ama', 'MSTRG.18756' => 'ama', 'MSTRG.21042' => 'ama', 'Nitab4.5_0000559g0040' => 'nta', 'Nitab4.5_0000667g0190' => 'nta', 'Nitab4.5_0000755g0160' => 'nta', 'Nitab4.5_0001216g0080' => 'nta', 'Nitab4.5_0004069g0040' => 'nta', 'Nitab4.5_0004129g0010' => 'nta', 'Nitab4.5_0005744g0030' => 'nta', 'Nitab4.5_0006996g0030' => 'nta', 'Nitab4.5_0008971g0040' => 'nta', 'Nitab4.5_0009769g0020' => 'nta', 'Nitab4.5_0009833g0010' => 'nta', 'Nitab4.5_0013140g0020' => 'nta', 'Nn003s41376' => 'nnu', 'Nn1g01857' => 'nnu', 'Nn1g03611' => 'nnu', 'Nn1g06853' => 'nnu', 'Nn3g18360' => 'nnu', 'Nn4g26328' => 'nnu', 'Nn5g27531' => 'nnu', 'Nn6g34899' => 'nnu', 'Nn7g36299' => 'nnu', 'Oeu021485.1' => 'oeu', 'Oeu022433.1' => 'oeu', 'Oeu032111.1' => 'oeu', 'Oeu051608.1' => 'oeu', 'Os01g0860601' => 'osa', 'Os03g0659200' => 'osa', 'Os03g0835900' => 'osa', 'Os04g0412200' => 'osa', 'Os05g0443500' => 'osa', 'Os07g0251500' => 'osa', 'Os08g0104600' => 'osa', 'Peaxi162Scf00003g00047' => 'pax', 'Peaxi162Scf00003g00052' => 'pax', 'Peaxi162Scf00003g00394' => 'pax', 'Peaxi162Scf00091g00621' => 'pax', 'Peaxi162Scf00152g00146' => 'pax', 'Peaxi162Scf00173g00025' => 'pax', 'Peaxi162Scf00195g00102' => 'pax', 'Peaxi162Scf00402g00013' => 'pax', 'Peaxi162Scf00519g00618' => 'pax', 'PGR004G2838' => 'pgr', 'PGR044G2275' => 'pgr', 'PGR102G1377' => 'pgr', 'PGR119G1245' => 'pgr', 'PGR142G4449' => 'pgr', 'PGSC0003DMG400004532' => 'stu', 'PGSC0003DMG400011950' => 'stu', 'PGSC0003DMG400023391' => 'stu', 'PGSC0003DMG400023985' => 'stu', 'PGSC0003DMG400026360' => 'stu', 'PGSC0003DMG400035711' => 'stu', 'PGSC0003DMG400037286' => 'stu', 'PGSC0003DMG402005881' => 'stu', 'Phvul.002G045400' => 'pvu', 'Phvul.006G216600' => 'pvu', 'Phvul.006G216700' => 'pvu', 'Phvul.006G216800' => 'pvu', 'Phvul.007G022500' => 'pvu', 'Phvul.011G094400' => 'pvu', 'Potri.001G470700' => 'ptr', 'Potri.003G015200' => 'ptr', 'Potri.004G202500' => 'ptr', 'Potri.004G218400' => 'ptr', 'Potri.008G020100' => 'ptr', 'Potri.008G153200' => 'ptr', 'Potri.009G163800' => 'ptr', 'Potri.010G087300' => 'ptr', 'Potri.010G239100' => 'ptr', 'Pp3c10_16100' => 'ppa', 'Pp3c10_16880' => 'ppa', 'Pp3c16_6230' => 'ppa', 'Pp3c17_18910' => 'ppa', 'Pp3c3_22119' => 'ppa', 'Pp3c3_22140' => 'ppa', 'Pp3c4_8159' => 'ppa', 'Pp3c4_8171' => 'ppa', 'Pp3c4_8330' => 'ppa', 'PRCOL_00004098' => 'pco', 'Prupe.1G013900' => 'ppe', 'Prupe.1G226300' => 'ppe', 'Prupe.1G573600' => 'ppe', 'Prupe.6G130100' => 'ppe', 'Psat3g090040' => 'psa', 'Psat4g210440' => 'psa', 'Psat6g231040' => 'psa', 'Psat6g231080' => 'psa', 'Psat7g063000' => 'psa', 'Psat7g188000' => 'psa', 'Psat7g188040' => 'psa', 'PSO017G0206' => 'pso', 'PSO170G0501' => 'pso', 'PSO170G6422' => 'pso', 'PSO210G7739' => 'pso', 'PSO339G1808' => 'pso', 'PSO339G6135' => 'pso', 'PSO384G0010' => 'pso', 'PSO384G0964' => 'pso', 'PSO761G0050' => 'pso', 'PSO782G4085' => 'pso', 'QL01p012264' => 'qlo', 'QL02p099491' => 'qlo', 'QL03p033868' => 'qlo', 'QL04p046678' => 'qlo', 'QL06p002448' => 'qlo', 'RcHm_v2.0_Chr4g0416181' => 'rch', 'RcHm_v2.0_Chr5g0044701' => 'rch', 'RcHm_v2.0_Chr6g0265781' => 'rch', 'RcHm_v2.0_Chr7g0221031' => 'rch', 'Rhsim04G0202000' => 'rsi', 'Rhsim11G0127300' => 'rsi', 'Rhsim13G0111800' => 'rsi', 'Sabra01G0165600' => 'sbr', 'Sabra03G0008300' => 'sbr', 'Sabra04G0136900' => 'sbr', 'Sabra08G0013400' => 'sbr', 'Sabra08G0116800' => 'sbr', 'Sabra09G0128000' => 'sbr', 'Sabra10G0055500' => 'sbr', 'Sabra10G0073300' => 'sbr', 'SalBow3G0385' => 'sbo', 'SalBow3G1119' => 'sbo', 'SalBow3G2005' => 'sbo', 'SalBow6G2563' => 'sbo', 'SalBow6G6386' => 'sbo', 'Sc06g0008800' => 'sci', 'Sc07g0004950' => 'sci', 'Sc09g0005340' => 'sci', 'Sc13g0004410' => 'sci', 'Sc21g0007090' => 'sci', 'Sed0009285' => 'sed', 'Sed0017583' => 'sed', 'Sed0019699' => 'sed', 'Sed0023107' => 'sed', 'SEGI_10916' => 'sgi', 'SEGI_16217' => 'sgi', 'SEGI_19466' => 'sgi', 'SEGI_41115' => 'sgi', 'SGA_v2.0_scaffold111G31534' => 'sas', 'SGA_v2.0_scaffold22G09864' => 'sas', 'SGA_v2.0_scaffold338G49219' => 'sas', 'SGA_v2.0_scaffold92G28298' => 'sas', 'SMO119G0064' => 'smo', 'SMO223G0038' => 'smo', 'SMO347G0584' => 'smo', 'SMO351G0010' => 'smo', 'SMO356G0404' => 'smo', 'Solyc01g103920.3' => 'sly', 'Solyc04g009710.2' => 'sly', 'Solyc05g055280.2' => 'sly', 'Solyc10g044520.3' => 'sly', 'Solyc10g075160.1' => 'sly', 'Solyc11g006910.3' => 'sly', 'Solyc11g068430.3' => 'sly', 'Sopen01g046310' => 'spe', 'Sopen03g001200' => 'spe', 'Sopen04g004830' => 'spe', 'Sopen05g033720' => 'spe', 'Sopen06g030740' => 'spe', 'Sopen10g013090' => 'spe', 'Sopen10g027630' => 'spe', 'Sopen10g027640' => 'spe', 'Sopen11g002820' => 'spe', 'Sopen11g027140' => 'spe', 'Sp1g09680' => 'spa', 'Sp2g03630' => 'spa', 'Sp4g10320' => 'spa', 'Sp6g33400' => 'spa', 'Sp7g13030' => 'spa', 'TAR365G0317' => 'tar', 'TAR376G0979' => 'tar', 'TAR623G1665' => 'tar', 'TAR633G2373' => 'tar', 'TAR636G1400' => 'tar', 'THA.LOC104800529' => 'tha', 'THA.LOC104808547' => 'tha', 'THA.LOC104809615' => 'tha', 'THA.LOC104815724' => 'tha', 'THA.LOC104818480' => 'tha', 'THA.LOC104819179' => 'tha', 'THA.LOC104822270' => 'tha', 'THA.LOC104826425' => 'tha', 'Thecc.02G089700' => 'tca', 'Thecc.04G232300' => 'tca', 'Thecc.09G283400' => 'tca', 'Thhalv10009020m.g' => 'esa', 'Thhalv10015506m.g' => 'esa', 'Thhalv10017364m.g' => 'esa', 'Thhalv10023742m.g' => 'esa', 'Thhalv10026483m.g' => 'esa', 'TPR.G17232' => 'tpr', 'TPR.G2133' => 'tpr', 'TPR.G2498' => 'tpr', 'TPR.G31942' => 'tpr', 'TPR.G37877' => 'tpr', 'TPR.G4571' => 'tpr', 'TWI14G1113' => 'twi', 'TWI15G0426' => 'twi', 'TWI31G1005' => 'twi', 'TWI38G0513' => 'twi', 'TWI38G1484' => 'twi', 'TWI73G1098' => 'twi', 'unitig_26.g10519' => 'ugi', 'unitig_736.g22395' => 'ugi', 'unitig_747.g21234' => 'ugi', 'unitig_747.g21942' => 'ugi', 'vmacro14351' => 'vma', 'VMungo0540G0082' => 'vmu', 'VMungo0540G0405' => 'vmu', 'VMungo0540G1486' => 'vmu', 'VMungo0540G1692' => 'vmu', 'VMungo0720G2473' => 'vmu', 'VMungo1127G1562' => 'vmu', 'VMungo1215G1918' => 'vmu', 'Zm00001eb052650' => 'zma', 'Zm00001eb063710' => 'zma', 'Zm00001eb083950' => 'zma', 'Zm00001eb174420' => 'zma', 'Zm00001eb260140' => 'zma', 'Zm00001eb260150' => 'zma', 'Zm00001eb260160' => 'zma', 'Zm00001eb348290' => 'zma', 'Zm00001eb366870' => 'zma', 'Zm00001eb421930' => 'zma' ), 'gf_id' => 'HOM05D001025', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001025' ), 'data_identifier' => 'HOM05D001025', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001025', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '592', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p22650' => 'bna', 'A01p29720' => 'bna', 'A03p26560' => 'bna', 'A03p68820' => 'bna', 'A04p20980' => 'bna', 'A06p07730' => 'bna', 'A07p18260' => 'bna', 'A08p33710' => 'bna', 'A09p16970' => 'bna', 'A10p27490' => 'bna', 'Aa31LG1G17300' => 'aar', 'Aa31LG1G3910' => 'aar', 'Aa31LG2G9630' => 'aar', 'Aa31LG5G8360' => 'aar', 'Aa31LG9G2410' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4699' => 'aag', 'Actinidia23512' => 'ach', 'Actinidia37080' => 'ach', 'Ah.01g020380' => 'amhyb', 'Ah.08g215710' => 'amhyb', 'Ah.09g225110' => 'amhyb', 'Ah.10g036680' => 'amhyb', 'AL1G21940' => 'aly', 'AL2G15540' => 'aly', 'AL4G21520' => 'aly', 'AL7G40960' => 'aly', 'Aqoxy2G01191' => 'aox', 'Aqoxy2G03393' => 'aox', 'Aqoxy4G02775' => 'aox', 'Aqoxy6G00058' => 'aox', 'arahy.Tifrunner.gnm1.ann1.9X74H2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CW3FX9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R485W7' => 'arhy', 'AT1G10960' => 'ath', 'AT1G60950' => 'ath', 'AT2G27510' => 'ath', 'AT4G14890' => 'ath', 'AT5G10000' => 'ath', 'ATR0665G624' => 'atr', 'ATR0697G138' => 'atr', 'ATR0776G046' => 'atr', 'ATR1134G135' => 'atr', 'Atru.chr12.1025' => 'acertr', 'Atru.chr3.3241' => 'acertr', 'Atru.chr4.2460' => 'acertr', 'AUR62007427' => 'cqu', 'AUR62010960' => 'cqu', 'AUR62012201' => 'cqu', 'AUR62021470' => 'cqu', 'AUR62022834' => 'cqu', 'AUR62033635' => 'cqu', 'AUR62036186' => 'cqu', 'BcaB01g03077' => 'bca', 'BcaB02g10093' => 'bca', 'BcaB04g20295' => 'bca', 'BcaB06g28147' => 'bca', 'BcaB07g31253' => 'bca', 'BcaC01g04946' => 'bca', 'BcaC02g10614' => 'bca', 'BcaC02g10885' => 'bca', 'BcaC04g19356' => 'bca', 'BcaC04g22297' => 'bca', 'BcaC05g24977' => 'bca', 'BcaC06g31823' => 'bca', 'BcaC07g38633' => 'bca', 'BcaC09g49353' => 'bca', 'BcaC09g50168' => 'bca', 'BcaNung00322' => 'bca', 'BcaNung04769' => 'bca', 'BolC1t02753H' => 'bol', 'BolC1t03721H' => 'bol', 'BolC3t15525H' => 'bol', 'BolC4t23903H' => 'bol', 'BolC4t24231H' => 'bol', 'BolC4t27209H' => 'bol', 'BolC5t29671H' => 'bol', 'BolC8t49044H' => 'bol', 'BolC9t54999H' => 'bol', 'BolC9t59517H' => 'bol', 'BraA01t02178Z' => 'bra', 'BraA01t03099Z' => 'bra', 'BraA03t11867Z' => 'bra', 'BraA04t17667Z' => 'bra', 'BraA07t29542Z' => 'bra', 'BraA08t35287Z' => 'bra', 'BraA09t37334Z' => 'bra', 'BraA10t44801Z' => 'bra', 'BraSC39t46181Z' => 'bra', 'C01p28240' => 'bna', 'C01p37530' => 'bna', 'C03p31820' => 'bna', 'C04p24080' => 'bna', 'C04p25790' => 'bna', 'C04p56770' => 'bna', 'C05p09310' => 'bna', 'C09p21010' => 'bna', 'C09p67560' => 'bna', 'CAN.G1324.7' => 'can', 'CAN.G1358.10' => 'can', 'CAN.G1550.2' => 'can', 'CAN.G186.56' => 'can', 'CAN.G1965.1' => 'can', 'CAN.G645.15' => 'can', 'CAN.G798.26' => 'can', 'CAN.G798.27' => 'can', 'CAN.G798.29' => 'can', 'CAN.G919.31' => 'can', 'CANSAT11G0133' => 'cansat', 'CANSAT11G1171' => 'cansat', 'CANSAT11G2056' => 'cansat', 'CANSAT56G1202' => 'cansat', 'CANSAT56G1514' => 'cansat', 'CANSAT78G0455' => 'cansat', 'CARHR011190' => 'chi', 'CARHR051980' => 'chi', 'CARHR120170' => 'chi', 'CARHR203310' => 'chi', 'CARHR221490' => 'chi', 'Carub.0001s1054' => 'cru', 'Carub.0002s0431' => 'cru', 'Carub.0004s0818' => 'cru', 'Carub.0006s0846' => 'cru', 'Carub.0007s2722' => 'cru', 'Ca_00058_v3' => 'car', 'Ca_17831_v3' => 'car', 'Ca_19408_v3' => 'car', 'Ca_24397_v3' => 'car', 'Ca_25664_v3' => 'car', 'CBR_g21818' => 'cbr', 'CBR_g31195' => 'cbr', 'CBR_g32282' => 'cbr', 'CBR_g39599' => 'cbr', 'CBR_g49410' => 'cbr', 'Cc01_g09120' => 'ccan', 'Cc01_g09130' => 'ccan', 'Cc02_g09630' => 'ccan', 'Cc02_g22810' => 'ccan', 'Cc03_g03810' => 'ccan', 'CDE02G3718' => 'cde', 'CDE04G3183' => 'cde', 'CDE07G1046' => 'cde', 'CDE08G0480' => 'cde', 'Cfa005493' => 'cfa', 'Cfa010312' => 'cfa', 'Cfa015648' => 'cfa', 'Ciclev10002793m.g' => 'ccl', 'Ciclev10003356m.g' => 'ccl', 'Ciclev10006141m.g' => 'ccl', 'Ciclev10016676m.g' => 'ccl', 'Ciclev10017081m.g' => 'ccl', 'Ciclev10029499m.g' => 'ccl', 'CiPaw.01G166300' => 'cil', 'CiPaw.06G145600' => 'cil', 'CiPaw.13G040100' => 'cil', 'CiPaw.13G135800' => 'cil', 'ClCG01G012230' => 'cla', 'ClCG05G009510' => 'cla', 'ClCG08G008270' => 'cla', 'COL.COLO4_11763' => 'col', 'COL.COLO4_19876' => 'col', 'COL.COLO4_21481' => 'col', 'Cpa.g.sc118.34' => 'cpa', 'Cpa.g.sc32.13' => 'cpa', 'Cpa.g.sc58.103' => 'cpa', 'Cre03.g183850' => 'cre', 'Cre06.g306350' => 'cre', 'Cre07.g334800' => 'cre', 'Cre12.g487900' => 'cre', 'Cre14.g626700' => 'cre', 'Cre16.g658400' => 'cre', 'Cre17.g700950' => 'cre', 'CsaV3_1G014830' => 'csa', 'CsaV3_3G013320' => 'csa', 'CsaV3_3G019210' => 'csa', 'CsaV3_3G019220' => 'csa', 'CsaV3_6G004230' => 'csa', 'CSS0003773' => 'camsi', 'CSS0004563' => 'camsi', 'CSS0013949' => 'camsi', 'CSS0025971' => 'camsi', 'CSS0028570' => 'camsi', 'CSS0033127' => 'camsi', 'CSS0036051' => 'camsi', 'CSS0040087' => 'camsi', 'CSS0043179' => 'camsi', 'DCAR_006161' => 'dca', 'DCAR_010351' => 'dca', 'DCAR_012197' => 'dca', 'DCAR_024162' => 'dca', 'Dinv01030' => 'din', 'Dinv10924' => 'din', 'Dinv11835' => 'din', 'Dinv22841' => 'din', 'Dinv42553' => 'din', 'Duzib052G0560' => 'dzi', 'Duzib132G0389' => 'dzi', 'Duzib150G1181' => 'dzi', 'Duzib168G0623' => 'dzi', 'Duzib170G1036' => 'dzi', 'Duzib212G0200' => 'dzi', 'Duzib248G0194' => 'dzi', 'ECA232G2193' => 'eca', 'ECA233G0302' => 'eca', 'ECA234G2813' => 'eca', 'ECA234G4866' => 'eca', 'ECA240G3932' => 'eca', 'ECA248G0385' => 'eca', 'EL10Ac2g04781' => 'bvu', 'EL10Ac3g06445' => 'bvu', 'EL10Ac7g15825' => 'bvu', 'EL10Ac8g18550' => 'bvu', 'Eucgr.B03849' => 'egr', 'Eucgr.I02744' => 'egr', 'Eucgr.J00264' => 'egr', 'Eucgr.J00493' => 'egr', 'FAN04G2181' => 'fan', 'FAN07G2666' => 'fan', 'FAN11G0024' => 'fan', 'FAN12G1105' => 'fan', 'FAN13G0302' => 'fan', 'FAN15G2781' => 'fan', 'FAN16G1274' => 'fan', 'FAN17G2988' => 'fan', 'FAN18G2621' => 'fan', 'FAN21G0013' => 'fan', 'FAN22G1211' => 'fan', 'FAN25G3626' => 'fan', 'FvH4_2g09491' => 'fve', 'FvH4_3g24910' => 'fve', 'FvH4_4g15630' => 'fve', 'FvH4_5g28820' => 'fve', 'Glyma.01G238000' => 'gma', 'Glyma.05G168400' => 'gma', 'Glyma.08G126800' => 'gma', 'Glyma.08G188500' => 'gma', 'Glyma.10G278900' => 'gma', 'Glyma.11G005700' => 'gma', 'Glyma.11G183300' => 'gma', 'Glyma.12G089200' => 'gma', 'Glyma.12G169400' => 'gma', 'Glyma.12G169500' => 'gma', 'Glyma.12G169600' => 'gma', 'Glyma.20G110800' => 'gma', 'Gohir.A03G192900' => 'ghi', 'Gohir.A03G193000' => 'ghi', 'Gohir.A05G080700' => 'ghi', 'Gohir.A09G216000' => 'ghi', 'Gohir.A12G027700' => 'ghi', 'Gohir.A13G036200' => 'ghi', 'Gohir.A13G222600' => 'ghi', 'Gohir.D02G213900' => 'ghi', 'Gohir.D02G214000' => 'ghi', 'Gohir.D05G083700' => 'ghi', 'Gohir.D05G083800' => 'ghi', 'Gohir.D05G083850' => 'ghi', 'Gohir.D08G015400' => 'ghi', 'Gohir.D09G218400' => 'ghi', 'Gohir.D12G027100' => 'ghi', 'Gohir.D13G034500' => 'ghi', 'Gohir.D13G227400' => 'ghi', 'Gorai.005G241800' => 'gra', 'Gorai.005G241900' => 'gra', 'Gorai.006G239400' => 'gra', 'Gorai.008G027600' => 'gra', 'Gorai.009G085400' => 'gra', 'Gorai.009G085500' => 'gra', 'Gorai.013G039000' => 'gra', 'Gorai.013G194800' => 'gra', 'Gorai.013G257900' => 'gra', 'GSVIVG01000982001' => 'vvi', 'GSVIVG01017981001' => 'vvi', 'HanXRQChr01g0024061' => 'han', 'HanXRQChr09g0247831' => 'han', 'HanXRQChr10g0294611' => 'han', 'HanXRQChr10g0294621' => 'han', 'HanXRQChr11g0346821' => 'han', 'HanXRQChr13g0397461' => 'han', 'HanXRQChr16g0513651' => 'han', 'HanXRQChr16g0513701' => 'han', 'Haze_00897' => 'cav', 'Haze_01745' => 'cav', 'Haze_02486' => 'cav', 'Haze_02487' => 'cav', 'Haze_23374' => 'cav', 'Hma1.2p1_0578F.1_g182520' => 'hma', 'Hma1.2p1_0602F.1_g187350' => 'hma', 'Hma1.2p1_0602F.1_g187360' => 'hma', 'Hma1.2p1_0874F.1_g231320' => 'hma', 'Hma1.2p1_1197F.1_g266210' => 'hma', 'Hma1.2p1_1197F.1_g266220' => 'hma', 'Hma1.2p1_2167F.1_g315895' => 'hma', 'Hma1.2p1_2190F.1_g316640' => 'hma', 'Hma1.2p1_3645F.1_g337153' => 'hma', 'HPP92_004907' => 'vpl', 'HPP92_012134' => 'vpl', 'HPP92_025136' => 'vpl', 'HPP92_026087' => 'vpl', 'Hund06782' => 'sun', 'Hund06784' => 'sun', 'Lalb_Chr01g0004861' => 'lal', 'Lalb_Chr02g0140591' => 'lal', 'Lalb_Chr02g0140611' => 'lal', 'Lalb_Chr03g0028101' => 'lal', 'Lalb_Chr07g0185791' => 'lal', 'Lalb_Chr12g0204491' => 'lal', 'Lalb_Chr13g0295671' => 'lal', 'Lalb_Chr19g0136461' => 'lal', 'Lalb_Chr21g0309191' => 'lal', 'Lj1g0028158' => 'lja', 'Lj1P236T38' => 'lonja', 'Lj2C32G2' => 'lonja', 'Lj2P944T8' => 'lonja', 'Lj2P963T15' => 'lonja', 'Lj3g0011788' => 'lja', 'Lj4g0025027' => 'lja', 'Lj5P255T36' => 'lonja', 'Lj6g0018866' => 'lja', 'Lj6P608T31' => 'lonja', 'LjContig00408g0008879' => 'lja', 'Lsat_1_v5_gn_5_105820' => 'lsa', 'Lsat_1_v5_gn_6_38800' => 'lsa', 'Lsat_1_v5_gn_7_67141' => 'lsa', 'Manes.04G003400' => 'mes', 'Manes.07G020000' => 'mes', 'Manes.07G020100' => 'mes', 'Manes.07G020150' => 'mes', 'Manes.10G061500' => 'mes', 'Manes.10G123200' => 'mes', 'Manes.11G161900' => 'mes', 'Manes.15G029300' => 'mes', 'Mapoly0071s0018' => 'mpo', 'Mapoly0082s0023' => 'mpo', 'Mapoly3477s0001' => 'mpo', 'MBI05_g31233_MAGBIO' => 'mbi', 'MBI09_g05946_MAGBIO' => 'mbi', 'MBI09_g05947_MAGBIO' => 'mbi', 'MBI17_g08346_MAGBIO' => 'mbi', 'MCO04G038' => 'mco', 'MCO09G370' => 'mco', 'MCO13G605' => 'mco', 'MD00G1075500' => 'mdo', 'MD03G1144300' => 'mdo', 'MD08G1236800' => 'mdo', 'MD13G1193300' => 'mdo', 'MD15G1428700' => 'mdo', 'Medtr1g112030' => 'mtr', 'Medtr1g112050' => 'mtr', 'Medtr2g006290' => 'mtr', 'Medtr2g086510' => 'mtr', 'Medtr4g053120' => 'mtr', 'Medtr5g006320' => 'mtr', 'Medtr8g088720' => 'mtr', 'MELO3C004712.2' => 'cme', 'MELO3C006533.2' => 'cme', 'MELO3C019438.2' => 'cme', 'MELO3C019440.2' => 'cme', 'MELO3C019441.2' => 'cme', 'MELO3C019895.2' => 'cme', 'Migut.B00811' => 'egut', 'Migut.D02447' => 'egut', 'Migut.F00875' => 'egut', 'Migut.N00186' => 'egut', 'Migut.N01051' => 'egut', 'Migut.N02491' => 'egut', 'Migut.O00784' => 'egut', 'MSTRG.12367' => 'ama', 'MSTRG.18756' => 'ama', 'MSTRG.21042' => 'ama', 'Nitab4.5_0000559g0040' => 'nta', 'Nitab4.5_0000667g0190' => 'nta', 'Nitab4.5_0000755g0160' => 'nta', 'Nitab4.5_0001216g0080' => 'nta', 'Nitab4.5_0004069g0040' => 'nta', 'Nitab4.5_0004129g0010' => 'nta', 'Nitab4.5_0005744g0030' => 'nta', 'Nitab4.5_0006996g0030' => 'nta', 'Nitab4.5_0008971g0040' => 'nta', 'Nitab4.5_0009769g0020' => 'nta', 'Nitab4.5_0009833g0010' => 'nta', 'Nitab4.5_0013140g0020' => 'nta', 'Nn003s41376' => 'nnu', 'Nn1g01857' => 'nnu', 'Nn1g03611' => 'nnu', 'Nn1g06853' => 'nnu', 'Nn3g18360' => 'nnu', 'Nn4g26328' => 'nnu', 'Nn5g27531' => 'nnu', 'Nn6g34899' => 'nnu', 'Nn7g36299' => 'nnu', 'Oeu021485.1' => 'oeu', 'Oeu022433.1' => 'oeu', 'Oeu032111.1' => 'oeu', 'Oeu051608.1' => 'oeu', 'Os01g0860601' => 'osa', 'Os03g0659200' => 'osa', 'Os03g0835900' => 'osa', 'Os04g0412200' => 'osa', 'Os05g0443500' => 'osa', 'Os07g0251500' => 'osa', 'Os08g0104600' => 'osa', 'Peaxi162Scf00003g00047' => 'pax', 'Peaxi162Scf00003g00052' => 'pax', 'Peaxi162Scf00003g00394' => 'pax', 'Peaxi162Scf00091g00621' => 'pax', 'Peaxi162Scf00152g00146' => 'pax', 'Peaxi162Scf00173g00025' => 'pax', 'Peaxi162Scf00195g00102' => 'pax', 'Peaxi162Scf00402g00013' => 'pax', 'Peaxi162Scf00519g00618' => 'pax', 'PGR004G2838' => 'pgr', 'PGR044G2275' => 'pgr', 'PGR102G1377' => 'pgr', 'PGR119G1245' => 'pgr', 'PGR142G4449' => 'pgr', 'PGSC0003DMG400004532' => 'stu', 'PGSC0003DMG400011950' => 'stu', 'PGSC0003DMG400023391' => 'stu', 'PGSC0003DMG400023985' => 'stu', 'PGSC0003DMG400026360' => 'stu', 'PGSC0003DMG400035711' => 'stu', 'PGSC0003DMG400037286' => 'stu', 'PGSC0003DMG402005881' => 'stu', 'Phvul.002G045400' => 'pvu', 'Phvul.006G216600' => 'pvu', 'Phvul.006G216700' => 'pvu', 'Phvul.006G216800' => 'pvu', 'Phvul.007G022500' => 'pvu', 'Phvul.011G094400' => 'pvu', 'Potri.001G470700' => 'ptr', 'Potri.003G015200' => 'ptr', 'Potri.004G202500' => 'ptr', 'Potri.004G218400' => 'ptr', 'Potri.008G020100' => 'ptr', 'Potri.008G153200' => 'ptr', 'Potri.009G163800' => 'ptr', 'Potri.010G087300' => 'ptr', 'Potri.010G239100' => 'ptr', 'Pp3c10_16100' => 'ppa', 'Pp3c10_16880' => 'ppa', 'Pp3c16_6230' => 'ppa', 'Pp3c17_18910' => 'ppa', 'Pp3c3_22119' => 'ppa', 'Pp3c3_22140' => 'ppa', 'Pp3c4_8159' => 'ppa', 'Pp3c4_8171' => 'ppa', 'Pp3c4_8330' => 'ppa', 'PRCOL_00004098' => 'pco', 'Prupe.1G013900' => 'ppe', 'Prupe.1G226300' => 'ppe', 'Prupe.1G573600' => 'ppe', 'Prupe.6G130100' => 'ppe', 'Psat3g090040' => 'psa', 'Psat4g210440' => 'psa', 'Psat6g231040' => 'psa', 'Psat6g231080' => 'psa', 'Psat7g063000' => 'psa', 'Psat7g188000' => 'psa', 'Psat7g188040' => 'psa', 'PSO017G0206' => 'pso', 'PSO170G0501' => 'pso', 'PSO170G6422' => 'pso', 'PSO210G7739' => 'pso', 'PSO339G1808' => 'pso', 'PSO339G6135' => 'pso', 'PSO384G0010' => 'pso', 'PSO384G0964' => 'pso', 'PSO761G0050' => 'pso', 'PSO782G4085' => 'pso', 'QL01p012264' => 'qlo', 'QL02p099491' => 'qlo', 'QL03p033868' => 'qlo', 'QL04p046678' => 'qlo', 'QL06p002448' => 'qlo', 'RcHm_v2.0_Chr4g0416181' => 'rch', 'RcHm_v2.0_Chr5g0044701' => 'rch', 'RcHm_v2.0_Chr6g0265781' => 'rch', 'RcHm_v2.0_Chr7g0221031' => 'rch', 'Rhsim04G0202000' => 'rsi', 'Rhsim11G0127300' => 'rsi', 'Rhsim13G0111800' => 'rsi', 'Sabra01G0165600' => 'sbr', 'Sabra03G0008300' => 'sbr', 'Sabra04G0136900' => 'sbr', 'Sabra08G0013400' => 'sbr', 'Sabra08G0116800' => 'sbr', 'Sabra09G0128000' => 'sbr', 'Sabra10G0055500' => 'sbr', 'Sabra10G0073300' => 'sbr', 'SalBow3G0385' => 'sbo', 'SalBow3G1119' => 'sbo', 'SalBow3G2005' => 'sbo', 'SalBow6G2563' => 'sbo', 'SalBow6G6386' => 'sbo', 'Sc06g0008800' => 'sci', 'Sc07g0004950' => 'sci', 'Sc09g0005340' => 'sci', 'Sc13g0004410' => 'sci', 'Sc21g0007090' => 'sci', 'Sed0009285' => 'sed', 'Sed0017583' => 'sed', 'Sed0019699' => 'sed', 'Sed0023107' => 'sed', 'SEGI_10916' => 'sgi', 'SEGI_16217' => 'sgi', 'SEGI_19466' => 'sgi', 'SEGI_41115' => 'sgi', 'SGA_v2.0_scaffold111G31534' => 'sas', 'SGA_v2.0_scaffold22G09864' => 'sas', 'SGA_v2.0_scaffold338G49219' => 'sas', 'SGA_v2.0_scaffold92G28298' => 'sas', 'SMO119G0064' => 'smo', 'SMO223G0038' => 'smo', 'SMO347G0584' => 'smo', 'SMO351G0010' => 'smo', 'SMO356G0404' => 'smo', 'Solyc01g103920.3' => 'sly', 'Solyc04g009710.2' => 'sly', 'Solyc05g055280.2' => 'sly', 'Solyc10g044520.3' => 'sly', 'Solyc10g075160.1' => 'sly', 'Solyc11g006910.3' => 'sly', 'Solyc11g068430.3' => 'sly', 'Sopen01g046310' => 'spe', 'Sopen03g001200' => 'spe', 'Sopen04g004830' => 'spe', 'Sopen05g033720' => 'spe', 'Sopen06g030740' => 'spe', 'Sopen10g013090' => 'spe', 'Sopen10g027630' => 'spe', 'Sopen10g027640' => 'spe', 'Sopen11g002820' => 'spe', 'Sopen11g027140' => 'spe', 'Sp1g09680' => 'spa', 'Sp2g03630' => 'spa', 'Sp4g10320' => 'spa', 'Sp6g33400' => 'spa', 'Sp7g13030' => 'spa', 'TAR365G0317' => 'tar', 'TAR376G0979' => 'tar', 'TAR623G1665' => 'tar', 'TAR633G2373' => 'tar', 'TAR636G1400' => 'tar', 'THA.LOC104800529' => 'tha', 'THA.LOC104808547' => 'tha', 'THA.LOC104809615' => 'tha', 'THA.LOC104815724' => 'tha', 'THA.LOC104818480' => 'tha', 'THA.LOC104819179' => 'tha', 'THA.LOC104822270' => 'tha', 'THA.LOC104826425' => 'tha', 'Thecc.02G089700' => 'tca', 'Thecc.04G232300' => 'tca', 'Thecc.09G283400' => 'tca', 'Thhalv10009020m.g' => 'esa', 'Thhalv10015506m.g' => 'esa', 'Thhalv10017364m.g' => 'esa', 'Thhalv10023742m.g' => 'esa', 'Thhalv10026483m.g' => 'esa', 'TPR.G17232' => 'tpr', 'TPR.G2133' => 'tpr', 'TPR.G2498' => 'tpr', 'TPR.G31942' => 'tpr', 'TPR.G37877' => 'tpr', 'TPR.G4571' => 'tpr', 'TWI14G1113' => 'twi', 'TWI15G0426' => 'twi', 'TWI31G1005' => 'twi', 'TWI38G0513' => 'twi', 'TWI38G1484' => 'twi', 'TWI73G1098' => 'twi', 'unitig_26.g10519' => 'ugi', 'unitig_736.g22395' => 'ugi', 'unitig_747.g21234' => 'ugi', 'unitig_747.g21942' => 'ugi', 'vmacro14351' => 'vma', 'VMungo0540G0082' => 'vmu', 'VMungo0540G0405' => 'vmu', 'VMungo0540G1486' => 'vmu', 'VMungo0540G1692' => 'vmu', 'VMungo0720G2473' => 'vmu', 'VMungo1127G1562' => 'vmu', 'VMungo1215G1918' => 'vmu', 'Zm00001eb052650' => 'zma', 'Zm00001eb063710' => 'zma', 'Zm00001eb083950' => 'zma', 'Zm00001eb174420' => 'zma', 'Zm00001eb260140' => 'zma', 'Zm00001eb260150' => 'zma', 'Zm00001eb260160' => 'zma', 'Zm00001eb348290' => 'zma', 'Zm00001eb366870' => 'zma', 'Zm00001eb421930' => 'zma' ) $gf_id = 'HOM05D001025' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001025' ) $data_identifier = 'HOM05D001025' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 19, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 2, 'amhyb' => (int) 4, 'aly' => (int) 4, 'aox' => (int) 4, 'arhy' => (int) 3, 'ath' => (int) 5, 'atr' => (int) 4, 'acertr' => (int) 3, 'cqu' => (int) 7, 'bca' => (int) 17, 'bol' => (int) 10, 'bra' => (int) 9, 'can' => (int) 10, 'cansat' => (int) 6, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 5, 'cbr' => (int) 5, 'ccan' => (int) 5, 'cde' => (int) 4, 'cfa' => (int) 3, 'ccl' => (int) 6, 'cil' => (int) 4, 'cla' => (int) 3, 'col' => (int) 3, 'cpa' => (int) 3, 'cre' => (int) 7, 'csa' => (int) 5, 'camsi' => (int) 9, 'dca' => (int) 4, 'din' => (int) 5, 'dzi' => (int) 7, 'eca' => (int) 6, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 12, 'fve' => (int) 4, 'gma' => (int) 12, 'ghi' => (int) 17, 'gra' => (int) 9, 'vvi' => (int) 2, 'han' => (int) 8, 'cav' => (int) 5, 'hma' => (int) 9, 'vpl' => (int) 4, 'sun' => (int) 2, 'lal' => (int) 9, 'lja' => (int) 5, 'lonja' => (int) 6, 'lsa' => (int) 3, 'mes' => (int) 8, 'mpo' => (int) 3, 'mbi' => (int) 4, 'mco' => (int) 3, 'mdo' => (int) 5, 'mtr' => (int) 7, 'cme' => (int) 6, 'egut' => (int) 7, 'ama' => (int) 3, 'nta' => (int) 12, 'nnu' => (int) 9, 'oeu' => (int) 4, 'osa' => (int) 7, 'pax' => (int) 9, 'pgr' => (int) 5, 'stu' => (int) 8, 'pvu' => (int) 6, 'ptr' => (int) 9, 'ppa' => (int) 9, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 7, 'pso' => (int) 10, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 3, 'sbr' => (int) 8, 'sbo' => (int) 5, 'sci' => (int) 5, 'sed' => (int) 4, 'sgi' => (int) 4, 'sas' => (int) 4, 'smo' => (int) 5, 'sly' => (int) 7, 'spe' => (int) 10, 'spa' => (int) 5, 'tar' => (int) 5, 'tha' => (int) 8, 'tca' => (int) 3, 'esa' => (int) 5, 'tpr' => (int) 6, 'twi' => (int) 6, 'ugi' => (int) 4, 'vma' => (int) 1, 'vmu' => (int) 7, 'zma' => (int) 10 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb421930' $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' => 'HOM05D001025', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '592', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p22650' => 'bna', 'A01p29720' => 'bna', 'A03p26560' => 'bna', 'A03p68820' => 'bna', 'A04p20980' => 'bna', 'A06p07730' => 'bna', 'A07p18260' => 'bna', 'A08p33710' => 'bna', 'A09p16970' => 'bna', 'A10p27490' => 'bna', 'Aa31LG1G17300' => 'aar', 'Aa31LG1G3910' => 'aar', 'Aa31LG2G9630' => 'aar', 'Aa31LG5G8360' => 'aar', 'Aa31LG9G2410' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4699' => 'aag', 'Actinidia23512' => 'ach', 'Actinidia37080' => 'ach', 'Ah.01g020380' => 'amhyb', 'Ah.08g215710' => 'amhyb', 'Ah.09g225110' => 'amhyb', 'Ah.10g036680' => 'amhyb', 'AL1G21940' => 'aly', 'AL2G15540' => 'aly', 'AL4G21520' => 'aly', 'AL7G40960' => 'aly', 'Aqoxy2G01191' => 'aox', 'Aqoxy2G03393' => 'aox', 'Aqoxy4G02775' => 'aox', 'Aqoxy6G00058' => 'aox', 'arahy.Tifrunner.gnm1.ann1.9X74H2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CW3FX9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R485W7' => 'arhy', 'AT1G10960' => 'ath', 'AT1G60950' => 'ath', 'AT2G27510' => 'ath', 'AT4G14890' => 'ath', 'AT5G10000' => 'ath', 'ATR0665G624' => 'atr', 'ATR0697G138' => 'atr', 'ATR0776G046' => 'atr', 'ATR1134G135' => 'atr', 'Atru.chr12.1025' => 'acertr', 'Atru.chr3.3241' => 'acertr', 'Atru.chr4.2460' => 'acertr', 'AUR62007427' => 'cqu', 'AUR62010960' => 'cqu', 'AUR62012201' => 'cqu', 'AUR62021470' => 'cqu', 'AUR62022834' => 'cqu', 'AUR62033635' => 'cqu', 'AUR62036186' => 'cqu', 'BcaB01g03077' => 'bca', 'BcaB02g10093' => 'bca', 'BcaB04g20295' => 'bca', 'BcaB06g28147' => 'bca', 'BcaB07g31253' => 'bca', 'BcaC01g04946' => 'bca', 'BcaC02g10614' => 'bca', 'BcaC02g10885' => 'bca', 'BcaC04g19356' => 'bca', 'BcaC04g22297' => 'bca', 'BcaC05g24977' => 'bca', 'BcaC06g31823' => 'bca', 'BcaC07g38633' => 'bca', 'BcaC09g49353' => 'bca', 'BcaC09g50168' => 'bca', 'BcaNung00322' => 'bca', 'BcaNung04769' => 'bca', 'BolC1t02753H' => 'bol', 'BolC1t03721H' => 'bol', 'BolC3t15525H' => 'bol', 'BolC4t23903H' => 'bol', 'BolC4t24231H' => 'bol', 'BolC4t27209H' => 'bol', 'BolC5t29671H' => 'bol', 'BolC8t49044H' => 'bol', 'BolC9t54999H' => 'bol', 'BolC9t59517H' => 'bol', 'BraA01t02178Z' => 'bra', 'BraA01t03099Z' => 'bra', 'BraA03t11867Z' => 'bra', 'BraA04t17667Z' => 'bra', 'BraA07t29542Z' => 'bra', 'BraA08t35287Z' => 'bra', 'BraA09t37334Z' => 'bra', 'BraA10t44801Z' => 'bra', 'BraSC39t46181Z' => 'bra', 'C01p28240' => 'bna', 'C01p37530' => 'bna', 'C03p31820' => 'bna', 'C04p24080' => 'bna', 'C04p25790' => 'bna', 'C04p56770' => 'bna', 'C05p09310' => 'bna', 'C09p21010' => 'bna', 'C09p67560' => 'bna', 'CAN.G1324.7' => 'can', 'CAN.G1358.10' => 'can', 'CAN.G1550.2' => 'can', 'CAN.G186.56' => 'can', 'CAN.G1965.1' => 'can', 'CAN.G645.15' => 'can', 'CAN.G798.26' => 'can', 'CAN.G798.27' => 'can', 'CAN.G798.29' => 'can', 'CAN.G919.31' => 'can', 'CANSAT11G0133' => 'cansat', 'CANSAT11G1171' => 'cansat', 'CANSAT11G2056' => 'cansat', 'CANSAT56G1202' => 'cansat', 'CANSAT56G1514' => 'cansat', 'CANSAT78G0455' => 'cansat', 'CARHR011190' => 'chi', 'CARHR051980' => 'chi', 'CARHR120170' => 'chi', 'CARHR203310' => 'chi', 'CARHR221490' => 'chi', 'Carub.0001s1054' => 'cru', 'Carub.0002s0431' => 'cru', 'Carub.0004s0818' => 'cru', 'Carub.0006s0846' => 'cru', 'Carub.0007s2722' => 'cru', 'Ca_00058_v3' => 'car', 'Ca_17831_v3' => 'car', 'Ca_19408_v3' => 'car', 'Ca_24397_v3' => 'car', 'Ca_25664_v3' => 'car', 'CBR_g21818' => 'cbr', 'CBR_g31195' => 'cbr', 'CBR_g32282' => 'cbr', 'CBR_g39599' => 'cbr', 'CBR_g49410' => 'cbr', 'Cc01_g09120' => 'ccan', 'Cc01_g09130' => 'ccan', 'Cc02_g09630' => 'ccan', 'Cc02_g22810' => 'ccan', 'Cc03_g03810' => 'ccan', 'CDE02G3718' => 'cde', 'CDE04G3183' => 'cde', 'CDE07G1046' => 'cde', 'CDE08G0480' => 'cde', 'Cfa005493' => 'cfa', 'Cfa010312' => 'cfa', 'Cfa015648' => 'cfa', 'Ciclev10002793m.g' => 'ccl', 'Ciclev10003356m.g' => 'ccl', 'Ciclev10006141m.g' => 'ccl', 'Ciclev10016676m.g' => 'ccl', 'Ciclev10017081m.g' => 'ccl', 'Ciclev10029499m.g' => 'ccl', 'CiPaw.01G166300' => 'cil', 'CiPaw.06G145600' => 'cil', 'CiPaw.13G040100' => 'cil', 'CiPaw.13G135800' => 'cil', 'ClCG01G012230' => 'cla', 'ClCG05G009510' => 'cla', 'ClCG08G008270' => 'cla', 'COL.COLO4_11763' => 'col', 'COL.COLO4_19876' => 'col', 'COL.COLO4_21481' => 'col', 'Cpa.g.sc118.34' => 'cpa', 'Cpa.g.sc32.13' => 'cpa', 'Cpa.g.sc58.103' => 'cpa', 'Cre03.g183850' => 'cre', 'Cre06.g306350' => 'cre', 'Cre07.g334800' => 'cre', 'Cre12.g487900' => 'cre', 'Cre14.g626700' => 'cre', 'Cre16.g658400' => 'cre', 'Cre17.g700950' => 'cre', 'CsaV3_1G014830' => 'csa', 'CsaV3_3G013320' => 'csa', 'CsaV3_3G019210' => 'csa', 'CsaV3_3G019220' => 'csa', 'CsaV3_6G004230' => 'csa', 'CSS0003773' => 'camsi', 'CSS0004563' => 'camsi', 'CSS0013949' => 'camsi', 'CSS0025971' => 'camsi', 'CSS0028570' => 'camsi', 'CSS0033127' => 'camsi', 'CSS0036051' => 'camsi', 'CSS0040087' => 'camsi', 'CSS0043179' => 'camsi', 'DCAR_006161' => 'dca', 'DCAR_010351' => 'dca', 'DCAR_012197' => 'dca', 'DCAR_024162' => 'dca', 'Dinv01030' => 'din', 'Dinv10924' => 'din', 'Dinv11835' => 'din', 'Dinv22841' => 'din', 'Dinv42553' => 'din', 'Duzib052G0560' => 'dzi', 'Duzib132G0389' => 'dzi', 'Duzib150G1181' => 'dzi', 'Duzib168G0623' => 'dzi', 'Duzib170G1036' => 'dzi', 'Duzib212G0200' => 'dzi', 'Duzib248G0194' => 'dzi', 'ECA232G2193' => 'eca', 'ECA233G0302' => 'eca', 'ECA234G2813' => 'eca', 'ECA234G4866' => 'eca', 'ECA240G3932' => 'eca', 'ECA248G0385' => 'eca', 'EL10Ac2g04781' => 'bvu', 'EL10Ac3g06445' => 'bvu', 'EL10Ac7g15825' => 'bvu', 'EL10Ac8g18550' => 'bvu', 'Eucgr.B03849' => 'egr', 'Eucgr.I02744' => 'egr', 'Eucgr.J00264' => 'egr', 'Eucgr.J00493' => 'egr', 'FAN04G2181' => 'fan', 'FAN07G2666' => 'fan', 'FAN11G0024' => 'fan', 'FAN12G1105' => 'fan', 'FAN13G0302' => 'fan', 'FAN15G2781' => 'fan', 'FAN16G1274' => 'fan', 'FAN17G2988' => 'fan', 'FAN18G2621' => 'fan', 'FAN21G0013' => 'fan', 'FAN22G1211' => 'fan', 'FAN25G3626' => 'fan', 'FvH4_2g09491' => 'fve', 'FvH4_3g24910' => 'fve', 'FvH4_4g15630' => 'fve', 'FvH4_5g28820' => 'fve', 'Glyma.01G238000' => 'gma', 'Glyma.05G168400' => 'gma', 'Glyma.08G126800' => 'gma', 'Glyma.08G188500' => 'gma', 'Glyma.10G278900' => 'gma', 'Glyma.11G005700' => 'gma', 'Glyma.11G183300' => 'gma', 'Glyma.12G089200' => 'gma', 'Glyma.12G169400' => 'gma', 'Glyma.12G169500' => 'gma', 'Glyma.12G169600' => 'gma', 'Glyma.20G110800' => 'gma', 'Gohir.A03G192900' => 'ghi', 'Gohir.A03G193000' => 'ghi', 'Gohir.A05G080700' => 'ghi', 'Gohir.A09G216000' => 'ghi', 'Gohir.A12G027700' => 'ghi', 'Gohir.A13G036200' => 'ghi', 'Gohir.A13G222600' => 'ghi', 'Gohir.D02G213900' => 'ghi', 'Gohir.D02G214000' => 'ghi', 'Gohir.D05G083700' => 'ghi', 'Gohir.D05G083800' => 'ghi', 'Gohir.D05G083850' => 'ghi', 'Gohir.D08G015400' => 'ghi', 'Gohir.D09G218400' => 'ghi', 'Gohir.D12G027100' => 'ghi', 'Gohir.D13G034500' => 'ghi', 'Gohir.D13G227400' => 'ghi', 'Gorai.005G241800' => 'gra', 'Gorai.005G241900' => 'gra', 'Gorai.006G239400' => 'gra', 'Gorai.008G027600' => 'gra', 'Gorai.009G085400' => 'gra', 'Gorai.009G085500' => 'gra', 'Gorai.013G039000' => 'gra', 'Gorai.013G194800' => 'gra', 'Gorai.013G257900' => 'gra', 'GSVIVG01000982001' => 'vvi', 'GSVIVG01017981001' => 'vvi', 'HanXRQChr01g0024061' => 'han', 'HanXRQChr09g0247831' => 'han', 'HanXRQChr10g0294611' => 'han', 'HanXRQChr10g0294621' => 'han', 'HanXRQChr11g0346821' => 'han', 'HanXRQChr13g0397461' => 'han', 'HanXRQChr16g0513651' => 'han', 'HanXRQChr16g0513701' => 'han', 'Haze_00897' => 'cav', 'Haze_01745' => 'cav', 'Haze_02486' => 'cav', 'Haze_02487' => 'cav', 'Haze_23374' => 'cav', 'Hma1.2p1_0578F.1_g182520' => 'hma', 'Hma1.2p1_0602F.1_g187350' => 'hma', 'Hma1.2p1_0602F.1_g187360' => 'hma', 'Hma1.2p1_0874F.1_g231320' => 'hma', 'Hma1.2p1_1197F.1_g266210' => 'hma', 'Hma1.2p1_1197F.1_g266220' => 'hma', 'Hma1.2p1_2167F.1_g315895' => 'hma', 'Hma1.2p1_2190F.1_g316640' => 'hma', 'Hma1.2p1_3645F.1_g337153' => 'hma', 'HPP92_004907' => 'vpl', 'HPP92_012134' => 'vpl', 'HPP92_025136' => 'vpl', 'HPP92_026087' => 'vpl', 'Hund06782' => 'sun', 'Hund06784' => 'sun', 'Lalb_Chr01g0004861' => 'lal', 'Lalb_Chr02g0140591' => 'lal', 'Lalb_Chr02g0140611' => 'lal', 'Lalb_Chr03g0028101' => 'lal', 'Lalb_Chr07g0185791' => 'lal', 'Lalb_Chr12g0204491' => 'lal', 'Lalb_Chr13g0295671' => 'lal', 'Lalb_Chr19g0136461' => 'lal', 'Lalb_Chr21g0309191' => 'lal', 'Lj1g0028158' => 'lja', 'Lj1P236T38' => 'lonja', 'Lj2C32G2' => 'lonja', 'Lj2P944T8' => 'lonja', 'Lj2P963T15' => 'lonja', 'Lj3g0011788' => 'lja', 'Lj4g0025027' => 'lja', 'Lj5P255T36' => 'lonja', 'Lj6g0018866' => 'lja', 'Lj6P608T31' => 'lonja', 'LjContig00408g0008879' => 'lja', 'Lsat_1_v5_gn_5_105820' => 'lsa', 'Lsat_1_v5_gn_6_38800' => 'lsa', 'Lsat_1_v5_gn_7_67141' => 'lsa', 'Manes.04G003400' => 'mes', 'Manes.07G020000' => 'mes', 'Manes.07G020100' => 'mes', 'Manes.07G020150' => 'mes', 'Manes.10G061500' => 'mes', 'Manes.10G123200' => 'mes', 'Manes.11G161900' => 'mes', 'Manes.15G029300' => 'mes', 'Mapoly0071s0018' => 'mpo', 'Mapoly0082s0023' => 'mpo', 'Mapoly3477s0001' => 'mpo', 'MBI05_g31233_MAGBIO' => 'mbi', 'MBI09_g05946_MAGBIO' => 'mbi', 'MBI09_g05947_MAGBIO' => 'mbi', 'MBI17_g08346_MAGBIO' => 'mbi', 'MCO04G038' => 'mco', 'MCO09G370' => 'mco', 'MCO13G605' => 'mco', 'MD00G1075500' => 'mdo', 'MD03G1144300' => 'mdo', 'MD08G1236800' => 'mdo', 'MD13G1193300' => 'mdo', 'MD15G1428700' => 'mdo', 'Medtr1g112030' => 'mtr', 'Medtr1g112050' => 'mtr', 'Medtr2g006290' => 'mtr', 'Medtr2g086510' => 'mtr', 'Medtr4g053120' => 'mtr', 'Medtr5g006320' => 'mtr', 'Medtr8g088720' => 'mtr', 'MELO3C004712.2' => 'cme', 'MELO3C006533.2' => 'cme', 'MELO3C019438.2' => 'cme', 'MELO3C019440.2' => 'cme', 'MELO3C019441.2' => 'cme', 'MELO3C019895.2' => 'cme', 'Migut.B00811' => 'egut', 'Migut.D02447' => 'egut', 'Migut.F00875' => 'egut', 'Migut.N00186' => 'egut', 'Migut.N01051' => 'egut', 'Migut.N02491' => 'egut', 'Migut.O00784' => 'egut', 'MSTRG.12367' => 'ama', 'MSTRG.18756' => 'ama', 'MSTRG.21042' => 'ama', 'Nitab4.5_0000559g0040' => 'nta', 'Nitab4.5_0000667g0190' => 'nta', 'Nitab4.5_0000755g0160' => 'nta', 'Nitab4.5_0001216g0080' => 'nta', 'Nitab4.5_0004069g0040' => 'nta', 'Nitab4.5_0004129g0010' => 'nta', 'Nitab4.5_0005744g0030' => 'nta', 'Nitab4.5_0006996g0030' => 'nta', 'Nitab4.5_0008971g0040' => 'nta', 'Nitab4.5_0009769g0020' => 'nta', 'Nitab4.5_0009833g0010' => 'nta', 'Nitab4.5_0013140g0020' => 'nta', 'Nn003s41376' => 'nnu', 'Nn1g01857' => 'nnu', 'Nn1g03611' => 'nnu', 'Nn1g06853' => 'nnu', 'Nn3g18360' => 'nnu', 'Nn4g26328' => 'nnu', 'Nn5g27531' => 'nnu', 'Nn6g34899' => 'nnu', 'Nn7g36299' => 'nnu', 'Oeu021485.1' => 'oeu', 'Oeu022433.1' => 'oeu', 'Oeu032111.1' => 'oeu', 'Oeu051608.1' => 'oeu', 'Os01g0860601' => 'osa', 'Os03g0659200' => 'osa', 'Os03g0835900' => 'osa', 'Os04g0412200' => 'osa', 'Os05g0443500' => 'osa', 'Os07g0251500' => 'osa', 'Os08g0104600' => 'osa', 'Peaxi162Scf00003g00047' => 'pax', 'Peaxi162Scf00003g00052' => 'pax', 'Peaxi162Scf00003g00394' => 'pax', 'Peaxi162Scf00091g00621' => 'pax', 'Peaxi162Scf00152g00146' => 'pax', 'Peaxi162Scf00173g00025' => 'pax', 'Peaxi162Scf00195g00102' => 'pax', 'Peaxi162Scf00402g00013' => 'pax', 'Peaxi162Scf00519g00618' => 'pax', 'PGR004G2838' => 'pgr', 'PGR044G2275' => 'pgr', 'PGR102G1377' => 'pgr', 'PGR119G1245' => 'pgr', 'PGR142G4449' => 'pgr', 'PGSC0003DMG400004532' => 'stu', 'PGSC0003DMG400011950' => 'stu', 'PGSC0003DMG400023391' => 'stu', 'PGSC0003DMG400023985' => 'stu', 'PGSC0003DMG400026360' => 'stu', 'PGSC0003DMG400035711' => 'stu', 'PGSC0003DMG400037286' => 'stu', 'PGSC0003DMG402005881' => 'stu', 'Phvul.002G045400' => 'pvu', 'Phvul.006G216600' => 'pvu', 'Phvul.006G216700' => 'pvu', 'Phvul.006G216800' => 'pvu', 'Phvul.007G022500' => 'pvu', 'Phvul.011G094400' => 'pvu', 'Potri.001G470700' => 'ptr', 'Potri.003G015200' => 'ptr', 'Potri.004G202500' => 'ptr', 'Potri.004G218400' => 'ptr', 'Potri.008G020100' => 'ptr', 'Potri.008G153200' => 'ptr', 'Potri.009G163800' => 'ptr', 'Potri.010G087300' => 'ptr', 'Potri.010G239100' => 'ptr', 'Pp3c10_16100' => 'ppa', 'Pp3c10_16880' => 'ppa', 'Pp3c16_6230' => 'ppa', 'Pp3c17_18910' => 'ppa', 'Pp3c3_22119' => 'ppa', 'Pp3c3_22140' => 'ppa', 'Pp3c4_8159' => 'ppa', 'Pp3c4_8171' => 'ppa', 'Pp3c4_8330' => 'ppa', 'PRCOL_00004098' => 'pco', 'Prupe.1G013900' => 'ppe', 'Prupe.1G226300' => 'ppe', 'Prupe.1G573600' => 'ppe', 'Prupe.6G130100' => 'ppe', 'Psat3g090040' => 'psa', 'Psat4g210440' => 'psa', 'Psat6g231040' => 'psa', 'Psat6g231080' => 'psa', 'Psat7g063000' => 'psa', 'Psat7g188000' => 'psa', 'Psat7g188040' => 'psa', 'PSO017G0206' => 'pso', 'PSO170G0501' => 'pso', 'PSO170G6422' => 'pso', 'PSO210G7739' => 'pso', 'PSO339G1808' => 'pso', 'PSO339G6135' => 'pso', 'PSO384G0010' => 'pso', 'PSO384G0964' => 'pso', 'PSO761G0050' => 'pso', 'PSO782G4085' => 'pso', 'QL01p012264' => 'qlo', 'QL02p099491' => 'qlo', 'QL03p033868' => 'qlo', 'QL04p046678' => 'qlo', 'QL06p002448' => 'qlo', 'RcHm_v2.0_Chr4g0416181' => 'rch', 'RcHm_v2.0_Chr5g0044701' => 'rch', 'RcHm_v2.0_Chr6g0265781' => 'rch', 'RcHm_v2.0_Chr7g0221031' => 'rch', 'Rhsim04G0202000' => 'rsi', 'Rhsim11G0127300' => 'rsi', 'Rhsim13G0111800' => 'rsi', 'Sabra01G0165600' => 'sbr', 'Sabra03G0008300' => 'sbr', 'Sabra04G0136900' => 'sbr', 'Sabra08G0013400' => 'sbr', 'Sabra08G0116800' => 'sbr', 'Sabra09G0128000' => 'sbr', 'Sabra10G0055500' => 'sbr', 'Sabra10G0073300' => 'sbr', 'SalBow3G0385' => 'sbo', 'SalBow3G1119' => 'sbo', 'SalBow3G2005' => 'sbo', 'SalBow6G2563' => 'sbo', 'SalBow6G6386' => 'sbo', 'Sc06g0008800' => 'sci', 'Sc07g0004950' => 'sci', 'Sc09g0005340' => 'sci', 'Sc13g0004410' => 'sci', 'Sc21g0007090' => 'sci', 'Sed0009285' => 'sed', 'Sed0017583' => 'sed', 'Sed0019699' => 'sed', 'Sed0023107' => 'sed', 'SEGI_10916' => 'sgi', 'SEGI_16217' => 'sgi', 'SEGI_19466' => 'sgi', 'SEGI_41115' => 'sgi', 'SGA_v2.0_scaffold111G31534' => 'sas', 'SGA_v2.0_scaffold22G09864' => 'sas', 'SGA_v2.0_scaffold338G49219' => 'sas', 'SGA_v2.0_scaffold92G28298' => 'sas', 'SMO119G0064' => 'smo', 'SMO223G0038' => 'smo', 'SMO347G0584' => 'smo', 'SMO351G0010' => 'smo', 'SMO356G0404' => 'smo', 'Solyc01g103920.3' => 'sly', 'Solyc04g009710.2' => 'sly', 'Solyc05g055280.2' => 'sly', 'Solyc10g044520.3' => 'sly', 'Solyc10g075160.1' => 'sly', 'Solyc11g006910.3' => 'sly', 'Solyc11g068430.3' => 'sly', 'Sopen01g046310' => 'spe', 'Sopen03g001200' => 'spe', 'Sopen04g004830' => 'spe', 'Sopen05g033720' => 'spe', 'Sopen06g030740' => 'spe', 'Sopen10g013090' => 'spe', 'Sopen10g027630' => 'spe', 'Sopen10g027640' => 'spe', 'Sopen11g002820' => 'spe', 'Sopen11g027140' => 'spe', 'Sp1g09680' => 'spa', 'Sp2g03630' => 'spa', 'Sp4g10320' => 'spa', 'Sp6g33400' => 'spa', 'Sp7g13030' => 'spa', 'TAR365G0317' => 'tar', 'TAR376G0979' => 'tar', 'TAR623G1665' => 'tar', 'TAR633G2373' => 'tar', 'TAR636G1400' => 'tar', 'THA.LOC104800529' => 'tha', 'THA.LOC104808547' => 'tha', 'THA.LOC104809615' => 'tha', 'THA.LOC104815724' => 'tha', 'THA.LOC104818480' => 'tha', 'THA.LOC104819179' => 'tha', 'THA.LOC104822270' => 'tha', 'THA.LOC104826425' => 'tha', 'Thecc.02G089700' => 'tca', 'Thecc.04G232300' => 'tca', 'Thecc.09G283400' => 'tca', 'Thhalv10009020m.g' => 'esa', 'Thhalv10015506m.g' => 'esa', 'Thhalv10017364m.g' => 'esa', 'Thhalv10023742m.g' => 'esa', 'Thhalv10026483m.g' => 'esa', 'TPR.G17232' => 'tpr', 'TPR.G2133' => 'tpr', 'TPR.G2498' => 'tpr', 'TPR.G31942' => 'tpr', 'TPR.G37877' => 'tpr', 'TPR.G4571' => 'tpr', 'TWI14G1113' => 'twi', 'TWI15G0426' => 'twi', 'TWI31G1005' => 'twi', 'TWI38G0513' => 'twi', 'TWI38G1484' => 'twi', 'TWI73G1098' => 'twi', 'unitig_26.g10519' => 'ugi', 'unitig_736.g22395' => 'ugi', 'unitig_747.g21234' => 'ugi', 'unitig_747.g21942' => 'ugi', 'vmacro14351' => 'vma', 'VMungo0540G0082' => 'vmu', 'VMungo0540G0405' => 'vmu', 'VMungo0540G1486' => 'vmu', 'VMungo0540G1692' => 'vmu', 'VMungo0720G2473' => 'vmu', 'VMungo1127G1562' => 'vmu', 'VMungo1215G1918' => 'vmu', 'Zm00001eb052650' => 'zma', 'Zm00001eb063710' => 'zma', 'Zm00001eb083950' => 'zma', 'Zm00001eb174420' => 'zma', 'Zm00001eb260140' => 'zma', 'Zm00001eb260150' => 'zma', 'Zm00001eb260160' => 'zma', 'Zm00001eb348290' => 'zma', 'Zm00001eb366870' => 'zma', 'Zm00001eb421930' => 'zma' ), 'gf_id' => 'HOM05D001025', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001025' ), 'data_identifier' => 'HOM05D001025', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001025', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '592', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p22650' => 'bna', 'A01p29720' => 'bna', 'A03p26560' => 'bna', 'A03p68820' => 'bna', 'A04p20980' => 'bna', 'A06p07730' => 'bna', 'A07p18260' => 'bna', 'A08p33710' => 'bna', 'A09p16970' => 'bna', 'A10p27490' => 'bna', 'Aa31LG1G17300' => 'aar', 'Aa31LG1G3910' => 'aar', 'Aa31LG2G9630' => 'aar', 'Aa31LG5G8360' => 'aar', 'Aa31LG9G2410' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4699' => 'aag', 'Actinidia23512' => 'ach', 'Actinidia37080' => 'ach', 'Ah.01g020380' => 'amhyb', 'Ah.08g215710' => 'amhyb', 'Ah.09g225110' => 'amhyb', 'Ah.10g036680' => 'amhyb', 'AL1G21940' => 'aly', 'AL2G15540' => 'aly', 'AL4G21520' => 'aly', 'AL7G40960' => 'aly', 'Aqoxy2G01191' => 'aox', 'Aqoxy2G03393' => 'aox', 'Aqoxy4G02775' => 'aox', 'Aqoxy6G00058' => 'aox', 'arahy.Tifrunner.gnm1.ann1.9X74H2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CW3FX9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R485W7' => 'arhy', 'AT1G10960' => 'ath', 'AT1G60950' => 'ath', 'AT2G27510' => 'ath', 'AT4G14890' => 'ath', 'AT5G10000' => 'ath', 'ATR0665G624' => 'atr', 'ATR0697G138' => 'atr', 'ATR0776G046' => 'atr', 'ATR1134G135' => 'atr', 'Atru.chr12.1025' => 'acertr', 'Atru.chr3.3241' => 'acertr', 'Atru.chr4.2460' => 'acertr', 'AUR62007427' => 'cqu', 'AUR62010960' => 'cqu', 'AUR62012201' => 'cqu', 'AUR62021470' => 'cqu', 'AUR62022834' => 'cqu', 'AUR62033635' => 'cqu', 'AUR62036186' => 'cqu', 'BcaB01g03077' => 'bca', 'BcaB02g10093' => 'bca', 'BcaB04g20295' => 'bca', 'BcaB06g28147' => 'bca', 'BcaB07g31253' => 'bca', 'BcaC01g04946' => 'bca', 'BcaC02g10614' => 'bca', 'BcaC02g10885' => 'bca', 'BcaC04g19356' => 'bca', 'BcaC04g22297' => 'bca', 'BcaC05g24977' => 'bca', 'BcaC06g31823' => 'bca', 'BcaC07g38633' => 'bca', 'BcaC09g49353' => 'bca', 'BcaC09g50168' => 'bca', 'BcaNung00322' => 'bca', 'BcaNung04769' => 'bca', 'BolC1t02753H' => 'bol', 'BolC1t03721H' => 'bol', 'BolC3t15525H' => 'bol', 'BolC4t23903H' => 'bol', 'BolC4t24231H' => 'bol', 'BolC4t27209H' => 'bol', 'BolC5t29671H' => 'bol', 'BolC8t49044H' => 'bol', 'BolC9t54999H' => 'bol', 'BolC9t59517H' => 'bol', 'BraA01t02178Z' => 'bra', 'BraA01t03099Z' => 'bra', 'BraA03t11867Z' => 'bra', 'BraA04t17667Z' => 'bra', 'BraA07t29542Z' => 'bra', 'BraA08t35287Z' => 'bra', 'BraA09t37334Z' => 'bra', 'BraA10t44801Z' => 'bra', 'BraSC39t46181Z' => 'bra', 'C01p28240' => 'bna', 'C01p37530' => 'bna', 'C03p31820' => 'bna', 'C04p24080' => 'bna', 'C04p25790' => 'bna', 'C04p56770' => 'bna', 'C05p09310' => 'bna', 'C09p21010' => 'bna', 'C09p67560' => 'bna', 'CAN.G1324.7' => 'can', 'CAN.G1358.10' => 'can', 'CAN.G1550.2' => 'can', 'CAN.G186.56' => 'can', 'CAN.G1965.1' => 'can', 'CAN.G645.15' => 'can', 'CAN.G798.26' => 'can', 'CAN.G798.27' => 'can', 'CAN.G798.29' => 'can', 'CAN.G919.31' => 'can', 'CANSAT11G0133' => 'cansat', 'CANSAT11G1171' => 'cansat', 'CANSAT11G2056' => 'cansat', 'CANSAT56G1202' => 'cansat', 'CANSAT56G1514' => 'cansat', 'CANSAT78G0455' => 'cansat', 'CARHR011190' => 'chi', 'CARHR051980' => 'chi', 'CARHR120170' => 'chi', 'CARHR203310' => 'chi', 'CARHR221490' => 'chi', 'Carub.0001s1054' => 'cru', 'Carub.0002s0431' => 'cru', 'Carub.0004s0818' => 'cru', 'Carub.0006s0846' => 'cru', 'Carub.0007s2722' => 'cru', 'Ca_00058_v3' => 'car', 'Ca_17831_v3' => 'car', 'Ca_19408_v3' => 'car', 'Ca_24397_v3' => 'car', 'Ca_25664_v3' => 'car', 'CBR_g21818' => 'cbr', 'CBR_g31195' => 'cbr', 'CBR_g32282' => 'cbr', 'CBR_g39599' => 'cbr', 'CBR_g49410' => 'cbr', 'Cc01_g09120' => 'ccan', 'Cc01_g09130' => 'ccan', 'Cc02_g09630' => 'ccan', 'Cc02_g22810' => 'ccan', 'Cc03_g03810' => 'ccan', 'CDE02G3718' => 'cde', 'CDE04G3183' => 'cde', 'CDE07G1046' => 'cde', 'CDE08G0480' => 'cde', 'Cfa005493' => 'cfa', 'Cfa010312' => 'cfa', 'Cfa015648' => 'cfa', 'Ciclev10002793m.g' => 'ccl', 'Ciclev10003356m.g' => 'ccl', 'Ciclev10006141m.g' => 'ccl', 'Ciclev10016676m.g' => 'ccl', 'Ciclev10017081m.g' => 'ccl', 'Ciclev10029499m.g' => 'ccl', 'CiPaw.01G166300' => 'cil', 'CiPaw.06G145600' => 'cil', 'CiPaw.13G040100' => 'cil', 'CiPaw.13G135800' => 'cil', 'ClCG01G012230' => 'cla', 'ClCG05G009510' => 'cla', 'ClCG08G008270' => 'cla', 'COL.COLO4_11763' => 'col', 'COL.COLO4_19876' => 'col', 'COL.COLO4_21481' => 'col', 'Cpa.g.sc118.34' => 'cpa', 'Cpa.g.sc32.13' => 'cpa', 'Cpa.g.sc58.103' => 'cpa', 'Cre03.g183850' => 'cre', 'Cre06.g306350' => 'cre', 'Cre07.g334800' => 'cre', 'Cre12.g487900' => 'cre', 'Cre14.g626700' => 'cre', 'Cre16.g658400' => 'cre', 'Cre17.g700950' => 'cre', 'CsaV3_1G014830' => 'csa', 'CsaV3_3G013320' => 'csa', 'CsaV3_3G019210' => 'csa', 'CsaV3_3G019220' => 'csa', 'CsaV3_6G004230' => 'csa', 'CSS0003773' => 'camsi', 'CSS0004563' => 'camsi', 'CSS0013949' => 'camsi', 'CSS0025971' => 'camsi', 'CSS0028570' => 'camsi', 'CSS0033127' => 'camsi', 'CSS0036051' => 'camsi', 'CSS0040087' => 'camsi', 'CSS0043179' => 'camsi', 'DCAR_006161' => 'dca', 'DCAR_010351' => 'dca', 'DCAR_012197' => 'dca', 'DCAR_024162' => 'dca', 'Dinv01030' => 'din', 'Dinv10924' => 'din', 'Dinv11835' => 'din', 'Dinv22841' => 'din', 'Dinv42553' => 'din', 'Duzib052G0560' => 'dzi', 'Duzib132G0389' => 'dzi', 'Duzib150G1181' => 'dzi', 'Duzib168G0623' => 'dzi', 'Duzib170G1036' => 'dzi', 'Duzib212G0200' => 'dzi', 'Duzib248G0194' => 'dzi', 'ECA232G2193' => 'eca', 'ECA233G0302' => 'eca', 'ECA234G2813' => 'eca', 'ECA234G4866' => 'eca', 'ECA240G3932' => 'eca', 'ECA248G0385' => 'eca', 'EL10Ac2g04781' => 'bvu', 'EL10Ac3g06445' => 'bvu', 'EL10Ac7g15825' => 'bvu', 'EL10Ac8g18550' => 'bvu', 'Eucgr.B03849' => 'egr', 'Eucgr.I02744' => 'egr', 'Eucgr.J00264' => 'egr', 'Eucgr.J00493' => 'egr', 'FAN04G2181' => 'fan', 'FAN07G2666' => 'fan', 'FAN11G0024' => 'fan', 'FAN12G1105' => 'fan', 'FAN13G0302' => 'fan', 'FAN15G2781' => 'fan', 'FAN16G1274' => 'fan', 'FAN17G2988' => 'fan', 'FAN18G2621' => 'fan', 'FAN21G0013' => 'fan', 'FAN22G1211' => 'fan', 'FAN25G3626' => 'fan', 'FvH4_2g09491' => 'fve', 'FvH4_3g24910' => 'fve', 'FvH4_4g15630' => 'fve', 'FvH4_5g28820' => 'fve', 'Glyma.01G238000' => 'gma', 'Glyma.05G168400' => 'gma', 'Glyma.08G126800' => 'gma', 'Glyma.08G188500' => 'gma', 'Glyma.10G278900' => 'gma', 'Glyma.11G005700' => 'gma', 'Glyma.11G183300' => 'gma', 'Glyma.12G089200' => 'gma', 'Glyma.12G169400' => 'gma', 'Glyma.12G169500' => 'gma', 'Glyma.12G169600' => 'gma', 'Glyma.20G110800' => 'gma', 'Gohir.A03G192900' => 'ghi', 'Gohir.A03G193000' => 'ghi', 'Gohir.A05G080700' => 'ghi', 'Gohir.A09G216000' => 'ghi', 'Gohir.A12G027700' => 'ghi', 'Gohir.A13G036200' => 'ghi', 'Gohir.A13G222600' => 'ghi', 'Gohir.D02G213900' => 'ghi', 'Gohir.D02G214000' => 'ghi', 'Gohir.D05G083700' => 'ghi', 'Gohir.D05G083800' => 'ghi', 'Gohir.D05G083850' => 'ghi', 'Gohir.D08G015400' => 'ghi', 'Gohir.D09G218400' => 'ghi', 'Gohir.D12G027100' => 'ghi', 'Gohir.D13G034500' => 'ghi', 'Gohir.D13G227400' => 'ghi', 'Gorai.005G241800' => 'gra', 'Gorai.005G241900' => 'gra', 'Gorai.006G239400' => 'gra', 'Gorai.008G027600' => 'gra', 'Gorai.009G085400' => 'gra', 'Gorai.009G085500' => 'gra', 'Gorai.013G039000' => 'gra', 'Gorai.013G194800' => 'gra', 'Gorai.013G257900' => 'gra', 'GSVIVG01000982001' => 'vvi', 'GSVIVG01017981001' => 'vvi', 'HanXRQChr01g0024061' => 'han', 'HanXRQChr09g0247831' => 'han', 'HanXRQChr10g0294611' => 'han', 'HanXRQChr10g0294621' => 'han', 'HanXRQChr11g0346821' => 'han', 'HanXRQChr13g0397461' => 'han', 'HanXRQChr16g0513651' => 'han', 'HanXRQChr16g0513701' => 'han', 'Haze_00897' => 'cav', 'Haze_01745' => 'cav', 'Haze_02486' => 'cav', 'Haze_02487' => 'cav', 'Haze_23374' => 'cav', 'Hma1.2p1_0578F.1_g182520' => 'hma', 'Hma1.2p1_0602F.1_g187350' => 'hma', 'Hma1.2p1_0602F.1_g187360' => 'hma', 'Hma1.2p1_0874F.1_g231320' => 'hma', 'Hma1.2p1_1197F.1_g266210' => 'hma', 'Hma1.2p1_1197F.1_g266220' => 'hma', 'Hma1.2p1_2167F.1_g315895' => 'hma', 'Hma1.2p1_2190F.1_g316640' => 'hma', 'Hma1.2p1_3645F.1_g337153' => 'hma', 'HPP92_004907' => 'vpl', 'HPP92_012134' => 'vpl', 'HPP92_025136' => 'vpl', 'HPP92_026087' => 'vpl', 'Hund06782' => 'sun', 'Hund06784' => 'sun', 'Lalb_Chr01g0004861' => 'lal', 'Lalb_Chr02g0140591' => 'lal', 'Lalb_Chr02g0140611' => 'lal', 'Lalb_Chr03g0028101' => 'lal', 'Lalb_Chr07g0185791' => 'lal', 'Lalb_Chr12g0204491' => 'lal', 'Lalb_Chr13g0295671' => 'lal', 'Lalb_Chr19g0136461' => 'lal', 'Lalb_Chr21g0309191' => 'lal', 'Lj1g0028158' => 'lja', 'Lj1P236T38' => 'lonja', 'Lj2C32G2' => 'lonja', 'Lj2P944T8' => 'lonja', 'Lj2P963T15' => 'lonja', 'Lj3g0011788' => 'lja', 'Lj4g0025027' => 'lja', 'Lj5P255T36' => 'lonja', 'Lj6g0018866' => 'lja', 'Lj6P608T31' => 'lonja', 'LjContig00408g0008879' => 'lja', 'Lsat_1_v5_gn_5_105820' => 'lsa', 'Lsat_1_v5_gn_6_38800' => 'lsa', 'Lsat_1_v5_gn_7_67141' => 'lsa', 'Manes.04G003400' => 'mes', 'Manes.07G020000' => 'mes', 'Manes.07G020100' => 'mes', 'Manes.07G020150' => 'mes', 'Manes.10G061500' => 'mes', 'Manes.10G123200' => 'mes', 'Manes.11G161900' => 'mes', 'Manes.15G029300' => 'mes', 'Mapoly0071s0018' => 'mpo', 'Mapoly0082s0023' => 'mpo', 'Mapoly3477s0001' => 'mpo', 'MBI05_g31233_MAGBIO' => 'mbi', 'MBI09_g05946_MAGBIO' => 'mbi', 'MBI09_g05947_MAGBIO' => 'mbi', 'MBI17_g08346_MAGBIO' => 'mbi', 'MCO04G038' => 'mco', 'MCO09G370' => 'mco', 'MCO13G605' => 'mco', 'MD00G1075500' => 'mdo', 'MD03G1144300' => 'mdo', 'MD08G1236800' => 'mdo', 'MD13G1193300' => 'mdo', 'MD15G1428700' => 'mdo', 'Medtr1g112030' => 'mtr', 'Medtr1g112050' => 'mtr', 'Medtr2g006290' => 'mtr', 'Medtr2g086510' => 'mtr', 'Medtr4g053120' => 'mtr', 'Medtr5g006320' => 'mtr', 'Medtr8g088720' => 'mtr', 'MELO3C004712.2' => 'cme', 'MELO3C006533.2' => 'cme', 'MELO3C019438.2' => 'cme', 'MELO3C019440.2' => 'cme', 'MELO3C019441.2' => 'cme', 'MELO3C019895.2' => 'cme', 'Migut.B00811' => 'egut', 'Migut.D02447' => 'egut', 'Migut.F00875' => 'egut', 'Migut.N00186' => 'egut', 'Migut.N01051' => 'egut', 'Migut.N02491' => 'egut', 'Migut.O00784' => 'egut', 'MSTRG.12367' => 'ama', 'MSTRG.18756' => 'ama', 'MSTRG.21042' => 'ama', 'Nitab4.5_0000559g0040' => 'nta', 'Nitab4.5_0000667g0190' => 'nta', 'Nitab4.5_0000755g0160' => 'nta', 'Nitab4.5_0001216g0080' => 'nta', 'Nitab4.5_0004069g0040' => 'nta', 'Nitab4.5_0004129g0010' => 'nta', 'Nitab4.5_0005744g0030' => 'nta', 'Nitab4.5_0006996g0030' => 'nta', 'Nitab4.5_0008971g0040' => 'nta', 'Nitab4.5_0009769g0020' => 'nta', 'Nitab4.5_0009833g0010' => 'nta', 'Nitab4.5_0013140g0020' => 'nta', 'Nn003s41376' => 'nnu', 'Nn1g01857' => 'nnu', 'Nn1g03611' => 'nnu', 'Nn1g06853' => 'nnu', 'Nn3g18360' => 'nnu', 'Nn4g26328' => 'nnu', 'Nn5g27531' => 'nnu', 'Nn6g34899' => 'nnu', 'Nn7g36299' => 'nnu', 'Oeu021485.1' => 'oeu', 'Oeu022433.1' => 'oeu', 'Oeu032111.1' => 'oeu', 'Oeu051608.1' => 'oeu', 'Os01g0860601' => 'osa', 'Os03g0659200' => 'osa', 'Os03g0835900' => 'osa', 'Os04g0412200' => 'osa', 'Os05g0443500' => 'osa', 'Os07g0251500' => 'osa', 'Os08g0104600' => 'osa', 'Peaxi162Scf00003g00047' => 'pax', 'Peaxi162Scf00003g00052' => 'pax', 'Peaxi162Scf00003g00394' => 'pax', 'Peaxi162Scf00091g00621' => 'pax', 'Peaxi162Scf00152g00146' => 'pax', 'Peaxi162Scf00173g00025' => 'pax', 'Peaxi162Scf00195g00102' => 'pax', 'Peaxi162Scf00402g00013' => 'pax', 'Peaxi162Scf00519g00618' => 'pax', 'PGR004G2838' => 'pgr', 'PGR044G2275' => 'pgr', 'PGR102G1377' => 'pgr', 'PGR119G1245' => 'pgr', 'PGR142G4449' => 'pgr', 'PGSC0003DMG400004532' => 'stu', 'PGSC0003DMG400011950' => 'stu', 'PGSC0003DMG400023391' => 'stu', 'PGSC0003DMG400023985' => 'stu', 'PGSC0003DMG400026360' => 'stu', 'PGSC0003DMG400035711' => 'stu', 'PGSC0003DMG400037286' => 'stu', 'PGSC0003DMG402005881' => 'stu', 'Phvul.002G045400' => 'pvu', 'Phvul.006G216600' => 'pvu', 'Phvul.006G216700' => 'pvu', 'Phvul.006G216800' => 'pvu', 'Phvul.007G022500' => 'pvu', 'Phvul.011G094400' => 'pvu', 'Potri.001G470700' => 'ptr', 'Potri.003G015200' => 'ptr', 'Potri.004G202500' => 'ptr', 'Potri.004G218400' => 'ptr', 'Potri.008G020100' => 'ptr', 'Potri.008G153200' => 'ptr', 'Potri.009G163800' => 'ptr', 'Potri.010G087300' => 'ptr', 'Potri.010G239100' => 'ptr', 'Pp3c10_16100' => 'ppa', 'Pp3c10_16880' => 'ppa', 'Pp3c16_6230' => 'ppa', 'Pp3c17_18910' => 'ppa', 'Pp3c3_22119' => 'ppa', 'Pp3c3_22140' => 'ppa', 'Pp3c4_8159' => 'ppa', 'Pp3c4_8171' => 'ppa', 'Pp3c4_8330' => 'ppa', 'PRCOL_00004098' => 'pco', 'Prupe.1G013900' => 'ppe', 'Prupe.1G226300' => 'ppe', 'Prupe.1G573600' => 'ppe', 'Prupe.6G130100' => 'ppe', 'Psat3g090040' => 'psa', 'Psat4g210440' => 'psa', 'Psat6g231040' => 'psa', 'Psat6g231080' => 'psa', 'Psat7g063000' => 'psa', 'Psat7g188000' => 'psa', 'Psat7g188040' => 'psa', 'PSO017G0206' => 'pso', 'PSO170G0501' => 'pso', 'PSO170G6422' => 'pso', 'PSO210G7739' => 'pso', 'PSO339G1808' => 'pso', 'PSO339G6135' => 'pso', 'PSO384G0010' => 'pso', 'PSO384G0964' => 'pso', 'PSO761G0050' => 'pso', 'PSO782G4085' => 'pso', 'QL01p012264' => 'qlo', 'QL02p099491' => 'qlo', 'QL03p033868' => 'qlo', 'QL04p046678' => 'qlo', 'QL06p002448' => 'qlo', 'RcHm_v2.0_Chr4g0416181' => 'rch', 'RcHm_v2.0_Chr5g0044701' => 'rch', 'RcHm_v2.0_Chr6g0265781' => 'rch', 'RcHm_v2.0_Chr7g0221031' => 'rch', 'Rhsim04G0202000' => 'rsi', 'Rhsim11G0127300' => 'rsi', 'Rhsim13G0111800' => 'rsi', 'Sabra01G0165600' => 'sbr', 'Sabra03G0008300' => 'sbr', 'Sabra04G0136900' => 'sbr', 'Sabra08G0013400' => 'sbr', 'Sabra08G0116800' => 'sbr', 'Sabra09G0128000' => 'sbr', 'Sabra10G0055500' => 'sbr', 'Sabra10G0073300' => 'sbr', 'SalBow3G0385' => 'sbo', 'SalBow3G1119' => 'sbo', 'SalBow3G2005' => 'sbo', 'SalBow6G2563' => 'sbo', 'SalBow6G6386' => 'sbo', 'Sc06g0008800' => 'sci', 'Sc07g0004950' => 'sci', 'Sc09g0005340' => 'sci', 'Sc13g0004410' => 'sci', 'Sc21g0007090' => 'sci', 'Sed0009285' => 'sed', 'Sed0017583' => 'sed', 'Sed0019699' => 'sed', 'Sed0023107' => 'sed', 'SEGI_10916' => 'sgi', 'SEGI_16217' => 'sgi', 'SEGI_19466' => 'sgi', 'SEGI_41115' => 'sgi', 'SGA_v2.0_scaffold111G31534' => 'sas', 'SGA_v2.0_scaffold22G09864' => 'sas', 'SGA_v2.0_scaffold338G49219' => 'sas', 'SGA_v2.0_scaffold92G28298' => 'sas', 'SMO119G0064' => 'smo', 'SMO223G0038' => 'smo', 'SMO347G0584' => 'smo', 'SMO351G0010' => 'smo', 'SMO356G0404' => 'smo', 'Solyc01g103920.3' => 'sly', 'Solyc04g009710.2' => 'sly', 'Solyc05g055280.2' => 'sly', 'Solyc10g044520.3' => 'sly', 'Solyc10g075160.1' => 'sly', 'Solyc11g006910.3' => 'sly', 'Solyc11g068430.3' => 'sly', 'Sopen01g046310' => 'spe', 'Sopen03g001200' => 'spe', 'Sopen04g004830' => 'spe', 'Sopen05g033720' => 'spe', 'Sopen06g030740' => 'spe', 'Sopen10g013090' => 'spe', 'Sopen10g027630' => 'spe', 'Sopen10g027640' => 'spe', 'Sopen11g002820' => 'spe', 'Sopen11g027140' => 'spe', 'Sp1g09680' => 'spa', 'Sp2g03630' => 'spa', 'Sp4g10320' => 'spa', 'Sp6g33400' => 'spa', 'Sp7g13030' => 'spa', 'TAR365G0317' => 'tar', 'TAR376G0979' => 'tar', 'TAR623G1665' => 'tar', 'TAR633G2373' => 'tar', 'TAR636G1400' => 'tar', 'THA.LOC104800529' => 'tha', 'THA.LOC104808547' => 'tha', 'THA.LOC104809615' => 'tha', 'THA.LOC104815724' => 'tha', 'THA.LOC104818480' => 'tha', 'THA.LOC104819179' => 'tha', 'THA.LOC104822270' => 'tha', 'THA.LOC104826425' => 'tha', 'Thecc.02G089700' => 'tca', 'Thecc.04G232300' => 'tca', 'Thecc.09G283400' => 'tca', 'Thhalv10009020m.g' => 'esa', 'Thhalv10015506m.g' => 'esa', 'Thhalv10017364m.g' => 'esa', 'Thhalv10023742m.g' => 'esa', 'Thhalv10026483m.g' => 'esa', 'TPR.G17232' => 'tpr', 'TPR.G2133' => 'tpr', 'TPR.G2498' => 'tpr', 'TPR.G31942' => 'tpr', 'TPR.G37877' => 'tpr', 'TPR.G4571' => 'tpr', 'TWI14G1113' => 'twi', 'TWI15G0426' => 'twi', 'TWI31G1005' => 'twi', 'TWI38G0513' => 'twi', 'TWI38G1484' => 'twi', 'TWI73G1098' => 'twi', 'unitig_26.g10519' => 'ugi', 'unitig_736.g22395' => 'ugi', 'unitig_747.g21234' => 'ugi', 'unitig_747.g21942' => 'ugi', 'vmacro14351' => 'vma', 'VMungo0540G0082' => 'vmu', 'VMungo0540G0405' => 'vmu', 'VMungo0540G1486' => 'vmu', 'VMungo0540G1692' => 'vmu', 'VMungo0720G2473' => 'vmu', 'VMungo1127G1562' => 'vmu', 'VMungo1215G1918' => 'vmu', 'Zm00001eb052650' => 'zma', 'Zm00001eb063710' => 'zma', 'Zm00001eb083950' => 'zma', 'Zm00001eb174420' => 'zma', 'Zm00001eb260140' => 'zma', 'Zm00001eb260150' => 'zma', 'Zm00001eb260160' => 'zma', 'Zm00001eb348290' => 'zma', 'Zm00001eb366870' => 'zma', 'Zm00001eb421930' => 'zma' ) $gf_id = 'HOM05D001025' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001025' ) $data_identifier = 'HOM05D001025' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 19, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 2, 'amhyb' => (int) 4, 'aly' => (int) 4, 'aox' => (int) 4, 'arhy' => (int) 3, 'ath' => (int) 5, 'atr' => (int) 4, 'acertr' => (int) 3, 'cqu' => (int) 7, 'bca' => (int) 17, 'bol' => (int) 10, 'bra' => (int) 9, 'can' => (int) 10, 'cansat' => (int) 6, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 5, 'cbr' => (int) 5, 'ccan' => (int) 5, 'cde' => (int) 4, 'cfa' => (int) 3, 'ccl' => (int) 6, 'cil' => (int) 4, 'cla' => (int) 3, 'col' => (int) 3, 'cpa' => (int) 3, 'cre' => (int) 7, 'csa' => (int) 5, 'camsi' => (int) 9, 'dca' => (int) 4, 'din' => (int) 5, 'dzi' => (int) 7, 'eca' => (int) 6, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 12, 'fve' => (int) 4, 'gma' => (int) 12, 'ghi' => (int) 17, 'gra' => (int) 9, 'vvi' => (int) 2, 'han' => (int) 8, 'cav' => (int) 5, 'hma' => (int) 9, 'vpl' => (int) 4, 'sun' => (int) 2, 'lal' => (int) 9, 'lja' => (int) 5, 'lonja' => (int) 6, 'lsa' => (int) 3, 'mes' => (int) 8, 'mpo' => (int) 3, 'mbi' => (int) 4, 'mco' => (int) 3, 'mdo' => (int) 5, 'mtr' => (int) 7, 'cme' => (int) 6, 'egut' => (int) 7, 'ama' => (int) 3, 'nta' => (int) 12, 'nnu' => (int) 9, 'oeu' => (int) 4, 'osa' => (int) 7, 'pax' => (int) 9, 'pgr' => (int) 5, 'stu' => (int) 8, 'pvu' => (int) 6, 'ptr' => (int) 9, 'ppa' => (int) 9, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 7, 'pso' => (int) 10, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 3, 'sbr' => (int) 8, 'sbo' => (int) 5, 'sci' => (int) 5, 'sed' => (int) 4, 'sgi' => (int) 4, 'sas' => (int) 4, 'smo' => (int) 5, 'sly' => (int) 7, 'spe' => (int) 10, 'spa' => (int) 5, 'tar' => (int) 5, 'tha' => (int) 8, 'tca' => (int) 3, 'esa' => (int) 5, 'tpr' => (int) 6, 'twi' => (int) 6, 'ugi' => (int) 4, 'vma' => (int) 1, 'vmu' => (int) 7, 'zma' => (int) 10 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb421930' $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' => 'HOM05D001025', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '592', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p22650' => 'bna', 'A01p29720' => 'bna', 'A03p26560' => 'bna', 'A03p68820' => 'bna', 'A04p20980' => 'bna', 'A06p07730' => 'bna', 'A07p18260' => 'bna', 'A08p33710' => 'bna', 'A09p16970' => 'bna', 'A10p27490' => 'bna', 'Aa31LG1G17300' => 'aar', 'Aa31LG1G3910' => 'aar', 'Aa31LG2G9630' => 'aar', 'Aa31LG5G8360' => 'aar', 'Aa31LG9G2410' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4699' => 'aag', 'Actinidia23512' => 'ach', 'Actinidia37080' => 'ach', 'Ah.01g020380' => 'amhyb', 'Ah.08g215710' => 'amhyb', 'Ah.09g225110' => 'amhyb', 'Ah.10g036680' => 'amhyb', 'AL1G21940' => 'aly', 'AL2G15540' => 'aly', 'AL4G21520' => 'aly', 'AL7G40960' => 'aly', 'Aqoxy2G01191' => 'aox', 'Aqoxy2G03393' => 'aox', 'Aqoxy4G02775' => 'aox', 'Aqoxy6G00058' => 'aox', 'arahy.Tifrunner.gnm1.ann1.9X74H2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CW3FX9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R485W7' => 'arhy', 'AT1G10960' => 'ath', 'AT1G60950' => 'ath', 'AT2G27510' => 'ath', 'AT4G14890' => 'ath', 'AT5G10000' => 'ath', 'ATR0665G624' => 'atr', 'ATR0697G138' => 'atr', 'ATR0776G046' => 'atr', 'ATR1134G135' => 'atr', 'Atru.chr12.1025' => 'acertr', 'Atru.chr3.3241' => 'acertr', 'Atru.chr4.2460' => 'acertr', 'AUR62007427' => 'cqu', 'AUR62010960' => 'cqu', 'AUR62012201' => 'cqu', 'AUR62021470' => 'cqu', 'AUR62022834' => 'cqu', 'AUR62033635' => 'cqu', 'AUR62036186' => 'cqu', 'BcaB01g03077' => 'bca', 'BcaB02g10093' => 'bca', 'BcaB04g20295' => 'bca', 'BcaB06g28147' => 'bca', 'BcaB07g31253' => 'bca', 'BcaC01g04946' => 'bca', 'BcaC02g10614' => 'bca', 'BcaC02g10885' => 'bca', 'BcaC04g19356' => 'bca', 'BcaC04g22297' => 'bca', 'BcaC05g24977' => 'bca', 'BcaC06g31823' => 'bca', 'BcaC07g38633' => 'bca', 'BcaC09g49353' => 'bca', 'BcaC09g50168' => 'bca', 'BcaNung00322' => 'bca', 'BcaNung04769' => 'bca', 'BolC1t02753H' => 'bol', 'BolC1t03721H' => 'bol', 'BolC3t15525H' => 'bol', 'BolC4t23903H' => 'bol', 'BolC4t24231H' => 'bol', 'BolC4t27209H' => 'bol', 'BolC5t29671H' => 'bol', 'BolC8t49044H' => 'bol', 'BolC9t54999H' => 'bol', 'BolC9t59517H' => 'bol', 'BraA01t02178Z' => 'bra', 'BraA01t03099Z' => 'bra', 'BraA03t11867Z' => 'bra', 'BraA04t17667Z' => 'bra', 'BraA07t29542Z' => 'bra', 'BraA08t35287Z' => 'bra', 'BraA09t37334Z' => 'bra', 'BraA10t44801Z' => 'bra', 'BraSC39t46181Z' => 'bra', 'C01p28240' => 'bna', 'C01p37530' => 'bna', 'C03p31820' => 'bna', 'C04p24080' => 'bna', 'C04p25790' => 'bna', 'C04p56770' => 'bna', 'C05p09310' => 'bna', 'C09p21010' => 'bna', 'C09p67560' => 'bna', 'CAN.G1324.7' => 'can', 'CAN.G1358.10' => 'can', 'CAN.G1550.2' => 'can', 'CAN.G186.56' => 'can', 'CAN.G1965.1' => 'can', 'CAN.G645.15' => 'can', 'CAN.G798.26' => 'can', 'CAN.G798.27' => 'can', 'CAN.G798.29' => 'can', 'CAN.G919.31' => 'can', 'CANSAT11G0133' => 'cansat', 'CANSAT11G1171' => 'cansat', 'CANSAT11G2056' => 'cansat', 'CANSAT56G1202' => 'cansat', 'CANSAT56G1514' => 'cansat', 'CANSAT78G0455' => 'cansat', 'CARHR011190' => 'chi', 'CARHR051980' => 'chi', 'CARHR120170' => 'chi', 'CARHR203310' => 'chi', 'CARHR221490' => 'chi', 'Carub.0001s1054' => 'cru', 'Carub.0002s0431' => 'cru', 'Carub.0004s0818' => 'cru', 'Carub.0006s0846' => 'cru', 'Carub.0007s2722' => 'cru', 'Ca_00058_v3' => 'car', 'Ca_17831_v3' => 'car', 'Ca_19408_v3' => 'car', 'Ca_24397_v3' => 'car', 'Ca_25664_v3' => 'car', 'CBR_g21818' => 'cbr', 'CBR_g31195' => 'cbr', 'CBR_g32282' => 'cbr', 'CBR_g39599' => 'cbr', 'CBR_g49410' => 'cbr', 'Cc01_g09120' => 'ccan', 'Cc01_g09130' => 'ccan', 'Cc02_g09630' => 'ccan', 'Cc02_g22810' => 'ccan', 'Cc03_g03810' => 'ccan', 'CDE02G3718' => 'cde', 'CDE04G3183' => 'cde', 'CDE07G1046' => 'cde', 'CDE08G0480' => 'cde', 'Cfa005493' => 'cfa', 'Cfa010312' => 'cfa', 'Cfa015648' => 'cfa', 'Ciclev10002793m.g' => 'ccl', 'Ciclev10003356m.g' => 'ccl', 'Ciclev10006141m.g' => 'ccl', 'Ciclev10016676m.g' => 'ccl', 'Ciclev10017081m.g' => 'ccl', 'Ciclev10029499m.g' => 'ccl', 'CiPaw.01G166300' => 'cil', 'CiPaw.06G145600' => 'cil', 'CiPaw.13G040100' => 'cil', 'CiPaw.13G135800' => 'cil', 'ClCG01G012230' => 'cla', 'ClCG05G009510' => 'cla', 'ClCG08G008270' => 'cla', 'COL.COLO4_11763' => 'col', 'COL.COLO4_19876' => 'col', 'COL.COLO4_21481' => 'col', 'Cpa.g.sc118.34' => 'cpa', 'Cpa.g.sc32.13' => 'cpa', 'Cpa.g.sc58.103' => 'cpa', 'Cre03.g183850' => 'cre', 'Cre06.g306350' => 'cre', 'Cre07.g334800' => 'cre', 'Cre12.g487900' => 'cre', 'Cre14.g626700' => 'cre', 'Cre16.g658400' => 'cre', 'Cre17.g700950' => 'cre', 'CsaV3_1G014830' => 'csa', 'CsaV3_3G013320' => 'csa', 'CsaV3_3G019210' => 'csa', 'CsaV3_3G019220' => 'csa', 'CsaV3_6G004230' => 'csa', 'CSS0003773' => 'camsi', 'CSS0004563' => 'camsi', 'CSS0013949' => 'camsi', 'CSS0025971' => 'camsi', 'CSS0028570' => 'camsi', 'CSS0033127' => 'camsi', 'CSS0036051' => 'camsi', 'CSS0040087' => 'camsi', 'CSS0043179' => 'camsi', 'DCAR_006161' => 'dca', 'DCAR_010351' => 'dca', 'DCAR_012197' => 'dca', 'DCAR_024162' => 'dca', 'Dinv01030' => 'din', 'Dinv10924' => 'din', 'Dinv11835' => 'din', 'Dinv22841' => 'din', 'Dinv42553' => 'din', 'Duzib052G0560' => 'dzi', 'Duzib132G0389' => 'dzi', 'Duzib150G1181' => 'dzi', 'Duzib168G0623' => 'dzi', 'Duzib170G1036' => 'dzi', 'Duzib212G0200' => 'dzi', 'Duzib248G0194' => 'dzi', 'ECA232G2193' => 'eca', 'ECA233G0302' => 'eca', 'ECA234G2813' => 'eca', 'ECA234G4866' => 'eca', 'ECA240G3932' => 'eca', 'ECA248G0385' => 'eca', 'EL10Ac2g04781' => 'bvu', 'EL10Ac3g06445' => 'bvu', 'EL10Ac7g15825' => 'bvu', 'EL10Ac8g18550' => 'bvu', 'Eucgr.B03849' => 'egr', 'Eucgr.I02744' => 'egr', 'Eucgr.J00264' => 'egr', 'Eucgr.J00493' => 'egr', 'FAN04G2181' => 'fan', 'FAN07G2666' => 'fan', 'FAN11G0024' => 'fan', 'FAN12G1105' => 'fan', 'FAN13G0302' => 'fan', 'FAN15G2781' => 'fan', 'FAN16G1274' => 'fan', 'FAN17G2988' => 'fan', 'FAN18G2621' => 'fan', 'FAN21G0013' => 'fan', 'FAN22G1211' => 'fan', 'FAN25G3626' => 'fan', 'FvH4_2g09491' => 'fve', 'FvH4_3g24910' => 'fve', 'FvH4_4g15630' => 'fve', 'FvH4_5g28820' => 'fve', 'Glyma.01G238000' => 'gma', 'Glyma.05G168400' => 'gma', 'Glyma.08G126800' => 'gma', 'Glyma.08G188500' => 'gma', 'Glyma.10G278900' => 'gma', 'Glyma.11G005700' => 'gma', 'Glyma.11G183300' => 'gma', 'Glyma.12G089200' => 'gma', 'Glyma.12G169400' => 'gma', 'Glyma.12G169500' => 'gma', 'Glyma.12G169600' => 'gma', 'Glyma.20G110800' => 'gma', 'Gohir.A03G192900' => 'ghi', 'Gohir.A03G193000' => 'ghi', 'Gohir.A05G080700' => 'ghi', 'Gohir.A09G216000' => 'ghi', 'Gohir.A12G027700' => 'ghi', 'Gohir.A13G036200' => 'ghi', 'Gohir.A13G222600' => 'ghi', 'Gohir.D02G213900' => 'ghi', 'Gohir.D02G214000' => 'ghi', 'Gohir.D05G083700' => 'ghi', 'Gohir.D05G083800' => 'ghi', 'Gohir.D05G083850' => 'ghi', 'Gohir.D08G015400' => 'ghi', 'Gohir.D09G218400' => 'ghi', 'Gohir.D12G027100' => 'ghi', 'Gohir.D13G034500' => 'ghi', 'Gohir.D13G227400' => 'ghi', 'Gorai.005G241800' => 'gra', 'Gorai.005G241900' => 'gra', 'Gorai.006G239400' => 'gra', 'Gorai.008G027600' => 'gra', 'Gorai.009G085400' => 'gra', 'Gorai.009G085500' => 'gra', 'Gorai.013G039000' => 'gra', 'Gorai.013G194800' => 'gra', 'Gorai.013G257900' => 'gra', 'GSVIVG01000982001' => 'vvi', 'GSVIVG01017981001' => 'vvi', 'HanXRQChr01g0024061' => 'han', 'HanXRQChr09g0247831' => 'han', 'HanXRQChr10g0294611' => 'han', 'HanXRQChr10g0294621' => 'han', 'HanXRQChr11g0346821' => 'han', 'HanXRQChr13g0397461' => 'han', 'HanXRQChr16g0513651' => 'han', 'HanXRQChr16g0513701' => 'han', 'Haze_00897' => 'cav', 'Haze_01745' => 'cav', 'Haze_02486' => 'cav', 'Haze_02487' => 'cav', 'Haze_23374' => 'cav', 'Hma1.2p1_0578F.1_g182520' => 'hma', 'Hma1.2p1_0602F.1_g187350' => 'hma', 'Hma1.2p1_0602F.1_g187360' => 'hma', 'Hma1.2p1_0874F.1_g231320' => 'hma', 'Hma1.2p1_1197F.1_g266210' => 'hma', 'Hma1.2p1_1197F.1_g266220' => 'hma', 'Hma1.2p1_2167F.1_g315895' => 'hma', 'Hma1.2p1_2190F.1_g316640' => 'hma', 'Hma1.2p1_3645F.1_g337153' => 'hma', 'HPP92_004907' => 'vpl', 'HPP92_012134' => 'vpl', 'HPP92_025136' => 'vpl', 'HPP92_026087' => 'vpl', 'Hund06782' => 'sun', 'Hund06784' => 'sun', 'Lalb_Chr01g0004861' => 'lal', 'Lalb_Chr02g0140591' => 'lal', 'Lalb_Chr02g0140611' => 'lal', 'Lalb_Chr03g0028101' => 'lal', 'Lalb_Chr07g0185791' => 'lal', 'Lalb_Chr12g0204491' => 'lal', 'Lalb_Chr13g0295671' => 'lal', 'Lalb_Chr19g0136461' => 'lal', 'Lalb_Chr21g0309191' => 'lal', 'Lj1g0028158' => 'lja', 'Lj1P236T38' => 'lonja', 'Lj2C32G2' => 'lonja', 'Lj2P944T8' => 'lonja', 'Lj2P963T15' => 'lonja', 'Lj3g0011788' => 'lja', 'Lj4g0025027' => 'lja', 'Lj5P255T36' => 'lonja', 'Lj6g0018866' => 'lja', 'Lj6P608T31' => 'lonja', 'LjContig00408g0008879' => 'lja', 'Lsat_1_v5_gn_5_105820' => 'lsa', 'Lsat_1_v5_gn_6_38800' => 'lsa', 'Lsat_1_v5_gn_7_67141' => 'lsa', 'Manes.04G003400' => 'mes', 'Manes.07G020000' => 'mes', 'Manes.07G020100' => 'mes', 'Manes.07G020150' => 'mes', 'Manes.10G061500' => 'mes', 'Manes.10G123200' => 'mes', 'Manes.11G161900' => 'mes', 'Manes.15G029300' => 'mes', 'Mapoly0071s0018' => 'mpo', 'Mapoly0082s0023' => 'mpo', 'Mapoly3477s0001' => 'mpo', 'MBI05_g31233_MAGBIO' => 'mbi', 'MBI09_g05946_MAGBIO' => 'mbi', 'MBI09_g05947_MAGBIO' => 'mbi', 'MBI17_g08346_MAGBIO' => 'mbi', 'MCO04G038' => 'mco', 'MCO09G370' => 'mco', 'MCO13G605' => 'mco', 'MD00G1075500' => 'mdo', 'MD03G1144300' => 'mdo', 'MD08G1236800' => 'mdo', 'MD13G1193300' => 'mdo', 'MD15G1428700' => 'mdo', 'Medtr1g112030' => 'mtr', 'Medtr1g112050' => 'mtr', 'Medtr2g006290' => 'mtr', 'Medtr2g086510' => 'mtr', 'Medtr4g053120' => 'mtr', 'Medtr5g006320' => 'mtr', 'Medtr8g088720' => 'mtr', 'MELO3C004712.2' => 'cme', 'MELO3C006533.2' => 'cme', 'MELO3C019438.2' => 'cme', 'MELO3C019440.2' => 'cme', 'MELO3C019441.2' => 'cme', 'MELO3C019895.2' => 'cme', 'Migut.B00811' => 'egut', 'Migut.D02447' => 'egut', 'Migut.F00875' => 'egut', 'Migut.N00186' => 'egut', 'Migut.N01051' => 'egut', 'Migut.N02491' => 'egut', 'Migut.O00784' => 'egut', 'MSTRG.12367' => 'ama', 'MSTRG.18756' => 'ama', 'MSTRG.21042' => 'ama', 'Nitab4.5_0000559g0040' => 'nta', 'Nitab4.5_0000667g0190' => 'nta', 'Nitab4.5_0000755g0160' => 'nta', 'Nitab4.5_0001216g0080' => 'nta', 'Nitab4.5_0004069g0040' => 'nta', 'Nitab4.5_0004129g0010' => 'nta', 'Nitab4.5_0005744g0030' => 'nta', 'Nitab4.5_0006996g0030' => 'nta', 'Nitab4.5_0008971g0040' => 'nta', 'Nitab4.5_0009769g0020' => 'nta', 'Nitab4.5_0009833g0010' => 'nta', 'Nitab4.5_0013140g0020' => 'nta', 'Nn003s41376' => 'nnu', 'Nn1g01857' => 'nnu', 'Nn1g03611' => 'nnu', 'Nn1g06853' => 'nnu', 'Nn3g18360' => 'nnu', 'Nn4g26328' => 'nnu', 'Nn5g27531' => 'nnu', 'Nn6g34899' => 'nnu', 'Nn7g36299' => 'nnu', 'Oeu021485.1' => 'oeu', 'Oeu022433.1' => 'oeu', 'Oeu032111.1' => 'oeu', 'Oeu051608.1' => 'oeu', 'Os01g0860601' => 'osa', 'Os03g0659200' => 'osa', 'Os03g0835900' => 'osa', 'Os04g0412200' => 'osa', 'Os05g0443500' => 'osa', 'Os07g0251500' => 'osa', 'Os08g0104600' => 'osa', 'Peaxi162Scf00003g00047' => 'pax', 'Peaxi162Scf00003g00052' => 'pax', 'Peaxi162Scf00003g00394' => 'pax', 'Peaxi162Scf00091g00621' => 'pax', 'Peaxi162Scf00152g00146' => 'pax', 'Peaxi162Scf00173g00025' => 'pax', 'Peaxi162Scf00195g00102' => 'pax', 'Peaxi162Scf00402g00013' => 'pax', 'Peaxi162Scf00519g00618' => 'pax', 'PGR004G2838' => 'pgr', 'PGR044G2275' => 'pgr', 'PGR102G1377' => 'pgr', 'PGR119G1245' => 'pgr', 'PGR142G4449' => 'pgr', 'PGSC0003DMG400004532' => 'stu', 'PGSC0003DMG400011950' => 'stu', 'PGSC0003DMG400023391' => 'stu', 'PGSC0003DMG400023985' => 'stu', 'PGSC0003DMG400026360' => 'stu', 'PGSC0003DMG400035711' => 'stu', 'PGSC0003DMG400037286' => 'stu', 'PGSC0003DMG402005881' => 'stu', 'Phvul.002G045400' => 'pvu', 'Phvul.006G216600' => 'pvu', 'Phvul.006G216700' => 'pvu', 'Phvul.006G216800' => 'pvu', 'Phvul.007G022500' => 'pvu', 'Phvul.011G094400' => 'pvu', 'Potri.001G470700' => 'ptr', 'Potri.003G015200' => 'ptr', 'Potri.004G202500' => 'ptr', 'Potri.004G218400' => 'ptr', 'Potri.008G020100' => 'ptr', 'Potri.008G153200' => 'ptr', 'Potri.009G163800' => 'ptr', 'Potri.010G087300' => 'ptr', 'Potri.010G239100' => 'ptr', 'Pp3c10_16100' => 'ppa', 'Pp3c10_16880' => 'ppa', 'Pp3c16_6230' => 'ppa', 'Pp3c17_18910' => 'ppa', 'Pp3c3_22119' => 'ppa', 'Pp3c3_22140' => 'ppa', 'Pp3c4_8159' => 'ppa', 'Pp3c4_8171' => 'ppa', 'Pp3c4_8330' => 'ppa', 'PRCOL_00004098' => 'pco', 'Prupe.1G013900' => 'ppe', 'Prupe.1G226300' => 'ppe', 'Prupe.1G573600' => 'ppe', 'Prupe.6G130100' => 'ppe', 'Psat3g090040' => 'psa', 'Psat4g210440' => 'psa', 'Psat6g231040' => 'psa', 'Psat6g231080' => 'psa', 'Psat7g063000' => 'psa', 'Psat7g188000' => 'psa', 'Psat7g188040' => 'psa', 'PSO017G0206' => 'pso', 'PSO170G0501' => 'pso', 'PSO170G6422' => 'pso', 'PSO210G7739' => 'pso', 'PSO339G1808' => 'pso', 'PSO339G6135' => 'pso', 'PSO384G0010' => 'pso', 'PSO384G0964' => 'pso', 'PSO761G0050' => 'pso', 'PSO782G4085' => 'pso', 'QL01p012264' => 'qlo', 'QL02p099491' => 'qlo', 'QL03p033868' => 'qlo', 'QL04p046678' => 'qlo', 'QL06p002448' => 'qlo', 'RcHm_v2.0_Chr4g0416181' => 'rch', 'RcHm_v2.0_Chr5g0044701' => 'rch', 'RcHm_v2.0_Chr6g0265781' => 'rch', 'RcHm_v2.0_Chr7g0221031' => 'rch', 'Rhsim04G0202000' => 'rsi', 'Rhsim11G0127300' => 'rsi', 'Rhsim13G0111800' => 'rsi', 'Sabra01G0165600' => 'sbr', 'Sabra03G0008300' => 'sbr', 'Sabra04G0136900' => 'sbr', 'Sabra08G0013400' => 'sbr', 'Sabra08G0116800' => 'sbr', 'Sabra09G0128000' => 'sbr', 'Sabra10G0055500' => 'sbr', 'Sabra10G0073300' => 'sbr', 'SalBow3G0385' => 'sbo', 'SalBow3G1119' => 'sbo', 'SalBow3G2005' => 'sbo', 'SalBow6G2563' => 'sbo', 'SalBow6G6386' => 'sbo', 'Sc06g0008800' => 'sci', 'Sc07g0004950' => 'sci', 'Sc09g0005340' => 'sci', 'Sc13g0004410' => 'sci', 'Sc21g0007090' => 'sci', 'Sed0009285' => 'sed', 'Sed0017583' => 'sed', 'Sed0019699' => 'sed', 'Sed0023107' => 'sed', 'SEGI_10916' => 'sgi', 'SEGI_16217' => 'sgi', 'SEGI_19466' => 'sgi', 'SEGI_41115' => 'sgi', 'SGA_v2.0_scaffold111G31534' => 'sas', 'SGA_v2.0_scaffold22G09864' => 'sas', 'SGA_v2.0_scaffold338G49219' => 'sas', 'SGA_v2.0_scaffold92G28298' => 'sas', 'SMO119G0064' => 'smo', 'SMO223G0038' => 'smo', 'SMO347G0584' => 'smo', 'SMO351G0010' => 'smo', 'SMO356G0404' => 'smo', 'Solyc01g103920.3' => 'sly', 'Solyc04g009710.2' => 'sly', 'Solyc05g055280.2' => 'sly', 'Solyc10g044520.3' => 'sly', 'Solyc10g075160.1' => 'sly', 'Solyc11g006910.3' => 'sly', 'Solyc11g068430.3' => 'sly', 'Sopen01g046310' => 'spe', 'Sopen03g001200' => 'spe', 'Sopen04g004830' => 'spe', 'Sopen05g033720' => 'spe', 'Sopen06g030740' => 'spe', 'Sopen10g013090' => 'spe', 'Sopen10g027630' => 'spe', 'Sopen10g027640' => 'spe', 'Sopen11g002820' => 'spe', 'Sopen11g027140' => 'spe', 'Sp1g09680' => 'spa', 'Sp2g03630' => 'spa', 'Sp4g10320' => 'spa', 'Sp6g33400' => 'spa', 'Sp7g13030' => 'spa', 'TAR365G0317' => 'tar', 'TAR376G0979' => 'tar', 'TAR623G1665' => 'tar', 'TAR633G2373' => 'tar', 'TAR636G1400' => 'tar', 'THA.LOC104800529' => 'tha', 'THA.LOC104808547' => 'tha', 'THA.LOC104809615' => 'tha', 'THA.LOC104815724' => 'tha', 'THA.LOC104818480' => 'tha', 'THA.LOC104819179' => 'tha', 'THA.LOC104822270' => 'tha', 'THA.LOC104826425' => 'tha', 'Thecc.02G089700' => 'tca', 'Thecc.04G232300' => 'tca', 'Thecc.09G283400' => 'tca', 'Thhalv10009020m.g' => 'esa', 'Thhalv10015506m.g' => 'esa', 'Thhalv10017364m.g' => 'esa', 'Thhalv10023742m.g' => 'esa', 'Thhalv10026483m.g' => 'esa', 'TPR.G17232' => 'tpr', 'TPR.G2133' => 'tpr', 'TPR.G2498' => 'tpr', 'TPR.G31942' => 'tpr', 'TPR.G37877' => 'tpr', 'TPR.G4571' => 'tpr', 'TWI14G1113' => 'twi', 'TWI15G0426' => 'twi', 'TWI31G1005' => 'twi', 'TWI38G0513' => 'twi', 'TWI38G1484' => 'twi', 'TWI73G1098' => 'twi', 'unitig_26.g10519' => 'ugi', 'unitig_736.g22395' => 'ugi', 'unitig_747.g21234' => 'ugi', 'unitig_747.g21942' => 'ugi', 'vmacro14351' => 'vma', 'VMungo0540G0082' => 'vmu', 'VMungo0540G0405' => 'vmu', 'VMungo0540G1486' => 'vmu', 'VMungo0540G1692' => 'vmu', 'VMungo0720G2473' => 'vmu', 'VMungo1127G1562' => 'vmu', 'VMungo1215G1918' => 'vmu', 'Zm00001eb052650' => 'zma', 'Zm00001eb063710' => 'zma', 'Zm00001eb083950' => 'zma', 'Zm00001eb174420' => 'zma', 'Zm00001eb260140' => 'zma', 'Zm00001eb260150' => 'zma', 'Zm00001eb260160' => 'zma', 'Zm00001eb348290' => 'zma', 'Zm00001eb366870' => 'zma', 'Zm00001eb421930' => 'zma' ), 'gf_id' => 'HOM05D001025', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001025' ), 'data_identifier' => 'HOM05D001025', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001025', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '592', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p22650' => 'bna', 'A01p29720' => 'bna', 'A03p26560' => 'bna', 'A03p68820' => 'bna', 'A04p20980' => 'bna', 'A06p07730' => 'bna', 'A07p18260' => 'bna', 'A08p33710' => 'bna', 'A09p16970' => 'bna', 'A10p27490' => 'bna', 'Aa31LG1G17300' => 'aar', 'Aa31LG1G3910' => 'aar', 'Aa31LG2G9630' => 'aar', 'Aa31LG5G8360' => 'aar', 'Aa31LG9G2410' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4699' => 'aag', 'Actinidia23512' => 'ach', 'Actinidia37080' => 'ach', 'Ah.01g020380' => 'amhyb', 'Ah.08g215710' => 'amhyb', 'Ah.09g225110' => 'amhyb', 'Ah.10g036680' => 'amhyb', 'AL1G21940' => 'aly', 'AL2G15540' => 'aly', 'AL4G21520' => 'aly', 'AL7G40960' => 'aly', 'Aqoxy2G01191' => 'aox', 'Aqoxy2G03393' => 'aox', 'Aqoxy4G02775' => 'aox', 'Aqoxy6G00058' => 'aox', 'arahy.Tifrunner.gnm1.ann1.9X74H2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CW3FX9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R485W7' => 'arhy', 'AT1G10960' => 'ath', 'AT1G60950' => 'ath', 'AT2G27510' => 'ath', 'AT4G14890' => 'ath', 'AT5G10000' => 'ath', 'ATR0665G624' => 'atr', 'ATR0697G138' => 'atr', 'ATR0776G046' => 'atr', 'ATR1134G135' => 'atr', 'Atru.chr12.1025' => 'acertr', 'Atru.chr3.3241' => 'acertr', 'Atru.chr4.2460' => 'acertr', 'AUR62007427' => 'cqu', 'AUR62010960' => 'cqu', 'AUR62012201' => 'cqu', 'AUR62021470' => 'cqu', 'AUR62022834' => 'cqu', 'AUR62033635' => 'cqu', 'AUR62036186' => 'cqu', 'BcaB01g03077' => 'bca', 'BcaB02g10093' => 'bca', 'BcaB04g20295' => 'bca', 'BcaB06g28147' => 'bca', 'BcaB07g31253' => 'bca', 'BcaC01g04946' => 'bca', 'BcaC02g10614' => 'bca', 'BcaC02g10885' => 'bca', 'BcaC04g19356' => 'bca', 'BcaC04g22297' => 'bca', 'BcaC05g24977' => 'bca', 'BcaC06g31823' => 'bca', 'BcaC07g38633' => 'bca', 'BcaC09g49353' => 'bca', 'BcaC09g50168' => 'bca', 'BcaNung00322' => 'bca', 'BcaNung04769' => 'bca', 'BolC1t02753H' => 'bol', 'BolC1t03721H' => 'bol', 'BolC3t15525H' => 'bol', 'BolC4t23903H' => 'bol', 'BolC4t24231H' => 'bol', 'BolC4t27209H' => 'bol', 'BolC5t29671H' => 'bol', 'BolC8t49044H' => 'bol', 'BolC9t54999H' => 'bol', 'BolC9t59517H' => 'bol', 'BraA01t02178Z' => 'bra', 'BraA01t03099Z' => 'bra', 'BraA03t11867Z' => 'bra', 'BraA04t17667Z' => 'bra', 'BraA07t29542Z' => 'bra', 'BraA08t35287Z' => 'bra', 'BraA09t37334Z' => 'bra', 'BraA10t44801Z' => 'bra', 'BraSC39t46181Z' => 'bra', 'C01p28240' => 'bna', 'C01p37530' => 'bna', 'C03p31820' => 'bna', 'C04p24080' => 'bna', 'C04p25790' => 'bna', 'C04p56770' => 'bna', 'C05p09310' => 'bna', 'C09p21010' => 'bna', 'C09p67560' => 'bna', 'CAN.G1324.7' => 'can', 'CAN.G1358.10' => 'can', 'CAN.G1550.2' => 'can', 'CAN.G186.56' => 'can', 'CAN.G1965.1' => 'can', 'CAN.G645.15' => 'can', 'CAN.G798.26' => 'can', 'CAN.G798.27' => 'can', 'CAN.G798.29' => 'can', 'CAN.G919.31' => 'can', 'CANSAT11G0133' => 'cansat', 'CANSAT11G1171' => 'cansat', 'CANSAT11G2056' => 'cansat', 'CANSAT56G1202' => 'cansat', 'CANSAT56G1514' => 'cansat', 'CANSAT78G0455' => 'cansat', 'CARHR011190' => 'chi', 'CARHR051980' => 'chi', 'CARHR120170' => 'chi', 'CARHR203310' => 'chi', 'CARHR221490' => 'chi', 'Carub.0001s1054' => 'cru', 'Carub.0002s0431' => 'cru', 'Carub.0004s0818' => 'cru', 'Carub.0006s0846' => 'cru', 'Carub.0007s2722' => 'cru', 'Ca_00058_v3' => 'car', 'Ca_17831_v3' => 'car', 'Ca_19408_v3' => 'car', 'Ca_24397_v3' => 'car', 'Ca_25664_v3' => 'car', 'CBR_g21818' => 'cbr', 'CBR_g31195' => 'cbr', 'CBR_g32282' => 'cbr', 'CBR_g39599' => 'cbr', 'CBR_g49410' => 'cbr', 'Cc01_g09120' => 'ccan', 'Cc01_g09130' => 'ccan', 'Cc02_g09630' => 'ccan', 'Cc02_g22810' => 'ccan', 'Cc03_g03810' => 'ccan', 'CDE02G3718' => 'cde', 'CDE04G3183' => 'cde', 'CDE07G1046' => 'cde', 'CDE08G0480' => 'cde', 'Cfa005493' => 'cfa', 'Cfa010312' => 'cfa', 'Cfa015648' => 'cfa', 'Ciclev10002793m.g' => 'ccl', 'Ciclev10003356m.g' => 'ccl', 'Ciclev10006141m.g' => 'ccl', 'Ciclev10016676m.g' => 'ccl', 'Ciclev10017081m.g' => 'ccl', 'Ciclev10029499m.g' => 'ccl', 'CiPaw.01G166300' => 'cil', 'CiPaw.06G145600' => 'cil', 'CiPaw.13G040100' => 'cil', 'CiPaw.13G135800' => 'cil', 'ClCG01G012230' => 'cla', 'ClCG05G009510' => 'cla', 'ClCG08G008270' => 'cla', 'COL.COLO4_11763' => 'col', 'COL.COLO4_19876' => 'col', 'COL.COLO4_21481' => 'col', 'Cpa.g.sc118.34' => 'cpa', 'Cpa.g.sc32.13' => 'cpa', 'Cpa.g.sc58.103' => 'cpa', 'Cre03.g183850' => 'cre', 'Cre06.g306350' => 'cre', 'Cre07.g334800' => 'cre', 'Cre12.g487900' => 'cre', 'Cre14.g626700' => 'cre', 'Cre16.g658400' => 'cre', 'Cre17.g700950' => 'cre', 'CsaV3_1G014830' => 'csa', 'CsaV3_3G013320' => 'csa', 'CsaV3_3G019210' => 'csa', 'CsaV3_3G019220' => 'csa', 'CsaV3_6G004230' => 'csa', 'CSS0003773' => 'camsi', 'CSS0004563' => 'camsi', 'CSS0013949' => 'camsi', 'CSS0025971' => 'camsi', 'CSS0028570' => 'camsi', 'CSS0033127' => 'camsi', 'CSS0036051' => 'camsi', 'CSS0040087' => 'camsi', 'CSS0043179' => 'camsi', 'DCAR_006161' => 'dca', 'DCAR_010351' => 'dca', 'DCAR_012197' => 'dca', 'DCAR_024162' => 'dca', 'Dinv01030' => 'din', 'Dinv10924' => 'din', 'Dinv11835' => 'din', 'Dinv22841' => 'din', 'Dinv42553' => 'din', 'Duzib052G0560' => 'dzi', 'Duzib132G0389' => 'dzi', 'Duzib150G1181' => 'dzi', 'Duzib168G0623' => 'dzi', 'Duzib170G1036' => 'dzi', 'Duzib212G0200' => 'dzi', 'Duzib248G0194' => 'dzi', 'ECA232G2193' => 'eca', 'ECA233G0302' => 'eca', 'ECA234G2813' => 'eca', 'ECA234G4866' => 'eca', 'ECA240G3932' => 'eca', 'ECA248G0385' => 'eca', 'EL10Ac2g04781' => 'bvu', 'EL10Ac3g06445' => 'bvu', 'EL10Ac7g15825' => 'bvu', 'EL10Ac8g18550' => 'bvu', 'Eucgr.B03849' => 'egr', 'Eucgr.I02744' => 'egr', 'Eucgr.J00264' => 'egr', 'Eucgr.J00493' => 'egr', 'FAN04G2181' => 'fan', 'FAN07G2666' => 'fan', 'FAN11G0024' => 'fan', 'FAN12G1105' => 'fan', 'FAN13G0302' => 'fan', 'FAN15G2781' => 'fan', 'FAN16G1274' => 'fan', 'FAN17G2988' => 'fan', 'FAN18G2621' => 'fan', 'FAN21G0013' => 'fan', 'FAN22G1211' => 'fan', 'FAN25G3626' => 'fan', 'FvH4_2g09491' => 'fve', 'FvH4_3g24910' => 'fve', 'FvH4_4g15630' => 'fve', 'FvH4_5g28820' => 'fve', 'Glyma.01G238000' => 'gma', 'Glyma.05G168400' => 'gma', 'Glyma.08G126800' => 'gma', 'Glyma.08G188500' => 'gma', 'Glyma.10G278900' => 'gma', 'Glyma.11G005700' => 'gma', 'Glyma.11G183300' => 'gma', 'Glyma.12G089200' => 'gma', 'Glyma.12G169400' => 'gma', 'Glyma.12G169500' => 'gma', 'Glyma.12G169600' => 'gma', 'Glyma.20G110800' => 'gma', 'Gohir.A03G192900' => 'ghi', 'Gohir.A03G193000' => 'ghi', 'Gohir.A05G080700' => 'ghi', 'Gohir.A09G216000' => 'ghi', 'Gohir.A12G027700' => 'ghi', 'Gohir.A13G036200' => 'ghi', 'Gohir.A13G222600' => 'ghi', 'Gohir.D02G213900' => 'ghi', 'Gohir.D02G214000' => 'ghi', 'Gohir.D05G083700' => 'ghi', 'Gohir.D05G083800' => 'ghi', 'Gohir.D05G083850' => 'ghi', 'Gohir.D08G015400' => 'ghi', 'Gohir.D09G218400' => 'ghi', 'Gohir.D12G027100' => 'ghi', 'Gohir.D13G034500' => 'ghi', 'Gohir.D13G227400' => 'ghi', 'Gorai.005G241800' => 'gra', 'Gorai.005G241900' => 'gra', 'Gorai.006G239400' => 'gra', 'Gorai.008G027600' => 'gra', 'Gorai.009G085400' => 'gra', 'Gorai.009G085500' => 'gra', 'Gorai.013G039000' => 'gra', 'Gorai.013G194800' => 'gra', 'Gorai.013G257900' => 'gra', 'GSVIVG01000982001' => 'vvi', 'GSVIVG01017981001' => 'vvi', 'HanXRQChr01g0024061' => 'han', 'HanXRQChr09g0247831' => 'han', 'HanXRQChr10g0294611' => 'han', 'HanXRQChr10g0294621' => 'han', 'HanXRQChr11g0346821' => 'han', 'HanXRQChr13g0397461' => 'han', 'HanXRQChr16g0513651' => 'han', 'HanXRQChr16g0513701' => 'han', 'Haze_00897' => 'cav', 'Haze_01745' => 'cav', 'Haze_02486' => 'cav', 'Haze_02487' => 'cav', 'Haze_23374' => 'cav', 'Hma1.2p1_0578F.1_g182520' => 'hma', 'Hma1.2p1_0602F.1_g187350' => 'hma', 'Hma1.2p1_0602F.1_g187360' => 'hma', 'Hma1.2p1_0874F.1_g231320' => 'hma', 'Hma1.2p1_1197F.1_g266210' => 'hma', 'Hma1.2p1_1197F.1_g266220' => 'hma', 'Hma1.2p1_2167F.1_g315895' => 'hma', 'Hma1.2p1_2190F.1_g316640' => 'hma', 'Hma1.2p1_3645F.1_g337153' => 'hma', 'HPP92_004907' => 'vpl', 'HPP92_012134' => 'vpl', 'HPP92_025136' => 'vpl', 'HPP92_026087' => 'vpl', 'Hund06782' => 'sun', 'Hund06784' => 'sun', 'Lalb_Chr01g0004861' => 'lal', 'Lalb_Chr02g0140591' => 'lal', 'Lalb_Chr02g0140611' => 'lal', 'Lalb_Chr03g0028101' => 'lal', 'Lalb_Chr07g0185791' => 'lal', 'Lalb_Chr12g0204491' => 'lal', 'Lalb_Chr13g0295671' => 'lal', 'Lalb_Chr19g0136461' => 'lal', 'Lalb_Chr21g0309191' => 'lal', 'Lj1g0028158' => 'lja', 'Lj1P236T38' => 'lonja', 'Lj2C32G2' => 'lonja', 'Lj2P944T8' => 'lonja', 'Lj2P963T15' => 'lonja', 'Lj3g0011788' => 'lja', 'Lj4g0025027' => 'lja', 'Lj5P255T36' => 'lonja', 'Lj6g0018866' => 'lja', 'Lj6P608T31' => 'lonja', 'LjContig00408g0008879' => 'lja', 'Lsat_1_v5_gn_5_105820' => 'lsa', 'Lsat_1_v5_gn_6_38800' => 'lsa', 'Lsat_1_v5_gn_7_67141' => 'lsa', 'Manes.04G003400' => 'mes', 'Manes.07G020000' => 'mes', 'Manes.07G020100' => 'mes', 'Manes.07G020150' => 'mes', 'Manes.10G061500' => 'mes', 'Manes.10G123200' => 'mes', 'Manes.11G161900' => 'mes', 'Manes.15G029300' => 'mes', 'Mapoly0071s0018' => 'mpo', 'Mapoly0082s0023' => 'mpo', 'Mapoly3477s0001' => 'mpo', 'MBI05_g31233_MAGBIO' => 'mbi', 'MBI09_g05946_MAGBIO' => 'mbi', 'MBI09_g05947_MAGBIO' => 'mbi', 'MBI17_g08346_MAGBIO' => 'mbi', 'MCO04G038' => 'mco', 'MCO09G370' => 'mco', 'MCO13G605' => 'mco', 'MD00G1075500' => 'mdo', 'MD03G1144300' => 'mdo', 'MD08G1236800' => 'mdo', 'MD13G1193300' => 'mdo', 'MD15G1428700' => 'mdo', 'Medtr1g112030' => 'mtr', 'Medtr1g112050' => 'mtr', 'Medtr2g006290' => 'mtr', 'Medtr2g086510' => 'mtr', 'Medtr4g053120' => 'mtr', 'Medtr5g006320' => 'mtr', 'Medtr8g088720' => 'mtr', 'MELO3C004712.2' => 'cme', 'MELO3C006533.2' => 'cme', 'MELO3C019438.2' => 'cme', 'MELO3C019440.2' => 'cme', 'MELO3C019441.2' => 'cme', 'MELO3C019895.2' => 'cme', 'Migut.B00811' => 'egut', 'Migut.D02447' => 'egut', 'Migut.F00875' => 'egut', 'Migut.N00186' => 'egut', 'Migut.N01051' => 'egut', 'Migut.N02491' => 'egut', 'Migut.O00784' => 'egut', 'MSTRG.12367' => 'ama', 'MSTRG.18756' => 'ama', 'MSTRG.21042' => 'ama', 'Nitab4.5_0000559g0040' => 'nta', 'Nitab4.5_0000667g0190' => 'nta', 'Nitab4.5_0000755g0160' => 'nta', 'Nitab4.5_0001216g0080' => 'nta', 'Nitab4.5_0004069g0040' => 'nta', 'Nitab4.5_0004129g0010' => 'nta', 'Nitab4.5_0005744g0030' => 'nta', 'Nitab4.5_0006996g0030' => 'nta', 'Nitab4.5_0008971g0040' => 'nta', 'Nitab4.5_0009769g0020' => 'nta', 'Nitab4.5_0009833g0010' => 'nta', 'Nitab4.5_0013140g0020' => 'nta', 'Nn003s41376' => 'nnu', 'Nn1g01857' => 'nnu', 'Nn1g03611' => 'nnu', 'Nn1g06853' => 'nnu', 'Nn3g18360' => 'nnu', 'Nn4g26328' => 'nnu', 'Nn5g27531' => 'nnu', 'Nn6g34899' => 'nnu', 'Nn7g36299' => 'nnu', 'Oeu021485.1' => 'oeu', 'Oeu022433.1' => 'oeu', 'Oeu032111.1' => 'oeu', 'Oeu051608.1' => 'oeu', 'Os01g0860601' => 'osa', 'Os03g0659200' => 'osa', 'Os03g0835900' => 'osa', 'Os04g0412200' => 'osa', 'Os05g0443500' => 'osa', 'Os07g0251500' => 'osa', 'Os08g0104600' => 'osa', 'Peaxi162Scf00003g00047' => 'pax', 'Peaxi162Scf00003g00052' => 'pax', 'Peaxi162Scf00003g00394' => 'pax', 'Peaxi162Scf00091g00621' => 'pax', 'Peaxi162Scf00152g00146' => 'pax', 'Peaxi162Scf00173g00025' => 'pax', 'Peaxi162Scf00195g00102' => 'pax', 'Peaxi162Scf00402g00013' => 'pax', 'Peaxi162Scf00519g00618' => 'pax', 'PGR004G2838' => 'pgr', 'PGR044G2275' => 'pgr', 'PGR102G1377' => 'pgr', 'PGR119G1245' => 'pgr', 'PGR142G4449' => 'pgr', 'PGSC0003DMG400004532' => 'stu', 'PGSC0003DMG400011950' => 'stu', 'PGSC0003DMG400023391' => 'stu', 'PGSC0003DMG400023985' => 'stu', 'PGSC0003DMG400026360' => 'stu', 'PGSC0003DMG400035711' => 'stu', 'PGSC0003DMG400037286' => 'stu', 'PGSC0003DMG402005881' => 'stu', 'Phvul.002G045400' => 'pvu', 'Phvul.006G216600' => 'pvu', 'Phvul.006G216700' => 'pvu', 'Phvul.006G216800' => 'pvu', 'Phvul.007G022500' => 'pvu', 'Phvul.011G094400' => 'pvu', 'Potri.001G470700' => 'ptr', 'Potri.003G015200' => 'ptr', 'Potri.004G202500' => 'ptr', 'Potri.004G218400' => 'ptr', 'Potri.008G020100' => 'ptr', 'Potri.008G153200' => 'ptr', 'Potri.009G163800' => 'ptr', 'Potri.010G087300' => 'ptr', 'Potri.010G239100' => 'ptr', 'Pp3c10_16100' => 'ppa', 'Pp3c10_16880' => 'ppa', 'Pp3c16_6230' => 'ppa', 'Pp3c17_18910' => 'ppa', 'Pp3c3_22119' => 'ppa', 'Pp3c3_22140' => 'ppa', 'Pp3c4_8159' => 'ppa', 'Pp3c4_8171' => 'ppa', 'Pp3c4_8330' => 'ppa', 'PRCOL_00004098' => 'pco', 'Prupe.1G013900' => 'ppe', 'Prupe.1G226300' => 'ppe', 'Prupe.1G573600' => 'ppe', 'Prupe.6G130100' => 'ppe', 'Psat3g090040' => 'psa', 'Psat4g210440' => 'psa', 'Psat6g231040' => 'psa', 'Psat6g231080' => 'psa', 'Psat7g063000' => 'psa', 'Psat7g188000' => 'psa', 'Psat7g188040' => 'psa', 'PSO017G0206' => 'pso', 'PSO170G0501' => 'pso', 'PSO170G6422' => 'pso', 'PSO210G7739' => 'pso', 'PSO339G1808' => 'pso', 'PSO339G6135' => 'pso', 'PSO384G0010' => 'pso', 'PSO384G0964' => 'pso', 'PSO761G0050' => 'pso', 'PSO782G4085' => 'pso', 'QL01p012264' => 'qlo', 'QL02p099491' => 'qlo', 'QL03p033868' => 'qlo', 'QL04p046678' => 'qlo', 'QL06p002448' => 'qlo', 'RcHm_v2.0_Chr4g0416181' => 'rch', 'RcHm_v2.0_Chr5g0044701' => 'rch', 'RcHm_v2.0_Chr6g0265781' => 'rch', 'RcHm_v2.0_Chr7g0221031' => 'rch', 'Rhsim04G0202000' => 'rsi', 'Rhsim11G0127300' => 'rsi', 'Rhsim13G0111800' => 'rsi', 'Sabra01G0165600' => 'sbr', 'Sabra03G0008300' => 'sbr', 'Sabra04G0136900' => 'sbr', 'Sabra08G0013400' => 'sbr', 'Sabra08G0116800' => 'sbr', 'Sabra09G0128000' => 'sbr', 'Sabra10G0055500' => 'sbr', 'Sabra10G0073300' => 'sbr', 'SalBow3G0385' => 'sbo', 'SalBow3G1119' => 'sbo', 'SalBow3G2005' => 'sbo', 'SalBow6G2563' => 'sbo', 'SalBow6G6386' => 'sbo', 'Sc06g0008800' => 'sci', 'Sc07g0004950' => 'sci', 'Sc09g0005340' => 'sci', 'Sc13g0004410' => 'sci', 'Sc21g0007090' => 'sci', 'Sed0009285' => 'sed', 'Sed0017583' => 'sed', 'Sed0019699' => 'sed', 'Sed0023107' => 'sed', 'SEGI_10916' => 'sgi', 'SEGI_16217' => 'sgi', 'SEGI_19466' => 'sgi', 'SEGI_41115' => 'sgi', 'SGA_v2.0_scaffold111G31534' => 'sas', 'SGA_v2.0_scaffold22G09864' => 'sas', 'SGA_v2.0_scaffold338G49219' => 'sas', 'SGA_v2.0_scaffold92G28298' => 'sas', 'SMO119G0064' => 'smo', 'SMO223G0038' => 'smo', 'SMO347G0584' => 'smo', 'SMO351G0010' => 'smo', 'SMO356G0404' => 'smo', 'Solyc01g103920.3' => 'sly', 'Solyc04g009710.2' => 'sly', 'Solyc05g055280.2' => 'sly', 'Solyc10g044520.3' => 'sly', 'Solyc10g075160.1' => 'sly', 'Solyc11g006910.3' => 'sly', 'Solyc11g068430.3' => 'sly', 'Sopen01g046310' => 'spe', 'Sopen03g001200' => 'spe', 'Sopen04g004830' => 'spe', 'Sopen05g033720' => 'spe', 'Sopen06g030740' => 'spe', 'Sopen10g013090' => 'spe', 'Sopen10g027630' => 'spe', 'Sopen10g027640' => 'spe', 'Sopen11g002820' => 'spe', 'Sopen11g027140' => 'spe', 'Sp1g09680' => 'spa', 'Sp2g03630' => 'spa', 'Sp4g10320' => 'spa', 'Sp6g33400' => 'spa', 'Sp7g13030' => 'spa', 'TAR365G0317' => 'tar', 'TAR376G0979' => 'tar', 'TAR623G1665' => 'tar', 'TAR633G2373' => 'tar', 'TAR636G1400' => 'tar', 'THA.LOC104800529' => 'tha', 'THA.LOC104808547' => 'tha', 'THA.LOC104809615' => 'tha', 'THA.LOC104815724' => 'tha', 'THA.LOC104818480' => 'tha', 'THA.LOC104819179' => 'tha', 'THA.LOC104822270' => 'tha', 'THA.LOC104826425' => 'tha', 'Thecc.02G089700' => 'tca', 'Thecc.04G232300' => 'tca', 'Thecc.09G283400' => 'tca', 'Thhalv10009020m.g' => 'esa', 'Thhalv10015506m.g' => 'esa', 'Thhalv10017364m.g' => 'esa', 'Thhalv10023742m.g' => 'esa', 'Thhalv10026483m.g' => 'esa', 'TPR.G17232' => 'tpr', 'TPR.G2133' => 'tpr', 'TPR.G2498' => 'tpr', 'TPR.G31942' => 'tpr', 'TPR.G37877' => 'tpr', 'TPR.G4571' => 'tpr', 'TWI14G1113' => 'twi', 'TWI15G0426' => 'twi', 'TWI31G1005' => 'twi', 'TWI38G0513' => 'twi', 'TWI38G1484' => 'twi', 'TWI73G1098' => 'twi', 'unitig_26.g10519' => 'ugi', 'unitig_736.g22395' => 'ugi', 'unitig_747.g21234' => 'ugi', 'unitig_747.g21942' => 'ugi', 'vmacro14351' => 'vma', 'VMungo0540G0082' => 'vmu', 'VMungo0540G0405' => 'vmu', 'VMungo0540G1486' => 'vmu', 'VMungo0540G1692' => 'vmu', 'VMungo0720G2473' => 'vmu', 'VMungo1127G1562' => 'vmu', 'VMungo1215G1918' => 'vmu', 'Zm00001eb052650' => 'zma', 'Zm00001eb063710' => 'zma', 'Zm00001eb083950' => 'zma', 'Zm00001eb174420' => 'zma', 'Zm00001eb260140' => 'zma', 'Zm00001eb260150' => 'zma', 'Zm00001eb260160' => 'zma', 'Zm00001eb348290' => 'zma', 'Zm00001eb366870' => 'zma', 'Zm00001eb421930' => 'zma' ) $gf_id = 'HOM05D001025' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001025' ) $data_identifier = 'HOM05D001025' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 19, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 2, 'amhyb' => (int) 4, 'aly' => (int) 4, 'aox' => (int) 4, 'arhy' => (int) 3, 'ath' => (int) 5, 'atr' => (int) 4, 'acertr' => (int) 3, 'cqu' => (int) 7, 'bca' => (int) 17, 'bol' => (int) 10, 'bra' => (int) 9, 'can' => (int) 10, 'cansat' => (int) 6, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 5, 'cbr' => (int) 5, 'ccan' => (int) 5, 'cde' => (int) 4, 'cfa' => (int) 3, 'ccl' => (int) 6, 'cil' => (int) 4, 'cla' => (int) 3, 'col' => (int) 3, 'cpa' => (int) 3, 'cre' => (int) 7, 'csa' => (int) 5, 'camsi' => (int) 9, 'dca' => (int) 4, 'din' => (int) 5, 'dzi' => (int) 7, 'eca' => (int) 6, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 12, 'fve' => (int) 4, 'gma' => (int) 12, 'ghi' => (int) 17, 'gra' => (int) 9, 'vvi' => (int) 2, 'han' => (int) 8, 'cav' => (int) 5, 'hma' => (int) 9, 'vpl' => (int) 4, 'sun' => (int) 2, 'lal' => (int) 9, 'lja' => (int) 5, 'lonja' => (int) 6, 'lsa' => (int) 3, 'mes' => (int) 8, 'mpo' => (int) 3, 'mbi' => (int) 4, 'mco' => (int) 3, 'mdo' => (int) 5, 'mtr' => (int) 7, 'cme' => (int) 6, 'egut' => (int) 7, 'ama' => (int) 3, 'nta' => (int) 12, 'nnu' => (int) 9, 'oeu' => (int) 4, 'osa' => (int) 7, 'pax' => (int) 9, 'pgr' => (int) 5, 'stu' => (int) 8, 'pvu' => (int) 6, 'ptr' => (int) 9, 'ppa' => (int) 9, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 7, 'pso' => (int) 10, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 3, 'sbr' => (int) 8, 'sbo' => (int) 5, 'sci' => (int) 5, 'sed' => (int) 4, 'sgi' => (int) 4, 'sas' => (int) 4, 'smo' => (int) 5, 'sly' => (int) 7, 'spe' => (int) 10, 'spa' => (int) 5, 'tar' => (int) 5, 'tha' => (int) 8, 'tca' => (int) 3, 'esa' => (int) 5, 'tpr' => (int) 6, 'twi' => (int) 6, 'ugi' => (int) 4, 'vma' => (int) 1, 'vmu' => (int) 7, 'zma' => (int) 10 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb421930' $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' => 'HOM05D001025', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '592', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p22650' => 'bna', 'A01p29720' => 'bna', 'A03p26560' => 'bna', 'A03p68820' => 'bna', 'A04p20980' => 'bna', 'A06p07730' => 'bna', 'A07p18260' => 'bna', 'A08p33710' => 'bna', 'A09p16970' => 'bna', 'A10p27490' => 'bna', 'Aa31LG1G17300' => 'aar', 'Aa31LG1G3910' => 'aar', 'Aa31LG2G9630' => 'aar', 'Aa31LG5G8360' => 'aar', 'Aa31LG9G2410' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4699' => 'aag', 'Actinidia23512' => 'ach', 'Actinidia37080' => 'ach', 'Ah.01g020380' => 'amhyb', 'Ah.08g215710' => 'amhyb', 'Ah.09g225110' => 'amhyb', 'Ah.10g036680' => 'amhyb', 'AL1G21940' => 'aly', 'AL2G15540' => 'aly', 'AL4G21520' => 'aly', 'AL7G40960' => 'aly', 'Aqoxy2G01191' => 'aox', 'Aqoxy2G03393' => 'aox', 'Aqoxy4G02775' => 'aox', 'Aqoxy6G00058' => 'aox', 'arahy.Tifrunner.gnm1.ann1.9X74H2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CW3FX9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R485W7' => 'arhy', 'AT1G10960' => 'ath', 'AT1G60950' => 'ath', 'AT2G27510' => 'ath', 'AT4G14890' => 'ath', 'AT5G10000' => 'ath', 'ATR0665G624' => 'atr', 'ATR0697G138' => 'atr', 'ATR0776G046' => 'atr', 'ATR1134G135' => 'atr', 'Atru.chr12.1025' => 'acertr', 'Atru.chr3.3241' => 'acertr', 'Atru.chr4.2460' => 'acertr', 'AUR62007427' => 'cqu', 'AUR62010960' => 'cqu', 'AUR62012201' => 'cqu', 'AUR62021470' => 'cqu', 'AUR62022834' => 'cqu', 'AUR62033635' => 'cqu', 'AUR62036186' => 'cqu', 'BcaB01g03077' => 'bca', 'BcaB02g10093' => 'bca', 'BcaB04g20295' => 'bca', 'BcaB06g28147' => 'bca', 'BcaB07g31253' => 'bca', 'BcaC01g04946' => 'bca', 'BcaC02g10614' => 'bca', 'BcaC02g10885' => 'bca', 'BcaC04g19356' => 'bca', 'BcaC04g22297' => 'bca', 'BcaC05g24977' => 'bca', 'BcaC06g31823' => 'bca', 'BcaC07g38633' => 'bca', 'BcaC09g49353' => 'bca', 'BcaC09g50168' => 'bca', 'BcaNung00322' => 'bca', 'BcaNung04769' => 'bca', 'BolC1t02753H' => 'bol', 'BolC1t03721H' => 'bol', 'BolC3t15525H' => 'bol', 'BolC4t23903H' => 'bol', 'BolC4t24231H' => 'bol', 'BolC4t27209H' => 'bol', 'BolC5t29671H' => 'bol', 'BolC8t49044H' => 'bol', 'BolC9t54999H' => 'bol', 'BolC9t59517H' => 'bol', 'BraA01t02178Z' => 'bra', 'BraA01t03099Z' => 'bra', 'BraA03t11867Z' => 'bra', 'BraA04t17667Z' => 'bra', 'BraA07t29542Z' => 'bra', 'BraA08t35287Z' => 'bra', 'BraA09t37334Z' => 'bra', 'BraA10t44801Z' => 'bra', 'BraSC39t46181Z' => 'bra', 'C01p28240' => 'bna', 'C01p37530' => 'bna', 'C03p31820' => 'bna', 'C04p24080' => 'bna', 'C04p25790' => 'bna', 'C04p56770' => 'bna', 'C05p09310' => 'bna', 'C09p21010' => 'bna', 'C09p67560' => 'bna', 'CAN.G1324.7' => 'can', 'CAN.G1358.10' => 'can', 'CAN.G1550.2' => 'can', 'CAN.G186.56' => 'can', 'CAN.G1965.1' => 'can', 'CAN.G645.15' => 'can', 'CAN.G798.26' => 'can', 'CAN.G798.27' => 'can', 'CAN.G798.29' => 'can', 'CAN.G919.31' => 'can', 'CANSAT11G0133' => 'cansat', 'CANSAT11G1171' => 'cansat', 'CANSAT11G2056' => 'cansat', 'CANSAT56G1202' => 'cansat', 'CANSAT56G1514' => 'cansat', 'CANSAT78G0455' => 'cansat', 'CARHR011190' => 'chi', 'CARHR051980' => 'chi', 'CARHR120170' => 'chi', 'CARHR203310' => 'chi', 'CARHR221490' => 'chi', 'Carub.0001s1054' => 'cru', 'Carub.0002s0431' => 'cru', 'Carub.0004s0818' => 'cru', 'Carub.0006s0846' => 'cru', 'Carub.0007s2722' => 'cru', 'Ca_00058_v3' => 'car', 'Ca_17831_v3' => 'car', 'Ca_19408_v3' => 'car', 'Ca_24397_v3' => 'car', 'Ca_25664_v3' => 'car', 'CBR_g21818' => 'cbr', 'CBR_g31195' => 'cbr', 'CBR_g32282' => 'cbr', 'CBR_g39599' => 'cbr', 'CBR_g49410' => 'cbr', 'Cc01_g09120' => 'ccan', 'Cc01_g09130' => 'ccan', 'Cc02_g09630' => 'ccan', 'Cc02_g22810' => 'ccan', 'Cc03_g03810' => 'ccan', 'CDE02G3718' => 'cde', 'CDE04G3183' => 'cde', 'CDE07G1046' => 'cde', 'CDE08G0480' => 'cde', 'Cfa005493' => 'cfa', 'Cfa010312' => 'cfa', 'Cfa015648' => 'cfa', 'Ciclev10002793m.g' => 'ccl', 'Ciclev10003356m.g' => 'ccl', 'Ciclev10006141m.g' => 'ccl', 'Ciclev10016676m.g' => 'ccl', 'Ciclev10017081m.g' => 'ccl', 'Ciclev10029499m.g' => 'ccl', 'CiPaw.01G166300' => 'cil', 'CiPaw.06G145600' => 'cil', 'CiPaw.13G040100' => 'cil', 'CiPaw.13G135800' => 'cil', 'ClCG01G012230' => 'cla', 'ClCG05G009510' => 'cla', 'ClCG08G008270' => 'cla', 'COL.COLO4_11763' => 'col', 'COL.COLO4_19876' => 'col', 'COL.COLO4_21481' => 'col', 'Cpa.g.sc118.34' => 'cpa', 'Cpa.g.sc32.13' => 'cpa', 'Cpa.g.sc58.103' => 'cpa', 'Cre03.g183850' => 'cre', 'Cre06.g306350' => 'cre', 'Cre07.g334800' => 'cre', 'Cre12.g487900' => 'cre', 'Cre14.g626700' => 'cre', 'Cre16.g658400' => 'cre', 'Cre17.g700950' => 'cre', 'CsaV3_1G014830' => 'csa', 'CsaV3_3G013320' => 'csa', 'CsaV3_3G019210' => 'csa', 'CsaV3_3G019220' => 'csa', 'CsaV3_6G004230' => 'csa', 'CSS0003773' => 'camsi', 'CSS0004563' => 'camsi', 'CSS0013949' => 'camsi', 'CSS0025971' => 'camsi', 'CSS0028570' => 'camsi', 'CSS0033127' => 'camsi', 'CSS0036051' => 'camsi', 'CSS0040087' => 'camsi', 'CSS0043179' => 'camsi', 'DCAR_006161' => 'dca', 'DCAR_010351' => 'dca', 'DCAR_012197' => 'dca', 'DCAR_024162' => 'dca', 'Dinv01030' => 'din', 'Dinv10924' => 'din', 'Dinv11835' => 'din', 'Dinv22841' => 'din', 'Dinv42553' => 'din', 'Duzib052G0560' => 'dzi', 'Duzib132G0389' => 'dzi', 'Duzib150G1181' => 'dzi', 'Duzib168G0623' => 'dzi', 'Duzib170G1036' => 'dzi', 'Duzib212G0200' => 'dzi', 'Duzib248G0194' => 'dzi', 'ECA232G2193' => 'eca', 'ECA233G0302' => 'eca', 'ECA234G2813' => 'eca', 'ECA234G4866' => 'eca', 'ECA240G3932' => 'eca', 'ECA248G0385' => 'eca', 'EL10Ac2g04781' => 'bvu', 'EL10Ac3g06445' => 'bvu', 'EL10Ac7g15825' => 'bvu', 'EL10Ac8g18550' => 'bvu', 'Eucgr.B03849' => 'egr', 'Eucgr.I02744' => 'egr', 'Eucgr.J00264' => 'egr', 'Eucgr.J00493' => 'egr', 'FAN04G2181' => 'fan', 'FAN07G2666' => 'fan', 'FAN11G0024' => 'fan', 'FAN12G1105' => 'fan', 'FAN13G0302' => 'fan', 'FAN15G2781' => 'fan', 'FAN16G1274' => 'fan', 'FAN17G2988' => 'fan', 'FAN18G2621' => 'fan', 'FAN21G0013' => 'fan', 'FAN22G1211' => 'fan', 'FAN25G3626' => 'fan', 'FvH4_2g09491' => 'fve', 'FvH4_3g24910' => 'fve', 'FvH4_4g15630' => 'fve', 'FvH4_5g28820' => 'fve', 'Glyma.01G238000' => 'gma', 'Glyma.05G168400' => 'gma', 'Glyma.08G126800' => 'gma', 'Glyma.08G188500' => 'gma', 'Glyma.10G278900' => 'gma', 'Glyma.11G005700' => 'gma', 'Glyma.11G183300' => 'gma', 'Glyma.12G089200' => 'gma', 'Glyma.12G169400' => 'gma', 'Glyma.12G169500' => 'gma', 'Glyma.12G169600' => 'gma', 'Glyma.20G110800' => 'gma', 'Gohir.A03G192900' => 'ghi', 'Gohir.A03G193000' => 'ghi', 'Gohir.A05G080700' => 'ghi', 'Gohir.A09G216000' => 'ghi', 'Gohir.A12G027700' => 'ghi', 'Gohir.A13G036200' => 'ghi', 'Gohir.A13G222600' => 'ghi', 'Gohir.D02G213900' => 'ghi', 'Gohir.D02G214000' => 'ghi', 'Gohir.D05G083700' => 'ghi', 'Gohir.D05G083800' => 'ghi', 'Gohir.D05G083850' => 'ghi', 'Gohir.D08G015400' => 'ghi', 'Gohir.D09G218400' => 'ghi', 'Gohir.D12G027100' => 'ghi', 'Gohir.D13G034500' => 'ghi', 'Gohir.D13G227400' => 'ghi', 'Gorai.005G241800' => 'gra', 'Gorai.005G241900' => 'gra', 'Gorai.006G239400' => 'gra', 'Gorai.008G027600' => 'gra', 'Gorai.009G085400' => 'gra', 'Gorai.009G085500' => 'gra', 'Gorai.013G039000' => 'gra', 'Gorai.013G194800' => 'gra', 'Gorai.013G257900' => 'gra', 'GSVIVG01000982001' => 'vvi', 'GSVIVG01017981001' => 'vvi', 'HanXRQChr01g0024061' => 'han', 'HanXRQChr09g0247831' => 'han', 'HanXRQChr10g0294611' => 'han', 'HanXRQChr10g0294621' => 'han', 'HanXRQChr11g0346821' => 'han', 'HanXRQChr13g0397461' => 'han', 'HanXRQChr16g0513651' => 'han', 'HanXRQChr16g0513701' => 'han', 'Haze_00897' => 'cav', 'Haze_01745' => 'cav', 'Haze_02486' => 'cav', 'Haze_02487' => 'cav', 'Haze_23374' => 'cav', 'Hma1.2p1_0578F.1_g182520' => 'hma', 'Hma1.2p1_0602F.1_g187350' => 'hma', 'Hma1.2p1_0602F.1_g187360' => 'hma', 'Hma1.2p1_0874F.1_g231320' => 'hma', 'Hma1.2p1_1197F.1_g266210' => 'hma', 'Hma1.2p1_1197F.1_g266220' => 'hma', 'Hma1.2p1_2167F.1_g315895' => 'hma', 'Hma1.2p1_2190F.1_g316640' => 'hma', 'Hma1.2p1_3645F.1_g337153' => 'hma', 'HPP92_004907' => 'vpl', 'HPP92_012134' => 'vpl', 'HPP92_025136' => 'vpl', 'HPP92_026087' => 'vpl', 'Hund06782' => 'sun', 'Hund06784' => 'sun', 'Lalb_Chr01g0004861' => 'lal', 'Lalb_Chr02g0140591' => 'lal', 'Lalb_Chr02g0140611' => 'lal', 'Lalb_Chr03g0028101' => 'lal', 'Lalb_Chr07g0185791' => 'lal', 'Lalb_Chr12g0204491' => 'lal', 'Lalb_Chr13g0295671' => 'lal', 'Lalb_Chr19g0136461' => 'lal', 'Lalb_Chr21g0309191' => 'lal', 'Lj1g0028158' => 'lja', 'Lj1P236T38' => 'lonja', 'Lj2C32G2' => 'lonja', 'Lj2P944T8' => 'lonja', 'Lj2P963T15' => 'lonja', 'Lj3g0011788' => 'lja', 'Lj4g0025027' => 'lja', 'Lj5P255T36' => 'lonja', 'Lj6g0018866' => 'lja', 'Lj6P608T31' => 'lonja', 'LjContig00408g0008879' => 'lja', 'Lsat_1_v5_gn_5_105820' => 'lsa', 'Lsat_1_v5_gn_6_38800' => 'lsa', 'Lsat_1_v5_gn_7_67141' => 'lsa', 'Manes.04G003400' => 'mes', 'Manes.07G020000' => 'mes', 'Manes.07G020100' => 'mes', 'Manes.07G020150' => 'mes', 'Manes.10G061500' => 'mes', 'Manes.10G123200' => 'mes', 'Manes.11G161900' => 'mes', 'Manes.15G029300' => 'mes', 'Mapoly0071s0018' => 'mpo', 'Mapoly0082s0023' => 'mpo', 'Mapoly3477s0001' => 'mpo', 'MBI05_g31233_MAGBIO' => 'mbi', 'MBI09_g05946_MAGBIO' => 'mbi', 'MBI09_g05947_MAGBIO' => 'mbi', 'MBI17_g08346_MAGBIO' => 'mbi', 'MCO04G038' => 'mco', 'MCO09G370' => 'mco', 'MCO13G605' => 'mco', 'MD00G1075500' => 'mdo', 'MD03G1144300' => 'mdo', 'MD08G1236800' => 'mdo', 'MD13G1193300' => 'mdo', 'MD15G1428700' => 'mdo', 'Medtr1g112030' => 'mtr', 'Medtr1g112050' => 'mtr', 'Medtr2g006290' => 'mtr', 'Medtr2g086510' => 'mtr', 'Medtr4g053120' => 'mtr', 'Medtr5g006320' => 'mtr', 'Medtr8g088720' => 'mtr', 'MELO3C004712.2' => 'cme', 'MELO3C006533.2' => 'cme', 'MELO3C019438.2' => 'cme', 'MELO3C019440.2' => 'cme', 'MELO3C019441.2' => 'cme', 'MELO3C019895.2' => 'cme', 'Migut.B00811' => 'egut', 'Migut.D02447' => 'egut', 'Migut.F00875' => 'egut', 'Migut.N00186' => 'egut', 'Migut.N01051' => 'egut', 'Migut.N02491' => 'egut', 'Migut.O00784' => 'egut', 'MSTRG.12367' => 'ama', 'MSTRG.18756' => 'ama', 'MSTRG.21042' => 'ama', 'Nitab4.5_0000559g0040' => 'nta', 'Nitab4.5_0000667g0190' => 'nta', 'Nitab4.5_0000755g0160' => 'nta', 'Nitab4.5_0001216g0080' => 'nta', 'Nitab4.5_0004069g0040' => 'nta', 'Nitab4.5_0004129g0010' => 'nta', 'Nitab4.5_0005744g0030' => 'nta', 'Nitab4.5_0006996g0030' => 'nta', 'Nitab4.5_0008971g0040' => 'nta', 'Nitab4.5_0009769g0020' => 'nta', 'Nitab4.5_0009833g0010' => 'nta', 'Nitab4.5_0013140g0020' => 'nta', 'Nn003s41376' => 'nnu', 'Nn1g01857' => 'nnu', 'Nn1g03611' => 'nnu', 'Nn1g06853' => 'nnu', 'Nn3g18360' => 'nnu', 'Nn4g26328' => 'nnu', 'Nn5g27531' => 'nnu', 'Nn6g34899' => 'nnu', 'Nn7g36299' => 'nnu', 'Oeu021485.1' => 'oeu', 'Oeu022433.1' => 'oeu', 'Oeu032111.1' => 'oeu', 'Oeu051608.1' => 'oeu', 'Os01g0860601' => 'osa', 'Os03g0659200' => 'osa', 'Os03g0835900' => 'osa', 'Os04g0412200' => 'osa', 'Os05g0443500' => 'osa', 'Os07g0251500' => 'osa', 'Os08g0104600' => 'osa', 'Peaxi162Scf00003g00047' => 'pax', 'Peaxi162Scf00003g00052' => 'pax', 'Peaxi162Scf00003g00394' => 'pax', 'Peaxi162Scf00091g00621' => 'pax', 'Peaxi162Scf00152g00146' => 'pax', 'Peaxi162Scf00173g00025' => 'pax', 'Peaxi162Scf00195g00102' => 'pax', 'Peaxi162Scf00402g00013' => 'pax', 'Peaxi162Scf00519g00618' => 'pax', 'PGR004G2838' => 'pgr', 'PGR044G2275' => 'pgr', 'PGR102G1377' => 'pgr', 'PGR119G1245' => 'pgr', 'PGR142G4449' => 'pgr', 'PGSC0003DMG400004532' => 'stu', 'PGSC0003DMG400011950' => 'stu', 'PGSC0003DMG400023391' => 'stu', 'PGSC0003DMG400023985' => 'stu', 'PGSC0003DMG400026360' => 'stu', 'PGSC0003DMG400035711' => 'stu', 'PGSC0003DMG400037286' => 'stu', 'PGSC0003DMG402005881' => 'stu', 'Phvul.002G045400' => 'pvu', 'Phvul.006G216600' => 'pvu', 'Phvul.006G216700' => 'pvu', 'Phvul.006G216800' => 'pvu', 'Phvul.007G022500' => 'pvu', 'Phvul.011G094400' => 'pvu', 'Potri.001G470700' => 'ptr', 'Potri.003G015200' => 'ptr', 'Potri.004G202500' => 'ptr', 'Potri.004G218400' => 'ptr', 'Potri.008G020100' => 'ptr', 'Potri.008G153200' => 'ptr', 'Potri.009G163800' => 'ptr', 'Potri.010G087300' => 'ptr', 'Potri.010G239100' => 'ptr', 'Pp3c10_16100' => 'ppa', 'Pp3c10_16880' => 'ppa', 'Pp3c16_6230' => 'ppa', 'Pp3c17_18910' => 'ppa', 'Pp3c3_22119' => 'ppa', 'Pp3c3_22140' => 'ppa', 'Pp3c4_8159' => 'ppa', 'Pp3c4_8171' => 'ppa', 'Pp3c4_8330' => 'ppa', 'PRCOL_00004098' => 'pco', 'Prupe.1G013900' => 'ppe', 'Prupe.1G226300' => 'ppe', 'Prupe.1G573600' => 'ppe', 'Prupe.6G130100' => 'ppe', 'Psat3g090040' => 'psa', 'Psat4g210440' => 'psa', 'Psat6g231040' => 'psa', 'Psat6g231080' => 'psa', 'Psat7g063000' => 'psa', 'Psat7g188000' => 'psa', 'Psat7g188040' => 'psa', 'PSO017G0206' => 'pso', 'PSO170G0501' => 'pso', 'PSO170G6422' => 'pso', 'PSO210G7739' => 'pso', 'PSO339G1808' => 'pso', 'PSO339G6135' => 'pso', 'PSO384G0010' => 'pso', 'PSO384G0964' => 'pso', 'PSO761G0050' => 'pso', 'PSO782G4085' => 'pso', 'QL01p012264' => 'qlo', 'QL02p099491' => 'qlo', 'QL03p033868' => 'qlo', 'QL04p046678' => 'qlo', 'QL06p002448' => 'qlo', 'RcHm_v2.0_Chr4g0416181' => 'rch', 'RcHm_v2.0_Chr5g0044701' => 'rch', 'RcHm_v2.0_Chr6g0265781' => 'rch', 'RcHm_v2.0_Chr7g0221031' => 'rch', 'Rhsim04G0202000' => 'rsi', 'Rhsim11G0127300' => 'rsi', 'Rhsim13G0111800' => 'rsi', 'Sabra01G0165600' => 'sbr', 'Sabra03G0008300' => 'sbr', 'Sabra04G0136900' => 'sbr', 'Sabra08G0013400' => 'sbr', 'Sabra08G0116800' => 'sbr', 'Sabra09G0128000' => 'sbr', 'Sabra10G0055500' => 'sbr', 'Sabra10G0073300' => 'sbr', 'SalBow3G0385' => 'sbo', 'SalBow3G1119' => 'sbo', 'SalBow3G2005' => 'sbo', 'SalBow6G2563' => 'sbo', 'SalBow6G6386' => 'sbo', 'Sc06g0008800' => 'sci', 'Sc07g0004950' => 'sci', 'Sc09g0005340' => 'sci', 'Sc13g0004410' => 'sci', 'Sc21g0007090' => 'sci', 'Sed0009285' => 'sed', 'Sed0017583' => 'sed', 'Sed0019699' => 'sed', 'Sed0023107' => 'sed', 'SEGI_10916' => 'sgi', 'SEGI_16217' => 'sgi', 'SEGI_19466' => 'sgi', 'SEGI_41115' => 'sgi', 'SGA_v2.0_scaffold111G31534' => 'sas', 'SGA_v2.0_scaffold22G09864' => 'sas', 'SGA_v2.0_scaffold338G49219' => 'sas', 'SGA_v2.0_scaffold92G28298' => 'sas', 'SMO119G0064' => 'smo', 'SMO223G0038' => 'smo', 'SMO347G0584' => 'smo', 'SMO351G0010' => 'smo', 'SMO356G0404' => 'smo', 'Solyc01g103920.3' => 'sly', 'Solyc04g009710.2' => 'sly', 'Solyc05g055280.2' => 'sly', 'Solyc10g044520.3' => 'sly', 'Solyc10g075160.1' => 'sly', 'Solyc11g006910.3' => 'sly', 'Solyc11g068430.3' => 'sly', 'Sopen01g046310' => 'spe', 'Sopen03g001200' => 'spe', 'Sopen04g004830' => 'spe', 'Sopen05g033720' => 'spe', 'Sopen06g030740' => 'spe', 'Sopen10g013090' => 'spe', 'Sopen10g027630' => 'spe', 'Sopen10g027640' => 'spe', 'Sopen11g002820' => 'spe', 'Sopen11g027140' => 'spe', 'Sp1g09680' => 'spa', 'Sp2g03630' => 'spa', 'Sp4g10320' => 'spa', 'Sp6g33400' => 'spa', 'Sp7g13030' => 'spa', 'TAR365G0317' => 'tar', 'TAR376G0979' => 'tar', 'TAR623G1665' => 'tar', 'TAR633G2373' => 'tar', 'TAR636G1400' => 'tar', 'THA.LOC104800529' => 'tha', 'THA.LOC104808547' => 'tha', 'THA.LOC104809615' => 'tha', 'THA.LOC104815724' => 'tha', 'THA.LOC104818480' => 'tha', 'THA.LOC104819179' => 'tha', 'THA.LOC104822270' => 'tha', 'THA.LOC104826425' => 'tha', 'Thecc.02G089700' => 'tca', 'Thecc.04G232300' => 'tca', 'Thecc.09G283400' => 'tca', 'Thhalv10009020m.g' => 'esa', 'Thhalv10015506m.g' => 'esa', 'Thhalv10017364m.g' => 'esa', 'Thhalv10023742m.g' => 'esa', 'Thhalv10026483m.g' => 'esa', 'TPR.G17232' => 'tpr', 'TPR.G2133' => 'tpr', 'TPR.G2498' => 'tpr', 'TPR.G31942' => 'tpr', 'TPR.G37877' => 'tpr', 'TPR.G4571' => 'tpr', 'TWI14G1113' => 'twi', 'TWI15G0426' => 'twi', 'TWI31G1005' => 'twi', 'TWI38G0513' => 'twi', 'TWI38G1484' => 'twi', 'TWI73G1098' => 'twi', 'unitig_26.g10519' => 'ugi', 'unitig_736.g22395' => 'ugi', 'unitig_747.g21234' => 'ugi', 'unitig_747.g21942' => 'ugi', 'vmacro14351' => 'vma', 'VMungo0540G0082' => 'vmu', 'VMungo0540G0405' => 'vmu', 'VMungo0540G1486' => 'vmu', 'VMungo0540G1692' => 'vmu', 'VMungo0720G2473' => 'vmu', 'VMungo1127G1562' => 'vmu', 'VMungo1215G1918' => 'vmu', 'Zm00001eb052650' => 'zma', 'Zm00001eb063710' => 'zma', 'Zm00001eb083950' => 'zma', 'Zm00001eb174420' => 'zma', 'Zm00001eb260140' => 'zma', 'Zm00001eb260150' => 'zma', 'Zm00001eb260160' => 'zma', 'Zm00001eb348290' => 'zma', 'Zm00001eb366870' => 'zma', 'Zm00001eb421930' => 'zma' ), 'gf_id' => 'HOM05D001025', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001025' ), 'data_identifier' => 'HOM05D001025', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001025', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '592', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p22650' => 'bna', 'A01p29720' => 'bna', 'A03p26560' => 'bna', 'A03p68820' => 'bna', 'A04p20980' => 'bna', 'A06p07730' => 'bna', 'A07p18260' => 'bna', 'A08p33710' => 'bna', 'A09p16970' => 'bna', 'A10p27490' => 'bna', 'Aa31LG1G17300' => 'aar', 'Aa31LG1G3910' => 'aar', 'Aa31LG2G9630' => 'aar', 'Aa31LG5G8360' => 'aar', 'Aa31LG9G2410' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4699' => 'aag', 'Actinidia23512' => 'ach', 'Actinidia37080' => 'ach', 'Ah.01g020380' => 'amhyb', 'Ah.08g215710' => 'amhyb', 'Ah.09g225110' => 'amhyb', 'Ah.10g036680' => 'amhyb', 'AL1G21940' => 'aly', 'AL2G15540' => 'aly', 'AL4G21520' => 'aly', 'AL7G40960' => 'aly', 'Aqoxy2G01191' => 'aox', 'Aqoxy2G03393' => 'aox', 'Aqoxy4G02775' => 'aox', 'Aqoxy6G00058' => 'aox', 'arahy.Tifrunner.gnm1.ann1.9X74H2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CW3FX9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R485W7' => 'arhy', 'AT1G10960' => 'ath', 'AT1G60950' => 'ath', 'AT2G27510' => 'ath', 'AT4G14890' => 'ath', 'AT5G10000' => 'ath', 'ATR0665G624' => 'atr', 'ATR0697G138' => 'atr', 'ATR0776G046' => 'atr', 'ATR1134G135' => 'atr', 'Atru.chr12.1025' => 'acertr', 'Atru.chr3.3241' => 'acertr', 'Atru.chr4.2460' => 'acertr', 'AUR62007427' => 'cqu', 'AUR62010960' => 'cqu', 'AUR62012201' => 'cqu', 'AUR62021470' => 'cqu', 'AUR62022834' => 'cqu', 'AUR62033635' => 'cqu', 'AUR62036186' => 'cqu', 'BcaB01g03077' => 'bca', 'BcaB02g10093' => 'bca', 'BcaB04g20295' => 'bca', 'BcaB06g28147' => 'bca', 'BcaB07g31253' => 'bca', 'BcaC01g04946' => 'bca', 'BcaC02g10614' => 'bca', 'BcaC02g10885' => 'bca', 'BcaC04g19356' => 'bca', 'BcaC04g22297' => 'bca', 'BcaC05g24977' => 'bca', 'BcaC06g31823' => 'bca', 'BcaC07g38633' => 'bca', 'BcaC09g49353' => 'bca', 'BcaC09g50168' => 'bca', 'BcaNung00322' => 'bca', 'BcaNung04769' => 'bca', 'BolC1t02753H' => 'bol', 'BolC1t03721H' => 'bol', 'BolC3t15525H' => 'bol', 'BolC4t23903H' => 'bol', 'BolC4t24231H' => 'bol', 'BolC4t27209H' => 'bol', 'BolC5t29671H' => 'bol', 'BolC8t49044H' => 'bol', 'BolC9t54999H' => 'bol', 'BolC9t59517H' => 'bol', 'BraA01t02178Z' => 'bra', 'BraA01t03099Z' => 'bra', 'BraA03t11867Z' => 'bra', 'BraA04t17667Z' => 'bra', 'BraA07t29542Z' => 'bra', 'BraA08t35287Z' => 'bra', 'BraA09t37334Z' => 'bra', 'BraA10t44801Z' => 'bra', 'BraSC39t46181Z' => 'bra', 'C01p28240' => 'bna', 'C01p37530' => 'bna', 'C03p31820' => 'bna', 'C04p24080' => 'bna', 'C04p25790' => 'bna', 'C04p56770' => 'bna', 'C05p09310' => 'bna', 'C09p21010' => 'bna', 'C09p67560' => 'bna', 'CAN.G1324.7' => 'can', 'CAN.G1358.10' => 'can', 'CAN.G1550.2' => 'can', 'CAN.G186.56' => 'can', 'CAN.G1965.1' => 'can', 'CAN.G645.15' => 'can', 'CAN.G798.26' => 'can', 'CAN.G798.27' => 'can', 'CAN.G798.29' => 'can', 'CAN.G919.31' => 'can', 'CANSAT11G0133' => 'cansat', 'CANSAT11G1171' => 'cansat', 'CANSAT11G2056' => 'cansat', 'CANSAT56G1202' => 'cansat', 'CANSAT56G1514' => 'cansat', 'CANSAT78G0455' => 'cansat', 'CARHR011190' => 'chi', 'CARHR051980' => 'chi', 'CARHR120170' => 'chi', 'CARHR203310' => 'chi', 'CARHR221490' => 'chi', 'Carub.0001s1054' => 'cru', 'Carub.0002s0431' => 'cru', 'Carub.0004s0818' => 'cru', 'Carub.0006s0846' => 'cru', 'Carub.0007s2722' => 'cru', 'Ca_00058_v3' => 'car', 'Ca_17831_v3' => 'car', 'Ca_19408_v3' => 'car', 'Ca_24397_v3' => 'car', 'Ca_25664_v3' => 'car', 'CBR_g21818' => 'cbr', 'CBR_g31195' => 'cbr', 'CBR_g32282' => 'cbr', 'CBR_g39599' => 'cbr', 'CBR_g49410' => 'cbr', 'Cc01_g09120' => 'ccan', 'Cc01_g09130' => 'ccan', 'Cc02_g09630' => 'ccan', 'Cc02_g22810' => 'ccan', 'Cc03_g03810' => 'ccan', 'CDE02G3718' => 'cde', 'CDE04G3183' => 'cde', 'CDE07G1046' => 'cde', 'CDE08G0480' => 'cde', 'Cfa005493' => 'cfa', 'Cfa010312' => 'cfa', 'Cfa015648' => 'cfa', 'Ciclev10002793m.g' => 'ccl', 'Ciclev10003356m.g' => 'ccl', 'Ciclev10006141m.g' => 'ccl', 'Ciclev10016676m.g' => 'ccl', 'Ciclev10017081m.g' => 'ccl', 'Ciclev10029499m.g' => 'ccl', 'CiPaw.01G166300' => 'cil', 'CiPaw.06G145600' => 'cil', 'CiPaw.13G040100' => 'cil', 'CiPaw.13G135800' => 'cil', 'ClCG01G012230' => 'cla', 'ClCG05G009510' => 'cla', 'ClCG08G008270' => 'cla', 'COL.COLO4_11763' => 'col', 'COL.COLO4_19876' => 'col', 'COL.COLO4_21481' => 'col', 'Cpa.g.sc118.34' => 'cpa', 'Cpa.g.sc32.13' => 'cpa', 'Cpa.g.sc58.103' => 'cpa', 'Cre03.g183850' => 'cre', 'Cre06.g306350' => 'cre', 'Cre07.g334800' => 'cre', 'Cre12.g487900' => 'cre', 'Cre14.g626700' => 'cre', 'Cre16.g658400' => 'cre', 'Cre17.g700950' => 'cre', 'CsaV3_1G014830' => 'csa', 'CsaV3_3G013320' => 'csa', 'CsaV3_3G019210' => 'csa', 'CsaV3_3G019220' => 'csa', 'CsaV3_6G004230' => 'csa', 'CSS0003773' => 'camsi', 'CSS0004563' => 'camsi', 'CSS0013949' => 'camsi', 'CSS0025971' => 'camsi', 'CSS0028570' => 'camsi', 'CSS0033127' => 'camsi', 'CSS0036051' => 'camsi', 'CSS0040087' => 'camsi', 'CSS0043179' => 'camsi', 'DCAR_006161' => 'dca', 'DCAR_010351' => 'dca', 'DCAR_012197' => 'dca', 'DCAR_024162' => 'dca', 'Dinv01030' => 'din', 'Dinv10924' => 'din', 'Dinv11835' => 'din', 'Dinv22841' => 'din', 'Dinv42553' => 'din', 'Duzib052G0560' => 'dzi', 'Duzib132G0389' => 'dzi', 'Duzib150G1181' => 'dzi', 'Duzib168G0623' => 'dzi', 'Duzib170G1036' => 'dzi', 'Duzib212G0200' => 'dzi', 'Duzib248G0194' => 'dzi', 'ECA232G2193' => 'eca', 'ECA233G0302' => 'eca', 'ECA234G2813' => 'eca', 'ECA234G4866' => 'eca', 'ECA240G3932' => 'eca', 'ECA248G0385' => 'eca', 'EL10Ac2g04781' => 'bvu', 'EL10Ac3g06445' => 'bvu', 'EL10Ac7g15825' => 'bvu', 'EL10Ac8g18550' => 'bvu', 'Eucgr.B03849' => 'egr', 'Eucgr.I02744' => 'egr', 'Eucgr.J00264' => 'egr', 'Eucgr.J00493' => 'egr', 'FAN04G2181' => 'fan', 'FAN07G2666' => 'fan', 'FAN11G0024' => 'fan', 'FAN12G1105' => 'fan', 'FAN13G0302' => 'fan', 'FAN15G2781' => 'fan', 'FAN16G1274' => 'fan', 'FAN17G2988' => 'fan', 'FAN18G2621' => 'fan', 'FAN21G0013' => 'fan', 'FAN22G1211' => 'fan', 'FAN25G3626' => 'fan', 'FvH4_2g09491' => 'fve', 'FvH4_3g24910' => 'fve', 'FvH4_4g15630' => 'fve', 'FvH4_5g28820' => 'fve', 'Glyma.01G238000' => 'gma', 'Glyma.05G168400' => 'gma', 'Glyma.08G126800' => 'gma', 'Glyma.08G188500' => 'gma', 'Glyma.10G278900' => 'gma', 'Glyma.11G005700' => 'gma', 'Glyma.11G183300' => 'gma', 'Glyma.12G089200' => 'gma', 'Glyma.12G169400' => 'gma', 'Glyma.12G169500' => 'gma', 'Glyma.12G169600' => 'gma', 'Glyma.20G110800' => 'gma', 'Gohir.A03G192900' => 'ghi', 'Gohir.A03G193000' => 'ghi', 'Gohir.A05G080700' => 'ghi', 'Gohir.A09G216000' => 'ghi', 'Gohir.A12G027700' => 'ghi', 'Gohir.A13G036200' => 'ghi', 'Gohir.A13G222600' => 'ghi', 'Gohir.D02G213900' => 'ghi', 'Gohir.D02G214000' => 'ghi', 'Gohir.D05G083700' => 'ghi', 'Gohir.D05G083800' => 'ghi', 'Gohir.D05G083850' => 'ghi', 'Gohir.D08G015400' => 'ghi', 'Gohir.D09G218400' => 'ghi', 'Gohir.D12G027100' => 'ghi', 'Gohir.D13G034500' => 'ghi', 'Gohir.D13G227400' => 'ghi', 'Gorai.005G241800' => 'gra', 'Gorai.005G241900' => 'gra', 'Gorai.006G239400' => 'gra', 'Gorai.008G027600' => 'gra', 'Gorai.009G085400' => 'gra', 'Gorai.009G085500' => 'gra', 'Gorai.013G039000' => 'gra', 'Gorai.013G194800' => 'gra', 'Gorai.013G257900' => 'gra', 'GSVIVG01000982001' => 'vvi', 'GSVIVG01017981001' => 'vvi', 'HanXRQChr01g0024061' => 'han', 'HanXRQChr09g0247831' => 'han', 'HanXRQChr10g0294611' => 'han', 'HanXRQChr10g0294621' => 'han', 'HanXRQChr11g0346821' => 'han', 'HanXRQChr13g0397461' => 'han', 'HanXRQChr16g0513651' => 'han', 'HanXRQChr16g0513701' => 'han', 'Haze_00897' => 'cav', 'Haze_01745' => 'cav', 'Haze_02486' => 'cav', 'Haze_02487' => 'cav', 'Haze_23374' => 'cav', 'Hma1.2p1_0578F.1_g182520' => 'hma', 'Hma1.2p1_0602F.1_g187350' => 'hma', 'Hma1.2p1_0602F.1_g187360' => 'hma', 'Hma1.2p1_0874F.1_g231320' => 'hma', 'Hma1.2p1_1197F.1_g266210' => 'hma', 'Hma1.2p1_1197F.1_g266220' => 'hma', 'Hma1.2p1_2167F.1_g315895' => 'hma', 'Hma1.2p1_2190F.1_g316640' => 'hma', 'Hma1.2p1_3645F.1_g337153' => 'hma', 'HPP92_004907' => 'vpl', 'HPP92_012134' => 'vpl', 'HPP92_025136' => 'vpl', 'HPP92_026087' => 'vpl', 'Hund06782' => 'sun', 'Hund06784' => 'sun', 'Lalb_Chr01g0004861' => 'lal', 'Lalb_Chr02g0140591' => 'lal', 'Lalb_Chr02g0140611' => 'lal', 'Lalb_Chr03g0028101' => 'lal', 'Lalb_Chr07g0185791' => 'lal', 'Lalb_Chr12g0204491' => 'lal', 'Lalb_Chr13g0295671' => 'lal', 'Lalb_Chr19g0136461' => 'lal', 'Lalb_Chr21g0309191' => 'lal', 'Lj1g0028158' => 'lja', 'Lj1P236T38' => 'lonja', 'Lj2C32G2' => 'lonja', 'Lj2P944T8' => 'lonja', 'Lj2P963T15' => 'lonja', 'Lj3g0011788' => 'lja', 'Lj4g0025027' => 'lja', 'Lj5P255T36' => 'lonja', 'Lj6g0018866' => 'lja', 'Lj6P608T31' => 'lonja', 'LjContig00408g0008879' => 'lja', 'Lsat_1_v5_gn_5_105820' => 'lsa', 'Lsat_1_v5_gn_6_38800' => 'lsa', 'Lsat_1_v5_gn_7_67141' => 'lsa', 'Manes.04G003400' => 'mes', 'Manes.07G020000' => 'mes', 'Manes.07G020100' => 'mes', 'Manes.07G020150' => 'mes', 'Manes.10G061500' => 'mes', 'Manes.10G123200' => 'mes', 'Manes.11G161900' => 'mes', 'Manes.15G029300' => 'mes', 'Mapoly0071s0018' => 'mpo', 'Mapoly0082s0023' => 'mpo', 'Mapoly3477s0001' => 'mpo', 'MBI05_g31233_MAGBIO' => 'mbi', 'MBI09_g05946_MAGBIO' => 'mbi', 'MBI09_g05947_MAGBIO' => 'mbi', 'MBI17_g08346_MAGBIO' => 'mbi', 'MCO04G038' => 'mco', 'MCO09G370' => 'mco', 'MCO13G605' => 'mco', 'MD00G1075500' => 'mdo', 'MD03G1144300' => 'mdo', 'MD08G1236800' => 'mdo', 'MD13G1193300' => 'mdo', 'MD15G1428700' => 'mdo', 'Medtr1g112030' => 'mtr', 'Medtr1g112050' => 'mtr', 'Medtr2g006290' => 'mtr', 'Medtr2g086510' => 'mtr', 'Medtr4g053120' => 'mtr', 'Medtr5g006320' => 'mtr', 'Medtr8g088720' => 'mtr', 'MELO3C004712.2' => 'cme', 'MELO3C006533.2' => 'cme', 'MELO3C019438.2' => 'cme', 'MELO3C019440.2' => 'cme', 'MELO3C019441.2' => 'cme', 'MELO3C019895.2' => 'cme', 'Migut.B00811' => 'egut', 'Migut.D02447' => 'egut', 'Migut.F00875' => 'egut', 'Migut.N00186' => 'egut', 'Migut.N01051' => 'egut', 'Migut.N02491' => 'egut', 'Migut.O00784' => 'egut', 'MSTRG.12367' => 'ama', 'MSTRG.18756' => 'ama', 'MSTRG.21042' => 'ama', 'Nitab4.5_0000559g0040' => 'nta', 'Nitab4.5_0000667g0190' => 'nta', 'Nitab4.5_0000755g0160' => 'nta', 'Nitab4.5_0001216g0080' => 'nta', 'Nitab4.5_0004069g0040' => 'nta', 'Nitab4.5_0004129g0010' => 'nta', 'Nitab4.5_0005744g0030' => 'nta', 'Nitab4.5_0006996g0030' => 'nta', 'Nitab4.5_0008971g0040' => 'nta', 'Nitab4.5_0009769g0020' => 'nta', 'Nitab4.5_0009833g0010' => 'nta', 'Nitab4.5_0013140g0020' => 'nta', 'Nn003s41376' => 'nnu', 'Nn1g01857' => 'nnu', 'Nn1g03611' => 'nnu', 'Nn1g06853' => 'nnu', 'Nn3g18360' => 'nnu', 'Nn4g26328' => 'nnu', 'Nn5g27531' => 'nnu', 'Nn6g34899' => 'nnu', 'Nn7g36299' => 'nnu', 'Oeu021485.1' => 'oeu', 'Oeu022433.1' => 'oeu', 'Oeu032111.1' => 'oeu', 'Oeu051608.1' => 'oeu', 'Os01g0860601' => 'osa', 'Os03g0659200' => 'osa', 'Os03g0835900' => 'osa', 'Os04g0412200' => 'osa', 'Os05g0443500' => 'osa', 'Os07g0251500' => 'osa', 'Os08g0104600' => 'osa', 'Peaxi162Scf00003g00047' => 'pax', 'Peaxi162Scf00003g00052' => 'pax', 'Peaxi162Scf00003g00394' => 'pax', 'Peaxi162Scf00091g00621' => 'pax', 'Peaxi162Scf00152g00146' => 'pax', 'Peaxi162Scf00173g00025' => 'pax', 'Peaxi162Scf00195g00102' => 'pax', 'Peaxi162Scf00402g00013' => 'pax', 'Peaxi162Scf00519g00618' => 'pax', 'PGR004G2838' => 'pgr', 'PGR044G2275' => 'pgr', 'PGR102G1377' => 'pgr', 'PGR119G1245' => 'pgr', 'PGR142G4449' => 'pgr', 'PGSC0003DMG400004532' => 'stu', 'PGSC0003DMG400011950' => 'stu', 'PGSC0003DMG400023391' => 'stu', 'PGSC0003DMG400023985' => 'stu', 'PGSC0003DMG400026360' => 'stu', 'PGSC0003DMG400035711' => 'stu', 'PGSC0003DMG400037286' => 'stu', 'PGSC0003DMG402005881' => 'stu', 'Phvul.002G045400' => 'pvu', 'Phvul.006G216600' => 'pvu', 'Phvul.006G216700' => 'pvu', 'Phvul.006G216800' => 'pvu', 'Phvul.007G022500' => 'pvu', 'Phvul.011G094400' => 'pvu', 'Potri.001G470700' => 'ptr', 'Potri.003G015200' => 'ptr', 'Potri.004G202500' => 'ptr', 'Potri.004G218400' => 'ptr', 'Potri.008G020100' => 'ptr', 'Potri.008G153200' => 'ptr', 'Potri.009G163800' => 'ptr', 'Potri.010G087300' => 'ptr', 'Potri.010G239100' => 'ptr', 'Pp3c10_16100' => 'ppa', 'Pp3c10_16880' => 'ppa', 'Pp3c16_6230' => 'ppa', 'Pp3c17_18910' => 'ppa', 'Pp3c3_22119' => 'ppa', 'Pp3c3_22140' => 'ppa', 'Pp3c4_8159' => 'ppa', 'Pp3c4_8171' => 'ppa', 'Pp3c4_8330' => 'ppa', 'PRCOL_00004098' => 'pco', 'Prupe.1G013900' => 'ppe', 'Prupe.1G226300' => 'ppe', 'Prupe.1G573600' => 'ppe', 'Prupe.6G130100' => 'ppe', 'Psat3g090040' => 'psa', 'Psat4g210440' => 'psa', 'Psat6g231040' => 'psa', 'Psat6g231080' => 'psa', 'Psat7g063000' => 'psa', 'Psat7g188000' => 'psa', 'Psat7g188040' => 'psa', 'PSO017G0206' => 'pso', 'PSO170G0501' => 'pso', 'PSO170G6422' => 'pso', 'PSO210G7739' => 'pso', 'PSO339G1808' => 'pso', 'PSO339G6135' => 'pso', 'PSO384G0010' => 'pso', 'PSO384G0964' => 'pso', 'PSO761G0050' => 'pso', 'PSO782G4085' => 'pso', 'QL01p012264' => 'qlo', 'QL02p099491' => 'qlo', 'QL03p033868' => 'qlo', 'QL04p046678' => 'qlo', 'QL06p002448' => 'qlo', 'RcHm_v2.0_Chr4g0416181' => 'rch', 'RcHm_v2.0_Chr5g0044701' => 'rch', 'RcHm_v2.0_Chr6g0265781' => 'rch', 'RcHm_v2.0_Chr7g0221031' => 'rch', 'Rhsim04G0202000' => 'rsi', 'Rhsim11G0127300' => 'rsi', 'Rhsim13G0111800' => 'rsi', 'Sabra01G0165600' => 'sbr', 'Sabra03G0008300' => 'sbr', 'Sabra04G0136900' => 'sbr', 'Sabra08G0013400' => 'sbr', 'Sabra08G0116800' => 'sbr', 'Sabra09G0128000' => 'sbr', 'Sabra10G0055500' => 'sbr', 'Sabra10G0073300' => 'sbr', 'SalBow3G0385' => 'sbo', 'SalBow3G1119' => 'sbo', 'SalBow3G2005' => 'sbo', 'SalBow6G2563' => 'sbo', 'SalBow6G6386' => 'sbo', 'Sc06g0008800' => 'sci', 'Sc07g0004950' => 'sci', 'Sc09g0005340' => 'sci', 'Sc13g0004410' => 'sci', 'Sc21g0007090' => 'sci', 'Sed0009285' => 'sed', 'Sed0017583' => 'sed', 'Sed0019699' => 'sed', 'Sed0023107' => 'sed', 'SEGI_10916' => 'sgi', 'SEGI_16217' => 'sgi', 'SEGI_19466' => 'sgi', 'SEGI_41115' => 'sgi', 'SGA_v2.0_scaffold111G31534' => 'sas', 'SGA_v2.0_scaffold22G09864' => 'sas', 'SGA_v2.0_scaffold338G49219' => 'sas', 'SGA_v2.0_scaffold92G28298' => 'sas', 'SMO119G0064' => 'smo', 'SMO223G0038' => 'smo', 'SMO347G0584' => 'smo', 'SMO351G0010' => 'smo', 'SMO356G0404' => 'smo', 'Solyc01g103920.3' => 'sly', 'Solyc04g009710.2' => 'sly', 'Solyc05g055280.2' => 'sly', 'Solyc10g044520.3' => 'sly', 'Solyc10g075160.1' => 'sly', 'Solyc11g006910.3' => 'sly', 'Solyc11g068430.3' => 'sly', 'Sopen01g046310' => 'spe', 'Sopen03g001200' => 'spe', 'Sopen04g004830' => 'spe', 'Sopen05g033720' => 'spe', 'Sopen06g030740' => 'spe', 'Sopen10g013090' => 'spe', 'Sopen10g027630' => 'spe', 'Sopen10g027640' => 'spe', 'Sopen11g002820' => 'spe', 'Sopen11g027140' => 'spe', 'Sp1g09680' => 'spa', 'Sp2g03630' => 'spa', 'Sp4g10320' => 'spa', 'Sp6g33400' => 'spa', 'Sp7g13030' => 'spa', 'TAR365G0317' => 'tar', 'TAR376G0979' => 'tar', 'TAR623G1665' => 'tar', 'TAR633G2373' => 'tar', 'TAR636G1400' => 'tar', 'THA.LOC104800529' => 'tha', 'THA.LOC104808547' => 'tha', 'THA.LOC104809615' => 'tha', 'THA.LOC104815724' => 'tha', 'THA.LOC104818480' => 'tha', 'THA.LOC104819179' => 'tha', 'THA.LOC104822270' => 'tha', 'THA.LOC104826425' => 'tha', 'Thecc.02G089700' => 'tca', 'Thecc.04G232300' => 'tca', 'Thecc.09G283400' => 'tca', 'Thhalv10009020m.g' => 'esa', 'Thhalv10015506m.g' => 'esa', 'Thhalv10017364m.g' => 'esa', 'Thhalv10023742m.g' => 'esa', 'Thhalv10026483m.g' => 'esa', 'TPR.G17232' => 'tpr', 'TPR.G2133' => 'tpr', 'TPR.G2498' => 'tpr', 'TPR.G31942' => 'tpr', 'TPR.G37877' => 'tpr', 'TPR.G4571' => 'tpr', 'TWI14G1113' => 'twi', 'TWI15G0426' => 'twi', 'TWI31G1005' => 'twi', 'TWI38G0513' => 'twi', 'TWI38G1484' => 'twi', 'TWI73G1098' => 'twi', 'unitig_26.g10519' => 'ugi', 'unitig_736.g22395' => 'ugi', 'unitig_747.g21234' => 'ugi', 'unitig_747.g21942' => 'ugi', 'vmacro14351' => 'vma', 'VMungo0540G0082' => 'vmu', 'VMungo0540G0405' => 'vmu', 'VMungo0540G1486' => 'vmu', 'VMungo0540G1692' => 'vmu', 'VMungo0720G2473' => 'vmu', 'VMungo1127G1562' => 'vmu', 'VMungo1215G1918' => 'vmu', 'Zm00001eb052650' => 'zma', 'Zm00001eb063710' => 'zma', 'Zm00001eb083950' => 'zma', 'Zm00001eb174420' => 'zma', 'Zm00001eb260140' => 'zma', 'Zm00001eb260150' => 'zma', 'Zm00001eb260160' => 'zma', 'Zm00001eb348290' => 'zma', 'Zm00001eb366870' => 'zma', 'Zm00001eb421930' => 'zma' ) $gf_id = 'HOM05D001025' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001025' ) $data_identifier = 'HOM05D001025' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 19, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 2, 'amhyb' => (int) 4, 'aly' => (int) 4, 'aox' => (int) 4, 'arhy' => (int) 3, 'ath' => (int) 5, 'atr' => (int) 4, 'acertr' => (int) 3, 'cqu' => (int) 7, 'bca' => (int) 17, 'bol' => (int) 10, 'bra' => (int) 9, 'can' => (int) 10, 'cansat' => (int) 6, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 5, 'cbr' => (int) 5, 'ccan' => (int) 5, 'cde' => (int) 4, 'cfa' => (int) 3, 'ccl' => (int) 6, 'cil' => (int) 4, 'cla' => (int) 3, 'col' => (int) 3, 'cpa' => (int) 3, 'cre' => (int) 7, 'csa' => (int) 5, 'camsi' => (int) 9, 'dca' => (int) 4, 'din' => (int) 5, 'dzi' => (int) 7, 'eca' => (int) 6, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 12, 'fve' => (int) 4, 'gma' => (int) 12, 'ghi' => (int) 17, 'gra' => (int) 9, 'vvi' => (int) 2, 'han' => (int) 8, 'cav' => (int) 5, 'hma' => (int) 9, 'vpl' => (int) 4, 'sun' => (int) 2, 'lal' => (int) 9, 'lja' => (int) 5, 'lonja' => (int) 6, 'lsa' => (int) 3, 'mes' => (int) 8, 'mpo' => (int) 3, 'mbi' => (int) 4, 'mco' => (int) 3, 'mdo' => (int) 5, 'mtr' => (int) 7, 'cme' => (int) 6, 'egut' => (int) 7, 'ama' => (int) 3, 'nta' => (int) 12, 'nnu' => (int) 9, 'oeu' => (int) 4, 'osa' => (int) 7, 'pax' => (int) 9, 'pgr' => (int) 5, 'stu' => (int) 8, 'pvu' => (int) 6, 'ptr' => (int) 9, 'ppa' => (int) 9, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 7, 'pso' => (int) 10, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 3, 'sbr' => (int) 8, 'sbo' => (int) 5, 'sci' => (int) 5, 'sed' => (int) 4, 'sgi' => (int) 4, 'sas' => (int) 4, 'smo' => (int) 5, 'sly' => (int) 7, 'spe' => (int) 10, 'spa' => (int) 5, 'tar' => (int) 5, 'tha' => (int) 8, 'tca' => (int) 3, 'esa' => (int) 5, 'tpr' => (int) 6, 'twi' => (int) 6, 'ugi' => (int) 4, 'vma' => (int) 1, 'vmu' => (int) 7, 'zma' => (int) 10 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb421930' $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' => 'HOM05D001025', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '592', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p22650' => 'bna', 'A01p29720' => 'bna', 'A03p26560' => 'bna', 'A03p68820' => 'bna', 'A04p20980' => 'bna', 'A06p07730' => 'bna', 'A07p18260' => 'bna', 'A08p33710' => 'bna', 'A09p16970' => 'bna', 'A10p27490' => 'bna', 'Aa31LG1G17300' => 'aar', 'Aa31LG1G3910' => 'aar', 'Aa31LG2G9630' => 'aar', 'Aa31LG5G8360' => 'aar', 'Aa31LG9G2410' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4699' => 'aag', 'Actinidia23512' => 'ach', 'Actinidia37080' => 'ach', 'Ah.01g020380' => 'amhyb', 'Ah.08g215710' => 'amhyb', 'Ah.09g225110' => 'amhyb', 'Ah.10g036680' => 'amhyb', 'AL1G21940' => 'aly', 'AL2G15540' => 'aly', 'AL4G21520' => 'aly', 'AL7G40960' => 'aly', 'Aqoxy2G01191' => 'aox', 'Aqoxy2G03393' => 'aox', 'Aqoxy4G02775' => 'aox', 'Aqoxy6G00058' => 'aox', 'arahy.Tifrunner.gnm1.ann1.9X74H2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CW3FX9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R485W7' => 'arhy', 'AT1G10960' => 'ath', 'AT1G60950' => 'ath', 'AT2G27510' => 'ath', 'AT4G14890' => 'ath', 'AT5G10000' => 'ath', 'ATR0665G624' => 'atr', 'ATR0697G138' => 'atr', 'ATR0776G046' => 'atr', 'ATR1134G135' => 'atr', 'Atru.chr12.1025' => 'acertr', 'Atru.chr3.3241' => 'acertr', 'Atru.chr4.2460' => 'acertr', 'AUR62007427' => 'cqu', 'AUR62010960' => 'cqu', 'AUR62012201' => 'cqu', 'AUR62021470' => 'cqu', 'AUR62022834' => 'cqu', 'AUR62033635' => 'cqu', 'AUR62036186' => 'cqu', 'BcaB01g03077' => 'bca', 'BcaB02g10093' => 'bca', 'BcaB04g20295' => 'bca', 'BcaB06g28147' => 'bca', 'BcaB07g31253' => 'bca', 'BcaC01g04946' => 'bca', 'BcaC02g10614' => 'bca', 'BcaC02g10885' => 'bca', 'BcaC04g19356' => 'bca', 'BcaC04g22297' => 'bca', 'BcaC05g24977' => 'bca', 'BcaC06g31823' => 'bca', 'BcaC07g38633' => 'bca', 'BcaC09g49353' => 'bca', 'BcaC09g50168' => 'bca', 'BcaNung00322' => 'bca', 'BcaNung04769' => 'bca', 'BolC1t02753H' => 'bol', 'BolC1t03721H' => 'bol', 'BolC3t15525H' => 'bol', 'BolC4t23903H' => 'bol', 'BolC4t24231H' => 'bol', 'BolC4t27209H' => 'bol', 'BolC5t29671H' => 'bol', 'BolC8t49044H' => 'bol', 'BolC9t54999H' => 'bol', 'BolC9t59517H' => 'bol', 'BraA01t02178Z' => 'bra', 'BraA01t03099Z' => 'bra', 'BraA03t11867Z' => 'bra', 'BraA04t17667Z' => 'bra', 'BraA07t29542Z' => 'bra', 'BraA08t35287Z' => 'bra', 'BraA09t37334Z' => 'bra', 'BraA10t44801Z' => 'bra', 'BraSC39t46181Z' => 'bra', 'C01p28240' => 'bna', 'C01p37530' => 'bna', 'C03p31820' => 'bna', 'C04p24080' => 'bna', 'C04p25790' => 'bna', 'C04p56770' => 'bna', 'C05p09310' => 'bna', 'C09p21010' => 'bna', 'C09p67560' => 'bna', 'CAN.G1324.7' => 'can', 'CAN.G1358.10' => 'can', 'CAN.G1550.2' => 'can', 'CAN.G186.56' => 'can', 'CAN.G1965.1' => 'can', 'CAN.G645.15' => 'can', 'CAN.G798.26' => 'can', 'CAN.G798.27' => 'can', 'CAN.G798.29' => 'can', 'CAN.G919.31' => 'can', 'CANSAT11G0133' => 'cansat', 'CANSAT11G1171' => 'cansat', 'CANSAT11G2056' => 'cansat', 'CANSAT56G1202' => 'cansat', 'CANSAT56G1514' => 'cansat', 'CANSAT78G0455' => 'cansat', 'CARHR011190' => 'chi', 'CARHR051980' => 'chi', 'CARHR120170' => 'chi', 'CARHR203310' => 'chi', 'CARHR221490' => 'chi', 'Carub.0001s1054' => 'cru', 'Carub.0002s0431' => 'cru', 'Carub.0004s0818' => 'cru', 'Carub.0006s0846' => 'cru', 'Carub.0007s2722' => 'cru', 'Ca_00058_v3' => 'car', 'Ca_17831_v3' => 'car', 'Ca_19408_v3' => 'car', 'Ca_24397_v3' => 'car', 'Ca_25664_v3' => 'car', 'CBR_g21818' => 'cbr', 'CBR_g31195' => 'cbr', 'CBR_g32282' => 'cbr', 'CBR_g39599' => 'cbr', 'CBR_g49410' => 'cbr', 'Cc01_g09120' => 'ccan', 'Cc01_g09130' => 'ccan', 'Cc02_g09630' => 'ccan', 'Cc02_g22810' => 'ccan', 'Cc03_g03810' => 'ccan', 'CDE02G3718' => 'cde', 'CDE04G3183' => 'cde', 'CDE07G1046' => 'cde', 'CDE08G0480' => 'cde', 'Cfa005493' => 'cfa', 'Cfa010312' => 'cfa', 'Cfa015648' => 'cfa', 'Ciclev10002793m.g' => 'ccl', 'Ciclev10003356m.g' => 'ccl', 'Ciclev10006141m.g' => 'ccl', 'Ciclev10016676m.g' => 'ccl', 'Ciclev10017081m.g' => 'ccl', 'Ciclev10029499m.g' => 'ccl', 'CiPaw.01G166300' => 'cil', 'CiPaw.06G145600' => 'cil', 'CiPaw.13G040100' => 'cil', 'CiPaw.13G135800' => 'cil', 'ClCG01G012230' => 'cla', 'ClCG05G009510' => 'cla', 'ClCG08G008270' => 'cla', 'COL.COLO4_11763' => 'col', 'COL.COLO4_19876' => 'col', 'COL.COLO4_21481' => 'col', 'Cpa.g.sc118.34' => 'cpa', 'Cpa.g.sc32.13' => 'cpa', 'Cpa.g.sc58.103' => 'cpa', 'Cre03.g183850' => 'cre', 'Cre06.g306350' => 'cre', 'Cre07.g334800' => 'cre', 'Cre12.g487900' => 'cre', 'Cre14.g626700' => 'cre', 'Cre16.g658400' => 'cre', 'Cre17.g700950' => 'cre', 'CsaV3_1G014830' => 'csa', 'CsaV3_3G013320' => 'csa', 'CsaV3_3G019210' => 'csa', 'CsaV3_3G019220' => 'csa', 'CsaV3_6G004230' => 'csa', 'CSS0003773' => 'camsi', 'CSS0004563' => 'camsi', 'CSS0013949' => 'camsi', 'CSS0025971' => 'camsi', 'CSS0028570' => 'camsi', 'CSS0033127' => 'camsi', 'CSS0036051' => 'camsi', 'CSS0040087' => 'camsi', 'CSS0043179' => 'camsi', 'DCAR_006161' => 'dca', 'DCAR_010351' => 'dca', 'DCAR_012197' => 'dca', 'DCAR_024162' => 'dca', 'Dinv01030' => 'din', 'Dinv10924' => 'din', 'Dinv11835' => 'din', 'Dinv22841' => 'din', 'Dinv42553' => 'din', 'Duzib052G0560' => 'dzi', 'Duzib132G0389' => 'dzi', 'Duzib150G1181' => 'dzi', 'Duzib168G0623' => 'dzi', 'Duzib170G1036' => 'dzi', 'Duzib212G0200' => 'dzi', 'Duzib248G0194' => 'dzi', 'ECA232G2193' => 'eca', 'ECA233G0302' => 'eca', 'ECA234G2813' => 'eca', 'ECA234G4866' => 'eca', 'ECA240G3932' => 'eca', 'ECA248G0385' => 'eca', 'EL10Ac2g04781' => 'bvu', 'EL10Ac3g06445' => 'bvu', 'EL10Ac7g15825' => 'bvu', 'EL10Ac8g18550' => 'bvu', 'Eucgr.B03849' => 'egr', 'Eucgr.I02744' => 'egr', 'Eucgr.J00264' => 'egr', 'Eucgr.J00493' => 'egr', 'FAN04G2181' => 'fan', 'FAN07G2666' => 'fan', 'FAN11G0024' => 'fan', 'FAN12G1105' => 'fan', 'FAN13G0302' => 'fan', 'FAN15G2781' => 'fan', 'FAN16G1274' => 'fan', 'FAN17G2988' => 'fan', 'FAN18G2621' => 'fan', 'FAN21G0013' => 'fan', 'FAN22G1211' => 'fan', 'FAN25G3626' => 'fan', 'FvH4_2g09491' => 'fve', 'FvH4_3g24910' => 'fve', 'FvH4_4g15630' => 'fve', 'FvH4_5g28820' => 'fve', 'Glyma.01G238000' => 'gma', 'Glyma.05G168400' => 'gma', 'Glyma.08G126800' => 'gma', 'Glyma.08G188500' => 'gma', 'Glyma.10G278900' => 'gma', 'Glyma.11G005700' => 'gma', 'Glyma.11G183300' => 'gma', 'Glyma.12G089200' => 'gma', 'Glyma.12G169400' => 'gma', 'Glyma.12G169500' => 'gma', 'Glyma.12G169600' => 'gma', 'Glyma.20G110800' => 'gma', 'Gohir.A03G192900' => 'ghi', 'Gohir.A03G193000' => 'ghi', 'Gohir.A05G080700' => 'ghi', 'Gohir.A09G216000' => 'ghi', 'Gohir.A12G027700' => 'ghi', 'Gohir.A13G036200' => 'ghi', 'Gohir.A13G222600' => 'ghi', 'Gohir.D02G213900' => 'ghi', 'Gohir.D02G214000' => 'ghi', 'Gohir.D05G083700' => 'ghi', 'Gohir.D05G083800' => 'ghi', 'Gohir.D05G083850' => 'ghi', 'Gohir.D08G015400' => 'ghi', 'Gohir.D09G218400' => 'ghi', 'Gohir.D12G027100' => 'ghi', 'Gohir.D13G034500' => 'ghi', 'Gohir.D13G227400' => 'ghi', 'Gorai.005G241800' => 'gra', 'Gorai.005G241900' => 'gra', 'Gorai.006G239400' => 'gra', 'Gorai.008G027600' => 'gra', 'Gorai.009G085400' => 'gra', 'Gorai.009G085500' => 'gra', 'Gorai.013G039000' => 'gra', 'Gorai.013G194800' => 'gra', 'Gorai.013G257900' => 'gra', 'GSVIVG01000982001' => 'vvi', 'GSVIVG01017981001' => 'vvi', 'HanXRQChr01g0024061' => 'han', 'HanXRQChr09g0247831' => 'han', 'HanXRQChr10g0294611' => 'han', 'HanXRQChr10g0294621' => 'han', 'HanXRQChr11g0346821' => 'han', 'HanXRQChr13g0397461' => 'han', 'HanXRQChr16g0513651' => 'han', 'HanXRQChr16g0513701' => 'han', 'Haze_00897' => 'cav', 'Haze_01745' => 'cav', 'Haze_02486' => 'cav', 'Haze_02487' => 'cav', 'Haze_23374' => 'cav', 'Hma1.2p1_0578F.1_g182520' => 'hma', 'Hma1.2p1_0602F.1_g187350' => 'hma', 'Hma1.2p1_0602F.1_g187360' => 'hma', 'Hma1.2p1_0874F.1_g231320' => 'hma', 'Hma1.2p1_1197F.1_g266210' => 'hma', 'Hma1.2p1_1197F.1_g266220' => 'hma', 'Hma1.2p1_2167F.1_g315895' => 'hma', 'Hma1.2p1_2190F.1_g316640' => 'hma', 'Hma1.2p1_3645F.1_g337153' => 'hma', 'HPP92_004907' => 'vpl', 'HPP92_012134' => 'vpl', 'HPP92_025136' => 'vpl', 'HPP92_026087' => 'vpl', 'Hund06782' => 'sun', 'Hund06784' => 'sun', 'Lalb_Chr01g0004861' => 'lal', 'Lalb_Chr02g0140591' => 'lal', 'Lalb_Chr02g0140611' => 'lal', 'Lalb_Chr03g0028101' => 'lal', 'Lalb_Chr07g0185791' => 'lal', 'Lalb_Chr12g0204491' => 'lal', 'Lalb_Chr13g0295671' => 'lal', 'Lalb_Chr19g0136461' => 'lal', 'Lalb_Chr21g0309191' => 'lal', 'Lj1g0028158' => 'lja', 'Lj1P236T38' => 'lonja', 'Lj2C32G2' => 'lonja', 'Lj2P944T8' => 'lonja', 'Lj2P963T15' => 'lonja', 'Lj3g0011788' => 'lja', 'Lj4g0025027' => 'lja', 'Lj5P255T36' => 'lonja', 'Lj6g0018866' => 'lja', 'Lj6P608T31' => 'lonja', 'LjContig00408g0008879' => 'lja', 'Lsat_1_v5_gn_5_105820' => 'lsa', 'Lsat_1_v5_gn_6_38800' => 'lsa', 'Lsat_1_v5_gn_7_67141' => 'lsa', 'Manes.04G003400' => 'mes', 'Manes.07G020000' => 'mes', 'Manes.07G020100' => 'mes', 'Manes.07G020150' => 'mes', 'Manes.10G061500' => 'mes', 'Manes.10G123200' => 'mes', 'Manes.11G161900' => 'mes', 'Manes.15G029300' => 'mes', 'Mapoly0071s0018' => 'mpo', 'Mapoly0082s0023' => 'mpo', 'Mapoly3477s0001' => 'mpo', 'MBI05_g31233_MAGBIO' => 'mbi', 'MBI09_g05946_MAGBIO' => 'mbi', 'MBI09_g05947_MAGBIO' => 'mbi', 'MBI17_g08346_MAGBIO' => 'mbi', 'MCO04G038' => 'mco', 'MCO09G370' => 'mco', 'MCO13G605' => 'mco', 'MD00G1075500' => 'mdo', 'MD03G1144300' => 'mdo', 'MD08G1236800' => 'mdo', 'MD13G1193300' => 'mdo', 'MD15G1428700' => 'mdo', 'Medtr1g112030' => 'mtr', 'Medtr1g112050' => 'mtr', 'Medtr2g006290' => 'mtr', 'Medtr2g086510' => 'mtr', 'Medtr4g053120' => 'mtr', 'Medtr5g006320' => 'mtr', 'Medtr8g088720' => 'mtr', 'MELO3C004712.2' => 'cme', 'MELO3C006533.2' => 'cme', 'MELO3C019438.2' => 'cme', 'MELO3C019440.2' => 'cme', 'MELO3C019441.2' => 'cme', 'MELO3C019895.2' => 'cme', 'Migut.B00811' => 'egut', 'Migut.D02447' => 'egut', 'Migut.F00875' => 'egut', 'Migut.N00186' => 'egut', 'Migut.N01051' => 'egut', 'Migut.N02491' => 'egut', 'Migut.O00784' => 'egut', 'MSTRG.12367' => 'ama', 'MSTRG.18756' => 'ama', 'MSTRG.21042' => 'ama', 'Nitab4.5_0000559g0040' => 'nta', 'Nitab4.5_0000667g0190' => 'nta', 'Nitab4.5_0000755g0160' => 'nta', 'Nitab4.5_0001216g0080' => 'nta', 'Nitab4.5_0004069g0040' => 'nta', 'Nitab4.5_0004129g0010' => 'nta', 'Nitab4.5_0005744g0030' => 'nta', 'Nitab4.5_0006996g0030' => 'nta', 'Nitab4.5_0008971g0040' => 'nta', 'Nitab4.5_0009769g0020' => 'nta', 'Nitab4.5_0009833g0010' => 'nta', 'Nitab4.5_0013140g0020' => 'nta', 'Nn003s41376' => 'nnu', 'Nn1g01857' => 'nnu', 'Nn1g03611' => 'nnu', 'Nn1g06853' => 'nnu', 'Nn3g18360' => 'nnu', 'Nn4g26328' => 'nnu', 'Nn5g27531' => 'nnu', 'Nn6g34899' => 'nnu', 'Nn7g36299' => 'nnu', 'Oeu021485.1' => 'oeu', 'Oeu022433.1' => 'oeu', 'Oeu032111.1' => 'oeu', 'Oeu051608.1' => 'oeu', 'Os01g0860601' => 'osa', 'Os03g0659200' => 'osa', 'Os03g0835900' => 'osa', 'Os04g0412200' => 'osa', 'Os05g0443500' => 'osa', 'Os07g0251500' => 'osa', 'Os08g0104600' => 'osa', 'Peaxi162Scf00003g00047' => 'pax', 'Peaxi162Scf00003g00052' => 'pax', 'Peaxi162Scf00003g00394' => 'pax', 'Peaxi162Scf00091g00621' => 'pax', 'Peaxi162Scf00152g00146' => 'pax', 'Peaxi162Scf00173g00025' => 'pax', 'Peaxi162Scf00195g00102' => 'pax', 'Peaxi162Scf00402g00013' => 'pax', 'Peaxi162Scf00519g00618' => 'pax', 'PGR004G2838' => 'pgr', 'PGR044G2275' => 'pgr', 'PGR102G1377' => 'pgr', 'PGR119G1245' => 'pgr', 'PGR142G4449' => 'pgr', 'PGSC0003DMG400004532' => 'stu', 'PGSC0003DMG400011950' => 'stu', 'PGSC0003DMG400023391' => 'stu', 'PGSC0003DMG400023985' => 'stu', 'PGSC0003DMG400026360' => 'stu', 'PGSC0003DMG400035711' => 'stu', 'PGSC0003DMG400037286' => 'stu', 'PGSC0003DMG402005881' => 'stu', 'Phvul.002G045400' => 'pvu', 'Phvul.006G216600' => 'pvu', 'Phvul.006G216700' => 'pvu', 'Phvul.006G216800' => 'pvu', 'Phvul.007G022500' => 'pvu', 'Phvul.011G094400' => 'pvu', 'Potri.001G470700' => 'ptr', 'Potri.003G015200' => 'ptr', 'Potri.004G202500' => 'ptr', 'Potri.004G218400' => 'ptr', 'Potri.008G020100' => 'ptr', 'Potri.008G153200' => 'ptr', 'Potri.009G163800' => 'ptr', 'Potri.010G087300' => 'ptr', 'Potri.010G239100' => 'ptr', 'Pp3c10_16100' => 'ppa', 'Pp3c10_16880' => 'ppa', 'Pp3c16_6230' => 'ppa', 'Pp3c17_18910' => 'ppa', 'Pp3c3_22119' => 'ppa', 'Pp3c3_22140' => 'ppa', 'Pp3c4_8159' => 'ppa', 'Pp3c4_8171' => 'ppa', 'Pp3c4_8330' => 'ppa', 'PRCOL_00004098' => 'pco', 'Prupe.1G013900' => 'ppe', 'Prupe.1G226300' => 'ppe', 'Prupe.1G573600' => 'ppe', 'Prupe.6G130100' => 'ppe', 'Psat3g090040' => 'psa', 'Psat4g210440' => 'psa', 'Psat6g231040' => 'psa', 'Psat6g231080' => 'psa', 'Psat7g063000' => 'psa', 'Psat7g188000' => 'psa', 'Psat7g188040' => 'psa', 'PSO017G0206' => 'pso', 'PSO170G0501' => 'pso', 'PSO170G6422' => 'pso', 'PSO210G7739' => 'pso', 'PSO339G1808' => 'pso', 'PSO339G6135' => 'pso', 'PSO384G0010' => 'pso', 'PSO384G0964' => 'pso', 'PSO761G0050' => 'pso', 'PSO782G4085' => 'pso', 'QL01p012264' => 'qlo', 'QL02p099491' => 'qlo', 'QL03p033868' => 'qlo', 'QL04p046678' => 'qlo', 'QL06p002448' => 'qlo', 'RcHm_v2.0_Chr4g0416181' => 'rch', 'RcHm_v2.0_Chr5g0044701' => 'rch', 'RcHm_v2.0_Chr6g0265781' => 'rch', 'RcHm_v2.0_Chr7g0221031' => 'rch', 'Rhsim04G0202000' => 'rsi', 'Rhsim11G0127300' => 'rsi', 'Rhsim13G0111800' => 'rsi', 'Sabra01G0165600' => 'sbr', 'Sabra03G0008300' => 'sbr', 'Sabra04G0136900' => 'sbr', 'Sabra08G0013400' => 'sbr', 'Sabra08G0116800' => 'sbr', 'Sabra09G0128000' => 'sbr', 'Sabra10G0055500' => 'sbr', 'Sabra10G0073300' => 'sbr', 'SalBow3G0385' => 'sbo', 'SalBow3G1119' => 'sbo', 'SalBow3G2005' => 'sbo', 'SalBow6G2563' => 'sbo', 'SalBow6G6386' => 'sbo', 'Sc06g0008800' => 'sci', 'Sc07g0004950' => 'sci', 'Sc09g0005340' => 'sci', 'Sc13g0004410' => 'sci', 'Sc21g0007090' => 'sci', 'Sed0009285' => 'sed', 'Sed0017583' => 'sed', 'Sed0019699' => 'sed', 'Sed0023107' => 'sed', 'SEGI_10916' => 'sgi', 'SEGI_16217' => 'sgi', 'SEGI_19466' => 'sgi', 'SEGI_41115' => 'sgi', 'SGA_v2.0_scaffold111G31534' => 'sas', 'SGA_v2.0_scaffold22G09864' => 'sas', 'SGA_v2.0_scaffold338G49219' => 'sas', 'SGA_v2.0_scaffold92G28298' => 'sas', 'SMO119G0064' => 'smo', 'SMO223G0038' => 'smo', 'SMO347G0584' => 'smo', 'SMO351G0010' => 'smo', 'SMO356G0404' => 'smo', 'Solyc01g103920.3' => 'sly', 'Solyc04g009710.2' => 'sly', 'Solyc05g055280.2' => 'sly', 'Solyc10g044520.3' => 'sly', 'Solyc10g075160.1' => 'sly', 'Solyc11g006910.3' => 'sly', 'Solyc11g068430.3' => 'sly', 'Sopen01g046310' => 'spe', 'Sopen03g001200' => 'spe', 'Sopen04g004830' => 'spe', 'Sopen05g033720' => 'spe', 'Sopen06g030740' => 'spe', 'Sopen10g013090' => 'spe', 'Sopen10g027630' => 'spe', 'Sopen10g027640' => 'spe', 'Sopen11g002820' => 'spe', 'Sopen11g027140' => 'spe', 'Sp1g09680' => 'spa', 'Sp2g03630' => 'spa', 'Sp4g10320' => 'spa', 'Sp6g33400' => 'spa', 'Sp7g13030' => 'spa', 'TAR365G0317' => 'tar', 'TAR376G0979' => 'tar', 'TAR623G1665' => 'tar', 'TAR633G2373' => 'tar', 'TAR636G1400' => 'tar', 'THA.LOC104800529' => 'tha', 'THA.LOC104808547' => 'tha', 'THA.LOC104809615' => 'tha', 'THA.LOC104815724' => 'tha', 'THA.LOC104818480' => 'tha', 'THA.LOC104819179' => 'tha', 'THA.LOC104822270' => 'tha', 'THA.LOC104826425' => 'tha', 'Thecc.02G089700' => 'tca', 'Thecc.04G232300' => 'tca', 'Thecc.09G283400' => 'tca', 'Thhalv10009020m.g' => 'esa', 'Thhalv10015506m.g' => 'esa', 'Thhalv10017364m.g' => 'esa', 'Thhalv10023742m.g' => 'esa', 'Thhalv10026483m.g' => 'esa', 'TPR.G17232' => 'tpr', 'TPR.G2133' => 'tpr', 'TPR.G2498' => 'tpr', 'TPR.G31942' => 'tpr', 'TPR.G37877' => 'tpr', 'TPR.G4571' => 'tpr', 'TWI14G1113' => 'twi', 'TWI15G0426' => 'twi', 'TWI31G1005' => 'twi', 'TWI38G0513' => 'twi', 'TWI38G1484' => 'twi', 'TWI73G1098' => 'twi', 'unitig_26.g10519' => 'ugi', 'unitig_736.g22395' => 'ugi', 'unitig_747.g21234' => 'ugi', 'unitig_747.g21942' => 'ugi', 'vmacro14351' => 'vma', 'VMungo0540G0082' => 'vmu', 'VMungo0540G0405' => 'vmu', 'VMungo0540G1486' => 'vmu', 'VMungo0540G1692' => 'vmu', 'VMungo0720G2473' => 'vmu', 'VMungo1127G1562' => 'vmu', 'VMungo1215G1918' => 'vmu', 'Zm00001eb052650' => 'zma', 'Zm00001eb063710' => 'zma', 'Zm00001eb083950' => 'zma', 'Zm00001eb174420' => 'zma', 'Zm00001eb260140' => 'zma', 'Zm00001eb260150' => 'zma', 'Zm00001eb260160' => 'zma', 'Zm00001eb348290' => 'zma', 'Zm00001eb366870' => 'zma', 'Zm00001eb421930' => 'zma' ), 'gf_id' => 'HOM05D001025', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001025' ), 'data_identifier' => 'HOM05D001025', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001025', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '592', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p22650' => 'bna', 'A01p29720' => 'bna', 'A03p26560' => 'bna', 'A03p68820' => 'bna', 'A04p20980' => 'bna', 'A06p07730' => 'bna', 'A07p18260' => 'bna', 'A08p33710' => 'bna', 'A09p16970' => 'bna', 'A10p27490' => 'bna', 'Aa31LG1G17300' => 'aar', 'Aa31LG1G3910' => 'aar', 'Aa31LG2G9630' => 'aar', 'Aa31LG5G8360' => 'aar', 'Aa31LG9G2410' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4699' => 'aag', 'Actinidia23512' => 'ach', 'Actinidia37080' => 'ach', 'Ah.01g020380' => 'amhyb', 'Ah.08g215710' => 'amhyb', 'Ah.09g225110' => 'amhyb', 'Ah.10g036680' => 'amhyb', 'AL1G21940' => 'aly', 'AL2G15540' => 'aly', 'AL4G21520' => 'aly', 'AL7G40960' => 'aly', 'Aqoxy2G01191' => 'aox', 'Aqoxy2G03393' => 'aox', 'Aqoxy4G02775' => 'aox', 'Aqoxy6G00058' => 'aox', 'arahy.Tifrunner.gnm1.ann1.9X74H2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CW3FX9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R485W7' => 'arhy', 'AT1G10960' => 'ath', 'AT1G60950' => 'ath', 'AT2G27510' => 'ath', 'AT4G14890' => 'ath', 'AT5G10000' => 'ath', 'ATR0665G624' => 'atr', 'ATR0697G138' => 'atr', 'ATR0776G046' => 'atr', 'ATR1134G135' => 'atr', 'Atru.chr12.1025' => 'acertr', 'Atru.chr3.3241' => 'acertr', 'Atru.chr4.2460' => 'acertr', 'AUR62007427' => 'cqu', 'AUR62010960' => 'cqu', 'AUR62012201' => 'cqu', 'AUR62021470' => 'cqu', 'AUR62022834' => 'cqu', 'AUR62033635' => 'cqu', 'AUR62036186' => 'cqu', 'BcaB01g03077' => 'bca', 'BcaB02g10093' => 'bca', 'BcaB04g20295' => 'bca', 'BcaB06g28147' => 'bca', 'BcaB07g31253' => 'bca', 'BcaC01g04946' => 'bca', 'BcaC02g10614' => 'bca', 'BcaC02g10885' => 'bca', 'BcaC04g19356' => 'bca', 'BcaC04g22297' => 'bca', 'BcaC05g24977' => 'bca', 'BcaC06g31823' => 'bca', 'BcaC07g38633' => 'bca', 'BcaC09g49353' => 'bca', 'BcaC09g50168' => 'bca', 'BcaNung00322' => 'bca', 'BcaNung04769' => 'bca', 'BolC1t02753H' => 'bol', 'BolC1t03721H' => 'bol', 'BolC3t15525H' => 'bol', 'BolC4t23903H' => 'bol', 'BolC4t24231H' => 'bol', 'BolC4t27209H' => 'bol', 'BolC5t29671H' => 'bol', 'BolC8t49044H' => 'bol', 'BolC9t54999H' => 'bol', 'BolC9t59517H' => 'bol', 'BraA01t02178Z' => 'bra', 'BraA01t03099Z' => 'bra', 'BraA03t11867Z' => 'bra', 'BraA04t17667Z' => 'bra', 'BraA07t29542Z' => 'bra', 'BraA08t35287Z' => 'bra', 'BraA09t37334Z' => 'bra', 'BraA10t44801Z' => 'bra', 'BraSC39t46181Z' => 'bra', 'C01p28240' => 'bna', 'C01p37530' => 'bna', 'C03p31820' => 'bna', 'C04p24080' => 'bna', 'C04p25790' => 'bna', 'C04p56770' => 'bna', 'C05p09310' => 'bna', 'C09p21010' => 'bna', 'C09p67560' => 'bna', 'CAN.G1324.7' => 'can', 'CAN.G1358.10' => 'can', 'CAN.G1550.2' => 'can', 'CAN.G186.56' => 'can', 'CAN.G1965.1' => 'can', 'CAN.G645.15' => 'can', 'CAN.G798.26' => 'can', 'CAN.G798.27' => 'can', 'CAN.G798.29' => 'can', 'CAN.G919.31' => 'can', 'CANSAT11G0133' => 'cansat', 'CANSAT11G1171' => 'cansat', 'CANSAT11G2056' => 'cansat', 'CANSAT56G1202' => 'cansat', 'CANSAT56G1514' => 'cansat', 'CANSAT78G0455' => 'cansat', 'CARHR011190' => 'chi', 'CARHR051980' => 'chi', 'CARHR120170' => 'chi', 'CARHR203310' => 'chi', 'CARHR221490' => 'chi', 'Carub.0001s1054' => 'cru', 'Carub.0002s0431' => 'cru', 'Carub.0004s0818' => 'cru', 'Carub.0006s0846' => 'cru', 'Carub.0007s2722' => 'cru', 'Ca_00058_v3' => 'car', 'Ca_17831_v3' => 'car', 'Ca_19408_v3' => 'car', 'Ca_24397_v3' => 'car', 'Ca_25664_v3' => 'car', 'CBR_g21818' => 'cbr', 'CBR_g31195' => 'cbr', 'CBR_g32282' => 'cbr', 'CBR_g39599' => 'cbr', 'CBR_g49410' => 'cbr', 'Cc01_g09120' => 'ccan', 'Cc01_g09130' => 'ccan', 'Cc02_g09630' => 'ccan', 'Cc02_g22810' => 'ccan', 'Cc03_g03810' => 'ccan', 'CDE02G3718' => 'cde', 'CDE04G3183' => 'cde', 'CDE07G1046' => 'cde', 'CDE08G0480' => 'cde', 'Cfa005493' => 'cfa', 'Cfa010312' => 'cfa', 'Cfa015648' => 'cfa', 'Ciclev10002793m.g' => 'ccl', 'Ciclev10003356m.g' => 'ccl', 'Ciclev10006141m.g' => 'ccl', 'Ciclev10016676m.g' => 'ccl', 'Ciclev10017081m.g' => 'ccl', 'Ciclev10029499m.g' => 'ccl', 'CiPaw.01G166300' => 'cil', 'CiPaw.06G145600' => 'cil', 'CiPaw.13G040100' => 'cil', 'CiPaw.13G135800' => 'cil', 'ClCG01G012230' => 'cla', 'ClCG05G009510' => 'cla', 'ClCG08G008270' => 'cla', 'COL.COLO4_11763' => 'col', 'COL.COLO4_19876' => 'col', 'COL.COLO4_21481' => 'col', 'Cpa.g.sc118.34' => 'cpa', 'Cpa.g.sc32.13' => 'cpa', 'Cpa.g.sc58.103' => 'cpa', 'Cre03.g183850' => 'cre', 'Cre06.g306350' => 'cre', 'Cre07.g334800' => 'cre', 'Cre12.g487900' => 'cre', 'Cre14.g626700' => 'cre', 'Cre16.g658400' => 'cre', 'Cre17.g700950' => 'cre', 'CsaV3_1G014830' => 'csa', 'CsaV3_3G013320' => 'csa', 'CsaV3_3G019210' => 'csa', 'CsaV3_3G019220' => 'csa', 'CsaV3_6G004230' => 'csa', 'CSS0003773' => 'camsi', 'CSS0004563' => 'camsi', 'CSS0013949' => 'camsi', 'CSS0025971' => 'camsi', 'CSS0028570' => 'camsi', 'CSS0033127' => 'camsi', 'CSS0036051' => 'camsi', 'CSS0040087' => 'camsi', 'CSS0043179' => 'camsi', 'DCAR_006161' => 'dca', 'DCAR_010351' => 'dca', 'DCAR_012197' => 'dca', 'DCAR_024162' => 'dca', 'Dinv01030' => 'din', 'Dinv10924' => 'din', 'Dinv11835' => 'din', 'Dinv22841' => 'din', 'Dinv42553' => 'din', 'Duzib052G0560' => 'dzi', 'Duzib132G0389' => 'dzi', 'Duzib150G1181' => 'dzi', 'Duzib168G0623' => 'dzi', 'Duzib170G1036' => 'dzi', 'Duzib212G0200' => 'dzi', 'Duzib248G0194' => 'dzi', 'ECA232G2193' => 'eca', 'ECA233G0302' => 'eca', 'ECA234G2813' => 'eca', 'ECA234G4866' => 'eca', 'ECA240G3932' => 'eca', 'ECA248G0385' => 'eca', 'EL10Ac2g04781' => 'bvu', 'EL10Ac3g06445' => 'bvu', 'EL10Ac7g15825' => 'bvu', 'EL10Ac8g18550' => 'bvu', 'Eucgr.B03849' => 'egr', 'Eucgr.I02744' => 'egr', 'Eucgr.J00264' => 'egr', 'Eucgr.J00493' => 'egr', 'FAN04G2181' => 'fan', 'FAN07G2666' => 'fan', 'FAN11G0024' => 'fan', 'FAN12G1105' => 'fan', 'FAN13G0302' => 'fan', 'FAN15G2781' => 'fan', 'FAN16G1274' => 'fan', 'FAN17G2988' => 'fan', 'FAN18G2621' => 'fan', 'FAN21G0013' => 'fan', 'FAN22G1211' => 'fan', 'FAN25G3626' => 'fan', 'FvH4_2g09491' => 'fve', 'FvH4_3g24910' => 'fve', 'FvH4_4g15630' => 'fve', 'FvH4_5g28820' => 'fve', 'Glyma.01G238000' => 'gma', 'Glyma.05G168400' => 'gma', 'Glyma.08G126800' => 'gma', 'Glyma.08G188500' => 'gma', 'Glyma.10G278900' => 'gma', 'Glyma.11G005700' => 'gma', 'Glyma.11G183300' => 'gma', 'Glyma.12G089200' => 'gma', 'Glyma.12G169400' => 'gma', 'Glyma.12G169500' => 'gma', 'Glyma.12G169600' => 'gma', 'Glyma.20G110800' => 'gma', 'Gohir.A03G192900' => 'ghi', 'Gohir.A03G193000' => 'ghi', 'Gohir.A05G080700' => 'ghi', 'Gohir.A09G216000' => 'ghi', 'Gohir.A12G027700' => 'ghi', 'Gohir.A13G036200' => 'ghi', 'Gohir.A13G222600' => 'ghi', 'Gohir.D02G213900' => 'ghi', 'Gohir.D02G214000' => 'ghi', 'Gohir.D05G083700' => 'ghi', 'Gohir.D05G083800' => 'ghi', 'Gohir.D05G083850' => 'ghi', 'Gohir.D08G015400' => 'ghi', 'Gohir.D09G218400' => 'ghi', 'Gohir.D12G027100' => 'ghi', 'Gohir.D13G034500' => 'ghi', 'Gohir.D13G227400' => 'ghi', 'Gorai.005G241800' => 'gra', 'Gorai.005G241900' => 'gra', 'Gorai.006G239400' => 'gra', 'Gorai.008G027600' => 'gra', 'Gorai.009G085400' => 'gra', 'Gorai.009G085500' => 'gra', 'Gorai.013G039000' => 'gra', 'Gorai.013G194800' => 'gra', 'Gorai.013G257900' => 'gra', 'GSVIVG01000982001' => 'vvi', 'GSVIVG01017981001' => 'vvi', 'HanXRQChr01g0024061' => 'han', 'HanXRQChr09g0247831' => 'han', 'HanXRQChr10g0294611' => 'han', 'HanXRQChr10g0294621' => 'han', 'HanXRQChr11g0346821' => 'han', 'HanXRQChr13g0397461' => 'han', 'HanXRQChr16g0513651' => 'han', 'HanXRQChr16g0513701' => 'han', 'Haze_00897' => 'cav', 'Haze_01745' => 'cav', 'Haze_02486' => 'cav', 'Haze_02487' => 'cav', 'Haze_23374' => 'cav', 'Hma1.2p1_0578F.1_g182520' => 'hma', 'Hma1.2p1_0602F.1_g187350' => 'hma', 'Hma1.2p1_0602F.1_g187360' => 'hma', 'Hma1.2p1_0874F.1_g231320' => 'hma', 'Hma1.2p1_1197F.1_g266210' => 'hma', 'Hma1.2p1_1197F.1_g266220' => 'hma', 'Hma1.2p1_2167F.1_g315895' => 'hma', 'Hma1.2p1_2190F.1_g316640' => 'hma', 'Hma1.2p1_3645F.1_g337153' => 'hma', 'HPP92_004907' => 'vpl', 'HPP92_012134' => 'vpl', 'HPP92_025136' => 'vpl', 'HPP92_026087' => 'vpl', 'Hund06782' => 'sun', 'Hund06784' => 'sun', 'Lalb_Chr01g0004861' => 'lal', 'Lalb_Chr02g0140591' => 'lal', 'Lalb_Chr02g0140611' => 'lal', 'Lalb_Chr03g0028101' => 'lal', 'Lalb_Chr07g0185791' => 'lal', 'Lalb_Chr12g0204491' => 'lal', 'Lalb_Chr13g0295671' => 'lal', 'Lalb_Chr19g0136461' => 'lal', 'Lalb_Chr21g0309191' => 'lal', 'Lj1g0028158' => 'lja', 'Lj1P236T38' => 'lonja', 'Lj2C32G2' => 'lonja', 'Lj2P944T8' => 'lonja', 'Lj2P963T15' => 'lonja', 'Lj3g0011788' => 'lja', 'Lj4g0025027' => 'lja', 'Lj5P255T36' => 'lonja', 'Lj6g0018866' => 'lja', 'Lj6P608T31' => 'lonja', 'LjContig00408g0008879' => 'lja', 'Lsat_1_v5_gn_5_105820' => 'lsa', 'Lsat_1_v5_gn_6_38800' => 'lsa', 'Lsat_1_v5_gn_7_67141' => 'lsa', 'Manes.04G003400' => 'mes', 'Manes.07G020000' => 'mes', 'Manes.07G020100' => 'mes', 'Manes.07G020150' => 'mes', 'Manes.10G061500' => 'mes', 'Manes.10G123200' => 'mes', 'Manes.11G161900' => 'mes', 'Manes.15G029300' => 'mes', 'Mapoly0071s0018' => 'mpo', 'Mapoly0082s0023' => 'mpo', 'Mapoly3477s0001' => 'mpo', 'MBI05_g31233_MAGBIO' => 'mbi', 'MBI09_g05946_MAGBIO' => 'mbi', 'MBI09_g05947_MAGBIO' => 'mbi', 'MBI17_g08346_MAGBIO' => 'mbi', 'MCO04G038' => 'mco', 'MCO09G370' => 'mco', 'MCO13G605' => 'mco', 'MD00G1075500' => 'mdo', 'MD03G1144300' => 'mdo', 'MD08G1236800' => 'mdo', 'MD13G1193300' => 'mdo', 'MD15G1428700' => 'mdo', 'Medtr1g112030' => 'mtr', 'Medtr1g112050' => 'mtr', 'Medtr2g006290' => 'mtr', 'Medtr2g086510' => 'mtr', 'Medtr4g053120' => 'mtr', 'Medtr5g006320' => 'mtr', 'Medtr8g088720' => 'mtr', 'MELO3C004712.2' => 'cme', 'MELO3C006533.2' => 'cme', 'MELO3C019438.2' => 'cme', 'MELO3C019440.2' => 'cme', 'MELO3C019441.2' => 'cme', 'MELO3C019895.2' => 'cme', 'Migut.B00811' => 'egut', 'Migut.D02447' => 'egut', 'Migut.F00875' => 'egut', 'Migut.N00186' => 'egut', 'Migut.N01051' => 'egut', 'Migut.N02491' => 'egut', 'Migut.O00784' => 'egut', 'MSTRG.12367' => 'ama', 'MSTRG.18756' => 'ama', 'MSTRG.21042' => 'ama', 'Nitab4.5_0000559g0040' => 'nta', 'Nitab4.5_0000667g0190' => 'nta', 'Nitab4.5_0000755g0160' => 'nta', 'Nitab4.5_0001216g0080' => 'nta', 'Nitab4.5_0004069g0040' => 'nta', 'Nitab4.5_0004129g0010' => 'nta', 'Nitab4.5_0005744g0030' => 'nta', 'Nitab4.5_0006996g0030' => 'nta', 'Nitab4.5_0008971g0040' => 'nta', 'Nitab4.5_0009769g0020' => 'nta', 'Nitab4.5_0009833g0010' => 'nta', 'Nitab4.5_0013140g0020' => 'nta', 'Nn003s41376' => 'nnu', 'Nn1g01857' => 'nnu', 'Nn1g03611' => 'nnu', 'Nn1g06853' => 'nnu', 'Nn3g18360' => 'nnu', 'Nn4g26328' => 'nnu', 'Nn5g27531' => 'nnu', 'Nn6g34899' => 'nnu', 'Nn7g36299' => 'nnu', 'Oeu021485.1' => 'oeu', 'Oeu022433.1' => 'oeu', 'Oeu032111.1' => 'oeu', 'Oeu051608.1' => 'oeu', 'Os01g0860601' => 'osa', 'Os03g0659200' => 'osa', 'Os03g0835900' => 'osa', 'Os04g0412200' => 'osa', 'Os05g0443500' => 'osa', 'Os07g0251500' => 'osa', 'Os08g0104600' => 'osa', 'Peaxi162Scf00003g00047' => 'pax', 'Peaxi162Scf00003g00052' => 'pax', 'Peaxi162Scf00003g00394' => 'pax', 'Peaxi162Scf00091g00621' => 'pax', 'Peaxi162Scf00152g00146' => 'pax', 'Peaxi162Scf00173g00025' => 'pax', 'Peaxi162Scf00195g00102' => 'pax', 'Peaxi162Scf00402g00013' => 'pax', 'Peaxi162Scf00519g00618' => 'pax', 'PGR004G2838' => 'pgr', 'PGR044G2275' => 'pgr', 'PGR102G1377' => 'pgr', 'PGR119G1245' => 'pgr', 'PGR142G4449' => 'pgr', 'PGSC0003DMG400004532' => 'stu', 'PGSC0003DMG400011950' => 'stu', 'PGSC0003DMG400023391' => 'stu', 'PGSC0003DMG400023985' => 'stu', 'PGSC0003DMG400026360' => 'stu', 'PGSC0003DMG400035711' => 'stu', 'PGSC0003DMG400037286' => 'stu', 'PGSC0003DMG402005881' => 'stu', 'Phvul.002G045400' => 'pvu', 'Phvul.006G216600' => 'pvu', 'Phvul.006G216700' => 'pvu', 'Phvul.006G216800' => 'pvu', 'Phvul.007G022500' => 'pvu', 'Phvul.011G094400' => 'pvu', 'Potri.001G470700' => 'ptr', 'Potri.003G015200' => 'ptr', 'Potri.004G202500' => 'ptr', 'Potri.004G218400' => 'ptr', 'Potri.008G020100' => 'ptr', 'Potri.008G153200' => 'ptr', 'Potri.009G163800' => 'ptr', 'Potri.010G087300' => 'ptr', 'Potri.010G239100' => 'ptr', 'Pp3c10_16100' => 'ppa', 'Pp3c10_16880' => 'ppa', 'Pp3c16_6230' => 'ppa', 'Pp3c17_18910' => 'ppa', 'Pp3c3_22119' => 'ppa', 'Pp3c3_22140' => 'ppa', 'Pp3c4_8159' => 'ppa', 'Pp3c4_8171' => 'ppa', 'Pp3c4_8330' => 'ppa', 'PRCOL_00004098' => 'pco', 'Prupe.1G013900' => 'ppe', 'Prupe.1G226300' => 'ppe', 'Prupe.1G573600' => 'ppe', 'Prupe.6G130100' => 'ppe', 'Psat3g090040' => 'psa', 'Psat4g210440' => 'psa', 'Psat6g231040' => 'psa', 'Psat6g231080' => 'psa', 'Psat7g063000' => 'psa', 'Psat7g188000' => 'psa', 'Psat7g188040' => 'psa', 'PSO017G0206' => 'pso', 'PSO170G0501' => 'pso', 'PSO170G6422' => 'pso', 'PSO210G7739' => 'pso', 'PSO339G1808' => 'pso', 'PSO339G6135' => 'pso', 'PSO384G0010' => 'pso', 'PSO384G0964' => 'pso', 'PSO761G0050' => 'pso', 'PSO782G4085' => 'pso', 'QL01p012264' => 'qlo', 'QL02p099491' => 'qlo', 'QL03p033868' => 'qlo', 'QL04p046678' => 'qlo', 'QL06p002448' => 'qlo', 'RcHm_v2.0_Chr4g0416181' => 'rch', 'RcHm_v2.0_Chr5g0044701' => 'rch', 'RcHm_v2.0_Chr6g0265781' => 'rch', 'RcHm_v2.0_Chr7g0221031' => 'rch', 'Rhsim04G0202000' => 'rsi', 'Rhsim11G0127300' => 'rsi', 'Rhsim13G0111800' => 'rsi', 'Sabra01G0165600' => 'sbr', 'Sabra03G0008300' => 'sbr', 'Sabra04G0136900' => 'sbr', 'Sabra08G0013400' => 'sbr', 'Sabra08G0116800' => 'sbr', 'Sabra09G0128000' => 'sbr', 'Sabra10G0055500' => 'sbr', 'Sabra10G0073300' => 'sbr', 'SalBow3G0385' => 'sbo', 'SalBow3G1119' => 'sbo', 'SalBow3G2005' => 'sbo', 'SalBow6G2563' => 'sbo', 'SalBow6G6386' => 'sbo', 'Sc06g0008800' => 'sci', 'Sc07g0004950' => 'sci', 'Sc09g0005340' => 'sci', 'Sc13g0004410' => 'sci', 'Sc21g0007090' => 'sci', 'Sed0009285' => 'sed', 'Sed0017583' => 'sed', 'Sed0019699' => 'sed', 'Sed0023107' => 'sed', 'SEGI_10916' => 'sgi', 'SEGI_16217' => 'sgi', 'SEGI_19466' => 'sgi', 'SEGI_41115' => 'sgi', 'SGA_v2.0_scaffold111G31534' => 'sas', 'SGA_v2.0_scaffold22G09864' => 'sas', 'SGA_v2.0_scaffold338G49219' => 'sas', 'SGA_v2.0_scaffold92G28298' => 'sas', 'SMO119G0064' => 'smo', 'SMO223G0038' => 'smo', 'SMO347G0584' => 'smo', 'SMO351G0010' => 'smo', 'SMO356G0404' => 'smo', 'Solyc01g103920.3' => 'sly', 'Solyc04g009710.2' => 'sly', 'Solyc05g055280.2' => 'sly', 'Solyc10g044520.3' => 'sly', 'Solyc10g075160.1' => 'sly', 'Solyc11g006910.3' => 'sly', 'Solyc11g068430.3' => 'sly', 'Sopen01g046310' => 'spe', 'Sopen03g001200' => 'spe', 'Sopen04g004830' => 'spe', 'Sopen05g033720' => 'spe', 'Sopen06g030740' => 'spe', 'Sopen10g013090' => 'spe', 'Sopen10g027630' => 'spe', 'Sopen10g027640' => 'spe', 'Sopen11g002820' => 'spe', 'Sopen11g027140' => 'spe', 'Sp1g09680' => 'spa', 'Sp2g03630' => 'spa', 'Sp4g10320' => 'spa', 'Sp6g33400' => 'spa', 'Sp7g13030' => 'spa', 'TAR365G0317' => 'tar', 'TAR376G0979' => 'tar', 'TAR623G1665' => 'tar', 'TAR633G2373' => 'tar', 'TAR636G1400' => 'tar', 'THA.LOC104800529' => 'tha', 'THA.LOC104808547' => 'tha', 'THA.LOC104809615' => 'tha', 'THA.LOC104815724' => 'tha', 'THA.LOC104818480' => 'tha', 'THA.LOC104819179' => 'tha', 'THA.LOC104822270' => 'tha', 'THA.LOC104826425' => 'tha', 'Thecc.02G089700' => 'tca', 'Thecc.04G232300' => 'tca', 'Thecc.09G283400' => 'tca', 'Thhalv10009020m.g' => 'esa', 'Thhalv10015506m.g' => 'esa', 'Thhalv10017364m.g' => 'esa', 'Thhalv10023742m.g' => 'esa', 'Thhalv10026483m.g' => 'esa', 'TPR.G17232' => 'tpr', 'TPR.G2133' => 'tpr', 'TPR.G2498' => 'tpr', 'TPR.G31942' => 'tpr', 'TPR.G37877' => 'tpr', 'TPR.G4571' => 'tpr', 'TWI14G1113' => 'twi', 'TWI15G0426' => 'twi', 'TWI31G1005' => 'twi', 'TWI38G0513' => 'twi', 'TWI38G1484' => 'twi', 'TWI73G1098' => 'twi', 'unitig_26.g10519' => 'ugi', 'unitig_736.g22395' => 'ugi', 'unitig_747.g21234' => 'ugi', 'unitig_747.g21942' => 'ugi', 'vmacro14351' => 'vma', 'VMungo0540G0082' => 'vmu', 'VMungo0540G0405' => 'vmu', 'VMungo0540G1486' => 'vmu', 'VMungo0540G1692' => 'vmu', 'VMungo0720G2473' => 'vmu', 'VMungo1127G1562' => 'vmu', 'VMungo1215G1918' => 'vmu', 'Zm00001eb052650' => 'zma', 'Zm00001eb063710' => 'zma', 'Zm00001eb083950' => 'zma', 'Zm00001eb174420' => 'zma', 'Zm00001eb260140' => 'zma', 'Zm00001eb260150' => 'zma', 'Zm00001eb260160' => 'zma', 'Zm00001eb348290' => 'zma', 'Zm00001eb366870' => 'zma', 'Zm00001eb421930' => 'zma' ) $gf_id = 'HOM05D001025' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001025' ) $data_identifier = 'HOM05D001025' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 19, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 2, 'amhyb' => (int) 4, 'aly' => (int) 4, 'aox' => (int) 4, 'arhy' => (int) 3, 'ath' => (int) 5, 'atr' => (int) 4, 'acertr' => (int) 3, 'cqu' => (int) 7, 'bca' => (int) 17, 'bol' => (int) 10, 'bra' => (int) 9, 'can' => (int) 10, 'cansat' => (int) 6, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 5, 'cbr' => (int) 5, 'ccan' => (int) 5, 'cde' => (int) 4, 'cfa' => (int) 3, 'ccl' => (int) 6, 'cil' => (int) 4, 'cla' => (int) 3, 'col' => (int) 3, 'cpa' => (int) 3, 'cre' => (int) 7, 'csa' => (int) 5, 'camsi' => (int) 9, 'dca' => (int) 4, 'din' => (int) 5, 'dzi' => (int) 7, 'eca' => (int) 6, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 12, 'fve' => (int) 4, 'gma' => (int) 12, 'ghi' => (int) 17, 'gra' => (int) 9, 'vvi' => (int) 2, 'han' => (int) 8, 'cav' => (int) 5, 'hma' => (int) 9, 'vpl' => (int) 4, 'sun' => (int) 2, 'lal' => (int) 9, 'lja' => (int) 5, 'lonja' => (int) 6, 'lsa' => (int) 3, 'mes' => (int) 8, 'mpo' => (int) 3, 'mbi' => (int) 4, 'mco' => (int) 3, 'mdo' => (int) 5, 'mtr' => (int) 7, 'cme' => (int) 6, 'egut' => (int) 7, 'ama' => (int) 3, 'nta' => (int) 12, 'nnu' => (int) 9, 'oeu' => (int) 4, 'osa' => (int) 7, 'pax' => (int) 9, 'pgr' => (int) 5, 'stu' => (int) 8, 'pvu' => (int) 6, 'ptr' => (int) 9, 'ppa' => (int) 9, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 7, 'pso' => (int) 10, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 3, 'sbr' => (int) 8, 'sbo' => (int) 5, 'sci' => (int) 5, 'sed' => (int) 4, 'sgi' => (int) 4, 'sas' => (int) 4, 'smo' => (int) 5, 'sly' => (int) 7, 'spe' => (int) 10, 'spa' => (int) 5, 'tar' => (int) 5, 'tha' => (int) 8, 'tca' => (int) 3, 'esa' => (int) 5, 'tpr' => (int) 6, 'twi' => (int) 6, 'ugi' => (int) 4, 'vma' => (int) 1, 'vmu' => (int) 7, 'zma' => (int) 10 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb421930' $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' => 'HOM05D001025', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '592', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p22650' => 'bna', 'A01p29720' => 'bna', 'A03p26560' => 'bna', 'A03p68820' => 'bna', 'A04p20980' => 'bna', 'A06p07730' => 'bna', 'A07p18260' => 'bna', 'A08p33710' => 'bna', 'A09p16970' => 'bna', 'A10p27490' => 'bna', 'Aa31LG1G17300' => 'aar', 'Aa31LG1G3910' => 'aar', 'Aa31LG2G9630' => 'aar', 'Aa31LG5G8360' => 'aar', 'Aa31LG9G2410' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4699' => 'aag', 'Actinidia23512' => 'ach', 'Actinidia37080' => 'ach', 'Ah.01g020380' => 'amhyb', 'Ah.08g215710' => 'amhyb', 'Ah.09g225110' => 'amhyb', 'Ah.10g036680' => 'amhyb', 'AL1G21940' => 'aly', 'AL2G15540' => 'aly', 'AL4G21520' => 'aly', 'AL7G40960' => 'aly', 'Aqoxy2G01191' => 'aox', 'Aqoxy2G03393' => 'aox', 'Aqoxy4G02775' => 'aox', 'Aqoxy6G00058' => 'aox', 'arahy.Tifrunner.gnm1.ann1.9X74H2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CW3FX9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R485W7' => 'arhy', 'AT1G10960' => 'ath', 'AT1G60950' => 'ath', 'AT2G27510' => 'ath', 'AT4G14890' => 'ath', 'AT5G10000' => 'ath', 'ATR0665G624' => 'atr', 'ATR0697G138' => 'atr', 'ATR0776G046' => 'atr', 'ATR1134G135' => 'atr', 'Atru.chr12.1025' => 'acertr', 'Atru.chr3.3241' => 'acertr', 'Atru.chr4.2460' => 'acertr', 'AUR62007427' => 'cqu', 'AUR62010960' => 'cqu', 'AUR62012201' => 'cqu', 'AUR62021470' => 'cqu', 'AUR62022834' => 'cqu', 'AUR62033635' => 'cqu', 'AUR62036186' => 'cqu', 'BcaB01g03077' => 'bca', 'BcaB02g10093' => 'bca', 'BcaB04g20295' => 'bca', 'BcaB06g28147' => 'bca', 'BcaB07g31253' => 'bca', 'BcaC01g04946' => 'bca', 'BcaC02g10614' => 'bca', 'BcaC02g10885' => 'bca', 'BcaC04g19356' => 'bca', 'BcaC04g22297' => 'bca', 'BcaC05g24977' => 'bca', 'BcaC06g31823' => 'bca', 'BcaC07g38633' => 'bca', 'BcaC09g49353' => 'bca', 'BcaC09g50168' => 'bca', 'BcaNung00322' => 'bca', 'BcaNung04769' => 'bca', 'BolC1t02753H' => 'bol', 'BolC1t03721H' => 'bol', 'BolC3t15525H' => 'bol', 'BolC4t23903H' => 'bol', 'BolC4t24231H' => 'bol', 'BolC4t27209H' => 'bol', 'BolC5t29671H' => 'bol', 'BolC8t49044H' => 'bol', 'BolC9t54999H' => 'bol', 'BolC9t59517H' => 'bol', 'BraA01t02178Z' => 'bra', 'BraA01t03099Z' => 'bra', 'BraA03t11867Z' => 'bra', 'BraA04t17667Z' => 'bra', 'BraA07t29542Z' => 'bra', 'BraA08t35287Z' => 'bra', 'BraA09t37334Z' => 'bra', 'BraA10t44801Z' => 'bra', 'BraSC39t46181Z' => 'bra', 'C01p28240' => 'bna', 'C01p37530' => 'bna', 'C03p31820' => 'bna', 'C04p24080' => 'bna', 'C04p25790' => 'bna', 'C04p56770' => 'bna', 'C05p09310' => 'bna', 'C09p21010' => 'bna', 'C09p67560' => 'bna', 'CAN.G1324.7' => 'can', 'CAN.G1358.10' => 'can', 'CAN.G1550.2' => 'can', 'CAN.G186.56' => 'can', 'CAN.G1965.1' => 'can', 'CAN.G645.15' => 'can', 'CAN.G798.26' => 'can', 'CAN.G798.27' => 'can', 'CAN.G798.29' => 'can', 'CAN.G919.31' => 'can', 'CANSAT11G0133' => 'cansat', 'CANSAT11G1171' => 'cansat', 'CANSAT11G2056' => 'cansat', 'CANSAT56G1202' => 'cansat', 'CANSAT56G1514' => 'cansat', 'CANSAT78G0455' => 'cansat', 'CARHR011190' => 'chi', 'CARHR051980' => 'chi', 'CARHR120170' => 'chi', 'CARHR203310' => 'chi', 'CARHR221490' => 'chi', 'Carub.0001s1054' => 'cru', 'Carub.0002s0431' => 'cru', 'Carub.0004s0818' => 'cru', 'Carub.0006s0846' => 'cru', 'Carub.0007s2722' => 'cru', 'Ca_00058_v3' => 'car', 'Ca_17831_v3' => 'car', 'Ca_19408_v3' => 'car', 'Ca_24397_v3' => 'car', 'Ca_25664_v3' => 'car', 'CBR_g21818' => 'cbr', 'CBR_g31195' => 'cbr', 'CBR_g32282' => 'cbr', 'CBR_g39599' => 'cbr', 'CBR_g49410' => 'cbr', 'Cc01_g09120' => 'ccan', 'Cc01_g09130' => 'ccan', 'Cc02_g09630' => 'ccan', 'Cc02_g22810' => 'ccan', 'Cc03_g03810' => 'ccan', 'CDE02G3718' => 'cde', 'CDE04G3183' => 'cde', 'CDE07G1046' => 'cde', 'CDE08G0480' => 'cde', 'Cfa005493' => 'cfa', 'Cfa010312' => 'cfa', 'Cfa015648' => 'cfa', 'Ciclev10002793m.g' => 'ccl', 'Ciclev10003356m.g' => 'ccl', 'Ciclev10006141m.g' => 'ccl', 'Ciclev10016676m.g' => 'ccl', 'Ciclev10017081m.g' => 'ccl', 'Ciclev10029499m.g' => 'ccl', 'CiPaw.01G166300' => 'cil', 'CiPaw.06G145600' => 'cil', 'CiPaw.13G040100' => 'cil', 'CiPaw.13G135800' => 'cil', 'ClCG01G012230' => 'cla', 'ClCG05G009510' => 'cla', 'ClCG08G008270' => 'cla', 'COL.COLO4_11763' => 'col', 'COL.COLO4_19876' => 'col', 'COL.COLO4_21481' => 'col', 'Cpa.g.sc118.34' => 'cpa', 'Cpa.g.sc32.13' => 'cpa', 'Cpa.g.sc58.103' => 'cpa', 'Cre03.g183850' => 'cre', 'Cre06.g306350' => 'cre', 'Cre07.g334800' => 'cre', 'Cre12.g487900' => 'cre', 'Cre14.g626700' => 'cre', 'Cre16.g658400' => 'cre', 'Cre17.g700950' => 'cre', 'CsaV3_1G014830' => 'csa', 'CsaV3_3G013320' => 'csa', 'CsaV3_3G019210' => 'csa', 'CsaV3_3G019220' => 'csa', 'CsaV3_6G004230' => 'csa', 'CSS0003773' => 'camsi', 'CSS0004563' => 'camsi', 'CSS0013949' => 'camsi', 'CSS0025971' => 'camsi', 'CSS0028570' => 'camsi', 'CSS0033127' => 'camsi', 'CSS0036051' => 'camsi', 'CSS0040087' => 'camsi', 'CSS0043179' => 'camsi', 'DCAR_006161' => 'dca', 'DCAR_010351' => 'dca', 'DCAR_012197' => 'dca', 'DCAR_024162' => 'dca', 'Dinv01030' => 'din', 'Dinv10924' => 'din', 'Dinv11835' => 'din', 'Dinv22841' => 'din', 'Dinv42553' => 'din', 'Duzib052G0560' => 'dzi', 'Duzib132G0389' => 'dzi', 'Duzib150G1181' => 'dzi', 'Duzib168G0623' => 'dzi', 'Duzib170G1036' => 'dzi', 'Duzib212G0200' => 'dzi', 'Duzib248G0194' => 'dzi', 'ECA232G2193' => 'eca', 'ECA233G0302' => 'eca', 'ECA234G2813' => 'eca', 'ECA234G4866' => 'eca', 'ECA240G3932' => 'eca', 'ECA248G0385' => 'eca', 'EL10Ac2g04781' => 'bvu', 'EL10Ac3g06445' => 'bvu', 'EL10Ac7g15825' => 'bvu', 'EL10Ac8g18550' => 'bvu', 'Eucgr.B03849' => 'egr', 'Eucgr.I02744' => 'egr', 'Eucgr.J00264' => 'egr', 'Eucgr.J00493' => 'egr', 'FAN04G2181' => 'fan', 'FAN07G2666' => 'fan', 'FAN11G0024' => 'fan', 'FAN12G1105' => 'fan', 'FAN13G0302' => 'fan', 'FAN15G2781' => 'fan', 'FAN16G1274' => 'fan', 'FAN17G2988' => 'fan', 'FAN18G2621' => 'fan', 'FAN21G0013' => 'fan', 'FAN22G1211' => 'fan', 'FAN25G3626' => 'fan', 'FvH4_2g09491' => 'fve', 'FvH4_3g24910' => 'fve', 'FvH4_4g15630' => 'fve', 'FvH4_5g28820' => 'fve', 'Glyma.01G238000' => 'gma', 'Glyma.05G168400' => 'gma', 'Glyma.08G126800' => 'gma', 'Glyma.08G188500' => 'gma', 'Glyma.10G278900' => 'gma', 'Glyma.11G005700' => 'gma', 'Glyma.11G183300' => 'gma', 'Glyma.12G089200' => 'gma', 'Glyma.12G169400' => 'gma', 'Glyma.12G169500' => 'gma', 'Glyma.12G169600' => 'gma', 'Glyma.20G110800' => 'gma', 'Gohir.A03G192900' => 'ghi', 'Gohir.A03G193000' => 'ghi', 'Gohir.A05G080700' => 'ghi', 'Gohir.A09G216000' => 'ghi', 'Gohir.A12G027700' => 'ghi', 'Gohir.A13G036200' => 'ghi', 'Gohir.A13G222600' => 'ghi', 'Gohir.D02G213900' => 'ghi', 'Gohir.D02G214000' => 'ghi', 'Gohir.D05G083700' => 'ghi', 'Gohir.D05G083800' => 'ghi', 'Gohir.D05G083850' => 'ghi', 'Gohir.D08G015400' => 'ghi', 'Gohir.D09G218400' => 'ghi', 'Gohir.D12G027100' => 'ghi', 'Gohir.D13G034500' => 'ghi', 'Gohir.D13G227400' => 'ghi', 'Gorai.005G241800' => 'gra', 'Gorai.005G241900' => 'gra', 'Gorai.006G239400' => 'gra', 'Gorai.008G027600' => 'gra', 'Gorai.009G085400' => 'gra', 'Gorai.009G085500' => 'gra', 'Gorai.013G039000' => 'gra', 'Gorai.013G194800' => 'gra', 'Gorai.013G257900' => 'gra', 'GSVIVG01000982001' => 'vvi', 'GSVIVG01017981001' => 'vvi', 'HanXRQChr01g0024061' => 'han', 'HanXRQChr09g0247831' => 'han', 'HanXRQChr10g0294611' => 'han', 'HanXRQChr10g0294621' => 'han', 'HanXRQChr11g0346821' => 'han', 'HanXRQChr13g0397461' => 'han', 'HanXRQChr16g0513651' => 'han', 'HanXRQChr16g0513701' => 'han', 'Haze_00897' => 'cav', 'Haze_01745' => 'cav', 'Haze_02486' => 'cav', 'Haze_02487' => 'cav', 'Haze_23374' => 'cav', 'Hma1.2p1_0578F.1_g182520' => 'hma', 'Hma1.2p1_0602F.1_g187350' => 'hma', 'Hma1.2p1_0602F.1_g187360' => 'hma', 'Hma1.2p1_0874F.1_g231320' => 'hma', 'Hma1.2p1_1197F.1_g266210' => 'hma', 'Hma1.2p1_1197F.1_g266220' => 'hma', 'Hma1.2p1_2167F.1_g315895' => 'hma', 'Hma1.2p1_2190F.1_g316640' => 'hma', 'Hma1.2p1_3645F.1_g337153' => 'hma', 'HPP92_004907' => 'vpl', 'HPP92_012134' => 'vpl', 'HPP92_025136' => 'vpl', 'HPP92_026087' => 'vpl', 'Hund06782' => 'sun', 'Hund06784' => 'sun', 'Lalb_Chr01g0004861' => 'lal', 'Lalb_Chr02g0140591' => 'lal', 'Lalb_Chr02g0140611' => 'lal', 'Lalb_Chr03g0028101' => 'lal', 'Lalb_Chr07g0185791' => 'lal', 'Lalb_Chr12g0204491' => 'lal', 'Lalb_Chr13g0295671' => 'lal', 'Lalb_Chr19g0136461' => 'lal', 'Lalb_Chr21g0309191' => 'lal', 'Lj1g0028158' => 'lja', 'Lj1P236T38' => 'lonja', 'Lj2C32G2' => 'lonja', 'Lj2P944T8' => 'lonja', 'Lj2P963T15' => 'lonja', 'Lj3g0011788' => 'lja', 'Lj4g0025027' => 'lja', 'Lj5P255T36' => 'lonja', 'Lj6g0018866' => 'lja', 'Lj6P608T31' => 'lonja', 'LjContig00408g0008879' => 'lja', 'Lsat_1_v5_gn_5_105820' => 'lsa', 'Lsat_1_v5_gn_6_38800' => 'lsa', 'Lsat_1_v5_gn_7_67141' => 'lsa', 'Manes.04G003400' => 'mes', 'Manes.07G020000' => 'mes', 'Manes.07G020100' => 'mes', 'Manes.07G020150' => 'mes', 'Manes.10G061500' => 'mes', 'Manes.10G123200' => 'mes', 'Manes.11G161900' => 'mes', 'Manes.15G029300' => 'mes', 'Mapoly0071s0018' => 'mpo', 'Mapoly0082s0023' => 'mpo', 'Mapoly3477s0001' => 'mpo', 'MBI05_g31233_MAGBIO' => 'mbi', 'MBI09_g05946_MAGBIO' => 'mbi', 'MBI09_g05947_MAGBIO' => 'mbi', 'MBI17_g08346_MAGBIO' => 'mbi', 'MCO04G038' => 'mco', 'MCO09G370' => 'mco', 'MCO13G605' => 'mco', 'MD00G1075500' => 'mdo', 'MD03G1144300' => 'mdo', 'MD08G1236800' => 'mdo', 'MD13G1193300' => 'mdo', 'MD15G1428700' => 'mdo', 'Medtr1g112030' => 'mtr', 'Medtr1g112050' => 'mtr', 'Medtr2g006290' => 'mtr', 'Medtr2g086510' => 'mtr', 'Medtr4g053120' => 'mtr', 'Medtr5g006320' => 'mtr', 'Medtr8g088720' => 'mtr', 'MELO3C004712.2' => 'cme', 'MELO3C006533.2' => 'cme', 'MELO3C019438.2' => 'cme', 'MELO3C019440.2' => 'cme', 'MELO3C019441.2' => 'cme', 'MELO3C019895.2' => 'cme', 'Migut.B00811' => 'egut', 'Migut.D02447' => 'egut', 'Migut.F00875' => 'egut', 'Migut.N00186' => 'egut', 'Migut.N01051' => 'egut', 'Migut.N02491' => 'egut', 'Migut.O00784' => 'egut', 'MSTRG.12367' => 'ama', 'MSTRG.18756' => 'ama', 'MSTRG.21042' => 'ama', 'Nitab4.5_0000559g0040' => 'nta', 'Nitab4.5_0000667g0190' => 'nta', 'Nitab4.5_0000755g0160' => 'nta', 'Nitab4.5_0001216g0080' => 'nta', 'Nitab4.5_0004069g0040' => 'nta', 'Nitab4.5_0004129g0010' => 'nta', 'Nitab4.5_0005744g0030' => 'nta', 'Nitab4.5_0006996g0030' => 'nta', 'Nitab4.5_0008971g0040' => 'nta', 'Nitab4.5_0009769g0020' => 'nta', 'Nitab4.5_0009833g0010' => 'nta', 'Nitab4.5_0013140g0020' => 'nta', 'Nn003s41376' => 'nnu', 'Nn1g01857' => 'nnu', 'Nn1g03611' => 'nnu', 'Nn1g06853' => 'nnu', 'Nn3g18360' => 'nnu', 'Nn4g26328' => 'nnu', 'Nn5g27531' => 'nnu', 'Nn6g34899' => 'nnu', 'Nn7g36299' => 'nnu', 'Oeu021485.1' => 'oeu', 'Oeu022433.1' => 'oeu', 'Oeu032111.1' => 'oeu', 'Oeu051608.1' => 'oeu', 'Os01g0860601' => 'osa', 'Os03g0659200' => 'osa', 'Os03g0835900' => 'osa', 'Os04g0412200' => 'osa', 'Os05g0443500' => 'osa', 'Os07g0251500' => 'osa', 'Os08g0104600' => 'osa', 'Peaxi162Scf00003g00047' => 'pax', 'Peaxi162Scf00003g00052' => 'pax', 'Peaxi162Scf00003g00394' => 'pax', 'Peaxi162Scf00091g00621' => 'pax', 'Peaxi162Scf00152g00146' => 'pax', 'Peaxi162Scf00173g00025' => 'pax', 'Peaxi162Scf00195g00102' => 'pax', 'Peaxi162Scf00402g00013' => 'pax', 'Peaxi162Scf00519g00618' => 'pax', 'PGR004G2838' => 'pgr', 'PGR044G2275' => 'pgr', 'PGR102G1377' => 'pgr', 'PGR119G1245' => 'pgr', 'PGR142G4449' => 'pgr', 'PGSC0003DMG400004532' => 'stu', 'PGSC0003DMG400011950' => 'stu', 'PGSC0003DMG400023391' => 'stu', 'PGSC0003DMG400023985' => 'stu', 'PGSC0003DMG400026360' => 'stu', 'PGSC0003DMG400035711' => 'stu', 'PGSC0003DMG400037286' => 'stu', 'PGSC0003DMG402005881' => 'stu', 'Phvul.002G045400' => 'pvu', 'Phvul.006G216600' => 'pvu', 'Phvul.006G216700' => 'pvu', 'Phvul.006G216800' => 'pvu', 'Phvul.007G022500' => 'pvu', 'Phvul.011G094400' => 'pvu', 'Potri.001G470700' => 'ptr', 'Potri.003G015200' => 'ptr', 'Potri.004G202500' => 'ptr', 'Potri.004G218400' => 'ptr', 'Potri.008G020100' => 'ptr', 'Potri.008G153200' => 'ptr', 'Potri.009G163800' => 'ptr', 'Potri.010G087300' => 'ptr', 'Potri.010G239100' => 'ptr', 'Pp3c10_16100' => 'ppa', 'Pp3c10_16880' => 'ppa', 'Pp3c16_6230' => 'ppa', 'Pp3c17_18910' => 'ppa', 'Pp3c3_22119' => 'ppa', 'Pp3c3_22140' => 'ppa', 'Pp3c4_8159' => 'ppa', 'Pp3c4_8171' => 'ppa', 'Pp3c4_8330' => 'ppa', 'PRCOL_00004098' => 'pco', 'Prupe.1G013900' => 'ppe', 'Prupe.1G226300' => 'ppe', 'Prupe.1G573600' => 'ppe', 'Prupe.6G130100' => 'ppe', 'Psat3g090040' => 'psa', 'Psat4g210440' => 'psa', 'Psat6g231040' => 'psa', 'Psat6g231080' => 'psa', 'Psat7g063000' => 'psa', 'Psat7g188000' => 'psa', 'Psat7g188040' => 'psa', 'PSO017G0206' => 'pso', 'PSO170G0501' => 'pso', 'PSO170G6422' => 'pso', 'PSO210G7739' => 'pso', 'PSO339G1808' => 'pso', 'PSO339G6135' => 'pso', 'PSO384G0010' => 'pso', 'PSO384G0964' => 'pso', 'PSO761G0050' => 'pso', 'PSO782G4085' => 'pso', 'QL01p012264' => 'qlo', 'QL02p099491' => 'qlo', 'QL03p033868' => 'qlo', 'QL04p046678' => 'qlo', 'QL06p002448' => 'qlo', 'RcHm_v2.0_Chr4g0416181' => 'rch', 'RcHm_v2.0_Chr5g0044701' => 'rch', 'RcHm_v2.0_Chr6g0265781' => 'rch', 'RcHm_v2.0_Chr7g0221031' => 'rch', 'Rhsim04G0202000' => 'rsi', 'Rhsim11G0127300' => 'rsi', 'Rhsim13G0111800' => 'rsi', 'Sabra01G0165600' => 'sbr', 'Sabra03G0008300' => 'sbr', 'Sabra04G0136900' => 'sbr', 'Sabra08G0013400' => 'sbr', 'Sabra08G0116800' => 'sbr', 'Sabra09G0128000' => 'sbr', 'Sabra10G0055500' => 'sbr', 'Sabra10G0073300' => 'sbr', 'SalBow3G0385' => 'sbo', 'SalBow3G1119' => 'sbo', 'SalBow3G2005' => 'sbo', 'SalBow6G2563' => 'sbo', 'SalBow6G6386' => 'sbo', 'Sc06g0008800' => 'sci', 'Sc07g0004950' => 'sci', 'Sc09g0005340' => 'sci', 'Sc13g0004410' => 'sci', 'Sc21g0007090' => 'sci', 'Sed0009285' => 'sed', 'Sed0017583' => 'sed', 'Sed0019699' => 'sed', 'Sed0023107' => 'sed', 'SEGI_10916' => 'sgi', 'SEGI_16217' => 'sgi', 'SEGI_19466' => 'sgi', 'SEGI_41115' => 'sgi', 'SGA_v2.0_scaffold111G31534' => 'sas', 'SGA_v2.0_scaffold22G09864' => 'sas', 'SGA_v2.0_scaffold338G49219' => 'sas', 'SGA_v2.0_scaffold92G28298' => 'sas', 'SMO119G0064' => 'smo', 'SMO223G0038' => 'smo', 'SMO347G0584' => 'smo', 'SMO351G0010' => 'smo', 'SMO356G0404' => 'smo', 'Solyc01g103920.3' => 'sly', 'Solyc04g009710.2' => 'sly', 'Solyc05g055280.2' => 'sly', 'Solyc10g044520.3' => 'sly', 'Solyc10g075160.1' => 'sly', 'Solyc11g006910.3' => 'sly', 'Solyc11g068430.3' => 'sly', 'Sopen01g046310' => 'spe', 'Sopen03g001200' => 'spe', 'Sopen04g004830' => 'spe', 'Sopen05g033720' => 'spe', 'Sopen06g030740' => 'spe', 'Sopen10g013090' => 'spe', 'Sopen10g027630' => 'spe', 'Sopen10g027640' => 'spe', 'Sopen11g002820' => 'spe', 'Sopen11g027140' => 'spe', 'Sp1g09680' => 'spa', 'Sp2g03630' => 'spa', 'Sp4g10320' => 'spa', 'Sp6g33400' => 'spa', 'Sp7g13030' => 'spa', 'TAR365G0317' => 'tar', 'TAR376G0979' => 'tar', 'TAR623G1665' => 'tar', 'TAR633G2373' => 'tar', 'TAR636G1400' => 'tar', 'THA.LOC104800529' => 'tha', 'THA.LOC104808547' => 'tha', 'THA.LOC104809615' => 'tha', 'THA.LOC104815724' => 'tha', 'THA.LOC104818480' => 'tha', 'THA.LOC104819179' => 'tha', 'THA.LOC104822270' => 'tha', 'THA.LOC104826425' => 'tha', 'Thecc.02G089700' => 'tca', 'Thecc.04G232300' => 'tca', 'Thecc.09G283400' => 'tca', 'Thhalv10009020m.g' => 'esa', 'Thhalv10015506m.g' => 'esa', 'Thhalv10017364m.g' => 'esa', 'Thhalv10023742m.g' => 'esa', 'Thhalv10026483m.g' => 'esa', 'TPR.G17232' => 'tpr', 'TPR.G2133' => 'tpr', 'TPR.G2498' => 'tpr', 'TPR.G31942' => 'tpr', 'TPR.G37877' => 'tpr', 'TPR.G4571' => 'tpr', 'TWI14G1113' => 'twi', 'TWI15G0426' => 'twi', 'TWI31G1005' => 'twi', 'TWI38G0513' => 'twi', 'TWI38G1484' => 'twi', 'TWI73G1098' => 'twi', 'unitig_26.g10519' => 'ugi', 'unitig_736.g22395' => 'ugi', 'unitig_747.g21234' => 'ugi', 'unitig_747.g21942' => 'ugi', 'vmacro14351' => 'vma', 'VMungo0540G0082' => 'vmu', 'VMungo0540G0405' => 'vmu', 'VMungo0540G1486' => 'vmu', 'VMungo0540G1692' => 'vmu', 'VMungo0720G2473' => 'vmu', 'VMungo1127G1562' => 'vmu', 'VMungo1215G1918' => 'vmu', 'Zm00001eb052650' => 'zma', 'Zm00001eb063710' => 'zma', 'Zm00001eb083950' => 'zma', 'Zm00001eb174420' => 'zma', 'Zm00001eb260140' => 'zma', 'Zm00001eb260150' => 'zma', 'Zm00001eb260160' => 'zma', 'Zm00001eb348290' => 'zma', 'Zm00001eb366870' => 'zma', 'Zm00001eb421930' => 'zma' ), 'gf_id' => 'HOM05D001025', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001025' ), 'data_identifier' => 'HOM05D001025', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001025', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '592', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p22650' => 'bna', 'A01p29720' => 'bna', 'A03p26560' => 'bna', 'A03p68820' => 'bna', 'A04p20980' => 'bna', 'A06p07730' => 'bna', 'A07p18260' => 'bna', 'A08p33710' => 'bna', 'A09p16970' => 'bna', 'A10p27490' => 'bna', 'Aa31LG1G17300' => 'aar', 'Aa31LG1G3910' => 'aar', 'Aa31LG2G9630' => 'aar', 'Aa31LG5G8360' => 'aar', 'Aa31LG9G2410' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4699' => 'aag', 'Actinidia23512' => 'ach', 'Actinidia37080' => 'ach', 'Ah.01g020380' => 'amhyb', 'Ah.08g215710' => 'amhyb', 'Ah.09g225110' => 'amhyb', 'Ah.10g036680' => 'amhyb', 'AL1G21940' => 'aly', 'AL2G15540' => 'aly', 'AL4G21520' => 'aly', 'AL7G40960' => 'aly', 'Aqoxy2G01191' => 'aox', 'Aqoxy2G03393' => 'aox', 'Aqoxy4G02775' => 'aox', 'Aqoxy6G00058' => 'aox', 'arahy.Tifrunner.gnm1.ann1.9X74H2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CW3FX9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R485W7' => 'arhy', 'AT1G10960' => 'ath', 'AT1G60950' => 'ath', 'AT2G27510' => 'ath', 'AT4G14890' => 'ath', 'AT5G10000' => 'ath', 'ATR0665G624' => 'atr', 'ATR0697G138' => 'atr', 'ATR0776G046' => 'atr', 'ATR1134G135' => 'atr', 'Atru.chr12.1025' => 'acertr', 'Atru.chr3.3241' => 'acertr', 'Atru.chr4.2460' => 'acertr', 'AUR62007427' => 'cqu', 'AUR62010960' => 'cqu', 'AUR62012201' => 'cqu', 'AUR62021470' => 'cqu', 'AUR62022834' => 'cqu', 'AUR62033635' => 'cqu', 'AUR62036186' => 'cqu', 'BcaB01g03077' => 'bca', 'BcaB02g10093' => 'bca', 'BcaB04g20295' => 'bca', 'BcaB06g28147' => 'bca', 'BcaB07g31253' => 'bca', 'BcaC01g04946' => 'bca', 'BcaC02g10614' => 'bca', 'BcaC02g10885' => 'bca', 'BcaC04g19356' => 'bca', 'BcaC04g22297' => 'bca', 'BcaC05g24977' => 'bca', 'BcaC06g31823' => 'bca', 'BcaC07g38633' => 'bca', 'BcaC09g49353' => 'bca', 'BcaC09g50168' => 'bca', 'BcaNung00322' => 'bca', 'BcaNung04769' => 'bca', 'BolC1t02753H' => 'bol', 'BolC1t03721H' => 'bol', 'BolC3t15525H' => 'bol', 'BolC4t23903H' => 'bol', 'BolC4t24231H' => 'bol', 'BolC4t27209H' => 'bol', 'BolC5t29671H' => 'bol', 'BolC8t49044H' => 'bol', 'BolC9t54999H' => 'bol', 'BolC9t59517H' => 'bol', 'BraA01t02178Z' => 'bra', 'BraA01t03099Z' => 'bra', 'BraA03t11867Z' => 'bra', 'BraA04t17667Z' => 'bra', 'BraA07t29542Z' => 'bra', 'BraA08t35287Z' => 'bra', 'BraA09t37334Z' => 'bra', 'BraA10t44801Z' => 'bra', 'BraSC39t46181Z' => 'bra', 'C01p28240' => 'bna', 'C01p37530' => 'bna', 'C03p31820' => 'bna', 'C04p24080' => 'bna', 'C04p25790' => 'bna', 'C04p56770' => 'bna', 'C05p09310' => 'bna', 'C09p21010' => 'bna', 'C09p67560' => 'bna', 'CAN.G1324.7' => 'can', 'CAN.G1358.10' => 'can', 'CAN.G1550.2' => 'can', 'CAN.G186.56' => 'can', 'CAN.G1965.1' => 'can', 'CAN.G645.15' => 'can', 'CAN.G798.26' => 'can', 'CAN.G798.27' => 'can', 'CAN.G798.29' => 'can', 'CAN.G919.31' => 'can', 'CANSAT11G0133' => 'cansat', 'CANSAT11G1171' => 'cansat', 'CANSAT11G2056' => 'cansat', 'CANSAT56G1202' => 'cansat', 'CANSAT56G1514' => 'cansat', 'CANSAT78G0455' => 'cansat', 'CARHR011190' => 'chi', 'CARHR051980' => 'chi', 'CARHR120170' => 'chi', 'CARHR203310' => 'chi', 'CARHR221490' => 'chi', 'Carub.0001s1054' => 'cru', 'Carub.0002s0431' => 'cru', 'Carub.0004s0818' => 'cru', 'Carub.0006s0846' => 'cru', 'Carub.0007s2722' => 'cru', 'Ca_00058_v3' => 'car', 'Ca_17831_v3' => 'car', 'Ca_19408_v3' => 'car', 'Ca_24397_v3' => 'car', 'Ca_25664_v3' => 'car', 'CBR_g21818' => 'cbr', 'CBR_g31195' => 'cbr', 'CBR_g32282' => 'cbr', 'CBR_g39599' => 'cbr', 'CBR_g49410' => 'cbr', 'Cc01_g09120' => 'ccan', 'Cc01_g09130' => 'ccan', 'Cc02_g09630' => 'ccan', 'Cc02_g22810' => 'ccan', 'Cc03_g03810' => 'ccan', 'CDE02G3718' => 'cde', 'CDE04G3183' => 'cde', 'CDE07G1046' => 'cde', 'CDE08G0480' => 'cde', 'Cfa005493' => 'cfa', 'Cfa010312' => 'cfa', 'Cfa015648' => 'cfa', 'Ciclev10002793m.g' => 'ccl', 'Ciclev10003356m.g' => 'ccl', 'Ciclev10006141m.g' => 'ccl', 'Ciclev10016676m.g' => 'ccl', 'Ciclev10017081m.g' => 'ccl', 'Ciclev10029499m.g' => 'ccl', 'CiPaw.01G166300' => 'cil', 'CiPaw.06G145600' => 'cil', 'CiPaw.13G040100' => 'cil', 'CiPaw.13G135800' => 'cil', 'ClCG01G012230' => 'cla', 'ClCG05G009510' => 'cla', 'ClCG08G008270' => 'cla', 'COL.COLO4_11763' => 'col', 'COL.COLO4_19876' => 'col', 'COL.COLO4_21481' => 'col', 'Cpa.g.sc118.34' => 'cpa', 'Cpa.g.sc32.13' => 'cpa', 'Cpa.g.sc58.103' => 'cpa', 'Cre03.g183850' => 'cre', 'Cre06.g306350' => 'cre', 'Cre07.g334800' => 'cre', 'Cre12.g487900' => 'cre', 'Cre14.g626700' => 'cre', 'Cre16.g658400' => 'cre', 'Cre17.g700950' => 'cre', 'CsaV3_1G014830' => 'csa', 'CsaV3_3G013320' => 'csa', 'CsaV3_3G019210' => 'csa', 'CsaV3_3G019220' => 'csa', 'CsaV3_6G004230' => 'csa', 'CSS0003773' => 'camsi', 'CSS0004563' => 'camsi', 'CSS0013949' => 'camsi', 'CSS0025971' => 'camsi', 'CSS0028570' => 'camsi', 'CSS0033127' => 'camsi', 'CSS0036051' => 'camsi', 'CSS0040087' => 'camsi', 'CSS0043179' => 'camsi', 'DCAR_006161' => 'dca', 'DCAR_010351' => 'dca', 'DCAR_012197' => 'dca', 'DCAR_024162' => 'dca', 'Dinv01030' => 'din', 'Dinv10924' => 'din', 'Dinv11835' => 'din', 'Dinv22841' => 'din', 'Dinv42553' => 'din', 'Duzib052G0560' => 'dzi', 'Duzib132G0389' => 'dzi', 'Duzib150G1181' => 'dzi', 'Duzib168G0623' => 'dzi', 'Duzib170G1036' => 'dzi', 'Duzib212G0200' => 'dzi', 'Duzib248G0194' => 'dzi', 'ECA232G2193' => 'eca', 'ECA233G0302' => 'eca', 'ECA234G2813' => 'eca', 'ECA234G4866' => 'eca', 'ECA240G3932' => 'eca', 'ECA248G0385' => 'eca', 'EL10Ac2g04781' => 'bvu', 'EL10Ac3g06445' => 'bvu', 'EL10Ac7g15825' => 'bvu', 'EL10Ac8g18550' => 'bvu', 'Eucgr.B03849' => 'egr', 'Eucgr.I02744' => 'egr', 'Eucgr.J00264' => 'egr', 'Eucgr.J00493' => 'egr', 'FAN04G2181' => 'fan', 'FAN07G2666' => 'fan', 'FAN11G0024' => 'fan', 'FAN12G1105' => 'fan', 'FAN13G0302' => 'fan', 'FAN15G2781' => 'fan', 'FAN16G1274' => 'fan', 'FAN17G2988' => 'fan', 'FAN18G2621' => 'fan', 'FAN21G0013' => 'fan', 'FAN22G1211' => 'fan', 'FAN25G3626' => 'fan', 'FvH4_2g09491' => 'fve', 'FvH4_3g24910' => 'fve', 'FvH4_4g15630' => 'fve', 'FvH4_5g28820' => 'fve', 'Glyma.01G238000' => 'gma', 'Glyma.05G168400' => 'gma', 'Glyma.08G126800' => 'gma', 'Glyma.08G188500' => 'gma', 'Glyma.10G278900' => 'gma', 'Glyma.11G005700' => 'gma', 'Glyma.11G183300' => 'gma', 'Glyma.12G089200' => 'gma', 'Glyma.12G169400' => 'gma', 'Glyma.12G169500' => 'gma', 'Glyma.12G169600' => 'gma', 'Glyma.20G110800' => 'gma', 'Gohir.A03G192900' => 'ghi', 'Gohir.A03G193000' => 'ghi', 'Gohir.A05G080700' => 'ghi', 'Gohir.A09G216000' => 'ghi', 'Gohir.A12G027700' => 'ghi', 'Gohir.A13G036200' => 'ghi', 'Gohir.A13G222600' => 'ghi', 'Gohir.D02G213900' => 'ghi', 'Gohir.D02G214000' => 'ghi', 'Gohir.D05G083700' => 'ghi', 'Gohir.D05G083800' => 'ghi', 'Gohir.D05G083850' => 'ghi', 'Gohir.D08G015400' => 'ghi', 'Gohir.D09G218400' => 'ghi', 'Gohir.D12G027100' => 'ghi', 'Gohir.D13G034500' => 'ghi', 'Gohir.D13G227400' => 'ghi', 'Gorai.005G241800' => 'gra', 'Gorai.005G241900' => 'gra', 'Gorai.006G239400' => 'gra', 'Gorai.008G027600' => 'gra', 'Gorai.009G085400' => 'gra', 'Gorai.009G085500' => 'gra', 'Gorai.013G039000' => 'gra', 'Gorai.013G194800' => 'gra', 'Gorai.013G257900' => 'gra', 'GSVIVG01000982001' => 'vvi', 'GSVIVG01017981001' => 'vvi', 'HanXRQChr01g0024061' => 'han', 'HanXRQChr09g0247831' => 'han', 'HanXRQChr10g0294611' => 'han', 'HanXRQChr10g0294621' => 'han', 'HanXRQChr11g0346821' => 'han', 'HanXRQChr13g0397461' => 'han', 'HanXRQChr16g0513651' => 'han', 'HanXRQChr16g0513701' => 'han', 'Haze_00897' => 'cav', 'Haze_01745' => 'cav', 'Haze_02486' => 'cav', 'Haze_02487' => 'cav', 'Haze_23374' => 'cav', 'Hma1.2p1_0578F.1_g182520' => 'hma', 'Hma1.2p1_0602F.1_g187350' => 'hma', 'Hma1.2p1_0602F.1_g187360' => 'hma', 'Hma1.2p1_0874F.1_g231320' => 'hma', 'Hma1.2p1_1197F.1_g266210' => 'hma', 'Hma1.2p1_1197F.1_g266220' => 'hma', 'Hma1.2p1_2167F.1_g315895' => 'hma', 'Hma1.2p1_2190F.1_g316640' => 'hma', 'Hma1.2p1_3645F.1_g337153' => 'hma', 'HPP92_004907' => 'vpl', 'HPP92_012134' => 'vpl', 'HPP92_025136' => 'vpl', 'HPP92_026087' => 'vpl', 'Hund06782' => 'sun', 'Hund06784' => 'sun', 'Lalb_Chr01g0004861' => 'lal', 'Lalb_Chr02g0140591' => 'lal', 'Lalb_Chr02g0140611' => 'lal', 'Lalb_Chr03g0028101' => 'lal', 'Lalb_Chr07g0185791' => 'lal', 'Lalb_Chr12g0204491' => 'lal', 'Lalb_Chr13g0295671' => 'lal', 'Lalb_Chr19g0136461' => 'lal', 'Lalb_Chr21g0309191' => 'lal', 'Lj1g0028158' => 'lja', 'Lj1P236T38' => 'lonja', 'Lj2C32G2' => 'lonja', 'Lj2P944T8' => 'lonja', 'Lj2P963T15' => 'lonja', 'Lj3g0011788' => 'lja', 'Lj4g0025027' => 'lja', 'Lj5P255T36' => 'lonja', 'Lj6g0018866' => 'lja', 'Lj6P608T31' => 'lonja', 'LjContig00408g0008879' => 'lja', 'Lsat_1_v5_gn_5_105820' => 'lsa', 'Lsat_1_v5_gn_6_38800' => 'lsa', 'Lsat_1_v5_gn_7_67141' => 'lsa', 'Manes.04G003400' => 'mes', 'Manes.07G020000' => 'mes', 'Manes.07G020100' => 'mes', 'Manes.07G020150' => 'mes', 'Manes.10G061500' => 'mes', 'Manes.10G123200' => 'mes', 'Manes.11G161900' => 'mes', 'Manes.15G029300' => 'mes', 'Mapoly0071s0018' => 'mpo', 'Mapoly0082s0023' => 'mpo', 'Mapoly3477s0001' => 'mpo', 'MBI05_g31233_MAGBIO' => 'mbi', 'MBI09_g05946_MAGBIO' => 'mbi', 'MBI09_g05947_MAGBIO' => 'mbi', 'MBI17_g08346_MAGBIO' => 'mbi', 'MCO04G038' => 'mco', 'MCO09G370' => 'mco', 'MCO13G605' => 'mco', 'MD00G1075500' => 'mdo', 'MD03G1144300' => 'mdo', 'MD08G1236800' => 'mdo', 'MD13G1193300' => 'mdo', 'MD15G1428700' => 'mdo', 'Medtr1g112030' => 'mtr', 'Medtr1g112050' => 'mtr', 'Medtr2g006290' => 'mtr', 'Medtr2g086510' => 'mtr', 'Medtr4g053120' => 'mtr', 'Medtr5g006320' => 'mtr', 'Medtr8g088720' => 'mtr', 'MELO3C004712.2' => 'cme', 'MELO3C006533.2' => 'cme', 'MELO3C019438.2' => 'cme', 'MELO3C019440.2' => 'cme', 'MELO3C019441.2' => 'cme', 'MELO3C019895.2' => 'cme', 'Migut.B00811' => 'egut', 'Migut.D02447' => 'egut', 'Migut.F00875' => 'egut', 'Migut.N00186' => 'egut', 'Migut.N01051' => 'egut', 'Migut.N02491' => 'egut', 'Migut.O00784' => 'egut', 'MSTRG.12367' => 'ama', 'MSTRG.18756' => 'ama', 'MSTRG.21042' => 'ama', 'Nitab4.5_0000559g0040' => 'nta', 'Nitab4.5_0000667g0190' => 'nta', 'Nitab4.5_0000755g0160' => 'nta', 'Nitab4.5_0001216g0080' => 'nta', 'Nitab4.5_0004069g0040' => 'nta', 'Nitab4.5_0004129g0010' => 'nta', 'Nitab4.5_0005744g0030' => 'nta', 'Nitab4.5_0006996g0030' => 'nta', 'Nitab4.5_0008971g0040' => 'nta', 'Nitab4.5_0009769g0020' => 'nta', 'Nitab4.5_0009833g0010' => 'nta', 'Nitab4.5_0013140g0020' => 'nta', 'Nn003s41376' => 'nnu', 'Nn1g01857' => 'nnu', 'Nn1g03611' => 'nnu', 'Nn1g06853' => 'nnu', 'Nn3g18360' => 'nnu', 'Nn4g26328' => 'nnu', 'Nn5g27531' => 'nnu', 'Nn6g34899' => 'nnu', 'Nn7g36299' => 'nnu', 'Oeu021485.1' => 'oeu', 'Oeu022433.1' => 'oeu', 'Oeu032111.1' => 'oeu', 'Oeu051608.1' => 'oeu', 'Os01g0860601' => 'osa', 'Os03g0659200' => 'osa', 'Os03g0835900' => 'osa', 'Os04g0412200' => 'osa', 'Os05g0443500' => 'osa', 'Os07g0251500' => 'osa', 'Os08g0104600' => 'osa', 'Peaxi162Scf00003g00047' => 'pax', 'Peaxi162Scf00003g00052' => 'pax', 'Peaxi162Scf00003g00394' => 'pax', 'Peaxi162Scf00091g00621' => 'pax', 'Peaxi162Scf00152g00146' => 'pax', 'Peaxi162Scf00173g00025' => 'pax', 'Peaxi162Scf00195g00102' => 'pax', 'Peaxi162Scf00402g00013' => 'pax', 'Peaxi162Scf00519g00618' => 'pax', 'PGR004G2838' => 'pgr', 'PGR044G2275' => 'pgr', 'PGR102G1377' => 'pgr', 'PGR119G1245' => 'pgr', 'PGR142G4449' => 'pgr', 'PGSC0003DMG400004532' => 'stu', 'PGSC0003DMG400011950' => 'stu', 'PGSC0003DMG400023391' => 'stu', 'PGSC0003DMG400023985' => 'stu', 'PGSC0003DMG400026360' => 'stu', 'PGSC0003DMG400035711' => 'stu', 'PGSC0003DMG400037286' => 'stu', 'PGSC0003DMG402005881' => 'stu', 'Phvul.002G045400' => 'pvu', 'Phvul.006G216600' => 'pvu', 'Phvul.006G216700' => 'pvu', 'Phvul.006G216800' => 'pvu', 'Phvul.007G022500' => 'pvu', 'Phvul.011G094400' => 'pvu', 'Potri.001G470700' => 'ptr', 'Potri.003G015200' => 'ptr', 'Potri.004G202500' => 'ptr', 'Potri.004G218400' => 'ptr', 'Potri.008G020100' => 'ptr', 'Potri.008G153200' => 'ptr', 'Potri.009G163800' => 'ptr', 'Potri.010G087300' => 'ptr', 'Potri.010G239100' => 'ptr', 'Pp3c10_16100' => 'ppa', 'Pp3c10_16880' => 'ppa', 'Pp3c16_6230' => 'ppa', 'Pp3c17_18910' => 'ppa', 'Pp3c3_22119' => 'ppa', 'Pp3c3_22140' => 'ppa', 'Pp3c4_8159' => 'ppa', 'Pp3c4_8171' => 'ppa', 'Pp3c4_8330' => 'ppa', 'PRCOL_00004098' => 'pco', 'Prupe.1G013900' => 'ppe', 'Prupe.1G226300' => 'ppe', 'Prupe.1G573600' => 'ppe', 'Prupe.6G130100' => 'ppe', 'Psat3g090040' => 'psa', 'Psat4g210440' => 'psa', 'Psat6g231040' => 'psa', 'Psat6g231080' => 'psa', 'Psat7g063000' => 'psa', 'Psat7g188000' => 'psa', 'Psat7g188040' => 'psa', 'PSO017G0206' => 'pso', 'PSO170G0501' => 'pso', 'PSO170G6422' => 'pso', 'PSO210G7739' => 'pso', 'PSO339G1808' => 'pso', 'PSO339G6135' => 'pso', 'PSO384G0010' => 'pso', 'PSO384G0964' => 'pso', 'PSO761G0050' => 'pso', 'PSO782G4085' => 'pso', 'QL01p012264' => 'qlo', 'QL02p099491' => 'qlo', 'QL03p033868' => 'qlo', 'QL04p046678' => 'qlo', 'QL06p002448' => 'qlo', 'RcHm_v2.0_Chr4g0416181' => 'rch', 'RcHm_v2.0_Chr5g0044701' => 'rch', 'RcHm_v2.0_Chr6g0265781' => 'rch', 'RcHm_v2.0_Chr7g0221031' => 'rch', 'Rhsim04G0202000' => 'rsi', 'Rhsim11G0127300' => 'rsi', 'Rhsim13G0111800' => 'rsi', 'Sabra01G0165600' => 'sbr', 'Sabra03G0008300' => 'sbr', 'Sabra04G0136900' => 'sbr', 'Sabra08G0013400' => 'sbr', 'Sabra08G0116800' => 'sbr', 'Sabra09G0128000' => 'sbr', 'Sabra10G0055500' => 'sbr', 'Sabra10G0073300' => 'sbr', 'SalBow3G0385' => 'sbo', 'SalBow3G1119' => 'sbo', 'SalBow3G2005' => 'sbo', 'SalBow6G2563' => 'sbo', 'SalBow6G6386' => 'sbo', 'Sc06g0008800' => 'sci', 'Sc07g0004950' => 'sci', 'Sc09g0005340' => 'sci', 'Sc13g0004410' => 'sci', 'Sc21g0007090' => 'sci', 'Sed0009285' => 'sed', 'Sed0017583' => 'sed', 'Sed0019699' => 'sed', 'Sed0023107' => 'sed', 'SEGI_10916' => 'sgi', 'SEGI_16217' => 'sgi', 'SEGI_19466' => 'sgi', 'SEGI_41115' => 'sgi', 'SGA_v2.0_scaffold111G31534' => 'sas', 'SGA_v2.0_scaffold22G09864' => 'sas', 'SGA_v2.0_scaffold338G49219' => 'sas', 'SGA_v2.0_scaffold92G28298' => 'sas', 'SMO119G0064' => 'smo', 'SMO223G0038' => 'smo', 'SMO347G0584' => 'smo', 'SMO351G0010' => 'smo', 'SMO356G0404' => 'smo', 'Solyc01g103920.3' => 'sly', 'Solyc04g009710.2' => 'sly', 'Solyc05g055280.2' => 'sly', 'Solyc10g044520.3' => 'sly', 'Solyc10g075160.1' => 'sly', 'Solyc11g006910.3' => 'sly', 'Solyc11g068430.3' => 'sly', 'Sopen01g046310' => 'spe', 'Sopen03g001200' => 'spe', 'Sopen04g004830' => 'spe', 'Sopen05g033720' => 'spe', 'Sopen06g030740' => 'spe', 'Sopen10g013090' => 'spe', 'Sopen10g027630' => 'spe', 'Sopen10g027640' => 'spe', 'Sopen11g002820' => 'spe', 'Sopen11g027140' => 'spe', 'Sp1g09680' => 'spa', 'Sp2g03630' => 'spa', 'Sp4g10320' => 'spa', 'Sp6g33400' => 'spa', 'Sp7g13030' => 'spa', 'TAR365G0317' => 'tar', 'TAR376G0979' => 'tar', 'TAR623G1665' => 'tar', 'TAR633G2373' => 'tar', 'TAR636G1400' => 'tar', 'THA.LOC104800529' => 'tha', 'THA.LOC104808547' => 'tha', 'THA.LOC104809615' => 'tha', 'THA.LOC104815724' => 'tha', 'THA.LOC104818480' => 'tha', 'THA.LOC104819179' => 'tha', 'THA.LOC104822270' => 'tha', 'THA.LOC104826425' => 'tha', 'Thecc.02G089700' => 'tca', 'Thecc.04G232300' => 'tca', 'Thecc.09G283400' => 'tca', 'Thhalv10009020m.g' => 'esa', 'Thhalv10015506m.g' => 'esa', 'Thhalv10017364m.g' => 'esa', 'Thhalv10023742m.g' => 'esa', 'Thhalv10026483m.g' => 'esa', 'TPR.G17232' => 'tpr', 'TPR.G2133' => 'tpr', 'TPR.G2498' => 'tpr', 'TPR.G31942' => 'tpr', 'TPR.G37877' => 'tpr', 'TPR.G4571' => 'tpr', 'TWI14G1113' => 'twi', 'TWI15G0426' => 'twi', 'TWI31G1005' => 'twi', 'TWI38G0513' => 'twi', 'TWI38G1484' => 'twi', 'TWI73G1098' => 'twi', 'unitig_26.g10519' => 'ugi', 'unitig_736.g22395' => 'ugi', 'unitig_747.g21234' => 'ugi', 'unitig_747.g21942' => 'ugi', 'vmacro14351' => 'vma', 'VMungo0540G0082' => 'vmu', 'VMungo0540G0405' => 'vmu', 'VMungo0540G1486' => 'vmu', 'VMungo0540G1692' => 'vmu', 'VMungo0720G2473' => 'vmu', 'VMungo1127G1562' => 'vmu', 'VMungo1215G1918' => 'vmu', 'Zm00001eb052650' => 'zma', 'Zm00001eb063710' => 'zma', 'Zm00001eb083950' => 'zma', 'Zm00001eb174420' => 'zma', 'Zm00001eb260140' => 'zma', 'Zm00001eb260150' => 'zma', 'Zm00001eb260160' => 'zma', 'Zm00001eb348290' => 'zma', 'Zm00001eb366870' => 'zma', 'Zm00001eb421930' => 'zma' ) $gf_id = 'HOM05D001025' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001025' ) $data_identifier = 'HOM05D001025' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 19, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 2, 'amhyb' => (int) 4, 'aly' => (int) 4, 'aox' => (int) 4, 'arhy' => (int) 3, 'ath' => (int) 5, 'atr' => (int) 4, 'acertr' => (int) 3, 'cqu' => (int) 7, 'bca' => (int) 17, 'bol' => (int) 10, 'bra' => (int) 9, 'can' => (int) 10, 'cansat' => (int) 6, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 5, 'cbr' => (int) 5, 'ccan' => (int) 5, 'cde' => (int) 4, 'cfa' => (int) 3, 'ccl' => (int) 6, 'cil' => (int) 4, 'cla' => (int) 3, 'col' => (int) 3, 'cpa' => (int) 3, 'cre' => (int) 7, 'csa' => (int) 5, 'camsi' => (int) 9, 'dca' => (int) 4, 'din' => (int) 5, 'dzi' => (int) 7, 'eca' => (int) 6, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 12, 'fve' => (int) 4, 'gma' => (int) 12, 'ghi' => (int) 17, 'gra' => (int) 9, 'vvi' => (int) 2, 'han' => (int) 8, 'cav' => (int) 5, 'hma' => (int) 9, 'vpl' => (int) 4, 'sun' => (int) 2, 'lal' => (int) 9, 'lja' => (int) 5, 'lonja' => (int) 6, 'lsa' => (int) 3, 'mes' => (int) 8, 'mpo' => (int) 3, 'mbi' => (int) 4, 'mco' => (int) 3, 'mdo' => (int) 5, 'mtr' => (int) 7, 'cme' => (int) 6, 'egut' => (int) 7, 'ama' => (int) 3, 'nta' => (int) 12, 'nnu' => (int) 9, 'oeu' => (int) 4, 'osa' => (int) 7, 'pax' => (int) 9, 'pgr' => (int) 5, 'stu' => (int) 8, 'pvu' => (int) 6, 'ptr' => (int) 9, 'ppa' => (int) 9, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 7, 'pso' => (int) 10, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 3, 'sbr' => (int) 8, 'sbo' => (int) 5, 'sci' => (int) 5, 'sed' => (int) 4, 'sgi' => (int) 4, 'sas' => (int) 4, 'smo' => (int) 5, 'sly' => (int) 7, 'spe' => (int) 10, 'spa' => (int) 5, 'tar' => (int) 5, 'tha' => (int) 8, 'tca' => (int) 3, 'esa' => (int) 5, 'tpr' => (int) 6, 'twi' => (int) 6, 'ugi' => (int) 4, 'vma' => (int) 1, 'vmu' => (int) 7, 'zma' => (int) 10 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb421930' $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' => 'HOM05D001025', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '592', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p22650' => 'bna', 'A01p29720' => 'bna', 'A03p26560' => 'bna', 'A03p68820' => 'bna', 'A04p20980' => 'bna', 'A06p07730' => 'bna', 'A07p18260' => 'bna', 'A08p33710' => 'bna', 'A09p16970' => 'bna', 'A10p27490' => 'bna', 'Aa31LG1G17300' => 'aar', 'Aa31LG1G3910' => 'aar', 'Aa31LG2G9630' => 'aar', 'Aa31LG5G8360' => 'aar', 'Aa31LG9G2410' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4699' => 'aag', 'Actinidia23512' => 'ach', 'Actinidia37080' => 'ach', 'Ah.01g020380' => 'amhyb', 'Ah.08g215710' => 'amhyb', 'Ah.09g225110' => 'amhyb', 'Ah.10g036680' => 'amhyb', 'AL1G21940' => 'aly', 'AL2G15540' => 'aly', 'AL4G21520' => 'aly', 'AL7G40960' => 'aly', 'Aqoxy2G01191' => 'aox', 'Aqoxy2G03393' => 'aox', 'Aqoxy4G02775' => 'aox', 'Aqoxy6G00058' => 'aox', 'arahy.Tifrunner.gnm1.ann1.9X74H2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CW3FX9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R485W7' => 'arhy', 'AT1G10960' => 'ath', 'AT1G60950' => 'ath', 'AT2G27510' => 'ath', 'AT4G14890' => 'ath', 'AT5G10000' => 'ath', 'ATR0665G624' => 'atr', 'ATR0697G138' => 'atr', 'ATR0776G046' => 'atr', 'ATR1134G135' => 'atr', 'Atru.chr12.1025' => 'acertr', 'Atru.chr3.3241' => 'acertr', 'Atru.chr4.2460' => 'acertr', 'AUR62007427' => 'cqu', 'AUR62010960' => 'cqu', 'AUR62012201' => 'cqu', 'AUR62021470' => 'cqu', 'AUR62022834' => 'cqu', 'AUR62033635' => 'cqu', 'AUR62036186' => 'cqu', 'BcaB01g03077' => 'bca', 'BcaB02g10093' => 'bca', 'BcaB04g20295' => 'bca', 'BcaB06g28147' => 'bca', 'BcaB07g31253' => 'bca', 'BcaC01g04946' => 'bca', 'BcaC02g10614' => 'bca', 'BcaC02g10885' => 'bca', 'BcaC04g19356' => 'bca', 'BcaC04g22297' => 'bca', 'BcaC05g24977' => 'bca', 'BcaC06g31823' => 'bca', 'BcaC07g38633' => 'bca', 'BcaC09g49353' => 'bca', 'BcaC09g50168' => 'bca', 'BcaNung00322' => 'bca', 'BcaNung04769' => 'bca', 'BolC1t02753H' => 'bol', 'BolC1t03721H' => 'bol', 'BolC3t15525H' => 'bol', 'BolC4t23903H' => 'bol', 'BolC4t24231H' => 'bol', 'BolC4t27209H' => 'bol', 'BolC5t29671H' => 'bol', 'BolC8t49044H' => 'bol', 'BolC9t54999H' => 'bol', 'BolC9t59517H' => 'bol', 'BraA01t02178Z' => 'bra', 'BraA01t03099Z' => 'bra', 'BraA03t11867Z' => 'bra', 'BraA04t17667Z' => 'bra', 'BraA07t29542Z' => 'bra', 'BraA08t35287Z' => 'bra', 'BraA09t37334Z' => 'bra', 'BraA10t44801Z' => 'bra', 'BraSC39t46181Z' => 'bra', 'C01p28240' => 'bna', 'C01p37530' => 'bna', 'C03p31820' => 'bna', 'C04p24080' => 'bna', 'C04p25790' => 'bna', 'C04p56770' => 'bna', 'C05p09310' => 'bna', 'C09p21010' => 'bna', 'C09p67560' => 'bna', 'CAN.G1324.7' => 'can', 'CAN.G1358.10' => 'can', 'CAN.G1550.2' => 'can', 'CAN.G186.56' => 'can', 'CAN.G1965.1' => 'can', 'CAN.G645.15' => 'can', 'CAN.G798.26' => 'can', 'CAN.G798.27' => 'can', 'CAN.G798.29' => 'can', 'CAN.G919.31' => 'can', 'CANSAT11G0133' => 'cansat', 'CANSAT11G1171' => 'cansat', 'CANSAT11G2056' => 'cansat', 'CANSAT56G1202' => 'cansat', 'CANSAT56G1514' => 'cansat', 'CANSAT78G0455' => 'cansat', 'CARHR011190' => 'chi', 'CARHR051980' => 'chi', 'CARHR120170' => 'chi', 'CARHR203310' => 'chi', 'CARHR221490' => 'chi', 'Carub.0001s1054' => 'cru', 'Carub.0002s0431' => 'cru', 'Carub.0004s0818' => 'cru', 'Carub.0006s0846' => 'cru', 'Carub.0007s2722' => 'cru', 'Ca_00058_v3' => 'car', 'Ca_17831_v3' => 'car', 'Ca_19408_v3' => 'car', 'Ca_24397_v3' => 'car', 'Ca_25664_v3' => 'car', 'CBR_g21818' => 'cbr', 'CBR_g31195' => 'cbr', 'CBR_g32282' => 'cbr', 'CBR_g39599' => 'cbr', 'CBR_g49410' => 'cbr', 'Cc01_g09120' => 'ccan', 'Cc01_g09130' => 'ccan', 'Cc02_g09630' => 'ccan', 'Cc02_g22810' => 'ccan', 'Cc03_g03810' => 'ccan', 'CDE02G3718' => 'cde', 'CDE04G3183' => 'cde', 'CDE07G1046' => 'cde', 'CDE08G0480' => 'cde', 'Cfa005493' => 'cfa', 'Cfa010312' => 'cfa', 'Cfa015648' => 'cfa', 'Ciclev10002793m.g' => 'ccl', 'Ciclev10003356m.g' => 'ccl', 'Ciclev10006141m.g' => 'ccl', 'Ciclev10016676m.g' => 'ccl', 'Ciclev10017081m.g' => 'ccl', 'Ciclev10029499m.g' => 'ccl', 'CiPaw.01G166300' => 'cil', 'CiPaw.06G145600' => 'cil', 'CiPaw.13G040100' => 'cil', 'CiPaw.13G135800' => 'cil', 'ClCG01G012230' => 'cla', 'ClCG05G009510' => 'cla', 'ClCG08G008270' => 'cla', 'COL.COLO4_11763' => 'col', 'COL.COLO4_19876' => 'col', 'COL.COLO4_21481' => 'col', 'Cpa.g.sc118.34' => 'cpa', 'Cpa.g.sc32.13' => 'cpa', 'Cpa.g.sc58.103' => 'cpa', 'Cre03.g183850' => 'cre', 'Cre06.g306350' => 'cre', 'Cre07.g334800' => 'cre', 'Cre12.g487900' => 'cre', 'Cre14.g626700' => 'cre', 'Cre16.g658400' => 'cre', 'Cre17.g700950' => 'cre', 'CsaV3_1G014830' => 'csa', 'CsaV3_3G013320' => 'csa', 'CsaV3_3G019210' => 'csa', 'CsaV3_3G019220' => 'csa', 'CsaV3_6G004230' => 'csa', 'CSS0003773' => 'camsi', 'CSS0004563' => 'camsi', 'CSS0013949' => 'camsi', 'CSS0025971' => 'camsi', 'CSS0028570' => 'camsi', 'CSS0033127' => 'camsi', 'CSS0036051' => 'camsi', 'CSS0040087' => 'camsi', 'CSS0043179' => 'camsi', 'DCAR_006161' => 'dca', 'DCAR_010351' => 'dca', 'DCAR_012197' => 'dca', 'DCAR_024162' => 'dca', 'Dinv01030' => 'din', 'Dinv10924' => 'din', 'Dinv11835' => 'din', 'Dinv22841' => 'din', 'Dinv42553' => 'din', 'Duzib052G0560' => 'dzi', 'Duzib132G0389' => 'dzi', 'Duzib150G1181' => 'dzi', 'Duzib168G0623' => 'dzi', 'Duzib170G1036' => 'dzi', 'Duzib212G0200' => 'dzi', 'Duzib248G0194' => 'dzi', 'ECA232G2193' => 'eca', 'ECA233G0302' => 'eca', 'ECA234G2813' => 'eca', 'ECA234G4866' => 'eca', 'ECA240G3932' => 'eca', 'ECA248G0385' => 'eca', 'EL10Ac2g04781' => 'bvu', 'EL10Ac3g06445' => 'bvu', 'EL10Ac7g15825' => 'bvu', 'EL10Ac8g18550' => 'bvu', 'Eucgr.B03849' => 'egr', 'Eucgr.I02744' => 'egr', 'Eucgr.J00264' => 'egr', 'Eucgr.J00493' => 'egr', 'FAN04G2181' => 'fan', 'FAN07G2666' => 'fan', 'FAN11G0024' => 'fan', 'FAN12G1105' => 'fan', 'FAN13G0302' => 'fan', 'FAN15G2781' => 'fan', 'FAN16G1274' => 'fan', 'FAN17G2988' => 'fan', 'FAN18G2621' => 'fan', 'FAN21G0013' => 'fan', 'FAN22G1211' => 'fan', 'FAN25G3626' => 'fan', 'FvH4_2g09491' => 'fve', 'FvH4_3g24910' => 'fve', 'FvH4_4g15630' => 'fve', 'FvH4_5g28820' => 'fve', 'Glyma.01G238000' => 'gma', 'Glyma.05G168400' => 'gma', 'Glyma.08G126800' => 'gma', 'Glyma.08G188500' => 'gma', 'Glyma.10G278900' => 'gma', 'Glyma.11G005700' => 'gma', 'Glyma.11G183300' => 'gma', 'Glyma.12G089200' => 'gma', 'Glyma.12G169400' => 'gma', 'Glyma.12G169500' => 'gma', 'Glyma.12G169600' => 'gma', 'Glyma.20G110800' => 'gma', 'Gohir.A03G192900' => 'ghi', 'Gohir.A03G193000' => 'ghi', 'Gohir.A05G080700' => 'ghi', 'Gohir.A09G216000' => 'ghi', 'Gohir.A12G027700' => 'ghi', 'Gohir.A13G036200' => 'ghi', 'Gohir.A13G222600' => 'ghi', 'Gohir.D02G213900' => 'ghi', 'Gohir.D02G214000' => 'ghi', 'Gohir.D05G083700' => 'ghi', 'Gohir.D05G083800' => 'ghi', 'Gohir.D05G083850' => 'ghi', 'Gohir.D08G015400' => 'ghi', 'Gohir.D09G218400' => 'ghi', 'Gohir.D12G027100' => 'ghi', 'Gohir.D13G034500' => 'ghi', 'Gohir.D13G227400' => 'ghi', 'Gorai.005G241800' => 'gra', 'Gorai.005G241900' => 'gra', 'Gorai.006G239400' => 'gra', 'Gorai.008G027600' => 'gra', 'Gorai.009G085400' => 'gra', 'Gorai.009G085500' => 'gra', 'Gorai.013G039000' => 'gra', 'Gorai.013G194800' => 'gra', 'Gorai.013G257900' => 'gra', 'GSVIVG01000982001' => 'vvi', 'GSVIVG01017981001' => 'vvi', 'HanXRQChr01g0024061' => 'han', 'HanXRQChr09g0247831' => 'han', 'HanXRQChr10g0294611' => 'han', 'HanXRQChr10g0294621' => 'han', 'HanXRQChr11g0346821' => 'han', 'HanXRQChr13g0397461' => 'han', 'HanXRQChr16g0513651' => 'han', 'HanXRQChr16g0513701' => 'han', 'Haze_00897' => 'cav', 'Haze_01745' => 'cav', 'Haze_02486' => 'cav', 'Haze_02487' => 'cav', 'Haze_23374' => 'cav', 'Hma1.2p1_0578F.1_g182520' => 'hma', 'Hma1.2p1_0602F.1_g187350' => 'hma', 'Hma1.2p1_0602F.1_g187360' => 'hma', 'Hma1.2p1_0874F.1_g231320' => 'hma', 'Hma1.2p1_1197F.1_g266210' => 'hma', 'Hma1.2p1_1197F.1_g266220' => 'hma', 'Hma1.2p1_2167F.1_g315895' => 'hma', 'Hma1.2p1_2190F.1_g316640' => 'hma', 'Hma1.2p1_3645F.1_g337153' => 'hma', 'HPP92_004907' => 'vpl', 'HPP92_012134' => 'vpl', 'HPP92_025136' => 'vpl', 'HPP92_026087' => 'vpl', 'Hund06782' => 'sun', 'Hund06784' => 'sun', 'Lalb_Chr01g0004861' => 'lal', 'Lalb_Chr02g0140591' => 'lal', 'Lalb_Chr02g0140611' => 'lal', 'Lalb_Chr03g0028101' => 'lal', 'Lalb_Chr07g0185791' => 'lal', 'Lalb_Chr12g0204491' => 'lal', 'Lalb_Chr13g0295671' => 'lal', 'Lalb_Chr19g0136461' => 'lal', 'Lalb_Chr21g0309191' => 'lal', 'Lj1g0028158' => 'lja', 'Lj1P236T38' => 'lonja', 'Lj2C32G2' => 'lonja', 'Lj2P944T8' => 'lonja', 'Lj2P963T15' => 'lonja', 'Lj3g0011788' => 'lja', 'Lj4g0025027' => 'lja', 'Lj5P255T36' => 'lonja', 'Lj6g0018866' => 'lja', 'Lj6P608T31' => 'lonja', 'LjContig00408g0008879' => 'lja', 'Lsat_1_v5_gn_5_105820' => 'lsa', 'Lsat_1_v5_gn_6_38800' => 'lsa', 'Lsat_1_v5_gn_7_67141' => 'lsa', 'Manes.04G003400' => 'mes', 'Manes.07G020000' => 'mes', 'Manes.07G020100' => 'mes', 'Manes.07G020150' => 'mes', 'Manes.10G061500' => 'mes', 'Manes.10G123200' => 'mes', 'Manes.11G161900' => 'mes', 'Manes.15G029300' => 'mes', 'Mapoly0071s0018' => 'mpo', 'Mapoly0082s0023' => 'mpo', 'Mapoly3477s0001' => 'mpo', 'MBI05_g31233_MAGBIO' => 'mbi', 'MBI09_g05946_MAGBIO' => 'mbi', 'MBI09_g05947_MAGBIO' => 'mbi', 'MBI17_g08346_MAGBIO' => 'mbi', 'MCO04G038' => 'mco', 'MCO09G370' => 'mco', 'MCO13G605' => 'mco', 'MD00G1075500' => 'mdo', 'MD03G1144300' => 'mdo', 'MD08G1236800' => 'mdo', 'MD13G1193300' => 'mdo', 'MD15G1428700' => 'mdo', 'Medtr1g112030' => 'mtr', 'Medtr1g112050' => 'mtr', 'Medtr2g006290' => 'mtr', 'Medtr2g086510' => 'mtr', 'Medtr4g053120' => 'mtr', 'Medtr5g006320' => 'mtr', 'Medtr8g088720' => 'mtr', 'MELO3C004712.2' => 'cme', 'MELO3C006533.2' => 'cme', 'MELO3C019438.2' => 'cme', 'MELO3C019440.2' => 'cme', 'MELO3C019441.2' => 'cme', 'MELO3C019895.2' => 'cme', 'Migut.B00811' => 'egut', 'Migut.D02447' => 'egut', 'Migut.F00875' => 'egut', 'Migut.N00186' => 'egut', 'Migut.N01051' => 'egut', 'Migut.N02491' => 'egut', 'Migut.O00784' => 'egut', 'MSTRG.12367' => 'ama', 'MSTRG.18756' => 'ama', 'MSTRG.21042' => 'ama', 'Nitab4.5_0000559g0040' => 'nta', 'Nitab4.5_0000667g0190' => 'nta', 'Nitab4.5_0000755g0160' => 'nta', 'Nitab4.5_0001216g0080' => 'nta', 'Nitab4.5_0004069g0040' => 'nta', 'Nitab4.5_0004129g0010' => 'nta', 'Nitab4.5_0005744g0030' => 'nta', 'Nitab4.5_0006996g0030' => 'nta', 'Nitab4.5_0008971g0040' => 'nta', 'Nitab4.5_0009769g0020' => 'nta', 'Nitab4.5_0009833g0010' => 'nta', 'Nitab4.5_0013140g0020' => 'nta', 'Nn003s41376' => 'nnu', 'Nn1g01857' => 'nnu', 'Nn1g03611' => 'nnu', 'Nn1g06853' => 'nnu', 'Nn3g18360' => 'nnu', 'Nn4g26328' => 'nnu', 'Nn5g27531' => 'nnu', 'Nn6g34899' => 'nnu', 'Nn7g36299' => 'nnu', 'Oeu021485.1' => 'oeu', 'Oeu022433.1' => 'oeu', 'Oeu032111.1' => 'oeu', 'Oeu051608.1' => 'oeu', 'Os01g0860601' => 'osa', 'Os03g0659200' => 'osa', 'Os03g0835900' => 'osa', 'Os04g0412200' => 'osa', 'Os05g0443500' => 'osa', 'Os07g0251500' => 'osa', 'Os08g0104600' => 'osa', 'Peaxi162Scf00003g00047' => 'pax', 'Peaxi162Scf00003g00052' => 'pax', 'Peaxi162Scf00003g00394' => 'pax', 'Peaxi162Scf00091g00621' => 'pax', 'Peaxi162Scf00152g00146' => 'pax', 'Peaxi162Scf00173g00025' => 'pax', 'Peaxi162Scf00195g00102' => 'pax', 'Peaxi162Scf00402g00013' => 'pax', 'Peaxi162Scf00519g00618' => 'pax', 'PGR004G2838' => 'pgr', 'PGR044G2275' => 'pgr', 'PGR102G1377' => 'pgr', 'PGR119G1245' => 'pgr', 'PGR142G4449' => 'pgr', 'PGSC0003DMG400004532' => 'stu', 'PGSC0003DMG400011950' => 'stu', 'PGSC0003DMG400023391' => 'stu', 'PGSC0003DMG400023985' => 'stu', 'PGSC0003DMG400026360' => 'stu', 'PGSC0003DMG400035711' => 'stu', 'PGSC0003DMG400037286' => 'stu', 'PGSC0003DMG402005881' => 'stu', 'Phvul.002G045400' => 'pvu', 'Phvul.006G216600' => 'pvu', 'Phvul.006G216700' => 'pvu', 'Phvul.006G216800' => 'pvu', 'Phvul.007G022500' => 'pvu', 'Phvul.011G094400' => 'pvu', 'Potri.001G470700' => 'ptr', 'Potri.003G015200' => 'ptr', 'Potri.004G202500' => 'ptr', 'Potri.004G218400' => 'ptr', 'Potri.008G020100' => 'ptr', 'Potri.008G153200' => 'ptr', 'Potri.009G163800' => 'ptr', 'Potri.010G087300' => 'ptr', 'Potri.010G239100' => 'ptr', 'Pp3c10_16100' => 'ppa', 'Pp3c10_16880' => 'ppa', 'Pp3c16_6230' => 'ppa', 'Pp3c17_18910' => 'ppa', 'Pp3c3_22119' => 'ppa', 'Pp3c3_22140' => 'ppa', 'Pp3c4_8159' => 'ppa', 'Pp3c4_8171' => 'ppa', 'Pp3c4_8330' => 'ppa', 'PRCOL_00004098' => 'pco', 'Prupe.1G013900' => 'ppe', 'Prupe.1G226300' => 'ppe', 'Prupe.1G573600' => 'ppe', 'Prupe.6G130100' => 'ppe', 'Psat3g090040' => 'psa', 'Psat4g210440' => 'psa', 'Psat6g231040' => 'psa', 'Psat6g231080' => 'psa', 'Psat7g063000' => 'psa', 'Psat7g188000' => 'psa', 'Psat7g188040' => 'psa', 'PSO017G0206' => 'pso', 'PSO170G0501' => 'pso', 'PSO170G6422' => 'pso', 'PSO210G7739' => 'pso', 'PSO339G1808' => 'pso', 'PSO339G6135' => 'pso', 'PSO384G0010' => 'pso', 'PSO384G0964' => 'pso', 'PSO761G0050' => 'pso', 'PSO782G4085' => 'pso', 'QL01p012264' => 'qlo', 'QL02p099491' => 'qlo', 'QL03p033868' => 'qlo', 'QL04p046678' => 'qlo', 'QL06p002448' => 'qlo', 'RcHm_v2.0_Chr4g0416181' => 'rch', 'RcHm_v2.0_Chr5g0044701' => 'rch', 'RcHm_v2.0_Chr6g0265781' => 'rch', 'RcHm_v2.0_Chr7g0221031' => 'rch', 'Rhsim04G0202000' => 'rsi', 'Rhsim11G0127300' => 'rsi', 'Rhsim13G0111800' => 'rsi', 'Sabra01G0165600' => 'sbr', 'Sabra03G0008300' => 'sbr', 'Sabra04G0136900' => 'sbr', 'Sabra08G0013400' => 'sbr', 'Sabra08G0116800' => 'sbr', 'Sabra09G0128000' => 'sbr', 'Sabra10G0055500' => 'sbr', 'Sabra10G0073300' => 'sbr', 'SalBow3G0385' => 'sbo', 'SalBow3G1119' => 'sbo', 'SalBow3G2005' => 'sbo', 'SalBow6G2563' => 'sbo', 'SalBow6G6386' => 'sbo', 'Sc06g0008800' => 'sci', 'Sc07g0004950' => 'sci', 'Sc09g0005340' => 'sci', 'Sc13g0004410' => 'sci', 'Sc21g0007090' => 'sci', 'Sed0009285' => 'sed', 'Sed0017583' => 'sed', 'Sed0019699' => 'sed', 'Sed0023107' => 'sed', 'SEGI_10916' => 'sgi', 'SEGI_16217' => 'sgi', 'SEGI_19466' => 'sgi', 'SEGI_41115' => 'sgi', 'SGA_v2.0_scaffold111G31534' => 'sas', 'SGA_v2.0_scaffold22G09864' => 'sas', 'SGA_v2.0_scaffold338G49219' => 'sas', 'SGA_v2.0_scaffold92G28298' => 'sas', 'SMO119G0064' => 'smo', 'SMO223G0038' => 'smo', 'SMO347G0584' => 'smo', 'SMO351G0010' => 'smo', 'SMO356G0404' => 'smo', 'Solyc01g103920.3' => 'sly', 'Solyc04g009710.2' => 'sly', 'Solyc05g055280.2' => 'sly', 'Solyc10g044520.3' => 'sly', 'Solyc10g075160.1' => 'sly', 'Solyc11g006910.3' => 'sly', 'Solyc11g068430.3' => 'sly', 'Sopen01g046310' => 'spe', 'Sopen03g001200' => 'spe', 'Sopen04g004830' => 'spe', 'Sopen05g033720' => 'spe', 'Sopen06g030740' => 'spe', 'Sopen10g013090' => 'spe', 'Sopen10g027630' => 'spe', 'Sopen10g027640' => 'spe', 'Sopen11g002820' => 'spe', 'Sopen11g027140' => 'spe', 'Sp1g09680' => 'spa', 'Sp2g03630' => 'spa', 'Sp4g10320' => 'spa', 'Sp6g33400' => 'spa', 'Sp7g13030' => 'spa', 'TAR365G0317' => 'tar', 'TAR376G0979' => 'tar', 'TAR623G1665' => 'tar', 'TAR633G2373' => 'tar', 'TAR636G1400' => 'tar', 'THA.LOC104800529' => 'tha', 'THA.LOC104808547' => 'tha', 'THA.LOC104809615' => 'tha', 'THA.LOC104815724' => 'tha', 'THA.LOC104818480' => 'tha', 'THA.LOC104819179' => 'tha', 'THA.LOC104822270' => 'tha', 'THA.LOC104826425' => 'tha', 'Thecc.02G089700' => 'tca', 'Thecc.04G232300' => 'tca', 'Thecc.09G283400' => 'tca', 'Thhalv10009020m.g' => 'esa', 'Thhalv10015506m.g' => 'esa', 'Thhalv10017364m.g' => 'esa', 'Thhalv10023742m.g' => 'esa', 'Thhalv10026483m.g' => 'esa', 'TPR.G17232' => 'tpr', 'TPR.G2133' => 'tpr', 'TPR.G2498' => 'tpr', 'TPR.G31942' => 'tpr', 'TPR.G37877' => 'tpr', 'TPR.G4571' => 'tpr', 'TWI14G1113' => 'twi', 'TWI15G0426' => 'twi', 'TWI31G1005' => 'twi', 'TWI38G0513' => 'twi', 'TWI38G1484' => 'twi', 'TWI73G1098' => 'twi', 'unitig_26.g10519' => 'ugi', 'unitig_736.g22395' => 'ugi', 'unitig_747.g21234' => 'ugi', 'unitig_747.g21942' => 'ugi', 'vmacro14351' => 'vma', 'VMungo0540G0082' => 'vmu', 'VMungo0540G0405' => 'vmu', 'VMungo0540G1486' => 'vmu', 'VMungo0540G1692' => 'vmu', 'VMungo0720G2473' => 'vmu', 'VMungo1127G1562' => 'vmu', 'VMungo1215G1918' => 'vmu', 'Zm00001eb052650' => 'zma', 'Zm00001eb063710' => 'zma', 'Zm00001eb083950' => 'zma', 'Zm00001eb174420' => 'zma', 'Zm00001eb260140' => 'zma', 'Zm00001eb260150' => 'zma', 'Zm00001eb260160' => 'zma', 'Zm00001eb348290' => 'zma', 'Zm00001eb366870' => 'zma', 'Zm00001eb421930' => 'zma' ), 'gf_id' => 'HOM05D001025', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001025' ), 'data_identifier' => 'HOM05D001025', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001025', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '592', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p22650' => 'bna', 'A01p29720' => 'bna', 'A03p26560' => 'bna', 'A03p68820' => 'bna', 'A04p20980' => 'bna', 'A06p07730' => 'bna', 'A07p18260' => 'bna', 'A08p33710' => 'bna', 'A09p16970' => 'bna', 'A10p27490' => 'bna', 'Aa31LG1G17300' => 'aar', 'Aa31LG1G3910' => 'aar', 'Aa31LG2G9630' => 'aar', 'Aa31LG5G8360' => 'aar', 'Aa31LG9G2410' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4699' => 'aag', 'Actinidia23512' => 'ach', 'Actinidia37080' => 'ach', 'Ah.01g020380' => 'amhyb', 'Ah.08g215710' => 'amhyb', 'Ah.09g225110' => 'amhyb', 'Ah.10g036680' => 'amhyb', 'AL1G21940' => 'aly', 'AL2G15540' => 'aly', 'AL4G21520' => 'aly', 'AL7G40960' => 'aly', 'Aqoxy2G01191' => 'aox', 'Aqoxy2G03393' => 'aox', 'Aqoxy4G02775' => 'aox', 'Aqoxy6G00058' => 'aox', 'arahy.Tifrunner.gnm1.ann1.9X74H2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CW3FX9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R485W7' => 'arhy', 'AT1G10960' => 'ath', 'AT1G60950' => 'ath', 'AT2G27510' => 'ath', 'AT4G14890' => 'ath', 'AT5G10000' => 'ath', 'ATR0665G624' => 'atr', 'ATR0697G138' => 'atr', 'ATR0776G046' => 'atr', 'ATR1134G135' => 'atr', 'Atru.chr12.1025' => 'acertr', 'Atru.chr3.3241' => 'acertr', 'Atru.chr4.2460' => 'acertr', 'AUR62007427' => 'cqu', 'AUR62010960' => 'cqu', 'AUR62012201' => 'cqu', 'AUR62021470' => 'cqu', 'AUR62022834' => 'cqu', 'AUR62033635' => 'cqu', 'AUR62036186' => 'cqu', 'BcaB01g03077' => 'bca', 'BcaB02g10093' => 'bca', 'BcaB04g20295' => 'bca', 'BcaB06g28147' => 'bca', 'BcaB07g31253' => 'bca', 'BcaC01g04946' => 'bca', 'BcaC02g10614' => 'bca', 'BcaC02g10885' => 'bca', 'BcaC04g19356' => 'bca', 'BcaC04g22297' => 'bca', 'BcaC05g24977' => 'bca', 'BcaC06g31823' => 'bca', 'BcaC07g38633' => 'bca', 'BcaC09g49353' => 'bca', 'BcaC09g50168' => 'bca', 'BcaNung00322' => 'bca', 'BcaNung04769' => 'bca', 'BolC1t02753H' => 'bol', 'BolC1t03721H' => 'bol', 'BolC3t15525H' => 'bol', 'BolC4t23903H' => 'bol', 'BolC4t24231H' => 'bol', 'BolC4t27209H' => 'bol', 'BolC5t29671H' => 'bol', 'BolC8t49044H' => 'bol', 'BolC9t54999H' => 'bol', 'BolC9t59517H' => 'bol', 'BraA01t02178Z' => 'bra', 'BraA01t03099Z' => 'bra', 'BraA03t11867Z' => 'bra', 'BraA04t17667Z' => 'bra', 'BraA07t29542Z' => 'bra', 'BraA08t35287Z' => 'bra', 'BraA09t37334Z' => 'bra', 'BraA10t44801Z' => 'bra', 'BraSC39t46181Z' => 'bra', 'C01p28240' => 'bna', 'C01p37530' => 'bna', 'C03p31820' => 'bna', 'C04p24080' => 'bna', 'C04p25790' => 'bna', 'C04p56770' => 'bna', 'C05p09310' => 'bna', 'C09p21010' => 'bna', 'C09p67560' => 'bna', 'CAN.G1324.7' => 'can', 'CAN.G1358.10' => 'can', 'CAN.G1550.2' => 'can', 'CAN.G186.56' => 'can', 'CAN.G1965.1' => 'can', 'CAN.G645.15' => 'can', 'CAN.G798.26' => 'can', 'CAN.G798.27' => 'can', 'CAN.G798.29' => 'can', 'CAN.G919.31' => 'can', 'CANSAT11G0133' => 'cansat', 'CANSAT11G1171' => 'cansat', 'CANSAT11G2056' => 'cansat', 'CANSAT56G1202' => 'cansat', 'CANSAT56G1514' => 'cansat', 'CANSAT78G0455' => 'cansat', 'CARHR011190' => 'chi', 'CARHR051980' => 'chi', 'CARHR120170' => 'chi', 'CARHR203310' => 'chi', 'CARHR221490' => 'chi', 'Carub.0001s1054' => 'cru', 'Carub.0002s0431' => 'cru', 'Carub.0004s0818' => 'cru', 'Carub.0006s0846' => 'cru', 'Carub.0007s2722' => 'cru', 'Ca_00058_v3' => 'car', 'Ca_17831_v3' => 'car', 'Ca_19408_v3' => 'car', 'Ca_24397_v3' => 'car', 'Ca_25664_v3' => 'car', 'CBR_g21818' => 'cbr', 'CBR_g31195' => 'cbr', 'CBR_g32282' => 'cbr', 'CBR_g39599' => 'cbr', 'CBR_g49410' => 'cbr', 'Cc01_g09120' => 'ccan', 'Cc01_g09130' => 'ccan', 'Cc02_g09630' => 'ccan', 'Cc02_g22810' => 'ccan', 'Cc03_g03810' => 'ccan', 'CDE02G3718' => 'cde', 'CDE04G3183' => 'cde', 'CDE07G1046' => 'cde', 'CDE08G0480' => 'cde', 'Cfa005493' => 'cfa', 'Cfa010312' => 'cfa', 'Cfa015648' => 'cfa', 'Ciclev10002793m.g' => 'ccl', 'Ciclev10003356m.g' => 'ccl', 'Ciclev10006141m.g' => 'ccl', 'Ciclev10016676m.g' => 'ccl', 'Ciclev10017081m.g' => 'ccl', 'Ciclev10029499m.g' => 'ccl', 'CiPaw.01G166300' => 'cil', 'CiPaw.06G145600' => 'cil', 'CiPaw.13G040100' => 'cil', 'CiPaw.13G135800' => 'cil', 'ClCG01G012230' => 'cla', 'ClCG05G009510' => 'cla', 'ClCG08G008270' => 'cla', 'COL.COLO4_11763' => 'col', 'COL.COLO4_19876' => 'col', 'COL.COLO4_21481' => 'col', 'Cpa.g.sc118.34' => 'cpa', 'Cpa.g.sc32.13' => 'cpa', 'Cpa.g.sc58.103' => 'cpa', 'Cre03.g183850' => 'cre', 'Cre06.g306350' => 'cre', 'Cre07.g334800' => 'cre', 'Cre12.g487900' => 'cre', 'Cre14.g626700' => 'cre', 'Cre16.g658400' => 'cre', 'Cre17.g700950' => 'cre', 'CsaV3_1G014830' => 'csa', 'CsaV3_3G013320' => 'csa', 'CsaV3_3G019210' => 'csa', 'CsaV3_3G019220' => 'csa', 'CsaV3_6G004230' => 'csa', 'CSS0003773' => 'camsi', 'CSS0004563' => 'camsi', 'CSS0013949' => 'camsi', 'CSS0025971' => 'camsi', 'CSS0028570' => 'camsi', 'CSS0033127' => 'camsi', 'CSS0036051' => 'camsi', 'CSS0040087' => 'camsi', 'CSS0043179' => 'camsi', 'DCAR_006161' => 'dca', 'DCAR_010351' => 'dca', 'DCAR_012197' => 'dca', 'DCAR_024162' => 'dca', 'Dinv01030' => 'din', 'Dinv10924' => 'din', 'Dinv11835' => 'din', 'Dinv22841' => 'din', 'Dinv42553' => 'din', 'Duzib052G0560' => 'dzi', 'Duzib132G0389' => 'dzi', 'Duzib150G1181' => 'dzi', 'Duzib168G0623' => 'dzi', 'Duzib170G1036' => 'dzi', 'Duzib212G0200' => 'dzi', 'Duzib248G0194' => 'dzi', 'ECA232G2193' => 'eca', 'ECA233G0302' => 'eca', 'ECA234G2813' => 'eca', 'ECA234G4866' => 'eca', 'ECA240G3932' => 'eca', 'ECA248G0385' => 'eca', 'EL10Ac2g04781' => 'bvu', 'EL10Ac3g06445' => 'bvu', 'EL10Ac7g15825' => 'bvu', 'EL10Ac8g18550' => 'bvu', 'Eucgr.B03849' => 'egr', 'Eucgr.I02744' => 'egr', 'Eucgr.J00264' => 'egr', 'Eucgr.J00493' => 'egr', 'FAN04G2181' => 'fan', 'FAN07G2666' => 'fan', 'FAN11G0024' => 'fan', 'FAN12G1105' => 'fan', 'FAN13G0302' => 'fan', 'FAN15G2781' => 'fan', 'FAN16G1274' => 'fan', 'FAN17G2988' => 'fan', 'FAN18G2621' => 'fan', 'FAN21G0013' => 'fan', 'FAN22G1211' => 'fan', 'FAN25G3626' => 'fan', 'FvH4_2g09491' => 'fve', 'FvH4_3g24910' => 'fve', 'FvH4_4g15630' => 'fve', 'FvH4_5g28820' => 'fve', 'Glyma.01G238000' => 'gma', 'Glyma.05G168400' => 'gma', 'Glyma.08G126800' => 'gma', 'Glyma.08G188500' => 'gma', 'Glyma.10G278900' => 'gma', 'Glyma.11G005700' => 'gma', 'Glyma.11G183300' => 'gma', 'Glyma.12G089200' => 'gma', 'Glyma.12G169400' => 'gma', 'Glyma.12G169500' => 'gma', 'Glyma.12G169600' => 'gma', 'Glyma.20G110800' => 'gma', 'Gohir.A03G192900' => 'ghi', 'Gohir.A03G193000' => 'ghi', 'Gohir.A05G080700' => 'ghi', 'Gohir.A09G216000' => 'ghi', 'Gohir.A12G027700' => 'ghi', 'Gohir.A13G036200' => 'ghi', 'Gohir.A13G222600' => 'ghi', 'Gohir.D02G213900' => 'ghi', 'Gohir.D02G214000' => 'ghi', 'Gohir.D05G083700' => 'ghi', 'Gohir.D05G083800' => 'ghi', 'Gohir.D05G083850' => 'ghi', 'Gohir.D08G015400' => 'ghi', 'Gohir.D09G218400' => 'ghi', 'Gohir.D12G027100' => 'ghi', 'Gohir.D13G034500' => 'ghi', 'Gohir.D13G227400' => 'ghi', 'Gorai.005G241800' => 'gra', 'Gorai.005G241900' => 'gra', 'Gorai.006G239400' => 'gra', 'Gorai.008G027600' => 'gra', 'Gorai.009G085400' => 'gra', 'Gorai.009G085500' => 'gra', 'Gorai.013G039000' => 'gra', 'Gorai.013G194800' => 'gra', 'Gorai.013G257900' => 'gra', 'GSVIVG01000982001' => 'vvi', 'GSVIVG01017981001' => 'vvi', 'HanXRQChr01g0024061' => 'han', 'HanXRQChr09g0247831' => 'han', 'HanXRQChr10g0294611' => 'han', 'HanXRQChr10g0294621' => 'han', 'HanXRQChr11g0346821' => 'han', 'HanXRQChr13g0397461' => 'han', 'HanXRQChr16g0513651' => 'han', 'HanXRQChr16g0513701' => 'han', 'Haze_00897' => 'cav', 'Haze_01745' => 'cav', 'Haze_02486' => 'cav', 'Haze_02487' => 'cav', 'Haze_23374' => 'cav', 'Hma1.2p1_0578F.1_g182520' => 'hma', 'Hma1.2p1_0602F.1_g187350' => 'hma', 'Hma1.2p1_0602F.1_g187360' => 'hma', 'Hma1.2p1_0874F.1_g231320' => 'hma', 'Hma1.2p1_1197F.1_g266210' => 'hma', 'Hma1.2p1_1197F.1_g266220' => 'hma', 'Hma1.2p1_2167F.1_g315895' => 'hma', 'Hma1.2p1_2190F.1_g316640' => 'hma', 'Hma1.2p1_3645F.1_g337153' => 'hma', 'HPP92_004907' => 'vpl', 'HPP92_012134' => 'vpl', 'HPP92_025136' => 'vpl', 'HPP92_026087' => 'vpl', 'Hund06782' => 'sun', 'Hund06784' => 'sun', 'Lalb_Chr01g0004861' => 'lal', 'Lalb_Chr02g0140591' => 'lal', 'Lalb_Chr02g0140611' => 'lal', 'Lalb_Chr03g0028101' => 'lal', 'Lalb_Chr07g0185791' => 'lal', 'Lalb_Chr12g0204491' => 'lal', 'Lalb_Chr13g0295671' => 'lal', 'Lalb_Chr19g0136461' => 'lal', 'Lalb_Chr21g0309191' => 'lal', 'Lj1g0028158' => 'lja', 'Lj1P236T38' => 'lonja', 'Lj2C32G2' => 'lonja', 'Lj2P944T8' => 'lonja', 'Lj2P963T15' => 'lonja', 'Lj3g0011788' => 'lja', 'Lj4g0025027' => 'lja', 'Lj5P255T36' => 'lonja', 'Lj6g0018866' => 'lja', 'Lj6P608T31' => 'lonja', 'LjContig00408g0008879' => 'lja', 'Lsat_1_v5_gn_5_105820' => 'lsa', 'Lsat_1_v5_gn_6_38800' => 'lsa', 'Lsat_1_v5_gn_7_67141' => 'lsa', 'Manes.04G003400' => 'mes', 'Manes.07G020000' => 'mes', 'Manes.07G020100' => 'mes', 'Manes.07G020150' => 'mes', 'Manes.10G061500' => 'mes', 'Manes.10G123200' => 'mes', 'Manes.11G161900' => 'mes', 'Manes.15G029300' => 'mes', 'Mapoly0071s0018' => 'mpo', 'Mapoly0082s0023' => 'mpo', 'Mapoly3477s0001' => 'mpo', 'MBI05_g31233_MAGBIO' => 'mbi', 'MBI09_g05946_MAGBIO' => 'mbi', 'MBI09_g05947_MAGBIO' => 'mbi', 'MBI17_g08346_MAGBIO' => 'mbi', 'MCO04G038' => 'mco', 'MCO09G370' => 'mco', 'MCO13G605' => 'mco', 'MD00G1075500' => 'mdo', 'MD03G1144300' => 'mdo', 'MD08G1236800' => 'mdo', 'MD13G1193300' => 'mdo', 'MD15G1428700' => 'mdo', 'Medtr1g112030' => 'mtr', 'Medtr1g112050' => 'mtr', 'Medtr2g006290' => 'mtr', 'Medtr2g086510' => 'mtr', 'Medtr4g053120' => 'mtr', 'Medtr5g006320' => 'mtr', 'Medtr8g088720' => 'mtr', 'MELO3C004712.2' => 'cme', 'MELO3C006533.2' => 'cme', 'MELO3C019438.2' => 'cme', 'MELO3C019440.2' => 'cme', 'MELO3C019441.2' => 'cme', 'MELO3C019895.2' => 'cme', 'Migut.B00811' => 'egut', 'Migut.D02447' => 'egut', 'Migut.F00875' => 'egut', 'Migut.N00186' => 'egut', 'Migut.N01051' => 'egut', 'Migut.N02491' => 'egut', 'Migut.O00784' => 'egut', 'MSTRG.12367' => 'ama', 'MSTRG.18756' => 'ama', 'MSTRG.21042' => 'ama', 'Nitab4.5_0000559g0040' => 'nta', 'Nitab4.5_0000667g0190' => 'nta', 'Nitab4.5_0000755g0160' => 'nta', 'Nitab4.5_0001216g0080' => 'nta', 'Nitab4.5_0004069g0040' => 'nta', 'Nitab4.5_0004129g0010' => 'nta', 'Nitab4.5_0005744g0030' => 'nta', 'Nitab4.5_0006996g0030' => 'nta', 'Nitab4.5_0008971g0040' => 'nta', 'Nitab4.5_0009769g0020' => 'nta', 'Nitab4.5_0009833g0010' => 'nta', 'Nitab4.5_0013140g0020' => 'nta', 'Nn003s41376' => 'nnu', 'Nn1g01857' => 'nnu', 'Nn1g03611' => 'nnu', 'Nn1g06853' => 'nnu', 'Nn3g18360' => 'nnu', 'Nn4g26328' => 'nnu', 'Nn5g27531' => 'nnu', 'Nn6g34899' => 'nnu', 'Nn7g36299' => 'nnu', 'Oeu021485.1' => 'oeu', 'Oeu022433.1' => 'oeu', 'Oeu032111.1' => 'oeu', 'Oeu051608.1' => 'oeu', 'Os01g0860601' => 'osa', 'Os03g0659200' => 'osa', 'Os03g0835900' => 'osa', 'Os04g0412200' => 'osa', 'Os05g0443500' => 'osa', 'Os07g0251500' => 'osa', 'Os08g0104600' => 'osa', 'Peaxi162Scf00003g00047' => 'pax', 'Peaxi162Scf00003g00052' => 'pax', 'Peaxi162Scf00003g00394' => 'pax', 'Peaxi162Scf00091g00621' => 'pax', 'Peaxi162Scf00152g00146' => 'pax', 'Peaxi162Scf00173g00025' => 'pax', 'Peaxi162Scf00195g00102' => 'pax', 'Peaxi162Scf00402g00013' => 'pax', 'Peaxi162Scf00519g00618' => 'pax', 'PGR004G2838' => 'pgr', 'PGR044G2275' => 'pgr', 'PGR102G1377' => 'pgr', 'PGR119G1245' => 'pgr', 'PGR142G4449' => 'pgr', 'PGSC0003DMG400004532' => 'stu', 'PGSC0003DMG400011950' => 'stu', 'PGSC0003DMG400023391' => 'stu', 'PGSC0003DMG400023985' => 'stu', 'PGSC0003DMG400026360' => 'stu', 'PGSC0003DMG400035711' => 'stu', 'PGSC0003DMG400037286' => 'stu', 'PGSC0003DMG402005881' => 'stu', 'Phvul.002G045400' => 'pvu', 'Phvul.006G216600' => 'pvu', 'Phvul.006G216700' => 'pvu', 'Phvul.006G216800' => 'pvu', 'Phvul.007G022500' => 'pvu', 'Phvul.011G094400' => 'pvu', 'Potri.001G470700' => 'ptr', 'Potri.003G015200' => 'ptr', 'Potri.004G202500' => 'ptr', 'Potri.004G218400' => 'ptr', 'Potri.008G020100' => 'ptr', 'Potri.008G153200' => 'ptr', 'Potri.009G163800' => 'ptr', 'Potri.010G087300' => 'ptr', 'Potri.010G239100' => 'ptr', 'Pp3c10_16100' => 'ppa', 'Pp3c10_16880' => 'ppa', 'Pp3c16_6230' => 'ppa', 'Pp3c17_18910' => 'ppa', 'Pp3c3_22119' => 'ppa', 'Pp3c3_22140' => 'ppa', 'Pp3c4_8159' => 'ppa', 'Pp3c4_8171' => 'ppa', 'Pp3c4_8330' => 'ppa', 'PRCOL_00004098' => 'pco', 'Prupe.1G013900' => 'ppe', 'Prupe.1G226300' => 'ppe', 'Prupe.1G573600' => 'ppe', 'Prupe.6G130100' => 'ppe', 'Psat3g090040' => 'psa', 'Psat4g210440' => 'psa', 'Psat6g231040' => 'psa', 'Psat6g231080' => 'psa', 'Psat7g063000' => 'psa', 'Psat7g188000' => 'psa', 'Psat7g188040' => 'psa', 'PSO017G0206' => 'pso', 'PSO170G0501' => 'pso', 'PSO170G6422' => 'pso', 'PSO210G7739' => 'pso', 'PSO339G1808' => 'pso', 'PSO339G6135' => 'pso', 'PSO384G0010' => 'pso', 'PSO384G0964' => 'pso', 'PSO761G0050' => 'pso', 'PSO782G4085' => 'pso', 'QL01p012264' => 'qlo', 'QL02p099491' => 'qlo', 'QL03p033868' => 'qlo', 'QL04p046678' => 'qlo', 'QL06p002448' => 'qlo', 'RcHm_v2.0_Chr4g0416181' => 'rch', 'RcHm_v2.0_Chr5g0044701' => 'rch', 'RcHm_v2.0_Chr6g0265781' => 'rch', 'RcHm_v2.0_Chr7g0221031' => 'rch', 'Rhsim04G0202000' => 'rsi', 'Rhsim11G0127300' => 'rsi', 'Rhsim13G0111800' => 'rsi', 'Sabra01G0165600' => 'sbr', 'Sabra03G0008300' => 'sbr', 'Sabra04G0136900' => 'sbr', 'Sabra08G0013400' => 'sbr', 'Sabra08G0116800' => 'sbr', 'Sabra09G0128000' => 'sbr', 'Sabra10G0055500' => 'sbr', 'Sabra10G0073300' => 'sbr', 'SalBow3G0385' => 'sbo', 'SalBow3G1119' => 'sbo', 'SalBow3G2005' => 'sbo', 'SalBow6G2563' => 'sbo', 'SalBow6G6386' => 'sbo', 'Sc06g0008800' => 'sci', 'Sc07g0004950' => 'sci', 'Sc09g0005340' => 'sci', 'Sc13g0004410' => 'sci', 'Sc21g0007090' => 'sci', 'Sed0009285' => 'sed', 'Sed0017583' => 'sed', 'Sed0019699' => 'sed', 'Sed0023107' => 'sed', 'SEGI_10916' => 'sgi', 'SEGI_16217' => 'sgi', 'SEGI_19466' => 'sgi', 'SEGI_41115' => 'sgi', 'SGA_v2.0_scaffold111G31534' => 'sas', 'SGA_v2.0_scaffold22G09864' => 'sas', 'SGA_v2.0_scaffold338G49219' => 'sas', 'SGA_v2.0_scaffold92G28298' => 'sas', 'SMO119G0064' => 'smo', 'SMO223G0038' => 'smo', 'SMO347G0584' => 'smo', 'SMO351G0010' => 'smo', 'SMO356G0404' => 'smo', 'Solyc01g103920.3' => 'sly', 'Solyc04g009710.2' => 'sly', 'Solyc05g055280.2' => 'sly', 'Solyc10g044520.3' => 'sly', 'Solyc10g075160.1' => 'sly', 'Solyc11g006910.3' => 'sly', 'Solyc11g068430.3' => 'sly', 'Sopen01g046310' => 'spe', 'Sopen03g001200' => 'spe', 'Sopen04g004830' => 'spe', 'Sopen05g033720' => 'spe', 'Sopen06g030740' => 'spe', 'Sopen10g013090' => 'spe', 'Sopen10g027630' => 'spe', 'Sopen10g027640' => 'spe', 'Sopen11g002820' => 'spe', 'Sopen11g027140' => 'spe', 'Sp1g09680' => 'spa', 'Sp2g03630' => 'spa', 'Sp4g10320' => 'spa', 'Sp6g33400' => 'spa', 'Sp7g13030' => 'spa', 'TAR365G0317' => 'tar', 'TAR376G0979' => 'tar', 'TAR623G1665' => 'tar', 'TAR633G2373' => 'tar', 'TAR636G1400' => 'tar', 'THA.LOC104800529' => 'tha', 'THA.LOC104808547' => 'tha', 'THA.LOC104809615' => 'tha', 'THA.LOC104815724' => 'tha', 'THA.LOC104818480' => 'tha', 'THA.LOC104819179' => 'tha', 'THA.LOC104822270' => 'tha', 'THA.LOC104826425' => 'tha', 'Thecc.02G089700' => 'tca', 'Thecc.04G232300' => 'tca', 'Thecc.09G283400' => 'tca', 'Thhalv10009020m.g' => 'esa', 'Thhalv10015506m.g' => 'esa', 'Thhalv10017364m.g' => 'esa', 'Thhalv10023742m.g' => 'esa', 'Thhalv10026483m.g' => 'esa', 'TPR.G17232' => 'tpr', 'TPR.G2133' => 'tpr', 'TPR.G2498' => 'tpr', 'TPR.G31942' => 'tpr', 'TPR.G37877' => 'tpr', 'TPR.G4571' => 'tpr', 'TWI14G1113' => 'twi', 'TWI15G0426' => 'twi', 'TWI31G1005' => 'twi', 'TWI38G0513' => 'twi', 'TWI38G1484' => 'twi', 'TWI73G1098' => 'twi', 'unitig_26.g10519' => 'ugi', 'unitig_736.g22395' => 'ugi', 'unitig_747.g21234' => 'ugi', 'unitig_747.g21942' => 'ugi', 'vmacro14351' => 'vma', 'VMungo0540G0082' => 'vmu', 'VMungo0540G0405' => 'vmu', 'VMungo0540G1486' => 'vmu', 'VMungo0540G1692' => 'vmu', 'VMungo0720G2473' => 'vmu', 'VMungo1127G1562' => 'vmu', 'VMungo1215G1918' => 'vmu', 'Zm00001eb052650' => 'zma', 'Zm00001eb063710' => 'zma', 'Zm00001eb083950' => 'zma', 'Zm00001eb174420' => 'zma', 'Zm00001eb260140' => 'zma', 'Zm00001eb260150' => 'zma', 'Zm00001eb260160' => 'zma', 'Zm00001eb348290' => 'zma', 'Zm00001eb366870' => 'zma', 'Zm00001eb421930' => 'zma' ) $gf_id = 'HOM05D001025' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001025' ) $data_identifier = 'HOM05D001025' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 19, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 2, 'amhyb' => (int) 4, 'aly' => (int) 4, 'aox' => (int) 4, 'arhy' => (int) 3, 'ath' => (int) 5, 'atr' => (int) 4, 'acertr' => (int) 3, 'cqu' => (int) 7, 'bca' => (int) 17, 'bol' => (int) 10, 'bra' => (int) 9, 'can' => (int) 10, 'cansat' => (int) 6, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 5, 'cbr' => (int) 5, 'ccan' => (int) 5, 'cde' => (int) 4, 'cfa' => (int) 3, 'ccl' => (int) 6, 'cil' => (int) 4, 'cla' => (int) 3, 'col' => (int) 3, 'cpa' => (int) 3, 'cre' => (int) 7, 'csa' => (int) 5, 'camsi' => (int) 9, 'dca' => (int) 4, 'din' => (int) 5, 'dzi' => (int) 7, 'eca' => (int) 6, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 12, 'fve' => (int) 4, 'gma' => (int) 12, 'ghi' => (int) 17, 'gra' => (int) 9, 'vvi' => (int) 2, 'han' => (int) 8, 'cav' => (int) 5, 'hma' => (int) 9, 'vpl' => (int) 4, 'sun' => (int) 2, 'lal' => (int) 9, 'lja' => (int) 5, 'lonja' => (int) 6, 'lsa' => (int) 3, 'mes' => (int) 8, 'mpo' => (int) 3, 'mbi' => (int) 4, 'mco' => (int) 3, 'mdo' => (int) 5, 'mtr' => (int) 7, 'cme' => (int) 6, 'egut' => (int) 7, 'ama' => (int) 3, 'nta' => (int) 12, 'nnu' => (int) 9, 'oeu' => (int) 4, 'osa' => (int) 7, 'pax' => (int) 9, 'pgr' => (int) 5, 'stu' => (int) 8, 'pvu' => (int) 6, 'ptr' => (int) 9, 'ppa' => (int) 9, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 7, 'pso' => (int) 10, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 3, 'sbr' => (int) 8, 'sbo' => (int) 5, 'sci' => (int) 5, 'sed' => (int) 4, 'sgi' => (int) 4, 'sas' => (int) 4, 'smo' => (int) 5, 'sly' => (int) 7, 'spe' => (int) 10, 'spa' => (int) 5, 'tar' => (int) 5, 'tha' => (int) 8, 'tca' => (int) 3, 'esa' => (int) 5, 'tpr' => (int) 6, 'twi' => (int) 6, 'ugi' => (int) 4, 'vma' => (int) 1, 'vmu' => (int) 7, 'zma' => (int) 10 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb421930' $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' => 'HOM05D001025', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '592', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p22650' => 'bna', 'A01p29720' => 'bna', 'A03p26560' => 'bna', 'A03p68820' => 'bna', 'A04p20980' => 'bna', 'A06p07730' => 'bna', 'A07p18260' => 'bna', 'A08p33710' => 'bna', 'A09p16970' => 'bna', 'A10p27490' => 'bna', 'Aa31LG1G17300' => 'aar', 'Aa31LG1G3910' => 'aar', 'Aa31LG2G9630' => 'aar', 'Aa31LG5G8360' => 'aar', 'Aa31LG9G2410' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4699' => 'aag', 'Actinidia23512' => 'ach', 'Actinidia37080' => 'ach', 'Ah.01g020380' => 'amhyb', 'Ah.08g215710' => 'amhyb', 'Ah.09g225110' => 'amhyb', 'Ah.10g036680' => 'amhyb', 'AL1G21940' => 'aly', 'AL2G15540' => 'aly', 'AL4G21520' => 'aly', 'AL7G40960' => 'aly', 'Aqoxy2G01191' => 'aox', 'Aqoxy2G03393' => 'aox', 'Aqoxy4G02775' => 'aox', 'Aqoxy6G00058' => 'aox', 'arahy.Tifrunner.gnm1.ann1.9X74H2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CW3FX9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R485W7' => 'arhy', 'AT1G10960' => 'ath', 'AT1G60950' => 'ath', 'AT2G27510' => 'ath', 'AT4G14890' => 'ath', 'AT5G10000' => 'ath', 'ATR0665G624' => 'atr', 'ATR0697G138' => 'atr', 'ATR0776G046' => 'atr', 'ATR1134G135' => 'atr', 'Atru.chr12.1025' => 'acertr', 'Atru.chr3.3241' => 'acertr', 'Atru.chr4.2460' => 'acertr', 'AUR62007427' => 'cqu', 'AUR62010960' => 'cqu', 'AUR62012201' => 'cqu', 'AUR62021470' => 'cqu', 'AUR62022834' => 'cqu', 'AUR62033635' => 'cqu', 'AUR62036186' => 'cqu', 'BcaB01g03077' => 'bca', 'BcaB02g10093' => 'bca', 'BcaB04g20295' => 'bca', 'BcaB06g28147' => 'bca', 'BcaB07g31253' => 'bca', 'BcaC01g04946' => 'bca', 'BcaC02g10614' => 'bca', 'BcaC02g10885' => 'bca', 'BcaC04g19356' => 'bca', 'BcaC04g22297' => 'bca', 'BcaC05g24977' => 'bca', 'BcaC06g31823' => 'bca', 'BcaC07g38633' => 'bca', 'BcaC09g49353' => 'bca', 'BcaC09g50168' => 'bca', 'BcaNung00322' => 'bca', 'BcaNung04769' => 'bca', 'BolC1t02753H' => 'bol', 'BolC1t03721H' => 'bol', 'BolC3t15525H' => 'bol', 'BolC4t23903H' => 'bol', 'BolC4t24231H' => 'bol', 'BolC4t27209H' => 'bol', 'BolC5t29671H' => 'bol', 'BolC8t49044H' => 'bol', 'BolC9t54999H' => 'bol', 'BolC9t59517H' => 'bol', 'BraA01t02178Z' => 'bra', 'BraA01t03099Z' => 'bra', 'BraA03t11867Z' => 'bra', 'BraA04t17667Z' => 'bra', 'BraA07t29542Z' => 'bra', 'BraA08t35287Z' => 'bra', 'BraA09t37334Z' => 'bra', 'BraA10t44801Z' => 'bra', 'BraSC39t46181Z' => 'bra', 'C01p28240' => 'bna', 'C01p37530' => 'bna', 'C03p31820' => 'bna', 'C04p24080' => 'bna', 'C04p25790' => 'bna', 'C04p56770' => 'bna', 'C05p09310' => 'bna', 'C09p21010' => 'bna', 'C09p67560' => 'bna', 'CAN.G1324.7' => 'can', 'CAN.G1358.10' => 'can', 'CAN.G1550.2' => 'can', 'CAN.G186.56' => 'can', 'CAN.G1965.1' => 'can', 'CAN.G645.15' => 'can', 'CAN.G798.26' => 'can', 'CAN.G798.27' => 'can', 'CAN.G798.29' => 'can', 'CAN.G919.31' => 'can', 'CANSAT11G0133' => 'cansat', 'CANSAT11G1171' => 'cansat', 'CANSAT11G2056' => 'cansat', 'CANSAT56G1202' => 'cansat', 'CANSAT56G1514' => 'cansat', 'CANSAT78G0455' => 'cansat', 'CARHR011190' => 'chi', 'CARHR051980' => 'chi', 'CARHR120170' => 'chi', 'CARHR203310' => 'chi', 'CARHR221490' => 'chi', 'Carub.0001s1054' => 'cru', 'Carub.0002s0431' => 'cru', 'Carub.0004s0818' => 'cru', 'Carub.0006s0846' => 'cru', 'Carub.0007s2722' => 'cru', 'Ca_00058_v3' => 'car', 'Ca_17831_v3' => 'car', 'Ca_19408_v3' => 'car', 'Ca_24397_v3' => 'car', 'Ca_25664_v3' => 'car', 'CBR_g21818' => 'cbr', 'CBR_g31195' => 'cbr', 'CBR_g32282' => 'cbr', 'CBR_g39599' => 'cbr', 'CBR_g49410' => 'cbr', 'Cc01_g09120' => 'ccan', 'Cc01_g09130' => 'ccan', 'Cc02_g09630' => 'ccan', 'Cc02_g22810' => 'ccan', 'Cc03_g03810' => 'ccan', 'CDE02G3718' => 'cde', 'CDE04G3183' => 'cde', 'CDE07G1046' => 'cde', 'CDE08G0480' => 'cde', 'Cfa005493' => 'cfa', 'Cfa010312' => 'cfa', 'Cfa015648' => 'cfa', 'Ciclev10002793m.g' => 'ccl', 'Ciclev10003356m.g' => 'ccl', 'Ciclev10006141m.g' => 'ccl', 'Ciclev10016676m.g' => 'ccl', 'Ciclev10017081m.g' => 'ccl', 'Ciclev10029499m.g' => 'ccl', 'CiPaw.01G166300' => 'cil', 'CiPaw.06G145600' => 'cil', 'CiPaw.13G040100' => 'cil', 'CiPaw.13G135800' => 'cil', 'ClCG01G012230' => 'cla', 'ClCG05G009510' => 'cla', 'ClCG08G008270' => 'cla', 'COL.COLO4_11763' => 'col', 'COL.COLO4_19876' => 'col', 'COL.COLO4_21481' => 'col', 'Cpa.g.sc118.34' => 'cpa', 'Cpa.g.sc32.13' => 'cpa', 'Cpa.g.sc58.103' => 'cpa', 'Cre03.g183850' => 'cre', 'Cre06.g306350' => 'cre', 'Cre07.g334800' => 'cre', 'Cre12.g487900' => 'cre', 'Cre14.g626700' => 'cre', 'Cre16.g658400' => 'cre', 'Cre17.g700950' => 'cre', 'CsaV3_1G014830' => 'csa', 'CsaV3_3G013320' => 'csa', 'CsaV3_3G019210' => 'csa', 'CsaV3_3G019220' => 'csa', 'CsaV3_6G004230' => 'csa', 'CSS0003773' => 'camsi', 'CSS0004563' => 'camsi', 'CSS0013949' => 'camsi', 'CSS0025971' => 'camsi', 'CSS0028570' => 'camsi', 'CSS0033127' => 'camsi', 'CSS0036051' => 'camsi', 'CSS0040087' => 'camsi', 'CSS0043179' => 'camsi', 'DCAR_006161' => 'dca', 'DCAR_010351' => 'dca', 'DCAR_012197' => 'dca', 'DCAR_024162' => 'dca', 'Dinv01030' => 'din', 'Dinv10924' => 'din', 'Dinv11835' => 'din', 'Dinv22841' => 'din', 'Dinv42553' => 'din', 'Duzib052G0560' => 'dzi', 'Duzib132G0389' => 'dzi', 'Duzib150G1181' => 'dzi', 'Duzib168G0623' => 'dzi', 'Duzib170G1036' => 'dzi', 'Duzib212G0200' => 'dzi', 'Duzib248G0194' => 'dzi', 'ECA232G2193' => 'eca', 'ECA233G0302' => 'eca', 'ECA234G2813' => 'eca', 'ECA234G4866' => 'eca', 'ECA240G3932' => 'eca', 'ECA248G0385' => 'eca', 'EL10Ac2g04781' => 'bvu', 'EL10Ac3g06445' => 'bvu', 'EL10Ac7g15825' => 'bvu', 'EL10Ac8g18550' => 'bvu', 'Eucgr.B03849' => 'egr', 'Eucgr.I02744' => 'egr', 'Eucgr.J00264' => 'egr', 'Eucgr.J00493' => 'egr', 'FAN04G2181' => 'fan', 'FAN07G2666' => 'fan', 'FAN11G0024' => 'fan', 'FAN12G1105' => 'fan', 'FAN13G0302' => 'fan', 'FAN15G2781' => 'fan', 'FAN16G1274' => 'fan', 'FAN17G2988' => 'fan', 'FAN18G2621' => 'fan', 'FAN21G0013' => 'fan', 'FAN22G1211' => 'fan', 'FAN25G3626' => 'fan', 'FvH4_2g09491' => 'fve', 'FvH4_3g24910' => 'fve', 'FvH4_4g15630' => 'fve', 'FvH4_5g28820' => 'fve', 'Glyma.01G238000' => 'gma', 'Glyma.05G168400' => 'gma', 'Glyma.08G126800' => 'gma', 'Glyma.08G188500' => 'gma', 'Glyma.10G278900' => 'gma', 'Glyma.11G005700' => 'gma', 'Glyma.11G183300' => 'gma', 'Glyma.12G089200' => 'gma', 'Glyma.12G169400' => 'gma', 'Glyma.12G169500' => 'gma', 'Glyma.12G169600' => 'gma', 'Glyma.20G110800' => 'gma', 'Gohir.A03G192900' => 'ghi', 'Gohir.A03G193000' => 'ghi', 'Gohir.A05G080700' => 'ghi', 'Gohir.A09G216000' => 'ghi', 'Gohir.A12G027700' => 'ghi', 'Gohir.A13G036200' => 'ghi', 'Gohir.A13G222600' => 'ghi', 'Gohir.D02G213900' => 'ghi', 'Gohir.D02G214000' => 'ghi', 'Gohir.D05G083700' => 'ghi', 'Gohir.D05G083800' => 'ghi', 'Gohir.D05G083850' => 'ghi', 'Gohir.D08G015400' => 'ghi', 'Gohir.D09G218400' => 'ghi', 'Gohir.D12G027100' => 'ghi', 'Gohir.D13G034500' => 'ghi', 'Gohir.D13G227400' => 'ghi', 'Gorai.005G241800' => 'gra', 'Gorai.005G241900' => 'gra', 'Gorai.006G239400' => 'gra', 'Gorai.008G027600' => 'gra', 'Gorai.009G085400' => 'gra', 'Gorai.009G085500' => 'gra', 'Gorai.013G039000' => 'gra', 'Gorai.013G194800' => 'gra', 'Gorai.013G257900' => 'gra', 'GSVIVG01000982001' => 'vvi', 'GSVIVG01017981001' => 'vvi', 'HanXRQChr01g0024061' => 'han', 'HanXRQChr09g0247831' => 'han', 'HanXRQChr10g0294611' => 'han', 'HanXRQChr10g0294621' => 'han', 'HanXRQChr11g0346821' => 'han', 'HanXRQChr13g0397461' => 'han', 'HanXRQChr16g0513651' => 'han', 'HanXRQChr16g0513701' => 'han', 'Haze_00897' => 'cav', 'Haze_01745' => 'cav', 'Haze_02486' => 'cav', 'Haze_02487' => 'cav', 'Haze_23374' => 'cav', 'Hma1.2p1_0578F.1_g182520' => 'hma', 'Hma1.2p1_0602F.1_g187350' => 'hma', 'Hma1.2p1_0602F.1_g187360' => 'hma', 'Hma1.2p1_0874F.1_g231320' => 'hma', 'Hma1.2p1_1197F.1_g266210' => 'hma', 'Hma1.2p1_1197F.1_g266220' => 'hma', 'Hma1.2p1_2167F.1_g315895' => 'hma', 'Hma1.2p1_2190F.1_g316640' => 'hma', 'Hma1.2p1_3645F.1_g337153' => 'hma', 'HPP92_004907' => 'vpl', 'HPP92_012134' => 'vpl', 'HPP92_025136' => 'vpl', 'HPP92_026087' => 'vpl', 'Hund06782' => 'sun', 'Hund06784' => 'sun', 'Lalb_Chr01g0004861' => 'lal', 'Lalb_Chr02g0140591' => 'lal', 'Lalb_Chr02g0140611' => 'lal', 'Lalb_Chr03g0028101' => 'lal', 'Lalb_Chr07g0185791' => 'lal', 'Lalb_Chr12g0204491' => 'lal', 'Lalb_Chr13g0295671' => 'lal', 'Lalb_Chr19g0136461' => 'lal', 'Lalb_Chr21g0309191' => 'lal', 'Lj1g0028158' => 'lja', 'Lj1P236T38' => 'lonja', 'Lj2C32G2' => 'lonja', 'Lj2P944T8' => 'lonja', 'Lj2P963T15' => 'lonja', 'Lj3g0011788' => 'lja', 'Lj4g0025027' => 'lja', 'Lj5P255T36' => 'lonja', 'Lj6g0018866' => 'lja', 'Lj6P608T31' => 'lonja', 'LjContig00408g0008879' => 'lja', 'Lsat_1_v5_gn_5_105820' => 'lsa', 'Lsat_1_v5_gn_6_38800' => 'lsa', 'Lsat_1_v5_gn_7_67141' => 'lsa', 'Manes.04G003400' => 'mes', 'Manes.07G020000' => 'mes', 'Manes.07G020100' => 'mes', 'Manes.07G020150' => 'mes', 'Manes.10G061500' => 'mes', 'Manes.10G123200' => 'mes', 'Manes.11G161900' => 'mes', 'Manes.15G029300' => 'mes', 'Mapoly0071s0018' => 'mpo', 'Mapoly0082s0023' => 'mpo', 'Mapoly3477s0001' => 'mpo', 'MBI05_g31233_MAGBIO' => 'mbi', 'MBI09_g05946_MAGBIO' => 'mbi', 'MBI09_g05947_MAGBIO' => 'mbi', 'MBI17_g08346_MAGBIO' => 'mbi', 'MCO04G038' => 'mco', 'MCO09G370' => 'mco', 'MCO13G605' => 'mco', 'MD00G1075500' => 'mdo', 'MD03G1144300' => 'mdo', 'MD08G1236800' => 'mdo', 'MD13G1193300' => 'mdo', 'MD15G1428700' => 'mdo', 'Medtr1g112030' => 'mtr', 'Medtr1g112050' => 'mtr', 'Medtr2g006290' => 'mtr', 'Medtr2g086510' => 'mtr', 'Medtr4g053120' => 'mtr', 'Medtr5g006320' => 'mtr', 'Medtr8g088720' => 'mtr', 'MELO3C004712.2' => 'cme', 'MELO3C006533.2' => 'cme', 'MELO3C019438.2' => 'cme', 'MELO3C019440.2' => 'cme', 'MELO3C019441.2' => 'cme', 'MELO3C019895.2' => 'cme', 'Migut.B00811' => 'egut', 'Migut.D02447' => 'egut', 'Migut.F00875' => 'egut', 'Migut.N00186' => 'egut', 'Migut.N01051' => 'egut', 'Migut.N02491' => 'egut', 'Migut.O00784' => 'egut', 'MSTRG.12367' => 'ama', 'MSTRG.18756' => 'ama', 'MSTRG.21042' => 'ama', 'Nitab4.5_0000559g0040' => 'nta', 'Nitab4.5_0000667g0190' => 'nta', 'Nitab4.5_0000755g0160' => 'nta', 'Nitab4.5_0001216g0080' => 'nta', 'Nitab4.5_0004069g0040' => 'nta', 'Nitab4.5_0004129g0010' => 'nta', 'Nitab4.5_0005744g0030' => 'nta', 'Nitab4.5_0006996g0030' => 'nta', 'Nitab4.5_0008971g0040' => 'nta', 'Nitab4.5_0009769g0020' => 'nta', 'Nitab4.5_0009833g0010' => 'nta', 'Nitab4.5_0013140g0020' => 'nta', 'Nn003s41376' => 'nnu', 'Nn1g01857' => 'nnu', 'Nn1g03611' => 'nnu', 'Nn1g06853' => 'nnu', 'Nn3g18360' => 'nnu', 'Nn4g26328' => 'nnu', 'Nn5g27531' => 'nnu', 'Nn6g34899' => 'nnu', 'Nn7g36299' => 'nnu', 'Oeu021485.1' => 'oeu', 'Oeu022433.1' => 'oeu', 'Oeu032111.1' => 'oeu', 'Oeu051608.1' => 'oeu', 'Os01g0860601' => 'osa', 'Os03g0659200' => 'osa', 'Os03g0835900' => 'osa', 'Os04g0412200' => 'osa', 'Os05g0443500' => 'osa', 'Os07g0251500' => 'osa', 'Os08g0104600' => 'osa', 'Peaxi162Scf00003g00047' => 'pax', 'Peaxi162Scf00003g00052' => 'pax', 'Peaxi162Scf00003g00394' => 'pax', 'Peaxi162Scf00091g00621' => 'pax', 'Peaxi162Scf00152g00146' => 'pax', 'Peaxi162Scf00173g00025' => 'pax', 'Peaxi162Scf00195g00102' => 'pax', 'Peaxi162Scf00402g00013' => 'pax', 'Peaxi162Scf00519g00618' => 'pax', 'PGR004G2838' => 'pgr', 'PGR044G2275' => 'pgr', 'PGR102G1377' => 'pgr', 'PGR119G1245' => 'pgr', 'PGR142G4449' => 'pgr', 'PGSC0003DMG400004532' => 'stu', 'PGSC0003DMG400011950' => 'stu', 'PGSC0003DMG400023391' => 'stu', 'PGSC0003DMG400023985' => 'stu', 'PGSC0003DMG400026360' => 'stu', 'PGSC0003DMG400035711' => 'stu', 'PGSC0003DMG400037286' => 'stu', 'PGSC0003DMG402005881' => 'stu', 'Phvul.002G045400' => 'pvu', 'Phvul.006G216600' => 'pvu', 'Phvul.006G216700' => 'pvu', 'Phvul.006G216800' => 'pvu', 'Phvul.007G022500' => 'pvu', 'Phvul.011G094400' => 'pvu', 'Potri.001G470700' => 'ptr', 'Potri.003G015200' => 'ptr', 'Potri.004G202500' => 'ptr', 'Potri.004G218400' => 'ptr', 'Potri.008G020100' => 'ptr', 'Potri.008G153200' => 'ptr', 'Potri.009G163800' => 'ptr', 'Potri.010G087300' => 'ptr', 'Potri.010G239100' => 'ptr', 'Pp3c10_16100' => 'ppa', 'Pp3c10_16880' => 'ppa', 'Pp3c16_6230' => 'ppa', 'Pp3c17_18910' => 'ppa', 'Pp3c3_22119' => 'ppa', 'Pp3c3_22140' => 'ppa', 'Pp3c4_8159' => 'ppa', 'Pp3c4_8171' => 'ppa', 'Pp3c4_8330' => 'ppa', 'PRCOL_00004098' => 'pco', 'Prupe.1G013900' => 'ppe', 'Prupe.1G226300' => 'ppe', 'Prupe.1G573600' => 'ppe', 'Prupe.6G130100' => 'ppe', 'Psat3g090040' => 'psa', 'Psat4g210440' => 'psa', 'Psat6g231040' => 'psa', 'Psat6g231080' => 'psa', 'Psat7g063000' => 'psa', 'Psat7g188000' => 'psa', 'Psat7g188040' => 'psa', 'PSO017G0206' => 'pso', 'PSO170G0501' => 'pso', 'PSO170G6422' => 'pso', 'PSO210G7739' => 'pso', 'PSO339G1808' => 'pso', 'PSO339G6135' => 'pso', 'PSO384G0010' => 'pso', 'PSO384G0964' => 'pso', 'PSO761G0050' => 'pso', 'PSO782G4085' => 'pso', 'QL01p012264' => 'qlo', 'QL02p099491' => 'qlo', 'QL03p033868' => 'qlo', 'QL04p046678' => 'qlo', 'QL06p002448' => 'qlo', 'RcHm_v2.0_Chr4g0416181' => 'rch', 'RcHm_v2.0_Chr5g0044701' => 'rch', 'RcHm_v2.0_Chr6g0265781' => 'rch', 'RcHm_v2.0_Chr7g0221031' => 'rch', 'Rhsim04G0202000' => 'rsi', 'Rhsim11G0127300' => 'rsi', 'Rhsim13G0111800' => 'rsi', 'Sabra01G0165600' => 'sbr', 'Sabra03G0008300' => 'sbr', 'Sabra04G0136900' => 'sbr', 'Sabra08G0013400' => 'sbr', 'Sabra08G0116800' => 'sbr', 'Sabra09G0128000' => 'sbr', 'Sabra10G0055500' => 'sbr', 'Sabra10G0073300' => 'sbr', 'SalBow3G0385' => 'sbo', 'SalBow3G1119' => 'sbo', 'SalBow3G2005' => 'sbo', 'SalBow6G2563' => 'sbo', 'SalBow6G6386' => 'sbo', 'Sc06g0008800' => 'sci', 'Sc07g0004950' => 'sci', 'Sc09g0005340' => 'sci', 'Sc13g0004410' => 'sci', 'Sc21g0007090' => 'sci', 'Sed0009285' => 'sed', 'Sed0017583' => 'sed', 'Sed0019699' => 'sed', 'Sed0023107' => 'sed', 'SEGI_10916' => 'sgi', 'SEGI_16217' => 'sgi', 'SEGI_19466' => 'sgi', 'SEGI_41115' => 'sgi', 'SGA_v2.0_scaffold111G31534' => 'sas', 'SGA_v2.0_scaffold22G09864' => 'sas', 'SGA_v2.0_scaffold338G49219' => 'sas', 'SGA_v2.0_scaffold92G28298' => 'sas', 'SMO119G0064' => 'smo', 'SMO223G0038' => 'smo', 'SMO347G0584' => 'smo', 'SMO351G0010' => 'smo', 'SMO356G0404' => 'smo', 'Solyc01g103920.3' => 'sly', 'Solyc04g009710.2' => 'sly', 'Solyc05g055280.2' => 'sly', 'Solyc10g044520.3' => 'sly', 'Solyc10g075160.1' => 'sly', 'Solyc11g006910.3' => 'sly', 'Solyc11g068430.3' => 'sly', 'Sopen01g046310' => 'spe', 'Sopen03g001200' => 'spe', 'Sopen04g004830' => 'spe', 'Sopen05g033720' => 'spe', 'Sopen06g030740' => 'spe', 'Sopen10g013090' => 'spe', 'Sopen10g027630' => 'spe', 'Sopen10g027640' => 'spe', 'Sopen11g002820' => 'spe', 'Sopen11g027140' => 'spe', 'Sp1g09680' => 'spa', 'Sp2g03630' => 'spa', 'Sp4g10320' => 'spa', 'Sp6g33400' => 'spa', 'Sp7g13030' => 'spa', 'TAR365G0317' => 'tar', 'TAR376G0979' => 'tar', 'TAR623G1665' => 'tar', 'TAR633G2373' => 'tar', 'TAR636G1400' => 'tar', 'THA.LOC104800529' => 'tha', 'THA.LOC104808547' => 'tha', 'THA.LOC104809615' => 'tha', 'THA.LOC104815724' => 'tha', 'THA.LOC104818480' => 'tha', 'THA.LOC104819179' => 'tha', 'THA.LOC104822270' => 'tha', 'THA.LOC104826425' => 'tha', 'Thecc.02G089700' => 'tca', 'Thecc.04G232300' => 'tca', 'Thecc.09G283400' => 'tca', 'Thhalv10009020m.g' => 'esa', 'Thhalv10015506m.g' => 'esa', 'Thhalv10017364m.g' => 'esa', 'Thhalv10023742m.g' => 'esa', 'Thhalv10026483m.g' => 'esa', 'TPR.G17232' => 'tpr', 'TPR.G2133' => 'tpr', 'TPR.G2498' => 'tpr', 'TPR.G31942' => 'tpr', 'TPR.G37877' => 'tpr', 'TPR.G4571' => 'tpr', 'TWI14G1113' => 'twi', 'TWI15G0426' => 'twi', 'TWI31G1005' => 'twi', 'TWI38G0513' => 'twi', 'TWI38G1484' => 'twi', 'TWI73G1098' => 'twi', 'unitig_26.g10519' => 'ugi', 'unitig_736.g22395' => 'ugi', 'unitig_747.g21234' => 'ugi', 'unitig_747.g21942' => 'ugi', 'vmacro14351' => 'vma', 'VMungo0540G0082' => 'vmu', 'VMungo0540G0405' => 'vmu', 'VMungo0540G1486' => 'vmu', 'VMungo0540G1692' => 'vmu', 'VMungo0720G2473' => 'vmu', 'VMungo1127G1562' => 'vmu', 'VMungo1215G1918' => 'vmu', 'Zm00001eb052650' => 'zma', 'Zm00001eb063710' => 'zma', 'Zm00001eb083950' => 'zma', 'Zm00001eb174420' => 'zma', 'Zm00001eb260140' => 'zma', 'Zm00001eb260150' => 'zma', 'Zm00001eb260160' => 'zma', 'Zm00001eb348290' => 'zma', 'Zm00001eb366870' => 'zma', 'Zm00001eb421930' => 'zma' ), 'gf_id' => 'HOM05D001025', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001025' ), 'data_identifier' => 'HOM05D001025', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001025', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '592', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p22650' => 'bna', 'A01p29720' => 'bna', 'A03p26560' => 'bna', 'A03p68820' => 'bna', 'A04p20980' => 'bna', 'A06p07730' => 'bna', 'A07p18260' => 'bna', 'A08p33710' => 'bna', 'A09p16970' => 'bna', 'A10p27490' => 'bna', 'Aa31LG1G17300' => 'aar', 'Aa31LG1G3910' => 'aar', 'Aa31LG2G9630' => 'aar', 'Aa31LG5G8360' => 'aar', 'Aa31LG9G2410' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4699' => 'aag', 'Actinidia23512' => 'ach', 'Actinidia37080' => 'ach', 'Ah.01g020380' => 'amhyb', 'Ah.08g215710' => 'amhyb', 'Ah.09g225110' => 'amhyb', 'Ah.10g036680' => 'amhyb', 'AL1G21940' => 'aly', 'AL2G15540' => 'aly', 'AL4G21520' => 'aly', 'AL7G40960' => 'aly', 'Aqoxy2G01191' => 'aox', 'Aqoxy2G03393' => 'aox', 'Aqoxy4G02775' => 'aox', 'Aqoxy6G00058' => 'aox', 'arahy.Tifrunner.gnm1.ann1.9X74H2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CW3FX9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R485W7' => 'arhy', 'AT1G10960' => 'ath', 'AT1G60950' => 'ath', 'AT2G27510' => 'ath', 'AT4G14890' => 'ath', 'AT5G10000' => 'ath', 'ATR0665G624' => 'atr', 'ATR0697G138' => 'atr', 'ATR0776G046' => 'atr', 'ATR1134G135' => 'atr', 'Atru.chr12.1025' => 'acertr', 'Atru.chr3.3241' => 'acertr', 'Atru.chr4.2460' => 'acertr', 'AUR62007427' => 'cqu', 'AUR62010960' => 'cqu', 'AUR62012201' => 'cqu', 'AUR62021470' => 'cqu', 'AUR62022834' => 'cqu', 'AUR62033635' => 'cqu', 'AUR62036186' => 'cqu', 'BcaB01g03077' => 'bca', 'BcaB02g10093' => 'bca', 'BcaB04g20295' => 'bca', 'BcaB06g28147' => 'bca', 'BcaB07g31253' => 'bca', 'BcaC01g04946' => 'bca', 'BcaC02g10614' => 'bca', 'BcaC02g10885' => 'bca', 'BcaC04g19356' => 'bca', 'BcaC04g22297' => 'bca', 'BcaC05g24977' => 'bca', 'BcaC06g31823' => 'bca', 'BcaC07g38633' => 'bca', 'BcaC09g49353' => 'bca', 'BcaC09g50168' => 'bca', 'BcaNung00322' => 'bca', 'BcaNung04769' => 'bca', 'BolC1t02753H' => 'bol', 'BolC1t03721H' => 'bol', 'BolC3t15525H' => 'bol', 'BolC4t23903H' => 'bol', 'BolC4t24231H' => 'bol', 'BolC4t27209H' => 'bol', 'BolC5t29671H' => 'bol', 'BolC8t49044H' => 'bol', 'BolC9t54999H' => 'bol', 'BolC9t59517H' => 'bol', 'BraA01t02178Z' => 'bra', 'BraA01t03099Z' => 'bra', 'BraA03t11867Z' => 'bra', 'BraA04t17667Z' => 'bra', 'BraA07t29542Z' => 'bra', 'BraA08t35287Z' => 'bra', 'BraA09t37334Z' => 'bra', 'BraA10t44801Z' => 'bra', 'BraSC39t46181Z' => 'bra', 'C01p28240' => 'bna', 'C01p37530' => 'bna', 'C03p31820' => 'bna', 'C04p24080' => 'bna', 'C04p25790' => 'bna', 'C04p56770' => 'bna', 'C05p09310' => 'bna', 'C09p21010' => 'bna', 'C09p67560' => 'bna', 'CAN.G1324.7' => 'can', 'CAN.G1358.10' => 'can', 'CAN.G1550.2' => 'can', 'CAN.G186.56' => 'can', 'CAN.G1965.1' => 'can', 'CAN.G645.15' => 'can', 'CAN.G798.26' => 'can', 'CAN.G798.27' => 'can', 'CAN.G798.29' => 'can', 'CAN.G919.31' => 'can', 'CANSAT11G0133' => 'cansat', 'CANSAT11G1171' => 'cansat', 'CANSAT11G2056' => 'cansat', 'CANSAT56G1202' => 'cansat', 'CANSAT56G1514' => 'cansat', 'CANSAT78G0455' => 'cansat', 'CARHR011190' => 'chi', 'CARHR051980' => 'chi', 'CARHR120170' => 'chi', 'CARHR203310' => 'chi', 'CARHR221490' => 'chi', 'Carub.0001s1054' => 'cru', 'Carub.0002s0431' => 'cru', 'Carub.0004s0818' => 'cru', 'Carub.0006s0846' => 'cru', 'Carub.0007s2722' => 'cru', 'Ca_00058_v3' => 'car', 'Ca_17831_v3' => 'car', 'Ca_19408_v3' => 'car', 'Ca_24397_v3' => 'car', 'Ca_25664_v3' => 'car', 'CBR_g21818' => 'cbr', 'CBR_g31195' => 'cbr', 'CBR_g32282' => 'cbr', 'CBR_g39599' => 'cbr', 'CBR_g49410' => 'cbr', 'Cc01_g09120' => 'ccan', 'Cc01_g09130' => 'ccan', 'Cc02_g09630' => 'ccan', 'Cc02_g22810' => 'ccan', 'Cc03_g03810' => 'ccan', 'CDE02G3718' => 'cde', 'CDE04G3183' => 'cde', 'CDE07G1046' => 'cde', 'CDE08G0480' => 'cde', 'Cfa005493' => 'cfa', 'Cfa010312' => 'cfa', 'Cfa015648' => 'cfa', 'Ciclev10002793m.g' => 'ccl', 'Ciclev10003356m.g' => 'ccl', 'Ciclev10006141m.g' => 'ccl', 'Ciclev10016676m.g' => 'ccl', 'Ciclev10017081m.g' => 'ccl', 'Ciclev10029499m.g' => 'ccl', 'CiPaw.01G166300' => 'cil', 'CiPaw.06G145600' => 'cil', 'CiPaw.13G040100' => 'cil', 'CiPaw.13G135800' => 'cil', 'ClCG01G012230' => 'cla', 'ClCG05G009510' => 'cla', 'ClCG08G008270' => 'cla', 'COL.COLO4_11763' => 'col', 'COL.COLO4_19876' => 'col', 'COL.COLO4_21481' => 'col', 'Cpa.g.sc118.34' => 'cpa', 'Cpa.g.sc32.13' => 'cpa', 'Cpa.g.sc58.103' => 'cpa', 'Cre03.g183850' => 'cre', 'Cre06.g306350' => 'cre', 'Cre07.g334800' => 'cre', 'Cre12.g487900' => 'cre', 'Cre14.g626700' => 'cre', 'Cre16.g658400' => 'cre', 'Cre17.g700950' => 'cre', 'CsaV3_1G014830' => 'csa', 'CsaV3_3G013320' => 'csa', 'CsaV3_3G019210' => 'csa', 'CsaV3_3G019220' => 'csa', 'CsaV3_6G004230' => 'csa', 'CSS0003773' => 'camsi', 'CSS0004563' => 'camsi', 'CSS0013949' => 'camsi', 'CSS0025971' => 'camsi', 'CSS0028570' => 'camsi', 'CSS0033127' => 'camsi', 'CSS0036051' => 'camsi', 'CSS0040087' => 'camsi', 'CSS0043179' => 'camsi', 'DCAR_006161' => 'dca', 'DCAR_010351' => 'dca', 'DCAR_012197' => 'dca', 'DCAR_024162' => 'dca', 'Dinv01030' => 'din', 'Dinv10924' => 'din', 'Dinv11835' => 'din', 'Dinv22841' => 'din', 'Dinv42553' => 'din', 'Duzib052G0560' => 'dzi', 'Duzib132G0389' => 'dzi', 'Duzib150G1181' => 'dzi', 'Duzib168G0623' => 'dzi', 'Duzib170G1036' => 'dzi', 'Duzib212G0200' => 'dzi', 'Duzib248G0194' => 'dzi', 'ECA232G2193' => 'eca', 'ECA233G0302' => 'eca', 'ECA234G2813' => 'eca', 'ECA234G4866' => 'eca', 'ECA240G3932' => 'eca', 'ECA248G0385' => 'eca', 'EL10Ac2g04781' => 'bvu', 'EL10Ac3g06445' => 'bvu', 'EL10Ac7g15825' => 'bvu', 'EL10Ac8g18550' => 'bvu', 'Eucgr.B03849' => 'egr', 'Eucgr.I02744' => 'egr', 'Eucgr.J00264' => 'egr', 'Eucgr.J00493' => 'egr', 'FAN04G2181' => 'fan', 'FAN07G2666' => 'fan', 'FAN11G0024' => 'fan', 'FAN12G1105' => 'fan', 'FAN13G0302' => 'fan', 'FAN15G2781' => 'fan', 'FAN16G1274' => 'fan', 'FAN17G2988' => 'fan', 'FAN18G2621' => 'fan', 'FAN21G0013' => 'fan', 'FAN22G1211' => 'fan', 'FAN25G3626' => 'fan', 'FvH4_2g09491' => 'fve', 'FvH4_3g24910' => 'fve', 'FvH4_4g15630' => 'fve', 'FvH4_5g28820' => 'fve', 'Glyma.01G238000' => 'gma', 'Glyma.05G168400' => 'gma', 'Glyma.08G126800' => 'gma', 'Glyma.08G188500' => 'gma', 'Glyma.10G278900' => 'gma', 'Glyma.11G005700' => 'gma', 'Glyma.11G183300' => 'gma', 'Glyma.12G089200' => 'gma', 'Glyma.12G169400' => 'gma', 'Glyma.12G169500' => 'gma', 'Glyma.12G169600' => 'gma', 'Glyma.20G110800' => 'gma', 'Gohir.A03G192900' => 'ghi', 'Gohir.A03G193000' => 'ghi', 'Gohir.A05G080700' => 'ghi', 'Gohir.A09G216000' => 'ghi', 'Gohir.A12G027700' => 'ghi', 'Gohir.A13G036200' => 'ghi', 'Gohir.A13G222600' => 'ghi', 'Gohir.D02G213900' => 'ghi', 'Gohir.D02G214000' => 'ghi', 'Gohir.D05G083700' => 'ghi', 'Gohir.D05G083800' => 'ghi', 'Gohir.D05G083850' => 'ghi', 'Gohir.D08G015400' => 'ghi', 'Gohir.D09G218400' => 'ghi', 'Gohir.D12G027100' => 'ghi', 'Gohir.D13G034500' => 'ghi', 'Gohir.D13G227400' => 'ghi', 'Gorai.005G241800' => 'gra', 'Gorai.005G241900' => 'gra', 'Gorai.006G239400' => 'gra', 'Gorai.008G027600' => 'gra', 'Gorai.009G085400' => 'gra', 'Gorai.009G085500' => 'gra', 'Gorai.013G039000' => 'gra', 'Gorai.013G194800' => 'gra', 'Gorai.013G257900' => 'gra', 'GSVIVG01000982001' => 'vvi', 'GSVIVG01017981001' => 'vvi', 'HanXRQChr01g0024061' => 'han', 'HanXRQChr09g0247831' => 'han', 'HanXRQChr10g0294611' => 'han', 'HanXRQChr10g0294621' => 'han', 'HanXRQChr11g0346821' => 'han', 'HanXRQChr13g0397461' => 'han', 'HanXRQChr16g0513651' => 'han', 'HanXRQChr16g0513701' => 'han', 'Haze_00897' => 'cav', 'Haze_01745' => 'cav', 'Haze_02486' => 'cav', 'Haze_02487' => 'cav', 'Haze_23374' => 'cav', 'Hma1.2p1_0578F.1_g182520' => 'hma', 'Hma1.2p1_0602F.1_g187350' => 'hma', 'Hma1.2p1_0602F.1_g187360' => 'hma', 'Hma1.2p1_0874F.1_g231320' => 'hma', 'Hma1.2p1_1197F.1_g266210' => 'hma', 'Hma1.2p1_1197F.1_g266220' => 'hma', 'Hma1.2p1_2167F.1_g315895' => 'hma', 'Hma1.2p1_2190F.1_g316640' => 'hma', 'Hma1.2p1_3645F.1_g337153' => 'hma', 'HPP92_004907' => 'vpl', 'HPP92_012134' => 'vpl', 'HPP92_025136' => 'vpl', 'HPP92_026087' => 'vpl', 'Hund06782' => 'sun', 'Hund06784' => 'sun', 'Lalb_Chr01g0004861' => 'lal', 'Lalb_Chr02g0140591' => 'lal', 'Lalb_Chr02g0140611' => 'lal', 'Lalb_Chr03g0028101' => 'lal', 'Lalb_Chr07g0185791' => 'lal', 'Lalb_Chr12g0204491' => 'lal', 'Lalb_Chr13g0295671' => 'lal', 'Lalb_Chr19g0136461' => 'lal', 'Lalb_Chr21g0309191' => 'lal', 'Lj1g0028158' => 'lja', 'Lj1P236T38' => 'lonja', 'Lj2C32G2' => 'lonja', 'Lj2P944T8' => 'lonja', 'Lj2P963T15' => 'lonja', 'Lj3g0011788' => 'lja', 'Lj4g0025027' => 'lja', 'Lj5P255T36' => 'lonja', 'Lj6g0018866' => 'lja', 'Lj6P608T31' => 'lonja', 'LjContig00408g0008879' => 'lja', 'Lsat_1_v5_gn_5_105820' => 'lsa', 'Lsat_1_v5_gn_6_38800' => 'lsa', 'Lsat_1_v5_gn_7_67141' => 'lsa', 'Manes.04G003400' => 'mes', 'Manes.07G020000' => 'mes', 'Manes.07G020100' => 'mes', 'Manes.07G020150' => 'mes', 'Manes.10G061500' => 'mes', 'Manes.10G123200' => 'mes', 'Manes.11G161900' => 'mes', 'Manes.15G029300' => 'mes', 'Mapoly0071s0018' => 'mpo', 'Mapoly0082s0023' => 'mpo', 'Mapoly3477s0001' => 'mpo', 'MBI05_g31233_MAGBIO' => 'mbi', 'MBI09_g05946_MAGBIO' => 'mbi', 'MBI09_g05947_MAGBIO' => 'mbi', 'MBI17_g08346_MAGBIO' => 'mbi', 'MCO04G038' => 'mco', 'MCO09G370' => 'mco', 'MCO13G605' => 'mco', 'MD00G1075500' => 'mdo', 'MD03G1144300' => 'mdo', 'MD08G1236800' => 'mdo', 'MD13G1193300' => 'mdo', 'MD15G1428700' => 'mdo', 'Medtr1g112030' => 'mtr', 'Medtr1g112050' => 'mtr', 'Medtr2g006290' => 'mtr', 'Medtr2g086510' => 'mtr', 'Medtr4g053120' => 'mtr', 'Medtr5g006320' => 'mtr', 'Medtr8g088720' => 'mtr', 'MELO3C004712.2' => 'cme', 'MELO3C006533.2' => 'cme', 'MELO3C019438.2' => 'cme', 'MELO3C019440.2' => 'cme', 'MELO3C019441.2' => 'cme', 'MELO3C019895.2' => 'cme', 'Migut.B00811' => 'egut', 'Migut.D02447' => 'egut', 'Migut.F00875' => 'egut', 'Migut.N00186' => 'egut', 'Migut.N01051' => 'egut', 'Migut.N02491' => 'egut', 'Migut.O00784' => 'egut', 'MSTRG.12367' => 'ama', 'MSTRG.18756' => 'ama', 'MSTRG.21042' => 'ama', 'Nitab4.5_0000559g0040' => 'nta', 'Nitab4.5_0000667g0190' => 'nta', 'Nitab4.5_0000755g0160' => 'nta', 'Nitab4.5_0001216g0080' => 'nta', 'Nitab4.5_0004069g0040' => 'nta', 'Nitab4.5_0004129g0010' => 'nta', 'Nitab4.5_0005744g0030' => 'nta', 'Nitab4.5_0006996g0030' => 'nta', 'Nitab4.5_0008971g0040' => 'nta', 'Nitab4.5_0009769g0020' => 'nta', 'Nitab4.5_0009833g0010' => 'nta', 'Nitab4.5_0013140g0020' => 'nta', 'Nn003s41376' => 'nnu', 'Nn1g01857' => 'nnu', 'Nn1g03611' => 'nnu', 'Nn1g06853' => 'nnu', 'Nn3g18360' => 'nnu', 'Nn4g26328' => 'nnu', 'Nn5g27531' => 'nnu', 'Nn6g34899' => 'nnu', 'Nn7g36299' => 'nnu', 'Oeu021485.1' => 'oeu', 'Oeu022433.1' => 'oeu', 'Oeu032111.1' => 'oeu', 'Oeu051608.1' => 'oeu', 'Os01g0860601' => 'osa', 'Os03g0659200' => 'osa', 'Os03g0835900' => 'osa', 'Os04g0412200' => 'osa', 'Os05g0443500' => 'osa', 'Os07g0251500' => 'osa', 'Os08g0104600' => 'osa', 'Peaxi162Scf00003g00047' => 'pax', 'Peaxi162Scf00003g00052' => 'pax', 'Peaxi162Scf00003g00394' => 'pax', 'Peaxi162Scf00091g00621' => 'pax', 'Peaxi162Scf00152g00146' => 'pax', 'Peaxi162Scf00173g00025' => 'pax', 'Peaxi162Scf00195g00102' => 'pax', 'Peaxi162Scf00402g00013' => 'pax', 'Peaxi162Scf00519g00618' => 'pax', 'PGR004G2838' => 'pgr', 'PGR044G2275' => 'pgr', 'PGR102G1377' => 'pgr', 'PGR119G1245' => 'pgr', 'PGR142G4449' => 'pgr', 'PGSC0003DMG400004532' => 'stu', 'PGSC0003DMG400011950' => 'stu', 'PGSC0003DMG400023391' => 'stu', 'PGSC0003DMG400023985' => 'stu', 'PGSC0003DMG400026360' => 'stu', 'PGSC0003DMG400035711' => 'stu', 'PGSC0003DMG400037286' => 'stu', 'PGSC0003DMG402005881' => 'stu', 'Phvul.002G045400' => 'pvu', 'Phvul.006G216600' => 'pvu', 'Phvul.006G216700' => 'pvu', 'Phvul.006G216800' => 'pvu', 'Phvul.007G022500' => 'pvu', 'Phvul.011G094400' => 'pvu', 'Potri.001G470700' => 'ptr', 'Potri.003G015200' => 'ptr', 'Potri.004G202500' => 'ptr', 'Potri.004G218400' => 'ptr', 'Potri.008G020100' => 'ptr', 'Potri.008G153200' => 'ptr', 'Potri.009G163800' => 'ptr', 'Potri.010G087300' => 'ptr', 'Potri.010G239100' => 'ptr', 'Pp3c10_16100' => 'ppa', 'Pp3c10_16880' => 'ppa', 'Pp3c16_6230' => 'ppa', 'Pp3c17_18910' => 'ppa', 'Pp3c3_22119' => 'ppa', 'Pp3c3_22140' => 'ppa', 'Pp3c4_8159' => 'ppa', 'Pp3c4_8171' => 'ppa', 'Pp3c4_8330' => 'ppa', 'PRCOL_00004098' => 'pco', 'Prupe.1G013900' => 'ppe', 'Prupe.1G226300' => 'ppe', 'Prupe.1G573600' => 'ppe', 'Prupe.6G130100' => 'ppe', 'Psat3g090040' => 'psa', 'Psat4g210440' => 'psa', 'Psat6g231040' => 'psa', 'Psat6g231080' => 'psa', 'Psat7g063000' => 'psa', 'Psat7g188000' => 'psa', 'Psat7g188040' => 'psa', 'PSO017G0206' => 'pso', 'PSO170G0501' => 'pso', 'PSO170G6422' => 'pso', 'PSO210G7739' => 'pso', 'PSO339G1808' => 'pso', 'PSO339G6135' => 'pso', 'PSO384G0010' => 'pso', 'PSO384G0964' => 'pso', 'PSO761G0050' => 'pso', 'PSO782G4085' => 'pso', 'QL01p012264' => 'qlo', 'QL02p099491' => 'qlo', 'QL03p033868' => 'qlo', 'QL04p046678' => 'qlo', 'QL06p002448' => 'qlo', 'RcHm_v2.0_Chr4g0416181' => 'rch', 'RcHm_v2.0_Chr5g0044701' => 'rch', 'RcHm_v2.0_Chr6g0265781' => 'rch', 'RcHm_v2.0_Chr7g0221031' => 'rch', 'Rhsim04G0202000' => 'rsi', 'Rhsim11G0127300' => 'rsi', 'Rhsim13G0111800' => 'rsi', 'Sabra01G0165600' => 'sbr', 'Sabra03G0008300' => 'sbr', 'Sabra04G0136900' => 'sbr', 'Sabra08G0013400' => 'sbr', 'Sabra08G0116800' => 'sbr', 'Sabra09G0128000' => 'sbr', 'Sabra10G0055500' => 'sbr', 'Sabra10G0073300' => 'sbr', 'SalBow3G0385' => 'sbo', 'SalBow3G1119' => 'sbo', 'SalBow3G2005' => 'sbo', 'SalBow6G2563' => 'sbo', 'SalBow6G6386' => 'sbo', 'Sc06g0008800' => 'sci', 'Sc07g0004950' => 'sci', 'Sc09g0005340' => 'sci', 'Sc13g0004410' => 'sci', 'Sc21g0007090' => 'sci', 'Sed0009285' => 'sed', 'Sed0017583' => 'sed', 'Sed0019699' => 'sed', 'Sed0023107' => 'sed', 'SEGI_10916' => 'sgi', 'SEGI_16217' => 'sgi', 'SEGI_19466' => 'sgi', 'SEGI_41115' => 'sgi', 'SGA_v2.0_scaffold111G31534' => 'sas', 'SGA_v2.0_scaffold22G09864' => 'sas', 'SGA_v2.0_scaffold338G49219' => 'sas', 'SGA_v2.0_scaffold92G28298' => 'sas', 'SMO119G0064' => 'smo', 'SMO223G0038' => 'smo', 'SMO347G0584' => 'smo', 'SMO351G0010' => 'smo', 'SMO356G0404' => 'smo', 'Solyc01g103920.3' => 'sly', 'Solyc04g009710.2' => 'sly', 'Solyc05g055280.2' => 'sly', 'Solyc10g044520.3' => 'sly', 'Solyc10g075160.1' => 'sly', 'Solyc11g006910.3' => 'sly', 'Solyc11g068430.3' => 'sly', 'Sopen01g046310' => 'spe', 'Sopen03g001200' => 'spe', 'Sopen04g004830' => 'spe', 'Sopen05g033720' => 'spe', 'Sopen06g030740' => 'spe', 'Sopen10g013090' => 'spe', 'Sopen10g027630' => 'spe', 'Sopen10g027640' => 'spe', 'Sopen11g002820' => 'spe', 'Sopen11g027140' => 'spe', 'Sp1g09680' => 'spa', 'Sp2g03630' => 'spa', 'Sp4g10320' => 'spa', 'Sp6g33400' => 'spa', 'Sp7g13030' => 'spa', 'TAR365G0317' => 'tar', 'TAR376G0979' => 'tar', 'TAR623G1665' => 'tar', 'TAR633G2373' => 'tar', 'TAR636G1400' => 'tar', 'THA.LOC104800529' => 'tha', 'THA.LOC104808547' => 'tha', 'THA.LOC104809615' => 'tha', 'THA.LOC104815724' => 'tha', 'THA.LOC104818480' => 'tha', 'THA.LOC104819179' => 'tha', 'THA.LOC104822270' => 'tha', 'THA.LOC104826425' => 'tha', 'Thecc.02G089700' => 'tca', 'Thecc.04G232300' => 'tca', 'Thecc.09G283400' => 'tca', 'Thhalv10009020m.g' => 'esa', 'Thhalv10015506m.g' => 'esa', 'Thhalv10017364m.g' => 'esa', 'Thhalv10023742m.g' => 'esa', 'Thhalv10026483m.g' => 'esa', 'TPR.G17232' => 'tpr', 'TPR.G2133' => 'tpr', 'TPR.G2498' => 'tpr', 'TPR.G31942' => 'tpr', 'TPR.G37877' => 'tpr', 'TPR.G4571' => 'tpr', 'TWI14G1113' => 'twi', 'TWI15G0426' => 'twi', 'TWI31G1005' => 'twi', 'TWI38G0513' => 'twi', 'TWI38G1484' => 'twi', 'TWI73G1098' => 'twi', 'unitig_26.g10519' => 'ugi', 'unitig_736.g22395' => 'ugi', 'unitig_747.g21234' => 'ugi', 'unitig_747.g21942' => 'ugi', 'vmacro14351' => 'vma', 'VMungo0540G0082' => 'vmu', 'VMungo0540G0405' => 'vmu', 'VMungo0540G1486' => 'vmu', 'VMungo0540G1692' => 'vmu', 'VMungo0720G2473' => 'vmu', 'VMungo1127G1562' => 'vmu', 'VMungo1215G1918' => 'vmu', 'Zm00001eb052650' => 'zma', 'Zm00001eb063710' => 'zma', 'Zm00001eb083950' => 'zma', 'Zm00001eb174420' => 'zma', 'Zm00001eb260140' => 'zma', 'Zm00001eb260150' => 'zma', 'Zm00001eb260160' => 'zma', 'Zm00001eb348290' => 'zma', 'Zm00001eb366870' => 'zma', 'Zm00001eb421930' => 'zma' ) $gf_id = 'HOM05D001025' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001025' ) $data_identifier = 'HOM05D001025' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 19, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 2, 'amhyb' => (int) 4, 'aly' => (int) 4, 'aox' => (int) 4, 'arhy' => (int) 3, 'ath' => (int) 5, 'atr' => (int) 4, 'acertr' => (int) 3, 'cqu' => (int) 7, 'bca' => (int) 17, 'bol' => (int) 10, 'bra' => (int) 9, 'can' => (int) 10, 'cansat' => (int) 6, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 5, 'cbr' => (int) 5, 'ccan' => (int) 5, 'cde' => (int) 4, 'cfa' => (int) 3, 'ccl' => (int) 6, 'cil' => (int) 4, 'cla' => (int) 3, 'col' => (int) 3, 'cpa' => (int) 3, 'cre' => (int) 7, 'csa' => (int) 5, 'camsi' => (int) 9, 'dca' => (int) 4, 'din' => (int) 5, 'dzi' => (int) 7, 'eca' => (int) 6, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 12, 'fve' => (int) 4, 'gma' => (int) 12, 'ghi' => (int) 17, 'gra' => (int) 9, 'vvi' => (int) 2, 'han' => (int) 8, 'cav' => (int) 5, 'hma' => (int) 9, 'vpl' => (int) 4, 'sun' => (int) 2, 'lal' => (int) 9, 'lja' => (int) 5, 'lonja' => (int) 6, 'lsa' => (int) 3, 'mes' => (int) 8, 'mpo' => (int) 3, 'mbi' => (int) 4, 'mco' => (int) 3, 'mdo' => (int) 5, 'mtr' => (int) 7, 'cme' => (int) 6, 'egut' => (int) 7, 'ama' => (int) 3, 'nta' => (int) 12, 'nnu' => (int) 9, 'oeu' => (int) 4, 'osa' => (int) 7, 'pax' => (int) 9, 'pgr' => (int) 5, 'stu' => (int) 8, 'pvu' => (int) 6, 'ptr' => (int) 9, 'ppa' => (int) 9, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 7, 'pso' => (int) 10, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 3, 'sbr' => (int) 8, 'sbo' => (int) 5, 'sci' => (int) 5, 'sed' => (int) 4, 'sgi' => (int) 4, 'sas' => (int) 4, 'smo' => (int) 5, 'sly' => (int) 7, 'spe' => (int) 10, 'spa' => (int) 5, 'tar' => (int) 5, 'tha' => (int) 8, 'tca' => (int) 3, 'esa' => (int) 5, 'tpr' => (int) 6, 'twi' => (int) 6, 'ugi' => (int) 4, 'vma' => (int) 1, 'vmu' => (int) 7, 'zma' => (int) 10 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb421930' $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' => 'HOM05D001025', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '592', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p22650' => 'bna', 'A01p29720' => 'bna', 'A03p26560' => 'bna', 'A03p68820' => 'bna', 'A04p20980' => 'bna', 'A06p07730' => 'bna', 'A07p18260' => 'bna', 'A08p33710' => 'bna', 'A09p16970' => 'bna', 'A10p27490' => 'bna', 'Aa31LG1G17300' => 'aar', 'Aa31LG1G3910' => 'aar', 'Aa31LG2G9630' => 'aar', 'Aa31LG5G8360' => 'aar', 'Aa31LG9G2410' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4699' => 'aag', 'Actinidia23512' => 'ach', 'Actinidia37080' => 'ach', 'Ah.01g020380' => 'amhyb', 'Ah.08g215710' => 'amhyb', 'Ah.09g225110' => 'amhyb', 'Ah.10g036680' => 'amhyb', 'AL1G21940' => 'aly', 'AL2G15540' => 'aly', 'AL4G21520' => 'aly', 'AL7G40960' => 'aly', 'Aqoxy2G01191' => 'aox', 'Aqoxy2G03393' => 'aox', 'Aqoxy4G02775' => 'aox', 'Aqoxy6G00058' => 'aox', 'arahy.Tifrunner.gnm1.ann1.9X74H2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CW3FX9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R485W7' => 'arhy', 'AT1G10960' => 'ath', 'AT1G60950' => 'ath', 'AT2G27510' => 'ath', 'AT4G14890' => 'ath', 'AT5G10000' => 'ath', 'ATR0665G624' => 'atr', 'ATR0697G138' => 'atr', 'ATR0776G046' => 'atr', 'ATR1134G135' => 'atr', 'Atru.chr12.1025' => 'acertr', 'Atru.chr3.3241' => 'acertr', 'Atru.chr4.2460' => 'acertr', 'AUR62007427' => 'cqu', 'AUR62010960' => 'cqu', 'AUR62012201' => 'cqu', 'AUR62021470' => 'cqu', 'AUR62022834' => 'cqu', 'AUR62033635' => 'cqu', 'AUR62036186' => 'cqu', 'BcaB01g03077' => 'bca', 'BcaB02g10093' => 'bca', 'BcaB04g20295' => 'bca', 'BcaB06g28147' => 'bca', 'BcaB07g31253' => 'bca', 'BcaC01g04946' => 'bca', 'BcaC02g10614' => 'bca', 'BcaC02g10885' => 'bca', 'BcaC04g19356' => 'bca', 'BcaC04g22297' => 'bca', 'BcaC05g24977' => 'bca', 'BcaC06g31823' => 'bca', 'BcaC07g38633' => 'bca', 'BcaC09g49353' => 'bca', 'BcaC09g50168' => 'bca', 'BcaNung00322' => 'bca', 'BcaNung04769' => 'bca', 'BolC1t02753H' => 'bol', 'BolC1t03721H' => 'bol', 'BolC3t15525H' => 'bol', 'BolC4t23903H' => 'bol', 'BolC4t24231H' => 'bol', 'BolC4t27209H' => 'bol', 'BolC5t29671H' => 'bol', 'BolC8t49044H' => 'bol', 'BolC9t54999H' => 'bol', 'BolC9t59517H' => 'bol', 'BraA01t02178Z' => 'bra', 'BraA01t03099Z' => 'bra', 'BraA03t11867Z' => 'bra', 'BraA04t17667Z' => 'bra', 'BraA07t29542Z' => 'bra', 'BraA08t35287Z' => 'bra', 'BraA09t37334Z' => 'bra', 'BraA10t44801Z' => 'bra', 'BraSC39t46181Z' => 'bra', 'C01p28240' => 'bna', 'C01p37530' => 'bna', 'C03p31820' => 'bna', 'C04p24080' => 'bna', 'C04p25790' => 'bna', 'C04p56770' => 'bna', 'C05p09310' => 'bna', 'C09p21010' => 'bna', 'C09p67560' => 'bna', 'CAN.G1324.7' => 'can', 'CAN.G1358.10' => 'can', 'CAN.G1550.2' => 'can', 'CAN.G186.56' => 'can', 'CAN.G1965.1' => 'can', 'CAN.G645.15' => 'can', 'CAN.G798.26' => 'can', 'CAN.G798.27' => 'can', 'CAN.G798.29' => 'can', 'CAN.G919.31' => 'can', 'CANSAT11G0133' => 'cansat', 'CANSAT11G1171' => 'cansat', 'CANSAT11G2056' => 'cansat', 'CANSAT56G1202' => 'cansat', 'CANSAT56G1514' => 'cansat', 'CANSAT78G0455' => 'cansat', 'CARHR011190' => 'chi', 'CARHR051980' => 'chi', 'CARHR120170' => 'chi', 'CARHR203310' => 'chi', 'CARHR221490' => 'chi', 'Carub.0001s1054' => 'cru', 'Carub.0002s0431' => 'cru', 'Carub.0004s0818' => 'cru', 'Carub.0006s0846' => 'cru', 'Carub.0007s2722' => 'cru', 'Ca_00058_v3' => 'car', 'Ca_17831_v3' => 'car', 'Ca_19408_v3' => 'car', 'Ca_24397_v3' => 'car', 'Ca_25664_v3' => 'car', 'CBR_g21818' => 'cbr', 'CBR_g31195' => 'cbr', 'CBR_g32282' => 'cbr', 'CBR_g39599' => 'cbr', 'CBR_g49410' => 'cbr', 'Cc01_g09120' => 'ccan', 'Cc01_g09130' => 'ccan', 'Cc02_g09630' => 'ccan', 'Cc02_g22810' => 'ccan', 'Cc03_g03810' => 'ccan', 'CDE02G3718' => 'cde', 'CDE04G3183' => 'cde', 'CDE07G1046' => 'cde', 'CDE08G0480' => 'cde', 'Cfa005493' => 'cfa', 'Cfa010312' => 'cfa', 'Cfa015648' => 'cfa', 'Ciclev10002793m.g' => 'ccl', 'Ciclev10003356m.g' => 'ccl', 'Ciclev10006141m.g' => 'ccl', 'Ciclev10016676m.g' => 'ccl', 'Ciclev10017081m.g' => 'ccl', 'Ciclev10029499m.g' => 'ccl', 'CiPaw.01G166300' => 'cil', 'CiPaw.06G145600' => 'cil', 'CiPaw.13G040100' => 'cil', 'CiPaw.13G135800' => 'cil', 'ClCG01G012230' => 'cla', 'ClCG05G009510' => 'cla', 'ClCG08G008270' => 'cla', 'COL.COLO4_11763' => 'col', 'COL.COLO4_19876' => 'col', 'COL.COLO4_21481' => 'col', 'Cpa.g.sc118.34' => 'cpa', 'Cpa.g.sc32.13' => 'cpa', 'Cpa.g.sc58.103' => 'cpa', 'Cre03.g183850' => 'cre', 'Cre06.g306350' => 'cre', 'Cre07.g334800' => 'cre', 'Cre12.g487900' => 'cre', 'Cre14.g626700' => 'cre', 'Cre16.g658400' => 'cre', 'Cre17.g700950' => 'cre', 'CsaV3_1G014830' => 'csa', 'CsaV3_3G013320' => 'csa', 'CsaV3_3G019210' => 'csa', 'CsaV3_3G019220' => 'csa', 'CsaV3_6G004230' => 'csa', 'CSS0003773' => 'camsi', 'CSS0004563' => 'camsi', 'CSS0013949' => 'camsi', 'CSS0025971' => 'camsi', 'CSS0028570' => 'camsi', 'CSS0033127' => 'camsi', 'CSS0036051' => 'camsi', 'CSS0040087' => 'camsi', 'CSS0043179' => 'camsi', 'DCAR_006161' => 'dca', 'DCAR_010351' => 'dca', 'DCAR_012197' => 'dca', 'DCAR_024162' => 'dca', 'Dinv01030' => 'din', 'Dinv10924' => 'din', 'Dinv11835' => 'din', 'Dinv22841' => 'din', 'Dinv42553' => 'din', 'Duzib052G0560' => 'dzi', 'Duzib132G0389' => 'dzi', 'Duzib150G1181' => 'dzi', 'Duzib168G0623' => 'dzi', 'Duzib170G1036' => 'dzi', 'Duzib212G0200' => 'dzi', 'Duzib248G0194' => 'dzi', 'ECA232G2193' => 'eca', 'ECA233G0302' => 'eca', 'ECA234G2813' => 'eca', 'ECA234G4866' => 'eca', 'ECA240G3932' => 'eca', 'ECA248G0385' => 'eca', 'EL10Ac2g04781' => 'bvu', 'EL10Ac3g06445' => 'bvu', 'EL10Ac7g15825' => 'bvu', 'EL10Ac8g18550' => 'bvu', 'Eucgr.B03849' => 'egr', 'Eucgr.I02744' => 'egr', 'Eucgr.J00264' => 'egr', 'Eucgr.J00493' => 'egr', 'FAN04G2181' => 'fan', 'FAN07G2666' => 'fan', 'FAN11G0024' => 'fan', 'FAN12G1105' => 'fan', 'FAN13G0302' => 'fan', 'FAN15G2781' => 'fan', 'FAN16G1274' => 'fan', 'FAN17G2988' => 'fan', 'FAN18G2621' => 'fan', 'FAN21G0013' => 'fan', 'FAN22G1211' => 'fan', 'FAN25G3626' => 'fan', 'FvH4_2g09491' => 'fve', 'FvH4_3g24910' => 'fve', 'FvH4_4g15630' => 'fve', 'FvH4_5g28820' => 'fve', 'Glyma.01G238000' => 'gma', 'Glyma.05G168400' => 'gma', 'Glyma.08G126800' => 'gma', 'Glyma.08G188500' => 'gma', 'Glyma.10G278900' => 'gma', 'Glyma.11G005700' => 'gma', 'Glyma.11G183300' => 'gma', 'Glyma.12G089200' => 'gma', 'Glyma.12G169400' => 'gma', 'Glyma.12G169500' => 'gma', 'Glyma.12G169600' => 'gma', 'Glyma.20G110800' => 'gma', 'Gohir.A03G192900' => 'ghi', 'Gohir.A03G193000' => 'ghi', 'Gohir.A05G080700' => 'ghi', 'Gohir.A09G216000' => 'ghi', 'Gohir.A12G027700' => 'ghi', 'Gohir.A13G036200' => 'ghi', 'Gohir.A13G222600' => 'ghi', 'Gohir.D02G213900' => 'ghi', 'Gohir.D02G214000' => 'ghi', 'Gohir.D05G083700' => 'ghi', 'Gohir.D05G083800' => 'ghi', 'Gohir.D05G083850' => 'ghi', 'Gohir.D08G015400' => 'ghi', 'Gohir.D09G218400' => 'ghi', 'Gohir.D12G027100' => 'ghi', 'Gohir.D13G034500' => 'ghi', 'Gohir.D13G227400' => 'ghi', 'Gorai.005G241800' => 'gra', 'Gorai.005G241900' => 'gra', 'Gorai.006G239400' => 'gra', 'Gorai.008G027600' => 'gra', 'Gorai.009G085400' => 'gra', 'Gorai.009G085500' => 'gra', 'Gorai.013G039000' => 'gra', 'Gorai.013G194800' => 'gra', 'Gorai.013G257900' => 'gra', 'GSVIVG01000982001' => 'vvi', 'GSVIVG01017981001' => 'vvi', 'HanXRQChr01g0024061' => 'han', 'HanXRQChr09g0247831' => 'han', 'HanXRQChr10g0294611' => 'han', 'HanXRQChr10g0294621' => 'han', 'HanXRQChr11g0346821' => 'han', 'HanXRQChr13g0397461' => 'han', 'HanXRQChr16g0513651' => 'han', 'HanXRQChr16g0513701' => 'han', 'Haze_00897' => 'cav', 'Haze_01745' => 'cav', 'Haze_02486' => 'cav', 'Haze_02487' => 'cav', 'Haze_23374' => 'cav', 'Hma1.2p1_0578F.1_g182520' => 'hma', 'Hma1.2p1_0602F.1_g187350' => 'hma', 'Hma1.2p1_0602F.1_g187360' => 'hma', 'Hma1.2p1_0874F.1_g231320' => 'hma', 'Hma1.2p1_1197F.1_g266210' => 'hma', 'Hma1.2p1_1197F.1_g266220' => 'hma', 'Hma1.2p1_2167F.1_g315895' => 'hma', 'Hma1.2p1_2190F.1_g316640' => 'hma', 'Hma1.2p1_3645F.1_g337153' => 'hma', 'HPP92_004907' => 'vpl', 'HPP92_012134' => 'vpl', 'HPP92_025136' => 'vpl', 'HPP92_026087' => 'vpl', 'Hund06782' => 'sun', 'Hund06784' => 'sun', 'Lalb_Chr01g0004861' => 'lal', 'Lalb_Chr02g0140591' => 'lal', 'Lalb_Chr02g0140611' => 'lal', 'Lalb_Chr03g0028101' => 'lal', 'Lalb_Chr07g0185791' => 'lal', 'Lalb_Chr12g0204491' => 'lal', 'Lalb_Chr13g0295671' => 'lal', 'Lalb_Chr19g0136461' => 'lal', 'Lalb_Chr21g0309191' => 'lal', 'Lj1g0028158' => 'lja', 'Lj1P236T38' => 'lonja', 'Lj2C32G2' => 'lonja', 'Lj2P944T8' => 'lonja', 'Lj2P963T15' => 'lonja', 'Lj3g0011788' => 'lja', 'Lj4g0025027' => 'lja', 'Lj5P255T36' => 'lonja', 'Lj6g0018866' => 'lja', 'Lj6P608T31' => 'lonja', 'LjContig00408g0008879' => 'lja', 'Lsat_1_v5_gn_5_105820' => 'lsa', 'Lsat_1_v5_gn_6_38800' => 'lsa', 'Lsat_1_v5_gn_7_67141' => 'lsa', 'Manes.04G003400' => 'mes', 'Manes.07G020000' => 'mes', 'Manes.07G020100' => 'mes', 'Manes.07G020150' => 'mes', 'Manes.10G061500' => 'mes', 'Manes.10G123200' => 'mes', 'Manes.11G161900' => 'mes', 'Manes.15G029300' => 'mes', 'Mapoly0071s0018' => 'mpo', 'Mapoly0082s0023' => 'mpo', 'Mapoly3477s0001' => 'mpo', 'MBI05_g31233_MAGBIO' => 'mbi', 'MBI09_g05946_MAGBIO' => 'mbi', 'MBI09_g05947_MAGBIO' => 'mbi', 'MBI17_g08346_MAGBIO' => 'mbi', 'MCO04G038' => 'mco', 'MCO09G370' => 'mco', 'MCO13G605' => 'mco', 'MD00G1075500' => 'mdo', 'MD03G1144300' => 'mdo', 'MD08G1236800' => 'mdo', 'MD13G1193300' => 'mdo', 'MD15G1428700' => 'mdo', 'Medtr1g112030' => 'mtr', 'Medtr1g112050' => 'mtr', 'Medtr2g006290' => 'mtr', 'Medtr2g086510' => 'mtr', 'Medtr4g053120' => 'mtr', 'Medtr5g006320' => 'mtr', 'Medtr8g088720' => 'mtr', 'MELO3C004712.2' => 'cme', 'MELO3C006533.2' => 'cme', 'MELO3C019438.2' => 'cme', 'MELO3C019440.2' => 'cme', 'MELO3C019441.2' => 'cme', 'MELO3C019895.2' => 'cme', 'Migut.B00811' => 'egut', 'Migut.D02447' => 'egut', 'Migut.F00875' => 'egut', 'Migut.N00186' => 'egut', 'Migut.N01051' => 'egut', 'Migut.N02491' => 'egut', 'Migut.O00784' => 'egut', 'MSTRG.12367' => 'ama', 'MSTRG.18756' => 'ama', 'MSTRG.21042' => 'ama', 'Nitab4.5_0000559g0040' => 'nta', 'Nitab4.5_0000667g0190' => 'nta', 'Nitab4.5_0000755g0160' => 'nta', 'Nitab4.5_0001216g0080' => 'nta', 'Nitab4.5_0004069g0040' => 'nta', 'Nitab4.5_0004129g0010' => 'nta', 'Nitab4.5_0005744g0030' => 'nta', 'Nitab4.5_0006996g0030' => 'nta', 'Nitab4.5_0008971g0040' => 'nta', 'Nitab4.5_0009769g0020' => 'nta', 'Nitab4.5_0009833g0010' => 'nta', 'Nitab4.5_0013140g0020' => 'nta', 'Nn003s41376' => 'nnu', 'Nn1g01857' => 'nnu', 'Nn1g03611' => 'nnu', 'Nn1g06853' => 'nnu', 'Nn3g18360' => 'nnu', 'Nn4g26328' => 'nnu', 'Nn5g27531' => 'nnu', 'Nn6g34899' => 'nnu', 'Nn7g36299' => 'nnu', 'Oeu021485.1' => 'oeu', 'Oeu022433.1' => 'oeu', 'Oeu032111.1' => 'oeu', 'Oeu051608.1' => 'oeu', 'Os01g0860601' => 'osa', 'Os03g0659200' => 'osa', 'Os03g0835900' => 'osa', 'Os04g0412200' => 'osa', 'Os05g0443500' => 'osa', 'Os07g0251500' => 'osa', 'Os08g0104600' => 'osa', 'Peaxi162Scf00003g00047' => 'pax', 'Peaxi162Scf00003g00052' => 'pax', 'Peaxi162Scf00003g00394' => 'pax', 'Peaxi162Scf00091g00621' => 'pax', 'Peaxi162Scf00152g00146' => 'pax', 'Peaxi162Scf00173g00025' => 'pax', 'Peaxi162Scf00195g00102' => 'pax', 'Peaxi162Scf00402g00013' => 'pax', 'Peaxi162Scf00519g00618' => 'pax', 'PGR004G2838' => 'pgr', 'PGR044G2275' => 'pgr', 'PGR102G1377' => 'pgr', 'PGR119G1245' => 'pgr', 'PGR142G4449' => 'pgr', 'PGSC0003DMG400004532' => 'stu', 'PGSC0003DMG400011950' => 'stu', 'PGSC0003DMG400023391' => 'stu', 'PGSC0003DMG400023985' => 'stu', 'PGSC0003DMG400026360' => 'stu', 'PGSC0003DMG400035711' => 'stu', 'PGSC0003DMG400037286' => 'stu', 'PGSC0003DMG402005881' => 'stu', 'Phvul.002G045400' => 'pvu', 'Phvul.006G216600' => 'pvu', 'Phvul.006G216700' => 'pvu', 'Phvul.006G216800' => 'pvu', 'Phvul.007G022500' => 'pvu', 'Phvul.011G094400' => 'pvu', 'Potri.001G470700' => 'ptr', 'Potri.003G015200' => 'ptr', 'Potri.004G202500' => 'ptr', 'Potri.004G218400' => 'ptr', 'Potri.008G020100' => 'ptr', 'Potri.008G153200' => 'ptr', 'Potri.009G163800' => 'ptr', 'Potri.010G087300' => 'ptr', 'Potri.010G239100' => 'ptr', 'Pp3c10_16100' => 'ppa', 'Pp3c10_16880' => 'ppa', 'Pp3c16_6230' => 'ppa', 'Pp3c17_18910' => 'ppa', 'Pp3c3_22119' => 'ppa', 'Pp3c3_22140' => 'ppa', 'Pp3c4_8159' => 'ppa', 'Pp3c4_8171' => 'ppa', 'Pp3c4_8330' => 'ppa', 'PRCOL_00004098' => 'pco', 'Prupe.1G013900' => 'ppe', 'Prupe.1G226300' => 'ppe', 'Prupe.1G573600' => 'ppe', 'Prupe.6G130100' => 'ppe', 'Psat3g090040' => 'psa', 'Psat4g210440' => 'psa', 'Psat6g231040' => 'psa', 'Psat6g231080' => 'psa', 'Psat7g063000' => 'psa', 'Psat7g188000' => 'psa', 'Psat7g188040' => 'psa', 'PSO017G0206' => 'pso', 'PSO170G0501' => 'pso', 'PSO170G6422' => 'pso', 'PSO210G7739' => 'pso', 'PSO339G1808' => 'pso', 'PSO339G6135' => 'pso', 'PSO384G0010' => 'pso', 'PSO384G0964' => 'pso', 'PSO761G0050' => 'pso', 'PSO782G4085' => 'pso', 'QL01p012264' => 'qlo', 'QL02p099491' => 'qlo', 'QL03p033868' => 'qlo', 'QL04p046678' => 'qlo', 'QL06p002448' => 'qlo', 'RcHm_v2.0_Chr4g0416181' => 'rch', 'RcHm_v2.0_Chr5g0044701' => 'rch', 'RcHm_v2.0_Chr6g0265781' => 'rch', 'RcHm_v2.0_Chr7g0221031' => 'rch', 'Rhsim04G0202000' => 'rsi', 'Rhsim11G0127300' => 'rsi', 'Rhsim13G0111800' => 'rsi', 'Sabra01G0165600' => 'sbr', 'Sabra03G0008300' => 'sbr', 'Sabra04G0136900' => 'sbr', 'Sabra08G0013400' => 'sbr', 'Sabra08G0116800' => 'sbr', 'Sabra09G0128000' => 'sbr', 'Sabra10G0055500' => 'sbr', 'Sabra10G0073300' => 'sbr', 'SalBow3G0385' => 'sbo', 'SalBow3G1119' => 'sbo', 'SalBow3G2005' => 'sbo', 'SalBow6G2563' => 'sbo', 'SalBow6G6386' => 'sbo', 'Sc06g0008800' => 'sci', 'Sc07g0004950' => 'sci', 'Sc09g0005340' => 'sci', 'Sc13g0004410' => 'sci', 'Sc21g0007090' => 'sci', 'Sed0009285' => 'sed', 'Sed0017583' => 'sed', 'Sed0019699' => 'sed', 'Sed0023107' => 'sed', 'SEGI_10916' => 'sgi', 'SEGI_16217' => 'sgi', 'SEGI_19466' => 'sgi', 'SEGI_41115' => 'sgi', 'SGA_v2.0_scaffold111G31534' => 'sas', 'SGA_v2.0_scaffold22G09864' => 'sas', 'SGA_v2.0_scaffold338G49219' => 'sas', 'SGA_v2.0_scaffold92G28298' => 'sas', 'SMO119G0064' => 'smo', 'SMO223G0038' => 'smo', 'SMO347G0584' => 'smo', 'SMO351G0010' => 'smo', 'SMO356G0404' => 'smo', 'Solyc01g103920.3' => 'sly', 'Solyc04g009710.2' => 'sly', 'Solyc05g055280.2' => 'sly', 'Solyc10g044520.3' => 'sly', 'Solyc10g075160.1' => 'sly', 'Solyc11g006910.3' => 'sly', 'Solyc11g068430.3' => 'sly', 'Sopen01g046310' => 'spe', 'Sopen03g001200' => 'spe', 'Sopen04g004830' => 'spe', 'Sopen05g033720' => 'spe', 'Sopen06g030740' => 'spe', 'Sopen10g013090' => 'spe', 'Sopen10g027630' => 'spe', 'Sopen10g027640' => 'spe', 'Sopen11g002820' => 'spe', 'Sopen11g027140' => 'spe', 'Sp1g09680' => 'spa', 'Sp2g03630' => 'spa', 'Sp4g10320' => 'spa', 'Sp6g33400' => 'spa', 'Sp7g13030' => 'spa', 'TAR365G0317' => 'tar', 'TAR376G0979' => 'tar', 'TAR623G1665' => 'tar', 'TAR633G2373' => 'tar', 'TAR636G1400' => 'tar', 'THA.LOC104800529' => 'tha', 'THA.LOC104808547' => 'tha', 'THA.LOC104809615' => 'tha', 'THA.LOC104815724' => 'tha', 'THA.LOC104818480' => 'tha', 'THA.LOC104819179' => 'tha', 'THA.LOC104822270' => 'tha', 'THA.LOC104826425' => 'tha', 'Thecc.02G089700' => 'tca', 'Thecc.04G232300' => 'tca', 'Thecc.09G283400' => 'tca', 'Thhalv10009020m.g' => 'esa', 'Thhalv10015506m.g' => 'esa', 'Thhalv10017364m.g' => 'esa', 'Thhalv10023742m.g' => 'esa', 'Thhalv10026483m.g' => 'esa', 'TPR.G17232' => 'tpr', 'TPR.G2133' => 'tpr', 'TPR.G2498' => 'tpr', 'TPR.G31942' => 'tpr', 'TPR.G37877' => 'tpr', 'TPR.G4571' => 'tpr', 'TWI14G1113' => 'twi', 'TWI15G0426' => 'twi', 'TWI31G1005' => 'twi', 'TWI38G0513' => 'twi', 'TWI38G1484' => 'twi', 'TWI73G1098' => 'twi', 'unitig_26.g10519' => 'ugi', 'unitig_736.g22395' => 'ugi', 'unitig_747.g21234' => 'ugi', 'unitig_747.g21942' => 'ugi', 'vmacro14351' => 'vma', 'VMungo0540G0082' => 'vmu', 'VMungo0540G0405' => 'vmu', 'VMungo0540G1486' => 'vmu', 'VMungo0540G1692' => 'vmu', 'VMungo0720G2473' => 'vmu', 'VMungo1127G1562' => 'vmu', 'VMungo1215G1918' => 'vmu', 'Zm00001eb052650' => 'zma', 'Zm00001eb063710' => 'zma', 'Zm00001eb083950' => 'zma', 'Zm00001eb174420' => 'zma', 'Zm00001eb260140' => 'zma', 'Zm00001eb260150' => 'zma', 'Zm00001eb260160' => 'zma', 'Zm00001eb348290' => 'zma', 'Zm00001eb366870' => 'zma', 'Zm00001eb421930' => 'zma' ), 'gf_id' => 'HOM05D001025', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001025' ), 'data_identifier' => 'HOM05D001025', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001025', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '592', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p22650' => 'bna', 'A01p29720' => 'bna', 'A03p26560' => 'bna', 'A03p68820' => 'bna', 'A04p20980' => 'bna', 'A06p07730' => 'bna', 'A07p18260' => 'bna', 'A08p33710' => 'bna', 'A09p16970' => 'bna', 'A10p27490' => 'bna', 'Aa31LG1G17300' => 'aar', 'Aa31LG1G3910' => 'aar', 'Aa31LG2G9630' => 'aar', 'Aa31LG5G8360' => 'aar', 'Aa31LG9G2410' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4699' => 'aag', 'Actinidia23512' => 'ach', 'Actinidia37080' => 'ach', 'Ah.01g020380' => 'amhyb', 'Ah.08g215710' => 'amhyb', 'Ah.09g225110' => 'amhyb', 'Ah.10g036680' => 'amhyb', 'AL1G21940' => 'aly', 'AL2G15540' => 'aly', 'AL4G21520' => 'aly', 'AL7G40960' => 'aly', 'Aqoxy2G01191' => 'aox', 'Aqoxy2G03393' => 'aox', 'Aqoxy4G02775' => 'aox', 'Aqoxy6G00058' => 'aox', 'arahy.Tifrunner.gnm1.ann1.9X74H2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CW3FX9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R485W7' => 'arhy', 'AT1G10960' => 'ath', 'AT1G60950' => 'ath', 'AT2G27510' => 'ath', 'AT4G14890' => 'ath', 'AT5G10000' => 'ath', 'ATR0665G624' => 'atr', 'ATR0697G138' => 'atr', 'ATR0776G046' => 'atr', 'ATR1134G135' => 'atr', 'Atru.chr12.1025' => 'acertr', 'Atru.chr3.3241' => 'acertr', 'Atru.chr4.2460' => 'acertr', 'AUR62007427' => 'cqu', 'AUR62010960' => 'cqu', 'AUR62012201' => 'cqu', 'AUR62021470' => 'cqu', 'AUR62022834' => 'cqu', 'AUR62033635' => 'cqu', 'AUR62036186' => 'cqu', 'BcaB01g03077' => 'bca', 'BcaB02g10093' => 'bca', 'BcaB04g20295' => 'bca', 'BcaB06g28147' => 'bca', 'BcaB07g31253' => 'bca', 'BcaC01g04946' => 'bca', 'BcaC02g10614' => 'bca', 'BcaC02g10885' => 'bca', 'BcaC04g19356' => 'bca', 'BcaC04g22297' => 'bca', 'BcaC05g24977' => 'bca', 'BcaC06g31823' => 'bca', 'BcaC07g38633' => 'bca', 'BcaC09g49353' => 'bca', 'BcaC09g50168' => 'bca', 'BcaNung00322' => 'bca', 'BcaNung04769' => 'bca', 'BolC1t02753H' => 'bol', 'BolC1t03721H' => 'bol', 'BolC3t15525H' => 'bol', 'BolC4t23903H' => 'bol', 'BolC4t24231H' => 'bol', 'BolC4t27209H' => 'bol', 'BolC5t29671H' => 'bol', 'BolC8t49044H' => 'bol', 'BolC9t54999H' => 'bol', 'BolC9t59517H' => 'bol', 'BraA01t02178Z' => 'bra', 'BraA01t03099Z' => 'bra', 'BraA03t11867Z' => 'bra', 'BraA04t17667Z' => 'bra', 'BraA07t29542Z' => 'bra', 'BraA08t35287Z' => 'bra', 'BraA09t37334Z' => 'bra', 'BraA10t44801Z' => 'bra', 'BraSC39t46181Z' => 'bra', 'C01p28240' => 'bna', 'C01p37530' => 'bna', 'C03p31820' => 'bna', 'C04p24080' => 'bna', 'C04p25790' => 'bna', 'C04p56770' => 'bna', 'C05p09310' => 'bna', 'C09p21010' => 'bna', 'C09p67560' => 'bna', 'CAN.G1324.7' => 'can', 'CAN.G1358.10' => 'can', 'CAN.G1550.2' => 'can', 'CAN.G186.56' => 'can', 'CAN.G1965.1' => 'can', 'CAN.G645.15' => 'can', 'CAN.G798.26' => 'can', 'CAN.G798.27' => 'can', 'CAN.G798.29' => 'can', 'CAN.G919.31' => 'can', 'CANSAT11G0133' => 'cansat', 'CANSAT11G1171' => 'cansat', 'CANSAT11G2056' => 'cansat', 'CANSAT56G1202' => 'cansat', 'CANSAT56G1514' => 'cansat', 'CANSAT78G0455' => 'cansat', 'CARHR011190' => 'chi', 'CARHR051980' => 'chi', 'CARHR120170' => 'chi', 'CARHR203310' => 'chi', 'CARHR221490' => 'chi', 'Carub.0001s1054' => 'cru', 'Carub.0002s0431' => 'cru', 'Carub.0004s0818' => 'cru', 'Carub.0006s0846' => 'cru', 'Carub.0007s2722' => 'cru', 'Ca_00058_v3' => 'car', 'Ca_17831_v3' => 'car', 'Ca_19408_v3' => 'car', 'Ca_24397_v3' => 'car', 'Ca_25664_v3' => 'car', 'CBR_g21818' => 'cbr', 'CBR_g31195' => 'cbr', 'CBR_g32282' => 'cbr', 'CBR_g39599' => 'cbr', 'CBR_g49410' => 'cbr', 'Cc01_g09120' => 'ccan', 'Cc01_g09130' => 'ccan', 'Cc02_g09630' => 'ccan', 'Cc02_g22810' => 'ccan', 'Cc03_g03810' => 'ccan', 'CDE02G3718' => 'cde', 'CDE04G3183' => 'cde', 'CDE07G1046' => 'cde', 'CDE08G0480' => 'cde', 'Cfa005493' => 'cfa', 'Cfa010312' => 'cfa', 'Cfa015648' => 'cfa', 'Ciclev10002793m.g' => 'ccl', 'Ciclev10003356m.g' => 'ccl', 'Ciclev10006141m.g' => 'ccl', 'Ciclev10016676m.g' => 'ccl', 'Ciclev10017081m.g' => 'ccl', 'Ciclev10029499m.g' => 'ccl', 'CiPaw.01G166300' => 'cil', 'CiPaw.06G145600' => 'cil', 'CiPaw.13G040100' => 'cil', 'CiPaw.13G135800' => 'cil', 'ClCG01G012230' => 'cla', 'ClCG05G009510' => 'cla', 'ClCG08G008270' => 'cla', 'COL.COLO4_11763' => 'col', 'COL.COLO4_19876' => 'col', 'COL.COLO4_21481' => 'col', 'Cpa.g.sc118.34' => 'cpa', 'Cpa.g.sc32.13' => 'cpa', 'Cpa.g.sc58.103' => 'cpa', 'Cre03.g183850' => 'cre', 'Cre06.g306350' => 'cre', 'Cre07.g334800' => 'cre', 'Cre12.g487900' => 'cre', 'Cre14.g626700' => 'cre', 'Cre16.g658400' => 'cre', 'Cre17.g700950' => 'cre', 'CsaV3_1G014830' => 'csa', 'CsaV3_3G013320' => 'csa', 'CsaV3_3G019210' => 'csa', 'CsaV3_3G019220' => 'csa', 'CsaV3_6G004230' => 'csa', 'CSS0003773' => 'camsi', 'CSS0004563' => 'camsi', 'CSS0013949' => 'camsi', 'CSS0025971' => 'camsi', 'CSS0028570' => 'camsi', 'CSS0033127' => 'camsi', 'CSS0036051' => 'camsi', 'CSS0040087' => 'camsi', 'CSS0043179' => 'camsi', 'DCAR_006161' => 'dca', 'DCAR_010351' => 'dca', 'DCAR_012197' => 'dca', 'DCAR_024162' => 'dca', 'Dinv01030' => 'din', 'Dinv10924' => 'din', 'Dinv11835' => 'din', 'Dinv22841' => 'din', 'Dinv42553' => 'din', 'Duzib052G0560' => 'dzi', 'Duzib132G0389' => 'dzi', 'Duzib150G1181' => 'dzi', 'Duzib168G0623' => 'dzi', 'Duzib170G1036' => 'dzi', 'Duzib212G0200' => 'dzi', 'Duzib248G0194' => 'dzi', 'ECA232G2193' => 'eca', 'ECA233G0302' => 'eca', 'ECA234G2813' => 'eca', 'ECA234G4866' => 'eca', 'ECA240G3932' => 'eca', 'ECA248G0385' => 'eca', 'EL10Ac2g04781' => 'bvu', 'EL10Ac3g06445' => 'bvu', 'EL10Ac7g15825' => 'bvu', 'EL10Ac8g18550' => 'bvu', 'Eucgr.B03849' => 'egr', 'Eucgr.I02744' => 'egr', 'Eucgr.J00264' => 'egr', 'Eucgr.J00493' => 'egr', 'FAN04G2181' => 'fan', 'FAN07G2666' => 'fan', 'FAN11G0024' => 'fan', 'FAN12G1105' => 'fan', 'FAN13G0302' => 'fan', 'FAN15G2781' => 'fan', 'FAN16G1274' => 'fan', 'FAN17G2988' => 'fan', 'FAN18G2621' => 'fan', 'FAN21G0013' => 'fan', 'FAN22G1211' => 'fan', 'FAN25G3626' => 'fan', 'FvH4_2g09491' => 'fve', 'FvH4_3g24910' => 'fve', 'FvH4_4g15630' => 'fve', 'FvH4_5g28820' => 'fve', 'Glyma.01G238000' => 'gma', 'Glyma.05G168400' => 'gma', 'Glyma.08G126800' => 'gma', 'Glyma.08G188500' => 'gma', 'Glyma.10G278900' => 'gma', 'Glyma.11G005700' => 'gma', 'Glyma.11G183300' => 'gma', 'Glyma.12G089200' => 'gma', 'Glyma.12G169400' => 'gma', 'Glyma.12G169500' => 'gma', 'Glyma.12G169600' => 'gma', 'Glyma.20G110800' => 'gma', 'Gohir.A03G192900' => 'ghi', 'Gohir.A03G193000' => 'ghi', 'Gohir.A05G080700' => 'ghi', 'Gohir.A09G216000' => 'ghi', 'Gohir.A12G027700' => 'ghi', 'Gohir.A13G036200' => 'ghi', 'Gohir.A13G222600' => 'ghi', 'Gohir.D02G213900' => 'ghi', 'Gohir.D02G214000' => 'ghi', 'Gohir.D05G083700' => 'ghi', 'Gohir.D05G083800' => 'ghi', 'Gohir.D05G083850' => 'ghi', 'Gohir.D08G015400' => 'ghi', 'Gohir.D09G218400' => 'ghi', 'Gohir.D12G027100' => 'ghi', 'Gohir.D13G034500' => 'ghi', 'Gohir.D13G227400' => 'ghi', 'Gorai.005G241800' => 'gra', 'Gorai.005G241900' => 'gra', 'Gorai.006G239400' => 'gra', 'Gorai.008G027600' => 'gra', 'Gorai.009G085400' => 'gra', 'Gorai.009G085500' => 'gra', 'Gorai.013G039000' => 'gra', 'Gorai.013G194800' => 'gra', 'Gorai.013G257900' => 'gra', 'GSVIVG01000982001' => 'vvi', 'GSVIVG01017981001' => 'vvi', 'HanXRQChr01g0024061' => 'han', 'HanXRQChr09g0247831' => 'han', 'HanXRQChr10g0294611' => 'han', 'HanXRQChr10g0294621' => 'han', 'HanXRQChr11g0346821' => 'han', 'HanXRQChr13g0397461' => 'han', 'HanXRQChr16g0513651' => 'han', 'HanXRQChr16g0513701' => 'han', 'Haze_00897' => 'cav', 'Haze_01745' => 'cav', 'Haze_02486' => 'cav', 'Haze_02487' => 'cav', 'Haze_23374' => 'cav', 'Hma1.2p1_0578F.1_g182520' => 'hma', 'Hma1.2p1_0602F.1_g187350' => 'hma', 'Hma1.2p1_0602F.1_g187360' => 'hma', 'Hma1.2p1_0874F.1_g231320' => 'hma', 'Hma1.2p1_1197F.1_g266210' => 'hma', 'Hma1.2p1_1197F.1_g266220' => 'hma', 'Hma1.2p1_2167F.1_g315895' => 'hma', 'Hma1.2p1_2190F.1_g316640' => 'hma', 'Hma1.2p1_3645F.1_g337153' => 'hma', 'HPP92_004907' => 'vpl', 'HPP92_012134' => 'vpl', 'HPP92_025136' => 'vpl', 'HPP92_026087' => 'vpl', 'Hund06782' => 'sun', 'Hund06784' => 'sun', 'Lalb_Chr01g0004861' => 'lal', 'Lalb_Chr02g0140591' => 'lal', 'Lalb_Chr02g0140611' => 'lal', 'Lalb_Chr03g0028101' => 'lal', 'Lalb_Chr07g0185791' => 'lal', 'Lalb_Chr12g0204491' => 'lal', 'Lalb_Chr13g0295671' => 'lal', 'Lalb_Chr19g0136461' => 'lal', 'Lalb_Chr21g0309191' => 'lal', 'Lj1g0028158' => 'lja', 'Lj1P236T38' => 'lonja', 'Lj2C32G2' => 'lonja', 'Lj2P944T8' => 'lonja', 'Lj2P963T15' => 'lonja', 'Lj3g0011788' => 'lja', 'Lj4g0025027' => 'lja', 'Lj5P255T36' => 'lonja', 'Lj6g0018866' => 'lja', 'Lj6P608T31' => 'lonja', 'LjContig00408g0008879' => 'lja', 'Lsat_1_v5_gn_5_105820' => 'lsa', 'Lsat_1_v5_gn_6_38800' => 'lsa', 'Lsat_1_v5_gn_7_67141' => 'lsa', 'Manes.04G003400' => 'mes', 'Manes.07G020000' => 'mes', 'Manes.07G020100' => 'mes', 'Manes.07G020150' => 'mes', 'Manes.10G061500' => 'mes', 'Manes.10G123200' => 'mes', 'Manes.11G161900' => 'mes', 'Manes.15G029300' => 'mes', 'Mapoly0071s0018' => 'mpo', 'Mapoly0082s0023' => 'mpo', 'Mapoly3477s0001' => 'mpo', 'MBI05_g31233_MAGBIO' => 'mbi', 'MBI09_g05946_MAGBIO' => 'mbi', 'MBI09_g05947_MAGBIO' => 'mbi', 'MBI17_g08346_MAGBIO' => 'mbi', 'MCO04G038' => 'mco', 'MCO09G370' => 'mco', 'MCO13G605' => 'mco', 'MD00G1075500' => 'mdo', 'MD03G1144300' => 'mdo', 'MD08G1236800' => 'mdo', 'MD13G1193300' => 'mdo', 'MD15G1428700' => 'mdo', 'Medtr1g112030' => 'mtr', 'Medtr1g112050' => 'mtr', 'Medtr2g006290' => 'mtr', 'Medtr2g086510' => 'mtr', 'Medtr4g053120' => 'mtr', 'Medtr5g006320' => 'mtr', 'Medtr8g088720' => 'mtr', 'MELO3C004712.2' => 'cme', 'MELO3C006533.2' => 'cme', 'MELO3C019438.2' => 'cme', 'MELO3C019440.2' => 'cme', 'MELO3C019441.2' => 'cme', 'MELO3C019895.2' => 'cme', 'Migut.B00811' => 'egut', 'Migut.D02447' => 'egut', 'Migut.F00875' => 'egut', 'Migut.N00186' => 'egut', 'Migut.N01051' => 'egut', 'Migut.N02491' => 'egut', 'Migut.O00784' => 'egut', 'MSTRG.12367' => 'ama', 'MSTRG.18756' => 'ama', 'MSTRG.21042' => 'ama', 'Nitab4.5_0000559g0040' => 'nta', 'Nitab4.5_0000667g0190' => 'nta', 'Nitab4.5_0000755g0160' => 'nta', 'Nitab4.5_0001216g0080' => 'nta', 'Nitab4.5_0004069g0040' => 'nta', 'Nitab4.5_0004129g0010' => 'nta', 'Nitab4.5_0005744g0030' => 'nta', 'Nitab4.5_0006996g0030' => 'nta', 'Nitab4.5_0008971g0040' => 'nta', 'Nitab4.5_0009769g0020' => 'nta', 'Nitab4.5_0009833g0010' => 'nta', 'Nitab4.5_0013140g0020' => 'nta', 'Nn003s41376' => 'nnu', 'Nn1g01857' => 'nnu', 'Nn1g03611' => 'nnu', 'Nn1g06853' => 'nnu', 'Nn3g18360' => 'nnu', 'Nn4g26328' => 'nnu', 'Nn5g27531' => 'nnu', 'Nn6g34899' => 'nnu', 'Nn7g36299' => 'nnu', 'Oeu021485.1' => 'oeu', 'Oeu022433.1' => 'oeu', 'Oeu032111.1' => 'oeu', 'Oeu051608.1' => 'oeu', 'Os01g0860601' => 'osa', 'Os03g0659200' => 'osa', 'Os03g0835900' => 'osa', 'Os04g0412200' => 'osa', 'Os05g0443500' => 'osa', 'Os07g0251500' => 'osa', 'Os08g0104600' => 'osa', 'Peaxi162Scf00003g00047' => 'pax', 'Peaxi162Scf00003g00052' => 'pax', 'Peaxi162Scf00003g00394' => 'pax', 'Peaxi162Scf00091g00621' => 'pax', 'Peaxi162Scf00152g00146' => 'pax', 'Peaxi162Scf00173g00025' => 'pax', 'Peaxi162Scf00195g00102' => 'pax', 'Peaxi162Scf00402g00013' => 'pax', 'Peaxi162Scf00519g00618' => 'pax', 'PGR004G2838' => 'pgr', 'PGR044G2275' => 'pgr', 'PGR102G1377' => 'pgr', 'PGR119G1245' => 'pgr', 'PGR142G4449' => 'pgr', 'PGSC0003DMG400004532' => 'stu', 'PGSC0003DMG400011950' => 'stu', 'PGSC0003DMG400023391' => 'stu', 'PGSC0003DMG400023985' => 'stu', 'PGSC0003DMG400026360' => 'stu', 'PGSC0003DMG400035711' => 'stu', 'PGSC0003DMG400037286' => 'stu', 'PGSC0003DMG402005881' => 'stu', 'Phvul.002G045400' => 'pvu', 'Phvul.006G216600' => 'pvu', 'Phvul.006G216700' => 'pvu', 'Phvul.006G216800' => 'pvu', 'Phvul.007G022500' => 'pvu', 'Phvul.011G094400' => 'pvu', 'Potri.001G470700' => 'ptr', 'Potri.003G015200' => 'ptr', 'Potri.004G202500' => 'ptr', 'Potri.004G218400' => 'ptr', 'Potri.008G020100' => 'ptr', 'Potri.008G153200' => 'ptr', 'Potri.009G163800' => 'ptr', 'Potri.010G087300' => 'ptr', 'Potri.010G239100' => 'ptr', 'Pp3c10_16100' => 'ppa', 'Pp3c10_16880' => 'ppa', 'Pp3c16_6230' => 'ppa', 'Pp3c17_18910' => 'ppa', 'Pp3c3_22119' => 'ppa', 'Pp3c3_22140' => 'ppa', 'Pp3c4_8159' => 'ppa', 'Pp3c4_8171' => 'ppa', 'Pp3c4_8330' => 'ppa', 'PRCOL_00004098' => 'pco', 'Prupe.1G013900' => 'ppe', 'Prupe.1G226300' => 'ppe', 'Prupe.1G573600' => 'ppe', 'Prupe.6G130100' => 'ppe', 'Psat3g090040' => 'psa', 'Psat4g210440' => 'psa', 'Psat6g231040' => 'psa', 'Psat6g231080' => 'psa', 'Psat7g063000' => 'psa', 'Psat7g188000' => 'psa', 'Psat7g188040' => 'psa', 'PSO017G0206' => 'pso', 'PSO170G0501' => 'pso', 'PSO170G6422' => 'pso', 'PSO210G7739' => 'pso', 'PSO339G1808' => 'pso', 'PSO339G6135' => 'pso', 'PSO384G0010' => 'pso', 'PSO384G0964' => 'pso', 'PSO761G0050' => 'pso', 'PSO782G4085' => 'pso', 'QL01p012264' => 'qlo', 'QL02p099491' => 'qlo', 'QL03p033868' => 'qlo', 'QL04p046678' => 'qlo', 'QL06p002448' => 'qlo', 'RcHm_v2.0_Chr4g0416181' => 'rch', 'RcHm_v2.0_Chr5g0044701' => 'rch', 'RcHm_v2.0_Chr6g0265781' => 'rch', 'RcHm_v2.0_Chr7g0221031' => 'rch', 'Rhsim04G0202000' => 'rsi', 'Rhsim11G0127300' => 'rsi', 'Rhsim13G0111800' => 'rsi', 'Sabra01G0165600' => 'sbr', 'Sabra03G0008300' => 'sbr', 'Sabra04G0136900' => 'sbr', 'Sabra08G0013400' => 'sbr', 'Sabra08G0116800' => 'sbr', 'Sabra09G0128000' => 'sbr', 'Sabra10G0055500' => 'sbr', 'Sabra10G0073300' => 'sbr', 'SalBow3G0385' => 'sbo', 'SalBow3G1119' => 'sbo', 'SalBow3G2005' => 'sbo', 'SalBow6G2563' => 'sbo', 'SalBow6G6386' => 'sbo', 'Sc06g0008800' => 'sci', 'Sc07g0004950' => 'sci', 'Sc09g0005340' => 'sci', 'Sc13g0004410' => 'sci', 'Sc21g0007090' => 'sci', 'Sed0009285' => 'sed', 'Sed0017583' => 'sed', 'Sed0019699' => 'sed', 'Sed0023107' => 'sed', 'SEGI_10916' => 'sgi', 'SEGI_16217' => 'sgi', 'SEGI_19466' => 'sgi', 'SEGI_41115' => 'sgi', 'SGA_v2.0_scaffold111G31534' => 'sas', 'SGA_v2.0_scaffold22G09864' => 'sas', 'SGA_v2.0_scaffold338G49219' => 'sas', 'SGA_v2.0_scaffold92G28298' => 'sas', 'SMO119G0064' => 'smo', 'SMO223G0038' => 'smo', 'SMO347G0584' => 'smo', 'SMO351G0010' => 'smo', 'SMO356G0404' => 'smo', 'Solyc01g103920.3' => 'sly', 'Solyc04g009710.2' => 'sly', 'Solyc05g055280.2' => 'sly', 'Solyc10g044520.3' => 'sly', 'Solyc10g075160.1' => 'sly', 'Solyc11g006910.3' => 'sly', 'Solyc11g068430.3' => 'sly', 'Sopen01g046310' => 'spe', 'Sopen03g001200' => 'spe', 'Sopen04g004830' => 'spe', 'Sopen05g033720' => 'spe', 'Sopen06g030740' => 'spe', 'Sopen10g013090' => 'spe', 'Sopen10g027630' => 'spe', 'Sopen10g027640' => 'spe', 'Sopen11g002820' => 'spe', 'Sopen11g027140' => 'spe', 'Sp1g09680' => 'spa', 'Sp2g03630' => 'spa', 'Sp4g10320' => 'spa', 'Sp6g33400' => 'spa', 'Sp7g13030' => 'spa', 'TAR365G0317' => 'tar', 'TAR376G0979' => 'tar', 'TAR623G1665' => 'tar', 'TAR633G2373' => 'tar', 'TAR636G1400' => 'tar', 'THA.LOC104800529' => 'tha', 'THA.LOC104808547' => 'tha', 'THA.LOC104809615' => 'tha', 'THA.LOC104815724' => 'tha', 'THA.LOC104818480' => 'tha', 'THA.LOC104819179' => 'tha', 'THA.LOC104822270' => 'tha', 'THA.LOC104826425' => 'tha', 'Thecc.02G089700' => 'tca', 'Thecc.04G232300' => 'tca', 'Thecc.09G283400' => 'tca', 'Thhalv10009020m.g' => 'esa', 'Thhalv10015506m.g' => 'esa', 'Thhalv10017364m.g' => 'esa', 'Thhalv10023742m.g' => 'esa', 'Thhalv10026483m.g' => 'esa', 'TPR.G17232' => 'tpr', 'TPR.G2133' => 'tpr', 'TPR.G2498' => 'tpr', 'TPR.G31942' => 'tpr', 'TPR.G37877' => 'tpr', 'TPR.G4571' => 'tpr', 'TWI14G1113' => 'twi', 'TWI15G0426' => 'twi', 'TWI31G1005' => 'twi', 'TWI38G0513' => 'twi', 'TWI38G1484' => 'twi', 'TWI73G1098' => 'twi', 'unitig_26.g10519' => 'ugi', 'unitig_736.g22395' => 'ugi', 'unitig_747.g21234' => 'ugi', 'unitig_747.g21942' => 'ugi', 'vmacro14351' => 'vma', 'VMungo0540G0082' => 'vmu', 'VMungo0540G0405' => 'vmu', 'VMungo0540G1486' => 'vmu', 'VMungo0540G1692' => 'vmu', 'VMungo0720G2473' => 'vmu', 'VMungo1127G1562' => 'vmu', 'VMungo1215G1918' => 'vmu', 'Zm00001eb052650' => 'zma', 'Zm00001eb063710' => 'zma', 'Zm00001eb083950' => 'zma', 'Zm00001eb174420' => 'zma', 'Zm00001eb260140' => 'zma', 'Zm00001eb260150' => 'zma', 'Zm00001eb260160' => 'zma', 'Zm00001eb348290' => 'zma', 'Zm00001eb366870' => 'zma', 'Zm00001eb421930' => 'zma' ) $gf_id = 'HOM05D001025' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001025' ) $data_identifier = 'HOM05D001025' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 19, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 2, 'amhyb' => (int) 4, 'aly' => (int) 4, 'aox' => (int) 4, 'arhy' => (int) 3, 'ath' => (int) 5, 'atr' => (int) 4, 'acertr' => (int) 3, 'cqu' => (int) 7, 'bca' => (int) 17, 'bol' => (int) 10, 'bra' => (int) 9, 'can' => (int) 10, 'cansat' => (int) 6, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 5, 'cbr' => (int) 5, 'ccan' => (int) 5, 'cde' => (int) 4, 'cfa' => (int) 3, 'ccl' => (int) 6, 'cil' => (int) 4, 'cla' => (int) 3, 'col' => (int) 3, 'cpa' => (int) 3, 'cre' => (int) 7, 'csa' => (int) 5, 'camsi' => (int) 9, 'dca' => (int) 4, 'din' => (int) 5, 'dzi' => (int) 7, 'eca' => (int) 6, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 12, 'fve' => (int) 4, 'gma' => (int) 12, 'ghi' => (int) 17, 'gra' => (int) 9, 'vvi' => (int) 2, 'han' => (int) 8, 'cav' => (int) 5, 'hma' => (int) 9, 'vpl' => (int) 4, 'sun' => (int) 2, 'lal' => (int) 9, 'lja' => (int) 5, 'lonja' => (int) 6, 'lsa' => (int) 3, 'mes' => (int) 8, 'mpo' => (int) 3, 'mbi' => (int) 4, 'mco' => (int) 3, 'mdo' => (int) 5, 'mtr' => (int) 7, 'cme' => (int) 6, 'egut' => (int) 7, 'ama' => (int) 3, 'nta' => (int) 12, 'nnu' => (int) 9, 'oeu' => (int) 4, 'osa' => (int) 7, 'pax' => (int) 9, 'pgr' => (int) 5, 'stu' => (int) 8, 'pvu' => (int) 6, 'ptr' => (int) 9, 'ppa' => (int) 9, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 7, 'pso' => (int) 10, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 3, 'sbr' => (int) 8, 'sbo' => (int) 5, 'sci' => (int) 5, 'sed' => (int) 4, 'sgi' => (int) 4, 'sas' => (int) 4, 'smo' => (int) 5, 'sly' => (int) 7, 'spe' => (int) 10, 'spa' => (int) 5, 'tar' => (int) 5, 'tha' => (int) 8, 'tca' => (int) 3, 'esa' => (int) 5, 'tpr' => (int) 6, 'twi' => (int) 6, 'ugi' => (int) 4, 'vma' => (int) 1, 'vmu' => (int) 7, 'zma' => (int) 10 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb421930' $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' => 'HOM05D001025', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '592', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p22650' => 'bna', 'A01p29720' => 'bna', 'A03p26560' => 'bna', 'A03p68820' => 'bna', 'A04p20980' => 'bna', 'A06p07730' => 'bna', 'A07p18260' => 'bna', 'A08p33710' => 'bna', 'A09p16970' => 'bna', 'A10p27490' => 'bna', 'Aa31LG1G17300' => 'aar', 'Aa31LG1G3910' => 'aar', 'Aa31LG2G9630' => 'aar', 'Aa31LG5G8360' => 'aar', 'Aa31LG9G2410' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4699' => 'aag', 'Actinidia23512' => 'ach', 'Actinidia37080' => 'ach', 'Ah.01g020380' => 'amhyb', 'Ah.08g215710' => 'amhyb', 'Ah.09g225110' => 'amhyb', 'Ah.10g036680' => 'amhyb', 'AL1G21940' => 'aly', 'AL2G15540' => 'aly', 'AL4G21520' => 'aly', 'AL7G40960' => 'aly', 'Aqoxy2G01191' => 'aox', 'Aqoxy2G03393' => 'aox', 'Aqoxy4G02775' => 'aox', 'Aqoxy6G00058' => 'aox', 'arahy.Tifrunner.gnm1.ann1.9X74H2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CW3FX9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R485W7' => 'arhy', 'AT1G10960' => 'ath', 'AT1G60950' => 'ath', 'AT2G27510' => 'ath', 'AT4G14890' => 'ath', 'AT5G10000' => 'ath', 'ATR0665G624' => 'atr', 'ATR0697G138' => 'atr', 'ATR0776G046' => 'atr', 'ATR1134G135' => 'atr', 'Atru.chr12.1025' => 'acertr', 'Atru.chr3.3241' => 'acertr', 'Atru.chr4.2460' => 'acertr', 'AUR62007427' => 'cqu', 'AUR62010960' => 'cqu', 'AUR62012201' => 'cqu', 'AUR62021470' => 'cqu', 'AUR62022834' => 'cqu', 'AUR62033635' => 'cqu', 'AUR62036186' => 'cqu', 'BcaB01g03077' => 'bca', 'BcaB02g10093' => 'bca', 'BcaB04g20295' => 'bca', 'BcaB06g28147' => 'bca', 'BcaB07g31253' => 'bca', 'BcaC01g04946' => 'bca', 'BcaC02g10614' => 'bca', 'BcaC02g10885' => 'bca', 'BcaC04g19356' => 'bca', 'BcaC04g22297' => 'bca', 'BcaC05g24977' => 'bca', 'BcaC06g31823' => 'bca', 'BcaC07g38633' => 'bca', 'BcaC09g49353' => 'bca', 'BcaC09g50168' => 'bca', 'BcaNung00322' => 'bca', 'BcaNung04769' => 'bca', 'BolC1t02753H' => 'bol', 'BolC1t03721H' => 'bol', 'BolC3t15525H' => 'bol', 'BolC4t23903H' => 'bol', 'BolC4t24231H' => 'bol', 'BolC4t27209H' => 'bol', 'BolC5t29671H' => 'bol', 'BolC8t49044H' => 'bol', 'BolC9t54999H' => 'bol', 'BolC9t59517H' => 'bol', 'BraA01t02178Z' => 'bra', 'BraA01t03099Z' => 'bra', 'BraA03t11867Z' => 'bra', 'BraA04t17667Z' => 'bra', 'BraA07t29542Z' => 'bra', 'BraA08t35287Z' => 'bra', 'BraA09t37334Z' => 'bra', 'BraA10t44801Z' => 'bra', 'BraSC39t46181Z' => 'bra', 'C01p28240' => 'bna', 'C01p37530' => 'bna', 'C03p31820' => 'bna', 'C04p24080' => 'bna', 'C04p25790' => 'bna', 'C04p56770' => 'bna', 'C05p09310' => 'bna', 'C09p21010' => 'bna', 'C09p67560' => 'bna', 'CAN.G1324.7' => 'can', 'CAN.G1358.10' => 'can', 'CAN.G1550.2' => 'can', 'CAN.G186.56' => 'can', 'CAN.G1965.1' => 'can', 'CAN.G645.15' => 'can', 'CAN.G798.26' => 'can', 'CAN.G798.27' => 'can', 'CAN.G798.29' => 'can', 'CAN.G919.31' => 'can', 'CANSAT11G0133' => 'cansat', 'CANSAT11G1171' => 'cansat', 'CANSAT11G2056' => 'cansat', 'CANSAT56G1202' => 'cansat', 'CANSAT56G1514' => 'cansat', 'CANSAT78G0455' => 'cansat', 'CARHR011190' => 'chi', 'CARHR051980' => 'chi', 'CARHR120170' => 'chi', 'CARHR203310' => 'chi', 'CARHR221490' => 'chi', 'Carub.0001s1054' => 'cru', 'Carub.0002s0431' => 'cru', 'Carub.0004s0818' => 'cru', 'Carub.0006s0846' => 'cru', 'Carub.0007s2722' => 'cru', 'Ca_00058_v3' => 'car', 'Ca_17831_v3' => 'car', 'Ca_19408_v3' => 'car', 'Ca_24397_v3' => 'car', 'Ca_25664_v3' => 'car', 'CBR_g21818' => 'cbr', 'CBR_g31195' => 'cbr', 'CBR_g32282' => 'cbr', 'CBR_g39599' => 'cbr', 'CBR_g49410' => 'cbr', 'Cc01_g09120' => 'ccan', 'Cc01_g09130' => 'ccan', 'Cc02_g09630' => 'ccan', 'Cc02_g22810' => 'ccan', 'Cc03_g03810' => 'ccan', 'CDE02G3718' => 'cde', 'CDE04G3183' => 'cde', 'CDE07G1046' => 'cde', 'CDE08G0480' => 'cde', 'Cfa005493' => 'cfa', 'Cfa010312' => 'cfa', 'Cfa015648' => 'cfa', 'Ciclev10002793m.g' => 'ccl', 'Ciclev10003356m.g' => 'ccl', 'Ciclev10006141m.g' => 'ccl', 'Ciclev10016676m.g' => 'ccl', 'Ciclev10017081m.g' => 'ccl', 'Ciclev10029499m.g' => 'ccl', 'CiPaw.01G166300' => 'cil', 'CiPaw.06G145600' => 'cil', 'CiPaw.13G040100' => 'cil', 'CiPaw.13G135800' => 'cil', 'ClCG01G012230' => 'cla', 'ClCG05G009510' => 'cla', 'ClCG08G008270' => 'cla', 'COL.COLO4_11763' => 'col', 'COL.COLO4_19876' => 'col', 'COL.COLO4_21481' => 'col', 'Cpa.g.sc118.34' => 'cpa', 'Cpa.g.sc32.13' => 'cpa', 'Cpa.g.sc58.103' => 'cpa', 'Cre03.g183850' => 'cre', 'Cre06.g306350' => 'cre', 'Cre07.g334800' => 'cre', 'Cre12.g487900' => 'cre', 'Cre14.g626700' => 'cre', 'Cre16.g658400' => 'cre', 'Cre17.g700950' => 'cre', 'CsaV3_1G014830' => 'csa', 'CsaV3_3G013320' => 'csa', 'CsaV3_3G019210' => 'csa', 'CsaV3_3G019220' => 'csa', 'CsaV3_6G004230' => 'csa', 'CSS0003773' => 'camsi', 'CSS0004563' => 'camsi', 'CSS0013949' => 'camsi', 'CSS0025971' => 'camsi', 'CSS0028570' => 'camsi', 'CSS0033127' => 'camsi', 'CSS0036051' => 'camsi', 'CSS0040087' => 'camsi', 'CSS0043179' => 'camsi', 'DCAR_006161' => 'dca', 'DCAR_010351' => 'dca', 'DCAR_012197' => 'dca', 'DCAR_024162' => 'dca', 'Dinv01030' => 'din', 'Dinv10924' => 'din', 'Dinv11835' => 'din', 'Dinv22841' => 'din', 'Dinv42553' => 'din', 'Duzib052G0560' => 'dzi', 'Duzib132G0389' => 'dzi', 'Duzib150G1181' => 'dzi', 'Duzib168G0623' => 'dzi', 'Duzib170G1036' => 'dzi', 'Duzib212G0200' => 'dzi', 'Duzib248G0194' => 'dzi', 'ECA232G2193' => 'eca', 'ECA233G0302' => 'eca', 'ECA234G2813' => 'eca', 'ECA234G4866' => 'eca', 'ECA240G3932' => 'eca', 'ECA248G0385' => 'eca', 'EL10Ac2g04781' => 'bvu', 'EL10Ac3g06445' => 'bvu', 'EL10Ac7g15825' => 'bvu', 'EL10Ac8g18550' => 'bvu', 'Eucgr.B03849' => 'egr', 'Eucgr.I02744' => 'egr', 'Eucgr.J00264' => 'egr', 'Eucgr.J00493' => 'egr', 'FAN04G2181' => 'fan', 'FAN07G2666' => 'fan', 'FAN11G0024' => 'fan', 'FAN12G1105' => 'fan', 'FAN13G0302' => 'fan', 'FAN15G2781' => 'fan', 'FAN16G1274' => 'fan', 'FAN17G2988' => 'fan', 'FAN18G2621' => 'fan', 'FAN21G0013' => 'fan', 'FAN22G1211' => 'fan', 'FAN25G3626' => 'fan', 'FvH4_2g09491' => 'fve', 'FvH4_3g24910' => 'fve', 'FvH4_4g15630' => 'fve', 'FvH4_5g28820' => 'fve', 'Glyma.01G238000' => 'gma', 'Glyma.05G168400' => 'gma', 'Glyma.08G126800' => 'gma', 'Glyma.08G188500' => 'gma', 'Glyma.10G278900' => 'gma', 'Glyma.11G005700' => 'gma', 'Glyma.11G183300' => 'gma', 'Glyma.12G089200' => 'gma', 'Glyma.12G169400' => 'gma', 'Glyma.12G169500' => 'gma', 'Glyma.12G169600' => 'gma', 'Glyma.20G110800' => 'gma', 'Gohir.A03G192900' => 'ghi', 'Gohir.A03G193000' => 'ghi', 'Gohir.A05G080700' => 'ghi', 'Gohir.A09G216000' => 'ghi', 'Gohir.A12G027700' => 'ghi', 'Gohir.A13G036200' => 'ghi', 'Gohir.A13G222600' => 'ghi', 'Gohir.D02G213900' => 'ghi', 'Gohir.D02G214000' => 'ghi', 'Gohir.D05G083700' => 'ghi', 'Gohir.D05G083800' => 'ghi', 'Gohir.D05G083850' => 'ghi', 'Gohir.D08G015400' => 'ghi', 'Gohir.D09G218400' => 'ghi', 'Gohir.D12G027100' => 'ghi', 'Gohir.D13G034500' => 'ghi', 'Gohir.D13G227400' => 'ghi', 'Gorai.005G241800' => 'gra', 'Gorai.005G241900' => 'gra', 'Gorai.006G239400' => 'gra', 'Gorai.008G027600' => 'gra', 'Gorai.009G085400' => 'gra', 'Gorai.009G085500' => 'gra', 'Gorai.013G039000' => 'gra', 'Gorai.013G194800' => 'gra', 'Gorai.013G257900' => 'gra', 'GSVIVG01000982001' => 'vvi', 'GSVIVG01017981001' => 'vvi', 'HanXRQChr01g0024061' => 'han', 'HanXRQChr09g0247831' => 'han', 'HanXRQChr10g0294611' => 'han', 'HanXRQChr10g0294621' => 'han', 'HanXRQChr11g0346821' => 'han', 'HanXRQChr13g0397461' => 'han', 'HanXRQChr16g0513651' => 'han', 'HanXRQChr16g0513701' => 'han', 'Haze_00897' => 'cav', 'Haze_01745' => 'cav', 'Haze_02486' => 'cav', 'Haze_02487' => 'cav', 'Haze_23374' => 'cav', 'Hma1.2p1_0578F.1_g182520' => 'hma', 'Hma1.2p1_0602F.1_g187350' => 'hma', 'Hma1.2p1_0602F.1_g187360' => 'hma', 'Hma1.2p1_0874F.1_g231320' => 'hma', 'Hma1.2p1_1197F.1_g266210' => 'hma', 'Hma1.2p1_1197F.1_g266220' => 'hma', 'Hma1.2p1_2167F.1_g315895' => 'hma', 'Hma1.2p1_2190F.1_g316640' => 'hma', 'Hma1.2p1_3645F.1_g337153' => 'hma', 'HPP92_004907' => 'vpl', 'HPP92_012134' => 'vpl', 'HPP92_025136' => 'vpl', 'HPP92_026087' => 'vpl', 'Hund06782' => 'sun', 'Hund06784' => 'sun', 'Lalb_Chr01g0004861' => 'lal', 'Lalb_Chr02g0140591' => 'lal', 'Lalb_Chr02g0140611' => 'lal', 'Lalb_Chr03g0028101' => 'lal', 'Lalb_Chr07g0185791' => 'lal', 'Lalb_Chr12g0204491' => 'lal', 'Lalb_Chr13g0295671' => 'lal', 'Lalb_Chr19g0136461' => 'lal', 'Lalb_Chr21g0309191' => 'lal', 'Lj1g0028158' => 'lja', 'Lj1P236T38' => 'lonja', 'Lj2C32G2' => 'lonja', 'Lj2P944T8' => 'lonja', 'Lj2P963T15' => 'lonja', 'Lj3g0011788' => 'lja', 'Lj4g0025027' => 'lja', 'Lj5P255T36' => 'lonja', 'Lj6g0018866' => 'lja', 'Lj6P608T31' => 'lonja', 'LjContig00408g0008879' => 'lja', 'Lsat_1_v5_gn_5_105820' => 'lsa', 'Lsat_1_v5_gn_6_38800' => 'lsa', 'Lsat_1_v5_gn_7_67141' => 'lsa', 'Manes.04G003400' => 'mes', 'Manes.07G020000' => 'mes', 'Manes.07G020100' => 'mes', 'Manes.07G020150' => 'mes', 'Manes.10G061500' => 'mes', 'Manes.10G123200' => 'mes', 'Manes.11G161900' => 'mes', 'Manes.15G029300' => 'mes', 'Mapoly0071s0018' => 'mpo', 'Mapoly0082s0023' => 'mpo', 'Mapoly3477s0001' => 'mpo', 'MBI05_g31233_MAGBIO' => 'mbi', 'MBI09_g05946_MAGBIO' => 'mbi', 'MBI09_g05947_MAGBIO' => 'mbi', 'MBI17_g08346_MAGBIO' => 'mbi', 'MCO04G038' => 'mco', 'MCO09G370' => 'mco', 'MCO13G605' => 'mco', 'MD00G1075500' => 'mdo', 'MD03G1144300' => 'mdo', 'MD08G1236800' => 'mdo', 'MD13G1193300' => 'mdo', 'MD15G1428700' => 'mdo', 'Medtr1g112030' => 'mtr', 'Medtr1g112050' => 'mtr', 'Medtr2g006290' => 'mtr', 'Medtr2g086510' => 'mtr', 'Medtr4g053120' => 'mtr', 'Medtr5g006320' => 'mtr', 'Medtr8g088720' => 'mtr', 'MELO3C004712.2' => 'cme', 'MELO3C006533.2' => 'cme', 'MELO3C019438.2' => 'cme', 'MELO3C019440.2' => 'cme', 'MELO3C019441.2' => 'cme', 'MELO3C019895.2' => 'cme', 'Migut.B00811' => 'egut', 'Migut.D02447' => 'egut', 'Migut.F00875' => 'egut', 'Migut.N00186' => 'egut', 'Migut.N01051' => 'egut', 'Migut.N02491' => 'egut', 'Migut.O00784' => 'egut', 'MSTRG.12367' => 'ama', 'MSTRG.18756' => 'ama', 'MSTRG.21042' => 'ama', 'Nitab4.5_0000559g0040' => 'nta', 'Nitab4.5_0000667g0190' => 'nta', 'Nitab4.5_0000755g0160' => 'nta', 'Nitab4.5_0001216g0080' => 'nta', 'Nitab4.5_0004069g0040' => 'nta', 'Nitab4.5_0004129g0010' => 'nta', 'Nitab4.5_0005744g0030' => 'nta', 'Nitab4.5_0006996g0030' => 'nta', 'Nitab4.5_0008971g0040' => 'nta', 'Nitab4.5_0009769g0020' => 'nta', 'Nitab4.5_0009833g0010' => 'nta', 'Nitab4.5_0013140g0020' => 'nta', 'Nn003s41376' => 'nnu', 'Nn1g01857' => 'nnu', 'Nn1g03611' => 'nnu', 'Nn1g06853' => 'nnu', 'Nn3g18360' => 'nnu', 'Nn4g26328' => 'nnu', 'Nn5g27531' => 'nnu', 'Nn6g34899' => 'nnu', 'Nn7g36299' => 'nnu', 'Oeu021485.1' => 'oeu', 'Oeu022433.1' => 'oeu', 'Oeu032111.1' => 'oeu', 'Oeu051608.1' => 'oeu', 'Os01g0860601' => 'osa', 'Os03g0659200' => 'osa', 'Os03g0835900' => 'osa', 'Os04g0412200' => 'osa', 'Os05g0443500' => 'osa', 'Os07g0251500' => 'osa', 'Os08g0104600' => 'osa', 'Peaxi162Scf00003g00047' => 'pax', 'Peaxi162Scf00003g00052' => 'pax', 'Peaxi162Scf00003g00394' => 'pax', 'Peaxi162Scf00091g00621' => 'pax', 'Peaxi162Scf00152g00146' => 'pax', 'Peaxi162Scf00173g00025' => 'pax', 'Peaxi162Scf00195g00102' => 'pax', 'Peaxi162Scf00402g00013' => 'pax', 'Peaxi162Scf00519g00618' => 'pax', 'PGR004G2838' => 'pgr', 'PGR044G2275' => 'pgr', 'PGR102G1377' => 'pgr', 'PGR119G1245' => 'pgr', 'PGR142G4449' => 'pgr', 'PGSC0003DMG400004532' => 'stu', 'PGSC0003DMG400011950' => 'stu', 'PGSC0003DMG400023391' => 'stu', 'PGSC0003DMG400023985' => 'stu', 'PGSC0003DMG400026360' => 'stu', 'PGSC0003DMG400035711' => 'stu', 'PGSC0003DMG400037286' => 'stu', 'PGSC0003DMG402005881' => 'stu', 'Phvul.002G045400' => 'pvu', 'Phvul.006G216600' => 'pvu', 'Phvul.006G216700' => 'pvu', 'Phvul.006G216800' => 'pvu', 'Phvul.007G022500' => 'pvu', 'Phvul.011G094400' => 'pvu', 'Potri.001G470700' => 'ptr', 'Potri.003G015200' => 'ptr', 'Potri.004G202500' => 'ptr', 'Potri.004G218400' => 'ptr', 'Potri.008G020100' => 'ptr', 'Potri.008G153200' => 'ptr', 'Potri.009G163800' => 'ptr', 'Potri.010G087300' => 'ptr', 'Potri.010G239100' => 'ptr', 'Pp3c10_16100' => 'ppa', 'Pp3c10_16880' => 'ppa', 'Pp3c16_6230' => 'ppa', 'Pp3c17_18910' => 'ppa', 'Pp3c3_22119' => 'ppa', 'Pp3c3_22140' => 'ppa', 'Pp3c4_8159' => 'ppa', 'Pp3c4_8171' => 'ppa', 'Pp3c4_8330' => 'ppa', 'PRCOL_00004098' => 'pco', 'Prupe.1G013900' => 'ppe', 'Prupe.1G226300' => 'ppe', 'Prupe.1G573600' => 'ppe', 'Prupe.6G130100' => 'ppe', 'Psat3g090040' => 'psa', 'Psat4g210440' => 'psa', 'Psat6g231040' => 'psa', 'Psat6g231080' => 'psa', 'Psat7g063000' => 'psa', 'Psat7g188000' => 'psa', 'Psat7g188040' => 'psa', 'PSO017G0206' => 'pso', 'PSO170G0501' => 'pso', 'PSO170G6422' => 'pso', 'PSO210G7739' => 'pso', 'PSO339G1808' => 'pso', 'PSO339G6135' => 'pso', 'PSO384G0010' => 'pso', 'PSO384G0964' => 'pso', 'PSO761G0050' => 'pso', 'PSO782G4085' => 'pso', 'QL01p012264' => 'qlo', 'QL02p099491' => 'qlo', 'QL03p033868' => 'qlo', 'QL04p046678' => 'qlo', 'QL06p002448' => 'qlo', 'RcHm_v2.0_Chr4g0416181' => 'rch', 'RcHm_v2.0_Chr5g0044701' => 'rch', 'RcHm_v2.0_Chr6g0265781' => 'rch', 'RcHm_v2.0_Chr7g0221031' => 'rch', 'Rhsim04G0202000' => 'rsi', 'Rhsim11G0127300' => 'rsi', 'Rhsim13G0111800' => 'rsi', 'Sabra01G0165600' => 'sbr', 'Sabra03G0008300' => 'sbr', 'Sabra04G0136900' => 'sbr', 'Sabra08G0013400' => 'sbr', 'Sabra08G0116800' => 'sbr', 'Sabra09G0128000' => 'sbr', 'Sabra10G0055500' => 'sbr', 'Sabra10G0073300' => 'sbr', 'SalBow3G0385' => 'sbo', 'SalBow3G1119' => 'sbo', 'SalBow3G2005' => 'sbo', 'SalBow6G2563' => 'sbo', 'SalBow6G6386' => 'sbo', 'Sc06g0008800' => 'sci', 'Sc07g0004950' => 'sci', 'Sc09g0005340' => 'sci', 'Sc13g0004410' => 'sci', 'Sc21g0007090' => 'sci', 'Sed0009285' => 'sed', 'Sed0017583' => 'sed', 'Sed0019699' => 'sed', 'Sed0023107' => 'sed', 'SEGI_10916' => 'sgi', 'SEGI_16217' => 'sgi', 'SEGI_19466' => 'sgi', 'SEGI_41115' => 'sgi', 'SGA_v2.0_scaffold111G31534' => 'sas', 'SGA_v2.0_scaffold22G09864' => 'sas', 'SGA_v2.0_scaffold338G49219' => 'sas', 'SGA_v2.0_scaffold92G28298' => 'sas', 'SMO119G0064' => 'smo', 'SMO223G0038' => 'smo', 'SMO347G0584' => 'smo', 'SMO351G0010' => 'smo', 'SMO356G0404' => 'smo', 'Solyc01g103920.3' => 'sly', 'Solyc04g009710.2' => 'sly', 'Solyc05g055280.2' => 'sly', 'Solyc10g044520.3' => 'sly', 'Solyc10g075160.1' => 'sly', 'Solyc11g006910.3' => 'sly', 'Solyc11g068430.3' => 'sly', 'Sopen01g046310' => 'spe', 'Sopen03g001200' => 'spe', 'Sopen04g004830' => 'spe', 'Sopen05g033720' => 'spe', 'Sopen06g030740' => 'spe', 'Sopen10g013090' => 'spe', 'Sopen10g027630' => 'spe', 'Sopen10g027640' => 'spe', 'Sopen11g002820' => 'spe', 'Sopen11g027140' => 'spe', 'Sp1g09680' => 'spa', 'Sp2g03630' => 'spa', 'Sp4g10320' => 'spa', 'Sp6g33400' => 'spa', 'Sp7g13030' => 'spa', 'TAR365G0317' => 'tar', 'TAR376G0979' => 'tar', 'TAR623G1665' => 'tar', 'TAR633G2373' => 'tar', 'TAR636G1400' => 'tar', 'THA.LOC104800529' => 'tha', 'THA.LOC104808547' => 'tha', 'THA.LOC104809615' => 'tha', 'THA.LOC104815724' => 'tha', 'THA.LOC104818480' => 'tha', 'THA.LOC104819179' => 'tha', 'THA.LOC104822270' => 'tha', 'THA.LOC104826425' => 'tha', 'Thecc.02G089700' => 'tca', 'Thecc.04G232300' => 'tca', 'Thecc.09G283400' => 'tca', 'Thhalv10009020m.g' => 'esa', 'Thhalv10015506m.g' => 'esa', 'Thhalv10017364m.g' => 'esa', 'Thhalv10023742m.g' => 'esa', 'Thhalv10026483m.g' => 'esa', 'TPR.G17232' => 'tpr', 'TPR.G2133' => 'tpr', 'TPR.G2498' => 'tpr', 'TPR.G31942' => 'tpr', 'TPR.G37877' => 'tpr', 'TPR.G4571' => 'tpr', 'TWI14G1113' => 'twi', 'TWI15G0426' => 'twi', 'TWI31G1005' => 'twi', 'TWI38G0513' => 'twi', 'TWI38G1484' => 'twi', 'TWI73G1098' => 'twi', 'unitig_26.g10519' => 'ugi', 'unitig_736.g22395' => 'ugi', 'unitig_747.g21234' => 'ugi', 'unitig_747.g21942' => 'ugi', 'vmacro14351' => 'vma', 'VMungo0540G0082' => 'vmu', 'VMungo0540G0405' => 'vmu', 'VMungo0540G1486' => 'vmu', 'VMungo0540G1692' => 'vmu', 'VMungo0720G2473' => 'vmu', 'VMungo1127G1562' => 'vmu', 'VMungo1215G1918' => 'vmu', 'Zm00001eb052650' => 'zma', 'Zm00001eb063710' => 'zma', 'Zm00001eb083950' => 'zma', 'Zm00001eb174420' => 'zma', 'Zm00001eb260140' => 'zma', 'Zm00001eb260150' => 'zma', 'Zm00001eb260160' => 'zma', 'Zm00001eb348290' => 'zma', 'Zm00001eb366870' => 'zma', 'Zm00001eb421930' => 'zma' ), 'gf_id' => 'HOM05D001025', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001025' ), 'data_identifier' => 'HOM05D001025', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001025', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '592', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p22650' => 'bna', 'A01p29720' => 'bna', 'A03p26560' => 'bna', 'A03p68820' => 'bna', 'A04p20980' => 'bna', 'A06p07730' => 'bna', 'A07p18260' => 'bna', 'A08p33710' => 'bna', 'A09p16970' => 'bna', 'A10p27490' => 'bna', 'Aa31LG1G17300' => 'aar', 'Aa31LG1G3910' => 'aar', 'Aa31LG2G9630' => 'aar', 'Aa31LG5G8360' => 'aar', 'Aa31LG9G2410' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4699' => 'aag', 'Actinidia23512' => 'ach', 'Actinidia37080' => 'ach', 'Ah.01g020380' => 'amhyb', 'Ah.08g215710' => 'amhyb', 'Ah.09g225110' => 'amhyb', 'Ah.10g036680' => 'amhyb', 'AL1G21940' => 'aly', 'AL2G15540' => 'aly', 'AL4G21520' => 'aly', 'AL7G40960' => 'aly', 'Aqoxy2G01191' => 'aox', 'Aqoxy2G03393' => 'aox', 'Aqoxy4G02775' => 'aox', 'Aqoxy6G00058' => 'aox', 'arahy.Tifrunner.gnm1.ann1.9X74H2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CW3FX9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R485W7' => 'arhy', 'AT1G10960' => 'ath', 'AT1G60950' => 'ath', 'AT2G27510' => 'ath', 'AT4G14890' => 'ath', 'AT5G10000' => 'ath', 'ATR0665G624' => 'atr', 'ATR0697G138' => 'atr', 'ATR0776G046' => 'atr', 'ATR1134G135' => 'atr', 'Atru.chr12.1025' => 'acertr', 'Atru.chr3.3241' => 'acertr', 'Atru.chr4.2460' => 'acertr', 'AUR62007427' => 'cqu', 'AUR62010960' => 'cqu', 'AUR62012201' => 'cqu', 'AUR62021470' => 'cqu', 'AUR62022834' => 'cqu', 'AUR62033635' => 'cqu', 'AUR62036186' => 'cqu', 'BcaB01g03077' => 'bca', 'BcaB02g10093' => 'bca', 'BcaB04g20295' => 'bca', 'BcaB06g28147' => 'bca', 'BcaB07g31253' => 'bca', 'BcaC01g04946' => 'bca', 'BcaC02g10614' => 'bca', 'BcaC02g10885' => 'bca', 'BcaC04g19356' => 'bca', 'BcaC04g22297' => 'bca', 'BcaC05g24977' => 'bca', 'BcaC06g31823' => 'bca', 'BcaC07g38633' => 'bca', 'BcaC09g49353' => 'bca', 'BcaC09g50168' => 'bca', 'BcaNung00322' => 'bca', 'BcaNung04769' => 'bca', 'BolC1t02753H' => 'bol', 'BolC1t03721H' => 'bol', 'BolC3t15525H' => 'bol', 'BolC4t23903H' => 'bol', 'BolC4t24231H' => 'bol', 'BolC4t27209H' => 'bol', 'BolC5t29671H' => 'bol', 'BolC8t49044H' => 'bol', 'BolC9t54999H' => 'bol', 'BolC9t59517H' => 'bol', 'BraA01t02178Z' => 'bra', 'BraA01t03099Z' => 'bra', 'BraA03t11867Z' => 'bra', 'BraA04t17667Z' => 'bra', 'BraA07t29542Z' => 'bra', 'BraA08t35287Z' => 'bra', 'BraA09t37334Z' => 'bra', 'BraA10t44801Z' => 'bra', 'BraSC39t46181Z' => 'bra', 'C01p28240' => 'bna', 'C01p37530' => 'bna', 'C03p31820' => 'bna', 'C04p24080' => 'bna', 'C04p25790' => 'bna', 'C04p56770' => 'bna', 'C05p09310' => 'bna', 'C09p21010' => 'bna', 'C09p67560' => 'bna', 'CAN.G1324.7' => 'can', 'CAN.G1358.10' => 'can', 'CAN.G1550.2' => 'can', 'CAN.G186.56' => 'can', 'CAN.G1965.1' => 'can', 'CAN.G645.15' => 'can', 'CAN.G798.26' => 'can', 'CAN.G798.27' => 'can', 'CAN.G798.29' => 'can', 'CAN.G919.31' => 'can', 'CANSAT11G0133' => 'cansat', 'CANSAT11G1171' => 'cansat', 'CANSAT11G2056' => 'cansat', 'CANSAT56G1202' => 'cansat', 'CANSAT56G1514' => 'cansat', 'CANSAT78G0455' => 'cansat', 'CARHR011190' => 'chi', 'CARHR051980' => 'chi', 'CARHR120170' => 'chi', 'CARHR203310' => 'chi', 'CARHR221490' => 'chi', 'Carub.0001s1054' => 'cru', 'Carub.0002s0431' => 'cru', 'Carub.0004s0818' => 'cru', 'Carub.0006s0846' => 'cru', 'Carub.0007s2722' => 'cru', 'Ca_00058_v3' => 'car', 'Ca_17831_v3' => 'car', 'Ca_19408_v3' => 'car', 'Ca_24397_v3' => 'car', 'Ca_25664_v3' => 'car', 'CBR_g21818' => 'cbr', 'CBR_g31195' => 'cbr', 'CBR_g32282' => 'cbr', 'CBR_g39599' => 'cbr', 'CBR_g49410' => 'cbr', 'Cc01_g09120' => 'ccan', 'Cc01_g09130' => 'ccan', 'Cc02_g09630' => 'ccan', 'Cc02_g22810' => 'ccan', 'Cc03_g03810' => 'ccan', 'CDE02G3718' => 'cde', 'CDE04G3183' => 'cde', 'CDE07G1046' => 'cde', 'CDE08G0480' => 'cde', 'Cfa005493' => 'cfa', 'Cfa010312' => 'cfa', 'Cfa015648' => 'cfa', 'Ciclev10002793m.g' => 'ccl', 'Ciclev10003356m.g' => 'ccl', 'Ciclev10006141m.g' => 'ccl', 'Ciclev10016676m.g' => 'ccl', 'Ciclev10017081m.g' => 'ccl', 'Ciclev10029499m.g' => 'ccl', 'CiPaw.01G166300' => 'cil', 'CiPaw.06G145600' => 'cil', 'CiPaw.13G040100' => 'cil', 'CiPaw.13G135800' => 'cil', 'ClCG01G012230' => 'cla', 'ClCG05G009510' => 'cla', 'ClCG08G008270' => 'cla', 'COL.COLO4_11763' => 'col', 'COL.COLO4_19876' => 'col', 'COL.COLO4_21481' => 'col', 'Cpa.g.sc118.34' => 'cpa', 'Cpa.g.sc32.13' => 'cpa', 'Cpa.g.sc58.103' => 'cpa', 'Cre03.g183850' => 'cre', 'Cre06.g306350' => 'cre', 'Cre07.g334800' => 'cre', 'Cre12.g487900' => 'cre', 'Cre14.g626700' => 'cre', 'Cre16.g658400' => 'cre', 'Cre17.g700950' => 'cre', 'CsaV3_1G014830' => 'csa', 'CsaV3_3G013320' => 'csa', 'CsaV3_3G019210' => 'csa', 'CsaV3_3G019220' => 'csa', 'CsaV3_6G004230' => 'csa', 'CSS0003773' => 'camsi', 'CSS0004563' => 'camsi', 'CSS0013949' => 'camsi', 'CSS0025971' => 'camsi', 'CSS0028570' => 'camsi', 'CSS0033127' => 'camsi', 'CSS0036051' => 'camsi', 'CSS0040087' => 'camsi', 'CSS0043179' => 'camsi', 'DCAR_006161' => 'dca', 'DCAR_010351' => 'dca', 'DCAR_012197' => 'dca', 'DCAR_024162' => 'dca', 'Dinv01030' => 'din', 'Dinv10924' => 'din', 'Dinv11835' => 'din', 'Dinv22841' => 'din', 'Dinv42553' => 'din', 'Duzib052G0560' => 'dzi', 'Duzib132G0389' => 'dzi', 'Duzib150G1181' => 'dzi', 'Duzib168G0623' => 'dzi', 'Duzib170G1036' => 'dzi', 'Duzib212G0200' => 'dzi', 'Duzib248G0194' => 'dzi', 'ECA232G2193' => 'eca', 'ECA233G0302' => 'eca', 'ECA234G2813' => 'eca', 'ECA234G4866' => 'eca', 'ECA240G3932' => 'eca', 'ECA248G0385' => 'eca', 'EL10Ac2g04781' => 'bvu', 'EL10Ac3g06445' => 'bvu', 'EL10Ac7g15825' => 'bvu', 'EL10Ac8g18550' => 'bvu', 'Eucgr.B03849' => 'egr', 'Eucgr.I02744' => 'egr', 'Eucgr.J00264' => 'egr', 'Eucgr.J00493' => 'egr', 'FAN04G2181' => 'fan', 'FAN07G2666' => 'fan', 'FAN11G0024' => 'fan', 'FAN12G1105' => 'fan', 'FAN13G0302' => 'fan', 'FAN15G2781' => 'fan', 'FAN16G1274' => 'fan', 'FAN17G2988' => 'fan', 'FAN18G2621' => 'fan', 'FAN21G0013' => 'fan', 'FAN22G1211' => 'fan', 'FAN25G3626' => 'fan', 'FvH4_2g09491' => 'fve', 'FvH4_3g24910' => 'fve', 'FvH4_4g15630' => 'fve', 'FvH4_5g28820' => 'fve', 'Glyma.01G238000' => 'gma', 'Glyma.05G168400' => 'gma', 'Glyma.08G126800' => 'gma', 'Glyma.08G188500' => 'gma', 'Glyma.10G278900' => 'gma', 'Glyma.11G005700' => 'gma', 'Glyma.11G183300' => 'gma', 'Glyma.12G089200' => 'gma', 'Glyma.12G169400' => 'gma', 'Glyma.12G169500' => 'gma', 'Glyma.12G169600' => 'gma', 'Glyma.20G110800' => 'gma', 'Gohir.A03G192900' => 'ghi', 'Gohir.A03G193000' => 'ghi', 'Gohir.A05G080700' => 'ghi', 'Gohir.A09G216000' => 'ghi', 'Gohir.A12G027700' => 'ghi', 'Gohir.A13G036200' => 'ghi', 'Gohir.A13G222600' => 'ghi', 'Gohir.D02G213900' => 'ghi', 'Gohir.D02G214000' => 'ghi', 'Gohir.D05G083700' => 'ghi', 'Gohir.D05G083800' => 'ghi', 'Gohir.D05G083850' => 'ghi', 'Gohir.D08G015400' => 'ghi', 'Gohir.D09G218400' => 'ghi', 'Gohir.D12G027100' => 'ghi', 'Gohir.D13G034500' => 'ghi', 'Gohir.D13G227400' => 'ghi', 'Gorai.005G241800' => 'gra', 'Gorai.005G241900' => 'gra', 'Gorai.006G239400' => 'gra', 'Gorai.008G027600' => 'gra', 'Gorai.009G085400' => 'gra', 'Gorai.009G085500' => 'gra', 'Gorai.013G039000' => 'gra', 'Gorai.013G194800' => 'gra', 'Gorai.013G257900' => 'gra', 'GSVIVG01000982001' => 'vvi', 'GSVIVG01017981001' => 'vvi', 'HanXRQChr01g0024061' => 'han', 'HanXRQChr09g0247831' => 'han', 'HanXRQChr10g0294611' => 'han', 'HanXRQChr10g0294621' => 'han', 'HanXRQChr11g0346821' => 'han', 'HanXRQChr13g0397461' => 'han', 'HanXRQChr16g0513651' => 'han', 'HanXRQChr16g0513701' => 'han', 'Haze_00897' => 'cav', 'Haze_01745' => 'cav', 'Haze_02486' => 'cav', 'Haze_02487' => 'cav', 'Haze_23374' => 'cav', 'Hma1.2p1_0578F.1_g182520' => 'hma', 'Hma1.2p1_0602F.1_g187350' => 'hma', 'Hma1.2p1_0602F.1_g187360' => 'hma', 'Hma1.2p1_0874F.1_g231320' => 'hma', 'Hma1.2p1_1197F.1_g266210' => 'hma', 'Hma1.2p1_1197F.1_g266220' => 'hma', 'Hma1.2p1_2167F.1_g315895' => 'hma', 'Hma1.2p1_2190F.1_g316640' => 'hma', 'Hma1.2p1_3645F.1_g337153' => 'hma', 'HPP92_004907' => 'vpl', 'HPP92_012134' => 'vpl', 'HPP92_025136' => 'vpl', 'HPP92_026087' => 'vpl', 'Hund06782' => 'sun', 'Hund06784' => 'sun', 'Lalb_Chr01g0004861' => 'lal', 'Lalb_Chr02g0140591' => 'lal', 'Lalb_Chr02g0140611' => 'lal', 'Lalb_Chr03g0028101' => 'lal', 'Lalb_Chr07g0185791' => 'lal', 'Lalb_Chr12g0204491' => 'lal', 'Lalb_Chr13g0295671' => 'lal', 'Lalb_Chr19g0136461' => 'lal', 'Lalb_Chr21g0309191' => 'lal', 'Lj1g0028158' => 'lja', 'Lj1P236T38' => 'lonja', 'Lj2C32G2' => 'lonja', 'Lj2P944T8' => 'lonja', 'Lj2P963T15' => 'lonja', 'Lj3g0011788' => 'lja', 'Lj4g0025027' => 'lja', 'Lj5P255T36' => 'lonja', 'Lj6g0018866' => 'lja', 'Lj6P608T31' => 'lonja', 'LjContig00408g0008879' => 'lja', 'Lsat_1_v5_gn_5_105820' => 'lsa', 'Lsat_1_v5_gn_6_38800' => 'lsa', 'Lsat_1_v5_gn_7_67141' => 'lsa', 'Manes.04G003400' => 'mes', 'Manes.07G020000' => 'mes', 'Manes.07G020100' => 'mes', 'Manes.07G020150' => 'mes', 'Manes.10G061500' => 'mes', 'Manes.10G123200' => 'mes', 'Manes.11G161900' => 'mes', 'Manes.15G029300' => 'mes', 'Mapoly0071s0018' => 'mpo', 'Mapoly0082s0023' => 'mpo', 'Mapoly3477s0001' => 'mpo', 'MBI05_g31233_MAGBIO' => 'mbi', 'MBI09_g05946_MAGBIO' => 'mbi', 'MBI09_g05947_MAGBIO' => 'mbi', 'MBI17_g08346_MAGBIO' => 'mbi', 'MCO04G038' => 'mco', 'MCO09G370' => 'mco', 'MCO13G605' => 'mco', 'MD00G1075500' => 'mdo', 'MD03G1144300' => 'mdo', 'MD08G1236800' => 'mdo', 'MD13G1193300' => 'mdo', 'MD15G1428700' => 'mdo', 'Medtr1g112030' => 'mtr', 'Medtr1g112050' => 'mtr', 'Medtr2g006290' => 'mtr', 'Medtr2g086510' => 'mtr', 'Medtr4g053120' => 'mtr', 'Medtr5g006320' => 'mtr', 'Medtr8g088720' => 'mtr', 'MELO3C004712.2' => 'cme', 'MELO3C006533.2' => 'cme', 'MELO3C019438.2' => 'cme', 'MELO3C019440.2' => 'cme', 'MELO3C019441.2' => 'cme', 'MELO3C019895.2' => 'cme', 'Migut.B00811' => 'egut', 'Migut.D02447' => 'egut', 'Migut.F00875' => 'egut', 'Migut.N00186' => 'egut', 'Migut.N01051' => 'egut', 'Migut.N02491' => 'egut', 'Migut.O00784' => 'egut', 'MSTRG.12367' => 'ama', 'MSTRG.18756' => 'ama', 'MSTRG.21042' => 'ama', 'Nitab4.5_0000559g0040' => 'nta', 'Nitab4.5_0000667g0190' => 'nta', 'Nitab4.5_0000755g0160' => 'nta', 'Nitab4.5_0001216g0080' => 'nta', 'Nitab4.5_0004069g0040' => 'nta', 'Nitab4.5_0004129g0010' => 'nta', 'Nitab4.5_0005744g0030' => 'nta', 'Nitab4.5_0006996g0030' => 'nta', 'Nitab4.5_0008971g0040' => 'nta', 'Nitab4.5_0009769g0020' => 'nta', 'Nitab4.5_0009833g0010' => 'nta', 'Nitab4.5_0013140g0020' => 'nta', 'Nn003s41376' => 'nnu', 'Nn1g01857' => 'nnu', 'Nn1g03611' => 'nnu', 'Nn1g06853' => 'nnu', 'Nn3g18360' => 'nnu', 'Nn4g26328' => 'nnu', 'Nn5g27531' => 'nnu', 'Nn6g34899' => 'nnu', 'Nn7g36299' => 'nnu', 'Oeu021485.1' => 'oeu', 'Oeu022433.1' => 'oeu', 'Oeu032111.1' => 'oeu', 'Oeu051608.1' => 'oeu', 'Os01g0860601' => 'osa', 'Os03g0659200' => 'osa', 'Os03g0835900' => 'osa', 'Os04g0412200' => 'osa', 'Os05g0443500' => 'osa', 'Os07g0251500' => 'osa', 'Os08g0104600' => 'osa', 'Peaxi162Scf00003g00047' => 'pax', 'Peaxi162Scf00003g00052' => 'pax', 'Peaxi162Scf00003g00394' => 'pax', 'Peaxi162Scf00091g00621' => 'pax', 'Peaxi162Scf00152g00146' => 'pax', 'Peaxi162Scf00173g00025' => 'pax', 'Peaxi162Scf00195g00102' => 'pax', 'Peaxi162Scf00402g00013' => 'pax', 'Peaxi162Scf00519g00618' => 'pax', 'PGR004G2838' => 'pgr', 'PGR044G2275' => 'pgr', 'PGR102G1377' => 'pgr', 'PGR119G1245' => 'pgr', 'PGR142G4449' => 'pgr', 'PGSC0003DMG400004532' => 'stu', 'PGSC0003DMG400011950' => 'stu', 'PGSC0003DMG400023391' => 'stu', 'PGSC0003DMG400023985' => 'stu', 'PGSC0003DMG400026360' => 'stu', 'PGSC0003DMG400035711' => 'stu', 'PGSC0003DMG400037286' => 'stu', 'PGSC0003DMG402005881' => 'stu', 'Phvul.002G045400' => 'pvu', 'Phvul.006G216600' => 'pvu', 'Phvul.006G216700' => 'pvu', 'Phvul.006G216800' => 'pvu', 'Phvul.007G022500' => 'pvu', 'Phvul.011G094400' => 'pvu', 'Potri.001G470700' => 'ptr', 'Potri.003G015200' => 'ptr', 'Potri.004G202500' => 'ptr', 'Potri.004G218400' => 'ptr', 'Potri.008G020100' => 'ptr', 'Potri.008G153200' => 'ptr', 'Potri.009G163800' => 'ptr', 'Potri.010G087300' => 'ptr', 'Potri.010G239100' => 'ptr', 'Pp3c10_16100' => 'ppa', 'Pp3c10_16880' => 'ppa', 'Pp3c16_6230' => 'ppa', 'Pp3c17_18910' => 'ppa', 'Pp3c3_22119' => 'ppa', 'Pp3c3_22140' => 'ppa', 'Pp3c4_8159' => 'ppa', 'Pp3c4_8171' => 'ppa', 'Pp3c4_8330' => 'ppa', 'PRCOL_00004098' => 'pco', 'Prupe.1G013900' => 'ppe', 'Prupe.1G226300' => 'ppe', 'Prupe.1G573600' => 'ppe', 'Prupe.6G130100' => 'ppe', 'Psat3g090040' => 'psa', 'Psat4g210440' => 'psa', 'Psat6g231040' => 'psa', 'Psat6g231080' => 'psa', 'Psat7g063000' => 'psa', 'Psat7g188000' => 'psa', 'Psat7g188040' => 'psa', 'PSO017G0206' => 'pso', 'PSO170G0501' => 'pso', 'PSO170G6422' => 'pso', 'PSO210G7739' => 'pso', 'PSO339G1808' => 'pso', 'PSO339G6135' => 'pso', 'PSO384G0010' => 'pso', 'PSO384G0964' => 'pso', 'PSO761G0050' => 'pso', 'PSO782G4085' => 'pso', 'QL01p012264' => 'qlo', 'QL02p099491' => 'qlo', 'QL03p033868' => 'qlo', 'QL04p046678' => 'qlo', 'QL06p002448' => 'qlo', 'RcHm_v2.0_Chr4g0416181' => 'rch', 'RcHm_v2.0_Chr5g0044701' => 'rch', 'RcHm_v2.0_Chr6g0265781' => 'rch', 'RcHm_v2.0_Chr7g0221031' => 'rch', 'Rhsim04G0202000' => 'rsi', 'Rhsim11G0127300' => 'rsi', 'Rhsim13G0111800' => 'rsi', 'Sabra01G0165600' => 'sbr', 'Sabra03G0008300' => 'sbr', 'Sabra04G0136900' => 'sbr', 'Sabra08G0013400' => 'sbr', 'Sabra08G0116800' => 'sbr', 'Sabra09G0128000' => 'sbr', 'Sabra10G0055500' => 'sbr', 'Sabra10G0073300' => 'sbr', 'SalBow3G0385' => 'sbo', 'SalBow3G1119' => 'sbo', 'SalBow3G2005' => 'sbo', 'SalBow6G2563' => 'sbo', 'SalBow6G6386' => 'sbo', 'Sc06g0008800' => 'sci', 'Sc07g0004950' => 'sci', 'Sc09g0005340' => 'sci', 'Sc13g0004410' => 'sci', 'Sc21g0007090' => 'sci', 'Sed0009285' => 'sed', 'Sed0017583' => 'sed', 'Sed0019699' => 'sed', 'Sed0023107' => 'sed', 'SEGI_10916' => 'sgi', 'SEGI_16217' => 'sgi', 'SEGI_19466' => 'sgi', 'SEGI_41115' => 'sgi', 'SGA_v2.0_scaffold111G31534' => 'sas', 'SGA_v2.0_scaffold22G09864' => 'sas', 'SGA_v2.0_scaffold338G49219' => 'sas', 'SGA_v2.0_scaffold92G28298' => 'sas', 'SMO119G0064' => 'smo', 'SMO223G0038' => 'smo', 'SMO347G0584' => 'smo', 'SMO351G0010' => 'smo', 'SMO356G0404' => 'smo', 'Solyc01g103920.3' => 'sly', 'Solyc04g009710.2' => 'sly', 'Solyc05g055280.2' => 'sly', 'Solyc10g044520.3' => 'sly', 'Solyc10g075160.1' => 'sly', 'Solyc11g006910.3' => 'sly', 'Solyc11g068430.3' => 'sly', 'Sopen01g046310' => 'spe', 'Sopen03g001200' => 'spe', 'Sopen04g004830' => 'spe', 'Sopen05g033720' => 'spe', 'Sopen06g030740' => 'spe', 'Sopen10g013090' => 'spe', 'Sopen10g027630' => 'spe', 'Sopen10g027640' => 'spe', 'Sopen11g002820' => 'spe', 'Sopen11g027140' => 'spe', 'Sp1g09680' => 'spa', 'Sp2g03630' => 'spa', 'Sp4g10320' => 'spa', 'Sp6g33400' => 'spa', 'Sp7g13030' => 'spa', 'TAR365G0317' => 'tar', 'TAR376G0979' => 'tar', 'TAR623G1665' => 'tar', 'TAR633G2373' => 'tar', 'TAR636G1400' => 'tar', 'THA.LOC104800529' => 'tha', 'THA.LOC104808547' => 'tha', 'THA.LOC104809615' => 'tha', 'THA.LOC104815724' => 'tha', 'THA.LOC104818480' => 'tha', 'THA.LOC104819179' => 'tha', 'THA.LOC104822270' => 'tha', 'THA.LOC104826425' => 'tha', 'Thecc.02G089700' => 'tca', 'Thecc.04G232300' => 'tca', 'Thecc.09G283400' => 'tca', 'Thhalv10009020m.g' => 'esa', 'Thhalv10015506m.g' => 'esa', 'Thhalv10017364m.g' => 'esa', 'Thhalv10023742m.g' => 'esa', 'Thhalv10026483m.g' => 'esa', 'TPR.G17232' => 'tpr', 'TPR.G2133' => 'tpr', 'TPR.G2498' => 'tpr', 'TPR.G31942' => 'tpr', 'TPR.G37877' => 'tpr', 'TPR.G4571' => 'tpr', 'TWI14G1113' => 'twi', 'TWI15G0426' => 'twi', 'TWI31G1005' => 'twi', 'TWI38G0513' => 'twi', 'TWI38G1484' => 'twi', 'TWI73G1098' => 'twi', 'unitig_26.g10519' => 'ugi', 'unitig_736.g22395' => 'ugi', 'unitig_747.g21234' => 'ugi', 'unitig_747.g21942' => 'ugi', 'vmacro14351' => 'vma', 'VMungo0540G0082' => 'vmu', 'VMungo0540G0405' => 'vmu', 'VMungo0540G1486' => 'vmu', 'VMungo0540G1692' => 'vmu', 'VMungo0720G2473' => 'vmu', 'VMungo1127G1562' => 'vmu', 'VMungo1215G1918' => 'vmu', 'Zm00001eb052650' => 'zma', 'Zm00001eb063710' => 'zma', 'Zm00001eb083950' => 'zma', 'Zm00001eb174420' => 'zma', 'Zm00001eb260140' => 'zma', 'Zm00001eb260150' => 'zma', 'Zm00001eb260160' => 'zma', 'Zm00001eb348290' => 'zma', 'Zm00001eb366870' => 'zma', 'Zm00001eb421930' => 'zma' ) $gf_id = 'HOM05D001025' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001025' ) $data_identifier = 'HOM05D001025' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 19, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 2, 'amhyb' => (int) 4, 'aly' => (int) 4, 'aox' => (int) 4, 'arhy' => (int) 3, 'ath' => (int) 5, 'atr' => (int) 4, 'acertr' => (int) 3, 'cqu' => (int) 7, 'bca' => (int) 17, 'bol' => (int) 10, 'bra' => (int) 9, 'can' => (int) 10, 'cansat' => (int) 6, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 5, 'cbr' => (int) 5, 'ccan' => (int) 5, 'cde' => (int) 4, 'cfa' => (int) 3, 'ccl' => (int) 6, 'cil' => (int) 4, 'cla' => (int) 3, 'col' => (int) 3, 'cpa' => (int) 3, 'cre' => (int) 7, 'csa' => (int) 5, 'camsi' => (int) 9, 'dca' => (int) 4, 'din' => (int) 5, 'dzi' => (int) 7, 'eca' => (int) 6, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 12, 'fve' => (int) 4, 'gma' => (int) 12, 'ghi' => (int) 17, 'gra' => (int) 9, 'vvi' => (int) 2, 'han' => (int) 8, 'cav' => (int) 5, 'hma' => (int) 9, 'vpl' => (int) 4, 'sun' => (int) 2, 'lal' => (int) 9, 'lja' => (int) 5, 'lonja' => (int) 6, 'lsa' => (int) 3, 'mes' => (int) 8, 'mpo' => (int) 3, 'mbi' => (int) 4, 'mco' => (int) 3, 'mdo' => (int) 5, 'mtr' => (int) 7, 'cme' => (int) 6, 'egut' => (int) 7, 'ama' => (int) 3, 'nta' => (int) 12, 'nnu' => (int) 9, 'oeu' => (int) 4, 'osa' => (int) 7, 'pax' => (int) 9, 'pgr' => (int) 5, 'stu' => (int) 8, 'pvu' => (int) 6, 'ptr' => (int) 9, 'ppa' => (int) 9, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 7, 'pso' => (int) 10, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 3, 'sbr' => (int) 8, 'sbo' => (int) 5, 'sci' => (int) 5, 'sed' => (int) 4, 'sgi' => (int) 4, 'sas' => (int) 4, 'smo' => (int) 5, 'sly' => (int) 7, 'spe' => (int) 10, 'spa' => (int) 5, 'tar' => (int) 5, 'tha' => (int) 8, 'tca' => (int) 3, 'esa' => (int) 5, 'tpr' => (int) 6, 'twi' => (int) 6, 'ugi' => (int) 4, 'vma' => (int) 1, 'vmu' => (int) 7, 'zma' => (int) 10 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb421930' $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' => 'HOM05D001025', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '592', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p22650' => 'bna', 'A01p29720' => 'bna', 'A03p26560' => 'bna', 'A03p68820' => 'bna', 'A04p20980' => 'bna', 'A06p07730' => 'bna', 'A07p18260' => 'bna', 'A08p33710' => 'bna', 'A09p16970' => 'bna', 'A10p27490' => 'bna', 'Aa31LG1G17300' => 'aar', 'Aa31LG1G3910' => 'aar', 'Aa31LG2G9630' => 'aar', 'Aa31LG5G8360' => 'aar', 'Aa31LG9G2410' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4699' => 'aag', 'Actinidia23512' => 'ach', 'Actinidia37080' => 'ach', 'Ah.01g020380' => 'amhyb', 'Ah.08g215710' => 'amhyb', 'Ah.09g225110' => 'amhyb', 'Ah.10g036680' => 'amhyb', 'AL1G21940' => 'aly', 'AL2G15540' => 'aly', 'AL4G21520' => 'aly', 'AL7G40960' => 'aly', 'Aqoxy2G01191' => 'aox', 'Aqoxy2G03393' => 'aox', 'Aqoxy4G02775' => 'aox', 'Aqoxy6G00058' => 'aox', 'arahy.Tifrunner.gnm1.ann1.9X74H2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CW3FX9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R485W7' => 'arhy', 'AT1G10960' => 'ath', 'AT1G60950' => 'ath', 'AT2G27510' => 'ath', 'AT4G14890' => 'ath', 'AT5G10000' => 'ath', 'ATR0665G624' => 'atr', 'ATR0697G138' => 'atr', 'ATR0776G046' => 'atr', 'ATR1134G135' => 'atr', 'Atru.chr12.1025' => 'acertr', 'Atru.chr3.3241' => 'acertr', 'Atru.chr4.2460' => 'acertr', 'AUR62007427' => 'cqu', 'AUR62010960' => 'cqu', 'AUR62012201' => 'cqu', 'AUR62021470' => 'cqu', 'AUR62022834' => 'cqu', 'AUR62033635' => 'cqu', 'AUR62036186' => 'cqu', 'BcaB01g03077' => 'bca', 'BcaB02g10093' => 'bca', 'BcaB04g20295' => 'bca', 'BcaB06g28147' => 'bca', 'BcaB07g31253' => 'bca', 'BcaC01g04946' => 'bca', 'BcaC02g10614' => 'bca', 'BcaC02g10885' => 'bca', 'BcaC04g19356' => 'bca', 'BcaC04g22297' => 'bca', 'BcaC05g24977' => 'bca', 'BcaC06g31823' => 'bca', 'BcaC07g38633' => 'bca', 'BcaC09g49353' => 'bca', 'BcaC09g50168' => 'bca', 'BcaNung00322' => 'bca', 'BcaNung04769' => 'bca', 'BolC1t02753H' => 'bol', 'BolC1t03721H' => 'bol', 'BolC3t15525H' => 'bol', 'BolC4t23903H' => 'bol', 'BolC4t24231H' => 'bol', 'BolC4t27209H' => 'bol', 'BolC5t29671H' => 'bol', 'BolC8t49044H' => 'bol', 'BolC9t54999H' => 'bol', 'BolC9t59517H' => 'bol', 'BraA01t02178Z' => 'bra', 'BraA01t03099Z' => 'bra', 'BraA03t11867Z' => 'bra', 'BraA04t17667Z' => 'bra', 'BraA07t29542Z' => 'bra', 'BraA08t35287Z' => 'bra', 'BraA09t37334Z' => 'bra', 'BraA10t44801Z' => 'bra', 'BraSC39t46181Z' => 'bra', 'C01p28240' => 'bna', 'C01p37530' => 'bna', 'C03p31820' => 'bna', 'C04p24080' => 'bna', 'C04p25790' => 'bna', 'C04p56770' => 'bna', 'C05p09310' => 'bna', 'C09p21010' => 'bna', 'C09p67560' => 'bna', 'CAN.G1324.7' => 'can', 'CAN.G1358.10' => 'can', 'CAN.G1550.2' => 'can', 'CAN.G186.56' => 'can', 'CAN.G1965.1' => 'can', 'CAN.G645.15' => 'can', 'CAN.G798.26' => 'can', 'CAN.G798.27' => 'can', 'CAN.G798.29' => 'can', 'CAN.G919.31' => 'can', 'CANSAT11G0133' => 'cansat', 'CANSAT11G1171' => 'cansat', 'CANSAT11G2056' => 'cansat', 'CANSAT56G1202' => 'cansat', 'CANSAT56G1514' => 'cansat', 'CANSAT78G0455' => 'cansat', 'CARHR011190' => 'chi', 'CARHR051980' => 'chi', 'CARHR120170' => 'chi', 'CARHR203310' => 'chi', 'CARHR221490' => 'chi', 'Carub.0001s1054' => 'cru', 'Carub.0002s0431' => 'cru', 'Carub.0004s0818' => 'cru', 'Carub.0006s0846' => 'cru', 'Carub.0007s2722' => 'cru', 'Ca_00058_v3' => 'car', 'Ca_17831_v3' => 'car', 'Ca_19408_v3' => 'car', 'Ca_24397_v3' => 'car', 'Ca_25664_v3' => 'car', 'CBR_g21818' => 'cbr', 'CBR_g31195' => 'cbr', 'CBR_g32282' => 'cbr', 'CBR_g39599' => 'cbr', 'CBR_g49410' => 'cbr', 'Cc01_g09120' => 'ccan', 'Cc01_g09130' => 'ccan', 'Cc02_g09630' => 'ccan', 'Cc02_g22810' => 'ccan', 'Cc03_g03810' => 'ccan', 'CDE02G3718' => 'cde', 'CDE04G3183' => 'cde', 'CDE07G1046' => 'cde', 'CDE08G0480' => 'cde', 'Cfa005493' => 'cfa', 'Cfa010312' => 'cfa', 'Cfa015648' => 'cfa', 'Ciclev10002793m.g' => 'ccl', 'Ciclev10003356m.g' => 'ccl', 'Ciclev10006141m.g' => 'ccl', 'Ciclev10016676m.g' => 'ccl', 'Ciclev10017081m.g' => 'ccl', 'Ciclev10029499m.g' => 'ccl', 'CiPaw.01G166300' => 'cil', 'CiPaw.06G145600' => 'cil', 'CiPaw.13G040100' => 'cil', 'CiPaw.13G135800' => 'cil', 'ClCG01G012230' => 'cla', 'ClCG05G009510' => 'cla', 'ClCG08G008270' => 'cla', 'COL.COLO4_11763' => 'col', 'COL.COLO4_19876' => 'col', 'COL.COLO4_21481' => 'col', 'Cpa.g.sc118.34' => 'cpa', 'Cpa.g.sc32.13' => 'cpa', 'Cpa.g.sc58.103' => 'cpa', 'Cre03.g183850' => 'cre', 'Cre06.g306350' => 'cre', 'Cre07.g334800' => 'cre', 'Cre12.g487900' => 'cre', 'Cre14.g626700' => 'cre', 'Cre16.g658400' => 'cre', 'Cre17.g700950' => 'cre', 'CsaV3_1G014830' => 'csa', 'CsaV3_3G013320' => 'csa', 'CsaV3_3G019210' => 'csa', 'CsaV3_3G019220' => 'csa', 'CsaV3_6G004230' => 'csa', 'CSS0003773' => 'camsi', 'CSS0004563' => 'camsi', 'CSS0013949' => 'camsi', 'CSS0025971' => 'camsi', 'CSS0028570' => 'camsi', 'CSS0033127' => 'camsi', 'CSS0036051' => 'camsi', 'CSS0040087' => 'camsi', 'CSS0043179' => 'camsi', 'DCAR_006161' => 'dca', 'DCAR_010351' => 'dca', 'DCAR_012197' => 'dca', 'DCAR_024162' => 'dca', 'Dinv01030' => 'din', 'Dinv10924' => 'din', 'Dinv11835' => 'din', 'Dinv22841' => 'din', 'Dinv42553' => 'din', 'Duzib052G0560' => 'dzi', 'Duzib132G0389' => 'dzi', 'Duzib150G1181' => 'dzi', 'Duzib168G0623' => 'dzi', 'Duzib170G1036' => 'dzi', 'Duzib212G0200' => 'dzi', 'Duzib248G0194' => 'dzi', 'ECA232G2193' => 'eca', 'ECA233G0302' => 'eca', 'ECA234G2813' => 'eca', 'ECA234G4866' => 'eca', 'ECA240G3932' => 'eca', 'ECA248G0385' => 'eca', 'EL10Ac2g04781' => 'bvu', 'EL10Ac3g06445' => 'bvu', 'EL10Ac7g15825' => 'bvu', 'EL10Ac8g18550' => 'bvu', 'Eucgr.B03849' => 'egr', 'Eucgr.I02744' => 'egr', 'Eucgr.J00264' => 'egr', 'Eucgr.J00493' => 'egr', 'FAN04G2181' => 'fan', 'FAN07G2666' => 'fan', 'FAN11G0024' => 'fan', 'FAN12G1105' => 'fan', 'FAN13G0302' => 'fan', 'FAN15G2781' => 'fan', 'FAN16G1274' => 'fan', 'FAN17G2988' => 'fan', 'FAN18G2621' => 'fan', 'FAN21G0013' => 'fan', 'FAN22G1211' => 'fan', 'FAN25G3626' => 'fan', 'FvH4_2g09491' => 'fve', 'FvH4_3g24910' => 'fve', 'FvH4_4g15630' => 'fve', 'FvH4_5g28820' => 'fve', 'Glyma.01G238000' => 'gma', 'Glyma.05G168400' => 'gma', 'Glyma.08G126800' => 'gma', 'Glyma.08G188500' => 'gma', 'Glyma.10G278900' => 'gma', 'Glyma.11G005700' => 'gma', 'Glyma.11G183300' => 'gma', 'Glyma.12G089200' => 'gma', 'Glyma.12G169400' => 'gma', 'Glyma.12G169500' => 'gma', 'Glyma.12G169600' => 'gma', 'Glyma.20G110800' => 'gma', 'Gohir.A03G192900' => 'ghi', 'Gohir.A03G193000' => 'ghi', 'Gohir.A05G080700' => 'ghi', 'Gohir.A09G216000' => 'ghi', 'Gohir.A12G027700' => 'ghi', 'Gohir.A13G036200' => 'ghi', 'Gohir.A13G222600' => 'ghi', 'Gohir.D02G213900' => 'ghi', 'Gohir.D02G214000' => 'ghi', 'Gohir.D05G083700' => 'ghi', 'Gohir.D05G083800' => 'ghi', 'Gohir.D05G083850' => 'ghi', 'Gohir.D08G015400' => 'ghi', 'Gohir.D09G218400' => 'ghi', 'Gohir.D12G027100' => 'ghi', 'Gohir.D13G034500' => 'ghi', 'Gohir.D13G227400' => 'ghi', 'Gorai.005G241800' => 'gra', 'Gorai.005G241900' => 'gra', 'Gorai.006G239400' => 'gra', 'Gorai.008G027600' => 'gra', 'Gorai.009G085400' => 'gra', 'Gorai.009G085500' => 'gra', 'Gorai.013G039000' => 'gra', 'Gorai.013G194800' => 'gra', 'Gorai.013G257900' => 'gra', 'GSVIVG01000982001' => 'vvi', 'GSVIVG01017981001' => 'vvi', 'HanXRQChr01g0024061' => 'han', 'HanXRQChr09g0247831' => 'han', 'HanXRQChr10g0294611' => 'han', 'HanXRQChr10g0294621' => 'han', 'HanXRQChr11g0346821' => 'han', 'HanXRQChr13g0397461' => 'han', 'HanXRQChr16g0513651' => 'han', 'HanXRQChr16g0513701' => 'han', 'Haze_00897' => 'cav', 'Haze_01745' => 'cav', 'Haze_02486' => 'cav', 'Haze_02487' => 'cav', 'Haze_23374' => 'cav', 'Hma1.2p1_0578F.1_g182520' => 'hma', 'Hma1.2p1_0602F.1_g187350' => 'hma', 'Hma1.2p1_0602F.1_g187360' => 'hma', 'Hma1.2p1_0874F.1_g231320' => 'hma', 'Hma1.2p1_1197F.1_g266210' => 'hma', 'Hma1.2p1_1197F.1_g266220' => 'hma', 'Hma1.2p1_2167F.1_g315895' => 'hma', 'Hma1.2p1_2190F.1_g316640' => 'hma', 'Hma1.2p1_3645F.1_g337153' => 'hma', 'HPP92_004907' => 'vpl', 'HPP92_012134' => 'vpl', 'HPP92_025136' => 'vpl', 'HPP92_026087' => 'vpl', 'Hund06782' => 'sun', 'Hund06784' => 'sun', 'Lalb_Chr01g0004861' => 'lal', 'Lalb_Chr02g0140591' => 'lal', 'Lalb_Chr02g0140611' => 'lal', 'Lalb_Chr03g0028101' => 'lal', 'Lalb_Chr07g0185791' => 'lal', 'Lalb_Chr12g0204491' => 'lal', 'Lalb_Chr13g0295671' => 'lal', 'Lalb_Chr19g0136461' => 'lal', 'Lalb_Chr21g0309191' => 'lal', 'Lj1g0028158' => 'lja', 'Lj1P236T38' => 'lonja', 'Lj2C32G2' => 'lonja', 'Lj2P944T8' => 'lonja', 'Lj2P963T15' => 'lonja', 'Lj3g0011788' => 'lja', 'Lj4g0025027' => 'lja', 'Lj5P255T36' => 'lonja', 'Lj6g0018866' => 'lja', 'Lj6P608T31' => 'lonja', 'LjContig00408g0008879' => 'lja', 'Lsat_1_v5_gn_5_105820' => 'lsa', 'Lsat_1_v5_gn_6_38800' => 'lsa', 'Lsat_1_v5_gn_7_67141' => 'lsa', 'Manes.04G003400' => 'mes', 'Manes.07G020000' => 'mes', 'Manes.07G020100' => 'mes', 'Manes.07G020150' => 'mes', 'Manes.10G061500' => 'mes', 'Manes.10G123200' => 'mes', 'Manes.11G161900' => 'mes', 'Manes.15G029300' => 'mes', 'Mapoly0071s0018' => 'mpo', 'Mapoly0082s0023' => 'mpo', 'Mapoly3477s0001' => 'mpo', 'MBI05_g31233_MAGBIO' => 'mbi', 'MBI09_g05946_MAGBIO' => 'mbi', 'MBI09_g05947_MAGBIO' => 'mbi', 'MBI17_g08346_MAGBIO' => 'mbi', 'MCO04G038' => 'mco', 'MCO09G370' => 'mco', 'MCO13G605' => 'mco', 'MD00G1075500' => 'mdo', 'MD03G1144300' => 'mdo', 'MD08G1236800' => 'mdo', 'MD13G1193300' => 'mdo', 'MD15G1428700' => 'mdo', 'Medtr1g112030' => 'mtr', 'Medtr1g112050' => 'mtr', 'Medtr2g006290' => 'mtr', 'Medtr2g086510' => 'mtr', 'Medtr4g053120' => 'mtr', 'Medtr5g006320' => 'mtr', 'Medtr8g088720' => 'mtr', 'MELO3C004712.2' => 'cme', 'MELO3C006533.2' => 'cme', 'MELO3C019438.2' => 'cme', 'MELO3C019440.2' => 'cme', 'MELO3C019441.2' => 'cme', 'MELO3C019895.2' => 'cme', 'Migut.B00811' => 'egut', 'Migut.D02447' => 'egut', 'Migut.F00875' => 'egut', 'Migut.N00186' => 'egut', 'Migut.N01051' => 'egut', 'Migut.N02491' => 'egut', 'Migut.O00784' => 'egut', 'MSTRG.12367' => 'ama', 'MSTRG.18756' => 'ama', 'MSTRG.21042' => 'ama', 'Nitab4.5_0000559g0040' => 'nta', 'Nitab4.5_0000667g0190' => 'nta', 'Nitab4.5_0000755g0160' => 'nta', 'Nitab4.5_0001216g0080' => 'nta', 'Nitab4.5_0004069g0040' => 'nta', 'Nitab4.5_0004129g0010' => 'nta', 'Nitab4.5_0005744g0030' => 'nta', 'Nitab4.5_0006996g0030' => 'nta', 'Nitab4.5_0008971g0040' => 'nta', 'Nitab4.5_0009769g0020' => 'nta', 'Nitab4.5_0009833g0010' => 'nta', 'Nitab4.5_0013140g0020' => 'nta', 'Nn003s41376' => 'nnu', 'Nn1g01857' => 'nnu', 'Nn1g03611' => 'nnu', 'Nn1g06853' => 'nnu', 'Nn3g18360' => 'nnu', 'Nn4g26328' => 'nnu', 'Nn5g27531' => 'nnu', 'Nn6g34899' => 'nnu', 'Nn7g36299' => 'nnu', 'Oeu021485.1' => 'oeu', 'Oeu022433.1' => 'oeu', 'Oeu032111.1' => 'oeu', 'Oeu051608.1' => 'oeu', 'Os01g0860601' => 'osa', 'Os03g0659200' => 'osa', 'Os03g0835900' => 'osa', 'Os04g0412200' => 'osa', 'Os05g0443500' => 'osa', 'Os07g0251500' => 'osa', 'Os08g0104600' => 'osa', 'Peaxi162Scf00003g00047' => 'pax', 'Peaxi162Scf00003g00052' => 'pax', 'Peaxi162Scf00003g00394' => 'pax', 'Peaxi162Scf00091g00621' => 'pax', 'Peaxi162Scf00152g00146' => 'pax', 'Peaxi162Scf00173g00025' => 'pax', 'Peaxi162Scf00195g00102' => 'pax', 'Peaxi162Scf00402g00013' => 'pax', 'Peaxi162Scf00519g00618' => 'pax', 'PGR004G2838' => 'pgr', 'PGR044G2275' => 'pgr', 'PGR102G1377' => 'pgr', 'PGR119G1245' => 'pgr', 'PGR142G4449' => 'pgr', 'PGSC0003DMG400004532' => 'stu', 'PGSC0003DMG400011950' => 'stu', 'PGSC0003DMG400023391' => 'stu', 'PGSC0003DMG400023985' => 'stu', 'PGSC0003DMG400026360' => 'stu', 'PGSC0003DMG400035711' => 'stu', 'PGSC0003DMG400037286' => 'stu', 'PGSC0003DMG402005881' => 'stu', 'Phvul.002G045400' => 'pvu', 'Phvul.006G216600' => 'pvu', 'Phvul.006G216700' => 'pvu', 'Phvul.006G216800' => 'pvu', 'Phvul.007G022500' => 'pvu', 'Phvul.011G094400' => 'pvu', 'Potri.001G470700' => 'ptr', 'Potri.003G015200' => 'ptr', 'Potri.004G202500' => 'ptr', 'Potri.004G218400' => 'ptr', 'Potri.008G020100' => 'ptr', 'Potri.008G153200' => 'ptr', 'Potri.009G163800' => 'ptr', 'Potri.010G087300' => 'ptr', 'Potri.010G239100' => 'ptr', 'Pp3c10_16100' => 'ppa', 'Pp3c10_16880' => 'ppa', 'Pp3c16_6230' => 'ppa', 'Pp3c17_18910' => 'ppa', 'Pp3c3_22119' => 'ppa', 'Pp3c3_22140' => 'ppa', 'Pp3c4_8159' => 'ppa', 'Pp3c4_8171' => 'ppa', 'Pp3c4_8330' => 'ppa', 'PRCOL_00004098' => 'pco', 'Prupe.1G013900' => 'ppe', 'Prupe.1G226300' => 'ppe', 'Prupe.1G573600' => 'ppe', 'Prupe.6G130100' => 'ppe', 'Psat3g090040' => 'psa', 'Psat4g210440' => 'psa', 'Psat6g231040' => 'psa', 'Psat6g231080' => 'psa', 'Psat7g063000' => 'psa', 'Psat7g188000' => 'psa', 'Psat7g188040' => 'psa', 'PSO017G0206' => 'pso', 'PSO170G0501' => 'pso', 'PSO170G6422' => 'pso', 'PSO210G7739' => 'pso', 'PSO339G1808' => 'pso', 'PSO339G6135' => 'pso', 'PSO384G0010' => 'pso', 'PSO384G0964' => 'pso', 'PSO761G0050' => 'pso', 'PSO782G4085' => 'pso', 'QL01p012264' => 'qlo', 'QL02p099491' => 'qlo', 'QL03p033868' => 'qlo', 'QL04p046678' => 'qlo', 'QL06p002448' => 'qlo', 'RcHm_v2.0_Chr4g0416181' => 'rch', 'RcHm_v2.0_Chr5g0044701' => 'rch', 'RcHm_v2.0_Chr6g0265781' => 'rch', 'RcHm_v2.0_Chr7g0221031' => 'rch', 'Rhsim04G0202000' => 'rsi', 'Rhsim11G0127300' => 'rsi', 'Rhsim13G0111800' => 'rsi', 'Sabra01G0165600' => 'sbr', 'Sabra03G0008300' => 'sbr', 'Sabra04G0136900' => 'sbr', 'Sabra08G0013400' => 'sbr', 'Sabra08G0116800' => 'sbr', 'Sabra09G0128000' => 'sbr', 'Sabra10G0055500' => 'sbr', 'Sabra10G0073300' => 'sbr', 'SalBow3G0385' => 'sbo', 'SalBow3G1119' => 'sbo', 'SalBow3G2005' => 'sbo', 'SalBow6G2563' => 'sbo', 'SalBow6G6386' => 'sbo', 'Sc06g0008800' => 'sci', 'Sc07g0004950' => 'sci', 'Sc09g0005340' => 'sci', 'Sc13g0004410' => 'sci', 'Sc21g0007090' => 'sci', 'Sed0009285' => 'sed', 'Sed0017583' => 'sed', 'Sed0019699' => 'sed', 'Sed0023107' => 'sed', 'SEGI_10916' => 'sgi', 'SEGI_16217' => 'sgi', 'SEGI_19466' => 'sgi', 'SEGI_41115' => 'sgi', 'SGA_v2.0_scaffold111G31534' => 'sas', 'SGA_v2.0_scaffold22G09864' => 'sas', 'SGA_v2.0_scaffold338G49219' => 'sas', 'SGA_v2.0_scaffold92G28298' => 'sas', 'SMO119G0064' => 'smo', 'SMO223G0038' => 'smo', 'SMO347G0584' => 'smo', 'SMO351G0010' => 'smo', 'SMO356G0404' => 'smo', 'Solyc01g103920.3' => 'sly', 'Solyc04g009710.2' => 'sly', 'Solyc05g055280.2' => 'sly', 'Solyc10g044520.3' => 'sly', 'Solyc10g075160.1' => 'sly', 'Solyc11g006910.3' => 'sly', 'Solyc11g068430.3' => 'sly', 'Sopen01g046310' => 'spe', 'Sopen03g001200' => 'spe', 'Sopen04g004830' => 'spe', 'Sopen05g033720' => 'spe', 'Sopen06g030740' => 'spe', 'Sopen10g013090' => 'spe', 'Sopen10g027630' => 'spe', 'Sopen10g027640' => 'spe', 'Sopen11g002820' => 'spe', 'Sopen11g027140' => 'spe', 'Sp1g09680' => 'spa', 'Sp2g03630' => 'spa', 'Sp4g10320' => 'spa', 'Sp6g33400' => 'spa', 'Sp7g13030' => 'spa', 'TAR365G0317' => 'tar', 'TAR376G0979' => 'tar', 'TAR623G1665' => 'tar', 'TAR633G2373' => 'tar', 'TAR636G1400' => 'tar', 'THA.LOC104800529' => 'tha', 'THA.LOC104808547' => 'tha', 'THA.LOC104809615' => 'tha', 'THA.LOC104815724' => 'tha', 'THA.LOC104818480' => 'tha', 'THA.LOC104819179' => 'tha', 'THA.LOC104822270' => 'tha', 'THA.LOC104826425' => 'tha', 'Thecc.02G089700' => 'tca', 'Thecc.04G232300' => 'tca', 'Thecc.09G283400' => 'tca', 'Thhalv10009020m.g' => 'esa', 'Thhalv10015506m.g' => 'esa', 'Thhalv10017364m.g' => 'esa', 'Thhalv10023742m.g' => 'esa', 'Thhalv10026483m.g' => 'esa', 'TPR.G17232' => 'tpr', 'TPR.G2133' => 'tpr', 'TPR.G2498' => 'tpr', 'TPR.G31942' => 'tpr', 'TPR.G37877' => 'tpr', 'TPR.G4571' => 'tpr', 'TWI14G1113' => 'twi', 'TWI15G0426' => 'twi', 'TWI31G1005' => 'twi', 'TWI38G0513' => 'twi', 'TWI38G1484' => 'twi', 'TWI73G1098' => 'twi', 'unitig_26.g10519' => 'ugi', 'unitig_736.g22395' => 'ugi', 'unitig_747.g21234' => 'ugi', 'unitig_747.g21942' => 'ugi', 'vmacro14351' => 'vma', 'VMungo0540G0082' => 'vmu', 'VMungo0540G0405' => 'vmu', 'VMungo0540G1486' => 'vmu', 'VMungo0540G1692' => 'vmu', 'VMungo0720G2473' => 'vmu', 'VMungo1127G1562' => 'vmu', 'VMungo1215G1918' => 'vmu', 'Zm00001eb052650' => 'zma', 'Zm00001eb063710' => 'zma', 'Zm00001eb083950' => 'zma', 'Zm00001eb174420' => 'zma', 'Zm00001eb260140' => 'zma', 'Zm00001eb260150' => 'zma', 'Zm00001eb260160' => 'zma', 'Zm00001eb348290' => 'zma', 'Zm00001eb366870' => 'zma', 'Zm00001eb421930' => 'zma' ), 'gf_id' => 'HOM05D001025', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001025' ), 'data_identifier' => 'HOM05D001025', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001025', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '592', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p22650' => 'bna', 'A01p29720' => 'bna', 'A03p26560' => 'bna', 'A03p68820' => 'bna', 'A04p20980' => 'bna', 'A06p07730' => 'bna', 'A07p18260' => 'bna', 'A08p33710' => 'bna', 'A09p16970' => 'bna', 'A10p27490' => 'bna', 'Aa31LG1G17300' => 'aar', 'Aa31LG1G3910' => 'aar', 'Aa31LG2G9630' => 'aar', 'Aa31LG5G8360' => 'aar', 'Aa31LG9G2410' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4699' => 'aag', 'Actinidia23512' => 'ach', 'Actinidia37080' => 'ach', 'Ah.01g020380' => 'amhyb', 'Ah.08g215710' => 'amhyb', 'Ah.09g225110' => 'amhyb', 'Ah.10g036680' => 'amhyb', 'AL1G21940' => 'aly', 'AL2G15540' => 'aly', 'AL4G21520' => 'aly', 'AL7G40960' => 'aly', 'Aqoxy2G01191' => 'aox', 'Aqoxy2G03393' => 'aox', 'Aqoxy4G02775' => 'aox', 'Aqoxy6G00058' => 'aox', 'arahy.Tifrunner.gnm1.ann1.9X74H2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CW3FX9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R485W7' => 'arhy', 'AT1G10960' => 'ath', 'AT1G60950' => 'ath', 'AT2G27510' => 'ath', 'AT4G14890' => 'ath', 'AT5G10000' => 'ath', 'ATR0665G624' => 'atr', 'ATR0697G138' => 'atr', 'ATR0776G046' => 'atr', 'ATR1134G135' => 'atr', 'Atru.chr12.1025' => 'acertr', 'Atru.chr3.3241' => 'acertr', 'Atru.chr4.2460' => 'acertr', 'AUR62007427' => 'cqu', 'AUR62010960' => 'cqu', 'AUR62012201' => 'cqu', 'AUR62021470' => 'cqu', 'AUR62022834' => 'cqu', 'AUR62033635' => 'cqu', 'AUR62036186' => 'cqu', 'BcaB01g03077' => 'bca', 'BcaB02g10093' => 'bca', 'BcaB04g20295' => 'bca', 'BcaB06g28147' => 'bca', 'BcaB07g31253' => 'bca', 'BcaC01g04946' => 'bca', 'BcaC02g10614' => 'bca', 'BcaC02g10885' => 'bca', 'BcaC04g19356' => 'bca', 'BcaC04g22297' => 'bca', 'BcaC05g24977' => 'bca', 'BcaC06g31823' => 'bca', 'BcaC07g38633' => 'bca', 'BcaC09g49353' => 'bca', 'BcaC09g50168' => 'bca', 'BcaNung00322' => 'bca', 'BcaNung04769' => 'bca', 'BolC1t02753H' => 'bol', 'BolC1t03721H' => 'bol', 'BolC3t15525H' => 'bol', 'BolC4t23903H' => 'bol', 'BolC4t24231H' => 'bol', 'BolC4t27209H' => 'bol', 'BolC5t29671H' => 'bol', 'BolC8t49044H' => 'bol', 'BolC9t54999H' => 'bol', 'BolC9t59517H' => 'bol', 'BraA01t02178Z' => 'bra', 'BraA01t03099Z' => 'bra', 'BraA03t11867Z' => 'bra', 'BraA04t17667Z' => 'bra', 'BraA07t29542Z' => 'bra', 'BraA08t35287Z' => 'bra', 'BraA09t37334Z' => 'bra', 'BraA10t44801Z' => 'bra', 'BraSC39t46181Z' => 'bra', 'C01p28240' => 'bna', 'C01p37530' => 'bna', 'C03p31820' => 'bna', 'C04p24080' => 'bna', 'C04p25790' => 'bna', 'C04p56770' => 'bna', 'C05p09310' => 'bna', 'C09p21010' => 'bna', 'C09p67560' => 'bna', 'CAN.G1324.7' => 'can', 'CAN.G1358.10' => 'can', 'CAN.G1550.2' => 'can', 'CAN.G186.56' => 'can', 'CAN.G1965.1' => 'can', 'CAN.G645.15' => 'can', 'CAN.G798.26' => 'can', 'CAN.G798.27' => 'can', 'CAN.G798.29' => 'can', 'CAN.G919.31' => 'can', 'CANSAT11G0133' => 'cansat', 'CANSAT11G1171' => 'cansat', 'CANSAT11G2056' => 'cansat', 'CANSAT56G1202' => 'cansat', 'CANSAT56G1514' => 'cansat', 'CANSAT78G0455' => 'cansat', 'CARHR011190' => 'chi', 'CARHR051980' => 'chi', 'CARHR120170' => 'chi', 'CARHR203310' => 'chi', 'CARHR221490' => 'chi', 'Carub.0001s1054' => 'cru', 'Carub.0002s0431' => 'cru', 'Carub.0004s0818' => 'cru', 'Carub.0006s0846' => 'cru', 'Carub.0007s2722' => 'cru', 'Ca_00058_v3' => 'car', 'Ca_17831_v3' => 'car', 'Ca_19408_v3' => 'car', 'Ca_24397_v3' => 'car', 'Ca_25664_v3' => 'car', 'CBR_g21818' => 'cbr', 'CBR_g31195' => 'cbr', 'CBR_g32282' => 'cbr', 'CBR_g39599' => 'cbr', 'CBR_g49410' => 'cbr', 'Cc01_g09120' => 'ccan', 'Cc01_g09130' => 'ccan', 'Cc02_g09630' => 'ccan', 'Cc02_g22810' => 'ccan', 'Cc03_g03810' => 'ccan', 'CDE02G3718' => 'cde', 'CDE04G3183' => 'cde', 'CDE07G1046' => 'cde', 'CDE08G0480' => 'cde', 'Cfa005493' => 'cfa', 'Cfa010312' => 'cfa', 'Cfa015648' => 'cfa', 'Ciclev10002793m.g' => 'ccl', 'Ciclev10003356m.g' => 'ccl', 'Ciclev10006141m.g' => 'ccl', 'Ciclev10016676m.g' => 'ccl', 'Ciclev10017081m.g' => 'ccl', 'Ciclev10029499m.g' => 'ccl', 'CiPaw.01G166300' => 'cil', 'CiPaw.06G145600' => 'cil', 'CiPaw.13G040100' => 'cil', 'CiPaw.13G135800' => 'cil', 'ClCG01G012230' => 'cla', 'ClCG05G009510' => 'cla', 'ClCG08G008270' => 'cla', 'COL.COLO4_11763' => 'col', 'COL.COLO4_19876' => 'col', 'COL.COLO4_21481' => 'col', 'Cpa.g.sc118.34' => 'cpa', 'Cpa.g.sc32.13' => 'cpa', 'Cpa.g.sc58.103' => 'cpa', 'Cre03.g183850' => 'cre', 'Cre06.g306350' => 'cre', 'Cre07.g334800' => 'cre', 'Cre12.g487900' => 'cre', 'Cre14.g626700' => 'cre', 'Cre16.g658400' => 'cre', 'Cre17.g700950' => 'cre', 'CsaV3_1G014830' => 'csa', 'CsaV3_3G013320' => 'csa', 'CsaV3_3G019210' => 'csa', 'CsaV3_3G019220' => 'csa', 'CsaV3_6G004230' => 'csa', 'CSS0003773' => 'camsi', 'CSS0004563' => 'camsi', 'CSS0013949' => 'camsi', 'CSS0025971' => 'camsi', 'CSS0028570' => 'camsi', 'CSS0033127' => 'camsi', 'CSS0036051' => 'camsi', 'CSS0040087' => 'camsi', 'CSS0043179' => 'camsi', 'DCAR_006161' => 'dca', 'DCAR_010351' => 'dca', 'DCAR_012197' => 'dca', 'DCAR_024162' => 'dca', 'Dinv01030' => 'din', 'Dinv10924' => 'din', 'Dinv11835' => 'din', 'Dinv22841' => 'din', 'Dinv42553' => 'din', 'Duzib052G0560' => 'dzi', 'Duzib132G0389' => 'dzi', 'Duzib150G1181' => 'dzi', 'Duzib168G0623' => 'dzi', 'Duzib170G1036' => 'dzi', 'Duzib212G0200' => 'dzi', 'Duzib248G0194' => 'dzi', 'ECA232G2193' => 'eca', 'ECA233G0302' => 'eca', 'ECA234G2813' => 'eca', 'ECA234G4866' => 'eca', 'ECA240G3932' => 'eca', 'ECA248G0385' => 'eca', 'EL10Ac2g04781' => 'bvu', 'EL10Ac3g06445' => 'bvu', 'EL10Ac7g15825' => 'bvu', 'EL10Ac8g18550' => 'bvu', 'Eucgr.B03849' => 'egr', 'Eucgr.I02744' => 'egr', 'Eucgr.J00264' => 'egr', 'Eucgr.J00493' => 'egr', 'FAN04G2181' => 'fan', 'FAN07G2666' => 'fan', 'FAN11G0024' => 'fan', 'FAN12G1105' => 'fan', 'FAN13G0302' => 'fan', 'FAN15G2781' => 'fan', 'FAN16G1274' => 'fan', 'FAN17G2988' => 'fan', 'FAN18G2621' => 'fan', 'FAN21G0013' => 'fan', 'FAN22G1211' => 'fan', 'FAN25G3626' => 'fan', 'FvH4_2g09491' => 'fve', 'FvH4_3g24910' => 'fve', 'FvH4_4g15630' => 'fve', 'FvH4_5g28820' => 'fve', 'Glyma.01G238000' => 'gma', 'Glyma.05G168400' => 'gma', 'Glyma.08G126800' => 'gma', 'Glyma.08G188500' => 'gma', 'Glyma.10G278900' => 'gma', 'Glyma.11G005700' => 'gma', 'Glyma.11G183300' => 'gma', 'Glyma.12G089200' => 'gma', 'Glyma.12G169400' => 'gma', 'Glyma.12G169500' => 'gma', 'Glyma.12G169600' => 'gma', 'Glyma.20G110800' => 'gma', 'Gohir.A03G192900' => 'ghi', 'Gohir.A03G193000' => 'ghi', 'Gohir.A05G080700' => 'ghi', 'Gohir.A09G216000' => 'ghi', 'Gohir.A12G027700' => 'ghi', 'Gohir.A13G036200' => 'ghi', 'Gohir.A13G222600' => 'ghi', 'Gohir.D02G213900' => 'ghi', 'Gohir.D02G214000' => 'ghi', 'Gohir.D05G083700' => 'ghi', 'Gohir.D05G083800' => 'ghi', 'Gohir.D05G083850' => 'ghi', 'Gohir.D08G015400' => 'ghi', 'Gohir.D09G218400' => 'ghi', 'Gohir.D12G027100' => 'ghi', 'Gohir.D13G034500' => 'ghi', 'Gohir.D13G227400' => 'ghi', 'Gorai.005G241800' => 'gra', 'Gorai.005G241900' => 'gra', 'Gorai.006G239400' => 'gra', 'Gorai.008G027600' => 'gra', 'Gorai.009G085400' => 'gra', 'Gorai.009G085500' => 'gra', 'Gorai.013G039000' => 'gra', 'Gorai.013G194800' => 'gra', 'Gorai.013G257900' => 'gra', 'GSVIVG01000982001' => 'vvi', 'GSVIVG01017981001' => 'vvi', 'HanXRQChr01g0024061' => 'han', 'HanXRQChr09g0247831' => 'han', 'HanXRQChr10g0294611' => 'han', 'HanXRQChr10g0294621' => 'han', 'HanXRQChr11g0346821' => 'han', 'HanXRQChr13g0397461' => 'han', 'HanXRQChr16g0513651' => 'han', 'HanXRQChr16g0513701' => 'han', 'Haze_00897' => 'cav', 'Haze_01745' => 'cav', 'Haze_02486' => 'cav', 'Haze_02487' => 'cav', 'Haze_23374' => 'cav', 'Hma1.2p1_0578F.1_g182520' => 'hma', 'Hma1.2p1_0602F.1_g187350' => 'hma', 'Hma1.2p1_0602F.1_g187360' => 'hma', 'Hma1.2p1_0874F.1_g231320' => 'hma', 'Hma1.2p1_1197F.1_g266210' => 'hma', 'Hma1.2p1_1197F.1_g266220' => 'hma', 'Hma1.2p1_2167F.1_g315895' => 'hma', 'Hma1.2p1_2190F.1_g316640' => 'hma', 'Hma1.2p1_3645F.1_g337153' => 'hma', 'HPP92_004907' => 'vpl', 'HPP92_012134' => 'vpl', 'HPP92_025136' => 'vpl', 'HPP92_026087' => 'vpl', 'Hund06782' => 'sun', 'Hund06784' => 'sun', 'Lalb_Chr01g0004861' => 'lal', 'Lalb_Chr02g0140591' => 'lal', 'Lalb_Chr02g0140611' => 'lal', 'Lalb_Chr03g0028101' => 'lal', 'Lalb_Chr07g0185791' => 'lal', 'Lalb_Chr12g0204491' => 'lal', 'Lalb_Chr13g0295671' => 'lal', 'Lalb_Chr19g0136461' => 'lal', 'Lalb_Chr21g0309191' => 'lal', 'Lj1g0028158' => 'lja', 'Lj1P236T38' => 'lonja', 'Lj2C32G2' => 'lonja', 'Lj2P944T8' => 'lonja', 'Lj2P963T15' => 'lonja', 'Lj3g0011788' => 'lja', 'Lj4g0025027' => 'lja', 'Lj5P255T36' => 'lonja', 'Lj6g0018866' => 'lja', 'Lj6P608T31' => 'lonja', 'LjContig00408g0008879' => 'lja', 'Lsat_1_v5_gn_5_105820' => 'lsa', 'Lsat_1_v5_gn_6_38800' => 'lsa', 'Lsat_1_v5_gn_7_67141' => 'lsa', 'Manes.04G003400' => 'mes', 'Manes.07G020000' => 'mes', 'Manes.07G020100' => 'mes', 'Manes.07G020150' => 'mes', 'Manes.10G061500' => 'mes', 'Manes.10G123200' => 'mes', 'Manes.11G161900' => 'mes', 'Manes.15G029300' => 'mes', 'Mapoly0071s0018' => 'mpo', 'Mapoly0082s0023' => 'mpo', 'Mapoly3477s0001' => 'mpo', 'MBI05_g31233_MAGBIO' => 'mbi', 'MBI09_g05946_MAGBIO' => 'mbi', 'MBI09_g05947_MAGBIO' => 'mbi', 'MBI17_g08346_MAGBIO' => 'mbi', 'MCO04G038' => 'mco', 'MCO09G370' => 'mco', 'MCO13G605' => 'mco', 'MD00G1075500' => 'mdo', 'MD03G1144300' => 'mdo', 'MD08G1236800' => 'mdo', 'MD13G1193300' => 'mdo', 'MD15G1428700' => 'mdo', 'Medtr1g112030' => 'mtr', 'Medtr1g112050' => 'mtr', 'Medtr2g006290' => 'mtr', 'Medtr2g086510' => 'mtr', 'Medtr4g053120' => 'mtr', 'Medtr5g006320' => 'mtr', 'Medtr8g088720' => 'mtr', 'MELO3C004712.2' => 'cme', 'MELO3C006533.2' => 'cme', 'MELO3C019438.2' => 'cme', 'MELO3C019440.2' => 'cme', 'MELO3C019441.2' => 'cme', 'MELO3C019895.2' => 'cme', 'Migut.B00811' => 'egut', 'Migut.D02447' => 'egut', 'Migut.F00875' => 'egut', 'Migut.N00186' => 'egut', 'Migut.N01051' => 'egut', 'Migut.N02491' => 'egut', 'Migut.O00784' => 'egut', 'MSTRG.12367' => 'ama', 'MSTRG.18756' => 'ama', 'MSTRG.21042' => 'ama', 'Nitab4.5_0000559g0040' => 'nta', 'Nitab4.5_0000667g0190' => 'nta', 'Nitab4.5_0000755g0160' => 'nta', 'Nitab4.5_0001216g0080' => 'nta', 'Nitab4.5_0004069g0040' => 'nta', 'Nitab4.5_0004129g0010' => 'nta', 'Nitab4.5_0005744g0030' => 'nta', 'Nitab4.5_0006996g0030' => 'nta', 'Nitab4.5_0008971g0040' => 'nta', 'Nitab4.5_0009769g0020' => 'nta', 'Nitab4.5_0009833g0010' => 'nta', 'Nitab4.5_0013140g0020' => 'nta', 'Nn003s41376' => 'nnu', 'Nn1g01857' => 'nnu', 'Nn1g03611' => 'nnu', 'Nn1g06853' => 'nnu', 'Nn3g18360' => 'nnu', 'Nn4g26328' => 'nnu', 'Nn5g27531' => 'nnu', 'Nn6g34899' => 'nnu', 'Nn7g36299' => 'nnu', 'Oeu021485.1' => 'oeu', 'Oeu022433.1' => 'oeu', 'Oeu032111.1' => 'oeu', 'Oeu051608.1' => 'oeu', 'Os01g0860601' => 'osa', 'Os03g0659200' => 'osa', 'Os03g0835900' => 'osa', 'Os04g0412200' => 'osa', 'Os05g0443500' => 'osa', 'Os07g0251500' => 'osa', 'Os08g0104600' => 'osa', 'Peaxi162Scf00003g00047' => 'pax', 'Peaxi162Scf00003g00052' => 'pax', 'Peaxi162Scf00003g00394' => 'pax', 'Peaxi162Scf00091g00621' => 'pax', 'Peaxi162Scf00152g00146' => 'pax', 'Peaxi162Scf00173g00025' => 'pax', 'Peaxi162Scf00195g00102' => 'pax', 'Peaxi162Scf00402g00013' => 'pax', 'Peaxi162Scf00519g00618' => 'pax', 'PGR004G2838' => 'pgr', 'PGR044G2275' => 'pgr', 'PGR102G1377' => 'pgr', 'PGR119G1245' => 'pgr', 'PGR142G4449' => 'pgr', 'PGSC0003DMG400004532' => 'stu', 'PGSC0003DMG400011950' => 'stu', 'PGSC0003DMG400023391' => 'stu', 'PGSC0003DMG400023985' => 'stu', 'PGSC0003DMG400026360' => 'stu', 'PGSC0003DMG400035711' => 'stu', 'PGSC0003DMG400037286' => 'stu', 'PGSC0003DMG402005881' => 'stu', 'Phvul.002G045400' => 'pvu', 'Phvul.006G216600' => 'pvu', 'Phvul.006G216700' => 'pvu', 'Phvul.006G216800' => 'pvu', 'Phvul.007G022500' => 'pvu', 'Phvul.011G094400' => 'pvu', 'Potri.001G470700' => 'ptr', 'Potri.003G015200' => 'ptr', 'Potri.004G202500' => 'ptr', 'Potri.004G218400' => 'ptr', 'Potri.008G020100' => 'ptr', 'Potri.008G153200' => 'ptr', 'Potri.009G163800' => 'ptr', 'Potri.010G087300' => 'ptr', 'Potri.010G239100' => 'ptr', 'Pp3c10_16100' => 'ppa', 'Pp3c10_16880' => 'ppa', 'Pp3c16_6230' => 'ppa', 'Pp3c17_18910' => 'ppa', 'Pp3c3_22119' => 'ppa', 'Pp3c3_22140' => 'ppa', 'Pp3c4_8159' => 'ppa', 'Pp3c4_8171' => 'ppa', 'Pp3c4_8330' => 'ppa', 'PRCOL_00004098' => 'pco', 'Prupe.1G013900' => 'ppe', 'Prupe.1G226300' => 'ppe', 'Prupe.1G573600' => 'ppe', 'Prupe.6G130100' => 'ppe', 'Psat3g090040' => 'psa', 'Psat4g210440' => 'psa', 'Psat6g231040' => 'psa', 'Psat6g231080' => 'psa', 'Psat7g063000' => 'psa', 'Psat7g188000' => 'psa', 'Psat7g188040' => 'psa', 'PSO017G0206' => 'pso', 'PSO170G0501' => 'pso', 'PSO170G6422' => 'pso', 'PSO210G7739' => 'pso', 'PSO339G1808' => 'pso', 'PSO339G6135' => 'pso', 'PSO384G0010' => 'pso', 'PSO384G0964' => 'pso', 'PSO761G0050' => 'pso', 'PSO782G4085' => 'pso', 'QL01p012264' => 'qlo', 'QL02p099491' => 'qlo', 'QL03p033868' => 'qlo', 'QL04p046678' => 'qlo', 'QL06p002448' => 'qlo', 'RcHm_v2.0_Chr4g0416181' => 'rch', 'RcHm_v2.0_Chr5g0044701' => 'rch', 'RcHm_v2.0_Chr6g0265781' => 'rch', 'RcHm_v2.0_Chr7g0221031' => 'rch', 'Rhsim04G0202000' => 'rsi', 'Rhsim11G0127300' => 'rsi', 'Rhsim13G0111800' => 'rsi', 'Sabra01G0165600' => 'sbr', 'Sabra03G0008300' => 'sbr', 'Sabra04G0136900' => 'sbr', 'Sabra08G0013400' => 'sbr', 'Sabra08G0116800' => 'sbr', 'Sabra09G0128000' => 'sbr', 'Sabra10G0055500' => 'sbr', 'Sabra10G0073300' => 'sbr', 'SalBow3G0385' => 'sbo', 'SalBow3G1119' => 'sbo', 'SalBow3G2005' => 'sbo', 'SalBow6G2563' => 'sbo', 'SalBow6G6386' => 'sbo', 'Sc06g0008800' => 'sci', 'Sc07g0004950' => 'sci', 'Sc09g0005340' => 'sci', 'Sc13g0004410' => 'sci', 'Sc21g0007090' => 'sci', 'Sed0009285' => 'sed', 'Sed0017583' => 'sed', 'Sed0019699' => 'sed', 'Sed0023107' => 'sed', 'SEGI_10916' => 'sgi', 'SEGI_16217' => 'sgi', 'SEGI_19466' => 'sgi', 'SEGI_41115' => 'sgi', 'SGA_v2.0_scaffold111G31534' => 'sas', 'SGA_v2.0_scaffold22G09864' => 'sas', 'SGA_v2.0_scaffold338G49219' => 'sas', 'SGA_v2.0_scaffold92G28298' => 'sas', 'SMO119G0064' => 'smo', 'SMO223G0038' => 'smo', 'SMO347G0584' => 'smo', 'SMO351G0010' => 'smo', 'SMO356G0404' => 'smo', 'Solyc01g103920.3' => 'sly', 'Solyc04g009710.2' => 'sly', 'Solyc05g055280.2' => 'sly', 'Solyc10g044520.3' => 'sly', 'Solyc10g075160.1' => 'sly', 'Solyc11g006910.3' => 'sly', 'Solyc11g068430.3' => 'sly', 'Sopen01g046310' => 'spe', 'Sopen03g001200' => 'spe', 'Sopen04g004830' => 'spe', 'Sopen05g033720' => 'spe', 'Sopen06g030740' => 'spe', 'Sopen10g013090' => 'spe', 'Sopen10g027630' => 'spe', 'Sopen10g027640' => 'spe', 'Sopen11g002820' => 'spe', 'Sopen11g027140' => 'spe', 'Sp1g09680' => 'spa', 'Sp2g03630' => 'spa', 'Sp4g10320' => 'spa', 'Sp6g33400' => 'spa', 'Sp7g13030' => 'spa', 'TAR365G0317' => 'tar', 'TAR376G0979' => 'tar', 'TAR623G1665' => 'tar', 'TAR633G2373' => 'tar', 'TAR636G1400' => 'tar', 'THA.LOC104800529' => 'tha', 'THA.LOC104808547' => 'tha', 'THA.LOC104809615' => 'tha', 'THA.LOC104815724' => 'tha', 'THA.LOC104818480' => 'tha', 'THA.LOC104819179' => 'tha', 'THA.LOC104822270' => 'tha', 'THA.LOC104826425' => 'tha', 'Thecc.02G089700' => 'tca', 'Thecc.04G232300' => 'tca', 'Thecc.09G283400' => 'tca', 'Thhalv10009020m.g' => 'esa', 'Thhalv10015506m.g' => 'esa', 'Thhalv10017364m.g' => 'esa', 'Thhalv10023742m.g' => 'esa', 'Thhalv10026483m.g' => 'esa', 'TPR.G17232' => 'tpr', 'TPR.G2133' => 'tpr', 'TPR.G2498' => 'tpr', 'TPR.G31942' => 'tpr', 'TPR.G37877' => 'tpr', 'TPR.G4571' => 'tpr', 'TWI14G1113' => 'twi', 'TWI15G0426' => 'twi', 'TWI31G1005' => 'twi', 'TWI38G0513' => 'twi', 'TWI38G1484' => 'twi', 'TWI73G1098' => 'twi', 'unitig_26.g10519' => 'ugi', 'unitig_736.g22395' => 'ugi', 'unitig_747.g21234' => 'ugi', 'unitig_747.g21942' => 'ugi', 'vmacro14351' => 'vma', 'VMungo0540G0082' => 'vmu', 'VMungo0540G0405' => 'vmu', 'VMungo0540G1486' => 'vmu', 'VMungo0540G1692' => 'vmu', 'VMungo0720G2473' => 'vmu', 'VMungo1127G1562' => 'vmu', 'VMungo1215G1918' => 'vmu', 'Zm00001eb052650' => 'zma', 'Zm00001eb063710' => 'zma', 'Zm00001eb083950' => 'zma', 'Zm00001eb174420' => 'zma', 'Zm00001eb260140' => 'zma', 'Zm00001eb260150' => 'zma', 'Zm00001eb260160' => 'zma', 'Zm00001eb348290' => 'zma', 'Zm00001eb366870' => 'zma', 'Zm00001eb421930' => 'zma' ) $gf_id = 'HOM05D001025' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001025' ) $data_identifier = 'HOM05D001025' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 19, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 2, 'amhyb' => (int) 4, 'aly' => (int) 4, 'aox' => (int) 4, 'arhy' => (int) 3, 'ath' => (int) 5, 'atr' => (int) 4, 'acertr' => (int) 3, 'cqu' => (int) 7, 'bca' => (int) 17, 'bol' => (int) 10, 'bra' => (int) 9, 'can' => (int) 10, 'cansat' => (int) 6, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 5, 'cbr' => (int) 5, 'ccan' => (int) 5, 'cde' => (int) 4, 'cfa' => (int) 3, 'ccl' => (int) 6, 'cil' => (int) 4, 'cla' => (int) 3, 'col' => (int) 3, 'cpa' => (int) 3, 'cre' => (int) 7, 'csa' => (int) 5, 'camsi' => (int) 9, 'dca' => (int) 4, 'din' => (int) 5, 'dzi' => (int) 7, 'eca' => (int) 6, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 12, 'fve' => (int) 4, 'gma' => (int) 12, 'ghi' => (int) 17, 'gra' => (int) 9, 'vvi' => (int) 2, 'han' => (int) 8, 'cav' => (int) 5, 'hma' => (int) 9, 'vpl' => (int) 4, 'sun' => (int) 2, 'lal' => (int) 9, 'lja' => (int) 5, 'lonja' => (int) 6, 'lsa' => (int) 3, 'mes' => (int) 8, 'mpo' => (int) 3, 'mbi' => (int) 4, 'mco' => (int) 3, 'mdo' => (int) 5, 'mtr' => (int) 7, 'cme' => (int) 6, 'egut' => (int) 7, 'ama' => (int) 3, 'nta' => (int) 12, 'nnu' => (int) 9, 'oeu' => (int) 4, 'osa' => (int) 7, 'pax' => (int) 9, 'pgr' => (int) 5, 'stu' => (int) 8, 'pvu' => (int) 6, 'ptr' => (int) 9, 'ppa' => (int) 9, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 7, 'pso' => (int) 10, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 3, 'sbr' => (int) 8, 'sbo' => (int) 5, 'sci' => (int) 5, 'sed' => (int) 4, 'sgi' => (int) 4, 'sas' => (int) 4, 'smo' => (int) 5, 'sly' => (int) 7, 'spe' => (int) 10, 'spa' => (int) 5, 'tar' => (int) 5, 'tha' => (int) 8, 'tca' => (int) 3, 'esa' => (int) 5, 'tpr' => (int) 6, 'twi' => (int) 6, 'ugi' => (int) 4, 'vma' => (int) 1, 'vmu' => (int) 7, 'zma' => (int) 10 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb421930' $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' => 'HOM05D001025', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '592', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p22650' => 'bna', 'A01p29720' => 'bna', 'A03p26560' => 'bna', 'A03p68820' => 'bna', 'A04p20980' => 'bna', 'A06p07730' => 'bna', 'A07p18260' => 'bna', 'A08p33710' => 'bna', 'A09p16970' => 'bna', 'A10p27490' => 'bna', 'Aa31LG1G17300' => 'aar', 'Aa31LG1G3910' => 'aar', 'Aa31LG2G9630' => 'aar', 'Aa31LG5G8360' => 'aar', 'Aa31LG9G2410' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4699' => 'aag', 'Actinidia23512' => 'ach', 'Actinidia37080' => 'ach', 'Ah.01g020380' => 'amhyb', 'Ah.08g215710' => 'amhyb', 'Ah.09g225110' => 'amhyb', 'Ah.10g036680' => 'amhyb', 'AL1G21940' => 'aly', 'AL2G15540' => 'aly', 'AL4G21520' => 'aly', 'AL7G40960' => 'aly', 'Aqoxy2G01191' => 'aox', 'Aqoxy2G03393' => 'aox', 'Aqoxy4G02775' => 'aox', 'Aqoxy6G00058' => 'aox', 'arahy.Tifrunner.gnm1.ann1.9X74H2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CW3FX9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R485W7' => 'arhy', 'AT1G10960' => 'ath', 'AT1G60950' => 'ath', 'AT2G27510' => 'ath', 'AT4G14890' => 'ath', 'AT5G10000' => 'ath', 'ATR0665G624' => 'atr', 'ATR0697G138' => 'atr', 'ATR0776G046' => 'atr', 'ATR1134G135' => 'atr', 'Atru.chr12.1025' => 'acertr', 'Atru.chr3.3241' => 'acertr', 'Atru.chr4.2460' => 'acertr', 'AUR62007427' => 'cqu', 'AUR62010960' => 'cqu', 'AUR62012201' => 'cqu', 'AUR62021470' => 'cqu', 'AUR62022834' => 'cqu', 'AUR62033635' => 'cqu', 'AUR62036186' => 'cqu', 'BcaB01g03077' => 'bca', 'BcaB02g10093' => 'bca', 'BcaB04g20295' => 'bca', 'BcaB06g28147' => 'bca', 'BcaB07g31253' => 'bca', 'BcaC01g04946' => 'bca', 'BcaC02g10614' => 'bca', 'BcaC02g10885' => 'bca', 'BcaC04g19356' => 'bca', 'BcaC04g22297' => 'bca', 'BcaC05g24977' => 'bca', 'BcaC06g31823' => 'bca', 'BcaC07g38633' => 'bca', 'BcaC09g49353' => 'bca', 'BcaC09g50168' => 'bca', 'BcaNung00322' => 'bca', 'BcaNung04769' => 'bca', 'BolC1t02753H' => 'bol', 'BolC1t03721H' => 'bol', 'BolC3t15525H' => 'bol', 'BolC4t23903H' => 'bol', 'BolC4t24231H' => 'bol', 'BolC4t27209H' => 'bol', 'BolC5t29671H' => 'bol', 'BolC8t49044H' => 'bol', 'BolC9t54999H' => 'bol', 'BolC9t59517H' => 'bol', 'BraA01t02178Z' => 'bra', 'BraA01t03099Z' => 'bra', 'BraA03t11867Z' => 'bra', 'BraA04t17667Z' => 'bra', 'BraA07t29542Z' => 'bra', 'BraA08t35287Z' => 'bra', 'BraA09t37334Z' => 'bra', 'BraA10t44801Z' => 'bra', 'BraSC39t46181Z' => 'bra', 'C01p28240' => 'bna', 'C01p37530' => 'bna', 'C03p31820' => 'bna', 'C04p24080' => 'bna', 'C04p25790' => 'bna', 'C04p56770' => 'bna', 'C05p09310' => 'bna', 'C09p21010' => 'bna', 'C09p67560' => 'bna', 'CAN.G1324.7' => 'can', 'CAN.G1358.10' => 'can', 'CAN.G1550.2' => 'can', 'CAN.G186.56' => 'can', 'CAN.G1965.1' => 'can', 'CAN.G645.15' => 'can', 'CAN.G798.26' => 'can', 'CAN.G798.27' => 'can', 'CAN.G798.29' => 'can', 'CAN.G919.31' => 'can', 'CANSAT11G0133' => 'cansat', 'CANSAT11G1171' => 'cansat', 'CANSAT11G2056' => 'cansat', 'CANSAT56G1202' => 'cansat', 'CANSAT56G1514' => 'cansat', 'CANSAT78G0455' => 'cansat', 'CARHR011190' => 'chi', 'CARHR051980' => 'chi', 'CARHR120170' => 'chi', 'CARHR203310' => 'chi', 'CARHR221490' => 'chi', 'Carub.0001s1054' => 'cru', 'Carub.0002s0431' => 'cru', 'Carub.0004s0818' => 'cru', 'Carub.0006s0846' => 'cru', 'Carub.0007s2722' => 'cru', 'Ca_00058_v3' => 'car', 'Ca_17831_v3' => 'car', 'Ca_19408_v3' => 'car', 'Ca_24397_v3' => 'car', 'Ca_25664_v3' => 'car', 'CBR_g21818' => 'cbr', 'CBR_g31195' => 'cbr', 'CBR_g32282' => 'cbr', 'CBR_g39599' => 'cbr', 'CBR_g49410' => 'cbr', 'Cc01_g09120' => 'ccan', 'Cc01_g09130' => 'ccan', 'Cc02_g09630' => 'ccan', 'Cc02_g22810' => 'ccan', 'Cc03_g03810' => 'ccan', 'CDE02G3718' => 'cde', 'CDE04G3183' => 'cde', 'CDE07G1046' => 'cde', 'CDE08G0480' => 'cde', 'Cfa005493' => 'cfa', 'Cfa010312' => 'cfa', 'Cfa015648' => 'cfa', 'Ciclev10002793m.g' => 'ccl', 'Ciclev10003356m.g' => 'ccl', 'Ciclev10006141m.g' => 'ccl', 'Ciclev10016676m.g' => 'ccl', 'Ciclev10017081m.g' => 'ccl', 'Ciclev10029499m.g' => 'ccl', 'CiPaw.01G166300' => 'cil', 'CiPaw.06G145600' => 'cil', 'CiPaw.13G040100' => 'cil', 'CiPaw.13G135800' => 'cil', 'ClCG01G012230' => 'cla', 'ClCG05G009510' => 'cla', 'ClCG08G008270' => 'cla', 'COL.COLO4_11763' => 'col', 'COL.COLO4_19876' => 'col', 'COL.COLO4_21481' => 'col', 'Cpa.g.sc118.34' => 'cpa', 'Cpa.g.sc32.13' => 'cpa', 'Cpa.g.sc58.103' => 'cpa', 'Cre03.g183850' => 'cre', 'Cre06.g306350' => 'cre', 'Cre07.g334800' => 'cre', 'Cre12.g487900' => 'cre', 'Cre14.g626700' => 'cre', 'Cre16.g658400' => 'cre', 'Cre17.g700950' => 'cre', 'CsaV3_1G014830' => 'csa', 'CsaV3_3G013320' => 'csa', 'CsaV3_3G019210' => 'csa', 'CsaV3_3G019220' => 'csa', 'CsaV3_6G004230' => 'csa', 'CSS0003773' => 'camsi', 'CSS0004563' => 'camsi', 'CSS0013949' => 'camsi', 'CSS0025971' => 'camsi', 'CSS0028570' => 'camsi', 'CSS0033127' => 'camsi', 'CSS0036051' => 'camsi', 'CSS0040087' => 'camsi', 'CSS0043179' => 'camsi', 'DCAR_006161' => 'dca', 'DCAR_010351' => 'dca', 'DCAR_012197' => 'dca', 'DCAR_024162' => 'dca', 'Dinv01030' => 'din', 'Dinv10924' => 'din', 'Dinv11835' => 'din', 'Dinv22841' => 'din', 'Dinv42553' => 'din', 'Duzib052G0560' => 'dzi', 'Duzib132G0389' => 'dzi', 'Duzib150G1181' => 'dzi', 'Duzib168G0623' => 'dzi', 'Duzib170G1036' => 'dzi', 'Duzib212G0200' => 'dzi', 'Duzib248G0194' => 'dzi', 'ECA232G2193' => 'eca', 'ECA233G0302' => 'eca', 'ECA234G2813' => 'eca', 'ECA234G4866' => 'eca', 'ECA240G3932' => 'eca', 'ECA248G0385' => 'eca', 'EL10Ac2g04781' => 'bvu', 'EL10Ac3g06445' => 'bvu', 'EL10Ac7g15825' => 'bvu', 'EL10Ac8g18550' => 'bvu', 'Eucgr.B03849' => 'egr', 'Eucgr.I02744' => 'egr', 'Eucgr.J00264' => 'egr', 'Eucgr.J00493' => 'egr', 'FAN04G2181' => 'fan', 'FAN07G2666' => 'fan', 'FAN11G0024' => 'fan', 'FAN12G1105' => 'fan', 'FAN13G0302' => 'fan', 'FAN15G2781' => 'fan', 'FAN16G1274' => 'fan', 'FAN17G2988' => 'fan', 'FAN18G2621' => 'fan', 'FAN21G0013' => 'fan', 'FAN22G1211' => 'fan', 'FAN25G3626' => 'fan', 'FvH4_2g09491' => 'fve', 'FvH4_3g24910' => 'fve', 'FvH4_4g15630' => 'fve', 'FvH4_5g28820' => 'fve', 'Glyma.01G238000' => 'gma', 'Glyma.05G168400' => 'gma', 'Glyma.08G126800' => 'gma', 'Glyma.08G188500' => 'gma', 'Glyma.10G278900' => 'gma', 'Glyma.11G005700' => 'gma', 'Glyma.11G183300' => 'gma', 'Glyma.12G089200' => 'gma', 'Glyma.12G169400' => 'gma', 'Glyma.12G169500' => 'gma', 'Glyma.12G169600' => 'gma', 'Glyma.20G110800' => 'gma', 'Gohir.A03G192900' => 'ghi', 'Gohir.A03G193000' => 'ghi', 'Gohir.A05G080700' => 'ghi', 'Gohir.A09G216000' => 'ghi', 'Gohir.A12G027700' => 'ghi', 'Gohir.A13G036200' => 'ghi', 'Gohir.A13G222600' => 'ghi', 'Gohir.D02G213900' => 'ghi', 'Gohir.D02G214000' => 'ghi', 'Gohir.D05G083700' => 'ghi', 'Gohir.D05G083800' => 'ghi', 'Gohir.D05G083850' => 'ghi', 'Gohir.D08G015400' => 'ghi', 'Gohir.D09G218400' => 'ghi', 'Gohir.D12G027100' => 'ghi', 'Gohir.D13G034500' => 'ghi', 'Gohir.D13G227400' => 'ghi', 'Gorai.005G241800' => 'gra', 'Gorai.005G241900' => 'gra', 'Gorai.006G239400' => 'gra', 'Gorai.008G027600' => 'gra', 'Gorai.009G085400' => 'gra', 'Gorai.009G085500' => 'gra', 'Gorai.013G039000' => 'gra', 'Gorai.013G194800' => 'gra', 'Gorai.013G257900' => 'gra', 'GSVIVG01000982001' => 'vvi', 'GSVIVG01017981001' => 'vvi', 'HanXRQChr01g0024061' => 'han', 'HanXRQChr09g0247831' => 'han', 'HanXRQChr10g0294611' => 'han', 'HanXRQChr10g0294621' => 'han', 'HanXRQChr11g0346821' => 'han', 'HanXRQChr13g0397461' => 'han', 'HanXRQChr16g0513651' => 'han', 'HanXRQChr16g0513701' => 'han', 'Haze_00897' => 'cav', 'Haze_01745' => 'cav', 'Haze_02486' => 'cav', 'Haze_02487' => 'cav', 'Haze_23374' => 'cav', 'Hma1.2p1_0578F.1_g182520' => 'hma', 'Hma1.2p1_0602F.1_g187350' => 'hma', 'Hma1.2p1_0602F.1_g187360' => 'hma', 'Hma1.2p1_0874F.1_g231320' => 'hma', 'Hma1.2p1_1197F.1_g266210' => 'hma', 'Hma1.2p1_1197F.1_g266220' => 'hma', 'Hma1.2p1_2167F.1_g315895' => 'hma', 'Hma1.2p1_2190F.1_g316640' => 'hma', 'Hma1.2p1_3645F.1_g337153' => 'hma', 'HPP92_004907' => 'vpl', 'HPP92_012134' => 'vpl', 'HPP92_025136' => 'vpl', 'HPP92_026087' => 'vpl', 'Hund06782' => 'sun', 'Hund06784' => 'sun', 'Lalb_Chr01g0004861' => 'lal', 'Lalb_Chr02g0140591' => 'lal', 'Lalb_Chr02g0140611' => 'lal', 'Lalb_Chr03g0028101' => 'lal', 'Lalb_Chr07g0185791' => 'lal', 'Lalb_Chr12g0204491' => 'lal', 'Lalb_Chr13g0295671' => 'lal', 'Lalb_Chr19g0136461' => 'lal', 'Lalb_Chr21g0309191' => 'lal', 'Lj1g0028158' => 'lja', 'Lj1P236T38' => 'lonja', 'Lj2C32G2' => 'lonja', 'Lj2P944T8' => 'lonja', 'Lj2P963T15' => 'lonja', 'Lj3g0011788' => 'lja', 'Lj4g0025027' => 'lja', 'Lj5P255T36' => 'lonja', 'Lj6g0018866' => 'lja', 'Lj6P608T31' => 'lonja', 'LjContig00408g0008879' => 'lja', 'Lsat_1_v5_gn_5_105820' => 'lsa', 'Lsat_1_v5_gn_6_38800' => 'lsa', 'Lsat_1_v5_gn_7_67141' => 'lsa', 'Manes.04G003400' => 'mes', 'Manes.07G020000' => 'mes', 'Manes.07G020100' => 'mes', 'Manes.07G020150' => 'mes', 'Manes.10G061500' => 'mes', 'Manes.10G123200' => 'mes', 'Manes.11G161900' => 'mes', 'Manes.15G029300' => 'mes', 'Mapoly0071s0018' => 'mpo', 'Mapoly0082s0023' => 'mpo', 'Mapoly3477s0001' => 'mpo', 'MBI05_g31233_MAGBIO' => 'mbi', 'MBI09_g05946_MAGBIO' => 'mbi', 'MBI09_g05947_MAGBIO' => 'mbi', 'MBI17_g08346_MAGBIO' => 'mbi', 'MCO04G038' => 'mco', 'MCO09G370' => 'mco', 'MCO13G605' => 'mco', 'MD00G1075500' => 'mdo', 'MD03G1144300' => 'mdo', 'MD08G1236800' => 'mdo', 'MD13G1193300' => 'mdo', 'MD15G1428700' => 'mdo', 'Medtr1g112030' => 'mtr', 'Medtr1g112050' => 'mtr', 'Medtr2g006290' => 'mtr', 'Medtr2g086510' => 'mtr', 'Medtr4g053120' => 'mtr', 'Medtr5g006320' => 'mtr', 'Medtr8g088720' => 'mtr', 'MELO3C004712.2' => 'cme', 'MELO3C006533.2' => 'cme', 'MELO3C019438.2' => 'cme', 'MELO3C019440.2' => 'cme', 'MELO3C019441.2' => 'cme', 'MELO3C019895.2' => 'cme', 'Migut.B00811' => 'egut', 'Migut.D02447' => 'egut', 'Migut.F00875' => 'egut', 'Migut.N00186' => 'egut', 'Migut.N01051' => 'egut', 'Migut.N02491' => 'egut', 'Migut.O00784' => 'egut', 'MSTRG.12367' => 'ama', 'MSTRG.18756' => 'ama', 'MSTRG.21042' => 'ama', 'Nitab4.5_0000559g0040' => 'nta', 'Nitab4.5_0000667g0190' => 'nta', 'Nitab4.5_0000755g0160' => 'nta', 'Nitab4.5_0001216g0080' => 'nta', 'Nitab4.5_0004069g0040' => 'nta', 'Nitab4.5_0004129g0010' => 'nta', 'Nitab4.5_0005744g0030' => 'nta', 'Nitab4.5_0006996g0030' => 'nta', 'Nitab4.5_0008971g0040' => 'nta', 'Nitab4.5_0009769g0020' => 'nta', 'Nitab4.5_0009833g0010' => 'nta', 'Nitab4.5_0013140g0020' => 'nta', 'Nn003s41376' => 'nnu', 'Nn1g01857' => 'nnu', 'Nn1g03611' => 'nnu', 'Nn1g06853' => 'nnu', 'Nn3g18360' => 'nnu', 'Nn4g26328' => 'nnu', 'Nn5g27531' => 'nnu', 'Nn6g34899' => 'nnu', 'Nn7g36299' => 'nnu', 'Oeu021485.1' => 'oeu', 'Oeu022433.1' => 'oeu', 'Oeu032111.1' => 'oeu', 'Oeu051608.1' => 'oeu', 'Os01g0860601' => 'osa', 'Os03g0659200' => 'osa', 'Os03g0835900' => 'osa', 'Os04g0412200' => 'osa', 'Os05g0443500' => 'osa', 'Os07g0251500' => 'osa', 'Os08g0104600' => 'osa', 'Peaxi162Scf00003g00047' => 'pax', 'Peaxi162Scf00003g00052' => 'pax', 'Peaxi162Scf00003g00394' => 'pax', 'Peaxi162Scf00091g00621' => 'pax', 'Peaxi162Scf00152g00146' => 'pax', 'Peaxi162Scf00173g00025' => 'pax', 'Peaxi162Scf00195g00102' => 'pax', 'Peaxi162Scf00402g00013' => 'pax', 'Peaxi162Scf00519g00618' => 'pax', 'PGR004G2838' => 'pgr', 'PGR044G2275' => 'pgr', 'PGR102G1377' => 'pgr', 'PGR119G1245' => 'pgr', 'PGR142G4449' => 'pgr', 'PGSC0003DMG400004532' => 'stu', 'PGSC0003DMG400011950' => 'stu', 'PGSC0003DMG400023391' => 'stu', 'PGSC0003DMG400023985' => 'stu', 'PGSC0003DMG400026360' => 'stu', 'PGSC0003DMG400035711' => 'stu', 'PGSC0003DMG400037286' => 'stu', 'PGSC0003DMG402005881' => 'stu', 'Phvul.002G045400' => 'pvu', 'Phvul.006G216600' => 'pvu', 'Phvul.006G216700' => 'pvu', 'Phvul.006G216800' => 'pvu', 'Phvul.007G022500' => 'pvu', 'Phvul.011G094400' => 'pvu', 'Potri.001G470700' => 'ptr', 'Potri.003G015200' => 'ptr', 'Potri.004G202500' => 'ptr', 'Potri.004G218400' => 'ptr', 'Potri.008G020100' => 'ptr', 'Potri.008G153200' => 'ptr', 'Potri.009G163800' => 'ptr', 'Potri.010G087300' => 'ptr', 'Potri.010G239100' => 'ptr', 'Pp3c10_16100' => 'ppa', 'Pp3c10_16880' => 'ppa', 'Pp3c16_6230' => 'ppa', 'Pp3c17_18910' => 'ppa', 'Pp3c3_22119' => 'ppa', 'Pp3c3_22140' => 'ppa', 'Pp3c4_8159' => 'ppa', 'Pp3c4_8171' => 'ppa', 'Pp3c4_8330' => 'ppa', 'PRCOL_00004098' => 'pco', 'Prupe.1G013900' => 'ppe', 'Prupe.1G226300' => 'ppe', 'Prupe.1G573600' => 'ppe', 'Prupe.6G130100' => 'ppe', 'Psat3g090040' => 'psa', 'Psat4g210440' => 'psa', 'Psat6g231040' => 'psa', 'Psat6g231080' => 'psa', 'Psat7g063000' => 'psa', 'Psat7g188000' => 'psa', 'Psat7g188040' => 'psa', 'PSO017G0206' => 'pso', 'PSO170G0501' => 'pso', 'PSO170G6422' => 'pso', 'PSO210G7739' => 'pso', 'PSO339G1808' => 'pso', 'PSO339G6135' => 'pso', 'PSO384G0010' => 'pso', 'PSO384G0964' => 'pso', 'PSO761G0050' => 'pso', 'PSO782G4085' => 'pso', 'QL01p012264' => 'qlo', 'QL02p099491' => 'qlo', 'QL03p033868' => 'qlo', 'QL04p046678' => 'qlo', 'QL06p002448' => 'qlo', 'RcHm_v2.0_Chr4g0416181' => 'rch', 'RcHm_v2.0_Chr5g0044701' => 'rch', 'RcHm_v2.0_Chr6g0265781' => 'rch', 'RcHm_v2.0_Chr7g0221031' => 'rch', 'Rhsim04G0202000' => 'rsi', 'Rhsim11G0127300' => 'rsi', 'Rhsim13G0111800' => 'rsi', 'Sabra01G0165600' => 'sbr', 'Sabra03G0008300' => 'sbr', 'Sabra04G0136900' => 'sbr', 'Sabra08G0013400' => 'sbr', 'Sabra08G0116800' => 'sbr', 'Sabra09G0128000' => 'sbr', 'Sabra10G0055500' => 'sbr', 'Sabra10G0073300' => 'sbr', 'SalBow3G0385' => 'sbo', 'SalBow3G1119' => 'sbo', 'SalBow3G2005' => 'sbo', 'SalBow6G2563' => 'sbo', 'SalBow6G6386' => 'sbo', 'Sc06g0008800' => 'sci', 'Sc07g0004950' => 'sci', 'Sc09g0005340' => 'sci', 'Sc13g0004410' => 'sci', 'Sc21g0007090' => 'sci', 'Sed0009285' => 'sed', 'Sed0017583' => 'sed', 'Sed0019699' => 'sed', 'Sed0023107' => 'sed', 'SEGI_10916' => 'sgi', 'SEGI_16217' => 'sgi', 'SEGI_19466' => 'sgi', 'SEGI_41115' => 'sgi', 'SGA_v2.0_scaffold111G31534' => 'sas', 'SGA_v2.0_scaffold22G09864' => 'sas', 'SGA_v2.0_scaffold338G49219' => 'sas', 'SGA_v2.0_scaffold92G28298' => 'sas', 'SMO119G0064' => 'smo', 'SMO223G0038' => 'smo', 'SMO347G0584' => 'smo', 'SMO351G0010' => 'smo', 'SMO356G0404' => 'smo', 'Solyc01g103920.3' => 'sly', 'Solyc04g009710.2' => 'sly', 'Solyc05g055280.2' => 'sly', 'Solyc10g044520.3' => 'sly', 'Solyc10g075160.1' => 'sly', 'Solyc11g006910.3' => 'sly', 'Solyc11g068430.3' => 'sly', 'Sopen01g046310' => 'spe', 'Sopen03g001200' => 'spe', 'Sopen04g004830' => 'spe', 'Sopen05g033720' => 'spe', 'Sopen06g030740' => 'spe', 'Sopen10g013090' => 'spe', 'Sopen10g027630' => 'spe', 'Sopen10g027640' => 'spe', 'Sopen11g002820' => 'spe', 'Sopen11g027140' => 'spe', 'Sp1g09680' => 'spa', 'Sp2g03630' => 'spa', 'Sp4g10320' => 'spa', 'Sp6g33400' => 'spa', 'Sp7g13030' => 'spa', 'TAR365G0317' => 'tar', 'TAR376G0979' => 'tar', 'TAR623G1665' => 'tar', 'TAR633G2373' => 'tar', 'TAR636G1400' => 'tar', 'THA.LOC104800529' => 'tha', 'THA.LOC104808547' => 'tha', 'THA.LOC104809615' => 'tha', 'THA.LOC104815724' => 'tha', 'THA.LOC104818480' => 'tha', 'THA.LOC104819179' => 'tha', 'THA.LOC104822270' => 'tha', 'THA.LOC104826425' => 'tha', 'Thecc.02G089700' => 'tca', 'Thecc.04G232300' => 'tca', 'Thecc.09G283400' => 'tca', 'Thhalv10009020m.g' => 'esa', 'Thhalv10015506m.g' => 'esa', 'Thhalv10017364m.g' => 'esa', 'Thhalv10023742m.g' => 'esa', 'Thhalv10026483m.g' => 'esa', 'TPR.G17232' => 'tpr', 'TPR.G2133' => 'tpr', 'TPR.G2498' => 'tpr', 'TPR.G31942' => 'tpr', 'TPR.G37877' => 'tpr', 'TPR.G4571' => 'tpr', 'TWI14G1113' => 'twi', 'TWI15G0426' => 'twi', 'TWI31G1005' => 'twi', 'TWI38G0513' => 'twi', 'TWI38G1484' => 'twi', 'TWI73G1098' => 'twi', 'unitig_26.g10519' => 'ugi', 'unitig_736.g22395' => 'ugi', 'unitig_747.g21234' => 'ugi', 'unitig_747.g21942' => 'ugi', 'vmacro14351' => 'vma', 'VMungo0540G0082' => 'vmu', 'VMungo0540G0405' => 'vmu', 'VMungo0540G1486' => 'vmu', 'VMungo0540G1692' => 'vmu', 'VMungo0720G2473' => 'vmu', 'VMungo1127G1562' => 'vmu', 'VMungo1215G1918' => 'vmu', 'Zm00001eb052650' => 'zma', 'Zm00001eb063710' => 'zma', 'Zm00001eb083950' => 'zma', 'Zm00001eb174420' => 'zma', 'Zm00001eb260140' => 'zma', 'Zm00001eb260150' => 'zma', 'Zm00001eb260160' => 'zma', 'Zm00001eb348290' => 'zma', 'Zm00001eb366870' => 'zma', 'Zm00001eb421930' => 'zma' ), 'gf_id' => 'HOM05D001025', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001025' ), 'data_identifier' => 'HOM05D001025', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001025', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '592', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p22650' => 'bna', 'A01p29720' => 'bna', 'A03p26560' => 'bna', 'A03p68820' => 'bna', 'A04p20980' => 'bna', 'A06p07730' => 'bna', 'A07p18260' => 'bna', 'A08p33710' => 'bna', 'A09p16970' => 'bna', 'A10p27490' => 'bna', 'Aa31LG1G17300' => 'aar', 'Aa31LG1G3910' => 'aar', 'Aa31LG2G9630' => 'aar', 'Aa31LG5G8360' => 'aar', 'Aa31LG9G2410' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4699' => 'aag', 'Actinidia23512' => 'ach', 'Actinidia37080' => 'ach', 'Ah.01g020380' => 'amhyb', 'Ah.08g215710' => 'amhyb', 'Ah.09g225110' => 'amhyb', 'Ah.10g036680' => 'amhyb', 'AL1G21940' => 'aly', 'AL2G15540' => 'aly', 'AL4G21520' => 'aly', 'AL7G40960' => 'aly', 'Aqoxy2G01191' => 'aox', 'Aqoxy2G03393' => 'aox', 'Aqoxy4G02775' => 'aox', 'Aqoxy6G00058' => 'aox', 'arahy.Tifrunner.gnm1.ann1.9X74H2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CW3FX9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R485W7' => 'arhy', 'AT1G10960' => 'ath', 'AT1G60950' => 'ath', 'AT2G27510' => 'ath', 'AT4G14890' => 'ath', 'AT5G10000' => 'ath', 'ATR0665G624' => 'atr', 'ATR0697G138' => 'atr', 'ATR0776G046' => 'atr', 'ATR1134G135' => 'atr', 'Atru.chr12.1025' => 'acertr', 'Atru.chr3.3241' => 'acertr', 'Atru.chr4.2460' => 'acertr', 'AUR62007427' => 'cqu', 'AUR62010960' => 'cqu', 'AUR62012201' => 'cqu', 'AUR62021470' => 'cqu', 'AUR62022834' => 'cqu', 'AUR62033635' => 'cqu', 'AUR62036186' => 'cqu', 'BcaB01g03077' => 'bca', 'BcaB02g10093' => 'bca', 'BcaB04g20295' => 'bca', 'BcaB06g28147' => 'bca', 'BcaB07g31253' => 'bca', 'BcaC01g04946' => 'bca', 'BcaC02g10614' => 'bca', 'BcaC02g10885' => 'bca', 'BcaC04g19356' => 'bca', 'BcaC04g22297' => 'bca', 'BcaC05g24977' => 'bca', 'BcaC06g31823' => 'bca', 'BcaC07g38633' => 'bca', 'BcaC09g49353' => 'bca', 'BcaC09g50168' => 'bca', 'BcaNung00322' => 'bca', 'BcaNung04769' => 'bca', 'BolC1t02753H' => 'bol', 'BolC1t03721H' => 'bol', 'BolC3t15525H' => 'bol', 'BolC4t23903H' => 'bol', 'BolC4t24231H' => 'bol', 'BolC4t27209H' => 'bol', 'BolC5t29671H' => 'bol', 'BolC8t49044H' => 'bol', 'BolC9t54999H' => 'bol', 'BolC9t59517H' => 'bol', 'BraA01t02178Z' => 'bra', 'BraA01t03099Z' => 'bra', 'BraA03t11867Z' => 'bra', 'BraA04t17667Z' => 'bra', 'BraA07t29542Z' => 'bra', 'BraA08t35287Z' => 'bra', 'BraA09t37334Z' => 'bra', 'BraA10t44801Z' => 'bra', 'BraSC39t46181Z' => 'bra', 'C01p28240' => 'bna', 'C01p37530' => 'bna', 'C03p31820' => 'bna', 'C04p24080' => 'bna', 'C04p25790' => 'bna', 'C04p56770' => 'bna', 'C05p09310' => 'bna', 'C09p21010' => 'bna', 'C09p67560' => 'bna', 'CAN.G1324.7' => 'can', 'CAN.G1358.10' => 'can', 'CAN.G1550.2' => 'can', 'CAN.G186.56' => 'can', 'CAN.G1965.1' => 'can', 'CAN.G645.15' => 'can', 'CAN.G798.26' => 'can', 'CAN.G798.27' => 'can', 'CAN.G798.29' => 'can', 'CAN.G919.31' => 'can', 'CANSAT11G0133' => 'cansat', 'CANSAT11G1171' => 'cansat', 'CANSAT11G2056' => 'cansat', 'CANSAT56G1202' => 'cansat', 'CANSAT56G1514' => 'cansat', 'CANSAT78G0455' => 'cansat', 'CARHR011190' => 'chi', 'CARHR051980' => 'chi', 'CARHR120170' => 'chi', 'CARHR203310' => 'chi', 'CARHR221490' => 'chi', 'Carub.0001s1054' => 'cru', 'Carub.0002s0431' => 'cru', 'Carub.0004s0818' => 'cru', 'Carub.0006s0846' => 'cru', 'Carub.0007s2722' => 'cru', 'Ca_00058_v3' => 'car', 'Ca_17831_v3' => 'car', 'Ca_19408_v3' => 'car', 'Ca_24397_v3' => 'car', 'Ca_25664_v3' => 'car', 'CBR_g21818' => 'cbr', 'CBR_g31195' => 'cbr', 'CBR_g32282' => 'cbr', 'CBR_g39599' => 'cbr', 'CBR_g49410' => 'cbr', 'Cc01_g09120' => 'ccan', 'Cc01_g09130' => 'ccan', 'Cc02_g09630' => 'ccan', 'Cc02_g22810' => 'ccan', 'Cc03_g03810' => 'ccan', 'CDE02G3718' => 'cde', 'CDE04G3183' => 'cde', 'CDE07G1046' => 'cde', 'CDE08G0480' => 'cde', 'Cfa005493' => 'cfa', 'Cfa010312' => 'cfa', 'Cfa015648' => 'cfa', 'Ciclev10002793m.g' => 'ccl', 'Ciclev10003356m.g' => 'ccl', 'Ciclev10006141m.g' => 'ccl', 'Ciclev10016676m.g' => 'ccl', 'Ciclev10017081m.g' => 'ccl', 'Ciclev10029499m.g' => 'ccl', 'CiPaw.01G166300' => 'cil', 'CiPaw.06G145600' => 'cil', 'CiPaw.13G040100' => 'cil', 'CiPaw.13G135800' => 'cil', 'ClCG01G012230' => 'cla', 'ClCG05G009510' => 'cla', 'ClCG08G008270' => 'cla', 'COL.COLO4_11763' => 'col', 'COL.COLO4_19876' => 'col', 'COL.COLO4_21481' => 'col', 'Cpa.g.sc118.34' => 'cpa', 'Cpa.g.sc32.13' => 'cpa', 'Cpa.g.sc58.103' => 'cpa', 'Cre03.g183850' => 'cre', 'Cre06.g306350' => 'cre', 'Cre07.g334800' => 'cre', 'Cre12.g487900' => 'cre', 'Cre14.g626700' => 'cre', 'Cre16.g658400' => 'cre', 'Cre17.g700950' => 'cre', 'CsaV3_1G014830' => 'csa', 'CsaV3_3G013320' => 'csa', 'CsaV3_3G019210' => 'csa', 'CsaV3_3G019220' => 'csa', 'CsaV3_6G004230' => 'csa', 'CSS0003773' => 'camsi', 'CSS0004563' => 'camsi', 'CSS0013949' => 'camsi', 'CSS0025971' => 'camsi', 'CSS0028570' => 'camsi', 'CSS0033127' => 'camsi', 'CSS0036051' => 'camsi', 'CSS0040087' => 'camsi', 'CSS0043179' => 'camsi', 'DCAR_006161' => 'dca', 'DCAR_010351' => 'dca', 'DCAR_012197' => 'dca', 'DCAR_024162' => 'dca', 'Dinv01030' => 'din', 'Dinv10924' => 'din', 'Dinv11835' => 'din', 'Dinv22841' => 'din', 'Dinv42553' => 'din', 'Duzib052G0560' => 'dzi', 'Duzib132G0389' => 'dzi', 'Duzib150G1181' => 'dzi', 'Duzib168G0623' => 'dzi', 'Duzib170G1036' => 'dzi', 'Duzib212G0200' => 'dzi', 'Duzib248G0194' => 'dzi', 'ECA232G2193' => 'eca', 'ECA233G0302' => 'eca', 'ECA234G2813' => 'eca', 'ECA234G4866' => 'eca', 'ECA240G3932' => 'eca', 'ECA248G0385' => 'eca', 'EL10Ac2g04781' => 'bvu', 'EL10Ac3g06445' => 'bvu', 'EL10Ac7g15825' => 'bvu', 'EL10Ac8g18550' => 'bvu', 'Eucgr.B03849' => 'egr', 'Eucgr.I02744' => 'egr', 'Eucgr.J00264' => 'egr', 'Eucgr.J00493' => 'egr', 'FAN04G2181' => 'fan', 'FAN07G2666' => 'fan', 'FAN11G0024' => 'fan', 'FAN12G1105' => 'fan', 'FAN13G0302' => 'fan', 'FAN15G2781' => 'fan', 'FAN16G1274' => 'fan', 'FAN17G2988' => 'fan', 'FAN18G2621' => 'fan', 'FAN21G0013' => 'fan', 'FAN22G1211' => 'fan', 'FAN25G3626' => 'fan', 'FvH4_2g09491' => 'fve', 'FvH4_3g24910' => 'fve', 'FvH4_4g15630' => 'fve', 'FvH4_5g28820' => 'fve', 'Glyma.01G238000' => 'gma', 'Glyma.05G168400' => 'gma', 'Glyma.08G126800' => 'gma', 'Glyma.08G188500' => 'gma', 'Glyma.10G278900' => 'gma', 'Glyma.11G005700' => 'gma', 'Glyma.11G183300' => 'gma', 'Glyma.12G089200' => 'gma', 'Glyma.12G169400' => 'gma', 'Glyma.12G169500' => 'gma', 'Glyma.12G169600' => 'gma', 'Glyma.20G110800' => 'gma', 'Gohir.A03G192900' => 'ghi', 'Gohir.A03G193000' => 'ghi', 'Gohir.A05G080700' => 'ghi', 'Gohir.A09G216000' => 'ghi', 'Gohir.A12G027700' => 'ghi', 'Gohir.A13G036200' => 'ghi', 'Gohir.A13G222600' => 'ghi', 'Gohir.D02G213900' => 'ghi', 'Gohir.D02G214000' => 'ghi', 'Gohir.D05G083700' => 'ghi', 'Gohir.D05G083800' => 'ghi', 'Gohir.D05G083850' => 'ghi', 'Gohir.D08G015400' => 'ghi', 'Gohir.D09G218400' => 'ghi', 'Gohir.D12G027100' => 'ghi', 'Gohir.D13G034500' => 'ghi', 'Gohir.D13G227400' => 'ghi', 'Gorai.005G241800' => 'gra', 'Gorai.005G241900' => 'gra', 'Gorai.006G239400' => 'gra', 'Gorai.008G027600' => 'gra', 'Gorai.009G085400' => 'gra', 'Gorai.009G085500' => 'gra', 'Gorai.013G039000' => 'gra', 'Gorai.013G194800' => 'gra', 'Gorai.013G257900' => 'gra', 'GSVIVG01000982001' => 'vvi', 'GSVIVG01017981001' => 'vvi', 'HanXRQChr01g0024061' => 'han', 'HanXRQChr09g0247831' => 'han', 'HanXRQChr10g0294611' => 'han', 'HanXRQChr10g0294621' => 'han', 'HanXRQChr11g0346821' => 'han', 'HanXRQChr13g0397461' => 'han', 'HanXRQChr16g0513651' => 'han', 'HanXRQChr16g0513701' => 'han', 'Haze_00897' => 'cav', 'Haze_01745' => 'cav', 'Haze_02486' => 'cav', 'Haze_02487' => 'cav', 'Haze_23374' => 'cav', 'Hma1.2p1_0578F.1_g182520' => 'hma', 'Hma1.2p1_0602F.1_g187350' => 'hma', 'Hma1.2p1_0602F.1_g187360' => 'hma', 'Hma1.2p1_0874F.1_g231320' => 'hma', 'Hma1.2p1_1197F.1_g266210' => 'hma', 'Hma1.2p1_1197F.1_g266220' => 'hma', 'Hma1.2p1_2167F.1_g315895' => 'hma', 'Hma1.2p1_2190F.1_g316640' => 'hma', 'Hma1.2p1_3645F.1_g337153' => 'hma', 'HPP92_004907' => 'vpl', 'HPP92_012134' => 'vpl', 'HPP92_025136' => 'vpl', 'HPP92_026087' => 'vpl', 'Hund06782' => 'sun', 'Hund06784' => 'sun', 'Lalb_Chr01g0004861' => 'lal', 'Lalb_Chr02g0140591' => 'lal', 'Lalb_Chr02g0140611' => 'lal', 'Lalb_Chr03g0028101' => 'lal', 'Lalb_Chr07g0185791' => 'lal', 'Lalb_Chr12g0204491' => 'lal', 'Lalb_Chr13g0295671' => 'lal', 'Lalb_Chr19g0136461' => 'lal', 'Lalb_Chr21g0309191' => 'lal', 'Lj1g0028158' => 'lja', 'Lj1P236T38' => 'lonja', 'Lj2C32G2' => 'lonja', 'Lj2P944T8' => 'lonja', 'Lj2P963T15' => 'lonja', 'Lj3g0011788' => 'lja', 'Lj4g0025027' => 'lja', 'Lj5P255T36' => 'lonja', 'Lj6g0018866' => 'lja', 'Lj6P608T31' => 'lonja', 'LjContig00408g0008879' => 'lja', 'Lsat_1_v5_gn_5_105820' => 'lsa', 'Lsat_1_v5_gn_6_38800' => 'lsa', 'Lsat_1_v5_gn_7_67141' => 'lsa', 'Manes.04G003400' => 'mes', 'Manes.07G020000' => 'mes', 'Manes.07G020100' => 'mes', 'Manes.07G020150' => 'mes', 'Manes.10G061500' => 'mes', 'Manes.10G123200' => 'mes', 'Manes.11G161900' => 'mes', 'Manes.15G029300' => 'mes', 'Mapoly0071s0018' => 'mpo', 'Mapoly0082s0023' => 'mpo', 'Mapoly3477s0001' => 'mpo', 'MBI05_g31233_MAGBIO' => 'mbi', 'MBI09_g05946_MAGBIO' => 'mbi', 'MBI09_g05947_MAGBIO' => 'mbi', 'MBI17_g08346_MAGBIO' => 'mbi', 'MCO04G038' => 'mco', 'MCO09G370' => 'mco', 'MCO13G605' => 'mco', 'MD00G1075500' => 'mdo', 'MD03G1144300' => 'mdo', 'MD08G1236800' => 'mdo', 'MD13G1193300' => 'mdo', 'MD15G1428700' => 'mdo', 'Medtr1g112030' => 'mtr', 'Medtr1g112050' => 'mtr', 'Medtr2g006290' => 'mtr', 'Medtr2g086510' => 'mtr', 'Medtr4g053120' => 'mtr', 'Medtr5g006320' => 'mtr', 'Medtr8g088720' => 'mtr', 'MELO3C004712.2' => 'cme', 'MELO3C006533.2' => 'cme', 'MELO3C019438.2' => 'cme', 'MELO3C019440.2' => 'cme', 'MELO3C019441.2' => 'cme', 'MELO3C019895.2' => 'cme', 'Migut.B00811' => 'egut', 'Migut.D02447' => 'egut', 'Migut.F00875' => 'egut', 'Migut.N00186' => 'egut', 'Migut.N01051' => 'egut', 'Migut.N02491' => 'egut', 'Migut.O00784' => 'egut', 'MSTRG.12367' => 'ama', 'MSTRG.18756' => 'ama', 'MSTRG.21042' => 'ama', 'Nitab4.5_0000559g0040' => 'nta', 'Nitab4.5_0000667g0190' => 'nta', 'Nitab4.5_0000755g0160' => 'nta', 'Nitab4.5_0001216g0080' => 'nta', 'Nitab4.5_0004069g0040' => 'nta', 'Nitab4.5_0004129g0010' => 'nta', 'Nitab4.5_0005744g0030' => 'nta', 'Nitab4.5_0006996g0030' => 'nta', 'Nitab4.5_0008971g0040' => 'nta', 'Nitab4.5_0009769g0020' => 'nta', 'Nitab4.5_0009833g0010' => 'nta', 'Nitab4.5_0013140g0020' => 'nta', 'Nn003s41376' => 'nnu', 'Nn1g01857' => 'nnu', 'Nn1g03611' => 'nnu', 'Nn1g06853' => 'nnu', 'Nn3g18360' => 'nnu', 'Nn4g26328' => 'nnu', 'Nn5g27531' => 'nnu', 'Nn6g34899' => 'nnu', 'Nn7g36299' => 'nnu', 'Oeu021485.1' => 'oeu', 'Oeu022433.1' => 'oeu', 'Oeu032111.1' => 'oeu', 'Oeu051608.1' => 'oeu', 'Os01g0860601' => 'osa', 'Os03g0659200' => 'osa', 'Os03g0835900' => 'osa', 'Os04g0412200' => 'osa', 'Os05g0443500' => 'osa', 'Os07g0251500' => 'osa', 'Os08g0104600' => 'osa', 'Peaxi162Scf00003g00047' => 'pax', 'Peaxi162Scf00003g00052' => 'pax', 'Peaxi162Scf00003g00394' => 'pax', 'Peaxi162Scf00091g00621' => 'pax', 'Peaxi162Scf00152g00146' => 'pax', 'Peaxi162Scf00173g00025' => 'pax', 'Peaxi162Scf00195g00102' => 'pax', 'Peaxi162Scf00402g00013' => 'pax', 'Peaxi162Scf00519g00618' => 'pax', 'PGR004G2838' => 'pgr', 'PGR044G2275' => 'pgr', 'PGR102G1377' => 'pgr', 'PGR119G1245' => 'pgr', 'PGR142G4449' => 'pgr', 'PGSC0003DMG400004532' => 'stu', 'PGSC0003DMG400011950' => 'stu', 'PGSC0003DMG400023391' => 'stu', 'PGSC0003DMG400023985' => 'stu', 'PGSC0003DMG400026360' => 'stu', 'PGSC0003DMG400035711' => 'stu', 'PGSC0003DMG400037286' => 'stu', 'PGSC0003DMG402005881' => 'stu', 'Phvul.002G045400' => 'pvu', 'Phvul.006G216600' => 'pvu', 'Phvul.006G216700' => 'pvu', 'Phvul.006G216800' => 'pvu', 'Phvul.007G022500' => 'pvu', 'Phvul.011G094400' => 'pvu', 'Potri.001G470700' => 'ptr', 'Potri.003G015200' => 'ptr', 'Potri.004G202500' => 'ptr', 'Potri.004G218400' => 'ptr', 'Potri.008G020100' => 'ptr', 'Potri.008G153200' => 'ptr', 'Potri.009G163800' => 'ptr', 'Potri.010G087300' => 'ptr', 'Potri.010G239100' => 'ptr', 'Pp3c10_16100' => 'ppa', 'Pp3c10_16880' => 'ppa', 'Pp3c16_6230' => 'ppa', 'Pp3c17_18910' => 'ppa', 'Pp3c3_22119' => 'ppa', 'Pp3c3_22140' => 'ppa', 'Pp3c4_8159' => 'ppa', 'Pp3c4_8171' => 'ppa', 'Pp3c4_8330' => 'ppa', 'PRCOL_00004098' => 'pco', 'Prupe.1G013900' => 'ppe', 'Prupe.1G226300' => 'ppe', 'Prupe.1G573600' => 'ppe', 'Prupe.6G130100' => 'ppe', 'Psat3g090040' => 'psa', 'Psat4g210440' => 'psa', 'Psat6g231040' => 'psa', 'Psat6g231080' => 'psa', 'Psat7g063000' => 'psa', 'Psat7g188000' => 'psa', 'Psat7g188040' => 'psa', 'PSO017G0206' => 'pso', 'PSO170G0501' => 'pso', 'PSO170G6422' => 'pso', 'PSO210G7739' => 'pso', 'PSO339G1808' => 'pso', 'PSO339G6135' => 'pso', 'PSO384G0010' => 'pso', 'PSO384G0964' => 'pso', 'PSO761G0050' => 'pso', 'PSO782G4085' => 'pso', 'QL01p012264' => 'qlo', 'QL02p099491' => 'qlo', 'QL03p033868' => 'qlo', 'QL04p046678' => 'qlo', 'QL06p002448' => 'qlo', 'RcHm_v2.0_Chr4g0416181' => 'rch', 'RcHm_v2.0_Chr5g0044701' => 'rch', 'RcHm_v2.0_Chr6g0265781' => 'rch', 'RcHm_v2.0_Chr7g0221031' => 'rch', 'Rhsim04G0202000' => 'rsi', 'Rhsim11G0127300' => 'rsi', 'Rhsim13G0111800' => 'rsi', 'Sabra01G0165600' => 'sbr', 'Sabra03G0008300' => 'sbr', 'Sabra04G0136900' => 'sbr', 'Sabra08G0013400' => 'sbr', 'Sabra08G0116800' => 'sbr', 'Sabra09G0128000' => 'sbr', 'Sabra10G0055500' => 'sbr', 'Sabra10G0073300' => 'sbr', 'SalBow3G0385' => 'sbo', 'SalBow3G1119' => 'sbo', 'SalBow3G2005' => 'sbo', 'SalBow6G2563' => 'sbo', 'SalBow6G6386' => 'sbo', 'Sc06g0008800' => 'sci', 'Sc07g0004950' => 'sci', 'Sc09g0005340' => 'sci', 'Sc13g0004410' => 'sci', 'Sc21g0007090' => 'sci', 'Sed0009285' => 'sed', 'Sed0017583' => 'sed', 'Sed0019699' => 'sed', 'Sed0023107' => 'sed', 'SEGI_10916' => 'sgi', 'SEGI_16217' => 'sgi', 'SEGI_19466' => 'sgi', 'SEGI_41115' => 'sgi', 'SGA_v2.0_scaffold111G31534' => 'sas', 'SGA_v2.0_scaffold22G09864' => 'sas', 'SGA_v2.0_scaffold338G49219' => 'sas', 'SGA_v2.0_scaffold92G28298' => 'sas', 'SMO119G0064' => 'smo', 'SMO223G0038' => 'smo', 'SMO347G0584' => 'smo', 'SMO351G0010' => 'smo', 'SMO356G0404' => 'smo', 'Solyc01g103920.3' => 'sly', 'Solyc04g009710.2' => 'sly', 'Solyc05g055280.2' => 'sly', 'Solyc10g044520.3' => 'sly', 'Solyc10g075160.1' => 'sly', 'Solyc11g006910.3' => 'sly', 'Solyc11g068430.3' => 'sly', 'Sopen01g046310' => 'spe', 'Sopen03g001200' => 'spe', 'Sopen04g004830' => 'spe', 'Sopen05g033720' => 'spe', 'Sopen06g030740' => 'spe', 'Sopen10g013090' => 'spe', 'Sopen10g027630' => 'spe', 'Sopen10g027640' => 'spe', 'Sopen11g002820' => 'spe', 'Sopen11g027140' => 'spe', 'Sp1g09680' => 'spa', 'Sp2g03630' => 'spa', 'Sp4g10320' => 'spa', 'Sp6g33400' => 'spa', 'Sp7g13030' => 'spa', 'TAR365G0317' => 'tar', 'TAR376G0979' => 'tar', 'TAR623G1665' => 'tar', 'TAR633G2373' => 'tar', 'TAR636G1400' => 'tar', 'THA.LOC104800529' => 'tha', 'THA.LOC104808547' => 'tha', 'THA.LOC104809615' => 'tha', 'THA.LOC104815724' => 'tha', 'THA.LOC104818480' => 'tha', 'THA.LOC104819179' => 'tha', 'THA.LOC104822270' => 'tha', 'THA.LOC104826425' => 'tha', 'Thecc.02G089700' => 'tca', 'Thecc.04G232300' => 'tca', 'Thecc.09G283400' => 'tca', 'Thhalv10009020m.g' => 'esa', 'Thhalv10015506m.g' => 'esa', 'Thhalv10017364m.g' => 'esa', 'Thhalv10023742m.g' => 'esa', 'Thhalv10026483m.g' => 'esa', 'TPR.G17232' => 'tpr', 'TPR.G2133' => 'tpr', 'TPR.G2498' => 'tpr', 'TPR.G31942' => 'tpr', 'TPR.G37877' => 'tpr', 'TPR.G4571' => 'tpr', 'TWI14G1113' => 'twi', 'TWI15G0426' => 'twi', 'TWI31G1005' => 'twi', 'TWI38G0513' => 'twi', 'TWI38G1484' => 'twi', 'TWI73G1098' => 'twi', 'unitig_26.g10519' => 'ugi', 'unitig_736.g22395' => 'ugi', 'unitig_747.g21234' => 'ugi', 'unitig_747.g21942' => 'ugi', 'vmacro14351' => 'vma', 'VMungo0540G0082' => 'vmu', 'VMungo0540G0405' => 'vmu', 'VMungo0540G1486' => 'vmu', 'VMungo0540G1692' => 'vmu', 'VMungo0720G2473' => 'vmu', 'VMungo1127G1562' => 'vmu', 'VMungo1215G1918' => 'vmu', 'Zm00001eb052650' => 'zma', 'Zm00001eb063710' => 'zma', 'Zm00001eb083950' => 'zma', 'Zm00001eb174420' => 'zma', 'Zm00001eb260140' => 'zma', 'Zm00001eb260150' => 'zma', 'Zm00001eb260160' => 'zma', 'Zm00001eb348290' => 'zma', 'Zm00001eb366870' => 'zma', 'Zm00001eb421930' => 'zma' ) $gf_id = 'HOM05D001025' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001025' ) $data_identifier = 'HOM05D001025' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 19, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 2, 'amhyb' => (int) 4, 'aly' => (int) 4, 'aox' => (int) 4, 'arhy' => (int) 3, 'ath' => (int) 5, 'atr' => (int) 4, 'acertr' => (int) 3, 'cqu' => (int) 7, 'bca' => (int) 17, 'bol' => (int) 10, 'bra' => (int) 9, 'can' => (int) 10, 'cansat' => (int) 6, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 5, 'cbr' => (int) 5, 'ccan' => (int) 5, 'cde' => (int) 4, 'cfa' => (int) 3, 'ccl' => (int) 6, 'cil' => (int) 4, 'cla' => (int) 3, 'col' => (int) 3, 'cpa' => (int) 3, 'cre' => (int) 7, 'csa' => (int) 5, 'camsi' => (int) 9, 'dca' => (int) 4, 'din' => (int) 5, 'dzi' => (int) 7, 'eca' => (int) 6, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 12, 'fve' => (int) 4, 'gma' => (int) 12, 'ghi' => (int) 17, 'gra' => (int) 9, 'vvi' => (int) 2, 'han' => (int) 8, 'cav' => (int) 5, 'hma' => (int) 9, 'vpl' => (int) 4, 'sun' => (int) 2, 'lal' => (int) 9, 'lja' => (int) 5, 'lonja' => (int) 6, 'lsa' => (int) 3, 'mes' => (int) 8, 'mpo' => (int) 3, 'mbi' => (int) 4, 'mco' => (int) 3, 'mdo' => (int) 5, 'mtr' => (int) 7, 'cme' => (int) 6, 'egut' => (int) 7, 'ama' => (int) 3, 'nta' => (int) 12, 'nnu' => (int) 9, 'oeu' => (int) 4, 'osa' => (int) 7, 'pax' => (int) 9, 'pgr' => (int) 5, 'stu' => (int) 8, 'pvu' => (int) 6, 'ptr' => (int) 9, 'ppa' => (int) 9, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 7, 'pso' => (int) 10, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 3, 'sbr' => (int) 8, 'sbo' => (int) 5, 'sci' => (int) 5, 'sed' => (int) 4, 'sgi' => (int) 4, 'sas' => (int) 4, 'smo' => (int) 5, 'sly' => (int) 7, 'spe' => (int) 10, 'spa' => (int) 5, 'tar' => (int) 5, 'tha' => (int) 8, 'tca' => (int) 3, 'esa' => (int) 5, 'tpr' => (int) 6, 'twi' => (int) 6, 'ugi' => (int) 4, 'vma' => (int) 1, 'vmu' => (int) 7, 'zma' => (int) 10 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb421930' $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' => 'HOM05D001025', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '592', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p22650' => 'bna', 'A01p29720' => 'bna', 'A03p26560' => 'bna', 'A03p68820' => 'bna', 'A04p20980' => 'bna', 'A06p07730' => 'bna', 'A07p18260' => 'bna', 'A08p33710' => 'bna', 'A09p16970' => 'bna', 'A10p27490' => 'bna', 'Aa31LG1G17300' => 'aar', 'Aa31LG1G3910' => 'aar', 'Aa31LG2G9630' => 'aar', 'Aa31LG5G8360' => 'aar', 'Aa31LG9G2410' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4699' => 'aag', 'Actinidia23512' => 'ach', 'Actinidia37080' => 'ach', 'Ah.01g020380' => 'amhyb', 'Ah.08g215710' => 'amhyb', 'Ah.09g225110' => 'amhyb', 'Ah.10g036680' => 'amhyb', 'AL1G21940' => 'aly', 'AL2G15540' => 'aly', 'AL4G21520' => 'aly', 'AL7G40960' => 'aly', 'Aqoxy2G01191' => 'aox', 'Aqoxy2G03393' => 'aox', 'Aqoxy4G02775' => 'aox', 'Aqoxy6G00058' => 'aox', 'arahy.Tifrunner.gnm1.ann1.9X74H2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CW3FX9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R485W7' => 'arhy', 'AT1G10960' => 'ath', 'AT1G60950' => 'ath', 'AT2G27510' => 'ath', 'AT4G14890' => 'ath', 'AT5G10000' => 'ath', 'ATR0665G624' => 'atr', 'ATR0697G138' => 'atr', 'ATR0776G046' => 'atr', 'ATR1134G135' => 'atr', 'Atru.chr12.1025' => 'acertr', 'Atru.chr3.3241' => 'acertr', 'Atru.chr4.2460' => 'acertr', 'AUR62007427' => 'cqu', 'AUR62010960' => 'cqu', 'AUR62012201' => 'cqu', 'AUR62021470' => 'cqu', 'AUR62022834' => 'cqu', 'AUR62033635' => 'cqu', 'AUR62036186' => 'cqu', 'BcaB01g03077' => 'bca', 'BcaB02g10093' => 'bca', 'BcaB04g20295' => 'bca', 'BcaB06g28147' => 'bca', 'BcaB07g31253' => 'bca', 'BcaC01g04946' => 'bca', 'BcaC02g10614' => 'bca', 'BcaC02g10885' => 'bca', 'BcaC04g19356' => 'bca', 'BcaC04g22297' => 'bca', 'BcaC05g24977' => 'bca', 'BcaC06g31823' => 'bca', 'BcaC07g38633' => 'bca', 'BcaC09g49353' => 'bca', 'BcaC09g50168' => 'bca', 'BcaNung00322' => 'bca', 'BcaNung04769' => 'bca', 'BolC1t02753H' => 'bol', 'BolC1t03721H' => 'bol', 'BolC3t15525H' => 'bol', 'BolC4t23903H' => 'bol', 'BolC4t24231H' => 'bol', 'BolC4t27209H' => 'bol', 'BolC5t29671H' => 'bol', 'BolC8t49044H' => 'bol', 'BolC9t54999H' => 'bol', 'BolC9t59517H' => 'bol', 'BraA01t02178Z' => 'bra', 'BraA01t03099Z' => 'bra', 'BraA03t11867Z' => 'bra', 'BraA04t17667Z' => 'bra', 'BraA07t29542Z' => 'bra', 'BraA08t35287Z' => 'bra', 'BraA09t37334Z' => 'bra', 'BraA10t44801Z' => 'bra', 'BraSC39t46181Z' => 'bra', 'C01p28240' => 'bna', 'C01p37530' => 'bna', 'C03p31820' => 'bna', 'C04p24080' => 'bna', 'C04p25790' => 'bna', 'C04p56770' => 'bna', 'C05p09310' => 'bna', 'C09p21010' => 'bna', 'C09p67560' => 'bna', 'CAN.G1324.7' => 'can', 'CAN.G1358.10' => 'can', 'CAN.G1550.2' => 'can', 'CAN.G186.56' => 'can', 'CAN.G1965.1' => 'can', 'CAN.G645.15' => 'can', 'CAN.G798.26' => 'can', 'CAN.G798.27' => 'can', 'CAN.G798.29' => 'can', 'CAN.G919.31' => 'can', 'CANSAT11G0133' => 'cansat', 'CANSAT11G1171' => 'cansat', 'CANSAT11G2056' => 'cansat', 'CANSAT56G1202' => 'cansat', 'CANSAT56G1514' => 'cansat', 'CANSAT78G0455' => 'cansat', 'CARHR011190' => 'chi', 'CARHR051980' => 'chi', 'CARHR120170' => 'chi', 'CARHR203310' => 'chi', 'CARHR221490' => 'chi', 'Carub.0001s1054' => 'cru', 'Carub.0002s0431' => 'cru', 'Carub.0004s0818' => 'cru', 'Carub.0006s0846' => 'cru', 'Carub.0007s2722' => 'cru', 'Ca_00058_v3' => 'car', 'Ca_17831_v3' => 'car', 'Ca_19408_v3' => 'car', 'Ca_24397_v3' => 'car', 'Ca_25664_v3' => 'car', 'CBR_g21818' => 'cbr', 'CBR_g31195' => 'cbr', 'CBR_g32282' => 'cbr', 'CBR_g39599' => 'cbr', 'CBR_g49410' => 'cbr', 'Cc01_g09120' => 'ccan', 'Cc01_g09130' => 'ccan', 'Cc02_g09630' => 'ccan', 'Cc02_g22810' => 'ccan', 'Cc03_g03810' => 'ccan', 'CDE02G3718' => 'cde', 'CDE04G3183' => 'cde', 'CDE07G1046' => 'cde', 'CDE08G0480' => 'cde', 'Cfa005493' => 'cfa', 'Cfa010312' => 'cfa', 'Cfa015648' => 'cfa', 'Ciclev10002793m.g' => 'ccl', 'Ciclev10003356m.g' => 'ccl', 'Ciclev10006141m.g' => 'ccl', 'Ciclev10016676m.g' => 'ccl', 'Ciclev10017081m.g' => 'ccl', 'Ciclev10029499m.g' => 'ccl', 'CiPaw.01G166300' => 'cil', 'CiPaw.06G145600' => 'cil', 'CiPaw.13G040100' => 'cil', 'CiPaw.13G135800' => 'cil', 'ClCG01G012230' => 'cla', 'ClCG05G009510' => 'cla', 'ClCG08G008270' => 'cla', 'COL.COLO4_11763' => 'col', 'COL.COLO4_19876' => 'col', 'COL.COLO4_21481' => 'col', 'Cpa.g.sc118.34' => 'cpa', 'Cpa.g.sc32.13' => 'cpa', 'Cpa.g.sc58.103' => 'cpa', 'Cre03.g183850' => 'cre', 'Cre06.g306350' => 'cre', 'Cre07.g334800' => 'cre', 'Cre12.g487900' => 'cre', 'Cre14.g626700' => 'cre', 'Cre16.g658400' => 'cre', 'Cre17.g700950' => 'cre', 'CsaV3_1G014830' => 'csa', 'CsaV3_3G013320' => 'csa', 'CsaV3_3G019210' => 'csa', 'CsaV3_3G019220' => 'csa', 'CsaV3_6G004230' => 'csa', 'CSS0003773' => 'camsi', 'CSS0004563' => 'camsi', 'CSS0013949' => 'camsi', 'CSS0025971' => 'camsi', 'CSS0028570' => 'camsi', 'CSS0033127' => 'camsi', 'CSS0036051' => 'camsi', 'CSS0040087' => 'camsi', 'CSS0043179' => 'camsi', 'DCAR_006161' => 'dca', 'DCAR_010351' => 'dca', 'DCAR_012197' => 'dca', 'DCAR_024162' => 'dca', 'Dinv01030' => 'din', 'Dinv10924' => 'din', 'Dinv11835' => 'din', 'Dinv22841' => 'din', 'Dinv42553' => 'din', 'Duzib052G0560' => 'dzi', 'Duzib132G0389' => 'dzi', 'Duzib150G1181' => 'dzi', 'Duzib168G0623' => 'dzi', 'Duzib170G1036' => 'dzi', 'Duzib212G0200' => 'dzi', 'Duzib248G0194' => 'dzi', 'ECA232G2193' => 'eca', 'ECA233G0302' => 'eca', 'ECA234G2813' => 'eca', 'ECA234G4866' => 'eca', 'ECA240G3932' => 'eca', 'ECA248G0385' => 'eca', 'EL10Ac2g04781' => 'bvu', 'EL10Ac3g06445' => 'bvu', 'EL10Ac7g15825' => 'bvu', 'EL10Ac8g18550' => 'bvu', 'Eucgr.B03849' => 'egr', 'Eucgr.I02744' => 'egr', 'Eucgr.J00264' => 'egr', 'Eucgr.J00493' => 'egr', 'FAN04G2181' => 'fan', 'FAN07G2666' => 'fan', 'FAN11G0024' => 'fan', 'FAN12G1105' => 'fan', 'FAN13G0302' => 'fan', 'FAN15G2781' => 'fan', 'FAN16G1274' => 'fan', 'FAN17G2988' => 'fan', 'FAN18G2621' => 'fan', 'FAN21G0013' => 'fan', 'FAN22G1211' => 'fan', 'FAN25G3626' => 'fan', 'FvH4_2g09491' => 'fve', 'FvH4_3g24910' => 'fve', 'FvH4_4g15630' => 'fve', 'FvH4_5g28820' => 'fve', 'Glyma.01G238000' => 'gma', 'Glyma.05G168400' => 'gma', 'Glyma.08G126800' => 'gma', 'Glyma.08G188500' => 'gma', 'Glyma.10G278900' => 'gma', 'Glyma.11G005700' => 'gma', 'Glyma.11G183300' => 'gma', 'Glyma.12G089200' => 'gma', 'Glyma.12G169400' => 'gma', 'Glyma.12G169500' => 'gma', 'Glyma.12G169600' => 'gma', 'Glyma.20G110800' => 'gma', 'Gohir.A03G192900' => 'ghi', 'Gohir.A03G193000' => 'ghi', 'Gohir.A05G080700' => 'ghi', 'Gohir.A09G216000' => 'ghi', 'Gohir.A12G027700' => 'ghi', 'Gohir.A13G036200' => 'ghi', 'Gohir.A13G222600' => 'ghi', 'Gohir.D02G213900' => 'ghi', 'Gohir.D02G214000' => 'ghi', 'Gohir.D05G083700' => 'ghi', 'Gohir.D05G083800' => 'ghi', 'Gohir.D05G083850' => 'ghi', 'Gohir.D08G015400' => 'ghi', 'Gohir.D09G218400' => 'ghi', 'Gohir.D12G027100' => 'ghi', 'Gohir.D13G034500' => 'ghi', 'Gohir.D13G227400' => 'ghi', 'Gorai.005G241800' => 'gra', 'Gorai.005G241900' => 'gra', 'Gorai.006G239400' => 'gra', 'Gorai.008G027600' => 'gra', 'Gorai.009G085400' => 'gra', 'Gorai.009G085500' => 'gra', 'Gorai.013G039000' => 'gra', 'Gorai.013G194800' => 'gra', 'Gorai.013G257900' => 'gra', 'GSVIVG01000982001' => 'vvi', 'GSVIVG01017981001' => 'vvi', 'HanXRQChr01g0024061' => 'han', 'HanXRQChr09g0247831' => 'han', 'HanXRQChr10g0294611' => 'han', 'HanXRQChr10g0294621' => 'han', 'HanXRQChr11g0346821' => 'han', 'HanXRQChr13g0397461' => 'han', 'HanXRQChr16g0513651' => 'han', 'HanXRQChr16g0513701' => 'han', 'Haze_00897' => 'cav', 'Haze_01745' => 'cav', 'Haze_02486' => 'cav', 'Haze_02487' => 'cav', 'Haze_23374' => 'cav', 'Hma1.2p1_0578F.1_g182520' => 'hma', 'Hma1.2p1_0602F.1_g187350' => 'hma', 'Hma1.2p1_0602F.1_g187360' => 'hma', 'Hma1.2p1_0874F.1_g231320' => 'hma', 'Hma1.2p1_1197F.1_g266210' => 'hma', 'Hma1.2p1_1197F.1_g266220' => 'hma', 'Hma1.2p1_2167F.1_g315895' => 'hma', 'Hma1.2p1_2190F.1_g316640' => 'hma', 'Hma1.2p1_3645F.1_g337153' => 'hma', 'HPP92_004907' => 'vpl', 'HPP92_012134' => 'vpl', 'HPP92_025136' => 'vpl', 'HPP92_026087' => 'vpl', 'Hund06782' => 'sun', 'Hund06784' => 'sun', 'Lalb_Chr01g0004861' => 'lal', 'Lalb_Chr02g0140591' => 'lal', 'Lalb_Chr02g0140611' => 'lal', 'Lalb_Chr03g0028101' => 'lal', 'Lalb_Chr07g0185791' => 'lal', 'Lalb_Chr12g0204491' => 'lal', 'Lalb_Chr13g0295671' => 'lal', 'Lalb_Chr19g0136461' => 'lal', 'Lalb_Chr21g0309191' => 'lal', 'Lj1g0028158' => 'lja', 'Lj1P236T38' => 'lonja', 'Lj2C32G2' => 'lonja', 'Lj2P944T8' => 'lonja', 'Lj2P963T15' => 'lonja', 'Lj3g0011788' => 'lja', 'Lj4g0025027' => 'lja', 'Lj5P255T36' => 'lonja', 'Lj6g0018866' => 'lja', 'Lj6P608T31' => 'lonja', 'LjContig00408g0008879' => 'lja', 'Lsat_1_v5_gn_5_105820' => 'lsa', 'Lsat_1_v5_gn_6_38800' => 'lsa', 'Lsat_1_v5_gn_7_67141' => 'lsa', 'Manes.04G003400' => 'mes', 'Manes.07G020000' => 'mes', 'Manes.07G020100' => 'mes', 'Manes.07G020150' => 'mes', 'Manes.10G061500' => 'mes', 'Manes.10G123200' => 'mes', 'Manes.11G161900' => 'mes', 'Manes.15G029300' => 'mes', 'Mapoly0071s0018' => 'mpo', 'Mapoly0082s0023' => 'mpo', 'Mapoly3477s0001' => 'mpo', 'MBI05_g31233_MAGBIO' => 'mbi', 'MBI09_g05946_MAGBIO' => 'mbi', 'MBI09_g05947_MAGBIO' => 'mbi', 'MBI17_g08346_MAGBIO' => 'mbi', 'MCO04G038' => 'mco', 'MCO09G370' => 'mco', 'MCO13G605' => 'mco', 'MD00G1075500' => 'mdo', 'MD03G1144300' => 'mdo', 'MD08G1236800' => 'mdo', 'MD13G1193300' => 'mdo', 'MD15G1428700' => 'mdo', 'Medtr1g112030' => 'mtr', 'Medtr1g112050' => 'mtr', 'Medtr2g006290' => 'mtr', 'Medtr2g086510' => 'mtr', 'Medtr4g053120' => 'mtr', 'Medtr5g006320' => 'mtr', 'Medtr8g088720' => 'mtr', 'MELO3C004712.2' => 'cme', 'MELO3C006533.2' => 'cme', 'MELO3C019438.2' => 'cme', 'MELO3C019440.2' => 'cme', 'MELO3C019441.2' => 'cme', 'MELO3C019895.2' => 'cme', 'Migut.B00811' => 'egut', 'Migut.D02447' => 'egut', 'Migut.F00875' => 'egut', 'Migut.N00186' => 'egut', 'Migut.N01051' => 'egut', 'Migut.N02491' => 'egut', 'Migut.O00784' => 'egut', 'MSTRG.12367' => 'ama', 'MSTRG.18756' => 'ama', 'MSTRG.21042' => 'ama', 'Nitab4.5_0000559g0040' => 'nta', 'Nitab4.5_0000667g0190' => 'nta', 'Nitab4.5_0000755g0160' => 'nta', 'Nitab4.5_0001216g0080' => 'nta', 'Nitab4.5_0004069g0040' => 'nta', 'Nitab4.5_0004129g0010' => 'nta', 'Nitab4.5_0005744g0030' => 'nta', 'Nitab4.5_0006996g0030' => 'nta', 'Nitab4.5_0008971g0040' => 'nta', 'Nitab4.5_0009769g0020' => 'nta', 'Nitab4.5_0009833g0010' => 'nta', 'Nitab4.5_0013140g0020' => 'nta', 'Nn003s41376' => 'nnu', 'Nn1g01857' => 'nnu', 'Nn1g03611' => 'nnu', 'Nn1g06853' => 'nnu', 'Nn3g18360' => 'nnu', 'Nn4g26328' => 'nnu', 'Nn5g27531' => 'nnu', 'Nn6g34899' => 'nnu', 'Nn7g36299' => 'nnu', 'Oeu021485.1' => 'oeu', 'Oeu022433.1' => 'oeu', 'Oeu032111.1' => 'oeu', 'Oeu051608.1' => 'oeu', 'Os01g0860601' => 'osa', 'Os03g0659200' => 'osa', 'Os03g0835900' => 'osa', 'Os04g0412200' => 'osa', 'Os05g0443500' => 'osa', 'Os07g0251500' => 'osa', 'Os08g0104600' => 'osa', 'Peaxi162Scf00003g00047' => 'pax', 'Peaxi162Scf00003g00052' => 'pax', 'Peaxi162Scf00003g00394' => 'pax', 'Peaxi162Scf00091g00621' => 'pax', 'Peaxi162Scf00152g00146' => 'pax', 'Peaxi162Scf00173g00025' => 'pax', 'Peaxi162Scf00195g00102' => 'pax', 'Peaxi162Scf00402g00013' => 'pax', 'Peaxi162Scf00519g00618' => 'pax', 'PGR004G2838' => 'pgr', 'PGR044G2275' => 'pgr', 'PGR102G1377' => 'pgr', 'PGR119G1245' => 'pgr', 'PGR142G4449' => 'pgr', 'PGSC0003DMG400004532' => 'stu', 'PGSC0003DMG400011950' => 'stu', 'PGSC0003DMG400023391' => 'stu', 'PGSC0003DMG400023985' => 'stu', 'PGSC0003DMG400026360' => 'stu', 'PGSC0003DMG400035711' => 'stu', 'PGSC0003DMG400037286' => 'stu', 'PGSC0003DMG402005881' => 'stu', 'Phvul.002G045400' => 'pvu', 'Phvul.006G216600' => 'pvu', 'Phvul.006G216700' => 'pvu', 'Phvul.006G216800' => 'pvu', 'Phvul.007G022500' => 'pvu', 'Phvul.011G094400' => 'pvu', 'Potri.001G470700' => 'ptr', 'Potri.003G015200' => 'ptr', 'Potri.004G202500' => 'ptr', 'Potri.004G218400' => 'ptr', 'Potri.008G020100' => 'ptr', 'Potri.008G153200' => 'ptr', 'Potri.009G163800' => 'ptr', 'Potri.010G087300' => 'ptr', 'Potri.010G239100' => 'ptr', 'Pp3c10_16100' => 'ppa', 'Pp3c10_16880' => 'ppa', 'Pp3c16_6230' => 'ppa', 'Pp3c17_18910' => 'ppa', 'Pp3c3_22119' => 'ppa', 'Pp3c3_22140' => 'ppa', 'Pp3c4_8159' => 'ppa', 'Pp3c4_8171' => 'ppa', 'Pp3c4_8330' => 'ppa', 'PRCOL_00004098' => 'pco', 'Prupe.1G013900' => 'ppe', 'Prupe.1G226300' => 'ppe', 'Prupe.1G573600' => 'ppe', 'Prupe.6G130100' => 'ppe', 'Psat3g090040' => 'psa', 'Psat4g210440' => 'psa', 'Psat6g231040' => 'psa', 'Psat6g231080' => 'psa', 'Psat7g063000' => 'psa', 'Psat7g188000' => 'psa', 'Psat7g188040' => 'psa', 'PSO017G0206' => 'pso', 'PSO170G0501' => 'pso', 'PSO170G6422' => 'pso', 'PSO210G7739' => 'pso', 'PSO339G1808' => 'pso', 'PSO339G6135' => 'pso', 'PSO384G0010' => 'pso', 'PSO384G0964' => 'pso', 'PSO761G0050' => 'pso', 'PSO782G4085' => 'pso', 'QL01p012264' => 'qlo', 'QL02p099491' => 'qlo', 'QL03p033868' => 'qlo', 'QL04p046678' => 'qlo', 'QL06p002448' => 'qlo', 'RcHm_v2.0_Chr4g0416181' => 'rch', 'RcHm_v2.0_Chr5g0044701' => 'rch', 'RcHm_v2.0_Chr6g0265781' => 'rch', 'RcHm_v2.0_Chr7g0221031' => 'rch', 'Rhsim04G0202000' => 'rsi', 'Rhsim11G0127300' => 'rsi', 'Rhsim13G0111800' => 'rsi', 'Sabra01G0165600' => 'sbr', 'Sabra03G0008300' => 'sbr', 'Sabra04G0136900' => 'sbr', 'Sabra08G0013400' => 'sbr', 'Sabra08G0116800' => 'sbr', 'Sabra09G0128000' => 'sbr', 'Sabra10G0055500' => 'sbr', 'Sabra10G0073300' => 'sbr', 'SalBow3G0385' => 'sbo', 'SalBow3G1119' => 'sbo', 'SalBow3G2005' => 'sbo', 'SalBow6G2563' => 'sbo', 'SalBow6G6386' => 'sbo', 'Sc06g0008800' => 'sci', 'Sc07g0004950' => 'sci', 'Sc09g0005340' => 'sci', 'Sc13g0004410' => 'sci', 'Sc21g0007090' => 'sci', 'Sed0009285' => 'sed', 'Sed0017583' => 'sed', 'Sed0019699' => 'sed', 'Sed0023107' => 'sed', 'SEGI_10916' => 'sgi', 'SEGI_16217' => 'sgi', 'SEGI_19466' => 'sgi', 'SEGI_41115' => 'sgi', 'SGA_v2.0_scaffold111G31534' => 'sas', 'SGA_v2.0_scaffold22G09864' => 'sas', 'SGA_v2.0_scaffold338G49219' => 'sas', 'SGA_v2.0_scaffold92G28298' => 'sas', 'SMO119G0064' => 'smo', 'SMO223G0038' => 'smo', 'SMO347G0584' => 'smo', 'SMO351G0010' => 'smo', 'SMO356G0404' => 'smo', 'Solyc01g103920.3' => 'sly', 'Solyc04g009710.2' => 'sly', 'Solyc05g055280.2' => 'sly', 'Solyc10g044520.3' => 'sly', 'Solyc10g075160.1' => 'sly', 'Solyc11g006910.3' => 'sly', 'Solyc11g068430.3' => 'sly', 'Sopen01g046310' => 'spe', 'Sopen03g001200' => 'spe', 'Sopen04g004830' => 'spe', 'Sopen05g033720' => 'spe', 'Sopen06g030740' => 'spe', 'Sopen10g013090' => 'spe', 'Sopen10g027630' => 'spe', 'Sopen10g027640' => 'spe', 'Sopen11g002820' => 'spe', 'Sopen11g027140' => 'spe', 'Sp1g09680' => 'spa', 'Sp2g03630' => 'spa', 'Sp4g10320' => 'spa', 'Sp6g33400' => 'spa', 'Sp7g13030' => 'spa', 'TAR365G0317' => 'tar', 'TAR376G0979' => 'tar', 'TAR623G1665' => 'tar', 'TAR633G2373' => 'tar', 'TAR636G1400' => 'tar', 'THA.LOC104800529' => 'tha', 'THA.LOC104808547' => 'tha', 'THA.LOC104809615' => 'tha', 'THA.LOC104815724' => 'tha', 'THA.LOC104818480' => 'tha', 'THA.LOC104819179' => 'tha', 'THA.LOC104822270' => 'tha', 'THA.LOC104826425' => 'tha', 'Thecc.02G089700' => 'tca', 'Thecc.04G232300' => 'tca', 'Thecc.09G283400' => 'tca', 'Thhalv10009020m.g' => 'esa', 'Thhalv10015506m.g' => 'esa', 'Thhalv10017364m.g' => 'esa', 'Thhalv10023742m.g' => 'esa', 'Thhalv10026483m.g' => 'esa', 'TPR.G17232' => 'tpr', 'TPR.G2133' => 'tpr', 'TPR.G2498' => 'tpr', 'TPR.G31942' => 'tpr', 'TPR.G37877' => 'tpr', 'TPR.G4571' => 'tpr', 'TWI14G1113' => 'twi', 'TWI15G0426' => 'twi', 'TWI31G1005' => 'twi', 'TWI38G0513' => 'twi', 'TWI38G1484' => 'twi', 'TWI73G1098' => 'twi', 'unitig_26.g10519' => 'ugi', 'unitig_736.g22395' => 'ugi', 'unitig_747.g21234' => 'ugi', 'unitig_747.g21942' => 'ugi', 'vmacro14351' => 'vma', 'VMungo0540G0082' => 'vmu', 'VMungo0540G0405' => 'vmu', 'VMungo0540G1486' => 'vmu', 'VMungo0540G1692' => 'vmu', 'VMungo0720G2473' => 'vmu', 'VMungo1127G1562' => 'vmu', 'VMungo1215G1918' => 'vmu', 'Zm00001eb052650' => 'zma', 'Zm00001eb063710' => 'zma', 'Zm00001eb083950' => 'zma', 'Zm00001eb174420' => 'zma', 'Zm00001eb260140' => 'zma', 'Zm00001eb260150' => 'zma', 'Zm00001eb260160' => 'zma', 'Zm00001eb348290' => 'zma', 'Zm00001eb366870' => 'zma', 'Zm00001eb421930' => 'zma' ), 'gf_id' => 'HOM05D001025', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001025' ), 'data_identifier' => 'HOM05D001025', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001025', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '592', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p22650' => 'bna', 'A01p29720' => 'bna', 'A03p26560' => 'bna', 'A03p68820' => 'bna', 'A04p20980' => 'bna', 'A06p07730' => 'bna', 'A07p18260' => 'bna', 'A08p33710' => 'bna', 'A09p16970' => 'bna', 'A10p27490' => 'bna', 'Aa31LG1G17300' => 'aar', 'Aa31LG1G3910' => 'aar', 'Aa31LG2G9630' => 'aar', 'Aa31LG5G8360' => 'aar', 'Aa31LG9G2410' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4699' => 'aag', 'Actinidia23512' => 'ach', 'Actinidia37080' => 'ach', 'Ah.01g020380' => 'amhyb', 'Ah.08g215710' => 'amhyb', 'Ah.09g225110' => 'amhyb', 'Ah.10g036680' => 'amhyb', 'AL1G21940' => 'aly', 'AL2G15540' => 'aly', 'AL4G21520' => 'aly', 'AL7G40960' => 'aly', 'Aqoxy2G01191' => 'aox', 'Aqoxy2G03393' => 'aox', 'Aqoxy4G02775' => 'aox', 'Aqoxy6G00058' => 'aox', 'arahy.Tifrunner.gnm1.ann1.9X74H2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CW3FX9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R485W7' => 'arhy', 'AT1G10960' => 'ath', 'AT1G60950' => 'ath', 'AT2G27510' => 'ath', 'AT4G14890' => 'ath', 'AT5G10000' => 'ath', 'ATR0665G624' => 'atr', 'ATR0697G138' => 'atr', 'ATR0776G046' => 'atr', 'ATR1134G135' => 'atr', 'Atru.chr12.1025' => 'acertr', 'Atru.chr3.3241' => 'acertr', 'Atru.chr4.2460' => 'acertr', 'AUR62007427' => 'cqu', 'AUR62010960' => 'cqu', 'AUR62012201' => 'cqu', 'AUR62021470' => 'cqu', 'AUR62022834' => 'cqu', 'AUR62033635' => 'cqu', 'AUR62036186' => 'cqu', 'BcaB01g03077' => 'bca', 'BcaB02g10093' => 'bca', 'BcaB04g20295' => 'bca', 'BcaB06g28147' => 'bca', 'BcaB07g31253' => 'bca', 'BcaC01g04946' => 'bca', 'BcaC02g10614' => 'bca', 'BcaC02g10885' => 'bca', 'BcaC04g19356' => 'bca', 'BcaC04g22297' => 'bca', 'BcaC05g24977' => 'bca', 'BcaC06g31823' => 'bca', 'BcaC07g38633' => 'bca', 'BcaC09g49353' => 'bca', 'BcaC09g50168' => 'bca', 'BcaNung00322' => 'bca', 'BcaNung04769' => 'bca', 'BolC1t02753H' => 'bol', 'BolC1t03721H' => 'bol', 'BolC3t15525H' => 'bol', 'BolC4t23903H' => 'bol', 'BolC4t24231H' => 'bol', 'BolC4t27209H' => 'bol', 'BolC5t29671H' => 'bol', 'BolC8t49044H' => 'bol', 'BolC9t54999H' => 'bol', 'BolC9t59517H' => 'bol', 'BraA01t02178Z' => 'bra', 'BraA01t03099Z' => 'bra', 'BraA03t11867Z' => 'bra', 'BraA04t17667Z' => 'bra', 'BraA07t29542Z' => 'bra', 'BraA08t35287Z' => 'bra', 'BraA09t37334Z' => 'bra', 'BraA10t44801Z' => 'bra', 'BraSC39t46181Z' => 'bra', 'C01p28240' => 'bna', 'C01p37530' => 'bna', 'C03p31820' => 'bna', 'C04p24080' => 'bna', 'C04p25790' => 'bna', 'C04p56770' => 'bna', 'C05p09310' => 'bna', 'C09p21010' => 'bna', 'C09p67560' => 'bna', 'CAN.G1324.7' => 'can', 'CAN.G1358.10' => 'can', 'CAN.G1550.2' => 'can', 'CAN.G186.56' => 'can', 'CAN.G1965.1' => 'can', 'CAN.G645.15' => 'can', 'CAN.G798.26' => 'can', 'CAN.G798.27' => 'can', 'CAN.G798.29' => 'can', 'CAN.G919.31' => 'can', 'CANSAT11G0133' => 'cansat', 'CANSAT11G1171' => 'cansat', 'CANSAT11G2056' => 'cansat', 'CANSAT56G1202' => 'cansat', 'CANSAT56G1514' => 'cansat', 'CANSAT78G0455' => 'cansat', 'CARHR011190' => 'chi', 'CARHR051980' => 'chi', 'CARHR120170' => 'chi', 'CARHR203310' => 'chi', 'CARHR221490' => 'chi', 'Carub.0001s1054' => 'cru', 'Carub.0002s0431' => 'cru', 'Carub.0004s0818' => 'cru', 'Carub.0006s0846' => 'cru', 'Carub.0007s2722' => 'cru', 'Ca_00058_v3' => 'car', 'Ca_17831_v3' => 'car', 'Ca_19408_v3' => 'car', 'Ca_24397_v3' => 'car', 'Ca_25664_v3' => 'car', 'CBR_g21818' => 'cbr', 'CBR_g31195' => 'cbr', 'CBR_g32282' => 'cbr', 'CBR_g39599' => 'cbr', 'CBR_g49410' => 'cbr', 'Cc01_g09120' => 'ccan', 'Cc01_g09130' => 'ccan', 'Cc02_g09630' => 'ccan', 'Cc02_g22810' => 'ccan', 'Cc03_g03810' => 'ccan', 'CDE02G3718' => 'cde', 'CDE04G3183' => 'cde', 'CDE07G1046' => 'cde', 'CDE08G0480' => 'cde', 'Cfa005493' => 'cfa', 'Cfa010312' => 'cfa', 'Cfa015648' => 'cfa', 'Ciclev10002793m.g' => 'ccl', 'Ciclev10003356m.g' => 'ccl', 'Ciclev10006141m.g' => 'ccl', 'Ciclev10016676m.g' => 'ccl', 'Ciclev10017081m.g' => 'ccl', 'Ciclev10029499m.g' => 'ccl', 'CiPaw.01G166300' => 'cil', 'CiPaw.06G145600' => 'cil', 'CiPaw.13G040100' => 'cil', 'CiPaw.13G135800' => 'cil', 'ClCG01G012230' => 'cla', 'ClCG05G009510' => 'cla', 'ClCG08G008270' => 'cla', 'COL.COLO4_11763' => 'col', 'COL.COLO4_19876' => 'col', 'COL.COLO4_21481' => 'col', 'Cpa.g.sc118.34' => 'cpa', 'Cpa.g.sc32.13' => 'cpa', 'Cpa.g.sc58.103' => 'cpa', 'Cre03.g183850' => 'cre', 'Cre06.g306350' => 'cre', 'Cre07.g334800' => 'cre', 'Cre12.g487900' => 'cre', 'Cre14.g626700' => 'cre', 'Cre16.g658400' => 'cre', 'Cre17.g700950' => 'cre', 'CsaV3_1G014830' => 'csa', 'CsaV3_3G013320' => 'csa', 'CsaV3_3G019210' => 'csa', 'CsaV3_3G019220' => 'csa', 'CsaV3_6G004230' => 'csa', 'CSS0003773' => 'camsi', 'CSS0004563' => 'camsi', 'CSS0013949' => 'camsi', 'CSS0025971' => 'camsi', 'CSS0028570' => 'camsi', 'CSS0033127' => 'camsi', 'CSS0036051' => 'camsi', 'CSS0040087' => 'camsi', 'CSS0043179' => 'camsi', 'DCAR_006161' => 'dca', 'DCAR_010351' => 'dca', 'DCAR_012197' => 'dca', 'DCAR_024162' => 'dca', 'Dinv01030' => 'din', 'Dinv10924' => 'din', 'Dinv11835' => 'din', 'Dinv22841' => 'din', 'Dinv42553' => 'din', 'Duzib052G0560' => 'dzi', 'Duzib132G0389' => 'dzi', 'Duzib150G1181' => 'dzi', 'Duzib168G0623' => 'dzi', 'Duzib170G1036' => 'dzi', 'Duzib212G0200' => 'dzi', 'Duzib248G0194' => 'dzi', 'ECA232G2193' => 'eca', 'ECA233G0302' => 'eca', 'ECA234G2813' => 'eca', 'ECA234G4866' => 'eca', 'ECA240G3932' => 'eca', 'ECA248G0385' => 'eca', 'EL10Ac2g04781' => 'bvu', 'EL10Ac3g06445' => 'bvu', 'EL10Ac7g15825' => 'bvu', 'EL10Ac8g18550' => 'bvu', 'Eucgr.B03849' => 'egr', 'Eucgr.I02744' => 'egr', 'Eucgr.J00264' => 'egr', 'Eucgr.J00493' => 'egr', 'FAN04G2181' => 'fan', 'FAN07G2666' => 'fan', 'FAN11G0024' => 'fan', 'FAN12G1105' => 'fan', 'FAN13G0302' => 'fan', 'FAN15G2781' => 'fan', 'FAN16G1274' => 'fan', 'FAN17G2988' => 'fan', 'FAN18G2621' => 'fan', 'FAN21G0013' => 'fan', 'FAN22G1211' => 'fan', 'FAN25G3626' => 'fan', 'FvH4_2g09491' => 'fve', 'FvH4_3g24910' => 'fve', 'FvH4_4g15630' => 'fve', 'FvH4_5g28820' => 'fve', 'Glyma.01G238000' => 'gma', 'Glyma.05G168400' => 'gma', 'Glyma.08G126800' => 'gma', 'Glyma.08G188500' => 'gma', 'Glyma.10G278900' => 'gma', 'Glyma.11G005700' => 'gma', 'Glyma.11G183300' => 'gma', 'Glyma.12G089200' => 'gma', 'Glyma.12G169400' => 'gma', 'Glyma.12G169500' => 'gma', 'Glyma.12G169600' => 'gma', 'Glyma.20G110800' => 'gma', 'Gohir.A03G192900' => 'ghi', 'Gohir.A03G193000' => 'ghi', 'Gohir.A05G080700' => 'ghi', 'Gohir.A09G216000' => 'ghi', 'Gohir.A12G027700' => 'ghi', 'Gohir.A13G036200' => 'ghi', 'Gohir.A13G222600' => 'ghi', 'Gohir.D02G213900' => 'ghi', 'Gohir.D02G214000' => 'ghi', 'Gohir.D05G083700' => 'ghi', 'Gohir.D05G083800' => 'ghi', 'Gohir.D05G083850' => 'ghi', 'Gohir.D08G015400' => 'ghi', 'Gohir.D09G218400' => 'ghi', 'Gohir.D12G027100' => 'ghi', 'Gohir.D13G034500' => 'ghi', 'Gohir.D13G227400' => 'ghi', 'Gorai.005G241800' => 'gra', 'Gorai.005G241900' => 'gra', 'Gorai.006G239400' => 'gra', 'Gorai.008G027600' => 'gra', 'Gorai.009G085400' => 'gra', 'Gorai.009G085500' => 'gra', 'Gorai.013G039000' => 'gra', 'Gorai.013G194800' => 'gra', 'Gorai.013G257900' => 'gra', 'GSVIVG01000982001' => 'vvi', 'GSVIVG01017981001' => 'vvi', 'HanXRQChr01g0024061' => 'han', 'HanXRQChr09g0247831' => 'han', 'HanXRQChr10g0294611' => 'han', 'HanXRQChr10g0294621' => 'han', 'HanXRQChr11g0346821' => 'han', 'HanXRQChr13g0397461' => 'han', 'HanXRQChr16g0513651' => 'han', 'HanXRQChr16g0513701' => 'han', 'Haze_00897' => 'cav', 'Haze_01745' => 'cav', 'Haze_02486' => 'cav', 'Haze_02487' => 'cav', 'Haze_23374' => 'cav', 'Hma1.2p1_0578F.1_g182520' => 'hma', 'Hma1.2p1_0602F.1_g187350' => 'hma', 'Hma1.2p1_0602F.1_g187360' => 'hma', 'Hma1.2p1_0874F.1_g231320' => 'hma', 'Hma1.2p1_1197F.1_g266210' => 'hma', 'Hma1.2p1_1197F.1_g266220' => 'hma', 'Hma1.2p1_2167F.1_g315895' => 'hma', 'Hma1.2p1_2190F.1_g316640' => 'hma', 'Hma1.2p1_3645F.1_g337153' => 'hma', 'HPP92_004907' => 'vpl', 'HPP92_012134' => 'vpl', 'HPP92_025136' => 'vpl', 'HPP92_026087' => 'vpl', 'Hund06782' => 'sun', 'Hund06784' => 'sun', 'Lalb_Chr01g0004861' => 'lal', 'Lalb_Chr02g0140591' => 'lal', 'Lalb_Chr02g0140611' => 'lal', 'Lalb_Chr03g0028101' => 'lal', 'Lalb_Chr07g0185791' => 'lal', 'Lalb_Chr12g0204491' => 'lal', 'Lalb_Chr13g0295671' => 'lal', 'Lalb_Chr19g0136461' => 'lal', 'Lalb_Chr21g0309191' => 'lal', 'Lj1g0028158' => 'lja', 'Lj1P236T38' => 'lonja', 'Lj2C32G2' => 'lonja', 'Lj2P944T8' => 'lonja', 'Lj2P963T15' => 'lonja', 'Lj3g0011788' => 'lja', 'Lj4g0025027' => 'lja', 'Lj5P255T36' => 'lonja', 'Lj6g0018866' => 'lja', 'Lj6P608T31' => 'lonja', 'LjContig00408g0008879' => 'lja', 'Lsat_1_v5_gn_5_105820' => 'lsa', 'Lsat_1_v5_gn_6_38800' => 'lsa', 'Lsat_1_v5_gn_7_67141' => 'lsa', 'Manes.04G003400' => 'mes', 'Manes.07G020000' => 'mes', 'Manes.07G020100' => 'mes', 'Manes.07G020150' => 'mes', 'Manes.10G061500' => 'mes', 'Manes.10G123200' => 'mes', 'Manes.11G161900' => 'mes', 'Manes.15G029300' => 'mes', 'Mapoly0071s0018' => 'mpo', 'Mapoly0082s0023' => 'mpo', 'Mapoly3477s0001' => 'mpo', 'MBI05_g31233_MAGBIO' => 'mbi', 'MBI09_g05946_MAGBIO' => 'mbi', 'MBI09_g05947_MAGBIO' => 'mbi', 'MBI17_g08346_MAGBIO' => 'mbi', 'MCO04G038' => 'mco', 'MCO09G370' => 'mco', 'MCO13G605' => 'mco', 'MD00G1075500' => 'mdo', 'MD03G1144300' => 'mdo', 'MD08G1236800' => 'mdo', 'MD13G1193300' => 'mdo', 'MD15G1428700' => 'mdo', 'Medtr1g112030' => 'mtr', 'Medtr1g112050' => 'mtr', 'Medtr2g006290' => 'mtr', 'Medtr2g086510' => 'mtr', 'Medtr4g053120' => 'mtr', 'Medtr5g006320' => 'mtr', 'Medtr8g088720' => 'mtr', 'MELO3C004712.2' => 'cme', 'MELO3C006533.2' => 'cme', 'MELO3C019438.2' => 'cme', 'MELO3C019440.2' => 'cme', 'MELO3C019441.2' => 'cme', 'MELO3C019895.2' => 'cme', 'Migut.B00811' => 'egut', 'Migut.D02447' => 'egut', 'Migut.F00875' => 'egut', 'Migut.N00186' => 'egut', 'Migut.N01051' => 'egut', 'Migut.N02491' => 'egut', 'Migut.O00784' => 'egut', 'MSTRG.12367' => 'ama', 'MSTRG.18756' => 'ama', 'MSTRG.21042' => 'ama', 'Nitab4.5_0000559g0040' => 'nta', 'Nitab4.5_0000667g0190' => 'nta', 'Nitab4.5_0000755g0160' => 'nta', 'Nitab4.5_0001216g0080' => 'nta', 'Nitab4.5_0004069g0040' => 'nta', 'Nitab4.5_0004129g0010' => 'nta', 'Nitab4.5_0005744g0030' => 'nta', 'Nitab4.5_0006996g0030' => 'nta', 'Nitab4.5_0008971g0040' => 'nta', 'Nitab4.5_0009769g0020' => 'nta', 'Nitab4.5_0009833g0010' => 'nta', 'Nitab4.5_0013140g0020' => 'nta', 'Nn003s41376' => 'nnu', 'Nn1g01857' => 'nnu', 'Nn1g03611' => 'nnu', 'Nn1g06853' => 'nnu', 'Nn3g18360' => 'nnu', 'Nn4g26328' => 'nnu', 'Nn5g27531' => 'nnu', 'Nn6g34899' => 'nnu', 'Nn7g36299' => 'nnu', 'Oeu021485.1' => 'oeu', 'Oeu022433.1' => 'oeu', 'Oeu032111.1' => 'oeu', 'Oeu051608.1' => 'oeu', 'Os01g0860601' => 'osa', 'Os03g0659200' => 'osa', 'Os03g0835900' => 'osa', 'Os04g0412200' => 'osa', 'Os05g0443500' => 'osa', 'Os07g0251500' => 'osa', 'Os08g0104600' => 'osa', 'Peaxi162Scf00003g00047' => 'pax', 'Peaxi162Scf00003g00052' => 'pax', 'Peaxi162Scf00003g00394' => 'pax', 'Peaxi162Scf00091g00621' => 'pax', 'Peaxi162Scf00152g00146' => 'pax', 'Peaxi162Scf00173g00025' => 'pax', 'Peaxi162Scf00195g00102' => 'pax', 'Peaxi162Scf00402g00013' => 'pax', 'Peaxi162Scf00519g00618' => 'pax', 'PGR004G2838' => 'pgr', 'PGR044G2275' => 'pgr', 'PGR102G1377' => 'pgr', 'PGR119G1245' => 'pgr', 'PGR142G4449' => 'pgr', 'PGSC0003DMG400004532' => 'stu', 'PGSC0003DMG400011950' => 'stu', 'PGSC0003DMG400023391' => 'stu', 'PGSC0003DMG400023985' => 'stu', 'PGSC0003DMG400026360' => 'stu', 'PGSC0003DMG400035711' => 'stu', 'PGSC0003DMG400037286' => 'stu', 'PGSC0003DMG402005881' => 'stu', 'Phvul.002G045400' => 'pvu', 'Phvul.006G216600' => 'pvu', 'Phvul.006G216700' => 'pvu', 'Phvul.006G216800' => 'pvu', 'Phvul.007G022500' => 'pvu', 'Phvul.011G094400' => 'pvu', 'Potri.001G470700' => 'ptr', 'Potri.003G015200' => 'ptr', 'Potri.004G202500' => 'ptr', 'Potri.004G218400' => 'ptr', 'Potri.008G020100' => 'ptr', 'Potri.008G153200' => 'ptr', 'Potri.009G163800' => 'ptr', 'Potri.010G087300' => 'ptr', 'Potri.010G239100' => 'ptr', 'Pp3c10_16100' => 'ppa', 'Pp3c10_16880' => 'ppa', 'Pp3c16_6230' => 'ppa', 'Pp3c17_18910' => 'ppa', 'Pp3c3_22119' => 'ppa', 'Pp3c3_22140' => 'ppa', 'Pp3c4_8159' => 'ppa', 'Pp3c4_8171' => 'ppa', 'Pp3c4_8330' => 'ppa', 'PRCOL_00004098' => 'pco', 'Prupe.1G013900' => 'ppe', 'Prupe.1G226300' => 'ppe', 'Prupe.1G573600' => 'ppe', 'Prupe.6G130100' => 'ppe', 'Psat3g090040' => 'psa', 'Psat4g210440' => 'psa', 'Psat6g231040' => 'psa', 'Psat6g231080' => 'psa', 'Psat7g063000' => 'psa', 'Psat7g188000' => 'psa', 'Psat7g188040' => 'psa', 'PSO017G0206' => 'pso', 'PSO170G0501' => 'pso', 'PSO170G6422' => 'pso', 'PSO210G7739' => 'pso', 'PSO339G1808' => 'pso', 'PSO339G6135' => 'pso', 'PSO384G0010' => 'pso', 'PSO384G0964' => 'pso', 'PSO761G0050' => 'pso', 'PSO782G4085' => 'pso', 'QL01p012264' => 'qlo', 'QL02p099491' => 'qlo', 'QL03p033868' => 'qlo', 'QL04p046678' => 'qlo', 'QL06p002448' => 'qlo', 'RcHm_v2.0_Chr4g0416181' => 'rch', 'RcHm_v2.0_Chr5g0044701' => 'rch', 'RcHm_v2.0_Chr6g0265781' => 'rch', 'RcHm_v2.0_Chr7g0221031' => 'rch', 'Rhsim04G0202000' => 'rsi', 'Rhsim11G0127300' => 'rsi', 'Rhsim13G0111800' => 'rsi', 'Sabra01G0165600' => 'sbr', 'Sabra03G0008300' => 'sbr', 'Sabra04G0136900' => 'sbr', 'Sabra08G0013400' => 'sbr', 'Sabra08G0116800' => 'sbr', 'Sabra09G0128000' => 'sbr', 'Sabra10G0055500' => 'sbr', 'Sabra10G0073300' => 'sbr', 'SalBow3G0385' => 'sbo', 'SalBow3G1119' => 'sbo', 'SalBow3G2005' => 'sbo', 'SalBow6G2563' => 'sbo', 'SalBow6G6386' => 'sbo', 'Sc06g0008800' => 'sci', 'Sc07g0004950' => 'sci', 'Sc09g0005340' => 'sci', 'Sc13g0004410' => 'sci', 'Sc21g0007090' => 'sci', 'Sed0009285' => 'sed', 'Sed0017583' => 'sed', 'Sed0019699' => 'sed', 'Sed0023107' => 'sed', 'SEGI_10916' => 'sgi', 'SEGI_16217' => 'sgi', 'SEGI_19466' => 'sgi', 'SEGI_41115' => 'sgi', 'SGA_v2.0_scaffold111G31534' => 'sas', 'SGA_v2.0_scaffold22G09864' => 'sas', 'SGA_v2.0_scaffold338G49219' => 'sas', 'SGA_v2.0_scaffold92G28298' => 'sas', 'SMO119G0064' => 'smo', 'SMO223G0038' => 'smo', 'SMO347G0584' => 'smo', 'SMO351G0010' => 'smo', 'SMO356G0404' => 'smo', 'Solyc01g103920.3' => 'sly', 'Solyc04g009710.2' => 'sly', 'Solyc05g055280.2' => 'sly', 'Solyc10g044520.3' => 'sly', 'Solyc10g075160.1' => 'sly', 'Solyc11g006910.3' => 'sly', 'Solyc11g068430.3' => 'sly', 'Sopen01g046310' => 'spe', 'Sopen03g001200' => 'spe', 'Sopen04g004830' => 'spe', 'Sopen05g033720' => 'spe', 'Sopen06g030740' => 'spe', 'Sopen10g013090' => 'spe', 'Sopen10g027630' => 'spe', 'Sopen10g027640' => 'spe', 'Sopen11g002820' => 'spe', 'Sopen11g027140' => 'spe', 'Sp1g09680' => 'spa', 'Sp2g03630' => 'spa', 'Sp4g10320' => 'spa', 'Sp6g33400' => 'spa', 'Sp7g13030' => 'spa', 'TAR365G0317' => 'tar', 'TAR376G0979' => 'tar', 'TAR623G1665' => 'tar', 'TAR633G2373' => 'tar', 'TAR636G1400' => 'tar', 'THA.LOC104800529' => 'tha', 'THA.LOC104808547' => 'tha', 'THA.LOC104809615' => 'tha', 'THA.LOC104815724' => 'tha', 'THA.LOC104818480' => 'tha', 'THA.LOC104819179' => 'tha', 'THA.LOC104822270' => 'tha', 'THA.LOC104826425' => 'tha', 'Thecc.02G089700' => 'tca', 'Thecc.04G232300' => 'tca', 'Thecc.09G283400' => 'tca', 'Thhalv10009020m.g' => 'esa', 'Thhalv10015506m.g' => 'esa', 'Thhalv10017364m.g' => 'esa', 'Thhalv10023742m.g' => 'esa', 'Thhalv10026483m.g' => 'esa', 'TPR.G17232' => 'tpr', 'TPR.G2133' => 'tpr', 'TPR.G2498' => 'tpr', 'TPR.G31942' => 'tpr', 'TPR.G37877' => 'tpr', 'TPR.G4571' => 'tpr', 'TWI14G1113' => 'twi', 'TWI15G0426' => 'twi', 'TWI31G1005' => 'twi', 'TWI38G0513' => 'twi', 'TWI38G1484' => 'twi', 'TWI73G1098' => 'twi', 'unitig_26.g10519' => 'ugi', 'unitig_736.g22395' => 'ugi', 'unitig_747.g21234' => 'ugi', 'unitig_747.g21942' => 'ugi', 'vmacro14351' => 'vma', 'VMungo0540G0082' => 'vmu', 'VMungo0540G0405' => 'vmu', 'VMungo0540G1486' => 'vmu', 'VMungo0540G1692' => 'vmu', 'VMungo0720G2473' => 'vmu', 'VMungo1127G1562' => 'vmu', 'VMungo1215G1918' => 'vmu', 'Zm00001eb052650' => 'zma', 'Zm00001eb063710' => 'zma', 'Zm00001eb083950' => 'zma', 'Zm00001eb174420' => 'zma', 'Zm00001eb260140' => 'zma', 'Zm00001eb260150' => 'zma', 'Zm00001eb260160' => 'zma', 'Zm00001eb348290' => 'zma', 'Zm00001eb366870' => 'zma', 'Zm00001eb421930' => 'zma' ) $gf_id = 'HOM05D001025' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001025' ) $data_identifier = 'HOM05D001025' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 19, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 2, 'amhyb' => (int) 4, 'aly' => (int) 4, 'aox' => (int) 4, 'arhy' => (int) 3, 'ath' => (int) 5, 'atr' => (int) 4, 'acertr' => (int) 3, 'cqu' => (int) 7, 'bca' => (int) 17, 'bol' => (int) 10, 'bra' => (int) 9, 'can' => (int) 10, 'cansat' => (int) 6, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 5, 'cbr' => (int) 5, 'ccan' => (int) 5, 'cde' => (int) 4, 'cfa' => (int) 3, 'ccl' => (int) 6, 'cil' => (int) 4, 'cla' => (int) 3, 'col' => (int) 3, 'cpa' => (int) 3, 'cre' => (int) 7, 'csa' => (int) 5, 'camsi' => (int) 9, 'dca' => (int) 4, 'din' => (int) 5, 'dzi' => (int) 7, 'eca' => (int) 6, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 12, 'fve' => (int) 4, 'gma' => (int) 12, 'ghi' => (int) 17, 'gra' => (int) 9, 'vvi' => (int) 2, 'han' => (int) 8, 'cav' => (int) 5, 'hma' => (int) 9, 'vpl' => (int) 4, 'sun' => (int) 2, 'lal' => (int) 9, 'lja' => (int) 5, 'lonja' => (int) 6, 'lsa' => (int) 3, 'mes' => (int) 8, 'mpo' => (int) 3, 'mbi' => (int) 4, 'mco' => (int) 3, 'mdo' => (int) 5, 'mtr' => (int) 7, 'cme' => (int) 6, 'egut' => (int) 7, 'ama' => (int) 3, 'nta' => (int) 12, 'nnu' => (int) 9, 'oeu' => (int) 4, 'osa' => (int) 7, 'pax' => (int) 9, 'pgr' => (int) 5, 'stu' => (int) 8, 'pvu' => (int) 6, 'ptr' => (int) 9, 'ppa' => (int) 9, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 7, 'pso' => (int) 10, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 3, 'sbr' => (int) 8, 'sbo' => (int) 5, 'sci' => (int) 5, 'sed' => (int) 4, 'sgi' => (int) 4, 'sas' => (int) 4, 'smo' => (int) 5, 'sly' => (int) 7, 'spe' => (int) 10, 'spa' => (int) 5, 'tar' => (int) 5, 'tha' => (int) 8, 'tca' => (int) 3, 'esa' => (int) 5, 'tpr' => (int) 6, 'twi' => (int) 6, 'ugi' => (int) 4, 'vma' => (int) 1, 'vmu' => (int) 7, 'zma' => (int) 10 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb421930' $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' => 'HOM05D001025', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '592', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p22650' => 'bna', 'A01p29720' => 'bna', 'A03p26560' => 'bna', 'A03p68820' => 'bna', 'A04p20980' => 'bna', 'A06p07730' => 'bna', 'A07p18260' => 'bna', 'A08p33710' => 'bna', 'A09p16970' => 'bna', 'A10p27490' => 'bna', 'Aa31LG1G17300' => 'aar', 'Aa31LG1G3910' => 'aar', 'Aa31LG2G9630' => 'aar', 'Aa31LG5G8360' => 'aar', 'Aa31LG9G2410' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4699' => 'aag', 'Actinidia23512' => 'ach', 'Actinidia37080' => 'ach', 'Ah.01g020380' => 'amhyb', 'Ah.08g215710' => 'amhyb', 'Ah.09g225110' => 'amhyb', 'Ah.10g036680' => 'amhyb', 'AL1G21940' => 'aly', 'AL2G15540' => 'aly', 'AL4G21520' => 'aly', 'AL7G40960' => 'aly', 'Aqoxy2G01191' => 'aox', 'Aqoxy2G03393' => 'aox', 'Aqoxy4G02775' => 'aox', 'Aqoxy6G00058' => 'aox', 'arahy.Tifrunner.gnm1.ann1.9X74H2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CW3FX9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R485W7' => 'arhy', 'AT1G10960' => 'ath', 'AT1G60950' => 'ath', 'AT2G27510' => 'ath', 'AT4G14890' => 'ath', 'AT5G10000' => 'ath', 'ATR0665G624' => 'atr', 'ATR0697G138' => 'atr', 'ATR0776G046' => 'atr', 'ATR1134G135' => 'atr', 'Atru.chr12.1025' => 'acertr', 'Atru.chr3.3241' => 'acertr', 'Atru.chr4.2460' => 'acertr', 'AUR62007427' => 'cqu', 'AUR62010960' => 'cqu', 'AUR62012201' => 'cqu', 'AUR62021470' => 'cqu', 'AUR62022834' => 'cqu', 'AUR62033635' => 'cqu', 'AUR62036186' => 'cqu', 'BcaB01g03077' => 'bca', 'BcaB02g10093' => 'bca', 'BcaB04g20295' => 'bca', 'BcaB06g28147' => 'bca', 'BcaB07g31253' => 'bca', 'BcaC01g04946' => 'bca', 'BcaC02g10614' => 'bca', 'BcaC02g10885' => 'bca', 'BcaC04g19356' => 'bca', 'BcaC04g22297' => 'bca', 'BcaC05g24977' => 'bca', 'BcaC06g31823' => 'bca', 'BcaC07g38633' => 'bca', 'BcaC09g49353' => 'bca', 'BcaC09g50168' => 'bca', 'BcaNung00322' => 'bca', 'BcaNung04769' => 'bca', 'BolC1t02753H' => 'bol', 'BolC1t03721H' => 'bol', 'BolC3t15525H' => 'bol', 'BolC4t23903H' => 'bol', 'BolC4t24231H' => 'bol', 'BolC4t27209H' => 'bol', 'BolC5t29671H' => 'bol', 'BolC8t49044H' => 'bol', 'BolC9t54999H' => 'bol', 'BolC9t59517H' => 'bol', 'BraA01t02178Z' => 'bra', 'BraA01t03099Z' => 'bra', 'BraA03t11867Z' => 'bra', 'BraA04t17667Z' => 'bra', 'BraA07t29542Z' => 'bra', 'BraA08t35287Z' => 'bra', 'BraA09t37334Z' => 'bra', 'BraA10t44801Z' => 'bra', 'BraSC39t46181Z' => 'bra', 'C01p28240' => 'bna', 'C01p37530' => 'bna', 'C03p31820' => 'bna', 'C04p24080' => 'bna', 'C04p25790' => 'bna', 'C04p56770' => 'bna', 'C05p09310' => 'bna', 'C09p21010' => 'bna', 'C09p67560' => 'bna', 'CAN.G1324.7' => 'can', 'CAN.G1358.10' => 'can', 'CAN.G1550.2' => 'can', 'CAN.G186.56' => 'can', 'CAN.G1965.1' => 'can', 'CAN.G645.15' => 'can', 'CAN.G798.26' => 'can', 'CAN.G798.27' => 'can', 'CAN.G798.29' => 'can', 'CAN.G919.31' => 'can', 'CANSAT11G0133' => 'cansat', 'CANSAT11G1171' => 'cansat', 'CANSAT11G2056' => 'cansat', 'CANSAT56G1202' => 'cansat', 'CANSAT56G1514' => 'cansat', 'CANSAT78G0455' => 'cansat', 'CARHR011190' => 'chi', 'CARHR051980' => 'chi', 'CARHR120170' => 'chi', 'CARHR203310' => 'chi', 'CARHR221490' => 'chi', 'Carub.0001s1054' => 'cru', 'Carub.0002s0431' => 'cru', 'Carub.0004s0818' => 'cru', 'Carub.0006s0846' => 'cru', 'Carub.0007s2722' => 'cru', 'Ca_00058_v3' => 'car', 'Ca_17831_v3' => 'car', 'Ca_19408_v3' => 'car', 'Ca_24397_v3' => 'car', 'Ca_25664_v3' => 'car', 'CBR_g21818' => 'cbr', 'CBR_g31195' => 'cbr', 'CBR_g32282' => 'cbr', 'CBR_g39599' => 'cbr', 'CBR_g49410' => 'cbr', 'Cc01_g09120' => 'ccan', 'Cc01_g09130' => 'ccan', 'Cc02_g09630' => 'ccan', 'Cc02_g22810' => 'ccan', 'Cc03_g03810' => 'ccan', 'CDE02G3718' => 'cde', 'CDE04G3183' => 'cde', 'CDE07G1046' => 'cde', 'CDE08G0480' => 'cde', 'Cfa005493' => 'cfa', 'Cfa010312' => 'cfa', 'Cfa015648' => 'cfa', 'Ciclev10002793m.g' => 'ccl', 'Ciclev10003356m.g' => 'ccl', 'Ciclev10006141m.g' => 'ccl', 'Ciclev10016676m.g' => 'ccl', 'Ciclev10017081m.g' => 'ccl', 'Ciclev10029499m.g' => 'ccl', 'CiPaw.01G166300' => 'cil', 'CiPaw.06G145600' => 'cil', 'CiPaw.13G040100' => 'cil', 'CiPaw.13G135800' => 'cil', 'ClCG01G012230' => 'cla', 'ClCG05G009510' => 'cla', 'ClCG08G008270' => 'cla', 'COL.COLO4_11763' => 'col', 'COL.COLO4_19876' => 'col', 'COL.COLO4_21481' => 'col', 'Cpa.g.sc118.34' => 'cpa', 'Cpa.g.sc32.13' => 'cpa', 'Cpa.g.sc58.103' => 'cpa', 'Cre03.g183850' => 'cre', 'Cre06.g306350' => 'cre', 'Cre07.g334800' => 'cre', 'Cre12.g487900' => 'cre', 'Cre14.g626700' => 'cre', 'Cre16.g658400' => 'cre', 'Cre17.g700950' => 'cre', 'CsaV3_1G014830' => 'csa', 'CsaV3_3G013320' => 'csa', 'CsaV3_3G019210' => 'csa', 'CsaV3_3G019220' => 'csa', 'CsaV3_6G004230' => 'csa', 'CSS0003773' => 'camsi', 'CSS0004563' => 'camsi', 'CSS0013949' => 'camsi', 'CSS0025971' => 'camsi', 'CSS0028570' => 'camsi', 'CSS0033127' => 'camsi', 'CSS0036051' => 'camsi', 'CSS0040087' => 'camsi', 'CSS0043179' => 'camsi', 'DCAR_006161' => 'dca', 'DCAR_010351' => 'dca', 'DCAR_012197' => 'dca', 'DCAR_024162' => 'dca', 'Dinv01030' => 'din', 'Dinv10924' => 'din', 'Dinv11835' => 'din', 'Dinv22841' => 'din', 'Dinv42553' => 'din', 'Duzib052G0560' => 'dzi', 'Duzib132G0389' => 'dzi', 'Duzib150G1181' => 'dzi', 'Duzib168G0623' => 'dzi', 'Duzib170G1036' => 'dzi', 'Duzib212G0200' => 'dzi', 'Duzib248G0194' => 'dzi', 'ECA232G2193' => 'eca', 'ECA233G0302' => 'eca', 'ECA234G2813' => 'eca', 'ECA234G4866' => 'eca', 'ECA240G3932' => 'eca', 'ECA248G0385' => 'eca', 'EL10Ac2g04781' => 'bvu', 'EL10Ac3g06445' => 'bvu', 'EL10Ac7g15825' => 'bvu', 'EL10Ac8g18550' => 'bvu', 'Eucgr.B03849' => 'egr', 'Eucgr.I02744' => 'egr', 'Eucgr.J00264' => 'egr', 'Eucgr.J00493' => 'egr', 'FAN04G2181' => 'fan', 'FAN07G2666' => 'fan', 'FAN11G0024' => 'fan', 'FAN12G1105' => 'fan', 'FAN13G0302' => 'fan', 'FAN15G2781' => 'fan', 'FAN16G1274' => 'fan', 'FAN17G2988' => 'fan', 'FAN18G2621' => 'fan', 'FAN21G0013' => 'fan', 'FAN22G1211' => 'fan', 'FAN25G3626' => 'fan', 'FvH4_2g09491' => 'fve', 'FvH4_3g24910' => 'fve', 'FvH4_4g15630' => 'fve', 'FvH4_5g28820' => 'fve', 'Glyma.01G238000' => 'gma', 'Glyma.05G168400' => 'gma', 'Glyma.08G126800' => 'gma', 'Glyma.08G188500' => 'gma', 'Glyma.10G278900' => 'gma', 'Glyma.11G005700' => 'gma', 'Glyma.11G183300' => 'gma', 'Glyma.12G089200' => 'gma', 'Glyma.12G169400' => 'gma', 'Glyma.12G169500' => 'gma', 'Glyma.12G169600' => 'gma', 'Glyma.20G110800' => 'gma', 'Gohir.A03G192900' => 'ghi', 'Gohir.A03G193000' => 'ghi', 'Gohir.A05G080700' => 'ghi', 'Gohir.A09G216000' => 'ghi', 'Gohir.A12G027700' => 'ghi', 'Gohir.A13G036200' => 'ghi', 'Gohir.A13G222600' => 'ghi', 'Gohir.D02G213900' => 'ghi', 'Gohir.D02G214000' => 'ghi', 'Gohir.D05G083700' => 'ghi', 'Gohir.D05G083800' => 'ghi', 'Gohir.D05G083850' => 'ghi', 'Gohir.D08G015400' => 'ghi', 'Gohir.D09G218400' => 'ghi', 'Gohir.D12G027100' => 'ghi', 'Gohir.D13G034500' => 'ghi', 'Gohir.D13G227400' => 'ghi', 'Gorai.005G241800' => 'gra', 'Gorai.005G241900' => 'gra', 'Gorai.006G239400' => 'gra', 'Gorai.008G027600' => 'gra', 'Gorai.009G085400' => 'gra', 'Gorai.009G085500' => 'gra', 'Gorai.013G039000' => 'gra', 'Gorai.013G194800' => 'gra', 'Gorai.013G257900' => 'gra', 'GSVIVG01000982001' => 'vvi', 'GSVIVG01017981001' => 'vvi', 'HanXRQChr01g0024061' => 'han', 'HanXRQChr09g0247831' => 'han', 'HanXRQChr10g0294611' => 'han', 'HanXRQChr10g0294621' => 'han', 'HanXRQChr11g0346821' => 'han', 'HanXRQChr13g0397461' => 'han', 'HanXRQChr16g0513651' => 'han', 'HanXRQChr16g0513701' => 'han', 'Haze_00897' => 'cav', 'Haze_01745' => 'cav', 'Haze_02486' => 'cav', 'Haze_02487' => 'cav', 'Haze_23374' => 'cav', 'Hma1.2p1_0578F.1_g182520' => 'hma', 'Hma1.2p1_0602F.1_g187350' => 'hma', 'Hma1.2p1_0602F.1_g187360' => 'hma', 'Hma1.2p1_0874F.1_g231320' => 'hma', 'Hma1.2p1_1197F.1_g266210' => 'hma', 'Hma1.2p1_1197F.1_g266220' => 'hma', 'Hma1.2p1_2167F.1_g315895' => 'hma', 'Hma1.2p1_2190F.1_g316640' => 'hma', 'Hma1.2p1_3645F.1_g337153' => 'hma', 'HPP92_004907' => 'vpl', 'HPP92_012134' => 'vpl', 'HPP92_025136' => 'vpl', 'HPP92_026087' => 'vpl', 'Hund06782' => 'sun', 'Hund06784' => 'sun', 'Lalb_Chr01g0004861' => 'lal', 'Lalb_Chr02g0140591' => 'lal', 'Lalb_Chr02g0140611' => 'lal', 'Lalb_Chr03g0028101' => 'lal', 'Lalb_Chr07g0185791' => 'lal', 'Lalb_Chr12g0204491' => 'lal', 'Lalb_Chr13g0295671' => 'lal', 'Lalb_Chr19g0136461' => 'lal', 'Lalb_Chr21g0309191' => 'lal', 'Lj1g0028158' => 'lja', 'Lj1P236T38' => 'lonja', 'Lj2C32G2' => 'lonja', 'Lj2P944T8' => 'lonja', 'Lj2P963T15' => 'lonja', 'Lj3g0011788' => 'lja', 'Lj4g0025027' => 'lja', 'Lj5P255T36' => 'lonja', 'Lj6g0018866' => 'lja', 'Lj6P608T31' => 'lonja', 'LjContig00408g0008879' => 'lja', 'Lsat_1_v5_gn_5_105820' => 'lsa', 'Lsat_1_v5_gn_6_38800' => 'lsa', 'Lsat_1_v5_gn_7_67141' => 'lsa', 'Manes.04G003400' => 'mes', 'Manes.07G020000' => 'mes', 'Manes.07G020100' => 'mes', 'Manes.07G020150' => 'mes', 'Manes.10G061500' => 'mes', 'Manes.10G123200' => 'mes', 'Manes.11G161900' => 'mes', 'Manes.15G029300' => 'mes', 'Mapoly0071s0018' => 'mpo', 'Mapoly0082s0023' => 'mpo', 'Mapoly3477s0001' => 'mpo', 'MBI05_g31233_MAGBIO' => 'mbi', 'MBI09_g05946_MAGBIO' => 'mbi', 'MBI09_g05947_MAGBIO' => 'mbi', 'MBI17_g08346_MAGBIO' => 'mbi', 'MCO04G038' => 'mco', 'MCO09G370' => 'mco', 'MCO13G605' => 'mco', 'MD00G1075500' => 'mdo', 'MD03G1144300' => 'mdo', 'MD08G1236800' => 'mdo', 'MD13G1193300' => 'mdo', 'MD15G1428700' => 'mdo', 'Medtr1g112030' => 'mtr', 'Medtr1g112050' => 'mtr', 'Medtr2g006290' => 'mtr', 'Medtr2g086510' => 'mtr', 'Medtr4g053120' => 'mtr', 'Medtr5g006320' => 'mtr', 'Medtr8g088720' => 'mtr', 'MELO3C004712.2' => 'cme', 'MELO3C006533.2' => 'cme', 'MELO3C019438.2' => 'cme', 'MELO3C019440.2' => 'cme', 'MELO3C019441.2' => 'cme', 'MELO3C019895.2' => 'cme', 'Migut.B00811' => 'egut', 'Migut.D02447' => 'egut', 'Migut.F00875' => 'egut', 'Migut.N00186' => 'egut', 'Migut.N01051' => 'egut', 'Migut.N02491' => 'egut', 'Migut.O00784' => 'egut', 'MSTRG.12367' => 'ama', 'MSTRG.18756' => 'ama', 'MSTRG.21042' => 'ama', 'Nitab4.5_0000559g0040' => 'nta', 'Nitab4.5_0000667g0190' => 'nta', 'Nitab4.5_0000755g0160' => 'nta', 'Nitab4.5_0001216g0080' => 'nta', 'Nitab4.5_0004069g0040' => 'nta', 'Nitab4.5_0004129g0010' => 'nta', 'Nitab4.5_0005744g0030' => 'nta', 'Nitab4.5_0006996g0030' => 'nta', 'Nitab4.5_0008971g0040' => 'nta', 'Nitab4.5_0009769g0020' => 'nta', 'Nitab4.5_0009833g0010' => 'nta', 'Nitab4.5_0013140g0020' => 'nta', 'Nn003s41376' => 'nnu', 'Nn1g01857' => 'nnu', 'Nn1g03611' => 'nnu', 'Nn1g06853' => 'nnu', 'Nn3g18360' => 'nnu', 'Nn4g26328' => 'nnu', 'Nn5g27531' => 'nnu', 'Nn6g34899' => 'nnu', 'Nn7g36299' => 'nnu', 'Oeu021485.1' => 'oeu', 'Oeu022433.1' => 'oeu', 'Oeu032111.1' => 'oeu', 'Oeu051608.1' => 'oeu', 'Os01g0860601' => 'osa', 'Os03g0659200' => 'osa', 'Os03g0835900' => 'osa', 'Os04g0412200' => 'osa', 'Os05g0443500' => 'osa', 'Os07g0251500' => 'osa', 'Os08g0104600' => 'osa', 'Peaxi162Scf00003g00047' => 'pax', 'Peaxi162Scf00003g00052' => 'pax', 'Peaxi162Scf00003g00394' => 'pax', 'Peaxi162Scf00091g00621' => 'pax', 'Peaxi162Scf00152g00146' => 'pax', 'Peaxi162Scf00173g00025' => 'pax', 'Peaxi162Scf00195g00102' => 'pax', 'Peaxi162Scf00402g00013' => 'pax', 'Peaxi162Scf00519g00618' => 'pax', 'PGR004G2838' => 'pgr', 'PGR044G2275' => 'pgr', 'PGR102G1377' => 'pgr', 'PGR119G1245' => 'pgr', 'PGR142G4449' => 'pgr', 'PGSC0003DMG400004532' => 'stu', 'PGSC0003DMG400011950' => 'stu', 'PGSC0003DMG400023391' => 'stu', 'PGSC0003DMG400023985' => 'stu', 'PGSC0003DMG400026360' => 'stu', 'PGSC0003DMG400035711' => 'stu', 'PGSC0003DMG400037286' => 'stu', 'PGSC0003DMG402005881' => 'stu', 'Phvul.002G045400' => 'pvu', 'Phvul.006G216600' => 'pvu', 'Phvul.006G216700' => 'pvu', 'Phvul.006G216800' => 'pvu', 'Phvul.007G022500' => 'pvu', 'Phvul.011G094400' => 'pvu', 'Potri.001G470700' => 'ptr', 'Potri.003G015200' => 'ptr', 'Potri.004G202500' => 'ptr', 'Potri.004G218400' => 'ptr', 'Potri.008G020100' => 'ptr', 'Potri.008G153200' => 'ptr', 'Potri.009G163800' => 'ptr', 'Potri.010G087300' => 'ptr', 'Potri.010G239100' => 'ptr', 'Pp3c10_16100' => 'ppa', 'Pp3c10_16880' => 'ppa', 'Pp3c16_6230' => 'ppa', 'Pp3c17_18910' => 'ppa', 'Pp3c3_22119' => 'ppa', 'Pp3c3_22140' => 'ppa', 'Pp3c4_8159' => 'ppa', 'Pp3c4_8171' => 'ppa', 'Pp3c4_8330' => 'ppa', 'PRCOL_00004098' => 'pco', 'Prupe.1G013900' => 'ppe', 'Prupe.1G226300' => 'ppe', 'Prupe.1G573600' => 'ppe', 'Prupe.6G130100' => 'ppe', 'Psat3g090040' => 'psa', 'Psat4g210440' => 'psa', 'Psat6g231040' => 'psa', 'Psat6g231080' => 'psa', 'Psat7g063000' => 'psa', 'Psat7g188000' => 'psa', 'Psat7g188040' => 'psa', 'PSO017G0206' => 'pso', 'PSO170G0501' => 'pso', 'PSO170G6422' => 'pso', 'PSO210G7739' => 'pso', 'PSO339G1808' => 'pso', 'PSO339G6135' => 'pso', 'PSO384G0010' => 'pso', 'PSO384G0964' => 'pso', 'PSO761G0050' => 'pso', 'PSO782G4085' => 'pso', 'QL01p012264' => 'qlo', 'QL02p099491' => 'qlo', 'QL03p033868' => 'qlo', 'QL04p046678' => 'qlo', 'QL06p002448' => 'qlo', 'RcHm_v2.0_Chr4g0416181' => 'rch', 'RcHm_v2.0_Chr5g0044701' => 'rch', 'RcHm_v2.0_Chr6g0265781' => 'rch', 'RcHm_v2.0_Chr7g0221031' => 'rch', 'Rhsim04G0202000' => 'rsi', 'Rhsim11G0127300' => 'rsi', 'Rhsim13G0111800' => 'rsi', 'Sabra01G0165600' => 'sbr', 'Sabra03G0008300' => 'sbr', 'Sabra04G0136900' => 'sbr', 'Sabra08G0013400' => 'sbr', 'Sabra08G0116800' => 'sbr', 'Sabra09G0128000' => 'sbr', 'Sabra10G0055500' => 'sbr', 'Sabra10G0073300' => 'sbr', 'SalBow3G0385' => 'sbo', 'SalBow3G1119' => 'sbo', 'SalBow3G2005' => 'sbo', 'SalBow6G2563' => 'sbo', 'SalBow6G6386' => 'sbo', 'Sc06g0008800' => 'sci', 'Sc07g0004950' => 'sci', 'Sc09g0005340' => 'sci', 'Sc13g0004410' => 'sci', 'Sc21g0007090' => 'sci', 'Sed0009285' => 'sed', 'Sed0017583' => 'sed', 'Sed0019699' => 'sed', 'Sed0023107' => 'sed', 'SEGI_10916' => 'sgi', 'SEGI_16217' => 'sgi', 'SEGI_19466' => 'sgi', 'SEGI_41115' => 'sgi', 'SGA_v2.0_scaffold111G31534' => 'sas', 'SGA_v2.0_scaffold22G09864' => 'sas', 'SGA_v2.0_scaffold338G49219' => 'sas', 'SGA_v2.0_scaffold92G28298' => 'sas', 'SMO119G0064' => 'smo', 'SMO223G0038' => 'smo', 'SMO347G0584' => 'smo', 'SMO351G0010' => 'smo', 'SMO356G0404' => 'smo', 'Solyc01g103920.3' => 'sly', 'Solyc04g009710.2' => 'sly', 'Solyc05g055280.2' => 'sly', 'Solyc10g044520.3' => 'sly', 'Solyc10g075160.1' => 'sly', 'Solyc11g006910.3' => 'sly', 'Solyc11g068430.3' => 'sly', 'Sopen01g046310' => 'spe', 'Sopen03g001200' => 'spe', 'Sopen04g004830' => 'spe', 'Sopen05g033720' => 'spe', 'Sopen06g030740' => 'spe', 'Sopen10g013090' => 'spe', 'Sopen10g027630' => 'spe', 'Sopen10g027640' => 'spe', 'Sopen11g002820' => 'spe', 'Sopen11g027140' => 'spe', 'Sp1g09680' => 'spa', 'Sp2g03630' => 'spa', 'Sp4g10320' => 'spa', 'Sp6g33400' => 'spa', 'Sp7g13030' => 'spa', 'TAR365G0317' => 'tar', 'TAR376G0979' => 'tar', 'TAR623G1665' => 'tar', 'TAR633G2373' => 'tar', 'TAR636G1400' => 'tar', 'THA.LOC104800529' => 'tha', 'THA.LOC104808547' => 'tha', 'THA.LOC104809615' => 'tha', 'THA.LOC104815724' => 'tha', 'THA.LOC104818480' => 'tha', 'THA.LOC104819179' => 'tha', 'THA.LOC104822270' => 'tha', 'THA.LOC104826425' => 'tha', 'Thecc.02G089700' => 'tca', 'Thecc.04G232300' => 'tca', 'Thecc.09G283400' => 'tca', 'Thhalv10009020m.g' => 'esa', 'Thhalv10015506m.g' => 'esa', 'Thhalv10017364m.g' => 'esa', 'Thhalv10023742m.g' => 'esa', 'Thhalv10026483m.g' => 'esa', 'TPR.G17232' => 'tpr', 'TPR.G2133' => 'tpr', 'TPR.G2498' => 'tpr', 'TPR.G31942' => 'tpr', 'TPR.G37877' => 'tpr', 'TPR.G4571' => 'tpr', 'TWI14G1113' => 'twi', 'TWI15G0426' => 'twi', 'TWI31G1005' => 'twi', 'TWI38G0513' => 'twi', 'TWI38G1484' => 'twi', 'TWI73G1098' => 'twi', 'unitig_26.g10519' => 'ugi', 'unitig_736.g22395' => 'ugi', 'unitig_747.g21234' => 'ugi', 'unitig_747.g21942' => 'ugi', 'vmacro14351' => 'vma', 'VMungo0540G0082' => 'vmu', 'VMungo0540G0405' => 'vmu', 'VMungo0540G1486' => 'vmu', 'VMungo0540G1692' => 'vmu', 'VMungo0720G2473' => 'vmu', 'VMungo1127G1562' => 'vmu', 'VMungo1215G1918' => 'vmu', 'Zm00001eb052650' => 'zma', 'Zm00001eb063710' => 'zma', 'Zm00001eb083950' => 'zma', 'Zm00001eb174420' => 'zma', 'Zm00001eb260140' => 'zma', 'Zm00001eb260150' => 'zma', 'Zm00001eb260160' => 'zma', 'Zm00001eb348290' => 'zma', 'Zm00001eb366870' => 'zma', 'Zm00001eb421930' => 'zma' ), 'gf_id' => 'HOM05D001025', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001025' ), 'data_identifier' => 'HOM05D001025', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001025', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '592', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p22650' => 'bna', 'A01p29720' => 'bna', 'A03p26560' => 'bna', 'A03p68820' => 'bna', 'A04p20980' => 'bna', 'A06p07730' => 'bna', 'A07p18260' => 'bna', 'A08p33710' => 'bna', 'A09p16970' => 'bna', 'A10p27490' => 'bna', 'Aa31LG1G17300' => 'aar', 'Aa31LG1G3910' => 'aar', 'Aa31LG2G9630' => 'aar', 'Aa31LG5G8360' => 'aar', 'Aa31LG9G2410' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4699' => 'aag', 'Actinidia23512' => 'ach', 'Actinidia37080' => 'ach', 'Ah.01g020380' => 'amhyb', 'Ah.08g215710' => 'amhyb', 'Ah.09g225110' => 'amhyb', 'Ah.10g036680' => 'amhyb', 'AL1G21940' => 'aly', 'AL2G15540' => 'aly', 'AL4G21520' => 'aly', 'AL7G40960' => 'aly', 'Aqoxy2G01191' => 'aox', 'Aqoxy2G03393' => 'aox', 'Aqoxy4G02775' => 'aox', 'Aqoxy6G00058' => 'aox', 'arahy.Tifrunner.gnm1.ann1.9X74H2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CW3FX9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R485W7' => 'arhy', 'AT1G10960' => 'ath', 'AT1G60950' => 'ath', 'AT2G27510' => 'ath', 'AT4G14890' => 'ath', 'AT5G10000' => 'ath', 'ATR0665G624' => 'atr', 'ATR0697G138' => 'atr', 'ATR0776G046' => 'atr', 'ATR1134G135' => 'atr', 'Atru.chr12.1025' => 'acertr', 'Atru.chr3.3241' => 'acertr', 'Atru.chr4.2460' => 'acertr', 'AUR62007427' => 'cqu', 'AUR62010960' => 'cqu', 'AUR62012201' => 'cqu', 'AUR62021470' => 'cqu', 'AUR62022834' => 'cqu', 'AUR62033635' => 'cqu', 'AUR62036186' => 'cqu', 'BcaB01g03077' => 'bca', 'BcaB02g10093' => 'bca', 'BcaB04g20295' => 'bca', 'BcaB06g28147' => 'bca', 'BcaB07g31253' => 'bca', 'BcaC01g04946' => 'bca', 'BcaC02g10614' => 'bca', 'BcaC02g10885' => 'bca', 'BcaC04g19356' => 'bca', 'BcaC04g22297' => 'bca', 'BcaC05g24977' => 'bca', 'BcaC06g31823' => 'bca', 'BcaC07g38633' => 'bca', 'BcaC09g49353' => 'bca', 'BcaC09g50168' => 'bca', 'BcaNung00322' => 'bca', 'BcaNung04769' => 'bca', 'BolC1t02753H' => 'bol', 'BolC1t03721H' => 'bol', 'BolC3t15525H' => 'bol', 'BolC4t23903H' => 'bol', 'BolC4t24231H' => 'bol', 'BolC4t27209H' => 'bol', 'BolC5t29671H' => 'bol', 'BolC8t49044H' => 'bol', 'BolC9t54999H' => 'bol', 'BolC9t59517H' => 'bol', 'BraA01t02178Z' => 'bra', 'BraA01t03099Z' => 'bra', 'BraA03t11867Z' => 'bra', 'BraA04t17667Z' => 'bra', 'BraA07t29542Z' => 'bra', 'BraA08t35287Z' => 'bra', 'BraA09t37334Z' => 'bra', 'BraA10t44801Z' => 'bra', 'BraSC39t46181Z' => 'bra', 'C01p28240' => 'bna', 'C01p37530' => 'bna', 'C03p31820' => 'bna', 'C04p24080' => 'bna', 'C04p25790' => 'bna', 'C04p56770' => 'bna', 'C05p09310' => 'bna', 'C09p21010' => 'bna', 'C09p67560' => 'bna', 'CAN.G1324.7' => 'can', 'CAN.G1358.10' => 'can', 'CAN.G1550.2' => 'can', 'CAN.G186.56' => 'can', 'CAN.G1965.1' => 'can', 'CAN.G645.15' => 'can', 'CAN.G798.26' => 'can', 'CAN.G798.27' => 'can', 'CAN.G798.29' => 'can', 'CAN.G919.31' => 'can', 'CANSAT11G0133' => 'cansat', 'CANSAT11G1171' => 'cansat', 'CANSAT11G2056' => 'cansat', 'CANSAT56G1202' => 'cansat', 'CANSAT56G1514' => 'cansat', 'CANSAT78G0455' => 'cansat', 'CARHR011190' => 'chi', 'CARHR051980' => 'chi', 'CARHR120170' => 'chi', 'CARHR203310' => 'chi', 'CARHR221490' => 'chi', 'Carub.0001s1054' => 'cru', 'Carub.0002s0431' => 'cru', 'Carub.0004s0818' => 'cru', 'Carub.0006s0846' => 'cru', 'Carub.0007s2722' => 'cru', 'Ca_00058_v3' => 'car', 'Ca_17831_v3' => 'car', 'Ca_19408_v3' => 'car', 'Ca_24397_v3' => 'car', 'Ca_25664_v3' => 'car', 'CBR_g21818' => 'cbr', 'CBR_g31195' => 'cbr', 'CBR_g32282' => 'cbr', 'CBR_g39599' => 'cbr', 'CBR_g49410' => 'cbr', 'Cc01_g09120' => 'ccan', 'Cc01_g09130' => 'ccan', 'Cc02_g09630' => 'ccan', 'Cc02_g22810' => 'ccan', 'Cc03_g03810' => 'ccan', 'CDE02G3718' => 'cde', 'CDE04G3183' => 'cde', 'CDE07G1046' => 'cde', 'CDE08G0480' => 'cde', 'Cfa005493' => 'cfa', 'Cfa010312' => 'cfa', 'Cfa015648' => 'cfa', 'Ciclev10002793m.g' => 'ccl', 'Ciclev10003356m.g' => 'ccl', 'Ciclev10006141m.g' => 'ccl', 'Ciclev10016676m.g' => 'ccl', 'Ciclev10017081m.g' => 'ccl', 'Ciclev10029499m.g' => 'ccl', 'CiPaw.01G166300' => 'cil', 'CiPaw.06G145600' => 'cil', 'CiPaw.13G040100' => 'cil', 'CiPaw.13G135800' => 'cil', 'ClCG01G012230' => 'cla', 'ClCG05G009510' => 'cla', 'ClCG08G008270' => 'cla', 'COL.COLO4_11763' => 'col', 'COL.COLO4_19876' => 'col', 'COL.COLO4_21481' => 'col', 'Cpa.g.sc118.34' => 'cpa', 'Cpa.g.sc32.13' => 'cpa', 'Cpa.g.sc58.103' => 'cpa', 'Cre03.g183850' => 'cre', 'Cre06.g306350' => 'cre', 'Cre07.g334800' => 'cre', 'Cre12.g487900' => 'cre', 'Cre14.g626700' => 'cre', 'Cre16.g658400' => 'cre', 'Cre17.g700950' => 'cre', 'CsaV3_1G014830' => 'csa', 'CsaV3_3G013320' => 'csa', 'CsaV3_3G019210' => 'csa', 'CsaV3_3G019220' => 'csa', 'CsaV3_6G004230' => 'csa', 'CSS0003773' => 'camsi', 'CSS0004563' => 'camsi', 'CSS0013949' => 'camsi', 'CSS0025971' => 'camsi', 'CSS0028570' => 'camsi', 'CSS0033127' => 'camsi', 'CSS0036051' => 'camsi', 'CSS0040087' => 'camsi', 'CSS0043179' => 'camsi', 'DCAR_006161' => 'dca', 'DCAR_010351' => 'dca', 'DCAR_012197' => 'dca', 'DCAR_024162' => 'dca', 'Dinv01030' => 'din', 'Dinv10924' => 'din', 'Dinv11835' => 'din', 'Dinv22841' => 'din', 'Dinv42553' => 'din', 'Duzib052G0560' => 'dzi', 'Duzib132G0389' => 'dzi', 'Duzib150G1181' => 'dzi', 'Duzib168G0623' => 'dzi', 'Duzib170G1036' => 'dzi', 'Duzib212G0200' => 'dzi', 'Duzib248G0194' => 'dzi', 'ECA232G2193' => 'eca', 'ECA233G0302' => 'eca', 'ECA234G2813' => 'eca', 'ECA234G4866' => 'eca', 'ECA240G3932' => 'eca', 'ECA248G0385' => 'eca', 'EL10Ac2g04781' => 'bvu', 'EL10Ac3g06445' => 'bvu', 'EL10Ac7g15825' => 'bvu', 'EL10Ac8g18550' => 'bvu', 'Eucgr.B03849' => 'egr', 'Eucgr.I02744' => 'egr', 'Eucgr.J00264' => 'egr', 'Eucgr.J00493' => 'egr', 'FAN04G2181' => 'fan', 'FAN07G2666' => 'fan', 'FAN11G0024' => 'fan', 'FAN12G1105' => 'fan', 'FAN13G0302' => 'fan', 'FAN15G2781' => 'fan', 'FAN16G1274' => 'fan', 'FAN17G2988' => 'fan', 'FAN18G2621' => 'fan', 'FAN21G0013' => 'fan', 'FAN22G1211' => 'fan', 'FAN25G3626' => 'fan', 'FvH4_2g09491' => 'fve', 'FvH4_3g24910' => 'fve', 'FvH4_4g15630' => 'fve', 'FvH4_5g28820' => 'fve', 'Glyma.01G238000' => 'gma', 'Glyma.05G168400' => 'gma', 'Glyma.08G126800' => 'gma', 'Glyma.08G188500' => 'gma', 'Glyma.10G278900' => 'gma', 'Glyma.11G005700' => 'gma', 'Glyma.11G183300' => 'gma', 'Glyma.12G089200' => 'gma', 'Glyma.12G169400' => 'gma', 'Glyma.12G169500' => 'gma', 'Glyma.12G169600' => 'gma', 'Glyma.20G110800' => 'gma', 'Gohir.A03G192900' => 'ghi', 'Gohir.A03G193000' => 'ghi', 'Gohir.A05G080700' => 'ghi', 'Gohir.A09G216000' => 'ghi', 'Gohir.A12G027700' => 'ghi', 'Gohir.A13G036200' => 'ghi', 'Gohir.A13G222600' => 'ghi', 'Gohir.D02G213900' => 'ghi', 'Gohir.D02G214000' => 'ghi', 'Gohir.D05G083700' => 'ghi', 'Gohir.D05G083800' => 'ghi', 'Gohir.D05G083850' => 'ghi', 'Gohir.D08G015400' => 'ghi', 'Gohir.D09G218400' => 'ghi', 'Gohir.D12G027100' => 'ghi', 'Gohir.D13G034500' => 'ghi', 'Gohir.D13G227400' => 'ghi', 'Gorai.005G241800' => 'gra', 'Gorai.005G241900' => 'gra', 'Gorai.006G239400' => 'gra', 'Gorai.008G027600' => 'gra', 'Gorai.009G085400' => 'gra', 'Gorai.009G085500' => 'gra', 'Gorai.013G039000' => 'gra', 'Gorai.013G194800' => 'gra', 'Gorai.013G257900' => 'gra', 'GSVIVG01000982001' => 'vvi', 'GSVIVG01017981001' => 'vvi', 'HanXRQChr01g0024061' => 'han', 'HanXRQChr09g0247831' => 'han', 'HanXRQChr10g0294611' => 'han', 'HanXRQChr10g0294621' => 'han', 'HanXRQChr11g0346821' => 'han', 'HanXRQChr13g0397461' => 'han', 'HanXRQChr16g0513651' => 'han', 'HanXRQChr16g0513701' => 'han', 'Haze_00897' => 'cav', 'Haze_01745' => 'cav', 'Haze_02486' => 'cav', 'Haze_02487' => 'cav', 'Haze_23374' => 'cav', 'Hma1.2p1_0578F.1_g182520' => 'hma', 'Hma1.2p1_0602F.1_g187350' => 'hma', 'Hma1.2p1_0602F.1_g187360' => 'hma', 'Hma1.2p1_0874F.1_g231320' => 'hma', 'Hma1.2p1_1197F.1_g266210' => 'hma', 'Hma1.2p1_1197F.1_g266220' => 'hma', 'Hma1.2p1_2167F.1_g315895' => 'hma', 'Hma1.2p1_2190F.1_g316640' => 'hma', 'Hma1.2p1_3645F.1_g337153' => 'hma', 'HPP92_004907' => 'vpl', 'HPP92_012134' => 'vpl', 'HPP92_025136' => 'vpl', 'HPP92_026087' => 'vpl', 'Hund06782' => 'sun', 'Hund06784' => 'sun', 'Lalb_Chr01g0004861' => 'lal', 'Lalb_Chr02g0140591' => 'lal', 'Lalb_Chr02g0140611' => 'lal', 'Lalb_Chr03g0028101' => 'lal', 'Lalb_Chr07g0185791' => 'lal', 'Lalb_Chr12g0204491' => 'lal', 'Lalb_Chr13g0295671' => 'lal', 'Lalb_Chr19g0136461' => 'lal', 'Lalb_Chr21g0309191' => 'lal', 'Lj1g0028158' => 'lja', 'Lj1P236T38' => 'lonja', 'Lj2C32G2' => 'lonja', 'Lj2P944T8' => 'lonja', 'Lj2P963T15' => 'lonja', 'Lj3g0011788' => 'lja', 'Lj4g0025027' => 'lja', 'Lj5P255T36' => 'lonja', 'Lj6g0018866' => 'lja', 'Lj6P608T31' => 'lonja', 'LjContig00408g0008879' => 'lja', 'Lsat_1_v5_gn_5_105820' => 'lsa', 'Lsat_1_v5_gn_6_38800' => 'lsa', 'Lsat_1_v5_gn_7_67141' => 'lsa', 'Manes.04G003400' => 'mes', 'Manes.07G020000' => 'mes', 'Manes.07G020100' => 'mes', 'Manes.07G020150' => 'mes', 'Manes.10G061500' => 'mes', 'Manes.10G123200' => 'mes', 'Manes.11G161900' => 'mes', 'Manes.15G029300' => 'mes', 'Mapoly0071s0018' => 'mpo', 'Mapoly0082s0023' => 'mpo', 'Mapoly3477s0001' => 'mpo', 'MBI05_g31233_MAGBIO' => 'mbi', 'MBI09_g05946_MAGBIO' => 'mbi', 'MBI09_g05947_MAGBIO' => 'mbi', 'MBI17_g08346_MAGBIO' => 'mbi', 'MCO04G038' => 'mco', 'MCO09G370' => 'mco', 'MCO13G605' => 'mco', 'MD00G1075500' => 'mdo', 'MD03G1144300' => 'mdo', 'MD08G1236800' => 'mdo', 'MD13G1193300' => 'mdo', 'MD15G1428700' => 'mdo', 'Medtr1g112030' => 'mtr', 'Medtr1g112050' => 'mtr', 'Medtr2g006290' => 'mtr', 'Medtr2g086510' => 'mtr', 'Medtr4g053120' => 'mtr', 'Medtr5g006320' => 'mtr', 'Medtr8g088720' => 'mtr', 'MELO3C004712.2' => 'cme', 'MELO3C006533.2' => 'cme', 'MELO3C019438.2' => 'cme', 'MELO3C019440.2' => 'cme', 'MELO3C019441.2' => 'cme', 'MELO3C019895.2' => 'cme', 'Migut.B00811' => 'egut', 'Migut.D02447' => 'egut', 'Migut.F00875' => 'egut', 'Migut.N00186' => 'egut', 'Migut.N01051' => 'egut', 'Migut.N02491' => 'egut', 'Migut.O00784' => 'egut', 'MSTRG.12367' => 'ama', 'MSTRG.18756' => 'ama', 'MSTRG.21042' => 'ama', 'Nitab4.5_0000559g0040' => 'nta', 'Nitab4.5_0000667g0190' => 'nta', 'Nitab4.5_0000755g0160' => 'nta', 'Nitab4.5_0001216g0080' => 'nta', 'Nitab4.5_0004069g0040' => 'nta', 'Nitab4.5_0004129g0010' => 'nta', 'Nitab4.5_0005744g0030' => 'nta', 'Nitab4.5_0006996g0030' => 'nta', 'Nitab4.5_0008971g0040' => 'nta', 'Nitab4.5_0009769g0020' => 'nta', 'Nitab4.5_0009833g0010' => 'nta', 'Nitab4.5_0013140g0020' => 'nta', 'Nn003s41376' => 'nnu', 'Nn1g01857' => 'nnu', 'Nn1g03611' => 'nnu', 'Nn1g06853' => 'nnu', 'Nn3g18360' => 'nnu', 'Nn4g26328' => 'nnu', 'Nn5g27531' => 'nnu', 'Nn6g34899' => 'nnu', 'Nn7g36299' => 'nnu', 'Oeu021485.1' => 'oeu', 'Oeu022433.1' => 'oeu', 'Oeu032111.1' => 'oeu', 'Oeu051608.1' => 'oeu', 'Os01g0860601' => 'osa', 'Os03g0659200' => 'osa', 'Os03g0835900' => 'osa', 'Os04g0412200' => 'osa', 'Os05g0443500' => 'osa', 'Os07g0251500' => 'osa', 'Os08g0104600' => 'osa', 'Peaxi162Scf00003g00047' => 'pax', 'Peaxi162Scf00003g00052' => 'pax', 'Peaxi162Scf00003g00394' => 'pax', 'Peaxi162Scf00091g00621' => 'pax', 'Peaxi162Scf00152g00146' => 'pax', 'Peaxi162Scf00173g00025' => 'pax', 'Peaxi162Scf00195g00102' => 'pax', 'Peaxi162Scf00402g00013' => 'pax', 'Peaxi162Scf00519g00618' => 'pax', 'PGR004G2838' => 'pgr', 'PGR044G2275' => 'pgr', 'PGR102G1377' => 'pgr', 'PGR119G1245' => 'pgr', 'PGR142G4449' => 'pgr', 'PGSC0003DMG400004532' => 'stu', 'PGSC0003DMG400011950' => 'stu', 'PGSC0003DMG400023391' => 'stu', 'PGSC0003DMG400023985' => 'stu', 'PGSC0003DMG400026360' => 'stu', 'PGSC0003DMG400035711' => 'stu', 'PGSC0003DMG400037286' => 'stu', 'PGSC0003DMG402005881' => 'stu', 'Phvul.002G045400' => 'pvu', 'Phvul.006G216600' => 'pvu', 'Phvul.006G216700' => 'pvu', 'Phvul.006G216800' => 'pvu', 'Phvul.007G022500' => 'pvu', 'Phvul.011G094400' => 'pvu', 'Potri.001G470700' => 'ptr', 'Potri.003G015200' => 'ptr', 'Potri.004G202500' => 'ptr', 'Potri.004G218400' => 'ptr', 'Potri.008G020100' => 'ptr', 'Potri.008G153200' => 'ptr', 'Potri.009G163800' => 'ptr', 'Potri.010G087300' => 'ptr', 'Potri.010G239100' => 'ptr', 'Pp3c10_16100' => 'ppa', 'Pp3c10_16880' => 'ppa', 'Pp3c16_6230' => 'ppa', 'Pp3c17_18910' => 'ppa', 'Pp3c3_22119' => 'ppa', 'Pp3c3_22140' => 'ppa', 'Pp3c4_8159' => 'ppa', 'Pp3c4_8171' => 'ppa', 'Pp3c4_8330' => 'ppa', 'PRCOL_00004098' => 'pco', 'Prupe.1G013900' => 'ppe', 'Prupe.1G226300' => 'ppe', 'Prupe.1G573600' => 'ppe', 'Prupe.6G130100' => 'ppe', 'Psat3g090040' => 'psa', 'Psat4g210440' => 'psa', 'Psat6g231040' => 'psa', 'Psat6g231080' => 'psa', 'Psat7g063000' => 'psa', 'Psat7g188000' => 'psa', 'Psat7g188040' => 'psa', 'PSO017G0206' => 'pso', 'PSO170G0501' => 'pso', 'PSO170G6422' => 'pso', 'PSO210G7739' => 'pso', 'PSO339G1808' => 'pso', 'PSO339G6135' => 'pso', 'PSO384G0010' => 'pso', 'PSO384G0964' => 'pso', 'PSO761G0050' => 'pso', 'PSO782G4085' => 'pso', 'QL01p012264' => 'qlo', 'QL02p099491' => 'qlo', 'QL03p033868' => 'qlo', 'QL04p046678' => 'qlo', 'QL06p002448' => 'qlo', 'RcHm_v2.0_Chr4g0416181' => 'rch', 'RcHm_v2.0_Chr5g0044701' => 'rch', 'RcHm_v2.0_Chr6g0265781' => 'rch', 'RcHm_v2.0_Chr7g0221031' => 'rch', 'Rhsim04G0202000' => 'rsi', 'Rhsim11G0127300' => 'rsi', 'Rhsim13G0111800' => 'rsi', 'Sabra01G0165600' => 'sbr', 'Sabra03G0008300' => 'sbr', 'Sabra04G0136900' => 'sbr', 'Sabra08G0013400' => 'sbr', 'Sabra08G0116800' => 'sbr', 'Sabra09G0128000' => 'sbr', 'Sabra10G0055500' => 'sbr', 'Sabra10G0073300' => 'sbr', 'SalBow3G0385' => 'sbo', 'SalBow3G1119' => 'sbo', 'SalBow3G2005' => 'sbo', 'SalBow6G2563' => 'sbo', 'SalBow6G6386' => 'sbo', 'Sc06g0008800' => 'sci', 'Sc07g0004950' => 'sci', 'Sc09g0005340' => 'sci', 'Sc13g0004410' => 'sci', 'Sc21g0007090' => 'sci', 'Sed0009285' => 'sed', 'Sed0017583' => 'sed', 'Sed0019699' => 'sed', 'Sed0023107' => 'sed', 'SEGI_10916' => 'sgi', 'SEGI_16217' => 'sgi', 'SEGI_19466' => 'sgi', 'SEGI_41115' => 'sgi', 'SGA_v2.0_scaffold111G31534' => 'sas', 'SGA_v2.0_scaffold22G09864' => 'sas', 'SGA_v2.0_scaffold338G49219' => 'sas', 'SGA_v2.0_scaffold92G28298' => 'sas', 'SMO119G0064' => 'smo', 'SMO223G0038' => 'smo', 'SMO347G0584' => 'smo', 'SMO351G0010' => 'smo', 'SMO356G0404' => 'smo', 'Solyc01g103920.3' => 'sly', 'Solyc04g009710.2' => 'sly', 'Solyc05g055280.2' => 'sly', 'Solyc10g044520.3' => 'sly', 'Solyc10g075160.1' => 'sly', 'Solyc11g006910.3' => 'sly', 'Solyc11g068430.3' => 'sly', 'Sopen01g046310' => 'spe', 'Sopen03g001200' => 'spe', 'Sopen04g004830' => 'spe', 'Sopen05g033720' => 'spe', 'Sopen06g030740' => 'spe', 'Sopen10g013090' => 'spe', 'Sopen10g027630' => 'spe', 'Sopen10g027640' => 'spe', 'Sopen11g002820' => 'spe', 'Sopen11g027140' => 'spe', 'Sp1g09680' => 'spa', 'Sp2g03630' => 'spa', 'Sp4g10320' => 'spa', 'Sp6g33400' => 'spa', 'Sp7g13030' => 'spa', 'TAR365G0317' => 'tar', 'TAR376G0979' => 'tar', 'TAR623G1665' => 'tar', 'TAR633G2373' => 'tar', 'TAR636G1400' => 'tar', 'THA.LOC104800529' => 'tha', 'THA.LOC104808547' => 'tha', 'THA.LOC104809615' => 'tha', 'THA.LOC104815724' => 'tha', 'THA.LOC104818480' => 'tha', 'THA.LOC104819179' => 'tha', 'THA.LOC104822270' => 'tha', 'THA.LOC104826425' => 'tha', 'Thecc.02G089700' => 'tca', 'Thecc.04G232300' => 'tca', 'Thecc.09G283400' => 'tca', 'Thhalv10009020m.g' => 'esa', 'Thhalv10015506m.g' => 'esa', 'Thhalv10017364m.g' => 'esa', 'Thhalv10023742m.g' => 'esa', 'Thhalv10026483m.g' => 'esa', 'TPR.G17232' => 'tpr', 'TPR.G2133' => 'tpr', 'TPR.G2498' => 'tpr', 'TPR.G31942' => 'tpr', 'TPR.G37877' => 'tpr', 'TPR.G4571' => 'tpr', 'TWI14G1113' => 'twi', 'TWI15G0426' => 'twi', 'TWI31G1005' => 'twi', 'TWI38G0513' => 'twi', 'TWI38G1484' => 'twi', 'TWI73G1098' => 'twi', 'unitig_26.g10519' => 'ugi', 'unitig_736.g22395' => 'ugi', 'unitig_747.g21234' => 'ugi', 'unitig_747.g21942' => 'ugi', 'vmacro14351' => 'vma', 'VMungo0540G0082' => 'vmu', 'VMungo0540G0405' => 'vmu', 'VMungo0540G1486' => 'vmu', 'VMungo0540G1692' => 'vmu', 'VMungo0720G2473' => 'vmu', 'VMungo1127G1562' => 'vmu', 'VMungo1215G1918' => 'vmu', 'Zm00001eb052650' => 'zma', 'Zm00001eb063710' => 'zma', 'Zm00001eb083950' => 'zma', 'Zm00001eb174420' => 'zma', 'Zm00001eb260140' => 'zma', 'Zm00001eb260150' => 'zma', 'Zm00001eb260160' => 'zma', 'Zm00001eb348290' => 'zma', 'Zm00001eb366870' => 'zma', 'Zm00001eb421930' => 'zma' ) $gf_id = 'HOM05D001025' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001025' ) $data_identifier = 'HOM05D001025' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 19, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 2, 'amhyb' => (int) 4, 'aly' => (int) 4, 'aox' => (int) 4, 'arhy' => (int) 3, 'ath' => (int) 5, 'atr' => (int) 4, 'acertr' => (int) 3, 'cqu' => (int) 7, 'bca' => (int) 17, 'bol' => (int) 10, 'bra' => (int) 9, 'can' => (int) 10, 'cansat' => (int) 6, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 5, 'cbr' => (int) 5, 'ccan' => (int) 5, 'cde' => (int) 4, 'cfa' => (int) 3, 'ccl' => (int) 6, 'cil' => (int) 4, 'cla' => (int) 3, 'col' => (int) 3, 'cpa' => (int) 3, 'cre' => (int) 7, 'csa' => (int) 5, 'camsi' => (int) 9, 'dca' => (int) 4, 'din' => (int) 5, 'dzi' => (int) 7, 'eca' => (int) 6, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 12, 'fve' => (int) 4, 'gma' => (int) 12, 'ghi' => (int) 17, 'gra' => (int) 9, 'vvi' => (int) 2, 'han' => (int) 8, 'cav' => (int) 5, 'hma' => (int) 9, 'vpl' => (int) 4, 'sun' => (int) 2, 'lal' => (int) 9, 'lja' => (int) 5, 'lonja' => (int) 6, 'lsa' => (int) 3, 'mes' => (int) 8, 'mpo' => (int) 3, 'mbi' => (int) 4, 'mco' => (int) 3, 'mdo' => (int) 5, 'mtr' => (int) 7, 'cme' => (int) 6, 'egut' => (int) 7, 'ama' => (int) 3, 'nta' => (int) 12, 'nnu' => (int) 9, 'oeu' => (int) 4, 'osa' => (int) 7, 'pax' => (int) 9, 'pgr' => (int) 5, 'stu' => (int) 8, 'pvu' => (int) 6, 'ptr' => (int) 9, 'ppa' => (int) 9, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 7, 'pso' => (int) 10, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 3, 'sbr' => (int) 8, 'sbo' => (int) 5, 'sci' => (int) 5, 'sed' => (int) 4, 'sgi' => (int) 4, 'sas' => (int) 4, 'smo' => (int) 5, 'sly' => (int) 7, 'spe' => (int) 10, 'spa' => (int) 5, 'tar' => (int) 5, 'tha' => (int) 8, 'tca' => (int) 3, 'esa' => (int) 5, 'tpr' => (int) 6, 'twi' => (int) 6, 'ugi' => (int) 4, 'vma' => (int) 1, 'vmu' => (int) 7, 'zma' => (int) 10 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb421930' $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' => 'HOM05D001025', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '592', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p22650' => 'bna', 'A01p29720' => 'bna', 'A03p26560' => 'bna', 'A03p68820' => 'bna', 'A04p20980' => 'bna', 'A06p07730' => 'bna', 'A07p18260' => 'bna', 'A08p33710' => 'bna', 'A09p16970' => 'bna', 'A10p27490' => 'bna', 'Aa31LG1G17300' => 'aar', 'Aa31LG1G3910' => 'aar', 'Aa31LG2G9630' => 'aar', 'Aa31LG5G8360' => 'aar', 'Aa31LG9G2410' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4699' => 'aag', 'Actinidia23512' => 'ach', 'Actinidia37080' => 'ach', 'Ah.01g020380' => 'amhyb', 'Ah.08g215710' => 'amhyb', 'Ah.09g225110' => 'amhyb', 'Ah.10g036680' => 'amhyb', 'AL1G21940' => 'aly', 'AL2G15540' => 'aly', 'AL4G21520' => 'aly', 'AL7G40960' => 'aly', 'Aqoxy2G01191' => 'aox', 'Aqoxy2G03393' => 'aox', 'Aqoxy4G02775' => 'aox', 'Aqoxy6G00058' => 'aox', 'arahy.Tifrunner.gnm1.ann1.9X74H2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CW3FX9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R485W7' => 'arhy', 'AT1G10960' => 'ath', 'AT1G60950' => 'ath', 'AT2G27510' => 'ath', 'AT4G14890' => 'ath', 'AT5G10000' => 'ath', 'ATR0665G624' => 'atr', 'ATR0697G138' => 'atr', 'ATR0776G046' => 'atr', 'ATR1134G135' => 'atr', 'Atru.chr12.1025' => 'acertr', 'Atru.chr3.3241' => 'acertr', 'Atru.chr4.2460' => 'acertr', 'AUR62007427' => 'cqu', 'AUR62010960' => 'cqu', 'AUR62012201' => 'cqu', 'AUR62021470' => 'cqu', 'AUR62022834' => 'cqu', 'AUR62033635' => 'cqu', 'AUR62036186' => 'cqu', 'BcaB01g03077' => 'bca', 'BcaB02g10093' => 'bca', 'BcaB04g20295' => 'bca', 'BcaB06g28147' => 'bca', 'BcaB07g31253' => 'bca', 'BcaC01g04946' => 'bca', 'BcaC02g10614' => 'bca', 'BcaC02g10885' => 'bca', 'BcaC04g19356' => 'bca', 'BcaC04g22297' => 'bca', 'BcaC05g24977' => 'bca', 'BcaC06g31823' => 'bca', 'BcaC07g38633' => 'bca', 'BcaC09g49353' => 'bca', 'BcaC09g50168' => 'bca', 'BcaNung00322' => 'bca', 'BcaNung04769' => 'bca', 'BolC1t02753H' => 'bol', 'BolC1t03721H' => 'bol', 'BolC3t15525H' => 'bol', 'BolC4t23903H' => 'bol', 'BolC4t24231H' => 'bol', 'BolC4t27209H' => 'bol', 'BolC5t29671H' => 'bol', 'BolC8t49044H' => 'bol', 'BolC9t54999H' => 'bol', 'BolC9t59517H' => 'bol', 'BraA01t02178Z' => 'bra', 'BraA01t03099Z' => 'bra', 'BraA03t11867Z' => 'bra', 'BraA04t17667Z' => 'bra', 'BraA07t29542Z' => 'bra', 'BraA08t35287Z' => 'bra', 'BraA09t37334Z' => 'bra', 'BraA10t44801Z' => 'bra', 'BraSC39t46181Z' => 'bra', 'C01p28240' => 'bna', 'C01p37530' => 'bna', 'C03p31820' => 'bna', 'C04p24080' => 'bna', 'C04p25790' => 'bna', 'C04p56770' => 'bna', 'C05p09310' => 'bna', 'C09p21010' => 'bna', 'C09p67560' => 'bna', 'CAN.G1324.7' => 'can', 'CAN.G1358.10' => 'can', 'CAN.G1550.2' => 'can', 'CAN.G186.56' => 'can', 'CAN.G1965.1' => 'can', 'CAN.G645.15' => 'can', 'CAN.G798.26' => 'can', 'CAN.G798.27' => 'can', 'CAN.G798.29' => 'can', 'CAN.G919.31' => 'can', 'CANSAT11G0133' => 'cansat', 'CANSAT11G1171' => 'cansat', 'CANSAT11G2056' => 'cansat', 'CANSAT56G1202' => 'cansat', 'CANSAT56G1514' => 'cansat', 'CANSAT78G0455' => 'cansat', 'CARHR011190' => 'chi', 'CARHR051980' => 'chi', 'CARHR120170' => 'chi', 'CARHR203310' => 'chi', 'CARHR221490' => 'chi', 'Carub.0001s1054' => 'cru', 'Carub.0002s0431' => 'cru', 'Carub.0004s0818' => 'cru', 'Carub.0006s0846' => 'cru', 'Carub.0007s2722' => 'cru', 'Ca_00058_v3' => 'car', 'Ca_17831_v3' => 'car', 'Ca_19408_v3' => 'car', 'Ca_24397_v3' => 'car', 'Ca_25664_v3' => 'car', 'CBR_g21818' => 'cbr', 'CBR_g31195' => 'cbr', 'CBR_g32282' => 'cbr', 'CBR_g39599' => 'cbr', 'CBR_g49410' => 'cbr', 'Cc01_g09120' => 'ccan', 'Cc01_g09130' => 'ccan', 'Cc02_g09630' => 'ccan', 'Cc02_g22810' => 'ccan', 'Cc03_g03810' => 'ccan', 'CDE02G3718' => 'cde', 'CDE04G3183' => 'cde', 'CDE07G1046' => 'cde', 'CDE08G0480' => 'cde', 'Cfa005493' => 'cfa', 'Cfa010312' => 'cfa', 'Cfa015648' => 'cfa', 'Ciclev10002793m.g' => 'ccl', 'Ciclev10003356m.g' => 'ccl', 'Ciclev10006141m.g' => 'ccl', 'Ciclev10016676m.g' => 'ccl', 'Ciclev10017081m.g' => 'ccl', 'Ciclev10029499m.g' => 'ccl', 'CiPaw.01G166300' => 'cil', 'CiPaw.06G145600' => 'cil', 'CiPaw.13G040100' => 'cil', 'CiPaw.13G135800' => 'cil', 'ClCG01G012230' => 'cla', 'ClCG05G009510' => 'cla', 'ClCG08G008270' => 'cla', 'COL.COLO4_11763' => 'col', 'COL.COLO4_19876' => 'col', 'COL.COLO4_21481' => 'col', 'Cpa.g.sc118.34' => 'cpa', 'Cpa.g.sc32.13' => 'cpa', 'Cpa.g.sc58.103' => 'cpa', 'Cre03.g183850' => 'cre', 'Cre06.g306350' => 'cre', 'Cre07.g334800' => 'cre', 'Cre12.g487900' => 'cre', 'Cre14.g626700' => 'cre', 'Cre16.g658400' => 'cre', 'Cre17.g700950' => 'cre', 'CsaV3_1G014830' => 'csa', 'CsaV3_3G013320' => 'csa', 'CsaV3_3G019210' => 'csa', 'CsaV3_3G019220' => 'csa', 'CsaV3_6G004230' => 'csa', 'CSS0003773' => 'camsi', 'CSS0004563' => 'camsi', 'CSS0013949' => 'camsi', 'CSS0025971' => 'camsi', 'CSS0028570' => 'camsi', 'CSS0033127' => 'camsi', 'CSS0036051' => 'camsi', 'CSS0040087' => 'camsi', 'CSS0043179' => 'camsi', 'DCAR_006161' => 'dca', 'DCAR_010351' => 'dca', 'DCAR_012197' => 'dca', 'DCAR_024162' => 'dca', 'Dinv01030' => 'din', 'Dinv10924' => 'din', 'Dinv11835' => 'din', 'Dinv22841' => 'din', 'Dinv42553' => 'din', 'Duzib052G0560' => 'dzi', 'Duzib132G0389' => 'dzi', 'Duzib150G1181' => 'dzi', 'Duzib168G0623' => 'dzi', 'Duzib170G1036' => 'dzi', 'Duzib212G0200' => 'dzi', 'Duzib248G0194' => 'dzi', 'ECA232G2193' => 'eca', 'ECA233G0302' => 'eca', 'ECA234G2813' => 'eca', 'ECA234G4866' => 'eca', 'ECA240G3932' => 'eca', 'ECA248G0385' => 'eca', 'EL10Ac2g04781' => 'bvu', 'EL10Ac3g06445' => 'bvu', 'EL10Ac7g15825' => 'bvu', 'EL10Ac8g18550' => 'bvu', 'Eucgr.B03849' => 'egr', 'Eucgr.I02744' => 'egr', 'Eucgr.J00264' => 'egr', 'Eucgr.J00493' => 'egr', 'FAN04G2181' => 'fan', 'FAN07G2666' => 'fan', 'FAN11G0024' => 'fan', 'FAN12G1105' => 'fan', 'FAN13G0302' => 'fan', 'FAN15G2781' => 'fan', 'FAN16G1274' => 'fan', 'FAN17G2988' => 'fan', 'FAN18G2621' => 'fan', 'FAN21G0013' => 'fan', 'FAN22G1211' => 'fan', 'FAN25G3626' => 'fan', 'FvH4_2g09491' => 'fve', 'FvH4_3g24910' => 'fve', 'FvH4_4g15630' => 'fve', 'FvH4_5g28820' => 'fve', 'Glyma.01G238000' => 'gma', 'Glyma.05G168400' => 'gma', 'Glyma.08G126800' => 'gma', 'Glyma.08G188500' => 'gma', 'Glyma.10G278900' => 'gma', 'Glyma.11G005700' => 'gma', 'Glyma.11G183300' => 'gma', 'Glyma.12G089200' => 'gma', 'Glyma.12G169400' => 'gma', 'Glyma.12G169500' => 'gma', 'Glyma.12G169600' => 'gma', 'Glyma.20G110800' => 'gma', 'Gohir.A03G192900' => 'ghi', 'Gohir.A03G193000' => 'ghi', 'Gohir.A05G080700' => 'ghi', 'Gohir.A09G216000' => 'ghi', 'Gohir.A12G027700' => 'ghi', 'Gohir.A13G036200' => 'ghi', 'Gohir.A13G222600' => 'ghi', 'Gohir.D02G213900' => 'ghi', 'Gohir.D02G214000' => 'ghi', 'Gohir.D05G083700' => 'ghi', 'Gohir.D05G083800' => 'ghi', 'Gohir.D05G083850' => 'ghi', 'Gohir.D08G015400' => 'ghi', 'Gohir.D09G218400' => 'ghi', 'Gohir.D12G027100' => 'ghi', 'Gohir.D13G034500' => 'ghi', 'Gohir.D13G227400' => 'ghi', 'Gorai.005G241800' => 'gra', 'Gorai.005G241900' => 'gra', 'Gorai.006G239400' => 'gra', 'Gorai.008G027600' => 'gra', 'Gorai.009G085400' => 'gra', 'Gorai.009G085500' => 'gra', 'Gorai.013G039000' => 'gra', 'Gorai.013G194800' => 'gra', 'Gorai.013G257900' => 'gra', 'GSVIVG01000982001' => 'vvi', 'GSVIVG01017981001' => 'vvi', 'HanXRQChr01g0024061' => 'han', 'HanXRQChr09g0247831' => 'han', 'HanXRQChr10g0294611' => 'han', 'HanXRQChr10g0294621' => 'han', 'HanXRQChr11g0346821' => 'han', 'HanXRQChr13g0397461' => 'han', 'HanXRQChr16g0513651' => 'han', 'HanXRQChr16g0513701' => 'han', 'Haze_00897' => 'cav', 'Haze_01745' => 'cav', 'Haze_02486' => 'cav', 'Haze_02487' => 'cav', 'Haze_23374' => 'cav', 'Hma1.2p1_0578F.1_g182520' => 'hma', 'Hma1.2p1_0602F.1_g187350' => 'hma', 'Hma1.2p1_0602F.1_g187360' => 'hma', 'Hma1.2p1_0874F.1_g231320' => 'hma', 'Hma1.2p1_1197F.1_g266210' => 'hma', 'Hma1.2p1_1197F.1_g266220' => 'hma', 'Hma1.2p1_2167F.1_g315895' => 'hma', 'Hma1.2p1_2190F.1_g316640' => 'hma', 'Hma1.2p1_3645F.1_g337153' => 'hma', 'HPP92_004907' => 'vpl', 'HPP92_012134' => 'vpl', 'HPP92_025136' => 'vpl', 'HPP92_026087' => 'vpl', 'Hund06782' => 'sun', 'Hund06784' => 'sun', 'Lalb_Chr01g0004861' => 'lal', 'Lalb_Chr02g0140591' => 'lal', 'Lalb_Chr02g0140611' => 'lal', 'Lalb_Chr03g0028101' => 'lal', 'Lalb_Chr07g0185791' => 'lal', 'Lalb_Chr12g0204491' => 'lal', 'Lalb_Chr13g0295671' => 'lal', 'Lalb_Chr19g0136461' => 'lal', 'Lalb_Chr21g0309191' => 'lal', 'Lj1g0028158' => 'lja', 'Lj1P236T38' => 'lonja', 'Lj2C32G2' => 'lonja', 'Lj2P944T8' => 'lonja', 'Lj2P963T15' => 'lonja', 'Lj3g0011788' => 'lja', 'Lj4g0025027' => 'lja', 'Lj5P255T36' => 'lonja', 'Lj6g0018866' => 'lja', 'Lj6P608T31' => 'lonja', 'LjContig00408g0008879' => 'lja', 'Lsat_1_v5_gn_5_105820' => 'lsa', 'Lsat_1_v5_gn_6_38800' => 'lsa', 'Lsat_1_v5_gn_7_67141' => 'lsa', 'Manes.04G003400' => 'mes', 'Manes.07G020000' => 'mes', 'Manes.07G020100' => 'mes', 'Manes.07G020150' => 'mes', 'Manes.10G061500' => 'mes', 'Manes.10G123200' => 'mes', 'Manes.11G161900' => 'mes', 'Manes.15G029300' => 'mes', 'Mapoly0071s0018' => 'mpo', 'Mapoly0082s0023' => 'mpo', 'Mapoly3477s0001' => 'mpo', 'MBI05_g31233_MAGBIO' => 'mbi', 'MBI09_g05946_MAGBIO' => 'mbi', 'MBI09_g05947_MAGBIO' => 'mbi', 'MBI17_g08346_MAGBIO' => 'mbi', 'MCO04G038' => 'mco', 'MCO09G370' => 'mco', 'MCO13G605' => 'mco', 'MD00G1075500' => 'mdo', 'MD03G1144300' => 'mdo', 'MD08G1236800' => 'mdo', 'MD13G1193300' => 'mdo', 'MD15G1428700' => 'mdo', 'Medtr1g112030' => 'mtr', 'Medtr1g112050' => 'mtr', 'Medtr2g006290' => 'mtr', 'Medtr2g086510' => 'mtr', 'Medtr4g053120' => 'mtr', 'Medtr5g006320' => 'mtr', 'Medtr8g088720' => 'mtr', 'MELO3C004712.2' => 'cme', 'MELO3C006533.2' => 'cme', 'MELO3C019438.2' => 'cme', 'MELO3C019440.2' => 'cme', 'MELO3C019441.2' => 'cme', 'MELO3C019895.2' => 'cme', 'Migut.B00811' => 'egut', 'Migut.D02447' => 'egut', 'Migut.F00875' => 'egut', 'Migut.N00186' => 'egut', 'Migut.N01051' => 'egut', 'Migut.N02491' => 'egut', 'Migut.O00784' => 'egut', 'MSTRG.12367' => 'ama', 'MSTRG.18756' => 'ama', 'MSTRG.21042' => 'ama', 'Nitab4.5_0000559g0040' => 'nta', 'Nitab4.5_0000667g0190' => 'nta', 'Nitab4.5_0000755g0160' => 'nta', 'Nitab4.5_0001216g0080' => 'nta', 'Nitab4.5_0004069g0040' => 'nta', 'Nitab4.5_0004129g0010' => 'nta', 'Nitab4.5_0005744g0030' => 'nta', 'Nitab4.5_0006996g0030' => 'nta', 'Nitab4.5_0008971g0040' => 'nta', 'Nitab4.5_0009769g0020' => 'nta', 'Nitab4.5_0009833g0010' => 'nta', 'Nitab4.5_0013140g0020' => 'nta', 'Nn003s41376' => 'nnu', 'Nn1g01857' => 'nnu', 'Nn1g03611' => 'nnu', 'Nn1g06853' => 'nnu', 'Nn3g18360' => 'nnu', 'Nn4g26328' => 'nnu', 'Nn5g27531' => 'nnu', 'Nn6g34899' => 'nnu', 'Nn7g36299' => 'nnu', 'Oeu021485.1' => 'oeu', 'Oeu022433.1' => 'oeu', 'Oeu032111.1' => 'oeu', 'Oeu051608.1' => 'oeu', 'Os01g0860601' => 'osa', 'Os03g0659200' => 'osa', 'Os03g0835900' => 'osa', 'Os04g0412200' => 'osa', 'Os05g0443500' => 'osa', 'Os07g0251500' => 'osa', 'Os08g0104600' => 'osa', 'Peaxi162Scf00003g00047' => 'pax', 'Peaxi162Scf00003g00052' => 'pax', 'Peaxi162Scf00003g00394' => 'pax', 'Peaxi162Scf00091g00621' => 'pax', 'Peaxi162Scf00152g00146' => 'pax', 'Peaxi162Scf00173g00025' => 'pax', 'Peaxi162Scf00195g00102' => 'pax', 'Peaxi162Scf00402g00013' => 'pax', 'Peaxi162Scf00519g00618' => 'pax', 'PGR004G2838' => 'pgr', 'PGR044G2275' => 'pgr', 'PGR102G1377' => 'pgr', 'PGR119G1245' => 'pgr', 'PGR142G4449' => 'pgr', 'PGSC0003DMG400004532' => 'stu', 'PGSC0003DMG400011950' => 'stu', 'PGSC0003DMG400023391' => 'stu', 'PGSC0003DMG400023985' => 'stu', 'PGSC0003DMG400026360' => 'stu', 'PGSC0003DMG400035711' => 'stu', 'PGSC0003DMG400037286' => 'stu', 'PGSC0003DMG402005881' => 'stu', 'Phvul.002G045400' => 'pvu', 'Phvul.006G216600' => 'pvu', 'Phvul.006G216700' => 'pvu', 'Phvul.006G216800' => 'pvu', 'Phvul.007G022500' => 'pvu', 'Phvul.011G094400' => 'pvu', 'Potri.001G470700' => 'ptr', 'Potri.003G015200' => 'ptr', 'Potri.004G202500' => 'ptr', 'Potri.004G218400' => 'ptr', 'Potri.008G020100' => 'ptr', 'Potri.008G153200' => 'ptr', 'Potri.009G163800' => 'ptr', 'Potri.010G087300' => 'ptr', 'Potri.010G239100' => 'ptr', 'Pp3c10_16100' => 'ppa', 'Pp3c10_16880' => 'ppa', 'Pp3c16_6230' => 'ppa', 'Pp3c17_18910' => 'ppa', 'Pp3c3_22119' => 'ppa', 'Pp3c3_22140' => 'ppa', 'Pp3c4_8159' => 'ppa', 'Pp3c4_8171' => 'ppa', 'Pp3c4_8330' => 'ppa', 'PRCOL_00004098' => 'pco', 'Prupe.1G013900' => 'ppe', 'Prupe.1G226300' => 'ppe', 'Prupe.1G573600' => 'ppe', 'Prupe.6G130100' => 'ppe', 'Psat3g090040' => 'psa', 'Psat4g210440' => 'psa', 'Psat6g231040' => 'psa', 'Psat6g231080' => 'psa', 'Psat7g063000' => 'psa', 'Psat7g188000' => 'psa', 'Psat7g188040' => 'psa', 'PSO017G0206' => 'pso', 'PSO170G0501' => 'pso', 'PSO170G6422' => 'pso', 'PSO210G7739' => 'pso', 'PSO339G1808' => 'pso', 'PSO339G6135' => 'pso', 'PSO384G0010' => 'pso', 'PSO384G0964' => 'pso', 'PSO761G0050' => 'pso', 'PSO782G4085' => 'pso', 'QL01p012264' => 'qlo', 'QL02p099491' => 'qlo', 'QL03p033868' => 'qlo', 'QL04p046678' => 'qlo', 'QL06p002448' => 'qlo', 'RcHm_v2.0_Chr4g0416181' => 'rch', 'RcHm_v2.0_Chr5g0044701' => 'rch', 'RcHm_v2.0_Chr6g0265781' => 'rch', 'RcHm_v2.0_Chr7g0221031' => 'rch', 'Rhsim04G0202000' => 'rsi', 'Rhsim11G0127300' => 'rsi', 'Rhsim13G0111800' => 'rsi', 'Sabra01G0165600' => 'sbr', 'Sabra03G0008300' => 'sbr', 'Sabra04G0136900' => 'sbr', 'Sabra08G0013400' => 'sbr', 'Sabra08G0116800' => 'sbr', 'Sabra09G0128000' => 'sbr', 'Sabra10G0055500' => 'sbr', 'Sabra10G0073300' => 'sbr', 'SalBow3G0385' => 'sbo', 'SalBow3G1119' => 'sbo', 'SalBow3G2005' => 'sbo', 'SalBow6G2563' => 'sbo', 'SalBow6G6386' => 'sbo', 'Sc06g0008800' => 'sci', 'Sc07g0004950' => 'sci', 'Sc09g0005340' => 'sci', 'Sc13g0004410' => 'sci', 'Sc21g0007090' => 'sci', 'Sed0009285' => 'sed', 'Sed0017583' => 'sed', 'Sed0019699' => 'sed', 'Sed0023107' => 'sed', 'SEGI_10916' => 'sgi', 'SEGI_16217' => 'sgi', 'SEGI_19466' => 'sgi', 'SEGI_41115' => 'sgi', 'SGA_v2.0_scaffold111G31534' => 'sas', 'SGA_v2.0_scaffold22G09864' => 'sas', 'SGA_v2.0_scaffold338G49219' => 'sas', 'SGA_v2.0_scaffold92G28298' => 'sas', 'SMO119G0064' => 'smo', 'SMO223G0038' => 'smo', 'SMO347G0584' => 'smo', 'SMO351G0010' => 'smo', 'SMO356G0404' => 'smo', 'Solyc01g103920.3' => 'sly', 'Solyc04g009710.2' => 'sly', 'Solyc05g055280.2' => 'sly', 'Solyc10g044520.3' => 'sly', 'Solyc10g075160.1' => 'sly', 'Solyc11g006910.3' => 'sly', 'Solyc11g068430.3' => 'sly', 'Sopen01g046310' => 'spe', 'Sopen03g001200' => 'spe', 'Sopen04g004830' => 'spe', 'Sopen05g033720' => 'spe', 'Sopen06g030740' => 'spe', 'Sopen10g013090' => 'spe', 'Sopen10g027630' => 'spe', 'Sopen10g027640' => 'spe', 'Sopen11g002820' => 'spe', 'Sopen11g027140' => 'spe', 'Sp1g09680' => 'spa', 'Sp2g03630' => 'spa', 'Sp4g10320' => 'spa', 'Sp6g33400' => 'spa', 'Sp7g13030' => 'spa', 'TAR365G0317' => 'tar', 'TAR376G0979' => 'tar', 'TAR623G1665' => 'tar', 'TAR633G2373' => 'tar', 'TAR636G1400' => 'tar', 'THA.LOC104800529' => 'tha', 'THA.LOC104808547' => 'tha', 'THA.LOC104809615' => 'tha', 'THA.LOC104815724' => 'tha', 'THA.LOC104818480' => 'tha', 'THA.LOC104819179' => 'tha', 'THA.LOC104822270' => 'tha', 'THA.LOC104826425' => 'tha', 'Thecc.02G089700' => 'tca', 'Thecc.04G232300' => 'tca', 'Thecc.09G283400' => 'tca', 'Thhalv10009020m.g' => 'esa', 'Thhalv10015506m.g' => 'esa', 'Thhalv10017364m.g' => 'esa', 'Thhalv10023742m.g' => 'esa', 'Thhalv10026483m.g' => 'esa', 'TPR.G17232' => 'tpr', 'TPR.G2133' => 'tpr', 'TPR.G2498' => 'tpr', 'TPR.G31942' => 'tpr', 'TPR.G37877' => 'tpr', 'TPR.G4571' => 'tpr', 'TWI14G1113' => 'twi', 'TWI15G0426' => 'twi', 'TWI31G1005' => 'twi', 'TWI38G0513' => 'twi', 'TWI38G1484' => 'twi', 'TWI73G1098' => 'twi', 'unitig_26.g10519' => 'ugi', 'unitig_736.g22395' => 'ugi', 'unitig_747.g21234' => 'ugi', 'unitig_747.g21942' => 'ugi', 'vmacro14351' => 'vma', 'VMungo0540G0082' => 'vmu', 'VMungo0540G0405' => 'vmu', 'VMungo0540G1486' => 'vmu', 'VMungo0540G1692' => 'vmu', 'VMungo0720G2473' => 'vmu', 'VMungo1127G1562' => 'vmu', 'VMungo1215G1918' => 'vmu', 'Zm00001eb052650' => 'zma', 'Zm00001eb063710' => 'zma', 'Zm00001eb083950' => 'zma', 'Zm00001eb174420' => 'zma', 'Zm00001eb260140' => 'zma', 'Zm00001eb260150' => 'zma', 'Zm00001eb260160' => 'zma', 'Zm00001eb348290' => 'zma', 'Zm00001eb366870' => 'zma', 'Zm00001eb421930' => 'zma' ), 'gf_id' => 'HOM05D001025', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001025' ), 'data_identifier' => 'HOM05D001025', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001025', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '592', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p22650' => 'bna', 'A01p29720' => 'bna', 'A03p26560' => 'bna', 'A03p68820' => 'bna', 'A04p20980' => 'bna', 'A06p07730' => 'bna', 'A07p18260' => 'bna', 'A08p33710' => 'bna', 'A09p16970' => 'bna', 'A10p27490' => 'bna', 'Aa31LG1G17300' => 'aar', 'Aa31LG1G3910' => 'aar', 'Aa31LG2G9630' => 'aar', 'Aa31LG5G8360' => 'aar', 'Aa31LG9G2410' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4699' => 'aag', 'Actinidia23512' => 'ach', 'Actinidia37080' => 'ach', 'Ah.01g020380' => 'amhyb', 'Ah.08g215710' => 'amhyb', 'Ah.09g225110' => 'amhyb', 'Ah.10g036680' => 'amhyb', 'AL1G21940' => 'aly', 'AL2G15540' => 'aly', 'AL4G21520' => 'aly', 'AL7G40960' => 'aly', 'Aqoxy2G01191' => 'aox', 'Aqoxy2G03393' => 'aox', 'Aqoxy4G02775' => 'aox', 'Aqoxy6G00058' => 'aox', 'arahy.Tifrunner.gnm1.ann1.9X74H2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CW3FX9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R485W7' => 'arhy', 'AT1G10960' => 'ath', 'AT1G60950' => 'ath', 'AT2G27510' => 'ath', 'AT4G14890' => 'ath', 'AT5G10000' => 'ath', 'ATR0665G624' => 'atr', 'ATR0697G138' => 'atr', 'ATR0776G046' => 'atr', 'ATR1134G135' => 'atr', 'Atru.chr12.1025' => 'acertr', 'Atru.chr3.3241' => 'acertr', 'Atru.chr4.2460' => 'acertr', 'AUR62007427' => 'cqu', 'AUR62010960' => 'cqu', 'AUR62012201' => 'cqu', 'AUR62021470' => 'cqu', 'AUR62022834' => 'cqu', 'AUR62033635' => 'cqu', 'AUR62036186' => 'cqu', 'BcaB01g03077' => 'bca', 'BcaB02g10093' => 'bca', 'BcaB04g20295' => 'bca', 'BcaB06g28147' => 'bca', 'BcaB07g31253' => 'bca', 'BcaC01g04946' => 'bca', 'BcaC02g10614' => 'bca', 'BcaC02g10885' => 'bca', 'BcaC04g19356' => 'bca', 'BcaC04g22297' => 'bca', 'BcaC05g24977' => 'bca', 'BcaC06g31823' => 'bca', 'BcaC07g38633' => 'bca', 'BcaC09g49353' => 'bca', 'BcaC09g50168' => 'bca', 'BcaNung00322' => 'bca', 'BcaNung04769' => 'bca', 'BolC1t02753H' => 'bol', 'BolC1t03721H' => 'bol', 'BolC3t15525H' => 'bol', 'BolC4t23903H' => 'bol', 'BolC4t24231H' => 'bol', 'BolC4t27209H' => 'bol', 'BolC5t29671H' => 'bol', 'BolC8t49044H' => 'bol', 'BolC9t54999H' => 'bol', 'BolC9t59517H' => 'bol', 'BraA01t02178Z' => 'bra', 'BraA01t03099Z' => 'bra', 'BraA03t11867Z' => 'bra', 'BraA04t17667Z' => 'bra', 'BraA07t29542Z' => 'bra', 'BraA08t35287Z' => 'bra', 'BraA09t37334Z' => 'bra', 'BraA10t44801Z' => 'bra', 'BraSC39t46181Z' => 'bra', 'C01p28240' => 'bna', 'C01p37530' => 'bna', 'C03p31820' => 'bna', 'C04p24080' => 'bna', 'C04p25790' => 'bna', 'C04p56770' => 'bna', 'C05p09310' => 'bna', 'C09p21010' => 'bna', 'C09p67560' => 'bna', 'CAN.G1324.7' => 'can', 'CAN.G1358.10' => 'can', 'CAN.G1550.2' => 'can', 'CAN.G186.56' => 'can', 'CAN.G1965.1' => 'can', 'CAN.G645.15' => 'can', 'CAN.G798.26' => 'can', 'CAN.G798.27' => 'can', 'CAN.G798.29' => 'can', 'CAN.G919.31' => 'can', 'CANSAT11G0133' => 'cansat', 'CANSAT11G1171' => 'cansat', 'CANSAT11G2056' => 'cansat', 'CANSAT56G1202' => 'cansat', 'CANSAT56G1514' => 'cansat', 'CANSAT78G0455' => 'cansat', 'CARHR011190' => 'chi', 'CARHR051980' => 'chi', 'CARHR120170' => 'chi', 'CARHR203310' => 'chi', 'CARHR221490' => 'chi', 'Carub.0001s1054' => 'cru', 'Carub.0002s0431' => 'cru', 'Carub.0004s0818' => 'cru', 'Carub.0006s0846' => 'cru', 'Carub.0007s2722' => 'cru', 'Ca_00058_v3' => 'car', 'Ca_17831_v3' => 'car', 'Ca_19408_v3' => 'car', 'Ca_24397_v3' => 'car', 'Ca_25664_v3' => 'car', 'CBR_g21818' => 'cbr', 'CBR_g31195' => 'cbr', 'CBR_g32282' => 'cbr', 'CBR_g39599' => 'cbr', 'CBR_g49410' => 'cbr', 'Cc01_g09120' => 'ccan', 'Cc01_g09130' => 'ccan', 'Cc02_g09630' => 'ccan', 'Cc02_g22810' => 'ccan', 'Cc03_g03810' => 'ccan', 'CDE02G3718' => 'cde', 'CDE04G3183' => 'cde', 'CDE07G1046' => 'cde', 'CDE08G0480' => 'cde', 'Cfa005493' => 'cfa', 'Cfa010312' => 'cfa', 'Cfa015648' => 'cfa', 'Ciclev10002793m.g' => 'ccl', 'Ciclev10003356m.g' => 'ccl', 'Ciclev10006141m.g' => 'ccl', 'Ciclev10016676m.g' => 'ccl', 'Ciclev10017081m.g' => 'ccl', 'Ciclev10029499m.g' => 'ccl', 'CiPaw.01G166300' => 'cil', 'CiPaw.06G145600' => 'cil', 'CiPaw.13G040100' => 'cil', 'CiPaw.13G135800' => 'cil', 'ClCG01G012230' => 'cla', 'ClCG05G009510' => 'cla', 'ClCG08G008270' => 'cla', 'COL.COLO4_11763' => 'col', 'COL.COLO4_19876' => 'col', 'COL.COLO4_21481' => 'col', 'Cpa.g.sc118.34' => 'cpa', 'Cpa.g.sc32.13' => 'cpa', 'Cpa.g.sc58.103' => 'cpa', 'Cre03.g183850' => 'cre', 'Cre06.g306350' => 'cre', 'Cre07.g334800' => 'cre', 'Cre12.g487900' => 'cre', 'Cre14.g626700' => 'cre', 'Cre16.g658400' => 'cre', 'Cre17.g700950' => 'cre', 'CsaV3_1G014830' => 'csa', 'CsaV3_3G013320' => 'csa', 'CsaV3_3G019210' => 'csa', 'CsaV3_3G019220' => 'csa', 'CsaV3_6G004230' => 'csa', 'CSS0003773' => 'camsi', 'CSS0004563' => 'camsi', 'CSS0013949' => 'camsi', 'CSS0025971' => 'camsi', 'CSS0028570' => 'camsi', 'CSS0033127' => 'camsi', 'CSS0036051' => 'camsi', 'CSS0040087' => 'camsi', 'CSS0043179' => 'camsi', 'DCAR_006161' => 'dca', 'DCAR_010351' => 'dca', 'DCAR_012197' => 'dca', 'DCAR_024162' => 'dca', 'Dinv01030' => 'din', 'Dinv10924' => 'din', 'Dinv11835' => 'din', 'Dinv22841' => 'din', 'Dinv42553' => 'din', 'Duzib052G0560' => 'dzi', 'Duzib132G0389' => 'dzi', 'Duzib150G1181' => 'dzi', 'Duzib168G0623' => 'dzi', 'Duzib170G1036' => 'dzi', 'Duzib212G0200' => 'dzi', 'Duzib248G0194' => 'dzi', 'ECA232G2193' => 'eca', 'ECA233G0302' => 'eca', 'ECA234G2813' => 'eca', 'ECA234G4866' => 'eca', 'ECA240G3932' => 'eca', 'ECA248G0385' => 'eca', 'EL10Ac2g04781' => 'bvu', 'EL10Ac3g06445' => 'bvu', 'EL10Ac7g15825' => 'bvu', 'EL10Ac8g18550' => 'bvu', 'Eucgr.B03849' => 'egr', 'Eucgr.I02744' => 'egr', 'Eucgr.J00264' => 'egr', 'Eucgr.J00493' => 'egr', 'FAN04G2181' => 'fan', 'FAN07G2666' => 'fan', 'FAN11G0024' => 'fan', 'FAN12G1105' => 'fan', 'FAN13G0302' => 'fan', 'FAN15G2781' => 'fan', 'FAN16G1274' => 'fan', 'FAN17G2988' => 'fan', 'FAN18G2621' => 'fan', 'FAN21G0013' => 'fan', 'FAN22G1211' => 'fan', 'FAN25G3626' => 'fan', 'FvH4_2g09491' => 'fve', 'FvH4_3g24910' => 'fve', 'FvH4_4g15630' => 'fve', 'FvH4_5g28820' => 'fve', 'Glyma.01G238000' => 'gma', 'Glyma.05G168400' => 'gma', 'Glyma.08G126800' => 'gma', 'Glyma.08G188500' => 'gma', 'Glyma.10G278900' => 'gma', 'Glyma.11G005700' => 'gma', 'Glyma.11G183300' => 'gma', 'Glyma.12G089200' => 'gma', 'Glyma.12G169400' => 'gma', 'Glyma.12G169500' => 'gma', 'Glyma.12G169600' => 'gma', 'Glyma.20G110800' => 'gma', 'Gohir.A03G192900' => 'ghi', 'Gohir.A03G193000' => 'ghi', 'Gohir.A05G080700' => 'ghi', 'Gohir.A09G216000' => 'ghi', 'Gohir.A12G027700' => 'ghi', 'Gohir.A13G036200' => 'ghi', 'Gohir.A13G222600' => 'ghi', 'Gohir.D02G213900' => 'ghi', 'Gohir.D02G214000' => 'ghi', 'Gohir.D05G083700' => 'ghi', 'Gohir.D05G083800' => 'ghi', 'Gohir.D05G083850' => 'ghi', 'Gohir.D08G015400' => 'ghi', 'Gohir.D09G218400' => 'ghi', 'Gohir.D12G027100' => 'ghi', 'Gohir.D13G034500' => 'ghi', 'Gohir.D13G227400' => 'ghi', 'Gorai.005G241800' => 'gra', 'Gorai.005G241900' => 'gra', 'Gorai.006G239400' => 'gra', 'Gorai.008G027600' => 'gra', 'Gorai.009G085400' => 'gra', 'Gorai.009G085500' => 'gra', 'Gorai.013G039000' => 'gra', 'Gorai.013G194800' => 'gra', 'Gorai.013G257900' => 'gra', 'GSVIVG01000982001' => 'vvi', 'GSVIVG01017981001' => 'vvi', 'HanXRQChr01g0024061' => 'han', 'HanXRQChr09g0247831' => 'han', 'HanXRQChr10g0294611' => 'han', 'HanXRQChr10g0294621' => 'han', 'HanXRQChr11g0346821' => 'han', 'HanXRQChr13g0397461' => 'han', 'HanXRQChr16g0513651' => 'han', 'HanXRQChr16g0513701' => 'han', 'Haze_00897' => 'cav', 'Haze_01745' => 'cav', 'Haze_02486' => 'cav', 'Haze_02487' => 'cav', 'Haze_23374' => 'cav', 'Hma1.2p1_0578F.1_g182520' => 'hma', 'Hma1.2p1_0602F.1_g187350' => 'hma', 'Hma1.2p1_0602F.1_g187360' => 'hma', 'Hma1.2p1_0874F.1_g231320' => 'hma', 'Hma1.2p1_1197F.1_g266210' => 'hma', 'Hma1.2p1_1197F.1_g266220' => 'hma', 'Hma1.2p1_2167F.1_g315895' => 'hma', 'Hma1.2p1_2190F.1_g316640' => 'hma', 'Hma1.2p1_3645F.1_g337153' => 'hma', 'HPP92_004907' => 'vpl', 'HPP92_012134' => 'vpl', 'HPP92_025136' => 'vpl', 'HPP92_026087' => 'vpl', 'Hund06782' => 'sun', 'Hund06784' => 'sun', 'Lalb_Chr01g0004861' => 'lal', 'Lalb_Chr02g0140591' => 'lal', 'Lalb_Chr02g0140611' => 'lal', 'Lalb_Chr03g0028101' => 'lal', 'Lalb_Chr07g0185791' => 'lal', 'Lalb_Chr12g0204491' => 'lal', 'Lalb_Chr13g0295671' => 'lal', 'Lalb_Chr19g0136461' => 'lal', 'Lalb_Chr21g0309191' => 'lal', 'Lj1g0028158' => 'lja', 'Lj1P236T38' => 'lonja', 'Lj2C32G2' => 'lonja', 'Lj2P944T8' => 'lonja', 'Lj2P963T15' => 'lonja', 'Lj3g0011788' => 'lja', 'Lj4g0025027' => 'lja', 'Lj5P255T36' => 'lonja', 'Lj6g0018866' => 'lja', 'Lj6P608T31' => 'lonja', 'LjContig00408g0008879' => 'lja', 'Lsat_1_v5_gn_5_105820' => 'lsa', 'Lsat_1_v5_gn_6_38800' => 'lsa', 'Lsat_1_v5_gn_7_67141' => 'lsa', 'Manes.04G003400' => 'mes', 'Manes.07G020000' => 'mes', 'Manes.07G020100' => 'mes', 'Manes.07G020150' => 'mes', 'Manes.10G061500' => 'mes', 'Manes.10G123200' => 'mes', 'Manes.11G161900' => 'mes', 'Manes.15G029300' => 'mes', 'Mapoly0071s0018' => 'mpo', 'Mapoly0082s0023' => 'mpo', 'Mapoly3477s0001' => 'mpo', 'MBI05_g31233_MAGBIO' => 'mbi', 'MBI09_g05946_MAGBIO' => 'mbi', 'MBI09_g05947_MAGBIO' => 'mbi', 'MBI17_g08346_MAGBIO' => 'mbi', 'MCO04G038' => 'mco', 'MCO09G370' => 'mco', 'MCO13G605' => 'mco', 'MD00G1075500' => 'mdo', 'MD03G1144300' => 'mdo', 'MD08G1236800' => 'mdo', 'MD13G1193300' => 'mdo', 'MD15G1428700' => 'mdo', 'Medtr1g112030' => 'mtr', 'Medtr1g112050' => 'mtr', 'Medtr2g006290' => 'mtr', 'Medtr2g086510' => 'mtr', 'Medtr4g053120' => 'mtr', 'Medtr5g006320' => 'mtr', 'Medtr8g088720' => 'mtr', 'MELO3C004712.2' => 'cme', 'MELO3C006533.2' => 'cme', 'MELO3C019438.2' => 'cme', 'MELO3C019440.2' => 'cme', 'MELO3C019441.2' => 'cme', 'MELO3C019895.2' => 'cme', 'Migut.B00811' => 'egut', 'Migut.D02447' => 'egut', 'Migut.F00875' => 'egut', 'Migut.N00186' => 'egut', 'Migut.N01051' => 'egut', 'Migut.N02491' => 'egut', 'Migut.O00784' => 'egut', 'MSTRG.12367' => 'ama', 'MSTRG.18756' => 'ama', 'MSTRG.21042' => 'ama', 'Nitab4.5_0000559g0040' => 'nta', 'Nitab4.5_0000667g0190' => 'nta', 'Nitab4.5_0000755g0160' => 'nta', 'Nitab4.5_0001216g0080' => 'nta', 'Nitab4.5_0004069g0040' => 'nta', 'Nitab4.5_0004129g0010' => 'nta', 'Nitab4.5_0005744g0030' => 'nta', 'Nitab4.5_0006996g0030' => 'nta', 'Nitab4.5_0008971g0040' => 'nta', 'Nitab4.5_0009769g0020' => 'nta', 'Nitab4.5_0009833g0010' => 'nta', 'Nitab4.5_0013140g0020' => 'nta', 'Nn003s41376' => 'nnu', 'Nn1g01857' => 'nnu', 'Nn1g03611' => 'nnu', 'Nn1g06853' => 'nnu', 'Nn3g18360' => 'nnu', 'Nn4g26328' => 'nnu', 'Nn5g27531' => 'nnu', 'Nn6g34899' => 'nnu', 'Nn7g36299' => 'nnu', 'Oeu021485.1' => 'oeu', 'Oeu022433.1' => 'oeu', 'Oeu032111.1' => 'oeu', 'Oeu051608.1' => 'oeu', 'Os01g0860601' => 'osa', 'Os03g0659200' => 'osa', 'Os03g0835900' => 'osa', 'Os04g0412200' => 'osa', 'Os05g0443500' => 'osa', 'Os07g0251500' => 'osa', 'Os08g0104600' => 'osa', 'Peaxi162Scf00003g00047' => 'pax', 'Peaxi162Scf00003g00052' => 'pax', 'Peaxi162Scf00003g00394' => 'pax', 'Peaxi162Scf00091g00621' => 'pax', 'Peaxi162Scf00152g00146' => 'pax', 'Peaxi162Scf00173g00025' => 'pax', 'Peaxi162Scf00195g00102' => 'pax', 'Peaxi162Scf00402g00013' => 'pax', 'Peaxi162Scf00519g00618' => 'pax', 'PGR004G2838' => 'pgr', 'PGR044G2275' => 'pgr', 'PGR102G1377' => 'pgr', 'PGR119G1245' => 'pgr', 'PGR142G4449' => 'pgr', 'PGSC0003DMG400004532' => 'stu', 'PGSC0003DMG400011950' => 'stu', 'PGSC0003DMG400023391' => 'stu', 'PGSC0003DMG400023985' => 'stu', 'PGSC0003DMG400026360' => 'stu', 'PGSC0003DMG400035711' => 'stu', 'PGSC0003DMG400037286' => 'stu', 'PGSC0003DMG402005881' => 'stu', 'Phvul.002G045400' => 'pvu', 'Phvul.006G216600' => 'pvu', 'Phvul.006G216700' => 'pvu', 'Phvul.006G216800' => 'pvu', 'Phvul.007G022500' => 'pvu', 'Phvul.011G094400' => 'pvu', 'Potri.001G470700' => 'ptr', 'Potri.003G015200' => 'ptr', 'Potri.004G202500' => 'ptr', 'Potri.004G218400' => 'ptr', 'Potri.008G020100' => 'ptr', 'Potri.008G153200' => 'ptr', 'Potri.009G163800' => 'ptr', 'Potri.010G087300' => 'ptr', 'Potri.010G239100' => 'ptr', 'Pp3c10_16100' => 'ppa', 'Pp3c10_16880' => 'ppa', 'Pp3c16_6230' => 'ppa', 'Pp3c17_18910' => 'ppa', 'Pp3c3_22119' => 'ppa', 'Pp3c3_22140' => 'ppa', 'Pp3c4_8159' => 'ppa', 'Pp3c4_8171' => 'ppa', 'Pp3c4_8330' => 'ppa', 'PRCOL_00004098' => 'pco', 'Prupe.1G013900' => 'ppe', 'Prupe.1G226300' => 'ppe', 'Prupe.1G573600' => 'ppe', 'Prupe.6G130100' => 'ppe', 'Psat3g090040' => 'psa', 'Psat4g210440' => 'psa', 'Psat6g231040' => 'psa', 'Psat6g231080' => 'psa', 'Psat7g063000' => 'psa', 'Psat7g188000' => 'psa', 'Psat7g188040' => 'psa', 'PSO017G0206' => 'pso', 'PSO170G0501' => 'pso', 'PSO170G6422' => 'pso', 'PSO210G7739' => 'pso', 'PSO339G1808' => 'pso', 'PSO339G6135' => 'pso', 'PSO384G0010' => 'pso', 'PSO384G0964' => 'pso', 'PSO761G0050' => 'pso', 'PSO782G4085' => 'pso', 'QL01p012264' => 'qlo', 'QL02p099491' => 'qlo', 'QL03p033868' => 'qlo', 'QL04p046678' => 'qlo', 'QL06p002448' => 'qlo', 'RcHm_v2.0_Chr4g0416181' => 'rch', 'RcHm_v2.0_Chr5g0044701' => 'rch', 'RcHm_v2.0_Chr6g0265781' => 'rch', 'RcHm_v2.0_Chr7g0221031' => 'rch', 'Rhsim04G0202000' => 'rsi', 'Rhsim11G0127300' => 'rsi', 'Rhsim13G0111800' => 'rsi', 'Sabra01G0165600' => 'sbr', 'Sabra03G0008300' => 'sbr', 'Sabra04G0136900' => 'sbr', 'Sabra08G0013400' => 'sbr', 'Sabra08G0116800' => 'sbr', 'Sabra09G0128000' => 'sbr', 'Sabra10G0055500' => 'sbr', 'Sabra10G0073300' => 'sbr', 'SalBow3G0385' => 'sbo', 'SalBow3G1119' => 'sbo', 'SalBow3G2005' => 'sbo', 'SalBow6G2563' => 'sbo', 'SalBow6G6386' => 'sbo', 'Sc06g0008800' => 'sci', 'Sc07g0004950' => 'sci', 'Sc09g0005340' => 'sci', 'Sc13g0004410' => 'sci', 'Sc21g0007090' => 'sci', 'Sed0009285' => 'sed', 'Sed0017583' => 'sed', 'Sed0019699' => 'sed', 'Sed0023107' => 'sed', 'SEGI_10916' => 'sgi', 'SEGI_16217' => 'sgi', 'SEGI_19466' => 'sgi', 'SEGI_41115' => 'sgi', 'SGA_v2.0_scaffold111G31534' => 'sas', 'SGA_v2.0_scaffold22G09864' => 'sas', 'SGA_v2.0_scaffold338G49219' => 'sas', 'SGA_v2.0_scaffold92G28298' => 'sas', 'SMO119G0064' => 'smo', 'SMO223G0038' => 'smo', 'SMO347G0584' => 'smo', 'SMO351G0010' => 'smo', 'SMO356G0404' => 'smo', 'Solyc01g103920.3' => 'sly', 'Solyc04g009710.2' => 'sly', 'Solyc05g055280.2' => 'sly', 'Solyc10g044520.3' => 'sly', 'Solyc10g075160.1' => 'sly', 'Solyc11g006910.3' => 'sly', 'Solyc11g068430.3' => 'sly', 'Sopen01g046310' => 'spe', 'Sopen03g001200' => 'spe', 'Sopen04g004830' => 'spe', 'Sopen05g033720' => 'spe', 'Sopen06g030740' => 'spe', 'Sopen10g013090' => 'spe', 'Sopen10g027630' => 'spe', 'Sopen10g027640' => 'spe', 'Sopen11g002820' => 'spe', 'Sopen11g027140' => 'spe', 'Sp1g09680' => 'spa', 'Sp2g03630' => 'spa', 'Sp4g10320' => 'spa', 'Sp6g33400' => 'spa', 'Sp7g13030' => 'spa', 'TAR365G0317' => 'tar', 'TAR376G0979' => 'tar', 'TAR623G1665' => 'tar', 'TAR633G2373' => 'tar', 'TAR636G1400' => 'tar', 'THA.LOC104800529' => 'tha', 'THA.LOC104808547' => 'tha', 'THA.LOC104809615' => 'tha', 'THA.LOC104815724' => 'tha', 'THA.LOC104818480' => 'tha', 'THA.LOC104819179' => 'tha', 'THA.LOC104822270' => 'tha', 'THA.LOC104826425' => 'tha', 'Thecc.02G089700' => 'tca', 'Thecc.04G232300' => 'tca', 'Thecc.09G283400' => 'tca', 'Thhalv10009020m.g' => 'esa', 'Thhalv10015506m.g' => 'esa', 'Thhalv10017364m.g' => 'esa', 'Thhalv10023742m.g' => 'esa', 'Thhalv10026483m.g' => 'esa', 'TPR.G17232' => 'tpr', 'TPR.G2133' => 'tpr', 'TPR.G2498' => 'tpr', 'TPR.G31942' => 'tpr', 'TPR.G37877' => 'tpr', 'TPR.G4571' => 'tpr', 'TWI14G1113' => 'twi', 'TWI15G0426' => 'twi', 'TWI31G1005' => 'twi', 'TWI38G0513' => 'twi', 'TWI38G1484' => 'twi', 'TWI73G1098' => 'twi', 'unitig_26.g10519' => 'ugi', 'unitig_736.g22395' => 'ugi', 'unitig_747.g21234' => 'ugi', 'unitig_747.g21942' => 'ugi', 'vmacro14351' => 'vma', 'VMungo0540G0082' => 'vmu', 'VMungo0540G0405' => 'vmu', 'VMungo0540G1486' => 'vmu', 'VMungo0540G1692' => 'vmu', 'VMungo0720G2473' => 'vmu', 'VMungo1127G1562' => 'vmu', 'VMungo1215G1918' => 'vmu', 'Zm00001eb052650' => 'zma', 'Zm00001eb063710' => 'zma', 'Zm00001eb083950' => 'zma', 'Zm00001eb174420' => 'zma', 'Zm00001eb260140' => 'zma', 'Zm00001eb260150' => 'zma', 'Zm00001eb260160' => 'zma', 'Zm00001eb348290' => 'zma', 'Zm00001eb366870' => 'zma', 'Zm00001eb421930' => 'zma' ) $gf_id = 'HOM05D001025' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001025' ) $data_identifier = 'HOM05D001025' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 19, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 2, 'amhyb' => (int) 4, 'aly' => (int) 4, 'aox' => (int) 4, 'arhy' => (int) 3, 'ath' => (int) 5, 'atr' => (int) 4, 'acertr' => (int) 3, 'cqu' => (int) 7, 'bca' => (int) 17, 'bol' => (int) 10, 'bra' => (int) 9, 'can' => (int) 10, 'cansat' => (int) 6, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 5, 'cbr' => (int) 5, 'ccan' => (int) 5, 'cde' => (int) 4, 'cfa' => (int) 3, 'ccl' => (int) 6, 'cil' => (int) 4, 'cla' => (int) 3, 'col' => (int) 3, 'cpa' => (int) 3, 'cre' => (int) 7, 'csa' => (int) 5, 'camsi' => (int) 9, 'dca' => (int) 4, 'din' => (int) 5, 'dzi' => (int) 7, 'eca' => (int) 6, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 12, 'fve' => (int) 4, 'gma' => (int) 12, 'ghi' => (int) 17, 'gra' => (int) 9, 'vvi' => (int) 2, 'han' => (int) 8, 'cav' => (int) 5, 'hma' => (int) 9, 'vpl' => (int) 4, 'sun' => (int) 2, 'lal' => (int) 9, 'lja' => (int) 5, 'lonja' => (int) 6, 'lsa' => (int) 3, 'mes' => (int) 8, 'mpo' => (int) 3, 'mbi' => (int) 4, 'mco' => (int) 3, 'mdo' => (int) 5, 'mtr' => (int) 7, 'cme' => (int) 6, 'egut' => (int) 7, 'ama' => (int) 3, 'nta' => (int) 12, 'nnu' => (int) 9, 'oeu' => (int) 4, 'osa' => (int) 7, 'pax' => (int) 9, 'pgr' => (int) 5, 'stu' => (int) 8, 'pvu' => (int) 6, 'ptr' => (int) 9, 'ppa' => (int) 9, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 7, 'pso' => (int) 10, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 3, 'sbr' => (int) 8, 'sbo' => (int) 5, 'sci' => (int) 5, 'sed' => (int) 4, 'sgi' => (int) 4, 'sas' => (int) 4, 'smo' => (int) 5, 'sly' => (int) 7, 'spe' => (int) 10, 'spa' => (int) 5, 'tar' => (int) 5, 'tha' => (int) 8, 'tca' => (int) 3, 'esa' => (int) 5, 'tpr' => (int) 6, 'twi' => (int) 6, 'ugi' => (int) 4, 'vma' => (int) 1, 'vmu' => (int) 7, 'zma' => (int) 10 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb421930' $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' => 'HOM05D001025', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '592', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p22650' => 'bna', 'A01p29720' => 'bna', 'A03p26560' => 'bna', 'A03p68820' => 'bna', 'A04p20980' => 'bna', 'A06p07730' => 'bna', 'A07p18260' => 'bna', 'A08p33710' => 'bna', 'A09p16970' => 'bna', 'A10p27490' => 'bna', 'Aa31LG1G17300' => 'aar', 'Aa31LG1G3910' => 'aar', 'Aa31LG2G9630' => 'aar', 'Aa31LG5G8360' => 'aar', 'Aa31LG9G2410' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4699' => 'aag', 'Actinidia23512' => 'ach', 'Actinidia37080' => 'ach', 'Ah.01g020380' => 'amhyb', 'Ah.08g215710' => 'amhyb', 'Ah.09g225110' => 'amhyb', 'Ah.10g036680' => 'amhyb', 'AL1G21940' => 'aly', 'AL2G15540' => 'aly', 'AL4G21520' => 'aly', 'AL7G40960' => 'aly', 'Aqoxy2G01191' => 'aox', 'Aqoxy2G03393' => 'aox', 'Aqoxy4G02775' => 'aox', 'Aqoxy6G00058' => 'aox', 'arahy.Tifrunner.gnm1.ann1.9X74H2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CW3FX9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R485W7' => 'arhy', 'AT1G10960' => 'ath', 'AT1G60950' => 'ath', 'AT2G27510' => 'ath', 'AT4G14890' => 'ath', 'AT5G10000' => 'ath', 'ATR0665G624' => 'atr', 'ATR0697G138' => 'atr', 'ATR0776G046' => 'atr', 'ATR1134G135' => 'atr', 'Atru.chr12.1025' => 'acertr', 'Atru.chr3.3241' => 'acertr', 'Atru.chr4.2460' => 'acertr', 'AUR62007427' => 'cqu', 'AUR62010960' => 'cqu', 'AUR62012201' => 'cqu', 'AUR62021470' => 'cqu', 'AUR62022834' => 'cqu', 'AUR62033635' => 'cqu', 'AUR62036186' => 'cqu', 'BcaB01g03077' => 'bca', 'BcaB02g10093' => 'bca', 'BcaB04g20295' => 'bca', 'BcaB06g28147' => 'bca', 'BcaB07g31253' => 'bca', 'BcaC01g04946' => 'bca', 'BcaC02g10614' => 'bca', 'BcaC02g10885' => 'bca', 'BcaC04g19356' => 'bca', 'BcaC04g22297' => 'bca', 'BcaC05g24977' => 'bca', 'BcaC06g31823' => 'bca', 'BcaC07g38633' => 'bca', 'BcaC09g49353' => 'bca', 'BcaC09g50168' => 'bca', 'BcaNung00322' => 'bca', 'BcaNung04769' => 'bca', 'BolC1t02753H' => 'bol', 'BolC1t03721H' => 'bol', 'BolC3t15525H' => 'bol', 'BolC4t23903H' => 'bol', 'BolC4t24231H' => 'bol', 'BolC4t27209H' => 'bol', 'BolC5t29671H' => 'bol', 'BolC8t49044H' => 'bol', 'BolC9t54999H' => 'bol', 'BolC9t59517H' => 'bol', 'BraA01t02178Z' => 'bra', 'BraA01t03099Z' => 'bra', 'BraA03t11867Z' => 'bra', 'BraA04t17667Z' => 'bra', 'BraA07t29542Z' => 'bra', 'BraA08t35287Z' => 'bra', 'BraA09t37334Z' => 'bra', 'BraA10t44801Z' => 'bra', 'BraSC39t46181Z' => 'bra', 'C01p28240' => 'bna', 'C01p37530' => 'bna', 'C03p31820' => 'bna', 'C04p24080' => 'bna', 'C04p25790' => 'bna', 'C04p56770' => 'bna', 'C05p09310' => 'bna', 'C09p21010' => 'bna', 'C09p67560' => 'bna', 'CAN.G1324.7' => 'can', 'CAN.G1358.10' => 'can', 'CAN.G1550.2' => 'can', 'CAN.G186.56' => 'can', 'CAN.G1965.1' => 'can', 'CAN.G645.15' => 'can', 'CAN.G798.26' => 'can', 'CAN.G798.27' => 'can', 'CAN.G798.29' => 'can', 'CAN.G919.31' => 'can', 'CANSAT11G0133' => 'cansat', 'CANSAT11G1171' => 'cansat', 'CANSAT11G2056' => 'cansat', 'CANSAT56G1202' => 'cansat', 'CANSAT56G1514' => 'cansat', 'CANSAT78G0455' => 'cansat', 'CARHR011190' => 'chi', 'CARHR051980' => 'chi', 'CARHR120170' => 'chi', 'CARHR203310' => 'chi', 'CARHR221490' => 'chi', 'Carub.0001s1054' => 'cru', 'Carub.0002s0431' => 'cru', 'Carub.0004s0818' => 'cru', 'Carub.0006s0846' => 'cru', 'Carub.0007s2722' => 'cru', 'Ca_00058_v3' => 'car', 'Ca_17831_v3' => 'car', 'Ca_19408_v3' => 'car', 'Ca_24397_v3' => 'car', 'Ca_25664_v3' => 'car', 'CBR_g21818' => 'cbr', 'CBR_g31195' => 'cbr', 'CBR_g32282' => 'cbr', 'CBR_g39599' => 'cbr', 'CBR_g49410' => 'cbr', 'Cc01_g09120' => 'ccan', 'Cc01_g09130' => 'ccan', 'Cc02_g09630' => 'ccan', 'Cc02_g22810' => 'ccan', 'Cc03_g03810' => 'ccan', 'CDE02G3718' => 'cde', 'CDE04G3183' => 'cde', 'CDE07G1046' => 'cde', 'CDE08G0480' => 'cde', 'Cfa005493' => 'cfa', 'Cfa010312' => 'cfa', 'Cfa015648' => 'cfa', 'Ciclev10002793m.g' => 'ccl', 'Ciclev10003356m.g' => 'ccl', 'Ciclev10006141m.g' => 'ccl', 'Ciclev10016676m.g' => 'ccl', 'Ciclev10017081m.g' => 'ccl', 'Ciclev10029499m.g' => 'ccl', 'CiPaw.01G166300' => 'cil', 'CiPaw.06G145600' => 'cil', 'CiPaw.13G040100' => 'cil', 'CiPaw.13G135800' => 'cil', 'ClCG01G012230' => 'cla', 'ClCG05G009510' => 'cla', 'ClCG08G008270' => 'cla', 'COL.COLO4_11763' => 'col', 'COL.COLO4_19876' => 'col', 'COL.COLO4_21481' => 'col', 'Cpa.g.sc118.34' => 'cpa', 'Cpa.g.sc32.13' => 'cpa', 'Cpa.g.sc58.103' => 'cpa', 'Cre03.g183850' => 'cre', 'Cre06.g306350' => 'cre', 'Cre07.g334800' => 'cre', 'Cre12.g487900' => 'cre', 'Cre14.g626700' => 'cre', 'Cre16.g658400' => 'cre', 'Cre17.g700950' => 'cre', 'CsaV3_1G014830' => 'csa', 'CsaV3_3G013320' => 'csa', 'CsaV3_3G019210' => 'csa', 'CsaV3_3G019220' => 'csa', 'CsaV3_6G004230' => 'csa', 'CSS0003773' => 'camsi', 'CSS0004563' => 'camsi', 'CSS0013949' => 'camsi', 'CSS0025971' => 'camsi', 'CSS0028570' => 'camsi', 'CSS0033127' => 'camsi', 'CSS0036051' => 'camsi', 'CSS0040087' => 'camsi', 'CSS0043179' => 'camsi', 'DCAR_006161' => 'dca', 'DCAR_010351' => 'dca', 'DCAR_012197' => 'dca', 'DCAR_024162' => 'dca', 'Dinv01030' => 'din', 'Dinv10924' => 'din', 'Dinv11835' => 'din', 'Dinv22841' => 'din', 'Dinv42553' => 'din', 'Duzib052G0560' => 'dzi', 'Duzib132G0389' => 'dzi', 'Duzib150G1181' => 'dzi', 'Duzib168G0623' => 'dzi', 'Duzib170G1036' => 'dzi', 'Duzib212G0200' => 'dzi', 'Duzib248G0194' => 'dzi', 'ECA232G2193' => 'eca', 'ECA233G0302' => 'eca', 'ECA234G2813' => 'eca', 'ECA234G4866' => 'eca', 'ECA240G3932' => 'eca', 'ECA248G0385' => 'eca', 'EL10Ac2g04781' => 'bvu', 'EL10Ac3g06445' => 'bvu', 'EL10Ac7g15825' => 'bvu', 'EL10Ac8g18550' => 'bvu', 'Eucgr.B03849' => 'egr', 'Eucgr.I02744' => 'egr', 'Eucgr.J00264' => 'egr', 'Eucgr.J00493' => 'egr', 'FAN04G2181' => 'fan', 'FAN07G2666' => 'fan', 'FAN11G0024' => 'fan', 'FAN12G1105' => 'fan', 'FAN13G0302' => 'fan', 'FAN15G2781' => 'fan', 'FAN16G1274' => 'fan', 'FAN17G2988' => 'fan', 'FAN18G2621' => 'fan', 'FAN21G0013' => 'fan', 'FAN22G1211' => 'fan', 'FAN25G3626' => 'fan', 'FvH4_2g09491' => 'fve', 'FvH4_3g24910' => 'fve', 'FvH4_4g15630' => 'fve', 'FvH4_5g28820' => 'fve', 'Glyma.01G238000' => 'gma', 'Glyma.05G168400' => 'gma', 'Glyma.08G126800' => 'gma', 'Glyma.08G188500' => 'gma', 'Glyma.10G278900' => 'gma', 'Glyma.11G005700' => 'gma', 'Glyma.11G183300' => 'gma', 'Glyma.12G089200' => 'gma', 'Glyma.12G169400' => 'gma', 'Glyma.12G169500' => 'gma', 'Glyma.12G169600' => 'gma', 'Glyma.20G110800' => 'gma', 'Gohir.A03G192900' => 'ghi', 'Gohir.A03G193000' => 'ghi', 'Gohir.A05G080700' => 'ghi', 'Gohir.A09G216000' => 'ghi', 'Gohir.A12G027700' => 'ghi', 'Gohir.A13G036200' => 'ghi', 'Gohir.A13G222600' => 'ghi', 'Gohir.D02G213900' => 'ghi', 'Gohir.D02G214000' => 'ghi', 'Gohir.D05G083700' => 'ghi', 'Gohir.D05G083800' => 'ghi', 'Gohir.D05G083850' => 'ghi', 'Gohir.D08G015400' => 'ghi', 'Gohir.D09G218400' => 'ghi', 'Gohir.D12G027100' => 'ghi', 'Gohir.D13G034500' => 'ghi', 'Gohir.D13G227400' => 'ghi', 'Gorai.005G241800' => 'gra', 'Gorai.005G241900' => 'gra', 'Gorai.006G239400' => 'gra', 'Gorai.008G027600' => 'gra', 'Gorai.009G085400' => 'gra', 'Gorai.009G085500' => 'gra', 'Gorai.013G039000' => 'gra', 'Gorai.013G194800' => 'gra', 'Gorai.013G257900' => 'gra', 'GSVIVG01000982001' => 'vvi', 'GSVIVG01017981001' => 'vvi', 'HanXRQChr01g0024061' => 'han', 'HanXRQChr09g0247831' => 'han', 'HanXRQChr10g0294611' => 'han', 'HanXRQChr10g0294621' => 'han', 'HanXRQChr11g0346821' => 'han', 'HanXRQChr13g0397461' => 'han', 'HanXRQChr16g0513651' => 'han', 'HanXRQChr16g0513701' => 'han', 'Haze_00897' => 'cav', 'Haze_01745' => 'cav', 'Haze_02486' => 'cav', 'Haze_02487' => 'cav', 'Haze_23374' => 'cav', 'Hma1.2p1_0578F.1_g182520' => 'hma', 'Hma1.2p1_0602F.1_g187350' => 'hma', 'Hma1.2p1_0602F.1_g187360' => 'hma', 'Hma1.2p1_0874F.1_g231320' => 'hma', 'Hma1.2p1_1197F.1_g266210' => 'hma', 'Hma1.2p1_1197F.1_g266220' => 'hma', 'Hma1.2p1_2167F.1_g315895' => 'hma', 'Hma1.2p1_2190F.1_g316640' => 'hma', 'Hma1.2p1_3645F.1_g337153' => 'hma', 'HPP92_004907' => 'vpl', 'HPP92_012134' => 'vpl', 'HPP92_025136' => 'vpl', 'HPP92_026087' => 'vpl', 'Hund06782' => 'sun', 'Hund06784' => 'sun', 'Lalb_Chr01g0004861' => 'lal', 'Lalb_Chr02g0140591' => 'lal', 'Lalb_Chr02g0140611' => 'lal', 'Lalb_Chr03g0028101' => 'lal', 'Lalb_Chr07g0185791' => 'lal', 'Lalb_Chr12g0204491' => 'lal', 'Lalb_Chr13g0295671' => 'lal', 'Lalb_Chr19g0136461' => 'lal', 'Lalb_Chr21g0309191' => 'lal', 'Lj1g0028158' => 'lja', 'Lj1P236T38' => 'lonja', 'Lj2C32G2' => 'lonja', 'Lj2P944T8' => 'lonja', 'Lj2P963T15' => 'lonja', 'Lj3g0011788' => 'lja', 'Lj4g0025027' => 'lja', 'Lj5P255T36' => 'lonja', 'Lj6g0018866' => 'lja', 'Lj6P608T31' => 'lonja', 'LjContig00408g0008879' => 'lja', 'Lsat_1_v5_gn_5_105820' => 'lsa', 'Lsat_1_v5_gn_6_38800' => 'lsa', 'Lsat_1_v5_gn_7_67141' => 'lsa', 'Manes.04G003400' => 'mes', 'Manes.07G020000' => 'mes', 'Manes.07G020100' => 'mes', 'Manes.07G020150' => 'mes', 'Manes.10G061500' => 'mes', 'Manes.10G123200' => 'mes', 'Manes.11G161900' => 'mes', 'Manes.15G029300' => 'mes', 'Mapoly0071s0018' => 'mpo', 'Mapoly0082s0023' => 'mpo', 'Mapoly3477s0001' => 'mpo', 'MBI05_g31233_MAGBIO' => 'mbi', 'MBI09_g05946_MAGBIO' => 'mbi', 'MBI09_g05947_MAGBIO' => 'mbi', 'MBI17_g08346_MAGBIO' => 'mbi', 'MCO04G038' => 'mco', 'MCO09G370' => 'mco', 'MCO13G605' => 'mco', 'MD00G1075500' => 'mdo', 'MD03G1144300' => 'mdo', 'MD08G1236800' => 'mdo', 'MD13G1193300' => 'mdo', 'MD15G1428700' => 'mdo', 'Medtr1g112030' => 'mtr', 'Medtr1g112050' => 'mtr', 'Medtr2g006290' => 'mtr', 'Medtr2g086510' => 'mtr', 'Medtr4g053120' => 'mtr', 'Medtr5g006320' => 'mtr', 'Medtr8g088720' => 'mtr', 'MELO3C004712.2' => 'cme', 'MELO3C006533.2' => 'cme', 'MELO3C019438.2' => 'cme', 'MELO3C019440.2' => 'cme', 'MELO3C019441.2' => 'cme', 'MELO3C019895.2' => 'cme', 'Migut.B00811' => 'egut', 'Migut.D02447' => 'egut', 'Migut.F00875' => 'egut', 'Migut.N00186' => 'egut', 'Migut.N01051' => 'egut', 'Migut.N02491' => 'egut', 'Migut.O00784' => 'egut', 'MSTRG.12367' => 'ama', 'MSTRG.18756' => 'ama', 'MSTRG.21042' => 'ama', 'Nitab4.5_0000559g0040' => 'nta', 'Nitab4.5_0000667g0190' => 'nta', 'Nitab4.5_0000755g0160' => 'nta', 'Nitab4.5_0001216g0080' => 'nta', 'Nitab4.5_0004069g0040' => 'nta', 'Nitab4.5_0004129g0010' => 'nta', 'Nitab4.5_0005744g0030' => 'nta', 'Nitab4.5_0006996g0030' => 'nta', 'Nitab4.5_0008971g0040' => 'nta', 'Nitab4.5_0009769g0020' => 'nta', 'Nitab4.5_0009833g0010' => 'nta', 'Nitab4.5_0013140g0020' => 'nta', 'Nn003s41376' => 'nnu', 'Nn1g01857' => 'nnu', 'Nn1g03611' => 'nnu', 'Nn1g06853' => 'nnu', 'Nn3g18360' => 'nnu', 'Nn4g26328' => 'nnu', 'Nn5g27531' => 'nnu', 'Nn6g34899' => 'nnu', 'Nn7g36299' => 'nnu', 'Oeu021485.1' => 'oeu', 'Oeu022433.1' => 'oeu', 'Oeu032111.1' => 'oeu', 'Oeu051608.1' => 'oeu', 'Os01g0860601' => 'osa', 'Os03g0659200' => 'osa', 'Os03g0835900' => 'osa', 'Os04g0412200' => 'osa', 'Os05g0443500' => 'osa', 'Os07g0251500' => 'osa', 'Os08g0104600' => 'osa', 'Peaxi162Scf00003g00047' => 'pax', 'Peaxi162Scf00003g00052' => 'pax', 'Peaxi162Scf00003g00394' => 'pax', 'Peaxi162Scf00091g00621' => 'pax', 'Peaxi162Scf00152g00146' => 'pax', 'Peaxi162Scf00173g00025' => 'pax', 'Peaxi162Scf00195g00102' => 'pax', 'Peaxi162Scf00402g00013' => 'pax', 'Peaxi162Scf00519g00618' => 'pax', 'PGR004G2838' => 'pgr', 'PGR044G2275' => 'pgr', 'PGR102G1377' => 'pgr', 'PGR119G1245' => 'pgr', 'PGR142G4449' => 'pgr', 'PGSC0003DMG400004532' => 'stu', 'PGSC0003DMG400011950' => 'stu', 'PGSC0003DMG400023391' => 'stu', 'PGSC0003DMG400023985' => 'stu', 'PGSC0003DMG400026360' => 'stu', 'PGSC0003DMG400035711' => 'stu', 'PGSC0003DMG400037286' => 'stu', 'PGSC0003DMG402005881' => 'stu', 'Phvul.002G045400' => 'pvu', 'Phvul.006G216600' => 'pvu', 'Phvul.006G216700' => 'pvu', 'Phvul.006G216800' => 'pvu', 'Phvul.007G022500' => 'pvu', 'Phvul.011G094400' => 'pvu', 'Potri.001G470700' => 'ptr', 'Potri.003G015200' => 'ptr', 'Potri.004G202500' => 'ptr', 'Potri.004G218400' => 'ptr', 'Potri.008G020100' => 'ptr', 'Potri.008G153200' => 'ptr', 'Potri.009G163800' => 'ptr', 'Potri.010G087300' => 'ptr', 'Potri.010G239100' => 'ptr', 'Pp3c10_16100' => 'ppa', 'Pp3c10_16880' => 'ppa', 'Pp3c16_6230' => 'ppa', 'Pp3c17_18910' => 'ppa', 'Pp3c3_22119' => 'ppa', 'Pp3c3_22140' => 'ppa', 'Pp3c4_8159' => 'ppa', 'Pp3c4_8171' => 'ppa', 'Pp3c4_8330' => 'ppa', 'PRCOL_00004098' => 'pco', 'Prupe.1G013900' => 'ppe', 'Prupe.1G226300' => 'ppe', 'Prupe.1G573600' => 'ppe', 'Prupe.6G130100' => 'ppe', 'Psat3g090040' => 'psa', 'Psat4g210440' => 'psa', 'Psat6g231040' => 'psa', 'Psat6g231080' => 'psa', 'Psat7g063000' => 'psa', 'Psat7g188000' => 'psa', 'Psat7g188040' => 'psa', 'PSO017G0206' => 'pso', 'PSO170G0501' => 'pso', 'PSO170G6422' => 'pso', 'PSO210G7739' => 'pso', 'PSO339G1808' => 'pso', 'PSO339G6135' => 'pso', 'PSO384G0010' => 'pso', 'PSO384G0964' => 'pso', 'PSO761G0050' => 'pso', 'PSO782G4085' => 'pso', 'QL01p012264' => 'qlo', 'QL02p099491' => 'qlo', 'QL03p033868' => 'qlo', 'QL04p046678' => 'qlo', 'QL06p002448' => 'qlo', 'RcHm_v2.0_Chr4g0416181' => 'rch', 'RcHm_v2.0_Chr5g0044701' => 'rch', 'RcHm_v2.0_Chr6g0265781' => 'rch', 'RcHm_v2.0_Chr7g0221031' => 'rch', 'Rhsim04G0202000' => 'rsi', 'Rhsim11G0127300' => 'rsi', 'Rhsim13G0111800' => 'rsi', 'Sabra01G0165600' => 'sbr', 'Sabra03G0008300' => 'sbr', 'Sabra04G0136900' => 'sbr', 'Sabra08G0013400' => 'sbr', 'Sabra08G0116800' => 'sbr', 'Sabra09G0128000' => 'sbr', 'Sabra10G0055500' => 'sbr', 'Sabra10G0073300' => 'sbr', 'SalBow3G0385' => 'sbo', 'SalBow3G1119' => 'sbo', 'SalBow3G2005' => 'sbo', 'SalBow6G2563' => 'sbo', 'SalBow6G6386' => 'sbo', 'Sc06g0008800' => 'sci', 'Sc07g0004950' => 'sci', 'Sc09g0005340' => 'sci', 'Sc13g0004410' => 'sci', 'Sc21g0007090' => 'sci', 'Sed0009285' => 'sed', 'Sed0017583' => 'sed', 'Sed0019699' => 'sed', 'Sed0023107' => 'sed', 'SEGI_10916' => 'sgi', 'SEGI_16217' => 'sgi', 'SEGI_19466' => 'sgi', 'SEGI_41115' => 'sgi', 'SGA_v2.0_scaffold111G31534' => 'sas', 'SGA_v2.0_scaffold22G09864' => 'sas', 'SGA_v2.0_scaffold338G49219' => 'sas', 'SGA_v2.0_scaffold92G28298' => 'sas', 'SMO119G0064' => 'smo', 'SMO223G0038' => 'smo', 'SMO347G0584' => 'smo', 'SMO351G0010' => 'smo', 'SMO356G0404' => 'smo', 'Solyc01g103920.3' => 'sly', 'Solyc04g009710.2' => 'sly', 'Solyc05g055280.2' => 'sly', 'Solyc10g044520.3' => 'sly', 'Solyc10g075160.1' => 'sly', 'Solyc11g006910.3' => 'sly', 'Solyc11g068430.3' => 'sly', 'Sopen01g046310' => 'spe', 'Sopen03g001200' => 'spe', 'Sopen04g004830' => 'spe', 'Sopen05g033720' => 'spe', 'Sopen06g030740' => 'spe', 'Sopen10g013090' => 'spe', 'Sopen10g027630' => 'spe', 'Sopen10g027640' => 'spe', 'Sopen11g002820' => 'spe', 'Sopen11g027140' => 'spe', 'Sp1g09680' => 'spa', 'Sp2g03630' => 'spa', 'Sp4g10320' => 'spa', 'Sp6g33400' => 'spa', 'Sp7g13030' => 'spa', 'TAR365G0317' => 'tar', 'TAR376G0979' => 'tar', 'TAR623G1665' => 'tar', 'TAR633G2373' => 'tar', 'TAR636G1400' => 'tar', 'THA.LOC104800529' => 'tha', 'THA.LOC104808547' => 'tha', 'THA.LOC104809615' => 'tha', 'THA.LOC104815724' => 'tha', 'THA.LOC104818480' => 'tha', 'THA.LOC104819179' => 'tha', 'THA.LOC104822270' => 'tha', 'THA.LOC104826425' => 'tha', 'Thecc.02G089700' => 'tca', 'Thecc.04G232300' => 'tca', 'Thecc.09G283400' => 'tca', 'Thhalv10009020m.g' => 'esa', 'Thhalv10015506m.g' => 'esa', 'Thhalv10017364m.g' => 'esa', 'Thhalv10023742m.g' => 'esa', 'Thhalv10026483m.g' => 'esa', 'TPR.G17232' => 'tpr', 'TPR.G2133' => 'tpr', 'TPR.G2498' => 'tpr', 'TPR.G31942' => 'tpr', 'TPR.G37877' => 'tpr', 'TPR.G4571' => 'tpr', 'TWI14G1113' => 'twi', 'TWI15G0426' => 'twi', 'TWI31G1005' => 'twi', 'TWI38G0513' => 'twi', 'TWI38G1484' => 'twi', 'TWI73G1098' => 'twi', 'unitig_26.g10519' => 'ugi', 'unitig_736.g22395' => 'ugi', 'unitig_747.g21234' => 'ugi', 'unitig_747.g21942' => 'ugi', 'vmacro14351' => 'vma', 'VMungo0540G0082' => 'vmu', 'VMungo0540G0405' => 'vmu', 'VMungo0540G1486' => 'vmu', 'VMungo0540G1692' => 'vmu', 'VMungo0720G2473' => 'vmu', 'VMungo1127G1562' => 'vmu', 'VMungo1215G1918' => 'vmu', 'Zm00001eb052650' => 'zma', 'Zm00001eb063710' => 'zma', 'Zm00001eb083950' => 'zma', 'Zm00001eb174420' => 'zma', 'Zm00001eb260140' => 'zma', 'Zm00001eb260150' => 'zma', 'Zm00001eb260160' => 'zma', 'Zm00001eb348290' => 'zma', 'Zm00001eb366870' => 'zma', 'Zm00001eb421930' => 'zma' ), 'gf_id' => 'HOM05D001025', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001025' ), 'data_identifier' => 'HOM05D001025', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001025', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '592', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p22650' => 'bna', 'A01p29720' => 'bna', 'A03p26560' => 'bna', 'A03p68820' => 'bna', 'A04p20980' => 'bna', 'A06p07730' => 'bna', 'A07p18260' => 'bna', 'A08p33710' => 'bna', 'A09p16970' => 'bna', 'A10p27490' => 'bna', 'Aa31LG1G17300' => 'aar', 'Aa31LG1G3910' => 'aar', 'Aa31LG2G9630' => 'aar', 'Aa31LG5G8360' => 'aar', 'Aa31LG9G2410' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4699' => 'aag', 'Actinidia23512' => 'ach', 'Actinidia37080' => 'ach', 'Ah.01g020380' => 'amhyb', 'Ah.08g215710' => 'amhyb', 'Ah.09g225110' => 'amhyb', 'Ah.10g036680' => 'amhyb', 'AL1G21940' => 'aly', 'AL2G15540' => 'aly', 'AL4G21520' => 'aly', 'AL7G40960' => 'aly', 'Aqoxy2G01191' => 'aox', 'Aqoxy2G03393' => 'aox', 'Aqoxy4G02775' => 'aox', 'Aqoxy6G00058' => 'aox', 'arahy.Tifrunner.gnm1.ann1.9X74H2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CW3FX9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R485W7' => 'arhy', 'AT1G10960' => 'ath', 'AT1G60950' => 'ath', 'AT2G27510' => 'ath', 'AT4G14890' => 'ath', 'AT5G10000' => 'ath', 'ATR0665G624' => 'atr', 'ATR0697G138' => 'atr', 'ATR0776G046' => 'atr', 'ATR1134G135' => 'atr', 'Atru.chr12.1025' => 'acertr', 'Atru.chr3.3241' => 'acertr', 'Atru.chr4.2460' => 'acertr', 'AUR62007427' => 'cqu', 'AUR62010960' => 'cqu', 'AUR62012201' => 'cqu', 'AUR62021470' => 'cqu', 'AUR62022834' => 'cqu', 'AUR62033635' => 'cqu', 'AUR62036186' => 'cqu', 'BcaB01g03077' => 'bca', 'BcaB02g10093' => 'bca', 'BcaB04g20295' => 'bca', 'BcaB06g28147' => 'bca', 'BcaB07g31253' => 'bca', 'BcaC01g04946' => 'bca', 'BcaC02g10614' => 'bca', 'BcaC02g10885' => 'bca', 'BcaC04g19356' => 'bca', 'BcaC04g22297' => 'bca', 'BcaC05g24977' => 'bca', 'BcaC06g31823' => 'bca', 'BcaC07g38633' => 'bca', 'BcaC09g49353' => 'bca', 'BcaC09g50168' => 'bca', 'BcaNung00322' => 'bca', 'BcaNung04769' => 'bca', 'BolC1t02753H' => 'bol', 'BolC1t03721H' => 'bol', 'BolC3t15525H' => 'bol', 'BolC4t23903H' => 'bol', 'BolC4t24231H' => 'bol', 'BolC4t27209H' => 'bol', 'BolC5t29671H' => 'bol', 'BolC8t49044H' => 'bol', 'BolC9t54999H' => 'bol', 'BolC9t59517H' => 'bol', 'BraA01t02178Z' => 'bra', 'BraA01t03099Z' => 'bra', 'BraA03t11867Z' => 'bra', 'BraA04t17667Z' => 'bra', 'BraA07t29542Z' => 'bra', 'BraA08t35287Z' => 'bra', 'BraA09t37334Z' => 'bra', 'BraA10t44801Z' => 'bra', 'BraSC39t46181Z' => 'bra', 'C01p28240' => 'bna', 'C01p37530' => 'bna', 'C03p31820' => 'bna', 'C04p24080' => 'bna', 'C04p25790' => 'bna', 'C04p56770' => 'bna', 'C05p09310' => 'bna', 'C09p21010' => 'bna', 'C09p67560' => 'bna', 'CAN.G1324.7' => 'can', 'CAN.G1358.10' => 'can', 'CAN.G1550.2' => 'can', 'CAN.G186.56' => 'can', 'CAN.G1965.1' => 'can', 'CAN.G645.15' => 'can', 'CAN.G798.26' => 'can', 'CAN.G798.27' => 'can', 'CAN.G798.29' => 'can', 'CAN.G919.31' => 'can', 'CANSAT11G0133' => 'cansat', 'CANSAT11G1171' => 'cansat', 'CANSAT11G2056' => 'cansat', 'CANSAT56G1202' => 'cansat', 'CANSAT56G1514' => 'cansat', 'CANSAT78G0455' => 'cansat', 'CARHR011190' => 'chi', 'CARHR051980' => 'chi', 'CARHR120170' => 'chi', 'CARHR203310' => 'chi', 'CARHR221490' => 'chi', 'Carub.0001s1054' => 'cru', 'Carub.0002s0431' => 'cru', 'Carub.0004s0818' => 'cru', 'Carub.0006s0846' => 'cru', 'Carub.0007s2722' => 'cru', 'Ca_00058_v3' => 'car', 'Ca_17831_v3' => 'car', 'Ca_19408_v3' => 'car', 'Ca_24397_v3' => 'car', 'Ca_25664_v3' => 'car', 'CBR_g21818' => 'cbr', 'CBR_g31195' => 'cbr', 'CBR_g32282' => 'cbr', 'CBR_g39599' => 'cbr', 'CBR_g49410' => 'cbr', 'Cc01_g09120' => 'ccan', 'Cc01_g09130' => 'ccan', 'Cc02_g09630' => 'ccan', 'Cc02_g22810' => 'ccan', 'Cc03_g03810' => 'ccan', 'CDE02G3718' => 'cde', 'CDE04G3183' => 'cde', 'CDE07G1046' => 'cde', 'CDE08G0480' => 'cde', 'Cfa005493' => 'cfa', 'Cfa010312' => 'cfa', 'Cfa015648' => 'cfa', 'Ciclev10002793m.g' => 'ccl', 'Ciclev10003356m.g' => 'ccl', 'Ciclev10006141m.g' => 'ccl', 'Ciclev10016676m.g' => 'ccl', 'Ciclev10017081m.g' => 'ccl', 'Ciclev10029499m.g' => 'ccl', 'CiPaw.01G166300' => 'cil', 'CiPaw.06G145600' => 'cil', 'CiPaw.13G040100' => 'cil', 'CiPaw.13G135800' => 'cil', 'ClCG01G012230' => 'cla', 'ClCG05G009510' => 'cla', 'ClCG08G008270' => 'cla', 'COL.COLO4_11763' => 'col', 'COL.COLO4_19876' => 'col', 'COL.COLO4_21481' => 'col', 'Cpa.g.sc118.34' => 'cpa', 'Cpa.g.sc32.13' => 'cpa', 'Cpa.g.sc58.103' => 'cpa', 'Cre03.g183850' => 'cre', 'Cre06.g306350' => 'cre', 'Cre07.g334800' => 'cre', 'Cre12.g487900' => 'cre', 'Cre14.g626700' => 'cre', 'Cre16.g658400' => 'cre', 'Cre17.g700950' => 'cre', 'CsaV3_1G014830' => 'csa', 'CsaV3_3G013320' => 'csa', 'CsaV3_3G019210' => 'csa', 'CsaV3_3G019220' => 'csa', 'CsaV3_6G004230' => 'csa', 'CSS0003773' => 'camsi', 'CSS0004563' => 'camsi', 'CSS0013949' => 'camsi', 'CSS0025971' => 'camsi', 'CSS0028570' => 'camsi', 'CSS0033127' => 'camsi', 'CSS0036051' => 'camsi', 'CSS0040087' => 'camsi', 'CSS0043179' => 'camsi', 'DCAR_006161' => 'dca', 'DCAR_010351' => 'dca', 'DCAR_012197' => 'dca', 'DCAR_024162' => 'dca', 'Dinv01030' => 'din', 'Dinv10924' => 'din', 'Dinv11835' => 'din', 'Dinv22841' => 'din', 'Dinv42553' => 'din', 'Duzib052G0560' => 'dzi', 'Duzib132G0389' => 'dzi', 'Duzib150G1181' => 'dzi', 'Duzib168G0623' => 'dzi', 'Duzib170G1036' => 'dzi', 'Duzib212G0200' => 'dzi', 'Duzib248G0194' => 'dzi', 'ECA232G2193' => 'eca', 'ECA233G0302' => 'eca', 'ECA234G2813' => 'eca', 'ECA234G4866' => 'eca', 'ECA240G3932' => 'eca', 'ECA248G0385' => 'eca', 'EL10Ac2g04781' => 'bvu', 'EL10Ac3g06445' => 'bvu', 'EL10Ac7g15825' => 'bvu', 'EL10Ac8g18550' => 'bvu', 'Eucgr.B03849' => 'egr', 'Eucgr.I02744' => 'egr', 'Eucgr.J00264' => 'egr', 'Eucgr.J00493' => 'egr', 'FAN04G2181' => 'fan', 'FAN07G2666' => 'fan', 'FAN11G0024' => 'fan', 'FAN12G1105' => 'fan', 'FAN13G0302' => 'fan', 'FAN15G2781' => 'fan', 'FAN16G1274' => 'fan', 'FAN17G2988' => 'fan', 'FAN18G2621' => 'fan', 'FAN21G0013' => 'fan', 'FAN22G1211' => 'fan', 'FAN25G3626' => 'fan', 'FvH4_2g09491' => 'fve', 'FvH4_3g24910' => 'fve', 'FvH4_4g15630' => 'fve', 'FvH4_5g28820' => 'fve', 'Glyma.01G238000' => 'gma', 'Glyma.05G168400' => 'gma', 'Glyma.08G126800' => 'gma', 'Glyma.08G188500' => 'gma', 'Glyma.10G278900' => 'gma', 'Glyma.11G005700' => 'gma', 'Glyma.11G183300' => 'gma', 'Glyma.12G089200' => 'gma', 'Glyma.12G169400' => 'gma', 'Glyma.12G169500' => 'gma', 'Glyma.12G169600' => 'gma', 'Glyma.20G110800' => 'gma', 'Gohir.A03G192900' => 'ghi', 'Gohir.A03G193000' => 'ghi', 'Gohir.A05G080700' => 'ghi', 'Gohir.A09G216000' => 'ghi', 'Gohir.A12G027700' => 'ghi', 'Gohir.A13G036200' => 'ghi', 'Gohir.A13G222600' => 'ghi', 'Gohir.D02G213900' => 'ghi', 'Gohir.D02G214000' => 'ghi', 'Gohir.D05G083700' => 'ghi', 'Gohir.D05G083800' => 'ghi', 'Gohir.D05G083850' => 'ghi', 'Gohir.D08G015400' => 'ghi', 'Gohir.D09G218400' => 'ghi', 'Gohir.D12G027100' => 'ghi', 'Gohir.D13G034500' => 'ghi', 'Gohir.D13G227400' => 'ghi', 'Gorai.005G241800' => 'gra', 'Gorai.005G241900' => 'gra', 'Gorai.006G239400' => 'gra', 'Gorai.008G027600' => 'gra', 'Gorai.009G085400' => 'gra', 'Gorai.009G085500' => 'gra', 'Gorai.013G039000' => 'gra', 'Gorai.013G194800' => 'gra', 'Gorai.013G257900' => 'gra', 'GSVIVG01000982001' => 'vvi', 'GSVIVG01017981001' => 'vvi', 'HanXRQChr01g0024061' => 'han', 'HanXRQChr09g0247831' => 'han', 'HanXRQChr10g0294611' => 'han', 'HanXRQChr10g0294621' => 'han', 'HanXRQChr11g0346821' => 'han', 'HanXRQChr13g0397461' => 'han', 'HanXRQChr16g0513651' => 'han', 'HanXRQChr16g0513701' => 'han', 'Haze_00897' => 'cav', 'Haze_01745' => 'cav', 'Haze_02486' => 'cav', 'Haze_02487' => 'cav', 'Haze_23374' => 'cav', 'Hma1.2p1_0578F.1_g182520' => 'hma', 'Hma1.2p1_0602F.1_g187350' => 'hma', 'Hma1.2p1_0602F.1_g187360' => 'hma', 'Hma1.2p1_0874F.1_g231320' => 'hma', 'Hma1.2p1_1197F.1_g266210' => 'hma', 'Hma1.2p1_1197F.1_g266220' => 'hma', 'Hma1.2p1_2167F.1_g315895' => 'hma', 'Hma1.2p1_2190F.1_g316640' => 'hma', 'Hma1.2p1_3645F.1_g337153' => 'hma', 'HPP92_004907' => 'vpl', 'HPP92_012134' => 'vpl', 'HPP92_025136' => 'vpl', 'HPP92_026087' => 'vpl', 'Hund06782' => 'sun', 'Hund06784' => 'sun', 'Lalb_Chr01g0004861' => 'lal', 'Lalb_Chr02g0140591' => 'lal', 'Lalb_Chr02g0140611' => 'lal', 'Lalb_Chr03g0028101' => 'lal', 'Lalb_Chr07g0185791' => 'lal', 'Lalb_Chr12g0204491' => 'lal', 'Lalb_Chr13g0295671' => 'lal', 'Lalb_Chr19g0136461' => 'lal', 'Lalb_Chr21g0309191' => 'lal', 'Lj1g0028158' => 'lja', 'Lj1P236T38' => 'lonja', 'Lj2C32G2' => 'lonja', 'Lj2P944T8' => 'lonja', 'Lj2P963T15' => 'lonja', 'Lj3g0011788' => 'lja', 'Lj4g0025027' => 'lja', 'Lj5P255T36' => 'lonja', 'Lj6g0018866' => 'lja', 'Lj6P608T31' => 'lonja', 'LjContig00408g0008879' => 'lja', 'Lsat_1_v5_gn_5_105820' => 'lsa', 'Lsat_1_v5_gn_6_38800' => 'lsa', 'Lsat_1_v5_gn_7_67141' => 'lsa', 'Manes.04G003400' => 'mes', 'Manes.07G020000' => 'mes', 'Manes.07G020100' => 'mes', 'Manes.07G020150' => 'mes', 'Manes.10G061500' => 'mes', 'Manes.10G123200' => 'mes', 'Manes.11G161900' => 'mes', 'Manes.15G029300' => 'mes', 'Mapoly0071s0018' => 'mpo', 'Mapoly0082s0023' => 'mpo', 'Mapoly3477s0001' => 'mpo', 'MBI05_g31233_MAGBIO' => 'mbi', 'MBI09_g05946_MAGBIO' => 'mbi', 'MBI09_g05947_MAGBIO' => 'mbi', 'MBI17_g08346_MAGBIO' => 'mbi', 'MCO04G038' => 'mco', 'MCO09G370' => 'mco', 'MCO13G605' => 'mco', 'MD00G1075500' => 'mdo', 'MD03G1144300' => 'mdo', 'MD08G1236800' => 'mdo', 'MD13G1193300' => 'mdo', 'MD15G1428700' => 'mdo', 'Medtr1g112030' => 'mtr', 'Medtr1g112050' => 'mtr', 'Medtr2g006290' => 'mtr', 'Medtr2g086510' => 'mtr', 'Medtr4g053120' => 'mtr', 'Medtr5g006320' => 'mtr', 'Medtr8g088720' => 'mtr', 'MELO3C004712.2' => 'cme', 'MELO3C006533.2' => 'cme', 'MELO3C019438.2' => 'cme', 'MELO3C019440.2' => 'cme', 'MELO3C019441.2' => 'cme', 'MELO3C019895.2' => 'cme', 'Migut.B00811' => 'egut', 'Migut.D02447' => 'egut', 'Migut.F00875' => 'egut', 'Migut.N00186' => 'egut', 'Migut.N01051' => 'egut', 'Migut.N02491' => 'egut', 'Migut.O00784' => 'egut', 'MSTRG.12367' => 'ama', 'MSTRG.18756' => 'ama', 'MSTRG.21042' => 'ama', 'Nitab4.5_0000559g0040' => 'nta', 'Nitab4.5_0000667g0190' => 'nta', 'Nitab4.5_0000755g0160' => 'nta', 'Nitab4.5_0001216g0080' => 'nta', 'Nitab4.5_0004069g0040' => 'nta', 'Nitab4.5_0004129g0010' => 'nta', 'Nitab4.5_0005744g0030' => 'nta', 'Nitab4.5_0006996g0030' => 'nta', 'Nitab4.5_0008971g0040' => 'nta', 'Nitab4.5_0009769g0020' => 'nta', 'Nitab4.5_0009833g0010' => 'nta', 'Nitab4.5_0013140g0020' => 'nta', 'Nn003s41376' => 'nnu', 'Nn1g01857' => 'nnu', 'Nn1g03611' => 'nnu', 'Nn1g06853' => 'nnu', 'Nn3g18360' => 'nnu', 'Nn4g26328' => 'nnu', 'Nn5g27531' => 'nnu', 'Nn6g34899' => 'nnu', 'Nn7g36299' => 'nnu', 'Oeu021485.1' => 'oeu', 'Oeu022433.1' => 'oeu', 'Oeu032111.1' => 'oeu', 'Oeu051608.1' => 'oeu', 'Os01g0860601' => 'osa', 'Os03g0659200' => 'osa', 'Os03g0835900' => 'osa', 'Os04g0412200' => 'osa', 'Os05g0443500' => 'osa', 'Os07g0251500' => 'osa', 'Os08g0104600' => 'osa', 'Peaxi162Scf00003g00047' => 'pax', 'Peaxi162Scf00003g00052' => 'pax', 'Peaxi162Scf00003g00394' => 'pax', 'Peaxi162Scf00091g00621' => 'pax', 'Peaxi162Scf00152g00146' => 'pax', 'Peaxi162Scf00173g00025' => 'pax', 'Peaxi162Scf00195g00102' => 'pax', 'Peaxi162Scf00402g00013' => 'pax', 'Peaxi162Scf00519g00618' => 'pax', 'PGR004G2838' => 'pgr', 'PGR044G2275' => 'pgr', 'PGR102G1377' => 'pgr', 'PGR119G1245' => 'pgr', 'PGR142G4449' => 'pgr', 'PGSC0003DMG400004532' => 'stu', 'PGSC0003DMG400011950' => 'stu', 'PGSC0003DMG400023391' => 'stu', 'PGSC0003DMG400023985' => 'stu', 'PGSC0003DMG400026360' => 'stu', 'PGSC0003DMG400035711' => 'stu', 'PGSC0003DMG400037286' => 'stu', 'PGSC0003DMG402005881' => 'stu', 'Phvul.002G045400' => 'pvu', 'Phvul.006G216600' => 'pvu', 'Phvul.006G216700' => 'pvu', 'Phvul.006G216800' => 'pvu', 'Phvul.007G022500' => 'pvu', 'Phvul.011G094400' => 'pvu', 'Potri.001G470700' => 'ptr', 'Potri.003G015200' => 'ptr', 'Potri.004G202500' => 'ptr', 'Potri.004G218400' => 'ptr', 'Potri.008G020100' => 'ptr', 'Potri.008G153200' => 'ptr', 'Potri.009G163800' => 'ptr', 'Potri.010G087300' => 'ptr', 'Potri.010G239100' => 'ptr', 'Pp3c10_16100' => 'ppa', 'Pp3c10_16880' => 'ppa', 'Pp3c16_6230' => 'ppa', 'Pp3c17_18910' => 'ppa', 'Pp3c3_22119' => 'ppa', 'Pp3c3_22140' => 'ppa', 'Pp3c4_8159' => 'ppa', 'Pp3c4_8171' => 'ppa', 'Pp3c4_8330' => 'ppa', 'PRCOL_00004098' => 'pco', 'Prupe.1G013900' => 'ppe', 'Prupe.1G226300' => 'ppe', 'Prupe.1G573600' => 'ppe', 'Prupe.6G130100' => 'ppe', 'Psat3g090040' => 'psa', 'Psat4g210440' => 'psa', 'Psat6g231040' => 'psa', 'Psat6g231080' => 'psa', 'Psat7g063000' => 'psa', 'Psat7g188000' => 'psa', 'Psat7g188040' => 'psa', 'PSO017G0206' => 'pso', 'PSO170G0501' => 'pso', 'PSO170G6422' => 'pso', 'PSO210G7739' => 'pso', 'PSO339G1808' => 'pso', 'PSO339G6135' => 'pso', 'PSO384G0010' => 'pso', 'PSO384G0964' => 'pso', 'PSO761G0050' => 'pso', 'PSO782G4085' => 'pso', 'QL01p012264' => 'qlo', 'QL02p099491' => 'qlo', 'QL03p033868' => 'qlo', 'QL04p046678' => 'qlo', 'QL06p002448' => 'qlo', 'RcHm_v2.0_Chr4g0416181' => 'rch', 'RcHm_v2.0_Chr5g0044701' => 'rch', 'RcHm_v2.0_Chr6g0265781' => 'rch', 'RcHm_v2.0_Chr7g0221031' => 'rch', 'Rhsim04G0202000' => 'rsi', 'Rhsim11G0127300' => 'rsi', 'Rhsim13G0111800' => 'rsi', 'Sabra01G0165600' => 'sbr', 'Sabra03G0008300' => 'sbr', 'Sabra04G0136900' => 'sbr', 'Sabra08G0013400' => 'sbr', 'Sabra08G0116800' => 'sbr', 'Sabra09G0128000' => 'sbr', 'Sabra10G0055500' => 'sbr', 'Sabra10G0073300' => 'sbr', 'SalBow3G0385' => 'sbo', 'SalBow3G1119' => 'sbo', 'SalBow3G2005' => 'sbo', 'SalBow6G2563' => 'sbo', 'SalBow6G6386' => 'sbo', 'Sc06g0008800' => 'sci', 'Sc07g0004950' => 'sci', 'Sc09g0005340' => 'sci', 'Sc13g0004410' => 'sci', 'Sc21g0007090' => 'sci', 'Sed0009285' => 'sed', 'Sed0017583' => 'sed', 'Sed0019699' => 'sed', 'Sed0023107' => 'sed', 'SEGI_10916' => 'sgi', 'SEGI_16217' => 'sgi', 'SEGI_19466' => 'sgi', 'SEGI_41115' => 'sgi', 'SGA_v2.0_scaffold111G31534' => 'sas', 'SGA_v2.0_scaffold22G09864' => 'sas', 'SGA_v2.0_scaffold338G49219' => 'sas', 'SGA_v2.0_scaffold92G28298' => 'sas', 'SMO119G0064' => 'smo', 'SMO223G0038' => 'smo', 'SMO347G0584' => 'smo', 'SMO351G0010' => 'smo', 'SMO356G0404' => 'smo', 'Solyc01g103920.3' => 'sly', 'Solyc04g009710.2' => 'sly', 'Solyc05g055280.2' => 'sly', 'Solyc10g044520.3' => 'sly', 'Solyc10g075160.1' => 'sly', 'Solyc11g006910.3' => 'sly', 'Solyc11g068430.3' => 'sly', 'Sopen01g046310' => 'spe', 'Sopen03g001200' => 'spe', 'Sopen04g004830' => 'spe', 'Sopen05g033720' => 'spe', 'Sopen06g030740' => 'spe', 'Sopen10g013090' => 'spe', 'Sopen10g027630' => 'spe', 'Sopen10g027640' => 'spe', 'Sopen11g002820' => 'spe', 'Sopen11g027140' => 'spe', 'Sp1g09680' => 'spa', 'Sp2g03630' => 'spa', 'Sp4g10320' => 'spa', 'Sp6g33400' => 'spa', 'Sp7g13030' => 'spa', 'TAR365G0317' => 'tar', 'TAR376G0979' => 'tar', 'TAR623G1665' => 'tar', 'TAR633G2373' => 'tar', 'TAR636G1400' => 'tar', 'THA.LOC104800529' => 'tha', 'THA.LOC104808547' => 'tha', 'THA.LOC104809615' => 'tha', 'THA.LOC104815724' => 'tha', 'THA.LOC104818480' => 'tha', 'THA.LOC104819179' => 'tha', 'THA.LOC104822270' => 'tha', 'THA.LOC104826425' => 'tha', 'Thecc.02G089700' => 'tca', 'Thecc.04G232300' => 'tca', 'Thecc.09G283400' => 'tca', 'Thhalv10009020m.g' => 'esa', 'Thhalv10015506m.g' => 'esa', 'Thhalv10017364m.g' => 'esa', 'Thhalv10023742m.g' => 'esa', 'Thhalv10026483m.g' => 'esa', 'TPR.G17232' => 'tpr', 'TPR.G2133' => 'tpr', 'TPR.G2498' => 'tpr', 'TPR.G31942' => 'tpr', 'TPR.G37877' => 'tpr', 'TPR.G4571' => 'tpr', 'TWI14G1113' => 'twi', 'TWI15G0426' => 'twi', 'TWI31G1005' => 'twi', 'TWI38G0513' => 'twi', 'TWI38G1484' => 'twi', 'TWI73G1098' => 'twi', 'unitig_26.g10519' => 'ugi', 'unitig_736.g22395' => 'ugi', 'unitig_747.g21234' => 'ugi', 'unitig_747.g21942' => 'ugi', 'vmacro14351' => 'vma', 'VMungo0540G0082' => 'vmu', 'VMungo0540G0405' => 'vmu', 'VMungo0540G1486' => 'vmu', 'VMungo0540G1692' => 'vmu', 'VMungo0720G2473' => 'vmu', 'VMungo1127G1562' => 'vmu', 'VMungo1215G1918' => 'vmu', 'Zm00001eb052650' => 'zma', 'Zm00001eb063710' => 'zma', 'Zm00001eb083950' => 'zma', 'Zm00001eb174420' => 'zma', 'Zm00001eb260140' => 'zma', 'Zm00001eb260150' => 'zma', 'Zm00001eb260160' => 'zma', 'Zm00001eb348290' => 'zma', 'Zm00001eb366870' => 'zma', 'Zm00001eb421930' => 'zma' ) $gf_id = 'HOM05D001025' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001025' ) $data_identifier = 'HOM05D001025' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 19, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 2, 'amhyb' => (int) 4, 'aly' => (int) 4, 'aox' => (int) 4, 'arhy' => (int) 3, 'ath' => (int) 5, 'atr' => (int) 4, 'acertr' => (int) 3, 'cqu' => (int) 7, 'bca' => (int) 17, 'bol' => (int) 10, 'bra' => (int) 9, 'can' => (int) 10, 'cansat' => (int) 6, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 5, 'cbr' => (int) 5, 'ccan' => (int) 5, 'cde' => (int) 4, 'cfa' => (int) 3, 'ccl' => (int) 6, 'cil' => (int) 4, 'cla' => (int) 3, 'col' => (int) 3, 'cpa' => (int) 3, 'cre' => (int) 7, 'csa' => (int) 5, 'camsi' => (int) 9, 'dca' => (int) 4, 'din' => (int) 5, 'dzi' => (int) 7, 'eca' => (int) 6, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 12, 'fve' => (int) 4, 'gma' => (int) 12, 'ghi' => (int) 17, 'gra' => (int) 9, 'vvi' => (int) 2, 'han' => (int) 8, 'cav' => (int) 5, 'hma' => (int) 9, 'vpl' => (int) 4, 'sun' => (int) 2, 'lal' => (int) 9, 'lja' => (int) 5, 'lonja' => (int) 6, 'lsa' => (int) 3, 'mes' => (int) 8, 'mpo' => (int) 3, 'mbi' => (int) 4, 'mco' => (int) 3, 'mdo' => (int) 5, 'mtr' => (int) 7, 'cme' => (int) 6, 'egut' => (int) 7, 'ama' => (int) 3, 'nta' => (int) 12, 'nnu' => (int) 9, 'oeu' => (int) 4, 'osa' => (int) 7, 'pax' => (int) 9, 'pgr' => (int) 5, 'stu' => (int) 8, 'pvu' => (int) 6, 'ptr' => (int) 9, 'ppa' => (int) 9, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 7, 'pso' => (int) 10, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 3, 'sbr' => (int) 8, 'sbo' => (int) 5, 'sci' => (int) 5, 'sed' => (int) 4, 'sgi' => (int) 4, 'sas' => (int) 4, 'smo' => (int) 5, 'sly' => (int) 7, 'spe' => (int) 10, 'spa' => (int) 5, 'tar' => (int) 5, 'tha' => (int) 8, 'tca' => (int) 3, 'esa' => (int) 5, 'tpr' => (int) 6, 'twi' => (int) 6, 'ugi' => (int) 4, 'vma' => (int) 1, 'vmu' => (int) 7, 'zma' => (int) 10 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb421930' $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' => 'HOM05D001025', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '592', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p22650' => 'bna', 'A01p29720' => 'bna', 'A03p26560' => 'bna', 'A03p68820' => 'bna', 'A04p20980' => 'bna', 'A06p07730' => 'bna', 'A07p18260' => 'bna', 'A08p33710' => 'bna', 'A09p16970' => 'bna', 'A10p27490' => 'bna', 'Aa31LG1G17300' => 'aar', 'Aa31LG1G3910' => 'aar', 'Aa31LG2G9630' => 'aar', 'Aa31LG5G8360' => 'aar', 'Aa31LG9G2410' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4699' => 'aag', 'Actinidia23512' => 'ach', 'Actinidia37080' => 'ach', 'Ah.01g020380' => 'amhyb', 'Ah.08g215710' => 'amhyb', 'Ah.09g225110' => 'amhyb', 'Ah.10g036680' => 'amhyb', 'AL1G21940' => 'aly', 'AL2G15540' => 'aly', 'AL4G21520' => 'aly', 'AL7G40960' => 'aly', 'Aqoxy2G01191' => 'aox', 'Aqoxy2G03393' => 'aox', 'Aqoxy4G02775' => 'aox', 'Aqoxy6G00058' => 'aox', 'arahy.Tifrunner.gnm1.ann1.9X74H2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CW3FX9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R485W7' => 'arhy', 'AT1G10960' => 'ath', 'AT1G60950' => 'ath', 'AT2G27510' => 'ath', 'AT4G14890' => 'ath', 'AT5G10000' => 'ath', 'ATR0665G624' => 'atr', 'ATR0697G138' => 'atr', 'ATR0776G046' => 'atr', 'ATR1134G135' => 'atr', 'Atru.chr12.1025' => 'acertr', 'Atru.chr3.3241' => 'acertr', 'Atru.chr4.2460' => 'acertr', 'AUR62007427' => 'cqu', 'AUR62010960' => 'cqu', 'AUR62012201' => 'cqu', 'AUR62021470' => 'cqu', 'AUR62022834' => 'cqu', 'AUR62033635' => 'cqu', 'AUR62036186' => 'cqu', 'BcaB01g03077' => 'bca', 'BcaB02g10093' => 'bca', 'BcaB04g20295' => 'bca', 'BcaB06g28147' => 'bca', 'BcaB07g31253' => 'bca', 'BcaC01g04946' => 'bca', 'BcaC02g10614' => 'bca', 'BcaC02g10885' => 'bca', 'BcaC04g19356' => 'bca', 'BcaC04g22297' => 'bca', 'BcaC05g24977' => 'bca', 'BcaC06g31823' => 'bca', 'BcaC07g38633' => 'bca', 'BcaC09g49353' => 'bca', 'BcaC09g50168' => 'bca', 'BcaNung00322' => 'bca', 'BcaNung04769' => 'bca', 'BolC1t02753H' => 'bol', 'BolC1t03721H' => 'bol', 'BolC3t15525H' => 'bol', 'BolC4t23903H' => 'bol', 'BolC4t24231H' => 'bol', 'BolC4t27209H' => 'bol', 'BolC5t29671H' => 'bol', 'BolC8t49044H' => 'bol', 'BolC9t54999H' => 'bol', 'BolC9t59517H' => 'bol', 'BraA01t02178Z' => 'bra', 'BraA01t03099Z' => 'bra', 'BraA03t11867Z' => 'bra', 'BraA04t17667Z' => 'bra', 'BraA07t29542Z' => 'bra', 'BraA08t35287Z' => 'bra', 'BraA09t37334Z' => 'bra', 'BraA10t44801Z' => 'bra', 'BraSC39t46181Z' => 'bra', 'C01p28240' => 'bna', 'C01p37530' => 'bna', 'C03p31820' => 'bna', 'C04p24080' => 'bna', 'C04p25790' => 'bna', 'C04p56770' => 'bna', 'C05p09310' => 'bna', 'C09p21010' => 'bna', 'C09p67560' => 'bna', 'CAN.G1324.7' => 'can', 'CAN.G1358.10' => 'can', 'CAN.G1550.2' => 'can', 'CAN.G186.56' => 'can', 'CAN.G1965.1' => 'can', 'CAN.G645.15' => 'can', 'CAN.G798.26' => 'can', 'CAN.G798.27' => 'can', 'CAN.G798.29' => 'can', 'CAN.G919.31' => 'can', 'CANSAT11G0133' => 'cansat', 'CANSAT11G1171' => 'cansat', 'CANSAT11G2056' => 'cansat', 'CANSAT56G1202' => 'cansat', 'CANSAT56G1514' => 'cansat', 'CANSAT78G0455' => 'cansat', 'CARHR011190' => 'chi', 'CARHR051980' => 'chi', 'CARHR120170' => 'chi', 'CARHR203310' => 'chi', 'CARHR221490' => 'chi', 'Carub.0001s1054' => 'cru', 'Carub.0002s0431' => 'cru', 'Carub.0004s0818' => 'cru', 'Carub.0006s0846' => 'cru', 'Carub.0007s2722' => 'cru', 'Ca_00058_v3' => 'car', 'Ca_17831_v3' => 'car', 'Ca_19408_v3' => 'car', 'Ca_24397_v3' => 'car', 'Ca_25664_v3' => 'car', 'CBR_g21818' => 'cbr', 'CBR_g31195' => 'cbr', 'CBR_g32282' => 'cbr', 'CBR_g39599' => 'cbr', 'CBR_g49410' => 'cbr', 'Cc01_g09120' => 'ccan', 'Cc01_g09130' => 'ccan', 'Cc02_g09630' => 'ccan', 'Cc02_g22810' => 'ccan', 'Cc03_g03810' => 'ccan', 'CDE02G3718' => 'cde', 'CDE04G3183' => 'cde', 'CDE07G1046' => 'cde', 'CDE08G0480' => 'cde', 'Cfa005493' => 'cfa', 'Cfa010312' => 'cfa', 'Cfa015648' => 'cfa', 'Ciclev10002793m.g' => 'ccl', 'Ciclev10003356m.g' => 'ccl', 'Ciclev10006141m.g' => 'ccl', 'Ciclev10016676m.g' => 'ccl', 'Ciclev10017081m.g' => 'ccl', 'Ciclev10029499m.g' => 'ccl', 'CiPaw.01G166300' => 'cil', 'CiPaw.06G145600' => 'cil', 'CiPaw.13G040100' => 'cil', 'CiPaw.13G135800' => 'cil', 'ClCG01G012230' => 'cla', 'ClCG05G009510' => 'cla', 'ClCG08G008270' => 'cla', 'COL.COLO4_11763' => 'col', 'COL.COLO4_19876' => 'col', 'COL.COLO4_21481' => 'col', 'Cpa.g.sc118.34' => 'cpa', 'Cpa.g.sc32.13' => 'cpa', 'Cpa.g.sc58.103' => 'cpa', 'Cre03.g183850' => 'cre', 'Cre06.g306350' => 'cre', 'Cre07.g334800' => 'cre', 'Cre12.g487900' => 'cre', 'Cre14.g626700' => 'cre', 'Cre16.g658400' => 'cre', 'Cre17.g700950' => 'cre', 'CsaV3_1G014830' => 'csa', 'CsaV3_3G013320' => 'csa', 'CsaV3_3G019210' => 'csa', 'CsaV3_3G019220' => 'csa', 'CsaV3_6G004230' => 'csa', 'CSS0003773' => 'camsi', 'CSS0004563' => 'camsi', 'CSS0013949' => 'camsi', 'CSS0025971' => 'camsi', 'CSS0028570' => 'camsi', 'CSS0033127' => 'camsi', 'CSS0036051' => 'camsi', 'CSS0040087' => 'camsi', 'CSS0043179' => 'camsi', 'DCAR_006161' => 'dca', 'DCAR_010351' => 'dca', 'DCAR_012197' => 'dca', 'DCAR_024162' => 'dca', 'Dinv01030' => 'din', 'Dinv10924' => 'din', 'Dinv11835' => 'din', 'Dinv22841' => 'din', 'Dinv42553' => 'din', 'Duzib052G0560' => 'dzi', 'Duzib132G0389' => 'dzi', 'Duzib150G1181' => 'dzi', 'Duzib168G0623' => 'dzi', 'Duzib170G1036' => 'dzi', 'Duzib212G0200' => 'dzi', 'Duzib248G0194' => 'dzi', 'ECA232G2193' => 'eca', 'ECA233G0302' => 'eca', 'ECA234G2813' => 'eca', 'ECA234G4866' => 'eca', 'ECA240G3932' => 'eca', 'ECA248G0385' => 'eca', 'EL10Ac2g04781' => 'bvu', 'EL10Ac3g06445' => 'bvu', 'EL10Ac7g15825' => 'bvu', 'EL10Ac8g18550' => 'bvu', 'Eucgr.B03849' => 'egr', 'Eucgr.I02744' => 'egr', 'Eucgr.J00264' => 'egr', 'Eucgr.J00493' => 'egr', 'FAN04G2181' => 'fan', 'FAN07G2666' => 'fan', 'FAN11G0024' => 'fan', 'FAN12G1105' => 'fan', 'FAN13G0302' => 'fan', 'FAN15G2781' => 'fan', 'FAN16G1274' => 'fan', 'FAN17G2988' => 'fan', 'FAN18G2621' => 'fan', 'FAN21G0013' => 'fan', 'FAN22G1211' => 'fan', 'FAN25G3626' => 'fan', 'FvH4_2g09491' => 'fve', 'FvH4_3g24910' => 'fve', 'FvH4_4g15630' => 'fve', 'FvH4_5g28820' => 'fve', 'Glyma.01G238000' => 'gma', 'Glyma.05G168400' => 'gma', 'Glyma.08G126800' => 'gma', 'Glyma.08G188500' => 'gma', 'Glyma.10G278900' => 'gma', 'Glyma.11G005700' => 'gma', 'Glyma.11G183300' => 'gma', 'Glyma.12G089200' => 'gma', 'Glyma.12G169400' => 'gma', 'Glyma.12G169500' => 'gma', 'Glyma.12G169600' => 'gma', 'Glyma.20G110800' => 'gma', 'Gohir.A03G192900' => 'ghi', 'Gohir.A03G193000' => 'ghi', 'Gohir.A05G080700' => 'ghi', 'Gohir.A09G216000' => 'ghi', 'Gohir.A12G027700' => 'ghi', 'Gohir.A13G036200' => 'ghi', 'Gohir.A13G222600' => 'ghi', 'Gohir.D02G213900' => 'ghi', 'Gohir.D02G214000' => 'ghi', 'Gohir.D05G083700' => 'ghi', 'Gohir.D05G083800' => 'ghi', 'Gohir.D05G083850' => 'ghi', 'Gohir.D08G015400' => 'ghi', 'Gohir.D09G218400' => 'ghi', 'Gohir.D12G027100' => 'ghi', 'Gohir.D13G034500' => 'ghi', 'Gohir.D13G227400' => 'ghi', 'Gorai.005G241800' => 'gra', 'Gorai.005G241900' => 'gra', 'Gorai.006G239400' => 'gra', 'Gorai.008G027600' => 'gra', 'Gorai.009G085400' => 'gra', 'Gorai.009G085500' => 'gra', 'Gorai.013G039000' => 'gra', 'Gorai.013G194800' => 'gra', 'Gorai.013G257900' => 'gra', 'GSVIVG01000982001' => 'vvi', 'GSVIVG01017981001' => 'vvi', 'HanXRQChr01g0024061' => 'han', 'HanXRQChr09g0247831' => 'han', 'HanXRQChr10g0294611' => 'han', 'HanXRQChr10g0294621' => 'han', 'HanXRQChr11g0346821' => 'han', 'HanXRQChr13g0397461' => 'han', 'HanXRQChr16g0513651' => 'han', 'HanXRQChr16g0513701' => 'han', 'Haze_00897' => 'cav', 'Haze_01745' => 'cav', 'Haze_02486' => 'cav', 'Haze_02487' => 'cav', 'Haze_23374' => 'cav', 'Hma1.2p1_0578F.1_g182520' => 'hma', 'Hma1.2p1_0602F.1_g187350' => 'hma', 'Hma1.2p1_0602F.1_g187360' => 'hma', 'Hma1.2p1_0874F.1_g231320' => 'hma', 'Hma1.2p1_1197F.1_g266210' => 'hma', 'Hma1.2p1_1197F.1_g266220' => 'hma', 'Hma1.2p1_2167F.1_g315895' => 'hma', 'Hma1.2p1_2190F.1_g316640' => 'hma', 'Hma1.2p1_3645F.1_g337153' => 'hma', 'HPP92_004907' => 'vpl', 'HPP92_012134' => 'vpl', 'HPP92_025136' => 'vpl', 'HPP92_026087' => 'vpl', 'Hund06782' => 'sun', 'Hund06784' => 'sun', 'Lalb_Chr01g0004861' => 'lal', 'Lalb_Chr02g0140591' => 'lal', 'Lalb_Chr02g0140611' => 'lal', 'Lalb_Chr03g0028101' => 'lal', 'Lalb_Chr07g0185791' => 'lal', 'Lalb_Chr12g0204491' => 'lal', 'Lalb_Chr13g0295671' => 'lal', 'Lalb_Chr19g0136461' => 'lal', 'Lalb_Chr21g0309191' => 'lal', 'Lj1g0028158' => 'lja', 'Lj1P236T38' => 'lonja', 'Lj2C32G2' => 'lonja', 'Lj2P944T8' => 'lonja', 'Lj2P963T15' => 'lonja', 'Lj3g0011788' => 'lja', 'Lj4g0025027' => 'lja', 'Lj5P255T36' => 'lonja', 'Lj6g0018866' => 'lja', 'Lj6P608T31' => 'lonja', 'LjContig00408g0008879' => 'lja', 'Lsat_1_v5_gn_5_105820' => 'lsa', 'Lsat_1_v5_gn_6_38800' => 'lsa', 'Lsat_1_v5_gn_7_67141' => 'lsa', 'Manes.04G003400' => 'mes', 'Manes.07G020000' => 'mes', 'Manes.07G020100' => 'mes', 'Manes.07G020150' => 'mes', 'Manes.10G061500' => 'mes', 'Manes.10G123200' => 'mes', 'Manes.11G161900' => 'mes', 'Manes.15G029300' => 'mes', 'Mapoly0071s0018' => 'mpo', 'Mapoly0082s0023' => 'mpo', 'Mapoly3477s0001' => 'mpo', 'MBI05_g31233_MAGBIO' => 'mbi', 'MBI09_g05946_MAGBIO' => 'mbi', 'MBI09_g05947_MAGBIO' => 'mbi', 'MBI17_g08346_MAGBIO' => 'mbi', 'MCO04G038' => 'mco', 'MCO09G370' => 'mco', 'MCO13G605' => 'mco', 'MD00G1075500' => 'mdo', 'MD03G1144300' => 'mdo', 'MD08G1236800' => 'mdo', 'MD13G1193300' => 'mdo', 'MD15G1428700' => 'mdo', 'Medtr1g112030' => 'mtr', 'Medtr1g112050' => 'mtr', 'Medtr2g006290' => 'mtr', 'Medtr2g086510' => 'mtr', 'Medtr4g053120' => 'mtr', 'Medtr5g006320' => 'mtr', 'Medtr8g088720' => 'mtr', 'MELO3C004712.2' => 'cme', 'MELO3C006533.2' => 'cme', 'MELO3C019438.2' => 'cme', 'MELO3C019440.2' => 'cme', 'MELO3C019441.2' => 'cme', 'MELO3C019895.2' => 'cme', 'Migut.B00811' => 'egut', 'Migut.D02447' => 'egut', 'Migut.F00875' => 'egut', 'Migut.N00186' => 'egut', 'Migut.N01051' => 'egut', 'Migut.N02491' => 'egut', 'Migut.O00784' => 'egut', 'MSTRG.12367' => 'ama', 'MSTRG.18756' => 'ama', 'MSTRG.21042' => 'ama', 'Nitab4.5_0000559g0040' => 'nta', 'Nitab4.5_0000667g0190' => 'nta', 'Nitab4.5_0000755g0160' => 'nta', 'Nitab4.5_0001216g0080' => 'nta', 'Nitab4.5_0004069g0040' => 'nta', 'Nitab4.5_0004129g0010' => 'nta', 'Nitab4.5_0005744g0030' => 'nta', 'Nitab4.5_0006996g0030' => 'nta', 'Nitab4.5_0008971g0040' => 'nta', 'Nitab4.5_0009769g0020' => 'nta', 'Nitab4.5_0009833g0010' => 'nta', 'Nitab4.5_0013140g0020' => 'nta', 'Nn003s41376' => 'nnu', 'Nn1g01857' => 'nnu', 'Nn1g03611' => 'nnu', 'Nn1g06853' => 'nnu', 'Nn3g18360' => 'nnu', 'Nn4g26328' => 'nnu', 'Nn5g27531' => 'nnu', 'Nn6g34899' => 'nnu', 'Nn7g36299' => 'nnu', 'Oeu021485.1' => 'oeu', 'Oeu022433.1' => 'oeu', 'Oeu032111.1' => 'oeu', 'Oeu051608.1' => 'oeu', 'Os01g0860601' => 'osa', 'Os03g0659200' => 'osa', 'Os03g0835900' => 'osa', 'Os04g0412200' => 'osa', 'Os05g0443500' => 'osa', 'Os07g0251500' => 'osa', 'Os08g0104600' => 'osa', 'Peaxi162Scf00003g00047' => 'pax', 'Peaxi162Scf00003g00052' => 'pax', 'Peaxi162Scf00003g00394' => 'pax', 'Peaxi162Scf00091g00621' => 'pax', 'Peaxi162Scf00152g00146' => 'pax', 'Peaxi162Scf00173g00025' => 'pax', 'Peaxi162Scf00195g00102' => 'pax', 'Peaxi162Scf00402g00013' => 'pax', 'Peaxi162Scf00519g00618' => 'pax', 'PGR004G2838' => 'pgr', 'PGR044G2275' => 'pgr', 'PGR102G1377' => 'pgr', 'PGR119G1245' => 'pgr', 'PGR142G4449' => 'pgr', 'PGSC0003DMG400004532' => 'stu', 'PGSC0003DMG400011950' => 'stu', 'PGSC0003DMG400023391' => 'stu', 'PGSC0003DMG400023985' => 'stu', 'PGSC0003DMG400026360' => 'stu', 'PGSC0003DMG400035711' => 'stu', 'PGSC0003DMG400037286' => 'stu', 'PGSC0003DMG402005881' => 'stu', 'Phvul.002G045400' => 'pvu', 'Phvul.006G216600' => 'pvu', 'Phvul.006G216700' => 'pvu', 'Phvul.006G216800' => 'pvu', 'Phvul.007G022500' => 'pvu', 'Phvul.011G094400' => 'pvu', 'Potri.001G470700' => 'ptr', 'Potri.003G015200' => 'ptr', 'Potri.004G202500' => 'ptr', 'Potri.004G218400' => 'ptr', 'Potri.008G020100' => 'ptr', 'Potri.008G153200' => 'ptr', 'Potri.009G163800' => 'ptr', 'Potri.010G087300' => 'ptr', 'Potri.010G239100' => 'ptr', 'Pp3c10_16100' => 'ppa', 'Pp3c10_16880' => 'ppa', 'Pp3c16_6230' => 'ppa', 'Pp3c17_18910' => 'ppa', 'Pp3c3_22119' => 'ppa', 'Pp3c3_22140' => 'ppa', 'Pp3c4_8159' => 'ppa', 'Pp3c4_8171' => 'ppa', 'Pp3c4_8330' => 'ppa', 'PRCOL_00004098' => 'pco', 'Prupe.1G013900' => 'ppe', 'Prupe.1G226300' => 'ppe', 'Prupe.1G573600' => 'ppe', 'Prupe.6G130100' => 'ppe', 'Psat3g090040' => 'psa', 'Psat4g210440' => 'psa', 'Psat6g231040' => 'psa', 'Psat6g231080' => 'psa', 'Psat7g063000' => 'psa', 'Psat7g188000' => 'psa', 'Psat7g188040' => 'psa', 'PSO017G0206' => 'pso', 'PSO170G0501' => 'pso', 'PSO170G6422' => 'pso', 'PSO210G7739' => 'pso', 'PSO339G1808' => 'pso', 'PSO339G6135' => 'pso', 'PSO384G0010' => 'pso', 'PSO384G0964' => 'pso', 'PSO761G0050' => 'pso', 'PSO782G4085' => 'pso', 'QL01p012264' => 'qlo', 'QL02p099491' => 'qlo', 'QL03p033868' => 'qlo', 'QL04p046678' => 'qlo', 'QL06p002448' => 'qlo', 'RcHm_v2.0_Chr4g0416181' => 'rch', 'RcHm_v2.0_Chr5g0044701' => 'rch', 'RcHm_v2.0_Chr6g0265781' => 'rch', 'RcHm_v2.0_Chr7g0221031' => 'rch', 'Rhsim04G0202000' => 'rsi', 'Rhsim11G0127300' => 'rsi', 'Rhsim13G0111800' => 'rsi', 'Sabra01G0165600' => 'sbr', 'Sabra03G0008300' => 'sbr', 'Sabra04G0136900' => 'sbr', 'Sabra08G0013400' => 'sbr', 'Sabra08G0116800' => 'sbr', 'Sabra09G0128000' => 'sbr', 'Sabra10G0055500' => 'sbr', 'Sabra10G0073300' => 'sbr', 'SalBow3G0385' => 'sbo', 'SalBow3G1119' => 'sbo', 'SalBow3G2005' => 'sbo', 'SalBow6G2563' => 'sbo', 'SalBow6G6386' => 'sbo', 'Sc06g0008800' => 'sci', 'Sc07g0004950' => 'sci', 'Sc09g0005340' => 'sci', 'Sc13g0004410' => 'sci', 'Sc21g0007090' => 'sci', 'Sed0009285' => 'sed', 'Sed0017583' => 'sed', 'Sed0019699' => 'sed', 'Sed0023107' => 'sed', 'SEGI_10916' => 'sgi', 'SEGI_16217' => 'sgi', 'SEGI_19466' => 'sgi', 'SEGI_41115' => 'sgi', 'SGA_v2.0_scaffold111G31534' => 'sas', 'SGA_v2.0_scaffold22G09864' => 'sas', 'SGA_v2.0_scaffold338G49219' => 'sas', 'SGA_v2.0_scaffold92G28298' => 'sas', 'SMO119G0064' => 'smo', 'SMO223G0038' => 'smo', 'SMO347G0584' => 'smo', 'SMO351G0010' => 'smo', 'SMO356G0404' => 'smo', 'Solyc01g103920.3' => 'sly', 'Solyc04g009710.2' => 'sly', 'Solyc05g055280.2' => 'sly', 'Solyc10g044520.3' => 'sly', 'Solyc10g075160.1' => 'sly', 'Solyc11g006910.3' => 'sly', 'Solyc11g068430.3' => 'sly', 'Sopen01g046310' => 'spe', 'Sopen03g001200' => 'spe', 'Sopen04g004830' => 'spe', 'Sopen05g033720' => 'spe', 'Sopen06g030740' => 'spe', 'Sopen10g013090' => 'spe', 'Sopen10g027630' => 'spe', 'Sopen10g027640' => 'spe', 'Sopen11g002820' => 'spe', 'Sopen11g027140' => 'spe', 'Sp1g09680' => 'spa', 'Sp2g03630' => 'spa', 'Sp4g10320' => 'spa', 'Sp6g33400' => 'spa', 'Sp7g13030' => 'spa', 'TAR365G0317' => 'tar', 'TAR376G0979' => 'tar', 'TAR623G1665' => 'tar', 'TAR633G2373' => 'tar', 'TAR636G1400' => 'tar', 'THA.LOC104800529' => 'tha', 'THA.LOC104808547' => 'tha', 'THA.LOC104809615' => 'tha', 'THA.LOC104815724' => 'tha', 'THA.LOC104818480' => 'tha', 'THA.LOC104819179' => 'tha', 'THA.LOC104822270' => 'tha', 'THA.LOC104826425' => 'tha', 'Thecc.02G089700' => 'tca', 'Thecc.04G232300' => 'tca', 'Thecc.09G283400' => 'tca', 'Thhalv10009020m.g' => 'esa', 'Thhalv10015506m.g' => 'esa', 'Thhalv10017364m.g' => 'esa', 'Thhalv10023742m.g' => 'esa', 'Thhalv10026483m.g' => 'esa', 'TPR.G17232' => 'tpr', 'TPR.G2133' => 'tpr', 'TPR.G2498' => 'tpr', 'TPR.G31942' => 'tpr', 'TPR.G37877' => 'tpr', 'TPR.G4571' => 'tpr', 'TWI14G1113' => 'twi', 'TWI15G0426' => 'twi', 'TWI31G1005' => 'twi', 'TWI38G0513' => 'twi', 'TWI38G1484' => 'twi', 'TWI73G1098' => 'twi', 'unitig_26.g10519' => 'ugi', 'unitig_736.g22395' => 'ugi', 'unitig_747.g21234' => 'ugi', 'unitig_747.g21942' => 'ugi', 'vmacro14351' => 'vma', 'VMungo0540G0082' => 'vmu', 'VMungo0540G0405' => 'vmu', 'VMungo0540G1486' => 'vmu', 'VMungo0540G1692' => 'vmu', 'VMungo0720G2473' => 'vmu', 'VMungo1127G1562' => 'vmu', 'VMungo1215G1918' => 'vmu', 'Zm00001eb052650' => 'zma', 'Zm00001eb063710' => 'zma', 'Zm00001eb083950' => 'zma', 'Zm00001eb174420' => 'zma', 'Zm00001eb260140' => 'zma', 'Zm00001eb260150' => 'zma', 'Zm00001eb260160' => 'zma', 'Zm00001eb348290' => 'zma', 'Zm00001eb366870' => 'zma', 'Zm00001eb421930' => 'zma' ), 'gf_id' => 'HOM05D001025', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001025' ), 'data_identifier' => 'HOM05D001025', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001025', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '592', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p22650' => 'bna', 'A01p29720' => 'bna', 'A03p26560' => 'bna', 'A03p68820' => 'bna', 'A04p20980' => 'bna', 'A06p07730' => 'bna', 'A07p18260' => 'bna', 'A08p33710' => 'bna', 'A09p16970' => 'bna', 'A10p27490' => 'bna', 'Aa31LG1G17300' => 'aar', 'Aa31LG1G3910' => 'aar', 'Aa31LG2G9630' => 'aar', 'Aa31LG5G8360' => 'aar', 'Aa31LG9G2410' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4699' => 'aag', 'Actinidia23512' => 'ach', 'Actinidia37080' => 'ach', 'Ah.01g020380' => 'amhyb', 'Ah.08g215710' => 'amhyb', 'Ah.09g225110' => 'amhyb', 'Ah.10g036680' => 'amhyb', 'AL1G21940' => 'aly', 'AL2G15540' => 'aly', 'AL4G21520' => 'aly', 'AL7G40960' => 'aly', 'Aqoxy2G01191' => 'aox', 'Aqoxy2G03393' => 'aox', 'Aqoxy4G02775' => 'aox', 'Aqoxy6G00058' => 'aox', 'arahy.Tifrunner.gnm1.ann1.9X74H2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CW3FX9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R485W7' => 'arhy', 'AT1G10960' => 'ath', 'AT1G60950' => 'ath', 'AT2G27510' => 'ath', 'AT4G14890' => 'ath', 'AT5G10000' => 'ath', 'ATR0665G624' => 'atr', 'ATR0697G138' => 'atr', 'ATR0776G046' => 'atr', 'ATR1134G135' => 'atr', 'Atru.chr12.1025' => 'acertr', 'Atru.chr3.3241' => 'acertr', 'Atru.chr4.2460' => 'acertr', 'AUR62007427' => 'cqu', 'AUR62010960' => 'cqu', 'AUR62012201' => 'cqu', 'AUR62021470' => 'cqu', 'AUR62022834' => 'cqu', 'AUR62033635' => 'cqu', 'AUR62036186' => 'cqu', 'BcaB01g03077' => 'bca', 'BcaB02g10093' => 'bca', 'BcaB04g20295' => 'bca', 'BcaB06g28147' => 'bca', 'BcaB07g31253' => 'bca', 'BcaC01g04946' => 'bca', 'BcaC02g10614' => 'bca', 'BcaC02g10885' => 'bca', 'BcaC04g19356' => 'bca', 'BcaC04g22297' => 'bca', 'BcaC05g24977' => 'bca', 'BcaC06g31823' => 'bca', 'BcaC07g38633' => 'bca', 'BcaC09g49353' => 'bca', 'BcaC09g50168' => 'bca', 'BcaNung00322' => 'bca', 'BcaNung04769' => 'bca', 'BolC1t02753H' => 'bol', 'BolC1t03721H' => 'bol', 'BolC3t15525H' => 'bol', 'BolC4t23903H' => 'bol', 'BolC4t24231H' => 'bol', 'BolC4t27209H' => 'bol', 'BolC5t29671H' => 'bol', 'BolC8t49044H' => 'bol', 'BolC9t54999H' => 'bol', 'BolC9t59517H' => 'bol', 'BraA01t02178Z' => 'bra', 'BraA01t03099Z' => 'bra', 'BraA03t11867Z' => 'bra', 'BraA04t17667Z' => 'bra', 'BraA07t29542Z' => 'bra', 'BraA08t35287Z' => 'bra', 'BraA09t37334Z' => 'bra', 'BraA10t44801Z' => 'bra', 'BraSC39t46181Z' => 'bra', 'C01p28240' => 'bna', 'C01p37530' => 'bna', 'C03p31820' => 'bna', 'C04p24080' => 'bna', 'C04p25790' => 'bna', 'C04p56770' => 'bna', 'C05p09310' => 'bna', 'C09p21010' => 'bna', 'C09p67560' => 'bna', 'CAN.G1324.7' => 'can', 'CAN.G1358.10' => 'can', 'CAN.G1550.2' => 'can', 'CAN.G186.56' => 'can', 'CAN.G1965.1' => 'can', 'CAN.G645.15' => 'can', 'CAN.G798.26' => 'can', 'CAN.G798.27' => 'can', 'CAN.G798.29' => 'can', 'CAN.G919.31' => 'can', 'CANSAT11G0133' => 'cansat', 'CANSAT11G1171' => 'cansat', 'CANSAT11G2056' => 'cansat', 'CANSAT56G1202' => 'cansat', 'CANSAT56G1514' => 'cansat', 'CANSAT78G0455' => 'cansat', 'CARHR011190' => 'chi', 'CARHR051980' => 'chi', 'CARHR120170' => 'chi', 'CARHR203310' => 'chi', 'CARHR221490' => 'chi', 'Carub.0001s1054' => 'cru', 'Carub.0002s0431' => 'cru', 'Carub.0004s0818' => 'cru', 'Carub.0006s0846' => 'cru', 'Carub.0007s2722' => 'cru', 'Ca_00058_v3' => 'car', 'Ca_17831_v3' => 'car', 'Ca_19408_v3' => 'car', 'Ca_24397_v3' => 'car', 'Ca_25664_v3' => 'car', 'CBR_g21818' => 'cbr', 'CBR_g31195' => 'cbr', 'CBR_g32282' => 'cbr', 'CBR_g39599' => 'cbr', 'CBR_g49410' => 'cbr', 'Cc01_g09120' => 'ccan', 'Cc01_g09130' => 'ccan', 'Cc02_g09630' => 'ccan', 'Cc02_g22810' => 'ccan', 'Cc03_g03810' => 'ccan', 'CDE02G3718' => 'cde', 'CDE04G3183' => 'cde', 'CDE07G1046' => 'cde', 'CDE08G0480' => 'cde', 'Cfa005493' => 'cfa', 'Cfa010312' => 'cfa', 'Cfa015648' => 'cfa', 'Ciclev10002793m.g' => 'ccl', 'Ciclev10003356m.g' => 'ccl', 'Ciclev10006141m.g' => 'ccl', 'Ciclev10016676m.g' => 'ccl', 'Ciclev10017081m.g' => 'ccl', 'Ciclev10029499m.g' => 'ccl', 'CiPaw.01G166300' => 'cil', 'CiPaw.06G145600' => 'cil', 'CiPaw.13G040100' => 'cil', 'CiPaw.13G135800' => 'cil', 'ClCG01G012230' => 'cla', 'ClCG05G009510' => 'cla', 'ClCG08G008270' => 'cla', 'COL.COLO4_11763' => 'col', 'COL.COLO4_19876' => 'col', 'COL.COLO4_21481' => 'col', 'Cpa.g.sc118.34' => 'cpa', 'Cpa.g.sc32.13' => 'cpa', 'Cpa.g.sc58.103' => 'cpa', 'Cre03.g183850' => 'cre', 'Cre06.g306350' => 'cre', 'Cre07.g334800' => 'cre', 'Cre12.g487900' => 'cre', 'Cre14.g626700' => 'cre', 'Cre16.g658400' => 'cre', 'Cre17.g700950' => 'cre', 'CsaV3_1G014830' => 'csa', 'CsaV3_3G013320' => 'csa', 'CsaV3_3G019210' => 'csa', 'CsaV3_3G019220' => 'csa', 'CsaV3_6G004230' => 'csa', 'CSS0003773' => 'camsi', 'CSS0004563' => 'camsi', 'CSS0013949' => 'camsi', 'CSS0025971' => 'camsi', 'CSS0028570' => 'camsi', 'CSS0033127' => 'camsi', 'CSS0036051' => 'camsi', 'CSS0040087' => 'camsi', 'CSS0043179' => 'camsi', 'DCAR_006161' => 'dca', 'DCAR_010351' => 'dca', 'DCAR_012197' => 'dca', 'DCAR_024162' => 'dca', 'Dinv01030' => 'din', 'Dinv10924' => 'din', 'Dinv11835' => 'din', 'Dinv22841' => 'din', 'Dinv42553' => 'din', 'Duzib052G0560' => 'dzi', 'Duzib132G0389' => 'dzi', 'Duzib150G1181' => 'dzi', 'Duzib168G0623' => 'dzi', 'Duzib170G1036' => 'dzi', 'Duzib212G0200' => 'dzi', 'Duzib248G0194' => 'dzi', 'ECA232G2193' => 'eca', 'ECA233G0302' => 'eca', 'ECA234G2813' => 'eca', 'ECA234G4866' => 'eca', 'ECA240G3932' => 'eca', 'ECA248G0385' => 'eca', 'EL10Ac2g04781' => 'bvu', 'EL10Ac3g06445' => 'bvu', 'EL10Ac7g15825' => 'bvu', 'EL10Ac8g18550' => 'bvu', 'Eucgr.B03849' => 'egr', 'Eucgr.I02744' => 'egr', 'Eucgr.J00264' => 'egr', 'Eucgr.J00493' => 'egr', 'FAN04G2181' => 'fan', 'FAN07G2666' => 'fan', 'FAN11G0024' => 'fan', 'FAN12G1105' => 'fan', 'FAN13G0302' => 'fan', 'FAN15G2781' => 'fan', 'FAN16G1274' => 'fan', 'FAN17G2988' => 'fan', 'FAN18G2621' => 'fan', 'FAN21G0013' => 'fan', 'FAN22G1211' => 'fan', 'FAN25G3626' => 'fan', 'FvH4_2g09491' => 'fve', 'FvH4_3g24910' => 'fve', 'FvH4_4g15630' => 'fve', 'FvH4_5g28820' => 'fve', 'Glyma.01G238000' => 'gma', 'Glyma.05G168400' => 'gma', 'Glyma.08G126800' => 'gma', 'Glyma.08G188500' => 'gma', 'Glyma.10G278900' => 'gma', 'Glyma.11G005700' => 'gma', 'Glyma.11G183300' => 'gma', 'Glyma.12G089200' => 'gma', 'Glyma.12G169400' => 'gma', 'Glyma.12G169500' => 'gma', 'Glyma.12G169600' => 'gma', 'Glyma.20G110800' => 'gma', 'Gohir.A03G192900' => 'ghi', 'Gohir.A03G193000' => 'ghi', 'Gohir.A05G080700' => 'ghi', 'Gohir.A09G216000' => 'ghi', 'Gohir.A12G027700' => 'ghi', 'Gohir.A13G036200' => 'ghi', 'Gohir.A13G222600' => 'ghi', 'Gohir.D02G213900' => 'ghi', 'Gohir.D02G214000' => 'ghi', 'Gohir.D05G083700' => 'ghi', 'Gohir.D05G083800' => 'ghi', 'Gohir.D05G083850' => 'ghi', 'Gohir.D08G015400' => 'ghi', 'Gohir.D09G218400' => 'ghi', 'Gohir.D12G027100' => 'ghi', 'Gohir.D13G034500' => 'ghi', 'Gohir.D13G227400' => 'ghi', 'Gorai.005G241800' => 'gra', 'Gorai.005G241900' => 'gra', 'Gorai.006G239400' => 'gra', 'Gorai.008G027600' => 'gra', 'Gorai.009G085400' => 'gra', 'Gorai.009G085500' => 'gra', 'Gorai.013G039000' => 'gra', 'Gorai.013G194800' => 'gra', 'Gorai.013G257900' => 'gra', 'GSVIVG01000982001' => 'vvi', 'GSVIVG01017981001' => 'vvi', 'HanXRQChr01g0024061' => 'han', 'HanXRQChr09g0247831' => 'han', 'HanXRQChr10g0294611' => 'han', 'HanXRQChr10g0294621' => 'han', 'HanXRQChr11g0346821' => 'han', 'HanXRQChr13g0397461' => 'han', 'HanXRQChr16g0513651' => 'han', 'HanXRQChr16g0513701' => 'han', 'Haze_00897' => 'cav', 'Haze_01745' => 'cav', 'Haze_02486' => 'cav', 'Haze_02487' => 'cav', 'Haze_23374' => 'cav', 'Hma1.2p1_0578F.1_g182520' => 'hma', 'Hma1.2p1_0602F.1_g187350' => 'hma', 'Hma1.2p1_0602F.1_g187360' => 'hma', 'Hma1.2p1_0874F.1_g231320' => 'hma', 'Hma1.2p1_1197F.1_g266210' => 'hma', 'Hma1.2p1_1197F.1_g266220' => 'hma', 'Hma1.2p1_2167F.1_g315895' => 'hma', 'Hma1.2p1_2190F.1_g316640' => 'hma', 'Hma1.2p1_3645F.1_g337153' => 'hma', 'HPP92_004907' => 'vpl', 'HPP92_012134' => 'vpl', 'HPP92_025136' => 'vpl', 'HPP92_026087' => 'vpl', 'Hund06782' => 'sun', 'Hund06784' => 'sun', 'Lalb_Chr01g0004861' => 'lal', 'Lalb_Chr02g0140591' => 'lal', 'Lalb_Chr02g0140611' => 'lal', 'Lalb_Chr03g0028101' => 'lal', 'Lalb_Chr07g0185791' => 'lal', 'Lalb_Chr12g0204491' => 'lal', 'Lalb_Chr13g0295671' => 'lal', 'Lalb_Chr19g0136461' => 'lal', 'Lalb_Chr21g0309191' => 'lal', 'Lj1g0028158' => 'lja', 'Lj1P236T38' => 'lonja', 'Lj2C32G2' => 'lonja', 'Lj2P944T8' => 'lonja', 'Lj2P963T15' => 'lonja', 'Lj3g0011788' => 'lja', 'Lj4g0025027' => 'lja', 'Lj5P255T36' => 'lonja', 'Lj6g0018866' => 'lja', 'Lj6P608T31' => 'lonja', 'LjContig00408g0008879' => 'lja', 'Lsat_1_v5_gn_5_105820' => 'lsa', 'Lsat_1_v5_gn_6_38800' => 'lsa', 'Lsat_1_v5_gn_7_67141' => 'lsa', 'Manes.04G003400' => 'mes', 'Manes.07G020000' => 'mes', 'Manes.07G020100' => 'mes', 'Manes.07G020150' => 'mes', 'Manes.10G061500' => 'mes', 'Manes.10G123200' => 'mes', 'Manes.11G161900' => 'mes', 'Manes.15G029300' => 'mes', 'Mapoly0071s0018' => 'mpo', 'Mapoly0082s0023' => 'mpo', 'Mapoly3477s0001' => 'mpo', 'MBI05_g31233_MAGBIO' => 'mbi', 'MBI09_g05946_MAGBIO' => 'mbi', 'MBI09_g05947_MAGBIO' => 'mbi', 'MBI17_g08346_MAGBIO' => 'mbi', 'MCO04G038' => 'mco', 'MCO09G370' => 'mco', 'MCO13G605' => 'mco', 'MD00G1075500' => 'mdo', 'MD03G1144300' => 'mdo', 'MD08G1236800' => 'mdo', 'MD13G1193300' => 'mdo', 'MD15G1428700' => 'mdo', 'Medtr1g112030' => 'mtr', 'Medtr1g112050' => 'mtr', 'Medtr2g006290' => 'mtr', 'Medtr2g086510' => 'mtr', 'Medtr4g053120' => 'mtr', 'Medtr5g006320' => 'mtr', 'Medtr8g088720' => 'mtr', 'MELO3C004712.2' => 'cme', 'MELO3C006533.2' => 'cme', 'MELO3C019438.2' => 'cme', 'MELO3C019440.2' => 'cme', 'MELO3C019441.2' => 'cme', 'MELO3C019895.2' => 'cme', 'Migut.B00811' => 'egut', 'Migut.D02447' => 'egut', 'Migut.F00875' => 'egut', 'Migut.N00186' => 'egut', 'Migut.N01051' => 'egut', 'Migut.N02491' => 'egut', 'Migut.O00784' => 'egut', 'MSTRG.12367' => 'ama', 'MSTRG.18756' => 'ama', 'MSTRG.21042' => 'ama', 'Nitab4.5_0000559g0040' => 'nta', 'Nitab4.5_0000667g0190' => 'nta', 'Nitab4.5_0000755g0160' => 'nta', 'Nitab4.5_0001216g0080' => 'nta', 'Nitab4.5_0004069g0040' => 'nta', 'Nitab4.5_0004129g0010' => 'nta', 'Nitab4.5_0005744g0030' => 'nta', 'Nitab4.5_0006996g0030' => 'nta', 'Nitab4.5_0008971g0040' => 'nta', 'Nitab4.5_0009769g0020' => 'nta', 'Nitab4.5_0009833g0010' => 'nta', 'Nitab4.5_0013140g0020' => 'nta', 'Nn003s41376' => 'nnu', 'Nn1g01857' => 'nnu', 'Nn1g03611' => 'nnu', 'Nn1g06853' => 'nnu', 'Nn3g18360' => 'nnu', 'Nn4g26328' => 'nnu', 'Nn5g27531' => 'nnu', 'Nn6g34899' => 'nnu', 'Nn7g36299' => 'nnu', 'Oeu021485.1' => 'oeu', 'Oeu022433.1' => 'oeu', 'Oeu032111.1' => 'oeu', 'Oeu051608.1' => 'oeu', 'Os01g0860601' => 'osa', 'Os03g0659200' => 'osa', 'Os03g0835900' => 'osa', 'Os04g0412200' => 'osa', 'Os05g0443500' => 'osa', 'Os07g0251500' => 'osa', 'Os08g0104600' => 'osa', 'Peaxi162Scf00003g00047' => 'pax', 'Peaxi162Scf00003g00052' => 'pax', 'Peaxi162Scf00003g00394' => 'pax', 'Peaxi162Scf00091g00621' => 'pax', 'Peaxi162Scf00152g00146' => 'pax', 'Peaxi162Scf00173g00025' => 'pax', 'Peaxi162Scf00195g00102' => 'pax', 'Peaxi162Scf00402g00013' => 'pax', 'Peaxi162Scf00519g00618' => 'pax', 'PGR004G2838' => 'pgr', 'PGR044G2275' => 'pgr', 'PGR102G1377' => 'pgr', 'PGR119G1245' => 'pgr', 'PGR142G4449' => 'pgr', 'PGSC0003DMG400004532' => 'stu', 'PGSC0003DMG400011950' => 'stu', 'PGSC0003DMG400023391' => 'stu', 'PGSC0003DMG400023985' => 'stu', 'PGSC0003DMG400026360' => 'stu', 'PGSC0003DMG400035711' => 'stu', 'PGSC0003DMG400037286' => 'stu', 'PGSC0003DMG402005881' => 'stu', 'Phvul.002G045400' => 'pvu', 'Phvul.006G216600' => 'pvu', 'Phvul.006G216700' => 'pvu', 'Phvul.006G216800' => 'pvu', 'Phvul.007G022500' => 'pvu', 'Phvul.011G094400' => 'pvu', 'Potri.001G470700' => 'ptr', 'Potri.003G015200' => 'ptr', 'Potri.004G202500' => 'ptr', 'Potri.004G218400' => 'ptr', 'Potri.008G020100' => 'ptr', 'Potri.008G153200' => 'ptr', 'Potri.009G163800' => 'ptr', 'Potri.010G087300' => 'ptr', 'Potri.010G239100' => 'ptr', 'Pp3c10_16100' => 'ppa', 'Pp3c10_16880' => 'ppa', 'Pp3c16_6230' => 'ppa', 'Pp3c17_18910' => 'ppa', 'Pp3c3_22119' => 'ppa', 'Pp3c3_22140' => 'ppa', 'Pp3c4_8159' => 'ppa', 'Pp3c4_8171' => 'ppa', 'Pp3c4_8330' => 'ppa', 'PRCOL_00004098' => 'pco', 'Prupe.1G013900' => 'ppe', 'Prupe.1G226300' => 'ppe', 'Prupe.1G573600' => 'ppe', 'Prupe.6G130100' => 'ppe', 'Psat3g090040' => 'psa', 'Psat4g210440' => 'psa', 'Psat6g231040' => 'psa', 'Psat6g231080' => 'psa', 'Psat7g063000' => 'psa', 'Psat7g188000' => 'psa', 'Psat7g188040' => 'psa', 'PSO017G0206' => 'pso', 'PSO170G0501' => 'pso', 'PSO170G6422' => 'pso', 'PSO210G7739' => 'pso', 'PSO339G1808' => 'pso', 'PSO339G6135' => 'pso', 'PSO384G0010' => 'pso', 'PSO384G0964' => 'pso', 'PSO761G0050' => 'pso', 'PSO782G4085' => 'pso', 'QL01p012264' => 'qlo', 'QL02p099491' => 'qlo', 'QL03p033868' => 'qlo', 'QL04p046678' => 'qlo', 'QL06p002448' => 'qlo', 'RcHm_v2.0_Chr4g0416181' => 'rch', 'RcHm_v2.0_Chr5g0044701' => 'rch', 'RcHm_v2.0_Chr6g0265781' => 'rch', 'RcHm_v2.0_Chr7g0221031' => 'rch', 'Rhsim04G0202000' => 'rsi', 'Rhsim11G0127300' => 'rsi', 'Rhsim13G0111800' => 'rsi', 'Sabra01G0165600' => 'sbr', 'Sabra03G0008300' => 'sbr', 'Sabra04G0136900' => 'sbr', 'Sabra08G0013400' => 'sbr', 'Sabra08G0116800' => 'sbr', 'Sabra09G0128000' => 'sbr', 'Sabra10G0055500' => 'sbr', 'Sabra10G0073300' => 'sbr', 'SalBow3G0385' => 'sbo', 'SalBow3G1119' => 'sbo', 'SalBow3G2005' => 'sbo', 'SalBow6G2563' => 'sbo', 'SalBow6G6386' => 'sbo', 'Sc06g0008800' => 'sci', 'Sc07g0004950' => 'sci', 'Sc09g0005340' => 'sci', 'Sc13g0004410' => 'sci', 'Sc21g0007090' => 'sci', 'Sed0009285' => 'sed', 'Sed0017583' => 'sed', 'Sed0019699' => 'sed', 'Sed0023107' => 'sed', 'SEGI_10916' => 'sgi', 'SEGI_16217' => 'sgi', 'SEGI_19466' => 'sgi', 'SEGI_41115' => 'sgi', 'SGA_v2.0_scaffold111G31534' => 'sas', 'SGA_v2.0_scaffold22G09864' => 'sas', 'SGA_v2.0_scaffold338G49219' => 'sas', 'SGA_v2.0_scaffold92G28298' => 'sas', 'SMO119G0064' => 'smo', 'SMO223G0038' => 'smo', 'SMO347G0584' => 'smo', 'SMO351G0010' => 'smo', 'SMO356G0404' => 'smo', 'Solyc01g103920.3' => 'sly', 'Solyc04g009710.2' => 'sly', 'Solyc05g055280.2' => 'sly', 'Solyc10g044520.3' => 'sly', 'Solyc10g075160.1' => 'sly', 'Solyc11g006910.3' => 'sly', 'Solyc11g068430.3' => 'sly', 'Sopen01g046310' => 'spe', 'Sopen03g001200' => 'spe', 'Sopen04g004830' => 'spe', 'Sopen05g033720' => 'spe', 'Sopen06g030740' => 'spe', 'Sopen10g013090' => 'spe', 'Sopen10g027630' => 'spe', 'Sopen10g027640' => 'spe', 'Sopen11g002820' => 'spe', 'Sopen11g027140' => 'spe', 'Sp1g09680' => 'spa', 'Sp2g03630' => 'spa', 'Sp4g10320' => 'spa', 'Sp6g33400' => 'spa', 'Sp7g13030' => 'spa', 'TAR365G0317' => 'tar', 'TAR376G0979' => 'tar', 'TAR623G1665' => 'tar', 'TAR633G2373' => 'tar', 'TAR636G1400' => 'tar', 'THA.LOC104800529' => 'tha', 'THA.LOC104808547' => 'tha', 'THA.LOC104809615' => 'tha', 'THA.LOC104815724' => 'tha', 'THA.LOC104818480' => 'tha', 'THA.LOC104819179' => 'tha', 'THA.LOC104822270' => 'tha', 'THA.LOC104826425' => 'tha', 'Thecc.02G089700' => 'tca', 'Thecc.04G232300' => 'tca', 'Thecc.09G283400' => 'tca', 'Thhalv10009020m.g' => 'esa', 'Thhalv10015506m.g' => 'esa', 'Thhalv10017364m.g' => 'esa', 'Thhalv10023742m.g' => 'esa', 'Thhalv10026483m.g' => 'esa', 'TPR.G17232' => 'tpr', 'TPR.G2133' => 'tpr', 'TPR.G2498' => 'tpr', 'TPR.G31942' => 'tpr', 'TPR.G37877' => 'tpr', 'TPR.G4571' => 'tpr', 'TWI14G1113' => 'twi', 'TWI15G0426' => 'twi', 'TWI31G1005' => 'twi', 'TWI38G0513' => 'twi', 'TWI38G1484' => 'twi', 'TWI73G1098' => 'twi', 'unitig_26.g10519' => 'ugi', 'unitig_736.g22395' => 'ugi', 'unitig_747.g21234' => 'ugi', 'unitig_747.g21942' => 'ugi', 'vmacro14351' => 'vma', 'VMungo0540G0082' => 'vmu', 'VMungo0540G0405' => 'vmu', 'VMungo0540G1486' => 'vmu', 'VMungo0540G1692' => 'vmu', 'VMungo0720G2473' => 'vmu', 'VMungo1127G1562' => 'vmu', 'VMungo1215G1918' => 'vmu', 'Zm00001eb052650' => 'zma', 'Zm00001eb063710' => 'zma', 'Zm00001eb083950' => 'zma', 'Zm00001eb174420' => 'zma', 'Zm00001eb260140' => 'zma', 'Zm00001eb260150' => 'zma', 'Zm00001eb260160' => 'zma', 'Zm00001eb348290' => 'zma', 'Zm00001eb366870' => 'zma', 'Zm00001eb421930' => 'zma' ) $gf_id = 'HOM05D001025' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001025' ) $data_identifier = 'HOM05D001025' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 19, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 2, 'amhyb' => (int) 4, 'aly' => (int) 4, 'aox' => (int) 4, 'arhy' => (int) 3, 'ath' => (int) 5, 'atr' => (int) 4, 'acertr' => (int) 3, 'cqu' => (int) 7, 'bca' => (int) 17, 'bol' => (int) 10, 'bra' => (int) 9, 'can' => (int) 10, 'cansat' => (int) 6, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 5, 'cbr' => (int) 5, 'ccan' => (int) 5, 'cde' => (int) 4, 'cfa' => (int) 3, 'ccl' => (int) 6, 'cil' => (int) 4, 'cla' => (int) 3, 'col' => (int) 3, 'cpa' => (int) 3, 'cre' => (int) 7, 'csa' => (int) 5, 'camsi' => (int) 9, 'dca' => (int) 4, 'din' => (int) 5, 'dzi' => (int) 7, 'eca' => (int) 6, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 12, 'fve' => (int) 4, 'gma' => (int) 12, 'ghi' => (int) 17, 'gra' => (int) 9, 'vvi' => (int) 2, 'han' => (int) 8, 'cav' => (int) 5, 'hma' => (int) 9, 'vpl' => (int) 4, 'sun' => (int) 2, 'lal' => (int) 9, 'lja' => (int) 5, 'lonja' => (int) 6, 'lsa' => (int) 3, 'mes' => (int) 8, 'mpo' => (int) 3, 'mbi' => (int) 4, 'mco' => (int) 3, 'mdo' => (int) 5, 'mtr' => (int) 7, 'cme' => (int) 6, 'egut' => (int) 7, 'ama' => (int) 3, 'nta' => (int) 12, 'nnu' => (int) 9, 'oeu' => (int) 4, 'osa' => (int) 7, 'pax' => (int) 9, 'pgr' => (int) 5, 'stu' => (int) 8, 'pvu' => (int) 6, 'ptr' => (int) 9, 'ppa' => (int) 9, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 7, 'pso' => (int) 10, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 3, 'sbr' => (int) 8, 'sbo' => (int) 5, 'sci' => (int) 5, 'sed' => (int) 4, 'sgi' => (int) 4, 'sas' => (int) 4, 'smo' => (int) 5, 'sly' => (int) 7, 'spe' => (int) 10, 'spa' => (int) 5, 'tar' => (int) 5, 'tha' => (int) 8, 'tca' => (int) 3, 'esa' => (int) 5, 'tpr' => (int) 6, 'twi' => (int) 6, 'ugi' => (int) 4, 'vma' => (int) 1, 'vmu' => (int) 7, 'zma' => (int) 10 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb421930' $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' => 'HOM05D001025', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '592', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p22650' => 'bna', 'A01p29720' => 'bna', 'A03p26560' => 'bna', 'A03p68820' => 'bna', 'A04p20980' => 'bna', 'A06p07730' => 'bna', 'A07p18260' => 'bna', 'A08p33710' => 'bna', 'A09p16970' => 'bna', 'A10p27490' => 'bna', 'Aa31LG1G17300' => 'aar', 'Aa31LG1G3910' => 'aar', 'Aa31LG2G9630' => 'aar', 'Aa31LG5G8360' => 'aar', 'Aa31LG9G2410' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4699' => 'aag', 'Actinidia23512' => 'ach', 'Actinidia37080' => 'ach', 'Ah.01g020380' => 'amhyb', 'Ah.08g215710' => 'amhyb', 'Ah.09g225110' => 'amhyb', 'Ah.10g036680' => 'amhyb', 'AL1G21940' => 'aly', 'AL2G15540' => 'aly', 'AL4G21520' => 'aly', 'AL7G40960' => 'aly', 'Aqoxy2G01191' => 'aox', 'Aqoxy2G03393' => 'aox', 'Aqoxy4G02775' => 'aox', 'Aqoxy6G00058' => 'aox', 'arahy.Tifrunner.gnm1.ann1.9X74H2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CW3FX9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R485W7' => 'arhy', 'AT1G10960' => 'ath', 'AT1G60950' => 'ath', 'AT2G27510' => 'ath', 'AT4G14890' => 'ath', 'AT5G10000' => 'ath', 'ATR0665G624' => 'atr', 'ATR0697G138' => 'atr', 'ATR0776G046' => 'atr', 'ATR1134G135' => 'atr', 'Atru.chr12.1025' => 'acertr', 'Atru.chr3.3241' => 'acertr', 'Atru.chr4.2460' => 'acertr', 'AUR62007427' => 'cqu', 'AUR62010960' => 'cqu', 'AUR62012201' => 'cqu', 'AUR62021470' => 'cqu', 'AUR62022834' => 'cqu', 'AUR62033635' => 'cqu', 'AUR62036186' => 'cqu', 'BcaB01g03077' => 'bca', 'BcaB02g10093' => 'bca', 'BcaB04g20295' => 'bca', 'BcaB06g28147' => 'bca', 'BcaB07g31253' => 'bca', 'BcaC01g04946' => 'bca', 'BcaC02g10614' => 'bca', 'BcaC02g10885' => 'bca', 'BcaC04g19356' => 'bca', 'BcaC04g22297' => 'bca', 'BcaC05g24977' => 'bca', 'BcaC06g31823' => 'bca', 'BcaC07g38633' => 'bca', 'BcaC09g49353' => 'bca', 'BcaC09g50168' => 'bca', 'BcaNung00322' => 'bca', 'BcaNung04769' => 'bca', 'BolC1t02753H' => 'bol', 'BolC1t03721H' => 'bol', 'BolC3t15525H' => 'bol', 'BolC4t23903H' => 'bol', 'BolC4t24231H' => 'bol', 'BolC4t27209H' => 'bol', 'BolC5t29671H' => 'bol', 'BolC8t49044H' => 'bol', 'BolC9t54999H' => 'bol', 'BolC9t59517H' => 'bol', 'BraA01t02178Z' => 'bra', 'BraA01t03099Z' => 'bra', 'BraA03t11867Z' => 'bra', 'BraA04t17667Z' => 'bra', 'BraA07t29542Z' => 'bra', 'BraA08t35287Z' => 'bra', 'BraA09t37334Z' => 'bra', 'BraA10t44801Z' => 'bra', 'BraSC39t46181Z' => 'bra', 'C01p28240' => 'bna', 'C01p37530' => 'bna', 'C03p31820' => 'bna', 'C04p24080' => 'bna', 'C04p25790' => 'bna', 'C04p56770' => 'bna', 'C05p09310' => 'bna', 'C09p21010' => 'bna', 'C09p67560' => 'bna', 'CAN.G1324.7' => 'can', 'CAN.G1358.10' => 'can', 'CAN.G1550.2' => 'can', 'CAN.G186.56' => 'can', 'CAN.G1965.1' => 'can', 'CAN.G645.15' => 'can', 'CAN.G798.26' => 'can', 'CAN.G798.27' => 'can', 'CAN.G798.29' => 'can', 'CAN.G919.31' => 'can', 'CANSAT11G0133' => 'cansat', 'CANSAT11G1171' => 'cansat', 'CANSAT11G2056' => 'cansat', 'CANSAT56G1202' => 'cansat', 'CANSAT56G1514' => 'cansat', 'CANSAT78G0455' => 'cansat', 'CARHR011190' => 'chi', 'CARHR051980' => 'chi', 'CARHR120170' => 'chi', 'CARHR203310' => 'chi', 'CARHR221490' => 'chi', 'Carub.0001s1054' => 'cru', 'Carub.0002s0431' => 'cru', 'Carub.0004s0818' => 'cru', 'Carub.0006s0846' => 'cru', 'Carub.0007s2722' => 'cru', 'Ca_00058_v3' => 'car', 'Ca_17831_v3' => 'car', 'Ca_19408_v3' => 'car', 'Ca_24397_v3' => 'car', 'Ca_25664_v3' => 'car', 'CBR_g21818' => 'cbr', 'CBR_g31195' => 'cbr', 'CBR_g32282' => 'cbr', 'CBR_g39599' => 'cbr', 'CBR_g49410' => 'cbr', 'Cc01_g09120' => 'ccan', 'Cc01_g09130' => 'ccan', 'Cc02_g09630' => 'ccan', 'Cc02_g22810' => 'ccan', 'Cc03_g03810' => 'ccan', 'CDE02G3718' => 'cde', 'CDE04G3183' => 'cde', 'CDE07G1046' => 'cde', 'CDE08G0480' => 'cde', 'Cfa005493' => 'cfa', 'Cfa010312' => 'cfa', 'Cfa015648' => 'cfa', 'Ciclev10002793m.g' => 'ccl', 'Ciclev10003356m.g' => 'ccl', 'Ciclev10006141m.g' => 'ccl', 'Ciclev10016676m.g' => 'ccl', 'Ciclev10017081m.g' => 'ccl', 'Ciclev10029499m.g' => 'ccl', 'CiPaw.01G166300' => 'cil', 'CiPaw.06G145600' => 'cil', 'CiPaw.13G040100' => 'cil', 'CiPaw.13G135800' => 'cil', 'ClCG01G012230' => 'cla', 'ClCG05G009510' => 'cla', 'ClCG08G008270' => 'cla', 'COL.COLO4_11763' => 'col', 'COL.COLO4_19876' => 'col', 'COL.COLO4_21481' => 'col', 'Cpa.g.sc118.34' => 'cpa', 'Cpa.g.sc32.13' => 'cpa', 'Cpa.g.sc58.103' => 'cpa', 'Cre03.g183850' => 'cre', 'Cre06.g306350' => 'cre', 'Cre07.g334800' => 'cre', 'Cre12.g487900' => 'cre', 'Cre14.g626700' => 'cre', 'Cre16.g658400' => 'cre', 'Cre17.g700950' => 'cre', 'CsaV3_1G014830' => 'csa', 'CsaV3_3G013320' => 'csa', 'CsaV3_3G019210' => 'csa', 'CsaV3_3G019220' => 'csa', 'CsaV3_6G004230' => 'csa', 'CSS0003773' => 'camsi', 'CSS0004563' => 'camsi', 'CSS0013949' => 'camsi', 'CSS0025971' => 'camsi', 'CSS0028570' => 'camsi', 'CSS0033127' => 'camsi', 'CSS0036051' => 'camsi', 'CSS0040087' => 'camsi', 'CSS0043179' => 'camsi', 'DCAR_006161' => 'dca', 'DCAR_010351' => 'dca', 'DCAR_012197' => 'dca', 'DCAR_024162' => 'dca', 'Dinv01030' => 'din', 'Dinv10924' => 'din', 'Dinv11835' => 'din', 'Dinv22841' => 'din', 'Dinv42553' => 'din', 'Duzib052G0560' => 'dzi', 'Duzib132G0389' => 'dzi', 'Duzib150G1181' => 'dzi', 'Duzib168G0623' => 'dzi', 'Duzib170G1036' => 'dzi', 'Duzib212G0200' => 'dzi', 'Duzib248G0194' => 'dzi', 'ECA232G2193' => 'eca', 'ECA233G0302' => 'eca', 'ECA234G2813' => 'eca', 'ECA234G4866' => 'eca', 'ECA240G3932' => 'eca', 'ECA248G0385' => 'eca', 'EL10Ac2g04781' => 'bvu', 'EL10Ac3g06445' => 'bvu', 'EL10Ac7g15825' => 'bvu', 'EL10Ac8g18550' => 'bvu', 'Eucgr.B03849' => 'egr', 'Eucgr.I02744' => 'egr', 'Eucgr.J00264' => 'egr', 'Eucgr.J00493' => 'egr', 'FAN04G2181' => 'fan', 'FAN07G2666' => 'fan', 'FAN11G0024' => 'fan', 'FAN12G1105' => 'fan', 'FAN13G0302' => 'fan', 'FAN15G2781' => 'fan', 'FAN16G1274' => 'fan', 'FAN17G2988' => 'fan', 'FAN18G2621' => 'fan', 'FAN21G0013' => 'fan', 'FAN22G1211' => 'fan', 'FAN25G3626' => 'fan', 'FvH4_2g09491' => 'fve', 'FvH4_3g24910' => 'fve', 'FvH4_4g15630' => 'fve', 'FvH4_5g28820' => 'fve', 'Glyma.01G238000' => 'gma', 'Glyma.05G168400' => 'gma', 'Glyma.08G126800' => 'gma', 'Glyma.08G188500' => 'gma', 'Glyma.10G278900' => 'gma', 'Glyma.11G005700' => 'gma', 'Glyma.11G183300' => 'gma', 'Glyma.12G089200' => 'gma', 'Glyma.12G169400' => 'gma', 'Glyma.12G169500' => 'gma', 'Glyma.12G169600' => 'gma', 'Glyma.20G110800' => 'gma', 'Gohir.A03G192900' => 'ghi', 'Gohir.A03G193000' => 'ghi', 'Gohir.A05G080700' => 'ghi', 'Gohir.A09G216000' => 'ghi', 'Gohir.A12G027700' => 'ghi', 'Gohir.A13G036200' => 'ghi', 'Gohir.A13G222600' => 'ghi', 'Gohir.D02G213900' => 'ghi', 'Gohir.D02G214000' => 'ghi', 'Gohir.D05G083700' => 'ghi', 'Gohir.D05G083800' => 'ghi', 'Gohir.D05G083850' => 'ghi', 'Gohir.D08G015400' => 'ghi', 'Gohir.D09G218400' => 'ghi', 'Gohir.D12G027100' => 'ghi', 'Gohir.D13G034500' => 'ghi', 'Gohir.D13G227400' => 'ghi', 'Gorai.005G241800' => 'gra', 'Gorai.005G241900' => 'gra', 'Gorai.006G239400' => 'gra', 'Gorai.008G027600' => 'gra', 'Gorai.009G085400' => 'gra', 'Gorai.009G085500' => 'gra', 'Gorai.013G039000' => 'gra', 'Gorai.013G194800' => 'gra', 'Gorai.013G257900' => 'gra', 'GSVIVG01000982001' => 'vvi', 'GSVIVG01017981001' => 'vvi', 'HanXRQChr01g0024061' => 'han', 'HanXRQChr09g0247831' => 'han', 'HanXRQChr10g0294611' => 'han', 'HanXRQChr10g0294621' => 'han', 'HanXRQChr11g0346821' => 'han', 'HanXRQChr13g0397461' => 'han', 'HanXRQChr16g0513651' => 'han', 'HanXRQChr16g0513701' => 'han', 'Haze_00897' => 'cav', 'Haze_01745' => 'cav', 'Haze_02486' => 'cav', 'Haze_02487' => 'cav', 'Haze_23374' => 'cav', 'Hma1.2p1_0578F.1_g182520' => 'hma', 'Hma1.2p1_0602F.1_g187350' => 'hma', 'Hma1.2p1_0602F.1_g187360' => 'hma', 'Hma1.2p1_0874F.1_g231320' => 'hma', 'Hma1.2p1_1197F.1_g266210' => 'hma', 'Hma1.2p1_1197F.1_g266220' => 'hma', 'Hma1.2p1_2167F.1_g315895' => 'hma', 'Hma1.2p1_2190F.1_g316640' => 'hma', 'Hma1.2p1_3645F.1_g337153' => 'hma', 'HPP92_004907' => 'vpl', 'HPP92_012134' => 'vpl', 'HPP92_025136' => 'vpl', 'HPP92_026087' => 'vpl', 'Hund06782' => 'sun', 'Hund06784' => 'sun', 'Lalb_Chr01g0004861' => 'lal', 'Lalb_Chr02g0140591' => 'lal', 'Lalb_Chr02g0140611' => 'lal', 'Lalb_Chr03g0028101' => 'lal', 'Lalb_Chr07g0185791' => 'lal', 'Lalb_Chr12g0204491' => 'lal', 'Lalb_Chr13g0295671' => 'lal', 'Lalb_Chr19g0136461' => 'lal', 'Lalb_Chr21g0309191' => 'lal', 'Lj1g0028158' => 'lja', 'Lj1P236T38' => 'lonja', 'Lj2C32G2' => 'lonja', 'Lj2P944T8' => 'lonja', 'Lj2P963T15' => 'lonja', 'Lj3g0011788' => 'lja', 'Lj4g0025027' => 'lja', 'Lj5P255T36' => 'lonja', 'Lj6g0018866' => 'lja', 'Lj6P608T31' => 'lonja', 'LjContig00408g0008879' => 'lja', 'Lsat_1_v5_gn_5_105820' => 'lsa', 'Lsat_1_v5_gn_6_38800' => 'lsa', 'Lsat_1_v5_gn_7_67141' => 'lsa', 'Manes.04G003400' => 'mes', 'Manes.07G020000' => 'mes', 'Manes.07G020100' => 'mes', 'Manes.07G020150' => 'mes', 'Manes.10G061500' => 'mes', 'Manes.10G123200' => 'mes', 'Manes.11G161900' => 'mes', 'Manes.15G029300' => 'mes', 'Mapoly0071s0018' => 'mpo', 'Mapoly0082s0023' => 'mpo', 'Mapoly3477s0001' => 'mpo', 'MBI05_g31233_MAGBIO' => 'mbi', 'MBI09_g05946_MAGBIO' => 'mbi', 'MBI09_g05947_MAGBIO' => 'mbi', 'MBI17_g08346_MAGBIO' => 'mbi', 'MCO04G038' => 'mco', 'MCO09G370' => 'mco', 'MCO13G605' => 'mco', 'MD00G1075500' => 'mdo', 'MD03G1144300' => 'mdo', 'MD08G1236800' => 'mdo', 'MD13G1193300' => 'mdo', 'MD15G1428700' => 'mdo', 'Medtr1g112030' => 'mtr', 'Medtr1g112050' => 'mtr', 'Medtr2g006290' => 'mtr', 'Medtr2g086510' => 'mtr', 'Medtr4g053120' => 'mtr', 'Medtr5g006320' => 'mtr', 'Medtr8g088720' => 'mtr', 'MELO3C004712.2' => 'cme', 'MELO3C006533.2' => 'cme', 'MELO3C019438.2' => 'cme', 'MELO3C019440.2' => 'cme', 'MELO3C019441.2' => 'cme', 'MELO3C019895.2' => 'cme', 'Migut.B00811' => 'egut', 'Migut.D02447' => 'egut', 'Migut.F00875' => 'egut', 'Migut.N00186' => 'egut', 'Migut.N01051' => 'egut', 'Migut.N02491' => 'egut', 'Migut.O00784' => 'egut', 'MSTRG.12367' => 'ama', 'MSTRG.18756' => 'ama', 'MSTRG.21042' => 'ama', 'Nitab4.5_0000559g0040' => 'nta', 'Nitab4.5_0000667g0190' => 'nta', 'Nitab4.5_0000755g0160' => 'nta', 'Nitab4.5_0001216g0080' => 'nta', 'Nitab4.5_0004069g0040' => 'nta', 'Nitab4.5_0004129g0010' => 'nta', 'Nitab4.5_0005744g0030' => 'nta', 'Nitab4.5_0006996g0030' => 'nta', 'Nitab4.5_0008971g0040' => 'nta', 'Nitab4.5_0009769g0020' => 'nta', 'Nitab4.5_0009833g0010' => 'nta', 'Nitab4.5_0013140g0020' => 'nta', 'Nn003s41376' => 'nnu', 'Nn1g01857' => 'nnu', 'Nn1g03611' => 'nnu', 'Nn1g06853' => 'nnu', 'Nn3g18360' => 'nnu', 'Nn4g26328' => 'nnu', 'Nn5g27531' => 'nnu', 'Nn6g34899' => 'nnu', 'Nn7g36299' => 'nnu', 'Oeu021485.1' => 'oeu', 'Oeu022433.1' => 'oeu', 'Oeu032111.1' => 'oeu', 'Oeu051608.1' => 'oeu', 'Os01g0860601' => 'osa', 'Os03g0659200' => 'osa', 'Os03g0835900' => 'osa', 'Os04g0412200' => 'osa', 'Os05g0443500' => 'osa', 'Os07g0251500' => 'osa', 'Os08g0104600' => 'osa', 'Peaxi162Scf00003g00047' => 'pax', 'Peaxi162Scf00003g00052' => 'pax', 'Peaxi162Scf00003g00394' => 'pax', 'Peaxi162Scf00091g00621' => 'pax', 'Peaxi162Scf00152g00146' => 'pax', 'Peaxi162Scf00173g00025' => 'pax', 'Peaxi162Scf00195g00102' => 'pax', 'Peaxi162Scf00402g00013' => 'pax', 'Peaxi162Scf00519g00618' => 'pax', 'PGR004G2838' => 'pgr', 'PGR044G2275' => 'pgr', 'PGR102G1377' => 'pgr', 'PGR119G1245' => 'pgr', 'PGR142G4449' => 'pgr', 'PGSC0003DMG400004532' => 'stu', 'PGSC0003DMG400011950' => 'stu', 'PGSC0003DMG400023391' => 'stu', 'PGSC0003DMG400023985' => 'stu', 'PGSC0003DMG400026360' => 'stu', 'PGSC0003DMG400035711' => 'stu', 'PGSC0003DMG400037286' => 'stu', 'PGSC0003DMG402005881' => 'stu', 'Phvul.002G045400' => 'pvu', 'Phvul.006G216600' => 'pvu', 'Phvul.006G216700' => 'pvu', 'Phvul.006G216800' => 'pvu', 'Phvul.007G022500' => 'pvu', 'Phvul.011G094400' => 'pvu', 'Potri.001G470700' => 'ptr', 'Potri.003G015200' => 'ptr', 'Potri.004G202500' => 'ptr', 'Potri.004G218400' => 'ptr', 'Potri.008G020100' => 'ptr', 'Potri.008G153200' => 'ptr', 'Potri.009G163800' => 'ptr', 'Potri.010G087300' => 'ptr', 'Potri.010G239100' => 'ptr', 'Pp3c10_16100' => 'ppa', 'Pp3c10_16880' => 'ppa', 'Pp3c16_6230' => 'ppa', 'Pp3c17_18910' => 'ppa', 'Pp3c3_22119' => 'ppa', 'Pp3c3_22140' => 'ppa', 'Pp3c4_8159' => 'ppa', 'Pp3c4_8171' => 'ppa', 'Pp3c4_8330' => 'ppa', 'PRCOL_00004098' => 'pco', 'Prupe.1G013900' => 'ppe', 'Prupe.1G226300' => 'ppe', 'Prupe.1G573600' => 'ppe', 'Prupe.6G130100' => 'ppe', 'Psat3g090040' => 'psa', 'Psat4g210440' => 'psa', 'Psat6g231040' => 'psa', 'Psat6g231080' => 'psa', 'Psat7g063000' => 'psa', 'Psat7g188000' => 'psa', 'Psat7g188040' => 'psa', 'PSO017G0206' => 'pso', 'PSO170G0501' => 'pso', 'PSO170G6422' => 'pso', 'PSO210G7739' => 'pso', 'PSO339G1808' => 'pso', 'PSO339G6135' => 'pso', 'PSO384G0010' => 'pso', 'PSO384G0964' => 'pso', 'PSO761G0050' => 'pso', 'PSO782G4085' => 'pso', 'QL01p012264' => 'qlo', 'QL02p099491' => 'qlo', 'QL03p033868' => 'qlo', 'QL04p046678' => 'qlo', 'QL06p002448' => 'qlo', 'RcHm_v2.0_Chr4g0416181' => 'rch', 'RcHm_v2.0_Chr5g0044701' => 'rch', 'RcHm_v2.0_Chr6g0265781' => 'rch', 'RcHm_v2.0_Chr7g0221031' => 'rch', 'Rhsim04G0202000' => 'rsi', 'Rhsim11G0127300' => 'rsi', 'Rhsim13G0111800' => 'rsi', 'Sabra01G0165600' => 'sbr', 'Sabra03G0008300' => 'sbr', 'Sabra04G0136900' => 'sbr', 'Sabra08G0013400' => 'sbr', 'Sabra08G0116800' => 'sbr', 'Sabra09G0128000' => 'sbr', 'Sabra10G0055500' => 'sbr', 'Sabra10G0073300' => 'sbr', 'SalBow3G0385' => 'sbo', 'SalBow3G1119' => 'sbo', 'SalBow3G2005' => 'sbo', 'SalBow6G2563' => 'sbo', 'SalBow6G6386' => 'sbo', 'Sc06g0008800' => 'sci', 'Sc07g0004950' => 'sci', 'Sc09g0005340' => 'sci', 'Sc13g0004410' => 'sci', 'Sc21g0007090' => 'sci', 'Sed0009285' => 'sed', 'Sed0017583' => 'sed', 'Sed0019699' => 'sed', 'Sed0023107' => 'sed', 'SEGI_10916' => 'sgi', 'SEGI_16217' => 'sgi', 'SEGI_19466' => 'sgi', 'SEGI_41115' => 'sgi', 'SGA_v2.0_scaffold111G31534' => 'sas', 'SGA_v2.0_scaffold22G09864' => 'sas', 'SGA_v2.0_scaffold338G49219' => 'sas', 'SGA_v2.0_scaffold92G28298' => 'sas', 'SMO119G0064' => 'smo', 'SMO223G0038' => 'smo', 'SMO347G0584' => 'smo', 'SMO351G0010' => 'smo', 'SMO356G0404' => 'smo', 'Solyc01g103920.3' => 'sly', 'Solyc04g009710.2' => 'sly', 'Solyc05g055280.2' => 'sly', 'Solyc10g044520.3' => 'sly', 'Solyc10g075160.1' => 'sly', 'Solyc11g006910.3' => 'sly', 'Solyc11g068430.3' => 'sly', 'Sopen01g046310' => 'spe', 'Sopen03g001200' => 'spe', 'Sopen04g004830' => 'spe', 'Sopen05g033720' => 'spe', 'Sopen06g030740' => 'spe', 'Sopen10g013090' => 'spe', 'Sopen10g027630' => 'spe', 'Sopen10g027640' => 'spe', 'Sopen11g002820' => 'spe', 'Sopen11g027140' => 'spe', 'Sp1g09680' => 'spa', 'Sp2g03630' => 'spa', 'Sp4g10320' => 'spa', 'Sp6g33400' => 'spa', 'Sp7g13030' => 'spa', 'TAR365G0317' => 'tar', 'TAR376G0979' => 'tar', 'TAR623G1665' => 'tar', 'TAR633G2373' => 'tar', 'TAR636G1400' => 'tar', 'THA.LOC104800529' => 'tha', 'THA.LOC104808547' => 'tha', 'THA.LOC104809615' => 'tha', 'THA.LOC104815724' => 'tha', 'THA.LOC104818480' => 'tha', 'THA.LOC104819179' => 'tha', 'THA.LOC104822270' => 'tha', 'THA.LOC104826425' => 'tha', 'Thecc.02G089700' => 'tca', 'Thecc.04G232300' => 'tca', 'Thecc.09G283400' => 'tca', 'Thhalv10009020m.g' => 'esa', 'Thhalv10015506m.g' => 'esa', 'Thhalv10017364m.g' => 'esa', 'Thhalv10023742m.g' => 'esa', 'Thhalv10026483m.g' => 'esa', 'TPR.G17232' => 'tpr', 'TPR.G2133' => 'tpr', 'TPR.G2498' => 'tpr', 'TPR.G31942' => 'tpr', 'TPR.G37877' => 'tpr', 'TPR.G4571' => 'tpr', 'TWI14G1113' => 'twi', 'TWI15G0426' => 'twi', 'TWI31G1005' => 'twi', 'TWI38G0513' => 'twi', 'TWI38G1484' => 'twi', 'TWI73G1098' => 'twi', 'unitig_26.g10519' => 'ugi', 'unitig_736.g22395' => 'ugi', 'unitig_747.g21234' => 'ugi', 'unitig_747.g21942' => 'ugi', 'vmacro14351' => 'vma', 'VMungo0540G0082' => 'vmu', 'VMungo0540G0405' => 'vmu', 'VMungo0540G1486' => 'vmu', 'VMungo0540G1692' => 'vmu', 'VMungo0720G2473' => 'vmu', 'VMungo1127G1562' => 'vmu', 'VMungo1215G1918' => 'vmu', 'Zm00001eb052650' => 'zma', 'Zm00001eb063710' => 'zma', 'Zm00001eb083950' => 'zma', 'Zm00001eb174420' => 'zma', 'Zm00001eb260140' => 'zma', 'Zm00001eb260150' => 'zma', 'Zm00001eb260160' => 'zma', 'Zm00001eb348290' => 'zma', 'Zm00001eb366870' => 'zma', 'Zm00001eb421930' => 'zma' ), 'gf_id' => 'HOM05D001025', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001025' ), 'data_identifier' => 'HOM05D001025', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001025', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '592', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p22650' => 'bna', 'A01p29720' => 'bna', 'A03p26560' => 'bna', 'A03p68820' => 'bna', 'A04p20980' => 'bna', 'A06p07730' => 'bna', 'A07p18260' => 'bna', 'A08p33710' => 'bna', 'A09p16970' => 'bna', 'A10p27490' => 'bna', 'Aa31LG1G17300' => 'aar', 'Aa31LG1G3910' => 'aar', 'Aa31LG2G9630' => 'aar', 'Aa31LG5G8360' => 'aar', 'Aa31LG9G2410' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4699' => 'aag', 'Actinidia23512' => 'ach', 'Actinidia37080' => 'ach', 'Ah.01g020380' => 'amhyb', 'Ah.08g215710' => 'amhyb', 'Ah.09g225110' => 'amhyb', 'Ah.10g036680' => 'amhyb', 'AL1G21940' => 'aly', 'AL2G15540' => 'aly', 'AL4G21520' => 'aly', 'AL7G40960' => 'aly', 'Aqoxy2G01191' => 'aox', 'Aqoxy2G03393' => 'aox', 'Aqoxy4G02775' => 'aox', 'Aqoxy6G00058' => 'aox', 'arahy.Tifrunner.gnm1.ann1.9X74H2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CW3FX9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R485W7' => 'arhy', 'AT1G10960' => 'ath', 'AT1G60950' => 'ath', 'AT2G27510' => 'ath', 'AT4G14890' => 'ath', 'AT5G10000' => 'ath', 'ATR0665G624' => 'atr', 'ATR0697G138' => 'atr', 'ATR0776G046' => 'atr', 'ATR1134G135' => 'atr', 'Atru.chr12.1025' => 'acertr', 'Atru.chr3.3241' => 'acertr', 'Atru.chr4.2460' => 'acertr', 'AUR62007427' => 'cqu', 'AUR62010960' => 'cqu', 'AUR62012201' => 'cqu', 'AUR62021470' => 'cqu', 'AUR62022834' => 'cqu', 'AUR62033635' => 'cqu', 'AUR62036186' => 'cqu', 'BcaB01g03077' => 'bca', 'BcaB02g10093' => 'bca', 'BcaB04g20295' => 'bca', 'BcaB06g28147' => 'bca', 'BcaB07g31253' => 'bca', 'BcaC01g04946' => 'bca', 'BcaC02g10614' => 'bca', 'BcaC02g10885' => 'bca', 'BcaC04g19356' => 'bca', 'BcaC04g22297' => 'bca', 'BcaC05g24977' => 'bca', 'BcaC06g31823' => 'bca', 'BcaC07g38633' => 'bca', 'BcaC09g49353' => 'bca', 'BcaC09g50168' => 'bca', 'BcaNung00322' => 'bca', 'BcaNung04769' => 'bca', 'BolC1t02753H' => 'bol', 'BolC1t03721H' => 'bol', 'BolC3t15525H' => 'bol', 'BolC4t23903H' => 'bol', 'BolC4t24231H' => 'bol', 'BolC4t27209H' => 'bol', 'BolC5t29671H' => 'bol', 'BolC8t49044H' => 'bol', 'BolC9t54999H' => 'bol', 'BolC9t59517H' => 'bol', 'BraA01t02178Z' => 'bra', 'BraA01t03099Z' => 'bra', 'BraA03t11867Z' => 'bra', 'BraA04t17667Z' => 'bra', 'BraA07t29542Z' => 'bra', 'BraA08t35287Z' => 'bra', 'BraA09t37334Z' => 'bra', 'BraA10t44801Z' => 'bra', 'BraSC39t46181Z' => 'bra', 'C01p28240' => 'bna', 'C01p37530' => 'bna', 'C03p31820' => 'bna', 'C04p24080' => 'bna', 'C04p25790' => 'bna', 'C04p56770' => 'bna', 'C05p09310' => 'bna', 'C09p21010' => 'bna', 'C09p67560' => 'bna', 'CAN.G1324.7' => 'can', 'CAN.G1358.10' => 'can', 'CAN.G1550.2' => 'can', 'CAN.G186.56' => 'can', 'CAN.G1965.1' => 'can', 'CAN.G645.15' => 'can', 'CAN.G798.26' => 'can', 'CAN.G798.27' => 'can', 'CAN.G798.29' => 'can', 'CAN.G919.31' => 'can', 'CANSAT11G0133' => 'cansat', 'CANSAT11G1171' => 'cansat', 'CANSAT11G2056' => 'cansat', 'CANSAT56G1202' => 'cansat', 'CANSAT56G1514' => 'cansat', 'CANSAT78G0455' => 'cansat', 'CARHR011190' => 'chi', 'CARHR051980' => 'chi', 'CARHR120170' => 'chi', 'CARHR203310' => 'chi', 'CARHR221490' => 'chi', 'Carub.0001s1054' => 'cru', 'Carub.0002s0431' => 'cru', 'Carub.0004s0818' => 'cru', 'Carub.0006s0846' => 'cru', 'Carub.0007s2722' => 'cru', 'Ca_00058_v3' => 'car', 'Ca_17831_v3' => 'car', 'Ca_19408_v3' => 'car', 'Ca_24397_v3' => 'car', 'Ca_25664_v3' => 'car', 'CBR_g21818' => 'cbr', 'CBR_g31195' => 'cbr', 'CBR_g32282' => 'cbr', 'CBR_g39599' => 'cbr', 'CBR_g49410' => 'cbr', 'Cc01_g09120' => 'ccan', 'Cc01_g09130' => 'ccan', 'Cc02_g09630' => 'ccan', 'Cc02_g22810' => 'ccan', 'Cc03_g03810' => 'ccan', 'CDE02G3718' => 'cde', 'CDE04G3183' => 'cde', 'CDE07G1046' => 'cde', 'CDE08G0480' => 'cde', 'Cfa005493' => 'cfa', 'Cfa010312' => 'cfa', 'Cfa015648' => 'cfa', 'Ciclev10002793m.g' => 'ccl', 'Ciclev10003356m.g' => 'ccl', 'Ciclev10006141m.g' => 'ccl', 'Ciclev10016676m.g' => 'ccl', 'Ciclev10017081m.g' => 'ccl', 'Ciclev10029499m.g' => 'ccl', 'CiPaw.01G166300' => 'cil', 'CiPaw.06G145600' => 'cil', 'CiPaw.13G040100' => 'cil', 'CiPaw.13G135800' => 'cil', 'ClCG01G012230' => 'cla', 'ClCG05G009510' => 'cla', 'ClCG08G008270' => 'cla', 'COL.COLO4_11763' => 'col', 'COL.COLO4_19876' => 'col', 'COL.COLO4_21481' => 'col', 'Cpa.g.sc118.34' => 'cpa', 'Cpa.g.sc32.13' => 'cpa', 'Cpa.g.sc58.103' => 'cpa', 'Cre03.g183850' => 'cre', 'Cre06.g306350' => 'cre', 'Cre07.g334800' => 'cre', 'Cre12.g487900' => 'cre', 'Cre14.g626700' => 'cre', 'Cre16.g658400' => 'cre', 'Cre17.g700950' => 'cre', 'CsaV3_1G014830' => 'csa', 'CsaV3_3G013320' => 'csa', 'CsaV3_3G019210' => 'csa', 'CsaV3_3G019220' => 'csa', 'CsaV3_6G004230' => 'csa', 'CSS0003773' => 'camsi', 'CSS0004563' => 'camsi', 'CSS0013949' => 'camsi', 'CSS0025971' => 'camsi', 'CSS0028570' => 'camsi', 'CSS0033127' => 'camsi', 'CSS0036051' => 'camsi', 'CSS0040087' => 'camsi', 'CSS0043179' => 'camsi', 'DCAR_006161' => 'dca', 'DCAR_010351' => 'dca', 'DCAR_012197' => 'dca', 'DCAR_024162' => 'dca', 'Dinv01030' => 'din', 'Dinv10924' => 'din', 'Dinv11835' => 'din', 'Dinv22841' => 'din', 'Dinv42553' => 'din', 'Duzib052G0560' => 'dzi', 'Duzib132G0389' => 'dzi', 'Duzib150G1181' => 'dzi', 'Duzib168G0623' => 'dzi', 'Duzib170G1036' => 'dzi', 'Duzib212G0200' => 'dzi', 'Duzib248G0194' => 'dzi', 'ECA232G2193' => 'eca', 'ECA233G0302' => 'eca', 'ECA234G2813' => 'eca', 'ECA234G4866' => 'eca', 'ECA240G3932' => 'eca', 'ECA248G0385' => 'eca', 'EL10Ac2g04781' => 'bvu', 'EL10Ac3g06445' => 'bvu', 'EL10Ac7g15825' => 'bvu', 'EL10Ac8g18550' => 'bvu', 'Eucgr.B03849' => 'egr', 'Eucgr.I02744' => 'egr', 'Eucgr.J00264' => 'egr', 'Eucgr.J00493' => 'egr', 'FAN04G2181' => 'fan', 'FAN07G2666' => 'fan', 'FAN11G0024' => 'fan', 'FAN12G1105' => 'fan', 'FAN13G0302' => 'fan', 'FAN15G2781' => 'fan', 'FAN16G1274' => 'fan', 'FAN17G2988' => 'fan', 'FAN18G2621' => 'fan', 'FAN21G0013' => 'fan', 'FAN22G1211' => 'fan', 'FAN25G3626' => 'fan', 'FvH4_2g09491' => 'fve', 'FvH4_3g24910' => 'fve', 'FvH4_4g15630' => 'fve', 'FvH4_5g28820' => 'fve', 'Glyma.01G238000' => 'gma', 'Glyma.05G168400' => 'gma', 'Glyma.08G126800' => 'gma', 'Glyma.08G188500' => 'gma', 'Glyma.10G278900' => 'gma', 'Glyma.11G005700' => 'gma', 'Glyma.11G183300' => 'gma', 'Glyma.12G089200' => 'gma', 'Glyma.12G169400' => 'gma', 'Glyma.12G169500' => 'gma', 'Glyma.12G169600' => 'gma', 'Glyma.20G110800' => 'gma', 'Gohir.A03G192900' => 'ghi', 'Gohir.A03G193000' => 'ghi', 'Gohir.A05G080700' => 'ghi', 'Gohir.A09G216000' => 'ghi', 'Gohir.A12G027700' => 'ghi', 'Gohir.A13G036200' => 'ghi', 'Gohir.A13G222600' => 'ghi', 'Gohir.D02G213900' => 'ghi', 'Gohir.D02G214000' => 'ghi', 'Gohir.D05G083700' => 'ghi', 'Gohir.D05G083800' => 'ghi', 'Gohir.D05G083850' => 'ghi', 'Gohir.D08G015400' => 'ghi', 'Gohir.D09G218400' => 'ghi', 'Gohir.D12G027100' => 'ghi', 'Gohir.D13G034500' => 'ghi', 'Gohir.D13G227400' => 'ghi', 'Gorai.005G241800' => 'gra', 'Gorai.005G241900' => 'gra', 'Gorai.006G239400' => 'gra', 'Gorai.008G027600' => 'gra', 'Gorai.009G085400' => 'gra', 'Gorai.009G085500' => 'gra', 'Gorai.013G039000' => 'gra', 'Gorai.013G194800' => 'gra', 'Gorai.013G257900' => 'gra', 'GSVIVG01000982001' => 'vvi', 'GSVIVG01017981001' => 'vvi', 'HanXRQChr01g0024061' => 'han', 'HanXRQChr09g0247831' => 'han', 'HanXRQChr10g0294611' => 'han', 'HanXRQChr10g0294621' => 'han', 'HanXRQChr11g0346821' => 'han', 'HanXRQChr13g0397461' => 'han', 'HanXRQChr16g0513651' => 'han', 'HanXRQChr16g0513701' => 'han', 'Haze_00897' => 'cav', 'Haze_01745' => 'cav', 'Haze_02486' => 'cav', 'Haze_02487' => 'cav', 'Haze_23374' => 'cav', 'Hma1.2p1_0578F.1_g182520' => 'hma', 'Hma1.2p1_0602F.1_g187350' => 'hma', 'Hma1.2p1_0602F.1_g187360' => 'hma', 'Hma1.2p1_0874F.1_g231320' => 'hma', 'Hma1.2p1_1197F.1_g266210' => 'hma', 'Hma1.2p1_1197F.1_g266220' => 'hma', 'Hma1.2p1_2167F.1_g315895' => 'hma', 'Hma1.2p1_2190F.1_g316640' => 'hma', 'Hma1.2p1_3645F.1_g337153' => 'hma', 'HPP92_004907' => 'vpl', 'HPP92_012134' => 'vpl', 'HPP92_025136' => 'vpl', 'HPP92_026087' => 'vpl', 'Hund06782' => 'sun', 'Hund06784' => 'sun', 'Lalb_Chr01g0004861' => 'lal', 'Lalb_Chr02g0140591' => 'lal', 'Lalb_Chr02g0140611' => 'lal', 'Lalb_Chr03g0028101' => 'lal', 'Lalb_Chr07g0185791' => 'lal', 'Lalb_Chr12g0204491' => 'lal', 'Lalb_Chr13g0295671' => 'lal', 'Lalb_Chr19g0136461' => 'lal', 'Lalb_Chr21g0309191' => 'lal', 'Lj1g0028158' => 'lja', 'Lj1P236T38' => 'lonja', 'Lj2C32G2' => 'lonja', 'Lj2P944T8' => 'lonja', 'Lj2P963T15' => 'lonja', 'Lj3g0011788' => 'lja', 'Lj4g0025027' => 'lja', 'Lj5P255T36' => 'lonja', 'Lj6g0018866' => 'lja', 'Lj6P608T31' => 'lonja', 'LjContig00408g0008879' => 'lja', 'Lsat_1_v5_gn_5_105820' => 'lsa', 'Lsat_1_v5_gn_6_38800' => 'lsa', 'Lsat_1_v5_gn_7_67141' => 'lsa', 'Manes.04G003400' => 'mes', 'Manes.07G020000' => 'mes', 'Manes.07G020100' => 'mes', 'Manes.07G020150' => 'mes', 'Manes.10G061500' => 'mes', 'Manes.10G123200' => 'mes', 'Manes.11G161900' => 'mes', 'Manes.15G029300' => 'mes', 'Mapoly0071s0018' => 'mpo', 'Mapoly0082s0023' => 'mpo', 'Mapoly3477s0001' => 'mpo', 'MBI05_g31233_MAGBIO' => 'mbi', 'MBI09_g05946_MAGBIO' => 'mbi', 'MBI09_g05947_MAGBIO' => 'mbi', 'MBI17_g08346_MAGBIO' => 'mbi', 'MCO04G038' => 'mco', 'MCO09G370' => 'mco', 'MCO13G605' => 'mco', 'MD00G1075500' => 'mdo', 'MD03G1144300' => 'mdo', 'MD08G1236800' => 'mdo', 'MD13G1193300' => 'mdo', 'MD15G1428700' => 'mdo', 'Medtr1g112030' => 'mtr', 'Medtr1g112050' => 'mtr', 'Medtr2g006290' => 'mtr', 'Medtr2g086510' => 'mtr', 'Medtr4g053120' => 'mtr', 'Medtr5g006320' => 'mtr', 'Medtr8g088720' => 'mtr', 'MELO3C004712.2' => 'cme', 'MELO3C006533.2' => 'cme', 'MELO3C019438.2' => 'cme', 'MELO3C019440.2' => 'cme', 'MELO3C019441.2' => 'cme', 'MELO3C019895.2' => 'cme', 'Migut.B00811' => 'egut', 'Migut.D02447' => 'egut', 'Migut.F00875' => 'egut', 'Migut.N00186' => 'egut', 'Migut.N01051' => 'egut', 'Migut.N02491' => 'egut', 'Migut.O00784' => 'egut', 'MSTRG.12367' => 'ama', 'MSTRG.18756' => 'ama', 'MSTRG.21042' => 'ama', 'Nitab4.5_0000559g0040' => 'nta', 'Nitab4.5_0000667g0190' => 'nta', 'Nitab4.5_0000755g0160' => 'nta', 'Nitab4.5_0001216g0080' => 'nta', 'Nitab4.5_0004069g0040' => 'nta', 'Nitab4.5_0004129g0010' => 'nta', 'Nitab4.5_0005744g0030' => 'nta', 'Nitab4.5_0006996g0030' => 'nta', 'Nitab4.5_0008971g0040' => 'nta', 'Nitab4.5_0009769g0020' => 'nta', 'Nitab4.5_0009833g0010' => 'nta', 'Nitab4.5_0013140g0020' => 'nta', 'Nn003s41376' => 'nnu', 'Nn1g01857' => 'nnu', 'Nn1g03611' => 'nnu', 'Nn1g06853' => 'nnu', 'Nn3g18360' => 'nnu', 'Nn4g26328' => 'nnu', 'Nn5g27531' => 'nnu', 'Nn6g34899' => 'nnu', 'Nn7g36299' => 'nnu', 'Oeu021485.1' => 'oeu', 'Oeu022433.1' => 'oeu', 'Oeu032111.1' => 'oeu', 'Oeu051608.1' => 'oeu', 'Os01g0860601' => 'osa', 'Os03g0659200' => 'osa', 'Os03g0835900' => 'osa', 'Os04g0412200' => 'osa', 'Os05g0443500' => 'osa', 'Os07g0251500' => 'osa', 'Os08g0104600' => 'osa', 'Peaxi162Scf00003g00047' => 'pax', 'Peaxi162Scf00003g00052' => 'pax', 'Peaxi162Scf00003g00394' => 'pax', 'Peaxi162Scf00091g00621' => 'pax', 'Peaxi162Scf00152g00146' => 'pax', 'Peaxi162Scf00173g00025' => 'pax', 'Peaxi162Scf00195g00102' => 'pax', 'Peaxi162Scf00402g00013' => 'pax', 'Peaxi162Scf00519g00618' => 'pax', 'PGR004G2838' => 'pgr', 'PGR044G2275' => 'pgr', 'PGR102G1377' => 'pgr', 'PGR119G1245' => 'pgr', 'PGR142G4449' => 'pgr', 'PGSC0003DMG400004532' => 'stu', 'PGSC0003DMG400011950' => 'stu', 'PGSC0003DMG400023391' => 'stu', 'PGSC0003DMG400023985' => 'stu', 'PGSC0003DMG400026360' => 'stu', 'PGSC0003DMG400035711' => 'stu', 'PGSC0003DMG400037286' => 'stu', 'PGSC0003DMG402005881' => 'stu', 'Phvul.002G045400' => 'pvu', 'Phvul.006G216600' => 'pvu', 'Phvul.006G216700' => 'pvu', 'Phvul.006G216800' => 'pvu', 'Phvul.007G022500' => 'pvu', 'Phvul.011G094400' => 'pvu', 'Potri.001G470700' => 'ptr', 'Potri.003G015200' => 'ptr', 'Potri.004G202500' => 'ptr', 'Potri.004G218400' => 'ptr', 'Potri.008G020100' => 'ptr', 'Potri.008G153200' => 'ptr', 'Potri.009G163800' => 'ptr', 'Potri.010G087300' => 'ptr', 'Potri.010G239100' => 'ptr', 'Pp3c10_16100' => 'ppa', 'Pp3c10_16880' => 'ppa', 'Pp3c16_6230' => 'ppa', 'Pp3c17_18910' => 'ppa', 'Pp3c3_22119' => 'ppa', 'Pp3c3_22140' => 'ppa', 'Pp3c4_8159' => 'ppa', 'Pp3c4_8171' => 'ppa', 'Pp3c4_8330' => 'ppa', 'PRCOL_00004098' => 'pco', 'Prupe.1G013900' => 'ppe', 'Prupe.1G226300' => 'ppe', 'Prupe.1G573600' => 'ppe', 'Prupe.6G130100' => 'ppe', 'Psat3g090040' => 'psa', 'Psat4g210440' => 'psa', 'Psat6g231040' => 'psa', 'Psat6g231080' => 'psa', 'Psat7g063000' => 'psa', 'Psat7g188000' => 'psa', 'Psat7g188040' => 'psa', 'PSO017G0206' => 'pso', 'PSO170G0501' => 'pso', 'PSO170G6422' => 'pso', 'PSO210G7739' => 'pso', 'PSO339G1808' => 'pso', 'PSO339G6135' => 'pso', 'PSO384G0010' => 'pso', 'PSO384G0964' => 'pso', 'PSO761G0050' => 'pso', 'PSO782G4085' => 'pso', 'QL01p012264' => 'qlo', 'QL02p099491' => 'qlo', 'QL03p033868' => 'qlo', 'QL04p046678' => 'qlo', 'QL06p002448' => 'qlo', 'RcHm_v2.0_Chr4g0416181' => 'rch', 'RcHm_v2.0_Chr5g0044701' => 'rch', 'RcHm_v2.0_Chr6g0265781' => 'rch', 'RcHm_v2.0_Chr7g0221031' => 'rch', 'Rhsim04G0202000' => 'rsi', 'Rhsim11G0127300' => 'rsi', 'Rhsim13G0111800' => 'rsi', 'Sabra01G0165600' => 'sbr', 'Sabra03G0008300' => 'sbr', 'Sabra04G0136900' => 'sbr', 'Sabra08G0013400' => 'sbr', 'Sabra08G0116800' => 'sbr', 'Sabra09G0128000' => 'sbr', 'Sabra10G0055500' => 'sbr', 'Sabra10G0073300' => 'sbr', 'SalBow3G0385' => 'sbo', 'SalBow3G1119' => 'sbo', 'SalBow3G2005' => 'sbo', 'SalBow6G2563' => 'sbo', 'SalBow6G6386' => 'sbo', 'Sc06g0008800' => 'sci', 'Sc07g0004950' => 'sci', 'Sc09g0005340' => 'sci', 'Sc13g0004410' => 'sci', 'Sc21g0007090' => 'sci', 'Sed0009285' => 'sed', 'Sed0017583' => 'sed', 'Sed0019699' => 'sed', 'Sed0023107' => 'sed', 'SEGI_10916' => 'sgi', 'SEGI_16217' => 'sgi', 'SEGI_19466' => 'sgi', 'SEGI_41115' => 'sgi', 'SGA_v2.0_scaffold111G31534' => 'sas', 'SGA_v2.0_scaffold22G09864' => 'sas', 'SGA_v2.0_scaffold338G49219' => 'sas', 'SGA_v2.0_scaffold92G28298' => 'sas', 'SMO119G0064' => 'smo', 'SMO223G0038' => 'smo', 'SMO347G0584' => 'smo', 'SMO351G0010' => 'smo', 'SMO356G0404' => 'smo', 'Solyc01g103920.3' => 'sly', 'Solyc04g009710.2' => 'sly', 'Solyc05g055280.2' => 'sly', 'Solyc10g044520.3' => 'sly', 'Solyc10g075160.1' => 'sly', 'Solyc11g006910.3' => 'sly', 'Solyc11g068430.3' => 'sly', 'Sopen01g046310' => 'spe', 'Sopen03g001200' => 'spe', 'Sopen04g004830' => 'spe', 'Sopen05g033720' => 'spe', 'Sopen06g030740' => 'spe', 'Sopen10g013090' => 'spe', 'Sopen10g027630' => 'spe', 'Sopen10g027640' => 'spe', 'Sopen11g002820' => 'spe', 'Sopen11g027140' => 'spe', 'Sp1g09680' => 'spa', 'Sp2g03630' => 'spa', 'Sp4g10320' => 'spa', 'Sp6g33400' => 'spa', 'Sp7g13030' => 'spa', 'TAR365G0317' => 'tar', 'TAR376G0979' => 'tar', 'TAR623G1665' => 'tar', 'TAR633G2373' => 'tar', 'TAR636G1400' => 'tar', 'THA.LOC104800529' => 'tha', 'THA.LOC104808547' => 'tha', 'THA.LOC104809615' => 'tha', 'THA.LOC104815724' => 'tha', 'THA.LOC104818480' => 'tha', 'THA.LOC104819179' => 'tha', 'THA.LOC104822270' => 'tha', 'THA.LOC104826425' => 'tha', 'Thecc.02G089700' => 'tca', 'Thecc.04G232300' => 'tca', 'Thecc.09G283400' => 'tca', 'Thhalv10009020m.g' => 'esa', 'Thhalv10015506m.g' => 'esa', 'Thhalv10017364m.g' => 'esa', 'Thhalv10023742m.g' => 'esa', 'Thhalv10026483m.g' => 'esa', 'TPR.G17232' => 'tpr', 'TPR.G2133' => 'tpr', 'TPR.G2498' => 'tpr', 'TPR.G31942' => 'tpr', 'TPR.G37877' => 'tpr', 'TPR.G4571' => 'tpr', 'TWI14G1113' => 'twi', 'TWI15G0426' => 'twi', 'TWI31G1005' => 'twi', 'TWI38G0513' => 'twi', 'TWI38G1484' => 'twi', 'TWI73G1098' => 'twi', 'unitig_26.g10519' => 'ugi', 'unitig_736.g22395' => 'ugi', 'unitig_747.g21234' => 'ugi', 'unitig_747.g21942' => 'ugi', 'vmacro14351' => 'vma', 'VMungo0540G0082' => 'vmu', 'VMungo0540G0405' => 'vmu', 'VMungo0540G1486' => 'vmu', 'VMungo0540G1692' => 'vmu', 'VMungo0720G2473' => 'vmu', 'VMungo1127G1562' => 'vmu', 'VMungo1215G1918' => 'vmu', 'Zm00001eb052650' => 'zma', 'Zm00001eb063710' => 'zma', 'Zm00001eb083950' => 'zma', 'Zm00001eb174420' => 'zma', 'Zm00001eb260140' => 'zma', 'Zm00001eb260150' => 'zma', 'Zm00001eb260160' => 'zma', 'Zm00001eb348290' => 'zma', 'Zm00001eb366870' => 'zma', 'Zm00001eb421930' => 'zma' ) $gf_id = 'HOM05D001025' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001025' ) $data_identifier = 'HOM05D001025' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 19, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 2, 'amhyb' => (int) 4, 'aly' => (int) 4, 'aox' => (int) 4, 'arhy' => (int) 3, 'ath' => (int) 5, 'atr' => (int) 4, 'acertr' => (int) 3, 'cqu' => (int) 7, 'bca' => (int) 17, 'bol' => (int) 10, 'bra' => (int) 9, 'can' => (int) 10, 'cansat' => (int) 6, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 5, 'cbr' => (int) 5, 'ccan' => (int) 5, 'cde' => (int) 4, 'cfa' => (int) 3, 'ccl' => (int) 6, 'cil' => (int) 4, 'cla' => (int) 3, 'col' => (int) 3, 'cpa' => (int) 3, 'cre' => (int) 7, 'csa' => (int) 5, 'camsi' => (int) 9, 'dca' => (int) 4, 'din' => (int) 5, 'dzi' => (int) 7, 'eca' => (int) 6, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 12, 'fve' => (int) 4, 'gma' => (int) 12, 'ghi' => (int) 17, 'gra' => (int) 9, 'vvi' => (int) 2, 'han' => (int) 8, 'cav' => (int) 5, 'hma' => (int) 9, 'vpl' => (int) 4, 'sun' => (int) 2, 'lal' => (int) 9, 'lja' => (int) 5, 'lonja' => (int) 6, 'lsa' => (int) 3, 'mes' => (int) 8, 'mpo' => (int) 3, 'mbi' => (int) 4, 'mco' => (int) 3, 'mdo' => (int) 5, 'mtr' => (int) 7, 'cme' => (int) 6, 'egut' => (int) 7, 'ama' => (int) 3, 'nta' => (int) 12, 'nnu' => (int) 9, 'oeu' => (int) 4, 'osa' => (int) 7, 'pax' => (int) 9, 'pgr' => (int) 5, 'stu' => (int) 8, 'pvu' => (int) 6, 'ptr' => (int) 9, 'ppa' => (int) 9, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 7, 'pso' => (int) 10, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 3, 'sbr' => (int) 8, 'sbo' => (int) 5, 'sci' => (int) 5, 'sed' => (int) 4, 'sgi' => (int) 4, 'sas' => (int) 4, 'smo' => (int) 5, 'sly' => (int) 7, 'spe' => (int) 10, 'spa' => (int) 5, 'tar' => (int) 5, 'tha' => (int) 8, 'tca' => (int) 3, 'esa' => (int) 5, 'tpr' => (int) 6, 'twi' => (int) 6, 'ugi' => (int) 4, 'vma' => (int) 1, 'vmu' => (int) 7, 'zma' => (int) 10 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb421930' $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' => 'HOM05D001025', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '592', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p22650' => 'bna', 'A01p29720' => 'bna', 'A03p26560' => 'bna', 'A03p68820' => 'bna', 'A04p20980' => 'bna', 'A06p07730' => 'bna', 'A07p18260' => 'bna', 'A08p33710' => 'bna', 'A09p16970' => 'bna', 'A10p27490' => 'bna', 'Aa31LG1G17300' => 'aar', 'Aa31LG1G3910' => 'aar', 'Aa31LG2G9630' => 'aar', 'Aa31LG5G8360' => 'aar', 'Aa31LG9G2410' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4699' => 'aag', 'Actinidia23512' => 'ach', 'Actinidia37080' => 'ach', 'Ah.01g020380' => 'amhyb', 'Ah.08g215710' => 'amhyb', 'Ah.09g225110' => 'amhyb', 'Ah.10g036680' => 'amhyb', 'AL1G21940' => 'aly', 'AL2G15540' => 'aly', 'AL4G21520' => 'aly', 'AL7G40960' => 'aly', 'Aqoxy2G01191' => 'aox', 'Aqoxy2G03393' => 'aox', 'Aqoxy4G02775' => 'aox', 'Aqoxy6G00058' => 'aox', 'arahy.Tifrunner.gnm1.ann1.9X74H2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CW3FX9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R485W7' => 'arhy', 'AT1G10960' => 'ath', 'AT1G60950' => 'ath', 'AT2G27510' => 'ath', 'AT4G14890' => 'ath', 'AT5G10000' => 'ath', 'ATR0665G624' => 'atr', 'ATR0697G138' => 'atr', 'ATR0776G046' => 'atr', 'ATR1134G135' => 'atr', 'Atru.chr12.1025' => 'acertr', 'Atru.chr3.3241' => 'acertr', 'Atru.chr4.2460' => 'acertr', 'AUR62007427' => 'cqu', 'AUR62010960' => 'cqu', 'AUR62012201' => 'cqu', 'AUR62021470' => 'cqu', 'AUR62022834' => 'cqu', 'AUR62033635' => 'cqu', 'AUR62036186' => 'cqu', 'BcaB01g03077' => 'bca', 'BcaB02g10093' => 'bca', 'BcaB04g20295' => 'bca', 'BcaB06g28147' => 'bca', 'BcaB07g31253' => 'bca', 'BcaC01g04946' => 'bca', 'BcaC02g10614' => 'bca', 'BcaC02g10885' => 'bca', 'BcaC04g19356' => 'bca', 'BcaC04g22297' => 'bca', 'BcaC05g24977' => 'bca', 'BcaC06g31823' => 'bca', 'BcaC07g38633' => 'bca', 'BcaC09g49353' => 'bca', 'BcaC09g50168' => 'bca', 'BcaNung00322' => 'bca', 'BcaNung04769' => 'bca', 'BolC1t02753H' => 'bol', 'BolC1t03721H' => 'bol', 'BolC3t15525H' => 'bol', 'BolC4t23903H' => 'bol', 'BolC4t24231H' => 'bol', 'BolC4t27209H' => 'bol', 'BolC5t29671H' => 'bol', 'BolC8t49044H' => 'bol', 'BolC9t54999H' => 'bol', 'BolC9t59517H' => 'bol', 'BraA01t02178Z' => 'bra', 'BraA01t03099Z' => 'bra', 'BraA03t11867Z' => 'bra', 'BraA04t17667Z' => 'bra', 'BraA07t29542Z' => 'bra', 'BraA08t35287Z' => 'bra', 'BraA09t37334Z' => 'bra', 'BraA10t44801Z' => 'bra', 'BraSC39t46181Z' => 'bra', 'C01p28240' => 'bna', 'C01p37530' => 'bna', 'C03p31820' => 'bna', 'C04p24080' => 'bna', 'C04p25790' => 'bna', 'C04p56770' => 'bna', 'C05p09310' => 'bna', 'C09p21010' => 'bna', 'C09p67560' => 'bna', 'CAN.G1324.7' => 'can', 'CAN.G1358.10' => 'can', 'CAN.G1550.2' => 'can', 'CAN.G186.56' => 'can', 'CAN.G1965.1' => 'can', 'CAN.G645.15' => 'can', 'CAN.G798.26' => 'can', 'CAN.G798.27' => 'can', 'CAN.G798.29' => 'can', 'CAN.G919.31' => 'can', 'CANSAT11G0133' => 'cansat', 'CANSAT11G1171' => 'cansat', 'CANSAT11G2056' => 'cansat', 'CANSAT56G1202' => 'cansat', 'CANSAT56G1514' => 'cansat', 'CANSAT78G0455' => 'cansat', 'CARHR011190' => 'chi', 'CARHR051980' => 'chi', 'CARHR120170' => 'chi', 'CARHR203310' => 'chi', 'CARHR221490' => 'chi', 'Carub.0001s1054' => 'cru', 'Carub.0002s0431' => 'cru', 'Carub.0004s0818' => 'cru', 'Carub.0006s0846' => 'cru', 'Carub.0007s2722' => 'cru', 'Ca_00058_v3' => 'car', 'Ca_17831_v3' => 'car', 'Ca_19408_v3' => 'car', 'Ca_24397_v3' => 'car', 'Ca_25664_v3' => 'car', 'CBR_g21818' => 'cbr', 'CBR_g31195' => 'cbr', 'CBR_g32282' => 'cbr', 'CBR_g39599' => 'cbr', 'CBR_g49410' => 'cbr', 'Cc01_g09120' => 'ccan', 'Cc01_g09130' => 'ccan', 'Cc02_g09630' => 'ccan', 'Cc02_g22810' => 'ccan', 'Cc03_g03810' => 'ccan', 'CDE02G3718' => 'cde', 'CDE04G3183' => 'cde', 'CDE07G1046' => 'cde', 'CDE08G0480' => 'cde', 'Cfa005493' => 'cfa', 'Cfa010312' => 'cfa', 'Cfa015648' => 'cfa', 'Ciclev10002793m.g' => 'ccl', 'Ciclev10003356m.g' => 'ccl', 'Ciclev10006141m.g' => 'ccl', 'Ciclev10016676m.g' => 'ccl', 'Ciclev10017081m.g' => 'ccl', 'Ciclev10029499m.g' => 'ccl', 'CiPaw.01G166300' => 'cil', 'CiPaw.06G145600' => 'cil', 'CiPaw.13G040100' => 'cil', 'CiPaw.13G135800' => 'cil', 'ClCG01G012230' => 'cla', 'ClCG05G009510' => 'cla', 'ClCG08G008270' => 'cla', 'COL.COLO4_11763' => 'col', 'COL.COLO4_19876' => 'col', 'COL.COLO4_21481' => 'col', 'Cpa.g.sc118.34' => 'cpa', 'Cpa.g.sc32.13' => 'cpa', 'Cpa.g.sc58.103' => 'cpa', 'Cre03.g183850' => 'cre', 'Cre06.g306350' => 'cre', 'Cre07.g334800' => 'cre', 'Cre12.g487900' => 'cre', 'Cre14.g626700' => 'cre', 'Cre16.g658400' => 'cre', 'Cre17.g700950' => 'cre', 'CsaV3_1G014830' => 'csa', 'CsaV3_3G013320' => 'csa', 'CsaV3_3G019210' => 'csa', 'CsaV3_3G019220' => 'csa', 'CsaV3_6G004230' => 'csa', 'CSS0003773' => 'camsi', 'CSS0004563' => 'camsi', 'CSS0013949' => 'camsi', 'CSS0025971' => 'camsi', 'CSS0028570' => 'camsi', 'CSS0033127' => 'camsi', 'CSS0036051' => 'camsi', 'CSS0040087' => 'camsi', 'CSS0043179' => 'camsi', 'DCAR_006161' => 'dca', 'DCAR_010351' => 'dca', 'DCAR_012197' => 'dca', 'DCAR_024162' => 'dca', 'Dinv01030' => 'din', 'Dinv10924' => 'din', 'Dinv11835' => 'din', 'Dinv22841' => 'din', 'Dinv42553' => 'din', 'Duzib052G0560' => 'dzi', 'Duzib132G0389' => 'dzi', 'Duzib150G1181' => 'dzi', 'Duzib168G0623' => 'dzi', 'Duzib170G1036' => 'dzi', 'Duzib212G0200' => 'dzi', 'Duzib248G0194' => 'dzi', 'ECA232G2193' => 'eca', 'ECA233G0302' => 'eca', 'ECA234G2813' => 'eca', 'ECA234G4866' => 'eca', 'ECA240G3932' => 'eca', 'ECA248G0385' => 'eca', 'EL10Ac2g04781' => 'bvu', 'EL10Ac3g06445' => 'bvu', 'EL10Ac7g15825' => 'bvu', 'EL10Ac8g18550' => 'bvu', 'Eucgr.B03849' => 'egr', 'Eucgr.I02744' => 'egr', 'Eucgr.J00264' => 'egr', 'Eucgr.J00493' => 'egr', 'FAN04G2181' => 'fan', 'FAN07G2666' => 'fan', 'FAN11G0024' => 'fan', 'FAN12G1105' => 'fan', 'FAN13G0302' => 'fan', 'FAN15G2781' => 'fan', 'FAN16G1274' => 'fan', 'FAN17G2988' => 'fan', 'FAN18G2621' => 'fan', 'FAN21G0013' => 'fan', 'FAN22G1211' => 'fan', 'FAN25G3626' => 'fan', 'FvH4_2g09491' => 'fve', 'FvH4_3g24910' => 'fve', 'FvH4_4g15630' => 'fve', 'FvH4_5g28820' => 'fve', 'Glyma.01G238000' => 'gma', 'Glyma.05G168400' => 'gma', 'Glyma.08G126800' => 'gma', 'Glyma.08G188500' => 'gma', 'Glyma.10G278900' => 'gma', 'Glyma.11G005700' => 'gma', 'Glyma.11G183300' => 'gma', 'Glyma.12G089200' => 'gma', 'Glyma.12G169400' => 'gma', 'Glyma.12G169500' => 'gma', 'Glyma.12G169600' => 'gma', 'Glyma.20G110800' => 'gma', 'Gohir.A03G192900' => 'ghi', 'Gohir.A03G193000' => 'ghi', 'Gohir.A05G080700' => 'ghi', 'Gohir.A09G216000' => 'ghi', 'Gohir.A12G027700' => 'ghi', 'Gohir.A13G036200' => 'ghi', 'Gohir.A13G222600' => 'ghi', 'Gohir.D02G213900' => 'ghi', 'Gohir.D02G214000' => 'ghi', 'Gohir.D05G083700' => 'ghi', 'Gohir.D05G083800' => 'ghi', 'Gohir.D05G083850' => 'ghi', 'Gohir.D08G015400' => 'ghi', 'Gohir.D09G218400' => 'ghi', 'Gohir.D12G027100' => 'ghi', 'Gohir.D13G034500' => 'ghi', 'Gohir.D13G227400' => 'ghi', 'Gorai.005G241800' => 'gra', 'Gorai.005G241900' => 'gra', 'Gorai.006G239400' => 'gra', 'Gorai.008G027600' => 'gra', 'Gorai.009G085400' => 'gra', 'Gorai.009G085500' => 'gra', 'Gorai.013G039000' => 'gra', 'Gorai.013G194800' => 'gra', 'Gorai.013G257900' => 'gra', 'GSVIVG01000982001' => 'vvi', 'GSVIVG01017981001' => 'vvi', 'HanXRQChr01g0024061' => 'han', 'HanXRQChr09g0247831' => 'han', 'HanXRQChr10g0294611' => 'han', 'HanXRQChr10g0294621' => 'han', 'HanXRQChr11g0346821' => 'han', 'HanXRQChr13g0397461' => 'han', 'HanXRQChr16g0513651' => 'han', 'HanXRQChr16g0513701' => 'han', 'Haze_00897' => 'cav', 'Haze_01745' => 'cav', 'Haze_02486' => 'cav', 'Haze_02487' => 'cav', 'Haze_23374' => 'cav', 'Hma1.2p1_0578F.1_g182520' => 'hma', 'Hma1.2p1_0602F.1_g187350' => 'hma', 'Hma1.2p1_0602F.1_g187360' => 'hma', 'Hma1.2p1_0874F.1_g231320' => 'hma', 'Hma1.2p1_1197F.1_g266210' => 'hma', 'Hma1.2p1_1197F.1_g266220' => 'hma', 'Hma1.2p1_2167F.1_g315895' => 'hma', 'Hma1.2p1_2190F.1_g316640' => 'hma', 'Hma1.2p1_3645F.1_g337153' => 'hma', 'HPP92_004907' => 'vpl', 'HPP92_012134' => 'vpl', 'HPP92_025136' => 'vpl', 'HPP92_026087' => 'vpl', 'Hund06782' => 'sun', 'Hund06784' => 'sun', 'Lalb_Chr01g0004861' => 'lal', 'Lalb_Chr02g0140591' => 'lal', 'Lalb_Chr02g0140611' => 'lal', 'Lalb_Chr03g0028101' => 'lal', 'Lalb_Chr07g0185791' => 'lal', 'Lalb_Chr12g0204491' => 'lal', 'Lalb_Chr13g0295671' => 'lal', 'Lalb_Chr19g0136461' => 'lal', 'Lalb_Chr21g0309191' => 'lal', 'Lj1g0028158' => 'lja', 'Lj1P236T38' => 'lonja', 'Lj2C32G2' => 'lonja', 'Lj2P944T8' => 'lonja', 'Lj2P963T15' => 'lonja', 'Lj3g0011788' => 'lja', 'Lj4g0025027' => 'lja', 'Lj5P255T36' => 'lonja', 'Lj6g0018866' => 'lja', 'Lj6P608T31' => 'lonja', 'LjContig00408g0008879' => 'lja', 'Lsat_1_v5_gn_5_105820' => 'lsa', 'Lsat_1_v5_gn_6_38800' => 'lsa', 'Lsat_1_v5_gn_7_67141' => 'lsa', 'Manes.04G003400' => 'mes', 'Manes.07G020000' => 'mes', 'Manes.07G020100' => 'mes', 'Manes.07G020150' => 'mes', 'Manes.10G061500' => 'mes', 'Manes.10G123200' => 'mes', 'Manes.11G161900' => 'mes', 'Manes.15G029300' => 'mes', 'Mapoly0071s0018' => 'mpo', 'Mapoly0082s0023' => 'mpo', 'Mapoly3477s0001' => 'mpo', 'MBI05_g31233_MAGBIO' => 'mbi', 'MBI09_g05946_MAGBIO' => 'mbi', 'MBI09_g05947_MAGBIO' => 'mbi', 'MBI17_g08346_MAGBIO' => 'mbi', 'MCO04G038' => 'mco', 'MCO09G370' => 'mco', 'MCO13G605' => 'mco', 'MD00G1075500' => 'mdo', 'MD03G1144300' => 'mdo', 'MD08G1236800' => 'mdo', 'MD13G1193300' => 'mdo', 'MD15G1428700' => 'mdo', 'Medtr1g112030' => 'mtr', 'Medtr1g112050' => 'mtr', 'Medtr2g006290' => 'mtr', 'Medtr2g086510' => 'mtr', 'Medtr4g053120' => 'mtr', 'Medtr5g006320' => 'mtr', 'Medtr8g088720' => 'mtr', 'MELO3C004712.2' => 'cme', 'MELO3C006533.2' => 'cme', 'MELO3C019438.2' => 'cme', 'MELO3C019440.2' => 'cme', 'MELO3C019441.2' => 'cme', 'MELO3C019895.2' => 'cme', 'Migut.B00811' => 'egut', 'Migut.D02447' => 'egut', 'Migut.F00875' => 'egut', 'Migut.N00186' => 'egut', 'Migut.N01051' => 'egut', 'Migut.N02491' => 'egut', 'Migut.O00784' => 'egut', 'MSTRG.12367' => 'ama', 'MSTRG.18756' => 'ama', 'MSTRG.21042' => 'ama', 'Nitab4.5_0000559g0040' => 'nta', 'Nitab4.5_0000667g0190' => 'nta', 'Nitab4.5_0000755g0160' => 'nta', 'Nitab4.5_0001216g0080' => 'nta', 'Nitab4.5_0004069g0040' => 'nta', 'Nitab4.5_0004129g0010' => 'nta', 'Nitab4.5_0005744g0030' => 'nta', 'Nitab4.5_0006996g0030' => 'nta', 'Nitab4.5_0008971g0040' => 'nta', 'Nitab4.5_0009769g0020' => 'nta', 'Nitab4.5_0009833g0010' => 'nta', 'Nitab4.5_0013140g0020' => 'nta', 'Nn003s41376' => 'nnu', 'Nn1g01857' => 'nnu', 'Nn1g03611' => 'nnu', 'Nn1g06853' => 'nnu', 'Nn3g18360' => 'nnu', 'Nn4g26328' => 'nnu', 'Nn5g27531' => 'nnu', 'Nn6g34899' => 'nnu', 'Nn7g36299' => 'nnu', 'Oeu021485.1' => 'oeu', 'Oeu022433.1' => 'oeu', 'Oeu032111.1' => 'oeu', 'Oeu051608.1' => 'oeu', 'Os01g0860601' => 'osa', 'Os03g0659200' => 'osa', 'Os03g0835900' => 'osa', 'Os04g0412200' => 'osa', 'Os05g0443500' => 'osa', 'Os07g0251500' => 'osa', 'Os08g0104600' => 'osa', 'Peaxi162Scf00003g00047' => 'pax', 'Peaxi162Scf00003g00052' => 'pax', 'Peaxi162Scf00003g00394' => 'pax', 'Peaxi162Scf00091g00621' => 'pax', 'Peaxi162Scf00152g00146' => 'pax', 'Peaxi162Scf00173g00025' => 'pax', 'Peaxi162Scf00195g00102' => 'pax', 'Peaxi162Scf00402g00013' => 'pax', 'Peaxi162Scf00519g00618' => 'pax', 'PGR004G2838' => 'pgr', 'PGR044G2275' => 'pgr', 'PGR102G1377' => 'pgr', 'PGR119G1245' => 'pgr', 'PGR142G4449' => 'pgr', 'PGSC0003DMG400004532' => 'stu', 'PGSC0003DMG400011950' => 'stu', 'PGSC0003DMG400023391' => 'stu', 'PGSC0003DMG400023985' => 'stu', 'PGSC0003DMG400026360' => 'stu', 'PGSC0003DMG400035711' => 'stu', 'PGSC0003DMG400037286' => 'stu', 'PGSC0003DMG402005881' => 'stu', 'Phvul.002G045400' => 'pvu', 'Phvul.006G216600' => 'pvu', 'Phvul.006G216700' => 'pvu', 'Phvul.006G216800' => 'pvu', 'Phvul.007G022500' => 'pvu', 'Phvul.011G094400' => 'pvu', 'Potri.001G470700' => 'ptr', 'Potri.003G015200' => 'ptr', 'Potri.004G202500' => 'ptr', 'Potri.004G218400' => 'ptr', 'Potri.008G020100' => 'ptr', 'Potri.008G153200' => 'ptr', 'Potri.009G163800' => 'ptr', 'Potri.010G087300' => 'ptr', 'Potri.010G239100' => 'ptr', 'Pp3c10_16100' => 'ppa', 'Pp3c10_16880' => 'ppa', 'Pp3c16_6230' => 'ppa', 'Pp3c17_18910' => 'ppa', 'Pp3c3_22119' => 'ppa', 'Pp3c3_22140' => 'ppa', 'Pp3c4_8159' => 'ppa', 'Pp3c4_8171' => 'ppa', 'Pp3c4_8330' => 'ppa', 'PRCOL_00004098' => 'pco', 'Prupe.1G013900' => 'ppe', 'Prupe.1G226300' => 'ppe', 'Prupe.1G573600' => 'ppe', 'Prupe.6G130100' => 'ppe', 'Psat3g090040' => 'psa', 'Psat4g210440' => 'psa', 'Psat6g231040' => 'psa', 'Psat6g231080' => 'psa', 'Psat7g063000' => 'psa', 'Psat7g188000' => 'psa', 'Psat7g188040' => 'psa', 'PSO017G0206' => 'pso', 'PSO170G0501' => 'pso', 'PSO170G6422' => 'pso', 'PSO210G7739' => 'pso', 'PSO339G1808' => 'pso', 'PSO339G6135' => 'pso', 'PSO384G0010' => 'pso', 'PSO384G0964' => 'pso', 'PSO761G0050' => 'pso', 'PSO782G4085' => 'pso', 'QL01p012264' => 'qlo', 'QL02p099491' => 'qlo', 'QL03p033868' => 'qlo', 'QL04p046678' => 'qlo', 'QL06p002448' => 'qlo', 'RcHm_v2.0_Chr4g0416181' => 'rch', 'RcHm_v2.0_Chr5g0044701' => 'rch', 'RcHm_v2.0_Chr6g0265781' => 'rch', 'RcHm_v2.0_Chr7g0221031' => 'rch', 'Rhsim04G0202000' => 'rsi', 'Rhsim11G0127300' => 'rsi', 'Rhsim13G0111800' => 'rsi', 'Sabra01G0165600' => 'sbr', 'Sabra03G0008300' => 'sbr', 'Sabra04G0136900' => 'sbr', 'Sabra08G0013400' => 'sbr', 'Sabra08G0116800' => 'sbr', 'Sabra09G0128000' => 'sbr', 'Sabra10G0055500' => 'sbr', 'Sabra10G0073300' => 'sbr', 'SalBow3G0385' => 'sbo', 'SalBow3G1119' => 'sbo', 'SalBow3G2005' => 'sbo', 'SalBow6G2563' => 'sbo', 'SalBow6G6386' => 'sbo', 'Sc06g0008800' => 'sci', 'Sc07g0004950' => 'sci', 'Sc09g0005340' => 'sci', 'Sc13g0004410' => 'sci', 'Sc21g0007090' => 'sci', 'Sed0009285' => 'sed', 'Sed0017583' => 'sed', 'Sed0019699' => 'sed', 'Sed0023107' => 'sed', 'SEGI_10916' => 'sgi', 'SEGI_16217' => 'sgi', 'SEGI_19466' => 'sgi', 'SEGI_41115' => 'sgi', 'SGA_v2.0_scaffold111G31534' => 'sas', 'SGA_v2.0_scaffold22G09864' => 'sas', 'SGA_v2.0_scaffold338G49219' => 'sas', 'SGA_v2.0_scaffold92G28298' => 'sas', 'SMO119G0064' => 'smo', 'SMO223G0038' => 'smo', 'SMO347G0584' => 'smo', 'SMO351G0010' => 'smo', 'SMO356G0404' => 'smo', 'Solyc01g103920.3' => 'sly', 'Solyc04g009710.2' => 'sly', 'Solyc05g055280.2' => 'sly', 'Solyc10g044520.3' => 'sly', 'Solyc10g075160.1' => 'sly', 'Solyc11g006910.3' => 'sly', 'Solyc11g068430.3' => 'sly', 'Sopen01g046310' => 'spe', 'Sopen03g001200' => 'spe', 'Sopen04g004830' => 'spe', 'Sopen05g033720' => 'spe', 'Sopen06g030740' => 'spe', 'Sopen10g013090' => 'spe', 'Sopen10g027630' => 'spe', 'Sopen10g027640' => 'spe', 'Sopen11g002820' => 'spe', 'Sopen11g027140' => 'spe', 'Sp1g09680' => 'spa', 'Sp2g03630' => 'spa', 'Sp4g10320' => 'spa', 'Sp6g33400' => 'spa', 'Sp7g13030' => 'spa', 'TAR365G0317' => 'tar', 'TAR376G0979' => 'tar', 'TAR623G1665' => 'tar', 'TAR633G2373' => 'tar', 'TAR636G1400' => 'tar', 'THA.LOC104800529' => 'tha', 'THA.LOC104808547' => 'tha', 'THA.LOC104809615' => 'tha', 'THA.LOC104815724' => 'tha', 'THA.LOC104818480' => 'tha', 'THA.LOC104819179' => 'tha', 'THA.LOC104822270' => 'tha', 'THA.LOC104826425' => 'tha', 'Thecc.02G089700' => 'tca', 'Thecc.04G232300' => 'tca', 'Thecc.09G283400' => 'tca', 'Thhalv10009020m.g' => 'esa', 'Thhalv10015506m.g' => 'esa', 'Thhalv10017364m.g' => 'esa', 'Thhalv10023742m.g' => 'esa', 'Thhalv10026483m.g' => 'esa', 'TPR.G17232' => 'tpr', 'TPR.G2133' => 'tpr', 'TPR.G2498' => 'tpr', 'TPR.G31942' => 'tpr', 'TPR.G37877' => 'tpr', 'TPR.G4571' => 'tpr', 'TWI14G1113' => 'twi', 'TWI15G0426' => 'twi', 'TWI31G1005' => 'twi', 'TWI38G0513' => 'twi', 'TWI38G1484' => 'twi', 'TWI73G1098' => 'twi', 'unitig_26.g10519' => 'ugi', 'unitig_736.g22395' => 'ugi', 'unitig_747.g21234' => 'ugi', 'unitig_747.g21942' => 'ugi', 'vmacro14351' => 'vma', 'VMungo0540G0082' => 'vmu', 'VMungo0540G0405' => 'vmu', 'VMungo0540G1486' => 'vmu', 'VMungo0540G1692' => 'vmu', 'VMungo0720G2473' => 'vmu', 'VMungo1127G1562' => 'vmu', 'VMungo1215G1918' => 'vmu', 'Zm00001eb052650' => 'zma', 'Zm00001eb063710' => 'zma', 'Zm00001eb083950' => 'zma', 'Zm00001eb174420' => 'zma', 'Zm00001eb260140' => 'zma', 'Zm00001eb260150' => 'zma', 'Zm00001eb260160' => 'zma', 'Zm00001eb348290' => 'zma', 'Zm00001eb366870' => 'zma', 'Zm00001eb421930' => 'zma' ), 'gf_id' => 'HOM05D001025', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001025' ), 'data_identifier' => 'HOM05D001025', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001025', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '592', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p22650' => 'bna', 'A01p29720' => 'bna', 'A03p26560' => 'bna', 'A03p68820' => 'bna', 'A04p20980' => 'bna', 'A06p07730' => 'bna', 'A07p18260' => 'bna', 'A08p33710' => 'bna', 'A09p16970' => 'bna', 'A10p27490' => 'bna', 'Aa31LG1G17300' => 'aar', 'Aa31LG1G3910' => 'aar', 'Aa31LG2G9630' => 'aar', 'Aa31LG5G8360' => 'aar', 'Aa31LG9G2410' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4699' => 'aag', 'Actinidia23512' => 'ach', 'Actinidia37080' => 'ach', 'Ah.01g020380' => 'amhyb', 'Ah.08g215710' => 'amhyb', 'Ah.09g225110' => 'amhyb', 'Ah.10g036680' => 'amhyb', 'AL1G21940' => 'aly', 'AL2G15540' => 'aly', 'AL4G21520' => 'aly', 'AL7G40960' => 'aly', 'Aqoxy2G01191' => 'aox', 'Aqoxy2G03393' => 'aox', 'Aqoxy4G02775' => 'aox', 'Aqoxy6G00058' => 'aox', 'arahy.Tifrunner.gnm1.ann1.9X74H2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CW3FX9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R485W7' => 'arhy', 'AT1G10960' => 'ath', 'AT1G60950' => 'ath', 'AT2G27510' => 'ath', 'AT4G14890' => 'ath', 'AT5G10000' => 'ath', 'ATR0665G624' => 'atr', 'ATR0697G138' => 'atr', 'ATR0776G046' => 'atr', 'ATR1134G135' => 'atr', 'Atru.chr12.1025' => 'acertr', 'Atru.chr3.3241' => 'acertr', 'Atru.chr4.2460' => 'acertr', 'AUR62007427' => 'cqu', 'AUR62010960' => 'cqu', 'AUR62012201' => 'cqu', 'AUR62021470' => 'cqu', 'AUR62022834' => 'cqu', 'AUR62033635' => 'cqu', 'AUR62036186' => 'cqu', 'BcaB01g03077' => 'bca', 'BcaB02g10093' => 'bca', 'BcaB04g20295' => 'bca', 'BcaB06g28147' => 'bca', 'BcaB07g31253' => 'bca', 'BcaC01g04946' => 'bca', 'BcaC02g10614' => 'bca', 'BcaC02g10885' => 'bca', 'BcaC04g19356' => 'bca', 'BcaC04g22297' => 'bca', 'BcaC05g24977' => 'bca', 'BcaC06g31823' => 'bca', 'BcaC07g38633' => 'bca', 'BcaC09g49353' => 'bca', 'BcaC09g50168' => 'bca', 'BcaNung00322' => 'bca', 'BcaNung04769' => 'bca', 'BolC1t02753H' => 'bol', 'BolC1t03721H' => 'bol', 'BolC3t15525H' => 'bol', 'BolC4t23903H' => 'bol', 'BolC4t24231H' => 'bol', 'BolC4t27209H' => 'bol', 'BolC5t29671H' => 'bol', 'BolC8t49044H' => 'bol', 'BolC9t54999H' => 'bol', 'BolC9t59517H' => 'bol', 'BraA01t02178Z' => 'bra', 'BraA01t03099Z' => 'bra', 'BraA03t11867Z' => 'bra', 'BraA04t17667Z' => 'bra', 'BraA07t29542Z' => 'bra', 'BraA08t35287Z' => 'bra', 'BraA09t37334Z' => 'bra', 'BraA10t44801Z' => 'bra', 'BraSC39t46181Z' => 'bra', 'C01p28240' => 'bna', 'C01p37530' => 'bna', 'C03p31820' => 'bna', 'C04p24080' => 'bna', 'C04p25790' => 'bna', 'C04p56770' => 'bna', 'C05p09310' => 'bna', 'C09p21010' => 'bna', 'C09p67560' => 'bna', 'CAN.G1324.7' => 'can', 'CAN.G1358.10' => 'can', 'CAN.G1550.2' => 'can', 'CAN.G186.56' => 'can', 'CAN.G1965.1' => 'can', 'CAN.G645.15' => 'can', 'CAN.G798.26' => 'can', 'CAN.G798.27' => 'can', 'CAN.G798.29' => 'can', 'CAN.G919.31' => 'can', 'CANSAT11G0133' => 'cansat', 'CANSAT11G1171' => 'cansat', 'CANSAT11G2056' => 'cansat', 'CANSAT56G1202' => 'cansat', 'CANSAT56G1514' => 'cansat', 'CANSAT78G0455' => 'cansat', 'CARHR011190' => 'chi', 'CARHR051980' => 'chi', 'CARHR120170' => 'chi', 'CARHR203310' => 'chi', 'CARHR221490' => 'chi', 'Carub.0001s1054' => 'cru', 'Carub.0002s0431' => 'cru', 'Carub.0004s0818' => 'cru', 'Carub.0006s0846' => 'cru', 'Carub.0007s2722' => 'cru', 'Ca_00058_v3' => 'car', 'Ca_17831_v3' => 'car', 'Ca_19408_v3' => 'car', 'Ca_24397_v3' => 'car', 'Ca_25664_v3' => 'car', 'CBR_g21818' => 'cbr', 'CBR_g31195' => 'cbr', 'CBR_g32282' => 'cbr', 'CBR_g39599' => 'cbr', 'CBR_g49410' => 'cbr', 'Cc01_g09120' => 'ccan', 'Cc01_g09130' => 'ccan', 'Cc02_g09630' => 'ccan', 'Cc02_g22810' => 'ccan', 'Cc03_g03810' => 'ccan', 'CDE02G3718' => 'cde', 'CDE04G3183' => 'cde', 'CDE07G1046' => 'cde', 'CDE08G0480' => 'cde', 'Cfa005493' => 'cfa', 'Cfa010312' => 'cfa', 'Cfa015648' => 'cfa', 'Ciclev10002793m.g' => 'ccl', 'Ciclev10003356m.g' => 'ccl', 'Ciclev10006141m.g' => 'ccl', 'Ciclev10016676m.g' => 'ccl', 'Ciclev10017081m.g' => 'ccl', 'Ciclev10029499m.g' => 'ccl', 'CiPaw.01G166300' => 'cil', 'CiPaw.06G145600' => 'cil', 'CiPaw.13G040100' => 'cil', 'CiPaw.13G135800' => 'cil', 'ClCG01G012230' => 'cla', 'ClCG05G009510' => 'cla', 'ClCG08G008270' => 'cla', 'COL.COLO4_11763' => 'col', 'COL.COLO4_19876' => 'col', 'COL.COLO4_21481' => 'col', 'Cpa.g.sc118.34' => 'cpa', 'Cpa.g.sc32.13' => 'cpa', 'Cpa.g.sc58.103' => 'cpa', 'Cre03.g183850' => 'cre', 'Cre06.g306350' => 'cre', 'Cre07.g334800' => 'cre', 'Cre12.g487900' => 'cre', 'Cre14.g626700' => 'cre', 'Cre16.g658400' => 'cre', 'Cre17.g700950' => 'cre', 'CsaV3_1G014830' => 'csa', 'CsaV3_3G013320' => 'csa', 'CsaV3_3G019210' => 'csa', 'CsaV3_3G019220' => 'csa', 'CsaV3_6G004230' => 'csa', 'CSS0003773' => 'camsi', 'CSS0004563' => 'camsi', 'CSS0013949' => 'camsi', 'CSS0025971' => 'camsi', 'CSS0028570' => 'camsi', 'CSS0033127' => 'camsi', 'CSS0036051' => 'camsi', 'CSS0040087' => 'camsi', 'CSS0043179' => 'camsi', 'DCAR_006161' => 'dca', 'DCAR_010351' => 'dca', 'DCAR_012197' => 'dca', 'DCAR_024162' => 'dca', 'Dinv01030' => 'din', 'Dinv10924' => 'din', 'Dinv11835' => 'din', 'Dinv22841' => 'din', 'Dinv42553' => 'din', 'Duzib052G0560' => 'dzi', 'Duzib132G0389' => 'dzi', 'Duzib150G1181' => 'dzi', 'Duzib168G0623' => 'dzi', 'Duzib170G1036' => 'dzi', 'Duzib212G0200' => 'dzi', 'Duzib248G0194' => 'dzi', 'ECA232G2193' => 'eca', 'ECA233G0302' => 'eca', 'ECA234G2813' => 'eca', 'ECA234G4866' => 'eca', 'ECA240G3932' => 'eca', 'ECA248G0385' => 'eca', 'EL10Ac2g04781' => 'bvu', 'EL10Ac3g06445' => 'bvu', 'EL10Ac7g15825' => 'bvu', 'EL10Ac8g18550' => 'bvu', 'Eucgr.B03849' => 'egr', 'Eucgr.I02744' => 'egr', 'Eucgr.J00264' => 'egr', 'Eucgr.J00493' => 'egr', 'FAN04G2181' => 'fan', 'FAN07G2666' => 'fan', 'FAN11G0024' => 'fan', 'FAN12G1105' => 'fan', 'FAN13G0302' => 'fan', 'FAN15G2781' => 'fan', 'FAN16G1274' => 'fan', 'FAN17G2988' => 'fan', 'FAN18G2621' => 'fan', 'FAN21G0013' => 'fan', 'FAN22G1211' => 'fan', 'FAN25G3626' => 'fan', 'FvH4_2g09491' => 'fve', 'FvH4_3g24910' => 'fve', 'FvH4_4g15630' => 'fve', 'FvH4_5g28820' => 'fve', 'Glyma.01G238000' => 'gma', 'Glyma.05G168400' => 'gma', 'Glyma.08G126800' => 'gma', 'Glyma.08G188500' => 'gma', 'Glyma.10G278900' => 'gma', 'Glyma.11G005700' => 'gma', 'Glyma.11G183300' => 'gma', 'Glyma.12G089200' => 'gma', 'Glyma.12G169400' => 'gma', 'Glyma.12G169500' => 'gma', 'Glyma.12G169600' => 'gma', 'Glyma.20G110800' => 'gma', 'Gohir.A03G192900' => 'ghi', 'Gohir.A03G193000' => 'ghi', 'Gohir.A05G080700' => 'ghi', 'Gohir.A09G216000' => 'ghi', 'Gohir.A12G027700' => 'ghi', 'Gohir.A13G036200' => 'ghi', 'Gohir.A13G222600' => 'ghi', 'Gohir.D02G213900' => 'ghi', 'Gohir.D02G214000' => 'ghi', 'Gohir.D05G083700' => 'ghi', 'Gohir.D05G083800' => 'ghi', 'Gohir.D05G083850' => 'ghi', 'Gohir.D08G015400' => 'ghi', 'Gohir.D09G218400' => 'ghi', 'Gohir.D12G027100' => 'ghi', 'Gohir.D13G034500' => 'ghi', 'Gohir.D13G227400' => 'ghi', 'Gorai.005G241800' => 'gra', 'Gorai.005G241900' => 'gra', 'Gorai.006G239400' => 'gra', 'Gorai.008G027600' => 'gra', 'Gorai.009G085400' => 'gra', 'Gorai.009G085500' => 'gra', 'Gorai.013G039000' => 'gra', 'Gorai.013G194800' => 'gra', 'Gorai.013G257900' => 'gra', 'GSVIVG01000982001' => 'vvi', 'GSVIVG01017981001' => 'vvi', 'HanXRQChr01g0024061' => 'han', 'HanXRQChr09g0247831' => 'han', 'HanXRQChr10g0294611' => 'han', 'HanXRQChr10g0294621' => 'han', 'HanXRQChr11g0346821' => 'han', 'HanXRQChr13g0397461' => 'han', 'HanXRQChr16g0513651' => 'han', 'HanXRQChr16g0513701' => 'han', 'Haze_00897' => 'cav', 'Haze_01745' => 'cav', 'Haze_02486' => 'cav', 'Haze_02487' => 'cav', 'Haze_23374' => 'cav', 'Hma1.2p1_0578F.1_g182520' => 'hma', 'Hma1.2p1_0602F.1_g187350' => 'hma', 'Hma1.2p1_0602F.1_g187360' => 'hma', 'Hma1.2p1_0874F.1_g231320' => 'hma', 'Hma1.2p1_1197F.1_g266210' => 'hma', 'Hma1.2p1_1197F.1_g266220' => 'hma', 'Hma1.2p1_2167F.1_g315895' => 'hma', 'Hma1.2p1_2190F.1_g316640' => 'hma', 'Hma1.2p1_3645F.1_g337153' => 'hma', 'HPP92_004907' => 'vpl', 'HPP92_012134' => 'vpl', 'HPP92_025136' => 'vpl', 'HPP92_026087' => 'vpl', 'Hund06782' => 'sun', 'Hund06784' => 'sun', 'Lalb_Chr01g0004861' => 'lal', 'Lalb_Chr02g0140591' => 'lal', 'Lalb_Chr02g0140611' => 'lal', 'Lalb_Chr03g0028101' => 'lal', 'Lalb_Chr07g0185791' => 'lal', 'Lalb_Chr12g0204491' => 'lal', 'Lalb_Chr13g0295671' => 'lal', 'Lalb_Chr19g0136461' => 'lal', 'Lalb_Chr21g0309191' => 'lal', 'Lj1g0028158' => 'lja', 'Lj1P236T38' => 'lonja', 'Lj2C32G2' => 'lonja', 'Lj2P944T8' => 'lonja', 'Lj2P963T15' => 'lonja', 'Lj3g0011788' => 'lja', 'Lj4g0025027' => 'lja', 'Lj5P255T36' => 'lonja', 'Lj6g0018866' => 'lja', 'Lj6P608T31' => 'lonja', 'LjContig00408g0008879' => 'lja', 'Lsat_1_v5_gn_5_105820' => 'lsa', 'Lsat_1_v5_gn_6_38800' => 'lsa', 'Lsat_1_v5_gn_7_67141' => 'lsa', 'Manes.04G003400' => 'mes', 'Manes.07G020000' => 'mes', 'Manes.07G020100' => 'mes', 'Manes.07G020150' => 'mes', 'Manes.10G061500' => 'mes', 'Manes.10G123200' => 'mes', 'Manes.11G161900' => 'mes', 'Manes.15G029300' => 'mes', 'Mapoly0071s0018' => 'mpo', 'Mapoly0082s0023' => 'mpo', 'Mapoly3477s0001' => 'mpo', 'MBI05_g31233_MAGBIO' => 'mbi', 'MBI09_g05946_MAGBIO' => 'mbi', 'MBI09_g05947_MAGBIO' => 'mbi', 'MBI17_g08346_MAGBIO' => 'mbi', 'MCO04G038' => 'mco', 'MCO09G370' => 'mco', 'MCO13G605' => 'mco', 'MD00G1075500' => 'mdo', 'MD03G1144300' => 'mdo', 'MD08G1236800' => 'mdo', 'MD13G1193300' => 'mdo', 'MD15G1428700' => 'mdo', 'Medtr1g112030' => 'mtr', 'Medtr1g112050' => 'mtr', 'Medtr2g006290' => 'mtr', 'Medtr2g086510' => 'mtr', 'Medtr4g053120' => 'mtr', 'Medtr5g006320' => 'mtr', 'Medtr8g088720' => 'mtr', 'MELO3C004712.2' => 'cme', 'MELO3C006533.2' => 'cme', 'MELO3C019438.2' => 'cme', 'MELO3C019440.2' => 'cme', 'MELO3C019441.2' => 'cme', 'MELO3C019895.2' => 'cme', 'Migut.B00811' => 'egut', 'Migut.D02447' => 'egut', 'Migut.F00875' => 'egut', 'Migut.N00186' => 'egut', 'Migut.N01051' => 'egut', 'Migut.N02491' => 'egut', 'Migut.O00784' => 'egut', 'MSTRG.12367' => 'ama', 'MSTRG.18756' => 'ama', 'MSTRG.21042' => 'ama', 'Nitab4.5_0000559g0040' => 'nta', 'Nitab4.5_0000667g0190' => 'nta', 'Nitab4.5_0000755g0160' => 'nta', 'Nitab4.5_0001216g0080' => 'nta', 'Nitab4.5_0004069g0040' => 'nta', 'Nitab4.5_0004129g0010' => 'nta', 'Nitab4.5_0005744g0030' => 'nta', 'Nitab4.5_0006996g0030' => 'nta', 'Nitab4.5_0008971g0040' => 'nta', 'Nitab4.5_0009769g0020' => 'nta', 'Nitab4.5_0009833g0010' => 'nta', 'Nitab4.5_0013140g0020' => 'nta', 'Nn003s41376' => 'nnu', 'Nn1g01857' => 'nnu', 'Nn1g03611' => 'nnu', 'Nn1g06853' => 'nnu', 'Nn3g18360' => 'nnu', 'Nn4g26328' => 'nnu', 'Nn5g27531' => 'nnu', 'Nn6g34899' => 'nnu', 'Nn7g36299' => 'nnu', 'Oeu021485.1' => 'oeu', 'Oeu022433.1' => 'oeu', 'Oeu032111.1' => 'oeu', 'Oeu051608.1' => 'oeu', 'Os01g0860601' => 'osa', 'Os03g0659200' => 'osa', 'Os03g0835900' => 'osa', 'Os04g0412200' => 'osa', 'Os05g0443500' => 'osa', 'Os07g0251500' => 'osa', 'Os08g0104600' => 'osa', 'Peaxi162Scf00003g00047' => 'pax', 'Peaxi162Scf00003g00052' => 'pax', 'Peaxi162Scf00003g00394' => 'pax', 'Peaxi162Scf00091g00621' => 'pax', 'Peaxi162Scf00152g00146' => 'pax', 'Peaxi162Scf00173g00025' => 'pax', 'Peaxi162Scf00195g00102' => 'pax', 'Peaxi162Scf00402g00013' => 'pax', 'Peaxi162Scf00519g00618' => 'pax', 'PGR004G2838' => 'pgr', 'PGR044G2275' => 'pgr', 'PGR102G1377' => 'pgr', 'PGR119G1245' => 'pgr', 'PGR142G4449' => 'pgr', 'PGSC0003DMG400004532' => 'stu', 'PGSC0003DMG400011950' => 'stu', 'PGSC0003DMG400023391' => 'stu', 'PGSC0003DMG400023985' => 'stu', 'PGSC0003DMG400026360' => 'stu', 'PGSC0003DMG400035711' => 'stu', 'PGSC0003DMG400037286' => 'stu', 'PGSC0003DMG402005881' => 'stu', 'Phvul.002G045400' => 'pvu', 'Phvul.006G216600' => 'pvu', 'Phvul.006G216700' => 'pvu', 'Phvul.006G216800' => 'pvu', 'Phvul.007G022500' => 'pvu', 'Phvul.011G094400' => 'pvu', 'Potri.001G470700' => 'ptr', 'Potri.003G015200' => 'ptr', 'Potri.004G202500' => 'ptr', 'Potri.004G218400' => 'ptr', 'Potri.008G020100' => 'ptr', 'Potri.008G153200' => 'ptr', 'Potri.009G163800' => 'ptr', 'Potri.010G087300' => 'ptr', 'Potri.010G239100' => 'ptr', 'Pp3c10_16100' => 'ppa', 'Pp3c10_16880' => 'ppa', 'Pp3c16_6230' => 'ppa', 'Pp3c17_18910' => 'ppa', 'Pp3c3_22119' => 'ppa', 'Pp3c3_22140' => 'ppa', 'Pp3c4_8159' => 'ppa', 'Pp3c4_8171' => 'ppa', 'Pp3c4_8330' => 'ppa', 'PRCOL_00004098' => 'pco', 'Prupe.1G013900' => 'ppe', 'Prupe.1G226300' => 'ppe', 'Prupe.1G573600' => 'ppe', 'Prupe.6G130100' => 'ppe', 'Psat3g090040' => 'psa', 'Psat4g210440' => 'psa', 'Psat6g231040' => 'psa', 'Psat6g231080' => 'psa', 'Psat7g063000' => 'psa', 'Psat7g188000' => 'psa', 'Psat7g188040' => 'psa', 'PSO017G0206' => 'pso', 'PSO170G0501' => 'pso', 'PSO170G6422' => 'pso', 'PSO210G7739' => 'pso', 'PSO339G1808' => 'pso', 'PSO339G6135' => 'pso', 'PSO384G0010' => 'pso', 'PSO384G0964' => 'pso', 'PSO761G0050' => 'pso', 'PSO782G4085' => 'pso', 'QL01p012264' => 'qlo', 'QL02p099491' => 'qlo', 'QL03p033868' => 'qlo', 'QL04p046678' => 'qlo', 'QL06p002448' => 'qlo', 'RcHm_v2.0_Chr4g0416181' => 'rch', 'RcHm_v2.0_Chr5g0044701' => 'rch', 'RcHm_v2.0_Chr6g0265781' => 'rch', 'RcHm_v2.0_Chr7g0221031' => 'rch', 'Rhsim04G0202000' => 'rsi', 'Rhsim11G0127300' => 'rsi', 'Rhsim13G0111800' => 'rsi', 'Sabra01G0165600' => 'sbr', 'Sabra03G0008300' => 'sbr', 'Sabra04G0136900' => 'sbr', 'Sabra08G0013400' => 'sbr', 'Sabra08G0116800' => 'sbr', 'Sabra09G0128000' => 'sbr', 'Sabra10G0055500' => 'sbr', 'Sabra10G0073300' => 'sbr', 'SalBow3G0385' => 'sbo', 'SalBow3G1119' => 'sbo', 'SalBow3G2005' => 'sbo', 'SalBow6G2563' => 'sbo', 'SalBow6G6386' => 'sbo', 'Sc06g0008800' => 'sci', 'Sc07g0004950' => 'sci', 'Sc09g0005340' => 'sci', 'Sc13g0004410' => 'sci', 'Sc21g0007090' => 'sci', 'Sed0009285' => 'sed', 'Sed0017583' => 'sed', 'Sed0019699' => 'sed', 'Sed0023107' => 'sed', 'SEGI_10916' => 'sgi', 'SEGI_16217' => 'sgi', 'SEGI_19466' => 'sgi', 'SEGI_41115' => 'sgi', 'SGA_v2.0_scaffold111G31534' => 'sas', 'SGA_v2.0_scaffold22G09864' => 'sas', 'SGA_v2.0_scaffold338G49219' => 'sas', 'SGA_v2.0_scaffold92G28298' => 'sas', 'SMO119G0064' => 'smo', 'SMO223G0038' => 'smo', 'SMO347G0584' => 'smo', 'SMO351G0010' => 'smo', 'SMO356G0404' => 'smo', 'Solyc01g103920.3' => 'sly', 'Solyc04g009710.2' => 'sly', 'Solyc05g055280.2' => 'sly', 'Solyc10g044520.3' => 'sly', 'Solyc10g075160.1' => 'sly', 'Solyc11g006910.3' => 'sly', 'Solyc11g068430.3' => 'sly', 'Sopen01g046310' => 'spe', 'Sopen03g001200' => 'spe', 'Sopen04g004830' => 'spe', 'Sopen05g033720' => 'spe', 'Sopen06g030740' => 'spe', 'Sopen10g013090' => 'spe', 'Sopen10g027630' => 'spe', 'Sopen10g027640' => 'spe', 'Sopen11g002820' => 'spe', 'Sopen11g027140' => 'spe', 'Sp1g09680' => 'spa', 'Sp2g03630' => 'spa', 'Sp4g10320' => 'spa', 'Sp6g33400' => 'spa', 'Sp7g13030' => 'spa', 'TAR365G0317' => 'tar', 'TAR376G0979' => 'tar', 'TAR623G1665' => 'tar', 'TAR633G2373' => 'tar', 'TAR636G1400' => 'tar', 'THA.LOC104800529' => 'tha', 'THA.LOC104808547' => 'tha', 'THA.LOC104809615' => 'tha', 'THA.LOC104815724' => 'tha', 'THA.LOC104818480' => 'tha', 'THA.LOC104819179' => 'tha', 'THA.LOC104822270' => 'tha', 'THA.LOC104826425' => 'tha', 'Thecc.02G089700' => 'tca', 'Thecc.04G232300' => 'tca', 'Thecc.09G283400' => 'tca', 'Thhalv10009020m.g' => 'esa', 'Thhalv10015506m.g' => 'esa', 'Thhalv10017364m.g' => 'esa', 'Thhalv10023742m.g' => 'esa', 'Thhalv10026483m.g' => 'esa', 'TPR.G17232' => 'tpr', 'TPR.G2133' => 'tpr', 'TPR.G2498' => 'tpr', 'TPR.G31942' => 'tpr', 'TPR.G37877' => 'tpr', 'TPR.G4571' => 'tpr', 'TWI14G1113' => 'twi', 'TWI15G0426' => 'twi', 'TWI31G1005' => 'twi', 'TWI38G0513' => 'twi', 'TWI38G1484' => 'twi', 'TWI73G1098' => 'twi', 'unitig_26.g10519' => 'ugi', 'unitig_736.g22395' => 'ugi', 'unitig_747.g21234' => 'ugi', 'unitig_747.g21942' => 'ugi', 'vmacro14351' => 'vma', 'VMungo0540G0082' => 'vmu', 'VMungo0540G0405' => 'vmu', 'VMungo0540G1486' => 'vmu', 'VMungo0540G1692' => 'vmu', 'VMungo0720G2473' => 'vmu', 'VMungo1127G1562' => 'vmu', 'VMungo1215G1918' => 'vmu', 'Zm00001eb052650' => 'zma', 'Zm00001eb063710' => 'zma', 'Zm00001eb083950' => 'zma', 'Zm00001eb174420' => 'zma', 'Zm00001eb260140' => 'zma', 'Zm00001eb260150' => 'zma', 'Zm00001eb260160' => 'zma', 'Zm00001eb348290' => 'zma', 'Zm00001eb366870' => 'zma', 'Zm00001eb421930' => 'zma' ) $gf_id = 'HOM05D001025' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001025' ) $data_identifier = 'HOM05D001025' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 19, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 2, 'amhyb' => (int) 4, 'aly' => (int) 4, 'aox' => (int) 4, 'arhy' => (int) 3, 'ath' => (int) 5, 'atr' => (int) 4, 'acertr' => (int) 3, 'cqu' => (int) 7, 'bca' => (int) 17, 'bol' => (int) 10, 'bra' => (int) 9, 'can' => (int) 10, 'cansat' => (int) 6, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 5, 'cbr' => (int) 5, 'ccan' => (int) 5, 'cde' => (int) 4, 'cfa' => (int) 3, 'ccl' => (int) 6, 'cil' => (int) 4, 'cla' => (int) 3, 'col' => (int) 3, 'cpa' => (int) 3, 'cre' => (int) 7, 'csa' => (int) 5, 'camsi' => (int) 9, 'dca' => (int) 4, 'din' => (int) 5, 'dzi' => (int) 7, 'eca' => (int) 6, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 12, 'fve' => (int) 4, 'gma' => (int) 12, 'ghi' => (int) 17, 'gra' => (int) 9, 'vvi' => (int) 2, 'han' => (int) 8, 'cav' => (int) 5, 'hma' => (int) 9, 'vpl' => (int) 4, 'sun' => (int) 2, 'lal' => (int) 9, 'lja' => (int) 5, 'lonja' => (int) 6, 'lsa' => (int) 3, 'mes' => (int) 8, 'mpo' => (int) 3, 'mbi' => (int) 4, 'mco' => (int) 3, 'mdo' => (int) 5, 'mtr' => (int) 7, 'cme' => (int) 6, 'egut' => (int) 7, 'ama' => (int) 3, 'nta' => (int) 12, 'nnu' => (int) 9, 'oeu' => (int) 4, 'osa' => (int) 7, 'pax' => (int) 9, 'pgr' => (int) 5, 'stu' => (int) 8, 'pvu' => (int) 6, 'ptr' => (int) 9, 'ppa' => (int) 9, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 7, 'pso' => (int) 10, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 3, 'sbr' => (int) 8, 'sbo' => (int) 5, 'sci' => (int) 5, 'sed' => (int) 4, 'sgi' => (int) 4, 'sas' => (int) 4, 'smo' => (int) 5, 'sly' => (int) 7, 'spe' => (int) 10, 'spa' => (int) 5, 'tar' => (int) 5, 'tha' => (int) 8, 'tca' => (int) 3, 'esa' => (int) 5, 'tpr' => (int) 6, 'twi' => (int) 6, 'ugi' => (int) 4, 'vma' => (int) 1, 'vmu' => (int) 7, 'zma' => (int) 10 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb421930' $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' => 'HOM05D001025', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '592', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p22650' => 'bna', 'A01p29720' => 'bna', 'A03p26560' => 'bna', 'A03p68820' => 'bna', 'A04p20980' => 'bna', 'A06p07730' => 'bna', 'A07p18260' => 'bna', 'A08p33710' => 'bna', 'A09p16970' => 'bna', 'A10p27490' => 'bna', 'Aa31LG1G17300' => 'aar', 'Aa31LG1G3910' => 'aar', 'Aa31LG2G9630' => 'aar', 'Aa31LG5G8360' => 'aar', 'Aa31LG9G2410' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4699' => 'aag', 'Actinidia23512' => 'ach', 'Actinidia37080' => 'ach', 'Ah.01g020380' => 'amhyb', 'Ah.08g215710' => 'amhyb', 'Ah.09g225110' => 'amhyb', 'Ah.10g036680' => 'amhyb', 'AL1G21940' => 'aly', 'AL2G15540' => 'aly', 'AL4G21520' => 'aly', 'AL7G40960' => 'aly', 'Aqoxy2G01191' => 'aox', 'Aqoxy2G03393' => 'aox', 'Aqoxy4G02775' => 'aox', 'Aqoxy6G00058' => 'aox', 'arahy.Tifrunner.gnm1.ann1.9X74H2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CW3FX9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R485W7' => 'arhy', 'AT1G10960' => 'ath', 'AT1G60950' => 'ath', 'AT2G27510' => 'ath', 'AT4G14890' => 'ath', 'AT5G10000' => 'ath', 'ATR0665G624' => 'atr', 'ATR0697G138' => 'atr', 'ATR0776G046' => 'atr', 'ATR1134G135' => 'atr', 'Atru.chr12.1025' => 'acertr', 'Atru.chr3.3241' => 'acertr', 'Atru.chr4.2460' => 'acertr', 'AUR62007427' => 'cqu', 'AUR62010960' => 'cqu', 'AUR62012201' => 'cqu', 'AUR62021470' => 'cqu', 'AUR62022834' => 'cqu', 'AUR62033635' => 'cqu', 'AUR62036186' => 'cqu', 'BcaB01g03077' => 'bca', 'BcaB02g10093' => 'bca', 'BcaB04g20295' => 'bca', 'BcaB06g28147' => 'bca', 'BcaB07g31253' => 'bca', 'BcaC01g04946' => 'bca', 'BcaC02g10614' => 'bca', 'BcaC02g10885' => 'bca', 'BcaC04g19356' => 'bca', 'BcaC04g22297' => 'bca', 'BcaC05g24977' => 'bca', 'BcaC06g31823' => 'bca', 'BcaC07g38633' => 'bca', 'BcaC09g49353' => 'bca', 'BcaC09g50168' => 'bca', 'BcaNung00322' => 'bca', 'BcaNung04769' => 'bca', 'BolC1t02753H' => 'bol', 'BolC1t03721H' => 'bol', 'BolC3t15525H' => 'bol', 'BolC4t23903H' => 'bol', 'BolC4t24231H' => 'bol', 'BolC4t27209H' => 'bol', 'BolC5t29671H' => 'bol', 'BolC8t49044H' => 'bol', 'BolC9t54999H' => 'bol', 'BolC9t59517H' => 'bol', 'BraA01t02178Z' => 'bra', 'BraA01t03099Z' => 'bra', 'BraA03t11867Z' => 'bra', 'BraA04t17667Z' => 'bra', 'BraA07t29542Z' => 'bra', 'BraA08t35287Z' => 'bra', 'BraA09t37334Z' => 'bra', 'BraA10t44801Z' => 'bra', 'BraSC39t46181Z' => 'bra', 'C01p28240' => 'bna', 'C01p37530' => 'bna', 'C03p31820' => 'bna', 'C04p24080' => 'bna', 'C04p25790' => 'bna', 'C04p56770' => 'bna', 'C05p09310' => 'bna', 'C09p21010' => 'bna', 'C09p67560' => 'bna', 'CAN.G1324.7' => 'can', 'CAN.G1358.10' => 'can', 'CAN.G1550.2' => 'can', 'CAN.G186.56' => 'can', 'CAN.G1965.1' => 'can', 'CAN.G645.15' => 'can', 'CAN.G798.26' => 'can', 'CAN.G798.27' => 'can', 'CAN.G798.29' => 'can', 'CAN.G919.31' => 'can', 'CANSAT11G0133' => 'cansat', 'CANSAT11G1171' => 'cansat', 'CANSAT11G2056' => 'cansat', 'CANSAT56G1202' => 'cansat', 'CANSAT56G1514' => 'cansat', 'CANSAT78G0455' => 'cansat', 'CARHR011190' => 'chi', 'CARHR051980' => 'chi', 'CARHR120170' => 'chi', 'CARHR203310' => 'chi', 'CARHR221490' => 'chi', 'Carub.0001s1054' => 'cru', 'Carub.0002s0431' => 'cru', 'Carub.0004s0818' => 'cru', 'Carub.0006s0846' => 'cru', 'Carub.0007s2722' => 'cru', 'Ca_00058_v3' => 'car', 'Ca_17831_v3' => 'car', 'Ca_19408_v3' => 'car', 'Ca_24397_v3' => 'car', 'Ca_25664_v3' => 'car', 'CBR_g21818' => 'cbr', 'CBR_g31195' => 'cbr', 'CBR_g32282' => 'cbr', 'CBR_g39599' => 'cbr', 'CBR_g49410' => 'cbr', 'Cc01_g09120' => 'ccan', 'Cc01_g09130' => 'ccan', 'Cc02_g09630' => 'ccan', 'Cc02_g22810' => 'ccan', 'Cc03_g03810' => 'ccan', 'CDE02G3718' => 'cde', 'CDE04G3183' => 'cde', 'CDE07G1046' => 'cde', 'CDE08G0480' => 'cde', 'Cfa005493' => 'cfa', 'Cfa010312' => 'cfa', 'Cfa015648' => 'cfa', 'Ciclev10002793m.g' => 'ccl', 'Ciclev10003356m.g' => 'ccl', 'Ciclev10006141m.g' => 'ccl', 'Ciclev10016676m.g' => 'ccl', 'Ciclev10017081m.g' => 'ccl', 'Ciclev10029499m.g' => 'ccl', 'CiPaw.01G166300' => 'cil', 'CiPaw.06G145600' => 'cil', 'CiPaw.13G040100' => 'cil', 'CiPaw.13G135800' => 'cil', 'ClCG01G012230' => 'cla', 'ClCG05G009510' => 'cla', 'ClCG08G008270' => 'cla', 'COL.COLO4_11763' => 'col', 'COL.COLO4_19876' => 'col', 'COL.COLO4_21481' => 'col', 'Cpa.g.sc118.34' => 'cpa', 'Cpa.g.sc32.13' => 'cpa', 'Cpa.g.sc58.103' => 'cpa', 'Cre03.g183850' => 'cre', 'Cre06.g306350' => 'cre', 'Cre07.g334800' => 'cre', 'Cre12.g487900' => 'cre', 'Cre14.g626700' => 'cre', 'Cre16.g658400' => 'cre', 'Cre17.g700950' => 'cre', 'CsaV3_1G014830' => 'csa', 'CsaV3_3G013320' => 'csa', 'CsaV3_3G019210' => 'csa', 'CsaV3_3G019220' => 'csa', 'CsaV3_6G004230' => 'csa', 'CSS0003773' => 'camsi', 'CSS0004563' => 'camsi', 'CSS0013949' => 'camsi', 'CSS0025971' => 'camsi', 'CSS0028570' => 'camsi', 'CSS0033127' => 'camsi', 'CSS0036051' => 'camsi', 'CSS0040087' => 'camsi', 'CSS0043179' => 'camsi', 'DCAR_006161' => 'dca', 'DCAR_010351' => 'dca', 'DCAR_012197' => 'dca', 'DCAR_024162' => 'dca', 'Dinv01030' => 'din', 'Dinv10924' => 'din', 'Dinv11835' => 'din', 'Dinv22841' => 'din', 'Dinv42553' => 'din', 'Duzib052G0560' => 'dzi', 'Duzib132G0389' => 'dzi', 'Duzib150G1181' => 'dzi', 'Duzib168G0623' => 'dzi', 'Duzib170G1036' => 'dzi', 'Duzib212G0200' => 'dzi', 'Duzib248G0194' => 'dzi', 'ECA232G2193' => 'eca', 'ECA233G0302' => 'eca', 'ECA234G2813' => 'eca', 'ECA234G4866' => 'eca', 'ECA240G3932' => 'eca', 'ECA248G0385' => 'eca', 'EL10Ac2g04781' => 'bvu', 'EL10Ac3g06445' => 'bvu', 'EL10Ac7g15825' => 'bvu', 'EL10Ac8g18550' => 'bvu', 'Eucgr.B03849' => 'egr', 'Eucgr.I02744' => 'egr', 'Eucgr.J00264' => 'egr', 'Eucgr.J00493' => 'egr', 'FAN04G2181' => 'fan', 'FAN07G2666' => 'fan', 'FAN11G0024' => 'fan', 'FAN12G1105' => 'fan', 'FAN13G0302' => 'fan', 'FAN15G2781' => 'fan', 'FAN16G1274' => 'fan', 'FAN17G2988' => 'fan', 'FAN18G2621' => 'fan', 'FAN21G0013' => 'fan', 'FAN22G1211' => 'fan', 'FAN25G3626' => 'fan', 'FvH4_2g09491' => 'fve', 'FvH4_3g24910' => 'fve', 'FvH4_4g15630' => 'fve', 'FvH4_5g28820' => 'fve', 'Glyma.01G238000' => 'gma', 'Glyma.05G168400' => 'gma', 'Glyma.08G126800' => 'gma', 'Glyma.08G188500' => 'gma', 'Glyma.10G278900' => 'gma', 'Glyma.11G005700' => 'gma', 'Glyma.11G183300' => 'gma', 'Glyma.12G089200' => 'gma', 'Glyma.12G169400' => 'gma', 'Glyma.12G169500' => 'gma', 'Glyma.12G169600' => 'gma', 'Glyma.20G110800' => 'gma', 'Gohir.A03G192900' => 'ghi', 'Gohir.A03G193000' => 'ghi', 'Gohir.A05G080700' => 'ghi', 'Gohir.A09G216000' => 'ghi', 'Gohir.A12G027700' => 'ghi', 'Gohir.A13G036200' => 'ghi', 'Gohir.A13G222600' => 'ghi', 'Gohir.D02G213900' => 'ghi', 'Gohir.D02G214000' => 'ghi', 'Gohir.D05G083700' => 'ghi', 'Gohir.D05G083800' => 'ghi', 'Gohir.D05G083850' => 'ghi', 'Gohir.D08G015400' => 'ghi', 'Gohir.D09G218400' => 'ghi', 'Gohir.D12G027100' => 'ghi', 'Gohir.D13G034500' => 'ghi', 'Gohir.D13G227400' => 'ghi', 'Gorai.005G241800' => 'gra', 'Gorai.005G241900' => 'gra', 'Gorai.006G239400' => 'gra', 'Gorai.008G027600' => 'gra', 'Gorai.009G085400' => 'gra', 'Gorai.009G085500' => 'gra', 'Gorai.013G039000' => 'gra', 'Gorai.013G194800' => 'gra', 'Gorai.013G257900' => 'gra', 'GSVIVG01000982001' => 'vvi', 'GSVIVG01017981001' => 'vvi', 'HanXRQChr01g0024061' => 'han', 'HanXRQChr09g0247831' => 'han', 'HanXRQChr10g0294611' => 'han', 'HanXRQChr10g0294621' => 'han', 'HanXRQChr11g0346821' => 'han', 'HanXRQChr13g0397461' => 'han', 'HanXRQChr16g0513651' => 'han', 'HanXRQChr16g0513701' => 'han', 'Haze_00897' => 'cav', 'Haze_01745' => 'cav', 'Haze_02486' => 'cav', 'Haze_02487' => 'cav', 'Haze_23374' => 'cav', 'Hma1.2p1_0578F.1_g182520' => 'hma', 'Hma1.2p1_0602F.1_g187350' => 'hma', 'Hma1.2p1_0602F.1_g187360' => 'hma', 'Hma1.2p1_0874F.1_g231320' => 'hma', 'Hma1.2p1_1197F.1_g266210' => 'hma', 'Hma1.2p1_1197F.1_g266220' => 'hma', 'Hma1.2p1_2167F.1_g315895' => 'hma', 'Hma1.2p1_2190F.1_g316640' => 'hma', 'Hma1.2p1_3645F.1_g337153' => 'hma', 'HPP92_004907' => 'vpl', 'HPP92_012134' => 'vpl', 'HPP92_025136' => 'vpl', 'HPP92_026087' => 'vpl', 'Hund06782' => 'sun', 'Hund06784' => 'sun', 'Lalb_Chr01g0004861' => 'lal', 'Lalb_Chr02g0140591' => 'lal', 'Lalb_Chr02g0140611' => 'lal', 'Lalb_Chr03g0028101' => 'lal', 'Lalb_Chr07g0185791' => 'lal', 'Lalb_Chr12g0204491' => 'lal', 'Lalb_Chr13g0295671' => 'lal', 'Lalb_Chr19g0136461' => 'lal', 'Lalb_Chr21g0309191' => 'lal', 'Lj1g0028158' => 'lja', 'Lj1P236T38' => 'lonja', 'Lj2C32G2' => 'lonja', 'Lj2P944T8' => 'lonja', 'Lj2P963T15' => 'lonja', 'Lj3g0011788' => 'lja', 'Lj4g0025027' => 'lja', 'Lj5P255T36' => 'lonja', 'Lj6g0018866' => 'lja', 'Lj6P608T31' => 'lonja', 'LjContig00408g0008879' => 'lja', 'Lsat_1_v5_gn_5_105820' => 'lsa', 'Lsat_1_v5_gn_6_38800' => 'lsa', 'Lsat_1_v5_gn_7_67141' => 'lsa', 'Manes.04G003400' => 'mes', 'Manes.07G020000' => 'mes', 'Manes.07G020100' => 'mes', 'Manes.07G020150' => 'mes', 'Manes.10G061500' => 'mes', 'Manes.10G123200' => 'mes', 'Manes.11G161900' => 'mes', 'Manes.15G029300' => 'mes', 'Mapoly0071s0018' => 'mpo', 'Mapoly0082s0023' => 'mpo', 'Mapoly3477s0001' => 'mpo', 'MBI05_g31233_MAGBIO' => 'mbi', 'MBI09_g05946_MAGBIO' => 'mbi', 'MBI09_g05947_MAGBIO' => 'mbi', 'MBI17_g08346_MAGBIO' => 'mbi', 'MCO04G038' => 'mco', 'MCO09G370' => 'mco', 'MCO13G605' => 'mco', 'MD00G1075500' => 'mdo', 'MD03G1144300' => 'mdo', 'MD08G1236800' => 'mdo', 'MD13G1193300' => 'mdo', 'MD15G1428700' => 'mdo', 'Medtr1g112030' => 'mtr', 'Medtr1g112050' => 'mtr', 'Medtr2g006290' => 'mtr', 'Medtr2g086510' => 'mtr', 'Medtr4g053120' => 'mtr', 'Medtr5g006320' => 'mtr', 'Medtr8g088720' => 'mtr', 'MELO3C004712.2' => 'cme', 'MELO3C006533.2' => 'cme', 'MELO3C019438.2' => 'cme', 'MELO3C019440.2' => 'cme', 'MELO3C019441.2' => 'cme', 'MELO3C019895.2' => 'cme', 'Migut.B00811' => 'egut', 'Migut.D02447' => 'egut', 'Migut.F00875' => 'egut', 'Migut.N00186' => 'egut', 'Migut.N01051' => 'egut', 'Migut.N02491' => 'egut', 'Migut.O00784' => 'egut', 'MSTRG.12367' => 'ama', 'MSTRG.18756' => 'ama', 'MSTRG.21042' => 'ama', 'Nitab4.5_0000559g0040' => 'nta', 'Nitab4.5_0000667g0190' => 'nta', 'Nitab4.5_0000755g0160' => 'nta', 'Nitab4.5_0001216g0080' => 'nta', 'Nitab4.5_0004069g0040' => 'nta', 'Nitab4.5_0004129g0010' => 'nta', 'Nitab4.5_0005744g0030' => 'nta', 'Nitab4.5_0006996g0030' => 'nta', 'Nitab4.5_0008971g0040' => 'nta', 'Nitab4.5_0009769g0020' => 'nta', 'Nitab4.5_0009833g0010' => 'nta', 'Nitab4.5_0013140g0020' => 'nta', 'Nn003s41376' => 'nnu', 'Nn1g01857' => 'nnu', 'Nn1g03611' => 'nnu', 'Nn1g06853' => 'nnu', 'Nn3g18360' => 'nnu', 'Nn4g26328' => 'nnu', 'Nn5g27531' => 'nnu', 'Nn6g34899' => 'nnu', 'Nn7g36299' => 'nnu', 'Oeu021485.1' => 'oeu', 'Oeu022433.1' => 'oeu', 'Oeu032111.1' => 'oeu', 'Oeu051608.1' => 'oeu', 'Os01g0860601' => 'osa', 'Os03g0659200' => 'osa', 'Os03g0835900' => 'osa', 'Os04g0412200' => 'osa', 'Os05g0443500' => 'osa', 'Os07g0251500' => 'osa', 'Os08g0104600' => 'osa', 'Peaxi162Scf00003g00047' => 'pax', 'Peaxi162Scf00003g00052' => 'pax', 'Peaxi162Scf00003g00394' => 'pax', 'Peaxi162Scf00091g00621' => 'pax', 'Peaxi162Scf00152g00146' => 'pax', 'Peaxi162Scf00173g00025' => 'pax', 'Peaxi162Scf00195g00102' => 'pax', 'Peaxi162Scf00402g00013' => 'pax', 'Peaxi162Scf00519g00618' => 'pax', 'PGR004G2838' => 'pgr', 'PGR044G2275' => 'pgr', 'PGR102G1377' => 'pgr', 'PGR119G1245' => 'pgr', 'PGR142G4449' => 'pgr', 'PGSC0003DMG400004532' => 'stu', 'PGSC0003DMG400011950' => 'stu', 'PGSC0003DMG400023391' => 'stu', 'PGSC0003DMG400023985' => 'stu', 'PGSC0003DMG400026360' => 'stu', 'PGSC0003DMG400035711' => 'stu', 'PGSC0003DMG400037286' => 'stu', 'PGSC0003DMG402005881' => 'stu', 'Phvul.002G045400' => 'pvu', 'Phvul.006G216600' => 'pvu', 'Phvul.006G216700' => 'pvu', 'Phvul.006G216800' => 'pvu', 'Phvul.007G022500' => 'pvu', 'Phvul.011G094400' => 'pvu', 'Potri.001G470700' => 'ptr', 'Potri.003G015200' => 'ptr', 'Potri.004G202500' => 'ptr', 'Potri.004G218400' => 'ptr', 'Potri.008G020100' => 'ptr', 'Potri.008G153200' => 'ptr', 'Potri.009G163800' => 'ptr', 'Potri.010G087300' => 'ptr', 'Potri.010G239100' => 'ptr', 'Pp3c10_16100' => 'ppa', 'Pp3c10_16880' => 'ppa', 'Pp3c16_6230' => 'ppa', 'Pp3c17_18910' => 'ppa', 'Pp3c3_22119' => 'ppa', 'Pp3c3_22140' => 'ppa', 'Pp3c4_8159' => 'ppa', 'Pp3c4_8171' => 'ppa', 'Pp3c4_8330' => 'ppa', 'PRCOL_00004098' => 'pco', 'Prupe.1G013900' => 'ppe', 'Prupe.1G226300' => 'ppe', 'Prupe.1G573600' => 'ppe', 'Prupe.6G130100' => 'ppe', 'Psat3g090040' => 'psa', 'Psat4g210440' => 'psa', 'Psat6g231040' => 'psa', 'Psat6g231080' => 'psa', 'Psat7g063000' => 'psa', 'Psat7g188000' => 'psa', 'Psat7g188040' => 'psa', 'PSO017G0206' => 'pso', 'PSO170G0501' => 'pso', 'PSO170G6422' => 'pso', 'PSO210G7739' => 'pso', 'PSO339G1808' => 'pso', 'PSO339G6135' => 'pso', 'PSO384G0010' => 'pso', 'PSO384G0964' => 'pso', 'PSO761G0050' => 'pso', 'PSO782G4085' => 'pso', 'QL01p012264' => 'qlo', 'QL02p099491' => 'qlo', 'QL03p033868' => 'qlo', 'QL04p046678' => 'qlo', 'QL06p002448' => 'qlo', 'RcHm_v2.0_Chr4g0416181' => 'rch', 'RcHm_v2.0_Chr5g0044701' => 'rch', 'RcHm_v2.0_Chr6g0265781' => 'rch', 'RcHm_v2.0_Chr7g0221031' => 'rch', 'Rhsim04G0202000' => 'rsi', 'Rhsim11G0127300' => 'rsi', 'Rhsim13G0111800' => 'rsi', 'Sabra01G0165600' => 'sbr', 'Sabra03G0008300' => 'sbr', 'Sabra04G0136900' => 'sbr', 'Sabra08G0013400' => 'sbr', 'Sabra08G0116800' => 'sbr', 'Sabra09G0128000' => 'sbr', 'Sabra10G0055500' => 'sbr', 'Sabra10G0073300' => 'sbr', 'SalBow3G0385' => 'sbo', 'SalBow3G1119' => 'sbo', 'SalBow3G2005' => 'sbo', 'SalBow6G2563' => 'sbo', 'SalBow6G6386' => 'sbo', 'Sc06g0008800' => 'sci', 'Sc07g0004950' => 'sci', 'Sc09g0005340' => 'sci', 'Sc13g0004410' => 'sci', 'Sc21g0007090' => 'sci', 'Sed0009285' => 'sed', 'Sed0017583' => 'sed', 'Sed0019699' => 'sed', 'Sed0023107' => 'sed', 'SEGI_10916' => 'sgi', 'SEGI_16217' => 'sgi', 'SEGI_19466' => 'sgi', 'SEGI_41115' => 'sgi', 'SGA_v2.0_scaffold111G31534' => 'sas', 'SGA_v2.0_scaffold22G09864' => 'sas', 'SGA_v2.0_scaffold338G49219' => 'sas', 'SGA_v2.0_scaffold92G28298' => 'sas', 'SMO119G0064' => 'smo', 'SMO223G0038' => 'smo', 'SMO347G0584' => 'smo', 'SMO351G0010' => 'smo', 'SMO356G0404' => 'smo', 'Solyc01g103920.3' => 'sly', 'Solyc04g009710.2' => 'sly', 'Solyc05g055280.2' => 'sly', 'Solyc10g044520.3' => 'sly', 'Solyc10g075160.1' => 'sly', 'Solyc11g006910.3' => 'sly', 'Solyc11g068430.3' => 'sly', 'Sopen01g046310' => 'spe', 'Sopen03g001200' => 'spe', 'Sopen04g004830' => 'spe', 'Sopen05g033720' => 'spe', 'Sopen06g030740' => 'spe', 'Sopen10g013090' => 'spe', 'Sopen10g027630' => 'spe', 'Sopen10g027640' => 'spe', 'Sopen11g002820' => 'spe', 'Sopen11g027140' => 'spe', 'Sp1g09680' => 'spa', 'Sp2g03630' => 'spa', 'Sp4g10320' => 'spa', 'Sp6g33400' => 'spa', 'Sp7g13030' => 'spa', 'TAR365G0317' => 'tar', 'TAR376G0979' => 'tar', 'TAR623G1665' => 'tar', 'TAR633G2373' => 'tar', 'TAR636G1400' => 'tar', 'THA.LOC104800529' => 'tha', 'THA.LOC104808547' => 'tha', 'THA.LOC104809615' => 'tha', 'THA.LOC104815724' => 'tha', 'THA.LOC104818480' => 'tha', 'THA.LOC104819179' => 'tha', 'THA.LOC104822270' => 'tha', 'THA.LOC104826425' => 'tha', 'Thecc.02G089700' => 'tca', 'Thecc.04G232300' => 'tca', 'Thecc.09G283400' => 'tca', 'Thhalv10009020m.g' => 'esa', 'Thhalv10015506m.g' => 'esa', 'Thhalv10017364m.g' => 'esa', 'Thhalv10023742m.g' => 'esa', 'Thhalv10026483m.g' => 'esa', 'TPR.G17232' => 'tpr', 'TPR.G2133' => 'tpr', 'TPR.G2498' => 'tpr', 'TPR.G31942' => 'tpr', 'TPR.G37877' => 'tpr', 'TPR.G4571' => 'tpr', 'TWI14G1113' => 'twi', 'TWI15G0426' => 'twi', 'TWI31G1005' => 'twi', 'TWI38G0513' => 'twi', 'TWI38G1484' => 'twi', 'TWI73G1098' => 'twi', 'unitig_26.g10519' => 'ugi', 'unitig_736.g22395' => 'ugi', 'unitig_747.g21234' => 'ugi', 'unitig_747.g21942' => 'ugi', 'vmacro14351' => 'vma', 'VMungo0540G0082' => 'vmu', 'VMungo0540G0405' => 'vmu', 'VMungo0540G1486' => 'vmu', 'VMungo0540G1692' => 'vmu', 'VMungo0720G2473' => 'vmu', 'VMungo1127G1562' => 'vmu', 'VMungo1215G1918' => 'vmu', 'Zm00001eb052650' => 'zma', 'Zm00001eb063710' => 'zma', 'Zm00001eb083950' => 'zma', 'Zm00001eb174420' => 'zma', 'Zm00001eb260140' => 'zma', 'Zm00001eb260150' => 'zma', 'Zm00001eb260160' => 'zma', 'Zm00001eb348290' => 'zma', 'Zm00001eb366870' => 'zma', 'Zm00001eb421930' => 'zma' ), 'gf_id' => 'HOM05D001025', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001025' ), 'data_identifier' => 'HOM05D001025', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001025', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '592', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p22650' => 'bna', 'A01p29720' => 'bna', 'A03p26560' => 'bna', 'A03p68820' => 'bna', 'A04p20980' => 'bna', 'A06p07730' => 'bna', 'A07p18260' => 'bna', 'A08p33710' => 'bna', 'A09p16970' => 'bna', 'A10p27490' => 'bna', 'Aa31LG1G17300' => 'aar', 'Aa31LG1G3910' => 'aar', 'Aa31LG2G9630' => 'aar', 'Aa31LG5G8360' => 'aar', 'Aa31LG9G2410' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4699' => 'aag', 'Actinidia23512' => 'ach', 'Actinidia37080' => 'ach', 'Ah.01g020380' => 'amhyb', 'Ah.08g215710' => 'amhyb', 'Ah.09g225110' => 'amhyb', 'Ah.10g036680' => 'amhyb', 'AL1G21940' => 'aly', 'AL2G15540' => 'aly', 'AL4G21520' => 'aly', 'AL7G40960' => 'aly', 'Aqoxy2G01191' => 'aox', 'Aqoxy2G03393' => 'aox', 'Aqoxy4G02775' => 'aox', 'Aqoxy6G00058' => 'aox', 'arahy.Tifrunner.gnm1.ann1.9X74H2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CW3FX9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R485W7' => 'arhy', 'AT1G10960' => 'ath', 'AT1G60950' => 'ath', 'AT2G27510' => 'ath', 'AT4G14890' => 'ath', 'AT5G10000' => 'ath', 'ATR0665G624' => 'atr', 'ATR0697G138' => 'atr', 'ATR0776G046' => 'atr', 'ATR1134G135' => 'atr', 'Atru.chr12.1025' => 'acertr', 'Atru.chr3.3241' => 'acertr', 'Atru.chr4.2460' => 'acertr', 'AUR62007427' => 'cqu', 'AUR62010960' => 'cqu', 'AUR62012201' => 'cqu', 'AUR62021470' => 'cqu', 'AUR62022834' => 'cqu', 'AUR62033635' => 'cqu', 'AUR62036186' => 'cqu', 'BcaB01g03077' => 'bca', 'BcaB02g10093' => 'bca', 'BcaB04g20295' => 'bca', 'BcaB06g28147' => 'bca', 'BcaB07g31253' => 'bca', 'BcaC01g04946' => 'bca', 'BcaC02g10614' => 'bca', 'BcaC02g10885' => 'bca', 'BcaC04g19356' => 'bca', 'BcaC04g22297' => 'bca', 'BcaC05g24977' => 'bca', 'BcaC06g31823' => 'bca', 'BcaC07g38633' => 'bca', 'BcaC09g49353' => 'bca', 'BcaC09g50168' => 'bca', 'BcaNung00322' => 'bca', 'BcaNung04769' => 'bca', 'BolC1t02753H' => 'bol', 'BolC1t03721H' => 'bol', 'BolC3t15525H' => 'bol', 'BolC4t23903H' => 'bol', 'BolC4t24231H' => 'bol', 'BolC4t27209H' => 'bol', 'BolC5t29671H' => 'bol', 'BolC8t49044H' => 'bol', 'BolC9t54999H' => 'bol', 'BolC9t59517H' => 'bol', 'BraA01t02178Z' => 'bra', 'BraA01t03099Z' => 'bra', 'BraA03t11867Z' => 'bra', 'BraA04t17667Z' => 'bra', 'BraA07t29542Z' => 'bra', 'BraA08t35287Z' => 'bra', 'BraA09t37334Z' => 'bra', 'BraA10t44801Z' => 'bra', 'BraSC39t46181Z' => 'bra', 'C01p28240' => 'bna', 'C01p37530' => 'bna', 'C03p31820' => 'bna', 'C04p24080' => 'bna', 'C04p25790' => 'bna', 'C04p56770' => 'bna', 'C05p09310' => 'bna', 'C09p21010' => 'bna', 'C09p67560' => 'bna', 'CAN.G1324.7' => 'can', 'CAN.G1358.10' => 'can', 'CAN.G1550.2' => 'can', 'CAN.G186.56' => 'can', 'CAN.G1965.1' => 'can', 'CAN.G645.15' => 'can', 'CAN.G798.26' => 'can', 'CAN.G798.27' => 'can', 'CAN.G798.29' => 'can', 'CAN.G919.31' => 'can', 'CANSAT11G0133' => 'cansat', 'CANSAT11G1171' => 'cansat', 'CANSAT11G2056' => 'cansat', 'CANSAT56G1202' => 'cansat', 'CANSAT56G1514' => 'cansat', 'CANSAT78G0455' => 'cansat', 'CARHR011190' => 'chi', 'CARHR051980' => 'chi', 'CARHR120170' => 'chi', 'CARHR203310' => 'chi', 'CARHR221490' => 'chi', 'Carub.0001s1054' => 'cru', 'Carub.0002s0431' => 'cru', 'Carub.0004s0818' => 'cru', 'Carub.0006s0846' => 'cru', 'Carub.0007s2722' => 'cru', 'Ca_00058_v3' => 'car', 'Ca_17831_v3' => 'car', 'Ca_19408_v3' => 'car', 'Ca_24397_v3' => 'car', 'Ca_25664_v3' => 'car', 'CBR_g21818' => 'cbr', 'CBR_g31195' => 'cbr', 'CBR_g32282' => 'cbr', 'CBR_g39599' => 'cbr', 'CBR_g49410' => 'cbr', 'Cc01_g09120' => 'ccan', 'Cc01_g09130' => 'ccan', 'Cc02_g09630' => 'ccan', 'Cc02_g22810' => 'ccan', 'Cc03_g03810' => 'ccan', 'CDE02G3718' => 'cde', 'CDE04G3183' => 'cde', 'CDE07G1046' => 'cde', 'CDE08G0480' => 'cde', 'Cfa005493' => 'cfa', 'Cfa010312' => 'cfa', 'Cfa015648' => 'cfa', 'Ciclev10002793m.g' => 'ccl', 'Ciclev10003356m.g' => 'ccl', 'Ciclev10006141m.g' => 'ccl', 'Ciclev10016676m.g' => 'ccl', 'Ciclev10017081m.g' => 'ccl', 'Ciclev10029499m.g' => 'ccl', 'CiPaw.01G166300' => 'cil', 'CiPaw.06G145600' => 'cil', 'CiPaw.13G040100' => 'cil', 'CiPaw.13G135800' => 'cil', 'ClCG01G012230' => 'cla', 'ClCG05G009510' => 'cla', 'ClCG08G008270' => 'cla', 'COL.COLO4_11763' => 'col', 'COL.COLO4_19876' => 'col', 'COL.COLO4_21481' => 'col', 'Cpa.g.sc118.34' => 'cpa', 'Cpa.g.sc32.13' => 'cpa', 'Cpa.g.sc58.103' => 'cpa', 'Cre03.g183850' => 'cre', 'Cre06.g306350' => 'cre', 'Cre07.g334800' => 'cre', 'Cre12.g487900' => 'cre', 'Cre14.g626700' => 'cre', 'Cre16.g658400' => 'cre', 'Cre17.g700950' => 'cre', 'CsaV3_1G014830' => 'csa', 'CsaV3_3G013320' => 'csa', 'CsaV3_3G019210' => 'csa', 'CsaV3_3G019220' => 'csa', 'CsaV3_6G004230' => 'csa', 'CSS0003773' => 'camsi', 'CSS0004563' => 'camsi', 'CSS0013949' => 'camsi', 'CSS0025971' => 'camsi', 'CSS0028570' => 'camsi', 'CSS0033127' => 'camsi', 'CSS0036051' => 'camsi', 'CSS0040087' => 'camsi', 'CSS0043179' => 'camsi', 'DCAR_006161' => 'dca', 'DCAR_010351' => 'dca', 'DCAR_012197' => 'dca', 'DCAR_024162' => 'dca', 'Dinv01030' => 'din', 'Dinv10924' => 'din', 'Dinv11835' => 'din', 'Dinv22841' => 'din', 'Dinv42553' => 'din', 'Duzib052G0560' => 'dzi', 'Duzib132G0389' => 'dzi', 'Duzib150G1181' => 'dzi', 'Duzib168G0623' => 'dzi', 'Duzib170G1036' => 'dzi', 'Duzib212G0200' => 'dzi', 'Duzib248G0194' => 'dzi', 'ECA232G2193' => 'eca', 'ECA233G0302' => 'eca', 'ECA234G2813' => 'eca', 'ECA234G4866' => 'eca', 'ECA240G3932' => 'eca', 'ECA248G0385' => 'eca', 'EL10Ac2g04781' => 'bvu', 'EL10Ac3g06445' => 'bvu', 'EL10Ac7g15825' => 'bvu', 'EL10Ac8g18550' => 'bvu', 'Eucgr.B03849' => 'egr', 'Eucgr.I02744' => 'egr', 'Eucgr.J00264' => 'egr', 'Eucgr.J00493' => 'egr', 'FAN04G2181' => 'fan', 'FAN07G2666' => 'fan', 'FAN11G0024' => 'fan', 'FAN12G1105' => 'fan', 'FAN13G0302' => 'fan', 'FAN15G2781' => 'fan', 'FAN16G1274' => 'fan', 'FAN17G2988' => 'fan', 'FAN18G2621' => 'fan', 'FAN21G0013' => 'fan', 'FAN22G1211' => 'fan', 'FAN25G3626' => 'fan', 'FvH4_2g09491' => 'fve', 'FvH4_3g24910' => 'fve', 'FvH4_4g15630' => 'fve', 'FvH4_5g28820' => 'fve', 'Glyma.01G238000' => 'gma', 'Glyma.05G168400' => 'gma', 'Glyma.08G126800' => 'gma', 'Glyma.08G188500' => 'gma', 'Glyma.10G278900' => 'gma', 'Glyma.11G005700' => 'gma', 'Glyma.11G183300' => 'gma', 'Glyma.12G089200' => 'gma', 'Glyma.12G169400' => 'gma', 'Glyma.12G169500' => 'gma', 'Glyma.12G169600' => 'gma', 'Glyma.20G110800' => 'gma', 'Gohir.A03G192900' => 'ghi', 'Gohir.A03G193000' => 'ghi', 'Gohir.A05G080700' => 'ghi', 'Gohir.A09G216000' => 'ghi', 'Gohir.A12G027700' => 'ghi', 'Gohir.A13G036200' => 'ghi', 'Gohir.A13G222600' => 'ghi', 'Gohir.D02G213900' => 'ghi', 'Gohir.D02G214000' => 'ghi', 'Gohir.D05G083700' => 'ghi', 'Gohir.D05G083800' => 'ghi', 'Gohir.D05G083850' => 'ghi', 'Gohir.D08G015400' => 'ghi', 'Gohir.D09G218400' => 'ghi', 'Gohir.D12G027100' => 'ghi', 'Gohir.D13G034500' => 'ghi', 'Gohir.D13G227400' => 'ghi', 'Gorai.005G241800' => 'gra', 'Gorai.005G241900' => 'gra', 'Gorai.006G239400' => 'gra', 'Gorai.008G027600' => 'gra', 'Gorai.009G085400' => 'gra', 'Gorai.009G085500' => 'gra', 'Gorai.013G039000' => 'gra', 'Gorai.013G194800' => 'gra', 'Gorai.013G257900' => 'gra', 'GSVIVG01000982001' => 'vvi', 'GSVIVG01017981001' => 'vvi', 'HanXRQChr01g0024061' => 'han', 'HanXRQChr09g0247831' => 'han', 'HanXRQChr10g0294611' => 'han', 'HanXRQChr10g0294621' => 'han', 'HanXRQChr11g0346821' => 'han', 'HanXRQChr13g0397461' => 'han', 'HanXRQChr16g0513651' => 'han', 'HanXRQChr16g0513701' => 'han', 'Haze_00897' => 'cav', 'Haze_01745' => 'cav', 'Haze_02486' => 'cav', 'Haze_02487' => 'cav', 'Haze_23374' => 'cav', 'Hma1.2p1_0578F.1_g182520' => 'hma', 'Hma1.2p1_0602F.1_g187350' => 'hma', 'Hma1.2p1_0602F.1_g187360' => 'hma', 'Hma1.2p1_0874F.1_g231320' => 'hma', 'Hma1.2p1_1197F.1_g266210' => 'hma', 'Hma1.2p1_1197F.1_g266220' => 'hma', 'Hma1.2p1_2167F.1_g315895' => 'hma', 'Hma1.2p1_2190F.1_g316640' => 'hma', 'Hma1.2p1_3645F.1_g337153' => 'hma', 'HPP92_004907' => 'vpl', 'HPP92_012134' => 'vpl', 'HPP92_025136' => 'vpl', 'HPP92_026087' => 'vpl', 'Hund06782' => 'sun', 'Hund06784' => 'sun', 'Lalb_Chr01g0004861' => 'lal', 'Lalb_Chr02g0140591' => 'lal', 'Lalb_Chr02g0140611' => 'lal', 'Lalb_Chr03g0028101' => 'lal', 'Lalb_Chr07g0185791' => 'lal', 'Lalb_Chr12g0204491' => 'lal', 'Lalb_Chr13g0295671' => 'lal', 'Lalb_Chr19g0136461' => 'lal', 'Lalb_Chr21g0309191' => 'lal', 'Lj1g0028158' => 'lja', 'Lj1P236T38' => 'lonja', 'Lj2C32G2' => 'lonja', 'Lj2P944T8' => 'lonja', 'Lj2P963T15' => 'lonja', 'Lj3g0011788' => 'lja', 'Lj4g0025027' => 'lja', 'Lj5P255T36' => 'lonja', 'Lj6g0018866' => 'lja', 'Lj6P608T31' => 'lonja', 'LjContig00408g0008879' => 'lja', 'Lsat_1_v5_gn_5_105820' => 'lsa', 'Lsat_1_v5_gn_6_38800' => 'lsa', 'Lsat_1_v5_gn_7_67141' => 'lsa', 'Manes.04G003400' => 'mes', 'Manes.07G020000' => 'mes', 'Manes.07G020100' => 'mes', 'Manes.07G020150' => 'mes', 'Manes.10G061500' => 'mes', 'Manes.10G123200' => 'mes', 'Manes.11G161900' => 'mes', 'Manes.15G029300' => 'mes', 'Mapoly0071s0018' => 'mpo', 'Mapoly0082s0023' => 'mpo', 'Mapoly3477s0001' => 'mpo', 'MBI05_g31233_MAGBIO' => 'mbi', 'MBI09_g05946_MAGBIO' => 'mbi', 'MBI09_g05947_MAGBIO' => 'mbi', 'MBI17_g08346_MAGBIO' => 'mbi', 'MCO04G038' => 'mco', 'MCO09G370' => 'mco', 'MCO13G605' => 'mco', 'MD00G1075500' => 'mdo', 'MD03G1144300' => 'mdo', 'MD08G1236800' => 'mdo', 'MD13G1193300' => 'mdo', 'MD15G1428700' => 'mdo', 'Medtr1g112030' => 'mtr', 'Medtr1g112050' => 'mtr', 'Medtr2g006290' => 'mtr', 'Medtr2g086510' => 'mtr', 'Medtr4g053120' => 'mtr', 'Medtr5g006320' => 'mtr', 'Medtr8g088720' => 'mtr', 'MELO3C004712.2' => 'cme', 'MELO3C006533.2' => 'cme', 'MELO3C019438.2' => 'cme', 'MELO3C019440.2' => 'cme', 'MELO3C019441.2' => 'cme', 'MELO3C019895.2' => 'cme', 'Migut.B00811' => 'egut', 'Migut.D02447' => 'egut', 'Migut.F00875' => 'egut', 'Migut.N00186' => 'egut', 'Migut.N01051' => 'egut', 'Migut.N02491' => 'egut', 'Migut.O00784' => 'egut', 'MSTRG.12367' => 'ama', 'MSTRG.18756' => 'ama', 'MSTRG.21042' => 'ama', 'Nitab4.5_0000559g0040' => 'nta', 'Nitab4.5_0000667g0190' => 'nta', 'Nitab4.5_0000755g0160' => 'nta', 'Nitab4.5_0001216g0080' => 'nta', 'Nitab4.5_0004069g0040' => 'nta', 'Nitab4.5_0004129g0010' => 'nta', 'Nitab4.5_0005744g0030' => 'nta', 'Nitab4.5_0006996g0030' => 'nta', 'Nitab4.5_0008971g0040' => 'nta', 'Nitab4.5_0009769g0020' => 'nta', 'Nitab4.5_0009833g0010' => 'nta', 'Nitab4.5_0013140g0020' => 'nta', 'Nn003s41376' => 'nnu', 'Nn1g01857' => 'nnu', 'Nn1g03611' => 'nnu', 'Nn1g06853' => 'nnu', 'Nn3g18360' => 'nnu', 'Nn4g26328' => 'nnu', 'Nn5g27531' => 'nnu', 'Nn6g34899' => 'nnu', 'Nn7g36299' => 'nnu', 'Oeu021485.1' => 'oeu', 'Oeu022433.1' => 'oeu', 'Oeu032111.1' => 'oeu', 'Oeu051608.1' => 'oeu', 'Os01g0860601' => 'osa', 'Os03g0659200' => 'osa', 'Os03g0835900' => 'osa', 'Os04g0412200' => 'osa', 'Os05g0443500' => 'osa', 'Os07g0251500' => 'osa', 'Os08g0104600' => 'osa', 'Peaxi162Scf00003g00047' => 'pax', 'Peaxi162Scf00003g00052' => 'pax', 'Peaxi162Scf00003g00394' => 'pax', 'Peaxi162Scf00091g00621' => 'pax', 'Peaxi162Scf00152g00146' => 'pax', 'Peaxi162Scf00173g00025' => 'pax', 'Peaxi162Scf00195g00102' => 'pax', 'Peaxi162Scf00402g00013' => 'pax', 'Peaxi162Scf00519g00618' => 'pax', 'PGR004G2838' => 'pgr', 'PGR044G2275' => 'pgr', 'PGR102G1377' => 'pgr', 'PGR119G1245' => 'pgr', 'PGR142G4449' => 'pgr', 'PGSC0003DMG400004532' => 'stu', 'PGSC0003DMG400011950' => 'stu', 'PGSC0003DMG400023391' => 'stu', 'PGSC0003DMG400023985' => 'stu', 'PGSC0003DMG400026360' => 'stu', 'PGSC0003DMG400035711' => 'stu', 'PGSC0003DMG400037286' => 'stu', 'PGSC0003DMG402005881' => 'stu', 'Phvul.002G045400' => 'pvu', 'Phvul.006G216600' => 'pvu', 'Phvul.006G216700' => 'pvu', 'Phvul.006G216800' => 'pvu', 'Phvul.007G022500' => 'pvu', 'Phvul.011G094400' => 'pvu', 'Potri.001G470700' => 'ptr', 'Potri.003G015200' => 'ptr', 'Potri.004G202500' => 'ptr', 'Potri.004G218400' => 'ptr', 'Potri.008G020100' => 'ptr', 'Potri.008G153200' => 'ptr', 'Potri.009G163800' => 'ptr', 'Potri.010G087300' => 'ptr', 'Potri.010G239100' => 'ptr', 'Pp3c10_16100' => 'ppa', 'Pp3c10_16880' => 'ppa', 'Pp3c16_6230' => 'ppa', 'Pp3c17_18910' => 'ppa', 'Pp3c3_22119' => 'ppa', 'Pp3c3_22140' => 'ppa', 'Pp3c4_8159' => 'ppa', 'Pp3c4_8171' => 'ppa', 'Pp3c4_8330' => 'ppa', 'PRCOL_00004098' => 'pco', 'Prupe.1G013900' => 'ppe', 'Prupe.1G226300' => 'ppe', 'Prupe.1G573600' => 'ppe', 'Prupe.6G130100' => 'ppe', 'Psat3g090040' => 'psa', 'Psat4g210440' => 'psa', 'Psat6g231040' => 'psa', 'Psat6g231080' => 'psa', 'Psat7g063000' => 'psa', 'Psat7g188000' => 'psa', 'Psat7g188040' => 'psa', 'PSO017G0206' => 'pso', 'PSO170G0501' => 'pso', 'PSO170G6422' => 'pso', 'PSO210G7739' => 'pso', 'PSO339G1808' => 'pso', 'PSO339G6135' => 'pso', 'PSO384G0010' => 'pso', 'PSO384G0964' => 'pso', 'PSO761G0050' => 'pso', 'PSO782G4085' => 'pso', 'QL01p012264' => 'qlo', 'QL02p099491' => 'qlo', 'QL03p033868' => 'qlo', 'QL04p046678' => 'qlo', 'QL06p002448' => 'qlo', 'RcHm_v2.0_Chr4g0416181' => 'rch', 'RcHm_v2.0_Chr5g0044701' => 'rch', 'RcHm_v2.0_Chr6g0265781' => 'rch', 'RcHm_v2.0_Chr7g0221031' => 'rch', 'Rhsim04G0202000' => 'rsi', 'Rhsim11G0127300' => 'rsi', 'Rhsim13G0111800' => 'rsi', 'Sabra01G0165600' => 'sbr', 'Sabra03G0008300' => 'sbr', 'Sabra04G0136900' => 'sbr', 'Sabra08G0013400' => 'sbr', 'Sabra08G0116800' => 'sbr', 'Sabra09G0128000' => 'sbr', 'Sabra10G0055500' => 'sbr', 'Sabra10G0073300' => 'sbr', 'SalBow3G0385' => 'sbo', 'SalBow3G1119' => 'sbo', 'SalBow3G2005' => 'sbo', 'SalBow6G2563' => 'sbo', 'SalBow6G6386' => 'sbo', 'Sc06g0008800' => 'sci', 'Sc07g0004950' => 'sci', 'Sc09g0005340' => 'sci', 'Sc13g0004410' => 'sci', 'Sc21g0007090' => 'sci', 'Sed0009285' => 'sed', 'Sed0017583' => 'sed', 'Sed0019699' => 'sed', 'Sed0023107' => 'sed', 'SEGI_10916' => 'sgi', 'SEGI_16217' => 'sgi', 'SEGI_19466' => 'sgi', 'SEGI_41115' => 'sgi', 'SGA_v2.0_scaffold111G31534' => 'sas', 'SGA_v2.0_scaffold22G09864' => 'sas', 'SGA_v2.0_scaffold338G49219' => 'sas', 'SGA_v2.0_scaffold92G28298' => 'sas', 'SMO119G0064' => 'smo', 'SMO223G0038' => 'smo', 'SMO347G0584' => 'smo', 'SMO351G0010' => 'smo', 'SMO356G0404' => 'smo', 'Solyc01g103920.3' => 'sly', 'Solyc04g009710.2' => 'sly', 'Solyc05g055280.2' => 'sly', 'Solyc10g044520.3' => 'sly', 'Solyc10g075160.1' => 'sly', 'Solyc11g006910.3' => 'sly', 'Solyc11g068430.3' => 'sly', 'Sopen01g046310' => 'spe', 'Sopen03g001200' => 'spe', 'Sopen04g004830' => 'spe', 'Sopen05g033720' => 'spe', 'Sopen06g030740' => 'spe', 'Sopen10g013090' => 'spe', 'Sopen10g027630' => 'spe', 'Sopen10g027640' => 'spe', 'Sopen11g002820' => 'spe', 'Sopen11g027140' => 'spe', 'Sp1g09680' => 'spa', 'Sp2g03630' => 'spa', 'Sp4g10320' => 'spa', 'Sp6g33400' => 'spa', 'Sp7g13030' => 'spa', 'TAR365G0317' => 'tar', 'TAR376G0979' => 'tar', 'TAR623G1665' => 'tar', 'TAR633G2373' => 'tar', 'TAR636G1400' => 'tar', 'THA.LOC104800529' => 'tha', 'THA.LOC104808547' => 'tha', 'THA.LOC104809615' => 'tha', 'THA.LOC104815724' => 'tha', 'THA.LOC104818480' => 'tha', 'THA.LOC104819179' => 'tha', 'THA.LOC104822270' => 'tha', 'THA.LOC104826425' => 'tha', 'Thecc.02G089700' => 'tca', 'Thecc.04G232300' => 'tca', 'Thecc.09G283400' => 'tca', 'Thhalv10009020m.g' => 'esa', 'Thhalv10015506m.g' => 'esa', 'Thhalv10017364m.g' => 'esa', 'Thhalv10023742m.g' => 'esa', 'Thhalv10026483m.g' => 'esa', 'TPR.G17232' => 'tpr', 'TPR.G2133' => 'tpr', 'TPR.G2498' => 'tpr', 'TPR.G31942' => 'tpr', 'TPR.G37877' => 'tpr', 'TPR.G4571' => 'tpr', 'TWI14G1113' => 'twi', 'TWI15G0426' => 'twi', 'TWI31G1005' => 'twi', 'TWI38G0513' => 'twi', 'TWI38G1484' => 'twi', 'TWI73G1098' => 'twi', 'unitig_26.g10519' => 'ugi', 'unitig_736.g22395' => 'ugi', 'unitig_747.g21234' => 'ugi', 'unitig_747.g21942' => 'ugi', 'vmacro14351' => 'vma', 'VMungo0540G0082' => 'vmu', 'VMungo0540G0405' => 'vmu', 'VMungo0540G1486' => 'vmu', 'VMungo0540G1692' => 'vmu', 'VMungo0720G2473' => 'vmu', 'VMungo1127G1562' => 'vmu', 'VMungo1215G1918' => 'vmu', 'Zm00001eb052650' => 'zma', 'Zm00001eb063710' => 'zma', 'Zm00001eb083950' => 'zma', 'Zm00001eb174420' => 'zma', 'Zm00001eb260140' => 'zma', 'Zm00001eb260150' => 'zma', 'Zm00001eb260160' => 'zma', 'Zm00001eb348290' => 'zma', 'Zm00001eb366870' => 'zma', 'Zm00001eb421930' => 'zma' ) $gf_id = 'HOM05D001025' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001025' ) $data_identifier = 'HOM05D001025' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 19, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 2, 'amhyb' => (int) 4, 'aly' => (int) 4, 'aox' => (int) 4, 'arhy' => (int) 3, 'ath' => (int) 5, 'atr' => (int) 4, 'acertr' => (int) 3, 'cqu' => (int) 7, 'bca' => (int) 17, 'bol' => (int) 10, 'bra' => (int) 9, 'can' => (int) 10, 'cansat' => (int) 6, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 5, 'cbr' => (int) 5, 'ccan' => (int) 5, 'cde' => (int) 4, 'cfa' => (int) 3, 'ccl' => (int) 6, 'cil' => (int) 4, 'cla' => (int) 3, 'col' => (int) 3, 'cpa' => (int) 3, 'cre' => (int) 7, 'csa' => (int) 5, 'camsi' => (int) 9, 'dca' => (int) 4, 'din' => (int) 5, 'dzi' => (int) 7, 'eca' => (int) 6, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 12, 'fve' => (int) 4, 'gma' => (int) 12, 'ghi' => (int) 17, 'gra' => (int) 9, 'vvi' => (int) 2, 'han' => (int) 8, 'cav' => (int) 5, 'hma' => (int) 9, 'vpl' => (int) 4, 'sun' => (int) 2, 'lal' => (int) 9, 'lja' => (int) 5, 'lonja' => (int) 6, 'lsa' => (int) 3, 'mes' => (int) 8, 'mpo' => (int) 3, 'mbi' => (int) 4, 'mco' => (int) 3, 'mdo' => (int) 5, 'mtr' => (int) 7, 'cme' => (int) 6, 'egut' => (int) 7, 'ama' => (int) 3, 'nta' => (int) 12, 'nnu' => (int) 9, 'oeu' => (int) 4, 'osa' => (int) 7, 'pax' => (int) 9, 'pgr' => (int) 5, 'stu' => (int) 8, 'pvu' => (int) 6, 'ptr' => (int) 9, 'ppa' => (int) 9, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 7, 'pso' => (int) 10, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 3, 'sbr' => (int) 8, 'sbo' => (int) 5, 'sci' => (int) 5, 'sed' => (int) 4, 'sgi' => (int) 4, 'sas' => (int) 4, 'smo' => (int) 5, 'sly' => (int) 7, 'spe' => (int) 10, 'spa' => (int) 5, 'tar' => (int) 5, 'tha' => (int) 8, 'tca' => (int) 3, 'esa' => (int) 5, 'tpr' => (int) 6, 'twi' => (int) 6, 'ugi' => (int) 4, 'vma' => (int) 1, 'vmu' => (int) 7, 'zma' => (int) 10 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb421930' $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' => 'HOM05D001025', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '592', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p22650' => 'bna', 'A01p29720' => 'bna', 'A03p26560' => 'bna', 'A03p68820' => 'bna', 'A04p20980' => 'bna', 'A06p07730' => 'bna', 'A07p18260' => 'bna', 'A08p33710' => 'bna', 'A09p16970' => 'bna', 'A10p27490' => 'bna', 'Aa31LG1G17300' => 'aar', 'Aa31LG1G3910' => 'aar', 'Aa31LG2G9630' => 'aar', 'Aa31LG5G8360' => 'aar', 'Aa31LG9G2410' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4699' => 'aag', 'Actinidia23512' => 'ach', 'Actinidia37080' => 'ach', 'Ah.01g020380' => 'amhyb', 'Ah.08g215710' => 'amhyb', 'Ah.09g225110' => 'amhyb', 'Ah.10g036680' => 'amhyb', 'AL1G21940' => 'aly', 'AL2G15540' => 'aly', 'AL4G21520' => 'aly', 'AL7G40960' => 'aly', 'Aqoxy2G01191' => 'aox', 'Aqoxy2G03393' => 'aox', 'Aqoxy4G02775' => 'aox', 'Aqoxy6G00058' => 'aox', 'arahy.Tifrunner.gnm1.ann1.9X74H2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CW3FX9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R485W7' => 'arhy', 'AT1G10960' => 'ath', 'AT1G60950' => 'ath', 'AT2G27510' => 'ath', 'AT4G14890' => 'ath', 'AT5G10000' => 'ath', 'ATR0665G624' => 'atr', 'ATR0697G138' => 'atr', 'ATR0776G046' => 'atr', 'ATR1134G135' => 'atr', 'Atru.chr12.1025' => 'acertr', 'Atru.chr3.3241' => 'acertr', 'Atru.chr4.2460' => 'acertr', 'AUR62007427' => 'cqu', 'AUR62010960' => 'cqu', 'AUR62012201' => 'cqu', 'AUR62021470' => 'cqu', 'AUR62022834' => 'cqu', 'AUR62033635' => 'cqu', 'AUR62036186' => 'cqu', 'BcaB01g03077' => 'bca', 'BcaB02g10093' => 'bca', 'BcaB04g20295' => 'bca', 'BcaB06g28147' => 'bca', 'BcaB07g31253' => 'bca', 'BcaC01g04946' => 'bca', 'BcaC02g10614' => 'bca', 'BcaC02g10885' => 'bca', 'BcaC04g19356' => 'bca', 'BcaC04g22297' => 'bca', 'BcaC05g24977' => 'bca', 'BcaC06g31823' => 'bca', 'BcaC07g38633' => 'bca', 'BcaC09g49353' => 'bca', 'BcaC09g50168' => 'bca', 'BcaNung00322' => 'bca', 'BcaNung04769' => 'bca', 'BolC1t02753H' => 'bol', 'BolC1t03721H' => 'bol', 'BolC3t15525H' => 'bol', 'BolC4t23903H' => 'bol', 'BolC4t24231H' => 'bol', 'BolC4t27209H' => 'bol', 'BolC5t29671H' => 'bol', 'BolC8t49044H' => 'bol', 'BolC9t54999H' => 'bol', 'BolC9t59517H' => 'bol', 'BraA01t02178Z' => 'bra', 'BraA01t03099Z' => 'bra', 'BraA03t11867Z' => 'bra', 'BraA04t17667Z' => 'bra', 'BraA07t29542Z' => 'bra', 'BraA08t35287Z' => 'bra', 'BraA09t37334Z' => 'bra', 'BraA10t44801Z' => 'bra', 'BraSC39t46181Z' => 'bra', 'C01p28240' => 'bna', 'C01p37530' => 'bna', 'C03p31820' => 'bna', 'C04p24080' => 'bna', 'C04p25790' => 'bna', 'C04p56770' => 'bna', 'C05p09310' => 'bna', 'C09p21010' => 'bna', 'C09p67560' => 'bna', 'CAN.G1324.7' => 'can', 'CAN.G1358.10' => 'can', 'CAN.G1550.2' => 'can', 'CAN.G186.56' => 'can', 'CAN.G1965.1' => 'can', 'CAN.G645.15' => 'can', 'CAN.G798.26' => 'can', 'CAN.G798.27' => 'can', 'CAN.G798.29' => 'can', 'CAN.G919.31' => 'can', 'CANSAT11G0133' => 'cansat', 'CANSAT11G1171' => 'cansat', 'CANSAT11G2056' => 'cansat', 'CANSAT56G1202' => 'cansat', 'CANSAT56G1514' => 'cansat', 'CANSAT78G0455' => 'cansat', 'CARHR011190' => 'chi', 'CARHR051980' => 'chi', 'CARHR120170' => 'chi', 'CARHR203310' => 'chi', 'CARHR221490' => 'chi', 'Carub.0001s1054' => 'cru', 'Carub.0002s0431' => 'cru', 'Carub.0004s0818' => 'cru', 'Carub.0006s0846' => 'cru', 'Carub.0007s2722' => 'cru', 'Ca_00058_v3' => 'car', 'Ca_17831_v3' => 'car', 'Ca_19408_v3' => 'car', 'Ca_24397_v3' => 'car', 'Ca_25664_v3' => 'car', 'CBR_g21818' => 'cbr', 'CBR_g31195' => 'cbr', 'CBR_g32282' => 'cbr', 'CBR_g39599' => 'cbr', 'CBR_g49410' => 'cbr', 'Cc01_g09120' => 'ccan', 'Cc01_g09130' => 'ccan', 'Cc02_g09630' => 'ccan', 'Cc02_g22810' => 'ccan', 'Cc03_g03810' => 'ccan', 'CDE02G3718' => 'cde', 'CDE04G3183' => 'cde', 'CDE07G1046' => 'cde', 'CDE08G0480' => 'cde', 'Cfa005493' => 'cfa', 'Cfa010312' => 'cfa', 'Cfa015648' => 'cfa', 'Ciclev10002793m.g' => 'ccl', 'Ciclev10003356m.g' => 'ccl', 'Ciclev10006141m.g' => 'ccl', 'Ciclev10016676m.g' => 'ccl', 'Ciclev10017081m.g' => 'ccl', 'Ciclev10029499m.g' => 'ccl', 'CiPaw.01G166300' => 'cil', 'CiPaw.06G145600' => 'cil', 'CiPaw.13G040100' => 'cil', 'CiPaw.13G135800' => 'cil', 'ClCG01G012230' => 'cla', 'ClCG05G009510' => 'cla', 'ClCG08G008270' => 'cla', 'COL.COLO4_11763' => 'col', 'COL.COLO4_19876' => 'col', 'COL.COLO4_21481' => 'col', 'Cpa.g.sc118.34' => 'cpa', 'Cpa.g.sc32.13' => 'cpa', 'Cpa.g.sc58.103' => 'cpa', 'Cre03.g183850' => 'cre', 'Cre06.g306350' => 'cre', 'Cre07.g334800' => 'cre', 'Cre12.g487900' => 'cre', 'Cre14.g626700' => 'cre', 'Cre16.g658400' => 'cre', 'Cre17.g700950' => 'cre', 'CsaV3_1G014830' => 'csa', 'CsaV3_3G013320' => 'csa', 'CsaV3_3G019210' => 'csa', 'CsaV3_3G019220' => 'csa', 'CsaV3_6G004230' => 'csa', 'CSS0003773' => 'camsi', 'CSS0004563' => 'camsi', 'CSS0013949' => 'camsi', 'CSS0025971' => 'camsi', 'CSS0028570' => 'camsi', 'CSS0033127' => 'camsi', 'CSS0036051' => 'camsi', 'CSS0040087' => 'camsi', 'CSS0043179' => 'camsi', 'DCAR_006161' => 'dca', 'DCAR_010351' => 'dca', 'DCAR_012197' => 'dca', 'DCAR_024162' => 'dca', 'Dinv01030' => 'din', 'Dinv10924' => 'din', 'Dinv11835' => 'din', 'Dinv22841' => 'din', 'Dinv42553' => 'din', 'Duzib052G0560' => 'dzi', 'Duzib132G0389' => 'dzi', 'Duzib150G1181' => 'dzi', 'Duzib168G0623' => 'dzi', 'Duzib170G1036' => 'dzi', 'Duzib212G0200' => 'dzi', 'Duzib248G0194' => 'dzi', 'ECA232G2193' => 'eca', 'ECA233G0302' => 'eca', 'ECA234G2813' => 'eca', 'ECA234G4866' => 'eca', 'ECA240G3932' => 'eca', 'ECA248G0385' => 'eca', 'EL10Ac2g04781' => 'bvu', 'EL10Ac3g06445' => 'bvu', 'EL10Ac7g15825' => 'bvu', 'EL10Ac8g18550' => 'bvu', 'Eucgr.B03849' => 'egr', 'Eucgr.I02744' => 'egr', 'Eucgr.J00264' => 'egr', 'Eucgr.J00493' => 'egr', 'FAN04G2181' => 'fan', 'FAN07G2666' => 'fan', 'FAN11G0024' => 'fan', 'FAN12G1105' => 'fan', 'FAN13G0302' => 'fan', 'FAN15G2781' => 'fan', 'FAN16G1274' => 'fan', 'FAN17G2988' => 'fan', 'FAN18G2621' => 'fan', 'FAN21G0013' => 'fan', 'FAN22G1211' => 'fan', 'FAN25G3626' => 'fan', 'FvH4_2g09491' => 'fve', 'FvH4_3g24910' => 'fve', 'FvH4_4g15630' => 'fve', 'FvH4_5g28820' => 'fve', 'Glyma.01G238000' => 'gma', 'Glyma.05G168400' => 'gma', 'Glyma.08G126800' => 'gma', 'Glyma.08G188500' => 'gma', 'Glyma.10G278900' => 'gma', 'Glyma.11G005700' => 'gma', 'Glyma.11G183300' => 'gma', 'Glyma.12G089200' => 'gma', 'Glyma.12G169400' => 'gma', 'Glyma.12G169500' => 'gma', 'Glyma.12G169600' => 'gma', 'Glyma.20G110800' => 'gma', 'Gohir.A03G192900' => 'ghi', 'Gohir.A03G193000' => 'ghi', 'Gohir.A05G080700' => 'ghi', 'Gohir.A09G216000' => 'ghi', 'Gohir.A12G027700' => 'ghi', 'Gohir.A13G036200' => 'ghi', 'Gohir.A13G222600' => 'ghi', 'Gohir.D02G213900' => 'ghi', 'Gohir.D02G214000' => 'ghi', 'Gohir.D05G083700' => 'ghi', 'Gohir.D05G083800' => 'ghi', 'Gohir.D05G083850' => 'ghi', 'Gohir.D08G015400' => 'ghi', 'Gohir.D09G218400' => 'ghi', 'Gohir.D12G027100' => 'ghi', 'Gohir.D13G034500' => 'ghi', 'Gohir.D13G227400' => 'ghi', 'Gorai.005G241800' => 'gra', 'Gorai.005G241900' => 'gra', 'Gorai.006G239400' => 'gra', 'Gorai.008G027600' => 'gra', 'Gorai.009G085400' => 'gra', 'Gorai.009G085500' => 'gra', 'Gorai.013G039000' => 'gra', 'Gorai.013G194800' => 'gra', 'Gorai.013G257900' => 'gra', 'GSVIVG01000982001' => 'vvi', 'GSVIVG01017981001' => 'vvi', 'HanXRQChr01g0024061' => 'han', 'HanXRQChr09g0247831' => 'han', 'HanXRQChr10g0294611' => 'han', 'HanXRQChr10g0294621' => 'han', 'HanXRQChr11g0346821' => 'han', 'HanXRQChr13g0397461' => 'han', 'HanXRQChr16g0513651' => 'han', 'HanXRQChr16g0513701' => 'han', 'Haze_00897' => 'cav', 'Haze_01745' => 'cav', 'Haze_02486' => 'cav', 'Haze_02487' => 'cav', 'Haze_23374' => 'cav', 'Hma1.2p1_0578F.1_g182520' => 'hma', 'Hma1.2p1_0602F.1_g187350' => 'hma', 'Hma1.2p1_0602F.1_g187360' => 'hma', 'Hma1.2p1_0874F.1_g231320' => 'hma', 'Hma1.2p1_1197F.1_g266210' => 'hma', 'Hma1.2p1_1197F.1_g266220' => 'hma', 'Hma1.2p1_2167F.1_g315895' => 'hma', 'Hma1.2p1_2190F.1_g316640' => 'hma', 'Hma1.2p1_3645F.1_g337153' => 'hma', 'HPP92_004907' => 'vpl', 'HPP92_012134' => 'vpl', 'HPP92_025136' => 'vpl', 'HPP92_026087' => 'vpl', 'Hund06782' => 'sun', 'Hund06784' => 'sun', 'Lalb_Chr01g0004861' => 'lal', 'Lalb_Chr02g0140591' => 'lal', 'Lalb_Chr02g0140611' => 'lal', 'Lalb_Chr03g0028101' => 'lal', 'Lalb_Chr07g0185791' => 'lal', 'Lalb_Chr12g0204491' => 'lal', 'Lalb_Chr13g0295671' => 'lal', 'Lalb_Chr19g0136461' => 'lal', 'Lalb_Chr21g0309191' => 'lal', 'Lj1g0028158' => 'lja', 'Lj1P236T38' => 'lonja', 'Lj2C32G2' => 'lonja', 'Lj2P944T8' => 'lonja', 'Lj2P963T15' => 'lonja', 'Lj3g0011788' => 'lja', 'Lj4g0025027' => 'lja', 'Lj5P255T36' => 'lonja', 'Lj6g0018866' => 'lja', 'Lj6P608T31' => 'lonja', 'LjContig00408g0008879' => 'lja', 'Lsat_1_v5_gn_5_105820' => 'lsa', 'Lsat_1_v5_gn_6_38800' => 'lsa', 'Lsat_1_v5_gn_7_67141' => 'lsa', 'Manes.04G003400' => 'mes', 'Manes.07G020000' => 'mes', 'Manes.07G020100' => 'mes', 'Manes.07G020150' => 'mes', 'Manes.10G061500' => 'mes', 'Manes.10G123200' => 'mes', 'Manes.11G161900' => 'mes', 'Manes.15G029300' => 'mes', 'Mapoly0071s0018' => 'mpo', 'Mapoly0082s0023' => 'mpo', 'Mapoly3477s0001' => 'mpo', 'MBI05_g31233_MAGBIO' => 'mbi', 'MBI09_g05946_MAGBIO' => 'mbi', 'MBI09_g05947_MAGBIO' => 'mbi', 'MBI17_g08346_MAGBIO' => 'mbi', 'MCO04G038' => 'mco', 'MCO09G370' => 'mco', 'MCO13G605' => 'mco', 'MD00G1075500' => 'mdo', 'MD03G1144300' => 'mdo', 'MD08G1236800' => 'mdo', 'MD13G1193300' => 'mdo', 'MD15G1428700' => 'mdo', 'Medtr1g112030' => 'mtr', 'Medtr1g112050' => 'mtr', 'Medtr2g006290' => 'mtr', 'Medtr2g086510' => 'mtr', 'Medtr4g053120' => 'mtr', 'Medtr5g006320' => 'mtr', 'Medtr8g088720' => 'mtr', 'MELO3C004712.2' => 'cme', 'MELO3C006533.2' => 'cme', 'MELO3C019438.2' => 'cme', 'MELO3C019440.2' => 'cme', 'MELO3C019441.2' => 'cme', 'MELO3C019895.2' => 'cme', 'Migut.B00811' => 'egut', 'Migut.D02447' => 'egut', 'Migut.F00875' => 'egut', 'Migut.N00186' => 'egut', 'Migut.N01051' => 'egut', 'Migut.N02491' => 'egut', 'Migut.O00784' => 'egut', 'MSTRG.12367' => 'ama', 'MSTRG.18756' => 'ama', 'MSTRG.21042' => 'ama', 'Nitab4.5_0000559g0040' => 'nta', 'Nitab4.5_0000667g0190' => 'nta', 'Nitab4.5_0000755g0160' => 'nta', 'Nitab4.5_0001216g0080' => 'nta', 'Nitab4.5_0004069g0040' => 'nta', 'Nitab4.5_0004129g0010' => 'nta', 'Nitab4.5_0005744g0030' => 'nta', 'Nitab4.5_0006996g0030' => 'nta', 'Nitab4.5_0008971g0040' => 'nta', 'Nitab4.5_0009769g0020' => 'nta', 'Nitab4.5_0009833g0010' => 'nta', 'Nitab4.5_0013140g0020' => 'nta', 'Nn003s41376' => 'nnu', 'Nn1g01857' => 'nnu', 'Nn1g03611' => 'nnu', 'Nn1g06853' => 'nnu', 'Nn3g18360' => 'nnu', 'Nn4g26328' => 'nnu', 'Nn5g27531' => 'nnu', 'Nn6g34899' => 'nnu', 'Nn7g36299' => 'nnu', 'Oeu021485.1' => 'oeu', 'Oeu022433.1' => 'oeu', 'Oeu032111.1' => 'oeu', 'Oeu051608.1' => 'oeu', 'Os01g0860601' => 'osa', 'Os03g0659200' => 'osa', 'Os03g0835900' => 'osa', 'Os04g0412200' => 'osa', 'Os05g0443500' => 'osa', 'Os07g0251500' => 'osa', 'Os08g0104600' => 'osa', 'Peaxi162Scf00003g00047' => 'pax', 'Peaxi162Scf00003g00052' => 'pax', 'Peaxi162Scf00003g00394' => 'pax', 'Peaxi162Scf00091g00621' => 'pax', 'Peaxi162Scf00152g00146' => 'pax', 'Peaxi162Scf00173g00025' => 'pax', 'Peaxi162Scf00195g00102' => 'pax', 'Peaxi162Scf00402g00013' => 'pax', 'Peaxi162Scf00519g00618' => 'pax', 'PGR004G2838' => 'pgr', 'PGR044G2275' => 'pgr', 'PGR102G1377' => 'pgr', 'PGR119G1245' => 'pgr', 'PGR142G4449' => 'pgr', 'PGSC0003DMG400004532' => 'stu', 'PGSC0003DMG400011950' => 'stu', 'PGSC0003DMG400023391' => 'stu', 'PGSC0003DMG400023985' => 'stu', 'PGSC0003DMG400026360' => 'stu', 'PGSC0003DMG400035711' => 'stu', 'PGSC0003DMG400037286' => 'stu', 'PGSC0003DMG402005881' => 'stu', 'Phvul.002G045400' => 'pvu', 'Phvul.006G216600' => 'pvu', 'Phvul.006G216700' => 'pvu', 'Phvul.006G216800' => 'pvu', 'Phvul.007G022500' => 'pvu', 'Phvul.011G094400' => 'pvu', 'Potri.001G470700' => 'ptr', 'Potri.003G015200' => 'ptr', 'Potri.004G202500' => 'ptr', 'Potri.004G218400' => 'ptr', 'Potri.008G020100' => 'ptr', 'Potri.008G153200' => 'ptr', 'Potri.009G163800' => 'ptr', 'Potri.010G087300' => 'ptr', 'Potri.010G239100' => 'ptr', 'Pp3c10_16100' => 'ppa', 'Pp3c10_16880' => 'ppa', 'Pp3c16_6230' => 'ppa', 'Pp3c17_18910' => 'ppa', 'Pp3c3_22119' => 'ppa', 'Pp3c3_22140' => 'ppa', 'Pp3c4_8159' => 'ppa', 'Pp3c4_8171' => 'ppa', 'Pp3c4_8330' => 'ppa', 'PRCOL_00004098' => 'pco', 'Prupe.1G013900' => 'ppe', 'Prupe.1G226300' => 'ppe', 'Prupe.1G573600' => 'ppe', 'Prupe.6G130100' => 'ppe', 'Psat3g090040' => 'psa', 'Psat4g210440' => 'psa', 'Psat6g231040' => 'psa', 'Psat6g231080' => 'psa', 'Psat7g063000' => 'psa', 'Psat7g188000' => 'psa', 'Psat7g188040' => 'psa', 'PSO017G0206' => 'pso', 'PSO170G0501' => 'pso', 'PSO170G6422' => 'pso', 'PSO210G7739' => 'pso', 'PSO339G1808' => 'pso', 'PSO339G6135' => 'pso', 'PSO384G0010' => 'pso', 'PSO384G0964' => 'pso', 'PSO761G0050' => 'pso', 'PSO782G4085' => 'pso', 'QL01p012264' => 'qlo', 'QL02p099491' => 'qlo', 'QL03p033868' => 'qlo', 'QL04p046678' => 'qlo', 'QL06p002448' => 'qlo', 'RcHm_v2.0_Chr4g0416181' => 'rch', 'RcHm_v2.0_Chr5g0044701' => 'rch', 'RcHm_v2.0_Chr6g0265781' => 'rch', 'RcHm_v2.0_Chr7g0221031' => 'rch', 'Rhsim04G0202000' => 'rsi', 'Rhsim11G0127300' => 'rsi', 'Rhsim13G0111800' => 'rsi', 'Sabra01G0165600' => 'sbr', 'Sabra03G0008300' => 'sbr', 'Sabra04G0136900' => 'sbr', 'Sabra08G0013400' => 'sbr', 'Sabra08G0116800' => 'sbr', 'Sabra09G0128000' => 'sbr', 'Sabra10G0055500' => 'sbr', 'Sabra10G0073300' => 'sbr', 'SalBow3G0385' => 'sbo', 'SalBow3G1119' => 'sbo', 'SalBow3G2005' => 'sbo', 'SalBow6G2563' => 'sbo', 'SalBow6G6386' => 'sbo', 'Sc06g0008800' => 'sci', 'Sc07g0004950' => 'sci', 'Sc09g0005340' => 'sci', 'Sc13g0004410' => 'sci', 'Sc21g0007090' => 'sci', 'Sed0009285' => 'sed', 'Sed0017583' => 'sed', 'Sed0019699' => 'sed', 'Sed0023107' => 'sed', 'SEGI_10916' => 'sgi', 'SEGI_16217' => 'sgi', 'SEGI_19466' => 'sgi', 'SEGI_41115' => 'sgi', 'SGA_v2.0_scaffold111G31534' => 'sas', 'SGA_v2.0_scaffold22G09864' => 'sas', 'SGA_v2.0_scaffold338G49219' => 'sas', 'SGA_v2.0_scaffold92G28298' => 'sas', 'SMO119G0064' => 'smo', 'SMO223G0038' => 'smo', 'SMO347G0584' => 'smo', 'SMO351G0010' => 'smo', 'SMO356G0404' => 'smo', 'Solyc01g103920.3' => 'sly', 'Solyc04g009710.2' => 'sly', 'Solyc05g055280.2' => 'sly', 'Solyc10g044520.3' => 'sly', 'Solyc10g075160.1' => 'sly', 'Solyc11g006910.3' => 'sly', 'Solyc11g068430.3' => 'sly', 'Sopen01g046310' => 'spe', 'Sopen03g001200' => 'spe', 'Sopen04g004830' => 'spe', 'Sopen05g033720' => 'spe', 'Sopen06g030740' => 'spe', 'Sopen10g013090' => 'spe', 'Sopen10g027630' => 'spe', 'Sopen10g027640' => 'spe', 'Sopen11g002820' => 'spe', 'Sopen11g027140' => 'spe', 'Sp1g09680' => 'spa', 'Sp2g03630' => 'spa', 'Sp4g10320' => 'spa', 'Sp6g33400' => 'spa', 'Sp7g13030' => 'spa', 'TAR365G0317' => 'tar', 'TAR376G0979' => 'tar', 'TAR623G1665' => 'tar', 'TAR633G2373' => 'tar', 'TAR636G1400' => 'tar', 'THA.LOC104800529' => 'tha', 'THA.LOC104808547' => 'tha', 'THA.LOC104809615' => 'tha', 'THA.LOC104815724' => 'tha', 'THA.LOC104818480' => 'tha', 'THA.LOC104819179' => 'tha', 'THA.LOC104822270' => 'tha', 'THA.LOC104826425' => 'tha', 'Thecc.02G089700' => 'tca', 'Thecc.04G232300' => 'tca', 'Thecc.09G283400' => 'tca', 'Thhalv10009020m.g' => 'esa', 'Thhalv10015506m.g' => 'esa', 'Thhalv10017364m.g' => 'esa', 'Thhalv10023742m.g' => 'esa', 'Thhalv10026483m.g' => 'esa', 'TPR.G17232' => 'tpr', 'TPR.G2133' => 'tpr', 'TPR.G2498' => 'tpr', 'TPR.G31942' => 'tpr', 'TPR.G37877' => 'tpr', 'TPR.G4571' => 'tpr', 'TWI14G1113' => 'twi', 'TWI15G0426' => 'twi', 'TWI31G1005' => 'twi', 'TWI38G0513' => 'twi', 'TWI38G1484' => 'twi', 'TWI73G1098' => 'twi', 'unitig_26.g10519' => 'ugi', 'unitig_736.g22395' => 'ugi', 'unitig_747.g21234' => 'ugi', 'unitig_747.g21942' => 'ugi', 'vmacro14351' => 'vma', 'VMungo0540G0082' => 'vmu', 'VMungo0540G0405' => 'vmu', 'VMungo0540G1486' => 'vmu', 'VMungo0540G1692' => 'vmu', 'VMungo0720G2473' => 'vmu', 'VMungo1127G1562' => 'vmu', 'VMungo1215G1918' => 'vmu', 'Zm00001eb052650' => 'zma', 'Zm00001eb063710' => 'zma', 'Zm00001eb083950' => 'zma', 'Zm00001eb174420' => 'zma', 'Zm00001eb260140' => 'zma', 'Zm00001eb260150' => 'zma', 'Zm00001eb260160' => 'zma', 'Zm00001eb348290' => 'zma', 'Zm00001eb366870' => 'zma', 'Zm00001eb421930' => 'zma' ), 'gf_id' => 'HOM05D001025', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001025' ), 'data_identifier' => 'HOM05D001025', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001025', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '592', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p22650' => 'bna', 'A01p29720' => 'bna', 'A03p26560' => 'bna', 'A03p68820' => 'bna', 'A04p20980' => 'bna', 'A06p07730' => 'bna', 'A07p18260' => 'bna', 'A08p33710' => 'bna', 'A09p16970' => 'bna', 'A10p27490' => 'bna', 'Aa31LG1G17300' => 'aar', 'Aa31LG1G3910' => 'aar', 'Aa31LG2G9630' => 'aar', 'Aa31LG5G8360' => 'aar', 'Aa31LG9G2410' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4699' => 'aag', 'Actinidia23512' => 'ach', 'Actinidia37080' => 'ach', 'Ah.01g020380' => 'amhyb', 'Ah.08g215710' => 'amhyb', 'Ah.09g225110' => 'amhyb', 'Ah.10g036680' => 'amhyb', 'AL1G21940' => 'aly', 'AL2G15540' => 'aly', 'AL4G21520' => 'aly', 'AL7G40960' => 'aly', 'Aqoxy2G01191' => 'aox', 'Aqoxy2G03393' => 'aox', 'Aqoxy4G02775' => 'aox', 'Aqoxy6G00058' => 'aox', 'arahy.Tifrunner.gnm1.ann1.9X74H2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CW3FX9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R485W7' => 'arhy', 'AT1G10960' => 'ath', 'AT1G60950' => 'ath', 'AT2G27510' => 'ath', 'AT4G14890' => 'ath', 'AT5G10000' => 'ath', 'ATR0665G624' => 'atr', 'ATR0697G138' => 'atr', 'ATR0776G046' => 'atr', 'ATR1134G135' => 'atr', 'Atru.chr12.1025' => 'acertr', 'Atru.chr3.3241' => 'acertr', 'Atru.chr4.2460' => 'acertr', 'AUR62007427' => 'cqu', 'AUR62010960' => 'cqu', 'AUR62012201' => 'cqu', 'AUR62021470' => 'cqu', 'AUR62022834' => 'cqu', 'AUR62033635' => 'cqu', 'AUR62036186' => 'cqu', 'BcaB01g03077' => 'bca', 'BcaB02g10093' => 'bca', 'BcaB04g20295' => 'bca', 'BcaB06g28147' => 'bca', 'BcaB07g31253' => 'bca', 'BcaC01g04946' => 'bca', 'BcaC02g10614' => 'bca', 'BcaC02g10885' => 'bca', 'BcaC04g19356' => 'bca', 'BcaC04g22297' => 'bca', 'BcaC05g24977' => 'bca', 'BcaC06g31823' => 'bca', 'BcaC07g38633' => 'bca', 'BcaC09g49353' => 'bca', 'BcaC09g50168' => 'bca', 'BcaNung00322' => 'bca', 'BcaNung04769' => 'bca', 'BolC1t02753H' => 'bol', 'BolC1t03721H' => 'bol', 'BolC3t15525H' => 'bol', 'BolC4t23903H' => 'bol', 'BolC4t24231H' => 'bol', 'BolC4t27209H' => 'bol', 'BolC5t29671H' => 'bol', 'BolC8t49044H' => 'bol', 'BolC9t54999H' => 'bol', 'BolC9t59517H' => 'bol', 'BraA01t02178Z' => 'bra', 'BraA01t03099Z' => 'bra', 'BraA03t11867Z' => 'bra', 'BraA04t17667Z' => 'bra', 'BraA07t29542Z' => 'bra', 'BraA08t35287Z' => 'bra', 'BraA09t37334Z' => 'bra', 'BraA10t44801Z' => 'bra', 'BraSC39t46181Z' => 'bra', 'C01p28240' => 'bna', 'C01p37530' => 'bna', 'C03p31820' => 'bna', 'C04p24080' => 'bna', 'C04p25790' => 'bna', 'C04p56770' => 'bna', 'C05p09310' => 'bna', 'C09p21010' => 'bna', 'C09p67560' => 'bna', 'CAN.G1324.7' => 'can', 'CAN.G1358.10' => 'can', 'CAN.G1550.2' => 'can', 'CAN.G186.56' => 'can', 'CAN.G1965.1' => 'can', 'CAN.G645.15' => 'can', 'CAN.G798.26' => 'can', 'CAN.G798.27' => 'can', 'CAN.G798.29' => 'can', 'CAN.G919.31' => 'can', 'CANSAT11G0133' => 'cansat', 'CANSAT11G1171' => 'cansat', 'CANSAT11G2056' => 'cansat', 'CANSAT56G1202' => 'cansat', 'CANSAT56G1514' => 'cansat', 'CANSAT78G0455' => 'cansat', 'CARHR011190' => 'chi', 'CARHR051980' => 'chi', 'CARHR120170' => 'chi', 'CARHR203310' => 'chi', 'CARHR221490' => 'chi', 'Carub.0001s1054' => 'cru', 'Carub.0002s0431' => 'cru', 'Carub.0004s0818' => 'cru', 'Carub.0006s0846' => 'cru', 'Carub.0007s2722' => 'cru', 'Ca_00058_v3' => 'car', 'Ca_17831_v3' => 'car', 'Ca_19408_v3' => 'car', 'Ca_24397_v3' => 'car', 'Ca_25664_v3' => 'car', 'CBR_g21818' => 'cbr', 'CBR_g31195' => 'cbr', 'CBR_g32282' => 'cbr', 'CBR_g39599' => 'cbr', 'CBR_g49410' => 'cbr', 'Cc01_g09120' => 'ccan', 'Cc01_g09130' => 'ccan', 'Cc02_g09630' => 'ccan', 'Cc02_g22810' => 'ccan', 'Cc03_g03810' => 'ccan', 'CDE02G3718' => 'cde', 'CDE04G3183' => 'cde', 'CDE07G1046' => 'cde', 'CDE08G0480' => 'cde', 'Cfa005493' => 'cfa', 'Cfa010312' => 'cfa', 'Cfa015648' => 'cfa', 'Ciclev10002793m.g' => 'ccl', 'Ciclev10003356m.g' => 'ccl', 'Ciclev10006141m.g' => 'ccl', 'Ciclev10016676m.g' => 'ccl', 'Ciclev10017081m.g' => 'ccl', 'Ciclev10029499m.g' => 'ccl', 'CiPaw.01G166300' => 'cil', 'CiPaw.06G145600' => 'cil', 'CiPaw.13G040100' => 'cil', 'CiPaw.13G135800' => 'cil', 'ClCG01G012230' => 'cla', 'ClCG05G009510' => 'cla', 'ClCG08G008270' => 'cla', 'COL.COLO4_11763' => 'col', 'COL.COLO4_19876' => 'col', 'COL.COLO4_21481' => 'col', 'Cpa.g.sc118.34' => 'cpa', 'Cpa.g.sc32.13' => 'cpa', 'Cpa.g.sc58.103' => 'cpa', 'Cre03.g183850' => 'cre', 'Cre06.g306350' => 'cre', 'Cre07.g334800' => 'cre', 'Cre12.g487900' => 'cre', 'Cre14.g626700' => 'cre', 'Cre16.g658400' => 'cre', 'Cre17.g700950' => 'cre', 'CsaV3_1G014830' => 'csa', 'CsaV3_3G013320' => 'csa', 'CsaV3_3G019210' => 'csa', 'CsaV3_3G019220' => 'csa', 'CsaV3_6G004230' => 'csa', 'CSS0003773' => 'camsi', 'CSS0004563' => 'camsi', 'CSS0013949' => 'camsi', 'CSS0025971' => 'camsi', 'CSS0028570' => 'camsi', 'CSS0033127' => 'camsi', 'CSS0036051' => 'camsi', 'CSS0040087' => 'camsi', 'CSS0043179' => 'camsi', 'DCAR_006161' => 'dca', 'DCAR_010351' => 'dca', 'DCAR_012197' => 'dca', 'DCAR_024162' => 'dca', 'Dinv01030' => 'din', 'Dinv10924' => 'din', 'Dinv11835' => 'din', 'Dinv22841' => 'din', 'Dinv42553' => 'din', 'Duzib052G0560' => 'dzi', 'Duzib132G0389' => 'dzi', 'Duzib150G1181' => 'dzi', 'Duzib168G0623' => 'dzi', 'Duzib170G1036' => 'dzi', 'Duzib212G0200' => 'dzi', 'Duzib248G0194' => 'dzi', 'ECA232G2193' => 'eca', 'ECA233G0302' => 'eca', 'ECA234G2813' => 'eca', 'ECA234G4866' => 'eca', 'ECA240G3932' => 'eca', 'ECA248G0385' => 'eca', 'EL10Ac2g04781' => 'bvu', 'EL10Ac3g06445' => 'bvu', 'EL10Ac7g15825' => 'bvu', 'EL10Ac8g18550' => 'bvu', 'Eucgr.B03849' => 'egr', 'Eucgr.I02744' => 'egr', 'Eucgr.J00264' => 'egr', 'Eucgr.J00493' => 'egr', 'FAN04G2181' => 'fan', 'FAN07G2666' => 'fan', 'FAN11G0024' => 'fan', 'FAN12G1105' => 'fan', 'FAN13G0302' => 'fan', 'FAN15G2781' => 'fan', 'FAN16G1274' => 'fan', 'FAN17G2988' => 'fan', 'FAN18G2621' => 'fan', 'FAN21G0013' => 'fan', 'FAN22G1211' => 'fan', 'FAN25G3626' => 'fan', 'FvH4_2g09491' => 'fve', 'FvH4_3g24910' => 'fve', 'FvH4_4g15630' => 'fve', 'FvH4_5g28820' => 'fve', 'Glyma.01G238000' => 'gma', 'Glyma.05G168400' => 'gma', 'Glyma.08G126800' => 'gma', 'Glyma.08G188500' => 'gma', 'Glyma.10G278900' => 'gma', 'Glyma.11G005700' => 'gma', 'Glyma.11G183300' => 'gma', 'Glyma.12G089200' => 'gma', 'Glyma.12G169400' => 'gma', 'Glyma.12G169500' => 'gma', 'Glyma.12G169600' => 'gma', 'Glyma.20G110800' => 'gma', 'Gohir.A03G192900' => 'ghi', 'Gohir.A03G193000' => 'ghi', 'Gohir.A05G080700' => 'ghi', 'Gohir.A09G216000' => 'ghi', 'Gohir.A12G027700' => 'ghi', 'Gohir.A13G036200' => 'ghi', 'Gohir.A13G222600' => 'ghi', 'Gohir.D02G213900' => 'ghi', 'Gohir.D02G214000' => 'ghi', 'Gohir.D05G083700' => 'ghi', 'Gohir.D05G083800' => 'ghi', 'Gohir.D05G083850' => 'ghi', 'Gohir.D08G015400' => 'ghi', 'Gohir.D09G218400' => 'ghi', 'Gohir.D12G027100' => 'ghi', 'Gohir.D13G034500' => 'ghi', 'Gohir.D13G227400' => 'ghi', 'Gorai.005G241800' => 'gra', 'Gorai.005G241900' => 'gra', 'Gorai.006G239400' => 'gra', 'Gorai.008G027600' => 'gra', 'Gorai.009G085400' => 'gra', 'Gorai.009G085500' => 'gra', 'Gorai.013G039000' => 'gra', 'Gorai.013G194800' => 'gra', 'Gorai.013G257900' => 'gra', 'GSVIVG01000982001' => 'vvi', 'GSVIVG01017981001' => 'vvi', 'HanXRQChr01g0024061' => 'han', 'HanXRQChr09g0247831' => 'han', 'HanXRQChr10g0294611' => 'han', 'HanXRQChr10g0294621' => 'han', 'HanXRQChr11g0346821' => 'han', 'HanXRQChr13g0397461' => 'han', 'HanXRQChr16g0513651' => 'han', 'HanXRQChr16g0513701' => 'han', 'Haze_00897' => 'cav', 'Haze_01745' => 'cav', 'Haze_02486' => 'cav', 'Haze_02487' => 'cav', 'Haze_23374' => 'cav', 'Hma1.2p1_0578F.1_g182520' => 'hma', 'Hma1.2p1_0602F.1_g187350' => 'hma', 'Hma1.2p1_0602F.1_g187360' => 'hma', 'Hma1.2p1_0874F.1_g231320' => 'hma', 'Hma1.2p1_1197F.1_g266210' => 'hma', 'Hma1.2p1_1197F.1_g266220' => 'hma', 'Hma1.2p1_2167F.1_g315895' => 'hma', 'Hma1.2p1_2190F.1_g316640' => 'hma', 'Hma1.2p1_3645F.1_g337153' => 'hma', 'HPP92_004907' => 'vpl', 'HPP92_012134' => 'vpl', 'HPP92_025136' => 'vpl', 'HPP92_026087' => 'vpl', 'Hund06782' => 'sun', 'Hund06784' => 'sun', 'Lalb_Chr01g0004861' => 'lal', 'Lalb_Chr02g0140591' => 'lal', 'Lalb_Chr02g0140611' => 'lal', 'Lalb_Chr03g0028101' => 'lal', 'Lalb_Chr07g0185791' => 'lal', 'Lalb_Chr12g0204491' => 'lal', 'Lalb_Chr13g0295671' => 'lal', 'Lalb_Chr19g0136461' => 'lal', 'Lalb_Chr21g0309191' => 'lal', 'Lj1g0028158' => 'lja', 'Lj1P236T38' => 'lonja', 'Lj2C32G2' => 'lonja', 'Lj2P944T8' => 'lonja', 'Lj2P963T15' => 'lonja', 'Lj3g0011788' => 'lja', 'Lj4g0025027' => 'lja', 'Lj5P255T36' => 'lonja', 'Lj6g0018866' => 'lja', 'Lj6P608T31' => 'lonja', 'LjContig00408g0008879' => 'lja', 'Lsat_1_v5_gn_5_105820' => 'lsa', 'Lsat_1_v5_gn_6_38800' => 'lsa', 'Lsat_1_v5_gn_7_67141' => 'lsa', 'Manes.04G003400' => 'mes', 'Manes.07G020000' => 'mes', 'Manes.07G020100' => 'mes', 'Manes.07G020150' => 'mes', 'Manes.10G061500' => 'mes', 'Manes.10G123200' => 'mes', 'Manes.11G161900' => 'mes', 'Manes.15G029300' => 'mes', 'Mapoly0071s0018' => 'mpo', 'Mapoly0082s0023' => 'mpo', 'Mapoly3477s0001' => 'mpo', 'MBI05_g31233_MAGBIO' => 'mbi', 'MBI09_g05946_MAGBIO' => 'mbi', 'MBI09_g05947_MAGBIO' => 'mbi', 'MBI17_g08346_MAGBIO' => 'mbi', 'MCO04G038' => 'mco', 'MCO09G370' => 'mco', 'MCO13G605' => 'mco', 'MD00G1075500' => 'mdo', 'MD03G1144300' => 'mdo', 'MD08G1236800' => 'mdo', 'MD13G1193300' => 'mdo', 'MD15G1428700' => 'mdo', 'Medtr1g112030' => 'mtr', 'Medtr1g112050' => 'mtr', 'Medtr2g006290' => 'mtr', 'Medtr2g086510' => 'mtr', 'Medtr4g053120' => 'mtr', 'Medtr5g006320' => 'mtr', 'Medtr8g088720' => 'mtr', 'MELO3C004712.2' => 'cme', 'MELO3C006533.2' => 'cme', 'MELO3C019438.2' => 'cme', 'MELO3C019440.2' => 'cme', 'MELO3C019441.2' => 'cme', 'MELO3C019895.2' => 'cme', 'Migut.B00811' => 'egut', 'Migut.D02447' => 'egut', 'Migut.F00875' => 'egut', 'Migut.N00186' => 'egut', 'Migut.N01051' => 'egut', 'Migut.N02491' => 'egut', 'Migut.O00784' => 'egut', 'MSTRG.12367' => 'ama', 'MSTRG.18756' => 'ama', 'MSTRG.21042' => 'ama', 'Nitab4.5_0000559g0040' => 'nta', 'Nitab4.5_0000667g0190' => 'nta', 'Nitab4.5_0000755g0160' => 'nta', 'Nitab4.5_0001216g0080' => 'nta', 'Nitab4.5_0004069g0040' => 'nta', 'Nitab4.5_0004129g0010' => 'nta', 'Nitab4.5_0005744g0030' => 'nta', 'Nitab4.5_0006996g0030' => 'nta', 'Nitab4.5_0008971g0040' => 'nta', 'Nitab4.5_0009769g0020' => 'nta', 'Nitab4.5_0009833g0010' => 'nta', 'Nitab4.5_0013140g0020' => 'nta', 'Nn003s41376' => 'nnu', 'Nn1g01857' => 'nnu', 'Nn1g03611' => 'nnu', 'Nn1g06853' => 'nnu', 'Nn3g18360' => 'nnu', 'Nn4g26328' => 'nnu', 'Nn5g27531' => 'nnu', 'Nn6g34899' => 'nnu', 'Nn7g36299' => 'nnu', 'Oeu021485.1' => 'oeu', 'Oeu022433.1' => 'oeu', 'Oeu032111.1' => 'oeu', 'Oeu051608.1' => 'oeu', 'Os01g0860601' => 'osa', 'Os03g0659200' => 'osa', 'Os03g0835900' => 'osa', 'Os04g0412200' => 'osa', 'Os05g0443500' => 'osa', 'Os07g0251500' => 'osa', 'Os08g0104600' => 'osa', 'Peaxi162Scf00003g00047' => 'pax', 'Peaxi162Scf00003g00052' => 'pax', 'Peaxi162Scf00003g00394' => 'pax', 'Peaxi162Scf00091g00621' => 'pax', 'Peaxi162Scf00152g00146' => 'pax', 'Peaxi162Scf00173g00025' => 'pax', 'Peaxi162Scf00195g00102' => 'pax', 'Peaxi162Scf00402g00013' => 'pax', 'Peaxi162Scf00519g00618' => 'pax', 'PGR004G2838' => 'pgr', 'PGR044G2275' => 'pgr', 'PGR102G1377' => 'pgr', 'PGR119G1245' => 'pgr', 'PGR142G4449' => 'pgr', 'PGSC0003DMG400004532' => 'stu', 'PGSC0003DMG400011950' => 'stu', 'PGSC0003DMG400023391' => 'stu', 'PGSC0003DMG400023985' => 'stu', 'PGSC0003DMG400026360' => 'stu', 'PGSC0003DMG400035711' => 'stu', 'PGSC0003DMG400037286' => 'stu', 'PGSC0003DMG402005881' => 'stu', 'Phvul.002G045400' => 'pvu', 'Phvul.006G216600' => 'pvu', 'Phvul.006G216700' => 'pvu', 'Phvul.006G216800' => 'pvu', 'Phvul.007G022500' => 'pvu', 'Phvul.011G094400' => 'pvu', 'Potri.001G470700' => 'ptr', 'Potri.003G015200' => 'ptr', 'Potri.004G202500' => 'ptr', 'Potri.004G218400' => 'ptr', 'Potri.008G020100' => 'ptr', 'Potri.008G153200' => 'ptr', 'Potri.009G163800' => 'ptr', 'Potri.010G087300' => 'ptr', 'Potri.010G239100' => 'ptr', 'Pp3c10_16100' => 'ppa', 'Pp3c10_16880' => 'ppa', 'Pp3c16_6230' => 'ppa', 'Pp3c17_18910' => 'ppa', 'Pp3c3_22119' => 'ppa', 'Pp3c3_22140' => 'ppa', 'Pp3c4_8159' => 'ppa', 'Pp3c4_8171' => 'ppa', 'Pp3c4_8330' => 'ppa', 'PRCOL_00004098' => 'pco', 'Prupe.1G013900' => 'ppe', 'Prupe.1G226300' => 'ppe', 'Prupe.1G573600' => 'ppe', 'Prupe.6G130100' => 'ppe', 'Psat3g090040' => 'psa', 'Psat4g210440' => 'psa', 'Psat6g231040' => 'psa', 'Psat6g231080' => 'psa', 'Psat7g063000' => 'psa', 'Psat7g188000' => 'psa', 'Psat7g188040' => 'psa', 'PSO017G0206' => 'pso', 'PSO170G0501' => 'pso', 'PSO170G6422' => 'pso', 'PSO210G7739' => 'pso', 'PSO339G1808' => 'pso', 'PSO339G6135' => 'pso', 'PSO384G0010' => 'pso', 'PSO384G0964' => 'pso', 'PSO761G0050' => 'pso', 'PSO782G4085' => 'pso', 'QL01p012264' => 'qlo', 'QL02p099491' => 'qlo', 'QL03p033868' => 'qlo', 'QL04p046678' => 'qlo', 'QL06p002448' => 'qlo', 'RcHm_v2.0_Chr4g0416181' => 'rch', 'RcHm_v2.0_Chr5g0044701' => 'rch', 'RcHm_v2.0_Chr6g0265781' => 'rch', 'RcHm_v2.0_Chr7g0221031' => 'rch', 'Rhsim04G0202000' => 'rsi', 'Rhsim11G0127300' => 'rsi', 'Rhsim13G0111800' => 'rsi', 'Sabra01G0165600' => 'sbr', 'Sabra03G0008300' => 'sbr', 'Sabra04G0136900' => 'sbr', 'Sabra08G0013400' => 'sbr', 'Sabra08G0116800' => 'sbr', 'Sabra09G0128000' => 'sbr', 'Sabra10G0055500' => 'sbr', 'Sabra10G0073300' => 'sbr', 'SalBow3G0385' => 'sbo', 'SalBow3G1119' => 'sbo', 'SalBow3G2005' => 'sbo', 'SalBow6G2563' => 'sbo', 'SalBow6G6386' => 'sbo', 'Sc06g0008800' => 'sci', 'Sc07g0004950' => 'sci', 'Sc09g0005340' => 'sci', 'Sc13g0004410' => 'sci', 'Sc21g0007090' => 'sci', 'Sed0009285' => 'sed', 'Sed0017583' => 'sed', 'Sed0019699' => 'sed', 'Sed0023107' => 'sed', 'SEGI_10916' => 'sgi', 'SEGI_16217' => 'sgi', 'SEGI_19466' => 'sgi', 'SEGI_41115' => 'sgi', 'SGA_v2.0_scaffold111G31534' => 'sas', 'SGA_v2.0_scaffold22G09864' => 'sas', 'SGA_v2.0_scaffold338G49219' => 'sas', 'SGA_v2.0_scaffold92G28298' => 'sas', 'SMO119G0064' => 'smo', 'SMO223G0038' => 'smo', 'SMO347G0584' => 'smo', 'SMO351G0010' => 'smo', 'SMO356G0404' => 'smo', 'Solyc01g103920.3' => 'sly', 'Solyc04g009710.2' => 'sly', 'Solyc05g055280.2' => 'sly', 'Solyc10g044520.3' => 'sly', 'Solyc10g075160.1' => 'sly', 'Solyc11g006910.3' => 'sly', 'Solyc11g068430.3' => 'sly', 'Sopen01g046310' => 'spe', 'Sopen03g001200' => 'spe', 'Sopen04g004830' => 'spe', 'Sopen05g033720' => 'spe', 'Sopen06g030740' => 'spe', 'Sopen10g013090' => 'spe', 'Sopen10g027630' => 'spe', 'Sopen10g027640' => 'spe', 'Sopen11g002820' => 'spe', 'Sopen11g027140' => 'spe', 'Sp1g09680' => 'spa', 'Sp2g03630' => 'spa', 'Sp4g10320' => 'spa', 'Sp6g33400' => 'spa', 'Sp7g13030' => 'spa', 'TAR365G0317' => 'tar', 'TAR376G0979' => 'tar', 'TAR623G1665' => 'tar', 'TAR633G2373' => 'tar', 'TAR636G1400' => 'tar', 'THA.LOC104800529' => 'tha', 'THA.LOC104808547' => 'tha', 'THA.LOC104809615' => 'tha', 'THA.LOC104815724' => 'tha', 'THA.LOC104818480' => 'tha', 'THA.LOC104819179' => 'tha', 'THA.LOC104822270' => 'tha', 'THA.LOC104826425' => 'tha', 'Thecc.02G089700' => 'tca', 'Thecc.04G232300' => 'tca', 'Thecc.09G283400' => 'tca', 'Thhalv10009020m.g' => 'esa', 'Thhalv10015506m.g' => 'esa', 'Thhalv10017364m.g' => 'esa', 'Thhalv10023742m.g' => 'esa', 'Thhalv10026483m.g' => 'esa', 'TPR.G17232' => 'tpr', 'TPR.G2133' => 'tpr', 'TPR.G2498' => 'tpr', 'TPR.G31942' => 'tpr', 'TPR.G37877' => 'tpr', 'TPR.G4571' => 'tpr', 'TWI14G1113' => 'twi', 'TWI15G0426' => 'twi', 'TWI31G1005' => 'twi', 'TWI38G0513' => 'twi', 'TWI38G1484' => 'twi', 'TWI73G1098' => 'twi', 'unitig_26.g10519' => 'ugi', 'unitig_736.g22395' => 'ugi', 'unitig_747.g21234' => 'ugi', 'unitig_747.g21942' => 'ugi', 'vmacro14351' => 'vma', 'VMungo0540G0082' => 'vmu', 'VMungo0540G0405' => 'vmu', 'VMungo0540G1486' => 'vmu', 'VMungo0540G1692' => 'vmu', 'VMungo0720G2473' => 'vmu', 'VMungo1127G1562' => 'vmu', 'VMungo1215G1918' => 'vmu', 'Zm00001eb052650' => 'zma', 'Zm00001eb063710' => 'zma', 'Zm00001eb083950' => 'zma', 'Zm00001eb174420' => 'zma', 'Zm00001eb260140' => 'zma', 'Zm00001eb260150' => 'zma', 'Zm00001eb260160' => 'zma', 'Zm00001eb348290' => 'zma', 'Zm00001eb366870' => 'zma', 'Zm00001eb421930' => 'zma' ) $gf_id = 'HOM05D001025' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001025' ) $data_identifier = 'HOM05D001025' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 19, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 2, 'amhyb' => (int) 4, 'aly' => (int) 4, 'aox' => (int) 4, 'arhy' => (int) 3, 'ath' => (int) 5, 'atr' => (int) 4, 'acertr' => (int) 3, 'cqu' => (int) 7, 'bca' => (int) 17, 'bol' => (int) 10, 'bra' => (int) 9, 'can' => (int) 10, 'cansat' => (int) 6, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 5, 'cbr' => (int) 5, 'ccan' => (int) 5, 'cde' => (int) 4, 'cfa' => (int) 3, 'ccl' => (int) 6, 'cil' => (int) 4, 'cla' => (int) 3, 'col' => (int) 3, 'cpa' => (int) 3, 'cre' => (int) 7, 'csa' => (int) 5, 'camsi' => (int) 9, 'dca' => (int) 4, 'din' => (int) 5, 'dzi' => (int) 7, 'eca' => (int) 6, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 12, 'fve' => (int) 4, 'gma' => (int) 12, 'ghi' => (int) 17, 'gra' => (int) 9, 'vvi' => (int) 2, 'han' => (int) 8, 'cav' => (int) 5, 'hma' => (int) 9, 'vpl' => (int) 4, 'sun' => (int) 2, 'lal' => (int) 9, 'lja' => (int) 5, 'lonja' => (int) 6, 'lsa' => (int) 3, 'mes' => (int) 8, 'mpo' => (int) 3, 'mbi' => (int) 4, 'mco' => (int) 3, 'mdo' => (int) 5, 'mtr' => (int) 7, 'cme' => (int) 6, 'egut' => (int) 7, 'ama' => (int) 3, 'nta' => (int) 12, 'nnu' => (int) 9, 'oeu' => (int) 4, 'osa' => (int) 7, 'pax' => (int) 9, 'pgr' => (int) 5, 'stu' => (int) 8, 'pvu' => (int) 6, 'ptr' => (int) 9, 'ppa' => (int) 9, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 7, 'pso' => (int) 10, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 3, 'sbr' => (int) 8, 'sbo' => (int) 5, 'sci' => (int) 5, 'sed' => (int) 4, 'sgi' => (int) 4, 'sas' => (int) 4, 'smo' => (int) 5, 'sly' => (int) 7, 'spe' => (int) 10, 'spa' => (int) 5, 'tar' => (int) 5, 'tha' => (int) 8, 'tca' => (int) 3, 'esa' => (int) 5, 'tpr' => (int) 6, 'twi' => (int) 6, 'ugi' => (int) 4, 'vma' => (int) 1, 'vmu' => (int) 7, 'zma' => (int) 10 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb421930' $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' => 'HOM05D001025', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '592', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p22650' => 'bna', 'A01p29720' => 'bna', 'A03p26560' => 'bna', 'A03p68820' => 'bna', 'A04p20980' => 'bna', 'A06p07730' => 'bna', 'A07p18260' => 'bna', 'A08p33710' => 'bna', 'A09p16970' => 'bna', 'A10p27490' => 'bna', 'Aa31LG1G17300' => 'aar', 'Aa31LG1G3910' => 'aar', 'Aa31LG2G9630' => 'aar', 'Aa31LG5G8360' => 'aar', 'Aa31LG9G2410' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4699' => 'aag', 'Actinidia23512' => 'ach', 'Actinidia37080' => 'ach', 'Ah.01g020380' => 'amhyb', 'Ah.08g215710' => 'amhyb', 'Ah.09g225110' => 'amhyb', 'Ah.10g036680' => 'amhyb', 'AL1G21940' => 'aly', 'AL2G15540' => 'aly', 'AL4G21520' => 'aly', 'AL7G40960' => 'aly', 'Aqoxy2G01191' => 'aox', 'Aqoxy2G03393' => 'aox', 'Aqoxy4G02775' => 'aox', 'Aqoxy6G00058' => 'aox', 'arahy.Tifrunner.gnm1.ann1.9X74H2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CW3FX9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R485W7' => 'arhy', 'AT1G10960' => 'ath', 'AT1G60950' => 'ath', 'AT2G27510' => 'ath', 'AT4G14890' => 'ath', 'AT5G10000' => 'ath', 'ATR0665G624' => 'atr', 'ATR0697G138' => 'atr', 'ATR0776G046' => 'atr', 'ATR1134G135' => 'atr', 'Atru.chr12.1025' => 'acertr', 'Atru.chr3.3241' => 'acertr', 'Atru.chr4.2460' => 'acertr', 'AUR62007427' => 'cqu', 'AUR62010960' => 'cqu', 'AUR62012201' => 'cqu', 'AUR62021470' => 'cqu', 'AUR62022834' => 'cqu', 'AUR62033635' => 'cqu', 'AUR62036186' => 'cqu', 'BcaB01g03077' => 'bca', 'BcaB02g10093' => 'bca', 'BcaB04g20295' => 'bca', 'BcaB06g28147' => 'bca', 'BcaB07g31253' => 'bca', 'BcaC01g04946' => 'bca', 'BcaC02g10614' => 'bca', 'BcaC02g10885' => 'bca', 'BcaC04g19356' => 'bca', 'BcaC04g22297' => 'bca', 'BcaC05g24977' => 'bca', 'BcaC06g31823' => 'bca', 'BcaC07g38633' => 'bca', 'BcaC09g49353' => 'bca', 'BcaC09g50168' => 'bca', 'BcaNung00322' => 'bca', 'BcaNung04769' => 'bca', 'BolC1t02753H' => 'bol', 'BolC1t03721H' => 'bol', 'BolC3t15525H' => 'bol', 'BolC4t23903H' => 'bol', 'BolC4t24231H' => 'bol', 'BolC4t27209H' => 'bol', 'BolC5t29671H' => 'bol', 'BolC8t49044H' => 'bol', 'BolC9t54999H' => 'bol', 'BolC9t59517H' => 'bol', 'BraA01t02178Z' => 'bra', 'BraA01t03099Z' => 'bra', 'BraA03t11867Z' => 'bra', 'BraA04t17667Z' => 'bra', 'BraA07t29542Z' => 'bra', 'BraA08t35287Z' => 'bra', 'BraA09t37334Z' => 'bra', 'BraA10t44801Z' => 'bra', 'BraSC39t46181Z' => 'bra', 'C01p28240' => 'bna', 'C01p37530' => 'bna', 'C03p31820' => 'bna', 'C04p24080' => 'bna', 'C04p25790' => 'bna', 'C04p56770' => 'bna', 'C05p09310' => 'bna', 'C09p21010' => 'bna', 'C09p67560' => 'bna', 'CAN.G1324.7' => 'can', 'CAN.G1358.10' => 'can', 'CAN.G1550.2' => 'can', 'CAN.G186.56' => 'can', 'CAN.G1965.1' => 'can', 'CAN.G645.15' => 'can', 'CAN.G798.26' => 'can', 'CAN.G798.27' => 'can', 'CAN.G798.29' => 'can', 'CAN.G919.31' => 'can', 'CANSAT11G0133' => 'cansat', 'CANSAT11G1171' => 'cansat', 'CANSAT11G2056' => 'cansat', 'CANSAT56G1202' => 'cansat', 'CANSAT56G1514' => 'cansat', 'CANSAT78G0455' => 'cansat', 'CARHR011190' => 'chi', 'CARHR051980' => 'chi', 'CARHR120170' => 'chi', 'CARHR203310' => 'chi', 'CARHR221490' => 'chi', 'Carub.0001s1054' => 'cru', 'Carub.0002s0431' => 'cru', 'Carub.0004s0818' => 'cru', 'Carub.0006s0846' => 'cru', 'Carub.0007s2722' => 'cru', 'Ca_00058_v3' => 'car', 'Ca_17831_v3' => 'car', 'Ca_19408_v3' => 'car', 'Ca_24397_v3' => 'car', 'Ca_25664_v3' => 'car', 'CBR_g21818' => 'cbr', 'CBR_g31195' => 'cbr', 'CBR_g32282' => 'cbr', 'CBR_g39599' => 'cbr', 'CBR_g49410' => 'cbr', 'Cc01_g09120' => 'ccan', 'Cc01_g09130' => 'ccan', 'Cc02_g09630' => 'ccan', 'Cc02_g22810' => 'ccan', 'Cc03_g03810' => 'ccan', 'CDE02G3718' => 'cde', 'CDE04G3183' => 'cde', 'CDE07G1046' => 'cde', 'CDE08G0480' => 'cde', 'Cfa005493' => 'cfa', 'Cfa010312' => 'cfa', 'Cfa015648' => 'cfa', 'Ciclev10002793m.g' => 'ccl', 'Ciclev10003356m.g' => 'ccl', 'Ciclev10006141m.g' => 'ccl', 'Ciclev10016676m.g' => 'ccl', 'Ciclev10017081m.g' => 'ccl', 'Ciclev10029499m.g' => 'ccl', 'CiPaw.01G166300' => 'cil', 'CiPaw.06G145600' => 'cil', 'CiPaw.13G040100' => 'cil', 'CiPaw.13G135800' => 'cil', 'ClCG01G012230' => 'cla', 'ClCG05G009510' => 'cla', 'ClCG08G008270' => 'cla', 'COL.COLO4_11763' => 'col', 'COL.COLO4_19876' => 'col', 'COL.COLO4_21481' => 'col', 'Cpa.g.sc118.34' => 'cpa', 'Cpa.g.sc32.13' => 'cpa', 'Cpa.g.sc58.103' => 'cpa', 'Cre03.g183850' => 'cre', 'Cre06.g306350' => 'cre', 'Cre07.g334800' => 'cre', 'Cre12.g487900' => 'cre', 'Cre14.g626700' => 'cre', 'Cre16.g658400' => 'cre', 'Cre17.g700950' => 'cre', 'CsaV3_1G014830' => 'csa', 'CsaV3_3G013320' => 'csa', 'CsaV3_3G019210' => 'csa', 'CsaV3_3G019220' => 'csa', 'CsaV3_6G004230' => 'csa', 'CSS0003773' => 'camsi', 'CSS0004563' => 'camsi', 'CSS0013949' => 'camsi', 'CSS0025971' => 'camsi', 'CSS0028570' => 'camsi', 'CSS0033127' => 'camsi', 'CSS0036051' => 'camsi', 'CSS0040087' => 'camsi', 'CSS0043179' => 'camsi', 'DCAR_006161' => 'dca', 'DCAR_010351' => 'dca', 'DCAR_012197' => 'dca', 'DCAR_024162' => 'dca', 'Dinv01030' => 'din', 'Dinv10924' => 'din', 'Dinv11835' => 'din', 'Dinv22841' => 'din', 'Dinv42553' => 'din', 'Duzib052G0560' => 'dzi', 'Duzib132G0389' => 'dzi', 'Duzib150G1181' => 'dzi', 'Duzib168G0623' => 'dzi', 'Duzib170G1036' => 'dzi', 'Duzib212G0200' => 'dzi', 'Duzib248G0194' => 'dzi', 'ECA232G2193' => 'eca', 'ECA233G0302' => 'eca', 'ECA234G2813' => 'eca', 'ECA234G4866' => 'eca', 'ECA240G3932' => 'eca', 'ECA248G0385' => 'eca', 'EL10Ac2g04781' => 'bvu', 'EL10Ac3g06445' => 'bvu', 'EL10Ac7g15825' => 'bvu', 'EL10Ac8g18550' => 'bvu', 'Eucgr.B03849' => 'egr', 'Eucgr.I02744' => 'egr', 'Eucgr.J00264' => 'egr', 'Eucgr.J00493' => 'egr', 'FAN04G2181' => 'fan', 'FAN07G2666' => 'fan', 'FAN11G0024' => 'fan', 'FAN12G1105' => 'fan', 'FAN13G0302' => 'fan', 'FAN15G2781' => 'fan', 'FAN16G1274' => 'fan', 'FAN17G2988' => 'fan', 'FAN18G2621' => 'fan', 'FAN21G0013' => 'fan', 'FAN22G1211' => 'fan', 'FAN25G3626' => 'fan', 'FvH4_2g09491' => 'fve', 'FvH4_3g24910' => 'fve', 'FvH4_4g15630' => 'fve', 'FvH4_5g28820' => 'fve', 'Glyma.01G238000' => 'gma', 'Glyma.05G168400' => 'gma', 'Glyma.08G126800' => 'gma', 'Glyma.08G188500' => 'gma', 'Glyma.10G278900' => 'gma', 'Glyma.11G005700' => 'gma', 'Glyma.11G183300' => 'gma', 'Glyma.12G089200' => 'gma', 'Glyma.12G169400' => 'gma', 'Glyma.12G169500' => 'gma', 'Glyma.12G169600' => 'gma', 'Glyma.20G110800' => 'gma', 'Gohir.A03G192900' => 'ghi', 'Gohir.A03G193000' => 'ghi', 'Gohir.A05G080700' => 'ghi', 'Gohir.A09G216000' => 'ghi', 'Gohir.A12G027700' => 'ghi', 'Gohir.A13G036200' => 'ghi', 'Gohir.A13G222600' => 'ghi', 'Gohir.D02G213900' => 'ghi', 'Gohir.D02G214000' => 'ghi', 'Gohir.D05G083700' => 'ghi', 'Gohir.D05G083800' => 'ghi', 'Gohir.D05G083850' => 'ghi', 'Gohir.D08G015400' => 'ghi', 'Gohir.D09G218400' => 'ghi', 'Gohir.D12G027100' => 'ghi', 'Gohir.D13G034500' => 'ghi', 'Gohir.D13G227400' => 'ghi', 'Gorai.005G241800' => 'gra', 'Gorai.005G241900' => 'gra', 'Gorai.006G239400' => 'gra', 'Gorai.008G027600' => 'gra', 'Gorai.009G085400' => 'gra', 'Gorai.009G085500' => 'gra', 'Gorai.013G039000' => 'gra', 'Gorai.013G194800' => 'gra', 'Gorai.013G257900' => 'gra', 'GSVIVG01000982001' => 'vvi', 'GSVIVG01017981001' => 'vvi', 'HanXRQChr01g0024061' => 'han', 'HanXRQChr09g0247831' => 'han', 'HanXRQChr10g0294611' => 'han', 'HanXRQChr10g0294621' => 'han', 'HanXRQChr11g0346821' => 'han', 'HanXRQChr13g0397461' => 'han', 'HanXRQChr16g0513651' => 'han', 'HanXRQChr16g0513701' => 'han', 'Haze_00897' => 'cav', 'Haze_01745' => 'cav', 'Haze_02486' => 'cav', 'Haze_02487' => 'cav', 'Haze_23374' => 'cav', 'Hma1.2p1_0578F.1_g182520' => 'hma', 'Hma1.2p1_0602F.1_g187350' => 'hma', 'Hma1.2p1_0602F.1_g187360' => 'hma', 'Hma1.2p1_0874F.1_g231320' => 'hma', 'Hma1.2p1_1197F.1_g266210' => 'hma', 'Hma1.2p1_1197F.1_g266220' => 'hma', 'Hma1.2p1_2167F.1_g315895' => 'hma', 'Hma1.2p1_2190F.1_g316640' => 'hma', 'Hma1.2p1_3645F.1_g337153' => 'hma', 'HPP92_004907' => 'vpl', 'HPP92_012134' => 'vpl', 'HPP92_025136' => 'vpl', 'HPP92_026087' => 'vpl', 'Hund06782' => 'sun', 'Hund06784' => 'sun', 'Lalb_Chr01g0004861' => 'lal', 'Lalb_Chr02g0140591' => 'lal', 'Lalb_Chr02g0140611' => 'lal', 'Lalb_Chr03g0028101' => 'lal', 'Lalb_Chr07g0185791' => 'lal', 'Lalb_Chr12g0204491' => 'lal', 'Lalb_Chr13g0295671' => 'lal', 'Lalb_Chr19g0136461' => 'lal', 'Lalb_Chr21g0309191' => 'lal', 'Lj1g0028158' => 'lja', 'Lj1P236T38' => 'lonja', 'Lj2C32G2' => 'lonja', 'Lj2P944T8' => 'lonja', 'Lj2P963T15' => 'lonja', 'Lj3g0011788' => 'lja', 'Lj4g0025027' => 'lja', 'Lj5P255T36' => 'lonja', 'Lj6g0018866' => 'lja', 'Lj6P608T31' => 'lonja', 'LjContig00408g0008879' => 'lja', 'Lsat_1_v5_gn_5_105820' => 'lsa', 'Lsat_1_v5_gn_6_38800' => 'lsa', 'Lsat_1_v5_gn_7_67141' => 'lsa', 'Manes.04G003400' => 'mes', 'Manes.07G020000' => 'mes', 'Manes.07G020100' => 'mes', 'Manes.07G020150' => 'mes', 'Manes.10G061500' => 'mes', 'Manes.10G123200' => 'mes', 'Manes.11G161900' => 'mes', 'Manes.15G029300' => 'mes', 'Mapoly0071s0018' => 'mpo', 'Mapoly0082s0023' => 'mpo', 'Mapoly3477s0001' => 'mpo', 'MBI05_g31233_MAGBIO' => 'mbi', 'MBI09_g05946_MAGBIO' => 'mbi', 'MBI09_g05947_MAGBIO' => 'mbi', 'MBI17_g08346_MAGBIO' => 'mbi', 'MCO04G038' => 'mco', 'MCO09G370' => 'mco', 'MCO13G605' => 'mco', 'MD00G1075500' => 'mdo', 'MD03G1144300' => 'mdo', 'MD08G1236800' => 'mdo', 'MD13G1193300' => 'mdo', 'MD15G1428700' => 'mdo', 'Medtr1g112030' => 'mtr', 'Medtr1g112050' => 'mtr', 'Medtr2g006290' => 'mtr', 'Medtr2g086510' => 'mtr', 'Medtr4g053120' => 'mtr', 'Medtr5g006320' => 'mtr', 'Medtr8g088720' => 'mtr', 'MELO3C004712.2' => 'cme', 'MELO3C006533.2' => 'cme', 'MELO3C019438.2' => 'cme', 'MELO3C019440.2' => 'cme', 'MELO3C019441.2' => 'cme', 'MELO3C019895.2' => 'cme', 'Migut.B00811' => 'egut', 'Migut.D02447' => 'egut', 'Migut.F00875' => 'egut', 'Migut.N00186' => 'egut', 'Migut.N01051' => 'egut', 'Migut.N02491' => 'egut', 'Migut.O00784' => 'egut', 'MSTRG.12367' => 'ama', 'MSTRG.18756' => 'ama', 'MSTRG.21042' => 'ama', 'Nitab4.5_0000559g0040' => 'nta', 'Nitab4.5_0000667g0190' => 'nta', 'Nitab4.5_0000755g0160' => 'nta', 'Nitab4.5_0001216g0080' => 'nta', 'Nitab4.5_0004069g0040' => 'nta', 'Nitab4.5_0004129g0010' => 'nta', 'Nitab4.5_0005744g0030' => 'nta', 'Nitab4.5_0006996g0030' => 'nta', 'Nitab4.5_0008971g0040' => 'nta', 'Nitab4.5_0009769g0020' => 'nta', 'Nitab4.5_0009833g0010' => 'nta', 'Nitab4.5_0013140g0020' => 'nta', 'Nn003s41376' => 'nnu', 'Nn1g01857' => 'nnu', 'Nn1g03611' => 'nnu', 'Nn1g06853' => 'nnu', 'Nn3g18360' => 'nnu', 'Nn4g26328' => 'nnu', 'Nn5g27531' => 'nnu', 'Nn6g34899' => 'nnu', 'Nn7g36299' => 'nnu', 'Oeu021485.1' => 'oeu', 'Oeu022433.1' => 'oeu', 'Oeu032111.1' => 'oeu', 'Oeu051608.1' => 'oeu', 'Os01g0860601' => 'osa', 'Os03g0659200' => 'osa', 'Os03g0835900' => 'osa', 'Os04g0412200' => 'osa', 'Os05g0443500' => 'osa', 'Os07g0251500' => 'osa', 'Os08g0104600' => 'osa', 'Peaxi162Scf00003g00047' => 'pax', 'Peaxi162Scf00003g00052' => 'pax', 'Peaxi162Scf00003g00394' => 'pax', 'Peaxi162Scf00091g00621' => 'pax', 'Peaxi162Scf00152g00146' => 'pax', 'Peaxi162Scf00173g00025' => 'pax', 'Peaxi162Scf00195g00102' => 'pax', 'Peaxi162Scf00402g00013' => 'pax', 'Peaxi162Scf00519g00618' => 'pax', 'PGR004G2838' => 'pgr', 'PGR044G2275' => 'pgr', 'PGR102G1377' => 'pgr', 'PGR119G1245' => 'pgr', 'PGR142G4449' => 'pgr', 'PGSC0003DMG400004532' => 'stu', 'PGSC0003DMG400011950' => 'stu', 'PGSC0003DMG400023391' => 'stu', 'PGSC0003DMG400023985' => 'stu', 'PGSC0003DMG400026360' => 'stu', 'PGSC0003DMG400035711' => 'stu', 'PGSC0003DMG400037286' => 'stu', 'PGSC0003DMG402005881' => 'stu', 'Phvul.002G045400' => 'pvu', 'Phvul.006G216600' => 'pvu', 'Phvul.006G216700' => 'pvu', 'Phvul.006G216800' => 'pvu', 'Phvul.007G022500' => 'pvu', 'Phvul.011G094400' => 'pvu', 'Potri.001G470700' => 'ptr', 'Potri.003G015200' => 'ptr', 'Potri.004G202500' => 'ptr', 'Potri.004G218400' => 'ptr', 'Potri.008G020100' => 'ptr', 'Potri.008G153200' => 'ptr', 'Potri.009G163800' => 'ptr', 'Potri.010G087300' => 'ptr', 'Potri.010G239100' => 'ptr', 'Pp3c10_16100' => 'ppa', 'Pp3c10_16880' => 'ppa', 'Pp3c16_6230' => 'ppa', 'Pp3c17_18910' => 'ppa', 'Pp3c3_22119' => 'ppa', 'Pp3c3_22140' => 'ppa', 'Pp3c4_8159' => 'ppa', 'Pp3c4_8171' => 'ppa', 'Pp3c4_8330' => 'ppa', 'PRCOL_00004098' => 'pco', 'Prupe.1G013900' => 'ppe', 'Prupe.1G226300' => 'ppe', 'Prupe.1G573600' => 'ppe', 'Prupe.6G130100' => 'ppe', 'Psat3g090040' => 'psa', 'Psat4g210440' => 'psa', 'Psat6g231040' => 'psa', 'Psat6g231080' => 'psa', 'Psat7g063000' => 'psa', 'Psat7g188000' => 'psa', 'Psat7g188040' => 'psa', 'PSO017G0206' => 'pso', 'PSO170G0501' => 'pso', 'PSO170G6422' => 'pso', 'PSO210G7739' => 'pso', 'PSO339G1808' => 'pso', 'PSO339G6135' => 'pso', 'PSO384G0010' => 'pso', 'PSO384G0964' => 'pso', 'PSO761G0050' => 'pso', 'PSO782G4085' => 'pso', 'QL01p012264' => 'qlo', 'QL02p099491' => 'qlo', 'QL03p033868' => 'qlo', 'QL04p046678' => 'qlo', 'QL06p002448' => 'qlo', 'RcHm_v2.0_Chr4g0416181' => 'rch', 'RcHm_v2.0_Chr5g0044701' => 'rch', 'RcHm_v2.0_Chr6g0265781' => 'rch', 'RcHm_v2.0_Chr7g0221031' => 'rch', 'Rhsim04G0202000' => 'rsi', 'Rhsim11G0127300' => 'rsi', 'Rhsim13G0111800' => 'rsi', 'Sabra01G0165600' => 'sbr', 'Sabra03G0008300' => 'sbr', 'Sabra04G0136900' => 'sbr', 'Sabra08G0013400' => 'sbr', 'Sabra08G0116800' => 'sbr', 'Sabra09G0128000' => 'sbr', 'Sabra10G0055500' => 'sbr', 'Sabra10G0073300' => 'sbr', 'SalBow3G0385' => 'sbo', 'SalBow3G1119' => 'sbo', 'SalBow3G2005' => 'sbo', 'SalBow6G2563' => 'sbo', 'SalBow6G6386' => 'sbo', 'Sc06g0008800' => 'sci', 'Sc07g0004950' => 'sci', 'Sc09g0005340' => 'sci', 'Sc13g0004410' => 'sci', 'Sc21g0007090' => 'sci', 'Sed0009285' => 'sed', 'Sed0017583' => 'sed', 'Sed0019699' => 'sed', 'Sed0023107' => 'sed', 'SEGI_10916' => 'sgi', 'SEGI_16217' => 'sgi', 'SEGI_19466' => 'sgi', 'SEGI_41115' => 'sgi', 'SGA_v2.0_scaffold111G31534' => 'sas', 'SGA_v2.0_scaffold22G09864' => 'sas', 'SGA_v2.0_scaffold338G49219' => 'sas', 'SGA_v2.0_scaffold92G28298' => 'sas', 'SMO119G0064' => 'smo', 'SMO223G0038' => 'smo', 'SMO347G0584' => 'smo', 'SMO351G0010' => 'smo', 'SMO356G0404' => 'smo', 'Solyc01g103920.3' => 'sly', 'Solyc04g009710.2' => 'sly', 'Solyc05g055280.2' => 'sly', 'Solyc10g044520.3' => 'sly', 'Solyc10g075160.1' => 'sly', 'Solyc11g006910.3' => 'sly', 'Solyc11g068430.3' => 'sly', 'Sopen01g046310' => 'spe', 'Sopen03g001200' => 'spe', 'Sopen04g004830' => 'spe', 'Sopen05g033720' => 'spe', 'Sopen06g030740' => 'spe', 'Sopen10g013090' => 'spe', 'Sopen10g027630' => 'spe', 'Sopen10g027640' => 'spe', 'Sopen11g002820' => 'spe', 'Sopen11g027140' => 'spe', 'Sp1g09680' => 'spa', 'Sp2g03630' => 'spa', 'Sp4g10320' => 'spa', 'Sp6g33400' => 'spa', 'Sp7g13030' => 'spa', 'TAR365G0317' => 'tar', 'TAR376G0979' => 'tar', 'TAR623G1665' => 'tar', 'TAR633G2373' => 'tar', 'TAR636G1400' => 'tar', 'THA.LOC104800529' => 'tha', 'THA.LOC104808547' => 'tha', 'THA.LOC104809615' => 'tha', 'THA.LOC104815724' => 'tha', 'THA.LOC104818480' => 'tha', 'THA.LOC104819179' => 'tha', 'THA.LOC104822270' => 'tha', 'THA.LOC104826425' => 'tha', 'Thecc.02G089700' => 'tca', 'Thecc.04G232300' => 'tca', 'Thecc.09G283400' => 'tca', 'Thhalv10009020m.g' => 'esa', 'Thhalv10015506m.g' => 'esa', 'Thhalv10017364m.g' => 'esa', 'Thhalv10023742m.g' => 'esa', 'Thhalv10026483m.g' => 'esa', 'TPR.G17232' => 'tpr', 'TPR.G2133' => 'tpr', 'TPR.G2498' => 'tpr', 'TPR.G31942' => 'tpr', 'TPR.G37877' => 'tpr', 'TPR.G4571' => 'tpr', 'TWI14G1113' => 'twi', 'TWI15G0426' => 'twi', 'TWI31G1005' => 'twi', 'TWI38G0513' => 'twi', 'TWI38G1484' => 'twi', 'TWI73G1098' => 'twi', 'unitig_26.g10519' => 'ugi', 'unitig_736.g22395' => 'ugi', 'unitig_747.g21234' => 'ugi', 'unitig_747.g21942' => 'ugi', 'vmacro14351' => 'vma', 'VMungo0540G0082' => 'vmu', 'VMungo0540G0405' => 'vmu', 'VMungo0540G1486' => 'vmu', 'VMungo0540G1692' => 'vmu', 'VMungo0720G2473' => 'vmu', 'VMungo1127G1562' => 'vmu', 'VMungo1215G1918' => 'vmu', 'Zm00001eb052650' => 'zma', 'Zm00001eb063710' => 'zma', 'Zm00001eb083950' => 'zma', 'Zm00001eb174420' => 'zma', 'Zm00001eb260140' => 'zma', 'Zm00001eb260150' => 'zma', 'Zm00001eb260160' => 'zma', 'Zm00001eb348290' => 'zma', 'Zm00001eb366870' => 'zma', 'Zm00001eb421930' => 'zma' ), 'gf_id' => 'HOM05D001025', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001025' ), 'data_identifier' => 'HOM05D001025', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001025', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '592', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p22650' => 'bna', 'A01p29720' => 'bna', 'A03p26560' => 'bna', 'A03p68820' => 'bna', 'A04p20980' => 'bna', 'A06p07730' => 'bna', 'A07p18260' => 'bna', 'A08p33710' => 'bna', 'A09p16970' => 'bna', 'A10p27490' => 'bna', 'Aa31LG1G17300' => 'aar', 'Aa31LG1G3910' => 'aar', 'Aa31LG2G9630' => 'aar', 'Aa31LG5G8360' => 'aar', 'Aa31LG9G2410' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4699' => 'aag', 'Actinidia23512' => 'ach', 'Actinidia37080' => 'ach', 'Ah.01g020380' => 'amhyb', 'Ah.08g215710' => 'amhyb', 'Ah.09g225110' => 'amhyb', 'Ah.10g036680' => 'amhyb', 'AL1G21940' => 'aly', 'AL2G15540' => 'aly', 'AL4G21520' => 'aly', 'AL7G40960' => 'aly', 'Aqoxy2G01191' => 'aox', 'Aqoxy2G03393' => 'aox', 'Aqoxy4G02775' => 'aox', 'Aqoxy6G00058' => 'aox', 'arahy.Tifrunner.gnm1.ann1.9X74H2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CW3FX9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R485W7' => 'arhy', 'AT1G10960' => 'ath', 'AT1G60950' => 'ath', 'AT2G27510' => 'ath', 'AT4G14890' => 'ath', 'AT5G10000' => 'ath', 'ATR0665G624' => 'atr', 'ATR0697G138' => 'atr', 'ATR0776G046' => 'atr', 'ATR1134G135' => 'atr', 'Atru.chr12.1025' => 'acertr', 'Atru.chr3.3241' => 'acertr', 'Atru.chr4.2460' => 'acertr', 'AUR62007427' => 'cqu', 'AUR62010960' => 'cqu', 'AUR62012201' => 'cqu', 'AUR62021470' => 'cqu', 'AUR62022834' => 'cqu', 'AUR62033635' => 'cqu', 'AUR62036186' => 'cqu', 'BcaB01g03077' => 'bca', 'BcaB02g10093' => 'bca', 'BcaB04g20295' => 'bca', 'BcaB06g28147' => 'bca', 'BcaB07g31253' => 'bca', 'BcaC01g04946' => 'bca', 'BcaC02g10614' => 'bca', 'BcaC02g10885' => 'bca', 'BcaC04g19356' => 'bca', 'BcaC04g22297' => 'bca', 'BcaC05g24977' => 'bca', 'BcaC06g31823' => 'bca', 'BcaC07g38633' => 'bca', 'BcaC09g49353' => 'bca', 'BcaC09g50168' => 'bca', 'BcaNung00322' => 'bca', 'BcaNung04769' => 'bca', 'BolC1t02753H' => 'bol', 'BolC1t03721H' => 'bol', 'BolC3t15525H' => 'bol', 'BolC4t23903H' => 'bol', 'BolC4t24231H' => 'bol', 'BolC4t27209H' => 'bol', 'BolC5t29671H' => 'bol', 'BolC8t49044H' => 'bol', 'BolC9t54999H' => 'bol', 'BolC9t59517H' => 'bol', 'BraA01t02178Z' => 'bra', 'BraA01t03099Z' => 'bra', 'BraA03t11867Z' => 'bra', 'BraA04t17667Z' => 'bra', 'BraA07t29542Z' => 'bra', 'BraA08t35287Z' => 'bra', 'BraA09t37334Z' => 'bra', 'BraA10t44801Z' => 'bra', 'BraSC39t46181Z' => 'bra', 'C01p28240' => 'bna', 'C01p37530' => 'bna', 'C03p31820' => 'bna', 'C04p24080' => 'bna', 'C04p25790' => 'bna', 'C04p56770' => 'bna', 'C05p09310' => 'bna', 'C09p21010' => 'bna', 'C09p67560' => 'bna', 'CAN.G1324.7' => 'can', 'CAN.G1358.10' => 'can', 'CAN.G1550.2' => 'can', 'CAN.G186.56' => 'can', 'CAN.G1965.1' => 'can', 'CAN.G645.15' => 'can', 'CAN.G798.26' => 'can', 'CAN.G798.27' => 'can', 'CAN.G798.29' => 'can', 'CAN.G919.31' => 'can', 'CANSAT11G0133' => 'cansat', 'CANSAT11G1171' => 'cansat', 'CANSAT11G2056' => 'cansat', 'CANSAT56G1202' => 'cansat', 'CANSAT56G1514' => 'cansat', 'CANSAT78G0455' => 'cansat', 'CARHR011190' => 'chi', 'CARHR051980' => 'chi', 'CARHR120170' => 'chi', 'CARHR203310' => 'chi', 'CARHR221490' => 'chi', 'Carub.0001s1054' => 'cru', 'Carub.0002s0431' => 'cru', 'Carub.0004s0818' => 'cru', 'Carub.0006s0846' => 'cru', 'Carub.0007s2722' => 'cru', 'Ca_00058_v3' => 'car', 'Ca_17831_v3' => 'car', 'Ca_19408_v3' => 'car', 'Ca_24397_v3' => 'car', 'Ca_25664_v3' => 'car', 'CBR_g21818' => 'cbr', 'CBR_g31195' => 'cbr', 'CBR_g32282' => 'cbr', 'CBR_g39599' => 'cbr', 'CBR_g49410' => 'cbr', 'Cc01_g09120' => 'ccan', 'Cc01_g09130' => 'ccan', 'Cc02_g09630' => 'ccan', 'Cc02_g22810' => 'ccan', 'Cc03_g03810' => 'ccan', 'CDE02G3718' => 'cde', 'CDE04G3183' => 'cde', 'CDE07G1046' => 'cde', 'CDE08G0480' => 'cde', 'Cfa005493' => 'cfa', 'Cfa010312' => 'cfa', 'Cfa015648' => 'cfa', 'Ciclev10002793m.g' => 'ccl', 'Ciclev10003356m.g' => 'ccl', 'Ciclev10006141m.g' => 'ccl', 'Ciclev10016676m.g' => 'ccl', 'Ciclev10017081m.g' => 'ccl', 'Ciclev10029499m.g' => 'ccl', 'CiPaw.01G166300' => 'cil', 'CiPaw.06G145600' => 'cil', 'CiPaw.13G040100' => 'cil', 'CiPaw.13G135800' => 'cil', 'ClCG01G012230' => 'cla', 'ClCG05G009510' => 'cla', 'ClCG08G008270' => 'cla', 'COL.COLO4_11763' => 'col', 'COL.COLO4_19876' => 'col', 'COL.COLO4_21481' => 'col', 'Cpa.g.sc118.34' => 'cpa', 'Cpa.g.sc32.13' => 'cpa', 'Cpa.g.sc58.103' => 'cpa', 'Cre03.g183850' => 'cre', 'Cre06.g306350' => 'cre', 'Cre07.g334800' => 'cre', 'Cre12.g487900' => 'cre', 'Cre14.g626700' => 'cre', 'Cre16.g658400' => 'cre', 'Cre17.g700950' => 'cre', 'CsaV3_1G014830' => 'csa', 'CsaV3_3G013320' => 'csa', 'CsaV3_3G019210' => 'csa', 'CsaV3_3G019220' => 'csa', 'CsaV3_6G004230' => 'csa', 'CSS0003773' => 'camsi', 'CSS0004563' => 'camsi', 'CSS0013949' => 'camsi', 'CSS0025971' => 'camsi', 'CSS0028570' => 'camsi', 'CSS0033127' => 'camsi', 'CSS0036051' => 'camsi', 'CSS0040087' => 'camsi', 'CSS0043179' => 'camsi', 'DCAR_006161' => 'dca', 'DCAR_010351' => 'dca', 'DCAR_012197' => 'dca', 'DCAR_024162' => 'dca', 'Dinv01030' => 'din', 'Dinv10924' => 'din', 'Dinv11835' => 'din', 'Dinv22841' => 'din', 'Dinv42553' => 'din', 'Duzib052G0560' => 'dzi', 'Duzib132G0389' => 'dzi', 'Duzib150G1181' => 'dzi', 'Duzib168G0623' => 'dzi', 'Duzib170G1036' => 'dzi', 'Duzib212G0200' => 'dzi', 'Duzib248G0194' => 'dzi', 'ECA232G2193' => 'eca', 'ECA233G0302' => 'eca', 'ECA234G2813' => 'eca', 'ECA234G4866' => 'eca', 'ECA240G3932' => 'eca', 'ECA248G0385' => 'eca', 'EL10Ac2g04781' => 'bvu', 'EL10Ac3g06445' => 'bvu', 'EL10Ac7g15825' => 'bvu', 'EL10Ac8g18550' => 'bvu', 'Eucgr.B03849' => 'egr', 'Eucgr.I02744' => 'egr', 'Eucgr.J00264' => 'egr', 'Eucgr.J00493' => 'egr', 'FAN04G2181' => 'fan', 'FAN07G2666' => 'fan', 'FAN11G0024' => 'fan', 'FAN12G1105' => 'fan', 'FAN13G0302' => 'fan', 'FAN15G2781' => 'fan', 'FAN16G1274' => 'fan', 'FAN17G2988' => 'fan', 'FAN18G2621' => 'fan', 'FAN21G0013' => 'fan', 'FAN22G1211' => 'fan', 'FAN25G3626' => 'fan', 'FvH4_2g09491' => 'fve', 'FvH4_3g24910' => 'fve', 'FvH4_4g15630' => 'fve', 'FvH4_5g28820' => 'fve', 'Glyma.01G238000' => 'gma', 'Glyma.05G168400' => 'gma', 'Glyma.08G126800' => 'gma', 'Glyma.08G188500' => 'gma', 'Glyma.10G278900' => 'gma', 'Glyma.11G005700' => 'gma', 'Glyma.11G183300' => 'gma', 'Glyma.12G089200' => 'gma', 'Glyma.12G169400' => 'gma', 'Glyma.12G169500' => 'gma', 'Glyma.12G169600' => 'gma', 'Glyma.20G110800' => 'gma', 'Gohir.A03G192900' => 'ghi', 'Gohir.A03G193000' => 'ghi', 'Gohir.A05G080700' => 'ghi', 'Gohir.A09G216000' => 'ghi', 'Gohir.A12G027700' => 'ghi', 'Gohir.A13G036200' => 'ghi', 'Gohir.A13G222600' => 'ghi', 'Gohir.D02G213900' => 'ghi', 'Gohir.D02G214000' => 'ghi', 'Gohir.D05G083700' => 'ghi', 'Gohir.D05G083800' => 'ghi', 'Gohir.D05G083850' => 'ghi', 'Gohir.D08G015400' => 'ghi', 'Gohir.D09G218400' => 'ghi', 'Gohir.D12G027100' => 'ghi', 'Gohir.D13G034500' => 'ghi', 'Gohir.D13G227400' => 'ghi', 'Gorai.005G241800' => 'gra', 'Gorai.005G241900' => 'gra', 'Gorai.006G239400' => 'gra', 'Gorai.008G027600' => 'gra', 'Gorai.009G085400' => 'gra', 'Gorai.009G085500' => 'gra', 'Gorai.013G039000' => 'gra', 'Gorai.013G194800' => 'gra', 'Gorai.013G257900' => 'gra', 'GSVIVG01000982001' => 'vvi', 'GSVIVG01017981001' => 'vvi', 'HanXRQChr01g0024061' => 'han', 'HanXRQChr09g0247831' => 'han', 'HanXRQChr10g0294611' => 'han', 'HanXRQChr10g0294621' => 'han', 'HanXRQChr11g0346821' => 'han', 'HanXRQChr13g0397461' => 'han', 'HanXRQChr16g0513651' => 'han', 'HanXRQChr16g0513701' => 'han', 'Haze_00897' => 'cav', 'Haze_01745' => 'cav', 'Haze_02486' => 'cav', 'Haze_02487' => 'cav', 'Haze_23374' => 'cav', 'Hma1.2p1_0578F.1_g182520' => 'hma', 'Hma1.2p1_0602F.1_g187350' => 'hma', 'Hma1.2p1_0602F.1_g187360' => 'hma', 'Hma1.2p1_0874F.1_g231320' => 'hma', 'Hma1.2p1_1197F.1_g266210' => 'hma', 'Hma1.2p1_1197F.1_g266220' => 'hma', 'Hma1.2p1_2167F.1_g315895' => 'hma', 'Hma1.2p1_2190F.1_g316640' => 'hma', 'Hma1.2p1_3645F.1_g337153' => 'hma', 'HPP92_004907' => 'vpl', 'HPP92_012134' => 'vpl', 'HPP92_025136' => 'vpl', 'HPP92_026087' => 'vpl', 'Hund06782' => 'sun', 'Hund06784' => 'sun', 'Lalb_Chr01g0004861' => 'lal', 'Lalb_Chr02g0140591' => 'lal', 'Lalb_Chr02g0140611' => 'lal', 'Lalb_Chr03g0028101' => 'lal', 'Lalb_Chr07g0185791' => 'lal', 'Lalb_Chr12g0204491' => 'lal', 'Lalb_Chr13g0295671' => 'lal', 'Lalb_Chr19g0136461' => 'lal', 'Lalb_Chr21g0309191' => 'lal', 'Lj1g0028158' => 'lja', 'Lj1P236T38' => 'lonja', 'Lj2C32G2' => 'lonja', 'Lj2P944T8' => 'lonja', 'Lj2P963T15' => 'lonja', 'Lj3g0011788' => 'lja', 'Lj4g0025027' => 'lja', 'Lj5P255T36' => 'lonja', 'Lj6g0018866' => 'lja', 'Lj6P608T31' => 'lonja', 'LjContig00408g0008879' => 'lja', 'Lsat_1_v5_gn_5_105820' => 'lsa', 'Lsat_1_v5_gn_6_38800' => 'lsa', 'Lsat_1_v5_gn_7_67141' => 'lsa', 'Manes.04G003400' => 'mes', 'Manes.07G020000' => 'mes', 'Manes.07G020100' => 'mes', 'Manes.07G020150' => 'mes', 'Manes.10G061500' => 'mes', 'Manes.10G123200' => 'mes', 'Manes.11G161900' => 'mes', 'Manes.15G029300' => 'mes', 'Mapoly0071s0018' => 'mpo', 'Mapoly0082s0023' => 'mpo', 'Mapoly3477s0001' => 'mpo', 'MBI05_g31233_MAGBIO' => 'mbi', 'MBI09_g05946_MAGBIO' => 'mbi', 'MBI09_g05947_MAGBIO' => 'mbi', 'MBI17_g08346_MAGBIO' => 'mbi', 'MCO04G038' => 'mco', 'MCO09G370' => 'mco', 'MCO13G605' => 'mco', 'MD00G1075500' => 'mdo', 'MD03G1144300' => 'mdo', 'MD08G1236800' => 'mdo', 'MD13G1193300' => 'mdo', 'MD15G1428700' => 'mdo', 'Medtr1g112030' => 'mtr', 'Medtr1g112050' => 'mtr', 'Medtr2g006290' => 'mtr', 'Medtr2g086510' => 'mtr', 'Medtr4g053120' => 'mtr', 'Medtr5g006320' => 'mtr', 'Medtr8g088720' => 'mtr', 'MELO3C004712.2' => 'cme', 'MELO3C006533.2' => 'cme', 'MELO3C019438.2' => 'cme', 'MELO3C019440.2' => 'cme', 'MELO3C019441.2' => 'cme', 'MELO3C019895.2' => 'cme', 'Migut.B00811' => 'egut', 'Migut.D02447' => 'egut', 'Migut.F00875' => 'egut', 'Migut.N00186' => 'egut', 'Migut.N01051' => 'egut', 'Migut.N02491' => 'egut', 'Migut.O00784' => 'egut', 'MSTRG.12367' => 'ama', 'MSTRG.18756' => 'ama', 'MSTRG.21042' => 'ama', 'Nitab4.5_0000559g0040' => 'nta', 'Nitab4.5_0000667g0190' => 'nta', 'Nitab4.5_0000755g0160' => 'nta', 'Nitab4.5_0001216g0080' => 'nta', 'Nitab4.5_0004069g0040' => 'nta', 'Nitab4.5_0004129g0010' => 'nta', 'Nitab4.5_0005744g0030' => 'nta', 'Nitab4.5_0006996g0030' => 'nta', 'Nitab4.5_0008971g0040' => 'nta', 'Nitab4.5_0009769g0020' => 'nta', 'Nitab4.5_0009833g0010' => 'nta', 'Nitab4.5_0013140g0020' => 'nta', 'Nn003s41376' => 'nnu', 'Nn1g01857' => 'nnu', 'Nn1g03611' => 'nnu', 'Nn1g06853' => 'nnu', 'Nn3g18360' => 'nnu', 'Nn4g26328' => 'nnu', 'Nn5g27531' => 'nnu', 'Nn6g34899' => 'nnu', 'Nn7g36299' => 'nnu', 'Oeu021485.1' => 'oeu', 'Oeu022433.1' => 'oeu', 'Oeu032111.1' => 'oeu', 'Oeu051608.1' => 'oeu', 'Os01g0860601' => 'osa', 'Os03g0659200' => 'osa', 'Os03g0835900' => 'osa', 'Os04g0412200' => 'osa', 'Os05g0443500' => 'osa', 'Os07g0251500' => 'osa', 'Os08g0104600' => 'osa', 'Peaxi162Scf00003g00047' => 'pax', 'Peaxi162Scf00003g00052' => 'pax', 'Peaxi162Scf00003g00394' => 'pax', 'Peaxi162Scf00091g00621' => 'pax', 'Peaxi162Scf00152g00146' => 'pax', 'Peaxi162Scf00173g00025' => 'pax', 'Peaxi162Scf00195g00102' => 'pax', 'Peaxi162Scf00402g00013' => 'pax', 'Peaxi162Scf00519g00618' => 'pax', 'PGR004G2838' => 'pgr', 'PGR044G2275' => 'pgr', 'PGR102G1377' => 'pgr', 'PGR119G1245' => 'pgr', 'PGR142G4449' => 'pgr', 'PGSC0003DMG400004532' => 'stu', 'PGSC0003DMG400011950' => 'stu', 'PGSC0003DMG400023391' => 'stu', 'PGSC0003DMG400023985' => 'stu', 'PGSC0003DMG400026360' => 'stu', 'PGSC0003DMG400035711' => 'stu', 'PGSC0003DMG400037286' => 'stu', 'PGSC0003DMG402005881' => 'stu', 'Phvul.002G045400' => 'pvu', 'Phvul.006G216600' => 'pvu', 'Phvul.006G216700' => 'pvu', 'Phvul.006G216800' => 'pvu', 'Phvul.007G022500' => 'pvu', 'Phvul.011G094400' => 'pvu', 'Potri.001G470700' => 'ptr', 'Potri.003G015200' => 'ptr', 'Potri.004G202500' => 'ptr', 'Potri.004G218400' => 'ptr', 'Potri.008G020100' => 'ptr', 'Potri.008G153200' => 'ptr', 'Potri.009G163800' => 'ptr', 'Potri.010G087300' => 'ptr', 'Potri.010G239100' => 'ptr', 'Pp3c10_16100' => 'ppa', 'Pp3c10_16880' => 'ppa', 'Pp3c16_6230' => 'ppa', 'Pp3c17_18910' => 'ppa', 'Pp3c3_22119' => 'ppa', 'Pp3c3_22140' => 'ppa', 'Pp3c4_8159' => 'ppa', 'Pp3c4_8171' => 'ppa', 'Pp3c4_8330' => 'ppa', 'PRCOL_00004098' => 'pco', 'Prupe.1G013900' => 'ppe', 'Prupe.1G226300' => 'ppe', 'Prupe.1G573600' => 'ppe', 'Prupe.6G130100' => 'ppe', 'Psat3g090040' => 'psa', 'Psat4g210440' => 'psa', 'Psat6g231040' => 'psa', 'Psat6g231080' => 'psa', 'Psat7g063000' => 'psa', 'Psat7g188000' => 'psa', 'Psat7g188040' => 'psa', 'PSO017G0206' => 'pso', 'PSO170G0501' => 'pso', 'PSO170G6422' => 'pso', 'PSO210G7739' => 'pso', 'PSO339G1808' => 'pso', 'PSO339G6135' => 'pso', 'PSO384G0010' => 'pso', 'PSO384G0964' => 'pso', 'PSO761G0050' => 'pso', 'PSO782G4085' => 'pso', 'QL01p012264' => 'qlo', 'QL02p099491' => 'qlo', 'QL03p033868' => 'qlo', 'QL04p046678' => 'qlo', 'QL06p002448' => 'qlo', 'RcHm_v2.0_Chr4g0416181' => 'rch', 'RcHm_v2.0_Chr5g0044701' => 'rch', 'RcHm_v2.0_Chr6g0265781' => 'rch', 'RcHm_v2.0_Chr7g0221031' => 'rch', 'Rhsim04G0202000' => 'rsi', 'Rhsim11G0127300' => 'rsi', 'Rhsim13G0111800' => 'rsi', 'Sabra01G0165600' => 'sbr', 'Sabra03G0008300' => 'sbr', 'Sabra04G0136900' => 'sbr', 'Sabra08G0013400' => 'sbr', 'Sabra08G0116800' => 'sbr', 'Sabra09G0128000' => 'sbr', 'Sabra10G0055500' => 'sbr', 'Sabra10G0073300' => 'sbr', 'SalBow3G0385' => 'sbo', 'SalBow3G1119' => 'sbo', 'SalBow3G2005' => 'sbo', 'SalBow6G2563' => 'sbo', 'SalBow6G6386' => 'sbo', 'Sc06g0008800' => 'sci', 'Sc07g0004950' => 'sci', 'Sc09g0005340' => 'sci', 'Sc13g0004410' => 'sci', 'Sc21g0007090' => 'sci', 'Sed0009285' => 'sed', 'Sed0017583' => 'sed', 'Sed0019699' => 'sed', 'Sed0023107' => 'sed', 'SEGI_10916' => 'sgi', 'SEGI_16217' => 'sgi', 'SEGI_19466' => 'sgi', 'SEGI_41115' => 'sgi', 'SGA_v2.0_scaffold111G31534' => 'sas', 'SGA_v2.0_scaffold22G09864' => 'sas', 'SGA_v2.0_scaffold338G49219' => 'sas', 'SGA_v2.0_scaffold92G28298' => 'sas', 'SMO119G0064' => 'smo', 'SMO223G0038' => 'smo', 'SMO347G0584' => 'smo', 'SMO351G0010' => 'smo', 'SMO356G0404' => 'smo', 'Solyc01g103920.3' => 'sly', 'Solyc04g009710.2' => 'sly', 'Solyc05g055280.2' => 'sly', 'Solyc10g044520.3' => 'sly', 'Solyc10g075160.1' => 'sly', 'Solyc11g006910.3' => 'sly', 'Solyc11g068430.3' => 'sly', 'Sopen01g046310' => 'spe', 'Sopen03g001200' => 'spe', 'Sopen04g004830' => 'spe', 'Sopen05g033720' => 'spe', 'Sopen06g030740' => 'spe', 'Sopen10g013090' => 'spe', 'Sopen10g027630' => 'spe', 'Sopen10g027640' => 'spe', 'Sopen11g002820' => 'spe', 'Sopen11g027140' => 'spe', 'Sp1g09680' => 'spa', 'Sp2g03630' => 'spa', 'Sp4g10320' => 'spa', 'Sp6g33400' => 'spa', 'Sp7g13030' => 'spa', 'TAR365G0317' => 'tar', 'TAR376G0979' => 'tar', 'TAR623G1665' => 'tar', 'TAR633G2373' => 'tar', 'TAR636G1400' => 'tar', 'THA.LOC104800529' => 'tha', 'THA.LOC104808547' => 'tha', 'THA.LOC104809615' => 'tha', 'THA.LOC104815724' => 'tha', 'THA.LOC104818480' => 'tha', 'THA.LOC104819179' => 'tha', 'THA.LOC104822270' => 'tha', 'THA.LOC104826425' => 'tha', 'Thecc.02G089700' => 'tca', 'Thecc.04G232300' => 'tca', 'Thecc.09G283400' => 'tca', 'Thhalv10009020m.g' => 'esa', 'Thhalv10015506m.g' => 'esa', 'Thhalv10017364m.g' => 'esa', 'Thhalv10023742m.g' => 'esa', 'Thhalv10026483m.g' => 'esa', 'TPR.G17232' => 'tpr', 'TPR.G2133' => 'tpr', 'TPR.G2498' => 'tpr', 'TPR.G31942' => 'tpr', 'TPR.G37877' => 'tpr', 'TPR.G4571' => 'tpr', 'TWI14G1113' => 'twi', 'TWI15G0426' => 'twi', 'TWI31G1005' => 'twi', 'TWI38G0513' => 'twi', 'TWI38G1484' => 'twi', 'TWI73G1098' => 'twi', 'unitig_26.g10519' => 'ugi', 'unitig_736.g22395' => 'ugi', 'unitig_747.g21234' => 'ugi', 'unitig_747.g21942' => 'ugi', 'vmacro14351' => 'vma', 'VMungo0540G0082' => 'vmu', 'VMungo0540G0405' => 'vmu', 'VMungo0540G1486' => 'vmu', 'VMungo0540G1692' => 'vmu', 'VMungo0720G2473' => 'vmu', 'VMungo1127G1562' => 'vmu', 'VMungo1215G1918' => 'vmu', 'Zm00001eb052650' => 'zma', 'Zm00001eb063710' => 'zma', 'Zm00001eb083950' => 'zma', 'Zm00001eb174420' => 'zma', 'Zm00001eb260140' => 'zma', 'Zm00001eb260150' => 'zma', 'Zm00001eb260160' => 'zma', 'Zm00001eb348290' => 'zma', 'Zm00001eb366870' => 'zma', 'Zm00001eb421930' => 'zma' ) $gf_id = 'HOM05D001025' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001025' ) $data_identifier = 'HOM05D001025' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 19, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 2, 'amhyb' => (int) 4, 'aly' => (int) 4, 'aox' => (int) 4, 'arhy' => (int) 3, 'ath' => (int) 5, 'atr' => (int) 4, 'acertr' => (int) 3, 'cqu' => (int) 7, 'bca' => (int) 17, 'bol' => (int) 10, 'bra' => (int) 9, 'can' => (int) 10, 'cansat' => (int) 6, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 5, 'cbr' => (int) 5, 'ccan' => (int) 5, 'cde' => (int) 4, 'cfa' => (int) 3, 'ccl' => (int) 6, 'cil' => (int) 4, 'cla' => (int) 3, 'col' => (int) 3, 'cpa' => (int) 3, 'cre' => (int) 7, 'csa' => (int) 5, 'camsi' => (int) 9, 'dca' => (int) 4, 'din' => (int) 5, 'dzi' => (int) 7, 'eca' => (int) 6, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 12, 'fve' => (int) 4, 'gma' => (int) 12, 'ghi' => (int) 17, 'gra' => (int) 9, 'vvi' => (int) 2, 'han' => (int) 8, 'cav' => (int) 5, 'hma' => (int) 9, 'vpl' => (int) 4, 'sun' => (int) 2, 'lal' => (int) 9, 'lja' => (int) 5, 'lonja' => (int) 6, 'lsa' => (int) 3, 'mes' => (int) 8, 'mpo' => (int) 3, 'mbi' => (int) 4, 'mco' => (int) 3, 'mdo' => (int) 5, 'mtr' => (int) 7, 'cme' => (int) 6, 'egut' => (int) 7, 'ama' => (int) 3, 'nta' => (int) 12, 'nnu' => (int) 9, 'oeu' => (int) 4, 'osa' => (int) 7, 'pax' => (int) 9, 'pgr' => (int) 5, 'stu' => (int) 8, 'pvu' => (int) 6, 'ptr' => (int) 9, 'ppa' => (int) 9, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 7, 'pso' => (int) 10, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 3, 'sbr' => (int) 8, 'sbo' => (int) 5, 'sci' => (int) 5, 'sed' => (int) 4, 'sgi' => (int) 4, 'sas' => (int) 4, 'smo' => (int) 5, 'sly' => (int) 7, 'spe' => (int) 10, 'spa' => (int) 5, 'tar' => (int) 5, 'tha' => (int) 8, 'tca' => (int) 3, 'esa' => (int) 5, 'tpr' => (int) 6, 'twi' => (int) 6, 'ugi' => (int) 4, 'vma' => (int) 1, 'vmu' => (int) 7, 'zma' => (int) 10 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb421930' $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' => 'HOM05D001025', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '592', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p22650' => 'bna', 'A01p29720' => 'bna', 'A03p26560' => 'bna', 'A03p68820' => 'bna', 'A04p20980' => 'bna', 'A06p07730' => 'bna', 'A07p18260' => 'bna', 'A08p33710' => 'bna', 'A09p16970' => 'bna', 'A10p27490' => 'bna', 'Aa31LG1G17300' => 'aar', 'Aa31LG1G3910' => 'aar', 'Aa31LG2G9630' => 'aar', 'Aa31LG5G8360' => 'aar', 'Aa31LG9G2410' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4699' => 'aag', 'Actinidia23512' => 'ach', 'Actinidia37080' => 'ach', 'Ah.01g020380' => 'amhyb', 'Ah.08g215710' => 'amhyb', 'Ah.09g225110' => 'amhyb', 'Ah.10g036680' => 'amhyb', 'AL1G21940' => 'aly', 'AL2G15540' => 'aly', 'AL4G21520' => 'aly', 'AL7G40960' => 'aly', 'Aqoxy2G01191' => 'aox', 'Aqoxy2G03393' => 'aox', 'Aqoxy4G02775' => 'aox', 'Aqoxy6G00058' => 'aox', 'arahy.Tifrunner.gnm1.ann1.9X74H2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CW3FX9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R485W7' => 'arhy', 'AT1G10960' => 'ath', 'AT1G60950' => 'ath', 'AT2G27510' => 'ath', 'AT4G14890' => 'ath', 'AT5G10000' => 'ath', 'ATR0665G624' => 'atr', 'ATR0697G138' => 'atr', 'ATR0776G046' => 'atr', 'ATR1134G135' => 'atr', 'Atru.chr12.1025' => 'acertr', 'Atru.chr3.3241' => 'acertr', 'Atru.chr4.2460' => 'acertr', 'AUR62007427' => 'cqu', 'AUR62010960' => 'cqu', 'AUR62012201' => 'cqu', 'AUR62021470' => 'cqu', 'AUR62022834' => 'cqu', 'AUR62033635' => 'cqu', 'AUR62036186' => 'cqu', 'BcaB01g03077' => 'bca', 'BcaB02g10093' => 'bca', 'BcaB04g20295' => 'bca', 'BcaB06g28147' => 'bca', 'BcaB07g31253' => 'bca', 'BcaC01g04946' => 'bca', 'BcaC02g10614' => 'bca', 'BcaC02g10885' => 'bca', 'BcaC04g19356' => 'bca', 'BcaC04g22297' => 'bca', 'BcaC05g24977' => 'bca', 'BcaC06g31823' => 'bca', 'BcaC07g38633' => 'bca', 'BcaC09g49353' => 'bca', 'BcaC09g50168' => 'bca', 'BcaNung00322' => 'bca', 'BcaNung04769' => 'bca', 'BolC1t02753H' => 'bol', 'BolC1t03721H' => 'bol', 'BolC3t15525H' => 'bol', 'BolC4t23903H' => 'bol', 'BolC4t24231H' => 'bol', 'BolC4t27209H' => 'bol', 'BolC5t29671H' => 'bol', 'BolC8t49044H' => 'bol', 'BolC9t54999H' => 'bol', 'BolC9t59517H' => 'bol', 'BraA01t02178Z' => 'bra', 'BraA01t03099Z' => 'bra', 'BraA03t11867Z' => 'bra', 'BraA04t17667Z' => 'bra', 'BraA07t29542Z' => 'bra', 'BraA08t35287Z' => 'bra', 'BraA09t37334Z' => 'bra', 'BraA10t44801Z' => 'bra', 'BraSC39t46181Z' => 'bra', 'C01p28240' => 'bna', 'C01p37530' => 'bna', 'C03p31820' => 'bna', 'C04p24080' => 'bna', 'C04p25790' => 'bna', 'C04p56770' => 'bna', 'C05p09310' => 'bna', 'C09p21010' => 'bna', 'C09p67560' => 'bna', 'CAN.G1324.7' => 'can', 'CAN.G1358.10' => 'can', 'CAN.G1550.2' => 'can', 'CAN.G186.56' => 'can', 'CAN.G1965.1' => 'can', 'CAN.G645.15' => 'can', 'CAN.G798.26' => 'can', 'CAN.G798.27' => 'can', 'CAN.G798.29' => 'can', 'CAN.G919.31' => 'can', 'CANSAT11G0133' => 'cansat', 'CANSAT11G1171' => 'cansat', 'CANSAT11G2056' => 'cansat', 'CANSAT56G1202' => 'cansat', 'CANSAT56G1514' => 'cansat', 'CANSAT78G0455' => 'cansat', 'CARHR011190' => 'chi', 'CARHR051980' => 'chi', 'CARHR120170' => 'chi', 'CARHR203310' => 'chi', 'CARHR221490' => 'chi', 'Carub.0001s1054' => 'cru', 'Carub.0002s0431' => 'cru', 'Carub.0004s0818' => 'cru', 'Carub.0006s0846' => 'cru', 'Carub.0007s2722' => 'cru', 'Ca_00058_v3' => 'car', 'Ca_17831_v3' => 'car', 'Ca_19408_v3' => 'car', 'Ca_24397_v3' => 'car', 'Ca_25664_v3' => 'car', 'CBR_g21818' => 'cbr', 'CBR_g31195' => 'cbr', 'CBR_g32282' => 'cbr', 'CBR_g39599' => 'cbr', 'CBR_g49410' => 'cbr', 'Cc01_g09120' => 'ccan', 'Cc01_g09130' => 'ccan', 'Cc02_g09630' => 'ccan', 'Cc02_g22810' => 'ccan', 'Cc03_g03810' => 'ccan', 'CDE02G3718' => 'cde', 'CDE04G3183' => 'cde', 'CDE07G1046' => 'cde', 'CDE08G0480' => 'cde', 'Cfa005493' => 'cfa', 'Cfa010312' => 'cfa', 'Cfa015648' => 'cfa', 'Ciclev10002793m.g' => 'ccl', 'Ciclev10003356m.g' => 'ccl', 'Ciclev10006141m.g' => 'ccl', 'Ciclev10016676m.g' => 'ccl', 'Ciclev10017081m.g' => 'ccl', 'Ciclev10029499m.g' => 'ccl', 'CiPaw.01G166300' => 'cil', 'CiPaw.06G145600' => 'cil', 'CiPaw.13G040100' => 'cil', 'CiPaw.13G135800' => 'cil', 'ClCG01G012230' => 'cla', 'ClCG05G009510' => 'cla', 'ClCG08G008270' => 'cla', 'COL.COLO4_11763' => 'col', 'COL.COLO4_19876' => 'col', 'COL.COLO4_21481' => 'col', 'Cpa.g.sc118.34' => 'cpa', 'Cpa.g.sc32.13' => 'cpa', 'Cpa.g.sc58.103' => 'cpa', 'Cre03.g183850' => 'cre', 'Cre06.g306350' => 'cre', 'Cre07.g334800' => 'cre', 'Cre12.g487900' => 'cre', 'Cre14.g626700' => 'cre', 'Cre16.g658400' => 'cre', 'Cre17.g700950' => 'cre', 'CsaV3_1G014830' => 'csa', 'CsaV3_3G013320' => 'csa', 'CsaV3_3G019210' => 'csa', 'CsaV3_3G019220' => 'csa', 'CsaV3_6G004230' => 'csa', 'CSS0003773' => 'camsi', 'CSS0004563' => 'camsi', 'CSS0013949' => 'camsi', 'CSS0025971' => 'camsi', 'CSS0028570' => 'camsi', 'CSS0033127' => 'camsi', 'CSS0036051' => 'camsi', 'CSS0040087' => 'camsi', 'CSS0043179' => 'camsi', 'DCAR_006161' => 'dca', 'DCAR_010351' => 'dca', 'DCAR_012197' => 'dca', 'DCAR_024162' => 'dca', 'Dinv01030' => 'din', 'Dinv10924' => 'din', 'Dinv11835' => 'din', 'Dinv22841' => 'din', 'Dinv42553' => 'din', 'Duzib052G0560' => 'dzi', 'Duzib132G0389' => 'dzi', 'Duzib150G1181' => 'dzi', 'Duzib168G0623' => 'dzi', 'Duzib170G1036' => 'dzi', 'Duzib212G0200' => 'dzi', 'Duzib248G0194' => 'dzi', 'ECA232G2193' => 'eca', 'ECA233G0302' => 'eca', 'ECA234G2813' => 'eca', 'ECA234G4866' => 'eca', 'ECA240G3932' => 'eca', 'ECA248G0385' => 'eca', 'EL10Ac2g04781' => 'bvu', 'EL10Ac3g06445' => 'bvu', 'EL10Ac7g15825' => 'bvu', 'EL10Ac8g18550' => 'bvu', 'Eucgr.B03849' => 'egr', 'Eucgr.I02744' => 'egr', 'Eucgr.J00264' => 'egr', 'Eucgr.J00493' => 'egr', 'FAN04G2181' => 'fan', 'FAN07G2666' => 'fan', 'FAN11G0024' => 'fan', 'FAN12G1105' => 'fan', 'FAN13G0302' => 'fan', 'FAN15G2781' => 'fan', 'FAN16G1274' => 'fan', 'FAN17G2988' => 'fan', 'FAN18G2621' => 'fan', 'FAN21G0013' => 'fan', 'FAN22G1211' => 'fan', 'FAN25G3626' => 'fan', 'FvH4_2g09491' => 'fve', 'FvH4_3g24910' => 'fve', 'FvH4_4g15630' => 'fve', 'FvH4_5g28820' => 'fve', 'Glyma.01G238000' => 'gma', 'Glyma.05G168400' => 'gma', 'Glyma.08G126800' => 'gma', 'Glyma.08G188500' => 'gma', 'Glyma.10G278900' => 'gma', 'Glyma.11G005700' => 'gma', 'Glyma.11G183300' => 'gma', 'Glyma.12G089200' => 'gma', 'Glyma.12G169400' => 'gma', 'Glyma.12G169500' => 'gma', 'Glyma.12G169600' => 'gma', 'Glyma.20G110800' => 'gma', 'Gohir.A03G192900' => 'ghi', 'Gohir.A03G193000' => 'ghi', 'Gohir.A05G080700' => 'ghi', 'Gohir.A09G216000' => 'ghi', 'Gohir.A12G027700' => 'ghi', 'Gohir.A13G036200' => 'ghi', 'Gohir.A13G222600' => 'ghi', 'Gohir.D02G213900' => 'ghi', 'Gohir.D02G214000' => 'ghi', 'Gohir.D05G083700' => 'ghi', 'Gohir.D05G083800' => 'ghi', 'Gohir.D05G083850' => 'ghi', 'Gohir.D08G015400' => 'ghi', 'Gohir.D09G218400' => 'ghi', 'Gohir.D12G027100' => 'ghi', 'Gohir.D13G034500' => 'ghi', 'Gohir.D13G227400' => 'ghi', 'Gorai.005G241800' => 'gra', 'Gorai.005G241900' => 'gra', 'Gorai.006G239400' => 'gra', 'Gorai.008G027600' => 'gra', 'Gorai.009G085400' => 'gra', 'Gorai.009G085500' => 'gra', 'Gorai.013G039000' => 'gra', 'Gorai.013G194800' => 'gra', 'Gorai.013G257900' => 'gra', 'GSVIVG01000982001' => 'vvi', 'GSVIVG01017981001' => 'vvi', 'HanXRQChr01g0024061' => 'han', 'HanXRQChr09g0247831' => 'han', 'HanXRQChr10g0294611' => 'han', 'HanXRQChr10g0294621' => 'han', 'HanXRQChr11g0346821' => 'han', 'HanXRQChr13g0397461' => 'han', 'HanXRQChr16g0513651' => 'han', 'HanXRQChr16g0513701' => 'han', 'Haze_00897' => 'cav', 'Haze_01745' => 'cav', 'Haze_02486' => 'cav', 'Haze_02487' => 'cav', 'Haze_23374' => 'cav', 'Hma1.2p1_0578F.1_g182520' => 'hma', 'Hma1.2p1_0602F.1_g187350' => 'hma', 'Hma1.2p1_0602F.1_g187360' => 'hma', 'Hma1.2p1_0874F.1_g231320' => 'hma', 'Hma1.2p1_1197F.1_g266210' => 'hma', 'Hma1.2p1_1197F.1_g266220' => 'hma', 'Hma1.2p1_2167F.1_g315895' => 'hma', 'Hma1.2p1_2190F.1_g316640' => 'hma', 'Hma1.2p1_3645F.1_g337153' => 'hma', 'HPP92_004907' => 'vpl', 'HPP92_012134' => 'vpl', 'HPP92_025136' => 'vpl', 'HPP92_026087' => 'vpl', 'Hund06782' => 'sun', 'Hund06784' => 'sun', 'Lalb_Chr01g0004861' => 'lal', 'Lalb_Chr02g0140591' => 'lal', 'Lalb_Chr02g0140611' => 'lal', 'Lalb_Chr03g0028101' => 'lal', 'Lalb_Chr07g0185791' => 'lal', 'Lalb_Chr12g0204491' => 'lal', 'Lalb_Chr13g0295671' => 'lal', 'Lalb_Chr19g0136461' => 'lal', 'Lalb_Chr21g0309191' => 'lal', 'Lj1g0028158' => 'lja', 'Lj1P236T38' => 'lonja', 'Lj2C32G2' => 'lonja', 'Lj2P944T8' => 'lonja', 'Lj2P963T15' => 'lonja', 'Lj3g0011788' => 'lja', 'Lj4g0025027' => 'lja', 'Lj5P255T36' => 'lonja', 'Lj6g0018866' => 'lja', 'Lj6P608T31' => 'lonja', 'LjContig00408g0008879' => 'lja', 'Lsat_1_v5_gn_5_105820' => 'lsa', 'Lsat_1_v5_gn_6_38800' => 'lsa', 'Lsat_1_v5_gn_7_67141' => 'lsa', 'Manes.04G003400' => 'mes', 'Manes.07G020000' => 'mes', 'Manes.07G020100' => 'mes', 'Manes.07G020150' => 'mes', 'Manes.10G061500' => 'mes', 'Manes.10G123200' => 'mes', 'Manes.11G161900' => 'mes', 'Manes.15G029300' => 'mes', 'Mapoly0071s0018' => 'mpo', 'Mapoly0082s0023' => 'mpo', 'Mapoly3477s0001' => 'mpo', 'MBI05_g31233_MAGBIO' => 'mbi', 'MBI09_g05946_MAGBIO' => 'mbi', 'MBI09_g05947_MAGBIO' => 'mbi', 'MBI17_g08346_MAGBIO' => 'mbi', 'MCO04G038' => 'mco', 'MCO09G370' => 'mco', 'MCO13G605' => 'mco', 'MD00G1075500' => 'mdo', 'MD03G1144300' => 'mdo', 'MD08G1236800' => 'mdo', 'MD13G1193300' => 'mdo', 'MD15G1428700' => 'mdo', 'Medtr1g112030' => 'mtr', 'Medtr1g112050' => 'mtr', 'Medtr2g006290' => 'mtr', 'Medtr2g086510' => 'mtr', 'Medtr4g053120' => 'mtr', 'Medtr5g006320' => 'mtr', 'Medtr8g088720' => 'mtr', 'MELO3C004712.2' => 'cme', 'MELO3C006533.2' => 'cme', 'MELO3C019438.2' => 'cme', 'MELO3C019440.2' => 'cme', 'MELO3C019441.2' => 'cme', 'MELO3C019895.2' => 'cme', 'Migut.B00811' => 'egut', 'Migut.D02447' => 'egut', 'Migut.F00875' => 'egut', 'Migut.N00186' => 'egut', 'Migut.N01051' => 'egut', 'Migut.N02491' => 'egut', 'Migut.O00784' => 'egut', 'MSTRG.12367' => 'ama', 'MSTRG.18756' => 'ama', 'MSTRG.21042' => 'ama', 'Nitab4.5_0000559g0040' => 'nta', 'Nitab4.5_0000667g0190' => 'nta', 'Nitab4.5_0000755g0160' => 'nta', 'Nitab4.5_0001216g0080' => 'nta', 'Nitab4.5_0004069g0040' => 'nta', 'Nitab4.5_0004129g0010' => 'nta', 'Nitab4.5_0005744g0030' => 'nta', 'Nitab4.5_0006996g0030' => 'nta', 'Nitab4.5_0008971g0040' => 'nta', 'Nitab4.5_0009769g0020' => 'nta', 'Nitab4.5_0009833g0010' => 'nta', 'Nitab4.5_0013140g0020' => 'nta', 'Nn003s41376' => 'nnu', 'Nn1g01857' => 'nnu', 'Nn1g03611' => 'nnu', 'Nn1g06853' => 'nnu', 'Nn3g18360' => 'nnu', 'Nn4g26328' => 'nnu', 'Nn5g27531' => 'nnu', 'Nn6g34899' => 'nnu', 'Nn7g36299' => 'nnu', 'Oeu021485.1' => 'oeu', 'Oeu022433.1' => 'oeu', 'Oeu032111.1' => 'oeu', 'Oeu051608.1' => 'oeu', 'Os01g0860601' => 'osa', 'Os03g0659200' => 'osa', 'Os03g0835900' => 'osa', 'Os04g0412200' => 'osa', 'Os05g0443500' => 'osa', 'Os07g0251500' => 'osa', 'Os08g0104600' => 'osa', 'Peaxi162Scf00003g00047' => 'pax', 'Peaxi162Scf00003g00052' => 'pax', 'Peaxi162Scf00003g00394' => 'pax', 'Peaxi162Scf00091g00621' => 'pax', 'Peaxi162Scf00152g00146' => 'pax', 'Peaxi162Scf00173g00025' => 'pax', 'Peaxi162Scf00195g00102' => 'pax', 'Peaxi162Scf00402g00013' => 'pax', 'Peaxi162Scf00519g00618' => 'pax', 'PGR004G2838' => 'pgr', 'PGR044G2275' => 'pgr', 'PGR102G1377' => 'pgr', 'PGR119G1245' => 'pgr', 'PGR142G4449' => 'pgr', 'PGSC0003DMG400004532' => 'stu', 'PGSC0003DMG400011950' => 'stu', 'PGSC0003DMG400023391' => 'stu', 'PGSC0003DMG400023985' => 'stu', 'PGSC0003DMG400026360' => 'stu', 'PGSC0003DMG400035711' => 'stu', 'PGSC0003DMG400037286' => 'stu', 'PGSC0003DMG402005881' => 'stu', 'Phvul.002G045400' => 'pvu', 'Phvul.006G216600' => 'pvu', 'Phvul.006G216700' => 'pvu', 'Phvul.006G216800' => 'pvu', 'Phvul.007G022500' => 'pvu', 'Phvul.011G094400' => 'pvu', 'Potri.001G470700' => 'ptr', 'Potri.003G015200' => 'ptr', 'Potri.004G202500' => 'ptr', 'Potri.004G218400' => 'ptr', 'Potri.008G020100' => 'ptr', 'Potri.008G153200' => 'ptr', 'Potri.009G163800' => 'ptr', 'Potri.010G087300' => 'ptr', 'Potri.010G239100' => 'ptr', 'Pp3c10_16100' => 'ppa', 'Pp3c10_16880' => 'ppa', 'Pp3c16_6230' => 'ppa', 'Pp3c17_18910' => 'ppa', 'Pp3c3_22119' => 'ppa', 'Pp3c3_22140' => 'ppa', 'Pp3c4_8159' => 'ppa', 'Pp3c4_8171' => 'ppa', 'Pp3c4_8330' => 'ppa', 'PRCOL_00004098' => 'pco', 'Prupe.1G013900' => 'ppe', 'Prupe.1G226300' => 'ppe', 'Prupe.1G573600' => 'ppe', 'Prupe.6G130100' => 'ppe', 'Psat3g090040' => 'psa', 'Psat4g210440' => 'psa', 'Psat6g231040' => 'psa', 'Psat6g231080' => 'psa', 'Psat7g063000' => 'psa', 'Psat7g188000' => 'psa', 'Psat7g188040' => 'psa', 'PSO017G0206' => 'pso', 'PSO170G0501' => 'pso', 'PSO170G6422' => 'pso', 'PSO210G7739' => 'pso', 'PSO339G1808' => 'pso', 'PSO339G6135' => 'pso', 'PSO384G0010' => 'pso', 'PSO384G0964' => 'pso', 'PSO761G0050' => 'pso', 'PSO782G4085' => 'pso', 'QL01p012264' => 'qlo', 'QL02p099491' => 'qlo', 'QL03p033868' => 'qlo', 'QL04p046678' => 'qlo', 'QL06p002448' => 'qlo', 'RcHm_v2.0_Chr4g0416181' => 'rch', 'RcHm_v2.0_Chr5g0044701' => 'rch', 'RcHm_v2.0_Chr6g0265781' => 'rch', 'RcHm_v2.0_Chr7g0221031' => 'rch', 'Rhsim04G0202000' => 'rsi', 'Rhsim11G0127300' => 'rsi', 'Rhsim13G0111800' => 'rsi', 'Sabra01G0165600' => 'sbr', 'Sabra03G0008300' => 'sbr', 'Sabra04G0136900' => 'sbr', 'Sabra08G0013400' => 'sbr', 'Sabra08G0116800' => 'sbr', 'Sabra09G0128000' => 'sbr', 'Sabra10G0055500' => 'sbr', 'Sabra10G0073300' => 'sbr', 'SalBow3G0385' => 'sbo', 'SalBow3G1119' => 'sbo', 'SalBow3G2005' => 'sbo', 'SalBow6G2563' => 'sbo', 'SalBow6G6386' => 'sbo', 'Sc06g0008800' => 'sci', 'Sc07g0004950' => 'sci', 'Sc09g0005340' => 'sci', 'Sc13g0004410' => 'sci', 'Sc21g0007090' => 'sci', 'Sed0009285' => 'sed', 'Sed0017583' => 'sed', 'Sed0019699' => 'sed', 'Sed0023107' => 'sed', 'SEGI_10916' => 'sgi', 'SEGI_16217' => 'sgi', 'SEGI_19466' => 'sgi', 'SEGI_41115' => 'sgi', 'SGA_v2.0_scaffold111G31534' => 'sas', 'SGA_v2.0_scaffold22G09864' => 'sas', 'SGA_v2.0_scaffold338G49219' => 'sas', 'SGA_v2.0_scaffold92G28298' => 'sas', 'SMO119G0064' => 'smo', 'SMO223G0038' => 'smo', 'SMO347G0584' => 'smo', 'SMO351G0010' => 'smo', 'SMO356G0404' => 'smo', 'Solyc01g103920.3' => 'sly', 'Solyc04g009710.2' => 'sly', 'Solyc05g055280.2' => 'sly', 'Solyc10g044520.3' => 'sly', 'Solyc10g075160.1' => 'sly', 'Solyc11g006910.3' => 'sly', 'Solyc11g068430.3' => 'sly', 'Sopen01g046310' => 'spe', 'Sopen03g001200' => 'spe', 'Sopen04g004830' => 'spe', 'Sopen05g033720' => 'spe', 'Sopen06g030740' => 'spe', 'Sopen10g013090' => 'spe', 'Sopen10g027630' => 'spe', 'Sopen10g027640' => 'spe', 'Sopen11g002820' => 'spe', 'Sopen11g027140' => 'spe', 'Sp1g09680' => 'spa', 'Sp2g03630' => 'spa', 'Sp4g10320' => 'spa', 'Sp6g33400' => 'spa', 'Sp7g13030' => 'spa', 'TAR365G0317' => 'tar', 'TAR376G0979' => 'tar', 'TAR623G1665' => 'tar', 'TAR633G2373' => 'tar', 'TAR636G1400' => 'tar', 'THA.LOC104800529' => 'tha', 'THA.LOC104808547' => 'tha', 'THA.LOC104809615' => 'tha', 'THA.LOC104815724' => 'tha', 'THA.LOC104818480' => 'tha', 'THA.LOC104819179' => 'tha', 'THA.LOC104822270' => 'tha', 'THA.LOC104826425' => 'tha', 'Thecc.02G089700' => 'tca', 'Thecc.04G232300' => 'tca', 'Thecc.09G283400' => 'tca', 'Thhalv10009020m.g' => 'esa', 'Thhalv10015506m.g' => 'esa', 'Thhalv10017364m.g' => 'esa', 'Thhalv10023742m.g' => 'esa', 'Thhalv10026483m.g' => 'esa', 'TPR.G17232' => 'tpr', 'TPR.G2133' => 'tpr', 'TPR.G2498' => 'tpr', 'TPR.G31942' => 'tpr', 'TPR.G37877' => 'tpr', 'TPR.G4571' => 'tpr', 'TWI14G1113' => 'twi', 'TWI15G0426' => 'twi', 'TWI31G1005' => 'twi', 'TWI38G0513' => 'twi', 'TWI38G1484' => 'twi', 'TWI73G1098' => 'twi', 'unitig_26.g10519' => 'ugi', 'unitig_736.g22395' => 'ugi', 'unitig_747.g21234' => 'ugi', 'unitig_747.g21942' => 'ugi', 'vmacro14351' => 'vma', 'VMungo0540G0082' => 'vmu', 'VMungo0540G0405' => 'vmu', 'VMungo0540G1486' => 'vmu', 'VMungo0540G1692' => 'vmu', 'VMungo0720G2473' => 'vmu', 'VMungo1127G1562' => 'vmu', 'VMungo1215G1918' => 'vmu', 'Zm00001eb052650' => 'zma', 'Zm00001eb063710' => 'zma', 'Zm00001eb083950' => 'zma', 'Zm00001eb174420' => 'zma', 'Zm00001eb260140' => 'zma', 'Zm00001eb260150' => 'zma', 'Zm00001eb260160' => 'zma', 'Zm00001eb348290' => 'zma', 'Zm00001eb366870' => 'zma', 'Zm00001eb421930' => 'zma' ), 'gf_id' => 'HOM05D001025', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001025' ), 'data_identifier' => 'HOM05D001025', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001025', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '592', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p22650' => 'bna', 'A01p29720' => 'bna', 'A03p26560' => 'bna', 'A03p68820' => 'bna', 'A04p20980' => 'bna', 'A06p07730' => 'bna', 'A07p18260' => 'bna', 'A08p33710' => 'bna', 'A09p16970' => 'bna', 'A10p27490' => 'bna', 'Aa31LG1G17300' => 'aar', 'Aa31LG1G3910' => 'aar', 'Aa31LG2G9630' => 'aar', 'Aa31LG5G8360' => 'aar', 'Aa31LG9G2410' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4699' => 'aag', 'Actinidia23512' => 'ach', 'Actinidia37080' => 'ach', 'Ah.01g020380' => 'amhyb', 'Ah.08g215710' => 'amhyb', 'Ah.09g225110' => 'amhyb', 'Ah.10g036680' => 'amhyb', 'AL1G21940' => 'aly', 'AL2G15540' => 'aly', 'AL4G21520' => 'aly', 'AL7G40960' => 'aly', 'Aqoxy2G01191' => 'aox', 'Aqoxy2G03393' => 'aox', 'Aqoxy4G02775' => 'aox', 'Aqoxy6G00058' => 'aox', 'arahy.Tifrunner.gnm1.ann1.9X74H2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CW3FX9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R485W7' => 'arhy', 'AT1G10960' => 'ath', 'AT1G60950' => 'ath', 'AT2G27510' => 'ath', 'AT4G14890' => 'ath', 'AT5G10000' => 'ath', 'ATR0665G624' => 'atr', 'ATR0697G138' => 'atr', 'ATR0776G046' => 'atr', 'ATR1134G135' => 'atr', 'Atru.chr12.1025' => 'acertr', 'Atru.chr3.3241' => 'acertr', 'Atru.chr4.2460' => 'acertr', 'AUR62007427' => 'cqu', 'AUR62010960' => 'cqu', 'AUR62012201' => 'cqu', 'AUR62021470' => 'cqu', 'AUR62022834' => 'cqu', 'AUR62033635' => 'cqu', 'AUR62036186' => 'cqu', 'BcaB01g03077' => 'bca', 'BcaB02g10093' => 'bca', 'BcaB04g20295' => 'bca', 'BcaB06g28147' => 'bca', 'BcaB07g31253' => 'bca', 'BcaC01g04946' => 'bca', 'BcaC02g10614' => 'bca', 'BcaC02g10885' => 'bca', 'BcaC04g19356' => 'bca', 'BcaC04g22297' => 'bca', 'BcaC05g24977' => 'bca', 'BcaC06g31823' => 'bca', 'BcaC07g38633' => 'bca', 'BcaC09g49353' => 'bca', 'BcaC09g50168' => 'bca', 'BcaNung00322' => 'bca', 'BcaNung04769' => 'bca', 'BolC1t02753H' => 'bol', 'BolC1t03721H' => 'bol', 'BolC3t15525H' => 'bol', 'BolC4t23903H' => 'bol', 'BolC4t24231H' => 'bol', 'BolC4t27209H' => 'bol', 'BolC5t29671H' => 'bol', 'BolC8t49044H' => 'bol', 'BolC9t54999H' => 'bol', 'BolC9t59517H' => 'bol', 'BraA01t02178Z' => 'bra', 'BraA01t03099Z' => 'bra', 'BraA03t11867Z' => 'bra', 'BraA04t17667Z' => 'bra', 'BraA07t29542Z' => 'bra', 'BraA08t35287Z' => 'bra', 'BraA09t37334Z' => 'bra', 'BraA10t44801Z' => 'bra', 'BraSC39t46181Z' => 'bra', 'C01p28240' => 'bna', 'C01p37530' => 'bna', 'C03p31820' => 'bna', 'C04p24080' => 'bna', 'C04p25790' => 'bna', 'C04p56770' => 'bna', 'C05p09310' => 'bna', 'C09p21010' => 'bna', 'C09p67560' => 'bna', 'CAN.G1324.7' => 'can', 'CAN.G1358.10' => 'can', 'CAN.G1550.2' => 'can', 'CAN.G186.56' => 'can', 'CAN.G1965.1' => 'can', 'CAN.G645.15' => 'can', 'CAN.G798.26' => 'can', 'CAN.G798.27' => 'can', 'CAN.G798.29' => 'can', 'CAN.G919.31' => 'can', 'CANSAT11G0133' => 'cansat', 'CANSAT11G1171' => 'cansat', 'CANSAT11G2056' => 'cansat', 'CANSAT56G1202' => 'cansat', 'CANSAT56G1514' => 'cansat', 'CANSAT78G0455' => 'cansat', 'CARHR011190' => 'chi', 'CARHR051980' => 'chi', 'CARHR120170' => 'chi', 'CARHR203310' => 'chi', 'CARHR221490' => 'chi', 'Carub.0001s1054' => 'cru', 'Carub.0002s0431' => 'cru', 'Carub.0004s0818' => 'cru', 'Carub.0006s0846' => 'cru', 'Carub.0007s2722' => 'cru', 'Ca_00058_v3' => 'car', 'Ca_17831_v3' => 'car', 'Ca_19408_v3' => 'car', 'Ca_24397_v3' => 'car', 'Ca_25664_v3' => 'car', 'CBR_g21818' => 'cbr', 'CBR_g31195' => 'cbr', 'CBR_g32282' => 'cbr', 'CBR_g39599' => 'cbr', 'CBR_g49410' => 'cbr', 'Cc01_g09120' => 'ccan', 'Cc01_g09130' => 'ccan', 'Cc02_g09630' => 'ccan', 'Cc02_g22810' => 'ccan', 'Cc03_g03810' => 'ccan', 'CDE02G3718' => 'cde', 'CDE04G3183' => 'cde', 'CDE07G1046' => 'cde', 'CDE08G0480' => 'cde', 'Cfa005493' => 'cfa', 'Cfa010312' => 'cfa', 'Cfa015648' => 'cfa', 'Ciclev10002793m.g' => 'ccl', 'Ciclev10003356m.g' => 'ccl', 'Ciclev10006141m.g' => 'ccl', 'Ciclev10016676m.g' => 'ccl', 'Ciclev10017081m.g' => 'ccl', 'Ciclev10029499m.g' => 'ccl', 'CiPaw.01G166300' => 'cil', 'CiPaw.06G145600' => 'cil', 'CiPaw.13G040100' => 'cil', 'CiPaw.13G135800' => 'cil', 'ClCG01G012230' => 'cla', 'ClCG05G009510' => 'cla', 'ClCG08G008270' => 'cla', 'COL.COLO4_11763' => 'col', 'COL.COLO4_19876' => 'col', 'COL.COLO4_21481' => 'col', 'Cpa.g.sc118.34' => 'cpa', 'Cpa.g.sc32.13' => 'cpa', 'Cpa.g.sc58.103' => 'cpa', 'Cre03.g183850' => 'cre', 'Cre06.g306350' => 'cre', 'Cre07.g334800' => 'cre', 'Cre12.g487900' => 'cre', 'Cre14.g626700' => 'cre', 'Cre16.g658400' => 'cre', 'Cre17.g700950' => 'cre', 'CsaV3_1G014830' => 'csa', 'CsaV3_3G013320' => 'csa', 'CsaV3_3G019210' => 'csa', 'CsaV3_3G019220' => 'csa', 'CsaV3_6G004230' => 'csa', 'CSS0003773' => 'camsi', 'CSS0004563' => 'camsi', 'CSS0013949' => 'camsi', 'CSS0025971' => 'camsi', 'CSS0028570' => 'camsi', 'CSS0033127' => 'camsi', 'CSS0036051' => 'camsi', 'CSS0040087' => 'camsi', 'CSS0043179' => 'camsi', 'DCAR_006161' => 'dca', 'DCAR_010351' => 'dca', 'DCAR_012197' => 'dca', 'DCAR_024162' => 'dca', 'Dinv01030' => 'din', 'Dinv10924' => 'din', 'Dinv11835' => 'din', 'Dinv22841' => 'din', 'Dinv42553' => 'din', 'Duzib052G0560' => 'dzi', 'Duzib132G0389' => 'dzi', 'Duzib150G1181' => 'dzi', 'Duzib168G0623' => 'dzi', 'Duzib170G1036' => 'dzi', 'Duzib212G0200' => 'dzi', 'Duzib248G0194' => 'dzi', 'ECA232G2193' => 'eca', 'ECA233G0302' => 'eca', 'ECA234G2813' => 'eca', 'ECA234G4866' => 'eca', 'ECA240G3932' => 'eca', 'ECA248G0385' => 'eca', 'EL10Ac2g04781' => 'bvu', 'EL10Ac3g06445' => 'bvu', 'EL10Ac7g15825' => 'bvu', 'EL10Ac8g18550' => 'bvu', 'Eucgr.B03849' => 'egr', 'Eucgr.I02744' => 'egr', 'Eucgr.J00264' => 'egr', 'Eucgr.J00493' => 'egr', 'FAN04G2181' => 'fan', 'FAN07G2666' => 'fan', 'FAN11G0024' => 'fan', 'FAN12G1105' => 'fan', 'FAN13G0302' => 'fan', 'FAN15G2781' => 'fan', 'FAN16G1274' => 'fan', 'FAN17G2988' => 'fan', 'FAN18G2621' => 'fan', 'FAN21G0013' => 'fan', 'FAN22G1211' => 'fan', 'FAN25G3626' => 'fan', 'FvH4_2g09491' => 'fve', 'FvH4_3g24910' => 'fve', 'FvH4_4g15630' => 'fve', 'FvH4_5g28820' => 'fve', 'Glyma.01G238000' => 'gma', 'Glyma.05G168400' => 'gma', 'Glyma.08G126800' => 'gma', 'Glyma.08G188500' => 'gma', 'Glyma.10G278900' => 'gma', 'Glyma.11G005700' => 'gma', 'Glyma.11G183300' => 'gma', 'Glyma.12G089200' => 'gma', 'Glyma.12G169400' => 'gma', 'Glyma.12G169500' => 'gma', 'Glyma.12G169600' => 'gma', 'Glyma.20G110800' => 'gma', 'Gohir.A03G192900' => 'ghi', 'Gohir.A03G193000' => 'ghi', 'Gohir.A05G080700' => 'ghi', 'Gohir.A09G216000' => 'ghi', 'Gohir.A12G027700' => 'ghi', 'Gohir.A13G036200' => 'ghi', 'Gohir.A13G222600' => 'ghi', 'Gohir.D02G213900' => 'ghi', 'Gohir.D02G214000' => 'ghi', 'Gohir.D05G083700' => 'ghi', 'Gohir.D05G083800' => 'ghi', 'Gohir.D05G083850' => 'ghi', 'Gohir.D08G015400' => 'ghi', 'Gohir.D09G218400' => 'ghi', 'Gohir.D12G027100' => 'ghi', 'Gohir.D13G034500' => 'ghi', 'Gohir.D13G227400' => 'ghi', 'Gorai.005G241800' => 'gra', 'Gorai.005G241900' => 'gra', 'Gorai.006G239400' => 'gra', 'Gorai.008G027600' => 'gra', 'Gorai.009G085400' => 'gra', 'Gorai.009G085500' => 'gra', 'Gorai.013G039000' => 'gra', 'Gorai.013G194800' => 'gra', 'Gorai.013G257900' => 'gra', 'GSVIVG01000982001' => 'vvi', 'GSVIVG01017981001' => 'vvi', 'HanXRQChr01g0024061' => 'han', 'HanXRQChr09g0247831' => 'han', 'HanXRQChr10g0294611' => 'han', 'HanXRQChr10g0294621' => 'han', 'HanXRQChr11g0346821' => 'han', 'HanXRQChr13g0397461' => 'han', 'HanXRQChr16g0513651' => 'han', 'HanXRQChr16g0513701' => 'han', 'Haze_00897' => 'cav', 'Haze_01745' => 'cav', 'Haze_02486' => 'cav', 'Haze_02487' => 'cav', 'Haze_23374' => 'cav', 'Hma1.2p1_0578F.1_g182520' => 'hma', 'Hma1.2p1_0602F.1_g187350' => 'hma', 'Hma1.2p1_0602F.1_g187360' => 'hma', 'Hma1.2p1_0874F.1_g231320' => 'hma', 'Hma1.2p1_1197F.1_g266210' => 'hma', 'Hma1.2p1_1197F.1_g266220' => 'hma', 'Hma1.2p1_2167F.1_g315895' => 'hma', 'Hma1.2p1_2190F.1_g316640' => 'hma', 'Hma1.2p1_3645F.1_g337153' => 'hma', 'HPP92_004907' => 'vpl', 'HPP92_012134' => 'vpl', 'HPP92_025136' => 'vpl', 'HPP92_026087' => 'vpl', 'Hund06782' => 'sun', 'Hund06784' => 'sun', 'Lalb_Chr01g0004861' => 'lal', 'Lalb_Chr02g0140591' => 'lal', 'Lalb_Chr02g0140611' => 'lal', 'Lalb_Chr03g0028101' => 'lal', 'Lalb_Chr07g0185791' => 'lal', 'Lalb_Chr12g0204491' => 'lal', 'Lalb_Chr13g0295671' => 'lal', 'Lalb_Chr19g0136461' => 'lal', 'Lalb_Chr21g0309191' => 'lal', 'Lj1g0028158' => 'lja', 'Lj1P236T38' => 'lonja', 'Lj2C32G2' => 'lonja', 'Lj2P944T8' => 'lonja', 'Lj2P963T15' => 'lonja', 'Lj3g0011788' => 'lja', 'Lj4g0025027' => 'lja', 'Lj5P255T36' => 'lonja', 'Lj6g0018866' => 'lja', 'Lj6P608T31' => 'lonja', 'LjContig00408g0008879' => 'lja', 'Lsat_1_v5_gn_5_105820' => 'lsa', 'Lsat_1_v5_gn_6_38800' => 'lsa', 'Lsat_1_v5_gn_7_67141' => 'lsa', 'Manes.04G003400' => 'mes', 'Manes.07G020000' => 'mes', 'Manes.07G020100' => 'mes', 'Manes.07G020150' => 'mes', 'Manes.10G061500' => 'mes', 'Manes.10G123200' => 'mes', 'Manes.11G161900' => 'mes', 'Manes.15G029300' => 'mes', 'Mapoly0071s0018' => 'mpo', 'Mapoly0082s0023' => 'mpo', 'Mapoly3477s0001' => 'mpo', 'MBI05_g31233_MAGBIO' => 'mbi', 'MBI09_g05946_MAGBIO' => 'mbi', 'MBI09_g05947_MAGBIO' => 'mbi', 'MBI17_g08346_MAGBIO' => 'mbi', 'MCO04G038' => 'mco', 'MCO09G370' => 'mco', 'MCO13G605' => 'mco', 'MD00G1075500' => 'mdo', 'MD03G1144300' => 'mdo', 'MD08G1236800' => 'mdo', 'MD13G1193300' => 'mdo', 'MD15G1428700' => 'mdo', 'Medtr1g112030' => 'mtr', 'Medtr1g112050' => 'mtr', 'Medtr2g006290' => 'mtr', 'Medtr2g086510' => 'mtr', 'Medtr4g053120' => 'mtr', 'Medtr5g006320' => 'mtr', 'Medtr8g088720' => 'mtr', 'MELO3C004712.2' => 'cme', 'MELO3C006533.2' => 'cme', 'MELO3C019438.2' => 'cme', 'MELO3C019440.2' => 'cme', 'MELO3C019441.2' => 'cme', 'MELO3C019895.2' => 'cme', 'Migut.B00811' => 'egut', 'Migut.D02447' => 'egut', 'Migut.F00875' => 'egut', 'Migut.N00186' => 'egut', 'Migut.N01051' => 'egut', 'Migut.N02491' => 'egut', 'Migut.O00784' => 'egut', 'MSTRG.12367' => 'ama', 'MSTRG.18756' => 'ama', 'MSTRG.21042' => 'ama', 'Nitab4.5_0000559g0040' => 'nta', 'Nitab4.5_0000667g0190' => 'nta', 'Nitab4.5_0000755g0160' => 'nta', 'Nitab4.5_0001216g0080' => 'nta', 'Nitab4.5_0004069g0040' => 'nta', 'Nitab4.5_0004129g0010' => 'nta', 'Nitab4.5_0005744g0030' => 'nta', 'Nitab4.5_0006996g0030' => 'nta', 'Nitab4.5_0008971g0040' => 'nta', 'Nitab4.5_0009769g0020' => 'nta', 'Nitab4.5_0009833g0010' => 'nta', 'Nitab4.5_0013140g0020' => 'nta', 'Nn003s41376' => 'nnu', 'Nn1g01857' => 'nnu', 'Nn1g03611' => 'nnu', 'Nn1g06853' => 'nnu', 'Nn3g18360' => 'nnu', 'Nn4g26328' => 'nnu', 'Nn5g27531' => 'nnu', 'Nn6g34899' => 'nnu', 'Nn7g36299' => 'nnu', 'Oeu021485.1' => 'oeu', 'Oeu022433.1' => 'oeu', 'Oeu032111.1' => 'oeu', 'Oeu051608.1' => 'oeu', 'Os01g0860601' => 'osa', 'Os03g0659200' => 'osa', 'Os03g0835900' => 'osa', 'Os04g0412200' => 'osa', 'Os05g0443500' => 'osa', 'Os07g0251500' => 'osa', 'Os08g0104600' => 'osa', 'Peaxi162Scf00003g00047' => 'pax', 'Peaxi162Scf00003g00052' => 'pax', 'Peaxi162Scf00003g00394' => 'pax', 'Peaxi162Scf00091g00621' => 'pax', 'Peaxi162Scf00152g00146' => 'pax', 'Peaxi162Scf00173g00025' => 'pax', 'Peaxi162Scf00195g00102' => 'pax', 'Peaxi162Scf00402g00013' => 'pax', 'Peaxi162Scf00519g00618' => 'pax', 'PGR004G2838' => 'pgr', 'PGR044G2275' => 'pgr', 'PGR102G1377' => 'pgr', 'PGR119G1245' => 'pgr', 'PGR142G4449' => 'pgr', 'PGSC0003DMG400004532' => 'stu', 'PGSC0003DMG400011950' => 'stu', 'PGSC0003DMG400023391' => 'stu', 'PGSC0003DMG400023985' => 'stu', 'PGSC0003DMG400026360' => 'stu', 'PGSC0003DMG400035711' => 'stu', 'PGSC0003DMG400037286' => 'stu', 'PGSC0003DMG402005881' => 'stu', 'Phvul.002G045400' => 'pvu', 'Phvul.006G216600' => 'pvu', 'Phvul.006G216700' => 'pvu', 'Phvul.006G216800' => 'pvu', 'Phvul.007G022500' => 'pvu', 'Phvul.011G094400' => 'pvu', 'Potri.001G470700' => 'ptr', 'Potri.003G015200' => 'ptr', 'Potri.004G202500' => 'ptr', 'Potri.004G218400' => 'ptr', 'Potri.008G020100' => 'ptr', 'Potri.008G153200' => 'ptr', 'Potri.009G163800' => 'ptr', 'Potri.010G087300' => 'ptr', 'Potri.010G239100' => 'ptr', 'Pp3c10_16100' => 'ppa', 'Pp3c10_16880' => 'ppa', 'Pp3c16_6230' => 'ppa', 'Pp3c17_18910' => 'ppa', 'Pp3c3_22119' => 'ppa', 'Pp3c3_22140' => 'ppa', 'Pp3c4_8159' => 'ppa', 'Pp3c4_8171' => 'ppa', 'Pp3c4_8330' => 'ppa', 'PRCOL_00004098' => 'pco', 'Prupe.1G013900' => 'ppe', 'Prupe.1G226300' => 'ppe', 'Prupe.1G573600' => 'ppe', 'Prupe.6G130100' => 'ppe', 'Psat3g090040' => 'psa', 'Psat4g210440' => 'psa', 'Psat6g231040' => 'psa', 'Psat6g231080' => 'psa', 'Psat7g063000' => 'psa', 'Psat7g188000' => 'psa', 'Psat7g188040' => 'psa', 'PSO017G0206' => 'pso', 'PSO170G0501' => 'pso', 'PSO170G6422' => 'pso', 'PSO210G7739' => 'pso', 'PSO339G1808' => 'pso', 'PSO339G6135' => 'pso', 'PSO384G0010' => 'pso', 'PSO384G0964' => 'pso', 'PSO761G0050' => 'pso', 'PSO782G4085' => 'pso', 'QL01p012264' => 'qlo', 'QL02p099491' => 'qlo', 'QL03p033868' => 'qlo', 'QL04p046678' => 'qlo', 'QL06p002448' => 'qlo', 'RcHm_v2.0_Chr4g0416181' => 'rch', 'RcHm_v2.0_Chr5g0044701' => 'rch', 'RcHm_v2.0_Chr6g0265781' => 'rch', 'RcHm_v2.0_Chr7g0221031' => 'rch', 'Rhsim04G0202000' => 'rsi', 'Rhsim11G0127300' => 'rsi', 'Rhsim13G0111800' => 'rsi', 'Sabra01G0165600' => 'sbr', 'Sabra03G0008300' => 'sbr', 'Sabra04G0136900' => 'sbr', 'Sabra08G0013400' => 'sbr', 'Sabra08G0116800' => 'sbr', 'Sabra09G0128000' => 'sbr', 'Sabra10G0055500' => 'sbr', 'Sabra10G0073300' => 'sbr', 'SalBow3G0385' => 'sbo', 'SalBow3G1119' => 'sbo', 'SalBow3G2005' => 'sbo', 'SalBow6G2563' => 'sbo', 'SalBow6G6386' => 'sbo', 'Sc06g0008800' => 'sci', 'Sc07g0004950' => 'sci', 'Sc09g0005340' => 'sci', 'Sc13g0004410' => 'sci', 'Sc21g0007090' => 'sci', 'Sed0009285' => 'sed', 'Sed0017583' => 'sed', 'Sed0019699' => 'sed', 'Sed0023107' => 'sed', 'SEGI_10916' => 'sgi', 'SEGI_16217' => 'sgi', 'SEGI_19466' => 'sgi', 'SEGI_41115' => 'sgi', 'SGA_v2.0_scaffold111G31534' => 'sas', 'SGA_v2.0_scaffold22G09864' => 'sas', 'SGA_v2.0_scaffold338G49219' => 'sas', 'SGA_v2.0_scaffold92G28298' => 'sas', 'SMO119G0064' => 'smo', 'SMO223G0038' => 'smo', 'SMO347G0584' => 'smo', 'SMO351G0010' => 'smo', 'SMO356G0404' => 'smo', 'Solyc01g103920.3' => 'sly', 'Solyc04g009710.2' => 'sly', 'Solyc05g055280.2' => 'sly', 'Solyc10g044520.3' => 'sly', 'Solyc10g075160.1' => 'sly', 'Solyc11g006910.3' => 'sly', 'Solyc11g068430.3' => 'sly', 'Sopen01g046310' => 'spe', 'Sopen03g001200' => 'spe', 'Sopen04g004830' => 'spe', 'Sopen05g033720' => 'spe', 'Sopen06g030740' => 'spe', 'Sopen10g013090' => 'spe', 'Sopen10g027630' => 'spe', 'Sopen10g027640' => 'spe', 'Sopen11g002820' => 'spe', 'Sopen11g027140' => 'spe', 'Sp1g09680' => 'spa', 'Sp2g03630' => 'spa', 'Sp4g10320' => 'spa', 'Sp6g33400' => 'spa', 'Sp7g13030' => 'spa', 'TAR365G0317' => 'tar', 'TAR376G0979' => 'tar', 'TAR623G1665' => 'tar', 'TAR633G2373' => 'tar', 'TAR636G1400' => 'tar', 'THA.LOC104800529' => 'tha', 'THA.LOC104808547' => 'tha', 'THA.LOC104809615' => 'tha', 'THA.LOC104815724' => 'tha', 'THA.LOC104818480' => 'tha', 'THA.LOC104819179' => 'tha', 'THA.LOC104822270' => 'tha', 'THA.LOC104826425' => 'tha', 'Thecc.02G089700' => 'tca', 'Thecc.04G232300' => 'tca', 'Thecc.09G283400' => 'tca', 'Thhalv10009020m.g' => 'esa', 'Thhalv10015506m.g' => 'esa', 'Thhalv10017364m.g' => 'esa', 'Thhalv10023742m.g' => 'esa', 'Thhalv10026483m.g' => 'esa', 'TPR.G17232' => 'tpr', 'TPR.G2133' => 'tpr', 'TPR.G2498' => 'tpr', 'TPR.G31942' => 'tpr', 'TPR.G37877' => 'tpr', 'TPR.G4571' => 'tpr', 'TWI14G1113' => 'twi', 'TWI15G0426' => 'twi', 'TWI31G1005' => 'twi', 'TWI38G0513' => 'twi', 'TWI38G1484' => 'twi', 'TWI73G1098' => 'twi', 'unitig_26.g10519' => 'ugi', 'unitig_736.g22395' => 'ugi', 'unitig_747.g21234' => 'ugi', 'unitig_747.g21942' => 'ugi', 'vmacro14351' => 'vma', 'VMungo0540G0082' => 'vmu', 'VMungo0540G0405' => 'vmu', 'VMungo0540G1486' => 'vmu', 'VMungo0540G1692' => 'vmu', 'VMungo0720G2473' => 'vmu', 'VMungo1127G1562' => 'vmu', 'VMungo1215G1918' => 'vmu', 'Zm00001eb052650' => 'zma', 'Zm00001eb063710' => 'zma', 'Zm00001eb083950' => 'zma', 'Zm00001eb174420' => 'zma', 'Zm00001eb260140' => 'zma', 'Zm00001eb260150' => 'zma', 'Zm00001eb260160' => 'zma', 'Zm00001eb348290' => 'zma', 'Zm00001eb366870' => 'zma', 'Zm00001eb421930' => 'zma' ) $gf_id = 'HOM05D001025' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001025' ) $data_identifier = 'HOM05D001025' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 19, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 2, 'amhyb' => (int) 4, 'aly' => (int) 4, 'aox' => (int) 4, 'arhy' => (int) 3, 'ath' => (int) 5, 'atr' => (int) 4, 'acertr' => (int) 3, 'cqu' => (int) 7, 'bca' => (int) 17, 'bol' => (int) 10, 'bra' => (int) 9, 'can' => (int) 10, 'cansat' => (int) 6, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 5, 'cbr' => (int) 5, 'ccan' => (int) 5, 'cde' => (int) 4, 'cfa' => (int) 3, 'ccl' => (int) 6, 'cil' => (int) 4, 'cla' => (int) 3, 'col' => (int) 3, 'cpa' => (int) 3, 'cre' => (int) 7, 'csa' => (int) 5, 'camsi' => (int) 9, 'dca' => (int) 4, 'din' => (int) 5, 'dzi' => (int) 7, 'eca' => (int) 6, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 12, 'fve' => (int) 4, 'gma' => (int) 12, 'ghi' => (int) 17, 'gra' => (int) 9, 'vvi' => (int) 2, 'han' => (int) 8, 'cav' => (int) 5, 'hma' => (int) 9, 'vpl' => (int) 4, 'sun' => (int) 2, 'lal' => (int) 9, 'lja' => (int) 5, 'lonja' => (int) 6, 'lsa' => (int) 3, 'mes' => (int) 8, 'mpo' => (int) 3, 'mbi' => (int) 4, 'mco' => (int) 3, 'mdo' => (int) 5, 'mtr' => (int) 7, 'cme' => (int) 6, 'egut' => (int) 7, 'ama' => (int) 3, 'nta' => (int) 12, 'nnu' => (int) 9, 'oeu' => (int) 4, 'osa' => (int) 7, 'pax' => (int) 9, 'pgr' => (int) 5, 'stu' => (int) 8, 'pvu' => (int) 6, 'ptr' => (int) 9, 'ppa' => (int) 9, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 7, 'pso' => (int) 10, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 3, 'sbr' => (int) 8, 'sbo' => (int) 5, 'sci' => (int) 5, 'sed' => (int) 4, 'sgi' => (int) 4, 'sas' => (int) 4, 'smo' => (int) 5, 'sly' => (int) 7, 'spe' => (int) 10, 'spa' => (int) 5, 'tar' => (int) 5, 'tha' => (int) 8, 'tca' => (int) 3, 'esa' => (int) 5, 'tpr' => (int) 6, 'twi' => (int) 6, 'ugi' => (int) 4, 'vma' => (int) 1, 'vmu' => (int) 7, 'zma' => (int) 10 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb421930' $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' => 'HOM05D001025', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '592', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p22650' => 'bna', 'A01p29720' => 'bna', 'A03p26560' => 'bna', 'A03p68820' => 'bna', 'A04p20980' => 'bna', 'A06p07730' => 'bna', 'A07p18260' => 'bna', 'A08p33710' => 'bna', 'A09p16970' => 'bna', 'A10p27490' => 'bna', 'Aa31LG1G17300' => 'aar', 'Aa31LG1G3910' => 'aar', 'Aa31LG2G9630' => 'aar', 'Aa31LG5G8360' => 'aar', 'Aa31LG9G2410' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4699' => 'aag', 'Actinidia23512' => 'ach', 'Actinidia37080' => 'ach', 'Ah.01g020380' => 'amhyb', 'Ah.08g215710' => 'amhyb', 'Ah.09g225110' => 'amhyb', 'Ah.10g036680' => 'amhyb', 'AL1G21940' => 'aly', 'AL2G15540' => 'aly', 'AL4G21520' => 'aly', 'AL7G40960' => 'aly', 'Aqoxy2G01191' => 'aox', 'Aqoxy2G03393' => 'aox', 'Aqoxy4G02775' => 'aox', 'Aqoxy6G00058' => 'aox', 'arahy.Tifrunner.gnm1.ann1.9X74H2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CW3FX9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R485W7' => 'arhy', 'AT1G10960' => 'ath', 'AT1G60950' => 'ath', 'AT2G27510' => 'ath', 'AT4G14890' => 'ath', 'AT5G10000' => 'ath', 'ATR0665G624' => 'atr', 'ATR0697G138' => 'atr', 'ATR0776G046' => 'atr', 'ATR1134G135' => 'atr', 'Atru.chr12.1025' => 'acertr', 'Atru.chr3.3241' => 'acertr', 'Atru.chr4.2460' => 'acertr', 'AUR62007427' => 'cqu', 'AUR62010960' => 'cqu', 'AUR62012201' => 'cqu', 'AUR62021470' => 'cqu', 'AUR62022834' => 'cqu', 'AUR62033635' => 'cqu', 'AUR62036186' => 'cqu', 'BcaB01g03077' => 'bca', 'BcaB02g10093' => 'bca', 'BcaB04g20295' => 'bca', 'BcaB06g28147' => 'bca', 'BcaB07g31253' => 'bca', 'BcaC01g04946' => 'bca', 'BcaC02g10614' => 'bca', 'BcaC02g10885' => 'bca', 'BcaC04g19356' => 'bca', 'BcaC04g22297' => 'bca', 'BcaC05g24977' => 'bca', 'BcaC06g31823' => 'bca', 'BcaC07g38633' => 'bca', 'BcaC09g49353' => 'bca', 'BcaC09g50168' => 'bca', 'BcaNung00322' => 'bca', 'BcaNung04769' => 'bca', 'BolC1t02753H' => 'bol', 'BolC1t03721H' => 'bol', 'BolC3t15525H' => 'bol', 'BolC4t23903H' => 'bol', 'BolC4t24231H' => 'bol', 'BolC4t27209H' => 'bol', 'BolC5t29671H' => 'bol', 'BolC8t49044H' => 'bol', 'BolC9t54999H' => 'bol', 'BolC9t59517H' => 'bol', 'BraA01t02178Z' => 'bra', 'BraA01t03099Z' => 'bra', 'BraA03t11867Z' => 'bra', 'BraA04t17667Z' => 'bra', 'BraA07t29542Z' => 'bra', 'BraA08t35287Z' => 'bra', 'BraA09t37334Z' => 'bra', 'BraA10t44801Z' => 'bra', 'BraSC39t46181Z' => 'bra', 'C01p28240' => 'bna', 'C01p37530' => 'bna', 'C03p31820' => 'bna', 'C04p24080' => 'bna', 'C04p25790' => 'bna', 'C04p56770' => 'bna', 'C05p09310' => 'bna', 'C09p21010' => 'bna', 'C09p67560' => 'bna', 'CAN.G1324.7' => 'can', 'CAN.G1358.10' => 'can', 'CAN.G1550.2' => 'can', 'CAN.G186.56' => 'can', 'CAN.G1965.1' => 'can', 'CAN.G645.15' => 'can', 'CAN.G798.26' => 'can', 'CAN.G798.27' => 'can', 'CAN.G798.29' => 'can', 'CAN.G919.31' => 'can', 'CANSAT11G0133' => 'cansat', 'CANSAT11G1171' => 'cansat', 'CANSAT11G2056' => 'cansat', 'CANSAT56G1202' => 'cansat', 'CANSAT56G1514' => 'cansat', 'CANSAT78G0455' => 'cansat', 'CARHR011190' => 'chi', 'CARHR051980' => 'chi', 'CARHR120170' => 'chi', 'CARHR203310' => 'chi', 'CARHR221490' => 'chi', 'Carub.0001s1054' => 'cru', 'Carub.0002s0431' => 'cru', 'Carub.0004s0818' => 'cru', 'Carub.0006s0846' => 'cru', 'Carub.0007s2722' => 'cru', 'Ca_00058_v3' => 'car', 'Ca_17831_v3' => 'car', 'Ca_19408_v3' => 'car', 'Ca_24397_v3' => 'car', 'Ca_25664_v3' => 'car', 'CBR_g21818' => 'cbr', 'CBR_g31195' => 'cbr', 'CBR_g32282' => 'cbr', 'CBR_g39599' => 'cbr', 'CBR_g49410' => 'cbr', 'Cc01_g09120' => 'ccan', 'Cc01_g09130' => 'ccan', 'Cc02_g09630' => 'ccan', 'Cc02_g22810' => 'ccan', 'Cc03_g03810' => 'ccan', 'CDE02G3718' => 'cde', 'CDE04G3183' => 'cde', 'CDE07G1046' => 'cde', 'CDE08G0480' => 'cde', 'Cfa005493' => 'cfa', 'Cfa010312' => 'cfa', 'Cfa015648' => 'cfa', 'Ciclev10002793m.g' => 'ccl', 'Ciclev10003356m.g' => 'ccl', 'Ciclev10006141m.g' => 'ccl', 'Ciclev10016676m.g' => 'ccl', 'Ciclev10017081m.g' => 'ccl', 'Ciclev10029499m.g' => 'ccl', 'CiPaw.01G166300' => 'cil', 'CiPaw.06G145600' => 'cil', 'CiPaw.13G040100' => 'cil', 'CiPaw.13G135800' => 'cil', 'ClCG01G012230' => 'cla', 'ClCG05G009510' => 'cla', 'ClCG08G008270' => 'cla', 'COL.COLO4_11763' => 'col', 'COL.COLO4_19876' => 'col', 'COL.COLO4_21481' => 'col', 'Cpa.g.sc118.34' => 'cpa', 'Cpa.g.sc32.13' => 'cpa', 'Cpa.g.sc58.103' => 'cpa', 'Cre03.g183850' => 'cre', 'Cre06.g306350' => 'cre', 'Cre07.g334800' => 'cre', 'Cre12.g487900' => 'cre', 'Cre14.g626700' => 'cre', 'Cre16.g658400' => 'cre', 'Cre17.g700950' => 'cre', 'CsaV3_1G014830' => 'csa', 'CsaV3_3G013320' => 'csa', 'CsaV3_3G019210' => 'csa', 'CsaV3_3G019220' => 'csa', 'CsaV3_6G004230' => 'csa', 'CSS0003773' => 'camsi', 'CSS0004563' => 'camsi', 'CSS0013949' => 'camsi', 'CSS0025971' => 'camsi', 'CSS0028570' => 'camsi', 'CSS0033127' => 'camsi', 'CSS0036051' => 'camsi', 'CSS0040087' => 'camsi', 'CSS0043179' => 'camsi', 'DCAR_006161' => 'dca', 'DCAR_010351' => 'dca', 'DCAR_012197' => 'dca', 'DCAR_024162' => 'dca', 'Dinv01030' => 'din', 'Dinv10924' => 'din', 'Dinv11835' => 'din', 'Dinv22841' => 'din', 'Dinv42553' => 'din', 'Duzib052G0560' => 'dzi', 'Duzib132G0389' => 'dzi', 'Duzib150G1181' => 'dzi', 'Duzib168G0623' => 'dzi', 'Duzib170G1036' => 'dzi', 'Duzib212G0200' => 'dzi', 'Duzib248G0194' => 'dzi', 'ECA232G2193' => 'eca', 'ECA233G0302' => 'eca', 'ECA234G2813' => 'eca', 'ECA234G4866' => 'eca', 'ECA240G3932' => 'eca', 'ECA248G0385' => 'eca', 'EL10Ac2g04781' => 'bvu', 'EL10Ac3g06445' => 'bvu', 'EL10Ac7g15825' => 'bvu', 'EL10Ac8g18550' => 'bvu', 'Eucgr.B03849' => 'egr', 'Eucgr.I02744' => 'egr', 'Eucgr.J00264' => 'egr', 'Eucgr.J00493' => 'egr', 'FAN04G2181' => 'fan', 'FAN07G2666' => 'fan', 'FAN11G0024' => 'fan', 'FAN12G1105' => 'fan', 'FAN13G0302' => 'fan', 'FAN15G2781' => 'fan', 'FAN16G1274' => 'fan', 'FAN17G2988' => 'fan', 'FAN18G2621' => 'fan', 'FAN21G0013' => 'fan', 'FAN22G1211' => 'fan', 'FAN25G3626' => 'fan', 'FvH4_2g09491' => 'fve', 'FvH4_3g24910' => 'fve', 'FvH4_4g15630' => 'fve', 'FvH4_5g28820' => 'fve', 'Glyma.01G238000' => 'gma', 'Glyma.05G168400' => 'gma', 'Glyma.08G126800' => 'gma', 'Glyma.08G188500' => 'gma', 'Glyma.10G278900' => 'gma', 'Glyma.11G005700' => 'gma', 'Glyma.11G183300' => 'gma', 'Glyma.12G089200' => 'gma', 'Glyma.12G169400' => 'gma', 'Glyma.12G169500' => 'gma', 'Glyma.12G169600' => 'gma', 'Glyma.20G110800' => 'gma', 'Gohir.A03G192900' => 'ghi', 'Gohir.A03G193000' => 'ghi', 'Gohir.A05G080700' => 'ghi', 'Gohir.A09G216000' => 'ghi', 'Gohir.A12G027700' => 'ghi', 'Gohir.A13G036200' => 'ghi', 'Gohir.A13G222600' => 'ghi', 'Gohir.D02G213900' => 'ghi', 'Gohir.D02G214000' => 'ghi', 'Gohir.D05G083700' => 'ghi', 'Gohir.D05G083800' => 'ghi', 'Gohir.D05G083850' => 'ghi', 'Gohir.D08G015400' => 'ghi', 'Gohir.D09G218400' => 'ghi', 'Gohir.D12G027100' => 'ghi', 'Gohir.D13G034500' => 'ghi', 'Gohir.D13G227400' => 'ghi', 'Gorai.005G241800' => 'gra', 'Gorai.005G241900' => 'gra', 'Gorai.006G239400' => 'gra', 'Gorai.008G027600' => 'gra', 'Gorai.009G085400' => 'gra', 'Gorai.009G085500' => 'gra', 'Gorai.013G039000' => 'gra', 'Gorai.013G194800' => 'gra', 'Gorai.013G257900' => 'gra', 'GSVIVG01000982001' => 'vvi', 'GSVIVG01017981001' => 'vvi', 'HanXRQChr01g0024061' => 'han', 'HanXRQChr09g0247831' => 'han', 'HanXRQChr10g0294611' => 'han', 'HanXRQChr10g0294621' => 'han', 'HanXRQChr11g0346821' => 'han', 'HanXRQChr13g0397461' => 'han', 'HanXRQChr16g0513651' => 'han', 'HanXRQChr16g0513701' => 'han', 'Haze_00897' => 'cav', 'Haze_01745' => 'cav', 'Haze_02486' => 'cav', 'Haze_02487' => 'cav', 'Haze_23374' => 'cav', 'Hma1.2p1_0578F.1_g182520' => 'hma', 'Hma1.2p1_0602F.1_g187350' => 'hma', 'Hma1.2p1_0602F.1_g187360' => 'hma', 'Hma1.2p1_0874F.1_g231320' => 'hma', 'Hma1.2p1_1197F.1_g266210' => 'hma', 'Hma1.2p1_1197F.1_g266220' => 'hma', 'Hma1.2p1_2167F.1_g315895' => 'hma', 'Hma1.2p1_2190F.1_g316640' => 'hma', 'Hma1.2p1_3645F.1_g337153' => 'hma', 'HPP92_004907' => 'vpl', 'HPP92_012134' => 'vpl', 'HPP92_025136' => 'vpl', 'HPP92_026087' => 'vpl', 'Hund06782' => 'sun', 'Hund06784' => 'sun', 'Lalb_Chr01g0004861' => 'lal', 'Lalb_Chr02g0140591' => 'lal', 'Lalb_Chr02g0140611' => 'lal', 'Lalb_Chr03g0028101' => 'lal', 'Lalb_Chr07g0185791' => 'lal', 'Lalb_Chr12g0204491' => 'lal', 'Lalb_Chr13g0295671' => 'lal', 'Lalb_Chr19g0136461' => 'lal', 'Lalb_Chr21g0309191' => 'lal', 'Lj1g0028158' => 'lja', 'Lj1P236T38' => 'lonja', 'Lj2C32G2' => 'lonja', 'Lj2P944T8' => 'lonja', 'Lj2P963T15' => 'lonja', 'Lj3g0011788' => 'lja', 'Lj4g0025027' => 'lja', 'Lj5P255T36' => 'lonja', 'Lj6g0018866' => 'lja', 'Lj6P608T31' => 'lonja', 'LjContig00408g0008879' => 'lja', 'Lsat_1_v5_gn_5_105820' => 'lsa', 'Lsat_1_v5_gn_6_38800' => 'lsa', 'Lsat_1_v5_gn_7_67141' => 'lsa', 'Manes.04G003400' => 'mes', 'Manes.07G020000' => 'mes', 'Manes.07G020100' => 'mes', 'Manes.07G020150' => 'mes', 'Manes.10G061500' => 'mes', 'Manes.10G123200' => 'mes', 'Manes.11G161900' => 'mes', 'Manes.15G029300' => 'mes', 'Mapoly0071s0018' => 'mpo', 'Mapoly0082s0023' => 'mpo', 'Mapoly3477s0001' => 'mpo', 'MBI05_g31233_MAGBIO' => 'mbi', 'MBI09_g05946_MAGBIO' => 'mbi', 'MBI09_g05947_MAGBIO' => 'mbi', 'MBI17_g08346_MAGBIO' => 'mbi', 'MCO04G038' => 'mco', 'MCO09G370' => 'mco', 'MCO13G605' => 'mco', 'MD00G1075500' => 'mdo', 'MD03G1144300' => 'mdo', 'MD08G1236800' => 'mdo', 'MD13G1193300' => 'mdo', 'MD15G1428700' => 'mdo', 'Medtr1g112030' => 'mtr', 'Medtr1g112050' => 'mtr', 'Medtr2g006290' => 'mtr', 'Medtr2g086510' => 'mtr', 'Medtr4g053120' => 'mtr', 'Medtr5g006320' => 'mtr', 'Medtr8g088720' => 'mtr', 'MELO3C004712.2' => 'cme', 'MELO3C006533.2' => 'cme', 'MELO3C019438.2' => 'cme', 'MELO3C019440.2' => 'cme', 'MELO3C019441.2' => 'cme', 'MELO3C019895.2' => 'cme', 'Migut.B00811' => 'egut', 'Migut.D02447' => 'egut', 'Migut.F00875' => 'egut', 'Migut.N00186' => 'egut', 'Migut.N01051' => 'egut', 'Migut.N02491' => 'egut', 'Migut.O00784' => 'egut', 'MSTRG.12367' => 'ama', 'MSTRG.18756' => 'ama', 'MSTRG.21042' => 'ama', 'Nitab4.5_0000559g0040' => 'nta', 'Nitab4.5_0000667g0190' => 'nta', 'Nitab4.5_0000755g0160' => 'nta', 'Nitab4.5_0001216g0080' => 'nta', 'Nitab4.5_0004069g0040' => 'nta', 'Nitab4.5_0004129g0010' => 'nta', 'Nitab4.5_0005744g0030' => 'nta', 'Nitab4.5_0006996g0030' => 'nta', 'Nitab4.5_0008971g0040' => 'nta', 'Nitab4.5_0009769g0020' => 'nta', 'Nitab4.5_0009833g0010' => 'nta', 'Nitab4.5_0013140g0020' => 'nta', 'Nn003s41376' => 'nnu', 'Nn1g01857' => 'nnu', 'Nn1g03611' => 'nnu', 'Nn1g06853' => 'nnu', 'Nn3g18360' => 'nnu', 'Nn4g26328' => 'nnu', 'Nn5g27531' => 'nnu', 'Nn6g34899' => 'nnu', 'Nn7g36299' => 'nnu', 'Oeu021485.1' => 'oeu', 'Oeu022433.1' => 'oeu', 'Oeu032111.1' => 'oeu', 'Oeu051608.1' => 'oeu', 'Os01g0860601' => 'osa', 'Os03g0659200' => 'osa', 'Os03g0835900' => 'osa', 'Os04g0412200' => 'osa', 'Os05g0443500' => 'osa', 'Os07g0251500' => 'osa', 'Os08g0104600' => 'osa', 'Peaxi162Scf00003g00047' => 'pax', 'Peaxi162Scf00003g00052' => 'pax', 'Peaxi162Scf00003g00394' => 'pax', 'Peaxi162Scf00091g00621' => 'pax', 'Peaxi162Scf00152g00146' => 'pax', 'Peaxi162Scf00173g00025' => 'pax', 'Peaxi162Scf00195g00102' => 'pax', 'Peaxi162Scf00402g00013' => 'pax', 'Peaxi162Scf00519g00618' => 'pax', 'PGR004G2838' => 'pgr', 'PGR044G2275' => 'pgr', 'PGR102G1377' => 'pgr', 'PGR119G1245' => 'pgr', 'PGR142G4449' => 'pgr', 'PGSC0003DMG400004532' => 'stu', 'PGSC0003DMG400011950' => 'stu', 'PGSC0003DMG400023391' => 'stu', 'PGSC0003DMG400023985' => 'stu', 'PGSC0003DMG400026360' => 'stu', 'PGSC0003DMG400035711' => 'stu', 'PGSC0003DMG400037286' => 'stu', 'PGSC0003DMG402005881' => 'stu', 'Phvul.002G045400' => 'pvu', 'Phvul.006G216600' => 'pvu', 'Phvul.006G216700' => 'pvu', 'Phvul.006G216800' => 'pvu', 'Phvul.007G022500' => 'pvu', 'Phvul.011G094400' => 'pvu', 'Potri.001G470700' => 'ptr', 'Potri.003G015200' => 'ptr', 'Potri.004G202500' => 'ptr', 'Potri.004G218400' => 'ptr', 'Potri.008G020100' => 'ptr', 'Potri.008G153200' => 'ptr', 'Potri.009G163800' => 'ptr', 'Potri.010G087300' => 'ptr', 'Potri.010G239100' => 'ptr', 'Pp3c10_16100' => 'ppa', 'Pp3c10_16880' => 'ppa', 'Pp3c16_6230' => 'ppa', 'Pp3c17_18910' => 'ppa', 'Pp3c3_22119' => 'ppa', 'Pp3c3_22140' => 'ppa', 'Pp3c4_8159' => 'ppa', 'Pp3c4_8171' => 'ppa', 'Pp3c4_8330' => 'ppa', 'PRCOL_00004098' => 'pco', 'Prupe.1G013900' => 'ppe', 'Prupe.1G226300' => 'ppe', 'Prupe.1G573600' => 'ppe', 'Prupe.6G130100' => 'ppe', 'Psat3g090040' => 'psa', 'Psat4g210440' => 'psa', 'Psat6g231040' => 'psa', 'Psat6g231080' => 'psa', 'Psat7g063000' => 'psa', 'Psat7g188000' => 'psa', 'Psat7g188040' => 'psa', 'PSO017G0206' => 'pso', 'PSO170G0501' => 'pso', 'PSO170G6422' => 'pso', 'PSO210G7739' => 'pso', 'PSO339G1808' => 'pso', 'PSO339G6135' => 'pso', 'PSO384G0010' => 'pso', 'PSO384G0964' => 'pso', 'PSO761G0050' => 'pso', 'PSO782G4085' => 'pso', 'QL01p012264' => 'qlo', 'QL02p099491' => 'qlo', 'QL03p033868' => 'qlo', 'QL04p046678' => 'qlo', 'QL06p002448' => 'qlo', 'RcHm_v2.0_Chr4g0416181' => 'rch', 'RcHm_v2.0_Chr5g0044701' => 'rch', 'RcHm_v2.0_Chr6g0265781' => 'rch', 'RcHm_v2.0_Chr7g0221031' => 'rch', 'Rhsim04G0202000' => 'rsi', 'Rhsim11G0127300' => 'rsi', 'Rhsim13G0111800' => 'rsi', 'Sabra01G0165600' => 'sbr', 'Sabra03G0008300' => 'sbr', 'Sabra04G0136900' => 'sbr', 'Sabra08G0013400' => 'sbr', 'Sabra08G0116800' => 'sbr', 'Sabra09G0128000' => 'sbr', 'Sabra10G0055500' => 'sbr', 'Sabra10G0073300' => 'sbr', 'SalBow3G0385' => 'sbo', 'SalBow3G1119' => 'sbo', 'SalBow3G2005' => 'sbo', 'SalBow6G2563' => 'sbo', 'SalBow6G6386' => 'sbo', 'Sc06g0008800' => 'sci', 'Sc07g0004950' => 'sci', 'Sc09g0005340' => 'sci', 'Sc13g0004410' => 'sci', 'Sc21g0007090' => 'sci', 'Sed0009285' => 'sed', 'Sed0017583' => 'sed', 'Sed0019699' => 'sed', 'Sed0023107' => 'sed', 'SEGI_10916' => 'sgi', 'SEGI_16217' => 'sgi', 'SEGI_19466' => 'sgi', 'SEGI_41115' => 'sgi', 'SGA_v2.0_scaffold111G31534' => 'sas', 'SGA_v2.0_scaffold22G09864' => 'sas', 'SGA_v2.0_scaffold338G49219' => 'sas', 'SGA_v2.0_scaffold92G28298' => 'sas', 'SMO119G0064' => 'smo', 'SMO223G0038' => 'smo', 'SMO347G0584' => 'smo', 'SMO351G0010' => 'smo', 'SMO356G0404' => 'smo', 'Solyc01g103920.3' => 'sly', 'Solyc04g009710.2' => 'sly', 'Solyc05g055280.2' => 'sly', 'Solyc10g044520.3' => 'sly', 'Solyc10g075160.1' => 'sly', 'Solyc11g006910.3' => 'sly', 'Solyc11g068430.3' => 'sly', 'Sopen01g046310' => 'spe', 'Sopen03g001200' => 'spe', 'Sopen04g004830' => 'spe', 'Sopen05g033720' => 'spe', 'Sopen06g030740' => 'spe', 'Sopen10g013090' => 'spe', 'Sopen10g027630' => 'spe', 'Sopen10g027640' => 'spe', 'Sopen11g002820' => 'spe', 'Sopen11g027140' => 'spe', 'Sp1g09680' => 'spa', 'Sp2g03630' => 'spa', 'Sp4g10320' => 'spa', 'Sp6g33400' => 'spa', 'Sp7g13030' => 'spa', 'TAR365G0317' => 'tar', 'TAR376G0979' => 'tar', 'TAR623G1665' => 'tar', 'TAR633G2373' => 'tar', 'TAR636G1400' => 'tar', 'THA.LOC104800529' => 'tha', 'THA.LOC104808547' => 'tha', 'THA.LOC104809615' => 'tha', 'THA.LOC104815724' => 'tha', 'THA.LOC104818480' => 'tha', 'THA.LOC104819179' => 'tha', 'THA.LOC104822270' => 'tha', 'THA.LOC104826425' => 'tha', 'Thecc.02G089700' => 'tca', 'Thecc.04G232300' => 'tca', 'Thecc.09G283400' => 'tca', 'Thhalv10009020m.g' => 'esa', 'Thhalv10015506m.g' => 'esa', 'Thhalv10017364m.g' => 'esa', 'Thhalv10023742m.g' => 'esa', 'Thhalv10026483m.g' => 'esa', 'TPR.G17232' => 'tpr', 'TPR.G2133' => 'tpr', 'TPR.G2498' => 'tpr', 'TPR.G31942' => 'tpr', 'TPR.G37877' => 'tpr', 'TPR.G4571' => 'tpr', 'TWI14G1113' => 'twi', 'TWI15G0426' => 'twi', 'TWI31G1005' => 'twi', 'TWI38G0513' => 'twi', 'TWI38G1484' => 'twi', 'TWI73G1098' => 'twi', 'unitig_26.g10519' => 'ugi', 'unitig_736.g22395' => 'ugi', 'unitig_747.g21234' => 'ugi', 'unitig_747.g21942' => 'ugi', 'vmacro14351' => 'vma', 'VMungo0540G0082' => 'vmu', 'VMungo0540G0405' => 'vmu', 'VMungo0540G1486' => 'vmu', 'VMungo0540G1692' => 'vmu', 'VMungo0720G2473' => 'vmu', 'VMungo1127G1562' => 'vmu', 'VMungo1215G1918' => 'vmu', 'Zm00001eb052650' => 'zma', 'Zm00001eb063710' => 'zma', 'Zm00001eb083950' => 'zma', 'Zm00001eb174420' => 'zma', 'Zm00001eb260140' => 'zma', 'Zm00001eb260150' => 'zma', 'Zm00001eb260160' => 'zma', 'Zm00001eb348290' => 'zma', 'Zm00001eb366870' => 'zma', 'Zm00001eb421930' => 'zma' ), 'gf_id' => 'HOM05D001025', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001025' ), 'data_identifier' => 'HOM05D001025', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001025', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '592', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p22650' => 'bna', 'A01p29720' => 'bna', 'A03p26560' => 'bna', 'A03p68820' => 'bna', 'A04p20980' => 'bna', 'A06p07730' => 'bna', 'A07p18260' => 'bna', 'A08p33710' => 'bna', 'A09p16970' => 'bna', 'A10p27490' => 'bna', 'Aa31LG1G17300' => 'aar', 'Aa31LG1G3910' => 'aar', 'Aa31LG2G9630' => 'aar', 'Aa31LG5G8360' => 'aar', 'Aa31LG9G2410' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4699' => 'aag', 'Actinidia23512' => 'ach', 'Actinidia37080' => 'ach', 'Ah.01g020380' => 'amhyb', 'Ah.08g215710' => 'amhyb', 'Ah.09g225110' => 'amhyb', 'Ah.10g036680' => 'amhyb', 'AL1G21940' => 'aly', 'AL2G15540' => 'aly', 'AL4G21520' => 'aly', 'AL7G40960' => 'aly', 'Aqoxy2G01191' => 'aox', 'Aqoxy2G03393' => 'aox', 'Aqoxy4G02775' => 'aox', 'Aqoxy6G00058' => 'aox', 'arahy.Tifrunner.gnm1.ann1.9X74H2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CW3FX9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R485W7' => 'arhy', 'AT1G10960' => 'ath', 'AT1G60950' => 'ath', 'AT2G27510' => 'ath', 'AT4G14890' => 'ath', 'AT5G10000' => 'ath', 'ATR0665G624' => 'atr', 'ATR0697G138' => 'atr', 'ATR0776G046' => 'atr', 'ATR1134G135' => 'atr', 'Atru.chr12.1025' => 'acertr', 'Atru.chr3.3241' => 'acertr', 'Atru.chr4.2460' => 'acertr', 'AUR62007427' => 'cqu', 'AUR62010960' => 'cqu', 'AUR62012201' => 'cqu', 'AUR62021470' => 'cqu', 'AUR62022834' => 'cqu', 'AUR62033635' => 'cqu', 'AUR62036186' => 'cqu', 'BcaB01g03077' => 'bca', 'BcaB02g10093' => 'bca', 'BcaB04g20295' => 'bca', 'BcaB06g28147' => 'bca', 'BcaB07g31253' => 'bca', 'BcaC01g04946' => 'bca', 'BcaC02g10614' => 'bca', 'BcaC02g10885' => 'bca', 'BcaC04g19356' => 'bca', 'BcaC04g22297' => 'bca', 'BcaC05g24977' => 'bca', 'BcaC06g31823' => 'bca', 'BcaC07g38633' => 'bca', 'BcaC09g49353' => 'bca', 'BcaC09g50168' => 'bca', 'BcaNung00322' => 'bca', 'BcaNung04769' => 'bca', 'BolC1t02753H' => 'bol', 'BolC1t03721H' => 'bol', 'BolC3t15525H' => 'bol', 'BolC4t23903H' => 'bol', 'BolC4t24231H' => 'bol', 'BolC4t27209H' => 'bol', 'BolC5t29671H' => 'bol', 'BolC8t49044H' => 'bol', 'BolC9t54999H' => 'bol', 'BolC9t59517H' => 'bol', 'BraA01t02178Z' => 'bra', 'BraA01t03099Z' => 'bra', 'BraA03t11867Z' => 'bra', 'BraA04t17667Z' => 'bra', 'BraA07t29542Z' => 'bra', 'BraA08t35287Z' => 'bra', 'BraA09t37334Z' => 'bra', 'BraA10t44801Z' => 'bra', 'BraSC39t46181Z' => 'bra', 'C01p28240' => 'bna', 'C01p37530' => 'bna', 'C03p31820' => 'bna', 'C04p24080' => 'bna', 'C04p25790' => 'bna', 'C04p56770' => 'bna', 'C05p09310' => 'bna', 'C09p21010' => 'bna', 'C09p67560' => 'bna', 'CAN.G1324.7' => 'can', 'CAN.G1358.10' => 'can', 'CAN.G1550.2' => 'can', 'CAN.G186.56' => 'can', 'CAN.G1965.1' => 'can', 'CAN.G645.15' => 'can', 'CAN.G798.26' => 'can', 'CAN.G798.27' => 'can', 'CAN.G798.29' => 'can', 'CAN.G919.31' => 'can', 'CANSAT11G0133' => 'cansat', 'CANSAT11G1171' => 'cansat', 'CANSAT11G2056' => 'cansat', 'CANSAT56G1202' => 'cansat', 'CANSAT56G1514' => 'cansat', 'CANSAT78G0455' => 'cansat', 'CARHR011190' => 'chi', 'CARHR051980' => 'chi', 'CARHR120170' => 'chi', 'CARHR203310' => 'chi', 'CARHR221490' => 'chi', 'Carub.0001s1054' => 'cru', 'Carub.0002s0431' => 'cru', 'Carub.0004s0818' => 'cru', 'Carub.0006s0846' => 'cru', 'Carub.0007s2722' => 'cru', 'Ca_00058_v3' => 'car', 'Ca_17831_v3' => 'car', 'Ca_19408_v3' => 'car', 'Ca_24397_v3' => 'car', 'Ca_25664_v3' => 'car', 'CBR_g21818' => 'cbr', 'CBR_g31195' => 'cbr', 'CBR_g32282' => 'cbr', 'CBR_g39599' => 'cbr', 'CBR_g49410' => 'cbr', 'Cc01_g09120' => 'ccan', 'Cc01_g09130' => 'ccan', 'Cc02_g09630' => 'ccan', 'Cc02_g22810' => 'ccan', 'Cc03_g03810' => 'ccan', 'CDE02G3718' => 'cde', 'CDE04G3183' => 'cde', 'CDE07G1046' => 'cde', 'CDE08G0480' => 'cde', 'Cfa005493' => 'cfa', 'Cfa010312' => 'cfa', 'Cfa015648' => 'cfa', 'Ciclev10002793m.g' => 'ccl', 'Ciclev10003356m.g' => 'ccl', 'Ciclev10006141m.g' => 'ccl', 'Ciclev10016676m.g' => 'ccl', 'Ciclev10017081m.g' => 'ccl', 'Ciclev10029499m.g' => 'ccl', 'CiPaw.01G166300' => 'cil', 'CiPaw.06G145600' => 'cil', 'CiPaw.13G040100' => 'cil', 'CiPaw.13G135800' => 'cil', 'ClCG01G012230' => 'cla', 'ClCG05G009510' => 'cla', 'ClCG08G008270' => 'cla', 'COL.COLO4_11763' => 'col', 'COL.COLO4_19876' => 'col', 'COL.COLO4_21481' => 'col', 'Cpa.g.sc118.34' => 'cpa', 'Cpa.g.sc32.13' => 'cpa', 'Cpa.g.sc58.103' => 'cpa', 'Cre03.g183850' => 'cre', 'Cre06.g306350' => 'cre', 'Cre07.g334800' => 'cre', 'Cre12.g487900' => 'cre', 'Cre14.g626700' => 'cre', 'Cre16.g658400' => 'cre', 'Cre17.g700950' => 'cre', 'CsaV3_1G014830' => 'csa', 'CsaV3_3G013320' => 'csa', 'CsaV3_3G019210' => 'csa', 'CsaV3_3G019220' => 'csa', 'CsaV3_6G004230' => 'csa', 'CSS0003773' => 'camsi', 'CSS0004563' => 'camsi', 'CSS0013949' => 'camsi', 'CSS0025971' => 'camsi', 'CSS0028570' => 'camsi', 'CSS0033127' => 'camsi', 'CSS0036051' => 'camsi', 'CSS0040087' => 'camsi', 'CSS0043179' => 'camsi', 'DCAR_006161' => 'dca', 'DCAR_010351' => 'dca', 'DCAR_012197' => 'dca', 'DCAR_024162' => 'dca', 'Dinv01030' => 'din', 'Dinv10924' => 'din', 'Dinv11835' => 'din', 'Dinv22841' => 'din', 'Dinv42553' => 'din', 'Duzib052G0560' => 'dzi', 'Duzib132G0389' => 'dzi', 'Duzib150G1181' => 'dzi', 'Duzib168G0623' => 'dzi', 'Duzib170G1036' => 'dzi', 'Duzib212G0200' => 'dzi', 'Duzib248G0194' => 'dzi', 'ECA232G2193' => 'eca', 'ECA233G0302' => 'eca', 'ECA234G2813' => 'eca', 'ECA234G4866' => 'eca', 'ECA240G3932' => 'eca', 'ECA248G0385' => 'eca', 'EL10Ac2g04781' => 'bvu', 'EL10Ac3g06445' => 'bvu', 'EL10Ac7g15825' => 'bvu', 'EL10Ac8g18550' => 'bvu', 'Eucgr.B03849' => 'egr', 'Eucgr.I02744' => 'egr', 'Eucgr.J00264' => 'egr', 'Eucgr.J00493' => 'egr', 'FAN04G2181' => 'fan', 'FAN07G2666' => 'fan', 'FAN11G0024' => 'fan', 'FAN12G1105' => 'fan', 'FAN13G0302' => 'fan', 'FAN15G2781' => 'fan', 'FAN16G1274' => 'fan', 'FAN17G2988' => 'fan', 'FAN18G2621' => 'fan', 'FAN21G0013' => 'fan', 'FAN22G1211' => 'fan', 'FAN25G3626' => 'fan', 'FvH4_2g09491' => 'fve', 'FvH4_3g24910' => 'fve', 'FvH4_4g15630' => 'fve', 'FvH4_5g28820' => 'fve', 'Glyma.01G238000' => 'gma', 'Glyma.05G168400' => 'gma', 'Glyma.08G126800' => 'gma', 'Glyma.08G188500' => 'gma', 'Glyma.10G278900' => 'gma', 'Glyma.11G005700' => 'gma', 'Glyma.11G183300' => 'gma', 'Glyma.12G089200' => 'gma', 'Glyma.12G169400' => 'gma', 'Glyma.12G169500' => 'gma', 'Glyma.12G169600' => 'gma', 'Glyma.20G110800' => 'gma', 'Gohir.A03G192900' => 'ghi', 'Gohir.A03G193000' => 'ghi', 'Gohir.A05G080700' => 'ghi', 'Gohir.A09G216000' => 'ghi', 'Gohir.A12G027700' => 'ghi', 'Gohir.A13G036200' => 'ghi', 'Gohir.A13G222600' => 'ghi', 'Gohir.D02G213900' => 'ghi', 'Gohir.D02G214000' => 'ghi', 'Gohir.D05G083700' => 'ghi', 'Gohir.D05G083800' => 'ghi', 'Gohir.D05G083850' => 'ghi', 'Gohir.D08G015400' => 'ghi', 'Gohir.D09G218400' => 'ghi', 'Gohir.D12G027100' => 'ghi', 'Gohir.D13G034500' => 'ghi', 'Gohir.D13G227400' => 'ghi', 'Gorai.005G241800' => 'gra', 'Gorai.005G241900' => 'gra', 'Gorai.006G239400' => 'gra', 'Gorai.008G027600' => 'gra', 'Gorai.009G085400' => 'gra', 'Gorai.009G085500' => 'gra', 'Gorai.013G039000' => 'gra', 'Gorai.013G194800' => 'gra', 'Gorai.013G257900' => 'gra', 'GSVIVG01000982001' => 'vvi', 'GSVIVG01017981001' => 'vvi', 'HanXRQChr01g0024061' => 'han', 'HanXRQChr09g0247831' => 'han', 'HanXRQChr10g0294611' => 'han', 'HanXRQChr10g0294621' => 'han', 'HanXRQChr11g0346821' => 'han', 'HanXRQChr13g0397461' => 'han', 'HanXRQChr16g0513651' => 'han', 'HanXRQChr16g0513701' => 'han', 'Haze_00897' => 'cav', 'Haze_01745' => 'cav', 'Haze_02486' => 'cav', 'Haze_02487' => 'cav', 'Haze_23374' => 'cav', 'Hma1.2p1_0578F.1_g182520' => 'hma', 'Hma1.2p1_0602F.1_g187350' => 'hma', 'Hma1.2p1_0602F.1_g187360' => 'hma', 'Hma1.2p1_0874F.1_g231320' => 'hma', 'Hma1.2p1_1197F.1_g266210' => 'hma', 'Hma1.2p1_1197F.1_g266220' => 'hma', 'Hma1.2p1_2167F.1_g315895' => 'hma', 'Hma1.2p1_2190F.1_g316640' => 'hma', 'Hma1.2p1_3645F.1_g337153' => 'hma', 'HPP92_004907' => 'vpl', 'HPP92_012134' => 'vpl', 'HPP92_025136' => 'vpl', 'HPP92_026087' => 'vpl', 'Hund06782' => 'sun', 'Hund06784' => 'sun', 'Lalb_Chr01g0004861' => 'lal', 'Lalb_Chr02g0140591' => 'lal', 'Lalb_Chr02g0140611' => 'lal', 'Lalb_Chr03g0028101' => 'lal', 'Lalb_Chr07g0185791' => 'lal', 'Lalb_Chr12g0204491' => 'lal', 'Lalb_Chr13g0295671' => 'lal', 'Lalb_Chr19g0136461' => 'lal', 'Lalb_Chr21g0309191' => 'lal', 'Lj1g0028158' => 'lja', 'Lj1P236T38' => 'lonja', 'Lj2C32G2' => 'lonja', 'Lj2P944T8' => 'lonja', 'Lj2P963T15' => 'lonja', 'Lj3g0011788' => 'lja', 'Lj4g0025027' => 'lja', 'Lj5P255T36' => 'lonja', 'Lj6g0018866' => 'lja', 'Lj6P608T31' => 'lonja', 'LjContig00408g0008879' => 'lja', 'Lsat_1_v5_gn_5_105820' => 'lsa', 'Lsat_1_v5_gn_6_38800' => 'lsa', 'Lsat_1_v5_gn_7_67141' => 'lsa', 'Manes.04G003400' => 'mes', 'Manes.07G020000' => 'mes', 'Manes.07G020100' => 'mes', 'Manes.07G020150' => 'mes', 'Manes.10G061500' => 'mes', 'Manes.10G123200' => 'mes', 'Manes.11G161900' => 'mes', 'Manes.15G029300' => 'mes', 'Mapoly0071s0018' => 'mpo', 'Mapoly0082s0023' => 'mpo', 'Mapoly3477s0001' => 'mpo', 'MBI05_g31233_MAGBIO' => 'mbi', 'MBI09_g05946_MAGBIO' => 'mbi', 'MBI09_g05947_MAGBIO' => 'mbi', 'MBI17_g08346_MAGBIO' => 'mbi', 'MCO04G038' => 'mco', 'MCO09G370' => 'mco', 'MCO13G605' => 'mco', 'MD00G1075500' => 'mdo', 'MD03G1144300' => 'mdo', 'MD08G1236800' => 'mdo', 'MD13G1193300' => 'mdo', 'MD15G1428700' => 'mdo', 'Medtr1g112030' => 'mtr', 'Medtr1g112050' => 'mtr', 'Medtr2g006290' => 'mtr', 'Medtr2g086510' => 'mtr', 'Medtr4g053120' => 'mtr', 'Medtr5g006320' => 'mtr', 'Medtr8g088720' => 'mtr', 'MELO3C004712.2' => 'cme', 'MELO3C006533.2' => 'cme', 'MELO3C019438.2' => 'cme', 'MELO3C019440.2' => 'cme', 'MELO3C019441.2' => 'cme', 'MELO3C019895.2' => 'cme', 'Migut.B00811' => 'egut', 'Migut.D02447' => 'egut', 'Migut.F00875' => 'egut', 'Migut.N00186' => 'egut', 'Migut.N01051' => 'egut', 'Migut.N02491' => 'egut', 'Migut.O00784' => 'egut', 'MSTRG.12367' => 'ama', 'MSTRG.18756' => 'ama', 'MSTRG.21042' => 'ama', 'Nitab4.5_0000559g0040' => 'nta', 'Nitab4.5_0000667g0190' => 'nta', 'Nitab4.5_0000755g0160' => 'nta', 'Nitab4.5_0001216g0080' => 'nta', 'Nitab4.5_0004069g0040' => 'nta', 'Nitab4.5_0004129g0010' => 'nta', 'Nitab4.5_0005744g0030' => 'nta', 'Nitab4.5_0006996g0030' => 'nta', 'Nitab4.5_0008971g0040' => 'nta', 'Nitab4.5_0009769g0020' => 'nta', 'Nitab4.5_0009833g0010' => 'nta', 'Nitab4.5_0013140g0020' => 'nta', 'Nn003s41376' => 'nnu', 'Nn1g01857' => 'nnu', 'Nn1g03611' => 'nnu', 'Nn1g06853' => 'nnu', 'Nn3g18360' => 'nnu', 'Nn4g26328' => 'nnu', 'Nn5g27531' => 'nnu', 'Nn6g34899' => 'nnu', 'Nn7g36299' => 'nnu', 'Oeu021485.1' => 'oeu', 'Oeu022433.1' => 'oeu', 'Oeu032111.1' => 'oeu', 'Oeu051608.1' => 'oeu', 'Os01g0860601' => 'osa', 'Os03g0659200' => 'osa', 'Os03g0835900' => 'osa', 'Os04g0412200' => 'osa', 'Os05g0443500' => 'osa', 'Os07g0251500' => 'osa', 'Os08g0104600' => 'osa', 'Peaxi162Scf00003g00047' => 'pax', 'Peaxi162Scf00003g00052' => 'pax', 'Peaxi162Scf00003g00394' => 'pax', 'Peaxi162Scf00091g00621' => 'pax', 'Peaxi162Scf00152g00146' => 'pax', 'Peaxi162Scf00173g00025' => 'pax', 'Peaxi162Scf00195g00102' => 'pax', 'Peaxi162Scf00402g00013' => 'pax', 'Peaxi162Scf00519g00618' => 'pax', 'PGR004G2838' => 'pgr', 'PGR044G2275' => 'pgr', 'PGR102G1377' => 'pgr', 'PGR119G1245' => 'pgr', 'PGR142G4449' => 'pgr', 'PGSC0003DMG400004532' => 'stu', 'PGSC0003DMG400011950' => 'stu', 'PGSC0003DMG400023391' => 'stu', 'PGSC0003DMG400023985' => 'stu', 'PGSC0003DMG400026360' => 'stu', 'PGSC0003DMG400035711' => 'stu', 'PGSC0003DMG400037286' => 'stu', 'PGSC0003DMG402005881' => 'stu', 'Phvul.002G045400' => 'pvu', 'Phvul.006G216600' => 'pvu', 'Phvul.006G216700' => 'pvu', 'Phvul.006G216800' => 'pvu', 'Phvul.007G022500' => 'pvu', 'Phvul.011G094400' => 'pvu', 'Potri.001G470700' => 'ptr', 'Potri.003G015200' => 'ptr', 'Potri.004G202500' => 'ptr', 'Potri.004G218400' => 'ptr', 'Potri.008G020100' => 'ptr', 'Potri.008G153200' => 'ptr', 'Potri.009G163800' => 'ptr', 'Potri.010G087300' => 'ptr', 'Potri.010G239100' => 'ptr', 'Pp3c10_16100' => 'ppa', 'Pp3c10_16880' => 'ppa', 'Pp3c16_6230' => 'ppa', 'Pp3c17_18910' => 'ppa', 'Pp3c3_22119' => 'ppa', 'Pp3c3_22140' => 'ppa', 'Pp3c4_8159' => 'ppa', 'Pp3c4_8171' => 'ppa', 'Pp3c4_8330' => 'ppa', 'PRCOL_00004098' => 'pco', 'Prupe.1G013900' => 'ppe', 'Prupe.1G226300' => 'ppe', 'Prupe.1G573600' => 'ppe', 'Prupe.6G130100' => 'ppe', 'Psat3g090040' => 'psa', 'Psat4g210440' => 'psa', 'Psat6g231040' => 'psa', 'Psat6g231080' => 'psa', 'Psat7g063000' => 'psa', 'Psat7g188000' => 'psa', 'Psat7g188040' => 'psa', 'PSO017G0206' => 'pso', 'PSO170G0501' => 'pso', 'PSO170G6422' => 'pso', 'PSO210G7739' => 'pso', 'PSO339G1808' => 'pso', 'PSO339G6135' => 'pso', 'PSO384G0010' => 'pso', 'PSO384G0964' => 'pso', 'PSO761G0050' => 'pso', 'PSO782G4085' => 'pso', 'QL01p012264' => 'qlo', 'QL02p099491' => 'qlo', 'QL03p033868' => 'qlo', 'QL04p046678' => 'qlo', 'QL06p002448' => 'qlo', 'RcHm_v2.0_Chr4g0416181' => 'rch', 'RcHm_v2.0_Chr5g0044701' => 'rch', 'RcHm_v2.0_Chr6g0265781' => 'rch', 'RcHm_v2.0_Chr7g0221031' => 'rch', 'Rhsim04G0202000' => 'rsi', 'Rhsim11G0127300' => 'rsi', 'Rhsim13G0111800' => 'rsi', 'Sabra01G0165600' => 'sbr', 'Sabra03G0008300' => 'sbr', 'Sabra04G0136900' => 'sbr', 'Sabra08G0013400' => 'sbr', 'Sabra08G0116800' => 'sbr', 'Sabra09G0128000' => 'sbr', 'Sabra10G0055500' => 'sbr', 'Sabra10G0073300' => 'sbr', 'SalBow3G0385' => 'sbo', 'SalBow3G1119' => 'sbo', 'SalBow3G2005' => 'sbo', 'SalBow6G2563' => 'sbo', 'SalBow6G6386' => 'sbo', 'Sc06g0008800' => 'sci', 'Sc07g0004950' => 'sci', 'Sc09g0005340' => 'sci', 'Sc13g0004410' => 'sci', 'Sc21g0007090' => 'sci', 'Sed0009285' => 'sed', 'Sed0017583' => 'sed', 'Sed0019699' => 'sed', 'Sed0023107' => 'sed', 'SEGI_10916' => 'sgi', 'SEGI_16217' => 'sgi', 'SEGI_19466' => 'sgi', 'SEGI_41115' => 'sgi', 'SGA_v2.0_scaffold111G31534' => 'sas', 'SGA_v2.0_scaffold22G09864' => 'sas', 'SGA_v2.0_scaffold338G49219' => 'sas', 'SGA_v2.0_scaffold92G28298' => 'sas', 'SMO119G0064' => 'smo', 'SMO223G0038' => 'smo', 'SMO347G0584' => 'smo', 'SMO351G0010' => 'smo', 'SMO356G0404' => 'smo', 'Solyc01g103920.3' => 'sly', 'Solyc04g009710.2' => 'sly', 'Solyc05g055280.2' => 'sly', 'Solyc10g044520.3' => 'sly', 'Solyc10g075160.1' => 'sly', 'Solyc11g006910.3' => 'sly', 'Solyc11g068430.3' => 'sly', 'Sopen01g046310' => 'spe', 'Sopen03g001200' => 'spe', 'Sopen04g004830' => 'spe', 'Sopen05g033720' => 'spe', 'Sopen06g030740' => 'spe', 'Sopen10g013090' => 'spe', 'Sopen10g027630' => 'spe', 'Sopen10g027640' => 'spe', 'Sopen11g002820' => 'spe', 'Sopen11g027140' => 'spe', 'Sp1g09680' => 'spa', 'Sp2g03630' => 'spa', 'Sp4g10320' => 'spa', 'Sp6g33400' => 'spa', 'Sp7g13030' => 'spa', 'TAR365G0317' => 'tar', 'TAR376G0979' => 'tar', 'TAR623G1665' => 'tar', 'TAR633G2373' => 'tar', 'TAR636G1400' => 'tar', 'THA.LOC104800529' => 'tha', 'THA.LOC104808547' => 'tha', 'THA.LOC104809615' => 'tha', 'THA.LOC104815724' => 'tha', 'THA.LOC104818480' => 'tha', 'THA.LOC104819179' => 'tha', 'THA.LOC104822270' => 'tha', 'THA.LOC104826425' => 'tha', 'Thecc.02G089700' => 'tca', 'Thecc.04G232300' => 'tca', 'Thecc.09G283400' => 'tca', 'Thhalv10009020m.g' => 'esa', 'Thhalv10015506m.g' => 'esa', 'Thhalv10017364m.g' => 'esa', 'Thhalv10023742m.g' => 'esa', 'Thhalv10026483m.g' => 'esa', 'TPR.G17232' => 'tpr', 'TPR.G2133' => 'tpr', 'TPR.G2498' => 'tpr', 'TPR.G31942' => 'tpr', 'TPR.G37877' => 'tpr', 'TPR.G4571' => 'tpr', 'TWI14G1113' => 'twi', 'TWI15G0426' => 'twi', 'TWI31G1005' => 'twi', 'TWI38G0513' => 'twi', 'TWI38G1484' => 'twi', 'TWI73G1098' => 'twi', 'unitig_26.g10519' => 'ugi', 'unitig_736.g22395' => 'ugi', 'unitig_747.g21234' => 'ugi', 'unitig_747.g21942' => 'ugi', 'vmacro14351' => 'vma', 'VMungo0540G0082' => 'vmu', 'VMungo0540G0405' => 'vmu', 'VMungo0540G1486' => 'vmu', 'VMungo0540G1692' => 'vmu', 'VMungo0720G2473' => 'vmu', 'VMungo1127G1562' => 'vmu', 'VMungo1215G1918' => 'vmu', 'Zm00001eb052650' => 'zma', 'Zm00001eb063710' => 'zma', 'Zm00001eb083950' => 'zma', 'Zm00001eb174420' => 'zma', 'Zm00001eb260140' => 'zma', 'Zm00001eb260150' => 'zma', 'Zm00001eb260160' => 'zma', 'Zm00001eb348290' => 'zma', 'Zm00001eb366870' => 'zma', 'Zm00001eb421930' => 'zma' ) $gf_id = 'HOM05D001025' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001025' ) $data_identifier = 'HOM05D001025' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 19, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 2, 'amhyb' => (int) 4, 'aly' => (int) 4, 'aox' => (int) 4, 'arhy' => (int) 3, 'ath' => (int) 5, 'atr' => (int) 4, 'acertr' => (int) 3, 'cqu' => (int) 7, 'bca' => (int) 17, 'bol' => (int) 10, 'bra' => (int) 9, 'can' => (int) 10, 'cansat' => (int) 6, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 5, 'cbr' => (int) 5, 'ccan' => (int) 5, 'cde' => (int) 4, 'cfa' => (int) 3, 'ccl' => (int) 6, 'cil' => (int) 4, 'cla' => (int) 3, 'col' => (int) 3, 'cpa' => (int) 3, 'cre' => (int) 7, 'csa' => (int) 5, 'camsi' => (int) 9, 'dca' => (int) 4, 'din' => (int) 5, 'dzi' => (int) 7, 'eca' => (int) 6, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 12, 'fve' => (int) 4, 'gma' => (int) 12, 'ghi' => (int) 17, 'gra' => (int) 9, 'vvi' => (int) 2, 'han' => (int) 8, 'cav' => (int) 5, 'hma' => (int) 9, 'vpl' => (int) 4, 'sun' => (int) 2, 'lal' => (int) 9, 'lja' => (int) 5, 'lonja' => (int) 6, 'lsa' => (int) 3, 'mes' => (int) 8, 'mpo' => (int) 3, 'mbi' => (int) 4, 'mco' => (int) 3, 'mdo' => (int) 5, 'mtr' => (int) 7, 'cme' => (int) 6, 'egut' => (int) 7, 'ama' => (int) 3, 'nta' => (int) 12, 'nnu' => (int) 9, 'oeu' => (int) 4, 'osa' => (int) 7, 'pax' => (int) 9, 'pgr' => (int) 5, 'stu' => (int) 8, 'pvu' => (int) 6, 'ptr' => (int) 9, 'ppa' => (int) 9, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 7, 'pso' => (int) 10, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 3, 'sbr' => (int) 8, 'sbo' => (int) 5, 'sci' => (int) 5, 'sed' => (int) 4, 'sgi' => (int) 4, 'sas' => (int) 4, 'smo' => (int) 5, 'sly' => (int) 7, 'spe' => (int) 10, 'spa' => (int) 5, 'tar' => (int) 5, 'tha' => (int) 8, 'tca' => (int) 3, 'esa' => (int) 5, 'tpr' => (int) 6, 'twi' => (int) 6, 'ugi' => (int) 4, 'vma' => (int) 1, 'vmu' => (int) 7, 'zma' => (int) 10 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb421930' $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' => 'HOM05D001025', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '592', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p22650' => 'bna', 'A01p29720' => 'bna', 'A03p26560' => 'bna', 'A03p68820' => 'bna', 'A04p20980' => 'bna', 'A06p07730' => 'bna', 'A07p18260' => 'bna', 'A08p33710' => 'bna', 'A09p16970' => 'bna', 'A10p27490' => 'bna', 'Aa31LG1G17300' => 'aar', 'Aa31LG1G3910' => 'aar', 'Aa31LG2G9630' => 'aar', 'Aa31LG5G8360' => 'aar', 'Aa31LG9G2410' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4699' => 'aag', 'Actinidia23512' => 'ach', 'Actinidia37080' => 'ach', 'Ah.01g020380' => 'amhyb', 'Ah.08g215710' => 'amhyb', 'Ah.09g225110' => 'amhyb', 'Ah.10g036680' => 'amhyb', 'AL1G21940' => 'aly', 'AL2G15540' => 'aly', 'AL4G21520' => 'aly', 'AL7G40960' => 'aly', 'Aqoxy2G01191' => 'aox', 'Aqoxy2G03393' => 'aox', 'Aqoxy4G02775' => 'aox', 'Aqoxy6G00058' => 'aox', 'arahy.Tifrunner.gnm1.ann1.9X74H2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CW3FX9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R485W7' => 'arhy', 'AT1G10960' => 'ath', 'AT1G60950' => 'ath', 'AT2G27510' => 'ath', 'AT4G14890' => 'ath', 'AT5G10000' => 'ath', 'ATR0665G624' => 'atr', 'ATR0697G138' => 'atr', 'ATR0776G046' => 'atr', 'ATR1134G135' => 'atr', 'Atru.chr12.1025' => 'acertr', 'Atru.chr3.3241' => 'acertr', 'Atru.chr4.2460' => 'acertr', 'AUR62007427' => 'cqu', 'AUR62010960' => 'cqu', 'AUR62012201' => 'cqu', 'AUR62021470' => 'cqu', 'AUR62022834' => 'cqu', 'AUR62033635' => 'cqu', 'AUR62036186' => 'cqu', 'BcaB01g03077' => 'bca', 'BcaB02g10093' => 'bca', 'BcaB04g20295' => 'bca', 'BcaB06g28147' => 'bca', 'BcaB07g31253' => 'bca', 'BcaC01g04946' => 'bca', 'BcaC02g10614' => 'bca', 'BcaC02g10885' => 'bca', 'BcaC04g19356' => 'bca', 'BcaC04g22297' => 'bca', 'BcaC05g24977' => 'bca', 'BcaC06g31823' => 'bca', 'BcaC07g38633' => 'bca', 'BcaC09g49353' => 'bca', 'BcaC09g50168' => 'bca', 'BcaNung00322' => 'bca', 'BcaNung04769' => 'bca', 'BolC1t02753H' => 'bol', 'BolC1t03721H' => 'bol', 'BolC3t15525H' => 'bol', 'BolC4t23903H' => 'bol', 'BolC4t24231H' => 'bol', 'BolC4t27209H' => 'bol', 'BolC5t29671H' => 'bol', 'BolC8t49044H' => 'bol', 'BolC9t54999H' => 'bol', 'BolC9t59517H' => 'bol', 'BraA01t02178Z' => 'bra', 'BraA01t03099Z' => 'bra', 'BraA03t11867Z' => 'bra', 'BraA04t17667Z' => 'bra', 'BraA07t29542Z' => 'bra', 'BraA08t35287Z' => 'bra', 'BraA09t37334Z' => 'bra', 'BraA10t44801Z' => 'bra', 'BraSC39t46181Z' => 'bra', 'C01p28240' => 'bna', 'C01p37530' => 'bna', 'C03p31820' => 'bna', 'C04p24080' => 'bna', 'C04p25790' => 'bna', 'C04p56770' => 'bna', 'C05p09310' => 'bna', 'C09p21010' => 'bna', 'C09p67560' => 'bna', 'CAN.G1324.7' => 'can', 'CAN.G1358.10' => 'can', 'CAN.G1550.2' => 'can', 'CAN.G186.56' => 'can', 'CAN.G1965.1' => 'can', 'CAN.G645.15' => 'can', 'CAN.G798.26' => 'can', 'CAN.G798.27' => 'can', 'CAN.G798.29' => 'can', 'CAN.G919.31' => 'can', 'CANSAT11G0133' => 'cansat', 'CANSAT11G1171' => 'cansat', 'CANSAT11G2056' => 'cansat', 'CANSAT56G1202' => 'cansat', 'CANSAT56G1514' => 'cansat', 'CANSAT78G0455' => 'cansat', 'CARHR011190' => 'chi', 'CARHR051980' => 'chi', 'CARHR120170' => 'chi', 'CARHR203310' => 'chi', 'CARHR221490' => 'chi', 'Carub.0001s1054' => 'cru', 'Carub.0002s0431' => 'cru', 'Carub.0004s0818' => 'cru', 'Carub.0006s0846' => 'cru', 'Carub.0007s2722' => 'cru', 'Ca_00058_v3' => 'car', 'Ca_17831_v3' => 'car', 'Ca_19408_v3' => 'car', 'Ca_24397_v3' => 'car', 'Ca_25664_v3' => 'car', 'CBR_g21818' => 'cbr', 'CBR_g31195' => 'cbr', 'CBR_g32282' => 'cbr', 'CBR_g39599' => 'cbr', 'CBR_g49410' => 'cbr', 'Cc01_g09120' => 'ccan', 'Cc01_g09130' => 'ccan', 'Cc02_g09630' => 'ccan', 'Cc02_g22810' => 'ccan', 'Cc03_g03810' => 'ccan', 'CDE02G3718' => 'cde', 'CDE04G3183' => 'cde', 'CDE07G1046' => 'cde', 'CDE08G0480' => 'cde', 'Cfa005493' => 'cfa', 'Cfa010312' => 'cfa', 'Cfa015648' => 'cfa', 'Ciclev10002793m.g' => 'ccl', 'Ciclev10003356m.g' => 'ccl', 'Ciclev10006141m.g' => 'ccl', 'Ciclev10016676m.g' => 'ccl', 'Ciclev10017081m.g' => 'ccl', 'Ciclev10029499m.g' => 'ccl', 'CiPaw.01G166300' => 'cil', 'CiPaw.06G145600' => 'cil', 'CiPaw.13G040100' => 'cil', 'CiPaw.13G135800' => 'cil', 'ClCG01G012230' => 'cla', 'ClCG05G009510' => 'cla', 'ClCG08G008270' => 'cla', 'COL.COLO4_11763' => 'col', 'COL.COLO4_19876' => 'col', 'COL.COLO4_21481' => 'col', 'Cpa.g.sc118.34' => 'cpa', 'Cpa.g.sc32.13' => 'cpa', 'Cpa.g.sc58.103' => 'cpa', 'Cre03.g183850' => 'cre', 'Cre06.g306350' => 'cre', 'Cre07.g334800' => 'cre', 'Cre12.g487900' => 'cre', 'Cre14.g626700' => 'cre', 'Cre16.g658400' => 'cre', 'Cre17.g700950' => 'cre', 'CsaV3_1G014830' => 'csa', 'CsaV3_3G013320' => 'csa', 'CsaV3_3G019210' => 'csa', 'CsaV3_3G019220' => 'csa', 'CsaV3_6G004230' => 'csa', 'CSS0003773' => 'camsi', 'CSS0004563' => 'camsi', 'CSS0013949' => 'camsi', 'CSS0025971' => 'camsi', 'CSS0028570' => 'camsi', 'CSS0033127' => 'camsi', 'CSS0036051' => 'camsi', 'CSS0040087' => 'camsi', 'CSS0043179' => 'camsi', 'DCAR_006161' => 'dca', 'DCAR_010351' => 'dca', 'DCAR_012197' => 'dca', 'DCAR_024162' => 'dca', 'Dinv01030' => 'din', 'Dinv10924' => 'din', 'Dinv11835' => 'din', 'Dinv22841' => 'din', 'Dinv42553' => 'din', 'Duzib052G0560' => 'dzi', 'Duzib132G0389' => 'dzi', 'Duzib150G1181' => 'dzi', 'Duzib168G0623' => 'dzi', 'Duzib170G1036' => 'dzi', 'Duzib212G0200' => 'dzi', 'Duzib248G0194' => 'dzi', 'ECA232G2193' => 'eca', 'ECA233G0302' => 'eca', 'ECA234G2813' => 'eca', 'ECA234G4866' => 'eca', 'ECA240G3932' => 'eca', 'ECA248G0385' => 'eca', 'EL10Ac2g04781' => 'bvu', 'EL10Ac3g06445' => 'bvu', 'EL10Ac7g15825' => 'bvu', 'EL10Ac8g18550' => 'bvu', 'Eucgr.B03849' => 'egr', 'Eucgr.I02744' => 'egr', 'Eucgr.J00264' => 'egr', 'Eucgr.J00493' => 'egr', 'FAN04G2181' => 'fan', 'FAN07G2666' => 'fan', 'FAN11G0024' => 'fan', 'FAN12G1105' => 'fan', 'FAN13G0302' => 'fan', 'FAN15G2781' => 'fan', 'FAN16G1274' => 'fan', 'FAN17G2988' => 'fan', 'FAN18G2621' => 'fan', 'FAN21G0013' => 'fan', 'FAN22G1211' => 'fan', 'FAN25G3626' => 'fan', 'FvH4_2g09491' => 'fve', 'FvH4_3g24910' => 'fve', 'FvH4_4g15630' => 'fve', 'FvH4_5g28820' => 'fve', 'Glyma.01G238000' => 'gma', 'Glyma.05G168400' => 'gma', 'Glyma.08G126800' => 'gma', 'Glyma.08G188500' => 'gma', 'Glyma.10G278900' => 'gma', 'Glyma.11G005700' => 'gma', 'Glyma.11G183300' => 'gma', 'Glyma.12G089200' => 'gma', 'Glyma.12G169400' => 'gma', 'Glyma.12G169500' => 'gma', 'Glyma.12G169600' => 'gma', 'Glyma.20G110800' => 'gma', 'Gohir.A03G192900' => 'ghi', 'Gohir.A03G193000' => 'ghi', 'Gohir.A05G080700' => 'ghi', 'Gohir.A09G216000' => 'ghi', 'Gohir.A12G027700' => 'ghi', 'Gohir.A13G036200' => 'ghi', 'Gohir.A13G222600' => 'ghi', 'Gohir.D02G213900' => 'ghi', 'Gohir.D02G214000' => 'ghi', 'Gohir.D05G083700' => 'ghi', 'Gohir.D05G083800' => 'ghi', 'Gohir.D05G083850' => 'ghi', 'Gohir.D08G015400' => 'ghi', 'Gohir.D09G218400' => 'ghi', 'Gohir.D12G027100' => 'ghi', 'Gohir.D13G034500' => 'ghi', 'Gohir.D13G227400' => 'ghi', 'Gorai.005G241800' => 'gra', 'Gorai.005G241900' => 'gra', 'Gorai.006G239400' => 'gra', 'Gorai.008G027600' => 'gra', 'Gorai.009G085400' => 'gra', 'Gorai.009G085500' => 'gra', 'Gorai.013G039000' => 'gra', 'Gorai.013G194800' => 'gra', 'Gorai.013G257900' => 'gra', 'GSVIVG01000982001' => 'vvi', 'GSVIVG01017981001' => 'vvi', 'HanXRQChr01g0024061' => 'han', 'HanXRQChr09g0247831' => 'han', 'HanXRQChr10g0294611' => 'han', 'HanXRQChr10g0294621' => 'han', 'HanXRQChr11g0346821' => 'han', 'HanXRQChr13g0397461' => 'han', 'HanXRQChr16g0513651' => 'han', 'HanXRQChr16g0513701' => 'han', 'Haze_00897' => 'cav', 'Haze_01745' => 'cav', 'Haze_02486' => 'cav', 'Haze_02487' => 'cav', 'Haze_23374' => 'cav', 'Hma1.2p1_0578F.1_g182520' => 'hma', 'Hma1.2p1_0602F.1_g187350' => 'hma', 'Hma1.2p1_0602F.1_g187360' => 'hma', 'Hma1.2p1_0874F.1_g231320' => 'hma', 'Hma1.2p1_1197F.1_g266210' => 'hma', 'Hma1.2p1_1197F.1_g266220' => 'hma', 'Hma1.2p1_2167F.1_g315895' => 'hma', 'Hma1.2p1_2190F.1_g316640' => 'hma', 'Hma1.2p1_3645F.1_g337153' => 'hma', 'HPP92_004907' => 'vpl', 'HPP92_012134' => 'vpl', 'HPP92_025136' => 'vpl', 'HPP92_026087' => 'vpl', 'Hund06782' => 'sun', 'Hund06784' => 'sun', 'Lalb_Chr01g0004861' => 'lal', 'Lalb_Chr02g0140591' => 'lal', 'Lalb_Chr02g0140611' => 'lal', 'Lalb_Chr03g0028101' => 'lal', 'Lalb_Chr07g0185791' => 'lal', 'Lalb_Chr12g0204491' => 'lal', 'Lalb_Chr13g0295671' => 'lal', 'Lalb_Chr19g0136461' => 'lal', 'Lalb_Chr21g0309191' => 'lal', 'Lj1g0028158' => 'lja', 'Lj1P236T38' => 'lonja', 'Lj2C32G2' => 'lonja', 'Lj2P944T8' => 'lonja', 'Lj2P963T15' => 'lonja', 'Lj3g0011788' => 'lja', 'Lj4g0025027' => 'lja', 'Lj5P255T36' => 'lonja', 'Lj6g0018866' => 'lja', 'Lj6P608T31' => 'lonja', 'LjContig00408g0008879' => 'lja', 'Lsat_1_v5_gn_5_105820' => 'lsa', 'Lsat_1_v5_gn_6_38800' => 'lsa', 'Lsat_1_v5_gn_7_67141' => 'lsa', 'Manes.04G003400' => 'mes', 'Manes.07G020000' => 'mes', 'Manes.07G020100' => 'mes', 'Manes.07G020150' => 'mes', 'Manes.10G061500' => 'mes', 'Manes.10G123200' => 'mes', 'Manes.11G161900' => 'mes', 'Manes.15G029300' => 'mes', 'Mapoly0071s0018' => 'mpo', 'Mapoly0082s0023' => 'mpo', 'Mapoly3477s0001' => 'mpo', 'MBI05_g31233_MAGBIO' => 'mbi', 'MBI09_g05946_MAGBIO' => 'mbi', 'MBI09_g05947_MAGBIO' => 'mbi', 'MBI17_g08346_MAGBIO' => 'mbi', 'MCO04G038' => 'mco', 'MCO09G370' => 'mco', 'MCO13G605' => 'mco', 'MD00G1075500' => 'mdo', 'MD03G1144300' => 'mdo', 'MD08G1236800' => 'mdo', 'MD13G1193300' => 'mdo', 'MD15G1428700' => 'mdo', 'Medtr1g112030' => 'mtr', 'Medtr1g112050' => 'mtr', 'Medtr2g006290' => 'mtr', 'Medtr2g086510' => 'mtr', 'Medtr4g053120' => 'mtr', 'Medtr5g006320' => 'mtr', 'Medtr8g088720' => 'mtr', 'MELO3C004712.2' => 'cme', 'MELO3C006533.2' => 'cme', 'MELO3C019438.2' => 'cme', 'MELO3C019440.2' => 'cme', 'MELO3C019441.2' => 'cme', 'MELO3C019895.2' => 'cme', 'Migut.B00811' => 'egut', 'Migut.D02447' => 'egut', 'Migut.F00875' => 'egut', 'Migut.N00186' => 'egut', 'Migut.N01051' => 'egut', 'Migut.N02491' => 'egut', 'Migut.O00784' => 'egut', 'MSTRG.12367' => 'ama', 'MSTRG.18756' => 'ama', 'MSTRG.21042' => 'ama', 'Nitab4.5_0000559g0040' => 'nta', 'Nitab4.5_0000667g0190' => 'nta', 'Nitab4.5_0000755g0160' => 'nta', 'Nitab4.5_0001216g0080' => 'nta', 'Nitab4.5_0004069g0040' => 'nta', 'Nitab4.5_0004129g0010' => 'nta', 'Nitab4.5_0005744g0030' => 'nta', 'Nitab4.5_0006996g0030' => 'nta', 'Nitab4.5_0008971g0040' => 'nta', 'Nitab4.5_0009769g0020' => 'nta', 'Nitab4.5_0009833g0010' => 'nta', 'Nitab4.5_0013140g0020' => 'nta', 'Nn003s41376' => 'nnu', 'Nn1g01857' => 'nnu', 'Nn1g03611' => 'nnu', 'Nn1g06853' => 'nnu', 'Nn3g18360' => 'nnu', 'Nn4g26328' => 'nnu', 'Nn5g27531' => 'nnu', 'Nn6g34899' => 'nnu', 'Nn7g36299' => 'nnu', 'Oeu021485.1' => 'oeu', 'Oeu022433.1' => 'oeu', 'Oeu032111.1' => 'oeu', 'Oeu051608.1' => 'oeu', 'Os01g0860601' => 'osa', 'Os03g0659200' => 'osa', 'Os03g0835900' => 'osa', 'Os04g0412200' => 'osa', 'Os05g0443500' => 'osa', 'Os07g0251500' => 'osa', 'Os08g0104600' => 'osa', 'Peaxi162Scf00003g00047' => 'pax', 'Peaxi162Scf00003g00052' => 'pax', 'Peaxi162Scf00003g00394' => 'pax', 'Peaxi162Scf00091g00621' => 'pax', 'Peaxi162Scf00152g00146' => 'pax', 'Peaxi162Scf00173g00025' => 'pax', 'Peaxi162Scf00195g00102' => 'pax', 'Peaxi162Scf00402g00013' => 'pax', 'Peaxi162Scf00519g00618' => 'pax', 'PGR004G2838' => 'pgr', 'PGR044G2275' => 'pgr', 'PGR102G1377' => 'pgr', 'PGR119G1245' => 'pgr', 'PGR142G4449' => 'pgr', 'PGSC0003DMG400004532' => 'stu', 'PGSC0003DMG400011950' => 'stu', 'PGSC0003DMG400023391' => 'stu', 'PGSC0003DMG400023985' => 'stu', 'PGSC0003DMG400026360' => 'stu', 'PGSC0003DMG400035711' => 'stu', 'PGSC0003DMG400037286' => 'stu', 'PGSC0003DMG402005881' => 'stu', 'Phvul.002G045400' => 'pvu', 'Phvul.006G216600' => 'pvu', 'Phvul.006G216700' => 'pvu', 'Phvul.006G216800' => 'pvu', 'Phvul.007G022500' => 'pvu', 'Phvul.011G094400' => 'pvu', 'Potri.001G470700' => 'ptr', 'Potri.003G015200' => 'ptr', 'Potri.004G202500' => 'ptr', 'Potri.004G218400' => 'ptr', 'Potri.008G020100' => 'ptr', 'Potri.008G153200' => 'ptr', 'Potri.009G163800' => 'ptr', 'Potri.010G087300' => 'ptr', 'Potri.010G239100' => 'ptr', 'Pp3c10_16100' => 'ppa', 'Pp3c10_16880' => 'ppa', 'Pp3c16_6230' => 'ppa', 'Pp3c17_18910' => 'ppa', 'Pp3c3_22119' => 'ppa', 'Pp3c3_22140' => 'ppa', 'Pp3c4_8159' => 'ppa', 'Pp3c4_8171' => 'ppa', 'Pp3c4_8330' => 'ppa', 'PRCOL_00004098' => 'pco', 'Prupe.1G013900' => 'ppe', 'Prupe.1G226300' => 'ppe', 'Prupe.1G573600' => 'ppe', 'Prupe.6G130100' => 'ppe', 'Psat3g090040' => 'psa', 'Psat4g210440' => 'psa', 'Psat6g231040' => 'psa', 'Psat6g231080' => 'psa', 'Psat7g063000' => 'psa', 'Psat7g188000' => 'psa', 'Psat7g188040' => 'psa', 'PSO017G0206' => 'pso', 'PSO170G0501' => 'pso', 'PSO170G6422' => 'pso', 'PSO210G7739' => 'pso', 'PSO339G1808' => 'pso', 'PSO339G6135' => 'pso', 'PSO384G0010' => 'pso', 'PSO384G0964' => 'pso', 'PSO761G0050' => 'pso', 'PSO782G4085' => 'pso', 'QL01p012264' => 'qlo', 'QL02p099491' => 'qlo', 'QL03p033868' => 'qlo', 'QL04p046678' => 'qlo', 'QL06p002448' => 'qlo', 'RcHm_v2.0_Chr4g0416181' => 'rch', 'RcHm_v2.0_Chr5g0044701' => 'rch', 'RcHm_v2.0_Chr6g0265781' => 'rch', 'RcHm_v2.0_Chr7g0221031' => 'rch', 'Rhsim04G0202000' => 'rsi', 'Rhsim11G0127300' => 'rsi', 'Rhsim13G0111800' => 'rsi', 'Sabra01G0165600' => 'sbr', 'Sabra03G0008300' => 'sbr', 'Sabra04G0136900' => 'sbr', 'Sabra08G0013400' => 'sbr', 'Sabra08G0116800' => 'sbr', 'Sabra09G0128000' => 'sbr', 'Sabra10G0055500' => 'sbr', 'Sabra10G0073300' => 'sbr', 'SalBow3G0385' => 'sbo', 'SalBow3G1119' => 'sbo', 'SalBow3G2005' => 'sbo', 'SalBow6G2563' => 'sbo', 'SalBow6G6386' => 'sbo', 'Sc06g0008800' => 'sci', 'Sc07g0004950' => 'sci', 'Sc09g0005340' => 'sci', 'Sc13g0004410' => 'sci', 'Sc21g0007090' => 'sci', 'Sed0009285' => 'sed', 'Sed0017583' => 'sed', 'Sed0019699' => 'sed', 'Sed0023107' => 'sed', 'SEGI_10916' => 'sgi', 'SEGI_16217' => 'sgi', 'SEGI_19466' => 'sgi', 'SEGI_41115' => 'sgi', 'SGA_v2.0_scaffold111G31534' => 'sas', 'SGA_v2.0_scaffold22G09864' => 'sas', 'SGA_v2.0_scaffold338G49219' => 'sas', 'SGA_v2.0_scaffold92G28298' => 'sas', 'SMO119G0064' => 'smo', 'SMO223G0038' => 'smo', 'SMO347G0584' => 'smo', 'SMO351G0010' => 'smo', 'SMO356G0404' => 'smo', 'Solyc01g103920.3' => 'sly', 'Solyc04g009710.2' => 'sly', 'Solyc05g055280.2' => 'sly', 'Solyc10g044520.3' => 'sly', 'Solyc10g075160.1' => 'sly', 'Solyc11g006910.3' => 'sly', 'Solyc11g068430.3' => 'sly', 'Sopen01g046310' => 'spe', 'Sopen03g001200' => 'spe', 'Sopen04g004830' => 'spe', 'Sopen05g033720' => 'spe', 'Sopen06g030740' => 'spe', 'Sopen10g013090' => 'spe', 'Sopen10g027630' => 'spe', 'Sopen10g027640' => 'spe', 'Sopen11g002820' => 'spe', 'Sopen11g027140' => 'spe', 'Sp1g09680' => 'spa', 'Sp2g03630' => 'spa', 'Sp4g10320' => 'spa', 'Sp6g33400' => 'spa', 'Sp7g13030' => 'spa', 'TAR365G0317' => 'tar', 'TAR376G0979' => 'tar', 'TAR623G1665' => 'tar', 'TAR633G2373' => 'tar', 'TAR636G1400' => 'tar', 'THA.LOC104800529' => 'tha', 'THA.LOC104808547' => 'tha', 'THA.LOC104809615' => 'tha', 'THA.LOC104815724' => 'tha', 'THA.LOC104818480' => 'tha', 'THA.LOC104819179' => 'tha', 'THA.LOC104822270' => 'tha', 'THA.LOC104826425' => 'tha', 'Thecc.02G089700' => 'tca', 'Thecc.04G232300' => 'tca', 'Thecc.09G283400' => 'tca', 'Thhalv10009020m.g' => 'esa', 'Thhalv10015506m.g' => 'esa', 'Thhalv10017364m.g' => 'esa', 'Thhalv10023742m.g' => 'esa', 'Thhalv10026483m.g' => 'esa', 'TPR.G17232' => 'tpr', 'TPR.G2133' => 'tpr', 'TPR.G2498' => 'tpr', 'TPR.G31942' => 'tpr', 'TPR.G37877' => 'tpr', 'TPR.G4571' => 'tpr', 'TWI14G1113' => 'twi', 'TWI15G0426' => 'twi', 'TWI31G1005' => 'twi', 'TWI38G0513' => 'twi', 'TWI38G1484' => 'twi', 'TWI73G1098' => 'twi', 'unitig_26.g10519' => 'ugi', 'unitig_736.g22395' => 'ugi', 'unitig_747.g21234' => 'ugi', 'unitig_747.g21942' => 'ugi', 'vmacro14351' => 'vma', 'VMungo0540G0082' => 'vmu', 'VMungo0540G0405' => 'vmu', 'VMungo0540G1486' => 'vmu', 'VMungo0540G1692' => 'vmu', 'VMungo0720G2473' => 'vmu', 'VMungo1127G1562' => 'vmu', 'VMungo1215G1918' => 'vmu', 'Zm00001eb052650' => 'zma', 'Zm00001eb063710' => 'zma', 'Zm00001eb083950' => 'zma', 'Zm00001eb174420' => 'zma', 'Zm00001eb260140' => 'zma', 'Zm00001eb260150' => 'zma', 'Zm00001eb260160' => 'zma', 'Zm00001eb348290' => 'zma', 'Zm00001eb366870' => 'zma', 'Zm00001eb421930' => 'zma' ), 'gf_id' => 'HOM05D001025', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001025' ), 'data_identifier' => 'HOM05D001025', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001025', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '592', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p22650' => 'bna', 'A01p29720' => 'bna', 'A03p26560' => 'bna', 'A03p68820' => 'bna', 'A04p20980' => 'bna', 'A06p07730' => 'bna', 'A07p18260' => 'bna', 'A08p33710' => 'bna', 'A09p16970' => 'bna', 'A10p27490' => 'bna', 'Aa31LG1G17300' => 'aar', 'Aa31LG1G3910' => 'aar', 'Aa31LG2G9630' => 'aar', 'Aa31LG5G8360' => 'aar', 'Aa31LG9G2410' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4699' => 'aag', 'Actinidia23512' => 'ach', 'Actinidia37080' => 'ach', 'Ah.01g020380' => 'amhyb', 'Ah.08g215710' => 'amhyb', 'Ah.09g225110' => 'amhyb', 'Ah.10g036680' => 'amhyb', 'AL1G21940' => 'aly', 'AL2G15540' => 'aly', 'AL4G21520' => 'aly', 'AL7G40960' => 'aly', 'Aqoxy2G01191' => 'aox', 'Aqoxy2G03393' => 'aox', 'Aqoxy4G02775' => 'aox', 'Aqoxy6G00058' => 'aox', 'arahy.Tifrunner.gnm1.ann1.9X74H2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CW3FX9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R485W7' => 'arhy', 'AT1G10960' => 'ath', 'AT1G60950' => 'ath', 'AT2G27510' => 'ath', 'AT4G14890' => 'ath', 'AT5G10000' => 'ath', 'ATR0665G624' => 'atr', 'ATR0697G138' => 'atr', 'ATR0776G046' => 'atr', 'ATR1134G135' => 'atr', 'Atru.chr12.1025' => 'acertr', 'Atru.chr3.3241' => 'acertr', 'Atru.chr4.2460' => 'acertr', 'AUR62007427' => 'cqu', 'AUR62010960' => 'cqu', 'AUR62012201' => 'cqu', 'AUR62021470' => 'cqu', 'AUR62022834' => 'cqu', 'AUR62033635' => 'cqu', 'AUR62036186' => 'cqu', 'BcaB01g03077' => 'bca', 'BcaB02g10093' => 'bca', 'BcaB04g20295' => 'bca', 'BcaB06g28147' => 'bca', 'BcaB07g31253' => 'bca', 'BcaC01g04946' => 'bca', 'BcaC02g10614' => 'bca', 'BcaC02g10885' => 'bca', 'BcaC04g19356' => 'bca', 'BcaC04g22297' => 'bca', 'BcaC05g24977' => 'bca', 'BcaC06g31823' => 'bca', 'BcaC07g38633' => 'bca', 'BcaC09g49353' => 'bca', 'BcaC09g50168' => 'bca', 'BcaNung00322' => 'bca', 'BcaNung04769' => 'bca', 'BolC1t02753H' => 'bol', 'BolC1t03721H' => 'bol', 'BolC3t15525H' => 'bol', 'BolC4t23903H' => 'bol', 'BolC4t24231H' => 'bol', 'BolC4t27209H' => 'bol', 'BolC5t29671H' => 'bol', 'BolC8t49044H' => 'bol', 'BolC9t54999H' => 'bol', 'BolC9t59517H' => 'bol', 'BraA01t02178Z' => 'bra', 'BraA01t03099Z' => 'bra', 'BraA03t11867Z' => 'bra', 'BraA04t17667Z' => 'bra', 'BraA07t29542Z' => 'bra', 'BraA08t35287Z' => 'bra', 'BraA09t37334Z' => 'bra', 'BraA10t44801Z' => 'bra', 'BraSC39t46181Z' => 'bra', 'C01p28240' => 'bna', 'C01p37530' => 'bna', 'C03p31820' => 'bna', 'C04p24080' => 'bna', 'C04p25790' => 'bna', 'C04p56770' => 'bna', 'C05p09310' => 'bna', 'C09p21010' => 'bna', 'C09p67560' => 'bna', 'CAN.G1324.7' => 'can', 'CAN.G1358.10' => 'can', 'CAN.G1550.2' => 'can', 'CAN.G186.56' => 'can', 'CAN.G1965.1' => 'can', 'CAN.G645.15' => 'can', 'CAN.G798.26' => 'can', 'CAN.G798.27' => 'can', 'CAN.G798.29' => 'can', 'CAN.G919.31' => 'can', 'CANSAT11G0133' => 'cansat', 'CANSAT11G1171' => 'cansat', 'CANSAT11G2056' => 'cansat', 'CANSAT56G1202' => 'cansat', 'CANSAT56G1514' => 'cansat', 'CANSAT78G0455' => 'cansat', 'CARHR011190' => 'chi', 'CARHR051980' => 'chi', 'CARHR120170' => 'chi', 'CARHR203310' => 'chi', 'CARHR221490' => 'chi', 'Carub.0001s1054' => 'cru', 'Carub.0002s0431' => 'cru', 'Carub.0004s0818' => 'cru', 'Carub.0006s0846' => 'cru', 'Carub.0007s2722' => 'cru', 'Ca_00058_v3' => 'car', 'Ca_17831_v3' => 'car', 'Ca_19408_v3' => 'car', 'Ca_24397_v3' => 'car', 'Ca_25664_v3' => 'car', 'CBR_g21818' => 'cbr', 'CBR_g31195' => 'cbr', 'CBR_g32282' => 'cbr', 'CBR_g39599' => 'cbr', 'CBR_g49410' => 'cbr', 'Cc01_g09120' => 'ccan', 'Cc01_g09130' => 'ccan', 'Cc02_g09630' => 'ccan', 'Cc02_g22810' => 'ccan', 'Cc03_g03810' => 'ccan', 'CDE02G3718' => 'cde', 'CDE04G3183' => 'cde', 'CDE07G1046' => 'cde', 'CDE08G0480' => 'cde', 'Cfa005493' => 'cfa', 'Cfa010312' => 'cfa', 'Cfa015648' => 'cfa', 'Ciclev10002793m.g' => 'ccl', 'Ciclev10003356m.g' => 'ccl', 'Ciclev10006141m.g' => 'ccl', 'Ciclev10016676m.g' => 'ccl', 'Ciclev10017081m.g' => 'ccl', 'Ciclev10029499m.g' => 'ccl', 'CiPaw.01G166300' => 'cil', 'CiPaw.06G145600' => 'cil', 'CiPaw.13G040100' => 'cil', 'CiPaw.13G135800' => 'cil', 'ClCG01G012230' => 'cla', 'ClCG05G009510' => 'cla', 'ClCG08G008270' => 'cla', 'COL.COLO4_11763' => 'col', 'COL.COLO4_19876' => 'col', 'COL.COLO4_21481' => 'col', 'Cpa.g.sc118.34' => 'cpa', 'Cpa.g.sc32.13' => 'cpa', 'Cpa.g.sc58.103' => 'cpa', 'Cre03.g183850' => 'cre', 'Cre06.g306350' => 'cre', 'Cre07.g334800' => 'cre', 'Cre12.g487900' => 'cre', 'Cre14.g626700' => 'cre', 'Cre16.g658400' => 'cre', 'Cre17.g700950' => 'cre', 'CsaV3_1G014830' => 'csa', 'CsaV3_3G013320' => 'csa', 'CsaV3_3G019210' => 'csa', 'CsaV3_3G019220' => 'csa', 'CsaV3_6G004230' => 'csa', 'CSS0003773' => 'camsi', 'CSS0004563' => 'camsi', 'CSS0013949' => 'camsi', 'CSS0025971' => 'camsi', 'CSS0028570' => 'camsi', 'CSS0033127' => 'camsi', 'CSS0036051' => 'camsi', 'CSS0040087' => 'camsi', 'CSS0043179' => 'camsi', 'DCAR_006161' => 'dca', 'DCAR_010351' => 'dca', 'DCAR_012197' => 'dca', 'DCAR_024162' => 'dca', 'Dinv01030' => 'din', 'Dinv10924' => 'din', 'Dinv11835' => 'din', 'Dinv22841' => 'din', 'Dinv42553' => 'din', 'Duzib052G0560' => 'dzi', 'Duzib132G0389' => 'dzi', 'Duzib150G1181' => 'dzi', 'Duzib168G0623' => 'dzi', 'Duzib170G1036' => 'dzi', 'Duzib212G0200' => 'dzi', 'Duzib248G0194' => 'dzi', 'ECA232G2193' => 'eca', 'ECA233G0302' => 'eca', 'ECA234G2813' => 'eca', 'ECA234G4866' => 'eca', 'ECA240G3932' => 'eca', 'ECA248G0385' => 'eca', 'EL10Ac2g04781' => 'bvu', 'EL10Ac3g06445' => 'bvu', 'EL10Ac7g15825' => 'bvu', 'EL10Ac8g18550' => 'bvu', 'Eucgr.B03849' => 'egr', 'Eucgr.I02744' => 'egr', 'Eucgr.J00264' => 'egr', 'Eucgr.J00493' => 'egr', 'FAN04G2181' => 'fan', 'FAN07G2666' => 'fan', 'FAN11G0024' => 'fan', 'FAN12G1105' => 'fan', 'FAN13G0302' => 'fan', 'FAN15G2781' => 'fan', 'FAN16G1274' => 'fan', 'FAN17G2988' => 'fan', 'FAN18G2621' => 'fan', 'FAN21G0013' => 'fan', 'FAN22G1211' => 'fan', 'FAN25G3626' => 'fan', 'FvH4_2g09491' => 'fve', 'FvH4_3g24910' => 'fve', 'FvH4_4g15630' => 'fve', 'FvH4_5g28820' => 'fve', 'Glyma.01G238000' => 'gma', 'Glyma.05G168400' => 'gma', 'Glyma.08G126800' => 'gma', 'Glyma.08G188500' => 'gma', 'Glyma.10G278900' => 'gma', 'Glyma.11G005700' => 'gma', 'Glyma.11G183300' => 'gma', 'Glyma.12G089200' => 'gma', 'Glyma.12G169400' => 'gma', 'Glyma.12G169500' => 'gma', 'Glyma.12G169600' => 'gma', 'Glyma.20G110800' => 'gma', 'Gohir.A03G192900' => 'ghi', 'Gohir.A03G193000' => 'ghi', 'Gohir.A05G080700' => 'ghi', 'Gohir.A09G216000' => 'ghi', 'Gohir.A12G027700' => 'ghi', 'Gohir.A13G036200' => 'ghi', 'Gohir.A13G222600' => 'ghi', 'Gohir.D02G213900' => 'ghi', 'Gohir.D02G214000' => 'ghi', 'Gohir.D05G083700' => 'ghi', 'Gohir.D05G083800' => 'ghi', 'Gohir.D05G083850' => 'ghi', 'Gohir.D08G015400' => 'ghi', 'Gohir.D09G218400' => 'ghi', 'Gohir.D12G027100' => 'ghi', 'Gohir.D13G034500' => 'ghi', 'Gohir.D13G227400' => 'ghi', 'Gorai.005G241800' => 'gra', 'Gorai.005G241900' => 'gra', 'Gorai.006G239400' => 'gra', 'Gorai.008G027600' => 'gra', 'Gorai.009G085400' => 'gra', 'Gorai.009G085500' => 'gra', 'Gorai.013G039000' => 'gra', 'Gorai.013G194800' => 'gra', 'Gorai.013G257900' => 'gra', 'GSVIVG01000982001' => 'vvi', 'GSVIVG01017981001' => 'vvi', 'HanXRQChr01g0024061' => 'han', 'HanXRQChr09g0247831' => 'han', 'HanXRQChr10g0294611' => 'han', 'HanXRQChr10g0294621' => 'han', 'HanXRQChr11g0346821' => 'han', 'HanXRQChr13g0397461' => 'han', 'HanXRQChr16g0513651' => 'han', 'HanXRQChr16g0513701' => 'han', 'Haze_00897' => 'cav', 'Haze_01745' => 'cav', 'Haze_02486' => 'cav', 'Haze_02487' => 'cav', 'Haze_23374' => 'cav', 'Hma1.2p1_0578F.1_g182520' => 'hma', 'Hma1.2p1_0602F.1_g187350' => 'hma', 'Hma1.2p1_0602F.1_g187360' => 'hma', 'Hma1.2p1_0874F.1_g231320' => 'hma', 'Hma1.2p1_1197F.1_g266210' => 'hma', 'Hma1.2p1_1197F.1_g266220' => 'hma', 'Hma1.2p1_2167F.1_g315895' => 'hma', 'Hma1.2p1_2190F.1_g316640' => 'hma', 'Hma1.2p1_3645F.1_g337153' => 'hma', 'HPP92_004907' => 'vpl', 'HPP92_012134' => 'vpl', 'HPP92_025136' => 'vpl', 'HPP92_026087' => 'vpl', 'Hund06782' => 'sun', 'Hund06784' => 'sun', 'Lalb_Chr01g0004861' => 'lal', 'Lalb_Chr02g0140591' => 'lal', 'Lalb_Chr02g0140611' => 'lal', 'Lalb_Chr03g0028101' => 'lal', 'Lalb_Chr07g0185791' => 'lal', 'Lalb_Chr12g0204491' => 'lal', 'Lalb_Chr13g0295671' => 'lal', 'Lalb_Chr19g0136461' => 'lal', 'Lalb_Chr21g0309191' => 'lal', 'Lj1g0028158' => 'lja', 'Lj1P236T38' => 'lonja', 'Lj2C32G2' => 'lonja', 'Lj2P944T8' => 'lonja', 'Lj2P963T15' => 'lonja', 'Lj3g0011788' => 'lja', 'Lj4g0025027' => 'lja', 'Lj5P255T36' => 'lonja', 'Lj6g0018866' => 'lja', 'Lj6P608T31' => 'lonja', 'LjContig00408g0008879' => 'lja', 'Lsat_1_v5_gn_5_105820' => 'lsa', 'Lsat_1_v5_gn_6_38800' => 'lsa', 'Lsat_1_v5_gn_7_67141' => 'lsa', 'Manes.04G003400' => 'mes', 'Manes.07G020000' => 'mes', 'Manes.07G020100' => 'mes', 'Manes.07G020150' => 'mes', 'Manes.10G061500' => 'mes', 'Manes.10G123200' => 'mes', 'Manes.11G161900' => 'mes', 'Manes.15G029300' => 'mes', 'Mapoly0071s0018' => 'mpo', 'Mapoly0082s0023' => 'mpo', 'Mapoly3477s0001' => 'mpo', 'MBI05_g31233_MAGBIO' => 'mbi', 'MBI09_g05946_MAGBIO' => 'mbi', 'MBI09_g05947_MAGBIO' => 'mbi', 'MBI17_g08346_MAGBIO' => 'mbi', 'MCO04G038' => 'mco', 'MCO09G370' => 'mco', 'MCO13G605' => 'mco', 'MD00G1075500' => 'mdo', 'MD03G1144300' => 'mdo', 'MD08G1236800' => 'mdo', 'MD13G1193300' => 'mdo', 'MD15G1428700' => 'mdo', 'Medtr1g112030' => 'mtr', 'Medtr1g112050' => 'mtr', 'Medtr2g006290' => 'mtr', 'Medtr2g086510' => 'mtr', 'Medtr4g053120' => 'mtr', 'Medtr5g006320' => 'mtr', 'Medtr8g088720' => 'mtr', 'MELO3C004712.2' => 'cme', 'MELO3C006533.2' => 'cme', 'MELO3C019438.2' => 'cme', 'MELO3C019440.2' => 'cme', 'MELO3C019441.2' => 'cme', 'MELO3C019895.2' => 'cme', 'Migut.B00811' => 'egut', 'Migut.D02447' => 'egut', 'Migut.F00875' => 'egut', 'Migut.N00186' => 'egut', 'Migut.N01051' => 'egut', 'Migut.N02491' => 'egut', 'Migut.O00784' => 'egut', 'MSTRG.12367' => 'ama', 'MSTRG.18756' => 'ama', 'MSTRG.21042' => 'ama', 'Nitab4.5_0000559g0040' => 'nta', 'Nitab4.5_0000667g0190' => 'nta', 'Nitab4.5_0000755g0160' => 'nta', 'Nitab4.5_0001216g0080' => 'nta', 'Nitab4.5_0004069g0040' => 'nta', 'Nitab4.5_0004129g0010' => 'nta', 'Nitab4.5_0005744g0030' => 'nta', 'Nitab4.5_0006996g0030' => 'nta', 'Nitab4.5_0008971g0040' => 'nta', 'Nitab4.5_0009769g0020' => 'nta', 'Nitab4.5_0009833g0010' => 'nta', 'Nitab4.5_0013140g0020' => 'nta', 'Nn003s41376' => 'nnu', 'Nn1g01857' => 'nnu', 'Nn1g03611' => 'nnu', 'Nn1g06853' => 'nnu', 'Nn3g18360' => 'nnu', 'Nn4g26328' => 'nnu', 'Nn5g27531' => 'nnu', 'Nn6g34899' => 'nnu', 'Nn7g36299' => 'nnu', 'Oeu021485.1' => 'oeu', 'Oeu022433.1' => 'oeu', 'Oeu032111.1' => 'oeu', 'Oeu051608.1' => 'oeu', 'Os01g0860601' => 'osa', 'Os03g0659200' => 'osa', 'Os03g0835900' => 'osa', 'Os04g0412200' => 'osa', 'Os05g0443500' => 'osa', 'Os07g0251500' => 'osa', 'Os08g0104600' => 'osa', 'Peaxi162Scf00003g00047' => 'pax', 'Peaxi162Scf00003g00052' => 'pax', 'Peaxi162Scf00003g00394' => 'pax', 'Peaxi162Scf00091g00621' => 'pax', 'Peaxi162Scf00152g00146' => 'pax', 'Peaxi162Scf00173g00025' => 'pax', 'Peaxi162Scf00195g00102' => 'pax', 'Peaxi162Scf00402g00013' => 'pax', 'Peaxi162Scf00519g00618' => 'pax', 'PGR004G2838' => 'pgr', 'PGR044G2275' => 'pgr', 'PGR102G1377' => 'pgr', 'PGR119G1245' => 'pgr', 'PGR142G4449' => 'pgr', 'PGSC0003DMG400004532' => 'stu', 'PGSC0003DMG400011950' => 'stu', 'PGSC0003DMG400023391' => 'stu', 'PGSC0003DMG400023985' => 'stu', 'PGSC0003DMG400026360' => 'stu', 'PGSC0003DMG400035711' => 'stu', 'PGSC0003DMG400037286' => 'stu', 'PGSC0003DMG402005881' => 'stu', 'Phvul.002G045400' => 'pvu', 'Phvul.006G216600' => 'pvu', 'Phvul.006G216700' => 'pvu', 'Phvul.006G216800' => 'pvu', 'Phvul.007G022500' => 'pvu', 'Phvul.011G094400' => 'pvu', 'Potri.001G470700' => 'ptr', 'Potri.003G015200' => 'ptr', 'Potri.004G202500' => 'ptr', 'Potri.004G218400' => 'ptr', 'Potri.008G020100' => 'ptr', 'Potri.008G153200' => 'ptr', 'Potri.009G163800' => 'ptr', 'Potri.010G087300' => 'ptr', 'Potri.010G239100' => 'ptr', 'Pp3c10_16100' => 'ppa', 'Pp3c10_16880' => 'ppa', 'Pp3c16_6230' => 'ppa', 'Pp3c17_18910' => 'ppa', 'Pp3c3_22119' => 'ppa', 'Pp3c3_22140' => 'ppa', 'Pp3c4_8159' => 'ppa', 'Pp3c4_8171' => 'ppa', 'Pp3c4_8330' => 'ppa', 'PRCOL_00004098' => 'pco', 'Prupe.1G013900' => 'ppe', 'Prupe.1G226300' => 'ppe', 'Prupe.1G573600' => 'ppe', 'Prupe.6G130100' => 'ppe', 'Psat3g090040' => 'psa', 'Psat4g210440' => 'psa', 'Psat6g231040' => 'psa', 'Psat6g231080' => 'psa', 'Psat7g063000' => 'psa', 'Psat7g188000' => 'psa', 'Psat7g188040' => 'psa', 'PSO017G0206' => 'pso', 'PSO170G0501' => 'pso', 'PSO170G6422' => 'pso', 'PSO210G7739' => 'pso', 'PSO339G1808' => 'pso', 'PSO339G6135' => 'pso', 'PSO384G0010' => 'pso', 'PSO384G0964' => 'pso', 'PSO761G0050' => 'pso', 'PSO782G4085' => 'pso', 'QL01p012264' => 'qlo', 'QL02p099491' => 'qlo', 'QL03p033868' => 'qlo', 'QL04p046678' => 'qlo', 'QL06p002448' => 'qlo', 'RcHm_v2.0_Chr4g0416181' => 'rch', 'RcHm_v2.0_Chr5g0044701' => 'rch', 'RcHm_v2.0_Chr6g0265781' => 'rch', 'RcHm_v2.0_Chr7g0221031' => 'rch', 'Rhsim04G0202000' => 'rsi', 'Rhsim11G0127300' => 'rsi', 'Rhsim13G0111800' => 'rsi', 'Sabra01G0165600' => 'sbr', 'Sabra03G0008300' => 'sbr', 'Sabra04G0136900' => 'sbr', 'Sabra08G0013400' => 'sbr', 'Sabra08G0116800' => 'sbr', 'Sabra09G0128000' => 'sbr', 'Sabra10G0055500' => 'sbr', 'Sabra10G0073300' => 'sbr', 'SalBow3G0385' => 'sbo', 'SalBow3G1119' => 'sbo', 'SalBow3G2005' => 'sbo', 'SalBow6G2563' => 'sbo', 'SalBow6G6386' => 'sbo', 'Sc06g0008800' => 'sci', 'Sc07g0004950' => 'sci', 'Sc09g0005340' => 'sci', 'Sc13g0004410' => 'sci', 'Sc21g0007090' => 'sci', 'Sed0009285' => 'sed', 'Sed0017583' => 'sed', 'Sed0019699' => 'sed', 'Sed0023107' => 'sed', 'SEGI_10916' => 'sgi', 'SEGI_16217' => 'sgi', 'SEGI_19466' => 'sgi', 'SEGI_41115' => 'sgi', 'SGA_v2.0_scaffold111G31534' => 'sas', 'SGA_v2.0_scaffold22G09864' => 'sas', 'SGA_v2.0_scaffold338G49219' => 'sas', 'SGA_v2.0_scaffold92G28298' => 'sas', 'SMO119G0064' => 'smo', 'SMO223G0038' => 'smo', 'SMO347G0584' => 'smo', 'SMO351G0010' => 'smo', 'SMO356G0404' => 'smo', 'Solyc01g103920.3' => 'sly', 'Solyc04g009710.2' => 'sly', 'Solyc05g055280.2' => 'sly', 'Solyc10g044520.3' => 'sly', 'Solyc10g075160.1' => 'sly', 'Solyc11g006910.3' => 'sly', 'Solyc11g068430.3' => 'sly', 'Sopen01g046310' => 'spe', 'Sopen03g001200' => 'spe', 'Sopen04g004830' => 'spe', 'Sopen05g033720' => 'spe', 'Sopen06g030740' => 'spe', 'Sopen10g013090' => 'spe', 'Sopen10g027630' => 'spe', 'Sopen10g027640' => 'spe', 'Sopen11g002820' => 'spe', 'Sopen11g027140' => 'spe', 'Sp1g09680' => 'spa', 'Sp2g03630' => 'spa', 'Sp4g10320' => 'spa', 'Sp6g33400' => 'spa', 'Sp7g13030' => 'spa', 'TAR365G0317' => 'tar', 'TAR376G0979' => 'tar', 'TAR623G1665' => 'tar', 'TAR633G2373' => 'tar', 'TAR636G1400' => 'tar', 'THA.LOC104800529' => 'tha', 'THA.LOC104808547' => 'tha', 'THA.LOC104809615' => 'tha', 'THA.LOC104815724' => 'tha', 'THA.LOC104818480' => 'tha', 'THA.LOC104819179' => 'tha', 'THA.LOC104822270' => 'tha', 'THA.LOC104826425' => 'tha', 'Thecc.02G089700' => 'tca', 'Thecc.04G232300' => 'tca', 'Thecc.09G283400' => 'tca', 'Thhalv10009020m.g' => 'esa', 'Thhalv10015506m.g' => 'esa', 'Thhalv10017364m.g' => 'esa', 'Thhalv10023742m.g' => 'esa', 'Thhalv10026483m.g' => 'esa', 'TPR.G17232' => 'tpr', 'TPR.G2133' => 'tpr', 'TPR.G2498' => 'tpr', 'TPR.G31942' => 'tpr', 'TPR.G37877' => 'tpr', 'TPR.G4571' => 'tpr', 'TWI14G1113' => 'twi', 'TWI15G0426' => 'twi', 'TWI31G1005' => 'twi', 'TWI38G0513' => 'twi', 'TWI38G1484' => 'twi', 'TWI73G1098' => 'twi', 'unitig_26.g10519' => 'ugi', 'unitig_736.g22395' => 'ugi', 'unitig_747.g21234' => 'ugi', 'unitig_747.g21942' => 'ugi', 'vmacro14351' => 'vma', 'VMungo0540G0082' => 'vmu', 'VMungo0540G0405' => 'vmu', 'VMungo0540G1486' => 'vmu', 'VMungo0540G1692' => 'vmu', 'VMungo0720G2473' => 'vmu', 'VMungo1127G1562' => 'vmu', 'VMungo1215G1918' => 'vmu', 'Zm00001eb052650' => 'zma', 'Zm00001eb063710' => 'zma', 'Zm00001eb083950' => 'zma', 'Zm00001eb174420' => 'zma', 'Zm00001eb260140' => 'zma', 'Zm00001eb260150' => 'zma', 'Zm00001eb260160' => 'zma', 'Zm00001eb348290' => 'zma', 'Zm00001eb366870' => 'zma', 'Zm00001eb421930' => 'zma' ) $gf_id = 'HOM05D001025' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001025' ) $data_identifier = 'HOM05D001025' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 19, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 2, 'amhyb' => (int) 4, 'aly' => (int) 4, 'aox' => (int) 4, 'arhy' => (int) 3, 'ath' => (int) 5, 'atr' => (int) 4, 'acertr' => (int) 3, 'cqu' => (int) 7, 'bca' => (int) 17, 'bol' => (int) 10, 'bra' => (int) 9, 'can' => (int) 10, 'cansat' => (int) 6, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 5, 'cbr' => (int) 5, 'ccan' => (int) 5, 'cde' => (int) 4, 'cfa' => (int) 3, 'ccl' => (int) 6, 'cil' => (int) 4, 'cla' => (int) 3, 'col' => (int) 3, 'cpa' => (int) 3, 'cre' => (int) 7, 'csa' => (int) 5, 'camsi' => (int) 9, 'dca' => (int) 4, 'din' => (int) 5, 'dzi' => (int) 7, 'eca' => (int) 6, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 12, 'fve' => (int) 4, 'gma' => (int) 12, 'ghi' => (int) 17, 'gra' => (int) 9, 'vvi' => (int) 2, 'han' => (int) 8, 'cav' => (int) 5, 'hma' => (int) 9, 'vpl' => (int) 4, 'sun' => (int) 2, 'lal' => (int) 9, 'lja' => (int) 5, 'lonja' => (int) 6, 'lsa' => (int) 3, 'mes' => (int) 8, 'mpo' => (int) 3, 'mbi' => (int) 4, 'mco' => (int) 3, 'mdo' => (int) 5, 'mtr' => (int) 7, 'cme' => (int) 6, 'egut' => (int) 7, 'ama' => (int) 3, 'nta' => (int) 12, 'nnu' => (int) 9, 'oeu' => (int) 4, 'osa' => (int) 7, 'pax' => (int) 9, 'pgr' => (int) 5, 'stu' => (int) 8, 'pvu' => (int) 6, 'ptr' => (int) 9, 'ppa' => (int) 9, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 7, 'pso' => (int) 10, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 3, 'sbr' => (int) 8, 'sbo' => (int) 5, 'sci' => (int) 5, 'sed' => (int) 4, 'sgi' => (int) 4, 'sas' => (int) 4, 'smo' => (int) 5, 'sly' => (int) 7, 'spe' => (int) 10, 'spa' => (int) 5, 'tar' => (int) 5, 'tha' => (int) 8, 'tca' => (int) 3, 'esa' => (int) 5, 'tpr' => (int) 6, 'twi' => (int) 6, 'ugi' => (int) 4, 'vma' => (int) 1, 'vmu' => (int) 7, 'zma' => (int) 10 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb421930' $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' => 'HOM05D001025', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '592', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p22650' => 'bna', 'A01p29720' => 'bna', 'A03p26560' => 'bna', 'A03p68820' => 'bna', 'A04p20980' => 'bna', 'A06p07730' => 'bna', 'A07p18260' => 'bna', 'A08p33710' => 'bna', 'A09p16970' => 'bna', 'A10p27490' => 'bna', 'Aa31LG1G17300' => 'aar', 'Aa31LG1G3910' => 'aar', 'Aa31LG2G9630' => 'aar', 'Aa31LG5G8360' => 'aar', 'Aa31LG9G2410' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4699' => 'aag', 'Actinidia23512' => 'ach', 'Actinidia37080' => 'ach', 'Ah.01g020380' => 'amhyb', 'Ah.08g215710' => 'amhyb', 'Ah.09g225110' => 'amhyb', 'Ah.10g036680' => 'amhyb', 'AL1G21940' => 'aly', 'AL2G15540' => 'aly', 'AL4G21520' => 'aly', 'AL7G40960' => 'aly', 'Aqoxy2G01191' => 'aox', 'Aqoxy2G03393' => 'aox', 'Aqoxy4G02775' => 'aox', 'Aqoxy6G00058' => 'aox', 'arahy.Tifrunner.gnm1.ann1.9X74H2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CW3FX9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R485W7' => 'arhy', 'AT1G10960' => 'ath', 'AT1G60950' => 'ath', 'AT2G27510' => 'ath', 'AT4G14890' => 'ath', 'AT5G10000' => 'ath', 'ATR0665G624' => 'atr', 'ATR0697G138' => 'atr', 'ATR0776G046' => 'atr', 'ATR1134G135' => 'atr', 'Atru.chr12.1025' => 'acertr', 'Atru.chr3.3241' => 'acertr', 'Atru.chr4.2460' => 'acertr', 'AUR62007427' => 'cqu', 'AUR62010960' => 'cqu', 'AUR62012201' => 'cqu', 'AUR62021470' => 'cqu', 'AUR62022834' => 'cqu', 'AUR62033635' => 'cqu', 'AUR62036186' => 'cqu', 'BcaB01g03077' => 'bca', 'BcaB02g10093' => 'bca', 'BcaB04g20295' => 'bca', 'BcaB06g28147' => 'bca', 'BcaB07g31253' => 'bca', 'BcaC01g04946' => 'bca', 'BcaC02g10614' => 'bca', 'BcaC02g10885' => 'bca', 'BcaC04g19356' => 'bca', 'BcaC04g22297' => 'bca', 'BcaC05g24977' => 'bca', 'BcaC06g31823' => 'bca', 'BcaC07g38633' => 'bca', 'BcaC09g49353' => 'bca', 'BcaC09g50168' => 'bca', 'BcaNung00322' => 'bca', 'BcaNung04769' => 'bca', 'BolC1t02753H' => 'bol', 'BolC1t03721H' => 'bol', 'BolC3t15525H' => 'bol', 'BolC4t23903H' => 'bol', 'BolC4t24231H' => 'bol', 'BolC4t27209H' => 'bol', 'BolC5t29671H' => 'bol', 'BolC8t49044H' => 'bol', 'BolC9t54999H' => 'bol', 'BolC9t59517H' => 'bol', 'BraA01t02178Z' => 'bra', 'BraA01t03099Z' => 'bra', 'BraA03t11867Z' => 'bra', 'BraA04t17667Z' => 'bra', 'BraA07t29542Z' => 'bra', 'BraA08t35287Z' => 'bra', 'BraA09t37334Z' => 'bra', 'BraA10t44801Z' => 'bra', 'BraSC39t46181Z' => 'bra', 'C01p28240' => 'bna', 'C01p37530' => 'bna', 'C03p31820' => 'bna', 'C04p24080' => 'bna', 'C04p25790' => 'bna', 'C04p56770' => 'bna', 'C05p09310' => 'bna', 'C09p21010' => 'bna', 'C09p67560' => 'bna', 'CAN.G1324.7' => 'can', 'CAN.G1358.10' => 'can', 'CAN.G1550.2' => 'can', 'CAN.G186.56' => 'can', 'CAN.G1965.1' => 'can', 'CAN.G645.15' => 'can', 'CAN.G798.26' => 'can', 'CAN.G798.27' => 'can', 'CAN.G798.29' => 'can', 'CAN.G919.31' => 'can', 'CANSAT11G0133' => 'cansat', 'CANSAT11G1171' => 'cansat', 'CANSAT11G2056' => 'cansat', 'CANSAT56G1202' => 'cansat', 'CANSAT56G1514' => 'cansat', 'CANSAT78G0455' => 'cansat', 'CARHR011190' => 'chi', 'CARHR051980' => 'chi', 'CARHR120170' => 'chi', 'CARHR203310' => 'chi', 'CARHR221490' => 'chi', 'Carub.0001s1054' => 'cru', 'Carub.0002s0431' => 'cru', 'Carub.0004s0818' => 'cru', 'Carub.0006s0846' => 'cru', 'Carub.0007s2722' => 'cru', 'Ca_00058_v3' => 'car', 'Ca_17831_v3' => 'car', 'Ca_19408_v3' => 'car', 'Ca_24397_v3' => 'car', 'Ca_25664_v3' => 'car', 'CBR_g21818' => 'cbr', 'CBR_g31195' => 'cbr', 'CBR_g32282' => 'cbr', 'CBR_g39599' => 'cbr', 'CBR_g49410' => 'cbr', 'Cc01_g09120' => 'ccan', 'Cc01_g09130' => 'ccan', 'Cc02_g09630' => 'ccan', 'Cc02_g22810' => 'ccan', 'Cc03_g03810' => 'ccan', 'CDE02G3718' => 'cde', 'CDE04G3183' => 'cde', 'CDE07G1046' => 'cde', 'CDE08G0480' => 'cde', 'Cfa005493' => 'cfa', 'Cfa010312' => 'cfa', 'Cfa015648' => 'cfa', 'Ciclev10002793m.g' => 'ccl', 'Ciclev10003356m.g' => 'ccl', 'Ciclev10006141m.g' => 'ccl', 'Ciclev10016676m.g' => 'ccl', 'Ciclev10017081m.g' => 'ccl', 'Ciclev10029499m.g' => 'ccl', 'CiPaw.01G166300' => 'cil', 'CiPaw.06G145600' => 'cil', 'CiPaw.13G040100' => 'cil', 'CiPaw.13G135800' => 'cil', 'ClCG01G012230' => 'cla', 'ClCG05G009510' => 'cla', 'ClCG08G008270' => 'cla', 'COL.COLO4_11763' => 'col', 'COL.COLO4_19876' => 'col', 'COL.COLO4_21481' => 'col', 'Cpa.g.sc118.34' => 'cpa', 'Cpa.g.sc32.13' => 'cpa', 'Cpa.g.sc58.103' => 'cpa', 'Cre03.g183850' => 'cre', 'Cre06.g306350' => 'cre', 'Cre07.g334800' => 'cre', 'Cre12.g487900' => 'cre', 'Cre14.g626700' => 'cre', 'Cre16.g658400' => 'cre', 'Cre17.g700950' => 'cre', 'CsaV3_1G014830' => 'csa', 'CsaV3_3G013320' => 'csa', 'CsaV3_3G019210' => 'csa', 'CsaV3_3G019220' => 'csa', 'CsaV3_6G004230' => 'csa', 'CSS0003773' => 'camsi', 'CSS0004563' => 'camsi', 'CSS0013949' => 'camsi', 'CSS0025971' => 'camsi', 'CSS0028570' => 'camsi', 'CSS0033127' => 'camsi', 'CSS0036051' => 'camsi', 'CSS0040087' => 'camsi', 'CSS0043179' => 'camsi', 'DCAR_006161' => 'dca', 'DCAR_010351' => 'dca', 'DCAR_012197' => 'dca', 'DCAR_024162' => 'dca', 'Dinv01030' => 'din', 'Dinv10924' => 'din', 'Dinv11835' => 'din', 'Dinv22841' => 'din', 'Dinv42553' => 'din', 'Duzib052G0560' => 'dzi', 'Duzib132G0389' => 'dzi', 'Duzib150G1181' => 'dzi', 'Duzib168G0623' => 'dzi', 'Duzib170G1036' => 'dzi', 'Duzib212G0200' => 'dzi', 'Duzib248G0194' => 'dzi', 'ECA232G2193' => 'eca', 'ECA233G0302' => 'eca', 'ECA234G2813' => 'eca', 'ECA234G4866' => 'eca', 'ECA240G3932' => 'eca', 'ECA248G0385' => 'eca', 'EL10Ac2g04781' => 'bvu', 'EL10Ac3g06445' => 'bvu', 'EL10Ac7g15825' => 'bvu', 'EL10Ac8g18550' => 'bvu', 'Eucgr.B03849' => 'egr', 'Eucgr.I02744' => 'egr', 'Eucgr.J00264' => 'egr', 'Eucgr.J00493' => 'egr', 'FAN04G2181' => 'fan', 'FAN07G2666' => 'fan', 'FAN11G0024' => 'fan', 'FAN12G1105' => 'fan', 'FAN13G0302' => 'fan', 'FAN15G2781' => 'fan', 'FAN16G1274' => 'fan', 'FAN17G2988' => 'fan', 'FAN18G2621' => 'fan', 'FAN21G0013' => 'fan', 'FAN22G1211' => 'fan', 'FAN25G3626' => 'fan', 'FvH4_2g09491' => 'fve', 'FvH4_3g24910' => 'fve', 'FvH4_4g15630' => 'fve', 'FvH4_5g28820' => 'fve', 'Glyma.01G238000' => 'gma', 'Glyma.05G168400' => 'gma', 'Glyma.08G126800' => 'gma', 'Glyma.08G188500' => 'gma', 'Glyma.10G278900' => 'gma', 'Glyma.11G005700' => 'gma', 'Glyma.11G183300' => 'gma', 'Glyma.12G089200' => 'gma', 'Glyma.12G169400' => 'gma', 'Glyma.12G169500' => 'gma', 'Glyma.12G169600' => 'gma', 'Glyma.20G110800' => 'gma', 'Gohir.A03G192900' => 'ghi', 'Gohir.A03G193000' => 'ghi', 'Gohir.A05G080700' => 'ghi', 'Gohir.A09G216000' => 'ghi', 'Gohir.A12G027700' => 'ghi', 'Gohir.A13G036200' => 'ghi', 'Gohir.A13G222600' => 'ghi', 'Gohir.D02G213900' => 'ghi', 'Gohir.D02G214000' => 'ghi', 'Gohir.D05G083700' => 'ghi', 'Gohir.D05G083800' => 'ghi', 'Gohir.D05G083850' => 'ghi', 'Gohir.D08G015400' => 'ghi', 'Gohir.D09G218400' => 'ghi', 'Gohir.D12G027100' => 'ghi', 'Gohir.D13G034500' => 'ghi', 'Gohir.D13G227400' => 'ghi', 'Gorai.005G241800' => 'gra', 'Gorai.005G241900' => 'gra', 'Gorai.006G239400' => 'gra', 'Gorai.008G027600' => 'gra', 'Gorai.009G085400' => 'gra', 'Gorai.009G085500' => 'gra', 'Gorai.013G039000' => 'gra', 'Gorai.013G194800' => 'gra', 'Gorai.013G257900' => 'gra', 'GSVIVG01000982001' => 'vvi', 'GSVIVG01017981001' => 'vvi', 'HanXRQChr01g0024061' => 'han', 'HanXRQChr09g0247831' => 'han', 'HanXRQChr10g0294611' => 'han', 'HanXRQChr10g0294621' => 'han', 'HanXRQChr11g0346821' => 'han', 'HanXRQChr13g0397461' => 'han', 'HanXRQChr16g0513651' => 'han', 'HanXRQChr16g0513701' => 'han', 'Haze_00897' => 'cav', 'Haze_01745' => 'cav', 'Haze_02486' => 'cav', 'Haze_02487' => 'cav', 'Haze_23374' => 'cav', 'Hma1.2p1_0578F.1_g182520' => 'hma', 'Hma1.2p1_0602F.1_g187350' => 'hma', 'Hma1.2p1_0602F.1_g187360' => 'hma', 'Hma1.2p1_0874F.1_g231320' => 'hma', 'Hma1.2p1_1197F.1_g266210' => 'hma', 'Hma1.2p1_1197F.1_g266220' => 'hma', 'Hma1.2p1_2167F.1_g315895' => 'hma', 'Hma1.2p1_2190F.1_g316640' => 'hma', 'Hma1.2p1_3645F.1_g337153' => 'hma', 'HPP92_004907' => 'vpl', 'HPP92_012134' => 'vpl', 'HPP92_025136' => 'vpl', 'HPP92_026087' => 'vpl', 'Hund06782' => 'sun', 'Hund06784' => 'sun', 'Lalb_Chr01g0004861' => 'lal', 'Lalb_Chr02g0140591' => 'lal', 'Lalb_Chr02g0140611' => 'lal', 'Lalb_Chr03g0028101' => 'lal', 'Lalb_Chr07g0185791' => 'lal', 'Lalb_Chr12g0204491' => 'lal', 'Lalb_Chr13g0295671' => 'lal', 'Lalb_Chr19g0136461' => 'lal', 'Lalb_Chr21g0309191' => 'lal', 'Lj1g0028158' => 'lja', 'Lj1P236T38' => 'lonja', 'Lj2C32G2' => 'lonja', 'Lj2P944T8' => 'lonja', 'Lj2P963T15' => 'lonja', 'Lj3g0011788' => 'lja', 'Lj4g0025027' => 'lja', 'Lj5P255T36' => 'lonja', 'Lj6g0018866' => 'lja', 'Lj6P608T31' => 'lonja', 'LjContig00408g0008879' => 'lja', 'Lsat_1_v5_gn_5_105820' => 'lsa', 'Lsat_1_v5_gn_6_38800' => 'lsa', 'Lsat_1_v5_gn_7_67141' => 'lsa', 'Manes.04G003400' => 'mes', 'Manes.07G020000' => 'mes', 'Manes.07G020100' => 'mes', 'Manes.07G020150' => 'mes', 'Manes.10G061500' => 'mes', 'Manes.10G123200' => 'mes', 'Manes.11G161900' => 'mes', 'Manes.15G029300' => 'mes', 'Mapoly0071s0018' => 'mpo', 'Mapoly0082s0023' => 'mpo', 'Mapoly3477s0001' => 'mpo', 'MBI05_g31233_MAGBIO' => 'mbi', 'MBI09_g05946_MAGBIO' => 'mbi', 'MBI09_g05947_MAGBIO' => 'mbi', 'MBI17_g08346_MAGBIO' => 'mbi', 'MCO04G038' => 'mco', 'MCO09G370' => 'mco', 'MCO13G605' => 'mco', 'MD00G1075500' => 'mdo', 'MD03G1144300' => 'mdo', 'MD08G1236800' => 'mdo', 'MD13G1193300' => 'mdo', 'MD15G1428700' => 'mdo', 'Medtr1g112030' => 'mtr', 'Medtr1g112050' => 'mtr', 'Medtr2g006290' => 'mtr', 'Medtr2g086510' => 'mtr', 'Medtr4g053120' => 'mtr', 'Medtr5g006320' => 'mtr', 'Medtr8g088720' => 'mtr', 'MELO3C004712.2' => 'cme', 'MELO3C006533.2' => 'cme', 'MELO3C019438.2' => 'cme', 'MELO3C019440.2' => 'cme', 'MELO3C019441.2' => 'cme', 'MELO3C019895.2' => 'cme', 'Migut.B00811' => 'egut', 'Migut.D02447' => 'egut', 'Migut.F00875' => 'egut', 'Migut.N00186' => 'egut', 'Migut.N01051' => 'egut', 'Migut.N02491' => 'egut', 'Migut.O00784' => 'egut', 'MSTRG.12367' => 'ama', 'MSTRG.18756' => 'ama', 'MSTRG.21042' => 'ama', 'Nitab4.5_0000559g0040' => 'nta', 'Nitab4.5_0000667g0190' => 'nta', 'Nitab4.5_0000755g0160' => 'nta', 'Nitab4.5_0001216g0080' => 'nta', 'Nitab4.5_0004069g0040' => 'nta', 'Nitab4.5_0004129g0010' => 'nta', 'Nitab4.5_0005744g0030' => 'nta', 'Nitab4.5_0006996g0030' => 'nta', 'Nitab4.5_0008971g0040' => 'nta', 'Nitab4.5_0009769g0020' => 'nta', 'Nitab4.5_0009833g0010' => 'nta', 'Nitab4.5_0013140g0020' => 'nta', 'Nn003s41376' => 'nnu', 'Nn1g01857' => 'nnu', 'Nn1g03611' => 'nnu', 'Nn1g06853' => 'nnu', 'Nn3g18360' => 'nnu', 'Nn4g26328' => 'nnu', 'Nn5g27531' => 'nnu', 'Nn6g34899' => 'nnu', 'Nn7g36299' => 'nnu', 'Oeu021485.1' => 'oeu', 'Oeu022433.1' => 'oeu', 'Oeu032111.1' => 'oeu', 'Oeu051608.1' => 'oeu', 'Os01g0860601' => 'osa', 'Os03g0659200' => 'osa', 'Os03g0835900' => 'osa', 'Os04g0412200' => 'osa', 'Os05g0443500' => 'osa', 'Os07g0251500' => 'osa', 'Os08g0104600' => 'osa', 'Peaxi162Scf00003g00047' => 'pax', 'Peaxi162Scf00003g00052' => 'pax', 'Peaxi162Scf00003g00394' => 'pax', 'Peaxi162Scf00091g00621' => 'pax', 'Peaxi162Scf00152g00146' => 'pax', 'Peaxi162Scf00173g00025' => 'pax', 'Peaxi162Scf00195g00102' => 'pax', 'Peaxi162Scf00402g00013' => 'pax', 'Peaxi162Scf00519g00618' => 'pax', 'PGR004G2838' => 'pgr', 'PGR044G2275' => 'pgr', 'PGR102G1377' => 'pgr', 'PGR119G1245' => 'pgr', 'PGR142G4449' => 'pgr', 'PGSC0003DMG400004532' => 'stu', 'PGSC0003DMG400011950' => 'stu', 'PGSC0003DMG400023391' => 'stu', 'PGSC0003DMG400023985' => 'stu', 'PGSC0003DMG400026360' => 'stu', 'PGSC0003DMG400035711' => 'stu', 'PGSC0003DMG400037286' => 'stu', 'PGSC0003DMG402005881' => 'stu', 'Phvul.002G045400' => 'pvu', 'Phvul.006G216600' => 'pvu', 'Phvul.006G216700' => 'pvu', 'Phvul.006G216800' => 'pvu', 'Phvul.007G022500' => 'pvu', 'Phvul.011G094400' => 'pvu', 'Potri.001G470700' => 'ptr', 'Potri.003G015200' => 'ptr', 'Potri.004G202500' => 'ptr', 'Potri.004G218400' => 'ptr', 'Potri.008G020100' => 'ptr', 'Potri.008G153200' => 'ptr', 'Potri.009G163800' => 'ptr', 'Potri.010G087300' => 'ptr', 'Potri.010G239100' => 'ptr', 'Pp3c10_16100' => 'ppa', 'Pp3c10_16880' => 'ppa', 'Pp3c16_6230' => 'ppa', 'Pp3c17_18910' => 'ppa', 'Pp3c3_22119' => 'ppa', 'Pp3c3_22140' => 'ppa', 'Pp3c4_8159' => 'ppa', 'Pp3c4_8171' => 'ppa', 'Pp3c4_8330' => 'ppa', 'PRCOL_00004098' => 'pco', 'Prupe.1G013900' => 'ppe', 'Prupe.1G226300' => 'ppe', 'Prupe.1G573600' => 'ppe', 'Prupe.6G130100' => 'ppe', 'Psat3g090040' => 'psa', 'Psat4g210440' => 'psa', 'Psat6g231040' => 'psa', 'Psat6g231080' => 'psa', 'Psat7g063000' => 'psa', 'Psat7g188000' => 'psa', 'Psat7g188040' => 'psa', 'PSO017G0206' => 'pso', 'PSO170G0501' => 'pso', 'PSO170G6422' => 'pso', 'PSO210G7739' => 'pso', 'PSO339G1808' => 'pso', 'PSO339G6135' => 'pso', 'PSO384G0010' => 'pso', 'PSO384G0964' => 'pso', 'PSO761G0050' => 'pso', 'PSO782G4085' => 'pso', 'QL01p012264' => 'qlo', 'QL02p099491' => 'qlo', 'QL03p033868' => 'qlo', 'QL04p046678' => 'qlo', 'QL06p002448' => 'qlo', 'RcHm_v2.0_Chr4g0416181' => 'rch', 'RcHm_v2.0_Chr5g0044701' => 'rch', 'RcHm_v2.0_Chr6g0265781' => 'rch', 'RcHm_v2.0_Chr7g0221031' => 'rch', 'Rhsim04G0202000' => 'rsi', 'Rhsim11G0127300' => 'rsi', 'Rhsim13G0111800' => 'rsi', 'Sabra01G0165600' => 'sbr', 'Sabra03G0008300' => 'sbr', 'Sabra04G0136900' => 'sbr', 'Sabra08G0013400' => 'sbr', 'Sabra08G0116800' => 'sbr', 'Sabra09G0128000' => 'sbr', 'Sabra10G0055500' => 'sbr', 'Sabra10G0073300' => 'sbr', 'SalBow3G0385' => 'sbo', 'SalBow3G1119' => 'sbo', 'SalBow3G2005' => 'sbo', 'SalBow6G2563' => 'sbo', 'SalBow6G6386' => 'sbo', 'Sc06g0008800' => 'sci', 'Sc07g0004950' => 'sci', 'Sc09g0005340' => 'sci', 'Sc13g0004410' => 'sci', 'Sc21g0007090' => 'sci', 'Sed0009285' => 'sed', 'Sed0017583' => 'sed', 'Sed0019699' => 'sed', 'Sed0023107' => 'sed', 'SEGI_10916' => 'sgi', 'SEGI_16217' => 'sgi', 'SEGI_19466' => 'sgi', 'SEGI_41115' => 'sgi', 'SGA_v2.0_scaffold111G31534' => 'sas', 'SGA_v2.0_scaffold22G09864' => 'sas', 'SGA_v2.0_scaffold338G49219' => 'sas', 'SGA_v2.0_scaffold92G28298' => 'sas', 'SMO119G0064' => 'smo', 'SMO223G0038' => 'smo', 'SMO347G0584' => 'smo', 'SMO351G0010' => 'smo', 'SMO356G0404' => 'smo', 'Solyc01g103920.3' => 'sly', 'Solyc04g009710.2' => 'sly', 'Solyc05g055280.2' => 'sly', 'Solyc10g044520.3' => 'sly', 'Solyc10g075160.1' => 'sly', 'Solyc11g006910.3' => 'sly', 'Solyc11g068430.3' => 'sly', 'Sopen01g046310' => 'spe', 'Sopen03g001200' => 'spe', 'Sopen04g004830' => 'spe', 'Sopen05g033720' => 'spe', 'Sopen06g030740' => 'spe', 'Sopen10g013090' => 'spe', 'Sopen10g027630' => 'spe', 'Sopen10g027640' => 'spe', 'Sopen11g002820' => 'spe', 'Sopen11g027140' => 'spe', 'Sp1g09680' => 'spa', 'Sp2g03630' => 'spa', 'Sp4g10320' => 'spa', 'Sp6g33400' => 'spa', 'Sp7g13030' => 'spa', 'TAR365G0317' => 'tar', 'TAR376G0979' => 'tar', 'TAR623G1665' => 'tar', 'TAR633G2373' => 'tar', 'TAR636G1400' => 'tar', 'THA.LOC104800529' => 'tha', 'THA.LOC104808547' => 'tha', 'THA.LOC104809615' => 'tha', 'THA.LOC104815724' => 'tha', 'THA.LOC104818480' => 'tha', 'THA.LOC104819179' => 'tha', 'THA.LOC104822270' => 'tha', 'THA.LOC104826425' => 'tha', 'Thecc.02G089700' => 'tca', 'Thecc.04G232300' => 'tca', 'Thecc.09G283400' => 'tca', 'Thhalv10009020m.g' => 'esa', 'Thhalv10015506m.g' => 'esa', 'Thhalv10017364m.g' => 'esa', 'Thhalv10023742m.g' => 'esa', 'Thhalv10026483m.g' => 'esa', 'TPR.G17232' => 'tpr', 'TPR.G2133' => 'tpr', 'TPR.G2498' => 'tpr', 'TPR.G31942' => 'tpr', 'TPR.G37877' => 'tpr', 'TPR.G4571' => 'tpr', 'TWI14G1113' => 'twi', 'TWI15G0426' => 'twi', 'TWI31G1005' => 'twi', 'TWI38G0513' => 'twi', 'TWI38G1484' => 'twi', 'TWI73G1098' => 'twi', 'unitig_26.g10519' => 'ugi', 'unitig_736.g22395' => 'ugi', 'unitig_747.g21234' => 'ugi', 'unitig_747.g21942' => 'ugi', 'vmacro14351' => 'vma', 'VMungo0540G0082' => 'vmu', 'VMungo0540G0405' => 'vmu', 'VMungo0540G1486' => 'vmu', 'VMungo0540G1692' => 'vmu', 'VMungo0720G2473' => 'vmu', 'VMungo1127G1562' => 'vmu', 'VMungo1215G1918' => 'vmu', 'Zm00001eb052650' => 'zma', 'Zm00001eb063710' => 'zma', 'Zm00001eb083950' => 'zma', 'Zm00001eb174420' => 'zma', 'Zm00001eb260140' => 'zma', 'Zm00001eb260150' => 'zma', 'Zm00001eb260160' => 'zma', 'Zm00001eb348290' => 'zma', 'Zm00001eb366870' => 'zma', 'Zm00001eb421930' => 'zma' ), 'gf_id' => 'HOM05D001025', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001025' ), 'data_identifier' => 'HOM05D001025', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001025', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '592', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p22650' => 'bna', 'A01p29720' => 'bna', 'A03p26560' => 'bna', 'A03p68820' => 'bna', 'A04p20980' => 'bna', 'A06p07730' => 'bna', 'A07p18260' => 'bna', 'A08p33710' => 'bna', 'A09p16970' => 'bna', 'A10p27490' => 'bna', 'Aa31LG1G17300' => 'aar', 'Aa31LG1G3910' => 'aar', 'Aa31LG2G9630' => 'aar', 'Aa31LG5G8360' => 'aar', 'Aa31LG9G2410' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4699' => 'aag', 'Actinidia23512' => 'ach', 'Actinidia37080' => 'ach', 'Ah.01g020380' => 'amhyb', 'Ah.08g215710' => 'amhyb', 'Ah.09g225110' => 'amhyb', 'Ah.10g036680' => 'amhyb', 'AL1G21940' => 'aly', 'AL2G15540' => 'aly', 'AL4G21520' => 'aly', 'AL7G40960' => 'aly', 'Aqoxy2G01191' => 'aox', 'Aqoxy2G03393' => 'aox', 'Aqoxy4G02775' => 'aox', 'Aqoxy6G00058' => 'aox', 'arahy.Tifrunner.gnm1.ann1.9X74H2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CW3FX9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R485W7' => 'arhy', 'AT1G10960' => 'ath', 'AT1G60950' => 'ath', 'AT2G27510' => 'ath', 'AT4G14890' => 'ath', 'AT5G10000' => 'ath', 'ATR0665G624' => 'atr', 'ATR0697G138' => 'atr', 'ATR0776G046' => 'atr', 'ATR1134G135' => 'atr', 'Atru.chr12.1025' => 'acertr', 'Atru.chr3.3241' => 'acertr', 'Atru.chr4.2460' => 'acertr', 'AUR62007427' => 'cqu', 'AUR62010960' => 'cqu', 'AUR62012201' => 'cqu', 'AUR62021470' => 'cqu', 'AUR62022834' => 'cqu', 'AUR62033635' => 'cqu', 'AUR62036186' => 'cqu', 'BcaB01g03077' => 'bca', 'BcaB02g10093' => 'bca', 'BcaB04g20295' => 'bca', 'BcaB06g28147' => 'bca', 'BcaB07g31253' => 'bca', 'BcaC01g04946' => 'bca', 'BcaC02g10614' => 'bca', 'BcaC02g10885' => 'bca', 'BcaC04g19356' => 'bca', 'BcaC04g22297' => 'bca', 'BcaC05g24977' => 'bca', 'BcaC06g31823' => 'bca', 'BcaC07g38633' => 'bca', 'BcaC09g49353' => 'bca', 'BcaC09g50168' => 'bca', 'BcaNung00322' => 'bca', 'BcaNung04769' => 'bca', 'BolC1t02753H' => 'bol', 'BolC1t03721H' => 'bol', 'BolC3t15525H' => 'bol', 'BolC4t23903H' => 'bol', 'BolC4t24231H' => 'bol', 'BolC4t27209H' => 'bol', 'BolC5t29671H' => 'bol', 'BolC8t49044H' => 'bol', 'BolC9t54999H' => 'bol', 'BolC9t59517H' => 'bol', 'BraA01t02178Z' => 'bra', 'BraA01t03099Z' => 'bra', 'BraA03t11867Z' => 'bra', 'BraA04t17667Z' => 'bra', 'BraA07t29542Z' => 'bra', 'BraA08t35287Z' => 'bra', 'BraA09t37334Z' => 'bra', 'BraA10t44801Z' => 'bra', 'BraSC39t46181Z' => 'bra', 'C01p28240' => 'bna', 'C01p37530' => 'bna', 'C03p31820' => 'bna', 'C04p24080' => 'bna', 'C04p25790' => 'bna', 'C04p56770' => 'bna', 'C05p09310' => 'bna', 'C09p21010' => 'bna', 'C09p67560' => 'bna', 'CAN.G1324.7' => 'can', 'CAN.G1358.10' => 'can', 'CAN.G1550.2' => 'can', 'CAN.G186.56' => 'can', 'CAN.G1965.1' => 'can', 'CAN.G645.15' => 'can', 'CAN.G798.26' => 'can', 'CAN.G798.27' => 'can', 'CAN.G798.29' => 'can', 'CAN.G919.31' => 'can', 'CANSAT11G0133' => 'cansat', 'CANSAT11G1171' => 'cansat', 'CANSAT11G2056' => 'cansat', 'CANSAT56G1202' => 'cansat', 'CANSAT56G1514' => 'cansat', 'CANSAT78G0455' => 'cansat', 'CARHR011190' => 'chi', 'CARHR051980' => 'chi', 'CARHR120170' => 'chi', 'CARHR203310' => 'chi', 'CARHR221490' => 'chi', 'Carub.0001s1054' => 'cru', 'Carub.0002s0431' => 'cru', 'Carub.0004s0818' => 'cru', 'Carub.0006s0846' => 'cru', 'Carub.0007s2722' => 'cru', 'Ca_00058_v3' => 'car', 'Ca_17831_v3' => 'car', 'Ca_19408_v3' => 'car', 'Ca_24397_v3' => 'car', 'Ca_25664_v3' => 'car', 'CBR_g21818' => 'cbr', 'CBR_g31195' => 'cbr', 'CBR_g32282' => 'cbr', 'CBR_g39599' => 'cbr', 'CBR_g49410' => 'cbr', 'Cc01_g09120' => 'ccan', 'Cc01_g09130' => 'ccan', 'Cc02_g09630' => 'ccan', 'Cc02_g22810' => 'ccan', 'Cc03_g03810' => 'ccan', 'CDE02G3718' => 'cde', 'CDE04G3183' => 'cde', 'CDE07G1046' => 'cde', 'CDE08G0480' => 'cde', 'Cfa005493' => 'cfa', 'Cfa010312' => 'cfa', 'Cfa015648' => 'cfa', 'Ciclev10002793m.g' => 'ccl', 'Ciclev10003356m.g' => 'ccl', 'Ciclev10006141m.g' => 'ccl', 'Ciclev10016676m.g' => 'ccl', 'Ciclev10017081m.g' => 'ccl', 'Ciclev10029499m.g' => 'ccl', 'CiPaw.01G166300' => 'cil', 'CiPaw.06G145600' => 'cil', 'CiPaw.13G040100' => 'cil', 'CiPaw.13G135800' => 'cil', 'ClCG01G012230' => 'cla', 'ClCG05G009510' => 'cla', 'ClCG08G008270' => 'cla', 'COL.COLO4_11763' => 'col', 'COL.COLO4_19876' => 'col', 'COL.COLO4_21481' => 'col', 'Cpa.g.sc118.34' => 'cpa', 'Cpa.g.sc32.13' => 'cpa', 'Cpa.g.sc58.103' => 'cpa', 'Cre03.g183850' => 'cre', 'Cre06.g306350' => 'cre', 'Cre07.g334800' => 'cre', 'Cre12.g487900' => 'cre', 'Cre14.g626700' => 'cre', 'Cre16.g658400' => 'cre', 'Cre17.g700950' => 'cre', 'CsaV3_1G014830' => 'csa', 'CsaV3_3G013320' => 'csa', 'CsaV3_3G019210' => 'csa', 'CsaV3_3G019220' => 'csa', 'CsaV3_6G004230' => 'csa', 'CSS0003773' => 'camsi', 'CSS0004563' => 'camsi', 'CSS0013949' => 'camsi', 'CSS0025971' => 'camsi', 'CSS0028570' => 'camsi', 'CSS0033127' => 'camsi', 'CSS0036051' => 'camsi', 'CSS0040087' => 'camsi', 'CSS0043179' => 'camsi', 'DCAR_006161' => 'dca', 'DCAR_010351' => 'dca', 'DCAR_012197' => 'dca', 'DCAR_024162' => 'dca', 'Dinv01030' => 'din', 'Dinv10924' => 'din', 'Dinv11835' => 'din', 'Dinv22841' => 'din', 'Dinv42553' => 'din', 'Duzib052G0560' => 'dzi', 'Duzib132G0389' => 'dzi', 'Duzib150G1181' => 'dzi', 'Duzib168G0623' => 'dzi', 'Duzib170G1036' => 'dzi', 'Duzib212G0200' => 'dzi', 'Duzib248G0194' => 'dzi', 'ECA232G2193' => 'eca', 'ECA233G0302' => 'eca', 'ECA234G2813' => 'eca', 'ECA234G4866' => 'eca', 'ECA240G3932' => 'eca', 'ECA248G0385' => 'eca', 'EL10Ac2g04781' => 'bvu', 'EL10Ac3g06445' => 'bvu', 'EL10Ac7g15825' => 'bvu', 'EL10Ac8g18550' => 'bvu', 'Eucgr.B03849' => 'egr', 'Eucgr.I02744' => 'egr', 'Eucgr.J00264' => 'egr', 'Eucgr.J00493' => 'egr', 'FAN04G2181' => 'fan', 'FAN07G2666' => 'fan', 'FAN11G0024' => 'fan', 'FAN12G1105' => 'fan', 'FAN13G0302' => 'fan', 'FAN15G2781' => 'fan', 'FAN16G1274' => 'fan', 'FAN17G2988' => 'fan', 'FAN18G2621' => 'fan', 'FAN21G0013' => 'fan', 'FAN22G1211' => 'fan', 'FAN25G3626' => 'fan', 'FvH4_2g09491' => 'fve', 'FvH4_3g24910' => 'fve', 'FvH4_4g15630' => 'fve', 'FvH4_5g28820' => 'fve', 'Glyma.01G238000' => 'gma', 'Glyma.05G168400' => 'gma', 'Glyma.08G126800' => 'gma', 'Glyma.08G188500' => 'gma', 'Glyma.10G278900' => 'gma', 'Glyma.11G005700' => 'gma', 'Glyma.11G183300' => 'gma', 'Glyma.12G089200' => 'gma', 'Glyma.12G169400' => 'gma', 'Glyma.12G169500' => 'gma', 'Glyma.12G169600' => 'gma', 'Glyma.20G110800' => 'gma', 'Gohir.A03G192900' => 'ghi', 'Gohir.A03G193000' => 'ghi', 'Gohir.A05G080700' => 'ghi', 'Gohir.A09G216000' => 'ghi', 'Gohir.A12G027700' => 'ghi', 'Gohir.A13G036200' => 'ghi', 'Gohir.A13G222600' => 'ghi', 'Gohir.D02G213900' => 'ghi', 'Gohir.D02G214000' => 'ghi', 'Gohir.D05G083700' => 'ghi', 'Gohir.D05G083800' => 'ghi', 'Gohir.D05G083850' => 'ghi', 'Gohir.D08G015400' => 'ghi', 'Gohir.D09G218400' => 'ghi', 'Gohir.D12G027100' => 'ghi', 'Gohir.D13G034500' => 'ghi', 'Gohir.D13G227400' => 'ghi', 'Gorai.005G241800' => 'gra', 'Gorai.005G241900' => 'gra', 'Gorai.006G239400' => 'gra', 'Gorai.008G027600' => 'gra', 'Gorai.009G085400' => 'gra', 'Gorai.009G085500' => 'gra', 'Gorai.013G039000' => 'gra', 'Gorai.013G194800' => 'gra', 'Gorai.013G257900' => 'gra', 'GSVIVG01000982001' => 'vvi', 'GSVIVG01017981001' => 'vvi', 'HanXRQChr01g0024061' => 'han', 'HanXRQChr09g0247831' => 'han', 'HanXRQChr10g0294611' => 'han', 'HanXRQChr10g0294621' => 'han', 'HanXRQChr11g0346821' => 'han', 'HanXRQChr13g0397461' => 'han', 'HanXRQChr16g0513651' => 'han', 'HanXRQChr16g0513701' => 'han', 'Haze_00897' => 'cav', 'Haze_01745' => 'cav', 'Haze_02486' => 'cav', 'Haze_02487' => 'cav', 'Haze_23374' => 'cav', 'Hma1.2p1_0578F.1_g182520' => 'hma', 'Hma1.2p1_0602F.1_g187350' => 'hma', 'Hma1.2p1_0602F.1_g187360' => 'hma', 'Hma1.2p1_0874F.1_g231320' => 'hma', 'Hma1.2p1_1197F.1_g266210' => 'hma', 'Hma1.2p1_1197F.1_g266220' => 'hma', 'Hma1.2p1_2167F.1_g315895' => 'hma', 'Hma1.2p1_2190F.1_g316640' => 'hma', 'Hma1.2p1_3645F.1_g337153' => 'hma', 'HPP92_004907' => 'vpl', 'HPP92_012134' => 'vpl', 'HPP92_025136' => 'vpl', 'HPP92_026087' => 'vpl', 'Hund06782' => 'sun', 'Hund06784' => 'sun', 'Lalb_Chr01g0004861' => 'lal', 'Lalb_Chr02g0140591' => 'lal', 'Lalb_Chr02g0140611' => 'lal', 'Lalb_Chr03g0028101' => 'lal', 'Lalb_Chr07g0185791' => 'lal', 'Lalb_Chr12g0204491' => 'lal', 'Lalb_Chr13g0295671' => 'lal', 'Lalb_Chr19g0136461' => 'lal', 'Lalb_Chr21g0309191' => 'lal', 'Lj1g0028158' => 'lja', 'Lj1P236T38' => 'lonja', 'Lj2C32G2' => 'lonja', 'Lj2P944T8' => 'lonja', 'Lj2P963T15' => 'lonja', 'Lj3g0011788' => 'lja', 'Lj4g0025027' => 'lja', 'Lj5P255T36' => 'lonja', 'Lj6g0018866' => 'lja', 'Lj6P608T31' => 'lonja', 'LjContig00408g0008879' => 'lja', 'Lsat_1_v5_gn_5_105820' => 'lsa', 'Lsat_1_v5_gn_6_38800' => 'lsa', 'Lsat_1_v5_gn_7_67141' => 'lsa', 'Manes.04G003400' => 'mes', 'Manes.07G020000' => 'mes', 'Manes.07G020100' => 'mes', 'Manes.07G020150' => 'mes', 'Manes.10G061500' => 'mes', 'Manes.10G123200' => 'mes', 'Manes.11G161900' => 'mes', 'Manes.15G029300' => 'mes', 'Mapoly0071s0018' => 'mpo', 'Mapoly0082s0023' => 'mpo', 'Mapoly3477s0001' => 'mpo', 'MBI05_g31233_MAGBIO' => 'mbi', 'MBI09_g05946_MAGBIO' => 'mbi', 'MBI09_g05947_MAGBIO' => 'mbi', 'MBI17_g08346_MAGBIO' => 'mbi', 'MCO04G038' => 'mco', 'MCO09G370' => 'mco', 'MCO13G605' => 'mco', 'MD00G1075500' => 'mdo', 'MD03G1144300' => 'mdo', 'MD08G1236800' => 'mdo', 'MD13G1193300' => 'mdo', 'MD15G1428700' => 'mdo', 'Medtr1g112030' => 'mtr', 'Medtr1g112050' => 'mtr', 'Medtr2g006290' => 'mtr', 'Medtr2g086510' => 'mtr', 'Medtr4g053120' => 'mtr', 'Medtr5g006320' => 'mtr', 'Medtr8g088720' => 'mtr', 'MELO3C004712.2' => 'cme', 'MELO3C006533.2' => 'cme', 'MELO3C019438.2' => 'cme', 'MELO3C019440.2' => 'cme', 'MELO3C019441.2' => 'cme', 'MELO3C019895.2' => 'cme', 'Migut.B00811' => 'egut', 'Migut.D02447' => 'egut', 'Migut.F00875' => 'egut', 'Migut.N00186' => 'egut', 'Migut.N01051' => 'egut', 'Migut.N02491' => 'egut', 'Migut.O00784' => 'egut', 'MSTRG.12367' => 'ama', 'MSTRG.18756' => 'ama', 'MSTRG.21042' => 'ama', 'Nitab4.5_0000559g0040' => 'nta', 'Nitab4.5_0000667g0190' => 'nta', 'Nitab4.5_0000755g0160' => 'nta', 'Nitab4.5_0001216g0080' => 'nta', 'Nitab4.5_0004069g0040' => 'nta', 'Nitab4.5_0004129g0010' => 'nta', 'Nitab4.5_0005744g0030' => 'nta', 'Nitab4.5_0006996g0030' => 'nta', 'Nitab4.5_0008971g0040' => 'nta', 'Nitab4.5_0009769g0020' => 'nta', 'Nitab4.5_0009833g0010' => 'nta', 'Nitab4.5_0013140g0020' => 'nta', 'Nn003s41376' => 'nnu', 'Nn1g01857' => 'nnu', 'Nn1g03611' => 'nnu', 'Nn1g06853' => 'nnu', 'Nn3g18360' => 'nnu', 'Nn4g26328' => 'nnu', 'Nn5g27531' => 'nnu', 'Nn6g34899' => 'nnu', 'Nn7g36299' => 'nnu', 'Oeu021485.1' => 'oeu', 'Oeu022433.1' => 'oeu', 'Oeu032111.1' => 'oeu', 'Oeu051608.1' => 'oeu', 'Os01g0860601' => 'osa', 'Os03g0659200' => 'osa', 'Os03g0835900' => 'osa', 'Os04g0412200' => 'osa', 'Os05g0443500' => 'osa', 'Os07g0251500' => 'osa', 'Os08g0104600' => 'osa', 'Peaxi162Scf00003g00047' => 'pax', 'Peaxi162Scf00003g00052' => 'pax', 'Peaxi162Scf00003g00394' => 'pax', 'Peaxi162Scf00091g00621' => 'pax', 'Peaxi162Scf00152g00146' => 'pax', 'Peaxi162Scf00173g00025' => 'pax', 'Peaxi162Scf00195g00102' => 'pax', 'Peaxi162Scf00402g00013' => 'pax', 'Peaxi162Scf00519g00618' => 'pax', 'PGR004G2838' => 'pgr', 'PGR044G2275' => 'pgr', 'PGR102G1377' => 'pgr', 'PGR119G1245' => 'pgr', 'PGR142G4449' => 'pgr', 'PGSC0003DMG400004532' => 'stu', 'PGSC0003DMG400011950' => 'stu', 'PGSC0003DMG400023391' => 'stu', 'PGSC0003DMG400023985' => 'stu', 'PGSC0003DMG400026360' => 'stu', 'PGSC0003DMG400035711' => 'stu', 'PGSC0003DMG400037286' => 'stu', 'PGSC0003DMG402005881' => 'stu', 'Phvul.002G045400' => 'pvu', 'Phvul.006G216600' => 'pvu', 'Phvul.006G216700' => 'pvu', 'Phvul.006G216800' => 'pvu', 'Phvul.007G022500' => 'pvu', 'Phvul.011G094400' => 'pvu', 'Potri.001G470700' => 'ptr', 'Potri.003G015200' => 'ptr', 'Potri.004G202500' => 'ptr', 'Potri.004G218400' => 'ptr', 'Potri.008G020100' => 'ptr', 'Potri.008G153200' => 'ptr', 'Potri.009G163800' => 'ptr', 'Potri.010G087300' => 'ptr', 'Potri.010G239100' => 'ptr', 'Pp3c10_16100' => 'ppa', 'Pp3c10_16880' => 'ppa', 'Pp3c16_6230' => 'ppa', 'Pp3c17_18910' => 'ppa', 'Pp3c3_22119' => 'ppa', 'Pp3c3_22140' => 'ppa', 'Pp3c4_8159' => 'ppa', 'Pp3c4_8171' => 'ppa', 'Pp3c4_8330' => 'ppa', 'PRCOL_00004098' => 'pco', 'Prupe.1G013900' => 'ppe', 'Prupe.1G226300' => 'ppe', 'Prupe.1G573600' => 'ppe', 'Prupe.6G130100' => 'ppe', 'Psat3g090040' => 'psa', 'Psat4g210440' => 'psa', 'Psat6g231040' => 'psa', 'Psat6g231080' => 'psa', 'Psat7g063000' => 'psa', 'Psat7g188000' => 'psa', 'Psat7g188040' => 'psa', 'PSO017G0206' => 'pso', 'PSO170G0501' => 'pso', 'PSO170G6422' => 'pso', 'PSO210G7739' => 'pso', 'PSO339G1808' => 'pso', 'PSO339G6135' => 'pso', 'PSO384G0010' => 'pso', 'PSO384G0964' => 'pso', 'PSO761G0050' => 'pso', 'PSO782G4085' => 'pso', 'QL01p012264' => 'qlo', 'QL02p099491' => 'qlo', 'QL03p033868' => 'qlo', 'QL04p046678' => 'qlo', 'QL06p002448' => 'qlo', 'RcHm_v2.0_Chr4g0416181' => 'rch', 'RcHm_v2.0_Chr5g0044701' => 'rch', 'RcHm_v2.0_Chr6g0265781' => 'rch', 'RcHm_v2.0_Chr7g0221031' => 'rch', 'Rhsim04G0202000' => 'rsi', 'Rhsim11G0127300' => 'rsi', 'Rhsim13G0111800' => 'rsi', 'Sabra01G0165600' => 'sbr', 'Sabra03G0008300' => 'sbr', 'Sabra04G0136900' => 'sbr', 'Sabra08G0013400' => 'sbr', 'Sabra08G0116800' => 'sbr', 'Sabra09G0128000' => 'sbr', 'Sabra10G0055500' => 'sbr', 'Sabra10G0073300' => 'sbr', 'SalBow3G0385' => 'sbo', 'SalBow3G1119' => 'sbo', 'SalBow3G2005' => 'sbo', 'SalBow6G2563' => 'sbo', 'SalBow6G6386' => 'sbo', 'Sc06g0008800' => 'sci', 'Sc07g0004950' => 'sci', 'Sc09g0005340' => 'sci', 'Sc13g0004410' => 'sci', 'Sc21g0007090' => 'sci', 'Sed0009285' => 'sed', 'Sed0017583' => 'sed', 'Sed0019699' => 'sed', 'Sed0023107' => 'sed', 'SEGI_10916' => 'sgi', 'SEGI_16217' => 'sgi', 'SEGI_19466' => 'sgi', 'SEGI_41115' => 'sgi', 'SGA_v2.0_scaffold111G31534' => 'sas', 'SGA_v2.0_scaffold22G09864' => 'sas', 'SGA_v2.0_scaffold338G49219' => 'sas', 'SGA_v2.0_scaffold92G28298' => 'sas', 'SMO119G0064' => 'smo', 'SMO223G0038' => 'smo', 'SMO347G0584' => 'smo', 'SMO351G0010' => 'smo', 'SMO356G0404' => 'smo', 'Solyc01g103920.3' => 'sly', 'Solyc04g009710.2' => 'sly', 'Solyc05g055280.2' => 'sly', 'Solyc10g044520.3' => 'sly', 'Solyc10g075160.1' => 'sly', 'Solyc11g006910.3' => 'sly', 'Solyc11g068430.3' => 'sly', 'Sopen01g046310' => 'spe', 'Sopen03g001200' => 'spe', 'Sopen04g004830' => 'spe', 'Sopen05g033720' => 'spe', 'Sopen06g030740' => 'spe', 'Sopen10g013090' => 'spe', 'Sopen10g027630' => 'spe', 'Sopen10g027640' => 'spe', 'Sopen11g002820' => 'spe', 'Sopen11g027140' => 'spe', 'Sp1g09680' => 'spa', 'Sp2g03630' => 'spa', 'Sp4g10320' => 'spa', 'Sp6g33400' => 'spa', 'Sp7g13030' => 'spa', 'TAR365G0317' => 'tar', 'TAR376G0979' => 'tar', 'TAR623G1665' => 'tar', 'TAR633G2373' => 'tar', 'TAR636G1400' => 'tar', 'THA.LOC104800529' => 'tha', 'THA.LOC104808547' => 'tha', 'THA.LOC104809615' => 'tha', 'THA.LOC104815724' => 'tha', 'THA.LOC104818480' => 'tha', 'THA.LOC104819179' => 'tha', 'THA.LOC104822270' => 'tha', 'THA.LOC104826425' => 'tha', 'Thecc.02G089700' => 'tca', 'Thecc.04G232300' => 'tca', 'Thecc.09G283400' => 'tca', 'Thhalv10009020m.g' => 'esa', 'Thhalv10015506m.g' => 'esa', 'Thhalv10017364m.g' => 'esa', 'Thhalv10023742m.g' => 'esa', 'Thhalv10026483m.g' => 'esa', 'TPR.G17232' => 'tpr', 'TPR.G2133' => 'tpr', 'TPR.G2498' => 'tpr', 'TPR.G31942' => 'tpr', 'TPR.G37877' => 'tpr', 'TPR.G4571' => 'tpr', 'TWI14G1113' => 'twi', 'TWI15G0426' => 'twi', 'TWI31G1005' => 'twi', 'TWI38G0513' => 'twi', 'TWI38G1484' => 'twi', 'TWI73G1098' => 'twi', 'unitig_26.g10519' => 'ugi', 'unitig_736.g22395' => 'ugi', 'unitig_747.g21234' => 'ugi', 'unitig_747.g21942' => 'ugi', 'vmacro14351' => 'vma', 'VMungo0540G0082' => 'vmu', 'VMungo0540G0405' => 'vmu', 'VMungo0540G1486' => 'vmu', 'VMungo0540G1692' => 'vmu', 'VMungo0720G2473' => 'vmu', 'VMungo1127G1562' => 'vmu', 'VMungo1215G1918' => 'vmu', 'Zm00001eb052650' => 'zma', 'Zm00001eb063710' => 'zma', 'Zm00001eb083950' => 'zma', 'Zm00001eb174420' => 'zma', 'Zm00001eb260140' => 'zma', 'Zm00001eb260150' => 'zma', 'Zm00001eb260160' => 'zma', 'Zm00001eb348290' => 'zma', 'Zm00001eb366870' => 'zma', 'Zm00001eb421930' => 'zma' ) $gf_id = 'HOM05D001025' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001025' ) $data_identifier = 'HOM05D001025' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 19, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 2, 'amhyb' => (int) 4, 'aly' => (int) 4, 'aox' => (int) 4, 'arhy' => (int) 3, 'ath' => (int) 5, 'atr' => (int) 4, 'acertr' => (int) 3, 'cqu' => (int) 7, 'bca' => (int) 17, 'bol' => (int) 10, 'bra' => (int) 9, 'can' => (int) 10, 'cansat' => (int) 6, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 5, 'cbr' => (int) 5, 'ccan' => (int) 5, 'cde' => (int) 4, 'cfa' => (int) 3, 'ccl' => (int) 6, 'cil' => (int) 4, 'cla' => (int) 3, 'col' => (int) 3, 'cpa' => (int) 3, 'cre' => (int) 7, 'csa' => (int) 5, 'camsi' => (int) 9, 'dca' => (int) 4, 'din' => (int) 5, 'dzi' => (int) 7, 'eca' => (int) 6, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 12, 'fve' => (int) 4, 'gma' => (int) 12, 'ghi' => (int) 17, 'gra' => (int) 9, 'vvi' => (int) 2, 'han' => (int) 8, 'cav' => (int) 5, 'hma' => (int) 9, 'vpl' => (int) 4, 'sun' => (int) 2, 'lal' => (int) 9, 'lja' => (int) 5, 'lonja' => (int) 6, 'lsa' => (int) 3, 'mes' => (int) 8, 'mpo' => (int) 3, 'mbi' => (int) 4, 'mco' => (int) 3, 'mdo' => (int) 5, 'mtr' => (int) 7, 'cme' => (int) 6, 'egut' => (int) 7, 'ama' => (int) 3, 'nta' => (int) 12, 'nnu' => (int) 9, 'oeu' => (int) 4, 'osa' => (int) 7, 'pax' => (int) 9, 'pgr' => (int) 5, 'stu' => (int) 8, 'pvu' => (int) 6, 'ptr' => (int) 9, 'ppa' => (int) 9, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 7, 'pso' => (int) 10, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 3, 'sbr' => (int) 8, 'sbo' => (int) 5, 'sci' => (int) 5, 'sed' => (int) 4, 'sgi' => (int) 4, 'sas' => (int) 4, 'smo' => (int) 5, 'sly' => (int) 7, 'spe' => (int) 10, 'spa' => (int) 5, 'tar' => (int) 5, 'tha' => (int) 8, 'tca' => (int) 3, 'esa' => (int) 5, 'tpr' => (int) 6, 'twi' => (int) 6, 'ugi' => (int) 4, 'vma' => (int) 1, 'vmu' => (int) 7, 'zma' => (int) 10 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb421930' $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' => 'HOM05D001025', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '592', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p22650' => 'bna', 'A01p29720' => 'bna', 'A03p26560' => 'bna', 'A03p68820' => 'bna', 'A04p20980' => 'bna', 'A06p07730' => 'bna', 'A07p18260' => 'bna', 'A08p33710' => 'bna', 'A09p16970' => 'bna', 'A10p27490' => 'bna', 'Aa31LG1G17300' => 'aar', 'Aa31LG1G3910' => 'aar', 'Aa31LG2G9630' => 'aar', 'Aa31LG5G8360' => 'aar', 'Aa31LG9G2410' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4699' => 'aag', 'Actinidia23512' => 'ach', 'Actinidia37080' => 'ach', 'Ah.01g020380' => 'amhyb', 'Ah.08g215710' => 'amhyb', 'Ah.09g225110' => 'amhyb', 'Ah.10g036680' => 'amhyb', 'AL1G21940' => 'aly', 'AL2G15540' => 'aly', 'AL4G21520' => 'aly', 'AL7G40960' => 'aly', 'Aqoxy2G01191' => 'aox', 'Aqoxy2G03393' => 'aox', 'Aqoxy4G02775' => 'aox', 'Aqoxy6G00058' => 'aox', 'arahy.Tifrunner.gnm1.ann1.9X74H2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CW3FX9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R485W7' => 'arhy', 'AT1G10960' => 'ath', 'AT1G60950' => 'ath', 'AT2G27510' => 'ath', 'AT4G14890' => 'ath', 'AT5G10000' => 'ath', 'ATR0665G624' => 'atr', 'ATR0697G138' => 'atr', 'ATR0776G046' => 'atr', 'ATR1134G135' => 'atr', 'Atru.chr12.1025' => 'acertr', 'Atru.chr3.3241' => 'acertr', 'Atru.chr4.2460' => 'acertr', 'AUR62007427' => 'cqu', 'AUR62010960' => 'cqu', 'AUR62012201' => 'cqu', 'AUR62021470' => 'cqu', 'AUR62022834' => 'cqu', 'AUR62033635' => 'cqu', 'AUR62036186' => 'cqu', 'BcaB01g03077' => 'bca', 'BcaB02g10093' => 'bca', 'BcaB04g20295' => 'bca', 'BcaB06g28147' => 'bca', 'BcaB07g31253' => 'bca', 'BcaC01g04946' => 'bca', 'BcaC02g10614' => 'bca', 'BcaC02g10885' => 'bca', 'BcaC04g19356' => 'bca', 'BcaC04g22297' => 'bca', 'BcaC05g24977' => 'bca', 'BcaC06g31823' => 'bca', 'BcaC07g38633' => 'bca', 'BcaC09g49353' => 'bca', 'BcaC09g50168' => 'bca', 'BcaNung00322' => 'bca', 'BcaNung04769' => 'bca', 'BolC1t02753H' => 'bol', 'BolC1t03721H' => 'bol', 'BolC3t15525H' => 'bol', 'BolC4t23903H' => 'bol', 'BolC4t24231H' => 'bol', 'BolC4t27209H' => 'bol', 'BolC5t29671H' => 'bol', 'BolC8t49044H' => 'bol', 'BolC9t54999H' => 'bol', 'BolC9t59517H' => 'bol', 'BraA01t02178Z' => 'bra', 'BraA01t03099Z' => 'bra', 'BraA03t11867Z' => 'bra', 'BraA04t17667Z' => 'bra', 'BraA07t29542Z' => 'bra', 'BraA08t35287Z' => 'bra', 'BraA09t37334Z' => 'bra', 'BraA10t44801Z' => 'bra', 'BraSC39t46181Z' => 'bra', 'C01p28240' => 'bna', 'C01p37530' => 'bna', 'C03p31820' => 'bna', 'C04p24080' => 'bna', 'C04p25790' => 'bna', 'C04p56770' => 'bna', 'C05p09310' => 'bna', 'C09p21010' => 'bna', 'C09p67560' => 'bna', 'CAN.G1324.7' => 'can', 'CAN.G1358.10' => 'can', 'CAN.G1550.2' => 'can', 'CAN.G186.56' => 'can', 'CAN.G1965.1' => 'can', 'CAN.G645.15' => 'can', 'CAN.G798.26' => 'can', 'CAN.G798.27' => 'can', 'CAN.G798.29' => 'can', 'CAN.G919.31' => 'can', 'CANSAT11G0133' => 'cansat', 'CANSAT11G1171' => 'cansat', 'CANSAT11G2056' => 'cansat', 'CANSAT56G1202' => 'cansat', 'CANSAT56G1514' => 'cansat', 'CANSAT78G0455' => 'cansat', 'CARHR011190' => 'chi', 'CARHR051980' => 'chi', 'CARHR120170' => 'chi', 'CARHR203310' => 'chi', 'CARHR221490' => 'chi', 'Carub.0001s1054' => 'cru', 'Carub.0002s0431' => 'cru', 'Carub.0004s0818' => 'cru', 'Carub.0006s0846' => 'cru', 'Carub.0007s2722' => 'cru', 'Ca_00058_v3' => 'car', 'Ca_17831_v3' => 'car', 'Ca_19408_v3' => 'car', 'Ca_24397_v3' => 'car', 'Ca_25664_v3' => 'car', 'CBR_g21818' => 'cbr', 'CBR_g31195' => 'cbr', 'CBR_g32282' => 'cbr', 'CBR_g39599' => 'cbr', 'CBR_g49410' => 'cbr', 'Cc01_g09120' => 'ccan', 'Cc01_g09130' => 'ccan', 'Cc02_g09630' => 'ccan', 'Cc02_g22810' => 'ccan', 'Cc03_g03810' => 'ccan', 'CDE02G3718' => 'cde', 'CDE04G3183' => 'cde', 'CDE07G1046' => 'cde', 'CDE08G0480' => 'cde', 'Cfa005493' => 'cfa', 'Cfa010312' => 'cfa', 'Cfa015648' => 'cfa', 'Ciclev10002793m.g' => 'ccl', 'Ciclev10003356m.g' => 'ccl', 'Ciclev10006141m.g' => 'ccl', 'Ciclev10016676m.g' => 'ccl', 'Ciclev10017081m.g' => 'ccl', 'Ciclev10029499m.g' => 'ccl', 'CiPaw.01G166300' => 'cil', 'CiPaw.06G145600' => 'cil', 'CiPaw.13G040100' => 'cil', 'CiPaw.13G135800' => 'cil', 'ClCG01G012230' => 'cla', 'ClCG05G009510' => 'cla', 'ClCG08G008270' => 'cla', 'COL.COLO4_11763' => 'col', 'COL.COLO4_19876' => 'col', 'COL.COLO4_21481' => 'col', 'Cpa.g.sc118.34' => 'cpa', 'Cpa.g.sc32.13' => 'cpa', 'Cpa.g.sc58.103' => 'cpa', 'Cre03.g183850' => 'cre', 'Cre06.g306350' => 'cre', 'Cre07.g334800' => 'cre', 'Cre12.g487900' => 'cre', 'Cre14.g626700' => 'cre', 'Cre16.g658400' => 'cre', 'Cre17.g700950' => 'cre', 'CsaV3_1G014830' => 'csa', 'CsaV3_3G013320' => 'csa', 'CsaV3_3G019210' => 'csa', 'CsaV3_3G019220' => 'csa', 'CsaV3_6G004230' => 'csa', 'CSS0003773' => 'camsi', 'CSS0004563' => 'camsi', 'CSS0013949' => 'camsi', 'CSS0025971' => 'camsi', 'CSS0028570' => 'camsi', 'CSS0033127' => 'camsi', 'CSS0036051' => 'camsi', 'CSS0040087' => 'camsi', 'CSS0043179' => 'camsi', 'DCAR_006161' => 'dca', 'DCAR_010351' => 'dca', 'DCAR_012197' => 'dca', 'DCAR_024162' => 'dca', 'Dinv01030' => 'din', 'Dinv10924' => 'din', 'Dinv11835' => 'din', 'Dinv22841' => 'din', 'Dinv42553' => 'din', 'Duzib052G0560' => 'dzi', 'Duzib132G0389' => 'dzi', 'Duzib150G1181' => 'dzi', 'Duzib168G0623' => 'dzi', 'Duzib170G1036' => 'dzi', 'Duzib212G0200' => 'dzi', 'Duzib248G0194' => 'dzi', 'ECA232G2193' => 'eca', 'ECA233G0302' => 'eca', 'ECA234G2813' => 'eca', 'ECA234G4866' => 'eca', 'ECA240G3932' => 'eca', 'ECA248G0385' => 'eca', 'EL10Ac2g04781' => 'bvu', 'EL10Ac3g06445' => 'bvu', 'EL10Ac7g15825' => 'bvu', 'EL10Ac8g18550' => 'bvu', 'Eucgr.B03849' => 'egr', 'Eucgr.I02744' => 'egr', 'Eucgr.J00264' => 'egr', 'Eucgr.J00493' => 'egr', 'FAN04G2181' => 'fan', 'FAN07G2666' => 'fan', 'FAN11G0024' => 'fan', 'FAN12G1105' => 'fan', 'FAN13G0302' => 'fan', 'FAN15G2781' => 'fan', 'FAN16G1274' => 'fan', 'FAN17G2988' => 'fan', 'FAN18G2621' => 'fan', 'FAN21G0013' => 'fan', 'FAN22G1211' => 'fan', 'FAN25G3626' => 'fan', 'FvH4_2g09491' => 'fve', 'FvH4_3g24910' => 'fve', 'FvH4_4g15630' => 'fve', 'FvH4_5g28820' => 'fve', 'Glyma.01G238000' => 'gma', 'Glyma.05G168400' => 'gma', 'Glyma.08G126800' => 'gma', 'Glyma.08G188500' => 'gma', 'Glyma.10G278900' => 'gma', 'Glyma.11G005700' => 'gma', 'Glyma.11G183300' => 'gma', 'Glyma.12G089200' => 'gma', 'Glyma.12G169400' => 'gma', 'Glyma.12G169500' => 'gma', 'Glyma.12G169600' => 'gma', 'Glyma.20G110800' => 'gma', 'Gohir.A03G192900' => 'ghi', 'Gohir.A03G193000' => 'ghi', 'Gohir.A05G080700' => 'ghi', 'Gohir.A09G216000' => 'ghi', 'Gohir.A12G027700' => 'ghi', 'Gohir.A13G036200' => 'ghi', 'Gohir.A13G222600' => 'ghi', 'Gohir.D02G213900' => 'ghi', 'Gohir.D02G214000' => 'ghi', 'Gohir.D05G083700' => 'ghi', 'Gohir.D05G083800' => 'ghi', 'Gohir.D05G083850' => 'ghi', 'Gohir.D08G015400' => 'ghi', 'Gohir.D09G218400' => 'ghi', 'Gohir.D12G027100' => 'ghi', 'Gohir.D13G034500' => 'ghi', 'Gohir.D13G227400' => 'ghi', 'Gorai.005G241800' => 'gra', 'Gorai.005G241900' => 'gra', 'Gorai.006G239400' => 'gra', 'Gorai.008G027600' => 'gra', 'Gorai.009G085400' => 'gra', 'Gorai.009G085500' => 'gra', 'Gorai.013G039000' => 'gra', 'Gorai.013G194800' => 'gra', 'Gorai.013G257900' => 'gra', 'GSVIVG01000982001' => 'vvi', 'GSVIVG01017981001' => 'vvi', 'HanXRQChr01g0024061' => 'han', 'HanXRQChr09g0247831' => 'han', 'HanXRQChr10g0294611' => 'han', 'HanXRQChr10g0294621' => 'han', 'HanXRQChr11g0346821' => 'han', 'HanXRQChr13g0397461' => 'han', 'HanXRQChr16g0513651' => 'han', 'HanXRQChr16g0513701' => 'han', 'Haze_00897' => 'cav', 'Haze_01745' => 'cav', 'Haze_02486' => 'cav', 'Haze_02487' => 'cav', 'Haze_23374' => 'cav', 'Hma1.2p1_0578F.1_g182520' => 'hma', 'Hma1.2p1_0602F.1_g187350' => 'hma', 'Hma1.2p1_0602F.1_g187360' => 'hma', 'Hma1.2p1_0874F.1_g231320' => 'hma', 'Hma1.2p1_1197F.1_g266210' => 'hma', 'Hma1.2p1_1197F.1_g266220' => 'hma', 'Hma1.2p1_2167F.1_g315895' => 'hma', 'Hma1.2p1_2190F.1_g316640' => 'hma', 'Hma1.2p1_3645F.1_g337153' => 'hma', 'HPP92_004907' => 'vpl', 'HPP92_012134' => 'vpl', 'HPP92_025136' => 'vpl', 'HPP92_026087' => 'vpl', 'Hund06782' => 'sun', 'Hund06784' => 'sun', 'Lalb_Chr01g0004861' => 'lal', 'Lalb_Chr02g0140591' => 'lal', 'Lalb_Chr02g0140611' => 'lal', 'Lalb_Chr03g0028101' => 'lal', 'Lalb_Chr07g0185791' => 'lal', 'Lalb_Chr12g0204491' => 'lal', 'Lalb_Chr13g0295671' => 'lal', 'Lalb_Chr19g0136461' => 'lal', 'Lalb_Chr21g0309191' => 'lal', 'Lj1g0028158' => 'lja', 'Lj1P236T38' => 'lonja', 'Lj2C32G2' => 'lonja', 'Lj2P944T8' => 'lonja', 'Lj2P963T15' => 'lonja', 'Lj3g0011788' => 'lja', 'Lj4g0025027' => 'lja', 'Lj5P255T36' => 'lonja', 'Lj6g0018866' => 'lja', 'Lj6P608T31' => 'lonja', 'LjContig00408g0008879' => 'lja', 'Lsat_1_v5_gn_5_105820' => 'lsa', 'Lsat_1_v5_gn_6_38800' => 'lsa', 'Lsat_1_v5_gn_7_67141' => 'lsa', 'Manes.04G003400' => 'mes', 'Manes.07G020000' => 'mes', 'Manes.07G020100' => 'mes', 'Manes.07G020150' => 'mes', 'Manes.10G061500' => 'mes', 'Manes.10G123200' => 'mes', 'Manes.11G161900' => 'mes', 'Manes.15G029300' => 'mes', 'Mapoly0071s0018' => 'mpo', 'Mapoly0082s0023' => 'mpo', 'Mapoly3477s0001' => 'mpo', 'MBI05_g31233_MAGBIO' => 'mbi', 'MBI09_g05946_MAGBIO' => 'mbi', 'MBI09_g05947_MAGBIO' => 'mbi', 'MBI17_g08346_MAGBIO' => 'mbi', 'MCO04G038' => 'mco', 'MCO09G370' => 'mco', 'MCO13G605' => 'mco', 'MD00G1075500' => 'mdo', 'MD03G1144300' => 'mdo', 'MD08G1236800' => 'mdo', 'MD13G1193300' => 'mdo', 'MD15G1428700' => 'mdo', 'Medtr1g112030' => 'mtr', 'Medtr1g112050' => 'mtr', 'Medtr2g006290' => 'mtr', 'Medtr2g086510' => 'mtr', 'Medtr4g053120' => 'mtr', 'Medtr5g006320' => 'mtr', 'Medtr8g088720' => 'mtr', 'MELO3C004712.2' => 'cme', 'MELO3C006533.2' => 'cme', 'MELO3C019438.2' => 'cme', 'MELO3C019440.2' => 'cme', 'MELO3C019441.2' => 'cme', 'MELO3C019895.2' => 'cme', 'Migut.B00811' => 'egut', 'Migut.D02447' => 'egut', 'Migut.F00875' => 'egut', 'Migut.N00186' => 'egut', 'Migut.N01051' => 'egut', 'Migut.N02491' => 'egut', 'Migut.O00784' => 'egut', 'MSTRG.12367' => 'ama', 'MSTRG.18756' => 'ama', 'MSTRG.21042' => 'ama', 'Nitab4.5_0000559g0040' => 'nta', 'Nitab4.5_0000667g0190' => 'nta', 'Nitab4.5_0000755g0160' => 'nta', 'Nitab4.5_0001216g0080' => 'nta', 'Nitab4.5_0004069g0040' => 'nta', 'Nitab4.5_0004129g0010' => 'nta', 'Nitab4.5_0005744g0030' => 'nta', 'Nitab4.5_0006996g0030' => 'nta', 'Nitab4.5_0008971g0040' => 'nta', 'Nitab4.5_0009769g0020' => 'nta', 'Nitab4.5_0009833g0010' => 'nta', 'Nitab4.5_0013140g0020' => 'nta', 'Nn003s41376' => 'nnu', 'Nn1g01857' => 'nnu', 'Nn1g03611' => 'nnu', 'Nn1g06853' => 'nnu', 'Nn3g18360' => 'nnu', 'Nn4g26328' => 'nnu', 'Nn5g27531' => 'nnu', 'Nn6g34899' => 'nnu', 'Nn7g36299' => 'nnu', 'Oeu021485.1' => 'oeu', 'Oeu022433.1' => 'oeu', 'Oeu032111.1' => 'oeu', 'Oeu051608.1' => 'oeu', 'Os01g0860601' => 'osa', 'Os03g0659200' => 'osa', 'Os03g0835900' => 'osa', 'Os04g0412200' => 'osa', 'Os05g0443500' => 'osa', 'Os07g0251500' => 'osa', 'Os08g0104600' => 'osa', 'Peaxi162Scf00003g00047' => 'pax', 'Peaxi162Scf00003g00052' => 'pax', 'Peaxi162Scf00003g00394' => 'pax', 'Peaxi162Scf00091g00621' => 'pax', 'Peaxi162Scf00152g00146' => 'pax', 'Peaxi162Scf00173g00025' => 'pax', 'Peaxi162Scf00195g00102' => 'pax', 'Peaxi162Scf00402g00013' => 'pax', 'Peaxi162Scf00519g00618' => 'pax', 'PGR004G2838' => 'pgr', 'PGR044G2275' => 'pgr', 'PGR102G1377' => 'pgr', 'PGR119G1245' => 'pgr', 'PGR142G4449' => 'pgr', 'PGSC0003DMG400004532' => 'stu', 'PGSC0003DMG400011950' => 'stu', 'PGSC0003DMG400023391' => 'stu', 'PGSC0003DMG400023985' => 'stu', 'PGSC0003DMG400026360' => 'stu', 'PGSC0003DMG400035711' => 'stu', 'PGSC0003DMG400037286' => 'stu', 'PGSC0003DMG402005881' => 'stu', 'Phvul.002G045400' => 'pvu', 'Phvul.006G216600' => 'pvu', 'Phvul.006G216700' => 'pvu', 'Phvul.006G216800' => 'pvu', 'Phvul.007G022500' => 'pvu', 'Phvul.011G094400' => 'pvu', 'Potri.001G470700' => 'ptr', 'Potri.003G015200' => 'ptr', 'Potri.004G202500' => 'ptr', 'Potri.004G218400' => 'ptr', 'Potri.008G020100' => 'ptr', 'Potri.008G153200' => 'ptr', 'Potri.009G163800' => 'ptr', 'Potri.010G087300' => 'ptr', 'Potri.010G239100' => 'ptr', 'Pp3c10_16100' => 'ppa', 'Pp3c10_16880' => 'ppa', 'Pp3c16_6230' => 'ppa', 'Pp3c17_18910' => 'ppa', 'Pp3c3_22119' => 'ppa', 'Pp3c3_22140' => 'ppa', 'Pp3c4_8159' => 'ppa', 'Pp3c4_8171' => 'ppa', 'Pp3c4_8330' => 'ppa', 'PRCOL_00004098' => 'pco', 'Prupe.1G013900' => 'ppe', 'Prupe.1G226300' => 'ppe', 'Prupe.1G573600' => 'ppe', 'Prupe.6G130100' => 'ppe', 'Psat3g090040' => 'psa', 'Psat4g210440' => 'psa', 'Psat6g231040' => 'psa', 'Psat6g231080' => 'psa', 'Psat7g063000' => 'psa', 'Psat7g188000' => 'psa', 'Psat7g188040' => 'psa', 'PSO017G0206' => 'pso', 'PSO170G0501' => 'pso', 'PSO170G6422' => 'pso', 'PSO210G7739' => 'pso', 'PSO339G1808' => 'pso', 'PSO339G6135' => 'pso', 'PSO384G0010' => 'pso', 'PSO384G0964' => 'pso', 'PSO761G0050' => 'pso', 'PSO782G4085' => 'pso', 'QL01p012264' => 'qlo', 'QL02p099491' => 'qlo', 'QL03p033868' => 'qlo', 'QL04p046678' => 'qlo', 'QL06p002448' => 'qlo', 'RcHm_v2.0_Chr4g0416181' => 'rch', 'RcHm_v2.0_Chr5g0044701' => 'rch', 'RcHm_v2.0_Chr6g0265781' => 'rch', 'RcHm_v2.0_Chr7g0221031' => 'rch', 'Rhsim04G0202000' => 'rsi', 'Rhsim11G0127300' => 'rsi', 'Rhsim13G0111800' => 'rsi', 'Sabra01G0165600' => 'sbr', 'Sabra03G0008300' => 'sbr', 'Sabra04G0136900' => 'sbr', 'Sabra08G0013400' => 'sbr', 'Sabra08G0116800' => 'sbr', 'Sabra09G0128000' => 'sbr', 'Sabra10G0055500' => 'sbr', 'Sabra10G0073300' => 'sbr', 'SalBow3G0385' => 'sbo', 'SalBow3G1119' => 'sbo', 'SalBow3G2005' => 'sbo', 'SalBow6G2563' => 'sbo', 'SalBow6G6386' => 'sbo', 'Sc06g0008800' => 'sci', 'Sc07g0004950' => 'sci', 'Sc09g0005340' => 'sci', 'Sc13g0004410' => 'sci', 'Sc21g0007090' => 'sci', 'Sed0009285' => 'sed', 'Sed0017583' => 'sed', 'Sed0019699' => 'sed', 'Sed0023107' => 'sed', 'SEGI_10916' => 'sgi', 'SEGI_16217' => 'sgi', 'SEGI_19466' => 'sgi', 'SEGI_41115' => 'sgi', 'SGA_v2.0_scaffold111G31534' => 'sas', 'SGA_v2.0_scaffold22G09864' => 'sas', 'SGA_v2.0_scaffold338G49219' => 'sas', 'SGA_v2.0_scaffold92G28298' => 'sas', 'SMO119G0064' => 'smo', 'SMO223G0038' => 'smo', 'SMO347G0584' => 'smo', 'SMO351G0010' => 'smo', 'SMO356G0404' => 'smo', 'Solyc01g103920.3' => 'sly', 'Solyc04g009710.2' => 'sly', 'Solyc05g055280.2' => 'sly', 'Solyc10g044520.3' => 'sly', 'Solyc10g075160.1' => 'sly', 'Solyc11g006910.3' => 'sly', 'Solyc11g068430.3' => 'sly', 'Sopen01g046310' => 'spe', 'Sopen03g001200' => 'spe', 'Sopen04g004830' => 'spe', 'Sopen05g033720' => 'spe', 'Sopen06g030740' => 'spe', 'Sopen10g013090' => 'spe', 'Sopen10g027630' => 'spe', 'Sopen10g027640' => 'spe', 'Sopen11g002820' => 'spe', 'Sopen11g027140' => 'spe', 'Sp1g09680' => 'spa', 'Sp2g03630' => 'spa', 'Sp4g10320' => 'spa', 'Sp6g33400' => 'spa', 'Sp7g13030' => 'spa', 'TAR365G0317' => 'tar', 'TAR376G0979' => 'tar', 'TAR623G1665' => 'tar', 'TAR633G2373' => 'tar', 'TAR636G1400' => 'tar', 'THA.LOC104800529' => 'tha', 'THA.LOC104808547' => 'tha', 'THA.LOC104809615' => 'tha', 'THA.LOC104815724' => 'tha', 'THA.LOC104818480' => 'tha', 'THA.LOC104819179' => 'tha', 'THA.LOC104822270' => 'tha', 'THA.LOC104826425' => 'tha', 'Thecc.02G089700' => 'tca', 'Thecc.04G232300' => 'tca', 'Thecc.09G283400' => 'tca', 'Thhalv10009020m.g' => 'esa', 'Thhalv10015506m.g' => 'esa', 'Thhalv10017364m.g' => 'esa', 'Thhalv10023742m.g' => 'esa', 'Thhalv10026483m.g' => 'esa', 'TPR.G17232' => 'tpr', 'TPR.G2133' => 'tpr', 'TPR.G2498' => 'tpr', 'TPR.G31942' => 'tpr', 'TPR.G37877' => 'tpr', 'TPR.G4571' => 'tpr', 'TWI14G1113' => 'twi', 'TWI15G0426' => 'twi', 'TWI31G1005' => 'twi', 'TWI38G0513' => 'twi', 'TWI38G1484' => 'twi', 'TWI73G1098' => 'twi', 'unitig_26.g10519' => 'ugi', 'unitig_736.g22395' => 'ugi', 'unitig_747.g21234' => 'ugi', 'unitig_747.g21942' => 'ugi', 'vmacro14351' => 'vma', 'VMungo0540G0082' => 'vmu', 'VMungo0540G0405' => 'vmu', 'VMungo0540G1486' => 'vmu', 'VMungo0540G1692' => 'vmu', 'VMungo0720G2473' => 'vmu', 'VMungo1127G1562' => 'vmu', 'VMungo1215G1918' => 'vmu', 'Zm00001eb052650' => 'zma', 'Zm00001eb063710' => 'zma', 'Zm00001eb083950' => 'zma', 'Zm00001eb174420' => 'zma', 'Zm00001eb260140' => 'zma', 'Zm00001eb260150' => 'zma', 'Zm00001eb260160' => 'zma', 'Zm00001eb348290' => 'zma', 'Zm00001eb366870' => 'zma', 'Zm00001eb421930' => 'zma' ), 'gf_id' => 'HOM05D001025', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001025' ), 'data_identifier' => 'HOM05D001025', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001025', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '592', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p22650' => 'bna', 'A01p29720' => 'bna', 'A03p26560' => 'bna', 'A03p68820' => 'bna', 'A04p20980' => 'bna', 'A06p07730' => 'bna', 'A07p18260' => 'bna', 'A08p33710' => 'bna', 'A09p16970' => 'bna', 'A10p27490' => 'bna', 'Aa31LG1G17300' => 'aar', 'Aa31LG1G3910' => 'aar', 'Aa31LG2G9630' => 'aar', 'Aa31LG5G8360' => 'aar', 'Aa31LG9G2410' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4699' => 'aag', 'Actinidia23512' => 'ach', 'Actinidia37080' => 'ach', 'Ah.01g020380' => 'amhyb', 'Ah.08g215710' => 'amhyb', 'Ah.09g225110' => 'amhyb', 'Ah.10g036680' => 'amhyb', 'AL1G21940' => 'aly', 'AL2G15540' => 'aly', 'AL4G21520' => 'aly', 'AL7G40960' => 'aly', 'Aqoxy2G01191' => 'aox', 'Aqoxy2G03393' => 'aox', 'Aqoxy4G02775' => 'aox', 'Aqoxy6G00058' => 'aox', 'arahy.Tifrunner.gnm1.ann1.9X74H2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CW3FX9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R485W7' => 'arhy', 'AT1G10960' => 'ath', 'AT1G60950' => 'ath', 'AT2G27510' => 'ath', 'AT4G14890' => 'ath', 'AT5G10000' => 'ath', 'ATR0665G624' => 'atr', 'ATR0697G138' => 'atr', 'ATR0776G046' => 'atr', 'ATR1134G135' => 'atr', 'Atru.chr12.1025' => 'acertr', 'Atru.chr3.3241' => 'acertr', 'Atru.chr4.2460' => 'acertr', 'AUR62007427' => 'cqu', 'AUR62010960' => 'cqu', 'AUR62012201' => 'cqu', 'AUR62021470' => 'cqu', 'AUR62022834' => 'cqu', 'AUR62033635' => 'cqu', 'AUR62036186' => 'cqu', 'BcaB01g03077' => 'bca', 'BcaB02g10093' => 'bca', 'BcaB04g20295' => 'bca', 'BcaB06g28147' => 'bca', 'BcaB07g31253' => 'bca', 'BcaC01g04946' => 'bca', 'BcaC02g10614' => 'bca', 'BcaC02g10885' => 'bca', 'BcaC04g19356' => 'bca', 'BcaC04g22297' => 'bca', 'BcaC05g24977' => 'bca', 'BcaC06g31823' => 'bca', 'BcaC07g38633' => 'bca', 'BcaC09g49353' => 'bca', 'BcaC09g50168' => 'bca', 'BcaNung00322' => 'bca', 'BcaNung04769' => 'bca', 'BolC1t02753H' => 'bol', 'BolC1t03721H' => 'bol', 'BolC3t15525H' => 'bol', 'BolC4t23903H' => 'bol', 'BolC4t24231H' => 'bol', 'BolC4t27209H' => 'bol', 'BolC5t29671H' => 'bol', 'BolC8t49044H' => 'bol', 'BolC9t54999H' => 'bol', 'BolC9t59517H' => 'bol', 'BraA01t02178Z' => 'bra', 'BraA01t03099Z' => 'bra', 'BraA03t11867Z' => 'bra', 'BraA04t17667Z' => 'bra', 'BraA07t29542Z' => 'bra', 'BraA08t35287Z' => 'bra', 'BraA09t37334Z' => 'bra', 'BraA10t44801Z' => 'bra', 'BraSC39t46181Z' => 'bra', 'C01p28240' => 'bna', 'C01p37530' => 'bna', 'C03p31820' => 'bna', 'C04p24080' => 'bna', 'C04p25790' => 'bna', 'C04p56770' => 'bna', 'C05p09310' => 'bna', 'C09p21010' => 'bna', 'C09p67560' => 'bna', 'CAN.G1324.7' => 'can', 'CAN.G1358.10' => 'can', 'CAN.G1550.2' => 'can', 'CAN.G186.56' => 'can', 'CAN.G1965.1' => 'can', 'CAN.G645.15' => 'can', 'CAN.G798.26' => 'can', 'CAN.G798.27' => 'can', 'CAN.G798.29' => 'can', 'CAN.G919.31' => 'can', 'CANSAT11G0133' => 'cansat', 'CANSAT11G1171' => 'cansat', 'CANSAT11G2056' => 'cansat', 'CANSAT56G1202' => 'cansat', 'CANSAT56G1514' => 'cansat', 'CANSAT78G0455' => 'cansat', 'CARHR011190' => 'chi', 'CARHR051980' => 'chi', 'CARHR120170' => 'chi', 'CARHR203310' => 'chi', 'CARHR221490' => 'chi', 'Carub.0001s1054' => 'cru', 'Carub.0002s0431' => 'cru', 'Carub.0004s0818' => 'cru', 'Carub.0006s0846' => 'cru', 'Carub.0007s2722' => 'cru', 'Ca_00058_v3' => 'car', 'Ca_17831_v3' => 'car', 'Ca_19408_v3' => 'car', 'Ca_24397_v3' => 'car', 'Ca_25664_v3' => 'car', 'CBR_g21818' => 'cbr', 'CBR_g31195' => 'cbr', 'CBR_g32282' => 'cbr', 'CBR_g39599' => 'cbr', 'CBR_g49410' => 'cbr', 'Cc01_g09120' => 'ccan', 'Cc01_g09130' => 'ccan', 'Cc02_g09630' => 'ccan', 'Cc02_g22810' => 'ccan', 'Cc03_g03810' => 'ccan', 'CDE02G3718' => 'cde', 'CDE04G3183' => 'cde', 'CDE07G1046' => 'cde', 'CDE08G0480' => 'cde', 'Cfa005493' => 'cfa', 'Cfa010312' => 'cfa', 'Cfa015648' => 'cfa', 'Ciclev10002793m.g' => 'ccl', 'Ciclev10003356m.g' => 'ccl', 'Ciclev10006141m.g' => 'ccl', 'Ciclev10016676m.g' => 'ccl', 'Ciclev10017081m.g' => 'ccl', 'Ciclev10029499m.g' => 'ccl', 'CiPaw.01G166300' => 'cil', 'CiPaw.06G145600' => 'cil', 'CiPaw.13G040100' => 'cil', 'CiPaw.13G135800' => 'cil', 'ClCG01G012230' => 'cla', 'ClCG05G009510' => 'cla', 'ClCG08G008270' => 'cla', 'COL.COLO4_11763' => 'col', 'COL.COLO4_19876' => 'col', 'COL.COLO4_21481' => 'col', 'Cpa.g.sc118.34' => 'cpa', 'Cpa.g.sc32.13' => 'cpa', 'Cpa.g.sc58.103' => 'cpa', 'Cre03.g183850' => 'cre', 'Cre06.g306350' => 'cre', 'Cre07.g334800' => 'cre', 'Cre12.g487900' => 'cre', 'Cre14.g626700' => 'cre', 'Cre16.g658400' => 'cre', 'Cre17.g700950' => 'cre', 'CsaV3_1G014830' => 'csa', 'CsaV3_3G013320' => 'csa', 'CsaV3_3G019210' => 'csa', 'CsaV3_3G019220' => 'csa', 'CsaV3_6G004230' => 'csa', 'CSS0003773' => 'camsi', 'CSS0004563' => 'camsi', 'CSS0013949' => 'camsi', 'CSS0025971' => 'camsi', 'CSS0028570' => 'camsi', 'CSS0033127' => 'camsi', 'CSS0036051' => 'camsi', 'CSS0040087' => 'camsi', 'CSS0043179' => 'camsi', 'DCAR_006161' => 'dca', 'DCAR_010351' => 'dca', 'DCAR_012197' => 'dca', 'DCAR_024162' => 'dca', 'Dinv01030' => 'din', 'Dinv10924' => 'din', 'Dinv11835' => 'din', 'Dinv22841' => 'din', 'Dinv42553' => 'din', 'Duzib052G0560' => 'dzi', 'Duzib132G0389' => 'dzi', 'Duzib150G1181' => 'dzi', 'Duzib168G0623' => 'dzi', 'Duzib170G1036' => 'dzi', 'Duzib212G0200' => 'dzi', 'Duzib248G0194' => 'dzi', 'ECA232G2193' => 'eca', 'ECA233G0302' => 'eca', 'ECA234G2813' => 'eca', 'ECA234G4866' => 'eca', 'ECA240G3932' => 'eca', 'ECA248G0385' => 'eca', 'EL10Ac2g04781' => 'bvu', 'EL10Ac3g06445' => 'bvu', 'EL10Ac7g15825' => 'bvu', 'EL10Ac8g18550' => 'bvu', 'Eucgr.B03849' => 'egr', 'Eucgr.I02744' => 'egr', 'Eucgr.J00264' => 'egr', 'Eucgr.J00493' => 'egr', 'FAN04G2181' => 'fan', 'FAN07G2666' => 'fan', 'FAN11G0024' => 'fan', 'FAN12G1105' => 'fan', 'FAN13G0302' => 'fan', 'FAN15G2781' => 'fan', 'FAN16G1274' => 'fan', 'FAN17G2988' => 'fan', 'FAN18G2621' => 'fan', 'FAN21G0013' => 'fan', 'FAN22G1211' => 'fan', 'FAN25G3626' => 'fan', 'FvH4_2g09491' => 'fve', 'FvH4_3g24910' => 'fve', 'FvH4_4g15630' => 'fve', 'FvH4_5g28820' => 'fve', 'Glyma.01G238000' => 'gma', 'Glyma.05G168400' => 'gma', 'Glyma.08G126800' => 'gma', 'Glyma.08G188500' => 'gma', 'Glyma.10G278900' => 'gma', 'Glyma.11G005700' => 'gma', 'Glyma.11G183300' => 'gma', 'Glyma.12G089200' => 'gma', 'Glyma.12G169400' => 'gma', 'Glyma.12G169500' => 'gma', 'Glyma.12G169600' => 'gma', 'Glyma.20G110800' => 'gma', 'Gohir.A03G192900' => 'ghi', 'Gohir.A03G193000' => 'ghi', 'Gohir.A05G080700' => 'ghi', 'Gohir.A09G216000' => 'ghi', 'Gohir.A12G027700' => 'ghi', 'Gohir.A13G036200' => 'ghi', 'Gohir.A13G222600' => 'ghi', 'Gohir.D02G213900' => 'ghi', 'Gohir.D02G214000' => 'ghi', 'Gohir.D05G083700' => 'ghi', 'Gohir.D05G083800' => 'ghi', 'Gohir.D05G083850' => 'ghi', 'Gohir.D08G015400' => 'ghi', 'Gohir.D09G218400' => 'ghi', 'Gohir.D12G027100' => 'ghi', 'Gohir.D13G034500' => 'ghi', 'Gohir.D13G227400' => 'ghi', 'Gorai.005G241800' => 'gra', 'Gorai.005G241900' => 'gra', 'Gorai.006G239400' => 'gra', 'Gorai.008G027600' => 'gra', 'Gorai.009G085400' => 'gra', 'Gorai.009G085500' => 'gra', 'Gorai.013G039000' => 'gra', 'Gorai.013G194800' => 'gra', 'Gorai.013G257900' => 'gra', 'GSVIVG01000982001' => 'vvi', 'GSVIVG01017981001' => 'vvi', 'HanXRQChr01g0024061' => 'han', 'HanXRQChr09g0247831' => 'han', 'HanXRQChr10g0294611' => 'han', 'HanXRQChr10g0294621' => 'han', 'HanXRQChr11g0346821' => 'han', 'HanXRQChr13g0397461' => 'han', 'HanXRQChr16g0513651' => 'han', 'HanXRQChr16g0513701' => 'han', 'Haze_00897' => 'cav', 'Haze_01745' => 'cav', 'Haze_02486' => 'cav', 'Haze_02487' => 'cav', 'Haze_23374' => 'cav', 'Hma1.2p1_0578F.1_g182520' => 'hma', 'Hma1.2p1_0602F.1_g187350' => 'hma', 'Hma1.2p1_0602F.1_g187360' => 'hma', 'Hma1.2p1_0874F.1_g231320' => 'hma', 'Hma1.2p1_1197F.1_g266210' => 'hma', 'Hma1.2p1_1197F.1_g266220' => 'hma', 'Hma1.2p1_2167F.1_g315895' => 'hma', 'Hma1.2p1_2190F.1_g316640' => 'hma', 'Hma1.2p1_3645F.1_g337153' => 'hma', 'HPP92_004907' => 'vpl', 'HPP92_012134' => 'vpl', 'HPP92_025136' => 'vpl', 'HPP92_026087' => 'vpl', 'Hund06782' => 'sun', 'Hund06784' => 'sun', 'Lalb_Chr01g0004861' => 'lal', 'Lalb_Chr02g0140591' => 'lal', 'Lalb_Chr02g0140611' => 'lal', 'Lalb_Chr03g0028101' => 'lal', 'Lalb_Chr07g0185791' => 'lal', 'Lalb_Chr12g0204491' => 'lal', 'Lalb_Chr13g0295671' => 'lal', 'Lalb_Chr19g0136461' => 'lal', 'Lalb_Chr21g0309191' => 'lal', 'Lj1g0028158' => 'lja', 'Lj1P236T38' => 'lonja', 'Lj2C32G2' => 'lonja', 'Lj2P944T8' => 'lonja', 'Lj2P963T15' => 'lonja', 'Lj3g0011788' => 'lja', 'Lj4g0025027' => 'lja', 'Lj5P255T36' => 'lonja', 'Lj6g0018866' => 'lja', 'Lj6P608T31' => 'lonja', 'LjContig00408g0008879' => 'lja', 'Lsat_1_v5_gn_5_105820' => 'lsa', 'Lsat_1_v5_gn_6_38800' => 'lsa', 'Lsat_1_v5_gn_7_67141' => 'lsa', 'Manes.04G003400' => 'mes', 'Manes.07G020000' => 'mes', 'Manes.07G020100' => 'mes', 'Manes.07G020150' => 'mes', 'Manes.10G061500' => 'mes', 'Manes.10G123200' => 'mes', 'Manes.11G161900' => 'mes', 'Manes.15G029300' => 'mes', 'Mapoly0071s0018' => 'mpo', 'Mapoly0082s0023' => 'mpo', 'Mapoly3477s0001' => 'mpo', 'MBI05_g31233_MAGBIO' => 'mbi', 'MBI09_g05946_MAGBIO' => 'mbi', 'MBI09_g05947_MAGBIO' => 'mbi', 'MBI17_g08346_MAGBIO' => 'mbi', 'MCO04G038' => 'mco', 'MCO09G370' => 'mco', 'MCO13G605' => 'mco', 'MD00G1075500' => 'mdo', 'MD03G1144300' => 'mdo', 'MD08G1236800' => 'mdo', 'MD13G1193300' => 'mdo', 'MD15G1428700' => 'mdo', 'Medtr1g112030' => 'mtr', 'Medtr1g112050' => 'mtr', 'Medtr2g006290' => 'mtr', 'Medtr2g086510' => 'mtr', 'Medtr4g053120' => 'mtr', 'Medtr5g006320' => 'mtr', 'Medtr8g088720' => 'mtr', 'MELO3C004712.2' => 'cme', 'MELO3C006533.2' => 'cme', 'MELO3C019438.2' => 'cme', 'MELO3C019440.2' => 'cme', 'MELO3C019441.2' => 'cme', 'MELO3C019895.2' => 'cme', 'Migut.B00811' => 'egut', 'Migut.D02447' => 'egut', 'Migut.F00875' => 'egut', 'Migut.N00186' => 'egut', 'Migut.N01051' => 'egut', 'Migut.N02491' => 'egut', 'Migut.O00784' => 'egut', 'MSTRG.12367' => 'ama', 'MSTRG.18756' => 'ama', 'MSTRG.21042' => 'ama', 'Nitab4.5_0000559g0040' => 'nta', 'Nitab4.5_0000667g0190' => 'nta', 'Nitab4.5_0000755g0160' => 'nta', 'Nitab4.5_0001216g0080' => 'nta', 'Nitab4.5_0004069g0040' => 'nta', 'Nitab4.5_0004129g0010' => 'nta', 'Nitab4.5_0005744g0030' => 'nta', 'Nitab4.5_0006996g0030' => 'nta', 'Nitab4.5_0008971g0040' => 'nta', 'Nitab4.5_0009769g0020' => 'nta', 'Nitab4.5_0009833g0010' => 'nta', 'Nitab4.5_0013140g0020' => 'nta', 'Nn003s41376' => 'nnu', 'Nn1g01857' => 'nnu', 'Nn1g03611' => 'nnu', 'Nn1g06853' => 'nnu', 'Nn3g18360' => 'nnu', 'Nn4g26328' => 'nnu', 'Nn5g27531' => 'nnu', 'Nn6g34899' => 'nnu', 'Nn7g36299' => 'nnu', 'Oeu021485.1' => 'oeu', 'Oeu022433.1' => 'oeu', 'Oeu032111.1' => 'oeu', 'Oeu051608.1' => 'oeu', 'Os01g0860601' => 'osa', 'Os03g0659200' => 'osa', 'Os03g0835900' => 'osa', 'Os04g0412200' => 'osa', 'Os05g0443500' => 'osa', 'Os07g0251500' => 'osa', 'Os08g0104600' => 'osa', 'Peaxi162Scf00003g00047' => 'pax', 'Peaxi162Scf00003g00052' => 'pax', 'Peaxi162Scf00003g00394' => 'pax', 'Peaxi162Scf00091g00621' => 'pax', 'Peaxi162Scf00152g00146' => 'pax', 'Peaxi162Scf00173g00025' => 'pax', 'Peaxi162Scf00195g00102' => 'pax', 'Peaxi162Scf00402g00013' => 'pax', 'Peaxi162Scf00519g00618' => 'pax', 'PGR004G2838' => 'pgr', 'PGR044G2275' => 'pgr', 'PGR102G1377' => 'pgr', 'PGR119G1245' => 'pgr', 'PGR142G4449' => 'pgr', 'PGSC0003DMG400004532' => 'stu', 'PGSC0003DMG400011950' => 'stu', 'PGSC0003DMG400023391' => 'stu', 'PGSC0003DMG400023985' => 'stu', 'PGSC0003DMG400026360' => 'stu', 'PGSC0003DMG400035711' => 'stu', 'PGSC0003DMG400037286' => 'stu', 'PGSC0003DMG402005881' => 'stu', 'Phvul.002G045400' => 'pvu', 'Phvul.006G216600' => 'pvu', 'Phvul.006G216700' => 'pvu', 'Phvul.006G216800' => 'pvu', 'Phvul.007G022500' => 'pvu', 'Phvul.011G094400' => 'pvu', 'Potri.001G470700' => 'ptr', 'Potri.003G015200' => 'ptr', 'Potri.004G202500' => 'ptr', 'Potri.004G218400' => 'ptr', 'Potri.008G020100' => 'ptr', 'Potri.008G153200' => 'ptr', 'Potri.009G163800' => 'ptr', 'Potri.010G087300' => 'ptr', 'Potri.010G239100' => 'ptr', 'Pp3c10_16100' => 'ppa', 'Pp3c10_16880' => 'ppa', 'Pp3c16_6230' => 'ppa', 'Pp3c17_18910' => 'ppa', 'Pp3c3_22119' => 'ppa', 'Pp3c3_22140' => 'ppa', 'Pp3c4_8159' => 'ppa', 'Pp3c4_8171' => 'ppa', 'Pp3c4_8330' => 'ppa', 'PRCOL_00004098' => 'pco', 'Prupe.1G013900' => 'ppe', 'Prupe.1G226300' => 'ppe', 'Prupe.1G573600' => 'ppe', 'Prupe.6G130100' => 'ppe', 'Psat3g090040' => 'psa', 'Psat4g210440' => 'psa', 'Psat6g231040' => 'psa', 'Psat6g231080' => 'psa', 'Psat7g063000' => 'psa', 'Psat7g188000' => 'psa', 'Psat7g188040' => 'psa', 'PSO017G0206' => 'pso', 'PSO170G0501' => 'pso', 'PSO170G6422' => 'pso', 'PSO210G7739' => 'pso', 'PSO339G1808' => 'pso', 'PSO339G6135' => 'pso', 'PSO384G0010' => 'pso', 'PSO384G0964' => 'pso', 'PSO761G0050' => 'pso', 'PSO782G4085' => 'pso', 'QL01p012264' => 'qlo', 'QL02p099491' => 'qlo', 'QL03p033868' => 'qlo', 'QL04p046678' => 'qlo', 'QL06p002448' => 'qlo', 'RcHm_v2.0_Chr4g0416181' => 'rch', 'RcHm_v2.0_Chr5g0044701' => 'rch', 'RcHm_v2.0_Chr6g0265781' => 'rch', 'RcHm_v2.0_Chr7g0221031' => 'rch', 'Rhsim04G0202000' => 'rsi', 'Rhsim11G0127300' => 'rsi', 'Rhsim13G0111800' => 'rsi', 'Sabra01G0165600' => 'sbr', 'Sabra03G0008300' => 'sbr', 'Sabra04G0136900' => 'sbr', 'Sabra08G0013400' => 'sbr', 'Sabra08G0116800' => 'sbr', 'Sabra09G0128000' => 'sbr', 'Sabra10G0055500' => 'sbr', 'Sabra10G0073300' => 'sbr', 'SalBow3G0385' => 'sbo', 'SalBow3G1119' => 'sbo', 'SalBow3G2005' => 'sbo', 'SalBow6G2563' => 'sbo', 'SalBow6G6386' => 'sbo', 'Sc06g0008800' => 'sci', 'Sc07g0004950' => 'sci', 'Sc09g0005340' => 'sci', 'Sc13g0004410' => 'sci', 'Sc21g0007090' => 'sci', 'Sed0009285' => 'sed', 'Sed0017583' => 'sed', 'Sed0019699' => 'sed', 'Sed0023107' => 'sed', 'SEGI_10916' => 'sgi', 'SEGI_16217' => 'sgi', 'SEGI_19466' => 'sgi', 'SEGI_41115' => 'sgi', 'SGA_v2.0_scaffold111G31534' => 'sas', 'SGA_v2.0_scaffold22G09864' => 'sas', 'SGA_v2.0_scaffold338G49219' => 'sas', 'SGA_v2.0_scaffold92G28298' => 'sas', 'SMO119G0064' => 'smo', 'SMO223G0038' => 'smo', 'SMO347G0584' => 'smo', 'SMO351G0010' => 'smo', 'SMO356G0404' => 'smo', 'Solyc01g103920.3' => 'sly', 'Solyc04g009710.2' => 'sly', 'Solyc05g055280.2' => 'sly', 'Solyc10g044520.3' => 'sly', 'Solyc10g075160.1' => 'sly', 'Solyc11g006910.3' => 'sly', 'Solyc11g068430.3' => 'sly', 'Sopen01g046310' => 'spe', 'Sopen03g001200' => 'spe', 'Sopen04g004830' => 'spe', 'Sopen05g033720' => 'spe', 'Sopen06g030740' => 'spe', 'Sopen10g013090' => 'spe', 'Sopen10g027630' => 'spe', 'Sopen10g027640' => 'spe', 'Sopen11g002820' => 'spe', 'Sopen11g027140' => 'spe', 'Sp1g09680' => 'spa', 'Sp2g03630' => 'spa', 'Sp4g10320' => 'spa', 'Sp6g33400' => 'spa', 'Sp7g13030' => 'spa', 'TAR365G0317' => 'tar', 'TAR376G0979' => 'tar', 'TAR623G1665' => 'tar', 'TAR633G2373' => 'tar', 'TAR636G1400' => 'tar', 'THA.LOC104800529' => 'tha', 'THA.LOC104808547' => 'tha', 'THA.LOC104809615' => 'tha', 'THA.LOC104815724' => 'tha', 'THA.LOC104818480' => 'tha', 'THA.LOC104819179' => 'tha', 'THA.LOC104822270' => 'tha', 'THA.LOC104826425' => 'tha', 'Thecc.02G089700' => 'tca', 'Thecc.04G232300' => 'tca', 'Thecc.09G283400' => 'tca', 'Thhalv10009020m.g' => 'esa', 'Thhalv10015506m.g' => 'esa', 'Thhalv10017364m.g' => 'esa', 'Thhalv10023742m.g' => 'esa', 'Thhalv10026483m.g' => 'esa', 'TPR.G17232' => 'tpr', 'TPR.G2133' => 'tpr', 'TPR.G2498' => 'tpr', 'TPR.G31942' => 'tpr', 'TPR.G37877' => 'tpr', 'TPR.G4571' => 'tpr', 'TWI14G1113' => 'twi', 'TWI15G0426' => 'twi', 'TWI31G1005' => 'twi', 'TWI38G0513' => 'twi', 'TWI38G1484' => 'twi', 'TWI73G1098' => 'twi', 'unitig_26.g10519' => 'ugi', 'unitig_736.g22395' => 'ugi', 'unitig_747.g21234' => 'ugi', 'unitig_747.g21942' => 'ugi', 'vmacro14351' => 'vma', 'VMungo0540G0082' => 'vmu', 'VMungo0540G0405' => 'vmu', 'VMungo0540G1486' => 'vmu', 'VMungo0540G1692' => 'vmu', 'VMungo0720G2473' => 'vmu', 'VMungo1127G1562' => 'vmu', 'VMungo1215G1918' => 'vmu', 'Zm00001eb052650' => 'zma', 'Zm00001eb063710' => 'zma', 'Zm00001eb083950' => 'zma', 'Zm00001eb174420' => 'zma', 'Zm00001eb260140' => 'zma', 'Zm00001eb260150' => 'zma', 'Zm00001eb260160' => 'zma', 'Zm00001eb348290' => 'zma', 'Zm00001eb366870' => 'zma', 'Zm00001eb421930' => 'zma' ) $gf_id = 'HOM05D001025' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001025' ) $data_identifier = 'HOM05D001025' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 19, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 2, 'amhyb' => (int) 4, 'aly' => (int) 4, 'aox' => (int) 4, 'arhy' => (int) 3, 'ath' => (int) 5, 'atr' => (int) 4, 'acertr' => (int) 3, 'cqu' => (int) 7, 'bca' => (int) 17, 'bol' => (int) 10, 'bra' => (int) 9, 'can' => (int) 10, 'cansat' => (int) 6, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 5, 'cbr' => (int) 5, 'ccan' => (int) 5, 'cde' => (int) 4, 'cfa' => (int) 3, 'ccl' => (int) 6, 'cil' => (int) 4, 'cla' => (int) 3, 'col' => (int) 3, 'cpa' => (int) 3, 'cre' => (int) 7, 'csa' => (int) 5, 'camsi' => (int) 9, 'dca' => (int) 4, 'din' => (int) 5, 'dzi' => (int) 7, 'eca' => (int) 6, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 12, 'fve' => (int) 4, 'gma' => (int) 12, 'ghi' => (int) 17, 'gra' => (int) 9, 'vvi' => (int) 2, 'han' => (int) 8, 'cav' => (int) 5, 'hma' => (int) 9, 'vpl' => (int) 4, 'sun' => (int) 2, 'lal' => (int) 9, 'lja' => (int) 5, 'lonja' => (int) 6, 'lsa' => (int) 3, 'mes' => (int) 8, 'mpo' => (int) 3, 'mbi' => (int) 4, 'mco' => (int) 3, 'mdo' => (int) 5, 'mtr' => (int) 7, 'cme' => (int) 6, 'egut' => (int) 7, 'ama' => (int) 3, 'nta' => (int) 12, 'nnu' => (int) 9, 'oeu' => (int) 4, 'osa' => (int) 7, 'pax' => (int) 9, 'pgr' => (int) 5, 'stu' => (int) 8, 'pvu' => (int) 6, 'ptr' => (int) 9, 'ppa' => (int) 9, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 7, 'pso' => (int) 10, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 3, 'sbr' => (int) 8, 'sbo' => (int) 5, 'sci' => (int) 5, 'sed' => (int) 4, 'sgi' => (int) 4, 'sas' => (int) 4, 'smo' => (int) 5, 'sly' => (int) 7, 'spe' => (int) 10, 'spa' => (int) 5, 'tar' => (int) 5, 'tha' => (int) 8, 'tca' => (int) 3, 'esa' => (int) 5, 'tpr' => (int) 6, 'twi' => (int) 6, 'ugi' => (int) 4, 'vma' => (int) 1, 'vmu' => (int) 7, 'zma' => (int) 10 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb421930' $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' => 'HOM05D001025', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '592', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p22650' => 'bna', 'A01p29720' => 'bna', 'A03p26560' => 'bna', 'A03p68820' => 'bna', 'A04p20980' => 'bna', 'A06p07730' => 'bna', 'A07p18260' => 'bna', 'A08p33710' => 'bna', 'A09p16970' => 'bna', 'A10p27490' => 'bna', 'Aa31LG1G17300' => 'aar', 'Aa31LG1G3910' => 'aar', 'Aa31LG2G9630' => 'aar', 'Aa31LG5G8360' => 'aar', 'Aa31LG9G2410' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4699' => 'aag', 'Actinidia23512' => 'ach', 'Actinidia37080' => 'ach', 'Ah.01g020380' => 'amhyb', 'Ah.08g215710' => 'amhyb', 'Ah.09g225110' => 'amhyb', 'Ah.10g036680' => 'amhyb', 'AL1G21940' => 'aly', 'AL2G15540' => 'aly', 'AL4G21520' => 'aly', 'AL7G40960' => 'aly', 'Aqoxy2G01191' => 'aox', 'Aqoxy2G03393' => 'aox', 'Aqoxy4G02775' => 'aox', 'Aqoxy6G00058' => 'aox', 'arahy.Tifrunner.gnm1.ann1.9X74H2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CW3FX9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R485W7' => 'arhy', 'AT1G10960' => 'ath', 'AT1G60950' => 'ath', 'AT2G27510' => 'ath', 'AT4G14890' => 'ath', 'AT5G10000' => 'ath', 'ATR0665G624' => 'atr', 'ATR0697G138' => 'atr', 'ATR0776G046' => 'atr', 'ATR1134G135' => 'atr', 'Atru.chr12.1025' => 'acertr', 'Atru.chr3.3241' => 'acertr', 'Atru.chr4.2460' => 'acertr', 'AUR62007427' => 'cqu', 'AUR62010960' => 'cqu', 'AUR62012201' => 'cqu', 'AUR62021470' => 'cqu', 'AUR62022834' => 'cqu', 'AUR62033635' => 'cqu', 'AUR62036186' => 'cqu', 'BcaB01g03077' => 'bca', 'BcaB02g10093' => 'bca', 'BcaB04g20295' => 'bca', 'BcaB06g28147' => 'bca', 'BcaB07g31253' => 'bca', 'BcaC01g04946' => 'bca', 'BcaC02g10614' => 'bca', 'BcaC02g10885' => 'bca', 'BcaC04g19356' => 'bca', 'BcaC04g22297' => 'bca', 'BcaC05g24977' => 'bca', 'BcaC06g31823' => 'bca', 'BcaC07g38633' => 'bca', 'BcaC09g49353' => 'bca', 'BcaC09g50168' => 'bca', 'BcaNung00322' => 'bca', 'BcaNung04769' => 'bca', 'BolC1t02753H' => 'bol', 'BolC1t03721H' => 'bol', 'BolC3t15525H' => 'bol', 'BolC4t23903H' => 'bol', 'BolC4t24231H' => 'bol', 'BolC4t27209H' => 'bol', 'BolC5t29671H' => 'bol', 'BolC8t49044H' => 'bol', 'BolC9t54999H' => 'bol', 'BolC9t59517H' => 'bol', 'BraA01t02178Z' => 'bra', 'BraA01t03099Z' => 'bra', 'BraA03t11867Z' => 'bra', 'BraA04t17667Z' => 'bra', 'BraA07t29542Z' => 'bra', 'BraA08t35287Z' => 'bra', 'BraA09t37334Z' => 'bra', 'BraA10t44801Z' => 'bra', 'BraSC39t46181Z' => 'bra', 'C01p28240' => 'bna', 'C01p37530' => 'bna', 'C03p31820' => 'bna', 'C04p24080' => 'bna', 'C04p25790' => 'bna', 'C04p56770' => 'bna', 'C05p09310' => 'bna', 'C09p21010' => 'bna', 'C09p67560' => 'bna', 'CAN.G1324.7' => 'can', 'CAN.G1358.10' => 'can', 'CAN.G1550.2' => 'can', 'CAN.G186.56' => 'can', 'CAN.G1965.1' => 'can', 'CAN.G645.15' => 'can', 'CAN.G798.26' => 'can', 'CAN.G798.27' => 'can', 'CAN.G798.29' => 'can', 'CAN.G919.31' => 'can', 'CANSAT11G0133' => 'cansat', 'CANSAT11G1171' => 'cansat', 'CANSAT11G2056' => 'cansat', 'CANSAT56G1202' => 'cansat', 'CANSAT56G1514' => 'cansat', 'CANSAT78G0455' => 'cansat', 'CARHR011190' => 'chi', 'CARHR051980' => 'chi', 'CARHR120170' => 'chi', 'CARHR203310' => 'chi', 'CARHR221490' => 'chi', 'Carub.0001s1054' => 'cru', 'Carub.0002s0431' => 'cru', 'Carub.0004s0818' => 'cru', 'Carub.0006s0846' => 'cru', 'Carub.0007s2722' => 'cru', 'Ca_00058_v3' => 'car', 'Ca_17831_v3' => 'car', 'Ca_19408_v3' => 'car', 'Ca_24397_v3' => 'car', 'Ca_25664_v3' => 'car', 'CBR_g21818' => 'cbr', 'CBR_g31195' => 'cbr', 'CBR_g32282' => 'cbr', 'CBR_g39599' => 'cbr', 'CBR_g49410' => 'cbr', 'Cc01_g09120' => 'ccan', 'Cc01_g09130' => 'ccan', 'Cc02_g09630' => 'ccan', 'Cc02_g22810' => 'ccan', 'Cc03_g03810' => 'ccan', 'CDE02G3718' => 'cde', 'CDE04G3183' => 'cde', 'CDE07G1046' => 'cde', 'CDE08G0480' => 'cde', 'Cfa005493' => 'cfa', 'Cfa010312' => 'cfa', 'Cfa015648' => 'cfa', 'Ciclev10002793m.g' => 'ccl', 'Ciclev10003356m.g' => 'ccl', 'Ciclev10006141m.g' => 'ccl', 'Ciclev10016676m.g' => 'ccl', 'Ciclev10017081m.g' => 'ccl', 'Ciclev10029499m.g' => 'ccl', 'CiPaw.01G166300' => 'cil', 'CiPaw.06G145600' => 'cil', 'CiPaw.13G040100' => 'cil', 'CiPaw.13G135800' => 'cil', 'ClCG01G012230' => 'cla', 'ClCG05G009510' => 'cla', 'ClCG08G008270' => 'cla', 'COL.COLO4_11763' => 'col', 'COL.COLO4_19876' => 'col', 'COL.COLO4_21481' => 'col', 'Cpa.g.sc118.34' => 'cpa', 'Cpa.g.sc32.13' => 'cpa', 'Cpa.g.sc58.103' => 'cpa', 'Cre03.g183850' => 'cre', 'Cre06.g306350' => 'cre', 'Cre07.g334800' => 'cre', 'Cre12.g487900' => 'cre', 'Cre14.g626700' => 'cre', 'Cre16.g658400' => 'cre', 'Cre17.g700950' => 'cre', 'CsaV3_1G014830' => 'csa', 'CsaV3_3G013320' => 'csa', 'CsaV3_3G019210' => 'csa', 'CsaV3_3G019220' => 'csa', 'CsaV3_6G004230' => 'csa', 'CSS0003773' => 'camsi', 'CSS0004563' => 'camsi', 'CSS0013949' => 'camsi', 'CSS0025971' => 'camsi', 'CSS0028570' => 'camsi', 'CSS0033127' => 'camsi', 'CSS0036051' => 'camsi', 'CSS0040087' => 'camsi', 'CSS0043179' => 'camsi', 'DCAR_006161' => 'dca', 'DCAR_010351' => 'dca', 'DCAR_012197' => 'dca', 'DCAR_024162' => 'dca', 'Dinv01030' => 'din', 'Dinv10924' => 'din', 'Dinv11835' => 'din', 'Dinv22841' => 'din', 'Dinv42553' => 'din', 'Duzib052G0560' => 'dzi', 'Duzib132G0389' => 'dzi', 'Duzib150G1181' => 'dzi', 'Duzib168G0623' => 'dzi', 'Duzib170G1036' => 'dzi', 'Duzib212G0200' => 'dzi', 'Duzib248G0194' => 'dzi', 'ECA232G2193' => 'eca', 'ECA233G0302' => 'eca', 'ECA234G2813' => 'eca', 'ECA234G4866' => 'eca', 'ECA240G3932' => 'eca', 'ECA248G0385' => 'eca', 'EL10Ac2g04781' => 'bvu', 'EL10Ac3g06445' => 'bvu', 'EL10Ac7g15825' => 'bvu', 'EL10Ac8g18550' => 'bvu', 'Eucgr.B03849' => 'egr', 'Eucgr.I02744' => 'egr', 'Eucgr.J00264' => 'egr', 'Eucgr.J00493' => 'egr', 'FAN04G2181' => 'fan', 'FAN07G2666' => 'fan', 'FAN11G0024' => 'fan', 'FAN12G1105' => 'fan', 'FAN13G0302' => 'fan', 'FAN15G2781' => 'fan', 'FAN16G1274' => 'fan', 'FAN17G2988' => 'fan', 'FAN18G2621' => 'fan', 'FAN21G0013' => 'fan', 'FAN22G1211' => 'fan', 'FAN25G3626' => 'fan', 'FvH4_2g09491' => 'fve', 'FvH4_3g24910' => 'fve', 'FvH4_4g15630' => 'fve', 'FvH4_5g28820' => 'fve', 'Glyma.01G238000' => 'gma', 'Glyma.05G168400' => 'gma', 'Glyma.08G126800' => 'gma', 'Glyma.08G188500' => 'gma', 'Glyma.10G278900' => 'gma', 'Glyma.11G005700' => 'gma', 'Glyma.11G183300' => 'gma', 'Glyma.12G089200' => 'gma', 'Glyma.12G169400' => 'gma', 'Glyma.12G169500' => 'gma', 'Glyma.12G169600' => 'gma', 'Glyma.20G110800' => 'gma', 'Gohir.A03G192900' => 'ghi', 'Gohir.A03G193000' => 'ghi', 'Gohir.A05G080700' => 'ghi', 'Gohir.A09G216000' => 'ghi', 'Gohir.A12G027700' => 'ghi', 'Gohir.A13G036200' => 'ghi', 'Gohir.A13G222600' => 'ghi', 'Gohir.D02G213900' => 'ghi', 'Gohir.D02G214000' => 'ghi', 'Gohir.D05G083700' => 'ghi', 'Gohir.D05G083800' => 'ghi', 'Gohir.D05G083850' => 'ghi', 'Gohir.D08G015400' => 'ghi', 'Gohir.D09G218400' => 'ghi', 'Gohir.D12G027100' => 'ghi', 'Gohir.D13G034500' => 'ghi', 'Gohir.D13G227400' => 'ghi', 'Gorai.005G241800' => 'gra', 'Gorai.005G241900' => 'gra', 'Gorai.006G239400' => 'gra', 'Gorai.008G027600' => 'gra', 'Gorai.009G085400' => 'gra', 'Gorai.009G085500' => 'gra', 'Gorai.013G039000' => 'gra', 'Gorai.013G194800' => 'gra', 'Gorai.013G257900' => 'gra', 'GSVIVG01000982001' => 'vvi', 'GSVIVG01017981001' => 'vvi', 'HanXRQChr01g0024061' => 'han', 'HanXRQChr09g0247831' => 'han', 'HanXRQChr10g0294611' => 'han', 'HanXRQChr10g0294621' => 'han', 'HanXRQChr11g0346821' => 'han', 'HanXRQChr13g0397461' => 'han', 'HanXRQChr16g0513651' => 'han', 'HanXRQChr16g0513701' => 'han', 'Haze_00897' => 'cav', 'Haze_01745' => 'cav', 'Haze_02486' => 'cav', 'Haze_02487' => 'cav', 'Haze_23374' => 'cav', 'Hma1.2p1_0578F.1_g182520' => 'hma', 'Hma1.2p1_0602F.1_g187350' => 'hma', 'Hma1.2p1_0602F.1_g187360' => 'hma', 'Hma1.2p1_0874F.1_g231320' => 'hma', 'Hma1.2p1_1197F.1_g266210' => 'hma', 'Hma1.2p1_1197F.1_g266220' => 'hma', 'Hma1.2p1_2167F.1_g315895' => 'hma', 'Hma1.2p1_2190F.1_g316640' => 'hma', 'Hma1.2p1_3645F.1_g337153' => 'hma', 'HPP92_004907' => 'vpl', 'HPP92_012134' => 'vpl', 'HPP92_025136' => 'vpl', 'HPP92_026087' => 'vpl', 'Hund06782' => 'sun', 'Hund06784' => 'sun', 'Lalb_Chr01g0004861' => 'lal', 'Lalb_Chr02g0140591' => 'lal', 'Lalb_Chr02g0140611' => 'lal', 'Lalb_Chr03g0028101' => 'lal', 'Lalb_Chr07g0185791' => 'lal', 'Lalb_Chr12g0204491' => 'lal', 'Lalb_Chr13g0295671' => 'lal', 'Lalb_Chr19g0136461' => 'lal', 'Lalb_Chr21g0309191' => 'lal', 'Lj1g0028158' => 'lja', 'Lj1P236T38' => 'lonja', 'Lj2C32G2' => 'lonja', 'Lj2P944T8' => 'lonja', 'Lj2P963T15' => 'lonja', 'Lj3g0011788' => 'lja', 'Lj4g0025027' => 'lja', 'Lj5P255T36' => 'lonja', 'Lj6g0018866' => 'lja', 'Lj6P608T31' => 'lonja', 'LjContig00408g0008879' => 'lja', 'Lsat_1_v5_gn_5_105820' => 'lsa', 'Lsat_1_v5_gn_6_38800' => 'lsa', 'Lsat_1_v5_gn_7_67141' => 'lsa', 'Manes.04G003400' => 'mes', 'Manes.07G020000' => 'mes', 'Manes.07G020100' => 'mes', 'Manes.07G020150' => 'mes', 'Manes.10G061500' => 'mes', 'Manes.10G123200' => 'mes', 'Manes.11G161900' => 'mes', 'Manes.15G029300' => 'mes', 'Mapoly0071s0018' => 'mpo', 'Mapoly0082s0023' => 'mpo', 'Mapoly3477s0001' => 'mpo', 'MBI05_g31233_MAGBIO' => 'mbi', 'MBI09_g05946_MAGBIO' => 'mbi', 'MBI09_g05947_MAGBIO' => 'mbi', 'MBI17_g08346_MAGBIO' => 'mbi', 'MCO04G038' => 'mco', 'MCO09G370' => 'mco', 'MCO13G605' => 'mco', 'MD00G1075500' => 'mdo', 'MD03G1144300' => 'mdo', 'MD08G1236800' => 'mdo', 'MD13G1193300' => 'mdo', 'MD15G1428700' => 'mdo', 'Medtr1g112030' => 'mtr', 'Medtr1g112050' => 'mtr', 'Medtr2g006290' => 'mtr', 'Medtr2g086510' => 'mtr', 'Medtr4g053120' => 'mtr', 'Medtr5g006320' => 'mtr', 'Medtr8g088720' => 'mtr', 'MELO3C004712.2' => 'cme', 'MELO3C006533.2' => 'cme', 'MELO3C019438.2' => 'cme', 'MELO3C019440.2' => 'cme', 'MELO3C019441.2' => 'cme', 'MELO3C019895.2' => 'cme', 'Migut.B00811' => 'egut', 'Migut.D02447' => 'egut', 'Migut.F00875' => 'egut', 'Migut.N00186' => 'egut', 'Migut.N01051' => 'egut', 'Migut.N02491' => 'egut', 'Migut.O00784' => 'egut', 'MSTRG.12367' => 'ama', 'MSTRG.18756' => 'ama', 'MSTRG.21042' => 'ama', 'Nitab4.5_0000559g0040' => 'nta', 'Nitab4.5_0000667g0190' => 'nta', 'Nitab4.5_0000755g0160' => 'nta', 'Nitab4.5_0001216g0080' => 'nta', 'Nitab4.5_0004069g0040' => 'nta', 'Nitab4.5_0004129g0010' => 'nta', 'Nitab4.5_0005744g0030' => 'nta', 'Nitab4.5_0006996g0030' => 'nta', 'Nitab4.5_0008971g0040' => 'nta', 'Nitab4.5_0009769g0020' => 'nta', 'Nitab4.5_0009833g0010' => 'nta', 'Nitab4.5_0013140g0020' => 'nta', 'Nn003s41376' => 'nnu', 'Nn1g01857' => 'nnu', 'Nn1g03611' => 'nnu', 'Nn1g06853' => 'nnu', 'Nn3g18360' => 'nnu', 'Nn4g26328' => 'nnu', 'Nn5g27531' => 'nnu', 'Nn6g34899' => 'nnu', 'Nn7g36299' => 'nnu', 'Oeu021485.1' => 'oeu', 'Oeu022433.1' => 'oeu', 'Oeu032111.1' => 'oeu', 'Oeu051608.1' => 'oeu', 'Os01g0860601' => 'osa', 'Os03g0659200' => 'osa', 'Os03g0835900' => 'osa', 'Os04g0412200' => 'osa', 'Os05g0443500' => 'osa', 'Os07g0251500' => 'osa', 'Os08g0104600' => 'osa', 'Peaxi162Scf00003g00047' => 'pax', 'Peaxi162Scf00003g00052' => 'pax', 'Peaxi162Scf00003g00394' => 'pax', 'Peaxi162Scf00091g00621' => 'pax', 'Peaxi162Scf00152g00146' => 'pax', 'Peaxi162Scf00173g00025' => 'pax', 'Peaxi162Scf00195g00102' => 'pax', 'Peaxi162Scf00402g00013' => 'pax', 'Peaxi162Scf00519g00618' => 'pax', 'PGR004G2838' => 'pgr', 'PGR044G2275' => 'pgr', 'PGR102G1377' => 'pgr', 'PGR119G1245' => 'pgr', 'PGR142G4449' => 'pgr', 'PGSC0003DMG400004532' => 'stu', 'PGSC0003DMG400011950' => 'stu', 'PGSC0003DMG400023391' => 'stu', 'PGSC0003DMG400023985' => 'stu', 'PGSC0003DMG400026360' => 'stu', 'PGSC0003DMG400035711' => 'stu', 'PGSC0003DMG400037286' => 'stu', 'PGSC0003DMG402005881' => 'stu', 'Phvul.002G045400' => 'pvu', 'Phvul.006G216600' => 'pvu', 'Phvul.006G216700' => 'pvu', 'Phvul.006G216800' => 'pvu', 'Phvul.007G022500' => 'pvu', 'Phvul.011G094400' => 'pvu', 'Potri.001G470700' => 'ptr', 'Potri.003G015200' => 'ptr', 'Potri.004G202500' => 'ptr', 'Potri.004G218400' => 'ptr', 'Potri.008G020100' => 'ptr', 'Potri.008G153200' => 'ptr', 'Potri.009G163800' => 'ptr', 'Potri.010G087300' => 'ptr', 'Potri.010G239100' => 'ptr', 'Pp3c10_16100' => 'ppa', 'Pp3c10_16880' => 'ppa', 'Pp3c16_6230' => 'ppa', 'Pp3c17_18910' => 'ppa', 'Pp3c3_22119' => 'ppa', 'Pp3c3_22140' => 'ppa', 'Pp3c4_8159' => 'ppa', 'Pp3c4_8171' => 'ppa', 'Pp3c4_8330' => 'ppa', 'PRCOL_00004098' => 'pco', 'Prupe.1G013900' => 'ppe', 'Prupe.1G226300' => 'ppe', 'Prupe.1G573600' => 'ppe', 'Prupe.6G130100' => 'ppe', 'Psat3g090040' => 'psa', 'Psat4g210440' => 'psa', 'Psat6g231040' => 'psa', 'Psat6g231080' => 'psa', 'Psat7g063000' => 'psa', 'Psat7g188000' => 'psa', 'Psat7g188040' => 'psa', 'PSO017G0206' => 'pso', 'PSO170G0501' => 'pso', 'PSO170G6422' => 'pso', 'PSO210G7739' => 'pso', 'PSO339G1808' => 'pso', 'PSO339G6135' => 'pso', 'PSO384G0010' => 'pso', 'PSO384G0964' => 'pso', 'PSO761G0050' => 'pso', 'PSO782G4085' => 'pso', 'QL01p012264' => 'qlo', 'QL02p099491' => 'qlo', 'QL03p033868' => 'qlo', 'QL04p046678' => 'qlo', 'QL06p002448' => 'qlo', 'RcHm_v2.0_Chr4g0416181' => 'rch', 'RcHm_v2.0_Chr5g0044701' => 'rch', 'RcHm_v2.0_Chr6g0265781' => 'rch', 'RcHm_v2.0_Chr7g0221031' => 'rch', 'Rhsim04G0202000' => 'rsi', 'Rhsim11G0127300' => 'rsi', 'Rhsim13G0111800' => 'rsi', 'Sabra01G0165600' => 'sbr', 'Sabra03G0008300' => 'sbr', 'Sabra04G0136900' => 'sbr', 'Sabra08G0013400' => 'sbr', 'Sabra08G0116800' => 'sbr', 'Sabra09G0128000' => 'sbr', 'Sabra10G0055500' => 'sbr', 'Sabra10G0073300' => 'sbr', 'SalBow3G0385' => 'sbo', 'SalBow3G1119' => 'sbo', 'SalBow3G2005' => 'sbo', 'SalBow6G2563' => 'sbo', 'SalBow6G6386' => 'sbo', 'Sc06g0008800' => 'sci', 'Sc07g0004950' => 'sci', 'Sc09g0005340' => 'sci', 'Sc13g0004410' => 'sci', 'Sc21g0007090' => 'sci', 'Sed0009285' => 'sed', 'Sed0017583' => 'sed', 'Sed0019699' => 'sed', 'Sed0023107' => 'sed', 'SEGI_10916' => 'sgi', 'SEGI_16217' => 'sgi', 'SEGI_19466' => 'sgi', 'SEGI_41115' => 'sgi', 'SGA_v2.0_scaffold111G31534' => 'sas', 'SGA_v2.0_scaffold22G09864' => 'sas', 'SGA_v2.0_scaffold338G49219' => 'sas', 'SGA_v2.0_scaffold92G28298' => 'sas', 'SMO119G0064' => 'smo', 'SMO223G0038' => 'smo', 'SMO347G0584' => 'smo', 'SMO351G0010' => 'smo', 'SMO356G0404' => 'smo', 'Solyc01g103920.3' => 'sly', 'Solyc04g009710.2' => 'sly', 'Solyc05g055280.2' => 'sly', 'Solyc10g044520.3' => 'sly', 'Solyc10g075160.1' => 'sly', 'Solyc11g006910.3' => 'sly', 'Solyc11g068430.3' => 'sly', 'Sopen01g046310' => 'spe', 'Sopen03g001200' => 'spe', 'Sopen04g004830' => 'spe', 'Sopen05g033720' => 'spe', 'Sopen06g030740' => 'spe', 'Sopen10g013090' => 'spe', 'Sopen10g027630' => 'spe', 'Sopen10g027640' => 'spe', 'Sopen11g002820' => 'spe', 'Sopen11g027140' => 'spe', 'Sp1g09680' => 'spa', 'Sp2g03630' => 'spa', 'Sp4g10320' => 'spa', 'Sp6g33400' => 'spa', 'Sp7g13030' => 'spa', 'TAR365G0317' => 'tar', 'TAR376G0979' => 'tar', 'TAR623G1665' => 'tar', 'TAR633G2373' => 'tar', 'TAR636G1400' => 'tar', 'THA.LOC104800529' => 'tha', 'THA.LOC104808547' => 'tha', 'THA.LOC104809615' => 'tha', 'THA.LOC104815724' => 'tha', 'THA.LOC104818480' => 'tha', 'THA.LOC104819179' => 'tha', 'THA.LOC104822270' => 'tha', 'THA.LOC104826425' => 'tha', 'Thecc.02G089700' => 'tca', 'Thecc.04G232300' => 'tca', 'Thecc.09G283400' => 'tca', 'Thhalv10009020m.g' => 'esa', 'Thhalv10015506m.g' => 'esa', 'Thhalv10017364m.g' => 'esa', 'Thhalv10023742m.g' => 'esa', 'Thhalv10026483m.g' => 'esa', 'TPR.G17232' => 'tpr', 'TPR.G2133' => 'tpr', 'TPR.G2498' => 'tpr', 'TPR.G31942' => 'tpr', 'TPR.G37877' => 'tpr', 'TPR.G4571' => 'tpr', 'TWI14G1113' => 'twi', 'TWI15G0426' => 'twi', 'TWI31G1005' => 'twi', 'TWI38G0513' => 'twi', 'TWI38G1484' => 'twi', 'TWI73G1098' => 'twi', 'unitig_26.g10519' => 'ugi', 'unitig_736.g22395' => 'ugi', 'unitig_747.g21234' => 'ugi', 'unitig_747.g21942' => 'ugi', 'vmacro14351' => 'vma', 'VMungo0540G0082' => 'vmu', 'VMungo0540G0405' => 'vmu', 'VMungo0540G1486' => 'vmu', 'VMungo0540G1692' => 'vmu', 'VMungo0720G2473' => 'vmu', 'VMungo1127G1562' => 'vmu', 'VMungo1215G1918' => 'vmu', 'Zm00001eb052650' => 'zma', 'Zm00001eb063710' => 'zma', 'Zm00001eb083950' => 'zma', 'Zm00001eb174420' => 'zma', 'Zm00001eb260140' => 'zma', 'Zm00001eb260150' => 'zma', 'Zm00001eb260160' => 'zma', 'Zm00001eb348290' => 'zma', 'Zm00001eb366870' => 'zma', 'Zm00001eb421930' => 'zma' ), 'gf_id' => 'HOM05D001025', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001025' ), 'data_identifier' => 'HOM05D001025', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001025', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '592', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p22650' => 'bna', 'A01p29720' => 'bna', 'A03p26560' => 'bna', 'A03p68820' => 'bna', 'A04p20980' => 'bna', 'A06p07730' => 'bna', 'A07p18260' => 'bna', 'A08p33710' => 'bna', 'A09p16970' => 'bna', 'A10p27490' => 'bna', 'Aa31LG1G17300' => 'aar', 'Aa31LG1G3910' => 'aar', 'Aa31LG2G9630' => 'aar', 'Aa31LG5G8360' => 'aar', 'Aa31LG9G2410' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4699' => 'aag', 'Actinidia23512' => 'ach', 'Actinidia37080' => 'ach', 'Ah.01g020380' => 'amhyb', 'Ah.08g215710' => 'amhyb', 'Ah.09g225110' => 'amhyb', 'Ah.10g036680' => 'amhyb', 'AL1G21940' => 'aly', 'AL2G15540' => 'aly', 'AL4G21520' => 'aly', 'AL7G40960' => 'aly', 'Aqoxy2G01191' => 'aox', 'Aqoxy2G03393' => 'aox', 'Aqoxy4G02775' => 'aox', 'Aqoxy6G00058' => 'aox', 'arahy.Tifrunner.gnm1.ann1.9X74H2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CW3FX9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R485W7' => 'arhy', 'AT1G10960' => 'ath', 'AT1G60950' => 'ath', 'AT2G27510' => 'ath', 'AT4G14890' => 'ath', 'AT5G10000' => 'ath', 'ATR0665G624' => 'atr', 'ATR0697G138' => 'atr', 'ATR0776G046' => 'atr', 'ATR1134G135' => 'atr', 'Atru.chr12.1025' => 'acertr', 'Atru.chr3.3241' => 'acertr', 'Atru.chr4.2460' => 'acertr', 'AUR62007427' => 'cqu', 'AUR62010960' => 'cqu', 'AUR62012201' => 'cqu', 'AUR62021470' => 'cqu', 'AUR62022834' => 'cqu', 'AUR62033635' => 'cqu', 'AUR62036186' => 'cqu', 'BcaB01g03077' => 'bca', 'BcaB02g10093' => 'bca', 'BcaB04g20295' => 'bca', 'BcaB06g28147' => 'bca', 'BcaB07g31253' => 'bca', 'BcaC01g04946' => 'bca', 'BcaC02g10614' => 'bca', 'BcaC02g10885' => 'bca', 'BcaC04g19356' => 'bca', 'BcaC04g22297' => 'bca', 'BcaC05g24977' => 'bca', 'BcaC06g31823' => 'bca', 'BcaC07g38633' => 'bca', 'BcaC09g49353' => 'bca', 'BcaC09g50168' => 'bca', 'BcaNung00322' => 'bca', 'BcaNung04769' => 'bca', 'BolC1t02753H' => 'bol', 'BolC1t03721H' => 'bol', 'BolC3t15525H' => 'bol', 'BolC4t23903H' => 'bol', 'BolC4t24231H' => 'bol', 'BolC4t27209H' => 'bol', 'BolC5t29671H' => 'bol', 'BolC8t49044H' => 'bol', 'BolC9t54999H' => 'bol', 'BolC9t59517H' => 'bol', 'BraA01t02178Z' => 'bra', 'BraA01t03099Z' => 'bra', 'BraA03t11867Z' => 'bra', 'BraA04t17667Z' => 'bra', 'BraA07t29542Z' => 'bra', 'BraA08t35287Z' => 'bra', 'BraA09t37334Z' => 'bra', 'BraA10t44801Z' => 'bra', 'BraSC39t46181Z' => 'bra', 'C01p28240' => 'bna', 'C01p37530' => 'bna', 'C03p31820' => 'bna', 'C04p24080' => 'bna', 'C04p25790' => 'bna', 'C04p56770' => 'bna', 'C05p09310' => 'bna', 'C09p21010' => 'bna', 'C09p67560' => 'bna', 'CAN.G1324.7' => 'can', 'CAN.G1358.10' => 'can', 'CAN.G1550.2' => 'can', 'CAN.G186.56' => 'can', 'CAN.G1965.1' => 'can', 'CAN.G645.15' => 'can', 'CAN.G798.26' => 'can', 'CAN.G798.27' => 'can', 'CAN.G798.29' => 'can', 'CAN.G919.31' => 'can', 'CANSAT11G0133' => 'cansat', 'CANSAT11G1171' => 'cansat', 'CANSAT11G2056' => 'cansat', 'CANSAT56G1202' => 'cansat', 'CANSAT56G1514' => 'cansat', 'CANSAT78G0455' => 'cansat', 'CARHR011190' => 'chi', 'CARHR051980' => 'chi', 'CARHR120170' => 'chi', 'CARHR203310' => 'chi', 'CARHR221490' => 'chi', 'Carub.0001s1054' => 'cru', 'Carub.0002s0431' => 'cru', 'Carub.0004s0818' => 'cru', 'Carub.0006s0846' => 'cru', 'Carub.0007s2722' => 'cru', 'Ca_00058_v3' => 'car', 'Ca_17831_v3' => 'car', 'Ca_19408_v3' => 'car', 'Ca_24397_v3' => 'car', 'Ca_25664_v3' => 'car', 'CBR_g21818' => 'cbr', 'CBR_g31195' => 'cbr', 'CBR_g32282' => 'cbr', 'CBR_g39599' => 'cbr', 'CBR_g49410' => 'cbr', 'Cc01_g09120' => 'ccan', 'Cc01_g09130' => 'ccan', 'Cc02_g09630' => 'ccan', 'Cc02_g22810' => 'ccan', 'Cc03_g03810' => 'ccan', 'CDE02G3718' => 'cde', 'CDE04G3183' => 'cde', 'CDE07G1046' => 'cde', 'CDE08G0480' => 'cde', 'Cfa005493' => 'cfa', 'Cfa010312' => 'cfa', 'Cfa015648' => 'cfa', 'Ciclev10002793m.g' => 'ccl', 'Ciclev10003356m.g' => 'ccl', 'Ciclev10006141m.g' => 'ccl', 'Ciclev10016676m.g' => 'ccl', 'Ciclev10017081m.g' => 'ccl', 'Ciclev10029499m.g' => 'ccl', 'CiPaw.01G166300' => 'cil', 'CiPaw.06G145600' => 'cil', 'CiPaw.13G040100' => 'cil', 'CiPaw.13G135800' => 'cil', 'ClCG01G012230' => 'cla', 'ClCG05G009510' => 'cla', 'ClCG08G008270' => 'cla', 'COL.COLO4_11763' => 'col', 'COL.COLO4_19876' => 'col', 'COL.COLO4_21481' => 'col', 'Cpa.g.sc118.34' => 'cpa', 'Cpa.g.sc32.13' => 'cpa', 'Cpa.g.sc58.103' => 'cpa', 'Cre03.g183850' => 'cre', 'Cre06.g306350' => 'cre', 'Cre07.g334800' => 'cre', 'Cre12.g487900' => 'cre', 'Cre14.g626700' => 'cre', 'Cre16.g658400' => 'cre', 'Cre17.g700950' => 'cre', 'CsaV3_1G014830' => 'csa', 'CsaV3_3G013320' => 'csa', 'CsaV3_3G019210' => 'csa', 'CsaV3_3G019220' => 'csa', 'CsaV3_6G004230' => 'csa', 'CSS0003773' => 'camsi', 'CSS0004563' => 'camsi', 'CSS0013949' => 'camsi', 'CSS0025971' => 'camsi', 'CSS0028570' => 'camsi', 'CSS0033127' => 'camsi', 'CSS0036051' => 'camsi', 'CSS0040087' => 'camsi', 'CSS0043179' => 'camsi', 'DCAR_006161' => 'dca', 'DCAR_010351' => 'dca', 'DCAR_012197' => 'dca', 'DCAR_024162' => 'dca', 'Dinv01030' => 'din', 'Dinv10924' => 'din', 'Dinv11835' => 'din', 'Dinv22841' => 'din', 'Dinv42553' => 'din', 'Duzib052G0560' => 'dzi', 'Duzib132G0389' => 'dzi', 'Duzib150G1181' => 'dzi', 'Duzib168G0623' => 'dzi', 'Duzib170G1036' => 'dzi', 'Duzib212G0200' => 'dzi', 'Duzib248G0194' => 'dzi', 'ECA232G2193' => 'eca', 'ECA233G0302' => 'eca', 'ECA234G2813' => 'eca', 'ECA234G4866' => 'eca', 'ECA240G3932' => 'eca', 'ECA248G0385' => 'eca', 'EL10Ac2g04781' => 'bvu', 'EL10Ac3g06445' => 'bvu', 'EL10Ac7g15825' => 'bvu', 'EL10Ac8g18550' => 'bvu', 'Eucgr.B03849' => 'egr', 'Eucgr.I02744' => 'egr', 'Eucgr.J00264' => 'egr', 'Eucgr.J00493' => 'egr', 'FAN04G2181' => 'fan', 'FAN07G2666' => 'fan', 'FAN11G0024' => 'fan', 'FAN12G1105' => 'fan', 'FAN13G0302' => 'fan', 'FAN15G2781' => 'fan', 'FAN16G1274' => 'fan', 'FAN17G2988' => 'fan', 'FAN18G2621' => 'fan', 'FAN21G0013' => 'fan', 'FAN22G1211' => 'fan', 'FAN25G3626' => 'fan', 'FvH4_2g09491' => 'fve', 'FvH4_3g24910' => 'fve', 'FvH4_4g15630' => 'fve', 'FvH4_5g28820' => 'fve', 'Glyma.01G238000' => 'gma', 'Glyma.05G168400' => 'gma', 'Glyma.08G126800' => 'gma', 'Glyma.08G188500' => 'gma', 'Glyma.10G278900' => 'gma', 'Glyma.11G005700' => 'gma', 'Glyma.11G183300' => 'gma', 'Glyma.12G089200' => 'gma', 'Glyma.12G169400' => 'gma', 'Glyma.12G169500' => 'gma', 'Glyma.12G169600' => 'gma', 'Glyma.20G110800' => 'gma', 'Gohir.A03G192900' => 'ghi', 'Gohir.A03G193000' => 'ghi', 'Gohir.A05G080700' => 'ghi', 'Gohir.A09G216000' => 'ghi', 'Gohir.A12G027700' => 'ghi', 'Gohir.A13G036200' => 'ghi', 'Gohir.A13G222600' => 'ghi', 'Gohir.D02G213900' => 'ghi', 'Gohir.D02G214000' => 'ghi', 'Gohir.D05G083700' => 'ghi', 'Gohir.D05G083800' => 'ghi', 'Gohir.D05G083850' => 'ghi', 'Gohir.D08G015400' => 'ghi', 'Gohir.D09G218400' => 'ghi', 'Gohir.D12G027100' => 'ghi', 'Gohir.D13G034500' => 'ghi', 'Gohir.D13G227400' => 'ghi', 'Gorai.005G241800' => 'gra', 'Gorai.005G241900' => 'gra', 'Gorai.006G239400' => 'gra', 'Gorai.008G027600' => 'gra', 'Gorai.009G085400' => 'gra', 'Gorai.009G085500' => 'gra', 'Gorai.013G039000' => 'gra', 'Gorai.013G194800' => 'gra', 'Gorai.013G257900' => 'gra', 'GSVIVG01000982001' => 'vvi', 'GSVIVG01017981001' => 'vvi', 'HanXRQChr01g0024061' => 'han', 'HanXRQChr09g0247831' => 'han', 'HanXRQChr10g0294611' => 'han', 'HanXRQChr10g0294621' => 'han', 'HanXRQChr11g0346821' => 'han', 'HanXRQChr13g0397461' => 'han', 'HanXRQChr16g0513651' => 'han', 'HanXRQChr16g0513701' => 'han', 'Haze_00897' => 'cav', 'Haze_01745' => 'cav', 'Haze_02486' => 'cav', 'Haze_02487' => 'cav', 'Haze_23374' => 'cav', 'Hma1.2p1_0578F.1_g182520' => 'hma', 'Hma1.2p1_0602F.1_g187350' => 'hma', 'Hma1.2p1_0602F.1_g187360' => 'hma', 'Hma1.2p1_0874F.1_g231320' => 'hma', 'Hma1.2p1_1197F.1_g266210' => 'hma', 'Hma1.2p1_1197F.1_g266220' => 'hma', 'Hma1.2p1_2167F.1_g315895' => 'hma', 'Hma1.2p1_2190F.1_g316640' => 'hma', 'Hma1.2p1_3645F.1_g337153' => 'hma', 'HPP92_004907' => 'vpl', 'HPP92_012134' => 'vpl', 'HPP92_025136' => 'vpl', 'HPP92_026087' => 'vpl', 'Hund06782' => 'sun', 'Hund06784' => 'sun', 'Lalb_Chr01g0004861' => 'lal', 'Lalb_Chr02g0140591' => 'lal', 'Lalb_Chr02g0140611' => 'lal', 'Lalb_Chr03g0028101' => 'lal', 'Lalb_Chr07g0185791' => 'lal', 'Lalb_Chr12g0204491' => 'lal', 'Lalb_Chr13g0295671' => 'lal', 'Lalb_Chr19g0136461' => 'lal', 'Lalb_Chr21g0309191' => 'lal', 'Lj1g0028158' => 'lja', 'Lj1P236T38' => 'lonja', 'Lj2C32G2' => 'lonja', 'Lj2P944T8' => 'lonja', 'Lj2P963T15' => 'lonja', 'Lj3g0011788' => 'lja', 'Lj4g0025027' => 'lja', 'Lj5P255T36' => 'lonja', 'Lj6g0018866' => 'lja', 'Lj6P608T31' => 'lonja', 'LjContig00408g0008879' => 'lja', 'Lsat_1_v5_gn_5_105820' => 'lsa', 'Lsat_1_v5_gn_6_38800' => 'lsa', 'Lsat_1_v5_gn_7_67141' => 'lsa', 'Manes.04G003400' => 'mes', 'Manes.07G020000' => 'mes', 'Manes.07G020100' => 'mes', 'Manes.07G020150' => 'mes', 'Manes.10G061500' => 'mes', 'Manes.10G123200' => 'mes', 'Manes.11G161900' => 'mes', 'Manes.15G029300' => 'mes', 'Mapoly0071s0018' => 'mpo', 'Mapoly0082s0023' => 'mpo', 'Mapoly3477s0001' => 'mpo', 'MBI05_g31233_MAGBIO' => 'mbi', 'MBI09_g05946_MAGBIO' => 'mbi', 'MBI09_g05947_MAGBIO' => 'mbi', 'MBI17_g08346_MAGBIO' => 'mbi', 'MCO04G038' => 'mco', 'MCO09G370' => 'mco', 'MCO13G605' => 'mco', 'MD00G1075500' => 'mdo', 'MD03G1144300' => 'mdo', 'MD08G1236800' => 'mdo', 'MD13G1193300' => 'mdo', 'MD15G1428700' => 'mdo', 'Medtr1g112030' => 'mtr', 'Medtr1g112050' => 'mtr', 'Medtr2g006290' => 'mtr', 'Medtr2g086510' => 'mtr', 'Medtr4g053120' => 'mtr', 'Medtr5g006320' => 'mtr', 'Medtr8g088720' => 'mtr', 'MELO3C004712.2' => 'cme', 'MELO3C006533.2' => 'cme', 'MELO3C019438.2' => 'cme', 'MELO3C019440.2' => 'cme', 'MELO3C019441.2' => 'cme', 'MELO3C019895.2' => 'cme', 'Migut.B00811' => 'egut', 'Migut.D02447' => 'egut', 'Migut.F00875' => 'egut', 'Migut.N00186' => 'egut', 'Migut.N01051' => 'egut', 'Migut.N02491' => 'egut', 'Migut.O00784' => 'egut', 'MSTRG.12367' => 'ama', 'MSTRG.18756' => 'ama', 'MSTRG.21042' => 'ama', 'Nitab4.5_0000559g0040' => 'nta', 'Nitab4.5_0000667g0190' => 'nta', 'Nitab4.5_0000755g0160' => 'nta', 'Nitab4.5_0001216g0080' => 'nta', 'Nitab4.5_0004069g0040' => 'nta', 'Nitab4.5_0004129g0010' => 'nta', 'Nitab4.5_0005744g0030' => 'nta', 'Nitab4.5_0006996g0030' => 'nta', 'Nitab4.5_0008971g0040' => 'nta', 'Nitab4.5_0009769g0020' => 'nta', 'Nitab4.5_0009833g0010' => 'nta', 'Nitab4.5_0013140g0020' => 'nta', 'Nn003s41376' => 'nnu', 'Nn1g01857' => 'nnu', 'Nn1g03611' => 'nnu', 'Nn1g06853' => 'nnu', 'Nn3g18360' => 'nnu', 'Nn4g26328' => 'nnu', 'Nn5g27531' => 'nnu', 'Nn6g34899' => 'nnu', 'Nn7g36299' => 'nnu', 'Oeu021485.1' => 'oeu', 'Oeu022433.1' => 'oeu', 'Oeu032111.1' => 'oeu', 'Oeu051608.1' => 'oeu', 'Os01g0860601' => 'osa', 'Os03g0659200' => 'osa', 'Os03g0835900' => 'osa', 'Os04g0412200' => 'osa', 'Os05g0443500' => 'osa', 'Os07g0251500' => 'osa', 'Os08g0104600' => 'osa', 'Peaxi162Scf00003g00047' => 'pax', 'Peaxi162Scf00003g00052' => 'pax', 'Peaxi162Scf00003g00394' => 'pax', 'Peaxi162Scf00091g00621' => 'pax', 'Peaxi162Scf00152g00146' => 'pax', 'Peaxi162Scf00173g00025' => 'pax', 'Peaxi162Scf00195g00102' => 'pax', 'Peaxi162Scf00402g00013' => 'pax', 'Peaxi162Scf00519g00618' => 'pax', 'PGR004G2838' => 'pgr', 'PGR044G2275' => 'pgr', 'PGR102G1377' => 'pgr', 'PGR119G1245' => 'pgr', 'PGR142G4449' => 'pgr', 'PGSC0003DMG400004532' => 'stu', 'PGSC0003DMG400011950' => 'stu', 'PGSC0003DMG400023391' => 'stu', 'PGSC0003DMG400023985' => 'stu', 'PGSC0003DMG400026360' => 'stu', 'PGSC0003DMG400035711' => 'stu', 'PGSC0003DMG400037286' => 'stu', 'PGSC0003DMG402005881' => 'stu', 'Phvul.002G045400' => 'pvu', 'Phvul.006G216600' => 'pvu', 'Phvul.006G216700' => 'pvu', 'Phvul.006G216800' => 'pvu', 'Phvul.007G022500' => 'pvu', 'Phvul.011G094400' => 'pvu', 'Potri.001G470700' => 'ptr', 'Potri.003G015200' => 'ptr', 'Potri.004G202500' => 'ptr', 'Potri.004G218400' => 'ptr', 'Potri.008G020100' => 'ptr', 'Potri.008G153200' => 'ptr', 'Potri.009G163800' => 'ptr', 'Potri.010G087300' => 'ptr', 'Potri.010G239100' => 'ptr', 'Pp3c10_16100' => 'ppa', 'Pp3c10_16880' => 'ppa', 'Pp3c16_6230' => 'ppa', 'Pp3c17_18910' => 'ppa', 'Pp3c3_22119' => 'ppa', 'Pp3c3_22140' => 'ppa', 'Pp3c4_8159' => 'ppa', 'Pp3c4_8171' => 'ppa', 'Pp3c4_8330' => 'ppa', 'PRCOL_00004098' => 'pco', 'Prupe.1G013900' => 'ppe', 'Prupe.1G226300' => 'ppe', 'Prupe.1G573600' => 'ppe', 'Prupe.6G130100' => 'ppe', 'Psat3g090040' => 'psa', 'Psat4g210440' => 'psa', 'Psat6g231040' => 'psa', 'Psat6g231080' => 'psa', 'Psat7g063000' => 'psa', 'Psat7g188000' => 'psa', 'Psat7g188040' => 'psa', 'PSO017G0206' => 'pso', 'PSO170G0501' => 'pso', 'PSO170G6422' => 'pso', 'PSO210G7739' => 'pso', 'PSO339G1808' => 'pso', 'PSO339G6135' => 'pso', 'PSO384G0010' => 'pso', 'PSO384G0964' => 'pso', 'PSO761G0050' => 'pso', 'PSO782G4085' => 'pso', 'QL01p012264' => 'qlo', 'QL02p099491' => 'qlo', 'QL03p033868' => 'qlo', 'QL04p046678' => 'qlo', 'QL06p002448' => 'qlo', 'RcHm_v2.0_Chr4g0416181' => 'rch', 'RcHm_v2.0_Chr5g0044701' => 'rch', 'RcHm_v2.0_Chr6g0265781' => 'rch', 'RcHm_v2.0_Chr7g0221031' => 'rch', 'Rhsim04G0202000' => 'rsi', 'Rhsim11G0127300' => 'rsi', 'Rhsim13G0111800' => 'rsi', 'Sabra01G0165600' => 'sbr', 'Sabra03G0008300' => 'sbr', 'Sabra04G0136900' => 'sbr', 'Sabra08G0013400' => 'sbr', 'Sabra08G0116800' => 'sbr', 'Sabra09G0128000' => 'sbr', 'Sabra10G0055500' => 'sbr', 'Sabra10G0073300' => 'sbr', 'SalBow3G0385' => 'sbo', 'SalBow3G1119' => 'sbo', 'SalBow3G2005' => 'sbo', 'SalBow6G2563' => 'sbo', 'SalBow6G6386' => 'sbo', 'Sc06g0008800' => 'sci', 'Sc07g0004950' => 'sci', 'Sc09g0005340' => 'sci', 'Sc13g0004410' => 'sci', 'Sc21g0007090' => 'sci', 'Sed0009285' => 'sed', 'Sed0017583' => 'sed', 'Sed0019699' => 'sed', 'Sed0023107' => 'sed', 'SEGI_10916' => 'sgi', 'SEGI_16217' => 'sgi', 'SEGI_19466' => 'sgi', 'SEGI_41115' => 'sgi', 'SGA_v2.0_scaffold111G31534' => 'sas', 'SGA_v2.0_scaffold22G09864' => 'sas', 'SGA_v2.0_scaffold338G49219' => 'sas', 'SGA_v2.0_scaffold92G28298' => 'sas', 'SMO119G0064' => 'smo', 'SMO223G0038' => 'smo', 'SMO347G0584' => 'smo', 'SMO351G0010' => 'smo', 'SMO356G0404' => 'smo', 'Solyc01g103920.3' => 'sly', 'Solyc04g009710.2' => 'sly', 'Solyc05g055280.2' => 'sly', 'Solyc10g044520.3' => 'sly', 'Solyc10g075160.1' => 'sly', 'Solyc11g006910.3' => 'sly', 'Solyc11g068430.3' => 'sly', 'Sopen01g046310' => 'spe', 'Sopen03g001200' => 'spe', 'Sopen04g004830' => 'spe', 'Sopen05g033720' => 'spe', 'Sopen06g030740' => 'spe', 'Sopen10g013090' => 'spe', 'Sopen10g027630' => 'spe', 'Sopen10g027640' => 'spe', 'Sopen11g002820' => 'spe', 'Sopen11g027140' => 'spe', 'Sp1g09680' => 'spa', 'Sp2g03630' => 'spa', 'Sp4g10320' => 'spa', 'Sp6g33400' => 'spa', 'Sp7g13030' => 'spa', 'TAR365G0317' => 'tar', 'TAR376G0979' => 'tar', 'TAR623G1665' => 'tar', 'TAR633G2373' => 'tar', 'TAR636G1400' => 'tar', 'THA.LOC104800529' => 'tha', 'THA.LOC104808547' => 'tha', 'THA.LOC104809615' => 'tha', 'THA.LOC104815724' => 'tha', 'THA.LOC104818480' => 'tha', 'THA.LOC104819179' => 'tha', 'THA.LOC104822270' => 'tha', 'THA.LOC104826425' => 'tha', 'Thecc.02G089700' => 'tca', 'Thecc.04G232300' => 'tca', 'Thecc.09G283400' => 'tca', 'Thhalv10009020m.g' => 'esa', 'Thhalv10015506m.g' => 'esa', 'Thhalv10017364m.g' => 'esa', 'Thhalv10023742m.g' => 'esa', 'Thhalv10026483m.g' => 'esa', 'TPR.G17232' => 'tpr', 'TPR.G2133' => 'tpr', 'TPR.G2498' => 'tpr', 'TPR.G31942' => 'tpr', 'TPR.G37877' => 'tpr', 'TPR.G4571' => 'tpr', 'TWI14G1113' => 'twi', 'TWI15G0426' => 'twi', 'TWI31G1005' => 'twi', 'TWI38G0513' => 'twi', 'TWI38G1484' => 'twi', 'TWI73G1098' => 'twi', 'unitig_26.g10519' => 'ugi', 'unitig_736.g22395' => 'ugi', 'unitig_747.g21234' => 'ugi', 'unitig_747.g21942' => 'ugi', 'vmacro14351' => 'vma', 'VMungo0540G0082' => 'vmu', 'VMungo0540G0405' => 'vmu', 'VMungo0540G1486' => 'vmu', 'VMungo0540G1692' => 'vmu', 'VMungo0720G2473' => 'vmu', 'VMungo1127G1562' => 'vmu', 'VMungo1215G1918' => 'vmu', 'Zm00001eb052650' => 'zma', 'Zm00001eb063710' => 'zma', 'Zm00001eb083950' => 'zma', 'Zm00001eb174420' => 'zma', 'Zm00001eb260140' => 'zma', 'Zm00001eb260150' => 'zma', 'Zm00001eb260160' => 'zma', 'Zm00001eb348290' => 'zma', 'Zm00001eb366870' => 'zma', 'Zm00001eb421930' => 'zma' ) $gf_id = 'HOM05D001025' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001025' ) $data_identifier = 'HOM05D001025' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 19, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 2, 'amhyb' => (int) 4, 'aly' => (int) 4, 'aox' => (int) 4, 'arhy' => (int) 3, 'ath' => (int) 5, 'atr' => (int) 4, 'acertr' => (int) 3, 'cqu' => (int) 7, 'bca' => (int) 17, 'bol' => (int) 10, 'bra' => (int) 9, 'can' => (int) 10, 'cansat' => (int) 6, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 5, 'cbr' => (int) 5, 'ccan' => (int) 5, 'cde' => (int) 4, 'cfa' => (int) 3, 'ccl' => (int) 6, 'cil' => (int) 4, 'cla' => (int) 3, 'col' => (int) 3, 'cpa' => (int) 3, 'cre' => (int) 7, 'csa' => (int) 5, 'camsi' => (int) 9, 'dca' => (int) 4, 'din' => (int) 5, 'dzi' => (int) 7, 'eca' => (int) 6, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 12, 'fve' => (int) 4, 'gma' => (int) 12, 'ghi' => (int) 17, 'gra' => (int) 9, 'vvi' => (int) 2, 'han' => (int) 8, 'cav' => (int) 5, 'hma' => (int) 9, 'vpl' => (int) 4, 'sun' => (int) 2, 'lal' => (int) 9, 'lja' => (int) 5, 'lonja' => (int) 6, 'lsa' => (int) 3, 'mes' => (int) 8, 'mpo' => (int) 3, 'mbi' => (int) 4, 'mco' => (int) 3, 'mdo' => (int) 5, 'mtr' => (int) 7, 'cme' => (int) 6, 'egut' => (int) 7, 'ama' => (int) 3, 'nta' => (int) 12, 'nnu' => (int) 9, 'oeu' => (int) 4, 'osa' => (int) 7, 'pax' => (int) 9, 'pgr' => (int) 5, 'stu' => (int) 8, 'pvu' => (int) 6, 'ptr' => (int) 9, 'ppa' => (int) 9, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 7, 'pso' => (int) 10, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 3, 'sbr' => (int) 8, 'sbo' => (int) 5, 'sci' => (int) 5, 'sed' => (int) 4, 'sgi' => (int) 4, 'sas' => (int) 4, 'smo' => (int) 5, 'sly' => (int) 7, 'spe' => (int) 10, 'spa' => (int) 5, 'tar' => (int) 5, 'tha' => (int) 8, 'tca' => (int) 3, 'esa' => (int) 5, 'tpr' => (int) 6, 'twi' => (int) 6, 'ugi' => (int) 4, 'vma' => (int) 1, 'vmu' => (int) 7, 'zma' => (int) 10 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb421930' $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' => 'HOM05D001025', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '592', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p22650' => 'bna', 'A01p29720' => 'bna', 'A03p26560' => 'bna', 'A03p68820' => 'bna', 'A04p20980' => 'bna', 'A06p07730' => 'bna', 'A07p18260' => 'bna', 'A08p33710' => 'bna', 'A09p16970' => 'bna', 'A10p27490' => 'bna', 'Aa31LG1G17300' => 'aar', 'Aa31LG1G3910' => 'aar', 'Aa31LG2G9630' => 'aar', 'Aa31LG5G8360' => 'aar', 'Aa31LG9G2410' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4699' => 'aag', 'Actinidia23512' => 'ach', 'Actinidia37080' => 'ach', 'Ah.01g020380' => 'amhyb', 'Ah.08g215710' => 'amhyb', 'Ah.09g225110' => 'amhyb', 'Ah.10g036680' => 'amhyb', 'AL1G21940' => 'aly', 'AL2G15540' => 'aly', 'AL4G21520' => 'aly', 'AL7G40960' => 'aly', 'Aqoxy2G01191' => 'aox', 'Aqoxy2G03393' => 'aox', 'Aqoxy4G02775' => 'aox', 'Aqoxy6G00058' => 'aox', 'arahy.Tifrunner.gnm1.ann1.9X74H2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CW3FX9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R485W7' => 'arhy', 'AT1G10960' => 'ath', 'AT1G60950' => 'ath', 'AT2G27510' => 'ath', 'AT4G14890' => 'ath', 'AT5G10000' => 'ath', 'ATR0665G624' => 'atr', 'ATR0697G138' => 'atr', 'ATR0776G046' => 'atr', 'ATR1134G135' => 'atr', 'Atru.chr12.1025' => 'acertr', 'Atru.chr3.3241' => 'acertr', 'Atru.chr4.2460' => 'acertr', 'AUR62007427' => 'cqu', 'AUR62010960' => 'cqu', 'AUR62012201' => 'cqu', 'AUR62021470' => 'cqu', 'AUR62022834' => 'cqu', 'AUR62033635' => 'cqu', 'AUR62036186' => 'cqu', 'BcaB01g03077' => 'bca', 'BcaB02g10093' => 'bca', 'BcaB04g20295' => 'bca', 'BcaB06g28147' => 'bca', 'BcaB07g31253' => 'bca', 'BcaC01g04946' => 'bca', 'BcaC02g10614' => 'bca', 'BcaC02g10885' => 'bca', 'BcaC04g19356' => 'bca', 'BcaC04g22297' => 'bca', 'BcaC05g24977' => 'bca', 'BcaC06g31823' => 'bca', 'BcaC07g38633' => 'bca', 'BcaC09g49353' => 'bca', 'BcaC09g50168' => 'bca', 'BcaNung00322' => 'bca', 'BcaNung04769' => 'bca', 'BolC1t02753H' => 'bol', 'BolC1t03721H' => 'bol', 'BolC3t15525H' => 'bol', 'BolC4t23903H' => 'bol', 'BolC4t24231H' => 'bol', 'BolC4t27209H' => 'bol', 'BolC5t29671H' => 'bol', 'BolC8t49044H' => 'bol', 'BolC9t54999H' => 'bol', 'BolC9t59517H' => 'bol', 'BraA01t02178Z' => 'bra', 'BraA01t03099Z' => 'bra', 'BraA03t11867Z' => 'bra', 'BraA04t17667Z' => 'bra', 'BraA07t29542Z' => 'bra', 'BraA08t35287Z' => 'bra', 'BraA09t37334Z' => 'bra', 'BraA10t44801Z' => 'bra', 'BraSC39t46181Z' => 'bra', 'C01p28240' => 'bna', 'C01p37530' => 'bna', 'C03p31820' => 'bna', 'C04p24080' => 'bna', 'C04p25790' => 'bna', 'C04p56770' => 'bna', 'C05p09310' => 'bna', 'C09p21010' => 'bna', 'C09p67560' => 'bna', 'CAN.G1324.7' => 'can', 'CAN.G1358.10' => 'can', 'CAN.G1550.2' => 'can', 'CAN.G186.56' => 'can', 'CAN.G1965.1' => 'can', 'CAN.G645.15' => 'can', 'CAN.G798.26' => 'can', 'CAN.G798.27' => 'can', 'CAN.G798.29' => 'can', 'CAN.G919.31' => 'can', 'CANSAT11G0133' => 'cansat', 'CANSAT11G1171' => 'cansat', 'CANSAT11G2056' => 'cansat', 'CANSAT56G1202' => 'cansat', 'CANSAT56G1514' => 'cansat', 'CANSAT78G0455' => 'cansat', 'CARHR011190' => 'chi', 'CARHR051980' => 'chi', 'CARHR120170' => 'chi', 'CARHR203310' => 'chi', 'CARHR221490' => 'chi', 'Carub.0001s1054' => 'cru', 'Carub.0002s0431' => 'cru', 'Carub.0004s0818' => 'cru', 'Carub.0006s0846' => 'cru', 'Carub.0007s2722' => 'cru', 'Ca_00058_v3' => 'car', 'Ca_17831_v3' => 'car', 'Ca_19408_v3' => 'car', 'Ca_24397_v3' => 'car', 'Ca_25664_v3' => 'car', 'CBR_g21818' => 'cbr', 'CBR_g31195' => 'cbr', 'CBR_g32282' => 'cbr', 'CBR_g39599' => 'cbr', 'CBR_g49410' => 'cbr', 'Cc01_g09120' => 'ccan', 'Cc01_g09130' => 'ccan', 'Cc02_g09630' => 'ccan', 'Cc02_g22810' => 'ccan', 'Cc03_g03810' => 'ccan', 'CDE02G3718' => 'cde', 'CDE04G3183' => 'cde', 'CDE07G1046' => 'cde', 'CDE08G0480' => 'cde', 'Cfa005493' => 'cfa', 'Cfa010312' => 'cfa', 'Cfa015648' => 'cfa', 'Ciclev10002793m.g' => 'ccl', 'Ciclev10003356m.g' => 'ccl', 'Ciclev10006141m.g' => 'ccl', 'Ciclev10016676m.g' => 'ccl', 'Ciclev10017081m.g' => 'ccl', 'Ciclev10029499m.g' => 'ccl', 'CiPaw.01G166300' => 'cil', 'CiPaw.06G145600' => 'cil', 'CiPaw.13G040100' => 'cil', 'CiPaw.13G135800' => 'cil', 'ClCG01G012230' => 'cla', 'ClCG05G009510' => 'cla', 'ClCG08G008270' => 'cla', 'COL.COLO4_11763' => 'col', 'COL.COLO4_19876' => 'col', 'COL.COLO4_21481' => 'col', 'Cpa.g.sc118.34' => 'cpa', 'Cpa.g.sc32.13' => 'cpa', 'Cpa.g.sc58.103' => 'cpa', 'Cre03.g183850' => 'cre', 'Cre06.g306350' => 'cre', 'Cre07.g334800' => 'cre', 'Cre12.g487900' => 'cre', 'Cre14.g626700' => 'cre', 'Cre16.g658400' => 'cre', 'Cre17.g700950' => 'cre', 'CsaV3_1G014830' => 'csa', 'CsaV3_3G013320' => 'csa', 'CsaV3_3G019210' => 'csa', 'CsaV3_3G019220' => 'csa', 'CsaV3_6G004230' => 'csa', 'CSS0003773' => 'camsi', 'CSS0004563' => 'camsi', 'CSS0013949' => 'camsi', 'CSS0025971' => 'camsi', 'CSS0028570' => 'camsi', 'CSS0033127' => 'camsi', 'CSS0036051' => 'camsi', 'CSS0040087' => 'camsi', 'CSS0043179' => 'camsi', 'DCAR_006161' => 'dca', 'DCAR_010351' => 'dca', 'DCAR_012197' => 'dca', 'DCAR_024162' => 'dca', 'Dinv01030' => 'din', 'Dinv10924' => 'din', 'Dinv11835' => 'din', 'Dinv22841' => 'din', 'Dinv42553' => 'din', 'Duzib052G0560' => 'dzi', 'Duzib132G0389' => 'dzi', 'Duzib150G1181' => 'dzi', 'Duzib168G0623' => 'dzi', 'Duzib170G1036' => 'dzi', 'Duzib212G0200' => 'dzi', 'Duzib248G0194' => 'dzi', 'ECA232G2193' => 'eca', 'ECA233G0302' => 'eca', 'ECA234G2813' => 'eca', 'ECA234G4866' => 'eca', 'ECA240G3932' => 'eca', 'ECA248G0385' => 'eca', 'EL10Ac2g04781' => 'bvu', 'EL10Ac3g06445' => 'bvu', 'EL10Ac7g15825' => 'bvu', 'EL10Ac8g18550' => 'bvu', 'Eucgr.B03849' => 'egr', 'Eucgr.I02744' => 'egr', 'Eucgr.J00264' => 'egr', 'Eucgr.J00493' => 'egr', 'FAN04G2181' => 'fan', 'FAN07G2666' => 'fan', 'FAN11G0024' => 'fan', 'FAN12G1105' => 'fan', 'FAN13G0302' => 'fan', 'FAN15G2781' => 'fan', 'FAN16G1274' => 'fan', 'FAN17G2988' => 'fan', 'FAN18G2621' => 'fan', 'FAN21G0013' => 'fan', 'FAN22G1211' => 'fan', 'FAN25G3626' => 'fan', 'FvH4_2g09491' => 'fve', 'FvH4_3g24910' => 'fve', 'FvH4_4g15630' => 'fve', 'FvH4_5g28820' => 'fve', 'Glyma.01G238000' => 'gma', 'Glyma.05G168400' => 'gma', 'Glyma.08G126800' => 'gma', 'Glyma.08G188500' => 'gma', 'Glyma.10G278900' => 'gma', 'Glyma.11G005700' => 'gma', 'Glyma.11G183300' => 'gma', 'Glyma.12G089200' => 'gma', 'Glyma.12G169400' => 'gma', 'Glyma.12G169500' => 'gma', 'Glyma.12G169600' => 'gma', 'Glyma.20G110800' => 'gma', 'Gohir.A03G192900' => 'ghi', 'Gohir.A03G193000' => 'ghi', 'Gohir.A05G080700' => 'ghi', 'Gohir.A09G216000' => 'ghi', 'Gohir.A12G027700' => 'ghi', 'Gohir.A13G036200' => 'ghi', 'Gohir.A13G222600' => 'ghi', 'Gohir.D02G213900' => 'ghi', 'Gohir.D02G214000' => 'ghi', 'Gohir.D05G083700' => 'ghi', 'Gohir.D05G083800' => 'ghi', 'Gohir.D05G083850' => 'ghi', 'Gohir.D08G015400' => 'ghi', 'Gohir.D09G218400' => 'ghi', 'Gohir.D12G027100' => 'ghi', 'Gohir.D13G034500' => 'ghi', 'Gohir.D13G227400' => 'ghi', 'Gorai.005G241800' => 'gra', 'Gorai.005G241900' => 'gra', 'Gorai.006G239400' => 'gra', 'Gorai.008G027600' => 'gra', 'Gorai.009G085400' => 'gra', 'Gorai.009G085500' => 'gra', 'Gorai.013G039000' => 'gra', 'Gorai.013G194800' => 'gra', 'Gorai.013G257900' => 'gra', 'GSVIVG01000982001' => 'vvi', 'GSVIVG01017981001' => 'vvi', 'HanXRQChr01g0024061' => 'han', 'HanXRQChr09g0247831' => 'han', 'HanXRQChr10g0294611' => 'han', 'HanXRQChr10g0294621' => 'han', 'HanXRQChr11g0346821' => 'han', 'HanXRQChr13g0397461' => 'han', 'HanXRQChr16g0513651' => 'han', 'HanXRQChr16g0513701' => 'han', 'Haze_00897' => 'cav', 'Haze_01745' => 'cav', 'Haze_02486' => 'cav', 'Haze_02487' => 'cav', 'Haze_23374' => 'cav', 'Hma1.2p1_0578F.1_g182520' => 'hma', 'Hma1.2p1_0602F.1_g187350' => 'hma', 'Hma1.2p1_0602F.1_g187360' => 'hma', 'Hma1.2p1_0874F.1_g231320' => 'hma', 'Hma1.2p1_1197F.1_g266210' => 'hma', 'Hma1.2p1_1197F.1_g266220' => 'hma', 'Hma1.2p1_2167F.1_g315895' => 'hma', 'Hma1.2p1_2190F.1_g316640' => 'hma', 'Hma1.2p1_3645F.1_g337153' => 'hma', 'HPP92_004907' => 'vpl', 'HPP92_012134' => 'vpl', 'HPP92_025136' => 'vpl', 'HPP92_026087' => 'vpl', 'Hund06782' => 'sun', 'Hund06784' => 'sun', 'Lalb_Chr01g0004861' => 'lal', 'Lalb_Chr02g0140591' => 'lal', 'Lalb_Chr02g0140611' => 'lal', 'Lalb_Chr03g0028101' => 'lal', 'Lalb_Chr07g0185791' => 'lal', 'Lalb_Chr12g0204491' => 'lal', 'Lalb_Chr13g0295671' => 'lal', 'Lalb_Chr19g0136461' => 'lal', 'Lalb_Chr21g0309191' => 'lal', 'Lj1g0028158' => 'lja', 'Lj1P236T38' => 'lonja', 'Lj2C32G2' => 'lonja', 'Lj2P944T8' => 'lonja', 'Lj2P963T15' => 'lonja', 'Lj3g0011788' => 'lja', 'Lj4g0025027' => 'lja', 'Lj5P255T36' => 'lonja', 'Lj6g0018866' => 'lja', 'Lj6P608T31' => 'lonja', 'LjContig00408g0008879' => 'lja', 'Lsat_1_v5_gn_5_105820' => 'lsa', 'Lsat_1_v5_gn_6_38800' => 'lsa', 'Lsat_1_v5_gn_7_67141' => 'lsa', 'Manes.04G003400' => 'mes', 'Manes.07G020000' => 'mes', 'Manes.07G020100' => 'mes', 'Manes.07G020150' => 'mes', 'Manes.10G061500' => 'mes', 'Manes.10G123200' => 'mes', 'Manes.11G161900' => 'mes', 'Manes.15G029300' => 'mes', 'Mapoly0071s0018' => 'mpo', 'Mapoly0082s0023' => 'mpo', 'Mapoly3477s0001' => 'mpo', 'MBI05_g31233_MAGBIO' => 'mbi', 'MBI09_g05946_MAGBIO' => 'mbi', 'MBI09_g05947_MAGBIO' => 'mbi', 'MBI17_g08346_MAGBIO' => 'mbi', 'MCO04G038' => 'mco', 'MCO09G370' => 'mco', 'MCO13G605' => 'mco', 'MD00G1075500' => 'mdo', 'MD03G1144300' => 'mdo', 'MD08G1236800' => 'mdo', 'MD13G1193300' => 'mdo', 'MD15G1428700' => 'mdo', 'Medtr1g112030' => 'mtr', 'Medtr1g112050' => 'mtr', 'Medtr2g006290' => 'mtr', 'Medtr2g086510' => 'mtr', 'Medtr4g053120' => 'mtr', 'Medtr5g006320' => 'mtr', 'Medtr8g088720' => 'mtr', 'MELO3C004712.2' => 'cme', 'MELO3C006533.2' => 'cme', 'MELO3C019438.2' => 'cme', 'MELO3C019440.2' => 'cme', 'MELO3C019441.2' => 'cme', 'MELO3C019895.2' => 'cme', 'Migut.B00811' => 'egut', 'Migut.D02447' => 'egut', 'Migut.F00875' => 'egut', 'Migut.N00186' => 'egut', 'Migut.N01051' => 'egut', 'Migut.N02491' => 'egut', 'Migut.O00784' => 'egut', 'MSTRG.12367' => 'ama', 'MSTRG.18756' => 'ama', 'MSTRG.21042' => 'ama', 'Nitab4.5_0000559g0040' => 'nta', 'Nitab4.5_0000667g0190' => 'nta', 'Nitab4.5_0000755g0160' => 'nta', 'Nitab4.5_0001216g0080' => 'nta', 'Nitab4.5_0004069g0040' => 'nta', 'Nitab4.5_0004129g0010' => 'nta', 'Nitab4.5_0005744g0030' => 'nta', 'Nitab4.5_0006996g0030' => 'nta', 'Nitab4.5_0008971g0040' => 'nta', 'Nitab4.5_0009769g0020' => 'nta', 'Nitab4.5_0009833g0010' => 'nta', 'Nitab4.5_0013140g0020' => 'nta', 'Nn003s41376' => 'nnu', 'Nn1g01857' => 'nnu', 'Nn1g03611' => 'nnu', 'Nn1g06853' => 'nnu', 'Nn3g18360' => 'nnu', 'Nn4g26328' => 'nnu', 'Nn5g27531' => 'nnu', 'Nn6g34899' => 'nnu', 'Nn7g36299' => 'nnu', 'Oeu021485.1' => 'oeu', 'Oeu022433.1' => 'oeu', 'Oeu032111.1' => 'oeu', 'Oeu051608.1' => 'oeu', 'Os01g0860601' => 'osa', 'Os03g0659200' => 'osa', 'Os03g0835900' => 'osa', 'Os04g0412200' => 'osa', 'Os05g0443500' => 'osa', 'Os07g0251500' => 'osa', 'Os08g0104600' => 'osa', 'Peaxi162Scf00003g00047' => 'pax', 'Peaxi162Scf00003g00052' => 'pax', 'Peaxi162Scf00003g00394' => 'pax', 'Peaxi162Scf00091g00621' => 'pax', 'Peaxi162Scf00152g00146' => 'pax', 'Peaxi162Scf00173g00025' => 'pax', 'Peaxi162Scf00195g00102' => 'pax', 'Peaxi162Scf00402g00013' => 'pax', 'Peaxi162Scf00519g00618' => 'pax', 'PGR004G2838' => 'pgr', 'PGR044G2275' => 'pgr', 'PGR102G1377' => 'pgr', 'PGR119G1245' => 'pgr', 'PGR142G4449' => 'pgr', 'PGSC0003DMG400004532' => 'stu', 'PGSC0003DMG400011950' => 'stu', 'PGSC0003DMG400023391' => 'stu', 'PGSC0003DMG400023985' => 'stu', 'PGSC0003DMG400026360' => 'stu', 'PGSC0003DMG400035711' => 'stu', 'PGSC0003DMG400037286' => 'stu', 'PGSC0003DMG402005881' => 'stu', 'Phvul.002G045400' => 'pvu', 'Phvul.006G216600' => 'pvu', 'Phvul.006G216700' => 'pvu', 'Phvul.006G216800' => 'pvu', 'Phvul.007G022500' => 'pvu', 'Phvul.011G094400' => 'pvu', 'Potri.001G470700' => 'ptr', 'Potri.003G015200' => 'ptr', 'Potri.004G202500' => 'ptr', 'Potri.004G218400' => 'ptr', 'Potri.008G020100' => 'ptr', 'Potri.008G153200' => 'ptr', 'Potri.009G163800' => 'ptr', 'Potri.010G087300' => 'ptr', 'Potri.010G239100' => 'ptr', 'Pp3c10_16100' => 'ppa', 'Pp3c10_16880' => 'ppa', 'Pp3c16_6230' => 'ppa', 'Pp3c17_18910' => 'ppa', 'Pp3c3_22119' => 'ppa', 'Pp3c3_22140' => 'ppa', 'Pp3c4_8159' => 'ppa', 'Pp3c4_8171' => 'ppa', 'Pp3c4_8330' => 'ppa', 'PRCOL_00004098' => 'pco', 'Prupe.1G013900' => 'ppe', 'Prupe.1G226300' => 'ppe', 'Prupe.1G573600' => 'ppe', 'Prupe.6G130100' => 'ppe', 'Psat3g090040' => 'psa', 'Psat4g210440' => 'psa', 'Psat6g231040' => 'psa', 'Psat6g231080' => 'psa', 'Psat7g063000' => 'psa', 'Psat7g188000' => 'psa', 'Psat7g188040' => 'psa', 'PSO017G0206' => 'pso', 'PSO170G0501' => 'pso', 'PSO170G6422' => 'pso', 'PSO210G7739' => 'pso', 'PSO339G1808' => 'pso', 'PSO339G6135' => 'pso', 'PSO384G0010' => 'pso', 'PSO384G0964' => 'pso', 'PSO761G0050' => 'pso', 'PSO782G4085' => 'pso', 'QL01p012264' => 'qlo', 'QL02p099491' => 'qlo', 'QL03p033868' => 'qlo', 'QL04p046678' => 'qlo', 'QL06p002448' => 'qlo', 'RcHm_v2.0_Chr4g0416181' => 'rch', 'RcHm_v2.0_Chr5g0044701' => 'rch', 'RcHm_v2.0_Chr6g0265781' => 'rch', 'RcHm_v2.0_Chr7g0221031' => 'rch', 'Rhsim04G0202000' => 'rsi', 'Rhsim11G0127300' => 'rsi', 'Rhsim13G0111800' => 'rsi', 'Sabra01G0165600' => 'sbr', 'Sabra03G0008300' => 'sbr', 'Sabra04G0136900' => 'sbr', 'Sabra08G0013400' => 'sbr', 'Sabra08G0116800' => 'sbr', 'Sabra09G0128000' => 'sbr', 'Sabra10G0055500' => 'sbr', 'Sabra10G0073300' => 'sbr', 'SalBow3G0385' => 'sbo', 'SalBow3G1119' => 'sbo', 'SalBow3G2005' => 'sbo', 'SalBow6G2563' => 'sbo', 'SalBow6G6386' => 'sbo', 'Sc06g0008800' => 'sci', 'Sc07g0004950' => 'sci', 'Sc09g0005340' => 'sci', 'Sc13g0004410' => 'sci', 'Sc21g0007090' => 'sci', 'Sed0009285' => 'sed', 'Sed0017583' => 'sed', 'Sed0019699' => 'sed', 'Sed0023107' => 'sed', 'SEGI_10916' => 'sgi', 'SEGI_16217' => 'sgi', 'SEGI_19466' => 'sgi', 'SEGI_41115' => 'sgi', 'SGA_v2.0_scaffold111G31534' => 'sas', 'SGA_v2.0_scaffold22G09864' => 'sas', 'SGA_v2.0_scaffold338G49219' => 'sas', 'SGA_v2.0_scaffold92G28298' => 'sas', 'SMO119G0064' => 'smo', 'SMO223G0038' => 'smo', 'SMO347G0584' => 'smo', 'SMO351G0010' => 'smo', 'SMO356G0404' => 'smo', 'Solyc01g103920.3' => 'sly', 'Solyc04g009710.2' => 'sly', 'Solyc05g055280.2' => 'sly', 'Solyc10g044520.3' => 'sly', 'Solyc10g075160.1' => 'sly', 'Solyc11g006910.3' => 'sly', 'Solyc11g068430.3' => 'sly', 'Sopen01g046310' => 'spe', 'Sopen03g001200' => 'spe', 'Sopen04g004830' => 'spe', 'Sopen05g033720' => 'spe', 'Sopen06g030740' => 'spe', 'Sopen10g013090' => 'spe', 'Sopen10g027630' => 'spe', 'Sopen10g027640' => 'spe', 'Sopen11g002820' => 'spe', 'Sopen11g027140' => 'spe', 'Sp1g09680' => 'spa', 'Sp2g03630' => 'spa', 'Sp4g10320' => 'spa', 'Sp6g33400' => 'spa', 'Sp7g13030' => 'spa', 'TAR365G0317' => 'tar', 'TAR376G0979' => 'tar', 'TAR623G1665' => 'tar', 'TAR633G2373' => 'tar', 'TAR636G1400' => 'tar', 'THA.LOC104800529' => 'tha', 'THA.LOC104808547' => 'tha', 'THA.LOC104809615' => 'tha', 'THA.LOC104815724' => 'tha', 'THA.LOC104818480' => 'tha', 'THA.LOC104819179' => 'tha', 'THA.LOC104822270' => 'tha', 'THA.LOC104826425' => 'tha', 'Thecc.02G089700' => 'tca', 'Thecc.04G232300' => 'tca', 'Thecc.09G283400' => 'tca', 'Thhalv10009020m.g' => 'esa', 'Thhalv10015506m.g' => 'esa', 'Thhalv10017364m.g' => 'esa', 'Thhalv10023742m.g' => 'esa', 'Thhalv10026483m.g' => 'esa', 'TPR.G17232' => 'tpr', 'TPR.G2133' => 'tpr', 'TPR.G2498' => 'tpr', 'TPR.G31942' => 'tpr', 'TPR.G37877' => 'tpr', 'TPR.G4571' => 'tpr', 'TWI14G1113' => 'twi', 'TWI15G0426' => 'twi', 'TWI31G1005' => 'twi', 'TWI38G0513' => 'twi', 'TWI38G1484' => 'twi', 'TWI73G1098' => 'twi', 'unitig_26.g10519' => 'ugi', 'unitig_736.g22395' => 'ugi', 'unitig_747.g21234' => 'ugi', 'unitig_747.g21942' => 'ugi', 'vmacro14351' => 'vma', 'VMungo0540G0082' => 'vmu', 'VMungo0540G0405' => 'vmu', 'VMungo0540G1486' => 'vmu', 'VMungo0540G1692' => 'vmu', 'VMungo0720G2473' => 'vmu', 'VMungo1127G1562' => 'vmu', 'VMungo1215G1918' => 'vmu', 'Zm00001eb052650' => 'zma', 'Zm00001eb063710' => 'zma', 'Zm00001eb083950' => 'zma', 'Zm00001eb174420' => 'zma', 'Zm00001eb260140' => 'zma', 'Zm00001eb260150' => 'zma', 'Zm00001eb260160' => 'zma', 'Zm00001eb348290' => 'zma', 'Zm00001eb366870' => 'zma', 'Zm00001eb421930' => 'zma' ), 'gf_id' => 'HOM05D001025', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001025' ), 'data_identifier' => 'HOM05D001025', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001025', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '592', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p22650' => 'bna', 'A01p29720' => 'bna', 'A03p26560' => 'bna', 'A03p68820' => 'bna', 'A04p20980' => 'bna', 'A06p07730' => 'bna', 'A07p18260' => 'bna', 'A08p33710' => 'bna', 'A09p16970' => 'bna', 'A10p27490' => 'bna', 'Aa31LG1G17300' => 'aar', 'Aa31LG1G3910' => 'aar', 'Aa31LG2G9630' => 'aar', 'Aa31LG5G8360' => 'aar', 'Aa31LG9G2410' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4699' => 'aag', 'Actinidia23512' => 'ach', 'Actinidia37080' => 'ach', 'Ah.01g020380' => 'amhyb', 'Ah.08g215710' => 'amhyb', 'Ah.09g225110' => 'amhyb', 'Ah.10g036680' => 'amhyb', 'AL1G21940' => 'aly', 'AL2G15540' => 'aly', 'AL4G21520' => 'aly', 'AL7G40960' => 'aly', 'Aqoxy2G01191' => 'aox', 'Aqoxy2G03393' => 'aox', 'Aqoxy4G02775' => 'aox', 'Aqoxy6G00058' => 'aox', 'arahy.Tifrunner.gnm1.ann1.9X74H2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CW3FX9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R485W7' => 'arhy', 'AT1G10960' => 'ath', 'AT1G60950' => 'ath', 'AT2G27510' => 'ath', 'AT4G14890' => 'ath', 'AT5G10000' => 'ath', 'ATR0665G624' => 'atr', 'ATR0697G138' => 'atr', 'ATR0776G046' => 'atr', 'ATR1134G135' => 'atr', 'Atru.chr12.1025' => 'acertr', 'Atru.chr3.3241' => 'acertr', 'Atru.chr4.2460' => 'acertr', 'AUR62007427' => 'cqu', 'AUR62010960' => 'cqu', 'AUR62012201' => 'cqu', 'AUR62021470' => 'cqu', 'AUR62022834' => 'cqu', 'AUR62033635' => 'cqu', 'AUR62036186' => 'cqu', 'BcaB01g03077' => 'bca', 'BcaB02g10093' => 'bca', 'BcaB04g20295' => 'bca', 'BcaB06g28147' => 'bca', 'BcaB07g31253' => 'bca', 'BcaC01g04946' => 'bca', 'BcaC02g10614' => 'bca', 'BcaC02g10885' => 'bca', 'BcaC04g19356' => 'bca', 'BcaC04g22297' => 'bca', 'BcaC05g24977' => 'bca', 'BcaC06g31823' => 'bca', 'BcaC07g38633' => 'bca', 'BcaC09g49353' => 'bca', 'BcaC09g50168' => 'bca', 'BcaNung00322' => 'bca', 'BcaNung04769' => 'bca', 'BolC1t02753H' => 'bol', 'BolC1t03721H' => 'bol', 'BolC3t15525H' => 'bol', 'BolC4t23903H' => 'bol', 'BolC4t24231H' => 'bol', 'BolC4t27209H' => 'bol', 'BolC5t29671H' => 'bol', 'BolC8t49044H' => 'bol', 'BolC9t54999H' => 'bol', 'BolC9t59517H' => 'bol', 'BraA01t02178Z' => 'bra', 'BraA01t03099Z' => 'bra', 'BraA03t11867Z' => 'bra', 'BraA04t17667Z' => 'bra', 'BraA07t29542Z' => 'bra', 'BraA08t35287Z' => 'bra', 'BraA09t37334Z' => 'bra', 'BraA10t44801Z' => 'bra', 'BraSC39t46181Z' => 'bra', 'C01p28240' => 'bna', 'C01p37530' => 'bna', 'C03p31820' => 'bna', 'C04p24080' => 'bna', 'C04p25790' => 'bna', 'C04p56770' => 'bna', 'C05p09310' => 'bna', 'C09p21010' => 'bna', 'C09p67560' => 'bna', 'CAN.G1324.7' => 'can', 'CAN.G1358.10' => 'can', 'CAN.G1550.2' => 'can', 'CAN.G186.56' => 'can', 'CAN.G1965.1' => 'can', 'CAN.G645.15' => 'can', 'CAN.G798.26' => 'can', 'CAN.G798.27' => 'can', 'CAN.G798.29' => 'can', 'CAN.G919.31' => 'can', 'CANSAT11G0133' => 'cansat', 'CANSAT11G1171' => 'cansat', 'CANSAT11G2056' => 'cansat', 'CANSAT56G1202' => 'cansat', 'CANSAT56G1514' => 'cansat', 'CANSAT78G0455' => 'cansat', 'CARHR011190' => 'chi', 'CARHR051980' => 'chi', 'CARHR120170' => 'chi', 'CARHR203310' => 'chi', 'CARHR221490' => 'chi', 'Carub.0001s1054' => 'cru', 'Carub.0002s0431' => 'cru', 'Carub.0004s0818' => 'cru', 'Carub.0006s0846' => 'cru', 'Carub.0007s2722' => 'cru', 'Ca_00058_v3' => 'car', 'Ca_17831_v3' => 'car', 'Ca_19408_v3' => 'car', 'Ca_24397_v3' => 'car', 'Ca_25664_v3' => 'car', 'CBR_g21818' => 'cbr', 'CBR_g31195' => 'cbr', 'CBR_g32282' => 'cbr', 'CBR_g39599' => 'cbr', 'CBR_g49410' => 'cbr', 'Cc01_g09120' => 'ccan', 'Cc01_g09130' => 'ccan', 'Cc02_g09630' => 'ccan', 'Cc02_g22810' => 'ccan', 'Cc03_g03810' => 'ccan', 'CDE02G3718' => 'cde', 'CDE04G3183' => 'cde', 'CDE07G1046' => 'cde', 'CDE08G0480' => 'cde', 'Cfa005493' => 'cfa', 'Cfa010312' => 'cfa', 'Cfa015648' => 'cfa', 'Ciclev10002793m.g' => 'ccl', 'Ciclev10003356m.g' => 'ccl', 'Ciclev10006141m.g' => 'ccl', 'Ciclev10016676m.g' => 'ccl', 'Ciclev10017081m.g' => 'ccl', 'Ciclev10029499m.g' => 'ccl', 'CiPaw.01G166300' => 'cil', 'CiPaw.06G145600' => 'cil', 'CiPaw.13G040100' => 'cil', 'CiPaw.13G135800' => 'cil', 'ClCG01G012230' => 'cla', 'ClCG05G009510' => 'cla', 'ClCG08G008270' => 'cla', 'COL.COLO4_11763' => 'col', 'COL.COLO4_19876' => 'col', 'COL.COLO4_21481' => 'col', 'Cpa.g.sc118.34' => 'cpa', 'Cpa.g.sc32.13' => 'cpa', 'Cpa.g.sc58.103' => 'cpa', 'Cre03.g183850' => 'cre', 'Cre06.g306350' => 'cre', 'Cre07.g334800' => 'cre', 'Cre12.g487900' => 'cre', 'Cre14.g626700' => 'cre', 'Cre16.g658400' => 'cre', 'Cre17.g700950' => 'cre', 'CsaV3_1G014830' => 'csa', 'CsaV3_3G013320' => 'csa', 'CsaV3_3G019210' => 'csa', 'CsaV3_3G019220' => 'csa', 'CsaV3_6G004230' => 'csa', 'CSS0003773' => 'camsi', 'CSS0004563' => 'camsi', 'CSS0013949' => 'camsi', 'CSS0025971' => 'camsi', 'CSS0028570' => 'camsi', 'CSS0033127' => 'camsi', 'CSS0036051' => 'camsi', 'CSS0040087' => 'camsi', 'CSS0043179' => 'camsi', 'DCAR_006161' => 'dca', 'DCAR_010351' => 'dca', 'DCAR_012197' => 'dca', 'DCAR_024162' => 'dca', 'Dinv01030' => 'din', 'Dinv10924' => 'din', 'Dinv11835' => 'din', 'Dinv22841' => 'din', 'Dinv42553' => 'din', 'Duzib052G0560' => 'dzi', 'Duzib132G0389' => 'dzi', 'Duzib150G1181' => 'dzi', 'Duzib168G0623' => 'dzi', 'Duzib170G1036' => 'dzi', 'Duzib212G0200' => 'dzi', 'Duzib248G0194' => 'dzi', 'ECA232G2193' => 'eca', 'ECA233G0302' => 'eca', 'ECA234G2813' => 'eca', 'ECA234G4866' => 'eca', 'ECA240G3932' => 'eca', 'ECA248G0385' => 'eca', 'EL10Ac2g04781' => 'bvu', 'EL10Ac3g06445' => 'bvu', 'EL10Ac7g15825' => 'bvu', 'EL10Ac8g18550' => 'bvu', 'Eucgr.B03849' => 'egr', 'Eucgr.I02744' => 'egr', 'Eucgr.J00264' => 'egr', 'Eucgr.J00493' => 'egr', 'FAN04G2181' => 'fan', 'FAN07G2666' => 'fan', 'FAN11G0024' => 'fan', 'FAN12G1105' => 'fan', 'FAN13G0302' => 'fan', 'FAN15G2781' => 'fan', 'FAN16G1274' => 'fan', 'FAN17G2988' => 'fan', 'FAN18G2621' => 'fan', 'FAN21G0013' => 'fan', 'FAN22G1211' => 'fan', 'FAN25G3626' => 'fan', 'FvH4_2g09491' => 'fve', 'FvH4_3g24910' => 'fve', 'FvH4_4g15630' => 'fve', 'FvH4_5g28820' => 'fve', 'Glyma.01G238000' => 'gma', 'Glyma.05G168400' => 'gma', 'Glyma.08G126800' => 'gma', 'Glyma.08G188500' => 'gma', 'Glyma.10G278900' => 'gma', 'Glyma.11G005700' => 'gma', 'Glyma.11G183300' => 'gma', 'Glyma.12G089200' => 'gma', 'Glyma.12G169400' => 'gma', 'Glyma.12G169500' => 'gma', 'Glyma.12G169600' => 'gma', 'Glyma.20G110800' => 'gma', 'Gohir.A03G192900' => 'ghi', 'Gohir.A03G193000' => 'ghi', 'Gohir.A05G080700' => 'ghi', 'Gohir.A09G216000' => 'ghi', 'Gohir.A12G027700' => 'ghi', 'Gohir.A13G036200' => 'ghi', 'Gohir.A13G222600' => 'ghi', 'Gohir.D02G213900' => 'ghi', 'Gohir.D02G214000' => 'ghi', 'Gohir.D05G083700' => 'ghi', 'Gohir.D05G083800' => 'ghi', 'Gohir.D05G083850' => 'ghi', 'Gohir.D08G015400' => 'ghi', 'Gohir.D09G218400' => 'ghi', 'Gohir.D12G027100' => 'ghi', 'Gohir.D13G034500' => 'ghi', 'Gohir.D13G227400' => 'ghi', 'Gorai.005G241800' => 'gra', 'Gorai.005G241900' => 'gra', 'Gorai.006G239400' => 'gra', 'Gorai.008G027600' => 'gra', 'Gorai.009G085400' => 'gra', 'Gorai.009G085500' => 'gra', 'Gorai.013G039000' => 'gra', 'Gorai.013G194800' => 'gra', 'Gorai.013G257900' => 'gra', 'GSVIVG01000982001' => 'vvi', 'GSVIVG01017981001' => 'vvi', 'HanXRQChr01g0024061' => 'han', 'HanXRQChr09g0247831' => 'han', 'HanXRQChr10g0294611' => 'han', 'HanXRQChr10g0294621' => 'han', 'HanXRQChr11g0346821' => 'han', 'HanXRQChr13g0397461' => 'han', 'HanXRQChr16g0513651' => 'han', 'HanXRQChr16g0513701' => 'han', 'Haze_00897' => 'cav', 'Haze_01745' => 'cav', 'Haze_02486' => 'cav', 'Haze_02487' => 'cav', 'Haze_23374' => 'cav', 'Hma1.2p1_0578F.1_g182520' => 'hma', 'Hma1.2p1_0602F.1_g187350' => 'hma', 'Hma1.2p1_0602F.1_g187360' => 'hma', 'Hma1.2p1_0874F.1_g231320' => 'hma', 'Hma1.2p1_1197F.1_g266210' => 'hma', 'Hma1.2p1_1197F.1_g266220' => 'hma', 'Hma1.2p1_2167F.1_g315895' => 'hma', 'Hma1.2p1_2190F.1_g316640' => 'hma', 'Hma1.2p1_3645F.1_g337153' => 'hma', 'HPP92_004907' => 'vpl', 'HPP92_012134' => 'vpl', 'HPP92_025136' => 'vpl', 'HPP92_026087' => 'vpl', 'Hund06782' => 'sun', 'Hund06784' => 'sun', 'Lalb_Chr01g0004861' => 'lal', 'Lalb_Chr02g0140591' => 'lal', 'Lalb_Chr02g0140611' => 'lal', 'Lalb_Chr03g0028101' => 'lal', 'Lalb_Chr07g0185791' => 'lal', 'Lalb_Chr12g0204491' => 'lal', 'Lalb_Chr13g0295671' => 'lal', 'Lalb_Chr19g0136461' => 'lal', 'Lalb_Chr21g0309191' => 'lal', 'Lj1g0028158' => 'lja', 'Lj1P236T38' => 'lonja', 'Lj2C32G2' => 'lonja', 'Lj2P944T8' => 'lonja', 'Lj2P963T15' => 'lonja', 'Lj3g0011788' => 'lja', 'Lj4g0025027' => 'lja', 'Lj5P255T36' => 'lonja', 'Lj6g0018866' => 'lja', 'Lj6P608T31' => 'lonja', 'LjContig00408g0008879' => 'lja', 'Lsat_1_v5_gn_5_105820' => 'lsa', 'Lsat_1_v5_gn_6_38800' => 'lsa', 'Lsat_1_v5_gn_7_67141' => 'lsa', 'Manes.04G003400' => 'mes', 'Manes.07G020000' => 'mes', 'Manes.07G020100' => 'mes', 'Manes.07G020150' => 'mes', 'Manes.10G061500' => 'mes', 'Manes.10G123200' => 'mes', 'Manes.11G161900' => 'mes', 'Manes.15G029300' => 'mes', 'Mapoly0071s0018' => 'mpo', 'Mapoly0082s0023' => 'mpo', 'Mapoly3477s0001' => 'mpo', 'MBI05_g31233_MAGBIO' => 'mbi', 'MBI09_g05946_MAGBIO' => 'mbi', 'MBI09_g05947_MAGBIO' => 'mbi', 'MBI17_g08346_MAGBIO' => 'mbi', 'MCO04G038' => 'mco', 'MCO09G370' => 'mco', 'MCO13G605' => 'mco', 'MD00G1075500' => 'mdo', 'MD03G1144300' => 'mdo', 'MD08G1236800' => 'mdo', 'MD13G1193300' => 'mdo', 'MD15G1428700' => 'mdo', 'Medtr1g112030' => 'mtr', 'Medtr1g112050' => 'mtr', 'Medtr2g006290' => 'mtr', 'Medtr2g086510' => 'mtr', 'Medtr4g053120' => 'mtr', 'Medtr5g006320' => 'mtr', 'Medtr8g088720' => 'mtr', 'MELO3C004712.2' => 'cme', 'MELO3C006533.2' => 'cme', 'MELO3C019438.2' => 'cme', 'MELO3C019440.2' => 'cme', 'MELO3C019441.2' => 'cme', 'MELO3C019895.2' => 'cme', 'Migut.B00811' => 'egut', 'Migut.D02447' => 'egut', 'Migut.F00875' => 'egut', 'Migut.N00186' => 'egut', 'Migut.N01051' => 'egut', 'Migut.N02491' => 'egut', 'Migut.O00784' => 'egut', 'MSTRG.12367' => 'ama', 'MSTRG.18756' => 'ama', 'MSTRG.21042' => 'ama', 'Nitab4.5_0000559g0040' => 'nta', 'Nitab4.5_0000667g0190' => 'nta', 'Nitab4.5_0000755g0160' => 'nta', 'Nitab4.5_0001216g0080' => 'nta', 'Nitab4.5_0004069g0040' => 'nta', 'Nitab4.5_0004129g0010' => 'nta', 'Nitab4.5_0005744g0030' => 'nta', 'Nitab4.5_0006996g0030' => 'nta', 'Nitab4.5_0008971g0040' => 'nta', 'Nitab4.5_0009769g0020' => 'nta', 'Nitab4.5_0009833g0010' => 'nta', 'Nitab4.5_0013140g0020' => 'nta', 'Nn003s41376' => 'nnu', 'Nn1g01857' => 'nnu', 'Nn1g03611' => 'nnu', 'Nn1g06853' => 'nnu', 'Nn3g18360' => 'nnu', 'Nn4g26328' => 'nnu', 'Nn5g27531' => 'nnu', 'Nn6g34899' => 'nnu', 'Nn7g36299' => 'nnu', 'Oeu021485.1' => 'oeu', 'Oeu022433.1' => 'oeu', 'Oeu032111.1' => 'oeu', 'Oeu051608.1' => 'oeu', 'Os01g0860601' => 'osa', 'Os03g0659200' => 'osa', 'Os03g0835900' => 'osa', 'Os04g0412200' => 'osa', 'Os05g0443500' => 'osa', 'Os07g0251500' => 'osa', 'Os08g0104600' => 'osa', 'Peaxi162Scf00003g00047' => 'pax', 'Peaxi162Scf00003g00052' => 'pax', 'Peaxi162Scf00003g00394' => 'pax', 'Peaxi162Scf00091g00621' => 'pax', 'Peaxi162Scf00152g00146' => 'pax', 'Peaxi162Scf00173g00025' => 'pax', 'Peaxi162Scf00195g00102' => 'pax', 'Peaxi162Scf00402g00013' => 'pax', 'Peaxi162Scf00519g00618' => 'pax', 'PGR004G2838' => 'pgr', 'PGR044G2275' => 'pgr', 'PGR102G1377' => 'pgr', 'PGR119G1245' => 'pgr', 'PGR142G4449' => 'pgr', 'PGSC0003DMG400004532' => 'stu', 'PGSC0003DMG400011950' => 'stu', 'PGSC0003DMG400023391' => 'stu', 'PGSC0003DMG400023985' => 'stu', 'PGSC0003DMG400026360' => 'stu', 'PGSC0003DMG400035711' => 'stu', 'PGSC0003DMG400037286' => 'stu', 'PGSC0003DMG402005881' => 'stu', 'Phvul.002G045400' => 'pvu', 'Phvul.006G216600' => 'pvu', 'Phvul.006G216700' => 'pvu', 'Phvul.006G216800' => 'pvu', 'Phvul.007G022500' => 'pvu', 'Phvul.011G094400' => 'pvu', 'Potri.001G470700' => 'ptr', 'Potri.003G015200' => 'ptr', 'Potri.004G202500' => 'ptr', 'Potri.004G218400' => 'ptr', 'Potri.008G020100' => 'ptr', 'Potri.008G153200' => 'ptr', 'Potri.009G163800' => 'ptr', 'Potri.010G087300' => 'ptr', 'Potri.010G239100' => 'ptr', 'Pp3c10_16100' => 'ppa', 'Pp3c10_16880' => 'ppa', 'Pp3c16_6230' => 'ppa', 'Pp3c17_18910' => 'ppa', 'Pp3c3_22119' => 'ppa', 'Pp3c3_22140' => 'ppa', 'Pp3c4_8159' => 'ppa', 'Pp3c4_8171' => 'ppa', 'Pp3c4_8330' => 'ppa', 'PRCOL_00004098' => 'pco', 'Prupe.1G013900' => 'ppe', 'Prupe.1G226300' => 'ppe', 'Prupe.1G573600' => 'ppe', 'Prupe.6G130100' => 'ppe', 'Psat3g090040' => 'psa', 'Psat4g210440' => 'psa', 'Psat6g231040' => 'psa', 'Psat6g231080' => 'psa', 'Psat7g063000' => 'psa', 'Psat7g188000' => 'psa', 'Psat7g188040' => 'psa', 'PSO017G0206' => 'pso', 'PSO170G0501' => 'pso', 'PSO170G6422' => 'pso', 'PSO210G7739' => 'pso', 'PSO339G1808' => 'pso', 'PSO339G6135' => 'pso', 'PSO384G0010' => 'pso', 'PSO384G0964' => 'pso', 'PSO761G0050' => 'pso', 'PSO782G4085' => 'pso', 'QL01p012264' => 'qlo', 'QL02p099491' => 'qlo', 'QL03p033868' => 'qlo', 'QL04p046678' => 'qlo', 'QL06p002448' => 'qlo', 'RcHm_v2.0_Chr4g0416181' => 'rch', 'RcHm_v2.0_Chr5g0044701' => 'rch', 'RcHm_v2.0_Chr6g0265781' => 'rch', 'RcHm_v2.0_Chr7g0221031' => 'rch', 'Rhsim04G0202000' => 'rsi', 'Rhsim11G0127300' => 'rsi', 'Rhsim13G0111800' => 'rsi', 'Sabra01G0165600' => 'sbr', 'Sabra03G0008300' => 'sbr', 'Sabra04G0136900' => 'sbr', 'Sabra08G0013400' => 'sbr', 'Sabra08G0116800' => 'sbr', 'Sabra09G0128000' => 'sbr', 'Sabra10G0055500' => 'sbr', 'Sabra10G0073300' => 'sbr', 'SalBow3G0385' => 'sbo', 'SalBow3G1119' => 'sbo', 'SalBow3G2005' => 'sbo', 'SalBow6G2563' => 'sbo', 'SalBow6G6386' => 'sbo', 'Sc06g0008800' => 'sci', 'Sc07g0004950' => 'sci', 'Sc09g0005340' => 'sci', 'Sc13g0004410' => 'sci', 'Sc21g0007090' => 'sci', 'Sed0009285' => 'sed', 'Sed0017583' => 'sed', 'Sed0019699' => 'sed', 'Sed0023107' => 'sed', 'SEGI_10916' => 'sgi', 'SEGI_16217' => 'sgi', 'SEGI_19466' => 'sgi', 'SEGI_41115' => 'sgi', 'SGA_v2.0_scaffold111G31534' => 'sas', 'SGA_v2.0_scaffold22G09864' => 'sas', 'SGA_v2.0_scaffold338G49219' => 'sas', 'SGA_v2.0_scaffold92G28298' => 'sas', 'SMO119G0064' => 'smo', 'SMO223G0038' => 'smo', 'SMO347G0584' => 'smo', 'SMO351G0010' => 'smo', 'SMO356G0404' => 'smo', 'Solyc01g103920.3' => 'sly', 'Solyc04g009710.2' => 'sly', 'Solyc05g055280.2' => 'sly', 'Solyc10g044520.3' => 'sly', 'Solyc10g075160.1' => 'sly', 'Solyc11g006910.3' => 'sly', 'Solyc11g068430.3' => 'sly', 'Sopen01g046310' => 'spe', 'Sopen03g001200' => 'spe', 'Sopen04g004830' => 'spe', 'Sopen05g033720' => 'spe', 'Sopen06g030740' => 'spe', 'Sopen10g013090' => 'spe', 'Sopen10g027630' => 'spe', 'Sopen10g027640' => 'spe', 'Sopen11g002820' => 'spe', 'Sopen11g027140' => 'spe', 'Sp1g09680' => 'spa', 'Sp2g03630' => 'spa', 'Sp4g10320' => 'spa', 'Sp6g33400' => 'spa', 'Sp7g13030' => 'spa', 'TAR365G0317' => 'tar', 'TAR376G0979' => 'tar', 'TAR623G1665' => 'tar', 'TAR633G2373' => 'tar', 'TAR636G1400' => 'tar', 'THA.LOC104800529' => 'tha', 'THA.LOC104808547' => 'tha', 'THA.LOC104809615' => 'tha', 'THA.LOC104815724' => 'tha', 'THA.LOC104818480' => 'tha', 'THA.LOC104819179' => 'tha', 'THA.LOC104822270' => 'tha', 'THA.LOC104826425' => 'tha', 'Thecc.02G089700' => 'tca', 'Thecc.04G232300' => 'tca', 'Thecc.09G283400' => 'tca', 'Thhalv10009020m.g' => 'esa', 'Thhalv10015506m.g' => 'esa', 'Thhalv10017364m.g' => 'esa', 'Thhalv10023742m.g' => 'esa', 'Thhalv10026483m.g' => 'esa', 'TPR.G17232' => 'tpr', 'TPR.G2133' => 'tpr', 'TPR.G2498' => 'tpr', 'TPR.G31942' => 'tpr', 'TPR.G37877' => 'tpr', 'TPR.G4571' => 'tpr', 'TWI14G1113' => 'twi', 'TWI15G0426' => 'twi', 'TWI31G1005' => 'twi', 'TWI38G0513' => 'twi', 'TWI38G1484' => 'twi', 'TWI73G1098' => 'twi', 'unitig_26.g10519' => 'ugi', 'unitig_736.g22395' => 'ugi', 'unitig_747.g21234' => 'ugi', 'unitig_747.g21942' => 'ugi', 'vmacro14351' => 'vma', 'VMungo0540G0082' => 'vmu', 'VMungo0540G0405' => 'vmu', 'VMungo0540G1486' => 'vmu', 'VMungo0540G1692' => 'vmu', 'VMungo0720G2473' => 'vmu', 'VMungo1127G1562' => 'vmu', 'VMungo1215G1918' => 'vmu', 'Zm00001eb052650' => 'zma', 'Zm00001eb063710' => 'zma', 'Zm00001eb083950' => 'zma', 'Zm00001eb174420' => 'zma', 'Zm00001eb260140' => 'zma', 'Zm00001eb260150' => 'zma', 'Zm00001eb260160' => 'zma', 'Zm00001eb348290' => 'zma', 'Zm00001eb366870' => 'zma', 'Zm00001eb421930' => 'zma' ) $gf_id = 'HOM05D001025' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001025' ) $data_identifier = 'HOM05D001025' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 19, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 2, 'amhyb' => (int) 4, 'aly' => (int) 4, 'aox' => (int) 4, 'arhy' => (int) 3, 'ath' => (int) 5, 'atr' => (int) 4, 'acertr' => (int) 3, 'cqu' => (int) 7, 'bca' => (int) 17, 'bol' => (int) 10, 'bra' => (int) 9, 'can' => (int) 10, 'cansat' => (int) 6, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 5, 'cbr' => (int) 5, 'ccan' => (int) 5, 'cde' => (int) 4, 'cfa' => (int) 3, 'ccl' => (int) 6, 'cil' => (int) 4, 'cla' => (int) 3, 'col' => (int) 3, 'cpa' => (int) 3, 'cre' => (int) 7, 'csa' => (int) 5, 'camsi' => (int) 9, 'dca' => (int) 4, 'din' => (int) 5, 'dzi' => (int) 7, 'eca' => (int) 6, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 12, 'fve' => (int) 4, 'gma' => (int) 12, 'ghi' => (int) 17, 'gra' => (int) 9, 'vvi' => (int) 2, 'han' => (int) 8, 'cav' => (int) 5, 'hma' => (int) 9, 'vpl' => (int) 4, 'sun' => (int) 2, 'lal' => (int) 9, 'lja' => (int) 5, 'lonja' => (int) 6, 'lsa' => (int) 3, 'mes' => (int) 8, 'mpo' => (int) 3, 'mbi' => (int) 4, 'mco' => (int) 3, 'mdo' => (int) 5, 'mtr' => (int) 7, 'cme' => (int) 6, 'egut' => (int) 7, 'ama' => (int) 3, 'nta' => (int) 12, 'nnu' => (int) 9, 'oeu' => (int) 4, 'osa' => (int) 7, 'pax' => (int) 9, 'pgr' => (int) 5, 'stu' => (int) 8, 'pvu' => (int) 6, 'ptr' => (int) 9, 'ppa' => (int) 9, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 7, 'pso' => (int) 10, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 3, 'sbr' => (int) 8, 'sbo' => (int) 5, 'sci' => (int) 5, 'sed' => (int) 4, 'sgi' => (int) 4, 'sas' => (int) 4, 'smo' => (int) 5, 'sly' => (int) 7, 'spe' => (int) 10, 'spa' => (int) 5, 'tar' => (int) 5, 'tha' => (int) 8, 'tca' => (int) 3, 'esa' => (int) 5, 'tpr' => (int) 6, 'twi' => (int) 6, 'ugi' => (int) 4, 'vma' => (int) 1, 'vmu' => (int) 7, 'zma' => (int) 10 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb421930' $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' => 'HOM05D001025', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '592', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p22650' => 'bna', 'A01p29720' => 'bna', 'A03p26560' => 'bna', 'A03p68820' => 'bna', 'A04p20980' => 'bna', 'A06p07730' => 'bna', 'A07p18260' => 'bna', 'A08p33710' => 'bna', 'A09p16970' => 'bna', 'A10p27490' => 'bna', 'Aa31LG1G17300' => 'aar', 'Aa31LG1G3910' => 'aar', 'Aa31LG2G9630' => 'aar', 'Aa31LG5G8360' => 'aar', 'Aa31LG9G2410' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4699' => 'aag', 'Actinidia23512' => 'ach', 'Actinidia37080' => 'ach', 'Ah.01g020380' => 'amhyb', 'Ah.08g215710' => 'amhyb', 'Ah.09g225110' => 'amhyb', 'Ah.10g036680' => 'amhyb', 'AL1G21940' => 'aly', 'AL2G15540' => 'aly', 'AL4G21520' => 'aly', 'AL7G40960' => 'aly', 'Aqoxy2G01191' => 'aox', 'Aqoxy2G03393' => 'aox', 'Aqoxy4G02775' => 'aox', 'Aqoxy6G00058' => 'aox', 'arahy.Tifrunner.gnm1.ann1.9X74H2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CW3FX9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R485W7' => 'arhy', 'AT1G10960' => 'ath', 'AT1G60950' => 'ath', 'AT2G27510' => 'ath', 'AT4G14890' => 'ath', 'AT5G10000' => 'ath', 'ATR0665G624' => 'atr', 'ATR0697G138' => 'atr', 'ATR0776G046' => 'atr', 'ATR1134G135' => 'atr', 'Atru.chr12.1025' => 'acertr', 'Atru.chr3.3241' => 'acertr', 'Atru.chr4.2460' => 'acertr', 'AUR62007427' => 'cqu', 'AUR62010960' => 'cqu', 'AUR62012201' => 'cqu', 'AUR62021470' => 'cqu', 'AUR62022834' => 'cqu', 'AUR62033635' => 'cqu', 'AUR62036186' => 'cqu', 'BcaB01g03077' => 'bca', 'BcaB02g10093' => 'bca', 'BcaB04g20295' => 'bca', 'BcaB06g28147' => 'bca', 'BcaB07g31253' => 'bca', 'BcaC01g04946' => 'bca', 'BcaC02g10614' => 'bca', 'BcaC02g10885' => 'bca', 'BcaC04g19356' => 'bca', 'BcaC04g22297' => 'bca', 'BcaC05g24977' => 'bca', 'BcaC06g31823' => 'bca', 'BcaC07g38633' => 'bca', 'BcaC09g49353' => 'bca', 'BcaC09g50168' => 'bca', 'BcaNung00322' => 'bca', 'BcaNung04769' => 'bca', 'BolC1t02753H' => 'bol', 'BolC1t03721H' => 'bol', 'BolC3t15525H' => 'bol', 'BolC4t23903H' => 'bol', 'BolC4t24231H' => 'bol', 'BolC4t27209H' => 'bol', 'BolC5t29671H' => 'bol', 'BolC8t49044H' => 'bol', 'BolC9t54999H' => 'bol', 'BolC9t59517H' => 'bol', 'BraA01t02178Z' => 'bra', 'BraA01t03099Z' => 'bra', 'BraA03t11867Z' => 'bra', 'BraA04t17667Z' => 'bra', 'BraA07t29542Z' => 'bra', 'BraA08t35287Z' => 'bra', 'BraA09t37334Z' => 'bra', 'BraA10t44801Z' => 'bra', 'BraSC39t46181Z' => 'bra', 'C01p28240' => 'bna', 'C01p37530' => 'bna', 'C03p31820' => 'bna', 'C04p24080' => 'bna', 'C04p25790' => 'bna', 'C04p56770' => 'bna', 'C05p09310' => 'bna', 'C09p21010' => 'bna', 'C09p67560' => 'bna', 'CAN.G1324.7' => 'can', 'CAN.G1358.10' => 'can', 'CAN.G1550.2' => 'can', 'CAN.G186.56' => 'can', 'CAN.G1965.1' => 'can', 'CAN.G645.15' => 'can', 'CAN.G798.26' => 'can', 'CAN.G798.27' => 'can', 'CAN.G798.29' => 'can', 'CAN.G919.31' => 'can', 'CANSAT11G0133' => 'cansat', 'CANSAT11G1171' => 'cansat', 'CANSAT11G2056' => 'cansat', 'CANSAT56G1202' => 'cansat', 'CANSAT56G1514' => 'cansat', 'CANSAT78G0455' => 'cansat', 'CARHR011190' => 'chi', 'CARHR051980' => 'chi', 'CARHR120170' => 'chi', 'CARHR203310' => 'chi', 'CARHR221490' => 'chi', 'Carub.0001s1054' => 'cru', 'Carub.0002s0431' => 'cru', 'Carub.0004s0818' => 'cru', 'Carub.0006s0846' => 'cru', 'Carub.0007s2722' => 'cru', 'Ca_00058_v3' => 'car', 'Ca_17831_v3' => 'car', 'Ca_19408_v3' => 'car', 'Ca_24397_v3' => 'car', 'Ca_25664_v3' => 'car', 'CBR_g21818' => 'cbr', 'CBR_g31195' => 'cbr', 'CBR_g32282' => 'cbr', 'CBR_g39599' => 'cbr', 'CBR_g49410' => 'cbr', 'Cc01_g09120' => 'ccan', 'Cc01_g09130' => 'ccan', 'Cc02_g09630' => 'ccan', 'Cc02_g22810' => 'ccan', 'Cc03_g03810' => 'ccan', 'CDE02G3718' => 'cde', 'CDE04G3183' => 'cde', 'CDE07G1046' => 'cde', 'CDE08G0480' => 'cde', 'Cfa005493' => 'cfa', 'Cfa010312' => 'cfa', 'Cfa015648' => 'cfa', 'Ciclev10002793m.g' => 'ccl', 'Ciclev10003356m.g' => 'ccl', 'Ciclev10006141m.g' => 'ccl', 'Ciclev10016676m.g' => 'ccl', 'Ciclev10017081m.g' => 'ccl', 'Ciclev10029499m.g' => 'ccl', 'CiPaw.01G166300' => 'cil', 'CiPaw.06G145600' => 'cil', 'CiPaw.13G040100' => 'cil', 'CiPaw.13G135800' => 'cil', 'ClCG01G012230' => 'cla', 'ClCG05G009510' => 'cla', 'ClCG08G008270' => 'cla', 'COL.COLO4_11763' => 'col', 'COL.COLO4_19876' => 'col', 'COL.COLO4_21481' => 'col', 'Cpa.g.sc118.34' => 'cpa', 'Cpa.g.sc32.13' => 'cpa', 'Cpa.g.sc58.103' => 'cpa', 'Cre03.g183850' => 'cre', 'Cre06.g306350' => 'cre', 'Cre07.g334800' => 'cre', 'Cre12.g487900' => 'cre', 'Cre14.g626700' => 'cre', 'Cre16.g658400' => 'cre', 'Cre17.g700950' => 'cre', 'CsaV3_1G014830' => 'csa', 'CsaV3_3G013320' => 'csa', 'CsaV3_3G019210' => 'csa', 'CsaV3_3G019220' => 'csa', 'CsaV3_6G004230' => 'csa', 'CSS0003773' => 'camsi', 'CSS0004563' => 'camsi', 'CSS0013949' => 'camsi', 'CSS0025971' => 'camsi', 'CSS0028570' => 'camsi', 'CSS0033127' => 'camsi', 'CSS0036051' => 'camsi', 'CSS0040087' => 'camsi', 'CSS0043179' => 'camsi', 'DCAR_006161' => 'dca', 'DCAR_010351' => 'dca', 'DCAR_012197' => 'dca', 'DCAR_024162' => 'dca', 'Dinv01030' => 'din', 'Dinv10924' => 'din', 'Dinv11835' => 'din', 'Dinv22841' => 'din', 'Dinv42553' => 'din', 'Duzib052G0560' => 'dzi', 'Duzib132G0389' => 'dzi', 'Duzib150G1181' => 'dzi', 'Duzib168G0623' => 'dzi', 'Duzib170G1036' => 'dzi', 'Duzib212G0200' => 'dzi', 'Duzib248G0194' => 'dzi', 'ECA232G2193' => 'eca', 'ECA233G0302' => 'eca', 'ECA234G2813' => 'eca', 'ECA234G4866' => 'eca', 'ECA240G3932' => 'eca', 'ECA248G0385' => 'eca', 'EL10Ac2g04781' => 'bvu', 'EL10Ac3g06445' => 'bvu', 'EL10Ac7g15825' => 'bvu', 'EL10Ac8g18550' => 'bvu', 'Eucgr.B03849' => 'egr', 'Eucgr.I02744' => 'egr', 'Eucgr.J00264' => 'egr', 'Eucgr.J00493' => 'egr', 'FAN04G2181' => 'fan', 'FAN07G2666' => 'fan', 'FAN11G0024' => 'fan', 'FAN12G1105' => 'fan', 'FAN13G0302' => 'fan', 'FAN15G2781' => 'fan', 'FAN16G1274' => 'fan', 'FAN17G2988' => 'fan', 'FAN18G2621' => 'fan', 'FAN21G0013' => 'fan', 'FAN22G1211' => 'fan', 'FAN25G3626' => 'fan', 'FvH4_2g09491' => 'fve', 'FvH4_3g24910' => 'fve', 'FvH4_4g15630' => 'fve', 'FvH4_5g28820' => 'fve', 'Glyma.01G238000' => 'gma', 'Glyma.05G168400' => 'gma', 'Glyma.08G126800' => 'gma', 'Glyma.08G188500' => 'gma', 'Glyma.10G278900' => 'gma', 'Glyma.11G005700' => 'gma', 'Glyma.11G183300' => 'gma', 'Glyma.12G089200' => 'gma', 'Glyma.12G169400' => 'gma', 'Glyma.12G169500' => 'gma', 'Glyma.12G169600' => 'gma', 'Glyma.20G110800' => 'gma', 'Gohir.A03G192900' => 'ghi', 'Gohir.A03G193000' => 'ghi', 'Gohir.A05G080700' => 'ghi', 'Gohir.A09G216000' => 'ghi', 'Gohir.A12G027700' => 'ghi', 'Gohir.A13G036200' => 'ghi', 'Gohir.A13G222600' => 'ghi', 'Gohir.D02G213900' => 'ghi', 'Gohir.D02G214000' => 'ghi', 'Gohir.D05G083700' => 'ghi', 'Gohir.D05G083800' => 'ghi', 'Gohir.D05G083850' => 'ghi', 'Gohir.D08G015400' => 'ghi', 'Gohir.D09G218400' => 'ghi', 'Gohir.D12G027100' => 'ghi', 'Gohir.D13G034500' => 'ghi', 'Gohir.D13G227400' => 'ghi', 'Gorai.005G241800' => 'gra', 'Gorai.005G241900' => 'gra', 'Gorai.006G239400' => 'gra', 'Gorai.008G027600' => 'gra', 'Gorai.009G085400' => 'gra', 'Gorai.009G085500' => 'gra', 'Gorai.013G039000' => 'gra', 'Gorai.013G194800' => 'gra', 'Gorai.013G257900' => 'gra', 'GSVIVG01000982001' => 'vvi', 'GSVIVG01017981001' => 'vvi', 'HanXRQChr01g0024061' => 'han', 'HanXRQChr09g0247831' => 'han', 'HanXRQChr10g0294611' => 'han', 'HanXRQChr10g0294621' => 'han', 'HanXRQChr11g0346821' => 'han', 'HanXRQChr13g0397461' => 'han', 'HanXRQChr16g0513651' => 'han', 'HanXRQChr16g0513701' => 'han', 'Haze_00897' => 'cav', 'Haze_01745' => 'cav', 'Haze_02486' => 'cav', 'Haze_02487' => 'cav', 'Haze_23374' => 'cav', 'Hma1.2p1_0578F.1_g182520' => 'hma', 'Hma1.2p1_0602F.1_g187350' => 'hma', 'Hma1.2p1_0602F.1_g187360' => 'hma', 'Hma1.2p1_0874F.1_g231320' => 'hma', 'Hma1.2p1_1197F.1_g266210' => 'hma', 'Hma1.2p1_1197F.1_g266220' => 'hma', 'Hma1.2p1_2167F.1_g315895' => 'hma', 'Hma1.2p1_2190F.1_g316640' => 'hma', 'Hma1.2p1_3645F.1_g337153' => 'hma', 'HPP92_004907' => 'vpl', 'HPP92_012134' => 'vpl', 'HPP92_025136' => 'vpl', 'HPP92_026087' => 'vpl', 'Hund06782' => 'sun', 'Hund06784' => 'sun', 'Lalb_Chr01g0004861' => 'lal', 'Lalb_Chr02g0140591' => 'lal', 'Lalb_Chr02g0140611' => 'lal', 'Lalb_Chr03g0028101' => 'lal', 'Lalb_Chr07g0185791' => 'lal', 'Lalb_Chr12g0204491' => 'lal', 'Lalb_Chr13g0295671' => 'lal', 'Lalb_Chr19g0136461' => 'lal', 'Lalb_Chr21g0309191' => 'lal', 'Lj1g0028158' => 'lja', 'Lj1P236T38' => 'lonja', 'Lj2C32G2' => 'lonja', 'Lj2P944T8' => 'lonja', 'Lj2P963T15' => 'lonja', 'Lj3g0011788' => 'lja', 'Lj4g0025027' => 'lja', 'Lj5P255T36' => 'lonja', 'Lj6g0018866' => 'lja', 'Lj6P608T31' => 'lonja', 'LjContig00408g0008879' => 'lja', 'Lsat_1_v5_gn_5_105820' => 'lsa', 'Lsat_1_v5_gn_6_38800' => 'lsa', 'Lsat_1_v5_gn_7_67141' => 'lsa', 'Manes.04G003400' => 'mes', 'Manes.07G020000' => 'mes', 'Manes.07G020100' => 'mes', 'Manes.07G020150' => 'mes', 'Manes.10G061500' => 'mes', 'Manes.10G123200' => 'mes', 'Manes.11G161900' => 'mes', 'Manes.15G029300' => 'mes', 'Mapoly0071s0018' => 'mpo', 'Mapoly0082s0023' => 'mpo', 'Mapoly3477s0001' => 'mpo', 'MBI05_g31233_MAGBIO' => 'mbi', 'MBI09_g05946_MAGBIO' => 'mbi', 'MBI09_g05947_MAGBIO' => 'mbi', 'MBI17_g08346_MAGBIO' => 'mbi', 'MCO04G038' => 'mco', 'MCO09G370' => 'mco', 'MCO13G605' => 'mco', 'MD00G1075500' => 'mdo', 'MD03G1144300' => 'mdo', 'MD08G1236800' => 'mdo', 'MD13G1193300' => 'mdo', 'MD15G1428700' => 'mdo', 'Medtr1g112030' => 'mtr', 'Medtr1g112050' => 'mtr', 'Medtr2g006290' => 'mtr', 'Medtr2g086510' => 'mtr', 'Medtr4g053120' => 'mtr', 'Medtr5g006320' => 'mtr', 'Medtr8g088720' => 'mtr', 'MELO3C004712.2' => 'cme', 'MELO3C006533.2' => 'cme', 'MELO3C019438.2' => 'cme', 'MELO3C019440.2' => 'cme', 'MELO3C019441.2' => 'cme', 'MELO3C019895.2' => 'cme', 'Migut.B00811' => 'egut', 'Migut.D02447' => 'egut', 'Migut.F00875' => 'egut', 'Migut.N00186' => 'egut', 'Migut.N01051' => 'egut', 'Migut.N02491' => 'egut', 'Migut.O00784' => 'egut', 'MSTRG.12367' => 'ama', 'MSTRG.18756' => 'ama', 'MSTRG.21042' => 'ama', 'Nitab4.5_0000559g0040' => 'nta', 'Nitab4.5_0000667g0190' => 'nta', 'Nitab4.5_0000755g0160' => 'nta', 'Nitab4.5_0001216g0080' => 'nta', 'Nitab4.5_0004069g0040' => 'nta', 'Nitab4.5_0004129g0010' => 'nta', 'Nitab4.5_0005744g0030' => 'nta', 'Nitab4.5_0006996g0030' => 'nta', 'Nitab4.5_0008971g0040' => 'nta', 'Nitab4.5_0009769g0020' => 'nta', 'Nitab4.5_0009833g0010' => 'nta', 'Nitab4.5_0013140g0020' => 'nta', 'Nn003s41376' => 'nnu', 'Nn1g01857' => 'nnu', 'Nn1g03611' => 'nnu', 'Nn1g06853' => 'nnu', 'Nn3g18360' => 'nnu', 'Nn4g26328' => 'nnu', 'Nn5g27531' => 'nnu', 'Nn6g34899' => 'nnu', 'Nn7g36299' => 'nnu', 'Oeu021485.1' => 'oeu', 'Oeu022433.1' => 'oeu', 'Oeu032111.1' => 'oeu', 'Oeu051608.1' => 'oeu', 'Os01g0860601' => 'osa', 'Os03g0659200' => 'osa', 'Os03g0835900' => 'osa', 'Os04g0412200' => 'osa', 'Os05g0443500' => 'osa', 'Os07g0251500' => 'osa', 'Os08g0104600' => 'osa', 'Peaxi162Scf00003g00047' => 'pax', 'Peaxi162Scf00003g00052' => 'pax', 'Peaxi162Scf00003g00394' => 'pax', 'Peaxi162Scf00091g00621' => 'pax', 'Peaxi162Scf00152g00146' => 'pax', 'Peaxi162Scf00173g00025' => 'pax', 'Peaxi162Scf00195g00102' => 'pax', 'Peaxi162Scf00402g00013' => 'pax', 'Peaxi162Scf00519g00618' => 'pax', 'PGR004G2838' => 'pgr', 'PGR044G2275' => 'pgr', 'PGR102G1377' => 'pgr', 'PGR119G1245' => 'pgr', 'PGR142G4449' => 'pgr', 'PGSC0003DMG400004532' => 'stu', 'PGSC0003DMG400011950' => 'stu', 'PGSC0003DMG400023391' => 'stu', 'PGSC0003DMG400023985' => 'stu', 'PGSC0003DMG400026360' => 'stu', 'PGSC0003DMG400035711' => 'stu', 'PGSC0003DMG400037286' => 'stu', 'PGSC0003DMG402005881' => 'stu', 'Phvul.002G045400' => 'pvu', 'Phvul.006G216600' => 'pvu', 'Phvul.006G216700' => 'pvu', 'Phvul.006G216800' => 'pvu', 'Phvul.007G022500' => 'pvu', 'Phvul.011G094400' => 'pvu', 'Potri.001G470700' => 'ptr', 'Potri.003G015200' => 'ptr', 'Potri.004G202500' => 'ptr', 'Potri.004G218400' => 'ptr', 'Potri.008G020100' => 'ptr', 'Potri.008G153200' => 'ptr', 'Potri.009G163800' => 'ptr', 'Potri.010G087300' => 'ptr', 'Potri.010G239100' => 'ptr', 'Pp3c10_16100' => 'ppa', 'Pp3c10_16880' => 'ppa', 'Pp3c16_6230' => 'ppa', 'Pp3c17_18910' => 'ppa', 'Pp3c3_22119' => 'ppa', 'Pp3c3_22140' => 'ppa', 'Pp3c4_8159' => 'ppa', 'Pp3c4_8171' => 'ppa', 'Pp3c4_8330' => 'ppa', 'PRCOL_00004098' => 'pco', 'Prupe.1G013900' => 'ppe', 'Prupe.1G226300' => 'ppe', 'Prupe.1G573600' => 'ppe', 'Prupe.6G130100' => 'ppe', 'Psat3g090040' => 'psa', 'Psat4g210440' => 'psa', 'Psat6g231040' => 'psa', 'Psat6g231080' => 'psa', 'Psat7g063000' => 'psa', 'Psat7g188000' => 'psa', 'Psat7g188040' => 'psa', 'PSO017G0206' => 'pso', 'PSO170G0501' => 'pso', 'PSO170G6422' => 'pso', 'PSO210G7739' => 'pso', 'PSO339G1808' => 'pso', 'PSO339G6135' => 'pso', 'PSO384G0010' => 'pso', 'PSO384G0964' => 'pso', 'PSO761G0050' => 'pso', 'PSO782G4085' => 'pso', 'QL01p012264' => 'qlo', 'QL02p099491' => 'qlo', 'QL03p033868' => 'qlo', 'QL04p046678' => 'qlo', 'QL06p002448' => 'qlo', 'RcHm_v2.0_Chr4g0416181' => 'rch', 'RcHm_v2.0_Chr5g0044701' => 'rch', 'RcHm_v2.0_Chr6g0265781' => 'rch', 'RcHm_v2.0_Chr7g0221031' => 'rch', 'Rhsim04G0202000' => 'rsi', 'Rhsim11G0127300' => 'rsi', 'Rhsim13G0111800' => 'rsi', 'Sabra01G0165600' => 'sbr', 'Sabra03G0008300' => 'sbr', 'Sabra04G0136900' => 'sbr', 'Sabra08G0013400' => 'sbr', 'Sabra08G0116800' => 'sbr', 'Sabra09G0128000' => 'sbr', 'Sabra10G0055500' => 'sbr', 'Sabra10G0073300' => 'sbr', 'SalBow3G0385' => 'sbo', 'SalBow3G1119' => 'sbo', 'SalBow3G2005' => 'sbo', 'SalBow6G2563' => 'sbo', 'SalBow6G6386' => 'sbo', 'Sc06g0008800' => 'sci', 'Sc07g0004950' => 'sci', 'Sc09g0005340' => 'sci', 'Sc13g0004410' => 'sci', 'Sc21g0007090' => 'sci', 'Sed0009285' => 'sed', 'Sed0017583' => 'sed', 'Sed0019699' => 'sed', 'Sed0023107' => 'sed', 'SEGI_10916' => 'sgi', 'SEGI_16217' => 'sgi', 'SEGI_19466' => 'sgi', 'SEGI_41115' => 'sgi', 'SGA_v2.0_scaffold111G31534' => 'sas', 'SGA_v2.0_scaffold22G09864' => 'sas', 'SGA_v2.0_scaffold338G49219' => 'sas', 'SGA_v2.0_scaffold92G28298' => 'sas', 'SMO119G0064' => 'smo', 'SMO223G0038' => 'smo', 'SMO347G0584' => 'smo', 'SMO351G0010' => 'smo', 'SMO356G0404' => 'smo', 'Solyc01g103920.3' => 'sly', 'Solyc04g009710.2' => 'sly', 'Solyc05g055280.2' => 'sly', 'Solyc10g044520.3' => 'sly', 'Solyc10g075160.1' => 'sly', 'Solyc11g006910.3' => 'sly', 'Solyc11g068430.3' => 'sly', 'Sopen01g046310' => 'spe', 'Sopen03g001200' => 'spe', 'Sopen04g004830' => 'spe', 'Sopen05g033720' => 'spe', 'Sopen06g030740' => 'spe', 'Sopen10g013090' => 'spe', 'Sopen10g027630' => 'spe', 'Sopen10g027640' => 'spe', 'Sopen11g002820' => 'spe', 'Sopen11g027140' => 'spe', 'Sp1g09680' => 'spa', 'Sp2g03630' => 'spa', 'Sp4g10320' => 'spa', 'Sp6g33400' => 'spa', 'Sp7g13030' => 'spa', 'TAR365G0317' => 'tar', 'TAR376G0979' => 'tar', 'TAR623G1665' => 'tar', 'TAR633G2373' => 'tar', 'TAR636G1400' => 'tar', 'THA.LOC104800529' => 'tha', 'THA.LOC104808547' => 'tha', 'THA.LOC104809615' => 'tha', 'THA.LOC104815724' => 'tha', 'THA.LOC104818480' => 'tha', 'THA.LOC104819179' => 'tha', 'THA.LOC104822270' => 'tha', 'THA.LOC104826425' => 'tha', 'Thecc.02G089700' => 'tca', 'Thecc.04G232300' => 'tca', 'Thecc.09G283400' => 'tca', 'Thhalv10009020m.g' => 'esa', 'Thhalv10015506m.g' => 'esa', 'Thhalv10017364m.g' => 'esa', 'Thhalv10023742m.g' => 'esa', 'Thhalv10026483m.g' => 'esa', 'TPR.G17232' => 'tpr', 'TPR.G2133' => 'tpr', 'TPR.G2498' => 'tpr', 'TPR.G31942' => 'tpr', 'TPR.G37877' => 'tpr', 'TPR.G4571' => 'tpr', 'TWI14G1113' => 'twi', 'TWI15G0426' => 'twi', 'TWI31G1005' => 'twi', 'TWI38G0513' => 'twi', 'TWI38G1484' => 'twi', 'TWI73G1098' => 'twi', 'unitig_26.g10519' => 'ugi', 'unitig_736.g22395' => 'ugi', 'unitig_747.g21234' => 'ugi', 'unitig_747.g21942' => 'ugi', 'vmacro14351' => 'vma', 'VMungo0540G0082' => 'vmu', 'VMungo0540G0405' => 'vmu', 'VMungo0540G1486' => 'vmu', 'VMungo0540G1692' => 'vmu', 'VMungo0720G2473' => 'vmu', 'VMungo1127G1562' => 'vmu', 'VMungo1215G1918' => 'vmu', 'Zm00001eb052650' => 'zma', 'Zm00001eb063710' => 'zma', 'Zm00001eb083950' => 'zma', 'Zm00001eb174420' => 'zma', 'Zm00001eb260140' => 'zma', 'Zm00001eb260150' => 'zma', 'Zm00001eb260160' => 'zma', 'Zm00001eb348290' => 'zma', 'Zm00001eb366870' => 'zma', 'Zm00001eb421930' => 'zma' ), 'gf_id' => 'HOM05D001025', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001025' ), 'data_identifier' => 'HOM05D001025', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001025', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '592', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p22650' => 'bna', 'A01p29720' => 'bna', 'A03p26560' => 'bna', 'A03p68820' => 'bna', 'A04p20980' => 'bna', 'A06p07730' => 'bna', 'A07p18260' => 'bna', 'A08p33710' => 'bna', 'A09p16970' => 'bna', 'A10p27490' => 'bna', 'Aa31LG1G17300' => 'aar', 'Aa31LG1G3910' => 'aar', 'Aa31LG2G9630' => 'aar', 'Aa31LG5G8360' => 'aar', 'Aa31LG9G2410' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4699' => 'aag', 'Actinidia23512' => 'ach', 'Actinidia37080' => 'ach', 'Ah.01g020380' => 'amhyb', 'Ah.08g215710' => 'amhyb', 'Ah.09g225110' => 'amhyb', 'Ah.10g036680' => 'amhyb', 'AL1G21940' => 'aly', 'AL2G15540' => 'aly', 'AL4G21520' => 'aly', 'AL7G40960' => 'aly', 'Aqoxy2G01191' => 'aox', 'Aqoxy2G03393' => 'aox', 'Aqoxy4G02775' => 'aox', 'Aqoxy6G00058' => 'aox', 'arahy.Tifrunner.gnm1.ann1.9X74H2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CW3FX9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R485W7' => 'arhy', 'AT1G10960' => 'ath', 'AT1G60950' => 'ath', 'AT2G27510' => 'ath', 'AT4G14890' => 'ath', 'AT5G10000' => 'ath', 'ATR0665G624' => 'atr', 'ATR0697G138' => 'atr', 'ATR0776G046' => 'atr', 'ATR1134G135' => 'atr', 'Atru.chr12.1025' => 'acertr', 'Atru.chr3.3241' => 'acertr', 'Atru.chr4.2460' => 'acertr', 'AUR62007427' => 'cqu', 'AUR62010960' => 'cqu', 'AUR62012201' => 'cqu', 'AUR62021470' => 'cqu', 'AUR62022834' => 'cqu', 'AUR62033635' => 'cqu', 'AUR62036186' => 'cqu', 'BcaB01g03077' => 'bca', 'BcaB02g10093' => 'bca', 'BcaB04g20295' => 'bca', 'BcaB06g28147' => 'bca', 'BcaB07g31253' => 'bca', 'BcaC01g04946' => 'bca', 'BcaC02g10614' => 'bca', 'BcaC02g10885' => 'bca', 'BcaC04g19356' => 'bca', 'BcaC04g22297' => 'bca', 'BcaC05g24977' => 'bca', 'BcaC06g31823' => 'bca', 'BcaC07g38633' => 'bca', 'BcaC09g49353' => 'bca', 'BcaC09g50168' => 'bca', 'BcaNung00322' => 'bca', 'BcaNung04769' => 'bca', 'BolC1t02753H' => 'bol', 'BolC1t03721H' => 'bol', 'BolC3t15525H' => 'bol', 'BolC4t23903H' => 'bol', 'BolC4t24231H' => 'bol', 'BolC4t27209H' => 'bol', 'BolC5t29671H' => 'bol', 'BolC8t49044H' => 'bol', 'BolC9t54999H' => 'bol', 'BolC9t59517H' => 'bol', 'BraA01t02178Z' => 'bra', 'BraA01t03099Z' => 'bra', 'BraA03t11867Z' => 'bra', 'BraA04t17667Z' => 'bra', 'BraA07t29542Z' => 'bra', 'BraA08t35287Z' => 'bra', 'BraA09t37334Z' => 'bra', 'BraA10t44801Z' => 'bra', 'BraSC39t46181Z' => 'bra', 'C01p28240' => 'bna', 'C01p37530' => 'bna', 'C03p31820' => 'bna', 'C04p24080' => 'bna', 'C04p25790' => 'bna', 'C04p56770' => 'bna', 'C05p09310' => 'bna', 'C09p21010' => 'bna', 'C09p67560' => 'bna', 'CAN.G1324.7' => 'can', 'CAN.G1358.10' => 'can', 'CAN.G1550.2' => 'can', 'CAN.G186.56' => 'can', 'CAN.G1965.1' => 'can', 'CAN.G645.15' => 'can', 'CAN.G798.26' => 'can', 'CAN.G798.27' => 'can', 'CAN.G798.29' => 'can', 'CAN.G919.31' => 'can', 'CANSAT11G0133' => 'cansat', 'CANSAT11G1171' => 'cansat', 'CANSAT11G2056' => 'cansat', 'CANSAT56G1202' => 'cansat', 'CANSAT56G1514' => 'cansat', 'CANSAT78G0455' => 'cansat', 'CARHR011190' => 'chi', 'CARHR051980' => 'chi', 'CARHR120170' => 'chi', 'CARHR203310' => 'chi', 'CARHR221490' => 'chi', 'Carub.0001s1054' => 'cru', 'Carub.0002s0431' => 'cru', 'Carub.0004s0818' => 'cru', 'Carub.0006s0846' => 'cru', 'Carub.0007s2722' => 'cru', 'Ca_00058_v3' => 'car', 'Ca_17831_v3' => 'car', 'Ca_19408_v3' => 'car', 'Ca_24397_v3' => 'car', 'Ca_25664_v3' => 'car', 'CBR_g21818' => 'cbr', 'CBR_g31195' => 'cbr', 'CBR_g32282' => 'cbr', 'CBR_g39599' => 'cbr', 'CBR_g49410' => 'cbr', 'Cc01_g09120' => 'ccan', 'Cc01_g09130' => 'ccan', 'Cc02_g09630' => 'ccan', 'Cc02_g22810' => 'ccan', 'Cc03_g03810' => 'ccan', 'CDE02G3718' => 'cde', 'CDE04G3183' => 'cde', 'CDE07G1046' => 'cde', 'CDE08G0480' => 'cde', 'Cfa005493' => 'cfa', 'Cfa010312' => 'cfa', 'Cfa015648' => 'cfa', 'Ciclev10002793m.g' => 'ccl', 'Ciclev10003356m.g' => 'ccl', 'Ciclev10006141m.g' => 'ccl', 'Ciclev10016676m.g' => 'ccl', 'Ciclev10017081m.g' => 'ccl', 'Ciclev10029499m.g' => 'ccl', 'CiPaw.01G166300' => 'cil', 'CiPaw.06G145600' => 'cil', 'CiPaw.13G040100' => 'cil', 'CiPaw.13G135800' => 'cil', 'ClCG01G012230' => 'cla', 'ClCG05G009510' => 'cla', 'ClCG08G008270' => 'cla', 'COL.COLO4_11763' => 'col', 'COL.COLO4_19876' => 'col', 'COL.COLO4_21481' => 'col', 'Cpa.g.sc118.34' => 'cpa', 'Cpa.g.sc32.13' => 'cpa', 'Cpa.g.sc58.103' => 'cpa', 'Cre03.g183850' => 'cre', 'Cre06.g306350' => 'cre', 'Cre07.g334800' => 'cre', 'Cre12.g487900' => 'cre', 'Cre14.g626700' => 'cre', 'Cre16.g658400' => 'cre', 'Cre17.g700950' => 'cre', 'CsaV3_1G014830' => 'csa', 'CsaV3_3G013320' => 'csa', 'CsaV3_3G019210' => 'csa', 'CsaV3_3G019220' => 'csa', 'CsaV3_6G004230' => 'csa', 'CSS0003773' => 'camsi', 'CSS0004563' => 'camsi', 'CSS0013949' => 'camsi', 'CSS0025971' => 'camsi', 'CSS0028570' => 'camsi', 'CSS0033127' => 'camsi', 'CSS0036051' => 'camsi', 'CSS0040087' => 'camsi', 'CSS0043179' => 'camsi', 'DCAR_006161' => 'dca', 'DCAR_010351' => 'dca', 'DCAR_012197' => 'dca', 'DCAR_024162' => 'dca', 'Dinv01030' => 'din', 'Dinv10924' => 'din', 'Dinv11835' => 'din', 'Dinv22841' => 'din', 'Dinv42553' => 'din', 'Duzib052G0560' => 'dzi', 'Duzib132G0389' => 'dzi', 'Duzib150G1181' => 'dzi', 'Duzib168G0623' => 'dzi', 'Duzib170G1036' => 'dzi', 'Duzib212G0200' => 'dzi', 'Duzib248G0194' => 'dzi', 'ECA232G2193' => 'eca', 'ECA233G0302' => 'eca', 'ECA234G2813' => 'eca', 'ECA234G4866' => 'eca', 'ECA240G3932' => 'eca', 'ECA248G0385' => 'eca', 'EL10Ac2g04781' => 'bvu', 'EL10Ac3g06445' => 'bvu', 'EL10Ac7g15825' => 'bvu', 'EL10Ac8g18550' => 'bvu', 'Eucgr.B03849' => 'egr', 'Eucgr.I02744' => 'egr', 'Eucgr.J00264' => 'egr', 'Eucgr.J00493' => 'egr', 'FAN04G2181' => 'fan', 'FAN07G2666' => 'fan', 'FAN11G0024' => 'fan', 'FAN12G1105' => 'fan', 'FAN13G0302' => 'fan', 'FAN15G2781' => 'fan', 'FAN16G1274' => 'fan', 'FAN17G2988' => 'fan', 'FAN18G2621' => 'fan', 'FAN21G0013' => 'fan', 'FAN22G1211' => 'fan', 'FAN25G3626' => 'fan', 'FvH4_2g09491' => 'fve', 'FvH4_3g24910' => 'fve', 'FvH4_4g15630' => 'fve', 'FvH4_5g28820' => 'fve', 'Glyma.01G238000' => 'gma', 'Glyma.05G168400' => 'gma', 'Glyma.08G126800' => 'gma', 'Glyma.08G188500' => 'gma', 'Glyma.10G278900' => 'gma', 'Glyma.11G005700' => 'gma', 'Glyma.11G183300' => 'gma', 'Glyma.12G089200' => 'gma', 'Glyma.12G169400' => 'gma', 'Glyma.12G169500' => 'gma', 'Glyma.12G169600' => 'gma', 'Glyma.20G110800' => 'gma', 'Gohir.A03G192900' => 'ghi', 'Gohir.A03G193000' => 'ghi', 'Gohir.A05G080700' => 'ghi', 'Gohir.A09G216000' => 'ghi', 'Gohir.A12G027700' => 'ghi', 'Gohir.A13G036200' => 'ghi', 'Gohir.A13G222600' => 'ghi', 'Gohir.D02G213900' => 'ghi', 'Gohir.D02G214000' => 'ghi', 'Gohir.D05G083700' => 'ghi', 'Gohir.D05G083800' => 'ghi', 'Gohir.D05G083850' => 'ghi', 'Gohir.D08G015400' => 'ghi', 'Gohir.D09G218400' => 'ghi', 'Gohir.D12G027100' => 'ghi', 'Gohir.D13G034500' => 'ghi', 'Gohir.D13G227400' => 'ghi', 'Gorai.005G241800' => 'gra', 'Gorai.005G241900' => 'gra', 'Gorai.006G239400' => 'gra', 'Gorai.008G027600' => 'gra', 'Gorai.009G085400' => 'gra', 'Gorai.009G085500' => 'gra', 'Gorai.013G039000' => 'gra', 'Gorai.013G194800' => 'gra', 'Gorai.013G257900' => 'gra', 'GSVIVG01000982001' => 'vvi', 'GSVIVG01017981001' => 'vvi', 'HanXRQChr01g0024061' => 'han', 'HanXRQChr09g0247831' => 'han', 'HanXRQChr10g0294611' => 'han', 'HanXRQChr10g0294621' => 'han', 'HanXRQChr11g0346821' => 'han', 'HanXRQChr13g0397461' => 'han', 'HanXRQChr16g0513651' => 'han', 'HanXRQChr16g0513701' => 'han', 'Haze_00897' => 'cav', 'Haze_01745' => 'cav', 'Haze_02486' => 'cav', 'Haze_02487' => 'cav', 'Haze_23374' => 'cav', 'Hma1.2p1_0578F.1_g182520' => 'hma', 'Hma1.2p1_0602F.1_g187350' => 'hma', 'Hma1.2p1_0602F.1_g187360' => 'hma', 'Hma1.2p1_0874F.1_g231320' => 'hma', 'Hma1.2p1_1197F.1_g266210' => 'hma', 'Hma1.2p1_1197F.1_g266220' => 'hma', 'Hma1.2p1_2167F.1_g315895' => 'hma', 'Hma1.2p1_2190F.1_g316640' => 'hma', 'Hma1.2p1_3645F.1_g337153' => 'hma', 'HPP92_004907' => 'vpl', 'HPP92_012134' => 'vpl', 'HPP92_025136' => 'vpl', 'HPP92_026087' => 'vpl', 'Hund06782' => 'sun', 'Hund06784' => 'sun', 'Lalb_Chr01g0004861' => 'lal', 'Lalb_Chr02g0140591' => 'lal', 'Lalb_Chr02g0140611' => 'lal', 'Lalb_Chr03g0028101' => 'lal', 'Lalb_Chr07g0185791' => 'lal', 'Lalb_Chr12g0204491' => 'lal', 'Lalb_Chr13g0295671' => 'lal', 'Lalb_Chr19g0136461' => 'lal', 'Lalb_Chr21g0309191' => 'lal', 'Lj1g0028158' => 'lja', 'Lj1P236T38' => 'lonja', 'Lj2C32G2' => 'lonja', 'Lj2P944T8' => 'lonja', 'Lj2P963T15' => 'lonja', 'Lj3g0011788' => 'lja', 'Lj4g0025027' => 'lja', 'Lj5P255T36' => 'lonja', 'Lj6g0018866' => 'lja', 'Lj6P608T31' => 'lonja', 'LjContig00408g0008879' => 'lja', 'Lsat_1_v5_gn_5_105820' => 'lsa', 'Lsat_1_v5_gn_6_38800' => 'lsa', 'Lsat_1_v5_gn_7_67141' => 'lsa', 'Manes.04G003400' => 'mes', 'Manes.07G020000' => 'mes', 'Manes.07G020100' => 'mes', 'Manes.07G020150' => 'mes', 'Manes.10G061500' => 'mes', 'Manes.10G123200' => 'mes', 'Manes.11G161900' => 'mes', 'Manes.15G029300' => 'mes', 'Mapoly0071s0018' => 'mpo', 'Mapoly0082s0023' => 'mpo', 'Mapoly3477s0001' => 'mpo', 'MBI05_g31233_MAGBIO' => 'mbi', 'MBI09_g05946_MAGBIO' => 'mbi', 'MBI09_g05947_MAGBIO' => 'mbi', 'MBI17_g08346_MAGBIO' => 'mbi', 'MCO04G038' => 'mco', 'MCO09G370' => 'mco', 'MCO13G605' => 'mco', 'MD00G1075500' => 'mdo', 'MD03G1144300' => 'mdo', 'MD08G1236800' => 'mdo', 'MD13G1193300' => 'mdo', 'MD15G1428700' => 'mdo', 'Medtr1g112030' => 'mtr', 'Medtr1g112050' => 'mtr', 'Medtr2g006290' => 'mtr', 'Medtr2g086510' => 'mtr', 'Medtr4g053120' => 'mtr', 'Medtr5g006320' => 'mtr', 'Medtr8g088720' => 'mtr', 'MELO3C004712.2' => 'cme', 'MELO3C006533.2' => 'cme', 'MELO3C019438.2' => 'cme', 'MELO3C019440.2' => 'cme', 'MELO3C019441.2' => 'cme', 'MELO3C019895.2' => 'cme', 'Migut.B00811' => 'egut', 'Migut.D02447' => 'egut', 'Migut.F00875' => 'egut', 'Migut.N00186' => 'egut', 'Migut.N01051' => 'egut', 'Migut.N02491' => 'egut', 'Migut.O00784' => 'egut', 'MSTRG.12367' => 'ama', 'MSTRG.18756' => 'ama', 'MSTRG.21042' => 'ama', 'Nitab4.5_0000559g0040' => 'nta', 'Nitab4.5_0000667g0190' => 'nta', 'Nitab4.5_0000755g0160' => 'nta', 'Nitab4.5_0001216g0080' => 'nta', 'Nitab4.5_0004069g0040' => 'nta', 'Nitab4.5_0004129g0010' => 'nta', 'Nitab4.5_0005744g0030' => 'nta', 'Nitab4.5_0006996g0030' => 'nta', 'Nitab4.5_0008971g0040' => 'nta', 'Nitab4.5_0009769g0020' => 'nta', 'Nitab4.5_0009833g0010' => 'nta', 'Nitab4.5_0013140g0020' => 'nta', 'Nn003s41376' => 'nnu', 'Nn1g01857' => 'nnu', 'Nn1g03611' => 'nnu', 'Nn1g06853' => 'nnu', 'Nn3g18360' => 'nnu', 'Nn4g26328' => 'nnu', 'Nn5g27531' => 'nnu', 'Nn6g34899' => 'nnu', 'Nn7g36299' => 'nnu', 'Oeu021485.1' => 'oeu', 'Oeu022433.1' => 'oeu', 'Oeu032111.1' => 'oeu', 'Oeu051608.1' => 'oeu', 'Os01g0860601' => 'osa', 'Os03g0659200' => 'osa', 'Os03g0835900' => 'osa', 'Os04g0412200' => 'osa', 'Os05g0443500' => 'osa', 'Os07g0251500' => 'osa', 'Os08g0104600' => 'osa', 'Peaxi162Scf00003g00047' => 'pax', 'Peaxi162Scf00003g00052' => 'pax', 'Peaxi162Scf00003g00394' => 'pax', 'Peaxi162Scf00091g00621' => 'pax', 'Peaxi162Scf00152g00146' => 'pax', 'Peaxi162Scf00173g00025' => 'pax', 'Peaxi162Scf00195g00102' => 'pax', 'Peaxi162Scf00402g00013' => 'pax', 'Peaxi162Scf00519g00618' => 'pax', 'PGR004G2838' => 'pgr', 'PGR044G2275' => 'pgr', 'PGR102G1377' => 'pgr', 'PGR119G1245' => 'pgr', 'PGR142G4449' => 'pgr', 'PGSC0003DMG400004532' => 'stu', 'PGSC0003DMG400011950' => 'stu', 'PGSC0003DMG400023391' => 'stu', 'PGSC0003DMG400023985' => 'stu', 'PGSC0003DMG400026360' => 'stu', 'PGSC0003DMG400035711' => 'stu', 'PGSC0003DMG400037286' => 'stu', 'PGSC0003DMG402005881' => 'stu', 'Phvul.002G045400' => 'pvu', 'Phvul.006G216600' => 'pvu', 'Phvul.006G216700' => 'pvu', 'Phvul.006G216800' => 'pvu', 'Phvul.007G022500' => 'pvu', 'Phvul.011G094400' => 'pvu', 'Potri.001G470700' => 'ptr', 'Potri.003G015200' => 'ptr', 'Potri.004G202500' => 'ptr', 'Potri.004G218400' => 'ptr', 'Potri.008G020100' => 'ptr', 'Potri.008G153200' => 'ptr', 'Potri.009G163800' => 'ptr', 'Potri.010G087300' => 'ptr', 'Potri.010G239100' => 'ptr', 'Pp3c10_16100' => 'ppa', 'Pp3c10_16880' => 'ppa', 'Pp3c16_6230' => 'ppa', 'Pp3c17_18910' => 'ppa', 'Pp3c3_22119' => 'ppa', 'Pp3c3_22140' => 'ppa', 'Pp3c4_8159' => 'ppa', 'Pp3c4_8171' => 'ppa', 'Pp3c4_8330' => 'ppa', 'PRCOL_00004098' => 'pco', 'Prupe.1G013900' => 'ppe', 'Prupe.1G226300' => 'ppe', 'Prupe.1G573600' => 'ppe', 'Prupe.6G130100' => 'ppe', 'Psat3g090040' => 'psa', 'Psat4g210440' => 'psa', 'Psat6g231040' => 'psa', 'Psat6g231080' => 'psa', 'Psat7g063000' => 'psa', 'Psat7g188000' => 'psa', 'Psat7g188040' => 'psa', 'PSO017G0206' => 'pso', 'PSO170G0501' => 'pso', 'PSO170G6422' => 'pso', 'PSO210G7739' => 'pso', 'PSO339G1808' => 'pso', 'PSO339G6135' => 'pso', 'PSO384G0010' => 'pso', 'PSO384G0964' => 'pso', 'PSO761G0050' => 'pso', 'PSO782G4085' => 'pso', 'QL01p012264' => 'qlo', 'QL02p099491' => 'qlo', 'QL03p033868' => 'qlo', 'QL04p046678' => 'qlo', 'QL06p002448' => 'qlo', 'RcHm_v2.0_Chr4g0416181' => 'rch', 'RcHm_v2.0_Chr5g0044701' => 'rch', 'RcHm_v2.0_Chr6g0265781' => 'rch', 'RcHm_v2.0_Chr7g0221031' => 'rch', 'Rhsim04G0202000' => 'rsi', 'Rhsim11G0127300' => 'rsi', 'Rhsim13G0111800' => 'rsi', 'Sabra01G0165600' => 'sbr', 'Sabra03G0008300' => 'sbr', 'Sabra04G0136900' => 'sbr', 'Sabra08G0013400' => 'sbr', 'Sabra08G0116800' => 'sbr', 'Sabra09G0128000' => 'sbr', 'Sabra10G0055500' => 'sbr', 'Sabra10G0073300' => 'sbr', 'SalBow3G0385' => 'sbo', 'SalBow3G1119' => 'sbo', 'SalBow3G2005' => 'sbo', 'SalBow6G2563' => 'sbo', 'SalBow6G6386' => 'sbo', 'Sc06g0008800' => 'sci', 'Sc07g0004950' => 'sci', 'Sc09g0005340' => 'sci', 'Sc13g0004410' => 'sci', 'Sc21g0007090' => 'sci', 'Sed0009285' => 'sed', 'Sed0017583' => 'sed', 'Sed0019699' => 'sed', 'Sed0023107' => 'sed', 'SEGI_10916' => 'sgi', 'SEGI_16217' => 'sgi', 'SEGI_19466' => 'sgi', 'SEGI_41115' => 'sgi', 'SGA_v2.0_scaffold111G31534' => 'sas', 'SGA_v2.0_scaffold22G09864' => 'sas', 'SGA_v2.0_scaffold338G49219' => 'sas', 'SGA_v2.0_scaffold92G28298' => 'sas', 'SMO119G0064' => 'smo', 'SMO223G0038' => 'smo', 'SMO347G0584' => 'smo', 'SMO351G0010' => 'smo', 'SMO356G0404' => 'smo', 'Solyc01g103920.3' => 'sly', 'Solyc04g009710.2' => 'sly', 'Solyc05g055280.2' => 'sly', 'Solyc10g044520.3' => 'sly', 'Solyc10g075160.1' => 'sly', 'Solyc11g006910.3' => 'sly', 'Solyc11g068430.3' => 'sly', 'Sopen01g046310' => 'spe', 'Sopen03g001200' => 'spe', 'Sopen04g004830' => 'spe', 'Sopen05g033720' => 'spe', 'Sopen06g030740' => 'spe', 'Sopen10g013090' => 'spe', 'Sopen10g027630' => 'spe', 'Sopen10g027640' => 'spe', 'Sopen11g002820' => 'spe', 'Sopen11g027140' => 'spe', 'Sp1g09680' => 'spa', 'Sp2g03630' => 'spa', 'Sp4g10320' => 'spa', 'Sp6g33400' => 'spa', 'Sp7g13030' => 'spa', 'TAR365G0317' => 'tar', 'TAR376G0979' => 'tar', 'TAR623G1665' => 'tar', 'TAR633G2373' => 'tar', 'TAR636G1400' => 'tar', 'THA.LOC104800529' => 'tha', 'THA.LOC104808547' => 'tha', 'THA.LOC104809615' => 'tha', 'THA.LOC104815724' => 'tha', 'THA.LOC104818480' => 'tha', 'THA.LOC104819179' => 'tha', 'THA.LOC104822270' => 'tha', 'THA.LOC104826425' => 'tha', 'Thecc.02G089700' => 'tca', 'Thecc.04G232300' => 'tca', 'Thecc.09G283400' => 'tca', 'Thhalv10009020m.g' => 'esa', 'Thhalv10015506m.g' => 'esa', 'Thhalv10017364m.g' => 'esa', 'Thhalv10023742m.g' => 'esa', 'Thhalv10026483m.g' => 'esa', 'TPR.G17232' => 'tpr', 'TPR.G2133' => 'tpr', 'TPR.G2498' => 'tpr', 'TPR.G31942' => 'tpr', 'TPR.G37877' => 'tpr', 'TPR.G4571' => 'tpr', 'TWI14G1113' => 'twi', 'TWI15G0426' => 'twi', 'TWI31G1005' => 'twi', 'TWI38G0513' => 'twi', 'TWI38G1484' => 'twi', 'TWI73G1098' => 'twi', 'unitig_26.g10519' => 'ugi', 'unitig_736.g22395' => 'ugi', 'unitig_747.g21234' => 'ugi', 'unitig_747.g21942' => 'ugi', 'vmacro14351' => 'vma', 'VMungo0540G0082' => 'vmu', 'VMungo0540G0405' => 'vmu', 'VMungo0540G1486' => 'vmu', 'VMungo0540G1692' => 'vmu', 'VMungo0720G2473' => 'vmu', 'VMungo1127G1562' => 'vmu', 'VMungo1215G1918' => 'vmu', 'Zm00001eb052650' => 'zma', 'Zm00001eb063710' => 'zma', 'Zm00001eb083950' => 'zma', 'Zm00001eb174420' => 'zma', 'Zm00001eb260140' => 'zma', 'Zm00001eb260150' => 'zma', 'Zm00001eb260160' => 'zma', 'Zm00001eb348290' => 'zma', 'Zm00001eb366870' => 'zma', 'Zm00001eb421930' => 'zma' ) $gf_id = 'HOM05D001025' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001025' ) $data_identifier = 'HOM05D001025' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 19, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 2, 'amhyb' => (int) 4, 'aly' => (int) 4, 'aox' => (int) 4, 'arhy' => (int) 3, 'ath' => (int) 5, 'atr' => (int) 4, 'acertr' => (int) 3, 'cqu' => (int) 7, 'bca' => (int) 17, 'bol' => (int) 10, 'bra' => (int) 9, 'can' => (int) 10, 'cansat' => (int) 6, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 5, 'cbr' => (int) 5, 'ccan' => (int) 5, 'cde' => (int) 4, 'cfa' => (int) 3, 'ccl' => (int) 6, 'cil' => (int) 4, 'cla' => (int) 3, 'col' => (int) 3, 'cpa' => (int) 3, 'cre' => (int) 7, 'csa' => (int) 5, 'camsi' => (int) 9, 'dca' => (int) 4, 'din' => (int) 5, 'dzi' => (int) 7, 'eca' => (int) 6, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 12, 'fve' => (int) 4, 'gma' => (int) 12, 'ghi' => (int) 17, 'gra' => (int) 9, 'vvi' => (int) 2, 'han' => (int) 8, 'cav' => (int) 5, 'hma' => (int) 9, 'vpl' => (int) 4, 'sun' => (int) 2, 'lal' => (int) 9, 'lja' => (int) 5, 'lonja' => (int) 6, 'lsa' => (int) 3, 'mes' => (int) 8, 'mpo' => (int) 3, 'mbi' => (int) 4, 'mco' => (int) 3, 'mdo' => (int) 5, 'mtr' => (int) 7, 'cme' => (int) 6, 'egut' => (int) 7, 'ama' => (int) 3, 'nta' => (int) 12, 'nnu' => (int) 9, 'oeu' => (int) 4, 'osa' => (int) 7, 'pax' => (int) 9, 'pgr' => (int) 5, 'stu' => (int) 8, 'pvu' => (int) 6, 'ptr' => (int) 9, 'ppa' => (int) 9, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 7, 'pso' => (int) 10, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 3, 'sbr' => (int) 8, 'sbo' => (int) 5, 'sci' => (int) 5, 'sed' => (int) 4, 'sgi' => (int) 4, 'sas' => (int) 4, 'smo' => (int) 5, 'sly' => (int) 7, 'spe' => (int) 10, 'spa' => (int) 5, 'tar' => (int) 5, 'tha' => (int) 8, 'tca' => (int) 3, 'esa' => (int) 5, 'tpr' => (int) 6, 'twi' => (int) 6, 'ugi' => (int) 4, 'vma' => (int) 1, 'vmu' => (int) 7, 'zma' => (int) 10 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb421930' $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' => 'HOM05D001025', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '592', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p22650' => 'bna', 'A01p29720' => 'bna', 'A03p26560' => 'bna', 'A03p68820' => 'bna', 'A04p20980' => 'bna', 'A06p07730' => 'bna', 'A07p18260' => 'bna', 'A08p33710' => 'bna', 'A09p16970' => 'bna', 'A10p27490' => 'bna', 'Aa31LG1G17300' => 'aar', 'Aa31LG1G3910' => 'aar', 'Aa31LG2G9630' => 'aar', 'Aa31LG5G8360' => 'aar', 'Aa31LG9G2410' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4699' => 'aag', 'Actinidia23512' => 'ach', 'Actinidia37080' => 'ach', 'Ah.01g020380' => 'amhyb', 'Ah.08g215710' => 'amhyb', 'Ah.09g225110' => 'amhyb', 'Ah.10g036680' => 'amhyb', 'AL1G21940' => 'aly', 'AL2G15540' => 'aly', 'AL4G21520' => 'aly', 'AL7G40960' => 'aly', 'Aqoxy2G01191' => 'aox', 'Aqoxy2G03393' => 'aox', 'Aqoxy4G02775' => 'aox', 'Aqoxy6G00058' => 'aox', 'arahy.Tifrunner.gnm1.ann1.9X74H2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CW3FX9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R485W7' => 'arhy', 'AT1G10960' => 'ath', 'AT1G60950' => 'ath', 'AT2G27510' => 'ath', 'AT4G14890' => 'ath', 'AT5G10000' => 'ath', 'ATR0665G624' => 'atr', 'ATR0697G138' => 'atr', 'ATR0776G046' => 'atr', 'ATR1134G135' => 'atr', 'Atru.chr12.1025' => 'acertr', 'Atru.chr3.3241' => 'acertr', 'Atru.chr4.2460' => 'acertr', 'AUR62007427' => 'cqu', 'AUR62010960' => 'cqu', 'AUR62012201' => 'cqu', 'AUR62021470' => 'cqu', 'AUR62022834' => 'cqu', 'AUR62033635' => 'cqu', 'AUR62036186' => 'cqu', 'BcaB01g03077' => 'bca', 'BcaB02g10093' => 'bca', 'BcaB04g20295' => 'bca', 'BcaB06g28147' => 'bca', 'BcaB07g31253' => 'bca', 'BcaC01g04946' => 'bca', 'BcaC02g10614' => 'bca', 'BcaC02g10885' => 'bca', 'BcaC04g19356' => 'bca', 'BcaC04g22297' => 'bca', 'BcaC05g24977' => 'bca', 'BcaC06g31823' => 'bca', 'BcaC07g38633' => 'bca', 'BcaC09g49353' => 'bca', 'BcaC09g50168' => 'bca', 'BcaNung00322' => 'bca', 'BcaNung04769' => 'bca', 'BolC1t02753H' => 'bol', 'BolC1t03721H' => 'bol', 'BolC3t15525H' => 'bol', 'BolC4t23903H' => 'bol', 'BolC4t24231H' => 'bol', 'BolC4t27209H' => 'bol', 'BolC5t29671H' => 'bol', 'BolC8t49044H' => 'bol', 'BolC9t54999H' => 'bol', 'BolC9t59517H' => 'bol', 'BraA01t02178Z' => 'bra', 'BraA01t03099Z' => 'bra', 'BraA03t11867Z' => 'bra', 'BraA04t17667Z' => 'bra', 'BraA07t29542Z' => 'bra', 'BraA08t35287Z' => 'bra', 'BraA09t37334Z' => 'bra', 'BraA10t44801Z' => 'bra', 'BraSC39t46181Z' => 'bra', 'C01p28240' => 'bna', 'C01p37530' => 'bna', 'C03p31820' => 'bna', 'C04p24080' => 'bna', 'C04p25790' => 'bna', 'C04p56770' => 'bna', 'C05p09310' => 'bna', 'C09p21010' => 'bna', 'C09p67560' => 'bna', 'CAN.G1324.7' => 'can', 'CAN.G1358.10' => 'can', 'CAN.G1550.2' => 'can', 'CAN.G186.56' => 'can', 'CAN.G1965.1' => 'can', 'CAN.G645.15' => 'can', 'CAN.G798.26' => 'can', 'CAN.G798.27' => 'can', 'CAN.G798.29' => 'can', 'CAN.G919.31' => 'can', 'CANSAT11G0133' => 'cansat', 'CANSAT11G1171' => 'cansat', 'CANSAT11G2056' => 'cansat', 'CANSAT56G1202' => 'cansat', 'CANSAT56G1514' => 'cansat', 'CANSAT78G0455' => 'cansat', 'CARHR011190' => 'chi', 'CARHR051980' => 'chi', 'CARHR120170' => 'chi', 'CARHR203310' => 'chi', 'CARHR221490' => 'chi', 'Carub.0001s1054' => 'cru', 'Carub.0002s0431' => 'cru', 'Carub.0004s0818' => 'cru', 'Carub.0006s0846' => 'cru', 'Carub.0007s2722' => 'cru', 'Ca_00058_v3' => 'car', 'Ca_17831_v3' => 'car', 'Ca_19408_v3' => 'car', 'Ca_24397_v3' => 'car', 'Ca_25664_v3' => 'car', 'CBR_g21818' => 'cbr', 'CBR_g31195' => 'cbr', 'CBR_g32282' => 'cbr', 'CBR_g39599' => 'cbr', 'CBR_g49410' => 'cbr', 'Cc01_g09120' => 'ccan', 'Cc01_g09130' => 'ccan', 'Cc02_g09630' => 'ccan', 'Cc02_g22810' => 'ccan', 'Cc03_g03810' => 'ccan', 'CDE02G3718' => 'cde', 'CDE04G3183' => 'cde', 'CDE07G1046' => 'cde', 'CDE08G0480' => 'cde', 'Cfa005493' => 'cfa', 'Cfa010312' => 'cfa', 'Cfa015648' => 'cfa', 'Ciclev10002793m.g' => 'ccl', 'Ciclev10003356m.g' => 'ccl', 'Ciclev10006141m.g' => 'ccl', 'Ciclev10016676m.g' => 'ccl', 'Ciclev10017081m.g' => 'ccl', 'Ciclev10029499m.g' => 'ccl', 'CiPaw.01G166300' => 'cil', 'CiPaw.06G145600' => 'cil', 'CiPaw.13G040100' => 'cil', 'CiPaw.13G135800' => 'cil', 'ClCG01G012230' => 'cla', 'ClCG05G009510' => 'cla', 'ClCG08G008270' => 'cla', 'COL.COLO4_11763' => 'col', 'COL.COLO4_19876' => 'col', 'COL.COLO4_21481' => 'col', 'Cpa.g.sc118.34' => 'cpa', 'Cpa.g.sc32.13' => 'cpa', 'Cpa.g.sc58.103' => 'cpa', 'Cre03.g183850' => 'cre', 'Cre06.g306350' => 'cre', 'Cre07.g334800' => 'cre', 'Cre12.g487900' => 'cre', 'Cre14.g626700' => 'cre', 'Cre16.g658400' => 'cre', 'Cre17.g700950' => 'cre', 'CsaV3_1G014830' => 'csa', 'CsaV3_3G013320' => 'csa', 'CsaV3_3G019210' => 'csa', 'CsaV3_3G019220' => 'csa', 'CsaV3_6G004230' => 'csa', 'CSS0003773' => 'camsi', 'CSS0004563' => 'camsi', 'CSS0013949' => 'camsi', 'CSS0025971' => 'camsi', 'CSS0028570' => 'camsi', 'CSS0033127' => 'camsi', 'CSS0036051' => 'camsi', 'CSS0040087' => 'camsi', 'CSS0043179' => 'camsi', 'DCAR_006161' => 'dca', 'DCAR_010351' => 'dca', 'DCAR_012197' => 'dca', 'DCAR_024162' => 'dca', 'Dinv01030' => 'din', 'Dinv10924' => 'din', 'Dinv11835' => 'din', 'Dinv22841' => 'din', 'Dinv42553' => 'din', 'Duzib052G0560' => 'dzi', 'Duzib132G0389' => 'dzi', 'Duzib150G1181' => 'dzi', 'Duzib168G0623' => 'dzi', 'Duzib170G1036' => 'dzi', 'Duzib212G0200' => 'dzi', 'Duzib248G0194' => 'dzi', 'ECA232G2193' => 'eca', 'ECA233G0302' => 'eca', 'ECA234G2813' => 'eca', 'ECA234G4866' => 'eca', 'ECA240G3932' => 'eca', 'ECA248G0385' => 'eca', 'EL10Ac2g04781' => 'bvu', 'EL10Ac3g06445' => 'bvu', 'EL10Ac7g15825' => 'bvu', 'EL10Ac8g18550' => 'bvu', 'Eucgr.B03849' => 'egr', 'Eucgr.I02744' => 'egr', 'Eucgr.J00264' => 'egr', 'Eucgr.J00493' => 'egr', 'FAN04G2181' => 'fan', 'FAN07G2666' => 'fan', 'FAN11G0024' => 'fan', 'FAN12G1105' => 'fan', 'FAN13G0302' => 'fan', 'FAN15G2781' => 'fan', 'FAN16G1274' => 'fan', 'FAN17G2988' => 'fan', 'FAN18G2621' => 'fan', 'FAN21G0013' => 'fan', 'FAN22G1211' => 'fan', 'FAN25G3626' => 'fan', 'FvH4_2g09491' => 'fve', 'FvH4_3g24910' => 'fve', 'FvH4_4g15630' => 'fve', 'FvH4_5g28820' => 'fve', 'Glyma.01G238000' => 'gma', 'Glyma.05G168400' => 'gma', 'Glyma.08G126800' => 'gma', 'Glyma.08G188500' => 'gma', 'Glyma.10G278900' => 'gma', 'Glyma.11G005700' => 'gma', 'Glyma.11G183300' => 'gma', 'Glyma.12G089200' => 'gma', 'Glyma.12G169400' => 'gma', 'Glyma.12G169500' => 'gma', 'Glyma.12G169600' => 'gma', 'Glyma.20G110800' => 'gma', 'Gohir.A03G192900' => 'ghi', 'Gohir.A03G193000' => 'ghi', 'Gohir.A05G080700' => 'ghi', 'Gohir.A09G216000' => 'ghi', 'Gohir.A12G027700' => 'ghi', 'Gohir.A13G036200' => 'ghi', 'Gohir.A13G222600' => 'ghi', 'Gohir.D02G213900' => 'ghi', 'Gohir.D02G214000' => 'ghi', 'Gohir.D05G083700' => 'ghi', 'Gohir.D05G083800' => 'ghi', 'Gohir.D05G083850' => 'ghi', 'Gohir.D08G015400' => 'ghi', 'Gohir.D09G218400' => 'ghi', 'Gohir.D12G027100' => 'ghi', 'Gohir.D13G034500' => 'ghi', 'Gohir.D13G227400' => 'ghi', 'Gorai.005G241800' => 'gra', 'Gorai.005G241900' => 'gra', 'Gorai.006G239400' => 'gra', 'Gorai.008G027600' => 'gra', 'Gorai.009G085400' => 'gra', 'Gorai.009G085500' => 'gra', 'Gorai.013G039000' => 'gra', 'Gorai.013G194800' => 'gra', 'Gorai.013G257900' => 'gra', 'GSVIVG01000982001' => 'vvi', 'GSVIVG01017981001' => 'vvi', 'HanXRQChr01g0024061' => 'han', 'HanXRQChr09g0247831' => 'han', 'HanXRQChr10g0294611' => 'han', 'HanXRQChr10g0294621' => 'han', 'HanXRQChr11g0346821' => 'han', 'HanXRQChr13g0397461' => 'han', 'HanXRQChr16g0513651' => 'han', 'HanXRQChr16g0513701' => 'han', 'Haze_00897' => 'cav', 'Haze_01745' => 'cav', 'Haze_02486' => 'cav', 'Haze_02487' => 'cav', 'Haze_23374' => 'cav', 'Hma1.2p1_0578F.1_g182520' => 'hma', 'Hma1.2p1_0602F.1_g187350' => 'hma', 'Hma1.2p1_0602F.1_g187360' => 'hma', 'Hma1.2p1_0874F.1_g231320' => 'hma', 'Hma1.2p1_1197F.1_g266210' => 'hma', 'Hma1.2p1_1197F.1_g266220' => 'hma', 'Hma1.2p1_2167F.1_g315895' => 'hma', 'Hma1.2p1_2190F.1_g316640' => 'hma', 'Hma1.2p1_3645F.1_g337153' => 'hma', 'HPP92_004907' => 'vpl', 'HPP92_012134' => 'vpl', 'HPP92_025136' => 'vpl', 'HPP92_026087' => 'vpl', 'Hund06782' => 'sun', 'Hund06784' => 'sun', 'Lalb_Chr01g0004861' => 'lal', 'Lalb_Chr02g0140591' => 'lal', 'Lalb_Chr02g0140611' => 'lal', 'Lalb_Chr03g0028101' => 'lal', 'Lalb_Chr07g0185791' => 'lal', 'Lalb_Chr12g0204491' => 'lal', 'Lalb_Chr13g0295671' => 'lal', 'Lalb_Chr19g0136461' => 'lal', 'Lalb_Chr21g0309191' => 'lal', 'Lj1g0028158' => 'lja', 'Lj1P236T38' => 'lonja', 'Lj2C32G2' => 'lonja', 'Lj2P944T8' => 'lonja', 'Lj2P963T15' => 'lonja', 'Lj3g0011788' => 'lja', 'Lj4g0025027' => 'lja', 'Lj5P255T36' => 'lonja', 'Lj6g0018866' => 'lja', 'Lj6P608T31' => 'lonja', 'LjContig00408g0008879' => 'lja', 'Lsat_1_v5_gn_5_105820' => 'lsa', 'Lsat_1_v5_gn_6_38800' => 'lsa', 'Lsat_1_v5_gn_7_67141' => 'lsa', 'Manes.04G003400' => 'mes', 'Manes.07G020000' => 'mes', 'Manes.07G020100' => 'mes', 'Manes.07G020150' => 'mes', 'Manes.10G061500' => 'mes', 'Manes.10G123200' => 'mes', 'Manes.11G161900' => 'mes', 'Manes.15G029300' => 'mes', 'Mapoly0071s0018' => 'mpo', 'Mapoly0082s0023' => 'mpo', 'Mapoly3477s0001' => 'mpo', 'MBI05_g31233_MAGBIO' => 'mbi', 'MBI09_g05946_MAGBIO' => 'mbi', 'MBI09_g05947_MAGBIO' => 'mbi', 'MBI17_g08346_MAGBIO' => 'mbi', 'MCO04G038' => 'mco', 'MCO09G370' => 'mco', 'MCO13G605' => 'mco', 'MD00G1075500' => 'mdo', 'MD03G1144300' => 'mdo', 'MD08G1236800' => 'mdo', 'MD13G1193300' => 'mdo', 'MD15G1428700' => 'mdo', 'Medtr1g112030' => 'mtr', 'Medtr1g112050' => 'mtr', 'Medtr2g006290' => 'mtr', 'Medtr2g086510' => 'mtr', 'Medtr4g053120' => 'mtr', 'Medtr5g006320' => 'mtr', 'Medtr8g088720' => 'mtr', 'MELO3C004712.2' => 'cme', 'MELO3C006533.2' => 'cme', 'MELO3C019438.2' => 'cme', 'MELO3C019440.2' => 'cme', 'MELO3C019441.2' => 'cme', 'MELO3C019895.2' => 'cme', 'Migut.B00811' => 'egut', 'Migut.D02447' => 'egut', 'Migut.F00875' => 'egut', 'Migut.N00186' => 'egut', 'Migut.N01051' => 'egut', 'Migut.N02491' => 'egut', 'Migut.O00784' => 'egut', 'MSTRG.12367' => 'ama', 'MSTRG.18756' => 'ama', 'MSTRG.21042' => 'ama', 'Nitab4.5_0000559g0040' => 'nta', 'Nitab4.5_0000667g0190' => 'nta', 'Nitab4.5_0000755g0160' => 'nta', 'Nitab4.5_0001216g0080' => 'nta', 'Nitab4.5_0004069g0040' => 'nta', 'Nitab4.5_0004129g0010' => 'nta', 'Nitab4.5_0005744g0030' => 'nta', 'Nitab4.5_0006996g0030' => 'nta', 'Nitab4.5_0008971g0040' => 'nta', 'Nitab4.5_0009769g0020' => 'nta', 'Nitab4.5_0009833g0010' => 'nta', 'Nitab4.5_0013140g0020' => 'nta', 'Nn003s41376' => 'nnu', 'Nn1g01857' => 'nnu', 'Nn1g03611' => 'nnu', 'Nn1g06853' => 'nnu', 'Nn3g18360' => 'nnu', 'Nn4g26328' => 'nnu', 'Nn5g27531' => 'nnu', 'Nn6g34899' => 'nnu', 'Nn7g36299' => 'nnu', 'Oeu021485.1' => 'oeu', 'Oeu022433.1' => 'oeu', 'Oeu032111.1' => 'oeu', 'Oeu051608.1' => 'oeu', 'Os01g0860601' => 'osa', 'Os03g0659200' => 'osa', 'Os03g0835900' => 'osa', 'Os04g0412200' => 'osa', 'Os05g0443500' => 'osa', 'Os07g0251500' => 'osa', 'Os08g0104600' => 'osa', 'Peaxi162Scf00003g00047' => 'pax', 'Peaxi162Scf00003g00052' => 'pax', 'Peaxi162Scf00003g00394' => 'pax', 'Peaxi162Scf00091g00621' => 'pax', 'Peaxi162Scf00152g00146' => 'pax', 'Peaxi162Scf00173g00025' => 'pax', 'Peaxi162Scf00195g00102' => 'pax', 'Peaxi162Scf00402g00013' => 'pax', 'Peaxi162Scf00519g00618' => 'pax', 'PGR004G2838' => 'pgr', 'PGR044G2275' => 'pgr', 'PGR102G1377' => 'pgr', 'PGR119G1245' => 'pgr', 'PGR142G4449' => 'pgr', 'PGSC0003DMG400004532' => 'stu', 'PGSC0003DMG400011950' => 'stu', 'PGSC0003DMG400023391' => 'stu', 'PGSC0003DMG400023985' => 'stu', 'PGSC0003DMG400026360' => 'stu', 'PGSC0003DMG400035711' => 'stu', 'PGSC0003DMG400037286' => 'stu', 'PGSC0003DMG402005881' => 'stu', 'Phvul.002G045400' => 'pvu', 'Phvul.006G216600' => 'pvu', 'Phvul.006G216700' => 'pvu', 'Phvul.006G216800' => 'pvu', 'Phvul.007G022500' => 'pvu', 'Phvul.011G094400' => 'pvu', 'Potri.001G470700' => 'ptr', 'Potri.003G015200' => 'ptr', 'Potri.004G202500' => 'ptr', 'Potri.004G218400' => 'ptr', 'Potri.008G020100' => 'ptr', 'Potri.008G153200' => 'ptr', 'Potri.009G163800' => 'ptr', 'Potri.010G087300' => 'ptr', 'Potri.010G239100' => 'ptr', 'Pp3c10_16100' => 'ppa', 'Pp3c10_16880' => 'ppa', 'Pp3c16_6230' => 'ppa', 'Pp3c17_18910' => 'ppa', 'Pp3c3_22119' => 'ppa', 'Pp3c3_22140' => 'ppa', 'Pp3c4_8159' => 'ppa', 'Pp3c4_8171' => 'ppa', 'Pp3c4_8330' => 'ppa', 'PRCOL_00004098' => 'pco', 'Prupe.1G013900' => 'ppe', 'Prupe.1G226300' => 'ppe', 'Prupe.1G573600' => 'ppe', 'Prupe.6G130100' => 'ppe', 'Psat3g090040' => 'psa', 'Psat4g210440' => 'psa', 'Psat6g231040' => 'psa', 'Psat6g231080' => 'psa', 'Psat7g063000' => 'psa', 'Psat7g188000' => 'psa', 'Psat7g188040' => 'psa', 'PSO017G0206' => 'pso', 'PSO170G0501' => 'pso', 'PSO170G6422' => 'pso', 'PSO210G7739' => 'pso', 'PSO339G1808' => 'pso', 'PSO339G6135' => 'pso', 'PSO384G0010' => 'pso', 'PSO384G0964' => 'pso', 'PSO761G0050' => 'pso', 'PSO782G4085' => 'pso', 'QL01p012264' => 'qlo', 'QL02p099491' => 'qlo', 'QL03p033868' => 'qlo', 'QL04p046678' => 'qlo', 'QL06p002448' => 'qlo', 'RcHm_v2.0_Chr4g0416181' => 'rch', 'RcHm_v2.0_Chr5g0044701' => 'rch', 'RcHm_v2.0_Chr6g0265781' => 'rch', 'RcHm_v2.0_Chr7g0221031' => 'rch', 'Rhsim04G0202000' => 'rsi', 'Rhsim11G0127300' => 'rsi', 'Rhsim13G0111800' => 'rsi', 'Sabra01G0165600' => 'sbr', 'Sabra03G0008300' => 'sbr', 'Sabra04G0136900' => 'sbr', 'Sabra08G0013400' => 'sbr', 'Sabra08G0116800' => 'sbr', 'Sabra09G0128000' => 'sbr', 'Sabra10G0055500' => 'sbr', 'Sabra10G0073300' => 'sbr', 'SalBow3G0385' => 'sbo', 'SalBow3G1119' => 'sbo', 'SalBow3G2005' => 'sbo', 'SalBow6G2563' => 'sbo', 'SalBow6G6386' => 'sbo', 'Sc06g0008800' => 'sci', 'Sc07g0004950' => 'sci', 'Sc09g0005340' => 'sci', 'Sc13g0004410' => 'sci', 'Sc21g0007090' => 'sci', 'Sed0009285' => 'sed', 'Sed0017583' => 'sed', 'Sed0019699' => 'sed', 'Sed0023107' => 'sed', 'SEGI_10916' => 'sgi', 'SEGI_16217' => 'sgi', 'SEGI_19466' => 'sgi', 'SEGI_41115' => 'sgi', 'SGA_v2.0_scaffold111G31534' => 'sas', 'SGA_v2.0_scaffold22G09864' => 'sas', 'SGA_v2.0_scaffold338G49219' => 'sas', 'SGA_v2.0_scaffold92G28298' => 'sas', 'SMO119G0064' => 'smo', 'SMO223G0038' => 'smo', 'SMO347G0584' => 'smo', 'SMO351G0010' => 'smo', 'SMO356G0404' => 'smo', 'Solyc01g103920.3' => 'sly', 'Solyc04g009710.2' => 'sly', 'Solyc05g055280.2' => 'sly', 'Solyc10g044520.3' => 'sly', 'Solyc10g075160.1' => 'sly', 'Solyc11g006910.3' => 'sly', 'Solyc11g068430.3' => 'sly', 'Sopen01g046310' => 'spe', 'Sopen03g001200' => 'spe', 'Sopen04g004830' => 'spe', 'Sopen05g033720' => 'spe', 'Sopen06g030740' => 'spe', 'Sopen10g013090' => 'spe', 'Sopen10g027630' => 'spe', 'Sopen10g027640' => 'spe', 'Sopen11g002820' => 'spe', 'Sopen11g027140' => 'spe', 'Sp1g09680' => 'spa', 'Sp2g03630' => 'spa', 'Sp4g10320' => 'spa', 'Sp6g33400' => 'spa', 'Sp7g13030' => 'spa', 'TAR365G0317' => 'tar', 'TAR376G0979' => 'tar', 'TAR623G1665' => 'tar', 'TAR633G2373' => 'tar', 'TAR636G1400' => 'tar', 'THA.LOC104800529' => 'tha', 'THA.LOC104808547' => 'tha', 'THA.LOC104809615' => 'tha', 'THA.LOC104815724' => 'tha', 'THA.LOC104818480' => 'tha', 'THA.LOC104819179' => 'tha', 'THA.LOC104822270' => 'tha', 'THA.LOC104826425' => 'tha', 'Thecc.02G089700' => 'tca', 'Thecc.04G232300' => 'tca', 'Thecc.09G283400' => 'tca', 'Thhalv10009020m.g' => 'esa', 'Thhalv10015506m.g' => 'esa', 'Thhalv10017364m.g' => 'esa', 'Thhalv10023742m.g' => 'esa', 'Thhalv10026483m.g' => 'esa', 'TPR.G17232' => 'tpr', 'TPR.G2133' => 'tpr', 'TPR.G2498' => 'tpr', 'TPR.G31942' => 'tpr', 'TPR.G37877' => 'tpr', 'TPR.G4571' => 'tpr', 'TWI14G1113' => 'twi', 'TWI15G0426' => 'twi', 'TWI31G1005' => 'twi', 'TWI38G0513' => 'twi', 'TWI38G1484' => 'twi', 'TWI73G1098' => 'twi', 'unitig_26.g10519' => 'ugi', 'unitig_736.g22395' => 'ugi', 'unitig_747.g21234' => 'ugi', 'unitig_747.g21942' => 'ugi', 'vmacro14351' => 'vma', 'VMungo0540G0082' => 'vmu', 'VMungo0540G0405' => 'vmu', 'VMungo0540G1486' => 'vmu', 'VMungo0540G1692' => 'vmu', 'VMungo0720G2473' => 'vmu', 'VMungo1127G1562' => 'vmu', 'VMungo1215G1918' => 'vmu', 'Zm00001eb052650' => 'zma', 'Zm00001eb063710' => 'zma', 'Zm00001eb083950' => 'zma', 'Zm00001eb174420' => 'zma', 'Zm00001eb260140' => 'zma', 'Zm00001eb260150' => 'zma', 'Zm00001eb260160' => 'zma', 'Zm00001eb348290' => 'zma', 'Zm00001eb366870' => 'zma', 'Zm00001eb421930' => 'zma' ), 'gf_id' => 'HOM05D001025', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001025' ), 'data_identifier' => 'HOM05D001025', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001025', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '592', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p22650' => 'bna', 'A01p29720' => 'bna', 'A03p26560' => 'bna', 'A03p68820' => 'bna', 'A04p20980' => 'bna', 'A06p07730' => 'bna', 'A07p18260' => 'bna', 'A08p33710' => 'bna', 'A09p16970' => 'bna', 'A10p27490' => 'bna', 'Aa31LG1G17300' => 'aar', 'Aa31LG1G3910' => 'aar', 'Aa31LG2G9630' => 'aar', 'Aa31LG5G8360' => 'aar', 'Aa31LG9G2410' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4699' => 'aag', 'Actinidia23512' => 'ach', 'Actinidia37080' => 'ach', 'Ah.01g020380' => 'amhyb', 'Ah.08g215710' => 'amhyb', 'Ah.09g225110' => 'amhyb', 'Ah.10g036680' => 'amhyb', 'AL1G21940' => 'aly', 'AL2G15540' => 'aly', 'AL4G21520' => 'aly', 'AL7G40960' => 'aly', 'Aqoxy2G01191' => 'aox', 'Aqoxy2G03393' => 'aox', 'Aqoxy4G02775' => 'aox', 'Aqoxy6G00058' => 'aox', 'arahy.Tifrunner.gnm1.ann1.9X74H2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CW3FX9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R485W7' => 'arhy', 'AT1G10960' => 'ath', 'AT1G60950' => 'ath', 'AT2G27510' => 'ath', 'AT4G14890' => 'ath', 'AT5G10000' => 'ath', 'ATR0665G624' => 'atr', 'ATR0697G138' => 'atr', 'ATR0776G046' => 'atr', 'ATR1134G135' => 'atr', 'Atru.chr12.1025' => 'acertr', 'Atru.chr3.3241' => 'acertr', 'Atru.chr4.2460' => 'acertr', 'AUR62007427' => 'cqu', 'AUR62010960' => 'cqu', 'AUR62012201' => 'cqu', 'AUR62021470' => 'cqu', 'AUR62022834' => 'cqu', 'AUR62033635' => 'cqu', 'AUR62036186' => 'cqu', 'BcaB01g03077' => 'bca', 'BcaB02g10093' => 'bca', 'BcaB04g20295' => 'bca', 'BcaB06g28147' => 'bca', 'BcaB07g31253' => 'bca', 'BcaC01g04946' => 'bca', 'BcaC02g10614' => 'bca', 'BcaC02g10885' => 'bca', 'BcaC04g19356' => 'bca', 'BcaC04g22297' => 'bca', 'BcaC05g24977' => 'bca', 'BcaC06g31823' => 'bca', 'BcaC07g38633' => 'bca', 'BcaC09g49353' => 'bca', 'BcaC09g50168' => 'bca', 'BcaNung00322' => 'bca', 'BcaNung04769' => 'bca', 'BolC1t02753H' => 'bol', 'BolC1t03721H' => 'bol', 'BolC3t15525H' => 'bol', 'BolC4t23903H' => 'bol', 'BolC4t24231H' => 'bol', 'BolC4t27209H' => 'bol', 'BolC5t29671H' => 'bol', 'BolC8t49044H' => 'bol', 'BolC9t54999H' => 'bol', 'BolC9t59517H' => 'bol', 'BraA01t02178Z' => 'bra', 'BraA01t03099Z' => 'bra', 'BraA03t11867Z' => 'bra', 'BraA04t17667Z' => 'bra', 'BraA07t29542Z' => 'bra', 'BraA08t35287Z' => 'bra', 'BraA09t37334Z' => 'bra', 'BraA10t44801Z' => 'bra', 'BraSC39t46181Z' => 'bra', 'C01p28240' => 'bna', 'C01p37530' => 'bna', 'C03p31820' => 'bna', 'C04p24080' => 'bna', 'C04p25790' => 'bna', 'C04p56770' => 'bna', 'C05p09310' => 'bna', 'C09p21010' => 'bna', 'C09p67560' => 'bna', 'CAN.G1324.7' => 'can', 'CAN.G1358.10' => 'can', 'CAN.G1550.2' => 'can', 'CAN.G186.56' => 'can', 'CAN.G1965.1' => 'can', 'CAN.G645.15' => 'can', 'CAN.G798.26' => 'can', 'CAN.G798.27' => 'can', 'CAN.G798.29' => 'can', 'CAN.G919.31' => 'can', 'CANSAT11G0133' => 'cansat', 'CANSAT11G1171' => 'cansat', 'CANSAT11G2056' => 'cansat', 'CANSAT56G1202' => 'cansat', 'CANSAT56G1514' => 'cansat', 'CANSAT78G0455' => 'cansat', 'CARHR011190' => 'chi', 'CARHR051980' => 'chi', 'CARHR120170' => 'chi', 'CARHR203310' => 'chi', 'CARHR221490' => 'chi', 'Carub.0001s1054' => 'cru', 'Carub.0002s0431' => 'cru', 'Carub.0004s0818' => 'cru', 'Carub.0006s0846' => 'cru', 'Carub.0007s2722' => 'cru', 'Ca_00058_v3' => 'car', 'Ca_17831_v3' => 'car', 'Ca_19408_v3' => 'car', 'Ca_24397_v3' => 'car', 'Ca_25664_v3' => 'car', 'CBR_g21818' => 'cbr', 'CBR_g31195' => 'cbr', 'CBR_g32282' => 'cbr', 'CBR_g39599' => 'cbr', 'CBR_g49410' => 'cbr', 'Cc01_g09120' => 'ccan', 'Cc01_g09130' => 'ccan', 'Cc02_g09630' => 'ccan', 'Cc02_g22810' => 'ccan', 'Cc03_g03810' => 'ccan', 'CDE02G3718' => 'cde', 'CDE04G3183' => 'cde', 'CDE07G1046' => 'cde', 'CDE08G0480' => 'cde', 'Cfa005493' => 'cfa', 'Cfa010312' => 'cfa', 'Cfa015648' => 'cfa', 'Ciclev10002793m.g' => 'ccl', 'Ciclev10003356m.g' => 'ccl', 'Ciclev10006141m.g' => 'ccl', 'Ciclev10016676m.g' => 'ccl', 'Ciclev10017081m.g' => 'ccl', 'Ciclev10029499m.g' => 'ccl', 'CiPaw.01G166300' => 'cil', 'CiPaw.06G145600' => 'cil', 'CiPaw.13G040100' => 'cil', 'CiPaw.13G135800' => 'cil', 'ClCG01G012230' => 'cla', 'ClCG05G009510' => 'cla', 'ClCG08G008270' => 'cla', 'COL.COLO4_11763' => 'col', 'COL.COLO4_19876' => 'col', 'COL.COLO4_21481' => 'col', 'Cpa.g.sc118.34' => 'cpa', 'Cpa.g.sc32.13' => 'cpa', 'Cpa.g.sc58.103' => 'cpa', 'Cre03.g183850' => 'cre', 'Cre06.g306350' => 'cre', 'Cre07.g334800' => 'cre', 'Cre12.g487900' => 'cre', 'Cre14.g626700' => 'cre', 'Cre16.g658400' => 'cre', 'Cre17.g700950' => 'cre', 'CsaV3_1G014830' => 'csa', 'CsaV3_3G013320' => 'csa', 'CsaV3_3G019210' => 'csa', 'CsaV3_3G019220' => 'csa', 'CsaV3_6G004230' => 'csa', 'CSS0003773' => 'camsi', 'CSS0004563' => 'camsi', 'CSS0013949' => 'camsi', 'CSS0025971' => 'camsi', 'CSS0028570' => 'camsi', 'CSS0033127' => 'camsi', 'CSS0036051' => 'camsi', 'CSS0040087' => 'camsi', 'CSS0043179' => 'camsi', 'DCAR_006161' => 'dca', 'DCAR_010351' => 'dca', 'DCAR_012197' => 'dca', 'DCAR_024162' => 'dca', 'Dinv01030' => 'din', 'Dinv10924' => 'din', 'Dinv11835' => 'din', 'Dinv22841' => 'din', 'Dinv42553' => 'din', 'Duzib052G0560' => 'dzi', 'Duzib132G0389' => 'dzi', 'Duzib150G1181' => 'dzi', 'Duzib168G0623' => 'dzi', 'Duzib170G1036' => 'dzi', 'Duzib212G0200' => 'dzi', 'Duzib248G0194' => 'dzi', 'ECA232G2193' => 'eca', 'ECA233G0302' => 'eca', 'ECA234G2813' => 'eca', 'ECA234G4866' => 'eca', 'ECA240G3932' => 'eca', 'ECA248G0385' => 'eca', 'EL10Ac2g04781' => 'bvu', 'EL10Ac3g06445' => 'bvu', 'EL10Ac7g15825' => 'bvu', 'EL10Ac8g18550' => 'bvu', 'Eucgr.B03849' => 'egr', 'Eucgr.I02744' => 'egr', 'Eucgr.J00264' => 'egr', 'Eucgr.J00493' => 'egr', 'FAN04G2181' => 'fan', 'FAN07G2666' => 'fan', 'FAN11G0024' => 'fan', 'FAN12G1105' => 'fan', 'FAN13G0302' => 'fan', 'FAN15G2781' => 'fan', 'FAN16G1274' => 'fan', 'FAN17G2988' => 'fan', 'FAN18G2621' => 'fan', 'FAN21G0013' => 'fan', 'FAN22G1211' => 'fan', 'FAN25G3626' => 'fan', 'FvH4_2g09491' => 'fve', 'FvH4_3g24910' => 'fve', 'FvH4_4g15630' => 'fve', 'FvH4_5g28820' => 'fve', 'Glyma.01G238000' => 'gma', 'Glyma.05G168400' => 'gma', 'Glyma.08G126800' => 'gma', 'Glyma.08G188500' => 'gma', 'Glyma.10G278900' => 'gma', 'Glyma.11G005700' => 'gma', 'Glyma.11G183300' => 'gma', 'Glyma.12G089200' => 'gma', 'Glyma.12G169400' => 'gma', 'Glyma.12G169500' => 'gma', 'Glyma.12G169600' => 'gma', 'Glyma.20G110800' => 'gma', 'Gohir.A03G192900' => 'ghi', 'Gohir.A03G193000' => 'ghi', 'Gohir.A05G080700' => 'ghi', 'Gohir.A09G216000' => 'ghi', 'Gohir.A12G027700' => 'ghi', 'Gohir.A13G036200' => 'ghi', 'Gohir.A13G222600' => 'ghi', 'Gohir.D02G213900' => 'ghi', 'Gohir.D02G214000' => 'ghi', 'Gohir.D05G083700' => 'ghi', 'Gohir.D05G083800' => 'ghi', 'Gohir.D05G083850' => 'ghi', 'Gohir.D08G015400' => 'ghi', 'Gohir.D09G218400' => 'ghi', 'Gohir.D12G027100' => 'ghi', 'Gohir.D13G034500' => 'ghi', 'Gohir.D13G227400' => 'ghi', 'Gorai.005G241800' => 'gra', 'Gorai.005G241900' => 'gra', 'Gorai.006G239400' => 'gra', 'Gorai.008G027600' => 'gra', 'Gorai.009G085400' => 'gra', 'Gorai.009G085500' => 'gra', 'Gorai.013G039000' => 'gra', 'Gorai.013G194800' => 'gra', 'Gorai.013G257900' => 'gra', 'GSVIVG01000982001' => 'vvi', 'GSVIVG01017981001' => 'vvi', 'HanXRQChr01g0024061' => 'han', 'HanXRQChr09g0247831' => 'han', 'HanXRQChr10g0294611' => 'han', 'HanXRQChr10g0294621' => 'han', 'HanXRQChr11g0346821' => 'han', 'HanXRQChr13g0397461' => 'han', 'HanXRQChr16g0513651' => 'han', 'HanXRQChr16g0513701' => 'han', 'Haze_00897' => 'cav', 'Haze_01745' => 'cav', 'Haze_02486' => 'cav', 'Haze_02487' => 'cav', 'Haze_23374' => 'cav', 'Hma1.2p1_0578F.1_g182520' => 'hma', 'Hma1.2p1_0602F.1_g187350' => 'hma', 'Hma1.2p1_0602F.1_g187360' => 'hma', 'Hma1.2p1_0874F.1_g231320' => 'hma', 'Hma1.2p1_1197F.1_g266210' => 'hma', 'Hma1.2p1_1197F.1_g266220' => 'hma', 'Hma1.2p1_2167F.1_g315895' => 'hma', 'Hma1.2p1_2190F.1_g316640' => 'hma', 'Hma1.2p1_3645F.1_g337153' => 'hma', 'HPP92_004907' => 'vpl', 'HPP92_012134' => 'vpl', 'HPP92_025136' => 'vpl', 'HPP92_026087' => 'vpl', 'Hund06782' => 'sun', 'Hund06784' => 'sun', 'Lalb_Chr01g0004861' => 'lal', 'Lalb_Chr02g0140591' => 'lal', 'Lalb_Chr02g0140611' => 'lal', 'Lalb_Chr03g0028101' => 'lal', 'Lalb_Chr07g0185791' => 'lal', 'Lalb_Chr12g0204491' => 'lal', 'Lalb_Chr13g0295671' => 'lal', 'Lalb_Chr19g0136461' => 'lal', 'Lalb_Chr21g0309191' => 'lal', 'Lj1g0028158' => 'lja', 'Lj1P236T38' => 'lonja', 'Lj2C32G2' => 'lonja', 'Lj2P944T8' => 'lonja', 'Lj2P963T15' => 'lonja', 'Lj3g0011788' => 'lja', 'Lj4g0025027' => 'lja', 'Lj5P255T36' => 'lonja', 'Lj6g0018866' => 'lja', 'Lj6P608T31' => 'lonja', 'LjContig00408g0008879' => 'lja', 'Lsat_1_v5_gn_5_105820' => 'lsa', 'Lsat_1_v5_gn_6_38800' => 'lsa', 'Lsat_1_v5_gn_7_67141' => 'lsa', 'Manes.04G003400' => 'mes', 'Manes.07G020000' => 'mes', 'Manes.07G020100' => 'mes', 'Manes.07G020150' => 'mes', 'Manes.10G061500' => 'mes', 'Manes.10G123200' => 'mes', 'Manes.11G161900' => 'mes', 'Manes.15G029300' => 'mes', 'Mapoly0071s0018' => 'mpo', 'Mapoly0082s0023' => 'mpo', 'Mapoly3477s0001' => 'mpo', 'MBI05_g31233_MAGBIO' => 'mbi', 'MBI09_g05946_MAGBIO' => 'mbi', 'MBI09_g05947_MAGBIO' => 'mbi', 'MBI17_g08346_MAGBIO' => 'mbi', 'MCO04G038' => 'mco', 'MCO09G370' => 'mco', 'MCO13G605' => 'mco', 'MD00G1075500' => 'mdo', 'MD03G1144300' => 'mdo', 'MD08G1236800' => 'mdo', 'MD13G1193300' => 'mdo', 'MD15G1428700' => 'mdo', 'Medtr1g112030' => 'mtr', 'Medtr1g112050' => 'mtr', 'Medtr2g006290' => 'mtr', 'Medtr2g086510' => 'mtr', 'Medtr4g053120' => 'mtr', 'Medtr5g006320' => 'mtr', 'Medtr8g088720' => 'mtr', 'MELO3C004712.2' => 'cme', 'MELO3C006533.2' => 'cme', 'MELO3C019438.2' => 'cme', 'MELO3C019440.2' => 'cme', 'MELO3C019441.2' => 'cme', 'MELO3C019895.2' => 'cme', 'Migut.B00811' => 'egut', 'Migut.D02447' => 'egut', 'Migut.F00875' => 'egut', 'Migut.N00186' => 'egut', 'Migut.N01051' => 'egut', 'Migut.N02491' => 'egut', 'Migut.O00784' => 'egut', 'MSTRG.12367' => 'ama', 'MSTRG.18756' => 'ama', 'MSTRG.21042' => 'ama', 'Nitab4.5_0000559g0040' => 'nta', 'Nitab4.5_0000667g0190' => 'nta', 'Nitab4.5_0000755g0160' => 'nta', 'Nitab4.5_0001216g0080' => 'nta', 'Nitab4.5_0004069g0040' => 'nta', 'Nitab4.5_0004129g0010' => 'nta', 'Nitab4.5_0005744g0030' => 'nta', 'Nitab4.5_0006996g0030' => 'nta', 'Nitab4.5_0008971g0040' => 'nta', 'Nitab4.5_0009769g0020' => 'nta', 'Nitab4.5_0009833g0010' => 'nta', 'Nitab4.5_0013140g0020' => 'nta', 'Nn003s41376' => 'nnu', 'Nn1g01857' => 'nnu', 'Nn1g03611' => 'nnu', 'Nn1g06853' => 'nnu', 'Nn3g18360' => 'nnu', 'Nn4g26328' => 'nnu', 'Nn5g27531' => 'nnu', 'Nn6g34899' => 'nnu', 'Nn7g36299' => 'nnu', 'Oeu021485.1' => 'oeu', 'Oeu022433.1' => 'oeu', 'Oeu032111.1' => 'oeu', 'Oeu051608.1' => 'oeu', 'Os01g0860601' => 'osa', 'Os03g0659200' => 'osa', 'Os03g0835900' => 'osa', 'Os04g0412200' => 'osa', 'Os05g0443500' => 'osa', 'Os07g0251500' => 'osa', 'Os08g0104600' => 'osa', 'Peaxi162Scf00003g00047' => 'pax', 'Peaxi162Scf00003g00052' => 'pax', 'Peaxi162Scf00003g00394' => 'pax', 'Peaxi162Scf00091g00621' => 'pax', 'Peaxi162Scf00152g00146' => 'pax', 'Peaxi162Scf00173g00025' => 'pax', 'Peaxi162Scf00195g00102' => 'pax', 'Peaxi162Scf00402g00013' => 'pax', 'Peaxi162Scf00519g00618' => 'pax', 'PGR004G2838' => 'pgr', 'PGR044G2275' => 'pgr', 'PGR102G1377' => 'pgr', 'PGR119G1245' => 'pgr', 'PGR142G4449' => 'pgr', 'PGSC0003DMG400004532' => 'stu', 'PGSC0003DMG400011950' => 'stu', 'PGSC0003DMG400023391' => 'stu', 'PGSC0003DMG400023985' => 'stu', 'PGSC0003DMG400026360' => 'stu', 'PGSC0003DMG400035711' => 'stu', 'PGSC0003DMG400037286' => 'stu', 'PGSC0003DMG402005881' => 'stu', 'Phvul.002G045400' => 'pvu', 'Phvul.006G216600' => 'pvu', 'Phvul.006G216700' => 'pvu', 'Phvul.006G216800' => 'pvu', 'Phvul.007G022500' => 'pvu', 'Phvul.011G094400' => 'pvu', 'Potri.001G470700' => 'ptr', 'Potri.003G015200' => 'ptr', 'Potri.004G202500' => 'ptr', 'Potri.004G218400' => 'ptr', 'Potri.008G020100' => 'ptr', 'Potri.008G153200' => 'ptr', 'Potri.009G163800' => 'ptr', 'Potri.010G087300' => 'ptr', 'Potri.010G239100' => 'ptr', 'Pp3c10_16100' => 'ppa', 'Pp3c10_16880' => 'ppa', 'Pp3c16_6230' => 'ppa', 'Pp3c17_18910' => 'ppa', 'Pp3c3_22119' => 'ppa', 'Pp3c3_22140' => 'ppa', 'Pp3c4_8159' => 'ppa', 'Pp3c4_8171' => 'ppa', 'Pp3c4_8330' => 'ppa', 'PRCOL_00004098' => 'pco', 'Prupe.1G013900' => 'ppe', 'Prupe.1G226300' => 'ppe', 'Prupe.1G573600' => 'ppe', 'Prupe.6G130100' => 'ppe', 'Psat3g090040' => 'psa', 'Psat4g210440' => 'psa', 'Psat6g231040' => 'psa', 'Psat6g231080' => 'psa', 'Psat7g063000' => 'psa', 'Psat7g188000' => 'psa', 'Psat7g188040' => 'psa', 'PSO017G0206' => 'pso', 'PSO170G0501' => 'pso', 'PSO170G6422' => 'pso', 'PSO210G7739' => 'pso', 'PSO339G1808' => 'pso', 'PSO339G6135' => 'pso', 'PSO384G0010' => 'pso', 'PSO384G0964' => 'pso', 'PSO761G0050' => 'pso', 'PSO782G4085' => 'pso', 'QL01p012264' => 'qlo', 'QL02p099491' => 'qlo', 'QL03p033868' => 'qlo', 'QL04p046678' => 'qlo', 'QL06p002448' => 'qlo', 'RcHm_v2.0_Chr4g0416181' => 'rch', 'RcHm_v2.0_Chr5g0044701' => 'rch', 'RcHm_v2.0_Chr6g0265781' => 'rch', 'RcHm_v2.0_Chr7g0221031' => 'rch', 'Rhsim04G0202000' => 'rsi', 'Rhsim11G0127300' => 'rsi', 'Rhsim13G0111800' => 'rsi', 'Sabra01G0165600' => 'sbr', 'Sabra03G0008300' => 'sbr', 'Sabra04G0136900' => 'sbr', 'Sabra08G0013400' => 'sbr', 'Sabra08G0116800' => 'sbr', 'Sabra09G0128000' => 'sbr', 'Sabra10G0055500' => 'sbr', 'Sabra10G0073300' => 'sbr', 'SalBow3G0385' => 'sbo', 'SalBow3G1119' => 'sbo', 'SalBow3G2005' => 'sbo', 'SalBow6G2563' => 'sbo', 'SalBow6G6386' => 'sbo', 'Sc06g0008800' => 'sci', 'Sc07g0004950' => 'sci', 'Sc09g0005340' => 'sci', 'Sc13g0004410' => 'sci', 'Sc21g0007090' => 'sci', 'Sed0009285' => 'sed', 'Sed0017583' => 'sed', 'Sed0019699' => 'sed', 'Sed0023107' => 'sed', 'SEGI_10916' => 'sgi', 'SEGI_16217' => 'sgi', 'SEGI_19466' => 'sgi', 'SEGI_41115' => 'sgi', 'SGA_v2.0_scaffold111G31534' => 'sas', 'SGA_v2.0_scaffold22G09864' => 'sas', 'SGA_v2.0_scaffold338G49219' => 'sas', 'SGA_v2.0_scaffold92G28298' => 'sas', 'SMO119G0064' => 'smo', 'SMO223G0038' => 'smo', 'SMO347G0584' => 'smo', 'SMO351G0010' => 'smo', 'SMO356G0404' => 'smo', 'Solyc01g103920.3' => 'sly', 'Solyc04g009710.2' => 'sly', 'Solyc05g055280.2' => 'sly', 'Solyc10g044520.3' => 'sly', 'Solyc10g075160.1' => 'sly', 'Solyc11g006910.3' => 'sly', 'Solyc11g068430.3' => 'sly', 'Sopen01g046310' => 'spe', 'Sopen03g001200' => 'spe', 'Sopen04g004830' => 'spe', 'Sopen05g033720' => 'spe', 'Sopen06g030740' => 'spe', 'Sopen10g013090' => 'spe', 'Sopen10g027630' => 'spe', 'Sopen10g027640' => 'spe', 'Sopen11g002820' => 'spe', 'Sopen11g027140' => 'spe', 'Sp1g09680' => 'spa', 'Sp2g03630' => 'spa', 'Sp4g10320' => 'spa', 'Sp6g33400' => 'spa', 'Sp7g13030' => 'spa', 'TAR365G0317' => 'tar', 'TAR376G0979' => 'tar', 'TAR623G1665' => 'tar', 'TAR633G2373' => 'tar', 'TAR636G1400' => 'tar', 'THA.LOC104800529' => 'tha', 'THA.LOC104808547' => 'tha', 'THA.LOC104809615' => 'tha', 'THA.LOC104815724' => 'tha', 'THA.LOC104818480' => 'tha', 'THA.LOC104819179' => 'tha', 'THA.LOC104822270' => 'tha', 'THA.LOC104826425' => 'tha', 'Thecc.02G089700' => 'tca', 'Thecc.04G232300' => 'tca', 'Thecc.09G283400' => 'tca', 'Thhalv10009020m.g' => 'esa', 'Thhalv10015506m.g' => 'esa', 'Thhalv10017364m.g' => 'esa', 'Thhalv10023742m.g' => 'esa', 'Thhalv10026483m.g' => 'esa', 'TPR.G17232' => 'tpr', 'TPR.G2133' => 'tpr', 'TPR.G2498' => 'tpr', 'TPR.G31942' => 'tpr', 'TPR.G37877' => 'tpr', 'TPR.G4571' => 'tpr', 'TWI14G1113' => 'twi', 'TWI15G0426' => 'twi', 'TWI31G1005' => 'twi', 'TWI38G0513' => 'twi', 'TWI38G1484' => 'twi', 'TWI73G1098' => 'twi', 'unitig_26.g10519' => 'ugi', 'unitig_736.g22395' => 'ugi', 'unitig_747.g21234' => 'ugi', 'unitig_747.g21942' => 'ugi', 'vmacro14351' => 'vma', 'VMungo0540G0082' => 'vmu', 'VMungo0540G0405' => 'vmu', 'VMungo0540G1486' => 'vmu', 'VMungo0540G1692' => 'vmu', 'VMungo0720G2473' => 'vmu', 'VMungo1127G1562' => 'vmu', 'VMungo1215G1918' => 'vmu', 'Zm00001eb052650' => 'zma', 'Zm00001eb063710' => 'zma', 'Zm00001eb083950' => 'zma', 'Zm00001eb174420' => 'zma', 'Zm00001eb260140' => 'zma', 'Zm00001eb260150' => 'zma', 'Zm00001eb260160' => 'zma', 'Zm00001eb348290' => 'zma', 'Zm00001eb366870' => 'zma', 'Zm00001eb421930' => 'zma' ) $gf_id = 'HOM05D001025' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001025' ) $data_identifier = 'HOM05D001025' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 19, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 2, 'amhyb' => (int) 4, 'aly' => (int) 4, 'aox' => (int) 4, 'arhy' => (int) 3, 'ath' => (int) 5, 'atr' => (int) 4, 'acertr' => (int) 3, 'cqu' => (int) 7, 'bca' => (int) 17, 'bol' => (int) 10, 'bra' => (int) 9, 'can' => (int) 10, 'cansat' => (int) 6, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 5, 'cbr' => (int) 5, 'ccan' => (int) 5, 'cde' => (int) 4, 'cfa' => (int) 3, 'ccl' => (int) 6, 'cil' => (int) 4, 'cla' => (int) 3, 'col' => (int) 3, 'cpa' => (int) 3, 'cre' => (int) 7, 'csa' => (int) 5, 'camsi' => (int) 9, 'dca' => (int) 4, 'din' => (int) 5, 'dzi' => (int) 7, 'eca' => (int) 6, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 12, 'fve' => (int) 4, 'gma' => (int) 12, 'ghi' => (int) 17, 'gra' => (int) 9, 'vvi' => (int) 2, 'han' => (int) 8, 'cav' => (int) 5, 'hma' => (int) 9, 'vpl' => (int) 4, 'sun' => (int) 2, 'lal' => (int) 9, 'lja' => (int) 5, 'lonja' => (int) 6, 'lsa' => (int) 3, 'mes' => (int) 8, 'mpo' => (int) 3, 'mbi' => (int) 4, 'mco' => (int) 3, 'mdo' => (int) 5, 'mtr' => (int) 7, 'cme' => (int) 6, 'egut' => (int) 7, 'ama' => (int) 3, 'nta' => (int) 12, 'nnu' => (int) 9, 'oeu' => (int) 4, 'osa' => (int) 7, 'pax' => (int) 9, 'pgr' => (int) 5, 'stu' => (int) 8, 'pvu' => (int) 6, 'ptr' => (int) 9, 'ppa' => (int) 9, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 7, 'pso' => (int) 10, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 3, 'sbr' => (int) 8, 'sbo' => (int) 5, 'sci' => (int) 5, 'sed' => (int) 4, 'sgi' => (int) 4, 'sas' => (int) 4, 'smo' => (int) 5, 'sly' => (int) 7, 'spe' => (int) 10, 'spa' => (int) 5, 'tar' => (int) 5, 'tha' => (int) 8, 'tca' => (int) 3, 'esa' => (int) 5, 'tpr' => (int) 6, 'twi' => (int) 6, 'ugi' => (int) 4, 'vma' => (int) 1, 'vmu' => (int) 7, 'zma' => (int) 10 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb421930' $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' => 'HOM05D001025', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '592', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p22650' => 'bna', 'A01p29720' => 'bna', 'A03p26560' => 'bna', 'A03p68820' => 'bna', 'A04p20980' => 'bna', 'A06p07730' => 'bna', 'A07p18260' => 'bna', 'A08p33710' => 'bna', 'A09p16970' => 'bna', 'A10p27490' => 'bna', 'Aa31LG1G17300' => 'aar', 'Aa31LG1G3910' => 'aar', 'Aa31LG2G9630' => 'aar', 'Aa31LG5G8360' => 'aar', 'Aa31LG9G2410' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4699' => 'aag', 'Actinidia23512' => 'ach', 'Actinidia37080' => 'ach', 'Ah.01g020380' => 'amhyb', 'Ah.08g215710' => 'amhyb', 'Ah.09g225110' => 'amhyb', 'Ah.10g036680' => 'amhyb', 'AL1G21940' => 'aly', 'AL2G15540' => 'aly', 'AL4G21520' => 'aly', 'AL7G40960' => 'aly', 'Aqoxy2G01191' => 'aox', 'Aqoxy2G03393' => 'aox', 'Aqoxy4G02775' => 'aox', 'Aqoxy6G00058' => 'aox', 'arahy.Tifrunner.gnm1.ann1.9X74H2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CW3FX9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R485W7' => 'arhy', 'AT1G10960' => 'ath', 'AT1G60950' => 'ath', 'AT2G27510' => 'ath', 'AT4G14890' => 'ath', 'AT5G10000' => 'ath', 'ATR0665G624' => 'atr', 'ATR0697G138' => 'atr', 'ATR0776G046' => 'atr', 'ATR1134G135' => 'atr', 'Atru.chr12.1025' => 'acertr', 'Atru.chr3.3241' => 'acertr', 'Atru.chr4.2460' => 'acertr', 'AUR62007427' => 'cqu', 'AUR62010960' => 'cqu', 'AUR62012201' => 'cqu', 'AUR62021470' => 'cqu', 'AUR62022834' => 'cqu', 'AUR62033635' => 'cqu', 'AUR62036186' => 'cqu', 'BcaB01g03077' => 'bca', 'BcaB02g10093' => 'bca', 'BcaB04g20295' => 'bca', 'BcaB06g28147' => 'bca', 'BcaB07g31253' => 'bca', 'BcaC01g04946' => 'bca', 'BcaC02g10614' => 'bca', 'BcaC02g10885' => 'bca', 'BcaC04g19356' => 'bca', 'BcaC04g22297' => 'bca', 'BcaC05g24977' => 'bca', 'BcaC06g31823' => 'bca', 'BcaC07g38633' => 'bca', 'BcaC09g49353' => 'bca', 'BcaC09g50168' => 'bca', 'BcaNung00322' => 'bca', 'BcaNung04769' => 'bca', 'BolC1t02753H' => 'bol', 'BolC1t03721H' => 'bol', 'BolC3t15525H' => 'bol', 'BolC4t23903H' => 'bol', 'BolC4t24231H' => 'bol', 'BolC4t27209H' => 'bol', 'BolC5t29671H' => 'bol', 'BolC8t49044H' => 'bol', 'BolC9t54999H' => 'bol', 'BolC9t59517H' => 'bol', 'BraA01t02178Z' => 'bra', 'BraA01t03099Z' => 'bra', 'BraA03t11867Z' => 'bra', 'BraA04t17667Z' => 'bra', 'BraA07t29542Z' => 'bra', 'BraA08t35287Z' => 'bra', 'BraA09t37334Z' => 'bra', 'BraA10t44801Z' => 'bra', 'BraSC39t46181Z' => 'bra', 'C01p28240' => 'bna', 'C01p37530' => 'bna', 'C03p31820' => 'bna', 'C04p24080' => 'bna', 'C04p25790' => 'bna', 'C04p56770' => 'bna', 'C05p09310' => 'bna', 'C09p21010' => 'bna', 'C09p67560' => 'bna', 'CAN.G1324.7' => 'can', 'CAN.G1358.10' => 'can', 'CAN.G1550.2' => 'can', 'CAN.G186.56' => 'can', 'CAN.G1965.1' => 'can', 'CAN.G645.15' => 'can', 'CAN.G798.26' => 'can', 'CAN.G798.27' => 'can', 'CAN.G798.29' => 'can', 'CAN.G919.31' => 'can', 'CANSAT11G0133' => 'cansat', 'CANSAT11G1171' => 'cansat', 'CANSAT11G2056' => 'cansat', 'CANSAT56G1202' => 'cansat', 'CANSAT56G1514' => 'cansat', 'CANSAT78G0455' => 'cansat', 'CARHR011190' => 'chi', 'CARHR051980' => 'chi', 'CARHR120170' => 'chi', 'CARHR203310' => 'chi', 'CARHR221490' => 'chi', 'Carub.0001s1054' => 'cru', 'Carub.0002s0431' => 'cru', 'Carub.0004s0818' => 'cru', 'Carub.0006s0846' => 'cru', 'Carub.0007s2722' => 'cru', 'Ca_00058_v3' => 'car', 'Ca_17831_v3' => 'car', 'Ca_19408_v3' => 'car', 'Ca_24397_v3' => 'car', 'Ca_25664_v3' => 'car', 'CBR_g21818' => 'cbr', 'CBR_g31195' => 'cbr', 'CBR_g32282' => 'cbr', 'CBR_g39599' => 'cbr', 'CBR_g49410' => 'cbr', 'Cc01_g09120' => 'ccan', 'Cc01_g09130' => 'ccan', 'Cc02_g09630' => 'ccan', 'Cc02_g22810' => 'ccan', 'Cc03_g03810' => 'ccan', 'CDE02G3718' => 'cde', 'CDE04G3183' => 'cde', 'CDE07G1046' => 'cde', 'CDE08G0480' => 'cde', 'Cfa005493' => 'cfa', 'Cfa010312' => 'cfa', 'Cfa015648' => 'cfa', 'Ciclev10002793m.g' => 'ccl', 'Ciclev10003356m.g' => 'ccl', 'Ciclev10006141m.g' => 'ccl', 'Ciclev10016676m.g' => 'ccl', 'Ciclev10017081m.g' => 'ccl', 'Ciclev10029499m.g' => 'ccl', 'CiPaw.01G166300' => 'cil', 'CiPaw.06G145600' => 'cil', 'CiPaw.13G040100' => 'cil', 'CiPaw.13G135800' => 'cil', 'ClCG01G012230' => 'cla', 'ClCG05G009510' => 'cla', 'ClCG08G008270' => 'cla', 'COL.COLO4_11763' => 'col', 'COL.COLO4_19876' => 'col', 'COL.COLO4_21481' => 'col', 'Cpa.g.sc118.34' => 'cpa', 'Cpa.g.sc32.13' => 'cpa', 'Cpa.g.sc58.103' => 'cpa', 'Cre03.g183850' => 'cre', 'Cre06.g306350' => 'cre', 'Cre07.g334800' => 'cre', 'Cre12.g487900' => 'cre', 'Cre14.g626700' => 'cre', 'Cre16.g658400' => 'cre', 'Cre17.g700950' => 'cre', 'CsaV3_1G014830' => 'csa', 'CsaV3_3G013320' => 'csa', 'CsaV3_3G019210' => 'csa', 'CsaV3_3G019220' => 'csa', 'CsaV3_6G004230' => 'csa', 'CSS0003773' => 'camsi', 'CSS0004563' => 'camsi', 'CSS0013949' => 'camsi', 'CSS0025971' => 'camsi', 'CSS0028570' => 'camsi', 'CSS0033127' => 'camsi', 'CSS0036051' => 'camsi', 'CSS0040087' => 'camsi', 'CSS0043179' => 'camsi', 'DCAR_006161' => 'dca', 'DCAR_010351' => 'dca', 'DCAR_012197' => 'dca', 'DCAR_024162' => 'dca', 'Dinv01030' => 'din', 'Dinv10924' => 'din', 'Dinv11835' => 'din', 'Dinv22841' => 'din', 'Dinv42553' => 'din', 'Duzib052G0560' => 'dzi', 'Duzib132G0389' => 'dzi', 'Duzib150G1181' => 'dzi', 'Duzib168G0623' => 'dzi', 'Duzib170G1036' => 'dzi', 'Duzib212G0200' => 'dzi', 'Duzib248G0194' => 'dzi', 'ECA232G2193' => 'eca', 'ECA233G0302' => 'eca', 'ECA234G2813' => 'eca', 'ECA234G4866' => 'eca', 'ECA240G3932' => 'eca', 'ECA248G0385' => 'eca', 'EL10Ac2g04781' => 'bvu', 'EL10Ac3g06445' => 'bvu', 'EL10Ac7g15825' => 'bvu', 'EL10Ac8g18550' => 'bvu', 'Eucgr.B03849' => 'egr', 'Eucgr.I02744' => 'egr', 'Eucgr.J00264' => 'egr', 'Eucgr.J00493' => 'egr', 'FAN04G2181' => 'fan', 'FAN07G2666' => 'fan', 'FAN11G0024' => 'fan', 'FAN12G1105' => 'fan', 'FAN13G0302' => 'fan', 'FAN15G2781' => 'fan', 'FAN16G1274' => 'fan', 'FAN17G2988' => 'fan', 'FAN18G2621' => 'fan', 'FAN21G0013' => 'fan', 'FAN22G1211' => 'fan', 'FAN25G3626' => 'fan', 'FvH4_2g09491' => 'fve', 'FvH4_3g24910' => 'fve', 'FvH4_4g15630' => 'fve', 'FvH4_5g28820' => 'fve', 'Glyma.01G238000' => 'gma', 'Glyma.05G168400' => 'gma', 'Glyma.08G126800' => 'gma', 'Glyma.08G188500' => 'gma', 'Glyma.10G278900' => 'gma', 'Glyma.11G005700' => 'gma', 'Glyma.11G183300' => 'gma', 'Glyma.12G089200' => 'gma', 'Glyma.12G169400' => 'gma', 'Glyma.12G169500' => 'gma', 'Glyma.12G169600' => 'gma', 'Glyma.20G110800' => 'gma', 'Gohir.A03G192900' => 'ghi', 'Gohir.A03G193000' => 'ghi', 'Gohir.A05G080700' => 'ghi', 'Gohir.A09G216000' => 'ghi', 'Gohir.A12G027700' => 'ghi', 'Gohir.A13G036200' => 'ghi', 'Gohir.A13G222600' => 'ghi', 'Gohir.D02G213900' => 'ghi', 'Gohir.D02G214000' => 'ghi', 'Gohir.D05G083700' => 'ghi', 'Gohir.D05G083800' => 'ghi', 'Gohir.D05G083850' => 'ghi', 'Gohir.D08G015400' => 'ghi', 'Gohir.D09G218400' => 'ghi', 'Gohir.D12G027100' => 'ghi', 'Gohir.D13G034500' => 'ghi', 'Gohir.D13G227400' => 'ghi', 'Gorai.005G241800' => 'gra', 'Gorai.005G241900' => 'gra', 'Gorai.006G239400' => 'gra', 'Gorai.008G027600' => 'gra', 'Gorai.009G085400' => 'gra', 'Gorai.009G085500' => 'gra', 'Gorai.013G039000' => 'gra', 'Gorai.013G194800' => 'gra', 'Gorai.013G257900' => 'gra', 'GSVIVG01000982001' => 'vvi', 'GSVIVG01017981001' => 'vvi', 'HanXRQChr01g0024061' => 'han', 'HanXRQChr09g0247831' => 'han', 'HanXRQChr10g0294611' => 'han', 'HanXRQChr10g0294621' => 'han', 'HanXRQChr11g0346821' => 'han', 'HanXRQChr13g0397461' => 'han', 'HanXRQChr16g0513651' => 'han', 'HanXRQChr16g0513701' => 'han', 'Haze_00897' => 'cav', 'Haze_01745' => 'cav', 'Haze_02486' => 'cav', 'Haze_02487' => 'cav', 'Haze_23374' => 'cav', 'Hma1.2p1_0578F.1_g182520' => 'hma', 'Hma1.2p1_0602F.1_g187350' => 'hma', 'Hma1.2p1_0602F.1_g187360' => 'hma', 'Hma1.2p1_0874F.1_g231320' => 'hma', 'Hma1.2p1_1197F.1_g266210' => 'hma', 'Hma1.2p1_1197F.1_g266220' => 'hma', 'Hma1.2p1_2167F.1_g315895' => 'hma', 'Hma1.2p1_2190F.1_g316640' => 'hma', 'Hma1.2p1_3645F.1_g337153' => 'hma', 'HPP92_004907' => 'vpl', 'HPP92_012134' => 'vpl', 'HPP92_025136' => 'vpl', 'HPP92_026087' => 'vpl', 'Hund06782' => 'sun', 'Hund06784' => 'sun', 'Lalb_Chr01g0004861' => 'lal', 'Lalb_Chr02g0140591' => 'lal', 'Lalb_Chr02g0140611' => 'lal', 'Lalb_Chr03g0028101' => 'lal', 'Lalb_Chr07g0185791' => 'lal', 'Lalb_Chr12g0204491' => 'lal', 'Lalb_Chr13g0295671' => 'lal', 'Lalb_Chr19g0136461' => 'lal', 'Lalb_Chr21g0309191' => 'lal', 'Lj1g0028158' => 'lja', 'Lj1P236T38' => 'lonja', 'Lj2C32G2' => 'lonja', 'Lj2P944T8' => 'lonja', 'Lj2P963T15' => 'lonja', 'Lj3g0011788' => 'lja', 'Lj4g0025027' => 'lja', 'Lj5P255T36' => 'lonja', 'Lj6g0018866' => 'lja', 'Lj6P608T31' => 'lonja', 'LjContig00408g0008879' => 'lja', 'Lsat_1_v5_gn_5_105820' => 'lsa', 'Lsat_1_v5_gn_6_38800' => 'lsa', 'Lsat_1_v5_gn_7_67141' => 'lsa', 'Manes.04G003400' => 'mes', 'Manes.07G020000' => 'mes', 'Manes.07G020100' => 'mes', 'Manes.07G020150' => 'mes', 'Manes.10G061500' => 'mes', 'Manes.10G123200' => 'mes', 'Manes.11G161900' => 'mes', 'Manes.15G029300' => 'mes', 'Mapoly0071s0018' => 'mpo', 'Mapoly0082s0023' => 'mpo', 'Mapoly3477s0001' => 'mpo', 'MBI05_g31233_MAGBIO' => 'mbi', 'MBI09_g05946_MAGBIO' => 'mbi', 'MBI09_g05947_MAGBIO' => 'mbi', 'MBI17_g08346_MAGBIO' => 'mbi', 'MCO04G038' => 'mco', 'MCO09G370' => 'mco', 'MCO13G605' => 'mco', 'MD00G1075500' => 'mdo', 'MD03G1144300' => 'mdo', 'MD08G1236800' => 'mdo', 'MD13G1193300' => 'mdo', 'MD15G1428700' => 'mdo', 'Medtr1g112030' => 'mtr', 'Medtr1g112050' => 'mtr', 'Medtr2g006290' => 'mtr', 'Medtr2g086510' => 'mtr', 'Medtr4g053120' => 'mtr', 'Medtr5g006320' => 'mtr', 'Medtr8g088720' => 'mtr', 'MELO3C004712.2' => 'cme', 'MELO3C006533.2' => 'cme', 'MELO3C019438.2' => 'cme', 'MELO3C019440.2' => 'cme', 'MELO3C019441.2' => 'cme', 'MELO3C019895.2' => 'cme', 'Migut.B00811' => 'egut', 'Migut.D02447' => 'egut', 'Migut.F00875' => 'egut', 'Migut.N00186' => 'egut', 'Migut.N01051' => 'egut', 'Migut.N02491' => 'egut', 'Migut.O00784' => 'egut', 'MSTRG.12367' => 'ama', 'MSTRG.18756' => 'ama', 'MSTRG.21042' => 'ama', 'Nitab4.5_0000559g0040' => 'nta', 'Nitab4.5_0000667g0190' => 'nta', 'Nitab4.5_0000755g0160' => 'nta', 'Nitab4.5_0001216g0080' => 'nta', 'Nitab4.5_0004069g0040' => 'nta', 'Nitab4.5_0004129g0010' => 'nta', 'Nitab4.5_0005744g0030' => 'nta', 'Nitab4.5_0006996g0030' => 'nta', 'Nitab4.5_0008971g0040' => 'nta', 'Nitab4.5_0009769g0020' => 'nta', 'Nitab4.5_0009833g0010' => 'nta', 'Nitab4.5_0013140g0020' => 'nta', 'Nn003s41376' => 'nnu', 'Nn1g01857' => 'nnu', 'Nn1g03611' => 'nnu', 'Nn1g06853' => 'nnu', 'Nn3g18360' => 'nnu', 'Nn4g26328' => 'nnu', 'Nn5g27531' => 'nnu', 'Nn6g34899' => 'nnu', 'Nn7g36299' => 'nnu', 'Oeu021485.1' => 'oeu', 'Oeu022433.1' => 'oeu', 'Oeu032111.1' => 'oeu', 'Oeu051608.1' => 'oeu', 'Os01g0860601' => 'osa', 'Os03g0659200' => 'osa', 'Os03g0835900' => 'osa', 'Os04g0412200' => 'osa', 'Os05g0443500' => 'osa', 'Os07g0251500' => 'osa', 'Os08g0104600' => 'osa', 'Peaxi162Scf00003g00047' => 'pax', 'Peaxi162Scf00003g00052' => 'pax', 'Peaxi162Scf00003g00394' => 'pax', 'Peaxi162Scf00091g00621' => 'pax', 'Peaxi162Scf00152g00146' => 'pax', 'Peaxi162Scf00173g00025' => 'pax', 'Peaxi162Scf00195g00102' => 'pax', 'Peaxi162Scf00402g00013' => 'pax', 'Peaxi162Scf00519g00618' => 'pax', 'PGR004G2838' => 'pgr', 'PGR044G2275' => 'pgr', 'PGR102G1377' => 'pgr', 'PGR119G1245' => 'pgr', 'PGR142G4449' => 'pgr', 'PGSC0003DMG400004532' => 'stu', 'PGSC0003DMG400011950' => 'stu', 'PGSC0003DMG400023391' => 'stu', 'PGSC0003DMG400023985' => 'stu', 'PGSC0003DMG400026360' => 'stu', 'PGSC0003DMG400035711' => 'stu', 'PGSC0003DMG400037286' => 'stu', 'PGSC0003DMG402005881' => 'stu', 'Phvul.002G045400' => 'pvu', 'Phvul.006G216600' => 'pvu', 'Phvul.006G216700' => 'pvu', 'Phvul.006G216800' => 'pvu', 'Phvul.007G022500' => 'pvu', 'Phvul.011G094400' => 'pvu', 'Potri.001G470700' => 'ptr', 'Potri.003G015200' => 'ptr', 'Potri.004G202500' => 'ptr', 'Potri.004G218400' => 'ptr', 'Potri.008G020100' => 'ptr', 'Potri.008G153200' => 'ptr', 'Potri.009G163800' => 'ptr', 'Potri.010G087300' => 'ptr', 'Potri.010G239100' => 'ptr', 'Pp3c10_16100' => 'ppa', 'Pp3c10_16880' => 'ppa', 'Pp3c16_6230' => 'ppa', 'Pp3c17_18910' => 'ppa', 'Pp3c3_22119' => 'ppa', 'Pp3c3_22140' => 'ppa', 'Pp3c4_8159' => 'ppa', 'Pp3c4_8171' => 'ppa', 'Pp3c4_8330' => 'ppa', 'PRCOL_00004098' => 'pco', 'Prupe.1G013900' => 'ppe', 'Prupe.1G226300' => 'ppe', 'Prupe.1G573600' => 'ppe', 'Prupe.6G130100' => 'ppe', 'Psat3g090040' => 'psa', 'Psat4g210440' => 'psa', 'Psat6g231040' => 'psa', 'Psat6g231080' => 'psa', 'Psat7g063000' => 'psa', 'Psat7g188000' => 'psa', 'Psat7g188040' => 'psa', 'PSO017G0206' => 'pso', 'PSO170G0501' => 'pso', 'PSO170G6422' => 'pso', 'PSO210G7739' => 'pso', 'PSO339G1808' => 'pso', 'PSO339G6135' => 'pso', 'PSO384G0010' => 'pso', 'PSO384G0964' => 'pso', 'PSO761G0050' => 'pso', 'PSO782G4085' => 'pso', 'QL01p012264' => 'qlo', 'QL02p099491' => 'qlo', 'QL03p033868' => 'qlo', 'QL04p046678' => 'qlo', 'QL06p002448' => 'qlo', 'RcHm_v2.0_Chr4g0416181' => 'rch', 'RcHm_v2.0_Chr5g0044701' => 'rch', 'RcHm_v2.0_Chr6g0265781' => 'rch', 'RcHm_v2.0_Chr7g0221031' => 'rch', 'Rhsim04G0202000' => 'rsi', 'Rhsim11G0127300' => 'rsi', 'Rhsim13G0111800' => 'rsi', 'Sabra01G0165600' => 'sbr', 'Sabra03G0008300' => 'sbr', 'Sabra04G0136900' => 'sbr', 'Sabra08G0013400' => 'sbr', 'Sabra08G0116800' => 'sbr', 'Sabra09G0128000' => 'sbr', 'Sabra10G0055500' => 'sbr', 'Sabra10G0073300' => 'sbr', 'SalBow3G0385' => 'sbo', 'SalBow3G1119' => 'sbo', 'SalBow3G2005' => 'sbo', 'SalBow6G2563' => 'sbo', 'SalBow6G6386' => 'sbo', 'Sc06g0008800' => 'sci', 'Sc07g0004950' => 'sci', 'Sc09g0005340' => 'sci', 'Sc13g0004410' => 'sci', 'Sc21g0007090' => 'sci', 'Sed0009285' => 'sed', 'Sed0017583' => 'sed', 'Sed0019699' => 'sed', 'Sed0023107' => 'sed', 'SEGI_10916' => 'sgi', 'SEGI_16217' => 'sgi', 'SEGI_19466' => 'sgi', 'SEGI_41115' => 'sgi', 'SGA_v2.0_scaffold111G31534' => 'sas', 'SGA_v2.0_scaffold22G09864' => 'sas', 'SGA_v2.0_scaffold338G49219' => 'sas', 'SGA_v2.0_scaffold92G28298' => 'sas', 'SMO119G0064' => 'smo', 'SMO223G0038' => 'smo', 'SMO347G0584' => 'smo', 'SMO351G0010' => 'smo', 'SMO356G0404' => 'smo', 'Solyc01g103920.3' => 'sly', 'Solyc04g009710.2' => 'sly', 'Solyc05g055280.2' => 'sly', 'Solyc10g044520.3' => 'sly', 'Solyc10g075160.1' => 'sly', 'Solyc11g006910.3' => 'sly', 'Solyc11g068430.3' => 'sly', 'Sopen01g046310' => 'spe', 'Sopen03g001200' => 'spe', 'Sopen04g004830' => 'spe', 'Sopen05g033720' => 'spe', 'Sopen06g030740' => 'spe', 'Sopen10g013090' => 'spe', 'Sopen10g027630' => 'spe', 'Sopen10g027640' => 'spe', 'Sopen11g002820' => 'spe', 'Sopen11g027140' => 'spe', 'Sp1g09680' => 'spa', 'Sp2g03630' => 'spa', 'Sp4g10320' => 'spa', 'Sp6g33400' => 'spa', 'Sp7g13030' => 'spa', 'TAR365G0317' => 'tar', 'TAR376G0979' => 'tar', 'TAR623G1665' => 'tar', 'TAR633G2373' => 'tar', 'TAR636G1400' => 'tar', 'THA.LOC104800529' => 'tha', 'THA.LOC104808547' => 'tha', 'THA.LOC104809615' => 'tha', 'THA.LOC104815724' => 'tha', 'THA.LOC104818480' => 'tha', 'THA.LOC104819179' => 'tha', 'THA.LOC104822270' => 'tha', 'THA.LOC104826425' => 'tha', 'Thecc.02G089700' => 'tca', 'Thecc.04G232300' => 'tca', 'Thecc.09G283400' => 'tca', 'Thhalv10009020m.g' => 'esa', 'Thhalv10015506m.g' => 'esa', 'Thhalv10017364m.g' => 'esa', 'Thhalv10023742m.g' => 'esa', 'Thhalv10026483m.g' => 'esa', 'TPR.G17232' => 'tpr', 'TPR.G2133' => 'tpr', 'TPR.G2498' => 'tpr', 'TPR.G31942' => 'tpr', 'TPR.G37877' => 'tpr', 'TPR.G4571' => 'tpr', 'TWI14G1113' => 'twi', 'TWI15G0426' => 'twi', 'TWI31G1005' => 'twi', 'TWI38G0513' => 'twi', 'TWI38G1484' => 'twi', 'TWI73G1098' => 'twi', 'unitig_26.g10519' => 'ugi', 'unitig_736.g22395' => 'ugi', 'unitig_747.g21234' => 'ugi', 'unitig_747.g21942' => 'ugi', 'vmacro14351' => 'vma', 'VMungo0540G0082' => 'vmu', 'VMungo0540G0405' => 'vmu', 'VMungo0540G1486' => 'vmu', 'VMungo0540G1692' => 'vmu', 'VMungo0720G2473' => 'vmu', 'VMungo1127G1562' => 'vmu', 'VMungo1215G1918' => 'vmu', 'Zm00001eb052650' => 'zma', 'Zm00001eb063710' => 'zma', 'Zm00001eb083950' => 'zma', 'Zm00001eb174420' => 'zma', 'Zm00001eb260140' => 'zma', 'Zm00001eb260150' => 'zma', 'Zm00001eb260160' => 'zma', 'Zm00001eb348290' => 'zma', 'Zm00001eb366870' => 'zma', 'Zm00001eb421930' => 'zma' ), 'gf_id' => 'HOM05D001025', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001025' ), 'data_identifier' => 'HOM05D001025', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001025', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '592', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p22650' => 'bna', 'A01p29720' => 'bna', 'A03p26560' => 'bna', 'A03p68820' => 'bna', 'A04p20980' => 'bna', 'A06p07730' => 'bna', 'A07p18260' => 'bna', 'A08p33710' => 'bna', 'A09p16970' => 'bna', 'A10p27490' => 'bna', 'Aa31LG1G17300' => 'aar', 'Aa31LG1G3910' => 'aar', 'Aa31LG2G9630' => 'aar', 'Aa31LG5G8360' => 'aar', 'Aa31LG9G2410' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4699' => 'aag', 'Actinidia23512' => 'ach', 'Actinidia37080' => 'ach', 'Ah.01g020380' => 'amhyb', 'Ah.08g215710' => 'amhyb', 'Ah.09g225110' => 'amhyb', 'Ah.10g036680' => 'amhyb', 'AL1G21940' => 'aly', 'AL2G15540' => 'aly', 'AL4G21520' => 'aly', 'AL7G40960' => 'aly', 'Aqoxy2G01191' => 'aox', 'Aqoxy2G03393' => 'aox', 'Aqoxy4G02775' => 'aox', 'Aqoxy6G00058' => 'aox', 'arahy.Tifrunner.gnm1.ann1.9X74H2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CW3FX9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R485W7' => 'arhy', 'AT1G10960' => 'ath', 'AT1G60950' => 'ath', 'AT2G27510' => 'ath', 'AT4G14890' => 'ath', 'AT5G10000' => 'ath', 'ATR0665G624' => 'atr', 'ATR0697G138' => 'atr', 'ATR0776G046' => 'atr', 'ATR1134G135' => 'atr', 'Atru.chr12.1025' => 'acertr', 'Atru.chr3.3241' => 'acertr', 'Atru.chr4.2460' => 'acertr', 'AUR62007427' => 'cqu', 'AUR62010960' => 'cqu', 'AUR62012201' => 'cqu', 'AUR62021470' => 'cqu', 'AUR62022834' => 'cqu', 'AUR62033635' => 'cqu', 'AUR62036186' => 'cqu', 'BcaB01g03077' => 'bca', 'BcaB02g10093' => 'bca', 'BcaB04g20295' => 'bca', 'BcaB06g28147' => 'bca', 'BcaB07g31253' => 'bca', 'BcaC01g04946' => 'bca', 'BcaC02g10614' => 'bca', 'BcaC02g10885' => 'bca', 'BcaC04g19356' => 'bca', 'BcaC04g22297' => 'bca', 'BcaC05g24977' => 'bca', 'BcaC06g31823' => 'bca', 'BcaC07g38633' => 'bca', 'BcaC09g49353' => 'bca', 'BcaC09g50168' => 'bca', 'BcaNung00322' => 'bca', 'BcaNung04769' => 'bca', 'BolC1t02753H' => 'bol', 'BolC1t03721H' => 'bol', 'BolC3t15525H' => 'bol', 'BolC4t23903H' => 'bol', 'BolC4t24231H' => 'bol', 'BolC4t27209H' => 'bol', 'BolC5t29671H' => 'bol', 'BolC8t49044H' => 'bol', 'BolC9t54999H' => 'bol', 'BolC9t59517H' => 'bol', 'BraA01t02178Z' => 'bra', 'BraA01t03099Z' => 'bra', 'BraA03t11867Z' => 'bra', 'BraA04t17667Z' => 'bra', 'BraA07t29542Z' => 'bra', 'BraA08t35287Z' => 'bra', 'BraA09t37334Z' => 'bra', 'BraA10t44801Z' => 'bra', 'BraSC39t46181Z' => 'bra', 'C01p28240' => 'bna', 'C01p37530' => 'bna', 'C03p31820' => 'bna', 'C04p24080' => 'bna', 'C04p25790' => 'bna', 'C04p56770' => 'bna', 'C05p09310' => 'bna', 'C09p21010' => 'bna', 'C09p67560' => 'bna', 'CAN.G1324.7' => 'can', 'CAN.G1358.10' => 'can', 'CAN.G1550.2' => 'can', 'CAN.G186.56' => 'can', 'CAN.G1965.1' => 'can', 'CAN.G645.15' => 'can', 'CAN.G798.26' => 'can', 'CAN.G798.27' => 'can', 'CAN.G798.29' => 'can', 'CAN.G919.31' => 'can', 'CANSAT11G0133' => 'cansat', 'CANSAT11G1171' => 'cansat', 'CANSAT11G2056' => 'cansat', 'CANSAT56G1202' => 'cansat', 'CANSAT56G1514' => 'cansat', 'CANSAT78G0455' => 'cansat', 'CARHR011190' => 'chi', 'CARHR051980' => 'chi', 'CARHR120170' => 'chi', 'CARHR203310' => 'chi', 'CARHR221490' => 'chi', 'Carub.0001s1054' => 'cru', 'Carub.0002s0431' => 'cru', 'Carub.0004s0818' => 'cru', 'Carub.0006s0846' => 'cru', 'Carub.0007s2722' => 'cru', 'Ca_00058_v3' => 'car', 'Ca_17831_v3' => 'car', 'Ca_19408_v3' => 'car', 'Ca_24397_v3' => 'car', 'Ca_25664_v3' => 'car', 'CBR_g21818' => 'cbr', 'CBR_g31195' => 'cbr', 'CBR_g32282' => 'cbr', 'CBR_g39599' => 'cbr', 'CBR_g49410' => 'cbr', 'Cc01_g09120' => 'ccan', 'Cc01_g09130' => 'ccan', 'Cc02_g09630' => 'ccan', 'Cc02_g22810' => 'ccan', 'Cc03_g03810' => 'ccan', 'CDE02G3718' => 'cde', 'CDE04G3183' => 'cde', 'CDE07G1046' => 'cde', 'CDE08G0480' => 'cde', 'Cfa005493' => 'cfa', 'Cfa010312' => 'cfa', 'Cfa015648' => 'cfa', 'Ciclev10002793m.g' => 'ccl', 'Ciclev10003356m.g' => 'ccl', 'Ciclev10006141m.g' => 'ccl', 'Ciclev10016676m.g' => 'ccl', 'Ciclev10017081m.g' => 'ccl', 'Ciclev10029499m.g' => 'ccl', 'CiPaw.01G166300' => 'cil', 'CiPaw.06G145600' => 'cil', 'CiPaw.13G040100' => 'cil', 'CiPaw.13G135800' => 'cil', 'ClCG01G012230' => 'cla', 'ClCG05G009510' => 'cla', 'ClCG08G008270' => 'cla', 'COL.COLO4_11763' => 'col', 'COL.COLO4_19876' => 'col', 'COL.COLO4_21481' => 'col', 'Cpa.g.sc118.34' => 'cpa', 'Cpa.g.sc32.13' => 'cpa', 'Cpa.g.sc58.103' => 'cpa', 'Cre03.g183850' => 'cre', 'Cre06.g306350' => 'cre', 'Cre07.g334800' => 'cre', 'Cre12.g487900' => 'cre', 'Cre14.g626700' => 'cre', 'Cre16.g658400' => 'cre', 'Cre17.g700950' => 'cre', 'CsaV3_1G014830' => 'csa', 'CsaV3_3G013320' => 'csa', 'CsaV3_3G019210' => 'csa', 'CsaV3_3G019220' => 'csa', 'CsaV3_6G004230' => 'csa', 'CSS0003773' => 'camsi', 'CSS0004563' => 'camsi', 'CSS0013949' => 'camsi', 'CSS0025971' => 'camsi', 'CSS0028570' => 'camsi', 'CSS0033127' => 'camsi', 'CSS0036051' => 'camsi', 'CSS0040087' => 'camsi', 'CSS0043179' => 'camsi', 'DCAR_006161' => 'dca', 'DCAR_010351' => 'dca', 'DCAR_012197' => 'dca', 'DCAR_024162' => 'dca', 'Dinv01030' => 'din', 'Dinv10924' => 'din', 'Dinv11835' => 'din', 'Dinv22841' => 'din', 'Dinv42553' => 'din', 'Duzib052G0560' => 'dzi', 'Duzib132G0389' => 'dzi', 'Duzib150G1181' => 'dzi', 'Duzib168G0623' => 'dzi', 'Duzib170G1036' => 'dzi', 'Duzib212G0200' => 'dzi', 'Duzib248G0194' => 'dzi', 'ECA232G2193' => 'eca', 'ECA233G0302' => 'eca', 'ECA234G2813' => 'eca', 'ECA234G4866' => 'eca', 'ECA240G3932' => 'eca', 'ECA248G0385' => 'eca', 'EL10Ac2g04781' => 'bvu', 'EL10Ac3g06445' => 'bvu', 'EL10Ac7g15825' => 'bvu', 'EL10Ac8g18550' => 'bvu', 'Eucgr.B03849' => 'egr', 'Eucgr.I02744' => 'egr', 'Eucgr.J00264' => 'egr', 'Eucgr.J00493' => 'egr', 'FAN04G2181' => 'fan', 'FAN07G2666' => 'fan', 'FAN11G0024' => 'fan', 'FAN12G1105' => 'fan', 'FAN13G0302' => 'fan', 'FAN15G2781' => 'fan', 'FAN16G1274' => 'fan', 'FAN17G2988' => 'fan', 'FAN18G2621' => 'fan', 'FAN21G0013' => 'fan', 'FAN22G1211' => 'fan', 'FAN25G3626' => 'fan', 'FvH4_2g09491' => 'fve', 'FvH4_3g24910' => 'fve', 'FvH4_4g15630' => 'fve', 'FvH4_5g28820' => 'fve', 'Glyma.01G238000' => 'gma', 'Glyma.05G168400' => 'gma', 'Glyma.08G126800' => 'gma', 'Glyma.08G188500' => 'gma', 'Glyma.10G278900' => 'gma', 'Glyma.11G005700' => 'gma', 'Glyma.11G183300' => 'gma', 'Glyma.12G089200' => 'gma', 'Glyma.12G169400' => 'gma', 'Glyma.12G169500' => 'gma', 'Glyma.12G169600' => 'gma', 'Glyma.20G110800' => 'gma', 'Gohir.A03G192900' => 'ghi', 'Gohir.A03G193000' => 'ghi', 'Gohir.A05G080700' => 'ghi', 'Gohir.A09G216000' => 'ghi', 'Gohir.A12G027700' => 'ghi', 'Gohir.A13G036200' => 'ghi', 'Gohir.A13G222600' => 'ghi', 'Gohir.D02G213900' => 'ghi', 'Gohir.D02G214000' => 'ghi', 'Gohir.D05G083700' => 'ghi', 'Gohir.D05G083800' => 'ghi', 'Gohir.D05G083850' => 'ghi', 'Gohir.D08G015400' => 'ghi', 'Gohir.D09G218400' => 'ghi', 'Gohir.D12G027100' => 'ghi', 'Gohir.D13G034500' => 'ghi', 'Gohir.D13G227400' => 'ghi', 'Gorai.005G241800' => 'gra', 'Gorai.005G241900' => 'gra', 'Gorai.006G239400' => 'gra', 'Gorai.008G027600' => 'gra', 'Gorai.009G085400' => 'gra', 'Gorai.009G085500' => 'gra', 'Gorai.013G039000' => 'gra', 'Gorai.013G194800' => 'gra', 'Gorai.013G257900' => 'gra', 'GSVIVG01000982001' => 'vvi', 'GSVIVG01017981001' => 'vvi', 'HanXRQChr01g0024061' => 'han', 'HanXRQChr09g0247831' => 'han', 'HanXRQChr10g0294611' => 'han', 'HanXRQChr10g0294621' => 'han', 'HanXRQChr11g0346821' => 'han', 'HanXRQChr13g0397461' => 'han', 'HanXRQChr16g0513651' => 'han', 'HanXRQChr16g0513701' => 'han', 'Haze_00897' => 'cav', 'Haze_01745' => 'cav', 'Haze_02486' => 'cav', 'Haze_02487' => 'cav', 'Haze_23374' => 'cav', 'Hma1.2p1_0578F.1_g182520' => 'hma', 'Hma1.2p1_0602F.1_g187350' => 'hma', 'Hma1.2p1_0602F.1_g187360' => 'hma', 'Hma1.2p1_0874F.1_g231320' => 'hma', 'Hma1.2p1_1197F.1_g266210' => 'hma', 'Hma1.2p1_1197F.1_g266220' => 'hma', 'Hma1.2p1_2167F.1_g315895' => 'hma', 'Hma1.2p1_2190F.1_g316640' => 'hma', 'Hma1.2p1_3645F.1_g337153' => 'hma', 'HPP92_004907' => 'vpl', 'HPP92_012134' => 'vpl', 'HPP92_025136' => 'vpl', 'HPP92_026087' => 'vpl', 'Hund06782' => 'sun', 'Hund06784' => 'sun', 'Lalb_Chr01g0004861' => 'lal', 'Lalb_Chr02g0140591' => 'lal', 'Lalb_Chr02g0140611' => 'lal', 'Lalb_Chr03g0028101' => 'lal', 'Lalb_Chr07g0185791' => 'lal', 'Lalb_Chr12g0204491' => 'lal', 'Lalb_Chr13g0295671' => 'lal', 'Lalb_Chr19g0136461' => 'lal', 'Lalb_Chr21g0309191' => 'lal', 'Lj1g0028158' => 'lja', 'Lj1P236T38' => 'lonja', 'Lj2C32G2' => 'lonja', 'Lj2P944T8' => 'lonja', 'Lj2P963T15' => 'lonja', 'Lj3g0011788' => 'lja', 'Lj4g0025027' => 'lja', 'Lj5P255T36' => 'lonja', 'Lj6g0018866' => 'lja', 'Lj6P608T31' => 'lonja', 'LjContig00408g0008879' => 'lja', 'Lsat_1_v5_gn_5_105820' => 'lsa', 'Lsat_1_v5_gn_6_38800' => 'lsa', 'Lsat_1_v5_gn_7_67141' => 'lsa', 'Manes.04G003400' => 'mes', 'Manes.07G020000' => 'mes', 'Manes.07G020100' => 'mes', 'Manes.07G020150' => 'mes', 'Manes.10G061500' => 'mes', 'Manes.10G123200' => 'mes', 'Manes.11G161900' => 'mes', 'Manes.15G029300' => 'mes', 'Mapoly0071s0018' => 'mpo', 'Mapoly0082s0023' => 'mpo', 'Mapoly3477s0001' => 'mpo', 'MBI05_g31233_MAGBIO' => 'mbi', 'MBI09_g05946_MAGBIO' => 'mbi', 'MBI09_g05947_MAGBIO' => 'mbi', 'MBI17_g08346_MAGBIO' => 'mbi', 'MCO04G038' => 'mco', 'MCO09G370' => 'mco', 'MCO13G605' => 'mco', 'MD00G1075500' => 'mdo', 'MD03G1144300' => 'mdo', 'MD08G1236800' => 'mdo', 'MD13G1193300' => 'mdo', 'MD15G1428700' => 'mdo', 'Medtr1g112030' => 'mtr', 'Medtr1g112050' => 'mtr', 'Medtr2g006290' => 'mtr', 'Medtr2g086510' => 'mtr', 'Medtr4g053120' => 'mtr', 'Medtr5g006320' => 'mtr', 'Medtr8g088720' => 'mtr', 'MELO3C004712.2' => 'cme', 'MELO3C006533.2' => 'cme', 'MELO3C019438.2' => 'cme', 'MELO3C019440.2' => 'cme', 'MELO3C019441.2' => 'cme', 'MELO3C019895.2' => 'cme', 'Migut.B00811' => 'egut', 'Migut.D02447' => 'egut', 'Migut.F00875' => 'egut', 'Migut.N00186' => 'egut', 'Migut.N01051' => 'egut', 'Migut.N02491' => 'egut', 'Migut.O00784' => 'egut', 'MSTRG.12367' => 'ama', 'MSTRG.18756' => 'ama', 'MSTRG.21042' => 'ama', 'Nitab4.5_0000559g0040' => 'nta', 'Nitab4.5_0000667g0190' => 'nta', 'Nitab4.5_0000755g0160' => 'nta', 'Nitab4.5_0001216g0080' => 'nta', 'Nitab4.5_0004069g0040' => 'nta', 'Nitab4.5_0004129g0010' => 'nta', 'Nitab4.5_0005744g0030' => 'nta', 'Nitab4.5_0006996g0030' => 'nta', 'Nitab4.5_0008971g0040' => 'nta', 'Nitab4.5_0009769g0020' => 'nta', 'Nitab4.5_0009833g0010' => 'nta', 'Nitab4.5_0013140g0020' => 'nta', 'Nn003s41376' => 'nnu', 'Nn1g01857' => 'nnu', 'Nn1g03611' => 'nnu', 'Nn1g06853' => 'nnu', 'Nn3g18360' => 'nnu', 'Nn4g26328' => 'nnu', 'Nn5g27531' => 'nnu', 'Nn6g34899' => 'nnu', 'Nn7g36299' => 'nnu', 'Oeu021485.1' => 'oeu', 'Oeu022433.1' => 'oeu', 'Oeu032111.1' => 'oeu', 'Oeu051608.1' => 'oeu', 'Os01g0860601' => 'osa', 'Os03g0659200' => 'osa', 'Os03g0835900' => 'osa', 'Os04g0412200' => 'osa', 'Os05g0443500' => 'osa', 'Os07g0251500' => 'osa', 'Os08g0104600' => 'osa', 'Peaxi162Scf00003g00047' => 'pax', 'Peaxi162Scf00003g00052' => 'pax', 'Peaxi162Scf00003g00394' => 'pax', 'Peaxi162Scf00091g00621' => 'pax', 'Peaxi162Scf00152g00146' => 'pax', 'Peaxi162Scf00173g00025' => 'pax', 'Peaxi162Scf00195g00102' => 'pax', 'Peaxi162Scf00402g00013' => 'pax', 'Peaxi162Scf00519g00618' => 'pax', 'PGR004G2838' => 'pgr', 'PGR044G2275' => 'pgr', 'PGR102G1377' => 'pgr', 'PGR119G1245' => 'pgr', 'PGR142G4449' => 'pgr', 'PGSC0003DMG400004532' => 'stu', 'PGSC0003DMG400011950' => 'stu', 'PGSC0003DMG400023391' => 'stu', 'PGSC0003DMG400023985' => 'stu', 'PGSC0003DMG400026360' => 'stu', 'PGSC0003DMG400035711' => 'stu', 'PGSC0003DMG400037286' => 'stu', 'PGSC0003DMG402005881' => 'stu', 'Phvul.002G045400' => 'pvu', 'Phvul.006G216600' => 'pvu', 'Phvul.006G216700' => 'pvu', 'Phvul.006G216800' => 'pvu', 'Phvul.007G022500' => 'pvu', 'Phvul.011G094400' => 'pvu', 'Potri.001G470700' => 'ptr', 'Potri.003G015200' => 'ptr', 'Potri.004G202500' => 'ptr', 'Potri.004G218400' => 'ptr', 'Potri.008G020100' => 'ptr', 'Potri.008G153200' => 'ptr', 'Potri.009G163800' => 'ptr', 'Potri.010G087300' => 'ptr', 'Potri.010G239100' => 'ptr', 'Pp3c10_16100' => 'ppa', 'Pp3c10_16880' => 'ppa', 'Pp3c16_6230' => 'ppa', 'Pp3c17_18910' => 'ppa', 'Pp3c3_22119' => 'ppa', 'Pp3c3_22140' => 'ppa', 'Pp3c4_8159' => 'ppa', 'Pp3c4_8171' => 'ppa', 'Pp3c4_8330' => 'ppa', 'PRCOL_00004098' => 'pco', 'Prupe.1G013900' => 'ppe', 'Prupe.1G226300' => 'ppe', 'Prupe.1G573600' => 'ppe', 'Prupe.6G130100' => 'ppe', 'Psat3g090040' => 'psa', 'Psat4g210440' => 'psa', 'Psat6g231040' => 'psa', 'Psat6g231080' => 'psa', 'Psat7g063000' => 'psa', 'Psat7g188000' => 'psa', 'Psat7g188040' => 'psa', 'PSO017G0206' => 'pso', 'PSO170G0501' => 'pso', 'PSO170G6422' => 'pso', 'PSO210G7739' => 'pso', 'PSO339G1808' => 'pso', 'PSO339G6135' => 'pso', 'PSO384G0010' => 'pso', 'PSO384G0964' => 'pso', 'PSO761G0050' => 'pso', 'PSO782G4085' => 'pso', 'QL01p012264' => 'qlo', 'QL02p099491' => 'qlo', 'QL03p033868' => 'qlo', 'QL04p046678' => 'qlo', 'QL06p002448' => 'qlo', 'RcHm_v2.0_Chr4g0416181' => 'rch', 'RcHm_v2.0_Chr5g0044701' => 'rch', 'RcHm_v2.0_Chr6g0265781' => 'rch', 'RcHm_v2.0_Chr7g0221031' => 'rch', 'Rhsim04G0202000' => 'rsi', 'Rhsim11G0127300' => 'rsi', 'Rhsim13G0111800' => 'rsi', 'Sabra01G0165600' => 'sbr', 'Sabra03G0008300' => 'sbr', 'Sabra04G0136900' => 'sbr', 'Sabra08G0013400' => 'sbr', 'Sabra08G0116800' => 'sbr', 'Sabra09G0128000' => 'sbr', 'Sabra10G0055500' => 'sbr', 'Sabra10G0073300' => 'sbr', 'SalBow3G0385' => 'sbo', 'SalBow3G1119' => 'sbo', 'SalBow3G2005' => 'sbo', 'SalBow6G2563' => 'sbo', 'SalBow6G6386' => 'sbo', 'Sc06g0008800' => 'sci', 'Sc07g0004950' => 'sci', 'Sc09g0005340' => 'sci', 'Sc13g0004410' => 'sci', 'Sc21g0007090' => 'sci', 'Sed0009285' => 'sed', 'Sed0017583' => 'sed', 'Sed0019699' => 'sed', 'Sed0023107' => 'sed', 'SEGI_10916' => 'sgi', 'SEGI_16217' => 'sgi', 'SEGI_19466' => 'sgi', 'SEGI_41115' => 'sgi', 'SGA_v2.0_scaffold111G31534' => 'sas', 'SGA_v2.0_scaffold22G09864' => 'sas', 'SGA_v2.0_scaffold338G49219' => 'sas', 'SGA_v2.0_scaffold92G28298' => 'sas', 'SMO119G0064' => 'smo', 'SMO223G0038' => 'smo', 'SMO347G0584' => 'smo', 'SMO351G0010' => 'smo', 'SMO356G0404' => 'smo', 'Solyc01g103920.3' => 'sly', 'Solyc04g009710.2' => 'sly', 'Solyc05g055280.2' => 'sly', 'Solyc10g044520.3' => 'sly', 'Solyc10g075160.1' => 'sly', 'Solyc11g006910.3' => 'sly', 'Solyc11g068430.3' => 'sly', 'Sopen01g046310' => 'spe', 'Sopen03g001200' => 'spe', 'Sopen04g004830' => 'spe', 'Sopen05g033720' => 'spe', 'Sopen06g030740' => 'spe', 'Sopen10g013090' => 'spe', 'Sopen10g027630' => 'spe', 'Sopen10g027640' => 'spe', 'Sopen11g002820' => 'spe', 'Sopen11g027140' => 'spe', 'Sp1g09680' => 'spa', 'Sp2g03630' => 'spa', 'Sp4g10320' => 'spa', 'Sp6g33400' => 'spa', 'Sp7g13030' => 'spa', 'TAR365G0317' => 'tar', 'TAR376G0979' => 'tar', 'TAR623G1665' => 'tar', 'TAR633G2373' => 'tar', 'TAR636G1400' => 'tar', 'THA.LOC104800529' => 'tha', 'THA.LOC104808547' => 'tha', 'THA.LOC104809615' => 'tha', 'THA.LOC104815724' => 'tha', 'THA.LOC104818480' => 'tha', 'THA.LOC104819179' => 'tha', 'THA.LOC104822270' => 'tha', 'THA.LOC104826425' => 'tha', 'Thecc.02G089700' => 'tca', 'Thecc.04G232300' => 'tca', 'Thecc.09G283400' => 'tca', 'Thhalv10009020m.g' => 'esa', 'Thhalv10015506m.g' => 'esa', 'Thhalv10017364m.g' => 'esa', 'Thhalv10023742m.g' => 'esa', 'Thhalv10026483m.g' => 'esa', 'TPR.G17232' => 'tpr', 'TPR.G2133' => 'tpr', 'TPR.G2498' => 'tpr', 'TPR.G31942' => 'tpr', 'TPR.G37877' => 'tpr', 'TPR.G4571' => 'tpr', 'TWI14G1113' => 'twi', 'TWI15G0426' => 'twi', 'TWI31G1005' => 'twi', 'TWI38G0513' => 'twi', 'TWI38G1484' => 'twi', 'TWI73G1098' => 'twi', 'unitig_26.g10519' => 'ugi', 'unitig_736.g22395' => 'ugi', 'unitig_747.g21234' => 'ugi', 'unitig_747.g21942' => 'ugi', 'vmacro14351' => 'vma', 'VMungo0540G0082' => 'vmu', 'VMungo0540G0405' => 'vmu', 'VMungo0540G1486' => 'vmu', 'VMungo0540G1692' => 'vmu', 'VMungo0720G2473' => 'vmu', 'VMungo1127G1562' => 'vmu', 'VMungo1215G1918' => 'vmu', 'Zm00001eb052650' => 'zma', 'Zm00001eb063710' => 'zma', 'Zm00001eb083950' => 'zma', 'Zm00001eb174420' => 'zma', 'Zm00001eb260140' => 'zma', 'Zm00001eb260150' => 'zma', 'Zm00001eb260160' => 'zma', 'Zm00001eb348290' => 'zma', 'Zm00001eb366870' => 'zma', 'Zm00001eb421930' => 'zma' ) $gf_id = 'HOM05D001025' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001025' ) $data_identifier = 'HOM05D001025' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 19, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 2, 'amhyb' => (int) 4, 'aly' => (int) 4, 'aox' => (int) 4, 'arhy' => (int) 3, 'ath' => (int) 5, 'atr' => (int) 4, 'acertr' => (int) 3, 'cqu' => (int) 7, 'bca' => (int) 17, 'bol' => (int) 10, 'bra' => (int) 9, 'can' => (int) 10, 'cansat' => (int) 6, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 5, 'cbr' => (int) 5, 'ccan' => (int) 5, 'cde' => (int) 4, 'cfa' => (int) 3, 'ccl' => (int) 6, 'cil' => (int) 4, 'cla' => (int) 3, 'col' => (int) 3, 'cpa' => (int) 3, 'cre' => (int) 7, 'csa' => (int) 5, 'camsi' => (int) 9, 'dca' => (int) 4, 'din' => (int) 5, 'dzi' => (int) 7, 'eca' => (int) 6, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 12, 'fve' => (int) 4, 'gma' => (int) 12, 'ghi' => (int) 17, 'gra' => (int) 9, 'vvi' => (int) 2, 'han' => (int) 8, 'cav' => (int) 5, 'hma' => (int) 9, 'vpl' => (int) 4, 'sun' => (int) 2, 'lal' => (int) 9, 'lja' => (int) 5, 'lonja' => (int) 6, 'lsa' => (int) 3, 'mes' => (int) 8, 'mpo' => (int) 3, 'mbi' => (int) 4, 'mco' => (int) 3, 'mdo' => (int) 5, 'mtr' => (int) 7, 'cme' => (int) 6, 'egut' => (int) 7, 'ama' => (int) 3, 'nta' => (int) 12, 'nnu' => (int) 9, 'oeu' => (int) 4, 'osa' => (int) 7, 'pax' => (int) 9, 'pgr' => (int) 5, 'stu' => (int) 8, 'pvu' => (int) 6, 'ptr' => (int) 9, 'ppa' => (int) 9, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 7, 'pso' => (int) 10, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 3, 'sbr' => (int) 8, 'sbo' => (int) 5, 'sci' => (int) 5, 'sed' => (int) 4, 'sgi' => (int) 4, 'sas' => (int) 4, 'smo' => (int) 5, 'sly' => (int) 7, 'spe' => (int) 10, 'spa' => (int) 5, 'tar' => (int) 5, 'tha' => (int) 8, 'tca' => (int) 3, 'esa' => (int) 5, 'tpr' => (int) 6, 'twi' => (int) 6, 'ugi' => (int) 4, 'vma' => (int) 1, 'vmu' => (int) 7, 'zma' => (int) 10 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb421930' $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' => 'HOM05D001025', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '592', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p22650' => 'bna', 'A01p29720' => 'bna', 'A03p26560' => 'bna', 'A03p68820' => 'bna', 'A04p20980' => 'bna', 'A06p07730' => 'bna', 'A07p18260' => 'bna', 'A08p33710' => 'bna', 'A09p16970' => 'bna', 'A10p27490' => 'bna', 'Aa31LG1G17300' => 'aar', 'Aa31LG1G3910' => 'aar', 'Aa31LG2G9630' => 'aar', 'Aa31LG5G8360' => 'aar', 'Aa31LG9G2410' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4699' => 'aag', 'Actinidia23512' => 'ach', 'Actinidia37080' => 'ach', 'Ah.01g020380' => 'amhyb', 'Ah.08g215710' => 'amhyb', 'Ah.09g225110' => 'amhyb', 'Ah.10g036680' => 'amhyb', 'AL1G21940' => 'aly', 'AL2G15540' => 'aly', 'AL4G21520' => 'aly', 'AL7G40960' => 'aly', 'Aqoxy2G01191' => 'aox', 'Aqoxy2G03393' => 'aox', 'Aqoxy4G02775' => 'aox', 'Aqoxy6G00058' => 'aox', 'arahy.Tifrunner.gnm1.ann1.9X74H2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CW3FX9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R485W7' => 'arhy', 'AT1G10960' => 'ath', 'AT1G60950' => 'ath', 'AT2G27510' => 'ath', 'AT4G14890' => 'ath', 'AT5G10000' => 'ath', 'ATR0665G624' => 'atr', 'ATR0697G138' => 'atr', 'ATR0776G046' => 'atr', 'ATR1134G135' => 'atr', 'Atru.chr12.1025' => 'acertr', 'Atru.chr3.3241' => 'acertr', 'Atru.chr4.2460' => 'acertr', 'AUR62007427' => 'cqu', 'AUR62010960' => 'cqu', 'AUR62012201' => 'cqu', 'AUR62021470' => 'cqu', 'AUR62022834' => 'cqu', 'AUR62033635' => 'cqu', 'AUR62036186' => 'cqu', 'BcaB01g03077' => 'bca', 'BcaB02g10093' => 'bca', 'BcaB04g20295' => 'bca', 'BcaB06g28147' => 'bca', 'BcaB07g31253' => 'bca', 'BcaC01g04946' => 'bca', 'BcaC02g10614' => 'bca', 'BcaC02g10885' => 'bca', 'BcaC04g19356' => 'bca', 'BcaC04g22297' => 'bca', 'BcaC05g24977' => 'bca', 'BcaC06g31823' => 'bca', 'BcaC07g38633' => 'bca', 'BcaC09g49353' => 'bca', 'BcaC09g50168' => 'bca', 'BcaNung00322' => 'bca', 'BcaNung04769' => 'bca', 'BolC1t02753H' => 'bol', 'BolC1t03721H' => 'bol', 'BolC3t15525H' => 'bol', 'BolC4t23903H' => 'bol', 'BolC4t24231H' => 'bol', 'BolC4t27209H' => 'bol', 'BolC5t29671H' => 'bol', 'BolC8t49044H' => 'bol', 'BolC9t54999H' => 'bol', 'BolC9t59517H' => 'bol', 'BraA01t02178Z' => 'bra', 'BraA01t03099Z' => 'bra', 'BraA03t11867Z' => 'bra', 'BraA04t17667Z' => 'bra', 'BraA07t29542Z' => 'bra', 'BraA08t35287Z' => 'bra', 'BraA09t37334Z' => 'bra', 'BraA10t44801Z' => 'bra', 'BraSC39t46181Z' => 'bra', 'C01p28240' => 'bna', 'C01p37530' => 'bna', 'C03p31820' => 'bna', 'C04p24080' => 'bna', 'C04p25790' => 'bna', 'C04p56770' => 'bna', 'C05p09310' => 'bna', 'C09p21010' => 'bna', 'C09p67560' => 'bna', 'CAN.G1324.7' => 'can', 'CAN.G1358.10' => 'can', 'CAN.G1550.2' => 'can', 'CAN.G186.56' => 'can', 'CAN.G1965.1' => 'can', 'CAN.G645.15' => 'can', 'CAN.G798.26' => 'can', 'CAN.G798.27' => 'can', 'CAN.G798.29' => 'can', 'CAN.G919.31' => 'can', 'CANSAT11G0133' => 'cansat', 'CANSAT11G1171' => 'cansat', 'CANSAT11G2056' => 'cansat', 'CANSAT56G1202' => 'cansat', 'CANSAT56G1514' => 'cansat', 'CANSAT78G0455' => 'cansat', 'CARHR011190' => 'chi', 'CARHR051980' => 'chi', 'CARHR120170' => 'chi', 'CARHR203310' => 'chi', 'CARHR221490' => 'chi', 'Carub.0001s1054' => 'cru', 'Carub.0002s0431' => 'cru', 'Carub.0004s0818' => 'cru', 'Carub.0006s0846' => 'cru', 'Carub.0007s2722' => 'cru', 'Ca_00058_v3' => 'car', 'Ca_17831_v3' => 'car', 'Ca_19408_v3' => 'car', 'Ca_24397_v3' => 'car', 'Ca_25664_v3' => 'car', 'CBR_g21818' => 'cbr', 'CBR_g31195' => 'cbr', 'CBR_g32282' => 'cbr', 'CBR_g39599' => 'cbr', 'CBR_g49410' => 'cbr', 'Cc01_g09120' => 'ccan', 'Cc01_g09130' => 'ccan', 'Cc02_g09630' => 'ccan', 'Cc02_g22810' => 'ccan', 'Cc03_g03810' => 'ccan', 'CDE02G3718' => 'cde', 'CDE04G3183' => 'cde', 'CDE07G1046' => 'cde', 'CDE08G0480' => 'cde', 'Cfa005493' => 'cfa', 'Cfa010312' => 'cfa', 'Cfa015648' => 'cfa', 'Ciclev10002793m.g' => 'ccl', 'Ciclev10003356m.g' => 'ccl', 'Ciclev10006141m.g' => 'ccl', 'Ciclev10016676m.g' => 'ccl', 'Ciclev10017081m.g' => 'ccl', 'Ciclev10029499m.g' => 'ccl', 'CiPaw.01G166300' => 'cil', 'CiPaw.06G145600' => 'cil', 'CiPaw.13G040100' => 'cil', 'CiPaw.13G135800' => 'cil', 'ClCG01G012230' => 'cla', 'ClCG05G009510' => 'cla', 'ClCG08G008270' => 'cla', 'COL.COLO4_11763' => 'col', 'COL.COLO4_19876' => 'col', 'COL.COLO4_21481' => 'col', 'Cpa.g.sc118.34' => 'cpa', 'Cpa.g.sc32.13' => 'cpa', 'Cpa.g.sc58.103' => 'cpa', 'Cre03.g183850' => 'cre', 'Cre06.g306350' => 'cre', 'Cre07.g334800' => 'cre', 'Cre12.g487900' => 'cre', 'Cre14.g626700' => 'cre', 'Cre16.g658400' => 'cre', 'Cre17.g700950' => 'cre', 'CsaV3_1G014830' => 'csa', 'CsaV3_3G013320' => 'csa', 'CsaV3_3G019210' => 'csa', 'CsaV3_3G019220' => 'csa', 'CsaV3_6G004230' => 'csa', 'CSS0003773' => 'camsi', 'CSS0004563' => 'camsi', 'CSS0013949' => 'camsi', 'CSS0025971' => 'camsi', 'CSS0028570' => 'camsi', 'CSS0033127' => 'camsi', 'CSS0036051' => 'camsi', 'CSS0040087' => 'camsi', 'CSS0043179' => 'camsi', 'DCAR_006161' => 'dca', 'DCAR_010351' => 'dca', 'DCAR_012197' => 'dca', 'DCAR_024162' => 'dca', 'Dinv01030' => 'din', 'Dinv10924' => 'din', 'Dinv11835' => 'din', 'Dinv22841' => 'din', 'Dinv42553' => 'din', 'Duzib052G0560' => 'dzi', 'Duzib132G0389' => 'dzi', 'Duzib150G1181' => 'dzi', 'Duzib168G0623' => 'dzi', 'Duzib170G1036' => 'dzi', 'Duzib212G0200' => 'dzi', 'Duzib248G0194' => 'dzi', 'ECA232G2193' => 'eca', 'ECA233G0302' => 'eca', 'ECA234G2813' => 'eca', 'ECA234G4866' => 'eca', 'ECA240G3932' => 'eca', 'ECA248G0385' => 'eca', 'EL10Ac2g04781' => 'bvu', 'EL10Ac3g06445' => 'bvu', 'EL10Ac7g15825' => 'bvu', 'EL10Ac8g18550' => 'bvu', 'Eucgr.B03849' => 'egr', 'Eucgr.I02744' => 'egr', 'Eucgr.J00264' => 'egr', 'Eucgr.J00493' => 'egr', 'FAN04G2181' => 'fan', 'FAN07G2666' => 'fan', 'FAN11G0024' => 'fan', 'FAN12G1105' => 'fan', 'FAN13G0302' => 'fan', 'FAN15G2781' => 'fan', 'FAN16G1274' => 'fan', 'FAN17G2988' => 'fan', 'FAN18G2621' => 'fan', 'FAN21G0013' => 'fan', 'FAN22G1211' => 'fan', 'FAN25G3626' => 'fan', 'FvH4_2g09491' => 'fve', 'FvH4_3g24910' => 'fve', 'FvH4_4g15630' => 'fve', 'FvH4_5g28820' => 'fve', 'Glyma.01G238000' => 'gma', 'Glyma.05G168400' => 'gma', 'Glyma.08G126800' => 'gma', 'Glyma.08G188500' => 'gma', 'Glyma.10G278900' => 'gma', 'Glyma.11G005700' => 'gma', 'Glyma.11G183300' => 'gma', 'Glyma.12G089200' => 'gma', 'Glyma.12G169400' => 'gma', 'Glyma.12G169500' => 'gma', 'Glyma.12G169600' => 'gma', 'Glyma.20G110800' => 'gma', 'Gohir.A03G192900' => 'ghi', 'Gohir.A03G193000' => 'ghi', 'Gohir.A05G080700' => 'ghi', 'Gohir.A09G216000' => 'ghi', 'Gohir.A12G027700' => 'ghi', 'Gohir.A13G036200' => 'ghi', 'Gohir.A13G222600' => 'ghi', 'Gohir.D02G213900' => 'ghi', 'Gohir.D02G214000' => 'ghi', 'Gohir.D05G083700' => 'ghi', 'Gohir.D05G083800' => 'ghi', 'Gohir.D05G083850' => 'ghi', 'Gohir.D08G015400' => 'ghi', 'Gohir.D09G218400' => 'ghi', 'Gohir.D12G027100' => 'ghi', 'Gohir.D13G034500' => 'ghi', 'Gohir.D13G227400' => 'ghi', 'Gorai.005G241800' => 'gra', 'Gorai.005G241900' => 'gra', 'Gorai.006G239400' => 'gra', 'Gorai.008G027600' => 'gra', 'Gorai.009G085400' => 'gra', 'Gorai.009G085500' => 'gra', 'Gorai.013G039000' => 'gra', 'Gorai.013G194800' => 'gra', 'Gorai.013G257900' => 'gra', 'GSVIVG01000982001' => 'vvi', 'GSVIVG01017981001' => 'vvi', 'HanXRQChr01g0024061' => 'han', 'HanXRQChr09g0247831' => 'han', 'HanXRQChr10g0294611' => 'han', 'HanXRQChr10g0294621' => 'han', 'HanXRQChr11g0346821' => 'han', 'HanXRQChr13g0397461' => 'han', 'HanXRQChr16g0513651' => 'han', 'HanXRQChr16g0513701' => 'han', 'Haze_00897' => 'cav', 'Haze_01745' => 'cav', 'Haze_02486' => 'cav', 'Haze_02487' => 'cav', 'Haze_23374' => 'cav', 'Hma1.2p1_0578F.1_g182520' => 'hma', 'Hma1.2p1_0602F.1_g187350' => 'hma', 'Hma1.2p1_0602F.1_g187360' => 'hma', 'Hma1.2p1_0874F.1_g231320' => 'hma', 'Hma1.2p1_1197F.1_g266210' => 'hma', 'Hma1.2p1_1197F.1_g266220' => 'hma', 'Hma1.2p1_2167F.1_g315895' => 'hma', 'Hma1.2p1_2190F.1_g316640' => 'hma', 'Hma1.2p1_3645F.1_g337153' => 'hma', 'HPP92_004907' => 'vpl', 'HPP92_012134' => 'vpl', 'HPP92_025136' => 'vpl', 'HPP92_026087' => 'vpl', 'Hund06782' => 'sun', 'Hund06784' => 'sun', 'Lalb_Chr01g0004861' => 'lal', 'Lalb_Chr02g0140591' => 'lal', 'Lalb_Chr02g0140611' => 'lal', 'Lalb_Chr03g0028101' => 'lal', 'Lalb_Chr07g0185791' => 'lal', 'Lalb_Chr12g0204491' => 'lal', 'Lalb_Chr13g0295671' => 'lal', 'Lalb_Chr19g0136461' => 'lal', 'Lalb_Chr21g0309191' => 'lal', 'Lj1g0028158' => 'lja', 'Lj1P236T38' => 'lonja', 'Lj2C32G2' => 'lonja', 'Lj2P944T8' => 'lonja', 'Lj2P963T15' => 'lonja', 'Lj3g0011788' => 'lja', 'Lj4g0025027' => 'lja', 'Lj5P255T36' => 'lonja', 'Lj6g0018866' => 'lja', 'Lj6P608T31' => 'lonja', 'LjContig00408g0008879' => 'lja', 'Lsat_1_v5_gn_5_105820' => 'lsa', 'Lsat_1_v5_gn_6_38800' => 'lsa', 'Lsat_1_v5_gn_7_67141' => 'lsa', 'Manes.04G003400' => 'mes', 'Manes.07G020000' => 'mes', 'Manes.07G020100' => 'mes', 'Manes.07G020150' => 'mes', 'Manes.10G061500' => 'mes', 'Manes.10G123200' => 'mes', 'Manes.11G161900' => 'mes', 'Manes.15G029300' => 'mes', 'Mapoly0071s0018' => 'mpo', 'Mapoly0082s0023' => 'mpo', 'Mapoly3477s0001' => 'mpo', 'MBI05_g31233_MAGBIO' => 'mbi', 'MBI09_g05946_MAGBIO' => 'mbi', 'MBI09_g05947_MAGBIO' => 'mbi', 'MBI17_g08346_MAGBIO' => 'mbi', 'MCO04G038' => 'mco', 'MCO09G370' => 'mco', 'MCO13G605' => 'mco', 'MD00G1075500' => 'mdo', 'MD03G1144300' => 'mdo', 'MD08G1236800' => 'mdo', 'MD13G1193300' => 'mdo', 'MD15G1428700' => 'mdo', 'Medtr1g112030' => 'mtr', 'Medtr1g112050' => 'mtr', 'Medtr2g006290' => 'mtr', 'Medtr2g086510' => 'mtr', 'Medtr4g053120' => 'mtr', 'Medtr5g006320' => 'mtr', 'Medtr8g088720' => 'mtr', 'MELO3C004712.2' => 'cme', 'MELO3C006533.2' => 'cme', 'MELO3C019438.2' => 'cme', 'MELO3C019440.2' => 'cme', 'MELO3C019441.2' => 'cme', 'MELO3C019895.2' => 'cme', 'Migut.B00811' => 'egut', 'Migut.D02447' => 'egut', 'Migut.F00875' => 'egut', 'Migut.N00186' => 'egut', 'Migut.N01051' => 'egut', 'Migut.N02491' => 'egut', 'Migut.O00784' => 'egut', 'MSTRG.12367' => 'ama', 'MSTRG.18756' => 'ama', 'MSTRG.21042' => 'ama', 'Nitab4.5_0000559g0040' => 'nta', 'Nitab4.5_0000667g0190' => 'nta', 'Nitab4.5_0000755g0160' => 'nta', 'Nitab4.5_0001216g0080' => 'nta', 'Nitab4.5_0004069g0040' => 'nta', 'Nitab4.5_0004129g0010' => 'nta', 'Nitab4.5_0005744g0030' => 'nta', 'Nitab4.5_0006996g0030' => 'nta', 'Nitab4.5_0008971g0040' => 'nta', 'Nitab4.5_0009769g0020' => 'nta', 'Nitab4.5_0009833g0010' => 'nta', 'Nitab4.5_0013140g0020' => 'nta', 'Nn003s41376' => 'nnu', 'Nn1g01857' => 'nnu', 'Nn1g03611' => 'nnu', 'Nn1g06853' => 'nnu', 'Nn3g18360' => 'nnu', 'Nn4g26328' => 'nnu', 'Nn5g27531' => 'nnu', 'Nn6g34899' => 'nnu', 'Nn7g36299' => 'nnu', 'Oeu021485.1' => 'oeu', 'Oeu022433.1' => 'oeu', 'Oeu032111.1' => 'oeu', 'Oeu051608.1' => 'oeu', 'Os01g0860601' => 'osa', 'Os03g0659200' => 'osa', 'Os03g0835900' => 'osa', 'Os04g0412200' => 'osa', 'Os05g0443500' => 'osa', 'Os07g0251500' => 'osa', 'Os08g0104600' => 'osa', 'Peaxi162Scf00003g00047' => 'pax', 'Peaxi162Scf00003g00052' => 'pax', 'Peaxi162Scf00003g00394' => 'pax', 'Peaxi162Scf00091g00621' => 'pax', 'Peaxi162Scf00152g00146' => 'pax', 'Peaxi162Scf00173g00025' => 'pax', 'Peaxi162Scf00195g00102' => 'pax', 'Peaxi162Scf00402g00013' => 'pax', 'Peaxi162Scf00519g00618' => 'pax', 'PGR004G2838' => 'pgr', 'PGR044G2275' => 'pgr', 'PGR102G1377' => 'pgr', 'PGR119G1245' => 'pgr', 'PGR142G4449' => 'pgr', 'PGSC0003DMG400004532' => 'stu', 'PGSC0003DMG400011950' => 'stu', 'PGSC0003DMG400023391' => 'stu', 'PGSC0003DMG400023985' => 'stu', 'PGSC0003DMG400026360' => 'stu', 'PGSC0003DMG400035711' => 'stu', 'PGSC0003DMG400037286' => 'stu', 'PGSC0003DMG402005881' => 'stu', 'Phvul.002G045400' => 'pvu', 'Phvul.006G216600' => 'pvu', 'Phvul.006G216700' => 'pvu', 'Phvul.006G216800' => 'pvu', 'Phvul.007G022500' => 'pvu', 'Phvul.011G094400' => 'pvu', 'Potri.001G470700' => 'ptr', 'Potri.003G015200' => 'ptr', 'Potri.004G202500' => 'ptr', 'Potri.004G218400' => 'ptr', 'Potri.008G020100' => 'ptr', 'Potri.008G153200' => 'ptr', 'Potri.009G163800' => 'ptr', 'Potri.010G087300' => 'ptr', 'Potri.010G239100' => 'ptr', 'Pp3c10_16100' => 'ppa', 'Pp3c10_16880' => 'ppa', 'Pp3c16_6230' => 'ppa', 'Pp3c17_18910' => 'ppa', 'Pp3c3_22119' => 'ppa', 'Pp3c3_22140' => 'ppa', 'Pp3c4_8159' => 'ppa', 'Pp3c4_8171' => 'ppa', 'Pp3c4_8330' => 'ppa', 'PRCOL_00004098' => 'pco', 'Prupe.1G013900' => 'ppe', 'Prupe.1G226300' => 'ppe', 'Prupe.1G573600' => 'ppe', 'Prupe.6G130100' => 'ppe', 'Psat3g090040' => 'psa', 'Psat4g210440' => 'psa', 'Psat6g231040' => 'psa', 'Psat6g231080' => 'psa', 'Psat7g063000' => 'psa', 'Psat7g188000' => 'psa', 'Psat7g188040' => 'psa', 'PSO017G0206' => 'pso', 'PSO170G0501' => 'pso', 'PSO170G6422' => 'pso', 'PSO210G7739' => 'pso', 'PSO339G1808' => 'pso', 'PSO339G6135' => 'pso', 'PSO384G0010' => 'pso', 'PSO384G0964' => 'pso', 'PSO761G0050' => 'pso', 'PSO782G4085' => 'pso', 'QL01p012264' => 'qlo', 'QL02p099491' => 'qlo', 'QL03p033868' => 'qlo', 'QL04p046678' => 'qlo', 'QL06p002448' => 'qlo', 'RcHm_v2.0_Chr4g0416181' => 'rch', 'RcHm_v2.0_Chr5g0044701' => 'rch', 'RcHm_v2.0_Chr6g0265781' => 'rch', 'RcHm_v2.0_Chr7g0221031' => 'rch', 'Rhsim04G0202000' => 'rsi', 'Rhsim11G0127300' => 'rsi', 'Rhsim13G0111800' => 'rsi', 'Sabra01G0165600' => 'sbr', 'Sabra03G0008300' => 'sbr', 'Sabra04G0136900' => 'sbr', 'Sabra08G0013400' => 'sbr', 'Sabra08G0116800' => 'sbr', 'Sabra09G0128000' => 'sbr', 'Sabra10G0055500' => 'sbr', 'Sabra10G0073300' => 'sbr', 'SalBow3G0385' => 'sbo', 'SalBow3G1119' => 'sbo', 'SalBow3G2005' => 'sbo', 'SalBow6G2563' => 'sbo', 'SalBow6G6386' => 'sbo', 'Sc06g0008800' => 'sci', 'Sc07g0004950' => 'sci', 'Sc09g0005340' => 'sci', 'Sc13g0004410' => 'sci', 'Sc21g0007090' => 'sci', 'Sed0009285' => 'sed', 'Sed0017583' => 'sed', 'Sed0019699' => 'sed', 'Sed0023107' => 'sed', 'SEGI_10916' => 'sgi', 'SEGI_16217' => 'sgi', 'SEGI_19466' => 'sgi', 'SEGI_41115' => 'sgi', 'SGA_v2.0_scaffold111G31534' => 'sas', 'SGA_v2.0_scaffold22G09864' => 'sas', 'SGA_v2.0_scaffold338G49219' => 'sas', 'SGA_v2.0_scaffold92G28298' => 'sas', 'SMO119G0064' => 'smo', 'SMO223G0038' => 'smo', 'SMO347G0584' => 'smo', 'SMO351G0010' => 'smo', 'SMO356G0404' => 'smo', 'Solyc01g103920.3' => 'sly', 'Solyc04g009710.2' => 'sly', 'Solyc05g055280.2' => 'sly', 'Solyc10g044520.3' => 'sly', 'Solyc10g075160.1' => 'sly', 'Solyc11g006910.3' => 'sly', 'Solyc11g068430.3' => 'sly', 'Sopen01g046310' => 'spe', 'Sopen03g001200' => 'spe', 'Sopen04g004830' => 'spe', 'Sopen05g033720' => 'spe', 'Sopen06g030740' => 'spe', 'Sopen10g013090' => 'spe', 'Sopen10g027630' => 'spe', 'Sopen10g027640' => 'spe', 'Sopen11g002820' => 'spe', 'Sopen11g027140' => 'spe', 'Sp1g09680' => 'spa', 'Sp2g03630' => 'spa', 'Sp4g10320' => 'spa', 'Sp6g33400' => 'spa', 'Sp7g13030' => 'spa', 'TAR365G0317' => 'tar', 'TAR376G0979' => 'tar', 'TAR623G1665' => 'tar', 'TAR633G2373' => 'tar', 'TAR636G1400' => 'tar', 'THA.LOC104800529' => 'tha', 'THA.LOC104808547' => 'tha', 'THA.LOC104809615' => 'tha', 'THA.LOC104815724' => 'tha', 'THA.LOC104818480' => 'tha', 'THA.LOC104819179' => 'tha', 'THA.LOC104822270' => 'tha', 'THA.LOC104826425' => 'tha', 'Thecc.02G089700' => 'tca', 'Thecc.04G232300' => 'tca', 'Thecc.09G283400' => 'tca', 'Thhalv10009020m.g' => 'esa', 'Thhalv10015506m.g' => 'esa', 'Thhalv10017364m.g' => 'esa', 'Thhalv10023742m.g' => 'esa', 'Thhalv10026483m.g' => 'esa', 'TPR.G17232' => 'tpr', 'TPR.G2133' => 'tpr', 'TPR.G2498' => 'tpr', 'TPR.G31942' => 'tpr', 'TPR.G37877' => 'tpr', 'TPR.G4571' => 'tpr', 'TWI14G1113' => 'twi', 'TWI15G0426' => 'twi', 'TWI31G1005' => 'twi', 'TWI38G0513' => 'twi', 'TWI38G1484' => 'twi', 'TWI73G1098' => 'twi', 'unitig_26.g10519' => 'ugi', 'unitig_736.g22395' => 'ugi', 'unitig_747.g21234' => 'ugi', 'unitig_747.g21942' => 'ugi', 'vmacro14351' => 'vma', 'VMungo0540G0082' => 'vmu', 'VMungo0540G0405' => 'vmu', 'VMungo0540G1486' => 'vmu', 'VMungo0540G1692' => 'vmu', 'VMungo0720G2473' => 'vmu', 'VMungo1127G1562' => 'vmu', 'VMungo1215G1918' => 'vmu', 'Zm00001eb052650' => 'zma', 'Zm00001eb063710' => 'zma', 'Zm00001eb083950' => 'zma', 'Zm00001eb174420' => 'zma', 'Zm00001eb260140' => 'zma', 'Zm00001eb260150' => 'zma', 'Zm00001eb260160' => 'zma', 'Zm00001eb348290' => 'zma', 'Zm00001eb366870' => 'zma', 'Zm00001eb421930' => 'zma' ), 'gf_id' => 'HOM05D001025', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001025' ), 'data_identifier' => 'HOM05D001025', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001025', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '592', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p22650' => 'bna', 'A01p29720' => 'bna', 'A03p26560' => 'bna', 'A03p68820' => 'bna', 'A04p20980' => 'bna', 'A06p07730' => 'bna', 'A07p18260' => 'bna', 'A08p33710' => 'bna', 'A09p16970' => 'bna', 'A10p27490' => 'bna', 'Aa31LG1G17300' => 'aar', 'Aa31LG1G3910' => 'aar', 'Aa31LG2G9630' => 'aar', 'Aa31LG5G8360' => 'aar', 'Aa31LG9G2410' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4699' => 'aag', 'Actinidia23512' => 'ach', 'Actinidia37080' => 'ach', 'Ah.01g020380' => 'amhyb', 'Ah.08g215710' => 'amhyb', 'Ah.09g225110' => 'amhyb', 'Ah.10g036680' => 'amhyb', 'AL1G21940' => 'aly', 'AL2G15540' => 'aly', 'AL4G21520' => 'aly', 'AL7G40960' => 'aly', 'Aqoxy2G01191' => 'aox', 'Aqoxy2G03393' => 'aox', 'Aqoxy4G02775' => 'aox', 'Aqoxy6G00058' => 'aox', 'arahy.Tifrunner.gnm1.ann1.9X74H2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CW3FX9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R485W7' => 'arhy', 'AT1G10960' => 'ath', 'AT1G60950' => 'ath', 'AT2G27510' => 'ath', 'AT4G14890' => 'ath', 'AT5G10000' => 'ath', 'ATR0665G624' => 'atr', 'ATR0697G138' => 'atr', 'ATR0776G046' => 'atr', 'ATR1134G135' => 'atr', 'Atru.chr12.1025' => 'acertr', 'Atru.chr3.3241' => 'acertr', 'Atru.chr4.2460' => 'acertr', 'AUR62007427' => 'cqu', 'AUR62010960' => 'cqu', 'AUR62012201' => 'cqu', 'AUR62021470' => 'cqu', 'AUR62022834' => 'cqu', 'AUR62033635' => 'cqu', 'AUR62036186' => 'cqu', 'BcaB01g03077' => 'bca', 'BcaB02g10093' => 'bca', 'BcaB04g20295' => 'bca', 'BcaB06g28147' => 'bca', 'BcaB07g31253' => 'bca', 'BcaC01g04946' => 'bca', 'BcaC02g10614' => 'bca', 'BcaC02g10885' => 'bca', 'BcaC04g19356' => 'bca', 'BcaC04g22297' => 'bca', 'BcaC05g24977' => 'bca', 'BcaC06g31823' => 'bca', 'BcaC07g38633' => 'bca', 'BcaC09g49353' => 'bca', 'BcaC09g50168' => 'bca', 'BcaNung00322' => 'bca', 'BcaNung04769' => 'bca', 'BolC1t02753H' => 'bol', 'BolC1t03721H' => 'bol', 'BolC3t15525H' => 'bol', 'BolC4t23903H' => 'bol', 'BolC4t24231H' => 'bol', 'BolC4t27209H' => 'bol', 'BolC5t29671H' => 'bol', 'BolC8t49044H' => 'bol', 'BolC9t54999H' => 'bol', 'BolC9t59517H' => 'bol', 'BraA01t02178Z' => 'bra', 'BraA01t03099Z' => 'bra', 'BraA03t11867Z' => 'bra', 'BraA04t17667Z' => 'bra', 'BraA07t29542Z' => 'bra', 'BraA08t35287Z' => 'bra', 'BraA09t37334Z' => 'bra', 'BraA10t44801Z' => 'bra', 'BraSC39t46181Z' => 'bra', 'C01p28240' => 'bna', 'C01p37530' => 'bna', 'C03p31820' => 'bna', 'C04p24080' => 'bna', 'C04p25790' => 'bna', 'C04p56770' => 'bna', 'C05p09310' => 'bna', 'C09p21010' => 'bna', 'C09p67560' => 'bna', 'CAN.G1324.7' => 'can', 'CAN.G1358.10' => 'can', 'CAN.G1550.2' => 'can', 'CAN.G186.56' => 'can', 'CAN.G1965.1' => 'can', 'CAN.G645.15' => 'can', 'CAN.G798.26' => 'can', 'CAN.G798.27' => 'can', 'CAN.G798.29' => 'can', 'CAN.G919.31' => 'can', 'CANSAT11G0133' => 'cansat', 'CANSAT11G1171' => 'cansat', 'CANSAT11G2056' => 'cansat', 'CANSAT56G1202' => 'cansat', 'CANSAT56G1514' => 'cansat', 'CANSAT78G0455' => 'cansat', 'CARHR011190' => 'chi', 'CARHR051980' => 'chi', 'CARHR120170' => 'chi', 'CARHR203310' => 'chi', 'CARHR221490' => 'chi', 'Carub.0001s1054' => 'cru', 'Carub.0002s0431' => 'cru', 'Carub.0004s0818' => 'cru', 'Carub.0006s0846' => 'cru', 'Carub.0007s2722' => 'cru', 'Ca_00058_v3' => 'car', 'Ca_17831_v3' => 'car', 'Ca_19408_v3' => 'car', 'Ca_24397_v3' => 'car', 'Ca_25664_v3' => 'car', 'CBR_g21818' => 'cbr', 'CBR_g31195' => 'cbr', 'CBR_g32282' => 'cbr', 'CBR_g39599' => 'cbr', 'CBR_g49410' => 'cbr', 'Cc01_g09120' => 'ccan', 'Cc01_g09130' => 'ccan', 'Cc02_g09630' => 'ccan', 'Cc02_g22810' => 'ccan', 'Cc03_g03810' => 'ccan', 'CDE02G3718' => 'cde', 'CDE04G3183' => 'cde', 'CDE07G1046' => 'cde', 'CDE08G0480' => 'cde', 'Cfa005493' => 'cfa', 'Cfa010312' => 'cfa', 'Cfa015648' => 'cfa', 'Ciclev10002793m.g' => 'ccl', 'Ciclev10003356m.g' => 'ccl', 'Ciclev10006141m.g' => 'ccl', 'Ciclev10016676m.g' => 'ccl', 'Ciclev10017081m.g' => 'ccl', 'Ciclev10029499m.g' => 'ccl', 'CiPaw.01G166300' => 'cil', 'CiPaw.06G145600' => 'cil', 'CiPaw.13G040100' => 'cil', 'CiPaw.13G135800' => 'cil', 'ClCG01G012230' => 'cla', 'ClCG05G009510' => 'cla', 'ClCG08G008270' => 'cla', 'COL.COLO4_11763' => 'col', 'COL.COLO4_19876' => 'col', 'COL.COLO4_21481' => 'col', 'Cpa.g.sc118.34' => 'cpa', 'Cpa.g.sc32.13' => 'cpa', 'Cpa.g.sc58.103' => 'cpa', 'Cre03.g183850' => 'cre', 'Cre06.g306350' => 'cre', 'Cre07.g334800' => 'cre', 'Cre12.g487900' => 'cre', 'Cre14.g626700' => 'cre', 'Cre16.g658400' => 'cre', 'Cre17.g700950' => 'cre', 'CsaV3_1G014830' => 'csa', 'CsaV3_3G013320' => 'csa', 'CsaV3_3G019210' => 'csa', 'CsaV3_3G019220' => 'csa', 'CsaV3_6G004230' => 'csa', 'CSS0003773' => 'camsi', 'CSS0004563' => 'camsi', 'CSS0013949' => 'camsi', 'CSS0025971' => 'camsi', 'CSS0028570' => 'camsi', 'CSS0033127' => 'camsi', 'CSS0036051' => 'camsi', 'CSS0040087' => 'camsi', 'CSS0043179' => 'camsi', 'DCAR_006161' => 'dca', 'DCAR_010351' => 'dca', 'DCAR_012197' => 'dca', 'DCAR_024162' => 'dca', 'Dinv01030' => 'din', 'Dinv10924' => 'din', 'Dinv11835' => 'din', 'Dinv22841' => 'din', 'Dinv42553' => 'din', 'Duzib052G0560' => 'dzi', 'Duzib132G0389' => 'dzi', 'Duzib150G1181' => 'dzi', 'Duzib168G0623' => 'dzi', 'Duzib170G1036' => 'dzi', 'Duzib212G0200' => 'dzi', 'Duzib248G0194' => 'dzi', 'ECA232G2193' => 'eca', 'ECA233G0302' => 'eca', 'ECA234G2813' => 'eca', 'ECA234G4866' => 'eca', 'ECA240G3932' => 'eca', 'ECA248G0385' => 'eca', 'EL10Ac2g04781' => 'bvu', 'EL10Ac3g06445' => 'bvu', 'EL10Ac7g15825' => 'bvu', 'EL10Ac8g18550' => 'bvu', 'Eucgr.B03849' => 'egr', 'Eucgr.I02744' => 'egr', 'Eucgr.J00264' => 'egr', 'Eucgr.J00493' => 'egr', 'FAN04G2181' => 'fan', 'FAN07G2666' => 'fan', 'FAN11G0024' => 'fan', 'FAN12G1105' => 'fan', 'FAN13G0302' => 'fan', 'FAN15G2781' => 'fan', 'FAN16G1274' => 'fan', 'FAN17G2988' => 'fan', 'FAN18G2621' => 'fan', 'FAN21G0013' => 'fan', 'FAN22G1211' => 'fan', 'FAN25G3626' => 'fan', 'FvH4_2g09491' => 'fve', 'FvH4_3g24910' => 'fve', 'FvH4_4g15630' => 'fve', 'FvH4_5g28820' => 'fve', 'Glyma.01G238000' => 'gma', 'Glyma.05G168400' => 'gma', 'Glyma.08G126800' => 'gma', 'Glyma.08G188500' => 'gma', 'Glyma.10G278900' => 'gma', 'Glyma.11G005700' => 'gma', 'Glyma.11G183300' => 'gma', 'Glyma.12G089200' => 'gma', 'Glyma.12G169400' => 'gma', 'Glyma.12G169500' => 'gma', 'Glyma.12G169600' => 'gma', 'Glyma.20G110800' => 'gma', 'Gohir.A03G192900' => 'ghi', 'Gohir.A03G193000' => 'ghi', 'Gohir.A05G080700' => 'ghi', 'Gohir.A09G216000' => 'ghi', 'Gohir.A12G027700' => 'ghi', 'Gohir.A13G036200' => 'ghi', 'Gohir.A13G222600' => 'ghi', 'Gohir.D02G213900' => 'ghi', 'Gohir.D02G214000' => 'ghi', 'Gohir.D05G083700' => 'ghi', 'Gohir.D05G083800' => 'ghi', 'Gohir.D05G083850' => 'ghi', 'Gohir.D08G015400' => 'ghi', 'Gohir.D09G218400' => 'ghi', 'Gohir.D12G027100' => 'ghi', 'Gohir.D13G034500' => 'ghi', 'Gohir.D13G227400' => 'ghi', 'Gorai.005G241800' => 'gra', 'Gorai.005G241900' => 'gra', 'Gorai.006G239400' => 'gra', 'Gorai.008G027600' => 'gra', 'Gorai.009G085400' => 'gra', 'Gorai.009G085500' => 'gra', 'Gorai.013G039000' => 'gra', 'Gorai.013G194800' => 'gra', 'Gorai.013G257900' => 'gra', 'GSVIVG01000982001' => 'vvi', 'GSVIVG01017981001' => 'vvi', 'HanXRQChr01g0024061' => 'han', 'HanXRQChr09g0247831' => 'han', 'HanXRQChr10g0294611' => 'han', 'HanXRQChr10g0294621' => 'han', 'HanXRQChr11g0346821' => 'han', 'HanXRQChr13g0397461' => 'han', 'HanXRQChr16g0513651' => 'han', 'HanXRQChr16g0513701' => 'han', 'Haze_00897' => 'cav', 'Haze_01745' => 'cav', 'Haze_02486' => 'cav', 'Haze_02487' => 'cav', 'Haze_23374' => 'cav', 'Hma1.2p1_0578F.1_g182520' => 'hma', 'Hma1.2p1_0602F.1_g187350' => 'hma', 'Hma1.2p1_0602F.1_g187360' => 'hma', 'Hma1.2p1_0874F.1_g231320' => 'hma', 'Hma1.2p1_1197F.1_g266210' => 'hma', 'Hma1.2p1_1197F.1_g266220' => 'hma', 'Hma1.2p1_2167F.1_g315895' => 'hma', 'Hma1.2p1_2190F.1_g316640' => 'hma', 'Hma1.2p1_3645F.1_g337153' => 'hma', 'HPP92_004907' => 'vpl', 'HPP92_012134' => 'vpl', 'HPP92_025136' => 'vpl', 'HPP92_026087' => 'vpl', 'Hund06782' => 'sun', 'Hund06784' => 'sun', 'Lalb_Chr01g0004861' => 'lal', 'Lalb_Chr02g0140591' => 'lal', 'Lalb_Chr02g0140611' => 'lal', 'Lalb_Chr03g0028101' => 'lal', 'Lalb_Chr07g0185791' => 'lal', 'Lalb_Chr12g0204491' => 'lal', 'Lalb_Chr13g0295671' => 'lal', 'Lalb_Chr19g0136461' => 'lal', 'Lalb_Chr21g0309191' => 'lal', 'Lj1g0028158' => 'lja', 'Lj1P236T38' => 'lonja', 'Lj2C32G2' => 'lonja', 'Lj2P944T8' => 'lonja', 'Lj2P963T15' => 'lonja', 'Lj3g0011788' => 'lja', 'Lj4g0025027' => 'lja', 'Lj5P255T36' => 'lonja', 'Lj6g0018866' => 'lja', 'Lj6P608T31' => 'lonja', 'LjContig00408g0008879' => 'lja', 'Lsat_1_v5_gn_5_105820' => 'lsa', 'Lsat_1_v5_gn_6_38800' => 'lsa', 'Lsat_1_v5_gn_7_67141' => 'lsa', 'Manes.04G003400' => 'mes', 'Manes.07G020000' => 'mes', 'Manes.07G020100' => 'mes', 'Manes.07G020150' => 'mes', 'Manes.10G061500' => 'mes', 'Manes.10G123200' => 'mes', 'Manes.11G161900' => 'mes', 'Manes.15G029300' => 'mes', 'Mapoly0071s0018' => 'mpo', 'Mapoly0082s0023' => 'mpo', 'Mapoly3477s0001' => 'mpo', 'MBI05_g31233_MAGBIO' => 'mbi', 'MBI09_g05946_MAGBIO' => 'mbi', 'MBI09_g05947_MAGBIO' => 'mbi', 'MBI17_g08346_MAGBIO' => 'mbi', 'MCO04G038' => 'mco', 'MCO09G370' => 'mco', 'MCO13G605' => 'mco', 'MD00G1075500' => 'mdo', 'MD03G1144300' => 'mdo', 'MD08G1236800' => 'mdo', 'MD13G1193300' => 'mdo', 'MD15G1428700' => 'mdo', 'Medtr1g112030' => 'mtr', 'Medtr1g112050' => 'mtr', 'Medtr2g006290' => 'mtr', 'Medtr2g086510' => 'mtr', 'Medtr4g053120' => 'mtr', 'Medtr5g006320' => 'mtr', 'Medtr8g088720' => 'mtr', 'MELO3C004712.2' => 'cme', 'MELO3C006533.2' => 'cme', 'MELO3C019438.2' => 'cme', 'MELO3C019440.2' => 'cme', 'MELO3C019441.2' => 'cme', 'MELO3C019895.2' => 'cme', 'Migut.B00811' => 'egut', 'Migut.D02447' => 'egut', 'Migut.F00875' => 'egut', 'Migut.N00186' => 'egut', 'Migut.N01051' => 'egut', 'Migut.N02491' => 'egut', 'Migut.O00784' => 'egut', 'MSTRG.12367' => 'ama', 'MSTRG.18756' => 'ama', 'MSTRG.21042' => 'ama', 'Nitab4.5_0000559g0040' => 'nta', 'Nitab4.5_0000667g0190' => 'nta', 'Nitab4.5_0000755g0160' => 'nta', 'Nitab4.5_0001216g0080' => 'nta', 'Nitab4.5_0004069g0040' => 'nta', 'Nitab4.5_0004129g0010' => 'nta', 'Nitab4.5_0005744g0030' => 'nta', 'Nitab4.5_0006996g0030' => 'nta', 'Nitab4.5_0008971g0040' => 'nta', 'Nitab4.5_0009769g0020' => 'nta', 'Nitab4.5_0009833g0010' => 'nta', 'Nitab4.5_0013140g0020' => 'nta', 'Nn003s41376' => 'nnu', 'Nn1g01857' => 'nnu', 'Nn1g03611' => 'nnu', 'Nn1g06853' => 'nnu', 'Nn3g18360' => 'nnu', 'Nn4g26328' => 'nnu', 'Nn5g27531' => 'nnu', 'Nn6g34899' => 'nnu', 'Nn7g36299' => 'nnu', 'Oeu021485.1' => 'oeu', 'Oeu022433.1' => 'oeu', 'Oeu032111.1' => 'oeu', 'Oeu051608.1' => 'oeu', 'Os01g0860601' => 'osa', 'Os03g0659200' => 'osa', 'Os03g0835900' => 'osa', 'Os04g0412200' => 'osa', 'Os05g0443500' => 'osa', 'Os07g0251500' => 'osa', 'Os08g0104600' => 'osa', 'Peaxi162Scf00003g00047' => 'pax', 'Peaxi162Scf00003g00052' => 'pax', 'Peaxi162Scf00003g00394' => 'pax', 'Peaxi162Scf00091g00621' => 'pax', 'Peaxi162Scf00152g00146' => 'pax', 'Peaxi162Scf00173g00025' => 'pax', 'Peaxi162Scf00195g00102' => 'pax', 'Peaxi162Scf00402g00013' => 'pax', 'Peaxi162Scf00519g00618' => 'pax', 'PGR004G2838' => 'pgr', 'PGR044G2275' => 'pgr', 'PGR102G1377' => 'pgr', 'PGR119G1245' => 'pgr', 'PGR142G4449' => 'pgr', 'PGSC0003DMG400004532' => 'stu', 'PGSC0003DMG400011950' => 'stu', 'PGSC0003DMG400023391' => 'stu', 'PGSC0003DMG400023985' => 'stu', 'PGSC0003DMG400026360' => 'stu', 'PGSC0003DMG400035711' => 'stu', 'PGSC0003DMG400037286' => 'stu', 'PGSC0003DMG402005881' => 'stu', 'Phvul.002G045400' => 'pvu', 'Phvul.006G216600' => 'pvu', 'Phvul.006G216700' => 'pvu', 'Phvul.006G216800' => 'pvu', 'Phvul.007G022500' => 'pvu', 'Phvul.011G094400' => 'pvu', 'Potri.001G470700' => 'ptr', 'Potri.003G015200' => 'ptr', 'Potri.004G202500' => 'ptr', 'Potri.004G218400' => 'ptr', 'Potri.008G020100' => 'ptr', 'Potri.008G153200' => 'ptr', 'Potri.009G163800' => 'ptr', 'Potri.010G087300' => 'ptr', 'Potri.010G239100' => 'ptr', 'Pp3c10_16100' => 'ppa', 'Pp3c10_16880' => 'ppa', 'Pp3c16_6230' => 'ppa', 'Pp3c17_18910' => 'ppa', 'Pp3c3_22119' => 'ppa', 'Pp3c3_22140' => 'ppa', 'Pp3c4_8159' => 'ppa', 'Pp3c4_8171' => 'ppa', 'Pp3c4_8330' => 'ppa', 'PRCOL_00004098' => 'pco', 'Prupe.1G013900' => 'ppe', 'Prupe.1G226300' => 'ppe', 'Prupe.1G573600' => 'ppe', 'Prupe.6G130100' => 'ppe', 'Psat3g090040' => 'psa', 'Psat4g210440' => 'psa', 'Psat6g231040' => 'psa', 'Psat6g231080' => 'psa', 'Psat7g063000' => 'psa', 'Psat7g188000' => 'psa', 'Psat7g188040' => 'psa', 'PSO017G0206' => 'pso', 'PSO170G0501' => 'pso', 'PSO170G6422' => 'pso', 'PSO210G7739' => 'pso', 'PSO339G1808' => 'pso', 'PSO339G6135' => 'pso', 'PSO384G0010' => 'pso', 'PSO384G0964' => 'pso', 'PSO761G0050' => 'pso', 'PSO782G4085' => 'pso', 'QL01p012264' => 'qlo', 'QL02p099491' => 'qlo', 'QL03p033868' => 'qlo', 'QL04p046678' => 'qlo', 'QL06p002448' => 'qlo', 'RcHm_v2.0_Chr4g0416181' => 'rch', 'RcHm_v2.0_Chr5g0044701' => 'rch', 'RcHm_v2.0_Chr6g0265781' => 'rch', 'RcHm_v2.0_Chr7g0221031' => 'rch', 'Rhsim04G0202000' => 'rsi', 'Rhsim11G0127300' => 'rsi', 'Rhsim13G0111800' => 'rsi', 'Sabra01G0165600' => 'sbr', 'Sabra03G0008300' => 'sbr', 'Sabra04G0136900' => 'sbr', 'Sabra08G0013400' => 'sbr', 'Sabra08G0116800' => 'sbr', 'Sabra09G0128000' => 'sbr', 'Sabra10G0055500' => 'sbr', 'Sabra10G0073300' => 'sbr', 'SalBow3G0385' => 'sbo', 'SalBow3G1119' => 'sbo', 'SalBow3G2005' => 'sbo', 'SalBow6G2563' => 'sbo', 'SalBow6G6386' => 'sbo', 'Sc06g0008800' => 'sci', 'Sc07g0004950' => 'sci', 'Sc09g0005340' => 'sci', 'Sc13g0004410' => 'sci', 'Sc21g0007090' => 'sci', 'Sed0009285' => 'sed', 'Sed0017583' => 'sed', 'Sed0019699' => 'sed', 'Sed0023107' => 'sed', 'SEGI_10916' => 'sgi', 'SEGI_16217' => 'sgi', 'SEGI_19466' => 'sgi', 'SEGI_41115' => 'sgi', 'SGA_v2.0_scaffold111G31534' => 'sas', 'SGA_v2.0_scaffold22G09864' => 'sas', 'SGA_v2.0_scaffold338G49219' => 'sas', 'SGA_v2.0_scaffold92G28298' => 'sas', 'SMO119G0064' => 'smo', 'SMO223G0038' => 'smo', 'SMO347G0584' => 'smo', 'SMO351G0010' => 'smo', 'SMO356G0404' => 'smo', 'Solyc01g103920.3' => 'sly', 'Solyc04g009710.2' => 'sly', 'Solyc05g055280.2' => 'sly', 'Solyc10g044520.3' => 'sly', 'Solyc10g075160.1' => 'sly', 'Solyc11g006910.3' => 'sly', 'Solyc11g068430.3' => 'sly', 'Sopen01g046310' => 'spe', 'Sopen03g001200' => 'spe', 'Sopen04g004830' => 'spe', 'Sopen05g033720' => 'spe', 'Sopen06g030740' => 'spe', 'Sopen10g013090' => 'spe', 'Sopen10g027630' => 'spe', 'Sopen10g027640' => 'spe', 'Sopen11g002820' => 'spe', 'Sopen11g027140' => 'spe', 'Sp1g09680' => 'spa', 'Sp2g03630' => 'spa', 'Sp4g10320' => 'spa', 'Sp6g33400' => 'spa', 'Sp7g13030' => 'spa', 'TAR365G0317' => 'tar', 'TAR376G0979' => 'tar', 'TAR623G1665' => 'tar', 'TAR633G2373' => 'tar', 'TAR636G1400' => 'tar', 'THA.LOC104800529' => 'tha', 'THA.LOC104808547' => 'tha', 'THA.LOC104809615' => 'tha', 'THA.LOC104815724' => 'tha', 'THA.LOC104818480' => 'tha', 'THA.LOC104819179' => 'tha', 'THA.LOC104822270' => 'tha', 'THA.LOC104826425' => 'tha', 'Thecc.02G089700' => 'tca', 'Thecc.04G232300' => 'tca', 'Thecc.09G283400' => 'tca', 'Thhalv10009020m.g' => 'esa', 'Thhalv10015506m.g' => 'esa', 'Thhalv10017364m.g' => 'esa', 'Thhalv10023742m.g' => 'esa', 'Thhalv10026483m.g' => 'esa', 'TPR.G17232' => 'tpr', 'TPR.G2133' => 'tpr', 'TPR.G2498' => 'tpr', 'TPR.G31942' => 'tpr', 'TPR.G37877' => 'tpr', 'TPR.G4571' => 'tpr', 'TWI14G1113' => 'twi', 'TWI15G0426' => 'twi', 'TWI31G1005' => 'twi', 'TWI38G0513' => 'twi', 'TWI38G1484' => 'twi', 'TWI73G1098' => 'twi', 'unitig_26.g10519' => 'ugi', 'unitig_736.g22395' => 'ugi', 'unitig_747.g21234' => 'ugi', 'unitig_747.g21942' => 'ugi', 'vmacro14351' => 'vma', 'VMungo0540G0082' => 'vmu', 'VMungo0540G0405' => 'vmu', 'VMungo0540G1486' => 'vmu', 'VMungo0540G1692' => 'vmu', 'VMungo0720G2473' => 'vmu', 'VMungo1127G1562' => 'vmu', 'VMungo1215G1918' => 'vmu', 'Zm00001eb052650' => 'zma', 'Zm00001eb063710' => 'zma', 'Zm00001eb083950' => 'zma', 'Zm00001eb174420' => 'zma', 'Zm00001eb260140' => 'zma', 'Zm00001eb260150' => 'zma', 'Zm00001eb260160' => 'zma', 'Zm00001eb348290' => 'zma', 'Zm00001eb366870' => 'zma', 'Zm00001eb421930' => 'zma' ) $gf_id = 'HOM05D001025' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001025' ) $data_identifier = 'HOM05D001025' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 19, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 2, 'amhyb' => (int) 4, 'aly' => (int) 4, 'aox' => (int) 4, 'arhy' => (int) 3, 'ath' => (int) 5, 'atr' => (int) 4, 'acertr' => (int) 3, 'cqu' => (int) 7, 'bca' => (int) 17, 'bol' => (int) 10, 'bra' => (int) 9, 'can' => (int) 10, 'cansat' => (int) 6, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 5, 'cbr' => (int) 5, 'ccan' => (int) 5, 'cde' => (int) 4, 'cfa' => (int) 3, 'ccl' => (int) 6, 'cil' => (int) 4, 'cla' => (int) 3, 'col' => (int) 3, 'cpa' => (int) 3, 'cre' => (int) 7, 'csa' => (int) 5, 'camsi' => (int) 9, 'dca' => (int) 4, 'din' => (int) 5, 'dzi' => (int) 7, 'eca' => (int) 6, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 12, 'fve' => (int) 4, 'gma' => (int) 12, 'ghi' => (int) 17, 'gra' => (int) 9, 'vvi' => (int) 2, 'han' => (int) 8, 'cav' => (int) 5, 'hma' => (int) 9, 'vpl' => (int) 4, 'sun' => (int) 2, 'lal' => (int) 9, 'lja' => (int) 5, 'lonja' => (int) 6, 'lsa' => (int) 3, 'mes' => (int) 8, 'mpo' => (int) 3, 'mbi' => (int) 4, 'mco' => (int) 3, 'mdo' => (int) 5, 'mtr' => (int) 7, 'cme' => (int) 6, 'egut' => (int) 7, 'ama' => (int) 3, 'nta' => (int) 12, 'nnu' => (int) 9, 'oeu' => (int) 4, 'osa' => (int) 7, 'pax' => (int) 9, 'pgr' => (int) 5, 'stu' => (int) 8, 'pvu' => (int) 6, 'ptr' => (int) 9, 'ppa' => (int) 9, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 7, 'pso' => (int) 10, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 3, 'sbr' => (int) 8, 'sbo' => (int) 5, 'sci' => (int) 5, 'sed' => (int) 4, 'sgi' => (int) 4, 'sas' => (int) 4, 'smo' => (int) 5, 'sly' => (int) 7, 'spe' => (int) 10, 'spa' => (int) 5, 'tar' => (int) 5, 'tha' => (int) 8, 'tca' => (int) 3, 'esa' => (int) 5, 'tpr' => (int) 6, 'twi' => (int) 6, 'ugi' => (int) 4, 'vma' => (int) 1, 'vmu' => (int) 7, 'zma' => (int) 10 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb421930' $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' => 'HOM05D001025', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '592', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p22650' => 'bna', 'A01p29720' => 'bna', 'A03p26560' => 'bna', 'A03p68820' => 'bna', 'A04p20980' => 'bna', 'A06p07730' => 'bna', 'A07p18260' => 'bna', 'A08p33710' => 'bna', 'A09p16970' => 'bna', 'A10p27490' => 'bna', 'Aa31LG1G17300' => 'aar', 'Aa31LG1G3910' => 'aar', 'Aa31LG2G9630' => 'aar', 'Aa31LG5G8360' => 'aar', 'Aa31LG9G2410' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4699' => 'aag', 'Actinidia23512' => 'ach', 'Actinidia37080' => 'ach', 'Ah.01g020380' => 'amhyb', 'Ah.08g215710' => 'amhyb', 'Ah.09g225110' => 'amhyb', 'Ah.10g036680' => 'amhyb', 'AL1G21940' => 'aly', 'AL2G15540' => 'aly', 'AL4G21520' => 'aly', 'AL7G40960' => 'aly', 'Aqoxy2G01191' => 'aox', 'Aqoxy2G03393' => 'aox', 'Aqoxy4G02775' => 'aox', 'Aqoxy6G00058' => 'aox', 'arahy.Tifrunner.gnm1.ann1.9X74H2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CW3FX9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R485W7' => 'arhy', 'AT1G10960' => 'ath', 'AT1G60950' => 'ath', 'AT2G27510' => 'ath', 'AT4G14890' => 'ath', 'AT5G10000' => 'ath', 'ATR0665G624' => 'atr', 'ATR0697G138' => 'atr', 'ATR0776G046' => 'atr', 'ATR1134G135' => 'atr', 'Atru.chr12.1025' => 'acertr', 'Atru.chr3.3241' => 'acertr', 'Atru.chr4.2460' => 'acertr', 'AUR62007427' => 'cqu', 'AUR62010960' => 'cqu', 'AUR62012201' => 'cqu', 'AUR62021470' => 'cqu', 'AUR62022834' => 'cqu', 'AUR62033635' => 'cqu', 'AUR62036186' => 'cqu', 'BcaB01g03077' => 'bca', 'BcaB02g10093' => 'bca', 'BcaB04g20295' => 'bca', 'BcaB06g28147' => 'bca', 'BcaB07g31253' => 'bca', 'BcaC01g04946' => 'bca', 'BcaC02g10614' => 'bca', 'BcaC02g10885' => 'bca', 'BcaC04g19356' => 'bca', 'BcaC04g22297' => 'bca', 'BcaC05g24977' => 'bca', 'BcaC06g31823' => 'bca', 'BcaC07g38633' => 'bca', 'BcaC09g49353' => 'bca', 'BcaC09g50168' => 'bca', 'BcaNung00322' => 'bca', 'BcaNung04769' => 'bca', 'BolC1t02753H' => 'bol', 'BolC1t03721H' => 'bol', 'BolC3t15525H' => 'bol', 'BolC4t23903H' => 'bol', 'BolC4t24231H' => 'bol', 'BolC4t27209H' => 'bol', 'BolC5t29671H' => 'bol', 'BolC8t49044H' => 'bol', 'BolC9t54999H' => 'bol', 'BolC9t59517H' => 'bol', 'BraA01t02178Z' => 'bra', 'BraA01t03099Z' => 'bra', 'BraA03t11867Z' => 'bra', 'BraA04t17667Z' => 'bra', 'BraA07t29542Z' => 'bra', 'BraA08t35287Z' => 'bra', 'BraA09t37334Z' => 'bra', 'BraA10t44801Z' => 'bra', 'BraSC39t46181Z' => 'bra', 'C01p28240' => 'bna', 'C01p37530' => 'bna', 'C03p31820' => 'bna', 'C04p24080' => 'bna', 'C04p25790' => 'bna', 'C04p56770' => 'bna', 'C05p09310' => 'bna', 'C09p21010' => 'bna', 'C09p67560' => 'bna', 'CAN.G1324.7' => 'can', 'CAN.G1358.10' => 'can', 'CAN.G1550.2' => 'can', 'CAN.G186.56' => 'can', 'CAN.G1965.1' => 'can', 'CAN.G645.15' => 'can', 'CAN.G798.26' => 'can', 'CAN.G798.27' => 'can', 'CAN.G798.29' => 'can', 'CAN.G919.31' => 'can', 'CANSAT11G0133' => 'cansat', 'CANSAT11G1171' => 'cansat', 'CANSAT11G2056' => 'cansat', 'CANSAT56G1202' => 'cansat', 'CANSAT56G1514' => 'cansat', 'CANSAT78G0455' => 'cansat', 'CARHR011190' => 'chi', 'CARHR051980' => 'chi', 'CARHR120170' => 'chi', 'CARHR203310' => 'chi', 'CARHR221490' => 'chi', 'Carub.0001s1054' => 'cru', 'Carub.0002s0431' => 'cru', 'Carub.0004s0818' => 'cru', 'Carub.0006s0846' => 'cru', 'Carub.0007s2722' => 'cru', 'Ca_00058_v3' => 'car', 'Ca_17831_v3' => 'car', 'Ca_19408_v3' => 'car', 'Ca_24397_v3' => 'car', 'Ca_25664_v3' => 'car', 'CBR_g21818' => 'cbr', 'CBR_g31195' => 'cbr', 'CBR_g32282' => 'cbr', 'CBR_g39599' => 'cbr', 'CBR_g49410' => 'cbr', 'Cc01_g09120' => 'ccan', 'Cc01_g09130' => 'ccan', 'Cc02_g09630' => 'ccan', 'Cc02_g22810' => 'ccan', 'Cc03_g03810' => 'ccan', 'CDE02G3718' => 'cde', 'CDE04G3183' => 'cde', 'CDE07G1046' => 'cde', 'CDE08G0480' => 'cde', 'Cfa005493' => 'cfa', 'Cfa010312' => 'cfa', 'Cfa015648' => 'cfa', 'Ciclev10002793m.g' => 'ccl', 'Ciclev10003356m.g' => 'ccl', 'Ciclev10006141m.g' => 'ccl', 'Ciclev10016676m.g' => 'ccl', 'Ciclev10017081m.g' => 'ccl', 'Ciclev10029499m.g' => 'ccl', 'CiPaw.01G166300' => 'cil', 'CiPaw.06G145600' => 'cil', 'CiPaw.13G040100' => 'cil', 'CiPaw.13G135800' => 'cil', 'ClCG01G012230' => 'cla', 'ClCG05G009510' => 'cla', 'ClCG08G008270' => 'cla', 'COL.COLO4_11763' => 'col', 'COL.COLO4_19876' => 'col', 'COL.COLO4_21481' => 'col', 'Cpa.g.sc118.34' => 'cpa', 'Cpa.g.sc32.13' => 'cpa', 'Cpa.g.sc58.103' => 'cpa', 'Cre03.g183850' => 'cre', 'Cre06.g306350' => 'cre', 'Cre07.g334800' => 'cre', 'Cre12.g487900' => 'cre', 'Cre14.g626700' => 'cre', 'Cre16.g658400' => 'cre', 'Cre17.g700950' => 'cre', 'CsaV3_1G014830' => 'csa', 'CsaV3_3G013320' => 'csa', 'CsaV3_3G019210' => 'csa', 'CsaV3_3G019220' => 'csa', 'CsaV3_6G004230' => 'csa', 'CSS0003773' => 'camsi', 'CSS0004563' => 'camsi', 'CSS0013949' => 'camsi', 'CSS0025971' => 'camsi', 'CSS0028570' => 'camsi', 'CSS0033127' => 'camsi', 'CSS0036051' => 'camsi', 'CSS0040087' => 'camsi', 'CSS0043179' => 'camsi', 'DCAR_006161' => 'dca', 'DCAR_010351' => 'dca', 'DCAR_012197' => 'dca', 'DCAR_024162' => 'dca', 'Dinv01030' => 'din', 'Dinv10924' => 'din', 'Dinv11835' => 'din', 'Dinv22841' => 'din', 'Dinv42553' => 'din', 'Duzib052G0560' => 'dzi', 'Duzib132G0389' => 'dzi', 'Duzib150G1181' => 'dzi', 'Duzib168G0623' => 'dzi', 'Duzib170G1036' => 'dzi', 'Duzib212G0200' => 'dzi', 'Duzib248G0194' => 'dzi', 'ECA232G2193' => 'eca', 'ECA233G0302' => 'eca', 'ECA234G2813' => 'eca', 'ECA234G4866' => 'eca', 'ECA240G3932' => 'eca', 'ECA248G0385' => 'eca', 'EL10Ac2g04781' => 'bvu', 'EL10Ac3g06445' => 'bvu', 'EL10Ac7g15825' => 'bvu', 'EL10Ac8g18550' => 'bvu', 'Eucgr.B03849' => 'egr', 'Eucgr.I02744' => 'egr', 'Eucgr.J00264' => 'egr', 'Eucgr.J00493' => 'egr', 'FAN04G2181' => 'fan', 'FAN07G2666' => 'fan', 'FAN11G0024' => 'fan', 'FAN12G1105' => 'fan', 'FAN13G0302' => 'fan', 'FAN15G2781' => 'fan', 'FAN16G1274' => 'fan', 'FAN17G2988' => 'fan', 'FAN18G2621' => 'fan', 'FAN21G0013' => 'fan', 'FAN22G1211' => 'fan', 'FAN25G3626' => 'fan', 'FvH4_2g09491' => 'fve', 'FvH4_3g24910' => 'fve', 'FvH4_4g15630' => 'fve', 'FvH4_5g28820' => 'fve', 'Glyma.01G238000' => 'gma', 'Glyma.05G168400' => 'gma', 'Glyma.08G126800' => 'gma', 'Glyma.08G188500' => 'gma', 'Glyma.10G278900' => 'gma', 'Glyma.11G005700' => 'gma', 'Glyma.11G183300' => 'gma', 'Glyma.12G089200' => 'gma', 'Glyma.12G169400' => 'gma', 'Glyma.12G169500' => 'gma', 'Glyma.12G169600' => 'gma', 'Glyma.20G110800' => 'gma', 'Gohir.A03G192900' => 'ghi', 'Gohir.A03G193000' => 'ghi', 'Gohir.A05G080700' => 'ghi', 'Gohir.A09G216000' => 'ghi', 'Gohir.A12G027700' => 'ghi', 'Gohir.A13G036200' => 'ghi', 'Gohir.A13G222600' => 'ghi', 'Gohir.D02G213900' => 'ghi', 'Gohir.D02G214000' => 'ghi', 'Gohir.D05G083700' => 'ghi', 'Gohir.D05G083800' => 'ghi', 'Gohir.D05G083850' => 'ghi', 'Gohir.D08G015400' => 'ghi', 'Gohir.D09G218400' => 'ghi', 'Gohir.D12G027100' => 'ghi', 'Gohir.D13G034500' => 'ghi', 'Gohir.D13G227400' => 'ghi', 'Gorai.005G241800' => 'gra', 'Gorai.005G241900' => 'gra', 'Gorai.006G239400' => 'gra', 'Gorai.008G027600' => 'gra', 'Gorai.009G085400' => 'gra', 'Gorai.009G085500' => 'gra', 'Gorai.013G039000' => 'gra', 'Gorai.013G194800' => 'gra', 'Gorai.013G257900' => 'gra', 'GSVIVG01000982001' => 'vvi', 'GSVIVG01017981001' => 'vvi', 'HanXRQChr01g0024061' => 'han', 'HanXRQChr09g0247831' => 'han', 'HanXRQChr10g0294611' => 'han', 'HanXRQChr10g0294621' => 'han', 'HanXRQChr11g0346821' => 'han', 'HanXRQChr13g0397461' => 'han', 'HanXRQChr16g0513651' => 'han', 'HanXRQChr16g0513701' => 'han', 'Haze_00897' => 'cav', 'Haze_01745' => 'cav', 'Haze_02486' => 'cav', 'Haze_02487' => 'cav', 'Haze_23374' => 'cav', 'Hma1.2p1_0578F.1_g182520' => 'hma', 'Hma1.2p1_0602F.1_g187350' => 'hma', 'Hma1.2p1_0602F.1_g187360' => 'hma', 'Hma1.2p1_0874F.1_g231320' => 'hma', 'Hma1.2p1_1197F.1_g266210' => 'hma', 'Hma1.2p1_1197F.1_g266220' => 'hma', 'Hma1.2p1_2167F.1_g315895' => 'hma', 'Hma1.2p1_2190F.1_g316640' => 'hma', 'Hma1.2p1_3645F.1_g337153' => 'hma', 'HPP92_004907' => 'vpl', 'HPP92_012134' => 'vpl', 'HPP92_025136' => 'vpl', 'HPP92_026087' => 'vpl', 'Hund06782' => 'sun', 'Hund06784' => 'sun', 'Lalb_Chr01g0004861' => 'lal', 'Lalb_Chr02g0140591' => 'lal', 'Lalb_Chr02g0140611' => 'lal', 'Lalb_Chr03g0028101' => 'lal', 'Lalb_Chr07g0185791' => 'lal', 'Lalb_Chr12g0204491' => 'lal', 'Lalb_Chr13g0295671' => 'lal', 'Lalb_Chr19g0136461' => 'lal', 'Lalb_Chr21g0309191' => 'lal', 'Lj1g0028158' => 'lja', 'Lj1P236T38' => 'lonja', 'Lj2C32G2' => 'lonja', 'Lj2P944T8' => 'lonja', 'Lj2P963T15' => 'lonja', 'Lj3g0011788' => 'lja', 'Lj4g0025027' => 'lja', 'Lj5P255T36' => 'lonja', 'Lj6g0018866' => 'lja', 'Lj6P608T31' => 'lonja', 'LjContig00408g0008879' => 'lja', 'Lsat_1_v5_gn_5_105820' => 'lsa', 'Lsat_1_v5_gn_6_38800' => 'lsa', 'Lsat_1_v5_gn_7_67141' => 'lsa', 'Manes.04G003400' => 'mes', 'Manes.07G020000' => 'mes', 'Manes.07G020100' => 'mes', 'Manes.07G020150' => 'mes', 'Manes.10G061500' => 'mes', 'Manes.10G123200' => 'mes', 'Manes.11G161900' => 'mes', 'Manes.15G029300' => 'mes', 'Mapoly0071s0018' => 'mpo', 'Mapoly0082s0023' => 'mpo', 'Mapoly3477s0001' => 'mpo', 'MBI05_g31233_MAGBIO' => 'mbi', 'MBI09_g05946_MAGBIO' => 'mbi', 'MBI09_g05947_MAGBIO' => 'mbi', 'MBI17_g08346_MAGBIO' => 'mbi', 'MCO04G038' => 'mco', 'MCO09G370' => 'mco', 'MCO13G605' => 'mco', 'MD00G1075500' => 'mdo', 'MD03G1144300' => 'mdo', 'MD08G1236800' => 'mdo', 'MD13G1193300' => 'mdo', 'MD15G1428700' => 'mdo', 'Medtr1g112030' => 'mtr', 'Medtr1g112050' => 'mtr', 'Medtr2g006290' => 'mtr', 'Medtr2g086510' => 'mtr', 'Medtr4g053120' => 'mtr', 'Medtr5g006320' => 'mtr', 'Medtr8g088720' => 'mtr', 'MELO3C004712.2' => 'cme', 'MELO3C006533.2' => 'cme', 'MELO3C019438.2' => 'cme', 'MELO3C019440.2' => 'cme', 'MELO3C019441.2' => 'cme', 'MELO3C019895.2' => 'cme', 'Migut.B00811' => 'egut', 'Migut.D02447' => 'egut', 'Migut.F00875' => 'egut', 'Migut.N00186' => 'egut', 'Migut.N01051' => 'egut', 'Migut.N02491' => 'egut', 'Migut.O00784' => 'egut', 'MSTRG.12367' => 'ama', 'MSTRG.18756' => 'ama', 'MSTRG.21042' => 'ama', 'Nitab4.5_0000559g0040' => 'nta', 'Nitab4.5_0000667g0190' => 'nta', 'Nitab4.5_0000755g0160' => 'nta', 'Nitab4.5_0001216g0080' => 'nta', 'Nitab4.5_0004069g0040' => 'nta', 'Nitab4.5_0004129g0010' => 'nta', 'Nitab4.5_0005744g0030' => 'nta', 'Nitab4.5_0006996g0030' => 'nta', 'Nitab4.5_0008971g0040' => 'nta', 'Nitab4.5_0009769g0020' => 'nta', 'Nitab4.5_0009833g0010' => 'nta', 'Nitab4.5_0013140g0020' => 'nta', 'Nn003s41376' => 'nnu', 'Nn1g01857' => 'nnu', 'Nn1g03611' => 'nnu', 'Nn1g06853' => 'nnu', 'Nn3g18360' => 'nnu', 'Nn4g26328' => 'nnu', 'Nn5g27531' => 'nnu', 'Nn6g34899' => 'nnu', 'Nn7g36299' => 'nnu', 'Oeu021485.1' => 'oeu', 'Oeu022433.1' => 'oeu', 'Oeu032111.1' => 'oeu', 'Oeu051608.1' => 'oeu', 'Os01g0860601' => 'osa', 'Os03g0659200' => 'osa', 'Os03g0835900' => 'osa', 'Os04g0412200' => 'osa', 'Os05g0443500' => 'osa', 'Os07g0251500' => 'osa', 'Os08g0104600' => 'osa', 'Peaxi162Scf00003g00047' => 'pax', 'Peaxi162Scf00003g00052' => 'pax', 'Peaxi162Scf00003g00394' => 'pax', 'Peaxi162Scf00091g00621' => 'pax', 'Peaxi162Scf00152g00146' => 'pax', 'Peaxi162Scf00173g00025' => 'pax', 'Peaxi162Scf00195g00102' => 'pax', 'Peaxi162Scf00402g00013' => 'pax', 'Peaxi162Scf00519g00618' => 'pax', 'PGR004G2838' => 'pgr', 'PGR044G2275' => 'pgr', 'PGR102G1377' => 'pgr', 'PGR119G1245' => 'pgr', 'PGR142G4449' => 'pgr', 'PGSC0003DMG400004532' => 'stu', 'PGSC0003DMG400011950' => 'stu', 'PGSC0003DMG400023391' => 'stu', 'PGSC0003DMG400023985' => 'stu', 'PGSC0003DMG400026360' => 'stu', 'PGSC0003DMG400035711' => 'stu', 'PGSC0003DMG400037286' => 'stu', 'PGSC0003DMG402005881' => 'stu', 'Phvul.002G045400' => 'pvu', 'Phvul.006G216600' => 'pvu', 'Phvul.006G216700' => 'pvu', 'Phvul.006G216800' => 'pvu', 'Phvul.007G022500' => 'pvu', 'Phvul.011G094400' => 'pvu', 'Potri.001G470700' => 'ptr', 'Potri.003G015200' => 'ptr', 'Potri.004G202500' => 'ptr', 'Potri.004G218400' => 'ptr', 'Potri.008G020100' => 'ptr', 'Potri.008G153200' => 'ptr', 'Potri.009G163800' => 'ptr', 'Potri.010G087300' => 'ptr', 'Potri.010G239100' => 'ptr', 'Pp3c10_16100' => 'ppa', 'Pp3c10_16880' => 'ppa', 'Pp3c16_6230' => 'ppa', 'Pp3c17_18910' => 'ppa', 'Pp3c3_22119' => 'ppa', 'Pp3c3_22140' => 'ppa', 'Pp3c4_8159' => 'ppa', 'Pp3c4_8171' => 'ppa', 'Pp3c4_8330' => 'ppa', 'PRCOL_00004098' => 'pco', 'Prupe.1G013900' => 'ppe', 'Prupe.1G226300' => 'ppe', 'Prupe.1G573600' => 'ppe', 'Prupe.6G130100' => 'ppe', 'Psat3g090040' => 'psa', 'Psat4g210440' => 'psa', 'Psat6g231040' => 'psa', 'Psat6g231080' => 'psa', 'Psat7g063000' => 'psa', 'Psat7g188000' => 'psa', 'Psat7g188040' => 'psa', 'PSO017G0206' => 'pso', 'PSO170G0501' => 'pso', 'PSO170G6422' => 'pso', 'PSO210G7739' => 'pso', 'PSO339G1808' => 'pso', 'PSO339G6135' => 'pso', 'PSO384G0010' => 'pso', 'PSO384G0964' => 'pso', 'PSO761G0050' => 'pso', 'PSO782G4085' => 'pso', 'QL01p012264' => 'qlo', 'QL02p099491' => 'qlo', 'QL03p033868' => 'qlo', 'QL04p046678' => 'qlo', 'QL06p002448' => 'qlo', 'RcHm_v2.0_Chr4g0416181' => 'rch', 'RcHm_v2.0_Chr5g0044701' => 'rch', 'RcHm_v2.0_Chr6g0265781' => 'rch', 'RcHm_v2.0_Chr7g0221031' => 'rch', 'Rhsim04G0202000' => 'rsi', 'Rhsim11G0127300' => 'rsi', 'Rhsim13G0111800' => 'rsi', 'Sabra01G0165600' => 'sbr', 'Sabra03G0008300' => 'sbr', 'Sabra04G0136900' => 'sbr', 'Sabra08G0013400' => 'sbr', 'Sabra08G0116800' => 'sbr', 'Sabra09G0128000' => 'sbr', 'Sabra10G0055500' => 'sbr', 'Sabra10G0073300' => 'sbr', 'SalBow3G0385' => 'sbo', 'SalBow3G1119' => 'sbo', 'SalBow3G2005' => 'sbo', 'SalBow6G2563' => 'sbo', 'SalBow6G6386' => 'sbo', 'Sc06g0008800' => 'sci', 'Sc07g0004950' => 'sci', 'Sc09g0005340' => 'sci', 'Sc13g0004410' => 'sci', 'Sc21g0007090' => 'sci', 'Sed0009285' => 'sed', 'Sed0017583' => 'sed', 'Sed0019699' => 'sed', 'Sed0023107' => 'sed', 'SEGI_10916' => 'sgi', 'SEGI_16217' => 'sgi', 'SEGI_19466' => 'sgi', 'SEGI_41115' => 'sgi', 'SGA_v2.0_scaffold111G31534' => 'sas', 'SGA_v2.0_scaffold22G09864' => 'sas', 'SGA_v2.0_scaffold338G49219' => 'sas', 'SGA_v2.0_scaffold92G28298' => 'sas', 'SMO119G0064' => 'smo', 'SMO223G0038' => 'smo', 'SMO347G0584' => 'smo', 'SMO351G0010' => 'smo', 'SMO356G0404' => 'smo', 'Solyc01g103920.3' => 'sly', 'Solyc04g009710.2' => 'sly', 'Solyc05g055280.2' => 'sly', 'Solyc10g044520.3' => 'sly', 'Solyc10g075160.1' => 'sly', 'Solyc11g006910.3' => 'sly', 'Solyc11g068430.3' => 'sly', 'Sopen01g046310' => 'spe', 'Sopen03g001200' => 'spe', 'Sopen04g004830' => 'spe', 'Sopen05g033720' => 'spe', 'Sopen06g030740' => 'spe', 'Sopen10g013090' => 'spe', 'Sopen10g027630' => 'spe', 'Sopen10g027640' => 'spe', 'Sopen11g002820' => 'spe', 'Sopen11g027140' => 'spe', 'Sp1g09680' => 'spa', 'Sp2g03630' => 'spa', 'Sp4g10320' => 'spa', 'Sp6g33400' => 'spa', 'Sp7g13030' => 'spa', 'TAR365G0317' => 'tar', 'TAR376G0979' => 'tar', 'TAR623G1665' => 'tar', 'TAR633G2373' => 'tar', 'TAR636G1400' => 'tar', 'THA.LOC104800529' => 'tha', 'THA.LOC104808547' => 'tha', 'THA.LOC104809615' => 'tha', 'THA.LOC104815724' => 'tha', 'THA.LOC104818480' => 'tha', 'THA.LOC104819179' => 'tha', 'THA.LOC104822270' => 'tha', 'THA.LOC104826425' => 'tha', 'Thecc.02G089700' => 'tca', 'Thecc.04G232300' => 'tca', 'Thecc.09G283400' => 'tca', 'Thhalv10009020m.g' => 'esa', 'Thhalv10015506m.g' => 'esa', 'Thhalv10017364m.g' => 'esa', 'Thhalv10023742m.g' => 'esa', 'Thhalv10026483m.g' => 'esa', 'TPR.G17232' => 'tpr', 'TPR.G2133' => 'tpr', 'TPR.G2498' => 'tpr', 'TPR.G31942' => 'tpr', 'TPR.G37877' => 'tpr', 'TPR.G4571' => 'tpr', 'TWI14G1113' => 'twi', 'TWI15G0426' => 'twi', 'TWI31G1005' => 'twi', 'TWI38G0513' => 'twi', 'TWI38G1484' => 'twi', 'TWI73G1098' => 'twi', 'unitig_26.g10519' => 'ugi', 'unitig_736.g22395' => 'ugi', 'unitig_747.g21234' => 'ugi', 'unitig_747.g21942' => 'ugi', 'vmacro14351' => 'vma', 'VMungo0540G0082' => 'vmu', 'VMungo0540G0405' => 'vmu', 'VMungo0540G1486' => 'vmu', 'VMungo0540G1692' => 'vmu', 'VMungo0720G2473' => 'vmu', 'VMungo1127G1562' => 'vmu', 'VMungo1215G1918' => 'vmu', 'Zm00001eb052650' => 'zma', 'Zm00001eb063710' => 'zma', 'Zm00001eb083950' => 'zma', 'Zm00001eb174420' => 'zma', 'Zm00001eb260140' => 'zma', 'Zm00001eb260150' => 'zma', 'Zm00001eb260160' => 'zma', 'Zm00001eb348290' => 'zma', 'Zm00001eb366870' => 'zma', 'Zm00001eb421930' => 'zma' ), 'gf_id' => 'HOM05D001025', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001025' ), 'data_identifier' => 'HOM05D001025', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001025', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '592', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p22650' => 'bna', 'A01p29720' => 'bna', 'A03p26560' => 'bna', 'A03p68820' => 'bna', 'A04p20980' => 'bna', 'A06p07730' => 'bna', 'A07p18260' => 'bna', 'A08p33710' => 'bna', 'A09p16970' => 'bna', 'A10p27490' => 'bna', 'Aa31LG1G17300' => 'aar', 'Aa31LG1G3910' => 'aar', 'Aa31LG2G9630' => 'aar', 'Aa31LG5G8360' => 'aar', 'Aa31LG9G2410' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4699' => 'aag', 'Actinidia23512' => 'ach', 'Actinidia37080' => 'ach', 'Ah.01g020380' => 'amhyb', 'Ah.08g215710' => 'amhyb', 'Ah.09g225110' => 'amhyb', 'Ah.10g036680' => 'amhyb', 'AL1G21940' => 'aly', 'AL2G15540' => 'aly', 'AL4G21520' => 'aly', 'AL7G40960' => 'aly', 'Aqoxy2G01191' => 'aox', 'Aqoxy2G03393' => 'aox', 'Aqoxy4G02775' => 'aox', 'Aqoxy6G00058' => 'aox', 'arahy.Tifrunner.gnm1.ann1.9X74H2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CW3FX9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R485W7' => 'arhy', 'AT1G10960' => 'ath', 'AT1G60950' => 'ath', 'AT2G27510' => 'ath', 'AT4G14890' => 'ath', 'AT5G10000' => 'ath', 'ATR0665G624' => 'atr', 'ATR0697G138' => 'atr', 'ATR0776G046' => 'atr', 'ATR1134G135' => 'atr', 'Atru.chr12.1025' => 'acertr', 'Atru.chr3.3241' => 'acertr', 'Atru.chr4.2460' => 'acertr', 'AUR62007427' => 'cqu', 'AUR62010960' => 'cqu', 'AUR62012201' => 'cqu', 'AUR62021470' => 'cqu', 'AUR62022834' => 'cqu', 'AUR62033635' => 'cqu', 'AUR62036186' => 'cqu', 'BcaB01g03077' => 'bca', 'BcaB02g10093' => 'bca', 'BcaB04g20295' => 'bca', 'BcaB06g28147' => 'bca', 'BcaB07g31253' => 'bca', 'BcaC01g04946' => 'bca', 'BcaC02g10614' => 'bca', 'BcaC02g10885' => 'bca', 'BcaC04g19356' => 'bca', 'BcaC04g22297' => 'bca', 'BcaC05g24977' => 'bca', 'BcaC06g31823' => 'bca', 'BcaC07g38633' => 'bca', 'BcaC09g49353' => 'bca', 'BcaC09g50168' => 'bca', 'BcaNung00322' => 'bca', 'BcaNung04769' => 'bca', 'BolC1t02753H' => 'bol', 'BolC1t03721H' => 'bol', 'BolC3t15525H' => 'bol', 'BolC4t23903H' => 'bol', 'BolC4t24231H' => 'bol', 'BolC4t27209H' => 'bol', 'BolC5t29671H' => 'bol', 'BolC8t49044H' => 'bol', 'BolC9t54999H' => 'bol', 'BolC9t59517H' => 'bol', 'BraA01t02178Z' => 'bra', 'BraA01t03099Z' => 'bra', 'BraA03t11867Z' => 'bra', 'BraA04t17667Z' => 'bra', 'BraA07t29542Z' => 'bra', 'BraA08t35287Z' => 'bra', 'BraA09t37334Z' => 'bra', 'BraA10t44801Z' => 'bra', 'BraSC39t46181Z' => 'bra', 'C01p28240' => 'bna', 'C01p37530' => 'bna', 'C03p31820' => 'bna', 'C04p24080' => 'bna', 'C04p25790' => 'bna', 'C04p56770' => 'bna', 'C05p09310' => 'bna', 'C09p21010' => 'bna', 'C09p67560' => 'bna', 'CAN.G1324.7' => 'can', 'CAN.G1358.10' => 'can', 'CAN.G1550.2' => 'can', 'CAN.G186.56' => 'can', 'CAN.G1965.1' => 'can', 'CAN.G645.15' => 'can', 'CAN.G798.26' => 'can', 'CAN.G798.27' => 'can', 'CAN.G798.29' => 'can', 'CAN.G919.31' => 'can', 'CANSAT11G0133' => 'cansat', 'CANSAT11G1171' => 'cansat', 'CANSAT11G2056' => 'cansat', 'CANSAT56G1202' => 'cansat', 'CANSAT56G1514' => 'cansat', 'CANSAT78G0455' => 'cansat', 'CARHR011190' => 'chi', 'CARHR051980' => 'chi', 'CARHR120170' => 'chi', 'CARHR203310' => 'chi', 'CARHR221490' => 'chi', 'Carub.0001s1054' => 'cru', 'Carub.0002s0431' => 'cru', 'Carub.0004s0818' => 'cru', 'Carub.0006s0846' => 'cru', 'Carub.0007s2722' => 'cru', 'Ca_00058_v3' => 'car', 'Ca_17831_v3' => 'car', 'Ca_19408_v3' => 'car', 'Ca_24397_v3' => 'car', 'Ca_25664_v3' => 'car', 'CBR_g21818' => 'cbr', 'CBR_g31195' => 'cbr', 'CBR_g32282' => 'cbr', 'CBR_g39599' => 'cbr', 'CBR_g49410' => 'cbr', 'Cc01_g09120' => 'ccan', 'Cc01_g09130' => 'ccan', 'Cc02_g09630' => 'ccan', 'Cc02_g22810' => 'ccan', 'Cc03_g03810' => 'ccan', 'CDE02G3718' => 'cde', 'CDE04G3183' => 'cde', 'CDE07G1046' => 'cde', 'CDE08G0480' => 'cde', 'Cfa005493' => 'cfa', 'Cfa010312' => 'cfa', 'Cfa015648' => 'cfa', 'Ciclev10002793m.g' => 'ccl', 'Ciclev10003356m.g' => 'ccl', 'Ciclev10006141m.g' => 'ccl', 'Ciclev10016676m.g' => 'ccl', 'Ciclev10017081m.g' => 'ccl', 'Ciclev10029499m.g' => 'ccl', 'CiPaw.01G166300' => 'cil', 'CiPaw.06G145600' => 'cil', 'CiPaw.13G040100' => 'cil', 'CiPaw.13G135800' => 'cil', 'ClCG01G012230' => 'cla', 'ClCG05G009510' => 'cla', 'ClCG08G008270' => 'cla', 'COL.COLO4_11763' => 'col', 'COL.COLO4_19876' => 'col', 'COL.COLO4_21481' => 'col', 'Cpa.g.sc118.34' => 'cpa', 'Cpa.g.sc32.13' => 'cpa', 'Cpa.g.sc58.103' => 'cpa', 'Cre03.g183850' => 'cre', 'Cre06.g306350' => 'cre', 'Cre07.g334800' => 'cre', 'Cre12.g487900' => 'cre', 'Cre14.g626700' => 'cre', 'Cre16.g658400' => 'cre', 'Cre17.g700950' => 'cre', 'CsaV3_1G014830' => 'csa', 'CsaV3_3G013320' => 'csa', 'CsaV3_3G019210' => 'csa', 'CsaV3_3G019220' => 'csa', 'CsaV3_6G004230' => 'csa', 'CSS0003773' => 'camsi', 'CSS0004563' => 'camsi', 'CSS0013949' => 'camsi', 'CSS0025971' => 'camsi', 'CSS0028570' => 'camsi', 'CSS0033127' => 'camsi', 'CSS0036051' => 'camsi', 'CSS0040087' => 'camsi', 'CSS0043179' => 'camsi', 'DCAR_006161' => 'dca', 'DCAR_010351' => 'dca', 'DCAR_012197' => 'dca', 'DCAR_024162' => 'dca', 'Dinv01030' => 'din', 'Dinv10924' => 'din', 'Dinv11835' => 'din', 'Dinv22841' => 'din', 'Dinv42553' => 'din', 'Duzib052G0560' => 'dzi', 'Duzib132G0389' => 'dzi', 'Duzib150G1181' => 'dzi', 'Duzib168G0623' => 'dzi', 'Duzib170G1036' => 'dzi', 'Duzib212G0200' => 'dzi', 'Duzib248G0194' => 'dzi', 'ECA232G2193' => 'eca', 'ECA233G0302' => 'eca', 'ECA234G2813' => 'eca', 'ECA234G4866' => 'eca', 'ECA240G3932' => 'eca', 'ECA248G0385' => 'eca', 'EL10Ac2g04781' => 'bvu', 'EL10Ac3g06445' => 'bvu', 'EL10Ac7g15825' => 'bvu', 'EL10Ac8g18550' => 'bvu', 'Eucgr.B03849' => 'egr', 'Eucgr.I02744' => 'egr', 'Eucgr.J00264' => 'egr', 'Eucgr.J00493' => 'egr', 'FAN04G2181' => 'fan', 'FAN07G2666' => 'fan', 'FAN11G0024' => 'fan', 'FAN12G1105' => 'fan', 'FAN13G0302' => 'fan', 'FAN15G2781' => 'fan', 'FAN16G1274' => 'fan', 'FAN17G2988' => 'fan', 'FAN18G2621' => 'fan', 'FAN21G0013' => 'fan', 'FAN22G1211' => 'fan', 'FAN25G3626' => 'fan', 'FvH4_2g09491' => 'fve', 'FvH4_3g24910' => 'fve', 'FvH4_4g15630' => 'fve', 'FvH4_5g28820' => 'fve', 'Glyma.01G238000' => 'gma', 'Glyma.05G168400' => 'gma', 'Glyma.08G126800' => 'gma', 'Glyma.08G188500' => 'gma', 'Glyma.10G278900' => 'gma', 'Glyma.11G005700' => 'gma', 'Glyma.11G183300' => 'gma', 'Glyma.12G089200' => 'gma', 'Glyma.12G169400' => 'gma', 'Glyma.12G169500' => 'gma', 'Glyma.12G169600' => 'gma', 'Glyma.20G110800' => 'gma', 'Gohir.A03G192900' => 'ghi', 'Gohir.A03G193000' => 'ghi', 'Gohir.A05G080700' => 'ghi', 'Gohir.A09G216000' => 'ghi', 'Gohir.A12G027700' => 'ghi', 'Gohir.A13G036200' => 'ghi', 'Gohir.A13G222600' => 'ghi', 'Gohir.D02G213900' => 'ghi', 'Gohir.D02G214000' => 'ghi', 'Gohir.D05G083700' => 'ghi', 'Gohir.D05G083800' => 'ghi', 'Gohir.D05G083850' => 'ghi', 'Gohir.D08G015400' => 'ghi', 'Gohir.D09G218400' => 'ghi', 'Gohir.D12G027100' => 'ghi', 'Gohir.D13G034500' => 'ghi', 'Gohir.D13G227400' => 'ghi', 'Gorai.005G241800' => 'gra', 'Gorai.005G241900' => 'gra', 'Gorai.006G239400' => 'gra', 'Gorai.008G027600' => 'gra', 'Gorai.009G085400' => 'gra', 'Gorai.009G085500' => 'gra', 'Gorai.013G039000' => 'gra', 'Gorai.013G194800' => 'gra', 'Gorai.013G257900' => 'gra', 'GSVIVG01000982001' => 'vvi', 'GSVIVG01017981001' => 'vvi', 'HanXRQChr01g0024061' => 'han', 'HanXRQChr09g0247831' => 'han', 'HanXRQChr10g0294611' => 'han', 'HanXRQChr10g0294621' => 'han', 'HanXRQChr11g0346821' => 'han', 'HanXRQChr13g0397461' => 'han', 'HanXRQChr16g0513651' => 'han', 'HanXRQChr16g0513701' => 'han', 'Haze_00897' => 'cav', 'Haze_01745' => 'cav', 'Haze_02486' => 'cav', 'Haze_02487' => 'cav', 'Haze_23374' => 'cav', 'Hma1.2p1_0578F.1_g182520' => 'hma', 'Hma1.2p1_0602F.1_g187350' => 'hma', 'Hma1.2p1_0602F.1_g187360' => 'hma', 'Hma1.2p1_0874F.1_g231320' => 'hma', 'Hma1.2p1_1197F.1_g266210' => 'hma', 'Hma1.2p1_1197F.1_g266220' => 'hma', 'Hma1.2p1_2167F.1_g315895' => 'hma', 'Hma1.2p1_2190F.1_g316640' => 'hma', 'Hma1.2p1_3645F.1_g337153' => 'hma', 'HPP92_004907' => 'vpl', 'HPP92_012134' => 'vpl', 'HPP92_025136' => 'vpl', 'HPP92_026087' => 'vpl', 'Hund06782' => 'sun', 'Hund06784' => 'sun', 'Lalb_Chr01g0004861' => 'lal', 'Lalb_Chr02g0140591' => 'lal', 'Lalb_Chr02g0140611' => 'lal', 'Lalb_Chr03g0028101' => 'lal', 'Lalb_Chr07g0185791' => 'lal', 'Lalb_Chr12g0204491' => 'lal', 'Lalb_Chr13g0295671' => 'lal', 'Lalb_Chr19g0136461' => 'lal', 'Lalb_Chr21g0309191' => 'lal', 'Lj1g0028158' => 'lja', 'Lj1P236T38' => 'lonja', 'Lj2C32G2' => 'lonja', 'Lj2P944T8' => 'lonja', 'Lj2P963T15' => 'lonja', 'Lj3g0011788' => 'lja', 'Lj4g0025027' => 'lja', 'Lj5P255T36' => 'lonja', 'Lj6g0018866' => 'lja', 'Lj6P608T31' => 'lonja', 'LjContig00408g0008879' => 'lja', 'Lsat_1_v5_gn_5_105820' => 'lsa', 'Lsat_1_v5_gn_6_38800' => 'lsa', 'Lsat_1_v5_gn_7_67141' => 'lsa', 'Manes.04G003400' => 'mes', 'Manes.07G020000' => 'mes', 'Manes.07G020100' => 'mes', 'Manes.07G020150' => 'mes', 'Manes.10G061500' => 'mes', 'Manes.10G123200' => 'mes', 'Manes.11G161900' => 'mes', 'Manes.15G029300' => 'mes', 'Mapoly0071s0018' => 'mpo', 'Mapoly0082s0023' => 'mpo', 'Mapoly3477s0001' => 'mpo', 'MBI05_g31233_MAGBIO' => 'mbi', 'MBI09_g05946_MAGBIO' => 'mbi', 'MBI09_g05947_MAGBIO' => 'mbi', 'MBI17_g08346_MAGBIO' => 'mbi', 'MCO04G038' => 'mco', 'MCO09G370' => 'mco', 'MCO13G605' => 'mco', 'MD00G1075500' => 'mdo', 'MD03G1144300' => 'mdo', 'MD08G1236800' => 'mdo', 'MD13G1193300' => 'mdo', 'MD15G1428700' => 'mdo', 'Medtr1g112030' => 'mtr', 'Medtr1g112050' => 'mtr', 'Medtr2g006290' => 'mtr', 'Medtr2g086510' => 'mtr', 'Medtr4g053120' => 'mtr', 'Medtr5g006320' => 'mtr', 'Medtr8g088720' => 'mtr', 'MELO3C004712.2' => 'cme', 'MELO3C006533.2' => 'cme', 'MELO3C019438.2' => 'cme', 'MELO3C019440.2' => 'cme', 'MELO3C019441.2' => 'cme', 'MELO3C019895.2' => 'cme', 'Migut.B00811' => 'egut', 'Migut.D02447' => 'egut', 'Migut.F00875' => 'egut', 'Migut.N00186' => 'egut', 'Migut.N01051' => 'egut', 'Migut.N02491' => 'egut', 'Migut.O00784' => 'egut', 'MSTRG.12367' => 'ama', 'MSTRG.18756' => 'ama', 'MSTRG.21042' => 'ama', 'Nitab4.5_0000559g0040' => 'nta', 'Nitab4.5_0000667g0190' => 'nta', 'Nitab4.5_0000755g0160' => 'nta', 'Nitab4.5_0001216g0080' => 'nta', 'Nitab4.5_0004069g0040' => 'nta', 'Nitab4.5_0004129g0010' => 'nta', 'Nitab4.5_0005744g0030' => 'nta', 'Nitab4.5_0006996g0030' => 'nta', 'Nitab4.5_0008971g0040' => 'nta', 'Nitab4.5_0009769g0020' => 'nta', 'Nitab4.5_0009833g0010' => 'nta', 'Nitab4.5_0013140g0020' => 'nta', 'Nn003s41376' => 'nnu', 'Nn1g01857' => 'nnu', 'Nn1g03611' => 'nnu', 'Nn1g06853' => 'nnu', 'Nn3g18360' => 'nnu', 'Nn4g26328' => 'nnu', 'Nn5g27531' => 'nnu', 'Nn6g34899' => 'nnu', 'Nn7g36299' => 'nnu', 'Oeu021485.1' => 'oeu', 'Oeu022433.1' => 'oeu', 'Oeu032111.1' => 'oeu', 'Oeu051608.1' => 'oeu', 'Os01g0860601' => 'osa', 'Os03g0659200' => 'osa', 'Os03g0835900' => 'osa', 'Os04g0412200' => 'osa', 'Os05g0443500' => 'osa', 'Os07g0251500' => 'osa', 'Os08g0104600' => 'osa', 'Peaxi162Scf00003g00047' => 'pax', 'Peaxi162Scf00003g00052' => 'pax', 'Peaxi162Scf00003g00394' => 'pax', 'Peaxi162Scf00091g00621' => 'pax', 'Peaxi162Scf00152g00146' => 'pax', 'Peaxi162Scf00173g00025' => 'pax', 'Peaxi162Scf00195g00102' => 'pax', 'Peaxi162Scf00402g00013' => 'pax', 'Peaxi162Scf00519g00618' => 'pax', 'PGR004G2838' => 'pgr', 'PGR044G2275' => 'pgr', 'PGR102G1377' => 'pgr', 'PGR119G1245' => 'pgr', 'PGR142G4449' => 'pgr', 'PGSC0003DMG400004532' => 'stu', 'PGSC0003DMG400011950' => 'stu', 'PGSC0003DMG400023391' => 'stu', 'PGSC0003DMG400023985' => 'stu', 'PGSC0003DMG400026360' => 'stu', 'PGSC0003DMG400035711' => 'stu', 'PGSC0003DMG400037286' => 'stu', 'PGSC0003DMG402005881' => 'stu', 'Phvul.002G045400' => 'pvu', 'Phvul.006G216600' => 'pvu', 'Phvul.006G216700' => 'pvu', 'Phvul.006G216800' => 'pvu', 'Phvul.007G022500' => 'pvu', 'Phvul.011G094400' => 'pvu', 'Potri.001G470700' => 'ptr', 'Potri.003G015200' => 'ptr', 'Potri.004G202500' => 'ptr', 'Potri.004G218400' => 'ptr', 'Potri.008G020100' => 'ptr', 'Potri.008G153200' => 'ptr', 'Potri.009G163800' => 'ptr', 'Potri.010G087300' => 'ptr', 'Potri.010G239100' => 'ptr', 'Pp3c10_16100' => 'ppa', 'Pp3c10_16880' => 'ppa', 'Pp3c16_6230' => 'ppa', 'Pp3c17_18910' => 'ppa', 'Pp3c3_22119' => 'ppa', 'Pp3c3_22140' => 'ppa', 'Pp3c4_8159' => 'ppa', 'Pp3c4_8171' => 'ppa', 'Pp3c4_8330' => 'ppa', 'PRCOL_00004098' => 'pco', 'Prupe.1G013900' => 'ppe', 'Prupe.1G226300' => 'ppe', 'Prupe.1G573600' => 'ppe', 'Prupe.6G130100' => 'ppe', 'Psat3g090040' => 'psa', 'Psat4g210440' => 'psa', 'Psat6g231040' => 'psa', 'Psat6g231080' => 'psa', 'Psat7g063000' => 'psa', 'Psat7g188000' => 'psa', 'Psat7g188040' => 'psa', 'PSO017G0206' => 'pso', 'PSO170G0501' => 'pso', 'PSO170G6422' => 'pso', 'PSO210G7739' => 'pso', 'PSO339G1808' => 'pso', 'PSO339G6135' => 'pso', 'PSO384G0010' => 'pso', 'PSO384G0964' => 'pso', 'PSO761G0050' => 'pso', 'PSO782G4085' => 'pso', 'QL01p012264' => 'qlo', 'QL02p099491' => 'qlo', 'QL03p033868' => 'qlo', 'QL04p046678' => 'qlo', 'QL06p002448' => 'qlo', 'RcHm_v2.0_Chr4g0416181' => 'rch', 'RcHm_v2.0_Chr5g0044701' => 'rch', 'RcHm_v2.0_Chr6g0265781' => 'rch', 'RcHm_v2.0_Chr7g0221031' => 'rch', 'Rhsim04G0202000' => 'rsi', 'Rhsim11G0127300' => 'rsi', 'Rhsim13G0111800' => 'rsi', 'Sabra01G0165600' => 'sbr', 'Sabra03G0008300' => 'sbr', 'Sabra04G0136900' => 'sbr', 'Sabra08G0013400' => 'sbr', 'Sabra08G0116800' => 'sbr', 'Sabra09G0128000' => 'sbr', 'Sabra10G0055500' => 'sbr', 'Sabra10G0073300' => 'sbr', 'SalBow3G0385' => 'sbo', 'SalBow3G1119' => 'sbo', 'SalBow3G2005' => 'sbo', 'SalBow6G2563' => 'sbo', 'SalBow6G6386' => 'sbo', 'Sc06g0008800' => 'sci', 'Sc07g0004950' => 'sci', 'Sc09g0005340' => 'sci', 'Sc13g0004410' => 'sci', 'Sc21g0007090' => 'sci', 'Sed0009285' => 'sed', 'Sed0017583' => 'sed', 'Sed0019699' => 'sed', 'Sed0023107' => 'sed', 'SEGI_10916' => 'sgi', 'SEGI_16217' => 'sgi', 'SEGI_19466' => 'sgi', 'SEGI_41115' => 'sgi', 'SGA_v2.0_scaffold111G31534' => 'sas', 'SGA_v2.0_scaffold22G09864' => 'sas', 'SGA_v2.0_scaffold338G49219' => 'sas', 'SGA_v2.0_scaffold92G28298' => 'sas', 'SMO119G0064' => 'smo', 'SMO223G0038' => 'smo', 'SMO347G0584' => 'smo', 'SMO351G0010' => 'smo', 'SMO356G0404' => 'smo', 'Solyc01g103920.3' => 'sly', 'Solyc04g009710.2' => 'sly', 'Solyc05g055280.2' => 'sly', 'Solyc10g044520.3' => 'sly', 'Solyc10g075160.1' => 'sly', 'Solyc11g006910.3' => 'sly', 'Solyc11g068430.3' => 'sly', 'Sopen01g046310' => 'spe', 'Sopen03g001200' => 'spe', 'Sopen04g004830' => 'spe', 'Sopen05g033720' => 'spe', 'Sopen06g030740' => 'spe', 'Sopen10g013090' => 'spe', 'Sopen10g027630' => 'spe', 'Sopen10g027640' => 'spe', 'Sopen11g002820' => 'spe', 'Sopen11g027140' => 'spe', 'Sp1g09680' => 'spa', 'Sp2g03630' => 'spa', 'Sp4g10320' => 'spa', 'Sp6g33400' => 'spa', 'Sp7g13030' => 'spa', 'TAR365G0317' => 'tar', 'TAR376G0979' => 'tar', 'TAR623G1665' => 'tar', 'TAR633G2373' => 'tar', 'TAR636G1400' => 'tar', 'THA.LOC104800529' => 'tha', 'THA.LOC104808547' => 'tha', 'THA.LOC104809615' => 'tha', 'THA.LOC104815724' => 'tha', 'THA.LOC104818480' => 'tha', 'THA.LOC104819179' => 'tha', 'THA.LOC104822270' => 'tha', 'THA.LOC104826425' => 'tha', 'Thecc.02G089700' => 'tca', 'Thecc.04G232300' => 'tca', 'Thecc.09G283400' => 'tca', 'Thhalv10009020m.g' => 'esa', 'Thhalv10015506m.g' => 'esa', 'Thhalv10017364m.g' => 'esa', 'Thhalv10023742m.g' => 'esa', 'Thhalv10026483m.g' => 'esa', 'TPR.G17232' => 'tpr', 'TPR.G2133' => 'tpr', 'TPR.G2498' => 'tpr', 'TPR.G31942' => 'tpr', 'TPR.G37877' => 'tpr', 'TPR.G4571' => 'tpr', 'TWI14G1113' => 'twi', 'TWI15G0426' => 'twi', 'TWI31G1005' => 'twi', 'TWI38G0513' => 'twi', 'TWI38G1484' => 'twi', 'TWI73G1098' => 'twi', 'unitig_26.g10519' => 'ugi', 'unitig_736.g22395' => 'ugi', 'unitig_747.g21234' => 'ugi', 'unitig_747.g21942' => 'ugi', 'vmacro14351' => 'vma', 'VMungo0540G0082' => 'vmu', 'VMungo0540G0405' => 'vmu', 'VMungo0540G1486' => 'vmu', 'VMungo0540G1692' => 'vmu', 'VMungo0720G2473' => 'vmu', 'VMungo1127G1562' => 'vmu', 'VMungo1215G1918' => 'vmu', 'Zm00001eb052650' => 'zma', 'Zm00001eb063710' => 'zma', 'Zm00001eb083950' => 'zma', 'Zm00001eb174420' => 'zma', 'Zm00001eb260140' => 'zma', 'Zm00001eb260150' => 'zma', 'Zm00001eb260160' => 'zma', 'Zm00001eb348290' => 'zma', 'Zm00001eb366870' => 'zma', 'Zm00001eb421930' => 'zma' ) $gf_id = 'HOM05D001025' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001025' ) $data_identifier = 'HOM05D001025' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 19, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 2, 'amhyb' => (int) 4, 'aly' => (int) 4, 'aox' => (int) 4, 'arhy' => (int) 3, 'ath' => (int) 5, 'atr' => (int) 4, 'acertr' => (int) 3, 'cqu' => (int) 7, 'bca' => (int) 17, 'bol' => (int) 10, 'bra' => (int) 9, 'can' => (int) 10, 'cansat' => (int) 6, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 5, 'cbr' => (int) 5, 'ccan' => (int) 5, 'cde' => (int) 4, 'cfa' => (int) 3, 'ccl' => (int) 6, 'cil' => (int) 4, 'cla' => (int) 3, 'col' => (int) 3, 'cpa' => (int) 3, 'cre' => (int) 7, 'csa' => (int) 5, 'camsi' => (int) 9, 'dca' => (int) 4, 'din' => (int) 5, 'dzi' => (int) 7, 'eca' => (int) 6, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 12, 'fve' => (int) 4, 'gma' => (int) 12, 'ghi' => (int) 17, 'gra' => (int) 9, 'vvi' => (int) 2, 'han' => (int) 8, 'cav' => (int) 5, 'hma' => (int) 9, 'vpl' => (int) 4, 'sun' => (int) 2, 'lal' => (int) 9, 'lja' => (int) 5, 'lonja' => (int) 6, 'lsa' => (int) 3, 'mes' => (int) 8, 'mpo' => (int) 3, 'mbi' => (int) 4, 'mco' => (int) 3, 'mdo' => (int) 5, 'mtr' => (int) 7, 'cme' => (int) 6, 'egut' => (int) 7, 'ama' => (int) 3, 'nta' => (int) 12, 'nnu' => (int) 9, 'oeu' => (int) 4, 'osa' => (int) 7, 'pax' => (int) 9, 'pgr' => (int) 5, 'stu' => (int) 8, 'pvu' => (int) 6, 'ptr' => (int) 9, 'ppa' => (int) 9, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 7, 'pso' => (int) 10, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 3, 'sbr' => (int) 8, 'sbo' => (int) 5, 'sci' => (int) 5, 'sed' => (int) 4, 'sgi' => (int) 4, 'sas' => (int) 4, 'smo' => (int) 5, 'sly' => (int) 7, 'spe' => (int) 10, 'spa' => (int) 5, 'tar' => (int) 5, 'tha' => (int) 8, 'tca' => (int) 3, 'esa' => (int) 5, 'tpr' => (int) 6, 'twi' => (int) 6, 'ugi' => (int) 4, 'vma' => (int) 1, 'vmu' => (int) 7, 'zma' => (int) 10 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb421930' $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' => 'HOM05D001025', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '592', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p22650' => 'bna', 'A01p29720' => 'bna', 'A03p26560' => 'bna', 'A03p68820' => 'bna', 'A04p20980' => 'bna', 'A06p07730' => 'bna', 'A07p18260' => 'bna', 'A08p33710' => 'bna', 'A09p16970' => 'bna', 'A10p27490' => 'bna', 'Aa31LG1G17300' => 'aar', 'Aa31LG1G3910' => 'aar', 'Aa31LG2G9630' => 'aar', 'Aa31LG5G8360' => 'aar', 'Aa31LG9G2410' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4699' => 'aag', 'Actinidia23512' => 'ach', 'Actinidia37080' => 'ach', 'Ah.01g020380' => 'amhyb', 'Ah.08g215710' => 'amhyb', 'Ah.09g225110' => 'amhyb', 'Ah.10g036680' => 'amhyb', 'AL1G21940' => 'aly', 'AL2G15540' => 'aly', 'AL4G21520' => 'aly', 'AL7G40960' => 'aly', 'Aqoxy2G01191' => 'aox', 'Aqoxy2G03393' => 'aox', 'Aqoxy4G02775' => 'aox', 'Aqoxy6G00058' => 'aox', 'arahy.Tifrunner.gnm1.ann1.9X74H2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CW3FX9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R485W7' => 'arhy', 'AT1G10960' => 'ath', 'AT1G60950' => 'ath', 'AT2G27510' => 'ath', 'AT4G14890' => 'ath', 'AT5G10000' => 'ath', 'ATR0665G624' => 'atr', 'ATR0697G138' => 'atr', 'ATR0776G046' => 'atr', 'ATR1134G135' => 'atr', 'Atru.chr12.1025' => 'acertr', 'Atru.chr3.3241' => 'acertr', 'Atru.chr4.2460' => 'acertr', 'AUR62007427' => 'cqu', 'AUR62010960' => 'cqu', 'AUR62012201' => 'cqu', 'AUR62021470' => 'cqu', 'AUR62022834' => 'cqu', 'AUR62033635' => 'cqu', 'AUR62036186' => 'cqu', 'BcaB01g03077' => 'bca', 'BcaB02g10093' => 'bca', 'BcaB04g20295' => 'bca', 'BcaB06g28147' => 'bca', 'BcaB07g31253' => 'bca', 'BcaC01g04946' => 'bca', 'BcaC02g10614' => 'bca', 'BcaC02g10885' => 'bca', 'BcaC04g19356' => 'bca', 'BcaC04g22297' => 'bca', 'BcaC05g24977' => 'bca', 'BcaC06g31823' => 'bca', 'BcaC07g38633' => 'bca', 'BcaC09g49353' => 'bca', 'BcaC09g50168' => 'bca', 'BcaNung00322' => 'bca', 'BcaNung04769' => 'bca', 'BolC1t02753H' => 'bol', 'BolC1t03721H' => 'bol', 'BolC3t15525H' => 'bol', 'BolC4t23903H' => 'bol', 'BolC4t24231H' => 'bol', 'BolC4t27209H' => 'bol', 'BolC5t29671H' => 'bol', 'BolC8t49044H' => 'bol', 'BolC9t54999H' => 'bol', 'BolC9t59517H' => 'bol', 'BraA01t02178Z' => 'bra', 'BraA01t03099Z' => 'bra', 'BraA03t11867Z' => 'bra', 'BraA04t17667Z' => 'bra', 'BraA07t29542Z' => 'bra', 'BraA08t35287Z' => 'bra', 'BraA09t37334Z' => 'bra', 'BraA10t44801Z' => 'bra', 'BraSC39t46181Z' => 'bra', 'C01p28240' => 'bna', 'C01p37530' => 'bna', 'C03p31820' => 'bna', 'C04p24080' => 'bna', 'C04p25790' => 'bna', 'C04p56770' => 'bna', 'C05p09310' => 'bna', 'C09p21010' => 'bna', 'C09p67560' => 'bna', 'CAN.G1324.7' => 'can', 'CAN.G1358.10' => 'can', 'CAN.G1550.2' => 'can', 'CAN.G186.56' => 'can', 'CAN.G1965.1' => 'can', 'CAN.G645.15' => 'can', 'CAN.G798.26' => 'can', 'CAN.G798.27' => 'can', 'CAN.G798.29' => 'can', 'CAN.G919.31' => 'can', 'CANSAT11G0133' => 'cansat', 'CANSAT11G1171' => 'cansat', 'CANSAT11G2056' => 'cansat', 'CANSAT56G1202' => 'cansat', 'CANSAT56G1514' => 'cansat', 'CANSAT78G0455' => 'cansat', 'CARHR011190' => 'chi', 'CARHR051980' => 'chi', 'CARHR120170' => 'chi', 'CARHR203310' => 'chi', 'CARHR221490' => 'chi', 'Carub.0001s1054' => 'cru', 'Carub.0002s0431' => 'cru', 'Carub.0004s0818' => 'cru', 'Carub.0006s0846' => 'cru', 'Carub.0007s2722' => 'cru', 'Ca_00058_v3' => 'car', 'Ca_17831_v3' => 'car', 'Ca_19408_v3' => 'car', 'Ca_24397_v3' => 'car', 'Ca_25664_v3' => 'car', 'CBR_g21818' => 'cbr', 'CBR_g31195' => 'cbr', 'CBR_g32282' => 'cbr', 'CBR_g39599' => 'cbr', 'CBR_g49410' => 'cbr', 'Cc01_g09120' => 'ccan', 'Cc01_g09130' => 'ccan', 'Cc02_g09630' => 'ccan', 'Cc02_g22810' => 'ccan', 'Cc03_g03810' => 'ccan', 'CDE02G3718' => 'cde', 'CDE04G3183' => 'cde', 'CDE07G1046' => 'cde', 'CDE08G0480' => 'cde', 'Cfa005493' => 'cfa', 'Cfa010312' => 'cfa', 'Cfa015648' => 'cfa', 'Ciclev10002793m.g' => 'ccl', 'Ciclev10003356m.g' => 'ccl', 'Ciclev10006141m.g' => 'ccl', 'Ciclev10016676m.g' => 'ccl', 'Ciclev10017081m.g' => 'ccl', 'Ciclev10029499m.g' => 'ccl', 'CiPaw.01G166300' => 'cil', 'CiPaw.06G145600' => 'cil', 'CiPaw.13G040100' => 'cil', 'CiPaw.13G135800' => 'cil', 'ClCG01G012230' => 'cla', 'ClCG05G009510' => 'cla', 'ClCG08G008270' => 'cla', 'COL.COLO4_11763' => 'col', 'COL.COLO4_19876' => 'col', 'COL.COLO4_21481' => 'col', 'Cpa.g.sc118.34' => 'cpa', 'Cpa.g.sc32.13' => 'cpa', 'Cpa.g.sc58.103' => 'cpa', 'Cre03.g183850' => 'cre', 'Cre06.g306350' => 'cre', 'Cre07.g334800' => 'cre', 'Cre12.g487900' => 'cre', 'Cre14.g626700' => 'cre', 'Cre16.g658400' => 'cre', 'Cre17.g700950' => 'cre', 'CsaV3_1G014830' => 'csa', 'CsaV3_3G013320' => 'csa', 'CsaV3_3G019210' => 'csa', 'CsaV3_3G019220' => 'csa', 'CsaV3_6G004230' => 'csa', 'CSS0003773' => 'camsi', 'CSS0004563' => 'camsi', 'CSS0013949' => 'camsi', 'CSS0025971' => 'camsi', 'CSS0028570' => 'camsi', 'CSS0033127' => 'camsi', 'CSS0036051' => 'camsi', 'CSS0040087' => 'camsi', 'CSS0043179' => 'camsi', 'DCAR_006161' => 'dca', 'DCAR_010351' => 'dca', 'DCAR_012197' => 'dca', 'DCAR_024162' => 'dca', 'Dinv01030' => 'din', 'Dinv10924' => 'din', 'Dinv11835' => 'din', 'Dinv22841' => 'din', 'Dinv42553' => 'din', 'Duzib052G0560' => 'dzi', 'Duzib132G0389' => 'dzi', 'Duzib150G1181' => 'dzi', 'Duzib168G0623' => 'dzi', 'Duzib170G1036' => 'dzi', 'Duzib212G0200' => 'dzi', 'Duzib248G0194' => 'dzi', 'ECA232G2193' => 'eca', 'ECA233G0302' => 'eca', 'ECA234G2813' => 'eca', 'ECA234G4866' => 'eca', 'ECA240G3932' => 'eca', 'ECA248G0385' => 'eca', 'EL10Ac2g04781' => 'bvu', 'EL10Ac3g06445' => 'bvu', 'EL10Ac7g15825' => 'bvu', 'EL10Ac8g18550' => 'bvu', 'Eucgr.B03849' => 'egr', 'Eucgr.I02744' => 'egr', 'Eucgr.J00264' => 'egr', 'Eucgr.J00493' => 'egr', 'FAN04G2181' => 'fan', 'FAN07G2666' => 'fan', 'FAN11G0024' => 'fan', 'FAN12G1105' => 'fan', 'FAN13G0302' => 'fan', 'FAN15G2781' => 'fan', 'FAN16G1274' => 'fan', 'FAN17G2988' => 'fan', 'FAN18G2621' => 'fan', 'FAN21G0013' => 'fan', 'FAN22G1211' => 'fan', 'FAN25G3626' => 'fan', 'FvH4_2g09491' => 'fve', 'FvH4_3g24910' => 'fve', 'FvH4_4g15630' => 'fve', 'FvH4_5g28820' => 'fve', 'Glyma.01G238000' => 'gma', 'Glyma.05G168400' => 'gma', 'Glyma.08G126800' => 'gma', 'Glyma.08G188500' => 'gma', 'Glyma.10G278900' => 'gma', 'Glyma.11G005700' => 'gma', 'Glyma.11G183300' => 'gma', 'Glyma.12G089200' => 'gma', 'Glyma.12G169400' => 'gma', 'Glyma.12G169500' => 'gma', 'Glyma.12G169600' => 'gma', 'Glyma.20G110800' => 'gma', 'Gohir.A03G192900' => 'ghi', 'Gohir.A03G193000' => 'ghi', 'Gohir.A05G080700' => 'ghi', 'Gohir.A09G216000' => 'ghi', 'Gohir.A12G027700' => 'ghi', 'Gohir.A13G036200' => 'ghi', 'Gohir.A13G222600' => 'ghi', 'Gohir.D02G213900' => 'ghi', 'Gohir.D02G214000' => 'ghi', 'Gohir.D05G083700' => 'ghi', 'Gohir.D05G083800' => 'ghi', 'Gohir.D05G083850' => 'ghi', 'Gohir.D08G015400' => 'ghi', 'Gohir.D09G218400' => 'ghi', 'Gohir.D12G027100' => 'ghi', 'Gohir.D13G034500' => 'ghi', 'Gohir.D13G227400' => 'ghi', 'Gorai.005G241800' => 'gra', 'Gorai.005G241900' => 'gra', 'Gorai.006G239400' => 'gra', 'Gorai.008G027600' => 'gra', 'Gorai.009G085400' => 'gra', 'Gorai.009G085500' => 'gra', 'Gorai.013G039000' => 'gra', 'Gorai.013G194800' => 'gra', 'Gorai.013G257900' => 'gra', 'GSVIVG01000982001' => 'vvi', 'GSVIVG01017981001' => 'vvi', 'HanXRQChr01g0024061' => 'han', 'HanXRQChr09g0247831' => 'han', 'HanXRQChr10g0294611' => 'han', 'HanXRQChr10g0294621' => 'han', 'HanXRQChr11g0346821' => 'han', 'HanXRQChr13g0397461' => 'han', 'HanXRQChr16g0513651' => 'han', 'HanXRQChr16g0513701' => 'han', 'Haze_00897' => 'cav', 'Haze_01745' => 'cav', 'Haze_02486' => 'cav', 'Haze_02487' => 'cav', 'Haze_23374' => 'cav', 'Hma1.2p1_0578F.1_g182520' => 'hma', 'Hma1.2p1_0602F.1_g187350' => 'hma', 'Hma1.2p1_0602F.1_g187360' => 'hma', 'Hma1.2p1_0874F.1_g231320' => 'hma', 'Hma1.2p1_1197F.1_g266210' => 'hma', 'Hma1.2p1_1197F.1_g266220' => 'hma', 'Hma1.2p1_2167F.1_g315895' => 'hma', 'Hma1.2p1_2190F.1_g316640' => 'hma', 'Hma1.2p1_3645F.1_g337153' => 'hma', 'HPP92_004907' => 'vpl', 'HPP92_012134' => 'vpl', 'HPP92_025136' => 'vpl', 'HPP92_026087' => 'vpl', 'Hund06782' => 'sun', 'Hund06784' => 'sun', 'Lalb_Chr01g0004861' => 'lal', 'Lalb_Chr02g0140591' => 'lal', 'Lalb_Chr02g0140611' => 'lal', 'Lalb_Chr03g0028101' => 'lal', 'Lalb_Chr07g0185791' => 'lal', 'Lalb_Chr12g0204491' => 'lal', 'Lalb_Chr13g0295671' => 'lal', 'Lalb_Chr19g0136461' => 'lal', 'Lalb_Chr21g0309191' => 'lal', 'Lj1g0028158' => 'lja', 'Lj1P236T38' => 'lonja', 'Lj2C32G2' => 'lonja', 'Lj2P944T8' => 'lonja', 'Lj2P963T15' => 'lonja', 'Lj3g0011788' => 'lja', 'Lj4g0025027' => 'lja', 'Lj5P255T36' => 'lonja', 'Lj6g0018866' => 'lja', 'Lj6P608T31' => 'lonja', 'LjContig00408g0008879' => 'lja', 'Lsat_1_v5_gn_5_105820' => 'lsa', 'Lsat_1_v5_gn_6_38800' => 'lsa', 'Lsat_1_v5_gn_7_67141' => 'lsa', 'Manes.04G003400' => 'mes', 'Manes.07G020000' => 'mes', 'Manes.07G020100' => 'mes', 'Manes.07G020150' => 'mes', 'Manes.10G061500' => 'mes', 'Manes.10G123200' => 'mes', 'Manes.11G161900' => 'mes', 'Manes.15G029300' => 'mes', 'Mapoly0071s0018' => 'mpo', 'Mapoly0082s0023' => 'mpo', 'Mapoly3477s0001' => 'mpo', 'MBI05_g31233_MAGBIO' => 'mbi', 'MBI09_g05946_MAGBIO' => 'mbi', 'MBI09_g05947_MAGBIO' => 'mbi', 'MBI17_g08346_MAGBIO' => 'mbi', 'MCO04G038' => 'mco', 'MCO09G370' => 'mco', 'MCO13G605' => 'mco', 'MD00G1075500' => 'mdo', 'MD03G1144300' => 'mdo', 'MD08G1236800' => 'mdo', 'MD13G1193300' => 'mdo', 'MD15G1428700' => 'mdo', 'Medtr1g112030' => 'mtr', 'Medtr1g112050' => 'mtr', 'Medtr2g006290' => 'mtr', 'Medtr2g086510' => 'mtr', 'Medtr4g053120' => 'mtr', 'Medtr5g006320' => 'mtr', 'Medtr8g088720' => 'mtr', 'MELO3C004712.2' => 'cme', 'MELO3C006533.2' => 'cme', 'MELO3C019438.2' => 'cme', 'MELO3C019440.2' => 'cme', 'MELO3C019441.2' => 'cme', 'MELO3C019895.2' => 'cme', 'Migut.B00811' => 'egut', 'Migut.D02447' => 'egut', 'Migut.F00875' => 'egut', 'Migut.N00186' => 'egut', 'Migut.N01051' => 'egut', 'Migut.N02491' => 'egut', 'Migut.O00784' => 'egut', 'MSTRG.12367' => 'ama', 'MSTRG.18756' => 'ama', 'MSTRG.21042' => 'ama', 'Nitab4.5_0000559g0040' => 'nta', 'Nitab4.5_0000667g0190' => 'nta', 'Nitab4.5_0000755g0160' => 'nta', 'Nitab4.5_0001216g0080' => 'nta', 'Nitab4.5_0004069g0040' => 'nta', 'Nitab4.5_0004129g0010' => 'nta', 'Nitab4.5_0005744g0030' => 'nta', 'Nitab4.5_0006996g0030' => 'nta', 'Nitab4.5_0008971g0040' => 'nta', 'Nitab4.5_0009769g0020' => 'nta', 'Nitab4.5_0009833g0010' => 'nta', 'Nitab4.5_0013140g0020' => 'nta', 'Nn003s41376' => 'nnu', 'Nn1g01857' => 'nnu', 'Nn1g03611' => 'nnu', 'Nn1g06853' => 'nnu', 'Nn3g18360' => 'nnu', 'Nn4g26328' => 'nnu', 'Nn5g27531' => 'nnu', 'Nn6g34899' => 'nnu', 'Nn7g36299' => 'nnu', 'Oeu021485.1' => 'oeu', 'Oeu022433.1' => 'oeu', 'Oeu032111.1' => 'oeu', 'Oeu051608.1' => 'oeu', 'Os01g0860601' => 'osa', 'Os03g0659200' => 'osa', 'Os03g0835900' => 'osa', 'Os04g0412200' => 'osa', 'Os05g0443500' => 'osa', 'Os07g0251500' => 'osa', 'Os08g0104600' => 'osa', 'Peaxi162Scf00003g00047' => 'pax', 'Peaxi162Scf00003g00052' => 'pax', 'Peaxi162Scf00003g00394' => 'pax', 'Peaxi162Scf00091g00621' => 'pax', 'Peaxi162Scf00152g00146' => 'pax', 'Peaxi162Scf00173g00025' => 'pax', 'Peaxi162Scf00195g00102' => 'pax', 'Peaxi162Scf00402g00013' => 'pax', 'Peaxi162Scf00519g00618' => 'pax', 'PGR004G2838' => 'pgr', 'PGR044G2275' => 'pgr', 'PGR102G1377' => 'pgr', 'PGR119G1245' => 'pgr', 'PGR142G4449' => 'pgr', 'PGSC0003DMG400004532' => 'stu', 'PGSC0003DMG400011950' => 'stu', 'PGSC0003DMG400023391' => 'stu', 'PGSC0003DMG400023985' => 'stu', 'PGSC0003DMG400026360' => 'stu', 'PGSC0003DMG400035711' => 'stu', 'PGSC0003DMG400037286' => 'stu', 'PGSC0003DMG402005881' => 'stu', 'Phvul.002G045400' => 'pvu', 'Phvul.006G216600' => 'pvu', 'Phvul.006G216700' => 'pvu', 'Phvul.006G216800' => 'pvu', 'Phvul.007G022500' => 'pvu', 'Phvul.011G094400' => 'pvu', 'Potri.001G470700' => 'ptr', 'Potri.003G015200' => 'ptr', 'Potri.004G202500' => 'ptr', 'Potri.004G218400' => 'ptr', 'Potri.008G020100' => 'ptr', 'Potri.008G153200' => 'ptr', 'Potri.009G163800' => 'ptr', 'Potri.010G087300' => 'ptr', 'Potri.010G239100' => 'ptr', 'Pp3c10_16100' => 'ppa', 'Pp3c10_16880' => 'ppa', 'Pp3c16_6230' => 'ppa', 'Pp3c17_18910' => 'ppa', 'Pp3c3_22119' => 'ppa', 'Pp3c3_22140' => 'ppa', 'Pp3c4_8159' => 'ppa', 'Pp3c4_8171' => 'ppa', 'Pp3c4_8330' => 'ppa', 'PRCOL_00004098' => 'pco', 'Prupe.1G013900' => 'ppe', 'Prupe.1G226300' => 'ppe', 'Prupe.1G573600' => 'ppe', 'Prupe.6G130100' => 'ppe', 'Psat3g090040' => 'psa', 'Psat4g210440' => 'psa', 'Psat6g231040' => 'psa', 'Psat6g231080' => 'psa', 'Psat7g063000' => 'psa', 'Psat7g188000' => 'psa', 'Psat7g188040' => 'psa', 'PSO017G0206' => 'pso', 'PSO170G0501' => 'pso', 'PSO170G6422' => 'pso', 'PSO210G7739' => 'pso', 'PSO339G1808' => 'pso', 'PSO339G6135' => 'pso', 'PSO384G0010' => 'pso', 'PSO384G0964' => 'pso', 'PSO761G0050' => 'pso', 'PSO782G4085' => 'pso', 'QL01p012264' => 'qlo', 'QL02p099491' => 'qlo', 'QL03p033868' => 'qlo', 'QL04p046678' => 'qlo', 'QL06p002448' => 'qlo', 'RcHm_v2.0_Chr4g0416181' => 'rch', 'RcHm_v2.0_Chr5g0044701' => 'rch', 'RcHm_v2.0_Chr6g0265781' => 'rch', 'RcHm_v2.0_Chr7g0221031' => 'rch', 'Rhsim04G0202000' => 'rsi', 'Rhsim11G0127300' => 'rsi', 'Rhsim13G0111800' => 'rsi', 'Sabra01G0165600' => 'sbr', 'Sabra03G0008300' => 'sbr', 'Sabra04G0136900' => 'sbr', 'Sabra08G0013400' => 'sbr', 'Sabra08G0116800' => 'sbr', 'Sabra09G0128000' => 'sbr', 'Sabra10G0055500' => 'sbr', 'Sabra10G0073300' => 'sbr', 'SalBow3G0385' => 'sbo', 'SalBow3G1119' => 'sbo', 'SalBow3G2005' => 'sbo', 'SalBow6G2563' => 'sbo', 'SalBow6G6386' => 'sbo', 'Sc06g0008800' => 'sci', 'Sc07g0004950' => 'sci', 'Sc09g0005340' => 'sci', 'Sc13g0004410' => 'sci', 'Sc21g0007090' => 'sci', 'Sed0009285' => 'sed', 'Sed0017583' => 'sed', 'Sed0019699' => 'sed', 'Sed0023107' => 'sed', 'SEGI_10916' => 'sgi', 'SEGI_16217' => 'sgi', 'SEGI_19466' => 'sgi', 'SEGI_41115' => 'sgi', 'SGA_v2.0_scaffold111G31534' => 'sas', 'SGA_v2.0_scaffold22G09864' => 'sas', 'SGA_v2.0_scaffold338G49219' => 'sas', 'SGA_v2.0_scaffold92G28298' => 'sas', 'SMO119G0064' => 'smo', 'SMO223G0038' => 'smo', 'SMO347G0584' => 'smo', 'SMO351G0010' => 'smo', 'SMO356G0404' => 'smo', 'Solyc01g103920.3' => 'sly', 'Solyc04g009710.2' => 'sly', 'Solyc05g055280.2' => 'sly', 'Solyc10g044520.3' => 'sly', 'Solyc10g075160.1' => 'sly', 'Solyc11g006910.3' => 'sly', 'Solyc11g068430.3' => 'sly', 'Sopen01g046310' => 'spe', 'Sopen03g001200' => 'spe', 'Sopen04g004830' => 'spe', 'Sopen05g033720' => 'spe', 'Sopen06g030740' => 'spe', 'Sopen10g013090' => 'spe', 'Sopen10g027630' => 'spe', 'Sopen10g027640' => 'spe', 'Sopen11g002820' => 'spe', 'Sopen11g027140' => 'spe', 'Sp1g09680' => 'spa', 'Sp2g03630' => 'spa', 'Sp4g10320' => 'spa', 'Sp6g33400' => 'spa', 'Sp7g13030' => 'spa', 'TAR365G0317' => 'tar', 'TAR376G0979' => 'tar', 'TAR623G1665' => 'tar', 'TAR633G2373' => 'tar', 'TAR636G1400' => 'tar', 'THA.LOC104800529' => 'tha', 'THA.LOC104808547' => 'tha', 'THA.LOC104809615' => 'tha', 'THA.LOC104815724' => 'tha', 'THA.LOC104818480' => 'tha', 'THA.LOC104819179' => 'tha', 'THA.LOC104822270' => 'tha', 'THA.LOC104826425' => 'tha', 'Thecc.02G089700' => 'tca', 'Thecc.04G232300' => 'tca', 'Thecc.09G283400' => 'tca', 'Thhalv10009020m.g' => 'esa', 'Thhalv10015506m.g' => 'esa', 'Thhalv10017364m.g' => 'esa', 'Thhalv10023742m.g' => 'esa', 'Thhalv10026483m.g' => 'esa', 'TPR.G17232' => 'tpr', 'TPR.G2133' => 'tpr', 'TPR.G2498' => 'tpr', 'TPR.G31942' => 'tpr', 'TPR.G37877' => 'tpr', 'TPR.G4571' => 'tpr', 'TWI14G1113' => 'twi', 'TWI15G0426' => 'twi', 'TWI31G1005' => 'twi', 'TWI38G0513' => 'twi', 'TWI38G1484' => 'twi', 'TWI73G1098' => 'twi', 'unitig_26.g10519' => 'ugi', 'unitig_736.g22395' => 'ugi', 'unitig_747.g21234' => 'ugi', 'unitig_747.g21942' => 'ugi', 'vmacro14351' => 'vma', 'VMungo0540G0082' => 'vmu', 'VMungo0540G0405' => 'vmu', 'VMungo0540G1486' => 'vmu', 'VMungo0540G1692' => 'vmu', 'VMungo0720G2473' => 'vmu', 'VMungo1127G1562' => 'vmu', 'VMungo1215G1918' => 'vmu', 'Zm00001eb052650' => 'zma', 'Zm00001eb063710' => 'zma', 'Zm00001eb083950' => 'zma', 'Zm00001eb174420' => 'zma', 'Zm00001eb260140' => 'zma', 'Zm00001eb260150' => 'zma', 'Zm00001eb260160' => 'zma', 'Zm00001eb348290' => 'zma', 'Zm00001eb366870' => 'zma', 'Zm00001eb421930' => 'zma' ), 'gf_id' => 'HOM05D001025', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001025' ), 'data_identifier' => 'HOM05D001025', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001025', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '592', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p22650' => 'bna', 'A01p29720' => 'bna', 'A03p26560' => 'bna', 'A03p68820' => 'bna', 'A04p20980' => 'bna', 'A06p07730' => 'bna', 'A07p18260' => 'bna', 'A08p33710' => 'bna', 'A09p16970' => 'bna', 'A10p27490' => 'bna', 'Aa31LG1G17300' => 'aar', 'Aa31LG1G3910' => 'aar', 'Aa31LG2G9630' => 'aar', 'Aa31LG5G8360' => 'aar', 'Aa31LG9G2410' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4699' => 'aag', 'Actinidia23512' => 'ach', 'Actinidia37080' => 'ach', 'Ah.01g020380' => 'amhyb', 'Ah.08g215710' => 'amhyb', 'Ah.09g225110' => 'amhyb', 'Ah.10g036680' => 'amhyb', 'AL1G21940' => 'aly', 'AL2G15540' => 'aly', 'AL4G21520' => 'aly', 'AL7G40960' => 'aly', 'Aqoxy2G01191' => 'aox', 'Aqoxy2G03393' => 'aox', 'Aqoxy4G02775' => 'aox', 'Aqoxy6G00058' => 'aox', 'arahy.Tifrunner.gnm1.ann1.9X74H2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CW3FX9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R485W7' => 'arhy', 'AT1G10960' => 'ath', 'AT1G60950' => 'ath', 'AT2G27510' => 'ath', 'AT4G14890' => 'ath', 'AT5G10000' => 'ath', 'ATR0665G624' => 'atr', 'ATR0697G138' => 'atr', 'ATR0776G046' => 'atr', 'ATR1134G135' => 'atr', 'Atru.chr12.1025' => 'acertr', 'Atru.chr3.3241' => 'acertr', 'Atru.chr4.2460' => 'acertr', 'AUR62007427' => 'cqu', 'AUR62010960' => 'cqu', 'AUR62012201' => 'cqu', 'AUR62021470' => 'cqu', 'AUR62022834' => 'cqu', 'AUR62033635' => 'cqu', 'AUR62036186' => 'cqu', 'BcaB01g03077' => 'bca', 'BcaB02g10093' => 'bca', 'BcaB04g20295' => 'bca', 'BcaB06g28147' => 'bca', 'BcaB07g31253' => 'bca', 'BcaC01g04946' => 'bca', 'BcaC02g10614' => 'bca', 'BcaC02g10885' => 'bca', 'BcaC04g19356' => 'bca', 'BcaC04g22297' => 'bca', 'BcaC05g24977' => 'bca', 'BcaC06g31823' => 'bca', 'BcaC07g38633' => 'bca', 'BcaC09g49353' => 'bca', 'BcaC09g50168' => 'bca', 'BcaNung00322' => 'bca', 'BcaNung04769' => 'bca', 'BolC1t02753H' => 'bol', 'BolC1t03721H' => 'bol', 'BolC3t15525H' => 'bol', 'BolC4t23903H' => 'bol', 'BolC4t24231H' => 'bol', 'BolC4t27209H' => 'bol', 'BolC5t29671H' => 'bol', 'BolC8t49044H' => 'bol', 'BolC9t54999H' => 'bol', 'BolC9t59517H' => 'bol', 'BraA01t02178Z' => 'bra', 'BraA01t03099Z' => 'bra', 'BraA03t11867Z' => 'bra', 'BraA04t17667Z' => 'bra', 'BraA07t29542Z' => 'bra', 'BraA08t35287Z' => 'bra', 'BraA09t37334Z' => 'bra', 'BraA10t44801Z' => 'bra', 'BraSC39t46181Z' => 'bra', 'C01p28240' => 'bna', 'C01p37530' => 'bna', 'C03p31820' => 'bna', 'C04p24080' => 'bna', 'C04p25790' => 'bna', 'C04p56770' => 'bna', 'C05p09310' => 'bna', 'C09p21010' => 'bna', 'C09p67560' => 'bna', 'CAN.G1324.7' => 'can', 'CAN.G1358.10' => 'can', 'CAN.G1550.2' => 'can', 'CAN.G186.56' => 'can', 'CAN.G1965.1' => 'can', 'CAN.G645.15' => 'can', 'CAN.G798.26' => 'can', 'CAN.G798.27' => 'can', 'CAN.G798.29' => 'can', 'CAN.G919.31' => 'can', 'CANSAT11G0133' => 'cansat', 'CANSAT11G1171' => 'cansat', 'CANSAT11G2056' => 'cansat', 'CANSAT56G1202' => 'cansat', 'CANSAT56G1514' => 'cansat', 'CANSAT78G0455' => 'cansat', 'CARHR011190' => 'chi', 'CARHR051980' => 'chi', 'CARHR120170' => 'chi', 'CARHR203310' => 'chi', 'CARHR221490' => 'chi', 'Carub.0001s1054' => 'cru', 'Carub.0002s0431' => 'cru', 'Carub.0004s0818' => 'cru', 'Carub.0006s0846' => 'cru', 'Carub.0007s2722' => 'cru', 'Ca_00058_v3' => 'car', 'Ca_17831_v3' => 'car', 'Ca_19408_v3' => 'car', 'Ca_24397_v3' => 'car', 'Ca_25664_v3' => 'car', 'CBR_g21818' => 'cbr', 'CBR_g31195' => 'cbr', 'CBR_g32282' => 'cbr', 'CBR_g39599' => 'cbr', 'CBR_g49410' => 'cbr', 'Cc01_g09120' => 'ccan', 'Cc01_g09130' => 'ccan', 'Cc02_g09630' => 'ccan', 'Cc02_g22810' => 'ccan', 'Cc03_g03810' => 'ccan', 'CDE02G3718' => 'cde', 'CDE04G3183' => 'cde', 'CDE07G1046' => 'cde', 'CDE08G0480' => 'cde', 'Cfa005493' => 'cfa', 'Cfa010312' => 'cfa', 'Cfa015648' => 'cfa', 'Ciclev10002793m.g' => 'ccl', 'Ciclev10003356m.g' => 'ccl', 'Ciclev10006141m.g' => 'ccl', 'Ciclev10016676m.g' => 'ccl', 'Ciclev10017081m.g' => 'ccl', 'Ciclev10029499m.g' => 'ccl', 'CiPaw.01G166300' => 'cil', 'CiPaw.06G145600' => 'cil', 'CiPaw.13G040100' => 'cil', 'CiPaw.13G135800' => 'cil', 'ClCG01G012230' => 'cla', 'ClCG05G009510' => 'cla', 'ClCG08G008270' => 'cla', 'COL.COLO4_11763' => 'col', 'COL.COLO4_19876' => 'col', 'COL.COLO4_21481' => 'col', 'Cpa.g.sc118.34' => 'cpa', 'Cpa.g.sc32.13' => 'cpa', 'Cpa.g.sc58.103' => 'cpa', 'Cre03.g183850' => 'cre', 'Cre06.g306350' => 'cre', 'Cre07.g334800' => 'cre', 'Cre12.g487900' => 'cre', 'Cre14.g626700' => 'cre', 'Cre16.g658400' => 'cre', 'Cre17.g700950' => 'cre', 'CsaV3_1G014830' => 'csa', 'CsaV3_3G013320' => 'csa', 'CsaV3_3G019210' => 'csa', 'CsaV3_3G019220' => 'csa', 'CsaV3_6G004230' => 'csa', 'CSS0003773' => 'camsi', 'CSS0004563' => 'camsi', 'CSS0013949' => 'camsi', 'CSS0025971' => 'camsi', 'CSS0028570' => 'camsi', 'CSS0033127' => 'camsi', 'CSS0036051' => 'camsi', 'CSS0040087' => 'camsi', 'CSS0043179' => 'camsi', 'DCAR_006161' => 'dca', 'DCAR_010351' => 'dca', 'DCAR_012197' => 'dca', 'DCAR_024162' => 'dca', 'Dinv01030' => 'din', 'Dinv10924' => 'din', 'Dinv11835' => 'din', 'Dinv22841' => 'din', 'Dinv42553' => 'din', 'Duzib052G0560' => 'dzi', 'Duzib132G0389' => 'dzi', 'Duzib150G1181' => 'dzi', 'Duzib168G0623' => 'dzi', 'Duzib170G1036' => 'dzi', 'Duzib212G0200' => 'dzi', 'Duzib248G0194' => 'dzi', 'ECA232G2193' => 'eca', 'ECA233G0302' => 'eca', 'ECA234G2813' => 'eca', 'ECA234G4866' => 'eca', 'ECA240G3932' => 'eca', 'ECA248G0385' => 'eca', 'EL10Ac2g04781' => 'bvu', 'EL10Ac3g06445' => 'bvu', 'EL10Ac7g15825' => 'bvu', 'EL10Ac8g18550' => 'bvu', 'Eucgr.B03849' => 'egr', 'Eucgr.I02744' => 'egr', 'Eucgr.J00264' => 'egr', 'Eucgr.J00493' => 'egr', 'FAN04G2181' => 'fan', 'FAN07G2666' => 'fan', 'FAN11G0024' => 'fan', 'FAN12G1105' => 'fan', 'FAN13G0302' => 'fan', 'FAN15G2781' => 'fan', 'FAN16G1274' => 'fan', 'FAN17G2988' => 'fan', 'FAN18G2621' => 'fan', 'FAN21G0013' => 'fan', 'FAN22G1211' => 'fan', 'FAN25G3626' => 'fan', 'FvH4_2g09491' => 'fve', 'FvH4_3g24910' => 'fve', 'FvH4_4g15630' => 'fve', 'FvH4_5g28820' => 'fve', 'Glyma.01G238000' => 'gma', 'Glyma.05G168400' => 'gma', 'Glyma.08G126800' => 'gma', 'Glyma.08G188500' => 'gma', 'Glyma.10G278900' => 'gma', 'Glyma.11G005700' => 'gma', 'Glyma.11G183300' => 'gma', 'Glyma.12G089200' => 'gma', 'Glyma.12G169400' => 'gma', 'Glyma.12G169500' => 'gma', 'Glyma.12G169600' => 'gma', 'Glyma.20G110800' => 'gma', 'Gohir.A03G192900' => 'ghi', 'Gohir.A03G193000' => 'ghi', 'Gohir.A05G080700' => 'ghi', 'Gohir.A09G216000' => 'ghi', 'Gohir.A12G027700' => 'ghi', 'Gohir.A13G036200' => 'ghi', 'Gohir.A13G222600' => 'ghi', 'Gohir.D02G213900' => 'ghi', 'Gohir.D02G214000' => 'ghi', 'Gohir.D05G083700' => 'ghi', 'Gohir.D05G083800' => 'ghi', 'Gohir.D05G083850' => 'ghi', 'Gohir.D08G015400' => 'ghi', 'Gohir.D09G218400' => 'ghi', 'Gohir.D12G027100' => 'ghi', 'Gohir.D13G034500' => 'ghi', 'Gohir.D13G227400' => 'ghi', 'Gorai.005G241800' => 'gra', 'Gorai.005G241900' => 'gra', 'Gorai.006G239400' => 'gra', 'Gorai.008G027600' => 'gra', 'Gorai.009G085400' => 'gra', 'Gorai.009G085500' => 'gra', 'Gorai.013G039000' => 'gra', 'Gorai.013G194800' => 'gra', 'Gorai.013G257900' => 'gra', 'GSVIVG01000982001' => 'vvi', 'GSVIVG01017981001' => 'vvi', 'HanXRQChr01g0024061' => 'han', 'HanXRQChr09g0247831' => 'han', 'HanXRQChr10g0294611' => 'han', 'HanXRQChr10g0294621' => 'han', 'HanXRQChr11g0346821' => 'han', 'HanXRQChr13g0397461' => 'han', 'HanXRQChr16g0513651' => 'han', 'HanXRQChr16g0513701' => 'han', 'Haze_00897' => 'cav', 'Haze_01745' => 'cav', 'Haze_02486' => 'cav', 'Haze_02487' => 'cav', 'Haze_23374' => 'cav', 'Hma1.2p1_0578F.1_g182520' => 'hma', 'Hma1.2p1_0602F.1_g187350' => 'hma', 'Hma1.2p1_0602F.1_g187360' => 'hma', 'Hma1.2p1_0874F.1_g231320' => 'hma', 'Hma1.2p1_1197F.1_g266210' => 'hma', 'Hma1.2p1_1197F.1_g266220' => 'hma', 'Hma1.2p1_2167F.1_g315895' => 'hma', 'Hma1.2p1_2190F.1_g316640' => 'hma', 'Hma1.2p1_3645F.1_g337153' => 'hma', 'HPP92_004907' => 'vpl', 'HPP92_012134' => 'vpl', 'HPP92_025136' => 'vpl', 'HPP92_026087' => 'vpl', 'Hund06782' => 'sun', 'Hund06784' => 'sun', 'Lalb_Chr01g0004861' => 'lal', 'Lalb_Chr02g0140591' => 'lal', 'Lalb_Chr02g0140611' => 'lal', 'Lalb_Chr03g0028101' => 'lal', 'Lalb_Chr07g0185791' => 'lal', 'Lalb_Chr12g0204491' => 'lal', 'Lalb_Chr13g0295671' => 'lal', 'Lalb_Chr19g0136461' => 'lal', 'Lalb_Chr21g0309191' => 'lal', 'Lj1g0028158' => 'lja', 'Lj1P236T38' => 'lonja', 'Lj2C32G2' => 'lonja', 'Lj2P944T8' => 'lonja', 'Lj2P963T15' => 'lonja', 'Lj3g0011788' => 'lja', 'Lj4g0025027' => 'lja', 'Lj5P255T36' => 'lonja', 'Lj6g0018866' => 'lja', 'Lj6P608T31' => 'lonja', 'LjContig00408g0008879' => 'lja', 'Lsat_1_v5_gn_5_105820' => 'lsa', 'Lsat_1_v5_gn_6_38800' => 'lsa', 'Lsat_1_v5_gn_7_67141' => 'lsa', 'Manes.04G003400' => 'mes', 'Manes.07G020000' => 'mes', 'Manes.07G020100' => 'mes', 'Manes.07G020150' => 'mes', 'Manes.10G061500' => 'mes', 'Manes.10G123200' => 'mes', 'Manes.11G161900' => 'mes', 'Manes.15G029300' => 'mes', 'Mapoly0071s0018' => 'mpo', 'Mapoly0082s0023' => 'mpo', 'Mapoly3477s0001' => 'mpo', 'MBI05_g31233_MAGBIO' => 'mbi', 'MBI09_g05946_MAGBIO' => 'mbi', 'MBI09_g05947_MAGBIO' => 'mbi', 'MBI17_g08346_MAGBIO' => 'mbi', 'MCO04G038' => 'mco', 'MCO09G370' => 'mco', 'MCO13G605' => 'mco', 'MD00G1075500' => 'mdo', 'MD03G1144300' => 'mdo', 'MD08G1236800' => 'mdo', 'MD13G1193300' => 'mdo', 'MD15G1428700' => 'mdo', 'Medtr1g112030' => 'mtr', 'Medtr1g112050' => 'mtr', 'Medtr2g006290' => 'mtr', 'Medtr2g086510' => 'mtr', 'Medtr4g053120' => 'mtr', 'Medtr5g006320' => 'mtr', 'Medtr8g088720' => 'mtr', 'MELO3C004712.2' => 'cme', 'MELO3C006533.2' => 'cme', 'MELO3C019438.2' => 'cme', 'MELO3C019440.2' => 'cme', 'MELO3C019441.2' => 'cme', 'MELO3C019895.2' => 'cme', 'Migut.B00811' => 'egut', 'Migut.D02447' => 'egut', 'Migut.F00875' => 'egut', 'Migut.N00186' => 'egut', 'Migut.N01051' => 'egut', 'Migut.N02491' => 'egut', 'Migut.O00784' => 'egut', 'MSTRG.12367' => 'ama', 'MSTRG.18756' => 'ama', 'MSTRG.21042' => 'ama', 'Nitab4.5_0000559g0040' => 'nta', 'Nitab4.5_0000667g0190' => 'nta', 'Nitab4.5_0000755g0160' => 'nta', 'Nitab4.5_0001216g0080' => 'nta', 'Nitab4.5_0004069g0040' => 'nta', 'Nitab4.5_0004129g0010' => 'nta', 'Nitab4.5_0005744g0030' => 'nta', 'Nitab4.5_0006996g0030' => 'nta', 'Nitab4.5_0008971g0040' => 'nta', 'Nitab4.5_0009769g0020' => 'nta', 'Nitab4.5_0009833g0010' => 'nta', 'Nitab4.5_0013140g0020' => 'nta', 'Nn003s41376' => 'nnu', 'Nn1g01857' => 'nnu', 'Nn1g03611' => 'nnu', 'Nn1g06853' => 'nnu', 'Nn3g18360' => 'nnu', 'Nn4g26328' => 'nnu', 'Nn5g27531' => 'nnu', 'Nn6g34899' => 'nnu', 'Nn7g36299' => 'nnu', 'Oeu021485.1' => 'oeu', 'Oeu022433.1' => 'oeu', 'Oeu032111.1' => 'oeu', 'Oeu051608.1' => 'oeu', 'Os01g0860601' => 'osa', 'Os03g0659200' => 'osa', 'Os03g0835900' => 'osa', 'Os04g0412200' => 'osa', 'Os05g0443500' => 'osa', 'Os07g0251500' => 'osa', 'Os08g0104600' => 'osa', 'Peaxi162Scf00003g00047' => 'pax', 'Peaxi162Scf00003g00052' => 'pax', 'Peaxi162Scf00003g00394' => 'pax', 'Peaxi162Scf00091g00621' => 'pax', 'Peaxi162Scf00152g00146' => 'pax', 'Peaxi162Scf00173g00025' => 'pax', 'Peaxi162Scf00195g00102' => 'pax', 'Peaxi162Scf00402g00013' => 'pax', 'Peaxi162Scf00519g00618' => 'pax', 'PGR004G2838' => 'pgr', 'PGR044G2275' => 'pgr', 'PGR102G1377' => 'pgr', 'PGR119G1245' => 'pgr', 'PGR142G4449' => 'pgr', 'PGSC0003DMG400004532' => 'stu', 'PGSC0003DMG400011950' => 'stu', 'PGSC0003DMG400023391' => 'stu', 'PGSC0003DMG400023985' => 'stu', 'PGSC0003DMG400026360' => 'stu', 'PGSC0003DMG400035711' => 'stu', 'PGSC0003DMG400037286' => 'stu', 'PGSC0003DMG402005881' => 'stu', 'Phvul.002G045400' => 'pvu', 'Phvul.006G216600' => 'pvu', 'Phvul.006G216700' => 'pvu', 'Phvul.006G216800' => 'pvu', 'Phvul.007G022500' => 'pvu', 'Phvul.011G094400' => 'pvu', 'Potri.001G470700' => 'ptr', 'Potri.003G015200' => 'ptr', 'Potri.004G202500' => 'ptr', 'Potri.004G218400' => 'ptr', 'Potri.008G020100' => 'ptr', 'Potri.008G153200' => 'ptr', 'Potri.009G163800' => 'ptr', 'Potri.010G087300' => 'ptr', 'Potri.010G239100' => 'ptr', 'Pp3c10_16100' => 'ppa', 'Pp3c10_16880' => 'ppa', 'Pp3c16_6230' => 'ppa', 'Pp3c17_18910' => 'ppa', 'Pp3c3_22119' => 'ppa', 'Pp3c3_22140' => 'ppa', 'Pp3c4_8159' => 'ppa', 'Pp3c4_8171' => 'ppa', 'Pp3c4_8330' => 'ppa', 'PRCOL_00004098' => 'pco', 'Prupe.1G013900' => 'ppe', 'Prupe.1G226300' => 'ppe', 'Prupe.1G573600' => 'ppe', 'Prupe.6G130100' => 'ppe', 'Psat3g090040' => 'psa', 'Psat4g210440' => 'psa', 'Psat6g231040' => 'psa', 'Psat6g231080' => 'psa', 'Psat7g063000' => 'psa', 'Psat7g188000' => 'psa', 'Psat7g188040' => 'psa', 'PSO017G0206' => 'pso', 'PSO170G0501' => 'pso', 'PSO170G6422' => 'pso', 'PSO210G7739' => 'pso', 'PSO339G1808' => 'pso', 'PSO339G6135' => 'pso', 'PSO384G0010' => 'pso', 'PSO384G0964' => 'pso', 'PSO761G0050' => 'pso', 'PSO782G4085' => 'pso', 'QL01p012264' => 'qlo', 'QL02p099491' => 'qlo', 'QL03p033868' => 'qlo', 'QL04p046678' => 'qlo', 'QL06p002448' => 'qlo', 'RcHm_v2.0_Chr4g0416181' => 'rch', 'RcHm_v2.0_Chr5g0044701' => 'rch', 'RcHm_v2.0_Chr6g0265781' => 'rch', 'RcHm_v2.0_Chr7g0221031' => 'rch', 'Rhsim04G0202000' => 'rsi', 'Rhsim11G0127300' => 'rsi', 'Rhsim13G0111800' => 'rsi', 'Sabra01G0165600' => 'sbr', 'Sabra03G0008300' => 'sbr', 'Sabra04G0136900' => 'sbr', 'Sabra08G0013400' => 'sbr', 'Sabra08G0116800' => 'sbr', 'Sabra09G0128000' => 'sbr', 'Sabra10G0055500' => 'sbr', 'Sabra10G0073300' => 'sbr', 'SalBow3G0385' => 'sbo', 'SalBow3G1119' => 'sbo', 'SalBow3G2005' => 'sbo', 'SalBow6G2563' => 'sbo', 'SalBow6G6386' => 'sbo', 'Sc06g0008800' => 'sci', 'Sc07g0004950' => 'sci', 'Sc09g0005340' => 'sci', 'Sc13g0004410' => 'sci', 'Sc21g0007090' => 'sci', 'Sed0009285' => 'sed', 'Sed0017583' => 'sed', 'Sed0019699' => 'sed', 'Sed0023107' => 'sed', 'SEGI_10916' => 'sgi', 'SEGI_16217' => 'sgi', 'SEGI_19466' => 'sgi', 'SEGI_41115' => 'sgi', 'SGA_v2.0_scaffold111G31534' => 'sas', 'SGA_v2.0_scaffold22G09864' => 'sas', 'SGA_v2.0_scaffold338G49219' => 'sas', 'SGA_v2.0_scaffold92G28298' => 'sas', 'SMO119G0064' => 'smo', 'SMO223G0038' => 'smo', 'SMO347G0584' => 'smo', 'SMO351G0010' => 'smo', 'SMO356G0404' => 'smo', 'Solyc01g103920.3' => 'sly', 'Solyc04g009710.2' => 'sly', 'Solyc05g055280.2' => 'sly', 'Solyc10g044520.3' => 'sly', 'Solyc10g075160.1' => 'sly', 'Solyc11g006910.3' => 'sly', 'Solyc11g068430.3' => 'sly', 'Sopen01g046310' => 'spe', 'Sopen03g001200' => 'spe', 'Sopen04g004830' => 'spe', 'Sopen05g033720' => 'spe', 'Sopen06g030740' => 'spe', 'Sopen10g013090' => 'spe', 'Sopen10g027630' => 'spe', 'Sopen10g027640' => 'spe', 'Sopen11g002820' => 'spe', 'Sopen11g027140' => 'spe', 'Sp1g09680' => 'spa', 'Sp2g03630' => 'spa', 'Sp4g10320' => 'spa', 'Sp6g33400' => 'spa', 'Sp7g13030' => 'spa', 'TAR365G0317' => 'tar', 'TAR376G0979' => 'tar', 'TAR623G1665' => 'tar', 'TAR633G2373' => 'tar', 'TAR636G1400' => 'tar', 'THA.LOC104800529' => 'tha', 'THA.LOC104808547' => 'tha', 'THA.LOC104809615' => 'tha', 'THA.LOC104815724' => 'tha', 'THA.LOC104818480' => 'tha', 'THA.LOC104819179' => 'tha', 'THA.LOC104822270' => 'tha', 'THA.LOC104826425' => 'tha', 'Thecc.02G089700' => 'tca', 'Thecc.04G232300' => 'tca', 'Thecc.09G283400' => 'tca', 'Thhalv10009020m.g' => 'esa', 'Thhalv10015506m.g' => 'esa', 'Thhalv10017364m.g' => 'esa', 'Thhalv10023742m.g' => 'esa', 'Thhalv10026483m.g' => 'esa', 'TPR.G17232' => 'tpr', 'TPR.G2133' => 'tpr', 'TPR.G2498' => 'tpr', 'TPR.G31942' => 'tpr', 'TPR.G37877' => 'tpr', 'TPR.G4571' => 'tpr', 'TWI14G1113' => 'twi', 'TWI15G0426' => 'twi', 'TWI31G1005' => 'twi', 'TWI38G0513' => 'twi', 'TWI38G1484' => 'twi', 'TWI73G1098' => 'twi', 'unitig_26.g10519' => 'ugi', 'unitig_736.g22395' => 'ugi', 'unitig_747.g21234' => 'ugi', 'unitig_747.g21942' => 'ugi', 'vmacro14351' => 'vma', 'VMungo0540G0082' => 'vmu', 'VMungo0540G0405' => 'vmu', 'VMungo0540G1486' => 'vmu', 'VMungo0540G1692' => 'vmu', 'VMungo0720G2473' => 'vmu', 'VMungo1127G1562' => 'vmu', 'VMungo1215G1918' => 'vmu', 'Zm00001eb052650' => 'zma', 'Zm00001eb063710' => 'zma', 'Zm00001eb083950' => 'zma', 'Zm00001eb174420' => 'zma', 'Zm00001eb260140' => 'zma', 'Zm00001eb260150' => 'zma', 'Zm00001eb260160' => 'zma', 'Zm00001eb348290' => 'zma', 'Zm00001eb366870' => 'zma', 'Zm00001eb421930' => 'zma' ) $gf_id = 'HOM05D001025' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001025' ) $data_identifier = 'HOM05D001025' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 19, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 2, 'amhyb' => (int) 4, 'aly' => (int) 4, 'aox' => (int) 4, 'arhy' => (int) 3, 'ath' => (int) 5, 'atr' => (int) 4, 'acertr' => (int) 3, 'cqu' => (int) 7, 'bca' => (int) 17, 'bol' => (int) 10, 'bra' => (int) 9, 'can' => (int) 10, 'cansat' => (int) 6, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 5, 'cbr' => (int) 5, 'ccan' => (int) 5, 'cde' => (int) 4, 'cfa' => (int) 3, 'ccl' => (int) 6, 'cil' => (int) 4, 'cla' => (int) 3, 'col' => (int) 3, 'cpa' => (int) 3, 'cre' => (int) 7, 'csa' => (int) 5, 'camsi' => (int) 9, 'dca' => (int) 4, 'din' => (int) 5, 'dzi' => (int) 7, 'eca' => (int) 6, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 12, 'fve' => (int) 4, 'gma' => (int) 12, 'ghi' => (int) 17, 'gra' => (int) 9, 'vvi' => (int) 2, 'han' => (int) 8, 'cav' => (int) 5, 'hma' => (int) 9, 'vpl' => (int) 4, 'sun' => (int) 2, 'lal' => (int) 9, 'lja' => (int) 5, 'lonja' => (int) 6, 'lsa' => (int) 3, 'mes' => (int) 8, 'mpo' => (int) 3, 'mbi' => (int) 4, 'mco' => (int) 3, 'mdo' => (int) 5, 'mtr' => (int) 7, 'cme' => (int) 6, 'egut' => (int) 7, 'ama' => (int) 3, 'nta' => (int) 12, 'nnu' => (int) 9, 'oeu' => (int) 4, 'osa' => (int) 7, 'pax' => (int) 9, 'pgr' => (int) 5, 'stu' => (int) 8, 'pvu' => (int) 6, 'ptr' => (int) 9, 'ppa' => (int) 9, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 7, 'pso' => (int) 10, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 3, 'sbr' => (int) 8, 'sbo' => (int) 5, 'sci' => (int) 5, 'sed' => (int) 4, 'sgi' => (int) 4, 'sas' => (int) 4, 'smo' => (int) 5, 'sly' => (int) 7, 'spe' => (int) 10, 'spa' => (int) 5, 'tar' => (int) 5, 'tha' => (int) 8, 'tca' => (int) 3, 'esa' => (int) 5, 'tpr' => (int) 6, 'twi' => (int) 6, 'ugi' => (int) 4, 'vma' => (int) 1, 'vmu' => (int) 7, 'zma' => (int) 10 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb421930' $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' => 'HOM05D001025', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '592', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p22650' => 'bna', 'A01p29720' => 'bna', 'A03p26560' => 'bna', 'A03p68820' => 'bna', 'A04p20980' => 'bna', 'A06p07730' => 'bna', 'A07p18260' => 'bna', 'A08p33710' => 'bna', 'A09p16970' => 'bna', 'A10p27490' => 'bna', 'Aa31LG1G17300' => 'aar', 'Aa31LG1G3910' => 'aar', 'Aa31LG2G9630' => 'aar', 'Aa31LG5G8360' => 'aar', 'Aa31LG9G2410' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4699' => 'aag', 'Actinidia23512' => 'ach', 'Actinidia37080' => 'ach', 'Ah.01g020380' => 'amhyb', 'Ah.08g215710' => 'amhyb', 'Ah.09g225110' => 'amhyb', 'Ah.10g036680' => 'amhyb', 'AL1G21940' => 'aly', 'AL2G15540' => 'aly', 'AL4G21520' => 'aly', 'AL7G40960' => 'aly', 'Aqoxy2G01191' => 'aox', 'Aqoxy2G03393' => 'aox', 'Aqoxy4G02775' => 'aox', 'Aqoxy6G00058' => 'aox', 'arahy.Tifrunner.gnm1.ann1.9X74H2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CW3FX9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R485W7' => 'arhy', 'AT1G10960' => 'ath', 'AT1G60950' => 'ath', 'AT2G27510' => 'ath', 'AT4G14890' => 'ath', 'AT5G10000' => 'ath', 'ATR0665G624' => 'atr', 'ATR0697G138' => 'atr', 'ATR0776G046' => 'atr', 'ATR1134G135' => 'atr', 'Atru.chr12.1025' => 'acertr', 'Atru.chr3.3241' => 'acertr', 'Atru.chr4.2460' => 'acertr', 'AUR62007427' => 'cqu', 'AUR62010960' => 'cqu', 'AUR62012201' => 'cqu', 'AUR62021470' => 'cqu', 'AUR62022834' => 'cqu', 'AUR62033635' => 'cqu', 'AUR62036186' => 'cqu', 'BcaB01g03077' => 'bca', 'BcaB02g10093' => 'bca', 'BcaB04g20295' => 'bca', 'BcaB06g28147' => 'bca', 'BcaB07g31253' => 'bca', 'BcaC01g04946' => 'bca', 'BcaC02g10614' => 'bca', 'BcaC02g10885' => 'bca', 'BcaC04g19356' => 'bca', 'BcaC04g22297' => 'bca', 'BcaC05g24977' => 'bca', 'BcaC06g31823' => 'bca', 'BcaC07g38633' => 'bca', 'BcaC09g49353' => 'bca', 'BcaC09g50168' => 'bca', 'BcaNung00322' => 'bca', 'BcaNung04769' => 'bca', 'BolC1t02753H' => 'bol', 'BolC1t03721H' => 'bol', 'BolC3t15525H' => 'bol', 'BolC4t23903H' => 'bol', 'BolC4t24231H' => 'bol', 'BolC4t27209H' => 'bol', 'BolC5t29671H' => 'bol', 'BolC8t49044H' => 'bol', 'BolC9t54999H' => 'bol', 'BolC9t59517H' => 'bol', 'BraA01t02178Z' => 'bra', 'BraA01t03099Z' => 'bra', 'BraA03t11867Z' => 'bra', 'BraA04t17667Z' => 'bra', 'BraA07t29542Z' => 'bra', 'BraA08t35287Z' => 'bra', 'BraA09t37334Z' => 'bra', 'BraA10t44801Z' => 'bra', 'BraSC39t46181Z' => 'bra', 'C01p28240' => 'bna', 'C01p37530' => 'bna', 'C03p31820' => 'bna', 'C04p24080' => 'bna', 'C04p25790' => 'bna', 'C04p56770' => 'bna', 'C05p09310' => 'bna', 'C09p21010' => 'bna', 'C09p67560' => 'bna', 'CAN.G1324.7' => 'can', 'CAN.G1358.10' => 'can', 'CAN.G1550.2' => 'can', 'CAN.G186.56' => 'can', 'CAN.G1965.1' => 'can', 'CAN.G645.15' => 'can', 'CAN.G798.26' => 'can', 'CAN.G798.27' => 'can', 'CAN.G798.29' => 'can', 'CAN.G919.31' => 'can', 'CANSAT11G0133' => 'cansat', 'CANSAT11G1171' => 'cansat', 'CANSAT11G2056' => 'cansat', 'CANSAT56G1202' => 'cansat', 'CANSAT56G1514' => 'cansat', 'CANSAT78G0455' => 'cansat', 'CARHR011190' => 'chi', 'CARHR051980' => 'chi', 'CARHR120170' => 'chi', 'CARHR203310' => 'chi', 'CARHR221490' => 'chi', 'Carub.0001s1054' => 'cru', 'Carub.0002s0431' => 'cru', 'Carub.0004s0818' => 'cru', 'Carub.0006s0846' => 'cru', 'Carub.0007s2722' => 'cru', 'Ca_00058_v3' => 'car', 'Ca_17831_v3' => 'car', 'Ca_19408_v3' => 'car', 'Ca_24397_v3' => 'car', 'Ca_25664_v3' => 'car', 'CBR_g21818' => 'cbr', 'CBR_g31195' => 'cbr', 'CBR_g32282' => 'cbr', 'CBR_g39599' => 'cbr', 'CBR_g49410' => 'cbr', 'Cc01_g09120' => 'ccan', 'Cc01_g09130' => 'ccan', 'Cc02_g09630' => 'ccan', 'Cc02_g22810' => 'ccan', 'Cc03_g03810' => 'ccan', 'CDE02G3718' => 'cde', 'CDE04G3183' => 'cde', 'CDE07G1046' => 'cde', 'CDE08G0480' => 'cde', 'Cfa005493' => 'cfa', 'Cfa010312' => 'cfa', 'Cfa015648' => 'cfa', 'Ciclev10002793m.g' => 'ccl', 'Ciclev10003356m.g' => 'ccl', 'Ciclev10006141m.g' => 'ccl', 'Ciclev10016676m.g' => 'ccl', 'Ciclev10017081m.g' => 'ccl', 'Ciclev10029499m.g' => 'ccl', 'CiPaw.01G166300' => 'cil', 'CiPaw.06G145600' => 'cil', 'CiPaw.13G040100' => 'cil', 'CiPaw.13G135800' => 'cil', 'ClCG01G012230' => 'cla', 'ClCG05G009510' => 'cla', 'ClCG08G008270' => 'cla', 'COL.COLO4_11763' => 'col', 'COL.COLO4_19876' => 'col', 'COL.COLO4_21481' => 'col', 'Cpa.g.sc118.34' => 'cpa', 'Cpa.g.sc32.13' => 'cpa', 'Cpa.g.sc58.103' => 'cpa', 'Cre03.g183850' => 'cre', 'Cre06.g306350' => 'cre', 'Cre07.g334800' => 'cre', 'Cre12.g487900' => 'cre', 'Cre14.g626700' => 'cre', 'Cre16.g658400' => 'cre', 'Cre17.g700950' => 'cre', 'CsaV3_1G014830' => 'csa', 'CsaV3_3G013320' => 'csa', 'CsaV3_3G019210' => 'csa', 'CsaV3_3G019220' => 'csa', 'CsaV3_6G004230' => 'csa', 'CSS0003773' => 'camsi', 'CSS0004563' => 'camsi', 'CSS0013949' => 'camsi', 'CSS0025971' => 'camsi', 'CSS0028570' => 'camsi', 'CSS0033127' => 'camsi', 'CSS0036051' => 'camsi', 'CSS0040087' => 'camsi', 'CSS0043179' => 'camsi', 'DCAR_006161' => 'dca', 'DCAR_010351' => 'dca', 'DCAR_012197' => 'dca', 'DCAR_024162' => 'dca', 'Dinv01030' => 'din', 'Dinv10924' => 'din', 'Dinv11835' => 'din', 'Dinv22841' => 'din', 'Dinv42553' => 'din', 'Duzib052G0560' => 'dzi', 'Duzib132G0389' => 'dzi', 'Duzib150G1181' => 'dzi', 'Duzib168G0623' => 'dzi', 'Duzib170G1036' => 'dzi', 'Duzib212G0200' => 'dzi', 'Duzib248G0194' => 'dzi', 'ECA232G2193' => 'eca', 'ECA233G0302' => 'eca', 'ECA234G2813' => 'eca', 'ECA234G4866' => 'eca', 'ECA240G3932' => 'eca', 'ECA248G0385' => 'eca', 'EL10Ac2g04781' => 'bvu', 'EL10Ac3g06445' => 'bvu', 'EL10Ac7g15825' => 'bvu', 'EL10Ac8g18550' => 'bvu', 'Eucgr.B03849' => 'egr', 'Eucgr.I02744' => 'egr', 'Eucgr.J00264' => 'egr', 'Eucgr.J00493' => 'egr', 'FAN04G2181' => 'fan', 'FAN07G2666' => 'fan', 'FAN11G0024' => 'fan', 'FAN12G1105' => 'fan', 'FAN13G0302' => 'fan', 'FAN15G2781' => 'fan', 'FAN16G1274' => 'fan', 'FAN17G2988' => 'fan', 'FAN18G2621' => 'fan', 'FAN21G0013' => 'fan', 'FAN22G1211' => 'fan', 'FAN25G3626' => 'fan', 'FvH4_2g09491' => 'fve', 'FvH4_3g24910' => 'fve', 'FvH4_4g15630' => 'fve', 'FvH4_5g28820' => 'fve', 'Glyma.01G238000' => 'gma', 'Glyma.05G168400' => 'gma', 'Glyma.08G126800' => 'gma', 'Glyma.08G188500' => 'gma', 'Glyma.10G278900' => 'gma', 'Glyma.11G005700' => 'gma', 'Glyma.11G183300' => 'gma', 'Glyma.12G089200' => 'gma', 'Glyma.12G169400' => 'gma', 'Glyma.12G169500' => 'gma', 'Glyma.12G169600' => 'gma', 'Glyma.20G110800' => 'gma', 'Gohir.A03G192900' => 'ghi', 'Gohir.A03G193000' => 'ghi', 'Gohir.A05G080700' => 'ghi', 'Gohir.A09G216000' => 'ghi', 'Gohir.A12G027700' => 'ghi', 'Gohir.A13G036200' => 'ghi', 'Gohir.A13G222600' => 'ghi', 'Gohir.D02G213900' => 'ghi', 'Gohir.D02G214000' => 'ghi', 'Gohir.D05G083700' => 'ghi', 'Gohir.D05G083800' => 'ghi', 'Gohir.D05G083850' => 'ghi', 'Gohir.D08G015400' => 'ghi', 'Gohir.D09G218400' => 'ghi', 'Gohir.D12G027100' => 'ghi', 'Gohir.D13G034500' => 'ghi', 'Gohir.D13G227400' => 'ghi', 'Gorai.005G241800' => 'gra', 'Gorai.005G241900' => 'gra', 'Gorai.006G239400' => 'gra', 'Gorai.008G027600' => 'gra', 'Gorai.009G085400' => 'gra', 'Gorai.009G085500' => 'gra', 'Gorai.013G039000' => 'gra', 'Gorai.013G194800' => 'gra', 'Gorai.013G257900' => 'gra', 'GSVIVG01000982001' => 'vvi', 'GSVIVG01017981001' => 'vvi', 'HanXRQChr01g0024061' => 'han', 'HanXRQChr09g0247831' => 'han', 'HanXRQChr10g0294611' => 'han', 'HanXRQChr10g0294621' => 'han', 'HanXRQChr11g0346821' => 'han', 'HanXRQChr13g0397461' => 'han', 'HanXRQChr16g0513651' => 'han', 'HanXRQChr16g0513701' => 'han', 'Haze_00897' => 'cav', 'Haze_01745' => 'cav', 'Haze_02486' => 'cav', 'Haze_02487' => 'cav', 'Haze_23374' => 'cav', 'Hma1.2p1_0578F.1_g182520' => 'hma', 'Hma1.2p1_0602F.1_g187350' => 'hma', 'Hma1.2p1_0602F.1_g187360' => 'hma', 'Hma1.2p1_0874F.1_g231320' => 'hma', 'Hma1.2p1_1197F.1_g266210' => 'hma', 'Hma1.2p1_1197F.1_g266220' => 'hma', 'Hma1.2p1_2167F.1_g315895' => 'hma', 'Hma1.2p1_2190F.1_g316640' => 'hma', 'Hma1.2p1_3645F.1_g337153' => 'hma', 'HPP92_004907' => 'vpl', 'HPP92_012134' => 'vpl', 'HPP92_025136' => 'vpl', 'HPP92_026087' => 'vpl', 'Hund06782' => 'sun', 'Hund06784' => 'sun', 'Lalb_Chr01g0004861' => 'lal', 'Lalb_Chr02g0140591' => 'lal', 'Lalb_Chr02g0140611' => 'lal', 'Lalb_Chr03g0028101' => 'lal', 'Lalb_Chr07g0185791' => 'lal', 'Lalb_Chr12g0204491' => 'lal', 'Lalb_Chr13g0295671' => 'lal', 'Lalb_Chr19g0136461' => 'lal', 'Lalb_Chr21g0309191' => 'lal', 'Lj1g0028158' => 'lja', 'Lj1P236T38' => 'lonja', 'Lj2C32G2' => 'lonja', 'Lj2P944T8' => 'lonja', 'Lj2P963T15' => 'lonja', 'Lj3g0011788' => 'lja', 'Lj4g0025027' => 'lja', 'Lj5P255T36' => 'lonja', 'Lj6g0018866' => 'lja', 'Lj6P608T31' => 'lonja', 'LjContig00408g0008879' => 'lja', 'Lsat_1_v5_gn_5_105820' => 'lsa', 'Lsat_1_v5_gn_6_38800' => 'lsa', 'Lsat_1_v5_gn_7_67141' => 'lsa', 'Manes.04G003400' => 'mes', 'Manes.07G020000' => 'mes', 'Manes.07G020100' => 'mes', 'Manes.07G020150' => 'mes', 'Manes.10G061500' => 'mes', 'Manes.10G123200' => 'mes', 'Manes.11G161900' => 'mes', 'Manes.15G029300' => 'mes', 'Mapoly0071s0018' => 'mpo', 'Mapoly0082s0023' => 'mpo', 'Mapoly3477s0001' => 'mpo', 'MBI05_g31233_MAGBIO' => 'mbi', 'MBI09_g05946_MAGBIO' => 'mbi', 'MBI09_g05947_MAGBIO' => 'mbi', 'MBI17_g08346_MAGBIO' => 'mbi', 'MCO04G038' => 'mco', 'MCO09G370' => 'mco', 'MCO13G605' => 'mco', 'MD00G1075500' => 'mdo', 'MD03G1144300' => 'mdo', 'MD08G1236800' => 'mdo', 'MD13G1193300' => 'mdo', 'MD15G1428700' => 'mdo', 'Medtr1g112030' => 'mtr', 'Medtr1g112050' => 'mtr', 'Medtr2g006290' => 'mtr', 'Medtr2g086510' => 'mtr', 'Medtr4g053120' => 'mtr', 'Medtr5g006320' => 'mtr', 'Medtr8g088720' => 'mtr', 'MELO3C004712.2' => 'cme', 'MELO3C006533.2' => 'cme', 'MELO3C019438.2' => 'cme', 'MELO3C019440.2' => 'cme', 'MELO3C019441.2' => 'cme', 'MELO3C019895.2' => 'cme', 'Migut.B00811' => 'egut', 'Migut.D02447' => 'egut', 'Migut.F00875' => 'egut', 'Migut.N00186' => 'egut', 'Migut.N01051' => 'egut', 'Migut.N02491' => 'egut', 'Migut.O00784' => 'egut', 'MSTRG.12367' => 'ama', 'MSTRG.18756' => 'ama', 'MSTRG.21042' => 'ama', 'Nitab4.5_0000559g0040' => 'nta', 'Nitab4.5_0000667g0190' => 'nta', 'Nitab4.5_0000755g0160' => 'nta', 'Nitab4.5_0001216g0080' => 'nta', 'Nitab4.5_0004069g0040' => 'nta', 'Nitab4.5_0004129g0010' => 'nta', 'Nitab4.5_0005744g0030' => 'nta', 'Nitab4.5_0006996g0030' => 'nta', 'Nitab4.5_0008971g0040' => 'nta', 'Nitab4.5_0009769g0020' => 'nta', 'Nitab4.5_0009833g0010' => 'nta', 'Nitab4.5_0013140g0020' => 'nta', 'Nn003s41376' => 'nnu', 'Nn1g01857' => 'nnu', 'Nn1g03611' => 'nnu', 'Nn1g06853' => 'nnu', 'Nn3g18360' => 'nnu', 'Nn4g26328' => 'nnu', 'Nn5g27531' => 'nnu', 'Nn6g34899' => 'nnu', 'Nn7g36299' => 'nnu', 'Oeu021485.1' => 'oeu', 'Oeu022433.1' => 'oeu', 'Oeu032111.1' => 'oeu', 'Oeu051608.1' => 'oeu', 'Os01g0860601' => 'osa', 'Os03g0659200' => 'osa', 'Os03g0835900' => 'osa', 'Os04g0412200' => 'osa', 'Os05g0443500' => 'osa', 'Os07g0251500' => 'osa', 'Os08g0104600' => 'osa', 'Peaxi162Scf00003g00047' => 'pax', 'Peaxi162Scf00003g00052' => 'pax', 'Peaxi162Scf00003g00394' => 'pax', 'Peaxi162Scf00091g00621' => 'pax', 'Peaxi162Scf00152g00146' => 'pax', 'Peaxi162Scf00173g00025' => 'pax', 'Peaxi162Scf00195g00102' => 'pax', 'Peaxi162Scf00402g00013' => 'pax', 'Peaxi162Scf00519g00618' => 'pax', 'PGR004G2838' => 'pgr', 'PGR044G2275' => 'pgr', 'PGR102G1377' => 'pgr', 'PGR119G1245' => 'pgr', 'PGR142G4449' => 'pgr', 'PGSC0003DMG400004532' => 'stu', 'PGSC0003DMG400011950' => 'stu', 'PGSC0003DMG400023391' => 'stu', 'PGSC0003DMG400023985' => 'stu', 'PGSC0003DMG400026360' => 'stu', 'PGSC0003DMG400035711' => 'stu', 'PGSC0003DMG400037286' => 'stu', 'PGSC0003DMG402005881' => 'stu', 'Phvul.002G045400' => 'pvu', 'Phvul.006G216600' => 'pvu', 'Phvul.006G216700' => 'pvu', 'Phvul.006G216800' => 'pvu', 'Phvul.007G022500' => 'pvu', 'Phvul.011G094400' => 'pvu', 'Potri.001G470700' => 'ptr', 'Potri.003G015200' => 'ptr', 'Potri.004G202500' => 'ptr', 'Potri.004G218400' => 'ptr', 'Potri.008G020100' => 'ptr', 'Potri.008G153200' => 'ptr', 'Potri.009G163800' => 'ptr', 'Potri.010G087300' => 'ptr', 'Potri.010G239100' => 'ptr', 'Pp3c10_16100' => 'ppa', 'Pp3c10_16880' => 'ppa', 'Pp3c16_6230' => 'ppa', 'Pp3c17_18910' => 'ppa', 'Pp3c3_22119' => 'ppa', 'Pp3c3_22140' => 'ppa', 'Pp3c4_8159' => 'ppa', 'Pp3c4_8171' => 'ppa', 'Pp3c4_8330' => 'ppa', 'PRCOL_00004098' => 'pco', 'Prupe.1G013900' => 'ppe', 'Prupe.1G226300' => 'ppe', 'Prupe.1G573600' => 'ppe', 'Prupe.6G130100' => 'ppe', 'Psat3g090040' => 'psa', 'Psat4g210440' => 'psa', 'Psat6g231040' => 'psa', 'Psat6g231080' => 'psa', 'Psat7g063000' => 'psa', 'Psat7g188000' => 'psa', 'Psat7g188040' => 'psa', 'PSO017G0206' => 'pso', 'PSO170G0501' => 'pso', 'PSO170G6422' => 'pso', 'PSO210G7739' => 'pso', 'PSO339G1808' => 'pso', 'PSO339G6135' => 'pso', 'PSO384G0010' => 'pso', 'PSO384G0964' => 'pso', 'PSO761G0050' => 'pso', 'PSO782G4085' => 'pso', 'QL01p012264' => 'qlo', 'QL02p099491' => 'qlo', 'QL03p033868' => 'qlo', 'QL04p046678' => 'qlo', 'QL06p002448' => 'qlo', 'RcHm_v2.0_Chr4g0416181' => 'rch', 'RcHm_v2.0_Chr5g0044701' => 'rch', 'RcHm_v2.0_Chr6g0265781' => 'rch', 'RcHm_v2.0_Chr7g0221031' => 'rch', 'Rhsim04G0202000' => 'rsi', 'Rhsim11G0127300' => 'rsi', 'Rhsim13G0111800' => 'rsi', 'Sabra01G0165600' => 'sbr', 'Sabra03G0008300' => 'sbr', 'Sabra04G0136900' => 'sbr', 'Sabra08G0013400' => 'sbr', 'Sabra08G0116800' => 'sbr', 'Sabra09G0128000' => 'sbr', 'Sabra10G0055500' => 'sbr', 'Sabra10G0073300' => 'sbr', 'SalBow3G0385' => 'sbo', 'SalBow3G1119' => 'sbo', 'SalBow3G2005' => 'sbo', 'SalBow6G2563' => 'sbo', 'SalBow6G6386' => 'sbo', 'Sc06g0008800' => 'sci', 'Sc07g0004950' => 'sci', 'Sc09g0005340' => 'sci', 'Sc13g0004410' => 'sci', 'Sc21g0007090' => 'sci', 'Sed0009285' => 'sed', 'Sed0017583' => 'sed', 'Sed0019699' => 'sed', 'Sed0023107' => 'sed', 'SEGI_10916' => 'sgi', 'SEGI_16217' => 'sgi', 'SEGI_19466' => 'sgi', 'SEGI_41115' => 'sgi', 'SGA_v2.0_scaffold111G31534' => 'sas', 'SGA_v2.0_scaffold22G09864' => 'sas', 'SGA_v2.0_scaffold338G49219' => 'sas', 'SGA_v2.0_scaffold92G28298' => 'sas', 'SMO119G0064' => 'smo', 'SMO223G0038' => 'smo', 'SMO347G0584' => 'smo', 'SMO351G0010' => 'smo', 'SMO356G0404' => 'smo', 'Solyc01g103920.3' => 'sly', 'Solyc04g009710.2' => 'sly', 'Solyc05g055280.2' => 'sly', 'Solyc10g044520.3' => 'sly', 'Solyc10g075160.1' => 'sly', 'Solyc11g006910.3' => 'sly', 'Solyc11g068430.3' => 'sly', 'Sopen01g046310' => 'spe', 'Sopen03g001200' => 'spe', 'Sopen04g004830' => 'spe', 'Sopen05g033720' => 'spe', 'Sopen06g030740' => 'spe', 'Sopen10g013090' => 'spe', 'Sopen10g027630' => 'spe', 'Sopen10g027640' => 'spe', 'Sopen11g002820' => 'spe', 'Sopen11g027140' => 'spe', 'Sp1g09680' => 'spa', 'Sp2g03630' => 'spa', 'Sp4g10320' => 'spa', 'Sp6g33400' => 'spa', 'Sp7g13030' => 'spa', 'TAR365G0317' => 'tar', 'TAR376G0979' => 'tar', 'TAR623G1665' => 'tar', 'TAR633G2373' => 'tar', 'TAR636G1400' => 'tar', 'THA.LOC104800529' => 'tha', 'THA.LOC104808547' => 'tha', 'THA.LOC104809615' => 'tha', 'THA.LOC104815724' => 'tha', 'THA.LOC104818480' => 'tha', 'THA.LOC104819179' => 'tha', 'THA.LOC104822270' => 'tha', 'THA.LOC104826425' => 'tha', 'Thecc.02G089700' => 'tca', 'Thecc.04G232300' => 'tca', 'Thecc.09G283400' => 'tca', 'Thhalv10009020m.g' => 'esa', 'Thhalv10015506m.g' => 'esa', 'Thhalv10017364m.g' => 'esa', 'Thhalv10023742m.g' => 'esa', 'Thhalv10026483m.g' => 'esa', 'TPR.G17232' => 'tpr', 'TPR.G2133' => 'tpr', 'TPR.G2498' => 'tpr', 'TPR.G31942' => 'tpr', 'TPR.G37877' => 'tpr', 'TPR.G4571' => 'tpr', 'TWI14G1113' => 'twi', 'TWI15G0426' => 'twi', 'TWI31G1005' => 'twi', 'TWI38G0513' => 'twi', 'TWI38G1484' => 'twi', 'TWI73G1098' => 'twi', 'unitig_26.g10519' => 'ugi', 'unitig_736.g22395' => 'ugi', 'unitig_747.g21234' => 'ugi', 'unitig_747.g21942' => 'ugi', 'vmacro14351' => 'vma', 'VMungo0540G0082' => 'vmu', 'VMungo0540G0405' => 'vmu', 'VMungo0540G1486' => 'vmu', 'VMungo0540G1692' => 'vmu', 'VMungo0720G2473' => 'vmu', 'VMungo1127G1562' => 'vmu', 'VMungo1215G1918' => 'vmu', 'Zm00001eb052650' => 'zma', 'Zm00001eb063710' => 'zma', 'Zm00001eb083950' => 'zma', 'Zm00001eb174420' => 'zma', 'Zm00001eb260140' => 'zma', 'Zm00001eb260150' => 'zma', 'Zm00001eb260160' => 'zma', 'Zm00001eb348290' => 'zma', 'Zm00001eb366870' => 'zma', 'Zm00001eb421930' => 'zma' ), 'gf_id' => 'HOM05D001025', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001025' ), 'data_identifier' => 'HOM05D001025', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001025', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '592', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p22650' => 'bna', 'A01p29720' => 'bna', 'A03p26560' => 'bna', 'A03p68820' => 'bna', 'A04p20980' => 'bna', 'A06p07730' => 'bna', 'A07p18260' => 'bna', 'A08p33710' => 'bna', 'A09p16970' => 'bna', 'A10p27490' => 'bna', 'Aa31LG1G17300' => 'aar', 'Aa31LG1G3910' => 'aar', 'Aa31LG2G9630' => 'aar', 'Aa31LG5G8360' => 'aar', 'Aa31LG9G2410' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4699' => 'aag', 'Actinidia23512' => 'ach', 'Actinidia37080' => 'ach', 'Ah.01g020380' => 'amhyb', 'Ah.08g215710' => 'amhyb', 'Ah.09g225110' => 'amhyb', 'Ah.10g036680' => 'amhyb', 'AL1G21940' => 'aly', 'AL2G15540' => 'aly', 'AL4G21520' => 'aly', 'AL7G40960' => 'aly', 'Aqoxy2G01191' => 'aox', 'Aqoxy2G03393' => 'aox', 'Aqoxy4G02775' => 'aox', 'Aqoxy6G00058' => 'aox', 'arahy.Tifrunner.gnm1.ann1.9X74H2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CW3FX9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R485W7' => 'arhy', 'AT1G10960' => 'ath', 'AT1G60950' => 'ath', 'AT2G27510' => 'ath', 'AT4G14890' => 'ath', 'AT5G10000' => 'ath', 'ATR0665G624' => 'atr', 'ATR0697G138' => 'atr', 'ATR0776G046' => 'atr', 'ATR1134G135' => 'atr', 'Atru.chr12.1025' => 'acertr', 'Atru.chr3.3241' => 'acertr', 'Atru.chr4.2460' => 'acertr', 'AUR62007427' => 'cqu', 'AUR62010960' => 'cqu', 'AUR62012201' => 'cqu', 'AUR62021470' => 'cqu', 'AUR62022834' => 'cqu', 'AUR62033635' => 'cqu', 'AUR62036186' => 'cqu', 'BcaB01g03077' => 'bca', 'BcaB02g10093' => 'bca', 'BcaB04g20295' => 'bca', 'BcaB06g28147' => 'bca', 'BcaB07g31253' => 'bca', 'BcaC01g04946' => 'bca', 'BcaC02g10614' => 'bca', 'BcaC02g10885' => 'bca', 'BcaC04g19356' => 'bca', 'BcaC04g22297' => 'bca', 'BcaC05g24977' => 'bca', 'BcaC06g31823' => 'bca', 'BcaC07g38633' => 'bca', 'BcaC09g49353' => 'bca', 'BcaC09g50168' => 'bca', 'BcaNung00322' => 'bca', 'BcaNung04769' => 'bca', 'BolC1t02753H' => 'bol', 'BolC1t03721H' => 'bol', 'BolC3t15525H' => 'bol', 'BolC4t23903H' => 'bol', 'BolC4t24231H' => 'bol', 'BolC4t27209H' => 'bol', 'BolC5t29671H' => 'bol', 'BolC8t49044H' => 'bol', 'BolC9t54999H' => 'bol', 'BolC9t59517H' => 'bol', 'BraA01t02178Z' => 'bra', 'BraA01t03099Z' => 'bra', 'BraA03t11867Z' => 'bra', 'BraA04t17667Z' => 'bra', 'BraA07t29542Z' => 'bra', 'BraA08t35287Z' => 'bra', 'BraA09t37334Z' => 'bra', 'BraA10t44801Z' => 'bra', 'BraSC39t46181Z' => 'bra', 'C01p28240' => 'bna', 'C01p37530' => 'bna', 'C03p31820' => 'bna', 'C04p24080' => 'bna', 'C04p25790' => 'bna', 'C04p56770' => 'bna', 'C05p09310' => 'bna', 'C09p21010' => 'bna', 'C09p67560' => 'bna', 'CAN.G1324.7' => 'can', 'CAN.G1358.10' => 'can', 'CAN.G1550.2' => 'can', 'CAN.G186.56' => 'can', 'CAN.G1965.1' => 'can', 'CAN.G645.15' => 'can', 'CAN.G798.26' => 'can', 'CAN.G798.27' => 'can', 'CAN.G798.29' => 'can', 'CAN.G919.31' => 'can', 'CANSAT11G0133' => 'cansat', 'CANSAT11G1171' => 'cansat', 'CANSAT11G2056' => 'cansat', 'CANSAT56G1202' => 'cansat', 'CANSAT56G1514' => 'cansat', 'CANSAT78G0455' => 'cansat', 'CARHR011190' => 'chi', 'CARHR051980' => 'chi', 'CARHR120170' => 'chi', 'CARHR203310' => 'chi', 'CARHR221490' => 'chi', 'Carub.0001s1054' => 'cru', 'Carub.0002s0431' => 'cru', 'Carub.0004s0818' => 'cru', 'Carub.0006s0846' => 'cru', 'Carub.0007s2722' => 'cru', 'Ca_00058_v3' => 'car', 'Ca_17831_v3' => 'car', 'Ca_19408_v3' => 'car', 'Ca_24397_v3' => 'car', 'Ca_25664_v3' => 'car', 'CBR_g21818' => 'cbr', 'CBR_g31195' => 'cbr', 'CBR_g32282' => 'cbr', 'CBR_g39599' => 'cbr', 'CBR_g49410' => 'cbr', 'Cc01_g09120' => 'ccan', 'Cc01_g09130' => 'ccan', 'Cc02_g09630' => 'ccan', 'Cc02_g22810' => 'ccan', 'Cc03_g03810' => 'ccan', 'CDE02G3718' => 'cde', 'CDE04G3183' => 'cde', 'CDE07G1046' => 'cde', 'CDE08G0480' => 'cde', 'Cfa005493' => 'cfa', 'Cfa010312' => 'cfa', 'Cfa015648' => 'cfa', 'Ciclev10002793m.g' => 'ccl', 'Ciclev10003356m.g' => 'ccl', 'Ciclev10006141m.g' => 'ccl', 'Ciclev10016676m.g' => 'ccl', 'Ciclev10017081m.g' => 'ccl', 'Ciclev10029499m.g' => 'ccl', 'CiPaw.01G166300' => 'cil', 'CiPaw.06G145600' => 'cil', 'CiPaw.13G040100' => 'cil', 'CiPaw.13G135800' => 'cil', 'ClCG01G012230' => 'cla', 'ClCG05G009510' => 'cla', 'ClCG08G008270' => 'cla', 'COL.COLO4_11763' => 'col', 'COL.COLO4_19876' => 'col', 'COL.COLO4_21481' => 'col', 'Cpa.g.sc118.34' => 'cpa', 'Cpa.g.sc32.13' => 'cpa', 'Cpa.g.sc58.103' => 'cpa', 'Cre03.g183850' => 'cre', 'Cre06.g306350' => 'cre', 'Cre07.g334800' => 'cre', 'Cre12.g487900' => 'cre', 'Cre14.g626700' => 'cre', 'Cre16.g658400' => 'cre', 'Cre17.g700950' => 'cre', 'CsaV3_1G014830' => 'csa', 'CsaV3_3G013320' => 'csa', 'CsaV3_3G019210' => 'csa', 'CsaV3_3G019220' => 'csa', 'CsaV3_6G004230' => 'csa', 'CSS0003773' => 'camsi', 'CSS0004563' => 'camsi', 'CSS0013949' => 'camsi', 'CSS0025971' => 'camsi', 'CSS0028570' => 'camsi', 'CSS0033127' => 'camsi', 'CSS0036051' => 'camsi', 'CSS0040087' => 'camsi', 'CSS0043179' => 'camsi', 'DCAR_006161' => 'dca', 'DCAR_010351' => 'dca', 'DCAR_012197' => 'dca', 'DCAR_024162' => 'dca', 'Dinv01030' => 'din', 'Dinv10924' => 'din', 'Dinv11835' => 'din', 'Dinv22841' => 'din', 'Dinv42553' => 'din', 'Duzib052G0560' => 'dzi', 'Duzib132G0389' => 'dzi', 'Duzib150G1181' => 'dzi', 'Duzib168G0623' => 'dzi', 'Duzib170G1036' => 'dzi', 'Duzib212G0200' => 'dzi', 'Duzib248G0194' => 'dzi', 'ECA232G2193' => 'eca', 'ECA233G0302' => 'eca', 'ECA234G2813' => 'eca', 'ECA234G4866' => 'eca', 'ECA240G3932' => 'eca', 'ECA248G0385' => 'eca', 'EL10Ac2g04781' => 'bvu', 'EL10Ac3g06445' => 'bvu', 'EL10Ac7g15825' => 'bvu', 'EL10Ac8g18550' => 'bvu', 'Eucgr.B03849' => 'egr', 'Eucgr.I02744' => 'egr', 'Eucgr.J00264' => 'egr', 'Eucgr.J00493' => 'egr', 'FAN04G2181' => 'fan', 'FAN07G2666' => 'fan', 'FAN11G0024' => 'fan', 'FAN12G1105' => 'fan', 'FAN13G0302' => 'fan', 'FAN15G2781' => 'fan', 'FAN16G1274' => 'fan', 'FAN17G2988' => 'fan', 'FAN18G2621' => 'fan', 'FAN21G0013' => 'fan', 'FAN22G1211' => 'fan', 'FAN25G3626' => 'fan', 'FvH4_2g09491' => 'fve', 'FvH4_3g24910' => 'fve', 'FvH4_4g15630' => 'fve', 'FvH4_5g28820' => 'fve', 'Glyma.01G238000' => 'gma', 'Glyma.05G168400' => 'gma', 'Glyma.08G126800' => 'gma', 'Glyma.08G188500' => 'gma', 'Glyma.10G278900' => 'gma', 'Glyma.11G005700' => 'gma', 'Glyma.11G183300' => 'gma', 'Glyma.12G089200' => 'gma', 'Glyma.12G169400' => 'gma', 'Glyma.12G169500' => 'gma', 'Glyma.12G169600' => 'gma', 'Glyma.20G110800' => 'gma', 'Gohir.A03G192900' => 'ghi', 'Gohir.A03G193000' => 'ghi', 'Gohir.A05G080700' => 'ghi', 'Gohir.A09G216000' => 'ghi', 'Gohir.A12G027700' => 'ghi', 'Gohir.A13G036200' => 'ghi', 'Gohir.A13G222600' => 'ghi', 'Gohir.D02G213900' => 'ghi', 'Gohir.D02G214000' => 'ghi', 'Gohir.D05G083700' => 'ghi', 'Gohir.D05G083800' => 'ghi', 'Gohir.D05G083850' => 'ghi', 'Gohir.D08G015400' => 'ghi', 'Gohir.D09G218400' => 'ghi', 'Gohir.D12G027100' => 'ghi', 'Gohir.D13G034500' => 'ghi', 'Gohir.D13G227400' => 'ghi', 'Gorai.005G241800' => 'gra', 'Gorai.005G241900' => 'gra', 'Gorai.006G239400' => 'gra', 'Gorai.008G027600' => 'gra', 'Gorai.009G085400' => 'gra', 'Gorai.009G085500' => 'gra', 'Gorai.013G039000' => 'gra', 'Gorai.013G194800' => 'gra', 'Gorai.013G257900' => 'gra', 'GSVIVG01000982001' => 'vvi', 'GSVIVG01017981001' => 'vvi', 'HanXRQChr01g0024061' => 'han', 'HanXRQChr09g0247831' => 'han', 'HanXRQChr10g0294611' => 'han', 'HanXRQChr10g0294621' => 'han', 'HanXRQChr11g0346821' => 'han', 'HanXRQChr13g0397461' => 'han', 'HanXRQChr16g0513651' => 'han', 'HanXRQChr16g0513701' => 'han', 'Haze_00897' => 'cav', 'Haze_01745' => 'cav', 'Haze_02486' => 'cav', 'Haze_02487' => 'cav', 'Haze_23374' => 'cav', 'Hma1.2p1_0578F.1_g182520' => 'hma', 'Hma1.2p1_0602F.1_g187350' => 'hma', 'Hma1.2p1_0602F.1_g187360' => 'hma', 'Hma1.2p1_0874F.1_g231320' => 'hma', 'Hma1.2p1_1197F.1_g266210' => 'hma', 'Hma1.2p1_1197F.1_g266220' => 'hma', 'Hma1.2p1_2167F.1_g315895' => 'hma', 'Hma1.2p1_2190F.1_g316640' => 'hma', 'Hma1.2p1_3645F.1_g337153' => 'hma', 'HPP92_004907' => 'vpl', 'HPP92_012134' => 'vpl', 'HPP92_025136' => 'vpl', 'HPP92_026087' => 'vpl', 'Hund06782' => 'sun', 'Hund06784' => 'sun', 'Lalb_Chr01g0004861' => 'lal', 'Lalb_Chr02g0140591' => 'lal', 'Lalb_Chr02g0140611' => 'lal', 'Lalb_Chr03g0028101' => 'lal', 'Lalb_Chr07g0185791' => 'lal', 'Lalb_Chr12g0204491' => 'lal', 'Lalb_Chr13g0295671' => 'lal', 'Lalb_Chr19g0136461' => 'lal', 'Lalb_Chr21g0309191' => 'lal', 'Lj1g0028158' => 'lja', 'Lj1P236T38' => 'lonja', 'Lj2C32G2' => 'lonja', 'Lj2P944T8' => 'lonja', 'Lj2P963T15' => 'lonja', 'Lj3g0011788' => 'lja', 'Lj4g0025027' => 'lja', 'Lj5P255T36' => 'lonja', 'Lj6g0018866' => 'lja', 'Lj6P608T31' => 'lonja', 'LjContig00408g0008879' => 'lja', 'Lsat_1_v5_gn_5_105820' => 'lsa', 'Lsat_1_v5_gn_6_38800' => 'lsa', 'Lsat_1_v5_gn_7_67141' => 'lsa', 'Manes.04G003400' => 'mes', 'Manes.07G020000' => 'mes', 'Manes.07G020100' => 'mes', 'Manes.07G020150' => 'mes', 'Manes.10G061500' => 'mes', 'Manes.10G123200' => 'mes', 'Manes.11G161900' => 'mes', 'Manes.15G029300' => 'mes', 'Mapoly0071s0018' => 'mpo', 'Mapoly0082s0023' => 'mpo', 'Mapoly3477s0001' => 'mpo', 'MBI05_g31233_MAGBIO' => 'mbi', 'MBI09_g05946_MAGBIO' => 'mbi', 'MBI09_g05947_MAGBIO' => 'mbi', 'MBI17_g08346_MAGBIO' => 'mbi', 'MCO04G038' => 'mco', 'MCO09G370' => 'mco', 'MCO13G605' => 'mco', 'MD00G1075500' => 'mdo', 'MD03G1144300' => 'mdo', 'MD08G1236800' => 'mdo', 'MD13G1193300' => 'mdo', 'MD15G1428700' => 'mdo', 'Medtr1g112030' => 'mtr', 'Medtr1g112050' => 'mtr', 'Medtr2g006290' => 'mtr', 'Medtr2g086510' => 'mtr', 'Medtr4g053120' => 'mtr', 'Medtr5g006320' => 'mtr', 'Medtr8g088720' => 'mtr', 'MELO3C004712.2' => 'cme', 'MELO3C006533.2' => 'cme', 'MELO3C019438.2' => 'cme', 'MELO3C019440.2' => 'cme', 'MELO3C019441.2' => 'cme', 'MELO3C019895.2' => 'cme', 'Migut.B00811' => 'egut', 'Migut.D02447' => 'egut', 'Migut.F00875' => 'egut', 'Migut.N00186' => 'egut', 'Migut.N01051' => 'egut', 'Migut.N02491' => 'egut', 'Migut.O00784' => 'egut', 'MSTRG.12367' => 'ama', 'MSTRG.18756' => 'ama', 'MSTRG.21042' => 'ama', 'Nitab4.5_0000559g0040' => 'nta', 'Nitab4.5_0000667g0190' => 'nta', 'Nitab4.5_0000755g0160' => 'nta', 'Nitab4.5_0001216g0080' => 'nta', 'Nitab4.5_0004069g0040' => 'nta', 'Nitab4.5_0004129g0010' => 'nta', 'Nitab4.5_0005744g0030' => 'nta', 'Nitab4.5_0006996g0030' => 'nta', 'Nitab4.5_0008971g0040' => 'nta', 'Nitab4.5_0009769g0020' => 'nta', 'Nitab4.5_0009833g0010' => 'nta', 'Nitab4.5_0013140g0020' => 'nta', 'Nn003s41376' => 'nnu', 'Nn1g01857' => 'nnu', 'Nn1g03611' => 'nnu', 'Nn1g06853' => 'nnu', 'Nn3g18360' => 'nnu', 'Nn4g26328' => 'nnu', 'Nn5g27531' => 'nnu', 'Nn6g34899' => 'nnu', 'Nn7g36299' => 'nnu', 'Oeu021485.1' => 'oeu', 'Oeu022433.1' => 'oeu', 'Oeu032111.1' => 'oeu', 'Oeu051608.1' => 'oeu', 'Os01g0860601' => 'osa', 'Os03g0659200' => 'osa', 'Os03g0835900' => 'osa', 'Os04g0412200' => 'osa', 'Os05g0443500' => 'osa', 'Os07g0251500' => 'osa', 'Os08g0104600' => 'osa', 'Peaxi162Scf00003g00047' => 'pax', 'Peaxi162Scf00003g00052' => 'pax', 'Peaxi162Scf00003g00394' => 'pax', 'Peaxi162Scf00091g00621' => 'pax', 'Peaxi162Scf00152g00146' => 'pax', 'Peaxi162Scf00173g00025' => 'pax', 'Peaxi162Scf00195g00102' => 'pax', 'Peaxi162Scf00402g00013' => 'pax', 'Peaxi162Scf00519g00618' => 'pax', 'PGR004G2838' => 'pgr', 'PGR044G2275' => 'pgr', 'PGR102G1377' => 'pgr', 'PGR119G1245' => 'pgr', 'PGR142G4449' => 'pgr', 'PGSC0003DMG400004532' => 'stu', 'PGSC0003DMG400011950' => 'stu', 'PGSC0003DMG400023391' => 'stu', 'PGSC0003DMG400023985' => 'stu', 'PGSC0003DMG400026360' => 'stu', 'PGSC0003DMG400035711' => 'stu', 'PGSC0003DMG400037286' => 'stu', 'PGSC0003DMG402005881' => 'stu', 'Phvul.002G045400' => 'pvu', 'Phvul.006G216600' => 'pvu', 'Phvul.006G216700' => 'pvu', 'Phvul.006G216800' => 'pvu', 'Phvul.007G022500' => 'pvu', 'Phvul.011G094400' => 'pvu', 'Potri.001G470700' => 'ptr', 'Potri.003G015200' => 'ptr', 'Potri.004G202500' => 'ptr', 'Potri.004G218400' => 'ptr', 'Potri.008G020100' => 'ptr', 'Potri.008G153200' => 'ptr', 'Potri.009G163800' => 'ptr', 'Potri.010G087300' => 'ptr', 'Potri.010G239100' => 'ptr', 'Pp3c10_16100' => 'ppa', 'Pp3c10_16880' => 'ppa', 'Pp3c16_6230' => 'ppa', 'Pp3c17_18910' => 'ppa', 'Pp3c3_22119' => 'ppa', 'Pp3c3_22140' => 'ppa', 'Pp3c4_8159' => 'ppa', 'Pp3c4_8171' => 'ppa', 'Pp3c4_8330' => 'ppa', 'PRCOL_00004098' => 'pco', 'Prupe.1G013900' => 'ppe', 'Prupe.1G226300' => 'ppe', 'Prupe.1G573600' => 'ppe', 'Prupe.6G130100' => 'ppe', 'Psat3g090040' => 'psa', 'Psat4g210440' => 'psa', 'Psat6g231040' => 'psa', 'Psat6g231080' => 'psa', 'Psat7g063000' => 'psa', 'Psat7g188000' => 'psa', 'Psat7g188040' => 'psa', 'PSO017G0206' => 'pso', 'PSO170G0501' => 'pso', 'PSO170G6422' => 'pso', 'PSO210G7739' => 'pso', 'PSO339G1808' => 'pso', 'PSO339G6135' => 'pso', 'PSO384G0010' => 'pso', 'PSO384G0964' => 'pso', 'PSO761G0050' => 'pso', 'PSO782G4085' => 'pso', 'QL01p012264' => 'qlo', 'QL02p099491' => 'qlo', 'QL03p033868' => 'qlo', 'QL04p046678' => 'qlo', 'QL06p002448' => 'qlo', 'RcHm_v2.0_Chr4g0416181' => 'rch', 'RcHm_v2.0_Chr5g0044701' => 'rch', 'RcHm_v2.0_Chr6g0265781' => 'rch', 'RcHm_v2.0_Chr7g0221031' => 'rch', 'Rhsim04G0202000' => 'rsi', 'Rhsim11G0127300' => 'rsi', 'Rhsim13G0111800' => 'rsi', 'Sabra01G0165600' => 'sbr', 'Sabra03G0008300' => 'sbr', 'Sabra04G0136900' => 'sbr', 'Sabra08G0013400' => 'sbr', 'Sabra08G0116800' => 'sbr', 'Sabra09G0128000' => 'sbr', 'Sabra10G0055500' => 'sbr', 'Sabra10G0073300' => 'sbr', 'SalBow3G0385' => 'sbo', 'SalBow3G1119' => 'sbo', 'SalBow3G2005' => 'sbo', 'SalBow6G2563' => 'sbo', 'SalBow6G6386' => 'sbo', 'Sc06g0008800' => 'sci', 'Sc07g0004950' => 'sci', 'Sc09g0005340' => 'sci', 'Sc13g0004410' => 'sci', 'Sc21g0007090' => 'sci', 'Sed0009285' => 'sed', 'Sed0017583' => 'sed', 'Sed0019699' => 'sed', 'Sed0023107' => 'sed', 'SEGI_10916' => 'sgi', 'SEGI_16217' => 'sgi', 'SEGI_19466' => 'sgi', 'SEGI_41115' => 'sgi', 'SGA_v2.0_scaffold111G31534' => 'sas', 'SGA_v2.0_scaffold22G09864' => 'sas', 'SGA_v2.0_scaffold338G49219' => 'sas', 'SGA_v2.0_scaffold92G28298' => 'sas', 'SMO119G0064' => 'smo', 'SMO223G0038' => 'smo', 'SMO347G0584' => 'smo', 'SMO351G0010' => 'smo', 'SMO356G0404' => 'smo', 'Solyc01g103920.3' => 'sly', 'Solyc04g009710.2' => 'sly', 'Solyc05g055280.2' => 'sly', 'Solyc10g044520.3' => 'sly', 'Solyc10g075160.1' => 'sly', 'Solyc11g006910.3' => 'sly', 'Solyc11g068430.3' => 'sly', 'Sopen01g046310' => 'spe', 'Sopen03g001200' => 'spe', 'Sopen04g004830' => 'spe', 'Sopen05g033720' => 'spe', 'Sopen06g030740' => 'spe', 'Sopen10g013090' => 'spe', 'Sopen10g027630' => 'spe', 'Sopen10g027640' => 'spe', 'Sopen11g002820' => 'spe', 'Sopen11g027140' => 'spe', 'Sp1g09680' => 'spa', 'Sp2g03630' => 'spa', 'Sp4g10320' => 'spa', 'Sp6g33400' => 'spa', 'Sp7g13030' => 'spa', 'TAR365G0317' => 'tar', 'TAR376G0979' => 'tar', 'TAR623G1665' => 'tar', 'TAR633G2373' => 'tar', 'TAR636G1400' => 'tar', 'THA.LOC104800529' => 'tha', 'THA.LOC104808547' => 'tha', 'THA.LOC104809615' => 'tha', 'THA.LOC104815724' => 'tha', 'THA.LOC104818480' => 'tha', 'THA.LOC104819179' => 'tha', 'THA.LOC104822270' => 'tha', 'THA.LOC104826425' => 'tha', 'Thecc.02G089700' => 'tca', 'Thecc.04G232300' => 'tca', 'Thecc.09G283400' => 'tca', 'Thhalv10009020m.g' => 'esa', 'Thhalv10015506m.g' => 'esa', 'Thhalv10017364m.g' => 'esa', 'Thhalv10023742m.g' => 'esa', 'Thhalv10026483m.g' => 'esa', 'TPR.G17232' => 'tpr', 'TPR.G2133' => 'tpr', 'TPR.G2498' => 'tpr', 'TPR.G31942' => 'tpr', 'TPR.G37877' => 'tpr', 'TPR.G4571' => 'tpr', 'TWI14G1113' => 'twi', 'TWI15G0426' => 'twi', 'TWI31G1005' => 'twi', 'TWI38G0513' => 'twi', 'TWI38G1484' => 'twi', 'TWI73G1098' => 'twi', 'unitig_26.g10519' => 'ugi', 'unitig_736.g22395' => 'ugi', 'unitig_747.g21234' => 'ugi', 'unitig_747.g21942' => 'ugi', 'vmacro14351' => 'vma', 'VMungo0540G0082' => 'vmu', 'VMungo0540G0405' => 'vmu', 'VMungo0540G1486' => 'vmu', 'VMungo0540G1692' => 'vmu', 'VMungo0720G2473' => 'vmu', 'VMungo1127G1562' => 'vmu', 'VMungo1215G1918' => 'vmu', 'Zm00001eb052650' => 'zma', 'Zm00001eb063710' => 'zma', 'Zm00001eb083950' => 'zma', 'Zm00001eb174420' => 'zma', 'Zm00001eb260140' => 'zma', 'Zm00001eb260150' => 'zma', 'Zm00001eb260160' => 'zma', 'Zm00001eb348290' => 'zma', 'Zm00001eb366870' => 'zma', 'Zm00001eb421930' => 'zma' ) $gf_id = 'HOM05D001025' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001025' ) $data_identifier = 'HOM05D001025' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 19, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 2, 'amhyb' => (int) 4, 'aly' => (int) 4, 'aox' => (int) 4, 'arhy' => (int) 3, 'ath' => (int) 5, 'atr' => (int) 4, 'acertr' => (int) 3, 'cqu' => (int) 7, 'bca' => (int) 17, 'bol' => (int) 10, 'bra' => (int) 9, 'can' => (int) 10, 'cansat' => (int) 6, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 5, 'cbr' => (int) 5, 'ccan' => (int) 5, 'cde' => (int) 4, 'cfa' => (int) 3, 'ccl' => (int) 6, 'cil' => (int) 4, 'cla' => (int) 3, 'col' => (int) 3, 'cpa' => (int) 3, 'cre' => (int) 7, 'csa' => (int) 5, 'camsi' => (int) 9, 'dca' => (int) 4, 'din' => (int) 5, 'dzi' => (int) 7, 'eca' => (int) 6, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 12, 'fve' => (int) 4, 'gma' => (int) 12, 'ghi' => (int) 17, 'gra' => (int) 9, 'vvi' => (int) 2, 'han' => (int) 8, 'cav' => (int) 5, 'hma' => (int) 9, 'vpl' => (int) 4, 'sun' => (int) 2, 'lal' => (int) 9, 'lja' => (int) 5, 'lonja' => (int) 6, 'lsa' => (int) 3, 'mes' => (int) 8, 'mpo' => (int) 3, 'mbi' => (int) 4, 'mco' => (int) 3, 'mdo' => (int) 5, 'mtr' => (int) 7, 'cme' => (int) 6, 'egut' => (int) 7, 'ama' => (int) 3, 'nta' => (int) 12, 'nnu' => (int) 9, 'oeu' => (int) 4, 'osa' => (int) 7, 'pax' => (int) 9, 'pgr' => (int) 5, 'stu' => (int) 8, 'pvu' => (int) 6, 'ptr' => (int) 9, 'ppa' => (int) 9, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 7, 'pso' => (int) 10, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 3, 'sbr' => (int) 8, 'sbo' => (int) 5, 'sci' => (int) 5, 'sed' => (int) 4, 'sgi' => (int) 4, 'sas' => (int) 4, 'smo' => (int) 5, 'sly' => (int) 7, 'spe' => (int) 10, 'spa' => (int) 5, 'tar' => (int) 5, 'tha' => (int) 8, 'tca' => (int) 3, 'esa' => (int) 5, 'tpr' => (int) 6, 'twi' => (int) 6, 'ugi' => (int) 4, 'vma' => (int) 1, 'vmu' => (int) 7, 'zma' => (int) 10 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb421930' $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' => 'HOM05D001025', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '592', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p22650' => 'bna', 'A01p29720' => 'bna', 'A03p26560' => 'bna', 'A03p68820' => 'bna', 'A04p20980' => 'bna', 'A06p07730' => 'bna', 'A07p18260' => 'bna', 'A08p33710' => 'bna', 'A09p16970' => 'bna', 'A10p27490' => 'bna', 'Aa31LG1G17300' => 'aar', 'Aa31LG1G3910' => 'aar', 'Aa31LG2G9630' => 'aar', 'Aa31LG5G8360' => 'aar', 'Aa31LG9G2410' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4699' => 'aag', 'Actinidia23512' => 'ach', 'Actinidia37080' => 'ach', 'Ah.01g020380' => 'amhyb', 'Ah.08g215710' => 'amhyb', 'Ah.09g225110' => 'amhyb', 'Ah.10g036680' => 'amhyb', 'AL1G21940' => 'aly', 'AL2G15540' => 'aly', 'AL4G21520' => 'aly', 'AL7G40960' => 'aly', 'Aqoxy2G01191' => 'aox', 'Aqoxy2G03393' => 'aox', 'Aqoxy4G02775' => 'aox', 'Aqoxy6G00058' => 'aox', 'arahy.Tifrunner.gnm1.ann1.9X74H2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CW3FX9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R485W7' => 'arhy', 'AT1G10960' => 'ath', 'AT1G60950' => 'ath', 'AT2G27510' => 'ath', 'AT4G14890' => 'ath', 'AT5G10000' => 'ath', 'ATR0665G624' => 'atr', 'ATR0697G138' => 'atr', 'ATR0776G046' => 'atr', 'ATR1134G135' => 'atr', 'Atru.chr12.1025' => 'acertr', 'Atru.chr3.3241' => 'acertr', 'Atru.chr4.2460' => 'acertr', 'AUR62007427' => 'cqu', 'AUR62010960' => 'cqu', 'AUR62012201' => 'cqu', 'AUR62021470' => 'cqu', 'AUR62022834' => 'cqu', 'AUR62033635' => 'cqu', 'AUR62036186' => 'cqu', 'BcaB01g03077' => 'bca', 'BcaB02g10093' => 'bca', 'BcaB04g20295' => 'bca', 'BcaB06g28147' => 'bca', 'BcaB07g31253' => 'bca', 'BcaC01g04946' => 'bca', 'BcaC02g10614' => 'bca', 'BcaC02g10885' => 'bca', 'BcaC04g19356' => 'bca', 'BcaC04g22297' => 'bca', 'BcaC05g24977' => 'bca', 'BcaC06g31823' => 'bca', 'BcaC07g38633' => 'bca', 'BcaC09g49353' => 'bca', 'BcaC09g50168' => 'bca', 'BcaNung00322' => 'bca', 'BcaNung04769' => 'bca', 'BolC1t02753H' => 'bol', 'BolC1t03721H' => 'bol', 'BolC3t15525H' => 'bol', 'BolC4t23903H' => 'bol', 'BolC4t24231H' => 'bol', 'BolC4t27209H' => 'bol', 'BolC5t29671H' => 'bol', 'BolC8t49044H' => 'bol', 'BolC9t54999H' => 'bol', 'BolC9t59517H' => 'bol', 'BraA01t02178Z' => 'bra', 'BraA01t03099Z' => 'bra', 'BraA03t11867Z' => 'bra', 'BraA04t17667Z' => 'bra', 'BraA07t29542Z' => 'bra', 'BraA08t35287Z' => 'bra', 'BraA09t37334Z' => 'bra', 'BraA10t44801Z' => 'bra', 'BraSC39t46181Z' => 'bra', 'C01p28240' => 'bna', 'C01p37530' => 'bna', 'C03p31820' => 'bna', 'C04p24080' => 'bna', 'C04p25790' => 'bna', 'C04p56770' => 'bna', 'C05p09310' => 'bna', 'C09p21010' => 'bna', 'C09p67560' => 'bna', 'CAN.G1324.7' => 'can', 'CAN.G1358.10' => 'can', 'CAN.G1550.2' => 'can', 'CAN.G186.56' => 'can', 'CAN.G1965.1' => 'can', 'CAN.G645.15' => 'can', 'CAN.G798.26' => 'can', 'CAN.G798.27' => 'can', 'CAN.G798.29' => 'can', 'CAN.G919.31' => 'can', 'CANSAT11G0133' => 'cansat', 'CANSAT11G1171' => 'cansat', 'CANSAT11G2056' => 'cansat', 'CANSAT56G1202' => 'cansat', 'CANSAT56G1514' => 'cansat', 'CANSAT78G0455' => 'cansat', 'CARHR011190' => 'chi', 'CARHR051980' => 'chi', 'CARHR120170' => 'chi', 'CARHR203310' => 'chi', 'CARHR221490' => 'chi', 'Carub.0001s1054' => 'cru', 'Carub.0002s0431' => 'cru', 'Carub.0004s0818' => 'cru', 'Carub.0006s0846' => 'cru', 'Carub.0007s2722' => 'cru', 'Ca_00058_v3' => 'car', 'Ca_17831_v3' => 'car', 'Ca_19408_v3' => 'car', 'Ca_24397_v3' => 'car', 'Ca_25664_v3' => 'car', 'CBR_g21818' => 'cbr', 'CBR_g31195' => 'cbr', 'CBR_g32282' => 'cbr', 'CBR_g39599' => 'cbr', 'CBR_g49410' => 'cbr', 'Cc01_g09120' => 'ccan', 'Cc01_g09130' => 'ccan', 'Cc02_g09630' => 'ccan', 'Cc02_g22810' => 'ccan', 'Cc03_g03810' => 'ccan', 'CDE02G3718' => 'cde', 'CDE04G3183' => 'cde', 'CDE07G1046' => 'cde', 'CDE08G0480' => 'cde', 'Cfa005493' => 'cfa', 'Cfa010312' => 'cfa', 'Cfa015648' => 'cfa', 'Ciclev10002793m.g' => 'ccl', 'Ciclev10003356m.g' => 'ccl', 'Ciclev10006141m.g' => 'ccl', 'Ciclev10016676m.g' => 'ccl', 'Ciclev10017081m.g' => 'ccl', 'Ciclev10029499m.g' => 'ccl', 'CiPaw.01G166300' => 'cil', 'CiPaw.06G145600' => 'cil', 'CiPaw.13G040100' => 'cil', 'CiPaw.13G135800' => 'cil', 'ClCG01G012230' => 'cla', 'ClCG05G009510' => 'cla', 'ClCG08G008270' => 'cla', 'COL.COLO4_11763' => 'col', 'COL.COLO4_19876' => 'col', 'COL.COLO4_21481' => 'col', 'Cpa.g.sc118.34' => 'cpa', 'Cpa.g.sc32.13' => 'cpa', 'Cpa.g.sc58.103' => 'cpa', 'Cre03.g183850' => 'cre', 'Cre06.g306350' => 'cre', 'Cre07.g334800' => 'cre', 'Cre12.g487900' => 'cre', 'Cre14.g626700' => 'cre', 'Cre16.g658400' => 'cre', 'Cre17.g700950' => 'cre', 'CsaV3_1G014830' => 'csa', 'CsaV3_3G013320' => 'csa', 'CsaV3_3G019210' => 'csa', 'CsaV3_3G019220' => 'csa', 'CsaV3_6G004230' => 'csa', 'CSS0003773' => 'camsi', 'CSS0004563' => 'camsi', 'CSS0013949' => 'camsi', 'CSS0025971' => 'camsi', 'CSS0028570' => 'camsi', 'CSS0033127' => 'camsi', 'CSS0036051' => 'camsi', 'CSS0040087' => 'camsi', 'CSS0043179' => 'camsi', 'DCAR_006161' => 'dca', 'DCAR_010351' => 'dca', 'DCAR_012197' => 'dca', 'DCAR_024162' => 'dca', 'Dinv01030' => 'din', 'Dinv10924' => 'din', 'Dinv11835' => 'din', 'Dinv22841' => 'din', 'Dinv42553' => 'din', 'Duzib052G0560' => 'dzi', 'Duzib132G0389' => 'dzi', 'Duzib150G1181' => 'dzi', 'Duzib168G0623' => 'dzi', 'Duzib170G1036' => 'dzi', 'Duzib212G0200' => 'dzi', 'Duzib248G0194' => 'dzi', 'ECA232G2193' => 'eca', 'ECA233G0302' => 'eca', 'ECA234G2813' => 'eca', 'ECA234G4866' => 'eca', 'ECA240G3932' => 'eca', 'ECA248G0385' => 'eca', 'EL10Ac2g04781' => 'bvu', 'EL10Ac3g06445' => 'bvu', 'EL10Ac7g15825' => 'bvu', 'EL10Ac8g18550' => 'bvu', 'Eucgr.B03849' => 'egr', 'Eucgr.I02744' => 'egr', 'Eucgr.J00264' => 'egr', 'Eucgr.J00493' => 'egr', 'FAN04G2181' => 'fan', 'FAN07G2666' => 'fan', 'FAN11G0024' => 'fan', 'FAN12G1105' => 'fan', 'FAN13G0302' => 'fan', 'FAN15G2781' => 'fan', 'FAN16G1274' => 'fan', 'FAN17G2988' => 'fan', 'FAN18G2621' => 'fan', 'FAN21G0013' => 'fan', 'FAN22G1211' => 'fan', 'FAN25G3626' => 'fan', 'FvH4_2g09491' => 'fve', 'FvH4_3g24910' => 'fve', 'FvH4_4g15630' => 'fve', 'FvH4_5g28820' => 'fve', 'Glyma.01G238000' => 'gma', 'Glyma.05G168400' => 'gma', 'Glyma.08G126800' => 'gma', 'Glyma.08G188500' => 'gma', 'Glyma.10G278900' => 'gma', 'Glyma.11G005700' => 'gma', 'Glyma.11G183300' => 'gma', 'Glyma.12G089200' => 'gma', 'Glyma.12G169400' => 'gma', 'Glyma.12G169500' => 'gma', 'Glyma.12G169600' => 'gma', 'Glyma.20G110800' => 'gma', 'Gohir.A03G192900' => 'ghi', 'Gohir.A03G193000' => 'ghi', 'Gohir.A05G080700' => 'ghi', 'Gohir.A09G216000' => 'ghi', 'Gohir.A12G027700' => 'ghi', 'Gohir.A13G036200' => 'ghi', 'Gohir.A13G222600' => 'ghi', 'Gohir.D02G213900' => 'ghi', 'Gohir.D02G214000' => 'ghi', 'Gohir.D05G083700' => 'ghi', 'Gohir.D05G083800' => 'ghi', 'Gohir.D05G083850' => 'ghi', 'Gohir.D08G015400' => 'ghi', 'Gohir.D09G218400' => 'ghi', 'Gohir.D12G027100' => 'ghi', 'Gohir.D13G034500' => 'ghi', 'Gohir.D13G227400' => 'ghi', 'Gorai.005G241800' => 'gra', 'Gorai.005G241900' => 'gra', 'Gorai.006G239400' => 'gra', 'Gorai.008G027600' => 'gra', 'Gorai.009G085400' => 'gra', 'Gorai.009G085500' => 'gra', 'Gorai.013G039000' => 'gra', 'Gorai.013G194800' => 'gra', 'Gorai.013G257900' => 'gra', 'GSVIVG01000982001' => 'vvi', 'GSVIVG01017981001' => 'vvi', 'HanXRQChr01g0024061' => 'han', 'HanXRQChr09g0247831' => 'han', 'HanXRQChr10g0294611' => 'han', 'HanXRQChr10g0294621' => 'han', 'HanXRQChr11g0346821' => 'han', 'HanXRQChr13g0397461' => 'han', 'HanXRQChr16g0513651' => 'han', 'HanXRQChr16g0513701' => 'han', 'Haze_00897' => 'cav', 'Haze_01745' => 'cav', 'Haze_02486' => 'cav', 'Haze_02487' => 'cav', 'Haze_23374' => 'cav', 'Hma1.2p1_0578F.1_g182520' => 'hma', 'Hma1.2p1_0602F.1_g187350' => 'hma', 'Hma1.2p1_0602F.1_g187360' => 'hma', 'Hma1.2p1_0874F.1_g231320' => 'hma', 'Hma1.2p1_1197F.1_g266210' => 'hma', 'Hma1.2p1_1197F.1_g266220' => 'hma', 'Hma1.2p1_2167F.1_g315895' => 'hma', 'Hma1.2p1_2190F.1_g316640' => 'hma', 'Hma1.2p1_3645F.1_g337153' => 'hma', 'HPP92_004907' => 'vpl', 'HPP92_012134' => 'vpl', 'HPP92_025136' => 'vpl', 'HPP92_026087' => 'vpl', 'Hund06782' => 'sun', 'Hund06784' => 'sun', 'Lalb_Chr01g0004861' => 'lal', 'Lalb_Chr02g0140591' => 'lal', 'Lalb_Chr02g0140611' => 'lal', 'Lalb_Chr03g0028101' => 'lal', 'Lalb_Chr07g0185791' => 'lal', 'Lalb_Chr12g0204491' => 'lal', 'Lalb_Chr13g0295671' => 'lal', 'Lalb_Chr19g0136461' => 'lal', 'Lalb_Chr21g0309191' => 'lal', 'Lj1g0028158' => 'lja', 'Lj1P236T38' => 'lonja', 'Lj2C32G2' => 'lonja', 'Lj2P944T8' => 'lonja', 'Lj2P963T15' => 'lonja', 'Lj3g0011788' => 'lja', 'Lj4g0025027' => 'lja', 'Lj5P255T36' => 'lonja', 'Lj6g0018866' => 'lja', 'Lj6P608T31' => 'lonja', 'LjContig00408g0008879' => 'lja', 'Lsat_1_v5_gn_5_105820' => 'lsa', 'Lsat_1_v5_gn_6_38800' => 'lsa', 'Lsat_1_v5_gn_7_67141' => 'lsa', 'Manes.04G003400' => 'mes', 'Manes.07G020000' => 'mes', 'Manes.07G020100' => 'mes', 'Manes.07G020150' => 'mes', 'Manes.10G061500' => 'mes', 'Manes.10G123200' => 'mes', 'Manes.11G161900' => 'mes', 'Manes.15G029300' => 'mes', 'Mapoly0071s0018' => 'mpo', 'Mapoly0082s0023' => 'mpo', 'Mapoly3477s0001' => 'mpo', 'MBI05_g31233_MAGBIO' => 'mbi', 'MBI09_g05946_MAGBIO' => 'mbi', 'MBI09_g05947_MAGBIO' => 'mbi', 'MBI17_g08346_MAGBIO' => 'mbi', 'MCO04G038' => 'mco', 'MCO09G370' => 'mco', 'MCO13G605' => 'mco', 'MD00G1075500' => 'mdo', 'MD03G1144300' => 'mdo', 'MD08G1236800' => 'mdo', 'MD13G1193300' => 'mdo', 'MD15G1428700' => 'mdo', 'Medtr1g112030' => 'mtr', 'Medtr1g112050' => 'mtr', 'Medtr2g006290' => 'mtr', 'Medtr2g086510' => 'mtr', 'Medtr4g053120' => 'mtr', 'Medtr5g006320' => 'mtr', 'Medtr8g088720' => 'mtr', 'MELO3C004712.2' => 'cme', 'MELO3C006533.2' => 'cme', 'MELO3C019438.2' => 'cme', 'MELO3C019440.2' => 'cme', 'MELO3C019441.2' => 'cme', 'MELO3C019895.2' => 'cme', 'Migut.B00811' => 'egut', 'Migut.D02447' => 'egut', 'Migut.F00875' => 'egut', 'Migut.N00186' => 'egut', 'Migut.N01051' => 'egut', 'Migut.N02491' => 'egut', 'Migut.O00784' => 'egut', 'MSTRG.12367' => 'ama', 'MSTRG.18756' => 'ama', 'MSTRG.21042' => 'ama', 'Nitab4.5_0000559g0040' => 'nta', 'Nitab4.5_0000667g0190' => 'nta', 'Nitab4.5_0000755g0160' => 'nta', 'Nitab4.5_0001216g0080' => 'nta', 'Nitab4.5_0004069g0040' => 'nta', 'Nitab4.5_0004129g0010' => 'nta', 'Nitab4.5_0005744g0030' => 'nta', 'Nitab4.5_0006996g0030' => 'nta', 'Nitab4.5_0008971g0040' => 'nta', 'Nitab4.5_0009769g0020' => 'nta', 'Nitab4.5_0009833g0010' => 'nta', 'Nitab4.5_0013140g0020' => 'nta', 'Nn003s41376' => 'nnu', 'Nn1g01857' => 'nnu', 'Nn1g03611' => 'nnu', 'Nn1g06853' => 'nnu', 'Nn3g18360' => 'nnu', 'Nn4g26328' => 'nnu', 'Nn5g27531' => 'nnu', 'Nn6g34899' => 'nnu', 'Nn7g36299' => 'nnu', 'Oeu021485.1' => 'oeu', 'Oeu022433.1' => 'oeu', 'Oeu032111.1' => 'oeu', 'Oeu051608.1' => 'oeu', 'Os01g0860601' => 'osa', 'Os03g0659200' => 'osa', 'Os03g0835900' => 'osa', 'Os04g0412200' => 'osa', 'Os05g0443500' => 'osa', 'Os07g0251500' => 'osa', 'Os08g0104600' => 'osa', 'Peaxi162Scf00003g00047' => 'pax', 'Peaxi162Scf00003g00052' => 'pax', 'Peaxi162Scf00003g00394' => 'pax', 'Peaxi162Scf00091g00621' => 'pax', 'Peaxi162Scf00152g00146' => 'pax', 'Peaxi162Scf00173g00025' => 'pax', 'Peaxi162Scf00195g00102' => 'pax', 'Peaxi162Scf00402g00013' => 'pax', 'Peaxi162Scf00519g00618' => 'pax', 'PGR004G2838' => 'pgr', 'PGR044G2275' => 'pgr', 'PGR102G1377' => 'pgr', 'PGR119G1245' => 'pgr', 'PGR142G4449' => 'pgr', 'PGSC0003DMG400004532' => 'stu', 'PGSC0003DMG400011950' => 'stu', 'PGSC0003DMG400023391' => 'stu', 'PGSC0003DMG400023985' => 'stu', 'PGSC0003DMG400026360' => 'stu', 'PGSC0003DMG400035711' => 'stu', 'PGSC0003DMG400037286' => 'stu', 'PGSC0003DMG402005881' => 'stu', 'Phvul.002G045400' => 'pvu', 'Phvul.006G216600' => 'pvu', 'Phvul.006G216700' => 'pvu', 'Phvul.006G216800' => 'pvu', 'Phvul.007G022500' => 'pvu', 'Phvul.011G094400' => 'pvu', 'Potri.001G470700' => 'ptr', 'Potri.003G015200' => 'ptr', 'Potri.004G202500' => 'ptr', 'Potri.004G218400' => 'ptr', 'Potri.008G020100' => 'ptr', 'Potri.008G153200' => 'ptr', 'Potri.009G163800' => 'ptr', 'Potri.010G087300' => 'ptr', 'Potri.010G239100' => 'ptr', 'Pp3c10_16100' => 'ppa', 'Pp3c10_16880' => 'ppa', 'Pp3c16_6230' => 'ppa', 'Pp3c17_18910' => 'ppa', 'Pp3c3_22119' => 'ppa', 'Pp3c3_22140' => 'ppa', 'Pp3c4_8159' => 'ppa', 'Pp3c4_8171' => 'ppa', 'Pp3c4_8330' => 'ppa', 'PRCOL_00004098' => 'pco', 'Prupe.1G013900' => 'ppe', 'Prupe.1G226300' => 'ppe', 'Prupe.1G573600' => 'ppe', 'Prupe.6G130100' => 'ppe', 'Psat3g090040' => 'psa', 'Psat4g210440' => 'psa', 'Psat6g231040' => 'psa', 'Psat6g231080' => 'psa', 'Psat7g063000' => 'psa', 'Psat7g188000' => 'psa', 'Psat7g188040' => 'psa', 'PSO017G0206' => 'pso', 'PSO170G0501' => 'pso', 'PSO170G6422' => 'pso', 'PSO210G7739' => 'pso', 'PSO339G1808' => 'pso', 'PSO339G6135' => 'pso', 'PSO384G0010' => 'pso', 'PSO384G0964' => 'pso', 'PSO761G0050' => 'pso', 'PSO782G4085' => 'pso', 'QL01p012264' => 'qlo', 'QL02p099491' => 'qlo', 'QL03p033868' => 'qlo', 'QL04p046678' => 'qlo', 'QL06p002448' => 'qlo', 'RcHm_v2.0_Chr4g0416181' => 'rch', 'RcHm_v2.0_Chr5g0044701' => 'rch', 'RcHm_v2.0_Chr6g0265781' => 'rch', 'RcHm_v2.0_Chr7g0221031' => 'rch', 'Rhsim04G0202000' => 'rsi', 'Rhsim11G0127300' => 'rsi', 'Rhsim13G0111800' => 'rsi', 'Sabra01G0165600' => 'sbr', 'Sabra03G0008300' => 'sbr', 'Sabra04G0136900' => 'sbr', 'Sabra08G0013400' => 'sbr', 'Sabra08G0116800' => 'sbr', 'Sabra09G0128000' => 'sbr', 'Sabra10G0055500' => 'sbr', 'Sabra10G0073300' => 'sbr', 'SalBow3G0385' => 'sbo', 'SalBow3G1119' => 'sbo', 'SalBow3G2005' => 'sbo', 'SalBow6G2563' => 'sbo', 'SalBow6G6386' => 'sbo', 'Sc06g0008800' => 'sci', 'Sc07g0004950' => 'sci', 'Sc09g0005340' => 'sci', 'Sc13g0004410' => 'sci', 'Sc21g0007090' => 'sci', 'Sed0009285' => 'sed', 'Sed0017583' => 'sed', 'Sed0019699' => 'sed', 'Sed0023107' => 'sed', 'SEGI_10916' => 'sgi', 'SEGI_16217' => 'sgi', 'SEGI_19466' => 'sgi', 'SEGI_41115' => 'sgi', 'SGA_v2.0_scaffold111G31534' => 'sas', 'SGA_v2.0_scaffold22G09864' => 'sas', 'SGA_v2.0_scaffold338G49219' => 'sas', 'SGA_v2.0_scaffold92G28298' => 'sas', 'SMO119G0064' => 'smo', 'SMO223G0038' => 'smo', 'SMO347G0584' => 'smo', 'SMO351G0010' => 'smo', 'SMO356G0404' => 'smo', 'Solyc01g103920.3' => 'sly', 'Solyc04g009710.2' => 'sly', 'Solyc05g055280.2' => 'sly', 'Solyc10g044520.3' => 'sly', 'Solyc10g075160.1' => 'sly', 'Solyc11g006910.3' => 'sly', 'Solyc11g068430.3' => 'sly', 'Sopen01g046310' => 'spe', 'Sopen03g001200' => 'spe', 'Sopen04g004830' => 'spe', 'Sopen05g033720' => 'spe', 'Sopen06g030740' => 'spe', 'Sopen10g013090' => 'spe', 'Sopen10g027630' => 'spe', 'Sopen10g027640' => 'spe', 'Sopen11g002820' => 'spe', 'Sopen11g027140' => 'spe', 'Sp1g09680' => 'spa', 'Sp2g03630' => 'spa', 'Sp4g10320' => 'spa', 'Sp6g33400' => 'spa', 'Sp7g13030' => 'spa', 'TAR365G0317' => 'tar', 'TAR376G0979' => 'tar', 'TAR623G1665' => 'tar', 'TAR633G2373' => 'tar', 'TAR636G1400' => 'tar', 'THA.LOC104800529' => 'tha', 'THA.LOC104808547' => 'tha', 'THA.LOC104809615' => 'tha', 'THA.LOC104815724' => 'tha', 'THA.LOC104818480' => 'tha', 'THA.LOC104819179' => 'tha', 'THA.LOC104822270' => 'tha', 'THA.LOC104826425' => 'tha', 'Thecc.02G089700' => 'tca', 'Thecc.04G232300' => 'tca', 'Thecc.09G283400' => 'tca', 'Thhalv10009020m.g' => 'esa', 'Thhalv10015506m.g' => 'esa', 'Thhalv10017364m.g' => 'esa', 'Thhalv10023742m.g' => 'esa', 'Thhalv10026483m.g' => 'esa', 'TPR.G17232' => 'tpr', 'TPR.G2133' => 'tpr', 'TPR.G2498' => 'tpr', 'TPR.G31942' => 'tpr', 'TPR.G37877' => 'tpr', 'TPR.G4571' => 'tpr', 'TWI14G1113' => 'twi', 'TWI15G0426' => 'twi', 'TWI31G1005' => 'twi', 'TWI38G0513' => 'twi', 'TWI38G1484' => 'twi', 'TWI73G1098' => 'twi', 'unitig_26.g10519' => 'ugi', 'unitig_736.g22395' => 'ugi', 'unitig_747.g21234' => 'ugi', 'unitig_747.g21942' => 'ugi', 'vmacro14351' => 'vma', 'VMungo0540G0082' => 'vmu', 'VMungo0540G0405' => 'vmu', 'VMungo0540G1486' => 'vmu', 'VMungo0540G1692' => 'vmu', 'VMungo0720G2473' => 'vmu', 'VMungo1127G1562' => 'vmu', 'VMungo1215G1918' => 'vmu', 'Zm00001eb052650' => 'zma', 'Zm00001eb063710' => 'zma', 'Zm00001eb083950' => 'zma', 'Zm00001eb174420' => 'zma', 'Zm00001eb260140' => 'zma', 'Zm00001eb260150' => 'zma', 'Zm00001eb260160' => 'zma', 'Zm00001eb348290' => 'zma', 'Zm00001eb366870' => 'zma', 'Zm00001eb421930' => 'zma' ), 'gf_id' => 'HOM05D001025', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001025' ), 'data_identifier' => 'HOM05D001025', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001025', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '592', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p22650' => 'bna', 'A01p29720' => 'bna', 'A03p26560' => 'bna', 'A03p68820' => 'bna', 'A04p20980' => 'bna', 'A06p07730' => 'bna', 'A07p18260' => 'bna', 'A08p33710' => 'bna', 'A09p16970' => 'bna', 'A10p27490' => 'bna', 'Aa31LG1G17300' => 'aar', 'Aa31LG1G3910' => 'aar', 'Aa31LG2G9630' => 'aar', 'Aa31LG5G8360' => 'aar', 'Aa31LG9G2410' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4699' => 'aag', 'Actinidia23512' => 'ach', 'Actinidia37080' => 'ach', 'Ah.01g020380' => 'amhyb', 'Ah.08g215710' => 'amhyb', 'Ah.09g225110' => 'amhyb', 'Ah.10g036680' => 'amhyb', 'AL1G21940' => 'aly', 'AL2G15540' => 'aly', 'AL4G21520' => 'aly', 'AL7G40960' => 'aly', 'Aqoxy2G01191' => 'aox', 'Aqoxy2G03393' => 'aox', 'Aqoxy4G02775' => 'aox', 'Aqoxy6G00058' => 'aox', 'arahy.Tifrunner.gnm1.ann1.9X74H2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CW3FX9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R485W7' => 'arhy', 'AT1G10960' => 'ath', 'AT1G60950' => 'ath', 'AT2G27510' => 'ath', 'AT4G14890' => 'ath', 'AT5G10000' => 'ath', 'ATR0665G624' => 'atr', 'ATR0697G138' => 'atr', 'ATR0776G046' => 'atr', 'ATR1134G135' => 'atr', 'Atru.chr12.1025' => 'acertr', 'Atru.chr3.3241' => 'acertr', 'Atru.chr4.2460' => 'acertr', 'AUR62007427' => 'cqu', 'AUR62010960' => 'cqu', 'AUR62012201' => 'cqu', 'AUR62021470' => 'cqu', 'AUR62022834' => 'cqu', 'AUR62033635' => 'cqu', 'AUR62036186' => 'cqu', 'BcaB01g03077' => 'bca', 'BcaB02g10093' => 'bca', 'BcaB04g20295' => 'bca', 'BcaB06g28147' => 'bca', 'BcaB07g31253' => 'bca', 'BcaC01g04946' => 'bca', 'BcaC02g10614' => 'bca', 'BcaC02g10885' => 'bca', 'BcaC04g19356' => 'bca', 'BcaC04g22297' => 'bca', 'BcaC05g24977' => 'bca', 'BcaC06g31823' => 'bca', 'BcaC07g38633' => 'bca', 'BcaC09g49353' => 'bca', 'BcaC09g50168' => 'bca', 'BcaNung00322' => 'bca', 'BcaNung04769' => 'bca', 'BolC1t02753H' => 'bol', 'BolC1t03721H' => 'bol', 'BolC3t15525H' => 'bol', 'BolC4t23903H' => 'bol', 'BolC4t24231H' => 'bol', 'BolC4t27209H' => 'bol', 'BolC5t29671H' => 'bol', 'BolC8t49044H' => 'bol', 'BolC9t54999H' => 'bol', 'BolC9t59517H' => 'bol', 'BraA01t02178Z' => 'bra', 'BraA01t03099Z' => 'bra', 'BraA03t11867Z' => 'bra', 'BraA04t17667Z' => 'bra', 'BraA07t29542Z' => 'bra', 'BraA08t35287Z' => 'bra', 'BraA09t37334Z' => 'bra', 'BraA10t44801Z' => 'bra', 'BraSC39t46181Z' => 'bra', 'C01p28240' => 'bna', 'C01p37530' => 'bna', 'C03p31820' => 'bna', 'C04p24080' => 'bna', 'C04p25790' => 'bna', 'C04p56770' => 'bna', 'C05p09310' => 'bna', 'C09p21010' => 'bna', 'C09p67560' => 'bna', 'CAN.G1324.7' => 'can', 'CAN.G1358.10' => 'can', 'CAN.G1550.2' => 'can', 'CAN.G186.56' => 'can', 'CAN.G1965.1' => 'can', 'CAN.G645.15' => 'can', 'CAN.G798.26' => 'can', 'CAN.G798.27' => 'can', 'CAN.G798.29' => 'can', 'CAN.G919.31' => 'can', 'CANSAT11G0133' => 'cansat', 'CANSAT11G1171' => 'cansat', 'CANSAT11G2056' => 'cansat', 'CANSAT56G1202' => 'cansat', 'CANSAT56G1514' => 'cansat', 'CANSAT78G0455' => 'cansat', 'CARHR011190' => 'chi', 'CARHR051980' => 'chi', 'CARHR120170' => 'chi', 'CARHR203310' => 'chi', 'CARHR221490' => 'chi', 'Carub.0001s1054' => 'cru', 'Carub.0002s0431' => 'cru', 'Carub.0004s0818' => 'cru', 'Carub.0006s0846' => 'cru', 'Carub.0007s2722' => 'cru', 'Ca_00058_v3' => 'car', 'Ca_17831_v3' => 'car', 'Ca_19408_v3' => 'car', 'Ca_24397_v3' => 'car', 'Ca_25664_v3' => 'car', 'CBR_g21818' => 'cbr', 'CBR_g31195' => 'cbr', 'CBR_g32282' => 'cbr', 'CBR_g39599' => 'cbr', 'CBR_g49410' => 'cbr', 'Cc01_g09120' => 'ccan', 'Cc01_g09130' => 'ccan', 'Cc02_g09630' => 'ccan', 'Cc02_g22810' => 'ccan', 'Cc03_g03810' => 'ccan', 'CDE02G3718' => 'cde', 'CDE04G3183' => 'cde', 'CDE07G1046' => 'cde', 'CDE08G0480' => 'cde', 'Cfa005493' => 'cfa', 'Cfa010312' => 'cfa', 'Cfa015648' => 'cfa', 'Ciclev10002793m.g' => 'ccl', 'Ciclev10003356m.g' => 'ccl', 'Ciclev10006141m.g' => 'ccl', 'Ciclev10016676m.g' => 'ccl', 'Ciclev10017081m.g' => 'ccl', 'Ciclev10029499m.g' => 'ccl', 'CiPaw.01G166300' => 'cil', 'CiPaw.06G145600' => 'cil', 'CiPaw.13G040100' => 'cil', 'CiPaw.13G135800' => 'cil', 'ClCG01G012230' => 'cla', 'ClCG05G009510' => 'cla', 'ClCG08G008270' => 'cla', 'COL.COLO4_11763' => 'col', 'COL.COLO4_19876' => 'col', 'COL.COLO4_21481' => 'col', 'Cpa.g.sc118.34' => 'cpa', 'Cpa.g.sc32.13' => 'cpa', 'Cpa.g.sc58.103' => 'cpa', 'Cre03.g183850' => 'cre', 'Cre06.g306350' => 'cre', 'Cre07.g334800' => 'cre', 'Cre12.g487900' => 'cre', 'Cre14.g626700' => 'cre', 'Cre16.g658400' => 'cre', 'Cre17.g700950' => 'cre', 'CsaV3_1G014830' => 'csa', 'CsaV3_3G013320' => 'csa', 'CsaV3_3G019210' => 'csa', 'CsaV3_3G019220' => 'csa', 'CsaV3_6G004230' => 'csa', 'CSS0003773' => 'camsi', 'CSS0004563' => 'camsi', 'CSS0013949' => 'camsi', 'CSS0025971' => 'camsi', 'CSS0028570' => 'camsi', 'CSS0033127' => 'camsi', 'CSS0036051' => 'camsi', 'CSS0040087' => 'camsi', 'CSS0043179' => 'camsi', 'DCAR_006161' => 'dca', 'DCAR_010351' => 'dca', 'DCAR_012197' => 'dca', 'DCAR_024162' => 'dca', 'Dinv01030' => 'din', 'Dinv10924' => 'din', 'Dinv11835' => 'din', 'Dinv22841' => 'din', 'Dinv42553' => 'din', 'Duzib052G0560' => 'dzi', 'Duzib132G0389' => 'dzi', 'Duzib150G1181' => 'dzi', 'Duzib168G0623' => 'dzi', 'Duzib170G1036' => 'dzi', 'Duzib212G0200' => 'dzi', 'Duzib248G0194' => 'dzi', 'ECA232G2193' => 'eca', 'ECA233G0302' => 'eca', 'ECA234G2813' => 'eca', 'ECA234G4866' => 'eca', 'ECA240G3932' => 'eca', 'ECA248G0385' => 'eca', 'EL10Ac2g04781' => 'bvu', 'EL10Ac3g06445' => 'bvu', 'EL10Ac7g15825' => 'bvu', 'EL10Ac8g18550' => 'bvu', 'Eucgr.B03849' => 'egr', 'Eucgr.I02744' => 'egr', 'Eucgr.J00264' => 'egr', 'Eucgr.J00493' => 'egr', 'FAN04G2181' => 'fan', 'FAN07G2666' => 'fan', 'FAN11G0024' => 'fan', 'FAN12G1105' => 'fan', 'FAN13G0302' => 'fan', 'FAN15G2781' => 'fan', 'FAN16G1274' => 'fan', 'FAN17G2988' => 'fan', 'FAN18G2621' => 'fan', 'FAN21G0013' => 'fan', 'FAN22G1211' => 'fan', 'FAN25G3626' => 'fan', 'FvH4_2g09491' => 'fve', 'FvH4_3g24910' => 'fve', 'FvH4_4g15630' => 'fve', 'FvH4_5g28820' => 'fve', 'Glyma.01G238000' => 'gma', 'Glyma.05G168400' => 'gma', 'Glyma.08G126800' => 'gma', 'Glyma.08G188500' => 'gma', 'Glyma.10G278900' => 'gma', 'Glyma.11G005700' => 'gma', 'Glyma.11G183300' => 'gma', 'Glyma.12G089200' => 'gma', 'Glyma.12G169400' => 'gma', 'Glyma.12G169500' => 'gma', 'Glyma.12G169600' => 'gma', 'Glyma.20G110800' => 'gma', 'Gohir.A03G192900' => 'ghi', 'Gohir.A03G193000' => 'ghi', 'Gohir.A05G080700' => 'ghi', 'Gohir.A09G216000' => 'ghi', 'Gohir.A12G027700' => 'ghi', 'Gohir.A13G036200' => 'ghi', 'Gohir.A13G222600' => 'ghi', 'Gohir.D02G213900' => 'ghi', 'Gohir.D02G214000' => 'ghi', 'Gohir.D05G083700' => 'ghi', 'Gohir.D05G083800' => 'ghi', 'Gohir.D05G083850' => 'ghi', 'Gohir.D08G015400' => 'ghi', 'Gohir.D09G218400' => 'ghi', 'Gohir.D12G027100' => 'ghi', 'Gohir.D13G034500' => 'ghi', 'Gohir.D13G227400' => 'ghi', 'Gorai.005G241800' => 'gra', 'Gorai.005G241900' => 'gra', 'Gorai.006G239400' => 'gra', 'Gorai.008G027600' => 'gra', 'Gorai.009G085400' => 'gra', 'Gorai.009G085500' => 'gra', 'Gorai.013G039000' => 'gra', 'Gorai.013G194800' => 'gra', 'Gorai.013G257900' => 'gra', 'GSVIVG01000982001' => 'vvi', 'GSVIVG01017981001' => 'vvi', 'HanXRQChr01g0024061' => 'han', 'HanXRQChr09g0247831' => 'han', 'HanXRQChr10g0294611' => 'han', 'HanXRQChr10g0294621' => 'han', 'HanXRQChr11g0346821' => 'han', 'HanXRQChr13g0397461' => 'han', 'HanXRQChr16g0513651' => 'han', 'HanXRQChr16g0513701' => 'han', 'Haze_00897' => 'cav', 'Haze_01745' => 'cav', 'Haze_02486' => 'cav', 'Haze_02487' => 'cav', 'Haze_23374' => 'cav', 'Hma1.2p1_0578F.1_g182520' => 'hma', 'Hma1.2p1_0602F.1_g187350' => 'hma', 'Hma1.2p1_0602F.1_g187360' => 'hma', 'Hma1.2p1_0874F.1_g231320' => 'hma', 'Hma1.2p1_1197F.1_g266210' => 'hma', 'Hma1.2p1_1197F.1_g266220' => 'hma', 'Hma1.2p1_2167F.1_g315895' => 'hma', 'Hma1.2p1_2190F.1_g316640' => 'hma', 'Hma1.2p1_3645F.1_g337153' => 'hma', 'HPP92_004907' => 'vpl', 'HPP92_012134' => 'vpl', 'HPP92_025136' => 'vpl', 'HPP92_026087' => 'vpl', 'Hund06782' => 'sun', 'Hund06784' => 'sun', 'Lalb_Chr01g0004861' => 'lal', 'Lalb_Chr02g0140591' => 'lal', 'Lalb_Chr02g0140611' => 'lal', 'Lalb_Chr03g0028101' => 'lal', 'Lalb_Chr07g0185791' => 'lal', 'Lalb_Chr12g0204491' => 'lal', 'Lalb_Chr13g0295671' => 'lal', 'Lalb_Chr19g0136461' => 'lal', 'Lalb_Chr21g0309191' => 'lal', 'Lj1g0028158' => 'lja', 'Lj1P236T38' => 'lonja', 'Lj2C32G2' => 'lonja', 'Lj2P944T8' => 'lonja', 'Lj2P963T15' => 'lonja', 'Lj3g0011788' => 'lja', 'Lj4g0025027' => 'lja', 'Lj5P255T36' => 'lonja', 'Lj6g0018866' => 'lja', 'Lj6P608T31' => 'lonja', 'LjContig00408g0008879' => 'lja', 'Lsat_1_v5_gn_5_105820' => 'lsa', 'Lsat_1_v5_gn_6_38800' => 'lsa', 'Lsat_1_v5_gn_7_67141' => 'lsa', 'Manes.04G003400' => 'mes', 'Manes.07G020000' => 'mes', 'Manes.07G020100' => 'mes', 'Manes.07G020150' => 'mes', 'Manes.10G061500' => 'mes', 'Manes.10G123200' => 'mes', 'Manes.11G161900' => 'mes', 'Manes.15G029300' => 'mes', 'Mapoly0071s0018' => 'mpo', 'Mapoly0082s0023' => 'mpo', 'Mapoly3477s0001' => 'mpo', 'MBI05_g31233_MAGBIO' => 'mbi', 'MBI09_g05946_MAGBIO' => 'mbi', 'MBI09_g05947_MAGBIO' => 'mbi', 'MBI17_g08346_MAGBIO' => 'mbi', 'MCO04G038' => 'mco', 'MCO09G370' => 'mco', 'MCO13G605' => 'mco', 'MD00G1075500' => 'mdo', 'MD03G1144300' => 'mdo', 'MD08G1236800' => 'mdo', 'MD13G1193300' => 'mdo', 'MD15G1428700' => 'mdo', 'Medtr1g112030' => 'mtr', 'Medtr1g112050' => 'mtr', 'Medtr2g006290' => 'mtr', 'Medtr2g086510' => 'mtr', 'Medtr4g053120' => 'mtr', 'Medtr5g006320' => 'mtr', 'Medtr8g088720' => 'mtr', 'MELO3C004712.2' => 'cme', 'MELO3C006533.2' => 'cme', 'MELO3C019438.2' => 'cme', 'MELO3C019440.2' => 'cme', 'MELO3C019441.2' => 'cme', 'MELO3C019895.2' => 'cme', 'Migut.B00811' => 'egut', 'Migut.D02447' => 'egut', 'Migut.F00875' => 'egut', 'Migut.N00186' => 'egut', 'Migut.N01051' => 'egut', 'Migut.N02491' => 'egut', 'Migut.O00784' => 'egut', 'MSTRG.12367' => 'ama', 'MSTRG.18756' => 'ama', 'MSTRG.21042' => 'ama', 'Nitab4.5_0000559g0040' => 'nta', 'Nitab4.5_0000667g0190' => 'nta', 'Nitab4.5_0000755g0160' => 'nta', 'Nitab4.5_0001216g0080' => 'nta', 'Nitab4.5_0004069g0040' => 'nta', 'Nitab4.5_0004129g0010' => 'nta', 'Nitab4.5_0005744g0030' => 'nta', 'Nitab4.5_0006996g0030' => 'nta', 'Nitab4.5_0008971g0040' => 'nta', 'Nitab4.5_0009769g0020' => 'nta', 'Nitab4.5_0009833g0010' => 'nta', 'Nitab4.5_0013140g0020' => 'nta', 'Nn003s41376' => 'nnu', 'Nn1g01857' => 'nnu', 'Nn1g03611' => 'nnu', 'Nn1g06853' => 'nnu', 'Nn3g18360' => 'nnu', 'Nn4g26328' => 'nnu', 'Nn5g27531' => 'nnu', 'Nn6g34899' => 'nnu', 'Nn7g36299' => 'nnu', 'Oeu021485.1' => 'oeu', 'Oeu022433.1' => 'oeu', 'Oeu032111.1' => 'oeu', 'Oeu051608.1' => 'oeu', 'Os01g0860601' => 'osa', 'Os03g0659200' => 'osa', 'Os03g0835900' => 'osa', 'Os04g0412200' => 'osa', 'Os05g0443500' => 'osa', 'Os07g0251500' => 'osa', 'Os08g0104600' => 'osa', 'Peaxi162Scf00003g00047' => 'pax', 'Peaxi162Scf00003g00052' => 'pax', 'Peaxi162Scf00003g00394' => 'pax', 'Peaxi162Scf00091g00621' => 'pax', 'Peaxi162Scf00152g00146' => 'pax', 'Peaxi162Scf00173g00025' => 'pax', 'Peaxi162Scf00195g00102' => 'pax', 'Peaxi162Scf00402g00013' => 'pax', 'Peaxi162Scf00519g00618' => 'pax', 'PGR004G2838' => 'pgr', 'PGR044G2275' => 'pgr', 'PGR102G1377' => 'pgr', 'PGR119G1245' => 'pgr', 'PGR142G4449' => 'pgr', 'PGSC0003DMG400004532' => 'stu', 'PGSC0003DMG400011950' => 'stu', 'PGSC0003DMG400023391' => 'stu', 'PGSC0003DMG400023985' => 'stu', 'PGSC0003DMG400026360' => 'stu', 'PGSC0003DMG400035711' => 'stu', 'PGSC0003DMG400037286' => 'stu', 'PGSC0003DMG402005881' => 'stu', 'Phvul.002G045400' => 'pvu', 'Phvul.006G216600' => 'pvu', 'Phvul.006G216700' => 'pvu', 'Phvul.006G216800' => 'pvu', 'Phvul.007G022500' => 'pvu', 'Phvul.011G094400' => 'pvu', 'Potri.001G470700' => 'ptr', 'Potri.003G015200' => 'ptr', 'Potri.004G202500' => 'ptr', 'Potri.004G218400' => 'ptr', 'Potri.008G020100' => 'ptr', 'Potri.008G153200' => 'ptr', 'Potri.009G163800' => 'ptr', 'Potri.010G087300' => 'ptr', 'Potri.010G239100' => 'ptr', 'Pp3c10_16100' => 'ppa', 'Pp3c10_16880' => 'ppa', 'Pp3c16_6230' => 'ppa', 'Pp3c17_18910' => 'ppa', 'Pp3c3_22119' => 'ppa', 'Pp3c3_22140' => 'ppa', 'Pp3c4_8159' => 'ppa', 'Pp3c4_8171' => 'ppa', 'Pp3c4_8330' => 'ppa', 'PRCOL_00004098' => 'pco', 'Prupe.1G013900' => 'ppe', 'Prupe.1G226300' => 'ppe', 'Prupe.1G573600' => 'ppe', 'Prupe.6G130100' => 'ppe', 'Psat3g090040' => 'psa', 'Psat4g210440' => 'psa', 'Psat6g231040' => 'psa', 'Psat6g231080' => 'psa', 'Psat7g063000' => 'psa', 'Psat7g188000' => 'psa', 'Psat7g188040' => 'psa', 'PSO017G0206' => 'pso', 'PSO170G0501' => 'pso', 'PSO170G6422' => 'pso', 'PSO210G7739' => 'pso', 'PSO339G1808' => 'pso', 'PSO339G6135' => 'pso', 'PSO384G0010' => 'pso', 'PSO384G0964' => 'pso', 'PSO761G0050' => 'pso', 'PSO782G4085' => 'pso', 'QL01p012264' => 'qlo', 'QL02p099491' => 'qlo', 'QL03p033868' => 'qlo', 'QL04p046678' => 'qlo', 'QL06p002448' => 'qlo', 'RcHm_v2.0_Chr4g0416181' => 'rch', 'RcHm_v2.0_Chr5g0044701' => 'rch', 'RcHm_v2.0_Chr6g0265781' => 'rch', 'RcHm_v2.0_Chr7g0221031' => 'rch', 'Rhsim04G0202000' => 'rsi', 'Rhsim11G0127300' => 'rsi', 'Rhsim13G0111800' => 'rsi', 'Sabra01G0165600' => 'sbr', 'Sabra03G0008300' => 'sbr', 'Sabra04G0136900' => 'sbr', 'Sabra08G0013400' => 'sbr', 'Sabra08G0116800' => 'sbr', 'Sabra09G0128000' => 'sbr', 'Sabra10G0055500' => 'sbr', 'Sabra10G0073300' => 'sbr', 'SalBow3G0385' => 'sbo', 'SalBow3G1119' => 'sbo', 'SalBow3G2005' => 'sbo', 'SalBow6G2563' => 'sbo', 'SalBow6G6386' => 'sbo', 'Sc06g0008800' => 'sci', 'Sc07g0004950' => 'sci', 'Sc09g0005340' => 'sci', 'Sc13g0004410' => 'sci', 'Sc21g0007090' => 'sci', 'Sed0009285' => 'sed', 'Sed0017583' => 'sed', 'Sed0019699' => 'sed', 'Sed0023107' => 'sed', 'SEGI_10916' => 'sgi', 'SEGI_16217' => 'sgi', 'SEGI_19466' => 'sgi', 'SEGI_41115' => 'sgi', 'SGA_v2.0_scaffold111G31534' => 'sas', 'SGA_v2.0_scaffold22G09864' => 'sas', 'SGA_v2.0_scaffold338G49219' => 'sas', 'SGA_v2.0_scaffold92G28298' => 'sas', 'SMO119G0064' => 'smo', 'SMO223G0038' => 'smo', 'SMO347G0584' => 'smo', 'SMO351G0010' => 'smo', 'SMO356G0404' => 'smo', 'Solyc01g103920.3' => 'sly', 'Solyc04g009710.2' => 'sly', 'Solyc05g055280.2' => 'sly', 'Solyc10g044520.3' => 'sly', 'Solyc10g075160.1' => 'sly', 'Solyc11g006910.3' => 'sly', 'Solyc11g068430.3' => 'sly', 'Sopen01g046310' => 'spe', 'Sopen03g001200' => 'spe', 'Sopen04g004830' => 'spe', 'Sopen05g033720' => 'spe', 'Sopen06g030740' => 'spe', 'Sopen10g013090' => 'spe', 'Sopen10g027630' => 'spe', 'Sopen10g027640' => 'spe', 'Sopen11g002820' => 'spe', 'Sopen11g027140' => 'spe', 'Sp1g09680' => 'spa', 'Sp2g03630' => 'spa', 'Sp4g10320' => 'spa', 'Sp6g33400' => 'spa', 'Sp7g13030' => 'spa', 'TAR365G0317' => 'tar', 'TAR376G0979' => 'tar', 'TAR623G1665' => 'tar', 'TAR633G2373' => 'tar', 'TAR636G1400' => 'tar', 'THA.LOC104800529' => 'tha', 'THA.LOC104808547' => 'tha', 'THA.LOC104809615' => 'tha', 'THA.LOC104815724' => 'tha', 'THA.LOC104818480' => 'tha', 'THA.LOC104819179' => 'tha', 'THA.LOC104822270' => 'tha', 'THA.LOC104826425' => 'tha', 'Thecc.02G089700' => 'tca', 'Thecc.04G232300' => 'tca', 'Thecc.09G283400' => 'tca', 'Thhalv10009020m.g' => 'esa', 'Thhalv10015506m.g' => 'esa', 'Thhalv10017364m.g' => 'esa', 'Thhalv10023742m.g' => 'esa', 'Thhalv10026483m.g' => 'esa', 'TPR.G17232' => 'tpr', 'TPR.G2133' => 'tpr', 'TPR.G2498' => 'tpr', 'TPR.G31942' => 'tpr', 'TPR.G37877' => 'tpr', 'TPR.G4571' => 'tpr', 'TWI14G1113' => 'twi', 'TWI15G0426' => 'twi', 'TWI31G1005' => 'twi', 'TWI38G0513' => 'twi', 'TWI38G1484' => 'twi', 'TWI73G1098' => 'twi', 'unitig_26.g10519' => 'ugi', 'unitig_736.g22395' => 'ugi', 'unitig_747.g21234' => 'ugi', 'unitig_747.g21942' => 'ugi', 'vmacro14351' => 'vma', 'VMungo0540G0082' => 'vmu', 'VMungo0540G0405' => 'vmu', 'VMungo0540G1486' => 'vmu', 'VMungo0540G1692' => 'vmu', 'VMungo0720G2473' => 'vmu', 'VMungo1127G1562' => 'vmu', 'VMungo1215G1918' => 'vmu', 'Zm00001eb052650' => 'zma', 'Zm00001eb063710' => 'zma', 'Zm00001eb083950' => 'zma', 'Zm00001eb174420' => 'zma', 'Zm00001eb260140' => 'zma', 'Zm00001eb260150' => 'zma', 'Zm00001eb260160' => 'zma', 'Zm00001eb348290' => 'zma', 'Zm00001eb366870' => 'zma', 'Zm00001eb421930' => 'zma' ) $gf_id = 'HOM05D001025' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001025' ) $data_identifier = 'HOM05D001025' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 19, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 2, 'amhyb' => (int) 4, 'aly' => (int) 4, 'aox' => (int) 4, 'arhy' => (int) 3, 'ath' => (int) 5, 'atr' => (int) 4, 'acertr' => (int) 3, 'cqu' => (int) 7, 'bca' => (int) 17, 'bol' => (int) 10, 'bra' => (int) 9, 'can' => (int) 10, 'cansat' => (int) 6, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 5, 'cbr' => (int) 5, 'ccan' => (int) 5, 'cde' => (int) 4, 'cfa' => (int) 3, 'ccl' => (int) 6, 'cil' => (int) 4, 'cla' => (int) 3, 'col' => (int) 3, 'cpa' => (int) 3, 'cre' => (int) 7, 'csa' => (int) 5, 'camsi' => (int) 9, 'dca' => (int) 4, 'din' => (int) 5, 'dzi' => (int) 7, 'eca' => (int) 6, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 12, 'fve' => (int) 4, 'gma' => (int) 12, 'ghi' => (int) 17, 'gra' => (int) 9, 'vvi' => (int) 2, 'han' => (int) 8, 'cav' => (int) 5, 'hma' => (int) 9, 'vpl' => (int) 4, 'sun' => (int) 2, 'lal' => (int) 9, 'lja' => (int) 5, 'lonja' => (int) 6, 'lsa' => (int) 3, 'mes' => (int) 8, 'mpo' => (int) 3, 'mbi' => (int) 4, 'mco' => (int) 3, 'mdo' => (int) 5, 'mtr' => (int) 7, 'cme' => (int) 6, 'egut' => (int) 7, 'ama' => (int) 3, 'nta' => (int) 12, 'nnu' => (int) 9, 'oeu' => (int) 4, 'osa' => (int) 7, 'pax' => (int) 9, 'pgr' => (int) 5, 'stu' => (int) 8, 'pvu' => (int) 6, 'ptr' => (int) 9, 'ppa' => (int) 9, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 7, 'pso' => (int) 10, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 3, 'sbr' => (int) 8, 'sbo' => (int) 5, 'sci' => (int) 5, 'sed' => (int) 4, 'sgi' => (int) 4, 'sas' => (int) 4, 'smo' => (int) 5, 'sly' => (int) 7, 'spe' => (int) 10, 'spa' => (int) 5, 'tar' => (int) 5, 'tha' => (int) 8, 'tca' => (int) 3, 'esa' => (int) 5, 'tpr' => (int) 6, 'twi' => (int) 6, 'ugi' => (int) 4, 'vma' => (int) 1, 'vmu' => (int) 7, 'zma' => (int) 10 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb421930' $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' => 'HOM05D001025', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '592', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p22650' => 'bna', 'A01p29720' => 'bna', 'A03p26560' => 'bna', 'A03p68820' => 'bna', 'A04p20980' => 'bna', 'A06p07730' => 'bna', 'A07p18260' => 'bna', 'A08p33710' => 'bna', 'A09p16970' => 'bna', 'A10p27490' => 'bna', 'Aa31LG1G17300' => 'aar', 'Aa31LG1G3910' => 'aar', 'Aa31LG2G9630' => 'aar', 'Aa31LG5G8360' => 'aar', 'Aa31LG9G2410' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4699' => 'aag', 'Actinidia23512' => 'ach', 'Actinidia37080' => 'ach', 'Ah.01g020380' => 'amhyb', 'Ah.08g215710' => 'amhyb', 'Ah.09g225110' => 'amhyb', 'Ah.10g036680' => 'amhyb', 'AL1G21940' => 'aly', 'AL2G15540' => 'aly', 'AL4G21520' => 'aly', 'AL7G40960' => 'aly', 'Aqoxy2G01191' => 'aox', 'Aqoxy2G03393' => 'aox', 'Aqoxy4G02775' => 'aox', 'Aqoxy6G00058' => 'aox', 'arahy.Tifrunner.gnm1.ann1.9X74H2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CW3FX9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R485W7' => 'arhy', 'AT1G10960' => 'ath', 'AT1G60950' => 'ath', 'AT2G27510' => 'ath', 'AT4G14890' => 'ath', 'AT5G10000' => 'ath', 'ATR0665G624' => 'atr', 'ATR0697G138' => 'atr', 'ATR0776G046' => 'atr', 'ATR1134G135' => 'atr', 'Atru.chr12.1025' => 'acertr', 'Atru.chr3.3241' => 'acertr', 'Atru.chr4.2460' => 'acertr', 'AUR62007427' => 'cqu', 'AUR62010960' => 'cqu', 'AUR62012201' => 'cqu', 'AUR62021470' => 'cqu', 'AUR62022834' => 'cqu', 'AUR62033635' => 'cqu', 'AUR62036186' => 'cqu', 'BcaB01g03077' => 'bca', 'BcaB02g10093' => 'bca', 'BcaB04g20295' => 'bca', 'BcaB06g28147' => 'bca', 'BcaB07g31253' => 'bca', 'BcaC01g04946' => 'bca', 'BcaC02g10614' => 'bca', 'BcaC02g10885' => 'bca', 'BcaC04g19356' => 'bca', 'BcaC04g22297' => 'bca', 'BcaC05g24977' => 'bca', 'BcaC06g31823' => 'bca', 'BcaC07g38633' => 'bca', 'BcaC09g49353' => 'bca', 'BcaC09g50168' => 'bca', 'BcaNung00322' => 'bca', 'BcaNung04769' => 'bca', 'BolC1t02753H' => 'bol', 'BolC1t03721H' => 'bol', 'BolC3t15525H' => 'bol', 'BolC4t23903H' => 'bol', 'BolC4t24231H' => 'bol', 'BolC4t27209H' => 'bol', 'BolC5t29671H' => 'bol', 'BolC8t49044H' => 'bol', 'BolC9t54999H' => 'bol', 'BolC9t59517H' => 'bol', 'BraA01t02178Z' => 'bra', 'BraA01t03099Z' => 'bra', 'BraA03t11867Z' => 'bra', 'BraA04t17667Z' => 'bra', 'BraA07t29542Z' => 'bra', 'BraA08t35287Z' => 'bra', 'BraA09t37334Z' => 'bra', 'BraA10t44801Z' => 'bra', 'BraSC39t46181Z' => 'bra', 'C01p28240' => 'bna', 'C01p37530' => 'bna', 'C03p31820' => 'bna', 'C04p24080' => 'bna', 'C04p25790' => 'bna', 'C04p56770' => 'bna', 'C05p09310' => 'bna', 'C09p21010' => 'bna', 'C09p67560' => 'bna', 'CAN.G1324.7' => 'can', 'CAN.G1358.10' => 'can', 'CAN.G1550.2' => 'can', 'CAN.G186.56' => 'can', 'CAN.G1965.1' => 'can', 'CAN.G645.15' => 'can', 'CAN.G798.26' => 'can', 'CAN.G798.27' => 'can', 'CAN.G798.29' => 'can', 'CAN.G919.31' => 'can', 'CANSAT11G0133' => 'cansat', 'CANSAT11G1171' => 'cansat', 'CANSAT11G2056' => 'cansat', 'CANSAT56G1202' => 'cansat', 'CANSAT56G1514' => 'cansat', 'CANSAT78G0455' => 'cansat', 'CARHR011190' => 'chi', 'CARHR051980' => 'chi', 'CARHR120170' => 'chi', 'CARHR203310' => 'chi', 'CARHR221490' => 'chi', 'Carub.0001s1054' => 'cru', 'Carub.0002s0431' => 'cru', 'Carub.0004s0818' => 'cru', 'Carub.0006s0846' => 'cru', 'Carub.0007s2722' => 'cru', 'Ca_00058_v3' => 'car', 'Ca_17831_v3' => 'car', 'Ca_19408_v3' => 'car', 'Ca_24397_v3' => 'car', 'Ca_25664_v3' => 'car', 'CBR_g21818' => 'cbr', 'CBR_g31195' => 'cbr', 'CBR_g32282' => 'cbr', 'CBR_g39599' => 'cbr', 'CBR_g49410' => 'cbr', 'Cc01_g09120' => 'ccan', 'Cc01_g09130' => 'ccan', 'Cc02_g09630' => 'ccan', 'Cc02_g22810' => 'ccan', 'Cc03_g03810' => 'ccan', 'CDE02G3718' => 'cde', 'CDE04G3183' => 'cde', 'CDE07G1046' => 'cde', 'CDE08G0480' => 'cde', 'Cfa005493' => 'cfa', 'Cfa010312' => 'cfa', 'Cfa015648' => 'cfa', 'Ciclev10002793m.g' => 'ccl', 'Ciclev10003356m.g' => 'ccl', 'Ciclev10006141m.g' => 'ccl', 'Ciclev10016676m.g' => 'ccl', 'Ciclev10017081m.g' => 'ccl', 'Ciclev10029499m.g' => 'ccl', 'CiPaw.01G166300' => 'cil', 'CiPaw.06G145600' => 'cil', 'CiPaw.13G040100' => 'cil', 'CiPaw.13G135800' => 'cil', 'ClCG01G012230' => 'cla', 'ClCG05G009510' => 'cla', 'ClCG08G008270' => 'cla', 'COL.COLO4_11763' => 'col', 'COL.COLO4_19876' => 'col', 'COL.COLO4_21481' => 'col', 'Cpa.g.sc118.34' => 'cpa', 'Cpa.g.sc32.13' => 'cpa', 'Cpa.g.sc58.103' => 'cpa', 'Cre03.g183850' => 'cre', 'Cre06.g306350' => 'cre', 'Cre07.g334800' => 'cre', 'Cre12.g487900' => 'cre', 'Cre14.g626700' => 'cre', 'Cre16.g658400' => 'cre', 'Cre17.g700950' => 'cre', 'CsaV3_1G014830' => 'csa', 'CsaV3_3G013320' => 'csa', 'CsaV3_3G019210' => 'csa', 'CsaV3_3G019220' => 'csa', 'CsaV3_6G004230' => 'csa', 'CSS0003773' => 'camsi', 'CSS0004563' => 'camsi', 'CSS0013949' => 'camsi', 'CSS0025971' => 'camsi', 'CSS0028570' => 'camsi', 'CSS0033127' => 'camsi', 'CSS0036051' => 'camsi', 'CSS0040087' => 'camsi', 'CSS0043179' => 'camsi', 'DCAR_006161' => 'dca', 'DCAR_010351' => 'dca', 'DCAR_012197' => 'dca', 'DCAR_024162' => 'dca', 'Dinv01030' => 'din', 'Dinv10924' => 'din', 'Dinv11835' => 'din', 'Dinv22841' => 'din', 'Dinv42553' => 'din', 'Duzib052G0560' => 'dzi', 'Duzib132G0389' => 'dzi', 'Duzib150G1181' => 'dzi', 'Duzib168G0623' => 'dzi', 'Duzib170G1036' => 'dzi', 'Duzib212G0200' => 'dzi', 'Duzib248G0194' => 'dzi', 'ECA232G2193' => 'eca', 'ECA233G0302' => 'eca', 'ECA234G2813' => 'eca', 'ECA234G4866' => 'eca', 'ECA240G3932' => 'eca', 'ECA248G0385' => 'eca', 'EL10Ac2g04781' => 'bvu', 'EL10Ac3g06445' => 'bvu', 'EL10Ac7g15825' => 'bvu', 'EL10Ac8g18550' => 'bvu', 'Eucgr.B03849' => 'egr', 'Eucgr.I02744' => 'egr', 'Eucgr.J00264' => 'egr', 'Eucgr.J00493' => 'egr', 'FAN04G2181' => 'fan', 'FAN07G2666' => 'fan', 'FAN11G0024' => 'fan', 'FAN12G1105' => 'fan', 'FAN13G0302' => 'fan', 'FAN15G2781' => 'fan', 'FAN16G1274' => 'fan', 'FAN17G2988' => 'fan', 'FAN18G2621' => 'fan', 'FAN21G0013' => 'fan', 'FAN22G1211' => 'fan', 'FAN25G3626' => 'fan', 'FvH4_2g09491' => 'fve', 'FvH4_3g24910' => 'fve', 'FvH4_4g15630' => 'fve', 'FvH4_5g28820' => 'fve', 'Glyma.01G238000' => 'gma', 'Glyma.05G168400' => 'gma', 'Glyma.08G126800' => 'gma', 'Glyma.08G188500' => 'gma', 'Glyma.10G278900' => 'gma', 'Glyma.11G005700' => 'gma', 'Glyma.11G183300' => 'gma', 'Glyma.12G089200' => 'gma', 'Glyma.12G169400' => 'gma', 'Glyma.12G169500' => 'gma', 'Glyma.12G169600' => 'gma', 'Glyma.20G110800' => 'gma', 'Gohir.A03G192900' => 'ghi', 'Gohir.A03G193000' => 'ghi', 'Gohir.A05G080700' => 'ghi', 'Gohir.A09G216000' => 'ghi', 'Gohir.A12G027700' => 'ghi', 'Gohir.A13G036200' => 'ghi', 'Gohir.A13G222600' => 'ghi', 'Gohir.D02G213900' => 'ghi', 'Gohir.D02G214000' => 'ghi', 'Gohir.D05G083700' => 'ghi', 'Gohir.D05G083800' => 'ghi', 'Gohir.D05G083850' => 'ghi', 'Gohir.D08G015400' => 'ghi', 'Gohir.D09G218400' => 'ghi', 'Gohir.D12G027100' => 'ghi', 'Gohir.D13G034500' => 'ghi', 'Gohir.D13G227400' => 'ghi', 'Gorai.005G241800' => 'gra', 'Gorai.005G241900' => 'gra', 'Gorai.006G239400' => 'gra', 'Gorai.008G027600' => 'gra', 'Gorai.009G085400' => 'gra', 'Gorai.009G085500' => 'gra', 'Gorai.013G039000' => 'gra', 'Gorai.013G194800' => 'gra', 'Gorai.013G257900' => 'gra', 'GSVIVG01000982001' => 'vvi', 'GSVIVG01017981001' => 'vvi', 'HanXRQChr01g0024061' => 'han', 'HanXRQChr09g0247831' => 'han', 'HanXRQChr10g0294611' => 'han', 'HanXRQChr10g0294621' => 'han', 'HanXRQChr11g0346821' => 'han', 'HanXRQChr13g0397461' => 'han', 'HanXRQChr16g0513651' => 'han', 'HanXRQChr16g0513701' => 'han', 'Haze_00897' => 'cav', 'Haze_01745' => 'cav', 'Haze_02486' => 'cav', 'Haze_02487' => 'cav', 'Haze_23374' => 'cav', 'Hma1.2p1_0578F.1_g182520' => 'hma', 'Hma1.2p1_0602F.1_g187350' => 'hma', 'Hma1.2p1_0602F.1_g187360' => 'hma', 'Hma1.2p1_0874F.1_g231320' => 'hma', 'Hma1.2p1_1197F.1_g266210' => 'hma', 'Hma1.2p1_1197F.1_g266220' => 'hma', 'Hma1.2p1_2167F.1_g315895' => 'hma', 'Hma1.2p1_2190F.1_g316640' => 'hma', 'Hma1.2p1_3645F.1_g337153' => 'hma', 'HPP92_004907' => 'vpl', 'HPP92_012134' => 'vpl', 'HPP92_025136' => 'vpl', 'HPP92_026087' => 'vpl', 'Hund06782' => 'sun', 'Hund06784' => 'sun', 'Lalb_Chr01g0004861' => 'lal', 'Lalb_Chr02g0140591' => 'lal', 'Lalb_Chr02g0140611' => 'lal', 'Lalb_Chr03g0028101' => 'lal', 'Lalb_Chr07g0185791' => 'lal', 'Lalb_Chr12g0204491' => 'lal', 'Lalb_Chr13g0295671' => 'lal', 'Lalb_Chr19g0136461' => 'lal', 'Lalb_Chr21g0309191' => 'lal', 'Lj1g0028158' => 'lja', 'Lj1P236T38' => 'lonja', 'Lj2C32G2' => 'lonja', 'Lj2P944T8' => 'lonja', 'Lj2P963T15' => 'lonja', 'Lj3g0011788' => 'lja', 'Lj4g0025027' => 'lja', 'Lj5P255T36' => 'lonja', 'Lj6g0018866' => 'lja', 'Lj6P608T31' => 'lonja', 'LjContig00408g0008879' => 'lja', 'Lsat_1_v5_gn_5_105820' => 'lsa', 'Lsat_1_v5_gn_6_38800' => 'lsa', 'Lsat_1_v5_gn_7_67141' => 'lsa', 'Manes.04G003400' => 'mes', 'Manes.07G020000' => 'mes', 'Manes.07G020100' => 'mes', 'Manes.07G020150' => 'mes', 'Manes.10G061500' => 'mes', 'Manes.10G123200' => 'mes', 'Manes.11G161900' => 'mes', 'Manes.15G029300' => 'mes', 'Mapoly0071s0018' => 'mpo', 'Mapoly0082s0023' => 'mpo', 'Mapoly3477s0001' => 'mpo', 'MBI05_g31233_MAGBIO' => 'mbi', 'MBI09_g05946_MAGBIO' => 'mbi', 'MBI09_g05947_MAGBIO' => 'mbi', 'MBI17_g08346_MAGBIO' => 'mbi', 'MCO04G038' => 'mco', 'MCO09G370' => 'mco', 'MCO13G605' => 'mco', 'MD00G1075500' => 'mdo', 'MD03G1144300' => 'mdo', 'MD08G1236800' => 'mdo', 'MD13G1193300' => 'mdo', 'MD15G1428700' => 'mdo', 'Medtr1g112030' => 'mtr', 'Medtr1g112050' => 'mtr', 'Medtr2g006290' => 'mtr', 'Medtr2g086510' => 'mtr', 'Medtr4g053120' => 'mtr', 'Medtr5g006320' => 'mtr', 'Medtr8g088720' => 'mtr', 'MELO3C004712.2' => 'cme', 'MELO3C006533.2' => 'cme', 'MELO3C019438.2' => 'cme', 'MELO3C019440.2' => 'cme', 'MELO3C019441.2' => 'cme', 'MELO3C019895.2' => 'cme', 'Migut.B00811' => 'egut', 'Migut.D02447' => 'egut', 'Migut.F00875' => 'egut', 'Migut.N00186' => 'egut', 'Migut.N01051' => 'egut', 'Migut.N02491' => 'egut', 'Migut.O00784' => 'egut', 'MSTRG.12367' => 'ama', 'MSTRG.18756' => 'ama', 'MSTRG.21042' => 'ama', 'Nitab4.5_0000559g0040' => 'nta', 'Nitab4.5_0000667g0190' => 'nta', 'Nitab4.5_0000755g0160' => 'nta', 'Nitab4.5_0001216g0080' => 'nta', 'Nitab4.5_0004069g0040' => 'nta', 'Nitab4.5_0004129g0010' => 'nta', 'Nitab4.5_0005744g0030' => 'nta', 'Nitab4.5_0006996g0030' => 'nta', 'Nitab4.5_0008971g0040' => 'nta', 'Nitab4.5_0009769g0020' => 'nta', 'Nitab4.5_0009833g0010' => 'nta', 'Nitab4.5_0013140g0020' => 'nta', 'Nn003s41376' => 'nnu', 'Nn1g01857' => 'nnu', 'Nn1g03611' => 'nnu', 'Nn1g06853' => 'nnu', 'Nn3g18360' => 'nnu', 'Nn4g26328' => 'nnu', 'Nn5g27531' => 'nnu', 'Nn6g34899' => 'nnu', 'Nn7g36299' => 'nnu', 'Oeu021485.1' => 'oeu', 'Oeu022433.1' => 'oeu', 'Oeu032111.1' => 'oeu', 'Oeu051608.1' => 'oeu', 'Os01g0860601' => 'osa', 'Os03g0659200' => 'osa', 'Os03g0835900' => 'osa', 'Os04g0412200' => 'osa', 'Os05g0443500' => 'osa', 'Os07g0251500' => 'osa', 'Os08g0104600' => 'osa', 'Peaxi162Scf00003g00047' => 'pax', 'Peaxi162Scf00003g00052' => 'pax', 'Peaxi162Scf00003g00394' => 'pax', 'Peaxi162Scf00091g00621' => 'pax', 'Peaxi162Scf00152g00146' => 'pax', 'Peaxi162Scf00173g00025' => 'pax', 'Peaxi162Scf00195g00102' => 'pax', 'Peaxi162Scf00402g00013' => 'pax', 'Peaxi162Scf00519g00618' => 'pax', 'PGR004G2838' => 'pgr', 'PGR044G2275' => 'pgr', 'PGR102G1377' => 'pgr', 'PGR119G1245' => 'pgr', 'PGR142G4449' => 'pgr', 'PGSC0003DMG400004532' => 'stu', 'PGSC0003DMG400011950' => 'stu', 'PGSC0003DMG400023391' => 'stu', 'PGSC0003DMG400023985' => 'stu', 'PGSC0003DMG400026360' => 'stu', 'PGSC0003DMG400035711' => 'stu', 'PGSC0003DMG400037286' => 'stu', 'PGSC0003DMG402005881' => 'stu', 'Phvul.002G045400' => 'pvu', 'Phvul.006G216600' => 'pvu', 'Phvul.006G216700' => 'pvu', 'Phvul.006G216800' => 'pvu', 'Phvul.007G022500' => 'pvu', 'Phvul.011G094400' => 'pvu', 'Potri.001G470700' => 'ptr', 'Potri.003G015200' => 'ptr', 'Potri.004G202500' => 'ptr', 'Potri.004G218400' => 'ptr', 'Potri.008G020100' => 'ptr', 'Potri.008G153200' => 'ptr', 'Potri.009G163800' => 'ptr', 'Potri.010G087300' => 'ptr', 'Potri.010G239100' => 'ptr', 'Pp3c10_16100' => 'ppa', 'Pp3c10_16880' => 'ppa', 'Pp3c16_6230' => 'ppa', 'Pp3c17_18910' => 'ppa', 'Pp3c3_22119' => 'ppa', 'Pp3c3_22140' => 'ppa', 'Pp3c4_8159' => 'ppa', 'Pp3c4_8171' => 'ppa', 'Pp3c4_8330' => 'ppa', 'PRCOL_00004098' => 'pco', 'Prupe.1G013900' => 'ppe', 'Prupe.1G226300' => 'ppe', 'Prupe.1G573600' => 'ppe', 'Prupe.6G130100' => 'ppe', 'Psat3g090040' => 'psa', 'Psat4g210440' => 'psa', 'Psat6g231040' => 'psa', 'Psat6g231080' => 'psa', 'Psat7g063000' => 'psa', 'Psat7g188000' => 'psa', 'Psat7g188040' => 'psa', 'PSO017G0206' => 'pso', 'PSO170G0501' => 'pso', 'PSO170G6422' => 'pso', 'PSO210G7739' => 'pso', 'PSO339G1808' => 'pso', 'PSO339G6135' => 'pso', 'PSO384G0010' => 'pso', 'PSO384G0964' => 'pso', 'PSO761G0050' => 'pso', 'PSO782G4085' => 'pso', 'QL01p012264' => 'qlo', 'QL02p099491' => 'qlo', 'QL03p033868' => 'qlo', 'QL04p046678' => 'qlo', 'QL06p002448' => 'qlo', 'RcHm_v2.0_Chr4g0416181' => 'rch', 'RcHm_v2.0_Chr5g0044701' => 'rch', 'RcHm_v2.0_Chr6g0265781' => 'rch', 'RcHm_v2.0_Chr7g0221031' => 'rch', 'Rhsim04G0202000' => 'rsi', 'Rhsim11G0127300' => 'rsi', 'Rhsim13G0111800' => 'rsi', 'Sabra01G0165600' => 'sbr', 'Sabra03G0008300' => 'sbr', 'Sabra04G0136900' => 'sbr', 'Sabra08G0013400' => 'sbr', 'Sabra08G0116800' => 'sbr', 'Sabra09G0128000' => 'sbr', 'Sabra10G0055500' => 'sbr', 'Sabra10G0073300' => 'sbr', 'SalBow3G0385' => 'sbo', 'SalBow3G1119' => 'sbo', 'SalBow3G2005' => 'sbo', 'SalBow6G2563' => 'sbo', 'SalBow6G6386' => 'sbo', 'Sc06g0008800' => 'sci', 'Sc07g0004950' => 'sci', 'Sc09g0005340' => 'sci', 'Sc13g0004410' => 'sci', 'Sc21g0007090' => 'sci', 'Sed0009285' => 'sed', 'Sed0017583' => 'sed', 'Sed0019699' => 'sed', 'Sed0023107' => 'sed', 'SEGI_10916' => 'sgi', 'SEGI_16217' => 'sgi', 'SEGI_19466' => 'sgi', 'SEGI_41115' => 'sgi', 'SGA_v2.0_scaffold111G31534' => 'sas', 'SGA_v2.0_scaffold22G09864' => 'sas', 'SGA_v2.0_scaffold338G49219' => 'sas', 'SGA_v2.0_scaffold92G28298' => 'sas', 'SMO119G0064' => 'smo', 'SMO223G0038' => 'smo', 'SMO347G0584' => 'smo', 'SMO351G0010' => 'smo', 'SMO356G0404' => 'smo', 'Solyc01g103920.3' => 'sly', 'Solyc04g009710.2' => 'sly', 'Solyc05g055280.2' => 'sly', 'Solyc10g044520.3' => 'sly', 'Solyc10g075160.1' => 'sly', 'Solyc11g006910.3' => 'sly', 'Solyc11g068430.3' => 'sly', 'Sopen01g046310' => 'spe', 'Sopen03g001200' => 'spe', 'Sopen04g004830' => 'spe', 'Sopen05g033720' => 'spe', 'Sopen06g030740' => 'spe', 'Sopen10g013090' => 'spe', 'Sopen10g027630' => 'spe', 'Sopen10g027640' => 'spe', 'Sopen11g002820' => 'spe', 'Sopen11g027140' => 'spe', 'Sp1g09680' => 'spa', 'Sp2g03630' => 'spa', 'Sp4g10320' => 'spa', 'Sp6g33400' => 'spa', 'Sp7g13030' => 'spa', 'TAR365G0317' => 'tar', 'TAR376G0979' => 'tar', 'TAR623G1665' => 'tar', 'TAR633G2373' => 'tar', 'TAR636G1400' => 'tar', 'THA.LOC104800529' => 'tha', 'THA.LOC104808547' => 'tha', 'THA.LOC104809615' => 'tha', 'THA.LOC104815724' => 'tha', 'THA.LOC104818480' => 'tha', 'THA.LOC104819179' => 'tha', 'THA.LOC104822270' => 'tha', 'THA.LOC104826425' => 'tha', 'Thecc.02G089700' => 'tca', 'Thecc.04G232300' => 'tca', 'Thecc.09G283400' => 'tca', 'Thhalv10009020m.g' => 'esa', 'Thhalv10015506m.g' => 'esa', 'Thhalv10017364m.g' => 'esa', 'Thhalv10023742m.g' => 'esa', 'Thhalv10026483m.g' => 'esa', 'TPR.G17232' => 'tpr', 'TPR.G2133' => 'tpr', 'TPR.G2498' => 'tpr', 'TPR.G31942' => 'tpr', 'TPR.G37877' => 'tpr', 'TPR.G4571' => 'tpr', 'TWI14G1113' => 'twi', 'TWI15G0426' => 'twi', 'TWI31G1005' => 'twi', 'TWI38G0513' => 'twi', 'TWI38G1484' => 'twi', 'TWI73G1098' => 'twi', 'unitig_26.g10519' => 'ugi', 'unitig_736.g22395' => 'ugi', 'unitig_747.g21234' => 'ugi', 'unitig_747.g21942' => 'ugi', 'vmacro14351' => 'vma', 'VMungo0540G0082' => 'vmu', 'VMungo0540G0405' => 'vmu', 'VMungo0540G1486' => 'vmu', 'VMungo0540G1692' => 'vmu', 'VMungo0720G2473' => 'vmu', 'VMungo1127G1562' => 'vmu', 'VMungo1215G1918' => 'vmu', 'Zm00001eb052650' => 'zma', 'Zm00001eb063710' => 'zma', 'Zm00001eb083950' => 'zma', 'Zm00001eb174420' => 'zma', 'Zm00001eb260140' => 'zma', 'Zm00001eb260150' => 'zma', 'Zm00001eb260160' => 'zma', 'Zm00001eb348290' => 'zma', 'Zm00001eb366870' => 'zma', 'Zm00001eb421930' => 'zma' ), 'gf_id' => 'HOM05D001025', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001025' ), 'data_identifier' => 'HOM05D001025', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001025', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '592', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p22650' => 'bna', 'A01p29720' => 'bna', 'A03p26560' => 'bna', 'A03p68820' => 'bna', 'A04p20980' => 'bna', 'A06p07730' => 'bna', 'A07p18260' => 'bna', 'A08p33710' => 'bna', 'A09p16970' => 'bna', 'A10p27490' => 'bna', 'Aa31LG1G17300' => 'aar', 'Aa31LG1G3910' => 'aar', 'Aa31LG2G9630' => 'aar', 'Aa31LG5G8360' => 'aar', 'Aa31LG9G2410' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4699' => 'aag', 'Actinidia23512' => 'ach', 'Actinidia37080' => 'ach', 'Ah.01g020380' => 'amhyb', 'Ah.08g215710' => 'amhyb', 'Ah.09g225110' => 'amhyb', 'Ah.10g036680' => 'amhyb', 'AL1G21940' => 'aly', 'AL2G15540' => 'aly', 'AL4G21520' => 'aly', 'AL7G40960' => 'aly', 'Aqoxy2G01191' => 'aox', 'Aqoxy2G03393' => 'aox', 'Aqoxy4G02775' => 'aox', 'Aqoxy6G00058' => 'aox', 'arahy.Tifrunner.gnm1.ann1.9X74H2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CW3FX9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R485W7' => 'arhy', 'AT1G10960' => 'ath', 'AT1G60950' => 'ath', 'AT2G27510' => 'ath', 'AT4G14890' => 'ath', 'AT5G10000' => 'ath', 'ATR0665G624' => 'atr', 'ATR0697G138' => 'atr', 'ATR0776G046' => 'atr', 'ATR1134G135' => 'atr', 'Atru.chr12.1025' => 'acertr', 'Atru.chr3.3241' => 'acertr', 'Atru.chr4.2460' => 'acertr', 'AUR62007427' => 'cqu', 'AUR62010960' => 'cqu', 'AUR62012201' => 'cqu', 'AUR62021470' => 'cqu', 'AUR62022834' => 'cqu', 'AUR62033635' => 'cqu', 'AUR62036186' => 'cqu', 'BcaB01g03077' => 'bca', 'BcaB02g10093' => 'bca', 'BcaB04g20295' => 'bca', 'BcaB06g28147' => 'bca', 'BcaB07g31253' => 'bca', 'BcaC01g04946' => 'bca', 'BcaC02g10614' => 'bca', 'BcaC02g10885' => 'bca', 'BcaC04g19356' => 'bca', 'BcaC04g22297' => 'bca', 'BcaC05g24977' => 'bca', 'BcaC06g31823' => 'bca', 'BcaC07g38633' => 'bca', 'BcaC09g49353' => 'bca', 'BcaC09g50168' => 'bca', 'BcaNung00322' => 'bca', 'BcaNung04769' => 'bca', 'BolC1t02753H' => 'bol', 'BolC1t03721H' => 'bol', 'BolC3t15525H' => 'bol', 'BolC4t23903H' => 'bol', 'BolC4t24231H' => 'bol', 'BolC4t27209H' => 'bol', 'BolC5t29671H' => 'bol', 'BolC8t49044H' => 'bol', 'BolC9t54999H' => 'bol', 'BolC9t59517H' => 'bol', 'BraA01t02178Z' => 'bra', 'BraA01t03099Z' => 'bra', 'BraA03t11867Z' => 'bra', 'BraA04t17667Z' => 'bra', 'BraA07t29542Z' => 'bra', 'BraA08t35287Z' => 'bra', 'BraA09t37334Z' => 'bra', 'BraA10t44801Z' => 'bra', 'BraSC39t46181Z' => 'bra', 'C01p28240' => 'bna', 'C01p37530' => 'bna', 'C03p31820' => 'bna', 'C04p24080' => 'bna', 'C04p25790' => 'bna', 'C04p56770' => 'bna', 'C05p09310' => 'bna', 'C09p21010' => 'bna', 'C09p67560' => 'bna', 'CAN.G1324.7' => 'can', 'CAN.G1358.10' => 'can', 'CAN.G1550.2' => 'can', 'CAN.G186.56' => 'can', 'CAN.G1965.1' => 'can', 'CAN.G645.15' => 'can', 'CAN.G798.26' => 'can', 'CAN.G798.27' => 'can', 'CAN.G798.29' => 'can', 'CAN.G919.31' => 'can', 'CANSAT11G0133' => 'cansat', 'CANSAT11G1171' => 'cansat', 'CANSAT11G2056' => 'cansat', 'CANSAT56G1202' => 'cansat', 'CANSAT56G1514' => 'cansat', 'CANSAT78G0455' => 'cansat', 'CARHR011190' => 'chi', 'CARHR051980' => 'chi', 'CARHR120170' => 'chi', 'CARHR203310' => 'chi', 'CARHR221490' => 'chi', 'Carub.0001s1054' => 'cru', 'Carub.0002s0431' => 'cru', 'Carub.0004s0818' => 'cru', 'Carub.0006s0846' => 'cru', 'Carub.0007s2722' => 'cru', 'Ca_00058_v3' => 'car', 'Ca_17831_v3' => 'car', 'Ca_19408_v3' => 'car', 'Ca_24397_v3' => 'car', 'Ca_25664_v3' => 'car', 'CBR_g21818' => 'cbr', 'CBR_g31195' => 'cbr', 'CBR_g32282' => 'cbr', 'CBR_g39599' => 'cbr', 'CBR_g49410' => 'cbr', 'Cc01_g09120' => 'ccan', 'Cc01_g09130' => 'ccan', 'Cc02_g09630' => 'ccan', 'Cc02_g22810' => 'ccan', 'Cc03_g03810' => 'ccan', 'CDE02G3718' => 'cde', 'CDE04G3183' => 'cde', 'CDE07G1046' => 'cde', 'CDE08G0480' => 'cde', 'Cfa005493' => 'cfa', 'Cfa010312' => 'cfa', 'Cfa015648' => 'cfa', 'Ciclev10002793m.g' => 'ccl', 'Ciclev10003356m.g' => 'ccl', 'Ciclev10006141m.g' => 'ccl', 'Ciclev10016676m.g' => 'ccl', 'Ciclev10017081m.g' => 'ccl', 'Ciclev10029499m.g' => 'ccl', 'CiPaw.01G166300' => 'cil', 'CiPaw.06G145600' => 'cil', 'CiPaw.13G040100' => 'cil', 'CiPaw.13G135800' => 'cil', 'ClCG01G012230' => 'cla', 'ClCG05G009510' => 'cla', 'ClCG08G008270' => 'cla', 'COL.COLO4_11763' => 'col', 'COL.COLO4_19876' => 'col', 'COL.COLO4_21481' => 'col', 'Cpa.g.sc118.34' => 'cpa', 'Cpa.g.sc32.13' => 'cpa', 'Cpa.g.sc58.103' => 'cpa', 'Cre03.g183850' => 'cre', 'Cre06.g306350' => 'cre', 'Cre07.g334800' => 'cre', 'Cre12.g487900' => 'cre', 'Cre14.g626700' => 'cre', 'Cre16.g658400' => 'cre', 'Cre17.g700950' => 'cre', 'CsaV3_1G014830' => 'csa', 'CsaV3_3G013320' => 'csa', 'CsaV3_3G019210' => 'csa', 'CsaV3_3G019220' => 'csa', 'CsaV3_6G004230' => 'csa', 'CSS0003773' => 'camsi', 'CSS0004563' => 'camsi', 'CSS0013949' => 'camsi', 'CSS0025971' => 'camsi', 'CSS0028570' => 'camsi', 'CSS0033127' => 'camsi', 'CSS0036051' => 'camsi', 'CSS0040087' => 'camsi', 'CSS0043179' => 'camsi', 'DCAR_006161' => 'dca', 'DCAR_010351' => 'dca', 'DCAR_012197' => 'dca', 'DCAR_024162' => 'dca', 'Dinv01030' => 'din', 'Dinv10924' => 'din', 'Dinv11835' => 'din', 'Dinv22841' => 'din', 'Dinv42553' => 'din', 'Duzib052G0560' => 'dzi', 'Duzib132G0389' => 'dzi', 'Duzib150G1181' => 'dzi', 'Duzib168G0623' => 'dzi', 'Duzib170G1036' => 'dzi', 'Duzib212G0200' => 'dzi', 'Duzib248G0194' => 'dzi', 'ECA232G2193' => 'eca', 'ECA233G0302' => 'eca', 'ECA234G2813' => 'eca', 'ECA234G4866' => 'eca', 'ECA240G3932' => 'eca', 'ECA248G0385' => 'eca', 'EL10Ac2g04781' => 'bvu', 'EL10Ac3g06445' => 'bvu', 'EL10Ac7g15825' => 'bvu', 'EL10Ac8g18550' => 'bvu', 'Eucgr.B03849' => 'egr', 'Eucgr.I02744' => 'egr', 'Eucgr.J00264' => 'egr', 'Eucgr.J00493' => 'egr', 'FAN04G2181' => 'fan', 'FAN07G2666' => 'fan', 'FAN11G0024' => 'fan', 'FAN12G1105' => 'fan', 'FAN13G0302' => 'fan', 'FAN15G2781' => 'fan', 'FAN16G1274' => 'fan', 'FAN17G2988' => 'fan', 'FAN18G2621' => 'fan', 'FAN21G0013' => 'fan', 'FAN22G1211' => 'fan', 'FAN25G3626' => 'fan', 'FvH4_2g09491' => 'fve', 'FvH4_3g24910' => 'fve', 'FvH4_4g15630' => 'fve', 'FvH4_5g28820' => 'fve', 'Glyma.01G238000' => 'gma', 'Glyma.05G168400' => 'gma', 'Glyma.08G126800' => 'gma', 'Glyma.08G188500' => 'gma', 'Glyma.10G278900' => 'gma', 'Glyma.11G005700' => 'gma', 'Glyma.11G183300' => 'gma', 'Glyma.12G089200' => 'gma', 'Glyma.12G169400' => 'gma', 'Glyma.12G169500' => 'gma', 'Glyma.12G169600' => 'gma', 'Glyma.20G110800' => 'gma', 'Gohir.A03G192900' => 'ghi', 'Gohir.A03G193000' => 'ghi', 'Gohir.A05G080700' => 'ghi', 'Gohir.A09G216000' => 'ghi', 'Gohir.A12G027700' => 'ghi', 'Gohir.A13G036200' => 'ghi', 'Gohir.A13G222600' => 'ghi', 'Gohir.D02G213900' => 'ghi', 'Gohir.D02G214000' => 'ghi', 'Gohir.D05G083700' => 'ghi', 'Gohir.D05G083800' => 'ghi', 'Gohir.D05G083850' => 'ghi', 'Gohir.D08G015400' => 'ghi', 'Gohir.D09G218400' => 'ghi', 'Gohir.D12G027100' => 'ghi', 'Gohir.D13G034500' => 'ghi', 'Gohir.D13G227400' => 'ghi', 'Gorai.005G241800' => 'gra', 'Gorai.005G241900' => 'gra', 'Gorai.006G239400' => 'gra', 'Gorai.008G027600' => 'gra', 'Gorai.009G085400' => 'gra', 'Gorai.009G085500' => 'gra', 'Gorai.013G039000' => 'gra', 'Gorai.013G194800' => 'gra', 'Gorai.013G257900' => 'gra', 'GSVIVG01000982001' => 'vvi', 'GSVIVG01017981001' => 'vvi', 'HanXRQChr01g0024061' => 'han', 'HanXRQChr09g0247831' => 'han', 'HanXRQChr10g0294611' => 'han', 'HanXRQChr10g0294621' => 'han', 'HanXRQChr11g0346821' => 'han', 'HanXRQChr13g0397461' => 'han', 'HanXRQChr16g0513651' => 'han', 'HanXRQChr16g0513701' => 'han', 'Haze_00897' => 'cav', 'Haze_01745' => 'cav', 'Haze_02486' => 'cav', 'Haze_02487' => 'cav', 'Haze_23374' => 'cav', 'Hma1.2p1_0578F.1_g182520' => 'hma', 'Hma1.2p1_0602F.1_g187350' => 'hma', 'Hma1.2p1_0602F.1_g187360' => 'hma', 'Hma1.2p1_0874F.1_g231320' => 'hma', 'Hma1.2p1_1197F.1_g266210' => 'hma', 'Hma1.2p1_1197F.1_g266220' => 'hma', 'Hma1.2p1_2167F.1_g315895' => 'hma', 'Hma1.2p1_2190F.1_g316640' => 'hma', 'Hma1.2p1_3645F.1_g337153' => 'hma', 'HPP92_004907' => 'vpl', 'HPP92_012134' => 'vpl', 'HPP92_025136' => 'vpl', 'HPP92_026087' => 'vpl', 'Hund06782' => 'sun', 'Hund06784' => 'sun', 'Lalb_Chr01g0004861' => 'lal', 'Lalb_Chr02g0140591' => 'lal', 'Lalb_Chr02g0140611' => 'lal', 'Lalb_Chr03g0028101' => 'lal', 'Lalb_Chr07g0185791' => 'lal', 'Lalb_Chr12g0204491' => 'lal', 'Lalb_Chr13g0295671' => 'lal', 'Lalb_Chr19g0136461' => 'lal', 'Lalb_Chr21g0309191' => 'lal', 'Lj1g0028158' => 'lja', 'Lj1P236T38' => 'lonja', 'Lj2C32G2' => 'lonja', 'Lj2P944T8' => 'lonja', 'Lj2P963T15' => 'lonja', 'Lj3g0011788' => 'lja', 'Lj4g0025027' => 'lja', 'Lj5P255T36' => 'lonja', 'Lj6g0018866' => 'lja', 'Lj6P608T31' => 'lonja', 'LjContig00408g0008879' => 'lja', 'Lsat_1_v5_gn_5_105820' => 'lsa', 'Lsat_1_v5_gn_6_38800' => 'lsa', 'Lsat_1_v5_gn_7_67141' => 'lsa', 'Manes.04G003400' => 'mes', 'Manes.07G020000' => 'mes', 'Manes.07G020100' => 'mes', 'Manes.07G020150' => 'mes', 'Manes.10G061500' => 'mes', 'Manes.10G123200' => 'mes', 'Manes.11G161900' => 'mes', 'Manes.15G029300' => 'mes', 'Mapoly0071s0018' => 'mpo', 'Mapoly0082s0023' => 'mpo', 'Mapoly3477s0001' => 'mpo', 'MBI05_g31233_MAGBIO' => 'mbi', 'MBI09_g05946_MAGBIO' => 'mbi', 'MBI09_g05947_MAGBIO' => 'mbi', 'MBI17_g08346_MAGBIO' => 'mbi', 'MCO04G038' => 'mco', 'MCO09G370' => 'mco', 'MCO13G605' => 'mco', 'MD00G1075500' => 'mdo', 'MD03G1144300' => 'mdo', 'MD08G1236800' => 'mdo', 'MD13G1193300' => 'mdo', 'MD15G1428700' => 'mdo', 'Medtr1g112030' => 'mtr', 'Medtr1g112050' => 'mtr', 'Medtr2g006290' => 'mtr', 'Medtr2g086510' => 'mtr', 'Medtr4g053120' => 'mtr', 'Medtr5g006320' => 'mtr', 'Medtr8g088720' => 'mtr', 'MELO3C004712.2' => 'cme', 'MELO3C006533.2' => 'cme', 'MELO3C019438.2' => 'cme', 'MELO3C019440.2' => 'cme', 'MELO3C019441.2' => 'cme', 'MELO3C019895.2' => 'cme', 'Migut.B00811' => 'egut', 'Migut.D02447' => 'egut', 'Migut.F00875' => 'egut', 'Migut.N00186' => 'egut', 'Migut.N01051' => 'egut', 'Migut.N02491' => 'egut', 'Migut.O00784' => 'egut', 'MSTRG.12367' => 'ama', 'MSTRG.18756' => 'ama', 'MSTRG.21042' => 'ama', 'Nitab4.5_0000559g0040' => 'nta', 'Nitab4.5_0000667g0190' => 'nta', 'Nitab4.5_0000755g0160' => 'nta', 'Nitab4.5_0001216g0080' => 'nta', 'Nitab4.5_0004069g0040' => 'nta', 'Nitab4.5_0004129g0010' => 'nta', 'Nitab4.5_0005744g0030' => 'nta', 'Nitab4.5_0006996g0030' => 'nta', 'Nitab4.5_0008971g0040' => 'nta', 'Nitab4.5_0009769g0020' => 'nta', 'Nitab4.5_0009833g0010' => 'nta', 'Nitab4.5_0013140g0020' => 'nta', 'Nn003s41376' => 'nnu', 'Nn1g01857' => 'nnu', 'Nn1g03611' => 'nnu', 'Nn1g06853' => 'nnu', 'Nn3g18360' => 'nnu', 'Nn4g26328' => 'nnu', 'Nn5g27531' => 'nnu', 'Nn6g34899' => 'nnu', 'Nn7g36299' => 'nnu', 'Oeu021485.1' => 'oeu', 'Oeu022433.1' => 'oeu', 'Oeu032111.1' => 'oeu', 'Oeu051608.1' => 'oeu', 'Os01g0860601' => 'osa', 'Os03g0659200' => 'osa', 'Os03g0835900' => 'osa', 'Os04g0412200' => 'osa', 'Os05g0443500' => 'osa', 'Os07g0251500' => 'osa', 'Os08g0104600' => 'osa', 'Peaxi162Scf00003g00047' => 'pax', 'Peaxi162Scf00003g00052' => 'pax', 'Peaxi162Scf00003g00394' => 'pax', 'Peaxi162Scf00091g00621' => 'pax', 'Peaxi162Scf00152g00146' => 'pax', 'Peaxi162Scf00173g00025' => 'pax', 'Peaxi162Scf00195g00102' => 'pax', 'Peaxi162Scf00402g00013' => 'pax', 'Peaxi162Scf00519g00618' => 'pax', 'PGR004G2838' => 'pgr', 'PGR044G2275' => 'pgr', 'PGR102G1377' => 'pgr', 'PGR119G1245' => 'pgr', 'PGR142G4449' => 'pgr', 'PGSC0003DMG400004532' => 'stu', 'PGSC0003DMG400011950' => 'stu', 'PGSC0003DMG400023391' => 'stu', 'PGSC0003DMG400023985' => 'stu', 'PGSC0003DMG400026360' => 'stu', 'PGSC0003DMG400035711' => 'stu', 'PGSC0003DMG400037286' => 'stu', 'PGSC0003DMG402005881' => 'stu', 'Phvul.002G045400' => 'pvu', 'Phvul.006G216600' => 'pvu', 'Phvul.006G216700' => 'pvu', 'Phvul.006G216800' => 'pvu', 'Phvul.007G022500' => 'pvu', 'Phvul.011G094400' => 'pvu', 'Potri.001G470700' => 'ptr', 'Potri.003G015200' => 'ptr', 'Potri.004G202500' => 'ptr', 'Potri.004G218400' => 'ptr', 'Potri.008G020100' => 'ptr', 'Potri.008G153200' => 'ptr', 'Potri.009G163800' => 'ptr', 'Potri.010G087300' => 'ptr', 'Potri.010G239100' => 'ptr', 'Pp3c10_16100' => 'ppa', 'Pp3c10_16880' => 'ppa', 'Pp3c16_6230' => 'ppa', 'Pp3c17_18910' => 'ppa', 'Pp3c3_22119' => 'ppa', 'Pp3c3_22140' => 'ppa', 'Pp3c4_8159' => 'ppa', 'Pp3c4_8171' => 'ppa', 'Pp3c4_8330' => 'ppa', 'PRCOL_00004098' => 'pco', 'Prupe.1G013900' => 'ppe', 'Prupe.1G226300' => 'ppe', 'Prupe.1G573600' => 'ppe', 'Prupe.6G130100' => 'ppe', 'Psat3g090040' => 'psa', 'Psat4g210440' => 'psa', 'Psat6g231040' => 'psa', 'Psat6g231080' => 'psa', 'Psat7g063000' => 'psa', 'Psat7g188000' => 'psa', 'Psat7g188040' => 'psa', 'PSO017G0206' => 'pso', 'PSO170G0501' => 'pso', 'PSO170G6422' => 'pso', 'PSO210G7739' => 'pso', 'PSO339G1808' => 'pso', 'PSO339G6135' => 'pso', 'PSO384G0010' => 'pso', 'PSO384G0964' => 'pso', 'PSO761G0050' => 'pso', 'PSO782G4085' => 'pso', 'QL01p012264' => 'qlo', 'QL02p099491' => 'qlo', 'QL03p033868' => 'qlo', 'QL04p046678' => 'qlo', 'QL06p002448' => 'qlo', 'RcHm_v2.0_Chr4g0416181' => 'rch', 'RcHm_v2.0_Chr5g0044701' => 'rch', 'RcHm_v2.0_Chr6g0265781' => 'rch', 'RcHm_v2.0_Chr7g0221031' => 'rch', 'Rhsim04G0202000' => 'rsi', 'Rhsim11G0127300' => 'rsi', 'Rhsim13G0111800' => 'rsi', 'Sabra01G0165600' => 'sbr', 'Sabra03G0008300' => 'sbr', 'Sabra04G0136900' => 'sbr', 'Sabra08G0013400' => 'sbr', 'Sabra08G0116800' => 'sbr', 'Sabra09G0128000' => 'sbr', 'Sabra10G0055500' => 'sbr', 'Sabra10G0073300' => 'sbr', 'SalBow3G0385' => 'sbo', 'SalBow3G1119' => 'sbo', 'SalBow3G2005' => 'sbo', 'SalBow6G2563' => 'sbo', 'SalBow6G6386' => 'sbo', 'Sc06g0008800' => 'sci', 'Sc07g0004950' => 'sci', 'Sc09g0005340' => 'sci', 'Sc13g0004410' => 'sci', 'Sc21g0007090' => 'sci', 'Sed0009285' => 'sed', 'Sed0017583' => 'sed', 'Sed0019699' => 'sed', 'Sed0023107' => 'sed', 'SEGI_10916' => 'sgi', 'SEGI_16217' => 'sgi', 'SEGI_19466' => 'sgi', 'SEGI_41115' => 'sgi', 'SGA_v2.0_scaffold111G31534' => 'sas', 'SGA_v2.0_scaffold22G09864' => 'sas', 'SGA_v2.0_scaffold338G49219' => 'sas', 'SGA_v2.0_scaffold92G28298' => 'sas', 'SMO119G0064' => 'smo', 'SMO223G0038' => 'smo', 'SMO347G0584' => 'smo', 'SMO351G0010' => 'smo', 'SMO356G0404' => 'smo', 'Solyc01g103920.3' => 'sly', 'Solyc04g009710.2' => 'sly', 'Solyc05g055280.2' => 'sly', 'Solyc10g044520.3' => 'sly', 'Solyc10g075160.1' => 'sly', 'Solyc11g006910.3' => 'sly', 'Solyc11g068430.3' => 'sly', 'Sopen01g046310' => 'spe', 'Sopen03g001200' => 'spe', 'Sopen04g004830' => 'spe', 'Sopen05g033720' => 'spe', 'Sopen06g030740' => 'spe', 'Sopen10g013090' => 'spe', 'Sopen10g027630' => 'spe', 'Sopen10g027640' => 'spe', 'Sopen11g002820' => 'spe', 'Sopen11g027140' => 'spe', 'Sp1g09680' => 'spa', 'Sp2g03630' => 'spa', 'Sp4g10320' => 'spa', 'Sp6g33400' => 'spa', 'Sp7g13030' => 'spa', 'TAR365G0317' => 'tar', 'TAR376G0979' => 'tar', 'TAR623G1665' => 'tar', 'TAR633G2373' => 'tar', 'TAR636G1400' => 'tar', 'THA.LOC104800529' => 'tha', 'THA.LOC104808547' => 'tha', 'THA.LOC104809615' => 'tha', 'THA.LOC104815724' => 'tha', 'THA.LOC104818480' => 'tha', 'THA.LOC104819179' => 'tha', 'THA.LOC104822270' => 'tha', 'THA.LOC104826425' => 'tha', 'Thecc.02G089700' => 'tca', 'Thecc.04G232300' => 'tca', 'Thecc.09G283400' => 'tca', 'Thhalv10009020m.g' => 'esa', 'Thhalv10015506m.g' => 'esa', 'Thhalv10017364m.g' => 'esa', 'Thhalv10023742m.g' => 'esa', 'Thhalv10026483m.g' => 'esa', 'TPR.G17232' => 'tpr', 'TPR.G2133' => 'tpr', 'TPR.G2498' => 'tpr', 'TPR.G31942' => 'tpr', 'TPR.G37877' => 'tpr', 'TPR.G4571' => 'tpr', 'TWI14G1113' => 'twi', 'TWI15G0426' => 'twi', 'TWI31G1005' => 'twi', 'TWI38G0513' => 'twi', 'TWI38G1484' => 'twi', 'TWI73G1098' => 'twi', 'unitig_26.g10519' => 'ugi', 'unitig_736.g22395' => 'ugi', 'unitig_747.g21234' => 'ugi', 'unitig_747.g21942' => 'ugi', 'vmacro14351' => 'vma', 'VMungo0540G0082' => 'vmu', 'VMungo0540G0405' => 'vmu', 'VMungo0540G1486' => 'vmu', 'VMungo0540G1692' => 'vmu', 'VMungo0720G2473' => 'vmu', 'VMungo1127G1562' => 'vmu', 'VMungo1215G1918' => 'vmu', 'Zm00001eb052650' => 'zma', 'Zm00001eb063710' => 'zma', 'Zm00001eb083950' => 'zma', 'Zm00001eb174420' => 'zma', 'Zm00001eb260140' => 'zma', 'Zm00001eb260150' => 'zma', 'Zm00001eb260160' => 'zma', 'Zm00001eb348290' => 'zma', 'Zm00001eb366870' => 'zma', 'Zm00001eb421930' => 'zma' ) $gf_id = 'HOM05D001025' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001025' ) $data_identifier = 'HOM05D001025' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 19, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 2, 'amhyb' => (int) 4, 'aly' => (int) 4, 'aox' => (int) 4, 'arhy' => (int) 3, 'ath' => (int) 5, 'atr' => (int) 4, 'acertr' => (int) 3, 'cqu' => (int) 7, 'bca' => (int) 17, 'bol' => (int) 10, 'bra' => (int) 9, 'can' => (int) 10, 'cansat' => (int) 6, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 5, 'cbr' => (int) 5, 'ccan' => (int) 5, 'cde' => (int) 4, 'cfa' => (int) 3, 'ccl' => (int) 6, 'cil' => (int) 4, 'cla' => (int) 3, 'col' => (int) 3, 'cpa' => (int) 3, 'cre' => (int) 7, 'csa' => (int) 5, 'camsi' => (int) 9, 'dca' => (int) 4, 'din' => (int) 5, 'dzi' => (int) 7, 'eca' => (int) 6, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 12, 'fve' => (int) 4, 'gma' => (int) 12, 'ghi' => (int) 17, 'gra' => (int) 9, 'vvi' => (int) 2, 'han' => (int) 8, 'cav' => (int) 5, 'hma' => (int) 9, 'vpl' => (int) 4, 'sun' => (int) 2, 'lal' => (int) 9, 'lja' => (int) 5, 'lonja' => (int) 6, 'lsa' => (int) 3, 'mes' => (int) 8, 'mpo' => (int) 3, 'mbi' => (int) 4, 'mco' => (int) 3, 'mdo' => (int) 5, 'mtr' => (int) 7, 'cme' => (int) 6, 'egut' => (int) 7, 'ama' => (int) 3, 'nta' => (int) 12, 'nnu' => (int) 9, 'oeu' => (int) 4, 'osa' => (int) 7, 'pax' => (int) 9, 'pgr' => (int) 5, 'stu' => (int) 8, 'pvu' => (int) 6, 'ptr' => (int) 9, 'ppa' => (int) 9, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 7, 'pso' => (int) 10, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 3, 'sbr' => (int) 8, 'sbo' => (int) 5, 'sci' => (int) 5, 'sed' => (int) 4, 'sgi' => (int) 4, 'sas' => (int) 4, 'smo' => (int) 5, 'sly' => (int) 7, 'spe' => (int) 10, 'spa' => (int) 5, 'tar' => (int) 5, 'tha' => (int) 8, 'tca' => (int) 3, 'esa' => (int) 5, 'tpr' => (int) 6, 'twi' => (int) 6, 'ugi' => (int) 4, 'vma' => (int) 1, 'vmu' => (int) 7, 'zma' => (int) 10 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb421930' $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' => 'HOM05D001025', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '592', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p22650' => 'bna', 'A01p29720' => 'bna', 'A03p26560' => 'bna', 'A03p68820' => 'bna', 'A04p20980' => 'bna', 'A06p07730' => 'bna', 'A07p18260' => 'bna', 'A08p33710' => 'bna', 'A09p16970' => 'bna', 'A10p27490' => 'bna', 'Aa31LG1G17300' => 'aar', 'Aa31LG1G3910' => 'aar', 'Aa31LG2G9630' => 'aar', 'Aa31LG5G8360' => 'aar', 'Aa31LG9G2410' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4699' => 'aag', 'Actinidia23512' => 'ach', 'Actinidia37080' => 'ach', 'Ah.01g020380' => 'amhyb', 'Ah.08g215710' => 'amhyb', 'Ah.09g225110' => 'amhyb', 'Ah.10g036680' => 'amhyb', 'AL1G21940' => 'aly', 'AL2G15540' => 'aly', 'AL4G21520' => 'aly', 'AL7G40960' => 'aly', 'Aqoxy2G01191' => 'aox', 'Aqoxy2G03393' => 'aox', 'Aqoxy4G02775' => 'aox', 'Aqoxy6G00058' => 'aox', 'arahy.Tifrunner.gnm1.ann1.9X74H2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CW3FX9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R485W7' => 'arhy', 'AT1G10960' => 'ath', 'AT1G60950' => 'ath', 'AT2G27510' => 'ath', 'AT4G14890' => 'ath', 'AT5G10000' => 'ath', 'ATR0665G624' => 'atr', 'ATR0697G138' => 'atr', 'ATR0776G046' => 'atr', 'ATR1134G135' => 'atr', 'Atru.chr12.1025' => 'acertr', 'Atru.chr3.3241' => 'acertr', 'Atru.chr4.2460' => 'acertr', 'AUR62007427' => 'cqu', 'AUR62010960' => 'cqu', 'AUR62012201' => 'cqu', 'AUR62021470' => 'cqu', 'AUR62022834' => 'cqu', 'AUR62033635' => 'cqu', 'AUR62036186' => 'cqu', 'BcaB01g03077' => 'bca', 'BcaB02g10093' => 'bca', 'BcaB04g20295' => 'bca', 'BcaB06g28147' => 'bca', 'BcaB07g31253' => 'bca', 'BcaC01g04946' => 'bca', 'BcaC02g10614' => 'bca', 'BcaC02g10885' => 'bca', 'BcaC04g19356' => 'bca', 'BcaC04g22297' => 'bca', 'BcaC05g24977' => 'bca', 'BcaC06g31823' => 'bca', 'BcaC07g38633' => 'bca', 'BcaC09g49353' => 'bca', 'BcaC09g50168' => 'bca', 'BcaNung00322' => 'bca', 'BcaNung04769' => 'bca', 'BolC1t02753H' => 'bol', 'BolC1t03721H' => 'bol', 'BolC3t15525H' => 'bol', 'BolC4t23903H' => 'bol', 'BolC4t24231H' => 'bol', 'BolC4t27209H' => 'bol', 'BolC5t29671H' => 'bol', 'BolC8t49044H' => 'bol', 'BolC9t54999H' => 'bol', 'BolC9t59517H' => 'bol', 'BraA01t02178Z' => 'bra', 'BraA01t03099Z' => 'bra', 'BraA03t11867Z' => 'bra', 'BraA04t17667Z' => 'bra', 'BraA07t29542Z' => 'bra', 'BraA08t35287Z' => 'bra', 'BraA09t37334Z' => 'bra', 'BraA10t44801Z' => 'bra', 'BraSC39t46181Z' => 'bra', 'C01p28240' => 'bna', 'C01p37530' => 'bna', 'C03p31820' => 'bna', 'C04p24080' => 'bna', 'C04p25790' => 'bna', 'C04p56770' => 'bna', 'C05p09310' => 'bna', 'C09p21010' => 'bna', 'C09p67560' => 'bna', 'CAN.G1324.7' => 'can', 'CAN.G1358.10' => 'can', 'CAN.G1550.2' => 'can', 'CAN.G186.56' => 'can', 'CAN.G1965.1' => 'can', 'CAN.G645.15' => 'can', 'CAN.G798.26' => 'can', 'CAN.G798.27' => 'can', 'CAN.G798.29' => 'can', 'CAN.G919.31' => 'can', 'CANSAT11G0133' => 'cansat', 'CANSAT11G1171' => 'cansat', 'CANSAT11G2056' => 'cansat', 'CANSAT56G1202' => 'cansat', 'CANSAT56G1514' => 'cansat', 'CANSAT78G0455' => 'cansat', 'CARHR011190' => 'chi', 'CARHR051980' => 'chi', 'CARHR120170' => 'chi', 'CARHR203310' => 'chi', 'CARHR221490' => 'chi', 'Carub.0001s1054' => 'cru', 'Carub.0002s0431' => 'cru', 'Carub.0004s0818' => 'cru', 'Carub.0006s0846' => 'cru', 'Carub.0007s2722' => 'cru', 'Ca_00058_v3' => 'car', 'Ca_17831_v3' => 'car', 'Ca_19408_v3' => 'car', 'Ca_24397_v3' => 'car', 'Ca_25664_v3' => 'car', 'CBR_g21818' => 'cbr', 'CBR_g31195' => 'cbr', 'CBR_g32282' => 'cbr', 'CBR_g39599' => 'cbr', 'CBR_g49410' => 'cbr', 'Cc01_g09120' => 'ccan', 'Cc01_g09130' => 'ccan', 'Cc02_g09630' => 'ccan', 'Cc02_g22810' => 'ccan', 'Cc03_g03810' => 'ccan', 'CDE02G3718' => 'cde', 'CDE04G3183' => 'cde', 'CDE07G1046' => 'cde', 'CDE08G0480' => 'cde', 'Cfa005493' => 'cfa', 'Cfa010312' => 'cfa', 'Cfa015648' => 'cfa', 'Ciclev10002793m.g' => 'ccl', 'Ciclev10003356m.g' => 'ccl', 'Ciclev10006141m.g' => 'ccl', 'Ciclev10016676m.g' => 'ccl', 'Ciclev10017081m.g' => 'ccl', 'Ciclev10029499m.g' => 'ccl', 'CiPaw.01G166300' => 'cil', 'CiPaw.06G145600' => 'cil', 'CiPaw.13G040100' => 'cil', 'CiPaw.13G135800' => 'cil', 'ClCG01G012230' => 'cla', 'ClCG05G009510' => 'cla', 'ClCG08G008270' => 'cla', 'COL.COLO4_11763' => 'col', 'COL.COLO4_19876' => 'col', 'COL.COLO4_21481' => 'col', 'Cpa.g.sc118.34' => 'cpa', 'Cpa.g.sc32.13' => 'cpa', 'Cpa.g.sc58.103' => 'cpa', 'Cre03.g183850' => 'cre', 'Cre06.g306350' => 'cre', 'Cre07.g334800' => 'cre', 'Cre12.g487900' => 'cre', 'Cre14.g626700' => 'cre', 'Cre16.g658400' => 'cre', 'Cre17.g700950' => 'cre', 'CsaV3_1G014830' => 'csa', 'CsaV3_3G013320' => 'csa', 'CsaV3_3G019210' => 'csa', 'CsaV3_3G019220' => 'csa', 'CsaV3_6G004230' => 'csa', 'CSS0003773' => 'camsi', 'CSS0004563' => 'camsi', 'CSS0013949' => 'camsi', 'CSS0025971' => 'camsi', 'CSS0028570' => 'camsi', 'CSS0033127' => 'camsi', 'CSS0036051' => 'camsi', 'CSS0040087' => 'camsi', 'CSS0043179' => 'camsi', 'DCAR_006161' => 'dca', 'DCAR_010351' => 'dca', 'DCAR_012197' => 'dca', 'DCAR_024162' => 'dca', 'Dinv01030' => 'din', 'Dinv10924' => 'din', 'Dinv11835' => 'din', 'Dinv22841' => 'din', 'Dinv42553' => 'din', 'Duzib052G0560' => 'dzi', 'Duzib132G0389' => 'dzi', 'Duzib150G1181' => 'dzi', 'Duzib168G0623' => 'dzi', 'Duzib170G1036' => 'dzi', 'Duzib212G0200' => 'dzi', 'Duzib248G0194' => 'dzi', 'ECA232G2193' => 'eca', 'ECA233G0302' => 'eca', 'ECA234G2813' => 'eca', 'ECA234G4866' => 'eca', 'ECA240G3932' => 'eca', 'ECA248G0385' => 'eca', 'EL10Ac2g04781' => 'bvu', 'EL10Ac3g06445' => 'bvu', 'EL10Ac7g15825' => 'bvu', 'EL10Ac8g18550' => 'bvu', 'Eucgr.B03849' => 'egr', 'Eucgr.I02744' => 'egr', 'Eucgr.J00264' => 'egr', 'Eucgr.J00493' => 'egr', 'FAN04G2181' => 'fan', 'FAN07G2666' => 'fan', 'FAN11G0024' => 'fan', 'FAN12G1105' => 'fan', 'FAN13G0302' => 'fan', 'FAN15G2781' => 'fan', 'FAN16G1274' => 'fan', 'FAN17G2988' => 'fan', 'FAN18G2621' => 'fan', 'FAN21G0013' => 'fan', 'FAN22G1211' => 'fan', 'FAN25G3626' => 'fan', 'FvH4_2g09491' => 'fve', 'FvH4_3g24910' => 'fve', 'FvH4_4g15630' => 'fve', 'FvH4_5g28820' => 'fve', 'Glyma.01G238000' => 'gma', 'Glyma.05G168400' => 'gma', 'Glyma.08G126800' => 'gma', 'Glyma.08G188500' => 'gma', 'Glyma.10G278900' => 'gma', 'Glyma.11G005700' => 'gma', 'Glyma.11G183300' => 'gma', 'Glyma.12G089200' => 'gma', 'Glyma.12G169400' => 'gma', 'Glyma.12G169500' => 'gma', 'Glyma.12G169600' => 'gma', 'Glyma.20G110800' => 'gma', 'Gohir.A03G192900' => 'ghi', 'Gohir.A03G193000' => 'ghi', 'Gohir.A05G080700' => 'ghi', 'Gohir.A09G216000' => 'ghi', 'Gohir.A12G027700' => 'ghi', 'Gohir.A13G036200' => 'ghi', 'Gohir.A13G222600' => 'ghi', 'Gohir.D02G213900' => 'ghi', 'Gohir.D02G214000' => 'ghi', 'Gohir.D05G083700' => 'ghi', 'Gohir.D05G083800' => 'ghi', 'Gohir.D05G083850' => 'ghi', 'Gohir.D08G015400' => 'ghi', 'Gohir.D09G218400' => 'ghi', 'Gohir.D12G027100' => 'ghi', 'Gohir.D13G034500' => 'ghi', 'Gohir.D13G227400' => 'ghi', 'Gorai.005G241800' => 'gra', 'Gorai.005G241900' => 'gra', 'Gorai.006G239400' => 'gra', 'Gorai.008G027600' => 'gra', 'Gorai.009G085400' => 'gra', 'Gorai.009G085500' => 'gra', 'Gorai.013G039000' => 'gra', 'Gorai.013G194800' => 'gra', 'Gorai.013G257900' => 'gra', 'GSVIVG01000982001' => 'vvi', 'GSVIVG01017981001' => 'vvi', 'HanXRQChr01g0024061' => 'han', 'HanXRQChr09g0247831' => 'han', 'HanXRQChr10g0294611' => 'han', 'HanXRQChr10g0294621' => 'han', 'HanXRQChr11g0346821' => 'han', 'HanXRQChr13g0397461' => 'han', 'HanXRQChr16g0513651' => 'han', 'HanXRQChr16g0513701' => 'han', 'Haze_00897' => 'cav', 'Haze_01745' => 'cav', 'Haze_02486' => 'cav', 'Haze_02487' => 'cav', 'Haze_23374' => 'cav', 'Hma1.2p1_0578F.1_g182520' => 'hma', 'Hma1.2p1_0602F.1_g187350' => 'hma', 'Hma1.2p1_0602F.1_g187360' => 'hma', 'Hma1.2p1_0874F.1_g231320' => 'hma', 'Hma1.2p1_1197F.1_g266210' => 'hma', 'Hma1.2p1_1197F.1_g266220' => 'hma', 'Hma1.2p1_2167F.1_g315895' => 'hma', 'Hma1.2p1_2190F.1_g316640' => 'hma', 'Hma1.2p1_3645F.1_g337153' => 'hma', 'HPP92_004907' => 'vpl', 'HPP92_012134' => 'vpl', 'HPP92_025136' => 'vpl', 'HPP92_026087' => 'vpl', 'Hund06782' => 'sun', 'Hund06784' => 'sun', 'Lalb_Chr01g0004861' => 'lal', 'Lalb_Chr02g0140591' => 'lal', 'Lalb_Chr02g0140611' => 'lal', 'Lalb_Chr03g0028101' => 'lal', 'Lalb_Chr07g0185791' => 'lal', 'Lalb_Chr12g0204491' => 'lal', 'Lalb_Chr13g0295671' => 'lal', 'Lalb_Chr19g0136461' => 'lal', 'Lalb_Chr21g0309191' => 'lal', 'Lj1g0028158' => 'lja', 'Lj1P236T38' => 'lonja', 'Lj2C32G2' => 'lonja', 'Lj2P944T8' => 'lonja', 'Lj2P963T15' => 'lonja', 'Lj3g0011788' => 'lja', 'Lj4g0025027' => 'lja', 'Lj5P255T36' => 'lonja', 'Lj6g0018866' => 'lja', 'Lj6P608T31' => 'lonja', 'LjContig00408g0008879' => 'lja', 'Lsat_1_v5_gn_5_105820' => 'lsa', 'Lsat_1_v5_gn_6_38800' => 'lsa', 'Lsat_1_v5_gn_7_67141' => 'lsa', 'Manes.04G003400' => 'mes', 'Manes.07G020000' => 'mes', 'Manes.07G020100' => 'mes', 'Manes.07G020150' => 'mes', 'Manes.10G061500' => 'mes', 'Manes.10G123200' => 'mes', 'Manes.11G161900' => 'mes', 'Manes.15G029300' => 'mes', 'Mapoly0071s0018' => 'mpo', 'Mapoly0082s0023' => 'mpo', 'Mapoly3477s0001' => 'mpo', 'MBI05_g31233_MAGBIO' => 'mbi', 'MBI09_g05946_MAGBIO' => 'mbi', 'MBI09_g05947_MAGBIO' => 'mbi', 'MBI17_g08346_MAGBIO' => 'mbi', 'MCO04G038' => 'mco', 'MCO09G370' => 'mco', 'MCO13G605' => 'mco', 'MD00G1075500' => 'mdo', 'MD03G1144300' => 'mdo', 'MD08G1236800' => 'mdo', 'MD13G1193300' => 'mdo', 'MD15G1428700' => 'mdo', 'Medtr1g112030' => 'mtr', 'Medtr1g112050' => 'mtr', 'Medtr2g006290' => 'mtr', 'Medtr2g086510' => 'mtr', 'Medtr4g053120' => 'mtr', 'Medtr5g006320' => 'mtr', 'Medtr8g088720' => 'mtr', 'MELO3C004712.2' => 'cme', 'MELO3C006533.2' => 'cme', 'MELO3C019438.2' => 'cme', 'MELO3C019440.2' => 'cme', 'MELO3C019441.2' => 'cme', 'MELO3C019895.2' => 'cme', 'Migut.B00811' => 'egut', 'Migut.D02447' => 'egut', 'Migut.F00875' => 'egut', 'Migut.N00186' => 'egut', 'Migut.N01051' => 'egut', 'Migut.N02491' => 'egut', 'Migut.O00784' => 'egut', 'MSTRG.12367' => 'ama', 'MSTRG.18756' => 'ama', 'MSTRG.21042' => 'ama', 'Nitab4.5_0000559g0040' => 'nta', 'Nitab4.5_0000667g0190' => 'nta', 'Nitab4.5_0000755g0160' => 'nta', 'Nitab4.5_0001216g0080' => 'nta', 'Nitab4.5_0004069g0040' => 'nta', 'Nitab4.5_0004129g0010' => 'nta', 'Nitab4.5_0005744g0030' => 'nta', 'Nitab4.5_0006996g0030' => 'nta', 'Nitab4.5_0008971g0040' => 'nta', 'Nitab4.5_0009769g0020' => 'nta', 'Nitab4.5_0009833g0010' => 'nta', 'Nitab4.5_0013140g0020' => 'nta', 'Nn003s41376' => 'nnu', 'Nn1g01857' => 'nnu', 'Nn1g03611' => 'nnu', 'Nn1g06853' => 'nnu', 'Nn3g18360' => 'nnu', 'Nn4g26328' => 'nnu', 'Nn5g27531' => 'nnu', 'Nn6g34899' => 'nnu', 'Nn7g36299' => 'nnu', 'Oeu021485.1' => 'oeu', 'Oeu022433.1' => 'oeu', 'Oeu032111.1' => 'oeu', 'Oeu051608.1' => 'oeu', 'Os01g0860601' => 'osa', 'Os03g0659200' => 'osa', 'Os03g0835900' => 'osa', 'Os04g0412200' => 'osa', 'Os05g0443500' => 'osa', 'Os07g0251500' => 'osa', 'Os08g0104600' => 'osa', 'Peaxi162Scf00003g00047' => 'pax', 'Peaxi162Scf00003g00052' => 'pax', 'Peaxi162Scf00003g00394' => 'pax', 'Peaxi162Scf00091g00621' => 'pax', 'Peaxi162Scf00152g00146' => 'pax', 'Peaxi162Scf00173g00025' => 'pax', 'Peaxi162Scf00195g00102' => 'pax', 'Peaxi162Scf00402g00013' => 'pax', 'Peaxi162Scf00519g00618' => 'pax', 'PGR004G2838' => 'pgr', 'PGR044G2275' => 'pgr', 'PGR102G1377' => 'pgr', 'PGR119G1245' => 'pgr', 'PGR142G4449' => 'pgr', 'PGSC0003DMG400004532' => 'stu', 'PGSC0003DMG400011950' => 'stu', 'PGSC0003DMG400023391' => 'stu', 'PGSC0003DMG400023985' => 'stu', 'PGSC0003DMG400026360' => 'stu', 'PGSC0003DMG400035711' => 'stu', 'PGSC0003DMG400037286' => 'stu', 'PGSC0003DMG402005881' => 'stu', 'Phvul.002G045400' => 'pvu', 'Phvul.006G216600' => 'pvu', 'Phvul.006G216700' => 'pvu', 'Phvul.006G216800' => 'pvu', 'Phvul.007G022500' => 'pvu', 'Phvul.011G094400' => 'pvu', 'Potri.001G470700' => 'ptr', 'Potri.003G015200' => 'ptr', 'Potri.004G202500' => 'ptr', 'Potri.004G218400' => 'ptr', 'Potri.008G020100' => 'ptr', 'Potri.008G153200' => 'ptr', 'Potri.009G163800' => 'ptr', 'Potri.010G087300' => 'ptr', 'Potri.010G239100' => 'ptr', 'Pp3c10_16100' => 'ppa', 'Pp3c10_16880' => 'ppa', 'Pp3c16_6230' => 'ppa', 'Pp3c17_18910' => 'ppa', 'Pp3c3_22119' => 'ppa', 'Pp3c3_22140' => 'ppa', 'Pp3c4_8159' => 'ppa', 'Pp3c4_8171' => 'ppa', 'Pp3c4_8330' => 'ppa', 'PRCOL_00004098' => 'pco', 'Prupe.1G013900' => 'ppe', 'Prupe.1G226300' => 'ppe', 'Prupe.1G573600' => 'ppe', 'Prupe.6G130100' => 'ppe', 'Psat3g090040' => 'psa', 'Psat4g210440' => 'psa', 'Psat6g231040' => 'psa', 'Psat6g231080' => 'psa', 'Psat7g063000' => 'psa', 'Psat7g188000' => 'psa', 'Psat7g188040' => 'psa', 'PSO017G0206' => 'pso', 'PSO170G0501' => 'pso', 'PSO170G6422' => 'pso', 'PSO210G7739' => 'pso', 'PSO339G1808' => 'pso', 'PSO339G6135' => 'pso', 'PSO384G0010' => 'pso', 'PSO384G0964' => 'pso', 'PSO761G0050' => 'pso', 'PSO782G4085' => 'pso', 'QL01p012264' => 'qlo', 'QL02p099491' => 'qlo', 'QL03p033868' => 'qlo', 'QL04p046678' => 'qlo', 'QL06p002448' => 'qlo', 'RcHm_v2.0_Chr4g0416181' => 'rch', 'RcHm_v2.0_Chr5g0044701' => 'rch', 'RcHm_v2.0_Chr6g0265781' => 'rch', 'RcHm_v2.0_Chr7g0221031' => 'rch', 'Rhsim04G0202000' => 'rsi', 'Rhsim11G0127300' => 'rsi', 'Rhsim13G0111800' => 'rsi', 'Sabra01G0165600' => 'sbr', 'Sabra03G0008300' => 'sbr', 'Sabra04G0136900' => 'sbr', 'Sabra08G0013400' => 'sbr', 'Sabra08G0116800' => 'sbr', 'Sabra09G0128000' => 'sbr', 'Sabra10G0055500' => 'sbr', 'Sabra10G0073300' => 'sbr', 'SalBow3G0385' => 'sbo', 'SalBow3G1119' => 'sbo', 'SalBow3G2005' => 'sbo', 'SalBow6G2563' => 'sbo', 'SalBow6G6386' => 'sbo', 'Sc06g0008800' => 'sci', 'Sc07g0004950' => 'sci', 'Sc09g0005340' => 'sci', 'Sc13g0004410' => 'sci', 'Sc21g0007090' => 'sci', 'Sed0009285' => 'sed', 'Sed0017583' => 'sed', 'Sed0019699' => 'sed', 'Sed0023107' => 'sed', 'SEGI_10916' => 'sgi', 'SEGI_16217' => 'sgi', 'SEGI_19466' => 'sgi', 'SEGI_41115' => 'sgi', 'SGA_v2.0_scaffold111G31534' => 'sas', 'SGA_v2.0_scaffold22G09864' => 'sas', 'SGA_v2.0_scaffold338G49219' => 'sas', 'SGA_v2.0_scaffold92G28298' => 'sas', 'SMO119G0064' => 'smo', 'SMO223G0038' => 'smo', 'SMO347G0584' => 'smo', 'SMO351G0010' => 'smo', 'SMO356G0404' => 'smo', 'Solyc01g103920.3' => 'sly', 'Solyc04g009710.2' => 'sly', 'Solyc05g055280.2' => 'sly', 'Solyc10g044520.3' => 'sly', 'Solyc10g075160.1' => 'sly', 'Solyc11g006910.3' => 'sly', 'Solyc11g068430.3' => 'sly', 'Sopen01g046310' => 'spe', 'Sopen03g001200' => 'spe', 'Sopen04g004830' => 'spe', 'Sopen05g033720' => 'spe', 'Sopen06g030740' => 'spe', 'Sopen10g013090' => 'spe', 'Sopen10g027630' => 'spe', 'Sopen10g027640' => 'spe', 'Sopen11g002820' => 'spe', 'Sopen11g027140' => 'spe', 'Sp1g09680' => 'spa', 'Sp2g03630' => 'spa', 'Sp4g10320' => 'spa', 'Sp6g33400' => 'spa', 'Sp7g13030' => 'spa', 'TAR365G0317' => 'tar', 'TAR376G0979' => 'tar', 'TAR623G1665' => 'tar', 'TAR633G2373' => 'tar', 'TAR636G1400' => 'tar', 'THA.LOC104800529' => 'tha', 'THA.LOC104808547' => 'tha', 'THA.LOC104809615' => 'tha', 'THA.LOC104815724' => 'tha', 'THA.LOC104818480' => 'tha', 'THA.LOC104819179' => 'tha', 'THA.LOC104822270' => 'tha', 'THA.LOC104826425' => 'tha', 'Thecc.02G089700' => 'tca', 'Thecc.04G232300' => 'tca', 'Thecc.09G283400' => 'tca', 'Thhalv10009020m.g' => 'esa', 'Thhalv10015506m.g' => 'esa', 'Thhalv10017364m.g' => 'esa', 'Thhalv10023742m.g' => 'esa', 'Thhalv10026483m.g' => 'esa', 'TPR.G17232' => 'tpr', 'TPR.G2133' => 'tpr', 'TPR.G2498' => 'tpr', 'TPR.G31942' => 'tpr', 'TPR.G37877' => 'tpr', 'TPR.G4571' => 'tpr', 'TWI14G1113' => 'twi', 'TWI15G0426' => 'twi', 'TWI31G1005' => 'twi', 'TWI38G0513' => 'twi', 'TWI38G1484' => 'twi', 'TWI73G1098' => 'twi', 'unitig_26.g10519' => 'ugi', 'unitig_736.g22395' => 'ugi', 'unitig_747.g21234' => 'ugi', 'unitig_747.g21942' => 'ugi', 'vmacro14351' => 'vma', 'VMungo0540G0082' => 'vmu', 'VMungo0540G0405' => 'vmu', 'VMungo0540G1486' => 'vmu', 'VMungo0540G1692' => 'vmu', 'VMungo0720G2473' => 'vmu', 'VMungo1127G1562' => 'vmu', 'VMungo1215G1918' => 'vmu', 'Zm00001eb052650' => 'zma', 'Zm00001eb063710' => 'zma', 'Zm00001eb083950' => 'zma', 'Zm00001eb174420' => 'zma', 'Zm00001eb260140' => 'zma', 'Zm00001eb260150' => 'zma', 'Zm00001eb260160' => 'zma', 'Zm00001eb348290' => 'zma', 'Zm00001eb366870' => 'zma', 'Zm00001eb421930' => 'zma' ), 'gf_id' => 'HOM05D001025', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001025' ), 'data_identifier' => 'HOM05D001025', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001025', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '592', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p22650' => 'bna', 'A01p29720' => 'bna', 'A03p26560' => 'bna', 'A03p68820' => 'bna', 'A04p20980' => 'bna', 'A06p07730' => 'bna', 'A07p18260' => 'bna', 'A08p33710' => 'bna', 'A09p16970' => 'bna', 'A10p27490' => 'bna', 'Aa31LG1G17300' => 'aar', 'Aa31LG1G3910' => 'aar', 'Aa31LG2G9630' => 'aar', 'Aa31LG5G8360' => 'aar', 'Aa31LG9G2410' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4699' => 'aag', 'Actinidia23512' => 'ach', 'Actinidia37080' => 'ach', 'Ah.01g020380' => 'amhyb', 'Ah.08g215710' => 'amhyb', 'Ah.09g225110' => 'amhyb', 'Ah.10g036680' => 'amhyb', 'AL1G21940' => 'aly', 'AL2G15540' => 'aly', 'AL4G21520' => 'aly', 'AL7G40960' => 'aly', 'Aqoxy2G01191' => 'aox', 'Aqoxy2G03393' => 'aox', 'Aqoxy4G02775' => 'aox', 'Aqoxy6G00058' => 'aox', 'arahy.Tifrunner.gnm1.ann1.9X74H2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CW3FX9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R485W7' => 'arhy', 'AT1G10960' => 'ath', 'AT1G60950' => 'ath', 'AT2G27510' => 'ath', 'AT4G14890' => 'ath', 'AT5G10000' => 'ath', 'ATR0665G624' => 'atr', 'ATR0697G138' => 'atr', 'ATR0776G046' => 'atr', 'ATR1134G135' => 'atr', 'Atru.chr12.1025' => 'acertr', 'Atru.chr3.3241' => 'acertr', 'Atru.chr4.2460' => 'acertr', 'AUR62007427' => 'cqu', 'AUR62010960' => 'cqu', 'AUR62012201' => 'cqu', 'AUR62021470' => 'cqu', 'AUR62022834' => 'cqu', 'AUR62033635' => 'cqu', 'AUR62036186' => 'cqu', 'BcaB01g03077' => 'bca', 'BcaB02g10093' => 'bca', 'BcaB04g20295' => 'bca', 'BcaB06g28147' => 'bca', 'BcaB07g31253' => 'bca', 'BcaC01g04946' => 'bca', 'BcaC02g10614' => 'bca', 'BcaC02g10885' => 'bca', 'BcaC04g19356' => 'bca', 'BcaC04g22297' => 'bca', 'BcaC05g24977' => 'bca', 'BcaC06g31823' => 'bca', 'BcaC07g38633' => 'bca', 'BcaC09g49353' => 'bca', 'BcaC09g50168' => 'bca', 'BcaNung00322' => 'bca', 'BcaNung04769' => 'bca', 'BolC1t02753H' => 'bol', 'BolC1t03721H' => 'bol', 'BolC3t15525H' => 'bol', 'BolC4t23903H' => 'bol', 'BolC4t24231H' => 'bol', 'BolC4t27209H' => 'bol', 'BolC5t29671H' => 'bol', 'BolC8t49044H' => 'bol', 'BolC9t54999H' => 'bol', 'BolC9t59517H' => 'bol', 'BraA01t02178Z' => 'bra', 'BraA01t03099Z' => 'bra', 'BraA03t11867Z' => 'bra', 'BraA04t17667Z' => 'bra', 'BraA07t29542Z' => 'bra', 'BraA08t35287Z' => 'bra', 'BraA09t37334Z' => 'bra', 'BraA10t44801Z' => 'bra', 'BraSC39t46181Z' => 'bra', 'C01p28240' => 'bna', 'C01p37530' => 'bna', 'C03p31820' => 'bna', 'C04p24080' => 'bna', 'C04p25790' => 'bna', 'C04p56770' => 'bna', 'C05p09310' => 'bna', 'C09p21010' => 'bna', 'C09p67560' => 'bna', 'CAN.G1324.7' => 'can', 'CAN.G1358.10' => 'can', 'CAN.G1550.2' => 'can', 'CAN.G186.56' => 'can', 'CAN.G1965.1' => 'can', 'CAN.G645.15' => 'can', 'CAN.G798.26' => 'can', 'CAN.G798.27' => 'can', 'CAN.G798.29' => 'can', 'CAN.G919.31' => 'can', 'CANSAT11G0133' => 'cansat', 'CANSAT11G1171' => 'cansat', 'CANSAT11G2056' => 'cansat', 'CANSAT56G1202' => 'cansat', 'CANSAT56G1514' => 'cansat', 'CANSAT78G0455' => 'cansat', 'CARHR011190' => 'chi', 'CARHR051980' => 'chi', 'CARHR120170' => 'chi', 'CARHR203310' => 'chi', 'CARHR221490' => 'chi', 'Carub.0001s1054' => 'cru', 'Carub.0002s0431' => 'cru', 'Carub.0004s0818' => 'cru', 'Carub.0006s0846' => 'cru', 'Carub.0007s2722' => 'cru', 'Ca_00058_v3' => 'car', 'Ca_17831_v3' => 'car', 'Ca_19408_v3' => 'car', 'Ca_24397_v3' => 'car', 'Ca_25664_v3' => 'car', 'CBR_g21818' => 'cbr', 'CBR_g31195' => 'cbr', 'CBR_g32282' => 'cbr', 'CBR_g39599' => 'cbr', 'CBR_g49410' => 'cbr', 'Cc01_g09120' => 'ccan', 'Cc01_g09130' => 'ccan', 'Cc02_g09630' => 'ccan', 'Cc02_g22810' => 'ccan', 'Cc03_g03810' => 'ccan', 'CDE02G3718' => 'cde', 'CDE04G3183' => 'cde', 'CDE07G1046' => 'cde', 'CDE08G0480' => 'cde', 'Cfa005493' => 'cfa', 'Cfa010312' => 'cfa', 'Cfa015648' => 'cfa', 'Ciclev10002793m.g' => 'ccl', 'Ciclev10003356m.g' => 'ccl', 'Ciclev10006141m.g' => 'ccl', 'Ciclev10016676m.g' => 'ccl', 'Ciclev10017081m.g' => 'ccl', 'Ciclev10029499m.g' => 'ccl', 'CiPaw.01G166300' => 'cil', 'CiPaw.06G145600' => 'cil', 'CiPaw.13G040100' => 'cil', 'CiPaw.13G135800' => 'cil', 'ClCG01G012230' => 'cla', 'ClCG05G009510' => 'cla', 'ClCG08G008270' => 'cla', 'COL.COLO4_11763' => 'col', 'COL.COLO4_19876' => 'col', 'COL.COLO4_21481' => 'col', 'Cpa.g.sc118.34' => 'cpa', 'Cpa.g.sc32.13' => 'cpa', 'Cpa.g.sc58.103' => 'cpa', 'Cre03.g183850' => 'cre', 'Cre06.g306350' => 'cre', 'Cre07.g334800' => 'cre', 'Cre12.g487900' => 'cre', 'Cre14.g626700' => 'cre', 'Cre16.g658400' => 'cre', 'Cre17.g700950' => 'cre', 'CsaV3_1G014830' => 'csa', 'CsaV3_3G013320' => 'csa', 'CsaV3_3G019210' => 'csa', 'CsaV3_3G019220' => 'csa', 'CsaV3_6G004230' => 'csa', 'CSS0003773' => 'camsi', 'CSS0004563' => 'camsi', 'CSS0013949' => 'camsi', 'CSS0025971' => 'camsi', 'CSS0028570' => 'camsi', 'CSS0033127' => 'camsi', 'CSS0036051' => 'camsi', 'CSS0040087' => 'camsi', 'CSS0043179' => 'camsi', 'DCAR_006161' => 'dca', 'DCAR_010351' => 'dca', 'DCAR_012197' => 'dca', 'DCAR_024162' => 'dca', 'Dinv01030' => 'din', 'Dinv10924' => 'din', 'Dinv11835' => 'din', 'Dinv22841' => 'din', 'Dinv42553' => 'din', 'Duzib052G0560' => 'dzi', 'Duzib132G0389' => 'dzi', 'Duzib150G1181' => 'dzi', 'Duzib168G0623' => 'dzi', 'Duzib170G1036' => 'dzi', 'Duzib212G0200' => 'dzi', 'Duzib248G0194' => 'dzi', 'ECA232G2193' => 'eca', 'ECA233G0302' => 'eca', 'ECA234G2813' => 'eca', 'ECA234G4866' => 'eca', 'ECA240G3932' => 'eca', 'ECA248G0385' => 'eca', 'EL10Ac2g04781' => 'bvu', 'EL10Ac3g06445' => 'bvu', 'EL10Ac7g15825' => 'bvu', 'EL10Ac8g18550' => 'bvu', 'Eucgr.B03849' => 'egr', 'Eucgr.I02744' => 'egr', 'Eucgr.J00264' => 'egr', 'Eucgr.J00493' => 'egr', 'FAN04G2181' => 'fan', 'FAN07G2666' => 'fan', 'FAN11G0024' => 'fan', 'FAN12G1105' => 'fan', 'FAN13G0302' => 'fan', 'FAN15G2781' => 'fan', 'FAN16G1274' => 'fan', 'FAN17G2988' => 'fan', 'FAN18G2621' => 'fan', 'FAN21G0013' => 'fan', 'FAN22G1211' => 'fan', 'FAN25G3626' => 'fan', 'FvH4_2g09491' => 'fve', 'FvH4_3g24910' => 'fve', 'FvH4_4g15630' => 'fve', 'FvH4_5g28820' => 'fve', 'Glyma.01G238000' => 'gma', 'Glyma.05G168400' => 'gma', 'Glyma.08G126800' => 'gma', 'Glyma.08G188500' => 'gma', 'Glyma.10G278900' => 'gma', 'Glyma.11G005700' => 'gma', 'Glyma.11G183300' => 'gma', 'Glyma.12G089200' => 'gma', 'Glyma.12G169400' => 'gma', 'Glyma.12G169500' => 'gma', 'Glyma.12G169600' => 'gma', 'Glyma.20G110800' => 'gma', 'Gohir.A03G192900' => 'ghi', 'Gohir.A03G193000' => 'ghi', 'Gohir.A05G080700' => 'ghi', 'Gohir.A09G216000' => 'ghi', 'Gohir.A12G027700' => 'ghi', 'Gohir.A13G036200' => 'ghi', 'Gohir.A13G222600' => 'ghi', 'Gohir.D02G213900' => 'ghi', 'Gohir.D02G214000' => 'ghi', 'Gohir.D05G083700' => 'ghi', 'Gohir.D05G083800' => 'ghi', 'Gohir.D05G083850' => 'ghi', 'Gohir.D08G015400' => 'ghi', 'Gohir.D09G218400' => 'ghi', 'Gohir.D12G027100' => 'ghi', 'Gohir.D13G034500' => 'ghi', 'Gohir.D13G227400' => 'ghi', 'Gorai.005G241800' => 'gra', 'Gorai.005G241900' => 'gra', 'Gorai.006G239400' => 'gra', 'Gorai.008G027600' => 'gra', 'Gorai.009G085400' => 'gra', 'Gorai.009G085500' => 'gra', 'Gorai.013G039000' => 'gra', 'Gorai.013G194800' => 'gra', 'Gorai.013G257900' => 'gra', 'GSVIVG01000982001' => 'vvi', 'GSVIVG01017981001' => 'vvi', 'HanXRQChr01g0024061' => 'han', 'HanXRQChr09g0247831' => 'han', 'HanXRQChr10g0294611' => 'han', 'HanXRQChr10g0294621' => 'han', 'HanXRQChr11g0346821' => 'han', 'HanXRQChr13g0397461' => 'han', 'HanXRQChr16g0513651' => 'han', 'HanXRQChr16g0513701' => 'han', 'Haze_00897' => 'cav', 'Haze_01745' => 'cav', 'Haze_02486' => 'cav', 'Haze_02487' => 'cav', 'Haze_23374' => 'cav', 'Hma1.2p1_0578F.1_g182520' => 'hma', 'Hma1.2p1_0602F.1_g187350' => 'hma', 'Hma1.2p1_0602F.1_g187360' => 'hma', 'Hma1.2p1_0874F.1_g231320' => 'hma', 'Hma1.2p1_1197F.1_g266210' => 'hma', 'Hma1.2p1_1197F.1_g266220' => 'hma', 'Hma1.2p1_2167F.1_g315895' => 'hma', 'Hma1.2p1_2190F.1_g316640' => 'hma', 'Hma1.2p1_3645F.1_g337153' => 'hma', 'HPP92_004907' => 'vpl', 'HPP92_012134' => 'vpl', 'HPP92_025136' => 'vpl', 'HPP92_026087' => 'vpl', 'Hund06782' => 'sun', 'Hund06784' => 'sun', 'Lalb_Chr01g0004861' => 'lal', 'Lalb_Chr02g0140591' => 'lal', 'Lalb_Chr02g0140611' => 'lal', 'Lalb_Chr03g0028101' => 'lal', 'Lalb_Chr07g0185791' => 'lal', 'Lalb_Chr12g0204491' => 'lal', 'Lalb_Chr13g0295671' => 'lal', 'Lalb_Chr19g0136461' => 'lal', 'Lalb_Chr21g0309191' => 'lal', 'Lj1g0028158' => 'lja', 'Lj1P236T38' => 'lonja', 'Lj2C32G2' => 'lonja', 'Lj2P944T8' => 'lonja', 'Lj2P963T15' => 'lonja', 'Lj3g0011788' => 'lja', 'Lj4g0025027' => 'lja', 'Lj5P255T36' => 'lonja', 'Lj6g0018866' => 'lja', 'Lj6P608T31' => 'lonja', 'LjContig00408g0008879' => 'lja', 'Lsat_1_v5_gn_5_105820' => 'lsa', 'Lsat_1_v5_gn_6_38800' => 'lsa', 'Lsat_1_v5_gn_7_67141' => 'lsa', 'Manes.04G003400' => 'mes', 'Manes.07G020000' => 'mes', 'Manes.07G020100' => 'mes', 'Manes.07G020150' => 'mes', 'Manes.10G061500' => 'mes', 'Manes.10G123200' => 'mes', 'Manes.11G161900' => 'mes', 'Manes.15G029300' => 'mes', 'Mapoly0071s0018' => 'mpo', 'Mapoly0082s0023' => 'mpo', 'Mapoly3477s0001' => 'mpo', 'MBI05_g31233_MAGBIO' => 'mbi', 'MBI09_g05946_MAGBIO' => 'mbi', 'MBI09_g05947_MAGBIO' => 'mbi', 'MBI17_g08346_MAGBIO' => 'mbi', 'MCO04G038' => 'mco', 'MCO09G370' => 'mco', 'MCO13G605' => 'mco', 'MD00G1075500' => 'mdo', 'MD03G1144300' => 'mdo', 'MD08G1236800' => 'mdo', 'MD13G1193300' => 'mdo', 'MD15G1428700' => 'mdo', 'Medtr1g112030' => 'mtr', 'Medtr1g112050' => 'mtr', 'Medtr2g006290' => 'mtr', 'Medtr2g086510' => 'mtr', 'Medtr4g053120' => 'mtr', 'Medtr5g006320' => 'mtr', 'Medtr8g088720' => 'mtr', 'MELO3C004712.2' => 'cme', 'MELO3C006533.2' => 'cme', 'MELO3C019438.2' => 'cme', 'MELO3C019440.2' => 'cme', 'MELO3C019441.2' => 'cme', 'MELO3C019895.2' => 'cme', 'Migut.B00811' => 'egut', 'Migut.D02447' => 'egut', 'Migut.F00875' => 'egut', 'Migut.N00186' => 'egut', 'Migut.N01051' => 'egut', 'Migut.N02491' => 'egut', 'Migut.O00784' => 'egut', 'MSTRG.12367' => 'ama', 'MSTRG.18756' => 'ama', 'MSTRG.21042' => 'ama', 'Nitab4.5_0000559g0040' => 'nta', 'Nitab4.5_0000667g0190' => 'nta', 'Nitab4.5_0000755g0160' => 'nta', 'Nitab4.5_0001216g0080' => 'nta', 'Nitab4.5_0004069g0040' => 'nta', 'Nitab4.5_0004129g0010' => 'nta', 'Nitab4.5_0005744g0030' => 'nta', 'Nitab4.5_0006996g0030' => 'nta', 'Nitab4.5_0008971g0040' => 'nta', 'Nitab4.5_0009769g0020' => 'nta', 'Nitab4.5_0009833g0010' => 'nta', 'Nitab4.5_0013140g0020' => 'nta', 'Nn003s41376' => 'nnu', 'Nn1g01857' => 'nnu', 'Nn1g03611' => 'nnu', 'Nn1g06853' => 'nnu', 'Nn3g18360' => 'nnu', 'Nn4g26328' => 'nnu', 'Nn5g27531' => 'nnu', 'Nn6g34899' => 'nnu', 'Nn7g36299' => 'nnu', 'Oeu021485.1' => 'oeu', 'Oeu022433.1' => 'oeu', 'Oeu032111.1' => 'oeu', 'Oeu051608.1' => 'oeu', 'Os01g0860601' => 'osa', 'Os03g0659200' => 'osa', 'Os03g0835900' => 'osa', 'Os04g0412200' => 'osa', 'Os05g0443500' => 'osa', 'Os07g0251500' => 'osa', 'Os08g0104600' => 'osa', 'Peaxi162Scf00003g00047' => 'pax', 'Peaxi162Scf00003g00052' => 'pax', 'Peaxi162Scf00003g00394' => 'pax', 'Peaxi162Scf00091g00621' => 'pax', 'Peaxi162Scf00152g00146' => 'pax', 'Peaxi162Scf00173g00025' => 'pax', 'Peaxi162Scf00195g00102' => 'pax', 'Peaxi162Scf00402g00013' => 'pax', 'Peaxi162Scf00519g00618' => 'pax', 'PGR004G2838' => 'pgr', 'PGR044G2275' => 'pgr', 'PGR102G1377' => 'pgr', 'PGR119G1245' => 'pgr', 'PGR142G4449' => 'pgr', 'PGSC0003DMG400004532' => 'stu', 'PGSC0003DMG400011950' => 'stu', 'PGSC0003DMG400023391' => 'stu', 'PGSC0003DMG400023985' => 'stu', 'PGSC0003DMG400026360' => 'stu', 'PGSC0003DMG400035711' => 'stu', 'PGSC0003DMG400037286' => 'stu', 'PGSC0003DMG402005881' => 'stu', 'Phvul.002G045400' => 'pvu', 'Phvul.006G216600' => 'pvu', 'Phvul.006G216700' => 'pvu', 'Phvul.006G216800' => 'pvu', 'Phvul.007G022500' => 'pvu', 'Phvul.011G094400' => 'pvu', 'Potri.001G470700' => 'ptr', 'Potri.003G015200' => 'ptr', 'Potri.004G202500' => 'ptr', 'Potri.004G218400' => 'ptr', 'Potri.008G020100' => 'ptr', 'Potri.008G153200' => 'ptr', 'Potri.009G163800' => 'ptr', 'Potri.010G087300' => 'ptr', 'Potri.010G239100' => 'ptr', 'Pp3c10_16100' => 'ppa', 'Pp3c10_16880' => 'ppa', 'Pp3c16_6230' => 'ppa', 'Pp3c17_18910' => 'ppa', 'Pp3c3_22119' => 'ppa', 'Pp3c3_22140' => 'ppa', 'Pp3c4_8159' => 'ppa', 'Pp3c4_8171' => 'ppa', 'Pp3c4_8330' => 'ppa', 'PRCOL_00004098' => 'pco', 'Prupe.1G013900' => 'ppe', 'Prupe.1G226300' => 'ppe', 'Prupe.1G573600' => 'ppe', 'Prupe.6G130100' => 'ppe', 'Psat3g090040' => 'psa', 'Psat4g210440' => 'psa', 'Psat6g231040' => 'psa', 'Psat6g231080' => 'psa', 'Psat7g063000' => 'psa', 'Psat7g188000' => 'psa', 'Psat7g188040' => 'psa', 'PSO017G0206' => 'pso', 'PSO170G0501' => 'pso', 'PSO170G6422' => 'pso', 'PSO210G7739' => 'pso', 'PSO339G1808' => 'pso', 'PSO339G6135' => 'pso', 'PSO384G0010' => 'pso', 'PSO384G0964' => 'pso', 'PSO761G0050' => 'pso', 'PSO782G4085' => 'pso', 'QL01p012264' => 'qlo', 'QL02p099491' => 'qlo', 'QL03p033868' => 'qlo', 'QL04p046678' => 'qlo', 'QL06p002448' => 'qlo', 'RcHm_v2.0_Chr4g0416181' => 'rch', 'RcHm_v2.0_Chr5g0044701' => 'rch', 'RcHm_v2.0_Chr6g0265781' => 'rch', 'RcHm_v2.0_Chr7g0221031' => 'rch', 'Rhsim04G0202000' => 'rsi', 'Rhsim11G0127300' => 'rsi', 'Rhsim13G0111800' => 'rsi', 'Sabra01G0165600' => 'sbr', 'Sabra03G0008300' => 'sbr', 'Sabra04G0136900' => 'sbr', 'Sabra08G0013400' => 'sbr', 'Sabra08G0116800' => 'sbr', 'Sabra09G0128000' => 'sbr', 'Sabra10G0055500' => 'sbr', 'Sabra10G0073300' => 'sbr', 'SalBow3G0385' => 'sbo', 'SalBow3G1119' => 'sbo', 'SalBow3G2005' => 'sbo', 'SalBow6G2563' => 'sbo', 'SalBow6G6386' => 'sbo', 'Sc06g0008800' => 'sci', 'Sc07g0004950' => 'sci', 'Sc09g0005340' => 'sci', 'Sc13g0004410' => 'sci', 'Sc21g0007090' => 'sci', 'Sed0009285' => 'sed', 'Sed0017583' => 'sed', 'Sed0019699' => 'sed', 'Sed0023107' => 'sed', 'SEGI_10916' => 'sgi', 'SEGI_16217' => 'sgi', 'SEGI_19466' => 'sgi', 'SEGI_41115' => 'sgi', 'SGA_v2.0_scaffold111G31534' => 'sas', 'SGA_v2.0_scaffold22G09864' => 'sas', 'SGA_v2.0_scaffold338G49219' => 'sas', 'SGA_v2.0_scaffold92G28298' => 'sas', 'SMO119G0064' => 'smo', 'SMO223G0038' => 'smo', 'SMO347G0584' => 'smo', 'SMO351G0010' => 'smo', 'SMO356G0404' => 'smo', 'Solyc01g103920.3' => 'sly', 'Solyc04g009710.2' => 'sly', 'Solyc05g055280.2' => 'sly', 'Solyc10g044520.3' => 'sly', 'Solyc10g075160.1' => 'sly', 'Solyc11g006910.3' => 'sly', 'Solyc11g068430.3' => 'sly', 'Sopen01g046310' => 'spe', 'Sopen03g001200' => 'spe', 'Sopen04g004830' => 'spe', 'Sopen05g033720' => 'spe', 'Sopen06g030740' => 'spe', 'Sopen10g013090' => 'spe', 'Sopen10g027630' => 'spe', 'Sopen10g027640' => 'spe', 'Sopen11g002820' => 'spe', 'Sopen11g027140' => 'spe', 'Sp1g09680' => 'spa', 'Sp2g03630' => 'spa', 'Sp4g10320' => 'spa', 'Sp6g33400' => 'spa', 'Sp7g13030' => 'spa', 'TAR365G0317' => 'tar', 'TAR376G0979' => 'tar', 'TAR623G1665' => 'tar', 'TAR633G2373' => 'tar', 'TAR636G1400' => 'tar', 'THA.LOC104800529' => 'tha', 'THA.LOC104808547' => 'tha', 'THA.LOC104809615' => 'tha', 'THA.LOC104815724' => 'tha', 'THA.LOC104818480' => 'tha', 'THA.LOC104819179' => 'tha', 'THA.LOC104822270' => 'tha', 'THA.LOC104826425' => 'tha', 'Thecc.02G089700' => 'tca', 'Thecc.04G232300' => 'tca', 'Thecc.09G283400' => 'tca', 'Thhalv10009020m.g' => 'esa', 'Thhalv10015506m.g' => 'esa', 'Thhalv10017364m.g' => 'esa', 'Thhalv10023742m.g' => 'esa', 'Thhalv10026483m.g' => 'esa', 'TPR.G17232' => 'tpr', 'TPR.G2133' => 'tpr', 'TPR.G2498' => 'tpr', 'TPR.G31942' => 'tpr', 'TPR.G37877' => 'tpr', 'TPR.G4571' => 'tpr', 'TWI14G1113' => 'twi', 'TWI15G0426' => 'twi', 'TWI31G1005' => 'twi', 'TWI38G0513' => 'twi', 'TWI38G1484' => 'twi', 'TWI73G1098' => 'twi', 'unitig_26.g10519' => 'ugi', 'unitig_736.g22395' => 'ugi', 'unitig_747.g21234' => 'ugi', 'unitig_747.g21942' => 'ugi', 'vmacro14351' => 'vma', 'VMungo0540G0082' => 'vmu', 'VMungo0540G0405' => 'vmu', 'VMungo0540G1486' => 'vmu', 'VMungo0540G1692' => 'vmu', 'VMungo0720G2473' => 'vmu', 'VMungo1127G1562' => 'vmu', 'VMungo1215G1918' => 'vmu', 'Zm00001eb052650' => 'zma', 'Zm00001eb063710' => 'zma', 'Zm00001eb083950' => 'zma', 'Zm00001eb174420' => 'zma', 'Zm00001eb260140' => 'zma', 'Zm00001eb260150' => 'zma', 'Zm00001eb260160' => 'zma', 'Zm00001eb348290' => 'zma', 'Zm00001eb366870' => 'zma', 'Zm00001eb421930' => 'zma' ) $gf_id = 'HOM05D001025' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001025' ) $data_identifier = 'HOM05D001025' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 19, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 2, 'amhyb' => (int) 4, 'aly' => (int) 4, 'aox' => (int) 4, 'arhy' => (int) 3, 'ath' => (int) 5, 'atr' => (int) 4, 'acertr' => (int) 3, 'cqu' => (int) 7, 'bca' => (int) 17, 'bol' => (int) 10, 'bra' => (int) 9, 'can' => (int) 10, 'cansat' => (int) 6, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 5, 'cbr' => (int) 5, 'ccan' => (int) 5, 'cde' => (int) 4, 'cfa' => (int) 3, 'ccl' => (int) 6, 'cil' => (int) 4, 'cla' => (int) 3, 'col' => (int) 3, 'cpa' => (int) 3, 'cre' => (int) 7, 'csa' => (int) 5, 'camsi' => (int) 9, 'dca' => (int) 4, 'din' => (int) 5, 'dzi' => (int) 7, 'eca' => (int) 6, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 12, 'fve' => (int) 4, 'gma' => (int) 12, 'ghi' => (int) 17, 'gra' => (int) 9, 'vvi' => (int) 2, 'han' => (int) 8, 'cav' => (int) 5, 'hma' => (int) 9, 'vpl' => (int) 4, 'sun' => (int) 2, 'lal' => (int) 9, 'lja' => (int) 5, 'lonja' => (int) 6, 'lsa' => (int) 3, 'mes' => (int) 8, 'mpo' => (int) 3, 'mbi' => (int) 4, 'mco' => (int) 3, 'mdo' => (int) 5, 'mtr' => (int) 7, 'cme' => (int) 6, 'egut' => (int) 7, 'ama' => (int) 3, 'nta' => (int) 12, 'nnu' => (int) 9, 'oeu' => (int) 4, 'osa' => (int) 7, 'pax' => (int) 9, 'pgr' => (int) 5, 'stu' => (int) 8, 'pvu' => (int) 6, 'ptr' => (int) 9, 'ppa' => (int) 9, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 7, 'pso' => (int) 10, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 3, 'sbr' => (int) 8, 'sbo' => (int) 5, 'sci' => (int) 5, 'sed' => (int) 4, 'sgi' => (int) 4, 'sas' => (int) 4, 'smo' => (int) 5, 'sly' => (int) 7, 'spe' => (int) 10, 'spa' => (int) 5, 'tar' => (int) 5, 'tha' => (int) 8, 'tca' => (int) 3, 'esa' => (int) 5, 'tpr' => (int) 6, 'twi' => (int) 6, 'ugi' => (int) 4, 'vma' => (int) 1, 'vmu' => (int) 7, 'zma' => (int) 10 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb421930' $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' => 'HOM05D001025', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '592', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p22650' => 'bna', 'A01p29720' => 'bna', 'A03p26560' => 'bna', 'A03p68820' => 'bna', 'A04p20980' => 'bna', 'A06p07730' => 'bna', 'A07p18260' => 'bna', 'A08p33710' => 'bna', 'A09p16970' => 'bna', 'A10p27490' => 'bna', 'Aa31LG1G17300' => 'aar', 'Aa31LG1G3910' => 'aar', 'Aa31LG2G9630' => 'aar', 'Aa31LG5G8360' => 'aar', 'Aa31LG9G2410' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4699' => 'aag', 'Actinidia23512' => 'ach', 'Actinidia37080' => 'ach', 'Ah.01g020380' => 'amhyb', 'Ah.08g215710' => 'amhyb', 'Ah.09g225110' => 'amhyb', 'Ah.10g036680' => 'amhyb', 'AL1G21940' => 'aly', 'AL2G15540' => 'aly', 'AL4G21520' => 'aly', 'AL7G40960' => 'aly', 'Aqoxy2G01191' => 'aox', 'Aqoxy2G03393' => 'aox', 'Aqoxy4G02775' => 'aox', 'Aqoxy6G00058' => 'aox', 'arahy.Tifrunner.gnm1.ann1.9X74H2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CW3FX9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R485W7' => 'arhy', 'AT1G10960' => 'ath', 'AT1G60950' => 'ath', 'AT2G27510' => 'ath', 'AT4G14890' => 'ath', 'AT5G10000' => 'ath', 'ATR0665G624' => 'atr', 'ATR0697G138' => 'atr', 'ATR0776G046' => 'atr', 'ATR1134G135' => 'atr', 'Atru.chr12.1025' => 'acertr', 'Atru.chr3.3241' => 'acertr', 'Atru.chr4.2460' => 'acertr', 'AUR62007427' => 'cqu', 'AUR62010960' => 'cqu', 'AUR62012201' => 'cqu', 'AUR62021470' => 'cqu', 'AUR62022834' => 'cqu', 'AUR62033635' => 'cqu', 'AUR62036186' => 'cqu', 'BcaB01g03077' => 'bca', 'BcaB02g10093' => 'bca', 'BcaB04g20295' => 'bca', 'BcaB06g28147' => 'bca', 'BcaB07g31253' => 'bca', 'BcaC01g04946' => 'bca', 'BcaC02g10614' => 'bca', 'BcaC02g10885' => 'bca', 'BcaC04g19356' => 'bca', 'BcaC04g22297' => 'bca', 'BcaC05g24977' => 'bca', 'BcaC06g31823' => 'bca', 'BcaC07g38633' => 'bca', 'BcaC09g49353' => 'bca', 'BcaC09g50168' => 'bca', 'BcaNung00322' => 'bca', 'BcaNung04769' => 'bca', 'BolC1t02753H' => 'bol', 'BolC1t03721H' => 'bol', 'BolC3t15525H' => 'bol', 'BolC4t23903H' => 'bol', 'BolC4t24231H' => 'bol', 'BolC4t27209H' => 'bol', 'BolC5t29671H' => 'bol', 'BolC8t49044H' => 'bol', 'BolC9t54999H' => 'bol', 'BolC9t59517H' => 'bol', 'BraA01t02178Z' => 'bra', 'BraA01t03099Z' => 'bra', 'BraA03t11867Z' => 'bra', 'BraA04t17667Z' => 'bra', 'BraA07t29542Z' => 'bra', 'BraA08t35287Z' => 'bra', 'BraA09t37334Z' => 'bra', 'BraA10t44801Z' => 'bra', 'BraSC39t46181Z' => 'bra', 'C01p28240' => 'bna', 'C01p37530' => 'bna', 'C03p31820' => 'bna', 'C04p24080' => 'bna', 'C04p25790' => 'bna', 'C04p56770' => 'bna', 'C05p09310' => 'bna', 'C09p21010' => 'bna', 'C09p67560' => 'bna', 'CAN.G1324.7' => 'can', 'CAN.G1358.10' => 'can', 'CAN.G1550.2' => 'can', 'CAN.G186.56' => 'can', 'CAN.G1965.1' => 'can', 'CAN.G645.15' => 'can', 'CAN.G798.26' => 'can', 'CAN.G798.27' => 'can', 'CAN.G798.29' => 'can', 'CAN.G919.31' => 'can', 'CANSAT11G0133' => 'cansat', 'CANSAT11G1171' => 'cansat', 'CANSAT11G2056' => 'cansat', 'CANSAT56G1202' => 'cansat', 'CANSAT56G1514' => 'cansat', 'CANSAT78G0455' => 'cansat', 'CARHR011190' => 'chi', 'CARHR051980' => 'chi', 'CARHR120170' => 'chi', 'CARHR203310' => 'chi', 'CARHR221490' => 'chi', 'Carub.0001s1054' => 'cru', 'Carub.0002s0431' => 'cru', 'Carub.0004s0818' => 'cru', 'Carub.0006s0846' => 'cru', 'Carub.0007s2722' => 'cru', 'Ca_00058_v3' => 'car', 'Ca_17831_v3' => 'car', 'Ca_19408_v3' => 'car', 'Ca_24397_v3' => 'car', 'Ca_25664_v3' => 'car', 'CBR_g21818' => 'cbr', 'CBR_g31195' => 'cbr', 'CBR_g32282' => 'cbr', 'CBR_g39599' => 'cbr', 'CBR_g49410' => 'cbr', 'Cc01_g09120' => 'ccan', 'Cc01_g09130' => 'ccan', 'Cc02_g09630' => 'ccan', 'Cc02_g22810' => 'ccan', 'Cc03_g03810' => 'ccan', 'CDE02G3718' => 'cde', 'CDE04G3183' => 'cde', 'CDE07G1046' => 'cde', 'CDE08G0480' => 'cde', 'Cfa005493' => 'cfa', 'Cfa010312' => 'cfa', 'Cfa015648' => 'cfa', 'Ciclev10002793m.g' => 'ccl', 'Ciclev10003356m.g' => 'ccl', 'Ciclev10006141m.g' => 'ccl', 'Ciclev10016676m.g' => 'ccl', 'Ciclev10017081m.g' => 'ccl', 'Ciclev10029499m.g' => 'ccl', 'CiPaw.01G166300' => 'cil', 'CiPaw.06G145600' => 'cil', 'CiPaw.13G040100' => 'cil', 'CiPaw.13G135800' => 'cil', 'ClCG01G012230' => 'cla', 'ClCG05G009510' => 'cla', 'ClCG08G008270' => 'cla', 'COL.COLO4_11763' => 'col', 'COL.COLO4_19876' => 'col', 'COL.COLO4_21481' => 'col', 'Cpa.g.sc118.34' => 'cpa', 'Cpa.g.sc32.13' => 'cpa', 'Cpa.g.sc58.103' => 'cpa', 'Cre03.g183850' => 'cre', 'Cre06.g306350' => 'cre', 'Cre07.g334800' => 'cre', 'Cre12.g487900' => 'cre', 'Cre14.g626700' => 'cre', 'Cre16.g658400' => 'cre', 'Cre17.g700950' => 'cre', 'CsaV3_1G014830' => 'csa', 'CsaV3_3G013320' => 'csa', 'CsaV3_3G019210' => 'csa', 'CsaV3_3G019220' => 'csa', 'CsaV3_6G004230' => 'csa', 'CSS0003773' => 'camsi', 'CSS0004563' => 'camsi', 'CSS0013949' => 'camsi', 'CSS0025971' => 'camsi', 'CSS0028570' => 'camsi', 'CSS0033127' => 'camsi', 'CSS0036051' => 'camsi', 'CSS0040087' => 'camsi', 'CSS0043179' => 'camsi', 'DCAR_006161' => 'dca', 'DCAR_010351' => 'dca', 'DCAR_012197' => 'dca', 'DCAR_024162' => 'dca', 'Dinv01030' => 'din', 'Dinv10924' => 'din', 'Dinv11835' => 'din', 'Dinv22841' => 'din', 'Dinv42553' => 'din', 'Duzib052G0560' => 'dzi', 'Duzib132G0389' => 'dzi', 'Duzib150G1181' => 'dzi', 'Duzib168G0623' => 'dzi', 'Duzib170G1036' => 'dzi', 'Duzib212G0200' => 'dzi', 'Duzib248G0194' => 'dzi', 'ECA232G2193' => 'eca', 'ECA233G0302' => 'eca', 'ECA234G2813' => 'eca', 'ECA234G4866' => 'eca', 'ECA240G3932' => 'eca', 'ECA248G0385' => 'eca', 'EL10Ac2g04781' => 'bvu', 'EL10Ac3g06445' => 'bvu', 'EL10Ac7g15825' => 'bvu', 'EL10Ac8g18550' => 'bvu', 'Eucgr.B03849' => 'egr', 'Eucgr.I02744' => 'egr', 'Eucgr.J00264' => 'egr', 'Eucgr.J00493' => 'egr', 'FAN04G2181' => 'fan', 'FAN07G2666' => 'fan', 'FAN11G0024' => 'fan', 'FAN12G1105' => 'fan', 'FAN13G0302' => 'fan', 'FAN15G2781' => 'fan', 'FAN16G1274' => 'fan', 'FAN17G2988' => 'fan', 'FAN18G2621' => 'fan', 'FAN21G0013' => 'fan', 'FAN22G1211' => 'fan', 'FAN25G3626' => 'fan', 'FvH4_2g09491' => 'fve', 'FvH4_3g24910' => 'fve', 'FvH4_4g15630' => 'fve', 'FvH4_5g28820' => 'fve', 'Glyma.01G238000' => 'gma', 'Glyma.05G168400' => 'gma', 'Glyma.08G126800' => 'gma', 'Glyma.08G188500' => 'gma', 'Glyma.10G278900' => 'gma', 'Glyma.11G005700' => 'gma', 'Glyma.11G183300' => 'gma', 'Glyma.12G089200' => 'gma', 'Glyma.12G169400' => 'gma', 'Glyma.12G169500' => 'gma', 'Glyma.12G169600' => 'gma', 'Glyma.20G110800' => 'gma', 'Gohir.A03G192900' => 'ghi', 'Gohir.A03G193000' => 'ghi', 'Gohir.A05G080700' => 'ghi', 'Gohir.A09G216000' => 'ghi', 'Gohir.A12G027700' => 'ghi', 'Gohir.A13G036200' => 'ghi', 'Gohir.A13G222600' => 'ghi', 'Gohir.D02G213900' => 'ghi', 'Gohir.D02G214000' => 'ghi', 'Gohir.D05G083700' => 'ghi', 'Gohir.D05G083800' => 'ghi', 'Gohir.D05G083850' => 'ghi', 'Gohir.D08G015400' => 'ghi', 'Gohir.D09G218400' => 'ghi', 'Gohir.D12G027100' => 'ghi', 'Gohir.D13G034500' => 'ghi', 'Gohir.D13G227400' => 'ghi', 'Gorai.005G241800' => 'gra', 'Gorai.005G241900' => 'gra', 'Gorai.006G239400' => 'gra', 'Gorai.008G027600' => 'gra', 'Gorai.009G085400' => 'gra', 'Gorai.009G085500' => 'gra', 'Gorai.013G039000' => 'gra', 'Gorai.013G194800' => 'gra', 'Gorai.013G257900' => 'gra', 'GSVIVG01000982001' => 'vvi', 'GSVIVG01017981001' => 'vvi', 'HanXRQChr01g0024061' => 'han', 'HanXRQChr09g0247831' => 'han', 'HanXRQChr10g0294611' => 'han', 'HanXRQChr10g0294621' => 'han', 'HanXRQChr11g0346821' => 'han', 'HanXRQChr13g0397461' => 'han', 'HanXRQChr16g0513651' => 'han', 'HanXRQChr16g0513701' => 'han', 'Haze_00897' => 'cav', 'Haze_01745' => 'cav', 'Haze_02486' => 'cav', 'Haze_02487' => 'cav', 'Haze_23374' => 'cav', 'Hma1.2p1_0578F.1_g182520' => 'hma', 'Hma1.2p1_0602F.1_g187350' => 'hma', 'Hma1.2p1_0602F.1_g187360' => 'hma', 'Hma1.2p1_0874F.1_g231320' => 'hma', 'Hma1.2p1_1197F.1_g266210' => 'hma', 'Hma1.2p1_1197F.1_g266220' => 'hma', 'Hma1.2p1_2167F.1_g315895' => 'hma', 'Hma1.2p1_2190F.1_g316640' => 'hma', 'Hma1.2p1_3645F.1_g337153' => 'hma', 'HPP92_004907' => 'vpl', 'HPP92_012134' => 'vpl', 'HPP92_025136' => 'vpl', 'HPP92_026087' => 'vpl', 'Hund06782' => 'sun', 'Hund06784' => 'sun', 'Lalb_Chr01g0004861' => 'lal', 'Lalb_Chr02g0140591' => 'lal', 'Lalb_Chr02g0140611' => 'lal', 'Lalb_Chr03g0028101' => 'lal', 'Lalb_Chr07g0185791' => 'lal', 'Lalb_Chr12g0204491' => 'lal', 'Lalb_Chr13g0295671' => 'lal', 'Lalb_Chr19g0136461' => 'lal', 'Lalb_Chr21g0309191' => 'lal', 'Lj1g0028158' => 'lja', 'Lj1P236T38' => 'lonja', 'Lj2C32G2' => 'lonja', 'Lj2P944T8' => 'lonja', 'Lj2P963T15' => 'lonja', 'Lj3g0011788' => 'lja', 'Lj4g0025027' => 'lja', 'Lj5P255T36' => 'lonja', 'Lj6g0018866' => 'lja', 'Lj6P608T31' => 'lonja', 'LjContig00408g0008879' => 'lja', 'Lsat_1_v5_gn_5_105820' => 'lsa', 'Lsat_1_v5_gn_6_38800' => 'lsa', 'Lsat_1_v5_gn_7_67141' => 'lsa', 'Manes.04G003400' => 'mes', 'Manes.07G020000' => 'mes', 'Manes.07G020100' => 'mes', 'Manes.07G020150' => 'mes', 'Manes.10G061500' => 'mes', 'Manes.10G123200' => 'mes', 'Manes.11G161900' => 'mes', 'Manes.15G029300' => 'mes', 'Mapoly0071s0018' => 'mpo', 'Mapoly0082s0023' => 'mpo', 'Mapoly3477s0001' => 'mpo', 'MBI05_g31233_MAGBIO' => 'mbi', 'MBI09_g05946_MAGBIO' => 'mbi', 'MBI09_g05947_MAGBIO' => 'mbi', 'MBI17_g08346_MAGBIO' => 'mbi', 'MCO04G038' => 'mco', 'MCO09G370' => 'mco', 'MCO13G605' => 'mco', 'MD00G1075500' => 'mdo', 'MD03G1144300' => 'mdo', 'MD08G1236800' => 'mdo', 'MD13G1193300' => 'mdo', 'MD15G1428700' => 'mdo', 'Medtr1g112030' => 'mtr', 'Medtr1g112050' => 'mtr', 'Medtr2g006290' => 'mtr', 'Medtr2g086510' => 'mtr', 'Medtr4g053120' => 'mtr', 'Medtr5g006320' => 'mtr', 'Medtr8g088720' => 'mtr', 'MELO3C004712.2' => 'cme', 'MELO3C006533.2' => 'cme', 'MELO3C019438.2' => 'cme', 'MELO3C019440.2' => 'cme', 'MELO3C019441.2' => 'cme', 'MELO3C019895.2' => 'cme', 'Migut.B00811' => 'egut', 'Migut.D02447' => 'egut', 'Migut.F00875' => 'egut', 'Migut.N00186' => 'egut', 'Migut.N01051' => 'egut', 'Migut.N02491' => 'egut', 'Migut.O00784' => 'egut', 'MSTRG.12367' => 'ama', 'MSTRG.18756' => 'ama', 'MSTRG.21042' => 'ama', 'Nitab4.5_0000559g0040' => 'nta', 'Nitab4.5_0000667g0190' => 'nta', 'Nitab4.5_0000755g0160' => 'nta', 'Nitab4.5_0001216g0080' => 'nta', 'Nitab4.5_0004069g0040' => 'nta', 'Nitab4.5_0004129g0010' => 'nta', 'Nitab4.5_0005744g0030' => 'nta', 'Nitab4.5_0006996g0030' => 'nta', 'Nitab4.5_0008971g0040' => 'nta', 'Nitab4.5_0009769g0020' => 'nta', 'Nitab4.5_0009833g0010' => 'nta', 'Nitab4.5_0013140g0020' => 'nta', 'Nn003s41376' => 'nnu', 'Nn1g01857' => 'nnu', 'Nn1g03611' => 'nnu', 'Nn1g06853' => 'nnu', 'Nn3g18360' => 'nnu', 'Nn4g26328' => 'nnu', 'Nn5g27531' => 'nnu', 'Nn6g34899' => 'nnu', 'Nn7g36299' => 'nnu', 'Oeu021485.1' => 'oeu', 'Oeu022433.1' => 'oeu', 'Oeu032111.1' => 'oeu', 'Oeu051608.1' => 'oeu', 'Os01g0860601' => 'osa', 'Os03g0659200' => 'osa', 'Os03g0835900' => 'osa', 'Os04g0412200' => 'osa', 'Os05g0443500' => 'osa', 'Os07g0251500' => 'osa', 'Os08g0104600' => 'osa', 'Peaxi162Scf00003g00047' => 'pax', 'Peaxi162Scf00003g00052' => 'pax', 'Peaxi162Scf00003g00394' => 'pax', 'Peaxi162Scf00091g00621' => 'pax', 'Peaxi162Scf00152g00146' => 'pax', 'Peaxi162Scf00173g00025' => 'pax', 'Peaxi162Scf00195g00102' => 'pax', 'Peaxi162Scf00402g00013' => 'pax', 'Peaxi162Scf00519g00618' => 'pax', 'PGR004G2838' => 'pgr', 'PGR044G2275' => 'pgr', 'PGR102G1377' => 'pgr', 'PGR119G1245' => 'pgr', 'PGR142G4449' => 'pgr', 'PGSC0003DMG400004532' => 'stu', 'PGSC0003DMG400011950' => 'stu', 'PGSC0003DMG400023391' => 'stu', 'PGSC0003DMG400023985' => 'stu', 'PGSC0003DMG400026360' => 'stu', 'PGSC0003DMG400035711' => 'stu', 'PGSC0003DMG400037286' => 'stu', 'PGSC0003DMG402005881' => 'stu', 'Phvul.002G045400' => 'pvu', 'Phvul.006G216600' => 'pvu', 'Phvul.006G216700' => 'pvu', 'Phvul.006G216800' => 'pvu', 'Phvul.007G022500' => 'pvu', 'Phvul.011G094400' => 'pvu', 'Potri.001G470700' => 'ptr', 'Potri.003G015200' => 'ptr', 'Potri.004G202500' => 'ptr', 'Potri.004G218400' => 'ptr', 'Potri.008G020100' => 'ptr', 'Potri.008G153200' => 'ptr', 'Potri.009G163800' => 'ptr', 'Potri.010G087300' => 'ptr', 'Potri.010G239100' => 'ptr', 'Pp3c10_16100' => 'ppa', 'Pp3c10_16880' => 'ppa', 'Pp3c16_6230' => 'ppa', 'Pp3c17_18910' => 'ppa', 'Pp3c3_22119' => 'ppa', 'Pp3c3_22140' => 'ppa', 'Pp3c4_8159' => 'ppa', 'Pp3c4_8171' => 'ppa', 'Pp3c4_8330' => 'ppa', 'PRCOL_00004098' => 'pco', 'Prupe.1G013900' => 'ppe', 'Prupe.1G226300' => 'ppe', 'Prupe.1G573600' => 'ppe', 'Prupe.6G130100' => 'ppe', 'Psat3g090040' => 'psa', 'Psat4g210440' => 'psa', 'Psat6g231040' => 'psa', 'Psat6g231080' => 'psa', 'Psat7g063000' => 'psa', 'Psat7g188000' => 'psa', 'Psat7g188040' => 'psa', 'PSO017G0206' => 'pso', 'PSO170G0501' => 'pso', 'PSO170G6422' => 'pso', 'PSO210G7739' => 'pso', 'PSO339G1808' => 'pso', 'PSO339G6135' => 'pso', 'PSO384G0010' => 'pso', 'PSO384G0964' => 'pso', 'PSO761G0050' => 'pso', 'PSO782G4085' => 'pso', 'QL01p012264' => 'qlo', 'QL02p099491' => 'qlo', 'QL03p033868' => 'qlo', 'QL04p046678' => 'qlo', 'QL06p002448' => 'qlo', 'RcHm_v2.0_Chr4g0416181' => 'rch', 'RcHm_v2.0_Chr5g0044701' => 'rch', 'RcHm_v2.0_Chr6g0265781' => 'rch', 'RcHm_v2.0_Chr7g0221031' => 'rch', 'Rhsim04G0202000' => 'rsi', 'Rhsim11G0127300' => 'rsi', 'Rhsim13G0111800' => 'rsi', 'Sabra01G0165600' => 'sbr', 'Sabra03G0008300' => 'sbr', 'Sabra04G0136900' => 'sbr', 'Sabra08G0013400' => 'sbr', 'Sabra08G0116800' => 'sbr', 'Sabra09G0128000' => 'sbr', 'Sabra10G0055500' => 'sbr', 'Sabra10G0073300' => 'sbr', 'SalBow3G0385' => 'sbo', 'SalBow3G1119' => 'sbo', 'SalBow3G2005' => 'sbo', 'SalBow6G2563' => 'sbo', 'SalBow6G6386' => 'sbo', 'Sc06g0008800' => 'sci', 'Sc07g0004950' => 'sci', 'Sc09g0005340' => 'sci', 'Sc13g0004410' => 'sci', 'Sc21g0007090' => 'sci', 'Sed0009285' => 'sed', 'Sed0017583' => 'sed', 'Sed0019699' => 'sed', 'Sed0023107' => 'sed', 'SEGI_10916' => 'sgi', 'SEGI_16217' => 'sgi', 'SEGI_19466' => 'sgi', 'SEGI_41115' => 'sgi', 'SGA_v2.0_scaffold111G31534' => 'sas', 'SGA_v2.0_scaffold22G09864' => 'sas', 'SGA_v2.0_scaffold338G49219' => 'sas', 'SGA_v2.0_scaffold92G28298' => 'sas', 'SMO119G0064' => 'smo', 'SMO223G0038' => 'smo', 'SMO347G0584' => 'smo', 'SMO351G0010' => 'smo', 'SMO356G0404' => 'smo', 'Solyc01g103920.3' => 'sly', 'Solyc04g009710.2' => 'sly', 'Solyc05g055280.2' => 'sly', 'Solyc10g044520.3' => 'sly', 'Solyc10g075160.1' => 'sly', 'Solyc11g006910.3' => 'sly', 'Solyc11g068430.3' => 'sly', 'Sopen01g046310' => 'spe', 'Sopen03g001200' => 'spe', 'Sopen04g004830' => 'spe', 'Sopen05g033720' => 'spe', 'Sopen06g030740' => 'spe', 'Sopen10g013090' => 'spe', 'Sopen10g027630' => 'spe', 'Sopen10g027640' => 'spe', 'Sopen11g002820' => 'spe', 'Sopen11g027140' => 'spe', 'Sp1g09680' => 'spa', 'Sp2g03630' => 'spa', 'Sp4g10320' => 'spa', 'Sp6g33400' => 'spa', 'Sp7g13030' => 'spa', 'TAR365G0317' => 'tar', 'TAR376G0979' => 'tar', 'TAR623G1665' => 'tar', 'TAR633G2373' => 'tar', 'TAR636G1400' => 'tar', 'THA.LOC104800529' => 'tha', 'THA.LOC104808547' => 'tha', 'THA.LOC104809615' => 'tha', 'THA.LOC104815724' => 'tha', 'THA.LOC104818480' => 'tha', 'THA.LOC104819179' => 'tha', 'THA.LOC104822270' => 'tha', 'THA.LOC104826425' => 'tha', 'Thecc.02G089700' => 'tca', 'Thecc.04G232300' => 'tca', 'Thecc.09G283400' => 'tca', 'Thhalv10009020m.g' => 'esa', 'Thhalv10015506m.g' => 'esa', 'Thhalv10017364m.g' => 'esa', 'Thhalv10023742m.g' => 'esa', 'Thhalv10026483m.g' => 'esa', 'TPR.G17232' => 'tpr', 'TPR.G2133' => 'tpr', 'TPR.G2498' => 'tpr', 'TPR.G31942' => 'tpr', 'TPR.G37877' => 'tpr', 'TPR.G4571' => 'tpr', 'TWI14G1113' => 'twi', 'TWI15G0426' => 'twi', 'TWI31G1005' => 'twi', 'TWI38G0513' => 'twi', 'TWI38G1484' => 'twi', 'TWI73G1098' => 'twi', 'unitig_26.g10519' => 'ugi', 'unitig_736.g22395' => 'ugi', 'unitig_747.g21234' => 'ugi', 'unitig_747.g21942' => 'ugi', 'vmacro14351' => 'vma', 'VMungo0540G0082' => 'vmu', 'VMungo0540G0405' => 'vmu', 'VMungo0540G1486' => 'vmu', 'VMungo0540G1692' => 'vmu', 'VMungo0720G2473' => 'vmu', 'VMungo1127G1562' => 'vmu', 'VMungo1215G1918' => 'vmu', 'Zm00001eb052650' => 'zma', 'Zm00001eb063710' => 'zma', 'Zm00001eb083950' => 'zma', 'Zm00001eb174420' => 'zma', 'Zm00001eb260140' => 'zma', 'Zm00001eb260150' => 'zma', 'Zm00001eb260160' => 'zma', 'Zm00001eb348290' => 'zma', 'Zm00001eb366870' => 'zma', 'Zm00001eb421930' => 'zma' ), 'gf_id' => 'HOM05D001025', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001025' ), 'data_identifier' => 'HOM05D001025', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001025', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '592', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p22650' => 'bna', 'A01p29720' => 'bna', 'A03p26560' => 'bna', 'A03p68820' => 'bna', 'A04p20980' => 'bna', 'A06p07730' => 'bna', 'A07p18260' => 'bna', 'A08p33710' => 'bna', 'A09p16970' => 'bna', 'A10p27490' => 'bna', 'Aa31LG1G17300' => 'aar', 'Aa31LG1G3910' => 'aar', 'Aa31LG2G9630' => 'aar', 'Aa31LG5G8360' => 'aar', 'Aa31LG9G2410' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4699' => 'aag', 'Actinidia23512' => 'ach', 'Actinidia37080' => 'ach', 'Ah.01g020380' => 'amhyb', 'Ah.08g215710' => 'amhyb', 'Ah.09g225110' => 'amhyb', 'Ah.10g036680' => 'amhyb', 'AL1G21940' => 'aly', 'AL2G15540' => 'aly', 'AL4G21520' => 'aly', 'AL7G40960' => 'aly', 'Aqoxy2G01191' => 'aox', 'Aqoxy2G03393' => 'aox', 'Aqoxy4G02775' => 'aox', 'Aqoxy6G00058' => 'aox', 'arahy.Tifrunner.gnm1.ann1.9X74H2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CW3FX9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R485W7' => 'arhy', 'AT1G10960' => 'ath', 'AT1G60950' => 'ath', 'AT2G27510' => 'ath', 'AT4G14890' => 'ath', 'AT5G10000' => 'ath', 'ATR0665G624' => 'atr', 'ATR0697G138' => 'atr', 'ATR0776G046' => 'atr', 'ATR1134G135' => 'atr', 'Atru.chr12.1025' => 'acertr', 'Atru.chr3.3241' => 'acertr', 'Atru.chr4.2460' => 'acertr', 'AUR62007427' => 'cqu', 'AUR62010960' => 'cqu', 'AUR62012201' => 'cqu', 'AUR62021470' => 'cqu', 'AUR62022834' => 'cqu', 'AUR62033635' => 'cqu', 'AUR62036186' => 'cqu', 'BcaB01g03077' => 'bca', 'BcaB02g10093' => 'bca', 'BcaB04g20295' => 'bca', 'BcaB06g28147' => 'bca', 'BcaB07g31253' => 'bca', 'BcaC01g04946' => 'bca', 'BcaC02g10614' => 'bca', 'BcaC02g10885' => 'bca', 'BcaC04g19356' => 'bca', 'BcaC04g22297' => 'bca', 'BcaC05g24977' => 'bca', 'BcaC06g31823' => 'bca', 'BcaC07g38633' => 'bca', 'BcaC09g49353' => 'bca', 'BcaC09g50168' => 'bca', 'BcaNung00322' => 'bca', 'BcaNung04769' => 'bca', 'BolC1t02753H' => 'bol', 'BolC1t03721H' => 'bol', 'BolC3t15525H' => 'bol', 'BolC4t23903H' => 'bol', 'BolC4t24231H' => 'bol', 'BolC4t27209H' => 'bol', 'BolC5t29671H' => 'bol', 'BolC8t49044H' => 'bol', 'BolC9t54999H' => 'bol', 'BolC9t59517H' => 'bol', 'BraA01t02178Z' => 'bra', 'BraA01t03099Z' => 'bra', 'BraA03t11867Z' => 'bra', 'BraA04t17667Z' => 'bra', 'BraA07t29542Z' => 'bra', 'BraA08t35287Z' => 'bra', 'BraA09t37334Z' => 'bra', 'BraA10t44801Z' => 'bra', 'BraSC39t46181Z' => 'bra', 'C01p28240' => 'bna', 'C01p37530' => 'bna', 'C03p31820' => 'bna', 'C04p24080' => 'bna', 'C04p25790' => 'bna', 'C04p56770' => 'bna', 'C05p09310' => 'bna', 'C09p21010' => 'bna', 'C09p67560' => 'bna', 'CAN.G1324.7' => 'can', 'CAN.G1358.10' => 'can', 'CAN.G1550.2' => 'can', 'CAN.G186.56' => 'can', 'CAN.G1965.1' => 'can', 'CAN.G645.15' => 'can', 'CAN.G798.26' => 'can', 'CAN.G798.27' => 'can', 'CAN.G798.29' => 'can', 'CAN.G919.31' => 'can', 'CANSAT11G0133' => 'cansat', 'CANSAT11G1171' => 'cansat', 'CANSAT11G2056' => 'cansat', 'CANSAT56G1202' => 'cansat', 'CANSAT56G1514' => 'cansat', 'CANSAT78G0455' => 'cansat', 'CARHR011190' => 'chi', 'CARHR051980' => 'chi', 'CARHR120170' => 'chi', 'CARHR203310' => 'chi', 'CARHR221490' => 'chi', 'Carub.0001s1054' => 'cru', 'Carub.0002s0431' => 'cru', 'Carub.0004s0818' => 'cru', 'Carub.0006s0846' => 'cru', 'Carub.0007s2722' => 'cru', 'Ca_00058_v3' => 'car', 'Ca_17831_v3' => 'car', 'Ca_19408_v3' => 'car', 'Ca_24397_v3' => 'car', 'Ca_25664_v3' => 'car', 'CBR_g21818' => 'cbr', 'CBR_g31195' => 'cbr', 'CBR_g32282' => 'cbr', 'CBR_g39599' => 'cbr', 'CBR_g49410' => 'cbr', 'Cc01_g09120' => 'ccan', 'Cc01_g09130' => 'ccan', 'Cc02_g09630' => 'ccan', 'Cc02_g22810' => 'ccan', 'Cc03_g03810' => 'ccan', 'CDE02G3718' => 'cde', 'CDE04G3183' => 'cde', 'CDE07G1046' => 'cde', 'CDE08G0480' => 'cde', 'Cfa005493' => 'cfa', 'Cfa010312' => 'cfa', 'Cfa015648' => 'cfa', 'Ciclev10002793m.g' => 'ccl', 'Ciclev10003356m.g' => 'ccl', 'Ciclev10006141m.g' => 'ccl', 'Ciclev10016676m.g' => 'ccl', 'Ciclev10017081m.g' => 'ccl', 'Ciclev10029499m.g' => 'ccl', 'CiPaw.01G166300' => 'cil', 'CiPaw.06G145600' => 'cil', 'CiPaw.13G040100' => 'cil', 'CiPaw.13G135800' => 'cil', 'ClCG01G012230' => 'cla', 'ClCG05G009510' => 'cla', 'ClCG08G008270' => 'cla', 'COL.COLO4_11763' => 'col', 'COL.COLO4_19876' => 'col', 'COL.COLO4_21481' => 'col', 'Cpa.g.sc118.34' => 'cpa', 'Cpa.g.sc32.13' => 'cpa', 'Cpa.g.sc58.103' => 'cpa', 'Cre03.g183850' => 'cre', 'Cre06.g306350' => 'cre', 'Cre07.g334800' => 'cre', 'Cre12.g487900' => 'cre', 'Cre14.g626700' => 'cre', 'Cre16.g658400' => 'cre', 'Cre17.g700950' => 'cre', 'CsaV3_1G014830' => 'csa', 'CsaV3_3G013320' => 'csa', 'CsaV3_3G019210' => 'csa', 'CsaV3_3G019220' => 'csa', 'CsaV3_6G004230' => 'csa', 'CSS0003773' => 'camsi', 'CSS0004563' => 'camsi', 'CSS0013949' => 'camsi', 'CSS0025971' => 'camsi', 'CSS0028570' => 'camsi', 'CSS0033127' => 'camsi', 'CSS0036051' => 'camsi', 'CSS0040087' => 'camsi', 'CSS0043179' => 'camsi', 'DCAR_006161' => 'dca', 'DCAR_010351' => 'dca', 'DCAR_012197' => 'dca', 'DCAR_024162' => 'dca', 'Dinv01030' => 'din', 'Dinv10924' => 'din', 'Dinv11835' => 'din', 'Dinv22841' => 'din', 'Dinv42553' => 'din', 'Duzib052G0560' => 'dzi', 'Duzib132G0389' => 'dzi', 'Duzib150G1181' => 'dzi', 'Duzib168G0623' => 'dzi', 'Duzib170G1036' => 'dzi', 'Duzib212G0200' => 'dzi', 'Duzib248G0194' => 'dzi', 'ECA232G2193' => 'eca', 'ECA233G0302' => 'eca', 'ECA234G2813' => 'eca', 'ECA234G4866' => 'eca', 'ECA240G3932' => 'eca', 'ECA248G0385' => 'eca', 'EL10Ac2g04781' => 'bvu', 'EL10Ac3g06445' => 'bvu', 'EL10Ac7g15825' => 'bvu', 'EL10Ac8g18550' => 'bvu', 'Eucgr.B03849' => 'egr', 'Eucgr.I02744' => 'egr', 'Eucgr.J00264' => 'egr', 'Eucgr.J00493' => 'egr', 'FAN04G2181' => 'fan', 'FAN07G2666' => 'fan', 'FAN11G0024' => 'fan', 'FAN12G1105' => 'fan', 'FAN13G0302' => 'fan', 'FAN15G2781' => 'fan', 'FAN16G1274' => 'fan', 'FAN17G2988' => 'fan', 'FAN18G2621' => 'fan', 'FAN21G0013' => 'fan', 'FAN22G1211' => 'fan', 'FAN25G3626' => 'fan', 'FvH4_2g09491' => 'fve', 'FvH4_3g24910' => 'fve', 'FvH4_4g15630' => 'fve', 'FvH4_5g28820' => 'fve', 'Glyma.01G238000' => 'gma', 'Glyma.05G168400' => 'gma', 'Glyma.08G126800' => 'gma', 'Glyma.08G188500' => 'gma', 'Glyma.10G278900' => 'gma', 'Glyma.11G005700' => 'gma', 'Glyma.11G183300' => 'gma', 'Glyma.12G089200' => 'gma', 'Glyma.12G169400' => 'gma', 'Glyma.12G169500' => 'gma', 'Glyma.12G169600' => 'gma', 'Glyma.20G110800' => 'gma', 'Gohir.A03G192900' => 'ghi', 'Gohir.A03G193000' => 'ghi', 'Gohir.A05G080700' => 'ghi', 'Gohir.A09G216000' => 'ghi', 'Gohir.A12G027700' => 'ghi', 'Gohir.A13G036200' => 'ghi', 'Gohir.A13G222600' => 'ghi', 'Gohir.D02G213900' => 'ghi', 'Gohir.D02G214000' => 'ghi', 'Gohir.D05G083700' => 'ghi', 'Gohir.D05G083800' => 'ghi', 'Gohir.D05G083850' => 'ghi', 'Gohir.D08G015400' => 'ghi', 'Gohir.D09G218400' => 'ghi', 'Gohir.D12G027100' => 'ghi', 'Gohir.D13G034500' => 'ghi', 'Gohir.D13G227400' => 'ghi', 'Gorai.005G241800' => 'gra', 'Gorai.005G241900' => 'gra', 'Gorai.006G239400' => 'gra', 'Gorai.008G027600' => 'gra', 'Gorai.009G085400' => 'gra', 'Gorai.009G085500' => 'gra', 'Gorai.013G039000' => 'gra', 'Gorai.013G194800' => 'gra', 'Gorai.013G257900' => 'gra', 'GSVIVG01000982001' => 'vvi', 'GSVIVG01017981001' => 'vvi', 'HanXRQChr01g0024061' => 'han', 'HanXRQChr09g0247831' => 'han', 'HanXRQChr10g0294611' => 'han', 'HanXRQChr10g0294621' => 'han', 'HanXRQChr11g0346821' => 'han', 'HanXRQChr13g0397461' => 'han', 'HanXRQChr16g0513651' => 'han', 'HanXRQChr16g0513701' => 'han', 'Haze_00897' => 'cav', 'Haze_01745' => 'cav', 'Haze_02486' => 'cav', 'Haze_02487' => 'cav', 'Haze_23374' => 'cav', 'Hma1.2p1_0578F.1_g182520' => 'hma', 'Hma1.2p1_0602F.1_g187350' => 'hma', 'Hma1.2p1_0602F.1_g187360' => 'hma', 'Hma1.2p1_0874F.1_g231320' => 'hma', 'Hma1.2p1_1197F.1_g266210' => 'hma', 'Hma1.2p1_1197F.1_g266220' => 'hma', 'Hma1.2p1_2167F.1_g315895' => 'hma', 'Hma1.2p1_2190F.1_g316640' => 'hma', 'Hma1.2p1_3645F.1_g337153' => 'hma', 'HPP92_004907' => 'vpl', 'HPP92_012134' => 'vpl', 'HPP92_025136' => 'vpl', 'HPP92_026087' => 'vpl', 'Hund06782' => 'sun', 'Hund06784' => 'sun', 'Lalb_Chr01g0004861' => 'lal', 'Lalb_Chr02g0140591' => 'lal', 'Lalb_Chr02g0140611' => 'lal', 'Lalb_Chr03g0028101' => 'lal', 'Lalb_Chr07g0185791' => 'lal', 'Lalb_Chr12g0204491' => 'lal', 'Lalb_Chr13g0295671' => 'lal', 'Lalb_Chr19g0136461' => 'lal', 'Lalb_Chr21g0309191' => 'lal', 'Lj1g0028158' => 'lja', 'Lj1P236T38' => 'lonja', 'Lj2C32G2' => 'lonja', 'Lj2P944T8' => 'lonja', 'Lj2P963T15' => 'lonja', 'Lj3g0011788' => 'lja', 'Lj4g0025027' => 'lja', 'Lj5P255T36' => 'lonja', 'Lj6g0018866' => 'lja', 'Lj6P608T31' => 'lonja', 'LjContig00408g0008879' => 'lja', 'Lsat_1_v5_gn_5_105820' => 'lsa', 'Lsat_1_v5_gn_6_38800' => 'lsa', 'Lsat_1_v5_gn_7_67141' => 'lsa', 'Manes.04G003400' => 'mes', 'Manes.07G020000' => 'mes', 'Manes.07G020100' => 'mes', 'Manes.07G020150' => 'mes', 'Manes.10G061500' => 'mes', 'Manes.10G123200' => 'mes', 'Manes.11G161900' => 'mes', 'Manes.15G029300' => 'mes', 'Mapoly0071s0018' => 'mpo', 'Mapoly0082s0023' => 'mpo', 'Mapoly3477s0001' => 'mpo', 'MBI05_g31233_MAGBIO' => 'mbi', 'MBI09_g05946_MAGBIO' => 'mbi', 'MBI09_g05947_MAGBIO' => 'mbi', 'MBI17_g08346_MAGBIO' => 'mbi', 'MCO04G038' => 'mco', 'MCO09G370' => 'mco', 'MCO13G605' => 'mco', 'MD00G1075500' => 'mdo', 'MD03G1144300' => 'mdo', 'MD08G1236800' => 'mdo', 'MD13G1193300' => 'mdo', 'MD15G1428700' => 'mdo', 'Medtr1g112030' => 'mtr', 'Medtr1g112050' => 'mtr', 'Medtr2g006290' => 'mtr', 'Medtr2g086510' => 'mtr', 'Medtr4g053120' => 'mtr', 'Medtr5g006320' => 'mtr', 'Medtr8g088720' => 'mtr', 'MELO3C004712.2' => 'cme', 'MELO3C006533.2' => 'cme', 'MELO3C019438.2' => 'cme', 'MELO3C019440.2' => 'cme', 'MELO3C019441.2' => 'cme', 'MELO3C019895.2' => 'cme', 'Migut.B00811' => 'egut', 'Migut.D02447' => 'egut', 'Migut.F00875' => 'egut', 'Migut.N00186' => 'egut', 'Migut.N01051' => 'egut', 'Migut.N02491' => 'egut', 'Migut.O00784' => 'egut', 'MSTRG.12367' => 'ama', 'MSTRG.18756' => 'ama', 'MSTRG.21042' => 'ama', 'Nitab4.5_0000559g0040' => 'nta', 'Nitab4.5_0000667g0190' => 'nta', 'Nitab4.5_0000755g0160' => 'nta', 'Nitab4.5_0001216g0080' => 'nta', 'Nitab4.5_0004069g0040' => 'nta', 'Nitab4.5_0004129g0010' => 'nta', 'Nitab4.5_0005744g0030' => 'nta', 'Nitab4.5_0006996g0030' => 'nta', 'Nitab4.5_0008971g0040' => 'nta', 'Nitab4.5_0009769g0020' => 'nta', 'Nitab4.5_0009833g0010' => 'nta', 'Nitab4.5_0013140g0020' => 'nta', 'Nn003s41376' => 'nnu', 'Nn1g01857' => 'nnu', 'Nn1g03611' => 'nnu', 'Nn1g06853' => 'nnu', 'Nn3g18360' => 'nnu', 'Nn4g26328' => 'nnu', 'Nn5g27531' => 'nnu', 'Nn6g34899' => 'nnu', 'Nn7g36299' => 'nnu', 'Oeu021485.1' => 'oeu', 'Oeu022433.1' => 'oeu', 'Oeu032111.1' => 'oeu', 'Oeu051608.1' => 'oeu', 'Os01g0860601' => 'osa', 'Os03g0659200' => 'osa', 'Os03g0835900' => 'osa', 'Os04g0412200' => 'osa', 'Os05g0443500' => 'osa', 'Os07g0251500' => 'osa', 'Os08g0104600' => 'osa', 'Peaxi162Scf00003g00047' => 'pax', 'Peaxi162Scf00003g00052' => 'pax', 'Peaxi162Scf00003g00394' => 'pax', 'Peaxi162Scf00091g00621' => 'pax', 'Peaxi162Scf00152g00146' => 'pax', 'Peaxi162Scf00173g00025' => 'pax', 'Peaxi162Scf00195g00102' => 'pax', 'Peaxi162Scf00402g00013' => 'pax', 'Peaxi162Scf00519g00618' => 'pax', 'PGR004G2838' => 'pgr', 'PGR044G2275' => 'pgr', 'PGR102G1377' => 'pgr', 'PGR119G1245' => 'pgr', 'PGR142G4449' => 'pgr', 'PGSC0003DMG400004532' => 'stu', 'PGSC0003DMG400011950' => 'stu', 'PGSC0003DMG400023391' => 'stu', 'PGSC0003DMG400023985' => 'stu', 'PGSC0003DMG400026360' => 'stu', 'PGSC0003DMG400035711' => 'stu', 'PGSC0003DMG400037286' => 'stu', 'PGSC0003DMG402005881' => 'stu', 'Phvul.002G045400' => 'pvu', 'Phvul.006G216600' => 'pvu', 'Phvul.006G216700' => 'pvu', 'Phvul.006G216800' => 'pvu', 'Phvul.007G022500' => 'pvu', 'Phvul.011G094400' => 'pvu', 'Potri.001G470700' => 'ptr', 'Potri.003G015200' => 'ptr', 'Potri.004G202500' => 'ptr', 'Potri.004G218400' => 'ptr', 'Potri.008G020100' => 'ptr', 'Potri.008G153200' => 'ptr', 'Potri.009G163800' => 'ptr', 'Potri.010G087300' => 'ptr', 'Potri.010G239100' => 'ptr', 'Pp3c10_16100' => 'ppa', 'Pp3c10_16880' => 'ppa', 'Pp3c16_6230' => 'ppa', 'Pp3c17_18910' => 'ppa', 'Pp3c3_22119' => 'ppa', 'Pp3c3_22140' => 'ppa', 'Pp3c4_8159' => 'ppa', 'Pp3c4_8171' => 'ppa', 'Pp3c4_8330' => 'ppa', 'PRCOL_00004098' => 'pco', 'Prupe.1G013900' => 'ppe', 'Prupe.1G226300' => 'ppe', 'Prupe.1G573600' => 'ppe', 'Prupe.6G130100' => 'ppe', 'Psat3g090040' => 'psa', 'Psat4g210440' => 'psa', 'Psat6g231040' => 'psa', 'Psat6g231080' => 'psa', 'Psat7g063000' => 'psa', 'Psat7g188000' => 'psa', 'Psat7g188040' => 'psa', 'PSO017G0206' => 'pso', 'PSO170G0501' => 'pso', 'PSO170G6422' => 'pso', 'PSO210G7739' => 'pso', 'PSO339G1808' => 'pso', 'PSO339G6135' => 'pso', 'PSO384G0010' => 'pso', 'PSO384G0964' => 'pso', 'PSO761G0050' => 'pso', 'PSO782G4085' => 'pso', 'QL01p012264' => 'qlo', 'QL02p099491' => 'qlo', 'QL03p033868' => 'qlo', 'QL04p046678' => 'qlo', 'QL06p002448' => 'qlo', 'RcHm_v2.0_Chr4g0416181' => 'rch', 'RcHm_v2.0_Chr5g0044701' => 'rch', 'RcHm_v2.0_Chr6g0265781' => 'rch', 'RcHm_v2.0_Chr7g0221031' => 'rch', 'Rhsim04G0202000' => 'rsi', 'Rhsim11G0127300' => 'rsi', 'Rhsim13G0111800' => 'rsi', 'Sabra01G0165600' => 'sbr', 'Sabra03G0008300' => 'sbr', 'Sabra04G0136900' => 'sbr', 'Sabra08G0013400' => 'sbr', 'Sabra08G0116800' => 'sbr', 'Sabra09G0128000' => 'sbr', 'Sabra10G0055500' => 'sbr', 'Sabra10G0073300' => 'sbr', 'SalBow3G0385' => 'sbo', 'SalBow3G1119' => 'sbo', 'SalBow3G2005' => 'sbo', 'SalBow6G2563' => 'sbo', 'SalBow6G6386' => 'sbo', 'Sc06g0008800' => 'sci', 'Sc07g0004950' => 'sci', 'Sc09g0005340' => 'sci', 'Sc13g0004410' => 'sci', 'Sc21g0007090' => 'sci', 'Sed0009285' => 'sed', 'Sed0017583' => 'sed', 'Sed0019699' => 'sed', 'Sed0023107' => 'sed', 'SEGI_10916' => 'sgi', 'SEGI_16217' => 'sgi', 'SEGI_19466' => 'sgi', 'SEGI_41115' => 'sgi', 'SGA_v2.0_scaffold111G31534' => 'sas', 'SGA_v2.0_scaffold22G09864' => 'sas', 'SGA_v2.0_scaffold338G49219' => 'sas', 'SGA_v2.0_scaffold92G28298' => 'sas', 'SMO119G0064' => 'smo', 'SMO223G0038' => 'smo', 'SMO347G0584' => 'smo', 'SMO351G0010' => 'smo', 'SMO356G0404' => 'smo', 'Solyc01g103920.3' => 'sly', 'Solyc04g009710.2' => 'sly', 'Solyc05g055280.2' => 'sly', 'Solyc10g044520.3' => 'sly', 'Solyc10g075160.1' => 'sly', 'Solyc11g006910.3' => 'sly', 'Solyc11g068430.3' => 'sly', 'Sopen01g046310' => 'spe', 'Sopen03g001200' => 'spe', 'Sopen04g004830' => 'spe', 'Sopen05g033720' => 'spe', 'Sopen06g030740' => 'spe', 'Sopen10g013090' => 'spe', 'Sopen10g027630' => 'spe', 'Sopen10g027640' => 'spe', 'Sopen11g002820' => 'spe', 'Sopen11g027140' => 'spe', 'Sp1g09680' => 'spa', 'Sp2g03630' => 'spa', 'Sp4g10320' => 'spa', 'Sp6g33400' => 'spa', 'Sp7g13030' => 'spa', 'TAR365G0317' => 'tar', 'TAR376G0979' => 'tar', 'TAR623G1665' => 'tar', 'TAR633G2373' => 'tar', 'TAR636G1400' => 'tar', 'THA.LOC104800529' => 'tha', 'THA.LOC104808547' => 'tha', 'THA.LOC104809615' => 'tha', 'THA.LOC104815724' => 'tha', 'THA.LOC104818480' => 'tha', 'THA.LOC104819179' => 'tha', 'THA.LOC104822270' => 'tha', 'THA.LOC104826425' => 'tha', 'Thecc.02G089700' => 'tca', 'Thecc.04G232300' => 'tca', 'Thecc.09G283400' => 'tca', 'Thhalv10009020m.g' => 'esa', 'Thhalv10015506m.g' => 'esa', 'Thhalv10017364m.g' => 'esa', 'Thhalv10023742m.g' => 'esa', 'Thhalv10026483m.g' => 'esa', 'TPR.G17232' => 'tpr', 'TPR.G2133' => 'tpr', 'TPR.G2498' => 'tpr', 'TPR.G31942' => 'tpr', 'TPR.G37877' => 'tpr', 'TPR.G4571' => 'tpr', 'TWI14G1113' => 'twi', 'TWI15G0426' => 'twi', 'TWI31G1005' => 'twi', 'TWI38G0513' => 'twi', 'TWI38G1484' => 'twi', 'TWI73G1098' => 'twi', 'unitig_26.g10519' => 'ugi', 'unitig_736.g22395' => 'ugi', 'unitig_747.g21234' => 'ugi', 'unitig_747.g21942' => 'ugi', 'vmacro14351' => 'vma', 'VMungo0540G0082' => 'vmu', 'VMungo0540G0405' => 'vmu', 'VMungo0540G1486' => 'vmu', 'VMungo0540G1692' => 'vmu', 'VMungo0720G2473' => 'vmu', 'VMungo1127G1562' => 'vmu', 'VMungo1215G1918' => 'vmu', 'Zm00001eb052650' => 'zma', 'Zm00001eb063710' => 'zma', 'Zm00001eb083950' => 'zma', 'Zm00001eb174420' => 'zma', 'Zm00001eb260140' => 'zma', 'Zm00001eb260150' => 'zma', 'Zm00001eb260160' => 'zma', 'Zm00001eb348290' => 'zma', 'Zm00001eb366870' => 'zma', 'Zm00001eb421930' => 'zma' ) $gf_id = 'HOM05D001025' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001025' ) $data_identifier = 'HOM05D001025' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 19, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 2, 'amhyb' => (int) 4, 'aly' => (int) 4, 'aox' => (int) 4, 'arhy' => (int) 3, 'ath' => (int) 5, 'atr' => (int) 4, 'acertr' => (int) 3, 'cqu' => (int) 7, 'bca' => (int) 17, 'bol' => (int) 10, 'bra' => (int) 9, 'can' => (int) 10, 'cansat' => (int) 6, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 5, 'cbr' => (int) 5, 'ccan' => (int) 5, 'cde' => (int) 4, 'cfa' => (int) 3, 'ccl' => (int) 6, 'cil' => (int) 4, 'cla' => (int) 3, 'col' => (int) 3, 'cpa' => (int) 3, 'cre' => (int) 7, 'csa' => (int) 5, 'camsi' => (int) 9, 'dca' => (int) 4, 'din' => (int) 5, 'dzi' => (int) 7, 'eca' => (int) 6, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 12, 'fve' => (int) 4, 'gma' => (int) 12, 'ghi' => (int) 17, 'gra' => (int) 9, 'vvi' => (int) 2, 'han' => (int) 8, 'cav' => (int) 5, 'hma' => (int) 9, 'vpl' => (int) 4, 'sun' => (int) 2, 'lal' => (int) 9, 'lja' => (int) 5, 'lonja' => (int) 6, 'lsa' => (int) 3, 'mes' => (int) 8, 'mpo' => (int) 3, 'mbi' => (int) 4, 'mco' => (int) 3, 'mdo' => (int) 5, 'mtr' => (int) 7, 'cme' => (int) 6, 'egut' => (int) 7, 'ama' => (int) 3, 'nta' => (int) 12, 'nnu' => (int) 9, 'oeu' => (int) 4, 'osa' => (int) 7, 'pax' => (int) 9, 'pgr' => (int) 5, 'stu' => (int) 8, 'pvu' => (int) 6, 'ptr' => (int) 9, 'ppa' => (int) 9, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 7, 'pso' => (int) 10, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 3, 'sbr' => (int) 8, 'sbo' => (int) 5, 'sci' => (int) 5, 'sed' => (int) 4, 'sgi' => (int) 4, 'sas' => (int) 4, 'smo' => (int) 5, 'sly' => (int) 7, 'spe' => (int) 10, 'spa' => (int) 5, 'tar' => (int) 5, 'tha' => (int) 8, 'tca' => (int) 3, 'esa' => (int) 5, 'tpr' => (int) 6, 'twi' => (int) 6, 'ugi' => (int) 4, 'vma' => (int) 1, 'vmu' => (int) 7, 'zma' => (int) 10 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb421930' $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' => 'HOM05D001025', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '592', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p22650' => 'bna', 'A01p29720' => 'bna', 'A03p26560' => 'bna', 'A03p68820' => 'bna', 'A04p20980' => 'bna', 'A06p07730' => 'bna', 'A07p18260' => 'bna', 'A08p33710' => 'bna', 'A09p16970' => 'bna', 'A10p27490' => 'bna', 'Aa31LG1G17300' => 'aar', 'Aa31LG1G3910' => 'aar', 'Aa31LG2G9630' => 'aar', 'Aa31LG5G8360' => 'aar', 'Aa31LG9G2410' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4699' => 'aag', 'Actinidia23512' => 'ach', 'Actinidia37080' => 'ach', 'Ah.01g020380' => 'amhyb', 'Ah.08g215710' => 'amhyb', 'Ah.09g225110' => 'amhyb', 'Ah.10g036680' => 'amhyb', 'AL1G21940' => 'aly', 'AL2G15540' => 'aly', 'AL4G21520' => 'aly', 'AL7G40960' => 'aly', 'Aqoxy2G01191' => 'aox', 'Aqoxy2G03393' => 'aox', 'Aqoxy4G02775' => 'aox', 'Aqoxy6G00058' => 'aox', 'arahy.Tifrunner.gnm1.ann1.9X74H2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CW3FX9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R485W7' => 'arhy', 'AT1G10960' => 'ath', 'AT1G60950' => 'ath', 'AT2G27510' => 'ath', 'AT4G14890' => 'ath', 'AT5G10000' => 'ath', 'ATR0665G624' => 'atr', 'ATR0697G138' => 'atr', 'ATR0776G046' => 'atr', 'ATR1134G135' => 'atr', 'Atru.chr12.1025' => 'acertr', 'Atru.chr3.3241' => 'acertr', 'Atru.chr4.2460' => 'acertr', 'AUR62007427' => 'cqu', 'AUR62010960' => 'cqu', 'AUR62012201' => 'cqu', 'AUR62021470' => 'cqu', 'AUR62022834' => 'cqu', 'AUR62033635' => 'cqu', 'AUR62036186' => 'cqu', 'BcaB01g03077' => 'bca', 'BcaB02g10093' => 'bca', 'BcaB04g20295' => 'bca', 'BcaB06g28147' => 'bca', 'BcaB07g31253' => 'bca', 'BcaC01g04946' => 'bca', 'BcaC02g10614' => 'bca', 'BcaC02g10885' => 'bca', 'BcaC04g19356' => 'bca', 'BcaC04g22297' => 'bca', 'BcaC05g24977' => 'bca', 'BcaC06g31823' => 'bca', 'BcaC07g38633' => 'bca', 'BcaC09g49353' => 'bca', 'BcaC09g50168' => 'bca', 'BcaNung00322' => 'bca', 'BcaNung04769' => 'bca', 'BolC1t02753H' => 'bol', 'BolC1t03721H' => 'bol', 'BolC3t15525H' => 'bol', 'BolC4t23903H' => 'bol', 'BolC4t24231H' => 'bol', 'BolC4t27209H' => 'bol', 'BolC5t29671H' => 'bol', 'BolC8t49044H' => 'bol', 'BolC9t54999H' => 'bol', 'BolC9t59517H' => 'bol', 'BraA01t02178Z' => 'bra', 'BraA01t03099Z' => 'bra', 'BraA03t11867Z' => 'bra', 'BraA04t17667Z' => 'bra', 'BraA07t29542Z' => 'bra', 'BraA08t35287Z' => 'bra', 'BraA09t37334Z' => 'bra', 'BraA10t44801Z' => 'bra', 'BraSC39t46181Z' => 'bra', 'C01p28240' => 'bna', 'C01p37530' => 'bna', 'C03p31820' => 'bna', 'C04p24080' => 'bna', 'C04p25790' => 'bna', 'C04p56770' => 'bna', 'C05p09310' => 'bna', 'C09p21010' => 'bna', 'C09p67560' => 'bna', 'CAN.G1324.7' => 'can', 'CAN.G1358.10' => 'can', 'CAN.G1550.2' => 'can', 'CAN.G186.56' => 'can', 'CAN.G1965.1' => 'can', 'CAN.G645.15' => 'can', 'CAN.G798.26' => 'can', 'CAN.G798.27' => 'can', 'CAN.G798.29' => 'can', 'CAN.G919.31' => 'can', 'CANSAT11G0133' => 'cansat', 'CANSAT11G1171' => 'cansat', 'CANSAT11G2056' => 'cansat', 'CANSAT56G1202' => 'cansat', 'CANSAT56G1514' => 'cansat', 'CANSAT78G0455' => 'cansat', 'CARHR011190' => 'chi', 'CARHR051980' => 'chi', 'CARHR120170' => 'chi', 'CARHR203310' => 'chi', 'CARHR221490' => 'chi', 'Carub.0001s1054' => 'cru', 'Carub.0002s0431' => 'cru', 'Carub.0004s0818' => 'cru', 'Carub.0006s0846' => 'cru', 'Carub.0007s2722' => 'cru', 'Ca_00058_v3' => 'car', 'Ca_17831_v3' => 'car', 'Ca_19408_v3' => 'car', 'Ca_24397_v3' => 'car', 'Ca_25664_v3' => 'car', 'CBR_g21818' => 'cbr', 'CBR_g31195' => 'cbr', 'CBR_g32282' => 'cbr', 'CBR_g39599' => 'cbr', 'CBR_g49410' => 'cbr', 'Cc01_g09120' => 'ccan', 'Cc01_g09130' => 'ccan', 'Cc02_g09630' => 'ccan', 'Cc02_g22810' => 'ccan', 'Cc03_g03810' => 'ccan', 'CDE02G3718' => 'cde', 'CDE04G3183' => 'cde', 'CDE07G1046' => 'cde', 'CDE08G0480' => 'cde', 'Cfa005493' => 'cfa', 'Cfa010312' => 'cfa', 'Cfa015648' => 'cfa', 'Ciclev10002793m.g' => 'ccl', 'Ciclev10003356m.g' => 'ccl', 'Ciclev10006141m.g' => 'ccl', 'Ciclev10016676m.g' => 'ccl', 'Ciclev10017081m.g' => 'ccl', 'Ciclev10029499m.g' => 'ccl', 'CiPaw.01G166300' => 'cil', 'CiPaw.06G145600' => 'cil', 'CiPaw.13G040100' => 'cil', 'CiPaw.13G135800' => 'cil', 'ClCG01G012230' => 'cla', 'ClCG05G009510' => 'cla', 'ClCG08G008270' => 'cla', 'COL.COLO4_11763' => 'col', 'COL.COLO4_19876' => 'col', 'COL.COLO4_21481' => 'col', 'Cpa.g.sc118.34' => 'cpa', 'Cpa.g.sc32.13' => 'cpa', 'Cpa.g.sc58.103' => 'cpa', 'Cre03.g183850' => 'cre', 'Cre06.g306350' => 'cre', 'Cre07.g334800' => 'cre', 'Cre12.g487900' => 'cre', 'Cre14.g626700' => 'cre', 'Cre16.g658400' => 'cre', 'Cre17.g700950' => 'cre', 'CsaV3_1G014830' => 'csa', 'CsaV3_3G013320' => 'csa', 'CsaV3_3G019210' => 'csa', 'CsaV3_3G019220' => 'csa', 'CsaV3_6G004230' => 'csa', 'CSS0003773' => 'camsi', 'CSS0004563' => 'camsi', 'CSS0013949' => 'camsi', 'CSS0025971' => 'camsi', 'CSS0028570' => 'camsi', 'CSS0033127' => 'camsi', 'CSS0036051' => 'camsi', 'CSS0040087' => 'camsi', 'CSS0043179' => 'camsi', 'DCAR_006161' => 'dca', 'DCAR_010351' => 'dca', 'DCAR_012197' => 'dca', 'DCAR_024162' => 'dca', 'Dinv01030' => 'din', 'Dinv10924' => 'din', 'Dinv11835' => 'din', 'Dinv22841' => 'din', 'Dinv42553' => 'din', 'Duzib052G0560' => 'dzi', 'Duzib132G0389' => 'dzi', 'Duzib150G1181' => 'dzi', 'Duzib168G0623' => 'dzi', 'Duzib170G1036' => 'dzi', 'Duzib212G0200' => 'dzi', 'Duzib248G0194' => 'dzi', 'ECA232G2193' => 'eca', 'ECA233G0302' => 'eca', 'ECA234G2813' => 'eca', 'ECA234G4866' => 'eca', 'ECA240G3932' => 'eca', 'ECA248G0385' => 'eca', 'EL10Ac2g04781' => 'bvu', 'EL10Ac3g06445' => 'bvu', 'EL10Ac7g15825' => 'bvu', 'EL10Ac8g18550' => 'bvu', 'Eucgr.B03849' => 'egr', 'Eucgr.I02744' => 'egr', 'Eucgr.J00264' => 'egr', 'Eucgr.J00493' => 'egr', 'FAN04G2181' => 'fan', 'FAN07G2666' => 'fan', 'FAN11G0024' => 'fan', 'FAN12G1105' => 'fan', 'FAN13G0302' => 'fan', 'FAN15G2781' => 'fan', 'FAN16G1274' => 'fan', 'FAN17G2988' => 'fan', 'FAN18G2621' => 'fan', 'FAN21G0013' => 'fan', 'FAN22G1211' => 'fan', 'FAN25G3626' => 'fan', 'FvH4_2g09491' => 'fve', 'FvH4_3g24910' => 'fve', 'FvH4_4g15630' => 'fve', 'FvH4_5g28820' => 'fve', 'Glyma.01G238000' => 'gma', 'Glyma.05G168400' => 'gma', 'Glyma.08G126800' => 'gma', 'Glyma.08G188500' => 'gma', 'Glyma.10G278900' => 'gma', 'Glyma.11G005700' => 'gma', 'Glyma.11G183300' => 'gma', 'Glyma.12G089200' => 'gma', 'Glyma.12G169400' => 'gma', 'Glyma.12G169500' => 'gma', 'Glyma.12G169600' => 'gma', 'Glyma.20G110800' => 'gma', 'Gohir.A03G192900' => 'ghi', 'Gohir.A03G193000' => 'ghi', 'Gohir.A05G080700' => 'ghi', 'Gohir.A09G216000' => 'ghi', 'Gohir.A12G027700' => 'ghi', 'Gohir.A13G036200' => 'ghi', 'Gohir.A13G222600' => 'ghi', 'Gohir.D02G213900' => 'ghi', 'Gohir.D02G214000' => 'ghi', 'Gohir.D05G083700' => 'ghi', 'Gohir.D05G083800' => 'ghi', 'Gohir.D05G083850' => 'ghi', 'Gohir.D08G015400' => 'ghi', 'Gohir.D09G218400' => 'ghi', 'Gohir.D12G027100' => 'ghi', 'Gohir.D13G034500' => 'ghi', 'Gohir.D13G227400' => 'ghi', 'Gorai.005G241800' => 'gra', 'Gorai.005G241900' => 'gra', 'Gorai.006G239400' => 'gra', 'Gorai.008G027600' => 'gra', 'Gorai.009G085400' => 'gra', 'Gorai.009G085500' => 'gra', 'Gorai.013G039000' => 'gra', 'Gorai.013G194800' => 'gra', 'Gorai.013G257900' => 'gra', 'GSVIVG01000982001' => 'vvi', 'GSVIVG01017981001' => 'vvi', 'HanXRQChr01g0024061' => 'han', 'HanXRQChr09g0247831' => 'han', 'HanXRQChr10g0294611' => 'han', 'HanXRQChr10g0294621' => 'han', 'HanXRQChr11g0346821' => 'han', 'HanXRQChr13g0397461' => 'han', 'HanXRQChr16g0513651' => 'han', 'HanXRQChr16g0513701' => 'han', 'Haze_00897' => 'cav', 'Haze_01745' => 'cav', 'Haze_02486' => 'cav', 'Haze_02487' => 'cav', 'Haze_23374' => 'cav', 'Hma1.2p1_0578F.1_g182520' => 'hma', 'Hma1.2p1_0602F.1_g187350' => 'hma', 'Hma1.2p1_0602F.1_g187360' => 'hma', 'Hma1.2p1_0874F.1_g231320' => 'hma', 'Hma1.2p1_1197F.1_g266210' => 'hma', 'Hma1.2p1_1197F.1_g266220' => 'hma', 'Hma1.2p1_2167F.1_g315895' => 'hma', 'Hma1.2p1_2190F.1_g316640' => 'hma', 'Hma1.2p1_3645F.1_g337153' => 'hma', 'HPP92_004907' => 'vpl', 'HPP92_012134' => 'vpl', 'HPP92_025136' => 'vpl', 'HPP92_026087' => 'vpl', 'Hund06782' => 'sun', 'Hund06784' => 'sun', 'Lalb_Chr01g0004861' => 'lal', 'Lalb_Chr02g0140591' => 'lal', 'Lalb_Chr02g0140611' => 'lal', 'Lalb_Chr03g0028101' => 'lal', 'Lalb_Chr07g0185791' => 'lal', 'Lalb_Chr12g0204491' => 'lal', 'Lalb_Chr13g0295671' => 'lal', 'Lalb_Chr19g0136461' => 'lal', 'Lalb_Chr21g0309191' => 'lal', 'Lj1g0028158' => 'lja', 'Lj1P236T38' => 'lonja', 'Lj2C32G2' => 'lonja', 'Lj2P944T8' => 'lonja', 'Lj2P963T15' => 'lonja', 'Lj3g0011788' => 'lja', 'Lj4g0025027' => 'lja', 'Lj5P255T36' => 'lonja', 'Lj6g0018866' => 'lja', 'Lj6P608T31' => 'lonja', 'LjContig00408g0008879' => 'lja', 'Lsat_1_v5_gn_5_105820' => 'lsa', 'Lsat_1_v5_gn_6_38800' => 'lsa', 'Lsat_1_v5_gn_7_67141' => 'lsa', 'Manes.04G003400' => 'mes', 'Manes.07G020000' => 'mes', 'Manes.07G020100' => 'mes', 'Manes.07G020150' => 'mes', 'Manes.10G061500' => 'mes', 'Manes.10G123200' => 'mes', 'Manes.11G161900' => 'mes', 'Manes.15G029300' => 'mes', 'Mapoly0071s0018' => 'mpo', 'Mapoly0082s0023' => 'mpo', 'Mapoly3477s0001' => 'mpo', 'MBI05_g31233_MAGBIO' => 'mbi', 'MBI09_g05946_MAGBIO' => 'mbi', 'MBI09_g05947_MAGBIO' => 'mbi', 'MBI17_g08346_MAGBIO' => 'mbi', 'MCO04G038' => 'mco', 'MCO09G370' => 'mco', 'MCO13G605' => 'mco', 'MD00G1075500' => 'mdo', 'MD03G1144300' => 'mdo', 'MD08G1236800' => 'mdo', 'MD13G1193300' => 'mdo', 'MD15G1428700' => 'mdo', 'Medtr1g112030' => 'mtr', 'Medtr1g112050' => 'mtr', 'Medtr2g006290' => 'mtr', 'Medtr2g086510' => 'mtr', 'Medtr4g053120' => 'mtr', 'Medtr5g006320' => 'mtr', 'Medtr8g088720' => 'mtr', 'MELO3C004712.2' => 'cme', 'MELO3C006533.2' => 'cme', 'MELO3C019438.2' => 'cme', 'MELO3C019440.2' => 'cme', 'MELO3C019441.2' => 'cme', 'MELO3C019895.2' => 'cme', 'Migut.B00811' => 'egut', 'Migut.D02447' => 'egut', 'Migut.F00875' => 'egut', 'Migut.N00186' => 'egut', 'Migut.N01051' => 'egut', 'Migut.N02491' => 'egut', 'Migut.O00784' => 'egut', 'MSTRG.12367' => 'ama', 'MSTRG.18756' => 'ama', 'MSTRG.21042' => 'ama', 'Nitab4.5_0000559g0040' => 'nta', 'Nitab4.5_0000667g0190' => 'nta', 'Nitab4.5_0000755g0160' => 'nta', 'Nitab4.5_0001216g0080' => 'nta', 'Nitab4.5_0004069g0040' => 'nta', 'Nitab4.5_0004129g0010' => 'nta', 'Nitab4.5_0005744g0030' => 'nta', 'Nitab4.5_0006996g0030' => 'nta', 'Nitab4.5_0008971g0040' => 'nta', 'Nitab4.5_0009769g0020' => 'nta', 'Nitab4.5_0009833g0010' => 'nta', 'Nitab4.5_0013140g0020' => 'nta', 'Nn003s41376' => 'nnu', 'Nn1g01857' => 'nnu', 'Nn1g03611' => 'nnu', 'Nn1g06853' => 'nnu', 'Nn3g18360' => 'nnu', 'Nn4g26328' => 'nnu', 'Nn5g27531' => 'nnu', 'Nn6g34899' => 'nnu', 'Nn7g36299' => 'nnu', 'Oeu021485.1' => 'oeu', 'Oeu022433.1' => 'oeu', 'Oeu032111.1' => 'oeu', 'Oeu051608.1' => 'oeu', 'Os01g0860601' => 'osa', 'Os03g0659200' => 'osa', 'Os03g0835900' => 'osa', 'Os04g0412200' => 'osa', 'Os05g0443500' => 'osa', 'Os07g0251500' => 'osa', 'Os08g0104600' => 'osa', 'Peaxi162Scf00003g00047' => 'pax', 'Peaxi162Scf00003g00052' => 'pax', 'Peaxi162Scf00003g00394' => 'pax', 'Peaxi162Scf00091g00621' => 'pax', 'Peaxi162Scf00152g00146' => 'pax', 'Peaxi162Scf00173g00025' => 'pax', 'Peaxi162Scf00195g00102' => 'pax', 'Peaxi162Scf00402g00013' => 'pax', 'Peaxi162Scf00519g00618' => 'pax', 'PGR004G2838' => 'pgr', 'PGR044G2275' => 'pgr', 'PGR102G1377' => 'pgr', 'PGR119G1245' => 'pgr', 'PGR142G4449' => 'pgr', 'PGSC0003DMG400004532' => 'stu', 'PGSC0003DMG400011950' => 'stu', 'PGSC0003DMG400023391' => 'stu', 'PGSC0003DMG400023985' => 'stu', 'PGSC0003DMG400026360' => 'stu', 'PGSC0003DMG400035711' => 'stu', 'PGSC0003DMG400037286' => 'stu', 'PGSC0003DMG402005881' => 'stu', 'Phvul.002G045400' => 'pvu', 'Phvul.006G216600' => 'pvu', 'Phvul.006G216700' => 'pvu', 'Phvul.006G216800' => 'pvu', 'Phvul.007G022500' => 'pvu', 'Phvul.011G094400' => 'pvu', 'Potri.001G470700' => 'ptr', 'Potri.003G015200' => 'ptr', 'Potri.004G202500' => 'ptr', 'Potri.004G218400' => 'ptr', 'Potri.008G020100' => 'ptr', 'Potri.008G153200' => 'ptr', 'Potri.009G163800' => 'ptr', 'Potri.010G087300' => 'ptr', 'Potri.010G239100' => 'ptr', 'Pp3c10_16100' => 'ppa', 'Pp3c10_16880' => 'ppa', 'Pp3c16_6230' => 'ppa', 'Pp3c17_18910' => 'ppa', 'Pp3c3_22119' => 'ppa', 'Pp3c3_22140' => 'ppa', 'Pp3c4_8159' => 'ppa', 'Pp3c4_8171' => 'ppa', 'Pp3c4_8330' => 'ppa', 'PRCOL_00004098' => 'pco', 'Prupe.1G013900' => 'ppe', 'Prupe.1G226300' => 'ppe', 'Prupe.1G573600' => 'ppe', 'Prupe.6G130100' => 'ppe', 'Psat3g090040' => 'psa', 'Psat4g210440' => 'psa', 'Psat6g231040' => 'psa', 'Psat6g231080' => 'psa', 'Psat7g063000' => 'psa', 'Psat7g188000' => 'psa', 'Psat7g188040' => 'psa', 'PSO017G0206' => 'pso', 'PSO170G0501' => 'pso', 'PSO170G6422' => 'pso', 'PSO210G7739' => 'pso', 'PSO339G1808' => 'pso', 'PSO339G6135' => 'pso', 'PSO384G0010' => 'pso', 'PSO384G0964' => 'pso', 'PSO761G0050' => 'pso', 'PSO782G4085' => 'pso', 'QL01p012264' => 'qlo', 'QL02p099491' => 'qlo', 'QL03p033868' => 'qlo', 'QL04p046678' => 'qlo', 'QL06p002448' => 'qlo', 'RcHm_v2.0_Chr4g0416181' => 'rch', 'RcHm_v2.0_Chr5g0044701' => 'rch', 'RcHm_v2.0_Chr6g0265781' => 'rch', 'RcHm_v2.0_Chr7g0221031' => 'rch', 'Rhsim04G0202000' => 'rsi', 'Rhsim11G0127300' => 'rsi', 'Rhsim13G0111800' => 'rsi', 'Sabra01G0165600' => 'sbr', 'Sabra03G0008300' => 'sbr', 'Sabra04G0136900' => 'sbr', 'Sabra08G0013400' => 'sbr', 'Sabra08G0116800' => 'sbr', 'Sabra09G0128000' => 'sbr', 'Sabra10G0055500' => 'sbr', 'Sabra10G0073300' => 'sbr', 'SalBow3G0385' => 'sbo', 'SalBow3G1119' => 'sbo', 'SalBow3G2005' => 'sbo', 'SalBow6G2563' => 'sbo', 'SalBow6G6386' => 'sbo', 'Sc06g0008800' => 'sci', 'Sc07g0004950' => 'sci', 'Sc09g0005340' => 'sci', 'Sc13g0004410' => 'sci', 'Sc21g0007090' => 'sci', 'Sed0009285' => 'sed', 'Sed0017583' => 'sed', 'Sed0019699' => 'sed', 'Sed0023107' => 'sed', 'SEGI_10916' => 'sgi', 'SEGI_16217' => 'sgi', 'SEGI_19466' => 'sgi', 'SEGI_41115' => 'sgi', 'SGA_v2.0_scaffold111G31534' => 'sas', 'SGA_v2.0_scaffold22G09864' => 'sas', 'SGA_v2.0_scaffold338G49219' => 'sas', 'SGA_v2.0_scaffold92G28298' => 'sas', 'SMO119G0064' => 'smo', 'SMO223G0038' => 'smo', 'SMO347G0584' => 'smo', 'SMO351G0010' => 'smo', 'SMO356G0404' => 'smo', 'Solyc01g103920.3' => 'sly', 'Solyc04g009710.2' => 'sly', 'Solyc05g055280.2' => 'sly', 'Solyc10g044520.3' => 'sly', 'Solyc10g075160.1' => 'sly', 'Solyc11g006910.3' => 'sly', 'Solyc11g068430.3' => 'sly', 'Sopen01g046310' => 'spe', 'Sopen03g001200' => 'spe', 'Sopen04g004830' => 'spe', 'Sopen05g033720' => 'spe', 'Sopen06g030740' => 'spe', 'Sopen10g013090' => 'spe', 'Sopen10g027630' => 'spe', 'Sopen10g027640' => 'spe', 'Sopen11g002820' => 'spe', 'Sopen11g027140' => 'spe', 'Sp1g09680' => 'spa', 'Sp2g03630' => 'spa', 'Sp4g10320' => 'spa', 'Sp6g33400' => 'spa', 'Sp7g13030' => 'spa', 'TAR365G0317' => 'tar', 'TAR376G0979' => 'tar', 'TAR623G1665' => 'tar', 'TAR633G2373' => 'tar', 'TAR636G1400' => 'tar', 'THA.LOC104800529' => 'tha', 'THA.LOC104808547' => 'tha', 'THA.LOC104809615' => 'tha', 'THA.LOC104815724' => 'tha', 'THA.LOC104818480' => 'tha', 'THA.LOC104819179' => 'tha', 'THA.LOC104822270' => 'tha', 'THA.LOC104826425' => 'tha', 'Thecc.02G089700' => 'tca', 'Thecc.04G232300' => 'tca', 'Thecc.09G283400' => 'tca', 'Thhalv10009020m.g' => 'esa', 'Thhalv10015506m.g' => 'esa', 'Thhalv10017364m.g' => 'esa', 'Thhalv10023742m.g' => 'esa', 'Thhalv10026483m.g' => 'esa', 'TPR.G17232' => 'tpr', 'TPR.G2133' => 'tpr', 'TPR.G2498' => 'tpr', 'TPR.G31942' => 'tpr', 'TPR.G37877' => 'tpr', 'TPR.G4571' => 'tpr', 'TWI14G1113' => 'twi', 'TWI15G0426' => 'twi', 'TWI31G1005' => 'twi', 'TWI38G0513' => 'twi', 'TWI38G1484' => 'twi', 'TWI73G1098' => 'twi', 'unitig_26.g10519' => 'ugi', 'unitig_736.g22395' => 'ugi', 'unitig_747.g21234' => 'ugi', 'unitig_747.g21942' => 'ugi', 'vmacro14351' => 'vma', 'VMungo0540G0082' => 'vmu', 'VMungo0540G0405' => 'vmu', 'VMungo0540G1486' => 'vmu', 'VMungo0540G1692' => 'vmu', 'VMungo0720G2473' => 'vmu', 'VMungo1127G1562' => 'vmu', 'VMungo1215G1918' => 'vmu', 'Zm00001eb052650' => 'zma', 'Zm00001eb063710' => 'zma', 'Zm00001eb083950' => 'zma', 'Zm00001eb174420' => 'zma', 'Zm00001eb260140' => 'zma', 'Zm00001eb260150' => 'zma', 'Zm00001eb260160' => 'zma', 'Zm00001eb348290' => 'zma', 'Zm00001eb366870' => 'zma', 'Zm00001eb421930' => 'zma' ), 'gf_id' => 'HOM05D001025', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001025' ), 'data_identifier' => 'HOM05D001025', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001025', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '592', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p22650' => 'bna', 'A01p29720' => 'bna', 'A03p26560' => 'bna', 'A03p68820' => 'bna', 'A04p20980' => 'bna', 'A06p07730' => 'bna', 'A07p18260' => 'bna', 'A08p33710' => 'bna', 'A09p16970' => 'bna', 'A10p27490' => 'bna', 'Aa31LG1G17300' => 'aar', 'Aa31LG1G3910' => 'aar', 'Aa31LG2G9630' => 'aar', 'Aa31LG5G8360' => 'aar', 'Aa31LG9G2410' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4699' => 'aag', 'Actinidia23512' => 'ach', 'Actinidia37080' => 'ach', 'Ah.01g020380' => 'amhyb', 'Ah.08g215710' => 'amhyb', 'Ah.09g225110' => 'amhyb', 'Ah.10g036680' => 'amhyb', 'AL1G21940' => 'aly', 'AL2G15540' => 'aly', 'AL4G21520' => 'aly', 'AL7G40960' => 'aly', 'Aqoxy2G01191' => 'aox', 'Aqoxy2G03393' => 'aox', 'Aqoxy4G02775' => 'aox', 'Aqoxy6G00058' => 'aox', 'arahy.Tifrunner.gnm1.ann1.9X74H2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CW3FX9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R485W7' => 'arhy', 'AT1G10960' => 'ath', 'AT1G60950' => 'ath', 'AT2G27510' => 'ath', 'AT4G14890' => 'ath', 'AT5G10000' => 'ath', 'ATR0665G624' => 'atr', 'ATR0697G138' => 'atr', 'ATR0776G046' => 'atr', 'ATR1134G135' => 'atr', 'Atru.chr12.1025' => 'acertr', 'Atru.chr3.3241' => 'acertr', 'Atru.chr4.2460' => 'acertr', 'AUR62007427' => 'cqu', 'AUR62010960' => 'cqu', 'AUR62012201' => 'cqu', 'AUR62021470' => 'cqu', 'AUR62022834' => 'cqu', 'AUR62033635' => 'cqu', 'AUR62036186' => 'cqu', 'BcaB01g03077' => 'bca', 'BcaB02g10093' => 'bca', 'BcaB04g20295' => 'bca', 'BcaB06g28147' => 'bca', 'BcaB07g31253' => 'bca', 'BcaC01g04946' => 'bca', 'BcaC02g10614' => 'bca', 'BcaC02g10885' => 'bca', 'BcaC04g19356' => 'bca', 'BcaC04g22297' => 'bca', 'BcaC05g24977' => 'bca', 'BcaC06g31823' => 'bca', 'BcaC07g38633' => 'bca', 'BcaC09g49353' => 'bca', 'BcaC09g50168' => 'bca', 'BcaNung00322' => 'bca', 'BcaNung04769' => 'bca', 'BolC1t02753H' => 'bol', 'BolC1t03721H' => 'bol', 'BolC3t15525H' => 'bol', 'BolC4t23903H' => 'bol', 'BolC4t24231H' => 'bol', 'BolC4t27209H' => 'bol', 'BolC5t29671H' => 'bol', 'BolC8t49044H' => 'bol', 'BolC9t54999H' => 'bol', 'BolC9t59517H' => 'bol', 'BraA01t02178Z' => 'bra', 'BraA01t03099Z' => 'bra', 'BraA03t11867Z' => 'bra', 'BraA04t17667Z' => 'bra', 'BraA07t29542Z' => 'bra', 'BraA08t35287Z' => 'bra', 'BraA09t37334Z' => 'bra', 'BraA10t44801Z' => 'bra', 'BraSC39t46181Z' => 'bra', 'C01p28240' => 'bna', 'C01p37530' => 'bna', 'C03p31820' => 'bna', 'C04p24080' => 'bna', 'C04p25790' => 'bna', 'C04p56770' => 'bna', 'C05p09310' => 'bna', 'C09p21010' => 'bna', 'C09p67560' => 'bna', 'CAN.G1324.7' => 'can', 'CAN.G1358.10' => 'can', 'CAN.G1550.2' => 'can', 'CAN.G186.56' => 'can', 'CAN.G1965.1' => 'can', 'CAN.G645.15' => 'can', 'CAN.G798.26' => 'can', 'CAN.G798.27' => 'can', 'CAN.G798.29' => 'can', 'CAN.G919.31' => 'can', 'CANSAT11G0133' => 'cansat', 'CANSAT11G1171' => 'cansat', 'CANSAT11G2056' => 'cansat', 'CANSAT56G1202' => 'cansat', 'CANSAT56G1514' => 'cansat', 'CANSAT78G0455' => 'cansat', 'CARHR011190' => 'chi', 'CARHR051980' => 'chi', 'CARHR120170' => 'chi', 'CARHR203310' => 'chi', 'CARHR221490' => 'chi', 'Carub.0001s1054' => 'cru', 'Carub.0002s0431' => 'cru', 'Carub.0004s0818' => 'cru', 'Carub.0006s0846' => 'cru', 'Carub.0007s2722' => 'cru', 'Ca_00058_v3' => 'car', 'Ca_17831_v3' => 'car', 'Ca_19408_v3' => 'car', 'Ca_24397_v3' => 'car', 'Ca_25664_v3' => 'car', 'CBR_g21818' => 'cbr', 'CBR_g31195' => 'cbr', 'CBR_g32282' => 'cbr', 'CBR_g39599' => 'cbr', 'CBR_g49410' => 'cbr', 'Cc01_g09120' => 'ccan', 'Cc01_g09130' => 'ccan', 'Cc02_g09630' => 'ccan', 'Cc02_g22810' => 'ccan', 'Cc03_g03810' => 'ccan', 'CDE02G3718' => 'cde', 'CDE04G3183' => 'cde', 'CDE07G1046' => 'cde', 'CDE08G0480' => 'cde', 'Cfa005493' => 'cfa', 'Cfa010312' => 'cfa', 'Cfa015648' => 'cfa', 'Ciclev10002793m.g' => 'ccl', 'Ciclev10003356m.g' => 'ccl', 'Ciclev10006141m.g' => 'ccl', 'Ciclev10016676m.g' => 'ccl', 'Ciclev10017081m.g' => 'ccl', 'Ciclev10029499m.g' => 'ccl', 'CiPaw.01G166300' => 'cil', 'CiPaw.06G145600' => 'cil', 'CiPaw.13G040100' => 'cil', 'CiPaw.13G135800' => 'cil', 'ClCG01G012230' => 'cla', 'ClCG05G009510' => 'cla', 'ClCG08G008270' => 'cla', 'COL.COLO4_11763' => 'col', 'COL.COLO4_19876' => 'col', 'COL.COLO4_21481' => 'col', 'Cpa.g.sc118.34' => 'cpa', 'Cpa.g.sc32.13' => 'cpa', 'Cpa.g.sc58.103' => 'cpa', 'Cre03.g183850' => 'cre', 'Cre06.g306350' => 'cre', 'Cre07.g334800' => 'cre', 'Cre12.g487900' => 'cre', 'Cre14.g626700' => 'cre', 'Cre16.g658400' => 'cre', 'Cre17.g700950' => 'cre', 'CsaV3_1G014830' => 'csa', 'CsaV3_3G013320' => 'csa', 'CsaV3_3G019210' => 'csa', 'CsaV3_3G019220' => 'csa', 'CsaV3_6G004230' => 'csa', 'CSS0003773' => 'camsi', 'CSS0004563' => 'camsi', 'CSS0013949' => 'camsi', 'CSS0025971' => 'camsi', 'CSS0028570' => 'camsi', 'CSS0033127' => 'camsi', 'CSS0036051' => 'camsi', 'CSS0040087' => 'camsi', 'CSS0043179' => 'camsi', 'DCAR_006161' => 'dca', 'DCAR_010351' => 'dca', 'DCAR_012197' => 'dca', 'DCAR_024162' => 'dca', 'Dinv01030' => 'din', 'Dinv10924' => 'din', 'Dinv11835' => 'din', 'Dinv22841' => 'din', 'Dinv42553' => 'din', 'Duzib052G0560' => 'dzi', 'Duzib132G0389' => 'dzi', 'Duzib150G1181' => 'dzi', 'Duzib168G0623' => 'dzi', 'Duzib170G1036' => 'dzi', 'Duzib212G0200' => 'dzi', 'Duzib248G0194' => 'dzi', 'ECA232G2193' => 'eca', 'ECA233G0302' => 'eca', 'ECA234G2813' => 'eca', 'ECA234G4866' => 'eca', 'ECA240G3932' => 'eca', 'ECA248G0385' => 'eca', 'EL10Ac2g04781' => 'bvu', 'EL10Ac3g06445' => 'bvu', 'EL10Ac7g15825' => 'bvu', 'EL10Ac8g18550' => 'bvu', 'Eucgr.B03849' => 'egr', 'Eucgr.I02744' => 'egr', 'Eucgr.J00264' => 'egr', 'Eucgr.J00493' => 'egr', 'FAN04G2181' => 'fan', 'FAN07G2666' => 'fan', 'FAN11G0024' => 'fan', 'FAN12G1105' => 'fan', 'FAN13G0302' => 'fan', 'FAN15G2781' => 'fan', 'FAN16G1274' => 'fan', 'FAN17G2988' => 'fan', 'FAN18G2621' => 'fan', 'FAN21G0013' => 'fan', 'FAN22G1211' => 'fan', 'FAN25G3626' => 'fan', 'FvH4_2g09491' => 'fve', 'FvH4_3g24910' => 'fve', 'FvH4_4g15630' => 'fve', 'FvH4_5g28820' => 'fve', 'Glyma.01G238000' => 'gma', 'Glyma.05G168400' => 'gma', 'Glyma.08G126800' => 'gma', 'Glyma.08G188500' => 'gma', 'Glyma.10G278900' => 'gma', 'Glyma.11G005700' => 'gma', 'Glyma.11G183300' => 'gma', 'Glyma.12G089200' => 'gma', 'Glyma.12G169400' => 'gma', 'Glyma.12G169500' => 'gma', 'Glyma.12G169600' => 'gma', 'Glyma.20G110800' => 'gma', 'Gohir.A03G192900' => 'ghi', 'Gohir.A03G193000' => 'ghi', 'Gohir.A05G080700' => 'ghi', 'Gohir.A09G216000' => 'ghi', 'Gohir.A12G027700' => 'ghi', 'Gohir.A13G036200' => 'ghi', 'Gohir.A13G222600' => 'ghi', 'Gohir.D02G213900' => 'ghi', 'Gohir.D02G214000' => 'ghi', 'Gohir.D05G083700' => 'ghi', 'Gohir.D05G083800' => 'ghi', 'Gohir.D05G083850' => 'ghi', 'Gohir.D08G015400' => 'ghi', 'Gohir.D09G218400' => 'ghi', 'Gohir.D12G027100' => 'ghi', 'Gohir.D13G034500' => 'ghi', 'Gohir.D13G227400' => 'ghi', 'Gorai.005G241800' => 'gra', 'Gorai.005G241900' => 'gra', 'Gorai.006G239400' => 'gra', 'Gorai.008G027600' => 'gra', 'Gorai.009G085400' => 'gra', 'Gorai.009G085500' => 'gra', 'Gorai.013G039000' => 'gra', 'Gorai.013G194800' => 'gra', 'Gorai.013G257900' => 'gra', 'GSVIVG01000982001' => 'vvi', 'GSVIVG01017981001' => 'vvi', 'HanXRQChr01g0024061' => 'han', 'HanXRQChr09g0247831' => 'han', 'HanXRQChr10g0294611' => 'han', 'HanXRQChr10g0294621' => 'han', 'HanXRQChr11g0346821' => 'han', 'HanXRQChr13g0397461' => 'han', 'HanXRQChr16g0513651' => 'han', 'HanXRQChr16g0513701' => 'han', 'Haze_00897' => 'cav', 'Haze_01745' => 'cav', 'Haze_02486' => 'cav', 'Haze_02487' => 'cav', 'Haze_23374' => 'cav', 'Hma1.2p1_0578F.1_g182520' => 'hma', 'Hma1.2p1_0602F.1_g187350' => 'hma', 'Hma1.2p1_0602F.1_g187360' => 'hma', 'Hma1.2p1_0874F.1_g231320' => 'hma', 'Hma1.2p1_1197F.1_g266210' => 'hma', 'Hma1.2p1_1197F.1_g266220' => 'hma', 'Hma1.2p1_2167F.1_g315895' => 'hma', 'Hma1.2p1_2190F.1_g316640' => 'hma', 'Hma1.2p1_3645F.1_g337153' => 'hma', 'HPP92_004907' => 'vpl', 'HPP92_012134' => 'vpl', 'HPP92_025136' => 'vpl', 'HPP92_026087' => 'vpl', 'Hund06782' => 'sun', 'Hund06784' => 'sun', 'Lalb_Chr01g0004861' => 'lal', 'Lalb_Chr02g0140591' => 'lal', 'Lalb_Chr02g0140611' => 'lal', 'Lalb_Chr03g0028101' => 'lal', 'Lalb_Chr07g0185791' => 'lal', 'Lalb_Chr12g0204491' => 'lal', 'Lalb_Chr13g0295671' => 'lal', 'Lalb_Chr19g0136461' => 'lal', 'Lalb_Chr21g0309191' => 'lal', 'Lj1g0028158' => 'lja', 'Lj1P236T38' => 'lonja', 'Lj2C32G2' => 'lonja', 'Lj2P944T8' => 'lonja', 'Lj2P963T15' => 'lonja', 'Lj3g0011788' => 'lja', 'Lj4g0025027' => 'lja', 'Lj5P255T36' => 'lonja', 'Lj6g0018866' => 'lja', 'Lj6P608T31' => 'lonja', 'LjContig00408g0008879' => 'lja', 'Lsat_1_v5_gn_5_105820' => 'lsa', 'Lsat_1_v5_gn_6_38800' => 'lsa', 'Lsat_1_v5_gn_7_67141' => 'lsa', 'Manes.04G003400' => 'mes', 'Manes.07G020000' => 'mes', 'Manes.07G020100' => 'mes', 'Manes.07G020150' => 'mes', 'Manes.10G061500' => 'mes', 'Manes.10G123200' => 'mes', 'Manes.11G161900' => 'mes', 'Manes.15G029300' => 'mes', 'Mapoly0071s0018' => 'mpo', 'Mapoly0082s0023' => 'mpo', 'Mapoly3477s0001' => 'mpo', 'MBI05_g31233_MAGBIO' => 'mbi', 'MBI09_g05946_MAGBIO' => 'mbi', 'MBI09_g05947_MAGBIO' => 'mbi', 'MBI17_g08346_MAGBIO' => 'mbi', 'MCO04G038' => 'mco', 'MCO09G370' => 'mco', 'MCO13G605' => 'mco', 'MD00G1075500' => 'mdo', 'MD03G1144300' => 'mdo', 'MD08G1236800' => 'mdo', 'MD13G1193300' => 'mdo', 'MD15G1428700' => 'mdo', 'Medtr1g112030' => 'mtr', 'Medtr1g112050' => 'mtr', 'Medtr2g006290' => 'mtr', 'Medtr2g086510' => 'mtr', 'Medtr4g053120' => 'mtr', 'Medtr5g006320' => 'mtr', 'Medtr8g088720' => 'mtr', 'MELO3C004712.2' => 'cme', 'MELO3C006533.2' => 'cme', 'MELO3C019438.2' => 'cme', 'MELO3C019440.2' => 'cme', 'MELO3C019441.2' => 'cme', 'MELO3C019895.2' => 'cme', 'Migut.B00811' => 'egut', 'Migut.D02447' => 'egut', 'Migut.F00875' => 'egut', 'Migut.N00186' => 'egut', 'Migut.N01051' => 'egut', 'Migut.N02491' => 'egut', 'Migut.O00784' => 'egut', 'MSTRG.12367' => 'ama', 'MSTRG.18756' => 'ama', 'MSTRG.21042' => 'ama', 'Nitab4.5_0000559g0040' => 'nta', 'Nitab4.5_0000667g0190' => 'nta', 'Nitab4.5_0000755g0160' => 'nta', 'Nitab4.5_0001216g0080' => 'nta', 'Nitab4.5_0004069g0040' => 'nta', 'Nitab4.5_0004129g0010' => 'nta', 'Nitab4.5_0005744g0030' => 'nta', 'Nitab4.5_0006996g0030' => 'nta', 'Nitab4.5_0008971g0040' => 'nta', 'Nitab4.5_0009769g0020' => 'nta', 'Nitab4.5_0009833g0010' => 'nta', 'Nitab4.5_0013140g0020' => 'nta', 'Nn003s41376' => 'nnu', 'Nn1g01857' => 'nnu', 'Nn1g03611' => 'nnu', 'Nn1g06853' => 'nnu', 'Nn3g18360' => 'nnu', 'Nn4g26328' => 'nnu', 'Nn5g27531' => 'nnu', 'Nn6g34899' => 'nnu', 'Nn7g36299' => 'nnu', 'Oeu021485.1' => 'oeu', 'Oeu022433.1' => 'oeu', 'Oeu032111.1' => 'oeu', 'Oeu051608.1' => 'oeu', 'Os01g0860601' => 'osa', 'Os03g0659200' => 'osa', 'Os03g0835900' => 'osa', 'Os04g0412200' => 'osa', 'Os05g0443500' => 'osa', 'Os07g0251500' => 'osa', 'Os08g0104600' => 'osa', 'Peaxi162Scf00003g00047' => 'pax', 'Peaxi162Scf00003g00052' => 'pax', 'Peaxi162Scf00003g00394' => 'pax', 'Peaxi162Scf00091g00621' => 'pax', 'Peaxi162Scf00152g00146' => 'pax', 'Peaxi162Scf00173g00025' => 'pax', 'Peaxi162Scf00195g00102' => 'pax', 'Peaxi162Scf00402g00013' => 'pax', 'Peaxi162Scf00519g00618' => 'pax', 'PGR004G2838' => 'pgr', 'PGR044G2275' => 'pgr', 'PGR102G1377' => 'pgr', 'PGR119G1245' => 'pgr', 'PGR142G4449' => 'pgr', 'PGSC0003DMG400004532' => 'stu', 'PGSC0003DMG400011950' => 'stu', 'PGSC0003DMG400023391' => 'stu', 'PGSC0003DMG400023985' => 'stu', 'PGSC0003DMG400026360' => 'stu', 'PGSC0003DMG400035711' => 'stu', 'PGSC0003DMG400037286' => 'stu', 'PGSC0003DMG402005881' => 'stu', 'Phvul.002G045400' => 'pvu', 'Phvul.006G216600' => 'pvu', 'Phvul.006G216700' => 'pvu', 'Phvul.006G216800' => 'pvu', 'Phvul.007G022500' => 'pvu', 'Phvul.011G094400' => 'pvu', 'Potri.001G470700' => 'ptr', 'Potri.003G015200' => 'ptr', 'Potri.004G202500' => 'ptr', 'Potri.004G218400' => 'ptr', 'Potri.008G020100' => 'ptr', 'Potri.008G153200' => 'ptr', 'Potri.009G163800' => 'ptr', 'Potri.010G087300' => 'ptr', 'Potri.010G239100' => 'ptr', 'Pp3c10_16100' => 'ppa', 'Pp3c10_16880' => 'ppa', 'Pp3c16_6230' => 'ppa', 'Pp3c17_18910' => 'ppa', 'Pp3c3_22119' => 'ppa', 'Pp3c3_22140' => 'ppa', 'Pp3c4_8159' => 'ppa', 'Pp3c4_8171' => 'ppa', 'Pp3c4_8330' => 'ppa', 'PRCOL_00004098' => 'pco', 'Prupe.1G013900' => 'ppe', 'Prupe.1G226300' => 'ppe', 'Prupe.1G573600' => 'ppe', 'Prupe.6G130100' => 'ppe', 'Psat3g090040' => 'psa', 'Psat4g210440' => 'psa', 'Psat6g231040' => 'psa', 'Psat6g231080' => 'psa', 'Psat7g063000' => 'psa', 'Psat7g188000' => 'psa', 'Psat7g188040' => 'psa', 'PSO017G0206' => 'pso', 'PSO170G0501' => 'pso', 'PSO170G6422' => 'pso', 'PSO210G7739' => 'pso', 'PSO339G1808' => 'pso', 'PSO339G6135' => 'pso', 'PSO384G0010' => 'pso', 'PSO384G0964' => 'pso', 'PSO761G0050' => 'pso', 'PSO782G4085' => 'pso', 'QL01p012264' => 'qlo', 'QL02p099491' => 'qlo', 'QL03p033868' => 'qlo', 'QL04p046678' => 'qlo', 'QL06p002448' => 'qlo', 'RcHm_v2.0_Chr4g0416181' => 'rch', 'RcHm_v2.0_Chr5g0044701' => 'rch', 'RcHm_v2.0_Chr6g0265781' => 'rch', 'RcHm_v2.0_Chr7g0221031' => 'rch', 'Rhsim04G0202000' => 'rsi', 'Rhsim11G0127300' => 'rsi', 'Rhsim13G0111800' => 'rsi', 'Sabra01G0165600' => 'sbr', 'Sabra03G0008300' => 'sbr', 'Sabra04G0136900' => 'sbr', 'Sabra08G0013400' => 'sbr', 'Sabra08G0116800' => 'sbr', 'Sabra09G0128000' => 'sbr', 'Sabra10G0055500' => 'sbr', 'Sabra10G0073300' => 'sbr', 'SalBow3G0385' => 'sbo', 'SalBow3G1119' => 'sbo', 'SalBow3G2005' => 'sbo', 'SalBow6G2563' => 'sbo', 'SalBow6G6386' => 'sbo', 'Sc06g0008800' => 'sci', 'Sc07g0004950' => 'sci', 'Sc09g0005340' => 'sci', 'Sc13g0004410' => 'sci', 'Sc21g0007090' => 'sci', 'Sed0009285' => 'sed', 'Sed0017583' => 'sed', 'Sed0019699' => 'sed', 'Sed0023107' => 'sed', 'SEGI_10916' => 'sgi', 'SEGI_16217' => 'sgi', 'SEGI_19466' => 'sgi', 'SEGI_41115' => 'sgi', 'SGA_v2.0_scaffold111G31534' => 'sas', 'SGA_v2.0_scaffold22G09864' => 'sas', 'SGA_v2.0_scaffold338G49219' => 'sas', 'SGA_v2.0_scaffold92G28298' => 'sas', 'SMO119G0064' => 'smo', 'SMO223G0038' => 'smo', 'SMO347G0584' => 'smo', 'SMO351G0010' => 'smo', 'SMO356G0404' => 'smo', 'Solyc01g103920.3' => 'sly', 'Solyc04g009710.2' => 'sly', 'Solyc05g055280.2' => 'sly', 'Solyc10g044520.3' => 'sly', 'Solyc10g075160.1' => 'sly', 'Solyc11g006910.3' => 'sly', 'Solyc11g068430.3' => 'sly', 'Sopen01g046310' => 'spe', 'Sopen03g001200' => 'spe', 'Sopen04g004830' => 'spe', 'Sopen05g033720' => 'spe', 'Sopen06g030740' => 'spe', 'Sopen10g013090' => 'spe', 'Sopen10g027630' => 'spe', 'Sopen10g027640' => 'spe', 'Sopen11g002820' => 'spe', 'Sopen11g027140' => 'spe', 'Sp1g09680' => 'spa', 'Sp2g03630' => 'spa', 'Sp4g10320' => 'spa', 'Sp6g33400' => 'spa', 'Sp7g13030' => 'spa', 'TAR365G0317' => 'tar', 'TAR376G0979' => 'tar', 'TAR623G1665' => 'tar', 'TAR633G2373' => 'tar', 'TAR636G1400' => 'tar', 'THA.LOC104800529' => 'tha', 'THA.LOC104808547' => 'tha', 'THA.LOC104809615' => 'tha', 'THA.LOC104815724' => 'tha', 'THA.LOC104818480' => 'tha', 'THA.LOC104819179' => 'tha', 'THA.LOC104822270' => 'tha', 'THA.LOC104826425' => 'tha', 'Thecc.02G089700' => 'tca', 'Thecc.04G232300' => 'tca', 'Thecc.09G283400' => 'tca', 'Thhalv10009020m.g' => 'esa', 'Thhalv10015506m.g' => 'esa', 'Thhalv10017364m.g' => 'esa', 'Thhalv10023742m.g' => 'esa', 'Thhalv10026483m.g' => 'esa', 'TPR.G17232' => 'tpr', 'TPR.G2133' => 'tpr', 'TPR.G2498' => 'tpr', 'TPR.G31942' => 'tpr', 'TPR.G37877' => 'tpr', 'TPR.G4571' => 'tpr', 'TWI14G1113' => 'twi', 'TWI15G0426' => 'twi', 'TWI31G1005' => 'twi', 'TWI38G0513' => 'twi', 'TWI38G1484' => 'twi', 'TWI73G1098' => 'twi', 'unitig_26.g10519' => 'ugi', 'unitig_736.g22395' => 'ugi', 'unitig_747.g21234' => 'ugi', 'unitig_747.g21942' => 'ugi', 'vmacro14351' => 'vma', 'VMungo0540G0082' => 'vmu', 'VMungo0540G0405' => 'vmu', 'VMungo0540G1486' => 'vmu', 'VMungo0540G1692' => 'vmu', 'VMungo0720G2473' => 'vmu', 'VMungo1127G1562' => 'vmu', 'VMungo1215G1918' => 'vmu', 'Zm00001eb052650' => 'zma', 'Zm00001eb063710' => 'zma', 'Zm00001eb083950' => 'zma', 'Zm00001eb174420' => 'zma', 'Zm00001eb260140' => 'zma', 'Zm00001eb260150' => 'zma', 'Zm00001eb260160' => 'zma', 'Zm00001eb348290' => 'zma', 'Zm00001eb366870' => 'zma', 'Zm00001eb421930' => 'zma' ) $gf_id = 'HOM05D001025' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001025' ) $data_identifier = 'HOM05D001025' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 19, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 2, 'amhyb' => (int) 4, 'aly' => (int) 4, 'aox' => (int) 4, 'arhy' => (int) 3, 'ath' => (int) 5, 'atr' => (int) 4, 'acertr' => (int) 3, 'cqu' => (int) 7, 'bca' => (int) 17, 'bol' => (int) 10, 'bra' => (int) 9, 'can' => (int) 10, 'cansat' => (int) 6, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 5, 'cbr' => (int) 5, 'ccan' => (int) 5, 'cde' => (int) 4, 'cfa' => (int) 3, 'ccl' => (int) 6, 'cil' => (int) 4, 'cla' => (int) 3, 'col' => (int) 3, 'cpa' => (int) 3, 'cre' => (int) 7, 'csa' => (int) 5, 'camsi' => (int) 9, 'dca' => (int) 4, 'din' => (int) 5, 'dzi' => (int) 7, 'eca' => (int) 6, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 12, 'fve' => (int) 4, 'gma' => (int) 12, 'ghi' => (int) 17, 'gra' => (int) 9, 'vvi' => (int) 2, 'han' => (int) 8, 'cav' => (int) 5, 'hma' => (int) 9, 'vpl' => (int) 4, 'sun' => (int) 2, 'lal' => (int) 9, 'lja' => (int) 5, 'lonja' => (int) 6, 'lsa' => (int) 3, 'mes' => (int) 8, 'mpo' => (int) 3, 'mbi' => (int) 4, 'mco' => (int) 3, 'mdo' => (int) 5, 'mtr' => (int) 7, 'cme' => (int) 6, 'egut' => (int) 7, 'ama' => (int) 3, 'nta' => (int) 12, 'nnu' => (int) 9, 'oeu' => (int) 4, 'osa' => (int) 7, 'pax' => (int) 9, 'pgr' => (int) 5, 'stu' => (int) 8, 'pvu' => (int) 6, 'ptr' => (int) 9, 'ppa' => (int) 9, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 7, 'pso' => (int) 10, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 3, 'sbr' => (int) 8, 'sbo' => (int) 5, 'sci' => (int) 5, 'sed' => (int) 4, 'sgi' => (int) 4, 'sas' => (int) 4, 'smo' => (int) 5, 'sly' => (int) 7, 'spe' => (int) 10, 'spa' => (int) 5, 'tar' => (int) 5, 'tha' => (int) 8, 'tca' => (int) 3, 'esa' => (int) 5, 'tpr' => (int) 6, 'twi' => (int) 6, 'ugi' => (int) 4, 'vma' => (int) 1, 'vmu' => (int) 7, 'zma' => (int) 10 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb421930' $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' => 'HOM05D001025', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '592', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p22650' => 'bna', 'A01p29720' => 'bna', 'A03p26560' => 'bna', 'A03p68820' => 'bna', 'A04p20980' => 'bna', 'A06p07730' => 'bna', 'A07p18260' => 'bna', 'A08p33710' => 'bna', 'A09p16970' => 'bna', 'A10p27490' => 'bna', 'Aa31LG1G17300' => 'aar', 'Aa31LG1G3910' => 'aar', 'Aa31LG2G9630' => 'aar', 'Aa31LG5G8360' => 'aar', 'Aa31LG9G2410' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4699' => 'aag', 'Actinidia23512' => 'ach', 'Actinidia37080' => 'ach', 'Ah.01g020380' => 'amhyb', 'Ah.08g215710' => 'amhyb', 'Ah.09g225110' => 'amhyb', 'Ah.10g036680' => 'amhyb', 'AL1G21940' => 'aly', 'AL2G15540' => 'aly', 'AL4G21520' => 'aly', 'AL7G40960' => 'aly', 'Aqoxy2G01191' => 'aox', 'Aqoxy2G03393' => 'aox', 'Aqoxy4G02775' => 'aox', 'Aqoxy6G00058' => 'aox', 'arahy.Tifrunner.gnm1.ann1.9X74H2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CW3FX9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R485W7' => 'arhy', 'AT1G10960' => 'ath', 'AT1G60950' => 'ath', 'AT2G27510' => 'ath', 'AT4G14890' => 'ath', 'AT5G10000' => 'ath', 'ATR0665G624' => 'atr', 'ATR0697G138' => 'atr', 'ATR0776G046' => 'atr', 'ATR1134G135' => 'atr', 'Atru.chr12.1025' => 'acertr', 'Atru.chr3.3241' => 'acertr', 'Atru.chr4.2460' => 'acertr', 'AUR62007427' => 'cqu', 'AUR62010960' => 'cqu', 'AUR62012201' => 'cqu', 'AUR62021470' => 'cqu', 'AUR62022834' => 'cqu', 'AUR62033635' => 'cqu', 'AUR62036186' => 'cqu', 'BcaB01g03077' => 'bca', 'BcaB02g10093' => 'bca', 'BcaB04g20295' => 'bca', 'BcaB06g28147' => 'bca', 'BcaB07g31253' => 'bca', 'BcaC01g04946' => 'bca', 'BcaC02g10614' => 'bca', 'BcaC02g10885' => 'bca', 'BcaC04g19356' => 'bca', 'BcaC04g22297' => 'bca', 'BcaC05g24977' => 'bca', 'BcaC06g31823' => 'bca', 'BcaC07g38633' => 'bca', 'BcaC09g49353' => 'bca', 'BcaC09g50168' => 'bca', 'BcaNung00322' => 'bca', 'BcaNung04769' => 'bca', 'BolC1t02753H' => 'bol', 'BolC1t03721H' => 'bol', 'BolC3t15525H' => 'bol', 'BolC4t23903H' => 'bol', 'BolC4t24231H' => 'bol', 'BolC4t27209H' => 'bol', 'BolC5t29671H' => 'bol', 'BolC8t49044H' => 'bol', 'BolC9t54999H' => 'bol', 'BolC9t59517H' => 'bol', 'BraA01t02178Z' => 'bra', 'BraA01t03099Z' => 'bra', 'BraA03t11867Z' => 'bra', 'BraA04t17667Z' => 'bra', 'BraA07t29542Z' => 'bra', 'BraA08t35287Z' => 'bra', 'BraA09t37334Z' => 'bra', 'BraA10t44801Z' => 'bra', 'BraSC39t46181Z' => 'bra', 'C01p28240' => 'bna', 'C01p37530' => 'bna', 'C03p31820' => 'bna', 'C04p24080' => 'bna', 'C04p25790' => 'bna', 'C04p56770' => 'bna', 'C05p09310' => 'bna', 'C09p21010' => 'bna', 'C09p67560' => 'bna', 'CAN.G1324.7' => 'can', 'CAN.G1358.10' => 'can', 'CAN.G1550.2' => 'can', 'CAN.G186.56' => 'can', 'CAN.G1965.1' => 'can', 'CAN.G645.15' => 'can', 'CAN.G798.26' => 'can', 'CAN.G798.27' => 'can', 'CAN.G798.29' => 'can', 'CAN.G919.31' => 'can', 'CANSAT11G0133' => 'cansat', 'CANSAT11G1171' => 'cansat', 'CANSAT11G2056' => 'cansat', 'CANSAT56G1202' => 'cansat', 'CANSAT56G1514' => 'cansat', 'CANSAT78G0455' => 'cansat', 'CARHR011190' => 'chi', 'CARHR051980' => 'chi', 'CARHR120170' => 'chi', 'CARHR203310' => 'chi', 'CARHR221490' => 'chi', 'Carub.0001s1054' => 'cru', 'Carub.0002s0431' => 'cru', 'Carub.0004s0818' => 'cru', 'Carub.0006s0846' => 'cru', 'Carub.0007s2722' => 'cru', 'Ca_00058_v3' => 'car', 'Ca_17831_v3' => 'car', 'Ca_19408_v3' => 'car', 'Ca_24397_v3' => 'car', 'Ca_25664_v3' => 'car', 'CBR_g21818' => 'cbr', 'CBR_g31195' => 'cbr', 'CBR_g32282' => 'cbr', 'CBR_g39599' => 'cbr', 'CBR_g49410' => 'cbr', 'Cc01_g09120' => 'ccan', 'Cc01_g09130' => 'ccan', 'Cc02_g09630' => 'ccan', 'Cc02_g22810' => 'ccan', 'Cc03_g03810' => 'ccan', 'CDE02G3718' => 'cde', 'CDE04G3183' => 'cde', 'CDE07G1046' => 'cde', 'CDE08G0480' => 'cde', 'Cfa005493' => 'cfa', 'Cfa010312' => 'cfa', 'Cfa015648' => 'cfa', 'Ciclev10002793m.g' => 'ccl', 'Ciclev10003356m.g' => 'ccl', 'Ciclev10006141m.g' => 'ccl', 'Ciclev10016676m.g' => 'ccl', 'Ciclev10017081m.g' => 'ccl', 'Ciclev10029499m.g' => 'ccl', 'CiPaw.01G166300' => 'cil', 'CiPaw.06G145600' => 'cil', 'CiPaw.13G040100' => 'cil', 'CiPaw.13G135800' => 'cil', 'ClCG01G012230' => 'cla', 'ClCG05G009510' => 'cla', 'ClCG08G008270' => 'cla', 'COL.COLO4_11763' => 'col', 'COL.COLO4_19876' => 'col', 'COL.COLO4_21481' => 'col', 'Cpa.g.sc118.34' => 'cpa', 'Cpa.g.sc32.13' => 'cpa', 'Cpa.g.sc58.103' => 'cpa', 'Cre03.g183850' => 'cre', 'Cre06.g306350' => 'cre', 'Cre07.g334800' => 'cre', 'Cre12.g487900' => 'cre', 'Cre14.g626700' => 'cre', 'Cre16.g658400' => 'cre', 'Cre17.g700950' => 'cre', 'CsaV3_1G014830' => 'csa', 'CsaV3_3G013320' => 'csa', 'CsaV3_3G019210' => 'csa', 'CsaV3_3G019220' => 'csa', 'CsaV3_6G004230' => 'csa', 'CSS0003773' => 'camsi', 'CSS0004563' => 'camsi', 'CSS0013949' => 'camsi', 'CSS0025971' => 'camsi', 'CSS0028570' => 'camsi', 'CSS0033127' => 'camsi', 'CSS0036051' => 'camsi', 'CSS0040087' => 'camsi', 'CSS0043179' => 'camsi', 'DCAR_006161' => 'dca', 'DCAR_010351' => 'dca', 'DCAR_012197' => 'dca', 'DCAR_024162' => 'dca', 'Dinv01030' => 'din', 'Dinv10924' => 'din', 'Dinv11835' => 'din', 'Dinv22841' => 'din', 'Dinv42553' => 'din', 'Duzib052G0560' => 'dzi', 'Duzib132G0389' => 'dzi', 'Duzib150G1181' => 'dzi', 'Duzib168G0623' => 'dzi', 'Duzib170G1036' => 'dzi', 'Duzib212G0200' => 'dzi', 'Duzib248G0194' => 'dzi', 'ECA232G2193' => 'eca', 'ECA233G0302' => 'eca', 'ECA234G2813' => 'eca', 'ECA234G4866' => 'eca', 'ECA240G3932' => 'eca', 'ECA248G0385' => 'eca', 'EL10Ac2g04781' => 'bvu', 'EL10Ac3g06445' => 'bvu', 'EL10Ac7g15825' => 'bvu', 'EL10Ac8g18550' => 'bvu', 'Eucgr.B03849' => 'egr', 'Eucgr.I02744' => 'egr', 'Eucgr.J00264' => 'egr', 'Eucgr.J00493' => 'egr', 'FAN04G2181' => 'fan', 'FAN07G2666' => 'fan', 'FAN11G0024' => 'fan', 'FAN12G1105' => 'fan', 'FAN13G0302' => 'fan', 'FAN15G2781' => 'fan', 'FAN16G1274' => 'fan', 'FAN17G2988' => 'fan', 'FAN18G2621' => 'fan', 'FAN21G0013' => 'fan', 'FAN22G1211' => 'fan', 'FAN25G3626' => 'fan', 'FvH4_2g09491' => 'fve', 'FvH4_3g24910' => 'fve', 'FvH4_4g15630' => 'fve', 'FvH4_5g28820' => 'fve', 'Glyma.01G238000' => 'gma', 'Glyma.05G168400' => 'gma', 'Glyma.08G126800' => 'gma', 'Glyma.08G188500' => 'gma', 'Glyma.10G278900' => 'gma', 'Glyma.11G005700' => 'gma', 'Glyma.11G183300' => 'gma', 'Glyma.12G089200' => 'gma', 'Glyma.12G169400' => 'gma', 'Glyma.12G169500' => 'gma', 'Glyma.12G169600' => 'gma', 'Glyma.20G110800' => 'gma', 'Gohir.A03G192900' => 'ghi', 'Gohir.A03G193000' => 'ghi', 'Gohir.A05G080700' => 'ghi', 'Gohir.A09G216000' => 'ghi', 'Gohir.A12G027700' => 'ghi', 'Gohir.A13G036200' => 'ghi', 'Gohir.A13G222600' => 'ghi', 'Gohir.D02G213900' => 'ghi', 'Gohir.D02G214000' => 'ghi', 'Gohir.D05G083700' => 'ghi', 'Gohir.D05G083800' => 'ghi', 'Gohir.D05G083850' => 'ghi', 'Gohir.D08G015400' => 'ghi', 'Gohir.D09G218400' => 'ghi', 'Gohir.D12G027100' => 'ghi', 'Gohir.D13G034500' => 'ghi', 'Gohir.D13G227400' => 'ghi', 'Gorai.005G241800' => 'gra', 'Gorai.005G241900' => 'gra', 'Gorai.006G239400' => 'gra', 'Gorai.008G027600' => 'gra', 'Gorai.009G085400' => 'gra', 'Gorai.009G085500' => 'gra', 'Gorai.013G039000' => 'gra', 'Gorai.013G194800' => 'gra', 'Gorai.013G257900' => 'gra', 'GSVIVG01000982001' => 'vvi', 'GSVIVG01017981001' => 'vvi', 'HanXRQChr01g0024061' => 'han', 'HanXRQChr09g0247831' => 'han', 'HanXRQChr10g0294611' => 'han', 'HanXRQChr10g0294621' => 'han', 'HanXRQChr11g0346821' => 'han', 'HanXRQChr13g0397461' => 'han', 'HanXRQChr16g0513651' => 'han', 'HanXRQChr16g0513701' => 'han', 'Haze_00897' => 'cav', 'Haze_01745' => 'cav', 'Haze_02486' => 'cav', 'Haze_02487' => 'cav', 'Haze_23374' => 'cav', 'Hma1.2p1_0578F.1_g182520' => 'hma', 'Hma1.2p1_0602F.1_g187350' => 'hma', 'Hma1.2p1_0602F.1_g187360' => 'hma', 'Hma1.2p1_0874F.1_g231320' => 'hma', 'Hma1.2p1_1197F.1_g266210' => 'hma', 'Hma1.2p1_1197F.1_g266220' => 'hma', 'Hma1.2p1_2167F.1_g315895' => 'hma', 'Hma1.2p1_2190F.1_g316640' => 'hma', 'Hma1.2p1_3645F.1_g337153' => 'hma', 'HPP92_004907' => 'vpl', 'HPP92_012134' => 'vpl', 'HPP92_025136' => 'vpl', 'HPP92_026087' => 'vpl', 'Hund06782' => 'sun', 'Hund06784' => 'sun', 'Lalb_Chr01g0004861' => 'lal', 'Lalb_Chr02g0140591' => 'lal', 'Lalb_Chr02g0140611' => 'lal', 'Lalb_Chr03g0028101' => 'lal', 'Lalb_Chr07g0185791' => 'lal', 'Lalb_Chr12g0204491' => 'lal', 'Lalb_Chr13g0295671' => 'lal', 'Lalb_Chr19g0136461' => 'lal', 'Lalb_Chr21g0309191' => 'lal', 'Lj1g0028158' => 'lja', 'Lj1P236T38' => 'lonja', 'Lj2C32G2' => 'lonja', 'Lj2P944T8' => 'lonja', 'Lj2P963T15' => 'lonja', 'Lj3g0011788' => 'lja', 'Lj4g0025027' => 'lja', 'Lj5P255T36' => 'lonja', 'Lj6g0018866' => 'lja', 'Lj6P608T31' => 'lonja', 'LjContig00408g0008879' => 'lja', 'Lsat_1_v5_gn_5_105820' => 'lsa', 'Lsat_1_v5_gn_6_38800' => 'lsa', 'Lsat_1_v5_gn_7_67141' => 'lsa', 'Manes.04G003400' => 'mes', 'Manes.07G020000' => 'mes', 'Manes.07G020100' => 'mes', 'Manes.07G020150' => 'mes', 'Manes.10G061500' => 'mes', 'Manes.10G123200' => 'mes', 'Manes.11G161900' => 'mes', 'Manes.15G029300' => 'mes', 'Mapoly0071s0018' => 'mpo', 'Mapoly0082s0023' => 'mpo', 'Mapoly3477s0001' => 'mpo', 'MBI05_g31233_MAGBIO' => 'mbi', 'MBI09_g05946_MAGBIO' => 'mbi', 'MBI09_g05947_MAGBIO' => 'mbi', 'MBI17_g08346_MAGBIO' => 'mbi', 'MCO04G038' => 'mco', 'MCO09G370' => 'mco', 'MCO13G605' => 'mco', 'MD00G1075500' => 'mdo', 'MD03G1144300' => 'mdo', 'MD08G1236800' => 'mdo', 'MD13G1193300' => 'mdo', 'MD15G1428700' => 'mdo', 'Medtr1g112030' => 'mtr', 'Medtr1g112050' => 'mtr', 'Medtr2g006290' => 'mtr', 'Medtr2g086510' => 'mtr', 'Medtr4g053120' => 'mtr', 'Medtr5g006320' => 'mtr', 'Medtr8g088720' => 'mtr', 'MELO3C004712.2' => 'cme', 'MELO3C006533.2' => 'cme', 'MELO3C019438.2' => 'cme', 'MELO3C019440.2' => 'cme', 'MELO3C019441.2' => 'cme', 'MELO3C019895.2' => 'cme', 'Migut.B00811' => 'egut', 'Migut.D02447' => 'egut', 'Migut.F00875' => 'egut', 'Migut.N00186' => 'egut', 'Migut.N01051' => 'egut', 'Migut.N02491' => 'egut', 'Migut.O00784' => 'egut', 'MSTRG.12367' => 'ama', 'MSTRG.18756' => 'ama', 'MSTRG.21042' => 'ama', 'Nitab4.5_0000559g0040' => 'nta', 'Nitab4.5_0000667g0190' => 'nta', 'Nitab4.5_0000755g0160' => 'nta', 'Nitab4.5_0001216g0080' => 'nta', 'Nitab4.5_0004069g0040' => 'nta', 'Nitab4.5_0004129g0010' => 'nta', 'Nitab4.5_0005744g0030' => 'nta', 'Nitab4.5_0006996g0030' => 'nta', 'Nitab4.5_0008971g0040' => 'nta', 'Nitab4.5_0009769g0020' => 'nta', 'Nitab4.5_0009833g0010' => 'nta', 'Nitab4.5_0013140g0020' => 'nta', 'Nn003s41376' => 'nnu', 'Nn1g01857' => 'nnu', 'Nn1g03611' => 'nnu', 'Nn1g06853' => 'nnu', 'Nn3g18360' => 'nnu', 'Nn4g26328' => 'nnu', 'Nn5g27531' => 'nnu', 'Nn6g34899' => 'nnu', 'Nn7g36299' => 'nnu', 'Oeu021485.1' => 'oeu', 'Oeu022433.1' => 'oeu', 'Oeu032111.1' => 'oeu', 'Oeu051608.1' => 'oeu', 'Os01g0860601' => 'osa', 'Os03g0659200' => 'osa', 'Os03g0835900' => 'osa', 'Os04g0412200' => 'osa', 'Os05g0443500' => 'osa', 'Os07g0251500' => 'osa', 'Os08g0104600' => 'osa', 'Peaxi162Scf00003g00047' => 'pax', 'Peaxi162Scf00003g00052' => 'pax', 'Peaxi162Scf00003g00394' => 'pax', 'Peaxi162Scf00091g00621' => 'pax', 'Peaxi162Scf00152g00146' => 'pax', 'Peaxi162Scf00173g00025' => 'pax', 'Peaxi162Scf00195g00102' => 'pax', 'Peaxi162Scf00402g00013' => 'pax', 'Peaxi162Scf00519g00618' => 'pax', 'PGR004G2838' => 'pgr', 'PGR044G2275' => 'pgr', 'PGR102G1377' => 'pgr', 'PGR119G1245' => 'pgr', 'PGR142G4449' => 'pgr', 'PGSC0003DMG400004532' => 'stu', 'PGSC0003DMG400011950' => 'stu', 'PGSC0003DMG400023391' => 'stu', 'PGSC0003DMG400023985' => 'stu', 'PGSC0003DMG400026360' => 'stu', 'PGSC0003DMG400035711' => 'stu', 'PGSC0003DMG400037286' => 'stu', 'PGSC0003DMG402005881' => 'stu', 'Phvul.002G045400' => 'pvu', 'Phvul.006G216600' => 'pvu', 'Phvul.006G216700' => 'pvu', 'Phvul.006G216800' => 'pvu', 'Phvul.007G022500' => 'pvu', 'Phvul.011G094400' => 'pvu', 'Potri.001G470700' => 'ptr', 'Potri.003G015200' => 'ptr', 'Potri.004G202500' => 'ptr', 'Potri.004G218400' => 'ptr', 'Potri.008G020100' => 'ptr', 'Potri.008G153200' => 'ptr', 'Potri.009G163800' => 'ptr', 'Potri.010G087300' => 'ptr', 'Potri.010G239100' => 'ptr', 'Pp3c10_16100' => 'ppa', 'Pp3c10_16880' => 'ppa', 'Pp3c16_6230' => 'ppa', 'Pp3c17_18910' => 'ppa', 'Pp3c3_22119' => 'ppa', 'Pp3c3_22140' => 'ppa', 'Pp3c4_8159' => 'ppa', 'Pp3c4_8171' => 'ppa', 'Pp3c4_8330' => 'ppa', 'PRCOL_00004098' => 'pco', 'Prupe.1G013900' => 'ppe', 'Prupe.1G226300' => 'ppe', 'Prupe.1G573600' => 'ppe', 'Prupe.6G130100' => 'ppe', 'Psat3g090040' => 'psa', 'Psat4g210440' => 'psa', 'Psat6g231040' => 'psa', 'Psat6g231080' => 'psa', 'Psat7g063000' => 'psa', 'Psat7g188000' => 'psa', 'Psat7g188040' => 'psa', 'PSO017G0206' => 'pso', 'PSO170G0501' => 'pso', 'PSO170G6422' => 'pso', 'PSO210G7739' => 'pso', 'PSO339G1808' => 'pso', 'PSO339G6135' => 'pso', 'PSO384G0010' => 'pso', 'PSO384G0964' => 'pso', 'PSO761G0050' => 'pso', 'PSO782G4085' => 'pso', 'QL01p012264' => 'qlo', 'QL02p099491' => 'qlo', 'QL03p033868' => 'qlo', 'QL04p046678' => 'qlo', 'QL06p002448' => 'qlo', 'RcHm_v2.0_Chr4g0416181' => 'rch', 'RcHm_v2.0_Chr5g0044701' => 'rch', 'RcHm_v2.0_Chr6g0265781' => 'rch', 'RcHm_v2.0_Chr7g0221031' => 'rch', 'Rhsim04G0202000' => 'rsi', 'Rhsim11G0127300' => 'rsi', 'Rhsim13G0111800' => 'rsi', 'Sabra01G0165600' => 'sbr', 'Sabra03G0008300' => 'sbr', 'Sabra04G0136900' => 'sbr', 'Sabra08G0013400' => 'sbr', 'Sabra08G0116800' => 'sbr', 'Sabra09G0128000' => 'sbr', 'Sabra10G0055500' => 'sbr', 'Sabra10G0073300' => 'sbr', 'SalBow3G0385' => 'sbo', 'SalBow3G1119' => 'sbo', 'SalBow3G2005' => 'sbo', 'SalBow6G2563' => 'sbo', 'SalBow6G6386' => 'sbo', 'Sc06g0008800' => 'sci', 'Sc07g0004950' => 'sci', 'Sc09g0005340' => 'sci', 'Sc13g0004410' => 'sci', 'Sc21g0007090' => 'sci', 'Sed0009285' => 'sed', 'Sed0017583' => 'sed', 'Sed0019699' => 'sed', 'Sed0023107' => 'sed', 'SEGI_10916' => 'sgi', 'SEGI_16217' => 'sgi', 'SEGI_19466' => 'sgi', 'SEGI_41115' => 'sgi', 'SGA_v2.0_scaffold111G31534' => 'sas', 'SGA_v2.0_scaffold22G09864' => 'sas', 'SGA_v2.0_scaffold338G49219' => 'sas', 'SGA_v2.0_scaffold92G28298' => 'sas', 'SMO119G0064' => 'smo', 'SMO223G0038' => 'smo', 'SMO347G0584' => 'smo', 'SMO351G0010' => 'smo', 'SMO356G0404' => 'smo', 'Solyc01g103920.3' => 'sly', 'Solyc04g009710.2' => 'sly', 'Solyc05g055280.2' => 'sly', 'Solyc10g044520.3' => 'sly', 'Solyc10g075160.1' => 'sly', 'Solyc11g006910.3' => 'sly', 'Solyc11g068430.3' => 'sly', 'Sopen01g046310' => 'spe', 'Sopen03g001200' => 'spe', 'Sopen04g004830' => 'spe', 'Sopen05g033720' => 'spe', 'Sopen06g030740' => 'spe', 'Sopen10g013090' => 'spe', 'Sopen10g027630' => 'spe', 'Sopen10g027640' => 'spe', 'Sopen11g002820' => 'spe', 'Sopen11g027140' => 'spe', 'Sp1g09680' => 'spa', 'Sp2g03630' => 'spa', 'Sp4g10320' => 'spa', 'Sp6g33400' => 'spa', 'Sp7g13030' => 'spa', 'TAR365G0317' => 'tar', 'TAR376G0979' => 'tar', 'TAR623G1665' => 'tar', 'TAR633G2373' => 'tar', 'TAR636G1400' => 'tar', 'THA.LOC104800529' => 'tha', 'THA.LOC104808547' => 'tha', 'THA.LOC104809615' => 'tha', 'THA.LOC104815724' => 'tha', 'THA.LOC104818480' => 'tha', 'THA.LOC104819179' => 'tha', 'THA.LOC104822270' => 'tha', 'THA.LOC104826425' => 'tha', 'Thecc.02G089700' => 'tca', 'Thecc.04G232300' => 'tca', 'Thecc.09G283400' => 'tca', 'Thhalv10009020m.g' => 'esa', 'Thhalv10015506m.g' => 'esa', 'Thhalv10017364m.g' => 'esa', 'Thhalv10023742m.g' => 'esa', 'Thhalv10026483m.g' => 'esa', 'TPR.G17232' => 'tpr', 'TPR.G2133' => 'tpr', 'TPR.G2498' => 'tpr', 'TPR.G31942' => 'tpr', 'TPR.G37877' => 'tpr', 'TPR.G4571' => 'tpr', 'TWI14G1113' => 'twi', 'TWI15G0426' => 'twi', 'TWI31G1005' => 'twi', 'TWI38G0513' => 'twi', 'TWI38G1484' => 'twi', 'TWI73G1098' => 'twi', 'unitig_26.g10519' => 'ugi', 'unitig_736.g22395' => 'ugi', 'unitig_747.g21234' => 'ugi', 'unitig_747.g21942' => 'ugi', 'vmacro14351' => 'vma', 'VMungo0540G0082' => 'vmu', 'VMungo0540G0405' => 'vmu', 'VMungo0540G1486' => 'vmu', 'VMungo0540G1692' => 'vmu', 'VMungo0720G2473' => 'vmu', 'VMungo1127G1562' => 'vmu', 'VMungo1215G1918' => 'vmu', 'Zm00001eb052650' => 'zma', 'Zm00001eb063710' => 'zma', 'Zm00001eb083950' => 'zma', 'Zm00001eb174420' => 'zma', 'Zm00001eb260140' => 'zma', 'Zm00001eb260150' => 'zma', 'Zm00001eb260160' => 'zma', 'Zm00001eb348290' => 'zma', 'Zm00001eb366870' => 'zma', 'Zm00001eb421930' => 'zma' ), 'gf_id' => 'HOM05D001025', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001025' ), 'data_identifier' => 'HOM05D001025', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001025', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '592', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p22650' => 'bna', 'A01p29720' => 'bna', 'A03p26560' => 'bna', 'A03p68820' => 'bna', 'A04p20980' => 'bna', 'A06p07730' => 'bna', 'A07p18260' => 'bna', 'A08p33710' => 'bna', 'A09p16970' => 'bna', 'A10p27490' => 'bna', 'Aa31LG1G17300' => 'aar', 'Aa31LG1G3910' => 'aar', 'Aa31LG2G9630' => 'aar', 'Aa31LG5G8360' => 'aar', 'Aa31LG9G2410' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4699' => 'aag', 'Actinidia23512' => 'ach', 'Actinidia37080' => 'ach', 'Ah.01g020380' => 'amhyb', 'Ah.08g215710' => 'amhyb', 'Ah.09g225110' => 'amhyb', 'Ah.10g036680' => 'amhyb', 'AL1G21940' => 'aly', 'AL2G15540' => 'aly', 'AL4G21520' => 'aly', 'AL7G40960' => 'aly', 'Aqoxy2G01191' => 'aox', 'Aqoxy2G03393' => 'aox', 'Aqoxy4G02775' => 'aox', 'Aqoxy6G00058' => 'aox', 'arahy.Tifrunner.gnm1.ann1.9X74H2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CW3FX9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R485W7' => 'arhy', 'AT1G10960' => 'ath', 'AT1G60950' => 'ath', 'AT2G27510' => 'ath', 'AT4G14890' => 'ath', 'AT5G10000' => 'ath', 'ATR0665G624' => 'atr', 'ATR0697G138' => 'atr', 'ATR0776G046' => 'atr', 'ATR1134G135' => 'atr', 'Atru.chr12.1025' => 'acertr', 'Atru.chr3.3241' => 'acertr', 'Atru.chr4.2460' => 'acertr', 'AUR62007427' => 'cqu', 'AUR62010960' => 'cqu', 'AUR62012201' => 'cqu', 'AUR62021470' => 'cqu', 'AUR62022834' => 'cqu', 'AUR62033635' => 'cqu', 'AUR62036186' => 'cqu', 'BcaB01g03077' => 'bca', 'BcaB02g10093' => 'bca', 'BcaB04g20295' => 'bca', 'BcaB06g28147' => 'bca', 'BcaB07g31253' => 'bca', 'BcaC01g04946' => 'bca', 'BcaC02g10614' => 'bca', 'BcaC02g10885' => 'bca', 'BcaC04g19356' => 'bca', 'BcaC04g22297' => 'bca', 'BcaC05g24977' => 'bca', 'BcaC06g31823' => 'bca', 'BcaC07g38633' => 'bca', 'BcaC09g49353' => 'bca', 'BcaC09g50168' => 'bca', 'BcaNung00322' => 'bca', 'BcaNung04769' => 'bca', 'BolC1t02753H' => 'bol', 'BolC1t03721H' => 'bol', 'BolC3t15525H' => 'bol', 'BolC4t23903H' => 'bol', 'BolC4t24231H' => 'bol', 'BolC4t27209H' => 'bol', 'BolC5t29671H' => 'bol', 'BolC8t49044H' => 'bol', 'BolC9t54999H' => 'bol', 'BolC9t59517H' => 'bol', 'BraA01t02178Z' => 'bra', 'BraA01t03099Z' => 'bra', 'BraA03t11867Z' => 'bra', 'BraA04t17667Z' => 'bra', 'BraA07t29542Z' => 'bra', 'BraA08t35287Z' => 'bra', 'BraA09t37334Z' => 'bra', 'BraA10t44801Z' => 'bra', 'BraSC39t46181Z' => 'bra', 'C01p28240' => 'bna', 'C01p37530' => 'bna', 'C03p31820' => 'bna', 'C04p24080' => 'bna', 'C04p25790' => 'bna', 'C04p56770' => 'bna', 'C05p09310' => 'bna', 'C09p21010' => 'bna', 'C09p67560' => 'bna', 'CAN.G1324.7' => 'can', 'CAN.G1358.10' => 'can', 'CAN.G1550.2' => 'can', 'CAN.G186.56' => 'can', 'CAN.G1965.1' => 'can', 'CAN.G645.15' => 'can', 'CAN.G798.26' => 'can', 'CAN.G798.27' => 'can', 'CAN.G798.29' => 'can', 'CAN.G919.31' => 'can', 'CANSAT11G0133' => 'cansat', 'CANSAT11G1171' => 'cansat', 'CANSAT11G2056' => 'cansat', 'CANSAT56G1202' => 'cansat', 'CANSAT56G1514' => 'cansat', 'CANSAT78G0455' => 'cansat', 'CARHR011190' => 'chi', 'CARHR051980' => 'chi', 'CARHR120170' => 'chi', 'CARHR203310' => 'chi', 'CARHR221490' => 'chi', 'Carub.0001s1054' => 'cru', 'Carub.0002s0431' => 'cru', 'Carub.0004s0818' => 'cru', 'Carub.0006s0846' => 'cru', 'Carub.0007s2722' => 'cru', 'Ca_00058_v3' => 'car', 'Ca_17831_v3' => 'car', 'Ca_19408_v3' => 'car', 'Ca_24397_v3' => 'car', 'Ca_25664_v3' => 'car', 'CBR_g21818' => 'cbr', 'CBR_g31195' => 'cbr', 'CBR_g32282' => 'cbr', 'CBR_g39599' => 'cbr', 'CBR_g49410' => 'cbr', 'Cc01_g09120' => 'ccan', 'Cc01_g09130' => 'ccan', 'Cc02_g09630' => 'ccan', 'Cc02_g22810' => 'ccan', 'Cc03_g03810' => 'ccan', 'CDE02G3718' => 'cde', 'CDE04G3183' => 'cde', 'CDE07G1046' => 'cde', 'CDE08G0480' => 'cde', 'Cfa005493' => 'cfa', 'Cfa010312' => 'cfa', 'Cfa015648' => 'cfa', 'Ciclev10002793m.g' => 'ccl', 'Ciclev10003356m.g' => 'ccl', 'Ciclev10006141m.g' => 'ccl', 'Ciclev10016676m.g' => 'ccl', 'Ciclev10017081m.g' => 'ccl', 'Ciclev10029499m.g' => 'ccl', 'CiPaw.01G166300' => 'cil', 'CiPaw.06G145600' => 'cil', 'CiPaw.13G040100' => 'cil', 'CiPaw.13G135800' => 'cil', 'ClCG01G012230' => 'cla', 'ClCG05G009510' => 'cla', 'ClCG08G008270' => 'cla', 'COL.COLO4_11763' => 'col', 'COL.COLO4_19876' => 'col', 'COL.COLO4_21481' => 'col', 'Cpa.g.sc118.34' => 'cpa', 'Cpa.g.sc32.13' => 'cpa', 'Cpa.g.sc58.103' => 'cpa', 'Cre03.g183850' => 'cre', 'Cre06.g306350' => 'cre', 'Cre07.g334800' => 'cre', 'Cre12.g487900' => 'cre', 'Cre14.g626700' => 'cre', 'Cre16.g658400' => 'cre', 'Cre17.g700950' => 'cre', 'CsaV3_1G014830' => 'csa', 'CsaV3_3G013320' => 'csa', 'CsaV3_3G019210' => 'csa', 'CsaV3_3G019220' => 'csa', 'CsaV3_6G004230' => 'csa', 'CSS0003773' => 'camsi', 'CSS0004563' => 'camsi', 'CSS0013949' => 'camsi', 'CSS0025971' => 'camsi', 'CSS0028570' => 'camsi', 'CSS0033127' => 'camsi', 'CSS0036051' => 'camsi', 'CSS0040087' => 'camsi', 'CSS0043179' => 'camsi', 'DCAR_006161' => 'dca', 'DCAR_010351' => 'dca', 'DCAR_012197' => 'dca', 'DCAR_024162' => 'dca', 'Dinv01030' => 'din', 'Dinv10924' => 'din', 'Dinv11835' => 'din', 'Dinv22841' => 'din', 'Dinv42553' => 'din', 'Duzib052G0560' => 'dzi', 'Duzib132G0389' => 'dzi', 'Duzib150G1181' => 'dzi', 'Duzib168G0623' => 'dzi', 'Duzib170G1036' => 'dzi', 'Duzib212G0200' => 'dzi', 'Duzib248G0194' => 'dzi', 'ECA232G2193' => 'eca', 'ECA233G0302' => 'eca', 'ECA234G2813' => 'eca', 'ECA234G4866' => 'eca', 'ECA240G3932' => 'eca', 'ECA248G0385' => 'eca', 'EL10Ac2g04781' => 'bvu', 'EL10Ac3g06445' => 'bvu', 'EL10Ac7g15825' => 'bvu', 'EL10Ac8g18550' => 'bvu', 'Eucgr.B03849' => 'egr', 'Eucgr.I02744' => 'egr', 'Eucgr.J00264' => 'egr', 'Eucgr.J00493' => 'egr', 'FAN04G2181' => 'fan', 'FAN07G2666' => 'fan', 'FAN11G0024' => 'fan', 'FAN12G1105' => 'fan', 'FAN13G0302' => 'fan', 'FAN15G2781' => 'fan', 'FAN16G1274' => 'fan', 'FAN17G2988' => 'fan', 'FAN18G2621' => 'fan', 'FAN21G0013' => 'fan', 'FAN22G1211' => 'fan', 'FAN25G3626' => 'fan', 'FvH4_2g09491' => 'fve', 'FvH4_3g24910' => 'fve', 'FvH4_4g15630' => 'fve', 'FvH4_5g28820' => 'fve', 'Glyma.01G238000' => 'gma', 'Glyma.05G168400' => 'gma', 'Glyma.08G126800' => 'gma', 'Glyma.08G188500' => 'gma', 'Glyma.10G278900' => 'gma', 'Glyma.11G005700' => 'gma', 'Glyma.11G183300' => 'gma', 'Glyma.12G089200' => 'gma', 'Glyma.12G169400' => 'gma', 'Glyma.12G169500' => 'gma', 'Glyma.12G169600' => 'gma', 'Glyma.20G110800' => 'gma', 'Gohir.A03G192900' => 'ghi', 'Gohir.A03G193000' => 'ghi', 'Gohir.A05G080700' => 'ghi', 'Gohir.A09G216000' => 'ghi', 'Gohir.A12G027700' => 'ghi', 'Gohir.A13G036200' => 'ghi', 'Gohir.A13G222600' => 'ghi', 'Gohir.D02G213900' => 'ghi', 'Gohir.D02G214000' => 'ghi', 'Gohir.D05G083700' => 'ghi', 'Gohir.D05G083800' => 'ghi', 'Gohir.D05G083850' => 'ghi', 'Gohir.D08G015400' => 'ghi', 'Gohir.D09G218400' => 'ghi', 'Gohir.D12G027100' => 'ghi', 'Gohir.D13G034500' => 'ghi', 'Gohir.D13G227400' => 'ghi', 'Gorai.005G241800' => 'gra', 'Gorai.005G241900' => 'gra', 'Gorai.006G239400' => 'gra', 'Gorai.008G027600' => 'gra', 'Gorai.009G085400' => 'gra', 'Gorai.009G085500' => 'gra', 'Gorai.013G039000' => 'gra', 'Gorai.013G194800' => 'gra', 'Gorai.013G257900' => 'gra', 'GSVIVG01000982001' => 'vvi', 'GSVIVG01017981001' => 'vvi', 'HanXRQChr01g0024061' => 'han', 'HanXRQChr09g0247831' => 'han', 'HanXRQChr10g0294611' => 'han', 'HanXRQChr10g0294621' => 'han', 'HanXRQChr11g0346821' => 'han', 'HanXRQChr13g0397461' => 'han', 'HanXRQChr16g0513651' => 'han', 'HanXRQChr16g0513701' => 'han', 'Haze_00897' => 'cav', 'Haze_01745' => 'cav', 'Haze_02486' => 'cav', 'Haze_02487' => 'cav', 'Haze_23374' => 'cav', 'Hma1.2p1_0578F.1_g182520' => 'hma', 'Hma1.2p1_0602F.1_g187350' => 'hma', 'Hma1.2p1_0602F.1_g187360' => 'hma', 'Hma1.2p1_0874F.1_g231320' => 'hma', 'Hma1.2p1_1197F.1_g266210' => 'hma', 'Hma1.2p1_1197F.1_g266220' => 'hma', 'Hma1.2p1_2167F.1_g315895' => 'hma', 'Hma1.2p1_2190F.1_g316640' => 'hma', 'Hma1.2p1_3645F.1_g337153' => 'hma', 'HPP92_004907' => 'vpl', 'HPP92_012134' => 'vpl', 'HPP92_025136' => 'vpl', 'HPP92_026087' => 'vpl', 'Hund06782' => 'sun', 'Hund06784' => 'sun', 'Lalb_Chr01g0004861' => 'lal', 'Lalb_Chr02g0140591' => 'lal', 'Lalb_Chr02g0140611' => 'lal', 'Lalb_Chr03g0028101' => 'lal', 'Lalb_Chr07g0185791' => 'lal', 'Lalb_Chr12g0204491' => 'lal', 'Lalb_Chr13g0295671' => 'lal', 'Lalb_Chr19g0136461' => 'lal', 'Lalb_Chr21g0309191' => 'lal', 'Lj1g0028158' => 'lja', 'Lj1P236T38' => 'lonja', 'Lj2C32G2' => 'lonja', 'Lj2P944T8' => 'lonja', 'Lj2P963T15' => 'lonja', 'Lj3g0011788' => 'lja', 'Lj4g0025027' => 'lja', 'Lj5P255T36' => 'lonja', 'Lj6g0018866' => 'lja', 'Lj6P608T31' => 'lonja', 'LjContig00408g0008879' => 'lja', 'Lsat_1_v5_gn_5_105820' => 'lsa', 'Lsat_1_v5_gn_6_38800' => 'lsa', 'Lsat_1_v5_gn_7_67141' => 'lsa', 'Manes.04G003400' => 'mes', 'Manes.07G020000' => 'mes', 'Manes.07G020100' => 'mes', 'Manes.07G020150' => 'mes', 'Manes.10G061500' => 'mes', 'Manes.10G123200' => 'mes', 'Manes.11G161900' => 'mes', 'Manes.15G029300' => 'mes', 'Mapoly0071s0018' => 'mpo', 'Mapoly0082s0023' => 'mpo', 'Mapoly3477s0001' => 'mpo', 'MBI05_g31233_MAGBIO' => 'mbi', 'MBI09_g05946_MAGBIO' => 'mbi', 'MBI09_g05947_MAGBIO' => 'mbi', 'MBI17_g08346_MAGBIO' => 'mbi', 'MCO04G038' => 'mco', 'MCO09G370' => 'mco', 'MCO13G605' => 'mco', 'MD00G1075500' => 'mdo', 'MD03G1144300' => 'mdo', 'MD08G1236800' => 'mdo', 'MD13G1193300' => 'mdo', 'MD15G1428700' => 'mdo', 'Medtr1g112030' => 'mtr', 'Medtr1g112050' => 'mtr', 'Medtr2g006290' => 'mtr', 'Medtr2g086510' => 'mtr', 'Medtr4g053120' => 'mtr', 'Medtr5g006320' => 'mtr', 'Medtr8g088720' => 'mtr', 'MELO3C004712.2' => 'cme', 'MELO3C006533.2' => 'cme', 'MELO3C019438.2' => 'cme', 'MELO3C019440.2' => 'cme', 'MELO3C019441.2' => 'cme', 'MELO3C019895.2' => 'cme', 'Migut.B00811' => 'egut', 'Migut.D02447' => 'egut', 'Migut.F00875' => 'egut', 'Migut.N00186' => 'egut', 'Migut.N01051' => 'egut', 'Migut.N02491' => 'egut', 'Migut.O00784' => 'egut', 'MSTRG.12367' => 'ama', 'MSTRG.18756' => 'ama', 'MSTRG.21042' => 'ama', 'Nitab4.5_0000559g0040' => 'nta', 'Nitab4.5_0000667g0190' => 'nta', 'Nitab4.5_0000755g0160' => 'nta', 'Nitab4.5_0001216g0080' => 'nta', 'Nitab4.5_0004069g0040' => 'nta', 'Nitab4.5_0004129g0010' => 'nta', 'Nitab4.5_0005744g0030' => 'nta', 'Nitab4.5_0006996g0030' => 'nta', 'Nitab4.5_0008971g0040' => 'nta', 'Nitab4.5_0009769g0020' => 'nta', 'Nitab4.5_0009833g0010' => 'nta', 'Nitab4.5_0013140g0020' => 'nta', 'Nn003s41376' => 'nnu', 'Nn1g01857' => 'nnu', 'Nn1g03611' => 'nnu', 'Nn1g06853' => 'nnu', 'Nn3g18360' => 'nnu', 'Nn4g26328' => 'nnu', 'Nn5g27531' => 'nnu', 'Nn6g34899' => 'nnu', 'Nn7g36299' => 'nnu', 'Oeu021485.1' => 'oeu', 'Oeu022433.1' => 'oeu', 'Oeu032111.1' => 'oeu', 'Oeu051608.1' => 'oeu', 'Os01g0860601' => 'osa', 'Os03g0659200' => 'osa', 'Os03g0835900' => 'osa', 'Os04g0412200' => 'osa', 'Os05g0443500' => 'osa', 'Os07g0251500' => 'osa', 'Os08g0104600' => 'osa', 'Peaxi162Scf00003g00047' => 'pax', 'Peaxi162Scf00003g00052' => 'pax', 'Peaxi162Scf00003g00394' => 'pax', 'Peaxi162Scf00091g00621' => 'pax', 'Peaxi162Scf00152g00146' => 'pax', 'Peaxi162Scf00173g00025' => 'pax', 'Peaxi162Scf00195g00102' => 'pax', 'Peaxi162Scf00402g00013' => 'pax', 'Peaxi162Scf00519g00618' => 'pax', 'PGR004G2838' => 'pgr', 'PGR044G2275' => 'pgr', 'PGR102G1377' => 'pgr', 'PGR119G1245' => 'pgr', 'PGR142G4449' => 'pgr', 'PGSC0003DMG400004532' => 'stu', 'PGSC0003DMG400011950' => 'stu', 'PGSC0003DMG400023391' => 'stu', 'PGSC0003DMG400023985' => 'stu', 'PGSC0003DMG400026360' => 'stu', 'PGSC0003DMG400035711' => 'stu', 'PGSC0003DMG400037286' => 'stu', 'PGSC0003DMG402005881' => 'stu', 'Phvul.002G045400' => 'pvu', 'Phvul.006G216600' => 'pvu', 'Phvul.006G216700' => 'pvu', 'Phvul.006G216800' => 'pvu', 'Phvul.007G022500' => 'pvu', 'Phvul.011G094400' => 'pvu', 'Potri.001G470700' => 'ptr', 'Potri.003G015200' => 'ptr', 'Potri.004G202500' => 'ptr', 'Potri.004G218400' => 'ptr', 'Potri.008G020100' => 'ptr', 'Potri.008G153200' => 'ptr', 'Potri.009G163800' => 'ptr', 'Potri.010G087300' => 'ptr', 'Potri.010G239100' => 'ptr', 'Pp3c10_16100' => 'ppa', 'Pp3c10_16880' => 'ppa', 'Pp3c16_6230' => 'ppa', 'Pp3c17_18910' => 'ppa', 'Pp3c3_22119' => 'ppa', 'Pp3c3_22140' => 'ppa', 'Pp3c4_8159' => 'ppa', 'Pp3c4_8171' => 'ppa', 'Pp3c4_8330' => 'ppa', 'PRCOL_00004098' => 'pco', 'Prupe.1G013900' => 'ppe', 'Prupe.1G226300' => 'ppe', 'Prupe.1G573600' => 'ppe', 'Prupe.6G130100' => 'ppe', 'Psat3g090040' => 'psa', 'Psat4g210440' => 'psa', 'Psat6g231040' => 'psa', 'Psat6g231080' => 'psa', 'Psat7g063000' => 'psa', 'Psat7g188000' => 'psa', 'Psat7g188040' => 'psa', 'PSO017G0206' => 'pso', 'PSO170G0501' => 'pso', 'PSO170G6422' => 'pso', 'PSO210G7739' => 'pso', 'PSO339G1808' => 'pso', 'PSO339G6135' => 'pso', 'PSO384G0010' => 'pso', 'PSO384G0964' => 'pso', 'PSO761G0050' => 'pso', 'PSO782G4085' => 'pso', 'QL01p012264' => 'qlo', 'QL02p099491' => 'qlo', 'QL03p033868' => 'qlo', 'QL04p046678' => 'qlo', 'QL06p002448' => 'qlo', 'RcHm_v2.0_Chr4g0416181' => 'rch', 'RcHm_v2.0_Chr5g0044701' => 'rch', 'RcHm_v2.0_Chr6g0265781' => 'rch', 'RcHm_v2.0_Chr7g0221031' => 'rch', 'Rhsim04G0202000' => 'rsi', 'Rhsim11G0127300' => 'rsi', 'Rhsim13G0111800' => 'rsi', 'Sabra01G0165600' => 'sbr', 'Sabra03G0008300' => 'sbr', 'Sabra04G0136900' => 'sbr', 'Sabra08G0013400' => 'sbr', 'Sabra08G0116800' => 'sbr', 'Sabra09G0128000' => 'sbr', 'Sabra10G0055500' => 'sbr', 'Sabra10G0073300' => 'sbr', 'SalBow3G0385' => 'sbo', 'SalBow3G1119' => 'sbo', 'SalBow3G2005' => 'sbo', 'SalBow6G2563' => 'sbo', 'SalBow6G6386' => 'sbo', 'Sc06g0008800' => 'sci', 'Sc07g0004950' => 'sci', 'Sc09g0005340' => 'sci', 'Sc13g0004410' => 'sci', 'Sc21g0007090' => 'sci', 'Sed0009285' => 'sed', 'Sed0017583' => 'sed', 'Sed0019699' => 'sed', 'Sed0023107' => 'sed', 'SEGI_10916' => 'sgi', 'SEGI_16217' => 'sgi', 'SEGI_19466' => 'sgi', 'SEGI_41115' => 'sgi', 'SGA_v2.0_scaffold111G31534' => 'sas', 'SGA_v2.0_scaffold22G09864' => 'sas', 'SGA_v2.0_scaffold338G49219' => 'sas', 'SGA_v2.0_scaffold92G28298' => 'sas', 'SMO119G0064' => 'smo', 'SMO223G0038' => 'smo', 'SMO347G0584' => 'smo', 'SMO351G0010' => 'smo', 'SMO356G0404' => 'smo', 'Solyc01g103920.3' => 'sly', 'Solyc04g009710.2' => 'sly', 'Solyc05g055280.2' => 'sly', 'Solyc10g044520.3' => 'sly', 'Solyc10g075160.1' => 'sly', 'Solyc11g006910.3' => 'sly', 'Solyc11g068430.3' => 'sly', 'Sopen01g046310' => 'spe', 'Sopen03g001200' => 'spe', 'Sopen04g004830' => 'spe', 'Sopen05g033720' => 'spe', 'Sopen06g030740' => 'spe', 'Sopen10g013090' => 'spe', 'Sopen10g027630' => 'spe', 'Sopen10g027640' => 'spe', 'Sopen11g002820' => 'spe', 'Sopen11g027140' => 'spe', 'Sp1g09680' => 'spa', 'Sp2g03630' => 'spa', 'Sp4g10320' => 'spa', 'Sp6g33400' => 'spa', 'Sp7g13030' => 'spa', 'TAR365G0317' => 'tar', 'TAR376G0979' => 'tar', 'TAR623G1665' => 'tar', 'TAR633G2373' => 'tar', 'TAR636G1400' => 'tar', 'THA.LOC104800529' => 'tha', 'THA.LOC104808547' => 'tha', 'THA.LOC104809615' => 'tha', 'THA.LOC104815724' => 'tha', 'THA.LOC104818480' => 'tha', 'THA.LOC104819179' => 'tha', 'THA.LOC104822270' => 'tha', 'THA.LOC104826425' => 'tha', 'Thecc.02G089700' => 'tca', 'Thecc.04G232300' => 'tca', 'Thecc.09G283400' => 'tca', 'Thhalv10009020m.g' => 'esa', 'Thhalv10015506m.g' => 'esa', 'Thhalv10017364m.g' => 'esa', 'Thhalv10023742m.g' => 'esa', 'Thhalv10026483m.g' => 'esa', 'TPR.G17232' => 'tpr', 'TPR.G2133' => 'tpr', 'TPR.G2498' => 'tpr', 'TPR.G31942' => 'tpr', 'TPR.G37877' => 'tpr', 'TPR.G4571' => 'tpr', 'TWI14G1113' => 'twi', 'TWI15G0426' => 'twi', 'TWI31G1005' => 'twi', 'TWI38G0513' => 'twi', 'TWI38G1484' => 'twi', 'TWI73G1098' => 'twi', 'unitig_26.g10519' => 'ugi', 'unitig_736.g22395' => 'ugi', 'unitig_747.g21234' => 'ugi', 'unitig_747.g21942' => 'ugi', 'vmacro14351' => 'vma', 'VMungo0540G0082' => 'vmu', 'VMungo0540G0405' => 'vmu', 'VMungo0540G1486' => 'vmu', 'VMungo0540G1692' => 'vmu', 'VMungo0720G2473' => 'vmu', 'VMungo1127G1562' => 'vmu', 'VMungo1215G1918' => 'vmu', 'Zm00001eb052650' => 'zma', 'Zm00001eb063710' => 'zma', 'Zm00001eb083950' => 'zma', 'Zm00001eb174420' => 'zma', 'Zm00001eb260140' => 'zma', 'Zm00001eb260150' => 'zma', 'Zm00001eb260160' => 'zma', 'Zm00001eb348290' => 'zma', 'Zm00001eb366870' => 'zma', 'Zm00001eb421930' => 'zma' ) $gf_id = 'HOM05D001025' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001025' ) $data_identifier = 'HOM05D001025' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 19, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 2, 'amhyb' => (int) 4, 'aly' => (int) 4, 'aox' => (int) 4, 'arhy' => (int) 3, 'ath' => (int) 5, 'atr' => (int) 4, 'acertr' => (int) 3, 'cqu' => (int) 7, 'bca' => (int) 17, 'bol' => (int) 10, 'bra' => (int) 9, 'can' => (int) 10, 'cansat' => (int) 6, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 5, 'cbr' => (int) 5, 'ccan' => (int) 5, 'cde' => (int) 4, 'cfa' => (int) 3, 'ccl' => (int) 6, 'cil' => (int) 4, 'cla' => (int) 3, 'col' => (int) 3, 'cpa' => (int) 3, 'cre' => (int) 7, 'csa' => (int) 5, 'camsi' => (int) 9, 'dca' => (int) 4, 'din' => (int) 5, 'dzi' => (int) 7, 'eca' => (int) 6, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 12, 'fve' => (int) 4, 'gma' => (int) 12, 'ghi' => (int) 17, 'gra' => (int) 9, 'vvi' => (int) 2, 'han' => (int) 8, 'cav' => (int) 5, 'hma' => (int) 9, 'vpl' => (int) 4, 'sun' => (int) 2, 'lal' => (int) 9, 'lja' => (int) 5, 'lonja' => (int) 6, 'lsa' => (int) 3, 'mes' => (int) 8, 'mpo' => (int) 3, 'mbi' => (int) 4, 'mco' => (int) 3, 'mdo' => (int) 5, 'mtr' => (int) 7, 'cme' => (int) 6, 'egut' => (int) 7, 'ama' => (int) 3, 'nta' => (int) 12, 'nnu' => (int) 9, 'oeu' => (int) 4, 'osa' => (int) 7, 'pax' => (int) 9, 'pgr' => (int) 5, 'stu' => (int) 8, 'pvu' => (int) 6, 'ptr' => (int) 9, 'ppa' => (int) 9, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 7, 'pso' => (int) 10, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 3, 'sbr' => (int) 8, 'sbo' => (int) 5, 'sci' => (int) 5, 'sed' => (int) 4, 'sgi' => (int) 4, 'sas' => (int) 4, 'smo' => (int) 5, 'sly' => (int) 7, 'spe' => (int) 10, 'spa' => (int) 5, 'tar' => (int) 5, 'tha' => (int) 8, 'tca' => (int) 3, 'esa' => (int) 5, 'tpr' => (int) 6, 'twi' => (int) 6, 'ugi' => (int) 4, 'vma' => (int) 1, 'vmu' => (int) 7, 'zma' => (int) 10 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb421930' $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' => 'HOM05D001025', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '592', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p22650' => 'bna', 'A01p29720' => 'bna', 'A03p26560' => 'bna', 'A03p68820' => 'bna', 'A04p20980' => 'bna', 'A06p07730' => 'bna', 'A07p18260' => 'bna', 'A08p33710' => 'bna', 'A09p16970' => 'bna', 'A10p27490' => 'bna', 'Aa31LG1G17300' => 'aar', 'Aa31LG1G3910' => 'aar', 'Aa31LG2G9630' => 'aar', 'Aa31LG5G8360' => 'aar', 'Aa31LG9G2410' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4699' => 'aag', 'Actinidia23512' => 'ach', 'Actinidia37080' => 'ach', 'Ah.01g020380' => 'amhyb', 'Ah.08g215710' => 'amhyb', 'Ah.09g225110' => 'amhyb', 'Ah.10g036680' => 'amhyb', 'AL1G21940' => 'aly', 'AL2G15540' => 'aly', 'AL4G21520' => 'aly', 'AL7G40960' => 'aly', 'Aqoxy2G01191' => 'aox', 'Aqoxy2G03393' => 'aox', 'Aqoxy4G02775' => 'aox', 'Aqoxy6G00058' => 'aox', 'arahy.Tifrunner.gnm1.ann1.9X74H2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CW3FX9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R485W7' => 'arhy', 'AT1G10960' => 'ath', 'AT1G60950' => 'ath', 'AT2G27510' => 'ath', 'AT4G14890' => 'ath', 'AT5G10000' => 'ath', 'ATR0665G624' => 'atr', 'ATR0697G138' => 'atr', 'ATR0776G046' => 'atr', 'ATR1134G135' => 'atr', 'Atru.chr12.1025' => 'acertr', 'Atru.chr3.3241' => 'acertr', 'Atru.chr4.2460' => 'acertr', 'AUR62007427' => 'cqu', 'AUR62010960' => 'cqu', 'AUR62012201' => 'cqu', 'AUR62021470' => 'cqu', 'AUR62022834' => 'cqu', 'AUR62033635' => 'cqu', 'AUR62036186' => 'cqu', 'BcaB01g03077' => 'bca', 'BcaB02g10093' => 'bca', 'BcaB04g20295' => 'bca', 'BcaB06g28147' => 'bca', 'BcaB07g31253' => 'bca', 'BcaC01g04946' => 'bca', 'BcaC02g10614' => 'bca', 'BcaC02g10885' => 'bca', 'BcaC04g19356' => 'bca', 'BcaC04g22297' => 'bca', 'BcaC05g24977' => 'bca', 'BcaC06g31823' => 'bca', 'BcaC07g38633' => 'bca', 'BcaC09g49353' => 'bca', 'BcaC09g50168' => 'bca', 'BcaNung00322' => 'bca', 'BcaNung04769' => 'bca', 'BolC1t02753H' => 'bol', 'BolC1t03721H' => 'bol', 'BolC3t15525H' => 'bol', 'BolC4t23903H' => 'bol', 'BolC4t24231H' => 'bol', 'BolC4t27209H' => 'bol', 'BolC5t29671H' => 'bol', 'BolC8t49044H' => 'bol', 'BolC9t54999H' => 'bol', 'BolC9t59517H' => 'bol', 'BraA01t02178Z' => 'bra', 'BraA01t03099Z' => 'bra', 'BraA03t11867Z' => 'bra', 'BraA04t17667Z' => 'bra', 'BraA07t29542Z' => 'bra', 'BraA08t35287Z' => 'bra', 'BraA09t37334Z' => 'bra', 'BraA10t44801Z' => 'bra', 'BraSC39t46181Z' => 'bra', 'C01p28240' => 'bna', 'C01p37530' => 'bna', 'C03p31820' => 'bna', 'C04p24080' => 'bna', 'C04p25790' => 'bna', 'C04p56770' => 'bna', 'C05p09310' => 'bna', 'C09p21010' => 'bna', 'C09p67560' => 'bna', 'CAN.G1324.7' => 'can', 'CAN.G1358.10' => 'can', 'CAN.G1550.2' => 'can', 'CAN.G186.56' => 'can', 'CAN.G1965.1' => 'can', 'CAN.G645.15' => 'can', 'CAN.G798.26' => 'can', 'CAN.G798.27' => 'can', 'CAN.G798.29' => 'can', 'CAN.G919.31' => 'can', 'CANSAT11G0133' => 'cansat', 'CANSAT11G1171' => 'cansat', 'CANSAT11G2056' => 'cansat', 'CANSAT56G1202' => 'cansat', 'CANSAT56G1514' => 'cansat', 'CANSAT78G0455' => 'cansat', 'CARHR011190' => 'chi', 'CARHR051980' => 'chi', 'CARHR120170' => 'chi', 'CARHR203310' => 'chi', 'CARHR221490' => 'chi', 'Carub.0001s1054' => 'cru', 'Carub.0002s0431' => 'cru', 'Carub.0004s0818' => 'cru', 'Carub.0006s0846' => 'cru', 'Carub.0007s2722' => 'cru', 'Ca_00058_v3' => 'car', 'Ca_17831_v3' => 'car', 'Ca_19408_v3' => 'car', 'Ca_24397_v3' => 'car', 'Ca_25664_v3' => 'car', 'CBR_g21818' => 'cbr', 'CBR_g31195' => 'cbr', 'CBR_g32282' => 'cbr', 'CBR_g39599' => 'cbr', 'CBR_g49410' => 'cbr', 'Cc01_g09120' => 'ccan', 'Cc01_g09130' => 'ccan', 'Cc02_g09630' => 'ccan', 'Cc02_g22810' => 'ccan', 'Cc03_g03810' => 'ccan', 'CDE02G3718' => 'cde', 'CDE04G3183' => 'cde', 'CDE07G1046' => 'cde', 'CDE08G0480' => 'cde', 'Cfa005493' => 'cfa', 'Cfa010312' => 'cfa', 'Cfa015648' => 'cfa', 'Ciclev10002793m.g' => 'ccl', 'Ciclev10003356m.g' => 'ccl', 'Ciclev10006141m.g' => 'ccl', 'Ciclev10016676m.g' => 'ccl', 'Ciclev10017081m.g' => 'ccl', 'Ciclev10029499m.g' => 'ccl', 'CiPaw.01G166300' => 'cil', 'CiPaw.06G145600' => 'cil', 'CiPaw.13G040100' => 'cil', 'CiPaw.13G135800' => 'cil', 'ClCG01G012230' => 'cla', 'ClCG05G009510' => 'cla', 'ClCG08G008270' => 'cla', 'COL.COLO4_11763' => 'col', 'COL.COLO4_19876' => 'col', 'COL.COLO4_21481' => 'col', 'Cpa.g.sc118.34' => 'cpa', 'Cpa.g.sc32.13' => 'cpa', 'Cpa.g.sc58.103' => 'cpa', 'Cre03.g183850' => 'cre', 'Cre06.g306350' => 'cre', 'Cre07.g334800' => 'cre', 'Cre12.g487900' => 'cre', 'Cre14.g626700' => 'cre', 'Cre16.g658400' => 'cre', 'Cre17.g700950' => 'cre', 'CsaV3_1G014830' => 'csa', 'CsaV3_3G013320' => 'csa', 'CsaV3_3G019210' => 'csa', 'CsaV3_3G019220' => 'csa', 'CsaV3_6G004230' => 'csa', 'CSS0003773' => 'camsi', 'CSS0004563' => 'camsi', 'CSS0013949' => 'camsi', 'CSS0025971' => 'camsi', 'CSS0028570' => 'camsi', 'CSS0033127' => 'camsi', 'CSS0036051' => 'camsi', 'CSS0040087' => 'camsi', 'CSS0043179' => 'camsi', 'DCAR_006161' => 'dca', 'DCAR_010351' => 'dca', 'DCAR_012197' => 'dca', 'DCAR_024162' => 'dca', 'Dinv01030' => 'din', 'Dinv10924' => 'din', 'Dinv11835' => 'din', 'Dinv22841' => 'din', 'Dinv42553' => 'din', 'Duzib052G0560' => 'dzi', 'Duzib132G0389' => 'dzi', 'Duzib150G1181' => 'dzi', 'Duzib168G0623' => 'dzi', 'Duzib170G1036' => 'dzi', 'Duzib212G0200' => 'dzi', 'Duzib248G0194' => 'dzi', 'ECA232G2193' => 'eca', 'ECA233G0302' => 'eca', 'ECA234G2813' => 'eca', 'ECA234G4866' => 'eca', 'ECA240G3932' => 'eca', 'ECA248G0385' => 'eca', 'EL10Ac2g04781' => 'bvu', 'EL10Ac3g06445' => 'bvu', 'EL10Ac7g15825' => 'bvu', 'EL10Ac8g18550' => 'bvu', 'Eucgr.B03849' => 'egr', 'Eucgr.I02744' => 'egr', 'Eucgr.J00264' => 'egr', 'Eucgr.J00493' => 'egr', 'FAN04G2181' => 'fan', 'FAN07G2666' => 'fan', 'FAN11G0024' => 'fan', 'FAN12G1105' => 'fan', 'FAN13G0302' => 'fan', 'FAN15G2781' => 'fan', 'FAN16G1274' => 'fan', 'FAN17G2988' => 'fan', 'FAN18G2621' => 'fan', 'FAN21G0013' => 'fan', 'FAN22G1211' => 'fan', 'FAN25G3626' => 'fan', 'FvH4_2g09491' => 'fve', 'FvH4_3g24910' => 'fve', 'FvH4_4g15630' => 'fve', 'FvH4_5g28820' => 'fve', 'Glyma.01G238000' => 'gma', 'Glyma.05G168400' => 'gma', 'Glyma.08G126800' => 'gma', 'Glyma.08G188500' => 'gma', 'Glyma.10G278900' => 'gma', 'Glyma.11G005700' => 'gma', 'Glyma.11G183300' => 'gma', 'Glyma.12G089200' => 'gma', 'Glyma.12G169400' => 'gma', 'Glyma.12G169500' => 'gma', 'Glyma.12G169600' => 'gma', 'Glyma.20G110800' => 'gma', 'Gohir.A03G192900' => 'ghi', 'Gohir.A03G193000' => 'ghi', 'Gohir.A05G080700' => 'ghi', 'Gohir.A09G216000' => 'ghi', 'Gohir.A12G027700' => 'ghi', 'Gohir.A13G036200' => 'ghi', 'Gohir.A13G222600' => 'ghi', 'Gohir.D02G213900' => 'ghi', 'Gohir.D02G214000' => 'ghi', 'Gohir.D05G083700' => 'ghi', 'Gohir.D05G083800' => 'ghi', 'Gohir.D05G083850' => 'ghi', 'Gohir.D08G015400' => 'ghi', 'Gohir.D09G218400' => 'ghi', 'Gohir.D12G027100' => 'ghi', 'Gohir.D13G034500' => 'ghi', 'Gohir.D13G227400' => 'ghi', 'Gorai.005G241800' => 'gra', 'Gorai.005G241900' => 'gra', 'Gorai.006G239400' => 'gra', 'Gorai.008G027600' => 'gra', 'Gorai.009G085400' => 'gra', 'Gorai.009G085500' => 'gra', 'Gorai.013G039000' => 'gra', 'Gorai.013G194800' => 'gra', 'Gorai.013G257900' => 'gra', 'GSVIVG01000982001' => 'vvi', 'GSVIVG01017981001' => 'vvi', 'HanXRQChr01g0024061' => 'han', 'HanXRQChr09g0247831' => 'han', 'HanXRQChr10g0294611' => 'han', 'HanXRQChr10g0294621' => 'han', 'HanXRQChr11g0346821' => 'han', 'HanXRQChr13g0397461' => 'han', 'HanXRQChr16g0513651' => 'han', 'HanXRQChr16g0513701' => 'han', 'Haze_00897' => 'cav', 'Haze_01745' => 'cav', 'Haze_02486' => 'cav', 'Haze_02487' => 'cav', 'Haze_23374' => 'cav', 'Hma1.2p1_0578F.1_g182520' => 'hma', 'Hma1.2p1_0602F.1_g187350' => 'hma', 'Hma1.2p1_0602F.1_g187360' => 'hma', 'Hma1.2p1_0874F.1_g231320' => 'hma', 'Hma1.2p1_1197F.1_g266210' => 'hma', 'Hma1.2p1_1197F.1_g266220' => 'hma', 'Hma1.2p1_2167F.1_g315895' => 'hma', 'Hma1.2p1_2190F.1_g316640' => 'hma', 'Hma1.2p1_3645F.1_g337153' => 'hma', 'HPP92_004907' => 'vpl', 'HPP92_012134' => 'vpl', 'HPP92_025136' => 'vpl', 'HPP92_026087' => 'vpl', 'Hund06782' => 'sun', 'Hund06784' => 'sun', 'Lalb_Chr01g0004861' => 'lal', 'Lalb_Chr02g0140591' => 'lal', 'Lalb_Chr02g0140611' => 'lal', 'Lalb_Chr03g0028101' => 'lal', 'Lalb_Chr07g0185791' => 'lal', 'Lalb_Chr12g0204491' => 'lal', 'Lalb_Chr13g0295671' => 'lal', 'Lalb_Chr19g0136461' => 'lal', 'Lalb_Chr21g0309191' => 'lal', 'Lj1g0028158' => 'lja', 'Lj1P236T38' => 'lonja', 'Lj2C32G2' => 'lonja', 'Lj2P944T8' => 'lonja', 'Lj2P963T15' => 'lonja', 'Lj3g0011788' => 'lja', 'Lj4g0025027' => 'lja', 'Lj5P255T36' => 'lonja', 'Lj6g0018866' => 'lja', 'Lj6P608T31' => 'lonja', 'LjContig00408g0008879' => 'lja', 'Lsat_1_v5_gn_5_105820' => 'lsa', 'Lsat_1_v5_gn_6_38800' => 'lsa', 'Lsat_1_v5_gn_7_67141' => 'lsa', 'Manes.04G003400' => 'mes', 'Manes.07G020000' => 'mes', 'Manes.07G020100' => 'mes', 'Manes.07G020150' => 'mes', 'Manes.10G061500' => 'mes', 'Manes.10G123200' => 'mes', 'Manes.11G161900' => 'mes', 'Manes.15G029300' => 'mes', 'Mapoly0071s0018' => 'mpo', 'Mapoly0082s0023' => 'mpo', 'Mapoly3477s0001' => 'mpo', 'MBI05_g31233_MAGBIO' => 'mbi', 'MBI09_g05946_MAGBIO' => 'mbi', 'MBI09_g05947_MAGBIO' => 'mbi', 'MBI17_g08346_MAGBIO' => 'mbi', 'MCO04G038' => 'mco', 'MCO09G370' => 'mco', 'MCO13G605' => 'mco', 'MD00G1075500' => 'mdo', 'MD03G1144300' => 'mdo', 'MD08G1236800' => 'mdo', 'MD13G1193300' => 'mdo', 'MD15G1428700' => 'mdo', 'Medtr1g112030' => 'mtr', 'Medtr1g112050' => 'mtr', 'Medtr2g006290' => 'mtr', 'Medtr2g086510' => 'mtr', 'Medtr4g053120' => 'mtr', 'Medtr5g006320' => 'mtr', 'Medtr8g088720' => 'mtr', 'MELO3C004712.2' => 'cme', 'MELO3C006533.2' => 'cme', 'MELO3C019438.2' => 'cme', 'MELO3C019440.2' => 'cme', 'MELO3C019441.2' => 'cme', 'MELO3C019895.2' => 'cme', 'Migut.B00811' => 'egut', 'Migut.D02447' => 'egut', 'Migut.F00875' => 'egut', 'Migut.N00186' => 'egut', 'Migut.N01051' => 'egut', 'Migut.N02491' => 'egut', 'Migut.O00784' => 'egut', 'MSTRG.12367' => 'ama', 'MSTRG.18756' => 'ama', 'MSTRG.21042' => 'ama', 'Nitab4.5_0000559g0040' => 'nta', 'Nitab4.5_0000667g0190' => 'nta', 'Nitab4.5_0000755g0160' => 'nta', 'Nitab4.5_0001216g0080' => 'nta', 'Nitab4.5_0004069g0040' => 'nta', 'Nitab4.5_0004129g0010' => 'nta', 'Nitab4.5_0005744g0030' => 'nta', 'Nitab4.5_0006996g0030' => 'nta', 'Nitab4.5_0008971g0040' => 'nta', 'Nitab4.5_0009769g0020' => 'nta', 'Nitab4.5_0009833g0010' => 'nta', 'Nitab4.5_0013140g0020' => 'nta', 'Nn003s41376' => 'nnu', 'Nn1g01857' => 'nnu', 'Nn1g03611' => 'nnu', 'Nn1g06853' => 'nnu', 'Nn3g18360' => 'nnu', 'Nn4g26328' => 'nnu', 'Nn5g27531' => 'nnu', 'Nn6g34899' => 'nnu', 'Nn7g36299' => 'nnu', 'Oeu021485.1' => 'oeu', 'Oeu022433.1' => 'oeu', 'Oeu032111.1' => 'oeu', 'Oeu051608.1' => 'oeu', 'Os01g0860601' => 'osa', 'Os03g0659200' => 'osa', 'Os03g0835900' => 'osa', 'Os04g0412200' => 'osa', 'Os05g0443500' => 'osa', 'Os07g0251500' => 'osa', 'Os08g0104600' => 'osa', 'Peaxi162Scf00003g00047' => 'pax', 'Peaxi162Scf00003g00052' => 'pax', 'Peaxi162Scf00003g00394' => 'pax', 'Peaxi162Scf00091g00621' => 'pax', 'Peaxi162Scf00152g00146' => 'pax', 'Peaxi162Scf00173g00025' => 'pax', 'Peaxi162Scf00195g00102' => 'pax', 'Peaxi162Scf00402g00013' => 'pax', 'Peaxi162Scf00519g00618' => 'pax', 'PGR004G2838' => 'pgr', 'PGR044G2275' => 'pgr', 'PGR102G1377' => 'pgr', 'PGR119G1245' => 'pgr', 'PGR142G4449' => 'pgr', 'PGSC0003DMG400004532' => 'stu', 'PGSC0003DMG400011950' => 'stu', 'PGSC0003DMG400023391' => 'stu', 'PGSC0003DMG400023985' => 'stu', 'PGSC0003DMG400026360' => 'stu', 'PGSC0003DMG400035711' => 'stu', 'PGSC0003DMG400037286' => 'stu', 'PGSC0003DMG402005881' => 'stu', 'Phvul.002G045400' => 'pvu', 'Phvul.006G216600' => 'pvu', 'Phvul.006G216700' => 'pvu', 'Phvul.006G216800' => 'pvu', 'Phvul.007G022500' => 'pvu', 'Phvul.011G094400' => 'pvu', 'Potri.001G470700' => 'ptr', 'Potri.003G015200' => 'ptr', 'Potri.004G202500' => 'ptr', 'Potri.004G218400' => 'ptr', 'Potri.008G020100' => 'ptr', 'Potri.008G153200' => 'ptr', 'Potri.009G163800' => 'ptr', 'Potri.010G087300' => 'ptr', 'Potri.010G239100' => 'ptr', 'Pp3c10_16100' => 'ppa', 'Pp3c10_16880' => 'ppa', 'Pp3c16_6230' => 'ppa', 'Pp3c17_18910' => 'ppa', 'Pp3c3_22119' => 'ppa', 'Pp3c3_22140' => 'ppa', 'Pp3c4_8159' => 'ppa', 'Pp3c4_8171' => 'ppa', 'Pp3c4_8330' => 'ppa', 'PRCOL_00004098' => 'pco', 'Prupe.1G013900' => 'ppe', 'Prupe.1G226300' => 'ppe', 'Prupe.1G573600' => 'ppe', 'Prupe.6G130100' => 'ppe', 'Psat3g090040' => 'psa', 'Psat4g210440' => 'psa', 'Psat6g231040' => 'psa', 'Psat6g231080' => 'psa', 'Psat7g063000' => 'psa', 'Psat7g188000' => 'psa', 'Psat7g188040' => 'psa', 'PSO017G0206' => 'pso', 'PSO170G0501' => 'pso', 'PSO170G6422' => 'pso', 'PSO210G7739' => 'pso', 'PSO339G1808' => 'pso', 'PSO339G6135' => 'pso', 'PSO384G0010' => 'pso', 'PSO384G0964' => 'pso', 'PSO761G0050' => 'pso', 'PSO782G4085' => 'pso', 'QL01p012264' => 'qlo', 'QL02p099491' => 'qlo', 'QL03p033868' => 'qlo', 'QL04p046678' => 'qlo', 'QL06p002448' => 'qlo', 'RcHm_v2.0_Chr4g0416181' => 'rch', 'RcHm_v2.0_Chr5g0044701' => 'rch', 'RcHm_v2.0_Chr6g0265781' => 'rch', 'RcHm_v2.0_Chr7g0221031' => 'rch', 'Rhsim04G0202000' => 'rsi', 'Rhsim11G0127300' => 'rsi', 'Rhsim13G0111800' => 'rsi', 'Sabra01G0165600' => 'sbr', 'Sabra03G0008300' => 'sbr', 'Sabra04G0136900' => 'sbr', 'Sabra08G0013400' => 'sbr', 'Sabra08G0116800' => 'sbr', 'Sabra09G0128000' => 'sbr', 'Sabra10G0055500' => 'sbr', 'Sabra10G0073300' => 'sbr', 'SalBow3G0385' => 'sbo', 'SalBow3G1119' => 'sbo', 'SalBow3G2005' => 'sbo', 'SalBow6G2563' => 'sbo', 'SalBow6G6386' => 'sbo', 'Sc06g0008800' => 'sci', 'Sc07g0004950' => 'sci', 'Sc09g0005340' => 'sci', 'Sc13g0004410' => 'sci', 'Sc21g0007090' => 'sci', 'Sed0009285' => 'sed', 'Sed0017583' => 'sed', 'Sed0019699' => 'sed', 'Sed0023107' => 'sed', 'SEGI_10916' => 'sgi', 'SEGI_16217' => 'sgi', 'SEGI_19466' => 'sgi', 'SEGI_41115' => 'sgi', 'SGA_v2.0_scaffold111G31534' => 'sas', 'SGA_v2.0_scaffold22G09864' => 'sas', 'SGA_v2.0_scaffold338G49219' => 'sas', 'SGA_v2.0_scaffold92G28298' => 'sas', 'SMO119G0064' => 'smo', 'SMO223G0038' => 'smo', 'SMO347G0584' => 'smo', 'SMO351G0010' => 'smo', 'SMO356G0404' => 'smo', 'Solyc01g103920.3' => 'sly', 'Solyc04g009710.2' => 'sly', 'Solyc05g055280.2' => 'sly', 'Solyc10g044520.3' => 'sly', 'Solyc10g075160.1' => 'sly', 'Solyc11g006910.3' => 'sly', 'Solyc11g068430.3' => 'sly', 'Sopen01g046310' => 'spe', 'Sopen03g001200' => 'spe', 'Sopen04g004830' => 'spe', 'Sopen05g033720' => 'spe', 'Sopen06g030740' => 'spe', 'Sopen10g013090' => 'spe', 'Sopen10g027630' => 'spe', 'Sopen10g027640' => 'spe', 'Sopen11g002820' => 'spe', 'Sopen11g027140' => 'spe', 'Sp1g09680' => 'spa', 'Sp2g03630' => 'spa', 'Sp4g10320' => 'spa', 'Sp6g33400' => 'spa', 'Sp7g13030' => 'spa', 'TAR365G0317' => 'tar', 'TAR376G0979' => 'tar', 'TAR623G1665' => 'tar', 'TAR633G2373' => 'tar', 'TAR636G1400' => 'tar', 'THA.LOC104800529' => 'tha', 'THA.LOC104808547' => 'tha', 'THA.LOC104809615' => 'tha', 'THA.LOC104815724' => 'tha', 'THA.LOC104818480' => 'tha', 'THA.LOC104819179' => 'tha', 'THA.LOC104822270' => 'tha', 'THA.LOC104826425' => 'tha', 'Thecc.02G089700' => 'tca', 'Thecc.04G232300' => 'tca', 'Thecc.09G283400' => 'tca', 'Thhalv10009020m.g' => 'esa', 'Thhalv10015506m.g' => 'esa', 'Thhalv10017364m.g' => 'esa', 'Thhalv10023742m.g' => 'esa', 'Thhalv10026483m.g' => 'esa', 'TPR.G17232' => 'tpr', 'TPR.G2133' => 'tpr', 'TPR.G2498' => 'tpr', 'TPR.G31942' => 'tpr', 'TPR.G37877' => 'tpr', 'TPR.G4571' => 'tpr', 'TWI14G1113' => 'twi', 'TWI15G0426' => 'twi', 'TWI31G1005' => 'twi', 'TWI38G0513' => 'twi', 'TWI38G1484' => 'twi', 'TWI73G1098' => 'twi', 'unitig_26.g10519' => 'ugi', 'unitig_736.g22395' => 'ugi', 'unitig_747.g21234' => 'ugi', 'unitig_747.g21942' => 'ugi', 'vmacro14351' => 'vma', 'VMungo0540G0082' => 'vmu', 'VMungo0540G0405' => 'vmu', 'VMungo0540G1486' => 'vmu', 'VMungo0540G1692' => 'vmu', 'VMungo0720G2473' => 'vmu', 'VMungo1127G1562' => 'vmu', 'VMungo1215G1918' => 'vmu', 'Zm00001eb052650' => 'zma', 'Zm00001eb063710' => 'zma', 'Zm00001eb083950' => 'zma', 'Zm00001eb174420' => 'zma', 'Zm00001eb260140' => 'zma', 'Zm00001eb260150' => 'zma', 'Zm00001eb260160' => 'zma', 'Zm00001eb348290' => 'zma', 'Zm00001eb366870' => 'zma', 'Zm00001eb421930' => 'zma' ), 'gf_id' => 'HOM05D001025', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001025' ), 'data_identifier' => 'HOM05D001025', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001025', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '592', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p22650' => 'bna', 'A01p29720' => 'bna', 'A03p26560' => 'bna', 'A03p68820' => 'bna', 'A04p20980' => 'bna', 'A06p07730' => 'bna', 'A07p18260' => 'bna', 'A08p33710' => 'bna', 'A09p16970' => 'bna', 'A10p27490' => 'bna', 'Aa31LG1G17300' => 'aar', 'Aa31LG1G3910' => 'aar', 'Aa31LG2G9630' => 'aar', 'Aa31LG5G8360' => 'aar', 'Aa31LG9G2410' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4699' => 'aag', 'Actinidia23512' => 'ach', 'Actinidia37080' => 'ach', 'Ah.01g020380' => 'amhyb', 'Ah.08g215710' => 'amhyb', 'Ah.09g225110' => 'amhyb', 'Ah.10g036680' => 'amhyb', 'AL1G21940' => 'aly', 'AL2G15540' => 'aly', 'AL4G21520' => 'aly', 'AL7G40960' => 'aly', 'Aqoxy2G01191' => 'aox', 'Aqoxy2G03393' => 'aox', 'Aqoxy4G02775' => 'aox', 'Aqoxy6G00058' => 'aox', 'arahy.Tifrunner.gnm1.ann1.9X74H2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CW3FX9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R485W7' => 'arhy', 'AT1G10960' => 'ath', 'AT1G60950' => 'ath', 'AT2G27510' => 'ath', 'AT4G14890' => 'ath', 'AT5G10000' => 'ath', 'ATR0665G624' => 'atr', 'ATR0697G138' => 'atr', 'ATR0776G046' => 'atr', 'ATR1134G135' => 'atr', 'Atru.chr12.1025' => 'acertr', 'Atru.chr3.3241' => 'acertr', 'Atru.chr4.2460' => 'acertr', 'AUR62007427' => 'cqu', 'AUR62010960' => 'cqu', 'AUR62012201' => 'cqu', 'AUR62021470' => 'cqu', 'AUR62022834' => 'cqu', 'AUR62033635' => 'cqu', 'AUR62036186' => 'cqu', 'BcaB01g03077' => 'bca', 'BcaB02g10093' => 'bca', 'BcaB04g20295' => 'bca', 'BcaB06g28147' => 'bca', 'BcaB07g31253' => 'bca', 'BcaC01g04946' => 'bca', 'BcaC02g10614' => 'bca', 'BcaC02g10885' => 'bca', 'BcaC04g19356' => 'bca', 'BcaC04g22297' => 'bca', 'BcaC05g24977' => 'bca', 'BcaC06g31823' => 'bca', 'BcaC07g38633' => 'bca', 'BcaC09g49353' => 'bca', 'BcaC09g50168' => 'bca', 'BcaNung00322' => 'bca', 'BcaNung04769' => 'bca', 'BolC1t02753H' => 'bol', 'BolC1t03721H' => 'bol', 'BolC3t15525H' => 'bol', 'BolC4t23903H' => 'bol', 'BolC4t24231H' => 'bol', 'BolC4t27209H' => 'bol', 'BolC5t29671H' => 'bol', 'BolC8t49044H' => 'bol', 'BolC9t54999H' => 'bol', 'BolC9t59517H' => 'bol', 'BraA01t02178Z' => 'bra', 'BraA01t03099Z' => 'bra', 'BraA03t11867Z' => 'bra', 'BraA04t17667Z' => 'bra', 'BraA07t29542Z' => 'bra', 'BraA08t35287Z' => 'bra', 'BraA09t37334Z' => 'bra', 'BraA10t44801Z' => 'bra', 'BraSC39t46181Z' => 'bra', 'C01p28240' => 'bna', 'C01p37530' => 'bna', 'C03p31820' => 'bna', 'C04p24080' => 'bna', 'C04p25790' => 'bna', 'C04p56770' => 'bna', 'C05p09310' => 'bna', 'C09p21010' => 'bna', 'C09p67560' => 'bna', 'CAN.G1324.7' => 'can', 'CAN.G1358.10' => 'can', 'CAN.G1550.2' => 'can', 'CAN.G186.56' => 'can', 'CAN.G1965.1' => 'can', 'CAN.G645.15' => 'can', 'CAN.G798.26' => 'can', 'CAN.G798.27' => 'can', 'CAN.G798.29' => 'can', 'CAN.G919.31' => 'can', 'CANSAT11G0133' => 'cansat', 'CANSAT11G1171' => 'cansat', 'CANSAT11G2056' => 'cansat', 'CANSAT56G1202' => 'cansat', 'CANSAT56G1514' => 'cansat', 'CANSAT78G0455' => 'cansat', 'CARHR011190' => 'chi', 'CARHR051980' => 'chi', 'CARHR120170' => 'chi', 'CARHR203310' => 'chi', 'CARHR221490' => 'chi', 'Carub.0001s1054' => 'cru', 'Carub.0002s0431' => 'cru', 'Carub.0004s0818' => 'cru', 'Carub.0006s0846' => 'cru', 'Carub.0007s2722' => 'cru', 'Ca_00058_v3' => 'car', 'Ca_17831_v3' => 'car', 'Ca_19408_v3' => 'car', 'Ca_24397_v3' => 'car', 'Ca_25664_v3' => 'car', 'CBR_g21818' => 'cbr', 'CBR_g31195' => 'cbr', 'CBR_g32282' => 'cbr', 'CBR_g39599' => 'cbr', 'CBR_g49410' => 'cbr', 'Cc01_g09120' => 'ccan', 'Cc01_g09130' => 'ccan', 'Cc02_g09630' => 'ccan', 'Cc02_g22810' => 'ccan', 'Cc03_g03810' => 'ccan', 'CDE02G3718' => 'cde', 'CDE04G3183' => 'cde', 'CDE07G1046' => 'cde', 'CDE08G0480' => 'cde', 'Cfa005493' => 'cfa', 'Cfa010312' => 'cfa', 'Cfa015648' => 'cfa', 'Ciclev10002793m.g' => 'ccl', 'Ciclev10003356m.g' => 'ccl', 'Ciclev10006141m.g' => 'ccl', 'Ciclev10016676m.g' => 'ccl', 'Ciclev10017081m.g' => 'ccl', 'Ciclev10029499m.g' => 'ccl', 'CiPaw.01G166300' => 'cil', 'CiPaw.06G145600' => 'cil', 'CiPaw.13G040100' => 'cil', 'CiPaw.13G135800' => 'cil', 'ClCG01G012230' => 'cla', 'ClCG05G009510' => 'cla', 'ClCG08G008270' => 'cla', 'COL.COLO4_11763' => 'col', 'COL.COLO4_19876' => 'col', 'COL.COLO4_21481' => 'col', 'Cpa.g.sc118.34' => 'cpa', 'Cpa.g.sc32.13' => 'cpa', 'Cpa.g.sc58.103' => 'cpa', 'Cre03.g183850' => 'cre', 'Cre06.g306350' => 'cre', 'Cre07.g334800' => 'cre', 'Cre12.g487900' => 'cre', 'Cre14.g626700' => 'cre', 'Cre16.g658400' => 'cre', 'Cre17.g700950' => 'cre', 'CsaV3_1G014830' => 'csa', 'CsaV3_3G013320' => 'csa', 'CsaV3_3G019210' => 'csa', 'CsaV3_3G019220' => 'csa', 'CsaV3_6G004230' => 'csa', 'CSS0003773' => 'camsi', 'CSS0004563' => 'camsi', 'CSS0013949' => 'camsi', 'CSS0025971' => 'camsi', 'CSS0028570' => 'camsi', 'CSS0033127' => 'camsi', 'CSS0036051' => 'camsi', 'CSS0040087' => 'camsi', 'CSS0043179' => 'camsi', 'DCAR_006161' => 'dca', 'DCAR_010351' => 'dca', 'DCAR_012197' => 'dca', 'DCAR_024162' => 'dca', 'Dinv01030' => 'din', 'Dinv10924' => 'din', 'Dinv11835' => 'din', 'Dinv22841' => 'din', 'Dinv42553' => 'din', 'Duzib052G0560' => 'dzi', 'Duzib132G0389' => 'dzi', 'Duzib150G1181' => 'dzi', 'Duzib168G0623' => 'dzi', 'Duzib170G1036' => 'dzi', 'Duzib212G0200' => 'dzi', 'Duzib248G0194' => 'dzi', 'ECA232G2193' => 'eca', 'ECA233G0302' => 'eca', 'ECA234G2813' => 'eca', 'ECA234G4866' => 'eca', 'ECA240G3932' => 'eca', 'ECA248G0385' => 'eca', 'EL10Ac2g04781' => 'bvu', 'EL10Ac3g06445' => 'bvu', 'EL10Ac7g15825' => 'bvu', 'EL10Ac8g18550' => 'bvu', 'Eucgr.B03849' => 'egr', 'Eucgr.I02744' => 'egr', 'Eucgr.J00264' => 'egr', 'Eucgr.J00493' => 'egr', 'FAN04G2181' => 'fan', 'FAN07G2666' => 'fan', 'FAN11G0024' => 'fan', 'FAN12G1105' => 'fan', 'FAN13G0302' => 'fan', 'FAN15G2781' => 'fan', 'FAN16G1274' => 'fan', 'FAN17G2988' => 'fan', 'FAN18G2621' => 'fan', 'FAN21G0013' => 'fan', 'FAN22G1211' => 'fan', 'FAN25G3626' => 'fan', 'FvH4_2g09491' => 'fve', 'FvH4_3g24910' => 'fve', 'FvH4_4g15630' => 'fve', 'FvH4_5g28820' => 'fve', 'Glyma.01G238000' => 'gma', 'Glyma.05G168400' => 'gma', 'Glyma.08G126800' => 'gma', 'Glyma.08G188500' => 'gma', 'Glyma.10G278900' => 'gma', 'Glyma.11G005700' => 'gma', 'Glyma.11G183300' => 'gma', 'Glyma.12G089200' => 'gma', 'Glyma.12G169400' => 'gma', 'Glyma.12G169500' => 'gma', 'Glyma.12G169600' => 'gma', 'Glyma.20G110800' => 'gma', 'Gohir.A03G192900' => 'ghi', 'Gohir.A03G193000' => 'ghi', 'Gohir.A05G080700' => 'ghi', 'Gohir.A09G216000' => 'ghi', 'Gohir.A12G027700' => 'ghi', 'Gohir.A13G036200' => 'ghi', 'Gohir.A13G222600' => 'ghi', 'Gohir.D02G213900' => 'ghi', 'Gohir.D02G214000' => 'ghi', 'Gohir.D05G083700' => 'ghi', 'Gohir.D05G083800' => 'ghi', 'Gohir.D05G083850' => 'ghi', 'Gohir.D08G015400' => 'ghi', 'Gohir.D09G218400' => 'ghi', 'Gohir.D12G027100' => 'ghi', 'Gohir.D13G034500' => 'ghi', 'Gohir.D13G227400' => 'ghi', 'Gorai.005G241800' => 'gra', 'Gorai.005G241900' => 'gra', 'Gorai.006G239400' => 'gra', 'Gorai.008G027600' => 'gra', 'Gorai.009G085400' => 'gra', 'Gorai.009G085500' => 'gra', 'Gorai.013G039000' => 'gra', 'Gorai.013G194800' => 'gra', 'Gorai.013G257900' => 'gra', 'GSVIVG01000982001' => 'vvi', 'GSVIVG01017981001' => 'vvi', 'HanXRQChr01g0024061' => 'han', 'HanXRQChr09g0247831' => 'han', 'HanXRQChr10g0294611' => 'han', 'HanXRQChr10g0294621' => 'han', 'HanXRQChr11g0346821' => 'han', 'HanXRQChr13g0397461' => 'han', 'HanXRQChr16g0513651' => 'han', 'HanXRQChr16g0513701' => 'han', 'Haze_00897' => 'cav', 'Haze_01745' => 'cav', 'Haze_02486' => 'cav', 'Haze_02487' => 'cav', 'Haze_23374' => 'cav', 'Hma1.2p1_0578F.1_g182520' => 'hma', 'Hma1.2p1_0602F.1_g187350' => 'hma', 'Hma1.2p1_0602F.1_g187360' => 'hma', 'Hma1.2p1_0874F.1_g231320' => 'hma', 'Hma1.2p1_1197F.1_g266210' => 'hma', 'Hma1.2p1_1197F.1_g266220' => 'hma', 'Hma1.2p1_2167F.1_g315895' => 'hma', 'Hma1.2p1_2190F.1_g316640' => 'hma', 'Hma1.2p1_3645F.1_g337153' => 'hma', 'HPP92_004907' => 'vpl', 'HPP92_012134' => 'vpl', 'HPP92_025136' => 'vpl', 'HPP92_026087' => 'vpl', 'Hund06782' => 'sun', 'Hund06784' => 'sun', 'Lalb_Chr01g0004861' => 'lal', 'Lalb_Chr02g0140591' => 'lal', 'Lalb_Chr02g0140611' => 'lal', 'Lalb_Chr03g0028101' => 'lal', 'Lalb_Chr07g0185791' => 'lal', 'Lalb_Chr12g0204491' => 'lal', 'Lalb_Chr13g0295671' => 'lal', 'Lalb_Chr19g0136461' => 'lal', 'Lalb_Chr21g0309191' => 'lal', 'Lj1g0028158' => 'lja', 'Lj1P236T38' => 'lonja', 'Lj2C32G2' => 'lonja', 'Lj2P944T8' => 'lonja', 'Lj2P963T15' => 'lonja', 'Lj3g0011788' => 'lja', 'Lj4g0025027' => 'lja', 'Lj5P255T36' => 'lonja', 'Lj6g0018866' => 'lja', 'Lj6P608T31' => 'lonja', 'LjContig00408g0008879' => 'lja', 'Lsat_1_v5_gn_5_105820' => 'lsa', 'Lsat_1_v5_gn_6_38800' => 'lsa', 'Lsat_1_v5_gn_7_67141' => 'lsa', 'Manes.04G003400' => 'mes', 'Manes.07G020000' => 'mes', 'Manes.07G020100' => 'mes', 'Manes.07G020150' => 'mes', 'Manes.10G061500' => 'mes', 'Manes.10G123200' => 'mes', 'Manes.11G161900' => 'mes', 'Manes.15G029300' => 'mes', 'Mapoly0071s0018' => 'mpo', 'Mapoly0082s0023' => 'mpo', 'Mapoly3477s0001' => 'mpo', 'MBI05_g31233_MAGBIO' => 'mbi', 'MBI09_g05946_MAGBIO' => 'mbi', 'MBI09_g05947_MAGBIO' => 'mbi', 'MBI17_g08346_MAGBIO' => 'mbi', 'MCO04G038' => 'mco', 'MCO09G370' => 'mco', 'MCO13G605' => 'mco', 'MD00G1075500' => 'mdo', 'MD03G1144300' => 'mdo', 'MD08G1236800' => 'mdo', 'MD13G1193300' => 'mdo', 'MD15G1428700' => 'mdo', 'Medtr1g112030' => 'mtr', 'Medtr1g112050' => 'mtr', 'Medtr2g006290' => 'mtr', 'Medtr2g086510' => 'mtr', 'Medtr4g053120' => 'mtr', 'Medtr5g006320' => 'mtr', 'Medtr8g088720' => 'mtr', 'MELO3C004712.2' => 'cme', 'MELO3C006533.2' => 'cme', 'MELO3C019438.2' => 'cme', 'MELO3C019440.2' => 'cme', 'MELO3C019441.2' => 'cme', 'MELO3C019895.2' => 'cme', 'Migut.B00811' => 'egut', 'Migut.D02447' => 'egut', 'Migut.F00875' => 'egut', 'Migut.N00186' => 'egut', 'Migut.N01051' => 'egut', 'Migut.N02491' => 'egut', 'Migut.O00784' => 'egut', 'MSTRG.12367' => 'ama', 'MSTRG.18756' => 'ama', 'MSTRG.21042' => 'ama', 'Nitab4.5_0000559g0040' => 'nta', 'Nitab4.5_0000667g0190' => 'nta', 'Nitab4.5_0000755g0160' => 'nta', 'Nitab4.5_0001216g0080' => 'nta', 'Nitab4.5_0004069g0040' => 'nta', 'Nitab4.5_0004129g0010' => 'nta', 'Nitab4.5_0005744g0030' => 'nta', 'Nitab4.5_0006996g0030' => 'nta', 'Nitab4.5_0008971g0040' => 'nta', 'Nitab4.5_0009769g0020' => 'nta', 'Nitab4.5_0009833g0010' => 'nta', 'Nitab4.5_0013140g0020' => 'nta', 'Nn003s41376' => 'nnu', 'Nn1g01857' => 'nnu', 'Nn1g03611' => 'nnu', 'Nn1g06853' => 'nnu', 'Nn3g18360' => 'nnu', 'Nn4g26328' => 'nnu', 'Nn5g27531' => 'nnu', 'Nn6g34899' => 'nnu', 'Nn7g36299' => 'nnu', 'Oeu021485.1' => 'oeu', 'Oeu022433.1' => 'oeu', 'Oeu032111.1' => 'oeu', 'Oeu051608.1' => 'oeu', 'Os01g0860601' => 'osa', 'Os03g0659200' => 'osa', 'Os03g0835900' => 'osa', 'Os04g0412200' => 'osa', 'Os05g0443500' => 'osa', 'Os07g0251500' => 'osa', 'Os08g0104600' => 'osa', 'Peaxi162Scf00003g00047' => 'pax', 'Peaxi162Scf00003g00052' => 'pax', 'Peaxi162Scf00003g00394' => 'pax', 'Peaxi162Scf00091g00621' => 'pax', 'Peaxi162Scf00152g00146' => 'pax', 'Peaxi162Scf00173g00025' => 'pax', 'Peaxi162Scf00195g00102' => 'pax', 'Peaxi162Scf00402g00013' => 'pax', 'Peaxi162Scf00519g00618' => 'pax', 'PGR004G2838' => 'pgr', 'PGR044G2275' => 'pgr', 'PGR102G1377' => 'pgr', 'PGR119G1245' => 'pgr', 'PGR142G4449' => 'pgr', 'PGSC0003DMG400004532' => 'stu', 'PGSC0003DMG400011950' => 'stu', 'PGSC0003DMG400023391' => 'stu', 'PGSC0003DMG400023985' => 'stu', 'PGSC0003DMG400026360' => 'stu', 'PGSC0003DMG400035711' => 'stu', 'PGSC0003DMG400037286' => 'stu', 'PGSC0003DMG402005881' => 'stu', 'Phvul.002G045400' => 'pvu', 'Phvul.006G216600' => 'pvu', 'Phvul.006G216700' => 'pvu', 'Phvul.006G216800' => 'pvu', 'Phvul.007G022500' => 'pvu', 'Phvul.011G094400' => 'pvu', 'Potri.001G470700' => 'ptr', 'Potri.003G015200' => 'ptr', 'Potri.004G202500' => 'ptr', 'Potri.004G218400' => 'ptr', 'Potri.008G020100' => 'ptr', 'Potri.008G153200' => 'ptr', 'Potri.009G163800' => 'ptr', 'Potri.010G087300' => 'ptr', 'Potri.010G239100' => 'ptr', 'Pp3c10_16100' => 'ppa', 'Pp3c10_16880' => 'ppa', 'Pp3c16_6230' => 'ppa', 'Pp3c17_18910' => 'ppa', 'Pp3c3_22119' => 'ppa', 'Pp3c3_22140' => 'ppa', 'Pp3c4_8159' => 'ppa', 'Pp3c4_8171' => 'ppa', 'Pp3c4_8330' => 'ppa', 'PRCOL_00004098' => 'pco', 'Prupe.1G013900' => 'ppe', 'Prupe.1G226300' => 'ppe', 'Prupe.1G573600' => 'ppe', 'Prupe.6G130100' => 'ppe', 'Psat3g090040' => 'psa', 'Psat4g210440' => 'psa', 'Psat6g231040' => 'psa', 'Psat6g231080' => 'psa', 'Psat7g063000' => 'psa', 'Psat7g188000' => 'psa', 'Psat7g188040' => 'psa', 'PSO017G0206' => 'pso', 'PSO170G0501' => 'pso', 'PSO170G6422' => 'pso', 'PSO210G7739' => 'pso', 'PSO339G1808' => 'pso', 'PSO339G6135' => 'pso', 'PSO384G0010' => 'pso', 'PSO384G0964' => 'pso', 'PSO761G0050' => 'pso', 'PSO782G4085' => 'pso', 'QL01p012264' => 'qlo', 'QL02p099491' => 'qlo', 'QL03p033868' => 'qlo', 'QL04p046678' => 'qlo', 'QL06p002448' => 'qlo', 'RcHm_v2.0_Chr4g0416181' => 'rch', 'RcHm_v2.0_Chr5g0044701' => 'rch', 'RcHm_v2.0_Chr6g0265781' => 'rch', 'RcHm_v2.0_Chr7g0221031' => 'rch', 'Rhsim04G0202000' => 'rsi', 'Rhsim11G0127300' => 'rsi', 'Rhsim13G0111800' => 'rsi', 'Sabra01G0165600' => 'sbr', 'Sabra03G0008300' => 'sbr', 'Sabra04G0136900' => 'sbr', 'Sabra08G0013400' => 'sbr', 'Sabra08G0116800' => 'sbr', 'Sabra09G0128000' => 'sbr', 'Sabra10G0055500' => 'sbr', 'Sabra10G0073300' => 'sbr', 'SalBow3G0385' => 'sbo', 'SalBow3G1119' => 'sbo', 'SalBow3G2005' => 'sbo', 'SalBow6G2563' => 'sbo', 'SalBow6G6386' => 'sbo', 'Sc06g0008800' => 'sci', 'Sc07g0004950' => 'sci', 'Sc09g0005340' => 'sci', 'Sc13g0004410' => 'sci', 'Sc21g0007090' => 'sci', 'Sed0009285' => 'sed', 'Sed0017583' => 'sed', 'Sed0019699' => 'sed', 'Sed0023107' => 'sed', 'SEGI_10916' => 'sgi', 'SEGI_16217' => 'sgi', 'SEGI_19466' => 'sgi', 'SEGI_41115' => 'sgi', 'SGA_v2.0_scaffold111G31534' => 'sas', 'SGA_v2.0_scaffold22G09864' => 'sas', 'SGA_v2.0_scaffold338G49219' => 'sas', 'SGA_v2.0_scaffold92G28298' => 'sas', 'SMO119G0064' => 'smo', 'SMO223G0038' => 'smo', 'SMO347G0584' => 'smo', 'SMO351G0010' => 'smo', 'SMO356G0404' => 'smo', 'Solyc01g103920.3' => 'sly', 'Solyc04g009710.2' => 'sly', 'Solyc05g055280.2' => 'sly', 'Solyc10g044520.3' => 'sly', 'Solyc10g075160.1' => 'sly', 'Solyc11g006910.3' => 'sly', 'Solyc11g068430.3' => 'sly', 'Sopen01g046310' => 'spe', 'Sopen03g001200' => 'spe', 'Sopen04g004830' => 'spe', 'Sopen05g033720' => 'spe', 'Sopen06g030740' => 'spe', 'Sopen10g013090' => 'spe', 'Sopen10g027630' => 'spe', 'Sopen10g027640' => 'spe', 'Sopen11g002820' => 'spe', 'Sopen11g027140' => 'spe', 'Sp1g09680' => 'spa', 'Sp2g03630' => 'spa', 'Sp4g10320' => 'spa', 'Sp6g33400' => 'spa', 'Sp7g13030' => 'spa', 'TAR365G0317' => 'tar', 'TAR376G0979' => 'tar', 'TAR623G1665' => 'tar', 'TAR633G2373' => 'tar', 'TAR636G1400' => 'tar', 'THA.LOC104800529' => 'tha', 'THA.LOC104808547' => 'tha', 'THA.LOC104809615' => 'tha', 'THA.LOC104815724' => 'tha', 'THA.LOC104818480' => 'tha', 'THA.LOC104819179' => 'tha', 'THA.LOC104822270' => 'tha', 'THA.LOC104826425' => 'tha', 'Thecc.02G089700' => 'tca', 'Thecc.04G232300' => 'tca', 'Thecc.09G283400' => 'tca', 'Thhalv10009020m.g' => 'esa', 'Thhalv10015506m.g' => 'esa', 'Thhalv10017364m.g' => 'esa', 'Thhalv10023742m.g' => 'esa', 'Thhalv10026483m.g' => 'esa', 'TPR.G17232' => 'tpr', 'TPR.G2133' => 'tpr', 'TPR.G2498' => 'tpr', 'TPR.G31942' => 'tpr', 'TPR.G37877' => 'tpr', 'TPR.G4571' => 'tpr', 'TWI14G1113' => 'twi', 'TWI15G0426' => 'twi', 'TWI31G1005' => 'twi', 'TWI38G0513' => 'twi', 'TWI38G1484' => 'twi', 'TWI73G1098' => 'twi', 'unitig_26.g10519' => 'ugi', 'unitig_736.g22395' => 'ugi', 'unitig_747.g21234' => 'ugi', 'unitig_747.g21942' => 'ugi', 'vmacro14351' => 'vma', 'VMungo0540G0082' => 'vmu', 'VMungo0540G0405' => 'vmu', 'VMungo0540G1486' => 'vmu', 'VMungo0540G1692' => 'vmu', 'VMungo0720G2473' => 'vmu', 'VMungo1127G1562' => 'vmu', 'VMungo1215G1918' => 'vmu', 'Zm00001eb052650' => 'zma', 'Zm00001eb063710' => 'zma', 'Zm00001eb083950' => 'zma', 'Zm00001eb174420' => 'zma', 'Zm00001eb260140' => 'zma', 'Zm00001eb260150' => 'zma', 'Zm00001eb260160' => 'zma', 'Zm00001eb348290' => 'zma', 'Zm00001eb366870' => 'zma', 'Zm00001eb421930' => 'zma' ) $gf_id = 'HOM05D001025' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001025' ) $data_identifier = 'HOM05D001025' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 19, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 2, 'amhyb' => (int) 4, 'aly' => (int) 4, 'aox' => (int) 4, 'arhy' => (int) 3, 'ath' => (int) 5, 'atr' => (int) 4, 'acertr' => (int) 3, 'cqu' => (int) 7, 'bca' => (int) 17, 'bol' => (int) 10, 'bra' => (int) 9, 'can' => (int) 10, 'cansat' => (int) 6, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 5, 'cbr' => (int) 5, 'ccan' => (int) 5, 'cde' => (int) 4, 'cfa' => (int) 3, 'ccl' => (int) 6, 'cil' => (int) 4, 'cla' => (int) 3, 'col' => (int) 3, 'cpa' => (int) 3, 'cre' => (int) 7, 'csa' => (int) 5, 'camsi' => (int) 9, 'dca' => (int) 4, 'din' => (int) 5, 'dzi' => (int) 7, 'eca' => (int) 6, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 12, 'fve' => (int) 4, 'gma' => (int) 12, 'ghi' => (int) 17, 'gra' => (int) 9, 'vvi' => (int) 2, 'han' => (int) 8, 'cav' => (int) 5, 'hma' => (int) 9, 'vpl' => (int) 4, 'sun' => (int) 2, 'lal' => (int) 9, 'lja' => (int) 5, 'lonja' => (int) 6, 'lsa' => (int) 3, 'mes' => (int) 8, 'mpo' => (int) 3, 'mbi' => (int) 4, 'mco' => (int) 3, 'mdo' => (int) 5, 'mtr' => (int) 7, 'cme' => (int) 6, 'egut' => (int) 7, 'ama' => (int) 3, 'nta' => (int) 12, 'nnu' => (int) 9, 'oeu' => (int) 4, 'osa' => (int) 7, 'pax' => (int) 9, 'pgr' => (int) 5, 'stu' => (int) 8, 'pvu' => (int) 6, 'ptr' => (int) 9, 'ppa' => (int) 9, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 7, 'pso' => (int) 10, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 3, 'sbr' => (int) 8, 'sbo' => (int) 5, 'sci' => (int) 5, 'sed' => (int) 4, 'sgi' => (int) 4, 'sas' => (int) 4, 'smo' => (int) 5, 'sly' => (int) 7, 'spe' => (int) 10, 'spa' => (int) 5, 'tar' => (int) 5, 'tha' => (int) 8, 'tca' => (int) 3, 'esa' => (int) 5, 'tpr' => (int) 6, 'twi' => (int) 6, 'ugi' => (int) 4, 'vma' => (int) 1, 'vmu' => (int) 7, 'zma' => (int) 10 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb421930' $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' => 'HOM05D001025', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '592', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p22650' => 'bna', 'A01p29720' => 'bna', 'A03p26560' => 'bna', 'A03p68820' => 'bna', 'A04p20980' => 'bna', 'A06p07730' => 'bna', 'A07p18260' => 'bna', 'A08p33710' => 'bna', 'A09p16970' => 'bna', 'A10p27490' => 'bna', 'Aa31LG1G17300' => 'aar', 'Aa31LG1G3910' => 'aar', 'Aa31LG2G9630' => 'aar', 'Aa31LG5G8360' => 'aar', 'Aa31LG9G2410' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4699' => 'aag', 'Actinidia23512' => 'ach', 'Actinidia37080' => 'ach', 'Ah.01g020380' => 'amhyb', 'Ah.08g215710' => 'amhyb', 'Ah.09g225110' => 'amhyb', 'Ah.10g036680' => 'amhyb', 'AL1G21940' => 'aly', 'AL2G15540' => 'aly', 'AL4G21520' => 'aly', 'AL7G40960' => 'aly', 'Aqoxy2G01191' => 'aox', 'Aqoxy2G03393' => 'aox', 'Aqoxy4G02775' => 'aox', 'Aqoxy6G00058' => 'aox', 'arahy.Tifrunner.gnm1.ann1.9X74H2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CW3FX9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R485W7' => 'arhy', 'AT1G10960' => 'ath', 'AT1G60950' => 'ath', 'AT2G27510' => 'ath', 'AT4G14890' => 'ath', 'AT5G10000' => 'ath', 'ATR0665G624' => 'atr', 'ATR0697G138' => 'atr', 'ATR0776G046' => 'atr', 'ATR1134G135' => 'atr', 'Atru.chr12.1025' => 'acertr', 'Atru.chr3.3241' => 'acertr', 'Atru.chr4.2460' => 'acertr', 'AUR62007427' => 'cqu', 'AUR62010960' => 'cqu', 'AUR62012201' => 'cqu', 'AUR62021470' => 'cqu', 'AUR62022834' => 'cqu', 'AUR62033635' => 'cqu', 'AUR62036186' => 'cqu', 'BcaB01g03077' => 'bca', 'BcaB02g10093' => 'bca', 'BcaB04g20295' => 'bca', 'BcaB06g28147' => 'bca', 'BcaB07g31253' => 'bca', 'BcaC01g04946' => 'bca', 'BcaC02g10614' => 'bca', 'BcaC02g10885' => 'bca', 'BcaC04g19356' => 'bca', 'BcaC04g22297' => 'bca', 'BcaC05g24977' => 'bca', 'BcaC06g31823' => 'bca', 'BcaC07g38633' => 'bca', 'BcaC09g49353' => 'bca', 'BcaC09g50168' => 'bca', 'BcaNung00322' => 'bca', 'BcaNung04769' => 'bca', 'BolC1t02753H' => 'bol', 'BolC1t03721H' => 'bol', 'BolC3t15525H' => 'bol', 'BolC4t23903H' => 'bol', 'BolC4t24231H' => 'bol', 'BolC4t27209H' => 'bol', 'BolC5t29671H' => 'bol', 'BolC8t49044H' => 'bol', 'BolC9t54999H' => 'bol', 'BolC9t59517H' => 'bol', 'BraA01t02178Z' => 'bra', 'BraA01t03099Z' => 'bra', 'BraA03t11867Z' => 'bra', 'BraA04t17667Z' => 'bra', 'BraA07t29542Z' => 'bra', 'BraA08t35287Z' => 'bra', 'BraA09t37334Z' => 'bra', 'BraA10t44801Z' => 'bra', 'BraSC39t46181Z' => 'bra', 'C01p28240' => 'bna', 'C01p37530' => 'bna', 'C03p31820' => 'bna', 'C04p24080' => 'bna', 'C04p25790' => 'bna', 'C04p56770' => 'bna', 'C05p09310' => 'bna', 'C09p21010' => 'bna', 'C09p67560' => 'bna', 'CAN.G1324.7' => 'can', 'CAN.G1358.10' => 'can', 'CAN.G1550.2' => 'can', 'CAN.G186.56' => 'can', 'CAN.G1965.1' => 'can', 'CAN.G645.15' => 'can', 'CAN.G798.26' => 'can', 'CAN.G798.27' => 'can', 'CAN.G798.29' => 'can', 'CAN.G919.31' => 'can', 'CANSAT11G0133' => 'cansat', 'CANSAT11G1171' => 'cansat', 'CANSAT11G2056' => 'cansat', 'CANSAT56G1202' => 'cansat', 'CANSAT56G1514' => 'cansat', 'CANSAT78G0455' => 'cansat', 'CARHR011190' => 'chi', 'CARHR051980' => 'chi', 'CARHR120170' => 'chi', 'CARHR203310' => 'chi', 'CARHR221490' => 'chi', 'Carub.0001s1054' => 'cru', 'Carub.0002s0431' => 'cru', 'Carub.0004s0818' => 'cru', 'Carub.0006s0846' => 'cru', 'Carub.0007s2722' => 'cru', 'Ca_00058_v3' => 'car', 'Ca_17831_v3' => 'car', 'Ca_19408_v3' => 'car', 'Ca_24397_v3' => 'car', 'Ca_25664_v3' => 'car', 'CBR_g21818' => 'cbr', 'CBR_g31195' => 'cbr', 'CBR_g32282' => 'cbr', 'CBR_g39599' => 'cbr', 'CBR_g49410' => 'cbr', 'Cc01_g09120' => 'ccan', 'Cc01_g09130' => 'ccan', 'Cc02_g09630' => 'ccan', 'Cc02_g22810' => 'ccan', 'Cc03_g03810' => 'ccan', 'CDE02G3718' => 'cde', 'CDE04G3183' => 'cde', 'CDE07G1046' => 'cde', 'CDE08G0480' => 'cde', 'Cfa005493' => 'cfa', 'Cfa010312' => 'cfa', 'Cfa015648' => 'cfa', 'Ciclev10002793m.g' => 'ccl', 'Ciclev10003356m.g' => 'ccl', 'Ciclev10006141m.g' => 'ccl', 'Ciclev10016676m.g' => 'ccl', 'Ciclev10017081m.g' => 'ccl', 'Ciclev10029499m.g' => 'ccl', 'CiPaw.01G166300' => 'cil', 'CiPaw.06G145600' => 'cil', 'CiPaw.13G040100' => 'cil', 'CiPaw.13G135800' => 'cil', 'ClCG01G012230' => 'cla', 'ClCG05G009510' => 'cla', 'ClCG08G008270' => 'cla', 'COL.COLO4_11763' => 'col', 'COL.COLO4_19876' => 'col', 'COL.COLO4_21481' => 'col', 'Cpa.g.sc118.34' => 'cpa', 'Cpa.g.sc32.13' => 'cpa', 'Cpa.g.sc58.103' => 'cpa', 'Cre03.g183850' => 'cre', 'Cre06.g306350' => 'cre', 'Cre07.g334800' => 'cre', 'Cre12.g487900' => 'cre', 'Cre14.g626700' => 'cre', 'Cre16.g658400' => 'cre', 'Cre17.g700950' => 'cre', 'CsaV3_1G014830' => 'csa', 'CsaV3_3G013320' => 'csa', 'CsaV3_3G019210' => 'csa', 'CsaV3_3G019220' => 'csa', 'CsaV3_6G004230' => 'csa', 'CSS0003773' => 'camsi', 'CSS0004563' => 'camsi', 'CSS0013949' => 'camsi', 'CSS0025971' => 'camsi', 'CSS0028570' => 'camsi', 'CSS0033127' => 'camsi', 'CSS0036051' => 'camsi', 'CSS0040087' => 'camsi', 'CSS0043179' => 'camsi', 'DCAR_006161' => 'dca', 'DCAR_010351' => 'dca', 'DCAR_012197' => 'dca', 'DCAR_024162' => 'dca', 'Dinv01030' => 'din', 'Dinv10924' => 'din', 'Dinv11835' => 'din', 'Dinv22841' => 'din', 'Dinv42553' => 'din', 'Duzib052G0560' => 'dzi', 'Duzib132G0389' => 'dzi', 'Duzib150G1181' => 'dzi', 'Duzib168G0623' => 'dzi', 'Duzib170G1036' => 'dzi', 'Duzib212G0200' => 'dzi', 'Duzib248G0194' => 'dzi', 'ECA232G2193' => 'eca', 'ECA233G0302' => 'eca', 'ECA234G2813' => 'eca', 'ECA234G4866' => 'eca', 'ECA240G3932' => 'eca', 'ECA248G0385' => 'eca', 'EL10Ac2g04781' => 'bvu', 'EL10Ac3g06445' => 'bvu', 'EL10Ac7g15825' => 'bvu', 'EL10Ac8g18550' => 'bvu', 'Eucgr.B03849' => 'egr', 'Eucgr.I02744' => 'egr', 'Eucgr.J00264' => 'egr', 'Eucgr.J00493' => 'egr', 'FAN04G2181' => 'fan', 'FAN07G2666' => 'fan', 'FAN11G0024' => 'fan', 'FAN12G1105' => 'fan', 'FAN13G0302' => 'fan', 'FAN15G2781' => 'fan', 'FAN16G1274' => 'fan', 'FAN17G2988' => 'fan', 'FAN18G2621' => 'fan', 'FAN21G0013' => 'fan', 'FAN22G1211' => 'fan', 'FAN25G3626' => 'fan', 'FvH4_2g09491' => 'fve', 'FvH4_3g24910' => 'fve', 'FvH4_4g15630' => 'fve', 'FvH4_5g28820' => 'fve', 'Glyma.01G238000' => 'gma', 'Glyma.05G168400' => 'gma', 'Glyma.08G126800' => 'gma', 'Glyma.08G188500' => 'gma', 'Glyma.10G278900' => 'gma', 'Glyma.11G005700' => 'gma', 'Glyma.11G183300' => 'gma', 'Glyma.12G089200' => 'gma', 'Glyma.12G169400' => 'gma', 'Glyma.12G169500' => 'gma', 'Glyma.12G169600' => 'gma', 'Glyma.20G110800' => 'gma', 'Gohir.A03G192900' => 'ghi', 'Gohir.A03G193000' => 'ghi', 'Gohir.A05G080700' => 'ghi', 'Gohir.A09G216000' => 'ghi', 'Gohir.A12G027700' => 'ghi', 'Gohir.A13G036200' => 'ghi', 'Gohir.A13G222600' => 'ghi', 'Gohir.D02G213900' => 'ghi', 'Gohir.D02G214000' => 'ghi', 'Gohir.D05G083700' => 'ghi', 'Gohir.D05G083800' => 'ghi', 'Gohir.D05G083850' => 'ghi', 'Gohir.D08G015400' => 'ghi', 'Gohir.D09G218400' => 'ghi', 'Gohir.D12G027100' => 'ghi', 'Gohir.D13G034500' => 'ghi', 'Gohir.D13G227400' => 'ghi', 'Gorai.005G241800' => 'gra', 'Gorai.005G241900' => 'gra', 'Gorai.006G239400' => 'gra', 'Gorai.008G027600' => 'gra', 'Gorai.009G085400' => 'gra', 'Gorai.009G085500' => 'gra', 'Gorai.013G039000' => 'gra', 'Gorai.013G194800' => 'gra', 'Gorai.013G257900' => 'gra', 'GSVIVG01000982001' => 'vvi', 'GSVIVG01017981001' => 'vvi', 'HanXRQChr01g0024061' => 'han', 'HanXRQChr09g0247831' => 'han', 'HanXRQChr10g0294611' => 'han', 'HanXRQChr10g0294621' => 'han', 'HanXRQChr11g0346821' => 'han', 'HanXRQChr13g0397461' => 'han', 'HanXRQChr16g0513651' => 'han', 'HanXRQChr16g0513701' => 'han', 'Haze_00897' => 'cav', 'Haze_01745' => 'cav', 'Haze_02486' => 'cav', 'Haze_02487' => 'cav', 'Haze_23374' => 'cav', 'Hma1.2p1_0578F.1_g182520' => 'hma', 'Hma1.2p1_0602F.1_g187350' => 'hma', 'Hma1.2p1_0602F.1_g187360' => 'hma', 'Hma1.2p1_0874F.1_g231320' => 'hma', 'Hma1.2p1_1197F.1_g266210' => 'hma', 'Hma1.2p1_1197F.1_g266220' => 'hma', 'Hma1.2p1_2167F.1_g315895' => 'hma', 'Hma1.2p1_2190F.1_g316640' => 'hma', 'Hma1.2p1_3645F.1_g337153' => 'hma', 'HPP92_004907' => 'vpl', 'HPP92_012134' => 'vpl', 'HPP92_025136' => 'vpl', 'HPP92_026087' => 'vpl', 'Hund06782' => 'sun', 'Hund06784' => 'sun', 'Lalb_Chr01g0004861' => 'lal', 'Lalb_Chr02g0140591' => 'lal', 'Lalb_Chr02g0140611' => 'lal', 'Lalb_Chr03g0028101' => 'lal', 'Lalb_Chr07g0185791' => 'lal', 'Lalb_Chr12g0204491' => 'lal', 'Lalb_Chr13g0295671' => 'lal', 'Lalb_Chr19g0136461' => 'lal', 'Lalb_Chr21g0309191' => 'lal', 'Lj1g0028158' => 'lja', 'Lj1P236T38' => 'lonja', 'Lj2C32G2' => 'lonja', 'Lj2P944T8' => 'lonja', 'Lj2P963T15' => 'lonja', 'Lj3g0011788' => 'lja', 'Lj4g0025027' => 'lja', 'Lj5P255T36' => 'lonja', 'Lj6g0018866' => 'lja', 'Lj6P608T31' => 'lonja', 'LjContig00408g0008879' => 'lja', 'Lsat_1_v5_gn_5_105820' => 'lsa', 'Lsat_1_v5_gn_6_38800' => 'lsa', 'Lsat_1_v5_gn_7_67141' => 'lsa', 'Manes.04G003400' => 'mes', 'Manes.07G020000' => 'mes', 'Manes.07G020100' => 'mes', 'Manes.07G020150' => 'mes', 'Manes.10G061500' => 'mes', 'Manes.10G123200' => 'mes', 'Manes.11G161900' => 'mes', 'Manes.15G029300' => 'mes', 'Mapoly0071s0018' => 'mpo', 'Mapoly0082s0023' => 'mpo', 'Mapoly3477s0001' => 'mpo', 'MBI05_g31233_MAGBIO' => 'mbi', 'MBI09_g05946_MAGBIO' => 'mbi', 'MBI09_g05947_MAGBIO' => 'mbi', 'MBI17_g08346_MAGBIO' => 'mbi', 'MCO04G038' => 'mco', 'MCO09G370' => 'mco', 'MCO13G605' => 'mco', 'MD00G1075500' => 'mdo', 'MD03G1144300' => 'mdo', 'MD08G1236800' => 'mdo', 'MD13G1193300' => 'mdo', 'MD15G1428700' => 'mdo', 'Medtr1g112030' => 'mtr', 'Medtr1g112050' => 'mtr', 'Medtr2g006290' => 'mtr', 'Medtr2g086510' => 'mtr', 'Medtr4g053120' => 'mtr', 'Medtr5g006320' => 'mtr', 'Medtr8g088720' => 'mtr', 'MELO3C004712.2' => 'cme', 'MELO3C006533.2' => 'cme', 'MELO3C019438.2' => 'cme', 'MELO3C019440.2' => 'cme', 'MELO3C019441.2' => 'cme', 'MELO3C019895.2' => 'cme', 'Migut.B00811' => 'egut', 'Migut.D02447' => 'egut', 'Migut.F00875' => 'egut', 'Migut.N00186' => 'egut', 'Migut.N01051' => 'egut', 'Migut.N02491' => 'egut', 'Migut.O00784' => 'egut', 'MSTRG.12367' => 'ama', 'MSTRG.18756' => 'ama', 'MSTRG.21042' => 'ama', 'Nitab4.5_0000559g0040' => 'nta', 'Nitab4.5_0000667g0190' => 'nta', 'Nitab4.5_0000755g0160' => 'nta', 'Nitab4.5_0001216g0080' => 'nta', 'Nitab4.5_0004069g0040' => 'nta', 'Nitab4.5_0004129g0010' => 'nta', 'Nitab4.5_0005744g0030' => 'nta', 'Nitab4.5_0006996g0030' => 'nta', 'Nitab4.5_0008971g0040' => 'nta', 'Nitab4.5_0009769g0020' => 'nta', 'Nitab4.5_0009833g0010' => 'nta', 'Nitab4.5_0013140g0020' => 'nta', 'Nn003s41376' => 'nnu', 'Nn1g01857' => 'nnu', 'Nn1g03611' => 'nnu', 'Nn1g06853' => 'nnu', 'Nn3g18360' => 'nnu', 'Nn4g26328' => 'nnu', 'Nn5g27531' => 'nnu', 'Nn6g34899' => 'nnu', 'Nn7g36299' => 'nnu', 'Oeu021485.1' => 'oeu', 'Oeu022433.1' => 'oeu', 'Oeu032111.1' => 'oeu', 'Oeu051608.1' => 'oeu', 'Os01g0860601' => 'osa', 'Os03g0659200' => 'osa', 'Os03g0835900' => 'osa', 'Os04g0412200' => 'osa', 'Os05g0443500' => 'osa', 'Os07g0251500' => 'osa', 'Os08g0104600' => 'osa', 'Peaxi162Scf00003g00047' => 'pax', 'Peaxi162Scf00003g00052' => 'pax', 'Peaxi162Scf00003g00394' => 'pax', 'Peaxi162Scf00091g00621' => 'pax', 'Peaxi162Scf00152g00146' => 'pax', 'Peaxi162Scf00173g00025' => 'pax', 'Peaxi162Scf00195g00102' => 'pax', 'Peaxi162Scf00402g00013' => 'pax', 'Peaxi162Scf00519g00618' => 'pax', 'PGR004G2838' => 'pgr', 'PGR044G2275' => 'pgr', 'PGR102G1377' => 'pgr', 'PGR119G1245' => 'pgr', 'PGR142G4449' => 'pgr', 'PGSC0003DMG400004532' => 'stu', 'PGSC0003DMG400011950' => 'stu', 'PGSC0003DMG400023391' => 'stu', 'PGSC0003DMG400023985' => 'stu', 'PGSC0003DMG400026360' => 'stu', 'PGSC0003DMG400035711' => 'stu', 'PGSC0003DMG400037286' => 'stu', 'PGSC0003DMG402005881' => 'stu', 'Phvul.002G045400' => 'pvu', 'Phvul.006G216600' => 'pvu', 'Phvul.006G216700' => 'pvu', 'Phvul.006G216800' => 'pvu', 'Phvul.007G022500' => 'pvu', 'Phvul.011G094400' => 'pvu', 'Potri.001G470700' => 'ptr', 'Potri.003G015200' => 'ptr', 'Potri.004G202500' => 'ptr', 'Potri.004G218400' => 'ptr', 'Potri.008G020100' => 'ptr', 'Potri.008G153200' => 'ptr', 'Potri.009G163800' => 'ptr', 'Potri.010G087300' => 'ptr', 'Potri.010G239100' => 'ptr', 'Pp3c10_16100' => 'ppa', 'Pp3c10_16880' => 'ppa', 'Pp3c16_6230' => 'ppa', 'Pp3c17_18910' => 'ppa', 'Pp3c3_22119' => 'ppa', 'Pp3c3_22140' => 'ppa', 'Pp3c4_8159' => 'ppa', 'Pp3c4_8171' => 'ppa', 'Pp3c4_8330' => 'ppa', 'PRCOL_00004098' => 'pco', 'Prupe.1G013900' => 'ppe', 'Prupe.1G226300' => 'ppe', 'Prupe.1G573600' => 'ppe', 'Prupe.6G130100' => 'ppe', 'Psat3g090040' => 'psa', 'Psat4g210440' => 'psa', 'Psat6g231040' => 'psa', 'Psat6g231080' => 'psa', 'Psat7g063000' => 'psa', 'Psat7g188000' => 'psa', 'Psat7g188040' => 'psa', 'PSO017G0206' => 'pso', 'PSO170G0501' => 'pso', 'PSO170G6422' => 'pso', 'PSO210G7739' => 'pso', 'PSO339G1808' => 'pso', 'PSO339G6135' => 'pso', 'PSO384G0010' => 'pso', 'PSO384G0964' => 'pso', 'PSO761G0050' => 'pso', 'PSO782G4085' => 'pso', 'QL01p012264' => 'qlo', 'QL02p099491' => 'qlo', 'QL03p033868' => 'qlo', 'QL04p046678' => 'qlo', 'QL06p002448' => 'qlo', 'RcHm_v2.0_Chr4g0416181' => 'rch', 'RcHm_v2.0_Chr5g0044701' => 'rch', 'RcHm_v2.0_Chr6g0265781' => 'rch', 'RcHm_v2.0_Chr7g0221031' => 'rch', 'Rhsim04G0202000' => 'rsi', 'Rhsim11G0127300' => 'rsi', 'Rhsim13G0111800' => 'rsi', 'Sabra01G0165600' => 'sbr', 'Sabra03G0008300' => 'sbr', 'Sabra04G0136900' => 'sbr', 'Sabra08G0013400' => 'sbr', 'Sabra08G0116800' => 'sbr', 'Sabra09G0128000' => 'sbr', 'Sabra10G0055500' => 'sbr', 'Sabra10G0073300' => 'sbr', 'SalBow3G0385' => 'sbo', 'SalBow3G1119' => 'sbo', 'SalBow3G2005' => 'sbo', 'SalBow6G2563' => 'sbo', 'SalBow6G6386' => 'sbo', 'Sc06g0008800' => 'sci', 'Sc07g0004950' => 'sci', 'Sc09g0005340' => 'sci', 'Sc13g0004410' => 'sci', 'Sc21g0007090' => 'sci', 'Sed0009285' => 'sed', 'Sed0017583' => 'sed', 'Sed0019699' => 'sed', 'Sed0023107' => 'sed', 'SEGI_10916' => 'sgi', 'SEGI_16217' => 'sgi', 'SEGI_19466' => 'sgi', 'SEGI_41115' => 'sgi', 'SGA_v2.0_scaffold111G31534' => 'sas', 'SGA_v2.0_scaffold22G09864' => 'sas', 'SGA_v2.0_scaffold338G49219' => 'sas', 'SGA_v2.0_scaffold92G28298' => 'sas', 'SMO119G0064' => 'smo', 'SMO223G0038' => 'smo', 'SMO347G0584' => 'smo', 'SMO351G0010' => 'smo', 'SMO356G0404' => 'smo', 'Solyc01g103920.3' => 'sly', 'Solyc04g009710.2' => 'sly', 'Solyc05g055280.2' => 'sly', 'Solyc10g044520.3' => 'sly', 'Solyc10g075160.1' => 'sly', 'Solyc11g006910.3' => 'sly', 'Solyc11g068430.3' => 'sly', 'Sopen01g046310' => 'spe', 'Sopen03g001200' => 'spe', 'Sopen04g004830' => 'spe', 'Sopen05g033720' => 'spe', 'Sopen06g030740' => 'spe', 'Sopen10g013090' => 'spe', 'Sopen10g027630' => 'spe', 'Sopen10g027640' => 'spe', 'Sopen11g002820' => 'spe', 'Sopen11g027140' => 'spe', 'Sp1g09680' => 'spa', 'Sp2g03630' => 'spa', 'Sp4g10320' => 'spa', 'Sp6g33400' => 'spa', 'Sp7g13030' => 'spa', 'TAR365G0317' => 'tar', 'TAR376G0979' => 'tar', 'TAR623G1665' => 'tar', 'TAR633G2373' => 'tar', 'TAR636G1400' => 'tar', 'THA.LOC104800529' => 'tha', 'THA.LOC104808547' => 'tha', 'THA.LOC104809615' => 'tha', 'THA.LOC104815724' => 'tha', 'THA.LOC104818480' => 'tha', 'THA.LOC104819179' => 'tha', 'THA.LOC104822270' => 'tha', 'THA.LOC104826425' => 'tha', 'Thecc.02G089700' => 'tca', 'Thecc.04G232300' => 'tca', 'Thecc.09G283400' => 'tca', 'Thhalv10009020m.g' => 'esa', 'Thhalv10015506m.g' => 'esa', 'Thhalv10017364m.g' => 'esa', 'Thhalv10023742m.g' => 'esa', 'Thhalv10026483m.g' => 'esa', 'TPR.G17232' => 'tpr', 'TPR.G2133' => 'tpr', 'TPR.G2498' => 'tpr', 'TPR.G31942' => 'tpr', 'TPR.G37877' => 'tpr', 'TPR.G4571' => 'tpr', 'TWI14G1113' => 'twi', 'TWI15G0426' => 'twi', 'TWI31G1005' => 'twi', 'TWI38G0513' => 'twi', 'TWI38G1484' => 'twi', 'TWI73G1098' => 'twi', 'unitig_26.g10519' => 'ugi', 'unitig_736.g22395' => 'ugi', 'unitig_747.g21234' => 'ugi', 'unitig_747.g21942' => 'ugi', 'vmacro14351' => 'vma', 'VMungo0540G0082' => 'vmu', 'VMungo0540G0405' => 'vmu', 'VMungo0540G1486' => 'vmu', 'VMungo0540G1692' => 'vmu', 'VMungo0720G2473' => 'vmu', 'VMungo1127G1562' => 'vmu', 'VMungo1215G1918' => 'vmu', 'Zm00001eb052650' => 'zma', 'Zm00001eb063710' => 'zma', 'Zm00001eb083950' => 'zma', 'Zm00001eb174420' => 'zma', 'Zm00001eb260140' => 'zma', 'Zm00001eb260150' => 'zma', 'Zm00001eb260160' => 'zma', 'Zm00001eb348290' => 'zma', 'Zm00001eb366870' => 'zma', 'Zm00001eb421930' => 'zma' ), 'gf_id' => 'HOM05D001025', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001025' ), 'data_identifier' => 'HOM05D001025', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001025', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '592', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p22650' => 'bna', 'A01p29720' => 'bna', 'A03p26560' => 'bna', 'A03p68820' => 'bna', 'A04p20980' => 'bna', 'A06p07730' => 'bna', 'A07p18260' => 'bna', 'A08p33710' => 'bna', 'A09p16970' => 'bna', 'A10p27490' => 'bna', 'Aa31LG1G17300' => 'aar', 'Aa31LG1G3910' => 'aar', 'Aa31LG2G9630' => 'aar', 'Aa31LG5G8360' => 'aar', 'Aa31LG9G2410' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4699' => 'aag', 'Actinidia23512' => 'ach', 'Actinidia37080' => 'ach', 'Ah.01g020380' => 'amhyb', 'Ah.08g215710' => 'amhyb', 'Ah.09g225110' => 'amhyb', 'Ah.10g036680' => 'amhyb', 'AL1G21940' => 'aly', 'AL2G15540' => 'aly', 'AL4G21520' => 'aly', 'AL7G40960' => 'aly', 'Aqoxy2G01191' => 'aox', 'Aqoxy2G03393' => 'aox', 'Aqoxy4G02775' => 'aox', 'Aqoxy6G00058' => 'aox', 'arahy.Tifrunner.gnm1.ann1.9X74H2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CW3FX9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R485W7' => 'arhy', 'AT1G10960' => 'ath', 'AT1G60950' => 'ath', 'AT2G27510' => 'ath', 'AT4G14890' => 'ath', 'AT5G10000' => 'ath', 'ATR0665G624' => 'atr', 'ATR0697G138' => 'atr', 'ATR0776G046' => 'atr', 'ATR1134G135' => 'atr', 'Atru.chr12.1025' => 'acertr', 'Atru.chr3.3241' => 'acertr', 'Atru.chr4.2460' => 'acertr', 'AUR62007427' => 'cqu', 'AUR62010960' => 'cqu', 'AUR62012201' => 'cqu', 'AUR62021470' => 'cqu', 'AUR62022834' => 'cqu', 'AUR62033635' => 'cqu', 'AUR62036186' => 'cqu', 'BcaB01g03077' => 'bca', 'BcaB02g10093' => 'bca', 'BcaB04g20295' => 'bca', 'BcaB06g28147' => 'bca', 'BcaB07g31253' => 'bca', 'BcaC01g04946' => 'bca', 'BcaC02g10614' => 'bca', 'BcaC02g10885' => 'bca', 'BcaC04g19356' => 'bca', 'BcaC04g22297' => 'bca', 'BcaC05g24977' => 'bca', 'BcaC06g31823' => 'bca', 'BcaC07g38633' => 'bca', 'BcaC09g49353' => 'bca', 'BcaC09g50168' => 'bca', 'BcaNung00322' => 'bca', 'BcaNung04769' => 'bca', 'BolC1t02753H' => 'bol', 'BolC1t03721H' => 'bol', 'BolC3t15525H' => 'bol', 'BolC4t23903H' => 'bol', 'BolC4t24231H' => 'bol', 'BolC4t27209H' => 'bol', 'BolC5t29671H' => 'bol', 'BolC8t49044H' => 'bol', 'BolC9t54999H' => 'bol', 'BolC9t59517H' => 'bol', 'BraA01t02178Z' => 'bra', 'BraA01t03099Z' => 'bra', 'BraA03t11867Z' => 'bra', 'BraA04t17667Z' => 'bra', 'BraA07t29542Z' => 'bra', 'BraA08t35287Z' => 'bra', 'BraA09t37334Z' => 'bra', 'BraA10t44801Z' => 'bra', 'BraSC39t46181Z' => 'bra', 'C01p28240' => 'bna', 'C01p37530' => 'bna', 'C03p31820' => 'bna', 'C04p24080' => 'bna', 'C04p25790' => 'bna', 'C04p56770' => 'bna', 'C05p09310' => 'bna', 'C09p21010' => 'bna', 'C09p67560' => 'bna', 'CAN.G1324.7' => 'can', 'CAN.G1358.10' => 'can', 'CAN.G1550.2' => 'can', 'CAN.G186.56' => 'can', 'CAN.G1965.1' => 'can', 'CAN.G645.15' => 'can', 'CAN.G798.26' => 'can', 'CAN.G798.27' => 'can', 'CAN.G798.29' => 'can', 'CAN.G919.31' => 'can', 'CANSAT11G0133' => 'cansat', 'CANSAT11G1171' => 'cansat', 'CANSAT11G2056' => 'cansat', 'CANSAT56G1202' => 'cansat', 'CANSAT56G1514' => 'cansat', 'CANSAT78G0455' => 'cansat', 'CARHR011190' => 'chi', 'CARHR051980' => 'chi', 'CARHR120170' => 'chi', 'CARHR203310' => 'chi', 'CARHR221490' => 'chi', 'Carub.0001s1054' => 'cru', 'Carub.0002s0431' => 'cru', 'Carub.0004s0818' => 'cru', 'Carub.0006s0846' => 'cru', 'Carub.0007s2722' => 'cru', 'Ca_00058_v3' => 'car', 'Ca_17831_v3' => 'car', 'Ca_19408_v3' => 'car', 'Ca_24397_v3' => 'car', 'Ca_25664_v3' => 'car', 'CBR_g21818' => 'cbr', 'CBR_g31195' => 'cbr', 'CBR_g32282' => 'cbr', 'CBR_g39599' => 'cbr', 'CBR_g49410' => 'cbr', 'Cc01_g09120' => 'ccan', 'Cc01_g09130' => 'ccan', 'Cc02_g09630' => 'ccan', 'Cc02_g22810' => 'ccan', 'Cc03_g03810' => 'ccan', 'CDE02G3718' => 'cde', 'CDE04G3183' => 'cde', 'CDE07G1046' => 'cde', 'CDE08G0480' => 'cde', 'Cfa005493' => 'cfa', 'Cfa010312' => 'cfa', 'Cfa015648' => 'cfa', 'Ciclev10002793m.g' => 'ccl', 'Ciclev10003356m.g' => 'ccl', 'Ciclev10006141m.g' => 'ccl', 'Ciclev10016676m.g' => 'ccl', 'Ciclev10017081m.g' => 'ccl', 'Ciclev10029499m.g' => 'ccl', 'CiPaw.01G166300' => 'cil', 'CiPaw.06G145600' => 'cil', 'CiPaw.13G040100' => 'cil', 'CiPaw.13G135800' => 'cil', 'ClCG01G012230' => 'cla', 'ClCG05G009510' => 'cla', 'ClCG08G008270' => 'cla', 'COL.COLO4_11763' => 'col', 'COL.COLO4_19876' => 'col', 'COL.COLO4_21481' => 'col', 'Cpa.g.sc118.34' => 'cpa', 'Cpa.g.sc32.13' => 'cpa', 'Cpa.g.sc58.103' => 'cpa', 'Cre03.g183850' => 'cre', 'Cre06.g306350' => 'cre', 'Cre07.g334800' => 'cre', 'Cre12.g487900' => 'cre', 'Cre14.g626700' => 'cre', 'Cre16.g658400' => 'cre', 'Cre17.g700950' => 'cre', 'CsaV3_1G014830' => 'csa', 'CsaV3_3G013320' => 'csa', 'CsaV3_3G019210' => 'csa', 'CsaV3_3G019220' => 'csa', 'CsaV3_6G004230' => 'csa', 'CSS0003773' => 'camsi', 'CSS0004563' => 'camsi', 'CSS0013949' => 'camsi', 'CSS0025971' => 'camsi', 'CSS0028570' => 'camsi', 'CSS0033127' => 'camsi', 'CSS0036051' => 'camsi', 'CSS0040087' => 'camsi', 'CSS0043179' => 'camsi', 'DCAR_006161' => 'dca', 'DCAR_010351' => 'dca', 'DCAR_012197' => 'dca', 'DCAR_024162' => 'dca', 'Dinv01030' => 'din', 'Dinv10924' => 'din', 'Dinv11835' => 'din', 'Dinv22841' => 'din', 'Dinv42553' => 'din', 'Duzib052G0560' => 'dzi', 'Duzib132G0389' => 'dzi', 'Duzib150G1181' => 'dzi', 'Duzib168G0623' => 'dzi', 'Duzib170G1036' => 'dzi', 'Duzib212G0200' => 'dzi', 'Duzib248G0194' => 'dzi', 'ECA232G2193' => 'eca', 'ECA233G0302' => 'eca', 'ECA234G2813' => 'eca', 'ECA234G4866' => 'eca', 'ECA240G3932' => 'eca', 'ECA248G0385' => 'eca', 'EL10Ac2g04781' => 'bvu', 'EL10Ac3g06445' => 'bvu', 'EL10Ac7g15825' => 'bvu', 'EL10Ac8g18550' => 'bvu', 'Eucgr.B03849' => 'egr', 'Eucgr.I02744' => 'egr', 'Eucgr.J00264' => 'egr', 'Eucgr.J00493' => 'egr', 'FAN04G2181' => 'fan', 'FAN07G2666' => 'fan', 'FAN11G0024' => 'fan', 'FAN12G1105' => 'fan', 'FAN13G0302' => 'fan', 'FAN15G2781' => 'fan', 'FAN16G1274' => 'fan', 'FAN17G2988' => 'fan', 'FAN18G2621' => 'fan', 'FAN21G0013' => 'fan', 'FAN22G1211' => 'fan', 'FAN25G3626' => 'fan', 'FvH4_2g09491' => 'fve', 'FvH4_3g24910' => 'fve', 'FvH4_4g15630' => 'fve', 'FvH4_5g28820' => 'fve', 'Glyma.01G238000' => 'gma', 'Glyma.05G168400' => 'gma', 'Glyma.08G126800' => 'gma', 'Glyma.08G188500' => 'gma', 'Glyma.10G278900' => 'gma', 'Glyma.11G005700' => 'gma', 'Glyma.11G183300' => 'gma', 'Glyma.12G089200' => 'gma', 'Glyma.12G169400' => 'gma', 'Glyma.12G169500' => 'gma', 'Glyma.12G169600' => 'gma', 'Glyma.20G110800' => 'gma', 'Gohir.A03G192900' => 'ghi', 'Gohir.A03G193000' => 'ghi', 'Gohir.A05G080700' => 'ghi', 'Gohir.A09G216000' => 'ghi', 'Gohir.A12G027700' => 'ghi', 'Gohir.A13G036200' => 'ghi', 'Gohir.A13G222600' => 'ghi', 'Gohir.D02G213900' => 'ghi', 'Gohir.D02G214000' => 'ghi', 'Gohir.D05G083700' => 'ghi', 'Gohir.D05G083800' => 'ghi', 'Gohir.D05G083850' => 'ghi', 'Gohir.D08G015400' => 'ghi', 'Gohir.D09G218400' => 'ghi', 'Gohir.D12G027100' => 'ghi', 'Gohir.D13G034500' => 'ghi', 'Gohir.D13G227400' => 'ghi', 'Gorai.005G241800' => 'gra', 'Gorai.005G241900' => 'gra', 'Gorai.006G239400' => 'gra', 'Gorai.008G027600' => 'gra', 'Gorai.009G085400' => 'gra', 'Gorai.009G085500' => 'gra', 'Gorai.013G039000' => 'gra', 'Gorai.013G194800' => 'gra', 'Gorai.013G257900' => 'gra', 'GSVIVG01000982001' => 'vvi', 'GSVIVG01017981001' => 'vvi', 'HanXRQChr01g0024061' => 'han', 'HanXRQChr09g0247831' => 'han', 'HanXRQChr10g0294611' => 'han', 'HanXRQChr10g0294621' => 'han', 'HanXRQChr11g0346821' => 'han', 'HanXRQChr13g0397461' => 'han', 'HanXRQChr16g0513651' => 'han', 'HanXRQChr16g0513701' => 'han', 'Haze_00897' => 'cav', 'Haze_01745' => 'cav', 'Haze_02486' => 'cav', 'Haze_02487' => 'cav', 'Haze_23374' => 'cav', 'Hma1.2p1_0578F.1_g182520' => 'hma', 'Hma1.2p1_0602F.1_g187350' => 'hma', 'Hma1.2p1_0602F.1_g187360' => 'hma', 'Hma1.2p1_0874F.1_g231320' => 'hma', 'Hma1.2p1_1197F.1_g266210' => 'hma', 'Hma1.2p1_1197F.1_g266220' => 'hma', 'Hma1.2p1_2167F.1_g315895' => 'hma', 'Hma1.2p1_2190F.1_g316640' => 'hma', 'Hma1.2p1_3645F.1_g337153' => 'hma', 'HPP92_004907' => 'vpl', 'HPP92_012134' => 'vpl', 'HPP92_025136' => 'vpl', 'HPP92_026087' => 'vpl', 'Hund06782' => 'sun', 'Hund06784' => 'sun', 'Lalb_Chr01g0004861' => 'lal', 'Lalb_Chr02g0140591' => 'lal', 'Lalb_Chr02g0140611' => 'lal', 'Lalb_Chr03g0028101' => 'lal', 'Lalb_Chr07g0185791' => 'lal', 'Lalb_Chr12g0204491' => 'lal', 'Lalb_Chr13g0295671' => 'lal', 'Lalb_Chr19g0136461' => 'lal', 'Lalb_Chr21g0309191' => 'lal', 'Lj1g0028158' => 'lja', 'Lj1P236T38' => 'lonja', 'Lj2C32G2' => 'lonja', 'Lj2P944T8' => 'lonja', 'Lj2P963T15' => 'lonja', 'Lj3g0011788' => 'lja', 'Lj4g0025027' => 'lja', 'Lj5P255T36' => 'lonja', 'Lj6g0018866' => 'lja', 'Lj6P608T31' => 'lonja', 'LjContig00408g0008879' => 'lja', 'Lsat_1_v5_gn_5_105820' => 'lsa', 'Lsat_1_v5_gn_6_38800' => 'lsa', 'Lsat_1_v5_gn_7_67141' => 'lsa', 'Manes.04G003400' => 'mes', 'Manes.07G020000' => 'mes', 'Manes.07G020100' => 'mes', 'Manes.07G020150' => 'mes', 'Manes.10G061500' => 'mes', 'Manes.10G123200' => 'mes', 'Manes.11G161900' => 'mes', 'Manes.15G029300' => 'mes', 'Mapoly0071s0018' => 'mpo', 'Mapoly0082s0023' => 'mpo', 'Mapoly3477s0001' => 'mpo', 'MBI05_g31233_MAGBIO' => 'mbi', 'MBI09_g05946_MAGBIO' => 'mbi', 'MBI09_g05947_MAGBIO' => 'mbi', 'MBI17_g08346_MAGBIO' => 'mbi', 'MCO04G038' => 'mco', 'MCO09G370' => 'mco', 'MCO13G605' => 'mco', 'MD00G1075500' => 'mdo', 'MD03G1144300' => 'mdo', 'MD08G1236800' => 'mdo', 'MD13G1193300' => 'mdo', 'MD15G1428700' => 'mdo', 'Medtr1g112030' => 'mtr', 'Medtr1g112050' => 'mtr', 'Medtr2g006290' => 'mtr', 'Medtr2g086510' => 'mtr', 'Medtr4g053120' => 'mtr', 'Medtr5g006320' => 'mtr', 'Medtr8g088720' => 'mtr', 'MELO3C004712.2' => 'cme', 'MELO3C006533.2' => 'cme', 'MELO3C019438.2' => 'cme', 'MELO3C019440.2' => 'cme', 'MELO3C019441.2' => 'cme', 'MELO3C019895.2' => 'cme', 'Migut.B00811' => 'egut', 'Migut.D02447' => 'egut', 'Migut.F00875' => 'egut', 'Migut.N00186' => 'egut', 'Migut.N01051' => 'egut', 'Migut.N02491' => 'egut', 'Migut.O00784' => 'egut', 'MSTRG.12367' => 'ama', 'MSTRG.18756' => 'ama', 'MSTRG.21042' => 'ama', 'Nitab4.5_0000559g0040' => 'nta', 'Nitab4.5_0000667g0190' => 'nta', 'Nitab4.5_0000755g0160' => 'nta', 'Nitab4.5_0001216g0080' => 'nta', 'Nitab4.5_0004069g0040' => 'nta', 'Nitab4.5_0004129g0010' => 'nta', 'Nitab4.5_0005744g0030' => 'nta', 'Nitab4.5_0006996g0030' => 'nta', 'Nitab4.5_0008971g0040' => 'nta', 'Nitab4.5_0009769g0020' => 'nta', 'Nitab4.5_0009833g0010' => 'nta', 'Nitab4.5_0013140g0020' => 'nta', 'Nn003s41376' => 'nnu', 'Nn1g01857' => 'nnu', 'Nn1g03611' => 'nnu', 'Nn1g06853' => 'nnu', 'Nn3g18360' => 'nnu', 'Nn4g26328' => 'nnu', 'Nn5g27531' => 'nnu', 'Nn6g34899' => 'nnu', 'Nn7g36299' => 'nnu', 'Oeu021485.1' => 'oeu', 'Oeu022433.1' => 'oeu', 'Oeu032111.1' => 'oeu', 'Oeu051608.1' => 'oeu', 'Os01g0860601' => 'osa', 'Os03g0659200' => 'osa', 'Os03g0835900' => 'osa', 'Os04g0412200' => 'osa', 'Os05g0443500' => 'osa', 'Os07g0251500' => 'osa', 'Os08g0104600' => 'osa', 'Peaxi162Scf00003g00047' => 'pax', 'Peaxi162Scf00003g00052' => 'pax', 'Peaxi162Scf00003g00394' => 'pax', 'Peaxi162Scf00091g00621' => 'pax', 'Peaxi162Scf00152g00146' => 'pax', 'Peaxi162Scf00173g00025' => 'pax', 'Peaxi162Scf00195g00102' => 'pax', 'Peaxi162Scf00402g00013' => 'pax', 'Peaxi162Scf00519g00618' => 'pax', 'PGR004G2838' => 'pgr', 'PGR044G2275' => 'pgr', 'PGR102G1377' => 'pgr', 'PGR119G1245' => 'pgr', 'PGR142G4449' => 'pgr', 'PGSC0003DMG400004532' => 'stu', 'PGSC0003DMG400011950' => 'stu', 'PGSC0003DMG400023391' => 'stu', 'PGSC0003DMG400023985' => 'stu', 'PGSC0003DMG400026360' => 'stu', 'PGSC0003DMG400035711' => 'stu', 'PGSC0003DMG400037286' => 'stu', 'PGSC0003DMG402005881' => 'stu', 'Phvul.002G045400' => 'pvu', 'Phvul.006G216600' => 'pvu', 'Phvul.006G216700' => 'pvu', 'Phvul.006G216800' => 'pvu', 'Phvul.007G022500' => 'pvu', 'Phvul.011G094400' => 'pvu', 'Potri.001G470700' => 'ptr', 'Potri.003G015200' => 'ptr', 'Potri.004G202500' => 'ptr', 'Potri.004G218400' => 'ptr', 'Potri.008G020100' => 'ptr', 'Potri.008G153200' => 'ptr', 'Potri.009G163800' => 'ptr', 'Potri.010G087300' => 'ptr', 'Potri.010G239100' => 'ptr', 'Pp3c10_16100' => 'ppa', 'Pp3c10_16880' => 'ppa', 'Pp3c16_6230' => 'ppa', 'Pp3c17_18910' => 'ppa', 'Pp3c3_22119' => 'ppa', 'Pp3c3_22140' => 'ppa', 'Pp3c4_8159' => 'ppa', 'Pp3c4_8171' => 'ppa', 'Pp3c4_8330' => 'ppa', 'PRCOL_00004098' => 'pco', 'Prupe.1G013900' => 'ppe', 'Prupe.1G226300' => 'ppe', 'Prupe.1G573600' => 'ppe', 'Prupe.6G130100' => 'ppe', 'Psat3g090040' => 'psa', 'Psat4g210440' => 'psa', 'Psat6g231040' => 'psa', 'Psat6g231080' => 'psa', 'Psat7g063000' => 'psa', 'Psat7g188000' => 'psa', 'Psat7g188040' => 'psa', 'PSO017G0206' => 'pso', 'PSO170G0501' => 'pso', 'PSO170G6422' => 'pso', 'PSO210G7739' => 'pso', 'PSO339G1808' => 'pso', 'PSO339G6135' => 'pso', 'PSO384G0010' => 'pso', 'PSO384G0964' => 'pso', 'PSO761G0050' => 'pso', 'PSO782G4085' => 'pso', 'QL01p012264' => 'qlo', 'QL02p099491' => 'qlo', 'QL03p033868' => 'qlo', 'QL04p046678' => 'qlo', 'QL06p002448' => 'qlo', 'RcHm_v2.0_Chr4g0416181' => 'rch', 'RcHm_v2.0_Chr5g0044701' => 'rch', 'RcHm_v2.0_Chr6g0265781' => 'rch', 'RcHm_v2.0_Chr7g0221031' => 'rch', 'Rhsim04G0202000' => 'rsi', 'Rhsim11G0127300' => 'rsi', 'Rhsim13G0111800' => 'rsi', 'Sabra01G0165600' => 'sbr', 'Sabra03G0008300' => 'sbr', 'Sabra04G0136900' => 'sbr', 'Sabra08G0013400' => 'sbr', 'Sabra08G0116800' => 'sbr', 'Sabra09G0128000' => 'sbr', 'Sabra10G0055500' => 'sbr', 'Sabra10G0073300' => 'sbr', 'SalBow3G0385' => 'sbo', 'SalBow3G1119' => 'sbo', 'SalBow3G2005' => 'sbo', 'SalBow6G2563' => 'sbo', 'SalBow6G6386' => 'sbo', 'Sc06g0008800' => 'sci', 'Sc07g0004950' => 'sci', 'Sc09g0005340' => 'sci', 'Sc13g0004410' => 'sci', 'Sc21g0007090' => 'sci', 'Sed0009285' => 'sed', 'Sed0017583' => 'sed', 'Sed0019699' => 'sed', 'Sed0023107' => 'sed', 'SEGI_10916' => 'sgi', 'SEGI_16217' => 'sgi', 'SEGI_19466' => 'sgi', 'SEGI_41115' => 'sgi', 'SGA_v2.0_scaffold111G31534' => 'sas', 'SGA_v2.0_scaffold22G09864' => 'sas', 'SGA_v2.0_scaffold338G49219' => 'sas', 'SGA_v2.0_scaffold92G28298' => 'sas', 'SMO119G0064' => 'smo', 'SMO223G0038' => 'smo', 'SMO347G0584' => 'smo', 'SMO351G0010' => 'smo', 'SMO356G0404' => 'smo', 'Solyc01g103920.3' => 'sly', 'Solyc04g009710.2' => 'sly', 'Solyc05g055280.2' => 'sly', 'Solyc10g044520.3' => 'sly', 'Solyc10g075160.1' => 'sly', 'Solyc11g006910.3' => 'sly', 'Solyc11g068430.3' => 'sly', 'Sopen01g046310' => 'spe', 'Sopen03g001200' => 'spe', 'Sopen04g004830' => 'spe', 'Sopen05g033720' => 'spe', 'Sopen06g030740' => 'spe', 'Sopen10g013090' => 'spe', 'Sopen10g027630' => 'spe', 'Sopen10g027640' => 'spe', 'Sopen11g002820' => 'spe', 'Sopen11g027140' => 'spe', 'Sp1g09680' => 'spa', 'Sp2g03630' => 'spa', 'Sp4g10320' => 'spa', 'Sp6g33400' => 'spa', 'Sp7g13030' => 'spa', 'TAR365G0317' => 'tar', 'TAR376G0979' => 'tar', 'TAR623G1665' => 'tar', 'TAR633G2373' => 'tar', 'TAR636G1400' => 'tar', 'THA.LOC104800529' => 'tha', 'THA.LOC104808547' => 'tha', 'THA.LOC104809615' => 'tha', 'THA.LOC104815724' => 'tha', 'THA.LOC104818480' => 'tha', 'THA.LOC104819179' => 'tha', 'THA.LOC104822270' => 'tha', 'THA.LOC104826425' => 'tha', 'Thecc.02G089700' => 'tca', 'Thecc.04G232300' => 'tca', 'Thecc.09G283400' => 'tca', 'Thhalv10009020m.g' => 'esa', 'Thhalv10015506m.g' => 'esa', 'Thhalv10017364m.g' => 'esa', 'Thhalv10023742m.g' => 'esa', 'Thhalv10026483m.g' => 'esa', 'TPR.G17232' => 'tpr', 'TPR.G2133' => 'tpr', 'TPR.G2498' => 'tpr', 'TPR.G31942' => 'tpr', 'TPR.G37877' => 'tpr', 'TPR.G4571' => 'tpr', 'TWI14G1113' => 'twi', 'TWI15G0426' => 'twi', 'TWI31G1005' => 'twi', 'TWI38G0513' => 'twi', 'TWI38G1484' => 'twi', 'TWI73G1098' => 'twi', 'unitig_26.g10519' => 'ugi', 'unitig_736.g22395' => 'ugi', 'unitig_747.g21234' => 'ugi', 'unitig_747.g21942' => 'ugi', 'vmacro14351' => 'vma', 'VMungo0540G0082' => 'vmu', 'VMungo0540G0405' => 'vmu', 'VMungo0540G1486' => 'vmu', 'VMungo0540G1692' => 'vmu', 'VMungo0720G2473' => 'vmu', 'VMungo1127G1562' => 'vmu', 'VMungo1215G1918' => 'vmu', 'Zm00001eb052650' => 'zma', 'Zm00001eb063710' => 'zma', 'Zm00001eb083950' => 'zma', 'Zm00001eb174420' => 'zma', 'Zm00001eb260140' => 'zma', 'Zm00001eb260150' => 'zma', 'Zm00001eb260160' => 'zma', 'Zm00001eb348290' => 'zma', 'Zm00001eb366870' => 'zma', 'Zm00001eb421930' => 'zma' ) $gf_id = 'HOM05D001025' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001025' ) $data_identifier = 'HOM05D001025' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 19, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 2, 'amhyb' => (int) 4, 'aly' => (int) 4, 'aox' => (int) 4, 'arhy' => (int) 3, 'ath' => (int) 5, 'atr' => (int) 4, 'acertr' => (int) 3, 'cqu' => (int) 7, 'bca' => (int) 17, 'bol' => (int) 10, 'bra' => (int) 9, 'can' => (int) 10, 'cansat' => (int) 6, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 5, 'cbr' => (int) 5, 'ccan' => (int) 5, 'cde' => (int) 4, 'cfa' => (int) 3, 'ccl' => (int) 6, 'cil' => (int) 4, 'cla' => (int) 3, 'col' => (int) 3, 'cpa' => (int) 3, 'cre' => (int) 7, 'csa' => (int) 5, 'camsi' => (int) 9, 'dca' => (int) 4, 'din' => (int) 5, 'dzi' => (int) 7, 'eca' => (int) 6, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 12, 'fve' => (int) 4, 'gma' => (int) 12, 'ghi' => (int) 17, 'gra' => (int) 9, 'vvi' => (int) 2, 'han' => (int) 8, 'cav' => (int) 5, 'hma' => (int) 9, 'vpl' => (int) 4, 'sun' => (int) 2, 'lal' => (int) 9, 'lja' => (int) 5, 'lonja' => (int) 6, 'lsa' => (int) 3, 'mes' => (int) 8, 'mpo' => (int) 3, 'mbi' => (int) 4, 'mco' => (int) 3, 'mdo' => (int) 5, 'mtr' => (int) 7, 'cme' => (int) 6, 'egut' => (int) 7, 'ama' => (int) 3, 'nta' => (int) 12, 'nnu' => (int) 9, 'oeu' => (int) 4, 'osa' => (int) 7, 'pax' => (int) 9, 'pgr' => (int) 5, 'stu' => (int) 8, 'pvu' => (int) 6, 'ptr' => (int) 9, 'ppa' => (int) 9, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 7, 'pso' => (int) 10, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 3, 'sbr' => (int) 8, 'sbo' => (int) 5, 'sci' => (int) 5, 'sed' => (int) 4, 'sgi' => (int) 4, 'sas' => (int) 4, 'smo' => (int) 5, 'sly' => (int) 7, 'spe' => (int) 10, 'spa' => (int) 5, 'tar' => (int) 5, 'tha' => (int) 8, 'tca' => (int) 3, 'esa' => (int) 5, 'tpr' => (int) 6, 'twi' => (int) 6, 'ugi' => (int) 4, 'vma' => (int) 1, 'vmu' => (int) 7, 'zma' => (int) 10 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb421930' $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' => 'HOM05D001025', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '592', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p22650' => 'bna', 'A01p29720' => 'bna', 'A03p26560' => 'bna', 'A03p68820' => 'bna', 'A04p20980' => 'bna', 'A06p07730' => 'bna', 'A07p18260' => 'bna', 'A08p33710' => 'bna', 'A09p16970' => 'bna', 'A10p27490' => 'bna', 'Aa31LG1G17300' => 'aar', 'Aa31LG1G3910' => 'aar', 'Aa31LG2G9630' => 'aar', 'Aa31LG5G8360' => 'aar', 'Aa31LG9G2410' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4699' => 'aag', 'Actinidia23512' => 'ach', 'Actinidia37080' => 'ach', 'Ah.01g020380' => 'amhyb', 'Ah.08g215710' => 'amhyb', 'Ah.09g225110' => 'amhyb', 'Ah.10g036680' => 'amhyb', 'AL1G21940' => 'aly', 'AL2G15540' => 'aly', 'AL4G21520' => 'aly', 'AL7G40960' => 'aly', 'Aqoxy2G01191' => 'aox', 'Aqoxy2G03393' => 'aox', 'Aqoxy4G02775' => 'aox', 'Aqoxy6G00058' => 'aox', 'arahy.Tifrunner.gnm1.ann1.9X74H2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CW3FX9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R485W7' => 'arhy', 'AT1G10960' => 'ath', 'AT1G60950' => 'ath', 'AT2G27510' => 'ath', 'AT4G14890' => 'ath', 'AT5G10000' => 'ath', 'ATR0665G624' => 'atr', 'ATR0697G138' => 'atr', 'ATR0776G046' => 'atr', 'ATR1134G135' => 'atr', 'Atru.chr12.1025' => 'acertr', 'Atru.chr3.3241' => 'acertr', 'Atru.chr4.2460' => 'acertr', 'AUR62007427' => 'cqu', 'AUR62010960' => 'cqu', 'AUR62012201' => 'cqu', 'AUR62021470' => 'cqu', 'AUR62022834' => 'cqu', 'AUR62033635' => 'cqu', 'AUR62036186' => 'cqu', 'BcaB01g03077' => 'bca', 'BcaB02g10093' => 'bca', 'BcaB04g20295' => 'bca', 'BcaB06g28147' => 'bca', 'BcaB07g31253' => 'bca', 'BcaC01g04946' => 'bca', 'BcaC02g10614' => 'bca', 'BcaC02g10885' => 'bca', 'BcaC04g19356' => 'bca', 'BcaC04g22297' => 'bca', 'BcaC05g24977' => 'bca', 'BcaC06g31823' => 'bca', 'BcaC07g38633' => 'bca', 'BcaC09g49353' => 'bca', 'BcaC09g50168' => 'bca', 'BcaNung00322' => 'bca', 'BcaNung04769' => 'bca', 'BolC1t02753H' => 'bol', 'BolC1t03721H' => 'bol', 'BolC3t15525H' => 'bol', 'BolC4t23903H' => 'bol', 'BolC4t24231H' => 'bol', 'BolC4t27209H' => 'bol', 'BolC5t29671H' => 'bol', 'BolC8t49044H' => 'bol', 'BolC9t54999H' => 'bol', 'BolC9t59517H' => 'bol', 'BraA01t02178Z' => 'bra', 'BraA01t03099Z' => 'bra', 'BraA03t11867Z' => 'bra', 'BraA04t17667Z' => 'bra', 'BraA07t29542Z' => 'bra', 'BraA08t35287Z' => 'bra', 'BraA09t37334Z' => 'bra', 'BraA10t44801Z' => 'bra', 'BraSC39t46181Z' => 'bra', 'C01p28240' => 'bna', 'C01p37530' => 'bna', 'C03p31820' => 'bna', 'C04p24080' => 'bna', 'C04p25790' => 'bna', 'C04p56770' => 'bna', 'C05p09310' => 'bna', 'C09p21010' => 'bna', 'C09p67560' => 'bna', 'CAN.G1324.7' => 'can', 'CAN.G1358.10' => 'can', 'CAN.G1550.2' => 'can', 'CAN.G186.56' => 'can', 'CAN.G1965.1' => 'can', 'CAN.G645.15' => 'can', 'CAN.G798.26' => 'can', 'CAN.G798.27' => 'can', 'CAN.G798.29' => 'can', 'CAN.G919.31' => 'can', 'CANSAT11G0133' => 'cansat', 'CANSAT11G1171' => 'cansat', 'CANSAT11G2056' => 'cansat', 'CANSAT56G1202' => 'cansat', 'CANSAT56G1514' => 'cansat', 'CANSAT78G0455' => 'cansat', 'CARHR011190' => 'chi', 'CARHR051980' => 'chi', 'CARHR120170' => 'chi', 'CARHR203310' => 'chi', 'CARHR221490' => 'chi', 'Carub.0001s1054' => 'cru', 'Carub.0002s0431' => 'cru', 'Carub.0004s0818' => 'cru', 'Carub.0006s0846' => 'cru', 'Carub.0007s2722' => 'cru', 'Ca_00058_v3' => 'car', 'Ca_17831_v3' => 'car', 'Ca_19408_v3' => 'car', 'Ca_24397_v3' => 'car', 'Ca_25664_v3' => 'car', 'CBR_g21818' => 'cbr', 'CBR_g31195' => 'cbr', 'CBR_g32282' => 'cbr', 'CBR_g39599' => 'cbr', 'CBR_g49410' => 'cbr', 'Cc01_g09120' => 'ccan', 'Cc01_g09130' => 'ccan', 'Cc02_g09630' => 'ccan', 'Cc02_g22810' => 'ccan', 'Cc03_g03810' => 'ccan', 'CDE02G3718' => 'cde', 'CDE04G3183' => 'cde', 'CDE07G1046' => 'cde', 'CDE08G0480' => 'cde', 'Cfa005493' => 'cfa', 'Cfa010312' => 'cfa', 'Cfa015648' => 'cfa', 'Ciclev10002793m.g' => 'ccl', 'Ciclev10003356m.g' => 'ccl', 'Ciclev10006141m.g' => 'ccl', 'Ciclev10016676m.g' => 'ccl', 'Ciclev10017081m.g' => 'ccl', 'Ciclev10029499m.g' => 'ccl', 'CiPaw.01G166300' => 'cil', 'CiPaw.06G145600' => 'cil', 'CiPaw.13G040100' => 'cil', 'CiPaw.13G135800' => 'cil', 'ClCG01G012230' => 'cla', 'ClCG05G009510' => 'cla', 'ClCG08G008270' => 'cla', 'COL.COLO4_11763' => 'col', 'COL.COLO4_19876' => 'col', 'COL.COLO4_21481' => 'col', 'Cpa.g.sc118.34' => 'cpa', 'Cpa.g.sc32.13' => 'cpa', 'Cpa.g.sc58.103' => 'cpa', 'Cre03.g183850' => 'cre', 'Cre06.g306350' => 'cre', 'Cre07.g334800' => 'cre', 'Cre12.g487900' => 'cre', 'Cre14.g626700' => 'cre', 'Cre16.g658400' => 'cre', 'Cre17.g700950' => 'cre', 'CsaV3_1G014830' => 'csa', 'CsaV3_3G013320' => 'csa', 'CsaV3_3G019210' => 'csa', 'CsaV3_3G019220' => 'csa', 'CsaV3_6G004230' => 'csa', 'CSS0003773' => 'camsi', 'CSS0004563' => 'camsi', 'CSS0013949' => 'camsi', 'CSS0025971' => 'camsi', 'CSS0028570' => 'camsi', 'CSS0033127' => 'camsi', 'CSS0036051' => 'camsi', 'CSS0040087' => 'camsi', 'CSS0043179' => 'camsi', 'DCAR_006161' => 'dca', 'DCAR_010351' => 'dca', 'DCAR_012197' => 'dca', 'DCAR_024162' => 'dca', 'Dinv01030' => 'din', 'Dinv10924' => 'din', 'Dinv11835' => 'din', 'Dinv22841' => 'din', 'Dinv42553' => 'din', 'Duzib052G0560' => 'dzi', 'Duzib132G0389' => 'dzi', 'Duzib150G1181' => 'dzi', 'Duzib168G0623' => 'dzi', 'Duzib170G1036' => 'dzi', 'Duzib212G0200' => 'dzi', 'Duzib248G0194' => 'dzi', 'ECA232G2193' => 'eca', 'ECA233G0302' => 'eca', 'ECA234G2813' => 'eca', 'ECA234G4866' => 'eca', 'ECA240G3932' => 'eca', 'ECA248G0385' => 'eca', 'EL10Ac2g04781' => 'bvu', 'EL10Ac3g06445' => 'bvu', 'EL10Ac7g15825' => 'bvu', 'EL10Ac8g18550' => 'bvu', 'Eucgr.B03849' => 'egr', 'Eucgr.I02744' => 'egr', 'Eucgr.J00264' => 'egr', 'Eucgr.J00493' => 'egr', 'FAN04G2181' => 'fan', 'FAN07G2666' => 'fan', 'FAN11G0024' => 'fan', 'FAN12G1105' => 'fan', 'FAN13G0302' => 'fan', 'FAN15G2781' => 'fan', 'FAN16G1274' => 'fan', 'FAN17G2988' => 'fan', 'FAN18G2621' => 'fan', 'FAN21G0013' => 'fan', 'FAN22G1211' => 'fan', 'FAN25G3626' => 'fan', 'FvH4_2g09491' => 'fve', 'FvH4_3g24910' => 'fve', 'FvH4_4g15630' => 'fve', 'FvH4_5g28820' => 'fve', 'Glyma.01G238000' => 'gma', 'Glyma.05G168400' => 'gma', 'Glyma.08G126800' => 'gma', 'Glyma.08G188500' => 'gma', 'Glyma.10G278900' => 'gma', 'Glyma.11G005700' => 'gma', 'Glyma.11G183300' => 'gma', 'Glyma.12G089200' => 'gma', 'Glyma.12G169400' => 'gma', 'Glyma.12G169500' => 'gma', 'Glyma.12G169600' => 'gma', 'Glyma.20G110800' => 'gma', 'Gohir.A03G192900' => 'ghi', 'Gohir.A03G193000' => 'ghi', 'Gohir.A05G080700' => 'ghi', 'Gohir.A09G216000' => 'ghi', 'Gohir.A12G027700' => 'ghi', 'Gohir.A13G036200' => 'ghi', 'Gohir.A13G222600' => 'ghi', 'Gohir.D02G213900' => 'ghi', 'Gohir.D02G214000' => 'ghi', 'Gohir.D05G083700' => 'ghi', 'Gohir.D05G083800' => 'ghi', 'Gohir.D05G083850' => 'ghi', 'Gohir.D08G015400' => 'ghi', 'Gohir.D09G218400' => 'ghi', 'Gohir.D12G027100' => 'ghi', 'Gohir.D13G034500' => 'ghi', 'Gohir.D13G227400' => 'ghi', 'Gorai.005G241800' => 'gra', 'Gorai.005G241900' => 'gra', 'Gorai.006G239400' => 'gra', 'Gorai.008G027600' => 'gra', 'Gorai.009G085400' => 'gra', 'Gorai.009G085500' => 'gra', 'Gorai.013G039000' => 'gra', 'Gorai.013G194800' => 'gra', 'Gorai.013G257900' => 'gra', 'GSVIVG01000982001' => 'vvi', 'GSVIVG01017981001' => 'vvi', 'HanXRQChr01g0024061' => 'han', 'HanXRQChr09g0247831' => 'han', 'HanXRQChr10g0294611' => 'han', 'HanXRQChr10g0294621' => 'han', 'HanXRQChr11g0346821' => 'han', 'HanXRQChr13g0397461' => 'han', 'HanXRQChr16g0513651' => 'han', 'HanXRQChr16g0513701' => 'han', 'Haze_00897' => 'cav', 'Haze_01745' => 'cav', 'Haze_02486' => 'cav', 'Haze_02487' => 'cav', 'Haze_23374' => 'cav', 'Hma1.2p1_0578F.1_g182520' => 'hma', 'Hma1.2p1_0602F.1_g187350' => 'hma', 'Hma1.2p1_0602F.1_g187360' => 'hma', 'Hma1.2p1_0874F.1_g231320' => 'hma', 'Hma1.2p1_1197F.1_g266210' => 'hma', 'Hma1.2p1_1197F.1_g266220' => 'hma', 'Hma1.2p1_2167F.1_g315895' => 'hma', 'Hma1.2p1_2190F.1_g316640' => 'hma', 'Hma1.2p1_3645F.1_g337153' => 'hma', 'HPP92_004907' => 'vpl', 'HPP92_012134' => 'vpl', 'HPP92_025136' => 'vpl', 'HPP92_026087' => 'vpl', 'Hund06782' => 'sun', 'Hund06784' => 'sun', 'Lalb_Chr01g0004861' => 'lal', 'Lalb_Chr02g0140591' => 'lal', 'Lalb_Chr02g0140611' => 'lal', 'Lalb_Chr03g0028101' => 'lal', 'Lalb_Chr07g0185791' => 'lal', 'Lalb_Chr12g0204491' => 'lal', 'Lalb_Chr13g0295671' => 'lal', 'Lalb_Chr19g0136461' => 'lal', 'Lalb_Chr21g0309191' => 'lal', 'Lj1g0028158' => 'lja', 'Lj1P236T38' => 'lonja', 'Lj2C32G2' => 'lonja', 'Lj2P944T8' => 'lonja', 'Lj2P963T15' => 'lonja', 'Lj3g0011788' => 'lja', 'Lj4g0025027' => 'lja', 'Lj5P255T36' => 'lonja', 'Lj6g0018866' => 'lja', 'Lj6P608T31' => 'lonja', 'LjContig00408g0008879' => 'lja', 'Lsat_1_v5_gn_5_105820' => 'lsa', 'Lsat_1_v5_gn_6_38800' => 'lsa', 'Lsat_1_v5_gn_7_67141' => 'lsa', 'Manes.04G003400' => 'mes', 'Manes.07G020000' => 'mes', 'Manes.07G020100' => 'mes', 'Manes.07G020150' => 'mes', 'Manes.10G061500' => 'mes', 'Manes.10G123200' => 'mes', 'Manes.11G161900' => 'mes', 'Manes.15G029300' => 'mes', 'Mapoly0071s0018' => 'mpo', 'Mapoly0082s0023' => 'mpo', 'Mapoly3477s0001' => 'mpo', 'MBI05_g31233_MAGBIO' => 'mbi', 'MBI09_g05946_MAGBIO' => 'mbi', 'MBI09_g05947_MAGBIO' => 'mbi', 'MBI17_g08346_MAGBIO' => 'mbi', 'MCO04G038' => 'mco', 'MCO09G370' => 'mco', 'MCO13G605' => 'mco', 'MD00G1075500' => 'mdo', 'MD03G1144300' => 'mdo', 'MD08G1236800' => 'mdo', 'MD13G1193300' => 'mdo', 'MD15G1428700' => 'mdo', 'Medtr1g112030' => 'mtr', 'Medtr1g112050' => 'mtr', 'Medtr2g006290' => 'mtr', 'Medtr2g086510' => 'mtr', 'Medtr4g053120' => 'mtr', 'Medtr5g006320' => 'mtr', 'Medtr8g088720' => 'mtr', 'MELO3C004712.2' => 'cme', 'MELO3C006533.2' => 'cme', 'MELO3C019438.2' => 'cme', 'MELO3C019440.2' => 'cme', 'MELO3C019441.2' => 'cme', 'MELO3C019895.2' => 'cme', 'Migut.B00811' => 'egut', 'Migut.D02447' => 'egut', 'Migut.F00875' => 'egut', 'Migut.N00186' => 'egut', 'Migut.N01051' => 'egut', 'Migut.N02491' => 'egut', 'Migut.O00784' => 'egut', 'MSTRG.12367' => 'ama', 'MSTRG.18756' => 'ama', 'MSTRG.21042' => 'ama', 'Nitab4.5_0000559g0040' => 'nta', 'Nitab4.5_0000667g0190' => 'nta', 'Nitab4.5_0000755g0160' => 'nta', 'Nitab4.5_0001216g0080' => 'nta', 'Nitab4.5_0004069g0040' => 'nta', 'Nitab4.5_0004129g0010' => 'nta', 'Nitab4.5_0005744g0030' => 'nta', 'Nitab4.5_0006996g0030' => 'nta', 'Nitab4.5_0008971g0040' => 'nta', 'Nitab4.5_0009769g0020' => 'nta', 'Nitab4.5_0009833g0010' => 'nta', 'Nitab4.5_0013140g0020' => 'nta', 'Nn003s41376' => 'nnu', 'Nn1g01857' => 'nnu', 'Nn1g03611' => 'nnu', 'Nn1g06853' => 'nnu', 'Nn3g18360' => 'nnu', 'Nn4g26328' => 'nnu', 'Nn5g27531' => 'nnu', 'Nn6g34899' => 'nnu', 'Nn7g36299' => 'nnu', 'Oeu021485.1' => 'oeu', 'Oeu022433.1' => 'oeu', 'Oeu032111.1' => 'oeu', 'Oeu051608.1' => 'oeu', 'Os01g0860601' => 'osa', 'Os03g0659200' => 'osa', 'Os03g0835900' => 'osa', 'Os04g0412200' => 'osa', 'Os05g0443500' => 'osa', 'Os07g0251500' => 'osa', 'Os08g0104600' => 'osa', 'Peaxi162Scf00003g00047' => 'pax', 'Peaxi162Scf00003g00052' => 'pax', 'Peaxi162Scf00003g00394' => 'pax', 'Peaxi162Scf00091g00621' => 'pax', 'Peaxi162Scf00152g00146' => 'pax', 'Peaxi162Scf00173g00025' => 'pax', 'Peaxi162Scf00195g00102' => 'pax', 'Peaxi162Scf00402g00013' => 'pax', 'Peaxi162Scf00519g00618' => 'pax', 'PGR004G2838' => 'pgr', 'PGR044G2275' => 'pgr', 'PGR102G1377' => 'pgr', 'PGR119G1245' => 'pgr', 'PGR142G4449' => 'pgr', 'PGSC0003DMG400004532' => 'stu', 'PGSC0003DMG400011950' => 'stu', 'PGSC0003DMG400023391' => 'stu', 'PGSC0003DMG400023985' => 'stu', 'PGSC0003DMG400026360' => 'stu', 'PGSC0003DMG400035711' => 'stu', 'PGSC0003DMG400037286' => 'stu', 'PGSC0003DMG402005881' => 'stu', 'Phvul.002G045400' => 'pvu', 'Phvul.006G216600' => 'pvu', 'Phvul.006G216700' => 'pvu', 'Phvul.006G216800' => 'pvu', 'Phvul.007G022500' => 'pvu', 'Phvul.011G094400' => 'pvu', 'Potri.001G470700' => 'ptr', 'Potri.003G015200' => 'ptr', 'Potri.004G202500' => 'ptr', 'Potri.004G218400' => 'ptr', 'Potri.008G020100' => 'ptr', 'Potri.008G153200' => 'ptr', 'Potri.009G163800' => 'ptr', 'Potri.010G087300' => 'ptr', 'Potri.010G239100' => 'ptr', 'Pp3c10_16100' => 'ppa', 'Pp3c10_16880' => 'ppa', 'Pp3c16_6230' => 'ppa', 'Pp3c17_18910' => 'ppa', 'Pp3c3_22119' => 'ppa', 'Pp3c3_22140' => 'ppa', 'Pp3c4_8159' => 'ppa', 'Pp3c4_8171' => 'ppa', 'Pp3c4_8330' => 'ppa', 'PRCOL_00004098' => 'pco', 'Prupe.1G013900' => 'ppe', 'Prupe.1G226300' => 'ppe', 'Prupe.1G573600' => 'ppe', 'Prupe.6G130100' => 'ppe', 'Psat3g090040' => 'psa', 'Psat4g210440' => 'psa', 'Psat6g231040' => 'psa', 'Psat6g231080' => 'psa', 'Psat7g063000' => 'psa', 'Psat7g188000' => 'psa', 'Psat7g188040' => 'psa', 'PSO017G0206' => 'pso', 'PSO170G0501' => 'pso', 'PSO170G6422' => 'pso', 'PSO210G7739' => 'pso', 'PSO339G1808' => 'pso', 'PSO339G6135' => 'pso', 'PSO384G0010' => 'pso', 'PSO384G0964' => 'pso', 'PSO761G0050' => 'pso', 'PSO782G4085' => 'pso', 'QL01p012264' => 'qlo', 'QL02p099491' => 'qlo', 'QL03p033868' => 'qlo', 'QL04p046678' => 'qlo', 'QL06p002448' => 'qlo', 'RcHm_v2.0_Chr4g0416181' => 'rch', 'RcHm_v2.0_Chr5g0044701' => 'rch', 'RcHm_v2.0_Chr6g0265781' => 'rch', 'RcHm_v2.0_Chr7g0221031' => 'rch', 'Rhsim04G0202000' => 'rsi', 'Rhsim11G0127300' => 'rsi', 'Rhsim13G0111800' => 'rsi', 'Sabra01G0165600' => 'sbr', 'Sabra03G0008300' => 'sbr', 'Sabra04G0136900' => 'sbr', 'Sabra08G0013400' => 'sbr', 'Sabra08G0116800' => 'sbr', 'Sabra09G0128000' => 'sbr', 'Sabra10G0055500' => 'sbr', 'Sabra10G0073300' => 'sbr', 'SalBow3G0385' => 'sbo', 'SalBow3G1119' => 'sbo', 'SalBow3G2005' => 'sbo', 'SalBow6G2563' => 'sbo', 'SalBow6G6386' => 'sbo', 'Sc06g0008800' => 'sci', 'Sc07g0004950' => 'sci', 'Sc09g0005340' => 'sci', 'Sc13g0004410' => 'sci', 'Sc21g0007090' => 'sci', 'Sed0009285' => 'sed', 'Sed0017583' => 'sed', 'Sed0019699' => 'sed', 'Sed0023107' => 'sed', 'SEGI_10916' => 'sgi', 'SEGI_16217' => 'sgi', 'SEGI_19466' => 'sgi', 'SEGI_41115' => 'sgi', 'SGA_v2.0_scaffold111G31534' => 'sas', 'SGA_v2.0_scaffold22G09864' => 'sas', 'SGA_v2.0_scaffold338G49219' => 'sas', 'SGA_v2.0_scaffold92G28298' => 'sas', 'SMO119G0064' => 'smo', 'SMO223G0038' => 'smo', 'SMO347G0584' => 'smo', 'SMO351G0010' => 'smo', 'SMO356G0404' => 'smo', 'Solyc01g103920.3' => 'sly', 'Solyc04g009710.2' => 'sly', 'Solyc05g055280.2' => 'sly', 'Solyc10g044520.3' => 'sly', 'Solyc10g075160.1' => 'sly', 'Solyc11g006910.3' => 'sly', 'Solyc11g068430.3' => 'sly', 'Sopen01g046310' => 'spe', 'Sopen03g001200' => 'spe', 'Sopen04g004830' => 'spe', 'Sopen05g033720' => 'spe', 'Sopen06g030740' => 'spe', 'Sopen10g013090' => 'spe', 'Sopen10g027630' => 'spe', 'Sopen10g027640' => 'spe', 'Sopen11g002820' => 'spe', 'Sopen11g027140' => 'spe', 'Sp1g09680' => 'spa', 'Sp2g03630' => 'spa', 'Sp4g10320' => 'spa', 'Sp6g33400' => 'spa', 'Sp7g13030' => 'spa', 'TAR365G0317' => 'tar', 'TAR376G0979' => 'tar', 'TAR623G1665' => 'tar', 'TAR633G2373' => 'tar', 'TAR636G1400' => 'tar', 'THA.LOC104800529' => 'tha', 'THA.LOC104808547' => 'tha', 'THA.LOC104809615' => 'tha', 'THA.LOC104815724' => 'tha', 'THA.LOC104818480' => 'tha', 'THA.LOC104819179' => 'tha', 'THA.LOC104822270' => 'tha', 'THA.LOC104826425' => 'tha', 'Thecc.02G089700' => 'tca', 'Thecc.04G232300' => 'tca', 'Thecc.09G283400' => 'tca', 'Thhalv10009020m.g' => 'esa', 'Thhalv10015506m.g' => 'esa', 'Thhalv10017364m.g' => 'esa', 'Thhalv10023742m.g' => 'esa', 'Thhalv10026483m.g' => 'esa', 'TPR.G17232' => 'tpr', 'TPR.G2133' => 'tpr', 'TPR.G2498' => 'tpr', 'TPR.G31942' => 'tpr', 'TPR.G37877' => 'tpr', 'TPR.G4571' => 'tpr', 'TWI14G1113' => 'twi', 'TWI15G0426' => 'twi', 'TWI31G1005' => 'twi', 'TWI38G0513' => 'twi', 'TWI38G1484' => 'twi', 'TWI73G1098' => 'twi', 'unitig_26.g10519' => 'ugi', 'unitig_736.g22395' => 'ugi', 'unitig_747.g21234' => 'ugi', 'unitig_747.g21942' => 'ugi', 'vmacro14351' => 'vma', 'VMungo0540G0082' => 'vmu', 'VMungo0540G0405' => 'vmu', 'VMungo0540G1486' => 'vmu', 'VMungo0540G1692' => 'vmu', 'VMungo0720G2473' => 'vmu', 'VMungo1127G1562' => 'vmu', 'VMungo1215G1918' => 'vmu', 'Zm00001eb052650' => 'zma', 'Zm00001eb063710' => 'zma', 'Zm00001eb083950' => 'zma', 'Zm00001eb174420' => 'zma', 'Zm00001eb260140' => 'zma', 'Zm00001eb260150' => 'zma', 'Zm00001eb260160' => 'zma', 'Zm00001eb348290' => 'zma', 'Zm00001eb366870' => 'zma', 'Zm00001eb421930' => 'zma' ), 'gf_id' => 'HOM05D001025', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001025' ), 'data_identifier' => 'HOM05D001025', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001025', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '592', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p22650' => 'bna', 'A01p29720' => 'bna', 'A03p26560' => 'bna', 'A03p68820' => 'bna', 'A04p20980' => 'bna', 'A06p07730' => 'bna', 'A07p18260' => 'bna', 'A08p33710' => 'bna', 'A09p16970' => 'bna', 'A10p27490' => 'bna', 'Aa31LG1G17300' => 'aar', 'Aa31LG1G3910' => 'aar', 'Aa31LG2G9630' => 'aar', 'Aa31LG5G8360' => 'aar', 'Aa31LG9G2410' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4699' => 'aag', 'Actinidia23512' => 'ach', 'Actinidia37080' => 'ach', 'Ah.01g020380' => 'amhyb', 'Ah.08g215710' => 'amhyb', 'Ah.09g225110' => 'amhyb', 'Ah.10g036680' => 'amhyb', 'AL1G21940' => 'aly', 'AL2G15540' => 'aly', 'AL4G21520' => 'aly', 'AL7G40960' => 'aly', 'Aqoxy2G01191' => 'aox', 'Aqoxy2G03393' => 'aox', 'Aqoxy4G02775' => 'aox', 'Aqoxy6G00058' => 'aox', 'arahy.Tifrunner.gnm1.ann1.9X74H2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CW3FX9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R485W7' => 'arhy', 'AT1G10960' => 'ath', 'AT1G60950' => 'ath', 'AT2G27510' => 'ath', 'AT4G14890' => 'ath', 'AT5G10000' => 'ath', 'ATR0665G624' => 'atr', 'ATR0697G138' => 'atr', 'ATR0776G046' => 'atr', 'ATR1134G135' => 'atr', 'Atru.chr12.1025' => 'acertr', 'Atru.chr3.3241' => 'acertr', 'Atru.chr4.2460' => 'acertr', 'AUR62007427' => 'cqu', 'AUR62010960' => 'cqu', 'AUR62012201' => 'cqu', 'AUR62021470' => 'cqu', 'AUR62022834' => 'cqu', 'AUR62033635' => 'cqu', 'AUR62036186' => 'cqu', 'BcaB01g03077' => 'bca', 'BcaB02g10093' => 'bca', 'BcaB04g20295' => 'bca', 'BcaB06g28147' => 'bca', 'BcaB07g31253' => 'bca', 'BcaC01g04946' => 'bca', 'BcaC02g10614' => 'bca', 'BcaC02g10885' => 'bca', 'BcaC04g19356' => 'bca', 'BcaC04g22297' => 'bca', 'BcaC05g24977' => 'bca', 'BcaC06g31823' => 'bca', 'BcaC07g38633' => 'bca', 'BcaC09g49353' => 'bca', 'BcaC09g50168' => 'bca', 'BcaNung00322' => 'bca', 'BcaNung04769' => 'bca', 'BolC1t02753H' => 'bol', 'BolC1t03721H' => 'bol', 'BolC3t15525H' => 'bol', 'BolC4t23903H' => 'bol', 'BolC4t24231H' => 'bol', 'BolC4t27209H' => 'bol', 'BolC5t29671H' => 'bol', 'BolC8t49044H' => 'bol', 'BolC9t54999H' => 'bol', 'BolC9t59517H' => 'bol', 'BraA01t02178Z' => 'bra', 'BraA01t03099Z' => 'bra', 'BraA03t11867Z' => 'bra', 'BraA04t17667Z' => 'bra', 'BraA07t29542Z' => 'bra', 'BraA08t35287Z' => 'bra', 'BraA09t37334Z' => 'bra', 'BraA10t44801Z' => 'bra', 'BraSC39t46181Z' => 'bra', 'C01p28240' => 'bna', 'C01p37530' => 'bna', 'C03p31820' => 'bna', 'C04p24080' => 'bna', 'C04p25790' => 'bna', 'C04p56770' => 'bna', 'C05p09310' => 'bna', 'C09p21010' => 'bna', 'C09p67560' => 'bna', 'CAN.G1324.7' => 'can', 'CAN.G1358.10' => 'can', 'CAN.G1550.2' => 'can', 'CAN.G186.56' => 'can', 'CAN.G1965.1' => 'can', 'CAN.G645.15' => 'can', 'CAN.G798.26' => 'can', 'CAN.G798.27' => 'can', 'CAN.G798.29' => 'can', 'CAN.G919.31' => 'can', 'CANSAT11G0133' => 'cansat', 'CANSAT11G1171' => 'cansat', 'CANSAT11G2056' => 'cansat', 'CANSAT56G1202' => 'cansat', 'CANSAT56G1514' => 'cansat', 'CANSAT78G0455' => 'cansat', 'CARHR011190' => 'chi', 'CARHR051980' => 'chi', 'CARHR120170' => 'chi', 'CARHR203310' => 'chi', 'CARHR221490' => 'chi', 'Carub.0001s1054' => 'cru', 'Carub.0002s0431' => 'cru', 'Carub.0004s0818' => 'cru', 'Carub.0006s0846' => 'cru', 'Carub.0007s2722' => 'cru', 'Ca_00058_v3' => 'car', 'Ca_17831_v3' => 'car', 'Ca_19408_v3' => 'car', 'Ca_24397_v3' => 'car', 'Ca_25664_v3' => 'car', 'CBR_g21818' => 'cbr', 'CBR_g31195' => 'cbr', 'CBR_g32282' => 'cbr', 'CBR_g39599' => 'cbr', 'CBR_g49410' => 'cbr', 'Cc01_g09120' => 'ccan', 'Cc01_g09130' => 'ccan', 'Cc02_g09630' => 'ccan', 'Cc02_g22810' => 'ccan', 'Cc03_g03810' => 'ccan', 'CDE02G3718' => 'cde', 'CDE04G3183' => 'cde', 'CDE07G1046' => 'cde', 'CDE08G0480' => 'cde', 'Cfa005493' => 'cfa', 'Cfa010312' => 'cfa', 'Cfa015648' => 'cfa', 'Ciclev10002793m.g' => 'ccl', 'Ciclev10003356m.g' => 'ccl', 'Ciclev10006141m.g' => 'ccl', 'Ciclev10016676m.g' => 'ccl', 'Ciclev10017081m.g' => 'ccl', 'Ciclev10029499m.g' => 'ccl', 'CiPaw.01G166300' => 'cil', 'CiPaw.06G145600' => 'cil', 'CiPaw.13G040100' => 'cil', 'CiPaw.13G135800' => 'cil', 'ClCG01G012230' => 'cla', 'ClCG05G009510' => 'cla', 'ClCG08G008270' => 'cla', 'COL.COLO4_11763' => 'col', 'COL.COLO4_19876' => 'col', 'COL.COLO4_21481' => 'col', 'Cpa.g.sc118.34' => 'cpa', 'Cpa.g.sc32.13' => 'cpa', 'Cpa.g.sc58.103' => 'cpa', 'Cre03.g183850' => 'cre', 'Cre06.g306350' => 'cre', 'Cre07.g334800' => 'cre', 'Cre12.g487900' => 'cre', 'Cre14.g626700' => 'cre', 'Cre16.g658400' => 'cre', 'Cre17.g700950' => 'cre', 'CsaV3_1G014830' => 'csa', 'CsaV3_3G013320' => 'csa', 'CsaV3_3G019210' => 'csa', 'CsaV3_3G019220' => 'csa', 'CsaV3_6G004230' => 'csa', 'CSS0003773' => 'camsi', 'CSS0004563' => 'camsi', 'CSS0013949' => 'camsi', 'CSS0025971' => 'camsi', 'CSS0028570' => 'camsi', 'CSS0033127' => 'camsi', 'CSS0036051' => 'camsi', 'CSS0040087' => 'camsi', 'CSS0043179' => 'camsi', 'DCAR_006161' => 'dca', 'DCAR_010351' => 'dca', 'DCAR_012197' => 'dca', 'DCAR_024162' => 'dca', 'Dinv01030' => 'din', 'Dinv10924' => 'din', 'Dinv11835' => 'din', 'Dinv22841' => 'din', 'Dinv42553' => 'din', 'Duzib052G0560' => 'dzi', 'Duzib132G0389' => 'dzi', 'Duzib150G1181' => 'dzi', 'Duzib168G0623' => 'dzi', 'Duzib170G1036' => 'dzi', 'Duzib212G0200' => 'dzi', 'Duzib248G0194' => 'dzi', 'ECA232G2193' => 'eca', 'ECA233G0302' => 'eca', 'ECA234G2813' => 'eca', 'ECA234G4866' => 'eca', 'ECA240G3932' => 'eca', 'ECA248G0385' => 'eca', 'EL10Ac2g04781' => 'bvu', 'EL10Ac3g06445' => 'bvu', 'EL10Ac7g15825' => 'bvu', 'EL10Ac8g18550' => 'bvu', 'Eucgr.B03849' => 'egr', 'Eucgr.I02744' => 'egr', 'Eucgr.J00264' => 'egr', 'Eucgr.J00493' => 'egr', 'FAN04G2181' => 'fan', 'FAN07G2666' => 'fan', 'FAN11G0024' => 'fan', 'FAN12G1105' => 'fan', 'FAN13G0302' => 'fan', 'FAN15G2781' => 'fan', 'FAN16G1274' => 'fan', 'FAN17G2988' => 'fan', 'FAN18G2621' => 'fan', 'FAN21G0013' => 'fan', 'FAN22G1211' => 'fan', 'FAN25G3626' => 'fan', 'FvH4_2g09491' => 'fve', 'FvH4_3g24910' => 'fve', 'FvH4_4g15630' => 'fve', 'FvH4_5g28820' => 'fve', 'Glyma.01G238000' => 'gma', 'Glyma.05G168400' => 'gma', 'Glyma.08G126800' => 'gma', 'Glyma.08G188500' => 'gma', 'Glyma.10G278900' => 'gma', 'Glyma.11G005700' => 'gma', 'Glyma.11G183300' => 'gma', 'Glyma.12G089200' => 'gma', 'Glyma.12G169400' => 'gma', 'Glyma.12G169500' => 'gma', 'Glyma.12G169600' => 'gma', 'Glyma.20G110800' => 'gma', 'Gohir.A03G192900' => 'ghi', 'Gohir.A03G193000' => 'ghi', 'Gohir.A05G080700' => 'ghi', 'Gohir.A09G216000' => 'ghi', 'Gohir.A12G027700' => 'ghi', 'Gohir.A13G036200' => 'ghi', 'Gohir.A13G222600' => 'ghi', 'Gohir.D02G213900' => 'ghi', 'Gohir.D02G214000' => 'ghi', 'Gohir.D05G083700' => 'ghi', 'Gohir.D05G083800' => 'ghi', 'Gohir.D05G083850' => 'ghi', 'Gohir.D08G015400' => 'ghi', 'Gohir.D09G218400' => 'ghi', 'Gohir.D12G027100' => 'ghi', 'Gohir.D13G034500' => 'ghi', 'Gohir.D13G227400' => 'ghi', 'Gorai.005G241800' => 'gra', 'Gorai.005G241900' => 'gra', 'Gorai.006G239400' => 'gra', 'Gorai.008G027600' => 'gra', 'Gorai.009G085400' => 'gra', 'Gorai.009G085500' => 'gra', 'Gorai.013G039000' => 'gra', 'Gorai.013G194800' => 'gra', 'Gorai.013G257900' => 'gra', 'GSVIVG01000982001' => 'vvi', 'GSVIVG01017981001' => 'vvi', 'HanXRQChr01g0024061' => 'han', 'HanXRQChr09g0247831' => 'han', 'HanXRQChr10g0294611' => 'han', 'HanXRQChr10g0294621' => 'han', 'HanXRQChr11g0346821' => 'han', 'HanXRQChr13g0397461' => 'han', 'HanXRQChr16g0513651' => 'han', 'HanXRQChr16g0513701' => 'han', 'Haze_00897' => 'cav', 'Haze_01745' => 'cav', 'Haze_02486' => 'cav', 'Haze_02487' => 'cav', 'Haze_23374' => 'cav', 'Hma1.2p1_0578F.1_g182520' => 'hma', 'Hma1.2p1_0602F.1_g187350' => 'hma', 'Hma1.2p1_0602F.1_g187360' => 'hma', 'Hma1.2p1_0874F.1_g231320' => 'hma', 'Hma1.2p1_1197F.1_g266210' => 'hma', 'Hma1.2p1_1197F.1_g266220' => 'hma', 'Hma1.2p1_2167F.1_g315895' => 'hma', 'Hma1.2p1_2190F.1_g316640' => 'hma', 'Hma1.2p1_3645F.1_g337153' => 'hma', 'HPP92_004907' => 'vpl', 'HPP92_012134' => 'vpl', 'HPP92_025136' => 'vpl', 'HPP92_026087' => 'vpl', 'Hund06782' => 'sun', 'Hund06784' => 'sun', 'Lalb_Chr01g0004861' => 'lal', 'Lalb_Chr02g0140591' => 'lal', 'Lalb_Chr02g0140611' => 'lal', 'Lalb_Chr03g0028101' => 'lal', 'Lalb_Chr07g0185791' => 'lal', 'Lalb_Chr12g0204491' => 'lal', 'Lalb_Chr13g0295671' => 'lal', 'Lalb_Chr19g0136461' => 'lal', 'Lalb_Chr21g0309191' => 'lal', 'Lj1g0028158' => 'lja', 'Lj1P236T38' => 'lonja', 'Lj2C32G2' => 'lonja', 'Lj2P944T8' => 'lonja', 'Lj2P963T15' => 'lonja', 'Lj3g0011788' => 'lja', 'Lj4g0025027' => 'lja', 'Lj5P255T36' => 'lonja', 'Lj6g0018866' => 'lja', 'Lj6P608T31' => 'lonja', 'LjContig00408g0008879' => 'lja', 'Lsat_1_v5_gn_5_105820' => 'lsa', 'Lsat_1_v5_gn_6_38800' => 'lsa', 'Lsat_1_v5_gn_7_67141' => 'lsa', 'Manes.04G003400' => 'mes', 'Manes.07G020000' => 'mes', 'Manes.07G020100' => 'mes', 'Manes.07G020150' => 'mes', 'Manes.10G061500' => 'mes', 'Manes.10G123200' => 'mes', 'Manes.11G161900' => 'mes', 'Manes.15G029300' => 'mes', 'Mapoly0071s0018' => 'mpo', 'Mapoly0082s0023' => 'mpo', 'Mapoly3477s0001' => 'mpo', 'MBI05_g31233_MAGBIO' => 'mbi', 'MBI09_g05946_MAGBIO' => 'mbi', 'MBI09_g05947_MAGBIO' => 'mbi', 'MBI17_g08346_MAGBIO' => 'mbi', 'MCO04G038' => 'mco', 'MCO09G370' => 'mco', 'MCO13G605' => 'mco', 'MD00G1075500' => 'mdo', 'MD03G1144300' => 'mdo', 'MD08G1236800' => 'mdo', 'MD13G1193300' => 'mdo', 'MD15G1428700' => 'mdo', 'Medtr1g112030' => 'mtr', 'Medtr1g112050' => 'mtr', 'Medtr2g006290' => 'mtr', 'Medtr2g086510' => 'mtr', 'Medtr4g053120' => 'mtr', 'Medtr5g006320' => 'mtr', 'Medtr8g088720' => 'mtr', 'MELO3C004712.2' => 'cme', 'MELO3C006533.2' => 'cme', 'MELO3C019438.2' => 'cme', 'MELO3C019440.2' => 'cme', 'MELO3C019441.2' => 'cme', 'MELO3C019895.2' => 'cme', 'Migut.B00811' => 'egut', 'Migut.D02447' => 'egut', 'Migut.F00875' => 'egut', 'Migut.N00186' => 'egut', 'Migut.N01051' => 'egut', 'Migut.N02491' => 'egut', 'Migut.O00784' => 'egut', 'MSTRG.12367' => 'ama', 'MSTRG.18756' => 'ama', 'MSTRG.21042' => 'ama', 'Nitab4.5_0000559g0040' => 'nta', 'Nitab4.5_0000667g0190' => 'nta', 'Nitab4.5_0000755g0160' => 'nta', 'Nitab4.5_0001216g0080' => 'nta', 'Nitab4.5_0004069g0040' => 'nta', 'Nitab4.5_0004129g0010' => 'nta', 'Nitab4.5_0005744g0030' => 'nta', 'Nitab4.5_0006996g0030' => 'nta', 'Nitab4.5_0008971g0040' => 'nta', 'Nitab4.5_0009769g0020' => 'nta', 'Nitab4.5_0009833g0010' => 'nta', 'Nitab4.5_0013140g0020' => 'nta', 'Nn003s41376' => 'nnu', 'Nn1g01857' => 'nnu', 'Nn1g03611' => 'nnu', 'Nn1g06853' => 'nnu', 'Nn3g18360' => 'nnu', 'Nn4g26328' => 'nnu', 'Nn5g27531' => 'nnu', 'Nn6g34899' => 'nnu', 'Nn7g36299' => 'nnu', 'Oeu021485.1' => 'oeu', 'Oeu022433.1' => 'oeu', 'Oeu032111.1' => 'oeu', 'Oeu051608.1' => 'oeu', 'Os01g0860601' => 'osa', 'Os03g0659200' => 'osa', 'Os03g0835900' => 'osa', 'Os04g0412200' => 'osa', 'Os05g0443500' => 'osa', 'Os07g0251500' => 'osa', 'Os08g0104600' => 'osa', 'Peaxi162Scf00003g00047' => 'pax', 'Peaxi162Scf00003g00052' => 'pax', 'Peaxi162Scf00003g00394' => 'pax', 'Peaxi162Scf00091g00621' => 'pax', 'Peaxi162Scf00152g00146' => 'pax', 'Peaxi162Scf00173g00025' => 'pax', 'Peaxi162Scf00195g00102' => 'pax', 'Peaxi162Scf00402g00013' => 'pax', 'Peaxi162Scf00519g00618' => 'pax', 'PGR004G2838' => 'pgr', 'PGR044G2275' => 'pgr', 'PGR102G1377' => 'pgr', 'PGR119G1245' => 'pgr', 'PGR142G4449' => 'pgr', 'PGSC0003DMG400004532' => 'stu', 'PGSC0003DMG400011950' => 'stu', 'PGSC0003DMG400023391' => 'stu', 'PGSC0003DMG400023985' => 'stu', 'PGSC0003DMG400026360' => 'stu', 'PGSC0003DMG400035711' => 'stu', 'PGSC0003DMG400037286' => 'stu', 'PGSC0003DMG402005881' => 'stu', 'Phvul.002G045400' => 'pvu', 'Phvul.006G216600' => 'pvu', 'Phvul.006G216700' => 'pvu', 'Phvul.006G216800' => 'pvu', 'Phvul.007G022500' => 'pvu', 'Phvul.011G094400' => 'pvu', 'Potri.001G470700' => 'ptr', 'Potri.003G015200' => 'ptr', 'Potri.004G202500' => 'ptr', 'Potri.004G218400' => 'ptr', 'Potri.008G020100' => 'ptr', 'Potri.008G153200' => 'ptr', 'Potri.009G163800' => 'ptr', 'Potri.010G087300' => 'ptr', 'Potri.010G239100' => 'ptr', 'Pp3c10_16100' => 'ppa', 'Pp3c10_16880' => 'ppa', 'Pp3c16_6230' => 'ppa', 'Pp3c17_18910' => 'ppa', 'Pp3c3_22119' => 'ppa', 'Pp3c3_22140' => 'ppa', 'Pp3c4_8159' => 'ppa', 'Pp3c4_8171' => 'ppa', 'Pp3c4_8330' => 'ppa', 'PRCOL_00004098' => 'pco', 'Prupe.1G013900' => 'ppe', 'Prupe.1G226300' => 'ppe', 'Prupe.1G573600' => 'ppe', 'Prupe.6G130100' => 'ppe', 'Psat3g090040' => 'psa', 'Psat4g210440' => 'psa', 'Psat6g231040' => 'psa', 'Psat6g231080' => 'psa', 'Psat7g063000' => 'psa', 'Psat7g188000' => 'psa', 'Psat7g188040' => 'psa', 'PSO017G0206' => 'pso', 'PSO170G0501' => 'pso', 'PSO170G6422' => 'pso', 'PSO210G7739' => 'pso', 'PSO339G1808' => 'pso', 'PSO339G6135' => 'pso', 'PSO384G0010' => 'pso', 'PSO384G0964' => 'pso', 'PSO761G0050' => 'pso', 'PSO782G4085' => 'pso', 'QL01p012264' => 'qlo', 'QL02p099491' => 'qlo', 'QL03p033868' => 'qlo', 'QL04p046678' => 'qlo', 'QL06p002448' => 'qlo', 'RcHm_v2.0_Chr4g0416181' => 'rch', 'RcHm_v2.0_Chr5g0044701' => 'rch', 'RcHm_v2.0_Chr6g0265781' => 'rch', 'RcHm_v2.0_Chr7g0221031' => 'rch', 'Rhsim04G0202000' => 'rsi', 'Rhsim11G0127300' => 'rsi', 'Rhsim13G0111800' => 'rsi', 'Sabra01G0165600' => 'sbr', 'Sabra03G0008300' => 'sbr', 'Sabra04G0136900' => 'sbr', 'Sabra08G0013400' => 'sbr', 'Sabra08G0116800' => 'sbr', 'Sabra09G0128000' => 'sbr', 'Sabra10G0055500' => 'sbr', 'Sabra10G0073300' => 'sbr', 'SalBow3G0385' => 'sbo', 'SalBow3G1119' => 'sbo', 'SalBow3G2005' => 'sbo', 'SalBow6G2563' => 'sbo', 'SalBow6G6386' => 'sbo', 'Sc06g0008800' => 'sci', 'Sc07g0004950' => 'sci', 'Sc09g0005340' => 'sci', 'Sc13g0004410' => 'sci', 'Sc21g0007090' => 'sci', 'Sed0009285' => 'sed', 'Sed0017583' => 'sed', 'Sed0019699' => 'sed', 'Sed0023107' => 'sed', 'SEGI_10916' => 'sgi', 'SEGI_16217' => 'sgi', 'SEGI_19466' => 'sgi', 'SEGI_41115' => 'sgi', 'SGA_v2.0_scaffold111G31534' => 'sas', 'SGA_v2.0_scaffold22G09864' => 'sas', 'SGA_v2.0_scaffold338G49219' => 'sas', 'SGA_v2.0_scaffold92G28298' => 'sas', 'SMO119G0064' => 'smo', 'SMO223G0038' => 'smo', 'SMO347G0584' => 'smo', 'SMO351G0010' => 'smo', 'SMO356G0404' => 'smo', 'Solyc01g103920.3' => 'sly', 'Solyc04g009710.2' => 'sly', 'Solyc05g055280.2' => 'sly', 'Solyc10g044520.3' => 'sly', 'Solyc10g075160.1' => 'sly', 'Solyc11g006910.3' => 'sly', 'Solyc11g068430.3' => 'sly', 'Sopen01g046310' => 'spe', 'Sopen03g001200' => 'spe', 'Sopen04g004830' => 'spe', 'Sopen05g033720' => 'spe', 'Sopen06g030740' => 'spe', 'Sopen10g013090' => 'spe', 'Sopen10g027630' => 'spe', 'Sopen10g027640' => 'spe', 'Sopen11g002820' => 'spe', 'Sopen11g027140' => 'spe', 'Sp1g09680' => 'spa', 'Sp2g03630' => 'spa', 'Sp4g10320' => 'spa', 'Sp6g33400' => 'spa', 'Sp7g13030' => 'spa', 'TAR365G0317' => 'tar', 'TAR376G0979' => 'tar', 'TAR623G1665' => 'tar', 'TAR633G2373' => 'tar', 'TAR636G1400' => 'tar', 'THA.LOC104800529' => 'tha', 'THA.LOC104808547' => 'tha', 'THA.LOC104809615' => 'tha', 'THA.LOC104815724' => 'tha', 'THA.LOC104818480' => 'tha', 'THA.LOC104819179' => 'tha', 'THA.LOC104822270' => 'tha', 'THA.LOC104826425' => 'tha', 'Thecc.02G089700' => 'tca', 'Thecc.04G232300' => 'tca', 'Thecc.09G283400' => 'tca', 'Thhalv10009020m.g' => 'esa', 'Thhalv10015506m.g' => 'esa', 'Thhalv10017364m.g' => 'esa', 'Thhalv10023742m.g' => 'esa', 'Thhalv10026483m.g' => 'esa', 'TPR.G17232' => 'tpr', 'TPR.G2133' => 'tpr', 'TPR.G2498' => 'tpr', 'TPR.G31942' => 'tpr', 'TPR.G37877' => 'tpr', 'TPR.G4571' => 'tpr', 'TWI14G1113' => 'twi', 'TWI15G0426' => 'twi', 'TWI31G1005' => 'twi', 'TWI38G0513' => 'twi', 'TWI38G1484' => 'twi', 'TWI73G1098' => 'twi', 'unitig_26.g10519' => 'ugi', 'unitig_736.g22395' => 'ugi', 'unitig_747.g21234' => 'ugi', 'unitig_747.g21942' => 'ugi', 'vmacro14351' => 'vma', 'VMungo0540G0082' => 'vmu', 'VMungo0540G0405' => 'vmu', 'VMungo0540G1486' => 'vmu', 'VMungo0540G1692' => 'vmu', 'VMungo0720G2473' => 'vmu', 'VMungo1127G1562' => 'vmu', 'VMungo1215G1918' => 'vmu', 'Zm00001eb052650' => 'zma', 'Zm00001eb063710' => 'zma', 'Zm00001eb083950' => 'zma', 'Zm00001eb174420' => 'zma', 'Zm00001eb260140' => 'zma', 'Zm00001eb260150' => 'zma', 'Zm00001eb260160' => 'zma', 'Zm00001eb348290' => 'zma', 'Zm00001eb366870' => 'zma', 'Zm00001eb421930' => 'zma' ) $gf_id = 'HOM05D001025' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001025' ) $data_identifier = 'HOM05D001025' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 19, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 2, 'amhyb' => (int) 4, 'aly' => (int) 4, 'aox' => (int) 4, 'arhy' => (int) 3, 'ath' => (int) 5, 'atr' => (int) 4, 'acertr' => (int) 3, 'cqu' => (int) 7, 'bca' => (int) 17, 'bol' => (int) 10, 'bra' => (int) 9, 'can' => (int) 10, 'cansat' => (int) 6, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 5, 'cbr' => (int) 5, 'ccan' => (int) 5, 'cde' => (int) 4, 'cfa' => (int) 3, 'ccl' => (int) 6, 'cil' => (int) 4, 'cla' => (int) 3, 'col' => (int) 3, 'cpa' => (int) 3, 'cre' => (int) 7, 'csa' => (int) 5, 'camsi' => (int) 9, 'dca' => (int) 4, 'din' => (int) 5, 'dzi' => (int) 7, 'eca' => (int) 6, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 12, 'fve' => (int) 4, 'gma' => (int) 12, 'ghi' => (int) 17, 'gra' => (int) 9, 'vvi' => (int) 2, 'han' => (int) 8, 'cav' => (int) 5, 'hma' => (int) 9, 'vpl' => (int) 4, 'sun' => (int) 2, 'lal' => (int) 9, 'lja' => (int) 5, 'lonja' => (int) 6, 'lsa' => (int) 3, 'mes' => (int) 8, 'mpo' => (int) 3, 'mbi' => (int) 4, 'mco' => (int) 3, 'mdo' => (int) 5, 'mtr' => (int) 7, 'cme' => (int) 6, 'egut' => (int) 7, 'ama' => (int) 3, 'nta' => (int) 12, 'nnu' => (int) 9, 'oeu' => (int) 4, 'osa' => (int) 7, 'pax' => (int) 9, 'pgr' => (int) 5, 'stu' => (int) 8, 'pvu' => (int) 6, 'ptr' => (int) 9, 'ppa' => (int) 9, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 7, 'pso' => (int) 10, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 3, 'sbr' => (int) 8, 'sbo' => (int) 5, 'sci' => (int) 5, 'sed' => (int) 4, 'sgi' => (int) 4, 'sas' => (int) 4, 'smo' => (int) 5, 'sly' => (int) 7, 'spe' => (int) 10, 'spa' => (int) 5, 'tar' => (int) 5, 'tha' => (int) 8, 'tca' => (int) 3, 'esa' => (int) 5, 'tpr' => (int) 6, 'twi' => (int) 6, 'ugi' => (int) 4, 'vma' => (int) 1, 'vmu' => (int) 7, 'zma' => (int) 10 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb421930' $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' => 'HOM05D001025', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '592', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p22650' => 'bna', 'A01p29720' => 'bna', 'A03p26560' => 'bna', 'A03p68820' => 'bna', 'A04p20980' => 'bna', 'A06p07730' => 'bna', 'A07p18260' => 'bna', 'A08p33710' => 'bna', 'A09p16970' => 'bna', 'A10p27490' => 'bna', 'Aa31LG1G17300' => 'aar', 'Aa31LG1G3910' => 'aar', 'Aa31LG2G9630' => 'aar', 'Aa31LG5G8360' => 'aar', 'Aa31LG9G2410' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4699' => 'aag', 'Actinidia23512' => 'ach', 'Actinidia37080' => 'ach', 'Ah.01g020380' => 'amhyb', 'Ah.08g215710' => 'amhyb', 'Ah.09g225110' => 'amhyb', 'Ah.10g036680' => 'amhyb', 'AL1G21940' => 'aly', 'AL2G15540' => 'aly', 'AL4G21520' => 'aly', 'AL7G40960' => 'aly', 'Aqoxy2G01191' => 'aox', 'Aqoxy2G03393' => 'aox', 'Aqoxy4G02775' => 'aox', 'Aqoxy6G00058' => 'aox', 'arahy.Tifrunner.gnm1.ann1.9X74H2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CW3FX9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R485W7' => 'arhy', 'AT1G10960' => 'ath', 'AT1G60950' => 'ath', 'AT2G27510' => 'ath', 'AT4G14890' => 'ath', 'AT5G10000' => 'ath', 'ATR0665G624' => 'atr', 'ATR0697G138' => 'atr', 'ATR0776G046' => 'atr', 'ATR1134G135' => 'atr', 'Atru.chr12.1025' => 'acertr', 'Atru.chr3.3241' => 'acertr', 'Atru.chr4.2460' => 'acertr', 'AUR62007427' => 'cqu', 'AUR62010960' => 'cqu', 'AUR62012201' => 'cqu', 'AUR62021470' => 'cqu', 'AUR62022834' => 'cqu', 'AUR62033635' => 'cqu', 'AUR62036186' => 'cqu', 'BcaB01g03077' => 'bca', 'BcaB02g10093' => 'bca', 'BcaB04g20295' => 'bca', 'BcaB06g28147' => 'bca', 'BcaB07g31253' => 'bca', 'BcaC01g04946' => 'bca', 'BcaC02g10614' => 'bca', 'BcaC02g10885' => 'bca', 'BcaC04g19356' => 'bca', 'BcaC04g22297' => 'bca', 'BcaC05g24977' => 'bca', 'BcaC06g31823' => 'bca', 'BcaC07g38633' => 'bca', 'BcaC09g49353' => 'bca', 'BcaC09g50168' => 'bca', 'BcaNung00322' => 'bca', 'BcaNung04769' => 'bca', 'BolC1t02753H' => 'bol', 'BolC1t03721H' => 'bol', 'BolC3t15525H' => 'bol', 'BolC4t23903H' => 'bol', 'BolC4t24231H' => 'bol', 'BolC4t27209H' => 'bol', 'BolC5t29671H' => 'bol', 'BolC8t49044H' => 'bol', 'BolC9t54999H' => 'bol', 'BolC9t59517H' => 'bol', 'BraA01t02178Z' => 'bra', 'BraA01t03099Z' => 'bra', 'BraA03t11867Z' => 'bra', 'BraA04t17667Z' => 'bra', 'BraA07t29542Z' => 'bra', 'BraA08t35287Z' => 'bra', 'BraA09t37334Z' => 'bra', 'BraA10t44801Z' => 'bra', 'BraSC39t46181Z' => 'bra', 'C01p28240' => 'bna', 'C01p37530' => 'bna', 'C03p31820' => 'bna', 'C04p24080' => 'bna', 'C04p25790' => 'bna', 'C04p56770' => 'bna', 'C05p09310' => 'bna', 'C09p21010' => 'bna', 'C09p67560' => 'bna', 'CAN.G1324.7' => 'can', 'CAN.G1358.10' => 'can', 'CAN.G1550.2' => 'can', 'CAN.G186.56' => 'can', 'CAN.G1965.1' => 'can', 'CAN.G645.15' => 'can', 'CAN.G798.26' => 'can', 'CAN.G798.27' => 'can', 'CAN.G798.29' => 'can', 'CAN.G919.31' => 'can', 'CANSAT11G0133' => 'cansat', 'CANSAT11G1171' => 'cansat', 'CANSAT11G2056' => 'cansat', 'CANSAT56G1202' => 'cansat', 'CANSAT56G1514' => 'cansat', 'CANSAT78G0455' => 'cansat', 'CARHR011190' => 'chi', 'CARHR051980' => 'chi', 'CARHR120170' => 'chi', 'CARHR203310' => 'chi', 'CARHR221490' => 'chi', 'Carub.0001s1054' => 'cru', 'Carub.0002s0431' => 'cru', 'Carub.0004s0818' => 'cru', 'Carub.0006s0846' => 'cru', 'Carub.0007s2722' => 'cru', 'Ca_00058_v3' => 'car', 'Ca_17831_v3' => 'car', 'Ca_19408_v3' => 'car', 'Ca_24397_v3' => 'car', 'Ca_25664_v3' => 'car', 'CBR_g21818' => 'cbr', 'CBR_g31195' => 'cbr', 'CBR_g32282' => 'cbr', 'CBR_g39599' => 'cbr', 'CBR_g49410' => 'cbr', 'Cc01_g09120' => 'ccan', 'Cc01_g09130' => 'ccan', 'Cc02_g09630' => 'ccan', 'Cc02_g22810' => 'ccan', 'Cc03_g03810' => 'ccan', 'CDE02G3718' => 'cde', 'CDE04G3183' => 'cde', 'CDE07G1046' => 'cde', 'CDE08G0480' => 'cde', 'Cfa005493' => 'cfa', 'Cfa010312' => 'cfa', 'Cfa015648' => 'cfa', 'Ciclev10002793m.g' => 'ccl', 'Ciclev10003356m.g' => 'ccl', 'Ciclev10006141m.g' => 'ccl', 'Ciclev10016676m.g' => 'ccl', 'Ciclev10017081m.g' => 'ccl', 'Ciclev10029499m.g' => 'ccl', 'CiPaw.01G166300' => 'cil', 'CiPaw.06G145600' => 'cil', 'CiPaw.13G040100' => 'cil', 'CiPaw.13G135800' => 'cil', 'ClCG01G012230' => 'cla', 'ClCG05G009510' => 'cla', 'ClCG08G008270' => 'cla', 'COL.COLO4_11763' => 'col', 'COL.COLO4_19876' => 'col', 'COL.COLO4_21481' => 'col', 'Cpa.g.sc118.34' => 'cpa', 'Cpa.g.sc32.13' => 'cpa', 'Cpa.g.sc58.103' => 'cpa', 'Cre03.g183850' => 'cre', 'Cre06.g306350' => 'cre', 'Cre07.g334800' => 'cre', 'Cre12.g487900' => 'cre', 'Cre14.g626700' => 'cre', 'Cre16.g658400' => 'cre', 'Cre17.g700950' => 'cre', 'CsaV3_1G014830' => 'csa', 'CsaV3_3G013320' => 'csa', 'CsaV3_3G019210' => 'csa', 'CsaV3_3G019220' => 'csa', 'CsaV3_6G004230' => 'csa', 'CSS0003773' => 'camsi', 'CSS0004563' => 'camsi', 'CSS0013949' => 'camsi', 'CSS0025971' => 'camsi', 'CSS0028570' => 'camsi', 'CSS0033127' => 'camsi', 'CSS0036051' => 'camsi', 'CSS0040087' => 'camsi', 'CSS0043179' => 'camsi', 'DCAR_006161' => 'dca', 'DCAR_010351' => 'dca', 'DCAR_012197' => 'dca', 'DCAR_024162' => 'dca', 'Dinv01030' => 'din', 'Dinv10924' => 'din', 'Dinv11835' => 'din', 'Dinv22841' => 'din', 'Dinv42553' => 'din', 'Duzib052G0560' => 'dzi', 'Duzib132G0389' => 'dzi', 'Duzib150G1181' => 'dzi', 'Duzib168G0623' => 'dzi', 'Duzib170G1036' => 'dzi', 'Duzib212G0200' => 'dzi', 'Duzib248G0194' => 'dzi', 'ECA232G2193' => 'eca', 'ECA233G0302' => 'eca', 'ECA234G2813' => 'eca', 'ECA234G4866' => 'eca', 'ECA240G3932' => 'eca', 'ECA248G0385' => 'eca', 'EL10Ac2g04781' => 'bvu', 'EL10Ac3g06445' => 'bvu', 'EL10Ac7g15825' => 'bvu', 'EL10Ac8g18550' => 'bvu', 'Eucgr.B03849' => 'egr', 'Eucgr.I02744' => 'egr', 'Eucgr.J00264' => 'egr', 'Eucgr.J00493' => 'egr', 'FAN04G2181' => 'fan', 'FAN07G2666' => 'fan', 'FAN11G0024' => 'fan', 'FAN12G1105' => 'fan', 'FAN13G0302' => 'fan', 'FAN15G2781' => 'fan', 'FAN16G1274' => 'fan', 'FAN17G2988' => 'fan', 'FAN18G2621' => 'fan', 'FAN21G0013' => 'fan', 'FAN22G1211' => 'fan', 'FAN25G3626' => 'fan', 'FvH4_2g09491' => 'fve', 'FvH4_3g24910' => 'fve', 'FvH4_4g15630' => 'fve', 'FvH4_5g28820' => 'fve', 'Glyma.01G238000' => 'gma', 'Glyma.05G168400' => 'gma', 'Glyma.08G126800' => 'gma', 'Glyma.08G188500' => 'gma', 'Glyma.10G278900' => 'gma', 'Glyma.11G005700' => 'gma', 'Glyma.11G183300' => 'gma', 'Glyma.12G089200' => 'gma', 'Glyma.12G169400' => 'gma', 'Glyma.12G169500' => 'gma', 'Glyma.12G169600' => 'gma', 'Glyma.20G110800' => 'gma', 'Gohir.A03G192900' => 'ghi', 'Gohir.A03G193000' => 'ghi', 'Gohir.A05G080700' => 'ghi', 'Gohir.A09G216000' => 'ghi', 'Gohir.A12G027700' => 'ghi', 'Gohir.A13G036200' => 'ghi', 'Gohir.A13G222600' => 'ghi', 'Gohir.D02G213900' => 'ghi', 'Gohir.D02G214000' => 'ghi', 'Gohir.D05G083700' => 'ghi', 'Gohir.D05G083800' => 'ghi', 'Gohir.D05G083850' => 'ghi', 'Gohir.D08G015400' => 'ghi', 'Gohir.D09G218400' => 'ghi', 'Gohir.D12G027100' => 'ghi', 'Gohir.D13G034500' => 'ghi', 'Gohir.D13G227400' => 'ghi', 'Gorai.005G241800' => 'gra', 'Gorai.005G241900' => 'gra', 'Gorai.006G239400' => 'gra', 'Gorai.008G027600' => 'gra', 'Gorai.009G085400' => 'gra', 'Gorai.009G085500' => 'gra', 'Gorai.013G039000' => 'gra', 'Gorai.013G194800' => 'gra', 'Gorai.013G257900' => 'gra', 'GSVIVG01000982001' => 'vvi', 'GSVIVG01017981001' => 'vvi', 'HanXRQChr01g0024061' => 'han', 'HanXRQChr09g0247831' => 'han', 'HanXRQChr10g0294611' => 'han', 'HanXRQChr10g0294621' => 'han', 'HanXRQChr11g0346821' => 'han', 'HanXRQChr13g0397461' => 'han', 'HanXRQChr16g0513651' => 'han', 'HanXRQChr16g0513701' => 'han', 'Haze_00897' => 'cav', 'Haze_01745' => 'cav', 'Haze_02486' => 'cav', 'Haze_02487' => 'cav', 'Haze_23374' => 'cav', 'Hma1.2p1_0578F.1_g182520' => 'hma', 'Hma1.2p1_0602F.1_g187350' => 'hma', 'Hma1.2p1_0602F.1_g187360' => 'hma', 'Hma1.2p1_0874F.1_g231320' => 'hma', 'Hma1.2p1_1197F.1_g266210' => 'hma', 'Hma1.2p1_1197F.1_g266220' => 'hma', 'Hma1.2p1_2167F.1_g315895' => 'hma', 'Hma1.2p1_2190F.1_g316640' => 'hma', 'Hma1.2p1_3645F.1_g337153' => 'hma', 'HPP92_004907' => 'vpl', 'HPP92_012134' => 'vpl', 'HPP92_025136' => 'vpl', 'HPP92_026087' => 'vpl', 'Hund06782' => 'sun', 'Hund06784' => 'sun', 'Lalb_Chr01g0004861' => 'lal', 'Lalb_Chr02g0140591' => 'lal', 'Lalb_Chr02g0140611' => 'lal', 'Lalb_Chr03g0028101' => 'lal', 'Lalb_Chr07g0185791' => 'lal', 'Lalb_Chr12g0204491' => 'lal', 'Lalb_Chr13g0295671' => 'lal', 'Lalb_Chr19g0136461' => 'lal', 'Lalb_Chr21g0309191' => 'lal', 'Lj1g0028158' => 'lja', 'Lj1P236T38' => 'lonja', 'Lj2C32G2' => 'lonja', 'Lj2P944T8' => 'lonja', 'Lj2P963T15' => 'lonja', 'Lj3g0011788' => 'lja', 'Lj4g0025027' => 'lja', 'Lj5P255T36' => 'lonja', 'Lj6g0018866' => 'lja', 'Lj6P608T31' => 'lonja', 'LjContig00408g0008879' => 'lja', 'Lsat_1_v5_gn_5_105820' => 'lsa', 'Lsat_1_v5_gn_6_38800' => 'lsa', 'Lsat_1_v5_gn_7_67141' => 'lsa', 'Manes.04G003400' => 'mes', 'Manes.07G020000' => 'mes', 'Manes.07G020100' => 'mes', 'Manes.07G020150' => 'mes', 'Manes.10G061500' => 'mes', 'Manes.10G123200' => 'mes', 'Manes.11G161900' => 'mes', 'Manes.15G029300' => 'mes', 'Mapoly0071s0018' => 'mpo', 'Mapoly0082s0023' => 'mpo', 'Mapoly3477s0001' => 'mpo', 'MBI05_g31233_MAGBIO' => 'mbi', 'MBI09_g05946_MAGBIO' => 'mbi', 'MBI09_g05947_MAGBIO' => 'mbi', 'MBI17_g08346_MAGBIO' => 'mbi', 'MCO04G038' => 'mco', 'MCO09G370' => 'mco', 'MCO13G605' => 'mco', 'MD00G1075500' => 'mdo', 'MD03G1144300' => 'mdo', 'MD08G1236800' => 'mdo', 'MD13G1193300' => 'mdo', 'MD15G1428700' => 'mdo', 'Medtr1g112030' => 'mtr', 'Medtr1g112050' => 'mtr', 'Medtr2g006290' => 'mtr', 'Medtr2g086510' => 'mtr', 'Medtr4g053120' => 'mtr', 'Medtr5g006320' => 'mtr', 'Medtr8g088720' => 'mtr', 'MELO3C004712.2' => 'cme', 'MELO3C006533.2' => 'cme', 'MELO3C019438.2' => 'cme', 'MELO3C019440.2' => 'cme', 'MELO3C019441.2' => 'cme', 'MELO3C019895.2' => 'cme', 'Migut.B00811' => 'egut', 'Migut.D02447' => 'egut', 'Migut.F00875' => 'egut', 'Migut.N00186' => 'egut', 'Migut.N01051' => 'egut', 'Migut.N02491' => 'egut', 'Migut.O00784' => 'egut', 'MSTRG.12367' => 'ama', 'MSTRG.18756' => 'ama', 'MSTRG.21042' => 'ama', 'Nitab4.5_0000559g0040' => 'nta', 'Nitab4.5_0000667g0190' => 'nta', 'Nitab4.5_0000755g0160' => 'nta', 'Nitab4.5_0001216g0080' => 'nta', 'Nitab4.5_0004069g0040' => 'nta', 'Nitab4.5_0004129g0010' => 'nta', 'Nitab4.5_0005744g0030' => 'nta', 'Nitab4.5_0006996g0030' => 'nta', 'Nitab4.5_0008971g0040' => 'nta', 'Nitab4.5_0009769g0020' => 'nta', 'Nitab4.5_0009833g0010' => 'nta', 'Nitab4.5_0013140g0020' => 'nta', 'Nn003s41376' => 'nnu', 'Nn1g01857' => 'nnu', 'Nn1g03611' => 'nnu', 'Nn1g06853' => 'nnu', 'Nn3g18360' => 'nnu', 'Nn4g26328' => 'nnu', 'Nn5g27531' => 'nnu', 'Nn6g34899' => 'nnu', 'Nn7g36299' => 'nnu', 'Oeu021485.1' => 'oeu', 'Oeu022433.1' => 'oeu', 'Oeu032111.1' => 'oeu', 'Oeu051608.1' => 'oeu', 'Os01g0860601' => 'osa', 'Os03g0659200' => 'osa', 'Os03g0835900' => 'osa', 'Os04g0412200' => 'osa', 'Os05g0443500' => 'osa', 'Os07g0251500' => 'osa', 'Os08g0104600' => 'osa', 'Peaxi162Scf00003g00047' => 'pax', 'Peaxi162Scf00003g00052' => 'pax', 'Peaxi162Scf00003g00394' => 'pax', 'Peaxi162Scf00091g00621' => 'pax', 'Peaxi162Scf00152g00146' => 'pax', 'Peaxi162Scf00173g00025' => 'pax', 'Peaxi162Scf00195g00102' => 'pax', 'Peaxi162Scf00402g00013' => 'pax', 'Peaxi162Scf00519g00618' => 'pax', 'PGR004G2838' => 'pgr', 'PGR044G2275' => 'pgr', 'PGR102G1377' => 'pgr', 'PGR119G1245' => 'pgr', 'PGR142G4449' => 'pgr', 'PGSC0003DMG400004532' => 'stu', 'PGSC0003DMG400011950' => 'stu', 'PGSC0003DMG400023391' => 'stu', 'PGSC0003DMG400023985' => 'stu', 'PGSC0003DMG400026360' => 'stu', 'PGSC0003DMG400035711' => 'stu', 'PGSC0003DMG400037286' => 'stu', 'PGSC0003DMG402005881' => 'stu', 'Phvul.002G045400' => 'pvu', 'Phvul.006G216600' => 'pvu', 'Phvul.006G216700' => 'pvu', 'Phvul.006G216800' => 'pvu', 'Phvul.007G022500' => 'pvu', 'Phvul.011G094400' => 'pvu', 'Potri.001G470700' => 'ptr', 'Potri.003G015200' => 'ptr', 'Potri.004G202500' => 'ptr', 'Potri.004G218400' => 'ptr', 'Potri.008G020100' => 'ptr', 'Potri.008G153200' => 'ptr', 'Potri.009G163800' => 'ptr', 'Potri.010G087300' => 'ptr', 'Potri.010G239100' => 'ptr', 'Pp3c10_16100' => 'ppa', 'Pp3c10_16880' => 'ppa', 'Pp3c16_6230' => 'ppa', 'Pp3c17_18910' => 'ppa', 'Pp3c3_22119' => 'ppa', 'Pp3c3_22140' => 'ppa', 'Pp3c4_8159' => 'ppa', 'Pp3c4_8171' => 'ppa', 'Pp3c4_8330' => 'ppa', 'PRCOL_00004098' => 'pco', 'Prupe.1G013900' => 'ppe', 'Prupe.1G226300' => 'ppe', 'Prupe.1G573600' => 'ppe', 'Prupe.6G130100' => 'ppe', 'Psat3g090040' => 'psa', 'Psat4g210440' => 'psa', 'Psat6g231040' => 'psa', 'Psat6g231080' => 'psa', 'Psat7g063000' => 'psa', 'Psat7g188000' => 'psa', 'Psat7g188040' => 'psa', 'PSO017G0206' => 'pso', 'PSO170G0501' => 'pso', 'PSO170G6422' => 'pso', 'PSO210G7739' => 'pso', 'PSO339G1808' => 'pso', 'PSO339G6135' => 'pso', 'PSO384G0010' => 'pso', 'PSO384G0964' => 'pso', 'PSO761G0050' => 'pso', 'PSO782G4085' => 'pso', 'QL01p012264' => 'qlo', 'QL02p099491' => 'qlo', 'QL03p033868' => 'qlo', 'QL04p046678' => 'qlo', 'QL06p002448' => 'qlo', 'RcHm_v2.0_Chr4g0416181' => 'rch', 'RcHm_v2.0_Chr5g0044701' => 'rch', 'RcHm_v2.0_Chr6g0265781' => 'rch', 'RcHm_v2.0_Chr7g0221031' => 'rch', 'Rhsim04G0202000' => 'rsi', 'Rhsim11G0127300' => 'rsi', 'Rhsim13G0111800' => 'rsi', 'Sabra01G0165600' => 'sbr', 'Sabra03G0008300' => 'sbr', 'Sabra04G0136900' => 'sbr', 'Sabra08G0013400' => 'sbr', 'Sabra08G0116800' => 'sbr', 'Sabra09G0128000' => 'sbr', 'Sabra10G0055500' => 'sbr', 'Sabra10G0073300' => 'sbr', 'SalBow3G0385' => 'sbo', 'SalBow3G1119' => 'sbo', 'SalBow3G2005' => 'sbo', 'SalBow6G2563' => 'sbo', 'SalBow6G6386' => 'sbo', 'Sc06g0008800' => 'sci', 'Sc07g0004950' => 'sci', 'Sc09g0005340' => 'sci', 'Sc13g0004410' => 'sci', 'Sc21g0007090' => 'sci', 'Sed0009285' => 'sed', 'Sed0017583' => 'sed', 'Sed0019699' => 'sed', 'Sed0023107' => 'sed', 'SEGI_10916' => 'sgi', 'SEGI_16217' => 'sgi', 'SEGI_19466' => 'sgi', 'SEGI_41115' => 'sgi', 'SGA_v2.0_scaffold111G31534' => 'sas', 'SGA_v2.0_scaffold22G09864' => 'sas', 'SGA_v2.0_scaffold338G49219' => 'sas', 'SGA_v2.0_scaffold92G28298' => 'sas', 'SMO119G0064' => 'smo', 'SMO223G0038' => 'smo', 'SMO347G0584' => 'smo', 'SMO351G0010' => 'smo', 'SMO356G0404' => 'smo', 'Solyc01g103920.3' => 'sly', 'Solyc04g009710.2' => 'sly', 'Solyc05g055280.2' => 'sly', 'Solyc10g044520.3' => 'sly', 'Solyc10g075160.1' => 'sly', 'Solyc11g006910.3' => 'sly', 'Solyc11g068430.3' => 'sly', 'Sopen01g046310' => 'spe', 'Sopen03g001200' => 'spe', 'Sopen04g004830' => 'spe', 'Sopen05g033720' => 'spe', 'Sopen06g030740' => 'spe', 'Sopen10g013090' => 'spe', 'Sopen10g027630' => 'spe', 'Sopen10g027640' => 'spe', 'Sopen11g002820' => 'spe', 'Sopen11g027140' => 'spe', 'Sp1g09680' => 'spa', 'Sp2g03630' => 'spa', 'Sp4g10320' => 'spa', 'Sp6g33400' => 'spa', 'Sp7g13030' => 'spa', 'TAR365G0317' => 'tar', 'TAR376G0979' => 'tar', 'TAR623G1665' => 'tar', 'TAR633G2373' => 'tar', 'TAR636G1400' => 'tar', 'THA.LOC104800529' => 'tha', 'THA.LOC104808547' => 'tha', 'THA.LOC104809615' => 'tha', 'THA.LOC104815724' => 'tha', 'THA.LOC104818480' => 'tha', 'THA.LOC104819179' => 'tha', 'THA.LOC104822270' => 'tha', 'THA.LOC104826425' => 'tha', 'Thecc.02G089700' => 'tca', 'Thecc.04G232300' => 'tca', 'Thecc.09G283400' => 'tca', 'Thhalv10009020m.g' => 'esa', 'Thhalv10015506m.g' => 'esa', 'Thhalv10017364m.g' => 'esa', 'Thhalv10023742m.g' => 'esa', 'Thhalv10026483m.g' => 'esa', 'TPR.G17232' => 'tpr', 'TPR.G2133' => 'tpr', 'TPR.G2498' => 'tpr', 'TPR.G31942' => 'tpr', 'TPR.G37877' => 'tpr', 'TPR.G4571' => 'tpr', 'TWI14G1113' => 'twi', 'TWI15G0426' => 'twi', 'TWI31G1005' => 'twi', 'TWI38G0513' => 'twi', 'TWI38G1484' => 'twi', 'TWI73G1098' => 'twi', 'unitig_26.g10519' => 'ugi', 'unitig_736.g22395' => 'ugi', 'unitig_747.g21234' => 'ugi', 'unitig_747.g21942' => 'ugi', 'vmacro14351' => 'vma', 'VMungo0540G0082' => 'vmu', 'VMungo0540G0405' => 'vmu', 'VMungo0540G1486' => 'vmu', 'VMungo0540G1692' => 'vmu', 'VMungo0720G2473' => 'vmu', 'VMungo1127G1562' => 'vmu', 'VMungo1215G1918' => 'vmu', 'Zm00001eb052650' => 'zma', 'Zm00001eb063710' => 'zma', 'Zm00001eb083950' => 'zma', 'Zm00001eb174420' => 'zma', 'Zm00001eb260140' => 'zma', 'Zm00001eb260150' => 'zma', 'Zm00001eb260160' => 'zma', 'Zm00001eb348290' => 'zma', 'Zm00001eb366870' => 'zma', 'Zm00001eb421930' => 'zma' ), 'gf_id' => 'HOM05D001025', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001025' ), 'data_identifier' => 'HOM05D001025', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001025', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '592', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p22650' => 'bna', 'A01p29720' => 'bna', 'A03p26560' => 'bna', 'A03p68820' => 'bna', 'A04p20980' => 'bna', 'A06p07730' => 'bna', 'A07p18260' => 'bna', 'A08p33710' => 'bna', 'A09p16970' => 'bna', 'A10p27490' => 'bna', 'Aa31LG1G17300' => 'aar', 'Aa31LG1G3910' => 'aar', 'Aa31LG2G9630' => 'aar', 'Aa31LG5G8360' => 'aar', 'Aa31LG9G2410' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4699' => 'aag', 'Actinidia23512' => 'ach', 'Actinidia37080' => 'ach', 'Ah.01g020380' => 'amhyb', 'Ah.08g215710' => 'amhyb', 'Ah.09g225110' => 'amhyb', 'Ah.10g036680' => 'amhyb', 'AL1G21940' => 'aly', 'AL2G15540' => 'aly', 'AL4G21520' => 'aly', 'AL7G40960' => 'aly', 'Aqoxy2G01191' => 'aox', 'Aqoxy2G03393' => 'aox', 'Aqoxy4G02775' => 'aox', 'Aqoxy6G00058' => 'aox', 'arahy.Tifrunner.gnm1.ann1.9X74H2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CW3FX9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R485W7' => 'arhy', 'AT1G10960' => 'ath', 'AT1G60950' => 'ath', 'AT2G27510' => 'ath', 'AT4G14890' => 'ath', 'AT5G10000' => 'ath', 'ATR0665G624' => 'atr', 'ATR0697G138' => 'atr', 'ATR0776G046' => 'atr', 'ATR1134G135' => 'atr', 'Atru.chr12.1025' => 'acertr', 'Atru.chr3.3241' => 'acertr', 'Atru.chr4.2460' => 'acertr', 'AUR62007427' => 'cqu', 'AUR62010960' => 'cqu', 'AUR62012201' => 'cqu', 'AUR62021470' => 'cqu', 'AUR62022834' => 'cqu', 'AUR62033635' => 'cqu', 'AUR62036186' => 'cqu', 'BcaB01g03077' => 'bca', 'BcaB02g10093' => 'bca', 'BcaB04g20295' => 'bca', 'BcaB06g28147' => 'bca', 'BcaB07g31253' => 'bca', 'BcaC01g04946' => 'bca', 'BcaC02g10614' => 'bca', 'BcaC02g10885' => 'bca', 'BcaC04g19356' => 'bca', 'BcaC04g22297' => 'bca', 'BcaC05g24977' => 'bca', 'BcaC06g31823' => 'bca', 'BcaC07g38633' => 'bca', 'BcaC09g49353' => 'bca', 'BcaC09g50168' => 'bca', 'BcaNung00322' => 'bca', 'BcaNung04769' => 'bca', 'BolC1t02753H' => 'bol', 'BolC1t03721H' => 'bol', 'BolC3t15525H' => 'bol', 'BolC4t23903H' => 'bol', 'BolC4t24231H' => 'bol', 'BolC4t27209H' => 'bol', 'BolC5t29671H' => 'bol', 'BolC8t49044H' => 'bol', 'BolC9t54999H' => 'bol', 'BolC9t59517H' => 'bol', 'BraA01t02178Z' => 'bra', 'BraA01t03099Z' => 'bra', 'BraA03t11867Z' => 'bra', 'BraA04t17667Z' => 'bra', 'BraA07t29542Z' => 'bra', 'BraA08t35287Z' => 'bra', 'BraA09t37334Z' => 'bra', 'BraA10t44801Z' => 'bra', 'BraSC39t46181Z' => 'bra', 'C01p28240' => 'bna', 'C01p37530' => 'bna', 'C03p31820' => 'bna', 'C04p24080' => 'bna', 'C04p25790' => 'bna', 'C04p56770' => 'bna', 'C05p09310' => 'bna', 'C09p21010' => 'bna', 'C09p67560' => 'bna', 'CAN.G1324.7' => 'can', 'CAN.G1358.10' => 'can', 'CAN.G1550.2' => 'can', 'CAN.G186.56' => 'can', 'CAN.G1965.1' => 'can', 'CAN.G645.15' => 'can', 'CAN.G798.26' => 'can', 'CAN.G798.27' => 'can', 'CAN.G798.29' => 'can', 'CAN.G919.31' => 'can', 'CANSAT11G0133' => 'cansat', 'CANSAT11G1171' => 'cansat', 'CANSAT11G2056' => 'cansat', 'CANSAT56G1202' => 'cansat', 'CANSAT56G1514' => 'cansat', 'CANSAT78G0455' => 'cansat', 'CARHR011190' => 'chi', 'CARHR051980' => 'chi', 'CARHR120170' => 'chi', 'CARHR203310' => 'chi', 'CARHR221490' => 'chi', 'Carub.0001s1054' => 'cru', 'Carub.0002s0431' => 'cru', 'Carub.0004s0818' => 'cru', 'Carub.0006s0846' => 'cru', 'Carub.0007s2722' => 'cru', 'Ca_00058_v3' => 'car', 'Ca_17831_v3' => 'car', 'Ca_19408_v3' => 'car', 'Ca_24397_v3' => 'car', 'Ca_25664_v3' => 'car', 'CBR_g21818' => 'cbr', 'CBR_g31195' => 'cbr', 'CBR_g32282' => 'cbr', 'CBR_g39599' => 'cbr', 'CBR_g49410' => 'cbr', 'Cc01_g09120' => 'ccan', 'Cc01_g09130' => 'ccan', 'Cc02_g09630' => 'ccan', 'Cc02_g22810' => 'ccan', 'Cc03_g03810' => 'ccan', 'CDE02G3718' => 'cde', 'CDE04G3183' => 'cde', 'CDE07G1046' => 'cde', 'CDE08G0480' => 'cde', 'Cfa005493' => 'cfa', 'Cfa010312' => 'cfa', 'Cfa015648' => 'cfa', 'Ciclev10002793m.g' => 'ccl', 'Ciclev10003356m.g' => 'ccl', 'Ciclev10006141m.g' => 'ccl', 'Ciclev10016676m.g' => 'ccl', 'Ciclev10017081m.g' => 'ccl', 'Ciclev10029499m.g' => 'ccl', 'CiPaw.01G166300' => 'cil', 'CiPaw.06G145600' => 'cil', 'CiPaw.13G040100' => 'cil', 'CiPaw.13G135800' => 'cil', 'ClCG01G012230' => 'cla', 'ClCG05G009510' => 'cla', 'ClCG08G008270' => 'cla', 'COL.COLO4_11763' => 'col', 'COL.COLO4_19876' => 'col', 'COL.COLO4_21481' => 'col', 'Cpa.g.sc118.34' => 'cpa', 'Cpa.g.sc32.13' => 'cpa', 'Cpa.g.sc58.103' => 'cpa', 'Cre03.g183850' => 'cre', 'Cre06.g306350' => 'cre', 'Cre07.g334800' => 'cre', 'Cre12.g487900' => 'cre', 'Cre14.g626700' => 'cre', 'Cre16.g658400' => 'cre', 'Cre17.g700950' => 'cre', 'CsaV3_1G014830' => 'csa', 'CsaV3_3G013320' => 'csa', 'CsaV3_3G019210' => 'csa', 'CsaV3_3G019220' => 'csa', 'CsaV3_6G004230' => 'csa', 'CSS0003773' => 'camsi', 'CSS0004563' => 'camsi', 'CSS0013949' => 'camsi', 'CSS0025971' => 'camsi', 'CSS0028570' => 'camsi', 'CSS0033127' => 'camsi', 'CSS0036051' => 'camsi', 'CSS0040087' => 'camsi', 'CSS0043179' => 'camsi', 'DCAR_006161' => 'dca', 'DCAR_010351' => 'dca', 'DCAR_012197' => 'dca', 'DCAR_024162' => 'dca', 'Dinv01030' => 'din', 'Dinv10924' => 'din', 'Dinv11835' => 'din', 'Dinv22841' => 'din', 'Dinv42553' => 'din', 'Duzib052G0560' => 'dzi', 'Duzib132G0389' => 'dzi', 'Duzib150G1181' => 'dzi', 'Duzib168G0623' => 'dzi', 'Duzib170G1036' => 'dzi', 'Duzib212G0200' => 'dzi', 'Duzib248G0194' => 'dzi', 'ECA232G2193' => 'eca', 'ECA233G0302' => 'eca', 'ECA234G2813' => 'eca', 'ECA234G4866' => 'eca', 'ECA240G3932' => 'eca', 'ECA248G0385' => 'eca', 'EL10Ac2g04781' => 'bvu', 'EL10Ac3g06445' => 'bvu', 'EL10Ac7g15825' => 'bvu', 'EL10Ac8g18550' => 'bvu', 'Eucgr.B03849' => 'egr', 'Eucgr.I02744' => 'egr', 'Eucgr.J00264' => 'egr', 'Eucgr.J00493' => 'egr', 'FAN04G2181' => 'fan', 'FAN07G2666' => 'fan', 'FAN11G0024' => 'fan', 'FAN12G1105' => 'fan', 'FAN13G0302' => 'fan', 'FAN15G2781' => 'fan', 'FAN16G1274' => 'fan', 'FAN17G2988' => 'fan', 'FAN18G2621' => 'fan', 'FAN21G0013' => 'fan', 'FAN22G1211' => 'fan', 'FAN25G3626' => 'fan', 'FvH4_2g09491' => 'fve', 'FvH4_3g24910' => 'fve', 'FvH4_4g15630' => 'fve', 'FvH4_5g28820' => 'fve', 'Glyma.01G238000' => 'gma', 'Glyma.05G168400' => 'gma', 'Glyma.08G126800' => 'gma', 'Glyma.08G188500' => 'gma', 'Glyma.10G278900' => 'gma', 'Glyma.11G005700' => 'gma', 'Glyma.11G183300' => 'gma', 'Glyma.12G089200' => 'gma', 'Glyma.12G169400' => 'gma', 'Glyma.12G169500' => 'gma', 'Glyma.12G169600' => 'gma', 'Glyma.20G110800' => 'gma', 'Gohir.A03G192900' => 'ghi', 'Gohir.A03G193000' => 'ghi', 'Gohir.A05G080700' => 'ghi', 'Gohir.A09G216000' => 'ghi', 'Gohir.A12G027700' => 'ghi', 'Gohir.A13G036200' => 'ghi', 'Gohir.A13G222600' => 'ghi', 'Gohir.D02G213900' => 'ghi', 'Gohir.D02G214000' => 'ghi', 'Gohir.D05G083700' => 'ghi', 'Gohir.D05G083800' => 'ghi', 'Gohir.D05G083850' => 'ghi', 'Gohir.D08G015400' => 'ghi', 'Gohir.D09G218400' => 'ghi', 'Gohir.D12G027100' => 'ghi', 'Gohir.D13G034500' => 'ghi', 'Gohir.D13G227400' => 'ghi', 'Gorai.005G241800' => 'gra', 'Gorai.005G241900' => 'gra', 'Gorai.006G239400' => 'gra', 'Gorai.008G027600' => 'gra', 'Gorai.009G085400' => 'gra', 'Gorai.009G085500' => 'gra', 'Gorai.013G039000' => 'gra', 'Gorai.013G194800' => 'gra', 'Gorai.013G257900' => 'gra', 'GSVIVG01000982001' => 'vvi', 'GSVIVG01017981001' => 'vvi', 'HanXRQChr01g0024061' => 'han', 'HanXRQChr09g0247831' => 'han', 'HanXRQChr10g0294611' => 'han', 'HanXRQChr10g0294621' => 'han', 'HanXRQChr11g0346821' => 'han', 'HanXRQChr13g0397461' => 'han', 'HanXRQChr16g0513651' => 'han', 'HanXRQChr16g0513701' => 'han', 'Haze_00897' => 'cav', 'Haze_01745' => 'cav', 'Haze_02486' => 'cav', 'Haze_02487' => 'cav', 'Haze_23374' => 'cav', 'Hma1.2p1_0578F.1_g182520' => 'hma', 'Hma1.2p1_0602F.1_g187350' => 'hma', 'Hma1.2p1_0602F.1_g187360' => 'hma', 'Hma1.2p1_0874F.1_g231320' => 'hma', 'Hma1.2p1_1197F.1_g266210' => 'hma', 'Hma1.2p1_1197F.1_g266220' => 'hma', 'Hma1.2p1_2167F.1_g315895' => 'hma', 'Hma1.2p1_2190F.1_g316640' => 'hma', 'Hma1.2p1_3645F.1_g337153' => 'hma', 'HPP92_004907' => 'vpl', 'HPP92_012134' => 'vpl', 'HPP92_025136' => 'vpl', 'HPP92_026087' => 'vpl', 'Hund06782' => 'sun', 'Hund06784' => 'sun', 'Lalb_Chr01g0004861' => 'lal', 'Lalb_Chr02g0140591' => 'lal', 'Lalb_Chr02g0140611' => 'lal', 'Lalb_Chr03g0028101' => 'lal', 'Lalb_Chr07g0185791' => 'lal', 'Lalb_Chr12g0204491' => 'lal', 'Lalb_Chr13g0295671' => 'lal', 'Lalb_Chr19g0136461' => 'lal', 'Lalb_Chr21g0309191' => 'lal', 'Lj1g0028158' => 'lja', 'Lj1P236T38' => 'lonja', 'Lj2C32G2' => 'lonja', 'Lj2P944T8' => 'lonja', 'Lj2P963T15' => 'lonja', 'Lj3g0011788' => 'lja', 'Lj4g0025027' => 'lja', 'Lj5P255T36' => 'lonja', 'Lj6g0018866' => 'lja', 'Lj6P608T31' => 'lonja', 'LjContig00408g0008879' => 'lja', 'Lsat_1_v5_gn_5_105820' => 'lsa', 'Lsat_1_v5_gn_6_38800' => 'lsa', 'Lsat_1_v5_gn_7_67141' => 'lsa', 'Manes.04G003400' => 'mes', 'Manes.07G020000' => 'mes', 'Manes.07G020100' => 'mes', 'Manes.07G020150' => 'mes', 'Manes.10G061500' => 'mes', 'Manes.10G123200' => 'mes', 'Manes.11G161900' => 'mes', 'Manes.15G029300' => 'mes', 'Mapoly0071s0018' => 'mpo', 'Mapoly0082s0023' => 'mpo', 'Mapoly3477s0001' => 'mpo', 'MBI05_g31233_MAGBIO' => 'mbi', 'MBI09_g05946_MAGBIO' => 'mbi', 'MBI09_g05947_MAGBIO' => 'mbi', 'MBI17_g08346_MAGBIO' => 'mbi', 'MCO04G038' => 'mco', 'MCO09G370' => 'mco', 'MCO13G605' => 'mco', 'MD00G1075500' => 'mdo', 'MD03G1144300' => 'mdo', 'MD08G1236800' => 'mdo', 'MD13G1193300' => 'mdo', 'MD15G1428700' => 'mdo', 'Medtr1g112030' => 'mtr', 'Medtr1g112050' => 'mtr', 'Medtr2g006290' => 'mtr', 'Medtr2g086510' => 'mtr', 'Medtr4g053120' => 'mtr', 'Medtr5g006320' => 'mtr', 'Medtr8g088720' => 'mtr', 'MELO3C004712.2' => 'cme', 'MELO3C006533.2' => 'cme', 'MELO3C019438.2' => 'cme', 'MELO3C019440.2' => 'cme', 'MELO3C019441.2' => 'cme', 'MELO3C019895.2' => 'cme', 'Migut.B00811' => 'egut', 'Migut.D02447' => 'egut', 'Migut.F00875' => 'egut', 'Migut.N00186' => 'egut', 'Migut.N01051' => 'egut', 'Migut.N02491' => 'egut', 'Migut.O00784' => 'egut', 'MSTRG.12367' => 'ama', 'MSTRG.18756' => 'ama', 'MSTRG.21042' => 'ama', 'Nitab4.5_0000559g0040' => 'nta', 'Nitab4.5_0000667g0190' => 'nta', 'Nitab4.5_0000755g0160' => 'nta', 'Nitab4.5_0001216g0080' => 'nta', 'Nitab4.5_0004069g0040' => 'nta', 'Nitab4.5_0004129g0010' => 'nta', 'Nitab4.5_0005744g0030' => 'nta', 'Nitab4.5_0006996g0030' => 'nta', 'Nitab4.5_0008971g0040' => 'nta', 'Nitab4.5_0009769g0020' => 'nta', 'Nitab4.5_0009833g0010' => 'nta', 'Nitab4.5_0013140g0020' => 'nta', 'Nn003s41376' => 'nnu', 'Nn1g01857' => 'nnu', 'Nn1g03611' => 'nnu', 'Nn1g06853' => 'nnu', 'Nn3g18360' => 'nnu', 'Nn4g26328' => 'nnu', 'Nn5g27531' => 'nnu', 'Nn6g34899' => 'nnu', 'Nn7g36299' => 'nnu', 'Oeu021485.1' => 'oeu', 'Oeu022433.1' => 'oeu', 'Oeu032111.1' => 'oeu', 'Oeu051608.1' => 'oeu', 'Os01g0860601' => 'osa', 'Os03g0659200' => 'osa', 'Os03g0835900' => 'osa', 'Os04g0412200' => 'osa', 'Os05g0443500' => 'osa', 'Os07g0251500' => 'osa', 'Os08g0104600' => 'osa', 'Peaxi162Scf00003g00047' => 'pax', 'Peaxi162Scf00003g00052' => 'pax', 'Peaxi162Scf00003g00394' => 'pax', 'Peaxi162Scf00091g00621' => 'pax', 'Peaxi162Scf00152g00146' => 'pax', 'Peaxi162Scf00173g00025' => 'pax', 'Peaxi162Scf00195g00102' => 'pax', 'Peaxi162Scf00402g00013' => 'pax', 'Peaxi162Scf00519g00618' => 'pax', 'PGR004G2838' => 'pgr', 'PGR044G2275' => 'pgr', 'PGR102G1377' => 'pgr', 'PGR119G1245' => 'pgr', 'PGR142G4449' => 'pgr', 'PGSC0003DMG400004532' => 'stu', 'PGSC0003DMG400011950' => 'stu', 'PGSC0003DMG400023391' => 'stu', 'PGSC0003DMG400023985' => 'stu', 'PGSC0003DMG400026360' => 'stu', 'PGSC0003DMG400035711' => 'stu', 'PGSC0003DMG400037286' => 'stu', 'PGSC0003DMG402005881' => 'stu', 'Phvul.002G045400' => 'pvu', 'Phvul.006G216600' => 'pvu', 'Phvul.006G216700' => 'pvu', 'Phvul.006G216800' => 'pvu', 'Phvul.007G022500' => 'pvu', 'Phvul.011G094400' => 'pvu', 'Potri.001G470700' => 'ptr', 'Potri.003G015200' => 'ptr', 'Potri.004G202500' => 'ptr', 'Potri.004G218400' => 'ptr', 'Potri.008G020100' => 'ptr', 'Potri.008G153200' => 'ptr', 'Potri.009G163800' => 'ptr', 'Potri.010G087300' => 'ptr', 'Potri.010G239100' => 'ptr', 'Pp3c10_16100' => 'ppa', 'Pp3c10_16880' => 'ppa', 'Pp3c16_6230' => 'ppa', 'Pp3c17_18910' => 'ppa', 'Pp3c3_22119' => 'ppa', 'Pp3c3_22140' => 'ppa', 'Pp3c4_8159' => 'ppa', 'Pp3c4_8171' => 'ppa', 'Pp3c4_8330' => 'ppa', 'PRCOL_00004098' => 'pco', 'Prupe.1G013900' => 'ppe', 'Prupe.1G226300' => 'ppe', 'Prupe.1G573600' => 'ppe', 'Prupe.6G130100' => 'ppe', 'Psat3g090040' => 'psa', 'Psat4g210440' => 'psa', 'Psat6g231040' => 'psa', 'Psat6g231080' => 'psa', 'Psat7g063000' => 'psa', 'Psat7g188000' => 'psa', 'Psat7g188040' => 'psa', 'PSO017G0206' => 'pso', 'PSO170G0501' => 'pso', 'PSO170G6422' => 'pso', 'PSO210G7739' => 'pso', 'PSO339G1808' => 'pso', 'PSO339G6135' => 'pso', 'PSO384G0010' => 'pso', 'PSO384G0964' => 'pso', 'PSO761G0050' => 'pso', 'PSO782G4085' => 'pso', 'QL01p012264' => 'qlo', 'QL02p099491' => 'qlo', 'QL03p033868' => 'qlo', 'QL04p046678' => 'qlo', 'QL06p002448' => 'qlo', 'RcHm_v2.0_Chr4g0416181' => 'rch', 'RcHm_v2.0_Chr5g0044701' => 'rch', 'RcHm_v2.0_Chr6g0265781' => 'rch', 'RcHm_v2.0_Chr7g0221031' => 'rch', 'Rhsim04G0202000' => 'rsi', 'Rhsim11G0127300' => 'rsi', 'Rhsim13G0111800' => 'rsi', 'Sabra01G0165600' => 'sbr', 'Sabra03G0008300' => 'sbr', 'Sabra04G0136900' => 'sbr', 'Sabra08G0013400' => 'sbr', 'Sabra08G0116800' => 'sbr', 'Sabra09G0128000' => 'sbr', 'Sabra10G0055500' => 'sbr', 'Sabra10G0073300' => 'sbr', 'SalBow3G0385' => 'sbo', 'SalBow3G1119' => 'sbo', 'SalBow3G2005' => 'sbo', 'SalBow6G2563' => 'sbo', 'SalBow6G6386' => 'sbo', 'Sc06g0008800' => 'sci', 'Sc07g0004950' => 'sci', 'Sc09g0005340' => 'sci', 'Sc13g0004410' => 'sci', 'Sc21g0007090' => 'sci', 'Sed0009285' => 'sed', 'Sed0017583' => 'sed', 'Sed0019699' => 'sed', 'Sed0023107' => 'sed', 'SEGI_10916' => 'sgi', 'SEGI_16217' => 'sgi', 'SEGI_19466' => 'sgi', 'SEGI_41115' => 'sgi', 'SGA_v2.0_scaffold111G31534' => 'sas', 'SGA_v2.0_scaffold22G09864' => 'sas', 'SGA_v2.0_scaffold338G49219' => 'sas', 'SGA_v2.0_scaffold92G28298' => 'sas', 'SMO119G0064' => 'smo', 'SMO223G0038' => 'smo', 'SMO347G0584' => 'smo', 'SMO351G0010' => 'smo', 'SMO356G0404' => 'smo', 'Solyc01g103920.3' => 'sly', 'Solyc04g009710.2' => 'sly', 'Solyc05g055280.2' => 'sly', 'Solyc10g044520.3' => 'sly', 'Solyc10g075160.1' => 'sly', 'Solyc11g006910.3' => 'sly', 'Solyc11g068430.3' => 'sly', 'Sopen01g046310' => 'spe', 'Sopen03g001200' => 'spe', 'Sopen04g004830' => 'spe', 'Sopen05g033720' => 'spe', 'Sopen06g030740' => 'spe', 'Sopen10g013090' => 'spe', 'Sopen10g027630' => 'spe', 'Sopen10g027640' => 'spe', 'Sopen11g002820' => 'spe', 'Sopen11g027140' => 'spe', 'Sp1g09680' => 'spa', 'Sp2g03630' => 'spa', 'Sp4g10320' => 'spa', 'Sp6g33400' => 'spa', 'Sp7g13030' => 'spa', 'TAR365G0317' => 'tar', 'TAR376G0979' => 'tar', 'TAR623G1665' => 'tar', 'TAR633G2373' => 'tar', 'TAR636G1400' => 'tar', 'THA.LOC104800529' => 'tha', 'THA.LOC104808547' => 'tha', 'THA.LOC104809615' => 'tha', 'THA.LOC104815724' => 'tha', 'THA.LOC104818480' => 'tha', 'THA.LOC104819179' => 'tha', 'THA.LOC104822270' => 'tha', 'THA.LOC104826425' => 'tha', 'Thecc.02G089700' => 'tca', 'Thecc.04G232300' => 'tca', 'Thecc.09G283400' => 'tca', 'Thhalv10009020m.g' => 'esa', 'Thhalv10015506m.g' => 'esa', 'Thhalv10017364m.g' => 'esa', 'Thhalv10023742m.g' => 'esa', 'Thhalv10026483m.g' => 'esa', 'TPR.G17232' => 'tpr', 'TPR.G2133' => 'tpr', 'TPR.G2498' => 'tpr', 'TPR.G31942' => 'tpr', 'TPR.G37877' => 'tpr', 'TPR.G4571' => 'tpr', 'TWI14G1113' => 'twi', 'TWI15G0426' => 'twi', 'TWI31G1005' => 'twi', 'TWI38G0513' => 'twi', 'TWI38G1484' => 'twi', 'TWI73G1098' => 'twi', 'unitig_26.g10519' => 'ugi', 'unitig_736.g22395' => 'ugi', 'unitig_747.g21234' => 'ugi', 'unitig_747.g21942' => 'ugi', 'vmacro14351' => 'vma', 'VMungo0540G0082' => 'vmu', 'VMungo0540G0405' => 'vmu', 'VMungo0540G1486' => 'vmu', 'VMungo0540G1692' => 'vmu', 'VMungo0720G2473' => 'vmu', 'VMungo1127G1562' => 'vmu', 'VMungo1215G1918' => 'vmu', 'Zm00001eb052650' => 'zma', 'Zm00001eb063710' => 'zma', 'Zm00001eb083950' => 'zma', 'Zm00001eb174420' => 'zma', 'Zm00001eb260140' => 'zma', 'Zm00001eb260150' => 'zma', 'Zm00001eb260160' => 'zma', 'Zm00001eb348290' => 'zma', 'Zm00001eb366870' => 'zma', 'Zm00001eb421930' => 'zma' ) $gf_id = 'HOM05D001025' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001025' ) $data_identifier = 'HOM05D001025' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 19, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 2, 'amhyb' => (int) 4, 'aly' => (int) 4, 'aox' => (int) 4, 'arhy' => (int) 3, 'ath' => (int) 5, 'atr' => (int) 4, 'acertr' => (int) 3, 'cqu' => (int) 7, 'bca' => (int) 17, 'bol' => (int) 10, 'bra' => (int) 9, 'can' => (int) 10, 'cansat' => (int) 6, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 5, 'cbr' => (int) 5, 'ccan' => (int) 5, 'cde' => (int) 4, 'cfa' => (int) 3, 'ccl' => (int) 6, 'cil' => (int) 4, 'cla' => (int) 3, 'col' => (int) 3, 'cpa' => (int) 3, 'cre' => (int) 7, 'csa' => (int) 5, 'camsi' => (int) 9, 'dca' => (int) 4, 'din' => (int) 5, 'dzi' => (int) 7, 'eca' => (int) 6, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 12, 'fve' => (int) 4, 'gma' => (int) 12, 'ghi' => (int) 17, 'gra' => (int) 9, 'vvi' => (int) 2, 'han' => (int) 8, 'cav' => (int) 5, 'hma' => (int) 9, 'vpl' => (int) 4, 'sun' => (int) 2, 'lal' => (int) 9, 'lja' => (int) 5, 'lonja' => (int) 6, 'lsa' => (int) 3, 'mes' => (int) 8, 'mpo' => (int) 3, 'mbi' => (int) 4, 'mco' => (int) 3, 'mdo' => (int) 5, 'mtr' => (int) 7, 'cme' => (int) 6, 'egut' => (int) 7, 'ama' => (int) 3, 'nta' => (int) 12, 'nnu' => (int) 9, 'oeu' => (int) 4, 'osa' => (int) 7, 'pax' => (int) 9, 'pgr' => (int) 5, 'stu' => (int) 8, 'pvu' => (int) 6, 'ptr' => (int) 9, 'ppa' => (int) 9, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 7, 'pso' => (int) 10, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 3, 'sbr' => (int) 8, 'sbo' => (int) 5, 'sci' => (int) 5, 'sed' => (int) 4, 'sgi' => (int) 4, 'sas' => (int) 4, 'smo' => (int) 5, 'sly' => (int) 7, 'spe' => (int) 10, 'spa' => (int) 5, 'tar' => (int) 5, 'tha' => (int) 8, 'tca' => (int) 3, 'esa' => (int) 5, 'tpr' => (int) 6, 'twi' => (int) 6, 'ugi' => (int) 4, 'vma' => (int) 1, 'vmu' => (int) 7, 'zma' => (int) 10 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb421930' $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' => 'HOM05D001025', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '592', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p22650' => 'bna', 'A01p29720' => 'bna', 'A03p26560' => 'bna', 'A03p68820' => 'bna', 'A04p20980' => 'bna', 'A06p07730' => 'bna', 'A07p18260' => 'bna', 'A08p33710' => 'bna', 'A09p16970' => 'bna', 'A10p27490' => 'bna', 'Aa31LG1G17300' => 'aar', 'Aa31LG1G3910' => 'aar', 'Aa31LG2G9630' => 'aar', 'Aa31LG5G8360' => 'aar', 'Aa31LG9G2410' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4699' => 'aag', 'Actinidia23512' => 'ach', 'Actinidia37080' => 'ach', 'Ah.01g020380' => 'amhyb', 'Ah.08g215710' => 'amhyb', 'Ah.09g225110' => 'amhyb', 'Ah.10g036680' => 'amhyb', 'AL1G21940' => 'aly', 'AL2G15540' => 'aly', 'AL4G21520' => 'aly', 'AL7G40960' => 'aly', 'Aqoxy2G01191' => 'aox', 'Aqoxy2G03393' => 'aox', 'Aqoxy4G02775' => 'aox', 'Aqoxy6G00058' => 'aox', 'arahy.Tifrunner.gnm1.ann1.9X74H2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CW3FX9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R485W7' => 'arhy', 'AT1G10960' => 'ath', 'AT1G60950' => 'ath', 'AT2G27510' => 'ath', 'AT4G14890' => 'ath', 'AT5G10000' => 'ath', 'ATR0665G624' => 'atr', 'ATR0697G138' => 'atr', 'ATR0776G046' => 'atr', 'ATR1134G135' => 'atr', 'Atru.chr12.1025' => 'acertr', 'Atru.chr3.3241' => 'acertr', 'Atru.chr4.2460' => 'acertr', 'AUR62007427' => 'cqu', 'AUR62010960' => 'cqu', 'AUR62012201' => 'cqu', 'AUR62021470' => 'cqu', 'AUR62022834' => 'cqu', 'AUR62033635' => 'cqu', 'AUR62036186' => 'cqu', 'BcaB01g03077' => 'bca', 'BcaB02g10093' => 'bca', 'BcaB04g20295' => 'bca', 'BcaB06g28147' => 'bca', 'BcaB07g31253' => 'bca', 'BcaC01g04946' => 'bca', 'BcaC02g10614' => 'bca', 'BcaC02g10885' => 'bca', 'BcaC04g19356' => 'bca', 'BcaC04g22297' => 'bca', 'BcaC05g24977' => 'bca', 'BcaC06g31823' => 'bca', 'BcaC07g38633' => 'bca', 'BcaC09g49353' => 'bca', 'BcaC09g50168' => 'bca', 'BcaNung00322' => 'bca', 'BcaNung04769' => 'bca', 'BolC1t02753H' => 'bol', 'BolC1t03721H' => 'bol', 'BolC3t15525H' => 'bol', 'BolC4t23903H' => 'bol', 'BolC4t24231H' => 'bol', 'BolC4t27209H' => 'bol', 'BolC5t29671H' => 'bol', 'BolC8t49044H' => 'bol', 'BolC9t54999H' => 'bol', 'BolC9t59517H' => 'bol', 'BraA01t02178Z' => 'bra', 'BraA01t03099Z' => 'bra', 'BraA03t11867Z' => 'bra', 'BraA04t17667Z' => 'bra', 'BraA07t29542Z' => 'bra', 'BraA08t35287Z' => 'bra', 'BraA09t37334Z' => 'bra', 'BraA10t44801Z' => 'bra', 'BraSC39t46181Z' => 'bra', 'C01p28240' => 'bna', 'C01p37530' => 'bna', 'C03p31820' => 'bna', 'C04p24080' => 'bna', 'C04p25790' => 'bna', 'C04p56770' => 'bna', 'C05p09310' => 'bna', 'C09p21010' => 'bna', 'C09p67560' => 'bna', 'CAN.G1324.7' => 'can', 'CAN.G1358.10' => 'can', 'CAN.G1550.2' => 'can', 'CAN.G186.56' => 'can', 'CAN.G1965.1' => 'can', 'CAN.G645.15' => 'can', 'CAN.G798.26' => 'can', 'CAN.G798.27' => 'can', 'CAN.G798.29' => 'can', 'CAN.G919.31' => 'can', 'CANSAT11G0133' => 'cansat', 'CANSAT11G1171' => 'cansat', 'CANSAT11G2056' => 'cansat', 'CANSAT56G1202' => 'cansat', 'CANSAT56G1514' => 'cansat', 'CANSAT78G0455' => 'cansat', 'CARHR011190' => 'chi', 'CARHR051980' => 'chi', 'CARHR120170' => 'chi', 'CARHR203310' => 'chi', 'CARHR221490' => 'chi', 'Carub.0001s1054' => 'cru', 'Carub.0002s0431' => 'cru', 'Carub.0004s0818' => 'cru', 'Carub.0006s0846' => 'cru', 'Carub.0007s2722' => 'cru', 'Ca_00058_v3' => 'car', 'Ca_17831_v3' => 'car', 'Ca_19408_v3' => 'car', 'Ca_24397_v3' => 'car', 'Ca_25664_v3' => 'car', 'CBR_g21818' => 'cbr', 'CBR_g31195' => 'cbr', 'CBR_g32282' => 'cbr', 'CBR_g39599' => 'cbr', 'CBR_g49410' => 'cbr', 'Cc01_g09120' => 'ccan', 'Cc01_g09130' => 'ccan', 'Cc02_g09630' => 'ccan', 'Cc02_g22810' => 'ccan', 'Cc03_g03810' => 'ccan', 'CDE02G3718' => 'cde', 'CDE04G3183' => 'cde', 'CDE07G1046' => 'cde', 'CDE08G0480' => 'cde', 'Cfa005493' => 'cfa', 'Cfa010312' => 'cfa', 'Cfa015648' => 'cfa', 'Ciclev10002793m.g' => 'ccl', 'Ciclev10003356m.g' => 'ccl', 'Ciclev10006141m.g' => 'ccl', 'Ciclev10016676m.g' => 'ccl', 'Ciclev10017081m.g' => 'ccl', 'Ciclev10029499m.g' => 'ccl', 'CiPaw.01G166300' => 'cil', 'CiPaw.06G145600' => 'cil', 'CiPaw.13G040100' => 'cil', 'CiPaw.13G135800' => 'cil', 'ClCG01G012230' => 'cla', 'ClCG05G009510' => 'cla', 'ClCG08G008270' => 'cla', 'COL.COLO4_11763' => 'col', 'COL.COLO4_19876' => 'col', 'COL.COLO4_21481' => 'col', 'Cpa.g.sc118.34' => 'cpa', 'Cpa.g.sc32.13' => 'cpa', 'Cpa.g.sc58.103' => 'cpa', 'Cre03.g183850' => 'cre', 'Cre06.g306350' => 'cre', 'Cre07.g334800' => 'cre', 'Cre12.g487900' => 'cre', 'Cre14.g626700' => 'cre', 'Cre16.g658400' => 'cre', 'Cre17.g700950' => 'cre', 'CsaV3_1G014830' => 'csa', 'CsaV3_3G013320' => 'csa', 'CsaV3_3G019210' => 'csa', 'CsaV3_3G019220' => 'csa', 'CsaV3_6G004230' => 'csa', 'CSS0003773' => 'camsi', 'CSS0004563' => 'camsi', 'CSS0013949' => 'camsi', 'CSS0025971' => 'camsi', 'CSS0028570' => 'camsi', 'CSS0033127' => 'camsi', 'CSS0036051' => 'camsi', 'CSS0040087' => 'camsi', 'CSS0043179' => 'camsi', 'DCAR_006161' => 'dca', 'DCAR_010351' => 'dca', 'DCAR_012197' => 'dca', 'DCAR_024162' => 'dca', 'Dinv01030' => 'din', 'Dinv10924' => 'din', 'Dinv11835' => 'din', 'Dinv22841' => 'din', 'Dinv42553' => 'din', 'Duzib052G0560' => 'dzi', 'Duzib132G0389' => 'dzi', 'Duzib150G1181' => 'dzi', 'Duzib168G0623' => 'dzi', 'Duzib170G1036' => 'dzi', 'Duzib212G0200' => 'dzi', 'Duzib248G0194' => 'dzi', 'ECA232G2193' => 'eca', 'ECA233G0302' => 'eca', 'ECA234G2813' => 'eca', 'ECA234G4866' => 'eca', 'ECA240G3932' => 'eca', 'ECA248G0385' => 'eca', 'EL10Ac2g04781' => 'bvu', 'EL10Ac3g06445' => 'bvu', 'EL10Ac7g15825' => 'bvu', 'EL10Ac8g18550' => 'bvu', 'Eucgr.B03849' => 'egr', 'Eucgr.I02744' => 'egr', 'Eucgr.J00264' => 'egr', 'Eucgr.J00493' => 'egr', 'FAN04G2181' => 'fan', 'FAN07G2666' => 'fan', 'FAN11G0024' => 'fan', 'FAN12G1105' => 'fan', 'FAN13G0302' => 'fan', 'FAN15G2781' => 'fan', 'FAN16G1274' => 'fan', 'FAN17G2988' => 'fan', 'FAN18G2621' => 'fan', 'FAN21G0013' => 'fan', 'FAN22G1211' => 'fan', 'FAN25G3626' => 'fan', 'FvH4_2g09491' => 'fve', 'FvH4_3g24910' => 'fve', 'FvH4_4g15630' => 'fve', 'FvH4_5g28820' => 'fve', 'Glyma.01G238000' => 'gma', 'Glyma.05G168400' => 'gma', 'Glyma.08G126800' => 'gma', 'Glyma.08G188500' => 'gma', 'Glyma.10G278900' => 'gma', 'Glyma.11G005700' => 'gma', 'Glyma.11G183300' => 'gma', 'Glyma.12G089200' => 'gma', 'Glyma.12G169400' => 'gma', 'Glyma.12G169500' => 'gma', 'Glyma.12G169600' => 'gma', 'Glyma.20G110800' => 'gma', 'Gohir.A03G192900' => 'ghi', 'Gohir.A03G193000' => 'ghi', 'Gohir.A05G080700' => 'ghi', 'Gohir.A09G216000' => 'ghi', 'Gohir.A12G027700' => 'ghi', 'Gohir.A13G036200' => 'ghi', 'Gohir.A13G222600' => 'ghi', 'Gohir.D02G213900' => 'ghi', 'Gohir.D02G214000' => 'ghi', 'Gohir.D05G083700' => 'ghi', 'Gohir.D05G083800' => 'ghi', 'Gohir.D05G083850' => 'ghi', 'Gohir.D08G015400' => 'ghi', 'Gohir.D09G218400' => 'ghi', 'Gohir.D12G027100' => 'ghi', 'Gohir.D13G034500' => 'ghi', 'Gohir.D13G227400' => 'ghi', 'Gorai.005G241800' => 'gra', 'Gorai.005G241900' => 'gra', 'Gorai.006G239400' => 'gra', 'Gorai.008G027600' => 'gra', 'Gorai.009G085400' => 'gra', 'Gorai.009G085500' => 'gra', 'Gorai.013G039000' => 'gra', 'Gorai.013G194800' => 'gra', 'Gorai.013G257900' => 'gra', 'GSVIVG01000982001' => 'vvi', 'GSVIVG01017981001' => 'vvi', 'HanXRQChr01g0024061' => 'han', 'HanXRQChr09g0247831' => 'han', 'HanXRQChr10g0294611' => 'han', 'HanXRQChr10g0294621' => 'han', 'HanXRQChr11g0346821' => 'han', 'HanXRQChr13g0397461' => 'han', 'HanXRQChr16g0513651' => 'han', 'HanXRQChr16g0513701' => 'han', 'Haze_00897' => 'cav', 'Haze_01745' => 'cav', 'Haze_02486' => 'cav', 'Haze_02487' => 'cav', 'Haze_23374' => 'cav', 'Hma1.2p1_0578F.1_g182520' => 'hma', 'Hma1.2p1_0602F.1_g187350' => 'hma', 'Hma1.2p1_0602F.1_g187360' => 'hma', 'Hma1.2p1_0874F.1_g231320' => 'hma', 'Hma1.2p1_1197F.1_g266210' => 'hma', 'Hma1.2p1_1197F.1_g266220' => 'hma', 'Hma1.2p1_2167F.1_g315895' => 'hma', 'Hma1.2p1_2190F.1_g316640' => 'hma', 'Hma1.2p1_3645F.1_g337153' => 'hma', 'HPP92_004907' => 'vpl', 'HPP92_012134' => 'vpl', 'HPP92_025136' => 'vpl', 'HPP92_026087' => 'vpl', 'Hund06782' => 'sun', 'Hund06784' => 'sun', 'Lalb_Chr01g0004861' => 'lal', 'Lalb_Chr02g0140591' => 'lal', 'Lalb_Chr02g0140611' => 'lal', 'Lalb_Chr03g0028101' => 'lal', 'Lalb_Chr07g0185791' => 'lal', 'Lalb_Chr12g0204491' => 'lal', 'Lalb_Chr13g0295671' => 'lal', 'Lalb_Chr19g0136461' => 'lal', 'Lalb_Chr21g0309191' => 'lal', 'Lj1g0028158' => 'lja', 'Lj1P236T38' => 'lonja', 'Lj2C32G2' => 'lonja', 'Lj2P944T8' => 'lonja', 'Lj2P963T15' => 'lonja', 'Lj3g0011788' => 'lja', 'Lj4g0025027' => 'lja', 'Lj5P255T36' => 'lonja', 'Lj6g0018866' => 'lja', 'Lj6P608T31' => 'lonja', 'LjContig00408g0008879' => 'lja', 'Lsat_1_v5_gn_5_105820' => 'lsa', 'Lsat_1_v5_gn_6_38800' => 'lsa', 'Lsat_1_v5_gn_7_67141' => 'lsa', 'Manes.04G003400' => 'mes', 'Manes.07G020000' => 'mes', 'Manes.07G020100' => 'mes', 'Manes.07G020150' => 'mes', 'Manes.10G061500' => 'mes', 'Manes.10G123200' => 'mes', 'Manes.11G161900' => 'mes', 'Manes.15G029300' => 'mes', 'Mapoly0071s0018' => 'mpo', 'Mapoly0082s0023' => 'mpo', 'Mapoly3477s0001' => 'mpo', 'MBI05_g31233_MAGBIO' => 'mbi', 'MBI09_g05946_MAGBIO' => 'mbi', 'MBI09_g05947_MAGBIO' => 'mbi', 'MBI17_g08346_MAGBIO' => 'mbi', 'MCO04G038' => 'mco', 'MCO09G370' => 'mco', 'MCO13G605' => 'mco', 'MD00G1075500' => 'mdo', 'MD03G1144300' => 'mdo', 'MD08G1236800' => 'mdo', 'MD13G1193300' => 'mdo', 'MD15G1428700' => 'mdo', 'Medtr1g112030' => 'mtr', 'Medtr1g112050' => 'mtr', 'Medtr2g006290' => 'mtr', 'Medtr2g086510' => 'mtr', 'Medtr4g053120' => 'mtr', 'Medtr5g006320' => 'mtr', 'Medtr8g088720' => 'mtr', 'MELO3C004712.2' => 'cme', 'MELO3C006533.2' => 'cme', 'MELO3C019438.2' => 'cme', 'MELO3C019440.2' => 'cme', 'MELO3C019441.2' => 'cme', 'MELO3C019895.2' => 'cme', 'Migut.B00811' => 'egut', 'Migut.D02447' => 'egut', 'Migut.F00875' => 'egut', 'Migut.N00186' => 'egut', 'Migut.N01051' => 'egut', 'Migut.N02491' => 'egut', 'Migut.O00784' => 'egut', 'MSTRG.12367' => 'ama', 'MSTRG.18756' => 'ama', 'MSTRG.21042' => 'ama', 'Nitab4.5_0000559g0040' => 'nta', 'Nitab4.5_0000667g0190' => 'nta', 'Nitab4.5_0000755g0160' => 'nta', 'Nitab4.5_0001216g0080' => 'nta', 'Nitab4.5_0004069g0040' => 'nta', 'Nitab4.5_0004129g0010' => 'nta', 'Nitab4.5_0005744g0030' => 'nta', 'Nitab4.5_0006996g0030' => 'nta', 'Nitab4.5_0008971g0040' => 'nta', 'Nitab4.5_0009769g0020' => 'nta', 'Nitab4.5_0009833g0010' => 'nta', 'Nitab4.5_0013140g0020' => 'nta', 'Nn003s41376' => 'nnu', 'Nn1g01857' => 'nnu', 'Nn1g03611' => 'nnu', 'Nn1g06853' => 'nnu', 'Nn3g18360' => 'nnu', 'Nn4g26328' => 'nnu', 'Nn5g27531' => 'nnu', 'Nn6g34899' => 'nnu', 'Nn7g36299' => 'nnu', 'Oeu021485.1' => 'oeu', 'Oeu022433.1' => 'oeu', 'Oeu032111.1' => 'oeu', 'Oeu051608.1' => 'oeu', 'Os01g0860601' => 'osa', 'Os03g0659200' => 'osa', 'Os03g0835900' => 'osa', 'Os04g0412200' => 'osa', 'Os05g0443500' => 'osa', 'Os07g0251500' => 'osa', 'Os08g0104600' => 'osa', 'Peaxi162Scf00003g00047' => 'pax', 'Peaxi162Scf00003g00052' => 'pax', 'Peaxi162Scf00003g00394' => 'pax', 'Peaxi162Scf00091g00621' => 'pax', 'Peaxi162Scf00152g00146' => 'pax', 'Peaxi162Scf00173g00025' => 'pax', 'Peaxi162Scf00195g00102' => 'pax', 'Peaxi162Scf00402g00013' => 'pax', 'Peaxi162Scf00519g00618' => 'pax', 'PGR004G2838' => 'pgr', 'PGR044G2275' => 'pgr', 'PGR102G1377' => 'pgr', 'PGR119G1245' => 'pgr', 'PGR142G4449' => 'pgr', 'PGSC0003DMG400004532' => 'stu', 'PGSC0003DMG400011950' => 'stu', 'PGSC0003DMG400023391' => 'stu', 'PGSC0003DMG400023985' => 'stu', 'PGSC0003DMG400026360' => 'stu', 'PGSC0003DMG400035711' => 'stu', 'PGSC0003DMG400037286' => 'stu', 'PGSC0003DMG402005881' => 'stu', 'Phvul.002G045400' => 'pvu', 'Phvul.006G216600' => 'pvu', 'Phvul.006G216700' => 'pvu', 'Phvul.006G216800' => 'pvu', 'Phvul.007G022500' => 'pvu', 'Phvul.011G094400' => 'pvu', 'Potri.001G470700' => 'ptr', 'Potri.003G015200' => 'ptr', 'Potri.004G202500' => 'ptr', 'Potri.004G218400' => 'ptr', 'Potri.008G020100' => 'ptr', 'Potri.008G153200' => 'ptr', 'Potri.009G163800' => 'ptr', 'Potri.010G087300' => 'ptr', 'Potri.010G239100' => 'ptr', 'Pp3c10_16100' => 'ppa', 'Pp3c10_16880' => 'ppa', 'Pp3c16_6230' => 'ppa', 'Pp3c17_18910' => 'ppa', 'Pp3c3_22119' => 'ppa', 'Pp3c3_22140' => 'ppa', 'Pp3c4_8159' => 'ppa', 'Pp3c4_8171' => 'ppa', 'Pp3c4_8330' => 'ppa', 'PRCOL_00004098' => 'pco', 'Prupe.1G013900' => 'ppe', 'Prupe.1G226300' => 'ppe', 'Prupe.1G573600' => 'ppe', 'Prupe.6G130100' => 'ppe', 'Psat3g090040' => 'psa', 'Psat4g210440' => 'psa', 'Psat6g231040' => 'psa', 'Psat6g231080' => 'psa', 'Psat7g063000' => 'psa', 'Psat7g188000' => 'psa', 'Psat7g188040' => 'psa', 'PSO017G0206' => 'pso', 'PSO170G0501' => 'pso', 'PSO170G6422' => 'pso', 'PSO210G7739' => 'pso', 'PSO339G1808' => 'pso', 'PSO339G6135' => 'pso', 'PSO384G0010' => 'pso', 'PSO384G0964' => 'pso', 'PSO761G0050' => 'pso', 'PSO782G4085' => 'pso', 'QL01p012264' => 'qlo', 'QL02p099491' => 'qlo', 'QL03p033868' => 'qlo', 'QL04p046678' => 'qlo', 'QL06p002448' => 'qlo', 'RcHm_v2.0_Chr4g0416181' => 'rch', 'RcHm_v2.0_Chr5g0044701' => 'rch', 'RcHm_v2.0_Chr6g0265781' => 'rch', 'RcHm_v2.0_Chr7g0221031' => 'rch', 'Rhsim04G0202000' => 'rsi', 'Rhsim11G0127300' => 'rsi', 'Rhsim13G0111800' => 'rsi', 'Sabra01G0165600' => 'sbr', 'Sabra03G0008300' => 'sbr', 'Sabra04G0136900' => 'sbr', 'Sabra08G0013400' => 'sbr', 'Sabra08G0116800' => 'sbr', 'Sabra09G0128000' => 'sbr', 'Sabra10G0055500' => 'sbr', 'Sabra10G0073300' => 'sbr', 'SalBow3G0385' => 'sbo', 'SalBow3G1119' => 'sbo', 'SalBow3G2005' => 'sbo', 'SalBow6G2563' => 'sbo', 'SalBow6G6386' => 'sbo', 'Sc06g0008800' => 'sci', 'Sc07g0004950' => 'sci', 'Sc09g0005340' => 'sci', 'Sc13g0004410' => 'sci', 'Sc21g0007090' => 'sci', 'Sed0009285' => 'sed', 'Sed0017583' => 'sed', 'Sed0019699' => 'sed', 'Sed0023107' => 'sed', 'SEGI_10916' => 'sgi', 'SEGI_16217' => 'sgi', 'SEGI_19466' => 'sgi', 'SEGI_41115' => 'sgi', 'SGA_v2.0_scaffold111G31534' => 'sas', 'SGA_v2.0_scaffold22G09864' => 'sas', 'SGA_v2.0_scaffold338G49219' => 'sas', 'SGA_v2.0_scaffold92G28298' => 'sas', 'SMO119G0064' => 'smo', 'SMO223G0038' => 'smo', 'SMO347G0584' => 'smo', 'SMO351G0010' => 'smo', 'SMO356G0404' => 'smo', 'Solyc01g103920.3' => 'sly', 'Solyc04g009710.2' => 'sly', 'Solyc05g055280.2' => 'sly', 'Solyc10g044520.3' => 'sly', 'Solyc10g075160.1' => 'sly', 'Solyc11g006910.3' => 'sly', 'Solyc11g068430.3' => 'sly', 'Sopen01g046310' => 'spe', 'Sopen03g001200' => 'spe', 'Sopen04g004830' => 'spe', 'Sopen05g033720' => 'spe', 'Sopen06g030740' => 'spe', 'Sopen10g013090' => 'spe', 'Sopen10g027630' => 'spe', 'Sopen10g027640' => 'spe', 'Sopen11g002820' => 'spe', 'Sopen11g027140' => 'spe', 'Sp1g09680' => 'spa', 'Sp2g03630' => 'spa', 'Sp4g10320' => 'spa', 'Sp6g33400' => 'spa', 'Sp7g13030' => 'spa', 'TAR365G0317' => 'tar', 'TAR376G0979' => 'tar', 'TAR623G1665' => 'tar', 'TAR633G2373' => 'tar', 'TAR636G1400' => 'tar', 'THA.LOC104800529' => 'tha', 'THA.LOC104808547' => 'tha', 'THA.LOC104809615' => 'tha', 'THA.LOC104815724' => 'tha', 'THA.LOC104818480' => 'tha', 'THA.LOC104819179' => 'tha', 'THA.LOC104822270' => 'tha', 'THA.LOC104826425' => 'tha', 'Thecc.02G089700' => 'tca', 'Thecc.04G232300' => 'tca', 'Thecc.09G283400' => 'tca', 'Thhalv10009020m.g' => 'esa', 'Thhalv10015506m.g' => 'esa', 'Thhalv10017364m.g' => 'esa', 'Thhalv10023742m.g' => 'esa', 'Thhalv10026483m.g' => 'esa', 'TPR.G17232' => 'tpr', 'TPR.G2133' => 'tpr', 'TPR.G2498' => 'tpr', 'TPR.G31942' => 'tpr', 'TPR.G37877' => 'tpr', 'TPR.G4571' => 'tpr', 'TWI14G1113' => 'twi', 'TWI15G0426' => 'twi', 'TWI31G1005' => 'twi', 'TWI38G0513' => 'twi', 'TWI38G1484' => 'twi', 'TWI73G1098' => 'twi', 'unitig_26.g10519' => 'ugi', 'unitig_736.g22395' => 'ugi', 'unitig_747.g21234' => 'ugi', 'unitig_747.g21942' => 'ugi', 'vmacro14351' => 'vma', 'VMungo0540G0082' => 'vmu', 'VMungo0540G0405' => 'vmu', 'VMungo0540G1486' => 'vmu', 'VMungo0540G1692' => 'vmu', 'VMungo0720G2473' => 'vmu', 'VMungo1127G1562' => 'vmu', 'VMungo1215G1918' => 'vmu', 'Zm00001eb052650' => 'zma', 'Zm00001eb063710' => 'zma', 'Zm00001eb083950' => 'zma', 'Zm00001eb174420' => 'zma', 'Zm00001eb260140' => 'zma', 'Zm00001eb260150' => 'zma', 'Zm00001eb260160' => 'zma', 'Zm00001eb348290' => 'zma', 'Zm00001eb366870' => 'zma', 'Zm00001eb421930' => 'zma' ), 'gf_id' => 'HOM05D001025', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001025' ), 'data_identifier' => 'HOM05D001025', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001025', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '592', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p22650' => 'bna', 'A01p29720' => 'bna', 'A03p26560' => 'bna', 'A03p68820' => 'bna', 'A04p20980' => 'bna', 'A06p07730' => 'bna', 'A07p18260' => 'bna', 'A08p33710' => 'bna', 'A09p16970' => 'bna', 'A10p27490' => 'bna', 'Aa31LG1G17300' => 'aar', 'Aa31LG1G3910' => 'aar', 'Aa31LG2G9630' => 'aar', 'Aa31LG5G8360' => 'aar', 'Aa31LG9G2410' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4699' => 'aag', 'Actinidia23512' => 'ach', 'Actinidia37080' => 'ach', 'Ah.01g020380' => 'amhyb', 'Ah.08g215710' => 'amhyb', 'Ah.09g225110' => 'amhyb', 'Ah.10g036680' => 'amhyb', 'AL1G21940' => 'aly', 'AL2G15540' => 'aly', 'AL4G21520' => 'aly', 'AL7G40960' => 'aly', 'Aqoxy2G01191' => 'aox', 'Aqoxy2G03393' => 'aox', 'Aqoxy4G02775' => 'aox', 'Aqoxy6G00058' => 'aox', 'arahy.Tifrunner.gnm1.ann1.9X74H2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CW3FX9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R485W7' => 'arhy', 'AT1G10960' => 'ath', 'AT1G60950' => 'ath', 'AT2G27510' => 'ath', 'AT4G14890' => 'ath', 'AT5G10000' => 'ath', 'ATR0665G624' => 'atr', 'ATR0697G138' => 'atr', 'ATR0776G046' => 'atr', 'ATR1134G135' => 'atr', 'Atru.chr12.1025' => 'acertr', 'Atru.chr3.3241' => 'acertr', 'Atru.chr4.2460' => 'acertr', 'AUR62007427' => 'cqu', 'AUR62010960' => 'cqu', 'AUR62012201' => 'cqu', 'AUR62021470' => 'cqu', 'AUR62022834' => 'cqu', 'AUR62033635' => 'cqu', 'AUR62036186' => 'cqu', 'BcaB01g03077' => 'bca', 'BcaB02g10093' => 'bca', 'BcaB04g20295' => 'bca', 'BcaB06g28147' => 'bca', 'BcaB07g31253' => 'bca', 'BcaC01g04946' => 'bca', 'BcaC02g10614' => 'bca', 'BcaC02g10885' => 'bca', 'BcaC04g19356' => 'bca', 'BcaC04g22297' => 'bca', 'BcaC05g24977' => 'bca', 'BcaC06g31823' => 'bca', 'BcaC07g38633' => 'bca', 'BcaC09g49353' => 'bca', 'BcaC09g50168' => 'bca', 'BcaNung00322' => 'bca', 'BcaNung04769' => 'bca', 'BolC1t02753H' => 'bol', 'BolC1t03721H' => 'bol', 'BolC3t15525H' => 'bol', 'BolC4t23903H' => 'bol', 'BolC4t24231H' => 'bol', 'BolC4t27209H' => 'bol', 'BolC5t29671H' => 'bol', 'BolC8t49044H' => 'bol', 'BolC9t54999H' => 'bol', 'BolC9t59517H' => 'bol', 'BraA01t02178Z' => 'bra', 'BraA01t03099Z' => 'bra', 'BraA03t11867Z' => 'bra', 'BraA04t17667Z' => 'bra', 'BraA07t29542Z' => 'bra', 'BraA08t35287Z' => 'bra', 'BraA09t37334Z' => 'bra', 'BraA10t44801Z' => 'bra', 'BraSC39t46181Z' => 'bra', 'C01p28240' => 'bna', 'C01p37530' => 'bna', 'C03p31820' => 'bna', 'C04p24080' => 'bna', 'C04p25790' => 'bna', 'C04p56770' => 'bna', 'C05p09310' => 'bna', 'C09p21010' => 'bna', 'C09p67560' => 'bna', 'CAN.G1324.7' => 'can', 'CAN.G1358.10' => 'can', 'CAN.G1550.2' => 'can', 'CAN.G186.56' => 'can', 'CAN.G1965.1' => 'can', 'CAN.G645.15' => 'can', 'CAN.G798.26' => 'can', 'CAN.G798.27' => 'can', 'CAN.G798.29' => 'can', 'CAN.G919.31' => 'can', 'CANSAT11G0133' => 'cansat', 'CANSAT11G1171' => 'cansat', 'CANSAT11G2056' => 'cansat', 'CANSAT56G1202' => 'cansat', 'CANSAT56G1514' => 'cansat', 'CANSAT78G0455' => 'cansat', 'CARHR011190' => 'chi', 'CARHR051980' => 'chi', 'CARHR120170' => 'chi', 'CARHR203310' => 'chi', 'CARHR221490' => 'chi', 'Carub.0001s1054' => 'cru', 'Carub.0002s0431' => 'cru', 'Carub.0004s0818' => 'cru', 'Carub.0006s0846' => 'cru', 'Carub.0007s2722' => 'cru', 'Ca_00058_v3' => 'car', 'Ca_17831_v3' => 'car', 'Ca_19408_v3' => 'car', 'Ca_24397_v3' => 'car', 'Ca_25664_v3' => 'car', 'CBR_g21818' => 'cbr', 'CBR_g31195' => 'cbr', 'CBR_g32282' => 'cbr', 'CBR_g39599' => 'cbr', 'CBR_g49410' => 'cbr', 'Cc01_g09120' => 'ccan', 'Cc01_g09130' => 'ccan', 'Cc02_g09630' => 'ccan', 'Cc02_g22810' => 'ccan', 'Cc03_g03810' => 'ccan', 'CDE02G3718' => 'cde', 'CDE04G3183' => 'cde', 'CDE07G1046' => 'cde', 'CDE08G0480' => 'cde', 'Cfa005493' => 'cfa', 'Cfa010312' => 'cfa', 'Cfa015648' => 'cfa', 'Ciclev10002793m.g' => 'ccl', 'Ciclev10003356m.g' => 'ccl', 'Ciclev10006141m.g' => 'ccl', 'Ciclev10016676m.g' => 'ccl', 'Ciclev10017081m.g' => 'ccl', 'Ciclev10029499m.g' => 'ccl', 'CiPaw.01G166300' => 'cil', 'CiPaw.06G145600' => 'cil', 'CiPaw.13G040100' => 'cil', 'CiPaw.13G135800' => 'cil', 'ClCG01G012230' => 'cla', 'ClCG05G009510' => 'cla', 'ClCG08G008270' => 'cla', 'COL.COLO4_11763' => 'col', 'COL.COLO4_19876' => 'col', 'COL.COLO4_21481' => 'col', 'Cpa.g.sc118.34' => 'cpa', 'Cpa.g.sc32.13' => 'cpa', 'Cpa.g.sc58.103' => 'cpa', 'Cre03.g183850' => 'cre', 'Cre06.g306350' => 'cre', 'Cre07.g334800' => 'cre', 'Cre12.g487900' => 'cre', 'Cre14.g626700' => 'cre', 'Cre16.g658400' => 'cre', 'Cre17.g700950' => 'cre', 'CsaV3_1G014830' => 'csa', 'CsaV3_3G013320' => 'csa', 'CsaV3_3G019210' => 'csa', 'CsaV3_3G019220' => 'csa', 'CsaV3_6G004230' => 'csa', 'CSS0003773' => 'camsi', 'CSS0004563' => 'camsi', 'CSS0013949' => 'camsi', 'CSS0025971' => 'camsi', 'CSS0028570' => 'camsi', 'CSS0033127' => 'camsi', 'CSS0036051' => 'camsi', 'CSS0040087' => 'camsi', 'CSS0043179' => 'camsi', 'DCAR_006161' => 'dca', 'DCAR_010351' => 'dca', 'DCAR_012197' => 'dca', 'DCAR_024162' => 'dca', 'Dinv01030' => 'din', 'Dinv10924' => 'din', 'Dinv11835' => 'din', 'Dinv22841' => 'din', 'Dinv42553' => 'din', 'Duzib052G0560' => 'dzi', 'Duzib132G0389' => 'dzi', 'Duzib150G1181' => 'dzi', 'Duzib168G0623' => 'dzi', 'Duzib170G1036' => 'dzi', 'Duzib212G0200' => 'dzi', 'Duzib248G0194' => 'dzi', 'ECA232G2193' => 'eca', 'ECA233G0302' => 'eca', 'ECA234G2813' => 'eca', 'ECA234G4866' => 'eca', 'ECA240G3932' => 'eca', 'ECA248G0385' => 'eca', 'EL10Ac2g04781' => 'bvu', 'EL10Ac3g06445' => 'bvu', 'EL10Ac7g15825' => 'bvu', 'EL10Ac8g18550' => 'bvu', 'Eucgr.B03849' => 'egr', 'Eucgr.I02744' => 'egr', 'Eucgr.J00264' => 'egr', 'Eucgr.J00493' => 'egr', 'FAN04G2181' => 'fan', 'FAN07G2666' => 'fan', 'FAN11G0024' => 'fan', 'FAN12G1105' => 'fan', 'FAN13G0302' => 'fan', 'FAN15G2781' => 'fan', 'FAN16G1274' => 'fan', 'FAN17G2988' => 'fan', 'FAN18G2621' => 'fan', 'FAN21G0013' => 'fan', 'FAN22G1211' => 'fan', 'FAN25G3626' => 'fan', 'FvH4_2g09491' => 'fve', 'FvH4_3g24910' => 'fve', 'FvH4_4g15630' => 'fve', 'FvH4_5g28820' => 'fve', 'Glyma.01G238000' => 'gma', 'Glyma.05G168400' => 'gma', 'Glyma.08G126800' => 'gma', 'Glyma.08G188500' => 'gma', 'Glyma.10G278900' => 'gma', 'Glyma.11G005700' => 'gma', 'Glyma.11G183300' => 'gma', 'Glyma.12G089200' => 'gma', 'Glyma.12G169400' => 'gma', 'Glyma.12G169500' => 'gma', 'Glyma.12G169600' => 'gma', 'Glyma.20G110800' => 'gma', 'Gohir.A03G192900' => 'ghi', 'Gohir.A03G193000' => 'ghi', 'Gohir.A05G080700' => 'ghi', 'Gohir.A09G216000' => 'ghi', 'Gohir.A12G027700' => 'ghi', 'Gohir.A13G036200' => 'ghi', 'Gohir.A13G222600' => 'ghi', 'Gohir.D02G213900' => 'ghi', 'Gohir.D02G214000' => 'ghi', 'Gohir.D05G083700' => 'ghi', 'Gohir.D05G083800' => 'ghi', 'Gohir.D05G083850' => 'ghi', 'Gohir.D08G015400' => 'ghi', 'Gohir.D09G218400' => 'ghi', 'Gohir.D12G027100' => 'ghi', 'Gohir.D13G034500' => 'ghi', 'Gohir.D13G227400' => 'ghi', 'Gorai.005G241800' => 'gra', 'Gorai.005G241900' => 'gra', 'Gorai.006G239400' => 'gra', 'Gorai.008G027600' => 'gra', 'Gorai.009G085400' => 'gra', 'Gorai.009G085500' => 'gra', 'Gorai.013G039000' => 'gra', 'Gorai.013G194800' => 'gra', 'Gorai.013G257900' => 'gra', 'GSVIVG01000982001' => 'vvi', 'GSVIVG01017981001' => 'vvi', 'HanXRQChr01g0024061' => 'han', 'HanXRQChr09g0247831' => 'han', 'HanXRQChr10g0294611' => 'han', 'HanXRQChr10g0294621' => 'han', 'HanXRQChr11g0346821' => 'han', 'HanXRQChr13g0397461' => 'han', 'HanXRQChr16g0513651' => 'han', 'HanXRQChr16g0513701' => 'han', 'Haze_00897' => 'cav', 'Haze_01745' => 'cav', 'Haze_02486' => 'cav', 'Haze_02487' => 'cav', 'Haze_23374' => 'cav', 'Hma1.2p1_0578F.1_g182520' => 'hma', 'Hma1.2p1_0602F.1_g187350' => 'hma', 'Hma1.2p1_0602F.1_g187360' => 'hma', 'Hma1.2p1_0874F.1_g231320' => 'hma', 'Hma1.2p1_1197F.1_g266210' => 'hma', 'Hma1.2p1_1197F.1_g266220' => 'hma', 'Hma1.2p1_2167F.1_g315895' => 'hma', 'Hma1.2p1_2190F.1_g316640' => 'hma', 'Hma1.2p1_3645F.1_g337153' => 'hma', 'HPP92_004907' => 'vpl', 'HPP92_012134' => 'vpl', 'HPP92_025136' => 'vpl', 'HPP92_026087' => 'vpl', 'Hund06782' => 'sun', 'Hund06784' => 'sun', 'Lalb_Chr01g0004861' => 'lal', 'Lalb_Chr02g0140591' => 'lal', 'Lalb_Chr02g0140611' => 'lal', 'Lalb_Chr03g0028101' => 'lal', 'Lalb_Chr07g0185791' => 'lal', 'Lalb_Chr12g0204491' => 'lal', 'Lalb_Chr13g0295671' => 'lal', 'Lalb_Chr19g0136461' => 'lal', 'Lalb_Chr21g0309191' => 'lal', 'Lj1g0028158' => 'lja', 'Lj1P236T38' => 'lonja', 'Lj2C32G2' => 'lonja', 'Lj2P944T8' => 'lonja', 'Lj2P963T15' => 'lonja', 'Lj3g0011788' => 'lja', 'Lj4g0025027' => 'lja', 'Lj5P255T36' => 'lonja', 'Lj6g0018866' => 'lja', 'Lj6P608T31' => 'lonja', 'LjContig00408g0008879' => 'lja', 'Lsat_1_v5_gn_5_105820' => 'lsa', 'Lsat_1_v5_gn_6_38800' => 'lsa', 'Lsat_1_v5_gn_7_67141' => 'lsa', 'Manes.04G003400' => 'mes', 'Manes.07G020000' => 'mes', 'Manes.07G020100' => 'mes', 'Manes.07G020150' => 'mes', 'Manes.10G061500' => 'mes', 'Manes.10G123200' => 'mes', 'Manes.11G161900' => 'mes', 'Manes.15G029300' => 'mes', 'Mapoly0071s0018' => 'mpo', 'Mapoly0082s0023' => 'mpo', 'Mapoly3477s0001' => 'mpo', 'MBI05_g31233_MAGBIO' => 'mbi', 'MBI09_g05946_MAGBIO' => 'mbi', 'MBI09_g05947_MAGBIO' => 'mbi', 'MBI17_g08346_MAGBIO' => 'mbi', 'MCO04G038' => 'mco', 'MCO09G370' => 'mco', 'MCO13G605' => 'mco', 'MD00G1075500' => 'mdo', 'MD03G1144300' => 'mdo', 'MD08G1236800' => 'mdo', 'MD13G1193300' => 'mdo', 'MD15G1428700' => 'mdo', 'Medtr1g112030' => 'mtr', 'Medtr1g112050' => 'mtr', 'Medtr2g006290' => 'mtr', 'Medtr2g086510' => 'mtr', 'Medtr4g053120' => 'mtr', 'Medtr5g006320' => 'mtr', 'Medtr8g088720' => 'mtr', 'MELO3C004712.2' => 'cme', 'MELO3C006533.2' => 'cme', 'MELO3C019438.2' => 'cme', 'MELO3C019440.2' => 'cme', 'MELO3C019441.2' => 'cme', 'MELO3C019895.2' => 'cme', 'Migut.B00811' => 'egut', 'Migut.D02447' => 'egut', 'Migut.F00875' => 'egut', 'Migut.N00186' => 'egut', 'Migut.N01051' => 'egut', 'Migut.N02491' => 'egut', 'Migut.O00784' => 'egut', 'MSTRG.12367' => 'ama', 'MSTRG.18756' => 'ama', 'MSTRG.21042' => 'ama', 'Nitab4.5_0000559g0040' => 'nta', 'Nitab4.5_0000667g0190' => 'nta', 'Nitab4.5_0000755g0160' => 'nta', 'Nitab4.5_0001216g0080' => 'nta', 'Nitab4.5_0004069g0040' => 'nta', 'Nitab4.5_0004129g0010' => 'nta', 'Nitab4.5_0005744g0030' => 'nta', 'Nitab4.5_0006996g0030' => 'nta', 'Nitab4.5_0008971g0040' => 'nta', 'Nitab4.5_0009769g0020' => 'nta', 'Nitab4.5_0009833g0010' => 'nta', 'Nitab4.5_0013140g0020' => 'nta', 'Nn003s41376' => 'nnu', 'Nn1g01857' => 'nnu', 'Nn1g03611' => 'nnu', 'Nn1g06853' => 'nnu', 'Nn3g18360' => 'nnu', 'Nn4g26328' => 'nnu', 'Nn5g27531' => 'nnu', 'Nn6g34899' => 'nnu', 'Nn7g36299' => 'nnu', 'Oeu021485.1' => 'oeu', 'Oeu022433.1' => 'oeu', 'Oeu032111.1' => 'oeu', 'Oeu051608.1' => 'oeu', 'Os01g0860601' => 'osa', 'Os03g0659200' => 'osa', 'Os03g0835900' => 'osa', 'Os04g0412200' => 'osa', 'Os05g0443500' => 'osa', 'Os07g0251500' => 'osa', 'Os08g0104600' => 'osa', 'Peaxi162Scf00003g00047' => 'pax', 'Peaxi162Scf00003g00052' => 'pax', 'Peaxi162Scf00003g00394' => 'pax', 'Peaxi162Scf00091g00621' => 'pax', 'Peaxi162Scf00152g00146' => 'pax', 'Peaxi162Scf00173g00025' => 'pax', 'Peaxi162Scf00195g00102' => 'pax', 'Peaxi162Scf00402g00013' => 'pax', 'Peaxi162Scf00519g00618' => 'pax', 'PGR004G2838' => 'pgr', 'PGR044G2275' => 'pgr', 'PGR102G1377' => 'pgr', 'PGR119G1245' => 'pgr', 'PGR142G4449' => 'pgr', 'PGSC0003DMG400004532' => 'stu', 'PGSC0003DMG400011950' => 'stu', 'PGSC0003DMG400023391' => 'stu', 'PGSC0003DMG400023985' => 'stu', 'PGSC0003DMG400026360' => 'stu', 'PGSC0003DMG400035711' => 'stu', 'PGSC0003DMG400037286' => 'stu', 'PGSC0003DMG402005881' => 'stu', 'Phvul.002G045400' => 'pvu', 'Phvul.006G216600' => 'pvu', 'Phvul.006G216700' => 'pvu', 'Phvul.006G216800' => 'pvu', 'Phvul.007G022500' => 'pvu', 'Phvul.011G094400' => 'pvu', 'Potri.001G470700' => 'ptr', 'Potri.003G015200' => 'ptr', 'Potri.004G202500' => 'ptr', 'Potri.004G218400' => 'ptr', 'Potri.008G020100' => 'ptr', 'Potri.008G153200' => 'ptr', 'Potri.009G163800' => 'ptr', 'Potri.010G087300' => 'ptr', 'Potri.010G239100' => 'ptr', 'Pp3c10_16100' => 'ppa', 'Pp3c10_16880' => 'ppa', 'Pp3c16_6230' => 'ppa', 'Pp3c17_18910' => 'ppa', 'Pp3c3_22119' => 'ppa', 'Pp3c3_22140' => 'ppa', 'Pp3c4_8159' => 'ppa', 'Pp3c4_8171' => 'ppa', 'Pp3c4_8330' => 'ppa', 'PRCOL_00004098' => 'pco', 'Prupe.1G013900' => 'ppe', 'Prupe.1G226300' => 'ppe', 'Prupe.1G573600' => 'ppe', 'Prupe.6G130100' => 'ppe', 'Psat3g090040' => 'psa', 'Psat4g210440' => 'psa', 'Psat6g231040' => 'psa', 'Psat6g231080' => 'psa', 'Psat7g063000' => 'psa', 'Psat7g188000' => 'psa', 'Psat7g188040' => 'psa', 'PSO017G0206' => 'pso', 'PSO170G0501' => 'pso', 'PSO170G6422' => 'pso', 'PSO210G7739' => 'pso', 'PSO339G1808' => 'pso', 'PSO339G6135' => 'pso', 'PSO384G0010' => 'pso', 'PSO384G0964' => 'pso', 'PSO761G0050' => 'pso', 'PSO782G4085' => 'pso', 'QL01p012264' => 'qlo', 'QL02p099491' => 'qlo', 'QL03p033868' => 'qlo', 'QL04p046678' => 'qlo', 'QL06p002448' => 'qlo', 'RcHm_v2.0_Chr4g0416181' => 'rch', 'RcHm_v2.0_Chr5g0044701' => 'rch', 'RcHm_v2.0_Chr6g0265781' => 'rch', 'RcHm_v2.0_Chr7g0221031' => 'rch', 'Rhsim04G0202000' => 'rsi', 'Rhsim11G0127300' => 'rsi', 'Rhsim13G0111800' => 'rsi', 'Sabra01G0165600' => 'sbr', 'Sabra03G0008300' => 'sbr', 'Sabra04G0136900' => 'sbr', 'Sabra08G0013400' => 'sbr', 'Sabra08G0116800' => 'sbr', 'Sabra09G0128000' => 'sbr', 'Sabra10G0055500' => 'sbr', 'Sabra10G0073300' => 'sbr', 'SalBow3G0385' => 'sbo', 'SalBow3G1119' => 'sbo', 'SalBow3G2005' => 'sbo', 'SalBow6G2563' => 'sbo', 'SalBow6G6386' => 'sbo', 'Sc06g0008800' => 'sci', 'Sc07g0004950' => 'sci', 'Sc09g0005340' => 'sci', 'Sc13g0004410' => 'sci', 'Sc21g0007090' => 'sci', 'Sed0009285' => 'sed', 'Sed0017583' => 'sed', 'Sed0019699' => 'sed', 'Sed0023107' => 'sed', 'SEGI_10916' => 'sgi', 'SEGI_16217' => 'sgi', 'SEGI_19466' => 'sgi', 'SEGI_41115' => 'sgi', 'SGA_v2.0_scaffold111G31534' => 'sas', 'SGA_v2.0_scaffold22G09864' => 'sas', 'SGA_v2.0_scaffold338G49219' => 'sas', 'SGA_v2.0_scaffold92G28298' => 'sas', 'SMO119G0064' => 'smo', 'SMO223G0038' => 'smo', 'SMO347G0584' => 'smo', 'SMO351G0010' => 'smo', 'SMO356G0404' => 'smo', 'Solyc01g103920.3' => 'sly', 'Solyc04g009710.2' => 'sly', 'Solyc05g055280.2' => 'sly', 'Solyc10g044520.3' => 'sly', 'Solyc10g075160.1' => 'sly', 'Solyc11g006910.3' => 'sly', 'Solyc11g068430.3' => 'sly', 'Sopen01g046310' => 'spe', 'Sopen03g001200' => 'spe', 'Sopen04g004830' => 'spe', 'Sopen05g033720' => 'spe', 'Sopen06g030740' => 'spe', 'Sopen10g013090' => 'spe', 'Sopen10g027630' => 'spe', 'Sopen10g027640' => 'spe', 'Sopen11g002820' => 'spe', 'Sopen11g027140' => 'spe', 'Sp1g09680' => 'spa', 'Sp2g03630' => 'spa', 'Sp4g10320' => 'spa', 'Sp6g33400' => 'spa', 'Sp7g13030' => 'spa', 'TAR365G0317' => 'tar', 'TAR376G0979' => 'tar', 'TAR623G1665' => 'tar', 'TAR633G2373' => 'tar', 'TAR636G1400' => 'tar', 'THA.LOC104800529' => 'tha', 'THA.LOC104808547' => 'tha', 'THA.LOC104809615' => 'tha', 'THA.LOC104815724' => 'tha', 'THA.LOC104818480' => 'tha', 'THA.LOC104819179' => 'tha', 'THA.LOC104822270' => 'tha', 'THA.LOC104826425' => 'tha', 'Thecc.02G089700' => 'tca', 'Thecc.04G232300' => 'tca', 'Thecc.09G283400' => 'tca', 'Thhalv10009020m.g' => 'esa', 'Thhalv10015506m.g' => 'esa', 'Thhalv10017364m.g' => 'esa', 'Thhalv10023742m.g' => 'esa', 'Thhalv10026483m.g' => 'esa', 'TPR.G17232' => 'tpr', 'TPR.G2133' => 'tpr', 'TPR.G2498' => 'tpr', 'TPR.G31942' => 'tpr', 'TPR.G37877' => 'tpr', 'TPR.G4571' => 'tpr', 'TWI14G1113' => 'twi', 'TWI15G0426' => 'twi', 'TWI31G1005' => 'twi', 'TWI38G0513' => 'twi', 'TWI38G1484' => 'twi', 'TWI73G1098' => 'twi', 'unitig_26.g10519' => 'ugi', 'unitig_736.g22395' => 'ugi', 'unitig_747.g21234' => 'ugi', 'unitig_747.g21942' => 'ugi', 'vmacro14351' => 'vma', 'VMungo0540G0082' => 'vmu', 'VMungo0540G0405' => 'vmu', 'VMungo0540G1486' => 'vmu', 'VMungo0540G1692' => 'vmu', 'VMungo0720G2473' => 'vmu', 'VMungo1127G1562' => 'vmu', 'VMungo1215G1918' => 'vmu', 'Zm00001eb052650' => 'zma', 'Zm00001eb063710' => 'zma', 'Zm00001eb083950' => 'zma', 'Zm00001eb174420' => 'zma', 'Zm00001eb260140' => 'zma', 'Zm00001eb260150' => 'zma', 'Zm00001eb260160' => 'zma', 'Zm00001eb348290' => 'zma', 'Zm00001eb366870' => 'zma', 'Zm00001eb421930' => 'zma' ) $gf_id = 'HOM05D001025' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001025' ) $data_identifier = 'HOM05D001025' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 19, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 2, 'amhyb' => (int) 4, 'aly' => (int) 4, 'aox' => (int) 4, 'arhy' => (int) 3, 'ath' => (int) 5, 'atr' => (int) 4, 'acertr' => (int) 3, 'cqu' => (int) 7, 'bca' => (int) 17, 'bol' => (int) 10, 'bra' => (int) 9, 'can' => (int) 10, 'cansat' => (int) 6, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 5, 'cbr' => (int) 5, 'ccan' => (int) 5, 'cde' => (int) 4, 'cfa' => (int) 3, 'ccl' => (int) 6, 'cil' => (int) 4, 'cla' => (int) 3, 'col' => (int) 3, 'cpa' => (int) 3, 'cre' => (int) 7, 'csa' => (int) 5, 'camsi' => (int) 9, 'dca' => (int) 4, 'din' => (int) 5, 'dzi' => (int) 7, 'eca' => (int) 6, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 12, 'fve' => (int) 4, 'gma' => (int) 12, 'ghi' => (int) 17, 'gra' => (int) 9, 'vvi' => (int) 2, 'han' => (int) 8, 'cav' => (int) 5, 'hma' => (int) 9, 'vpl' => (int) 4, 'sun' => (int) 2, 'lal' => (int) 9, 'lja' => (int) 5, 'lonja' => (int) 6, 'lsa' => (int) 3, 'mes' => (int) 8, 'mpo' => (int) 3, 'mbi' => (int) 4, 'mco' => (int) 3, 'mdo' => (int) 5, 'mtr' => (int) 7, 'cme' => (int) 6, 'egut' => (int) 7, 'ama' => (int) 3, 'nta' => (int) 12, 'nnu' => (int) 9, 'oeu' => (int) 4, 'osa' => (int) 7, 'pax' => (int) 9, 'pgr' => (int) 5, 'stu' => (int) 8, 'pvu' => (int) 6, 'ptr' => (int) 9, 'ppa' => (int) 9, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 7, 'pso' => (int) 10, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 3, 'sbr' => (int) 8, 'sbo' => (int) 5, 'sci' => (int) 5, 'sed' => (int) 4, 'sgi' => (int) 4, 'sas' => (int) 4, 'smo' => (int) 5, 'sly' => (int) 7, 'spe' => (int) 10, 'spa' => (int) 5, 'tar' => (int) 5, 'tha' => (int) 8, 'tca' => (int) 3, 'esa' => (int) 5, 'tpr' => (int) 6, 'twi' => (int) 6, 'ugi' => (int) 4, 'vma' => (int) 1, 'vmu' => (int) 7, 'zma' => (int) 10 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb421930' $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' => 'HOM05D001025', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '592', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p22650' => 'bna', 'A01p29720' => 'bna', 'A03p26560' => 'bna', 'A03p68820' => 'bna', 'A04p20980' => 'bna', 'A06p07730' => 'bna', 'A07p18260' => 'bna', 'A08p33710' => 'bna', 'A09p16970' => 'bna', 'A10p27490' => 'bna', 'Aa31LG1G17300' => 'aar', 'Aa31LG1G3910' => 'aar', 'Aa31LG2G9630' => 'aar', 'Aa31LG5G8360' => 'aar', 'Aa31LG9G2410' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4699' => 'aag', 'Actinidia23512' => 'ach', 'Actinidia37080' => 'ach', 'Ah.01g020380' => 'amhyb', 'Ah.08g215710' => 'amhyb', 'Ah.09g225110' => 'amhyb', 'Ah.10g036680' => 'amhyb', 'AL1G21940' => 'aly', 'AL2G15540' => 'aly', 'AL4G21520' => 'aly', 'AL7G40960' => 'aly', 'Aqoxy2G01191' => 'aox', 'Aqoxy2G03393' => 'aox', 'Aqoxy4G02775' => 'aox', 'Aqoxy6G00058' => 'aox', 'arahy.Tifrunner.gnm1.ann1.9X74H2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CW3FX9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R485W7' => 'arhy', 'AT1G10960' => 'ath', 'AT1G60950' => 'ath', 'AT2G27510' => 'ath', 'AT4G14890' => 'ath', 'AT5G10000' => 'ath', 'ATR0665G624' => 'atr', 'ATR0697G138' => 'atr', 'ATR0776G046' => 'atr', 'ATR1134G135' => 'atr', 'Atru.chr12.1025' => 'acertr', 'Atru.chr3.3241' => 'acertr', 'Atru.chr4.2460' => 'acertr', 'AUR62007427' => 'cqu', 'AUR62010960' => 'cqu', 'AUR62012201' => 'cqu', 'AUR62021470' => 'cqu', 'AUR62022834' => 'cqu', 'AUR62033635' => 'cqu', 'AUR62036186' => 'cqu', 'BcaB01g03077' => 'bca', 'BcaB02g10093' => 'bca', 'BcaB04g20295' => 'bca', 'BcaB06g28147' => 'bca', 'BcaB07g31253' => 'bca', 'BcaC01g04946' => 'bca', 'BcaC02g10614' => 'bca', 'BcaC02g10885' => 'bca', 'BcaC04g19356' => 'bca', 'BcaC04g22297' => 'bca', 'BcaC05g24977' => 'bca', 'BcaC06g31823' => 'bca', 'BcaC07g38633' => 'bca', 'BcaC09g49353' => 'bca', 'BcaC09g50168' => 'bca', 'BcaNung00322' => 'bca', 'BcaNung04769' => 'bca', 'BolC1t02753H' => 'bol', 'BolC1t03721H' => 'bol', 'BolC3t15525H' => 'bol', 'BolC4t23903H' => 'bol', 'BolC4t24231H' => 'bol', 'BolC4t27209H' => 'bol', 'BolC5t29671H' => 'bol', 'BolC8t49044H' => 'bol', 'BolC9t54999H' => 'bol', 'BolC9t59517H' => 'bol', 'BraA01t02178Z' => 'bra', 'BraA01t03099Z' => 'bra', 'BraA03t11867Z' => 'bra', 'BraA04t17667Z' => 'bra', 'BraA07t29542Z' => 'bra', 'BraA08t35287Z' => 'bra', 'BraA09t37334Z' => 'bra', 'BraA10t44801Z' => 'bra', 'BraSC39t46181Z' => 'bra', 'C01p28240' => 'bna', 'C01p37530' => 'bna', 'C03p31820' => 'bna', 'C04p24080' => 'bna', 'C04p25790' => 'bna', 'C04p56770' => 'bna', 'C05p09310' => 'bna', 'C09p21010' => 'bna', 'C09p67560' => 'bna', 'CAN.G1324.7' => 'can', 'CAN.G1358.10' => 'can', 'CAN.G1550.2' => 'can', 'CAN.G186.56' => 'can', 'CAN.G1965.1' => 'can', 'CAN.G645.15' => 'can', 'CAN.G798.26' => 'can', 'CAN.G798.27' => 'can', 'CAN.G798.29' => 'can', 'CAN.G919.31' => 'can', 'CANSAT11G0133' => 'cansat', 'CANSAT11G1171' => 'cansat', 'CANSAT11G2056' => 'cansat', 'CANSAT56G1202' => 'cansat', 'CANSAT56G1514' => 'cansat', 'CANSAT78G0455' => 'cansat', 'CARHR011190' => 'chi', 'CARHR051980' => 'chi', 'CARHR120170' => 'chi', 'CARHR203310' => 'chi', 'CARHR221490' => 'chi', 'Carub.0001s1054' => 'cru', 'Carub.0002s0431' => 'cru', 'Carub.0004s0818' => 'cru', 'Carub.0006s0846' => 'cru', 'Carub.0007s2722' => 'cru', 'Ca_00058_v3' => 'car', 'Ca_17831_v3' => 'car', 'Ca_19408_v3' => 'car', 'Ca_24397_v3' => 'car', 'Ca_25664_v3' => 'car', 'CBR_g21818' => 'cbr', 'CBR_g31195' => 'cbr', 'CBR_g32282' => 'cbr', 'CBR_g39599' => 'cbr', 'CBR_g49410' => 'cbr', 'Cc01_g09120' => 'ccan', 'Cc01_g09130' => 'ccan', 'Cc02_g09630' => 'ccan', 'Cc02_g22810' => 'ccan', 'Cc03_g03810' => 'ccan', 'CDE02G3718' => 'cde', 'CDE04G3183' => 'cde', 'CDE07G1046' => 'cde', 'CDE08G0480' => 'cde', 'Cfa005493' => 'cfa', 'Cfa010312' => 'cfa', 'Cfa015648' => 'cfa', 'Ciclev10002793m.g' => 'ccl', 'Ciclev10003356m.g' => 'ccl', 'Ciclev10006141m.g' => 'ccl', 'Ciclev10016676m.g' => 'ccl', 'Ciclev10017081m.g' => 'ccl', 'Ciclev10029499m.g' => 'ccl', 'CiPaw.01G166300' => 'cil', 'CiPaw.06G145600' => 'cil', 'CiPaw.13G040100' => 'cil', 'CiPaw.13G135800' => 'cil', 'ClCG01G012230' => 'cla', 'ClCG05G009510' => 'cla', 'ClCG08G008270' => 'cla', 'COL.COLO4_11763' => 'col', 'COL.COLO4_19876' => 'col', 'COL.COLO4_21481' => 'col', 'Cpa.g.sc118.34' => 'cpa', 'Cpa.g.sc32.13' => 'cpa', 'Cpa.g.sc58.103' => 'cpa', 'Cre03.g183850' => 'cre', 'Cre06.g306350' => 'cre', 'Cre07.g334800' => 'cre', 'Cre12.g487900' => 'cre', 'Cre14.g626700' => 'cre', 'Cre16.g658400' => 'cre', 'Cre17.g700950' => 'cre', 'CsaV3_1G014830' => 'csa', 'CsaV3_3G013320' => 'csa', 'CsaV3_3G019210' => 'csa', 'CsaV3_3G019220' => 'csa', 'CsaV3_6G004230' => 'csa', 'CSS0003773' => 'camsi', 'CSS0004563' => 'camsi', 'CSS0013949' => 'camsi', 'CSS0025971' => 'camsi', 'CSS0028570' => 'camsi', 'CSS0033127' => 'camsi', 'CSS0036051' => 'camsi', 'CSS0040087' => 'camsi', 'CSS0043179' => 'camsi', 'DCAR_006161' => 'dca', 'DCAR_010351' => 'dca', 'DCAR_012197' => 'dca', 'DCAR_024162' => 'dca', 'Dinv01030' => 'din', 'Dinv10924' => 'din', 'Dinv11835' => 'din', 'Dinv22841' => 'din', 'Dinv42553' => 'din', 'Duzib052G0560' => 'dzi', 'Duzib132G0389' => 'dzi', 'Duzib150G1181' => 'dzi', 'Duzib168G0623' => 'dzi', 'Duzib170G1036' => 'dzi', 'Duzib212G0200' => 'dzi', 'Duzib248G0194' => 'dzi', 'ECA232G2193' => 'eca', 'ECA233G0302' => 'eca', 'ECA234G2813' => 'eca', 'ECA234G4866' => 'eca', 'ECA240G3932' => 'eca', 'ECA248G0385' => 'eca', 'EL10Ac2g04781' => 'bvu', 'EL10Ac3g06445' => 'bvu', 'EL10Ac7g15825' => 'bvu', 'EL10Ac8g18550' => 'bvu', 'Eucgr.B03849' => 'egr', 'Eucgr.I02744' => 'egr', 'Eucgr.J00264' => 'egr', 'Eucgr.J00493' => 'egr', 'FAN04G2181' => 'fan', 'FAN07G2666' => 'fan', 'FAN11G0024' => 'fan', 'FAN12G1105' => 'fan', 'FAN13G0302' => 'fan', 'FAN15G2781' => 'fan', 'FAN16G1274' => 'fan', 'FAN17G2988' => 'fan', 'FAN18G2621' => 'fan', 'FAN21G0013' => 'fan', 'FAN22G1211' => 'fan', 'FAN25G3626' => 'fan', 'FvH4_2g09491' => 'fve', 'FvH4_3g24910' => 'fve', 'FvH4_4g15630' => 'fve', 'FvH4_5g28820' => 'fve', 'Glyma.01G238000' => 'gma', 'Glyma.05G168400' => 'gma', 'Glyma.08G126800' => 'gma', 'Glyma.08G188500' => 'gma', 'Glyma.10G278900' => 'gma', 'Glyma.11G005700' => 'gma', 'Glyma.11G183300' => 'gma', 'Glyma.12G089200' => 'gma', 'Glyma.12G169400' => 'gma', 'Glyma.12G169500' => 'gma', 'Glyma.12G169600' => 'gma', 'Glyma.20G110800' => 'gma', 'Gohir.A03G192900' => 'ghi', 'Gohir.A03G193000' => 'ghi', 'Gohir.A05G080700' => 'ghi', 'Gohir.A09G216000' => 'ghi', 'Gohir.A12G027700' => 'ghi', 'Gohir.A13G036200' => 'ghi', 'Gohir.A13G222600' => 'ghi', 'Gohir.D02G213900' => 'ghi', 'Gohir.D02G214000' => 'ghi', 'Gohir.D05G083700' => 'ghi', 'Gohir.D05G083800' => 'ghi', 'Gohir.D05G083850' => 'ghi', 'Gohir.D08G015400' => 'ghi', 'Gohir.D09G218400' => 'ghi', 'Gohir.D12G027100' => 'ghi', 'Gohir.D13G034500' => 'ghi', 'Gohir.D13G227400' => 'ghi', 'Gorai.005G241800' => 'gra', 'Gorai.005G241900' => 'gra', 'Gorai.006G239400' => 'gra', 'Gorai.008G027600' => 'gra', 'Gorai.009G085400' => 'gra', 'Gorai.009G085500' => 'gra', 'Gorai.013G039000' => 'gra', 'Gorai.013G194800' => 'gra', 'Gorai.013G257900' => 'gra', 'GSVIVG01000982001' => 'vvi', 'GSVIVG01017981001' => 'vvi', 'HanXRQChr01g0024061' => 'han', 'HanXRQChr09g0247831' => 'han', 'HanXRQChr10g0294611' => 'han', 'HanXRQChr10g0294621' => 'han', 'HanXRQChr11g0346821' => 'han', 'HanXRQChr13g0397461' => 'han', 'HanXRQChr16g0513651' => 'han', 'HanXRQChr16g0513701' => 'han', 'Haze_00897' => 'cav', 'Haze_01745' => 'cav', 'Haze_02486' => 'cav', 'Haze_02487' => 'cav', 'Haze_23374' => 'cav', 'Hma1.2p1_0578F.1_g182520' => 'hma', 'Hma1.2p1_0602F.1_g187350' => 'hma', 'Hma1.2p1_0602F.1_g187360' => 'hma', 'Hma1.2p1_0874F.1_g231320' => 'hma', 'Hma1.2p1_1197F.1_g266210' => 'hma', 'Hma1.2p1_1197F.1_g266220' => 'hma', 'Hma1.2p1_2167F.1_g315895' => 'hma', 'Hma1.2p1_2190F.1_g316640' => 'hma', 'Hma1.2p1_3645F.1_g337153' => 'hma', 'HPP92_004907' => 'vpl', 'HPP92_012134' => 'vpl', 'HPP92_025136' => 'vpl', 'HPP92_026087' => 'vpl', 'Hund06782' => 'sun', 'Hund06784' => 'sun', 'Lalb_Chr01g0004861' => 'lal', 'Lalb_Chr02g0140591' => 'lal', 'Lalb_Chr02g0140611' => 'lal', 'Lalb_Chr03g0028101' => 'lal', 'Lalb_Chr07g0185791' => 'lal', 'Lalb_Chr12g0204491' => 'lal', 'Lalb_Chr13g0295671' => 'lal', 'Lalb_Chr19g0136461' => 'lal', 'Lalb_Chr21g0309191' => 'lal', 'Lj1g0028158' => 'lja', 'Lj1P236T38' => 'lonja', 'Lj2C32G2' => 'lonja', 'Lj2P944T8' => 'lonja', 'Lj2P963T15' => 'lonja', 'Lj3g0011788' => 'lja', 'Lj4g0025027' => 'lja', 'Lj5P255T36' => 'lonja', 'Lj6g0018866' => 'lja', 'Lj6P608T31' => 'lonja', 'LjContig00408g0008879' => 'lja', 'Lsat_1_v5_gn_5_105820' => 'lsa', 'Lsat_1_v5_gn_6_38800' => 'lsa', 'Lsat_1_v5_gn_7_67141' => 'lsa', 'Manes.04G003400' => 'mes', 'Manes.07G020000' => 'mes', 'Manes.07G020100' => 'mes', 'Manes.07G020150' => 'mes', 'Manes.10G061500' => 'mes', 'Manes.10G123200' => 'mes', 'Manes.11G161900' => 'mes', 'Manes.15G029300' => 'mes', 'Mapoly0071s0018' => 'mpo', 'Mapoly0082s0023' => 'mpo', 'Mapoly3477s0001' => 'mpo', 'MBI05_g31233_MAGBIO' => 'mbi', 'MBI09_g05946_MAGBIO' => 'mbi', 'MBI09_g05947_MAGBIO' => 'mbi', 'MBI17_g08346_MAGBIO' => 'mbi', 'MCO04G038' => 'mco', 'MCO09G370' => 'mco', 'MCO13G605' => 'mco', 'MD00G1075500' => 'mdo', 'MD03G1144300' => 'mdo', 'MD08G1236800' => 'mdo', 'MD13G1193300' => 'mdo', 'MD15G1428700' => 'mdo', 'Medtr1g112030' => 'mtr', 'Medtr1g112050' => 'mtr', 'Medtr2g006290' => 'mtr', 'Medtr2g086510' => 'mtr', 'Medtr4g053120' => 'mtr', 'Medtr5g006320' => 'mtr', 'Medtr8g088720' => 'mtr', 'MELO3C004712.2' => 'cme', 'MELO3C006533.2' => 'cme', 'MELO3C019438.2' => 'cme', 'MELO3C019440.2' => 'cme', 'MELO3C019441.2' => 'cme', 'MELO3C019895.2' => 'cme', 'Migut.B00811' => 'egut', 'Migut.D02447' => 'egut', 'Migut.F00875' => 'egut', 'Migut.N00186' => 'egut', 'Migut.N01051' => 'egut', 'Migut.N02491' => 'egut', 'Migut.O00784' => 'egut', 'MSTRG.12367' => 'ama', 'MSTRG.18756' => 'ama', 'MSTRG.21042' => 'ama', 'Nitab4.5_0000559g0040' => 'nta', 'Nitab4.5_0000667g0190' => 'nta', 'Nitab4.5_0000755g0160' => 'nta', 'Nitab4.5_0001216g0080' => 'nta', 'Nitab4.5_0004069g0040' => 'nta', 'Nitab4.5_0004129g0010' => 'nta', 'Nitab4.5_0005744g0030' => 'nta', 'Nitab4.5_0006996g0030' => 'nta', 'Nitab4.5_0008971g0040' => 'nta', 'Nitab4.5_0009769g0020' => 'nta', 'Nitab4.5_0009833g0010' => 'nta', 'Nitab4.5_0013140g0020' => 'nta', 'Nn003s41376' => 'nnu', 'Nn1g01857' => 'nnu', 'Nn1g03611' => 'nnu', 'Nn1g06853' => 'nnu', 'Nn3g18360' => 'nnu', 'Nn4g26328' => 'nnu', 'Nn5g27531' => 'nnu', 'Nn6g34899' => 'nnu', 'Nn7g36299' => 'nnu', 'Oeu021485.1' => 'oeu', 'Oeu022433.1' => 'oeu', 'Oeu032111.1' => 'oeu', 'Oeu051608.1' => 'oeu', 'Os01g0860601' => 'osa', 'Os03g0659200' => 'osa', 'Os03g0835900' => 'osa', 'Os04g0412200' => 'osa', 'Os05g0443500' => 'osa', 'Os07g0251500' => 'osa', 'Os08g0104600' => 'osa', 'Peaxi162Scf00003g00047' => 'pax', 'Peaxi162Scf00003g00052' => 'pax', 'Peaxi162Scf00003g00394' => 'pax', 'Peaxi162Scf00091g00621' => 'pax', 'Peaxi162Scf00152g00146' => 'pax', 'Peaxi162Scf00173g00025' => 'pax', 'Peaxi162Scf00195g00102' => 'pax', 'Peaxi162Scf00402g00013' => 'pax', 'Peaxi162Scf00519g00618' => 'pax', 'PGR004G2838' => 'pgr', 'PGR044G2275' => 'pgr', 'PGR102G1377' => 'pgr', 'PGR119G1245' => 'pgr', 'PGR142G4449' => 'pgr', 'PGSC0003DMG400004532' => 'stu', 'PGSC0003DMG400011950' => 'stu', 'PGSC0003DMG400023391' => 'stu', 'PGSC0003DMG400023985' => 'stu', 'PGSC0003DMG400026360' => 'stu', 'PGSC0003DMG400035711' => 'stu', 'PGSC0003DMG400037286' => 'stu', 'PGSC0003DMG402005881' => 'stu', 'Phvul.002G045400' => 'pvu', 'Phvul.006G216600' => 'pvu', 'Phvul.006G216700' => 'pvu', 'Phvul.006G216800' => 'pvu', 'Phvul.007G022500' => 'pvu', 'Phvul.011G094400' => 'pvu', 'Potri.001G470700' => 'ptr', 'Potri.003G015200' => 'ptr', 'Potri.004G202500' => 'ptr', 'Potri.004G218400' => 'ptr', 'Potri.008G020100' => 'ptr', 'Potri.008G153200' => 'ptr', 'Potri.009G163800' => 'ptr', 'Potri.010G087300' => 'ptr', 'Potri.010G239100' => 'ptr', 'Pp3c10_16100' => 'ppa', 'Pp3c10_16880' => 'ppa', 'Pp3c16_6230' => 'ppa', 'Pp3c17_18910' => 'ppa', 'Pp3c3_22119' => 'ppa', 'Pp3c3_22140' => 'ppa', 'Pp3c4_8159' => 'ppa', 'Pp3c4_8171' => 'ppa', 'Pp3c4_8330' => 'ppa', 'PRCOL_00004098' => 'pco', 'Prupe.1G013900' => 'ppe', 'Prupe.1G226300' => 'ppe', 'Prupe.1G573600' => 'ppe', 'Prupe.6G130100' => 'ppe', 'Psat3g090040' => 'psa', 'Psat4g210440' => 'psa', 'Psat6g231040' => 'psa', 'Psat6g231080' => 'psa', 'Psat7g063000' => 'psa', 'Psat7g188000' => 'psa', 'Psat7g188040' => 'psa', 'PSO017G0206' => 'pso', 'PSO170G0501' => 'pso', 'PSO170G6422' => 'pso', 'PSO210G7739' => 'pso', 'PSO339G1808' => 'pso', 'PSO339G6135' => 'pso', 'PSO384G0010' => 'pso', 'PSO384G0964' => 'pso', 'PSO761G0050' => 'pso', 'PSO782G4085' => 'pso', 'QL01p012264' => 'qlo', 'QL02p099491' => 'qlo', 'QL03p033868' => 'qlo', 'QL04p046678' => 'qlo', 'QL06p002448' => 'qlo', 'RcHm_v2.0_Chr4g0416181' => 'rch', 'RcHm_v2.0_Chr5g0044701' => 'rch', 'RcHm_v2.0_Chr6g0265781' => 'rch', 'RcHm_v2.0_Chr7g0221031' => 'rch', 'Rhsim04G0202000' => 'rsi', 'Rhsim11G0127300' => 'rsi', 'Rhsim13G0111800' => 'rsi', 'Sabra01G0165600' => 'sbr', 'Sabra03G0008300' => 'sbr', 'Sabra04G0136900' => 'sbr', 'Sabra08G0013400' => 'sbr', 'Sabra08G0116800' => 'sbr', 'Sabra09G0128000' => 'sbr', 'Sabra10G0055500' => 'sbr', 'Sabra10G0073300' => 'sbr', 'SalBow3G0385' => 'sbo', 'SalBow3G1119' => 'sbo', 'SalBow3G2005' => 'sbo', 'SalBow6G2563' => 'sbo', 'SalBow6G6386' => 'sbo', 'Sc06g0008800' => 'sci', 'Sc07g0004950' => 'sci', 'Sc09g0005340' => 'sci', 'Sc13g0004410' => 'sci', 'Sc21g0007090' => 'sci', 'Sed0009285' => 'sed', 'Sed0017583' => 'sed', 'Sed0019699' => 'sed', 'Sed0023107' => 'sed', 'SEGI_10916' => 'sgi', 'SEGI_16217' => 'sgi', 'SEGI_19466' => 'sgi', 'SEGI_41115' => 'sgi', 'SGA_v2.0_scaffold111G31534' => 'sas', 'SGA_v2.0_scaffold22G09864' => 'sas', 'SGA_v2.0_scaffold338G49219' => 'sas', 'SGA_v2.0_scaffold92G28298' => 'sas', 'SMO119G0064' => 'smo', 'SMO223G0038' => 'smo', 'SMO347G0584' => 'smo', 'SMO351G0010' => 'smo', 'SMO356G0404' => 'smo', 'Solyc01g103920.3' => 'sly', 'Solyc04g009710.2' => 'sly', 'Solyc05g055280.2' => 'sly', 'Solyc10g044520.3' => 'sly', 'Solyc10g075160.1' => 'sly', 'Solyc11g006910.3' => 'sly', 'Solyc11g068430.3' => 'sly', 'Sopen01g046310' => 'spe', 'Sopen03g001200' => 'spe', 'Sopen04g004830' => 'spe', 'Sopen05g033720' => 'spe', 'Sopen06g030740' => 'spe', 'Sopen10g013090' => 'spe', 'Sopen10g027630' => 'spe', 'Sopen10g027640' => 'spe', 'Sopen11g002820' => 'spe', 'Sopen11g027140' => 'spe', 'Sp1g09680' => 'spa', 'Sp2g03630' => 'spa', 'Sp4g10320' => 'spa', 'Sp6g33400' => 'spa', 'Sp7g13030' => 'spa', 'TAR365G0317' => 'tar', 'TAR376G0979' => 'tar', 'TAR623G1665' => 'tar', 'TAR633G2373' => 'tar', 'TAR636G1400' => 'tar', 'THA.LOC104800529' => 'tha', 'THA.LOC104808547' => 'tha', 'THA.LOC104809615' => 'tha', 'THA.LOC104815724' => 'tha', 'THA.LOC104818480' => 'tha', 'THA.LOC104819179' => 'tha', 'THA.LOC104822270' => 'tha', 'THA.LOC104826425' => 'tha', 'Thecc.02G089700' => 'tca', 'Thecc.04G232300' => 'tca', 'Thecc.09G283400' => 'tca', 'Thhalv10009020m.g' => 'esa', 'Thhalv10015506m.g' => 'esa', 'Thhalv10017364m.g' => 'esa', 'Thhalv10023742m.g' => 'esa', 'Thhalv10026483m.g' => 'esa', 'TPR.G17232' => 'tpr', 'TPR.G2133' => 'tpr', 'TPR.G2498' => 'tpr', 'TPR.G31942' => 'tpr', 'TPR.G37877' => 'tpr', 'TPR.G4571' => 'tpr', 'TWI14G1113' => 'twi', 'TWI15G0426' => 'twi', 'TWI31G1005' => 'twi', 'TWI38G0513' => 'twi', 'TWI38G1484' => 'twi', 'TWI73G1098' => 'twi', 'unitig_26.g10519' => 'ugi', 'unitig_736.g22395' => 'ugi', 'unitig_747.g21234' => 'ugi', 'unitig_747.g21942' => 'ugi', 'vmacro14351' => 'vma', 'VMungo0540G0082' => 'vmu', 'VMungo0540G0405' => 'vmu', 'VMungo0540G1486' => 'vmu', 'VMungo0540G1692' => 'vmu', 'VMungo0720G2473' => 'vmu', 'VMungo1127G1562' => 'vmu', 'VMungo1215G1918' => 'vmu', 'Zm00001eb052650' => 'zma', 'Zm00001eb063710' => 'zma', 'Zm00001eb083950' => 'zma', 'Zm00001eb174420' => 'zma', 'Zm00001eb260140' => 'zma', 'Zm00001eb260150' => 'zma', 'Zm00001eb260160' => 'zma', 'Zm00001eb348290' => 'zma', 'Zm00001eb366870' => 'zma', 'Zm00001eb421930' => 'zma' ), 'gf_id' => 'HOM05D001025', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001025' ), 'data_identifier' => 'HOM05D001025', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001025', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '592', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p22650' => 'bna', 'A01p29720' => 'bna', 'A03p26560' => 'bna', 'A03p68820' => 'bna', 'A04p20980' => 'bna', 'A06p07730' => 'bna', 'A07p18260' => 'bna', 'A08p33710' => 'bna', 'A09p16970' => 'bna', 'A10p27490' => 'bna', 'Aa31LG1G17300' => 'aar', 'Aa31LG1G3910' => 'aar', 'Aa31LG2G9630' => 'aar', 'Aa31LG5G8360' => 'aar', 'Aa31LG9G2410' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4699' => 'aag', 'Actinidia23512' => 'ach', 'Actinidia37080' => 'ach', 'Ah.01g020380' => 'amhyb', 'Ah.08g215710' => 'amhyb', 'Ah.09g225110' => 'amhyb', 'Ah.10g036680' => 'amhyb', 'AL1G21940' => 'aly', 'AL2G15540' => 'aly', 'AL4G21520' => 'aly', 'AL7G40960' => 'aly', 'Aqoxy2G01191' => 'aox', 'Aqoxy2G03393' => 'aox', 'Aqoxy4G02775' => 'aox', 'Aqoxy6G00058' => 'aox', 'arahy.Tifrunner.gnm1.ann1.9X74H2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CW3FX9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R485W7' => 'arhy', 'AT1G10960' => 'ath', 'AT1G60950' => 'ath', 'AT2G27510' => 'ath', 'AT4G14890' => 'ath', 'AT5G10000' => 'ath', 'ATR0665G624' => 'atr', 'ATR0697G138' => 'atr', 'ATR0776G046' => 'atr', 'ATR1134G135' => 'atr', 'Atru.chr12.1025' => 'acertr', 'Atru.chr3.3241' => 'acertr', 'Atru.chr4.2460' => 'acertr', 'AUR62007427' => 'cqu', 'AUR62010960' => 'cqu', 'AUR62012201' => 'cqu', 'AUR62021470' => 'cqu', 'AUR62022834' => 'cqu', 'AUR62033635' => 'cqu', 'AUR62036186' => 'cqu', 'BcaB01g03077' => 'bca', 'BcaB02g10093' => 'bca', 'BcaB04g20295' => 'bca', 'BcaB06g28147' => 'bca', 'BcaB07g31253' => 'bca', 'BcaC01g04946' => 'bca', 'BcaC02g10614' => 'bca', 'BcaC02g10885' => 'bca', 'BcaC04g19356' => 'bca', 'BcaC04g22297' => 'bca', 'BcaC05g24977' => 'bca', 'BcaC06g31823' => 'bca', 'BcaC07g38633' => 'bca', 'BcaC09g49353' => 'bca', 'BcaC09g50168' => 'bca', 'BcaNung00322' => 'bca', 'BcaNung04769' => 'bca', 'BolC1t02753H' => 'bol', 'BolC1t03721H' => 'bol', 'BolC3t15525H' => 'bol', 'BolC4t23903H' => 'bol', 'BolC4t24231H' => 'bol', 'BolC4t27209H' => 'bol', 'BolC5t29671H' => 'bol', 'BolC8t49044H' => 'bol', 'BolC9t54999H' => 'bol', 'BolC9t59517H' => 'bol', 'BraA01t02178Z' => 'bra', 'BraA01t03099Z' => 'bra', 'BraA03t11867Z' => 'bra', 'BraA04t17667Z' => 'bra', 'BraA07t29542Z' => 'bra', 'BraA08t35287Z' => 'bra', 'BraA09t37334Z' => 'bra', 'BraA10t44801Z' => 'bra', 'BraSC39t46181Z' => 'bra', 'C01p28240' => 'bna', 'C01p37530' => 'bna', 'C03p31820' => 'bna', 'C04p24080' => 'bna', 'C04p25790' => 'bna', 'C04p56770' => 'bna', 'C05p09310' => 'bna', 'C09p21010' => 'bna', 'C09p67560' => 'bna', 'CAN.G1324.7' => 'can', 'CAN.G1358.10' => 'can', 'CAN.G1550.2' => 'can', 'CAN.G186.56' => 'can', 'CAN.G1965.1' => 'can', 'CAN.G645.15' => 'can', 'CAN.G798.26' => 'can', 'CAN.G798.27' => 'can', 'CAN.G798.29' => 'can', 'CAN.G919.31' => 'can', 'CANSAT11G0133' => 'cansat', 'CANSAT11G1171' => 'cansat', 'CANSAT11G2056' => 'cansat', 'CANSAT56G1202' => 'cansat', 'CANSAT56G1514' => 'cansat', 'CANSAT78G0455' => 'cansat', 'CARHR011190' => 'chi', 'CARHR051980' => 'chi', 'CARHR120170' => 'chi', 'CARHR203310' => 'chi', 'CARHR221490' => 'chi', 'Carub.0001s1054' => 'cru', 'Carub.0002s0431' => 'cru', 'Carub.0004s0818' => 'cru', 'Carub.0006s0846' => 'cru', 'Carub.0007s2722' => 'cru', 'Ca_00058_v3' => 'car', 'Ca_17831_v3' => 'car', 'Ca_19408_v3' => 'car', 'Ca_24397_v3' => 'car', 'Ca_25664_v3' => 'car', 'CBR_g21818' => 'cbr', 'CBR_g31195' => 'cbr', 'CBR_g32282' => 'cbr', 'CBR_g39599' => 'cbr', 'CBR_g49410' => 'cbr', 'Cc01_g09120' => 'ccan', 'Cc01_g09130' => 'ccan', 'Cc02_g09630' => 'ccan', 'Cc02_g22810' => 'ccan', 'Cc03_g03810' => 'ccan', 'CDE02G3718' => 'cde', 'CDE04G3183' => 'cde', 'CDE07G1046' => 'cde', 'CDE08G0480' => 'cde', 'Cfa005493' => 'cfa', 'Cfa010312' => 'cfa', 'Cfa015648' => 'cfa', 'Ciclev10002793m.g' => 'ccl', 'Ciclev10003356m.g' => 'ccl', 'Ciclev10006141m.g' => 'ccl', 'Ciclev10016676m.g' => 'ccl', 'Ciclev10017081m.g' => 'ccl', 'Ciclev10029499m.g' => 'ccl', 'CiPaw.01G166300' => 'cil', 'CiPaw.06G145600' => 'cil', 'CiPaw.13G040100' => 'cil', 'CiPaw.13G135800' => 'cil', 'ClCG01G012230' => 'cla', 'ClCG05G009510' => 'cla', 'ClCG08G008270' => 'cla', 'COL.COLO4_11763' => 'col', 'COL.COLO4_19876' => 'col', 'COL.COLO4_21481' => 'col', 'Cpa.g.sc118.34' => 'cpa', 'Cpa.g.sc32.13' => 'cpa', 'Cpa.g.sc58.103' => 'cpa', 'Cre03.g183850' => 'cre', 'Cre06.g306350' => 'cre', 'Cre07.g334800' => 'cre', 'Cre12.g487900' => 'cre', 'Cre14.g626700' => 'cre', 'Cre16.g658400' => 'cre', 'Cre17.g700950' => 'cre', 'CsaV3_1G014830' => 'csa', 'CsaV3_3G013320' => 'csa', 'CsaV3_3G019210' => 'csa', 'CsaV3_3G019220' => 'csa', 'CsaV3_6G004230' => 'csa', 'CSS0003773' => 'camsi', 'CSS0004563' => 'camsi', 'CSS0013949' => 'camsi', 'CSS0025971' => 'camsi', 'CSS0028570' => 'camsi', 'CSS0033127' => 'camsi', 'CSS0036051' => 'camsi', 'CSS0040087' => 'camsi', 'CSS0043179' => 'camsi', 'DCAR_006161' => 'dca', 'DCAR_010351' => 'dca', 'DCAR_012197' => 'dca', 'DCAR_024162' => 'dca', 'Dinv01030' => 'din', 'Dinv10924' => 'din', 'Dinv11835' => 'din', 'Dinv22841' => 'din', 'Dinv42553' => 'din', 'Duzib052G0560' => 'dzi', 'Duzib132G0389' => 'dzi', 'Duzib150G1181' => 'dzi', 'Duzib168G0623' => 'dzi', 'Duzib170G1036' => 'dzi', 'Duzib212G0200' => 'dzi', 'Duzib248G0194' => 'dzi', 'ECA232G2193' => 'eca', 'ECA233G0302' => 'eca', 'ECA234G2813' => 'eca', 'ECA234G4866' => 'eca', 'ECA240G3932' => 'eca', 'ECA248G0385' => 'eca', 'EL10Ac2g04781' => 'bvu', 'EL10Ac3g06445' => 'bvu', 'EL10Ac7g15825' => 'bvu', 'EL10Ac8g18550' => 'bvu', 'Eucgr.B03849' => 'egr', 'Eucgr.I02744' => 'egr', 'Eucgr.J00264' => 'egr', 'Eucgr.J00493' => 'egr', 'FAN04G2181' => 'fan', 'FAN07G2666' => 'fan', 'FAN11G0024' => 'fan', 'FAN12G1105' => 'fan', 'FAN13G0302' => 'fan', 'FAN15G2781' => 'fan', 'FAN16G1274' => 'fan', 'FAN17G2988' => 'fan', 'FAN18G2621' => 'fan', 'FAN21G0013' => 'fan', 'FAN22G1211' => 'fan', 'FAN25G3626' => 'fan', 'FvH4_2g09491' => 'fve', 'FvH4_3g24910' => 'fve', 'FvH4_4g15630' => 'fve', 'FvH4_5g28820' => 'fve', 'Glyma.01G238000' => 'gma', 'Glyma.05G168400' => 'gma', 'Glyma.08G126800' => 'gma', 'Glyma.08G188500' => 'gma', 'Glyma.10G278900' => 'gma', 'Glyma.11G005700' => 'gma', 'Glyma.11G183300' => 'gma', 'Glyma.12G089200' => 'gma', 'Glyma.12G169400' => 'gma', 'Glyma.12G169500' => 'gma', 'Glyma.12G169600' => 'gma', 'Glyma.20G110800' => 'gma', 'Gohir.A03G192900' => 'ghi', 'Gohir.A03G193000' => 'ghi', 'Gohir.A05G080700' => 'ghi', 'Gohir.A09G216000' => 'ghi', 'Gohir.A12G027700' => 'ghi', 'Gohir.A13G036200' => 'ghi', 'Gohir.A13G222600' => 'ghi', 'Gohir.D02G213900' => 'ghi', 'Gohir.D02G214000' => 'ghi', 'Gohir.D05G083700' => 'ghi', 'Gohir.D05G083800' => 'ghi', 'Gohir.D05G083850' => 'ghi', 'Gohir.D08G015400' => 'ghi', 'Gohir.D09G218400' => 'ghi', 'Gohir.D12G027100' => 'ghi', 'Gohir.D13G034500' => 'ghi', 'Gohir.D13G227400' => 'ghi', 'Gorai.005G241800' => 'gra', 'Gorai.005G241900' => 'gra', 'Gorai.006G239400' => 'gra', 'Gorai.008G027600' => 'gra', 'Gorai.009G085400' => 'gra', 'Gorai.009G085500' => 'gra', 'Gorai.013G039000' => 'gra', 'Gorai.013G194800' => 'gra', 'Gorai.013G257900' => 'gra', 'GSVIVG01000982001' => 'vvi', 'GSVIVG01017981001' => 'vvi', 'HanXRQChr01g0024061' => 'han', 'HanXRQChr09g0247831' => 'han', 'HanXRQChr10g0294611' => 'han', 'HanXRQChr10g0294621' => 'han', 'HanXRQChr11g0346821' => 'han', 'HanXRQChr13g0397461' => 'han', 'HanXRQChr16g0513651' => 'han', 'HanXRQChr16g0513701' => 'han', 'Haze_00897' => 'cav', 'Haze_01745' => 'cav', 'Haze_02486' => 'cav', 'Haze_02487' => 'cav', 'Haze_23374' => 'cav', 'Hma1.2p1_0578F.1_g182520' => 'hma', 'Hma1.2p1_0602F.1_g187350' => 'hma', 'Hma1.2p1_0602F.1_g187360' => 'hma', 'Hma1.2p1_0874F.1_g231320' => 'hma', 'Hma1.2p1_1197F.1_g266210' => 'hma', 'Hma1.2p1_1197F.1_g266220' => 'hma', 'Hma1.2p1_2167F.1_g315895' => 'hma', 'Hma1.2p1_2190F.1_g316640' => 'hma', 'Hma1.2p1_3645F.1_g337153' => 'hma', 'HPP92_004907' => 'vpl', 'HPP92_012134' => 'vpl', 'HPP92_025136' => 'vpl', 'HPP92_026087' => 'vpl', 'Hund06782' => 'sun', 'Hund06784' => 'sun', 'Lalb_Chr01g0004861' => 'lal', 'Lalb_Chr02g0140591' => 'lal', 'Lalb_Chr02g0140611' => 'lal', 'Lalb_Chr03g0028101' => 'lal', 'Lalb_Chr07g0185791' => 'lal', 'Lalb_Chr12g0204491' => 'lal', 'Lalb_Chr13g0295671' => 'lal', 'Lalb_Chr19g0136461' => 'lal', 'Lalb_Chr21g0309191' => 'lal', 'Lj1g0028158' => 'lja', 'Lj1P236T38' => 'lonja', 'Lj2C32G2' => 'lonja', 'Lj2P944T8' => 'lonja', 'Lj2P963T15' => 'lonja', 'Lj3g0011788' => 'lja', 'Lj4g0025027' => 'lja', 'Lj5P255T36' => 'lonja', 'Lj6g0018866' => 'lja', 'Lj6P608T31' => 'lonja', 'LjContig00408g0008879' => 'lja', 'Lsat_1_v5_gn_5_105820' => 'lsa', 'Lsat_1_v5_gn_6_38800' => 'lsa', 'Lsat_1_v5_gn_7_67141' => 'lsa', 'Manes.04G003400' => 'mes', 'Manes.07G020000' => 'mes', 'Manes.07G020100' => 'mes', 'Manes.07G020150' => 'mes', 'Manes.10G061500' => 'mes', 'Manes.10G123200' => 'mes', 'Manes.11G161900' => 'mes', 'Manes.15G029300' => 'mes', 'Mapoly0071s0018' => 'mpo', 'Mapoly0082s0023' => 'mpo', 'Mapoly3477s0001' => 'mpo', 'MBI05_g31233_MAGBIO' => 'mbi', 'MBI09_g05946_MAGBIO' => 'mbi', 'MBI09_g05947_MAGBIO' => 'mbi', 'MBI17_g08346_MAGBIO' => 'mbi', 'MCO04G038' => 'mco', 'MCO09G370' => 'mco', 'MCO13G605' => 'mco', 'MD00G1075500' => 'mdo', 'MD03G1144300' => 'mdo', 'MD08G1236800' => 'mdo', 'MD13G1193300' => 'mdo', 'MD15G1428700' => 'mdo', 'Medtr1g112030' => 'mtr', 'Medtr1g112050' => 'mtr', 'Medtr2g006290' => 'mtr', 'Medtr2g086510' => 'mtr', 'Medtr4g053120' => 'mtr', 'Medtr5g006320' => 'mtr', 'Medtr8g088720' => 'mtr', 'MELO3C004712.2' => 'cme', 'MELO3C006533.2' => 'cme', 'MELO3C019438.2' => 'cme', 'MELO3C019440.2' => 'cme', 'MELO3C019441.2' => 'cme', 'MELO3C019895.2' => 'cme', 'Migut.B00811' => 'egut', 'Migut.D02447' => 'egut', 'Migut.F00875' => 'egut', 'Migut.N00186' => 'egut', 'Migut.N01051' => 'egut', 'Migut.N02491' => 'egut', 'Migut.O00784' => 'egut', 'MSTRG.12367' => 'ama', 'MSTRG.18756' => 'ama', 'MSTRG.21042' => 'ama', 'Nitab4.5_0000559g0040' => 'nta', 'Nitab4.5_0000667g0190' => 'nta', 'Nitab4.5_0000755g0160' => 'nta', 'Nitab4.5_0001216g0080' => 'nta', 'Nitab4.5_0004069g0040' => 'nta', 'Nitab4.5_0004129g0010' => 'nta', 'Nitab4.5_0005744g0030' => 'nta', 'Nitab4.5_0006996g0030' => 'nta', 'Nitab4.5_0008971g0040' => 'nta', 'Nitab4.5_0009769g0020' => 'nta', 'Nitab4.5_0009833g0010' => 'nta', 'Nitab4.5_0013140g0020' => 'nta', 'Nn003s41376' => 'nnu', 'Nn1g01857' => 'nnu', 'Nn1g03611' => 'nnu', 'Nn1g06853' => 'nnu', 'Nn3g18360' => 'nnu', 'Nn4g26328' => 'nnu', 'Nn5g27531' => 'nnu', 'Nn6g34899' => 'nnu', 'Nn7g36299' => 'nnu', 'Oeu021485.1' => 'oeu', 'Oeu022433.1' => 'oeu', 'Oeu032111.1' => 'oeu', 'Oeu051608.1' => 'oeu', 'Os01g0860601' => 'osa', 'Os03g0659200' => 'osa', 'Os03g0835900' => 'osa', 'Os04g0412200' => 'osa', 'Os05g0443500' => 'osa', 'Os07g0251500' => 'osa', 'Os08g0104600' => 'osa', 'Peaxi162Scf00003g00047' => 'pax', 'Peaxi162Scf00003g00052' => 'pax', 'Peaxi162Scf00003g00394' => 'pax', 'Peaxi162Scf00091g00621' => 'pax', 'Peaxi162Scf00152g00146' => 'pax', 'Peaxi162Scf00173g00025' => 'pax', 'Peaxi162Scf00195g00102' => 'pax', 'Peaxi162Scf00402g00013' => 'pax', 'Peaxi162Scf00519g00618' => 'pax', 'PGR004G2838' => 'pgr', 'PGR044G2275' => 'pgr', 'PGR102G1377' => 'pgr', 'PGR119G1245' => 'pgr', 'PGR142G4449' => 'pgr', 'PGSC0003DMG400004532' => 'stu', 'PGSC0003DMG400011950' => 'stu', 'PGSC0003DMG400023391' => 'stu', 'PGSC0003DMG400023985' => 'stu', 'PGSC0003DMG400026360' => 'stu', 'PGSC0003DMG400035711' => 'stu', 'PGSC0003DMG400037286' => 'stu', 'PGSC0003DMG402005881' => 'stu', 'Phvul.002G045400' => 'pvu', 'Phvul.006G216600' => 'pvu', 'Phvul.006G216700' => 'pvu', 'Phvul.006G216800' => 'pvu', 'Phvul.007G022500' => 'pvu', 'Phvul.011G094400' => 'pvu', 'Potri.001G470700' => 'ptr', 'Potri.003G015200' => 'ptr', 'Potri.004G202500' => 'ptr', 'Potri.004G218400' => 'ptr', 'Potri.008G020100' => 'ptr', 'Potri.008G153200' => 'ptr', 'Potri.009G163800' => 'ptr', 'Potri.010G087300' => 'ptr', 'Potri.010G239100' => 'ptr', 'Pp3c10_16100' => 'ppa', 'Pp3c10_16880' => 'ppa', 'Pp3c16_6230' => 'ppa', 'Pp3c17_18910' => 'ppa', 'Pp3c3_22119' => 'ppa', 'Pp3c3_22140' => 'ppa', 'Pp3c4_8159' => 'ppa', 'Pp3c4_8171' => 'ppa', 'Pp3c4_8330' => 'ppa', 'PRCOL_00004098' => 'pco', 'Prupe.1G013900' => 'ppe', 'Prupe.1G226300' => 'ppe', 'Prupe.1G573600' => 'ppe', 'Prupe.6G130100' => 'ppe', 'Psat3g090040' => 'psa', 'Psat4g210440' => 'psa', 'Psat6g231040' => 'psa', 'Psat6g231080' => 'psa', 'Psat7g063000' => 'psa', 'Psat7g188000' => 'psa', 'Psat7g188040' => 'psa', 'PSO017G0206' => 'pso', 'PSO170G0501' => 'pso', 'PSO170G6422' => 'pso', 'PSO210G7739' => 'pso', 'PSO339G1808' => 'pso', 'PSO339G6135' => 'pso', 'PSO384G0010' => 'pso', 'PSO384G0964' => 'pso', 'PSO761G0050' => 'pso', 'PSO782G4085' => 'pso', 'QL01p012264' => 'qlo', 'QL02p099491' => 'qlo', 'QL03p033868' => 'qlo', 'QL04p046678' => 'qlo', 'QL06p002448' => 'qlo', 'RcHm_v2.0_Chr4g0416181' => 'rch', 'RcHm_v2.0_Chr5g0044701' => 'rch', 'RcHm_v2.0_Chr6g0265781' => 'rch', 'RcHm_v2.0_Chr7g0221031' => 'rch', 'Rhsim04G0202000' => 'rsi', 'Rhsim11G0127300' => 'rsi', 'Rhsim13G0111800' => 'rsi', 'Sabra01G0165600' => 'sbr', 'Sabra03G0008300' => 'sbr', 'Sabra04G0136900' => 'sbr', 'Sabra08G0013400' => 'sbr', 'Sabra08G0116800' => 'sbr', 'Sabra09G0128000' => 'sbr', 'Sabra10G0055500' => 'sbr', 'Sabra10G0073300' => 'sbr', 'SalBow3G0385' => 'sbo', 'SalBow3G1119' => 'sbo', 'SalBow3G2005' => 'sbo', 'SalBow6G2563' => 'sbo', 'SalBow6G6386' => 'sbo', 'Sc06g0008800' => 'sci', 'Sc07g0004950' => 'sci', 'Sc09g0005340' => 'sci', 'Sc13g0004410' => 'sci', 'Sc21g0007090' => 'sci', 'Sed0009285' => 'sed', 'Sed0017583' => 'sed', 'Sed0019699' => 'sed', 'Sed0023107' => 'sed', 'SEGI_10916' => 'sgi', 'SEGI_16217' => 'sgi', 'SEGI_19466' => 'sgi', 'SEGI_41115' => 'sgi', 'SGA_v2.0_scaffold111G31534' => 'sas', 'SGA_v2.0_scaffold22G09864' => 'sas', 'SGA_v2.0_scaffold338G49219' => 'sas', 'SGA_v2.0_scaffold92G28298' => 'sas', 'SMO119G0064' => 'smo', 'SMO223G0038' => 'smo', 'SMO347G0584' => 'smo', 'SMO351G0010' => 'smo', 'SMO356G0404' => 'smo', 'Solyc01g103920.3' => 'sly', 'Solyc04g009710.2' => 'sly', 'Solyc05g055280.2' => 'sly', 'Solyc10g044520.3' => 'sly', 'Solyc10g075160.1' => 'sly', 'Solyc11g006910.3' => 'sly', 'Solyc11g068430.3' => 'sly', 'Sopen01g046310' => 'spe', 'Sopen03g001200' => 'spe', 'Sopen04g004830' => 'spe', 'Sopen05g033720' => 'spe', 'Sopen06g030740' => 'spe', 'Sopen10g013090' => 'spe', 'Sopen10g027630' => 'spe', 'Sopen10g027640' => 'spe', 'Sopen11g002820' => 'spe', 'Sopen11g027140' => 'spe', 'Sp1g09680' => 'spa', 'Sp2g03630' => 'spa', 'Sp4g10320' => 'spa', 'Sp6g33400' => 'spa', 'Sp7g13030' => 'spa', 'TAR365G0317' => 'tar', 'TAR376G0979' => 'tar', 'TAR623G1665' => 'tar', 'TAR633G2373' => 'tar', 'TAR636G1400' => 'tar', 'THA.LOC104800529' => 'tha', 'THA.LOC104808547' => 'tha', 'THA.LOC104809615' => 'tha', 'THA.LOC104815724' => 'tha', 'THA.LOC104818480' => 'tha', 'THA.LOC104819179' => 'tha', 'THA.LOC104822270' => 'tha', 'THA.LOC104826425' => 'tha', 'Thecc.02G089700' => 'tca', 'Thecc.04G232300' => 'tca', 'Thecc.09G283400' => 'tca', 'Thhalv10009020m.g' => 'esa', 'Thhalv10015506m.g' => 'esa', 'Thhalv10017364m.g' => 'esa', 'Thhalv10023742m.g' => 'esa', 'Thhalv10026483m.g' => 'esa', 'TPR.G17232' => 'tpr', 'TPR.G2133' => 'tpr', 'TPR.G2498' => 'tpr', 'TPR.G31942' => 'tpr', 'TPR.G37877' => 'tpr', 'TPR.G4571' => 'tpr', 'TWI14G1113' => 'twi', 'TWI15G0426' => 'twi', 'TWI31G1005' => 'twi', 'TWI38G0513' => 'twi', 'TWI38G1484' => 'twi', 'TWI73G1098' => 'twi', 'unitig_26.g10519' => 'ugi', 'unitig_736.g22395' => 'ugi', 'unitig_747.g21234' => 'ugi', 'unitig_747.g21942' => 'ugi', 'vmacro14351' => 'vma', 'VMungo0540G0082' => 'vmu', 'VMungo0540G0405' => 'vmu', 'VMungo0540G1486' => 'vmu', 'VMungo0540G1692' => 'vmu', 'VMungo0720G2473' => 'vmu', 'VMungo1127G1562' => 'vmu', 'VMungo1215G1918' => 'vmu', 'Zm00001eb052650' => 'zma', 'Zm00001eb063710' => 'zma', 'Zm00001eb083950' => 'zma', 'Zm00001eb174420' => 'zma', 'Zm00001eb260140' => 'zma', 'Zm00001eb260150' => 'zma', 'Zm00001eb260160' => 'zma', 'Zm00001eb348290' => 'zma', 'Zm00001eb366870' => 'zma', 'Zm00001eb421930' => 'zma' ) $gf_id = 'HOM05D001025' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001025' ) $data_identifier = 'HOM05D001025' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 19, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 2, 'amhyb' => (int) 4, 'aly' => (int) 4, 'aox' => (int) 4, 'arhy' => (int) 3, 'ath' => (int) 5, 'atr' => (int) 4, 'acertr' => (int) 3, 'cqu' => (int) 7, 'bca' => (int) 17, 'bol' => (int) 10, 'bra' => (int) 9, 'can' => (int) 10, 'cansat' => (int) 6, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 5, 'cbr' => (int) 5, 'ccan' => (int) 5, 'cde' => (int) 4, 'cfa' => (int) 3, 'ccl' => (int) 6, 'cil' => (int) 4, 'cla' => (int) 3, 'col' => (int) 3, 'cpa' => (int) 3, 'cre' => (int) 7, 'csa' => (int) 5, 'camsi' => (int) 9, 'dca' => (int) 4, 'din' => (int) 5, 'dzi' => (int) 7, 'eca' => (int) 6, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 12, 'fve' => (int) 4, 'gma' => (int) 12, 'ghi' => (int) 17, 'gra' => (int) 9, 'vvi' => (int) 2, 'han' => (int) 8, 'cav' => (int) 5, 'hma' => (int) 9, 'vpl' => (int) 4, 'sun' => (int) 2, 'lal' => (int) 9, 'lja' => (int) 5, 'lonja' => (int) 6, 'lsa' => (int) 3, 'mes' => (int) 8, 'mpo' => (int) 3, 'mbi' => (int) 4, 'mco' => (int) 3, 'mdo' => (int) 5, 'mtr' => (int) 7, 'cme' => (int) 6, 'egut' => (int) 7, 'ama' => (int) 3, 'nta' => (int) 12, 'nnu' => (int) 9, 'oeu' => (int) 4, 'osa' => (int) 7, 'pax' => (int) 9, 'pgr' => (int) 5, 'stu' => (int) 8, 'pvu' => (int) 6, 'ptr' => (int) 9, 'ppa' => (int) 9, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 7, 'pso' => (int) 10, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 3, 'sbr' => (int) 8, 'sbo' => (int) 5, 'sci' => (int) 5, 'sed' => (int) 4, 'sgi' => (int) 4, 'sas' => (int) 4, 'smo' => (int) 5, 'sly' => (int) 7, 'spe' => (int) 10, 'spa' => (int) 5, 'tar' => (int) 5, 'tha' => (int) 8, 'tca' => (int) 3, 'esa' => (int) 5, 'tpr' => (int) 6, 'twi' => (int) 6, 'ugi' => (int) 4, 'vma' => (int) 1, 'vmu' => (int) 7, 'zma' => (int) 10 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb421930' $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' => 'HOM05D001025', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '592', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p22650' => 'bna', 'A01p29720' => 'bna', 'A03p26560' => 'bna', 'A03p68820' => 'bna', 'A04p20980' => 'bna', 'A06p07730' => 'bna', 'A07p18260' => 'bna', 'A08p33710' => 'bna', 'A09p16970' => 'bna', 'A10p27490' => 'bna', 'Aa31LG1G17300' => 'aar', 'Aa31LG1G3910' => 'aar', 'Aa31LG2G9630' => 'aar', 'Aa31LG5G8360' => 'aar', 'Aa31LG9G2410' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4699' => 'aag', 'Actinidia23512' => 'ach', 'Actinidia37080' => 'ach', 'Ah.01g020380' => 'amhyb', 'Ah.08g215710' => 'amhyb', 'Ah.09g225110' => 'amhyb', 'Ah.10g036680' => 'amhyb', 'AL1G21940' => 'aly', 'AL2G15540' => 'aly', 'AL4G21520' => 'aly', 'AL7G40960' => 'aly', 'Aqoxy2G01191' => 'aox', 'Aqoxy2G03393' => 'aox', 'Aqoxy4G02775' => 'aox', 'Aqoxy6G00058' => 'aox', 'arahy.Tifrunner.gnm1.ann1.9X74H2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CW3FX9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R485W7' => 'arhy', 'AT1G10960' => 'ath', 'AT1G60950' => 'ath', 'AT2G27510' => 'ath', 'AT4G14890' => 'ath', 'AT5G10000' => 'ath', 'ATR0665G624' => 'atr', 'ATR0697G138' => 'atr', 'ATR0776G046' => 'atr', 'ATR1134G135' => 'atr', 'Atru.chr12.1025' => 'acertr', 'Atru.chr3.3241' => 'acertr', 'Atru.chr4.2460' => 'acertr', 'AUR62007427' => 'cqu', 'AUR62010960' => 'cqu', 'AUR62012201' => 'cqu', 'AUR62021470' => 'cqu', 'AUR62022834' => 'cqu', 'AUR62033635' => 'cqu', 'AUR62036186' => 'cqu', 'BcaB01g03077' => 'bca', 'BcaB02g10093' => 'bca', 'BcaB04g20295' => 'bca', 'BcaB06g28147' => 'bca', 'BcaB07g31253' => 'bca', 'BcaC01g04946' => 'bca', 'BcaC02g10614' => 'bca', 'BcaC02g10885' => 'bca', 'BcaC04g19356' => 'bca', 'BcaC04g22297' => 'bca', 'BcaC05g24977' => 'bca', 'BcaC06g31823' => 'bca', 'BcaC07g38633' => 'bca', 'BcaC09g49353' => 'bca', 'BcaC09g50168' => 'bca', 'BcaNung00322' => 'bca', 'BcaNung04769' => 'bca', 'BolC1t02753H' => 'bol', 'BolC1t03721H' => 'bol', 'BolC3t15525H' => 'bol', 'BolC4t23903H' => 'bol', 'BolC4t24231H' => 'bol', 'BolC4t27209H' => 'bol', 'BolC5t29671H' => 'bol', 'BolC8t49044H' => 'bol', 'BolC9t54999H' => 'bol', 'BolC9t59517H' => 'bol', 'BraA01t02178Z' => 'bra', 'BraA01t03099Z' => 'bra', 'BraA03t11867Z' => 'bra', 'BraA04t17667Z' => 'bra', 'BraA07t29542Z' => 'bra', 'BraA08t35287Z' => 'bra', 'BraA09t37334Z' => 'bra', 'BraA10t44801Z' => 'bra', 'BraSC39t46181Z' => 'bra', 'C01p28240' => 'bna', 'C01p37530' => 'bna', 'C03p31820' => 'bna', 'C04p24080' => 'bna', 'C04p25790' => 'bna', 'C04p56770' => 'bna', 'C05p09310' => 'bna', 'C09p21010' => 'bna', 'C09p67560' => 'bna', 'CAN.G1324.7' => 'can', 'CAN.G1358.10' => 'can', 'CAN.G1550.2' => 'can', 'CAN.G186.56' => 'can', 'CAN.G1965.1' => 'can', 'CAN.G645.15' => 'can', 'CAN.G798.26' => 'can', 'CAN.G798.27' => 'can', 'CAN.G798.29' => 'can', 'CAN.G919.31' => 'can', 'CANSAT11G0133' => 'cansat', 'CANSAT11G1171' => 'cansat', 'CANSAT11G2056' => 'cansat', 'CANSAT56G1202' => 'cansat', 'CANSAT56G1514' => 'cansat', 'CANSAT78G0455' => 'cansat', 'CARHR011190' => 'chi', 'CARHR051980' => 'chi', 'CARHR120170' => 'chi', 'CARHR203310' => 'chi', 'CARHR221490' => 'chi', 'Carub.0001s1054' => 'cru', 'Carub.0002s0431' => 'cru', 'Carub.0004s0818' => 'cru', 'Carub.0006s0846' => 'cru', 'Carub.0007s2722' => 'cru', 'Ca_00058_v3' => 'car', 'Ca_17831_v3' => 'car', 'Ca_19408_v3' => 'car', 'Ca_24397_v3' => 'car', 'Ca_25664_v3' => 'car', 'CBR_g21818' => 'cbr', 'CBR_g31195' => 'cbr', 'CBR_g32282' => 'cbr', 'CBR_g39599' => 'cbr', 'CBR_g49410' => 'cbr', 'Cc01_g09120' => 'ccan', 'Cc01_g09130' => 'ccan', 'Cc02_g09630' => 'ccan', 'Cc02_g22810' => 'ccan', 'Cc03_g03810' => 'ccan', 'CDE02G3718' => 'cde', 'CDE04G3183' => 'cde', 'CDE07G1046' => 'cde', 'CDE08G0480' => 'cde', 'Cfa005493' => 'cfa', 'Cfa010312' => 'cfa', 'Cfa015648' => 'cfa', 'Ciclev10002793m.g' => 'ccl', 'Ciclev10003356m.g' => 'ccl', 'Ciclev10006141m.g' => 'ccl', 'Ciclev10016676m.g' => 'ccl', 'Ciclev10017081m.g' => 'ccl', 'Ciclev10029499m.g' => 'ccl', 'CiPaw.01G166300' => 'cil', 'CiPaw.06G145600' => 'cil', 'CiPaw.13G040100' => 'cil', 'CiPaw.13G135800' => 'cil', 'ClCG01G012230' => 'cla', 'ClCG05G009510' => 'cla', 'ClCG08G008270' => 'cla', 'COL.COLO4_11763' => 'col', 'COL.COLO4_19876' => 'col', 'COL.COLO4_21481' => 'col', 'Cpa.g.sc118.34' => 'cpa', 'Cpa.g.sc32.13' => 'cpa', 'Cpa.g.sc58.103' => 'cpa', 'Cre03.g183850' => 'cre', 'Cre06.g306350' => 'cre', 'Cre07.g334800' => 'cre', 'Cre12.g487900' => 'cre', 'Cre14.g626700' => 'cre', 'Cre16.g658400' => 'cre', 'Cre17.g700950' => 'cre', 'CsaV3_1G014830' => 'csa', 'CsaV3_3G013320' => 'csa', 'CsaV3_3G019210' => 'csa', 'CsaV3_3G019220' => 'csa', 'CsaV3_6G004230' => 'csa', 'CSS0003773' => 'camsi', 'CSS0004563' => 'camsi', 'CSS0013949' => 'camsi', 'CSS0025971' => 'camsi', 'CSS0028570' => 'camsi', 'CSS0033127' => 'camsi', 'CSS0036051' => 'camsi', 'CSS0040087' => 'camsi', 'CSS0043179' => 'camsi', 'DCAR_006161' => 'dca', 'DCAR_010351' => 'dca', 'DCAR_012197' => 'dca', 'DCAR_024162' => 'dca', 'Dinv01030' => 'din', 'Dinv10924' => 'din', 'Dinv11835' => 'din', 'Dinv22841' => 'din', 'Dinv42553' => 'din', 'Duzib052G0560' => 'dzi', 'Duzib132G0389' => 'dzi', 'Duzib150G1181' => 'dzi', 'Duzib168G0623' => 'dzi', 'Duzib170G1036' => 'dzi', 'Duzib212G0200' => 'dzi', 'Duzib248G0194' => 'dzi', 'ECA232G2193' => 'eca', 'ECA233G0302' => 'eca', 'ECA234G2813' => 'eca', 'ECA234G4866' => 'eca', 'ECA240G3932' => 'eca', 'ECA248G0385' => 'eca', 'EL10Ac2g04781' => 'bvu', 'EL10Ac3g06445' => 'bvu', 'EL10Ac7g15825' => 'bvu', 'EL10Ac8g18550' => 'bvu', 'Eucgr.B03849' => 'egr', 'Eucgr.I02744' => 'egr', 'Eucgr.J00264' => 'egr', 'Eucgr.J00493' => 'egr', 'FAN04G2181' => 'fan', 'FAN07G2666' => 'fan', 'FAN11G0024' => 'fan', 'FAN12G1105' => 'fan', 'FAN13G0302' => 'fan', 'FAN15G2781' => 'fan', 'FAN16G1274' => 'fan', 'FAN17G2988' => 'fan', 'FAN18G2621' => 'fan', 'FAN21G0013' => 'fan', 'FAN22G1211' => 'fan', 'FAN25G3626' => 'fan', 'FvH4_2g09491' => 'fve', 'FvH4_3g24910' => 'fve', 'FvH4_4g15630' => 'fve', 'FvH4_5g28820' => 'fve', 'Glyma.01G238000' => 'gma', 'Glyma.05G168400' => 'gma', 'Glyma.08G126800' => 'gma', 'Glyma.08G188500' => 'gma', 'Glyma.10G278900' => 'gma', 'Glyma.11G005700' => 'gma', 'Glyma.11G183300' => 'gma', 'Glyma.12G089200' => 'gma', 'Glyma.12G169400' => 'gma', 'Glyma.12G169500' => 'gma', 'Glyma.12G169600' => 'gma', 'Glyma.20G110800' => 'gma', 'Gohir.A03G192900' => 'ghi', 'Gohir.A03G193000' => 'ghi', 'Gohir.A05G080700' => 'ghi', 'Gohir.A09G216000' => 'ghi', 'Gohir.A12G027700' => 'ghi', 'Gohir.A13G036200' => 'ghi', 'Gohir.A13G222600' => 'ghi', 'Gohir.D02G213900' => 'ghi', 'Gohir.D02G214000' => 'ghi', 'Gohir.D05G083700' => 'ghi', 'Gohir.D05G083800' => 'ghi', 'Gohir.D05G083850' => 'ghi', 'Gohir.D08G015400' => 'ghi', 'Gohir.D09G218400' => 'ghi', 'Gohir.D12G027100' => 'ghi', 'Gohir.D13G034500' => 'ghi', 'Gohir.D13G227400' => 'ghi', 'Gorai.005G241800' => 'gra', 'Gorai.005G241900' => 'gra', 'Gorai.006G239400' => 'gra', 'Gorai.008G027600' => 'gra', 'Gorai.009G085400' => 'gra', 'Gorai.009G085500' => 'gra', 'Gorai.013G039000' => 'gra', 'Gorai.013G194800' => 'gra', 'Gorai.013G257900' => 'gra', 'GSVIVG01000982001' => 'vvi', 'GSVIVG01017981001' => 'vvi', 'HanXRQChr01g0024061' => 'han', 'HanXRQChr09g0247831' => 'han', 'HanXRQChr10g0294611' => 'han', 'HanXRQChr10g0294621' => 'han', 'HanXRQChr11g0346821' => 'han', 'HanXRQChr13g0397461' => 'han', 'HanXRQChr16g0513651' => 'han', 'HanXRQChr16g0513701' => 'han', 'Haze_00897' => 'cav', 'Haze_01745' => 'cav', 'Haze_02486' => 'cav', 'Haze_02487' => 'cav', 'Haze_23374' => 'cav', 'Hma1.2p1_0578F.1_g182520' => 'hma', 'Hma1.2p1_0602F.1_g187350' => 'hma', 'Hma1.2p1_0602F.1_g187360' => 'hma', 'Hma1.2p1_0874F.1_g231320' => 'hma', 'Hma1.2p1_1197F.1_g266210' => 'hma', 'Hma1.2p1_1197F.1_g266220' => 'hma', 'Hma1.2p1_2167F.1_g315895' => 'hma', 'Hma1.2p1_2190F.1_g316640' => 'hma', 'Hma1.2p1_3645F.1_g337153' => 'hma', 'HPP92_004907' => 'vpl', 'HPP92_012134' => 'vpl', 'HPP92_025136' => 'vpl', 'HPP92_026087' => 'vpl', 'Hund06782' => 'sun', 'Hund06784' => 'sun', 'Lalb_Chr01g0004861' => 'lal', 'Lalb_Chr02g0140591' => 'lal', 'Lalb_Chr02g0140611' => 'lal', 'Lalb_Chr03g0028101' => 'lal', 'Lalb_Chr07g0185791' => 'lal', 'Lalb_Chr12g0204491' => 'lal', 'Lalb_Chr13g0295671' => 'lal', 'Lalb_Chr19g0136461' => 'lal', 'Lalb_Chr21g0309191' => 'lal', 'Lj1g0028158' => 'lja', 'Lj1P236T38' => 'lonja', 'Lj2C32G2' => 'lonja', 'Lj2P944T8' => 'lonja', 'Lj2P963T15' => 'lonja', 'Lj3g0011788' => 'lja', 'Lj4g0025027' => 'lja', 'Lj5P255T36' => 'lonja', 'Lj6g0018866' => 'lja', 'Lj6P608T31' => 'lonja', 'LjContig00408g0008879' => 'lja', 'Lsat_1_v5_gn_5_105820' => 'lsa', 'Lsat_1_v5_gn_6_38800' => 'lsa', 'Lsat_1_v5_gn_7_67141' => 'lsa', 'Manes.04G003400' => 'mes', 'Manes.07G020000' => 'mes', 'Manes.07G020100' => 'mes', 'Manes.07G020150' => 'mes', 'Manes.10G061500' => 'mes', 'Manes.10G123200' => 'mes', 'Manes.11G161900' => 'mes', 'Manes.15G029300' => 'mes', 'Mapoly0071s0018' => 'mpo', 'Mapoly0082s0023' => 'mpo', 'Mapoly3477s0001' => 'mpo', 'MBI05_g31233_MAGBIO' => 'mbi', 'MBI09_g05946_MAGBIO' => 'mbi', 'MBI09_g05947_MAGBIO' => 'mbi', 'MBI17_g08346_MAGBIO' => 'mbi', 'MCO04G038' => 'mco', 'MCO09G370' => 'mco', 'MCO13G605' => 'mco', 'MD00G1075500' => 'mdo', 'MD03G1144300' => 'mdo', 'MD08G1236800' => 'mdo', 'MD13G1193300' => 'mdo', 'MD15G1428700' => 'mdo', 'Medtr1g112030' => 'mtr', 'Medtr1g112050' => 'mtr', 'Medtr2g006290' => 'mtr', 'Medtr2g086510' => 'mtr', 'Medtr4g053120' => 'mtr', 'Medtr5g006320' => 'mtr', 'Medtr8g088720' => 'mtr', 'MELO3C004712.2' => 'cme', 'MELO3C006533.2' => 'cme', 'MELO3C019438.2' => 'cme', 'MELO3C019440.2' => 'cme', 'MELO3C019441.2' => 'cme', 'MELO3C019895.2' => 'cme', 'Migut.B00811' => 'egut', 'Migut.D02447' => 'egut', 'Migut.F00875' => 'egut', 'Migut.N00186' => 'egut', 'Migut.N01051' => 'egut', 'Migut.N02491' => 'egut', 'Migut.O00784' => 'egut', 'MSTRG.12367' => 'ama', 'MSTRG.18756' => 'ama', 'MSTRG.21042' => 'ama', 'Nitab4.5_0000559g0040' => 'nta', 'Nitab4.5_0000667g0190' => 'nta', 'Nitab4.5_0000755g0160' => 'nta', 'Nitab4.5_0001216g0080' => 'nta', 'Nitab4.5_0004069g0040' => 'nta', 'Nitab4.5_0004129g0010' => 'nta', 'Nitab4.5_0005744g0030' => 'nta', 'Nitab4.5_0006996g0030' => 'nta', 'Nitab4.5_0008971g0040' => 'nta', 'Nitab4.5_0009769g0020' => 'nta', 'Nitab4.5_0009833g0010' => 'nta', 'Nitab4.5_0013140g0020' => 'nta', 'Nn003s41376' => 'nnu', 'Nn1g01857' => 'nnu', 'Nn1g03611' => 'nnu', 'Nn1g06853' => 'nnu', 'Nn3g18360' => 'nnu', 'Nn4g26328' => 'nnu', 'Nn5g27531' => 'nnu', 'Nn6g34899' => 'nnu', 'Nn7g36299' => 'nnu', 'Oeu021485.1' => 'oeu', 'Oeu022433.1' => 'oeu', 'Oeu032111.1' => 'oeu', 'Oeu051608.1' => 'oeu', 'Os01g0860601' => 'osa', 'Os03g0659200' => 'osa', 'Os03g0835900' => 'osa', 'Os04g0412200' => 'osa', 'Os05g0443500' => 'osa', 'Os07g0251500' => 'osa', 'Os08g0104600' => 'osa', 'Peaxi162Scf00003g00047' => 'pax', 'Peaxi162Scf00003g00052' => 'pax', 'Peaxi162Scf00003g00394' => 'pax', 'Peaxi162Scf00091g00621' => 'pax', 'Peaxi162Scf00152g00146' => 'pax', 'Peaxi162Scf00173g00025' => 'pax', 'Peaxi162Scf00195g00102' => 'pax', 'Peaxi162Scf00402g00013' => 'pax', 'Peaxi162Scf00519g00618' => 'pax', 'PGR004G2838' => 'pgr', 'PGR044G2275' => 'pgr', 'PGR102G1377' => 'pgr', 'PGR119G1245' => 'pgr', 'PGR142G4449' => 'pgr', 'PGSC0003DMG400004532' => 'stu', 'PGSC0003DMG400011950' => 'stu', 'PGSC0003DMG400023391' => 'stu', 'PGSC0003DMG400023985' => 'stu', 'PGSC0003DMG400026360' => 'stu', 'PGSC0003DMG400035711' => 'stu', 'PGSC0003DMG400037286' => 'stu', 'PGSC0003DMG402005881' => 'stu', 'Phvul.002G045400' => 'pvu', 'Phvul.006G216600' => 'pvu', 'Phvul.006G216700' => 'pvu', 'Phvul.006G216800' => 'pvu', 'Phvul.007G022500' => 'pvu', 'Phvul.011G094400' => 'pvu', 'Potri.001G470700' => 'ptr', 'Potri.003G015200' => 'ptr', 'Potri.004G202500' => 'ptr', 'Potri.004G218400' => 'ptr', 'Potri.008G020100' => 'ptr', 'Potri.008G153200' => 'ptr', 'Potri.009G163800' => 'ptr', 'Potri.010G087300' => 'ptr', 'Potri.010G239100' => 'ptr', 'Pp3c10_16100' => 'ppa', 'Pp3c10_16880' => 'ppa', 'Pp3c16_6230' => 'ppa', 'Pp3c17_18910' => 'ppa', 'Pp3c3_22119' => 'ppa', 'Pp3c3_22140' => 'ppa', 'Pp3c4_8159' => 'ppa', 'Pp3c4_8171' => 'ppa', 'Pp3c4_8330' => 'ppa', 'PRCOL_00004098' => 'pco', 'Prupe.1G013900' => 'ppe', 'Prupe.1G226300' => 'ppe', 'Prupe.1G573600' => 'ppe', 'Prupe.6G130100' => 'ppe', 'Psat3g090040' => 'psa', 'Psat4g210440' => 'psa', 'Psat6g231040' => 'psa', 'Psat6g231080' => 'psa', 'Psat7g063000' => 'psa', 'Psat7g188000' => 'psa', 'Psat7g188040' => 'psa', 'PSO017G0206' => 'pso', 'PSO170G0501' => 'pso', 'PSO170G6422' => 'pso', 'PSO210G7739' => 'pso', 'PSO339G1808' => 'pso', 'PSO339G6135' => 'pso', 'PSO384G0010' => 'pso', 'PSO384G0964' => 'pso', 'PSO761G0050' => 'pso', 'PSO782G4085' => 'pso', 'QL01p012264' => 'qlo', 'QL02p099491' => 'qlo', 'QL03p033868' => 'qlo', 'QL04p046678' => 'qlo', 'QL06p002448' => 'qlo', 'RcHm_v2.0_Chr4g0416181' => 'rch', 'RcHm_v2.0_Chr5g0044701' => 'rch', 'RcHm_v2.0_Chr6g0265781' => 'rch', 'RcHm_v2.0_Chr7g0221031' => 'rch', 'Rhsim04G0202000' => 'rsi', 'Rhsim11G0127300' => 'rsi', 'Rhsim13G0111800' => 'rsi', 'Sabra01G0165600' => 'sbr', 'Sabra03G0008300' => 'sbr', 'Sabra04G0136900' => 'sbr', 'Sabra08G0013400' => 'sbr', 'Sabra08G0116800' => 'sbr', 'Sabra09G0128000' => 'sbr', 'Sabra10G0055500' => 'sbr', 'Sabra10G0073300' => 'sbr', 'SalBow3G0385' => 'sbo', 'SalBow3G1119' => 'sbo', 'SalBow3G2005' => 'sbo', 'SalBow6G2563' => 'sbo', 'SalBow6G6386' => 'sbo', 'Sc06g0008800' => 'sci', 'Sc07g0004950' => 'sci', 'Sc09g0005340' => 'sci', 'Sc13g0004410' => 'sci', 'Sc21g0007090' => 'sci', 'Sed0009285' => 'sed', 'Sed0017583' => 'sed', 'Sed0019699' => 'sed', 'Sed0023107' => 'sed', 'SEGI_10916' => 'sgi', 'SEGI_16217' => 'sgi', 'SEGI_19466' => 'sgi', 'SEGI_41115' => 'sgi', 'SGA_v2.0_scaffold111G31534' => 'sas', 'SGA_v2.0_scaffold22G09864' => 'sas', 'SGA_v2.0_scaffold338G49219' => 'sas', 'SGA_v2.0_scaffold92G28298' => 'sas', 'SMO119G0064' => 'smo', 'SMO223G0038' => 'smo', 'SMO347G0584' => 'smo', 'SMO351G0010' => 'smo', 'SMO356G0404' => 'smo', 'Solyc01g103920.3' => 'sly', 'Solyc04g009710.2' => 'sly', 'Solyc05g055280.2' => 'sly', 'Solyc10g044520.3' => 'sly', 'Solyc10g075160.1' => 'sly', 'Solyc11g006910.3' => 'sly', 'Solyc11g068430.3' => 'sly', 'Sopen01g046310' => 'spe', 'Sopen03g001200' => 'spe', 'Sopen04g004830' => 'spe', 'Sopen05g033720' => 'spe', 'Sopen06g030740' => 'spe', 'Sopen10g013090' => 'spe', 'Sopen10g027630' => 'spe', 'Sopen10g027640' => 'spe', 'Sopen11g002820' => 'spe', 'Sopen11g027140' => 'spe', 'Sp1g09680' => 'spa', 'Sp2g03630' => 'spa', 'Sp4g10320' => 'spa', 'Sp6g33400' => 'spa', 'Sp7g13030' => 'spa', 'TAR365G0317' => 'tar', 'TAR376G0979' => 'tar', 'TAR623G1665' => 'tar', 'TAR633G2373' => 'tar', 'TAR636G1400' => 'tar', 'THA.LOC104800529' => 'tha', 'THA.LOC104808547' => 'tha', 'THA.LOC104809615' => 'tha', 'THA.LOC104815724' => 'tha', 'THA.LOC104818480' => 'tha', 'THA.LOC104819179' => 'tha', 'THA.LOC104822270' => 'tha', 'THA.LOC104826425' => 'tha', 'Thecc.02G089700' => 'tca', 'Thecc.04G232300' => 'tca', 'Thecc.09G283400' => 'tca', 'Thhalv10009020m.g' => 'esa', 'Thhalv10015506m.g' => 'esa', 'Thhalv10017364m.g' => 'esa', 'Thhalv10023742m.g' => 'esa', 'Thhalv10026483m.g' => 'esa', 'TPR.G17232' => 'tpr', 'TPR.G2133' => 'tpr', 'TPR.G2498' => 'tpr', 'TPR.G31942' => 'tpr', 'TPR.G37877' => 'tpr', 'TPR.G4571' => 'tpr', 'TWI14G1113' => 'twi', 'TWI15G0426' => 'twi', 'TWI31G1005' => 'twi', 'TWI38G0513' => 'twi', 'TWI38G1484' => 'twi', 'TWI73G1098' => 'twi', 'unitig_26.g10519' => 'ugi', 'unitig_736.g22395' => 'ugi', 'unitig_747.g21234' => 'ugi', 'unitig_747.g21942' => 'ugi', 'vmacro14351' => 'vma', 'VMungo0540G0082' => 'vmu', 'VMungo0540G0405' => 'vmu', 'VMungo0540G1486' => 'vmu', 'VMungo0540G1692' => 'vmu', 'VMungo0720G2473' => 'vmu', 'VMungo1127G1562' => 'vmu', 'VMungo1215G1918' => 'vmu', 'Zm00001eb052650' => 'zma', 'Zm00001eb063710' => 'zma', 'Zm00001eb083950' => 'zma', 'Zm00001eb174420' => 'zma', 'Zm00001eb260140' => 'zma', 'Zm00001eb260150' => 'zma', 'Zm00001eb260160' => 'zma', 'Zm00001eb348290' => 'zma', 'Zm00001eb366870' => 'zma', 'Zm00001eb421930' => 'zma' ), 'gf_id' => 'HOM05D001025', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001025' ), 'data_identifier' => 'HOM05D001025', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001025', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '592', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p22650' => 'bna', 'A01p29720' => 'bna', 'A03p26560' => 'bna', 'A03p68820' => 'bna', 'A04p20980' => 'bna', 'A06p07730' => 'bna', 'A07p18260' => 'bna', 'A08p33710' => 'bna', 'A09p16970' => 'bna', 'A10p27490' => 'bna', 'Aa31LG1G17300' => 'aar', 'Aa31LG1G3910' => 'aar', 'Aa31LG2G9630' => 'aar', 'Aa31LG5G8360' => 'aar', 'Aa31LG9G2410' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4699' => 'aag', 'Actinidia23512' => 'ach', 'Actinidia37080' => 'ach', 'Ah.01g020380' => 'amhyb', 'Ah.08g215710' => 'amhyb', 'Ah.09g225110' => 'amhyb', 'Ah.10g036680' => 'amhyb', 'AL1G21940' => 'aly', 'AL2G15540' => 'aly', 'AL4G21520' => 'aly', 'AL7G40960' => 'aly', 'Aqoxy2G01191' => 'aox', 'Aqoxy2G03393' => 'aox', 'Aqoxy4G02775' => 'aox', 'Aqoxy6G00058' => 'aox', 'arahy.Tifrunner.gnm1.ann1.9X74H2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CW3FX9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R485W7' => 'arhy', 'AT1G10960' => 'ath', 'AT1G60950' => 'ath', 'AT2G27510' => 'ath', 'AT4G14890' => 'ath', 'AT5G10000' => 'ath', 'ATR0665G624' => 'atr', 'ATR0697G138' => 'atr', 'ATR0776G046' => 'atr', 'ATR1134G135' => 'atr', 'Atru.chr12.1025' => 'acertr', 'Atru.chr3.3241' => 'acertr', 'Atru.chr4.2460' => 'acertr', 'AUR62007427' => 'cqu', 'AUR62010960' => 'cqu', 'AUR62012201' => 'cqu', 'AUR62021470' => 'cqu', 'AUR62022834' => 'cqu', 'AUR62033635' => 'cqu', 'AUR62036186' => 'cqu', 'BcaB01g03077' => 'bca', 'BcaB02g10093' => 'bca', 'BcaB04g20295' => 'bca', 'BcaB06g28147' => 'bca', 'BcaB07g31253' => 'bca', 'BcaC01g04946' => 'bca', 'BcaC02g10614' => 'bca', 'BcaC02g10885' => 'bca', 'BcaC04g19356' => 'bca', 'BcaC04g22297' => 'bca', 'BcaC05g24977' => 'bca', 'BcaC06g31823' => 'bca', 'BcaC07g38633' => 'bca', 'BcaC09g49353' => 'bca', 'BcaC09g50168' => 'bca', 'BcaNung00322' => 'bca', 'BcaNung04769' => 'bca', 'BolC1t02753H' => 'bol', 'BolC1t03721H' => 'bol', 'BolC3t15525H' => 'bol', 'BolC4t23903H' => 'bol', 'BolC4t24231H' => 'bol', 'BolC4t27209H' => 'bol', 'BolC5t29671H' => 'bol', 'BolC8t49044H' => 'bol', 'BolC9t54999H' => 'bol', 'BolC9t59517H' => 'bol', 'BraA01t02178Z' => 'bra', 'BraA01t03099Z' => 'bra', 'BraA03t11867Z' => 'bra', 'BraA04t17667Z' => 'bra', 'BraA07t29542Z' => 'bra', 'BraA08t35287Z' => 'bra', 'BraA09t37334Z' => 'bra', 'BraA10t44801Z' => 'bra', 'BraSC39t46181Z' => 'bra', 'C01p28240' => 'bna', 'C01p37530' => 'bna', 'C03p31820' => 'bna', 'C04p24080' => 'bna', 'C04p25790' => 'bna', 'C04p56770' => 'bna', 'C05p09310' => 'bna', 'C09p21010' => 'bna', 'C09p67560' => 'bna', 'CAN.G1324.7' => 'can', 'CAN.G1358.10' => 'can', 'CAN.G1550.2' => 'can', 'CAN.G186.56' => 'can', 'CAN.G1965.1' => 'can', 'CAN.G645.15' => 'can', 'CAN.G798.26' => 'can', 'CAN.G798.27' => 'can', 'CAN.G798.29' => 'can', 'CAN.G919.31' => 'can', 'CANSAT11G0133' => 'cansat', 'CANSAT11G1171' => 'cansat', 'CANSAT11G2056' => 'cansat', 'CANSAT56G1202' => 'cansat', 'CANSAT56G1514' => 'cansat', 'CANSAT78G0455' => 'cansat', 'CARHR011190' => 'chi', 'CARHR051980' => 'chi', 'CARHR120170' => 'chi', 'CARHR203310' => 'chi', 'CARHR221490' => 'chi', 'Carub.0001s1054' => 'cru', 'Carub.0002s0431' => 'cru', 'Carub.0004s0818' => 'cru', 'Carub.0006s0846' => 'cru', 'Carub.0007s2722' => 'cru', 'Ca_00058_v3' => 'car', 'Ca_17831_v3' => 'car', 'Ca_19408_v3' => 'car', 'Ca_24397_v3' => 'car', 'Ca_25664_v3' => 'car', 'CBR_g21818' => 'cbr', 'CBR_g31195' => 'cbr', 'CBR_g32282' => 'cbr', 'CBR_g39599' => 'cbr', 'CBR_g49410' => 'cbr', 'Cc01_g09120' => 'ccan', 'Cc01_g09130' => 'ccan', 'Cc02_g09630' => 'ccan', 'Cc02_g22810' => 'ccan', 'Cc03_g03810' => 'ccan', 'CDE02G3718' => 'cde', 'CDE04G3183' => 'cde', 'CDE07G1046' => 'cde', 'CDE08G0480' => 'cde', 'Cfa005493' => 'cfa', 'Cfa010312' => 'cfa', 'Cfa015648' => 'cfa', 'Ciclev10002793m.g' => 'ccl', 'Ciclev10003356m.g' => 'ccl', 'Ciclev10006141m.g' => 'ccl', 'Ciclev10016676m.g' => 'ccl', 'Ciclev10017081m.g' => 'ccl', 'Ciclev10029499m.g' => 'ccl', 'CiPaw.01G166300' => 'cil', 'CiPaw.06G145600' => 'cil', 'CiPaw.13G040100' => 'cil', 'CiPaw.13G135800' => 'cil', 'ClCG01G012230' => 'cla', 'ClCG05G009510' => 'cla', 'ClCG08G008270' => 'cla', 'COL.COLO4_11763' => 'col', 'COL.COLO4_19876' => 'col', 'COL.COLO4_21481' => 'col', 'Cpa.g.sc118.34' => 'cpa', 'Cpa.g.sc32.13' => 'cpa', 'Cpa.g.sc58.103' => 'cpa', 'Cre03.g183850' => 'cre', 'Cre06.g306350' => 'cre', 'Cre07.g334800' => 'cre', 'Cre12.g487900' => 'cre', 'Cre14.g626700' => 'cre', 'Cre16.g658400' => 'cre', 'Cre17.g700950' => 'cre', 'CsaV3_1G014830' => 'csa', 'CsaV3_3G013320' => 'csa', 'CsaV3_3G019210' => 'csa', 'CsaV3_3G019220' => 'csa', 'CsaV3_6G004230' => 'csa', 'CSS0003773' => 'camsi', 'CSS0004563' => 'camsi', 'CSS0013949' => 'camsi', 'CSS0025971' => 'camsi', 'CSS0028570' => 'camsi', 'CSS0033127' => 'camsi', 'CSS0036051' => 'camsi', 'CSS0040087' => 'camsi', 'CSS0043179' => 'camsi', 'DCAR_006161' => 'dca', 'DCAR_010351' => 'dca', 'DCAR_012197' => 'dca', 'DCAR_024162' => 'dca', 'Dinv01030' => 'din', 'Dinv10924' => 'din', 'Dinv11835' => 'din', 'Dinv22841' => 'din', 'Dinv42553' => 'din', 'Duzib052G0560' => 'dzi', 'Duzib132G0389' => 'dzi', 'Duzib150G1181' => 'dzi', 'Duzib168G0623' => 'dzi', 'Duzib170G1036' => 'dzi', 'Duzib212G0200' => 'dzi', 'Duzib248G0194' => 'dzi', 'ECA232G2193' => 'eca', 'ECA233G0302' => 'eca', 'ECA234G2813' => 'eca', 'ECA234G4866' => 'eca', 'ECA240G3932' => 'eca', 'ECA248G0385' => 'eca', 'EL10Ac2g04781' => 'bvu', 'EL10Ac3g06445' => 'bvu', 'EL10Ac7g15825' => 'bvu', 'EL10Ac8g18550' => 'bvu', 'Eucgr.B03849' => 'egr', 'Eucgr.I02744' => 'egr', 'Eucgr.J00264' => 'egr', 'Eucgr.J00493' => 'egr', 'FAN04G2181' => 'fan', 'FAN07G2666' => 'fan', 'FAN11G0024' => 'fan', 'FAN12G1105' => 'fan', 'FAN13G0302' => 'fan', 'FAN15G2781' => 'fan', 'FAN16G1274' => 'fan', 'FAN17G2988' => 'fan', 'FAN18G2621' => 'fan', 'FAN21G0013' => 'fan', 'FAN22G1211' => 'fan', 'FAN25G3626' => 'fan', 'FvH4_2g09491' => 'fve', 'FvH4_3g24910' => 'fve', 'FvH4_4g15630' => 'fve', 'FvH4_5g28820' => 'fve', 'Glyma.01G238000' => 'gma', 'Glyma.05G168400' => 'gma', 'Glyma.08G126800' => 'gma', 'Glyma.08G188500' => 'gma', 'Glyma.10G278900' => 'gma', 'Glyma.11G005700' => 'gma', 'Glyma.11G183300' => 'gma', 'Glyma.12G089200' => 'gma', 'Glyma.12G169400' => 'gma', 'Glyma.12G169500' => 'gma', 'Glyma.12G169600' => 'gma', 'Glyma.20G110800' => 'gma', 'Gohir.A03G192900' => 'ghi', 'Gohir.A03G193000' => 'ghi', 'Gohir.A05G080700' => 'ghi', 'Gohir.A09G216000' => 'ghi', 'Gohir.A12G027700' => 'ghi', 'Gohir.A13G036200' => 'ghi', 'Gohir.A13G222600' => 'ghi', 'Gohir.D02G213900' => 'ghi', 'Gohir.D02G214000' => 'ghi', 'Gohir.D05G083700' => 'ghi', 'Gohir.D05G083800' => 'ghi', 'Gohir.D05G083850' => 'ghi', 'Gohir.D08G015400' => 'ghi', 'Gohir.D09G218400' => 'ghi', 'Gohir.D12G027100' => 'ghi', 'Gohir.D13G034500' => 'ghi', 'Gohir.D13G227400' => 'ghi', 'Gorai.005G241800' => 'gra', 'Gorai.005G241900' => 'gra', 'Gorai.006G239400' => 'gra', 'Gorai.008G027600' => 'gra', 'Gorai.009G085400' => 'gra', 'Gorai.009G085500' => 'gra', 'Gorai.013G039000' => 'gra', 'Gorai.013G194800' => 'gra', 'Gorai.013G257900' => 'gra', 'GSVIVG01000982001' => 'vvi', 'GSVIVG01017981001' => 'vvi', 'HanXRQChr01g0024061' => 'han', 'HanXRQChr09g0247831' => 'han', 'HanXRQChr10g0294611' => 'han', 'HanXRQChr10g0294621' => 'han', 'HanXRQChr11g0346821' => 'han', 'HanXRQChr13g0397461' => 'han', 'HanXRQChr16g0513651' => 'han', 'HanXRQChr16g0513701' => 'han', 'Haze_00897' => 'cav', 'Haze_01745' => 'cav', 'Haze_02486' => 'cav', 'Haze_02487' => 'cav', 'Haze_23374' => 'cav', 'Hma1.2p1_0578F.1_g182520' => 'hma', 'Hma1.2p1_0602F.1_g187350' => 'hma', 'Hma1.2p1_0602F.1_g187360' => 'hma', 'Hma1.2p1_0874F.1_g231320' => 'hma', 'Hma1.2p1_1197F.1_g266210' => 'hma', 'Hma1.2p1_1197F.1_g266220' => 'hma', 'Hma1.2p1_2167F.1_g315895' => 'hma', 'Hma1.2p1_2190F.1_g316640' => 'hma', 'Hma1.2p1_3645F.1_g337153' => 'hma', 'HPP92_004907' => 'vpl', 'HPP92_012134' => 'vpl', 'HPP92_025136' => 'vpl', 'HPP92_026087' => 'vpl', 'Hund06782' => 'sun', 'Hund06784' => 'sun', 'Lalb_Chr01g0004861' => 'lal', 'Lalb_Chr02g0140591' => 'lal', 'Lalb_Chr02g0140611' => 'lal', 'Lalb_Chr03g0028101' => 'lal', 'Lalb_Chr07g0185791' => 'lal', 'Lalb_Chr12g0204491' => 'lal', 'Lalb_Chr13g0295671' => 'lal', 'Lalb_Chr19g0136461' => 'lal', 'Lalb_Chr21g0309191' => 'lal', 'Lj1g0028158' => 'lja', 'Lj1P236T38' => 'lonja', 'Lj2C32G2' => 'lonja', 'Lj2P944T8' => 'lonja', 'Lj2P963T15' => 'lonja', 'Lj3g0011788' => 'lja', 'Lj4g0025027' => 'lja', 'Lj5P255T36' => 'lonja', 'Lj6g0018866' => 'lja', 'Lj6P608T31' => 'lonja', 'LjContig00408g0008879' => 'lja', 'Lsat_1_v5_gn_5_105820' => 'lsa', 'Lsat_1_v5_gn_6_38800' => 'lsa', 'Lsat_1_v5_gn_7_67141' => 'lsa', 'Manes.04G003400' => 'mes', 'Manes.07G020000' => 'mes', 'Manes.07G020100' => 'mes', 'Manes.07G020150' => 'mes', 'Manes.10G061500' => 'mes', 'Manes.10G123200' => 'mes', 'Manes.11G161900' => 'mes', 'Manes.15G029300' => 'mes', 'Mapoly0071s0018' => 'mpo', 'Mapoly0082s0023' => 'mpo', 'Mapoly3477s0001' => 'mpo', 'MBI05_g31233_MAGBIO' => 'mbi', 'MBI09_g05946_MAGBIO' => 'mbi', 'MBI09_g05947_MAGBIO' => 'mbi', 'MBI17_g08346_MAGBIO' => 'mbi', 'MCO04G038' => 'mco', 'MCO09G370' => 'mco', 'MCO13G605' => 'mco', 'MD00G1075500' => 'mdo', 'MD03G1144300' => 'mdo', 'MD08G1236800' => 'mdo', 'MD13G1193300' => 'mdo', 'MD15G1428700' => 'mdo', 'Medtr1g112030' => 'mtr', 'Medtr1g112050' => 'mtr', 'Medtr2g006290' => 'mtr', 'Medtr2g086510' => 'mtr', 'Medtr4g053120' => 'mtr', 'Medtr5g006320' => 'mtr', 'Medtr8g088720' => 'mtr', 'MELO3C004712.2' => 'cme', 'MELO3C006533.2' => 'cme', 'MELO3C019438.2' => 'cme', 'MELO3C019440.2' => 'cme', 'MELO3C019441.2' => 'cme', 'MELO3C019895.2' => 'cme', 'Migut.B00811' => 'egut', 'Migut.D02447' => 'egut', 'Migut.F00875' => 'egut', 'Migut.N00186' => 'egut', 'Migut.N01051' => 'egut', 'Migut.N02491' => 'egut', 'Migut.O00784' => 'egut', 'MSTRG.12367' => 'ama', 'MSTRG.18756' => 'ama', 'MSTRG.21042' => 'ama', 'Nitab4.5_0000559g0040' => 'nta', 'Nitab4.5_0000667g0190' => 'nta', 'Nitab4.5_0000755g0160' => 'nta', 'Nitab4.5_0001216g0080' => 'nta', 'Nitab4.5_0004069g0040' => 'nta', 'Nitab4.5_0004129g0010' => 'nta', 'Nitab4.5_0005744g0030' => 'nta', 'Nitab4.5_0006996g0030' => 'nta', 'Nitab4.5_0008971g0040' => 'nta', 'Nitab4.5_0009769g0020' => 'nta', 'Nitab4.5_0009833g0010' => 'nta', 'Nitab4.5_0013140g0020' => 'nta', 'Nn003s41376' => 'nnu', 'Nn1g01857' => 'nnu', 'Nn1g03611' => 'nnu', 'Nn1g06853' => 'nnu', 'Nn3g18360' => 'nnu', 'Nn4g26328' => 'nnu', 'Nn5g27531' => 'nnu', 'Nn6g34899' => 'nnu', 'Nn7g36299' => 'nnu', 'Oeu021485.1' => 'oeu', 'Oeu022433.1' => 'oeu', 'Oeu032111.1' => 'oeu', 'Oeu051608.1' => 'oeu', 'Os01g0860601' => 'osa', 'Os03g0659200' => 'osa', 'Os03g0835900' => 'osa', 'Os04g0412200' => 'osa', 'Os05g0443500' => 'osa', 'Os07g0251500' => 'osa', 'Os08g0104600' => 'osa', 'Peaxi162Scf00003g00047' => 'pax', 'Peaxi162Scf00003g00052' => 'pax', 'Peaxi162Scf00003g00394' => 'pax', 'Peaxi162Scf00091g00621' => 'pax', 'Peaxi162Scf00152g00146' => 'pax', 'Peaxi162Scf00173g00025' => 'pax', 'Peaxi162Scf00195g00102' => 'pax', 'Peaxi162Scf00402g00013' => 'pax', 'Peaxi162Scf00519g00618' => 'pax', 'PGR004G2838' => 'pgr', 'PGR044G2275' => 'pgr', 'PGR102G1377' => 'pgr', 'PGR119G1245' => 'pgr', 'PGR142G4449' => 'pgr', 'PGSC0003DMG400004532' => 'stu', 'PGSC0003DMG400011950' => 'stu', 'PGSC0003DMG400023391' => 'stu', 'PGSC0003DMG400023985' => 'stu', 'PGSC0003DMG400026360' => 'stu', 'PGSC0003DMG400035711' => 'stu', 'PGSC0003DMG400037286' => 'stu', 'PGSC0003DMG402005881' => 'stu', 'Phvul.002G045400' => 'pvu', 'Phvul.006G216600' => 'pvu', 'Phvul.006G216700' => 'pvu', 'Phvul.006G216800' => 'pvu', 'Phvul.007G022500' => 'pvu', 'Phvul.011G094400' => 'pvu', 'Potri.001G470700' => 'ptr', 'Potri.003G015200' => 'ptr', 'Potri.004G202500' => 'ptr', 'Potri.004G218400' => 'ptr', 'Potri.008G020100' => 'ptr', 'Potri.008G153200' => 'ptr', 'Potri.009G163800' => 'ptr', 'Potri.010G087300' => 'ptr', 'Potri.010G239100' => 'ptr', 'Pp3c10_16100' => 'ppa', 'Pp3c10_16880' => 'ppa', 'Pp3c16_6230' => 'ppa', 'Pp3c17_18910' => 'ppa', 'Pp3c3_22119' => 'ppa', 'Pp3c3_22140' => 'ppa', 'Pp3c4_8159' => 'ppa', 'Pp3c4_8171' => 'ppa', 'Pp3c4_8330' => 'ppa', 'PRCOL_00004098' => 'pco', 'Prupe.1G013900' => 'ppe', 'Prupe.1G226300' => 'ppe', 'Prupe.1G573600' => 'ppe', 'Prupe.6G130100' => 'ppe', 'Psat3g090040' => 'psa', 'Psat4g210440' => 'psa', 'Psat6g231040' => 'psa', 'Psat6g231080' => 'psa', 'Psat7g063000' => 'psa', 'Psat7g188000' => 'psa', 'Psat7g188040' => 'psa', 'PSO017G0206' => 'pso', 'PSO170G0501' => 'pso', 'PSO170G6422' => 'pso', 'PSO210G7739' => 'pso', 'PSO339G1808' => 'pso', 'PSO339G6135' => 'pso', 'PSO384G0010' => 'pso', 'PSO384G0964' => 'pso', 'PSO761G0050' => 'pso', 'PSO782G4085' => 'pso', 'QL01p012264' => 'qlo', 'QL02p099491' => 'qlo', 'QL03p033868' => 'qlo', 'QL04p046678' => 'qlo', 'QL06p002448' => 'qlo', 'RcHm_v2.0_Chr4g0416181' => 'rch', 'RcHm_v2.0_Chr5g0044701' => 'rch', 'RcHm_v2.0_Chr6g0265781' => 'rch', 'RcHm_v2.0_Chr7g0221031' => 'rch', 'Rhsim04G0202000' => 'rsi', 'Rhsim11G0127300' => 'rsi', 'Rhsim13G0111800' => 'rsi', 'Sabra01G0165600' => 'sbr', 'Sabra03G0008300' => 'sbr', 'Sabra04G0136900' => 'sbr', 'Sabra08G0013400' => 'sbr', 'Sabra08G0116800' => 'sbr', 'Sabra09G0128000' => 'sbr', 'Sabra10G0055500' => 'sbr', 'Sabra10G0073300' => 'sbr', 'SalBow3G0385' => 'sbo', 'SalBow3G1119' => 'sbo', 'SalBow3G2005' => 'sbo', 'SalBow6G2563' => 'sbo', 'SalBow6G6386' => 'sbo', 'Sc06g0008800' => 'sci', 'Sc07g0004950' => 'sci', 'Sc09g0005340' => 'sci', 'Sc13g0004410' => 'sci', 'Sc21g0007090' => 'sci', 'Sed0009285' => 'sed', 'Sed0017583' => 'sed', 'Sed0019699' => 'sed', 'Sed0023107' => 'sed', 'SEGI_10916' => 'sgi', 'SEGI_16217' => 'sgi', 'SEGI_19466' => 'sgi', 'SEGI_41115' => 'sgi', 'SGA_v2.0_scaffold111G31534' => 'sas', 'SGA_v2.0_scaffold22G09864' => 'sas', 'SGA_v2.0_scaffold338G49219' => 'sas', 'SGA_v2.0_scaffold92G28298' => 'sas', 'SMO119G0064' => 'smo', 'SMO223G0038' => 'smo', 'SMO347G0584' => 'smo', 'SMO351G0010' => 'smo', 'SMO356G0404' => 'smo', 'Solyc01g103920.3' => 'sly', 'Solyc04g009710.2' => 'sly', 'Solyc05g055280.2' => 'sly', 'Solyc10g044520.3' => 'sly', 'Solyc10g075160.1' => 'sly', 'Solyc11g006910.3' => 'sly', 'Solyc11g068430.3' => 'sly', 'Sopen01g046310' => 'spe', 'Sopen03g001200' => 'spe', 'Sopen04g004830' => 'spe', 'Sopen05g033720' => 'spe', 'Sopen06g030740' => 'spe', 'Sopen10g013090' => 'spe', 'Sopen10g027630' => 'spe', 'Sopen10g027640' => 'spe', 'Sopen11g002820' => 'spe', 'Sopen11g027140' => 'spe', 'Sp1g09680' => 'spa', 'Sp2g03630' => 'spa', 'Sp4g10320' => 'spa', 'Sp6g33400' => 'spa', 'Sp7g13030' => 'spa', 'TAR365G0317' => 'tar', 'TAR376G0979' => 'tar', 'TAR623G1665' => 'tar', 'TAR633G2373' => 'tar', 'TAR636G1400' => 'tar', 'THA.LOC104800529' => 'tha', 'THA.LOC104808547' => 'tha', 'THA.LOC104809615' => 'tha', 'THA.LOC104815724' => 'tha', 'THA.LOC104818480' => 'tha', 'THA.LOC104819179' => 'tha', 'THA.LOC104822270' => 'tha', 'THA.LOC104826425' => 'tha', 'Thecc.02G089700' => 'tca', 'Thecc.04G232300' => 'tca', 'Thecc.09G283400' => 'tca', 'Thhalv10009020m.g' => 'esa', 'Thhalv10015506m.g' => 'esa', 'Thhalv10017364m.g' => 'esa', 'Thhalv10023742m.g' => 'esa', 'Thhalv10026483m.g' => 'esa', 'TPR.G17232' => 'tpr', 'TPR.G2133' => 'tpr', 'TPR.G2498' => 'tpr', 'TPR.G31942' => 'tpr', 'TPR.G37877' => 'tpr', 'TPR.G4571' => 'tpr', 'TWI14G1113' => 'twi', 'TWI15G0426' => 'twi', 'TWI31G1005' => 'twi', 'TWI38G0513' => 'twi', 'TWI38G1484' => 'twi', 'TWI73G1098' => 'twi', 'unitig_26.g10519' => 'ugi', 'unitig_736.g22395' => 'ugi', 'unitig_747.g21234' => 'ugi', 'unitig_747.g21942' => 'ugi', 'vmacro14351' => 'vma', 'VMungo0540G0082' => 'vmu', 'VMungo0540G0405' => 'vmu', 'VMungo0540G1486' => 'vmu', 'VMungo0540G1692' => 'vmu', 'VMungo0720G2473' => 'vmu', 'VMungo1127G1562' => 'vmu', 'VMungo1215G1918' => 'vmu', 'Zm00001eb052650' => 'zma', 'Zm00001eb063710' => 'zma', 'Zm00001eb083950' => 'zma', 'Zm00001eb174420' => 'zma', 'Zm00001eb260140' => 'zma', 'Zm00001eb260150' => 'zma', 'Zm00001eb260160' => 'zma', 'Zm00001eb348290' => 'zma', 'Zm00001eb366870' => 'zma', 'Zm00001eb421930' => 'zma' ) $gf_id = 'HOM05D001025' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001025' ) $data_identifier = 'HOM05D001025' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 19, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 2, 'amhyb' => (int) 4, 'aly' => (int) 4, 'aox' => (int) 4, 'arhy' => (int) 3, 'ath' => (int) 5, 'atr' => (int) 4, 'acertr' => (int) 3, 'cqu' => (int) 7, 'bca' => (int) 17, 'bol' => (int) 10, 'bra' => (int) 9, 'can' => (int) 10, 'cansat' => (int) 6, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 5, 'cbr' => (int) 5, 'ccan' => (int) 5, 'cde' => (int) 4, 'cfa' => (int) 3, 'ccl' => (int) 6, 'cil' => (int) 4, 'cla' => (int) 3, 'col' => (int) 3, 'cpa' => (int) 3, 'cre' => (int) 7, 'csa' => (int) 5, 'camsi' => (int) 9, 'dca' => (int) 4, 'din' => (int) 5, 'dzi' => (int) 7, 'eca' => (int) 6, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 12, 'fve' => (int) 4, 'gma' => (int) 12, 'ghi' => (int) 17, 'gra' => (int) 9, 'vvi' => (int) 2, 'han' => (int) 8, 'cav' => (int) 5, 'hma' => (int) 9, 'vpl' => (int) 4, 'sun' => (int) 2, 'lal' => (int) 9, 'lja' => (int) 5, 'lonja' => (int) 6, 'lsa' => (int) 3, 'mes' => (int) 8, 'mpo' => (int) 3, 'mbi' => (int) 4, 'mco' => (int) 3, 'mdo' => (int) 5, 'mtr' => (int) 7, 'cme' => (int) 6, 'egut' => (int) 7, 'ama' => (int) 3, 'nta' => (int) 12, 'nnu' => (int) 9, 'oeu' => (int) 4, 'osa' => (int) 7, 'pax' => (int) 9, 'pgr' => (int) 5, 'stu' => (int) 8, 'pvu' => (int) 6, 'ptr' => (int) 9, 'ppa' => (int) 9, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 7, 'pso' => (int) 10, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 3, 'sbr' => (int) 8, 'sbo' => (int) 5, 'sci' => (int) 5, 'sed' => (int) 4, 'sgi' => (int) 4, 'sas' => (int) 4, 'smo' => (int) 5, 'sly' => (int) 7, 'spe' => (int) 10, 'spa' => (int) 5, 'tar' => (int) 5, 'tha' => (int) 8, 'tca' => (int) 3, 'esa' => (int) 5, 'tpr' => (int) 6, 'twi' => (int) 6, 'ugi' => (int) 4, 'vma' => (int) 1, 'vmu' => (int) 7, 'zma' => (int) 10 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb421930' $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' => 'HOM05D001025', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '592', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p22650' => 'bna', 'A01p29720' => 'bna', 'A03p26560' => 'bna', 'A03p68820' => 'bna', 'A04p20980' => 'bna', 'A06p07730' => 'bna', 'A07p18260' => 'bna', 'A08p33710' => 'bna', 'A09p16970' => 'bna', 'A10p27490' => 'bna', 'Aa31LG1G17300' => 'aar', 'Aa31LG1G3910' => 'aar', 'Aa31LG2G9630' => 'aar', 'Aa31LG5G8360' => 'aar', 'Aa31LG9G2410' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4699' => 'aag', 'Actinidia23512' => 'ach', 'Actinidia37080' => 'ach', 'Ah.01g020380' => 'amhyb', 'Ah.08g215710' => 'amhyb', 'Ah.09g225110' => 'amhyb', 'Ah.10g036680' => 'amhyb', 'AL1G21940' => 'aly', 'AL2G15540' => 'aly', 'AL4G21520' => 'aly', 'AL7G40960' => 'aly', 'Aqoxy2G01191' => 'aox', 'Aqoxy2G03393' => 'aox', 'Aqoxy4G02775' => 'aox', 'Aqoxy6G00058' => 'aox', 'arahy.Tifrunner.gnm1.ann1.9X74H2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CW3FX9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R485W7' => 'arhy', 'AT1G10960' => 'ath', 'AT1G60950' => 'ath', 'AT2G27510' => 'ath', 'AT4G14890' => 'ath', 'AT5G10000' => 'ath', 'ATR0665G624' => 'atr', 'ATR0697G138' => 'atr', 'ATR0776G046' => 'atr', 'ATR1134G135' => 'atr', 'Atru.chr12.1025' => 'acertr', 'Atru.chr3.3241' => 'acertr', 'Atru.chr4.2460' => 'acertr', 'AUR62007427' => 'cqu', 'AUR62010960' => 'cqu', 'AUR62012201' => 'cqu', 'AUR62021470' => 'cqu', 'AUR62022834' => 'cqu', 'AUR62033635' => 'cqu', 'AUR62036186' => 'cqu', 'BcaB01g03077' => 'bca', 'BcaB02g10093' => 'bca', 'BcaB04g20295' => 'bca', 'BcaB06g28147' => 'bca', 'BcaB07g31253' => 'bca', 'BcaC01g04946' => 'bca', 'BcaC02g10614' => 'bca', 'BcaC02g10885' => 'bca', 'BcaC04g19356' => 'bca', 'BcaC04g22297' => 'bca', 'BcaC05g24977' => 'bca', 'BcaC06g31823' => 'bca', 'BcaC07g38633' => 'bca', 'BcaC09g49353' => 'bca', 'BcaC09g50168' => 'bca', 'BcaNung00322' => 'bca', 'BcaNung04769' => 'bca', 'BolC1t02753H' => 'bol', 'BolC1t03721H' => 'bol', 'BolC3t15525H' => 'bol', 'BolC4t23903H' => 'bol', 'BolC4t24231H' => 'bol', 'BolC4t27209H' => 'bol', 'BolC5t29671H' => 'bol', 'BolC8t49044H' => 'bol', 'BolC9t54999H' => 'bol', 'BolC9t59517H' => 'bol', 'BraA01t02178Z' => 'bra', 'BraA01t03099Z' => 'bra', 'BraA03t11867Z' => 'bra', 'BraA04t17667Z' => 'bra', 'BraA07t29542Z' => 'bra', 'BraA08t35287Z' => 'bra', 'BraA09t37334Z' => 'bra', 'BraA10t44801Z' => 'bra', 'BraSC39t46181Z' => 'bra', 'C01p28240' => 'bna', 'C01p37530' => 'bna', 'C03p31820' => 'bna', 'C04p24080' => 'bna', 'C04p25790' => 'bna', 'C04p56770' => 'bna', 'C05p09310' => 'bna', 'C09p21010' => 'bna', 'C09p67560' => 'bna', 'CAN.G1324.7' => 'can', 'CAN.G1358.10' => 'can', 'CAN.G1550.2' => 'can', 'CAN.G186.56' => 'can', 'CAN.G1965.1' => 'can', 'CAN.G645.15' => 'can', 'CAN.G798.26' => 'can', 'CAN.G798.27' => 'can', 'CAN.G798.29' => 'can', 'CAN.G919.31' => 'can', 'CANSAT11G0133' => 'cansat', 'CANSAT11G1171' => 'cansat', 'CANSAT11G2056' => 'cansat', 'CANSAT56G1202' => 'cansat', 'CANSAT56G1514' => 'cansat', 'CANSAT78G0455' => 'cansat', 'CARHR011190' => 'chi', 'CARHR051980' => 'chi', 'CARHR120170' => 'chi', 'CARHR203310' => 'chi', 'CARHR221490' => 'chi', 'Carub.0001s1054' => 'cru', 'Carub.0002s0431' => 'cru', 'Carub.0004s0818' => 'cru', 'Carub.0006s0846' => 'cru', 'Carub.0007s2722' => 'cru', 'Ca_00058_v3' => 'car', 'Ca_17831_v3' => 'car', 'Ca_19408_v3' => 'car', 'Ca_24397_v3' => 'car', 'Ca_25664_v3' => 'car', 'CBR_g21818' => 'cbr', 'CBR_g31195' => 'cbr', 'CBR_g32282' => 'cbr', 'CBR_g39599' => 'cbr', 'CBR_g49410' => 'cbr', 'Cc01_g09120' => 'ccan', 'Cc01_g09130' => 'ccan', 'Cc02_g09630' => 'ccan', 'Cc02_g22810' => 'ccan', 'Cc03_g03810' => 'ccan', 'CDE02G3718' => 'cde', 'CDE04G3183' => 'cde', 'CDE07G1046' => 'cde', 'CDE08G0480' => 'cde', 'Cfa005493' => 'cfa', 'Cfa010312' => 'cfa', 'Cfa015648' => 'cfa', 'Ciclev10002793m.g' => 'ccl', 'Ciclev10003356m.g' => 'ccl', 'Ciclev10006141m.g' => 'ccl', 'Ciclev10016676m.g' => 'ccl', 'Ciclev10017081m.g' => 'ccl', 'Ciclev10029499m.g' => 'ccl', 'CiPaw.01G166300' => 'cil', 'CiPaw.06G145600' => 'cil', 'CiPaw.13G040100' => 'cil', 'CiPaw.13G135800' => 'cil', 'ClCG01G012230' => 'cla', 'ClCG05G009510' => 'cla', 'ClCG08G008270' => 'cla', 'COL.COLO4_11763' => 'col', 'COL.COLO4_19876' => 'col', 'COL.COLO4_21481' => 'col', 'Cpa.g.sc118.34' => 'cpa', 'Cpa.g.sc32.13' => 'cpa', 'Cpa.g.sc58.103' => 'cpa', 'Cre03.g183850' => 'cre', 'Cre06.g306350' => 'cre', 'Cre07.g334800' => 'cre', 'Cre12.g487900' => 'cre', 'Cre14.g626700' => 'cre', 'Cre16.g658400' => 'cre', 'Cre17.g700950' => 'cre', 'CsaV3_1G014830' => 'csa', 'CsaV3_3G013320' => 'csa', 'CsaV3_3G019210' => 'csa', 'CsaV3_3G019220' => 'csa', 'CsaV3_6G004230' => 'csa', 'CSS0003773' => 'camsi', 'CSS0004563' => 'camsi', 'CSS0013949' => 'camsi', 'CSS0025971' => 'camsi', 'CSS0028570' => 'camsi', 'CSS0033127' => 'camsi', 'CSS0036051' => 'camsi', 'CSS0040087' => 'camsi', 'CSS0043179' => 'camsi', 'DCAR_006161' => 'dca', 'DCAR_010351' => 'dca', 'DCAR_012197' => 'dca', 'DCAR_024162' => 'dca', 'Dinv01030' => 'din', 'Dinv10924' => 'din', 'Dinv11835' => 'din', 'Dinv22841' => 'din', 'Dinv42553' => 'din', 'Duzib052G0560' => 'dzi', 'Duzib132G0389' => 'dzi', 'Duzib150G1181' => 'dzi', 'Duzib168G0623' => 'dzi', 'Duzib170G1036' => 'dzi', 'Duzib212G0200' => 'dzi', 'Duzib248G0194' => 'dzi', 'ECA232G2193' => 'eca', 'ECA233G0302' => 'eca', 'ECA234G2813' => 'eca', 'ECA234G4866' => 'eca', 'ECA240G3932' => 'eca', 'ECA248G0385' => 'eca', 'EL10Ac2g04781' => 'bvu', 'EL10Ac3g06445' => 'bvu', 'EL10Ac7g15825' => 'bvu', 'EL10Ac8g18550' => 'bvu', 'Eucgr.B03849' => 'egr', 'Eucgr.I02744' => 'egr', 'Eucgr.J00264' => 'egr', 'Eucgr.J00493' => 'egr', 'FAN04G2181' => 'fan', 'FAN07G2666' => 'fan', 'FAN11G0024' => 'fan', 'FAN12G1105' => 'fan', 'FAN13G0302' => 'fan', 'FAN15G2781' => 'fan', 'FAN16G1274' => 'fan', 'FAN17G2988' => 'fan', 'FAN18G2621' => 'fan', 'FAN21G0013' => 'fan', 'FAN22G1211' => 'fan', 'FAN25G3626' => 'fan', 'FvH4_2g09491' => 'fve', 'FvH4_3g24910' => 'fve', 'FvH4_4g15630' => 'fve', 'FvH4_5g28820' => 'fve', 'Glyma.01G238000' => 'gma', 'Glyma.05G168400' => 'gma', 'Glyma.08G126800' => 'gma', 'Glyma.08G188500' => 'gma', 'Glyma.10G278900' => 'gma', 'Glyma.11G005700' => 'gma', 'Glyma.11G183300' => 'gma', 'Glyma.12G089200' => 'gma', 'Glyma.12G169400' => 'gma', 'Glyma.12G169500' => 'gma', 'Glyma.12G169600' => 'gma', 'Glyma.20G110800' => 'gma', 'Gohir.A03G192900' => 'ghi', 'Gohir.A03G193000' => 'ghi', 'Gohir.A05G080700' => 'ghi', 'Gohir.A09G216000' => 'ghi', 'Gohir.A12G027700' => 'ghi', 'Gohir.A13G036200' => 'ghi', 'Gohir.A13G222600' => 'ghi', 'Gohir.D02G213900' => 'ghi', 'Gohir.D02G214000' => 'ghi', 'Gohir.D05G083700' => 'ghi', 'Gohir.D05G083800' => 'ghi', 'Gohir.D05G083850' => 'ghi', 'Gohir.D08G015400' => 'ghi', 'Gohir.D09G218400' => 'ghi', 'Gohir.D12G027100' => 'ghi', 'Gohir.D13G034500' => 'ghi', 'Gohir.D13G227400' => 'ghi', 'Gorai.005G241800' => 'gra', 'Gorai.005G241900' => 'gra', 'Gorai.006G239400' => 'gra', 'Gorai.008G027600' => 'gra', 'Gorai.009G085400' => 'gra', 'Gorai.009G085500' => 'gra', 'Gorai.013G039000' => 'gra', 'Gorai.013G194800' => 'gra', 'Gorai.013G257900' => 'gra', 'GSVIVG01000982001' => 'vvi', 'GSVIVG01017981001' => 'vvi', 'HanXRQChr01g0024061' => 'han', 'HanXRQChr09g0247831' => 'han', 'HanXRQChr10g0294611' => 'han', 'HanXRQChr10g0294621' => 'han', 'HanXRQChr11g0346821' => 'han', 'HanXRQChr13g0397461' => 'han', 'HanXRQChr16g0513651' => 'han', 'HanXRQChr16g0513701' => 'han', 'Haze_00897' => 'cav', 'Haze_01745' => 'cav', 'Haze_02486' => 'cav', 'Haze_02487' => 'cav', 'Haze_23374' => 'cav', 'Hma1.2p1_0578F.1_g182520' => 'hma', 'Hma1.2p1_0602F.1_g187350' => 'hma', 'Hma1.2p1_0602F.1_g187360' => 'hma', 'Hma1.2p1_0874F.1_g231320' => 'hma', 'Hma1.2p1_1197F.1_g266210' => 'hma', 'Hma1.2p1_1197F.1_g266220' => 'hma', 'Hma1.2p1_2167F.1_g315895' => 'hma', 'Hma1.2p1_2190F.1_g316640' => 'hma', 'Hma1.2p1_3645F.1_g337153' => 'hma', 'HPP92_004907' => 'vpl', 'HPP92_012134' => 'vpl', 'HPP92_025136' => 'vpl', 'HPP92_026087' => 'vpl', 'Hund06782' => 'sun', 'Hund06784' => 'sun', 'Lalb_Chr01g0004861' => 'lal', 'Lalb_Chr02g0140591' => 'lal', 'Lalb_Chr02g0140611' => 'lal', 'Lalb_Chr03g0028101' => 'lal', 'Lalb_Chr07g0185791' => 'lal', 'Lalb_Chr12g0204491' => 'lal', 'Lalb_Chr13g0295671' => 'lal', 'Lalb_Chr19g0136461' => 'lal', 'Lalb_Chr21g0309191' => 'lal', 'Lj1g0028158' => 'lja', 'Lj1P236T38' => 'lonja', 'Lj2C32G2' => 'lonja', 'Lj2P944T8' => 'lonja', 'Lj2P963T15' => 'lonja', 'Lj3g0011788' => 'lja', 'Lj4g0025027' => 'lja', 'Lj5P255T36' => 'lonja', 'Lj6g0018866' => 'lja', 'Lj6P608T31' => 'lonja', 'LjContig00408g0008879' => 'lja', 'Lsat_1_v5_gn_5_105820' => 'lsa', 'Lsat_1_v5_gn_6_38800' => 'lsa', 'Lsat_1_v5_gn_7_67141' => 'lsa', 'Manes.04G003400' => 'mes', 'Manes.07G020000' => 'mes', 'Manes.07G020100' => 'mes', 'Manes.07G020150' => 'mes', 'Manes.10G061500' => 'mes', 'Manes.10G123200' => 'mes', 'Manes.11G161900' => 'mes', 'Manes.15G029300' => 'mes', 'Mapoly0071s0018' => 'mpo', 'Mapoly0082s0023' => 'mpo', 'Mapoly3477s0001' => 'mpo', 'MBI05_g31233_MAGBIO' => 'mbi', 'MBI09_g05946_MAGBIO' => 'mbi', 'MBI09_g05947_MAGBIO' => 'mbi', 'MBI17_g08346_MAGBIO' => 'mbi', 'MCO04G038' => 'mco', 'MCO09G370' => 'mco', 'MCO13G605' => 'mco', 'MD00G1075500' => 'mdo', 'MD03G1144300' => 'mdo', 'MD08G1236800' => 'mdo', 'MD13G1193300' => 'mdo', 'MD15G1428700' => 'mdo', 'Medtr1g112030' => 'mtr', 'Medtr1g112050' => 'mtr', 'Medtr2g006290' => 'mtr', 'Medtr2g086510' => 'mtr', 'Medtr4g053120' => 'mtr', 'Medtr5g006320' => 'mtr', 'Medtr8g088720' => 'mtr', 'MELO3C004712.2' => 'cme', 'MELO3C006533.2' => 'cme', 'MELO3C019438.2' => 'cme', 'MELO3C019440.2' => 'cme', 'MELO3C019441.2' => 'cme', 'MELO3C019895.2' => 'cme', 'Migut.B00811' => 'egut', 'Migut.D02447' => 'egut', 'Migut.F00875' => 'egut', 'Migut.N00186' => 'egut', 'Migut.N01051' => 'egut', 'Migut.N02491' => 'egut', 'Migut.O00784' => 'egut', 'MSTRG.12367' => 'ama', 'MSTRG.18756' => 'ama', 'MSTRG.21042' => 'ama', 'Nitab4.5_0000559g0040' => 'nta', 'Nitab4.5_0000667g0190' => 'nta', 'Nitab4.5_0000755g0160' => 'nta', 'Nitab4.5_0001216g0080' => 'nta', 'Nitab4.5_0004069g0040' => 'nta', 'Nitab4.5_0004129g0010' => 'nta', 'Nitab4.5_0005744g0030' => 'nta', 'Nitab4.5_0006996g0030' => 'nta', 'Nitab4.5_0008971g0040' => 'nta', 'Nitab4.5_0009769g0020' => 'nta', 'Nitab4.5_0009833g0010' => 'nta', 'Nitab4.5_0013140g0020' => 'nta', 'Nn003s41376' => 'nnu', 'Nn1g01857' => 'nnu', 'Nn1g03611' => 'nnu', 'Nn1g06853' => 'nnu', 'Nn3g18360' => 'nnu', 'Nn4g26328' => 'nnu', 'Nn5g27531' => 'nnu', 'Nn6g34899' => 'nnu', 'Nn7g36299' => 'nnu', 'Oeu021485.1' => 'oeu', 'Oeu022433.1' => 'oeu', 'Oeu032111.1' => 'oeu', 'Oeu051608.1' => 'oeu', 'Os01g0860601' => 'osa', 'Os03g0659200' => 'osa', 'Os03g0835900' => 'osa', 'Os04g0412200' => 'osa', 'Os05g0443500' => 'osa', 'Os07g0251500' => 'osa', 'Os08g0104600' => 'osa', 'Peaxi162Scf00003g00047' => 'pax', 'Peaxi162Scf00003g00052' => 'pax', 'Peaxi162Scf00003g00394' => 'pax', 'Peaxi162Scf00091g00621' => 'pax', 'Peaxi162Scf00152g00146' => 'pax', 'Peaxi162Scf00173g00025' => 'pax', 'Peaxi162Scf00195g00102' => 'pax', 'Peaxi162Scf00402g00013' => 'pax', 'Peaxi162Scf00519g00618' => 'pax', 'PGR004G2838' => 'pgr', 'PGR044G2275' => 'pgr', 'PGR102G1377' => 'pgr', 'PGR119G1245' => 'pgr', 'PGR142G4449' => 'pgr', 'PGSC0003DMG400004532' => 'stu', 'PGSC0003DMG400011950' => 'stu', 'PGSC0003DMG400023391' => 'stu', 'PGSC0003DMG400023985' => 'stu', 'PGSC0003DMG400026360' => 'stu', 'PGSC0003DMG400035711' => 'stu', 'PGSC0003DMG400037286' => 'stu', 'PGSC0003DMG402005881' => 'stu', 'Phvul.002G045400' => 'pvu', 'Phvul.006G216600' => 'pvu', 'Phvul.006G216700' => 'pvu', 'Phvul.006G216800' => 'pvu', 'Phvul.007G022500' => 'pvu', 'Phvul.011G094400' => 'pvu', 'Potri.001G470700' => 'ptr', 'Potri.003G015200' => 'ptr', 'Potri.004G202500' => 'ptr', 'Potri.004G218400' => 'ptr', 'Potri.008G020100' => 'ptr', 'Potri.008G153200' => 'ptr', 'Potri.009G163800' => 'ptr', 'Potri.010G087300' => 'ptr', 'Potri.010G239100' => 'ptr', 'Pp3c10_16100' => 'ppa', 'Pp3c10_16880' => 'ppa', 'Pp3c16_6230' => 'ppa', 'Pp3c17_18910' => 'ppa', 'Pp3c3_22119' => 'ppa', 'Pp3c3_22140' => 'ppa', 'Pp3c4_8159' => 'ppa', 'Pp3c4_8171' => 'ppa', 'Pp3c4_8330' => 'ppa', 'PRCOL_00004098' => 'pco', 'Prupe.1G013900' => 'ppe', 'Prupe.1G226300' => 'ppe', 'Prupe.1G573600' => 'ppe', 'Prupe.6G130100' => 'ppe', 'Psat3g090040' => 'psa', 'Psat4g210440' => 'psa', 'Psat6g231040' => 'psa', 'Psat6g231080' => 'psa', 'Psat7g063000' => 'psa', 'Psat7g188000' => 'psa', 'Psat7g188040' => 'psa', 'PSO017G0206' => 'pso', 'PSO170G0501' => 'pso', 'PSO170G6422' => 'pso', 'PSO210G7739' => 'pso', 'PSO339G1808' => 'pso', 'PSO339G6135' => 'pso', 'PSO384G0010' => 'pso', 'PSO384G0964' => 'pso', 'PSO761G0050' => 'pso', 'PSO782G4085' => 'pso', 'QL01p012264' => 'qlo', 'QL02p099491' => 'qlo', 'QL03p033868' => 'qlo', 'QL04p046678' => 'qlo', 'QL06p002448' => 'qlo', 'RcHm_v2.0_Chr4g0416181' => 'rch', 'RcHm_v2.0_Chr5g0044701' => 'rch', 'RcHm_v2.0_Chr6g0265781' => 'rch', 'RcHm_v2.0_Chr7g0221031' => 'rch', 'Rhsim04G0202000' => 'rsi', 'Rhsim11G0127300' => 'rsi', 'Rhsim13G0111800' => 'rsi', 'Sabra01G0165600' => 'sbr', 'Sabra03G0008300' => 'sbr', 'Sabra04G0136900' => 'sbr', 'Sabra08G0013400' => 'sbr', 'Sabra08G0116800' => 'sbr', 'Sabra09G0128000' => 'sbr', 'Sabra10G0055500' => 'sbr', 'Sabra10G0073300' => 'sbr', 'SalBow3G0385' => 'sbo', 'SalBow3G1119' => 'sbo', 'SalBow3G2005' => 'sbo', 'SalBow6G2563' => 'sbo', 'SalBow6G6386' => 'sbo', 'Sc06g0008800' => 'sci', 'Sc07g0004950' => 'sci', 'Sc09g0005340' => 'sci', 'Sc13g0004410' => 'sci', 'Sc21g0007090' => 'sci', 'Sed0009285' => 'sed', 'Sed0017583' => 'sed', 'Sed0019699' => 'sed', 'Sed0023107' => 'sed', 'SEGI_10916' => 'sgi', 'SEGI_16217' => 'sgi', 'SEGI_19466' => 'sgi', 'SEGI_41115' => 'sgi', 'SGA_v2.0_scaffold111G31534' => 'sas', 'SGA_v2.0_scaffold22G09864' => 'sas', 'SGA_v2.0_scaffold338G49219' => 'sas', 'SGA_v2.0_scaffold92G28298' => 'sas', 'SMO119G0064' => 'smo', 'SMO223G0038' => 'smo', 'SMO347G0584' => 'smo', 'SMO351G0010' => 'smo', 'SMO356G0404' => 'smo', 'Solyc01g103920.3' => 'sly', 'Solyc04g009710.2' => 'sly', 'Solyc05g055280.2' => 'sly', 'Solyc10g044520.3' => 'sly', 'Solyc10g075160.1' => 'sly', 'Solyc11g006910.3' => 'sly', 'Solyc11g068430.3' => 'sly', 'Sopen01g046310' => 'spe', 'Sopen03g001200' => 'spe', 'Sopen04g004830' => 'spe', 'Sopen05g033720' => 'spe', 'Sopen06g030740' => 'spe', 'Sopen10g013090' => 'spe', 'Sopen10g027630' => 'spe', 'Sopen10g027640' => 'spe', 'Sopen11g002820' => 'spe', 'Sopen11g027140' => 'spe', 'Sp1g09680' => 'spa', 'Sp2g03630' => 'spa', 'Sp4g10320' => 'spa', 'Sp6g33400' => 'spa', 'Sp7g13030' => 'spa', 'TAR365G0317' => 'tar', 'TAR376G0979' => 'tar', 'TAR623G1665' => 'tar', 'TAR633G2373' => 'tar', 'TAR636G1400' => 'tar', 'THA.LOC104800529' => 'tha', 'THA.LOC104808547' => 'tha', 'THA.LOC104809615' => 'tha', 'THA.LOC104815724' => 'tha', 'THA.LOC104818480' => 'tha', 'THA.LOC104819179' => 'tha', 'THA.LOC104822270' => 'tha', 'THA.LOC104826425' => 'tha', 'Thecc.02G089700' => 'tca', 'Thecc.04G232300' => 'tca', 'Thecc.09G283400' => 'tca', 'Thhalv10009020m.g' => 'esa', 'Thhalv10015506m.g' => 'esa', 'Thhalv10017364m.g' => 'esa', 'Thhalv10023742m.g' => 'esa', 'Thhalv10026483m.g' => 'esa', 'TPR.G17232' => 'tpr', 'TPR.G2133' => 'tpr', 'TPR.G2498' => 'tpr', 'TPR.G31942' => 'tpr', 'TPR.G37877' => 'tpr', 'TPR.G4571' => 'tpr', 'TWI14G1113' => 'twi', 'TWI15G0426' => 'twi', 'TWI31G1005' => 'twi', 'TWI38G0513' => 'twi', 'TWI38G1484' => 'twi', 'TWI73G1098' => 'twi', 'unitig_26.g10519' => 'ugi', 'unitig_736.g22395' => 'ugi', 'unitig_747.g21234' => 'ugi', 'unitig_747.g21942' => 'ugi', 'vmacro14351' => 'vma', 'VMungo0540G0082' => 'vmu', 'VMungo0540G0405' => 'vmu', 'VMungo0540G1486' => 'vmu', 'VMungo0540G1692' => 'vmu', 'VMungo0720G2473' => 'vmu', 'VMungo1127G1562' => 'vmu', 'VMungo1215G1918' => 'vmu', 'Zm00001eb052650' => 'zma', 'Zm00001eb063710' => 'zma', 'Zm00001eb083950' => 'zma', 'Zm00001eb174420' => 'zma', 'Zm00001eb260140' => 'zma', 'Zm00001eb260150' => 'zma', 'Zm00001eb260160' => 'zma', 'Zm00001eb348290' => 'zma', 'Zm00001eb366870' => 'zma', 'Zm00001eb421930' => 'zma' ), 'gf_id' => 'HOM05D001025', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001025' ), 'data_identifier' => 'HOM05D001025', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001025', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '592', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p22650' => 'bna', 'A01p29720' => 'bna', 'A03p26560' => 'bna', 'A03p68820' => 'bna', 'A04p20980' => 'bna', 'A06p07730' => 'bna', 'A07p18260' => 'bna', 'A08p33710' => 'bna', 'A09p16970' => 'bna', 'A10p27490' => 'bna', 'Aa31LG1G17300' => 'aar', 'Aa31LG1G3910' => 'aar', 'Aa31LG2G9630' => 'aar', 'Aa31LG5G8360' => 'aar', 'Aa31LG9G2410' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4699' => 'aag', 'Actinidia23512' => 'ach', 'Actinidia37080' => 'ach', 'Ah.01g020380' => 'amhyb', 'Ah.08g215710' => 'amhyb', 'Ah.09g225110' => 'amhyb', 'Ah.10g036680' => 'amhyb', 'AL1G21940' => 'aly', 'AL2G15540' => 'aly', 'AL4G21520' => 'aly', 'AL7G40960' => 'aly', 'Aqoxy2G01191' => 'aox', 'Aqoxy2G03393' => 'aox', 'Aqoxy4G02775' => 'aox', 'Aqoxy6G00058' => 'aox', 'arahy.Tifrunner.gnm1.ann1.9X74H2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CW3FX9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R485W7' => 'arhy', 'AT1G10960' => 'ath', 'AT1G60950' => 'ath', 'AT2G27510' => 'ath', 'AT4G14890' => 'ath', 'AT5G10000' => 'ath', 'ATR0665G624' => 'atr', 'ATR0697G138' => 'atr', 'ATR0776G046' => 'atr', 'ATR1134G135' => 'atr', 'Atru.chr12.1025' => 'acertr', 'Atru.chr3.3241' => 'acertr', 'Atru.chr4.2460' => 'acertr', 'AUR62007427' => 'cqu', 'AUR62010960' => 'cqu', 'AUR62012201' => 'cqu', 'AUR62021470' => 'cqu', 'AUR62022834' => 'cqu', 'AUR62033635' => 'cqu', 'AUR62036186' => 'cqu', 'BcaB01g03077' => 'bca', 'BcaB02g10093' => 'bca', 'BcaB04g20295' => 'bca', 'BcaB06g28147' => 'bca', 'BcaB07g31253' => 'bca', 'BcaC01g04946' => 'bca', 'BcaC02g10614' => 'bca', 'BcaC02g10885' => 'bca', 'BcaC04g19356' => 'bca', 'BcaC04g22297' => 'bca', 'BcaC05g24977' => 'bca', 'BcaC06g31823' => 'bca', 'BcaC07g38633' => 'bca', 'BcaC09g49353' => 'bca', 'BcaC09g50168' => 'bca', 'BcaNung00322' => 'bca', 'BcaNung04769' => 'bca', 'BolC1t02753H' => 'bol', 'BolC1t03721H' => 'bol', 'BolC3t15525H' => 'bol', 'BolC4t23903H' => 'bol', 'BolC4t24231H' => 'bol', 'BolC4t27209H' => 'bol', 'BolC5t29671H' => 'bol', 'BolC8t49044H' => 'bol', 'BolC9t54999H' => 'bol', 'BolC9t59517H' => 'bol', 'BraA01t02178Z' => 'bra', 'BraA01t03099Z' => 'bra', 'BraA03t11867Z' => 'bra', 'BraA04t17667Z' => 'bra', 'BraA07t29542Z' => 'bra', 'BraA08t35287Z' => 'bra', 'BraA09t37334Z' => 'bra', 'BraA10t44801Z' => 'bra', 'BraSC39t46181Z' => 'bra', 'C01p28240' => 'bna', 'C01p37530' => 'bna', 'C03p31820' => 'bna', 'C04p24080' => 'bna', 'C04p25790' => 'bna', 'C04p56770' => 'bna', 'C05p09310' => 'bna', 'C09p21010' => 'bna', 'C09p67560' => 'bna', 'CAN.G1324.7' => 'can', 'CAN.G1358.10' => 'can', 'CAN.G1550.2' => 'can', 'CAN.G186.56' => 'can', 'CAN.G1965.1' => 'can', 'CAN.G645.15' => 'can', 'CAN.G798.26' => 'can', 'CAN.G798.27' => 'can', 'CAN.G798.29' => 'can', 'CAN.G919.31' => 'can', 'CANSAT11G0133' => 'cansat', 'CANSAT11G1171' => 'cansat', 'CANSAT11G2056' => 'cansat', 'CANSAT56G1202' => 'cansat', 'CANSAT56G1514' => 'cansat', 'CANSAT78G0455' => 'cansat', 'CARHR011190' => 'chi', 'CARHR051980' => 'chi', 'CARHR120170' => 'chi', 'CARHR203310' => 'chi', 'CARHR221490' => 'chi', 'Carub.0001s1054' => 'cru', 'Carub.0002s0431' => 'cru', 'Carub.0004s0818' => 'cru', 'Carub.0006s0846' => 'cru', 'Carub.0007s2722' => 'cru', 'Ca_00058_v3' => 'car', 'Ca_17831_v3' => 'car', 'Ca_19408_v3' => 'car', 'Ca_24397_v3' => 'car', 'Ca_25664_v3' => 'car', 'CBR_g21818' => 'cbr', 'CBR_g31195' => 'cbr', 'CBR_g32282' => 'cbr', 'CBR_g39599' => 'cbr', 'CBR_g49410' => 'cbr', 'Cc01_g09120' => 'ccan', 'Cc01_g09130' => 'ccan', 'Cc02_g09630' => 'ccan', 'Cc02_g22810' => 'ccan', 'Cc03_g03810' => 'ccan', 'CDE02G3718' => 'cde', 'CDE04G3183' => 'cde', 'CDE07G1046' => 'cde', 'CDE08G0480' => 'cde', 'Cfa005493' => 'cfa', 'Cfa010312' => 'cfa', 'Cfa015648' => 'cfa', 'Ciclev10002793m.g' => 'ccl', 'Ciclev10003356m.g' => 'ccl', 'Ciclev10006141m.g' => 'ccl', 'Ciclev10016676m.g' => 'ccl', 'Ciclev10017081m.g' => 'ccl', 'Ciclev10029499m.g' => 'ccl', 'CiPaw.01G166300' => 'cil', 'CiPaw.06G145600' => 'cil', 'CiPaw.13G040100' => 'cil', 'CiPaw.13G135800' => 'cil', 'ClCG01G012230' => 'cla', 'ClCG05G009510' => 'cla', 'ClCG08G008270' => 'cla', 'COL.COLO4_11763' => 'col', 'COL.COLO4_19876' => 'col', 'COL.COLO4_21481' => 'col', 'Cpa.g.sc118.34' => 'cpa', 'Cpa.g.sc32.13' => 'cpa', 'Cpa.g.sc58.103' => 'cpa', 'Cre03.g183850' => 'cre', 'Cre06.g306350' => 'cre', 'Cre07.g334800' => 'cre', 'Cre12.g487900' => 'cre', 'Cre14.g626700' => 'cre', 'Cre16.g658400' => 'cre', 'Cre17.g700950' => 'cre', 'CsaV3_1G014830' => 'csa', 'CsaV3_3G013320' => 'csa', 'CsaV3_3G019210' => 'csa', 'CsaV3_3G019220' => 'csa', 'CsaV3_6G004230' => 'csa', 'CSS0003773' => 'camsi', 'CSS0004563' => 'camsi', 'CSS0013949' => 'camsi', 'CSS0025971' => 'camsi', 'CSS0028570' => 'camsi', 'CSS0033127' => 'camsi', 'CSS0036051' => 'camsi', 'CSS0040087' => 'camsi', 'CSS0043179' => 'camsi', 'DCAR_006161' => 'dca', 'DCAR_010351' => 'dca', 'DCAR_012197' => 'dca', 'DCAR_024162' => 'dca', 'Dinv01030' => 'din', 'Dinv10924' => 'din', 'Dinv11835' => 'din', 'Dinv22841' => 'din', 'Dinv42553' => 'din', 'Duzib052G0560' => 'dzi', 'Duzib132G0389' => 'dzi', 'Duzib150G1181' => 'dzi', 'Duzib168G0623' => 'dzi', 'Duzib170G1036' => 'dzi', 'Duzib212G0200' => 'dzi', 'Duzib248G0194' => 'dzi', 'ECA232G2193' => 'eca', 'ECA233G0302' => 'eca', 'ECA234G2813' => 'eca', 'ECA234G4866' => 'eca', 'ECA240G3932' => 'eca', 'ECA248G0385' => 'eca', 'EL10Ac2g04781' => 'bvu', 'EL10Ac3g06445' => 'bvu', 'EL10Ac7g15825' => 'bvu', 'EL10Ac8g18550' => 'bvu', 'Eucgr.B03849' => 'egr', 'Eucgr.I02744' => 'egr', 'Eucgr.J00264' => 'egr', 'Eucgr.J00493' => 'egr', 'FAN04G2181' => 'fan', 'FAN07G2666' => 'fan', 'FAN11G0024' => 'fan', 'FAN12G1105' => 'fan', 'FAN13G0302' => 'fan', 'FAN15G2781' => 'fan', 'FAN16G1274' => 'fan', 'FAN17G2988' => 'fan', 'FAN18G2621' => 'fan', 'FAN21G0013' => 'fan', 'FAN22G1211' => 'fan', 'FAN25G3626' => 'fan', 'FvH4_2g09491' => 'fve', 'FvH4_3g24910' => 'fve', 'FvH4_4g15630' => 'fve', 'FvH4_5g28820' => 'fve', 'Glyma.01G238000' => 'gma', 'Glyma.05G168400' => 'gma', 'Glyma.08G126800' => 'gma', 'Glyma.08G188500' => 'gma', 'Glyma.10G278900' => 'gma', 'Glyma.11G005700' => 'gma', 'Glyma.11G183300' => 'gma', 'Glyma.12G089200' => 'gma', 'Glyma.12G169400' => 'gma', 'Glyma.12G169500' => 'gma', 'Glyma.12G169600' => 'gma', 'Glyma.20G110800' => 'gma', 'Gohir.A03G192900' => 'ghi', 'Gohir.A03G193000' => 'ghi', 'Gohir.A05G080700' => 'ghi', 'Gohir.A09G216000' => 'ghi', 'Gohir.A12G027700' => 'ghi', 'Gohir.A13G036200' => 'ghi', 'Gohir.A13G222600' => 'ghi', 'Gohir.D02G213900' => 'ghi', 'Gohir.D02G214000' => 'ghi', 'Gohir.D05G083700' => 'ghi', 'Gohir.D05G083800' => 'ghi', 'Gohir.D05G083850' => 'ghi', 'Gohir.D08G015400' => 'ghi', 'Gohir.D09G218400' => 'ghi', 'Gohir.D12G027100' => 'ghi', 'Gohir.D13G034500' => 'ghi', 'Gohir.D13G227400' => 'ghi', 'Gorai.005G241800' => 'gra', 'Gorai.005G241900' => 'gra', 'Gorai.006G239400' => 'gra', 'Gorai.008G027600' => 'gra', 'Gorai.009G085400' => 'gra', 'Gorai.009G085500' => 'gra', 'Gorai.013G039000' => 'gra', 'Gorai.013G194800' => 'gra', 'Gorai.013G257900' => 'gra', 'GSVIVG01000982001' => 'vvi', 'GSVIVG01017981001' => 'vvi', 'HanXRQChr01g0024061' => 'han', 'HanXRQChr09g0247831' => 'han', 'HanXRQChr10g0294611' => 'han', 'HanXRQChr10g0294621' => 'han', 'HanXRQChr11g0346821' => 'han', 'HanXRQChr13g0397461' => 'han', 'HanXRQChr16g0513651' => 'han', 'HanXRQChr16g0513701' => 'han', 'Haze_00897' => 'cav', 'Haze_01745' => 'cav', 'Haze_02486' => 'cav', 'Haze_02487' => 'cav', 'Haze_23374' => 'cav', 'Hma1.2p1_0578F.1_g182520' => 'hma', 'Hma1.2p1_0602F.1_g187350' => 'hma', 'Hma1.2p1_0602F.1_g187360' => 'hma', 'Hma1.2p1_0874F.1_g231320' => 'hma', 'Hma1.2p1_1197F.1_g266210' => 'hma', 'Hma1.2p1_1197F.1_g266220' => 'hma', 'Hma1.2p1_2167F.1_g315895' => 'hma', 'Hma1.2p1_2190F.1_g316640' => 'hma', 'Hma1.2p1_3645F.1_g337153' => 'hma', 'HPP92_004907' => 'vpl', 'HPP92_012134' => 'vpl', 'HPP92_025136' => 'vpl', 'HPP92_026087' => 'vpl', 'Hund06782' => 'sun', 'Hund06784' => 'sun', 'Lalb_Chr01g0004861' => 'lal', 'Lalb_Chr02g0140591' => 'lal', 'Lalb_Chr02g0140611' => 'lal', 'Lalb_Chr03g0028101' => 'lal', 'Lalb_Chr07g0185791' => 'lal', 'Lalb_Chr12g0204491' => 'lal', 'Lalb_Chr13g0295671' => 'lal', 'Lalb_Chr19g0136461' => 'lal', 'Lalb_Chr21g0309191' => 'lal', 'Lj1g0028158' => 'lja', 'Lj1P236T38' => 'lonja', 'Lj2C32G2' => 'lonja', 'Lj2P944T8' => 'lonja', 'Lj2P963T15' => 'lonja', 'Lj3g0011788' => 'lja', 'Lj4g0025027' => 'lja', 'Lj5P255T36' => 'lonja', 'Lj6g0018866' => 'lja', 'Lj6P608T31' => 'lonja', 'LjContig00408g0008879' => 'lja', 'Lsat_1_v5_gn_5_105820' => 'lsa', 'Lsat_1_v5_gn_6_38800' => 'lsa', 'Lsat_1_v5_gn_7_67141' => 'lsa', 'Manes.04G003400' => 'mes', 'Manes.07G020000' => 'mes', 'Manes.07G020100' => 'mes', 'Manes.07G020150' => 'mes', 'Manes.10G061500' => 'mes', 'Manes.10G123200' => 'mes', 'Manes.11G161900' => 'mes', 'Manes.15G029300' => 'mes', 'Mapoly0071s0018' => 'mpo', 'Mapoly0082s0023' => 'mpo', 'Mapoly3477s0001' => 'mpo', 'MBI05_g31233_MAGBIO' => 'mbi', 'MBI09_g05946_MAGBIO' => 'mbi', 'MBI09_g05947_MAGBIO' => 'mbi', 'MBI17_g08346_MAGBIO' => 'mbi', 'MCO04G038' => 'mco', 'MCO09G370' => 'mco', 'MCO13G605' => 'mco', 'MD00G1075500' => 'mdo', 'MD03G1144300' => 'mdo', 'MD08G1236800' => 'mdo', 'MD13G1193300' => 'mdo', 'MD15G1428700' => 'mdo', 'Medtr1g112030' => 'mtr', 'Medtr1g112050' => 'mtr', 'Medtr2g006290' => 'mtr', 'Medtr2g086510' => 'mtr', 'Medtr4g053120' => 'mtr', 'Medtr5g006320' => 'mtr', 'Medtr8g088720' => 'mtr', 'MELO3C004712.2' => 'cme', 'MELO3C006533.2' => 'cme', 'MELO3C019438.2' => 'cme', 'MELO3C019440.2' => 'cme', 'MELO3C019441.2' => 'cme', 'MELO3C019895.2' => 'cme', 'Migut.B00811' => 'egut', 'Migut.D02447' => 'egut', 'Migut.F00875' => 'egut', 'Migut.N00186' => 'egut', 'Migut.N01051' => 'egut', 'Migut.N02491' => 'egut', 'Migut.O00784' => 'egut', 'MSTRG.12367' => 'ama', 'MSTRG.18756' => 'ama', 'MSTRG.21042' => 'ama', 'Nitab4.5_0000559g0040' => 'nta', 'Nitab4.5_0000667g0190' => 'nta', 'Nitab4.5_0000755g0160' => 'nta', 'Nitab4.5_0001216g0080' => 'nta', 'Nitab4.5_0004069g0040' => 'nta', 'Nitab4.5_0004129g0010' => 'nta', 'Nitab4.5_0005744g0030' => 'nta', 'Nitab4.5_0006996g0030' => 'nta', 'Nitab4.5_0008971g0040' => 'nta', 'Nitab4.5_0009769g0020' => 'nta', 'Nitab4.5_0009833g0010' => 'nta', 'Nitab4.5_0013140g0020' => 'nta', 'Nn003s41376' => 'nnu', 'Nn1g01857' => 'nnu', 'Nn1g03611' => 'nnu', 'Nn1g06853' => 'nnu', 'Nn3g18360' => 'nnu', 'Nn4g26328' => 'nnu', 'Nn5g27531' => 'nnu', 'Nn6g34899' => 'nnu', 'Nn7g36299' => 'nnu', 'Oeu021485.1' => 'oeu', 'Oeu022433.1' => 'oeu', 'Oeu032111.1' => 'oeu', 'Oeu051608.1' => 'oeu', 'Os01g0860601' => 'osa', 'Os03g0659200' => 'osa', 'Os03g0835900' => 'osa', 'Os04g0412200' => 'osa', 'Os05g0443500' => 'osa', 'Os07g0251500' => 'osa', 'Os08g0104600' => 'osa', 'Peaxi162Scf00003g00047' => 'pax', 'Peaxi162Scf00003g00052' => 'pax', 'Peaxi162Scf00003g00394' => 'pax', 'Peaxi162Scf00091g00621' => 'pax', 'Peaxi162Scf00152g00146' => 'pax', 'Peaxi162Scf00173g00025' => 'pax', 'Peaxi162Scf00195g00102' => 'pax', 'Peaxi162Scf00402g00013' => 'pax', 'Peaxi162Scf00519g00618' => 'pax', 'PGR004G2838' => 'pgr', 'PGR044G2275' => 'pgr', 'PGR102G1377' => 'pgr', 'PGR119G1245' => 'pgr', 'PGR142G4449' => 'pgr', 'PGSC0003DMG400004532' => 'stu', 'PGSC0003DMG400011950' => 'stu', 'PGSC0003DMG400023391' => 'stu', 'PGSC0003DMG400023985' => 'stu', 'PGSC0003DMG400026360' => 'stu', 'PGSC0003DMG400035711' => 'stu', 'PGSC0003DMG400037286' => 'stu', 'PGSC0003DMG402005881' => 'stu', 'Phvul.002G045400' => 'pvu', 'Phvul.006G216600' => 'pvu', 'Phvul.006G216700' => 'pvu', 'Phvul.006G216800' => 'pvu', 'Phvul.007G022500' => 'pvu', 'Phvul.011G094400' => 'pvu', 'Potri.001G470700' => 'ptr', 'Potri.003G015200' => 'ptr', 'Potri.004G202500' => 'ptr', 'Potri.004G218400' => 'ptr', 'Potri.008G020100' => 'ptr', 'Potri.008G153200' => 'ptr', 'Potri.009G163800' => 'ptr', 'Potri.010G087300' => 'ptr', 'Potri.010G239100' => 'ptr', 'Pp3c10_16100' => 'ppa', 'Pp3c10_16880' => 'ppa', 'Pp3c16_6230' => 'ppa', 'Pp3c17_18910' => 'ppa', 'Pp3c3_22119' => 'ppa', 'Pp3c3_22140' => 'ppa', 'Pp3c4_8159' => 'ppa', 'Pp3c4_8171' => 'ppa', 'Pp3c4_8330' => 'ppa', 'PRCOL_00004098' => 'pco', 'Prupe.1G013900' => 'ppe', 'Prupe.1G226300' => 'ppe', 'Prupe.1G573600' => 'ppe', 'Prupe.6G130100' => 'ppe', 'Psat3g090040' => 'psa', 'Psat4g210440' => 'psa', 'Psat6g231040' => 'psa', 'Psat6g231080' => 'psa', 'Psat7g063000' => 'psa', 'Psat7g188000' => 'psa', 'Psat7g188040' => 'psa', 'PSO017G0206' => 'pso', 'PSO170G0501' => 'pso', 'PSO170G6422' => 'pso', 'PSO210G7739' => 'pso', 'PSO339G1808' => 'pso', 'PSO339G6135' => 'pso', 'PSO384G0010' => 'pso', 'PSO384G0964' => 'pso', 'PSO761G0050' => 'pso', 'PSO782G4085' => 'pso', 'QL01p012264' => 'qlo', 'QL02p099491' => 'qlo', 'QL03p033868' => 'qlo', 'QL04p046678' => 'qlo', 'QL06p002448' => 'qlo', 'RcHm_v2.0_Chr4g0416181' => 'rch', 'RcHm_v2.0_Chr5g0044701' => 'rch', 'RcHm_v2.0_Chr6g0265781' => 'rch', 'RcHm_v2.0_Chr7g0221031' => 'rch', 'Rhsim04G0202000' => 'rsi', 'Rhsim11G0127300' => 'rsi', 'Rhsim13G0111800' => 'rsi', 'Sabra01G0165600' => 'sbr', 'Sabra03G0008300' => 'sbr', 'Sabra04G0136900' => 'sbr', 'Sabra08G0013400' => 'sbr', 'Sabra08G0116800' => 'sbr', 'Sabra09G0128000' => 'sbr', 'Sabra10G0055500' => 'sbr', 'Sabra10G0073300' => 'sbr', 'SalBow3G0385' => 'sbo', 'SalBow3G1119' => 'sbo', 'SalBow3G2005' => 'sbo', 'SalBow6G2563' => 'sbo', 'SalBow6G6386' => 'sbo', 'Sc06g0008800' => 'sci', 'Sc07g0004950' => 'sci', 'Sc09g0005340' => 'sci', 'Sc13g0004410' => 'sci', 'Sc21g0007090' => 'sci', 'Sed0009285' => 'sed', 'Sed0017583' => 'sed', 'Sed0019699' => 'sed', 'Sed0023107' => 'sed', 'SEGI_10916' => 'sgi', 'SEGI_16217' => 'sgi', 'SEGI_19466' => 'sgi', 'SEGI_41115' => 'sgi', 'SGA_v2.0_scaffold111G31534' => 'sas', 'SGA_v2.0_scaffold22G09864' => 'sas', 'SGA_v2.0_scaffold338G49219' => 'sas', 'SGA_v2.0_scaffold92G28298' => 'sas', 'SMO119G0064' => 'smo', 'SMO223G0038' => 'smo', 'SMO347G0584' => 'smo', 'SMO351G0010' => 'smo', 'SMO356G0404' => 'smo', 'Solyc01g103920.3' => 'sly', 'Solyc04g009710.2' => 'sly', 'Solyc05g055280.2' => 'sly', 'Solyc10g044520.3' => 'sly', 'Solyc10g075160.1' => 'sly', 'Solyc11g006910.3' => 'sly', 'Solyc11g068430.3' => 'sly', 'Sopen01g046310' => 'spe', 'Sopen03g001200' => 'spe', 'Sopen04g004830' => 'spe', 'Sopen05g033720' => 'spe', 'Sopen06g030740' => 'spe', 'Sopen10g013090' => 'spe', 'Sopen10g027630' => 'spe', 'Sopen10g027640' => 'spe', 'Sopen11g002820' => 'spe', 'Sopen11g027140' => 'spe', 'Sp1g09680' => 'spa', 'Sp2g03630' => 'spa', 'Sp4g10320' => 'spa', 'Sp6g33400' => 'spa', 'Sp7g13030' => 'spa', 'TAR365G0317' => 'tar', 'TAR376G0979' => 'tar', 'TAR623G1665' => 'tar', 'TAR633G2373' => 'tar', 'TAR636G1400' => 'tar', 'THA.LOC104800529' => 'tha', 'THA.LOC104808547' => 'tha', 'THA.LOC104809615' => 'tha', 'THA.LOC104815724' => 'tha', 'THA.LOC104818480' => 'tha', 'THA.LOC104819179' => 'tha', 'THA.LOC104822270' => 'tha', 'THA.LOC104826425' => 'tha', 'Thecc.02G089700' => 'tca', 'Thecc.04G232300' => 'tca', 'Thecc.09G283400' => 'tca', 'Thhalv10009020m.g' => 'esa', 'Thhalv10015506m.g' => 'esa', 'Thhalv10017364m.g' => 'esa', 'Thhalv10023742m.g' => 'esa', 'Thhalv10026483m.g' => 'esa', 'TPR.G17232' => 'tpr', 'TPR.G2133' => 'tpr', 'TPR.G2498' => 'tpr', 'TPR.G31942' => 'tpr', 'TPR.G37877' => 'tpr', 'TPR.G4571' => 'tpr', 'TWI14G1113' => 'twi', 'TWI15G0426' => 'twi', 'TWI31G1005' => 'twi', 'TWI38G0513' => 'twi', 'TWI38G1484' => 'twi', 'TWI73G1098' => 'twi', 'unitig_26.g10519' => 'ugi', 'unitig_736.g22395' => 'ugi', 'unitig_747.g21234' => 'ugi', 'unitig_747.g21942' => 'ugi', 'vmacro14351' => 'vma', 'VMungo0540G0082' => 'vmu', 'VMungo0540G0405' => 'vmu', 'VMungo0540G1486' => 'vmu', 'VMungo0540G1692' => 'vmu', 'VMungo0720G2473' => 'vmu', 'VMungo1127G1562' => 'vmu', 'VMungo1215G1918' => 'vmu', 'Zm00001eb052650' => 'zma', 'Zm00001eb063710' => 'zma', 'Zm00001eb083950' => 'zma', 'Zm00001eb174420' => 'zma', 'Zm00001eb260140' => 'zma', 'Zm00001eb260150' => 'zma', 'Zm00001eb260160' => 'zma', 'Zm00001eb348290' => 'zma', 'Zm00001eb366870' => 'zma', 'Zm00001eb421930' => 'zma' ) $gf_id = 'HOM05D001025' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001025' ) $data_identifier = 'HOM05D001025' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 19, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 2, 'amhyb' => (int) 4, 'aly' => (int) 4, 'aox' => (int) 4, 'arhy' => (int) 3, 'ath' => (int) 5, 'atr' => (int) 4, 'acertr' => (int) 3, 'cqu' => (int) 7, 'bca' => (int) 17, 'bol' => (int) 10, 'bra' => (int) 9, 'can' => (int) 10, 'cansat' => (int) 6, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 5, 'cbr' => (int) 5, 'ccan' => (int) 5, 'cde' => (int) 4, 'cfa' => (int) 3, 'ccl' => (int) 6, 'cil' => (int) 4, 'cla' => (int) 3, 'col' => (int) 3, 'cpa' => (int) 3, 'cre' => (int) 7, 'csa' => (int) 5, 'camsi' => (int) 9, 'dca' => (int) 4, 'din' => (int) 5, 'dzi' => (int) 7, 'eca' => (int) 6, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 12, 'fve' => (int) 4, 'gma' => (int) 12, 'ghi' => (int) 17, 'gra' => (int) 9, 'vvi' => (int) 2, 'han' => (int) 8, 'cav' => (int) 5, 'hma' => (int) 9, 'vpl' => (int) 4, 'sun' => (int) 2, 'lal' => (int) 9, 'lja' => (int) 5, 'lonja' => (int) 6, 'lsa' => (int) 3, 'mes' => (int) 8, 'mpo' => (int) 3, 'mbi' => (int) 4, 'mco' => (int) 3, 'mdo' => (int) 5, 'mtr' => (int) 7, 'cme' => (int) 6, 'egut' => (int) 7, 'ama' => (int) 3, 'nta' => (int) 12, 'nnu' => (int) 9, 'oeu' => (int) 4, 'osa' => (int) 7, 'pax' => (int) 9, 'pgr' => (int) 5, 'stu' => (int) 8, 'pvu' => (int) 6, 'ptr' => (int) 9, 'ppa' => (int) 9, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 7, 'pso' => (int) 10, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 3, 'sbr' => (int) 8, 'sbo' => (int) 5, 'sci' => (int) 5, 'sed' => (int) 4, 'sgi' => (int) 4, 'sas' => (int) 4, 'smo' => (int) 5, 'sly' => (int) 7, 'spe' => (int) 10, 'spa' => (int) 5, 'tar' => (int) 5, 'tha' => (int) 8, 'tca' => (int) 3, 'esa' => (int) 5, 'tpr' => (int) 6, 'twi' => (int) 6, 'ugi' => (int) 4, 'vma' => (int) 1, 'vmu' => (int) 7, 'zma' => (int) 10 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb421930' $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' => 'HOM05D001025', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '592', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p22650' => 'bna', 'A01p29720' => 'bna', 'A03p26560' => 'bna', 'A03p68820' => 'bna', 'A04p20980' => 'bna', 'A06p07730' => 'bna', 'A07p18260' => 'bna', 'A08p33710' => 'bna', 'A09p16970' => 'bna', 'A10p27490' => 'bna', 'Aa31LG1G17300' => 'aar', 'Aa31LG1G3910' => 'aar', 'Aa31LG2G9630' => 'aar', 'Aa31LG5G8360' => 'aar', 'Aa31LG9G2410' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4699' => 'aag', 'Actinidia23512' => 'ach', 'Actinidia37080' => 'ach', 'Ah.01g020380' => 'amhyb', 'Ah.08g215710' => 'amhyb', 'Ah.09g225110' => 'amhyb', 'Ah.10g036680' => 'amhyb', 'AL1G21940' => 'aly', 'AL2G15540' => 'aly', 'AL4G21520' => 'aly', 'AL7G40960' => 'aly', 'Aqoxy2G01191' => 'aox', 'Aqoxy2G03393' => 'aox', 'Aqoxy4G02775' => 'aox', 'Aqoxy6G00058' => 'aox', 'arahy.Tifrunner.gnm1.ann1.9X74H2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CW3FX9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R485W7' => 'arhy', 'AT1G10960' => 'ath', 'AT1G60950' => 'ath', 'AT2G27510' => 'ath', 'AT4G14890' => 'ath', 'AT5G10000' => 'ath', 'ATR0665G624' => 'atr', 'ATR0697G138' => 'atr', 'ATR0776G046' => 'atr', 'ATR1134G135' => 'atr', 'Atru.chr12.1025' => 'acertr', 'Atru.chr3.3241' => 'acertr', 'Atru.chr4.2460' => 'acertr', 'AUR62007427' => 'cqu', 'AUR62010960' => 'cqu', 'AUR62012201' => 'cqu', 'AUR62021470' => 'cqu', 'AUR62022834' => 'cqu', 'AUR62033635' => 'cqu', 'AUR62036186' => 'cqu', 'BcaB01g03077' => 'bca', 'BcaB02g10093' => 'bca', 'BcaB04g20295' => 'bca', 'BcaB06g28147' => 'bca', 'BcaB07g31253' => 'bca', 'BcaC01g04946' => 'bca', 'BcaC02g10614' => 'bca', 'BcaC02g10885' => 'bca', 'BcaC04g19356' => 'bca', 'BcaC04g22297' => 'bca', 'BcaC05g24977' => 'bca', 'BcaC06g31823' => 'bca', 'BcaC07g38633' => 'bca', 'BcaC09g49353' => 'bca', 'BcaC09g50168' => 'bca', 'BcaNung00322' => 'bca', 'BcaNung04769' => 'bca', 'BolC1t02753H' => 'bol', 'BolC1t03721H' => 'bol', 'BolC3t15525H' => 'bol', 'BolC4t23903H' => 'bol', 'BolC4t24231H' => 'bol', 'BolC4t27209H' => 'bol', 'BolC5t29671H' => 'bol', 'BolC8t49044H' => 'bol', 'BolC9t54999H' => 'bol', 'BolC9t59517H' => 'bol', 'BraA01t02178Z' => 'bra', 'BraA01t03099Z' => 'bra', 'BraA03t11867Z' => 'bra', 'BraA04t17667Z' => 'bra', 'BraA07t29542Z' => 'bra', 'BraA08t35287Z' => 'bra', 'BraA09t37334Z' => 'bra', 'BraA10t44801Z' => 'bra', 'BraSC39t46181Z' => 'bra', 'C01p28240' => 'bna', 'C01p37530' => 'bna', 'C03p31820' => 'bna', 'C04p24080' => 'bna', 'C04p25790' => 'bna', 'C04p56770' => 'bna', 'C05p09310' => 'bna', 'C09p21010' => 'bna', 'C09p67560' => 'bna', 'CAN.G1324.7' => 'can', 'CAN.G1358.10' => 'can', 'CAN.G1550.2' => 'can', 'CAN.G186.56' => 'can', 'CAN.G1965.1' => 'can', 'CAN.G645.15' => 'can', 'CAN.G798.26' => 'can', 'CAN.G798.27' => 'can', 'CAN.G798.29' => 'can', 'CAN.G919.31' => 'can', 'CANSAT11G0133' => 'cansat', 'CANSAT11G1171' => 'cansat', 'CANSAT11G2056' => 'cansat', 'CANSAT56G1202' => 'cansat', 'CANSAT56G1514' => 'cansat', 'CANSAT78G0455' => 'cansat', 'CARHR011190' => 'chi', 'CARHR051980' => 'chi', 'CARHR120170' => 'chi', 'CARHR203310' => 'chi', 'CARHR221490' => 'chi', 'Carub.0001s1054' => 'cru', 'Carub.0002s0431' => 'cru', 'Carub.0004s0818' => 'cru', 'Carub.0006s0846' => 'cru', 'Carub.0007s2722' => 'cru', 'Ca_00058_v3' => 'car', 'Ca_17831_v3' => 'car', 'Ca_19408_v3' => 'car', 'Ca_24397_v3' => 'car', 'Ca_25664_v3' => 'car', 'CBR_g21818' => 'cbr', 'CBR_g31195' => 'cbr', 'CBR_g32282' => 'cbr', 'CBR_g39599' => 'cbr', 'CBR_g49410' => 'cbr', 'Cc01_g09120' => 'ccan', 'Cc01_g09130' => 'ccan', 'Cc02_g09630' => 'ccan', 'Cc02_g22810' => 'ccan', 'Cc03_g03810' => 'ccan', 'CDE02G3718' => 'cde', 'CDE04G3183' => 'cde', 'CDE07G1046' => 'cde', 'CDE08G0480' => 'cde', 'Cfa005493' => 'cfa', 'Cfa010312' => 'cfa', 'Cfa015648' => 'cfa', 'Ciclev10002793m.g' => 'ccl', 'Ciclev10003356m.g' => 'ccl', 'Ciclev10006141m.g' => 'ccl', 'Ciclev10016676m.g' => 'ccl', 'Ciclev10017081m.g' => 'ccl', 'Ciclev10029499m.g' => 'ccl', 'CiPaw.01G166300' => 'cil', 'CiPaw.06G145600' => 'cil', 'CiPaw.13G040100' => 'cil', 'CiPaw.13G135800' => 'cil', 'ClCG01G012230' => 'cla', 'ClCG05G009510' => 'cla', 'ClCG08G008270' => 'cla', 'COL.COLO4_11763' => 'col', 'COL.COLO4_19876' => 'col', 'COL.COLO4_21481' => 'col', 'Cpa.g.sc118.34' => 'cpa', 'Cpa.g.sc32.13' => 'cpa', 'Cpa.g.sc58.103' => 'cpa', 'Cre03.g183850' => 'cre', 'Cre06.g306350' => 'cre', 'Cre07.g334800' => 'cre', 'Cre12.g487900' => 'cre', 'Cre14.g626700' => 'cre', 'Cre16.g658400' => 'cre', 'Cre17.g700950' => 'cre', 'CsaV3_1G014830' => 'csa', 'CsaV3_3G013320' => 'csa', 'CsaV3_3G019210' => 'csa', 'CsaV3_3G019220' => 'csa', 'CsaV3_6G004230' => 'csa', 'CSS0003773' => 'camsi', 'CSS0004563' => 'camsi', 'CSS0013949' => 'camsi', 'CSS0025971' => 'camsi', 'CSS0028570' => 'camsi', 'CSS0033127' => 'camsi', 'CSS0036051' => 'camsi', 'CSS0040087' => 'camsi', 'CSS0043179' => 'camsi', 'DCAR_006161' => 'dca', 'DCAR_010351' => 'dca', 'DCAR_012197' => 'dca', 'DCAR_024162' => 'dca', 'Dinv01030' => 'din', 'Dinv10924' => 'din', 'Dinv11835' => 'din', 'Dinv22841' => 'din', 'Dinv42553' => 'din', 'Duzib052G0560' => 'dzi', 'Duzib132G0389' => 'dzi', 'Duzib150G1181' => 'dzi', 'Duzib168G0623' => 'dzi', 'Duzib170G1036' => 'dzi', 'Duzib212G0200' => 'dzi', 'Duzib248G0194' => 'dzi', 'ECA232G2193' => 'eca', 'ECA233G0302' => 'eca', 'ECA234G2813' => 'eca', 'ECA234G4866' => 'eca', 'ECA240G3932' => 'eca', 'ECA248G0385' => 'eca', 'EL10Ac2g04781' => 'bvu', 'EL10Ac3g06445' => 'bvu', 'EL10Ac7g15825' => 'bvu', 'EL10Ac8g18550' => 'bvu', 'Eucgr.B03849' => 'egr', 'Eucgr.I02744' => 'egr', 'Eucgr.J00264' => 'egr', 'Eucgr.J00493' => 'egr', 'FAN04G2181' => 'fan', 'FAN07G2666' => 'fan', 'FAN11G0024' => 'fan', 'FAN12G1105' => 'fan', 'FAN13G0302' => 'fan', 'FAN15G2781' => 'fan', 'FAN16G1274' => 'fan', 'FAN17G2988' => 'fan', 'FAN18G2621' => 'fan', 'FAN21G0013' => 'fan', 'FAN22G1211' => 'fan', 'FAN25G3626' => 'fan', 'FvH4_2g09491' => 'fve', 'FvH4_3g24910' => 'fve', 'FvH4_4g15630' => 'fve', 'FvH4_5g28820' => 'fve', 'Glyma.01G238000' => 'gma', 'Glyma.05G168400' => 'gma', 'Glyma.08G126800' => 'gma', 'Glyma.08G188500' => 'gma', 'Glyma.10G278900' => 'gma', 'Glyma.11G005700' => 'gma', 'Glyma.11G183300' => 'gma', 'Glyma.12G089200' => 'gma', 'Glyma.12G169400' => 'gma', 'Glyma.12G169500' => 'gma', 'Glyma.12G169600' => 'gma', 'Glyma.20G110800' => 'gma', 'Gohir.A03G192900' => 'ghi', 'Gohir.A03G193000' => 'ghi', 'Gohir.A05G080700' => 'ghi', 'Gohir.A09G216000' => 'ghi', 'Gohir.A12G027700' => 'ghi', 'Gohir.A13G036200' => 'ghi', 'Gohir.A13G222600' => 'ghi', 'Gohir.D02G213900' => 'ghi', 'Gohir.D02G214000' => 'ghi', 'Gohir.D05G083700' => 'ghi', 'Gohir.D05G083800' => 'ghi', 'Gohir.D05G083850' => 'ghi', 'Gohir.D08G015400' => 'ghi', 'Gohir.D09G218400' => 'ghi', 'Gohir.D12G027100' => 'ghi', 'Gohir.D13G034500' => 'ghi', 'Gohir.D13G227400' => 'ghi', 'Gorai.005G241800' => 'gra', 'Gorai.005G241900' => 'gra', 'Gorai.006G239400' => 'gra', 'Gorai.008G027600' => 'gra', 'Gorai.009G085400' => 'gra', 'Gorai.009G085500' => 'gra', 'Gorai.013G039000' => 'gra', 'Gorai.013G194800' => 'gra', 'Gorai.013G257900' => 'gra', 'GSVIVG01000982001' => 'vvi', 'GSVIVG01017981001' => 'vvi', 'HanXRQChr01g0024061' => 'han', 'HanXRQChr09g0247831' => 'han', 'HanXRQChr10g0294611' => 'han', 'HanXRQChr10g0294621' => 'han', 'HanXRQChr11g0346821' => 'han', 'HanXRQChr13g0397461' => 'han', 'HanXRQChr16g0513651' => 'han', 'HanXRQChr16g0513701' => 'han', 'Haze_00897' => 'cav', 'Haze_01745' => 'cav', 'Haze_02486' => 'cav', 'Haze_02487' => 'cav', 'Haze_23374' => 'cav', 'Hma1.2p1_0578F.1_g182520' => 'hma', 'Hma1.2p1_0602F.1_g187350' => 'hma', 'Hma1.2p1_0602F.1_g187360' => 'hma', 'Hma1.2p1_0874F.1_g231320' => 'hma', 'Hma1.2p1_1197F.1_g266210' => 'hma', 'Hma1.2p1_1197F.1_g266220' => 'hma', 'Hma1.2p1_2167F.1_g315895' => 'hma', 'Hma1.2p1_2190F.1_g316640' => 'hma', 'Hma1.2p1_3645F.1_g337153' => 'hma', 'HPP92_004907' => 'vpl', 'HPP92_012134' => 'vpl', 'HPP92_025136' => 'vpl', 'HPP92_026087' => 'vpl', 'Hund06782' => 'sun', 'Hund06784' => 'sun', 'Lalb_Chr01g0004861' => 'lal', 'Lalb_Chr02g0140591' => 'lal', 'Lalb_Chr02g0140611' => 'lal', 'Lalb_Chr03g0028101' => 'lal', 'Lalb_Chr07g0185791' => 'lal', 'Lalb_Chr12g0204491' => 'lal', 'Lalb_Chr13g0295671' => 'lal', 'Lalb_Chr19g0136461' => 'lal', 'Lalb_Chr21g0309191' => 'lal', 'Lj1g0028158' => 'lja', 'Lj1P236T38' => 'lonja', 'Lj2C32G2' => 'lonja', 'Lj2P944T8' => 'lonja', 'Lj2P963T15' => 'lonja', 'Lj3g0011788' => 'lja', 'Lj4g0025027' => 'lja', 'Lj5P255T36' => 'lonja', 'Lj6g0018866' => 'lja', 'Lj6P608T31' => 'lonja', 'LjContig00408g0008879' => 'lja', 'Lsat_1_v5_gn_5_105820' => 'lsa', 'Lsat_1_v5_gn_6_38800' => 'lsa', 'Lsat_1_v5_gn_7_67141' => 'lsa', 'Manes.04G003400' => 'mes', 'Manes.07G020000' => 'mes', 'Manes.07G020100' => 'mes', 'Manes.07G020150' => 'mes', 'Manes.10G061500' => 'mes', 'Manes.10G123200' => 'mes', 'Manes.11G161900' => 'mes', 'Manes.15G029300' => 'mes', 'Mapoly0071s0018' => 'mpo', 'Mapoly0082s0023' => 'mpo', 'Mapoly3477s0001' => 'mpo', 'MBI05_g31233_MAGBIO' => 'mbi', 'MBI09_g05946_MAGBIO' => 'mbi', 'MBI09_g05947_MAGBIO' => 'mbi', 'MBI17_g08346_MAGBIO' => 'mbi', 'MCO04G038' => 'mco', 'MCO09G370' => 'mco', 'MCO13G605' => 'mco', 'MD00G1075500' => 'mdo', 'MD03G1144300' => 'mdo', 'MD08G1236800' => 'mdo', 'MD13G1193300' => 'mdo', 'MD15G1428700' => 'mdo', 'Medtr1g112030' => 'mtr', 'Medtr1g112050' => 'mtr', 'Medtr2g006290' => 'mtr', 'Medtr2g086510' => 'mtr', 'Medtr4g053120' => 'mtr', 'Medtr5g006320' => 'mtr', 'Medtr8g088720' => 'mtr', 'MELO3C004712.2' => 'cme', 'MELO3C006533.2' => 'cme', 'MELO3C019438.2' => 'cme', 'MELO3C019440.2' => 'cme', 'MELO3C019441.2' => 'cme', 'MELO3C019895.2' => 'cme', 'Migut.B00811' => 'egut', 'Migut.D02447' => 'egut', 'Migut.F00875' => 'egut', 'Migut.N00186' => 'egut', 'Migut.N01051' => 'egut', 'Migut.N02491' => 'egut', 'Migut.O00784' => 'egut', 'MSTRG.12367' => 'ama', 'MSTRG.18756' => 'ama', 'MSTRG.21042' => 'ama', 'Nitab4.5_0000559g0040' => 'nta', 'Nitab4.5_0000667g0190' => 'nta', 'Nitab4.5_0000755g0160' => 'nta', 'Nitab4.5_0001216g0080' => 'nta', 'Nitab4.5_0004069g0040' => 'nta', 'Nitab4.5_0004129g0010' => 'nta', 'Nitab4.5_0005744g0030' => 'nta', 'Nitab4.5_0006996g0030' => 'nta', 'Nitab4.5_0008971g0040' => 'nta', 'Nitab4.5_0009769g0020' => 'nta', 'Nitab4.5_0009833g0010' => 'nta', 'Nitab4.5_0013140g0020' => 'nta', 'Nn003s41376' => 'nnu', 'Nn1g01857' => 'nnu', 'Nn1g03611' => 'nnu', 'Nn1g06853' => 'nnu', 'Nn3g18360' => 'nnu', 'Nn4g26328' => 'nnu', 'Nn5g27531' => 'nnu', 'Nn6g34899' => 'nnu', 'Nn7g36299' => 'nnu', 'Oeu021485.1' => 'oeu', 'Oeu022433.1' => 'oeu', 'Oeu032111.1' => 'oeu', 'Oeu051608.1' => 'oeu', 'Os01g0860601' => 'osa', 'Os03g0659200' => 'osa', 'Os03g0835900' => 'osa', 'Os04g0412200' => 'osa', 'Os05g0443500' => 'osa', 'Os07g0251500' => 'osa', 'Os08g0104600' => 'osa', 'Peaxi162Scf00003g00047' => 'pax', 'Peaxi162Scf00003g00052' => 'pax', 'Peaxi162Scf00003g00394' => 'pax', 'Peaxi162Scf00091g00621' => 'pax', 'Peaxi162Scf00152g00146' => 'pax', 'Peaxi162Scf00173g00025' => 'pax', 'Peaxi162Scf00195g00102' => 'pax', 'Peaxi162Scf00402g00013' => 'pax', 'Peaxi162Scf00519g00618' => 'pax', 'PGR004G2838' => 'pgr', 'PGR044G2275' => 'pgr', 'PGR102G1377' => 'pgr', 'PGR119G1245' => 'pgr', 'PGR142G4449' => 'pgr', 'PGSC0003DMG400004532' => 'stu', 'PGSC0003DMG400011950' => 'stu', 'PGSC0003DMG400023391' => 'stu', 'PGSC0003DMG400023985' => 'stu', 'PGSC0003DMG400026360' => 'stu', 'PGSC0003DMG400035711' => 'stu', 'PGSC0003DMG400037286' => 'stu', 'PGSC0003DMG402005881' => 'stu', 'Phvul.002G045400' => 'pvu', 'Phvul.006G216600' => 'pvu', 'Phvul.006G216700' => 'pvu', 'Phvul.006G216800' => 'pvu', 'Phvul.007G022500' => 'pvu', 'Phvul.011G094400' => 'pvu', 'Potri.001G470700' => 'ptr', 'Potri.003G015200' => 'ptr', 'Potri.004G202500' => 'ptr', 'Potri.004G218400' => 'ptr', 'Potri.008G020100' => 'ptr', 'Potri.008G153200' => 'ptr', 'Potri.009G163800' => 'ptr', 'Potri.010G087300' => 'ptr', 'Potri.010G239100' => 'ptr', 'Pp3c10_16100' => 'ppa', 'Pp3c10_16880' => 'ppa', 'Pp3c16_6230' => 'ppa', 'Pp3c17_18910' => 'ppa', 'Pp3c3_22119' => 'ppa', 'Pp3c3_22140' => 'ppa', 'Pp3c4_8159' => 'ppa', 'Pp3c4_8171' => 'ppa', 'Pp3c4_8330' => 'ppa', 'PRCOL_00004098' => 'pco', 'Prupe.1G013900' => 'ppe', 'Prupe.1G226300' => 'ppe', 'Prupe.1G573600' => 'ppe', 'Prupe.6G130100' => 'ppe', 'Psat3g090040' => 'psa', 'Psat4g210440' => 'psa', 'Psat6g231040' => 'psa', 'Psat6g231080' => 'psa', 'Psat7g063000' => 'psa', 'Psat7g188000' => 'psa', 'Psat7g188040' => 'psa', 'PSO017G0206' => 'pso', 'PSO170G0501' => 'pso', 'PSO170G6422' => 'pso', 'PSO210G7739' => 'pso', 'PSO339G1808' => 'pso', 'PSO339G6135' => 'pso', 'PSO384G0010' => 'pso', 'PSO384G0964' => 'pso', 'PSO761G0050' => 'pso', 'PSO782G4085' => 'pso', 'QL01p012264' => 'qlo', 'QL02p099491' => 'qlo', 'QL03p033868' => 'qlo', 'QL04p046678' => 'qlo', 'QL06p002448' => 'qlo', 'RcHm_v2.0_Chr4g0416181' => 'rch', 'RcHm_v2.0_Chr5g0044701' => 'rch', 'RcHm_v2.0_Chr6g0265781' => 'rch', 'RcHm_v2.0_Chr7g0221031' => 'rch', 'Rhsim04G0202000' => 'rsi', 'Rhsim11G0127300' => 'rsi', 'Rhsim13G0111800' => 'rsi', 'Sabra01G0165600' => 'sbr', 'Sabra03G0008300' => 'sbr', 'Sabra04G0136900' => 'sbr', 'Sabra08G0013400' => 'sbr', 'Sabra08G0116800' => 'sbr', 'Sabra09G0128000' => 'sbr', 'Sabra10G0055500' => 'sbr', 'Sabra10G0073300' => 'sbr', 'SalBow3G0385' => 'sbo', 'SalBow3G1119' => 'sbo', 'SalBow3G2005' => 'sbo', 'SalBow6G2563' => 'sbo', 'SalBow6G6386' => 'sbo', 'Sc06g0008800' => 'sci', 'Sc07g0004950' => 'sci', 'Sc09g0005340' => 'sci', 'Sc13g0004410' => 'sci', 'Sc21g0007090' => 'sci', 'Sed0009285' => 'sed', 'Sed0017583' => 'sed', 'Sed0019699' => 'sed', 'Sed0023107' => 'sed', 'SEGI_10916' => 'sgi', 'SEGI_16217' => 'sgi', 'SEGI_19466' => 'sgi', 'SEGI_41115' => 'sgi', 'SGA_v2.0_scaffold111G31534' => 'sas', 'SGA_v2.0_scaffold22G09864' => 'sas', 'SGA_v2.0_scaffold338G49219' => 'sas', 'SGA_v2.0_scaffold92G28298' => 'sas', 'SMO119G0064' => 'smo', 'SMO223G0038' => 'smo', 'SMO347G0584' => 'smo', 'SMO351G0010' => 'smo', 'SMO356G0404' => 'smo', 'Solyc01g103920.3' => 'sly', 'Solyc04g009710.2' => 'sly', 'Solyc05g055280.2' => 'sly', 'Solyc10g044520.3' => 'sly', 'Solyc10g075160.1' => 'sly', 'Solyc11g006910.3' => 'sly', 'Solyc11g068430.3' => 'sly', 'Sopen01g046310' => 'spe', 'Sopen03g001200' => 'spe', 'Sopen04g004830' => 'spe', 'Sopen05g033720' => 'spe', 'Sopen06g030740' => 'spe', 'Sopen10g013090' => 'spe', 'Sopen10g027630' => 'spe', 'Sopen10g027640' => 'spe', 'Sopen11g002820' => 'spe', 'Sopen11g027140' => 'spe', 'Sp1g09680' => 'spa', 'Sp2g03630' => 'spa', 'Sp4g10320' => 'spa', 'Sp6g33400' => 'spa', 'Sp7g13030' => 'spa', 'TAR365G0317' => 'tar', 'TAR376G0979' => 'tar', 'TAR623G1665' => 'tar', 'TAR633G2373' => 'tar', 'TAR636G1400' => 'tar', 'THA.LOC104800529' => 'tha', 'THA.LOC104808547' => 'tha', 'THA.LOC104809615' => 'tha', 'THA.LOC104815724' => 'tha', 'THA.LOC104818480' => 'tha', 'THA.LOC104819179' => 'tha', 'THA.LOC104822270' => 'tha', 'THA.LOC104826425' => 'tha', 'Thecc.02G089700' => 'tca', 'Thecc.04G232300' => 'tca', 'Thecc.09G283400' => 'tca', 'Thhalv10009020m.g' => 'esa', 'Thhalv10015506m.g' => 'esa', 'Thhalv10017364m.g' => 'esa', 'Thhalv10023742m.g' => 'esa', 'Thhalv10026483m.g' => 'esa', 'TPR.G17232' => 'tpr', 'TPR.G2133' => 'tpr', 'TPR.G2498' => 'tpr', 'TPR.G31942' => 'tpr', 'TPR.G37877' => 'tpr', 'TPR.G4571' => 'tpr', 'TWI14G1113' => 'twi', 'TWI15G0426' => 'twi', 'TWI31G1005' => 'twi', 'TWI38G0513' => 'twi', 'TWI38G1484' => 'twi', 'TWI73G1098' => 'twi', 'unitig_26.g10519' => 'ugi', 'unitig_736.g22395' => 'ugi', 'unitig_747.g21234' => 'ugi', 'unitig_747.g21942' => 'ugi', 'vmacro14351' => 'vma', 'VMungo0540G0082' => 'vmu', 'VMungo0540G0405' => 'vmu', 'VMungo0540G1486' => 'vmu', 'VMungo0540G1692' => 'vmu', 'VMungo0720G2473' => 'vmu', 'VMungo1127G1562' => 'vmu', 'VMungo1215G1918' => 'vmu', 'Zm00001eb052650' => 'zma', 'Zm00001eb063710' => 'zma', 'Zm00001eb083950' => 'zma', 'Zm00001eb174420' => 'zma', 'Zm00001eb260140' => 'zma', 'Zm00001eb260150' => 'zma', 'Zm00001eb260160' => 'zma', 'Zm00001eb348290' => 'zma', 'Zm00001eb366870' => 'zma', 'Zm00001eb421930' => 'zma' ), 'gf_id' => 'HOM05D001025', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001025' ), 'data_identifier' => 'HOM05D001025', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001025', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '592', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p22650' => 'bna', 'A01p29720' => 'bna', 'A03p26560' => 'bna', 'A03p68820' => 'bna', 'A04p20980' => 'bna', 'A06p07730' => 'bna', 'A07p18260' => 'bna', 'A08p33710' => 'bna', 'A09p16970' => 'bna', 'A10p27490' => 'bna', 'Aa31LG1G17300' => 'aar', 'Aa31LG1G3910' => 'aar', 'Aa31LG2G9630' => 'aar', 'Aa31LG5G8360' => 'aar', 'Aa31LG9G2410' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4699' => 'aag', 'Actinidia23512' => 'ach', 'Actinidia37080' => 'ach', 'Ah.01g020380' => 'amhyb', 'Ah.08g215710' => 'amhyb', 'Ah.09g225110' => 'amhyb', 'Ah.10g036680' => 'amhyb', 'AL1G21940' => 'aly', 'AL2G15540' => 'aly', 'AL4G21520' => 'aly', 'AL7G40960' => 'aly', 'Aqoxy2G01191' => 'aox', 'Aqoxy2G03393' => 'aox', 'Aqoxy4G02775' => 'aox', 'Aqoxy6G00058' => 'aox', 'arahy.Tifrunner.gnm1.ann1.9X74H2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CW3FX9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R485W7' => 'arhy', 'AT1G10960' => 'ath', 'AT1G60950' => 'ath', 'AT2G27510' => 'ath', 'AT4G14890' => 'ath', 'AT5G10000' => 'ath', 'ATR0665G624' => 'atr', 'ATR0697G138' => 'atr', 'ATR0776G046' => 'atr', 'ATR1134G135' => 'atr', 'Atru.chr12.1025' => 'acertr', 'Atru.chr3.3241' => 'acertr', 'Atru.chr4.2460' => 'acertr', 'AUR62007427' => 'cqu', 'AUR62010960' => 'cqu', 'AUR62012201' => 'cqu', 'AUR62021470' => 'cqu', 'AUR62022834' => 'cqu', 'AUR62033635' => 'cqu', 'AUR62036186' => 'cqu', 'BcaB01g03077' => 'bca', 'BcaB02g10093' => 'bca', 'BcaB04g20295' => 'bca', 'BcaB06g28147' => 'bca', 'BcaB07g31253' => 'bca', 'BcaC01g04946' => 'bca', 'BcaC02g10614' => 'bca', 'BcaC02g10885' => 'bca', 'BcaC04g19356' => 'bca', 'BcaC04g22297' => 'bca', 'BcaC05g24977' => 'bca', 'BcaC06g31823' => 'bca', 'BcaC07g38633' => 'bca', 'BcaC09g49353' => 'bca', 'BcaC09g50168' => 'bca', 'BcaNung00322' => 'bca', 'BcaNung04769' => 'bca', 'BolC1t02753H' => 'bol', 'BolC1t03721H' => 'bol', 'BolC3t15525H' => 'bol', 'BolC4t23903H' => 'bol', 'BolC4t24231H' => 'bol', 'BolC4t27209H' => 'bol', 'BolC5t29671H' => 'bol', 'BolC8t49044H' => 'bol', 'BolC9t54999H' => 'bol', 'BolC9t59517H' => 'bol', 'BraA01t02178Z' => 'bra', 'BraA01t03099Z' => 'bra', 'BraA03t11867Z' => 'bra', 'BraA04t17667Z' => 'bra', 'BraA07t29542Z' => 'bra', 'BraA08t35287Z' => 'bra', 'BraA09t37334Z' => 'bra', 'BraA10t44801Z' => 'bra', 'BraSC39t46181Z' => 'bra', 'C01p28240' => 'bna', 'C01p37530' => 'bna', 'C03p31820' => 'bna', 'C04p24080' => 'bna', 'C04p25790' => 'bna', 'C04p56770' => 'bna', 'C05p09310' => 'bna', 'C09p21010' => 'bna', 'C09p67560' => 'bna', 'CAN.G1324.7' => 'can', 'CAN.G1358.10' => 'can', 'CAN.G1550.2' => 'can', 'CAN.G186.56' => 'can', 'CAN.G1965.1' => 'can', 'CAN.G645.15' => 'can', 'CAN.G798.26' => 'can', 'CAN.G798.27' => 'can', 'CAN.G798.29' => 'can', 'CAN.G919.31' => 'can', 'CANSAT11G0133' => 'cansat', 'CANSAT11G1171' => 'cansat', 'CANSAT11G2056' => 'cansat', 'CANSAT56G1202' => 'cansat', 'CANSAT56G1514' => 'cansat', 'CANSAT78G0455' => 'cansat', 'CARHR011190' => 'chi', 'CARHR051980' => 'chi', 'CARHR120170' => 'chi', 'CARHR203310' => 'chi', 'CARHR221490' => 'chi', 'Carub.0001s1054' => 'cru', 'Carub.0002s0431' => 'cru', 'Carub.0004s0818' => 'cru', 'Carub.0006s0846' => 'cru', 'Carub.0007s2722' => 'cru', 'Ca_00058_v3' => 'car', 'Ca_17831_v3' => 'car', 'Ca_19408_v3' => 'car', 'Ca_24397_v3' => 'car', 'Ca_25664_v3' => 'car', 'CBR_g21818' => 'cbr', 'CBR_g31195' => 'cbr', 'CBR_g32282' => 'cbr', 'CBR_g39599' => 'cbr', 'CBR_g49410' => 'cbr', 'Cc01_g09120' => 'ccan', 'Cc01_g09130' => 'ccan', 'Cc02_g09630' => 'ccan', 'Cc02_g22810' => 'ccan', 'Cc03_g03810' => 'ccan', 'CDE02G3718' => 'cde', 'CDE04G3183' => 'cde', 'CDE07G1046' => 'cde', 'CDE08G0480' => 'cde', 'Cfa005493' => 'cfa', 'Cfa010312' => 'cfa', 'Cfa015648' => 'cfa', 'Ciclev10002793m.g' => 'ccl', 'Ciclev10003356m.g' => 'ccl', 'Ciclev10006141m.g' => 'ccl', 'Ciclev10016676m.g' => 'ccl', 'Ciclev10017081m.g' => 'ccl', 'Ciclev10029499m.g' => 'ccl', 'CiPaw.01G166300' => 'cil', 'CiPaw.06G145600' => 'cil', 'CiPaw.13G040100' => 'cil', 'CiPaw.13G135800' => 'cil', 'ClCG01G012230' => 'cla', 'ClCG05G009510' => 'cla', 'ClCG08G008270' => 'cla', 'COL.COLO4_11763' => 'col', 'COL.COLO4_19876' => 'col', 'COL.COLO4_21481' => 'col', 'Cpa.g.sc118.34' => 'cpa', 'Cpa.g.sc32.13' => 'cpa', 'Cpa.g.sc58.103' => 'cpa', 'Cre03.g183850' => 'cre', 'Cre06.g306350' => 'cre', 'Cre07.g334800' => 'cre', 'Cre12.g487900' => 'cre', 'Cre14.g626700' => 'cre', 'Cre16.g658400' => 'cre', 'Cre17.g700950' => 'cre', 'CsaV3_1G014830' => 'csa', 'CsaV3_3G013320' => 'csa', 'CsaV3_3G019210' => 'csa', 'CsaV3_3G019220' => 'csa', 'CsaV3_6G004230' => 'csa', 'CSS0003773' => 'camsi', 'CSS0004563' => 'camsi', 'CSS0013949' => 'camsi', 'CSS0025971' => 'camsi', 'CSS0028570' => 'camsi', 'CSS0033127' => 'camsi', 'CSS0036051' => 'camsi', 'CSS0040087' => 'camsi', 'CSS0043179' => 'camsi', 'DCAR_006161' => 'dca', 'DCAR_010351' => 'dca', 'DCAR_012197' => 'dca', 'DCAR_024162' => 'dca', 'Dinv01030' => 'din', 'Dinv10924' => 'din', 'Dinv11835' => 'din', 'Dinv22841' => 'din', 'Dinv42553' => 'din', 'Duzib052G0560' => 'dzi', 'Duzib132G0389' => 'dzi', 'Duzib150G1181' => 'dzi', 'Duzib168G0623' => 'dzi', 'Duzib170G1036' => 'dzi', 'Duzib212G0200' => 'dzi', 'Duzib248G0194' => 'dzi', 'ECA232G2193' => 'eca', 'ECA233G0302' => 'eca', 'ECA234G2813' => 'eca', 'ECA234G4866' => 'eca', 'ECA240G3932' => 'eca', 'ECA248G0385' => 'eca', 'EL10Ac2g04781' => 'bvu', 'EL10Ac3g06445' => 'bvu', 'EL10Ac7g15825' => 'bvu', 'EL10Ac8g18550' => 'bvu', 'Eucgr.B03849' => 'egr', 'Eucgr.I02744' => 'egr', 'Eucgr.J00264' => 'egr', 'Eucgr.J00493' => 'egr', 'FAN04G2181' => 'fan', 'FAN07G2666' => 'fan', 'FAN11G0024' => 'fan', 'FAN12G1105' => 'fan', 'FAN13G0302' => 'fan', 'FAN15G2781' => 'fan', 'FAN16G1274' => 'fan', 'FAN17G2988' => 'fan', 'FAN18G2621' => 'fan', 'FAN21G0013' => 'fan', 'FAN22G1211' => 'fan', 'FAN25G3626' => 'fan', 'FvH4_2g09491' => 'fve', 'FvH4_3g24910' => 'fve', 'FvH4_4g15630' => 'fve', 'FvH4_5g28820' => 'fve', 'Glyma.01G238000' => 'gma', 'Glyma.05G168400' => 'gma', 'Glyma.08G126800' => 'gma', 'Glyma.08G188500' => 'gma', 'Glyma.10G278900' => 'gma', 'Glyma.11G005700' => 'gma', 'Glyma.11G183300' => 'gma', 'Glyma.12G089200' => 'gma', 'Glyma.12G169400' => 'gma', 'Glyma.12G169500' => 'gma', 'Glyma.12G169600' => 'gma', 'Glyma.20G110800' => 'gma', 'Gohir.A03G192900' => 'ghi', 'Gohir.A03G193000' => 'ghi', 'Gohir.A05G080700' => 'ghi', 'Gohir.A09G216000' => 'ghi', 'Gohir.A12G027700' => 'ghi', 'Gohir.A13G036200' => 'ghi', 'Gohir.A13G222600' => 'ghi', 'Gohir.D02G213900' => 'ghi', 'Gohir.D02G214000' => 'ghi', 'Gohir.D05G083700' => 'ghi', 'Gohir.D05G083800' => 'ghi', 'Gohir.D05G083850' => 'ghi', 'Gohir.D08G015400' => 'ghi', 'Gohir.D09G218400' => 'ghi', 'Gohir.D12G027100' => 'ghi', 'Gohir.D13G034500' => 'ghi', 'Gohir.D13G227400' => 'ghi', 'Gorai.005G241800' => 'gra', 'Gorai.005G241900' => 'gra', 'Gorai.006G239400' => 'gra', 'Gorai.008G027600' => 'gra', 'Gorai.009G085400' => 'gra', 'Gorai.009G085500' => 'gra', 'Gorai.013G039000' => 'gra', 'Gorai.013G194800' => 'gra', 'Gorai.013G257900' => 'gra', 'GSVIVG01000982001' => 'vvi', 'GSVIVG01017981001' => 'vvi', 'HanXRQChr01g0024061' => 'han', 'HanXRQChr09g0247831' => 'han', 'HanXRQChr10g0294611' => 'han', 'HanXRQChr10g0294621' => 'han', 'HanXRQChr11g0346821' => 'han', 'HanXRQChr13g0397461' => 'han', 'HanXRQChr16g0513651' => 'han', 'HanXRQChr16g0513701' => 'han', 'Haze_00897' => 'cav', 'Haze_01745' => 'cav', 'Haze_02486' => 'cav', 'Haze_02487' => 'cav', 'Haze_23374' => 'cav', 'Hma1.2p1_0578F.1_g182520' => 'hma', 'Hma1.2p1_0602F.1_g187350' => 'hma', 'Hma1.2p1_0602F.1_g187360' => 'hma', 'Hma1.2p1_0874F.1_g231320' => 'hma', 'Hma1.2p1_1197F.1_g266210' => 'hma', 'Hma1.2p1_1197F.1_g266220' => 'hma', 'Hma1.2p1_2167F.1_g315895' => 'hma', 'Hma1.2p1_2190F.1_g316640' => 'hma', 'Hma1.2p1_3645F.1_g337153' => 'hma', 'HPP92_004907' => 'vpl', 'HPP92_012134' => 'vpl', 'HPP92_025136' => 'vpl', 'HPP92_026087' => 'vpl', 'Hund06782' => 'sun', 'Hund06784' => 'sun', 'Lalb_Chr01g0004861' => 'lal', 'Lalb_Chr02g0140591' => 'lal', 'Lalb_Chr02g0140611' => 'lal', 'Lalb_Chr03g0028101' => 'lal', 'Lalb_Chr07g0185791' => 'lal', 'Lalb_Chr12g0204491' => 'lal', 'Lalb_Chr13g0295671' => 'lal', 'Lalb_Chr19g0136461' => 'lal', 'Lalb_Chr21g0309191' => 'lal', 'Lj1g0028158' => 'lja', 'Lj1P236T38' => 'lonja', 'Lj2C32G2' => 'lonja', 'Lj2P944T8' => 'lonja', 'Lj2P963T15' => 'lonja', 'Lj3g0011788' => 'lja', 'Lj4g0025027' => 'lja', 'Lj5P255T36' => 'lonja', 'Lj6g0018866' => 'lja', 'Lj6P608T31' => 'lonja', 'LjContig00408g0008879' => 'lja', 'Lsat_1_v5_gn_5_105820' => 'lsa', 'Lsat_1_v5_gn_6_38800' => 'lsa', 'Lsat_1_v5_gn_7_67141' => 'lsa', 'Manes.04G003400' => 'mes', 'Manes.07G020000' => 'mes', 'Manes.07G020100' => 'mes', 'Manes.07G020150' => 'mes', 'Manes.10G061500' => 'mes', 'Manes.10G123200' => 'mes', 'Manes.11G161900' => 'mes', 'Manes.15G029300' => 'mes', 'Mapoly0071s0018' => 'mpo', 'Mapoly0082s0023' => 'mpo', 'Mapoly3477s0001' => 'mpo', 'MBI05_g31233_MAGBIO' => 'mbi', 'MBI09_g05946_MAGBIO' => 'mbi', 'MBI09_g05947_MAGBIO' => 'mbi', 'MBI17_g08346_MAGBIO' => 'mbi', 'MCO04G038' => 'mco', 'MCO09G370' => 'mco', 'MCO13G605' => 'mco', 'MD00G1075500' => 'mdo', 'MD03G1144300' => 'mdo', 'MD08G1236800' => 'mdo', 'MD13G1193300' => 'mdo', 'MD15G1428700' => 'mdo', 'Medtr1g112030' => 'mtr', 'Medtr1g112050' => 'mtr', 'Medtr2g006290' => 'mtr', 'Medtr2g086510' => 'mtr', 'Medtr4g053120' => 'mtr', 'Medtr5g006320' => 'mtr', 'Medtr8g088720' => 'mtr', 'MELO3C004712.2' => 'cme', 'MELO3C006533.2' => 'cme', 'MELO3C019438.2' => 'cme', 'MELO3C019440.2' => 'cme', 'MELO3C019441.2' => 'cme', 'MELO3C019895.2' => 'cme', 'Migut.B00811' => 'egut', 'Migut.D02447' => 'egut', 'Migut.F00875' => 'egut', 'Migut.N00186' => 'egut', 'Migut.N01051' => 'egut', 'Migut.N02491' => 'egut', 'Migut.O00784' => 'egut', 'MSTRG.12367' => 'ama', 'MSTRG.18756' => 'ama', 'MSTRG.21042' => 'ama', 'Nitab4.5_0000559g0040' => 'nta', 'Nitab4.5_0000667g0190' => 'nta', 'Nitab4.5_0000755g0160' => 'nta', 'Nitab4.5_0001216g0080' => 'nta', 'Nitab4.5_0004069g0040' => 'nta', 'Nitab4.5_0004129g0010' => 'nta', 'Nitab4.5_0005744g0030' => 'nta', 'Nitab4.5_0006996g0030' => 'nta', 'Nitab4.5_0008971g0040' => 'nta', 'Nitab4.5_0009769g0020' => 'nta', 'Nitab4.5_0009833g0010' => 'nta', 'Nitab4.5_0013140g0020' => 'nta', 'Nn003s41376' => 'nnu', 'Nn1g01857' => 'nnu', 'Nn1g03611' => 'nnu', 'Nn1g06853' => 'nnu', 'Nn3g18360' => 'nnu', 'Nn4g26328' => 'nnu', 'Nn5g27531' => 'nnu', 'Nn6g34899' => 'nnu', 'Nn7g36299' => 'nnu', 'Oeu021485.1' => 'oeu', 'Oeu022433.1' => 'oeu', 'Oeu032111.1' => 'oeu', 'Oeu051608.1' => 'oeu', 'Os01g0860601' => 'osa', 'Os03g0659200' => 'osa', 'Os03g0835900' => 'osa', 'Os04g0412200' => 'osa', 'Os05g0443500' => 'osa', 'Os07g0251500' => 'osa', 'Os08g0104600' => 'osa', 'Peaxi162Scf00003g00047' => 'pax', 'Peaxi162Scf00003g00052' => 'pax', 'Peaxi162Scf00003g00394' => 'pax', 'Peaxi162Scf00091g00621' => 'pax', 'Peaxi162Scf00152g00146' => 'pax', 'Peaxi162Scf00173g00025' => 'pax', 'Peaxi162Scf00195g00102' => 'pax', 'Peaxi162Scf00402g00013' => 'pax', 'Peaxi162Scf00519g00618' => 'pax', 'PGR004G2838' => 'pgr', 'PGR044G2275' => 'pgr', 'PGR102G1377' => 'pgr', 'PGR119G1245' => 'pgr', 'PGR142G4449' => 'pgr', 'PGSC0003DMG400004532' => 'stu', 'PGSC0003DMG400011950' => 'stu', 'PGSC0003DMG400023391' => 'stu', 'PGSC0003DMG400023985' => 'stu', 'PGSC0003DMG400026360' => 'stu', 'PGSC0003DMG400035711' => 'stu', 'PGSC0003DMG400037286' => 'stu', 'PGSC0003DMG402005881' => 'stu', 'Phvul.002G045400' => 'pvu', 'Phvul.006G216600' => 'pvu', 'Phvul.006G216700' => 'pvu', 'Phvul.006G216800' => 'pvu', 'Phvul.007G022500' => 'pvu', 'Phvul.011G094400' => 'pvu', 'Potri.001G470700' => 'ptr', 'Potri.003G015200' => 'ptr', 'Potri.004G202500' => 'ptr', 'Potri.004G218400' => 'ptr', 'Potri.008G020100' => 'ptr', 'Potri.008G153200' => 'ptr', 'Potri.009G163800' => 'ptr', 'Potri.010G087300' => 'ptr', 'Potri.010G239100' => 'ptr', 'Pp3c10_16100' => 'ppa', 'Pp3c10_16880' => 'ppa', 'Pp3c16_6230' => 'ppa', 'Pp3c17_18910' => 'ppa', 'Pp3c3_22119' => 'ppa', 'Pp3c3_22140' => 'ppa', 'Pp3c4_8159' => 'ppa', 'Pp3c4_8171' => 'ppa', 'Pp3c4_8330' => 'ppa', 'PRCOL_00004098' => 'pco', 'Prupe.1G013900' => 'ppe', 'Prupe.1G226300' => 'ppe', 'Prupe.1G573600' => 'ppe', 'Prupe.6G130100' => 'ppe', 'Psat3g090040' => 'psa', 'Psat4g210440' => 'psa', 'Psat6g231040' => 'psa', 'Psat6g231080' => 'psa', 'Psat7g063000' => 'psa', 'Psat7g188000' => 'psa', 'Psat7g188040' => 'psa', 'PSO017G0206' => 'pso', 'PSO170G0501' => 'pso', 'PSO170G6422' => 'pso', 'PSO210G7739' => 'pso', 'PSO339G1808' => 'pso', 'PSO339G6135' => 'pso', 'PSO384G0010' => 'pso', 'PSO384G0964' => 'pso', 'PSO761G0050' => 'pso', 'PSO782G4085' => 'pso', 'QL01p012264' => 'qlo', 'QL02p099491' => 'qlo', 'QL03p033868' => 'qlo', 'QL04p046678' => 'qlo', 'QL06p002448' => 'qlo', 'RcHm_v2.0_Chr4g0416181' => 'rch', 'RcHm_v2.0_Chr5g0044701' => 'rch', 'RcHm_v2.0_Chr6g0265781' => 'rch', 'RcHm_v2.0_Chr7g0221031' => 'rch', 'Rhsim04G0202000' => 'rsi', 'Rhsim11G0127300' => 'rsi', 'Rhsim13G0111800' => 'rsi', 'Sabra01G0165600' => 'sbr', 'Sabra03G0008300' => 'sbr', 'Sabra04G0136900' => 'sbr', 'Sabra08G0013400' => 'sbr', 'Sabra08G0116800' => 'sbr', 'Sabra09G0128000' => 'sbr', 'Sabra10G0055500' => 'sbr', 'Sabra10G0073300' => 'sbr', 'SalBow3G0385' => 'sbo', 'SalBow3G1119' => 'sbo', 'SalBow3G2005' => 'sbo', 'SalBow6G2563' => 'sbo', 'SalBow6G6386' => 'sbo', 'Sc06g0008800' => 'sci', 'Sc07g0004950' => 'sci', 'Sc09g0005340' => 'sci', 'Sc13g0004410' => 'sci', 'Sc21g0007090' => 'sci', 'Sed0009285' => 'sed', 'Sed0017583' => 'sed', 'Sed0019699' => 'sed', 'Sed0023107' => 'sed', 'SEGI_10916' => 'sgi', 'SEGI_16217' => 'sgi', 'SEGI_19466' => 'sgi', 'SEGI_41115' => 'sgi', 'SGA_v2.0_scaffold111G31534' => 'sas', 'SGA_v2.0_scaffold22G09864' => 'sas', 'SGA_v2.0_scaffold338G49219' => 'sas', 'SGA_v2.0_scaffold92G28298' => 'sas', 'SMO119G0064' => 'smo', 'SMO223G0038' => 'smo', 'SMO347G0584' => 'smo', 'SMO351G0010' => 'smo', 'SMO356G0404' => 'smo', 'Solyc01g103920.3' => 'sly', 'Solyc04g009710.2' => 'sly', 'Solyc05g055280.2' => 'sly', 'Solyc10g044520.3' => 'sly', 'Solyc10g075160.1' => 'sly', 'Solyc11g006910.3' => 'sly', 'Solyc11g068430.3' => 'sly', 'Sopen01g046310' => 'spe', 'Sopen03g001200' => 'spe', 'Sopen04g004830' => 'spe', 'Sopen05g033720' => 'spe', 'Sopen06g030740' => 'spe', 'Sopen10g013090' => 'spe', 'Sopen10g027630' => 'spe', 'Sopen10g027640' => 'spe', 'Sopen11g002820' => 'spe', 'Sopen11g027140' => 'spe', 'Sp1g09680' => 'spa', 'Sp2g03630' => 'spa', 'Sp4g10320' => 'spa', 'Sp6g33400' => 'spa', 'Sp7g13030' => 'spa', 'TAR365G0317' => 'tar', 'TAR376G0979' => 'tar', 'TAR623G1665' => 'tar', 'TAR633G2373' => 'tar', 'TAR636G1400' => 'tar', 'THA.LOC104800529' => 'tha', 'THA.LOC104808547' => 'tha', 'THA.LOC104809615' => 'tha', 'THA.LOC104815724' => 'tha', 'THA.LOC104818480' => 'tha', 'THA.LOC104819179' => 'tha', 'THA.LOC104822270' => 'tha', 'THA.LOC104826425' => 'tha', 'Thecc.02G089700' => 'tca', 'Thecc.04G232300' => 'tca', 'Thecc.09G283400' => 'tca', 'Thhalv10009020m.g' => 'esa', 'Thhalv10015506m.g' => 'esa', 'Thhalv10017364m.g' => 'esa', 'Thhalv10023742m.g' => 'esa', 'Thhalv10026483m.g' => 'esa', 'TPR.G17232' => 'tpr', 'TPR.G2133' => 'tpr', 'TPR.G2498' => 'tpr', 'TPR.G31942' => 'tpr', 'TPR.G37877' => 'tpr', 'TPR.G4571' => 'tpr', 'TWI14G1113' => 'twi', 'TWI15G0426' => 'twi', 'TWI31G1005' => 'twi', 'TWI38G0513' => 'twi', 'TWI38G1484' => 'twi', 'TWI73G1098' => 'twi', 'unitig_26.g10519' => 'ugi', 'unitig_736.g22395' => 'ugi', 'unitig_747.g21234' => 'ugi', 'unitig_747.g21942' => 'ugi', 'vmacro14351' => 'vma', 'VMungo0540G0082' => 'vmu', 'VMungo0540G0405' => 'vmu', 'VMungo0540G1486' => 'vmu', 'VMungo0540G1692' => 'vmu', 'VMungo0720G2473' => 'vmu', 'VMungo1127G1562' => 'vmu', 'VMungo1215G1918' => 'vmu', 'Zm00001eb052650' => 'zma', 'Zm00001eb063710' => 'zma', 'Zm00001eb083950' => 'zma', 'Zm00001eb174420' => 'zma', 'Zm00001eb260140' => 'zma', 'Zm00001eb260150' => 'zma', 'Zm00001eb260160' => 'zma', 'Zm00001eb348290' => 'zma', 'Zm00001eb366870' => 'zma', 'Zm00001eb421930' => 'zma' ) $gf_id = 'HOM05D001025' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001025' ) $data_identifier = 'HOM05D001025' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 19, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 2, 'amhyb' => (int) 4, 'aly' => (int) 4, 'aox' => (int) 4, 'arhy' => (int) 3, 'ath' => (int) 5, 'atr' => (int) 4, 'acertr' => (int) 3, 'cqu' => (int) 7, 'bca' => (int) 17, 'bol' => (int) 10, 'bra' => (int) 9, 'can' => (int) 10, 'cansat' => (int) 6, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 5, 'cbr' => (int) 5, 'ccan' => (int) 5, 'cde' => (int) 4, 'cfa' => (int) 3, 'ccl' => (int) 6, 'cil' => (int) 4, 'cla' => (int) 3, 'col' => (int) 3, 'cpa' => (int) 3, 'cre' => (int) 7, 'csa' => (int) 5, 'camsi' => (int) 9, 'dca' => (int) 4, 'din' => (int) 5, 'dzi' => (int) 7, 'eca' => (int) 6, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 12, 'fve' => (int) 4, 'gma' => (int) 12, 'ghi' => (int) 17, 'gra' => (int) 9, 'vvi' => (int) 2, 'han' => (int) 8, 'cav' => (int) 5, 'hma' => (int) 9, 'vpl' => (int) 4, 'sun' => (int) 2, 'lal' => (int) 9, 'lja' => (int) 5, 'lonja' => (int) 6, 'lsa' => (int) 3, 'mes' => (int) 8, 'mpo' => (int) 3, 'mbi' => (int) 4, 'mco' => (int) 3, 'mdo' => (int) 5, 'mtr' => (int) 7, 'cme' => (int) 6, 'egut' => (int) 7, 'ama' => (int) 3, 'nta' => (int) 12, 'nnu' => (int) 9, 'oeu' => (int) 4, 'osa' => (int) 7, 'pax' => (int) 9, 'pgr' => (int) 5, 'stu' => (int) 8, 'pvu' => (int) 6, 'ptr' => (int) 9, 'ppa' => (int) 9, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 7, 'pso' => (int) 10, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 3, 'sbr' => (int) 8, 'sbo' => (int) 5, 'sci' => (int) 5, 'sed' => (int) 4, 'sgi' => (int) 4, 'sas' => (int) 4, 'smo' => (int) 5, 'sly' => (int) 7, 'spe' => (int) 10, 'spa' => (int) 5, 'tar' => (int) 5, 'tha' => (int) 8, 'tca' => (int) 3, 'esa' => (int) 5, 'tpr' => (int) 6, 'twi' => (int) 6, 'ugi' => (int) 4, 'vma' => (int) 1, 'vmu' => (int) 7, 'zma' => (int) 10 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb421930' $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' => 'HOM05D001025', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '592', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p22650' => 'bna', 'A01p29720' => 'bna', 'A03p26560' => 'bna', 'A03p68820' => 'bna', 'A04p20980' => 'bna', 'A06p07730' => 'bna', 'A07p18260' => 'bna', 'A08p33710' => 'bna', 'A09p16970' => 'bna', 'A10p27490' => 'bna', 'Aa31LG1G17300' => 'aar', 'Aa31LG1G3910' => 'aar', 'Aa31LG2G9630' => 'aar', 'Aa31LG5G8360' => 'aar', 'Aa31LG9G2410' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4699' => 'aag', 'Actinidia23512' => 'ach', 'Actinidia37080' => 'ach', 'Ah.01g020380' => 'amhyb', 'Ah.08g215710' => 'amhyb', 'Ah.09g225110' => 'amhyb', 'Ah.10g036680' => 'amhyb', 'AL1G21940' => 'aly', 'AL2G15540' => 'aly', 'AL4G21520' => 'aly', 'AL7G40960' => 'aly', 'Aqoxy2G01191' => 'aox', 'Aqoxy2G03393' => 'aox', 'Aqoxy4G02775' => 'aox', 'Aqoxy6G00058' => 'aox', 'arahy.Tifrunner.gnm1.ann1.9X74H2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CW3FX9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R485W7' => 'arhy', 'AT1G10960' => 'ath', 'AT1G60950' => 'ath', 'AT2G27510' => 'ath', 'AT4G14890' => 'ath', 'AT5G10000' => 'ath', 'ATR0665G624' => 'atr', 'ATR0697G138' => 'atr', 'ATR0776G046' => 'atr', 'ATR1134G135' => 'atr', 'Atru.chr12.1025' => 'acertr', 'Atru.chr3.3241' => 'acertr', 'Atru.chr4.2460' => 'acertr', 'AUR62007427' => 'cqu', 'AUR62010960' => 'cqu', 'AUR62012201' => 'cqu', 'AUR62021470' => 'cqu', 'AUR62022834' => 'cqu', 'AUR62033635' => 'cqu', 'AUR62036186' => 'cqu', 'BcaB01g03077' => 'bca', 'BcaB02g10093' => 'bca', 'BcaB04g20295' => 'bca', 'BcaB06g28147' => 'bca', 'BcaB07g31253' => 'bca', 'BcaC01g04946' => 'bca', 'BcaC02g10614' => 'bca', 'BcaC02g10885' => 'bca', 'BcaC04g19356' => 'bca', 'BcaC04g22297' => 'bca', 'BcaC05g24977' => 'bca', 'BcaC06g31823' => 'bca', 'BcaC07g38633' => 'bca', 'BcaC09g49353' => 'bca', 'BcaC09g50168' => 'bca', 'BcaNung00322' => 'bca', 'BcaNung04769' => 'bca', 'BolC1t02753H' => 'bol', 'BolC1t03721H' => 'bol', 'BolC3t15525H' => 'bol', 'BolC4t23903H' => 'bol', 'BolC4t24231H' => 'bol', 'BolC4t27209H' => 'bol', 'BolC5t29671H' => 'bol', 'BolC8t49044H' => 'bol', 'BolC9t54999H' => 'bol', 'BolC9t59517H' => 'bol', 'BraA01t02178Z' => 'bra', 'BraA01t03099Z' => 'bra', 'BraA03t11867Z' => 'bra', 'BraA04t17667Z' => 'bra', 'BraA07t29542Z' => 'bra', 'BraA08t35287Z' => 'bra', 'BraA09t37334Z' => 'bra', 'BraA10t44801Z' => 'bra', 'BraSC39t46181Z' => 'bra', 'C01p28240' => 'bna', 'C01p37530' => 'bna', 'C03p31820' => 'bna', 'C04p24080' => 'bna', 'C04p25790' => 'bna', 'C04p56770' => 'bna', 'C05p09310' => 'bna', 'C09p21010' => 'bna', 'C09p67560' => 'bna', 'CAN.G1324.7' => 'can', 'CAN.G1358.10' => 'can', 'CAN.G1550.2' => 'can', 'CAN.G186.56' => 'can', 'CAN.G1965.1' => 'can', 'CAN.G645.15' => 'can', 'CAN.G798.26' => 'can', 'CAN.G798.27' => 'can', 'CAN.G798.29' => 'can', 'CAN.G919.31' => 'can', 'CANSAT11G0133' => 'cansat', 'CANSAT11G1171' => 'cansat', 'CANSAT11G2056' => 'cansat', 'CANSAT56G1202' => 'cansat', 'CANSAT56G1514' => 'cansat', 'CANSAT78G0455' => 'cansat', 'CARHR011190' => 'chi', 'CARHR051980' => 'chi', 'CARHR120170' => 'chi', 'CARHR203310' => 'chi', 'CARHR221490' => 'chi', 'Carub.0001s1054' => 'cru', 'Carub.0002s0431' => 'cru', 'Carub.0004s0818' => 'cru', 'Carub.0006s0846' => 'cru', 'Carub.0007s2722' => 'cru', 'Ca_00058_v3' => 'car', 'Ca_17831_v3' => 'car', 'Ca_19408_v3' => 'car', 'Ca_24397_v3' => 'car', 'Ca_25664_v3' => 'car', 'CBR_g21818' => 'cbr', 'CBR_g31195' => 'cbr', 'CBR_g32282' => 'cbr', 'CBR_g39599' => 'cbr', 'CBR_g49410' => 'cbr', 'Cc01_g09120' => 'ccan', 'Cc01_g09130' => 'ccan', 'Cc02_g09630' => 'ccan', 'Cc02_g22810' => 'ccan', 'Cc03_g03810' => 'ccan', 'CDE02G3718' => 'cde', 'CDE04G3183' => 'cde', 'CDE07G1046' => 'cde', 'CDE08G0480' => 'cde', 'Cfa005493' => 'cfa', 'Cfa010312' => 'cfa', 'Cfa015648' => 'cfa', 'Ciclev10002793m.g' => 'ccl', 'Ciclev10003356m.g' => 'ccl', 'Ciclev10006141m.g' => 'ccl', 'Ciclev10016676m.g' => 'ccl', 'Ciclev10017081m.g' => 'ccl', 'Ciclev10029499m.g' => 'ccl', 'CiPaw.01G166300' => 'cil', 'CiPaw.06G145600' => 'cil', 'CiPaw.13G040100' => 'cil', 'CiPaw.13G135800' => 'cil', 'ClCG01G012230' => 'cla', 'ClCG05G009510' => 'cla', 'ClCG08G008270' => 'cla', 'COL.COLO4_11763' => 'col', 'COL.COLO4_19876' => 'col', 'COL.COLO4_21481' => 'col', 'Cpa.g.sc118.34' => 'cpa', 'Cpa.g.sc32.13' => 'cpa', 'Cpa.g.sc58.103' => 'cpa', 'Cre03.g183850' => 'cre', 'Cre06.g306350' => 'cre', 'Cre07.g334800' => 'cre', 'Cre12.g487900' => 'cre', 'Cre14.g626700' => 'cre', 'Cre16.g658400' => 'cre', 'Cre17.g700950' => 'cre', 'CsaV3_1G014830' => 'csa', 'CsaV3_3G013320' => 'csa', 'CsaV3_3G019210' => 'csa', 'CsaV3_3G019220' => 'csa', 'CsaV3_6G004230' => 'csa', 'CSS0003773' => 'camsi', 'CSS0004563' => 'camsi', 'CSS0013949' => 'camsi', 'CSS0025971' => 'camsi', 'CSS0028570' => 'camsi', 'CSS0033127' => 'camsi', 'CSS0036051' => 'camsi', 'CSS0040087' => 'camsi', 'CSS0043179' => 'camsi', 'DCAR_006161' => 'dca', 'DCAR_010351' => 'dca', 'DCAR_012197' => 'dca', 'DCAR_024162' => 'dca', 'Dinv01030' => 'din', 'Dinv10924' => 'din', 'Dinv11835' => 'din', 'Dinv22841' => 'din', 'Dinv42553' => 'din', 'Duzib052G0560' => 'dzi', 'Duzib132G0389' => 'dzi', 'Duzib150G1181' => 'dzi', 'Duzib168G0623' => 'dzi', 'Duzib170G1036' => 'dzi', 'Duzib212G0200' => 'dzi', 'Duzib248G0194' => 'dzi', 'ECA232G2193' => 'eca', 'ECA233G0302' => 'eca', 'ECA234G2813' => 'eca', 'ECA234G4866' => 'eca', 'ECA240G3932' => 'eca', 'ECA248G0385' => 'eca', 'EL10Ac2g04781' => 'bvu', 'EL10Ac3g06445' => 'bvu', 'EL10Ac7g15825' => 'bvu', 'EL10Ac8g18550' => 'bvu', 'Eucgr.B03849' => 'egr', 'Eucgr.I02744' => 'egr', 'Eucgr.J00264' => 'egr', 'Eucgr.J00493' => 'egr', 'FAN04G2181' => 'fan', 'FAN07G2666' => 'fan', 'FAN11G0024' => 'fan', 'FAN12G1105' => 'fan', 'FAN13G0302' => 'fan', 'FAN15G2781' => 'fan', 'FAN16G1274' => 'fan', 'FAN17G2988' => 'fan', 'FAN18G2621' => 'fan', 'FAN21G0013' => 'fan', 'FAN22G1211' => 'fan', 'FAN25G3626' => 'fan', 'FvH4_2g09491' => 'fve', 'FvH4_3g24910' => 'fve', 'FvH4_4g15630' => 'fve', 'FvH4_5g28820' => 'fve', 'Glyma.01G238000' => 'gma', 'Glyma.05G168400' => 'gma', 'Glyma.08G126800' => 'gma', 'Glyma.08G188500' => 'gma', 'Glyma.10G278900' => 'gma', 'Glyma.11G005700' => 'gma', 'Glyma.11G183300' => 'gma', 'Glyma.12G089200' => 'gma', 'Glyma.12G169400' => 'gma', 'Glyma.12G169500' => 'gma', 'Glyma.12G169600' => 'gma', 'Glyma.20G110800' => 'gma', 'Gohir.A03G192900' => 'ghi', 'Gohir.A03G193000' => 'ghi', 'Gohir.A05G080700' => 'ghi', 'Gohir.A09G216000' => 'ghi', 'Gohir.A12G027700' => 'ghi', 'Gohir.A13G036200' => 'ghi', 'Gohir.A13G222600' => 'ghi', 'Gohir.D02G213900' => 'ghi', 'Gohir.D02G214000' => 'ghi', 'Gohir.D05G083700' => 'ghi', 'Gohir.D05G083800' => 'ghi', 'Gohir.D05G083850' => 'ghi', 'Gohir.D08G015400' => 'ghi', 'Gohir.D09G218400' => 'ghi', 'Gohir.D12G027100' => 'ghi', 'Gohir.D13G034500' => 'ghi', 'Gohir.D13G227400' => 'ghi', 'Gorai.005G241800' => 'gra', 'Gorai.005G241900' => 'gra', 'Gorai.006G239400' => 'gra', 'Gorai.008G027600' => 'gra', 'Gorai.009G085400' => 'gra', 'Gorai.009G085500' => 'gra', 'Gorai.013G039000' => 'gra', 'Gorai.013G194800' => 'gra', 'Gorai.013G257900' => 'gra', 'GSVIVG01000982001' => 'vvi', 'GSVIVG01017981001' => 'vvi', 'HanXRQChr01g0024061' => 'han', 'HanXRQChr09g0247831' => 'han', 'HanXRQChr10g0294611' => 'han', 'HanXRQChr10g0294621' => 'han', 'HanXRQChr11g0346821' => 'han', 'HanXRQChr13g0397461' => 'han', 'HanXRQChr16g0513651' => 'han', 'HanXRQChr16g0513701' => 'han', 'Haze_00897' => 'cav', 'Haze_01745' => 'cav', 'Haze_02486' => 'cav', 'Haze_02487' => 'cav', 'Haze_23374' => 'cav', 'Hma1.2p1_0578F.1_g182520' => 'hma', 'Hma1.2p1_0602F.1_g187350' => 'hma', 'Hma1.2p1_0602F.1_g187360' => 'hma', 'Hma1.2p1_0874F.1_g231320' => 'hma', 'Hma1.2p1_1197F.1_g266210' => 'hma', 'Hma1.2p1_1197F.1_g266220' => 'hma', 'Hma1.2p1_2167F.1_g315895' => 'hma', 'Hma1.2p1_2190F.1_g316640' => 'hma', 'Hma1.2p1_3645F.1_g337153' => 'hma', 'HPP92_004907' => 'vpl', 'HPP92_012134' => 'vpl', 'HPP92_025136' => 'vpl', 'HPP92_026087' => 'vpl', 'Hund06782' => 'sun', 'Hund06784' => 'sun', 'Lalb_Chr01g0004861' => 'lal', 'Lalb_Chr02g0140591' => 'lal', 'Lalb_Chr02g0140611' => 'lal', 'Lalb_Chr03g0028101' => 'lal', 'Lalb_Chr07g0185791' => 'lal', 'Lalb_Chr12g0204491' => 'lal', 'Lalb_Chr13g0295671' => 'lal', 'Lalb_Chr19g0136461' => 'lal', 'Lalb_Chr21g0309191' => 'lal', 'Lj1g0028158' => 'lja', 'Lj1P236T38' => 'lonja', 'Lj2C32G2' => 'lonja', 'Lj2P944T8' => 'lonja', 'Lj2P963T15' => 'lonja', 'Lj3g0011788' => 'lja', 'Lj4g0025027' => 'lja', 'Lj5P255T36' => 'lonja', 'Lj6g0018866' => 'lja', 'Lj6P608T31' => 'lonja', 'LjContig00408g0008879' => 'lja', 'Lsat_1_v5_gn_5_105820' => 'lsa', 'Lsat_1_v5_gn_6_38800' => 'lsa', 'Lsat_1_v5_gn_7_67141' => 'lsa', 'Manes.04G003400' => 'mes', 'Manes.07G020000' => 'mes', 'Manes.07G020100' => 'mes', 'Manes.07G020150' => 'mes', 'Manes.10G061500' => 'mes', 'Manes.10G123200' => 'mes', 'Manes.11G161900' => 'mes', 'Manes.15G029300' => 'mes', 'Mapoly0071s0018' => 'mpo', 'Mapoly0082s0023' => 'mpo', 'Mapoly3477s0001' => 'mpo', 'MBI05_g31233_MAGBIO' => 'mbi', 'MBI09_g05946_MAGBIO' => 'mbi', 'MBI09_g05947_MAGBIO' => 'mbi', 'MBI17_g08346_MAGBIO' => 'mbi', 'MCO04G038' => 'mco', 'MCO09G370' => 'mco', 'MCO13G605' => 'mco', 'MD00G1075500' => 'mdo', 'MD03G1144300' => 'mdo', 'MD08G1236800' => 'mdo', 'MD13G1193300' => 'mdo', 'MD15G1428700' => 'mdo', 'Medtr1g112030' => 'mtr', 'Medtr1g112050' => 'mtr', 'Medtr2g006290' => 'mtr', 'Medtr2g086510' => 'mtr', 'Medtr4g053120' => 'mtr', 'Medtr5g006320' => 'mtr', 'Medtr8g088720' => 'mtr', 'MELO3C004712.2' => 'cme', 'MELO3C006533.2' => 'cme', 'MELO3C019438.2' => 'cme', 'MELO3C019440.2' => 'cme', 'MELO3C019441.2' => 'cme', 'MELO3C019895.2' => 'cme', 'Migut.B00811' => 'egut', 'Migut.D02447' => 'egut', 'Migut.F00875' => 'egut', 'Migut.N00186' => 'egut', 'Migut.N01051' => 'egut', 'Migut.N02491' => 'egut', 'Migut.O00784' => 'egut', 'MSTRG.12367' => 'ama', 'MSTRG.18756' => 'ama', 'MSTRG.21042' => 'ama', 'Nitab4.5_0000559g0040' => 'nta', 'Nitab4.5_0000667g0190' => 'nta', 'Nitab4.5_0000755g0160' => 'nta', 'Nitab4.5_0001216g0080' => 'nta', 'Nitab4.5_0004069g0040' => 'nta', 'Nitab4.5_0004129g0010' => 'nta', 'Nitab4.5_0005744g0030' => 'nta', 'Nitab4.5_0006996g0030' => 'nta', 'Nitab4.5_0008971g0040' => 'nta', 'Nitab4.5_0009769g0020' => 'nta', 'Nitab4.5_0009833g0010' => 'nta', 'Nitab4.5_0013140g0020' => 'nta', 'Nn003s41376' => 'nnu', 'Nn1g01857' => 'nnu', 'Nn1g03611' => 'nnu', 'Nn1g06853' => 'nnu', 'Nn3g18360' => 'nnu', 'Nn4g26328' => 'nnu', 'Nn5g27531' => 'nnu', 'Nn6g34899' => 'nnu', 'Nn7g36299' => 'nnu', 'Oeu021485.1' => 'oeu', 'Oeu022433.1' => 'oeu', 'Oeu032111.1' => 'oeu', 'Oeu051608.1' => 'oeu', 'Os01g0860601' => 'osa', 'Os03g0659200' => 'osa', 'Os03g0835900' => 'osa', 'Os04g0412200' => 'osa', 'Os05g0443500' => 'osa', 'Os07g0251500' => 'osa', 'Os08g0104600' => 'osa', 'Peaxi162Scf00003g00047' => 'pax', 'Peaxi162Scf00003g00052' => 'pax', 'Peaxi162Scf00003g00394' => 'pax', 'Peaxi162Scf00091g00621' => 'pax', 'Peaxi162Scf00152g00146' => 'pax', 'Peaxi162Scf00173g00025' => 'pax', 'Peaxi162Scf00195g00102' => 'pax', 'Peaxi162Scf00402g00013' => 'pax', 'Peaxi162Scf00519g00618' => 'pax', 'PGR004G2838' => 'pgr', 'PGR044G2275' => 'pgr', 'PGR102G1377' => 'pgr', 'PGR119G1245' => 'pgr', 'PGR142G4449' => 'pgr', 'PGSC0003DMG400004532' => 'stu', 'PGSC0003DMG400011950' => 'stu', 'PGSC0003DMG400023391' => 'stu', 'PGSC0003DMG400023985' => 'stu', 'PGSC0003DMG400026360' => 'stu', 'PGSC0003DMG400035711' => 'stu', 'PGSC0003DMG400037286' => 'stu', 'PGSC0003DMG402005881' => 'stu', 'Phvul.002G045400' => 'pvu', 'Phvul.006G216600' => 'pvu', 'Phvul.006G216700' => 'pvu', 'Phvul.006G216800' => 'pvu', 'Phvul.007G022500' => 'pvu', 'Phvul.011G094400' => 'pvu', 'Potri.001G470700' => 'ptr', 'Potri.003G015200' => 'ptr', 'Potri.004G202500' => 'ptr', 'Potri.004G218400' => 'ptr', 'Potri.008G020100' => 'ptr', 'Potri.008G153200' => 'ptr', 'Potri.009G163800' => 'ptr', 'Potri.010G087300' => 'ptr', 'Potri.010G239100' => 'ptr', 'Pp3c10_16100' => 'ppa', 'Pp3c10_16880' => 'ppa', 'Pp3c16_6230' => 'ppa', 'Pp3c17_18910' => 'ppa', 'Pp3c3_22119' => 'ppa', 'Pp3c3_22140' => 'ppa', 'Pp3c4_8159' => 'ppa', 'Pp3c4_8171' => 'ppa', 'Pp3c4_8330' => 'ppa', 'PRCOL_00004098' => 'pco', 'Prupe.1G013900' => 'ppe', 'Prupe.1G226300' => 'ppe', 'Prupe.1G573600' => 'ppe', 'Prupe.6G130100' => 'ppe', 'Psat3g090040' => 'psa', 'Psat4g210440' => 'psa', 'Psat6g231040' => 'psa', 'Psat6g231080' => 'psa', 'Psat7g063000' => 'psa', 'Psat7g188000' => 'psa', 'Psat7g188040' => 'psa', 'PSO017G0206' => 'pso', 'PSO170G0501' => 'pso', 'PSO170G6422' => 'pso', 'PSO210G7739' => 'pso', 'PSO339G1808' => 'pso', 'PSO339G6135' => 'pso', 'PSO384G0010' => 'pso', 'PSO384G0964' => 'pso', 'PSO761G0050' => 'pso', 'PSO782G4085' => 'pso', 'QL01p012264' => 'qlo', 'QL02p099491' => 'qlo', 'QL03p033868' => 'qlo', 'QL04p046678' => 'qlo', 'QL06p002448' => 'qlo', 'RcHm_v2.0_Chr4g0416181' => 'rch', 'RcHm_v2.0_Chr5g0044701' => 'rch', 'RcHm_v2.0_Chr6g0265781' => 'rch', 'RcHm_v2.0_Chr7g0221031' => 'rch', 'Rhsim04G0202000' => 'rsi', 'Rhsim11G0127300' => 'rsi', 'Rhsim13G0111800' => 'rsi', 'Sabra01G0165600' => 'sbr', 'Sabra03G0008300' => 'sbr', 'Sabra04G0136900' => 'sbr', 'Sabra08G0013400' => 'sbr', 'Sabra08G0116800' => 'sbr', 'Sabra09G0128000' => 'sbr', 'Sabra10G0055500' => 'sbr', 'Sabra10G0073300' => 'sbr', 'SalBow3G0385' => 'sbo', 'SalBow3G1119' => 'sbo', 'SalBow3G2005' => 'sbo', 'SalBow6G2563' => 'sbo', 'SalBow6G6386' => 'sbo', 'Sc06g0008800' => 'sci', 'Sc07g0004950' => 'sci', 'Sc09g0005340' => 'sci', 'Sc13g0004410' => 'sci', 'Sc21g0007090' => 'sci', 'Sed0009285' => 'sed', 'Sed0017583' => 'sed', 'Sed0019699' => 'sed', 'Sed0023107' => 'sed', 'SEGI_10916' => 'sgi', 'SEGI_16217' => 'sgi', 'SEGI_19466' => 'sgi', 'SEGI_41115' => 'sgi', 'SGA_v2.0_scaffold111G31534' => 'sas', 'SGA_v2.0_scaffold22G09864' => 'sas', 'SGA_v2.0_scaffold338G49219' => 'sas', 'SGA_v2.0_scaffold92G28298' => 'sas', 'SMO119G0064' => 'smo', 'SMO223G0038' => 'smo', 'SMO347G0584' => 'smo', 'SMO351G0010' => 'smo', 'SMO356G0404' => 'smo', 'Solyc01g103920.3' => 'sly', 'Solyc04g009710.2' => 'sly', 'Solyc05g055280.2' => 'sly', 'Solyc10g044520.3' => 'sly', 'Solyc10g075160.1' => 'sly', 'Solyc11g006910.3' => 'sly', 'Solyc11g068430.3' => 'sly', 'Sopen01g046310' => 'spe', 'Sopen03g001200' => 'spe', 'Sopen04g004830' => 'spe', 'Sopen05g033720' => 'spe', 'Sopen06g030740' => 'spe', 'Sopen10g013090' => 'spe', 'Sopen10g027630' => 'spe', 'Sopen10g027640' => 'spe', 'Sopen11g002820' => 'spe', 'Sopen11g027140' => 'spe', 'Sp1g09680' => 'spa', 'Sp2g03630' => 'spa', 'Sp4g10320' => 'spa', 'Sp6g33400' => 'spa', 'Sp7g13030' => 'spa', 'TAR365G0317' => 'tar', 'TAR376G0979' => 'tar', 'TAR623G1665' => 'tar', 'TAR633G2373' => 'tar', 'TAR636G1400' => 'tar', 'THA.LOC104800529' => 'tha', 'THA.LOC104808547' => 'tha', 'THA.LOC104809615' => 'tha', 'THA.LOC104815724' => 'tha', 'THA.LOC104818480' => 'tha', 'THA.LOC104819179' => 'tha', 'THA.LOC104822270' => 'tha', 'THA.LOC104826425' => 'tha', 'Thecc.02G089700' => 'tca', 'Thecc.04G232300' => 'tca', 'Thecc.09G283400' => 'tca', 'Thhalv10009020m.g' => 'esa', 'Thhalv10015506m.g' => 'esa', 'Thhalv10017364m.g' => 'esa', 'Thhalv10023742m.g' => 'esa', 'Thhalv10026483m.g' => 'esa', 'TPR.G17232' => 'tpr', 'TPR.G2133' => 'tpr', 'TPR.G2498' => 'tpr', 'TPR.G31942' => 'tpr', 'TPR.G37877' => 'tpr', 'TPR.G4571' => 'tpr', 'TWI14G1113' => 'twi', 'TWI15G0426' => 'twi', 'TWI31G1005' => 'twi', 'TWI38G0513' => 'twi', 'TWI38G1484' => 'twi', 'TWI73G1098' => 'twi', 'unitig_26.g10519' => 'ugi', 'unitig_736.g22395' => 'ugi', 'unitig_747.g21234' => 'ugi', 'unitig_747.g21942' => 'ugi', 'vmacro14351' => 'vma', 'VMungo0540G0082' => 'vmu', 'VMungo0540G0405' => 'vmu', 'VMungo0540G1486' => 'vmu', 'VMungo0540G1692' => 'vmu', 'VMungo0720G2473' => 'vmu', 'VMungo1127G1562' => 'vmu', 'VMungo1215G1918' => 'vmu', 'Zm00001eb052650' => 'zma', 'Zm00001eb063710' => 'zma', 'Zm00001eb083950' => 'zma', 'Zm00001eb174420' => 'zma', 'Zm00001eb260140' => 'zma', 'Zm00001eb260150' => 'zma', 'Zm00001eb260160' => 'zma', 'Zm00001eb348290' => 'zma', 'Zm00001eb366870' => 'zma', 'Zm00001eb421930' => 'zma' ), 'gf_id' => 'HOM05D001025', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001025' ), 'data_identifier' => 'HOM05D001025', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001025', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '592', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p22650' => 'bna', 'A01p29720' => 'bna', 'A03p26560' => 'bna', 'A03p68820' => 'bna', 'A04p20980' => 'bna', 'A06p07730' => 'bna', 'A07p18260' => 'bna', 'A08p33710' => 'bna', 'A09p16970' => 'bna', 'A10p27490' => 'bna', 'Aa31LG1G17300' => 'aar', 'Aa31LG1G3910' => 'aar', 'Aa31LG2G9630' => 'aar', 'Aa31LG5G8360' => 'aar', 'Aa31LG9G2410' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4699' => 'aag', 'Actinidia23512' => 'ach', 'Actinidia37080' => 'ach', 'Ah.01g020380' => 'amhyb', 'Ah.08g215710' => 'amhyb', 'Ah.09g225110' => 'amhyb', 'Ah.10g036680' => 'amhyb', 'AL1G21940' => 'aly', 'AL2G15540' => 'aly', 'AL4G21520' => 'aly', 'AL7G40960' => 'aly', 'Aqoxy2G01191' => 'aox', 'Aqoxy2G03393' => 'aox', 'Aqoxy4G02775' => 'aox', 'Aqoxy6G00058' => 'aox', 'arahy.Tifrunner.gnm1.ann1.9X74H2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CW3FX9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R485W7' => 'arhy', 'AT1G10960' => 'ath', 'AT1G60950' => 'ath', 'AT2G27510' => 'ath', 'AT4G14890' => 'ath', 'AT5G10000' => 'ath', 'ATR0665G624' => 'atr', 'ATR0697G138' => 'atr', 'ATR0776G046' => 'atr', 'ATR1134G135' => 'atr', 'Atru.chr12.1025' => 'acertr', 'Atru.chr3.3241' => 'acertr', 'Atru.chr4.2460' => 'acertr', 'AUR62007427' => 'cqu', 'AUR62010960' => 'cqu', 'AUR62012201' => 'cqu', 'AUR62021470' => 'cqu', 'AUR62022834' => 'cqu', 'AUR62033635' => 'cqu', 'AUR62036186' => 'cqu', 'BcaB01g03077' => 'bca', 'BcaB02g10093' => 'bca', 'BcaB04g20295' => 'bca', 'BcaB06g28147' => 'bca', 'BcaB07g31253' => 'bca', 'BcaC01g04946' => 'bca', 'BcaC02g10614' => 'bca', 'BcaC02g10885' => 'bca', 'BcaC04g19356' => 'bca', 'BcaC04g22297' => 'bca', 'BcaC05g24977' => 'bca', 'BcaC06g31823' => 'bca', 'BcaC07g38633' => 'bca', 'BcaC09g49353' => 'bca', 'BcaC09g50168' => 'bca', 'BcaNung00322' => 'bca', 'BcaNung04769' => 'bca', 'BolC1t02753H' => 'bol', 'BolC1t03721H' => 'bol', 'BolC3t15525H' => 'bol', 'BolC4t23903H' => 'bol', 'BolC4t24231H' => 'bol', 'BolC4t27209H' => 'bol', 'BolC5t29671H' => 'bol', 'BolC8t49044H' => 'bol', 'BolC9t54999H' => 'bol', 'BolC9t59517H' => 'bol', 'BraA01t02178Z' => 'bra', 'BraA01t03099Z' => 'bra', 'BraA03t11867Z' => 'bra', 'BraA04t17667Z' => 'bra', 'BraA07t29542Z' => 'bra', 'BraA08t35287Z' => 'bra', 'BraA09t37334Z' => 'bra', 'BraA10t44801Z' => 'bra', 'BraSC39t46181Z' => 'bra', 'C01p28240' => 'bna', 'C01p37530' => 'bna', 'C03p31820' => 'bna', 'C04p24080' => 'bna', 'C04p25790' => 'bna', 'C04p56770' => 'bna', 'C05p09310' => 'bna', 'C09p21010' => 'bna', 'C09p67560' => 'bna', 'CAN.G1324.7' => 'can', 'CAN.G1358.10' => 'can', 'CAN.G1550.2' => 'can', 'CAN.G186.56' => 'can', 'CAN.G1965.1' => 'can', 'CAN.G645.15' => 'can', 'CAN.G798.26' => 'can', 'CAN.G798.27' => 'can', 'CAN.G798.29' => 'can', 'CAN.G919.31' => 'can', 'CANSAT11G0133' => 'cansat', 'CANSAT11G1171' => 'cansat', 'CANSAT11G2056' => 'cansat', 'CANSAT56G1202' => 'cansat', 'CANSAT56G1514' => 'cansat', 'CANSAT78G0455' => 'cansat', 'CARHR011190' => 'chi', 'CARHR051980' => 'chi', 'CARHR120170' => 'chi', 'CARHR203310' => 'chi', 'CARHR221490' => 'chi', 'Carub.0001s1054' => 'cru', 'Carub.0002s0431' => 'cru', 'Carub.0004s0818' => 'cru', 'Carub.0006s0846' => 'cru', 'Carub.0007s2722' => 'cru', 'Ca_00058_v3' => 'car', 'Ca_17831_v3' => 'car', 'Ca_19408_v3' => 'car', 'Ca_24397_v3' => 'car', 'Ca_25664_v3' => 'car', 'CBR_g21818' => 'cbr', 'CBR_g31195' => 'cbr', 'CBR_g32282' => 'cbr', 'CBR_g39599' => 'cbr', 'CBR_g49410' => 'cbr', 'Cc01_g09120' => 'ccan', 'Cc01_g09130' => 'ccan', 'Cc02_g09630' => 'ccan', 'Cc02_g22810' => 'ccan', 'Cc03_g03810' => 'ccan', 'CDE02G3718' => 'cde', 'CDE04G3183' => 'cde', 'CDE07G1046' => 'cde', 'CDE08G0480' => 'cde', 'Cfa005493' => 'cfa', 'Cfa010312' => 'cfa', 'Cfa015648' => 'cfa', 'Ciclev10002793m.g' => 'ccl', 'Ciclev10003356m.g' => 'ccl', 'Ciclev10006141m.g' => 'ccl', 'Ciclev10016676m.g' => 'ccl', 'Ciclev10017081m.g' => 'ccl', 'Ciclev10029499m.g' => 'ccl', 'CiPaw.01G166300' => 'cil', 'CiPaw.06G145600' => 'cil', 'CiPaw.13G040100' => 'cil', 'CiPaw.13G135800' => 'cil', 'ClCG01G012230' => 'cla', 'ClCG05G009510' => 'cla', 'ClCG08G008270' => 'cla', 'COL.COLO4_11763' => 'col', 'COL.COLO4_19876' => 'col', 'COL.COLO4_21481' => 'col', 'Cpa.g.sc118.34' => 'cpa', 'Cpa.g.sc32.13' => 'cpa', 'Cpa.g.sc58.103' => 'cpa', 'Cre03.g183850' => 'cre', 'Cre06.g306350' => 'cre', 'Cre07.g334800' => 'cre', 'Cre12.g487900' => 'cre', 'Cre14.g626700' => 'cre', 'Cre16.g658400' => 'cre', 'Cre17.g700950' => 'cre', 'CsaV3_1G014830' => 'csa', 'CsaV3_3G013320' => 'csa', 'CsaV3_3G019210' => 'csa', 'CsaV3_3G019220' => 'csa', 'CsaV3_6G004230' => 'csa', 'CSS0003773' => 'camsi', 'CSS0004563' => 'camsi', 'CSS0013949' => 'camsi', 'CSS0025971' => 'camsi', 'CSS0028570' => 'camsi', 'CSS0033127' => 'camsi', 'CSS0036051' => 'camsi', 'CSS0040087' => 'camsi', 'CSS0043179' => 'camsi', 'DCAR_006161' => 'dca', 'DCAR_010351' => 'dca', 'DCAR_012197' => 'dca', 'DCAR_024162' => 'dca', 'Dinv01030' => 'din', 'Dinv10924' => 'din', 'Dinv11835' => 'din', 'Dinv22841' => 'din', 'Dinv42553' => 'din', 'Duzib052G0560' => 'dzi', 'Duzib132G0389' => 'dzi', 'Duzib150G1181' => 'dzi', 'Duzib168G0623' => 'dzi', 'Duzib170G1036' => 'dzi', 'Duzib212G0200' => 'dzi', 'Duzib248G0194' => 'dzi', 'ECA232G2193' => 'eca', 'ECA233G0302' => 'eca', 'ECA234G2813' => 'eca', 'ECA234G4866' => 'eca', 'ECA240G3932' => 'eca', 'ECA248G0385' => 'eca', 'EL10Ac2g04781' => 'bvu', 'EL10Ac3g06445' => 'bvu', 'EL10Ac7g15825' => 'bvu', 'EL10Ac8g18550' => 'bvu', 'Eucgr.B03849' => 'egr', 'Eucgr.I02744' => 'egr', 'Eucgr.J00264' => 'egr', 'Eucgr.J00493' => 'egr', 'FAN04G2181' => 'fan', 'FAN07G2666' => 'fan', 'FAN11G0024' => 'fan', 'FAN12G1105' => 'fan', 'FAN13G0302' => 'fan', 'FAN15G2781' => 'fan', 'FAN16G1274' => 'fan', 'FAN17G2988' => 'fan', 'FAN18G2621' => 'fan', 'FAN21G0013' => 'fan', 'FAN22G1211' => 'fan', 'FAN25G3626' => 'fan', 'FvH4_2g09491' => 'fve', 'FvH4_3g24910' => 'fve', 'FvH4_4g15630' => 'fve', 'FvH4_5g28820' => 'fve', 'Glyma.01G238000' => 'gma', 'Glyma.05G168400' => 'gma', 'Glyma.08G126800' => 'gma', 'Glyma.08G188500' => 'gma', 'Glyma.10G278900' => 'gma', 'Glyma.11G005700' => 'gma', 'Glyma.11G183300' => 'gma', 'Glyma.12G089200' => 'gma', 'Glyma.12G169400' => 'gma', 'Glyma.12G169500' => 'gma', 'Glyma.12G169600' => 'gma', 'Glyma.20G110800' => 'gma', 'Gohir.A03G192900' => 'ghi', 'Gohir.A03G193000' => 'ghi', 'Gohir.A05G080700' => 'ghi', 'Gohir.A09G216000' => 'ghi', 'Gohir.A12G027700' => 'ghi', 'Gohir.A13G036200' => 'ghi', 'Gohir.A13G222600' => 'ghi', 'Gohir.D02G213900' => 'ghi', 'Gohir.D02G214000' => 'ghi', 'Gohir.D05G083700' => 'ghi', 'Gohir.D05G083800' => 'ghi', 'Gohir.D05G083850' => 'ghi', 'Gohir.D08G015400' => 'ghi', 'Gohir.D09G218400' => 'ghi', 'Gohir.D12G027100' => 'ghi', 'Gohir.D13G034500' => 'ghi', 'Gohir.D13G227400' => 'ghi', 'Gorai.005G241800' => 'gra', 'Gorai.005G241900' => 'gra', 'Gorai.006G239400' => 'gra', 'Gorai.008G027600' => 'gra', 'Gorai.009G085400' => 'gra', 'Gorai.009G085500' => 'gra', 'Gorai.013G039000' => 'gra', 'Gorai.013G194800' => 'gra', 'Gorai.013G257900' => 'gra', 'GSVIVG01000982001' => 'vvi', 'GSVIVG01017981001' => 'vvi', 'HanXRQChr01g0024061' => 'han', 'HanXRQChr09g0247831' => 'han', 'HanXRQChr10g0294611' => 'han', 'HanXRQChr10g0294621' => 'han', 'HanXRQChr11g0346821' => 'han', 'HanXRQChr13g0397461' => 'han', 'HanXRQChr16g0513651' => 'han', 'HanXRQChr16g0513701' => 'han', 'Haze_00897' => 'cav', 'Haze_01745' => 'cav', 'Haze_02486' => 'cav', 'Haze_02487' => 'cav', 'Haze_23374' => 'cav', 'Hma1.2p1_0578F.1_g182520' => 'hma', 'Hma1.2p1_0602F.1_g187350' => 'hma', 'Hma1.2p1_0602F.1_g187360' => 'hma', 'Hma1.2p1_0874F.1_g231320' => 'hma', 'Hma1.2p1_1197F.1_g266210' => 'hma', 'Hma1.2p1_1197F.1_g266220' => 'hma', 'Hma1.2p1_2167F.1_g315895' => 'hma', 'Hma1.2p1_2190F.1_g316640' => 'hma', 'Hma1.2p1_3645F.1_g337153' => 'hma', 'HPP92_004907' => 'vpl', 'HPP92_012134' => 'vpl', 'HPP92_025136' => 'vpl', 'HPP92_026087' => 'vpl', 'Hund06782' => 'sun', 'Hund06784' => 'sun', 'Lalb_Chr01g0004861' => 'lal', 'Lalb_Chr02g0140591' => 'lal', 'Lalb_Chr02g0140611' => 'lal', 'Lalb_Chr03g0028101' => 'lal', 'Lalb_Chr07g0185791' => 'lal', 'Lalb_Chr12g0204491' => 'lal', 'Lalb_Chr13g0295671' => 'lal', 'Lalb_Chr19g0136461' => 'lal', 'Lalb_Chr21g0309191' => 'lal', 'Lj1g0028158' => 'lja', 'Lj1P236T38' => 'lonja', 'Lj2C32G2' => 'lonja', 'Lj2P944T8' => 'lonja', 'Lj2P963T15' => 'lonja', 'Lj3g0011788' => 'lja', 'Lj4g0025027' => 'lja', 'Lj5P255T36' => 'lonja', 'Lj6g0018866' => 'lja', 'Lj6P608T31' => 'lonja', 'LjContig00408g0008879' => 'lja', 'Lsat_1_v5_gn_5_105820' => 'lsa', 'Lsat_1_v5_gn_6_38800' => 'lsa', 'Lsat_1_v5_gn_7_67141' => 'lsa', 'Manes.04G003400' => 'mes', 'Manes.07G020000' => 'mes', 'Manes.07G020100' => 'mes', 'Manes.07G020150' => 'mes', 'Manes.10G061500' => 'mes', 'Manes.10G123200' => 'mes', 'Manes.11G161900' => 'mes', 'Manes.15G029300' => 'mes', 'Mapoly0071s0018' => 'mpo', 'Mapoly0082s0023' => 'mpo', 'Mapoly3477s0001' => 'mpo', 'MBI05_g31233_MAGBIO' => 'mbi', 'MBI09_g05946_MAGBIO' => 'mbi', 'MBI09_g05947_MAGBIO' => 'mbi', 'MBI17_g08346_MAGBIO' => 'mbi', 'MCO04G038' => 'mco', 'MCO09G370' => 'mco', 'MCO13G605' => 'mco', 'MD00G1075500' => 'mdo', 'MD03G1144300' => 'mdo', 'MD08G1236800' => 'mdo', 'MD13G1193300' => 'mdo', 'MD15G1428700' => 'mdo', 'Medtr1g112030' => 'mtr', 'Medtr1g112050' => 'mtr', 'Medtr2g006290' => 'mtr', 'Medtr2g086510' => 'mtr', 'Medtr4g053120' => 'mtr', 'Medtr5g006320' => 'mtr', 'Medtr8g088720' => 'mtr', 'MELO3C004712.2' => 'cme', 'MELO3C006533.2' => 'cme', 'MELO3C019438.2' => 'cme', 'MELO3C019440.2' => 'cme', 'MELO3C019441.2' => 'cme', 'MELO3C019895.2' => 'cme', 'Migut.B00811' => 'egut', 'Migut.D02447' => 'egut', 'Migut.F00875' => 'egut', 'Migut.N00186' => 'egut', 'Migut.N01051' => 'egut', 'Migut.N02491' => 'egut', 'Migut.O00784' => 'egut', 'MSTRG.12367' => 'ama', 'MSTRG.18756' => 'ama', 'MSTRG.21042' => 'ama', 'Nitab4.5_0000559g0040' => 'nta', 'Nitab4.5_0000667g0190' => 'nta', 'Nitab4.5_0000755g0160' => 'nta', 'Nitab4.5_0001216g0080' => 'nta', 'Nitab4.5_0004069g0040' => 'nta', 'Nitab4.5_0004129g0010' => 'nta', 'Nitab4.5_0005744g0030' => 'nta', 'Nitab4.5_0006996g0030' => 'nta', 'Nitab4.5_0008971g0040' => 'nta', 'Nitab4.5_0009769g0020' => 'nta', 'Nitab4.5_0009833g0010' => 'nta', 'Nitab4.5_0013140g0020' => 'nta', 'Nn003s41376' => 'nnu', 'Nn1g01857' => 'nnu', 'Nn1g03611' => 'nnu', 'Nn1g06853' => 'nnu', 'Nn3g18360' => 'nnu', 'Nn4g26328' => 'nnu', 'Nn5g27531' => 'nnu', 'Nn6g34899' => 'nnu', 'Nn7g36299' => 'nnu', 'Oeu021485.1' => 'oeu', 'Oeu022433.1' => 'oeu', 'Oeu032111.1' => 'oeu', 'Oeu051608.1' => 'oeu', 'Os01g0860601' => 'osa', 'Os03g0659200' => 'osa', 'Os03g0835900' => 'osa', 'Os04g0412200' => 'osa', 'Os05g0443500' => 'osa', 'Os07g0251500' => 'osa', 'Os08g0104600' => 'osa', 'Peaxi162Scf00003g00047' => 'pax', 'Peaxi162Scf00003g00052' => 'pax', 'Peaxi162Scf00003g00394' => 'pax', 'Peaxi162Scf00091g00621' => 'pax', 'Peaxi162Scf00152g00146' => 'pax', 'Peaxi162Scf00173g00025' => 'pax', 'Peaxi162Scf00195g00102' => 'pax', 'Peaxi162Scf00402g00013' => 'pax', 'Peaxi162Scf00519g00618' => 'pax', 'PGR004G2838' => 'pgr', 'PGR044G2275' => 'pgr', 'PGR102G1377' => 'pgr', 'PGR119G1245' => 'pgr', 'PGR142G4449' => 'pgr', 'PGSC0003DMG400004532' => 'stu', 'PGSC0003DMG400011950' => 'stu', 'PGSC0003DMG400023391' => 'stu', 'PGSC0003DMG400023985' => 'stu', 'PGSC0003DMG400026360' => 'stu', 'PGSC0003DMG400035711' => 'stu', 'PGSC0003DMG400037286' => 'stu', 'PGSC0003DMG402005881' => 'stu', 'Phvul.002G045400' => 'pvu', 'Phvul.006G216600' => 'pvu', 'Phvul.006G216700' => 'pvu', 'Phvul.006G216800' => 'pvu', 'Phvul.007G022500' => 'pvu', 'Phvul.011G094400' => 'pvu', 'Potri.001G470700' => 'ptr', 'Potri.003G015200' => 'ptr', 'Potri.004G202500' => 'ptr', 'Potri.004G218400' => 'ptr', 'Potri.008G020100' => 'ptr', 'Potri.008G153200' => 'ptr', 'Potri.009G163800' => 'ptr', 'Potri.010G087300' => 'ptr', 'Potri.010G239100' => 'ptr', 'Pp3c10_16100' => 'ppa', 'Pp3c10_16880' => 'ppa', 'Pp3c16_6230' => 'ppa', 'Pp3c17_18910' => 'ppa', 'Pp3c3_22119' => 'ppa', 'Pp3c3_22140' => 'ppa', 'Pp3c4_8159' => 'ppa', 'Pp3c4_8171' => 'ppa', 'Pp3c4_8330' => 'ppa', 'PRCOL_00004098' => 'pco', 'Prupe.1G013900' => 'ppe', 'Prupe.1G226300' => 'ppe', 'Prupe.1G573600' => 'ppe', 'Prupe.6G130100' => 'ppe', 'Psat3g090040' => 'psa', 'Psat4g210440' => 'psa', 'Psat6g231040' => 'psa', 'Psat6g231080' => 'psa', 'Psat7g063000' => 'psa', 'Psat7g188000' => 'psa', 'Psat7g188040' => 'psa', 'PSO017G0206' => 'pso', 'PSO170G0501' => 'pso', 'PSO170G6422' => 'pso', 'PSO210G7739' => 'pso', 'PSO339G1808' => 'pso', 'PSO339G6135' => 'pso', 'PSO384G0010' => 'pso', 'PSO384G0964' => 'pso', 'PSO761G0050' => 'pso', 'PSO782G4085' => 'pso', 'QL01p012264' => 'qlo', 'QL02p099491' => 'qlo', 'QL03p033868' => 'qlo', 'QL04p046678' => 'qlo', 'QL06p002448' => 'qlo', 'RcHm_v2.0_Chr4g0416181' => 'rch', 'RcHm_v2.0_Chr5g0044701' => 'rch', 'RcHm_v2.0_Chr6g0265781' => 'rch', 'RcHm_v2.0_Chr7g0221031' => 'rch', 'Rhsim04G0202000' => 'rsi', 'Rhsim11G0127300' => 'rsi', 'Rhsim13G0111800' => 'rsi', 'Sabra01G0165600' => 'sbr', 'Sabra03G0008300' => 'sbr', 'Sabra04G0136900' => 'sbr', 'Sabra08G0013400' => 'sbr', 'Sabra08G0116800' => 'sbr', 'Sabra09G0128000' => 'sbr', 'Sabra10G0055500' => 'sbr', 'Sabra10G0073300' => 'sbr', 'SalBow3G0385' => 'sbo', 'SalBow3G1119' => 'sbo', 'SalBow3G2005' => 'sbo', 'SalBow6G2563' => 'sbo', 'SalBow6G6386' => 'sbo', 'Sc06g0008800' => 'sci', 'Sc07g0004950' => 'sci', 'Sc09g0005340' => 'sci', 'Sc13g0004410' => 'sci', 'Sc21g0007090' => 'sci', 'Sed0009285' => 'sed', 'Sed0017583' => 'sed', 'Sed0019699' => 'sed', 'Sed0023107' => 'sed', 'SEGI_10916' => 'sgi', 'SEGI_16217' => 'sgi', 'SEGI_19466' => 'sgi', 'SEGI_41115' => 'sgi', 'SGA_v2.0_scaffold111G31534' => 'sas', 'SGA_v2.0_scaffold22G09864' => 'sas', 'SGA_v2.0_scaffold338G49219' => 'sas', 'SGA_v2.0_scaffold92G28298' => 'sas', 'SMO119G0064' => 'smo', 'SMO223G0038' => 'smo', 'SMO347G0584' => 'smo', 'SMO351G0010' => 'smo', 'SMO356G0404' => 'smo', 'Solyc01g103920.3' => 'sly', 'Solyc04g009710.2' => 'sly', 'Solyc05g055280.2' => 'sly', 'Solyc10g044520.3' => 'sly', 'Solyc10g075160.1' => 'sly', 'Solyc11g006910.3' => 'sly', 'Solyc11g068430.3' => 'sly', 'Sopen01g046310' => 'spe', 'Sopen03g001200' => 'spe', 'Sopen04g004830' => 'spe', 'Sopen05g033720' => 'spe', 'Sopen06g030740' => 'spe', 'Sopen10g013090' => 'spe', 'Sopen10g027630' => 'spe', 'Sopen10g027640' => 'spe', 'Sopen11g002820' => 'spe', 'Sopen11g027140' => 'spe', 'Sp1g09680' => 'spa', 'Sp2g03630' => 'spa', 'Sp4g10320' => 'spa', 'Sp6g33400' => 'spa', 'Sp7g13030' => 'spa', 'TAR365G0317' => 'tar', 'TAR376G0979' => 'tar', 'TAR623G1665' => 'tar', 'TAR633G2373' => 'tar', 'TAR636G1400' => 'tar', 'THA.LOC104800529' => 'tha', 'THA.LOC104808547' => 'tha', 'THA.LOC104809615' => 'tha', 'THA.LOC104815724' => 'tha', 'THA.LOC104818480' => 'tha', 'THA.LOC104819179' => 'tha', 'THA.LOC104822270' => 'tha', 'THA.LOC104826425' => 'tha', 'Thecc.02G089700' => 'tca', 'Thecc.04G232300' => 'tca', 'Thecc.09G283400' => 'tca', 'Thhalv10009020m.g' => 'esa', 'Thhalv10015506m.g' => 'esa', 'Thhalv10017364m.g' => 'esa', 'Thhalv10023742m.g' => 'esa', 'Thhalv10026483m.g' => 'esa', 'TPR.G17232' => 'tpr', 'TPR.G2133' => 'tpr', 'TPR.G2498' => 'tpr', 'TPR.G31942' => 'tpr', 'TPR.G37877' => 'tpr', 'TPR.G4571' => 'tpr', 'TWI14G1113' => 'twi', 'TWI15G0426' => 'twi', 'TWI31G1005' => 'twi', 'TWI38G0513' => 'twi', 'TWI38G1484' => 'twi', 'TWI73G1098' => 'twi', 'unitig_26.g10519' => 'ugi', 'unitig_736.g22395' => 'ugi', 'unitig_747.g21234' => 'ugi', 'unitig_747.g21942' => 'ugi', 'vmacro14351' => 'vma', 'VMungo0540G0082' => 'vmu', 'VMungo0540G0405' => 'vmu', 'VMungo0540G1486' => 'vmu', 'VMungo0540G1692' => 'vmu', 'VMungo0720G2473' => 'vmu', 'VMungo1127G1562' => 'vmu', 'VMungo1215G1918' => 'vmu', 'Zm00001eb052650' => 'zma', 'Zm00001eb063710' => 'zma', 'Zm00001eb083950' => 'zma', 'Zm00001eb174420' => 'zma', 'Zm00001eb260140' => 'zma', 'Zm00001eb260150' => 'zma', 'Zm00001eb260160' => 'zma', 'Zm00001eb348290' => 'zma', 'Zm00001eb366870' => 'zma', 'Zm00001eb421930' => 'zma' ) $gf_id = 'HOM05D001025' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001025' ) $data_identifier = 'HOM05D001025' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 19, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 2, 'amhyb' => (int) 4, 'aly' => (int) 4, 'aox' => (int) 4, 'arhy' => (int) 3, 'ath' => (int) 5, 'atr' => (int) 4, 'acertr' => (int) 3, 'cqu' => (int) 7, 'bca' => (int) 17, 'bol' => (int) 10, 'bra' => (int) 9, 'can' => (int) 10, 'cansat' => (int) 6, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 5, 'cbr' => (int) 5, 'ccan' => (int) 5, 'cde' => (int) 4, 'cfa' => (int) 3, 'ccl' => (int) 6, 'cil' => (int) 4, 'cla' => (int) 3, 'col' => (int) 3, 'cpa' => (int) 3, 'cre' => (int) 7, 'csa' => (int) 5, 'camsi' => (int) 9, 'dca' => (int) 4, 'din' => (int) 5, 'dzi' => (int) 7, 'eca' => (int) 6, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 12, 'fve' => (int) 4, 'gma' => (int) 12, 'ghi' => (int) 17, 'gra' => (int) 9, 'vvi' => (int) 2, 'han' => (int) 8, 'cav' => (int) 5, 'hma' => (int) 9, 'vpl' => (int) 4, 'sun' => (int) 2, 'lal' => (int) 9, 'lja' => (int) 5, 'lonja' => (int) 6, 'lsa' => (int) 3, 'mes' => (int) 8, 'mpo' => (int) 3, 'mbi' => (int) 4, 'mco' => (int) 3, 'mdo' => (int) 5, 'mtr' => (int) 7, 'cme' => (int) 6, 'egut' => (int) 7, 'ama' => (int) 3, 'nta' => (int) 12, 'nnu' => (int) 9, 'oeu' => (int) 4, 'osa' => (int) 7, 'pax' => (int) 9, 'pgr' => (int) 5, 'stu' => (int) 8, 'pvu' => (int) 6, 'ptr' => (int) 9, 'ppa' => (int) 9, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 7, 'pso' => (int) 10, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 3, 'sbr' => (int) 8, 'sbo' => (int) 5, 'sci' => (int) 5, 'sed' => (int) 4, 'sgi' => (int) 4, 'sas' => (int) 4, 'smo' => (int) 5, 'sly' => (int) 7, 'spe' => (int) 10, 'spa' => (int) 5, 'tar' => (int) 5, 'tha' => (int) 8, 'tca' => (int) 3, 'esa' => (int) 5, 'tpr' => (int) 6, 'twi' => (int) 6, 'ugi' => (int) 4, 'vma' => (int) 1, 'vmu' => (int) 7, 'zma' => (int) 10 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb421930' $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' => 'HOM05D001025', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '592', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p22650' => 'bna', 'A01p29720' => 'bna', 'A03p26560' => 'bna', 'A03p68820' => 'bna', 'A04p20980' => 'bna', 'A06p07730' => 'bna', 'A07p18260' => 'bna', 'A08p33710' => 'bna', 'A09p16970' => 'bna', 'A10p27490' => 'bna', 'Aa31LG1G17300' => 'aar', 'Aa31LG1G3910' => 'aar', 'Aa31LG2G9630' => 'aar', 'Aa31LG5G8360' => 'aar', 'Aa31LG9G2410' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4699' => 'aag', 'Actinidia23512' => 'ach', 'Actinidia37080' => 'ach', 'Ah.01g020380' => 'amhyb', 'Ah.08g215710' => 'amhyb', 'Ah.09g225110' => 'amhyb', 'Ah.10g036680' => 'amhyb', 'AL1G21940' => 'aly', 'AL2G15540' => 'aly', 'AL4G21520' => 'aly', 'AL7G40960' => 'aly', 'Aqoxy2G01191' => 'aox', 'Aqoxy2G03393' => 'aox', 'Aqoxy4G02775' => 'aox', 'Aqoxy6G00058' => 'aox', 'arahy.Tifrunner.gnm1.ann1.9X74H2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CW3FX9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R485W7' => 'arhy', 'AT1G10960' => 'ath', 'AT1G60950' => 'ath', 'AT2G27510' => 'ath', 'AT4G14890' => 'ath', 'AT5G10000' => 'ath', 'ATR0665G624' => 'atr', 'ATR0697G138' => 'atr', 'ATR0776G046' => 'atr', 'ATR1134G135' => 'atr', 'Atru.chr12.1025' => 'acertr', 'Atru.chr3.3241' => 'acertr', 'Atru.chr4.2460' => 'acertr', 'AUR62007427' => 'cqu', 'AUR62010960' => 'cqu', 'AUR62012201' => 'cqu', 'AUR62021470' => 'cqu', 'AUR62022834' => 'cqu', 'AUR62033635' => 'cqu', 'AUR62036186' => 'cqu', 'BcaB01g03077' => 'bca', 'BcaB02g10093' => 'bca', 'BcaB04g20295' => 'bca', 'BcaB06g28147' => 'bca', 'BcaB07g31253' => 'bca', 'BcaC01g04946' => 'bca', 'BcaC02g10614' => 'bca', 'BcaC02g10885' => 'bca', 'BcaC04g19356' => 'bca', 'BcaC04g22297' => 'bca', 'BcaC05g24977' => 'bca', 'BcaC06g31823' => 'bca', 'BcaC07g38633' => 'bca', 'BcaC09g49353' => 'bca', 'BcaC09g50168' => 'bca', 'BcaNung00322' => 'bca', 'BcaNung04769' => 'bca', 'BolC1t02753H' => 'bol', 'BolC1t03721H' => 'bol', 'BolC3t15525H' => 'bol', 'BolC4t23903H' => 'bol', 'BolC4t24231H' => 'bol', 'BolC4t27209H' => 'bol', 'BolC5t29671H' => 'bol', 'BolC8t49044H' => 'bol', 'BolC9t54999H' => 'bol', 'BolC9t59517H' => 'bol', 'BraA01t02178Z' => 'bra', 'BraA01t03099Z' => 'bra', 'BraA03t11867Z' => 'bra', 'BraA04t17667Z' => 'bra', 'BraA07t29542Z' => 'bra', 'BraA08t35287Z' => 'bra', 'BraA09t37334Z' => 'bra', 'BraA10t44801Z' => 'bra', 'BraSC39t46181Z' => 'bra', 'C01p28240' => 'bna', 'C01p37530' => 'bna', 'C03p31820' => 'bna', 'C04p24080' => 'bna', 'C04p25790' => 'bna', 'C04p56770' => 'bna', 'C05p09310' => 'bna', 'C09p21010' => 'bna', 'C09p67560' => 'bna', 'CAN.G1324.7' => 'can', 'CAN.G1358.10' => 'can', 'CAN.G1550.2' => 'can', 'CAN.G186.56' => 'can', 'CAN.G1965.1' => 'can', 'CAN.G645.15' => 'can', 'CAN.G798.26' => 'can', 'CAN.G798.27' => 'can', 'CAN.G798.29' => 'can', 'CAN.G919.31' => 'can', 'CANSAT11G0133' => 'cansat', 'CANSAT11G1171' => 'cansat', 'CANSAT11G2056' => 'cansat', 'CANSAT56G1202' => 'cansat', 'CANSAT56G1514' => 'cansat', 'CANSAT78G0455' => 'cansat', 'CARHR011190' => 'chi', 'CARHR051980' => 'chi', 'CARHR120170' => 'chi', 'CARHR203310' => 'chi', 'CARHR221490' => 'chi', 'Carub.0001s1054' => 'cru', 'Carub.0002s0431' => 'cru', 'Carub.0004s0818' => 'cru', 'Carub.0006s0846' => 'cru', 'Carub.0007s2722' => 'cru', 'Ca_00058_v3' => 'car', 'Ca_17831_v3' => 'car', 'Ca_19408_v3' => 'car', 'Ca_24397_v3' => 'car', 'Ca_25664_v3' => 'car', 'CBR_g21818' => 'cbr', 'CBR_g31195' => 'cbr', 'CBR_g32282' => 'cbr', 'CBR_g39599' => 'cbr', 'CBR_g49410' => 'cbr', 'Cc01_g09120' => 'ccan', 'Cc01_g09130' => 'ccan', 'Cc02_g09630' => 'ccan', 'Cc02_g22810' => 'ccan', 'Cc03_g03810' => 'ccan', 'CDE02G3718' => 'cde', 'CDE04G3183' => 'cde', 'CDE07G1046' => 'cde', 'CDE08G0480' => 'cde', 'Cfa005493' => 'cfa', 'Cfa010312' => 'cfa', 'Cfa015648' => 'cfa', 'Ciclev10002793m.g' => 'ccl', 'Ciclev10003356m.g' => 'ccl', 'Ciclev10006141m.g' => 'ccl', 'Ciclev10016676m.g' => 'ccl', 'Ciclev10017081m.g' => 'ccl', 'Ciclev10029499m.g' => 'ccl', 'CiPaw.01G166300' => 'cil', 'CiPaw.06G145600' => 'cil', 'CiPaw.13G040100' => 'cil', 'CiPaw.13G135800' => 'cil', 'ClCG01G012230' => 'cla', 'ClCG05G009510' => 'cla', 'ClCG08G008270' => 'cla', 'COL.COLO4_11763' => 'col', 'COL.COLO4_19876' => 'col', 'COL.COLO4_21481' => 'col', 'Cpa.g.sc118.34' => 'cpa', 'Cpa.g.sc32.13' => 'cpa', 'Cpa.g.sc58.103' => 'cpa', 'Cre03.g183850' => 'cre', 'Cre06.g306350' => 'cre', 'Cre07.g334800' => 'cre', 'Cre12.g487900' => 'cre', 'Cre14.g626700' => 'cre', 'Cre16.g658400' => 'cre', 'Cre17.g700950' => 'cre', 'CsaV3_1G014830' => 'csa', 'CsaV3_3G013320' => 'csa', 'CsaV3_3G019210' => 'csa', 'CsaV3_3G019220' => 'csa', 'CsaV3_6G004230' => 'csa', 'CSS0003773' => 'camsi', 'CSS0004563' => 'camsi', 'CSS0013949' => 'camsi', 'CSS0025971' => 'camsi', 'CSS0028570' => 'camsi', 'CSS0033127' => 'camsi', 'CSS0036051' => 'camsi', 'CSS0040087' => 'camsi', 'CSS0043179' => 'camsi', 'DCAR_006161' => 'dca', 'DCAR_010351' => 'dca', 'DCAR_012197' => 'dca', 'DCAR_024162' => 'dca', 'Dinv01030' => 'din', 'Dinv10924' => 'din', 'Dinv11835' => 'din', 'Dinv22841' => 'din', 'Dinv42553' => 'din', 'Duzib052G0560' => 'dzi', 'Duzib132G0389' => 'dzi', 'Duzib150G1181' => 'dzi', 'Duzib168G0623' => 'dzi', 'Duzib170G1036' => 'dzi', 'Duzib212G0200' => 'dzi', 'Duzib248G0194' => 'dzi', 'ECA232G2193' => 'eca', 'ECA233G0302' => 'eca', 'ECA234G2813' => 'eca', 'ECA234G4866' => 'eca', 'ECA240G3932' => 'eca', 'ECA248G0385' => 'eca', 'EL10Ac2g04781' => 'bvu', 'EL10Ac3g06445' => 'bvu', 'EL10Ac7g15825' => 'bvu', 'EL10Ac8g18550' => 'bvu', 'Eucgr.B03849' => 'egr', 'Eucgr.I02744' => 'egr', 'Eucgr.J00264' => 'egr', 'Eucgr.J00493' => 'egr', 'FAN04G2181' => 'fan', 'FAN07G2666' => 'fan', 'FAN11G0024' => 'fan', 'FAN12G1105' => 'fan', 'FAN13G0302' => 'fan', 'FAN15G2781' => 'fan', 'FAN16G1274' => 'fan', 'FAN17G2988' => 'fan', 'FAN18G2621' => 'fan', 'FAN21G0013' => 'fan', 'FAN22G1211' => 'fan', 'FAN25G3626' => 'fan', 'FvH4_2g09491' => 'fve', 'FvH4_3g24910' => 'fve', 'FvH4_4g15630' => 'fve', 'FvH4_5g28820' => 'fve', 'Glyma.01G238000' => 'gma', 'Glyma.05G168400' => 'gma', 'Glyma.08G126800' => 'gma', 'Glyma.08G188500' => 'gma', 'Glyma.10G278900' => 'gma', 'Glyma.11G005700' => 'gma', 'Glyma.11G183300' => 'gma', 'Glyma.12G089200' => 'gma', 'Glyma.12G169400' => 'gma', 'Glyma.12G169500' => 'gma', 'Glyma.12G169600' => 'gma', 'Glyma.20G110800' => 'gma', 'Gohir.A03G192900' => 'ghi', 'Gohir.A03G193000' => 'ghi', 'Gohir.A05G080700' => 'ghi', 'Gohir.A09G216000' => 'ghi', 'Gohir.A12G027700' => 'ghi', 'Gohir.A13G036200' => 'ghi', 'Gohir.A13G222600' => 'ghi', 'Gohir.D02G213900' => 'ghi', 'Gohir.D02G214000' => 'ghi', 'Gohir.D05G083700' => 'ghi', 'Gohir.D05G083800' => 'ghi', 'Gohir.D05G083850' => 'ghi', 'Gohir.D08G015400' => 'ghi', 'Gohir.D09G218400' => 'ghi', 'Gohir.D12G027100' => 'ghi', 'Gohir.D13G034500' => 'ghi', 'Gohir.D13G227400' => 'ghi', 'Gorai.005G241800' => 'gra', 'Gorai.005G241900' => 'gra', 'Gorai.006G239400' => 'gra', 'Gorai.008G027600' => 'gra', 'Gorai.009G085400' => 'gra', 'Gorai.009G085500' => 'gra', 'Gorai.013G039000' => 'gra', 'Gorai.013G194800' => 'gra', 'Gorai.013G257900' => 'gra', 'GSVIVG01000982001' => 'vvi', 'GSVIVG01017981001' => 'vvi', 'HanXRQChr01g0024061' => 'han', 'HanXRQChr09g0247831' => 'han', 'HanXRQChr10g0294611' => 'han', 'HanXRQChr10g0294621' => 'han', 'HanXRQChr11g0346821' => 'han', 'HanXRQChr13g0397461' => 'han', 'HanXRQChr16g0513651' => 'han', 'HanXRQChr16g0513701' => 'han', 'Haze_00897' => 'cav', 'Haze_01745' => 'cav', 'Haze_02486' => 'cav', 'Haze_02487' => 'cav', 'Haze_23374' => 'cav', 'Hma1.2p1_0578F.1_g182520' => 'hma', 'Hma1.2p1_0602F.1_g187350' => 'hma', 'Hma1.2p1_0602F.1_g187360' => 'hma', 'Hma1.2p1_0874F.1_g231320' => 'hma', 'Hma1.2p1_1197F.1_g266210' => 'hma', 'Hma1.2p1_1197F.1_g266220' => 'hma', 'Hma1.2p1_2167F.1_g315895' => 'hma', 'Hma1.2p1_2190F.1_g316640' => 'hma', 'Hma1.2p1_3645F.1_g337153' => 'hma', 'HPP92_004907' => 'vpl', 'HPP92_012134' => 'vpl', 'HPP92_025136' => 'vpl', 'HPP92_026087' => 'vpl', 'Hund06782' => 'sun', 'Hund06784' => 'sun', 'Lalb_Chr01g0004861' => 'lal', 'Lalb_Chr02g0140591' => 'lal', 'Lalb_Chr02g0140611' => 'lal', 'Lalb_Chr03g0028101' => 'lal', 'Lalb_Chr07g0185791' => 'lal', 'Lalb_Chr12g0204491' => 'lal', 'Lalb_Chr13g0295671' => 'lal', 'Lalb_Chr19g0136461' => 'lal', 'Lalb_Chr21g0309191' => 'lal', 'Lj1g0028158' => 'lja', 'Lj1P236T38' => 'lonja', 'Lj2C32G2' => 'lonja', 'Lj2P944T8' => 'lonja', 'Lj2P963T15' => 'lonja', 'Lj3g0011788' => 'lja', 'Lj4g0025027' => 'lja', 'Lj5P255T36' => 'lonja', 'Lj6g0018866' => 'lja', 'Lj6P608T31' => 'lonja', 'LjContig00408g0008879' => 'lja', 'Lsat_1_v5_gn_5_105820' => 'lsa', 'Lsat_1_v5_gn_6_38800' => 'lsa', 'Lsat_1_v5_gn_7_67141' => 'lsa', 'Manes.04G003400' => 'mes', 'Manes.07G020000' => 'mes', 'Manes.07G020100' => 'mes', 'Manes.07G020150' => 'mes', 'Manes.10G061500' => 'mes', 'Manes.10G123200' => 'mes', 'Manes.11G161900' => 'mes', 'Manes.15G029300' => 'mes', 'Mapoly0071s0018' => 'mpo', 'Mapoly0082s0023' => 'mpo', 'Mapoly3477s0001' => 'mpo', 'MBI05_g31233_MAGBIO' => 'mbi', 'MBI09_g05946_MAGBIO' => 'mbi', 'MBI09_g05947_MAGBIO' => 'mbi', 'MBI17_g08346_MAGBIO' => 'mbi', 'MCO04G038' => 'mco', 'MCO09G370' => 'mco', 'MCO13G605' => 'mco', 'MD00G1075500' => 'mdo', 'MD03G1144300' => 'mdo', 'MD08G1236800' => 'mdo', 'MD13G1193300' => 'mdo', 'MD15G1428700' => 'mdo', 'Medtr1g112030' => 'mtr', 'Medtr1g112050' => 'mtr', 'Medtr2g006290' => 'mtr', 'Medtr2g086510' => 'mtr', 'Medtr4g053120' => 'mtr', 'Medtr5g006320' => 'mtr', 'Medtr8g088720' => 'mtr', 'MELO3C004712.2' => 'cme', 'MELO3C006533.2' => 'cme', 'MELO3C019438.2' => 'cme', 'MELO3C019440.2' => 'cme', 'MELO3C019441.2' => 'cme', 'MELO3C019895.2' => 'cme', 'Migut.B00811' => 'egut', 'Migut.D02447' => 'egut', 'Migut.F00875' => 'egut', 'Migut.N00186' => 'egut', 'Migut.N01051' => 'egut', 'Migut.N02491' => 'egut', 'Migut.O00784' => 'egut', 'MSTRG.12367' => 'ama', 'MSTRG.18756' => 'ama', 'MSTRG.21042' => 'ama', 'Nitab4.5_0000559g0040' => 'nta', 'Nitab4.5_0000667g0190' => 'nta', 'Nitab4.5_0000755g0160' => 'nta', 'Nitab4.5_0001216g0080' => 'nta', 'Nitab4.5_0004069g0040' => 'nta', 'Nitab4.5_0004129g0010' => 'nta', 'Nitab4.5_0005744g0030' => 'nta', 'Nitab4.5_0006996g0030' => 'nta', 'Nitab4.5_0008971g0040' => 'nta', 'Nitab4.5_0009769g0020' => 'nta', 'Nitab4.5_0009833g0010' => 'nta', 'Nitab4.5_0013140g0020' => 'nta', 'Nn003s41376' => 'nnu', 'Nn1g01857' => 'nnu', 'Nn1g03611' => 'nnu', 'Nn1g06853' => 'nnu', 'Nn3g18360' => 'nnu', 'Nn4g26328' => 'nnu', 'Nn5g27531' => 'nnu', 'Nn6g34899' => 'nnu', 'Nn7g36299' => 'nnu', 'Oeu021485.1' => 'oeu', 'Oeu022433.1' => 'oeu', 'Oeu032111.1' => 'oeu', 'Oeu051608.1' => 'oeu', 'Os01g0860601' => 'osa', 'Os03g0659200' => 'osa', 'Os03g0835900' => 'osa', 'Os04g0412200' => 'osa', 'Os05g0443500' => 'osa', 'Os07g0251500' => 'osa', 'Os08g0104600' => 'osa', 'Peaxi162Scf00003g00047' => 'pax', 'Peaxi162Scf00003g00052' => 'pax', 'Peaxi162Scf00003g00394' => 'pax', 'Peaxi162Scf00091g00621' => 'pax', 'Peaxi162Scf00152g00146' => 'pax', 'Peaxi162Scf00173g00025' => 'pax', 'Peaxi162Scf00195g00102' => 'pax', 'Peaxi162Scf00402g00013' => 'pax', 'Peaxi162Scf00519g00618' => 'pax', 'PGR004G2838' => 'pgr', 'PGR044G2275' => 'pgr', 'PGR102G1377' => 'pgr', 'PGR119G1245' => 'pgr', 'PGR142G4449' => 'pgr', 'PGSC0003DMG400004532' => 'stu', 'PGSC0003DMG400011950' => 'stu', 'PGSC0003DMG400023391' => 'stu', 'PGSC0003DMG400023985' => 'stu', 'PGSC0003DMG400026360' => 'stu', 'PGSC0003DMG400035711' => 'stu', 'PGSC0003DMG400037286' => 'stu', 'PGSC0003DMG402005881' => 'stu', 'Phvul.002G045400' => 'pvu', 'Phvul.006G216600' => 'pvu', 'Phvul.006G216700' => 'pvu', 'Phvul.006G216800' => 'pvu', 'Phvul.007G022500' => 'pvu', 'Phvul.011G094400' => 'pvu', 'Potri.001G470700' => 'ptr', 'Potri.003G015200' => 'ptr', 'Potri.004G202500' => 'ptr', 'Potri.004G218400' => 'ptr', 'Potri.008G020100' => 'ptr', 'Potri.008G153200' => 'ptr', 'Potri.009G163800' => 'ptr', 'Potri.010G087300' => 'ptr', 'Potri.010G239100' => 'ptr', 'Pp3c10_16100' => 'ppa', 'Pp3c10_16880' => 'ppa', 'Pp3c16_6230' => 'ppa', 'Pp3c17_18910' => 'ppa', 'Pp3c3_22119' => 'ppa', 'Pp3c3_22140' => 'ppa', 'Pp3c4_8159' => 'ppa', 'Pp3c4_8171' => 'ppa', 'Pp3c4_8330' => 'ppa', 'PRCOL_00004098' => 'pco', 'Prupe.1G013900' => 'ppe', 'Prupe.1G226300' => 'ppe', 'Prupe.1G573600' => 'ppe', 'Prupe.6G130100' => 'ppe', 'Psat3g090040' => 'psa', 'Psat4g210440' => 'psa', 'Psat6g231040' => 'psa', 'Psat6g231080' => 'psa', 'Psat7g063000' => 'psa', 'Psat7g188000' => 'psa', 'Psat7g188040' => 'psa', 'PSO017G0206' => 'pso', 'PSO170G0501' => 'pso', 'PSO170G6422' => 'pso', 'PSO210G7739' => 'pso', 'PSO339G1808' => 'pso', 'PSO339G6135' => 'pso', 'PSO384G0010' => 'pso', 'PSO384G0964' => 'pso', 'PSO761G0050' => 'pso', 'PSO782G4085' => 'pso', 'QL01p012264' => 'qlo', 'QL02p099491' => 'qlo', 'QL03p033868' => 'qlo', 'QL04p046678' => 'qlo', 'QL06p002448' => 'qlo', 'RcHm_v2.0_Chr4g0416181' => 'rch', 'RcHm_v2.0_Chr5g0044701' => 'rch', 'RcHm_v2.0_Chr6g0265781' => 'rch', 'RcHm_v2.0_Chr7g0221031' => 'rch', 'Rhsim04G0202000' => 'rsi', 'Rhsim11G0127300' => 'rsi', 'Rhsim13G0111800' => 'rsi', 'Sabra01G0165600' => 'sbr', 'Sabra03G0008300' => 'sbr', 'Sabra04G0136900' => 'sbr', 'Sabra08G0013400' => 'sbr', 'Sabra08G0116800' => 'sbr', 'Sabra09G0128000' => 'sbr', 'Sabra10G0055500' => 'sbr', 'Sabra10G0073300' => 'sbr', 'SalBow3G0385' => 'sbo', 'SalBow3G1119' => 'sbo', 'SalBow3G2005' => 'sbo', 'SalBow6G2563' => 'sbo', 'SalBow6G6386' => 'sbo', 'Sc06g0008800' => 'sci', 'Sc07g0004950' => 'sci', 'Sc09g0005340' => 'sci', 'Sc13g0004410' => 'sci', 'Sc21g0007090' => 'sci', 'Sed0009285' => 'sed', 'Sed0017583' => 'sed', 'Sed0019699' => 'sed', 'Sed0023107' => 'sed', 'SEGI_10916' => 'sgi', 'SEGI_16217' => 'sgi', 'SEGI_19466' => 'sgi', 'SEGI_41115' => 'sgi', 'SGA_v2.0_scaffold111G31534' => 'sas', 'SGA_v2.0_scaffold22G09864' => 'sas', 'SGA_v2.0_scaffold338G49219' => 'sas', 'SGA_v2.0_scaffold92G28298' => 'sas', 'SMO119G0064' => 'smo', 'SMO223G0038' => 'smo', 'SMO347G0584' => 'smo', 'SMO351G0010' => 'smo', 'SMO356G0404' => 'smo', 'Solyc01g103920.3' => 'sly', 'Solyc04g009710.2' => 'sly', 'Solyc05g055280.2' => 'sly', 'Solyc10g044520.3' => 'sly', 'Solyc10g075160.1' => 'sly', 'Solyc11g006910.3' => 'sly', 'Solyc11g068430.3' => 'sly', 'Sopen01g046310' => 'spe', 'Sopen03g001200' => 'spe', 'Sopen04g004830' => 'spe', 'Sopen05g033720' => 'spe', 'Sopen06g030740' => 'spe', 'Sopen10g013090' => 'spe', 'Sopen10g027630' => 'spe', 'Sopen10g027640' => 'spe', 'Sopen11g002820' => 'spe', 'Sopen11g027140' => 'spe', 'Sp1g09680' => 'spa', 'Sp2g03630' => 'spa', 'Sp4g10320' => 'spa', 'Sp6g33400' => 'spa', 'Sp7g13030' => 'spa', 'TAR365G0317' => 'tar', 'TAR376G0979' => 'tar', 'TAR623G1665' => 'tar', 'TAR633G2373' => 'tar', 'TAR636G1400' => 'tar', 'THA.LOC104800529' => 'tha', 'THA.LOC104808547' => 'tha', 'THA.LOC104809615' => 'tha', 'THA.LOC104815724' => 'tha', 'THA.LOC104818480' => 'tha', 'THA.LOC104819179' => 'tha', 'THA.LOC104822270' => 'tha', 'THA.LOC104826425' => 'tha', 'Thecc.02G089700' => 'tca', 'Thecc.04G232300' => 'tca', 'Thecc.09G283400' => 'tca', 'Thhalv10009020m.g' => 'esa', 'Thhalv10015506m.g' => 'esa', 'Thhalv10017364m.g' => 'esa', 'Thhalv10023742m.g' => 'esa', 'Thhalv10026483m.g' => 'esa', 'TPR.G17232' => 'tpr', 'TPR.G2133' => 'tpr', 'TPR.G2498' => 'tpr', 'TPR.G31942' => 'tpr', 'TPR.G37877' => 'tpr', 'TPR.G4571' => 'tpr', 'TWI14G1113' => 'twi', 'TWI15G0426' => 'twi', 'TWI31G1005' => 'twi', 'TWI38G0513' => 'twi', 'TWI38G1484' => 'twi', 'TWI73G1098' => 'twi', 'unitig_26.g10519' => 'ugi', 'unitig_736.g22395' => 'ugi', 'unitig_747.g21234' => 'ugi', 'unitig_747.g21942' => 'ugi', 'vmacro14351' => 'vma', 'VMungo0540G0082' => 'vmu', 'VMungo0540G0405' => 'vmu', 'VMungo0540G1486' => 'vmu', 'VMungo0540G1692' => 'vmu', 'VMungo0720G2473' => 'vmu', 'VMungo1127G1562' => 'vmu', 'VMungo1215G1918' => 'vmu', 'Zm00001eb052650' => 'zma', 'Zm00001eb063710' => 'zma', 'Zm00001eb083950' => 'zma', 'Zm00001eb174420' => 'zma', 'Zm00001eb260140' => 'zma', 'Zm00001eb260150' => 'zma', 'Zm00001eb260160' => 'zma', 'Zm00001eb348290' => 'zma', 'Zm00001eb366870' => 'zma', 'Zm00001eb421930' => 'zma' ), 'gf_id' => 'HOM05D001025', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001025' ), 'data_identifier' => 'HOM05D001025', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001025', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '592', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p22650' => 'bna', 'A01p29720' => 'bna', 'A03p26560' => 'bna', 'A03p68820' => 'bna', 'A04p20980' => 'bna', 'A06p07730' => 'bna', 'A07p18260' => 'bna', 'A08p33710' => 'bna', 'A09p16970' => 'bna', 'A10p27490' => 'bna', 'Aa31LG1G17300' => 'aar', 'Aa31LG1G3910' => 'aar', 'Aa31LG2G9630' => 'aar', 'Aa31LG5G8360' => 'aar', 'Aa31LG9G2410' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4699' => 'aag', 'Actinidia23512' => 'ach', 'Actinidia37080' => 'ach', 'Ah.01g020380' => 'amhyb', 'Ah.08g215710' => 'amhyb', 'Ah.09g225110' => 'amhyb', 'Ah.10g036680' => 'amhyb', 'AL1G21940' => 'aly', 'AL2G15540' => 'aly', 'AL4G21520' => 'aly', 'AL7G40960' => 'aly', 'Aqoxy2G01191' => 'aox', 'Aqoxy2G03393' => 'aox', 'Aqoxy4G02775' => 'aox', 'Aqoxy6G00058' => 'aox', 'arahy.Tifrunner.gnm1.ann1.9X74H2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CW3FX9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R485W7' => 'arhy', 'AT1G10960' => 'ath', 'AT1G60950' => 'ath', 'AT2G27510' => 'ath', 'AT4G14890' => 'ath', 'AT5G10000' => 'ath', 'ATR0665G624' => 'atr', 'ATR0697G138' => 'atr', 'ATR0776G046' => 'atr', 'ATR1134G135' => 'atr', 'Atru.chr12.1025' => 'acertr', 'Atru.chr3.3241' => 'acertr', 'Atru.chr4.2460' => 'acertr', 'AUR62007427' => 'cqu', 'AUR62010960' => 'cqu', 'AUR62012201' => 'cqu', 'AUR62021470' => 'cqu', 'AUR62022834' => 'cqu', 'AUR62033635' => 'cqu', 'AUR62036186' => 'cqu', 'BcaB01g03077' => 'bca', 'BcaB02g10093' => 'bca', 'BcaB04g20295' => 'bca', 'BcaB06g28147' => 'bca', 'BcaB07g31253' => 'bca', 'BcaC01g04946' => 'bca', 'BcaC02g10614' => 'bca', 'BcaC02g10885' => 'bca', 'BcaC04g19356' => 'bca', 'BcaC04g22297' => 'bca', 'BcaC05g24977' => 'bca', 'BcaC06g31823' => 'bca', 'BcaC07g38633' => 'bca', 'BcaC09g49353' => 'bca', 'BcaC09g50168' => 'bca', 'BcaNung00322' => 'bca', 'BcaNung04769' => 'bca', 'BolC1t02753H' => 'bol', 'BolC1t03721H' => 'bol', 'BolC3t15525H' => 'bol', 'BolC4t23903H' => 'bol', 'BolC4t24231H' => 'bol', 'BolC4t27209H' => 'bol', 'BolC5t29671H' => 'bol', 'BolC8t49044H' => 'bol', 'BolC9t54999H' => 'bol', 'BolC9t59517H' => 'bol', 'BraA01t02178Z' => 'bra', 'BraA01t03099Z' => 'bra', 'BraA03t11867Z' => 'bra', 'BraA04t17667Z' => 'bra', 'BraA07t29542Z' => 'bra', 'BraA08t35287Z' => 'bra', 'BraA09t37334Z' => 'bra', 'BraA10t44801Z' => 'bra', 'BraSC39t46181Z' => 'bra', 'C01p28240' => 'bna', 'C01p37530' => 'bna', 'C03p31820' => 'bna', 'C04p24080' => 'bna', 'C04p25790' => 'bna', 'C04p56770' => 'bna', 'C05p09310' => 'bna', 'C09p21010' => 'bna', 'C09p67560' => 'bna', 'CAN.G1324.7' => 'can', 'CAN.G1358.10' => 'can', 'CAN.G1550.2' => 'can', 'CAN.G186.56' => 'can', 'CAN.G1965.1' => 'can', 'CAN.G645.15' => 'can', 'CAN.G798.26' => 'can', 'CAN.G798.27' => 'can', 'CAN.G798.29' => 'can', 'CAN.G919.31' => 'can', 'CANSAT11G0133' => 'cansat', 'CANSAT11G1171' => 'cansat', 'CANSAT11G2056' => 'cansat', 'CANSAT56G1202' => 'cansat', 'CANSAT56G1514' => 'cansat', 'CANSAT78G0455' => 'cansat', 'CARHR011190' => 'chi', 'CARHR051980' => 'chi', 'CARHR120170' => 'chi', 'CARHR203310' => 'chi', 'CARHR221490' => 'chi', 'Carub.0001s1054' => 'cru', 'Carub.0002s0431' => 'cru', 'Carub.0004s0818' => 'cru', 'Carub.0006s0846' => 'cru', 'Carub.0007s2722' => 'cru', 'Ca_00058_v3' => 'car', 'Ca_17831_v3' => 'car', 'Ca_19408_v3' => 'car', 'Ca_24397_v3' => 'car', 'Ca_25664_v3' => 'car', 'CBR_g21818' => 'cbr', 'CBR_g31195' => 'cbr', 'CBR_g32282' => 'cbr', 'CBR_g39599' => 'cbr', 'CBR_g49410' => 'cbr', 'Cc01_g09120' => 'ccan', 'Cc01_g09130' => 'ccan', 'Cc02_g09630' => 'ccan', 'Cc02_g22810' => 'ccan', 'Cc03_g03810' => 'ccan', 'CDE02G3718' => 'cde', 'CDE04G3183' => 'cde', 'CDE07G1046' => 'cde', 'CDE08G0480' => 'cde', 'Cfa005493' => 'cfa', 'Cfa010312' => 'cfa', 'Cfa015648' => 'cfa', 'Ciclev10002793m.g' => 'ccl', 'Ciclev10003356m.g' => 'ccl', 'Ciclev10006141m.g' => 'ccl', 'Ciclev10016676m.g' => 'ccl', 'Ciclev10017081m.g' => 'ccl', 'Ciclev10029499m.g' => 'ccl', 'CiPaw.01G166300' => 'cil', 'CiPaw.06G145600' => 'cil', 'CiPaw.13G040100' => 'cil', 'CiPaw.13G135800' => 'cil', 'ClCG01G012230' => 'cla', 'ClCG05G009510' => 'cla', 'ClCG08G008270' => 'cla', 'COL.COLO4_11763' => 'col', 'COL.COLO4_19876' => 'col', 'COL.COLO4_21481' => 'col', 'Cpa.g.sc118.34' => 'cpa', 'Cpa.g.sc32.13' => 'cpa', 'Cpa.g.sc58.103' => 'cpa', 'Cre03.g183850' => 'cre', 'Cre06.g306350' => 'cre', 'Cre07.g334800' => 'cre', 'Cre12.g487900' => 'cre', 'Cre14.g626700' => 'cre', 'Cre16.g658400' => 'cre', 'Cre17.g700950' => 'cre', 'CsaV3_1G014830' => 'csa', 'CsaV3_3G013320' => 'csa', 'CsaV3_3G019210' => 'csa', 'CsaV3_3G019220' => 'csa', 'CsaV3_6G004230' => 'csa', 'CSS0003773' => 'camsi', 'CSS0004563' => 'camsi', 'CSS0013949' => 'camsi', 'CSS0025971' => 'camsi', 'CSS0028570' => 'camsi', 'CSS0033127' => 'camsi', 'CSS0036051' => 'camsi', 'CSS0040087' => 'camsi', 'CSS0043179' => 'camsi', 'DCAR_006161' => 'dca', 'DCAR_010351' => 'dca', 'DCAR_012197' => 'dca', 'DCAR_024162' => 'dca', 'Dinv01030' => 'din', 'Dinv10924' => 'din', 'Dinv11835' => 'din', 'Dinv22841' => 'din', 'Dinv42553' => 'din', 'Duzib052G0560' => 'dzi', 'Duzib132G0389' => 'dzi', 'Duzib150G1181' => 'dzi', 'Duzib168G0623' => 'dzi', 'Duzib170G1036' => 'dzi', 'Duzib212G0200' => 'dzi', 'Duzib248G0194' => 'dzi', 'ECA232G2193' => 'eca', 'ECA233G0302' => 'eca', 'ECA234G2813' => 'eca', 'ECA234G4866' => 'eca', 'ECA240G3932' => 'eca', 'ECA248G0385' => 'eca', 'EL10Ac2g04781' => 'bvu', 'EL10Ac3g06445' => 'bvu', 'EL10Ac7g15825' => 'bvu', 'EL10Ac8g18550' => 'bvu', 'Eucgr.B03849' => 'egr', 'Eucgr.I02744' => 'egr', 'Eucgr.J00264' => 'egr', 'Eucgr.J00493' => 'egr', 'FAN04G2181' => 'fan', 'FAN07G2666' => 'fan', 'FAN11G0024' => 'fan', 'FAN12G1105' => 'fan', 'FAN13G0302' => 'fan', 'FAN15G2781' => 'fan', 'FAN16G1274' => 'fan', 'FAN17G2988' => 'fan', 'FAN18G2621' => 'fan', 'FAN21G0013' => 'fan', 'FAN22G1211' => 'fan', 'FAN25G3626' => 'fan', 'FvH4_2g09491' => 'fve', 'FvH4_3g24910' => 'fve', 'FvH4_4g15630' => 'fve', 'FvH4_5g28820' => 'fve', 'Glyma.01G238000' => 'gma', 'Glyma.05G168400' => 'gma', 'Glyma.08G126800' => 'gma', 'Glyma.08G188500' => 'gma', 'Glyma.10G278900' => 'gma', 'Glyma.11G005700' => 'gma', 'Glyma.11G183300' => 'gma', 'Glyma.12G089200' => 'gma', 'Glyma.12G169400' => 'gma', 'Glyma.12G169500' => 'gma', 'Glyma.12G169600' => 'gma', 'Glyma.20G110800' => 'gma', 'Gohir.A03G192900' => 'ghi', 'Gohir.A03G193000' => 'ghi', 'Gohir.A05G080700' => 'ghi', 'Gohir.A09G216000' => 'ghi', 'Gohir.A12G027700' => 'ghi', 'Gohir.A13G036200' => 'ghi', 'Gohir.A13G222600' => 'ghi', 'Gohir.D02G213900' => 'ghi', 'Gohir.D02G214000' => 'ghi', 'Gohir.D05G083700' => 'ghi', 'Gohir.D05G083800' => 'ghi', 'Gohir.D05G083850' => 'ghi', 'Gohir.D08G015400' => 'ghi', 'Gohir.D09G218400' => 'ghi', 'Gohir.D12G027100' => 'ghi', 'Gohir.D13G034500' => 'ghi', 'Gohir.D13G227400' => 'ghi', 'Gorai.005G241800' => 'gra', 'Gorai.005G241900' => 'gra', 'Gorai.006G239400' => 'gra', 'Gorai.008G027600' => 'gra', 'Gorai.009G085400' => 'gra', 'Gorai.009G085500' => 'gra', 'Gorai.013G039000' => 'gra', 'Gorai.013G194800' => 'gra', 'Gorai.013G257900' => 'gra', 'GSVIVG01000982001' => 'vvi', 'GSVIVG01017981001' => 'vvi', 'HanXRQChr01g0024061' => 'han', 'HanXRQChr09g0247831' => 'han', 'HanXRQChr10g0294611' => 'han', 'HanXRQChr10g0294621' => 'han', 'HanXRQChr11g0346821' => 'han', 'HanXRQChr13g0397461' => 'han', 'HanXRQChr16g0513651' => 'han', 'HanXRQChr16g0513701' => 'han', 'Haze_00897' => 'cav', 'Haze_01745' => 'cav', 'Haze_02486' => 'cav', 'Haze_02487' => 'cav', 'Haze_23374' => 'cav', 'Hma1.2p1_0578F.1_g182520' => 'hma', 'Hma1.2p1_0602F.1_g187350' => 'hma', 'Hma1.2p1_0602F.1_g187360' => 'hma', 'Hma1.2p1_0874F.1_g231320' => 'hma', 'Hma1.2p1_1197F.1_g266210' => 'hma', 'Hma1.2p1_1197F.1_g266220' => 'hma', 'Hma1.2p1_2167F.1_g315895' => 'hma', 'Hma1.2p1_2190F.1_g316640' => 'hma', 'Hma1.2p1_3645F.1_g337153' => 'hma', 'HPP92_004907' => 'vpl', 'HPP92_012134' => 'vpl', 'HPP92_025136' => 'vpl', 'HPP92_026087' => 'vpl', 'Hund06782' => 'sun', 'Hund06784' => 'sun', 'Lalb_Chr01g0004861' => 'lal', 'Lalb_Chr02g0140591' => 'lal', 'Lalb_Chr02g0140611' => 'lal', 'Lalb_Chr03g0028101' => 'lal', 'Lalb_Chr07g0185791' => 'lal', 'Lalb_Chr12g0204491' => 'lal', 'Lalb_Chr13g0295671' => 'lal', 'Lalb_Chr19g0136461' => 'lal', 'Lalb_Chr21g0309191' => 'lal', 'Lj1g0028158' => 'lja', 'Lj1P236T38' => 'lonja', 'Lj2C32G2' => 'lonja', 'Lj2P944T8' => 'lonja', 'Lj2P963T15' => 'lonja', 'Lj3g0011788' => 'lja', 'Lj4g0025027' => 'lja', 'Lj5P255T36' => 'lonja', 'Lj6g0018866' => 'lja', 'Lj6P608T31' => 'lonja', 'LjContig00408g0008879' => 'lja', 'Lsat_1_v5_gn_5_105820' => 'lsa', 'Lsat_1_v5_gn_6_38800' => 'lsa', 'Lsat_1_v5_gn_7_67141' => 'lsa', 'Manes.04G003400' => 'mes', 'Manes.07G020000' => 'mes', 'Manes.07G020100' => 'mes', 'Manes.07G020150' => 'mes', 'Manes.10G061500' => 'mes', 'Manes.10G123200' => 'mes', 'Manes.11G161900' => 'mes', 'Manes.15G029300' => 'mes', 'Mapoly0071s0018' => 'mpo', 'Mapoly0082s0023' => 'mpo', 'Mapoly3477s0001' => 'mpo', 'MBI05_g31233_MAGBIO' => 'mbi', 'MBI09_g05946_MAGBIO' => 'mbi', 'MBI09_g05947_MAGBIO' => 'mbi', 'MBI17_g08346_MAGBIO' => 'mbi', 'MCO04G038' => 'mco', 'MCO09G370' => 'mco', 'MCO13G605' => 'mco', 'MD00G1075500' => 'mdo', 'MD03G1144300' => 'mdo', 'MD08G1236800' => 'mdo', 'MD13G1193300' => 'mdo', 'MD15G1428700' => 'mdo', 'Medtr1g112030' => 'mtr', 'Medtr1g112050' => 'mtr', 'Medtr2g006290' => 'mtr', 'Medtr2g086510' => 'mtr', 'Medtr4g053120' => 'mtr', 'Medtr5g006320' => 'mtr', 'Medtr8g088720' => 'mtr', 'MELO3C004712.2' => 'cme', 'MELO3C006533.2' => 'cme', 'MELO3C019438.2' => 'cme', 'MELO3C019440.2' => 'cme', 'MELO3C019441.2' => 'cme', 'MELO3C019895.2' => 'cme', 'Migut.B00811' => 'egut', 'Migut.D02447' => 'egut', 'Migut.F00875' => 'egut', 'Migut.N00186' => 'egut', 'Migut.N01051' => 'egut', 'Migut.N02491' => 'egut', 'Migut.O00784' => 'egut', 'MSTRG.12367' => 'ama', 'MSTRG.18756' => 'ama', 'MSTRG.21042' => 'ama', 'Nitab4.5_0000559g0040' => 'nta', 'Nitab4.5_0000667g0190' => 'nta', 'Nitab4.5_0000755g0160' => 'nta', 'Nitab4.5_0001216g0080' => 'nta', 'Nitab4.5_0004069g0040' => 'nta', 'Nitab4.5_0004129g0010' => 'nta', 'Nitab4.5_0005744g0030' => 'nta', 'Nitab4.5_0006996g0030' => 'nta', 'Nitab4.5_0008971g0040' => 'nta', 'Nitab4.5_0009769g0020' => 'nta', 'Nitab4.5_0009833g0010' => 'nta', 'Nitab4.5_0013140g0020' => 'nta', 'Nn003s41376' => 'nnu', 'Nn1g01857' => 'nnu', 'Nn1g03611' => 'nnu', 'Nn1g06853' => 'nnu', 'Nn3g18360' => 'nnu', 'Nn4g26328' => 'nnu', 'Nn5g27531' => 'nnu', 'Nn6g34899' => 'nnu', 'Nn7g36299' => 'nnu', 'Oeu021485.1' => 'oeu', 'Oeu022433.1' => 'oeu', 'Oeu032111.1' => 'oeu', 'Oeu051608.1' => 'oeu', 'Os01g0860601' => 'osa', 'Os03g0659200' => 'osa', 'Os03g0835900' => 'osa', 'Os04g0412200' => 'osa', 'Os05g0443500' => 'osa', 'Os07g0251500' => 'osa', 'Os08g0104600' => 'osa', 'Peaxi162Scf00003g00047' => 'pax', 'Peaxi162Scf00003g00052' => 'pax', 'Peaxi162Scf00003g00394' => 'pax', 'Peaxi162Scf00091g00621' => 'pax', 'Peaxi162Scf00152g00146' => 'pax', 'Peaxi162Scf00173g00025' => 'pax', 'Peaxi162Scf00195g00102' => 'pax', 'Peaxi162Scf00402g00013' => 'pax', 'Peaxi162Scf00519g00618' => 'pax', 'PGR004G2838' => 'pgr', 'PGR044G2275' => 'pgr', 'PGR102G1377' => 'pgr', 'PGR119G1245' => 'pgr', 'PGR142G4449' => 'pgr', 'PGSC0003DMG400004532' => 'stu', 'PGSC0003DMG400011950' => 'stu', 'PGSC0003DMG400023391' => 'stu', 'PGSC0003DMG400023985' => 'stu', 'PGSC0003DMG400026360' => 'stu', 'PGSC0003DMG400035711' => 'stu', 'PGSC0003DMG400037286' => 'stu', 'PGSC0003DMG402005881' => 'stu', 'Phvul.002G045400' => 'pvu', 'Phvul.006G216600' => 'pvu', 'Phvul.006G216700' => 'pvu', 'Phvul.006G216800' => 'pvu', 'Phvul.007G022500' => 'pvu', 'Phvul.011G094400' => 'pvu', 'Potri.001G470700' => 'ptr', 'Potri.003G015200' => 'ptr', 'Potri.004G202500' => 'ptr', 'Potri.004G218400' => 'ptr', 'Potri.008G020100' => 'ptr', 'Potri.008G153200' => 'ptr', 'Potri.009G163800' => 'ptr', 'Potri.010G087300' => 'ptr', 'Potri.010G239100' => 'ptr', 'Pp3c10_16100' => 'ppa', 'Pp3c10_16880' => 'ppa', 'Pp3c16_6230' => 'ppa', 'Pp3c17_18910' => 'ppa', 'Pp3c3_22119' => 'ppa', 'Pp3c3_22140' => 'ppa', 'Pp3c4_8159' => 'ppa', 'Pp3c4_8171' => 'ppa', 'Pp3c4_8330' => 'ppa', 'PRCOL_00004098' => 'pco', 'Prupe.1G013900' => 'ppe', 'Prupe.1G226300' => 'ppe', 'Prupe.1G573600' => 'ppe', 'Prupe.6G130100' => 'ppe', 'Psat3g090040' => 'psa', 'Psat4g210440' => 'psa', 'Psat6g231040' => 'psa', 'Psat6g231080' => 'psa', 'Psat7g063000' => 'psa', 'Psat7g188000' => 'psa', 'Psat7g188040' => 'psa', 'PSO017G0206' => 'pso', 'PSO170G0501' => 'pso', 'PSO170G6422' => 'pso', 'PSO210G7739' => 'pso', 'PSO339G1808' => 'pso', 'PSO339G6135' => 'pso', 'PSO384G0010' => 'pso', 'PSO384G0964' => 'pso', 'PSO761G0050' => 'pso', 'PSO782G4085' => 'pso', 'QL01p012264' => 'qlo', 'QL02p099491' => 'qlo', 'QL03p033868' => 'qlo', 'QL04p046678' => 'qlo', 'QL06p002448' => 'qlo', 'RcHm_v2.0_Chr4g0416181' => 'rch', 'RcHm_v2.0_Chr5g0044701' => 'rch', 'RcHm_v2.0_Chr6g0265781' => 'rch', 'RcHm_v2.0_Chr7g0221031' => 'rch', 'Rhsim04G0202000' => 'rsi', 'Rhsim11G0127300' => 'rsi', 'Rhsim13G0111800' => 'rsi', 'Sabra01G0165600' => 'sbr', 'Sabra03G0008300' => 'sbr', 'Sabra04G0136900' => 'sbr', 'Sabra08G0013400' => 'sbr', 'Sabra08G0116800' => 'sbr', 'Sabra09G0128000' => 'sbr', 'Sabra10G0055500' => 'sbr', 'Sabra10G0073300' => 'sbr', 'SalBow3G0385' => 'sbo', 'SalBow3G1119' => 'sbo', 'SalBow3G2005' => 'sbo', 'SalBow6G2563' => 'sbo', 'SalBow6G6386' => 'sbo', 'Sc06g0008800' => 'sci', 'Sc07g0004950' => 'sci', 'Sc09g0005340' => 'sci', 'Sc13g0004410' => 'sci', 'Sc21g0007090' => 'sci', 'Sed0009285' => 'sed', 'Sed0017583' => 'sed', 'Sed0019699' => 'sed', 'Sed0023107' => 'sed', 'SEGI_10916' => 'sgi', 'SEGI_16217' => 'sgi', 'SEGI_19466' => 'sgi', 'SEGI_41115' => 'sgi', 'SGA_v2.0_scaffold111G31534' => 'sas', 'SGA_v2.0_scaffold22G09864' => 'sas', 'SGA_v2.0_scaffold338G49219' => 'sas', 'SGA_v2.0_scaffold92G28298' => 'sas', 'SMO119G0064' => 'smo', 'SMO223G0038' => 'smo', 'SMO347G0584' => 'smo', 'SMO351G0010' => 'smo', 'SMO356G0404' => 'smo', 'Solyc01g103920.3' => 'sly', 'Solyc04g009710.2' => 'sly', 'Solyc05g055280.2' => 'sly', 'Solyc10g044520.3' => 'sly', 'Solyc10g075160.1' => 'sly', 'Solyc11g006910.3' => 'sly', 'Solyc11g068430.3' => 'sly', 'Sopen01g046310' => 'spe', 'Sopen03g001200' => 'spe', 'Sopen04g004830' => 'spe', 'Sopen05g033720' => 'spe', 'Sopen06g030740' => 'spe', 'Sopen10g013090' => 'spe', 'Sopen10g027630' => 'spe', 'Sopen10g027640' => 'spe', 'Sopen11g002820' => 'spe', 'Sopen11g027140' => 'spe', 'Sp1g09680' => 'spa', 'Sp2g03630' => 'spa', 'Sp4g10320' => 'spa', 'Sp6g33400' => 'spa', 'Sp7g13030' => 'spa', 'TAR365G0317' => 'tar', 'TAR376G0979' => 'tar', 'TAR623G1665' => 'tar', 'TAR633G2373' => 'tar', 'TAR636G1400' => 'tar', 'THA.LOC104800529' => 'tha', 'THA.LOC104808547' => 'tha', 'THA.LOC104809615' => 'tha', 'THA.LOC104815724' => 'tha', 'THA.LOC104818480' => 'tha', 'THA.LOC104819179' => 'tha', 'THA.LOC104822270' => 'tha', 'THA.LOC104826425' => 'tha', 'Thecc.02G089700' => 'tca', 'Thecc.04G232300' => 'tca', 'Thecc.09G283400' => 'tca', 'Thhalv10009020m.g' => 'esa', 'Thhalv10015506m.g' => 'esa', 'Thhalv10017364m.g' => 'esa', 'Thhalv10023742m.g' => 'esa', 'Thhalv10026483m.g' => 'esa', 'TPR.G17232' => 'tpr', 'TPR.G2133' => 'tpr', 'TPR.G2498' => 'tpr', 'TPR.G31942' => 'tpr', 'TPR.G37877' => 'tpr', 'TPR.G4571' => 'tpr', 'TWI14G1113' => 'twi', 'TWI15G0426' => 'twi', 'TWI31G1005' => 'twi', 'TWI38G0513' => 'twi', 'TWI38G1484' => 'twi', 'TWI73G1098' => 'twi', 'unitig_26.g10519' => 'ugi', 'unitig_736.g22395' => 'ugi', 'unitig_747.g21234' => 'ugi', 'unitig_747.g21942' => 'ugi', 'vmacro14351' => 'vma', 'VMungo0540G0082' => 'vmu', 'VMungo0540G0405' => 'vmu', 'VMungo0540G1486' => 'vmu', 'VMungo0540G1692' => 'vmu', 'VMungo0720G2473' => 'vmu', 'VMungo1127G1562' => 'vmu', 'VMungo1215G1918' => 'vmu', 'Zm00001eb052650' => 'zma', 'Zm00001eb063710' => 'zma', 'Zm00001eb083950' => 'zma', 'Zm00001eb174420' => 'zma', 'Zm00001eb260140' => 'zma', 'Zm00001eb260150' => 'zma', 'Zm00001eb260160' => 'zma', 'Zm00001eb348290' => 'zma', 'Zm00001eb366870' => 'zma', 'Zm00001eb421930' => 'zma' ) $gf_id = 'HOM05D001025' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001025' ) $data_identifier = 'HOM05D001025' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 19, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 2, 'amhyb' => (int) 4, 'aly' => (int) 4, 'aox' => (int) 4, 'arhy' => (int) 3, 'ath' => (int) 5, 'atr' => (int) 4, 'acertr' => (int) 3, 'cqu' => (int) 7, 'bca' => (int) 17, 'bol' => (int) 10, 'bra' => (int) 9, 'can' => (int) 10, 'cansat' => (int) 6, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 5, 'cbr' => (int) 5, 'ccan' => (int) 5, 'cde' => (int) 4, 'cfa' => (int) 3, 'ccl' => (int) 6, 'cil' => (int) 4, 'cla' => (int) 3, 'col' => (int) 3, 'cpa' => (int) 3, 'cre' => (int) 7, 'csa' => (int) 5, 'camsi' => (int) 9, 'dca' => (int) 4, 'din' => (int) 5, 'dzi' => (int) 7, 'eca' => (int) 6, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 12, 'fve' => (int) 4, 'gma' => (int) 12, 'ghi' => (int) 17, 'gra' => (int) 9, 'vvi' => (int) 2, 'han' => (int) 8, 'cav' => (int) 5, 'hma' => (int) 9, 'vpl' => (int) 4, 'sun' => (int) 2, 'lal' => (int) 9, 'lja' => (int) 5, 'lonja' => (int) 6, 'lsa' => (int) 3, 'mes' => (int) 8, 'mpo' => (int) 3, 'mbi' => (int) 4, 'mco' => (int) 3, 'mdo' => (int) 5, 'mtr' => (int) 7, 'cme' => (int) 6, 'egut' => (int) 7, 'ama' => (int) 3, 'nta' => (int) 12, 'nnu' => (int) 9, 'oeu' => (int) 4, 'osa' => (int) 7, 'pax' => (int) 9, 'pgr' => (int) 5, 'stu' => (int) 8, 'pvu' => (int) 6, 'ptr' => (int) 9, 'ppa' => (int) 9, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 7, 'pso' => (int) 10, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 3, 'sbr' => (int) 8, 'sbo' => (int) 5, 'sci' => (int) 5, 'sed' => (int) 4, 'sgi' => (int) 4, 'sas' => (int) 4, 'smo' => (int) 5, 'sly' => (int) 7, 'spe' => (int) 10, 'spa' => (int) 5, 'tar' => (int) 5, 'tha' => (int) 8, 'tca' => (int) 3, 'esa' => (int) 5, 'tpr' => (int) 6, 'twi' => (int) 6, 'ugi' => (int) 4, 'vma' => (int) 1, 'vmu' => (int) 7, 'zma' => (int) 10 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb421930' $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' => 'HOM05D001025', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '592', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p22650' => 'bna', 'A01p29720' => 'bna', 'A03p26560' => 'bna', 'A03p68820' => 'bna', 'A04p20980' => 'bna', 'A06p07730' => 'bna', 'A07p18260' => 'bna', 'A08p33710' => 'bna', 'A09p16970' => 'bna', 'A10p27490' => 'bna', 'Aa31LG1G17300' => 'aar', 'Aa31LG1G3910' => 'aar', 'Aa31LG2G9630' => 'aar', 'Aa31LG5G8360' => 'aar', 'Aa31LG9G2410' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4699' => 'aag', 'Actinidia23512' => 'ach', 'Actinidia37080' => 'ach', 'Ah.01g020380' => 'amhyb', 'Ah.08g215710' => 'amhyb', 'Ah.09g225110' => 'amhyb', 'Ah.10g036680' => 'amhyb', 'AL1G21940' => 'aly', 'AL2G15540' => 'aly', 'AL4G21520' => 'aly', 'AL7G40960' => 'aly', 'Aqoxy2G01191' => 'aox', 'Aqoxy2G03393' => 'aox', 'Aqoxy4G02775' => 'aox', 'Aqoxy6G00058' => 'aox', 'arahy.Tifrunner.gnm1.ann1.9X74H2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CW3FX9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R485W7' => 'arhy', 'AT1G10960' => 'ath', 'AT1G60950' => 'ath', 'AT2G27510' => 'ath', 'AT4G14890' => 'ath', 'AT5G10000' => 'ath', 'ATR0665G624' => 'atr', 'ATR0697G138' => 'atr', 'ATR0776G046' => 'atr', 'ATR1134G135' => 'atr', 'Atru.chr12.1025' => 'acertr', 'Atru.chr3.3241' => 'acertr', 'Atru.chr4.2460' => 'acertr', 'AUR62007427' => 'cqu', 'AUR62010960' => 'cqu', 'AUR62012201' => 'cqu', 'AUR62021470' => 'cqu', 'AUR62022834' => 'cqu', 'AUR62033635' => 'cqu', 'AUR62036186' => 'cqu', 'BcaB01g03077' => 'bca', 'BcaB02g10093' => 'bca', 'BcaB04g20295' => 'bca', 'BcaB06g28147' => 'bca', 'BcaB07g31253' => 'bca', 'BcaC01g04946' => 'bca', 'BcaC02g10614' => 'bca', 'BcaC02g10885' => 'bca', 'BcaC04g19356' => 'bca', 'BcaC04g22297' => 'bca', 'BcaC05g24977' => 'bca', 'BcaC06g31823' => 'bca', 'BcaC07g38633' => 'bca', 'BcaC09g49353' => 'bca', 'BcaC09g50168' => 'bca', 'BcaNung00322' => 'bca', 'BcaNung04769' => 'bca', 'BolC1t02753H' => 'bol', 'BolC1t03721H' => 'bol', 'BolC3t15525H' => 'bol', 'BolC4t23903H' => 'bol', 'BolC4t24231H' => 'bol', 'BolC4t27209H' => 'bol', 'BolC5t29671H' => 'bol', 'BolC8t49044H' => 'bol', 'BolC9t54999H' => 'bol', 'BolC9t59517H' => 'bol', 'BraA01t02178Z' => 'bra', 'BraA01t03099Z' => 'bra', 'BraA03t11867Z' => 'bra', 'BraA04t17667Z' => 'bra', 'BraA07t29542Z' => 'bra', 'BraA08t35287Z' => 'bra', 'BraA09t37334Z' => 'bra', 'BraA10t44801Z' => 'bra', 'BraSC39t46181Z' => 'bra', 'C01p28240' => 'bna', 'C01p37530' => 'bna', 'C03p31820' => 'bna', 'C04p24080' => 'bna', 'C04p25790' => 'bna', 'C04p56770' => 'bna', 'C05p09310' => 'bna', 'C09p21010' => 'bna', 'C09p67560' => 'bna', 'CAN.G1324.7' => 'can', 'CAN.G1358.10' => 'can', 'CAN.G1550.2' => 'can', 'CAN.G186.56' => 'can', 'CAN.G1965.1' => 'can', 'CAN.G645.15' => 'can', 'CAN.G798.26' => 'can', 'CAN.G798.27' => 'can', 'CAN.G798.29' => 'can', 'CAN.G919.31' => 'can', 'CANSAT11G0133' => 'cansat', 'CANSAT11G1171' => 'cansat', 'CANSAT11G2056' => 'cansat', 'CANSAT56G1202' => 'cansat', 'CANSAT56G1514' => 'cansat', 'CANSAT78G0455' => 'cansat', 'CARHR011190' => 'chi', 'CARHR051980' => 'chi', 'CARHR120170' => 'chi', 'CARHR203310' => 'chi', 'CARHR221490' => 'chi', 'Carub.0001s1054' => 'cru', 'Carub.0002s0431' => 'cru', 'Carub.0004s0818' => 'cru', 'Carub.0006s0846' => 'cru', 'Carub.0007s2722' => 'cru', 'Ca_00058_v3' => 'car', 'Ca_17831_v3' => 'car', 'Ca_19408_v3' => 'car', 'Ca_24397_v3' => 'car', 'Ca_25664_v3' => 'car', 'CBR_g21818' => 'cbr', 'CBR_g31195' => 'cbr', 'CBR_g32282' => 'cbr', 'CBR_g39599' => 'cbr', 'CBR_g49410' => 'cbr', 'Cc01_g09120' => 'ccan', 'Cc01_g09130' => 'ccan', 'Cc02_g09630' => 'ccan', 'Cc02_g22810' => 'ccan', 'Cc03_g03810' => 'ccan', 'CDE02G3718' => 'cde', 'CDE04G3183' => 'cde', 'CDE07G1046' => 'cde', 'CDE08G0480' => 'cde', 'Cfa005493' => 'cfa', 'Cfa010312' => 'cfa', 'Cfa015648' => 'cfa', 'Ciclev10002793m.g' => 'ccl', 'Ciclev10003356m.g' => 'ccl', 'Ciclev10006141m.g' => 'ccl', 'Ciclev10016676m.g' => 'ccl', 'Ciclev10017081m.g' => 'ccl', 'Ciclev10029499m.g' => 'ccl', 'CiPaw.01G166300' => 'cil', 'CiPaw.06G145600' => 'cil', 'CiPaw.13G040100' => 'cil', 'CiPaw.13G135800' => 'cil', 'ClCG01G012230' => 'cla', 'ClCG05G009510' => 'cla', 'ClCG08G008270' => 'cla', 'COL.COLO4_11763' => 'col', 'COL.COLO4_19876' => 'col', 'COL.COLO4_21481' => 'col', 'Cpa.g.sc118.34' => 'cpa', 'Cpa.g.sc32.13' => 'cpa', 'Cpa.g.sc58.103' => 'cpa', 'Cre03.g183850' => 'cre', 'Cre06.g306350' => 'cre', 'Cre07.g334800' => 'cre', 'Cre12.g487900' => 'cre', 'Cre14.g626700' => 'cre', 'Cre16.g658400' => 'cre', 'Cre17.g700950' => 'cre', 'CsaV3_1G014830' => 'csa', 'CsaV3_3G013320' => 'csa', 'CsaV3_3G019210' => 'csa', 'CsaV3_3G019220' => 'csa', 'CsaV3_6G004230' => 'csa', 'CSS0003773' => 'camsi', 'CSS0004563' => 'camsi', 'CSS0013949' => 'camsi', 'CSS0025971' => 'camsi', 'CSS0028570' => 'camsi', 'CSS0033127' => 'camsi', 'CSS0036051' => 'camsi', 'CSS0040087' => 'camsi', 'CSS0043179' => 'camsi', 'DCAR_006161' => 'dca', 'DCAR_010351' => 'dca', 'DCAR_012197' => 'dca', 'DCAR_024162' => 'dca', 'Dinv01030' => 'din', 'Dinv10924' => 'din', 'Dinv11835' => 'din', 'Dinv22841' => 'din', 'Dinv42553' => 'din', 'Duzib052G0560' => 'dzi', 'Duzib132G0389' => 'dzi', 'Duzib150G1181' => 'dzi', 'Duzib168G0623' => 'dzi', 'Duzib170G1036' => 'dzi', 'Duzib212G0200' => 'dzi', 'Duzib248G0194' => 'dzi', 'ECA232G2193' => 'eca', 'ECA233G0302' => 'eca', 'ECA234G2813' => 'eca', 'ECA234G4866' => 'eca', 'ECA240G3932' => 'eca', 'ECA248G0385' => 'eca', 'EL10Ac2g04781' => 'bvu', 'EL10Ac3g06445' => 'bvu', 'EL10Ac7g15825' => 'bvu', 'EL10Ac8g18550' => 'bvu', 'Eucgr.B03849' => 'egr', 'Eucgr.I02744' => 'egr', 'Eucgr.J00264' => 'egr', 'Eucgr.J00493' => 'egr', 'FAN04G2181' => 'fan', 'FAN07G2666' => 'fan', 'FAN11G0024' => 'fan', 'FAN12G1105' => 'fan', 'FAN13G0302' => 'fan', 'FAN15G2781' => 'fan', 'FAN16G1274' => 'fan', 'FAN17G2988' => 'fan', 'FAN18G2621' => 'fan', 'FAN21G0013' => 'fan', 'FAN22G1211' => 'fan', 'FAN25G3626' => 'fan', 'FvH4_2g09491' => 'fve', 'FvH4_3g24910' => 'fve', 'FvH4_4g15630' => 'fve', 'FvH4_5g28820' => 'fve', 'Glyma.01G238000' => 'gma', 'Glyma.05G168400' => 'gma', 'Glyma.08G126800' => 'gma', 'Glyma.08G188500' => 'gma', 'Glyma.10G278900' => 'gma', 'Glyma.11G005700' => 'gma', 'Glyma.11G183300' => 'gma', 'Glyma.12G089200' => 'gma', 'Glyma.12G169400' => 'gma', 'Glyma.12G169500' => 'gma', 'Glyma.12G169600' => 'gma', 'Glyma.20G110800' => 'gma', 'Gohir.A03G192900' => 'ghi', 'Gohir.A03G193000' => 'ghi', 'Gohir.A05G080700' => 'ghi', 'Gohir.A09G216000' => 'ghi', 'Gohir.A12G027700' => 'ghi', 'Gohir.A13G036200' => 'ghi', 'Gohir.A13G222600' => 'ghi', 'Gohir.D02G213900' => 'ghi', 'Gohir.D02G214000' => 'ghi', 'Gohir.D05G083700' => 'ghi', 'Gohir.D05G083800' => 'ghi', 'Gohir.D05G083850' => 'ghi', 'Gohir.D08G015400' => 'ghi', 'Gohir.D09G218400' => 'ghi', 'Gohir.D12G027100' => 'ghi', 'Gohir.D13G034500' => 'ghi', 'Gohir.D13G227400' => 'ghi', 'Gorai.005G241800' => 'gra', 'Gorai.005G241900' => 'gra', 'Gorai.006G239400' => 'gra', 'Gorai.008G027600' => 'gra', 'Gorai.009G085400' => 'gra', 'Gorai.009G085500' => 'gra', 'Gorai.013G039000' => 'gra', 'Gorai.013G194800' => 'gra', 'Gorai.013G257900' => 'gra', 'GSVIVG01000982001' => 'vvi', 'GSVIVG01017981001' => 'vvi', 'HanXRQChr01g0024061' => 'han', 'HanXRQChr09g0247831' => 'han', 'HanXRQChr10g0294611' => 'han', 'HanXRQChr10g0294621' => 'han', 'HanXRQChr11g0346821' => 'han', 'HanXRQChr13g0397461' => 'han', 'HanXRQChr16g0513651' => 'han', 'HanXRQChr16g0513701' => 'han', 'Haze_00897' => 'cav', 'Haze_01745' => 'cav', 'Haze_02486' => 'cav', 'Haze_02487' => 'cav', 'Haze_23374' => 'cav', 'Hma1.2p1_0578F.1_g182520' => 'hma', 'Hma1.2p1_0602F.1_g187350' => 'hma', 'Hma1.2p1_0602F.1_g187360' => 'hma', 'Hma1.2p1_0874F.1_g231320' => 'hma', 'Hma1.2p1_1197F.1_g266210' => 'hma', 'Hma1.2p1_1197F.1_g266220' => 'hma', 'Hma1.2p1_2167F.1_g315895' => 'hma', 'Hma1.2p1_2190F.1_g316640' => 'hma', 'Hma1.2p1_3645F.1_g337153' => 'hma', 'HPP92_004907' => 'vpl', 'HPP92_012134' => 'vpl', 'HPP92_025136' => 'vpl', 'HPP92_026087' => 'vpl', 'Hund06782' => 'sun', 'Hund06784' => 'sun', 'Lalb_Chr01g0004861' => 'lal', 'Lalb_Chr02g0140591' => 'lal', 'Lalb_Chr02g0140611' => 'lal', 'Lalb_Chr03g0028101' => 'lal', 'Lalb_Chr07g0185791' => 'lal', 'Lalb_Chr12g0204491' => 'lal', 'Lalb_Chr13g0295671' => 'lal', 'Lalb_Chr19g0136461' => 'lal', 'Lalb_Chr21g0309191' => 'lal', 'Lj1g0028158' => 'lja', 'Lj1P236T38' => 'lonja', 'Lj2C32G2' => 'lonja', 'Lj2P944T8' => 'lonja', 'Lj2P963T15' => 'lonja', 'Lj3g0011788' => 'lja', 'Lj4g0025027' => 'lja', 'Lj5P255T36' => 'lonja', 'Lj6g0018866' => 'lja', 'Lj6P608T31' => 'lonja', 'LjContig00408g0008879' => 'lja', 'Lsat_1_v5_gn_5_105820' => 'lsa', 'Lsat_1_v5_gn_6_38800' => 'lsa', 'Lsat_1_v5_gn_7_67141' => 'lsa', 'Manes.04G003400' => 'mes', 'Manes.07G020000' => 'mes', 'Manes.07G020100' => 'mes', 'Manes.07G020150' => 'mes', 'Manes.10G061500' => 'mes', 'Manes.10G123200' => 'mes', 'Manes.11G161900' => 'mes', 'Manes.15G029300' => 'mes', 'Mapoly0071s0018' => 'mpo', 'Mapoly0082s0023' => 'mpo', 'Mapoly3477s0001' => 'mpo', 'MBI05_g31233_MAGBIO' => 'mbi', 'MBI09_g05946_MAGBIO' => 'mbi', 'MBI09_g05947_MAGBIO' => 'mbi', 'MBI17_g08346_MAGBIO' => 'mbi', 'MCO04G038' => 'mco', 'MCO09G370' => 'mco', 'MCO13G605' => 'mco', 'MD00G1075500' => 'mdo', 'MD03G1144300' => 'mdo', 'MD08G1236800' => 'mdo', 'MD13G1193300' => 'mdo', 'MD15G1428700' => 'mdo', 'Medtr1g112030' => 'mtr', 'Medtr1g112050' => 'mtr', 'Medtr2g006290' => 'mtr', 'Medtr2g086510' => 'mtr', 'Medtr4g053120' => 'mtr', 'Medtr5g006320' => 'mtr', 'Medtr8g088720' => 'mtr', 'MELO3C004712.2' => 'cme', 'MELO3C006533.2' => 'cme', 'MELO3C019438.2' => 'cme', 'MELO3C019440.2' => 'cme', 'MELO3C019441.2' => 'cme', 'MELO3C019895.2' => 'cme', 'Migut.B00811' => 'egut', 'Migut.D02447' => 'egut', 'Migut.F00875' => 'egut', 'Migut.N00186' => 'egut', 'Migut.N01051' => 'egut', 'Migut.N02491' => 'egut', 'Migut.O00784' => 'egut', 'MSTRG.12367' => 'ama', 'MSTRG.18756' => 'ama', 'MSTRG.21042' => 'ama', 'Nitab4.5_0000559g0040' => 'nta', 'Nitab4.5_0000667g0190' => 'nta', 'Nitab4.5_0000755g0160' => 'nta', 'Nitab4.5_0001216g0080' => 'nta', 'Nitab4.5_0004069g0040' => 'nta', 'Nitab4.5_0004129g0010' => 'nta', 'Nitab4.5_0005744g0030' => 'nta', 'Nitab4.5_0006996g0030' => 'nta', 'Nitab4.5_0008971g0040' => 'nta', 'Nitab4.5_0009769g0020' => 'nta', 'Nitab4.5_0009833g0010' => 'nta', 'Nitab4.5_0013140g0020' => 'nta', 'Nn003s41376' => 'nnu', 'Nn1g01857' => 'nnu', 'Nn1g03611' => 'nnu', 'Nn1g06853' => 'nnu', 'Nn3g18360' => 'nnu', 'Nn4g26328' => 'nnu', 'Nn5g27531' => 'nnu', 'Nn6g34899' => 'nnu', 'Nn7g36299' => 'nnu', 'Oeu021485.1' => 'oeu', 'Oeu022433.1' => 'oeu', 'Oeu032111.1' => 'oeu', 'Oeu051608.1' => 'oeu', 'Os01g0860601' => 'osa', 'Os03g0659200' => 'osa', 'Os03g0835900' => 'osa', 'Os04g0412200' => 'osa', 'Os05g0443500' => 'osa', 'Os07g0251500' => 'osa', 'Os08g0104600' => 'osa', 'Peaxi162Scf00003g00047' => 'pax', 'Peaxi162Scf00003g00052' => 'pax', 'Peaxi162Scf00003g00394' => 'pax', 'Peaxi162Scf00091g00621' => 'pax', 'Peaxi162Scf00152g00146' => 'pax', 'Peaxi162Scf00173g00025' => 'pax', 'Peaxi162Scf00195g00102' => 'pax', 'Peaxi162Scf00402g00013' => 'pax', 'Peaxi162Scf00519g00618' => 'pax', 'PGR004G2838' => 'pgr', 'PGR044G2275' => 'pgr', 'PGR102G1377' => 'pgr', 'PGR119G1245' => 'pgr', 'PGR142G4449' => 'pgr', 'PGSC0003DMG400004532' => 'stu', 'PGSC0003DMG400011950' => 'stu', 'PGSC0003DMG400023391' => 'stu', 'PGSC0003DMG400023985' => 'stu', 'PGSC0003DMG400026360' => 'stu', 'PGSC0003DMG400035711' => 'stu', 'PGSC0003DMG400037286' => 'stu', 'PGSC0003DMG402005881' => 'stu', 'Phvul.002G045400' => 'pvu', 'Phvul.006G216600' => 'pvu', 'Phvul.006G216700' => 'pvu', 'Phvul.006G216800' => 'pvu', 'Phvul.007G022500' => 'pvu', 'Phvul.011G094400' => 'pvu', 'Potri.001G470700' => 'ptr', 'Potri.003G015200' => 'ptr', 'Potri.004G202500' => 'ptr', 'Potri.004G218400' => 'ptr', 'Potri.008G020100' => 'ptr', 'Potri.008G153200' => 'ptr', 'Potri.009G163800' => 'ptr', 'Potri.010G087300' => 'ptr', 'Potri.010G239100' => 'ptr', 'Pp3c10_16100' => 'ppa', 'Pp3c10_16880' => 'ppa', 'Pp3c16_6230' => 'ppa', 'Pp3c17_18910' => 'ppa', 'Pp3c3_22119' => 'ppa', 'Pp3c3_22140' => 'ppa', 'Pp3c4_8159' => 'ppa', 'Pp3c4_8171' => 'ppa', 'Pp3c4_8330' => 'ppa', 'PRCOL_00004098' => 'pco', 'Prupe.1G013900' => 'ppe', 'Prupe.1G226300' => 'ppe', 'Prupe.1G573600' => 'ppe', 'Prupe.6G130100' => 'ppe', 'Psat3g090040' => 'psa', 'Psat4g210440' => 'psa', 'Psat6g231040' => 'psa', 'Psat6g231080' => 'psa', 'Psat7g063000' => 'psa', 'Psat7g188000' => 'psa', 'Psat7g188040' => 'psa', 'PSO017G0206' => 'pso', 'PSO170G0501' => 'pso', 'PSO170G6422' => 'pso', 'PSO210G7739' => 'pso', 'PSO339G1808' => 'pso', 'PSO339G6135' => 'pso', 'PSO384G0010' => 'pso', 'PSO384G0964' => 'pso', 'PSO761G0050' => 'pso', 'PSO782G4085' => 'pso', 'QL01p012264' => 'qlo', 'QL02p099491' => 'qlo', 'QL03p033868' => 'qlo', 'QL04p046678' => 'qlo', 'QL06p002448' => 'qlo', 'RcHm_v2.0_Chr4g0416181' => 'rch', 'RcHm_v2.0_Chr5g0044701' => 'rch', 'RcHm_v2.0_Chr6g0265781' => 'rch', 'RcHm_v2.0_Chr7g0221031' => 'rch', 'Rhsim04G0202000' => 'rsi', 'Rhsim11G0127300' => 'rsi', 'Rhsim13G0111800' => 'rsi', 'Sabra01G0165600' => 'sbr', 'Sabra03G0008300' => 'sbr', 'Sabra04G0136900' => 'sbr', 'Sabra08G0013400' => 'sbr', 'Sabra08G0116800' => 'sbr', 'Sabra09G0128000' => 'sbr', 'Sabra10G0055500' => 'sbr', 'Sabra10G0073300' => 'sbr', 'SalBow3G0385' => 'sbo', 'SalBow3G1119' => 'sbo', 'SalBow3G2005' => 'sbo', 'SalBow6G2563' => 'sbo', 'SalBow6G6386' => 'sbo', 'Sc06g0008800' => 'sci', 'Sc07g0004950' => 'sci', 'Sc09g0005340' => 'sci', 'Sc13g0004410' => 'sci', 'Sc21g0007090' => 'sci', 'Sed0009285' => 'sed', 'Sed0017583' => 'sed', 'Sed0019699' => 'sed', 'Sed0023107' => 'sed', 'SEGI_10916' => 'sgi', 'SEGI_16217' => 'sgi', 'SEGI_19466' => 'sgi', 'SEGI_41115' => 'sgi', 'SGA_v2.0_scaffold111G31534' => 'sas', 'SGA_v2.0_scaffold22G09864' => 'sas', 'SGA_v2.0_scaffold338G49219' => 'sas', 'SGA_v2.0_scaffold92G28298' => 'sas', 'SMO119G0064' => 'smo', 'SMO223G0038' => 'smo', 'SMO347G0584' => 'smo', 'SMO351G0010' => 'smo', 'SMO356G0404' => 'smo', 'Solyc01g103920.3' => 'sly', 'Solyc04g009710.2' => 'sly', 'Solyc05g055280.2' => 'sly', 'Solyc10g044520.3' => 'sly', 'Solyc10g075160.1' => 'sly', 'Solyc11g006910.3' => 'sly', 'Solyc11g068430.3' => 'sly', 'Sopen01g046310' => 'spe', 'Sopen03g001200' => 'spe', 'Sopen04g004830' => 'spe', 'Sopen05g033720' => 'spe', 'Sopen06g030740' => 'spe', 'Sopen10g013090' => 'spe', 'Sopen10g027630' => 'spe', 'Sopen10g027640' => 'spe', 'Sopen11g002820' => 'spe', 'Sopen11g027140' => 'spe', 'Sp1g09680' => 'spa', 'Sp2g03630' => 'spa', 'Sp4g10320' => 'spa', 'Sp6g33400' => 'spa', 'Sp7g13030' => 'spa', 'TAR365G0317' => 'tar', 'TAR376G0979' => 'tar', 'TAR623G1665' => 'tar', 'TAR633G2373' => 'tar', 'TAR636G1400' => 'tar', 'THA.LOC104800529' => 'tha', 'THA.LOC104808547' => 'tha', 'THA.LOC104809615' => 'tha', 'THA.LOC104815724' => 'tha', 'THA.LOC104818480' => 'tha', 'THA.LOC104819179' => 'tha', 'THA.LOC104822270' => 'tha', 'THA.LOC104826425' => 'tha', 'Thecc.02G089700' => 'tca', 'Thecc.04G232300' => 'tca', 'Thecc.09G283400' => 'tca', 'Thhalv10009020m.g' => 'esa', 'Thhalv10015506m.g' => 'esa', 'Thhalv10017364m.g' => 'esa', 'Thhalv10023742m.g' => 'esa', 'Thhalv10026483m.g' => 'esa', 'TPR.G17232' => 'tpr', 'TPR.G2133' => 'tpr', 'TPR.G2498' => 'tpr', 'TPR.G31942' => 'tpr', 'TPR.G37877' => 'tpr', 'TPR.G4571' => 'tpr', 'TWI14G1113' => 'twi', 'TWI15G0426' => 'twi', 'TWI31G1005' => 'twi', 'TWI38G0513' => 'twi', 'TWI38G1484' => 'twi', 'TWI73G1098' => 'twi', 'unitig_26.g10519' => 'ugi', 'unitig_736.g22395' => 'ugi', 'unitig_747.g21234' => 'ugi', 'unitig_747.g21942' => 'ugi', 'vmacro14351' => 'vma', 'VMungo0540G0082' => 'vmu', 'VMungo0540G0405' => 'vmu', 'VMungo0540G1486' => 'vmu', 'VMungo0540G1692' => 'vmu', 'VMungo0720G2473' => 'vmu', 'VMungo1127G1562' => 'vmu', 'VMungo1215G1918' => 'vmu', 'Zm00001eb052650' => 'zma', 'Zm00001eb063710' => 'zma', 'Zm00001eb083950' => 'zma', 'Zm00001eb174420' => 'zma', 'Zm00001eb260140' => 'zma', 'Zm00001eb260150' => 'zma', 'Zm00001eb260160' => 'zma', 'Zm00001eb348290' => 'zma', 'Zm00001eb366870' => 'zma', 'Zm00001eb421930' => 'zma' ), 'gf_id' => 'HOM05D001025', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001025' ), 'data_identifier' => 'HOM05D001025', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001025', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '592', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p22650' => 'bna', 'A01p29720' => 'bna', 'A03p26560' => 'bna', 'A03p68820' => 'bna', 'A04p20980' => 'bna', 'A06p07730' => 'bna', 'A07p18260' => 'bna', 'A08p33710' => 'bna', 'A09p16970' => 'bna', 'A10p27490' => 'bna', 'Aa31LG1G17300' => 'aar', 'Aa31LG1G3910' => 'aar', 'Aa31LG2G9630' => 'aar', 'Aa31LG5G8360' => 'aar', 'Aa31LG9G2410' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4699' => 'aag', 'Actinidia23512' => 'ach', 'Actinidia37080' => 'ach', 'Ah.01g020380' => 'amhyb', 'Ah.08g215710' => 'amhyb', 'Ah.09g225110' => 'amhyb', 'Ah.10g036680' => 'amhyb', 'AL1G21940' => 'aly', 'AL2G15540' => 'aly', 'AL4G21520' => 'aly', 'AL7G40960' => 'aly', 'Aqoxy2G01191' => 'aox', 'Aqoxy2G03393' => 'aox', 'Aqoxy4G02775' => 'aox', 'Aqoxy6G00058' => 'aox', 'arahy.Tifrunner.gnm1.ann1.9X74H2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CW3FX9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R485W7' => 'arhy', 'AT1G10960' => 'ath', 'AT1G60950' => 'ath', 'AT2G27510' => 'ath', 'AT4G14890' => 'ath', 'AT5G10000' => 'ath', 'ATR0665G624' => 'atr', 'ATR0697G138' => 'atr', 'ATR0776G046' => 'atr', 'ATR1134G135' => 'atr', 'Atru.chr12.1025' => 'acertr', 'Atru.chr3.3241' => 'acertr', 'Atru.chr4.2460' => 'acertr', 'AUR62007427' => 'cqu', 'AUR62010960' => 'cqu', 'AUR62012201' => 'cqu', 'AUR62021470' => 'cqu', 'AUR62022834' => 'cqu', 'AUR62033635' => 'cqu', 'AUR62036186' => 'cqu', 'BcaB01g03077' => 'bca', 'BcaB02g10093' => 'bca', 'BcaB04g20295' => 'bca', 'BcaB06g28147' => 'bca', 'BcaB07g31253' => 'bca', 'BcaC01g04946' => 'bca', 'BcaC02g10614' => 'bca', 'BcaC02g10885' => 'bca', 'BcaC04g19356' => 'bca', 'BcaC04g22297' => 'bca', 'BcaC05g24977' => 'bca', 'BcaC06g31823' => 'bca', 'BcaC07g38633' => 'bca', 'BcaC09g49353' => 'bca', 'BcaC09g50168' => 'bca', 'BcaNung00322' => 'bca', 'BcaNung04769' => 'bca', 'BolC1t02753H' => 'bol', 'BolC1t03721H' => 'bol', 'BolC3t15525H' => 'bol', 'BolC4t23903H' => 'bol', 'BolC4t24231H' => 'bol', 'BolC4t27209H' => 'bol', 'BolC5t29671H' => 'bol', 'BolC8t49044H' => 'bol', 'BolC9t54999H' => 'bol', 'BolC9t59517H' => 'bol', 'BraA01t02178Z' => 'bra', 'BraA01t03099Z' => 'bra', 'BraA03t11867Z' => 'bra', 'BraA04t17667Z' => 'bra', 'BraA07t29542Z' => 'bra', 'BraA08t35287Z' => 'bra', 'BraA09t37334Z' => 'bra', 'BraA10t44801Z' => 'bra', 'BraSC39t46181Z' => 'bra', 'C01p28240' => 'bna', 'C01p37530' => 'bna', 'C03p31820' => 'bna', 'C04p24080' => 'bna', 'C04p25790' => 'bna', 'C04p56770' => 'bna', 'C05p09310' => 'bna', 'C09p21010' => 'bna', 'C09p67560' => 'bna', 'CAN.G1324.7' => 'can', 'CAN.G1358.10' => 'can', 'CAN.G1550.2' => 'can', 'CAN.G186.56' => 'can', 'CAN.G1965.1' => 'can', 'CAN.G645.15' => 'can', 'CAN.G798.26' => 'can', 'CAN.G798.27' => 'can', 'CAN.G798.29' => 'can', 'CAN.G919.31' => 'can', 'CANSAT11G0133' => 'cansat', 'CANSAT11G1171' => 'cansat', 'CANSAT11G2056' => 'cansat', 'CANSAT56G1202' => 'cansat', 'CANSAT56G1514' => 'cansat', 'CANSAT78G0455' => 'cansat', 'CARHR011190' => 'chi', 'CARHR051980' => 'chi', 'CARHR120170' => 'chi', 'CARHR203310' => 'chi', 'CARHR221490' => 'chi', 'Carub.0001s1054' => 'cru', 'Carub.0002s0431' => 'cru', 'Carub.0004s0818' => 'cru', 'Carub.0006s0846' => 'cru', 'Carub.0007s2722' => 'cru', 'Ca_00058_v3' => 'car', 'Ca_17831_v3' => 'car', 'Ca_19408_v3' => 'car', 'Ca_24397_v3' => 'car', 'Ca_25664_v3' => 'car', 'CBR_g21818' => 'cbr', 'CBR_g31195' => 'cbr', 'CBR_g32282' => 'cbr', 'CBR_g39599' => 'cbr', 'CBR_g49410' => 'cbr', 'Cc01_g09120' => 'ccan', 'Cc01_g09130' => 'ccan', 'Cc02_g09630' => 'ccan', 'Cc02_g22810' => 'ccan', 'Cc03_g03810' => 'ccan', 'CDE02G3718' => 'cde', 'CDE04G3183' => 'cde', 'CDE07G1046' => 'cde', 'CDE08G0480' => 'cde', 'Cfa005493' => 'cfa', 'Cfa010312' => 'cfa', 'Cfa015648' => 'cfa', 'Ciclev10002793m.g' => 'ccl', 'Ciclev10003356m.g' => 'ccl', 'Ciclev10006141m.g' => 'ccl', 'Ciclev10016676m.g' => 'ccl', 'Ciclev10017081m.g' => 'ccl', 'Ciclev10029499m.g' => 'ccl', 'CiPaw.01G166300' => 'cil', 'CiPaw.06G145600' => 'cil', 'CiPaw.13G040100' => 'cil', 'CiPaw.13G135800' => 'cil', 'ClCG01G012230' => 'cla', 'ClCG05G009510' => 'cla', 'ClCG08G008270' => 'cla', 'COL.COLO4_11763' => 'col', 'COL.COLO4_19876' => 'col', 'COL.COLO4_21481' => 'col', 'Cpa.g.sc118.34' => 'cpa', 'Cpa.g.sc32.13' => 'cpa', 'Cpa.g.sc58.103' => 'cpa', 'Cre03.g183850' => 'cre', 'Cre06.g306350' => 'cre', 'Cre07.g334800' => 'cre', 'Cre12.g487900' => 'cre', 'Cre14.g626700' => 'cre', 'Cre16.g658400' => 'cre', 'Cre17.g700950' => 'cre', 'CsaV3_1G014830' => 'csa', 'CsaV3_3G013320' => 'csa', 'CsaV3_3G019210' => 'csa', 'CsaV3_3G019220' => 'csa', 'CsaV3_6G004230' => 'csa', 'CSS0003773' => 'camsi', 'CSS0004563' => 'camsi', 'CSS0013949' => 'camsi', 'CSS0025971' => 'camsi', 'CSS0028570' => 'camsi', 'CSS0033127' => 'camsi', 'CSS0036051' => 'camsi', 'CSS0040087' => 'camsi', 'CSS0043179' => 'camsi', 'DCAR_006161' => 'dca', 'DCAR_010351' => 'dca', 'DCAR_012197' => 'dca', 'DCAR_024162' => 'dca', 'Dinv01030' => 'din', 'Dinv10924' => 'din', 'Dinv11835' => 'din', 'Dinv22841' => 'din', 'Dinv42553' => 'din', 'Duzib052G0560' => 'dzi', 'Duzib132G0389' => 'dzi', 'Duzib150G1181' => 'dzi', 'Duzib168G0623' => 'dzi', 'Duzib170G1036' => 'dzi', 'Duzib212G0200' => 'dzi', 'Duzib248G0194' => 'dzi', 'ECA232G2193' => 'eca', 'ECA233G0302' => 'eca', 'ECA234G2813' => 'eca', 'ECA234G4866' => 'eca', 'ECA240G3932' => 'eca', 'ECA248G0385' => 'eca', 'EL10Ac2g04781' => 'bvu', 'EL10Ac3g06445' => 'bvu', 'EL10Ac7g15825' => 'bvu', 'EL10Ac8g18550' => 'bvu', 'Eucgr.B03849' => 'egr', 'Eucgr.I02744' => 'egr', 'Eucgr.J00264' => 'egr', 'Eucgr.J00493' => 'egr', 'FAN04G2181' => 'fan', 'FAN07G2666' => 'fan', 'FAN11G0024' => 'fan', 'FAN12G1105' => 'fan', 'FAN13G0302' => 'fan', 'FAN15G2781' => 'fan', 'FAN16G1274' => 'fan', 'FAN17G2988' => 'fan', 'FAN18G2621' => 'fan', 'FAN21G0013' => 'fan', 'FAN22G1211' => 'fan', 'FAN25G3626' => 'fan', 'FvH4_2g09491' => 'fve', 'FvH4_3g24910' => 'fve', 'FvH4_4g15630' => 'fve', 'FvH4_5g28820' => 'fve', 'Glyma.01G238000' => 'gma', 'Glyma.05G168400' => 'gma', 'Glyma.08G126800' => 'gma', 'Glyma.08G188500' => 'gma', 'Glyma.10G278900' => 'gma', 'Glyma.11G005700' => 'gma', 'Glyma.11G183300' => 'gma', 'Glyma.12G089200' => 'gma', 'Glyma.12G169400' => 'gma', 'Glyma.12G169500' => 'gma', 'Glyma.12G169600' => 'gma', 'Glyma.20G110800' => 'gma', 'Gohir.A03G192900' => 'ghi', 'Gohir.A03G193000' => 'ghi', 'Gohir.A05G080700' => 'ghi', 'Gohir.A09G216000' => 'ghi', 'Gohir.A12G027700' => 'ghi', 'Gohir.A13G036200' => 'ghi', 'Gohir.A13G222600' => 'ghi', 'Gohir.D02G213900' => 'ghi', 'Gohir.D02G214000' => 'ghi', 'Gohir.D05G083700' => 'ghi', 'Gohir.D05G083800' => 'ghi', 'Gohir.D05G083850' => 'ghi', 'Gohir.D08G015400' => 'ghi', 'Gohir.D09G218400' => 'ghi', 'Gohir.D12G027100' => 'ghi', 'Gohir.D13G034500' => 'ghi', 'Gohir.D13G227400' => 'ghi', 'Gorai.005G241800' => 'gra', 'Gorai.005G241900' => 'gra', 'Gorai.006G239400' => 'gra', 'Gorai.008G027600' => 'gra', 'Gorai.009G085400' => 'gra', 'Gorai.009G085500' => 'gra', 'Gorai.013G039000' => 'gra', 'Gorai.013G194800' => 'gra', 'Gorai.013G257900' => 'gra', 'GSVIVG01000982001' => 'vvi', 'GSVIVG01017981001' => 'vvi', 'HanXRQChr01g0024061' => 'han', 'HanXRQChr09g0247831' => 'han', 'HanXRQChr10g0294611' => 'han', 'HanXRQChr10g0294621' => 'han', 'HanXRQChr11g0346821' => 'han', 'HanXRQChr13g0397461' => 'han', 'HanXRQChr16g0513651' => 'han', 'HanXRQChr16g0513701' => 'han', 'Haze_00897' => 'cav', 'Haze_01745' => 'cav', 'Haze_02486' => 'cav', 'Haze_02487' => 'cav', 'Haze_23374' => 'cav', 'Hma1.2p1_0578F.1_g182520' => 'hma', 'Hma1.2p1_0602F.1_g187350' => 'hma', 'Hma1.2p1_0602F.1_g187360' => 'hma', 'Hma1.2p1_0874F.1_g231320' => 'hma', 'Hma1.2p1_1197F.1_g266210' => 'hma', 'Hma1.2p1_1197F.1_g266220' => 'hma', 'Hma1.2p1_2167F.1_g315895' => 'hma', 'Hma1.2p1_2190F.1_g316640' => 'hma', 'Hma1.2p1_3645F.1_g337153' => 'hma', 'HPP92_004907' => 'vpl', 'HPP92_012134' => 'vpl', 'HPP92_025136' => 'vpl', 'HPP92_026087' => 'vpl', 'Hund06782' => 'sun', 'Hund06784' => 'sun', 'Lalb_Chr01g0004861' => 'lal', 'Lalb_Chr02g0140591' => 'lal', 'Lalb_Chr02g0140611' => 'lal', 'Lalb_Chr03g0028101' => 'lal', 'Lalb_Chr07g0185791' => 'lal', 'Lalb_Chr12g0204491' => 'lal', 'Lalb_Chr13g0295671' => 'lal', 'Lalb_Chr19g0136461' => 'lal', 'Lalb_Chr21g0309191' => 'lal', 'Lj1g0028158' => 'lja', 'Lj1P236T38' => 'lonja', 'Lj2C32G2' => 'lonja', 'Lj2P944T8' => 'lonja', 'Lj2P963T15' => 'lonja', 'Lj3g0011788' => 'lja', 'Lj4g0025027' => 'lja', 'Lj5P255T36' => 'lonja', 'Lj6g0018866' => 'lja', 'Lj6P608T31' => 'lonja', 'LjContig00408g0008879' => 'lja', 'Lsat_1_v5_gn_5_105820' => 'lsa', 'Lsat_1_v5_gn_6_38800' => 'lsa', 'Lsat_1_v5_gn_7_67141' => 'lsa', 'Manes.04G003400' => 'mes', 'Manes.07G020000' => 'mes', 'Manes.07G020100' => 'mes', 'Manes.07G020150' => 'mes', 'Manes.10G061500' => 'mes', 'Manes.10G123200' => 'mes', 'Manes.11G161900' => 'mes', 'Manes.15G029300' => 'mes', 'Mapoly0071s0018' => 'mpo', 'Mapoly0082s0023' => 'mpo', 'Mapoly3477s0001' => 'mpo', 'MBI05_g31233_MAGBIO' => 'mbi', 'MBI09_g05946_MAGBIO' => 'mbi', 'MBI09_g05947_MAGBIO' => 'mbi', 'MBI17_g08346_MAGBIO' => 'mbi', 'MCO04G038' => 'mco', 'MCO09G370' => 'mco', 'MCO13G605' => 'mco', 'MD00G1075500' => 'mdo', 'MD03G1144300' => 'mdo', 'MD08G1236800' => 'mdo', 'MD13G1193300' => 'mdo', 'MD15G1428700' => 'mdo', 'Medtr1g112030' => 'mtr', 'Medtr1g112050' => 'mtr', 'Medtr2g006290' => 'mtr', 'Medtr2g086510' => 'mtr', 'Medtr4g053120' => 'mtr', 'Medtr5g006320' => 'mtr', 'Medtr8g088720' => 'mtr', 'MELO3C004712.2' => 'cme', 'MELO3C006533.2' => 'cme', 'MELO3C019438.2' => 'cme', 'MELO3C019440.2' => 'cme', 'MELO3C019441.2' => 'cme', 'MELO3C019895.2' => 'cme', 'Migut.B00811' => 'egut', 'Migut.D02447' => 'egut', 'Migut.F00875' => 'egut', 'Migut.N00186' => 'egut', 'Migut.N01051' => 'egut', 'Migut.N02491' => 'egut', 'Migut.O00784' => 'egut', 'MSTRG.12367' => 'ama', 'MSTRG.18756' => 'ama', 'MSTRG.21042' => 'ama', 'Nitab4.5_0000559g0040' => 'nta', 'Nitab4.5_0000667g0190' => 'nta', 'Nitab4.5_0000755g0160' => 'nta', 'Nitab4.5_0001216g0080' => 'nta', 'Nitab4.5_0004069g0040' => 'nta', 'Nitab4.5_0004129g0010' => 'nta', 'Nitab4.5_0005744g0030' => 'nta', 'Nitab4.5_0006996g0030' => 'nta', 'Nitab4.5_0008971g0040' => 'nta', 'Nitab4.5_0009769g0020' => 'nta', 'Nitab4.5_0009833g0010' => 'nta', 'Nitab4.5_0013140g0020' => 'nta', 'Nn003s41376' => 'nnu', 'Nn1g01857' => 'nnu', 'Nn1g03611' => 'nnu', 'Nn1g06853' => 'nnu', 'Nn3g18360' => 'nnu', 'Nn4g26328' => 'nnu', 'Nn5g27531' => 'nnu', 'Nn6g34899' => 'nnu', 'Nn7g36299' => 'nnu', 'Oeu021485.1' => 'oeu', 'Oeu022433.1' => 'oeu', 'Oeu032111.1' => 'oeu', 'Oeu051608.1' => 'oeu', 'Os01g0860601' => 'osa', 'Os03g0659200' => 'osa', 'Os03g0835900' => 'osa', 'Os04g0412200' => 'osa', 'Os05g0443500' => 'osa', 'Os07g0251500' => 'osa', 'Os08g0104600' => 'osa', 'Peaxi162Scf00003g00047' => 'pax', 'Peaxi162Scf00003g00052' => 'pax', 'Peaxi162Scf00003g00394' => 'pax', 'Peaxi162Scf00091g00621' => 'pax', 'Peaxi162Scf00152g00146' => 'pax', 'Peaxi162Scf00173g00025' => 'pax', 'Peaxi162Scf00195g00102' => 'pax', 'Peaxi162Scf00402g00013' => 'pax', 'Peaxi162Scf00519g00618' => 'pax', 'PGR004G2838' => 'pgr', 'PGR044G2275' => 'pgr', 'PGR102G1377' => 'pgr', 'PGR119G1245' => 'pgr', 'PGR142G4449' => 'pgr', 'PGSC0003DMG400004532' => 'stu', 'PGSC0003DMG400011950' => 'stu', 'PGSC0003DMG400023391' => 'stu', 'PGSC0003DMG400023985' => 'stu', 'PGSC0003DMG400026360' => 'stu', 'PGSC0003DMG400035711' => 'stu', 'PGSC0003DMG400037286' => 'stu', 'PGSC0003DMG402005881' => 'stu', 'Phvul.002G045400' => 'pvu', 'Phvul.006G216600' => 'pvu', 'Phvul.006G216700' => 'pvu', 'Phvul.006G216800' => 'pvu', 'Phvul.007G022500' => 'pvu', 'Phvul.011G094400' => 'pvu', 'Potri.001G470700' => 'ptr', 'Potri.003G015200' => 'ptr', 'Potri.004G202500' => 'ptr', 'Potri.004G218400' => 'ptr', 'Potri.008G020100' => 'ptr', 'Potri.008G153200' => 'ptr', 'Potri.009G163800' => 'ptr', 'Potri.010G087300' => 'ptr', 'Potri.010G239100' => 'ptr', 'Pp3c10_16100' => 'ppa', 'Pp3c10_16880' => 'ppa', 'Pp3c16_6230' => 'ppa', 'Pp3c17_18910' => 'ppa', 'Pp3c3_22119' => 'ppa', 'Pp3c3_22140' => 'ppa', 'Pp3c4_8159' => 'ppa', 'Pp3c4_8171' => 'ppa', 'Pp3c4_8330' => 'ppa', 'PRCOL_00004098' => 'pco', 'Prupe.1G013900' => 'ppe', 'Prupe.1G226300' => 'ppe', 'Prupe.1G573600' => 'ppe', 'Prupe.6G130100' => 'ppe', 'Psat3g090040' => 'psa', 'Psat4g210440' => 'psa', 'Psat6g231040' => 'psa', 'Psat6g231080' => 'psa', 'Psat7g063000' => 'psa', 'Psat7g188000' => 'psa', 'Psat7g188040' => 'psa', 'PSO017G0206' => 'pso', 'PSO170G0501' => 'pso', 'PSO170G6422' => 'pso', 'PSO210G7739' => 'pso', 'PSO339G1808' => 'pso', 'PSO339G6135' => 'pso', 'PSO384G0010' => 'pso', 'PSO384G0964' => 'pso', 'PSO761G0050' => 'pso', 'PSO782G4085' => 'pso', 'QL01p012264' => 'qlo', 'QL02p099491' => 'qlo', 'QL03p033868' => 'qlo', 'QL04p046678' => 'qlo', 'QL06p002448' => 'qlo', 'RcHm_v2.0_Chr4g0416181' => 'rch', 'RcHm_v2.0_Chr5g0044701' => 'rch', 'RcHm_v2.0_Chr6g0265781' => 'rch', 'RcHm_v2.0_Chr7g0221031' => 'rch', 'Rhsim04G0202000' => 'rsi', 'Rhsim11G0127300' => 'rsi', 'Rhsim13G0111800' => 'rsi', 'Sabra01G0165600' => 'sbr', 'Sabra03G0008300' => 'sbr', 'Sabra04G0136900' => 'sbr', 'Sabra08G0013400' => 'sbr', 'Sabra08G0116800' => 'sbr', 'Sabra09G0128000' => 'sbr', 'Sabra10G0055500' => 'sbr', 'Sabra10G0073300' => 'sbr', 'SalBow3G0385' => 'sbo', 'SalBow3G1119' => 'sbo', 'SalBow3G2005' => 'sbo', 'SalBow6G2563' => 'sbo', 'SalBow6G6386' => 'sbo', 'Sc06g0008800' => 'sci', 'Sc07g0004950' => 'sci', 'Sc09g0005340' => 'sci', 'Sc13g0004410' => 'sci', 'Sc21g0007090' => 'sci', 'Sed0009285' => 'sed', 'Sed0017583' => 'sed', 'Sed0019699' => 'sed', 'Sed0023107' => 'sed', 'SEGI_10916' => 'sgi', 'SEGI_16217' => 'sgi', 'SEGI_19466' => 'sgi', 'SEGI_41115' => 'sgi', 'SGA_v2.0_scaffold111G31534' => 'sas', 'SGA_v2.0_scaffold22G09864' => 'sas', 'SGA_v2.0_scaffold338G49219' => 'sas', 'SGA_v2.0_scaffold92G28298' => 'sas', 'SMO119G0064' => 'smo', 'SMO223G0038' => 'smo', 'SMO347G0584' => 'smo', 'SMO351G0010' => 'smo', 'SMO356G0404' => 'smo', 'Solyc01g103920.3' => 'sly', 'Solyc04g009710.2' => 'sly', 'Solyc05g055280.2' => 'sly', 'Solyc10g044520.3' => 'sly', 'Solyc10g075160.1' => 'sly', 'Solyc11g006910.3' => 'sly', 'Solyc11g068430.3' => 'sly', 'Sopen01g046310' => 'spe', 'Sopen03g001200' => 'spe', 'Sopen04g004830' => 'spe', 'Sopen05g033720' => 'spe', 'Sopen06g030740' => 'spe', 'Sopen10g013090' => 'spe', 'Sopen10g027630' => 'spe', 'Sopen10g027640' => 'spe', 'Sopen11g002820' => 'spe', 'Sopen11g027140' => 'spe', 'Sp1g09680' => 'spa', 'Sp2g03630' => 'spa', 'Sp4g10320' => 'spa', 'Sp6g33400' => 'spa', 'Sp7g13030' => 'spa', 'TAR365G0317' => 'tar', 'TAR376G0979' => 'tar', 'TAR623G1665' => 'tar', 'TAR633G2373' => 'tar', 'TAR636G1400' => 'tar', 'THA.LOC104800529' => 'tha', 'THA.LOC104808547' => 'tha', 'THA.LOC104809615' => 'tha', 'THA.LOC104815724' => 'tha', 'THA.LOC104818480' => 'tha', 'THA.LOC104819179' => 'tha', 'THA.LOC104822270' => 'tha', 'THA.LOC104826425' => 'tha', 'Thecc.02G089700' => 'tca', 'Thecc.04G232300' => 'tca', 'Thecc.09G283400' => 'tca', 'Thhalv10009020m.g' => 'esa', 'Thhalv10015506m.g' => 'esa', 'Thhalv10017364m.g' => 'esa', 'Thhalv10023742m.g' => 'esa', 'Thhalv10026483m.g' => 'esa', 'TPR.G17232' => 'tpr', 'TPR.G2133' => 'tpr', 'TPR.G2498' => 'tpr', 'TPR.G31942' => 'tpr', 'TPR.G37877' => 'tpr', 'TPR.G4571' => 'tpr', 'TWI14G1113' => 'twi', 'TWI15G0426' => 'twi', 'TWI31G1005' => 'twi', 'TWI38G0513' => 'twi', 'TWI38G1484' => 'twi', 'TWI73G1098' => 'twi', 'unitig_26.g10519' => 'ugi', 'unitig_736.g22395' => 'ugi', 'unitig_747.g21234' => 'ugi', 'unitig_747.g21942' => 'ugi', 'vmacro14351' => 'vma', 'VMungo0540G0082' => 'vmu', 'VMungo0540G0405' => 'vmu', 'VMungo0540G1486' => 'vmu', 'VMungo0540G1692' => 'vmu', 'VMungo0720G2473' => 'vmu', 'VMungo1127G1562' => 'vmu', 'VMungo1215G1918' => 'vmu', 'Zm00001eb052650' => 'zma', 'Zm00001eb063710' => 'zma', 'Zm00001eb083950' => 'zma', 'Zm00001eb174420' => 'zma', 'Zm00001eb260140' => 'zma', 'Zm00001eb260150' => 'zma', 'Zm00001eb260160' => 'zma', 'Zm00001eb348290' => 'zma', 'Zm00001eb366870' => 'zma', 'Zm00001eb421930' => 'zma' ) $gf_id = 'HOM05D001025' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001025' ) $data_identifier = 'HOM05D001025' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 19, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 2, 'amhyb' => (int) 4, 'aly' => (int) 4, 'aox' => (int) 4, 'arhy' => (int) 3, 'ath' => (int) 5, 'atr' => (int) 4, 'acertr' => (int) 3, 'cqu' => (int) 7, 'bca' => (int) 17, 'bol' => (int) 10, 'bra' => (int) 9, 'can' => (int) 10, 'cansat' => (int) 6, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 5, 'cbr' => (int) 5, 'ccan' => (int) 5, 'cde' => (int) 4, 'cfa' => (int) 3, 'ccl' => (int) 6, 'cil' => (int) 4, 'cla' => (int) 3, 'col' => (int) 3, 'cpa' => (int) 3, 'cre' => (int) 7, 'csa' => (int) 5, 'camsi' => (int) 9, 'dca' => (int) 4, 'din' => (int) 5, 'dzi' => (int) 7, 'eca' => (int) 6, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 12, 'fve' => (int) 4, 'gma' => (int) 12, 'ghi' => (int) 17, 'gra' => (int) 9, 'vvi' => (int) 2, 'han' => (int) 8, 'cav' => (int) 5, 'hma' => (int) 9, 'vpl' => (int) 4, 'sun' => (int) 2, 'lal' => (int) 9, 'lja' => (int) 5, 'lonja' => (int) 6, 'lsa' => (int) 3, 'mes' => (int) 8, 'mpo' => (int) 3, 'mbi' => (int) 4, 'mco' => (int) 3, 'mdo' => (int) 5, 'mtr' => (int) 7, 'cme' => (int) 6, 'egut' => (int) 7, 'ama' => (int) 3, 'nta' => (int) 12, 'nnu' => (int) 9, 'oeu' => (int) 4, 'osa' => (int) 7, 'pax' => (int) 9, 'pgr' => (int) 5, 'stu' => (int) 8, 'pvu' => (int) 6, 'ptr' => (int) 9, 'ppa' => (int) 9, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 7, 'pso' => (int) 10, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 3, 'sbr' => (int) 8, 'sbo' => (int) 5, 'sci' => (int) 5, 'sed' => (int) 4, 'sgi' => (int) 4, 'sas' => (int) 4, 'smo' => (int) 5, 'sly' => (int) 7, 'spe' => (int) 10, 'spa' => (int) 5, 'tar' => (int) 5, 'tha' => (int) 8, 'tca' => (int) 3, 'esa' => (int) 5, 'tpr' => (int) 6, 'twi' => (int) 6, 'ugi' => (int) 4, 'vma' => (int) 1, 'vmu' => (int) 7, 'zma' => (int) 10 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb421930' $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' => 'HOM05D001025', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '592', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p22650' => 'bna', 'A01p29720' => 'bna', 'A03p26560' => 'bna', 'A03p68820' => 'bna', 'A04p20980' => 'bna', 'A06p07730' => 'bna', 'A07p18260' => 'bna', 'A08p33710' => 'bna', 'A09p16970' => 'bna', 'A10p27490' => 'bna', 'Aa31LG1G17300' => 'aar', 'Aa31LG1G3910' => 'aar', 'Aa31LG2G9630' => 'aar', 'Aa31LG5G8360' => 'aar', 'Aa31LG9G2410' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4699' => 'aag', 'Actinidia23512' => 'ach', 'Actinidia37080' => 'ach', 'Ah.01g020380' => 'amhyb', 'Ah.08g215710' => 'amhyb', 'Ah.09g225110' => 'amhyb', 'Ah.10g036680' => 'amhyb', 'AL1G21940' => 'aly', 'AL2G15540' => 'aly', 'AL4G21520' => 'aly', 'AL7G40960' => 'aly', 'Aqoxy2G01191' => 'aox', 'Aqoxy2G03393' => 'aox', 'Aqoxy4G02775' => 'aox', 'Aqoxy6G00058' => 'aox', 'arahy.Tifrunner.gnm1.ann1.9X74H2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CW3FX9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R485W7' => 'arhy', 'AT1G10960' => 'ath', 'AT1G60950' => 'ath', 'AT2G27510' => 'ath', 'AT4G14890' => 'ath', 'AT5G10000' => 'ath', 'ATR0665G624' => 'atr', 'ATR0697G138' => 'atr', 'ATR0776G046' => 'atr', 'ATR1134G135' => 'atr', 'Atru.chr12.1025' => 'acertr', 'Atru.chr3.3241' => 'acertr', 'Atru.chr4.2460' => 'acertr', 'AUR62007427' => 'cqu', 'AUR62010960' => 'cqu', 'AUR62012201' => 'cqu', 'AUR62021470' => 'cqu', 'AUR62022834' => 'cqu', 'AUR62033635' => 'cqu', 'AUR62036186' => 'cqu', 'BcaB01g03077' => 'bca', 'BcaB02g10093' => 'bca', 'BcaB04g20295' => 'bca', 'BcaB06g28147' => 'bca', 'BcaB07g31253' => 'bca', 'BcaC01g04946' => 'bca', 'BcaC02g10614' => 'bca', 'BcaC02g10885' => 'bca', 'BcaC04g19356' => 'bca', 'BcaC04g22297' => 'bca', 'BcaC05g24977' => 'bca', 'BcaC06g31823' => 'bca', 'BcaC07g38633' => 'bca', 'BcaC09g49353' => 'bca', 'BcaC09g50168' => 'bca', 'BcaNung00322' => 'bca', 'BcaNung04769' => 'bca', 'BolC1t02753H' => 'bol', 'BolC1t03721H' => 'bol', 'BolC3t15525H' => 'bol', 'BolC4t23903H' => 'bol', 'BolC4t24231H' => 'bol', 'BolC4t27209H' => 'bol', 'BolC5t29671H' => 'bol', 'BolC8t49044H' => 'bol', 'BolC9t54999H' => 'bol', 'BolC9t59517H' => 'bol', 'BraA01t02178Z' => 'bra', 'BraA01t03099Z' => 'bra', 'BraA03t11867Z' => 'bra', 'BraA04t17667Z' => 'bra', 'BraA07t29542Z' => 'bra', 'BraA08t35287Z' => 'bra', 'BraA09t37334Z' => 'bra', 'BraA10t44801Z' => 'bra', 'BraSC39t46181Z' => 'bra', 'C01p28240' => 'bna', 'C01p37530' => 'bna', 'C03p31820' => 'bna', 'C04p24080' => 'bna', 'C04p25790' => 'bna', 'C04p56770' => 'bna', 'C05p09310' => 'bna', 'C09p21010' => 'bna', 'C09p67560' => 'bna', 'CAN.G1324.7' => 'can', 'CAN.G1358.10' => 'can', 'CAN.G1550.2' => 'can', 'CAN.G186.56' => 'can', 'CAN.G1965.1' => 'can', 'CAN.G645.15' => 'can', 'CAN.G798.26' => 'can', 'CAN.G798.27' => 'can', 'CAN.G798.29' => 'can', 'CAN.G919.31' => 'can', 'CANSAT11G0133' => 'cansat', 'CANSAT11G1171' => 'cansat', 'CANSAT11G2056' => 'cansat', 'CANSAT56G1202' => 'cansat', 'CANSAT56G1514' => 'cansat', 'CANSAT78G0455' => 'cansat', 'CARHR011190' => 'chi', 'CARHR051980' => 'chi', 'CARHR120170' => 'chi', 'CARHR203310' => 'chi', 'CARHR221490' => 'chi', 'Carub.0001s1054' => 'cru', 'Carub.0002s0431' => 'cru', 'Carub.0004s0818' => 'cru', 'Carub.0006s0846' => 'cru', 'Carub.0007s2722' => 'cru', 'Ca_00058_v3' => 'car', 'Ca_17831_v3' => 'car', 'Ca_19408_v3' => 'car', 'Ca_24397_v3' => 'car', 'Ca_25664_v3' => 'car', 'CBR_g21818' => 'cbr', 'CBR_g31195' => 'cbr', 'CBR_g32282' => 'cbr', 'CBR_g39599' => 'cbr', 'CBR_g49410' => 'cbr', 'Cc01_g09120' => 'ccan', 'Cc01_g09130' => 'ccan', 'Cc02_g09630' => 'ccan', 'Cc02_g22810' => 'ccan', 'Cc03_g03810' => 'ccan', 'CDE02G3718' => 'cde', 'CDE04G3183' => 'cde', 'CDE07G1046' => 'cde', 'CDE08G0480' => 'cde', 'Cfa005493' => 'cfa', 'Cfa010312' => 'cfa', 'Cfa015648' => 'cfa', 'Ciclev10002793m.g' => 'ccl', 'Ciclev10003356m.g' => 'ccl', 'Ciclev10006141m.g' => 'ccl', 'Ciclev10016676m.g' => 'ccl', 'Ciclev10017081m.g' => 'ccl', 'Ciclev10029499m.g' => 'ccl', 'CiPaw.01G166300' => 'cil', 'CiPaw.06G145600' => 'cil', 'CiPaw.13G040100' => 'cil', 'CiPaw.13G135800' => 'cil', 'ClCG01G012230' => 'cla', 'ClCG05G009510' => 'cla', 'ClCG08G008270' => 'cla', 'COL.COLO4_11763' => 'col', 'COL.COLO4_19876' => 'col', 'COL.COLO4_21481' => 'col', 'Cpa.g.sc118.34' => 'cpa', 'Cpa.g.sc32.13' => 'cpa', 'Cpa.g.sc58.103' => 'cpa', 'Cre03.g183850' => 'cre', 'Cre06.g306350' => 'cre', 'Cre07.g334800' => 'cre', 'Cre12.g487900' => 'cre', 'Cre14.g626700' => 'cre', 'Cre16.g658400' => 'cre', 'Cre17.g700950' => 'cre', 'CsaV3_1G014830' => 'csa', 'CsaV3_3G013320' => 'csa', 'CsaV3_3G019210' => 'csa', 'CsaV3_3G019220' => 'csa', 'CsaV3_6G004230' => 'csa', 'CSS0003773' => 'camsi', 'CSS0004563' => 'camsi', 'CSS0013949' => 'camsi', 'CSS0025971' => 'camsi', 'CSS0028570' => 'camsi', 'CSS0033127' => 'camsi', 'CSS0036051' => 'camsi', 'CSS0040087' => 'camsi', 'CSS0043179' => 'camsi', 'DCAR_006161' => 'dca', 'DCAR_010351' => 'dca', 'DCAR_012197' => 'dca', 'DCAR_024162' => 'dca', 'Dinv01030' => 'din', 'Dinv10924' => 'din', 'Dinv11835' => 'din', 'Dinv22841' => 'din', 'Dinv42553' => 'din', 'Duzib052G0560' => 'dzi', 'Duzib132G0389' => 'dzi', 'Duzib150G1181' => 'dzi', 'Duzib168G0623' => 'dzi', 'Duzib170G1036' => 'dzi', 'Duzib212G0200' => 'dzi', 'Duzib248G0194' => 'dzi', 'ECA232G2193' => 'eca', 'ECA233G0302' => 'eca', 'ECA234G2813' => 'eca', 'ECA234G4866' => 'eca', 'ECA240G3932' => 'eca', 'ECA248G0385' => 'eca', 'EL10Ac2g04781' => 'bvu', 'EL10Ac3g06445' => 'bvu', 'EL10Ac7g15825' => 'bvu', 'EL10Ac8g18550' => 'bvu', 'Eucgr.B03849' => 'egr', 'Eucgr.I02744' => 'egr', 'Eucgr.J00264' => 'egr', 'Eucgr.J00493' => 'egr', 'FAN04G2181' => 'fan', 'FAN07G2666' => 'fan', 'FAN11G0024' => 'fan', 'FAN12G1105' => 'fan', 'FAN13G0302' => 'fan', 'FAN15G2781' => 'fan', 'FAN16G1274' => 'fan', 'FAN17G2988' => 'fan', 'FAN18G2621' => 'fan', 'FAN21G0013' => 'fan', 'FAN22G1211' => 'fan', 'FAN25G3626' => 'fan', 'FvH4_2g09491' => 'fve', 'FvH4_3g24910' => 'fve', 'FvH4_4g15630' => 'fve', 'FvH4_5g28820' => 'fve', 'Glyma.01G238000' => 'gma', 'Glyma.05G168400' => 'gma', 'Glyma.08G126800' => 'gma', 'Glyma.08G188500' => 'gma', 'Glyma.10G278900' => 'gma', 'Glyma.11G005700' => 'gma', 'Glyma.11G183300' => 'gma', 'Glyma.12G089200' => 'gma', 'Glyma.12G169400' => 'gma', 'Glyma.12G169500' => 'gma', 'Glyma.12G169600' => 'gma', 'Glyma.20G110800' => 'gma', 'Gohir.A03G192900' => 'ghi', 'Gohir.A03G193000' => 'ghi', 'Gohir.A05G080700' => 'ghi', 'Gohir.A09G216000' => 'ghi', 'Gohir.A12G027700' => 'ghi', 'Gohir.A13G036200' => 'ghi', 'Gohir.A13G222600' => 'ghi', 'Gohir.D02G213900' => 'ghi', 'Gohir.D02G214000' => 'ghi', 'Gohir.D05G083700' => 'ghi', 'Gohir.D05G083800' => 'ghi', 'Gohir.D05G083850' => 'ghi', 'Gohir.D08G015400' => 'ghi', 'Gohir.D09G218400' => 'ghi', 'Gohir.D12G027100' => 'ghi', 'Gohir.D13G034500' => 'ghi', 'Gohir.D13G227400' => 'ghi', 'Gorai.005G241800' => 'gra', 'Gorai.005G241900' => 'gra', 'Gorai.006G239400' => 'gra', 'Gorai.008G027600' => 'gra', 'Gorai.009G085400' => 'gra', 'Gorai.009G085500' => 'gra', 'Gorai.013G039000' => 'gra', 'Gorai.013G194800' => 'gra', 'Gorai.013G257900' => 'gra', 'GSVIVG01000982001' => 'vvi', 'GSVIVG01017981001' => 'vvi', 'HanXRQChr01g0024061' => 'han', 'HanXRQChr09g0247831' => 'han', 'HanXRQChr10g0294611' => 'han', 'HanXRQChr10g0294621' => 'han', 'HanXRQChr11g0346821' => 'han', 'HanXRQChr13g0397461' => 'han', 'HanXRQChr16g0513651' => 'han', 'HanXRQChr16g0513701' => 'han', 'Haze_00897' => 'cav', 'Haze_01745' => 'cav', 'Haze_02486' => 'cav', 'Haze_02487' => 'cav', 'Haze_23374' => 'cav', 'Hma1.2p1_0578F.1_g182520' => 'hma', 'Hma1.2p1_0602F.1_g187350' => 'hma', 'Hma1.2p1_0602F.1_g187360' => 'hma', 'Hma1.2p1_0874F.1_g231320' => 'hma', 'Hma1.2p1_1197F.1_g266210' => 'hma', 'Hma1.2p1_1197F.1_g266220' => 'hma', 'Hma1.2p1_2167F.1_g315895' => 'hma', 'Hma1.2p1_2190F.1_g316640' => 'hma', 'Hma1.2p1_3645F.1_g337153' => 'hma', 'HPP92_004907' => 'vpl', 'HPP92_012134' => 'vpl', 'HPP92_025136' => 'vpl', 'HPP92_026087' => 'vpl', 'Hund06782' => 'sun', 'Hund06784' => 'sun', 'Lalb_Chr01g0004861' => 'lal', 'Lalb_Chr02g0140591' => 'lal', 'Lalb_Chr02g0140611' => 'lal', 'Lalb_Chr03g0028101' => 'lal', 'Lalb_Chr07g0185791' => 'lal', 'Lalb_Chr12g0204491' => 'lal', 'Lalb_Chr13g0295671' => 'lal', 'Lalb_Chr19g0136461' => 'lal', 'Lalb_Chr21g0309191' => 'lal', 'Lj1g0028158' => 'lja', 'Lj1P236T38' => 'lonja', 'Lj2C32G2' => 'lonja', 'Lj2P944T8' => 'lonja', 'Lj2P963T15' => 'lonja', 'Lj3g0011788' => 'lja', 'Lj4g0025027' => 'lja', 'Lj5P255T36' => 'lonja', 'Lj6g0018866' => 'lja', 'Lj6P608T31' => 'lonja', 'LjContig00408g0008879' => 'lja', 'Lsat_1_v5_gn_5_105820' => 'lsa', 'Lsat_1_v5_gn_6_38800' => 'lsa', 'Lsat_1_v5_gn_7_67141' => 'lsa', 'Manes.04G003400' => 'mes', 'Manes.07G020000' => 'mes', 'Manes.07G020100' => 'mes', 'Manes.07G020150' => 'mes', 'Manes.10G061500' => 'mes', 'Manes.10G123200' => 'mes', 'Manes.11G161900' => 'mes', 'Manes.15G029300' => 'mes', 'Mapoly0071s0018' => 'mpo', 'Mapoly0082s0023' => 'mpo', 'Mapoly3477s0001' => 'mpo', 'MBI05_g31233_MAGBIO' => 'mbi', 'MBI09_g05946_MAGBIO' => 'mbi', 'MBI09_g05947_MAGBIO' => 'mbi', 'MBI17_g08346_MAGBIO' => 'mbi', 'MCO04G038' => 'mco', 'MCO09G370' => 'mco', 'MCO13G605' => 'mco', 'MD00G1075500' => 'mdo', 'MD03G1144300' => 'mdo', 'MD08G1236800' => 'mdo', 'MD13G1193300' => 'mdo', 'MD15G1428700' => 'mdo', 'Medtr1g112030' => 'mtr', 'Medtr1g112050' => 'mtr', 'Medtr2g006290' => 'mtr', 'Medtr2g086510' => 'mtr', 'Medtr4g053120' => 'mtr', 'Medtr5g006320' => 'mtr', 'Medtr8g088720' => 'mtr', 'MELO3C004712.2' => 'cme', 'MELO3C006533.2' => 'cme', 'MELO3C019438.2' => 'cme', 'MELO3C019440.2' => 'cme', 'MELO3C019441.2' => 'cme', 'MELO3C019895.2' => 'cme', 'Migut.B00811' => 'egut', 'Migut.D02447' => 'egut', 'Migut.F00875' => 'egut', 'Migut.N00186' => 'egut', 'Migut.N01051' => 'egut', 'Migut.N02491' => 'egut', 'Migut.O00784' => 'egut', 'MSTRG.12367' => 'ama', 'MSTRG.18756' => 'ama', 'MSTRG.21042' => 'ama', 'Nitab4.5_0000559g0040' => 'nta', 'Nitab4.5_0000667g0190' => 'nta', 'Nitab4.5_0000755g0160' => 'nta', 'Nitab4.5_0001216g0080' => 'nta', 'Nitab4.5_0004069g0040' => 'nta', 'Nitab4.5_0004129g0010' => 'nta', 'Nitab4.5_0005744g0030' => 'nta', 'Nitab4.5_0006996g0030' => 'nta', 'Nitab4.5_0008971g0040' => 'nta', 'Nitab4.5_0009769g0020' => 'nta', 'Nitab4.5_0009833g0010' => 'nta', 'Nitab4.5_0013140g0020' => 'nta', 'Nn003s41376' => 'nnu', 'Nn1g01857' => 'nnu', 'Nn1g03611' => 'nnu', 'Nn1g06853' => 'nnu', 'Nn3g18360' => 'nnu', 'Nn4g26328' => 'nnu', 'Nn5g27531' => 'nnu', 'Nn6g34899' => 'nnu', 'Nn7g36299' => 'nnu', 'Oeu021485.1' => 'oeu', 'Oeu022433.1' => 'oeu', 'Oeu032111.1' => 'oeu', 'Oeu051608.1' => 'oeu', 'Os01g0860601' => 'osa', 'Os03g0659200' => 'osa', 'Os03g0835900' => 'osa', 'Os04g0412200' => 'osa', 'Os05g0443500' => 'osa', 'Os07g0251500' => 'osa', 'Os08g0104600' => 'osa', 'Peaxi162Scf00003g00047' => 'pax', 'Peaxi162Scf00003g00052' => 'pax', 'Peaxi162Scf00003g00394' => 'pax', 'Peaxi162Scf00091g00621' => 'pax', 'Peaxi162Scf00152g00146' => 'pax', 'Peaxi162Scf00173g00025' => 'pax', 'Peaxi162Scf00195g00102' => 'pax', 'Peaxi162Scf00402g00013' => 'pax', 'Peaxi162Scf00519g00618' => 'pax', 'PGR004G2838' => 'pgr', 'PGR044G2275' => 'pgr', 'PGR102G1377' => 'pgr', 'PGR119G1245' => 'pgr', 'PGR142G4449' => 'pgr', 'PGSC0003DMG400004532' => 'stu', 'PGSC0003DMG400011950' => 'stu', 'PGSC0003DMG400023391' => 'stu', 'PGSC0003DMG400023985' => 'stu', 'PGSC0003DMG400026360' => 'stu', 'PGSC0003DMG400035711' => 'stu', 'PGSC0003DMG400037286' => 'stu', 'PGSC0003DMG402005881' => 'stu', 'Phvul.002G045400' => 'pvu', 'Phvul.006G216600' => 'pvu', 'Phvul.006G216700' => 'pvu', 'Phvul.006G216800' => 'pvu', 'Phvul.007G022500' => 'pvu', 'Phvul.011G094400' => 'pvu', 'Potri.001G470700' => 'ptr', 'Potri.003G015200' => 'ptr', 'Potri.004G202500' => 'ptr', 'Potri.004G218400' => 'ptr', 'Potri.008G020100' => 'ptr', 'Potri.008G153200' => 'ptr', 'Potri.009G163800' => 'ptr', 'Potri.010G087300' => 'ptr', 'Potri.010G239100' => 'ptr', 'Pp3c10_16100' => 'ppa', 'Pp3c10_16880' => 'ppa', 'Pp3c16_6230' => 'ppa', 'Pp3c17_18910' => 'ppa', 'Pp3c3_22119' => 'ppa', 'Pp3c3_22140' => 'ppa', 'Pp3c4_8159' => 'ppa', 'Pp3c4_8171' => 'ppa', 'Pp3c4_8330' => 'ppa', 'PRCOL_00004098' => 'pco', 'Prupe.1G013900' => 'ppe', 'Prupe.1G226300' => 'ppe', 'Prupe.1G573600' => 'ppe', 'Prupe.6G130100' => 'ppe', 'Psat3g090040' => 'psa', 'Psat4g210440' => 'psa', 'Psat6g231040' => 'psa', 'Psat6g231080' => 'psa', 'Psat7g063000' => 'psa', 'Psat7g188000' => 'psa', 'Psat7g188040' => 'psa', 'PSO017G0206' => 'pso', 'PSO170G0501' => 'pso', 'PSO170G6422' => 'pso', 'PSO210G7739' => 'pso', 'PSO339G1808' => 'pso', 'PSO339G6135' => 'pso', 'PSO384G0010' => 'pso', 'PSO384G0964' => 'pso', 'PSO761G0050' => 'pso', 'PSO782G4085' => 'pso', 'QL01p012264' => 'qlo', 'QL02p099491' => 'qlo', 'QL03p033868' => 'qlo', 'QL04p046678' => 'qlo', 'QL06p002448' => 'qlo', 'RcHm_v2.0_Chr4g0416181' => 'rch', 'RcHm_v2.0_Chr5g0044701' => 'rch', 'RcHm_v2.0_Chr6g0265781' => 'rch', 'RcHm_v2.0_Chr7g0221031' => 'rch', 'Rhsim04G0202000' => 'rsi', 'Rhsim11G0127300' => 'rsi', 'Rhsim13G0111800' => 'rsi', 'Sabra01G0165600' => 'sbr', 'Sabra03G0008300' => 'sbr', 'Sabra04G0136900' => 'sbr', 'Sabra08G0013400' => 'sbr', 'Sabra08G0116800' => 'sbr', 'Sabra09G0128000' => 'sbr', 'Sabra10G0055500' => 'sbr', 'Sabra10G0073300' => 'sbr', 'SalBow3G0385' => 'sbo', 'SalBow3G1119' => 'sbo', 'SalBow3G2005' => 'sbo', 'SalBow6G2563' => 'sbo', 'SalBow6G6386' => 'sbo', 'Sc06g0008800' => 'sci', 'Sc07g0004950' => 'sci', 'Sc09g0005340' => 'sci', 'Sc13g0004410' => 'sci', 'Sc21g0007090' => 'sci', 'Sed0009285' => 'sed', 'Sed0017583' => 'sed', 'Sed0019699' => 'sed', 'Sed0023107' => 'sed', 'SEGI_10916' => 'sgi', 'SEGI_16217' => 'sgi', 'SEGI_19466' => 'sgi', 'SEGI_41115' => 'sgi', 'SGA_v2.0_scaffold111G31534' => 'sas', 'SGA_v2.0_scaffold22G09864' => 'sas', 'SGA_v2.0_scaffold338G49219' => 'sas', 'SGA_v2.0_scaffold92G28298' => 'sas', 'SMO119G0064' => 'smo', 'SMO223G0038' => 'smo', 'SMO347G0584' => 'smo', 'SMO351G0010' => 'smo', 'SMO356G0404' => 'smo', 'Solyc01g103920.3' => 'sly', 'Solyc04g009710.2' => 'sly', 'Solyc05g055280.2' => 'sly', 'Solyc10g044520.3' => 'sly', 'Solyc10g075160.1' => 'sly', 'Solyc11g006910.3' => 'sly', 'Solyc11g068430.3' => 'sly', 'Sopen01g046310' => 'spe', 'Sopen03g001200' => 'spe', 'Sopen04g004830' => 'spe', 'Sopen05g033720' => 'spe', 'Sopen06g030740' => 'spe', 'Sopen10g013090' => 'spe', 'Sopen10g027630' => 'spe', 'Sopen10g027640' => 'spe', 'Sopen11g002820' => 'spe', 'Sopen11g027140' => 'spe', 'Sp1g09680' => 'spa', 'Sp2g03630' => 'spa', 'Sp4g10320' => 'spa', 'Sp6g33400' => 'spa', 'Sp7g13030' => 'spa', 'TAR365G0317' => 'tar', 'TAR376G0979' => 'tar', 'TAR623G1665' => 'tar', 'TAR633G2373' => 'tar', 'TAR636G1400' => 'tar', 'THA.LOC104800529' => 'tha', 'THA.LOC104808547' => 'tha', 'THA.LOC104809615' => 'tha', 'THA.LOC104815724' => 'tha', 'THA.LOC104818480' => 'tha', 'THA.LOC104819179' => 'tha', 'THA.LOC104822270' => 'tha', 'THA.LOC104826425' => 'tha', 'Thecc.02G089700' => 'tca', 'Thecc.04G232300' => 'tca', 'Thecc.09G283400' => 'tca', 'Thhalv10009020m.g' => 'esa', 'Thhalv10015506m.g' => 'esa', 'Thhalv10017364m.g' => 'esa', 'Thhalv10023742m.g' => 'esa', 'Thhalv10026483m.g' => 'esa', 'TPR.G17232' => 'tpr', 'TPR.G2133' => 'tpr', 'TPR.G2498' => 'tpr', 'TPR.G31942' => 'tpr', 'TPR.G37877' => 'tpr', 'TPR.G4571' => 'tpr', 'TWI14G1113' => 'twi', 'TWI15G0426' => 'twi', 'TWI31G1005' => 'twi', 'TWI38G0513' => 'twi', 'TWI38G1484' => 'twi', 'TWI73G1098' => 'twi', 'unitig_26.g10519' => 'ugi', 'unitig_736.g22395' => 'ugi', 'unitig_747.g21234' => 'ugi', 'unitig_747.g21942' => 'ugi', 'vmacro14351' => 'vma', 'VMungo0540G0082' => 'vmu', 'VMungo0540G0405' => 'vmu', 'VMungo0540G1486' => 'vmu', 'VMungo0540G1692' => 'vmu', 'VMungo0720G2473' => 'vmu', 'VMungo1127G1562' => 'vmu', 'VMungo1215G1918' => 'vmu', 'Zm00001eb052650' => 'zma', 'Zm00001eb063710' => 'zma', 'Zm00001eb083950' => 'zma', 'Zm00001eb174420' => 'zma', 'Zm00001eb260140' => 'zma', 'Zm00001eb260150' => 'zma', 'Zm00001eb260160' => 'zma', 'Zm00001eb348290' => 'zma', 'Zm00001eb366870' => 'zma', 'Zm00001eb421930' => 'zma' ), 'gf_id' => 'HOM05D001025', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001025' ), 'data_identifier' => 'HOM05D001025', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001025', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '592', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p22650' => 'bna', 'A01p29720' => 'bna', 'A03p26560' => 'bna', 'A03p68820' => 'bna', 'A04p20980' => 'bna', 'A06p07730' => 'bna', 'A07p18260' => 'bna', 'A08p33710' => 'bna', 'A09p16970' => 'bna', 'A10p27490' => 'bna', 'Aa31LG1G17300' => 'aar', 'Aa31LG1G3910' => 'aar', 'Aa31LG2G9630' => 'aar', 'Aa31LG5G8360' => 'aar', 'Aa31LG9G2410' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4699' => 'aag', 'Actinidia23512' => 'ach', 'Actinidia37080' => 'ach', 'Ah.01g020380' => 'amhyb', 'Ah.08g215710' => 'amhyb', 'Ah.09g225110' => 'amhyb', 'Ah.10g036680' => 'amhyb', 'AL1G21940' => 'aly', 'AL2G15540' => 'aly', 'AL4G21520' => 'aly', 'AL7G40960' => 'aly', 'Aqoxy2G01191' => 'aox', 'Aqoxy2G03393' => 'aox', 'Aqoxy4G02775' => 'aox', 'Aqoxy6G00058' => 'aox', 'arahy.Tifrunner.gnm1.ann1.9X74H2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CW3FX9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R485W7' => 'arhy', 'AT1G10960' => 'ath', 'AT1G60950' => 'ath', 'AT2G27510' => 'ath', 'AT4G14890' => 'ath', 'AT5G10000' => 'ath', 'ATR0665G624' => 'atr', 'ATR0697G138' => 'atr', 'ATR0776G046' => 'atr', 'ATR1134G135' => 'atr', 'Atru.chr12.1025' => 'acertr', 'Atru.chr3.3241' => 'acertr', 'Atru.chr4.2460' => 'acertr', 'AUR62007427' => 'cqu', 'AUR62010960' => 'cqu', 'AUR62012201' => 'cqu', 'AUR62021470' => 'cqu', 'AUR62022834' => 'cqu', 'AUR62033635' => 'cqu', 'AUR62036186' => 'cqu', 'BcaB01g03077' => 'bca', 'BcaB02g10093' => 'bca', 'BcaB04g20295' => 'bca', 'BcaB06g28147' => 'bca', 'BcaB07g31253' => 'bca', 'BcaC01g04946' => 'bca', 'BcaC02g10614' => 'bca', 'BcaC02g10885' => 'bca', 'BcaC04g19356' => 'bca', 'BcaC04g22297' => 'bca', 'BcaC05g24977' => 'bca', 'BcaC06g31823' => 'bca', 'BcaC07g38633' => 'bca', 'BcaC09g49353' => 'bca', 'BcaC09g50168' => 'bca', 'BcaNung00322' => 'bca', 'BcaNung04769' => 'bca', 'BolC1t02753H' => 'bol', 'BolC1t03721H' => 'bol', 'BolC3t15525H' => 'bol', 'BolC4t23903H' => 'bol', 'BolC4t24231H' => 'bol', 'BolC4t27209H' => 'bol', 'BolC5t29671H' => 'bol', 'BolC8t49044H' => 'bol', 'BolC9t54999H' => 'bol', 'BolC9t59517H' => 'bol', 'BraA01t02178Z' => 'bra', 'BraA01t03099Z' => 'bra', 'BraA03t11867Z' => 'bra', 'BraA04t17667Z' => 'bra', 'BraA07t29542Z' => 'bra', 'BraA08t35287Z' => 'bra', 'BraA09t37334Z' => 'bra', 'BraA10t44801Z' => 'bra', 'BraSC39t46181Z' => 'bra', 'C01p28240' => 'bna', 'C01p37530' => 'bna', 'C03p31820' => 'bna', 'C04p24080' => 'bna', 'C04p25790' => 'bna', 'C04p56770' => 'bna', 'C05p09310' => 'bna', 'C09p21010' => 'bna', 'C09p67560' => 'bna', 'CAN.G1324.7' => 'can', 'CAN.G1358.10' => 'can', 'CAN.G1550.2' => 'can', 'CAN.G186.56' => 'can', 'CAN.G1965.1' => 'can', 'CAN.G645.15' => 'can', 'CAN.G798.26' => 'can', 'CAN.G798.27' => 'can', 'CAN.G798.29' => 'can', 'CAN.G919.31' => 'can', 'CANSAT11G0133' => 'cansat', 'CANSAT11G1171' => 'cansat', 'CANSAT11G2056' => 'cansat', 'CANSAT56G1202' => 'cansat', 'CANSAT56G1514' => 'cansat', 'CANSAT78G0455' => 'cansat', 'CARHR011190' => 'chi', 'CARHR051980' => 'chi', 'CARHR120170' => 'chi', 'CARHR203310' => 'chi', 'CARHR221490' => 'chi', 'Carub.0001s1054' => 'cru', 'Carub.0002s0431' => 'cru', 'Carub.0004s0818' => 'cru', 'Carub.0006s0846' => 'cru', 'Carub.0007s2722' => 'cru', 'Ca_00058_v3' => 'car', 'Ca_17831_v3' => 'car', 'Ca_19408_v3' => 'car', 'Ca_24397_v3' => 'car', 'Ca_25664_v3' => 'car', 'CBR_g21818' => 'cbr', 'CBR_g31195' => 'cbr', 'CBR_g32282' => 'cbr', 'CBR_g39599' => 'cbr', 'CBR_g49410' => 'cbr', 'Cc01_g09120' => 'ccan', 'Cc01_g09130' => 'ccan', 'Cc02_g09630' => 'ccan', 'Cc02_g22810' => 'ccan', 'Cc03_g03810' => 'ccan', 'CDE02G3718' => 'cde', 'CDE04G3183' => 'cde', 'CDE07G1046' => 'cde', 'CDE08G0480' => 'cde', 'Cfa005493' => 'cfa', 'Cfa010312' => 'cfa', 'Cfa015648' => 'cfa', 'Ciclev10002793m.g' => 'ccl', 'Ciclev10003356m.g' => 'ccl', 'Ciclev10006141m.g' => 'ccl', 'Ciclev10016676m.g' => 'ccl', 'Ciclev10017081m.g' => 'ccl', 'Ciclev10029499m.g' => 'ccl', 'CiPaw.01G166300' => 'cil', 'CiPaw.06G145600' => 'cil', 'CiPaw.13G040100' => 'cil', 'CiPaw.13G135800' => 'cil', 'ClCG01G012230' => 'cla', 'ClCG05G009510' => 'cla', 'ClCG08G008270' => 'cla', 'COL.COLO4_11763' => 'col', 'COL.COLO4_19876' => 'col', 'COL.COLO4_21481' => 'col', 'Cpa.g.sc118.34' => 'cpa', 'Cpa.g.sc32.13' => 'cpa', 'Cpa.g.sc58.103' => 'cpa', 'Cre03.g183850' => 'cre', 'Cre06.g306350' => 'cre', 'Cre07.g334800' => 'cre', 'Cre12.g487900' => 'cre', 'Cre14.g626700' => 'cre', 'Cre16.g658400' => 'cre', 'Cre17.g700950' => 'cre', 'CsaV3_1G014830' => 'csa', 'CsaV3_3G013320' => 'csa', 'CsaV3_3G019210' => 'csa', 'CsaV3_3G019220' => 'csa', 'CsaV3_6G004230' => 'csa', 'CSS0003773' => 'camsi', 'CSS0004563' => 'camsi', 'CSS0013949' => 'camsi', 'CSS0025971' => 'camsi', 'CSS0028570' => 'camsi', 'CSS0033127' => 'camsi', 'CSS0036051' => 'camsi', 'CSS0040087' => 'camsi', 'CSS0043179' => 'camsi', 'DCAR_006161' => 'dca', 'DCAR_010351' => 'dca', 'DCAR_012197' => 'dca', 'DCAR_024162' => 'dca', 'Dinv01030' => 'din', 'Dinv10924' => 'din', 'Dinv11835' => 'din', 'Dinv22841' => 'din', 'Dinv42553' => 'din', 'Duzib052G0560' => 'dzi', 'Duzib132G0389' => 'dzi', 'Duzib150G1181' => 'dzi', 'Duzib168G0623' => 'dzi', 'Duzib170G1036' => 'dzi', 'Duzib212G0200' => 'dzi', 'Duzib248G0194' => 'dzi', 'ECA232G2193' => 'eca', 'ECA233G0302' => 'eca', 'ECA234G2813' => 'eca', 'ECA234G4866' => 'eca', 'ECA240G3932' => 'eca', 'ECA248G0385' => 'eca', 'EL10Ac2g04781' => 'bvu', 'EL10Ac3g06445' => 'bvu', 'EL10Ac7g15825' => 'bvu', 'EL10Ac8g18550' => 'bvu', 'Eucgr.B03849' => 'egr', 'Eucgr.I02744' => 'egr', 'Eucgr.J00264' => 'egr', 'Eucgr.J00493' => 'egr', 'FAN04G2181' => 'fan', 'FAN07G2666' => 'fan', 'FAN11G0024' => 'fan', 'FAN12G1105' => 'fan', 'FAN13G0302' => 'fan', 'FAN15G2781' => 'fan', 'FAN16G1274' => 'fan', 'FAN17G2988' => 'fan', 'FAN18G2621' => 'fan', 'FAN21G0013' => 'fan', 'FAN22G1211' => 'fan', 'FAN25G3626' => 'fan', 'FvH4_2g09491' => 'fve', 'FvH4_3g24910' => 'fve', 'FvH4_4g15630' => 'fve', 'FvH4_5g28820' => 'fve', 'Glyma.01G238000' => 'gma', 'Glyma.05G168400' => 'gma', 'Glyma.08G126800' => 'gma', 'Glyma.08G188500' => 'gma', 'Glyma.10G278900' => 'gma', 'Glyma.11G005700' => 'gma', 'Glyma.11G183300' => 'gma', 'Glyma.12G089200' => 'gma', 'Glyma.12G169400' => 'gma', 'Glyma.12G169500' => 'gma', 'Glyma.12G169600' => 'gma', 'Glyma.20G110800' => 'gma', 'Gohir.A03G192900' => 'ghi', 'Gohir.A03G193000' => 'ghi', 'Gohir.A05G080700' => 'ghi', 'Gohir.A09G216000' => 'ghi', 'Gohir.A12G027700' => 'ghi', 'Gohir.A13G036200' => 'ghi', 'Gohir.A13G222600' => 'ghi', 'Gohir.D02G213900' => 'ghi', 'Gohir.D02G214000' => 'ghi', 'Gohir.D05G083700' => 'ghi', 'Gohir.D05G083800' => 'ghi', 'Gohir.D05G083850' => 'ghi', 'Gohir.D08G015400' => 'ghi', 'Gohir.D09G218400' => 'ghi', 'Gohir.D12G027100' => 'ghi', 'Gohir.D13G034500' => 'ghi', 'Gohir.D13G227400' => 'ghi', 'Gorai.005G241800' => 'gra', 'Gorai.005G241900' => 'gra', 'Gorai.006G239400' => 'gra', 'Gorai.008G027600' => 'gra', 'Gorai.009G085400' => 'gra', 'Gorai.009G085500' => 'gra', 'Gorai.013G039000' => 'gra', 'Gorai.013G194800' => 'gra', 'Gorai.013G257900' => 'gra', 'GSVIVG01000982001' => 'vvi', 'GSVIVG01017981001' => 'vvi', 'HanXRQChr01g0024061' => 'han', 'HanXRQChr09g0247831' => 'han', 'HanXRQChr10g0294611' => 'han', 'HanXRQChr10g0294621' => 'han', 'HanXRQChr11g0346821' => 'han', 'HanXRQChr13g0397461' => 'han', 'HanXRQChr16g0513651' => 'han', 'HanXRQChr16g0513701' => 'han', 'Haze_00897' => 'cav', 'Haze_01745' => 'cav', 'Haze_02486' => 'cav', 'Haze_02487' => 'cav', 'Haze_23374' => 'cav', 'Hma1.2p1_0578F.1_g182520' => 'hma', 'Hma1.2p1_0602F.1_g187350' => 'hma', 'Hma1.2p1_0602F.1_g187360' => 'hma', 'Hma1.2p1_0874F.1_g231320' => 'hma', 'Hma1.2p1_1197F.1_g266210' => 'hma', 'Hma1.2p1_1197F.1_g266220' => 'hma', 'Hma1.2p1_2167F.1_g315895' => 'hma', 'Hma1.2p1_2190F.1_g316640' => 'hma', 'Hma1.2p1_3645F.1_g337153' => 'hma', 'HPP92_004907' => 'vpl', 'HPP92_012134' => 'vpl', 'HPP92_025136' => 'vpl', 'HPP92_026087' => 'vpl', 'Hund06782' => 'sun', 'Hund06784' => 'sun', 'Lalb_Chr01g0004861' => 'lal', 'Lalb_Chr02g0140591' => 'lal', 'Lalb_Chr02g0140611' => 'lal', 'Lalb_Chr03g0028101' => 'lal', 'Lalb_Chr07g0185791' => 'lal', 'Lalb_Chr12g0204491' => 'lal', 'Lalb_Chr13g0295671' => 'lal', 'Lalb_Chr19g0136461' => 'lal', 'Lalb_Chr21g0309191' => 'lal', 'Lj1g0028158' => 'lja', 'Lj1P236T38' => 'lonja', 'Lj2C32G2' => 'lonja', 'Lj2P944T8' => 'lonja', 'Lj2P963T15' => 'lonja', 'Lj3g0011788' => 'lja', 'Lj4g0025027' => 'lja', 'Lj5P255T36' => 'lonja', 'Lj6g0018866' => 'lja', 'Lj6P608T31' => 'lonja', 'LjContig00408g0008879' => 'lja', 'Lsat_1_v5_gn_5_105820' => 'lsa', 'Lsat_1_v5_gn_6_38800' => 'lsa', 'Lsat_1_v5_gn_7_67141' => 'lsa', 'Manes.04G003400' => 'mes', 'Manes.07G020000' => 'mes', 'Manes.07G020100' => 'mes', 'Manes.07G020150' => 'mes', 'Manes.10G061500' => 'mes', 'Manes.10G123200' => 'mes', 'Manes.11G161900' => 'mes', 'Manes.15G029300' => 'mes', 'Mapoly0071s0018' => 'mpo', 'Mapoly0082s0023' => 'mpo', 'Mapoly3477s0001' => 'mpo', 'MBI05_g31233_MAGBIO' => 'mbi', 'MBI09_g05946_MAGBIO' => 'mbi', 'MBI09_g05947_MAGBIO' => 'mbi', 'MBI17_g08346_MAGBIO' => 'mbi', 'MCO04G038' => 'mco', 'MCO09G370' => 'mco', 'MCO13G605' => 'mco', 'MD00G1075500' => 'mdo', 'MD03G1144300' => 'mdo', 'MD08G1236800' => 'mdo', 'MD13G1193300' => 'mdo', 'MD15G1428700' => 'mdo', 'Medtr1g112030' => 'mtr', 'Medtr1g112050' => 'mtr', 'Medtr2g006290' => 'mtr', 'Medtr2g086510' => 'mtr', 'Medtr4g053120' => 'mtr', 'Medtr5g006320' => 'mtr', 'Medtr8g088720' => 'mtr', 'MELO3C004712.2' => 'cme', 'MELO3C006533.2' => 'cme', 'MELO3C019438.2' => 'cme', 'MELO3C019440.2' => 'cme', 'MELO3C019441.2' => 'cme', 'MELO3C019895.2' => 'cme', 'Migut.B00811' => 'egut', 'Migut.D02447' => 'egut', 'Migut.F00875' => 'egut', 'Migut.N00186' => 'egut', 'Migut.N01051' => 'egut', 'Migut.N02491' => 'egut', 'Migut.O00784' => 'egut', 'MSTRG.12367' => 'ama', 'MSTRG.18756' => 'ama', 'MSTRG.21042' => 'ama', 'Nitab4.5_0000559g0040' => 'nta', 'Nitab4.5_0000667g0190' => 'nta', 'Nitab4.5_0000755g0160' => 'nta', 'Nitab4.5_0001216g0080' => 'nta', 'Nitab4.5_0004069g0040' => 'nta', 'Nitab4.5_0004129g0010' => 'nta', 'Nitab4.5_0005744g0030' => 'nta', 'Nitab4.5_0006996g0030' => 'nta', 'Nitab4.5_0008971g0040' => 'nta', 'Nitab4.5_0009769g0020' => 'nta', 'Nitab4.5_0009833g0010' => 'nta', 'Nitab4.5_0013140g0020' => 'nta', 'Nn003s41376' => 'nnu', 'Nn1g01857' => 'nnu', 'Nn1g03611' => 'nnu', 'Nn1g06853' => 'nnu', 'Nn3g18360' => 'nnu', 'Nn4g26328' => 'nnu', 'Nn5g27531' => 'nnu', 'Nn6g34899' => 'nnu', 'Nn7g36299' => 'nnu', 'Oeu021485.1' => 'oeu', 'Oeu022433.1' => 'oeu', 'Oeu032111.1' => 'oeu', 'Oeu051608.1' => 'oeu', 'Os01g0860601' => 'osa', 'Os03g0659200' => 'osa', 'Os03g0835900' => 'osa', 'Os04g0412200' => 'osa', 'Os05g0443500' => 'osa', 'Os07g0251500' => 'osa', 'Os08g0104600' => 'osa', 'Peaxi162Scf00003g00047' => 'pax', 'Peaxi162Scf00003g00052' => 'pax', 'Peaxi162Scf00003g00394' => 'pax', 'Peaxi162Scf00091g00621' => 'pax', 'Peaxi162Scf00152g00146' => 'pax', 'Peaxi162Scf00173g00025' => 'pax', 'Peaxi162Scf00195g00102' => 'pax', 'Peaxi162Scf00402g00013' => 'pax', 'Peaxi162Scf00519g00618' => 'pax', 'PGR004G2838' => 'pgr', 'PGR044G2275' => 'pgr', 'PGR102G1377' => 'pgr', 'PGR119G1245' => 'pgr', 'PGR142G4449' => 'pgr', 'PGSC0003DMG400004532' => 'stu', 'PGSC0003DMG400011950' => 'stu', 'PGSC0003DMG400023391' => 'stu', 'PGSC0003DMG400023985' => 'stu', 'PGSC0003DMG400026360' => 'stu', 'PGSC0003DMG400035711' => 'stu', 'PGSC0003DMG400037286' => 'stu', 'PGSC0003DMG402005881' => 'stu', 'Phvul.002G045400' => 'pvu', 'Phvul.006G216600' => 'pvu', 'Phvul.006G216700' => 'pvu', 'Phvul.006G216800' => 'pvu', 'Phvul.007G022500' => 'pvu', 'Phvul.011G094400' => 'pvu', 'Potri.001G470700' => 'ptr', 'Potri.003G015200' => 'ptr', 'Potri.004G202500' => 'ptr', 'Potri.004G218400' => 'ptr', 'Potri.008G020100' => 'ptr', 'Potri.008G153200' => 'ptr', 'Potri.009G163800' => 'ptr', 'Potri.010G087300' => 'ptr', 'Potri.010G239100' => 'ptr', 'Pp3c10_16100' => 'ppa', 'Pp3c10_16880' => 'ppa', 'Pp3c16_6230' => 'ppa', 'Pp3c17_18910' => 'ppa', 'Pp3c3_22119' => 'ppa', 'Pp3c3_22140' => 'ppa', 'Pp3c4_8159' => 'ppa', 'Pp3c4_8171' => 'ppa', 'Pp3c4_8330' => 'ppa', 'PRCOL_00004098' => 'pco', 'Prupe.1G013900' => 'ppe', 'Prupe.1G226300' => 'ppe', 'Prupe.1G573600' => 'ppe', 'Prupe.6G130100' => 'ppe', 'Psat3g090040' => 'psa', 'Psat4g210440' => 'psa', 'Psat6g231040' => 'psa', 'Psat6g231080' => 'psa', 'Psat7g063000' => 'psa', 'Psat7g188000' => 'psa', 'Psat7g188040' => 'psa', 'PSO017G0206' => 'pso', 'PSO170G0501' => 'pso', 'PSO170G6422' => 'pso', 'PSO210G7739' => 'pso', 'PSO339G1808' => 'pso', 'PSO339G6135' => 'pso', 'PSO384G0010' => 'pso', 'PSO384G0964' => 'pso', 'PSO761G0050' => 'pso', 'PSO782G4085' => 'pso', 'QL01p012264' => 'qlo', 'QL02p099491' => 'qlo', 'QL03p033868' => 'qlo', 'QL04p046678' => 'qlo', 'QL06p002448' => 'qlo', 'RcHm_v2.0_Chr4g0416181' => 'rch', 'RcHm_v2.0_Chr5g0044701' => 'rch', 'RcHm_v2.0_Chr6g0265781' => 'rch', 'RcHm_v2.0_Chr7g0221031' => 'rch', 'Rhsim04G0202000' => 'rsi', 'Rhsim11G0127300' => 'rsi', 'Rhsim13G0111800' => 'rsi', 'Sabra01G0165600' => 'sbr', 'Sabra03G0008300' => 'sbr', 'Sabra04G0136900' => 'sbr', 'Sabra08G0013400' => 'sbr', 'Sabra08G0116800' => 'sbr', 'Sabra09G0128000' => 'sbr', 'Sabra10G0055500' => 'sbr', 'Sabra10G0073300' => 'sbr', 'SalBow3G0385' => 'sbo', 'SalBow3G1119' => 'sbo', 'SalBow3G2005' => 'sbo', 'SalBow6G2563' => 'sbo', 'SalBow6G6386' => 'sbo', 'Sc06g0008800' => 'sci', 'Sc07g0004950' => 'sci', 'Sc09g0005340' => 'sci', 'Sc13g0004410' => 'sci', 'Sc21g0007090' => 'sci', 'Sed0009285' => 'sed', 'Sed0017583' => 'sed', 'Sed0019699' => 'sed', 'Sed0023107' => 'sed', 'SEGI_10916' => 'sgi', 'SEGI_16217' => 'sgi', 'SEGI_19466' => 'sgi', 'SEGI_41115' => 'sgi', 'SGA_v2.0_scaffold111G31534' => 'sas', 'SGA_v2.0_scaffold22G09864' => 'sas', 'SGA_v2.0_scaffold338G49219' => 'sas', 'SGA_v2.0_scaffold92G28298' => 'sas', 'SMO119G0064' => 'smo', 'SMO223G0038' => 'smo', 'SMO347G0584' => 'smo', 'SMO351G0010' => 'smo', 'SMO356G0404' => 'smo', 'Solyc01g103920.3' => 'sly', 'Solyc04g009710.2' => 'sly', 'Solyc05g055280.2' => 'sly', 'Solyc10g044520.3' => 'sly', 'Solyc10g075160.1' => 'sly', 'Solyc11g006910.3' => 'sly', 'Solyc11g068430.3' => 'sly', 'Sopen01g046310' => 'spe', 'Sopen03g001200' => 'spe', 'Sopen04g004830' => 'spe', 'Sopen05g033720' => 'spe', 'Sopen06g030740' => 'spe', 'Sopen10g013090' => 'spe', 'Sopen10g027630' => 'spe', 'Sopen10g027640' => 'spe', 'Sopen11g002820' => 'spe', 'Sopen11g027140' => 'spe', 'Sp1g09680' => 'spa', 'Sp2g03630' => 'spa', 'Sp4g10320' => 'spa', 'Sp6g33400' => 'spa', 'Sp7g13030' => 'spa', 'TAR365G0317' => 'tar', 'TAR376G0979' => 'tar', 'TAR623G1665' => 'tar', 'TAR633G2373' => 'tar', 'TAR636G1400' => 'tar', 'THA.LOC104800529' => 'tha', 'THA.LOC104808547' => 'tha', 'THA.LOC104809615' => 'tha', 'THA.LOC104815724' => 'tha', 'THA.LOC104818480' => 'tha', 'THA.LOC104819179' => 'tha', 'THA.LOC104822270' => 'tha', 'THA.LOC104826425' => 'tha', 'Thecc.02G089700' => 'tca', 'Thecc.04G232300' => 'tca', 'Thecc.09G283400' => 'tca', 'Thhalv10009020m.g' => 'esa', 'Thhalv10015506m.g' => 'esa', 'Thhalv10017364m.g' => 'esa', 'Thhalv10023742m.g' => 'esa', 'Thhalv10026483m.g' => 'esa', 'TPR.G17232' => 'tpr', 'TPR.G2133' => 'tpr', 'TPR.G2498' => 'tpr', 'TPR.G31942' => 'tpr', 'TPR.G37877' => 'tpr', 'TPR.G4571' => 'tpr', 'TWI14G1113' => 'twi', 'TWI15G0426' => 'twi', 'TWI31G1005' => 'twi', 'TWI38G0513' => 'twi', 'TWI38G1484' => 'twi', 'TWI73G1098' => 'twi', 'unitig_26.g10519' => 'ugi', 'unitig_736.g22395' => 'ugi', 'unitig_747.g21234' => 'ugi', 'unitig_747.g21942' => 'ugi', 'vmacro14351' => 'vma', 'VMungo0540G0082' => 'vmu', 'VMungo0540G0405' => 'vmu', 'VMungo0540G1486' => 'vmu', 'VMungo0540G1692' => 'vmu', 'VMungo0720G2473' => 'vmu', 'VMungo1127G1562' => 'vmu', 'VMungo1215G1918' => 'vmu', 'Zm00001eb052650' => 'zma', 'Zm00001eb063710' => 'zma', 'Zm00001eb083950' => 'zma', 'Zm00001eb174420' => 'zma', 'Zm00001eb260140' => 'zma', 'Zm00001eb260150' => 'zma', 'Zm00001eb260160' => 'zma', 'Zm00001eb348290' => 'zma', 'Zm00001eb366870' => 'zma', 'Zm00001eb421930' => 'zma' ) $gf_id = 'HOM05D001025' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001025' ) $data_identifier = 'HOM05D001025' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 19, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 2, 'amhyb' => (int) 4, 'aly' => (int) 4, 'aox' => (int) 4, 'arhy' => (int) 3, 'ath' => (int) 5, 'atr' => (int) 4, 'acertr' => (int) 3, 'cqu' => (int) 7, 'bca' => (int) 17, 'bol' => (int) 10, 'bra' => (int) 9, 'can' => (int) 10, 'cansat' => (int) 6, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 5, 'cbr' => (int) 5, 'ccan' => (int) 5, 'cde' => (int) 4, 'cfa' => (int) 3, 'ccl' => (int) 6, 'cil' => (int) 4, 'cla' => (int) 3, 'col' => (int) 3, 'cpa' => (int) 3, 'cre' => (int) 7, 'csa' => (int) 5, 'camsi' => (int) 9, 'dca' => (int) 4, 'din' => (int) 5, 'dzi' => (int) 7, 'eca' => (int) 6, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 12, 'fve' => (int) 4, 'gma' => (int) 12, 'ghi' => (int) 17, 'gra' => (int) 9, 'vvi' => (int) 2, 'han' => (int) 8, 'cav' => (int) 5, 'hma' => (int) 9, 'vpl' => (int) 4, 'sun' => (int) 2, 'lal' => (int) 9, 'lja' => (int) 5, 'lonja' => (int) 6, 'lsa' => (int) 3, 'mes' => (int) 8, 'mpo' => (int) 3, 'mbi' => (int) 4, 'mco' => (int) 3, 'mdo' => (int) 5, 'mtr' => (int) 7, 'cme' => (int) 6, 'egut' => (int) 7, 'ama' => (int) 3, 'nta' => (int) 12, 'nnu' => (int) 9, 'oeu' => (int) 4, 'osa' => (int) 7, 'pax' => (int) 9, 'pgr' => (int) 5, 'stu' => (int) 8, 'pvu' => (int) 6, 'ptr' => (int) 9, 'ppa' => (int) 9, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 7, 'pso' => (int) 10, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 3, 'sbr' => (int) 8, 'sbo' => (int) 5, 'sci' => (int) 5, 'sed' => (int) 4, 'sgi' => (int) 4, 'sas' => (int) 4, 'smo' => (int) 5, 'sly' => (int) 7, 'spe' => (int) 10, 'spa' => (int) 5, 'tar' => (int) 5, 'tha' => (int) 8, 'tca' => (int) 3, 'esa' => (int) 5, 'tpr' => (int) 6, 'twi' => (int) 6, 'ugi' => (int) 4, 'vma' => (int) 1, 'vmu' => (int) 7, 'zma' => (int) 10 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb421930' $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' => 'HOM05D001025', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '592', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p22650' => 'bna', 'A01p29720' => 'bna', 'A03p26560' => 'bna', 'A03p68820' => 'bna', 'A04p20980' => 'bna', 'A06p07730' => 'bna', 'A07p18260' => 'bna', 'A08p33710' => 'bna', 'A09p16970' => 'bna', 'A10p27490' => 'bna', 'Aa31LG1G17300' => 'aar', 'Aa31LG1G3910' => 'aar', 'Aa31LG2G9630' => 'aar', 'Aa31LG5G8360' => 'aar', 'Aa31LG9G2410' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4699' => 'aag', 'Actinidia23512' => 'ach', 'Actinidia37080' => 'ach', 'Ah.01g020380' => 'amhyb', 'Ah.08g215710' => 'amhyb', 'Ah.09g225110' => 'amhyb', 'Ah.10g036680' => 'amhyb', 'AL1G21940' => 'aly', 'AL2G15540' => 'aly', 'AL4G21520' => 'aly', 'AL7G40960' => 'aly', 'Aqoxy2G01191' => 'aox', 'Aqoxy2G03393' => 'aox', 'Aqoxy4G02775' => 'aox', 'Aqoxy6G00058' => 'aox', 'arahy.Tifrunner.gnm1.ann1.9X74H2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CW3FX9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R485W7' => 'arhy', 'AT1G10960' => 'ath', 'AT1G60950' => 'ath', 'AT2G27510' => 'ath', 'AT4G14890' => 'ath', 'AT5G10000' => 'ath', 'ATR0665G624' => 'atr', 'ATR0697G138' => 'atr', 'ATR0776G046' => 'atr', 'ATR1134G135' => 'atr', 'Atru.chr12.1025' => 'acertr', 'Atru.chr3.3241' => 'acertr', 'Atru.chr4.2460' => 'acertr', 'AUR62007427' => 'cqu', 'AUR62010960' => 'cqu', 'AUR62012201' => 'cqu', 'AUR62021470' => 'cqu', 'AUR62022834' => 'cqu', 'AUR62033635' => 'cqu', 'AUR62036186' => 'cqu', 'BcaB01g03077' => 'bca', 'BcaB02g10093' => 'bca', 'BcaB04g20295' => 'bca', 'BcaB06g28147' => 'bca', 'BcaB07g31253' => 'bca', 'BcaC01g04946' => 'bca', 'BcaC02g10614' => 'bca', 'BcaC02g10885' => 'bca', 'BcaC04g19356' => 'bca', 'BcaC04g22297' => 'bca', 'BcaC05g24977' => 'bca', 'BcaC06g31823' => 'bca', 'BcaC07g38633' => 'bca', 'BcaC09g49353' => 'bca', 'BcaC09g50168' => 'bca', 'BcaNung00322' => 'bca', 'BcaNung04769' => 'bca', 'BolC1t02753H' => 'bol', 'BolC1t03721H' => 'bol', 'BolC3t15525H' => 'bol', 'BolC4t23903H' => 'bol', 'BolC4t24231H' => 'bol', 'BolC4t27209H' => 'bol', 'BolC5t29671H' => 'bol', 'BolC8t49044H' => 'bol', 'BolC9t54999H' => 'bol', 'BolC9t59517H' => 'bol', 'BraA01t02178Z' => 'bra', 'BraA01t03099Z' => 'bra', 'BraA03t11867Z' => 'bra', 'BraA04t17667Z' => 'bra', 'BraA07t29542Z' => 'bra', 'BraA08t35287Z' => 'bra', 'BraA09t37334Z' => 'bra', 'BraA10t44801Z' => 'bra', 'BraSC39t46181Z' => 'bra', 'C01p28240' => 'bna', 'C01p37530' => 'bna', 'C03p31820' => 'bna', 'C04p24080' => 'bna', 'C04p25790' => 'bna', 'C04p56770' => 'bna', 'C05p09310' => 'bna', 'C09p21010' => 'bna', 'C09p67560' => 'bna', 'CAN.G1324.7' => 'can', 'CAN.G1358.10' => 'can', 'CAN.G1550.2' => 'can', 'CAN.G186.56' => 'can', 'CAN.G1965.1' => 'can', 'CAN.G645.15' => 'can', 'CAN.G798.26' => 'can', 'CAN.G798.27' => 'can', 'CAN.G798.29' => 'can', 'CAN.G919.31' => 'can', 'CANSAT11G0133' => 'cansat', 'CANSAT11G1171' => 'cansat', 'CANSAT11G2056' => 'cansat', 'CANSAT56G1202' => 'cansat', 'CANSAT56G1514' => 'cansat', 'CANSAT78G0455' => 'cansat', 'CARHR011190' => 'chi', 'CARHR051980' => 'chi', 'CARHR120170' => 'chi', 'CARHR203310' => 'chi', 'CARHR221490' => 'chi', 'Carub.0001s1054' => 'cru', 'Carub.0002s0431' => 'cru', 'Carub.0004s0818' => 'cru', 'Carub.0006s0846' => 'cru', 'Carub.0007s2722' => 'cru', 'Ca_00058_v3' => 'car', 'Ca_17831_v3' => 'car', 'Ca_19408_v3' => 'car', 'Ca_24397_v3' => 'car', 'Ca_25664_v3' => 'car', 'CBR_g21818' => 'cbr', 'CBR_g31195' => 'cbr', 'CBR_g32282' => 'cbr', 'CBR_g39599' => 'cbr', 'CBR_g49410' => 'cbr', 'Cc01_g09120' => 'ccan', 'Cc01_g09130' => 'ccan', 'Cc02_g09630' => 'ccan', 'Cc02_g22810' => 'ccan', 'Cc03_g03810' => 'ccan', 'CDE02G3718' => 'cde', 'CDE04G3183' => 'cde', 'CDE07G1046' => 'cde', 'CDE08G0480' => 'cde', 'Cfa005493' => 'cfa', 'Cfa010312' => 'cfa', 'Cfa015648' => 'cfa', 'Ciclev10002793m.g' => 'ccl', 'Ciclev10003356m.g' => 'ccl', 'Ciclev10006141m.g' => 'ccl', 'Ciclev10016676m.g' => 'ccl', 'Ciclev10017081m.g' => 'ccl', 'Ciclev10029499m.g' => 'ccl', 'CiPaw.01G166300' => 'cil', 'CiPaw.06G145600' => 'cil', 'CiPaw.13G040100' => 'cil', 'CiPaw.13G135800' => 'cil', 'ClCG01G012230' => 'cla', 'ClCG05G009510' => 'cla', 'ClCG08G008270' => 'cla', 'COL.COLO4_11763' => 'col', 'COL.COLO4_19876' => 'col', 'COL.COLO4_21481' => 'col', 'Cpa.g.sc118.34' => 'cpa', 'Cpa.g.sc32.13' => 'cpa', 'Cpa.g.sc58.103' => 'cpa', 'Cre03.g183850' => 'cre', 'Cre06.g306350' => 'cre', 'Cre07.g334800' => 'cre', 'Cre12.g487900' => 'cre', 'Cre14.g626700' => 'cre', 'Cre16.g658400' => 'cre', 'Cre17.g700950' => 'cre', 'CsaV3_1G014830' => 'csa', 'CsaV3_3G013320' => 'csa', 'CsaV3_3G019210' => 'csa', 'CsaV3_3G019220' => 'csa', 'CsaV3_6G004230' => 'csa', 'CSS0003773' => 'camsi', 'CSS0004563' => 'camsi', 'CSS0013949' => 'camsi', 'CSS0025971' => 'camsi', 'CSS0028570' => 'camsi', 'CSS0033127' => 'camsi', 'CSS0036051' => 'camsi', 'CSS0040087' => 'camsi', 'CSS0043179' => 'camsi', 'DCAR_006161' => 'dca', 'DCAR_010351' => 'dca', 'DCAR_012197' => 'dca', 'DCAR_024162' => 'dca', 'Dinv01030' => 'din', 'Dinv10924' => 'din', 'Dinv11835' => 'din', 'Dinv22841' => 'din', 'Dinv42553' => 'din', 'Duzib052G0560' => 'dzi', 'Duzib132G0389' => 'dzi', 'Duzib150G1181' => 'dzi', 'Duzib168G0623' => 'dzi', 'Duzib170G1036' => 'dzi', 'Duzib212G0200' => 'dzi', 'Duzib248G0194' => 'dzi', 'ECA232G2193' => 'eca', 'ECA233G0302' => 'eca', 'ECA234G2813' => 'eca', 'ECA234G4866' => 'eca', 'ECA240G3932' => 'eca', 'ECA248G0385' => 'eca', 'EL10Ac2g04781' => 'bvu', 'EL10Ac3g06445' => 'bvu', 'EL10Ac7g15825' => 'bvu', 'EL10Ac8g18550' => 'bvu', 'Eucgr.B03849' => 'egr', 'Eucgr.I02744' => 'egr', 'Eucgr.J00264' => 'egr', 'Eucgr.J00493' => 'egr', 'FAN04G2181' => 'fan', 'FAN07G2666' => 'fan', 'FAN11G0024' => 'fan', 'FAN12G1105' => 'fan', 'FAN13G0302' => 'fan', 'FAN15G2781' => 'fan', 'FAN16G1274' => 'fan', 'FAN17G2988' => 'fan', 'FAN18G2621' => 'fan', 'FAN21G0013' => 'fan', 'FAN22G1211' => 'fan', 'FAN25G3626' => 'fan', 'FvH4_2g09491' => 'fve', 'FvH4_3g24910' => 'fve', 'FvH4_4g15630' => 'fve', 'FvH4_5g28820' => 'fve', 'Glyma.01G238000' => 'gma', 'Glyma.05G168400' => 'gma', 'Glyma.08G126800' => 'gma', 'Glyma.08G188500' => 'gma', 'Glyma.10G278900' => 'gma', 'Glyma.11G005700' => 'gma', 'Glyma.11G183300' => 'gma', 'Glyma.12G089200' => 'gma', 'Glyma.12G169400' => 'gma', 'Glyma.12G169500' => 'gma', 'Glyma.12G169600' => 'gma', 'Glyma.20G110800' => 'gma', 'Gohir.A03G192900' => 'ghi', 'Gohir.A03G193000' => 'ghi', 'Gohir.A05G080700' => 'ghi', 'Gohir.A09G216000' => 'ghi', 'Gohir.A12G027700' => 'ghi', 'Gohir.A13G036200' => 'ghi', 'Gohir.A13G222600' => 'ghi', 'Gohir.D02G213900' => 'ghi', 'Gohir.D02G214000' => 'ghi', 'Gohir.D05G083700' => 'ghi', 'Gohir.D05G083800' => 'ghi', 'Gohir.D05G083850' => 'ghi', 'Gohir.D08G015400' => 'ghi', 'Gohir.D09G218400' => 'ghi', 'Gohir.D12G027100' => 'ghi', 'Gohir.D13G034500' => 'ghi', 'Gohir.D13G227400' => 'ghi', 'Gorai.005G241800' => 'gra', 'Gorai.005G241900' => 'gra', 'Gorai.006G239400' => 'gra', 'Gorai.008G027600' => 'gra', 'Gorai.009G085400' => 'gra', 'Gorai.009G085500' => 'gra', 'Gorai.013G039000' => 'gra', 'Gorai.013G194800' => 'gra', 'Gorai.013G257900' => 'gra', 'GSVIVG01000982001' => 'vvi', 'GSVIVG01017981001' => 'vvi', 'HanXRQChr01g0024061' => 'han', 'HanXRQChr09g0247831' => 'han', 'HanXRQChr10g0294611' => 'han', 'HanXRQChr10g0294621' => 'han', 'HanXRQChr11g0346821' => 'han', 'HanXRQChr13g0397461' => 'han', 'HanXRQChr16g0513651' => 'han', 'HanXRQChr16g0513701' => 'han', 'Haze_00897' => 'cav', 'Haze_01745' => 'cav', 'Haze_02486' => 'cav', 'Haze_02487' => 'cav', 'Haze_23374' => 'cav', 'Hma1.2p1_0578F.1_g182520' => 'hma', 'Hma1.2p1_0602F.1_g187350' => 'hma', 'Hma1.2p1_0602F.1_g187360' => 'hma', 'Hma1.2p1_0874F.1_g231320' => 'hma', 'Hma1.2p1_1197F.1_g266210' => 'hma', 'Hma1.2p1_1197F.1_g266220' => 'hma', 'Hma1.2p1_2167F.1_g315895' => 'hma', 'Hma1.2p1_2190F.1_g316640' => 'hma', 'Hma1.2p1_3645F.1_g337153' => 'hma', 'HPP92_004907' => 'vpl', 'HPP92_012134' => 'vpl', 'HPP92_025136' => 'vpl', 'HPP92_026087' => 'vpl', 'Hund06782' => 'sun', 'Hund06784' => 'sun', 'Lalb_Chr01g0004861' => 'lal', 'Lalb_Chr02g0140591' => 'lal', 'Lalb_Chr02g0140611' => 'lal', 'Lalb_Chr03g0028101' => 'lal', 'Lalb_Chr07g0185791' => 'lal', 'Lalb_Chr12g0204491' => 'lal', 'Lalb_Chr13g0295671' => 'lal', 'Lalb_Chr19g0136461' => 'lal', 'Lalb_Chr21g0309191' => 'lal', 'Lj1g0028158' => 'lja', 'Lj1P236T38' => 'lonja', 'Lj2C32G2' => 'lonja', 'Lj2P944T8' => 'lonja', 'Lj2P963T15' => 'lonja', 'Lj3g0011788' => 'lja', 'Lj4g0025027' => 'lja', 'Lj5P255T36' => 'lonja', 'Lj6g0018866' => 'lja', 'Lj6P608T31' => 'lonja', 'LjContig00408g0008879' => 'lja', 'Lsat_1_v5_gn_5_105820' => 'lsa', 'Lsat_1_v5_gn_6_38800' => 'lsa', 'Lsat_1_v5_gn_7_67141' => 'lsa', 'Manes.04G003400' => 'mes', 'Manes.07G020000' => 'mes', 'Manes.07G020100' => 'mes', 'Manes.07G020150' => 'mes', 'Manes.10G061500' => 'mes', 'Manes.10G123200' => 'mes', 'Manes.11G161900' => 'mes', 'Manes.15G029300' => 'mes', 'Mapoly0071s0018' => 'mpo', 'Mapoly0082s0023' => 'mpo', 'Mapoly3477s0001' => 'mpo', 'MBI05_g31233_MAGBIO' => 'mbi', 'MBI09_g05946_MAGBIO' => 'mbi', 'MBI09_g05947_MAGBIO' => 'mbi', 'MBI17_g08346_MAGBIO' => 'mbi', 'MCO04G038' => 'mco', 'MCO09G370' => 'mco', 'MCO13G605' => 'mco', 'MD00G1075500' => 'mdo', 'MD03G1144300' => 'mdo', 'MD08G1236800' => 'mdo', 'MD13G1193300' => 'mdo', 'MD15G1428700' => 'mdo', 'Medtr1g112030' => 'mtr', 'Medtr1g112050' => 'mtr', 'Medtr2g006290' => 'mtr', 'Medtr2g086510' => 'mtr', 'Medtr4g053120' => 'mtr', 'Medtr5g006320' => 'mtr', 'Medtr8g088720' => 'mtr', 'MELO3C004712.2' => 'cme', 'MELO3C006533.2' => 'cme', 'MELO3C019438.2' => 'cme', 'MELO3C019440.2' => 'cme', 'MELO3C019441.2' => 'cme', 'MELO3C019895.2' => 'cme', 'Migut.B00811' => 'egut', 'Migut.D02447' => 'egut', 'Migut.F00875' => 'egut', 'Migut.N00186' => 'egut', 'Migut.N01051' => 'egut', 'Migut.N02491' => 'egut', 'Migut.O00784' => 'egut', 'MSTRG.12367' => 'ama', 'MSTRG.18756' => 'ama', 'MSTRG.21042' => 'ama', 'Nitab4.5_0000559g0040' => 'nta', 'Nitab4.5_0000667g0190' => 'nta', 'Nitab4.5_0000755g0160' => 'nta', 'Nitab4.5_0001216g0080' => 'nta', 'Nitab4.5_0004069g0040' => 'nta', 'Nitab4.5_0004129g0010' => 'nta', 'Nitab4.5_0005744g0030' => 'nta', 'Nitab4.5_0006996g0030' => 'nta', 'Nitab4.5_0008971g0040' => 'nta', 'Nitab4.5_0009769g0020' => 'nta', 'Nitab4.5_0009833g0010' => 'nta', 'Nitab4.5_0013140g0020' => 'nta', 'Nn003s41376' => 'nnu', 'Nn1g01857' => 'nnu', 'Nn1g03611' => 'nnu', 'Nn1g06853' => 'nnu', 'Nn3g18360' => 'nnu', 'Nn4g26328' => 'nnu', 'Nn5g27531' => 'nnu', 'Nn6g34899' => 'nnu', 'Nn7g36299' => 'nnu', 'Oeu021485.1' => 'oeu', 'Oeu022433.1' => 'oeu', 'Oeu032111.1' => 'oeu', 'Oeu051608.1' => 'oeu', 'Os01g0860601' => 'osa', 'Os03g0659200' => 'osa', 'Os03g0835900' => 'osa', 'Os04g0412200' => 'osa', 'Os05g0443500' => 'osa', 'Os07g0251500' => 'osa', 'Os08g0104600' => 'osa', 'Peaxi162Scf00003g00047' => 'pax', 'Peaxi162Scf00003g00052' => 'pax', 'Peaxi162Scf00003g00394' => 'pax', 'Peaxi162Scf00091g00621' => 'pax', 'Peaxi162Scf00152g00146' => 'pax', 'Peaxi162Scf00173g00025' => 'pax', 'Peaxi162Scf00195g00102' => 'pax', 'Peaxi162Scf00402g00013' => 'pax', 'Peaxi162Scf00519g00618' => 'pax', 'PGR004G2838' => 'pgr', 'PGR044G2275' => 'pgr', 'PGR102G1377' => 'pgr', 'PGR119G1245' => 'pgr', 'PGR142G4449' => 'pgr', 'PGSC0003DMG400004532' => 'stu', 'PGSC0003DMG400011950' => 'stu', 'PGSC0003DMG400023391' => 'stu', 'PGSC0003DMG400023985' => 'stu', 'PGSC0003DMG400026360' => 'stu', 'PGSC0003DMG400035711' => 'stu', 'PGSC0003DMG400037286' => 'stu', 'PGSC0003DMG402005881' => 'stu', 'Phvul.002G045400' => 'pvu', 'Phvul.006G216600' => 'pvu', 'Phvul.006G216700' => 'pvu', 'Phvul.006G216800' => 'pvu', 'Phvul.007G022500' => 'pvu', 'Phvul.011G094400' => 'pvu', 'Potri.001G470700' => 'ptr', 'Potri.003G015200' => 'ptr', 'Potri.004G202500' => 'ptr', 'Potri.004G218400' => 'ptr', 'Potri.008G020100' => 'ptr', 'Potri.008G153200' => 'ptr', 'Potri.009G163800' => 'ptr', 'Potri.010G087300' => 'ptr', 'Potri.010G239100' => 'ptr', 'Pp3c10_16100' => 'ppa', 'Pp3c10_16880' => 'ppa', 'Pp3c16_6230' => 'ppa', 'Pp3c17_18910' => 'ppa', 'Pp3c3_22119' => 'ppa', 'Pp3c3_22140' => 'ppa', 'Pp3c4_8159' => 'ppa', 'Pp3c4_8171' => 'ppa', 'Pp3c4_8330' => 'ppa', 'PRCOL_00004098' => 'pco', 'Prupe.1G013900' => 'ppe', 'Prupe.1G226300' => 'ppe', 'Prupe.1G573600' => 'ppe', 'Prupe.6G130100' => 'ppe', 'Psat3g090040' => 'psa', 'Psat4g210440' => 'psa', 'Psat6g231040' => 'psa', 'Psat6g231080' => 'psa', 'Psat7g063000' => 'psa', 'Psat7g188000' => 'psa', 'Psat7g188040' => 'psa', 'PSO017G0206' => 'pso', 'PSO170G0501' => 'pso', 'PSO170G6422' => 'pso', 'PSO210G7739' => 'pso', 'PSO339G1808' => 'pso', 'PSO339G6135' => 'pso', 'PSO384G0010' => 'pso', 'PSO384G0964' => 'pso', 'PSO761G0050' => 'pso', 'PSO782G4085' => 'pso', 'QL01p012264' => 'qlo', 'QL02p099491' => 'qlo', 'QL03p033868' => 'qlo', 'QL04p046678' => 'qlo', 'QL06p002448' => 'qlo', 'RcHm_v2.0_Chr4g0416181' => 'rch', 'RcHm_v2.0_Chr5g0044701' => 'rch', 'RcHm_v2.0_Chr6g0265781' => 'rch', 'RcHm_v2.0_Chr7g0221031' => 'rch', 'Rhsim04G0202000' => 'rsi', 'Rhsim11G0127300' => 'rsi', 'Rhsim13G0111800' => 'rsi', 'Sabra01G0165600' => 'sbr', 'Sabra03G0008300' => 'sbr', 'Sabra04G0136900' => 'sbr', 'Sabra08G0013400' => 'sbr', 'Sabra08G0116800' => 'sbr', 'Sabra09G0128000' => 'sbr', 'Sabra10G0055500' => 'sbr', 'Sabra10G0073300' => 'sbr', 'SalBow3G0385' => 'sbo', 'SalBow3G1119' => 'sbo', 'SalBow3G2005' => 'sbo', 'SalBow6G2563' => 'sbo', 'SalBow6G6386' => 'sbo', 'Sc06g0008800' => 'sci', 'Sc07g0004950' => 'sci', 'Sc09g0005340' => 'sci', 'Sc13g0004410' => 'sci', 'Sc21g0007090' => 'sci', 'Sed0009285' => 'sed', 'Sed0017583' => 'sed', 'Sed0019699' => 'sed', 'Sed0023107' => 'sed', 'SEGI_10916' => 'sgi', 'SEGI_16217' => 'sgi', 'SEGI_19466' => 'sgi', 'SEGI_41115' => 'sgi', 'SGA_v2.0_scaffold111G31534' => 'sas', 'SGA_v2.0_scaffold22G09864' => 'sas', 'SGA_v2.0_scaffold338G49219' => 'sas', 'SGA_v2.0_scaffold92G28298' => 'sas', 'SMO119G0064' => 'smo', 'SMO223G0038' => 'smo', 'SMO347G0584' => 'smo', 'SMO351G0010' => 'smo', 'SMO356G0404' => 'smo', 'Solyc01g103920.3' => 'sly', 'Solyc04g009710.2' => 'sly', 'Solyc05g055280.2' => 'sly', 'Solyc10g044520.3' => 'sly', 'Solyc10g075160.1' => 'sly', 'Solyc11g006910.3' => 'sly', 'Solyc11g068430.3' => 'sly', 'Sopen01g046310' => 'spe', 'Sopen03g001200' => 'spe', 'Sopen04g004830' => 'spe', 'Sopen05g033720' => 'spe', 'Sopen06g030740' => 'spe', 'Sopen10g013090' => 'spe', 'Sopen10g027630' => 'spe', 'Sopen10g027640' => 'spe', 'Sopen11g002820' => 'spe', 'Sopen11g027140' => 'spe', 'Sp1g09680' => 'spa', 'Sp2g03630' => 'spa', 'Sp4g10320' => 'spa', 'Sp6g33400' => 'spa', 'Sp7g13030' => 'spa', 'TAR365G0317' => 'tar', 'TAR376G0979' => 'tar', 'TAR623G1665' => 'tar', 'TAR633G2373' => 'tar', 'TAR636G1400' => 'tar', 'THA.LOC104800529' => 'tha', 'THA.LOC104808547' => 'tha', 'THA.LOC104809615' => 'tha', 'THA.LOC104815724' => 'tha', 'THA.LOC104818480' => 'tha', 'THA.LOC104819179' => 'tha', 'THA.LOC104822270' => 'tha', 'THA.LOC104826425' => 'tha', 'Thecc.02G089700' => 'tca', 'Thecc.04G232300' => 'tca', 'Thecc.09G283400' => 'tca', 'Thhalv10009020m.g' => 'esa', 'Thhalv10015506m.g' => 'esa', 'Thhalv10017364m.g' => 'esa', 'Thhalv10023742m.g' => 'esa', 'Thhalv10026483m.g' => 'esa', 'TPR.G17232' => 'tpr', 'TPR.G2133' => 'tpr', 'TPR.G2498' => 'tpr', 'TPR.G31942' => 'tpr', 'TPR.G37877' => 'tpr', 'TPR.G4571' => 'tpr', 'TWI14G1113' => 'twi', 'TWI15G0426' => 'twi', 'TWI31G1005' => 'twi', 'TWI38G0513' => 'twi', 'TWI38G1484' => 'twi', 'TWI73G1098' => 'twi', 'unitig_26.g10519' => 'ugi', 'unitig_736.g22395' => 'ugi', 'unitig_747.g21234' => 'ugi', 'unitig_747.g21942' => 'ugi', 'vmacro14351' => 'vma', 'VMungo0540G0082' => 'vmu', 'VMungo0540G0405' => 'vmu', 'VMungo0540G1486' => 'vmu', 'VMungo0540G1692' => 'vmu', 'VMungo0720G2473' => 'vmu', 'VMungo1127G1562' => 'vmu', 'VMungo1215G1918' => 'vmu', 'Zm00001eb052650' => 'zma', 'Zm00001eb063710' => 'zma', 'Zm00001eb083950' => 'zma', 'Zm00001eb174420' => 'zma', 'Zm00001eb260140' => 'zma', 'Zm00001eb260150' => 'zma', 'Zm00001eb260160' => 'zma', 'Zm00001eb348290' => 'zma', 'Zm00001eb366870' => 'zma', 'Zm00001eb421930' => 'zma' ), 'gf_id' => 'HOM05D001025', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001025' ), 'data_identifier' => 'HOM05D001025', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001025', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '592', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p22650' => 'bna', 'A01p29720' => 'bna', 'A03p26560' => 'bna', 'A03p68820' => 'bna', 'A04p20980' => 'bna', 'A06p07730' => 'bna', 'A07p18260' => 'bna', 'A08p33710' => 'bna', 'A09p16970' => 'bna', 'A10p27490' => 'bna', 'Aa31LG1G17300' => 'aar', 'Aa31LG1G3910' => 'aar', 'Aa31LG2G9630' => 'aar', 'Aa31LG5G8360' => 'aar', 'Aa31LG9G2410' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4699' => 'aag', 'Actinidia23512' => 'ach', 'Actinidia37080' => 'ach', 'Ah.01g020380' => 'amhyb', 'Ah.08g215710' => 'amhyb', 'Ah.09g225110' => 'amhyb', 'Ah.10g036680' => 'amhyb', 'AL1G21940' => 'aly', 'AL2G15540' => 'aly', 'AL4G21520' => 'aly', 'AL7G40960' => 'aly', 'Aqoxy2G01191' => 'aox', 'Aqoxy2G03393' => 'aox', 'Aqoxy4G02775' => 'aox', 'Aqoxy6G00058' => 'aox', 'arahy.Tifrunner.gnm1.ann1.9X74H2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CW3FX9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R485W7' => 'arhy', 'AT1G10960' => 'ath', 'AT1G60950' => 'ath', 'AT2G27510' => 'ath', 'AT4G14890' => 'ath', 'AT5G10000' => 'ath', 'ATR0665G624' => 'atr', 'ATR0697G138' => 'atr', 'ATR0776G046' => 'atr', 'ATR1134G135' => 'atr', 'Atru.chr12.1025' => 'acertr', 'Atru.chr3.3241' => 'acertr', 'Atru.chr4.2460' => 'acertr', 'AUR62007427' => 'cqu', 'AUR62010960' => 'cqu', 'AUR62012201' => 'cqu', 'AUR62021470' => 'cqu', 'AUR62022834' => 'cqu', 'AUR62033635' => 'cqu', 'AUR62036186' => 'cqu', 'BcaB01g03077' => 'bca', 'BcaB02g10093' => 'bca', 'BcaB04g20295' => 'bca', 'BcaB06g28147' => 'bca', 'BcaB07g31253' => 'bca', 'BcaC01g04946' => 'bca', 'BcaC02g10614' => 'bca', 'BcaC02g10885' => 'bca', 'BcaC04g19356' => 'bca', 'BcaC04g22297' => 'bca', 'BcaC05g24977' => 'bca', 'BcaC06g31823' => 'bca', 'BcaC07g38633' => 'bca', 'BcaC09g49353' => 'bca', 'BcaC09g50168' => 'bca', 'BcaNung00322' => 'bca', 'BcaNung04769' => 'bca', 'BolC1t02753H' => 'bol', 'BolC1t03721H' => 'bol', 'BolC3t15525H' => 'bol', 'BolC4t23903H' => 'bol', 'BolC4t24231H' => 'bol', 'BolC4t27209H' => 'bol', 'BolC5t29671H' => 'bol', 'BolC8t49044H' => 'bol', 'BolC9t54999H' => 'bol', 'BolC9t59517H' => 'bol', 'BraA01t02178Z' => 'bra', 'BraA01t03099Z' => 'bra', 'BraA03t11867Z' => 'bra', 'BraA04t17667Z' => 'bra', 'BraA07t29542Z' => 'bra', 'BraA08t35287Z' => 'bra', 'BraA09t37334Z' => 'bra', 'BraA10t44801Z' => 'bra', 'BraSC39t46181Z' => 'bra', 'C01p28240' => 'bna', 'C01p37530' => 'bna', 'C03p31820' => 'bna', 'C04p24080' => 'bna', 'C04p25790' => 'bna', 'C04p56770' => 'bna', 'C05p09310' => 'bna', 'C09p21010' => 'bna', 'C09p67560' => 'bna', 'CAN.G1324.7' => 'can', 'CAN.G1358.10' => 'can', 'CAN.G1550.2' => 'can', 'CAN.G186.56' => 'can', 'CAN.G1965.1' => 'can', 'CAN.G645.15' => 'can', 'CAN.G798.26' => 'can', 'CAN.G798.27' => 'can', 'CAN.G798.29' => 'can', 'CAN.G919.31' => 'can', 'CANSAT11G0133' => 'cansat', 'CANSAT11G1171' => 'cansat', 'CANSAT11G2056' => 'cansat', 'CANSAT56G1202' => 'cansat', 'CANSAT56G1514' => 'cansat', 'CANSAT78G0455' => 'cansat', 'CARHR011190' => 'chi', 'CARHR051980' => 'chi', 'CARHR120170' => 'chi', 'CARHR203310' => 'chi', 'CARHR221490' => 'chi', 'Carub.0001s1054' => 'cru', 'Carub.0002s0431' => 'cru', 'Carub.0004s0818' => 'cru', 'Carub.0006s0846' => 'cru', 'Carub.0007s2722' => 'cru', 'Ca_00058_v3' => 'car', 'Ca_17831_v3' => 'car', 'Ca_19408_v3' => 'car', 'Ca_24397_v3' => 'car', 'Ca_25664_v3' => 'car', 'CBR_g21818' => 'cbr', 'CBR_g31195' => 'cbr', 'CBR_g32282' => 'cbr', 'CBR_g39599' => 'cbr', 'CBR_g49410' => 'cbr', 'Cc01_g09120' => 'ccan', 'Cc01_g09130' => 'ccan', 'Cc02_g09630' => 'ccan', 'Cc02_g22810' => 'ccan', 'Cc03_g03810' => 'ccan', 'CDE02G3718' => 'cde', 'CDE04G3183' => 'cde', 'CDE07G1046' => 'cde', 'CDE08G0480' => 'cde', 'Cfa005493' => 'cfa', 'Cfa010312' => 'cfa', 'Cfa015648' => 'cfa', 'Ciclev10002793m.g' => 'ccl', 'Ciclev10003356m.g' => 'ccl', 'Ciclev10006141m.g' => 'ccl', 'Ciclev10016676m.g' => 'ccl', 'Ciclev10017081m.g' => 'ccl', 'Ciclev10029499m.g' => 'ccl', 'CiPaw.01G166300' => 'cil', 'CiPaw.06G145600' => 'cil', 'CiPaw.13G040100' => 'cil', 'CiPaw.13G135800' => 'cil', 'ClCG01G012230' => 'cla', 'ClCG05G009510' => 'cla', 'ClCG08G008270' => 'cla', 'COL.COLO4_11763' => 'col', 'COL.COLO4_19876' => 'col', 'COL.COLO4_21481' => 'col', 'Cpa.g.sc118.34' => 'cpa', 'Cpa.g.sc32.13' => 'cpa', 'Cpa.g.sc58.103' => 'cpa', 'Cre03.g183850' => 'cre', 'Cre06.g306350' => 'cre', 'Cre07.g334800' => 'cre', 'Cre12.g487900' => 'cre', 'Cre14.g626700' => 'cre', 'Cre16.g658400' => 'cre', 'Cre17.g700950' => 'cre', 'CsaV3_1G014830' => 'csa', 'CsaV3_3G013320' => 'csa', 'CsaV3_3G019210' => 'csa', 'CsaV3_3G019220' => 'csa', 'CsaV3_6G004230' => 'csa', 'CSS0003773' => 'camsi', 'CSS0004563' => 'camsi', 'CSS0013949' => 'camsi', 'CSS0025971' => 'camsi', 'CSS0028570' => 'camsi', 'CSS0033127' => 'camsi', 'CSS0036051' => 'camsi', 'CSS0040087' => 'camsi', 'CSS0043179' => 'camsi', 'DCAR_006161' => 'dca', 'DCAR_010351' => 'dca', 'DCAR_012197' => 'dca', 'DCAR_024162' => 'dca', 'Dinv01030' => 'din', 'Dinv10924' => 'din', 'Dinv11835' => 'din', 'Dinv22841' => 'din', 'Dinv42553' => 'din', 'Duzib052G0560' => 'dzi', 'Duzib132G0389' => 'dzi', 'Duzib150G1181' => 'dzi', 'Duzib168G0623' => 'dzi', 'Duzib170G1036' => 'dzi', 'Duzib212G0200' => 'dzi', 'Duzib248G0194' => 'dzi', 'ECA232G2193' => 'eca', 'ECA233G0302' => 'eca', 'ECA234G2813' => 'eca', 'ECA234G4866' => 'eca', 'ECA240G3932' => 'eca', 'ECA248G0385' => 'eca', 'EL10Ac2g04781' => 'bvu', 'EL10Ac3g06445' => 'bvu', 'EL10Ac7g15825' => 'bvu', 'EL10Ac8g18550' => 'bvu', 'Eucgr.B03849' => 'egr', 'Eucgr.I02744' => 'egr', 'Eucgr.J00264' => 'egr', 'Eucgr.J00493' => 'egr', 'FAN04G2181' => 'fan', 'FAN07G2666' => 'fan', 'FAN11G0024' => 'fan', 'FAN12G1105' => 'fan', 'FAN13G0302' => 'fan', 'FAN15G2781' => 'fan', 'FAN16G1274' => 'fan', 'FAN17G2988' => 'fan', 'FAN18G2621' => 'fan', 'FAN21G0013' => 'fan', 'FAN22G1211' => 'fan', 'FAN25G3626' => 'fan', 'FvH4_2g09491' => 'fve', 'FvH4_3g24910' => 'fve', 'FvH4_4g15630' => 'fve', 'FvH4_5g28820' => 'fve', 'Glyma.01G238000' => 'gma', 'Glyma.05G168400' => 'gma', 'Glyma.08G126800' => 'gma', 'Glyma.08G188500' => 'gma', 'Glyma.10G278900' => 'gma', 'Glyma.11G005700' => 'gma', 'Glyma.11G183300' => 'gma', 'Glyma.12G089200' => 'gma', 'Glyma.12G169400' => 'gma', 'Glyma.12G169500' => 'gma', 'Glyma.12G169600' => 'gma', 'Glyma.20G110800' => 'gma', 'Gohir.A03G192900' => 'ghi', 'Gohir.A03G193000' => 'ghi', 'Gohir.A05G080700' => 'ghi', 'Gohir.A09G216000' => 'ghi', 'Gohir.A12G027700' => 'ghi', 'Gohir.A13G036200' => 'ghi', 'Gohir.A13G222600' => 'ghi', 'Gohir.D02G213900' => 'ghi', 'Gohir.D02G214000' => 'ghi', 'Gohir.D05G083700' => 'ghi', 'Gohir.D05G083800' => 'ghi', 'Gohir.D05G083850' => 'ghi', 'Gohir.D08G015400' => 'ghi', 'Gohir.D09G218400' => 'ghi', 'Gohir.D12G027100' => 'ghi', 'Gohir.D13G034500' => 'ghi', 'Gohir.D13G227400' => 'ghi', 'Gorai.005G241800' => 'gra', 'Gorai.005G241900' => 'gra', 'Gorai.006G239400' => 'gra', 'Gorai.008G027600' => 'gra', 'Gorai.009G085400' => 'gra', 'Gorai.009G085500' => 'gra', 'Gorai.013G039000' => 'gra', 'Gorai.013G194800' => 'gra', 'Gorai.013G257900' => 'gra', 'GSVIVG01000982001' => 'vvi', 'GSVIVG01017981001' => 'vvi', 'HanXRQChr01g0024061' => 'han', 'HanXRQChr09g0247831' => 'han', 'HanXRQChr10g0294611' => 'han', 'HanXRQChr10g0294621' => 'han', 'HanXRQChr11g0346821' => 'han', 'HanXRQChr13g0397461' => 'han', 'HanXRQChr16g0513651' => 'han', 'HanXRQChr16g0513701' => 'han', 'Haze_00897' => 'cav', 'Haze_01745' => 'cav', 'Haze_02486' => 'cav', 'Haze_02487' => 'cav', 'Haze_23374' => 'cav', 'Hma1.2p1_0578F.1_g182520' => 'hma', 'Hma1.2p1_0602F.1_g187350' => 'hma', 'Hma1.2p1_0602F.1_g187360' => 'hma', 'Hma1.2p1_0874F.1_g231320' => 'hma', 'Hma1.2p1_1197F.1_g266210' => 'hma', 'Hma1.2p1_1197F.1_g266220' => 'hma', 'Hma1.2p1_2167F.1_g315895' => 'hma', 'Hma1.2p1_2190F.1_g316640' => 'hma', 'Hma1.2p1_3645F.1_g337153' => 'hma', 'HPP92_004907' => 'vpl', 'HPP92_012134' => 'vpl', 'HPP92_025136' => 'vpl', 'HPP92_026087' => 'vpl', 'Hund06782' => 'sun', 'Hund06784' => 'sun', 'Lalb_Chr01g0004861' => 'lal', 'Lalb_Chr02g0140591' => 'lal', 'Lalb_Chr02g0140611' => 'lal', 'Lalb_Chr03g0028101' => 'lal', 'Lalb_Chr07g0185791' => 'lal', 'Lalb_Chr12g0204491' => 'lal', 'Lalb_Chr13g0295671' => 'lal', 'Lalb_Chr19g0136461' => 'lal', 'Lalb_Chr21g0309191' => 'lal', 'Lj1g0028158' => 'lja', 'Lj1P236T38' => 'lonja', 'Lj2C32G2' => 'lonja', 'Lj2P944T8' => 'lonja', 'Lj2P963T15' => 'lonja', 'Lj3g0011788' => 'lja', 'Lj4g0025027' => 'lja', 'Lj5P255T36' => 'lonja', 'Lj6g0018866' => 'lja', 'Lj6P608T31' => 'lonja', 'LjContig00408g0008879' => 'lja', 'Lsat_1_v5_gn_5_105820' => 'lsa', 'Lsat_1_v5_gn_6_38800' => 'lsa', 'Lsat_1_v5_gn_7_67141' => 'lsa', 'Manes.04G003400' => 'mes', 'Manes.07G020000' => 'mes', 'Manes.07G020100' => 'mes', 'Manes.07G020150' => 'mes', 'Manes.10G061500' => 'mes', 'Manes.10G123200' => 'mes', 'Manes.11G161900' => 'mes', 'Manes.15G029300' => 'mes', 'Mapoly0071s0018' => 'mpo', 'Mapoly0082s0023' => 'mpo', 'Mapoly3477s0001' => 'mpo', 'MBI05_g31233_MAGBIO' => 'mbi', 'MBI09_g05946_MAGBIO' => 'mbi', 'MBI09_g05947_MAGBIO' => 'mbi', 'MBI17_g08346_MAGBIO' => 'mbi', 'MCO04G038' => 'mco', 'MCO09G370' => 'mco', 'MCO13G605' => 'mco', 'MD00G1075500' => 'mdo', 'MD03G1144300' => 'mdo', 'MD08G1236800' => 'mdo', 'MD13G1193300' => 'mdo', 'MD15G1428700' => 'mdo', 'Medtr1g112030' => 'mtr', 'Medtr1g112050' => 'mtr', 'Medtr2g006290' => 'mtr', 'Medtr2g086510' => 'mtr', 'Medtr4g053120' => 'mtr', 'Medtr5g006320' => 'mtr', 'Medtr8g088720' => 'mtr', 'MELO3C004712.2' => 'cme', 'MELO3C006533.2' => 'cme', 'MELO3C019438.2' => 'cme', 'MELO3C019440.2' => 'cme', 'MELO3C019441.2' => 'cme', 'MELO3C019895.2' => 'cme', 'Migut.B00811' => 'egut', 'Migut.D02447' => 'egut', 'Migut.F00875' => 'egut', 'Migut.N00186' => 'egut', 'Migut.N01051' => 'egut', 'Migut.N02491' => 'egut', 'Migut.O00784' => 'egut', 'MSTRG.12367' => 'ama', 'MSTRG.18756' => 'ama', 'MSTRG.21042' => 'ama', 'Nitab4.5_0000559g0040' => 'nta', 'Nitab4.5_0000667g0190' => 'nta', 'Nitab4.5_0000755g0160' => 'nta', 'Nitab4.5_0001216g0080' => 'nta', 'Nitab4.5_0004069g0040' => 'nta', 'Nitab4.5_0004129g0010' => 'nta', 'Nitab4.5_0005744g0030' => 'nta', 'Nitab4.5_0006996g0030' => 'nta', 'Nitab4.5_0008971g0040' => 'nta', 'Nitab4.5_0009769g0020' => 'nta', 'Nitab4.5_0009833g0010' => 'nta', 'Nitab4.5_0013140g0020' => 'nta', 'Nn003s41376' => 'nnu', 'Nn1g01857' => 'nnu', 'Nn1g03611' => 'nnu', 'Nn1g06853' => 'nnu', 'Nn3g18360' => 'nnu', 'Nn4g26328' => 'nnu', 'Nn5g27531' => 'nnu', 'Nn6g34899' => 'nnu', 'Nn7g36299' => 'nnu', 'Oeu021485.1' => 'oeu', 'Oeu022433.1' => 'oeu', 'Oeu032111.1' => 'oeu', 'Oeu051608.1' => 'oeu', 'Os01g0860601' => 'osa', 'Os03g0659200' => 'osa', 'Os03g0835900' => 'osa', 'Os04g0412200' => 'osa', 'Os05g0443500' => 'osa', 'Os07g0251500' => 'osa', 'Os08g0104600' => 'osa', 'Peaxi162Scf00003g00047' => 'pax', 'Peaxi162Scf00003g00052' => 'pax', 'Peaxi162Scf00003g00394' => 'pax', 'Peaxi162Scf00091g00621' => 'pax', 'Peaxi162Scf00152g00146' => 'pax', 'Peaxi162Scf00173g00025' => 'pax', 'Peaxi162Scf00195g00102' => 'pax', 'Peaxi162Scf00402g00013' => 'pax', 'Peaxi162Scf00519g00618' => 'pax', 'PGR004G2838' => 'pgr', 'PGR044G2275' => 'pgr', 'PGR102G1377' => 'pgr', 'PGR119G1245' => 'pgr', 'PGR142G4449' => 'pgr', 'PGSC0003DMG400004532' => 'stu', 'PGSC0003DMG400011950' => 'stu', 'PGSC0003DMG400023391' => 'stu', 'PGSC0003DMG400023985' => 'stu', 'PGSC0003DMG400026360' => 'stu', 'PGSC0003DMG400035711' => 'stu', 'PGSC0003DMG400037286' => 'stu', 'PGSC0003DMG402005881' => 'stu', 'Phvul.002G045400' => 'pvu', 'Phvul.006G216600' => 'pvu', 'Phvul.006G216700' => 'pvu', 'Phvul.006G216800' => 'pvu', 'Phvul.007G022500' => 'pvu', 'Phvul.011G094400' => 'pvu', 'Potri.001G470700' => 'ptr', 'Potri.003G015200' => 'ptr', 'Potri.004G202500' => 'ptr', 'Potri.004G218400' => 'ptr', 'Potri.008G020100' => 'ptr', 'Potri.008G153200' => 'ptr', 'Potri.009G163800' => 'ptr', 'Potri.010G087300' => 'ptr', 'Potri.010G239100' => 'ptr', 'Pp3c10_16100' => 'ppa', 'Pp3c10_16880' => 'ppa', 'Pp3c16_6230' => 'ppa', 'Pp3c17_18910' => 'ppa', 'Pp3c3_22119' => 'ppa', 'Pp3c3_22140' => 'ppa', 'Pp3c4_8159' => 'ppa', 'Pp3c4_8171' => 'ppa', 'Pp3c4_8330' => 'ppa', 'PRCOL_00004098' => 'pco', 'Prupe.1G013900' => 'ppe', 'Prupe.1G226300' => 'ppe', 'Prupe.1G573600' => 'ppe', 'Prupe.6G130100' => 'ppe', 'Psat3g090040' => 'psa', 'Psat4g210440' => 'psa', 'Psat6g231040' => 'psa', 'Psat6g231080' => 'psa', 'Psat7g063000' => 'psa', 'Psat7g188000' => 'psa', 'Psat7g188040' => 'psa', 'PSO017G0206' => 'pso', 'PSO170G0501' => 'pso', 'PSO170G6422' => 'pso', 'PSO210G7739' => 'pso', 'PSO339G1808' => 'pso', 'PSO339G6135' => 'pso', 'PSO384G0010' => 'pso', 'PSO384G0964' => 'pso', 'PSO761G0050' => 'pso', 'PSO782G4085' => 'pso', 'QL01p012264' => 'qlo', 'QL02p099491' => 'qlo', 'QL03p033868' => 'qlo', 'QL04p046678' => 'qlo', 'QL06p002448' => 'qlo', 'RcHm_v2.0_Chr4g0416181' => 'rch', 'RcHm_v2.0_Chr5g0044701' => 'rch', 'RcHm_v2.0_Chr6g0265781' => 'rch', 'RcHm_v2.0_Chr7g0221031' => 'rch', 'Rhsim04G0202000' => 'rsi', 'Rhsim11G0127300' => 'rsi', 'Rhsim13G0111800' => 'rsi', 'Sabra01G0165600' => 'sbr', 'Sabra03G0008300' => 'sbr', 'Sabra04G0136900' => 'sbr', 'Sabra08G0013400' => 'sbr', 'Sabra08G0116800' => 'sbr', 'Sabra09G0128000' => 'sbr', 'Sabra10G0055500' => 'sbr', 'Sabra10G0073300' => 'sbr', 'SalBow3G0385' => 'sbo', 'SalBow3G1119' => 'sbo', 'SalBow3G2005' => 'sbo', 'SalBow6G2563' => 'sbo', 'SalBow6G6386' => 'sbo', 'Sc06g0008800' => 'sci', 'Sc07g0004950' => 'sci', 'Sc09g0005340' => 'sci', 'Sc13g0004410' => 'sci', 'Sc21g0007090' => 'sci', 'Sed0009285' => 'sed', 'Sed0017583' => 'sed', 'Sed0019699' => 'sed', 'Sed0023107' => 'sed', 'SEGI_10916' => 'sgi', 'SEGI_16217' => 'sgi', 'SEGI_19466' => 'sgi', 'SEGI_41115' => 'sgi', 'SGA_v2.0_scaffold111G31534' => 'sas', 'SGA_v2.0_scaffold22G09864' => 'sas', 'SGA_v2.0_scaffold338G49219' => 'sas', 'SGA_v2.0_scaffold92G28298' => 'sas', 'SMO119G0064' => 'smo', 'SMO223G0038' => 'smo', 'SMO347G0584' => 'smo', 'SMO351G0010' => 'smo', 'SMO356G0404' => 'smo', 'Solyc01g103920.3' => 'sly', 'Solyc04g009710.2' => 'sly', 'Solyc05g055280.2' => 'sly', 'Solyc10g044520.3' => 'sly', 'Solyc10g075160.1' => 'sly', 'Solyc11g006910.3' => 'sly', 'Solyc11g068430.3' => 'sly', 'Sopen01g046310' => 'spe', 'Sopen03g001200' => 'spe', 'Sopen04g004830' => 'spe', 'Sopen05g033720' => 'spe', 'Sopen06g030740' => 'spe', 'Sopen10g013090' => 'spe', 'Sopen10g027630' => 'spe', 'Sopen10g027640' => 'spe', 'Sopen11g002820' => 'spe', 'Sopen11g027140' => 'spe', 'Sp1g09680' => 'spa', 'Sp2g03630' => 'spa', 'Sp4g10320' => 'spa', 'Sp6g33400' => 'spa', 'Sp7g13030' => 'spa', 'TAR365G0317' => 'tar', 'TAR376G0979' => 'tar', 'TAR623G1665' => 'tar', 'TAR633G2373' => 'tar', 'TAR636G1400' => 'tar', 'THA.LOC104800529' => 'tha', 'THA.LOC104808547' => 'tha', 'THA.LOC104809615' => 'tha', 'THA.LOC104815724' => 'tha', 'THA.LOC104818480' => 'tha', 'THA.LOC104819179' => 'tha', 'THA.LOC104822270' => 'tha', 'THA.LOC104826425' => 'tha', 'Thecc.02G089700' => 'tca', 'Thecc.04G232300' => 'tca', 'Thecc.09G283400' => 'tca', 'Thhalv10009020m.g' => 'esa', 'Thhalv10015506m.g' => 'esa', 'Thhalv10017364m.g' => 'esa', 'Thhalv10023742m.g' => 'esa', 'Thhalv10026483m.g' => 'esa', 'TPR.G17232' => 'tpr', 'TPR.G2133' => 'tpr', 'TPR.G2498' => 'tpr', 'TPR.G31942' => 'tpr', 'TPR.G37877' => 'tpr', 'TPR.G4571' => 'tpr', 'TWI14G1113' => 'twi', 'TWI15G0426' => 'twi', 'TWI31G1005' => 'twi', 'TWI38G0513' => 'twi', 'TWI38G1484' => 'twi', 'TWI73G1098' => 'twi', 'unitig_26.g10519' => 'ugi', 'unitig_736.g22395' => 'ugi', 'unitig_747.g21234' => 'ugi', 'unitig_747.g21942' => 'ugi', 'vmacro14351' => 'vma', 'VMungo0540G0082' => 'vmu', 'VMungo0540G0405' => 'vmu', 'VMungo0540G1486' => 'vmu', 'VMungo0540G1692' => 'vmu', 'VMungo0720G2473' => 'vmu', 'VMungo1127G1562' => 'vmu', 'VMungo1215G1918' => 'vmu', 'Zm00001eb052650' => 'zma', 'Zm00001eb063710' => 'zma', 'Zm00001eb083950' => 'zma', 'Zm00001eb174420' => 'zma', 'Zm00001eb260140' => 'zma', 'Zm00001eb260150' => 'zma', 'Zm00001eb260160' => 'zma', 'Zm00001eb348290' => 'zma', 'Zm00001eb366870' => 'zma', 'Zm00001eb421930' => 'zma' ) $gf_id = 'HOM05D001025' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001025' ) $data_identifier = 'HOM05D001025' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 19, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 2, 'amhyb' => (int) 4, 'aly' => (int) 4, 'aox' => (int) 4, 'arhy' => (int) 3, 'ath' => (int) 5, 'atr' => (int) 4, 'acertr' => (int) 3, 'cqu' => (int) 7, 'bca' => (int) 17, 'bol' => (int) 10, 'bra' => (int) 9, 'can' => (int) 10, 'cansat' => (int) 6, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 5, 'cbr' => (int) 5, 'ccan' => (int) 5, 'cde' => (int) 4, 'cfa' => (int) 3, 'ccl' => (int) 6, 'cil' => (int) 4, 'cla' => (int) 3, 'col' => (int) 3, 'cpa' => (int) 3, 'cre' => (int) 7, 'csa' => (int) 5, 'camsi' => (int) 9, 'dca' => (int) 4, 'din' => (int) 5, 'dzi' => (int) 7, 'eca' => (int) 6, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 12, 'fve' => (int) 4, 'gma' => (int) 12, 'ghi' => (int) 17, 'gra' => (int) 9, 'vvi' => (int) 2, 'han' => (int) 8, 'cav' => (int) 5, 'hma' => (int) 9, 'vpl' => (int) 4, 'sun' => (int) 2, 'lal' => (int) 9, 'lja' => (int) 5, 'lonja' => (int) 6, 'lsa' => (int) 3, 'mes' => (int) 8, 'mpo' => (int) 3, 'mbi' => (int) 4, 'mco' => (int) 3, 'mdo' => (int) 5, 'mtr' => (int) 7, 'cme' => (int) 6, 'egut' => (int) 7, 'ama' => (int) 3, 'nta' => (int) 12, 'nnu' => (int) 9, 'oeu' => (int) 4, 'osa' => (int) 7, 'pax' => (int) 9, 'pgr' => (int) 5, 'stu' => (int) 8, 'pvu' => (int) 6, 'ptr' => (int) 9, 'ppa' => (int) 9, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 7, 'pso' => (int) 10, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 3, 'sbr' => (int) 8, 'sbo' => (int) 5, 'sci' => (int) 5, 'sed' => (int) 4, 'sgi' => (int) 4, 'sas' => (int) 4, 'smo' => (int) 5, 'sly' => (int) 7, 'spe' => (int) 10, 'spa' => (int) 5, 'tar' => (int) 5, 'tha' => (int) 8, 'tca' => (int) 3, 'esa' => (int) 5, 'tpr' => (int) 6, 'twi' => (int) 6, 'ugi' => (int) 4, 'vma' => (int) 1, 'vmu' => (int) 7, 'zma' => (int) 10 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb421930' $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' => 'HOM05D001025', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '592', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p22650' => 'bna', 'A01p29720' => 'bna', 'A03p26560' => 'bna', 'A03p68820' => 'bna', 'A04p20980' => 'bna', 'A06p07730' => 'bna', 'A07p18260' => 'bna', 'A08p33710' => 'bna', 'A09p16970' => 'bna', 'A10p27490' => 'bna', 'Aa31LG1G17300' => 'aar', 'Aa31LG1G3910' => 'aar', 'Aa31LG2G9630' => 'aar', 'Aa31LG5G8360' => 'aar', 'Aa31LG9G2410' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4699' => 'aag', 'Actinidia23512' => 'ach', 'Actinidia37080' => 'ach', 'Ah.01g020380' => 'amhyb', 'Ah.08g215710' => 'amhyb', 'Ah.09g225110' => 'amhyb', 'Ah.10g036680' => 'amhyb', 'AL1G21940' => 'aly', 'AL2G15540' => 'aly', 'AL4G21520' => 'aly', 'AL7G40960' => 'aly', 'Aqoxy2G01191' => 'aox', 'Aqoxy2G03393' => 'aox', 'Aqoxy4G02775' => 'aox', 'Aqoxy6G00058' => 'aox', 'arahy.Tifrunner.gnm1.ann1.9X74H2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CW3FX9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R485W7' => 'arhy', 'AT1G10960' => 'ath', 'AT1G60950' => 'ath', 'AT2G27510' => 'ath', 'AT4G14890' => 'ath', 'AT5G10000' => 'ath', 'ATR0665G624' => 'atr', 'ATR0697G138' => 'atr', 'ATR0776G046' => 'atr', 'ATR1134G135' => 'atr', 'Atru.chr12.1025' => 'acertr', 'Atru.chr3.3241' => 'acertr', 'Atru.chr4.2460' => 'acertr', 'AUR62007427' => 'cqu', 'AUR62010960' => 'cqu', 'AUR62012201' => 'cqu', 'AUR62021470' => 'cqu', 'AUR62022834' => 'cqu', 'AUR62033635' => 'cqu', 'AUR62036186' => 'cqu', 'BcaB01g03077' => 'bca', 'BcaB02g10093' => 'bca', 'BcaB04g20295' => 'bca', 'BcaB06g28147' => 'bca', 'BcaB07g31253' => 'bca', 'BcaC01g04946' => 'bca', 'BcaC02g10614' => 'bca', 'BcaC02g10885' => 'bca', 'BcaC04g19356' => 'bca', 'BcaC04g22297' => 'bca', 'BcaC05g24977' => 'bca', 'BcaC06g31823' => 'bca', 'BcaC07g38633' => 'bca', 'BcaC09g49353' => 'bca', 'BcaC09g50168' => 'bca', 'BcaNung00322' => 'bca', 'BcaNung04769' => 'bca', 'BolC1t02753H' => 'bol', 'BolC1t03721H' => 'bol', 'BolC3t15525H' => 'bol', 'BolC4t23903H' => 'bol', 'BolC4t24231H' => 'bol', 'BolC4t27209H' => 'bol', 'BolC5t29671H' => 'bol', 'BolC8t49044H' => 'bol', 'BolC9t54999H' => 'bol', 'BolC9t59517H' => 'bol', 'BraA01t02178Z' => 'bra', 'BraA01t03099Z' => 'bra', 'BraA03t11867Z' => 'bra', 'BraA04t17667Z' => 'bra', 'BraA07t29542Z' => 'bra', 'BraA08t35287Z' => 'bra', 'BraA09t37334Z' => 'bra', 'BraA10t44801Z' => 'bra', 'BraSC39t46181Z' => 'bra', 'C01p28240' => 'bna', 'C01p37530' => 'bna', 'C03p31820' => 'bna', 'C04p24080' => 'bna', 'C04p25790' => 'bna', 'C04p56770' => 'bna', 'C05p09310' => 'bna', 'C09p21010' => 'bna', 'C09p67560' => 'bna', 'CAN.G1324.7' => 'can', 'CAN.G1358.10' => 'can', 'CAN.G1550.2' => 'can', 'CAN.G186.56' => 'can', 'CAN.G1965.1' => 'can', 'CAN.G645.15' => 'can', 'CAN.G798.26' => 'can', 'CAN.G798.27' => 'can', 'CAN.G798.29' => 'can', 'CAN.G919.31' => 'can', 'CANSAT11G0133' => 'cansat', 'CANSAT11G1171' => 'cansat', 'CANSAT11G2056' => 'cansat', 'CANSAT56G1202' => 'cansat', 'CANSAT56G1514' => 'cansat', 'CANSAT78G0455' => 'cansat', 'CARHR011190' => 'chi', 'CARHR051980' => 'chi', 'CARHR120170' => 'chi', 'CARHR203310' => 'chi', 'CARHR221490' => 'chi', 'Carub.0001s1054' => 'cru', 'Carub.0002s0431' => 'cru', 'Carub.0004s0818' => 'cru', 'Carub.0006s0846' => 'cru', 'Carub.0007s2722' => 'cru', 'Ca_00058_v3' => 'car', 'Ca_17831_v3' => 'car', 'Ca_19408_v3' => 'car', 'Ca_24397_v3' => 'car', 'Ca_25664_v3' => 'car', 'CBR_g21818' => 'cbr', 'CBR_g31195' => 'cbr', 'CBR_g32282' => 'cbr', 'CBR_g39599' => 'cbr', 'CBR_g49410' => 'cbr', 'Cc01_g09120' => 'ccan', 'Cc01_g09130' => 'ccan', 'Cc02_g09630' => 'ccan', 'Cc02_g22810' => 'ccan', 'Cc03_g03810' => 'ccan', 'CDE02G3718' => 'cde', 'CDE04G3183' => 'cde', 'CDE07G1046' => 'cde', 'CDE08G0480' => 'cde', 'Cfa005493' => 'cfa', 'Cfa010312' => 'cfa', 'Cfa015648' => 'cfa', 'Ciclev10002793m.g' => 'ccl', 'Ciclev10003356m.g' => 'ccl', 'Ciclev10006141m.g' => 'ccl', 'Ciclev10016676m.g' => 'ccl', 'Ciclev10017081m.g' => 'ccl', 'Ciclev10029499m.g' => 'ccl', 'CiPaw.01G166300' => 'cil', 'CiPaw.06G145600' => 'cil', 'CiPaw.13G040100' => 'cil', 'CiPaw.13G135800' => 'cil', 'ClCG01G012230' => 'cla', 'ClCG05G009510' => 'cla', 'ClCG08G008270' => 'cla', 'COL.COLO4_11763' => 'col', 'COL.COLO4_19876' => 'col', 'COL.COLO4_21481' => 'col', 'Cpa.g.sc118.34' => 'cpa', 'Cpa.g.sc32.13' => 'cpa', 'Cpa.g.sc58.103' => 'cpa', 'Cre03.g183850' => 'cre', 'Cre06.g306350' => 'cre', 'Cre07.g334800' => 'cre', 'Cre12.g487900' => 'cre', 'Cre14.g626700' => 'cre', 'Cre16.g658400' => 'cre', 'Cre17.g700950' => 'cre', 'CsaV3_1G014830' => 'csa', 'CsaV3_3G013320' => 'csa', 'CsaV3_3G019210' => 'csa', 'CsaV3_3G019220' => 'csa', 'CsaV3_6G004230' => 'csa', 'CSS0003773' => 'camsi', 'CSS0004563' => 'camsi', 'CSS0013949' => 'camsi', 'CSS0025971' => 'camsi', 'CSS0028570' => 'camsi', 'CSS0033127' => 'camsi', 'CSS0036051' => 'camsi', 'CSS0040087' => 'camsi', 'CSS0043179' => 'camsi', 'DCAR_006161' => 'dca', 'DCAR_010351' => 'dca', 'DCAR_012197' => 'dca', 'DCAR_024162' => 'dca', 'Dinv01030' => 'din', 'Dinv10924' => 'din', 'Dinv11835' => 'din', 'Dinv22841' => 'din', 'Dinv42553' => 'din', 'Duzib052G0560' => 'dzi', 'Duzib132G0389' => 'dzi', 'Duzib150G1181' => 'dzi', 'Duzib168G0623' => 'dzi', 'Duzib170G1036' => 'dzi', 'Duzib212G0200' => 'dzi', 'Duzib248G0194' => 'dzi', 'ECA232G2193' => 'eca', 'ECA233G0302' => 'eca', 'ECA234G2813' => 'eca', 'ECA234G4866' => 'eca', 'ECA240G3932' => 'eca', 'ECA248G0385' => 'eca', 'EL10Ac2g04781' => 'bvu', 'EL10Ac3g06445' => 'bvu', 'EL10Ac7g15825' => 'bvu', 'EL10Ac8g18550' => 'bvu', 'Eucgr.B03849' => 'egr', 'Eucgr.I02744' => 'egr', 'Eucgr.J00264' => 'egr', 'Eucgr.J00493' => 'egr', 'FAN04G2181' => 'fan', 'FAN07G2666' => 'fan', 'FAN11G0024' => 'fan', 'FAN12G1105' => 'fan', 'FAN13G0302' => 'fan', 'FAN15G2781' => 'fan', 'FAN16G1274' => 'fan', 'FAN17G2988' => 'fan', 'FAN18G2621' => 'fan', 'FAN21G0013' => 'fan', 'FAN22G1211' => 'fan', 'FAN25G3626' => 'fan', 'FvH4_2g09491' => 'fve', 'FvH4_3g24910' => 'fve', 'FvH4_4g15630' => 'fve', 'FvH4_5g28820' => 'fve', 'Glyma.01G238000' => 'gma', 'Glyma.05G168400' => 'gma', 'Glyma.08G126800' => 'gma', 'Glyma.08G188500' => 'gma', 'Glyma.10G278900' => 'gma', 'Glyma.11G005700' => 'gma', 'Glyma.11G183300' => 'gma', 'Glyma.12G089200' => 'gma', 'Glyma.12G169400' => 'gma', 'Glyma.12G169500' => 'gma', 'Glyma.12G169600' => 'gma', 'Glyma.20G110800' => 'gma', 'Gohir.A03G192900' => 'ghi', 'Gohir.A03G193000' => 'ghi', 'Gohir.A05G080700' => 'ghi', 'Gohir.A09G216000' => 'ghi', 'Gohir.A12G027700' => 'ghi', 'Gohir.A13G036200' => 'ghi', 'Gohir.A13G222600' => 'ghi', 'Gohir.D02G213900' => 'ghi', 'Gohir.D02G214000' => 'ghi', 'Gohir.D05G083700' => 'ghi', 'Gohir.D05G083800' => 'ghi', 'Gohir.D05G083850' => 'ghi', 'Gohir.D08G015400' => 'ghi', 'Gohir.D09G218400' => 'ghi', 'Gohir.D12G027100' => 'ghi', 'Gohir.D13G034500' => 'ghi', 'Gohir.D13G227400' => 'ghi', 'Gorai.005G241800' => 'gra', 'Gorai.005G241900' => 'gra', 'Gorai.006G239400' => 'gra', 'Gorai.008G027600' => 'gra', 'Gorai.009G085400' => 'gra', 'Gorai.009G085500' => 'gra', 'Gorai.013G039000' => 'gra', 'Gorai.013G194800' => 'gra', 'Gorai.013G257900' => 'gra', 'GSVIVG01000982001' => 'vvi', 'GSVIVG01017981001' => 'vvi', 'HanXRQChr01g0024061' => 'han', 'HanXRQChr09g0247831' => 'han', 'HanXRQChr10g0294611' => 'han', 'HanXRQChr10g0294621' => 'han', 'HanXRQChr11g0346821' => 'han', 'HanXRQChr13g0397461' => 'han', 'HanXRQChr16g0513651' => 'han', 'HanXRQChr16g0513701' => 'han', 'Haze_00897' => 'cav', 'Haze_01745' => 'cav', 'Haze_02486' => 'cav', 'Haze_02487' => 'cav', 'Haze_23374' => 'cav', 'Hma1.2p1_0578F.1_g182520' => 'hma', 'Hma1.2p1_0602F.1_g187350' => 'hma', 'Hma1.2p1_0602F.1_g187360' => 'hma', 'Hma1.2p1_0874F.1_g231320' => 'hma', 'Hma1.2p1_1197F.1_g266210' => 'hma', 'Hma1.2p1_1197F.1_g266220' => 'hma', 'Hma1.2p1_2167F.1_g315895' => 'hma', 'Hma1.2p1_2190F.1_g316640' => 'hma', 'Hma1.2p1_3645F.1_g337153' => 'hma', 'HPP92_004907' => 'vpl', 'HPP92_012134' => 'vpl', 'HPP92_025136' => 'vpl', 'HPP92_026087' => 'vpl', 'Hund06782' => 'sun', 'Hund06784' => 'sun', 'Lalb_Chr01g0004861' => 'lal', 'Lalb_Chr02g0140591' => 'lal', 'Lalb_Chr02g0140611' => 'lal', 'Lalb_Chr03g0028101' => 'lal', 'Lalb_Chr07g0185791' => 'lal', 'Lalb_Chr12g0204491' => 'lal', 'Lalb_Chr13g0295671' => 'lal', 'Lalb_Chr19g0136461' => 'lal', 'Lalb_Chr21g0309191' => 'lal', 'Lj1g0028158' => 'lja', 'Lj1P236T38' => 'lonja', 'Lj2C32G2' => 'lonja', 'Lj2P944T8' => 'lonja', 'Lj2P963T15' => 'lonja', 'Lj3g0011788' => 'lja', 'Lj4g0025027' => 'lja', 'Lj5P255T36' => 'lonja', 'Lj6g0018866' => 'lja', 'Lj6P608T31' => 'lonja', 'LjContig00408g0008879' => 'lja', 'Lsat_1_v5_gn_5_105820' => 'lsa', 'Lsat_1_v5_gn_6_38800' => 'lsa', 'Lsat_1_v5_gn_7_67141' => 'lsa', 'Manes.04G003400' => 'mes', 'Manes.07G020000' => 'mes', 'Manes.07G020100' => 'mes', 'Manes.07G020150' => 'mes', 'Manes.10G061500' => 'mes', 'Manes.10G123200' => 'mes', 'Manes.11G161900' => 'mes', 'Manes.15G029300' => 'mes', 'Mapoly0071s0018' => 'mpo', 'Mapoly0082s0023' => 'mpo', 'Mapoly3477s0001' => 'mpo', 'MBI05_g31233_MAGBIO' => 'mbi', 'MBI09_g05946_MAGBIO' => 'mbi', 'MBI09_g05947_MAGBIO' => 'mbi', 'MBI17_g08346_MAGBIO' => 'mbi', 'MCO04G038' => 'mco', 'MCO09G370' => 'mco', 'MCO13G605' => 'mco', 'MD00G1075500' => 'mdo', 'MD03G1144300' => 'mdo', 'MD08G1236800' => 'mdo', 'MD13G1193300' => 'mdo', 'MD15G1428700' => 'mdo', 'Medtr1g112030' => 'mtr', 'Medtr1g112050' => 'mtr', 'Medtr2g006290' => 'mtr', 'Medtr2g086510' => 'mtr', 'Medtr4g053120' => 'mtr', 'Medtr5g006320' => 'mtr', 'Medtr8g088720' => 'mtr', 'MELO3C004712.2' => 'cme', 'MELO3C006533.2' => 'cme', 'MELO3C019438.2' => 'cme', 'MELO3C019440.2' => 'cme', 'MELO3C019441.2' => 'cme', 'MELO3C019895.2' => 'cme', 'Migut.B00811' => 'egut', 'Migut.D02447' => 'egut', 'Migut.F00875' => 'egut', 'Migut.N00186' => 'egut', 'Migut.N01051' => 'egut', 'Migut.N02491' => 'egut', 'Migut.O00784' => 'egut', 'MSTRG.12367' => 'ama', 'MSTRG.18756' => 'ama', 'MSTRG.21042' => 'ama', 'Nitab4.5_0000559g0040' => 'nta', 'Nitab4.5_0000667g0190' => 'nta', 'Nitab4.5_0000755g0160' => 'nta', 'Nitab4.5_0001216g0080' => 'nta', 'Nitab4.5_0004069g0040' => 'nta', 'Nitab4.5_0004129g0010' => 'nta', 'Nitab4.5_0005744g0030' => 'nta', 'Nitab4.5_0006996g0030' => 'nta', 'Nitab4.5_0008971g0040' => 'nta', 'Nitab4.5_0009769g0020' => 'nta', 'Nitab4.5_0009833g0010' => 'nta', 'Nitab4.5_0013140g0020' => 'nta', 'Nn003s41376' => 'nnu', 'Nn1g01857' => 'nnu', 'Nn1g03611' => 'nnu', 'Nn1g06853' => 'nnu', 'Nn3g18360' => 'nnu', 'Nn4g26328' => 'nnu', 'Nn5g27531' => 'nnu', 'Nn6g34899' => 'nnu', 'Nn7g36299' => 'nnu', 'Oeu021485.1' => 'oeu', 'Oeu022433.1' => 'oeu', 'Oeu032111.1' => 'oeu', 'Oeu051608.1' => 'oeu', 'Os01g0860601' => 'osa', 'Os03g0659200' => 'osa', 'Os03g0835900' => 'osa', 'Os04g0412200' => 'osa', 'Os05g0443500' => 'osa', 'Os07g0251500' => 'osa', 'Os08g0104600' => 'osa', 'Peaxi162Scf00003g00047' => 'pax', 'Peaxi162Scf00003g00052' => 'pax', 'Peaxi162Scf00003g00394' => 'pax', 'Peaxi162Scf00091g00621' => 'pax', 'Peaxi162Scf00152g00146' => 'pax', 'Peaxi162Scf00173g00025' => 'pax', 'Peaxi162Scf00195g00102' => 'pax', 'Peaxi162Scf00402g00013' => 'pax', 'Peaxi162Scf00519g00618' => 'pax', 'PGR004G2838' => 'pgr', 'PGR044G2275' => 'pgr', 'PGR102G1377' => 'pgr', 'PGR119G1245' => 'pgr', 'PGR142G4449' => 'pgr', 'PGSC0003DMG400004532' => 'stu', 'PGSC0003DMG400011950' => 'stu', 'PGSC0003DMG400023391' => 'stu', 'PGSC0003DMG400023985' => 'stu', 'PGSC0003DMG400026360' => 'stu', 'PGSC0003DMG400035711' => 'stu', 'PGSC0003DMG400037286' => 'stu', 'PGSC0003DMG402005881' => 'stu', 'Phvul.002G045400' => 'pvu', 'Phvul.006G216600' => 'pvu', 'Phvul.006G216700' => 'pvu', 'Phvul.006G216800' => 'pvu', 'Phvul.007G022500' => 'pvu', 'Phvul.011G094400' => 'pvu', 'Potri.001G470700' => 'ptr', 'Potri.003G015200' => 'ptr', 'Potri.004G202500' => 'ptr', 'Potri.004G218400' => 'ptr', 'Potri.008G020100' => 'ptr', 'Potri.008G153200' => 'ptr', 'Potri.009G163800' => 'ptr', 'Potri.010G087300' => 'ptr', 'Potri.010G239100' => 'ptr', 'Pp3c10_16100' => 'ppa', 'Pp3c10_16880' => 'ppa', 'Pp3c16_6230' => 'ppa', 'Pp3c17_18910' => 'ppa', 'Pp3c3_22119' => 'ppa', 'Pp3c3_22140' => 'ppa', 'Pp3c4_8159' => 'ppa', 'Pp3c4_8171' => 'ppa', 'Pp3c4_8330' => 'ppa', 'PRCOL_00004098' => 'pco', 'Prupe.1G013900' => 'ppe', 'Prupe.1G226300' => 'ppe', 'Prupe.1G573600' => 'ppe', 'Prupe.6G130100' => 'ppe', 'Psat3g090040' => 'psa', 'Psat4g210440' => 'psa', 'Psat6g231040' => 'psa', 'Psat6g231080' => 'psa', 'Psat7g063000' => 'psa', 'Psat7g188000' => 'psa', 'Psat7g188040' => 'psa', 'PSO017G0206' => 'pso', 'PSO170G0501' => 'pso', 'PSO170G6422' => 'pso', 'PSO210G7739' => 'pso', 'PSO339G1808' => 'pso', 'PSO339G6135' => 'pso', 'PSO384G0010' => 'pso', 'PSO384G0964' => 'pso', 'PSO761G0050' => 'pso', 'PSO782G4085' => 'pso', 'QL01p012264' => 'qlo', 'QL02p099491' => 'qlo', 'QL03p033868' => 'qlo', 'QL04p046678' => 'qlo', 'QL06p002448' => 'qlo', 'RcHm_v2.0_Chr4g0416181' => 'rch', 'RcHm_v2.0_Chr5g0044701' => 'rch', 'RcHm_v2.0_Chr6g0265781' => 'rch', 'RcHm_v2.0_Chr7g0221031' => 'rch', 'Rhsim04G0202000' => 'rsi', 'Rhsim11G0127300' => 'rsi', 'Rhsim13G0111800' => 'rsi', 'Sabra01G0165600' => 'sbr', 'Sabra03G0008300' => 'sbr', 'Sabra04G0136900' => 'sbr', 'Sabra08G0013400' => 'sbr', 'Sabra08G0116800' => 'sbr', 'Sabra09G0128000' => 'sbr', 'Sabra10G0055500' => 'sbr', 'Sabra10G0073300' => 'sbr', 'SalBow3G0385' => 'sbo', 'SalBow3G1119' => 'sbo', 'SalBow3G2005' => 'sbo', 'SalBow6G2563' => 'sbo', 'SalBow6G6386' => 'sbo', 'Sc06g0008800' => 'sci', 'Sc07g0004950' => 'sci', 'Sc09g0005340' => 'sci', 'Sc13g0004410' => 'sci', 'Sc21g0007090' => 'sci', 'Sed0009285' => 'sed', 'Sed0017583' => 'sed', 'Sed0019699' => 'sed', 'Sed0023107' => 'sed', 'SEGI_10916' => 'sgi', 'SEGI_16217' => 'sgi', 'SEGI_19466' => 'sgi', 'SEGI_41115' => 'sgi', 'SGA_v2.0_scaffold111G31534' => 'sas', 'SGA_v2.0_scaffold22G09864' => 'sas', 'SGA_v2.0_scaffold338G49219' => 'sas', 'SGA_v2.0_scaffold92G28298' => 'sas', 'SMO119G0064' => 'smo', 'SMO223G0038' => 'smo', 'SMO347G0584' => 'smo', 'SMO351G0010' => 'smo', 'SMO356G0404' => 'smo', 'Solyc01g103920.3' => 'sly', 'Solyc04g009710.2' => 'sly', 'Solyc05g055280.2' => 'sly', 'Solyc10g044520.3' => 'sly', 'Solyc10g075160.1' => 'sly', 'Solyc11g006910.3' => 'sly', 'Solyc11g068430.3' => 'sly', 'Sopen01g046310' => 'spe', 'Sopen03g001200' => 'spe', 'Sopen04g004830' => 'spe', 'Sopen05g033720' => 'spe', 'Sopen06g030740' => 'spe', 'Sopen10g013090' => 'spe', 'Sopen10g027630' => 'spe', 'Sopen10g027640' => 'spe', 'Sopen11g002820' => 'spe', 'Sopen11g027140' => 'spe', 'Sp1g09680' => 'spa', 'Sp2g03630' => 'spa', 'Sp4g10320' => 'spa', 'Sp6g33400' => 'spa', 'Sp7g13030' => 'spa', 'TAR365G0317' => 'tar', 'TAR376G0979' => 'tar', 'TAR623G1665' => 'tar', 'TAR633G2373' => 'tar', 'TAR636G1400' => 'tar', 'THA.LOC104800529' => 'tha', 'THA.LOC104808547' => 'tha', 'THA.LOC104809615' => 'tha', 'THA.LOC104815724' => 'tha', 'THA.LOC104818480' => 'tha', 'THA.LOC104819179' => 'tha', 'THA.LOC104822270' => 'tha', 'THA.LOC104826425' => 'tha', 'Thecc.02G089700' => 'tca', 'Thecc.04G232300' => 'tca', 'Thecc.09G283400' => 'tca', 'Thhalv10009020m.g' => 'esa', 'Thhalv10015506m.g' => 'esa', 'Thhalv10017364m.g' => 'esa', 'Thhalv10023742m.g' => 'esa', 'Thhalv10026483m.g' => 'esa', 'TPR.G17232' => 'tpr', 'TPR.G2133' => 'tpr', 'TPR.G2498' => 'tpr', 'TPR.G31942' => 'tpr', 'TPR.G37877' => 'tpr', 'TPR.G4571' => 'tpr', 'TWI14G1113' => 'twi', 'TWI15G0426' => 'twi', 'TWI31G1005' => 'twi', 'TWI38G0513' => 'twi', 'TWI38G1484' => 'twi', 'TWI73G1098' => 'twi', 'unitig_26.g10519' => 'ugi', 'unitig_736.g22395' => 'ugi', 'unitig_747.g21234' => 'ugi', 'unitig_747.g21942' => 'ugi', 'vmacro14351' => 'vma', 'VMungo0540G0082' => 'vmu', 'VMungo0540G0405' => 'vmu', 'VMungo0540G1486' => 'vmu', 'VMungo0540G1692' => 'vmu', 'VMungo0720G2473' => 'vmu', 'VMungo1127G1562' => 'vmu', 'VMungo1215G1918' => 'vmu', 'Zm00001eb052650' => 'zma', 'Zm00001eb063710' => 'zma', 'Zm00001eb083950' => 'zma', 'Zm00001eb174420' => 'zma', 'Zm00001eb260140' => 'zma', 'Zm00001eb260150' => 'zma', 'Zm00001eb260160' => 'zma', 'Zm00001eb348290' => 'zma', 'Zm00001eb366870' => 'zma', 'Zm00001eb421930' => 'zma' ), 'gf_id' => 'HOM05D001025', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001025' ), 'data_identifier' => 'HOM05D001025', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001025', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '592', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p22650' => 'bna', 'A01p29720' => 'bna', 'A03p26560' => 'bna', 'A03p68820' => 'bna', 'A04p20980' => 'bna', 'A06p07730' => 'bna', 'A07p18260' => 'bna', 'A08p33710' => 'bna', 'A09p16970' => 'bna', 'A10p27490' => 'bna', 'Aa31LG1G17300' => 'aar', 'Aa31LG1G3910' => 'aar', 'Aa31LG2G9630' => 'aar', 'Aa31LG5G8360' => 'aar', 'Aa31LG9G2410' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4699' => 'aag', 'Actinidia23512' => 'ach', 'Actinidia37080' => 'ach', 'Ah.01g020380' => 'amhyb', 'Ah.08g215710' => 'amhyb', 'Ah.09g225110' => 'amhyb', 'Ah.10g036680' => 'amhyb', 'AL1G21940' => 'aly', 'AL2G15540' => 'aly', 'AL4G21520' => 'aly', 'AL7G40960' => 'aly', 'Aqoxy2G01191' => 'aox', 'Aqoxy2G03393' => 'aox', 'Aqoxy4G02775' => 'aox', 'Aqoxy6G00058' => 'aox', 'arahy.Tifrunner.gnm1.ann1.9X74H2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CW3FX9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R485W7' => 'arhy', 'AT1G10960' => 'ath', 'AT1G60950' => 'ath', 'AT2G27510' => 'ath', 'AT4G14890' => 'ath', 'AT5G10000' => 'ath', 'ATR0665G624' => 'atr', 'ATR0697G138' => 'atr', 'ATR0776G046' => 'atr', 'ATR1134G135' => 'atr', 'Atru.chr12.1025' => 'acertr', 'Atru.chr3.3241' => 'acertr', 'Atru.chr4.2460' => 'acertr', 'AUR62007427' => 'cqu', 'AUR62010960' => 'cqu', 'AUR62012201' => 'cqu', 'AUR62021470' => 'cqu', 'AUR62022834' => 'cqu', 'AUR62033635' => 'cqu', 'AUR62036186' => 'cqu', 'BcaB01g03077' => 'bca', 'BcaB02g10093' => 'bca', 'BcaB04g20295' => 'bca', 'BcaB06g28147' => 'bca', 'BcaB07g31253' => 'bca', 'BcaC01g04946' => 'bca', 'BcaC02g10614' => 'bca', 'BcaC02g10885' => 'bca', 'BcaC04g19356' => 'bca', 'BcaC04g22297' => 'bca', 'BcaC05g24977' => 'bca', 'BcaC06g31823' => 'bca', 'BcaC07g38633' => 'bca', 'BcaC09g49353' => 'bca', 'BcaC09g50168' => 'bca', 'BcaNung00322' => 'bca', 'BcaNung04769' => 'bca', 'BolC1t02753H' => 'bol', 'BolC1t03721H' => 'bol', 'BolC3t15525H' => 'bol', 'BolC4t23903H' => 'bol', 'BolC4t24231H' => 'bol', 'BolC4t27209H' => 'bol', 'BolC5t29671H' => 'bol', 'BolC8t49044H' => 'bol', 'BolC9t54999H' => 'bol', 'BolC9t59517H' => 'bol', 'BraA01t02178Z' => 'bra', 'BraA01t03099Z' => 'bra', 'BraA03t11867Z' => 'bra', 'BraA04t17667Z' => 'bra', 'BraA07t29542Z' => 'bra', 'BraA08t35287Z' => 'bra', 'BraA09t37334Z' => 'bra', 'BraA10t44801Z' => 'bra', 'BraSC39t46181Z' => 'bra', 'C01p28240' => 'bna', 'C01p37530' => 'bna', 'C03p31820' => 'bna', 'C04p24080' => 'bna', 'C04p25790' => 'bna', 'C04p56770' => 'bna', 'C05p09310' => 'bna', 'C09p21010' => 'bna', 'C09p67560' => 'bna', 'CAN.G1324.7' => 'can', 'CAN.G1358.10' => 'can', 'CAN.G1550.2' => 'can', 'CAN.G186.56' => 'can', 'CAN.G1965.1' => 'can', 'CAN.G645.15' => 'can', 'CAN.G798.26' => 'can', 'CAN.G798.27' => 'can', 'CAN.G798.29' => 'can', 'CAN.G919.31' => 'can', 'CANSAT11G0133' => 'cansat', 'CANSAT11G1171' => 'cansat', 'CANSAT11G2056' => 'cansat', 'CANSAT56G1202' => 'cansat', 'CANSAT56G1514' => 'cansat', 'CANSAT78G0455' => 'cansat', 'CARHR011190' => 'chi', 'CARHR051980' => 'chi', 'CARHR120170' => 'chi', 'CARHR203310' => 'chi', 'CARHR221490' => 'chi', 'Carub.0001s1054' => 'cru', 'Carub.0002s0431' => 'cru', 'Carub.0004s0818' => 'cru', 'Carub.0006s0846' => 'cru', 'Carub.0007s2722' => 'cru', 'Ca_00058_v3' => 'car', 'Ca_17831_v3' => 'car', 'Ca_19408_v3' => 'car', 'Ca_24397_v3' => 'car', 'Ca_25664_v3' => 'car', 'CBR_g21818' => 'cbr', 'CBR_g31195' => 'cbr', 'CBR_g32282' => 'cbr', 'CBR_g39599' => 'cbr', 'CBR_g49410' => 'cbr', 'Cc01_g09120' => 'ccan', 'Cc01_g09130' => 'ccan', 'Cc02_g09630' => 'ccan', 'Cc02_g22810' => 'ccan', 'Cc03_g03810' => 'ccan', 'CDE02G3718' => 'cde', 'CDE04G3183' => 'cde', 'CDE07G1046' => 'cde', 'CDE08G0480' => 'cde', 'Cfa005493' => 'cfa', 'Cfa010312' => 'cfa', 'Cfa015648' => 'cfa', 'Ciclev10002793m.g' => 'ccl', 'Ciclev10003356m.g' => 'ccl', 'Ciclev10006141m.g' => 'ccl', 'Ciclev10016676m.g' => 'ccl', 'Ciclev10017081m.g' => 'ccl', 'Ciclev10029499m.g' => 'ccl', 'CiPaw.01G166300' => 'cil', 'CiPaw.06G145600' => 'cil', 'CiPaw.13G040100' => 'cil', 'CiPaw.13G135800' => 'cil', 'ClCG01G012230' => 'cla', 'ClCG05G009510' => 'cla', 'ClCG08G008270' => 'cla', 'COL.COLO4_11763' => 'col', 'COL.COLO4_19876' => 'col', 'COL.COLO4_21481' => 'col', 'Cpa.g.sc118.34' => 'cpa', 'Cpa.g.sc32.13' => 'cpa', 'Cpa.g.sc58.103' => 'cpa', 'Cre03.g183850' => 'cre', 'Cre06.g306350' => 'cre', 'Cre07.g334800' => 'cre', 'Cre12.g487900' => 'cre', 'Cre14.g626700' => 'cre', 'Cre16.g658400' => 'cre', 'Cre17.g700950' => 'cre', 'CsaV3_1G014830' => 'csa', 'CsaV3_3G013320' => 'csa', 'CsaV3_3G019210' => 'csa', 'CsaV3_3G019220' => 'csa', 'CsaV3_6G004230' => 'csa', 'CSS0003773' => 'camsi', 'CSS0004563' => 'camsi', 'CSS0013949' => 'camsi', 'CSS0025971' => 'camsi', 'CSS0028570' => 'camsi', 'CSS0033127' => 'camsi', 'CSS0036051' => 'camsi', 'CSS0040087' => 'camsi', 'CSS0043179' => 'camsi', 'DCAR_006161' => 'dca', 'DCAR_010351' => 'dca', 'DCAR_012197' => 'dca', 'DCAR_024162' => 'dca', 'Dinv01030' => 'din', 'Dinv10924' => 'din', 'Dinv11835' => 'din', 'Dinv22841' => 'din', 'Dinv42553' => 'din', 'Duzib052G0560' => 'dzi', 'Duzib132G0389' => 'dzi', 'Duzib150G1181' => 'dzi', 'Duzib168G0623' => 'dzi', 'Duzib170G1036' => 'dzi', 'Duzib212G0200' => 'dzi', 'Duzib248G0194' => 'dzi', 'ECA232G2193' => 'eca', 'ECA233G0302' => 'eca', 'ECA234G2813' => 'eca', 'ECA234G4866' => 'eca', 'ECA240G3932' => 'eca', 'ECA248G0385' => 'eca', 'EL10Ac2g04781' => 'bvu', 'EL10Ac3g06445' => 'bvu', 'EL10Ac7g15825' => 'bvu', 'EL10Ac8g18550' => 'bvu', 'Eucgr.B03849' => 'egr', 'Eucgr.I02744' => 'egr', 'Eucgr.J00264' => 'egr', 'Eucgr.J00493' => 'egr', 'FAN04G2181' => 'fan', 'FAN07G2666' => 'fan', 'FAN11G0024' => 'fan', 'FAN12G1105' => 'fan', 'FAN13G0302' => 'fan', 'FAN15G2781' => 'fan', 'FAN16G1274' => 'fan', 'FAN17G2988' => 'fan', 'FAN18G2621' => 'fan', 'FAN21G0013' => 'fan', 'FAN22G1211' => 'fan', 'FAN25G3626' => 'fan', 'FvH4_2g09491' => 'fve', 'FvH4_3g24910' => 'fve', 'FvH4_4g15630' => 'fve', 'FvH4_5g28820' => 'fve', 'Glyma.01G238000' => 'gma', 'Glyma.05G168400' => 'gma', 'Glyma.08G126800' => 'gma', 'Glyma.08G188500' => 'gma', 'Glyma.10G278900' => 'gma', 'Glyma.11G005700' => 'gma', 'Glyma.11G183300' => 'gma', 'Glyma.12G089200' => 'gma', 'Glyma.12G169400' => 'gma', 'Glyma.12G169500' => 'gma', 'Glyma.12G169600' => 'gma', 'Glyma.20G110800' => 'gma', 'Gohir.A03G192900' => 'ghi', 'Gohir.A03G193000' => 'ghi', 'Gohir.A05G080700' => 'ghi', 'Gohir.A09G216000' => 'ghi', 'Gohir.A12G027700' => 'ghi', 'Gohir.A13G036200' => 'ghi', 'Gohir.A13G222600' => 'ghi', 'Gohir.D02G213900' => 'ghi', 'Gohir.D02G214000' => 'ghi', 'Gohir.D05G083700' => 'ghi', 'Gohir.D05G083800' => 'ghi', 'Gohir.D05G083850' => 'ghi', 'Gohir.D08G015400' => 'ghi', 'Gohir.D09G218400' => 'ghi', 'Gohir.D12G027100' => 'ghi', 'Gohir.D13G034500' => 'ghi', 'Gohir.D13G227400' => 'ghi', 'Gorai.005G241800' => 'gra', 'Gorai.005G241900' => 'gra', 'Gorai.006G239400' => 'gra', 'Gorai.008G027600' => 'gra', 'Gorai.009G085400' => 'gra', 'Gorai.009G085500' => 'gra', 'Gorai.013G039000' => 'gra', 'Gorai.013G194800' => 'gra', 'Gorai.013G257900' => 'gra', 'GSVIVG01000982001' => 'vvi', 'GSVIVG01017981001' => 'vvi', 'HanXRQChr01g0024061' => 'han', 'HanXRQChr09g0247831' => 'han', 'HanXRQChr10g0294611' => 'han', 'HanXRQChr10g0294621' => 'han', 'HanXRQChr11g0346821' => 'han', 'HanXRQChr13g0397461' => 'han', 'HanXRQChr16g0513651' => 'han', 'HanXRQChr16g0513701' => 'han', 'Haze_00897' => 'cav', 'Haze_01745' => 'cav', 'Haze_02486' => 'cav', 'Haze_02487' => 'cav', 'Haze_23374' => 'cav', 'Hma1.2p1_0578F.1_g182520' => 'hma', 'Hma1.2p1_0602F.1_g187350' => 'hma', 'Hma1.2p1_0602F.1_g187360' => 'hma', 'Hma1.2p1_0874F.1_g231320' => 'hma', 'Hma1.2p1_1197F.1_g266210' => 'hma', 'Hma1.2p1_1197F.1_g266220' => 'hma', 'Hma1.2p1_2167F.1_g315895' => 'hma', 'Hma1.2p1_2190F.1_g316640' => 'hma', 'Hma1.2p1_3645F.1_g337153' => 'hma', 'HPP92_004907' => 'vpl', 'HPP92_012134' => 'vpl', 'HPP92_025136' => 'vpl', 'HPP92_026087' => 'vpl', 'Hund06782' => 'sun', 'Hund06784' => 'sun', 'Lalb_Chr01g0004861' => 'lal', 'Lalb_Chr02g0140591' => 'lal', 'Lalb_Chr02g0140611' => 'lal', 'Lalb_Chr03g0028101' => 'lal', 'Lalb_Chr07g0185791' => 'lal', 'Lalb_Chr12g0204491' => 'lal', 'Lalb_Chr13g0295671' => 'lal', 'Lalb_Chr19g0136461' => 'lal', 'Lalb_Chr21g0309191' => 'lal', 'Lj1g0028158' => 'lja', 'Lj1P236T38' => 'lonja', 'Lj2C32G2' => 'lonja', 'Lj2P944T8' => 'lonja', 'Lj2P963T15' => 'lonja', 'Lj3g0011788' => 'lja', 'Lj4g0025027' => 'lja', 'Lj5P255T36' => 'lonja', 'Lj6g0018866' => 'lja', 'Lj6P608T31' => 'lonja', 'LjContig00408g0008879' => 'lja', 'Lsat_1_v5_gn_5_105820' => 'lsa', 'Lsat_1_v5_gn_6_38800' => 'lsa', 'Lsat_1_v5_gn_7_67141' => 'lsa', 'Manes.04G003400' => 'mes', 'Manes.07G020000' => 'mes', 'Manes.07G020100' => 'mes', 'Manes.07G020150' => 'mes', 'Manes.10G061500' => 'mes', 'Manes.10G123200' => 'mes', 'Manes.11G161900' => 'mes', 'Manes.15G029300' => 'mes', 'Mapoly0071s0018' => 'mpo', 'Mapoly0082s0023' => 'mpo', 'Mapoly3477s0001' => 'mpo', 'MBI05_g31233_MAGBIO' => 'mbi', 'MBI09_g05946_MAGBIO' => 'mbi', 'MBI09_g05947_MAGBIO' => 'mbi', 'MBI17_g08346_MAGBIO' => 'mbi', 'MCO04G038' => 'mco', 'MCO09G370' => 'mco', 'MCO13G605' => 'mco', 'MD00G1075500' => 'mdo', 'MD03G1144300' => 'mdo', 'MD08G1236800' => 'mdo', 'MD13G1193300' => 'mdo', 'MD15G1428700' => 'mdo', 'Medtr1g112030' => 'mtr', 'Medtr1g112050' => 'mtr', 'Medtr2g006290' => 'mtr', 'Medtr2g086510' => 'mtr', 'Medtr4g053120' => 'mtr', 'Medtr5g006320' => 'mtr', 'Medtr8g088720' => 'mtr', 'MELO3C004712.2' => 'cme', 'MELO3C006533.2' => 'cme', 'MELO3C019438.2' => 'cme', 'MELO3C019440.2' => 'cme', 'MELO3C019441.2' => 'cme', 'MELO3C019895.2' => 'cme', 'Migut.B00811' => 'egut', 'Migut.D02447' => 'egut', 'Migut.F00875' => 'egut', 'Migut.N00186' => 'egut', 'Migut.N01051' => 'egut', 'Migut.N02491' => 'egut', 'Migut.O00784' => 'egut', 'MSTRG.12367' => 'ama', 'MSTRG.18756' => 'ama', 'MSTRG.21042' => 'ama', 'Nitab4.5_0000559g0040' => 'nta', 'Nitab4.5_0000667g0190' => 'nta', 'Nitab4.5_0000755g0160' => 'nta', 'Nitab4.5_0001216g0080' => 'nta', 'Nitab4.5_0004069g0040' => 'nta', 'Nitab4.5_0004129g0010' => 'nta', 'Nitab4.5_0005744g0030' => 'nta', 'Nitab4.5_0006996g0030' => 'nta', 'Nitab4.5_0008971g0040' => 'nta', 'Nitab4.5_0009769g0020' => 'nta', 'Nitab4.5_0009833g0010' => 'nta', 'Nitab4.5_0013140g0020' => 'nta', 'Nn003s41376' => 'nnu', 'Nn1g01857' => 'nnu', 'Nn1g03611' => 'nnu', 'Nn1g06853' => 'nnu', 'Nn3g18360' => 'nnu', 'Nn4g26328' => 'nnu', 'Nn5g27531' => 'nnu', 'Nn6g34899' => 'nnu', 'Nn7g36299' => 'nnu', 'Oeu021485.1' => 'oeu', 'Oeu022433.1' => 'oeu', 'Oeu032111.1' => 'oeu', 'Oeu051608.1' => 'oeu', 'Os01g0860601' => 'osa', 'Os03g0659200' => 'osa', 'Os03g0835900' => 'osa', 'Os04g0412200' => 'osa', 'Os05g0443500' => 'osa', 'Os07g0251500' => 'osa', 'Os08g0104600' => 'osa', 'Peaxi162Scf00003g00047' => 'pax', 'Peaxi162Scf00003g00052' => 'pax', 'Peaxi162Scf00003g00394' => 'pax', 'Peaxi162Scf00091g00621' => 'pax', 'Peaxi162Scf00152g00146' => 'pax', 'Peaxi162Scf00173g00025' => 'pax', 'Peaxi162Scf00195g00102' => 'pax', 'Peaxi162Scf00402g00013' => 'pax', 'Peaxi162Scf00519g00618' => 'pax', 'PGR004G2838' => 'pgr', 'PGR044G2275' => 'pgr', 'PGR102G1377' => 'pgr', 'PGR119G1245' => 'pgr', 'PGR142G4449' => 'pgr', 'PGSC0003DMG400004532' => 'stu', 'PGSC0003DMG400011950' => 'stu', 'PGSC0003DMG400023391' => 'stu', 'PGSC0003DMG400023985' => 'stu', 'PGSC0003DMG400026360' => 'stu', 'PGSC0003DMG400035711' => 'stu', 'PGSC0003DMG400037286' => 'stu', 'PGSC0003DMG402005881' => 'stu', 'Phvul.002G045400' => 'pvu', 'Phvul.006G216600' => 'pvu', 'Phvul.006G216700' => 'pvu', 'Phvul.006G216800' => 'pvu', 'Phvul.007G022500' => 'pvu', 'Phvul.011G094400' => 'pvu', 'Potri.001G470700' => 'ptr', 'Potri.003G015200' => 'ptr', 'Potri.004G202500' => 'ptr', 'Potri.004G218400' => 'ptr', 'Potri.008G020100' => 'ptr', 'Potri.008G153200' => 'ptr', 'Potri.009G163800' => 'ptr', 'Potri.010G087300' => 'ptr', 'Potri.010G239100' => 'ptr', 'Pp3c10_16100' => 'ppa', 'Pp3c10_16880' => 'ppa', 'Pp3c16_6230' => 'ppa', 'Pp3c17_18910' => 'ppa', 'Pp3c3_22119' => 'ppa', 'Pp3c3_22140' => 'ppa', 'Pp3c4_8159' => 'ppa', 'Pp3c4_8171' => 'ppa', 'Pp3c4_8330' => 'ppa', 'PRCOL_00004098' => 'pco', 'Prupe.1G013900' => 'ppe', 'Prupe.1G226300' => 'ppe', 'Prupe.1G573600' => 'ppe', 'Prupe.6G130100' => 'ppe', 'Psat3g090040' => 'psa', 'Psat4g210440' => 'psa', 'Psat6g231040' => 'psa', 'Psat6g231080' => 'psa', 'Psat7g063000' => 'psa', 'Psat7g188000' => 'psa', 'Psat7g188040' => 'psa', 'PSO017G0206' => 'pso', 'PSO170G0501' => 'pso', 'PSO170G6422' => 'pso', 'PSO210G7739' => 'pso', 'PSO339G1808' => 'pso', 'PSO339G6135' => 'pso', 'PSO384G0010' => 'pso', 'PSO384G0964' => 'pso', 'PSO761G0050' => 'pso', 'PSO782G4085' => 'pso', 'QL01p012264' => 'qlo', 'QL02p099491' => 'qlo', 'QL03p033868' => 'qlo', 'QL04p046678' => 'qlo', 'QL06p002448' => 'qlo', 'RcHm_v2.0_Chr4g0416181' => 'rch', 'RcHm_v2.0_Chr5g0044701' => 'rch', 'RcHm_v2.0_Chr6g0265781' => 'rch', 'RcHm_v2.0_Chr7g0221031' => 'rch', 'Rhsim04G0202000' => 'rsi', 'Rhsim11G0127300' => 'rsi', 'Rhsim13G0111800' => 'rsi', 'Sabra01G0165600' => 'sbr', 'Sabra03G0008300' => 'sbr', 'Sabra04G0136900' => 'sbr', 'Sabra08G0013400' => 'sbr', 'Sabra08G0116800' => 'sbr', 'Sabra09G0128000' => 'sbr', 'Sabra10G0055500' => 'sbr', 'Sabra10G0073300' => 'sbr', 'SalBow3G0385' => 'sbo', 'SalBow3G1119' => 'sbo', 'SalBow3G2005' => 'sbo', 'SalBow6G2563' => 'sbo', 'SalBow6G6386' => 'sbo', 'Sc06g0008800' => 'sci', 'Sc07g0004950' => 'sci', 'Sc09g0005340' => 'sci', 'Sc13g0004410' => 'sci', 'Sc21g0007090' => 'sci', 'Sed0009285' => 'sed', 'Sed0017583' => 'sed', 'Sed0019699' => 'sed', 'Sed0023107' => 'sed', 'SEGI_10916' => 'sgi', 'SEGI_16217' => 'sgi', 'SEGI_19466' => 'sgi', 'SEGI_41115' => 'sgi', 'SGA_v2.0_scaffold111G31534' => 'sas', 'SGA_v2.0_scaffold22G09864' => 'sas', 'SGA_v2.0_scaffold338G49219' => 'sas', 'SGA_v2.0_scaffold92G28298' => 'sas', 'SMO119G0064' => 'smo', 'SMO223G0038' => 'smo', 'SMO347G0584' => 'smo', 'SMO351G0010' => 'smo', 'SMO356G0404' => 'smo', 'Solyc01g103920.3' => 'sly', 'Solyc04g009710.2' => 'sly', 'Solyc05g055280.2' => 'sly', 'Solyc10g044520.3' => 'sly', 'Solyc10g075160.1' => 'sly', 'Solyc11g006910.3' => 'sly', 'Solyc11g068430.3' => 'sly', 'Sopen01g046310' => 'spe', 'Sopen03g001200' => 'spe', 'Sopen04g004830' => 'spe', 'Sopen05g033720' => 'spe', 'Sopen06g030740' => 'spe', 'Sopen10g013090' => 'spe', 'Sopen10g027630' => 'spe', 'Sopen10g027640' => 'spe', 'Sopen11g002820' => 'spe', 'Sopen11g027140' => 'spe', 'Sp1g09680' => 'spa', 'Sp2g03630' => 'spa', 'Sp4g10320' => 'spa', 'Sp6g33400' => 'spa', 'Sp7g13030' => 'spa', 'TAR365G0317' => 'tar', 'TAR376G0979' => 'tar', 'TAR623G1665' => 'tar', 'TAR633G2373' => 'tar', 'TAR636G1400' => 'tar', 'THA.LOC104800529' => 'tha', 'THA.LOC104808547' => 'tha', 'THA.LOC104809615' => 'tha', 'THA.LOC104815724' => 'tha', 'THA.LOC104818480' => 'tha', 'THA.LOC104819179' => 'tha', 'THA.LOC104822270' => 'tha', 'THA.LOC104826425' => 'tha', 'Thecc.02G089700' => 'tca', 'Thecc.04G232300' => 'tca', 'Thecc.09G283400' => 'tca', 'Thhalv10009020m.g' => 'esa', 'Thhalv10015506m.g' => 'esa', 'Thhalv10017364m.g' => 'esa', 'Thhalv10023742m.g' => 'esa', 'Thhalv10026483m.g' => 'esa', 'TPR.G17232' => 'tpr', 'TPR.G2133' => 'tpr', 'TPR.G2498' => 'tpr', 'TPR.G31942' => 'tpr', 'TPR.G37877' => 'tpr', 'TPR.G4571' => 'tpr', 'TWI14G1113' => 'twi', 'TWI15G0426' => 'twi', 'TWI31G1005' => 'twi', 'TWI38G0513' => 'twi', 'TWI38G1484' => 'twi', 'TWI73G1098' => 'twi', 'unitig_26.g10519' => 'ugi', 'unitig_736.g22395' => 'ugi', 'unitig_747.g21234' => 'ugi', 'unitig_747.g21942' => 'ugi', 'vmacro14351' => 'vma', 'VMungo0540G0082' => 'vmu', 'VMungo0540G0405' => 'vmu', 'VMungo0540G1486' => 'vmu', 'VMungo0540G1692' => 'vmu', 'VMungo0720G2473' => 'vmu', 'VMungo1127G1562' => 'vmu', 'VMungo1215G1918' => 'vmu', 'Zm00001eb052650' => 'zma', 'Zm00001eb063710' => 'zma', 'Zm00001eb083950' => 'zma', 'Zm00001eb174420' => 'zma', 'Zm00001eb260140' => 'zma', 'Zm00001eb260150' => 'zma', 'Zm00001eb260160' => 'zma', 'Zm00001eb348290' => 'zma', 'Zm00001eb366870' => 'zma', 'Zm00001eb421930' => 'zma' ) $gf_id = 'HOM05D001025' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001025' ) $data_identifier = 'HOM05D001025' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 19, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 2, 'amhyb' => (int) 4, 'aly' => (int) 4, 'aox' => (int) 4, 'arhy' => (int) 3, 'ath' => (int) 5, 'atr' => (int) 4, 'acertr' => (int) 3, 'cqu' => (int) 7, 'bca' => (int) 17, 'bol' => (int) 10, 'bra' => (int) 9, 'can' => (int) 10, 'cansat' => (int) 6, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 5, 'cbr' => (int) 5, 'ccan' => (int) 5, 'cde' => (int) 4, 'cfa' => (int) 3, 'ccl' => (int) 6, 'cil' => (int) 4, 'cla' => (int) 3, 'col' => (int) 3, 'cpa' => (int) 3, 'cre' => (int) 7, 'csa' => (int) 5, 'camsi' => (int) 9, 'dca' => (int) 4, 'din' => (int) 5, 'dzi' => (int) 7, 'eca' => (int) 6, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 12, 'fve' => (int) 4, 'gma' => (int) 12, 'ghi' => (int) 17, 'gra' => (int) 9, 'vvi' => (int) 2, 'han' => (int) 8, 'cav' => (int) 5, 'hma' => (int) 9, 'vpl' => (int) 4, 'sun' => (int) 2, 'lal' => (int) 9, 'lja' => (int) 5, 'lonja' => (int) 6, 'lsa' => (int) 3, 'mes' => (int) 8, 'mpo' => (int) 3, 'mbi' => (int) 4, 'mco' => (int) 3, 'mdo' => (int) 5, 'mtr' => (int) 7, 'cme' => (int) 6, 'egut' => (int) 7, 'ama' => (int) 3, 'nta' => (int) 12, 'nnu' => (int) 9, 'oeu' => (int) 4, 'osa' => (int) 7, 'pax' => (int) 9, 'pgr' => (int) 5, 'stu' => (int) 8, 'pvu' => (int) 6, 'ptr' => (int) 9, 'ppa' => (int) 9, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 7, 'pso' => (int) 10, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 3, 'sbr' => (int) 8, 'sbo' => (int) 5, 'sci' => (int) 5, 'sed' => (int) 4, 'sgi' => (int) 4, 'sas' => (int) 4, 'smo' => (int) 5, 'sly' => (int) 7, 'spe' => (int) 10, 'spa' => (int) 5, 'tar' => (int) 5, 'tha' => (int) 8, 'tca' => (int) 3, 'esa' => (int) 5, 'tpr' => (int) 6, 'twi' => (int) 6, 'ugi' => (int) 4, 'vma' => (int) 1, 'vmu' => (int) 7, 'zma' => (int) 10 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb421930' $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' => 'HOM05D001025', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '592', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p22650' => 'bna', 'A01p29720' => 'bna', 'A03p26560' => 'bna', 'A03p68820' => 'bna', 'A04p20980' => 'bna', 'A06p07730' => 'bna', 'A07p18260' => 'bna', 'A08p33710' => 'bna', 'A09p16970' => 'bna', 'A10p27490' => 'bna', 'Aa31LG1G17300' => 'aar', 'Aa31LG1G3910' => 'aar', 'Aa31LG2G9630' => 'aar', 'Aa31LG5G8360' => 'aar', 'Aa31LG9G2410' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4699' => 'aag', 'Actinidia23512' => 'ach', 'Actinidia37080' => 'ach', 'Ah.01g020380' => 'amhyb', 'Ah.08g215710' => 'amhyb', 'Ah.09g225110' => 'amhyb', 'Ah.10g036680' => 'amhyb', 'AL1G21940' => 'aly', 'AL2G15540' => 'aly', 'AL4G21520' => 'aly', 'AL7G40960' => 'aly', 'Aqoxy2G01191' => 'aox', 'Aqoxy2G03393' => 'aox', 'Aqoxy4G02775' => 'aox', 'Aqoxy6G00058' => 'aox', 'arahy.Tifrunner.gnm1.ann1.9X74H2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CW3FX9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R485W7' => 'arhy', 'AT1G10960' => 'ath', 'AT1G60950' => 'ath', 'AT2G27510' => 'ath', 'AT4G14890' => 'ath', 'AT5G10000' => 'ath', 'ATR0665G624' => 'atr', 'ATR0697G138' => 'atr', 'ATR0776G046' => 'atr', 'ATR1134G135' => 'atr', 'Atru.chr12.1025' => 'acertr', 'Atru.chr3.3241' => 'acertr', 'Atru.chr4.2460' => 'acertr', 'AUR62007427' => 'cqu', 'AUR62010960' => 'cqu', 'AUR62012201' => 'cqu', 'AUR62021470' => 'cqu', 'AUR62022834' => 'cqu', 'AUR62033635' => 'cqu', 'AUR62036186' => 'cqu', 'BcaB01g03077' => 'bca', 'BcaB02g10093' => 'bca', 'BcaB04g20295' => 'bca', 'BcaB06g28147' => 'bca', 'BcaB07g31253' => 'bca', 'BcaC01g04946' => 'bca', 'BcaC02g10614' => 'bca', 'BcaC02g10885' => 'bca', 'BcaC04g19356' => 'bca', 'BcaC04g22297' => 'bca', 'BcaC05g24977' => 'bca', 'BcaC06g31823' => 'bca', 'BcaC07g38633' => 'bca', 'BcaC09g49353' => 'bca', 'BcaC09g50168' => 'bca', 'BcaNung00322' => 'bca', 'BcaNung04769' => 'bca', 'BolC1t02753H' => 'bol', 'BolC1t03721H' => 'bol', 'BolC3t15525H' => 'bol', 'BolC4t23903H' => 'bol', 'BolC4t24231H' => 'bol', 'BolC4t27209H' => 'bol', 'BolC5t29671H' => 'bol', 'BolC8t49044H' => 'bol', 'BolC9t54999H' => 'bol', 'BolC9t59517H' => 'bol', 'BraA01t02178Z' => 'bra', 'BraA01t03099Z' => 'bra', 'BraA03t11867Z' => 'bra', 'BraA04t17667Z' => 'bra', 'BraA07t29542Z' => 'bra', 'BraA08t35287Z' => 'bra', 'BraA09t37334Z' => 'bra', 'BraA10t44801Z' => 'bra', 'BraSC39t46181Z' => 'bra', 'C01p28240' => 'bna', 'C01p37530' => 'bna', 'C03p31820' => 'bna', 'C04p24080' => 'bna', 'C04p25790' => 'bna', 'C04p56770' => 'bna', 'C05p09310' => 'bna', 'C09p21010' => 'bna', 'C09p67560' => 'bna', 'CAN.G1324.7' => 'can', 'CAN.G1358.10' => 'can', 'CAN.G1550.2' => 'can', 'CAN.G186.56' => 'can', 'CAN.G1965.1' => 'can', 'CAN.G645.15' => 'can', 'CAN.G798.26' => 'can', 'CAN.G798.27' => 'can', 'CAN.G798.29' => 'can', 'CAN.G919.31' => 'can', 'CANSAT11G0133' => 'cansat', 'CANSAT11G1171' => 'cansat', 'CANSAT11G2056' => 'cansat', 'CANSAT56G1202' => 'cansat', 'CANSAT56G1514' => 'cansat', 'CANSAT78G0455' => 'cansat', 'CARHR011190' => 'chi', 'CARHR051980' => 'chi', 'CARHR120170' => 'chi', 'CARHR203310' => 'chi', 'CARHR221490' => 'chi', 'Carub.0001s1054' => 'cru', 'Carub.0002s0431' => 'cru', 'Carub.0004s0818' => 'cru', 'Carub.0006s0846' => 'cru', 'Carub.0007s2722' => 'cru', 'Ca_00058_v3' => 'car', 'Ca_17831_v3' => 'car', 'Ca_19408_v3' => 'car', 'Ca_24397_v3' => 'car', 'Ca_25664_v3' => 'car', 'CBR_g21818' => 'cbr', 'CBR_g31195' => 'cbr', 'CBR_g32282' => 'cbr', 'CBR_g39599' => 'cbr', 'CBR_g49410' => 'cbr', 'Cc01_g09120' => 'ccan', 'Cc01_g09130' => 'ccan', 'Cc02_g09630' => 'ccan', 'Cc02_g22810' => 'ccan', 'Cc03_g03810' => 'ccan', 'CDE02G3718' => 'cde', 'CDE04G3183' => 'cde', 'CDE07G1046' => 'cde', 'CDE08G0480' => 'cde', 'Cfa005493' => 'cfa', 'Cfa010312' => 'cfa', 'Cfa015648' => 'cfa', 'Ciclev10002793m.g' => 'ccl', 'Ciclev10003356m.g' => 'ccl', 'Ciclev10006141m.g' => 'ccl', 'Ciclev10016676m.g' => 'ccl', 'Ciclev10017081m.g' => 'ccl', 'Ciclev10029499m.g' => 'ccl', 'CiPaw.01G166300' => 'cil', 'CiPaw.06G145600' => 'cil', 'CiPaw.13G040100' => 'cil', 'CiPaw.13G135800' => 'cil', 'ClCG01G012230' => 'cla', 'ClCG05G009510' => 'cla', 'ClCG08G008270' => 'cla', 'COL.COLO4_11763' => 'col', 'COL.COLO4_19876' => 'col', 'COL.COLO4_21481' => 'col', 'Cpa.g.sc118.34' => 'cpa', 'Cpa.g.sc32.13' => 'cpa', 'Cpa.g.sc58.103' => 'cpa', 'Cre03.g183850' => 'cre', 'Cre06.g306350' => 'cre', 'Cre07.g334800' => 'cre', 'Cre12.g487900' => 'cre', 'Cre14.g626700' => 'cre', 'Cre16.g658400' => 'cre', 'Cre17.g700950' => 'cre', 'CsaV3_1G014830' => 'csa', 'CsaV3_3G013320' => 'csa', 'CsaV3_3G019210' => 'csa', 'CsaV3_3G019220' => 'csa', 'CsaV3_6G004230' => 'csa', 'CSS0003773' => 'camsi', 'CSS0004563' => 'camsi', 'CSS0013949' => 'camsi', 'CSS0025971' => 'camsi', 'CSS0028570' => 'camsi', 'CSS0033127' => 'camsi', 'CSS0036051' => 'camsi', 'CSS0040087' => 'camsi', 'CSS0043179' => 'camsi', 'DCAR_006161' => 'dca', 'DCAR_010351' => 'dca', 'DCAR_012197' => 'dca', 'DCAR_024162' => 'dca', 'Dinv01030' => 'din', 'Dinv10924' => 'din', 'Dinv11835' => 'din', 'Dinv22841' => 'din', 'Dinv42553' => 'din', 'Duzib052G0560' => 'dzi', 'Duzib132G0389' => 'dzi', 'Duzib150G1181' => 'dzi', 'Duzib168G0623' => 'dzi', 'Duzib170G1036' => 'dzi', 'Duzib212G0200' => 'dzi', 'Duzib248G0194' => 'dzi', 'ECA232G2193' => 'eca', 'ECA233G0302' => 'eca', 'ECA234G2813' => 'eca', 'ECA234G4866' => 'eca', 'ECA240G3932' => 'eca', 'ECA248G0385' => 'eca', 'EL10Ac2g04781' => 'bvu', 'EL10Ac3g06445' => 'bvu', 'EL10Ac7g15825' => 'bvu', 'EL10Ac8g18550' => 'bvu', 'Eucgr.B03849' => 'egr', 'Eucgr.I02744' => 'egr', 'Eucgr.J00264' => 'egr', 'Eucgr.J00493' => 'egr', 'FAN04G2181' => 'fan', 'FAN07G2666' => 'fan', 'FAN11G0024' => 'fan', 'FAN12G1105' => 'fan', 'FAN13G0302' => 'fan', 'FAN15G2781' => 'fan', 'FAN16G1274' => 'fan', 'FAN17G2988' => 'fan', 'FAN18G2621' => 'fan', 'FAN21G0013' => 'fan', 'FAN22G1211' => 'fan', 'FAN25G3626' => 'fan', 'FvH4_2g09491' => 'fve', 'FvH4_3g24910' => 'fve', 'FvH4_4g15630' => 'fve', 'FvH4_5g28820' => 'fve', 'Glyma.01G238000' => 'gma', 'Glyma.05G168400' => 'gma', 'Glyma.08G126800' => 'gma', 'Glyma.08G188500' => 'gma', 'Glyma.10G278900' => 'gma', 'Glyma.11G005700' => 'gma', 'Glyma.11G183300' => 'gma', 'Glyma.12G089200' => 'gma', 'Glyma.12G169400' => 'gma', 'Glyma.12G169500' => 'gma', 'Glyma.12G169600' => 'gma', 'Glyma.20G110800' => 'gma', 'Gohir.A03G192900' => 'ghi', 'Gohir.A03G193000' => 'ghi', 'Gohir.A05G080700' => 'ghi', 'Gohir.A09G216000' => 'ghi', 'Gohir.A12G027700' => 'ghi', 'Gohir.A13G036200' => 'ghi', 'Gohir.A13G222600' => 'ghi', 'Gohir.D02G213900' => 'ghi', 'Gohir.D02G214000' => 'ghi', 'Gohir.D05G083700' => 'ghi', 'Gohir.D05G083800' => 'ghi', 'Gohir.D05G083850' => 'ghi', 'Gohir.D08G015400' => 'ghi', 'Gohir.D09G218400' => 'ghi', 'Gohir.D12G027100' => 'ghi', 'Gohir.D13G034500' => 'ghi', 'Gohir.D13G227400' => 'ghi', 'Gorai.005G241800' => 'gra', 'Gorai.005G241900' => 'gra', 'Gorai.006G239400' => 'gra', 'Gorai.008G027600' => 'gra', 'Gorai.009G085400' => 'gra', 'Gorai.009G085500' => 'gra', 'Gorai.013G039000' => 'gra', 'Gorai.013G194800' => 'gra', 'Gorai.013G257900' => 'gra', 'GSVIVG01000982001' => 'vvi', 'GSVIVG01017981001' => 'vvi', 'HanXRQChr01g0024061' => 'han', 'HanXRQChr09g0247831' => 'han', 'HanXRQChr10g0294611' => 'han', 'HanXRQChr10g0294621' => 'han', 'HanXRQChr11g0346821' => 'han', 'HanXRQChr13g0397461' => 'han', 'HanXRQChr16g0513651' => 'han', 'HanXRQChr16g0513701' => 'han', 'Haze_00897' => 'cav', 'Haze_01745' => 'cav', 'Haze_02486' => 'cav', 'Haze_02487' => 'cav', 'Haze_23374' => 'cav', 'Hma1.2p1_0578F.1_g182520' => 'hma', 'Hma1.2p1_0602F.1_g187350' => 'hma', 'Hma1.2p1_0602F.1_g187360' => 'hma', 'Hma1.2p1_0874F.1_g231320' => 'hma', 'Hma1.2p1_1197F.1_g266210' => 'hma', 'Hma1.2p1_1197F.1_g266220' => 'hma', 'Hma1.2p1_2167F.1_g315895' => 'hma', 'Hma1.2p1_2190F.1_g316640' => 'hma', 'Hma1.2p1_3645F.1_g337153' => 'hma', 'HPP92_004907' => 'vpl', 'HPP92_012134' => 'vpl', 'HPP92_025136' => 'vpl', 'HPP92_026087' => 'vpl', 'Hund06782' => 'sun', 'Hund06784' => 'sun', 'Lalb_Chr01g0004861' => 'lal', 'Lalb_Chr02g0140591' => 'lal', 'Lalb_Chr02g0140611' => 'lal', 'Lalb_Chr03g0028101' => 'lal', 'Lalb_Chr07g0185791' => 'lal', 'Lalb_Chr12g0204491' => 'lal', 'Lalb_Chr13g0295671' => 'lal', 'Lalb_Chr19g0136461' => 'lal', 'Lalb_Chr21g0309191' => 'lal', 'Lj1g0028158' => 'lja', 'Lj1P236T38' => 'lonja', 'Lj2C32G2' => 'lonja', 'Lj2P944T8' => 'lonja', 'Lj2P963T15' => 'lonja', 'Lj3g0011788' => 'lja', 'Lj4g0025027' => 'lja', 'Lj5P255T36' => 'lonja', 'Lj6g0018866' => 'lja', 'Lj6P608T31' => 'lonja', 'LjContig00408g0008879' => 'lja', 'Lsat_1_v5_gn_5_105820' => 'lsa', 'Lsat_1_v5_gn_6_38800' => 'lsa', 'Lsat_1_v5_gn_7_67141' => 'lsa', 'Manes.04G003400' => 'mes', 'Manes.07G020000' => 'mes', 'Manes.07G020100' => 'mes', 'Manes.07G020150' => 'mes', 'Manes.10G061500' => 'mes', 'Manes.10G123200' => 'mes', 'Manes.11G161900' => 'mes', 'Manes.15G029300' => 'mes', 'Mapoly0071s0018' => 'mpo', 'Mapoly0082s0023' => 'mpo', 'Mapoly3477s0001' => 'mpo', 'MBI05_g31233_MAGBIO' => 'mbi', 'MBI09_g05946_MAGBIO' => 'mbi', 'MBI09_g05947_MAGBIO' => 'mbi', 'MBI17_g08346_MAGBIO' => 'mbi', 'MCO04G038' => 'mco', 'MCO09G370' => 'mco', 'MCO13G605' => 'mco', 'MD00G1075500' => 'mdo', 'MD03G1144300' => 'mdo', 'MD08G1236800' => 'mdo', 'MD13G1193300' => 'mdo', 'MD15G1428700' => 'mdo', 'Medtr1g112030' => 'mtr', 'Medtr1g112050' => 'mtr', 'Medtr2g006290' => 'mtr', 'Medtr2g086510' => 'mtr', 'Medtr4g053120' => 'mtr', 'Medtr5g006320' => 'mtr', 'Medtr8g088720' => 'mtr', 'MELO3C004712.2' => 'cme', 'MELO3C006533.2' => 'cme', 'MELO3C019438.2' => 'cme', 'MELO3C019440.2' => 'cme', 'MELO3C019441.2' => 'cme', 'MELO3C019895.2' => 'cme', 'Migut.B00811' => 'egut', 'Migut.D02447' => 'egut', 'Migut.F00875' => 'egut', 'Migut.N00186' => 'egut', 'Migut.N01051' => 'egut', 'Migut.N02491' => 'egut', 'Migut.O00784' => 'egut', 'MSTRG.12367' => 'ama', 'MSTRG.18756' => 'ama', 'MSTRG.21042' => 'ama', 'Nitab4.5_0000559g0040' => 'nta', 'Nitab4.5_0000667g0190' => 'nta', 'Nitab4.5_0000755g0160' => 'nta', 'Nitab4.5_0001216g0080' => 'nta', 'Nitab4.5_0004069g0040' => 'nta', 'Nitab4.5_0004129g0010' => 'nta', 'Nitab4.5_0005744g0030' => 'nta', 'Nitab4.5_0006996g0030' => 'nta', 'Nitab4.5_0008971g0040' => 'nta', 'Nitab4.5_0009769g0020' => 'nta', 'Nitab4.5_0009833g0010' => 'nta', 'Nitab4.5_0013140g0020' => 'nta', 'Nn003s41376' => 'nnu', 'Nn1g01857' => 'nnu', 'Nn1g03611' => 'nnu', 'Nn1g06853' => 'nnu', 'Nn3g18360' => 'nnu', 'Nn4g26328' => 'nnu', 'Nn5g27531' => 'nnu', 'Nn6g34899' => 'nnu', 'Nn7g36299' => 'nnu', 'Oeu021485.1' => 'oeu', 'Oeu022433.1' => 'oeu', 'Oeu032111.1' => 'oeu', 'Oeu051608.1' => 'oeu', 'Os01g0860601' => 'osa', 'Os03g0659200' => 'osa', 'Os03g0835900' => 'osa', 'Os04g0412200' => 'osa', 'Os05g0443500' => 'osa', 'Os07g0251500' => 'osa', 'Os08g0104600' => 'osa', 'Peaxi162Scf00003g00047' => 'pax', 'Peaxi162Scf00003g00052' => 'pax', 'Peaxi162Scf00003g00394' => 'pax', 'Peaxi162Scf00091g00621' => 'pax', 'Peaxi162Scf00152g00146' => 'pax', 'Peaxi162Scf00173g00025' => 'pax', 'Peaxi162Scf00195g00102' => 'pax', 'Peaxi162Scf00402g00013' => 'pax', 'Peaxi162Scf00519g00618' => 'pax', 'PGR004G2838' => 'pgr', 'PGR044G2275' => 'pgr', 'PGR102G1377' => 'pgr', 'PGR119G1245' => 'pgr', 'PGR142G4449' => 'pgr', 'PGSC0003DMG400004532' => 'stu', 'PGSC0003DMG400011950' => 'stu', 'PGSC0003DMG400023391' => 'stu', 'PGSC0003DMG400023985' => 'stu', 'PGSC0003DMG400026360' => 'stu', 'PGSC0003DMG400035711' => 'stu', 'PGSC0003DMG400037286' => 'stu', 'PGSC0003DMG402005881' => 'stu', 'Phvul.002G045400' => 'pvu', 'Phvul.006G216600' => 'pvu', 'Phvul.006G216700' => 'pvu', 'Phvul.006G216800' => 'pvu', 'Phvul.007G022500' => 'pvu', 'Phvul.011G094400' => 'pvu', 'Potri.001G470700' => 'ptr', 'Potri.003G015200' => 'ptr', 'Potri.004G202500' => 'ptr', 'Potri.004G218400' => 'ptr', 'Potri.008G020100' => 'ptr', 'Potri.008G153200' => 'ptr', 'Potri.009G163800' => 'ptr', 'Potri.010G087300' => 'ptr', 'Potri.010G239100' => 'ptr', 'Pp3c10_16100' => 'ppa', 'Pp3c10_16880' => 'ppa', 'Pp3c16_6230' => 'ppa', 'Pp3c17_18910' => 'ppa', 'Pp3c3_22119' => 'ppa', 'Pp3c3_22140' => 'ppa', 'Pp3c4_8159' => 'ppa', 'Pp3c4_8171' => 'ppa', 'Pp3c4_8330' => 'ppa', 'PRCOL_00004098' => 'pco', 'Prupe.1G013900' => 'ppe', 'Prupe.1G226300' => 'ppe', 'Prupe.1G573600' => 'ppe', 'Prupe.6G130100' => 'ppe', 'Psat3g090040' => 'psa', 'Psat4g210440' => 'psa', 'Psat6g231040' => 'psa', 'Psat6g231080' => 'psa', 'Psat7g063000' => 'psa', 'Psat7g188000' => 'psa', 'Psat7g188040' => 'psa', 'PSO017G0206' => 'pso', 'PSO170G0501' => 'pso', 'PSO170G6422' => 'pso', 'PSO210G7739' => 'pso', 'PSO339G1808' => 'pso', 'PSO339G6135' => 'pso', 'PSO384G0010' => 'pso', 'PSO384G0964' => 'pso', 'PSO761G0050' => 'pso', 'PSO782G4085' => 'pso', 'QL01p012264' => 'qlo', 'QL02p099491' => 'qlo', 'QL03p033868' => 'qlo', 'QL04p046678' => 'qlo', 'QL06p002448' => 'qlo', 'RcHm_v2.0_Chr4g0416181' => 'rch', 'RcHm_v2.0_Chr5g0044701' => 'rch', 'RcHm_v2.0_Chr6g0265781' => 'rch', 'RcHm_v2.0_Chr7g0221031' => 'rch', 'Rhsim04G0202000' => 'rsi', 'Rhsim11G0127300' => 'rsi', 'Rhsim13G0111800' => 'rsi', 'Sabra01G0165600' => 'sbr', 'Sabra03G0008300' => 'sbr', 'Sabra04G0136900' => 'sbr', 'Sabra08G0013400' => 'sbr', 'Sabra08G0116800' => 'sbr', 'Sabra09G0128000' => 'sbr', 'Sabra10G0055500' => 'sbr', 'Sabra10G0073300' => 'sbr', 'SalBow3G0385' => 'sbo', 'SalBow3G1119' => 'sbo', 'SalBow3G2005' => 'sbo', 'SalBow6G2563' => 'sbo', 'SalBow6G6386' => 'sbo', 'Sc06g0008800' => 'sci', 'Sc07g0004950' => 'sci', 'Sc09g0005340' => 'sci', 'Sc13g0004410' => 'sci', 'Sc21g0007090' => 'sci', 'Sed0009285' => 'sed', 'Sed0017583' => 'sed', 'Sed0019699' => 'sed', 'Sed0023107' => 'sed', 'SEGI_10916' => 'sgi', 'SEGI_16217' => 'sgi', 'SEGI_19466' => 'sgi', 'SEGI_41115' => 'sgi', 'SGA_v2.0_scaffold111G31534' => 'sas', 'SGA_v2.0_scaffold22G09864' => 'sas', 'SGA_v2.0_scaffold338G49219' => 'sas', 'SGA_v2.0_scaffold92G28298' => 'sas', 'SMO119G0064' => 'smo', 'SMO223G0038' => 'smo', 'SMO347G0584' => 'smo', 'SMO351G0010' => 'smo', 'SMO356G0404' => 'smo', 'Solyc01g103920.3' => 'sly', 'Solyc04g009710.2' => 'sly', 'Solyc05g055280.2' => 'sly', 'Solyc10g044520.3' => 'sly', 'Solyc10g075160.1' => 'sly', 'Solyc11g006910.3' => 'sly', 'Solyc11g068430.3' => 'sly', 'Sopen01g046310' => 'spe', 'Sopen03g001200' => 'spe', 'Sopen04g004830' => 'spe', 'Sopen05g033720' => 'spe', 'Sopen06g030740' => 'spe', 'Sopen10g013090' => 'spe', 'Sopen10g027630' => 'spe', 'Sopen10g027640' => 'spe', 'Sopen11g002820' => 'spe', 'Sopen11g027140' => 'spe', 'Sp1g09680' => 'spa', 'Sp2g03630' => 'spa', 'Sp4g10320' => 'spa', 'Sp6g33400' => 'spa', 'Sp7g13030' => 'spa', 'TAR365G0317' => 'tar', 'TAR376G0979' => 'tar', 'TAR623G1665' => 'tar', 'TAR633G2373' => 'tar', 'TAR636G1400' => 'tar', 'THA.LOC104800529' => 'tha', 'THA.LOC104808547' => 'tha', 'THA.LOC104809615' => 'tha', 'THA.LOC104815724' => 'tha', 'THA.LOC104818480' => 'tha', 'THA.LOC104819179' => 'tha', 'THA.LOC104822270' => 'tha', 'THA.LOC104826425' => 'tha', 'Thecc.02G089700' => 'tca', 'Thecc.04G232300' => 'tca', 'Thecc.09G283400' => 'tca', 'Thhalv10009020m.g' => 'esa', 'Thhalv10015506m.g' => 'esa', 'Thhalv10017364m.g' => 'esa', 'Thhalv10023742m.g' => 'esa', 'Thhalv10026483m.g' => 'esa', 'TPR.G17232' => 'tpr', 'TPR.G2133' => 'tpr', 'TPR.G2498' => 'tpr', 'TPR.G31942' => 'tpr', 'TPR.G37877' => 'tpr', 'TPR.G4571' => 'tpr', 'TWI14G1113' => 'twi', 'TWI15G0426' => 'twi', 'TWI31G1005' => 'twi', 'TWI38G0513' => 'twi', 'TWI38G1484' => 'twi', 'TWI73G1098' => 'twi', 'unitig_26.g10519' => 'ugi', 'unitig_736.g22395' => 'ugi', 'unitig_747.g21234' => 'ugi', 'unitig_747.g21942' => 'ugi', 'vmacro14351' => 'vma', 'VMungo0540G0082' => 'vmu', 'VMungo0540G0405' => 'vmu', 'VMungo0540G1486' => 'vmu', 'VMungo0540G1692' => 'vmu', 'VMungo0720G2473' => 'vmu', 'VMungo1127G1562' => 'vmu', 'VMungo1215G1918' => 'vmu', 'Zm00001eb052650' => 'zma', 'Zm00001eb063710' => 'zma', 'Zm00001eb083950' => 'zma', 'Zm00001eb174420' => 'zma', 'Zm00001eb260140' => 'zma', 'Zm00001eb260150' => 'zma', 'Zm00001eb260160' => 'zma', 'Zm00001eb348290' => 'zma', 'Zm00001eb366870' => 'zma', 'Zm00001eb421930' => 'zma' ), 'gf_id' => 'HOM05D001025', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001025' ), 'data_identifier' => 'HOM05D001025', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001025', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '592', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p22650' => 'bna', 'A01p29720' => 'bna', 'A03p26560' => 'bna', 'A03p68820' => 'bna', 'A04p20980' => 'bna', 'A06p07730' => 'bna', 'A07p18260' => 'bna', 'A08p33710' => 'bna', 'A09p16970' => 'bna', 'A10p27490' => 'bna', 'Aa31LG1G17300' => 'aar', 'Aa31LG1G3910' => 'aar', 'Aa31LG2G9630' => 'aar', 'Aa31LG5G8360' => 'aar', 'Aa31LG9G2410' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4699' => 'aag', 'Actinidia23512' => 'ach', 'Actinidia37080' => 'ach', 'Ah.01g020380' => 'amhyb', 'Ah.08g215710' => 'amhyb', 'Ah.09g225110' => 'amhyb', 'Ah.10g036680' => 'amhyb', 'AL1G21940' => 'aly', 'AL2G15540' => 'aly', 'AL4G21520' => 'aly', 'AL7G40960' => 'aly', 'Aqoxy2G01191' => 'aox', 'Aqoxy2G03393' => 'aox', 'Aqoxy4G02775' => 'aox', 'Aqoxy6G00058' => 'aox', 'arahy.Tifrunner.gnm1.ann1.9X74H2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CW3FX9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R485W7' => 'arhy', 'AT1G10960' => 'ath', 'AT1G60950' => 'ath', 'AT2G27510' => 'ath', 'AT4G14890' => 'ath', 'AT5G10000' => 'ath', 'ATR0665G624' => 'atr', 'ATR0697G138' => 'atr', 'ATR0776G046' => 'atr', 'ATR1134G135' => 'atr', 'Atru.chr12.1025' => 'acertr', 'Atru.chr3.3241' => 'acertr', 'Atru.chr4.2460' => 'acertr', 'AUR62007427' => 'cqu', 'AUR62010960' => 'cqu', 'AUR62012201' => 'cqu', 'AUR62021470' => 'cqu', 'AUR62022834' => 'cqu', 'AUR62033635' => 'cqu', 'AUR62036186' => 'cqu', 'BcaB01g03077' => 'bca', 'BcaB02g10093' => 'bca', 'BcaB04g20295' => 'bca', 'BcaB06g28147' => 'bca', 'BcaB07g31253' => 'bca', 'BcaC01g04946' => 'bca', 'BcaC02g10614' => 'bca', 'BcaC02g10885' => 'bca', 'BcaC04g19356' => 'bca', 'BcaC04g22297' => 'bca', 'BcaC05g24977' => 'bca', 'BcaC06g31823' => 'bca', 'BcaC07g38633' => 'bca', 'BcaC09g49353' => 'bca', 'BcaC09g50168' => 'bca', 'BcaNung00322' => 'bca', 'BcaNung04769' => 'bca', 'BolC1t02753H' => 'bol', 'BolC1t03721H' => 'bol', 'BolC3t15525H' => 'bol', 'BolC4t23903H' => 'bol', 'BolC4t24231H' => 'bol', 'BolC4t27209H' => 'bol', 'BolC5t29671H' => 'bol', 'BolC8t49044H' => 'bol', 'BolC9t54999H' => 'bol', 'BolC9t59517H' => 'bol', 'BraA01t02178Z' => 'bra', 'BraA01t03099Z' => 'bra', 'BraA03t11867Z' => 'bra', 'BraA04t17667Z' => 'bra', 'BraA07t29542Z' => 'bra', 'BraA08t35287Z' => 'bra', 'BraA09t37334Z' => 'bra', 'BraA10t44801Z' => 'bra', 'BraSC39t46181Z' => 'bra', 'C01p28240' => 'bna', 'C01p37530' => 'bna', 'C03p31820' => 'bna', 'C04p24080' => 'bna', 'C04p25790' => 'bna', 'C04p56770' => 'bna', 'C05p09310' => 'bna', 'C09p21010' => 'bna', 'C09p67560' => 'bna', 'CAN.G1324.7' => 'can', 'CAN.G1358.10' => 'can', 'CAN.G1550.2' => 'can', 'CAN.G186.56' => 'can', 'CAN.G1965.1' => 'can', 'CAN.G645.15' => 'can', 'CAN.G798.26' => 'can', 'CAN.G798.27' => 'can', 'CAN.G798.29' => 'can', 'CAN.G919.31' => 'can', 'CANSAT11G0133' => 'cansat', 'CANSAT11G1171' => 'cansat', 'CANSAT11G2056' => 'cansat', 'CANSAT56G1202' => 'cansat', 'CANSAT56G1514' => 'cansat', 'CANSAT78G0455' => 'cansat', 'CARHR011190' => 'chi', 'CARHR051980' => 'chi', 'CARHR120170' => 'chi', 'CARHR203310' => 'chi', 'CARHR221490' => 'chi', 'Carub.0001s1054' => 'cru', 'Carub.0002s0431' => 'cru', 'Carub.0004s0818' => 'cru', 'Carub.0006s0846' => 'cru', 'Carub.0007s2722' => 'cru', 'Ca_00058_v3' => 'car', 'Ca_17831_v3' => 'car', 'Ca_19408_v3' => 'car', 'Ca_24397_v3' => 'car', 'Ca_25664_v3' => 'car', 'CBR_g21818' => 'cbr', 'CBR_g31195' => 'cbr', 'CBR_g32282' => 'cbr', 'CBR_g39599' => 'cbr', 'CBR_g49410' => 'cbr', 'Cc01_g09120' => 'ccan', 'Cc01_g09130' => 'ccan', 'Cc02_g09630' => 'ccan', 'Cc02_g22810' => 'ccan', 'Cc03_g03810' => 'ccan', 'CDE02G3718' => 'cde', 'CDE04G3183' => 'cde', 'CDE07G1046' => 'cde', 'CDE08G0480' => 'cde', 'Cfa005493' => 'cfa', 'Cfa010312' => 'cfa', 'Cfa015648' => 'cfa', 'Ciclev10002793m.g' => 'ccl', 'Ciclev10003356m.g' => 'ccl', 'Ciclev10006141m.g' => 'ccl', 'Ciclev10016676m.g' => 'ccl', 'Ciclev10017081m.g' => 'ccl', 'Ciclev10029499m.g' => 'ccl', 'CiPaw.01G166300' => 'cil', 'CiPaw.06G145600' => 'cil', 'CiPaw.13G040100' => 'cil', 'CiPaw.13G135800' => 'cil', 'ClCG01G012230' => 'cla', 'ClCG05G009510' => 'cla', 'ClCG08G008270' => 'cla', 'COL.COLO4_11763' => 'col', 'COL.COLO4_19876' => 'col', 'COL.COLO4_21481' => 'col', 'Cpa.g.sc118.34' => 'cpa', 'Cpa.g.sc32.13' => 'cpa', 'Cpa.g.sc58.103' => 'cpa', 'Cre03.g183850' => 'cre', 'Cre06.g306350' => 'cre', 'Cre07.g334800' => 'cre', 'Cre12.g487900' => 'cre', 'Cre14.g626700' => 'cre', 'Cre16.g658400' => 'cre', 'Cre17.g700950' => 'cre', 'CsaV3_1G014830' => 'csa', 'CsaV3_3G013320' => 'csa', 'CsaV3_3G019210' => 'csa', 'CsaV3_3G019220' => 'csa', 'CsaV3_6G004230' => 'csa', 'CSS0003773' => 'camsi', 'CSS0004563' => 'camsi', 'CSS0013949' => 'camsi', 'CSS0025971' => 'camsi', 'CSS0028570' => 'camsi', 'CSS0033127' => 'camsi', 'CSS0036051' => 'camsi', 'CSS0040087' => 'camsi', 'CSS0043179' => 'camsi', 'DCAR_006161' => 'dca', 'DCAR_010351' => 'dca', 'DCAR_012197' => 'dca', 'DCAR_024162' => 'dca', 'Dinv01030' => 'din', 'Dinv10924' => 'din', 'Dinv11835' => 'din', 'Dinv22841' => 'din', 'Dinv42553' => 'din', 'Duzib052G0560' => 'dzi', 'Duzib132G0389' => 'dzi', 'Duzib150G1181' => 'dzi', 'Duzib168G0623' => 'dzi', 'Duzib170G1036' => 'dzi', 'Duzib212G0200' => 'dzi', 'Duzib248G0194' => 'dzi', 'ECA232G2193' => 'eca', 'ECA233G0302' => 'eca', 'ECA234G2813' => 'eca', 'ECA234G4866' => 'eca', 'ECA240G3932' => 'eca', 'ECA248G0385' => 'eca', 'EL10Ac2g04781' => 'bvu', 'EL10Ac3g06445' => 'bvu', 'EL10Ac7g15825' => 'bvu', 'EL10Ac8g18550' => 'bvu', 'Eucgr.B03849' => 'egr', 'Eucgr.I02744' => 'egr', 'Eucgr.J00264' => 'egr', 'Eucgr.J00493' => 'egr', 'FAN04G2181' => 'fan', 'FAN07G2666' => 'fan', 'FAN11G0024' => 'fan', 'FAN12G1105' => 'fan', 'FAN13G0302' => 'fan', 'FAN15G2781' => 'fan', 'FAN16G1274' => 'fan', 'FAN17G2988' => 'fan', 'FAN18G2621' => 'fan', 'FAN21G0013' => 'fan', 'FAN22G1211' => 'fan', 'FAN25G3626' => 'fan', 'FvH4_2g09491' => 'fve', 'FvH4_3g24910' => 'fve', 'FvH4_4g15630' => 'fve', 'FvH4_5g28820' => 'fve', 'Glyma.01G238000' => 'gma', 'Glyma.05G168400' => 'gma', 'Glyma.08G126800' => 'gma', 'Glyma.08G188500' => 'gma', 'Glyma.10G278900' => 'gma', 'Glyma.11G005700' => 'gma', 'Glyma.11G183300' => 'gma', 'Glyma.12G089200' => 'gma', 'Glyma.12G169400' => 'gma', 'Glyma.12G169500' => 'gma', 'Glyma.12G169600' => 'gma', 'Glyma.20G110800' => 'gma', 'Gohir.A03G192900' => 'ghi', 'Gohir.A03G193000' => 'ghi', 'Gohir.A05G080700' => 'ghi', 'Gohir.A09G216000' => 'ghi', 'Gohir.A12G027700' => 'ghi', 'Gohir.A13G036200' => 'ghi', 'Gohir.A13G222600' => 'ghi', 'Gohir.D02G213900' => 'ghi', 'Gohir.D02G214000' => 'ghi', 'Gohir.D05G083700' => 'ghi', 'Gohir.D05G083800' => 'ghi', 'Gohir.D05G083850' => 'ghi', 'Gohir.D08G015400' => 'ghi', 'Gohir.D09G218400' => 'ghi', 'Gohir.D12G027100' => 'ghi', 'Gohir.D13G034500' => 'ghi', 'Gohir.D13G227400' => 'ghi', 'Gorai.005G241800' => 'gra', 'Gorai.005G241900' => 'gra', 'Gorai.006G239400' => 'gra', 'Gorai.008G027600' => 'gra', 'Gorai.009G085400' => 'gra', 'Gorai.009G085500' => 'gra', 'Gorai.013G039000' => 'gra', 'Gorai.013G194800' => 'gra', 'Gorai.013G257900' => 'gra', 'GSVIVG01000982001' => 'vvi', 'GSVIVG01017981001' => 'vvi', 'HanXRQChr01g0024061' => 'han', 'HanXRQChr09g0247831' => 'han', 'HanXRQChr10g0294611' => 'han', 'HanXRQChr10g0294621' => 'han', 'HanXRQChr11g0346821' => 'han', 'HanXRQChr13g0397461' => 'han', 'HanXRQChr16g0513651' => 'han', 'HanXRQChr16g0513701' => 'han', 'Haze_00897' => 'cav', 'Haze_01745' => 'cav', 'Haze_02486' => 'cav', 'Haze_02487' => 'cav', 'Haze_23374' => 'cav', 'Hma1.2p1_0578F.1_g182520' => 'hma', 'Hma1.2p1_0602F.1_g187350' => 'hma', 'Hma1.2p1_0602F.1_g187360' => 'hma', 'Hma1.2p1_0874F.1_g231320' => 'hma', 'Hma1.2p1_1197F.1_g266210' => 'hma', 'Hma1.2p1_1197F.1_g266220' => 'hma', 'Hma1.2p1_2167F.1_g315895' => 'hma', 'Hma1.2p1_2190F.1_g316640' => 'hma', 'Hma1.2p1_3645F.1_g337153' => 'hma', 'HPP92_004907' => 'vpl', 'HPP92_012134' => 'vpl', 'HPP92_025136' => 'vpl', 'HPP92_026087' => 'vpl', 'Hund06782' => 'sun', 'Hund06784' => 'sun', 'Lalb_Chr01g0004861' => 'lal', 'Lalb_Chr02g0140591' => 'lal', 'Lalb_Chr02g0140611' => 'lal', 'Lalb_Chr03g0028101' => 'lal', 'Lalb_Chr07g0185791' => 'lal', 'Lalb_Chr12g0204491' => 'lal', 'Lalb_Chr13g0295671' => 'lal', 'Lalb_Chr19g0136461' => 'lal', 'Lalb_Chr21g0309191' => 'lal', 'Lj1g0028158' => 'lja', 'Lj1P236T38' => 'lonja', 'Lj2C32G2' => 'lonja', 'Lj2P944T8' => 'lonja', 'Lj2P963T15' => 'lonja', 'Lj3g0011788' => 'lja', 'Lj4g0025027' => 'lja', 'Lj5P255T36' => 'lonja', 'Lj6g0018866' => 'lja', 'Lj6P608T31' => 'lonja', 'LjContig00408g0008879' => 'lja', 'Lsat_1_v5_gn_5_105820' => 'lsa', 'Lsat_1_v5_gn_6_38800' => 'lsa', 'Lsat_1_v5_gn_7_67141' => 'lsa', 'Manes.04G003400' => 'mes', 'Manes.07G020000' => 'mes', 'Manes.07G020100' => 'mes', 'Manes.07G020150' => 'mes', 'Manes.10G061500' => 'mes', 'Manes.10G123200' => 'mes', 'Manes.11G161900' => 'mes', 'Manes.15G029300' => 'mes', 'Mapoly0071s0018' => 'mpo', 'Mapoly0082s0023' => 'mpo', 'Mapoly3477s0001' => 'mpo', 'MBI05_g31233_MAGBIO' => 'mbi', 'MBI09_g05946_MAGBIO' => 'mbi', 'MBI09_g05947_MAGBIO' => 'mbi', 'MBI17_g08346_MAGBIO' => 'mbi', 'MCO04G038' => 'mco', 'MCO09G370' => 'mco', 'MCO13G605' => 'mco', 'MD00G1075500' => 'mdo', 'MD03G1144300' => 'mdo', 'MD08G1236800' => 'mdo', 'MD13G1193300' => 'mdo', 'MD15G1428700' => 'mdo', 'Medtr1g112030' => 'mtr', 'Medtr1g112050' => 'mtr', 'Medtr2g006290' => 'mtr', 'Medtr2g086510' => 'mtr', 'Medtr4g053120' => 'mtr', 'Medtr5g006320' => 'mtr', 'Medtr8g088720' => 'mtr', 'MELO3C004712.2' => 'cme', 'MELO3C006533.2' => 'cme', 'MELO3C019438.2' => 'cme', 'MELO3C019440.2' => 'cme', 'MELO3C019441.2' => 'cme', 'MELO3C019895.2' => 'cme', 'Migut.B00811' => 'egut', 'Migut.D02447' => 'egut', 'Migut.F00875' => 'egut', 'Migut.N00186' => 'egut', 'Migut.N01051' => 'egut', 'Migut.N02491' => 'egut', 'Migut.O00784' => 'egut', 'MSTRG.12367' => 'ama', 'MSTRG.18756' => 'ama', 'MSTRG.21042' => 'ama', 'Nitab4.5_0000559g0040' => 'nta', 'Nitab4.5_0000667g0190' => 'nta', 'Nitab4.5_0000755g0160' => 'nta', 'Nitab4.5_0001216g0080' => 'nta', 'Nitab4.5_0004069g0040' => 'nta', 'Nitab4.5_0004129g0010' => 'nta', 'Nitab4.5_0005744g0030' => 'nta', 'Nitab4.5_0006996g0030' => 'nta', 'Nitab4.5_0008971g0040' => 'nta', 'Nitab4.5_0009769g0020' => 'nta', 'Nitab4.5_0009833g0010' => 'nta', 'Nitab4.5_0013140g0020' => 'nta', 'Nn003s41376' => 'nnu', 'Nn1g01857' => 'nnu', 'Nn1g03611' => 'nnu', 'Nn1g06853' => 'nnu', 'Nn3g18360' => 'nnu', 'Nn4g26328' => 'nnu', 'Nn5g27531' => 'nnu', 'Nn6g34899' => 'nnu', 'Nn7g36299' => 'nnu', 'Oeu021485.1' => 'oeu', 'Oeu022433.1' => 'oeu', 'Oeu032111.1' => 'oeu', 'Oeu051608.1' => 'oeu', 'Os01g0860601' => 'osa', 'Os03g0659200' => 'osa', 'Os03g0835900' => 'osa', 'Os04g0412200' => 'osa', 'Os05g0443500' => 'osa', 'Os07g0251500' => 'osa', 'Os08g0104600' => 'osa', 'Peaxi162Scf00003g00047' => 'pax', 'Peaxi162Scf00003g00052' => 'pax', 'Peaxi162Scf00003g00394' => 'pax', 'Peaxi162Scf00091g00621' => 'pax', 'Peaxi162Scf00152g00146' => 'pax', 'Peaxi162Scf00173g00025' => 'pax', 'Peaxi162Scf00195g00102' => 'pax', 'Peaxi162Scf00402g00013' => 'pax', 'Peaxi162Scf00519g00618' => 'pax', 'PGR004G2838' => 'pgr', 'PGR044G2275' => 'pgr', 'PGR102G1377' => 'pgr', 'PGR119G1245' => 'pgr', 'PGR142G4449' => 'pgr', 'PGSC0003DMG400004532' => 'stu', 'PGSC0003DMG400011950' => 'stu', 'PGSC0003DMG400023391' => 'stu', 'PGSC0003DMG400023985' => 'stu', 'PGSC0003DMG400026360' => 'stu', 'PGSC0003DMG400035711' => 'stu', 'PGSC0003DMG400037286' => 'stu', 'PGSC0003DMG402005881' => 'stu', 'Phvul.002G045400' => 'pvu', 'Phvul.006G216600' => 'pvu', 'Phvul.006G216700' => 'pvu', 'Phvul.006G216800' => 'pvu', 'Phvul.007G022500' => 'pvu', 'Phvul.011G094400' => 'pvu', 'Potri.001G470700' => 'ptr', 'Potri.003G015200' => 'ptr', 'Potri.004G202500' => 'ptr', 'Potri.004G218400' => 'ptr', 'Potri.008G020100' => 'ptr', 'Potri.008G153200' => 'ptr', 'Potri.009G163800' => 'ptr', 'Potri.010G087300' => 'ptr', 'Potri.010G239100' => 'ptr', 'Pp3c10_16100' => 'ppa', 'Pp3c10_16880' => 'ppa', 'Pp3c16_6230' => 'ppa', 'Pp3c17_18910' => 'ppa', 'Pp3c3_22119' => 'ppa', 'Pp3c3_22140' => 'ppa', 'Pp3c4_8159' => 'ppa', 'Pp3c4_8171' => 'ppa', 'Pp3c4_8330' => 'ppa', 'PRCOL_00004098' => 'pco', 'Prupe.1G013900' => 'ppe', 'Prupe.1G226300' => 'ppe', 'Prupe.1G573600' => 'ppe', 'Prupe.6G130100' => 'ppe', 'Psat3g090040' => 'psa', 'Psat4g210440' => 'psa', 'Psat6g231040' => 'psa', 'Psat6g231080' => 'psa', 'Psat7g063000' => 'psa', 'Psat7g188000' => 'psa', 'Psat7g188040' => 'psa', 'PSO017G0206' => 'pso', 'PSO170G0501' => 'pso', 'PSO170G6422' => 'pso', 'PSO210G7739' => 'pso', 'PSO339G1808' => 'pso', 'PSO339G6135' => 'pso', 'PSO384G0010' => 'pso', 'PSO384G0964' => 'pso', 'PSO761G0050' => 'pso', 'PSO782G4085' => 'pso', 'QL01p012264' => 'qlo', 'QL02p099491' => 'qlo', 'QL03p033868' => 'qlo', 'QL04p046678' => 'qlo', 'QL06p002448' => 'qlo', 'RcHm_v2.0_Chr4g0416181' => 'rch', 'RcHm_v2.0_Chr5g0044701' => 'rch', 'RcHm_v2.0_Chr6g0265781' => 'rch', 'RcHm_v2.0_Chr7g0221031' => 'rch', 'Rhsim04G0202000' => 'rsi', 'Rhsim11G0127300' => 'rsi', 'Rhsim13G0111800' => 'rsi', 'Sabra01G0165600' => 'sbr', 'Sabra03G0008300' => 'sbr', 'Sabra04G0136900' => 'sbr', 'Sabra08G0013400' => 'sbr', 'Sabra08G0116800' => 'sbr', 'Sabra09G0128000' => 'sbr', 'Sabra10G0055500' => 'sbr', 'Sabra10G0073300' => 'sbr', 'SalBow3G0385' => 'sbo', 'SalBow3G1119' => 'sbo', 'SalBow3G2005' => 'sbo', 'SalBow6G2563' => 'sbo', 'SalBow6G6386' => 'sbo', 'Sc06g0008800' => 'sci', 'Sc07g0004950' => 'sci', 'Sc09g0005340' => 'sci', 'Sc13g0004410' => 'sci', 'Sc21g0007090' => 'sci', 'Sed0009285' => 'sed', 'Sed0017583' => 'sed', 'Sed0019699' => 'sed', 'Sed0023107' => 'sed', 'SEGI_10916' => 'sgi', 'SEGI_16217' => 'sgi', 'SEGI_19466' => 'sgi', 'SEGI_41115' => 'sgi', 'SGA_v2.0_scaffold111G31534' => 'sas', 'SGA_v2.0_scaffold22G09864' => 'sas', 'SGA_v2.0_scaffold338G49219' => 'sas', 'SGA_v2.0_scaffold92G28298' => 'sas', 'SMO119G0064' => 'smo', 'SMO223G0038' => 'smo', 'SMO347G0584' => 'smo', 'SMO351G0010' => 'smo', 'SMO356G0404' => 'smo', 'Solyc01g103920.3' => 'sly', 'Solyc04g009710.2' => 'sly', 'Solyc05g055280.2' => 'sly', 'Solyc10g044520.3' => 'sly', 'Solyc10g075160.1' => 'sly', 'Solyc11g006910.3' => 'sly', 'Solyc11g068430.3' => 'sly', 'Sopen01g046310' => 'spe', 'Sopen03g001200' => 'spe', 'Sopen04g004830' => 'spe', 'Sopen05g033720' => 'spe', 'Sopen06g030740' => 'spe', 'Sopen10g013090' => 'spe', 'Sopen10g027630' => 'spe', 'Sopen10g027640' => 'spe', 'Sopen11g002820' => 'spe', 'Sopen11g027140' => 'spe', 'Sp1g09680' => 'spa', 'Sp2g03630' => 'spa', 'Sp4g10320' => 'spa', 'Sp6g33400' => 'spa', 'Sp7g13030' => 'spa', 'TAR365G0317' => 'tar', 'TAR376G0979' => 'tar', 'TAR623G1665' => 'tar', 'TAR633G2373' => 'tar', 'TAR636G1400' => 'tar', 'THA.LOC104800529' => 'tha', 'THA.LOC104808547' => 'tha', 'THA.LOC104809615' => 'tha', 'THA.LOC104815724' => 'tha', 'THA.LOC104818480' => 'tha', 'THA.LOC104819179' => 'tha', 'THA.LOC104822270' => 'tha', 'THA.LOC104826425' => 'tha', 'Thecc.02G089700' => 'tca', 'Thecc.04G232300' => 'tca', 'Thecc.09G283400' => 'tca', 'Thhalv10009020m.g' => 'esa', 'Thhalv10015506m.g' => 'esa', 'Thhalv10017364m.g' => 'esa', 'Thhalv10023742m.g' => 'esa', 'Thhalv10026483m.g' => 'esa', 'TPR.G17232' => 'tpr', 'TPR.G2133' => 'tpr', 'TPR.G2498' => 'tpr', 'TPR.G31942' => 'tpr', 'TPR.G37877' => 'tpr', 'TPR.G4571' => 'tpr', 'TWI14G1113' => 'twi', 'TWI15G0426' => 'twi', 'TWI31G1005' => 'twi', 'TWI38G0513' => 'twi', 'TWI38G1484' => 'twi', 'TWI73G1098' => 'twi', 'unitig_26.g10519' => 'ugi', 'unitig_736.g22395' => 'ugi', 'unitig_747.g21234' => 'ugi', 'unitig_747.g21942' => 'ugi', 'vmacro14351' => 'vma', 'VMungo0540G0082' => 'vmu', 'VMungo0540G0405' => 'vmu', 'VMungo0540G1486' => 'vmu', 'VMungo0540G1692' => 'vmu', 'VMungo0720G2473' => 'vmu', 'VMungo1127G1562' => 'vmu', 'VMungo1215G1918' => 'vmu', 'Zm00001eb052650' => 'zma', 'Zm00001eb063710' => 'zma', 'Zm00001eb083950' => 'zma', 'Zm00001eb174420' => 'zma', 'Zm00001eb260140' => 'zma', 'Zm00001eb260150' => 'zma', 'Zm00001eb260160' => 'zma', 'Zm00001eb348290' => 'zma', 'Zm00001eb366870' => 'zma', 'Zm00001eb421930' => 'zma' ) $gf_id = 'HOM05D001025' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001025' ) $data_identifier = 'HOM05D001025' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 19, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 2, 'amhyb' => (int) 4, 'aly' => (int) 4, 'aox' => (int) 4, 'arhy' => (int) 3, 'ath' => (int) 5, 'atr' => (int) 4, 'acertr' => (int) 3, 'cqu' => (int) 7, 'bca' => (int) 17, 'bol' => (int) 10, 'bra' => (int) 9, 'can' => (int) 10, 'cansat' => (int) 6, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 5, 'cbr' => (int) 5, 'ccan' => (int) 5, 'cde' => (int) 4, 'cfa' => (int) 3, 'ccl' => (int) 6, 'cil' => (int) 4, 'cla' => (int) 3, 'col' => (int) 3, 'cpa' => (int) 3, 'cre' => (int) 7, 'csa' => (int) 5, 'camsi' => (int) 9, 'dca' => (int) 4, 'din' => (int) 5, 'dzi' => (int) 7, 'eca' => (int) 6, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 12, 'fve' => (int) 4, 'gma' => (int) 12, 'ghi' => (int) 17, 'gra' => (int) 9, 'vvi' => (int) 2, 'han' => (int) 8, 'cav' => (int) 5, 'hma' => (int) 9, 'vpl' => (int) 4, 'sun' => (int) 2, 'lal' => (int) 9, 'lja' => (int) 5, 'lonja' => (int) 6, 'lsa' => (int) 3, 'mes' => (int) 8, 'mpo' => (int) 3, 'mbi' => (int) 4, 'mco' => (int) 3, 'mdo' => (int) 5, 'mtr' => (int) 7, 'cme' => (int) 6, 'egut' => (int) 7, 'ama' => (int) 3, 'nta' => (int) 12, 'nnu' => (int) 9, 'oeu' => (int) 4, 'osa' => (int) 7, 'pax' => (int) 9, 'pgr' => (int) 5, 'stu' => (int) 8, 'pvu' => (int) 6, 'ptr' => (int) 9, 'ppa' => (int) 9, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 7, 'pso' => (int) 10, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 3, 'sbr' => (int) 8, 'sbo' => (int) 5, 'sci' => (int) 5, 'sed' => (int) 4, 'sgi' => (int) 4, 'sas' => (int) 4, 'smo' => (int) 5, 'sly' => (int) 7, 'spe' => (int) 10, 'spa' => (int) 5, 'tar' => (int) 5, 'tha' => (int) 8, 'tca' => (int) 3, 'esa' => (int) 5, 'tpr' => (int) 6, 'twi' => (int) 6, 'ugi' => (int) 4, 'vma' => (int) 1, 'vmu' => (int) 7, 'zma' => (int) 10 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb421930' $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' => 'HOM05D001025', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '592', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p22650' => 'bna', 'A01p29720' => 'bna', 'A03p26560' => 'bna', 'A03p68820' => 'bna', 'A04p20980' => 'bna', 'A06p07730' => 'bna', 'A07p18260' => 'bna', 'A08p33710' => 'bna', 'A09p16970' => 'bna', 'A10p27490' => 'bna', 'Aa31LG1G17300' => 'aar', 'Aa31LG1G3910' => 'aar', 'Aa31LG2G9630' => 'aar', 'Aa31LG5G8360' => 'aar', 'Aa31LG9G2410' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4699' => 'aag', 'Actinidia23512' => 'ach', 'Actinidia37080' => 'ach', 'Ah.01g020380' => 'amhyb', 'Ah.08g215710' => 'amhyb', 'Ah.09g225110' => 'amhyb', 'Ah.10g036680' => 'amhyb', 'AL1G21940' => 'aly', 'AL2G15540' => 'aly', 'AL4G21520' => 'aly', 'AL7G40960' => 'aly', 'Aqoxy2G01191' => 'aox', 'Aqoxy2G03393' => 'aox', 'Aqoxy4G02775' => 'aox', 'Aqoxy6G00058' => 'aox', 'arahy.Tifrunner.gnm1.ann1.9X74H2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CW3FX9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R485W7' => 'arhy', 'AT1G10960' => 'ath', 'AT1G60950' => 'ath', 'AT2G27510' => 'ath', 'AT4G14890' => 'ath', 'AT5G10000' => 'ath', 'ATR0665G624' => 'atr', 'ATR0697G138' => 'atr', 'ATR0776G046' => 'atr', 'ATR1134G135' => 'atr', 'Atru.chr12.1025' => 'acertr', 'Atru.chr3.3241' => 'acertr', 'Atru.chr4.2460' => 'acertr', 'AUR62007427' => 'cqu', 'AUR62010960' => 'cqu', 'AUR62012201' => 'cqu', 'AUR62021470' => 'cqu', 'AUR62022834' => 'cqu', 'AUR62033635' => 'cqu', 'AUR62036186' => 'cqu', 'BcaB01g03077' => 'bca', 'BcaB02g10093' => 'bca', 'BcaB04g20295' => 'bca', 'BcaB06g28147' => 'bca', 'BcaB07g31253' => 'bca', 'BcaC01g04946' => 'bca', 'BcaC02g10614' => 'bca', 'BcaC02g10885' => 'bca', 'BcaC04g19356' => 'bca', 'BcaC04g22297' => 'bca', 'BcaC05g24977' => 'bca', 'BcaC06g31823' => 'bca', 'BcaC07g38633' => 'bca', 'BcaC09g49353' => 'bca', 'BcaC09g50168' => 'bca', 'BcaNung00322' => 'bca', 'BcaNung04769' => 'bca', 'BolC1t02753H' => 'bol', 'BolC1t03721H' => 'bol', 'BolC3t15525H' => 'bol', 'BolC4t23903H' => 'bol', 'BolC4t24231H' => 'bol', 'BolC4t27209H' => 'bol', 'BolC5t29671H' => 'bol', 'BolC8t49044H' => 'bol', 'BolC9t54999H' => 'bol', 'BolC9t59517H' => 'bol', 'BraA01t02178Z' => 'bra', 'BraA01t03099Z' => 'bra', 'BraA03t11867Z' => 'bra', 'BraA04t17667Z' => 'bra', 'BraA07t29542Z' => 'bra', 'BraA08t35287Z' => 'bra', 'BraA09t37334Z' => 'bra', 'BraA10t44801Z' => 'bra', 'BraSC39t46181Z' => 'bra', 'C01p28240' => 'bna', 'C01p37530' => 'bna', 'C03p31820' => 'bna', 'C04p24080' => 'bna', 'C04p25790' => 'bna', 'C04p56770' => 'bna', 'C05p09310' => 'bna', 'C09p21010' => 'bna', 'C09p67560' => 'bna', 'CAN.G1324.7' => 'can', 'CAN.G1358.10' => 'can', 'CAN.G1550.2' => 'can', 'CAN.G186.56' => 'can', 'CAN.G1965.1' => 'can', 'CAN.G645.15' => 'can', 'CAN.G798.26' => 'can', 'CAN.G798.27' => 'can', 'CAN.G798.29' => 'can', 'CAN.G919.31' => 'can', 'CANSAT11G0133' => 'cansat', 'CANSAT11G1171' => 'cansat', 'CANSAT11G2056' => 'cansat', 'CANSAT56G1202' => 'cansat', 'CANSAT56G1514' => 'cansat', 'CANSAT78G0455' => 'cansat', 'CARHR011190' => 'chi', 'CARHR051980' => 'chi', 'CARHR120170' => 'chi', 'CARHR203310' => 'chi', 'CARHR221490' => 'chi', 'Carub.0001s1054' => 'cru', 'Carub.0002s0431' => 'cru', 'Carub.0004s0818' => 'cru', 'Carub.0006s0846' => 'cru', 'Carub.0007s2722' => 'cru', 'Ca_00058_v3' => 'car', 'Ca_17831_v3' => 'car', 'Ca_19408_v3' => 'car', 'Ca_24397_v3' => 'car', 'Ca_25664_v3' => 'car', 'CBR_g21818' => 'cbr', 'CBR_g31195' => 'cbr', 'CBR_g32282' => 'cbr', 'CBR_g39599' => 'cbr', 'CBR_g49410' => 'cbr', 'Cc01_g09120' => 'ccan', 'Cc01_g09130' => 'ccan', 'Cc02_g09630' => 'ccan', 'Cc02_g22810' => 'ccan', 'Cc03_g03810' => 'ccan', 'CDE02G3718' => 'cde', 'CDE04G3183' => 'cde', 'CDE07G1046' => 'cde', 'CDE08G0480' => 'cde', 'Cfa005493' => 'cfa', 'Cfa010312' => 'cfa', 'Cfa015648' => 'cfa', 'Ciclev10002793m.g' => 'ccl', 'Ciclev10003356m.g' => 'ccl', 'Ciclev10006141m.g' => 'ccl', 'Ciclev10016676m.g' => 'ccl', 'Ciclev10017081m.g' => 'ccl', 'Ciclev10029499m.g' => 'ccl', 'CiPaw.01G166300' => 'cil', 'CiPaw.06G145600' => 'cil', 'CiPaw.13G040100' => 'cil', 'CiPaw.13G135800' => 'cil', 'ClCG01G012230' => 'cla', 'ClCG05G009510' => 'cla', 'ClCG08G008270' => 'cla', 'COL.COLO4_11763' => 'col', 'COL.COLO4_19876' => 'col', 'COL.COLO4_21481' => 'col', 'Cpa.g.sc118.34' => 'cpa', 'Cpa.g.sc32.13' => 'cpa', 'Cpa.g.sc58.103' => 'cpa', 'Cre03.g183850' => 'cre', 'Cre06.g306350' => 'cre', 'Cre07.g334800' => 'cre', 'Cre12.g487900' => 'cre', 'Cre14.g626700' => 'cre', 'Cre16.g658400' => 'cre', 'Cre17.g700950' => 'cre', 'CsaV3_1G014830' => 'csa', 'CsaV3_3G013320' => 'csa', 'CsaV3_3G019210' => 'csa', 'CsaV3_3G019220' => 'csa', 'CsaV3_6G004230' => 'csa', 'CSS0003773' => 'camsi', 'CSS0004563' => 'camsi', 'CSS0013949' => 'camsi', 'CSS0025971' => 'camsi', 'CSS0028570' => 'camsi', 'CSS0033127' => 'camsi', 'CSS0036051' => 'camsi', 'CSS0040087' => 'camsi', 'CSS0043179' => 'camsi', 'DCAR_006161' => 'dca', 'DCAR_010351' => 'dca', 'DCAR_012197' => 'dca', 'DCAR_024162' => 'dca', 'Dinv01030' => 'din', 'Dinv10924' => 'din', 'Dinv11835' => 'din', 'Dinv22841' => 'din', 'Dinv42553' => 'din', 'Duzib052G0560' => 'dzi', 'Duzib132G0389' => 'dzi', 'Duzib150G1181' => 'dzi', 'Duzib168G0623' => 'dzi', 'Duzib170G1036' => 'dzi', 'Duzib212G0200' => 'dzi', 'Duzib248G0194' => 'dzi', 'ECA232G2193' => 'eca', 'ECA233G0302' => 'eca', 'ECA234G2813' => 'eca', 'ECA234G4866' => 'eca', 'ECA240G3932' => 'eca', 'ECA248G0385' => 'eca', 'EL10Ac2g04781' => 'bvu', 'EL10Ac3g06445' => 'bvu', 'EL10Ac7g15825' => 'bvu', 'EL10Ac8g18550' => 'bvu', 'Eucgr.B03849' => 'egr', 'Eucgr.I02744' => 'egr', 'Eucgr.J00264' => 'egr', 'Eucgr.J00493' => 'egr', 'FAN04G2181' => 'fan', 'FAN07G2666' => 'fan', 'FAN11G0024' => 'fan', 'FAN12G1105' => 'fan', 'FAN13G0302' => 'fan', 'FAN15G2781' => 'fan', 'FAN16G1274' => 'fan', 'FAN17G2988' => 'fan', 'FAN18G2621' => 'fan', 'FAN21G0013' => 'fan', 'FAN22G1211' => 'fan', 'FAN25G3626' => 'fan', 'FvH4_2g09491' => 'fve', 'FvH4_3g24910' => 'fve', 'FvH4_4g15630' => 'fve', 'FvH4_5g28820' => 'fve', 'Glyma.01G238000' => 'gma', 'Glyma.05G168400' => 'gma', 'Glyma.08G126800' => 'gma', 'Glyma.08G188500' => 'gma', 'Glyma.10G278900' => 'gma', 'Glyma.11G005700' => 'gma', 'Glyma.11G183300' => 'gma', 'Glyma.12G089200' => 'gma', 'Glyma.12G169400' => 'gma', 'Glyma.12G169500' => 'gma', 'Glyma.12G169600' => 'gma', 'Glyma.20G110800' => 'gma', 'Gohir.A03G192900' => 'ghi', 'Gohir.A03G193000' => 'ghi', 'Gohir.A05G080700' => 'ghi', 'Gohir.A09G216000' => 'ghi', 'Gohir.A12G027700' => 'ghi', 'Gohir.A13G036200' => 'ghi', 'Gohir.A13G222600' => 'ghi', 'Gohir.D02G213900' => 'ghi', 'Gohir.D02G214000' => 'ghi', 'Gohir.D05G083700' => 'ghi', 'Gohir.D05G083800' => 'ghi', 'Gohir.D05G083850' => 'ghi', 'Gohir.D08G015400' => 'ghi', 'Gohir.D09G218400' => 'ghi', 'Gohir.D12G027100' => 'ghi', 'Gohir.D13G034500' => 'ghi', 'Gohir.D13G227400' => 'ghi', 'Gorai.005G241800' => 'gra', 'Gorai.005G241900' => 'gra', 'Gorai.006G239400' => 'gra', 'Gorai.008G027600' => 'gra', 'Gorai.009G085400' => 'gra', 'Gorai.009G085500' => 'gra', 'Gorai.013G039000' => 'gra', 'Gorai.013G194800' => 'gra', 'Gorai.013G257900' => 'gra', 'GSVIVG01000982001' => 'vvi', 'GSVIVG01017981001' => 'vvi', 'HanXRQChr01g0024061' => 'han', 'HanXRQChr09g0247831' => 'han', 'HanXRQChr10g0294611' => 'han', 'HanXRQChr10g0294621' => 'han', 'HanXRQChr11g0346821' => 'han', 'HanXRQChr13g0397461' => 'han', 'HanXRQChr16g0513651' => 'han', 'HanXRQChr16g0513701' => 'han', 'Haze_00897' => 'cav', 'Haze_01745' => 'cav', 'Haze_02486' => 'cav', 'Haze_02487' => 'cav', 'Haze_23374' => 'cav', 'Hma1.2p1_0578F.1_g182520' => 'hma', 'Hma1.2p1_0602F.1_g187350' => 'hma', 'Hma1.2p1_0602F.1_g187360' => 'hma', 'Hma1.2p1_0874F.1_g231320' => 'hma', 'Hma1.2p1_1197F.1_g266210' => 'hma', 'Hma1.2p1_1197F.1_g266220' => 'hma', 'Hma1.2p1_2167F.1_g315895' => 'hma', 'Hma1.2p1_2190F.1_g316640' => 'hma', 'Hma1.2p1_3645F.1_g337153' => 'hma', 'HPP92_004907' => 'vpl', 'HPP92_012134' => 'vpl', 'HPP92_025136' => 'vpl', 'HPP92_026087' => 'vpl', 'Hund06782' => 'sun', 'Hund06784' => 'sun', 'Lalb_Chr01g0004861' => 'lal', 'Lalb_Chr02g0140591' => 'lal', 'Lalb_Chr02g0140611' => 'lal', 'Lalb_Chr03g0028101' => 'lal', 'Lalb_Chr07g0185791' => 'lal', 'Lalb_Chr12g0204491' => 'lal', 'Lalb_Chr13g0295671' => 'lal', 'Lalb_Chr19g0136461' => 'lal', 'Lalb_Chr21g0309191' => 'lal', 'Lj1g0028158' => 'lja', 'Lj1P236T38' => 'lonja', 'Lj2C32G2' => 'lonja', 'Lj2P944T8' => 'lonja', 'Lj2P963T15' => 'lonja', 'Lj3g0011788' => 'lja', 'Lj4g0025027' => 'lja', 'Lj5P255T36' => 'lonja', 'Lj6g0018866' => 'lja', 'Lj6P608T31' => 'lonja', 'LjContig00408g0008879' => 'lja', 'Lsat_1_v5_gn_5_105820' => 'lsa', 'Lsat_1_v5_gn_6_38800' => 'lsa', 'Lsat_1_v5_gn_7_67141' => 'lsa', 'Manes.04G003400' => 'mes', 'Manes.07G020000' => 'mes', 'Manes.07G020100' => 'mes', 'Manes.07G020150' => 'mes', 'Manes.10G061500' => 'mes', 'Manes.10G123200' => 'mes', 'Manes.11G161900' => 'mes', 'Manes.15G029300' => 'mes', 'Mapoly0071s0018' => 'mpo', 'Mapoly0082s0023' => 'mpo', 'Mapoly3477s0001' => 'mpo', 'MBI05_g31233_MAGBIO' => 'mbi', 'MBI09_g05946_MAGBIO' => 'mbi', 'MBI09_g05947_MAGBIO' => 'mbi', 'MBI17_g08346_MAGBIO' => 'mbi', 'MCO04G038' => 'mco', 'MCO09G370' => 'mco', 'MCO13G605' => 'mco', 'MD00G1075500' => 'mdo', 'MD03G1144300' => 'mdo', 'MD08G1236800' => 'mdo', 'MD13G1193300' => 'mdo', 'MD15G1428700' => 'mdo', 'Medtr1g112030' => 'mtr', 'Medtr1g112050' => 'mtr', 'Medtr2g006290' => 'mtr', 'Medtr2g086510' => 'mtr', 'Medtr4g053120' => 'mtr', 'Medtr5g006320' => 'mtr', 'Medtr8g088720' => 'mtr', 'MELO3C004712.2' => 'cme', 'MELO3C006533.2' => 'cme', 'MELO3C019438.2' => 'cme', 'MELO3C019440.2' => 'cme', 'MELO3C019441.2' => 'cme', 'MELO3C019895.2' => 'cme', 'Migut.B00811' => 'egut', 'Migut.D02447' => 'egut', 'Migut.F00875' => 'egut', 'Migut.N00186' => 'egut', 'Migut.N01051' => 'egut', 'Migut.N02491' => 'egut', 'Migut.O00784' => 'egut', 'MSTRG.12367' => 'ama', 'MSTRG.18756' => 'ama', 'MSTRG.21042' => 'ama', 'Nitab4.5_0000559g0040' => 'nta', 'Nitab4.5_0000667g0190' => 'nta', 'Nitab4.5_0000755g0160' => 'nta', 'Nitab4.5_0001216g0080' => 'nta', 'Nitab4.5_0004069g0040' => 'nta', 'Nitab4.5_0004129g0010' => 'nta', 'Nitab4.5_0005744g0030' => 'nta', 'Nitab4.5_0006996g0030' => 'nta', 'Nitab4.5_0008971g0040' => 'nta', 'Nitab4.5_0009769g0020' => 'nta', 'Nitab4.5_0009833g0010' => 'nta', 'Nitab4.5_0013140g0020' => 'nta', 'Nn003s41376' => 'nnu', 'Nn1g01857' => 'nnu', 'Nn1g03611' => 'nnu', 'Nn1g06853' => 'nnu', 'Nn3g18360' => 'nnu', 'Nn4g26328' => 'nnu', 'Nn5g27531' => 'nnu', 'Nn6g34899' => 'nnu', 'Nn7g36299' => 'nnu', 'Oeu021485.1' => 'oeu', 'Oeu022433.1' => 'oeu', 'Oeu032111.1' => 'oeu', 'Oeu051608.1' => 'oeu', 'Os01g0860601' => 'osa', 'Os03g0659200' => 'osa', 'Os03g0835900' => 'osa', 'Os04g0412200' => 'osa', 'Os05g0443500' => 'osa', 'Os07g0251500' => 'osa', 'Os08g0104600' => 'osa', 'Peaxi162Scf00003g00047' => 'pax', 'Peaxi162Scf00003g00052' => 'pax', 'Peaxi162Scf00003g00394' => 'pax', 'Peaxi162Scf00091g00621' => 'pax', 'Peaxi162Scf00152g00146' => 'pax', 'Peaxi162Scf00173g00025' => 'pax', 'Peaxi162Scf00195g00102' => 'pax', 'Peaxi162Scf00402g00013' => 'pax', 'Peaxi162Scf00519g00618' => 'pax', 'PGR004G2838' => 'pgr', 'PGR044G2275' => 'pgr', 'PGR102G1377' => 'pgr', 'PGR119G1245' => 'pgr', 'PGR142G4449' => 'pgr', 'PGSC0003DMG400004532' => 'stu', 'PGSC0003DMG400011950' => 'stu', 'PGSC0003DMG400023391' => 'stu', 'PGSC0003DMG400023985' => 'stu', 'PGSC0003DMG400026360' => 'stu', 'PGSC0003DMG400035711' => 'stu', 'PGSC0003DMG400037286' => 'stu', 'PGSC0003DMG402005881' => 'stu', 'Phvul.002G045400' => 'pvu', 'Phvul.006G216600' => 'pvu', 'Phvul.006G216700' => 'pvu', 'Phvul.006G216800' => 'pvu', 'Phvul.007G022500' => 'pvu', 'Phvul.011G094400' => 'pvu', 'Potri.001G470700' => 'ptr', 'Potri.003G015200' => 'ptr', 'Potri.004G202500' => 'ptr', 'Potri.004G218400' => 'ptr', 'Potri.008G020100' => 'ptr', 'Potri.008G153200' => 'ptr', 'Potri.009G163800' => 'ptr', 'Potri.010G087300' => 'ptr', 'Potri.010G239100' => 'ptr', 'Pp3c10_16100' => 'ppa', 'Pp3c10_16880' => 'ppa', 'Pp3c16_6230' => 'ppa', 'Pp3c17_18910' => 'ppa', 'Pp3c3_22119' => 'ppa', 'Pp3c3_22140' => 'ppa', 'Pp3c4_8159' => 'ppa', 'Pp3c4_8171' => 'ppa', 'Pp3c4_8330' => 'ppa', 'PRCOL_00004098' => 'pco', 'Prupe.1G013900' => 'ppe', 'Prupe.1G226300' => 'ppe', 'Prupe.1G573600' => 'ppe', 'Prupe.6G130100' => 'ppe', 'Psat3g090040' => 'psa', 'Psat4g210440' => 'psa', 'Psat6g231040' => 'psa', 'Psat6g231080' => 'psa', 'Psat7g063000' => 'psa', 'Psat7g188000' => 'psa', 'Psat7g188040' => 'psa', 'PSO017G0206' => 'pso', 'PSO170G0501' => 'pso', 'PSO170G6422' => 'pso', 'PSO210G7739' => 'pso', 'PSO339G1808' => 'pso', 'PSO339G6135' => 'pso', 'PSO384G0010' => 'pso', 'PSO384G0964' => 'pso', 'PSO761G0050' => 'pso', 'PSO782G4085' => 'pso', 'QL01p012264' => 'qlo', 'QL02p099491' => 'qlo', 'QL03p033868' => 'qlo', 'QL04p046678' => 'qlo', 'QL06p002448' => 'qlo', 'RcHm_v2.0_Chr4g0416181' => 'rch', 'RcHm_v2.0_Chr5g0044701' => 'rch', 'RcHm_v2.0_Chr6g0265781' => 'rch', 'RcHm_v2.0_Chr7g0221031' => 'rch', 'Rhsim04G0202000' => 'rsi', 'Rhsim11G0127300' => 'rsi', 'Rhsim13G0111800' => 'rsi', 'Sabra01G0165600' => 'sbr', 'Sabra03G0008300' => 'sbr', 'Sabra04G0136900' => 'sbr', 'Sabra08G0013400' => 'sbr', 'Sabra08G0116800' => 'sbr', 'Sabra09G0128000' => 'sbr', 'Sabra10G0055500' => 'sbr', 'Sabra10G0073300' => 'sbr', 'SalBow3G0385' => 'sbo', 'SalBow3G1119' => 'sbo', 'SalBow3G2005' => 'sbo', 'SalBow6G2563' => 'sbo', 'SalBow6G6386' => 'sbo', 'Sc06g0008800' => 'sci', 'Sc07g0004950' => 'sci', 'Sc09g0005340' => 'sci', 'Sc13g0004410' => 'sci', 'Sc21g0007090' => 'sci', 'Sed0009285' => 'sed', 'Sed0017583' => 'sed', 'Sed0019699' => 'sed', 'Sed0023107' => 'sed', 'SEGI_10916' => 'sgi', 'SEGI_16217' => 'sgi', 'SEGI_19466' => 'sgi', 'SEGI_41115' => 'sgi', 'SGA_v2.0_scaffold111G31534' => 'sas', 'SGA_v2.0_scaffold22G09864' => 'sas', 'SGA_v2.0_scaffold338G49219' => 'sas', 'SGA_v2.0_scaffold92G28298' => 'sas', 'SMO119G0064' => 'smo', 'SMO223G0038' => 'smo', 'SMO347G0584' => 'smo', 'SMO351G0010' => 'smo', 'SMO356G0404' => 'smo', 'Solyc01g103920.3' => 'sly', 'Solyc04g009710.2' => 'sly', 'Solyc05g055280.2' => 'sly', 'Solyc10g044520.3' => 'sly', 'Solyc10g075160.1' => 'sly', 'Solyc11g006910.3' => 'sly', 'Solyc11g068430.3' => 'sly', 'Sopen01g046310' => 'spe', 'Sopen03g001200' => 'spe', 'Sopen04g004830' => 'spe', 'Sopen05g033720' => 'spe', 'Sopen06g030740' => 'spe', 'Sopen10g013090' => 'spe', 'Sopen10g027630' => 'spe', 'Sopen10g027640' => 'spe', 'Sopen11g002820' => 'spe', 'Sopen11g027140' => 'spe', 'Sp1g09680' => 'spa', 'Sp2g03630' => 'spa', 'Sp4g10320' => 'spa', 'Sp6g33400' => 'spa', 'Sp7g13030' => 'spa', 'TAR365G0317' => 'tar', 'TAR376G0979' => 'tar', 'TAR623G1665' => 'tar', 'TAR633G2373' => 'tar', 'TAR636G1400' => 'tar', 'THA.LOC104800529' => 'tha', 'THA.LOC104808547' => 'tha', 'THA.LOC104809615' => 'tha', 'THA.LOC104815724' => 'tha', 'THA.LOC104818480' => 'tha', 'THA.LOC104819179' => 'tha', 'THA.LOC104822270' => 'tha', 'THA.LOC104826425' => 'tha', 'Thecc.02G089700' => 'tca', 'Thecc.04G232300' => 'tca', 'Thecc.09G283400' => 'tca', 'Thhalv10009020m.g' => 'esa', 'Thhalv10015506m.g' => 'esa', 'Thhalv10017364m.g' => 'esa', 'Thhalv10023742m.g' => 'esa', 'Thhalv10026483m.g' => 'esa', 'TPR.G17232' => 'tpr', 'TPR.G2133' => 'tpr', 'TPR.G2498' => 'tpr', 'TPR.G31942' => 'tpr', 'TPR.G37877' => 'tpr', 'TPR.G4571' => 'tpr', 'TWI14G1113' => 'twi', 'TWI15G0426' => 'twi', 'TWI31G1005' => 'twi', 'TWI38G0513' => 'twi', 'TWI38G1484' => 'twi', 'TWI73G1098' => 'twi', 'unitig_26.g10519' => 'ugi', 'unitig_736.g22395' => 'ugi', 'unitig_747.g21234' => 'ugi', 'unitig_747.g21942' => 'ugi', 'vmacro14351' => 'vma', 'VMungo0540G0082' => 'vmu', 'VMungo0540G0405' => 'vmu', 'VMungo0540G1486' => 'vmu', 'VMungo0540G1692' => 'vmu', 'VMungo0720G2473' => 'vmu', 'VMungo1127G1562' => 'vmu', 'VMungo1215G1918' => 'vmu', 'Zm00001eb052650' => 'zma', 'Zm00001eb063710' => 'zma', 'Zm00001eb083950' => 'zma', 'Zm00001eb174420' => 'zma', 'Zm00001eb260140' => 'zma', 'Zm00001eb260150' => 'zma', 'Zm00001eb260160' => 'zma', 'Zm00001eb348290' => 'zma', 'Zm00001eb366870' => 'zma', 'Zm00001eb421930' => 'zma' ), 'gf_id' => 'HOM05D001025', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001025' ), 'data_identifier' => 'HOM05D001025', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001025', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '592', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p22650' => 'bna', 'A01p29720' => 'bna', 'A03p26560' => 'bna', 'A03p68820' => 'bna', 'A04p20980' => 'bna', 'A06p07730' => 'bna', 'A07p18260' => 'bna', 'A08p33710' => 'bna', 'A09p16970' => 'bna', 'A10p27490' => 'bna', 'Aa31LG1G17300' => 'aar', 'Aa31LG1G3910' => 'aar', 'Aa31LG2G9630' => 'aar', 'Aa31LG5G8360' => 'aar', 'Aa31LG9G2410' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4699' => 'aag', 'Actinidia23512' => 'ach', 'Actinidia37080' => 'ach', 'Ah.01g020380' => 'amhyb', 'Ah.08g215710' => 'amhyb', 'Ah.09g225110' => 'amhyb', 'Ah.10g036680' => 'amhyb', 'AL1G21940' => 'aly', 'AL2G15540' => 'aly', 'AL4G21520' => 'aly', 'AL7G40960' => 'aly', 'Aqoxy2G01191' => 'aox', 'Aqoxy2G03393' => 'aox', 'Aqoxy4G02775' => 'aox', 'Aqoxy6G00058' => 'aox', 'arahy.Tifrunner.gnm1.ann1.9X74H2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CW3FX9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R485W7' => 'arhy', 'AT1G10960' => 'ath', 'AT1G60950' => 'ath', 'AT2G27510' => 'ath', 'AT4G14890' => 'ath', 'AT5G10000' => 'ath', 'ATR0665G624' => 'atr', 'ATR0697G138' => 'atr', 'ATR0776G046' => 'atr', 'ATR1134G135' => 'atr', 'Atru.chr12.1025' => 'acertr', 'Atru.chr3.3241' => 'acertr', 'Atru.chr4.2460' => 'acertr', 'AUR62007427' => 'cqu', 'AUR62010960' => 'cqu', 'AUR62012201' => 'cqu', 'AUR62021470' => 'cqu', 'AUR62022834' => 'cqu', 'AUR62033635' => 'cqu', 'AUR62036186' => 'cqu', 'BcaB01g03077' => 'bca', 'BcaB02g10093' => 'bca', 'BcaB04g20295' => 'bca', 'BcaB06g28147' => 'bca', 'BcaB07g31253' => 'bca', 'BcaC01g04946' => 'bca', 'BcaC02g10614' => 'bca', 'BcaC02g10885' => 'bca', 'BcaC04g19356' => 'bca', 'BcaC04g22297' => 'bca', 'BcaC05g24977' => 'bca', 'BcaC06g31823' => 'bca', 'BcaC07g38633' => 'bca', 'BcaC09g49353' => 'bca', 'BcaC09g50168' => 'bca', 'BcaNung00322' => 'bca', 'BcaNung04769' => 'bca', 'BolC1t02753H' => 'bol', 'BolC1t03721H' => 'bol', 'BolC3t15525H' => 'bol', 'BolC4t23903H' => 'bol', 'BolC4t24231H' => 'bol', 'BolC4t27209H' => 'bol', 'BolC5t29671H' => 'bol', 'BolC8t49044H' => 'bol', 'BolC9t54999H' => 'bol', 'BolC9t59517H' => 'bol', 'BraA01t02178Z' => 'bra', 'BraA01t03099Z' => 'bra', 'BraA03t11867Z' => 'bra', 'BraA04t17667Z' => 'bra', 'BraA07t29542Z' => 'bra', 'BraA08t35287Z' => 'bra', 'BraA09t37334Z' => 'bra', 'BraA10t44801Z' => 'bra', 'BraSC39t46181Z' => 'bra', 'C01p28240' => 'bna', 'C01p37530' => 'bna', 'C03p31820' => 'bna', 'C04p24080' => 'bna', 'C04p25790' => 'bna', 'C04p56770' => 'bna', 'C05p09310' => 'bna', 'C09p21010' => 'bna', 'C09p67560' => 'bna', 'CAN.G1324.7' => 'can', 'CAN.G1358.10' => 'can', 'CAN.G1550.2' => 'can', 'CAN.G186.56' => 'can', 'CAN.G1965.1' => 'can', 'CAN.G645.15' => 'can', 'CAN.G798.26' => 'can', 'CAN.G798.27' => 'can', 'CAN.G798.29' => 'can', 'CAN.G919.31' => 'can', 'CANSAT11G0133' => 'cansat', 'CANSAT11G1171' => 'cansat', 'CANSAT11G2056' => 'cansat', 'CANSAT56G1202' => 'cansat', 'CANSAT56G1514' => 'cansat', 'CANSAT78G0455' => 'cansat', 'CARHR011190' => 'chi', 'CARHR051980' => 'chi', 'CARHR120170' => 'chi', 'CARHR203310' => 'chi', 'CARHR221490' => 'chi', 'Carub.0001s1054' => 'cru', 'Carub.0002s0431' => 'cru', 'Carub.0004s0818' => 'cru', 'Carub.0006s0846' => 'cru', 'Carub.0007s2722' => 'cru', 'Ca_00058_v3' => 'car', 'Ca_17831_v3' => 'car', 'Ca_19408_v3' => 'car', 'Ca_24397_v3' => 'car', 'Ca_25664_v3' => 'car', 'CBR_g21818' => 'cbr', 'CBR_g31195' => 'cbr', 'CBR_g32282' => 'cbr', 'CBR_g39599' => 'cbr', 'CBR_g49410' => 'cbr', 'Cc01_g09120' => 'ccan', 'Cc01_g09130' => 'ccan', 'Cc02_g09630' => 'ccan', 'Cc02_g22810' => 'ccan', 'Cc03_g03810' => 'ccan', 'CDE02G3718' => 'cde', 'CDE04G3183' => 'cde', 'CDE07G1046' => 'cde', 'CDE08G0480' => 'cde', 'Cfa005493' => 'cfa', 'Cfa010312' => 'cfa', 'Cfa015648' => 'cfa', 'Ciclev10002793m.g' => 'ccl', 'Ciclev10003356m.g' => 'ccl', 'Ciclev10006141m.g' => 'ccl', 'Ciclev10016676m.g' => 'ccl', 'Ciclev10017081m.g' => 'ccl', 'Ciclev10029499m.g' => 'ccl', 'CiPaw.01G166300' => 'cil', 'CiPaw.06G145600' => 'cil', 'CiPaw.13G040100' => 'cil', 'CiPaw.13G135800' => 'cil', 'ClCG01G012230' => 'cla', 'ClCG05G009510' => 'cla', 'ClCG08G008270' => 'cla', 'COL.COLO4_11763' => 'col', 'COL.COLO4_19876' => 'col', 'COL.COLO4_21481' => 'col', 'Cpa.g.sc118.34' => 'cpa', 'Cpa.g.sc32.13' => 'cpa', 'Cpa.g.sc58.103' => 'cpa', 'Cre03.g183850' => 'cre', 'Cre06.g306350' => 'cre', 'Cre07.g334800' => 'cre', 'Cre12.g487900' => 'cre', 'Cre14.g626700' => 'cre', 'Cre16.g658400' => 'cre', 'Cre17.g700950' => 'cre', 'CsaV3_1G014830' => 'csa', 'CsaV3_3G013320' => 'csa', 'CsaV3_3G019210' => 'csa', 'CsaV3_3G019220' => 'csa', 'CsaV3_6G004230' => 'csa', 'CSS0003773' => 'camsi', 'CSS0004563' => 'camsi', 'CSS0013949' => 'camsi', 'CSS0025971' => 'camsi', 'CSS0028570' => 'camsi', 'CSS0033127' => 'camsi', 'CSS0036051' => 'camsi', 'CSS0040087' => 'camsi', 'CSS0043179' => 'camsi', 'DCAR_006161' => 'dca', 'DCAR_010351' => 'dca', 'DCAR_012197' => 'dca', 'DCAR_024162' => 'dca', 'Dinv01030' => 'din', 'Dinv10924' => 'din', 'Dinv11835' => 'din', 'Dinv22841' => 'din', 'Dinv42553' => 'din', 'Duzib052G0560' => 'dzi', 'Duzib132G0389' => 'dzi', 'Duzib150G1181' => 'dzi', 'Duzib168G0623' => 'dzi', 'Duzib170G1036' => 'dzi', 'Duzib212G0200' => 'dzi', 'Duzib248G0194' => 'dzi', 'ECA232G2193' => 'eca', 'ECA233G0302' => 'eca', 'ECA234G2813' => 'eca', 'ECA234G4866' => 'eca', 'ECA240G3932' => 'eca', 'ECA248G0385' => 'eca', 'EL10Ac2g04781' => 'bvu', 'EL10Ac3g06445' => 'bvu', 'EL10Ac7g15825' => 'bvu', 'EL10Ac8g18550' => 'bvu', 'Eucgr.B03849' => 'egr', 'Eucgr.I02744' => 'egr', 'Eucgr.J00264' => 'egr', 'Eucgr.J00493' => 'egr', 'FAN04G2181' => 'fan', 'FAN07G2666' => 'fan', 'FAN11G0024' => 'fan', 'FAN12G1105' => 'fan', 'FAN13G0302' => 'fan', 'FAN15G2781' => 'fan', 'FAN16G1274' => 'fan', 'FAN17G2988' => 'fan', 'FAN18G2621' => 'fan', 'FAN21G0013' => 'fan', 'FAN22G1211' => 'fan', 'FAN25G3626' => 'fan', 'FvH4_2g09491' => 'fve', 'FvH4_3g24910' => 'fve', 'FvH4_4g15630' => 'fve', 'FvH4_5g28820' => 'fve', 'Glyma.01G238000' => 'gma', 'Glyma.05G168400' => 'gma', 'Glyma.08G126800' => 'gma', 'Glyma.08G188500' => 'gma', 'Glyma.10G278900' => 'gma', 'Glyma.11G005700' => 'gma', 'Glyma.11G183300' => 'gma', 'Glyma.12G089200' => 'gma', 'Glyma.12G169400' => 'gma', 'Glyma.12G169500' => 'gma', 'Glyma.12G169600' => 'gma', 'Glyma.20G110800' => 'gma', 'Gohir.A03G192900' => 'ghi', 'Gohir.A03G193000' => 'ghi', 'Gohir.A05G080700' => 'ghi', 'Gohir.A09G216000' => 'ghi', 'Gohir.A12G027700' => 'ghi', 'Gohir.A13G036200' => 'ghi', 'Gohir.A13G222600' => 'ghi', 'Gohir.D02G213900' => 'ghi', 'Gohir.D02G214000' => 'ghi', 'Gohir.D05G083700' => 'ghi', 'Gohir.D05G083800' => 'ghi', 'Gohir.D05G083850' => 'ghi', 'Gohir.D08G015400' => 'ghi', 'Gohir.D09G218400' => 'ghi', 'Gohir.D12G027100' => 'ghi', 'Gohir.D13G034500' => 'ghi', 'Gohir.D13G227400' => 'ghi', 'Gorai.005G241800' => 'gra', 'Gorai.005G241900' => 'gra', 'Gorai.006G239400' => 'gra', 'Gorai.008G027600' => 'gra', 'Gorai.009G085400' => 'gra', 'Gorai.009G085500' => 'gra', 'Gorai.013G039000' => 'gra', 'Gorai.013G194800' => 'gra', 'Gorai.013G257900' => 'gra', 'GSVIVG01000982001' => 'vvi', 'GSVIVG01017981001' => 'vvi', 'HanXRQChr01g0024061' => 'han', 'HanXRQChr09g0247831' => 'han', 'HanXRQChr10g0294611' => 'han', 'HanXRQChr10g0294621' => 'han', 'HanXRQChr11g0346821' => 'han', 'HanXRQChr13g0397461' => 'han', 'HanXRQChr16g0513651' => 'han', 'HanXRQChr16g0513701' => 'han', 'Haze_00897' => 'cav', 'Haze_01745' => 'cav', 'Haze_02486' => 'cav', 'Haze_02487' => 'cav', 'Haze_23374' => 'cav', 'Hma1.2p1_0578F.1_g182520' => 'hma', 'Hma1.2p1_0602F.1_g187350' => 'hma', 'Hma1.2p1_0602F.1_g187360' => 'hma', 'Hma1.2p1_0874F.1_g231320' => 'hma', 'Hma1.2p1_1197F.1_g266210' => 'hma', 'Hma1.2p1_1197F.1_g266220' => 'hma', 'Hma1.2p1_2167F.1_g315895' => 'hma', 'Hma1.2p1_2190F.1_g316640' => 'hma', 'Hma1.2p1_3645F.1_g337153' => 'hma', 'HPP92_004907' => 'vpl', 'HPP92_012134' => 'vpl', 'HPP92_025136' => 'vpl', 'HPP92_026087' => 'vpl', 'Hund06782' => 'sun', 'Hund06784' => 'sun', 'Lalb_Chr01g0004861' => 'lal', 'Lalb_Chr02g0140591' => 'lal', 'Lalb_Chr02g0140611' => 'lal', 'Lalb_Chr03g0028101' => 'lal', 'Lalb_Chr07g0185791' => 'lal', 'Lalb_Chr12g0204491' => 'lal', 'Lalb_Chr13g0295671' => 'lal', 'Lalb_Chr19g0136461' => 'lal', 'Lalb_Chr21g0309191' => 'lal', 'Lj1g0028158' => 'lja', 'Lj1P236T38' => 'lonja', 'Lj2C32G2' => 'lonja', 'Lj2P944T8' => 'lonja', 'Lj2P963T15' => 'lonja', 'Lj3g0011788' => 'lja', 'Lj4g0025027' => 'lja', 'Lj5P255T36' => 'lonja', 'Lj6g0018866' => 'lja', 'Lj6P608T31' => 'lonja', 'LjContig00408g0008879' => 'lja', 'Lsat_1_v5_gn_5_105820' => 'lsa', 'Lsat_1_v5_gn_6_38800' => 'lsa', 'Lsat_1_v5_gn_7_67141' => 'lsa', 'Manes.04G003400' => 'mes', 'Manes.07G020000' => 'mes', 'Manes.07G020100' => 'mes', 'Manes.07G020150' => 'mes', 'Manes.10G061500' => 'mes', 'Manes.10G123200' => 'mes', 'Manes.11G161900' => 'mes', 'Manes.15G029300' => 'mes', 'Mapoly0071s0018' => 'mpo', 'Mapoly0082s0023' => 'mpo', 'Mapoly3477s0001' => 'mpo', 'MBI05_g31233_MAGBIO' => 'mbi', 'MBI09_g05946_MAGBIO' => 'mbi', 'MBI09_g05947_MAGBIO' => 'mbi', 'MBI17_g08346_MAGBIO' => 'mbi', 'MCO04G038' => 'mco', 'MCO09G370' => 'mco', 'MCO13G605' => 'mco', 'MD00G1075500' => 'mdo', 'MD03G1144300' => 'mdo', 'MD08G1236800' => 'mdo', 'MD13G1193300' => 'mdo', 'MD15G1428700' => 'mdo', 'Medtr1g112030' => 'mtr', 'Medtr1g112050' => 'mtr', 'Medtr2g006290' => 'mtr', 'Medtr2g086510' => 'mtr', 'Medtr4g053120' => 'mtr', 'Medtr5g006320' => 'mtr', 'Medtr8g088720' => 'mtr', 'MELO3C004712.2' => 'cme', 'MELO3C006533.2' => 'cme', 'MELO3C019438.2' => 'cme', 'MELO3C019440.2' => 'cme', 'MELO3C019441.2' => 'cme', 'MELO3C019895.2' => 'cme', 'Migut.B00811' => 'egut', 'Migut.D02447' => 'egut', 'Migut.F00875' => 'egut', 'Migut.N00186' => 'egut', 'Migut.N01051' => 'egut', 'Migut.N02491' => 'egut', 'Migut.O00784' => 'egut', 'MSTRG.12367' => 'ama', 'MSTRG.18756' => 'ama', 'MSTRG.21042' => 'ama', 'Nitab4.5_0000559g0040' => 'nta', 'Nitab4.5_0000667g0190' => 'nta', 'Nitab4.5_0000755g0160' => 'nta', 'Nitab4.5_0001216g0080' => 'nta', 'Nitab4.5_0004069g0040' => 'nta', 'Nitab4.5_0004129g0010' => 'nta', 'Nitab4.5_0005744g0030' => 'nta', 'Nitab4.5_0006996g0030' => 'nta', 'Nitab4.5_0008971g0040' => 'nta', 'Nitab4.5_0009769g0020' => 'nta', 'Nitab4.5_0009833g0010' => 'nta', 'Nitab4.5_0013140g0020' => 'nta', 'Nn003s41376' => 'nnu', 'Nn1g01857' => 'nnu', 'Nn1g03611' => 'nnu', 'Nn1g06853' => 'nnu', 'Nn3g18360' => 'nnu', 'Nn4g26328' => 'nnu', 'Nn5g27531' => 'nnu', 'Nn6g34899' => 'nnu', 'Nn7g36299' => 'nnu', 'Oeu021485.1' => 'oeu', 'Oeu022433.1' => 'oeu', 'Oeu032111.1' => 'oeu', 'Oeu051608.1' => 'oeu', 'Os01g0860601' => 'osa', 'Os03g0659200' => 'osa', 'Os03g0835900' => 'osa', 'Os04g0412200' => 'osa', 'Os05g0443500' => 'osa', 'Os07g0251500' => 'osa', 'Os08g0104600' => 'osa', 'Peaxi162Scf00003g00047' => 'pax', 'Peaxi162Scf00003g00052' => 'pax', 'Peaxi162Scf00003g00394' => 'pax', 'Peaxi162Scf00091g00621' => 'pax', 'Peaxi162Scf00152g00146' => 'pax', 'Peaxi162Scf00173g00025' => 'pax', 'Peaxi162Scf00195g00102' => 'pax', 'Peaxi162Scf00402g00013' => 'pax', 'Peaxi162Scf00519g00618' => 'pax', 'PGR004G2838' => 'pgr', 'PGR044G2275' => 'pgr', 'PGR102G1377' => 'pgr', 'PGR119G1245' => 'pgr', 'PGR142G4449' => 'pgr', 'PGSC0003DMG400004532' => 'stu', 'PGSC0003DMG400011950' => 'stu', 'PGSC0003DMG400023391' => 'stu', 'PGSC0003DMG400023985' => 'stu', 'PGSC0003DMG400026360' => 'stu', 'PGSC0003DMG400035711' => 'stu', 'PGSC0003DMG400037286' => 'stu', 'PGSC0003DMG402005881' => 'stu', 'Phvul.002G045400' => 'pvu', 'Phvul.006G216600' => 'pvu', 'Phvul.006G216700' => 'pvu', 'Phvul.006G216800' => 'pvu', 'Phvul.007G022500' => 'pvu', 'Phvul.011G094400' => 'pvu', 'Potri.001G470700' => 'ptr', 'Potri.003G015200' => 'ptr', 'Potri.004G202500' => 'ptr', 'Potri.004G218400' => 'ptr', 'Potri.008G020100' => 'ptr', 'Potri.008G153200' => 'ptr', 'Potri.009G163800' => 'ptr', 'Potri.010G087300' => 'ptr', 'Potri.010G239100' => 'ptr', 'Pp3c10_16100' => 'ppa', 'Pp3c10_16880' => 'ppa', 'Pp3c16_6230' => 'ppa', 'Pp3c17_18910' => 'ppa', 'Pp3c3_22119' => 'ppa', 'Pp3c3_22140' => 'ppa', 'Pp3c4_8159' => 'ppa', 'Pp3c4_8171' => 'ppa', 'Pp3c4_8330' => 'ppa', 'PRCOL_00004098' => 'pco', 'Prupe.1G013900' => 'ppe', 'Prupe.1G226300' => 'ppe', 'Prupe.1G573600' => 'ppe', 'Prupe.6G130100' => 'ppe', 'Psat3g090040' => 'psa', 'Psat4g210440' => 'psa', 'Psat6g231040' => 'psa', 'Psat6g231080' => 'psa', 'Psat7g063000' => 'psa', 'Psat7g188000' => 'psa', 'Psat7g188040' => 'psa', 'PSO017G0206' => 'pso', 'PSO170G0501' => 'pso', 'PSO170G6422' => 'pso', 'PSO210G7739' => 'pso', 'PSO339G1808' => 'pso', 'PSO339G6135' => 'pso', 'PSO384G0010' => 'pso', 'PSO384G0964' => 'pso', 'PSO761G0050' => 'pso', 'PSO782G4085' => 'pso', 'QL01p012264' => 'qlo', 'QL02p099491' => 'qlo', 'QL03p033868' => 'qlo', 'QL04p046678' => 'qlo', 'QL06p002448' => 'qlo', 'RcHm_v2.0_Chr4g0416181' => 'rch', 'RcHm_v2.0_Chr5g0044701' => 'rch', 'RcHm_v2.0_Chr6g0265781' => 'rch', 'RcHm_v2.0_Chr7g0221031' => 'rch', 'Rhsim04G0202000' => 'rsi', 'Rhsim11G0127300' => 'rsi', 'Rhsim13G0111800' => 'rsi', 'Sabra01G0165600' => 'sbr', 'Sabra03G0008300' => 'sbr', 'Sabra04G0136900' => 'sbr', 'Sabra08G0013400' => 'sbr', 'Sabra08G0116800' => 'sbr', 'Sabra09G0128000' => 'sbr', 'Sabra10G0055500' => 'sbr', 'Sabra10G0073300' => 'sbr', 'SalBow3G0385' => 'sbo', 'SalBow3G1119' => 'sbo', 'SalBow3G2005' => 'sbo', 'SalBow6G2563' => 'sbo', 'SalBow6G6386' => 'sbo', 'Sc06g0008800' => 'sci', 'Sc07g0004950' => 'sci', 'Sc09g0005340' => 'sci', 'Sc13g0004410' => 'sci', 'Sc21g0007090' => 'sci', 'Sed0009285' => 'sed', 'Sed0017583' => 'sed', 'Sed0019699' => 'sed', 'Sed0023107' => 'sed', 'SEGI_10916' => 'sgi', 'SEGI_16217' => 'sgi', 'SEGI_19466' => 'sgi', 'SEGI_41115' => 'sgi', 'SGA_v2.0_scaffold111G31534' => 'sas', 'SGA_v2.0_scaffold22G09864' => 'sas', 'SGA_v2.0_scaffold338G49219' => 'sas', 'SGA_v2.0_scaffold92G28298' => 'sas', 'SMO119G0064' => 'smo', 'SMO223G0038' => 'smo', 'SMO347G0584' => 'smo', 'SMO351G0010' => 'smo', 'SMO356G0404' => 'smo', 'Solyc01g103920.3' => 'sly', 'Solyc04g009710.2' => 'sly', 'Solyc05g055280.2' => 'sly', 'Solyc10g044520.3' => 'sly', 'Solyc10g075160.1' => 'sly', 'Solyc11g006910.3' => 'sly', 'Solyc11g068430.3' => 'sly', 'Sopen01g046310' => 'spe', 'Sopen03g001200' => 'spe', 'Sopen04g004830' => 'spe', 'Sopen05g033720' => 'spe', 'Sopen06g030740' => 'spe', 'Sopen10g013090' => 'spe', 'Sopen10g027630' => 'spe', 'Sopen10g027640' => 'spe', 'Sopen11g002820' => 'spe', 'Sopen11g027140' => 'spe', 'Sp1g09680' => 'spa', 'Sp2g03630' => 'spa', 'Sp4g10320' => 'spa', 'Sp6g33400' => 'spa', 'Sp7g13030' => 'spa', 'TAR365G0317' => 'tar', 'TAR376G0979' => 'tar', 'TAR623G1665' => 'tar', 'TAR633G2373' => 'tar', 'TAR636G1400' => 'tar', 'THA.LOC104800529' => 'tha', 'THA.LOC104808547' => 'tha', 'THA.LOC104809615' => 'tha', 'THA.LOC104815724' => 'tha', 'THA.LOC104818480' => 'tha', 'THA.LOC104819179' => 'tha', 'THA.LOC104822270' => 'tha', 'THA.LOC104826425' => 'tha', 'Thecc.02G089700' => 'tca', 'Thecc.04G232300' => 'tca', 'Thecc.09G283400' => 'tca', 'Thhalv10009020m.g' => 'esa', 'Thhalv10015506m.g' => 'esa', 'Thhalv10017364m.g' => 'esa', 'Thhalv10023742m.g' => 'esa', 'Thhalv10026483m.g' => 'esa', 'TPR.G17232' => 'tpr', 'TPR.G2133' => 'tpr', 'TPR.G2498' => 'tpr', 'TPR.G31942' => 'tpr', 'TPR.G37877' => 'tpr', 'TPR.G4571' => 'tpr', 'TWI14G1113' => 'twi', 'TWI15G0426' => 'twi', 'TWI31G1005' => 'twi', 'TWI38G0513' => 'twi', 'TWI38G1484' => 'twi', 'TWI73G1098' => 'twi', 'unitig_26.g10519' => 'ugi', 'unitig_736.g22395' => 'ugi', 'unitig_747.g21234' => 'ugi', 'unitig_747.g21942' => 'ugi', 'vmacro14351' => 'vma', 'VMungo0540G0082' => 'vmu', 'VMungo0540G0405' => 'vmu', 'VMungo0540G1486' => 'vmu', 'VMungo0540G1692' => 'vmu', 'VMungo0720G2473' => 'vmu', 'VMungo1127G1562' => 'vmu', 'VMungo1215G1918' => 'vmu', 'Zm00001eb052650' => 'zma', 'Zm00001eb063710' => 'zma', 'Zm00001eb083950' => 'zma', 'Zm00001eb174420' => 'zma', 'Zm00001eb260140' => 'zma', 'Zm00001eb260150' => 'zma', 'Zm00001eb260160' => 'zma', 'Zm00001eb348290' => 'zma', 'Zm00001eb366870' => 'zma', 'Zm00001eb421930' => 'zma' ) $gf_id = 'HOM05D001025' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001025' ) $data_identifier = 'HOM05D001025' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 19, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 2, 'amhyb' => (int) 4, 'aly' => (int) 4, 'aox' => (int) 4, 'arhy' => (int) 3, 'ath' => (int) 5, 'atr' => (int) 4, 'acertr' => (int) 3, 'cqu' => (int) 7, 'bca' => (int) 17, 'bol' => (int) 10, 'bra' => (int) 9, 'can' => (int) 10, 'cansat' => (int) 6, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 5, 'cbr' => (int) 5, 'ccan' => (int) 5, 'cde' => (int) 4, 'cfa' => (int) 3, 'ccl' => (int) 6, 'cil' => (int) 4, 'cla' => (int) 3, 'col' => (int) 3, 'cpa' => (int) 3, 'cre' => (int) 7, 'csa' => (int) 5, 'camsi' => (int) 9, 'dca' => (int) 4, 'din' => (int) 5, 'dzi' => (int) 7, 'eca' => (int) 6, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 12, 'fve' => (int) 4, 'gma' => (int) 12, 'ghi' => (int) 17, 'gra' => (int) 9, 'vvi' => (int) 2, 'han' => (int) 8, 'cav' => (int) 5, 'hma' => (int) 9, 'vpl' => (int) 4, 'sun' => (int) 2, 'lal' => (int) 9, 'lja' => (int) 5, 'lonja' => (int) 6, 'lsa' => (int) 3, 'mes' => (int) 8, 'mpo' => (int) 3, 'mbi' => (int) 4, 'mco' => (int) 3, 'mdo' => (int) 5, 'mtr' => (int) 7, 'cme' => (int) 6, 'egut' => (int) 7, 'ama' => (int) 3, 'nta' => (int) 12, 'nnu' => (int) 9, 'oeu' => (int) 4, 'osa' => (int) 7, 'pax' => (int) 9, 'pgr' => (int) 5, 'stu' => (int) 8, 'pvu' => (int) 6, 'ptr' => (int) 9, 'ppa' => (int) 9, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 7, 'pso' => (int) 10, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 3, 'sbr' => (int) 8, 'sbo' => (int) 5, 'sci' => (int) 5, 'sed' => (int) 4, 'sgi' => (int) 4, 'sas' => (int) 4, 'smo' => (int) 5, 'sly' => (int) 7, 'spe' => (int) 10, 'spa' => (int) 5, 'tar' => (int) 5, 'tha' => (int) 8, 'tca' => (int) 3, 'esa' => (int) 5, 'tpr' => (int) 6, 'twi' => (int) 6, 'ugi' => (int) 4, 'vma' => (int) 1, 'vmu' => (int) 7, 'zma' => (int) 10 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb421930' $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' => 'HOM05D001025', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '592', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p22650' => 'bna', 'A01p29720' => 'bna', 'A03p26560' => 'bna', 'A03p68820' => 'bna', 'A04p20980' => 'bna', 'A06p07730' => 'bna', 'A07p18260' => 'bna', 'A08p33710' => 'bna', 'A09p16970' => 'bna', 'A10p27490' => 'bna', 'Aa31LG1G17300' => 'aar', 'Aa31LG1G3910' => 'aar', 'Aa31LG2G9630' => 'aar', 'Aa31LG5G8360' => 'aar', 'Aa31LG9G2410' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4699' => 'aag', 'Actinidia23512' => 'ach', 'Actinidia37080' => 'ach', 'Ah.01g020380' => 'amhyb', 'Ah.08g215710' => 'amhyb', 'Ah.09g225110' => 'amhyb', 'Ah.10g036680' => 'amhyb', 'AL1G21940' => 'aly', 'AL2G15540' => 'aly', 'AL4G21520' => 'aly', 'AL7G40960' => 'aly', 'Aqoxy2G01191' => 'aox', 'Aqoxy2G03393' => 'aox', 'Aqoxy4G02775' => 'aox', 'Aqoxy6G00058' => 'aox', 'arahy.Tifrunner.gnm1.ann1.9X74H2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CW3FX9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R485W7' => 'arhy', 'AT1G10960' => 'ath', 'AT1G60950' => 'ath', 'AT2G27510' => 'ath', 'AT4G14890' => 'ath', 'AT5G10000' => 'ath', 'ATR0665G624' => 'atr', 'ATR0697G138' => 'atr', 'ATR0776G046' => 'atr', 'ATR1134G135' => 'atr', 'Atru.chr12.1025' => 'acertr', 'Atru.chr3.3241' => 'acertr', 'Atru.chr4.2460' => 'acertr', 'AUR62007427' => 'cqu', 'AUR62010960' => 'cqu', 'AUR62012201' => 'cqu', 'AUR62021470' => 'cqu', 'AUR62022834' => 'cqu', 'AUR62033635' => 'cqu', 'AUR62036186' => 'cqu', 'BcaB01g03077' => 'bca', 'BcaB02g10093' => 'bca', 'BcaB04g20295' => 'bca', 'BcaB06g28147' => 'bca', 'BcaB07g31253' => 'bca', 'BcaC01g04946' => 'bca', 'BcaC02g10614' => 'bca', 'BcaC02g10885' => 'bca', 'BcaC04g19356' => 'bca', 'BcaC04g22297' => 'bca', 'BcaC05g24977' => 'bca', 'BcaC06g31823' => 'bca', 'BcaC07g38633' => 'bca', 'BcaC09g49353' => 'bca', 'BcaC09g50168' => 'bca', 'BcaNung00322' => 'bca', 'BcaNung04769' => 'bca', 'BolC1t02753H' => 'bol', 'BolC1t03721H' => 'bol', 'BolC3t15525H' => 'bol', 'BolC4t23903H' => 'bol', 'BolC4t24231H' => 'bol', 'BolC4t27209H' => 'bol', 'BolC5t29671H' => 'bol', 'BolC8t49044H' => 'bol', 'BolC9t54999H' => 'bol', 'BolC9t59517H' => 'bol', 'BraA01t02178Z' => 'bra', 'BraA01t03099Z' => 'bra', 'BraA03t11867Z' => 'bra', 'BraA04t17667Z' => 'bra', 'BraA07t29542Z' => 'bra', 'BraA08t35287Z' => 'bra', 'BraA09t37334Z' => 'bra', 'BraA10t44801Z' => 'bra', 'BraSC39t46181Z' => 'bra', 'C01p28240' => 'bna', 'C01p37530' => 'bna', 'C03p31820' => 'bna', 'C04p24080' => 'bna', 'C04p25790' => 'bna', 'C04p56770' => 'bna', 'C05p09310' => 'bna', 'C09p21010' => 'bna', 'C09p67560' => 'bna', 'CAN.G1324.7' => 'can', 'CAN.G1358.10' => 'can', 'CAN.G1550.2' => 'can', 'CAN.G186.56' => 'can', 'CAN.G1965.1' => 'can', 'CAN.G645.15' => 'can', 'CAN.G798.26' => 'can', 'CAN.G798.27' => 'can', 'CAN.G798.29' => 'can', 'CAN.G919.31' => 'can', 'CANSAT11G0133' => 'cansat', 'CANSAT11G1171' => 'cansat', 'CANSAT11G2056' => 'cansat', 'CANSAT56G1202' => 'cansat', 'CANSAT56G1514' => 'cansat', 'CANSAT78G0455' => 'cansat', 'CARHR011190' => 'chi', 'CARHR051980' => 'chi', 'CARHR120170' => 'chi', 'CARHR203310' => 'chi', 'CARHR221490' => 'chi', 'Carub.0001s1054' => 'cru', 'Carub.0002s0431' => 'cru', 'Carub.0004s0818' => 'cru', 'Carub.0006s0846' => 'cru', 'Carub.0007s2722' => 'cru', 'Ca_00058_v3' => 'car', 'Ca_17831_v3' => 'car', 'Ca_19408_v3' => 'car', 'Ca_24397_v3' => 'car', 'Ca_25664_v3' => 'car', 'CBR_g21818' => 'cbr', 'CBR_g31195' => 'cbr', 'CBR_g32282' => 'cbr', 'CBR_g39599' => 'cbr', 'CBR_g49410' => 'cbr', 'Cc01_g09120' => 'ccan', 'Cc01_g09130' => 'ccan', 'Cc02_g09630' => 'ccan', 'Cc02_g22810' => 'ccan', 'Cc03_g03810' => 'ccan', 'CDE02G3718' => 'cde', 'CDE04G3183' => 'cde', 'CDE07G1046' => 'cde', 'CDE08G0480' => 'cde', 'Cfa005493' => 'cfa', 'Cfa010312' => 'cfa', 'Cfa015648' => 'cfa', 'Ciclev10002793m.g' => 'ccl', 'Ciclev10003356m.g' => 'ccl', 'Ciclev10006141m.g' => 'ccl', 'Ciclev10016676m.g' => 'ccl', 'Ciclev10017081m.g' => 'ccl', 'Ciclev10029499m.g' => 'ccl', 'CiPaw.01G166300' => 'cil', 'CiPaw.06G145600' => 'cil', 'CiPaw.13G040100' => 'cil', 'CiPaw.13G135800' => 'cil', 'ClCG01G012230' => 'cla', 'ClCG05G009510' => 'cla', 'ClCG08G008270' => 'cla', 'COL.COLO4_11763' => 'col', 'COL.COLO4_19876' => 'col', 'COL.COLO4_21481' => 'col', 'Cpa.g.sc118.34' => 'cpa', 'Cpa.g.sc32.13' => 'cpa', 'Cpa.g.sc58.103' => 'cpa', 'Cre03.g183850' => 'cre', 'Cre06.g306350' => 'cre', 'Cre07.g334800' => 'cre', 'Cre12.g487900' => 'cre', 'Cre14.g626700' => 'cre', 'Cre16.g658400' => 'cre', 'Cre17.g700950' => 'cre', 'CsaV3_1G014830' => 'csa', 'CsaV3_3G013320' => 'csa', 'CsaV3_3G019210' => 'csa', 'CsaV3_3G019220' => 'csa', 'CsaV3_6G004230' => 'csa', 'CSS0003773' => 'camsi', 'CSS0004563' => 'camsi', 'CSS0013949' => 'camsi', 'CSS0025971' => 'camsi', 'CSS0028570' => 'camsi', 'CSS0033127' => 'camsi', 'CSS0036051' => 'camsi', 'CSS0040087' => 'camsi', 'CSS0043179' => 'camsi', 'DCAR_006161' => 'dca', 'DCAR_010351' => 'dca', 'DCAR_012197' => 'dca', 'DCAR_024162' => 'dca', 'Dinv01030' => 'din', 'Dinv10924' => 'din', 'Dinv11835' => 'din', 'Dinv22841' => 'din', 'Dinv42553' => 'din', 'Duzib052G0560' => 'dzi', 'Duzib132G0389' => 'dzi', 'Duzib150G1181' => 'dzi', 'Duzib168G0623' => 'dzi', 'Duzib170G1036' => 'dzi', 'Duzib212G0200' => 'dzi', 'Duzib248G0194' => 'dzi', 'ECA232G2193' => 'eca', 'ECA233G0302' => 'eca', 'ECA234G2813' => 'eca', 'ECA234G4866' => 'eca', 'ECA240G3932' => 'eca', 'ECA248G0385' => 'eca', 'EL10Ac2g04781' => 'bvu', 'EL10Ac3g06445' => 'bvu', 'EL10Ac7g15825' => 'bvu', 'EL10Ac8g18550' => 'bvu', 'Eucgr.B03849' => 'egr', 'Eucgr.I02744' => 'egr', 'Eucgr.J00264' => 'egr', 'Eucgr.J00493' => 'egr', 'FAN04G2181' => 'fan', 'FAN07G2666' => 'fan', 'FAN11G0024' => 'fan', 'FAN12G1105' => 'fan', 'FAN13G0302' => 'fan', 'FAN15G2781' => 'fan', 'FAN16G1274' => 'fan', 'FAN17G2988' => 'fan', 'FAN18G2621' => 'fan', 'FAN21G0013' => 'fan', 'FAN22G1211' => 'fan', 'FAN25G3626' => 'fan', 'FvH4_2g09491' => 'fve', 'FvH4_3g24910' => 'fve', 'FvH4_4g15630' => 'fve', 'FvH4_5g28820' => 'fve', 'Glyma.01G238000' => 'gma', 'Glyma.05G168400' => 'gma', 'Glyma.08G126800' => 'gma', 'Glyma.08G188500' => 'gma', 'Glyma.10G278900' => 'gma', 'Glyma.11G005700' => 'gma', 'Glyma.11G183300' => 'gma', 'Glyma.12G089200' => 'gma', 'Glyma.12G169400' => 'gma', 'Glyma.12G169500' => 'gma', 'Glyma.12G169600' => 'gma', 'Glyma.20G110800' => 'gma', 'Gohir.A03G192900' => 'ghi', 'Gohir.A03G193000' => 'ghi', 'Gohir.A05G080700' => 'ghi', 'Gohir.A09G216000' => 'ghi', 'Gohir.A12G027700' => 'ghi', 'Gohir.A13G036200' => 'ghi', 'Gohir.A13G222600' => 'ghi', 'Gohir.D02G213900' => 'ghi', 'Gohir.D02G214000' => 'ghi', 'Gohir.D05G083700' => 'ghi', 'Gohir.D05G083800' => 'ghi', 'Gohir.D05G083850' => 'ghi', 'Gohir.D08G015400' => 'ghi', 'Gohir.D09G218400' => 'ghi', 'Gohir.D12G027100' => 'ghi', 'Gohir.D13G034500' => 'ghi', 'Gohir.D13G227400' => 'ghi', 'Gorai.005G241800' => 'gra', 'Gorai.005G241900' => 'gra', 'Gorai.006G239400' => 'gra', 'Gorai.008G027600' => 'gra', 'Gorai.009G085400' => 'gra', 'Gorai.009G085500' => 'gra', 'Gorai.013G039000' => 'gra', 'Gorai.013G194800' => 'gra', 'Gorai.013G257900' => 'gra', 'GSVIVG01000982001' => 'vvi', 'GSVIVG01017981001' => 'vvi', 'HanXRQChr01g0024061' => 'han', 'HanXRQChr09g0247831' => 'han', 'HanXRQChr10g0294611' => 'han', 'HanXRQChr10g0294621' => 'han', 'HanXRQChr11g0346821' => 'han', 'HanXRQChr13g0397461' => 'han', 'HanXRQChr16g0513651' => 'han', 'HanXRQChr16g0513701' => 'han', 'Haze_00897' => 'cav', 'Haze_01745' => 'cav', 'Haze_02486' => 'cav', 'Haze_02487' => 'cav', 'Haze_23374' => 'cav', 'Hma1.2p1_0578F.1_g182520' => 'hma', 'Hma1.2p1_0602F.1_g187350' => 'hma', 'Hma1.2p1_0602F.1_g187360' => 'hma', 'Hma1.2p1_0874F.1_g231320' => 'hma', 'Hma1.2p1_1197F.1_g266210' => 'hma', 'Hma1.2p1_1197F.1_g266220' => 'hma', 'Hma1.2p1_2167F.1_g315895' => 'hma', 'Hma1.2p1_2190F.1_g316640' => 'hma', 'Hma1.2p1_3645F.1_g337153' => 'hma', 'HPP92_004907' => 'vpl', 'HPP92_012134' => 'vpl', 'HPP92_025136' => 'vpl', 'HPP92_026087' => 'vpl', 'Hund06782' => 'sun', 'Hund06784' => 'sun', 'Lalb_Chr01g0004861' => 'lal', 'Lalb_Chr02g0140591' => 'lal', 'Lalb_Chr02g0140611' => 'lal', 'Lalb_Chr03g0028101' => 'lal', 'Lalb_Chr07g0185791' => 'lal', 'Lalb_Chr12g0204491' => 'lal', 'Lalb_Chr13g0295671' => 'lal', 'Lalb_Chr19g0136461' => 'lal', 'Lalb_Chr21g0309191' => 'lal', 'Lj1g0028158' => 'lja', 'Lj1P236T38' => 'lonja', 'Lj2C32G2' => 'lonja', 'Lj2P944T8' => 'lonja', 'Lj2P963T15' => 'lonja', 'Lj3g0011788' => 'lja', 'Lj4g0025027' => 'lja', 'Lj5P255T36' => 'lonja', 'Lj6g0018866' => 'lja', 'Lj6P608T31' => 'lonja', 'LjContig00408g0008879' => 'lja', 'Lsat_1_v5_gn_5_105820' => 'lsa', 'Lsat_1_v5_gn_6_38800' => 'lsa', 'Lsat_1_v5_gn_7_67141' => 'lsa', 'Manes.04G003400' => 'mes', 'Manes.07G020000' => 'mes', 'Manes.07G020100' => 'mes', 'Manes.07G020150' => 'mes', 'Manes.10G061500' => 'mes', 'Manes.10G123200' => 'mes', 'Manes.11G161900' => 'mes', 'Manes.15G029300' => 'mes', 'Mapoly0071s0018' => 'mpo', 'Mapoly0082s0023' => 'mpo', 'Mapoly3477s0001' => 'mpo', 'MBI05_g31233_MAGBIO' => 'mbi', 'MBI09_g05946_MAGBIO' => 'mbi', 'MBI09_g05947_MAGBIO' => 'mbi', 'MBI17_g08346_MAGBIO' => 'mbi', 'MCO04G038' => 'mco', 'MCO09G370' => 'mco', 'MCO13G605' => 'mco', 'MD00G1075500' => 'mdo', 'MD03G1144300' => 'mdo', 'MD08G1236800' => 'mdo', 'MD13G1193300' => 'mdo', 'MD15G1428700' => 'mdo', 'Medtr1g112030' => 'mtr', 'Medtr1g112050' => 'mtr', 'Medtr2g006290' => 'mtr', 'Medtr2g086510' => 'mtr', 'Medtr4g053120' => 'mtr', 'Medtr5g006320' => 'mtr', 'Medtr8g088720' => 'mtr', 'MELO3C004712.2' => 'cme', 'MELO3C006533.2' => 'cme', 'MELO3C019438.2' => 'cme', 'MELO3C019440.2' => 'cme', 'MELO3C019441.2' => 'cme', 'MELO3C019895.2' => 'cme', 'Migut.B00811' => 'egut', 'Migut.D02447' => 'egut', 'Migut.F00875' => 'egut', 'Migut.N00186' => 'egut', 'Migut.N01051' => 'egut', 'Migut.N02491' => 'egut', 'Migut.O00784' => 'egut', 'MSTRG.12367' => 'ama', 'MSTRG.18756' => 'ama', 'MSTRG.21042' => 'ama', 'Nitab4.5_0000559g0040' => 'nta', 'Nitab4.5_0000667g0190' => 'nta', 'Nitab4.5_0000755g0160' => 'nta', 'Nitab4.5_0001216g0080' => 'nta', 'Nitab4.5_0004069g0040' => 'nta', 'Nitab4.5_0004129g0010' => 'nta', 'Nitab4.5_0005744g0030' => 'nta', 'Nitab4.5_0006996g0030' => 'nta', 'Nitab4.5_0008971g0040' => 'nta', 'Nitab4.5_0009769g0020' => 'nta', 'Nitab4.5_0009833g0010' => 'nta', 'Nitab4.5_0013140g0020' => 'nta', 'Nn003s41376' => 'nnu', 'Nn1g01857' => 'nnu', 'Nn1g03611' => 'nnu', 'Nn1g06853' => 'nnu', 'Nn3g18360' => 'nnu', 'Nn4g26328' => 'nnu', 'Nn5g27531' => 'nnu', 'Nn6g34899' => 'nnu', 'Nn7g36299' => 'nnu', 'Oeu021485.1' => 'oeu', 'Oeu022433.1' => 'oeu', 'Oeu032111.1' => 'oeu', 'Oeu051608.1' => 'oeu', 'Os01g0860601' => 'osa', 'Os03g0659200' => 'osa', 'Os03g0835900' => 'osa', 'Os04g0412200' => 'osa', 'Os05g0443500' => 'osa', 'Os07g0251500' => 'osa', 'Os08g0104600' => 'osa', 'Peaxi162Scf00003g00047' => 'pax', 'Peaxi162Scf00003g00052' => 'pax', 'Peaxi162Scf00003g00394' => 'pax', 'Peaxi162Scf00091g00621' => 'pax', 'Peaxi162Scf00152g00146' => 'pax', 'Peaxi162Scf00173g00025' => 'pax', 'Peaxi162Scf00195g00102' => 'pax', 'Peaxi162Scf00402g00013' => 'pax', 'Peaxi162Scf00519g00618' => 'pax', 'PGR004G2838' => 'pgr', 'PGR044G2275' => 'pgr', 'PGR102G1377' => 'pgr', 'PGR119G1245' => 'pgr', 'PGR142G4449' => 'pgr', 'PGSC0003DMG400004532' => 'stu', 'PGSC0003DMG400011950' => 'stu', 'PGSC0003DMG400023391' => 'stu', 'PGSC0003DMG400023985' => 'stu', 'PGSC0003DMG400026360' => 'stu', 'PGSC0003DMG400035711' => 'stu', 'PGSC0003DMG400037286' => 'stu', 'PGSC0003DMG402005881' => 'stu', 'Phvul.002G045400' => 'pvu', 'Phvul.006G216600' => 'pvu', 'Phvul.006G216700' => 'pvu', 'Phvul.006G216800' => 'pvu', 'Phvul.007G022500' => 'pvu', 'Phvul.011G094400' => 'pvu', 'Potri.001G470700' => 'ptr', 'Potri.003G015200' => 'ptr', 'Potri.004G202500' => 'ptr', 'Potri.004G218400' => 'ptr', 'Potri.008G020100' => 'ptr', 'Potri.008G153200' => 'ptr', 'Potri.009G163800' => 'ptr', 'Potri.010G087300' => 'ptr', 'Potri.010G239100' => 'ptr', 'Pp3c10_16100' => 'ppa', 'Pp3c10_16880' => 'ppa', 'Pp3c16_6230' => 'ppa', 'Pp3c17_18910' => 'ppa', 'Pp3c3_22119' => 'ppa', 'Pp3c3_22140' => 'ppa', 'Pp3c4_8159' => 'ppa', 'Pp3c4_8171' => 'ppa', 'Pp3c4_8330' => 'ppa', 'PRCOL_00004098' => 'pco', 'Prupe.1G013900' => 'ppe', 'Prupe.1G226300' => 'ppe', 'Prupe.1G573600' => 'ppe', 'Prupe.6G130100' => 'ppe', 'Psat3g090040' => 'psa', 'Psat4g210440' => 'psa', 'Psat6g231040' => 'psa', 'Psat6g231080' => 'psa', 'Psat7g063000' => 'psa', 'Psat7g188000' => 'psa', 'Psat7g188040' => 'psa', 'PSO017G0206' => 'pso', 'PSO170G0501' => 'pso', 'PSO170G6422' => 'pso', 'PSO210G7739' => 'pso', 'PSO339G1808' => 'pso', 'PSO339G6135' => 'pso', 'PSO384G0010' => 'pso', 'PSO384G0964' => 'pso', 'PSO761G0050' => 'pso', 'PSO782G4085' => 'pso', 'QL01p012264' => 'qlo', 'QL02p099491' => 'qlo', 'QL03p033868' => 'qlo', 'QL04p046678' => 'qlo', 'QL06p002448' => 'qlo', 'RcHm_v2.0_Chr4g0416181' => 'rch', 'RcHm_v2.0_Chr5g0044701' => 'rch', 'RcHm_v2.0_Chr6g0265781' => 'rch', 'RcHm_v2.0_Chr7g0221031' => 'rch', 'Rhsim04G0202000' => 'rsi', 'Rhsim11G0127300' => 'rsi', 'Rhsim13G0111800' => 'rsi', 'Sabra01G0165600' => 'sbr', 'Sabra03G0008300' => 'sbr', 'Sabra04G0136900' => 'sbr', 'Sabra08G0013400' => 'sbr', 'Sabra08G0116800' => 'sbr', 'Sabra09G0128000' => 'sbr', 'Sabra10G0055500' => 'sbr', 'Sabra10G0073300' => 'sbr', 'SalBow3G0385' => 'sbo', 'SalBow3G1119' => 'sbo', 'SalBow3G2005' => 'sbo', 'SalBow6G2563' => 'sbo', 'SalBow6G6386' => 'sbo', 'Sc06g0008800' => 'sci', 'Sc07g0004950' => 'sci', 'Sc09g0005340' => 'sci', 'Sc13g0004410' => 'sci', 'Sc21g0007090' => 'sci', 'Sed0009285' => 'sed', 'Sed0017583' => 'sed', 'Sed0019699' => 'sed', 'Sed0023107' => 'sed', 'SEGI_10916' => 'sgi', 'SEGI_16217' => 'sgi', 'SEGI_19466' => 'sgi', 'SEGI_41115' => 'sgi', 'SGA_v2.0_scaffold111G31534' => 'sas', 'SGA_v2.0_scaffold22G09864' => 'sas', 'SGA_v2.0_scaffold338G49219' => 'sas', 'SGA_v2.0_scaffold92G28298' => 'sas', 'SMO119G0064' => 'smo', 'SMO223G0038' => 'smo', 'SMO347G0584' => 'smo', 'SMO351G0010' => 'smo', 'SMO356G0404' => 'smo', 'Solyc01g103920.3' => 'sly', 'Solyc04g009710.2' => 'sly', 'Solyc05g055280.2' => 'sly', 'Solyc10g044520.3' => 'sly', 'Solyc10g075160.1' => 'sly', 'Solyc11g006910.3' => 'sly', 'Solyc11g068430.3' => 'sly', 'Sopen01g046310' => 'spe', 'Sopen03g001200' => 'spe', 'Sopen04g004830' => 'spe', 'Sopen05g033720' => 'spe', 'Sopen06g030740' => 'spe', 'Sopen10g013090' => 'spe', 'Sopen10g027630' => 'spe', 'Sopen10g027640' => 'spe', 'Sopen11g002820' => 'spe', 'Sopen11g027140' => 'spe', 'Sp1g09680' => 'spa', 'Sp2g03630' => 'spa', 'Sp4g10320' => 'spa', 'Sp6g33400' => 'spa', 'Sp7g13030' => 'spa', 'TAR365G0317' => 'tar', 'TAR376G0979' => 'tar', 'TAR623G1665' => 'tar', 'TAR633G2373' => 'tar', 'TAR636G1400' => 'tar', 'THA.LOC104800529' => 'tha', 'THA.LOC104808547' => 'tha', 'THA.LOC104809615' => 'tha', 'THA.LOC104815724' => 'tha', 'THA.LOC104818480' => 'tha', 'THA.LOC104819179' => 'tha', 'THA.LOC104822270' => 'tha', 'THA.LOC104826425' => 'tha', 'Thecc.02G089700' => 'tca', 'Thecc.04G232300' => 'tca', 'Thecc.09G283400' => 'tca', 'Thhalv10009020m.g' => 'esa', 'Thhalv10015506m.g' => 'esa', 'Thhalv10017364m.g' => 'esa', 'Thhalv10023742m.g' => 'esa', 'Thhalv10026483m.g' => 'esa', 'TPR.G17232' => 'tpr', 'TPR.G2133' => 'tpr', 'TPR.G2498' => 'tpr', 'TPR.G31942' => 'tpr', 'TPR.G37877' => 'tpr', 'TPR.G4571' => 'tpr', 'TWI14G1113' => 'twi', 'TWI15G0426' => 'twi', 'TWI31G1005' => 'twi', 'TWI38G0513' => 'twi', 'TWI38G1484' => 'twi', 'TWI73G1098' => 'twi', 'unitig_26.g10519' => 'ugi', 'unitig_736.g22395' => 'ugi', 'unitig_747.g21234' => 'ugi', 'unitig_747.g21942' => 'ugi', 'vmacro14351' => 'vma', 'VMungo0540G0082' => 'vmu', 'VMungo0540G0405' => 'vmu', 'VMungo0540G1486' => 'vmu', 'VMungo0540G1692' => 'vmu', 'VMungo0720G2473' => 'vmu', 'VMungo1127G1562' => 'vmu', 'VMungo1215G1918' => 'vmu', 'Zm00001eb052650' => 'zma', 'Zm00001eb063710' => 'zma', 'Zm00001eb083950' => 'zma', 'Zm00001eb174420' => 'zma', 'Zm00001eb260140' => 'zma', 'Zm00001eb260150' => 'zma', 'Zm00001eb260160' => 'zma', 'Zm00001eb348290' => 'zma', 'Zm00001eb366870' => 'zma', 'Zm00001eb421930' => 'zma' ), 'gf_id' => 'HOM05D001025', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001025' ), 'data_identifier' => 'HOM05D001025', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001025', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '592', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p22650' => 'bna', 'A01p29720' => 'bna', 'A03p26560' => 'bna', 'A03p68820' => 'bna', 'A04p20980' => 'bna', 'A06p07730' => 'bna', 'A07p18260' => 'bna', 'A08p33710' => 'bna', 'A09p16970' => 'bna', 'A10p27490' => 'bna', 'Aa31LG1G17300' => 'aar', 'Aa31LG1G3910' => 'aar', 'Aa31LG2G9630' => 'aar', 'Aa31LG5G8360' => 'aar', 'Aa31LG9G2410' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4699' => 'aag', 'Actinidia23512' => 'ach', 'Actinidia37080' => 'ach', 'Ah.01g020380' => 'amhyb', 'Ah.08g215710' => 'amhyb', 'Ah.09g225110' => 'amhyb', 'Ah.10g036680' => 'amhyb', 'AL1G21940' => 'aly', 'AL2G15540' => 'aly', 'AL4G21520' => 'aly', 'AL7G40960' => 'aly', 'Aqoxy2G01191' => 'aox', 'Aqoxy2G03393' => 'aox', 'Aqoxy4G02775' => 'aox', 'Aqoxy6G00058' => 'aox', 'arahy.Tifrunner.gnm1.ann1.9X74H2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CW3FX9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R485W7' => 'arhy', 'AT1G10960' => 'ath', 'AT1G60950' => 'ath', 'AT2G27510' => 'ath', 'AT4G14890' => 'ath', 'AT5G10000' => 'ath', 'ATR0665G624' => 'atr', 'ATR0697G138' => 'atr', 'ATR0776G046' => 'atr', 'ATR1134G135' => 'atr', 'Atru.chr12.1025' => 'acertr', 'Atru.chr3.3241' => 'acertr', 'Atru.chr4.2460' => 'acertr', 'AUR62007427' => 'cqu', 'AUR62010960' => 'cqu', 'AUR62012201' => 'cqu', 'AUR62021470' => 'cqu', 'AUR62022834' => 'cqu', 'AUR62033635' => 'cqu', 'AUR62036186' => 'cqu', 'BcaB01g03077' => 'bca', 'BcaB02g10093' => 'bca', 'BcaB04g20295' => 'bca', 'BcaB06g28147' => 'bca', 'BcaB07g31253' => 'bca', 'BcaC01g04946' => 'bca', 'BcaC02g10614' => 'bca', 'BcaC02g10885' => 'bca', 'BcaC04g19356' => 'bca', 'BcaC04g22297' => 'bca', 'BcaC05g24977' => 'bca', 'BcaC06g31823' => 'bca', 'BcaC07g38633' => 'bca', 'BcaC09g49353' => 'bca', 'BcaC09g50168' => 'bca', 'BcaNung00322' => 'bca', 'BcaNung04769' => 'bca', 'BolC1t02753H' => 'bol', 'BolC1t03721H' => 'bol', 'BolC3t15525H' => 'bol', 'BolC4t23903H' => 'bol', 'BolC4t24231H' => 'bol', 'BolC4t27209H' => 'bol', 'BolC5t29671H' => 'bol', 'BolC8t49044H' => 'bol', 'BolC9t54999H' => 'bol', 'BolC9t59517H' => 'bol', 'BraA01t02178Z' => 'bra', 'BraA01t03099Z' => 'bra', 'BraA03t11867Z' => 'bra', 'BraA04t17667Z' => 'bra', 'BraA07t29542Z' => 'bra', 'BraA08t35287Z' => 'bra', 'BraA09t37334Z' => 'bra', 'BraA10t44801Z' => 'bra', 'BraSC39t46181Z' => 'bra', 'C01p28240' => 'bna', 'C01p37530' => 'bna', 'C03p31820' => 'bna', 'C04p24080' => 'bna', 'C04p25790' => 'bna', 'C04p56770' => 'bna', 'C05p09310' => 'bna', 'C09p21010' => 'bna', 'C09p67560' => 'bna', 'CAN.G1324.7' => 'can', 'CAN.G1358.10' => 'can', 'CAN.G1550.2' => 'can', 'CAN.G186.56' => 'can', 'CAN.G1965.1' => 'can', 'CAN.G645.15' => 'can', 'CAN.G798.26' => 'can', 'CAN.G798.27' => 'can', 'CAN.G798.29' => 'can', 'CAN.G919.31' => 'can', 'CANSAT11G0133' => 'cansat', 'CANSAT11G1171' => 'cansat', 'CANSAT11G2056' => 'cansat', 'CANSAT56G1202' => 'cansat', 'CANSAT56G1514' => 'cansat', 'CANSAT78G0455' => 'cansat', 'CARHR011190' => 'chi', 'CARHR051980' => 'chi', 'CARHR120170' => 'chi', 'CARHR203310' => 'chi', 'CARHR221490' => 'chi', 'Carub.0001s1054' => 'cru', 'Carub.0002s0431' => 'cru', 'Carub.0004s0818' => 'cru', 'Carub.0006s0846' => 'cru', 'Carub.0007s2722' => 'cru', 'Ca_00058_v3' => 'car', 'Ca_17831_v3' => 'car', 'Ca_19408_v3' => 'car', 'Ca_24397_v3' => 'car', 'Ca_25664_v3' => 'car', 'CBR_g21818' => 'cbr', 'CBR_g31195' => 'cbr', 'CBR_g32282' => 'cbr', 'CBR_g39599' => 'cbr', 'CBR_g49410' => 'cbr', 'Cc01_g09120' => 'ccan', 'Cc01_g09130' => 'ccan', 'Cc02_g09630' => 'ccan', 'Cc02_g22810' => 'ccan', 'Cc03_g03810' => 'ccan', 'CDE02G3718' => 'cde', 'CDE04G3183' => 'cde', 'CDE07G1046' => 'cde', 'CDE08G0480' => 'cde', 'Cfa005493' => 'cfa', 'Cfa010312' => 'cfa', 'Cfa015648' => 'cfa', 'Ciclev10002793m.g' => 'ccl', 'Ciclev10003356m.g' => 'ccl', 'Ciclev10006141m.g' => 'ccl', 'Ciclev10016676m.g' => 'ccl', 'Ciclev10017081m.g' => 'ccl', 'Ciclev10029499m.g' => 'ccl', 'CiPaw.01G166300' => 'cil', 'CiPaw.06G145600' => 'cil', 'CiPaw.13G040100' => 'cil', 'CiPaw.13G135800' => 'cil', 'ClCG01G012230' => 'cla', 'ClCG05G009510' => 'cla', 'ClCG08G008270' => 'cla', 'COL.COLO4_11763' => 'col', 'COL.COLO4_19876' => 'col', 'COL.COLO4_21481' => 'col', 'Cpa.g.sc118.34' => 'cpa', 'Cpa.g.sc32.13' => 'cpa', 'Cpa.g.sc58.103' => 'cpa', 'Cre03.g183850' => 'cre', 'Cre06.g306350' => 'cre', 'Cre07.g334800' => 'cre', 'Cre12.g487900' => 'cre', 'Cre14.g626700' => 'cre', 'Cre16.g658400' => 'cre', 'Cre17.g700950' => 'cre', 'CsaV3_1G014830' => 'csa', 'CsaV3_3G013320' => 'csa', 'CsaV3_3G019210' => 'csa', 'CsaV3_3G019220' => 'csa', 'CsaV3_6G004230' => 'csa', 'CSS0003773' => 'camsi', 'CSS0004563' => 'camsi', 'CSS0013949' => 'camsi', 'CSS0025971' => 'camsi', 'CSS0028570' => 'camsi', 'CSS0033127' => 'camsi', 'CSS0036051' => 'camsi', 'CSS0040087' => 'camsi', 'CSS0043179' => 'camsi', 'DCAR_006161' => 'dca', 'DCAR_010351' => 'dca', 'DCAR_012197' => 'dca', 'DCAR_024162' => 'dca', 'Dinv01030' => 'din', 'Dinv10924' => 'din', 'Dinv11835' => 'din', 'Dinv22841' => 'din', 'Dinv42553' => 'din', 'Duzib052G0560' => 'dzi', 'Duzib132G0389' => 'dzi', 'Duzib150G1181' => 'dzi', 'Duzib168G0623' => 'dzi', 'Duzib170G1036' => 'dzi', 'Duzib212G0200' => 'dzi', 'Duzib248G0194' => 'dzi', 'ECA232G2193' => 'eca', 'ECA233G0302' => 'eca', 'ECA234G2813' => 'eca', 'ECA234G4866' => 'eca', 'ECA240G3932' => 'eca', 'ECA248G0385' => 'eca', 'EL10Ac2g04781' => 'bvu', 'EL10Ac3g06445' => 'bvu', 'EL10Ac7g15825' => 'bvu', 'EL10Ac8g18550' => 'bvu', 'Eucgr.B03849' => 'egr', 'Eucgr.I02744' => 'egr', 'Eucgr.J00264' => 'egr', 'Eucgr.J00493' => 'egr', 'FAN04G2181' => 'fan', 'FAN07G2666' => 'fan', 'FAN11G0024' => 'fan', 'FAN12G1105' => 'fan', 'FAN13G0302' => 'fan', 'FAN15G2781' => 'fan', 'FAN16G1274' => 'fan', 'FAN17G2988' => 'fan', 'FAN18G2621' => 'fan', 'FAN21G0013' => 'fan', 'FAN22G1211' => 'fan', 'FAN25G3626' => 'fan', 'FvH4_2g09491' => 'fve', 'FvH4_3g24910' => 'fve', 'FvH4_4g15630' => 'fve', 'FvH4_5g28820' => 'fve', 'Glyma.01G238000' => 'gma', 'Glyma.05G168400' => 'gma', 'Glyma.08G126800' => 'gma', 'Glyma.08G188500' => 'gma', 'Glyma.10G278900' => 'gma', 'Glyma.11G005700' => 'gma', 'Glyma.11G183300' => 'gma', 'Glyma.12G089200' => 'gma', 'Glyma.12G169400' => 'gma', 'Glyma.12G169500' => 'gma', 'Glyma.12G169600' => 'gma', 'Glyma.20G110800' => 'gma', 'Gohir.A03G192900' => 'ghi', 'Gohir.A03G193000' => 'ghi', 'Gohir.A05G080700' => 'ghi', 'Gohir.A09G216000' => 'ghi', 'Gohir.A12G027700' => 'ghi', 'Gohir.A13G036200' => 'ghi', 'Gohir.A13G222600' => 'ghi', 'Gohir.D02G213900' => 'ghi', 'Gohir.D02G214000' => 'ghi', 'Gohir.D05G083700' => 'ghi', 'Gohir.D05G083800' => 'ghi', 'Gohir.D05G083850' => 'ghi', 'Gohir.D08G015400' => 'ghi', 'Gohir.D09G218400' => 'ghi', 'Gohir.D12G027100' => 'ghi', 'Gohir.D13G034500' => 'ghi', 'Gohir.D13G227400' => 'ghi', 'Gorai.005G241800' => 'gra', 'Gorai.005G241900' => 'gra', 'Gorai.006G239400' => 'gra', 'Gorai.008G027600' => 'gra', 'Gorai.009G085400' => 'gra', 'Gorai.009G085500' => 'gra', 'Gorai.013G039000' => 'gra', 'Gorai.013G194800' => 'gra', 'Gorai.013G257900' => 'gra', 'GSVIVG01000982001' => 'vvi', 'GSVIVG01017981001' => 'vvi', 'HanXRQChr01g0024061' => 'han', 'HanXRQChr09g0247831' => 'han', 'HanXRQChr10g0294611' => 'han', 'HanXRQChr10g0294621' => 'han', 'HanXRQChr11g0346821' => 'han', 'HanXRQChr13g0397461' => 'han', 'HanXRQChr16g0513651' => 'han', 'HanXRQChr16g0513701' => 'han', 'Haze_00897' => 'cav', 'Haze_01745' => 'cav', 'Haze_02486' => 'cav', 'Haze_02487' => 'cav', 'Haze_23374' => 'cav', 'Hma1.2p1_0578F.1_g182520' => 'hma', 'Hma1.2p1_0602F.1_g187350' => 'hma', 'Hma1.2p1_0602F.1_g187360' => 'hma', 'Hma1.2p1_0874F.1_g231320' => 'hma', 'Hma1.2p1_1197F.1_g266210' => 'hma', 'Hma1.2p1_1197F.1_g266220' => 'hma', 'Hma1.2p1_2167F.1_g315895' => 'hma', 'Hma1.2p1_2190F.1_g316640' => 'hma', 'Hma1.2p1_3645F.1_g337153' => 'hma', 'HPP92_004907' => 'vpl', 'HPP92_012134' => 'vpl', 'HPP92_025136' => 'vpl', 'HPP92_026087' => 'vpl', 'Hund06782' => 'sun', 'Hund06784' => 'sun', 'Lalb_Chr01g0004861' => 'lal', 'Lalb_Chr02g0140591' => 'lal', 'Lalb_Chr02g0140611' => 'lal', 'Lalb_Chr03g0028101' => 'lal', 'Lalb_Chr07g0185791' => 'lal', 'Lalb_Chr12g0204491' => 'lal', 'Lalb_Chr13g0295671' => 'lal', 'Lalb_Chr19g0136461' => 'lal', 'Lalb_Chr21g0309191' => 'lal', 'Lj1g0028158' => 'lja', 'Lj1P236T38' => 'lonja', 'Lj2C32G2' => 'lonja', 'Lj2P944T8' => 'lonja', 'Lj2P963T15' => 'lonja', 'Lj3g0011788' => 'lja', 'Lj4g0025027' => 'lja', 'Lj5P255T36' => 'lonja', 'Lj6g0018866' => 'lja', 'Lj6P608T31' => 'lonja', 'LjContig00408g0008879' => 'lja', 'Lsat_1_v5_gn_5_105820' => 'lsa', 'Lsat_1_v5_gn_6_38800' => 'lsa', 'Lsat_1_v5_gn_7_67141' => 'lsa', 'Manes.04G003400' => 'mes', 'Manes.07G020000' => 'mes', 'Manes.07G020100' => 'mes', 'Manes.07G020150' => 'mes', 'Manes.10G061500' => 'mes', 'Manes.10G123200' => 'mes', 'Manes.11G161900' => 'mes', 'Manes.15G029300' => 'mes', 'Mapoly0071s0018' => 'mpo', 'Mapoly0082s0023' => 'mpo', 'Mapoly3477s0001' => 'mpo', 'MBI05_g31233_MAGBIO' => 'mbi', 'MBI09_g05946_MAGBIO' => 'mbi', 'MBI09_g05947_MAGBIO' => 'mbi', 'MBI17_g08346_MAGBIO' => 'mbi', 'MCO04G038' => 'mco', 'MCO09G370' => 'mco', 'MCO13G605' => 'mco', 'MD00G1075500' => 'mdo', 'MD03G1144300' => 'mdo', 'MD08G1236800' => 'mdo', 'MD13G1193300' => 'mdo', 'MD15G1428700' => 'mdo', 'Medtr1g112030' => 'mtr', 'Medtr1g112050' => 'mtr', 'Medtr2g006290' => 'mtr', 'Medtr2g086510' => 'mtr', 'Medtr4g053120' => 'mtr', 'Medtr5g006320' => 'mtr', 'Medtr8g088720' => 'mtr', 'MELO3C004712.2' => 'cme', 'MELO3C006533.2' => 'cme', 'MELO3C019438.2' => 'cme', 'MELO3C019440.2' => 'cme', 'MELO3C019441.2' => 'cme', 'MELO3C019895.2' => 'cme', 'Migut.B00811' => 'egut', 'Migut.D02447' => 'egut', 'Migut.F00875' => 'egut', 'Migut.N00186' => 'egut', 'Migut.N01051' => 'egut', 'Migut.N02491' => 'egut', 'Migut.O00784' => 'egut', 'MSTRG.12367' => 'ama', 'MSTRG.18756' => 'ama', 'MSTRG.21042' => 'ama', 'Nitab4.5_0000559g0040' => 'nta', 'Nitab4.5_0000667g0190' => 'nta', 'Nitab4.5_0000755g0160' => 'nta', 'Nitab4.5_0001216g0080' => 'nta', 'Nitab4.5_0004069g0040' => 'nta', 'Nitab4.5_0004129g0010' => 'nta', 'Nitab4.5_0005744g0030' => 'nta', 'Nitab4.5_0006996g0030' => 'nta', 'Nitab4.5_0008971g0040' => 'nta', 'Nitab4.5_0009769g0020' => 'nta', 'Nitab4.5_0009833g0010' => 'nta', 'Nitab4.5_0013140g0020' => 'nta', 'Nn003s41376' => 'nnu', 'Nn1g01857' => 'nnu', 'Nn1g03611' => 'nnu', 'Nn1g06853' => 'nnu', 'Nn3g18360' => 'nnu', 'Nn4g26328' => 'nnu', 'Nn5g27531' => 'nnu', 'Nn6g34899' => 'nnu', 'Nn7g36299' => 'nnu', 'Oeu021485.1' => 'oeu', 'Oeu022433.1' => 'oeu', 'Oeu032111.1' => 'oeu', 'Oeu051608.1' => 'oeu', 'Os01g0860601' => 'osa', 'Os03g0659200' => 'osa', 'Os03g0835900' => 'osa', 'Os04g0412200' => 'osa', 'Os05g0443500' => 'osa', 'Os07g0251500' => 'osa', 'Os08g0104600' => 'osa', 'Peaxi162Scf00003g00047' => 'pax', 'Peaxi162Scf00003g00052' => 'pax', 'Peaxi162Scf00003g00394' => 'pax', 'Peaxi162Scf00091g00621' => 'pax', 'Peaxi162Scf00152g00146' => 'pax', 'Peaxi162Scf00173g00025' => 'pax', 'Peaxi162Scf00195g00102' => 'pax', 'Peaxi162Scf00402g00013' => 'pax', 'Peaxi162Scf00519g00618' => 'pax', 'PGR004G2838' => 'pgr', 'PGR044G2275' => 'pgr', 'PGR102G1377' => 'pgr', 'PGR119G1245' => 'pgr', 'PGR142G4449' => 'pgr', 'PGSC0003DMG400004532' => 'stu', 'PGSC0003DMG400011950' => 'stu', 'PGSC0003DMG400023391' => 'stu', 'PGSC0003DMG400023985' => 'stu', 'PGSC0003DMG400026360' => 'stu', 'PGSC0003DMG400035711' => 'stu', 'PGSC0003DMG400037286' => 'stu', 'PGSC0003DMG402005881' => 'stu', 'Phvul.002G045400' => 'pvu', 'Phvul.006G216600' => 'pvu', 'Phvul.006G216700' => 'pvu', 'Phvul.006G216800' => 'pvu', 'Phvul.007G022500' => 'pvu', 'Phvul.011G094400' => 'pvu', 'Potri.001G470700' => 'ptr', 'Potri.003G015200' => 'ptr', 'Potri.004G202500' => 'ptr', 'Potri.004G218400' => 'ptr', 'Potri.008G020100' => 'ptr', 'Potri.008G153200' => 'ptr', 'Potri.009G163800' => 'ptr', 'Potri.010G087300' => 'ptr', 'Potri.010G239100' => 'ptr', 'Pp3c10_16100' => 'ppa', 'Pp3c10_16880' => 'ppa', 'Pp3c16_6230' => 'ppa', 'Pp3c17_18910' => 'ppa', 'Pp3c3_22119' => 'ppa', 'Pp3c3_22140' => 'ppa', 'Pp3c4_8159' => 'ppa', 'Pp3c4_8171' => 'ppa', 'Pp3c4_8330' => 'ppa', 'PRCOL_00004098' => 'pco', 'Prupe.1G013900' => 'ppe', 'Prupe.1G226300' => 'ppe', 'Prupe.1G573600' => 'ppe', 'Prupe.6G130100' => 'ppe', 'Psat3g090040' => 'psa', 'Psat4g210440' => 'psa', 'Psat6g231040' => 'psa', 'Psat6g231080' => 'psa', 'Psat7g063000' => 'psa', 'Psat7g188000' => 'psa', 'Psat7g188040' => 'psa', 'PSO017G0206' => 'pso', 'PSO170G0501' => 'pso', 'PSO170G6422' => 'pso', 'PSO210G7739' => 'pso', 'PSO339G1808' => 'pso', 'PSO339G6135' => 'pso', 'PSO384G0010' => 'pso', 'PSO384G0964' => 'pso', 'PSO761G0050' => 'pso', 'PSO782G4085' => 'pso', 'QL01p012264' => 'qlo', 'QL02p099491' => 'qlo', 'QL03p033868' => 'qlo', 'QL04p046678' => 'qlo', 'QL06p002448' => 'qlo', 'RcHm_v2.0_Chr4g0416181' => 'rch', 'RcHm_v2.0_Chr5g0044701' => 'rch', 'RcHm_v2.0_Chr6g0265781' => 'rch', 'RcHm_v2.0_Chr7g0221031' => 'rch', 'Rhsim04G0202000' => 'rsi', 'Rhsim11G0127300' => 'rsi', 'Rhsim13G0111800' => 'rsi', 'Sabra01G0165600' => 'sbr', 'Sabra03G0008300' => 'sbr', 'Sabra04G0136900' => 'sbr', 'Sabra08G0013400' => 'sbr', 'Sabra08G0116800' => 'sbr', 'Sabra09G0128000' => 'sbr', 'Sabra10G0055500' => 'sbr', 'Sabra10G0073300' => 'sbr', 'SalBow3G0385' => 'sbo', 'SalBow3G1119' => 'sbo', 'SalBow3G2005' => 'sbo', 'SalBow6G2563' => 'sbo', 'SalBow6G6386' => 'sbo', 'Sc06g0008800' => 'sci', 'Sc07g0004950' => 'sci', 'Sc09g0005340' => 'sci', 'Sc13g0004410' => 'sci', 'Sc21g0007090' => 'sci', 'Sed0009285' => 'sed', 'Sed0017583' => 'sed', 'Sed0019699' => 'sed', 'Sed0023107' => 'sed', 'SEGI_10916' => 'sgi', 'SEGI_16217' => 'sgi', 'SEGI_19466' => 'sgi', 'SEGI_41115' => 'sgi', 'SGA_v2.0_scaffold111G31534' => 'sas', 'SGA_v2.0_scaffold22G09864' => 'sas', 'SGA_v2.0_scaffold338G49219' => 'sas', 'SGA_v2.0_scaffold92G28298' => 'sas', 'SMO119G0064' => 'smo', 'SMO223G0038' => 'smo', 'SMO347G0584' => 'smo', 'SMO351G0010' => 'smo', 'SMO356G0404' => 'smo', 'Solyc01g103920.3' => 'sly', 'Solyc04g009710.2' => 'sly', 'Solyc05g055280.2' => 'sly', 'Solyc10g044520.3' => 'sly', 'Solyc10g075160.1' => 'sly', 'Solyc11g006910.3' => 'sly', 'Solyc11g068430.3' => 'sly', 'Sopen01g046310' => 'spe', 'Sopen03g001200' => 'spe', 'Sopen04g004830' => 'spe', 'Sopen05g033720' => 'spe', 'Sopen06g030740' => 'spe', 'Sopen10g013090' => 'spe', 'Sopen10g027630' => 'spe', 'Sopen10g027640' => 'spe', 'Sopen11g002820' => 'spe', 'Sopen11g027140' => 'spe', 'Sp1g09680' => 'spa', 'Sp2g03630' => 'spa', 'Sp4g10320' => 'spa', 'Sp6g33400' => 'spa', 'Sp7g13030' => 'spa', 'TAR365G0317' => 'tar', 'TAR376G0979' => 'tar', 'TAR623G1665' => 'tar', 'TAR633G2373' => 'tar', 'TAR636G1400' => 'tar', 'THA.LOC104800529' => 'tha', 'THA.LOC104808547' => 'tha', 'THA.LOC104809615' => 'tha', 'THA.LOC104815724' => 'tha', 'THA.LOC104818480' => 'tha', 'THA.LOC104819179' => 'tha', 'THA.LOC104822270' => 'tha', 'THA.LOC104826425' => 'tha', 'Thecc.02G089700' => 'tca', 'Thecc.04G232300' => 'tca', 'Thecc.09G283400' => 'tca', 'Thhalv10009020m.g' => 'esa', 'Thhalv10015506m.g' => 'esa', 'Thhalv10017364m.g' => 'esa', 'Thhalv10023742m.g' => 'esa', 'Thhalv10026483m.g' => 'esa', 'TPR.G17232' => 'tpr', 'TPR.G2133' => 'tpr', 'TPR.G2498' => 'tpr', 'TPR.G31942' => 'tpr', 'TPR.G37877' => 'tpr', 'TPR.G4571' => 'tpr', 'TWI14G1113' => 'twi', 'TWI15G0426' => 'twi', 'TWI31G1005' => 'twi', 'TWI38G0513' => 'twi', 'TWI38G1484' => 'twi', 'TWI73G1098' => 'twi', 'unitig_26.g10519' => 'ugi', 'unitig_736.g22395' => 'ugi', 'unitig_747.g21234' => 'ugi', 'unitig_747.g21942' => 'ugi', 'vmacro14351' => 'vma', 'VMungo0540G0082' => 'vmu', 'VMungo0540G0405' => 'vmu', 'VMungo0540G1486' => 'vmu', 'VMungo0540G1692' => 'vmu', 'VMungo0720G2473' => 'vmu', 'VMungo1127G1562' => 'vmu', 'VMungo1215G1918' => 'vmu', 'Zm00001eb052650' => 'zma', 'Zm00001eb063710' => 'zma', 'Zm00001eb083950' => 'zma', 'Zm00001eb174420' => 'zma', 'Zm00001eb260140' => 'zma', 'Zm00001eb260150' => 'zma', 'Zm00001eb260160' => 'zma', 'Zm00001eb348290' => 'zma', 'Zm00001eb366870' => 'zma', 'Zm00001eb421930' => 'zma' ) $gf_id = 'HOM05D001025' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001025' ) $data_identifier = 'HOM05D001025' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 19, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 2, 'amhyb' => (int) 4, 'aly' => (int) 4, 'aox' => (int) 4, 'arhy' => (int) 3, 'ath' => (int) 5, 'atr' => (int) 4, 'acertr' => (int) 3, 'cqu' => (int) 7, 'bca' => (int) 17, 'bol' => (int) 10, 'bra' => (int) 9, 'can' => (int) 10, 'cansat' => (int) 6, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 5, 'cbr' => (int) 5, 'ccan' => (int) 5, 'cde' => (int) 4, 'cfa' => (int) 3, 'ccl' => (int) 6, 'cil' => (int) 4, 'cla' => (int) 3, 'col' => (int) 3, 'cpa' => (int) 3, 'cre' => (int) 7, 'csa' => (int) 5, 'camsi' => (int) 9, 'dca' => (int) 4, 'din' => (int) 5, 'dzi' => (int) 7, 'eca' => (int) 6, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 12, 'fve' => (int) 4, 'gma' => (int) 12, 'ghi' => (int) 17, 'gra' => (int) 9, 'vvi' => (int) 2, 'han' => (int) 8, 'cav' => (int) 5, 'hma' => (int) 9, 'vpl' => (int) 4, 'sun' => (int) 2, 'lal' => (int) 9, 'lja' => (int) 5, 'lonja' => (int) 6, 'lsa' => (int) 3, 'mes' => (int) 8, 'mpo' => (int) 3, 'mbi' => (int) 4, 'mco' => (int) 3, 'mdo' => (int) 5, 'mtr' => (int) 7, 'cme' => (int) 6, 'egut' => (int) 7, 'ama' => (int) 3, 'nta' => (int) 12, 'nnu' => (int) 9, 'oeu' => (int) 4, 'osa' => (int) 7, 'pax' => (int) 9, 'pgr' => (int) 5, 'stu' => (int) 8, 'pvu' => (int) 6, 'ptr' => (int) 9, 'ppa' => (int) 9, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 7, 'pso' => (int) 10, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 3, 'sbr' => (int) 8, 'sbo' => (int) 5, 'sci' => (int) 5, 'sed' => (int) 4, 'sgi' => (int) 4, 'sas' => (int) 4, 'smo' => (int) 5, 'sly' => (int) 7, 'spe' => (int) 10, 'spa' => (int) 5, 'tar' => (int) 5, 'tha' => (int) 8, 'tca' => (int) 3, 'esa' => (int) 5, 'tpr' => (int) 6, 'twi' => (int) 6, 'ugi' => (int) 4, 'vma' => (int) 1, 'vmu' => (int) 7, 'zma' => (int) 10 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb421930' $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' => 'HOM05D001025', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '592', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p22650' => 'bna', 'A01p29720' => 'bna', 'A03p26560' => 'bna', 'A03p68820' => 'bna', 'A04p20980' => 'bna', 'A06p07730' => 'bna', 'A07p18260' => 'bna', 'A08p33710' => 'bna', 'A09p16970' => 'bna', 'A10p27490' => 'bna', 'Aa31LG1G17300' => 'aar', 'Aa31LG1G3910' => 'aar', 'Aa31LG2G9630' => 'aar', 'Aa31LG5G8360' => 'aar', 'Aa31LG9G2410' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4699' => 'aag', 'Actinidia23512' => 'ach', 'Actinidia37080' => 'ach', 'Ah.01g020380' => 'amhyb', 'Ah.08g215710' => 'amhyb', 'Ah.09g225110' => 'amhyb', 'Ah.10g036680' => 'amhyb', 'AL1G21940' => 'aly', 'AL2G15540' => 'aly', 'AL4G21520' => 'aly', 'AL7G40960' => 'aly', 'Aqoxy2G01191' => 'aox', 'Aqoxy2G03393' => 'aox', 'Aqoxy4G02775' => 'aox', 'Aqoxy6G00058' => 'aox', 'arahy.Tifrunner.gnm1.ann1.9X74H2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CW3FX9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R485W7' => 'arhy', 'AT1G10960' => 'ath', 'AT1G60950' => 'ath', 'AT2G27510' => 'ath', 'AT4G14890' => 'ath', 'AT5G10000' => 'ath', 'ATR0665G624' => 'atr', 'ATR0697G138' => 'atr', 'ATR0776G046' => 'atr', 'ATR1134G135' => 'atr', 'Atru.chr12.1025' => 'acertr', 'Atru.chr3.3241' => 'acertr', 'Atru.chr4.2460' => 'acertr', 'AUR62007427' => 'cqu', 'AUR62010960' => 'cqu', 'AUR62012201' => 'cqu', 'AUR62021470' => 'cqu', 'AUR62022834' => 'cqu', 'AUR62033635' => 'cqu', 'AUR62036186' => 'cqu', 'BcaB01g03077' => 'bca', 'BcaB02g10093' => 'bca', 'BcaB04g20295' => 'bca', 'BcaB06g28147' => 'bca', 'BcaB07g31253' => 'bca', 'BcaC01g04946' => 'bca', 'BcaC02g10614' => 'bca', 'BcaC02g10885' => 'bca', 'BcaC04g19356' => 'bca', 'BcaC04g22297' => 'bca', 'BcaC05g24977' => 'bca', 'BcaC06g31823' => 'bca', 'BcaC07g38633' => 'bca', 'BcaC09g49353' => 'bca', 'BcaC09g50168' => 'bca', 'BcaNung00322' => 'bca', 'BcaNung04769' => 'bca', 'BolC1t02753H' => 'bol', 'BolC1t03721H' => 'bol', 'BolC3t15525H' => 'bol', 'BolC4t23903H' => 'bol', 'BolC4t24231H' => 'bol', 'BolC4t27209H' => 'bol', 'BolC5t29671H' => 'bol', 'BolC8t49044H' => 'bol', 'BolC9t54999H' => 'bol', 'BolC9t59517H' => 'bol', 'BraA01t02178Z' => 'bra', 'BraA01t03099Z' => 'bra', 'BraA03t11867Z' => 'bra', 'BraA04t17667Z' => 'bra', 'BraA07t29542Z' => 'bra', 'BraA08t35287Z' => 'bra', 'BraA09t37334Z' => 'bra', 'BraA10t44801Z' => 'bra', 'BraSC39t46181Z' => 'bra', 'C01p28240' => 'bna', 'C01p37530' => 'bna', 'C03p31820' => 'bna', 'C04p24080' => 'bna', 'C04p25790' => 'bna', 'C04p56770' => 'bna', 'C05p09310' => 'bna', 'C09p21010' => 'bna', 'C09p67560' => 'bna', 'CAN.G1324.7' => 'can', 'CAN.G1358.10' => 'can', 'CAN.G1550.2' => 'can', 'CAN.G186.56' => 'can', 'CAN.G1965.1' => 'can', 'CAN.G645.15' => 'can', 'CAN.G798.26' => 'can', 'CAN.G798.27' => 'can', 'CAN.G798.29' => 'can', 'CAN.G919.31' => 'can', 'CANSAT11G0133' => 'cansat', 'CANSAT11G1171' => 'cansat', 'CANSAT11G2056' => 'cansat', 'CANSAT56G1202' => 'cansat', 'CANSAT56G1514' => 'cansat', 'CANSAT78G0455' => 'cansat', 'CARHR011190' => 'chi', 'CARHR051980' => 'chi', 'CARHR120170' => 'chi', 'CARHR203310' => 'chi', 'CARHR221490' => 'chi', 'Carub.0001s1054' => 'cru', 'Carub.0002s0431' => 'cru', 'Carub.0004s0818' => 'cru', 'Carub.0006s0846' => 'cru', 'Carub.0007s2722' => 'cru', 'Ca_00058_v3' => 'car', 'Ca_17831_v3' => 'car', 'Ca_19408_v3' => 'car', 'Ca_24397_v3' => 'car', 'Ca_25664_v3' => 'car', 'CBR_g21818' => 'cbr', 'CBR_g31195' => 'cbr', 'CBR_g32282' => 'cbr', 'CBR_g39599' => 'cbr', 'CBR_g49410' => 'cbr', 'Cc01_g09120' => 'ccan', 'Cc01_g09130' => 'ccan', 'Cc02_g09630' => 'ccan', 'Cc02_g22810' => 'ccan', 'Cc03_g03810' => 'ccan', 'CDE02G3718' => 'cde', 'CDE04G3183' => 'cde', 'CDE07G1046' => 'cde', 'CDE08G0480' => 'cde', 'Cfa005493' => 'cfa', 'Cfa010312' => 'cfa', 'Cfa015648' => 'cfa', 'Ciclev10002793m.g' => 'ccl', 'Ciclev10003356m.g' => 'ccl', 'Ciclev10006141m.g' => 'ccl', 'Ciclev10016676m.g' => 'ccl', 'Ciclev10017081m.g' => 'ccl', 'Ciclev10029499m.g' => 'ccl', 'CiPaw.01G166300' => 'cil', 'CiPaw.06G145600' => 'cil', 'CiPaw.13G040100' => 'cil', 'CiPaw.13G135800' => 'cil', 'ClCG01G012230' => 'cla', 'ClCG05G009510' => 'cla', 'ClCG08G008270' => 'cla', 'COL.COLO4_11763' => 'col', 'COL.COLO4_19876' => 'col', 'COL.COLO4_21481' => 'col', 'Cpa.g.sc118.34' => 'cpa', 'Cpa.g.sc32.13' => 'cpa', 'Cpa.g.sc58.103' => 'cpa', 'Cre03.g183850' => 'cre', 'Cre06.g306350' => 'cre', 'Cre07.g334800' => 'cre', 'Cre12.g487900' => 'cre', 'Cre14.g626700' => 'cre', 'Cre16.g658400' => 'cre', 'Cre17.g700950' => 'cre', 'CsaV3_1G014830' => 'csa', 'CsaV3_3G013320' => 'csa', 'CsaV3_3G019210' => 'csa', 'CsaV3_3G019220' => 'csa', 'CsaV3_6G004230' => 'csa', 'CSS0003773' => 'camsi', 'CSS0004563' => 'camsi', 'CSS0013949' => 'camsi', 'CSS0025971' => 'camsi', 'CSS0028570' => 'camsi', 'CSS0033127' => 'camsi', 'CSS0036051' => 'camsi', 'CSS0040087' => 'camsi', 'CSS0043179' => 'camsi', 'DCAR_006161' => 'dca', 'DCAR_010351' => 'dca', 'DCAR_012197' => 'dca', 'DCAR_024162' => 'dca', 'Dinv01030' => 'din', 'Dinv10924' => 'din', 'Dinv11835' => 'din', 'Dinv22841' => 'din', 'Dinv42553' => 'din', 'Duzib052G0560' => 'dzi', 'Duzib132G0389' => 'dzi', 'Duzib150G1181' => 'dzi', 'Duzib168G0623' => 'dzi', 'Duzib170G1036' => 'dzi', 'Duzib212G0200' => 'dzi', 'Duzib248G0194' => 'dzi', 'ECA232G2193' => 'eca', 'ECA233G0302' => 'eca', 'ECA234G2813' => 'eca', 'ECA234G4866' => 'eca', 'ECA240G3932' => 'eca', 'ECA248G0385' => 'eca', 'EL10Ac2g04781' => 'bvu', 'EL10Ac3g06445' => 'bvu', 'EL10Ac7g15825' => 'bvu', 'EL10Ac8g18550' => 'bvu', 'Eucgr.B03849' => 'egr', 'Eucgr.I02744' => 'egr', 'Eucgr.J00264' => 'egr', 'Eucgr.J00493' => 'egr', 'FAN04G2181' => 'fan', 'FAN07G2666' => 'fan', 'FAN11G0024' => 'fan', 'FAN12G1105' => 'fan', 'FAN13G0302' => 'fan', 'FAN15G2781' => 'fan', 'FAN16G1274' => 'fan', 'FAN17G2988' => 'fan', 'FAN18G2621' => 'fan', 'FAN21G0013' => 'fan', 'FAN22G1211' => 'fan', 'FAN25G3626' => 'fan', 'FvH4_2g09491' => 'fve', 'FvH4_3g24910' => 'fve', 'FvH4_4g15630' => 'fve', 'FvH4_5g28820' => 'fve', 'Glyma.01G238000' => 'gma', 'Glyma.05G168400' => 'gma', 'Glyma.08G126800' => 'gma', 'Glyma.08G188500' => 'gma', 'Glyma.10G278900' => 'gma', 'Glyma.11G005700' => 'gma', 'Glyma.11G183300' => 'gma', 'Glyma.12G089200' => 'gma', 'Glyma.12G169400' => 'gma', 'Glyma.12G169500' => 'gma', 'Glyma.12G169600' => 'gma', 'Glyma.20G110800' => 'gma', 'Gohir.A03G192900' => 'ghi', 'Gohir.A03G193000' => 'ghi', 'Gohir.A05G080700' => 'ghi', 'Gohir.A09G216000' => 'ghi', 'Gohir.A12G027700' => 'ghi', 'Gohir.A13G036200' => 'ghi', 'Gohir.A13G222600' => 'ghi', 'Gohir.D02G213900' => 'ghi', 'Gohir.D02G214000' => 'ghi', 'Gohir.D05G083700' => 'ghi', 'Gohir.D05G083800' => 'ghi', 'Gohir.D05G083850' => 'ghi', 'Gohir.D08G015400' => 'ghi', 'Gohir.D09G218400' => 'ghi', 'Gohir.D12G027100' => 'ghi', 'Gohir.D13G034500' => 'ghi', 'Gohir.D13G227400' => 'ghi', 'Gorai.005G241800' => 'gra', 'Gorai.005G241900' => 'gra', 'Gorai.006G239400' => 'gra', 'Gorai.008G027600' => 'gra', 'Gorai.009G085400' => 'gra', 'Gorai.009G085500' => 'gra', 'Gorai.013G039000' => 'gra', 'Gorai.013G194800' => 'gra', 'Gorai.013G257900' => 'gra', 'GSVIVG01000982001' => 'vvi', 'GSVIVG01017981001' => 'vvi', 'HanXRQChr01g0024061' => 'han', 'HanXRQChr09g0247831' => 'han', 'HanXRQChr10g0294611' => 'han', 'HanXRQChr10g0294621' => 'han', 'HanXRQChr11g0346821' => 'han', 'HanXRQChr13g0397461' => 'han', 'HanXRQChr16g0513651' => 'han', 'HanXRQChr16g0513701' => 'han', 'Haze_00897' => 'cav', 'Haze_01745' => 'cav', 'Haze_02486' => 'cav', 'Haze_02487' => 'cav', 'Haze_23374' => 'cav', 'Hma1.2p1_0578F.1_g182520' => 'hma', 'Hma1.2p1_0602F.1_g187350' => 'hma', 'Hma1.2p1_0602F.1_g187360' => 'hma', 'Hma1.2p1_0874F.1_g231320' => 'hma', 'Hma1.2p1_1197F.1_g266210' => 'hma', 'Hma1.2p1_1197F.1_g266220' => 'hma', 'Hma1.2p1_2167F.1_g315895' => 'hma', 'Hma1.2p1_2190F.1_g316640' => 'hma', 'Hma1.2p1_3645F.1_g337153' => 'hma', 'HPP92_004907' => 'vpl', 'HPP92_012134' => 'vpl', 'HPP92_025136' => 'vpl', 'HPP92_026087' => 'vpl', 'Hund06782' => 'sun', 'Hund06784' => 'sun', 'Lalb_Chr01g0004861' => 'lal', 'Lalb_Chr02g0140591' => 'lal', 'Lalb_Chr02g0140611' => 'lal', 'Lalb_Chr03g0028101' => 'lal', 'Lalb_Chr07g0185791' => 'lal', 'Lalb_Chr12g0204491' => 'lal', 'Lalb_Chr13g0295671' => 'lal', 'Lalb_Chr19g0136461' => 'lal', 'Lalb_Chr21g0309191' => 'lal', 'Lj1g0028158' => 'lja', 'Lj1P236T38' => 'lonja', 'Lj2C32G2' => 'lonja', 'Lj2P944T8' => 'lonja', 'Lj2P963T15' => 'lonja', 'Lj3g0011788' => 'lja', 'Lj4g0025027' => 'lja', 'Lj5P255T36' => 'lonja', 'Lj6g0018866' => 'lja', 'Lj6P608T31' => 'lonja', 'LjContig00408g0008879' => 'lja', 'Lsat_1_v5_gn_5_105820' => 'lsa', 'Lsat_1_v5_gn_6_38800' => 'lsa', 'Lsat_1_v5_gn_7_67141' => 'lsa', 'Manes.04G003400' => 'mes', 'Manes.07G020000' => 'mes', 'Manes.07G020100' => 'mes', 'Manes.07G020150' => 'mes', 'Manes.10G061500' => 'mes', 'Manes.10G123200' => 'mes', 'Manes.11G161900' => 'mes', 'Manes.15G029300' => 'mes', 'Mapoly0071s0018' => 'mpo', 'Mapoly0082s0023' => 'mpo', 'Mapoly3477s0001' => 'mpo', 'MBI05_g31233_MAGBIO' => 'mbi', 'MBI09_g05946_MAGBIO' => 'mbi', 'MBI09_g05947_MAGBIO' => 'mbi', 'MBI17_g08346_MAGBIO' => 'mbi', 'MCO04G038' => 'mco', 'MCO09G370' => 'mco', 'MCO13G605' => 'mco', 'MD00G1075500' => 'mdo', 'MD03G1144300' => 'mdo', 'MD08G1236800' => 'mdo', 'MD13G1193300' => 'mdo', 'MD15G1428700' => 'mdo', 'Medtr1g112030' => 'mtr', 'Medtr1g112050' => 'mtr', 'Medtr2g006290' => 'mtr', 'Medtr2g086510' => 'mtr', 'Medtr4g053120' => 'mtr', 'Medtr5g006320' => 'mtr', 'Medtr8g088720' => 'mtr', 'MELO3C004712.2' => 'cme', 'MELO3C006533.2' => 'cme', 'MELO3C019438.2' => 'cme', 'MELO3C019440.2' => 'cme', 'MELO3C019441.2' => 'cme', 'MELO3C019895.2' => 'cme', 'Migut.B00811' => 'egut', 'Migut.D02447' => 'egut', 'Migut.F00875' => 'egut', 'Migut.N00186' => 'egut', 'Migut.N01051' => 'egut', 'Migut.N02491' => 'egut', 'Migut.O00784' => 'egut', 'MSTRG.12367' => 'ama', 'MSTRG.18756' => 'ama', 'MSTRG.21042' => 'ama', 'Nitab4.5_0000559g0040' => 'nta', 'Nitab4.5_0000667g0190' => 'nta', 'Nitab4.5_0000755g0160' => 'nta', 'Nitab4.5_0001216g0080' => 'nta', 'Nitab4.5_0004069g0040' => 'nta', 'Nitab4.5_0004129g0010' => 'nta', 'Nitab4.5_0005744g0030' => 'nta', 'Nitab4.5_0006996g0030' => 'nta', 'Nitab4.5_0008971g0040' => 'nta', 'Nitab4.5_0009769g0020' => 'nta', 'Nitab4.5_0009833g0010' => 'nta', 'Nitab4.5_0013140g0020' => 'nta', 'Nn003s41376' => 'nnu', 'Nn1g01857' => 'nnu', 'Nn1g03611' => 'nnu', 'Nn1g06853' => 'nnu', 'Nn3g18360' => 'nnu', 'Nn4g26328' => 'nnu', 'Nn5g27531' => 'nnu', 'Nn6g34899' => 'nnu', 'Nn7g36299' => 'nnu', 'Oeu021485.1' => 'oeu', 'Oeu022433.1' => 'oeu', 'Oeu032111.1' => 'oeu', 'Oeu051608.1' => 'oeu', 'Os01g0860601' => 'osa', 'Os03g0659200' => 'osa', 'Os03g0835900' => 'osa', 'Os04g0412200' => 'osa', 'Os05g0443500' => 'osa', 'Os07g0251500' => 'osa', 'Os08g0104600' => 'osa', 'Peaxi162Scf00003g00047' => 'pax', 'Peaxi162Scf00003g00052' => 'pax', 'Peaxi162Scf00003g00394' => 'pax', 'Peaxi162Scf00091g00621' => 'pax', 'Peaxi162Scf00152g00146' => 'pax', 'Peaxi162Scf00173g00025' => 'pax', 'Peaxi162Scf00195g00102' => 'pax', 'Peaxi162Scf00402g00013' => 'pax', 'Peaxi162Scf00519g00618' => 'pax', 'PGR004G2838' => 'pgr', 'PGR044G2275' => 'pgr', 'PGR102G1377' => 'pgr', 'PGR119G1245' => 'pgr', 'PGR142G4449' => 'pgr', 'PGSC0003DMG400004532' => 'stu', 'PGSC0003DMG400011950' => 'stu', 'PGSC0003DMG400023391' => 'stu', 'PGSC0003DMG400023985' => 'stu', 'PGSC0003DMG400026360' => 'stu', 'PGSC0003DMG400035711' => 'stu', 'PGSC0003DMG400037286' => 'stu', 'PGSC0003DMG402005881' => 'stu', 'Phvul.002G045400' => 'pvu', 'Phvul.006G216600' => 'pvu', 'Phvul.006G216700' => 'pvu', 'Phvul.006G216800' => 'pvu', 'Phvul.007G022500' => 'pvu', 'Phvul.011G094400' => 'pvu', 'Potri.001G470700' => 'ptr', 'Potri.003G015200' => 'ptr', 'Potri.004G202500' => 'ptr', 'Potri.004G218400' => 'ptr', 'Potri.008G020100' => 'ptr', 'Potri.008G153200' => 'ptr', 'Potri.009G163800' => 'ptr', 'Potri.010G087300' => 'ptr', 'Potri.010G239100' => 'ptr', 'Pp3c10_16100' => 'ppa', 'Pp3c10_16880' => 'ppa', 'Pp3c16_6230' => 'ppa', 'Pp3c17_18910' => 'ppa', 'Pp3c3_22119' => 'ppa', 'Pp3c3_22140' => 'ppa', 'Pp3c4_8159' => 'ppa', 'Pp3c4_8171' => 'ppa', 'Pp3c4_8330' => 'ppa', 'PRCOL_00004098' => 'pco', 'Prupe.1G013900' => 'ppe', 'Prupe.1G226300' => 'ppe', 'Prupe.1G573600' => 'ppe', 'Prupe.6G130100' => 'ppe', 'Psat3g090040' => 'psa', 'Psat4g210440' => 'psa', 'Psat6g231040' => 'psa', 'Psat6g231080' => 'psa', 'Psat7g063000' => 'psa', 'Psat7g188000' => 'psa', 'Psat7g188040' => 'psa', 'PSO017G0206' => 'pso', 'PSO170G0501' => 'pso', 'PSO170G6422' => 'pso', 'PSO210G7739' => 'pso', 'PSO339G1808' => 'pso', 'PSO339G6135' => 'pso', 'PSO384G0010' => 'pso', 'PSO384G0964' => 'pso', 'PSO761G0050' => 'pso', 'PSO782G4085' => 'pso', 'QL01p012264' => 'qlo', 'QL02p099491' => 'qlo', 'QL03p033868' => 'qlo', 'QL04p046678' => 'qlo', 'QL06p002448' => 'qlo', 'RcHm_v2.0_Chr4g0416181' => 'rch', 'RcHm_v2.0_Chr5g0044701' => 'rch', 'RcHm_v2.0_Chr6g0265781' => 'rch', 'RcHm_v2.0_Chr7g0221031' => 'rch', 'Rhsim04G0202000' => 'rsi', 'Rhsim11G0127300' => 'rsi', 'Rhsim13G0111800' => 'rsi', 'Sabra01G0165600' => 'sbr', 'Sabra03G0008300' => 'sbr', 'Sabra04G0136900' => 'sbr', 'Sabra08G0013400' => 'sbr', 'Sabra08G0116800' => 'sbr', 'Sabra09G0128000' => 'sbr', 'Sabra10G0055500' => 'sbr', 'Sabra10G0073300' => 'sbr', 'SalBow3G0385' => 'sbo', 'SalBow3G1119' => 'sbo', 'SalBow3G2005' => 'sbo', 'SalBow6G2563' => 'sbo', 'SalBow6G6386' => 'sbo', 'Sc06g0008800' => 'sci', 'Sc07g0004950' => 'sci', 'Sc09g0005340' => 'sci', 'Sc13g0004410' => 'sci', 'Sc21g0007090' => 'sci', 'Sed0009285' => 'sed', 'Sed0017583' => 'sed', 'Sed0019699' => 'sed', 'Sed0023107' => 'sed', 'SEGI_10916' => 'sgi', 'SEGI_16217' => 'sgi', 'SEGI_19466' => 'sgi', 'SEGI_41115' => 'sgi', 'SGA_v2.0_scaffold111G31534' => 'sas', 'SGA_v2.0_scaffold22G09864' => 'sas', 'SGA_v2.0_scaffold338G49219' => 'sas', 'SGA_v2.0_scaffold92G28298' => 'sas', 'SMO119G0064' => 'smo', 'SMO223G0038' => 'smo', 'SMO347G0584' => 'smo', 'SMO351G0010' => 'smo', 'SMO356G0404' => 'smo', 'Solyc01g103920.3' => 'sly', 'Solyc04g009710.2' => 'sly', 'Solyc05g055280.2' => 'sly', 'Solyc10g044520.3' => 'sly', 'Solyc10g075160.1' => 'sly', 'Solyc11g006910.3' => 'sly', 'Solyc11g068430.3' => 'sly', 'Sopen01g046310' => 'spe', 'Sopen03g001200' => 'spe', 'Sopen04g004830' => 'spe', 'Sopen05g033720' => 'spe', 'Sopen06g030740' => 'spe', 'Sopen10g013090' => 'spe', 'Sopen10g027630' => 'spe', 'Sopen10g027640' => 'spe', 'Sopen11g002820' => 'spe', 'Sopen11g027140' => 'spe', 'Sp1g09680' => 'spa', 'Sp2g03630' => 'spa', 'Sp4g10320' => 'spa', 'Sp6g33400' => 'spa', 'Sp7g13030' => 'spa', 'TAR365G0317' => 'tar', 'TAR376G0979' => 'tar', 'TAR623G1665' => 'tar', 'TAR633G2373' => 'tar', 'TAR636G1400' => 'tar', 'THA.LOC104800529' => 'tha', 'THA.LOC104808547' => 'tha', 'THA.LOC104809615' => 'tha', 'THA.LOC104815724' => 'tha', 'THA.LOC104818480' => 'tha', 'THA.LOC104819179' => 'tha', 'THA.LOC104822270' => 'tha', 'THA.LOC104826425' => 'tha', 'Thecc.02G089700' => 'tca', 'Thecc.04G232300' => 'tca', 'Thecc.09G283400' => 'tca', 'Thhalv10009020m.g' => 'esa', 'Thhalv10015506m.g' => 'esa', 'Thhalv10017364m.g' => 'esa', 'Thhalv10023742m.g' => 'esa', 'Thhalv10026483m.g' => 'esa', 'TPR.G17232' => 'tpr', 'TPR.G2133' => 'tpr', 'TPR.G2498' => 'tpr', 'TPR.G31942' => 'tpr', 'TPR.G37877' => 'tpr', 'TPR.G4571' => 'tpr', 'TWI14G1113' => 'twi', 'TWI15G0426' => 'twi', 'TWI31G1005' => 'twi', 'TWI38G0513' => 'twi', 'TWI38G1484' => 'twi', 'TWI73G1098' => 'twi', 'unitig_26.g10519' => 'ugi', 'unitig_736.g22395' => 'ugi', 'unitig_747.g21234' => 'ugi', 'unitig_747.g21942' => 'ugi', 'vmacro14351' => 'vma', 'VMungo0540G0082' => 'vmu', 'VMungo0540G0405' => 'vmu', 'VMungo0540G1486' => 'vmu', 'VMungo0540G1692' => 'vmu', 'VMungo0720G2473' => 'vmu', 'VMungo1127G1562' => 'vmu', 'VMungo1215G1918' => 'vmu', 'Zm00001eb052650' => 'zma', 'Zm00001eb063710' => 'zma', 'Zm00001eb083950' => 'zma', 'Zm00001eb174420' => 'zma', 'Zm00001eb260140' => 'zma', 'Zm00001eb260150' => 'zma', 'Zm00001eb260160' => 'zma', 'Zm00001eb348290' => 'zma', 'Zm00001eb366870' => 'zma', 'Zm00001eb421930' => 'zma' ), 'gf_id' => 'HOM05D001025', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001025' ), 'data_identifier' => 'HOM05D001025', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001025', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '592', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p22650' => 'bna', 'A01p29720' => 'bna', 'A03p26560' => 'bna', 'A03p68820' => 'bna', 'A04p20980' => 'bna', 'A06p07730' => 'bna', 'A07p18260' => 'bna', 'A08p33710' => 'bna', 'A09p16970' => 'bna', 'A10p27490' => 'bna', 'Aa31LG1G17300' => 'aar', 'Aa31LG1G3910' => 'aar', 'Aa31LG2G9630' => 'aar', 'Aa31LG5G8360' => 'aar', 'Aa31LG9G2410' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4699' => 'aag', 'Actinidia23512' => 'ach', 'Actinidia37080' => 'ach', 'Ah.01g020380' => 'amhyb', 'Ah.08g215710' => 'amhyb', 'Ah.09g225110' => 'amhyb', 'Ah.10g036680' => 'amhyb', 'AL1G21940' => 'aly', 'AL2G15540' => 'aly', 'AL4G21520' => 'aly', 'AL7G40960' => 'aly', 'Aqoxy2G01191' => 'aox', 'Aqoxy2G03393' => 'aox', 'Aqoxy4G02775' => 'aox', 'Aqoxy6G00058' => 'aox', 'arahy.Tifrunner.gnm1.ann1.9X74H2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CW3FX9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R485W7' => 'arhy', 'AT1G10960' => 'ath', 'AT1G60950' => 'ath', 'AT2G27510' => 'ath', 'AT4G14890' => 'ath', 'AT5G10000' => 'ath', 'ATR0665G624' => 'atr', 'ATR0697G138' => 'atr', 'ATR0776G046' => 'atr', 'ATR1134G135' => 'atr', 'Atru.chr12.1025' => 'acertr', 'Atru.chr3.3241' => 'acertr', 'Atru.chr4.2460' => 'acertr', 'AUR62007427' => 'cqu', 'AUR62010960' => 'cqu', 'AUR62012201' => 'cqu', 'AUR62021470' => 'cqu', 'AUR62022834' => 'cqu', 'AUR62033635' => 'cqu', 'AUR62036186' => 'cqu', 'BcaB01g03077' => 'bca', 'BcaB02g10093' => 'bca', 'BcaB04g20295' => 'bca', 'BcaB06g28147' => 'bca', 'BcaB07g31253' => 'bca', 'BcaC01g04946' => 'bca', 'BcaC02g10614' => 'bca', 'BcaC02g10885' => 'bca', 'BcaC04g19356' => 'bca', 'BcaC04g22297' => 'bca', 'BcaC05g24977' => 'bca', 'BcaC06g31823' => 'bca', 'BcaC07g38633' => 'bca', 'BcaC09g49353' => 'bca', 'BcaC09g50168' => 'bca', 'BcaNung00322' => 'bca', 'BcaNung04769' => 'bca', 'BolC1t02753H' => 'bol', 'BolC1t03721H' => 'bol', 'BolC3t15525H' => 'bol', 'BolC4t23903H' => 'bol', 'BolC4t24231H' => 'bol', 'BolC4t27209H' => 'bol', 'BolC5t29671H' => 'bol', 'BolC8t49044H' => 'bol', 'BolC9t54999H' => 'bol', 'BolC9t59517H' => 'bol', 'BraA01t02178Z' => 'bra', 'BraA01t03099Z' => 'bra', 'BraA03t11867Z' => 'bra', 'BraA04t17667Z' => 'bra', 'BraA07t29542Z' => 'bra', 'BraA08t35287Z' => 'bra', 'BraA09t37334Z' => 'bra', 'BraA10t44801Z' => 'bra', 'BraSC39t46181Z' => 'bra', 'C01p28240' => 'bna', 'C01p37530' => 'bna', 'C03p31820' => 'bna', 'C04p24080' => 'bna', 'C04p25790' => 'bna', 'C04p56770' => 'bna', 'C05p09310' => 'bna', 'C09p21010' => 'bna', 'C09p67560' => 'bna', 'CAN.G1324.7' => 'can', 'CAN.G1358.10' => 'can', 'CAN.G1550.2' => 'can', 'CAN.G186.56' => 'can', 'CAN.G1965.1' => 'can', 'CAN.G645.15' => 'can', 'CAN.G798.26' => 'can', 'CAN.G798.27' => 'can', 'CAN.G798.29' => 'can', 'CAN.G919.31' => 'can', 'CANSAT11G0133' => 'cansat', 'CANSAT11G1171' => 'cansat', 'CANSAT11G2056' => 'cansat', 'CANSAT56G1202' => 'cansat', 'CANSAT56G1514' => 'cansat', 'CANSAT78G0455' => 'cansat', 'CARHR011190' => 'chi', 'CARHR051980' => 'chi', 'CARHR120170' => 'chi', 'CARHR203310' => 'chi', 'CARHR221490' => 'chi', 'Carub.0001s1054' => 'cru', 'Carub.0002s0431' => 'cru', 'Carub.0004s0818' => 'cru', 'Carub.0006s0846' => 'cru', 'Carub.0007s2722' => 'cru', 'Ca_00058_v3' => 'car', 'Ca_17831_v3' => 'car', 'Ca_19408_v3' => 'car', 'Ca_24397_v3' => 'car', 'Ca_25664_v3' => 'car', 'CBR_g21818' => 'cbr', 'CBR_g31195' => 'cbr', 'CBR_g32282' => 'cbr', 'CBR_g39599' => 'cbr', 'CBR_g49410' => 'cbr', 'Cc01_g09120' => 'ccan', 'Cc01_g09130' => 'ccan', 'Cc02_g09630' => 'ccan', 'Cc02_g22810' => 'ccan', 'Cc03_g03810' => 'ccan', 'CDE02G3718' => 'cde', 'CDE04G3183' => 'cde', 'CDE07G1046' => 'cde', 'CDE08G0480' => 'cde', 'Cfa005493' => 'cfa', 'Cfa010312' => 'cfa', 'Cfa015648' => 'cfa', 'Ciclev10002793m.g' => 'ccl', 'Ciclev10003356m.g' => 'ccl', 'Ciclev10006141m.g' => 'ccl', 'Ciclev10016676m.g' => 'ccl', 'Ciclev10017081m.g' => 'ccl', 'Ciclev10029499m.g' => 'ccl', 'CiPaw.01G166300' => 'cil', 'CiPaw.06G145600' => 'cil', 'CiPaw.13G040100' => 'cil', 'CiPaw.13G135800' => 'cil', 'ClCG01G012230' => 'cla', 'ClCG05G009510' => 'cla', 'ClCG08G008270' => 'cla', 'COL.COLO4_11763' => 'col', 'COL.COLO4_19876' => 'col', 'COL.COLO4_21481' => 'col', 'Cpa.g.sc118.34' => 'cpa', 'Cpa.g.sc32.13' => 'cpa', 'Cpa.g.sc58.103' => 'cpa', 'Cre03.g183850' => 'cre', 'Cre06.g306350' => 'cre', 'Cre07.g334800' => 'cre', 'Cre12.g487900' => 'cre', 'Cre14.g626700' => 'cre', 'Cre16.g658400' => 'cre', 'Cre17.g700950' => 'cre', 'CsaV3_1G014830' => 'csa', 'CsaV3_3G013320' => 'csa', 'CsaV3_3G019210' => 'csa', 'CsaV3_3G019220' => 'csa', 'CsaV3_6G004230' => 'csa', 'CSS0003773' => 'camsi', 'CSS0004563' => 'camsi', 'CSS0013949' => 'camsi', 'CSS0025971' => 'camsi', 'CSS0028570' => 'camsi', 'CSS0033127' => 'camsi', 'CSS0036051' => 'camsi', 'CSS0040087' => 'camsi', 'CSS0043179' => 'camsi', 'DCAR_006161' => 'dca', 'DCAR_010351' => 'dca', 'DCAR_012197' => 'dca', 'DCAR_024162' => 'dca', 'Dinv01030' => 'din', 'Dinv10924' => 'din', 'Dinv11835' => 'din', 'Dinv22841' => 'din', 'Dinv42553' => 'din', 'Duzib052G0560' => 'dzi', 'Duzib132G0389' => 'dzi', 'Duzib150G1181' => 'dzi', 'Duzib168G0623' => 'dzi', 'Duzib170G1036' => 'dzi', 'Duzib212G0200' => 'dzi', 'Duzib248G0194' => 'dzi', 'ECA232G2193' => 'eca', 'ECA233G0302' => 'eca', 'ECA234G2813' => 'eca', 'ECA234G4866' => 'eca', 'ECA240G3932' => 'eca', 'ECA248G0385' => 'eca', 'EL10Ac2g04781' => 'bvu', 'EL10Ac3g06445' => 'bvu', 'EL10Ac7g15825' => 'bvu', 'EL10Ac8g18550' => 'bvu', 'Eucgr.B03849' => 'egr', 'Eucgr.I02744' => 'egr', 'Eucgr.J00264' => 'egr', 'Eucgr.J00493' => 'egr', 'FAN04G2181' => 'fan', 'FAN07G2666' => 'fan', 'FAN11G0024' => 'fan', 'FAN12G1105' => 'fan', 'FAN13G0302' => 'fan', 'FAN15G2781' => 'fan', 'FAN16G1274' => 'fan', 'FAN17G2988' => 'fan', 'FAN18G2621' => 'fan', 'FAN21G0013' => 'fan', 'FAN22G1211' => 'fan', 'FAN25G3626' => 'fan', 'FvH4_2g09491' => 'fve', 'FvH4_3g24910' => 'fve', 'FvH4_4g15630' => 'fve', 'FvH4_5g28820' => 'fve', 'Glyma.01G238000' => 'gma', 'Glyma.05G168400' => 'gma', 'Glyma.08G126800' => 'gma', 'Glyma.08G188500' => 'gma', 'Glyma.10G278900' => 'gma', 'Glyma.11G005700' => 'gma', 'Glyma.11G183300' => 'gma', 'Glyma.12G089200' => 'gma', 'Glyma.12G169400' => 'gma', 'Glyma.12G169500' => 'gma', 'Glyma.12G169600' => 'gma', 'Glyma.20G110800' => 'gma', 'Gohir.A03G192900' => 'ghi', 'Gohir.A03G193000' => 'ghi', 'Gohir.A05G080700' => 'ghi', 'Gohir.A09G216000' => 'ghi', 'Gohir.A12G027700' => 'ghi', 'Gohir.A13G036200' => 'ghi', 'Gohir.A13G222600' => 'ghi', 'Gohir.D02G213900' => 'ghi', 'Gohir.D02G214000' => 'ghi', 'Gohir.D05G083700' => 'ghi', 'Gohir.D05G083800' => 'ghi', 'Gohir.D05G083850' => 'ghi', 'Gohir.D08G015400' => 'ghi', 'Gohir.D09G218400' => 'ghi', 'Gohir.D12G027100' => 'ghi', 'Gohir.D13G034500' => 'ghi', 'Gohir.D13G227400' => 'ghi', 'Gorai.005G241800' => 'gra', 'Gorai.005G241900' => 'gra', 'Gorai.006G239400' => 'gra', 'Gorai.008G027600' => 'gra', 'Gorai.009G085400' => 'gra', 'Gorai.009G085500' => 'gra', 'Gorai.013G039000' => 'gra', 'Gorai.013G194800' => 'gra', 'Gorai.013G257900' => 'gra', 'GSVIVG01000982001' => 'vvi', 'GSVIVG01017981001' => 'vvi', 'HanXRQChr01g0024061' => 'han', 'HanXRQChr09g0247831' => 'han', 'HanXRQChr10g0294611' => 'han', 'HanXRQChr10g0294621' => 'han', 'HanXRQChr11g0346821' => 'han', 'HanXRQChr13g0397461' => 'han', 'HanXRQChr16g0513651' => 'han', 'HanXRQChr16g0513701' => 'han', 'Haze_00897' => 'cav', 'Haze_01745' => 'cav', 'Haze_02486' => 'cav', 'Haze_02487' => 'cav', 'Haze_23374' => 'cav', 'Hma1.2p1_0578F.1_g182520' => 'hma', 'Hma1.2p1_0602F.1_g187350' => 'hma', 'Hma1.2p1_0602F.1_g187360' => 'hma', 'Hma1.2p1_0874F.1_g231320' => 'hma', 'Hma1.2p1_1197F.1_g266210' => 'hma', 'Hma1.2p1_1197F.1_g266220' => 'hma', 'Hma1.2p1_2167F.1_g315895' => 'hma', 'Hma1.2p1_2190F.1_g316640' => 'hma', 'Hma1.2p1_3645F.1_g337153' => 'hma', 'HPP92_004907' => 'vpl', 'HPP92_012134' => 'vpl', 'HPP92_025136' => 'vpl', 'HPP92_026087' => 'vpl', 'Hund06782' => 'sun', 'Hund06784' => 'sun', 'Lalb_Chr01g0004861' => 'lal', 'Lalb_Chr02g0140591' => 'lal', 'Lalb_Chr02g0140611' => 'lal', 'Lalb_Chr03g0028101' => 'lal', 'Lalb_Chr07g0185791' => 'lal', 'Lalb_Chr12g0204491' => 'lal', 'Lalb_Chr13g0295671' => 'lal', 'Lalb_Chr19g0136461' => 'lal', 'Lalb_Chr21g0309191' => 'lal', 'Lj1g0028158' => 'lja', 'Lj1P236T38' => 'lonja', 'Lj2C32G2' => 'lonja', 'Lj2P944T8' => 'lonja', 'Lj2P963T15' => 'lonja', 'Lj3g0011788' => 'lja', 'Lj4g0025027' => 'lja', 'Lj5P255T36' => 'lonja', 'Lj6g0018866' => 'lja', 'Lj6P608T31' => 'lonja', 'LjContig00408g0008879' => 'lja', 'Lsat_1_v5_gn_5_105820' => 'lsa', 'Lsat_1_v5_gn_6_38800' => 'lsa', 'Lsat_1_v5_gn_7_67141' => 'lsa', 'Manes.04G003400' => 'mes', 'Manes.07G020000' => 'mes', 'Manes.07G020100' => 'mes', 'Manes.07G020150' => 'mes', 'Manes.10G061500' => 'mes', 'Manes.10G123200' => 'mes', 'Manes.11G161900' => 'mes', 'Manes.15G029300' => 'mes', 'Mapoly0071s0018' => 'mpo', 'Mapoly0082s0023' => 'mpo', 'Mapoly3477s0001' => 'mpo', 'MBI05_g31233_MAGBIO' => 'mbi', 'MBI09_g05946_MAGBIO' => 'mbi', 'MBI09_g05947_MAGBIO' => 'mbi', 'MBI17_g08346_MAGBIO' => 'mbi', 'MCO04G038' => 'mco', 'MCO09G370' => 'mco', 'MCO13G605' => 'mco', 'MD00G1075500' => 'mdo', 'MD03G1144300' => 'mdo', 'MD08G1236800' => 'mdo', 'MD13G1193300' => 'mdo', 'MD15G1428700' => 'mdo', 'Medtr1g112030' => 'mtr', 'Medtr1g112050' => 'mtr', 'Medtr2g006290' => 'mtr', 'Medtr2g086510' => 'mtr', 'Medtr4g053120' => 'mtr', 'Medtr5g006320' => 'mtr', 'Medtr8g088720' => 'mtr', 'MELO3C004712.2' => 'cme', 'MELO3C006533.2' => 'cme', 'MELO3C019438.2' => 'cme', 'MELO3C019440.2' => 'cme', 'MELO3C019441.2' => 'cme', 'MELO3C019895.2' => 'cme', 'Migut.B00811' => 'egut', 'Migut.D02447' => 'egut', 'Migut.F00875' => 'egut', 'Migut.N00186' => 'egut', 'Migut.N01051' => 'egut', 'Migut.N02491' => 'egut', 'Migut.O00784' => 'egut', 'MSTRG.12367' => 'ama', 'MSTRG.18756' => 'ama', 'MSTRG.21042' => 'ama', 'Nitab4.5_0000559g0040' => 'nta', 'Nitab4.5_0000667g0190' => 'nta', 'Nitab4.5_0000755g0160' => 'nta', 'Nitab4.5_0001216g0080' => 'nta', 'Nitab4.5_0004069g0040' => 'nta', 'Nitab4.5_0004129g0010' => 'nta', 'Nitab4.5_0005744g0030' => 'nta', 'Nitab4.5_0006996g0030' => 'nta', 'Nitab4.5_0008971g0040' => 'nta', 'Nitab4.5_0009769g0020' => 'nta', 'Nitab4.5_0009833g0010' => 'nta', 'Nitab4.5_0013140g0020' => 'nta', 'Nn003s41376' => 'nnu', 'Nn1g01857' => 'nnu', 'Nn1g03611' => 'nnu', 'Nn1g06853' => 'nnu', 'Nn3g18360' => 'nnu', 'Nn4g26328' => 'nnu', 'Nn5g27531' => 'nnu', 'Nn6g34899' => 'nnu', 'Nn7g36299' => 'nnu', 'Oeu021485.1' => 'oeu', 'Oeu022433.1' => 'oeu', 'Oeu032111.1' => 'oeu', 'Oeu051608.1' => 'oeu', 'Os01g0860601' => 'osa', 'Os03g0659200' => 'osa', 'Os03g0835900' => 'osa', 'Os04g0412200' => 'osa', 'Os05g0443500' => 'osa', 'Os07g0251500' => 'osa', 'Os08g0104600' => 'osa', 'Peaxi162Scf00003g00047' => 'pax', 'Peaxi162Scf00003g00052' => 'pax', 'Peaxi162Scf00003g00394' => 'pax', 'Peaxi162Scf00091g00621' => 'pax', 'Peaxi162Scf00152g00146' => 'pax', 'Peaxi162Scf00173g00025' => 'pax', 'Peaxi162Scf00195g00102' => 'pax', 'Peaxi162Scf00402g00013' => 'pax', 'Peaxi162Scf00519g00618' => 'pax', 'PGR004G2838' => 'pgr', 'PGR044G2275' => 'pgr', 'PGR102G1377' => 'pgr', 'PGR119G1245' => 'pgr', 'PGR142G4449' => 'pgr', 'PGSC0003DMG400004532' => 'stu', 'PGSC0003DMG400011950' => 'stu', 'PGSC0003DMG400023391' => 'stu', 'PGSC0003DMG400023985' => 'stu', 'PGSC0003DMG400026360' => 'stu', 'PGSC0003DMG400035711' => 'stu', 'PGSC0003DMG400037286' => 'stu', 'PGSC0003DMG402005881' => 'stu', 'Phvul.002G045400' => 'pvu', 'Phvul.006G216600' => 'pvu', 'Phvul.006G216700' => 'pvu', 'Phvul.006G216800' => 'pvu', 'Phvul.007G022500' => 'pvu', 'Phvul.011G094400' => 'pvu', 'Potri.001G470700' => 'ptr', 'Potri.003G015200' => 'ptr', 'Potri.004G202500' => 'ptr', 'Potri.004G218400' => 'ptr', 'Potri.008G020100' => 'ptr', 'Potri.008G153200' => 'ptr', 'Potri.009G163800' => 'ptr', 'Potri.010G087300' => 'ptr', 'Potri.010G239100' => 'ptr', 'Pp3c10_16100' => 'ppa', 'Pp3c10_16880' => 'ppa', 'Pp3c16_6230' => 'ppa', 'Pp3c17_18910' => 'ppa', 'Pp3c3_22119' => 'ppa', 'Pp3c3_22140' => 'ppa', 'Pp3c4_8159' => 'ppa', 'Pp3c4_8171' => 'ppa', 'Pp3c4_8330' => 'ppa', 'PRCOL_00004098' => 'pco', 'Prupe.1G013900' => 'ppe', 'Prupe.1G226300' => 'ppe', 'Prupe.1G573600' => 'ppe', 'Prupe.6G130100' => 'ppe', 'Psat3g090040' => 'psa', 'Psat4g210440' => 'psa', 'Psat6g231040' => 'psa', 'Psat6g231080' => 'psa', 'Psat7g063000' => 'psa', 'Psat7g188000' => 'psa', 'Psat7g188040' => 'psa', 'PSO017G0206' => 'pso', 'PSO170G0501' => 'pso', 'PSO170G6422' => 'pso', 'PSO210G7739' => 'pso', 'PSO339G1808' => 'pso', 'PSO339G6135' => 'pso', 'PSO384G0010' => 'pso', 'PSO384G0964' => 'pso', 'PSO761G0050' => 'pso', 'PSO782G4085' => 'pso', 'QL01p012264' => 'qlo', 'QL02p099491' => 'qlo', 'QL03p033868' => 'qlo', 'QL04p046678' => 'qlo', 'QL06p002448' => 'qlo', 'RcHm_v2.0_Chr4g0416181' => 'rch', 'RcHm_v2.0_Chr5g0044701' => 'rch', 'RcHm_v2.0_Chr6g0265781' => 'rch', 'RcHm_v2.0_Chr7g0221031' => 'rch', 'Rhsim04G0202000' => 'rsi', 'Rhsim11G0127300' => 'rsi', 'Rhsim13G0111800' => 'rsi', 'Sabra01G0165600' => 'sbr', 'Sabra03G0008300' => 'sbr', 'Sabra04G0136900' => 'sbr', 'Sabra08G0013400' => 'sbr', 'Sabra08G0116800' => 'sbr', 'Sabra09G0128000' => 'sbr', 'Sabra10G0055500' => 'sbr', 'Sabra10G0073300' => 'sbr', 'SalBow3G0385' => 'sbo', 'SalBow3G1119' => 'sbo', 'SalBow3G2005' => 'sbo', 'SalBow6G2563' => 'sbo', 'SalBow6G6386' => 'sbo', 'Sc06g0008800' => 'sci', 'Sc07g0004950' => 'sci', 'Sc09g0005340' => 'sci', 'Sc13g0004410' => 'sci', 'Sc21g0007090' => 'sci', 'Sed0009285' => 'sed', 'Sed0017583' => 'sed', 'Sed0019699' => 'sed', 'Sed0023107' => 'sed', 'SEGI_10916' => 'sgi', 'SEGI_16217' => 'sgi', 'SEGI_19466' => 'sgi', 'SEGI_41115' => 'sgi', 'SGA_v2.0_scaffold111G31534' => 'sas', 'SGA_v2.0_scaffold22G09864' => 'sas', 'SGA_v2.0_scaffold338G49219' => 'sas', 'SGA_v2.0_scaffold92G28298' => 'sas', 'SMO119G0064' => 'smo', 'SMO223G0038' => 'smo', 'SMO347G0584' => 'smo', 'SMO351G0010' => 'smo', 'SMO356G0404' => 'smo', 'Solyc01g103920.3' => 'sly', 'Solyc04g009710.2' => 'sly', 'Solyc05g055280.2' => 'sly', 'Solyc10g044520.3' => 'sly', 'Solyc10g075160.1' => 'sly', 'Solyc11g006910.3' => 'sly', 'Solyc11g068430.3' => 'sly', 'Sopen01g046310' => 'spe', 'Sopen03g001200' => 'spe', 'Sopen04g004830' => 'spe', 'Sopen05g033720' => 'spe', 'Sopen06g030740' => 'spe', 'Sopen10g013090' => 'spe', 'Sopen10g027630' => 'spe', 'Sopen10g027640' => 'spe', 'Sopen11g002820' => 'spe', 'Sopen11g027140' => 'spe', 'Sp1g09680' => 'spa', 'Sp2g03630' => 'spa', 'Sp4g10320' => 'spa', 'Sp6g33400' => 'spa', 'Sp7g13030' => 'spa', 'TAR365G0317' => 'tar', 'TAR376G0979' => 'tar', 'TAR623G1665' => 'tar', 'TAR633G2373' => 'tar', 'TAR636G1400' => 'tar', 'THA.LOC104800529' => 'tha', 'THA.LOC104808547' => 'tha', 'THA.LOC104809615' => 'tha', 'THA.LOC104815724' => 'tha', 'THA.LOC104818480' => 'tha', 'THA.LOC104819179' => 'tha', 'THA.LOC104822270' => 'tha', 'THA.LOC104826425' => 'tha', 'Thecc.02G089700' => 'tca', 'Thecc.04G232300' => 'tca', 'Thecc.09G283400' => 'tca', 'Thhalv10009020m.g' => 'esa', 'Thhalv10015506m.g' => 'esa', 'Thhalv10017364m.g' => 'esa', 'Thhalv10023742m.g' => 'esa', 'Thhalv10026483m.g' => 'esa', 'TPR.G17232' => 'tpr', 'TPR.G2133' => 'tpr', 'TPR.G2498' => 'tpr', 'TPR.G31942' => 'tpr', 'TPR.G37877' => 'tpr', 'TPR.G4571' => 'tpr', 'TWI14G1113' => 'twi', 'TWI15G0426' => 'twi', 'TWI31G1005' => 'twi', 'TWI38G0513' => 'twi', 'TWI38G1484' => 'twi', 'TWI73G1098' => 'twi', 'unitig_26.g10519' => 'ugi', 'unitig_736.g22395' => 'ugi', 'unitig_747.g21234' => 'ugi', 'unitig_747.g21942' => 'ugi', 'vmacro14351' => 'vma', 'VMungo0540G0082' => 'vmu', 'VMungo0540G0405' => 'vmu', 'VMungo0540G1486' => 'vmu', 'VMungo0540G1692' => 'vmu', 'VMungo0720G2473' => 'vmu', 'VMungo1127G1562' => 'vmu', 'VMungo1215G1918' => 'vmu', 'Zm00001eb052650' => 'zma', 'Zm00001eb063710' => 'zma', 'Zm00001eb083950' => 'zma', 'Zm00001eb174420' => 'zma', 'Zm00001eb260140' => 'zma', 'Zm00001eb260150' => 'zma', 'Zm00001eb260160' => 'zma', 'Zm00001eb348290' => 'zma', 'Zm00001eb366870' => 'zma', 'Zm00001eb421930' => 'zma' ) $gf_id = 'HOM05D001025' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001025' ) $data_identifier = 'HOM05D001025' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 19, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 2, 'amhyb' => (int) 4, 'aly' => (int) 4, 'aox' => (int) 4, 'arhy' => (int) 3, 'ath' => (int) 5, 'atr' => (int) 4, 'acertr' => (int) 3, 'cqu' => (int) 7, 'bca' => (int) 17, 'bol' => (int) 10, 'bra' => (int) 9, 'can' => (int) 10, 'cansat' => (int) 6, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 5, 'cbr' => (int) 5, 'ccan' => (int) 5, 'cde' => (int) 4, 'cfa' => (int) 3, 'ccl' => (int) 6, 'cil' => (int) 4, 'cla' => (int) 3, 'col' => (int) 3, 'cpa' => (int) 3, 'cre' => (int) 7, 'csa' => (int) 5, 'camsi' => (int) 9, 'dca' => (int) 4, 'din' => (int) 5, 'dzi' => (int) 7, 'eca' => (int) 6, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 12, 'fve' => (int) 4, 'gma' => (int) 12, 'ghi' => (int) 17, 'gra' => (int) 9, 'vvi' => (int) 2, 'han' => (int) 8, 'cav' => (int) 5, 'hma' => (int) 9, 'vpl' => (int) 4, 'sun' => (int) 2, 'lal' => (int) 9, 'lja' => (int) 5, 'lonja' => (int) 6, 'lsa' => (int) 3, 'mes' => (int) 8, 'mpo' => (int) 3, 'mbi' => (int) 4, 'mco' => (int) 3, 'mdo' => (int) 5, 'mtr' => (int) 7, 'cme' => (int) 6, 'egut' => (int) 7, 'ama' => (int) 3, 'nta' => (int) 12, 'nnu' => (int) 9, 'oeu' => (int) 4, 'osa' => (int) 7, 'pax' => (int) 9, 'pgr' => (int) 5, 'stu' => (int) 8, 'pvu' => (int) 6, 'ptr' => (int) 9, 'ppa' => (int) 9, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 7, 'pso' => (int) 10, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 3, 'sbr' => (int) 8, 'sbo' => (int) 5, 'sci' => (int) 5, 'sed' => (int) 4, 'sgi' => (int) 4, 'sas' => (int) 4, 'smo' => (int) 5, 'sly' => (int) 7, 'spe' => (int) 10, 'spa' => (int) 5, 'tar' => (int) 5, 'tha' => (int) 8, 'tca' => (int) 3, 'esa' => (int) 5, 'tpr' => (int) 6, 'twi' => (int) 6, 'ugi' => (int) 4, 'vma' => (int) 1, 'vmu' => (int) 7, 'zma' => (int) 10 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb421930' $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' => 'HOM05D001025', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '592', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p22650' => 'bna', 'A01p29720' => 'bna', 'A03p26560' => 'bna', 'A03p68820' => 'bna', 'A04p20980' => 'bna', 'A06p07730' => 'bna', 'A07p18260' => 'bna', 'A08p33710' => 'bna', 'A09p16970' => 'bna', 'A10p27490' => 'bna', 'Aa31LG1G17300' => 'aar', 'Aa31LG1G3910' => 'aar', 'Aa31LG2G9630' => 'aar', 'Aa31LG5G8360' => 'aar', 'Aa31LG9G2410' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4699' => 'aag', 'Actinidia23512' => 'ach', 'Actinidia37080' => 'ach', 'Ah.01g020380' => 'amhyb', 'Ah.08g215710' => 'amhyb', 'Ah.09g225110' => 'amhyb', 'Ah.10g036680' => 'amhyb', 'AL1G21940' => 'aly', 'AL2G15540' => 'aly', 'AL4G21520' => 'aly', 'AL7G40960' => 'aly', 'Aqoxy2G01191' => 'aox', 'Aqoxy2G03393' => 'aox', 'Aqoxy4G02775' => 'aox', 'Aqoxy6G00058' => 'aox', 'arahy.Tifrunner.gnm1.ann1.9X74H2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CW3FX9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R485W7' => 'arhy', 'AT1G10960' => 'ath', 'AT1G60950' => 'ath', 'AT2G27510' => 'ath', 'AT4G14890' => 'ath', 'AT5G10000' => 'ath', 'ATR0665G624' => 'atr', 'ATR0697G138' => 'atr', 'ATR0776G046' => 'atr', 'ATR1134G135' => 'atr', 'Atru.chr12.1025' => 'acertr', 'Atru.chr3.3241' => 'acertr', 'Atru.chr4.2460' => 'acertr', 'AUR62007427' => 'cqu', 'AUR62010960' => 'cqu', 'AUR62012201' => 'cqu', 'AUR62021470' => 'cqu', 'AUR62022834' => 'cqu', 'AUR62033635' => 'cqu', 'AUR62036186' => 'cqu', 'BcaB01g03077' => 'bca', 'BcaB02g10093' => 'bca', 'BcaB04g20295' => 'bca', 'BcaB06g28147' => 'bca', 'BcaB07g31253' => 'bca', 'BcaC01g04946' => 'bca', 'BcaC02g10614' => 'bca', 'BcaC02g10885' => 'bca', 'BcaC04g19356' => 'bca', 'BcaC04g22297' => 'bca', 'BcaC05g24977' => 'bca', 'BcaC06g31823' => 'bca', 'BcaC07g38633' => 'bca', 'BcaC09g49353' => 'bca', 'BcaC09g50168' => 'bca', 'BcaNung00322' => 'bca', 'BcaNung04769' => 'bca', 'BolC1t02753H' => 'bol', 'BolC1t03721H' => 'bol', 'BolC3t15525H' => 'bol', 'BolC4t23903H' => 'bol', 'BolC4t24231H' => 'bol', 'BolC4t27209H' => 'bol', 'BolC5t29671H' => 'bol', 'BolC8t49044H' => 'bol', 'BolC9t54999H' => 'bol', 'BolC9t59517H' => 'bol', 'BraA01t02178Z' => 'bra', 'BraA01t03099Z' => 'bra', 'BraA03t11867Z' => 'bra', 'BraA04t17667Z' => 'bra', 'BraA07t29542Z' => 'bra', 'BraA08t35287Z' => 'bra', 'BraA09t37334Z' => 'bra', 'BraA10t44801Z' => 'bra', 'BraSC39t46181Z' => 'bra', 'C01p28240' => 'bna', 'C01p37530' => 'bna', 'C03p31820' => 'bna', 'C04p24080' => 'bna', 'C04p25790' => 'bna', 'C04p56770' => 'bna', 'C05p09310' => 'bna', 'C09p21010' => 'bna', 'C09p67560' => 'bna', 'CAN.G1324.7' => 'can', 'CAN.G1358.10' => 'can', 'CAN.G1550.2' => 'can', 'CAN.G186.56' => 'can', 'CAN.G1965.1' => 'can', 'CAN.G645.15' => 'can', 'CAN.G798.26' => 'can', 'CAN.G798.27' => 'can', 'CAN.G798.29' => 'can', 'CAN.G919.31' => 'can', 'CANSAT11G0133' => 'cansat', 'CANSAT11G1171' => 'cansat', 'CANSAT11G2056' => 'cansat', 'CANSAT56G1202' => 'cansat', 'CANSAT56G1514' => 'cansat', 'CANSAT78G0455' => 'cansat', 'CARHR011190' => 'chi', 'CARHR051980' => 'chi', 'CARHR120170' => 'chi', 'CARHR203310' => 'chi', 'CARHR221490' => 'chi', 'Carub.0001s1054' => 'cru', 'Carub.0002s0431' => 'cru', 'Carub.0004s0818' => 'cru', 'Carub.0006s0846' => 'cru', 'Carub.0007s2722' => 'cru', 'Ca_00058_v3' => 'car', 'Ca_17831_v3' => 'car', 'Ca_19408_v3' => 'car', 'Ca_24397_v3' => 'car', 'Ca_25664_v3' => 'car', 'CBR_g21818' => 'cbr', 'CBR_g31195' => 'cbr', 'CBR_g32282' => 'cbr', 'CBR_g39599' => 'cbr', 'CBR_g49410' => 'cbr', 'Cc01_g09120' => 'ccan', 'Cc01_g09130' => 'ccan', 'Cc02_g09630' => 'ccan', 'Cc02_g22810' => 'ccan', 'Cc03_g03810' => 'ccan', 'CDE02G3718' => 'cde', 'CDE04G3183' => 'cde', 'CDE07G1046' => 'cde', 'CDE08G0480' => 'cde', 'Cfa005493' => 'cfa', 'Cfa010312' => 'cfa', 'Cfa015648' => 'cfa', 'Ciclev10002793m.g' => 'ccl', 'Ciclev10003356m.g' => 'ccl', 'Ciclev10006141m.g' => 'ccl', 'Ciclev10016676m.g' => 'ccl', 'Ciclev10017081m.g' => 'ccl', 'Ciclev10029499m.g' => 'ccl', 'CiPaw.01G166300' => 'cil', 'CiPaw.06G145600' => 'cil', 'CiPaw.13G040100' => 'cil', 'CiPaw.13G135800' => 'cil', 'ClCG01G012230' => 'cla', 'ClCG05G009510' => 'cla', 'ClCG08G008270' => 'cla', 'COL.COLO4_11763' => 'col', 'COL.COLO4_19876' => 'col', 'COL.COLO4_21481' => 'col', 'Cpa.g.sc118.34' => 'cpa', 'Cpa.g.sc32.13' => 'cpa', 'Cpa.g.sc58.103' => 'cpa', 'Cre03.g183850' => 'cre', 'Cre06.g306350' => 'cre', 'Cre07.g334800' => 'cre', 'Cre12.g487900' => 'cre', 'Cre14.g626700' => 'cre', 'Cre16.g658400' => 'cre', 'Cre17.g700950' => 'cre', 'CsaV3_1G014830' => 'csa', 'CsaV3_3G013320' => 'csa', 'CsaV3_3G019210' => 'csa', 'CsaV3_3G019220' => 'csa', 'CsaV3_6G004230' => 'csa', 'CSS0003773' => 'camsi', 'CSS0004563' => 'camsi', 'CSS0013949' => 'camsi', 'CSS0025971' => 'camsi', 'CSS0028570' => 'camsi', 'CSS0033127' => 'camsi', 'CSS0036051' => 'camsi', 'CSS0040087' => 'camsi', 'CSS0043179' => 'camsi', 'DCAR_006161' => 'dca', 'DCAR_010351' => 'dca', 'DCAR_012197' => 'dca', 'DCAR_024162' => 'dca', 'Dinv01030' => 'din', 'Dinv10924' => 'din', 'Dinv11835' => 'din', 'Dinv22841' => 'din', 'Dinv42553' => 'din', 'Duzib052G0560' => 'dzi', 'Duzib132G0389' => 'dzi', 'Duzib150G1181' => 'dzi', 'Duzib168G0623' => 'dzi', 'Duzib170G1036' => 'dzi', 'Duzib212G0200' => 'dzi', 'Duzib248G0194' => 'dzi', 'ECA232G2193' => 'eca', 'ECA233G0302' => 'eca', 'ECA234G2813' => 'eca', 'ECA234G4866' => 'eca', 'ECA240G3932' => 'eca', 'ECA248G0385' => 'eca', 'EL10Ac2g04781' => 'bvu', 'EL10Ac3g06445' => 'bvu', 'EL10Ac7g15825' => 'bvu', 'EL10Ac8g18550' => 'bvu', 'Eucgr.B03849' => 'egr', 'Eucgr.I02744' => 'egr', 'Eucgr.J00264' => 'egr', 'Eucgr.J00493' => 'egr', 'FAN04G2181' => 'fan', 'FAN07G2666' => 'fan', 'FAN11G0024' => 'fan', 'FAN12G1105' => 'fan', 'FAN13G0302' => 'fan', 'FAN15G2781' => 'fan', 'FAN16G1274' => 'fan', 'FAN17G2988' => 'fan', 'FAN18G2621' => 'fan', 'FAN21G0013' => 'fan', 'FAN22G1211' => 'fan', 'FAN25G3626' => 'fan', 'FvH4_2g09491' => 'fve', 'FvH4_3g24910' => 'fve', 'FvH4_4g15630' => 'fve', 'FvH4_5g28820' => 'fve', 'Glyma.01G238000' => 'gma', 'Glyma.05G168400' => 'gma', 'Glyma.08G126800' => 'gma', 'Glyma.08G188500' => 'gma', 'Glyma.10G278900' => 'gma', 'Glyma.11G005700' => 'gma', 'Glyma.11G183300' => 'gma', 'Glyma.12G089200' => 'gma', 'Glyma.12G169400' => 'gma', 'Glyma.12G169500' => 'gma', 'Glyma.12G169600' => 'gma', 'Glyma.20G110800' => 'gma', 'Gohir.A03G192900' => 'ghi', 'Gohir.A03G193000' => 'ghi', 'Gohir.A05G080700' => 'ghi', 'Gohir.A09G216000' => 'ghi', 'Gohir.A12G027700' => 'ghi', 'Gohir.A13G036200' => 'ghi', 'Gohir.A13G222600' => 'ghi', 'Gohir.D02G213900' => 'ghi', 'Gohir.D02G214000' => 'ghi', 'Gohir.D05G083700' => 'ghi', 'Gohir.D05G083800' => 'ghi', 'Gohir.D05G083850' => 'ghi', 'Gohir.D08G015400' => 'ghi', 'Gohir.D09G218400' => 'ghi', 'Gohir.D12G027100' => 'ghi', 'Gohir.D13G034500' => 'ghi', 'Gohir.D13G227400' => 'ghi', 'Gorai.005G241800' => 'gra', 'Gorai.005G241900' => 'gra', 'Gorai.006G239400' => 'gra', 'Gorai.008G027600' => 'gra', 'Gorai.009G085400' => 'gra', 'Gorai.009G085500' => 'gra', 'Gorai.013G039000' => 'gra', 'Gorai.013G194800' => 'gra', 'Gorai.013G257900' => 'gra', 'GSVIVG01000982001' => 'vvi', 'GSVIVG01017981001' => 'vvi', 'HanXRQChr01g0024061' => 'han', 'HanXRQChr09g0247831' => 'han', 'HanXRQChr10g0294611' => 'han', 'HanXRQChr10g0294621' => 'han', 'HanXRQChr11g0346821' => 'han', 'HanXRQChr13g0397461' => 'han', 'HanXRQChr16g0513651' => 'han', 'HanXRQChr16g0513701' => 'han', 'Haze_00897' => 'cav', 'Haze_01745' => 'cav', 'Haze_02486' => 'cav', 'Haze_02487' => 'cav', 'Haze_23374' => 'cav', 'Hma1.2p1_0578F.1_g182520' => 'hma', 'Hma1.2p1_0602F.1_g187350' => 'hma', 'Hma1.2p1_0602F.1_g187360' => 'hma', 'Hma1.2p1_0874F.1_g231320' => 'hma', 'Hma1.2p1_1197F.1_g266210' => 'hma', 'Hma1.2p1_1197F.1_g266220' => 'hma', 'Hma1.2p1_2167F.1_g315895' => 'hma', 'Hma1.2p1_2190F.1_g316640' => 'hma', 'Hma1.2p1_3645F.1_g337153' => 'hma', 'HPP92_004907' => 'vpl', 'HPP92_012134' => 'vpl', 'HPP92_025136' => 'vpl', 'HPP92_026087' => 'vpl', 'Hund06782' => 'sun', 'Hund06784' => 'sun', 'Lalb_Chr01g0004861' => 'lal', 'Lalb_Chr02g0140591' => 'lal', 'Lalb_Chr02g0140611' => 'lal', 'Lalb_Chr03g0028101' => 'lal', 'Lalb_Chr07g0185791' => 'lal', 'Lalb_Chr12g0204491' => 'lal', 'Lalb_Chr13g0295671' => 'lal', 'Lalb_Chr19g0136461' => 'lal', 'Lalb_Chr21g0309191' => 'lal', 'Lj1g0028158' => 'lja', 'Lj1P236T38' => 'lonja', 'Lj2C32G2' => 'lonja', 'Lj2P944T8' => 'lonja', 'Lj2P963T15' => 'lonja', 'Lj3g0011788' => 'lja', 'Lj4g0025027' => 'lja', 'Lj5P255T36' => 'lonja', 'Lj6g0018866' => 'lja', 'Lj6P608T31' => 'lonja', 'LjContig00408g0008879' => 'lja', 'Lsat_1_v5_gn_5_105820' => 'lsa', 'Lsat_1_v5_gn_6_38800' => 'lsa', 'Lsat_1_v5_gn_7_67141' => 'lsa', 'Manes.04G003400' => 'mes', 'Manes.07G020000' => 'mes', 'Manes.07G020100' => 'mes', 'Manes.07G020150' => 'mes', 'Manes.10G061500' => 'mes', 'Manes.10G123200' => 'mes', 'Manes.11G161900' => 'mes', 'Manes.15G029300' => 'mes', 'Mapoly0071s0018' => 'mpo', 'Mapoly0082s0023' => 'mpo', 'Mapoly3477s0001' => 'mpo', 'MBI05_g31233_MAGBIO' => 'mbi', 'MBI09_g05946_MAGBIO' => 'mbi', 'MBI09_g05947_MAGBIO' => 'mbi', 'MBI17_g08346_MAGBIO' => 'mbi', 'MCO04G038' => 'mco', 'MCO09G370' => 'mco', 'MCO13G605' => 'mco', 'MD00G1075500' => 'mdo', 'MD03G1144300' => 'mdo', 'MD08G1236800' => 'mdo', 'MD13G1193300' => 'mdo', 'MD15G1428700' => 'mdo', 'Medtr1g112030' => 'mtr', 'Medtr1g112050' => 'mtr', 'Medtr2g006290' => 'mtr', 'Medtr2g086510' => 'mtr', 'Medtr4g053120' => 'mtr', 'Medtr5g006320' => 'mtr', 'Medtr8g088720' => 'mtr', 'MELO3C004712.2' => 'cme', 'MELO3C006533.2' => 'cme', 'MELO3C019438.2' => 'cme', 'MELO3C019440.2' => 'cme', 'MELO3C019441.2' => 'cme', 'MELO3C019895.2' => 'cme', 'Migut.B00811' => 'egut', 'Migut.D02447' => 'egut', 'Migut.F00875' => 'egut', 'Migut.N00186' => 'egut', 'Migut.N01051' => 'egut', 'Migut.N02491' => 'egut', 'Migut.O00784' => 'egut', 'MSTRG.12367' => 'ama', 'MSTRG.18756' => 'ama', 'MSTRG.21042' => 'ama', 'Nitab4.5_0000559g0040' => 'nta', 'Nitab4.5_0000667g0190' => 'nta', 'Nitab4.5_0000755g0160' => 'nta', 'Nitab4.5_0001216g0080' => 'nta', 'Nitab4.5_0004069g0040' => 'nta', 'Nitab4.5_0004129g0010' => 'nta', 'Nitab4.5_0005744g0030' => 'nta', 'Nitab4.5_0006996g0030' => 'nta', 'Nitab4.5_0008971g0040' => 'nta', 'Nitab4.5_0009769g0020' => 'nta', 'Nitab4.5_0009833g0010' => 'nta', 'Nitab4.5_0013140g0020' => 'nta', 'Nn003s41376' => 'nnu', 'Nn1g01857' => 'nnu', 'Nn1g03611' => 'nnu', 'Nn1g06853' => 'nnu', 'Nn3g18360' => 'nnu', 'Nn4g26328' => 'nnu', 'Nn5g27531' => 'nnu', 'Nn6g34899' => 'nnu', 'Nn7g36299' => 'nnu', 'Oeu021485.1' => 'oeu', 'Oeu022433.1' => 'oeu', 'Oeu032111.1' => 'oeu', 'Oeu051608.1' => 'oeu', 'Os01g0860601' => 'osa', 'Os03g0659200' => 'osa', 'Os03g0835900' => 'osa', 'Os04g0412200' => 'osa', 'Os05g0443500' => 'osa', 'Os07g0251500' => 'osa', 'Os08g0104600' => 'osa', 'Peaxi162Scf00003g00047' => 'pax', 'Peaxi162Scf00003g00052' => 'pax', 'Peaxi162Scf00003g00394' => 'pax', 'Peaxi162Scf00091g00621' => 'pax', 'Peaxi162Scf00152g00146' => 'pax', 'Peaxi162Scf00173g00025' => 'pax', 'Peaxi162Scf00195g00102' => 'pax', 'Peaxi162Scf00402g00013' => 'pax', 'Peaxi162Scf00519g00618' => 'pax', 'PGR004G2838' => 'pgr', 'PGR044G2275' => 'pgr', 'PGR102G1377' => 'pgr', 'PGR119G1245' => 'pgr', 'PGR142G4449' => 'pgr', 'PGSC0003DMG400004532' => 'stu', 'PGSC0003DMG400011950' => 'stu', 'PGSC0003DMG400023391' => 'stu', 'PGSC0003DMG400023985' => 'stu', 'PGSC0003DMG400026360' => 'stu', 'PGSC0003DMG400035711' => 'stu', 'PGSC0003DMG400037286' => 'stu', 'PGSC0003DMG402005881' => 'stu', 'Phvul.002G045400' => 'pvu', 'Phvul.006G216600' => 'pvu', 'Phvul.006G216700' => 'pvu', 'Phvul.006G216800' => 'pvu', 'Phvul.007G022500' => 'pvu', 'Phvul.011G094400' => 'pvu', 'Potri.001G470700' => 'ptr', 'Potri.003G015200' => 'ptr', 'Potri.004G202500' => 'ptr', 'Potri.004G218400' => 'ptr', 'Potri.008G020100' => 'ptr', 'Potri.008G153200' => 'ptr', 'Potri.009G163800' => 'ptr', 'Potri.010G087300' => 'ptr', 'Potri.010G239100' => 'ptr', 'Pp3c10_16100' => 'ppa', 'Pp3c10_16880' => 'ppa', 'Pp3c16_6230' => 'ppa', 'Pp3c17_18910' => 'ppa', 'Pp3c3_22119' => 'ppa', 'Pp3c3_22140' => 'ppa', 'Pp3c4_8159' => 'ppa', 'Pp3c4_8171' => 'ppa', 'Pp3c4_8330' => 'ppa', 'PRCOL_00004098' => 'pco', 'Prupe.1G013900' => 'ppe', 'Prupe.1G226300' => 'ppe', 'Prupe.1G573600' => 'ppe', 'Prupe.6G130100' => 'ppe', 'Psat3g090040' => 'psa', 'Psat4g210440' => 'psa', 'Psat6g231040' => 'psa', 'Psat6g231080' => 'psa', 'Psat7g063000' => 'psa', 'Psat7g188000' => 'psa', 'Psat7g188040' => 'psa', 'PSO017G0206' => 'pso', 'PSO170G0501' => 'pso', 'PSO170G6422' => 'pso', 'PSO210G7739' => 'pso', 'PSO339G1808' => 'pso', 'PSO339G6135' => 'pso', 'PSO384G0010' => 'pso', 'PSO384G0964' => 'pso', 'PSO761G0050' => 'pso', 'PSO782G4085' => 'pso', 'QL01p012264' => 'qlo', 'QL02p099491' => 'qlo', 'QL03p033868' => 'qlo', 'QL04p046678' => 'qlo', 'QL06p002448' => 'qlo', 'RcHm_v2.0_Chr4g0416181' => 'rch', 'RcHm_v2.0_Chr5g0044701' => 'rch', 'RcHm_v2.0_Chr6g0265781' => 'rch', 'RcHm_v2.0_Chr7g0221031' => 'rch', 'Rhsim04G0202000' => 'rsi', 'Rhsim11G0127300' => 'rsi', 'Rhsim13G0111800' => 'rsi', 'Sabra01G0165600' => 'sbr', 'Sabra03G0008300' => 'sbr', 'Sabra04G0136900' => 'sbr', 'Sabra08G0013400' => 'sbr', 'Sabra08G0116800' => 'sbr', 'Sabra09G0128000' => 'sbr', 'Sabra10G0055500' => 'sbr', 'Sabra10G0073300' => 'sbr', 'SalBow3G0385' => 'sbo', 'SalBow3G1119' => 'sbo', 'SalBow3G2005' => 'sbo', 'SalBow6G2563' => 'sbo', 'SalBow6G6386' => 'sbo', 'Sc06g0008800' => 'sci', 'Sc07g0004950' => 'sci', 'Sc09g0005340' => 'sci', 'Sc13g0004410' => 'sci', 'Sc21g0007090' => 'sci', 'Sed0009285' => 'sed', 'Sed0017583' => 'sed', 'Sed0019699' => 'sed', 'Sed0023107' => 'sed', 'SEGI_10916' => 'sgi', 'SEGI_16217' => 'sgi', 'SEGI_19466' => 'sgi', 'SEGI_41115' => 'sgi', 'SGA_v2.0_scaffold111G31534' => 'sas', 'SGA_v2.0_scaffold22G09864' => 'sas', 'SGA_v2.0_scaffold338G49219' => 'sas', 'SGA_v2.0_scaffold92G28298' => 'sas', 'SMO119G0064' => 'smo', 'SMO223G0038' => 'smo', 'SMO347G0584' => 'smo', 'SMO351G0010' => 'smo', 'SMO356G0404' => 'smo', 'Solyc01g103920.3' => 'sly', 'Solyc04g009710.2' => 'sly', 'Solyc05g055280.2' => 'sly', 'Solyc10g044520.3' => 'sly', 'Solyc10g075160.1' => 'sly', 'Solyc11g006910.3' => 'sly', 'Solyc11g068430.3' => 'sly', 'Sopen01g046310' => 'spe', 'Sopen03g001200' => 'spe', 'Sopen04g004830' => 'spe', 'Sopen05g033720' => 'spe', 'Sopen06g030740' => 'spe', 'Sopen10g013090' => 'spe', 'Sopen10g027630' => 'spe', 'Sopen10g027640' => 'spe', 'Sopen11g002820' => 'spe', 'Sopen11g027140' => 'spe', 'Sp1g09680' => 'spa', 'Sp2g03630' => 'spa', 'Sp4g10320' => 'spa', 'Sp6g33400' => 'spa', 'Sp7g13030' => 'spa', 'TAR365G0317' => 'tar', 'TAR376G0979' => 'tar', 'TAR623G1665' => 'tar', 'TAR633G2373' => 'tar', 'TAR636G1400' => 'tar', 'THA.LOC104800529' => 'tha', 'THA.LOC104808547' => 'tha', 'THA.LOC104809615' => 'tha', 'THA.LOC104815724' => 'tha', 'THA.LOC104818480' => 'tha', 'THA.LOC104819179' => 'tha', 'THA.LOC104822270' => 'tha', 'THA.LOC104826425' => 'tha', 'Thecc.02G089700' => 'tca', 'Thecc.04G232300' => 'tca', 'Thecc.09G283400' => 'tca', 'Thhalv10009020m.g' => 'esa', 'Thhalv10015506m.g' => 'esa', 'Thhalv10017364m.g' => 'esa', 'Thhalv10023742m.g' => 'esa', 'Thhalv10026483m.g' => 'esa', 'TPR.G17232' => 'tpr', 'TPR.G2133' => 'tpr', 'TPR.G2498' => 'tpr', 'TPR.G31942' => 'tpr', 'TPR.G37877' => 'tpr', 'TPR.G4571' => 'tpr', 'TWI14G1113' => 'twi', 'TWI15G0426' => 'twi', 'TWI31G1005' => 'twi', 'TWI38G0513' => 'twi', 'TWI38G1484' => 'twi', 'TWI73G1098' => 'twi', 'unitig_26.g10519' => 'ugi', 'unitig_736.g22395' => 'ugi', 'unitig_747.g21234' => 'ugi', 'unitig_747.g21942' => 'ugi', 'vmacro14351' => 'vma', 'VMungo0540G0082' => 'vmu', 'VMungo0540G0405' => 'vmu', 'VMungo0540G1486' => 'vmu', 'VMungo0540G1692' => 'vmu', 'VMungo0720G2473' => 'vmu', 'VMungo1127G1562' => 'vmu', 'VMungo1215G1918' => 'vmu', 'Zm00001eb052650' => 'zma', 'Zm00001eb063710' => 'zma', 'Zm00001eb083950' => 'zma', 'Zm00001eb174420' => 'zma', 'Zm00001eb260140' => 'zma', 'Zm00001eb260150' => 'zma', 'Zm00001eb260160' => 'zma', 'Zm00001eb348290' => 'zma', 'Zm00001eb366870' => 'zma', 'Zm00001eb421930' => 'zma' ), 'gf_id' => 'HOM05D001025', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001025' ), 'data_identifier' => 'HOM05D001025', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001025', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '592', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p22650' => 'bna', 'A01p29720' => 'bna', 'A03p26560' => 'bna', 'A03p68820' => 'bna', 'A04p20980' => 'bna', 'A06p07730' => 'bna', 'A07p18260' => 'bna', 'A08p33710' => 'bna', 'A09p16970' => 'bna', 'A10p27490' => 'bna', 'Aa31LG1G17300' => 'aar', 'Aa31LG1G3910' => 'aar', 'Aa31LG2G9630' => 'aar', 'Aa31LG5G8360' => 'aar', 'Aa31LG9G2410' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4699' => 'aag', 'Actinidia23512' => 'ach', 'Actinidia37080' => 'ach', 'Ah.01g020380' => 'amhyb', 'Ah.08g215710' => 'amhyb', 'Ah.09g225110' => 'amhyb', 'Ah.10g036680' => 'amhyb', 'AL1G21940' => 'aly', 'AL2G15540' => 'aly', 'AL4G21520' => 'aly', 'AL7G40960' => 'aly', 'Aqoxy2G01191' => 'aox', 'Aqoxy2G03393' => 'aox', 'Aqoxy4G02775' => 'aox', 'Aqoxy6G00058' => 'aox', 'arahy.Tifrunner.gnm1.ann1.9X74H2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CW3FX9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R485W7' => 'arhy', 'AT1G10960' => 'ath', 'AT1G60950' => 'ath', 'AT2G27510' => 'ath', 'AT4G14890' => 'ath', 'AT5G10000' => 'ath', 'ATR0665G624' => 'atr', 'ATR0697G138' => 'atr', 'ATR0776G046' => 'atr', 'ATR1134G135' => 'atr', 'Atru.chr12.1025' => 'acertr', 'Atru.chr3.3241' => 'acertr', 'Atru.chr4.2460' => 'acertr', 'AUR62007427' => 'cqu', 'AUR62010960' => 'cqu', 'AUR62012201' => 'cqu', 'AUR62021470' => 'cqu', 'AUR62022834' => 'cqu', 'AUR62033635' => 'cqu', 'AUR62036186' => 'cqu', 'BcaB01g03077' => 'bca', 'BcaB02g10093' => 'bca', 'BcaB04g20295' => 'bca', 'BcaB06g28147' => 'bca', 'BcaB07g31253' => 'bca', 'BcaC01g04946' => 'bca', 'BcaC02g10614' => 'bca', 'BcaC02g10885' => 'bca', 'BcaC04g19356' => 'bca', 'BcaC04g22297' => 'bca', 'BcaC05g24977' => 'bca', 'BcaC06g31823' => 'bca', 'BcaC07g38633' => 'bca', 'BcaC09g49353' => 'bca', 'BcaC09g50168' => 'bca', 'BcaNung00322' => 'bca', 'BcaNung04769' => 'bca', 'BolC1t02753H' => 'bol', 'BolC1t03721H' => 'bol', 'BolC3t15525H' => 'bol', 'BolC4t23903H' => 'bol', 'BolC4t24231H' => 'bol', 'BolC4t27209H' => 'bol', 'BolC5t29671H' => 'bol', 'BolC8t49044H' => 'bol', 'BolC9t54999H' => 'bol', 'BolC9t59517H' => 'bol', 'BraA01t02178Z' => 'bra', 'BraA01t03099Z' => 'bra', 'BraA03t11867Z' => 'bra', 'BraA04t17667Z' => 'bra', 'BraA07t29542Z' => 'bra', 'BraA08t35287Z' => 'bra', 'BraA09t37334Z' => 'bra', 'BraA10t44801Z' => 'bra', 'BraSC39t46181Z' => 'bra', 'C01p28240' => 'bna', 'C01p37530' => 'bna', 'C03p31820' => 'bna', 'C04p24080' => 'bna', 'C04p25790' => 'bna', 'C04p56770' => 'bna', 'C05p09310' => 'bna', 'C09p21010' => 'bna', 'C09p67560' => 'bna', 'CAN.G1324.7' => 'can', 'CAN.G1358.10' => 'can', 'CAN.G1550.2' => 'can', 'CAN.G186.56' => 'can', 'CAN.G1965.1' => 'can', 'CAN.G645.15' => 'can', 'CAN.G798.26' => 'can', 'CAN.G798.27' => 'can', 'CAN.G798.29' => 'can', 'CAN.G919.31' => 'can', 'CANSAT11G0133' => 'cansat', 'CANSAT11G1171' => 'cansat', 'CANSAT11G2056' => 'cansat', 'CANSAT56G1202' => 'cansat', 'CANSAT56G1514' => 'cansat', 'CANSAT78G0455' => 'cansat', 'CARHR011190' => 'chi', 'CARHR051980' => 'chi', 'CARHR120170' => 'chi', 'CARHR203310' => 'chi', 'CARHR221490' => 'chi', 'Carub.0001s1054' => 'cru', 'Carub.0002s0431' => 'cru', 'Carub.0004s0818' => 'cru', 'Carub.0006s0846' => 'cru', 'Carub.0007s2722' => 'cru', 'Ca_00058_v3' => 'car', 'Ca_17831_v3' => 'car', 'Ca_19408_v3' => 'car', 'Ca_24397_v3' => 'car', 'Ca_25664_v3' => 'car', 'CBR_g21818' => 'cbr', 'CBR_g31195' => 'cbr', 'CBR_g32282' => 'cbr', 'CBR_g39599' => 'cbr', 'CBR_g49410' => 'cbr', 'Cc01_g09120' => 'ccan', 'Cc01_g09130' => 'ccan', 'Cc02_g09630' => 'ccan', 'Cc02_g22810' => 'ccan', 'Cc03_g03810' => 'ccan', 'CDE02G3718' => 'cde', 'CDE04G3183' => 'cde', 'CDE07G1046' => 'cde', 'CDE08G0480' => 'cde', 'Cfa005493' => 'cfa', 'Cfa010312' => 'cfa', 'Cfa015648' => 'cfa', 'Ciclev10002793m.g' => 'ccl', 'Ciclev10003356m.g' => 'ccl', 'Ciclev10006141m.g' => 'ccl', 'Ciclev10016676m.g' => 'ccl', 'Ciclev10017081m.g' => 'ccl', 'Ciclev10029499m.g' => 'ccl', 'CiPaw.01G166300' => 'cil', 'CiPaw.06G145600' => 'cil', 'CiPaw.13G040100' => 'cil', 'CiPaw.13G135800' => 'cil', 'ClCG01G012230' => 'cla', 'ClCG05G009510' => 'cla', 'ClCG08G008270' => 'cla', 'COL.COLO4_11763' => 'col', 'COL.COLO4_19876' => 'col', 'COL.COLO4_21481' => 'col', 'Cpa.g.sc118.34' => 'cpa', 'Cpa.g.sc32.13' => 'cpa', 'Cpa.g.sc58.103' => 'cpa', 'Cre03.g183850' => 'cre', 'Cre06.g306350' => 'cre', 'Cre07.g334800' => 'cre', 'Cre12.g487900' => 'cre', 'Cre14.g626700' => 'cre', 'Cre16.g658400' => 'cre', 'Cre17.g700950' => 'cre', 'CsaV3_1G014830' => 'csa', 'CsaV3_3G013320' => 'csa', 'CsaV3_3G019210' => 'csa', 'CsaV3_3G019220' => 'csa', 'CsaV3_6G004230' => 'csa', 'CSS0003773' => 'camsi', 'CSS0004563' => 'camsi', 'CSS0013949' => 'camsi', 'CSS0025971' => 'camsi', 'CSS0028570' => 'camsi', 'CSS0033127' => 'camsi', 'CSS0036051' => 'camsi', 'CSS0040087' => 'camsi', 'CSS0043179' => 'camsi', 'DCAR_006161' => 'dca', 'DCAR_010351' => 'dca', 'DCAR_012197' => 'dca', 'DCAR_024162' => 'dca', 'Dinv01030' => 'din', 'Dinv10924' => 'din', 'Dinv11835' => 'din', 'Dinv22841' => 'din', 'Dinv42553' => 'din', 'Duzib052G0560' => 'dzi', 'Duzib132G0389' => 'dzi', 'Duzib150G1181' => 'dzi', 'Duzib168G0623' => 'dzi', 'Duzib170G1036' => 'dzi', 'Duzib212G0200' => 'dzi', 'Duzib248G0194' => 'dzi', 'ECA232G2193' => 'eca', 'ECA233G0302' => 'eca', 'ECA234G2813' => 'eca', 'ECA234G4866' => 'eca', 'ECA240G3932' => 'eca', 'ECA248G0385' => 'eca', 'EL10Ac2g04781' => 'bvu', 'EL10Ac3g06445' => 'bvu', 'EL10Ac7g15825' => 'bvu', 'EL10Ac8g18550' => 'bvu', 'Eucgr.B03849' => 'egr', 'Eucgr.I02744' => 'egr', 'Eucgr.J00264' => 'egr', 'Eucgr.J00493' => 'egr', 'FAN04G2181' => 'fan', 'FAN07G2666' => 'fan', 'FAN11G0024' => 'fan', 'FAN12G1105' => 'fan', 'FAN13G0302' => 'fan', 'FAN15G2781' => 'fan', 'FAN16G1274' => 'fan', 'FAN17G2988' => 'fan', 'FAN18G2621' => 'fan', 'FAN21G0013' => 'fan', 'FAN22G1211' => 'fan', 'FAN25G3626' => 'fan', 'FvH4_2g09491' => 'fve', 'FvH4_3g24910' => 'fve', 'FvH4_4g15630' => 'fve', 'FvH4_5g28820' => 'fve', 'Glyma.01G238000' => 'gma', 'Glyma.05G168400' => 'gma', 'Glyma.08G126800' => 'gma', 'Glyma.08G188500' => 'gma', 'Glyma.10G278900' => 'gma', 'Glyma.11G005700' => 'gma', 'Glyma.11G183300' => 'gma', 'Glyma.12G089200' => 'gma', 'Glyma.12G169400' => 'gma', 'Glyma.12G169500' => 'gma', 'Glyma.12G169600' => 'gma', 'Glyma.20G110800' => 'gma', 'Gohir.A03G192900' => 'ghi', 'Gohir.A03G193000' => 'ghi', 'Gohir.A05G080700' => 'ghi', 'Gohir.A09G216000' => 'ghi', 'Gohir.A12G027700' => 'ghi', 'Gohir.A13G036200' => 'ghi', 'Gohir.A13G222600' => 'ghi', 'Gohir.D02G213900' => 'ghi', 'Gohir.D02G214000' => 'ghi', 'Gohir.D05G083700' => 'ghi', 'Gohir.D05G083800' => 'ghi', 'Gohir.D05G083850' => 'ghi', 'Gohir.D08G015400' => 'ghi', 'Gohir.D09G218400' => 'ghi', 'Gohir.D12G027100' => 'ghi', 'Gohir.D13G034500' => 'ghi', 'Gohir.D13G227400' => 'ghi', 'Gorai.005G241800' => 'gra', 'Gorai.005G241900' => 'gra', 'Gorai.006G239400' => 'gra', 'Gorai.008G027600' => 'gra', 'Gorai.009G085400' => 'gra', 'Gorai.009G085500' => 'gra', 'Gorai.013G039000' => 'gra', 'Gorai.013G194800' => 'gra', 'Gorai.013G257900' => 'gra', 'GSVIVG01000982001' => 'vvi', 'GSVIVG01017981001' => 'vvi', 'HanXRQChr01g0024061' => 'han', 'HanXRQChr09g0247831' => 'han', 'HanXRQChr10g0294611' => 'han', 'HanXRQChr10g0294621' => 'han', 'HanXRQChr11g0346821' => 'han', 'HanXRQChr13g0397461' => 'han', 'HanXRQChr16g0513651' => 'han', 'HanXRQChr16g0513701' => 'han', 'Haze_00897' => 'cav', 'Haze_01745' => 'cav', 'Haze_02486' => 'cav', 'Haze_02487' => 'cav', 'Haze_23374' => 'cav', 'Hma1.2p1_0578F.1_g182520' => 'hma', 'Hma1.2p1_0602F.1_g187350' => 'hma', 'Hma1.2p1_0602F.1_g187360' => 'hma', 'Hma1.2p1_0874F.1_g231320' => 'hma', 'Hma1.2p1_1197F.1_g266210' => 'hma', 'Hma1.2p1_1197F.1_g266220' => 'hma', 'Hma1.2p1_2167F.1_g315895' => 'hma', 'Hma1.2p1_2190F.1_g316640' => 'hma', 'Hma1.2p1_3645F.1_g337153' => 'hma', 'HPP92_004907' => 'vpl', 'HPP92_012134' => 'vpl', 'HPP92_025136' => 'vpl', 'HPP92_026087' => 'vpl', 'Hund06782' => 'sun', 'Hund06784' => 'sun', 'Lalb_Chr01g0004861' => 'lal', 'Lalb_Chr02g0140591' => 'lal', 'Lalb_Chr02g0140611' => 'lal', 'Lalb_Chr03g0028101' => 'lal', 'Lalb_Chr07g0185791' => 'lal', 'Lalb_Chr12g0204491' => 'lal', 'Lalb_Chr13g0295671' => 'lal', 'Lalb_Chr19g0136461' => 'lal', 'Lalb_Chr21g0309191' => 'lal', 'Lj1g0028158' => 'lja', 'Lj1P236T38' => 'lonja', 'Lj2C32G2' => 'lonja', 'Lj2P944T8' => 'lonja', 'Lj2P963T15' => 'lonja', 'Lj3g0011788' => 'lja', 'Lj4g0025027' => 'lja', 'Lj5P255T36' => 'lonja', 'Lj6g0018866' => 'lja', 'Lj6P608T31' => 'lonja', 'LjContig00408g0008879' => 'lja', 'Lsat_1_v5_gn_5_105820' => 'lsa', 'Lsat_1_v5_gn_6_38800' => 'lsa', 'Lsat_1_v5_gn_7_67141' => 'lsa', 'Manes.04G003400' => 'mes', 'Manes.07G020000' => 'mes', 'Manes.07G020100' => 'mes', 'Manes.07G020150' => 'mes', 'Manes.10G061500' => 'mes', 'Manes.10G123200' => 'mes', 'Manes.11G161900' => 'mes', 'Manes.15G029300' => 'mes', 'Mapoly0071s0018' => 'mpo', 'Mapoly0082s0023' => 'mpo', 'Mapoly3477s0001' => 'mpo', 'MBI05_g31233_MAGBIO' => 'mbi', 'MBI09_g05946_MAGBIO' => 'mbi', 'MBI09_g05947_MAGBIO' => 'mbi', 'MBI17_g08346_MAGBIO' => 'mbi', 'MCO04G038' => 'mco', 'MCO09G370' => 'mco', 'MCO13G605' => 'mco', 'MD00G1075500' => 'mdo', 'MD03G1144300' => 'mdo', 'MD08G1236800' => 'mdo', 'MD13G1193300' => 'mdo', 'MD15G1428700' => 'mdo', 'Medtr1g112030' => 'mtr', 'Medtr1g112050' => 'mtr', 'Medtr2g006290' => 'mtr', 'Medtr2g086510' => 'mtr', 'Medtr4g053120' => 'mtr', 'Medtr5g006320' => 'mtr', 'Medtr8g088720' => 'mtr', 'MELO3C004712.2' => 'cme', 'MELO3C006533.2' => 'cme', 'MELO3C019438.2' => 'cme', 'MELO3C019440.2' => 'cme', 'MELO3C019441.2' => 'cme', 'MELO3C019895.2' => 'cme', 'Migut.B00811' => 'egut', 'Migut.D02447' => 'egut', 'Migut.F00875' => 'egut', 'Migut.N00186' => 'egut', 'Migut.N01051' => 'egut', 'Migut.N02491' => 'egut', 'Migut.O00784' => 'egut', 'MSTRG.12367' => 'ama', 'MSTRG.18756' => 'ama', 'MSTRG.21042' => 'ama', 'Nitab4.5_0000559g0040' => 'nta', 'Nitab4.5_0000667g0190' => 'nta', 'Nitab4.5_0000755g0160' => 'nta', 'Nitab4.5_0001216g0080' => 'nta', 'Nitab4.5_0004069g0040' => 'nta', 'Nitab4.5_0004129g0010' => 'nta', 'Nitab4.5_0005744g0030' => 'nta', 'Nitab4.5_0006996g0030' => 'nta', 'Nitab4.5_0008971g0040' => 'nta', 'Nitab4.5_0009769g0020' => 'nta', 'Nitab4.5_0009833g0010' => 'nta', 'Nitab4.5_0013140g0020' => 'nta', 'Nn003s41376' => 'nnu', 'Nn1g01857' => 'nnu', 'Nn1g03611' => 'nnu', 'Nn1g06853' => 'nnu', 'Nn3g18360' => 'nnu', 'Nn4g26328' => 'nnu', 'Nn5g27531' => 'nnu', 'Nn6g34899' => 'nnu', 'Nn7g36299' => 'nnu', 'Oeu021485.1' => 'oeu', 'Oeu022433.1' => 'oeu', 'Oeu032111.1' => 'oeu', 'Oeu051608.1' => 'oeu', 'Os01g0860601' => 'osa', 'Os03g0659200' => 'osa', 'Os03g0835900' => 'osa', 'Os04g0412200' => 'osa', 'Os05g0443500' => 'osa', 'Os07g0251500' => 'osa', 'Os08g0104600' => 'osa', 'Peaxi162Scf00003g00047' => 'pax', 'Peaxi162Scf00003g00052' => 'pax', 'Peaxi162Scf00003g00394' => 'pax', 'Peaxi162Scf00091g00621' => 'pax', 'Peaxi162Scf00152g00146' => 'pax', 'Peaxi162Scf00173g00025' => 'pax', 'Peaxi162Scf00195g00102' => 'pax', 'Peaxi162Scf00402g00013' => 'pax', 'Peaxi162Scf00519g00618' => 'pax', 'PGR004G2838' => 'pgr', 'PGR044G2275' => 'pgr', 'PGR102G1377' => 'pgr', 'PGR119G1245' => 'pgr', 'PGR142G4449' => 'pgr', 'PGSC0003DMG400004532' => 'stu', 'PGSC0003DMG400011950' => 'stu', 'PGSC0003DMG400023391' => 'stu', 'PGSC0003DMG400023985' => 'stu', 'PGSC0003DMG400026360' => 'stu', 'PGSC0003DMG400035711' => 'stu', 'PGSC0003DMG400037286' => 'stu', 'PGSC0003DMG402005881' => 'stu', 'Phvul.002G045400' => 'pvu', 'Phvul.006G216600' => 'pvu', 'Phvul.006G216700' => 'pvu', 'Phvul.006G216800' => 'pvu', 'Phvul.007G022500' => 'pvu', 'Phvul.011G094400' => 'pvu', 'Potri.001G470700' => 'ptr', 'Potri.003G015200' => 'ptr', 'Potri.004G202500' => 'ptr', 'Potri.004G218400' => 'ptr', 'Potri.008G020100' => 'ptr', 'Potri.008G153200' => 'ptr', 'Potri.009G163800' => 'ptr', 'Potri.010G087300' => 'ptr', 'Potri.010G239100' => 'ptr', 'Pp3c10_16100' => 'ppa', 'Pp3c10_16880' => 'ppa', 'Pp3c16_6230' => 'ppa', 'Pp3c17_18910' => 'ppa', 'Pp3c3_22119' => 'ppa', 'Pp3c3_22140' => 'ppa', 'Pp3c4_8159' => 'ppa', 'Pp3c4_8171' => 'ppa', 'Pp3c4_8330' => 'ppa', 'PRCOL_00004098' => 'pco', 'Prupe.1G013900' => 'ppe', 'Prupe.1G226300' => 'ppe', 'Prupe.1G573600' => 'ppe', 'Prupe.6G130100' => 'ppe', 'Psat3g090040' => 'psa', 'Psat4g210440' => 'psa', 'Psat6g231040' => 'psa', 'Psat6g231080' => 'psa', 'Psat7g063000' => 'psa', 'Psat7g188000' => 'psa', 'Psat7g188040' => 'psa', 'PSO017G0206' => 'pso', 'PSO170G0501' => 'pso', 'PSO170G6422' => 'pso', 'PSO210G7739' => 'pso', 'PSO339G1808' => 'pso', 'PSO339G6135' => 'pso', 'PSO384G0010' => 'pso', 'PSO384G0964' => 'pso', 'PSO761G0050' => 'pso', 'PSO782G4085' => 'pso', 'QL01p012264' => 'qlo', 'QL02p099491' => 'qlo', 'QL03p033868' => 'qlo', 'QL04p046678' => 'qlo', 'QL06p002448' => 'qlo', 'RcHm_v2.0_Chr4g0416181' => 'rch', 'RcHm_v2.0_Chr5g0044701' => 'rch', 'RcHm_v2.0_Chr6g0265781' => 'rch', 'RcHm_v2.0_Chr7g0221031' => 'rch', 'Rhsim04G0202000' => 'rsi', 'Rhsim11G0127300' => 'rsi', 'Rhsim13G0111800' => 'rsi', 'Sabra01G0165600' => 'sbr', 'Sabra03G0008300' => 'sbr', 'Sabra04G0136900' => 'sbr', 'Sabra08G0013400' => 'sbr', 'Sabra08G0116800' => 'sbr', 'Sabra09G0128000' => 'sbr', 'Sabra10G0055500' => 'sbr', 'Sabra10G0073300' => 'sbr', 'SalBow3G0385' => 'sbo', 'SalBow3G1119' => 'sbo', 'SalBow3G2005' => 'sbo', 'SalBow6G2563' => 'sbo', 'SalBow6G6386' => 'sbo', 'Sc06g0008800' => 'sci', 'Sc07g0004950' => 'sci', 'Sc09g0005340' => 'sci', 'Sc13g0004410' => 'sci', 'Sc21g0007090' => 'sci', 'Sed0009285' => 'sed', 'Sed0017583' => 'sed', 'Sed0019699' => 'sed', 'Sed0023107' => 'sed', 'SEGI_10916' => 'sgi', 'SEGI_16217' => 'sgi', 'SEGI_19466' => 'sgi', 'SEGI_41115' => 'sgi', 'SGA_v2.0_scaffold111G31534' => 'sas', 'SGA_v2.0_scaffold22G09864' => 'sas', 'SGA_v2.0_scaffold338G49219' => 'sas', 'SGA_v2.0_scaffold92G28298' => 'sas', 'SMO119G0064' => 'smo', 'SMO223G0038' => 'smo', 'SMO347G0584' => 'smo', 'SMO351G0010' => 'smo', 'SMO356G0404' => 'smo', 'Solyc01g103920.3' => 'sly', 'Solyc04g009710.2' => 'sly', 'Solyc05g055280.2' => 'sly', 'Solyc10g044520.3' => 'sly', 'Solyc10g075160.1' => 'sly', 'Solyc11g006910.3' => 'sly', 'Solyc11g068430.3' => 'sly', 'Sopen01g046310' => 'spe', 'Sopen03g001200' => 'spe', 'Sopen04g004830' => 'spe', 'Sopen05g033720' => 'spe', 'Sopen06g030740' => 'spe', 'Sopen10g013090' => 'spe', 'Sopen10g027630' => 'spe', 'Sopen10g027640' => 'spe', 'Sopen11g002820' => 'spe', 'Sopen11g027140' => 'spe', 'Sp1g09680' => 'spa', 'Sp2g03630' => 'spa', 'Sp4g10320' => 'spa', 'Sp6g33400' => 'spa', 'Sp7g13030' => 'spa', 'TAR365G0317' => 'tar', 'TAR376G0979' => 'tar', 'TAR623G1665' => 'tar', 'TAR633G2373' => 'tar', 'TAR636G1400' => 'tar', 'THA.LOC104800529' => 'tha', 'THA.LOC104808547' => 'tha', 'THA.LOC104809615' => 'tha', 'THA.LOC104815724' => 'tha', 'THA.LOC104818480' => 'tha', 'THA.LOC104819179' => 'tha', 'THA.LOC104822270' => 'tha', 'THA.LOC104826425' => 'tha', 'Thecc.02G089700' => 'tca', 'Thecc.04G232300' => 'tca', 'Thecc.09G283400' => 'tca', 'Thhalv10009020m.g' => 'esa', 'Thhalv10015506m.g' => 'esa', 'Thhalv10017364m.g' => 'esa', 'Thhalv10023742m.g' => 'esa', 'Thhalv10026483m.g' => 'esa', 'TPR.G17232' => 'tpr', 'TPR.G2133' => 'tpr', 'TPR.G2498' => 'tpr', 'TPR.G31942' => 'tpr', 'TPR.G37877' => 'tpr', 'TPR.G4571' => 'tpr', 'TWI14G1113' => 'twi', 'TWI15G0426' => 'twi', 'TWI31G1005' => 'twi', 'TWI38G0513' => 'twi', 'TWI38G1484' => 'twi', 'TWI73G1098' => 'twi', 'unitig_26.g10519' => 'ugi', 'unitig_736.g22395' => 'ugi', 'unitig_747.g21234' => 'ugi', 'unitig_747.g21942' => 'ugi', 'vmacro14351' => 'vma', 'VMungo0540G0082' => 'vmu', 'VMungo0540G0405' => 'vmu', 'VMungo0540G1486' => 'vmu', 'VMungo0540G1692' => 'vmu', 'VMungo0720G2473' => 'vmu', 'VMungo1127G1562' => 'vmu', 'VMungo1215G1918' => 'vmu', 'Zm00001eb052650' => 'zma', 'Zm00001eb063710' => 'zma', 'Zm00001eb083950' => 'zma', 'Zm00001eb174420' => 'zma', 'Zm00001eb260140' => 'zma', 'Zm00001eb260150' => 'zma', 'Zm00001eb260160' => 'zma', 'Zm00001eb348290' => 'zma', 'Zm00001eb366870' => 'zma', 'Zm00001eb421930' => 'zma' ) $gf_id = 'HOM05D001025' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001025' ) $data_identifier = 'HOM05D001025' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 19, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 2, 'amhyb' => (int) 4, 'aly' => (int) 4, 'aox' => (int) 4, 'arhy' => (int) 3, 'ath' => (int) 5, 'atr' => (int) 4, 'acertr' => (int) 3, 'cqu' => (int) 7, 'bca' => (int) 17, 'bol' => (int) 10, 'bra' => (int) 9, 'can' => (int) 10, 'cansat' => (int) 6, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 5, 'cbr' => (int) 5, 'ccan' => (int) 5, 'cde' => (int) 4, 'cfa' => (int) 3, 'ccl' => (int) 6, 'cil' => (int) 4, 'cla' => (int) 3, 'col' => (int) 3, 'cpa' => (int) 3, 'cre' => (int) 7, 'csa' => (int) 5, 'camsi' => (int) 9, 'dca' => (int) 4, 'din' => (int) 5, 'dzi' => (int) 7, 'eca' => (int) 6, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 12, 'fve' => (int) 4, 'gma' => (int) 12, 'ghi' => (int) 17, 'gra' => (int) 9, 'vvi' => (int) 2, 'han' => (int) 8, 'cav' => (int) 5, 'hma' => (int) 9, 'vpl' => (int) 4, 'sun' => (int) 2, 'lal' => (int) 9, 'lja' => (int) 5, 'lonja' => (int) 6, 'lsa' => (int) 3, 'mes' => (int) 8, 'mpo' => (int) 3, 'mbi' => (int) 4, 'mco' => (int) 3, 'mdo' => (int) 5, 'mtr' => (int) 7, 'cme' => (int) 6, 'egut' => (int) 7, 'ama' => (int) 3, 'nta' => (int) 12, 'nnu' => (int) 9, 'oeu' => (int) 4, 'osa' => (int) 7, 'pax' => (int) 9, 'pgr' => (int) 5, 'stu' => (int) 8, 'pvu' => (int) 6, 'ptr' => (int) 9, 'ppa' => (int) 9, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 7, 'pso' => (int) 10, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 3, 'sbr' => (int) 8, 'sbo' => (int) 5, 'sci' => (int) 5, 'sed' => (int) 4, 'sgi' => (int) 4, 'sas' => (int) 4, 'smo' => (int) 5, 'sly' => (int) 7, 'spe' => (int) 10, 'spa' => (int) 5, 'tar' => (int) 5, 'tha' => (int) 8, 'tca' => (int) 3, 'esa' => (int) 5, 'tpr' => (int) 6, 'twi' => (int) 6, 'ugi' => (int) 4, 'vma' => (int) 1, 'vmu' => (int) 7, 'zma' => (int) 10 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb421930' $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' => 'HOM05D001025', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '592', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p22650' => 'bna', 'A01p29720' => 'bna', 'A03p26560' => 'bna', 'A03p68820' => 'bna', 'A04p20980' => 'bna', 'A06p07730' => 'bna', 'A07p18260' => 'bna', 'A08p33710' => 'bna', 'A09p16970' => 'bna', 'A10p27490' => 'bna', 'Aa31LG1G17300' => 'aar', 'Aa31LG1G3910' => 'aar', 'Aa31LG2G9630' => 'aar', 'Aa31LG5G8360' => 'aar', 'Aa31LG9G2410' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4699' => 'aag', 'Actinidia23512' => 'ach', 'Actinidia37080' => 'ach', 'Ah.01g020380' => 'amhyb', 'Ah.08g215710' => 'amhyb', 'Ah.09g225110' => 'amhyb', 'Ah.10g036680' => 'amhyb', 'AL1G21940' => 'aly', 'AL2G15540' => 'aly', 'AL4G21520' => 'aly', 'AL7G40960' => 'aly', 'Aqoxy2G01191' => 'aox', 'Aqoxy2G03393' => 'aox', 'Aqoxy4G02775' => 'aox', 'Aqoxy6G00058' => 'aox', 'arahy.Tifrunner.gnm1.ann1.9X74H2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CW3FX9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R485W7' => 'arhy', 'AT1G10960' => 'ath', 'AT1G60950' => 'ath', 'AT2G27510' => 'ath', 'AT4G14890' => 'ath', 'AT5G10000' => 'ath', 'ATR0665G624' => 'atr', 'ATR0697G138' => 'atr', 'ATR0776G046' => 'atr', 'ATR1134G135' => 'atr', 'Atru.chr12.1025' => 'acertr', 'Atru.chr3.3241' => 'acertr', 'Atru.chr4.2460' => 'acertr', 'AUR62007427' => 'cqu', 'AUR62010960' => 'cqu', 'AUR62012201' => 'cqu', 'AUR62021470' => 'cqu', 'AUR62022834' => 'cqu', 'AUR62033635' => 'cqu', 'AUR62036186' => 'cqu', 'BcaB01g03077' => 'bca', 'BcaB02g10093' => 'bca', 'BcaB04g20295' => 'bca', 'BcaB06g28147' => 'bca', 'BcaB07g31253' => 'bca', 'BcaC01g04946' => 'bca', 'BcaC02g10614' => 'bca', 'BcaC02g10885' => 'bca', 'BcaC04g19356' => 'bca', 'BcaC04g22297' => 'bca', 'BcaC05g24977' => 'bca', 'BcaC06g31823' => 'bca', 'BcaC07g38633' => 'bca', 'BcaC09g49353' => 'bca', 'BcaC09g50168' => 'bca', 'BcaNung00322' => 'bca', 'BcaNung04769' => 'bca', 'BolC1t02753H' => 'bol', 'BolC1t03721H' => 'bol', 'BolC3t15525H' => 'bol', 'BolC4t23903H' => 'bol', 'BolC4t24231H' => 'bol', 'BolC4t27209H' => 'bol', 'BolC5t29671H' => 'bol', 'BolC8t49044H' => 'bol', 'BolC9t54999H' => 'bol', 'BolC9t59517H' => 'bol', 'BraA01t02178Z' => 'bra', 'BraA01t03099Z' => 'bra', 'BraA03t11867Z' => 'bra', 'BraA04t17667Z' => 'bra', 'BraA07t29542Z' => 'bra', 'BraA08t35287Z' => 'bra', 'BraA09t37334Z' => 'bra', 'BraA10t44801Z' => 'bra', 'BraSC39t46181Z' => 'bra', 'C01p28240' => 'bna', 'C01p37530' => 'bna', 'C03p31820' => 'bna', 'C04p24080' => 'bna', 'C04p25790' => 'bna', 'C04p56770' => 'bna', 'C05p09310' => 'bna', 'C09p21010' => 'bna', 'C09p67560' => 'bna', 'CAN.G1324.7' => 'can', 'CAN.G1358.10' => 'can', 'CAN.G1550.2' => 'can', 'CAN.G186.56' => 'can', 'CAN.G1965.1' => 'can', 'CAN.G645.15' => 'can', 'CAN.G798.26' => 'can', 'CAN.G798.27' => 'can', 'CAN.G798.29' => 'can', 'CAN.G919.31' => 'can', 'CANSAT11G0133' => 'cansat', 'CANSAT11G1171' => 'cansat', 'CANSAT11G2056' => 'cansat', 'CANSAT56G1202' => 'cansat', 'CANSAT56G1514' => 'cansat', 'CANSAT78G0455' => 'cansat', 'CARHR011190' => 'chi', 'CARHR051980' => 'chi', 'CARHR120170' => 'chi', 'CARHR203310' => 'chi', 'CARHR221490' => 'chi', 'Carub.0001s1054' => 'cru', 'Carub.0002s0431' => 'cru', 'Carub.0004s0818' => 'cru', 'Carub.0006s0846' => 'cru', 'Carub.0007s2722' => 'cru', 'Ca_00058_v3' => 'car', 'Ca_17831_v3' => 'car', 'Ca_19408_v3' => 'car', 'Ca_24397_v3' => 'car', 'Ca_25664_v3' => 'car', 'CBR_g21818' => 'cbr', 'CBR_g31195' => 'cbr', 'CBR_g32282' => 'cbr', 'CBR_g39599' => 'cbr', 'CBR_g49410' => 'cbr', 'Cc01_g09120' => 'ccan', 'Cc01_g09130' => 'ccan', 'Cc02_g09630' => 'ccan', 'Cc02_g22810' => 'ccan', 'Cc03_g03810' => 'ccan', 'CDE02G3718' => 'cde', 'CDE04G3183' => 'cde', 'CDE07G1046' => 'cde', 'CDE08G0480' => 'cde', 'Cfa005493' => 'cfa', 'Cfa010312' => 'cfa', 'Cfa015648' => 'cfa', 'Ciclev10002793m.g' => 'ccl', 'Ciclev10003356m.g' => 'ccl', 'Ciclev10006141m.g' => 'ccl', 'Ciclev10016676m.g' => 'ccl', 'Ciclev10017081m.g' => 'ccl', 'Ciclev10029499m.g' => 'ccl', 'CiPaw.01G166300' => 'cil', 'CiPaw.06G145600' => 'cil', 'CiPaw.13G040100' => 'cil', 'CiPaw.13G135800' => 'cil', 'ClCG01G012230' => 'cla', 'ClCG05G009510' => 'cla', 'ClCG08G008270' => 'cla', 'COL.COLO4_11763' => 'col', 'COL.COLO4_19876' => 'col', 'COL.COLO4_21481' => 'col', 'Cpa.g.sc118.34' => 'cpa', 'Cpa.g.sc32.13' => 'cpa', 'Cpa.g.sc58.103' => 'cpa', 'Cre03.g183850' => 'cre', 'Cre06.g306350' => 'cre', 'Cre07.g334800' => 'cre', 'Cre12.g487900' => 'cre', 'Cre14.g626700' => 'cre', 'Cre16.g658400' => 'cre', 'Cre17.g700950' => 'cre', 'CsaV3_1G014830' => 'csa', 'CsaV3_3G013320' => 'csa', 'CsaV3_3G019210' => 'csa', 'CsaV3_3G019220' => 'csa', 'CsaV3_6G004230' => 'csa', 'CSS0003773' => 'camsi', 'CSS0004563' => 'camsi', 'CSS0013949' => 'camsi', 'CSS0025971' => 'camsi', 'CSS0028570' => 'camsi', 'CSS0033127' => 'camsi', 'CSS0036051' => 'camsi', 'CSS0040087' => 'camsi', 'CSS0043179' => 'camsi', 'DCAR_006161' => 'dca', 'DCAR_010351' => 'dca', 'DCAR_012197' => 'dca', 'DCAR_024162' => 'dca', 'Dinv01030' => 'din', 'Dinv10924' => 'din', 'Dinv11835' => 'din', 'Dinv22841' => 'din', 'Dinv42553' => 'din', 'Duzib052G0560' => 'dzi', 'Duzib132G0389' => 'dzi', 'Duzib150G1181' => 'dzi', 'Duzib168G0623' => 'dzi', 'Duzib170G1036' => 'dzi', 'Duzib212G0200' => 'dzi', 'Duzib248G0194' => 'dzi', 'ECA232G2193' => 'eca', 'ECA233G0302' => 'eca', 'ECA234G2813' => 'eca', 'ECA234G4866' => 'eca', 'ECA240G3932' => 'eca', 'ECA248G0385' => 'eca', 'EL10Ac2g04781' => 'bvu', 'EL10Ac3g06445' => 'bvu', 'EL10Ac7g15825' => 'bvu', 'EL10Ac8g18550' => 'bvu', 'Eucgr.B03849' => 'egr', 'Eucgr.I02744' => 'egr', 'Eucgr.J00264' => 'egr', 'Eucgr.J00493' => 'egr', 'FAN04G2181' => 'fan', 'FAN07G2666' => 'fan', 'FAN11G0024' => 'fan', 'FAN12G1105' => 'fan', 'FAN13G0302' => 'fan', 'FAN15G2781' => 'fan', 'FAN16G1274' => 'fan', 'FAN17G2988' => 'fan', 'FAN18G2621' => 'fan', 'FAN21G0013' => 'fan', 'FAN22G1211' => 'fan', 'FAN25G3626' => 'fan', 'FvH4_2g09491' => 'fve', 'FvH4_3g24910' => 'fve', 'FvH4_4g15630' => 'fve', 'FvH4_5g28820' => 'fve', 'Glyma.01G238000' => 'gma', 'Glyma.05G168400' => 'gma', 'Glyma.08G126800' => 'gma', 'Glyma.08G188500' => 'gma', 'Glyma.10G278900' => 'gma', 'Glyma.11G005700' => 'gma', 'Glyma.11G183300' => 'gma', 'Glyma.12G089200' => 'gma', 'Glyma.12G169400' => 'gma', 'Glyma.12G169500' => 'gma', 'Glyma.12G169600' => 'gma', 'Glyma.20G110800' => 'gma', 'Gohir.A03G192900' => 'ghi', 'Gohir.A03G193000' => 'ghi', 'Gohir.A05G080700' => 'ghi', 'Gohir.A09G216000' => 'ghi', 'Gohir.A12G027700' => 'ghi', 'Gohir.A13G036200' => 'ghi', 'Gohir.A13G222600' => 'ghi', 'Gohir.D02G213900' => 'ghi', 'Gohir.D02G214000' => 'ghi', 'Gohir.D05G083700' => 'ghi', 'Gohir.D05G083800' => 'ghi', 'Gohir.D05G083850' => 'ghi', 'Gohir.D08G015400' => 'ghi', 'Gohir.D09G218400' => 'ghi', 'Gohir.D12G027100' => 'ghi', 'Gohir.D13G034500' => 'ghi', 'Gohir.D13G227400' => 'ghi', 'Gorai.005G241800' => 'gra', 'Gorai.005G241900' => 'gra', 'Gorai.006G239400' => 'gra', 'Gorai.008G027600' => 'gra', 'Gorai.009G085400' => 'gra', 'Gorai.009G085500' => 'gra', 'Gorai.013G039000' => 'gra', 'Gorai.013G194800' => 'gra', 'Gorai.013G257900' => 'gra', 'GSVIVG01000982001' => 'vvi', 'GSVIVG01017981001' => 'vvi', 'HanXRQChr01g0024061' => 'han', 'HanXRQChr09g0247831' => 'han', 'HanXRQChr10g0294611' => 'han', 'HanXRQChr10g0294621' => 'han', 'HanXRQChr11g0346821' => 'han', 'HanXRQChr13g0397461' => 'han', 'HanXRQChr16g0513651' => 'han', 'HanXRQChr16g0513701' => 'han', 'Haze_00897' => 'cav', 'Haze_01745' => 'cav', 'Haze_02486' => 'cav', 'Haze_02487' => 'cav', 'Haze_23374' => 'cav', 'Hma1.2p1_0578F.1_g182520' => 'hma', 'Hma1.2p1_0602F.1_g187350' => 'hma', 'Hma1.2p1_0602F.1_g187360' => 'hma', 'Hma1.2p1_0874F.1_g231320' => 'hma', 'Hma1.2p1_1197F.1_g266210' => 'hma', 'Hma1.2p1_1197F.1_g266220' => 'hma', 'Hma1.2p1_2167F.1_g315895' => 'hma', 'Hma1.2p1_2190F.1_g316640' => 'hma', 'Hma1.2p1_3645F.1_g337153' => 'hma', 'HPP92_004907' => 'vpl', 'HPP92_012134' => 'vpl', 'HPP92_025136' => 'vpl', 'HPP92_026087' => 'vpl', 'Hund06782' => 'sun', 'Hund06784' => 'sun', 'Lalb_Chr01g0004861' => 'lal', 'Lalb_Chr02g0140591' => 'lal', 'Lalb_Chr02g0140611' => 'lal', 'Lalb_Chr03g0028101' => 'lal', 'Lalb_Chr07g0185791' => 'lal', 'Lalb_Chr12g0204491' => 'lal', 'Lalb_Chr13g0295671' => 'lal', 'Lalb_Chr19g0136461' => 'lal', 'Lalb_Chr21g0309191' => 'lal', 'Lj1g0028158' => 'lja', 'Lj1P236T38' => 'lonja', 'Lj2C32G2' => 'lonja', 'Lj2P944T8' => 'lonja', 'Lj2P963T15' => 'lonja', 'Lj3g0011788' => 'lja', 'Lj4g0025027' => 'lja', 'Lj5P255T36' => 'lonja', 'Lj6g0018866' => 'lja', 'Lj6P608T31' => 'lonja', 'LjContig00408g0008879' => 'lja', 'Lsat_1_v5_gn_5_105820' => 'lsa', 'Lsat_1_v5_gn_6_38800' => 'lsa', 'Lsat_1_v5_gn_7_67141' => 'lsa', 'Manes.04G003400' => 'mes', 'Manes.07G020000' => 'mes', 'Manes.07G020100' => 'mes', 'Manes.07G020150' => 'mes', 'Manes.10G061500' => 'mes', 'Manes.10G123200' => 'mes', 'Manes.11G161900' => 'mes', 'Manes.15G029300' => 'mes', 'Mapoly0071s0018' => 'mpo', 'Mapoly0082s0023' => 'mpo', 'Mapoly3477s0001' => 'mpo', 'MBI05_g31233_MAGBIO' => 'mbi', 'MBI09_g05946_MAGBIO' => 'mbi', 'MBI09_g05947_MAGBIO' => 'mbi', 'MBI17_g08346_MAGBIO' => 'mbi', 'MCO04G038' => 'mco', 'MCO09G370' => 'mco', 'MCO13G605' => 'mco', 'MD00G1075500' => 'mdo', 'MD03G1144300' => 'mdo', 'MD08G1236800' => 'mdo', 'MD13G1193300' => 'mdo', 'MD15G1428700' => 'mdo', 'Medtr1g112030' => 'mtr', 'Medtr1g112050' => 'mtr', 'Medtr2g006290' => 'mtr', 'Medtr2g086510' => 'mtr', 'Medtr4g053120' => 'mtr', 'Medtr5g006320' => 'mtr', 'Medtr8g088720' => 'mtr', 'MELO3C004712.2' => 'cme', 'MELO3C006533.2' => 'cme', 'MELO3C019438.2' => 'cme', 'MELO3C019440.2' => 'cme', 'MELO3C019441.2' => 'cme', 'MELO3C019895.2' => 'cme', 'Migut.B00811' => 'egut', 'Migut.D02447' => 'egut', 'Migut.F00875' => 'egut', 'Migut.N00186' => 'egut', 'Migut.N01051' => 'egut', 'Migut.N02491' => 'egut', 'Migut.O00784' => 'egut', 'MSTRG.12367' => 'ama', 'MSTRG.18756' => 'ama', 'MSTRG.21042' => 'ama', 'Nitab4.5_0000559g0040' => 'nta', 'Nitab4.5_0000667g0190' => 'nta', 'Nitab4.5_0000755g0160' => 'nta', 'Nitab4.5_0001216g0080' => 'nta', 'Nitab4.5_0004069g0040' => 'nta', 'Nitab4.5_0004129g0010' => 'nta', 'Nitab4.5_0005744g0030' => 'nta', 'Nitab4.5_0006996g0030' => 'nta', 'Nitab4.5_0008971g0040' => 'nta', 'Nitab4.5_0009769g0020' => 'nta', 'Nitab4.5_0009833g0010' => 'nta', 'Nitab4.5_0013140g0020' => 'nta', 'Nn003s41376' => 'nnu', 'Nn1g01857' => 'nnu', 'Nn1g03611' => 'nnu', 'Nn1g06853' => 'nnu', 'Nn3g18360' => 'nnu', 'Nn4g26328' => 'nnu', 'Nn5g27531' => 'nnu', 'Nn6g34899' => 'nnu', 'Nn7g36299' => 'nnu', 'Oeu021485.1' => 'oeu', 'Oeu022433.1' => 'oeu', 'Oeu032111.1' => 'oeu', 'Oeu051608.1' => 'oeu', 'Os01g0860601' => 'osa', 'Os03g0659200' => 'osa', 'Os03g0835900' => 'osa', 'Os04g0412200' => 'osa', 'Os05g0443500' => 'osa', 'Os07g0251500' => 'osa', 'Os08g0104600' => 'osa', 'Peaxi162Scf00003g00047' => 'pax', 'Peaxi162Scf00003g00052' => 'pax', 'Peaxi162Scf00003g00394' => 'pax', 'Peaxi162Scf00091g00621' => 'pax', 'Peaxi162Scf00152g00146' => 'pax', 'Peaxi162Scf00173g00025' => 'pax', 'Peaxi162Scf00195g00102' => 'pax', 'Peaxi162Scf00402g00013' => 'pax', 'Peaxi162Scf00519g00618' => 'pax', 'PGR004G2838' => 'pgr', 'PGR044G2275' => 'pgr', 'PGR102G1377' => 'pgr', 'PGR119G1245' => 'pgr', 'PGR142G4449' => 'pgr', 'PGSC0003DMG400004532' => 'stu', 'PGSC0003DMG400011950' => 'stu', 'PGSC0003DMG400023391' => 'stu', 'PGSC0003DMG400023985' => 'stu', 'PGSC0003DMG400026360' => 'stu', 'PGSC0003DMG400035711' => 'stu', 'PGSC0003DMG400037286' => 'stu', 'PGSC0003DMG402005881' => 'stu', 'Phvul.002G045400' => 'pvu', 'Phvul.006G216600' => 'pvu', 'Phvul.006G216700' => 'pvu', 'Phvul.006G216800' => 'pvu', 'Phvul.007G022500' => 'pvu', 'Phvul.011G094400' => 'pvu', 'Potri.001G470700' => 'ptr', 'Potri.003G015200' => 'ptr', 'Potri.004G202500' => 'ptr', 'Potri.004G218400' => 'ptr', 'Potri.008G020100' => 'ptr', 'Potri.008G153200' => 'ptr', 'Potri.009G163800' => 'ptr', 'Potri.010G087300' => 'ptr', 'Potri.010G239100' => 'ptr', 'Pp3c10_16100' => 'ppa', 'Pp3c10_16880' => 'ppa', 'Pp3c16_6230' => 'ppa', 'Pp3c17_18910' => 'ppa', 'Pp3c3_22119' => 'ppa', 'Pp3c3_22140' => 'ppa', 'Pp3c4_8159' => 'ppa', 'Pp3c4_8171' => 'ppa', 'Pp3c4_8330' => 'ppa', 'PRCOL_00004098' => 'pco', 'Prupe.1G013900' => 'ppe', 'Prupe.1G226300' => 'ppe', 'Prupe.1G573600' => 'ppe', 'Prupe.6G130100' => 'ppe', 'Psat3g090040' => 'psa', 'Psat4g210440' => 'psa', 'Psat6g231040' => 'psa', 'Psat6g231080' => 'psa', 'Psat7g063000' => 'psa', 'Psat7g188000' => 'psa', 'Psat7g188040' => 'psa', 'PSO017G0206' => 'pso', 'PSO170G0501' => 'pso', 'PSO170G6422' => 'pso', 'PSO210G7739' => 'pso', 'PSO339G1808' => 'pso', 'PSO339G6135' => 'pso', 'PSO384G0010' => 'pso', 'PSO384G0964' => 'pso', 'PSO761G0050' => 'pso', 'PSO782G4085' => 'pso', 'QL01p012264' => 'qlo', 'QL02p099491' => 'qlo', 'QL03p033868' => 'qlo', 'QL04p046678' => 'qlo', 'QL06p002448' => 'qlo', 'RcHm_v2.0_Chr4g0416181' => 'rch', 'RcHm_v2.0_Chr5g0044701' => 'rch', 'RcHm_v2.0_Chr6g0265781' => 'rch', 'RcHm_v2.0_Chr7g0221031' => 'rch', 'Rhsim04G0202000' => 'rsi', 'Rhsim11G0127300' => 'rsi', 'Rhsim13G0111800' => 'rsi', 'Sabra01G0165600' => 'sbr', 'Sabra03G0008300' => 'sbr', 'Sabra04G0136900' => 'sbr', 'Sabra08G0013400' => 'sbr', 'Sabra08G0116800' => 'sbr', 'Sabra09G0128000' => 'sbr', 'Sabra10G0055500' => 'sbr', 'Sabra10G0073300' => 'sbr', 'SalBow3G0385' => 'sbo', 'SalBow3G1119' => 'sbo', 'SalBow3G2005' => 'sbo', 'SalBow6G2563' => 'sbo', 'SalBow6G6386' => 'sbo', 'Sc06g0008800' => 'sci', 'Sc07g0004950' => 'sci', 'Sc09g0005340' => 'sci', 'Sc13g0004410' => 'sci', 'Sc21g0007090' => 'sci', 'Sed0009285' => 'sed', 'Sed0017583' => 'sed', 'Sed0019699' => 'sed', 'Sed0023107' => 'sed', 'SEGI_10916' => 'sgi', 'SEGI_16217' => 'sgi', 'SEGI_19466' => 'sgi', 'SEGI_41115' => 'sgi', 'SGA_v2.0_scaffold111G31534' => 'sas', 'SGA_v2.0_scaffold22G09864' => 'sas', 'SGA_v2.0_scaffold338G49219' => 'sas', 'SGA_v2.0_scaffold92G28298' => 'sas', 'SMO119G0064' => 'smo', 'SMO223G0038' => 'smo', 'SMO347G0584' => 'smo', 'SMO351G0010' => 'smo', 'SMO356G0404' => 'smo', 'Solyc01g103920.3' => 'sly', 'Solyc04g009710.2' => 'sly', 'Solyc05g055280.2' => 'sly', 'Solyc10g044520.3' => 'sly', 'Solyc10g075160.1' => 'sly', 'Solyc11g006910.3' => 'sly', 'Solyc11g068430.3' => 'sly', 'Sopen01g046310' => 'spe', 'Sopen03g001200' => 'spe', 'Sopen04g004830' => 'spe', 'Sopen05g033720' => 'spe', 'Sopen06g030740' => 'spe', 'Sopen10g013090' => 'spe', 'Sopen10g027630' => 'spe', 'Sopen10g027640' => 'spe', 'Sopen11g002820' => 'spe', 'Sopen11g027140' => 'spe', 'Sp1g09680' => 'spa', 'Sp2g03630' => 'spa', 'Sp4g10320' => 'spa', 'Sp6g33400' => 'spa', 'Sp7g13030' => 'spa', 'TAR365G0317' => 'tar', 'TAR376G0979' => 'tar', 'TAR623G1665' => 'tar', 'TAR633G2373' => 'tar', 'TAR636G1400' => 'tar', 'THA.LOC104800529' => 'tha', 'THA.LOC104808547' => 'tha', 'THA.LOC104809615' => 'tha', 'THA.LOC104815724' => 'tha', 'THA.LOC104818480' => 'tha', 'THA.LOC104819179' => 'tha', 'THA.LOC104822270' => 'tha', 'THA.LOC104826425' => 'tha', 'Thecc.02G089700' => 'tca', 'Thecc.04G232300' => 'tca', 'Thecc.09G283400' => 'tca', 'Thhalv10009020m.g' => 'esa', 'Thhalv10015506m.g' => 'esa', 'Thhalv10017364m.g' => 'esa', 'Thhalv10023742m.g' => 'esa', 'Thhalv10026483m.g' => 'esa', 'TPR.G17232' => 'tpr', 'TPR.G2133' => 'tpr', 'TPR.G2498' => 'tpr', 'TPR.G31942' => 'tpr', 'TPR.G37877' => 'tpr', 'TPR.G4571' => 'tpr', 'TWI14G1113' => 'twi', 'TWI15G0426' => 'twi', 'TWI31G1005' => 'twi', 'TWI38G0513' => 'twi', 'TWI38G1484' => 'twi', 'TWI73G1098' => 'twi', 'unitig_26.g10519' => 'ugi', 'unitig_736.g22395' => 'ugi', 'unitig_747.g21234' => 'ugi', 'unitig_747.g21942' => 'ugi', 'vmacro14351' => 'vma', 'VMungo0540G0082' => 'vmu', 'VMungo0540G0405' => 'vmu', 'VMungo0540G1486' => 'vmu', 'VMungo0540G1692' => 'vmu', 'VMungo0720G2473' => 'vmu', 'VMungo1127G1562' => 'vmu', 'VMungo1215G1918' => 'vmu', 'Zm00001eb052650' => 'zma', 'Zm00001eb063710' => 'zma', 'Zm00001eb083950' => 'zma', 'Zm00001eb174420' => 'zma', 'Zm00001eb260140' => 'zma', 'Zm00001eb260150' => 'zma', 'Zm00001eb260160' => 'zma', 'Zm00001eb348290' => 'zma', 'Zm00001eb366870' => 'zma', 'Zm00001eb421930' => 'zma' ), 'gf_id' => 'HOM05D001025', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001025' ), 'data_identifier' => 'HOM05D001025', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001025', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '592', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p22650' => 'bna', 'A01p29720' => 'bna', 'A03p26560' => 'bna', 'A03p68820' => 'bna', 'A04p20980' => 'bna', 'A06p07730' => 'bna', 'A07p18260' => 'bna', 'A08p33710' => 'bna', 'A09p16970' => 'bna', 'A10p27490' => 'bna', 'Aa31LG1G17300' => 'aar', 'Aa31LG1G3910' => 'aar', 'Aa31LG2G9630' => 'aar', 'Aa31LG5G8360' => 'aar', 'Aa31LG9G2410' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4699' => 'aag', 'Actinidia23512' => 'ach', 'Actinidia37080' => 'ach', 'Ah.01g020380' => 'amhyb', 'Ah.08g215710' => 'amhyb', 'Ah.09g225110' => 'amhyb', 'Ah.10g036680' => 'amhyb', 'AL1G21940' => 'aly', 'AL2G15540' => 'aly', 'AL4G21520' => 'aly', 'AL7G40960' => 'aly', 'Aqoxy2G01191' => 'aox', 'Aqoxy2G03393' => 'aox', 'Aqoxy4G02775' => 'aox', 'Aqoxy6G00058' => 'aox', 'arahy.Tifrunner.gnm1.ann1.9X74H2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CW3FX9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R485W7' => 'arhy', 'AT1G10960' => 'ath', 'AT1G60950' => 'ath', 'AT2G27510' => 'ath', 'AT4G14890' => 'ath', 'AT5G10000' => 'ath', 'ATR0665G624' => 'atr', 'ATR0697G138' => 'atr', 'ATR0776G046' => 'atr', 'ATR1134G135' => 'atr', 'Atru.chr12.1025' => 'acertr', 'Atru.chr3.3241' => 'acertr', 'Atru.chr4.2460' => 'acertr', 'AUR62007427' => 'cqu', 'AUR62010960' => 'cqu', 'AUR62012201' => 'cqu', 'AUR62021470' => 'cqu', 'AUR62022834' => 'cqu', 'AUR62033635' => 'cqu', 'AUR62036186' => 'cqu', 'BcaB01g03077' => 'bca', 'BcaB02g10093' => 'bca', 'BcaB04g20295' => 'bca', 'BcaB06g28147' => 'bca', 'BcaB07g31253' => 'bca', 'BcaC01g04946' => 'bca', 'BcaC02g10614' => 'bca', 'BcaC02g10885' => 'bca', 'BcaC04g19356' => 'bca', 'BcaC04g22297' => 'bca', 'BcaC05g24977' => 'bca', 'BcaC06g31823' => 'bca', 'BcaC07g38633' => 'bca', 'BcaC09g49353' => 'bca', 'BcaC09g50168' => 'bca', 'BcaNung00322' => 'bca', 'BcaNung04769' => 'bca', 'BolC1t02753H' => 'bol', 'BolC1t03721H' => 'bol', 'BolC3t15525H' => 'bol', 'BolC4t23903H' => 'bol', 'BolC4t24231H' => 'bol', 'BolC4t27209H' => 'bol', 'BolC5t29671H' => 'bol', 'BolC8t49044H' => 'bol', 'BolC9t54999H' => 'bol', 'BolC9t59517H' => 'bol', 'BraA01t02178Z' => 'bra', 'BraA01t03099Z' => 'bra', 'BraA03t11867Z' => 'bra', 'BraA04t17667Z' => 'bra', 'BraA07t29542Z' => 'bra', 'BraA08t35287Z' => 'bra', 'BraA09t37334Z' => 'bra', 'BraA10t44801Z' => 'bra', 'BraSC39t46181Z' => 'bra', 'C01p28240' => 'bna', 'C01p37530' => 'bna', 'C03p31820' => 'bna', 'C04p24080' => 'bna', 'C04p25790' => 'bna', 'C04p56770' => 'bna', 'C05p09310' => 'bna', 'C09p21010' => 'bna', 'C09p67560' => 'bna', 'CAN.G1324.7' => 'can', 'CAN.G1358.10' => 'can', 'CAN.G1550.2' => 'can', 'CAN.G186.56' => 'can', 'CAN.G1965.1' => 'can', 'CAN.G645.15' => 'can', 'CAN.G798.26' => 'can', 'CAN.G798.27' => 'can', 'CAN.G798.29' => 'can', 'CAN.G919.31' => 'can', 'CANSAT11G0133' => 'cansat', 'CANSAT11G1171' => 'cansat', 'CANSAT11G2056' => 'cansat', 'CANSAT56G1202' => 'cansat', 'CANSAT56G1514' => 'cansat', 'CANSAT78G0455' => 'cansat', 'CARHR011190' => 'chi', 'CARHR051980' => 'chi', 'CARHR120170' => 'chi', 'CARHR203310' => 'chi', 'CARHR221490' => 'chi', 'Carub.0001s1054' => 'cru', 'Carub.0002s0431' => 'cru', 'Carub.0004s0818' => 'cru', 'Carub.0006s0846' => 'cru', 'Carub.0007s2722' => 'cru', 'Ca_00058_v3' => 'car', 'Ca_17831_v3' => 'car', 'Ca_19408_v3' => 'car', 'Ca_24397_v3' => 'car', 'Ca_25664_v3' => 'car', 'CBR_g21818' => 'cbr', 'CBR_g31195' => 'cbr', 'CBR_g32282' => 'cbr', 'CBR_g39599' => 'cbr', 'CBR_g49410' => 'cbr', 'Cc01_g09120' => 'ccan', 'Cc01_g09130' => 'ccan', 'Cc02_g09630' => 'ccan', 'Cc02_g22810' => 'ccan', 'Cc03_g03810' => 'ccan', 'CDE02G3718' => 'cde', 'CDE04G3183' => 'cde', 'CDE07G1046' => 'cde', 'CDE08G0480' => 'cde', 'Cfa005493' => 'cfa', 'Cfa010312' => 'cfa', 'Cfa015648' => 'cfa', 'Ciclev10002793m.g' => 'ccl', 'Ciclev10003356m.g' => 'ccl', 'Ciclev10006141m.g' => 'ccl', 'Ciclev10016676m.g' => 'ccl', 'Ciclev10017081m.g' => 'ccl', 'Ciclev10029499m.g' => 'ccl', 'CiPaw.01G166300' => 'cil', 'CiPaw.06G145600' => 'cil', 'CiPaw.13G040100' => 'cil', 'CiPaw.13G135800' => 'cil', 'ClCG01G012230' => 'cla', 'ClCG05G009510' => 'cla', 'ClCG08G008270' => 'cla', 'COL.COLO4_11763' => 'col', 'COL.COLO4_19876' => 'col', 'COL.COLO4_21481' => 'col', 'Cpa.g.sc118.34' => 'cpa', 'Cpa.g.sc32.13' => 'cpa', 'Cpa.g.sc58.103' => 'cpa', 'Cre03.g183850' => 'cre', 'Cre06.g306350' => 'cre', 'Cre07.g334800' => 'cre', 'Cre12.g487900' => 'cre', 'Cre14.g626700' => 'cre', 'Cre16.g658400' => 'cre', 'Cre17.g700950' => 'cre', 'CsaV3_1G014830' => 'csa', 'CsaV3_3G013320' => 'csa', 'CsaV3_3G019210' => 'csa', 'CsaV3_3G019220' => 'csa', 'CsaV3_6G004230' => 'csa', 'CSS0003773' => 'camsi', 'CSS0004563' => 'camsi', 'CSS0013949' => 'camsi', 'CSS0025971' => 'camsi', 'CSS0028570' => 'camsi', 'CSS0033127' => 'camsi', 'CSS0036051' => 'camsi', 'CSS0040087' => 'camsi', 'CSS0043179' => 'camsi', 'DCAR_006161' => 'dca', 'DCAR_010351' => 'dca', 'DCAR_012197' => 'dca', 'DCAR_024162' => 'dca', 'Dinv01030' => 'din', 'Dinv10924' => 'din', 'Dinv11835' => 'din', 'Dinv22841' => 'din', 'Dinv42553' => 'din', 'Duzib052G0560' => 'dzi', 'Duzib132G0389' => 'dzi', 'Duzib150G1181' => 'dzi', 'Duzib168G0623' => 'dzi', 'Duzib170G1036' => 'dzi', 'Duzib212G0200' => 'dzi', 'Duzib248G0194' => 'dzi', 'ECA232G2193' => 'eca', 'ECA233G0302' => 'eca', 'ECA234G2813' => 'eca', 'ECA234G4866' => 'eca', 'ECA240G3932' => 'eca', 'ECA248G0385' => 'eca', 'EL10Ac2g04781' => 'bvu', 'EL10Ac3g06445' => 'bvu', 'EL10Ac7g15825' => 'bvu', 'EL10Ac8g18550' => 'bvu', 'Eucgr.B03849' => 'egr', 'Eucgr.I02744' => 'egr', 'Eucgr.J00264' => 'egr', 'Eucgr.J00493' => 'egr', 'FAN04G2181' => 'fan', 'FAN07G2666' => 'fan', 'FAN11G0024' => 'fan', 'FAN12G1105' => 'fan', 'FAN13G0302' => 'fan', 'FAN15G2781' => 'fan', 'FAN16G1274' => 'fan', 'FAN17G2988' => 'fan', 'FAN18G2621' => 'fan', 'FAN21G0013' => 'fan', 'FAN22G1211' => 'fan', 'FAN25G3626' => 'fan', 'FvH4_2g09491' => 'fve', 'FvH4_3g24910' => 'fve', 'FvH4_4g15630' => 'fve', 'FvH4_5g28820' => 'fve', 'Glyma.01G238000' => 'gma', 'Glyma.05G168400' => 'gma', 'Glyma.08G126800' => 'gma', 'Glyma.08G188500' => 'gma', 'Glyma.10G278900' => 'gma', 'Glyma.11G005700' => 'gma', 'Glyma.11G183300' => 'gma', 'Glyma.12G089200' => 'gma', 'Glyma.12G169400' => 'gma', 'Glyma.12G169500' => 'gma', 'Glyma.12G169600' => 'gma', 'Glyma.20G110800' => 'gma', 'Gohir.A03G192900' => 'ghi', 'Gohir.A03G193000' => 'ghi', 'Gohir.A05G080700' => 'ghi', 'Gohir.A09G216000' => 'ghi', 'Gohir.A12G027700' => 'ghi', 'Gohir.A13G036200' => 'ghi', 'Gohir.A13G222600' => 'ghi', 'Gohir.D02G213900' => 'ghi', 'Gohir.D02G214000' => 'ghi', 'Gohir.D05G083700' => 'ghi', 'Gohir.D05G083800' => 'ghi', 'Gohir.D05G083850' => 'ghi', 'Gohir.D08G015400' => 'ghi', 'Gohir.D09G218400' => 'ghi', 'Gohir.D12G027100' => 'ghi', 'Gohir.D13G034500' => 'ghi', 'Gohir.D13G227400' => 'ghi', 'Gorai.005G241800' => 'gra', 'Gorai.005G241900' => 'gra', 'Gorai.006G239400' => 'gra', 'Gorai.008G027600' => 'gra', 'Gorai.009G085400' => 'gra', 'Gorai.009G085500' => 'gra', 'Gorai.013G039000' => 'gra', 'Gorai.013G194800' => 'gra', 'Gorai.013G257900' => 'gra', 'GSVIVG01000982001' => 'vvi', 'GSVIVG01017981001' => 'vvi', 'HanXRQChr01g0024061' => 'han', 'HanXRQChr09g0247831' => 'han', 'HanXRQChr10g0294611' => 'han', 'HanXRQChr10g0294621' => 'han', 'HanXRQChr11g0346821' => 'han', 'HanXRQChr13g0397461' => 'han', 'HanXRQChr16g0513651' => 'han', 'HanXRQChr16g0513701' => 'han', 'Haze_00897' => 'cav', 'Haze_01745' => 'cav', 'Haze_02486' => 'cav', 'Haze_02487' => 'cav', 'Haze_23374' => 'cav', 'Hma1.2p1_0578F.1_g182520' => 'hma', 'Hma1.2p1_0602F.1_g187350' => 'hma', 'Hma1.2p1_0602F.1_g187360' => 'hma', 'Hma1.2p1_0874F.1_g231320' => 'hma', 'Hma1.2p1_1197F.1_g266210' => 'hma', 'Hma1.2p1_1197F.1_g266220' => 'hma', 'Hma1.2p1_2167F.1_g315895' => 'hma', 'Hma1.2p1_2190F.1_g316640' => 'hma', 'Hma1.2p1_3645F.1_g337153' => 'hma', 'HPP92_004907' => 'vpl', 'HPP92_012134' => 'vpl', 'HPP92_025136' => 'vpl', 'HPP92_026087' => 'vpl', 'Hund06782' => 'sun', 'Hund06784' => 'sun', 'Lalb_Chr01g0004861' => 'lal', 'Lalb_Chr02g0140591' => 'lal', 'Lalb_Chr02g0140611' => 'lal', 'Lalb_Chr03g0028101' => 'lal', 'Lalb_Chr07g0185791' => 'lal', 'Lalb_Chr12g0204491' => 'lal', 'Lalb_Chr13g0295671' => 'lal', 'Lalb_Chr19g0136461' => 'lal', 'Lalb_Chr21g0309191' => 'lal', 'Lj1g0028158' => 'lja', 'Lj1P236T38' => 'lonja', 'Lj2C32G2' => 'lonja', 'Lj2P944T8' => 'lonja', 'Lj2P963T15' => 'lonja', 'Lj3g0011788' => 'lja', 'Lj4g0025027' => 'lja', 'Lj5P255T36' => 'lonja', 'Lj6g0018866' => 'lja', 'Lj6P608T31' => 'lonja', 'LjContig00408g0008879' => 'lja', 'Lsat_1_v5_gn_5_105820' => 'lsa', 'Lsat_1_v5_gn_6_38800' => 'lsa', 'Lsat_1_v5_gn_7_67141' => 'lsa', 'Manes.04G003400' => 'mes', 'Manes.07G020000' => 'mes', 'Manes.07G020100' => 'mes', 'Manes.07G020150' => 'mes', 'Manes.10G061500' => 'mes', 'Manes.10G123200' => 'mes', 'Manes.11G161900' => 'mes', 'Manes.15G029300' => 'mes', 'Mapoly0071s0018' => 'mpo', 'Mapoly0082s0023' => 'mpo', 'Mapoly3477s0001' => 'mpo', 'MBI05_g31233_MAGBIO' => 'mbi', 'MBI09_g05946_MAGBIO' => 'mbi', 'MBI09_g05947_MAGBIO' => 'mbi', 'MBI17_g08346_MAGBIO' => 'mbi', 'MCO04G038' => 'mco', 'MCO09G370' => 'mco', 'MCO13G605' => 'mco', 'MD00G1075500' => 'mdo', 'MD03G1144300' => 'mdo', 'MD08G1236800' => 'mdo', 'MD13G1193300' => 'mdo', 'MD15G1428700' => 'mdo', 'Medtr1g112030' => 'mtr', 'Medtr1g112050' => 'mtr', 'Medtr2g006290' => 'mtr', 'Medtr2g086510' => 'mtr', 'Medtr4g053120' => 'mtr', 'Medtr5g006320' => 'mtr', 'Medtr8g088720' => 'mtr', 'MELO3C004712.2' => 'cme', 'MELO3C006533.2' => 'cme', 'MELO3C019438.2' => 'cme', 'MELO3C019440.2' => 'cme', 'MELO3C019441.2' => 'cme', 'MELO3C019895.2' => 'cme', 'Migut.B00811' => 'egut', 'Migut.D02447' => 'egut', 'Migut.F00875' => 'egut', 'Migut.N00186' => 'egut', 'Migut.N01051' => 'egut', 'Migut.N02491' => 'egut', 'Migut.O00784' => 'egut', 'MSTRG.12367' => 'ama', 'MSTRG.18756' => 'ama', 'MSTRG.21042' => 'ama', 'Nitab4.5_0000559g0040' => 'nta', 'Nitab4.5_0000667g0190' => 'nta', 'Nitab4.5_0000755g0160' => 'nta', 'Nitab4.5_0001216g0080' => 'nta', 'Nitab4.5_0004069g0040' => 'nta', 'Nitab4.5_0004129g0010' => 'nta', 'Nitab4.5_0005744g0030' => 'nta', 'Nitab4.5_0006996g0030' => 'nta', 'Nitab4.5_0008971g0040' => 'nta', 'Nitab4.5_0009769g0020' => 'nta', 'Nitab4.5_0009833g0010' => 'nta', 'Nitab4.5_0013140g0020' => 'nta', 'Nn003s41376' => 'nnu', 'Nn1g01857' => 'nnu', 'Nn1g03611' => 'nnu', 'Nn1g06853' => 'nnu', 'Nn3g18360' => 'nnu', 'Nn4g26328' => 'nnu', 'Nn5g27531' => 'nnu', 'Nn6g34899' => 'nnu', 'Nn7g36299' => 'nnu', 'Oeu021485.1' => 'oeu', 'Oeu022433.1' => 'oeu', 'Oeu032111.1' => 'oeu', 'Oeu051608.1' => 'oeu', 'Os01g0860601' => 'osa', 'Os03g0659200' => 'osa', 'Os03g0835900' => 'osa', 'Os04g0412200' => 'osa', 'Os05g0443500' => 'osa', 'Os07g0251500' => 'osa', 'Os08g0104600' => 'osa', 'Peaxi162Scf00003g00047' => 'pax', 'Peaxi162Scf00003g00052' => 'pax', 'Peaxi162Scf00003g00394' => 'pax', 'Peaxi162Scf00091g00621' => 'pax', 'Peaxi162Scf00152g00146' => 'pax', 'Peaxi162Scf00173g00025' => 'pax', 'Peaxi162Scf00195g00102' => 'pax', 'Peaxi162Scf00402g00013' => 'pax', 'Peaxi162Scf00519g00618' => 'pax', 'PGR004G2838' => 'pgr', 'PGR044G2275' => 'pgr', 'PGR102G1377' => 'pgr', 'PGR119G1245' => 'pgr', 'PGR142G4449' => 'pgr', 'PGSC0003DMG400004532' => 'stu', 'PGSC0003DMG400011950' => 'stu', 'PGSC0003DMG400023391' => 'stu', 'PGSC0003DMG400023985' => 'stu', 'PGSC0003DMG400026360' => 'stu', 'PGSC0003DMG400035711' => 'stu', 'PGSC0003DMG400037286' => 'stu', 'PGSC0003DMG402005881' => 'stu', 'Phvul.002G045400' => 'pvu', 'Phvul.006G216600' => 'pvu', 'Phvul.006G216700' => 'pvu', 'Phvul.006G216800' => 'pvu', 'Phvul.007G022500' => 'pvu', 'Phvul.011G094400' => 'pvu', 'Potri.001G470700' => 'ptr', 'Potri.003G015200' => 'ptr', 'Potri.004G202500' => 'ptr', 'Potri.004G218400' => 'ptr', 'Potri.008G020100' => 'ptr', 'Potri.008G153200' => 'ptr', 'Potri.009G163800' => 'ptr', 'Potri.010G087300' => 'ptr', 'Potri.010G239100' => 'ptr', 'Pp3c10_16100' => 'ppa', 'Pp3c10_16880' => 'ppa', 'Pp3c16_6230' => 'ppa', 'Pp3c17_18910' => 'ppa', 'Pp3c3_22119' => 'ppa', 'Pp3c3_22140' => 'ppa', 'Pp3c4_8159' => 'ppa', 'Pp3c4_8171' => 'ppa', 'Pp3c4_8330' => 'ppa', 'PRCOL_00004098' => 'pco', 'Prupe.1G013900' => 'ppe', 'Prupe.1G226300' => 'ppe', 'Prupe.1G573600' => 'ppe', 'Prupe.6G130100' => 'ppe', 'Psat3g090040' => 'psa', 'Psat4g210440' => 'psa', 'Psat6g231040' => 'psa', 'Psat6g231080' => 'psa', 'Psat7g063000' => 'psa', 'Psat7g188000' => 'psa', 'Psat7g188040' => 'psa', 'PSO017G0206' => 'pso', 'PSO170G0501' => 'pso', 'PSO170G6422' => 'pso', 'PSO210G7739' => 'pso', 'PSO339G1808' => 'pso', 'PSO339G6135' => 'pso', 'PSO384G0010' => 'pso', 'PSO384G0964' => 'pso', 'PSO761G0050' => 'pso', 'PSO782G4085' => 'pso', 'QL01p012264' => 'qlo', 'QL02p099491' => 'qlo', 'QL03p033868' => 'qlo', 'QL04p046678' => 'qlo', 'QL06p002448' => 'qlo', 'RcHm_v2.0_Chr4g0416181' => 'rch', 'RcHm_v2.0_Chr5g0044701' => 'rch', 'RcHm_v2.0_Chr6g0265781' => 'rch', 'RcHm_v2.0_Chr7g0221031' => 'rch', 'Rhsim04G0202000' => 'rsi', 'Rhsim11G0127300' => 'rsi', 'Rhsim13G0111800' => 'rsi', 'Sabra01G0165600' => 'sbr', 'Sabra03G0008300' => 'sbr', 'Sabra04G0136900' => 'sbr', 'Sabra08G0013400' => 'sbr', 'Sabra08G0116800' => 'sbr', 'Sabra09G0128000' => 'sbr', 'Sabra10G0055500' => 'sbr', 'Sabra10G0073300' => 'sbr', 'SalBow3G0385' => 'sbo', 'SalBow3G1119' => 'sbo', 'SalBow3G2005' => 'sbo', 'SalBow6G2563' => 'sbo', 'SalBow6G6386' => 'sbo', 'Sc06g0008800' => 'sci', 'Sc07g0004950' => 'sci', 'Sc09g0005340' => 'sci', 'Sc13g0004410' => 'sci', 'Sc21g0007090' => 'sci', 'Sed0009285' => 'sed', 'Sed0017583' => 'sed', 'Sed0019699' => 'sed', 'Sed0023107' => 'sed', 'SEGI_10916' => 'sgi', 'SEGI_16217' => 'sgi', 'SEGI_19466' => 'sgi', 'SEGI_41115' => 'sgi', 'SGA_v2.0_scaffold111G31534' => 'sas', 'SGA_v2.0_scaffold22G09864' => 'sas', 'SGA_v2.0_scaffold338G49219' => 'sas', 'SGA_v2.0_scaffold92G28298' => 'sas', 'SMO119G0064' => 'smo', 'SMO223G0038' => 'smo', 'SMO347G0584' => 'smo', 'SMO351G0010' => 'smo', 'SMO356G0404' => 'smo', 'Solyc01g103920.3' => 'sly', 'Solyc04g009710.2' => 'sly', 'Solyc05g055280.2' => 'sly', 'Solyc10g044520.3' => 'sly', 'Solyc10g075160.1' => 'sly', 'Solyc11g006910.3' => 'sly', 'Solyc11g068430.3' => 'sly', 'Sopen01g046310' => 'spe', 'Sopen03g001200' => 'spe', 'Sopen04g004830' => 'spe', 'Sopen05g033720' => 'spe', 'Sopen06g030740' => 'spe', 'Sopen10g013090' => 'spe', 'Sopen10g027630' => 'spe', 'Sopen10g027640' => 'spe', 'Sopen11g002820' => 'spe', 'Sopen11g027140' => 'spe', 'Sp1g09680' => 'spa', 'Sp2g03630' => 'spa', 'Sp4g10320' => 'spa', 'Sp6g33400' => 'spa', 'Sp7g13030' => 'spa', 'TAR365G0317' => 'tar', 'TAR376G0979' => 'tar', 'TAR623G1665' => 'tar', 'TAR633G2373' => 'tar', 'TAR636G1400' => 'tar', 'THA.LOC104800529' => 'tha', 'THA.LOC104808547' => 'tha', 'THA.LOC104809615' => 'tha', 'THA.LOC104815724' => 'tha', 'THA.LOC104818480' => 'tha', 'THA.LOC104819179' => 'tha', 'THA.LOC104822270' => 'tha', 'THA.LOC104826425' => 'tha', 'Thecc.02G089700' => 'tca', 'Thecc.04G232300' => 'tca', 'Thecc.09G283400' => 'tca', 'Thhalv10009020m.g' => 'esa', 'Thhalv10015506m.g' => 'esa', 'Thhalv10017364m.g' => 'esa', 'Thhalv10023742m.g' => 'esa', 'Thhalv10026483m.g' => 'esa', 'TPR.G17232' => 'tpr', 'TPR.G2133' => 'tpr', 'TPR.G2498' => 'tpr', 'TPR.G31942' => 'tpr', 'TPR.G37877' => 'tpr', 'TPR.G4571' => 'tpr', 'TWI14G1113' => 'twi', 'TWI15G0426' => 'twi', 'TWI31G1005' => 'twi', 'TWI38G0513' => 'twi', 'TWI38G1484' => 'twi', 'TWI73G1098' => 'twi', 'unitig_26.g10519' => 'ugi', 'unitig_736.g22395' => 'ugi', 'unitig_747.g21234' => 'ugi', 'unitig_747.g21942' => 'ugi', 'vmacro14351' => 'vma', 'VMungo0540G0082' => 'vmu', 'VMungo0540G0405' => 'vmu', 'VMungo0540G1486' => 'vmu', 'VMungo0540G1692' => 'vmu', 'VMungo0720G2473' => 'vmu', 'VMungo1127G1562' => 'vmu', 'VMungo1215G1918' => 'vmu', 'Zm00001eb052650' => 'zma', 'Zm00001eb063710' => 'zma', 'Zm00001eb083950' => 'zma', 'Zm00001eb174420' => 'zma', 'Zm00001eb260140' => 'zma', 'Zm00001eb260150' => 'zma', 'Zm00001eb260160' => 'zma', 'Zm00001eb348290' => 'zma', 'Zm00001eb366870' => 'zma', 'Zm00001eb421930' => 'zma' ) $gf_id = 'HOM05D001025' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001025' ) $data_identifier = 'HOM05D001025' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 19, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 2, 'amhyb' => (int) 4, 'aly' => (int) 4, 'aox' => (int) 4, 'arhy' => (int) 3, 'ath' => (int) 5, 'atr' => (int) 4, 'acertr' => (int) 3, 'cqu' => (int) 7, 'bca' => (int) 17, 'bol' => (int) 10, 'bra' => (int) 9, 'can' => (int) 10, 'cansat' => (int) 6, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 5, 'cbr' => (int) 5, 'ccan' => (int) 5, 'cde' => (int) 4, 'cfa' => (int) 3, 'ccl' => (int) 6, 'cil' => (int) 4, 'cla' => (int) 3, 'col' => (int) 3, 'cpa' => (int) 3, 'cre' => (int) 7, 'csa' => (int) 5, 'camsi' => (int) 9, 'dca' => (int) 4, 'din' => (int) 5, 'dzi' => (int) 7, 'eca' => (int) 6, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 12, 'fve' => (int) 4, 'gma' => (int) 12, 'ghi' => (int) 17, 'gra' => (int) 9, 'vvi' => (int) 2, 'han' => (int) 8, 'cav' => (int) 5, 'hma' => (int) 9, 'vpl' => (int) 4, 'sun' => (int) 2, 'lal' => (int) 9, 'lja' => (int) 5, 'lonja' => (int) 6, 'lsa' => (int) 3, 'mes' => (int) 8, 'mpo' => (int) 3, 'mbi' => (int) 4, 'mco' => (int) 3, 'mdo' => (int) 5, 'mtr' => (int) 7, 'cme' => (int) 6, 'egut' => (int) 7, 'ama' => (int) 3, 'nta' => (int) 12, 'nnu' => (int) 9, 'oeu' => (int) 4, 'osa' => (int) 7, 'pax' => (int) 9, 'pgr' => (int) 5, 'stu' => (int) 8, 'pvu' => (int) 6, 'ptr' => (int) 9, 'ppa' => (int) 9, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 7, 'pso' => (int) 10, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 3, 'sbr' => (int) 8, 'sbo' => (int) 5, 'sci' => (int) 5, 'sed' => (int) 4, 'sgi' => (int) 4, 'sas' => (int) 4, 'smo' => (int) 5, 'sly' => (int) 7, 'spe' => (int) 10, 'spa' => (int) 5, 'tar' => (int) 5, 'tha' => (int) 8, 'tca' => (int) 3, 'esa' => (int) 5, 'tpr' => (int) 6, 'twi' => (int) 6, 'ugi' => (int) 4, 'vma' => (int) 1, 'vmu' => (int) 7, 'zma' => (int) 10 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb421930' $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' => 'HOM05D001025', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '592', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p22650' => 'bna', 'A01p29720' => 'bna', 'A03p26560' => 'bna', 'A03p68820' => 'bna', 'A04p20980' => 'bna', 'A06p07730' => 'bna', 'A07p18260' => 'bna', 'A08p33710' => 'bna', 'A09p16970' => 'bna', 'A10p27490' => 'bna', 'Aa31LG1G17300' => 'aar', 'Aa31LG1G3910' => 'aar', 'Aa31LG2G9630' => 'aar', 'Aa31LG5G8360' => 'aar', 'Aa31LG9G2410' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4699' => 'aag', 'Actinidia23512' => 'ach', 'Actinidia37080' => 'ach', 'Ah.01g020380' => 'amhyb', 'Ah.08g215710' => 'amhyb', 'Ah.09g225110' => 'amhyb', 'Ah.10g036680' => 'amhyb', 'AL1G21940' => 'aly', 'AL2G15540' => 'aly', 'AL4G21520' => 'aly', 'AL7G40960' => 'aly', 'Aqoxy2G01191' => 'aox', 'Aqoxy2G03393' => 'aox', 'Aqoxy4G02775' => 'aox', 'Aqoxy6G00058' => 'aox', 'arahy.Tifrunner.gnm1.ann1.9X74H2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CW3FX9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R485W7' => 'arhy', 'AT1G10960' => 'ath', 'AT1G60950' => 'ath', 'AT2G27510' => 'ath', 'AT4G14890' => 'ath', 'AT5G10000' => 'ath', 'ATR0665G624' => 'atr', 'ATR0697G138' => 'atr', 'ATR0776G046' => 'atr', 'ATR1134G135' => 'atr', 'Atru.chr12.1025' => 'acertr', 'Atru.chr3.3241' => 'acertr', 'Atru.chr4.2460' => 'acertr', 'AUR62007427' => 'cqu', 'AUR62010960' => 'cqu', 'AUR62012201' => 'cqu', 'AUR62021470' => 'cqu', 'AUR62022834' => 'cqu', 'AUR62033635' => 'cqu', 'AUR62036186' => 'cqu', 'BcaB01g03077' => 'bca', 'BcaB02g10093' => 'bca', 'BcaB04g20295' => 'bca', 'BcaB06g28147' => 'bca', 'BcaB07g31253' => 'bca', 'BcaC01g04946' => 'bca', 'BcaC02g10614' => 'bca', 'BcaC02g10885' => 'bca', 'BcaC04g19356' => 'bca', 'BcaC04g22297' => 'bca', 'BcaC05g24977' => 'bca', 'BcaC06g31823' => 'bca', 'BcaC07g38633' => 'bca', 'BcaC09g49353' => 'bca', 'BcaC09g50168' => 'bca', 'BcaNung00322' => 'bca', 'BcaNung04769' => 'bca', 'BolC1t02753H' => 'bol', 'BolC1t03721H' => 'bol', 'BolC3t15525H' => 'bol', 'BolC4t23903H' => 'bol', 'BolC4t24231H' => 'bol', 'BolC4t27209H' => 'bol', 'BolC5t29671H' => 'bol', 'BolC8t49044H' => 'bol', 'BolC9t54999H' => 'bol', 'BolC9t59517H' => 'bol', 'BraA01t02178Z' => 'bra', 'BraA01t03099Z' => 'bra', 'BraA03t11867Z' => 'bra', 'BraA04t17667Z' => 'bra', 'BraA07t29542Z' => 'bra', 'BraA08t35287Z' => 'bra', 'BraA09t37334Z' => 'bra', 'BraA10t44801Z' => 'bra', 'BraSC39t46181Z' => 'bra', 'C01p28240' => 'bna', 'C01p37530' => 'bna', 'C03p31820' => 'bna', 'C04p24080' => 'bna', 'C04p25790' => 'bna', 'C04p56770' => 'bna', 'C05p09310' => 'bna', 'C09p21010' => 'bna', 'C09p67560' => 'bna', 'CAN.G1324.7' => 'can', 'CAN.G1358.10' => 'can', 'CAN.G1550.2' => 'can', 'CAN.G186.56' => 'can', 'CAN.G1965.1' => 'can', 'CAN.G645.15' => 'can', 'CAN.G798.26' => 'can', 'CAN.G798.27' => 'can', 'CAN.G798.29' => 'can', 'CAN.G919.31' => 'can', 'CANSAT11G0133' => 'cansat', 'CANSAT11G1171' => 'cansat', 'CANSAT11G2056' => 'cansat', 'CANSAT56G1202' => 'cansat', 'CANSAT56G1514' => 'cansat', 'CANSAT78G0455' => 'cansat', 'CARHR011190' => 'chi', 'CARHR051980' => 'chi', 'CARHR120170' => 'chi', 'CARHR203310' => 'chi', 'CARHR221490' => 'chi', 'Carub.0001s1054' => 'cru', 'Carub.0002s0431' => 'cru', 'Carub.0004s0818' => 'cru', 'Carub.0006s0846' => 'cru', 'Carub.0007s2722' => 'cru', 'Ca_00058_v3' => 'car', 'Ca_17831_v3' => 'car', 'Ca_19408_v3' => 'car', 'Ca_24397_v3' => 'car', 'Ca_25664_v3' => 'car', 'CBR_g21818' => 'cbr', 'CBR_g31195' => 'cbr', 'CBR_g32282' => 'cbr', 'CBR_g39599' => 'cbr', 'CBR_g49410' => 'cbr', 'Cc01_g09120' => 'ccan', 'Cc01_g09130' => 'ccan', 'Cc02_g09630' => 'ccan', 'Cc02_g22810' => 'ccan', 'Cc03_g03810' => 'ccan', 'CDE02G3718' => 'cde', 'CDE04G3183' => 'cde', 'CDE07G1046' => 'cde', 'CDE08G0480' => 'cde', 'Cfa005493' => 'cfa', 'Cfa010312' => 'cfa', 'Cfa015648' => 'cfa', 'Ciclev10002793m.g' => 'ccl', 'Ciclev10003356m.g' => 'ccl', 'Ciclev10006141m.g' => 'ccl', 'Ciclev10016676m.g' => 'ccl', 'Ciclev10017081m.g' => 'ccl', 'Ciclev10029499m.g' => 'ccl', 'CiPaw.01G166300' => 'cil', 'CiPaw.06G145600' => 'cil', 'CiPaw.13G040100' => 'cil', 'CiPaw.13G135800' => 'cil', 'ClCG01G012230' => 'cla', 'ClCG05G009510' => 'cla', 'ClCG08G008270' => 'cla', 'COL.COLO4_11763' => 'col', 'COL.COLO4_19876' => 'col', 'COL.COLO4_21481' => 'col', 'Cpa.g.sc118.34' => 'cpa', 'Cpa.g.sc32.13' => 'cpa', 'Cpa.g.sc58.103' => 'cpa', 'Cre03.g183850' => 'cre', 'Cre06.g306350' => 'cre', 'Cre07.g334800' => 'cre', 'Cre12.g487900' => 'cre', 'Cre14.g626700' => 'cre', 'Cre16.g658400' => 'cre', 'Cre17.g700950' => 'cre', 'CsaV3_1G014830' => 'csa', 'CsaV3_3G013320' => 'csa', 'CsaV3_3G019210' => 'csa', 'CsaV3_3G019220' => 'csa', 'CsaV3_6G004230' => 'csa', 'CSS0003773' => 'camsi', 'CSS0004563' => 'camsi', 'CSS0013949' => 'camsi', 'CSS0025971' => 'camsi', 'CSS0028570' => 'camsi', 'CSS0033127' => 'camsi', 'CSS0036051' => 'camsi', 'CSS0040087' => 'camsi', 'CSS0043179' => 'camsi', 'DCAR_006161' => 'dca', 'DCAR_010351' => 'dca', 'DCAR_012197' => 'dca', 'DCAR_024162' => 'dca', 'Dinv01030' => 'din', 'Dinv10924' => 'din', 'Dinv11835' => 'din', 'Dinv22841' => 'din', 'Dinv42553' => 'din', 'Duzib052G0560' => 'dzi', 'Duzib132G0389' => 'dzi', 'Duzib150G1181' => 'dzi', 'Duzib168G0623' => 'dzi', 'Duzib170G1036' => 'dzi', 'Duzib212G0200' => 'dzi', 'Duzib248G0194' => 'dzi', 'ECA232G2193' => 'eca', 'ECA233G0302' => 'eca', 'ECA234G2813' => 'eca', 'ECA234G4866' => 'eca', 'ECA240G3932' => 'eca', 'ECA248G0385' => 'eca', 'EL10Ac2g04781' => 'bvu', 'EL10Ac3g06445' => 'bvu', 'EL10Ac7g15825' => 'bvu', 'EL10Ac8g18550' => 'bvu', 'Eucgr.B03849' => 'egr', 'Eucgr.I02744' => 'egr', 'Eucgr.J00264' => 'egr', 'Eucgr.J00493' => 'egr', 'FAN04G2181' => 'fan', 'FAN07G2666' => 'fan', 'FAN11G0024' => 'fan', 'FAN12G1105' => 'fan', 'FAN13G0302' => 'fan', 'FAN15G2781' => 'fan', 'FAN16G1274' => 'fan', 'FAN17G2988' => 'fan', 'FAN18G2621' => 'fan', 'FAN21G0013' => 'fan', 'FAN22G1211' => 'fan', 'FAN25G3626' => 'fan', 'FvH4_2g09491' => 'fve', 'FvH4_3g24910' => 'fve', 'FvH4_4g15630' => 'fve', 'FvH4_5g28820' => 'fve', 'Glyma.01G238000' => 'gma', 'Glyma.05G168400' => 'gma', 'Glyma.08G126800' => 'gma', 'Glyma.08G188500' => 'gma', 'Glyma.10G278900' => 'gma', 'Glyma.11G005700' => 'gma', 'Glyma.11G183300' => 'gma', 'Glyma.12G089200' => 'gma', 'Glyma.12G169400' => 'gma', 'Glyma.12G169500' => 'gma', 'Glyma.12G169600' => 'gma', 'Glyma.20G110800' => 'gma', 'Gohir.A03G192900' => 'ghi', 'Gohir.A03G193000' => 'ghi', 'Gohir.A05G080700' => 'ghi', 'Gohir.A09G216000' => 'ghi', 'Gohir.A12G027700' => 'ghi', 'Gohir.A13G036200' => 'ghi', 'Gohir.A13G222600' => 'ghi', 'Gohir.D02G213900' => 'ghi', 'Gohir.D02G214000' => 'ghi', 'Gohir.D05G083700' => 'ghi', 'Gohir.D05G083800' => 'ghi', 'Gohir.D05G083850' => 'ghi', 'Gohir.D08G015400' => 'ghi', 'Gohir.D09G218400' => 'ghi', 'Gohir.D12G027100' => 'ghi', 'Gohir.D13G034500' => 'ghi', 'Gohir.D13G227400' => 'ghi', 'Gorai.005G241800' => 'gra', 'Gorai.005G241900' => 'gra', 'Gorai.006G239400' => 'gra', 'Gorai.008G027600' => 'gra', 'Gorai.009G085400' => 'gra', 'Gorai.009G085500' => 'gra', 'Gorai.013G039000' => 'gra', 'Gorai.013G194800' => 'gra', 'Gorai.013G257900' => 'gra', 'GSVIVG01000982001' => 'vvi', 'GSVIVG01017981001' => 'vvi', 'HanXRQChr01g0024061' => 'han', 'HanXRQChr09g0247831' => 'han', 'HanXRQChr10g0294611' => 'han', 'HanXRQChr10g0294621' => 'han', 'HanXRQChr11g0346821' => 'han', 'HanXRQChr13g0397461' => 'han', 'HanXRQChr16g0513651' => 'han', 'HanXRQChr16g0513701' => 'han', 'Haze_00897' => 'cav', 'Haze_01745' => 'cav', 'Haze_02486' => 'cav', 'Haze_02487' => 'cav', 'Haze_23374' => 'cav', 'Hma1.2p1_0578F.1_g182520' => 'hma', 'Hma1.2p1_0602F.1_g187350' => 'hma', 'Hma1.2p1_0602F.1_g187360' => 'hma', 'Hma1.2p1_0874F.1_g231320' => 'hma', 'Hma1.2p1_1197F.1_g266210' => 'hma', 'Hma1.2p1_1197F.1_g266220' => 'hma', 'Hma1.2p1_2167F.1_g315895' => 'hma', 'Hma1.2p1_2190F.1_g316640' => 'hma', 'Hma1.2p1_3645F.1_g337153' => 'hma', 'HPP92_004907' => 'vpl', 'HPP92_012134' => 'vpl', 'HPP92_025136' => 'vpl', 'HPP92_026087' => 'vpl', 'Hund06782' => 'sun', 'Hund06784' => 'sun', 'Lalb_Chr01g0004861' => 'lal', 'Lalb_Chr02g0140591' => 'lal', 'Lalb_Chr02g0140611' => 'lal', 'Lalb_Chr03g0028101' => 'lal', 'Lalb_Chr07g0185791' => 'lal', 'Lalb_Chr12g0204491' => 'lal', 'Lalb_Chr13g0295671' => 'lal', 'Lalb_Chr19g0136461' => 'lal', 'Lalb_Chr21g0309191' => 'lal', 'Lj1g0028158' => 'lja', 'Lj1P236T38' => 'lonja', 'Lj2C32G2' => 'lonja', 'Lj2P944T8' => 'lonja', 'Lj2P963T15' => 'lonja', 'Lj3g0011788' => 'lja', 'Lj4g0025027' => 'lja', 'Lj5P255T36' => 'lonja', 'Lj6g0018866' => 'lja', 'Lj6P608T31' => 'lonja', 'LjContig00408g0008879' => 'lja', 'Lsat_1_v5_gn_5_105820' => 'lsa', 'Lsat_1_v5_gn_6_38800' => 'lsa', 'Lsat_1_v5_gn_7_67141' => 'lsa', 'Manes.04G003400' => 'mes', 'Manes.07G020000' => 'mes', 'Manes.07G020100' => 'mes', 'Manes.07G020150' => 'mes', 'Manes.10G061500' => 'mes', 'Manes.10G123200' => 'mes', 'Manes.11G161900' => 'mes', 'Manes.15G029300' => 'mes', 'Mapoly0071s0018' => 'mpo', 'Mapoly0082s0023' => 'mpo', 'Mapoly3477s0001' => 'mpo', 'MBI05_g31233_MAGBIO' => 'mbi', 'MBI09_g05946_MAGBIO' => 'mbi', 'MBI09_g05947_MAGBIO' => 'mbi', 'MBI17_g08346_MAGBIO' => 'mbi', 'MCO04G038' => 'mco', 'MCO09G370' => 'mco', 'MCO13G605' => 'mco', 'MD00G1075500' => 'mdo', 'MD03G1144300' => 'mdo', 'MD08G1236800' => 'mdo', 'MD13G1193300' => 'mdo', 'MD15G1428700' => 'mdo', 'Medtr1g112030' => 'mtr', 'Medtr1g112050' => 'mtr', 'Medtr2g006290' => 'mtr', 'Medtr2g086510' => 'mtr', 'Medtr4g053120' => 'mtr', 'Medtr5g006320' => 'mtr', 'Medtr8g088720' => 'mtr', 'MELO3C004712.2' => 'cme', 'MELO3C006533.2' => 'cme', 'MELO3C019438.2' => 'cme', 'MELO3C019440.2' => 'cme', 'MELO3C019441.2' => 'cme', 'MELO3C019895.2' => 'cme', 'Migut.B00811' => 'egut', 'Migut.D02447' => 'egut', 'Migut.F00875' => 'egut', 'Migut.N00186' => 'egut', 'Migut.N01051' => 'egut', 'Migut.N02491' => 'egut', 'Migut.O00784' => 'egut', 'MSTRG.12367' => 'ama', 'MSTRG.18756' => 'ama', 'MSTRG.21042' => 'ama', 'Nitab4.5_0000559g0040' => 'nta', 'Nitab4.5_0000667g0190' => 'nta', 'Nitab4.5_0000755g0160' => 'nta', 'Nitab4.5_0001216g0080' => 'nta', 'Nitab4.5_0004069g0040' => 'nta', 'Nitab4.5_0004129g0010' => 'nta', 'Nitab4.5_0005744g0030' => 'nta', 'Nitab4.5_0006996g0030' => 'nta', 'Nitab4.5_0008971g0040' => 'nta', 'Nitab4.5_0009769g0020' => 'nta', 'Nitab4.5_0009833g0010' => 'nta', 'Nitab4.5_0013140g0020' => 'nta', 'Nn003s41376' => 'nnu', 'Nn1g01857' => 'nnu', 'Nn1g03611' => 'nnu', 'Nn1g06853' => 'nnu', 'Nn3g18360' => 'nnu', 'Nn4g26328' => 'nnu', 'Nn5g27531' => 'nnu', 'Nn6g34899' => 'nnu', 'Nn7g36299' => 'nnu', 'Oeu021485.1' => 'oeu', 'Oeu022433.1' => 'oeu', 'Oeu032111.1' => 'oeu', 'Oeu051608.1' => 'oeu', 'Os01g0860601' => 'osa', 'Os03g0659200' => 'osa', 'Os03g0835900' => 'osa', 'Os04g0412200' => 'osa', 'Os05g0443500' => 'osa', 'Os07g0251500' => 'osa', 'Os08g0104600' => 'osa', 'Peaxi162Scf00003g00047' => 'pax', 'Peaxi162Scf00003g00052' => 'pax', 'Peaxi162Scf00003g00394' => 'pax', 'Peaxi162Scf00091g00621' => 'pax', 'Peaxi162Scf00152g00146' => 'pax', 'Peaxi162Scf00173g00025' => 'pax', 'Peaxi162Scf00195g00102' => 'pax', 'Peaxi162Scf00402g00013' => 'pax', 'Peaxi162Scf00519g00618' => 'pax', 'PGR004G2838' => 'pgr', 'PGR044G2275' => 'pgr', 'PGR102G1377' => 'pgr', 'PGR119G1245' => 'pgr', 'PGR142G4449' => 'pgr', 'PGSC0003DMG400004532' => 'stu', 'PGSC0003DMG400011950' => 'stu', 'PGSC0003DMG400023391' => 'stu', 'PGSC0003DMG400023985' => 'stu', 'PGSC0003DMG400026360' => 'stu', 'PGSC0003DMG400035711' => 'stu', 'PGSC0003DMG400037286' => 'stu', 'PGSC0003DMG402005881' => 'stu', 'Phvul.002G045400' => 'pvu', 'Phvul.006G216600' => 'pvu', 'Phvul.006G216700' => 'pvu', 'Phvul.006G216800' => 'pvu', 'Phvul.007G022500' => 'pvu', 'Phvul.011G094400' => 'pvu', 'Potri.001G470700' => 'ptr', 'Potri.003G015200' => 'ptr', 'Potri.004G202500' => 'ptr', 'Potri.004G218400' => 'ptr', 'Potri.008G020100' => 'ptr', 'Potri.008G153200' => 'ptr', 'Potri.009G163800' => 'ptr', 'Potri.010G087300' => 'ptr', 'Potri.010G239100' => 'ptr', 'Pp3c10_16100' => 'ppa', 'Pp3c10_16880' => 'ppa', 'Pp3c16_6230' => 'ppa', 'Pp3c17_18910' => 'ppa', 'Pp3c3_22119' => 'ppa', 'Pp3c3_22140' => 'ppa', 'Pp3c4_8159' => 'ppa', 'Pp3c4_8171' => 'ppa', 'Pp3c4_8330' => 'ppa', 'PRCOL_00004098' => 'pco', 'Prupe.1G013900' => 'ppe', 'Prupe.1G226300' => 'ppe', 'Prupe.1G573600' => 'ppe', 'Prupe.6G130100' => 'ppe', 'Psat3g090040' => 'psa', 'Psat4g210440' => 'psa', 'Psat6g231040' => 'psa', 'Psat6g231080' => 'psa', 'Psat7g063000' => 'psa', 'Psat7g188000' => 'psa', 'Psat7g188040' => 'psa', 'PSO017G0206' => 'pso', 'PSO170G0501' => 'pso', 'PSO170G6422' => 'pso', 'PSO210G7739' => 'pso', 'PSO339G1808' => 'pso', 'PSO339G6135' => 'pso', 'PSO384G0010' => 'pso', 'PSO384G0964' => 'pso', 'PSO761G0050' => 'pso', 'PSO782G4085' => 'pso', 'QL01p012264' => 'qlo', 'QL02p099491' => 'qlo', 'QL03p033868' => 'qlo', 'QL04p046678' => 'qlo', 'QL06p002448' => 'qlo', 'RcHm_v2.0_Chr4g0416181' => 'rch', 'RcHm_v2.0_Chr5g0044701' => 'rch', 'RcHm_v2.0_Chr6g0265781' => 'rch', 'RcHm_v2.0_Chr7g0221031' => 'rch', 'Rhsim04G0202000' => 'rsi', 'Rhsim11G0127300' => 'rsi', 'Rhsim13G0111800' => 'rsi', 'Sabra01G0165600' => 'sbr', 'Sabra03G0008300' => 'sbr', 'Sabra04G0136900' => 'sbr', 'Sabra08G0013400' => 'sbr', 'Sabra08G0116800' => 'sbr', 'Sabra09G0128000' => 'sbr', 'Sabra10G0055500' => 'sbr', 'Sabra10G0073300' => 'sbr', 'SalBow3G0385' => 'sbo', 'SalBow3G1119' => 'sbo', 'SalBow3G2005' => 'sbo', 'SalBow6G2563' => 'sbo', 'SalBow6G6386' => 'sbo', 'Sc06g0008800' => 'sci', 'Sc07g0004950' => 'sci', 'Sc09g0005340' => 'sci', 'Sc13g0004410' => 'sci', 'Sc21g0007090' => 'sci', 'Sed0009285' => 'sed', 'Sed0017583' => 'sed', 'Sed0019699' => 'sed', 'Sed0023107' => 'sed', 'SEGI_10916' => 'sgi', 'SEGI_16217' => 'sgi', 'SEGI_19466' => 'sgi', 'SEGI_41115' => 'sgi', 'SGA_v2.0_scaffold111G31534' => 'sas', 'SGA_v2.0_scaffold22G09864' => 'sas', 'SGA_v2.0_scaffold338G49219' => 'sas', 'SGA_v2.0_scaffold92G28298' => 'sas', 'SMO119G0064' => 'smo', 'SMO223G0038' => 'smo', 'SMO347G0584' => 'smo', 'SMO351G0010' => 'smo', 'SMO356G0404' => 'smo', 'Solyc01g103920.3' => 'sly', 'Solyc04g009710.2' => 'sly', 'Solyc05g055280.2' => 'sly', 'Solyc10g044520.3' => 'sly', 'Solyc10g075160.1' => 'sly', 'Solyc11g006910.3' => 'sly', 'Solyc11g068430.3' => 'sly', 'Sopen01g046310' => 'spe', 'Sopen03g001200' => 'spe', 'Sopen04g004830' => 'spe', 'Sopen05g033720' => 'spe', 'Sopen06g030740' => 'spe', 'Sopen10g013090' => 'spe', 'Sopen10g027630' => 'spe', 'Sopen10g027640' => 'spe', 'Sopen11g002820' => 'spe', 'Sopen11g027140' => 'spe', 'Sp1g09680' => 'spa', 'Sp2g03630' => 'spa', 'Sp4g10320' => 'spa', 'Sp6g33400' => 'spa', 'Sp7g13030' => 'spa', 'TAR365G0317' => 'tar', 'TAR376G0979' => 'tar', 'TAR623G1665' => 'tar', 'TAR633G2373' => 'tar', 'TAR636G1400' => 'tar', 'THA.LOC104800529' => 'tha', 'THA.LOC104808547' => 'tha', 'THA.LOC104809615' => 'tha', 'THA.LOC104815724' => 'tha', 'THA.LOC104818480' => 'tha', 'THA.LOC104819179' => 'tha', 'THA.LOC104822270' => 'tha', 'THA.LOC104826425' => 'tha', 'Thecc.02G089700' => 'tca', 'Thecc.04G232300' => 'tca', 'Thecc.09G283400' => 'tca', 'Thhalv10009020m.g' => 'esa', 'Thhalv10015506m.g' => 'esa', 'Thhalv10017364m.g' => 'esa', 'Thhalv10023742m.g' => 'esa', 'Thhalv10026483m.g' => 'esa', 'TPR.G17232' => 'tpr', 'TPR.G2133' => 'tpr', 'TPR.G2498' => 'tpr', 'TPR.G31942' => 'tpr', 'TPR.G37877' => 'tpr', 'TPR.G4571' => 'tpr', 'TWI14G1113' => 'twi', 'TWI15G0426' => 'twi', 'TWI31G1005' => 'twi', 'TWI38G0513' => 'twi', 'TWI38G1484' => 'twi', 'TWI73G1098' => 'twi', 'unitig_26.g10519' => 'ugi', 'unitig_736.g22395' => 'ugi', 'unitig_747.g21234' => 'ugi', 'unitig_747.g21942' => 'ugi', 'vmacro14351' => 'vma', 'VMungo0540G0082' => 'vmu', 'VMungo0540G0405' => 'vmu', 'VMungo0540G1486' => 'vmu', 'VMungo0540G1692' => 'vmu', 'VMungo0720G2473' => 'vmu', 'VMungo1127G1562' => 'vmu', 'VMungo1215G1918' => 'vmu', 'Zm00001eb052650' => 'zma', 'Zm00001eb063710' => 'zma', 'Zm00001eb083950' => 'zma', 'Zm00001eb174420' => 'zma', 'Zm00001eb260140' => 'zma', 'Zm00001eb260150' => 'zma', 'Zm00001eb260160' => 'zma', 'Zm00001eb348290' => 'zma', 'Zm00001eb366870' => 'zma', 'Zm00001eb421930' => 'zma' ), 'gf_id' => 'HOM05D001025', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001025' ), 'data_identifier' => 'HOM05D001025', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001025', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '592', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p22650' => 'bna', 'A01p29720' => 'bna', 'A03p26560' => 'bna', 'A03p68820' => 'bna', 'A04p20980' => 'bna', 'A06p07730' => 'bna', 'A07p18260' => 'bna', 'A08p33710' => 'bna', 'A09p16970' => 'bna', 'A10p27490' => 'bna', 'Aa31LG1G17300' => 'aar', 'Aa31LG1G3910' => 'aar', 'Aa31LG2G9630' => 'aar', 'Aa31LG5G8360' => 'aar', 'Aa31LG9G2410' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4699' => 'aag', 'Actinidia23512' => 'ach', 'Actinidia37080' => 'ach', 'Ah.01g020380' => 'amhyb', 'Ah.08g215710' => 'amhyb', 'Ah.09g225110' => 'amhyb', 'Ah.10g036680' => 'amhyb', 'AL1G21940' => 'aly', 'AL2G15540' => 'aly', 'AL4G21520' => 'aly', 'AL7G40960' => 'aly', 'Aqoxy2G01191' => 'aox', 'Aqoxy2G03393' => 'aox', 'Aqoxy4G02775' => 'aox', 'Aqoxy6G00058' => 'aox', 'arahy.Tifrunner.gnm1.ann1.9X74H2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CW3FX9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R485W7' => 'arhy', 'AT1G10960' => 'ath', 'AT1G60950' => 'ath', 'AT2G27510' => 'ath', 'AT4G14890' => 'ath', 'AT5G10000' => 'ath', 'ATR0665G624' => 'atr', 'ATR0697G138' => 'atr', 'ATR0776G046' => 'atr', 'ATR1134G135' => 'atr', 'Atru.chr12.1025' => 'acertr', 'Atru.chr3.3241' => 'acertr', 'Atru.chr4.2460' => 'acertr', 'AUR62007427' => 'cqu', 'AUR62010960' => 'cqu', 'AUR62012201' => 'cqu', 'AUR62021470' => 'cqu', 'AUR62022834' => 'cqu', 'AUR62033635' => 'cqu', 'AUR62036186' => 'cqu', 'BcaB01g03077' => 'bca', 'BcaB02g10093' => 'bca', 'BcaB04g20295' => 'bca', 'BcaB06g28147' => 'bca', 'BcaB07g31253' => 'bca', 'BcaC01g04946' => 'bca', 'BcaC02g10614' => 'bca', 'BcaC02g10885' => 'bca', 'BcaC04g19356' => 'bca', 'BcaC04g22297' => 'bca', 'BcaC05g24977' => 'bca', 'BcaC06g31823' => 'bca', 'BcaC07g38633' => 'bca', 'BcaC09g49353' => 'bca', 'BcaC09g50168' => 'bca', 'BcaNung00322' => 'bca', 'BcaNung04769' => 'bca', 'BolC1t02753H' => 'bol', 'BolC1t03721H' => 'bol', 'BolC3t15525H' => 'bol', 'BolC4t23903H' => 'bol', 'BolC4t24231H' => 'bol', 'BolC4t27209H' => 'bol', 'BolC5t29671H' => 'bol', 'BolC8t49044H' => 'bol', 'BolC9t54999H' => 'bol', 'BolC9t59517H' => 'bol', 'BraA01t02178Z' => 'bra', 'BraA01t03099Z' => 'bra', 'BraA03t11867Z' => 'bra', 'BraA04t17667Z' => 'bra', 'BraA07t29542Z' => 'bra', 'BraA08t35287Z' => 'bra', 'BraA09t37334Z' => 'bra', 'BraA10t44801Z' => 'bra', 'BraSC39t46181Z' => 'bra', 'C01p28240' => 'bna', 'C01p37530' => 'bna', 'C03p31820' => 'bna', 'C04p24080' => 'bna', 'C04p25790' => 'bna', 'C04p56770' => 'bna', 'C05p09310' => 'bna', 'C09p21010' => 'bna', 'C09p67560' => 'bna', 'CAN.G1324.7' => 'can', 'CAN.G1358.10' => 'can', 'CAN.G1550.2' => 'can', 'CAN.G186.56' => 'can', 'CAN.G1965.1' => 'can', 'CAN.G645.15' => 'can', 'CAN.G798.26' => 'can', 'CAN.G798.27' => 'can', 'CAN.G798.29' => 'can', 'CAN.G919.31' => 'can', 'CANSAT11G0133' => 'cansat', 'CANSAT11G1171' => 'cansat', 'CANSAT11G2056' => 'cansat', 'CANSAT56G1202' => 'cansat', 'CANSAT56G1514' => 'cansat', 'CANSAT78G0455' => 'cansat', 'CARHR011190' => 'chi', 'CARHR051980' => 'chi', 'CARHR120170' => 'chi', 'CARHR203310' => 'chi', 'CARHR221490' => 'chi', 'Carub.0001s1054' => 'cru', 'Carub.0002s0431' => 'cru', 'Carub.0004s0818' => 'cru', 'Carub.0006s0846' => 'cru', 'Carub.0007s2722' => 'cru', 'Ca_00058_v3' => 'car', 'Ca_17831_v3' => 'car', 'Ca_19408_v3' => 'car', 'Ca_24397_v3' => 'car', 'Ca_25664_v3' => 'car', 'CBR_g21818' => 'cbr', 'CBR_g31195' => 'cbr', 'CBR_g32282' => 'cbr', 'CBR_g39599' => 'cbr', 'CBR_g49410' => 'cbr', 'Cc01_g09120' => 'ccan', 'Cc01_g09130' => 'ccan', 'Cc02_g09630' => 'ccan', 'Cc02_g22810' => 'ccan', 'Cc03_g03810' => 'ccan', 'CDE02G3718' => 'cde', 'CDE04G3183' => 'cde', 'CDE07G1046' => 'cde', 'CDE08G0480' => 'cde', 'Cfa005493' => 'cfa', 'Cfa010312' => 'cfa', 'Cfa015648' => 'cfa', 'Ciclev10002793m.g' => 'ccl', 'Ciclev10003356m.g' => 'ccl', 'Ciclev10006141m.g' => 'ccl', 'Ciclev10016676m.g' => 'ccl', 'Ciclev10017081m.g' => 'ccl', 'Ciclev10029499m.g' => 'ccl', 'CiPaw.01G166300' => 'cil', 'CiPaw.06G145600' => 'cil', 'CiPaw.13G040100' => 'cil', 'CiPaw.13G135800' => 'cil', 'ClCG01G012230' => 'cla', 'ClCG05G009510' => 'cla', 'ClCG08G008270' => 'cla', 'COL.COLO4_11763' => 'col', 'COL.COLO4_19876' => 'col', 'COL.COLO4_21481' => 'col', 'Cpa.g.sc118.34' => 'cpa', 'Cpa.g.sc32.13' => 'cpa', 'Cpa.g.sc58.103' => 'cpa', 'Cre03.g183850' => 'cre', 'Cre06.g306350' => 'cre', 'Cre07.g334800' => 'cre', 'Cre12.g487900' => 'cre', 'Cre14.g626700' => 'cre', 'Cre16.g658400' => 'cre', 'Cre17.g700950' => 'cre', 'CsaV3_1G014830' => 'csa', 'CsaV3_3G013320' => 'csa', 'CsaV3_3G019210' => 'csa', 'CsaV3_3G019220' => 'csa', 'CsaV3_6G004230' => 'csa', 'CSS0003773' => 'camsi', 'CSS0004563' => 'camsi', 'CSS0013949' => 'camsi', 'CSS0025971' => 'camsi', 'CSS0028570' => 'camsi', 'CSS0033127' => 'camsi', 'CSS0036051' => 'camsi', 'CSS0040087' => 'camsi', 'CSS0043179' => 'camsi', 'DCAR_006161' => 'dca', 'DCAR_010351' => 'dca', 'DCAR_012197' => 'dca', 'DCAR_024162' => 'dca', 'Dinv01030' => 'din', 'Dinv10924' => 'din', 'Dinv11835' => 'din', 'Dinv22841' => 'din', 'Dinv42553' => 'din', 'Duzib052G0560' => 'dzi', 'Duzib132G0389' => 'dzi', 'Duzib150G1181' => 'dzi', 'Duzib168G0623' => 'dzi', 'Duzib170G1036' => 'dzi', 'Duzib212G0200' => 'dzi', 'Duzib248G0194' => 'dzi', 'ECA232G2193' => 'eca', 'ECA233G0302' => 'eca', 'ECA234G2813' => 'eca', 'ECA234G4866' => 'eca', 'ECA240G3932' => 'eca', 'ECA248G0385' => 'eca', 'EL10Ac2g04781' => 'bvu', 'EL10Ac3g06445' => 'bvu', 'EL10Ac7g15825' => 'bvu', 'EL10Ac8g18550' => 'bvu', 'Eucgr.B03849' => 'egr', 'Eucgr.I02744' => 'egr', 'Eucgr.J00264' => 'egr', 'Eucgr.J00493' => 'egr', 'FAN04G2181' => 'fan', 'FAN07G2666' => 'fan', 'FAN11G0024' => 'fan', 'FAN12G1105' => 'fan', 'FAN13G0302' => 'fan', 'FAN15G2781' => 'fan', 'FAN16G1274' => 'fan', 'FAN17G2988' => 'fan', 'FAN18G2621' => 'fan', 'FAN21G0013' => 'fan', 'FAN22G1211' => 'fan', 'FAN25G3626' => 'fan', 'FvH4_2g09491' => 'fve', 'FvH4_3g24910' => 'fve', 'FvH4_4g15630' => 'fve', 'FvH4_5g28820' => 'fve', 'Glyma.01G238000' => 'gma', 'Glyma.05G168400' => 'gma', 'Glyma.08G126800' => 'gma', 'Glyma.08G188500' => 'gma', 'Glyma.10G278900' => 'gma', 'Glyma.11G005700' => 'gma', 'Glyma.11G183300' => 'gma', 'Glyma.12G089200' => 'gma', 'Glyma.12G169400' => 'gma', 'Glyma.12G169500' => 'gma', 'Glyma.12G169600' => 'gma', 'Glyma.20G110800' => 'gma', 'Gohir.A03G192900' => 'ghi', 'Gohir.A03G193000' => 'ghi', 'Gohir.A05G080700' => 'ghi', 'Gohir.A09G216000' => 'ghi', 'Gohir.A12G027700' => 'ghi', 'Gohir.A13G036200' => 'ghi', 'Gohir.A13G222600' => 'ghi', 'Gohir.D02G213900' => 'ghi', 'Gohir.D02G214000' => 'ghi', 'Gohir.D05G083700' => 'ghi', 'Gohir.D05G083800' => 'ghi', 'Gohir.D05G083850' => 'ghi', 'Gohir.D08G015400' => 'ghi', 'Gohir.D09G218400' => 'ghi', 'Gohir.D12G027100' => 'ghi', 'Gohir.D13G034500' => 'ghi', 'Gohir.D13G227400' => 'ghi', 'Gorai.005G241800' => 'gra', 'Gorai.005G241900' => 'gra', 'Gorai.006G239400' => 'gra', 'Gorai.008G027600' => 'gra', 'Gorai.009G085400' => 'gra', 'Gorai.009G085500' => 'gra', 'Gorai.013G039000' => 'gra', 'Gorai.013G194800' => 'gra', 'Gorai.013G257900' => 'gra', 'GSVIVG01000982001' => 'vvi', 'GSVIVG01017981001' => 'vvi', 'HanXRQChr01g0024061' => 'han', 'HanXRQChr09g0247831' => 'han', 'HanXRQChr10g0294611' => 'han', 'HanXRQChr10g0294621' => 'han', 'HanXRQChr11g0346821' => 'han', 'HanXRQChr13g0397461' => 'han', 'HanXRQChr16g0513651' => 'han', 'HanXRQChr16g0513701' => 'han', 'Haze_00897' => 'cav', 'Haze_01745' => 'cav', 'Haze_02486' => 'cav', 'Haze_02487' => 'cav', 'Haze_23374' => 'cav', 'Hma1.2p1_0578F.1_g182520' => 'hma', 'Hma1.2p1_0602F.1_g187350' => 'hma', 'Hma1.2p1_0602F.1_g187360' => 'hma', 'Hma1.2p1_0874F.1_g231320' => 'hma', 'Hma1.2p1_1197F.1_g266210' => 'hma', 'Hma1.2p1_1197F.1_g266220' => 'hma', 'Hma1.2p1_2167F.1_g315895' => 'hma', 'Hma1.2p1_2190F.1_g316640' => 'hma', 'Hma1.2p1_3645F.1_g337153' => 'hma', 'HPP92_004907' => 'vpl', 'HPP92_012134' => 'vpl', 'HPP92_025136' => 'vpl', 'HPP92_026087' => 'vpl', 'Hund06782' => 'sun', 'Hund06784' => 'sun', 'Lalb_Chr01g0004861' => 'lal', 'Lalb_Chr02g0140591' => 'lal', 'Lalb_Chr02g0140611' => 'lal', 'Lalb_Chr03g0028101' => 'lal', 'Lalb_Chr07g0185791' => 'lal', 'Lalb_Chr12g0204491' => 'lal', 'Lalb_Chr13g0295671' => 'lal', 'Lalb_Chr19g0136461' => 'lal', 'Lalb_Chr21g0309191' => 'lal', 'Lj1g0028158' => 'lja', 'Lj1P236T38' => 'lonja', 'Lj2C32G2' => 'lonja', 'Lj2P944T8' => 'lonja', 'Lj2P963T15' => 'lonja', 'Lj3g0011788' => 'lja', 'Lj4g0025027' => 'lja', 'Lj5P255T36' => 'lonja', 'Lj6g0018866' => 'lja', 'Lj6P608T31' => 'lonja', 'LjContig00408g0008879' => 'lja', 'Lsat_1_v5_gn_5_105820' => 'lsa', 'Lsat_1_v5_gn_6_38800' => 'lsa', 'Lsat_1_v5_gn_7_67141' => 'lsa', 'Manes.04G003400' => 'mes', 'Manes.07G020000' => 'mes', 'Manes.07G020100' => 'mes', 'Manes.07G020150' => 'mes', 'Manes.10G061500' => 'mes', 'Manes.10G123200' => 'mes', 'Manes.11G161900' => 'mes', 'Manes.15G029300' => 'mes', 'Mapoly0071s0018' => 'mpo', 'Mapoly0082s0023' => 'mpo', 'Mapoly3477s0001' => 'mpo', 'MBI05_g31233_MAGBIO' => 'mbi', 'MBI09_g05946_MAGBIO' => 'mbi', 'MBI09_g05947_MAGBIO' => 'mbi', 'MBI17_g08346_MAGBIO' => 'mbi', 'MCO04G038' => 'mco', 'MCO09G370' => 'mco', 'MCO13G605' => 'mco', 'MD00G1075500' => 'mdo', 'MD03G1144300' => 'mdo', 'MD08G1236800' => 'mdo', 'MD13G1193300' => 'mdo', 'MD15G1428700' => 'mdo', 'Medtr1g112030' => 'mtr', 'Medtr1g112050' => 'mtr', 'Medtr2g006290' => 'mtr', 'Medtr2g086510' => 'mtr', 'Medtr4g053120' => 'mtr', 'Medtr5g006320' => 'mtr', 'Medtr8g088720' => 'mtr', 'MELO3C004712.2' => 'cme', 'MELO3C006533.2' => 'cme', 'MELO3C019438.2' => 'cme', 'MELO3C019440.2' => 'cme', 'MELO3C019441.2' => 'cme', 'MELO3C019895.2' => 'cme', 'Migut.B00811' => 'egut', 'Migut.D02447' => 'egut', 'Migut.F00875' => 'egut', 'Migut.N00186' => 'egut', 'Migut.N01051' => 'egut', 'Migut.N02491' => 'egut', 'Migut.O00784' => 'egut', 'MSTRG.12367' => 'ama', 'MSTRG.18756' => 'ama', 'MSTRG.21042' => 'ama', 'Nitab4.5_0000559g0040' => 'nta', 'Nitab4.5_0000667g0190' => 'nta', 'Nitab4.5_0000755g0160' => 'nta', 'Nitab4.5_0001216g0080' => 'nta', 'Nitab4.5_0004069g0040' => 'nta', 'Nitab4.5_0004129g0010' => 'nta', 'Nitab4.5_0005744g0030' => 'nta', 'Nitab4.5_0006996g0030' => 'nta', 'Nitab4.5_0008971g0040' => 'nta', 'Nitab4.5_0009769g0020' => 'nta', 'Nitab4.5_0009833g0010' => 'nta', 'Nitab4.5_0013140g0020' => 'nta', 'Nn003s41376' => 'nnu', 'Nn1g01857' => 'nnu', 'Nn1g03611' => 'nnu', 'Nn1g06853' => 'nnu', 'Nn3g18360' => 'nnu', 'Nn4g26328' => 'nnu', 'Nn5g27531' => 'nnu', 'Nn6g34899' => 'nnu', 'Nn7g36299' => 'nnu', 'Oeu021485.1' => 'oeu', 'Oeu022433.1' => 'oeu', 'Oeu032111.1' => 'oeu', 'Oeu051608.1' => 'oeu', 'Os01g0860601' => 'osa', 'Os03g0659200' => 'osa', 'Os03g0835900' => 'osa', 'Os04g0412200' => 'osa', 'Os05g0443500' => 'osa', 'Os07g0251500' => 'osa', 'Os08g0104600' => 'osa', 'Peaxi162Scf00003g00047' => 'pax', 'Peaxi162Scf00003g00052' => 'pax', 'Peaxi162Scf00003g00394' => 'pax', 'Peaxi162Scf00091g00621' => 'pax', 'Peaxi162Scf00152g00146' => 'pax', 'Peaxi162Scf00173g00025' => 'pax', 'Peaxi162Scf00195g00102' => 'pax', 'Peaxi162Scf00402g00013' => 'pax', 'Peaxi162Scf00519g00618' => 'pax', 'PGR004G2838' => 'pgr', 'PGR044G2275' => 'pgr', 'PGR102G1377' => 'pgr', 'PGR119G1245' => 'pgr', 'PGR142G4449' => 'pgr', 'PGSC0003DMG400004532' => 'stu', 'PGSC0003DMG400011950' => 'stu', 'PGSC0003DMG400023391' => 'stu', 'PGSC0003DMG400023985' => 'stu', 'PGSC0003DMG400026360' => 'stu', 'PGSC0003DMG400035711' => 'stu', 'PGSC0003DMG400037286' => 'stu', 'PGSC0003DMG402005881' => 'stu', 'Phvul.002G045400' => 'pvu', 'Phvul.006G216600' => 'pvu', 'Phvul.006G216700' => 'pvu', 'Phvul.006G216800' => 'pvu', 'Phvul.007G022500' => 'pvu', 'Phvul.011G094400' => 'pvu', 'Potri.001G470700' => 'ptr', 'Potri.003G015200' => 'ptr', 'Potri.004G202500' => 'ptr', 'Potri.004G218400' => 'ptr', 'Potri.008G020100' => 'ptr', 'Potri.008G153200' => 'ptr', 'Potri.009G163800' => 'ptr', 'Potri.010G087300' => 'ptr', 'Potri.010G239100' => 'ptr', 'Pp3c10_16100' => 'ppa', 'Pp3c10_16880' => 'ppa', 'Pp3c16_6230' => 'ppa', 'Pp3c17_18910' => 'ppa', 'Pp3c3_22119' => 'ppa', 'Pp3c3_22140' => 'ppa', 'Pp3c4_8159' => 'ppa', 'Pp3c4_8171' => 'ppa', 'Pp3c4_8330' => 'ppa', 'PRCOL_00004098' => 'pco', 'Prupe.1G013900' => 'ppe', 'Prupe.1G226300' => 'ppe', 'Prupe.1G573600' => 'ppe', 'Prupe.6G130100' => 'ppe', 'Psat3g090040' => 'psa', 'Psat4g210440' => 'psa', 'Psat6g231040' => 'psa', 'Psat6g231080' => 'psa', 'Psat7g063000' => 'psa', 'Psat7g188000' => 'psa', 'Psat7g188040' => 'psa', 'PSO017G0206' => 'pso', 'PSO170G0501' => 'pso', 'PSO170G6422' => 'pso', 'PSO210G7739' => 'pso', 'PSO339G1808' => 'pso', 'PSO339G6135' => 'pso', 'PSO384G0010' => 'pso', 'PSO384G0964' => 'pso', 'PSO761G0050' => 'pso', 'PSO782G4085' => 'pso', 'QL01p012264' => 'qlo', 'QL02p099491' => 'qlo', 'QL03p033868' => 'qlo', 'QL04p046678' => 'qlo', 'QL06p002448' => 'qlo', 'RcHm_v2.0_Chr4g0416181' => 'rch', 'RcHm_v2.0_Chr5g0044701' => 'rch', 'RcHm_v2.0_Chr6g0265781' => 'rch', 'RcHm_v2.0_Chr7g0221031' => 'rch', 'Rhsim04G0202000' => 'rsi', 'Rhsim11G0127300' => 'rsi', 'Rhsim13G0111800' => 'rsi', 'Sabra01G0165600' => 'sbr', 'Sabra03G0008300' => 'sbr', 'Sabra04G0136900' => 'sbr', 'Sabra08G0013400' => 'sbr', 'Sabra08G0116800' => 'sbr', 'Sabra09G0128000' => 'sbr', 'Sabra10G0055500' => 'sbr', 'Sabra10G0073300' => 'sbr', 'SalBow3G0385' => 'sbo', 'SalBow3G1119' => 'sbo', 'SalBow3G2005' => 'sbo', 'SalBow6G2563' => 'sbo', 'SalBow6G6386' => 'sbo', 'Sc06g0008800' => 'sci', 'Sc07g0004950' => 'sci', 'Sc09g0005340' => 'sci', 'Sc13g0004410' => 'sci', 'Sc21g0007090' => 'sci', 'Sed0009285' => 'sed', 'Sed0017583' => 'sed', 'Sed0019699' => 'sed', 'Sed0023107' => 'sed', 'SEGI_10916' => 'sgi', 'SEGI_16217' => 'sgi', 'SEGI_19466' => 'sgi', 'SEGI_41115' => 'sgi', 'SGA_v2.0_scaffold111G31534' => 'sas', 'SGA_v2.0_scaffold22G09864' => 'sas', 'SGA_v2.0_scaffold338G49219' => 'sas', 'SGA_v2.0_scaffold92G28298' => 'sas', 'SMO119G0064' => 'smo', 'SMO223G0038' => 'smo', 'SMO347G0584' => 'smo', 'SMO351G0010' => 'smo', 'SMO356G0404' => 'smo', 'Solyc01g103920.3' => 'sly', 'Solyc04g009710.2' => 'sly', 'Solyc05g055280.2' => 'sly', 'Solyc10g044520.3' => 'sly', 'Solyc10g075160.1' => 'sly', 'Solyc11g006910.3' => 'sly', 'Solyc11g068430.3' => 'sly', 'Sopen01g046310' => 'spe', 'Sopen03g001200' => 'spe', 'Sopen04g004830' => 'spe', 'Sopen05g033720' => 'spe', 'Sopen06g030740' => 'spe', 'Sopen10g013090' => 'spe', 'Sopen10g027630' => 'spe', 'Sopen10g027640' => 'spe', 'Sopen11g002820' => 'spe', 'Sopen11g027140' => 'spe', 'Sp1g09680' => 'spa', 'Sp2g03630' => 'spa', 'Sp4g10320' => 'spa', 'Sp6g33400' => 'spa', 'Sp7g13030' => 'spa', 'TAR365G0317' => 'tar', 'TAR376G0979' => 'tar', 'TAR623G1665' => 'tar', 'TAR633G2373' => 'tar', 'TAR636G1400' => 'tar', 'THA.LOC104800529' => 'tha', 'THA.LOC104808547' => 'tha', 'THA.LOC104809615' => 'tha', 'THA.LOC104815724' => 'tha', 'THA.LOC104818480' => 'tha', 'THA.LOC104819179' => 'tha', 'THA.LOC104822270' => 'tha', 'THA.LOC104826425' => 'tha', 'Thecc.02G089700' => 'tca', 'Thecc.04G232300' => 'tca', 'Thecc.09G283400' => 'tca', 'Thhalv10009020m.g' => 'esa', 'Thhalv10015506m.g' => 'esa', 'Thhalv10017364m.g' => 'esa', 'Thhalv10023742m.g' => 'esa', 'Thhalv10026483m.g' => 'esa', 'TPR.G17232' => 'tpr', 'TPR.G2133' => 'tpr', 'TPR.G2498' => 'tpr', 'TPR.G31942' => 'tpr', 'TPR.G37877' => 'tpr', 'TPR.G4571' => 'tpr', 'TWI14G1113' => 'twi', 'TWI15G0426' => 'twi', 'TWI31G1005' => 'twi', 'TWI38G0513' => 'twi', 'TWI38G1484' => 'twi', 'TWI73G1098' => 'twi', 'unitig_26.g10519' => 'ugi', 'unitig_736.g22395' => 'ugi', 'unitig_747.g21234' => 'ugi', 'unitig_747.g21942' => 'ugi', 'vmacro14351' => 'vma', 'VMungo0540G0082' => 'vmu', 'VMungo0540G0405' => 'vmu', 'VMungo0540G1486' => 'vmu', 'VMungo0540G1692' => 'vmu', 'VMungo0720G2473' => 'vmu', 'VMungo1127G1562' => 'vmu', 'VMungo1215G1918' => 'vmu', 'Zm00001eb052650' => 'zma', 'Zm00001eb063710' => 'zma', 'Zm00001eb083950' => 'zma', 'Zm00001eb174420' => 'zma', 'Zm00001eb260140' => 'zma', 'Zm00001eb260150' => 'zma', 'Zm00001eb260160' => 'zma', 'Zm00001eb348290' => 'zma', 'Zm00001eb366870' => 'zma', 'Zm00001eb421930' => 'zma' ) $gf_id = 'HOM05D001025' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001025' ) $data_identifier = 'HOM05D001025' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 19, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 2, 'amhyb' => (int) 4, 'aly' => (int) 4, 'aox' => (int) 4, 'arhy' => (int) 3, 'ath' => (int) 5, 'atr' => (int) 4, 'acertr' => (int) 3, 'cqu' => (int) 7, 'bca' => (int) 17, 'bol' => (int) 10, 'bra' => (int) 9, 'can' => (int) 10, 'cansat' => (int) 6, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 5, 'cbr' => (int) 5, 'ccan' => (int) 5, 'cde' => (int) 4, 'cfa' => (int) 3, 'ccl' => (int) 6, 'cil' => (int) 4, 'cla' => (int) 3, 'col' => (int) 3, 'cpa' => (int) 3, 'cre' => (int) 7, 'csa' => (int) 5, 'camsi' => (int) 9, 'dca' => (int) 4, 'din' => (int) 5, 'dzi' => (int) 7, 'eca' => (int) 6, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 12, 'fve' => (int) 4, 'gma' => (int) 12, 'ghi' => (int) 17, 'gra' => (int) 9, 'vvi' => (int) 2, 'han' => (int) 8, 'cav' => (int) 5, 'hma' => (int) 9, 'vpl' => (int) 4, 'sun' => (int) 2, 'lal' => (int) 9, 'lja' => (int) 5, 'lonja' => (int) 6, 'lsa' => (int) 3, 'mes' => (int) 8, 'mpo' => (int) 3, 'mbi' => (int) 4, 'mco' => (int) 3, 'mdo' => (int) 5, 'mtr' => (int) 7, 'cme' => (int) 6, 'egut' => (int) 7, 'ama' => (int) 3, 'nta' => (int) 12, 'nnu' => (int) 9, 'oeu' => (int) 4, 'osa' => (int) 7, 'pax' => (int) 9, 'pgr' => (int) 5, 'stu' => (int) 8, 'pvu' => (int) 6, 'ptr' => (int) 9, 'ppa' => (int) 9, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 7, 'pso' => (int) 10, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 3, 'sbr' => (int) 8, 'sbo' => (int) 5, 'sci' => (int) 5, 'sed' => (int) 4, 'sgi' => (int) 4, 'sas' => (int) 4, 'smo' => (int) 5, 'sly' => (int) 7, 'spe' => (int) 10, 'spa' => (int) 5, 'tar' => (int) 5, 'tha' => (int) 8, 'tca' => (int) 3, 'esa' => (int) 5, 'tpr' => (int) 6, 'twi' => (int) 6, 'ugi' => (int) 4, 'vma' => (int) 1, 'vmu' => (int) 7, 'zma' => (int) 10 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb421930' $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' => 'HOM05D001025', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '592', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p22650' => 'bna', 'A01p29720' => 'bna', 'A03p26560' => 'bna', 'A03p68820' => 'bna', 'A04p20980' => 'bna', 'A06p07730' => 'bna', 'A07p18260' => 'bna', 'A08p33710' => 'bna', 'A09p16970' => 'bna', 'A10p27490' => 'bna', 'Aa31LG1G17300' => 'aar', 'Aa31LG1G3910' => 'aar', 'Aa31LG2G9630' => 'aar', 'Aa31LG5G8360' => 'aar', 'Aa31LG9G2410' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4699' => 'aag', 'Actinidia23512' => 'ach', 'Actinidia37080' => 'ach', 'Ah.01g020380' => 'amhyb', 'Ah.08g215710' => 'amhyb', 'Ah.09g225110' => 'amhyb', 'Ah.10g036680' => 'amhyb', 'AL1G21940' => 'aly', 'AL2G15540' => 'aly', 'AL4G21520' => 'aly', 'AL7G40960' => 'aly', 'Aqoxy2G01191' => 'aox', 'Aqoxy2G03393' => 'aox', 'Aqoxy4G02775' => 'aox', 'Aqoxy6G00058' => 'aox', 'arahy.Tifrunner.gnm1.ann1.9X74H2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CW3FX9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R485W7' => 'arhy', 'AT1G10960' => 'ath', 'AT1G60950' => 'ath', 'AT2G27510' => 'ath', 'AT4G14890' => 'ath', 'AT5G10000' => 'ath', 'ATR0665G624' => 'atr', 'ATR0697G138' => 'atr', 'ATR0776G046' => 'atr', 'ATR1134G135' => 'atr', 'Atru.chr12.1025' => 'acertr', 'Atru.chr3.3241' => 'acertr', 'Atru.chr4.2460' => 'acertr', 'AUR62007427' => 'cqu', 'AUR62010960' => 'cqu', 'AUR62012201' => 'cqu', 'AUR62021470' => 'cqu', 'AUR62022834' => 'cqu', 'AUR62033635' => 'cqu', 'AUR62036186' => 'cqu', 'BcaB01g03077' => 'bca', 'BcaB02g10093' => 'bca', 'BcaB04g20295' => 'bca', 'BcaB06g28147' => 'bca', 'BcaB07g31253' => 'bca', 'BcaC01g04946' => 'bca', 'BcaC02g10614' => 'bca', 'BcaC02g10885' => 'bca', 'BcaC04g19356' => 'bca', 'BcaC04g22297' => 'bca', 'BcaC05g24977' => 'bca', 'BcaC06g31823' => 'bca', 'BcaC07g38633' => 'bca', 'BcaC09g49353' => 'bca', 'BcaC09g50168' => 'bca', 'BcaNung00322' => 'bca', 'BcaNung04769' => 'bca', 'BolC1t02753H' => 'bol', 'BolC1t03721H' => 'bol', 'BolC3t15525H' => 'bol', 'BolC4t23903H' => 'bol', 'BolC4t24231H' => 'bol', 'BolC4t27209H' => 'bol', 'BolC5t29671H' => 'bol', 'BolC8t49044H' => 'bol', 'BolC9t54999H' => 'bol', 'BolC9t59517H' => 'bol', 'BraA01t02178Z' => 'bra', 'BraA01t03099Z' => 'bra', 'BraA03t11867Z' => 'bra', 'BraA04t17667Z' => 'bra', 'BraA07t29542Z' => 'bra', 'BraA08t35287Z' => 'bra', 'BraA09t37334Z' => 'bra', 'BraA10t44801Z' => 'bra', 'BraSC39t46181Z' => 'bra', 'C01p28240' => 'bna', 'C01p37530' => 'bna', 'C03p31820' => 'bna', 'C04p24080' => 'bna', 'C04p25790' => 'bna', 'C04p56770' => 'bna', 'C05p09310' => 'bna', 'C09p21010' => 'bna', 'C09p67560' => 'bna', 'CAN.G1324.7' => 'can', 'CAN.G1358.10' => 'can', 'CAN.G1550.2' => 'can', 'CAN.G186.56' => 'can', 'CAN.G1965.1' => 'can', 'CAN.G645.15' => 'can', 'CAN.G798.26' => 'can', 'CAN.G798.27' => 'can', 'CAN.G798.29' => 'can', 'CAN.G919.31' => 'can', 'CANSAT11G0133' => 'cansat', 'CANSAT11G1171' => 'cansat', 'CANSAT11G2056' => 'cansat', 'CANSAT56G1202' => 'cansat', 'CANSAT56G1514' => 'cansat', 'CANSAT78G0455' => 'cansat', 'CARHR011190' => 'chi', 'CARHR051980' => 'chi', 'CARHR120170' => 'chi', 'CARHR203310' => 'chi', 'CARHR221490' => 'chi', 'Carub.0001s1054' => 'cru', 'Carub.0002s0431' => 'cru', 'Carub.0004s0818' => 'cru', 'Carub.0006s0846' => 'cru', 'Carub.0007s2722' => 'cru', 'Ca_00058_v3' => 'car', 'Ca_17831_v3' => 'car', 'Ca_19408_v3' => 'car', 'Ca_24397_v3' => 'car', 'Ca_25664_v3' => 'car', 'CBR_g21818' => 'cbr', 'CBR_g31195' => 'cbr', 'CBR_g32282' => 'cbr', 'CBR_g39599' => 'cbr', 'CBR_g49410' => 'cbr', 'Cc01_g09120' => 'ccan', 'Cc01_g09130' => 'ccan', 'Cc02_g09630' => 'ccan', 'Cc02_g22810' => 'ccan', 'Cc03_g03810' => 'ccan', 'CDE02G3718' => 'cde', 'CDE04G3183' => 'cde', 'CDE07G1046' => 'cde', 'CDE08G0480' => 'cde', 'Cfa005493' => 'cfa', 'Cfa010312' => 'cfa', 'Cfa015648' => 'cfa', 'Ciclev10002793m.g' => 'ccl', 'Ciclev10003356m.g' => 'ccl', 'Ciclev10006141m.g' => 'ccl', 'Ciclev10016676m.g' => 'ccl', 'Ciclev10017081m.g' => 'ccl', 'Ciclev10029499m.g' => 'ccl', 'CiPaw.01G166300' => 'cil', 'CiPaw.06G145600' => 'cil', 'CiPaw.13G040100' => 'cil', 'CiPaw.13G135800' => 'cil', 'ClCG01G012230' => 'cla', 'ClCG05G009510' => 'cla', 'ClCG08G008270' => 'cla', 'COL.COLO4_11763' => 'col', 'COL.COLO4_19876' => 'col', 'COL.COLO4_21481' => 'col', 'Cpa.g.sc118.34' => 'cpa', 'Cpa.g.sc32.13' => 'cpa', 'Cpa.g.sc58.103' => 'cpa', 'Cre03.g183850' => 'cre', 'Cre06.g306350' => 'cre', 'Cre07.g334800' => 'cre', 'Cre12.g487900' => 'cre', 'Cre14.g626700' => 'cre', 'Cre16.g658400' => 'cre', 'Cre17.g700950' => 'cre', 'CsaV3_1G014830' => 'csa', 'CsaV3_3G013320' => 'csa', 'CsaV3_3G019210' => 'csa', 'CsaV3_3G019220' => 'csa', 'CsaV3_6G004230' => 'csa', 'CSS0003773' => 'camsi', 'CSS0004563' => 'camsi', 'CSS0013949' => 'camsi', 'CSS0025971' => 'camsi', 'CSS0028570' => 'camsi', 'CSS0033127' => 'camsi', 'CSS0036051' => 'camsi', 'CSS0040087' => 'camsi', 'CSS0043179' => 'camsi', 'DCAR_006161' => 'dca', 'DCAR_010351' => 'dca', 'DCAR_012197' => 'dca', 'DCAR_024162' => 'dca', 'Dinv01030' => 'din', 'Dinv10924' => 'din', 'Dinv11835' => 'din', 'Dinv22841' => 'din', 'Dinv42553' => 'din', 'Duzib052G0560' => 'dzi', 'Duzib132G0389' => 'dzi', 'Duzib150G1181' => 'dzi', 'Duzib168G0623' => 'dzi', 'Duzib170G1036' => 'dzi', 'Duzib212G0200' => 'dzi', 'Duzib248G0194' => 'dzi', 'ECA232G2193' => 'eca', 'ECA233G0302' => 'eca', 'ECA234G2813' => 'eca', 'ECA234G4866' => 'eca', 'ECA240G3932' => 'eca', 'ECA248G0385' => 'eca', 'EL10Ac2g04781' => 'bvu', 'EL10Ac3g06445' => 'bvu', 'EL10Ac7g15825' => 'bvu', 'EL10Ac8g18550' => 'bvu', 'Eucgr.B03849' => 'egr', 'Eucgr.I02744' => 'egr', 'Eucgr.J00264' => 'egr', 'Eucgr.J00493' => 'egr', 'FAN04G2181' => 'fan', 'FAN07G2666' => 'fan', 'FAN11G0024' => 'fan', 'FAN12G1105' => 'fan', 'FAN13G0302' => 'fan', 'FAN15G2781' => 'fan', 'FAN16G1274' => 'fan', 'FAN17G2988' => 'fan', 'FAN18G2621' => 'fan', 'FAN21G0013' => 'fan', 'FAN22G1211' => 'fan', 'FAN25G3626' => 'fan', 'FvH4_2g09491' => 'fve', 'FvH4_3g24910' => 'fve', 'FvH4_4g15630' => 'fve', 'FvH4_5g28820' => 'fve', 'Glyma.01G238000' => 'gma', 'Glyma.05G168400' => 'gma', 'Glyma.08G126800' => 'gma', 'Glyma.08G188500' => 'gma', 'Glyma.10G278900' => 'gma', 'Glyma.11G005700' => 'gma', 'Glyma.11G183300' => 'gma', 'Glyma.12G089200' => 'gma', 'Glyma.12G169400' => 'gma', 'Glyma.12G169500' => 'gma', 'Glyma.12G169600' => 'gma', 'Glyma.20G110800' => 'gma', 'Gohir.A03G192900' => 'ghi', 'Gohir.A03G193000' => 'ghi', 'Gohir.A05G080700' => 'ghi', 'Gohir.A09G216000' => 'ghi', 'Gohir.A12G027700' => 'ghi', 'Gohir.A13G036200' => 'ghi', 'Gohir.A13G222600' => 'ghi', 'Gohir.D02G213900' => 'ghi', 'Gohir.D02G214000' => 'ghi', 'Gohir.D05G083700' => 'ghi', 'Gohir.D05G083800' => 'ghi', 'Gohir.D05G083850' => 'ghi', 'Gohir.D08G015400' => 'ghi', 'Gohir.D09G218400' => 'ghi', 'Gohir.D12G027100' => 'ghi', 'Gohir.D13G034500' => 'ghi', 'Gohir.D13G227400' => 'ghi', 'Gorai.005G241800' => 'gra', 'Gorai.005G241900' => 'gra', 'Gorai.006G239400' => 'gra', 'Gorai.008G027600' => 'gra', 'Gorai.009G085400' => 'gra', 'Gorai.009G085500' => 'gra', 'Gorai.013G039000' => 'gra', 'Gorai.013G194800' => 'gra', 'Gorai.013G257900' => 'gra', 'GSVIVG01000982001' => 'vvi', 'GSVIVG01017981001' => 'vvi', 'HanXRQChr01g0024061' => 'han', 'HanXRQChr09g0247831' => 'han', 'HanXRQChr10g0294611' => 'han', 'HanXRQChr10g0294621' => 'han', 'HanXRQChr11g0346821' => 'han', 'HanXRQChr13g0397461' => 'han', 'HanXRQChr16g0513651' => 'han', 'HanXRQChr16g0513701' => 'han', 'Haze_00897' => 'cav', 'Haze_01745' => 'cav', 'Haze_02486' => 'cav', 'Haze_02487' => 'cav', 'Haze_23374' => 'cav', 'Hma1.2p1_0578F.1_g182520' => 'hma', 'Hma1.2p1_0602F.1_g187350' => 'hma', 'Hma1.2p1_0602F.1_g187360' => 'hma', 'Hma1.2p1_0874F.1_g231320' => 'hma', 'Hma1.2p1_1197F.1_g266210' => 'hma', 'Hma1.2p1_1197F.1_g266220' => 'hma', 'Hma1.2p1_2167F.1_g315895' => 'hma', 'Hma1.2p1_2190F.1_g316640' => 'hma', 'Hma1.2p1_3645F.1_g337153' => 'hma', 'HPP92_004907' => 'vpl', 'HPP92_012134' => 'vpl', 'HPP92_025136' => 'vpl', 'HPP92_026087' => 'vpl', 'Hund06782' => 'sun', 'Hund06784' => 'sun', 'Lalb_Chr01g0004861' => 'lal', 'Lalb_Chr02g0140591' => 'lal', 'Lalb_Chr02g0140611' => 'lal', 'Lalb_Chr03g0028101' => 'lal', 'Lalb_Chr07g0185791' => 'lal', 'Lalb_Chr12g0204491' => 'lal', 'Lalb_Chr13g0295671' => 'lal', 'Lalb_Chr19g0136461' => 'lal', 'Lalb_Chr21g0309191' => 'lal', 'Lj1g0028158' => 'lja', 'Lj1P236T38' => 'lonja', 'Lj2C32G2' => 'lonja', 'Lj2P944T8' => 'lonja', 'Lj2P963T15' => 'lonja', 'Lj3g0011788' => 'lja', 'Lj4g0025027' => 'lja', 'Lj5P255T36' => 'lonja', 'Lj6g0018866' => 'lja', 'Lj6P608T31' => 'lonja', 'LjContig00408g0008879' => 'lja', 'Lsat_1_v5_gn_5_105820' => 'lsa', 'Lsat_1_v5_gn_6_38800' => 'lsa', 'Lsat_1_v5_gn_7_67141' => 'lsa', 'Manes.04G003400' => 'mes', 'Manes.07G020000' => 'mes', 'Manes.07G020100' => 'mes', 'Manes.07G020150' => 'mes', 'Manes.10G061500' => 'mes', 'Manes.10G123200' => 'mes', 'Manes.11G161900' => 'mes', 'Manes.15G029300' => 'mes', 'Mapoly0071s0018' => 'mpo', 'Mapoly0082s0023' => 'mpo', 'Mapoly3477s0001' => 'mpo', 'MBI05_g31233_MAGBIO' => 'mbi', 'MBI09_g05946_MAGBIO' => 'mbi', 'MBI09_g05947_MAGBIO' => 'mbi', 'MBI17_g08346_MAGBIO' => 'mbi', 'MCO04G038' => 'mco', 'MCO09G370' => 'mco', 'MCO13G605' => 'mco', 'MD00G1075500' => 'mdo', 'MD03G1144300' => 'mdo', 'MD08G1236800' => 'mdo', 'MD13G1193300' => 'mdo', 'MD15G1428700' => 'mdo', 'Medtr1g112030' => 'mtr', 'Medtr1g112050' => 'mtr', 'Medtr2g006290' => 'mtr', 'Medtr2g086510' => 'mtr', 'Medtr4g053120' => 'mtr', 'Medtr5g006320' => 'mtr', 'Medtr8g088720' => 'mtr', 'MELO3C004712.2' => 'cme', 'MELO3C006533.2' => 'cme', 'MELO3C019438.2' => 'cme', 'MELO3C019440.2' => 'cme', 'MELO3C019441.2' => 'cme', 'MELO3C019895.2' => 'cme', 'Migut.B00811' => 'egut', 'Migut.D02447' => 'egut', 'Migut.F00875' => 'egut', 'Migut.N00186' => 'egut', 'Migut.N01051' => 'egut', 'Migut.N02491' => 'egut', 'Migut.O00784' => 'egut', 'MSTRG.12367' => 'ama', 'MSTRG.18756' => 'ama', 'MSTRG.21042' => 'ama', 'Nitab4.5_0000559g0040' => 'nta', 'Nitab4.5_0000667g0190' => 'nta', 'Nitab4.5_0000755g0160' => 'nta', 'Nitab4.5_0001216g0080' => 'nta', 'Nitab4.5_0004069g0040' => 'nta', 'Nitab4.5_0004129g0010' => 'nta', 'Nitab4.5_0005744g0030' => 'nta', 'Nitab4.5_0006996g0030' => 'nta', 'Nitab4.5_0008971g0040' => 'nta', 'Nitab4.5_0009769g0020' => 'nta', 'Nitab4.5_0009833g0010' => 'nta', 'Nitab4.5_0013140g0020' => 'nta', 'Nn003s41376' => 'nnu', 'Nn1g01857' => 'nnu', 'Nn1g03611' => 'nnu', 'Nn1g06853' => 'nnu', 'Nn3g18360' => 'nnu', 'Nn4g26328' => 'nnu', 'Nn5g27531' => 'nnu', 'Nn6g34899' => 'nnu', 'Nn7g36299' => 'nnu', 'Oeu021485.1' => 'oeu', 'Oeu022433.1' => 'oeu', 'Oeu032111.1' => 'oeu', 'Oeu051608.1' => 'oeu', 'Os01g0860601' => 'osa', 'Os03g0659200' => 'osa', 'Os03g0835900' => 'osa', 'Os04g0412200' => 'osa', 'Os05g0443500' => 'osa', 'Os07g0251500' => 'osa', 'Os08g0104600' => 'osa', 'Peaxi162Scf00003g00047' => 'pax', 'Peaxi162Scf00003g00052' => 'pax', 'Peaxi162Scf00003g00394' => 'pax', 'Peaxi162Scf00091g00621' => 'pax', 'Peaxi162Scf00152g00146' => 'pax', 'Peaxi162Scf00173g00025' => 'pax', 'Peaxi162Scf00195g00102' => 'pax', 'Peaxi162Scf00402g00013' => 'pax', 'Peaxi162Scf00519g00618' => 'pax', 'PGR004G2838' => 'pgr', 'PGR044G2275' => 'pgr', 'PGR102G1377' => 'pgr', 'PGR119G1245' => 'pgr', 'PGR142G4449' => 'pgr', 'PGSC0003DMG400004532' => 'stu', 'PGSC0003DMG400011950' => 'stu', 'PGSC0003DMG400023391' => 'stu', 'PGSC0003DMG400023985' => 'stu', 'PGSC0003DMG400026360' => 'stu', 'PGSC0003DMG400035711' => 'stu', 'PGSC0003DMG400037286' => 'stu', 'PGSC0003DMG402005881' => 'stu', 'Phvul.002G045400' => 'pvu', 'Phvul.006G216600' => 'pvu', 'Phvul.006G216700' => 'pvu', 'Phvul.006G216800' => 'pvu', 'Phvul.007G022500' => 'pvu', 'Phvul.011G094400' => 'pvu', 'Potri.001G470700' => 'ptr', 'Potri.003G015200' => 'ptr', 'Potri.004G202500' => 'ptr', 'Potri.004G218400' => 'ptr', 'Potri.008G020100' => 'ptr', 'Potri.008G153200' => 'ptr', 'Potri.009G163800' => 'ptr', 'Potri.010G087300' => 'ptr', 'Potri.010G239100' => 'ptr', 'Pp3c10_16100' => 'ppa', 'Pp3c10_16880' => 'ppa', 'Pp3c16_6230' => 'ppa', 'Pp3c17_18910' => 'ppa', 'Pp3c3_22119' => 'ppa', 'Pp3c3_22140' => 'ppa', 'Pp3c4_8159' => 'ppa', 'Pp3c4_8171' => 'ppa', 'Pp3c4_8330' => 'ppa', 'PRCOL_00004098' => 'pco', 'Prupe.1G013900' => 'ppe', 'Prupe.1G226300' => 'ppe', 'Prupe.1G573600' => 'ppe', 'Prupe.6G130100' => 'ppe', 'Psat3g090040' => 'psa', 'Psat4g210440' => 'psa', 'Psat6g231040' => 'psa', 'Psat6g231080' => 'psa', 'Psat7g063000' => 'psa', 'Psat7g188000' => 'psa', 'Psat7g188040' => 'psa', 'PSO017G0206' => 'pso', 'PSO170G0501' => 'pso', 'PSO170G6422' => 'pso', 'PSO210G7739' => 'pso', 'PSO339G1808' => 'pso', 'PSO339G6135' => 'pso', 'PSO384G0010' => 'pso', 'PSO384G0964' => 'pso', 'PSO761G0050' => 'pso', 'PSO782G4085' => 'pso', 'QL01p012264' => 'qlo', 'QL02p099491' => 'qlo', 'QL03p033868' => 'qlo', 'QL04p046678' => 'qlo', 'QL06p002448' => 'qlo', 'RcHm_v2.0_Chr4g0416181' => 'rch', 'RcHm_v2.0_Chr5g0044701' => 'rch', 'RcHm_v2.0_Chr6g0265781' => 'rch', 'RcHm_v2.0_Chr7g0221031' => 'rch', 'Rhsim04G0202000' => 'rsi', 'Rhsim11G0127300' => 'rsi', 'Rhsim13G0111800' => 'rsi', 'Sabra01G0165600' => 'sbr', 'Sabra03G0008300' => 'sbr', 'Sabra04G0136900' => 'sbr', 'Sabra08G0013400' => 'sbr', 'Sabra08G0116800' => 'sbr', 'Sabra09G0128000' => 'sbr', 'Sabra10G0055500' => 'sbr', 'Sabra10G0073300' => 'sbr', 'SalBow3G0385' => 'sbo', 'SalBow3G1119' => 'sbo', 'SalBow3G2005' => 'sbo', 'SalBow6G2563' => 'sbo', 'SalBow6G6386' => 'sbo', 'Sc06g0008800' => 'sci', 'Sc07g0004950' => 'sci', 'Sc09g0005340' => 'sci', 'Sc13g0004410' => 'sci', 'Sc21g0007090' => 'sci', 'Sed0009285' => 'sed', 'Sed0017583' => 'sed', 'Sed0019699' => 'sed', 'Sed0023107' => 'sed', 'SEGI_10916' => 'sgi', 'SEGI_16217' => 'sgi', 'SEGI_19466' => 'sgi', 'SEGI_41115' => 'sgi', 'SGA_v2.0_scaffold111G31534' => 'sas', 'SGA_v2.0_scaffold22G09864' => 'sas', 'SGA_v2.0_scaffold338G49219' => 'sas', 'SGA_v2.0_scaffold92G28298' => 'sas', 'SMO119G0064' => 'smo', 'SMO223G0038' => 'smo', 'SMO347G0584' => 'smo', 'SMO351G0010' => 'smo', 'SMO356G0404' => 'smo', 'Solyc01g103920.3' => 'sly', 'Solyc04g009710.2' => 'sly', 'Solyc05g055280.2' => 'sly', 'Solyc10g044520.3' => 'sly', 'Solyc10g075160.1' => 'sly', 'Solyc11g006910.3' => 'sly', 'Solyc11g068430.3' => 'sly', 'Sopen01g046310' => 'spe', 'Sopen03g001200' => 'spe', 'Sopen04g004830' => 'spe', 'Sopen05g033720' => 'spe', 'Sopen06g030740' => 'spe', 'Sopen10g013090' => 'spe', 'Sopen10g027630' => 'spe', 'Sopen10g027640' => 'spe', 'Sopen11g002820' => 'spe', 'Sopen11g027140' => 'spe', 'Sp1g09680' => 'spa', 'Sp2g03630' => 'spa', 'Sp4g10320' => 'spa', 'Sp6g33400' => 'spa', 'Sp7g13030' => 'spa', 'TAR365G0317' => 'tar', 'TAR376G0979' => 'tar', 'TAR623G1665' => 'tar', 'TAR633G2373' => 'tar', 'TAR636G1400' => 'tar', 'THA.LOC104800529' => 'tha', 'THA.LOC104808547' => 'tha', 'THA.LOC104809615' => 'tha', 'THA.LOC104815724' => 'tha', 'THA.LOC104818480' => 'tha', 'THA.LOC104819179' => 'tha', 'THA.LOC104822270' => 'tha', 'THA.LOC104826425' => 'tha', 'Thecc.02G089700' => 'tca', 'Thecc.04G232300' => 'tca', 'Thecc.09G283400' => 'tca', 'Thhalv10009020m.g' => 'esa', 'Thhalv10015506m.g' => 'esa', 'Thhalv10017364m.g' => 'esa', 'Thhalv10023742m.g' => 'esa', 'Thhalv10026483m.g' => 'esa', 'TPR.G17232' => 'tpr', 'TPR.G2133' => 'tpr', 'TPR.G2498' => 'tpr', 'TPR.G31942' => 'tpr', 'TPR.G37877' => 'tpr', 'TPR.G4571' => 'tpr', 'TWI14G1113' => 'twi', 'TWI15G0426' => 'twi', 'TWI31G1005' => 'twi', 'TWI38G0513' => 'twi', 'TWI38G1484' => 'twi', 'TWI73G1098' => 'twi', 'unitig_26.g10519' => 'ugi', 'unitig_736.g22395' => 'ugi', 'unitig_747.g21234' => 'ugi', 'unitig_747.g21942' => 'ugi', 'vmacro14351' => 'vma', 'VMungo0540G0082' => 'vmu', 'VMungo0540G0405' => 'vmu', 'VMungo0540G1486' => 'vmu', 'VMungo0540G1692' => 'vmu', 'VMungo0720G2473' => 'vmu', 'VMungo1127G1562' => 'vmu', 'VMungo1215G1918' => 'vmu', 'Zm00001eb052650' => 'zma', 'Zm00001eb063710' => 'zma', 'Zm00001eb083950' => 'zma', 'Zm00001eb174420' => 'zma', 'Zm00001eb260140' => 'zma', 'Zm00001eb260150' => 'zma', 'Zm00001eb260160' => 'zma', 'Zm00001eb348290' => 'zma', 'Zm00001eb366870' => 'zma', 'Zm00001eb421930' => 'zma' ), 'gf_id' => 'HOM05D001025', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001025' ), 'data_identifier' => 'HOM05D001025', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001025', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '592', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p22650' => 'bna', 'A01p29720' => 'bna', 'A03p26560' => 'bna', 'A03p68820' => 'bna', 'A04p20980' => 'bna', 'A06p07730' => 'bna', 'A07p18260' => 'bna', 'A08p33710' => 'bna', 'A09p16970' => 'bna', 'A10p27490' => 'bna', 'Aa31LG1G17300' => 'aar', 'Aa31LG1G3910' => 'aar', 'Aa31LG2G9630' => 'aar', 'Aa31LG5G8360' => 'aar', 'Aa31LG9G2410' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4699' => 'aag', 'Actinidia23512' => 'ach', 'Actinidia37080' => 'ach', 'Ah.01g020380' => 'amhyb', 'Ah.08g215710' => 'amhyb', 'Ah.09g225110' => 'amhyb', 'Ah.10g036680' => 'amhyb', 'AL1G21940' => 'aly', 'AL2G15540' => 'aly', 'AL4G21520' => 'aly', 'AL7G40960' => 'aly', 'Aqoxy2G01191' => 'aox', 'Aqoxy2G03393' => 'aox', 'Aqoxy4G02775' => 'aox', 'Aqoxy6G00058' => 'aox', 'arahy.Tifrunner.gnm1.ann1.9X74H2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CW3FX9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R485W7' => 'arhy', 'AT1G10960' => 'ath', 'AT1G60950' => 'ath', 'AT2G27510' => 'ath', 'AT4G14890' => 'ath', 'AT5G10000' => 'ath', 'ATR0665G624' => 'atr', 'ATR0697G138' => 'atr', 'ATR0776G046' => 'atr', 'ATR1134G135' => 'atr', 'Atru.chr12.1025' => 'acertr', 'Atru.chr3.3241' => 'acertr', 'Atru.chr4.2460' => 'acertr', 'AUR62007427' => 'cqu', 'AUR62010960' => 'cqu', 'AUR62012201' => 'cqu', 'AUR62021470' => 'cqu', 'AUR62022834' => 'cqu', 'AUR62033635' => 'cqu', 'AUR62036186' => 'cqu', 'BcaB01g03077' => 'bca', 'BcaB02g10093' => 'bca', 'BcaB04g20295' => 'bca', 'BcaB06g28147' => 'bca', 'BcaB07g31253' => 'bca', 'BcaC01g04946' => 'bca', 'BcaC02g10614' => 'bca', 'BcaC02g10885' => 'bca', 'BcaC04g19356' => 'bca', 'BcaC04g22297' => 'bca', 'BcaC05g24977' => 'bca', 'BcaC06g31823' => 'bca', 'BcaC07g38633' => 'bca', 'BcaC09g49353' => 'bca', 'BcaC09g50168' => 'bca', 'BcaNung00322' => 'bca', 'BcaNung04769' => 'bca', 'BolC1t02753H' => 'bol', 'BolC1t03721H' => 'bol', 'BolC3t15525H' => 'bol', 'BolC4t23903H' => 'bol', 'BolC4t24231H' => 'bol', 'BolC4t27209H' => 'bol', 'BolC5t29671H' => 'bol', 'BolC8t49044H' => 'bol', 'BolC9t54999H' => 'bol', 'BolC9t59517H' => 'bol', 'BraA01t02178Z' => 'bra', 'BraA01t03099Z' => 'bra', 'BraA03t11867Z' => 'bra', 'BraA04t17667Z' => 'bra', 'BraA07t29542Z' => 'bra', 'BraA08t35287Z' => 'bra', 'BraA09t37334Z' => 'bra', 'BraA10t44801Z' => 'bra', 'BraSC39t46181Z' => 'bra', 'C01p28240' => 'bna', 'C01p37530' => 'bna', 'C03p31820' => 'bna', 'C04p24080' => 'bna', 'C04p25790' => 'bna', 'C04p56770' => 'bna', 'C05p09310' => 'bna', 'C09p21010' => 'bna', 'C09p67560' => 'bna', 'CAN.G1324.7' => 'can', 'CAN.G1358.10' => 'can', 'CAN.G1550.2' => 'can', 'CAN.G186.56' => 'can', 'CAN.G1965.1' => 'can', 'CAN.G645.15' => 'can', 'CAN.G798.26' => 'can', 'CAN.G798.27' => 'can', 'CAN.G798.29' => 'can', 'CAN.G919.31' => 'can', 'CANSAT11G0133' => 'cansat', 'CANSAT11G1171' => 'cansat', 'CANSAT11G2056' => 'cansat', 'CANSAT56G1202' => 'cansat', 'CANSAT56G1514' => 'cansat', 'CANSAT78G0455' => 'cansat', 'CARHR011190' => 'chi', 'CARHR051980' => 'chi', 'CARHR120170' => 'chi', 'CARHR203310' => 'chi', 'CARHR221490' => 'chi', 'Carub.0001s1054' => 'cru', 'Carub.0002s0431' => 'cru', 'Carub.0004s0818' => 'cru', 'Carub.0006s0846' => 'cru', 'Carub.0007s2722' => 'cru', 'Ca_00058_v3' => 'car', 'Ca_17831_v3' => 'car', 'Ca_19408_v3' => 'car', 'Ca_24397_v3' => 'car', 'Ca_25664_v3' => 'car', 'CBR_g21818' => 'cbr', 'CBR_g31195' => 'cbr', 'CBR_g32282' => 'cbr', 'CBR_g39599' => 'cbr', 'CBR_g49410' => 'cbr', 'Cc01_g09120' => 'ccan', 'Cc01_g09130' => 'ccan', 'Cc02_g09630' => 'ccan', 'Cc02_g22810' => 'ccan', 'Cc03_g03810' => 'ccan', 'CDE02G3718' => 'cde', 'CDE04G3183' => 'cde', 'CDE07G1046' => 'cde', 'CDE08G0480' => 'cde', 'Cfa005493' => 'cfa', 'Cfa010312' => 'cfa', 'Cfa015648' => 'cfa', 'Ciclev10002793m.g' => 'ccl', 'Ciclev10003356m.g' => 'ccl', 'Ciclev10006141m.g' => 'ccl', 'Ciclev10016676m.g' => 'ccl', 'Ciclev10017081m.g' => 'ccl', 'Ciclev10029499m.g' => 'ccl', 'CiPaw.01G166300' => 'cil', 'CiPaw.06G145600' => 'cil', 'CiPaw.13G040100' => 'cil', 'CiPaw.13G135800' => 'cil', 'ClCG01G012230' => 'cla', 'ClCG05G009510' => 'cla', 'ClCG08G008270' => 'cla', 'COL.COLO4_11763' => 'col', 'COL.COLO4_19876' => 'col', 'COL.COLO4_21481' => 'col', 'Cpa.g.sc118.34' => 'cpa', 'Cpa.g.sc32.13' => 'cpa', 'Cpa.g.sc58.103' => 'cpa', 'Cre03.g183850' => 'cre', 'Cre06.g306350' => 'cre', 'Cre07.g334800' => 'cre', 'Cre12.g487900' => 'cre', 'Cre14.g626700' => 'cre', 'Cre16.g658400' => 'cre', 'Cre17.g700950' => 'cre', 'CsaV3_1G014830' => 'csa', 'CsaV3_3G013320' => 'csa', 'CsaV3_3G019210' => 'csa', 'CsaV3_3G019220' => 'csa', 'CsaV3_6G004230' => 'csa', 'CSS0003773' => 'camsi', 'CSS0004563' => 'camsi', 'CSS0013949' => 'camsi', 'CSS0025971' => 'camsi', 'CSS0028570' => 'camsi', 'CSS0033127' => 'camsi', 'CSS0036051' => 'camsi', 'CSS0040087' => 'camsi', 'CSS0043179' => 'camsi', 'DCAR_006161' => 'dca', 'DCAR_010351' => 'dca', 'DCAR_012197' => 'dca', 'DCAR_024162' => 'dca', 'Dinv01030' => 'din', 'Dinv10924' => 'din', 'Dinv11835' => 'din', 'Dinv22841' => 'din', 'Dinv42553' => 'din', 'Duzib052G0560' => 'dzi', 'Duzib132G0389' => 'dzi', 'Duzib150G1181' => 'dzi', 'Duzib168G0623' => 'dzi', 'Duzib170G1036' => 'dzi', 'Duzib212G0200' => 'dzi', 'Duzib248G0194' => 'dzi', 'ECA232G2193' => 'eca', 'ECA233G0302' => 'eca', 'ECA234G2813' => 'eca', 'ECA234G4866' => 'eca', 'ECA240G3932' => 'eca', 'ECA248G0385' => 'eca', 'EL10Ac2g04781' => 'bvu', 'EL10Ac3g06445' => 'bvu', 'EL10Ac7g15825' => 'bvu', 'EL10Ac8g18550' => 'bvu', 'Eucgr.B03849' => 'egr', 'Eucgr.I02744' => 'egr', 'Eucgr.J00264' => 'egr', 'Eucgr.J00493' => 'egr', 'FAN04G2181' => 'fan', 'FAN07G2666' => 'fan', 'FAN11G0024' => 'fan', 'FAN12G1105' => 'fan', 'FAN13G0302' => 'fan', 'FAN15G2781' => 'fan', 'FAN16G1274' => 'fan', 'FAN17G2988' => 'fan', 'FAN18G2621' => 'fan', 'FAN21G0013' => 'fan', 'FAN22G1211' => 'fan', 'FAN25G3626' => 'fan', 'FvH4_2g09491' => 'fve', 'FvH4_3g24910' => 'fve', 'FvH4_4g15630' => 'fve', 'FvH4_5g28820' => 'fve', 'Glyma.01G238000' => 'gma', 'Glyma.05G168400' => 'gma', 'Glyma.08G126800' => 'gma', 'Glyma.08G188500' => 'gma', 'Glyma.10G278900' => 'gma', 'Glyma.11G005700' => 'gma', 'Glyma.11G183300' => 'gma', 'Glyma.12G089200' => 'gma', 'Glyma.12G169400' => 'gma', 'Glyma.12G169500' => 'gma', 'Glyma.12G169600' => 'gma', 'Glyma.20G110800' => 'gma', 'Gohir.A03G192900' => 'ghi', 'Gohir.A03G193000' => 'ghi', 'Gohir.A05G080700' => 'ghi', 'Gohir.A09G216000' => 'ghi', 'Gohir.A12G027700' => 'ghi', 'Gohir.A13G036200' => 'ghi', 'Gohir.A13G222600' => 'ghi', 'Gohir.D02G213900' => 'ghi', 'Gohir.D02G214000' => 'ghi', 'Gohir.D05G083700' => 'ghi', 'Gohir.D05G083800' => 'ghi', 'Gohir.D05G083850' => 'ghi', 'Gohir.D08G015400' => 'ghi', 'Gohir.D09G218400' => 'ghi', 'Gohir.D12G027100' => 'ghi', 'Gohir.D13G034500' => 'ghi', 'Gohir.D13G227400' => 'ghi', 'Gorai.005G241800' => 'gra', 'Gorai.005G241900' => 'gra', 'Gorai.006G239400' => 'gra', 'Gorai.008G027600' => 'gra', 'Gorai.009G085400' => 'gra', 'Gorai.009G085500' => 'gra', 'Gorai.013G039000' => 'gra', 'Gorai.013G194800' => 'gra', 'Gorai.013G257900' => 'gra', 'GSVIVG01000982001' => 'vvi', 'GSVIVG01017981001' => 'vvi', 'HanXRQChr01g0024061' => 'han', 'HanXRQChr09g0247831' => 'han', 'HanXRQChr10g0294611' => 'han', 'HanXRQChr10g0294621' => 'han', 'HanXRQChr11g0346821' => 'han', 'HanXRQChr13g0397461' => 'han', 'HanXRQChr16g0513651' => 'han', 'HanXRQChr16g0513701' => 'han', 'Haze_00897' => 'cav', 'Haze_01745' => 'cav', 'Haze_02486' => 'cav', 'Haze_02487' => 'cav', 'Haze_23374' => 'cav', 'Hma1.2p1_0578F.1_g182520' => 'hma', 'Hma1.2p1_0602F.1_g187350' => 'hma', 'Hma1.2p1_0602F.1_g187360' => 'hma', 'Hma1.2p1_0874F.1_g231320' => 'hma', 'Hma1.2p1_1197F.1_g266210' => 'hma', 'Hma1.2p1_1197F.1_g266220' => 'hma', 'Hma1.2p1_2167F.1_g315895' => 'hma', 'Hma1.2p1_2190F.1_g316640' => 'hma', 'Hma1.2p1_3645F.1_g337153' => 'hma', 'HPP92_004907' => 'vpl', 'HPP92_012134' => 'vpl', 'HPP92_025136' => 'vpl', 'HPP92_026087' => 'vpl', 'Hund06782' => 'sun', 'Hund06784' => 'sun', 'Lalb_Chr01g0004861' => 'lal', 'Lalb_Chr02g0140591' => 'lal', 'Lalb_Chr02g0140611' => 'lal', 'Lalb_Chr03g0028101' => 'lal', 'Lalb_Chr07g0185791' => 'lal', 'Lalb_Chr12g0204491' => 'lal', 'Lalb_Chr13g0295671' => 'lal', 'Lalb_Chr19g0136461' => 'lal', 'Lalb_Chr21g0309191' => 'lal', 'Lj1g0028158' => 'lja', 'Lj1P236T38' => 'lonja', 'Lj2C32G2' => 'lonja', 'Lj2P944T8' => 'lonja', 'Lj2P963T15' => 'lonja', 'Lj3g0011788' => 'lja', 'Lj4g0025027' => 'lja', 'Lj5P255T36' => 'lonja', 'Lj6g0018866' => 'lja', 'Lj6P608T31' => 'lonja', 'LjContig00408g0008879' => 'lja', 'Lsat_1_v5_gn_5_105820' => 'lsa', 'Lsat_1_v5_gn_6_38800' => 'lsa', 'Lsat_1_v5_gn_7_67141' => 'lsa', 'Manes.04G003400' => 'mes', 'Manes.07G020000' => 'mes', 'Manes.07G020100' => 'mes', 'Manes.07G020150' => 'mes', 'Manes.10G061500' => 'mes', 'Manes.10G123200' => 'mes', 'Manes.11G161900' => 'mes', 'Manes.15G029300' => 'mes', 'Mapoly0071s0018' => 'mpo', 'Mapoly0082s0023' => 'mpo', 'Mapoly3477s0001' => 'mpo', 'MBI05_g31233_MAGBIO' => 'mbi', 'MBI09_g05946_MAGBIO' => 'mbi', 'MBI09_g05947_MAGBIO' => 'mbi', 'MBI17_g08346_MAGBIO' => 'mbi', 'MCO04G038' => 'mco', 'MCO09G370' => 'mco', 'MCO13G605' => 'mco', 'MD00G1075500' => 'mdo', 'MD03G1144300' => 'mdo', 'MD08G1236800' => 'mdo', 'MD13G1193300' => 'mdo', 'MD15G1428700' => 'mdo', 'Medtr1g112030' => 'mtr', 'Medtr1g112050' => 'mtr', 'Medtr2g006290' => 'mtr', 'Medtr2g086510' => 'mtr', 'Medtr4g053120' => 'mtr', 'Medtr5g006320' => 'mtr', 'Medtr8g088720' => 'mtr', 'MELO3C004712.2' => 'cme', 'MELO3C006533.2' => 'cme', 'MELO3C019438.2' => 'cme', 'MELO3C019440.2' => 'cme', 'MELO3C019441.2' => 'cme', 'MELO3C019895.2' => 'cme', 'Migut.B00811' => 'egut', 'Migut.D02447' => 'egut', 'Migut.F00875' => 'egut', 'Migut.N00186' => 'egut', 'Migut.N01051' => 'egut', 'Migut.N02491' => 'egut', 'Migut.O00784' => 'egut', 'MSTRG.12367' => 'ama', 'MSTRG.18756' => 'ama', 'MSTRG.21042' => 'ama', 'Nitab4.5_0000559g0040' => 'nta', 'Nitab4.5_0000667g0190' => 'nta', 'Nitab4.5_0000755g0160' => 'nta', 'Nitab4.5_0001216g0080' => 'nta', 'Nitab4.5_0004069g0040' => 'nta', 'Nitab4.5_0004129g0010' => 'nta', 'Nitab4.5_0005744g0030' => 'nta', 'Nitab4.5_0006996g0030' => 'nta', 'Nitab4.5_0008971g0040' => 'nta', 'Nitab4.5_0009769g0020' => 'nta', 'Nitab4.5_0009833g0010' => 'nta', 'Nitab4.5_0013140g0020' => 'nta', 'Nn003s41376' => 'nnu', 'Nn1g01857' => 'nnu', 'Nn1g03611' => 'nnu', 'Nn1g06853' => 'nnu', 'Nn3g18360' => 'nnu', 'Nn4g26328' => 'nnu', 'Nn5g27531' => 'nnu', 'Nn6g34899' => 'nnu', 'Nn7g36299' => 'nnu', 'Oeu021485.1' => 'oeu', 'Oeu022433.1' => 'oeu', 'Oeu032111.1' => 'oeu', 'Oeu051608.1' => 'oeu', 'Os01g0860601' => 'osa', 'Os03g0659200' => 'osa', 'Os03g0835900' => 'osa', 'Os04g0412200' => 'osa', 'Os05g0443500' => 'osa', 'Os07g0251500' => 'osa', 'Os08g0104600' => 'osa', 'Peaxi162Scf00003g00047' => 'pax', 'Peaxi162Scf00003g00052' => 'pax', 'Peaxi162Scf00003g00394' => 'pax', 'Peaxi162Scf00091g00621' => 'pax', 'Peaxi162Scf00152g00146' => 'pax', 'Peaxi162Scf00173g00025' => 'pax', 'Peaxi162Scf00195g00102' => 'pax', 'Peaxi162Scf00402g00013' => 'pax', 'Peaxi162Scf00519g00618' => 'pax', 'PGR004G2838' => 'pgr', 'PGR044G2275' => 'pgr', 'PGR102G1377' => 'pgr', 'PGR119G1245' => 'pgr', 'PGR142G4449' => 'pgr', 'PGSC0003DMG400004532' => 'stu', 'PGSC0003DMG400011950' => 'stu', 'PGSC0003DMG400023391' => 'stu', 'PGSC0003DMG400023985' => 'stu', 'PGSC0003DMG400026360' => 'stu', 'PGSC0003DMG400035711' => 'stu', 'PGSC0003DMG400037286' => 'stu', 'PGSC0003DMG402005881' => 'stu', 'Phvul.002G045400' => 'pvu', 'Phvul.006G216600' => 'pvu', 'Phvul.006G216700' => 'pvu', 'Phvul.006G216800' => 'pvu', 'Phvul.007G022500' => 'pvu', 'Phvul.011G094400' => 'pvu', 'Potri.001G470700' => 'ptr', 'Potri.003G015200' => 'ptr', 'Potri.004G202500' => 'ptr', 'Potri.004G218400' => 'ptr', 'Potri.008G020100' => 'ptr', 'Potri.008G153200' => 'ptr', 'Potri.009G163800' => 'ptr', 'Potri.010G087300' => 'ptr', 'Potri.010G239100' => 'ptr', 'Pp3c10_16100' => 'ppa', 'Pp3c10_16880' => 'ppa', 'Pp3c16_6230' => 'ppa', 'Pp3c17_18910' => 'ppa', 'Pp3c3_22119' => 'ppa', 'Pp3c3_22140' => 'ppa', 'Pp3c4_8159' => 'ppa', 'Pp3c4_8171' => 'ppa', 'Pp3c4_8330' => 'ppa', 'PRCOL_00004098' => 'pco', 'Prupe.1G013900' => 'ppe', 'Prupe.1G226300' => 'ppe', 'Prupe.1G573600' => 'ppe', 'Prupe.6G130100' => 'ppe', 'Psat3g090040' => 'psa', 'Psat4g210440' => 'psa', 'Psat6g231040' => 'psa', 'Psat6g231080' => 'psa', 'Psat7g063000' => 'psa', 'Psat7g188000' => 'psa', 'Psat7g188040' => 'psa', 'PSO017G0206' => 'pso', 'PSO170G0501' => 'pso', 'PSO170G6422' => 'pso', 'PSO210G7739' => 'pso', 'PSO339G1808' => 'pso', 'PSO339G6135' => 'pso', 'PSO384G0010' => 'pso', 'PSO384G0964' => 'pso', 'PSO761G0050' => 'pso', 'PSO782G4085' => 'pso', 'QL01p012264' => 'qlo', 'QL02p099491' => 'qlo', 'QL03p033868' => 'qlo', 'QL04p046678' => 'qlo', 'QL06p002448' => 'qlo', 'RcHm_v2.0_Chr4g0416181' => 'rch', 'RcHm_v2.0_Chr5g0044701' => 'rch', 'RcHm_v2.0_Chr6g0265781' => 'rch', 'RcHm_v2.0_Chr7g0221031' => 'rch', 'Rhsim04G0202000' => 'rsi', 'Rhsim11G0127300' => 'rsi', 'Rhsim13G0111800' => 'rsi', 'Sabra01G0165600' => 'sbr', 'Sabra03G0008300' => 'sbr', 'Sabra04G0136900' => 'sbr', 'Sabra08G0013400' => 'sbr', 'Sabra08G0116800' => 'sbr', 'Sabra09G0128000' => 'sbr', 'Sabra10G0055500' => 'sbr', 'Sabra10G0073300' => 'sbr', 'SalBow3G0385' => 'sbo', 'SalBow3G1119' => 'sbo', 'SalBow3G2005' => 'sbo', 'SalBow6G2563' => 'sbo', 'SalBow6G6386' => 'sbo', 'Sc06g0008800' => 'sci', 'Sc07g0004950' => 'sci', 'Sc09g0005340' => 'sci', 'Sc13g0004410' => 'sci', 'Sc21g0007090' => 'sci', 'Sed0009285' => 'sed', 'Sed0017583' => 'sed', 'Sed0019699' => 'sed', 'Sed0023107' => 'sed', 'SEGI_10916' => 'sgi', 'SEGI_16217' => 'sgi', 'SEGI_19466' => 'sgi', 'SEGI_41115' => 'sgi', 'SGA_v2.0_scaffold111G31534' => 'sas', 'SGA_v2.0_scaffold22G09864' => 'sas', 'SGA_v2.0_scaffold338G49219' => 'sas', 'SGA_v2.0_scaffold92G28298' => 'sas', 'SMO119G0064' => 'smo', 'SMO223G0038' => 'smo', 'SMO347G0584' => 'smo', 'SMO351G0010' => 'smo', 'SMO356G0404' => 'smo', 'Solyc01g103920.3' => 'sly', 'Solyc04g009710.2' => 'sly', 'Solyc05g055280.2' => 'sly', 'Solyc10g044520.3' => 'sly', 'Solyc10g075160.1' => 'sly', 'Solyc11g006910.3' => 'sly', 'Solyc11g068430.3' => 'sly', 'Sopen01g046310' => 'spe', 'Sopen03g001200' => 'spe', 'Sopen04g004830' => 'spe', 'Sopen05g033720' => 'spe', 'Sopen06g030740' => 'spe', 'Sopen10g013090' => 'spe', 'Sopen10g027630' => 'spe', 'Sopen10g027640' => 'spe', 'Sopen11g002820' => 'spe', 'Sopen11g027140' => 'spe', 'Sp1g09680' => 'spa', 'Sp2g03630' => 'spa', 'Sp4g10320' => 'spa', 'Sp6g33400' => 'spa', 'Sp7g13030' => 'spa', 'TAR365G0317' => 'tar', 'TAR376G0979' => 'tar', 'TAR623G1665' => 'tar', 'TAR633G2373' => 'tar', 'TAR636G1400' => 'tar', 'THA.LOC104800529' => 'tha', 'THA.LOC104808547' => 'tha', 'THA.LOC104809615' => 'tha', 'THA.LOC104815724' => 'tha', 'THA.LOC104818480' => 'tha', 'THA.LOC104819179' => 'tha', 'THA.LOC104822270' => 'tha', 'THA.LOC104826425' => 'tha', 'Thecc.02G089700' => 'tca', 'Thecc.04G232300' => 'tca', 'Thecc.09G283400' => 'tca', 'Thhalv10009020m.g' => 'esa', 'Thhalv10015506m.g' => 'esa', 'Thhalv10017364m.g' => 'esa', 'Thhalv10023742m.g' => 'esa', 'Thhalv10026483m.g' => 'esa', 'TPR.G17232' => 'tpr', 'TPR.G2133' => 'tpr', 'TPR.G2498' => 'tpr', 'TPR.G31942' => 'tpr', 'TPR.G37877' => 'tpr', 'TPR.G4571' => 'tpr', 'TWI14G1113' => 'twi', 'TWI15G0426' => 'twi', 'TWI31G1005' => 'twi', 'TWI38G0513' => 'twi', 'TWI38G1484' => 'twi', 'TWI73G1098' => 'twi', 'unitig_26.g10519' => 'ugi', 'unitig_736.g22395' => 'ugi', 'unitig_747.g21234' => 'ugi', 'unitig_747.g21942' => 'ugi', 'vmacro14351' => 'vma', 'VMungo0540G0082' => 'vmu', 'VMungo0540G0405' => 'vmu', 'VMungo0540G1486' => 'vmu', 'VMungo0540G1692' => 'vmu', 'VMungo0720G2473' => 'vmu', 'VMungo1127G1562' => 'vmu', 'VMungo1215G1918' => 'vmu', 'Zm00001eb052650' => 'zma', 'Zm00001eb063710' => 'zma', 'Zm00001eb083950' => 'zma', 'Zm00001eb174420' => 'zma', 'Zm00001eb260140' => 'zma', 'Zm00001eb260150' => 'zma', 'Zm00001eb260160' => 'zma', 'Zm00001eb348290' => 'zma', 'Zm00001eb366870' => 'zma', 'Zm00001eb421930' => 'zma' ) $gf_id = 'HOM05D001025' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001025' ) $data_identifier = 'HOM05D001025' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 19, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 2, 'amhyb' => (int) 4, 'aly' => (int) 4, 'aox' => (int) 4, 'arhy' => (int) 3, 'ath' => (int) 5, 'atr' => (int) 4, 'acertr' => (int) 3, 'cqu' => (int) 7, 'bca' => (int) 17, 'bol' => (int) 10, 'bra' => (int) 9, 'can' => (int) 10, 'cansat' => (int) 6, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 5, 'cbr' => (int) 5, 'ccan' => (int) 5, 'cde' => (int) 4, 'cfa' => (int) 3, 'ccl' => (int) 6, 'cil' => (int) 4, 'cla' => (int) 3, 'col' => (int) 3, 'cpa' => (int) 3, 'cre' => (int) 7, 'csa' => (int) 5, 'camsi' => (int) 9, 'dca' => (int) 4, 'din' => (int) 5, 'dzi' => (int) 7, 'eca' => (int) 6, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 12, 'fve' => (int) 4, 'gma' => (int) 12, 'ghi' => (int) 17, 'gra' => (int) 9, 'vvi' => (int) 2, 'han' => (int) 8, 'cav' => (int) 5, 'hma' => (int) 9, 'vpl' => (int) 4, 'sun' => (int) 2, 'lal' => (int) 9, 'lja' => (int) 5, 'lonja' => (int) 6, 'lsa' => (int) 3, 'mes' => (int) 8, 'mpo' => (int) 3, 'mbi' => (int) 4, 'mco' => (int) 3, 'mdo' => (int) 5, 'mtr' => (int) 7, 'cme' => (int) 6, 'egut' => (int) 7, 'ama' => (int) 3, 'nta' => (int) 12, 'nnu' => (int) 9, 'oeu' => (int) 4, 'osa' => (int) 7, 'pax' => (int) 9, 'pgr' => (int) 5, 'stu' => (int) 8, 'pvu' => (int) 6, 'ptr' => (int) 9, 'ppa' => (int) 9, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 7, 'pso' => (int) 10, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 3, 'sbr' => (int) 8, 'sbo' => (int) 5, 'sci' => (int) 5, 'sed' => (int) 4, 'sgi' => (int) 4, 'sas' => (int) 4, 'smo' => (int) 5, 'sly' => (int) 7, 'spe' => (int) 10, 'spa' => (int) 5, 'tar' => (int) 5, 'tha' => (int) 8, 'tca' => (int) 3, 'esa' => (int) 5, 'tpr' => (int) 6, 'twi' => (int) 6, 'ugi' => (int) 4, 'vma' => (int) 1, 'vmu' => (int) 7, 'zma' => (int) 10 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb421930' $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' => 'HOM05D001025', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '592', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p22650' => 'bna', 'A01p29720' => 'bna', 'A03p26560' => 'bna', 'A03p68820' => 'bna', 'A04p20980' => 'bna', 'A06p07730' => 'bna', 'A07p18260' => 'bna', 'A08p33710' => 'bna', 'A09p16970' => 'bna', 'A10p27490' => 'bna', 'Aa31LG1G17300' => 'aar', 'Aa31LG1G3910' => 'aar', 'Aa31LG2G9630' => 'aar', 'Aa31LG5G8360' => 'aar', 'Aa31LG9G2410' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4699' => 'aag', 'Actinidia23512' => 'ach', 'Actinidia37080' => 'ach', 'Ah.01g020380' => 'amhyb', 'Ah.08g215710' => 'amhyb', 'Ah.09g225110' => 'amhyb', 'Ah.10g036680' => 'amhyb', 'AL1G21940' => 'aly', 'AL2G15540' => 'aly', 'AL4G21520' => 'aly', 'AL7G40960' => 'aly', 'Aqoxy2G01191' => 'aox', 'Aqoxy2G03393' => 'aox', 'Aqoxy4G02775' => 'aox', 'Aqoxy6G00058' => 'aox', 'arahy.Tifrunner.gnm1.ann1.9X74H2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CW3FX9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R485W7' => 'arhy', 'AT1G10960' => 'ath', 'AT1G60950' => 'ath', 'AT2G27510' => 'ath', 'AT4G14890' => 'ath', 'AT5G10000' => 'ath', 'ATR0665G624' => 'atr', 'ATR0697G138' => 'atr', 'ATR0776G046' => 'atr', 'ATR1134G135' => 'atr', 'Atru.chr12.1025' => 'acertr', 'Atru.chr3.3241' => 'acertr', 'Atru.chr4.2460' => 'acertr', 'AUR62007427' => 'cqu', 'AUR62010960' => 'cqu', 'AUR62012201' => 'cqu', 'AUR62021470' => 'cqu', 'AUR62022834' => 'cqu', 'AUR62033635' => 'cqu', 'AUR62036186' => 'cqu', 'BcaB01g03077' => 'bca', 'BcaB02g10093' => 'bca', 'BcaB04g20295' => 'bca', 'BcaB06g28147' => 'bca', 'BcaB07g31253' => 'bca', 'BcaC01g04946' => 'bca', 'BcaC02g10614' => 'bca', 'BcaC02g10885' => 'bca', 'BcaC04g19356' => 'bca', 'BcaC04g22297' => 'bca', 'BcaC05g24977' => 'bca', 'BcaC06g31823' => 'bca', 'BcaC07g38633' => 'bca', 'BcaC09g49353' => 'bca', 'BcaC09g50168' => 'bca', 'BcaNung00322' => 'bca', 'BcaNung04769' => 'bca', 'BolC1t02753H' => 'bol', 'BolC1t03721H' => 'bol', 'BolC3t15525H' => 'bol', 'BolC4t23903H' => 'bol', 'BolC4t24231H' => 'bol', 'BolC4t27209H' => 'bol', 'BolC5t29671H' => 'bol', 'BolC8t49044H' => 'bol', 'BolC9t54999H' => 'bol', 'BolC9t59517H' => 'bol', 'BraA01t02178Z' => 'bra', 'BraA01t03099Z' => 'bra', 'BraA03t11867Z' => 'bra', 'BraA04t17667Z' => 'bra', 'BraA07t29542Z' => 'bra', 'BraA08t35287Z' => 'bra', 'BraA09t37334Z' => 'bra', 'BraA10t44801Z' => 'bra', 'BraSC39t46181Z' => 'bra', 'C01p28240' => 'bna', 'C01p37530' => 'bna', 'C03p31820' => 'bna', 'C04p24080' => 'bna', 'C04p25790' => 'bna', 'C04p56770' => 'bna', 'C05p09310' => 'bna', 'C09p21010' => 'bna', 'C09p67560' => 'bna', 'CAN.G1324.7' => 'can', 'CAN.G1358.10' => 'can', 'CAN.G1550.2' => 'can', 'CAN.G186.56' => 'can', 'CAN.G1965.1' => 'can', 'CAN.G645.15' => 'can', 'CAN.G798.26' => 'can', 'CAN.G798.27' => 'can', 'CAN.G798.29' => 'can', 'CAN.G919.31' => 'can', 'CANSAT11G0133' => 'cansat', 'CANSAT11G1171' => 'cansat', 'CANSAT11G2056' => 'cansat', 'CANSAT56G1202' => 'cansat', 'CANSAT56G1514' => 'cansat', 'CANSAT78G0455' => 'cansat', 'CARHR011190' => 'chi', 'CARHR051980' => 'chi', 'CARHR120170' => 'chi', 'CARHR203310' => 'chi', 'CARHR221490' => 'chi', 'Carub.0001s1054' => 'cru', 'Carub.0002s0431' => 'cru', 'Carub.0004s0818' => 'cru', 'Carub.0006s0846' => 'cru', 'Carub.0007s2722' => 'cru', 'Ca_00058_v3' => 'car', 'Ca_17831_v3' => 'car', 'Ca_19408_v3' => 'car', 'Ca_24397_v3' => 'car', 'Ca_25664_v3' => 'car', 'CBR_g21818' => 'cbr', 'CBR_g31195' => 'cbr', 'CBR_g32282' => 'cbr', 'CBR_g39599' => 'cbr', 'CBR_g49410' => 'cbr', 'Cc01_g09120' => 'ccan', 'Cc01_g09130' => 'ccan', 'Cc02_g09630' => 'ccan', 'Cc02_g22810' => 'ccan', 'Cc03_g03810' => 'ccan', 'CDE02G3718' => 'cde', 'CDE04G3183' => 'cde', 'CDE07G1046' => 'cde', 'CDE08G0480' => 'cde', 'Cfa005493' => 'cfa', 'Cfa010312' => 'cfa', 'Cfa015648' => 'cfa', 'Ciclev10002793m.g' => 'ccl', 'Ciclev10003356m.g' => 'ccl', 'Ciclev10006141m.g' => 'ccl', 'Ciclev10016676m.g' => 'ccl', 'Ciclev10017081m.g' => 'ccl', 'Ciclev10029499m.g' => 'ccl', 'CiPaw.01G166300' => 'cil', 'CiPaw.06G145600' => 'cil', 'CiPaw.13G040100' => 'cil', 'CiPaw.13G135800' => 'cil', 'ClCG01G012230' => 'cla', 'ClCG05G009510' => 'cla', 'ClCG08G008270' => 'cla', 'COL.COLO4_11763' => 'col', 'COL.COLO4_19876' => 'col', 'COL.COLO4_21481' => 'col', 'Cpa.g.sc118.34' => 'cpa', 'Cpa.g.sc32.13' => 'cpa', 'Cpa.g.sc58.103' => 'cpa', 'Cre03.g183850' => 'cre', 'Cre06.g306350' => 'cre', 'Cre07.g334800' => 'cre', 'Cre12.g487900' => 'cre', 'Cre14.g626700' => 'cre', 'Cre16.g658400' => 'cre', 'Cre17.g700950' => 'cre', 'CsaV3_1G014830' => 'csa', 'CsaV3_3G013320' => 'csa', 'CsaV3_3G019210' => 'csa', 'CsaV3_3G019220' => 'csa', 'CsaV3_6G004230' => 'csa', 'CSS0003773' => 'camsi', 'CSS0004563' => 'camsi', 'CSS0013949' => 'camsi', 'CSS0025971' => 'camsi', 'CSS0028570' => 'camsi', 'CSS0033127' => 'camsi', 'CSS0036051' => 'camsi', 'CSS0040087' => 'camsi', 'CSS0043179' => 'camsi', 'DCAR_006161' => 'dca', 'DCAR_010351' => 'dca', 'DCAR_012197' => 'dca', 'DCAR_024162' => 'dca', 'Dinv01030' => 'din', 'Dinv10924' => 'din', 'Dinv11835' => 'din', 'Dinv22841' => 'din', 'Dinv42553' => 'din', 'Duzib052G0560' => 'dzi', 'Duzib132G0389' => 'dzi', 'Duzib150G1181' => 'dzi', 'Duzib168G0623' => 'dzi', 'Duzib170G1036' => 'dzi', 'Duzib212G0200' => 'dzi', 'Duzib248G0194' => 'dzi', 'ECA232G2193' => 'eca', 'ECA233G0302' => 'eca', 'ECA234G2813' => 'eca', 'ECA234G4866' => 'eca', 'ECA240G3932' => 'eca', 'ECA248G0385' => 'eca', 'EL10Ac2g04781' => 'bvu', 'EL10Ac3g06445' => 'bvu', 'EL10Ac7g15825' => 'bvu', 'EL10Ac8g18550' => 'bvu', 'Eucgr.B03849' => 'egr', 'Eucgr.I02744' => 'egr', 'Eucgr.J00264' => 'egr', 'Eucgr.J00493' => 'egr', 'FAN04G2181' => 'fan', 'FAN07G2666' => 'fan', 'FAN11G0024' => 'fan', 'FAN12G1105' => 'fan', 'FAN13G0302' => 'fan', 'FAN15G2781' => 'fan', 'FAN16G1274' => 'fan', 'FAN17G2988' => 'fan', 'FAN18G2621' => 'fan', 'FAN21G0013' => 'fan', 'FAN22G1211' => 'fan', 'FAN25G3626' => 'fan', 'FvH4_2g09491' => 'fve', 'FvH4_3g24910' => 'fve', 'FvH4_4g15630' => 'fve', 'FvH4_5g28820' => 'fve', 'Glyma.01G238000' => 'gma', 'Glyma.05G168400' => 'gma', 'Glyma.08G126800' => 'gma', 'Glyma.08G188500' => 'gma', 'Glyma.10G278900' => 'gma', 'Glyma.11G005700' => 'gma', 'Glyma.11G183300' => 'gma', 'Glyma.12G089200' => 'gma', 'Glyma.12G169400' => 'gma', 'Glyma.12G169500' => 'gma', 'Glyma.12G169600' => 'gma', 'Glyma.20G110800' => 'gma', 'Gohir.A03G192900' => 'ghi', 'Gohir.A03G193000' => 'ghi', 'Gohir.A05G080700' => 'ghi', 'Gohir.A09G216000' => 'ghi', 'Gohir.A12G027700' => 'ghi', 'Gohir.A13G036200' => 'ghi', 'Gohir.A13G222600' => 'ghi', 'Gohir.D02G213900' => 'ghi', 'Gohir.D02G214000' => 'ghi', 'Gohir.D05G083700' => 'ghi', 'Gohir.D05G083800' => 'ghi', 'Gohir.D05G083850' => 'ghi', 'Gohir.D08G015400' => 'ghi', 'Gohir.D09G218400' => 'ghi', 'Gohir.D12G027100' => 'ghi', 'Gohir.D13G034500' => 'ghi', 'Gohir.D13G227400' => 'ghi', 'Gorai.005G241800' => 'gra', 'Gorai.005G241900' => 'gra', 'Gorai.006G239400' => 'gra', 'Gorai.008G027600' => 'gra', 'Gorai.009G085400' => 'gra', 'Gorai.009G085500' => 'gra', 'Gorai.013G039000' => 'gra', 'Gorai.013G194800' => 'gra', 'Gorai.013G257900' => 'gra', 'GSVIVG01000982001' => 'vvi', 'GSVIVG01017981001' => 'vvi', 'HanXRQChr01g0024061' => 'han', 'HanXRQChr09g0247831' => 'han', 'HanXRQChr10g0294611' => 'han', 'HanXRQChr10g0294621' => 'han', 'HanXRQChr11g0346821' => 'han', 'HanXRQChr13g0397461' => 'han', 'HanXRQChr16g0513651' => 'han', 'HanXRQChr16g0513701' => 'han', 'Haze_00897' => 'cav', 'Haze_01745' => 'cav', 'Haze_02486' => 'cav', 'Haze_02487' => 'cav', 'Haze_23374' => 'cav', 'Hma1.2p1_0578F.1_g182520' => 'hma', 'Hma1.2p1_0602F.1_g187350' => 'hma', 'Hma1.2p1_0602F.1_g187360' => 'hma', 'Hma1.2p1_0874F.1_g231320' => 'hma', 'Hma1.2p1_1197F.1_g266210' => 'hma', 'Hma1.2p1_1197F.1_g266220' => 'hma', 'Hma1.2p1_2167F.1_g315895' => 'hma', 'Hma1.2p1_2190F.1_g316640' => 'hma', 'Hma1.2p1_3645F.1_g337153' => 'hma', 'HPP92_004907' => 'vpl', 'HPP92_012134' => 'vpl', 'HPP92_025136' => 'vpl', 'HPP92_026087' => 'vpl', 'Hund06782' => 'sun', 'Hund06784' => 'sun', 'Lalb_Chr01g0004861' => 'lal', 'Lalb_Chr02g0140591' => 'lal', 'Lalb_Chr02g0140611' => 'lal', 'Lalb_Chr03g0028101' => 'lal', 'Lalb_Chr07g0185791' => 'lal', 'Lalb_Chr12g0204491' => 'lal', 'Lalb_Chr13g0295671' => 'lal', 'Lalb_Chr19g0136461' => 'lal', 'Lalb_Chr21g0309191' => 'lal', 'Lj1g0028158' => 'lja', 'Lj1P236T38' => 'lonja', 'Lj2C32G2' => 'lonja', 'Lj2P944T8' => 'lonja', 'Lj2P963T15' => 'lonja', 'Lj3g0011788' => 'lja', 'Lj4g0025027' => 'lja', 'Lj5P255T36' => 'lonja', 'Lj6g0018866' => 'lja', 'Lj6P608T31' => 'lonja', 'LjContig00408g0008879' => 'lja', 'Lsat_1_v5_gn_5_105820' => 'lsa', 'Lsat_1_v5_gn_6_38800' => 'lsa', 'Lsat_1_v5_gn_7_67141' => 'lsa', 'Manes.04G003400' => 'mes', 'Manes.07G020000' => 'mes', 'Manes.07G020100' => 'mes', 'Manes.07G020150' => 'mes', 'Manes.10G061500' => 'mes', 'Manes.10G123200' => 'mes', 'Manes.11G161900' => 'mes', 'Manes.15G029300' => 'mes', 'Mapoly0071s0018' => 'mpo', 'Mapoly0082s0023' => 'mpo', 'Mapoly3477s0001' => 'mpo', 'MBI05_g31233_MAGBIO' => 'mbi', 'MBI09_g05946_MAGBIO' => 'mbi', 'MBI09_g05947_MAGBIO' => 'mbi', 'MBI17_g08346_MAGBIO' => 'mbi', 'MCO04G038' => 'mco', 'MCO09G370' => 'mco', 'MCO13G605' => 'mco', 'MD00G1075500' => 'mdo', 'MD03G1144300' => 'mdo', 'MD08G1236800' => 'mdo', 'MD13G1193300' => 'mdo', 'MD15G1428700' => 'mdo', 'Medtr1g112030' => 'mtr', 'Medtr1g112050' => 'mtr', 'Medtr2g006290' => 'mtr', 'Medtr2g086510' => 'mtr', 'Medtr4g053120' => 'mtr', 'Medtr5g006320' => 'mtr', 'Medtr8g088720' => 'mtr', 'MELO3C004712.2' => 'cme', 'MELO3C006533.2' => 'cme', 'MELO3C019438.2' => 'cme', 'MELO3C019440.2' => 'cme', 'MELO3C019441.2' => 'cme', 'MELO3C019895.2' => 'cme', 'Migut.B00811' => 'egut', 'Migut.D02447' => 'egut', 'Migut.F00875' => 'egut', 'Migut.N00186' => 'egut', 'Migut.N01051' => 'egut', 'Migut.N02491' => 'egut', 'Migut.O00784' => 'egut', 'MSTRG.12367' => 'ama', 'MSTRG.18756' => 'ama', 'MSTRG.21042' => 'ama', 'Nitab4.5_0000559g0040' => 'nta', 'Nitab4.5_0000667g0190' => 'nta', 'Nitab4.5_0000755g0160' => 'nta', 'Nitab4.5_0001216g0080' => 'nta', 'Nitab4.5_0004069g0040' => 'nta', 'Nitab4.5_0004129g0010' => 'nta', 'Nitab4.5_0005744g0030' => 'nta', 'Nitab4.5_0006996g0030' => 'nta', 'Nitab4.5_0008971g0040' => 'nta', 'Nitab4.5_0009769g0020' => 'nta', 'Nitab4.5_0009833g0010' => 'nta', 'Nitab4.5_0013140g0020' => 'nta', 'Nn003s41376' => 'nnu', 'Nn1g01857' => 'nnu', 'Nn1g03611' => 'nnu', 'Nn1g06853' => 'nnu', 'Nn3g18360' => 'nnu', 'Nn4g26328' => 'nnu', 'Nn5g27531' => 'nnu', 'Nn6g34899' => 'nnu', 'Nn7g36299' => 'nnu', 'Oeu021485.1' => 'oeu', 'Oeu022433.1' => 'oeu', 'Oeu032111.1' => 'oeu', 'Oeu051608.1' => 'oeu', 'Os01g0860601' => 'osa', 'Os03g0659200' => 'osa', 'Os03g0835900' => 'osa', 'Os04g0412200' => 'osa', 'Os05g0443500' => 'osa', 'Os07g0251500' => 'osa', 'Os08g0104600' => 'osa', 'Peaxi162Scf00003g00047' => 'pax', 'Peaxi162Scf00003g00052' => 'pax', 'Peaxi162Scf00003g00394' => 'pax', 'Peaxi162Scf00091g00621' => 'pax', 'Peaxi162Scf00152g00146' => 'pax', 'Peaxi162Scf00173g00025' => 'pax', 'Peaxi162Scf00195g00102' => 'pax', 'Peaxi162Scf00402g00013' => 'pax', 'Peaxi162Scf00519g00618' => 'pax', 'PGR004G2838' => 'pgr', 'PGR044G2275' => 'pgr', 'PGR102G1377' => 'pgr', 'PGR119G1245' => 'pgr', 'PGR142G4449' => 'pgr', 'PGSC0003DMG400004532' => 'stu', 'PGSC0003DMG400011950' => 'stu', 'PGSC0003DMG400023391' => 'stu', 'PGSC0003DMG400023985' => 'stu', 'PGSC0003DMG400026360' => 'stu', 'PGSC0003DMG400035711' => 'stu', 'PGSC0003DMG400037286' => 'stu', 'PGSC0003DMG402005881' => 'stu', 'Phvul.002G045400' => 'pvu', 'Phvul.006G216600' => 'pvu', 'Phvul.006G216700' => 'pvu', 'Phvul.006G216800' => 'pvu', 'Phvul.007G022500' => 'pvu', 'Phvul.011G094400' => 'pvu', 'Potri.001G470700' => 'ptr', 'Potri.003G015200' => 'ptr', 'Potri.004G202500' => 'ptr', 'Potri.004G218400' => 'ptr', 'Potri.008G020100' => 'ptr', 'Potri.008G153200' => 'ptr', 'Potri.009G163800' => 'ptr', 'Potri.010G087300' => 'ptr', 'Potri.010G239100' => 'ptr', 'Pp3c10_16100' => 'ppa', 'Pp3c10_16880' => 'ppa', 'Pp3c16_6230' => 'ppa', 'Pp3c17_18910' => 'ppa', 'Pp3c3_22119' => 'ppa', 'Pp3c3_22140' => 'ppa', 'Pp3c4_8159' => 'ppa', 'Pp3c4_8171' => 'ppa', 'Pp3c4_8330' => 'ppa', 'PRCOL_00004098' => 'pco', 'Prupe.1G013900' => 'ppe', 'Prupe.1G226300' => 'ppe', 'Prupe.1G573600' => 'ppe', 'Prupe.6G130100' => 'ppe', 'Psat3g090040' => 'psa', 'Psat4g210440' => 'psa', 'Psat6g231040' => 'psa', 'Psat6g231080' => 'psa', 'Psat7g063000' => 'psa', 'Psat7g188000' => 'psa', 'Psat7g188040' => 'psa', 'PSO017G0206' => 'pso', 'PSO170G0501' => 'pso', 'PSO170G6422' => 'pso', 'PSO210G7739' => 'pso', 'PSO339G1808' => 'pso', 'PSO339G6135' => 'pso', 'PSO384G0010' => 'pso', 'PSO384G0964' => 'pso', 'PSO761G0050' => 'pso', 'PSO782G4085' => 'pso', 'QL01p012264' => 'qlo', 'QL02p099491' => 'qlo', 'QL03p033868' => 'qlo', 'QL04p046678' => 'qlo', 'QL06p002448' => 'qlo', 'RcHm_v2.0_Chr4g0416181' => 'rch', 'RcHm_v2.0_Chr5g0044701' => 'rch', 'RcHm_v2.0_Chr6g0265781' => 'rch', 'RcHm_v2.0_Chr7g0221031' => 'rch', 'Rhsim04G0202000' => 'rsi', 'Rhsim11G0127300' => 'rsi', 'Rhsim13G0111800' => 'rsi', 'Sabra01G0165600' => 'sbr', 'Sabra03G0008300' => 'sbr', 'Sabra04G0136900' => 'sbr', 'Sabra08G0013400' => 'sbr', 'Sabra08G0116800' => 'sbr', 'Sabra09G0128000' => 'sbr', 'Sabra10G0055500' => 'sbr', 'Sabra10G0073300' => 'sbr', 'SalBow3G0385' => 'sbo', 'SalBow3G1119' => 'sbo', 'SalBow3G2005' => 'sbo', 'SalBow6G2563' => 'sbo', 'SalBow6G6386' => 'sbo', 'Sc06g0008800' => 'sci', 'Sc07g0004950' => 'sci', 'Sc09g0005340' => 'sci', 'Sc13g0004410' => 'sci', 'Sc21g0007090' => 'sci', 'Sed0009285' => 'sed', 'Sed0017583' => 'sed', 'Sed0019699' => 'sed', 'Sed0023107' => 'sed', 'SEGI_10916' => 'sgi', 'SEGI_16217' => 'sgi', 'SEGI_19466' => 'sgi', 'SEGI_41115' => 'sgi', 'SGA_v2.0_scaffold111G31534' => 'sas', 'SGA_v2.0_scaffold22G09864' => 'sas', 'SGA_v2.0_scaffold338G49219' => 'sas', 'SGA_v2.0_scaffold92G28298' => 'sas', 'SMO119G0064' => 'smo', 'SMO223G0038' => 'smo', 'SMO347G0584' => 'smo', 'SMO351G0010' => 'smo', 'SMO356G0404' => 'smo', 'Solyc01g103920.3' => 'sly', 'Solyc04g009710.2' => 'sly', 'Solyc05g055280.2' => 'sly', 'Solyc10g044520.3' => 'sly', 'Solyc10g075160.1' => 'sly', 'Solyc11g006910.3' => 'sly', 'Solyc11g068430.3' => 'sly', 'Sopen01g046310' => 'spe', 'Sopen03g001200' => 'spe', 'Sopen04g004830' => 'spe', 'Sopen05g033720' => 'spe', 'Sopen06g030740' => 'spe', 'Sopen10g013090' => 'spe', 'Sopen10g027630' => 'spe', 'Sopen10g027640' => 'spe', 'Sopen11g002820' => 'spe', 'Sopen11g027140' => 'spe', 'Sp1g09680' => 'spa', 'Sp2g03630' => 'spa', 'Sp4g10320' => 'spa', 'Sp6g33400' => 'spa', 'Sp7g13030' => 'spa', 'TAR365G0317' => 'tar', 'TAR376G0979' => 'tar', 'TAR623G1665' => 'tar', 'TAR633G2373' => 'tar', 'TAR636G1400' => 'tar', 'THA.LOC104800529' => 'tha', 'THA.LOC104808547' => 'tha', 'THA.LOC104809615' => 'tha', 'THA.LOC104815724' => 'tha', 'THA.LOC104818480' => 'tha', 'THA.LOC104819179' => 'tha', 'THA.LOC104822270' => 'tha', 'THA.LOC104826425' => 'tha', 'Thecc.02G089700' => 'tca', 'Thecc.04G232300' => 'tca', 'Thecc.09G283400' => 'tca', 'Thhalv10009020m.g' => 'esa', 'Thhalv10015506m.g' => 'esa', 'Thhalv10017364m.g' => 'esa', 'Thhalv10023742m.g' => 'esa', 'Thhalv10026483m.g' => 'esa', 'TPR.G17232' => 'tpr', 'TPR.G2133' => 'tpr', 'TPR.G2498' => 'tpr', 'TPR.G31942' => 'tpr', 'TPR.G37877' => 'tpr', 'TPR.G4571' => 'tpr', 'TWI14G1113' => 'twi', 'TWI15G0426' => 'twi', 'TWI31G1005' => 'twi', 'TWI38G0513' => 'twi', 'TWI38G1484' => 'twi', 'TWI73G1098' => 'twi', 'unitig_26.g10519' => 'ugi', 'unitig_736.g22395' => 'ugi', 'unitig_747.g21234' => 'ugi', 'unitig_747.g21942' => 'ugi', 'vmacro14351' => 'vma', 'VMungo0540G0082' => 'vmu', 'VMungo0540G0405' => 'vmu', 'VMungo0540G1486' => 'vmu', 'VMungo0540G1692' => 'vmu', 'VMungo0720G2473' => 'vmu', 'VMungo1127G1562' => 'vmu', 'VMungo1215G1918' => 'vmu', 'Zm00001eb052650' => 'zma', 'Zm00001eb063710' => 'zma', 'Zm00001eb083950' => 'zma', 'Zm00001eb174420' => 'zma', 'Zm00001eb260140' => 'zma', 'Zm00001eb260150' => 'zma', 'Zm00001eb260160' => 'zma', 'Zm00001eb348290' => 'zma', 'Zm00001eb366870' => 'zma', 'Zm00001eb421930' => 'zma' ), 'gf_id' => 'HOM05D001025', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001025' ), 'data_identifier' => 'HOM05D001025', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001025', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '592', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p22650' => 'bna', 'A01p29720' => 'bna', 'A03p26560' => 'bna', 'A03p68820' => 'bna', 'A04p20980' => 'bna', 'A06p07730' => 'bna', 'A07p18260' => 'bna', 'A08p33710' => 'bna', 'A09p16970' => 'bna', 'A10p27490' => 'bna', 'Aa31LG1G17300' => 'aar', 'Aa31LG1G3910' => 'aar', 'Aa31LG2G9630' => 'aar', 'Aa31LG5G8360' => 'aar', 'Aa31LG9G2410' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4699' => 'aag', 'Actinidia23512' => 'ach', 'Actinidia37080' => 'ach', 'Ah.01g020380' => 'amhyb', 'Ah.08g215710' => 'amhyb', 'Ah.09g225110' => 'amhyb', 'Ah.10g036680' => 'amhyb', 'AL1G21940' => 'aly', 'AL2G15540' => 'aly', 'AL4G21520' => 'aly', 'AL7G40960' => 'aly', 'Aqoxy2G01191' => 'aox', 'Aqoxy2G03393' => 'aox', 'Aqoxy4G02775' => 'aox', 'Aqoxy6G00058' => 'aox', 'arahy.Tifrunner.gnm1.ann1.9X74H2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CW3FX9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R485W7' => 'arhy', 'AT1G10960' => 'ath', 'AT1G60950' => 'ath', 'AT2G27510' => 'ath', 'AT4G14890' => 'ath', 'AT5G10000' => 'ath', 'ATR0665G624' => 'atr', 'ATR0697G138' => 'atr', 'ATR0776G046' => 'atr', 'ATR1134G135' => 'atr', 'Atru.chr12.1025' => 'acertr', 'Atru.chr3.3241' => 'acertr', 'Atru.chr4.2460' => 'acertr', 'AUR62007427' => 'cqu', 'AUR62010960' => 'cqu', 'AUR62012201' => 'cqu', 'AUR62021470' => 'cqu', 'AUR62022834' => 'cqu', 'AUR62033635' => 'cqu', 'AUR62036186' => 'cqu', 'BcaB01g03077' => 'bca', 'BcaB02g10093' => 'bca', 'BcaB04g20295' => 'bca', 'BcaB06g28147' => 'bca', 'BcaB07g31253' => 'bca', 'BcaC01g04946' => 'bca', 'BcaC02g10614' => 'bca', 'BcaC02g10885' => 'bca', 'BcaC04g19356' => 'bca', 'BcaC04g22297' => 'bca', 'BcaC05g24977' => 'bca', 'BcaC06g31823' => 'bca', 'BcaC07g38633' => 'bca', 'BcaC09g49353' => 'bca', 'BcaC09g50168' => 'bca', 'BcaNung00322' => 'bca', 'BcaNung04769' => 'bca', 'BolC1t02753H' => 'bol', 'BolC1t03721H' => 'bol', 'BolC3t15525H' => 'bol', 'BolC4t23903H' => 'bol', 'BolC4t24231H' => 'bol', 'BolC4t27209H' => 'bol', 'BolC5t29671H' => 'bol', 'BolC8t49044H' => 'bol', 'BolC9t54999H' => 'bol', 'BolC9t59517H' => 'bol', 'BraA01t02178Z' => 'bra', 'BraA01t03099Z' => 'bra', 'BraA03t11867Z' => 'bra', 'BraA04t17667Z' => 'bra', 'BraA07t29542Z' => 'bra', 'BraA08t35287Z' => 'bra', 'BraA09t37334Z' => 'bra', 'BraA10t44801Z' => 'bra', 'BraSC39t46181Z' => 'bra', 'C01p28240' => 'bna', 'C01p37530' => 'bna', 'C03p31820' => 'bna', 'C04p24080' => 'bna', 'C04p25790' => 'bna', 'C04p56770' => 'bna', 'C05p09310' => 'bna', 'C09p21010' => 'bna', 'C09p67560' => 'bna', 'CAN.G1324.7' => 'can', 'CAN.G1358.10' => 'can', 'CAN.G1550.2' => 'can', 'CAN.G186.56' => 'can', 'CAN.G1965.1' => 'can', 'CAN.G645.15' => 'can', 'CAN.G798.26' => 'can', 'CAN.G798.27' => 'can', 'CAN.G798.29' => 'can', 'CAN.G919.31' => 'can', 'CANSAT11G0133' => 'cansat', 'CANSAT11G1171' => 'cansat', 'CANSAT11G2056' => 'cansat', 'CANSAT56G1202' => 'cansat', 'CANSAT56G1514' => 'cansat', 'CANSAT78G0455' => 'cansat', 'CARHR011190' => 'chi', 'CARHR051980' => 'chi', 'CARHR120170' => 'chi', 'CARHR203310' => 'chi', 'CARHR221490' => 'chi', 'Carub.0001s1054' => 'cru', 'Carub.0002s0431' => 'cru', 'Carub.0004s0818' => 'cru', 'Carub.0006s0846' => 'cru', 'Carub.0007s2722' => 'cru', 'Ca_00058_v3' => 'car', 'Ca_17831_v3' => 'car', 'Ca_19408_v3' => 'car', 'Ca_24397_v3' => 'car', 'Ca_25664_v3' => 'car', 'CBR_g21818' => 'cbr', 'CBR_g31195' => 'cbr', 'CBR_g32282' => 'cbr', 'CBR_g39599' => 'cbr', 'CBR_g49410' => 'cbr', 'Cc01_g09120' => 'ccan', 'Cc01_g09130' => 'ccan', 'Cc02_g09630' => 'ccan', 'Cc02_g22810' => 'ccan', 'Cc03_g03810' => 'ccan', 'CDE02G3718' => 'cde', 'CDE04G3183' => 'cde', 'CDE07G1046' => 'cde', 'CDE08G0480' => 'cde', 'Cfa005493' => 'cfa', 'Cfa010312' => 'cfa', 'Cfa015648' => 'cfa', 'Ciclev10002793m.g' => 'ccl', 'Ciclev10003356m.g' => 'ccl', 'Ciclev10006141m.g' => 'ccl', 'Ciclev10016676m.g' => 'ccl', 'Ciclev10017081m.g' => 'ccl', 'Ciclev10029499m.g' => 'ccl', 'CiPaw.01G166300' => 'cil', 'CiPaw.06G145600' => 'cil', 'CiPaw.13G040100' => 'cil', 'CiPaw.13G135800' => 'cil', 'ClCG01G012230' => 'cla', 'ClCG05G009510' => 'cla', 'ClCG08G008270' => 'cla', 'COL.COLO4_11763' => 'col', 'COL.COLO4_19876' => 'col', 'COL.COLO4_21481' => 'col', 'Cpa.g.sc118.34' => 'cpa', 'Cpa.g.sc32.13' => 'cpa', 'Cpa.g.sc58.103' => 'cpa', 'Cre03.g183850' => 'cre', 'Cre06.g306350' => 'cre', 'Cre07.g334800' => 'cre', 'Cre12.g487900' => 'cre', 'Cre14.g626700' => 'cre', 'Cre16.g658400' => 'cre', 'Cre17.g700950' => 'cre', 'CsaV3_1G014830' => 'csa', 'CsaV3_3G013320' => 'csa', 'CsaV3_3G019210' => 'csa', 'CsaV3_3G019220' => 'csa', 'CsaV3_6G004230' => 'csa', 'CSS0003773' => 'camsi', 'CSS0004563' => 'camsi', 'CSS0013949' => 'camsi', 'CSS0025971' => 'camsi', 'CSS0028570' => 'camsi', 'CSS0033127' => 'camsi', 'CSS0036051' => 'camsi', 'CSS0040087' => 'camsi', 'CSS0043179' => 'camsi', 'DCAR_006161' => 'dca', 'DCAR_010351' => 'dca', 'DCAR_012197' => 'dca', 'DCAR_024162' => 'dca', 'Dinv01030' => 'din', 'Dinv10924' => 'din', 'Dinv11835' => 'din', 'Dinv22841' => 'din', 'Dinv42553' => 'din', 'Duzib052G0560' => 'dzi', 'Duzib132G0389' => 'dzi', 'Duzib150G1181' => 'dzi', 'Duzib168G0623' => 'dzi', 'Duzib170G1036' => 'dzi', 'Duzib212G0200' => 'dzi', 'Duzib248G0194' => 'dzi', 'ECA232G2193' => 'eca', 'ECA233G0302' => 'eca', 'ECA234G2813' => 'eca', 'ECA234G4866' => 'eca', 'ECA240G3932' => 'eca', 'ECA248G0385' => 'eca', 'EL10Ac2g04781' => 'bvu', 'EL10Ac3g06445' => 'bvu', 'EL10Ac7g15825' => 'bvu', 'EL10Ac8g18550' => 'bvu', 'Eucgr.B03849' => 'egr', 'Eucgr.I02744' => 'egr', 'Eucgr.J00264' => 'egr', 'Eucgr.J00493' => 'egr', 'FAN04G2181' => 'fan', 'FAN07G2666' => 'fan', 'FAN11G0024' => 'fan', 'FAN12G1105' => 'fan', 'FAN13G0302' => 'fan', 'FAN15G2781' => 'fan', 'FAN16G1274' => 'fan', 'FAN17G2988' => 'fan', 'FAN18G2621' => 'fan', 'FAN21G0013' => 'fan', 'FAN22G1211' => 'fan', 'FAN25G3626' => 'fan', 'FvH4_2g09491' => 'fve', 'FvH4_3g24910' => 'fve', 'FvH4_4g15630' => 'fve', 'FvH4_5g28820' => 'fve', 'Glyma.01G238000' => 'gma', 'Glyma.05G168400' => 'gma', 'Glyma.08G126800' => 'gma', 'Glyma.08G188500' => 'gma', 'Glyma.10G278900' => 'gma', 'Glyma.11G005700' => 'gma', 'Glyma.11G183300' => 'gma', 'Glyma.12G089200' => 'gma', 'Glyma.12G169400' => 'gma', 'Glyma.12G169500' => 'gma', 'Glyma.12G169600' => 'gma', 'Glyma.20G110800' => 'gma', 'Gohir.A03G192900' => 'ghi', 'Gohir.A03G193000' => 'ghi', 'Gohir.A05G080700' => 'ghi', 'Gohir.A09G216000' => 'ghi', 'Gohir.A12G027700' => 'ghi', 'Gohir.A13G036200' => 'ghi', 'Gohir.A13G222600' => 'ghi', 'Gohir.D02G213900' => 'ghi', 'Gohir.D02G214000' => 'ghi', 'Gohir.D05G083700' => 'ghi', 'Gohir.D05G083800' => 'ghi', 'Gohir.D05G083850' => 'ghi', 'Gohir.D08G015400' => 'ghi', 'Gohir.D09G218400' => 'ghi', 'Gohir.D12G027100' => 'ghi', 'Gohir.D13G034500' => 'ghi', 'Gohir.D13G227400' => 'ghi', 'Gorai.005G241800' => 'gra', 'Gorai.005G241900' => 'gra', 'Gorai.006G239400' => 'gra', 'Gorai.008G027600' => 'gra', 'Gorai.009G085400' => 'gra', 'Gorai.009G085500' => 'gra', 'Gorai.013G039000' => 'gra', 'Gorai.013G194800' => 'gra', 'Gorai.013G257900' => 'gra', 'GSVIVG01000982001' => 'vvi', 'GSVIVG01017981001' => 'vvi', 'HanXRQChr01g0024061' => 'han', 'HanXRQChr09g0247831' => 'han', 'HanXRQChr10g0294611' => 'han', 'HanXRQChr10g0294621' => 'han', 'HanXRQChr11g0346821' => 'han', 'HanXRQChr13g0397461' => 'han', 'HanXRQChr16g0513651' => 'han', 'HanXRQChr16g0513701' => 'han', 'Haze_00897' => 'cav', 'Haze_01745' => 'cav', 'Haze_02486' => 'cav', 'Haze_02487' => 'cav', 'Haze_23374' => 'cav', 'Hma1.2p1_0578F.1_g182520' => 'hma', 'Hma1.2p1_0602F.1_g187350' => 'hma', 'Hma1.2p1_0602F.1_g187360' => 'hma', 'Hma1.2p1_0874F.1_g231320' => 'hma', 'Hma1.2p1_1197F.1_g266210' => 'hma', 'Hma1.2p1_1197F.1_g266220' => 'hma', 'Hma1.2p1_2167F.1_g315895' => 'hma', 'Hma1.2p1_2190F.1_g316640' => 'hma', 'Hma1.2p1_3645F.1_g337153' => 'hma', 'HPP92_004907' => 'vpl', 'HPP92_012134' => 'vpl', 'HPP92_025136' => 'vpl', 'HPP92_026087' => 'vpl', 'Hund06782' => 'sun', 'Hund06784' => 'sun', 'Lalb_Chr01g0004861' => 'lal', 'Lalb_Chr02g0140591' => 'lal', 'Lalb_Chr02g0140611' => 'lal', 'Lalb_Chr03g0028101' => 'lal', 'Lalb_Chr07g0185791' => 'lal', 'Lalb_Chr12g0204491' => 'lal', 'Lalb_Chr13g0295671' => 'lal', 'Lalb_Chr19g0136461' => 'lal', 'Lalb_Chr21g0309191' => 'lal', 'Lj1g0028158' => 'lja', 'Lj1P236T38' => 'lonja', 'Lj2C32G2' => 'lonja', 'Lj2P944T8' => 'lonja', 'Lj2P963T15' => 'lonja', 'Lj3g0011788' => 'lja', 'Lj4g0025027' => 'lja', 'Lj5P255T36' => 'lonja', 'Lj6g0018866' => 'lja', 'Lj6P608T31' => 'lonja', 'LjContig00408g0008879' => 'lja', 'Lsat_1_v5_gn_5_105820' => 'lsa', 'Lsat_1_v5_gn_6_38800' => 'lsa', 'Lsat_1_v5_gn_7_67141' => 'lsa', 'Manes.04G003400' => 'mes', 'Manes.07G020000' => 'mes', 'Manes.07G020100' => 'mes', 'Manes.07G020150' => 'mes', 'Manes.10G061500' => 'mes', 'Manes.10G123200' => 'mes', 'Manes.11G161900' => 'mes', 'Manes.15G029300' => 'mes', 'Mapoly0071s0018' => 'mpo', 'Mapoly0082s0023' => 'mpo', 'Mapoly3477s0001' => 'mpo', 'MBI05_g31233_MAGBIO' => 'mbi', 'MBI09_g05946_MAGBIO' => 'mbi', 'MBI09_g05947_MAGBIO' => 'mbi', 'MBI17_g08346_MAGBIO' => 'mbi', 'MCO04G038' => 'mco', 'MCO09G370' => 'mco', 'MCO13G605' => 'mco', 'MD00G1075500' => 'mdo', 'MD03G1144300' => 'mdo', 'MD08G1236800' => 'mdo', 'MD13G1193300' => 'mdo', 'MD15G1428700' => 'mdo', 'Medtr1g112030' => 'mtr', 'Medtr1g112050' => 'mtr', 'Medtr2g006290' => 'mtr', 'Medtr2g086510' => 'mtr', 'Medtr4g053120' => 'mtr', 'Medtr5g006320' => 'mtr', 'Medtr8g088720' => 'mtr', 'MELO3C004712.2' => 'cme', 'MELO3C006533.2' => 'cme', 'MELO3C019438.2' => 'cme', 'MELO3C019440.2' => 'cme', 'MELO3C019441.2' => 'cme', 'MELO3C019895.2' => 'cme', 'Migut.B00811' => 'egut', 'Migut.D02447' => 'egut', 'Migut.F00875' => 'egut', 'Migut.N00186' => 'egut', 'Migut.N01051' => 'egut', 'Migut.N02491' => 'egut', 'Migut.O00784' => 'egut', 'MSTRG.12367' => 'ama', 'MSTRG.18756' => 'ama', 'MSTRG.21042' => 'ama', 'Nitab4.5_0000559g0040' => 'nta', 'Nitab4.5_0000667g0190' => 'nta', 'Nitab4.5_0000755g0160' => 'nta', 'Nitab4.5_0001216g0080' => 'nta', 'Nitab4.5_0004069g0040' => 'nta', 'Nitab4.5_0004129g0010' => 'nta', 'Nitab4.5_0005744g0030' => 'nta', 'Nitab4.5_0006996g0030' => 'nta', 'Nitab4.5_0008971g0040' => 'nta', 'Nitab4.5_0009769g0020' => 'nta', 'Nitab4.5_0009833g0010' => 'nta', 'Nitab4.5_0013140g0020' => 'nta', 'Nn003s41376' => 'nnu', 'Nn1g01857' => 'nnu', 'Nn1g03611' => 'nnu', 'Nn1g06853' => 'nnu', 'Nn3g18360' => 'nnu', 'Nn4g26328' => 'nnu', 'Nn5g27531' => 'nnu', 'Nn6g34899' => 'nnu', 'Nn7g36299' => 'nnu', 'Oeu021485.1' => 'oeu', 'Oeu022433.1' => 'oeu', 'Oeu032111.1' => 'oeu', 'Oeu051608.1' => 'oeu', 'Os01g0860601' => 'osa', 'Os03g0659200' => 'osa', 'Os03g0835900' => 'osa', 'Os04g0412200' => 'osa', 'Os05g0443500' => 'osa', 'Os07g0251500' => 'osa', 'Os08g0104600' => 'osa', 'Peaxi162Scf00003g00047' => 'pax', 'Peaxi162Scf00003g00052' => 'pax', 'Peaxi162Scf00003g00394' => 'pax', 'Peaxi162Scf00091g00621' => 'pax', 'Peaxi162Scf00152g00146' => 'pax', 'Peaxi162Scf00173g00025' => 'pax', 'Peaxi162Scf00195g00102' => 'pax', 'Peaxi162Scf00402g00013' => 'pax', 'Peaxi162Scf00519g00618' => 'pax', 'PGR004G2838' => 'pgr', 'PGR044G2275' => 'pgr', 'PGR102G1377' => 'pgr', 'PGR119G1245' => 'pgr', 'PGR142G4449' => 'pgr', 'PGSC0003DMG400004532' => 'stu', 'PGSC0003DMG400011950' => 'stu', 'PGSC0003DMG400023391' => 'stu', 'PGSC0003DMG400023985' => 'stu', 'PGSC0003DMG400026360' => 'stu', 'PGSC0003DMG400035711' => 'stu', 'PGSC0003DMG400037286' => 'stu', 'PGSC0003DMG402005881' => 'stu', 'Phvul.002G045400' => 'pvu', 'Phvul.006G216600' => 'pvu', 'Phvul.006G216700' => 'pvu', 'Phvul.006G216800' => 'pvu', 'Phvul.007G022500' => 'pvu', 'Phvul.011G094400' => 'pvu', 'Potri.001G470700' => 'ptr', 'Potri.003G015200' => 'ptr', 'Potri.004G202500' => 'ptr', 'Potri.004G218400' => 'ptr', 'Potri.008G020100' => 'ptr', 'Potri.008G153200' => 'ptr', 'Potri.009G163800' => 'ptr', 'Potri.010G087300' => 'ptr', 'Potri.010G239100' => 'ptr', 'Pp3c10_16100' => 'ppa', 'Pp3c10_16880' => 'ppa', 'Pp3c16_6230' => 'ppa', 'Pp3c17_18910' => 'ppa', 'Pp3c3_22119' => 'ppa', 'Pp3c3_22140' => 'ppa', 'Pp3c4_8159' => 'ppa', 'Pp3c4_8171' => 'ppa', 'Pp3c4_8330' => 'ppa', 'PRCOL_00004098' => 'pco', 'Prupe.1G013900' => 'ppe', 'Prupe.1G226300' => 'ppe', 'Prupe.1G573600' => 'ppe', 'Prupe.6G130100' => 'ppe', 'Psat3g090040' => 'psa', 'Psat4g210440' => 'psa', 'Psat6g231040' => 'psa', 'Psat6g231080' => 'psa', 'Psat7g063000' => 'psa', 'Psat7g188000' => 'psa', 'Psat7g188040' => 'psa', 'PSO017G0206' => 'pso', 'PSO170G0501' => 'pso', 'PSO170G6422' => 'pso', 'PSO210G7739' => 'pso', 'PSO339G1808' => 'pso', 'PSO339G6135' => 'pso', 'PSO384G0010' => 'pso', 'PSO384G0964' => 'pso', 'PSO761G0050' => 'pso', 'PSO782G4085' => 'pso', 'QL01p012264' => 'qlo', 'QL02p099491' => 'qlo', 'QL03p033868' => 'qlo', 'QL04p046678' => 'qlo', 'QL06p002448' => 'qlo', 'RcHm_v2.0_Chr4g0416181' => 'rch', 'RcHm_v2.0_Chr5g0044701' => 'rch', 'RcHm_v2.0_Chr6g0265781' => 'rch', 'RcHm_v2.0_Chr7g0221031' => 'rch', 'Rhsim04G0202000' => 'rsi', 'Rhsim11G0127300' => 'rsi', 'Rhsim13G0111800' => 'rsi', 'Sabra01G0165600' => 'sbr', 'Sabra03G0008300' => 'sbr', 'Sabra04G0136900' => 'sbr', 'Sabra08G0013400' => 'sbr', 'Sabra08G0116800' => 'sbr', 'Sabra09G0128000' => 'sbr', 'Sabra10G0055500' => 'sbr', 'Sabra10G0073300' => 'sbr', 'SalBow3G0385' => 'sbo', 'SalBow3G1119' => 'sbo', 'SalBow3G2005' => 'sbo', 'SalBow6G2563' => 'sbo', 'SalBow6G6386' => 'sbo', 'Sc06g0008800' => 'sci', 'Sc07g0004950' => 'sci', 'Sc09g0005340' => 'sci', 'Sc13g0004410' => 'sci', 'Sc21g0007090' => 'sci', 'Sed0009285' => 'sed', 'Sed0017583' => 'sed', 'Sed0019699' => 'sed', 'Sed0023107' => 'sed', 'SEGI_10916' => 'sgi', 'SEGI_16217' => 'sgi', 'SEGI_19466' => 'sgi', 'SEGI_41115' => 'sgi', 'SGA_v2.0_scaffold111G31534' => 'sas', 'SGA_v2.0_scaffold22G09864' => 'sas', 'SGA_v2.0_scaffold338G49219' => 'sas', 'SGA_v2.0_scaffold92G28298' => 'sas', 'SMO119G0064' => 'smo', 'SMO223G0038' => 'smo', 'SMO347G0584' => 'smo', 'SMO351G0010' => 'smo', 'SMO356G0404' => 'smo', 'Solyc01g103920.3' => 'sly', 'Solyc04g009710.2' => 'sly', 'Solyc05g055280.2' => 'sly', 'Solyc10g044520.3' => 'sly', 'Solyc10g075160.1' => 'sly', 'Solyc11g006910.3' => 'sly', 'Solyc11g068430.3' => 'sly', 'Sopen01g046310' => 'spe', 'Sopen03g001200' => 'spe', 'Sopen04g004830' => 'spe', 'Sopen05g033720' => 'spe', 'Sopen06g030740' => 'spe', 'Sopen10g013090' => 'spe', 'Sopen10g027630' => 'spe', 'Sopen10g027640' => 'spe', 'Sopen11g002820' => 'spe', 'Sopen11g027140' => 'spe', 'Sp1g09680' => 'spa', 'Sp2g03630' => 'spa', 'Sp4g10320' => 'spa', 'Sp6g33400' => 'spa', 'Sp7g13030' => 'spa', 'TAR365G0317' => 'tar', 'TAR376G0979' => 'tar', 'TAR623G1665' => 'tar', 'TAR633G2373' => 'tar', 'TAR636G1400' => 'tar', 'THA.LOC104800529' => 'tha', 'THA.LOC104808547' => 'tha', 'THA.LOC104809615' => 'tha', 'THA.LOC104815724' => 'tha', 'THA.LOC104818480' => 'tha', 'THA.LOC104819179' => 'tha', 'THA.LOC104822270' => 'tha', 'THA.LOC104826425' => 'tha', 'Thecc.02G089700' => 'tca', 'Thecc.04G232300' => 'tca', 'Thecc.09G283400' => 'tca', 'Thhalv10009020m.g' => 'esa', 'Thhalv10015506m.g' => 'esa', 'Thhalv10017364m.g' => 'esa', 'Thhalv10023742m.g' => 'esa', 'Thhalv10026483m.g' => 'esa', 'TPR.G17232' => 'tpr', 'TPR.G2133' => 'tpr', 'TPR.G2498' => 'tpr', 'TPR.G31942' => 'tpr', 'TPR.G37877' => 'tpr', 'TPR.G4571' => 'tpr', 'TWI14G1113' => 'twi', 'TWI15G0426' => 'twi', 'TWI31G1005' => 'twi', 'TWI38G0513' => 'twi', 'TWI38G1484' => 'twi', 'TWI73G1098' => 'twi', 'unitig_26.g10519' => 'ugi', 'unitig_736.g22395' => 'ugi', 'unitig_747.g21234' => 'ugi', 'unitig_747.g21942' => 'ugi', 'vmacro14351' => 'vma', 'VMungo0540G0082' => 'vmu', 'VMungo0540G0405' => 'vmu', 'VMungo0540G1486' => 'vmu', 'VMungo0540G1692' => 'vmu', 'VMungo0720G2473' => 'vmu', 'VMungo1127G1562' => 'vmu', 'VMungo1215G1918' => 'vmu', 'Zm00001eb052650' => 'zma', 'Zm00001eb063710' => 'zma', 'Zm00001eb083950' => 'zma', 'Zm00001eb174420' => 'zma', 'Zm00001eb260140' => 'zma', 'Zm00001eb260150' => 'zma', 'Zm00001eb260160' => 'zma', 'Zm00001eb348290' => 'zma', 'Zm00001eb366870' => 'zma', 'Zm00001eb421930' => 'zma' ) $gf_id = 'HOM05D001025' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001025' ) $data_identifier = 'HOM05D001025' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 19, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 2, 'amhyb' => (int) 4, 'aly' => (int) 4, 'aox' => (int) 4, 'arhy' => (int) 3, 'ath' => (int) 5, 'atr' => (int) 4, 'acertr' => (int) 3, 'cqu' => (int) 7, 'bca' => (int) 17, 'bol' => (int) 10, 'bra' => (int) 9, 'can' => (int) 10, 'cansat' => (int) 6, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 5, 'cbr' => (int) 5, 'ccan' => (int) 5, 'cde' => (int) 4, 'cfa' => (int) 3, 'ccl' => (int) 6, 'cil' => (int) 4, 'cla' => (int) 3, 'col' => (int) 3, 'cpa' => (int) 3, 'cre' => (int) 7, 'csa' => (int) 5, 'camsi' => (int) 9, 'dca' => (int) 4, 'din' => (int) 5, 'dzi' => (int) 7, 'eca' => (int) 6, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 12, 'fve' => (int) 4, 'gma' => (int) 12, 'ghi' => (int) 17, 'gra' => (int) 9, 'vvi' => (int) 2, 'han' => (int) 8, 'cav' => (int) 5, 'hma' => (int) 9, 'vpl' => (int) 4, 'sun' => (int) 2, 'lal' => (int) 9, 'lja' => (int) 5, 'lonja' => (int) 6, 'lsa' => (int) 3, 'mes' => (int) 8, 'mpo' => (int) 3, 'mbi' => (int) 4, 'mco' => (int) 3, 'mdo' => (int) 5, 'mtr' => (int) 7, 'cme' => (int) 6, 'egut' => (int) 7, 'ama' => (int) 3, 'nta' => (int) 12, 'nnu' => (int) 9, 'oeu' => (int) 4, 'osa' => (int) 7, 'pax' => (int) 9, 'pgr' => (int) 5, 'stu' => (int) 8, 'pvu' => (int) 6, 'ptr' => (int) 9, 'ppa' => (int) 9, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 7, 'pso' => (int) 10, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 3, 'sbr' => (int) 8, 'sbo' => (int) 5, 'sci' => (int) 5, 'sed' => (int) 4, 'sgi' => (int) 4, 'sas' => (int) 4, 'smo' => (int) 5, 'sly' => (int) 7, 'spe' => (int) 10, 'spa' => (int) 5, 'tar' => (int) 5, 'tha' => (int) 8, 'tca' => (int) 3, 'esa' => (int) 5, 'tpr' => (int) 6, 'twi' => (int) 6, 'ugi' => (int) 4, 'vma' => (int) 1, 'vmu' => (int) 7, 'zma' => (int) 10 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb421930' $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' => 'HOM05D001025', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '592', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p22650' => 'bna', 'A01p29720' => 'bna', 'A03p26560' => 'bna', 'A03p68820' => 'bna', 'A04p20980' => 'bna', 'A06p07730' => 'bna', 'A07p18260' => 'bna', 'A08p33710' => 'bna', 'A09p16970' => 'bna', 'A10p27490' => 'bna', 'Aa31LG1G17300' => 'aar', 'Aa31LG1G3910' => 'aar', 'Aa31LG2G9630' => 'aar', 'Aa31LG5G8360' => 'aar', 'Aa31LG9G2410' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4699' => 'aag', 'Actinidia23512' => 'ach', 'Actinidia37080' => 'ach', 'Ah.01g020380' => 'amhyb', 'Ah.08g215710' => 'amhyb', 'Ah.09g225110' => 'amhyb', 'Ah.10g036680' => 'amhyb', 'AL1G21940' => 'aly', 'AL2G15540' => 'aly', 'AL4G21520' => 'aly', 'AL7G40960' => 'aly', 'Aqoxy2G01191' => 'aox', 'Aqoxy2G03393' => 'aox', 'Aqoxy4G02775' => 'aox', 'Aqoxy6G00058' => 'aox', 'arahy.Tifrunner.gnm1.ann1.9X74H2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CW3FX9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R485W7' => 'arhy', 'AT1G10960' => 'ath', 'AT1G60950' => 'ath', 'AT2G27510' => 'ath', 'AT4G14890' => 'ath', 'AT5G10000' => 'ath', 'ATR0665G624' => 'atr', 'ATR0697G138' => 'atr', 'ATR0776G046' => 'atr', 'ATR1134G135' => 'atr', 'Atru.chr12.1025' => 'acertr', 'Atru.chr3.3241' => 'acertr', 'Atru.chr4.2460' => 'acertr', 'AUR62007427' => 'cqu', 'AUR62010960' => 'cqu', 'AUR62012201' => 'cqu', 'AUR62021470' => 'cqu', 'AUR62022834' => 'cqu', 'AUR62033635' => 'cqu', 'AUR62036186' => 'cqu', 'BcaB01g03077' => 'bca', 'BcaB02g10093' => 'bca', 'BcaB04g20295' => 'bca', 'BcaB06g28147' => 'bca', 'BcaB07g31253' => 'bca', 'BcaC01g04946' => 'bca', 'BcaC02g10614' => 'bca', 'BcaC02g10885' => 'bca', 'BcaC04g19356' => 'bca', 'BcaC04g22297' => 'bca', 'BcaC05g24977' => 'bca', 'BcaC06g31823' => 'bca', 'BcaC07g38633' => 'bca', 'BcaC09g49353' => 'bca', 'BcaC09g50168' => 'bca', 'BcaNung00322' => 'bca', 'BcaNung04769' => 'bca', 'BolC1t02753H' => 'bol', 'BolC1t03721H' => 'bol', 'BolC3t15525H' => 'bol', 'BolC4t23903H' => 'bol', 'BolC4t24231H' => 'bol', 'BolC4t27209H' => 'bol', 'BolC5t29671H' => 'bol', 'BolC8t49044H' => 'bol', 'BolC9t54999H' => 'bol', 'BolC9t59517H' => 'bol', 'BraA01t02178Z' => 'bra', 'BraA01t03099Z' => 'bra', 'BraA03t11867Z' => 'bra', 'BraA04t17667Z' => 'bra', 'BraA07t29542Z' => 'bra', 'BraA08t35287Z' => 'bra', 'BraA09t37334Z' => 'bra', 'BraA10t44801Z' => 'bra', 'BraSC39t46181Z' => 'bra', 'C01p28240' => 'bna', 'C01p37530' => 'bna', 'C03p31820' => 'bna', 'C04p24080' => 'bna', 'C04p25790' => 'bna', 'C04p56770' => 'bna', 'C05p09310' => 'bna', 'C09p21010' => 'bna', 'C09p67560' => 'bna', 'CAN.G1324.7' => 'can', 'CAN.G1358.10' => 'can', 'CAN.G1550.2' => 'can', 'CAN.G186.56' => 'can', 'CAN.G1965.1' => 'can', 'CAN.G645.15' => 'can', 'CAN.G798.26' => 'can', 'CAN.G798.27' => 'can', 'CAN.G798.29' => 'can', 'CAN.G919.31' => 'can', 'CANSAT11G0133' => 'cansat', 'CANSAT11G1171' => 'cansat', 'CANSAT11G2056' => 'cansat', 'CANSAT56G1202' => 'cansat', 'CANSAT56G1514' => 'cansat', 'CANSAT78G0455' => 'cansat', 'CARHR011190' => 'chi', 'CARHR051980' => 'chi', 'CARHR120170' => 'chi', 'CARHR203310' => 'chi', 'CARHR221490' => 'chi', 'Carub.0001s1054' => 'cru', 'Carub.0002s0431' => 'cru', 'Carub.0004s0818' => 'cru', 'Carub.0006s0846' => 'cru', 'Carub.0007s2722' => 'cru', 'Ca_00058_v3' => 'car', 'Ca_17831_v3' => 'car', 'Ca_19408_v3' => 'car', 'Ca_24397_v3' => 'car', 'Ca_25664_v3' => 'car', 'CBR_g21818' => 'cbr', 'CBR_g31195' => 'cbr', 'CBR_g32282' => 'cbr', 'CBR_g39599' => 'cbr', 'CBR_g49410' => 'cbr', 'Cc01_g09120' => 'ccan', 'Cc01_g09130' => 'ccan', 'Cc02_g09630' => 'ccan', 'Cc02_g22810' => 'ccan', 'Cc03_g03810' => 'ccan', 'CDE02G3718' => 'cde', 'CDE04G3183' => 'cde', 'CDE07G1046' => 'cde', 'CDE08G0480' => 'cde', 'Cfa005493' => 'cfa', 'Cfa010312' => 'cfa', 'Cfa015648' => 'cfa', 'Ciclev10002793m.g' => 'ccl', 'Ciclev10003356m.g' => 'ccl', 'Ciclev10006141m.g' => 'ccl', 'Ciclev10016676m.g' => 'ccl', 'Ciclev10017081m.g' => 'ccl', 'Ciclev10029499m.g' => 'ccl', 'CiPaw.01G166300' => 'cil', 'CiPaw.06G145600' => 'cil', 'CiPaw.13G040100' => 'cil', 'CiPaw.13G135800' => 'cil', 'ClCG01G012230' => 'cla', 'ClCG05G009510' => 'cla', 'ClCG08G008270' => 'cla', 'COL.COLO4_11763' => 'col', 'COL.COLO4_19876' => 'col', 'COL.COLO4_21481' => 'col', 'Cpa.g.sc118.34' => 'cpa', 'Cpa.g.sc32.13' => 'cpa', 'Cpa.g.sc58.103' => 'cpa', 'Cre03.g183850' => 'cre', 'Cre06.g306350' => 'cre', 'Cre07.g334800' => 'cre', 'Cre12.g487900' => 'cre', 'Cre14.g626700' => 'cre', 'Cre16.g658400' => 'cre', 'Cre17.g700950' => 'cre', 'CsaV3_1G014830' => 'csa', 'CsaV3_3G013320' => 'csa', 'CsaV3_3G019210' => 'csa', 'CsaV3_3G019220' => 'csa', 'CsaV3_6G004230' => 'csa', 'CSS0003773' => 'camsi', 'CSS0004563' => 'camsi', 'CSS0013949' => 'camsi', 'CSS0025971' => 'camsi', 'CSS0028570' => 'camsi', 'CSS0033127' => 'camsi', 'CSS0036051' => 'camsi', 'CSS0040087' => 'camsi', 'CSS0043179' => 'camsi', 'DCAR_006161' => 'dca', 'DCAR_010351' => 'dca', 'DCAR_012197' => 'dca', 'DCAR_024162' => 'dca', 'Dinv01030' => 'din', 'Dinv10924' => 'din', 'Dinv11835' => 'din', 'Dinv22841' => 'din', 'Dinv42553' => 'din', 'Duzib052G0560' => 'dzi', 'Duzib132G0389' => 'dzi', 'Duzib150G1181' => 'dzi', 'Duzib168G0623' => 'dzi', 'Duzib170G1036' => 'dzi', 'Duzib212G0200' => 'dzi', 'Duzib248G0194' => 'dzi', 'ECA232G2193' => 'eca', 'ECA233G0302' => 'eca', 'ECA234G2813' => 'eca', 'ECA234G4866' => 'eca', 'ECA240G3932' => 'eca', 'ECA248G0385' => 'eca', 'EL10Ac2g04781' => 'bvu', 'EL10Ac3g06445' => 'bvu', 'EL10Ac7g15825' => 'bvu', 'EL10Ac8g18550' => 'bvu', 'Eucgr.B03849' => 'egr', 'Eucgr.I02744' => 'egr', 'Eucgr.J00264' => 'egr', 'Eucgr.J00493' => 'egr', 'FAN04G2181' => 'fan', 'FAN07G2666' => 'fan', 'FAN11G0024' => 'fan', 'FAN12G1105' => 'fan', 'FAN13G0302' => 'fan', 'FAN15G2781' => 'fan', 'FAN16G1274' => 'fan', 'FAN17G2988' => 'fan', 'FAN18G2621' => 'fan', 'FAN21G0013' => 'fan', 'FAN22G1211' => 'fan', 'FAN25G3626' => 'fan', 'FvH4_2g09491' => 'fve', 'FvH4_3g24910' => 'fve', 'FvH4_4g15630' => 'fve', 'FvH4_5g28820' => 'fve', 'Glyma.01G238000' => 'gma', 'Glyma.05G168400' => 'gma', 'Glyma.08G126800' => 'gma', 'Glyma.08G188500' => 'gma', 'Glyma.10G278900' => 'gma', 'Glyma.11G005700' => 'gma', 'Glyma.11G183300' => 'gma', 'Glyma.12G089200' => 'gma', 'Glyma.12G169400' => 'gma', 'Glyma.12G169500' => 'gma', 'Glyma.12G169600' => 'gma', 'Glyma.20G110800' => 'gma', 'Gohir.A03G192900' => 'ghi', 'Gohir.A03G193000' => 'ghi', 'Gohir.A05G080700' => 'ghi', 'Gohir.A09G216000' => 'ghi', 'Gohir.A12G027700' => 'ghi', 'Gohir.A13G036200' => 'ghi', 'Gohir.A13G222600' => 'ghi', 'Gohir.D02G213900' => 'ghi', 'Gohir.D02G214000' => 'ghi', 'Gohir.D05G083700' => 'ghi', 'Gohir.D05G083800' => 'ghi', 'Gohir.D05G083850' => 'ghi', 'Gohir.D08G015400' => 'ghi', 'Gohir.D09G218400' => 'ghi', 'Gohir.D12G027100' => 'ghi', 'Gohir.D13G034500' => 'ghi', 'Gohir.D13G227400' => 'ghi', 'Gorai.005G241800' => 'gra', 'Gorai.005G241900' => 'gra', 'Gorai.006G239400' => 'gra', 'Gorai.008G027600' => 'gra', 'Gorai.009G085400' => 'gra', 'Gorai.009G085500' => 'gra', 'Gorai.013G039000' => 'gra', 'Gorai.013G194800' => 'gra', 'Gorai.013G257900' => 'gra', 'GSVIVG01000982001' => 'vvi', 'GSVIVG01017981001' => 'vvi', 'HanXRQChr01g0024061' => 'han', 'HanXRQChr09g0247831' => 'han', 'HanXRQChr10g0294611' => 'han', 'HanXRQChr10g0294621' => 'han', 'HanXRQChr11g0346821' => 'han', 'HanXRQChr13g0397461' => 'han', 'HanXRQChr16g0513651' => 'han', 'HanXRQChr16g0513701' => 'han', 'Haze_00897' => 'cav', 'Haze_01745' => 'cav', 'Haze_02486' => 'cav', 'Haze_02487' => 'cav', 'Haze_23374' => 'cav', 'Hma1.2p1_0578F.1_g182520' => 'hma', 'Hma1.2p1_0602F.1_g187350' => 'hma', 'Hma1.2p1_0602F.1_g187360' => 'hma', 'Hma1.2p1_0874F.1_g231320' => 'hma', 'Hma1.2p1_1197F.1_g266210' => 'hma', 'Hma1.2p1_1197F.1_g266220' => 'hma', 'Hma1.2p1_2167F.1_g315895' => 'hma', 'Hma1.2p1_2190F.1_g316640' => 'hma', 'Hma1.2p1_3645F.1_g337153' => 'hma', 'HPP92_004907' => 'vpl', 'HPP92_012134' => 'vpl', 'HPP92_025136' => 'vpl', 'HPP92_026087' => 'vpl', 'Hund06782' => 'sun', 'Hund06784' => 'sun', 'Lalb_Chr01g0004861' => 'lal', 'Lalb_Chr02g0140591' => 'lal', 'Lalb_Chr02g0140611' => 'lal', 'Lalb_Chr03g0028101' => 'lal', 'Lalb_Chr07g0185791' => 'lal', 'Lalb_Chr12g0204491' => 'lal', 'Lalb_Chr13g0295671' => 'lal', 'Lalb_Chr19g0136461' => 'lal', 'Lalb_Chr21g0309191' => 'lal', 'Lj1g0028158' => 'lja', 'Lj1P236T38' => 'lonja', 'Lj2C32G2' => 'lonja', 'Lj2P944T8' => 'lonja', 'Lj2P963T15' => 'lonja', 'Lj3g0011788' => 'lja', 'Lj4g0025027' => 'lja', 'Lj5P255T36' => 'lonja', 'Lj6g0018866' => 'lja', 'Lj6P608T31' => 'lonja', 'LjContig00408g0008879' => 'lja', 'Lsat_1_v5_gn_5_105820' => 'lsa', 'Lsat_1_v5_gn_6_38800' => 'lsa', 'Lsat_1_v5_gn_7_67141' => 'lsa', 'Manes.04G003400' => 'mes', 'Manes.07G020000' => 'mes', 'Manes.07G020100' => 'mes', 'Manes.07G020150' => 'mes', 'Manes.10G061500' => 'mes', 'Manes.10G123200' => 'mes', 'Manes.11G161900' => 'mes', 'Manes.15G029300' => 'mes', 'Mapoly0071s0018' => 'mpo', 'Mapoly0082s0023' => 'mpo', 'Mapoly3477s0001' => 'mpo', 'MBI05_g31233_MAGBIO' => 'mbi', 'MBI09_g05946_MAGBIO' => 'mbi', 'MBI09_g05947_MAGBIO' => 'mbi', 'MBI17_g08346_MAGBIO' => 'mbi', 'MCO04G038' => 'mco', 'MCO09G370' => 'mco', 'MCO13G605' => 'mco', 'MD00G1075500' => 'mdo', 'MD03G1144300' => 'mdo', 'MD08G1236800' => 'mdo', 'MD13G1193300' => 'mdo', 'MD15G1428700' => 'mdo', 'Medtr1g112030' => 'mtr', 'Medtr1g112050' => 'mtr', 'Medtr2g006290' => 'mtr', 'Medtr2g086510' => 'mtr', 'Medtr4g053120' => 'mtr', 'Medtr5g006320' => 'mtr', 'Medtr8g088720' => 'mtr', 'MELO3C004712.2' => 'cme', 'MELO3C006533.2' => 'cme', 'MELO3C019438.2' => 'cme', 'MELO3C019440.2' => 'cme', 'MELO3C019441.2' => 'cme', 'MELO3C019895.2' => 'cme', 'Migut.B00811' => 'egut', 'Migut.D02447' => 'egut', 'Migut.F00875' => 'egut', 'Migut.N00186' => 'egut', 'Migut.N01051' => 'egut', 'Migut.N02491' => 'egut', 'Migut.O00784' => 'egut', 'MSTRG.12367' => 'ama', 'MSTRG.18756' => 'ama', 'MSTRG.21042' => 'ama', 'Nitab4.5_0000559g0040' => 'nta', 'Nitab4.5_0000667g0190' => 'nta', 'Nitab4.5_0000755g0160' => 'nta', 'Nitab4.5_0001216g0080' => 'nta', 'Nitab4.5_0004069g0040' => 'nta', 'Nitab4.5_0004129g0010' => 'nta', 'Nitab4.5_0005744g0030' => 'nta', 'Nitab4.5_0006996g0030' => 'nta', 'Nitab4.5_0008971g0040' => 'nta', 'Nitab4.5_0009769g0020' => 'nta', 'Nitab4.5_0009833g0010' => 'nta', 'Nitab4.5_0013140g0020' => 'nta', 'Nn003s41376' => 'nnu', 'Nn1g01857' => 'nnu', 'Nn1g03611' => 'nnu', 'Nn1g06853' => 'nnu', 'Nn3g18360' => 'nnu', 'Nn4g26328' => 'nnu', 'Nn5g27531' => 'nnu', 'Nn6g34899' => 'nnu', 'Nn7g36299' => 'nnu', 'Oeu021485.1' => 'oeu', 'Oeu022433.1' => 'oeu', 'Oeu032111.1' => 'oeu', 'Oeu051608.1' => 'oeu', 'Os01g0860601' => 'osa', 'Os03g0659200' => 'osa', 'Os03g0835900' => 'osa', 'Os04g0412200' => 'osa', 'Os05g0443500' => 'osa', 'Os07g0251500' => 'osa', 'Os08g0104600' => 'osa', 'Peaxi162Scf00003g00047' => 'pax', 'Peaxi162Scf00003g00052' => 'pax', 'Peaxi162Scf00003g00394' => 'pax', 'Peaxi162Scf00091g00621' => 'pax', 'Peaxi162Scf00152g00146' => 'pax', 'Peaxi162Scf00173g00025' => 'pax', 'Peaxi162Scf00195g00102' => 'pax', 'Peaxi162Scf00402g00013' => 'pax', 'Peaxi162Scf00519g00618' => 'pax', 'PGR004G2838' => 'pgr', 'PGR044G2275' => 'pgr', 'PGR102G1377' => 'pgr', 'PGR119G1245' => 'pgr', 'PGR142G4449' => 'pgr', 'PGSC0003DMG400004532' => 'stu', 'PGSC0003DMG400011950' => 'stu', 'PGSC0003DMG400023391' => 'stu', 'PGSC0003DMG400023985' => 'stu', 'PGSC0003DMG400026360' => 'stu', 'PGSC0003DMG400035711' => 'stu', 'PGSC0003DMG400037286' => 'stu', 'PGSC0003DMG402005881' => 'stu', 'Phvul.002G045400' => 'pvu', 'Phvul.006G216600' => 'pvu', 'Phvul.006G216700' => 'pvu', 'Phvul.006G216800' => 'pvu', 'Phvul.007G022500' => 'pvu', 'Phvul.011G094400' => 'pvu', 'Potri.001G470700' => 'ptr', 'Potri.003G015200' => 'ptr', 'Potri.004G202500' => 'ptr', 'Potri.004G218400' => 'ptr', 'Potri.008G020100' => 'ptr', 'Potri.008G153200' => 'ptr', 'Potri.009G163800' => 'ptr', 'Potri.010G087300' => 'ptr', 'Potri.010G239100' => 'ptr', 'Pp3c10_16100' => 'ppa', 'Pp3c10_16880' => 'ppa', 'Pp3c16_6230' => 'ppa', 'Pp3c17_18910' => 'ppa', 'Pp3c3_22119' => 'ppa', 'Pp3c3_22140' => 'ppa', 'Pp3c4_8159' => 'ppa', 'Pp3c4_8171' => 'ppa', 'Pp3c4_8330' => 'ppa', 'PRCOL_00004098' => 'pco', 'Prupe.1G013900' => 'ppe', 'Prupe.1G226300' => 'ppe', 'Prupe.1G573600' => 'ppe', 'Prupe.6G130100' => 'ppe', 'Psat3g090040' => 'psa', 'Psat4g210440' => 'psa', 'Psat6g231040' => 'psa', 'Psat6g231080' => 'psa', 'Psat7g063000' => 'psa', 'Psat7g188000' => 'psa', 'Psat7g188040' => 'psa', 'PSO017G0206' => 'pso', 'PSO170G0501' => 'pso', 'PSO170G6422' => 'pso', 'PSO210G7739' => 'pso', 'PSO339G1808' => 'pso', 'PSO339G6135' => 'pso', 'PSO384G0010' => 'pso', 'PSO384G0964' => 'pso', 'PSO761G0050' => 'pso', 'PSO782G4085' => 'pso', 'QL01p012264' => 'qlo', 'QL02p099491' => 'qlo', 'QL03p033868' => 'qlo', 'QL04p046678' => 'qlo', 'QL06p002448' => 'qlo', 'RcHm_v2.0_Chr4g0416181' => 'rch', 'RcHm_v2.0_Chr5g0044701' => 'rch', 'RcHm_v2.0_Chr6g0265781' => 'rch', 'RcHm_v2.0_Chr7g0221031' => 'rch', 'Rhsim04G0202000' => 'rsi', 'Rhsim11G0127300' => 'rsi', 'Rhsim13G0111800' => 'rsi', 'Sabra01G0165600' => 'sbr', 'Sabra03G0008300' => 'sbr', 'Sabra04G0136900' => 'sbr', 'Sabra08G0013400' => 'sbr', 'Sabra08G0116800' => 'sbr', 'Sabra09G0128000' => 'sbr', 'Sabra10G0055500' => 'sbr', 'Sabra10G0073300' => 'sbr', 'SalBow3G0385' => 'sbo', 'SalBow3G1119' => 'sbo', 'SalBow3G2005' => 'sbo', 'SalBow6G2563' => 'sbo', 'SalBow6G6386' => 'sbo', 'Sc06g0008800' => 'sci', 'Sc07g0004950' => 'sci', 'Sc09g0005340' => 'sci', 'Sc13g0004410' => 'sci', 'Sc21g0007090' => 'sci', 'Sed0009285' => 'sed', 'Sed0017583' => 'sed', 'Sed0019699' => 'sed', 'Sed0023107' => 'sed', 'SEGI_10916' => 'sgi', 'SEGI_16217' => 'sgi', 'SEGI_19466' => 'sgi', 'SEGI_41115' => 'sgi', 'SGA_v2.0_scaffold111G31534' => 'sas', 'SGA_v2.0_scaffold22G09864' => 'sas', 'SGA_v2.0_scaffold338G49219' => 'sas', 'SGA_v2.0_scaffold92G28298' => 'sas', 'SMO119G0064' => 'smo', 'SMO223G0038' => 'smo', 'SMO347G0584' => 'smo', 'SMO351G0010' => 'smo', 'SMO356G0404' => 'smo', 'Solyc01g103920.3' => 'sly', 'Solyc04g009710.2' => 'sly', 'Solyc05g055280.2' => 'sly', 'Solyc10g044520.3' => 'sly', 'Solyc10g075160.1' => 'sly', 'Solyc11g006910.3' => 'sly', 'Solyc11g068430.3' => 'sly', 'Sopen01g046310' => 'spe', 'Sopen03g001200' => 'spe', 'Sopen04g004830' => 'spe', 'Sopen05g033720' => 'spe', 'Sopen06g030740' => 'spe', 'Sopen10g013090' => 'spe', 'Sopen10g027630' => 'spe', 'Sopen10g027640' => 'spe', 'Sopen11g002820' => 'spe', 'Sopen11g027140' => 'spe', 'Sp1g09680' => 'spa', 'Sp2g03630' => 'spa', 'Sp4g10320' => 'spa', 'Sp6g33400' => 'spa', 'Sp7g13030' => 'spa', 'TAR365G0317' => 'tar', 'TAR376G0979' => 'tar', 'TAR623G1665' => 'tar', 'TAR633G2373' => 'tar', 'TAR636G1400' => 'tar', 'THA.LOC104800529' => 'tha', 'THA.LOC104808547' => 'tha', 'THA.LOC104809615' => 'tha', 'THA.LOC104815724' => 'tha', 'THA.LOC104818480' => 'tha', 'THA.LOC104819179' => 'tha', 'THA.LOC104822270' => 'tha', 'THA.LOC104826425' => 'tha', 'Thecc.02G089700' => 'tca', 'Thecc.04G232300' => 'tca', 'Thecc.09G283400' => 'tca', 'Thhalv10009020m.g' => 'esa', 'Thhalv10015506m.g' => 'esa', 'Thhalv10017364m.g' => 'esa', 'Thhalv10023742m.g' => 'esa', 'Thhalv10026483m.g' => 'esa', 'TPR.G17232' => 'tpr', 'TPR.G2133' => 'tpr', 'TPR.G2498' => 'tpr', 'TPR.G31942' => 'tpr', 'TPR.G37877' => 'tpr', 'TPR.G4571' => 'tpr', 'TWI14G1113' => 'twi', 'TWI15G0426' => 'twi', 'TWI31G1005' => 'twi', 'TWI38G0513' => 'twi', 'TWI38G1484' => 'twi', 'TWI73G1098' => 'twi', 'unitig_26.g10519' => 'ugi', 'unitig_736.g22395' => 'ugi', 'unitig_747.g21234' => 'ugi', 'unitig_747.g21942' => 'ugi', 'vmacro14351' => 'vma', 'VMungo0540G0082' => 'vmu', 'VMungo0540G0405' => 'vmu', 'VMungo0540G1486' => 'vmu', 'VMungo0540G1692' => 'vmu', 'VMungo0720G2473' => 'vmu', 'VMungo1127G1562' => 'vmu', 'VMungo1215G1918' => 'vmu', 'Zm00001eb052650' => 'zma', 'Zm00001eb063710' => 'zma', 'Zm00001eb083950' => 'zma', 'Zm00001eb174420' => 'zma', 'Zm00001eb260140' => 'zma', 'Zm00001eb260150' => 'zma', 'Zm00001eb260160' => 'zma', 'Zm00001eb348290' => 'zma', 'Zm00001eb366870' => 'zma', 'Zm00001eb421930' => 'zma' ), 'gf_id' => 'HOM05D001025', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001025' ), 'data_identifier' => 'HOM05D001025', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001025', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '592', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p22650' => 'bna', 'A01p29720' => 'bna', 'A03p26560' => 'bna', 'A03p68820' => 'bna', 'A04p20980' => 'bna', 'A06p07730' => 'bna', 'A07p18260' => 'bna', 'A08p33710' => 'bna', 'A09p16970' => 'bna', 'A10p27490' => 'bna', 'Aa31LG1G17300' => 'aar', 'Aa31LG1G3910' => 'aar', 'Aa31LG2G9630' => 'aar', 'Aa31LG5G8360' => 'aar', 'Aa31LG9G2410' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4699' => 'aag', 'Actinidia23512' => 'ach', 'Actinidia37080' => 'ach', 'Ah.01g020380' => 'amhyb', 'Ah.08g215710' => 'amhyb', 'Ah.09g225110' => 'amhyb', 'Ah.10g036680' => 'amhyb', 'AL1G21940' => 'aly', 'AL2G15540' => 'aly', 'AL4G21520' => 'aly', 'AL7G40960' => 'aly', 'Aqoxy2G01191' => 'aox', 'Aqoxy2G03393' => 'aox', 'Aqoxy4G02775' => 'aox', 'Aqoxy6G00058' => 'aox', 'arahy.Tifrunner.gnm1.ann1.9X74H2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CW3FX9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R485W7' => 'arhy', 'AT1G10960' => 'ath', 'AT1G60950' => 'ath', 'AT2G27510' => 'ath', 'AT4G14890' => 'ath', 'AT5G10000' => 'ath', 'ATR0665G624' => 'atr', 'ATR0697G138' => 'atr', 'ATR0776G046' => 'atr', 'ATR1134G135' => 'atr', 'Atru.chr12.1025' => 'acertr', 'Atru.chr3.3241' => 'acertr', 'Atru.chr4.2460' => 'acertr', 'AUR62007427' => 'cqu', 'AUR62010960' => 'cqu', 'AUR62012201' => 'cqu', 'AUR62021470' => 'cqu', 'AUR62022834' => 'cqu', 'AUR62033635' => 'cqu', 'AUR62036186' => 'cqu', 'BcaB01g03077' => 'bca', 'BcaB02g10093' => 'bca', 'BcaB04g20295' => 'bca', 'BcaB06g28147' => 'bca', 'BcaB07g31253' => 'bca', 'BcaC01g04946' => 'bca', 'BcaC02g10614' => 'bca', 'BcaC02g10885' => 'bca', 'BcaC04g19356' => 'bca', 'BcaC04g22297' => 'bca', 'BcaC05g24977' => 'bca', 'BcaC06g31823' => 'bca', 'BcaC07g38633' => 'bca', 'BcaC09g49353' => 'bca', 'BcaC09g50168' => 'bca', 'BcaNung00322' => 'bca', 'BcaNung04769' => 'bca', 'BolC1t02753H' => 'bol', 'BolC1t03721H' => 'bol', 'BolC3t15525H' => 'bol', 'BolC4t23903H' => 'bol', 'BolC4t24231H' => 'bol', 'BolC4t27209H' => 'bol', 'BolC5t29671H' => 'bol', 'BolC8t49044H' => 'bol', 'BolC9t54999H' => 'bol', 'BolC9t59517H' => 'bol', 'BraA01t02178Z' => 'bra', 'BraA01t03099Z' => 'bra', 'BraA03t11867Z' => 'bra', 'BraA04t17667Z' => 'bra', 'BraA07t29542Z' => 'bra', 'BraA08t35287Z' => 'bra', 'BraA09t37334Z' => 'bra', 'BraA10t44801Z' => 'bra', 'BraSC39t46181Z' => 'bra', 'C01p28240' => 'bna', 'C01p37530' => 'bna', 'C03p31820' => 'bna', 'C04p24080' => 'bna', 'C04p25790' => 'bna', 'C04p56770' => 'bna', 'C05p09310' => 'bna', 'C09p21010' => 'bna', 'C09p67560' => 'bna', 'CAN.G1324.7' => 'can', 'CAN.G1358.10' => 'can', 'CAN.G1550.2' => 'can', 'CAN.G186.56' => 'can', 'CAN.G1965.1' => 'can', 'CAN.G645.15' => 'can', 'CAN.G798.26' => 'can', 'CAN.G798.27' => 'can', 'CAN.G798.29' => 'can', 'CAN.G919.31' => 'can', 'CANSAT11G0133' => 'cansat', 'CANSAT11G1171' => 'cansat', 'CANSAT11G2056' => 'cansat', 'CANSAT56G1202' => 'cansat', 'CANSAT56G1514' => 'cansat', 'CANSAT78G0455' => 'cansat', 'CARHR011190' => 'chi', 'CARHR051980' => 'chi', 'CARHR120170' => 'chi', 'CARHR203310' => 'chi', 'CARHR221490' => 'chi', 'Carub.0001s1054' => 'cru', 'Carub.0002s0431' => 'cru', 'Carub.0004s0818' => 'cru', 'Carub.0006s0846' => 'cru', 'Carub.0007s2722' => 'cru', 'Ca_00058_v3' => 'car', 'Ca_17831_v3' => 'car', 'Ca_19408_v3' => 'car', 'Ca_24397_v3' => 'car', 'Ca_25664_v3' => 'car', 'CBR_g21818' => 'cbr', 'CBR_g31195' => 'cbr', 'CBR_g32282' => 'cbr', 'CBR_g39599' => 'cbr', 'CBR_g49410' => 'cbr', 'Cc01_g09120' => 'ccan', 'Cc01_g09130' => 'ccan', 'Cc02_g09630' => 'ccan', 'Cc02_g22810' => 'ccan', 'Cc03_g03810' => 'ccan', 'CDE02G3718' => 'cde', 'CDE04G3183' => 'cde', 'CDE07G1046' => 'cde', 'CDE08G0480' => 'cde', 'Cfa005493' => 'cfa', 'Cfa010312' => 'cfa', 'Cfa015648' => 'cfa', 'Ciclev10002793m.g' => 'ccl', 'Ciclev10003356m.g' => 'ccl', 'Ciclev10006141m.g' => 'ccl', 'Ciclev10016676m.g' => 'ccl', 'Ciclev10017081m.g' => 'ccl', 'Ciclev10029499m.g' => 'ccl', 'CiPaw.01G166300' => 'cil', 'CiPaw.06G145600' => 'cil', 'CiPaw.13G040100' => 'cil', 'CiPaw.13G135800' => 'cil', 'ClCG01G012230' => 'cla', 'ClCG05G009510' => 'cla', 'ClCG08G008270' => 'cla', 'COL.COLO4_11763' => 'col', 'COL.COLO4_19876' => 'col', 'COL.COLO4_21481' => 'col', 'Cpa.g.sc118.34' => 'cpa', 'Cpa.g.sc32.13' => 'cpa', 'Cpa.g.sc58.103' => 'cpa', 'Cre03.g183850' => 'cre', 'Cre06.g306350' => 'cre', 'Cre07.g334800' => 'cre', 'Cre12.g487900' => 'cre', 'Cre14.g626700' => 'cre', 'Cre16.g658400' => 'cre', 'Cre17.g700950' => 'cre', 'CsaV3_1G014830' => 'csa', 'CsaV3_3G013320' => 'csa', 'CsaV3_3G019210' => 'csa', 'CsaV3_3G019220' => 'csa', 'CsaV3_6G004230' => 'csa', 'CSS0003773' => 'camsi', 'CSS0004563' => 'camsi', 'CSS0013949' => 'camsi', 'CSS0025971' => 'camsi', 'CSS0028570' => 'camsi', 'CSS0033127' => 'camsi', 'CSS0036051' => 'camsi', 'CSS0040087' => 'camsi', 'CSS0043179' => 'camsi', 'DCAR_006161' => 'dca', 'DCAR_010351' => 'dca', 'DCAR_012197' => 'dca', 'DCAR_024162' => 'dca', 'Dinv01030' => 'din', 'Dinv10924' => 'din', 'Dinv11835' => 'din', 'Dinv22841' => 'din', 'Dinv42553' => 'din', 'Duzib052G0560' => 'dzi', 'Duzib132G0389' => 'dzi', 'Duzib150G1181' => 'dzi', 'Duzib168G0623' => 'dzi', 'Duzib170G1036' => 'dzi', 'Duzib212G0200' => 'dzi', 'Duzib248G0194' => 'dzi', 'ECA232G2193' => 'eca', 'ECA233G0302' => 'eca', 'ECA234G2813' => 'eca', 'ECA234G4866' => 'eca', 'ECA240G3932' => 'eca', 'ECA248G0385' => 'eca', 'EL10Ac2g04781' => 'bvu', 'EL10Ac3g06445' => 'bvu', 'EL10Ac7g15825' => 'bvu', 'EL10Ac8g18550' => 'bvu', 'Eucgr.B03849' => 'egr', 'Eucgr.I02744' => 'egr', 'Eucgr.J00264' => 'egr', 'Eucgr.J00493' => 'egr', 'FAN04G2181' => 'fan', 'FAN07G2666' => 'fan', 'FAN11G0024' => 'fan', 'FAN12G1105' => 'fan', 'FAN13G0302' => 'fan', 'FAN15G2781' => 'fan', 'FAN16G1274' => 'fan', 'FAN17G2988' => 'fan', 'FAN18G2621' => 'fan', 'FAN21G0013' => 'fan', 'FAN22G1211' => 'fan', 'FAN25G3626' => 'fan', 'FvH4_2g09491' => 'fve', 'FvH4_3g24910' => 'fve', 'FvH4_4g15630' => 'fve', 'FvH4_5g28820' => 'fve', 'Glyma.01G238000' => 'gma', 'Glyma.05G168400' => 'gma', 'Glyma.08G126800' => 'gma', 'Glyma.08G188500' => 'gma', 'Glyma.10G278900' => 'gma', 'Glyma.11G005700' => 'gma', 'Glyma.11G183300' => 'gma', 'Glyma.12G089200' => 'gma', 'Glyma.12G169400' => 'gma', 'Glyma.12G169500' => 'gma', 'Glyma.12G169600' => 'gma', 'Glyma.20G110800' => 'gma', 'Gohir.A03G192900' => 'ghi', 'Gohir.A03G193000' => 'ghi', 'Gohir.A05G080700' => 'ghi', 'Gohir.A09G216000' => 'ghi', 'Gohir.A12G027700' => 'ghi', 'Gohir.A13G036200' => 'ghi', 'Gohir.A13G222600' => 'ghi', 'Gohir.D02G213900' => 'ghi', 'Gohir.D02G214000' => 'ghi', 'Gohir.D05G083700' => 'ghi', 'Gohir.D05G083800' => 'ghi', 'Gohir.D05G083850' => 'ghi', 'Gohir.D08G015400' => 'ghi', 'Gohir.D09G218400' => 'ghi', 'Gohir.D12G027100' => 'ghi', 'Gohir.D13G034500' => 'ghi', 'Gohir.D13G227400' => 'ghi', 'Gorai.005G241800' => 'gra', 'Gorai.005G241900' => 'gra', 'Gorai.006G239400' => 'gra', 'Gorai.008G027600' => 'gra', 'Gorai.009G085400' => 'gra', 'Gorai.009G085500' => 'gra', 'Gorai.013G039000' => 'gra', 'Gorai.013G194800' => 'gra', 'Gorai.013G257900' => 'gra', 'GSVIVG01000982001' => 'vvi', 'GSVIVG01017981001' => 'vvi', 'HanXRQChr01g0024061' => 'han', 'HanXRQChr09g0247831' => 'han', 'HanXRQChr10g0294611' => 'han', 'HanXRQChr10g0294621' => 'han', 'HanXRQChr11g0346821' => 'han', 'HanXRQChr13g0397461' => 'han', 'HanXRQChr16g0513651' => 'han', 'HanXRQChr16g0513701' => 'han', 'Haze_00897' => 'cav', 'Haze_01745' => 'cav', 'Haze_02486' => 'cav', 'Haze_02487' => 'cav', 'Haze_23374' => 'cav', 'Hma1.2p1_0578F.1_g182520' => 'hma', 'Hma1.2p1_0602F.1_g187350' => 'hma', 'Hma1.2p1_0602F.1_g187360' => 'hma', 'Hma1.2p1_0874F.1_g231320' => 'hma', 'Hma1.2p1_1197F.1_g266210' => 'hma', 'Hma1.2p1_1197F.1_g266220' => 'hma', 'Hma1.2p1_2167F.1_g315895' => 'hma', 'Hma1.2p1_2190F.1_g316640' => 'hma', 'Hma1.2p1_3645F.1_g337153' => 'hma', 'HPP92_004907' => 'vpl', 'HPP92_012134' => 'vpl', 'HPP92_025136' => 'vpl', 'HPP92_026087' => 'vpl', 'Hund06782' => 'sun', 'Hund06784' => 'sun', 'Lalb_Chr01g0004861' => 'lal', 'Lalb_Chr02g0140591' => 'lal', 'Lalb_Chr02g0140611' => 'lal', 'Lalb_Chr03g0028101' => 'lal', 'Lalb_Chr07g0185791' => 'lal', 'Lalb_Chr12g0204491' => 'lal', 'Lalb_Chr13g0295671' => 'lal', 'Lalb_Chr19g0136461' => 'lal', 'Lalb_Chr21g0309191' => 'lal', 'Lj1g0028158' => 'lja', 'Lj1P236T38' => 'lonja', 'Lj2C32G2' => 'lonja', 'Lj2P944T8' => 'lonja', 'Lj2P963T15' => 'lonja', 'Lj3g0011788' => 'lja', 'Lj4g0025027' => 'lja', 'Lj5P255T36' => 'lonja', 'Lj6g0018866' => 'lja', 'Lj6P608T31' => 'lonja', 'LjContig00408g0008879' => 'lja', 'Lsat_1_v5_gn_5_105820' => 'lsa', 'Lsat_1_v5_gn_6_38800' => 'lsa', 'Lsat_1_v5_gn_7_67141' => 'lsa', 'Manes.04G003400' => 'mes', 'Manes.07G020000' => 'mes', 'Manes.07G020100' => 'mes', 'Manes.07G020150' => 'mes', 'Manes.10G061500' => 'mes', 'Manes.10G123200' => 'mes', 'Manes.11G161900' => 'mes', 'Manes.15G029300' => 'mes', 'Mapoly0071s0018' => 'mpo', 'Mapoly0082s0023' => 'mpo', 'Mapoly3477s0001' => 'mpo', 'MBI05_g31233_MAGBIO' => 'mbi', 'MBI09_g05946_MAGBIO' => 'mbi', 'MBI09_g05947_MAGBIO' => 'mbi', 'MBI17_g08346_MAGBIO' => 'mbi', 'MCO04G038' => 'mco', 'MCO09G370' => 'mco', 'MCO13G605' => 'mco', 'MD00G1075500' => 'mdo', 'MD03G1144300' => 'mdo', 'MD08G1236800' => 'mdo', 'MD13G1193300' => 'mdo', 'MD15G1428700' => 'mdo', 'Medtr1g112030' => 'mtr', 'Medtr1g112050' => 'mtr', 'Medtr2g006290' => 'mtr', 'Medtr2g086510' => 'mtr', 'Medtr4g053120' => 'mtr', 'Medtr5g006320' => 'mtr', 'Medtr8g088720' => 'mtr', 'MELO3C004712.2' => 'cme', 'MELO3C006533.2' => 'cme', 'MELO3C019438.2' => 'cme', 'MELO3C019440.2' => 'cme', 'MELO3C019441.2' => 'cme', 'MELO3C019895.2' => 'cme', 'Migut.B00811' => 'egut', 'Migut.D02447' => 'egut', 'Migut.F00875' => 'egut', 'Migut.N00186' => 'egut', 'Migut.N01051' => 'egut', 'Migut.N02491' => 'egut', 'Migut.O00784' => 'egut', 'MSTRG.12367' => 'ama', 'MSTRG.18756' => 'ama', 'MSTRG.21042' => 'ama', 'Nitab4.5_0000559g0040' => 'nta', 'Nitab4.5_0000667g0190' => 'nta', 'Nitab4.5_0000755g0160' => 'nta', 'Nitab4.5_0001216g0080' => 'nta', 'Nitab4.5_0004069g0040' => 'nta', 'Nitab4.5_0004129g0010' => 'nta', 'Nitab4.5_0005744g0030' => 'nta', 'Nitab4.5_0006996g0030' => 'nta', 'Nitab4.5_0008971g0040' => 'nta', 'Nitab4.5_0009769g0020' => 'nta', 'Nitab4.5_0009833g0010' => 'nta', 'Nitab4.5_0013140g0020' => 'nta', 'Nn003s41376' => 'nnu', 'Nn1g01857' => 'nnu', 'Nn1g03611' => 'nnu', 'Nn1g06853' => 'nnu', 'Nn3g18360' => 'nnu', 'Nn4g26328' => 'nnu', 'Nn5g27531' => 'nnu', 'Nn6g34899' => 'nnu', 'Nn7g36299' => 'nnu', 'Oeu021485.1' => 'oeu', 'Oeu022433.1' => 'oeu', 'Oeu032111.1' => 'oeu', 'Oeu051608.1' => 'oeu', 'Os01g0860601' => 'osa', 'Os03g0659200' => 'osa', 'Os03g0835900' => 'osa', 'Os04g0412200' => 'osa', 'Os05g0443500' => 'osa', 'Os07g0251500' => 'osa', 'Os08g0104600' => 'osa', 'Peaxi162Scf00003g00047' => 'pax', 'Peaxi162Scf00003g00052' => 'pax', 'Peaxi162Scf00003g00394' => 'pax', 'Peaxi162Scf00091g00621' => 'pax', 'Peaxi162Scf00152g00146' => 'pax', 'Peaxi162Scf00173g00025' => 'pax', 'Peaxi162Scf00195g00102' => 'pax', 'Peaxi162Scf00402g00013' => 'pax', 'Peaxi162Scf00519g00618' => 'pax', 'PGR004G2838' => 'pgr', 'PGR044G2275' => 'pgr', 'PGR102G1377' => 'pgr', 'PGR119G1245' => 'pgr', 'PGR142G4449' => 'pgr', 'PGSC0003DMG400004532' => 'stu', 'PGSC0003DMG400011950' => 'stu', 'PGSC0003DMG400023391' => 'stu', 'PGSC0003DMG400023985' => 'stu', 'PGSC0003DMG400026360' => 'stu', 'PGSC0003DMG400035711' => 'stu', 'PGSC0003DMG400037286' => 'stu', 'PGSC0003DMG402005881' => 'stu', 'Phvul.002G045400' => 'pvu', 'Phvul.006G216600' => 'pvu', 'Phvul.006G216700' => 'pvu', 'Phvul.006G216800' => 'pvu', 'Phvul.007G022500' => 'pvu', 'Phvul.011G094400' => 'pvu', 'Potri.001G470700' => 'ptr', 'Potri.003G015200' => 'ptr', 'Potri.004G202500' => 'ptr', 'Potri.004G218400' => 'ptr', 'Potri.008G020100' => 'ptr', 'Potri.008G153200' => 'ptr', 'Potri.009G163800' => 'ptr', 'Potri.010G087300' => 'ptr', 'Potri.010G239100' => 'ptr', 'Pp3c10_16100' => 'ppa', 'Pp3c10_16880' => 'ppa', 'Pp3c16_6230' => 'ppa', 'Pp3c17_18910' => 'ppa', 'Pp3c3_22119' => 'ppa', 'Pp3c3_22140' => 'ppa', 'Pp3c4_8159' => 'ppa', 'Pp3c4_8171' => 'ppa', 'Pp3c4_8330' => 'ppa', 'PRCOL_00004098' => 'pco', 'Prupe.1G013900' => 'ppe', 'Prupe.1G226300' => 'ppe', 'Prupe.1G573600' => 'ppe', 'Prupe.6G130100' => 'ppe', 'Psat3g090040' => 'psa', 'Psat4g210440' => 'psa', 'Psat6g231040' => 'psa', 'Psat6g231080' => 'psa', 'Psat7g063000' => 'psa', 'Psat7g188000' => 'psa', 'Psat7g188040' => 'psa', 'PSO017G0206' => 'pso', 'PSO170G0501' => 'pso', 'PSO170G6422' => 'pso', 'PSO210G7739' => 'pso', 'PSO339G1808' => 'pso', 'PSO339G6135' => 'pso', 'PSO384G0010' => 'pso', 'PSO384G0964' => 'pso', 'PSO761G0050' => 'pso', 'PSO782G4085' => 'pso', 'QL01p012264' => 'qlo', 'QL02p099491' => 'qlo', 'QL03p033868' => 'qlo', 'QL04p046678' => 'qlo', 'QL06p002448' => 'qlo', 'RcHm_v2.0_Chr4g0416181' => 'rch', 'RcHm_v2.0_Chr5g0044701' => 'rch', 'RcHm_v2.0_Chr6g0265781' => 'rch', 'RcHm_v2.0_Chr7g0221031' => 'rch', 'Rhsim04G0202000' => 'rsi', 'Rhsim11G0127300' => 'rsi', 'Rhsim13G0111800' => 'rsi', 'Sabra01G0165600' => 'sbr', 'Sabra03G0008300' => 'sbr', 'Sabra04G0136900' => 'sbr', 'Sabra08G0013400' => 'sbr', 'Sabra08G0116800' => 'sbr', 'Sabra09G0128000' => 'sbr', 'Sabra10G0055500' => 'sbr', 'Sabra10G0073300' => 'sbr', 'SalBow3G0385' => 'sbo', 'SalBow3G1119' => 'sbo', 'SalBow3G2005' => 'sbo', 'SalBow6G2563' => 'sbo', 'SalBow6G6386' => 'sbo', 'Sc06g0008800' => 'sci', 'Sc07g0004950' => 'sci', 'Sc09g0005340' => 'sci', 'Sc13g0004410' => 'sci', 'Sc21g0007090' => 'sci', 'Sed0009285' => 'sed', 'Sed0017583' => 'sed', 'Sed0019699' => 'sed', 'Sed0023107' => 'sed', 'SEGI_10916' => 'sgi', 'SEGI_16217' => 'sgi', 'SEGI_19466' => 'sgi', 'SEGI_41115' => 'sgi', 'SGA_v2.0_scaffold111G31534' => 'sas', 'SGA_v2.0_scaffold22G09864' => 'sas', 'SGA_v2.0_scaffold338G49219' => 'sas', 'SGA_v2.0_scaffold92G28298' => 'sas', 'SMO119G0064' => 'smo', 'SMO223G0038' => 'smo', 'SMO347G0584' => 'smo', 'SMO351G0010' => 'smo', 'SMO356G0404' => 'smo', 'Solyc01g103920.3' => 'sly', 'Solyc04g009710.2' => 'sly', 'Solyc05g055280.2' => 'sly', 'Solyc10g044520.3' => 'sly', 'Solyc10g075160.1' => 'sly', 'Solyc11g006910.3' => 'sly', 'Solyc11g068430.3' => 'sly', 'Sopen01g046310' => 'spe', 'Sopen03g001200' => 'spe', 'Sopen04g004830' => 'spe', 'Sopen05g033720' => 'spe', 'Sopen06g030740' => 'spe', 'Sopen10g013090' => 'spe', 'Sopen10g027630' => 'spe', 'Sopen10g027640' => 'spe', 'Sopen11g002820' => 'spe', 'Sopen11g027140' => 'spe', 'Sp1g09680' => 'spa', 'Sp2g03630' => 'spa', 'Sp4g10320' => 'spa', 'Sp6g33400' => 'spa', 'Sp7g13030' => 'spa', 'TAR365G0317' => 'tar', 'TAR376G0979' => 'tar', 'TAR623G1665' => 'tar', 'TAR633G2373' => 'tar', 'TAR636G1400' => 'tar', 'THA.LOC104800529' => 'tha', 'THA.LOC104808547' => 'tha', 'THA.LOC104809615' => 'tha', 'THA.LOC104815724' => 'tha', 'THA.LOC104818480' => 'tha', 'THA.LOC104819179' => 'tha', 'THA.LOC104822270' => 'tha', 'THA.LOC104826425' => 'tha', 'Thecc.02G089700' => 'tca', 'Thecc.04G232300' => 'tca', 'Thecc.09G283400' => 'tca', 'Thhalv10009020m.g' => 'esa', 'Thhalv10015506m.g' => 'esa', 'Thhalv10017364m.g' => 'esa', 'Thhalv10023742m.g' => 'esa', 'Thhalv10026483m.g' => 'esa', 'TPR.G17232' => 'tpr', 'TPR.G2133' => 'tpr', 'TPR.G2498' => 'tpr', 'TPR.G31942' => 'tpr', 'TPR.G37877' => 'tpr', 'TPR.G4571' => 'tpr', 'TWI14G1113' => 'twi', 'TWI15G0426' => 'twi', 'TWI31G1005' => 'twi', 'TWI38G0513' => 'twi', 'TWI38G1484' => 'twi', 'TWI73G1098' => 'twi', 'unitig_26.g10519' => 'ugi', 'unitig_736.g22395' => 'ugi', 'unitig_747.g21234' => 'ugi', 'unitig_747.g21942' => 'ugi', 'vmacro14351' => 'vma', 'VMungo0540G0082' => 'vmu', 'VMungo0540G0405' => 'vmu', 'VMungo0540G1486' => 'vmu', 'VMungo0540G1692' => 'vmu', 'VMungo0720G2473' => 'vmu', 'VMungo1127G1562' => 'vmu', 'VMungo1215G1918' => 'vmu', 'Zm00001eb052650' => 'zma', 'Zm00001eb063710' => 'zma', 'Zm00001eb083950' => 'zma', 'Zm00001eb174420' => 'zma', 'Zm00001eb260140' => 'zma', 'Zm00001eb260150' => 'zma', 'Zm00001eb260160' => 'zma', 'Zm00001eb348290' => 'zma', 'Zm00001eb366870' => 'zma', 'Zm00001eb421930' => 'zma' ) $gf_id = 'HOM05D001025' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001025' ) $data_identifier = 'HOM05D001025' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 19, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 2, 'amhyb' => (int) 4, 'aly' => (int) 4, 'aox' => (int) 4, 'arhy' => (int) 3, 'ath' => (int) 5, 'atr' => (int) 4, 'acertr' => (int) 3, 'cqu' => (int) 7, 'bca' => (int) 17, 'bol' => (int) 10, 'bra' => (int) 9, 'can' => (int) 10, 'cansat' => (int) 6, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 5, 'cbr' => (int) 5, 'ccan' => (int) 5, 'cde' => (int) 4, 'cfa' => (int) 3, 'ccl' => (int) 6, 'cil' => (int) 4, 'cla' => (int) 3, 'col' => (int) 3, 'cpa' => (int) 3, 'cre' => (int) 7, 'csa' => (int) 5, 'camsi' => (int) 9, 'dca' => (int) 4, 'din' => (int) 5, 'dzi' => (int) 7, 'eca' => (int) 6, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 12, 'fve' => (int) 4, 'gma' => (int) 12, 'ghi' => (int) 17, 'gra' => (int) 9, 'vvi' => (int) 2, 'han' => (int) 8, 'cav' => (int) 5, 'hma' => (int) 9, 'vpl' => (int) 4, 'sun' => (int) 2, 'lal' => (int) 9, 'lja' => (int) 5, 'lonja' => (int) 6, 'lsa' => (int) 3, 'mes' => (int) 8, 'mpo' => (int) 3, 'mbi' => (int) 4, 'mco' => (int) 3, 'mdo' => (int) 5, 'mtr' => (int) 7, 'cme' => (int) 6, 'egut' => (int) 7, 'ama' => (int) 3, 'nta' => (int) 12, 'nnu' => (int) 9, 'oeu' => (int) 4, 'osa' => (int) 7, 'pax' => (int) 9, 'pgr' => (int) 5, 'stu' => (int) 8, 'pvu' => (int) 6, 'ptr' => (int) 9, 'ppa' => (int) 9, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 7, 'pso' => (int) 10, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 3, 'sbr' => (int) 8, 'sbo' => (int) 5, 'sci' => (int) 5, 'sed' => (int) 4, 'sgi' => (int) 4, 'sas' => (int) 4, 'smo' => (int) 5, 'sly' => (int) 7, 'spe' => (int) 10, 'spa' => (int) 5, 'tar' => (int) 5, 'tha' => (int) 8, 'tca' => (int) 3, 'esa' => (int) 5, 'tpr' => (int) 6, 'twi' => (int) 6, 'ugi' => (int) 4, 'vma' => (int) 1, 'vmu' => (int) 7, 'zma' => (int) 10 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb421930' $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' => 'HOM05D001025', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '592', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p22650' => 'bna', 'A01p29720' => 'bna', 'A03p26560' => 'bna', 'A03p68820' => 'bna', 'A04p20980' => 'bna', 'A06p07730' => 'bna', 'A07p18260' => 'bna', 'A08p33710' => 'bna', 'A09p16970' => 'bna', 'A10p27490' => 'bna', 'Aa31LG1G17300' => 'aar', 'Aa31LG1G3910' => 'aar', 'Aa31LG2G9630' => 'aar', 'Aa31LG5G8360' => 'aar', 'Aa31LG9G2410' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4699' => 'aag', 'Actinidia23512' => 'ach', 'Actinidia37080' => 'ach', 'Ah.01g020380' => 'amhyb', 'Ah.08g215710' => 'amhyb', 'Ah.09g225110' => 'amhyb', 'Ah.10g036680' => 'amhyb', 'AL1G21940' => 'aly', 'AL2G15540' => 'aly', 'AL4G21520' => 'aly', 'AL7G40960' => 'aly', 'Aqoxy2G01191' => 'aox', 'Aqoxy2G03393' => 'aox', 'Aqoxy4G02775' => 'aox', 'Aqoxy6G00058' => 'aox', 'arahy.Tifrunner.gnm1.ann1.9X74H2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CW3FX9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R485W7' => 'arhy', 'AT1G10960' => 'ath', 'AT1G60950' => 'ath', 'AT2G27510' => 'ath', 'AT4G14890' => 'ath', 'AT5G10000' => 'ath', 'ATR0665G624' => 'atr', 'ATR0697G138' => 'atr', 'ATR0776G046' => 'atr', 'ATR1134G135' => 'atr', 'Atru.chr12.1025' => 'acertr', 'Atru.chr3.3241' => 'acertr', 'Atru.chr4.2460' => 'acertr', 'AUR62007427' => 'cqu', 'AUR62010960' => 'cqu', 'AUR62012201' => 'cqu', 'AUR62021470' => 'cqu', 'AUR62022834' => 'cqu', 'AUR62033635' => 'cqu', 'AUR62036186' => 'cqu', 'BcaB01g03077' => 'bca', 'BcaB02g10093' => 'bca', 'BcaB04g20295' => 'bca', 'BcaB06g28147' => 'bca', 'BcaB07g31253' => 'bca', 'BcaC01g04946' => 'bca', 'BcaC02g10614' => 'bca', 'BcaC02g10885' => 'bca', 'BcaC04g19356' => 'bca', 'BcaC04g22297' => 'bca', 'BcaC05g24977' => 'bca', 'BcaC06g31823' => 'bca', 'BcaC07g38633' => 'bca', 'BcaC09g49353' => 'bca', 'BcaC09g50168' => 'bca', 'BcaNung00322' => 'bca', 'BcaNung04769' => 'bca', 'BolC1t02753H' => 'bol', 'BolC1t03721H' => 'bol', 'BolC3t15525H' => 'bol', 'BolC4t23903H' => 'bol', 'BolC4t24231H' => 'bol', 'BolC4t27209H' => 'bol', 'BolC5t29671H' => 'bol', 'BolC8t49044H' => 'bol', 'BolC9t54999H' => 'bol', 'BolC9t59517H' => 'bol', 'BraA01t02178Z' => 'bra', 'BraA01t03099Z' => 'bra', 'BraA03t11867Z' => 'bra', 'BraA04t17667Z' => 'bra', 'BraA07t29542Z' => 'bra', 'BraA08t35287Z' => 'bra', 'BraA09t37334Z' => 'bra', 'BraA10t44801Z' => 'bra', 'BraSC39t46181Z' => 'bra', 'C01p28240' => 'bna', 'C01p37530' => 'bna', 'C03p31820' => 'bna', 'C04p24080' => 'bna', 'C04p25790' => 'bna', 'C04p56770' => 'bna', 'C05p09310' => 'bna', 'C09p21010' => 'bna', 'C09p67560' => 'bna', 'CAN.G1324.7' => 'can', 'CAN.G1358.10' => 'can', 'CAN.G1550.2' => 'can', 'CAN.G186.56' => 'can', 'CAN.G1965.1' => 'can', 'CAN.G645.15' => 'can', 'CAN.G798.26' => 'can', 'CAN.G798.27' => 'can', 'CAN.G798.29' => 'can', 'CAN.G919.31' => 'can', 'CANSAT11G0133' => 'cansat', 'CANSAT11G1171' => 'cansat', 'CANSAT11G2056' => 'cansat', 'CANSAT56G1202' => 'cansat', 'CANSAT56G1514' => 'cansat', 'CANSAT78G0455' => 'cansat', 'CARHR011190' => 'chi', 'CARHR051980' => 'chi', 'CARHR120170' => 'chi', 'CARHR203310' => 'chi', 'CARHR221490' => 'chi', 'Carub.0001s1054' => 'cru', 'Carub.0002s0431' => 'cru', 'Carub.0004s0818' => 'cru', 'Carub.0006s0846' => 'cru', 'Carub.0007s2722' => 'cru', 'Ca_00058_v3' => 'car', 'Ca_17831_v3' => 'car', 'Ca_19408_v3' => 'car', 'Ca_24397_v3' => 'car', 'Ca_25664_v3' => 'car', 'CBR_g21818' => 'cbr', 'CBR_g31195' => 'cbr', 'CBR_g32282' => 'cbr', 'CBR_g39599' => 'cbr', 'CBR_g49410' => 'cbr', 'Cc01_g09120' => 'ccan', 'Cc01_g09130' => 'ccan', 'Cc02_g09630' => 'ccan', 'Cc02_g22810' => 'ccan', 'Cc03_g03810' => 'ccan', 'CDE02G3718' => 'cde', 'CDE04G3183' => 'cde', 'CDE07G1046' => 'cde', 'CDE08G0480' => 'cde', 'Cfa005493' => 'cfa', 'Cfa010312' => 'cfa', 'Cfa015648' => 'cfa', 'Ciclev10002793m.g' => 'ccl', 'Ciclev10003356m.g' => 'ccl', 'Ciclev10006141m.g' => 'ccl', 'Ciclev10016676m.g' => 'ccl', 'Ciclev10017081m.g' => 'ccl', 'Ciclev10029499m.g' => 'ccl', 'CiPaw.01G166300' => 'cil', 'CiPaw.06G145600' => 'cil', 'CiPaw.13G040100' => 'cil', 'CiPaw.13G135800' => 'cil', 'ClCG01G012230' => 'cla', 'ClCG05G009510' => 'cla', 'ClCG08G008270' => 'cla', 'COL.COLO4_11763' => 'col', 'COL.COLO4_19876' => 'col', 'COL.COLO4_21481' => 'col', 'Cpa.g.sc118.34' => 'cpa', 'Cpa.g.sc32.13' => 'cpa', 'Cpa.g.sc58.103' => 'cpa', 'Cre03.g183850' => 'cre', 'Cre06.g306350' => 'cre', 'Cre07.g334800' => 'cre', 'Cre12.g487900' => 'cre', 'Cre14.g626700' => 'cre', 'Cre16.g658400' => 'cre', 'Cre17.g700950' => 'cre', 'CsaV3_1G014830' => 'csa', 'CsaV3_3G013320' => 'csa', 'CsaV3_3G019210' => 'csa', 'CsaV3_3G019220' => 'csa', 'CsaV3_6G004230' => 'csa', 'CSS0003773' => 'camsi', 'CSS0004563' => 'camsi', 'CSS0013949' => 'camsi', 'CSS0025971' => 'camsi', 'CSS0028570' => 'camsi', 'CSS0033127' => 'camsi', 'CSS0036051' => 'camsi', 'CSS0040087' => 'camsi', 'CSS0043179' => 'camsi', 'DCAR_006161' => 'dca', 'DCAR_010351' => 'dca', 'DCAR_012197' => 'dca', 'DCAR_024162' => 'dca', 'Dinv01030' => 'din', 'Dinv10924' => 'din', 'Dinv11835' => 'din', 'Dinv22841' => 'din', 'Dinv42553' => 'din', 'Duzib052G0560' => 'dzi', 'Duzib132G0389' => 'dzi', 'Duzib150G1181' => 'dzi', 'Duzib168G0623' => 'dzi', 'Duzib170G1036' => 'dzi', 'Duzib212G0200' => 'dzi', 'Duzib248G0194' => 'dzi', 'ECA232G2193' => 'eca', 'ECA233G0302' => 'eca', 'ECA234G2813' => 'eca', 'ECA234G4866' => 'eca', 'ECA240G3932' => 'eca', 'ECA248G0385' => 'eca', 'EL10Ac2g04781' => 'bvu', 'EL10Ac3g06445' => 'bvu', 'EL10Ac7g15825' => 'bvu', 'EL10Ac8g18550' => 'bvu', 'Eucgr.B03849' => 'egr', 'Eucgr.I02744' => 'egr', 'Eucgr.J00264' => 'egr', 'Eucgr.J00493' => 'egr', 'FAN04G2181' => 'fan', 'FAN07G2666' => 'fan', 'FAN11G0024' => 'fan', 'FAN12G1105' => 'fan', 'FAN13G0302' => 'fan', 'FAN15G2781' => 'fan', 'FAN16G1274' => 'fan', 'FAN17G2988' => 'fan', 'FAN18G2621' => 'fan', 'FAN21G0013' => 'fan', 'FAN22G1211' => 'fan', 'FAN25G3626' => 'fan', 'FvH4_2g09491' => 'fve', 'FvH4_3g24910' => 'fve', 'FvH4_4g15630' => 'fve', 'FvH4_5g28820' => 'fve', 'Glyma.01G238000' => 'gma', 'Glyma.05G168400' => 'gma', 'Glyma.08G126800' => 'gma', 'Glyma.08G188500' => 'gma', 'Glyma.10G278900' => 'gma', 'Glyma.11G005700' => 'gma', 'Glyma.11G183300' => 'gma', 'Glyma.12G089200' => 'gma', 'Glyma.12G169400' => 'gma', 'Glyma.12G169500' => 'gma', 'Glyma.12G169600' => 'gma', 'Glyma.20G110800' => 'gma', 'Gohir.A03G192900' => 'ghi', 'Gohir.A03G193000' => 'ghi', 'Gohir.A05G080700' => 'ghi', 'Gohir.A09G216000' => 'ghi', 'Gohir.A12G027700' => 'ghi', 'Gohir.A13G036200' => 'ghi', 'Gohir.A13G222600' => 'ghi', 'Gohir.D02G213900' => 'ghi', 'Gohir.D02G214000' => 'ghi', 'Gohir.D05G083700' => 'ghi', 'Gohir.D05G083800' => 'ghi', 'Gohir.D05G083850' => 'ghi', 'Gohir.D08G015400' => 'ghi', 'Gohir.D09G218400' => 'ghi', 'Gohir.D12G027100' => 'ghi', 'Gohir.D13G034500' => 'ghi', 'Gohir.D13G227400' => 'ghi', 'Gorai.005G241800' => 'gra', 'Gorai.005G241900' => 'gra', 'Gorai.006G239400' => 'gra', 'Gorai.008G027600' => 'gra', 'Gorai.009G085400' => 'gra', 'Gorai.009G085500' => 'gra', 'Gorai.013G039000' => 'gra', 'Gorai.013G194800' => 'gra', 'Gorai.013G257900' => 'gra', 'GSVIVG01000982001' => 'vvi', 'GSVIVG01017981001' => 'vvi', 'HanXRQChr01g0024061' => 'han', 'HanXRQChr09g0247831' => 'han', 'HanXRQChr10g0294611' => 'han', 'HanXRQChr10g0294621' => 'han', 'HanXRQChr11g0346821' => 'han', 'HanXRQChr13g0397461' => 'han', 'HanXRQChr16g0513651' => 'han', 'HanXRQChr16g0513701' => 'han', 'Haze_00897' => 'cav', 'Haze_01745' => 'cav', 'Haze_02486' => 'cav', 'Haze_02487' => 'cav', 'Haze_23374' => 'cav', 'Hma1.2p1_0578F.1_g182520' => 'hma', 'Hma1.2p1_0602F.1_g187350' => 'hma', 'Hma1.2p1_0602F.1_g187360' => 'hma', 'Hma1.2p1_0874F.1_g231320' => 'hma', 'Hma1.2p1_1197F.1_g266210' => 'hma', 'Hma1.2p1_1197F.1_g266220' => 'hma', 'Hma1.2p1_2167F.1_g315895' => 'hma', 'Hma1.2p1_2190F.1_g316640' => 'hma', 'Hma1.2p1_3645F.1_g337153' => 'hma', 'HPP92_004907' => 'vpl', 'HPP92_012134' => 'vpl', 'HPP92_025136' => 'vpl', 'HPP92_026087' => 'vpl', 'Hund06782' => 'sun', 'Hund06784' => 'sun', 'Lalb_Chr01g0004861' => 'lal', 'Lalb_Chr02g0140591' => 'lal', 'Lalb_Chr02g0140611' => 'lal', 'Lalb_Chr03g0028101' => 'lal', 'Lalb_Chr07g0185791' => 'lal', 'Lalb_Chr12g0204491' => 'lal', 'Lalb_Chr13g0295671' => 'lal', 'Lalb_Chr19g0136461' => 'lal', 'Lalb_Chr21g0309191' => 'lal', 'Lj1g0028158' => 'lja', 'Lj1P236T38' => 'lonja', 'Lj2C32G2' => 'lonja', 'Lj2P944T8' => 'lonja', 'Lj2P963T15' => 'lonja', 'Lj3g0011788' => 'lja', 'Lj4g0025027' => 'lja', 'Lj5P255T36' => 'lonja', 'Lj6g0018866' => 'lja', 'Lj6P608T31' => 'lonja', 'LjContig00408g0008879' => 'lja', 'Lsat_1_v5_gn_5_105820' => 'lsa', 'Lsat_1_v5_gn_6_38800' => 'lsa', 'Lsat_1_v5_gn_7_67141' => 'lsa', 'Manes.04G003400' => 'mes', 'Manes.07G020000' => 'mes', 'Manes.07G020100' => 'mes', 'Manes.07G020150' => 'mes', 'Manes.10G061500' => 'mes', 'Manes.10G123200' => 'mes', 'Manes.11G161900' => 'mes', 'Manes.15G029300' => 'mes', 'Mapoly0071s0018' => 'mpo', 'Mapoly0082s0023' => 'mpo', 'Mapoly3477s0001' => 'mpo', 'MBI05_g31233_MAGBIO' => 'mbi', 'MBI09_g05946_MAGBIO' => 'mbi', 'MBI09_g05947_MAGBIO' => 'mbi', 'MBI17_g08346_MAGBIO' => 'mbi', 'MCO04G038' => 'mco', 'MCO09G370' => 'mco', 'MCO13G605' => 'mco', 'MD00G1075500' => 'mdo', 'MD03G1144300' => 'mdo', 'MD08G1236800' => 'mdo', 'MD13G1193300' => 'mdo', 'MD15G1428700' => 'mdo', 'Medtr1g112030' => 'mtr', 'Medtr1g112050' => 'mtr', 'Medtr2g006290' => 'mtr', 'Medtr2g086510' => 'mtr', 'Medtr4g053120' => 'mtr', 'Medtr5g006320' => 'mtr', 'Medtr8g088720' => 'mtr', 'MELO3C004712.2' => 'cme', 'MELO3C006533.2' => 'cme', 'MELO3C019438.2' => 'cme', 'MELO3C019440.2' => 'cme', 'MELO3C019441.2' => 'cme', 'MELO3C019895.2' => 'cme', 'Migut.B00811' => 'egut', 'Migut.D02447' => 'egut', 'Migut.F00875' => 'egut', 'Migut.N00186' => 'egut', 'Migut.N01051' => 'egut', 'Migut.N02491' => 'egut', 'Migut.O00784' => 'egut', 'MSTRG.12367' => 'ama', 'MSTRG.18756' => 'ama', 'MSTRG.21042' => 'ama', 'Nitab4.5_0000559g0040' => 'nta', 'Nitab4.5_0000667g0190' => 'nta', 'Nitab4.5_0000755g0160' => 'nta', 'Nitab4.5_0001216g0080' => 'nta', 'Nitab4.5_0004069g0040' => 'nta', 'Nitab4.5_0004129g0010' => 'nta', 'Nitab4.5_0005744g0030' => 'nta', 'Nitab4.5_0006996g0030' => 'nta', 'Nitab4.5_0008971g0040' => 'nta', 'Nitab4.5_0009769g0020' => 'nta', 'Nitab4.5_0009833g0010' => 'nta', 'Nitab4.5_0013140g0020' => 'nta', 'Nn003s41376' => 'nnu', 'Nn1g01857' => 'nnu', 'Nn1g03611' => 'nnu', 'Nn1g06853' => 'nnu', 'Nn3g18360' => 'nnu', 'Nn4g26328' => 'nnu', 'Nn5g27531' => 'nnu', 'Nn6g34899' => 'nnu', 'Nn7g36299' => 'nnu', 'Oeu021485.1' => 'oeu', 'Oeu022433.1' => 'oeu', 'Oeu032111.1' => 'oeu', 'Oeu051608.1' => 'oeu', 'Os01g0860601' => 'osa', 'Os03g0659200' => 'osa', 'Os03g0835900' => 'osa', 'Os04g0412200' => 'osa', 'Os05g0443500' => 'osa', 'Os07g0251500' => 'osa', 'Os08g0104600' => 'osa', 'Peaxi162Scf00003g00047' => 'pax', 'Peaxi162Scf00003g00052' => 'pax', 'Peaxi162Scf00003g00394' => 'pax', 'Peaxi162Scf00091g00621' => 'pax', 'Peaxi162Scf00152g00146' => 'pax', 'Peaxi162Scf00173g00025' => 'pax', 'Peaxi162Scf00195g00102' => 'pax', 'Peaxi162Scf00402g00013' => 'pax', 'Peaxi162Scf00519g00618' => 'pax', 'PGR004G2838' => 'pgr', 'PGR044G2275' => 'pgr', 'PGR102G1377' => 'pgr', 'PGR119G1245' => 'pgr', 'PGR142G4449' => 'pgr', 'PGSC0003DMG400004532' => 'stu', 'PGSC0003DMG400011950' => 'stu', 'PGSC0003DMG400023391' => 'stu', 'PGSC0003DMG400023985' => 'stu', 'PGSC0003DMG400026360' => 'stu', 'PGSC0003DMG400035711' => 'stu', 'PGSC0003DMG400037286' => 'stu', 'PGSC0003DMG402005881' => 'stu', 'Phvul.002G045400' => 'pvu', 'Phvul.006G216600' => 'pvu', 'Phvul.006G216700' => 'pvu', 'Phvul.006G216800' => 'pvu', 'Phvul.007G022500' => 'pvu', 'Phvul.011G094400' => 'pvu', 'Potri.001G470700' => 'ptr', 'Potri.003G015200' => 'ptr', 'Potri.004G202500' => 'ptr', 'Potri.004G218400' => 'ptr', 'Potri.008G020100' => 'ptr', 'Potri.008G153200' => 'ptr', 'Potri.009G163800' => 'ptr', 'Potri.010G087300' => 'ptr', 'Potri.010G239100' => 'ptr', 'Pp3c10_16100' => 'ppa', 'Pp3c10_16880' => 'ppa', 'Pp3c16_6230' => 'ppa', 'Pp3c17_18910' => 'ppa', 'Pp3c3_22119' => 'ppa', 'Pp3c3_22140' => 'ppa', 'Pp3c4_8159' => 'ppa', 'Pp3c4_8171' => 'ppa', 'Pp3c4_8330' => 'ppa', 'PRCOL_00004098' => 'pco', 'Prupe.1G013900' => 'ppe', 'Prupe.1G226300' => 'ppe', 'Prupe.1G573600' => 'ppe', 'Prupe.6G130100' => 'ppe', 'Psat3g090040' => 'psa', 'Psat4g210440' => 'psa', 'Psat6g231040' => 'psa', 'Psat6g231080' => 'psa', 'Psat7g063000' => 'psa', 'Psat7g188000' => 'psa', 'Psat7g188040' => 'psa', 'PSO017G0206' => 'pso', 'PSO170G0501' => 'pso', 'PSO170G6422' => 'pso', 'PSO210G7739' => 'pso', 'PSO339G1808' => 'pso', 'PSO339G6135' => 'pso', 'PSO384G0010' => 'pso', 'PSO384G0964' => 'pso', 'PSO761G0050' => 'pso', 'PSO782G4085' => 'pso', 'QL01p012264' => 'qlo', 'QL02p099491' => 'qlo', 'QL03p033868' => 'qlo', 'QL04p046678' => 'qlo', 'QL06p002448' => 'qlo', 'RcHm_v2.0_Chr4g0416181' => 'rch', 'RcHm_v2.0_Chr5g0044701' => 'rch', 'RcHm_v2.0_Chr6g0265781' => 'rch', 'RcHm_v2.0_Chr7g0221031' => 'rch', 'Rhsim04G0202000' => 'rsi', 'Rhsim11G0127300' => 'rsi', 'Rhsim13G0111800' => 'rsi', 'Sabra01G0165600' => 'sbr', 'Sabra03G0008300' => 'sbr', 'Sabra04G0136900' => 'sbr', 'Sabra08G0013400' => 'sbr', 'Sabra08G0116800' => 'sbr', 'Sabra09G0128000' => 'sbr', 'Sabra10G0055500' => 'sbr', 'Sabra10G0073300' => 'sbr', 'SalBow3G0385' => 'sbo', 'SalBow3G1119' => 'sbo', 'SalBow3G2005' => 'sbo', 'SalBow6G2563' => 'sbo', 'SalBow6G6386' => 'sbo', 'Sc06g0008800' => 'sci', 'Sc07g0004950' => 'sci', 'Sc09g0005340' => 'sci', 'Sc13g0004410' => 'sci', 'Sc21g0007090' => 'sci', 'Sed0009285' => 'sed', 'Sed0017583' => 'sed', 'Sed0019699' => 'sed', 'Sed0023107' => 'sed', 'SEGI_10916' => 'sgi', 'SEGI_16217' => 'sgi', 'SEGI_19466' => 'sgi', 'SEGI_41115' => 'sgi', 'SGA_v2.0_scaffold111G31534' => 'sas', 'SGA_v2.0_scaffold22G09864' => 'sas', 'SGA_v2.0_scaffold338G49219' => 'sas', 'SGA_v2.0_scaffold92G28298' => 'sas', 'SMO119G0064' => 'smo', 'SMO223G0038' => 'smo', 'SMO347G0584' => 'smo', 'SMO351G0010' => 'smo', 'SMO356G0404' => 'smo', 'Solyc01g103920.3' => 'sly', 'Solyc04g009710.2' => 'sly', 'Solyc05g055280.2' => 'sly', 'Solyc10g044520.3' => 'sly', 'Solyc10g075160.1' => 'sly', 'Solyc11g006910.3' => 'sly', 'Solyc11g068430.3' => 'sly', 'Sopen01g046310' => 'spe', 'Sopen03g001200' => 'spe', 'Sopen04g004830' => 'spe', 'Sopen05g033720' => 'spe', 'Sopen06g030740' => 'spe', 'Sopen10g013090' => 'spe', 'Sopen10g027630' => 'spe', 'Sopen10g027640' => 'spe', 'Sopen11g002820' => 'spe', 'Sopen11g027140' => 'spe', 'Sp1g09680' => 'spa', 'Sp2g03630' => 'spa', 'Sp4g10320' => 'spa', 'Sp6g33400' => 'spa', 'Sp7g13030' => 'spa', 'TAR365G0317' => 'tar', 'TAR376G0979' => 'tar', 'TAR623G1665' => 'tar', 'TAR633G2373' => 'tar', 'TAR636G1400' => 'tar', 'THA.LOC104800529' => 'tha', 'THA.LOC104808547' => 'tha', 'THA.LOC104809615' => 'tha', 'THA.LOC104815724' => 'tha', 'THA.LOC104818480' => 'tha', 'THA.LOC104819179' => 'tha', 'THA.LOC104822270' => 'tha', 'THA.LOC104826425' => 'tha', 'Thecc.02G089700' => 'tca', 'Thecc.04G232300' => 'tca', 'Thecc.09G283400' => 'tca', 'Thhalv10009020m.g' => 'esa', 'Thhalv10015506m.g' => 'esa', 'Thhalv10017364m.g' => 'esa', 'Thhalv10023742m.g' => 'esa', 'Thhalv10026483m.g' => 'esa', 'TPR.G17232' => 'tpr', 'TPR.G2133' => 'tpr', 'TPR.G2498' => 'tpr', 'TPR.G31942' => 'tpr', 'TPR.G37877' => 'tpr', 'TPR.G4571' => 'tpr', 'TWI14G1113' => 'twi', 'TWI15G0426' => 'twi', 'TWI31G1005' => 'twi', 'TWI38G0513' => 'twi', 'TWI38G1484' => 'twi', 'TWI73G1098' => 'twi', 'unitig_26.g10519' => 'ugi', 'unitig_736.g22395' => 'ugi', 'unitig_747.g21234' => 'ugi', 'unitig_747.g21942' => 'ugi', 'vmacro14351' => 'vma', 'VMungo0540G0082' => 'vmu', 'VMungo0540G0405' => 'vmu', 'VMungo0540G1486' => 'vmu', 'VMungo0540G1692' => 'vmu', 'VMungo0720G2473' => 'vmu', 'VMungo1127G1562' => 'vmu', 'VMungo1215G1918' => 'vmu', 'Zm00001eb052650' => 'zma', 'Zm00001eb063710' => 'zma', 'Zm00001eb083950' => 'zma', 'Zm00001eb174420' => 'zma', 'Zm00001eb260140' => 'zma', 'Zm00001eb260150' => 'zma', 'Zm00001eb260160' => 'zma', 'Zm00001eb348290' => 'zma', 'Zm00001eb366870' => 'zma', 'Zm00001eb421930' => 'zma' ), 'gf_id' => 'HOM05D001025', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001025' ), 'data_identifier' => 'HOM05D001025', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001025', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '592', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p22650' => 'bna', 'A01p29720' => 'bna', 'A03p26560' => 'bna', 'A03p68820' => 'bna', 'A04p20980' => 'bna', 'A06p07730' => 'bna', 'A07p18260' => 'bna', 'A08p33710' => 'bna', 'A09p16970' => 'bna', 'A10p27490' => 'bna', 'Aa31LG1G17300' => 'aar', 'Aa31LG1G3910' => 'aar', 'Aa31LG2G9630' => 'aar', 'Aa31LG5G8360' => 'aar', 'Aa31LG9G2410' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4699' => 'aag', 'Actinidia23512' => 'ach', 'Actinidia37080' => 'ach', 'Ah.01g020380' => 'amhyb', 'Ah.08g215710' => 'amhyb', 'Ah.09g225110' => 'amhyb', 'Ah.10g036680' => 'amhyb', 'AL1G21940' => 'aly', 'AL2G15540' => 'aly', 'AL4G21520' => 'aly', 'AL7G40960' => 'aly', 'Aqoxy2G01191' => 'aox', 'Aqoxy2G03393' => 'aox', 'Aqoxy4G02775' => 'aox', 'Aqoxy6G00058' => 'aox', 'arahy.Tifrunner.gnm1.ann1.9X74H2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CW3FX9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R485W7' => 'arhy', 'AT1G10960' => 'ath', 'AT1G60950' => 'ath', 'AT2G27510' => 'ath', 'AT4G14890' => 'ath', 'AT5G10000' => 'ath', 'ATR0665G624' => 'atr', 'ATR0697G138' => 'atr', 'ATR0776G046' => 'atr', 'ATR1134G135' => 'atr', 'Atru.chr12.1025' => 'acertr', 'Atru.chr3.3241' => 'acertr', 'Atru.chr4.2460' => 'acertr', 'AUR62007427' => 'cqu', 'AUR62010960' => 'cqu', 'AUR62012201' => 'cqu', 'AUR62021470' => 'cqu', 'AUR62022834' => 'cqu', 'AUR62033635' => 'cqu', 'AUR62036186' => 'cqu', 'BcaB01g03077' => 'bca', 'BcaB02g10093' => 'bca', 'BcaB04g20295' => 'bca', 'BcaB06g28147' => 'bca', 'BcaB07g31253' => 'bca', 'BcaC01g04946' => 'bca', 'BcaC02g10614' => 'bca', 'BcaC02g10885' => 'bca', 'BcaC04g19356' => 'bca', 'BcaC04g22297' => 'bca', 'BcaC05g24977' => 'bca', 'BcaC06g31823' => 'bca', 'BcaC07g38633' => 'bca', 'BcaC09g49353' => 'bca', 'BcaC09g50168' => 'bca', 'BcaNung00322' => 'bca', 'BcaNung04769' => 'bca', 'BolC1t02753H' => 'bol', 'BolC1t03721H' => 'bol', 'BolC3t15525H' => 'bol', 'BolC4t23903H' => 'bol', 'BolC4t24231H' => 'bol', 'BolC4t27209H' => 'bol', 'BolC5t29671H' => 'bol', 'BolC8t49044H' => 'bol', 'BolC9t54999H' => 'bol', 'BolC9t59517H' => 'bol', 'BraA01t02178Z' => 'bra', 'BraA01t03099Z' => 'bra', 'BraA03t11867Z' => 'bra', 'BraA04t17667Z' => 'bra', 'BraA07t29542Z' => 'bra', 'BraA08t35287Z' => 'bra', 'BraA09t37334Z' => 'bra', 'BraA10t44801Z' => 'bra', 'BraSC39t46181Z' => 'bra', 'C01p28240' => 'bna', 'C01p37530' => 'bna', 'C03p31820' => 'bna', 'C04p24080' => 'bna', 'C04p25790' => 'bna', 'C04p56770' => 'bna', 'C05p09310' => 'bna', 'C09p21010' => 'bna', 'C09p67560' => 'bna', 'CAN.G1324.7' => 'can', 'CAN.G1358.10' => 'can', 'CAN.G1550.2' => 'can', 'CAN.G186.56' => 'can', 'CAN.G1965.1' => 'can', 'CAN.G645.15' => 'can', 'CAN.G798.26' => 'can', 'CAN.G798.27' => 'can', 'CAN.G798.29' => 'can', 'CAN.G919.31' => 'can', 'CANSAT11G0133' => 'cansat', 'CANSAT11G1171' => 'cansat', 'CANSAT11G2056' => 'cansat', 'CANSAT56G1202' => 'cansat', 'CANSAT56G1514' => 'cansat', 'CANSAT78G0455' => 'cansat', 'CARHR011190' => 'chi', 'CARHR051980' => 'chi', 'CARHR120170' => 'chi', 'CARHR203310' => 'chi', 'CARHR221490' => 'chi', 'Carub.0001s1054' => 'cru', 'Carub.0002s0431' => 'cru', 'Carub.0004s0818' => 'cru', 'Carub.0006s0846' => 'cru', 'Carub.0007s2722' => 'cru', 'Ca_00058_v3' => 'car', 'Ca_17831_v3' => 'car', 'Ca_19408_v3' => 'car', 'Ca_24397_v3' => 'car', 'Ca_25664_v3' => 'car', 'CBR_g21818' => 'cbr', 'CBR_g31195' => 'cbr', 'CBR_g32282' => 'cbr', 'CBR_g39599' => 'cbr', 'CBR_g49410' => 'cbr', 'Cc01_g09120' => 'ccan', 'Cc01_g09130' => 'ccan', 'Cc02_g09630' => 'ccan', 'Cc02_g22810' => 'ccan', 'Cc03_g03810' => 'ccan', 'CDE02G3718' => 'cde', 'CDE04G3183' => 'cde', 'CDE07G1046' => 'cde', 'CDE08G0480' => 'cde', 'Cfa005493' => 'cfa', 'Cfa010312' => 'cfa', 'Cfa015648' => 'cfa', 'Ciclev10002793m.g' => 'ccl', 'Ciclev10003356m.g' => 'ccl', 'Ciclev10006141m.g' => 'ccl', 'Ciclev10016676m.g' => 'ccl', 'Ciclev10017081m.g' => 'ccl', 'Ciclev10029499m.g' => 'ccl', 'CiPaw.01G166300' => 'cil', 'CiPaw.06G145600' => 'cil', 'CiPaw.13G040100' => 'cil', 'CiPaw.13G135800' => 'cil', 'ClCG01G012230' => 'cla', 'ClCG05G009510' => 'cla', 'ClCG08G008270' => 'cla', 'COL.COLO4_11763' => 'col', 'COL.COLO4_19876' => 'col', 'COL.COLO4_21481' => 'col', 'Cpa.g.sc118.34' => 'cpa', 'Cpa.g.sc32.13' => 'cpa', 'Cpa.g.sc58.103' => 'cpa', 'Cre03.g183850' => 'cre', 'Cre06.g306350' => 'cre', 'Cre07.g334800' => 'cre', 'Cre12.g487900' => 'cre', 'Cre14.g626700' => 'cre', 'Cre16.g658400' => 'cre', 'Cre17.g700950' => 'cre', 'CsaV3_1G014830' => 'csa', 'CsaV3_3G013320' => 'csa', 'CsaV3_3G019210' => 'csa', 'CsaV3_3G019220' => 'csa', 'CsaV3_6G004230' => 'csa', 'CSS0003773' => 'camsi', 'CSS0004563' => 'camsi', 'CSS0013949' => 'camsi', 'CSS0025971' => 'camsi', 'CSS0028570' => 'camsi', 'CSS0033127' => 'camsi', 'CSS0036051' => 'camsi', 'CSS0040087' => 'camsi', 'CSS0043179' => 'camsi', 'DCAR_006161' => 'dca', 'DCAR_010351' => 'dca', 'DCAR_012197' => 'dca', 'DCAR_024162' => 'dca', 'Dinv01030' => 'din', 'Dinv10924' => 'din', 'Dinv11835' => 'din', 'Dinv22841' => 'din', 'Dinv42553' => 'din', 'Duzib052G0560' => 'dzi', 'Duzib132G0389' => 'dzi', 'Duzib150G1181' => 'dzi', 'Duzib168G0623' => 'dzi', 'Duzib170G1036' => 'dzi', 'Duzib212G0200' => 'dzi', 'Duzib248G0194' => 'dzi', 'ECA232G2193' => 'eca', 'ECA233G0302' => 'eca', 'ECA234G2813' => 'eca', 'ECA234G4866' => 'eca', 'ECA240G3932' => 'eca', 'ECA248G0385' => 'eca', 'EL10Ac2g04781' => 'bvu', 'EL10Ac3g06445' => 'bvu', 'EL10Ac7g15825' => 'bvu', 'EL10Ac8g18550' => 'bvu', 'Eucgr.B03849' => 'egr', 'Eucgr.I02744' => 'egr', 'Eucgr.J00264' => 'egr', 'Eucgr.J00493' => 'egr', 'FAN04G2181' => 'fan', 'FAN07G2666' => 'fan', 'FAN11G0024' => 'fan', 'FAN12G1105' => 'fan', 'FAN13G0302' => 'fan', 'FAN15G2781' => 'fan', 'FAN16G1274' => 'fan', 'FAN17G2988' => 'fan', 'FAN18G2621' => 'fan', 'FAN21G0013' => 'fan', 'FAN22G1211' => 'fan', 'FAN25G3626' => 'fan', 'FvH4_2g09491' => 'fve', 'FvH4_3g24910' => 'fve', 'FvH4_4g15630' => 'fve', 'FvH4_5g28820' => 'fve', 'Glyma.01G238000' => 'gma', 'Glyma.05G168400' => 'gma', 'Glyma.08G126800' => 'gma', 'Glyma.08G188500' => 'gma', 'Glyma.10G278900' => 'gma', 'Glyma.11G005700' => 'gma', 'Glyma.11G183300' => 'gma', 'Glyma.12G089200' => 'gma', 'Glyma.12G169400' => 'gma', 'Glyma.12G169500' => 'gma', 'Glyma.12G169600' => 'gma', 'Glyma.20G110800' => 'gma', 'Gohir.A03G192900' => 'ghi', 'Gohir.A03G193000' => 'ghi', 'Gohir.A05G080700' => 'ghi', 'Gohir.A09G216000' => 'ghi', 'Gohir.A12G027700' => 'ghi', 'Gohir.A13G036200' => 'ghi', 'Gohir.A13G222600' => 'ghi', 'Gohir.D02G213900' => 'ghi', 'Gohir.D02G214000' => 'ghi', 'Gohir.D05G083700' => 'ghi', 'Gohir.D05G083800' => 'ghi', 'Gohir.D05G083850' => 'ghi', 'Gohir.D08G015400' => 'ghi', 'Gohir.D09G218400' => 'ghi', 'Gohir.D12G027100' => 'ghi', 'Gohir.D13G034500' => 'ghi', 'Gohir.D13G227400' => 'ghi', 'Gorai.005G241800' => 'gra', 'Gorai.005G241900' => 'gra', 'Gorai.006G239400' => 'gra', 'Gorai.008G027600' => 'gra', 'Gorai.009G085400' => 'gra', 'Gorai.009G085500' => 'gra', 'Gorai.013G039000' => 'gra', 'Gorai.013G194800' => 'gra', 'Gorai.013G257900' => 'gra', 'GSVIVG01000982001' => 'vvi', 'GSVIVG01017981001' => 'vvi', 'HanXRQChr01g0024061' => 'han', 'HanXRQChr09g0247831' => 'han', 'HanXRQChr10g0294611' => 'han', 'HanXRQChr10g0294621' => 'han', 'HanXRQChr11g0346821' => 'han', 'HanXRQChr13g0397461' => 'han', 'HanXRQChr16g0513651' => 'han', 'HanXRQChr16g0513701' => 'han', 'Haze_00897' => 'cav', 'Haze_01745' => 'cav', 'Haze_02486' => 'cav', 'Haze_02487' => 'cav', 'Haze_23374' => 'cav', 'Hma1.2p1_0578F.1_g182520' => 'hma', 'Hma1.2p1_0602F.1_g187350' => 'hma', 'Hma1.2p1_0602F.1_g187360' => 'hma', 'Hma1.2p1_0874F.1_g231320' => 'hma', 'Hma1.2p1_1197F.1_g266210' => 'hma', 'Hma1.2p1_1197F.1_g266220' => 'hma', 'Hma1.2p1_2167F.1_g315895' => 'hma', 'Hma1.2p1_2190F.1_g316640' => 'hma', 'Hma1.2p1_3645F.1_g337153' => 'hma', 'HPP92_004907' => 'vpl', 'HPP92_012134' => 'vpl', 'HPP92_025136' => 'vpl', 'HPP92_026087' => 'vpl', 'Hund06782' => 'sun', 'Hund06784' => 'sun', 'Lalb_Chr01g0004861' => 'lal', 'Lalb_Chr02g0140591' => 'lal', 'Lalb_Chr02g0140611' => 'lal', 'Lalb_Chr03g0028101' => 'lal', 'Lalb_Chr07g0185791' => 'lal', 'Lalb_Chr12g0204491' => 'lal', 'Lalb_Chr13g0295671' => 'lal', 'Lalb_Chr19g0136461' => 'lal', 'Lalb_Chr21g0309191' => 'lal', 'Lj1g0028158' => 'lja', 'Lj1P236T38' => 'lonja', 'Lj2C32G2' => 'lonja', 'Lj2P944T8' => 'lonja', 'Lj2P963T15' => 'lonja', 'Lj3g0011788' => 'lja', 'Lj4g0025027' => 'lja', 'Lj5P255T36' => 'lonja', 'Lj6g0018866' => 'lja', 'Lj6P608T31' => 'lonja', 'LjContig00408g0008879' => 'lja', 'Lsat_1_v5_gn_5_105820' => 'lsa', 'Lsat_1_v5_gn_6_38800' => 'lsa', 'Lsat_1_v5_gn_7_67141' => 'lsa', 'Manes.04G003400' => 'mes', 'Manes.07G020000' => 'mes', 'Manes.07G020100' => 'mes', 'Manes.07G020150' => 'mes', 'Manes.10G061500' => 'mes', 'Manes.10G123200' => 'mes', 'Manes.11G161900' => 'mes', 'Manes.15G029300' => 'mes', 'Mapoly0071s0018' => 'mpo', 'Mapoly0082s0023' => 'mpo', 'Mapoly3477s0001' => 'mpo', 'MBI05_g31233_MAGBIO' => 'mbi', 'MBI09_g05946_MAGBIO' => 'mbi', 'MBI09_g05947_MAGBIO' => 'mbi', 'MBI17_g08346_MAGBIO' => 'mbi', 'MCO04G038' => 'mco', 'MCO09G370' => 'mco', 'MCO13G605' => 'mco', 'MD00G1075500' => 'mdo', 'MD03G1144300' => 'mdo', 'MD08G1236800' => 'mdo', 'MD13G1193300' => 'mdo', 'MD15G1428700' => 'mdo', 'Medtr1g112030' => 'mtr', 'Medtr1g112050' => 'mtr', 'Medtr2g006290' => 'mtr', 'Medtr2g086510' => 'mtr', 'Medtr4g053120' => 'mtr', 'Medtr5g006320' => 'mtr', 'Medtr8g088720' => 'mtr', 'MELO3C004712.2' => 'cme', 'MELO3C006533.2' => 'cme', 'MELO3C019438.2' => 'cme', 'MELO3C019440.2' => 'cme', 'MELO3C019441.2' => 'cme', 'MELO3C019895.2' => 'cme', 'Migut.B00811' => 'egut', 'Migut.D02447' => 'egut', 'Migut.F00875' => 'egut', 'Migut.N00186' => 'egut', 'Migut.N01051' => 'egut', 'Migut.N02491' => 'egut', 'Migut.O00784' => 'egut', 'MSTRG.12367' => 'ama', 'MSTRG.18756' => 'ama', 'MSTRG.21042' => 'ama', 'Nitab4.5_0000559g0040' => 'nta', 'Nitab4.5_0000667g0190' => 'nta', 'Nitab4.5_0000755g0160' => 'nta', 'Nitab4.5_0001216g0080' => 'nta', 'Nitab4.5_0004069g0040' => 'nta', 'Nitab4.5_0004129g0010' => 'nta', 'Nitab4.5_0005744g0030' => 'nta', 'Nitab4.5_0006996g0030' => 'nta', 'Nitab4.5_0008971g0040' => 'nta', 'Nitab4.5_0009769g0020' => 'nta', 'Nitab4.5_0009833g0010' => 'nta', 'Nitab4.5_0013140g0020' => 'nta', 'Nn003s41376' => 'nnu', 'Nn1g01857' => 'nnu', 'Nn1g03611' => 'nnu', 'Nn1g06853' => 'nnu', 'Nn3g18360' => 'nnu', 'Nn4g26328' => 'nnu', 'Nn5g27531' => 'nnu', 'Nn6g34899' => 'nnu', 'Nn7g36299' => 'nnu', 'Oeu021485.1' => 'oeu', 'Oeu022433.1' => 'oeu', 'Oeu032111.1' => 'oeu', 'Oeu051608.1' => 'oeu', 'Os01g0860601' => 'osa', 'Os03g0659200' => 'osa', 'Os03g0835900' => 'osa', 'Os04g0412200' => 'osa', 'Os05g0443500' => 'osa', 'Os07g0251500' => 'osa', 'Os08g0104600' => 'osa', 'Peaxi162Scf00003g00047' => 'pax', 'Peaxi162Scf00003g00052' => 'pax', 'Peaxi162Scf00003g00394' => 'pax', 'Peaxi162Scf00091g00621' => 'pax', 'Peaxi162Scf00152g00146' => 'pax', 'Peaxi162Scf00173g00025' => 'pax', 'Peaxi162Scf00195g00102' => 'pax', 'Peaxi162Scf00402g00013' => 'pax', 'Peaxi162Scf00519g00618' => 'pax', 'PGR004G2838' => 'pgr', 'PGR044G2275' => 'pgr', 'PGR102G1377' => 'pgr', 'PGR119G1245' => 'pgr', 'PGR142G4449' => 'pgr', 'PGSC0003DMG400004532' => 'stu', 'PGSC0003DMG400011950' => 'stu', 'PGSC0003DMG400023391' => 'stu', 'PGSC0003DMG400023985' => 'stu', 'PGSC0003DMG400026360' => 'stu', 'PGSC0003DMG400035711' => 'stu', 'PGSC0003DMG400037286' => 'stu', 'PGSC0003DMG402005881' => 'stu', 'Phvul.002G045400' => 'pvu', 'Phvul.006G216600' => 'pvu', 'Phvul.006G216700' => 'pvu', 'Phvul.006G216800' => 'pvu', 'Phvul.007G022500' => 'pvu', 'Phvul.011G094400' => 'pvu', 'Potri.001G470700' => 'ptr', 'Potri.003G015200' => 'ptr', 'Potri.004G202500' => 'ptr', 'Potri.004G218400' => 'ptr', 'Potri.008G020100' => 'ptr', 'Potri.008G153200' => 'ptr', 'Potri.009G163800' => 'ptr', 'Potri.010G087300' => 'ptr', 'Potri.010G239100' => 'ptr', 'Pp3c10_16100' => 'ppa', 'Pp3c10_16880' => 'ppa', 'Pp3c16_6230' => 'ppa', 'Pp3c17_18910' => 'ppa', 'Pp3c3_22119' => 'ppa', 'Pp3c3_22140' => 'ppa', 'Pp3c4_8159' => 'ppa', 'Pp3c4_8171' => 'ppa', 'Pp3c4_8330' => 'ppa', 'PRCOL_00004098' => 'pco', 'Prupe.1G013900' => 'ppe', 'Prupe.1G226300' => 'ppe', 'Prupe.1G573600' => 'ppe', 'Prupe.6G130100' => 'ppe', 'Psat3g090040' => 'psa', 'Psat4g210440' => 'psa', 'Psat6g231040' => 'psa', 'Psat6g231080' => 'psa', 'Psat7g063000' => 'psa', 'Psat7g188000' => 'psa', 'Psat7g188040' => 'psa', 'PSO017G0206' => 'pso', 'PSO170G0501' => 'pso', 'PSO170G6422' => 'pso', 'PSO210G7739' => 'pso', 'PSO339G1808' => 'pso', 'PSO339G6135' => 'pso', 'PSO384G0010' => 'pso', 'PSO384G0964' => 'pso', 'PSO761G0050' => 'pso', 'PSO782G4085' => 'pso', 'QL01p012264' => 'qlo', 'QL02p099491' => 'qlo', 'QL03p033868' => 'qlo', 'QL04p046678' => 'qlo', 'QL06p002448' => 'qlo', 'RcHm_v2.0_Chr4g0416181' => 'rch', 'RcHm_v2.0_Chr5g0044701' => 'rch', 'RcHm_v2.0_Chr6g0265781' => 'rch', 'RcHm_v2.0_Chr7g0221031' => 'rch', 'Rhsim04G0202000' => 'rsi', 'Rhsim11G0127300' => 'rsi', 'Rhsim13G0111800' => 'rsi', 'Sabra01G0165600' => 'sbr', 'Sabra03G0008300' => 'sbr', 'Sabra04G0136900' => 'sbr', 'Sabra08G0013400' => 'sbr', 'Sabra08G0116800' => 'sbr', 'Sabra09G0128000' => 'sbr', 'Sabra10G0055500' => 'sbr', 'Sabra10G0073300' => 'sbr', 'SalBow3G0385' => 'sbo', 'SalBow3G1119' => 'sbo', 'SalBow3G2005' => 'sbo', 'SalBow6G2563' => 'sbo', 'SalBow6G6386' => 'sbo', 'Sc06g0008800' => 'sci', 'Sc07g0004950' => 'sci', 'Sc09g0005340' => 'sci', 'Sc13g0004410' => 'sci', 'Sc21g0007090' => 'sci', 'Sed0009285' => 'sed', 'Sed0017583' => 'sed', 'Sed0019699' => 'sed', 'Sed0023107' => 'sed', 'SEGI_10916' => 'sgi', 'SEGI_16217' => 'sgi', 'SEGI_19466' => 'sgi', 'SEGI_41115' => 'sgi', 'SGA_v2.0_scaffold111G31534' => 'sas', 'SGA_v2.0_scaffold22G09864' => 'sas', 'SGA_v2.0_scaffold338G49219' => 'sas', 'SGA_v2.0_scaffold92G28298' => 'sas', 'SMO119G0064' => 'smo', 'SMO223G0038' => 'smo', 'SMO347G0584' => 'smo', 'SMO351G0010' => 'smo', 'SMO356G0404' => 'smo', 'Solyc01g103920.3' => 'sly', 'Solyc04g009710.2' => 'sly', 'Solyc05g055280.2' => 'sly', 'Solyc10g044520.3' => 'sly', 'Solyc10g075160.1' => 'sly', 'Solyc11g006910.3' => 'sly', 'Solyc11g068430.3' => 'sly', 'Sopen01g046310' => 'spe', 'Sopen03g001200' => 'spe', 'Sopen04g004830' => 'spe', 'Sopen05g033720' => 'spe', 'Sopen06g030740' => 'spe', 'Sopen10g013090' => 'spe', 'Sopen10g027630' => 'spe', 'Sopen10g027640' => 'spe', 'Sopen11g002820' => 'spe', 'Sopen11g027140' => 'spe', 'Sp1g09680' => 'spa', 'Sp2g03630' => 'spa', 'Sp4g10320' => 'spa', 'Sp6g33400' => 'spa', 'Sp7g13030' => 'spa', 'TAR365G0317' => 'tar', 'TAR376G0979' => 'tar', 'TAR623G1665' => 'tar', 'TAR633G2373' => 'tar', 'TAR636G1400' => 'tar', 'THA.LOC104800529' => 'tha', 'THA.LOC104808547' => 'tha', 'THA.LOC104809615' => 'tha', 'THA.LOC104815724' => 'tha', 'THA.LOC104818480' => 'tha', 'THA.LOC104819179' => 'tha', 'THA.LOC104822270' => 'tha', 'THA.LOC104826425' => 'tha', 'Thecc.02G089700' => 'tca', 'Thecc.04G232300' => 'tca', 'Thecc.09G283400' => 'tca', 'Thhalv10009020m.g' => 'esa', 'Thhalv10015506m.g' => 'esa', 'Thhalv10017364m.g' => 'esa', 'Thhalv10023742m.g' => 'esa', 'Thhalv10026483m.g' => 'esa', 'TPR.G17232' => 'tpr', 'TPR.G2133' => 'tpr', 'TPR.G2498' => 'tpr', 'TPR.G31942' => 'tpr', 'TPR.G37877' => 'tpr', 'TPR.G4571' => 'tpr', 'TWI14G1113' => 'twi', 'TWI15G0426' => 'twi', 'TWI31G1005' => 'twi', 'TWI38G0513' => 'twi', 'TWI38G1484' => 'twi', 'TWI73G1098' => 'twi', 'unitig_26.g10519' => 'ugi', 'unitig_736.g22395' => 'ugi', 'unitig_747.g21234' => 'ugi', 'unitig_747.g21942' => 'ugi', 'vmacro14351' => 'vma', 'VMungo0540G0082' => 'vmu', 'VMungo0540G0405' => 'vmu', 'VMungo0540G1486' => 'vmu', 'VMungo0540G1692' => 'vmu', 'VMungo0720G2473' => 'vmu', 'VMungo1127G1562' => 'vmu', 'VMungo1215G1918' => 'vmu', 'Zm00001eb052650' => 'zma', 'Zm00001eb063710' => 'zma', 'Zm00001eb083950' => 'zma', 'Zm00001eb174420' => 'zma', 'Zm00001eb260140' => 'zma', 'Zm00001eb260150' => 'zma', 'Zm00001eb260160' => 'zma', 'Zm00001eb348290' => 'zma', 'Zm00001eb366870' => 'zma', 'Zm00001eb421930' => 'zma' ) $gf_id = 'HOM05D001025' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001025' ) $data_identifier = 'HOM05D001025' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 19, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 2, 'amhyb' => (int) 4, 'aly' => (int) 4, 'aox' => (int) 4, 'arhy' => (int) 3, 'ath' => (int) 5, 'atr' => (int) 4, 'acertr' => (int) 3, 'cqu' => (int) 7, 'bca' => (int) 17, 'bol' => (int) 10, 'bra' => (int) 9, 'can' => (int) 10, 'cansat' => (int) 6, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 5, 'cbr' => (int) 5, 'ccan' => (int) 5, 'cde' => (int) 4, 'cfa' => (int) 3, 'ccl' => (int) 6, 'cil' => (int) 4, 'cla' => (int) 3, 'col' => (int) 3, 'cpa' => (int) 3, 'cre' => (int) 7, 'csa' => (int) 5, 'camsi' => (int) 9, 'dca' => (int) 4, 'din' => (int) 5, 'dzi' => (int) 7, 'eca' => (int) 6, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 12, 'fve' => (int) 4, 'gma' => (int) 12, 'ghi' => (int) 17, 'gra' => (int) 9, 'vvi' => (int) 2, 'han' => (int) 8, 'cav' => (int) 5, 'hma' => (int) 9, 'vpl' => (int) 4, 'sun' => (int) 2, 'lal' => (int) 9, 'lja' => (int) 5, 'lonja' => (int) 6, 'lsa' => (int) 3, 'mes' => (int) 8, 'mpo' => (int) 3, 'mbi' => (int) 4, 'mco' => (int) 3, 'mdo' => (int) 5, 'mtr' => (int) 7, 'cme' => (int) 6, 'egut' => (int) 7, 'ama' => (int) 3, 'nta' => (int) 12, 'nnu' => (int) 9, 'oeu' => (int) 4, 'osa' => (int) 7, 'pax' => (int) 9, 'pgr' => (int) 5, 'stu' => (int) 8, 'pvu' => (int) 6, 'ptr' => (int) 9, 'ppa' => (int) 9, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 7, 'pso' => (int) 10, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 3, 'sbr' => (int) 8, 'sbo' => (int) 5, 'sci' => (int) 5, 'sed' => (int) 4, 'sgi' => (int) 4, 'sas' => (int) 4, 'smo' => (int) 5, 'sly' => (int) 7, 'spe' => (int) 10, 'spa' => (int) 5, 'tar' => (int) 5, 'tha' => (int) 8, 'tca' => (int) 3, 'esa' => (int) 5, 'tpr' => (int) 6, 'twi' => (int) 6, 'ugi' => (int) 4, 'vma' => (int) 1, 'vmu' => (int) 7, 'zma' => (int) 10 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb421930' $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' => 'HOM05D001025', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '592', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p22650' => 'bna', 'A01p29720' => 'bna', 'A03p26560' => 'bna', 'A03p68820' => 'bna', 'A04p20980' => 'bna', 'A06p07730' => 'bna', 'A07p18260' => 'bna', 'A08p33710' => 'bna', 'A09p16970' => 'bna', 'A10p27490' => 'bna', 'Aa31LG1G17300' => 'aar', 'Aa31LG1G3910' => 'aar', 'Aa31LG2G9630' => 'aar', 'Aa31LG5G8360' => 'aar', 'Aa31LG9G2410' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4699' => 'aag', 'Actinidia23512' => 'ach', 'Actinidia37080' => 'ach', 'Ah.01g020380' => 'amhyb', 'Ah.08g215710' => 'amhyb', 'Ah.09g225110' => 'amhyb', 'Ah.10g036680' => 'amhyb', 'AL1G21940' => 'aly', 'AL2G15540' => 'aly', 'AL4G21520' => 'aly', 'AL7G40960' => 'aly', 'Aqoxy2G01191' => 'aox', 'Aqoxy2G03393' => 'aox', 'Aqoxy4G02775' => 'aox', 'Aqoxy6G00058' => 'aox', 'arahy.Tifrunner.gnm1.ann1.9X74H2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CW3FX9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R485W7' => 'arhy', 'AT1G10960' => 'ath', 'AT1G60950' => 'ath', 'AT2G27510' => 'ath', 'AT4G14890' => 'ath', 'AT5G10000' => 'ath', 'ATR0665G624' => 'atr', 'ATR0697G138' => 'atr', 'ATR0776G046' => 'atr', 'ATR1134G135' => 'atr', 'Atru.chr12.1025' => 'acertr', 'Atru.chr3.3241' => 'acertr', 'Atru.chr4.2460' => 'acertr', 'AUR62007427' => 'cqu', 'AUR62010960' => 'cqu', 'AUR62012201' => 'cqu', 'AUR62021470' => 'cqu', 'AUR62022834' => 'cqu', 'AUR62033635' => 'cqu', 'AUR62036186' => 'cqu', 'BcaB01g03077' => 'bca', 'BcaB02g10093' => 'bca', 'BcaB04g20295' => 'bca', 'BcaB06g28147' => 'bca', 'BcaB07g31253' => 'bca', 'BcaC01g04946' => 'bca', 'BcaC02g10614' => 'bca', 'BcaC02g10885' => 'bca', 'BcaC04g19356' => 'bca', 'BcaC04g22297' => 'bca', 'BcaC05g24977' => 'bca', 'BcaC06g31823' => 'bca', 'BcaC07g38633' => 'bca', 'BcaC09g49353' => 'bca', 'BcaC09g50168' => 'bca', 'BcaNung00322' => 'bca', 'BcaNung04769' => 'bca', 'BolC1t02753H' => 'bol', 'BolC1t03721H' => 'bol', 'BolC3t15525H' => 'bol', 'BolC4t23903H' => 'bol', 'BolC4t24231H' => 'bol', 'BolC4t27209H' => 'bol', 'BolC5t29671H' => 'bol', 'BolC8t49044H' => 'bol', 'BolC9t54999H' => 'bol', 'BolC9t59517H' => 'bol', 'BraA01t02178Z' => 'bra', 'BraA01t03099Z' => 'bra', 'BraA03t11867Z' => 'bra', 'BraA04t17667Z' => 'bra', 'BraA07t29542Z' => 'bra', 'BraA08t35287Z' => 'bra', 'BraA09t37334Z' => 'bra', 'BraA10t44801Z' => 'bra', 'BraSC39t46181Z' => 'bra', 'C01p28240' => 'bna', 'C01p37530' => 'bna', 'C03p31820' => 'bna', 'C04p24080' => 'bna', 'C04p25790' => 'bna', 'C04p56770' => 'bna', 'C05p09310' => 'bna', 'C09p21010' => 'bna', 'C09p67560' => 'bna', 'CAN.G1324.7' => 'can', 'CAN.G1358.10' => 'can', 'CAN.G1550.2' => 'can', 'CAN.G186.56' => 'can', 'CAN.G1965.1' => 'can', 'CAN.G645.15' => 'can', 'CAN.G798.26' => 'can', 'CAN.G798.27' => 'can', 'CAN.G798.29' => 'can', 'CAN.G919.31' => 'can', 'CANSAT11G0133' => 'cansat', 'CANSAT11G1171' => 'cansat', 'CANSAT11G2056' => 'cansat', 'CANSAT56G1202' => 'cansat', 'CANSAT56G1514' => 'cansat', 'CANSAT78G0455' => 'cansat', 'CARHR011190' => 'chi', 'CARHR051980' => 'chi', 'CARHR120170' => 'chi', 'CARHR203310' => 'chi', 'CARHR221490' => 'chi', 'Carub.0001s1054' => 'cru', 'Carub.0002s0431' => 'cru', 'Carub.0004s0818' => 'cru', 'Carub.0006s0846' => 'cru', 'Carub.0007s2722' => 'cru', 'Ca_00058_v3' => 'car', 'Ca_17831_v3' => 'car', 'Ca_19408_v3' => 'car', 'Ca_24397_v3' => 'car', 'Ca_25664_v3' => 'car', 'CBR_g21818' => 'cbr', 'CBR_g31195' => 'cbr', 'CBR_g32282' => 'cbr', 'CBR_g39599' => 'cbr', 'CBR_g49410' => 'cbr', 'Cc01_g09120' => 'ccan', 'Cc01_g09130' => 'ccan', 'Cc02_g09630' => 'ccan', 'Cc02_g22810' => 'ccan', 'Cc03_g03810' => 'ccan', 'CDE02G3718' => 'cde', 'CDE04G3183' => 'cde', 'CDE07G1046' => 'cde', 'CDE08G0480' => 'cde', 'Cfa005493' => 'cfa', 'Cfa010312' => 'cfa', 'Cfa015648' => 'cfa', 'Ciclev10002793m.g' => 'ccl', 'Ciclev10003356m.g' => 'ccl', 'Ciclev10006141m.g' => 'ccl', 'Ciclev10016676m.g' => 'ccl', 'Ciclev10017081m.g' => 'ccl', 'Ciclev10029499m.g' => 'ccl', 'CiPaw.01G166300' => 'cil', 'CiPaw.06G145600' => 'cil', 'CiPaw.13G040100' => 'cil', 'CiPaw.13G135800' => 'cil', 'ClCG01G012230' => 'cla', 'ClCG05G009510' => 'cla', 'ClCG08G008270' => 'cla', 'COL.COLO4_11763' => 'col', 'COL.COLO4_19876' => 'col', 'COL.COLO4_21481' => 'col', 'Cpa.g.sc118.34' => 'cpa', 'Cpa.g.sc32.13' => 'cpa', 'Cpa.g.sc58.103' => 'cpa', 'Cre03.g183850' => 'cre', 'Cre06.g306350' => 'cre', 'Cre07.g334800' => 'cre', 'Cre12.g487900' => 'cre', 'Cre14.g626700' => 'cre', 'Cre16.g658400' => 'cre', 'Cre17.g700950' => 'cre', 'CsaV3_1G014830' => 'csa', 'CsaV3_3G013320' => 'csa', 'CsaV3_3G019210' => 'csa', 'CsaV3_3G019220' => 'csa', 'CsaV3_6G004230' => 'csa', 'CSS0003773' => 'camsi', 'CSS0004563' => 'camsi', 'CSS0013949' => 'camsi', 'CSS0025971' => 'camsi', 'CSS0028570' => 'camsi', 'CSS0033127' => 'camsi', 'CSS0036051' => 'camsi', 'CSS0040087' => 'camsi', 'CSS0043179' => 'camsi', 'DCAR_006161' => 'dca', 'DCAR_010351' => 'dca', 'DCAR_012197' => 'dca', 'DCAR_024162' => 'dca', 'Dinv01030' => 'din', 'Dinv10924' => 'din', 'Dinv11835' => 'din', 'Dinv22841' => 'din', 'Dinv42553' => 'din', 'Duzib052G0560' => 'dzi', 'Duzib132G0389' => 'dzi', 'Duzib150G1181' => 'dzi', 'Duzib168G0623' => 'dzi', 'Duzib170G1036' => 'dzi', 'Duzib212G0200' => 'dzi', 'Duzib248G0194' => 'dzi', 'ECA232G2193' => 'eca', 'ECA233G0302' => 'eca', 'ECA234G2813' => 'eca', 'ECA234G4866' => 'eca', 'ECA240G3932' => 'eca', 'ECA248G0385' => 'eca', 'EL10Ac2g04781' => 'bvu', 'EL10Ac3g06445' => 'bvu', 'EL10Ac7g15825' => 'bvu', 'EL10Ac8g18550' => 'bvu', 'Eucgr.B03849' => 'egr', 'Eucgr.I02744' => 'egr', 'Eucgr.J00264' => 'egr', 'Eucgr.J00493' => 'egr', 'FAN04G2181' => 'fan', 'FAN07G2666' => 'fan', 'FAN11G0024' => 'fan', 'FAN12G1105' => 'fan', 'FAN13G0302' => 'fan', 'FAN15G2781' => 'fan', 'FAN16G1274' => 'fan', 'FAN17G2988' => 'fan', 'FAN18G2621' => 'fan', 'FAN21G0013' => 'fan', 'FAN22G1211' => 'fan', 'FAN25G3626' => 'fan', 'FvH4_2g09491' => 'fve', 'FvH4_3g24910' => 'fve', 'FvH4_4g15630' => 'fve', 'FvH4_5g28820' => 'fve', 'Glyma.01G238000' => 'gma', 'Glyma.05G168400' => 'gma', 'Glyma.08G126800' => 'gma', 'Glyma.08G188500' => 'gma', 'Glyma.10G278900' => 'gma', 'Glyma.11G005700' => 'gma', 'Glyma.11G183300' => 'gma', 'Glyma.12G089200' => 'gma', 'Glyma.12G169400' => 'gma', 'Glyma.12G169500' => 'gma', 'Glyma.12G169600' => 'gma', 'Glyma.20G110800' => 'gma', 'Gohir.A03G192900' => 'ghi', 'Gohir.A03G193000' => 'ghi', 'Gohir.A05G080700' => 'ghi', 'Gohir.A09G216000' => 'ghi', 'Gohir.A12G027700' => 'ghi', 'Gohir.A13G036200' => 'ghi', 'Gohir.A13G222600' => 'ghi', 'Gohir.D02G213900' => 'ghi', 'Gohir.D02G214000' => 'ghi', 'Gohir.D05G083700' => 'ghi', 'Gohir.D05G083800' => 'ghi', 'Gohir.D05G083850' => 'ghi', 'Gohir.D08G015400' => 'ghi', 'Gohir.D09G218400' => 'ghi', 'Gohir.D12G027100' => 'ghi', 'Gohir.D13G034500' => 'ghi', 'Gohir.D13G227400' => 'ghi', 'Gorai.005G241800' => 'gra', 'Gorai.005G241900' => 'gra', 'Gorai.006G239400' => 'gra', 'Gorai.008G027600' => 'gra', 'Gorai.009G085400' => 'gra', 'Gorai.009G085500' => 'gra', 'Gorai.013G039000' => 'gra', 'Gorai.013G194800' => 'gra', 'Gorai.013G257900' => 'gra', 'GSVIVG01000982001' => 'vvi', 'GSVIVG01017981001' => 'vvi', 'HanXRQChr01g0024061' => 'han', 'HanXRQChr09g0247831' => 'han', 'HanXRQChr10g0294611' => 'han', 'HanXRQChr10g0294621' => 'han', 'HanXRQChr11g0346821' => 'han', 'HanXRQChr13g0397461' => 'han', 'HanXRQChr16g0513651' => 'han', 'HanXRQChr16g0513701' => 'han', 'Haze_00897' => 'cav', 'Haze_01745' => 'cav', 'Haze_02486' => 'cav', 'Haze_02487' => 'cav', 'Haze_23374' => 'cav', 'Hma1.2p1_0578F.1_g182520' => 'hma', 'Hma1.2p1_0602F.1_g187350' => 'hma', 'Hma1.2p1_0602F.1_g187360' => 'hma', 'Hma1.2p1_0874F.1_g231320' => 'hma', 'Hma1.2p1_1197F.1_g266210' => 'hma', 'Hma1.2p1_1197F.1_g266220' => 'hma', 'Hma1.2p1_2167F.1_g315895' => 'hma', 'Hma1.2p1_2190F.1_g316640' => 'hma', 'Hma1.2p1_3645F.1_g337153' => 'hma', 'HPP92_004907' => 'vpl', 'HPP92_012134' => 'vpl', 'HPP92_025136' => 'vpl', 'HPP92_026087' => 'vpl', 'Hund06782' => 'sun', 'Hund06784' => 'sun', 'Lalb_Chr01g0004861' => 'lal', 'Lalb_Chr02g0140591' => 'lal', 'Lalb_Chr02g0140611' => 'lal', 'Lalb_Chr03g0028101' => 'lal', 'Lalb_Chr07g0185791' => 'lal', 'Lalb_Chr12g0204491' => 'lal', 'Lalb_Chr13g0295671' => 'lal', 'Lalb_Chr19g0136461' => 'lal', 'Lalb_Chr21g0309191' => 'lal', 'Lj1g0028158' => 'lja', 'Lj1P236T38' => 'lonja', 'Lj2C32G2' => 'lonja', 'Lj2P944T8' => 'lonja', 'Lj2P963T15' => 'lonja', 'Lj3g0011788' => 'lja', 'Lj4g0025027' => 'lja', 'Lj5P255T36' => 'lonja', 'Lj6g0018866' => 'lja', 'Lj6P608T31' => 'lonja', 'LjContig00408g0008879' => 'lja', 'Lsat_1_v5_gn_5_105820' => 'lsa', 'Lsat_1_v5_gn_6_38800' => 'lsa', 'Lsat_1_v5_gn_7_67141' => 'lsa', 'Manes.04G003400' => 'mes', 'Manes.07G020000' => 'mes', 'Manes.07G020100' => 'mes', 'Manes.07G020150' => 'mes', 'Manes.10G061500' => 'mes', 'Manes.10G123200' => 'mes', 'Manes.11G161900' => 'mes', 'Manes.15G029300' => 'mes', 'Mapoly0071s0018' => 'mpo', 'Mapoly0082s0023' => 'mpo', 'Mapoly3477s0001' => 'mpo', 'MBI05_g31233_MAGBIO' => 'mbi', 'MBI09_g05946_MAGBIO' => 'mbi', 'MBI09_g05947_MAGBIO' => 'mbi', 'MBI17_g08346_MAGBIO' => 'mbi', 'MCO04G038' => 'mco', 'MCO09G370' => 'mco', 'MCO13G605' => 'mco', 'MD00G1075500' => 'mdo', 'MD03G1144300' => 'mdo', 'MD08G1236800' => 'mdo', 'MD13G1193300' => 'mdo', 'MD15G1428700' => 'mdo', 'Medtr1g112030' => 'mtr', 'Medtr1g112050' => 'mtr', 'Medtr2g006290' => 'mtr', 'Medtr2g086510' => 'mtr', 'Medtr4g053120' => 'mtr', 'Medtr5g006320' => 'mtr', 'Medtr8g088720' => 'mtr', 'MELO3C004712.2' => 'cme', 'MELO3C006533.2' => 'cme', 'MELO3C019438.2' => 'cme', 'MELO3C019440.2' => 'cme', 'MELO3C019441.2' => 'cme', 'MELO3C019895.2' => 'cme', 'Migut.B00811' => 'egut', 'Migut.D02447' => 'egut', 'Migut.F00875' => 'egut', 'Migut.N00186' => 'egut', 'Migut.N01051' => 'egut', 'Migut.N02491' => 'egut', 'Migut.O00784' => 'egut', 'MSTRG.12367' => 'ama', 'MSTRG.18756' => 'ama', 'MSTRG.21042' => 'ama', 'Nitab4.5_0000559g0040' => 'nta', 'Nitab4.5_0000667g0190' => 'nta', 'Nitab4.5_0000755g0160' => 'nta', 'Nitab4.5_0001216g0080' => 'nta', 'Nitab4.5_0004069g0040' => 'nta', 'Nitab4.5_0004129g0010' => 'nta', 'Nitab4.5_0005744g0030' => 'nta', 'Nitab4.5_0006996g0030' => 'nta', 'Nitab4.5_0008971g0040' => 'nta', 'Nitab4.5_0009769g0020' => 'nta', 'Nitab4.5_0009833g0010' => 'nta', 'Nitab4.5_0013140g0020' => 'nta', 'Nn003s41376' => 'nnu', 'Nn1g01857' => 'nnu', 'Nn1g03611' => 'nnu', 'Nn1g06853' => 'nnu', 'Nn3g18360' => 'nnu', 'Nn4g26328' => 'nnu', 'Nn5g27531' => 'nnu', 'Nn6g34899' => 'nnu', 'Nn7g36299' => 'nnu', 'Oeu021485.1' => 'oeu', 'Oeu022433.1' => 'oeu', 'Oeu032111.1' => 'oeu', 'Oeu051608.1' => 'oeu', 'Os01g0860601' => 'osa', 'Os03g0659200' => 'osa', 'Os03g0835900' => 'osa', 'Os04g0412200' => 'osa', 'Os05g0443500' => 'osa', 'Os07g0251500' => 'osa', 'Os08g0104600' => 'osa', 'Peaxi162Scf00003g00047' => 'pax', 'Peaxi162Scf00003g00052' => 'pax', 'Peaxi162Scf00003g00394' => 'pax', 'Peaxi162Scf00091g00621' => 'pax', 'Peaxi162Scf00152g00146' => 'pax', 'Peaxi162Scf00173g00025' => 'pax', 'Peaxi162Scf00195g00102' => 'pax', 'Peaxi162Scf00402g00013' => 'pax', 'Peaxi162Scf00519g00618' => 'pax', 'PGR004G2838' => 'pgr', 'PGR044G2275' => 'pgr', 'PGR102G1377' => 'pgr', 'PGR119G1245' => 'pgr', 'PGR142G4449' => 'pgr', 'PGSC0003DMG400004532' => 'stu', 'PGSC0003DMG400011950' => 'stu', 'PGSC0003DMG400023391' => 'stu', 'PGSC0003DMG400023985' => 'stu', 'PGSC0003DMG400026360' => 'stu', 'PGSC0003DMG400035711' => 'stu', 'PGSC0003DMG400037286' => 'stu', 'PGSC0003DMG402005881' => 'stu', 'Phvul.002G045400' => 'pvu', 'Phvul.006G216600' => 'pvu', 'Phvul.006G216700' => 'pvu', 'Phvul.006G216800' => 'pvu', 'Phvul.007G022500' => 'pvu', 'Phvul.011G094400' => 'pvu', 'Potri.001G470700' => 'ptr', 'Potri.003G015200' => 'ptr', 'Potri.004G202500' => 'ptr', 'Potri.004G218400' => 'ptr', 'Potri.008G020100' => 'ptr', 'Potri.008G153200' => 'ptr', 'Potri.009G163800' => 'ptr', 'Potri.010G087300' => 'ptr', 'Potri.010G239100' => 'ptr', 'Pp3c10_16100' => 'ppa', 'Pp3c10_16880' => 'ppa', 'Pp3c16_6230' => 'ppa', 'Pp3c17_18910' => 'ppa', 'Pp3c3_22119' => 'ppa', 'Pp3c3_22140' => 'ppa', 'Pp3c4_8159' => 'ppa', 'Pp3c4_8171' => 'ppa', 'Pp3c4_8330' => 'ppa', 'PRCOL_00004098' => 'pco', 'Prupe.1G013900' => 'ppe', 'Prupe.1G226300' => 'ppe', 'Prupe.1G573600' => 'ppe', 'Prupe.6G130100' => 'ppe', 'Psat3g090040' => 'psa', 'Psat4g210440' => 'psa', 'Psat6g231040' => 'psa', 'Psat6g231080' => 'psa', 'Psat7g063000' => 'psa', 'Psat7g188000' => 'psa', 'Psat7g188040' => 'psa', 'PSO017G0206' => 'pso', 'PSO170G0501' => 'pso', 'PSO170G6422' => 'pso', 'PSO210G7739' => 'pso', 'PSO339G1808' => 'pso', 'PSO339G6135' => 'pso', 'PSO384G0010' => 'pso', 'PSO384G0964' => 'pso', 'PSO761G0050' => 'pso', 'PSO782G4085' => 'pso', 'QL01p012264' => 'qlo', 'QL02p099491' => 'qlo', 'QL03p033868' => 'qlo', 'QL04p046678' => 'qlo', 'QL06p002448' => 'qlo', 'RcHm_v2.0_Chr4g0416181' => 'rch', 'RcHm_v2.0_Chr5g0044701' => 'rch', 'RcHm_v2.0_Chr6g0265781' => 'rch', 'RcHm_v2.0_Chr7g0221031' => 'rch', 'Rhsim04G0202000' => 'rsi', 'Rhsim11G0127300' => 'rsi', 'Rhsim13G0111800' => 'rsi', 'Sabra01G0165600' => 'sbr', 'Sabra03G0008300' => 'sbr', 'Sabra04G0136900' => 'sbr', 'Sabra08G0013400' => 'sbr', 'Sabra08G0116800' => 'sbr', 'Sabra09G0128000' => 'sbr', 'Sabra10G0055500' => 'sbr', 'Sabra10G0073300' => 'sbr', 'SalBow3G0385' => 'sbo', 'SalBow3G1119' => 'sbo', 'SalBow3G2005' => 'sbo', 'SalBow6G2563' => 'sbo', 'SalBow6G6386' => 'sbo', 'Sc06g0008800' => 'sci', 'Sc07g0004950' => 'sci', 'Sc09g0005340' => 'sci', 'Sc13g0004410' => 'sci', 'Sc21g0007090' => 'sci', 'Sed0009285' => 'sed', 'Sed0017583' => 'sed', 'Sed0019699' => 'sed', 'Sed0023107' => 'sed', 'SEGI_10916' => 'sgi', 'SEGI_16217' => 'sgi', 'SEGI_19466' => 'sgi', 'SEGI_41115' => 'sgi', 'SGA_v2.0_scaffold111G31534' => 'sas', 'SGA_v2.0_scaffold22G09864' => 'sas', 'SGA_v2.0_scaffold338G49219' => 'sas', 'SGA_v2.0_scaffold92G28298' => 'sas', 'SMO119G0064' => 'smo', 'SMO223G0038' => 'smo', 'SMO347G0584' => 'smo', 'SMO351G0010' => 'smo', 'SMO356G0404' => 'smo', 'Solyc01g103920.3' => 'sly', 'Solyc04g009710.2' => 'sly', 'Solyc05g055280.2' => 'sly', 'Solyc10g044520.3' => 'sly', 'Solyc10g075160.1' => 'sly', 'Solyc11g006910.3' => 'sly', 'Solyc11g068430.3' => 'sly', 'Sopen01g046310' => 'spe', 'Sopen03g001200' => 'spe', 'Sopen04g004830' => 'spe', 'Sopen05g033720' => 'spe', 'Sopen06g030740' => 'spe', 'Sopen10g013090' => 'spe', 'Sopen10g027630' => 'spe', 'Sopen10g027640' => 'spe', 'Sopen11g002820' => 'spe', 'Sopen11g027140' => 'spe', 'Sp1g09680' => 'spa', 'Sp2g03630' => 'spa', 'Sp4g10320' => 'spa', 'Sp6g33400' => 'spa', 'Sp7g13030' => 'spa', 'TAR365G0317' => 'tar', 'TAR376G0979' => 'tar', 'TAR623G1665' => 'tar', 'TAR633G2373' => 'tar', 'TAR636G1400' => 'tar', 'THA.LOC104800529' => 'tha', 'THA.LOC104808547' => 'tha', 'THA.LOC104809615' => 'tha', 'THA.LOC104815724' => 'tha', 'THA.LOC104818480' => 'tha', 'THA.LOC104819179' => 'tha', 'THA.LOC104822270' => 'tha', 'THA.LOC104826425' => 'tha', 'Thecc.02G089700' => 'tca', 'Thecc.04G232300' => 'tca', 'Thecc.09G283400' => 'tca', 'Thhalv10009020m.g' => 'esa', 'Thhalv10015506m.g' => 'esa', 'Thhalv10017364m.g' => 'esa', 'Thhalv10023742m.g' => 'esa', 'Thhalv10026483m.g' => 'esa', 'TPR.G17232' => 'tpr', 'TPR.G2133' => 'tpr', 'TPR.G2498' => 'tpr', 'TPR.G31942' => 'tpr', 'TPR.G37877' => 'tpr', 'TPR.G4571' => 'tpr', 'TWI14G1113' => 'twi', 'TWI15G0426' => 'twi', 'TWI31G1005' => 'twi', 'TWI38G0513' => 'twi', 'TWI38G1484' => 'twi', 'TWI73G1098' => 'twi', 'unitig_26.g10519' => 'ugi', 'unitig_736.g22395' => 'ugi', 'unitig_747.g21234' => 'ugi', 'unitig_747.g21942' => 'ugi', 'vmacro14351' => 'vma', 'VMungo0540G0082' => 'vmu', 'VMungo0540G0405' => 'vmu', 'VMungo0540G1486' => 'vmu', 'VMungo0540G1692' => 'vmu', 'VMungo0720G2473' => 'vmu', 'VMungo1127G1562' => 'vmu', 'VMungo1215G1918' => 'vmu', 'Zm00001eb052650' => 'zma', 'Zm00001eb063710' => 'zma', 'Zm00001eb083950' => 'zma', 'Zm00001eb174420' => 'zma', 'Zm00001eb260140' => 'zma', 'Zm00001eb260150' => 'zma', 'Zm00001eb260160' => 'zma', 'Zm00001eb348290' => 'zma', 'Zm00001eb366870' => 'zma', 'Zm00001eb421930' => 'zma' ), 'gf_id' => 'HOM05D001025', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001025' ), 'data_identifier' => 'HOM05D001025', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001025', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '592', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p22650' => 'bna', 'A01p29720' => 'bna', 'A03p26560' => 'bna', 'A03p68820' => 'bna', 'A04p20980' => 'bna', 'A06p07730' => 'bna', 'A07p18260' => 'bna', 'A08p33710' => 'bna', 'A09p16970' => 'bna', 'A10p27490' => 'bna', 'Aa31LG1G17300' => 'aar', 'Aa31LG1G3910' => 'aar', 'Aa31LG2G9630' => 'aar', 'Aa31LG5G8360' => 'aar', 'Aa31LG9G2410' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4699' => 'aag', 'Actinidia23512' => 'ach', 'Actinidia37080' => 'ach', 'Ah.01g020380' => 'amhyb', 'Ah.08g215710' => 'amhyb', 'Ah.09g225110' => 'amhyb', 'Ah.10g036680' => 'amhyb', 'AL1G21940' => 'aly', 'AL2G15540' => 'aly', 'AL4G21520' => 'aly', 'AL7G40960' => 'aly', 'Aqoxy2G01191' => 'aox', 'Aqoxy2G03393' => 'aox', 'Aqoxy4G02775' => 'aox', 'Aqoxy6G00058' => 'aox', 'arahy.Tifrunner.gnm1.ann1.9X74H2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CW3FX9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R485W7' => 'arhy', 'AT1G10960' => 'ath', 'AT1G60950' => 'ath', 'AT2G27510' => 'ath', 'AT4G14890' => 'ath', 'AT5G10000' => 'ath', 'ATR0665G624' => 'atr', 'ATR0697G138' => 'atr', 'ATR0776G046' => 'atr', 'ATR1134G135' => 'atr', 'Atru.chr12.1025' => 'acertr', 'Atru.chr3.3241' => 'acertr', 'Atru.chr4.2460' => 'acertr', 'AUR62007427' => 'cqu', 'AUR62010960' => 'cqu', 'AUR62012201' => 'cqu', 'AUR62021470' => 'cqu', 'AUR62022834' => 'cqu', 'AUR62033635' => 'cqu', 'AUR62036186' => 'cqu', 'BcaB01g03077' => 'bca', 'BcaB02g10093' => 'bca', 'BcaB04g20295' => 'bca', 'BcaB06g28147' => 'bca', 'BcaB07g31253' => 'bca', 'BcaC01g04946' => 'bca', 'BcaC02g10614' => 'bca', 'BcaC02g10885' => 'bca', 'BcaC04g19356' => 'bca', 'BcaC04g22297' => 'bca', 'BcaC05g24977' => 'bca', 'BcaC06g31823' => 'bca', 'BcaC07g38633' => 'bca', 'BcaC09g49353' => 'bca', 'BcaC09g50168' => 'bca', 'BcaNung00322' => 'bca', 'BcaNung04769' => 'bca', 'BolC1t02753H' => 'bol', 'BolC1t03721H' => 'bol', 'BolC3t15525H' => 'bol', 'BolC4t23903H' => 'bol', 'BolC4t24231H' => 'bol', 'BolC4t27209H' => 'bol', 'BolC5t29671H' => 'bol', 'BolC8t49044H' => 'bol', 'BolC9t54999H' => 'bol', 'BolC9t59517H' => 'bol', 'BraA01t02178Z' => 'bra', 'BraA01t03099Z' => 'bra', 'BraA03t11867Z' => 'bra', 'BraA04t17667Z' => 'bra', 'BraA07t29542Z' => 'bra', 'BraA08t35287Z' => 'bra', 'BraA09t37334Z' => 'bra', 'BraA10t44801Z' => 'bra', 'BraSC39t46181Z' => 'bra', 'C01p28240' => 'bna', 'C01p37530' => 'bna', 'C03p31820' => 'bna', 'C04p24080' => 'bna', 'C04p25790' => 'bna', 'C04p56770' => 'bna', 'C05p09310' => 'bna', 'C09p21010' => 'bna', 'C09p67560' => 'bna', 'CAN.G1324.7' => 'can', 'CAN.G1358.10' => 'can', 'CAN.G1550.2' => 'can', 'CAN.G186.56' => 'can', 'CAN.G1965.1' => 'can', 'CAN.G645.15' => 'can', 'CAN.G798.26' => 'can', 'CAN.G798.27' => 'can', 'CAN.G798.29' => 'can', 'CAN.G919.31' => 'can', 'CANSAT11G0133' => 'cansat', 'CANSAT11G1171' => 'cansat', 'CANSAT11G2056' => 'cansat', 'CANSAT56G1202' => 'cansat', 'CANSAT56G1514' => 'cansat', 'CANSAT78G0455' => 'cansat', 'CARHR011190' => 'chi', 'CARHR051980' => 'chi', 'CARHR120170' => 'chi', 'CARHR203310' => 'chi', 'CARHR221490' => 'chi', 'Carub.0001s1054' => 'cru', 'Carub.0002s0431' => 'cru', 'Carub.0004s0818' => 'cru', 'Carub.0006s0846' => 'cru', 'Carub.0007s2722' => 'cru', 'Ca_00058_v3' => 'car', 'Ca_17831_v3' => 'car', 'Ca_19408_v3' => 'car', 'Ca_24397_v3' => 'car', 'Ca_25664_v3' => 'car', 'CBR_g21818' => 'cbr', 'CBR_g31195' => 'cbr', 'CBR_g32282' => 'cbr', 'CBR_g39599' => 'cbr', 'CBR_g49410' => 'cbr', 'Cc01_g09120' => 'ccan', 'Cc01_g09130' => 'ccan', 'Cc02_g09630' => 'ccan', 'Cc02_g22810' => 'ccan', 'Cc03_g03810' => 'ccan', 'CDE02G3718' => 'cde', 'CDE04G3183' => 'cde', 'CDE07G1046' => 'cde', 'CDE08G0480' => 'cde', 'Cfa005493' => 'cfa', 'Cfa010312' => 'cfa', 'Cfa015648' => 'cfa', 'Ciclev10002793m.g' => 'ccl', 'Ciclev10003356m.g' => 'ccl', 'Ciclev10006141m.g' => 'ccl', 'Ciclev10016676m.g' => 'ccl', 'Ciclev10017081m.g' => 'ccl', 'Ciclev10029499m.g' => 'ccl', 'CiPaw.01G166300' => 'cil', 'CiPaw.06G145600' => 'cil', 'CiPaw.13G040100' => 'cil', 'CiPaw.13G135800' => 'cil', 'ClCG01G012230' => 'cla', 'ClCG05G009510' => 'cla', 'ClCG08G008270' => 'cla', 'COL.COLO4_11763' => 'col', 'COL.COLO4_19876' => 'col', 'COL.COLO4_21481' => 'col', 'Cpa.g.sc118.34' => 'cpa', 'Cpa.g.sc32.13' => 'cpa', 'Cpa.g.sc58.103' => 'cpa', 'Cre03.g183850' => 'cre', 'Cre06.g306350' => 'cre', 'Cre07.g334800' => 'cre', 'Cre12.g487900' => 'cre', 'Cre14.g626700' => 'cre', 'Cre16.g658400' => 'cre', 'Cre17.g700950' => 'cre', 'CsaV3_1G014830' => 'csa', 'CsaV3_3G013320' => 'csa', 'CsaV3_3G019210' => 'csa', 'CsaV3_3G019220' => 'csa', 'CsaV3_6G004230' => 'csa', 'CSS0003773' => 'camsi', 'CSS0004563' => 'camsi', 'CSS0013949' => 'camsi', 'CSS0025971' => 'camsi', 'CSS0028570' => 'camsi', 'CSS0033127' => 'camsi', 'CSS0036051' => 'camsi', 'CSS0040087' => 'camsi', 'CSS0043179' => 'camsi', 'DCAR_006161' => 'dca', 'DCAR_010351' => 'dca', 'DCAR_012197' => 'dca', 'DCAR_024162' => 'dca', 'Dinv01030' => 'din', 'Dinv10924' => 'din', 'Dinv11835' => 'din', 'Dinv22841' => 'din', 'Dinv42553' => 'din', 'Duzib052G0560' => 'dzi', 'Duzib132G0389' => 'dzi', 'Duzib150G1181' => 'dzi', 'Duzib168G0623' => 'dzi', 'Duzib170G1036' => 'dzi', 'Duzib212G0200' => 'dzi', 'Duzib248G0194' => 'dzi', 'ECA232G2193' => 'eca', 'ECA233G0302' => 'eca', 'ECA234G2813' => 'eca', 'ECA234G4866' => 'eca', 'ECA240G3932' => 'eca', 'ECA248G0385' => 'eca', 'EL10Ac2g04781' => 'bvu', 'EL10Ac3g06445' => 'bvu', 'EL10Ac7g15825' => 'bvu', 'EL10Ac8g18550' => 'bvu', 'Eucgr.B03849' => 'egr', 'Eucgr.I02744' => 'egr', 'Eucgr.J00264' => 'egr', 'Eucgr.J00493' => 'egr', 'FAN04G2181' => 'fan', 'FAN07G2666' => 'fan', 'FAN11G0024' => 'fan', 'FAN12G1105' => 'fan', 'FAN13G0302' => 'fan', 'FAN15G2781' => 'fan', 'FAN16G1274' => 'fan', 'FAN17G2988' => 'fan', 'FAN18G2621' => 'fan', 'FAN21G0013' => 'fan', 'FAN22G1211' => 'fan', 'FAN25G3626' => 'fan', 'FvH4_2g09491' => 'fve', 'FvH4_3g24910' => 'fve', 'FvH4_4g15630' => 'fve', 'FvH4_5g28820' => 'fve', 'Glyma.01G238000' => 'gma', 'Glyma.05G168400' => 'gma', 'Glyma.08G126800' => 'gma', 'Glyma.08G188500' => 'gma', 'Glyma.10G278900' => 'gma', 'Glyma.11G005700' => 'gma', 'Glyma.11G183300' => 'gma', 'Glyma.12G089200' => 'gma', 'Glyma.12G169400' => 'gma', 'Glyma.12G169500' => 'gma', 'Glyma.12G169600' => 'gma', 'Glyma.20G110800' => 'gma', 'Gohir.A03G192900' => 'ghi', 'Gohir.A03G193000' => 'ghi', 'Gohir.A05G080700' => 'ghi', 'Gohir.A09G216000' => 'ghi', 'Gohir.A12G027700' => 'ghi', 'Gohir.A13G036200' => 'ghi', 'Gohir.A13G222600' => 'ghi', 'Gohir.D02G213900' => 'ghi', 'Gohir.D02G214000' => 'ghi', 'Gohir.D05G083700' => 'ghi', 'Gohir.D05G083800' => 'ghi', 'Gohir.D05G083850' => 'ghi', 'Gohir.D08G015400' => 'ghi', 'Gohir.D09G218400' => 'ghi', 'Gohir.D12G027100' => 'ghi', 'Gohir.D13G034500' => 'ghi', 'Gohir.D13G227400' => 'ghi', 'Gorai.005G241800' => 'gra', 'Gorai.005G241900' => 'gra', 'Gorai.006G239400' => 'gra', 'Gorai.008G027600' => 'gra', 'Gorai.009G085400' => 'gra', 'Gorai.009G085500' => 'gra', 'Gorai.013G039000' => 'gra', 'Gorai.013G194800' => 'gra', 'Gorai.013G257900' => 'gra', 'GSVIVG01000982001' => 'vvi', 'GSVIVG01017981001' => 'vvi', 'HanXRQChr01g0024061' => 'han', 'HanXRQChr09g0247831' => 'han', 'HanXRQChr10g0294611' => 'han', 'HanXRQChr10g0294621' => 'han', 'HanXRQChr11g0346821' => 'han', 'HanXRQChr13g0397461' => 'han', 'HanXRQChr16g0513651' => 'han', 'HanXRQChr16g0513701' => 'han', 'Haze_00897' => 'cav', 'Haze_01745' => 'cav', 'Haze_02486' => 'cav', 'Haze_02487' => 'cav', 'Haze_23374' => 'cav', 'Hma1.2p1_0578F.1_g182520' => 'hma', 'Hma1.2p1_0602F.1_g187350' => 'hma', 'Hma1.2p1_0602F.1_g187360' => 'hma', 'Hma1.2p1_0874F.1_g231320' => 'hma', 'Hma1.2p1_1197F.1_g266210' => 'hma', 'Hma1.2p1_1197F.1_g266220' => 'hma', 'Hma1.2p1_2167F.1_g315895' => 'hma', 'Hma1.2p1_2190F.1_g316640' => 'hma', 'Hma1.2p1_3645F.1_g337153' => 'hma', 'HPP92_004907' => 'vpl', 'HPP92_012134' => 'vpl', 'HPP92_025136' => 'vpl', 'HPP92_026087' => 'vpl', 'Hund06782' => 'sun', 'Hund06784' => 'sun', 'Lalb_Chr01g0004861' => 'lal', 'Lalb_Chr02g0140591' => 'lal', 'Lalb_Chr02g0140611' => 'lal', 'Lalb_Chr03g0028101' => 'lal', 'Lalb_Chr07g0185791' => 'lal', 'Lalb_Chr12g0204491' => 'lal', 'Lalb_Chr13g0295671' => 'lal', 'Lalb_Chr19g0136461' => 'lal', 'Lalb_Chr21g0309191' => 'lal', 'Lj1g0028158' => 'lja', 'Lj1P236T38' => 'lonja', 'Lj2C32G2' => 'lonja', 'Lj2P944T8' => 'lonja', 'Lj2P963T15' => 'lonja', 'Lj3g0011788' => 'lja', 'Lj4g0025027' => 'lja', 'Lj5P255T36' => 'lonja', 'Lj6g0018866' => 'lja', 'Lj6P608T31' => 'lonja', 'LjContig00408g0008879' => 'lja', 'Lsat_1_v5_gn_5_105820' => 'lsa', 'Lsat_1_v5_gn_6_38800' => 'lsa', 'Lsat_1_v5_gn_7_67141' => 'lsa', 'Manes.04G003400' => 'mes', 'Manes.07G020000' => 'mes', 'Manes.07G020100' => 'mes', 'Manes.07G020150' => 'mes', 'Manes.10G061500' => 'mes', 'Manes.10G123200' => 'mes', 'Manes.11G161900' => 'mes', 'Manes.15G029300' => 'mes', 'Mapoly0071s0018' => 'mpo', 'Mapoly0082s0023' => 'mpo', 'Mapoly3477s0001' => 'mpo', 'MBI05_g31233_MAGBIO' => 'mbi', 'MBI09_g05946_MAGBIO' => 'mbi', 'MBI09_g05947_MAGBIO' => 'mbi', 'MBI17_g08346_MAGBIO' => 'mbi', 'MCO04G038' => 'mco', 'MCO09G370' => 'mco', 'MCO13G605' => 'mco', 'MD00G1075500' => 'mdo', 'MD03G1144300' => 'mdo', 'MD08G1236800' => 'mdo', 'MD13G1193300' => 'mdo', 'MD15G1428700' => 'mdo', 'Medtr1g112030' => 'mtr', 'Medtr1g112050' => 'mtr', 'Medtr2g006290' => 'mtr', 'Medtr2g086510' => 'mtr', 'Medtr4g053120' => 'mtr', 'Medtr5g006320' => 'mtr', 'Medtr8g088720' => 'mtr', 'MELO3C004712.2' => 'cme', 'MELO3C006533.2' => 'cme', 'MELO3C019438.2' => 'cme', 'MELO3C019440.2' => 'cme', 'MELO3C019441.2' => 'cme', 'MELO3C019895.2' => 'cme', 'Migut.B00811' => 'egut', 'Migut.D02447' => 'egut', 'Migut.F00875' => 'egut', 'Migut.N00186' => 'egut', 'Migut.N01051' => 'egut', 'Migut.N02491' => 'egut', 'Migut.O00784' => 'egut', 'MSTRG.12367' => 'ama', 'MSTRG.18756' => 'ama', 'MSTRG.21042' => 'ama', 'Nitab4.5_0000559g0040' => 'nta', 'Nitab4.5_0000667g0190' => 'nta', 'Nitab4.5_0000755g0160' => 'nta', 'Nitab4.5_0001216g0080' => 'nta', 'Nitab4.5_0004069g0040' => 'nta', 'Nitab4.5_0004129g0010' => 'nta', 'Nitab4.5_0005744g0030' => 'nta', 'Nitab4.5_0006996g0030' => 'nta', 'Nitab4.5_0008971g0040' => 'nta', 'Nitab4.5_0009769g0020' => 'nta', 'Nitab4.5_0009833g0010' => 'nta', 'Nitab4.5_0013140g0020' => 'nta', 'Nn003s41376' => 'nnu', 'Nn1g01857' => 'nnu', 'Nn1g03611' => 'nnu', 'Nn1g06853' => 'nnu', 'Nn3g18360' => 'nnu', 'Nn4g26328' => 'nnu', 'Nn5g27531' => 'nnu', 'Nn6g34899' => 'nnu', 'Nn7g36299' => 'nnu', 'Oeu021485.1' => 'oeu', 'Oeu022433.1' => 'oeu', 'Oeu032111.1' => 'oeu', 'Oeu051608.1' => 'oeu', 'Os01g0860601' => 'osa', 'Os03g0659200' => 'osa', 'Os03g0835900' => 'osa', 'Os04g0412200' => 'osa', 'Os05g0443500' => 'osa', 'Os07g0251500' => 'osa', 'Os08g0104600' => 'osa', 'Peaxi162Scf00003g00047' => 'pax', 'Peaxi162Scf00003g00052' => 'pax', 'Peaxi162Scf00003g00394' => 'pax', 'Peaxi162Scf00091g00621' => 'pax', 'Peaxi162Scf00152g00146' => 'pax', 'Peaxi162Scf00173g00025' => 'pax', 'Peaxi162Scf00195g00102' => 'pax', 'Peaxi162Scf00402g00013' => 'pax', 'Peaxi162Scf00519g00618' => 'pax', 'PGR004G2838' => 'pgr', 'PGR044G2275' => 'pgr', 'PGR102G1377' => 'pgr', 'PGR119G1245' => 'pgr', 'PGR142G4449' => 'pgr', 'PGSC0003DMG400004532' => 'stu', 'PGSC0003DMG400011950' => 'stu', 'PGSC0003DMG400023391' => 'stu', 'PGSC0003DMG400023985' => 'stu', 'PGSC0003DMG400026360' => 'stu', 'PGSC0003DMG400035711' => 'stu', 'PGSC0003DMG400037286' => 'stu', 'PGSC0003DMG402005881' => 'stu', 'Phvul.002G045400' => 'pvu', 'Phvul.006G216600' => 'pvu', 'Phvul.006G216700' => 'pvu', 'Phvul.006G216800' => 'pvu', 'Phvul.007G022500' => 'pvu', 'Phvul.011G094400' => 'pvu', 'Potri.001G470700' => 'ptr', 'Potri.003G015200' => 'ptr', 'Potri.004G202500' => 'ptr', 'Potri.004G218400' => 'ptr', 'Potri.008G020100' => 'ptr', 'Potri.008G153200' => 'ptr', 'Potri.009G163800' => 'ptr', 'Potri.010G087300' => 'ptr', 'Potri.010G239100' => 'ptr', 'Pp3c10_16100' => 'ppa', 'Pp3c10_16880' => 'ppa', 'Pp3c16_6230' => 'ppa', 'Pp3c17_18910' => 'ppa', 'Pp3c3_22119' => 'ppa', 'Pp3c3_22140' => 'ppa', 'Pp3c4_8159' => 'ppa', 'Pp3c4_8171' => 'ppa', 'Pp3c4_8330' => 'ppa', 'PRCOL_00004098' => 'pco', 'Prupe.1G013900' => 'ppe', 'Prupe.1G226300' => 'ppe', 'Prupe.1G573600' => 'ppe', 'Prupe.6G130100' => 'ppe', 'Psat3g090040' => 'psa', 'Psat4g210440' => 'psa', 'Psat6g231040' => 'psa', 'Psat6g231080' => 'psa', 'Psat7g063000' => 'psa', 'Psat7g188000' => 'psa', 'Psat7g188040' => 'psa', 'PSO017G0206' => 'pso', 'PSO170G0501' => 'pso', 'PSO170G6422' => 'pso', 'PSO210G7739' => 'pso', 'PSO339G1808' => 'pso', 'PSO339G6135' => 'pso', 'PSO384G0010' => 'pso', 'PSO384G0964' => 'pso', 'PSO761G0050' => 'pso', 'PSO782G4085' => 'pso', 'QL01p012264' => 'qlo', 'QL02p099491' => 'qlo', 'QL03p033868' => 'qlo', 'QL04p046678' => 'qlo', 'QL06p002448' => 'qlo', 'RcHm_v2.0_Chr4g0416181' => 'rch', 'RcHm_v2.0_Chr5g0044701' => 'rch', 'RcHm_v2.0_Chr6g0265781' => 'rch', 'RcHm_v2.0_Chr7g0221031' => 'rch', 'Rhsim04G0202000' => 'rsi', 'Rhsim11G0127300' => 'rsi', 'Rhsim13G0111800' => 'rsi', 'Sabra01G0165600' => 'sbr', 'Sabra03G0008300' => 'sbr', 'Sabra04G0136900' => 'sbr', 'Sabra08G0013400' => 'sbr', 'Sabra08G0116800' => 'sbr', 'Sabra09G0128000' => 'sbr', 'Sabra10G0055500' => 'sbr', 'Sabra10G0073300' => 'sbr', 'SalBow3G0385' => 'sbo', 'SalBow3G1119' => 'sbo', 'SalBow3G2005' => 'sbo', 'SalBow6G2563' => 'sbo', 'SalBow6G6386' => 'sbo', 'Sc06g0008800' => 'sci', 'Sc07g0004950' => 'sci', 'Sc09g0005340' => 'sci', 'Sc13g0004410' => 'sci', 'Sc21g0007090' => 'sci', 'Sed0009285' => 'sed', 'Sed0017583' => 'sed', 'Sed0019699' => 'sed', 'Sed0023107' => 'sed', 'SEGI_10916' => 'sgi', 'SEGI_16217' => 'sgi', 'SEGI_19466' => 'sgi', 'SEGI_41115' => 'sgi', 'SGA_v2.0_scaffold111G31534' => 'sas', 'SGA_v2.0_scaffold22G09864' => 'sas', 'SGA_v2.0_scaffold338G49219' => 'sas', 'SGA_v2.0_scaffold92G28298' => 'sas', 'SMO119G0064' => 'smo', 'SMO223G0038' => 'smo', 'SMO347G0584' => 'smo', 'SMO351G0010' => 'smo', 'SMO356G0404' => 'smo', 'Solyc01g103920.3' => 'sly', 'Solyc04g009710.2' => 'sly', 'Solyc05g055280.2' => 'sly', 'Solyc10g044520.3' => 'sly', 'Solyc10g075160.1' => 'sly', 'Solyc11g006910.3' => 'sly', 'Solyc11g068430.3' => 'sly', 'Sopen01g046310' => 'spe', 'Sopen03g001200' => 'spe', 'Sopen04g004830' => 'spe', 'Sopen05g033720' => 'spe', 'Sopen06g030740' => 'spe', 'Sopen10g013090' => 'spe', 'Sopen10g027630' => 'spe', 'Sopen10g027640' => 'spe', 'Sopen11g002820' => 'spe', 'Sopen11g027140' => 'spe', 'Sp1g09680' => 'spa', 'Sp2g03630' => 'spa', 'Sp4g10320' => 'spa', 'Sp6g33400' => 'spa', 'Sp7g13030' => 'spa', 'TAR365G0317' => 'tar', 'TAR376G0979' => 'tar', 'TAR623G1665' => 'tar', 'TAR633G2373' => 'tar', 'TAR636G1400' => 'tar', 'THA.LOC104800529' => 'tha', 'THA.LOC104808547' => 'tha', 'THA.LOC104809615' => 'tha', 'THA.LOC104815724' => 'tha', 'THA.LOC104818480' => 'tha', 'THA.LOC104819179' => 'tha', 'THA.LOC104822270' => 'tha', 'THA.LOC104826425' => 'tha', 'Thecc.02G089700' => 'tca', 'Thecc.04G232300' => 'tca', 'Thecc.09G283400' => 'tca', 'Thhalv10009020m.g' => 'esa', 'Thhalv10015506m.g' => 'esa', 'Thhalv10017364m.g' => 'esa', 'Thhalv10023742m.g' => 'esa', 'Thhalv10026483m.g' => 'esa', 'TPR.G17232' => 'tpr', 'TPR.G2133' => 'tpr', 'TPR.G2498' => 'tpr', 'TPR.G31942' => 'tpr', 'TPR.G37877' => 'tpr', 'TPR.G4571' => 'tpr', 'TWI14G1113' => 'twi', 'TWI15G0426' => 'twi', 'TWI31G1005' => 'twi', 'TWI38G0513' => 'twi', 'TWI38G1484' => 'twi', 'TWI73G1098' => 'twi', 'unitig_26.g10519' => 'ugi', 'unitig_736.g22395' => 'ugi', 'unitig_747.g21234' => 'ugi', 'unitig_747.g21942' => 'ugi', 'vmacro14351' => 'vma', 'VMungo0540G0082' => 'vmu', 'VMungo0540G0405' => 'vmu', 'VMungo0540G1486' => 'vmu', 'VMungo0540G1692' => 'vmu', 'VMungo0720G2473' => 'vmu', 'VMungo1127G1562' => 'vmu', 'VMungo1215G1918' => 'vmu', 'Zm00001eb052650' => 'zma', 'Zm00001eb063710' => 'zma', 'Zm00001eb083950' => 'zma', 'Zm00001eb174420' => 'zma', 'Zm00001eb260140' => 'zma', 'Zm00001eb260150' => 'zma', 'Zm00001eb260160' => 'zma', 'Zm00001eb348290' => 'zma', 'Zm00001eb366870' => 'zma', 'Zm00001eb421930' => 'zma' ) $gf_id = 'HOM05D001025' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001025' ) $data_identifier = 'HOM05D001025' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 19, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 2, 'amhyb' => (int) 4, 'aly' => (int) 4, 'aox' => (int) 4, 'arhy' => (int) 3, 'ath' => (int) 5, 'atr' => (int) 4, 'acertr' => (int) 3, 'cqu' => (int) 7, 'bca' => (int) 17, 'bol' => (int) 10, 'bra' => (int) 9, 'can' => (int) 10, 'cansat' => (int) 6, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 5, 'cbr' => (int) 5, 'ccan' => (int) 5, 'cde' => (int) 4, 'cfa' => (int) 3, 'ccl' => (int) 6, 'cil' => (int) 4, 'cla' => (int) 3, 'col' => (int) 3, 'cpa' => (int) 3, 'cre' => (int) 7, 'csa' => (int) 5, 'camsi' => (int) 9, 'dca' => (int) 4, 'din' => (int) 5, 'dzi' => (int) 7, 'eca' => (int) 6, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 12, 'fve' => (int) 4, 'gma' => (int) 12, 'ghi' => (int) 17, 'gra' => (int) 9, 'vvi' => (int) 2, 'han' => (int) 8, 'cav' => (int) 5, 'hma' => (int) 9, 'vpl' => (int) 4, 'sun' => (int) 2, 'lal' => (int) 9, 'lja' => (int) 5, 'lonja' => (int) 6, 'lsa' => (int) 3, 'mes' => (int) 8, 'mpo' => (int) 3, 'mbi' => (int) 4, 'mco' => (int) 3, 'mdo' => (int) 5, 'mtr' => (int) 7, 'cme' => (int) 6, 'egut' => (int) 7, 'ama' => (int) 3, 'nta' => (int) 12, 'nnu' => (int) 9, 'oeu' => (int) 4, 'osa' => (int) 7, 'pax' => (int) 9, 'pgr' => (int) 5, 'stu' => (int) 8, 'pvu' => (int) 6, 'ptr' => (int) 9, 'ppa' => (int) 9, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 7, 'pso' => (int) 10, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 3, 'sbr' => (int) 8, 'sbo' => (int) 5, 'sci' => (int) 5, 'sed' => (int) 4, 'sgi' => (int) 4, 'sas' => (int) 4, 'smo' => (int) 5, 'sly' => (int) 7, 'spe' => (int) 10, 'spa' => (int) 5, 'tar' => (int) 5, 'tha' => (int) 8, 'tca' => (int) 3, 'esa' => (int) 5, 'tpr' => (int) 6, 'twi' => (int) 6, 'ugi' => (int) 4, 'vma' => (int) 1, 'vmu' => (int) 7, 'zma' => (int) 10 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb421930' $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' => 'HOM05D001025', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '592', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p22650' => 'bna', 'A01p29720' => 'bna', 'A03p26560' => 'bna', 'A03p68820' => 'bna', 'A04p20980' => 'bna', 'A06p07730' => 'bna', 'A07p18260' => 'bna', 'A08p33710' => 'bna', 'A09p16970' => 'bna', 'A10p27490' => 'bna', 'Aa31LG1G17300' => 'aar', 'Aa31LG1G3910' => 'aar', 'Aa31LG2G9630' => 'aar', 'Aa31LG5G8360' => 'aar', 'Aa31LG9G2410' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4699' => 'aag', 'Actinidia23512' => 'ach', 'Actinidia37080' => 'ach', 'Ah.01g020380' => 'amhyb', 'Ah.08g215710' => 'amhyb', 'Ah.09g225110' => 'amhyb', 'Ah.10g036680' => 'amhyb', 'AL1G21940' => 'aly', 'AL2G15540' => 'aly', 'AL4G21520' => 'aly', 'AL7G40960' => 'aly', 'Aqoxy2G01191' => 'aox', 'Aqoxy2G03393' => 'aox', 'Aqoxy4G02775' => 'aox', 'Aqoxy6G00058' => 'aox', 'arahy.Tifrunner.gnm1.ann1.9X74H2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CW3FX9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R485W7' => 'arhy', 'AT1G10960' => 'ath', 'AT1G60950' => 'ath', 'AT2G27510' => 'ath', 'AT4G14890' => 'ath', 'AT5G10000' => 'ath', 'ATR0665G624' => 'atr', 'ATR0697G138' => 'atr', 'ATR0776G046' => 'atr', 'ATR1134G135' => 'atr', 'Atru.chr12.1025' => 'acertr', 'Atru.chr3.3241' => 'acertr', 'Atru.chr4.2460' => 'acertr', 'AUR62007427' => 'cqu', 'AUR62010960' => 'cqu', 'AUR62012201' => 'cqu', 'AUR62021470' => 'cqu', 'AUR62022834' => 'cqu', 'AUR62033635' => 'cqu', 'AUR62036186' => 'cqu', 'BcaB01g03077' => 'bca', 'BcaB02g10093' => 'bca', 'BcaB04g20295' => 'bca', 'BcaB06g28147' => 'bca', 'BcaB07g31253' => 'bca', 'BcaC01g04946' => 'bca', 'BcaC02g10614' => 'bca', 'BcaC02g10885' => 'bca', 'BcaC04g19356' => 'bca', 'BcaC04g22297' => 'bca', 'BcaC05g24977' => 'bca', 'BcaC06g31823' => 'bca', 'BcaC07g38633' => 'bca', 'BcaC09g49353' => 'bca', 'BcaC09g50168' => 'bca', 'BcaNung00322' => 'bca', 'BcaNung04769' => 'bca', 'BolC1t02753H' => 'bol', 'BolC1t03721H' => 'bol', 'BolC3t15525H' => 'bol', 'BolC4t23903H' => 'bol', 'BolC4t24231H' => 'bol', 'BolC4t27209H' => 'bol', 'BolC5t29671H' => 'bol', 'BolC8t49044H' => 'bol', 'BolC9t54999H' => 'bol', 'BolC9t59517H' => 'bol', 'BraA01t02178Z' => 'bra', 'BraA01t03099Z' => 'bra', 'BraA03t11867Z' => 'bra', 'BraA04t17667Z' => 'bra', 'BraA07t29542Z' => 'bra', 'BraA08t35287Z' => 'bra', 'BraA09t37334Z' => 'bra', 'BraA10t44801Z' => 'bra', 'BraSC39t46181Z' => 'bra', 'C01p28240' => 'bna', 'C01p37530' => 'bna', 'C03p31820' => 'bna', 'C04p24080' => 'bna', 'C04p25790' => 'bna', 'C04p56770' => 'bna', 'C05p09310' => 'bna', 'C09p21010' => 'bna', 'C09p67560' => 'bna', 'CAN.G1324.7' => 'can', 'CAN.G1358.10' => 'can', 'CAN.G1550.2' => 'can', 'CAN.G186.56' => 'can', 'CAN.G1965.1' => 'can', 'CAN.G645.15' => 'can', 'CAN.G798.26' => 'can', 'CAN.G798.27' => 'can', 'CAN.G798.29' => 'can', 'CAN.G919.31' => 'can', 'CANSAT11G0133' => 'cansat', 'CANSAT11G1171' => 'cansat', 'CANSAT11G2056' => 'cansat', 'CANSAT56G1202' => 'cansat', 'CANSAT56G1514' => 'cansat', 'CANSAT78G0455' => 'cansat', 'CARHR011190' => 'chi', 'CARHR051980' => 'chi', 'CARHR120170' => 'chi', 'CARHR203310' => 'chi', 'CARHR221490' => 'chi', 'Carub.0001s1054' => 'cru', 'Carub.0002s0431' => 'cru', 'Carub.0004s0818' => 'cru', 'Carub.0006s0846' => 'cru', 'Carub.0007s2722' => 'cru', 'Ca_00058_v3' => 'car', 'Ca_17831_v3' => 'car', 'Ca_19408_v3' => 'car', 'Ca_24397_v3' => 'car', 'Ca_25664_v3' => 'car', 'CBR_g21818' => 'cbr', 'CBR_g31195' => 'cbr', 'CBR_g32282' => 'cbr', 'CBR_g39599' => 'cbr', 'CBR_g49410' => 'cbr', 'Cc01_g09120' => 'ccan', 'Cc01_g09130' => 'ccan', 'Cc02_g09630' => 'ccan', 'Cc02_g22810' => 'ccan', 'Cc03_g03810' => 'ccan', 'CDE02G3718' => 'cde', 'CDE04G3183' => 'cde', 'CDE07G1046' => 'cde', 'CDE08G0480' => 'cde', 'Cfa005493' => 'cfa', 'Cfa010312' => 'cfa', 'Cfa015648' => 'cfa', 'Ciclev10002793m.g' => 'ccl', 'Ciclev10003356m.g' => 'ccl', 'Ciclev10006141m.g' => 'ccl', 'Ciclev10016676m.g' => 'ccl', 'Ciclev10017081m.g' => 'ccl', 'Ciclev10029499m.g' => 'ccl', 'CiPaw.01G166300' => 'cil', 'CiPaw.06G145600' => 'cil', 'CiPaw.13G040100' => 'cil', 'CiPaw.13G135800' => 'cil', 'ClCG01G012230' => 'cla', 'ClCG05G009510' => 'cla', 'ClCG08G008270' => 'cla', 'COL.COLO4_11763' => 'col', 'COL.COLO4_19876' => 'col', 'COL.COLO4_21481' => 'col', 'Cpa.g.sc118.34' => 'cpa', 'Cpa.g.sc32.13' => 'cpa', 'Cpa.g.sc58.103' => 'cpa', 'Cre03.g183850' => 'cre', 'Cre06.g306350' => 'cre', 'Cre07.g334800' => 'cre', 'Cre12.g487900' => 'cre', 'Cre14.g626700' => 'cre', 'Cre16.g658400' => 'cre', 'Cre17.g700950' => 'cre', 'CsaV3_1G014830' => 'csa', 'CsaV3_3G013320' => 'csa', 'CsaV3_3G019210' => 'csa', 'CsaV3_3G019220' => 'csa', 'CsaV3_6G004230' => 'csa', 'CSS0003773' => 'camsi', 'CSS0004563' => 'camsi', 'CSS0013949' => 'camsi', 'CSS0025971' => 'camsi', 'CSS0028570' => 'camsi', 'CSS0033127' => 'camsi', 'CSS0036051' => 'camsi', 'CSS0040087' => 'camsi', 'CSS0043179' => 'camsi', 'DCAR_006161' => 'dca', 'DCAR_010351' => 'dca', 'DCAR_012197' => 'dca', 'DCAR_024162' => 'dca', 'Dinv01030' => 'din', 'Dinv10924' => 'din', 'Dinv11835' => 'din', 'Dinv22841' => 'din', 'Dinv42553' => 'din', 'Duzib052G0560' => 'dzi', 'Duzib132G0389' => 'dzi', 'Duzib150G1181' => 'dzi', 'Duzib168G0623' => 'dzi', 'Duzib170G1036' => 'dzi', 'Duzib212G0200' => 'dzi', 'Duzib248G0194' => 'dzi', 'ECA232G2193' => 'eca', 'ECA233G0302' => 'eca', 'ECA234G2813' => 'eca', 'ECA234G4866' => 'eca', 'ECA240G3932' => 'eca', 'ECA248G0385' => 'eca', 'EL10Ac2g04781' => 'bvu', 'EL10Ac3g06445' => 'bvu', 'EL10Ac7g15825' => 'bvu', 'EL10Ac8g18550' => 'bvu', 'Eucgr.B03849' => 'egr', 'Eucgr.I02744' => 'egr', 'Eucgr.J00264' => 'egr', 'Eucgr.J00493' => 'egr', 'FAN04G2181' => 'fan', 'FAN07G2666' => 'fan', 'FAN11G0024' => 'fan', 'FAN12G1105' => 'fan', 'FAN13G0302' => 'fan', 'FAN15G2781' => 'fan', 'FAN16G1274' => 'fan', 'FAN17G2988' => 'fan', 'FAN18G2621' => 'fan', 'FAN21G0013' => 'fan', 'FAN22G1211' => 'fan', 'FAN25G3626' => 'fan', 'FvH4_2g09491' => 'fve', 'FvH4_3g24910' => 'fve', 'FvH4_4g15630' => 'fve', 'FvH4_5g28820' => 'fve', 'Glyma.01G238000' => 'gma', 'Glyma.05G168400' => 'gma', 'Glyma.08G126800' => 'gma', 'Glyma.08G188500' => 'gma', 'Glyma.10G278900' => 'gma', 'Glyma.11G005700' => 'gma', 'Glyma.11G183300' => 'gma', 'Glyma.12G089200' => 'gma', 'Glyma.12G169400' => 'gma', 'Glyma.12G169500' => 'gma', 'Glyma.12G169600' => 'gma', 'Glyma.20G110800' => 'gma', 'Gohir.A03G192900' => 'ghi', 'Gohir.A03G193000' => 'ghi', 'Gohir.A05G080700' => 'ghi', 'Gohir.A09G216000' => 'ghi', 'Gohir.A12G027700' => 'ghi', 'Gohir.A13G036200' => 'ghi', 'Gohir.A13G222600' => 'ghi', 'Gohir.D02G213900' => 'ghi', 'Gohir.D02G214000' => 'ghi', 'Gohir.D05G083700' => 'ghi', 'Gohir.D05G083800' => 'ghi', 'Gohir.D05G083850' => 'ghi', 'Gohir.D08G015400' => 'ghi', 'Gohir.D09G218400' => 'ghi', 'Gohir.D12G027100' => 'ghi', 'Gohir.D13G034500' => 'ghi', 'Gohir.D13G227400' => 'ghi', 'Gorai.005G241800' => 'gra', 'Gorai.005G241900' => 'gra', 'Gorai.006G239400' => 'gra', 'Gorai.008G027600' => 'gra', 'Gorai.009G085400' => 'gra', 'Gorai.009G085500' => 'gra', 'Gorai.013G039000' => 'gra', 'Gorai.013G194800' => 'gra', 'Gorai.013G257900' => 'gra', 'GSVIVG01000982001' => 'vvi', 'GSVIVG01017981001' => 'vvi', 'HanXRQChr01g0024061' => 'han', 'HanXRQChr09g0247831' => 'han', 'HanXRQChr10g0294611' => 'han', 'HanXRQChr10g0294621' => 'han', 'HanXRQChr11g0346821' => 'han', 'HanXRQChr13g0397461' => 'han', 'HanXRQChr16g0513651' => 'han', 'HanXRQChr16g0513701' => 'han', 'Haze_00897' => 'cav', 'Haze_01745' => 'cav', 'Haze_02486' => 'cav', 'Haze_02487' => 'cav', 'Haze_23374' => 'cav', 'Hma1.2p1_0578F.1_g182520' => 'hma', 'Hma1.2p1_0602F.1_g187350' => 'hma', 'Hma1.2p1_0602F.1_g187360' => 'hma', 'Hma1.2p1_0874F.1_g231320' => 'hma', 'Hma1.2p1_1197F.1_g266210' => 'hma', 'Hma1.2p1_1197F.1_g266220' => 'hma', 'Hma1.2p1_2167F.1_g315895' => 'hma', 'Hma1.2p1_2190F.1_g316640' => 'hma', 'Hma1.2p1_3645F.1_g337153' => 'hma', 'HPP92_004907' => 'vpl', 'HPP92_012134' => 'vpl', 'HPP92_025136' => 'vpl', 'HPP92_026087' => 'vpl', 'Hund06782' => 'sun', 'Hund06784' => 'sun', 'Lalb_Chr01g0004861' => 'lal', 'Lalb_Chr02g0140591' => 'lal', 'Lalb_Chr02g0140611' => 'lal', 'Lalb_Chr03g0028101' => 'lal', 'Lalb_Chr07g0185791' => 'lal', 'Lalb_Chr12g0204491' => 'lal', 'Lalb_Chr13g0295671' => 'lal', 'Lalb_Chr19g0136461' => 'lal', 'Lalb_Chr21g0309191' => 'lal', 'Lj1g0028158' => 'lja', 'Lj1P236T38' => 'lonja', 'Lj2C32G2' => 'lonja', 'Lj2P944T8' => 'lonja', 'Lj2P963T15' => 'lonja', 'Lj3g0011788' => 'lja', 'Lj4g0025027' => 'lja', 'Lj5P255T36' => 'lonja', 'Lj6g0018866' => 'lja', 'Lj6P608T31' => 'lonja', 'LjContig00408g0008879' => 'lja', 'Lsat_1_v5_gn_5_105820' => 'lsa', 'Lsat_1_v5_gn_6_38800' => 'lsa', 'Lsat_1_v5_gn_7_67141' => 'lsa', 'Manes.04G003400' => 'mes', 'Manes.07G020000' => 'mes', 'Manes.07G020100' => 'mes', 'Manes.07G020150' => 'mes', 'Manes.10G061500' => 'mes', 'Manes.10G123200' => 'mes', 'Manes.11G161900' => 'mes', 'Manes.15G029300' => 'mes', 'Mapoly0071s0018' => 'mpo', 'Mapoly0082s0023' => 'mpo', 'Mapoly3477s0001' => 'mpo', 'MBI05_g31233_MAGBIO' => 'mbi', 'MBI09_g05946_MAGBIO' => 'mbi', 'MBI09_g05947_MAGBIO' => 'mbi', 'MBI17_g08346_MAGBIO' => 'mbi', 'MCO04G038' => 'mco', 'MCO09G370' => 'mco', 'MCO13G605' => 'mco', 'MD00G1075500' => 'mdo', 'MD03G1144300' => 'mdo', 'MD08G1236800' => 'mdo', 'MD13G1193300' => 'mdo', 'MD15G1428700' => 'mdo', 'Medtr1g112030' => 'mtr', 'Medtr1g112050' => 'mtr', 'Medtr2g006290' => 'mtr', 'Medtr2g086510' => 'mtr', 'Medtr4g053120' => 'mtr', 'Medtr5g006320' => 'mtr', 'Medtr8g088720' => 'mtr', 'MELO3C004712.2' => 'cme', 'MELO3C006533.2' => 'cme', 'MELO3C019438.2' => 'cme', 'MELO3C019440.2' => 'cme', 'MELO3C019441.2' => 'cme', 'MELO3C019895.2' => 'cme', 'Migut.B00811' => 'egut', 'Migut.D02447' => 'egut', 'Migut.F00875' => 'egut', 'Migut.N00186' => 'egut', 'Migut.N01051' => 'egut', 'Migut.N02491' => 'egut', 'Migut.O00784' => 'egut', 'MSTRG.12367' => 'ama', 'MSTRG.18756' => 'ama', 'MSTRG.21042' => 'ama', 'Nitab4.5_0000559g0040' => 'nta', 'Nitab4.5_0000667g0190' => 'nta', 'Nitab4.5_0000755g0160' => 'nta', 'Nitab4.5_0001216g0080' => 'nta', 'Nitab4.5_0004069g0040' => 'nta', 'Nitab4.5_0004129g0010' => 'nta', 'Nitab4.5_0005744g0030' => 'nta', 'Nitab4.5_0006996g0030' => 'nta', 'Nitab4.5_0008971g0040' => 'nta', 'Nitab4.5_0009769g0020' => 'nta', 'Nitab4.5_0009833g0010' => 'nta', 'Nitab4.5_0013140g0020' => 'nta', 'Nn003s41376' => 'nnu', 'Nn1g01857' => 'nnu', 'Nn1g03611' => 'nnu', 'Nn1g06853' => 'nnu', 'Nn3g18360' => 'nnu', 'Nn4g26328' => 'nnu', 'Nn5g27531' => 'nnu', 'Nn6g34899' => 'nnu', 'Nn7g36299' => 'nnu', 'Oeu021485.1' => 'oeu', 'Oeu022433.1' => 'oeu', 'Oeu032111.1' => 'oeu', 'Oeu051608.1' => 'oeu', 'Os01g0860601' => 'osa', 'Os03g0659200' => 'osa', 'Os03g0835900' => 'osa', 'Os04g0412200' => 'osa', 'Os05g0443500' => 'osa', 'Os07g0251500' => 'osa', 'Os08g0104600' => 'osa', 'Peaxi162Scf00003g00047' => 'pax', 'Peaxi162Scf00003g00052' => 'pax', 'Peaxi162Scf00003g00394' => 'pax', 'Peaxi162Scf00091g00621' => 'pax', 'Peaxi162Scf00152g00146' => 'pax', 'Peaxi162Scf00173g00025' => 'pax', 'Peaxi162Scf00195g00102' => 'pax', 'Peaxi162Scf00402g00013' => 'pax', 'Peaxi162Scf00519g00618' => 'pax', 'PGR004G2838' => 'pgr', 'PGR044G2275' => 'pgr', 'PGR102G1377' => 'pgr', 'PGR119G1245' => 'pgr', 'PGR142G4449' => 'pgr', 'PGSC0003DMG400004532' => 'stu', 'PGSC0003DMG400011950' => 'stu', 'PGSC0003DMG400023391' => 'stu', 'PGSC0003DMG400023985' => 'stu', 'PGSC0003DMG400026360' => 'stu', 'PGSC0003DMG400035711' => 'stu', 'PGSC0003DMG400037286' => 'stu', 'PGSC0003DMG402005881' => 'stu', 'Phvul.002G045400' => 'pvu', 'Phvul.006G216600' => 'pvu', 'Phvul.006G216700' => 'pvu', 'Phvul.006G216800' => 'pvu', 'Phvul.007G022500' => 'pvu', 'Phvul.011G094400' => 'pvu', 'Potri.001G470700' => 'ptr', 'Potri.003G015200' => 'ptr', 'Potri.004G202500' => 'ptr', 'Potri.004G218400' => 'ptr', 'Potri.008G020100' => 'ptr', 'Potri.008G153200' => 'ptr', 'Potri.009G163800' => 'ptr', 'Potri.010G087300' => 'ptr', 'Potri.010G239100' => 'ptr', 'Pp3c10_16100' => 'ppa', 'Pp3c10_16880' => 'ppa', 'Pp3c16_6230' => 'ppa', 'Pp3c17_18910' => 'ppa', 'Pp3c3_22119' => 'ppa', 'Pp3c3_22140' => 'ppa', 'Pp3c4_8159' => 'ppa', 'Pp3c4_8171' => 'ppa', 'Pp3c4_8330' => 'ppa', 'PRCOL_00004098' => 'pco', 'Prupe.1G013900' => 'ppe', 'Prupe.1G226300' => 'ppe', 'Prupe.1G573600' => 'ppe', 'Prupe.6G130100' => 'ppe', 'Psat3g090040' => 'psa', 'Psat4g210440' => 'psa', 'Psat6g231040' => 'psa', 'Psat6g231080' => 'psa', 'Psat7g063000' => 'psa', 'Psat7g188000' => 'psa', 'Psat7g188040' => 'psa', 'PSO017G0206' => 'pso', 'PSO170G0501' => 'pso', 'PSO170G6422' => 'pso', 'PSO210G7739' => 'pso', 'PSO339G1808' => 'pso', 'PSO339G6135' => 'pso', 'PSO384G0010' => 'pso', 'PSO384G0964' => 'pso', 'PSO761G0050' => 'pso', 'PSO782G4085' => 'pso', 'QL01p012264' => 'qlo', 'QL02p099491' => 'qlo', 'QL03p033868' => 'qlo', 'QL04p046678' => 'qlo', 'QL06p002448' => 'qlo', 'RcHm_v2.0_Chr4g0416181' => 'rch', 'RcHm_v2.0_Chr5g0044701' => 'rch', 'RcHm_v2.0_Chr6g0265781' => 'rch', 'RcHm_v2.0_Chr7g0221031' => 'rch', 'Rhsim04G0202000' => 'rsi', 'Rhsim11G0127300' => 'rsi', 'Rhsim13G0111800' => 'rsi', 'Sabra01G0165600' => 'sbr', 'Sabra03G0008300' => 'sbr', 'Sabra04G0136900' => 'sbr', 'Sabra08G0013400' => 'sbr', 'Sabra08G0116800' => 'sbr', 'Sabra09G0128000' => 'sbr', 'Sabra10G0055500' => 'sbr', 'Sabra10G0073300' => 'sbr', 'SalBow3G0385' => 'sbo', 'SalBow3G1119' => 'sbo', 'SalBow3G2005' => 'sbo', 'SalBow6G2563' => 'sbo', 'SalBow6G6386' => 'sbo', 'Sc06g0008800' => 'sci', 'Sc07g0004950' => 'sci', 'Sc09g0005340' => 'sci', 'Sc13g0004410' => 'sci', 'Sc21g0007090' => 'sci', 'Sed0009285' => 'sed', 'Sed0017583' => 'sed', 'Sed0019699' => 'sed', 'Sed0023107' => 'sed', 'SEGI_10916' => 'sgi', 'SEGI_16217' => 'sgi', 'SEGI_19466' => 'sgi', 'SEGI_41115' => 'sgi', 'SGA_v2.0_scaffold111G31534' => 'sas', 'SGA_v2.0_scaffold22G09864' => 'sas', 'SGA_v2.0_scaffold338G49219' => 'sas', 'SGA_v2.0_scaffold92G28298' => 'sas', 'SMO119G0064' => 'smo', 'SMO223G0038' => 'smo', 'SMO347G0584' => 'smo', 'SMO351G0010' => 'smo', 'SMO356G0404' => 'smo', 'Solyc01g103920.3' => 'sly', 'Solyc04g009710.2' => 'sly', 'Solyc05g055280.2' => 'sly', 'Solyc10g044520.3' => 'sly', 'Solyc10g075160.1' => 'sly', 'Solyc11g006910.3' => 'sly', 'Solyc11g068430.3' => 'sly', 'Sopen01g046310' => 'spe', 'Sopen03g001200' => 'spe', 'Sopen04g004830' => 'spe', 'Sopen05g033720' => 'spe', 'Sopen06g030740' => 'spe', 'Sopen10g013090' => 'spe', 'Sopen10g027630' => 'spe', 'Sopen10g027640' => 'spe', 'Sopen11g002820' => 'spe', 'Sopen11g027140' => 'spe', 'Sp1g09680' => 'spa', 'Sp2g03630' => 'spa', 'Sp4g10320' => 'spa', 'Sp6g33400' => 'spa', 'Sp7g13030' => 'spa', 'TAR365G0317' => 'tar', 'TAR376G0979' => 'tar', 'TAR623G1665' => 'tar', 'TAR633G2373' => 'tar', 'TAR636G1400' => 'tar', 'THA.LOC104800529' => 'tha', 'THA.LOC104808547' => 'tha', 'THA.LOC104809615' => 'tha', 'THA.LOC104815724' => 'tha', 'THA.LOC104818480' => 'tha', 'THA.LOC104819179' => 'tha', 'THA.LOC104822270' => 'tha', 'THA.LOC104826425' => 'tha', 'Thecc.02G089700' => 'tca', 'Thecc.04G232300' => 'tca', 'Thecc.09G283400' => 'tca', 'Thhalv10009020m.g' => 'esa', 'Thhalv10015506m.g' => 'esa', 'Thhalv10017364m.g' => 'esa', 'Thhalv10023742m.g' => 'esa', 'Thhalv10026483m.g' => 'esa', 'TPR.G17232' => 'tpr', 'TPR.G2133' => 'tpr', 'TPR.G2498' => 'tpr', 'TPR.G31942' => 'tpr', 'TPR.G37877' => 'tpr', 'TPR.G4571' => 'tpr', 'TWI14G1113' => 'twi', 'TWI15G0426' => 'twi', 'TWI31G1005' => 'twi', 'TWI38G0513' => 'twi', 'TWI38G1484' => 'twi', 'TWI73G1098' => 'twi', 'unitig_26.g10519' => 'ugi', 'unitig_736.g22395' => 'ugi', 'unitig_747.g21234' => 'ugi', 'unitig_747.g21942' => 'ugi', 'vmacro14351' => 'vma', 'VMungo0540G0082' => 'vmu', 'VMungo0540G0405' => 'vmu', 'VMungo0540G1486' => 'vmu', 'VMungo0540G1692' => 'vmu', 'VMungo0720G2473' => 'vmu', 'VMungo1127G1562' => 'vmu', 'VMungo1215G1918' => 'vmu', 'Zm00001eb052650' => 'zma', 'Zm00001eb063710' => 'zma', 'Zm00001eb083950' => 'zma', 'Zm00001eb174420' => 'zma', 'Zm00001eb260140' => 'zma', 'Zm00001eb260150' => 'zma', 'Zm00001eb260160' => 'zma', 'Zm00001eb348290' => 'zma', 'Zm00001eb366870' => 'zma', 'Zm00001eb421930' => 'zma' ), 'gf_id' => 'HOM05D001025', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001025' ), 'data_identifier' => 'HOM05D001025', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001025', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '592', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p22650' => 'bna', 'A01p29720' => 'bna', 'A03p26560' => 'bna', 'A03p68820' => 'bna', 'A04p20980' => 'bna', 'A06p07730' => 'bna', 'A07p18260' => 'bna', 'A08p33710' => 'bna', 'A09p16970' => 'bna', 'A10p27490' => 'bna', 'Aa31LG1G17300' => 'aar', 'Aa31LG1G3910' => 'aar', 'Aa31LG2G9630' => 'aar', 'Aa31LG5G8360' => 'aar', 'Aa31LG9G2410' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4699' => 'aag', 'Actinidia23512' => 'ach', 'Actinidia37080' => 'ach', 'Ah.01g020380' => 'amhyb', 'Ah.08g215710' => 'amhyb', 'Ah.09g225110' => 'amhyb', 'Ah.10g036680' => 'amhyb', 'AL1G21940' => 'aly', 'AL2G15540' => 'aly', 'AL4G21520' => 'aly', 'AL7G40960' => 'aly', 'Aqoxy2G01191' => 'aox', 'Aqoxy2G03393' => 'aox', 'Aqoxy4G02775' => 'aox', 'Aqoxy6G00058' => 'aox', 'arahy.Tifrunner.gnm1.ann1.9X74H2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CW3FX9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R485W7' => 'arhy', 'AT1G10960' => 'ath', 'AT1G60950' => 'ath', 'AT2G27510' => 'ath', 'AT4G14890' => 'ath', 'AT5G10000' => 'ath', 'ATR0665G624' => 'atr', 'ATR0697G138' => 'atr', 'ATR0776G046' => 'atr', 'ATR1134G135' => 'atr', 'Atru.chr12.1025' => 'acertr', 'Atru.chr3.3241' => 'acertr', 'Atru.chr4.2460' => 'acertr', 'AUR62007427' => 'cqu', 'AUR62010960' => 'cqu', 'AUR62012201' => 'cqu', 'AUR62021470' => 'cqu', 'AUR62022834' => 'cqu', 'AUR62033635' => 'cqu', 'AUR62036186' => 'cqu', 'BcaB01g03077' => 'bca', 'BcaB02g10093' => 'bca', 'BcaB04g20295' => 'bca', 'BcaB06g28147' => 'bca', 'BcaB07g31253' => 'bca', 'BcaC01g04946' => 'bca', 'BcaC02g10614' => 'bca', 'BcaC02g10885' => 'bca', 'BcaC04g19356' => 'bca', 'BcaC04g22297' => 'bca', 'BcaC05g24977' => 'bca', 'BcaC06g31823' => 'bca', 'BcaC07g38633' => 'bca', 'BcaC09g49353' => 'bca', 'BcaC09g50168' => 'bca', 'BcaNung00322' => 'bca', 'BcaNung04769' => 'bca', 'BolC1t02753H' => 'bol', 'BolC1t03721H' => 'bol', 'BolC3t15525H' => 'bol', 'BolC4t23903H' => 'bol', 'BolC4t24231H' => 'bol', 'BolC4t27209H' => 'bol', 'BolC5t29671H' => 'bol', 'BolC8t49044H' => 'bol', 'BolC9t54999H' => 'bol', 'BolC9t59517H' => 'bol', 'BraA01t02178Z' => 'bra', 'BraA01t03099Z' => 'bra', 'BraA03t11867Z' => 'bra', 'BraA04t17667Z' => 'bra', 'BraA07t29542Z' => 'bra', 'BraA08t35287Z' => 'bra', 'BraA09t37334Z' => 'bra', 'BraA10t44801Z' => 'bra', 'BraSC39t46181Z' => 'bra', 'C01p28240' => 'bna', 'C01p37530' => 'bna', 'C03p31820' => 'bna', 'C04p24080' => 'bna', 'C04p25790' => 'bna', 'C04p56770' => 'bna', 'C05p09310' => 'bna', 'C09p21010' => 'bna', 'C09p67560' => 'bna', 'CAN.G1324.7' => 'can', 'CAN.G1358.10' => 'can', 'CAN.G1550.2' => 'can', 'CAN.G186.56' => 'can', 'CAN.G1965.1' => 'can', 'CAN.G645.15' => 'can', 'CAN.G798.26' => 'can', 'CAN.G798.27' => 'can', 'CAN.G798.29' => 'can', 'CAN.G919.31' => 'can', 'CANSAT11G0133' => 'cansat', 'CANSAT11G1171' => 'cansat', 'CANSAT11G2056' => 'cansat', 'CANSAT56G1202' => 'cansat', 'CANSAT56G1514' => 'cansat', 'CANSAT78G0455' => 'cansat', 'CARHR011190' => 'chi', 'CARHR051980' => 'chi', 'CARHR120170' => 'chi', 'CARHR203310' => 'chi', 'CARHR221490' => 'chi', 'Carub.0001s1054' => 'cru', 'Carub.0002s0431' => 'cru', 'Carub.0004s0818' => 'cru', 'Carub.0006s0846' => 'cru', 'Carub.0007s2722' => 'cru', 'Ca_00058_v3' => 'car', 'Ca_17831_v3' => 'car', 'Ca_19408_v3' => 'car', 'Ca_24397_v3' => 'car', 'Ca_25664_v3' => 'car', 'CBR_g21818' => 'cbr', 'CBR_g31195' => 'cbr', 'CBR_g32282' => 'cbr', 'CBR_g39599' => 'cbr', 'CBR_g49410' => 'cbr', 'Cc01_g09120' => 'ccan', 'Cc01_g09130' => 'ccan', 'Cc02_g09630' => 'ccan', 'Cc02_g22810' => 'ccan', 'Cc03_g03810' => 'ccan', 'CDE02G3718' => 'cde', 'CDE04G3183' => 'cde', 'CDE07G1046' => 'cde', 'CDE08G0480' => 'cde', 'Cfa005493' => 'cfa', 'Cfa010312' => 'cfa', 'Cfa015648' => 'cfa', 'Ciclev10002793m.g' => 'ccl', 'Ciclev10003356m.g' => 'ccl', 'Ciclev10006141m.g' => 'ccl', 'Ciclev10016676m.g' => 'ccl', 'Ciclev10017081m.g' => 'ccl', 'Ciclev10029499m.g' => 'ccl', 'CiPaw.01G166300' => 'cil', 'CiPaw.06G145600' => 'cil', 'CiPaw.13G040100' => 'cil', 'CiPaw.13G135800' => 'cil', 'ClCG01G012230' => 'cla', 'ClCG05G009510' => 'cla', 'ClCG08G008270' => 'cla', 'COL.COLO4_11763' => 'col', 'COL.COLO4_19876' => 'col', 'COL.COLO4_21481' => 'col', 'Cpa.g.sc118.34' => 'cpa', 'Cpa.g.sc32.13' => 'cpa', 'Cpa.g.sc58.103' => 'cpa', 'Cre03.g183850' => 'cre', 'Cre06.g306350' => 'cre', 'Cre07.g334800' => 'cre', 'Cre12.g487900' => 'cre', 'Cre14.g626700' => 'cre', 'Cre16.g658400' => 'cre', 'Cre17.g700950' => 'cre', 'CsaV3_1G014830' => 'csa', 'CsaV3_3G013320' => 'csa', 'CsaV3_3G019210' => 'csa', 'CsaV3_3G019220' => 'csa', 'CsaV3_6G004230' => 'csa', 'CSS0003773' => 'camsi', 'CSS0004563' => 'camsi', 'CSS0013949' => 'camsi', 'CSS0025971' => 'camsi', 'CSS0028570' => 'camsi', 'CSS0033127' => 'camsi', 'CSS0036051' => 'camsi', 'CSS0040087' => 'camsi', 'CSS0043179' => 'camsi', 'DCAR_006161' => 'dca', 'DCAR_010351' => 'dca', 'DCAR_012197' => 'dca', 'DCAR_024162' => 'dca', 'Dinv01030' => 'din', 'Dinv10924' => 'din', 'Dinv11835' => 'din', 'Dinv22841' => 'din', 'Dinv42553' => 'din', 'Duzib052G0560' => 'dzi', 'Duzib132G0389' => 'dzi', 'Duzib150G1181' => 'dzi', 'Duzib168G0623' => 'dzi', 'Duzib170G1036' => 'dzi', 'Duzib212G0200' => 'dzi', 'Duzib248G0194' => 'dzi', 'ECA232G2193' => 'eca', 'ECA233G0302' => 'eca', 'ECA234G2813' => 'eca', 'ECA234G4866' => 'eca', 'ECA240G3932' => 'eca', 'ECA248G0385' => 'eca', 'EL10Ac2g04781' => 'bvu', 'EL10Ac3g06445' => 'bvu', 'EL10Ac7g15825' => 'bvu', 'EL10Ac8g18550' => 'bvu', 'Eucgr.B03849' => 'egr', 'Eucgr.I02744' => 'egr', 'Eucgr.J00264' => 'egr', 'Eucgr.J00493' => 'egr', 'FAN04G2181' => 'fan', 'FAN07G2666' => 'fan', 'FAN11G0024' => 'fan', 'FAN12G1105' => 'fan', 'FAN13G0302' => 'fan', 'FAN15G2781' => 'fan', 'FAN16G1274' => 'fan', 'FAN17G2988' => 'fan', 'FAN18G2621' => 'fan', 'FAN21G0013' => 'fan', 'FAN22G1211' => 'fan', 'FAN25G3626' => 'fan', 'FvH4_2g09491' => 'fve', 'FvH4_3g24910' => 'fve', 'FvH4_4g15630' => 'fve', 'FvH4_5g28820' => 'fve', 'Glyma.01G238000' => 'gma', 'Glyma.05G168400' => 'gma', 'Glyma.08G126800' => 'gma', 'Glyma.08G188500' => 'gma', 'Glyma.10G278900' => 'gma', 'Glyma.11G005700' => 'gma', 'Glyma.11G183300' => 'gma', 'Glyma.12G089200' => 'gma', 'Glyma.12G169400' => 'gma', 'Glyma.12G169500' => 'gma', 'Glyma.12G169600' => 'gma', 'Glyma.20G110800' => 'gma', 'Gohir.A03G192900' => 'ghi', 'Gohir.A03G193000' => 'ghi', 'Gohir.A05G080700' => 'ghi', 'Gohir.A09G216000' => 'ghi', 'Gohir.A12G027700' => 'ghi', 'Gohir.A13G036200' => 'ghi', 'Gohir.A13G222600' => 'ghi', 'Gohir.D02G213900' => 'ghi', 'Gohir.D02G214000' => 'ghi', 'Gohir.D05G083700' => 'ghi', 'Gohir.D05G083800' => 'ghi', 'Gohir.D05G083850' => 'ghi', 'Gohir.D08G015400' => 'ghi', 'Gohir.D09G218400' => 'ghi', 'Gohir.D12G027100' => 'ghi', 'Gohir.D13G034500' => 'ghi', 'Gohir.D13G227400' => 'ghi', 'Gorai.005G241800' => 'gra', 'Gorai.005G241900' => 'gra', 'Gorai.006G239400' => 'gra', 'Gorai.008G027600' => 'gra', 'Gorai.009G085400' => 'gra', 'Gorai.009G085500' => 'gra', 'Gorai.013G039000' => 'gra', 'Gorai.013G194800' => 'gra', 'Gorai.013G257900' => 'gra', 'GSVIVG01000982001' => 'vvi', 'GSVIVG01017981001' => 'vvi', 'HanXRQChr01g0024061' => 'han', 'HanXRQChr09g0247831' => 'han', 'HanXRQChr10g0294611' => 'han', 'HanXRQChr10g0294621' => 'han', 'HanXRQChr11g0346821' => 'han', 'HanXRQChr13g0397461' => 'han', 'HanXRQChr16g0513651' => 'han', 'HanXRQChr16g0513701' => 'han', 'Haze_00897' => 'cav', 'Haze_01745' => 'cav', 'Haze_02486' => 'cav', 'Haze_02487' => 'cav', 'Haze_23374' => 'cav', 'Hma1.2p1_0578F.1_g182520' => 'hma', 'Hma1.2p1_0602F.1_g187350' => 'hma', 'Hma1.2p1_0602F.1_g187360' => 'hma', 'Hma1.2p1_0874F.1_g231320' => 'hma', 'Hma1.2p1_1197F.1_g266210' => 'hma', 'Hma1.2p1_1197F.1_g266220' => 'hma', 'Hma1.2p1_2167F.1_g315895' => 'hma', 'Hma1.2p1_2190F.1_g316640' => 'hma', 'Hma1.2p1_3645F.1_g337153' => 'hma', 'HPP92_004907' => 'vpl', 'HPP92_012134' => 'vpl', 'HPP92_025136' => 'vpl', 'HPP92_026087' => 'vpl', 'Hund06782' => 'sun', 'Hund06784' => 'sun', 'Lalb_Chr01g0004861' => 'lal', 'Lalb_Chr02g0140591' => 'lal', 'Lalb_Chr02g0140611' => 'lal', 'Lalb_Chr03g0028101' => 'lal', 'Lalb_Chr07g0185791' => 'lal', 'Lalb_Chr12g0204491' => 'lal', 'Lalb_Chr13g0295671' => 'lal', 'Lalb_Chr19g0136461' => 'lal', 'Lalb_Chr21g0309191' => 'lal', 'Lj1g0028158' => 'lja', 'Lj1P236T38' => 'lonja', 'Lj2C32G2' => 'lonja', 'Lj2P944T8' => 'lonja', 'Lj2P963T15' => 'lonja', 'Lj3g0011788' => 'lja', 'Lj4g0025027' => 'lja', 'Lj5P255T36' => 'lonja', 'Lj6g0018866' => 'lja', 'Lj6P608T31' => 'lonja', 'LjContig00408g0008879' => 'lja', 'Lsat_1_v5_gn_5_105820' => 'lsa', 'Lsat_1_v5_gn_6_38800' => 'lsa', 'Lsat_1_v5_gn_7_67141' => 'lsa', 'Manes.04G003400' => 'mes', 'Manes.07G020000' => 'mes', 'Manes.07G020100' => 'mes', 'Manes.07G020150' => 'mes', 'Manes.10G061500' => 'mes', 'Manes.10G123200' => 'mes', 'Manes.11G161900' => 'mes', 'Manes.15G029300' => 'mes', 'Mapoly0071s0018' => 'mpo', 'Mapoly0082s0023' => 'mpo', 'Mapoly3477s0001' => 'mpo', 'MBI05_g31233_MAGBIO' => 'mbi', 'MBI09_g05946_MAGBIO' => 'mbi', 'MBI09_g05947_MAGBIO' => 'mbi', 'MBI17_g08346_MAGBIO' => 'mbi', 'MCO04G038' => 'mco', 'MCO09G370' => 'mco', 'MCO13G605' => 'mco', 'MD00G1075500' => 'mdo', 'MD03G1144300' => 'mdo', 'MD08G1236800' => 'mdo', 'MD13G1193300' => 'mdo', 'MD15G1428700' => 'mdo', 'Medtr1g112030' => 'mtr', 'Medtr1g112050' => 'mtr', 'Medtr2g006290' => 'mtr', 'Medtr2g086510' => 'mtr', 'Medtr4g053120' => 'mtr', 'Medtr5g006320' => 'mtr', 'Medtr8g088720' => 'mtr', 'MELO3C004712.2' => 'cme', 'MELO3C006533.2' => 'cme', 'MELO3C019438.2' => 'cme', 'MELO3C019440.2' => 'cme', 'MELO3C019441.2' => 'cme', 'MELO3C019895.2' => 'cme', 'Migut.B00811' => 'egut', 'Migut.D02447' => 'egut', 'Migut.F00875' => 'egut', 'Migut.N00186' => 'egut', 'Migut.N01051' => 'egut', 'Migut.N02491' => 'egut', 'Migut.O00784' => 'egut', 'MSTRG.12367' => 'ama', 'MSTRG.18756' => 'ama', 'MSTRG.21042' => 'ama', 'Nitab4.5_0000559g0040' => 'nta', 'Nitab4.5_0000667g0190' => 'nta', 'Nitab4.5_0000755g0160' => 'nta', 'Nitab4.5_0001216g0080' => 'nta', 'Nitab4.5_0004069g0040' => 'nta', 'Nitab4.5_0004129g0010' => 'nta', 'Nitab4.5_0005744g0030' => 'nta', 'Nitab4.5_0006996g0030' => 'nta', 'Nitab4.5_0008971g0040' => 'nta', 'Nitab4.5_0009769g0020' => 'nta', 'Nitab4.5_0009833g0010' => 'nta', 'Nitab4.5_0013140g0020' => 'nta', 'Nn003s41376' => 'nnu', 'Nn1g01857' => 'nnu', 'Nn1g03611' => 'nnu', 'Nn1g06853' => 'nnu', 'Nn3g18360' => 'nnu', 'Nn4g26328' => 'nnu', 'Nn5g27531' => 'nnu', 'Nn6g34899' => 'nnu', 'Nn7g36299' => 'nnu', 'Oeu021485.1' => 'oeu', 'Oeu022433.1' => 'oeu', 'Oeu032111.1' => 'oeu', 'Oeu051608.1' => 'oeu', 'Os01g0860601' => 'osa', 'Os03g0659200' => 'osa', 'Os03g0835900' => 'osa', 'Os04g0412200' => 'osa', 'Os05g0443500' => 'osa', 'Os07g0251500' => 'osa', 'Os08g0104600' => 'osa', 'Peaxi162Scf00003g00047' => 'pax', 'Peaxi162Scf00003g00052' => 'pax', 'Peaxi162Scf00003g00394' => 'pax', 'Peaxi162Scf00091g00621' => 'pax', 'Peaxi162Scf00152g00146' => 'pax', 'Peaxi162Scf00173g00025' => 'pax', 'Peaxi162Scf00195g00102' => 'pax', 'Peaxi162Scf00402g00013' => 'pax', 'Peaxi162Scf00519g00618' => 'pax', 'PGR004G2838' => 'pgr', 'PGR044G2275' => 'pgr', 'PGR102G1377' => 'pgr', 'PGR119G1245' => 'pgr', 'PGR142G4449' => 'pgr', 'PGSC0003DMG400004532' => 'stu', 'PGSC0003DMG400011950' => 'stu', 'PGSC0003DMG400023391' => 'stu', 'PGSC0003DMG400023985' => 'stu', 'PGSC0003DMG400026360' => 'stu', 'PGSC0003DMG400035711' => 'stu', 'PGSC0003DMG400037286' => 'stu', 'PGSC0003DMG402005881' => 'stu', 'Phvul.002G045400' => 'pvu', 'Phvul.006G216600' => 'pvu', 'Phvul.006G216700' => 'pvu', 'Phvul.006G216800' => 'pvu', 'Phvul.007G022500' => 'pvu', 'Phvul.011G094400' => 'pvu', 'Potri.001G470700' => 'ptr', 'Potri.003G015200' => 'ptr', 'Potri.004G202500' => 'ptr', 'Potri.004G218400' => 'ptr', 'Potri.008G020100' => 'ptr', 'Potri.008G153200' => 'ptr', 'Potri.009G163800' => 'ptr', 'Potri.010G087300' => 'ptr', 'Potri.010G239100' => 'ptr', 'Pp3c10_16100' => 'ppa', 'Pp3c10_16880' => 'ppa', 'Pp3c16_6230' => 'ppa', 'Pp3c17_18910' => 'ppa', 'Pp3c3_22119' => 'ppa', 'Pp3c3_22140' => 'ppa', 'Pp3c4_8159' => 'ppa', 'Pp3c4_8171' => 'ppa', 'Pp3c4_8330' => 'ppa', 'PRCOL_00004098' => 'pco', 'Prupe.1G013900' => 'ppe', 'Prupe.1G226300' => 'ppe', 'Prupe.1G573600' => 'ppe', 'Prupe.6G130100' => 'ppe', 'Psat3g090040' => 'psa', 'Psat4g210440' => 'psa', 'Psat6g231040' => 'psa', 'Psat6g231080' => 'psa', 'Psat7g063000' => 'psa', 'Psat7g188000' => 'psa', 'Psat7g188040' => 'psa', 'PSO017G0206' => 'pso', 'PSO170G0501' => 'pso', 'PSO170G6422' => 'pso', 'PSO210G7739' => 'pso', 'PSO339G1808' => 'pso', 'PSO339G6135' => 'pso', 'PSO384G0010' => 'pso', 'PSO384G0964' => 'pso', 'PSO761G0050' => 'pso', 'PSO782G4085' => 'pso', 'QL01p012264' => 'qlo', 'QL02p099491' => 'qlo', 'QL03p033868' => 'qlo', 'QL04p046678' => 'qlo', 'QL06p002448' => 'qlo', 'RcHm_v2.0_Chr4g0416181' => 'rch', 'RcHm_v2.0_Chr5g0044701' => 'rch', 'RcHm_v2.0_Chr6g0265781' => 'rch', 'RcHm_v2.0_Chr7g0221031' => 'rch', 'Rhsim04G0202000' => 'rsi', 'Rhsim11G0127300' => 'rsi', 'Rhsim13G0111800' => 'rsi', 'Sabra01G0165600' => 'sbr', 'Sabra03G0008300' => 'sbr', 'Sabra04G0136900' => 'sbr', 'Sabra08G0013400' => 'sbr', 'Sabra08G0116800' => 'sbr', 'Sabra09G0128000' => 'sbr', 'Sabra10G0055500' => 'sbr', 'Sabra10G0073300' => 'sbr', 'SalBow3G0385' => 'sbo', 'SalBow3G1119' => 'sbo', 'SalBow3G2005' => 'sbo', 'SalBow6G2563' => 'sbo', 'SalBow6G6386' => 'sbo', 'Sc06g0008800' => 'sci', 'Sc07g0004950' => 'sci', 'Sc09g0005340' => 'sci', 'Sc13g0004410' => 'sci', 'Sc21g0007090' => 'sci', 'Sed0009285' => 'sed', 'Sed0017583' => 'sed', 'Sed0019699' => 'sed', 'Sed0023107' => 'sed', 'SEGI_10916' => 'sgi', 'SEGI_16217' => 'sgi', 'SEGI_19466' => 'sgi', 'SEGI_41115' => 'sgi', 'SGA_v2.0_scaffold111G31534' => 'sas', 'SGA_v2.0_scaffold22G09864' => 'sas', 'SGA_v2.0_scaffold338G49219' => 'sas', 'SGA_v2.0_scaffold92G28298' => 'sas', 'SMO119G0064' => 'smo', 'SMO223G0038' => 'smo', 'SMO347G0584' => 'smo', 'SMO351G0010' => 'smo', 'SMO356G0404' => 'smo', 'Solyc01g103920.3' => 'sly', 'Solyc04g009710.2' => 'sly', 'Solyc05g055280.2' => 'sly', 'Solyc10g044520.3' => 'sly', 'Solyc10g075160.1' => 'sly', 'Solyc11g006910.3' => 'sly', 'Solyc11g068430.3' => 'sly', 'Sopen01g046310' => 'spe', 'Sopen03g001200' => 'spe', 'Sopen04g004830' => 'spe', 'Sopen05g033720' => 'spe', 'Sopen06g030740' => 'spe', 'Sopen10g013090' => 'spe', 'Sopen10g027630' => 'spe', 'Sopen10g027640' => 'spe', 'Sopen11g002820' => 'spe', 'Sopen11g027140' => 'spe', 'Sp1g09680' => 'spa', 'Sp2g03630' => 'spa', 'Sp4g10320' => 'spa', 'Sp6g33400' => 'spa', 'Sp7g13030' => 'spa', 'TAR365G0317' => 'tar', 'TAR376G0979' => 'tar', 'TAR623G1665' => 'tar', 'TAR633G2373' => 'tar', 'TAR636G1400' => 'tar', 'THA.LOC104800529' => 'tha', 'THA.LOC104808547' => 'tha', 'THA.LOC104809615' => 'tha', 'THA.LOC104815724' => 'tha', 'THA.LOC104818480' => 'tha', 'THA.LOC104819179' => 'tha', 'THA.LOC104822270' => 'tha', 'THA.LOC104826425' => 'tha', 'Thecc.02G089700' => 'tca', 'Thecc.04G232300' => 'tca', 'Thecc.09G283400' => 'tca', 'Thhalv10009020m.g' => 'esa', 'Thhalv10015506m.g' => 'esa', 'Thhalv10017364m.g' => 'esa', 'Thhalv10023742m.g' => 'esa', 'Thhalv10026483m.g' => 'esa', 'TPR.G17232' => 'tpr', 'TPR.G2133' => 'tpr', 'TPR.G2498' => 'tpr', 'TPR.G31942' => 'tpr', 'TPR.G37877' => 'tpr', 'TPR.G4571' => 'tpr', 'TWI14G1113' => 'twi', 'TWI15G0426' => 'twi', 'TWI31G1005' => 'twi', 'TWI38G0513' => 'twi', 'TWI38G1484' => 'twi', 'TWI73G1098' => 'twi', 'unitig_26.g10519' => 'ugi', 'unitig_736.g22395' => 'ugi', 'unitig_747.g21234' => 'ugi', 'unitig_747.g21942' => 'ugi', 'vmacro14351' => 'vma', 'VMungo0540G0082' => 'vmu', 'VMungo0540G0405' => 'vmu', 'VMungo0540G1486' => 'vmu', 'VMungo0540G1692' => 'vmu', 'VMungo0720G2473' => 'vmu', 'VMungo1127G1562' => 'vmu', 'VMungo1215G1918' => 'vmu', 'Zm00001eb052650' => 'zma', 'Zm00001eb063710' => 'zma', 'Zm00001eb083950' => 'zma', 'Zm00001eb174420' => 'zma', 'Zm00001eb260140' => 'zma', 'Zm00001eb260150' => 'zma', 'Zm00001eb260160' => 'zma', 'Zm00001eb348290' => 'zma', 'Zm00001eb366870' => 'zma', 'Zm00001eb421930' => 'zma' ) $gf_id = 'HOM05D001025' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001025' ) $data_identifier = 'HOM05D001025' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 19, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 2, 'amhyb' => (int) 4, 'aly' => (int) 4, 'aox' => (int) 4, 'arhy' => (int) 3, 'ath' => (int) 5, 'atr' => (int) 4, 'acertr' => (int) 3, 'cqu' => (int) 7, 'bca' => (int) 17, 'bol' => (int) 10, 'bra' => (int) 9, 'can' => (int) 10, 'cansat' => (int) 6, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 5, 'cbr' => (int) 5, 'ccan' => (int) 5, 'cde' => (int) 4, 'cfa' => (int) 3, 'ccl' => (int) 6, 'cil' => (int) 4, 'cla' => (int) 3, 'col' => (int) 3, 'cpa' => (int) 3, 'cre' => (int) 7, 'csa' => (int) 5, 'camsi' => (int) 9, 'dca' => (int) 4, 'din' => (int) 5, 'dzi' => (int) 7, 'eca' => (int) 6, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 12, 'fve' => (int) 4, 'gma' => (int) 12, 'ghi' => (int) 17, 'gra' => (int) 9, 'vvi' => (int) 2, 'han' => (int) 8, 'cav' => (int) 5, 'hma' => (int) 9, 'vpl' => (int) 4, 'sun' => (int) 2, 'lal' => (int) 9, 'lja' => (int) 5, 'lonja' => (int) 6, 'lsa' => (int) 3, 'mes' => (int) 8, 'mpo' => (int) 3, 'mbi' => (int) 4, 'mco' => (int) 3, 'mdo' => (int) 5, 'mtr' => (int) 7, 'cme' => (int) 6, 'egut' => (int) 7, 'ama' => (int) 3, 'nta' => (int) 12, 'nnu' => (int) 9, 'oeu' => (int) 4, 'osa' => (int) 7, 'pax' => (int) 9, 'pgr' => (int) 5, 'stu' => (int) 8, 'pvu' => (int) 6, 'ptr' => (int) 9, 'ppa' => (int) 9, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 7, 'pso' => (int) 10, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 3, 'sbr' => (int) 8, 'sbo' => (int) 5, 'sci' => (int) 5, 'sed' => (int) 4, 'sgi' => (int) 4, 'sas' => (int) 4, 'smo' => (int) 5, 'sly' => (int) 7, 'spe' => (int) 10, 'spa' => (int) 5, 'tar' => (int) 5, 'tha' => (int) 8, 'tca' => (int) 3, 'esa' => (int) 5, 'tpr' => (int) 6, 'twi' => (int) 6, 'ugi' => (int) 4, 'vma' => (int) 1, 'vmu' => (int) 7, 'zma' => (int) 10 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb421930' $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' => 'HOM05D001025', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '592', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p22650' => 'bna', 'A01p29720' => 'bna', 'A03p26560' => 'bna', 'A03p68820' => 'bna', 'A04p20980' => 'bna', 'A06p07730' => 'bna', 'A07p18260' => 'bna', 'A08p33710' => 'bna', 'A09p16970' => 'bna', 'A10p27490' => 'bna', 'Aa31LG1G17300' => 'aar', 'Aa31LG1G3910' => 'aar', 'Aa31LG2G9630' => 'aar', 'Aa31LG5G8360' => 'aar', 'Aa31LG9G2410' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4699' => 'aag', 'Actinidia23512' => 'ach', 'Actinidia37080' => 'ach', 'Ah.01g020380' => 'amhyb', 'Ah.08g215710' => 'amhyb', 'Ah.09g225110' => 'amhyb', 'Ah.10g036680' => 'amhyb', 'AL1G21940' => 'aly', 'AL2G15540' => 'aly', 'AL4G21520' => 'aly', 'AL7G40960' => 'aly', 'Aqoxy2G01191' => 'aox', 'Aqoxy2G03393' => 'aox', 'Aqoxy4G02775' => 'aox', 'Aqoxy6G00058' => 'aox', 'arahy.Tifrunner.gnm1.ann1.9X74H2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CW3FX9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R485W7' => 'arhy', 'AT1G10960' => 'ath', 'AT1G60950' => 'ath', 'AT2G27510' => 'ath', 'AT4G14890' => 'ath', 'AT5G10000' => 'ath', 'ATR0665G624' => 'atr', 'ATR0697G138' => 'atr', 'ATR0776G046' => 'atr', 'ATR1134G135' => 'atr', 'Atru.chr12.1025' => 'acertr', 'Atru.chr3.3241' => 'acertr', 'Atru.chr4.2460' => 'acertr', 'AUR62007427' => 'cqu', 'AUR62010960' => 'cqu', 'AUR62012201' => 'cqu', 'AUR62021470' => 'cqu', 'AUR62022834' => 'cqu', 'AUR62033635' => 'cqu', 'AUR62036186' => 'cqu', 'BcaB01g03077' => 'bca', 'BcaB02g10093' => 'bca', 'BcaB04g20295' => 'bca', 'BcaB06g28147' => 'bca', 'BcaB07g31253' => 'bca', 'BcaC01g04946' => 'bca', 'BcaC02g10614' => 'bca', 'BcaC02g10885' => 'bca', 'BcaC04g19356' => 'bca', 'BcaC04g22297' => 'bca', 'BcaC05g24977' => 'bca', 'BcaC06g31823' => 'bca', 'BcaC07g38633' => 'bca', 'BcaC09g49353' => 'bca', 'BcaC09g50168' => 'bca', 'BcaNung00322' => 'bca', 'BcaNung04769' => 'bca', 'BolC1t02753H' => 'bol', 'BolC1t03721H' => 'bol', 'BolC3t15525H' => 'bol', 'BolC4t23903H' => 'bol', 'BolC4t24231H' => 'bol', 'BolC4t27209H' => 'bol', 'BolC5t29671H' => 'bol', 'BolC8t49044H' => 'bol', 'BolC9t54999H' => 'bol', 'BolC9t59517H' => 'bol', 'BraA01t02178Z' => 'bra', 'BraA01t03099Z' => 'bra', 'BraA03t11867Z' => 'bra', 'BraA04t17667Z' => 'bra', 'BraA07t29542Z' => 'bra', 'BraA08t35287Z' => 'bra', 'BraA09t37334Z' => 'bra', 'BraA10t44801Z' => 'bra', 'BraSC39t46181Z' => 'bra', 'C01p28240' => 'bna', 'C01p37530' => 'bna', 'C03p31820' => 'bna', 'C04p24080' => 'bna', 'C04p25790' => 'bna', 'C04p56770' => 'bna', 'C05p09310' => 'bna', 'C09p21010' => 'bna', 'C09p67560' => 'bna', 'CAN.G1324.7' => 'can', 'CAN.G1358.10' => 'can', 'CAN.G1550.2' => 'can', 'CAN.G186.56' => 'can', 'CAN.G1965.1' => 'can', 'CAN.G645.15' => 'can', 'CAN.G798.26' => 'can', 'CAN.G798.27' => 'can', 'CAN.G798.29' => 'can', 'CAN.G919.31' => 'can', 'CANSAT11G0133' => 'cansat', 'CANSAT11G1171' => 'cansat', 'CANSAT11G2056' => 'cansat', 'CANSAT56G1202' => 'cansat', 'CANSAT56G1514' => 'cansat', 'CANSAT78G0455' => 'cansat', 'CARHR011190' => 'chi', 'CARHR051980' => 'chi', 'CARHR120170' => 'chi', 'CARHR203310' => 'chi', 'CARHR221490' => 'chi', 'Carub.0001s1054' => 'cru', 'Carub.0002s0431' => 'cru', 'Carub.0004s0818' => 'cru', 'Carub.0006s0846' => 'cru', 'Carub.0007s2722' => 'cru', 'Ca_00058_v3' => 'car', 'Ca_17831_v3' => 'car', 'Ca_19408_v3' => 'car', 'Ca_24397_v3' => 'car', 'Ca_25664_v3' => 'car', 'CBR_g21818' => 'cbr', 'CBR_g31195' => 'cbr', 'CBR_g32282' => 'cbr', 'CBR_g39599' => 'cbr', 'CBR_g49410' => 'cbr', 'Cc01_g09120' => 'ccan', 'Cc01_g09130' => 'ccan', 'Cc02_g09630' => 'ccan', 'Cc02_g22810' => 'ccan', 'Cc03_g03810' => 'ccan', 'CDE02G3718' => 'cde', 'CDE04G3183' => 'cde', 'CDE07G1046' => 'cde', 'CDE08G0480' => 'cde', 'Cfa005493' => 'cfa', 'Cfa010312' => 'cfa', 'Cfa015648' => 'cfa', 'Ciclev10002793m.g' => 'ccl', 'Ciclev10003356m.g' => 'ccl', 'Ciclev10006141m.g' => 'ccl', 'Ciclev10016676m.g' => 'ccl', 'Ciclev10017081m.g' => 'ccl', 'Ciclev10029499m.g' => 'ccl', 'CiPaw.01G166300' => 'cil', 'CiPaw.06G145600' => 'cil', 'CiPaw.13G040100' => 'cil', 'CiPaw.13G135800' => 'cil', 'ClCG01G012230' => 'cla', 'ClCG05G009510' => 'cla', 'ClCG08G008270' => 'cla', 'COL.COLO4_11763' => 'col', 'COL.COLO4_19876' => 'col', 'COL.COLO4_21481' => 'col', 'Cpa.g.sc118.34' => 'cpa', 'Cpa.g.sc32.13' => 'cpa', 'Cpa.g.sc58.103' => 'cpa', 'Cre03.g183850' => 'cre', 'Cre06.g306350' => 'cre', 'Cre07.g334800' => 'cre', 'Cre12.g487900' => 'cre', 'Cre14.g626700' => 'cre', 'Cre16.g658400' => 'cre', 'Cre17.g700950' => 'cre', 'CsaV3_1G014830' => 'csa', 'CsaV3_3G013320' => 'csa', 'CsaV3_3G019210' => 'csa', 'CsaV3_3G019220' => 'csa', 'CsaV3_6G004230' => 'csa', 'CSS0003773' => 'camsi', 'CSS0004563' => 'camsi', 'CSS0013949' => 'camsi', 'CSS0025971' => 'camsi', 'CSS0028570' => 'camsi', 'CSS0033127' => 'camsi', 'CSS0036051' => 'camsi', 'CSS0040087' => 'camsi', 'CSS0043179' => 'camsi', 'DCAR_006161' => 'dca', 'DCAR_010351' => 'dca', 'DCAR_012197' => 'dca', 'DCAR_024162' => 'dca', 'Dinv01030' => 'din', 'Dinv10924' => 'din', 'Dinv11835' => 'din', 'Dinv22841' => 'din', 'Dinv42553' => 'din', 'Duzib052G0560' => 'dzi', 'Duzib132G0389' => 'dzi', 'Duzib150G1181' => 'dzi', 'Duzib168G0623' => 'dzi', 'Duzib170G1036' => 'dzi', 'Duzib212G0200' => 'dzi', 'Duzib248G0194' => 'dzi', 'ECA232G2193' => 'eca', 'ECA233G0302' => 'eca', 'ECA234G2813' => 'eca', 'ECA234G4866' => 'eca', 'ECA240G3932' => 'eca', 'ECA248G0385' => 'eca', 'EL10Ac2g04781' => 'bvu', 'EL10Ac3g06445' => 'bvu', 'EL10Ac7g15825' => 'bvu', 'EL10Ac8g18550' => 'bvu', 'Eucgr.B03849' => 'egr', 'Eucgr.I02744' => 'egr', 'Eucgr.J00264' => 'egr', 'Eucgr.J00493' => 'egr', 'FAN04G2181' => 'fan', 'FAN07G2666' => 'fan', 'FAN11G0024' => 'fan', 'FAN12G1105' => 'fan', 'FAN13G0302' => 'fan', 'FAN15G2781' => 'fan', 'FAN16G1274' => 'fan', 'FAN17G2988' => 'fan', 'FAN18G2621' => 'fan', 'FAN21G0013' => 'fan', 'FAN22G1211' => 'fan', 'FAN25G3626' => 'fan', 'FvH4_2g09491' => 'fve', 'FvH4_3g24910' => 'fve', 'FvH4_4g15630' => 'fve', 'FvH4_5g28820' => 'fve', 'Glyma.01G238000' => 'gma', 'Glyma.05G168400' => 'gma', 'Glyma.08G126800' => 'gma', 'Glyma.08G188500' => 'gma', 'Glyma.10G278900' => 'gma', 'Glyma.11G005700' => 'gma', 'Glyma.11G183300' => 'gma', 'Glyma.12G089200' => 'gma', 'Glyma.12G169400' => 'gma', 'Glyma.12G169500' => 'gma', 'Glyma.12G169600' => 'gma', 'Glyma.20G110800' => 'gma', 'Gohir.A03G192900' => 'ghi', 'Gohir.A03G193000' => 'ghi', 'Gohir.A05G080700' => 'ghi', 'Gohir.A09G216000' => 'ghi', 'Gohir.A12G027700' => 'ghi', 'Gohir.A13G036200' => 'ghi', 'Gohir.A13G222600' => 'ghi', 'Gohir.D02G213900' => 'ghi', 'Gohir.D02G214000' => 'ghi', 'Gohir.D05G083700' => 'ghi', 'Gohir.D05G083800' => 'ghi', 'Gohir.D05G083850' => 'ghi', 'Gohir.D08G015400' => 'ghi', 'Gohir.D09G218400' => 'ghi', 'Gohir.D12G027100' => 'ghi', 'Gohir.D13G034500' => 'ghi', 'Gohir.D13G227400' => 'ghi', 'Gorai.005G241800' => 'gra', 'Gorai.005G241900' => 'gra', 'Gorai.006G239400' => 'gra', 'Gorai.008G027600' => 'gra', 'Gorai.009G085400' => 'gra', 'Gorai.009G085500' => 'gra', 'Gorai.013G039000' => 'gra', 'Gorai.013G194800' => 'gra', 'Gorai.013G257900' => 'gra', 'GSVIVG01000982001' => 'vvi', 'GSVIVG01017981001' => 'vvi', 'HanXRQChr01g0024061' => 'han', 'HanXRQChr09g0247831' => 'han', 'HanXRQChr10g0294611' => 'han', 'HanXRQChr10g0294621' => 'han', 'HanXRQChr11g0346821' => 'han', 'HanXRQChr13g0397461' => 'han', 'HanXRQChr16g0513651' => 'han', 'HanXRQChr16g0513701' => 'han', 'Haze_00897' => 'cav', 'Haze_01745' => 'cav', 'Haze_02486' => 'cav', 'Haze_02487' => 'cav', 'Haze_23374' => 'cav', 'Hma1.2p1_0578F.1_g182520' => 'hma', 'Hma1.2p1_0602F.1_g187350' => 'hma', 'Hma1.2p1_0602F.1_g187360' => 'hma', 'Hma1.2p1_0874F.1_g231320' => 'hma', 'Hma1.2p1_1197F.1_g266210' => 'hma', 'Hma1.2p1_1197F.1_g266220' => 'hma', 'Hma1.2p1_2167F.1_g315895' => 'hma', 'Hma1.2p1_2190F.1_g316640' => 'hma', 'Hma1.2p1_3645F.1_g337153' => 'hma', 'HPP92_004907' => 'vpl', 'HPP92_012134' => 'vpl', 'HPP92_025136' => 'vpl', 'HPP92_026087' => 'vpl', 'Hund06782' => 'sun', 'Hund06784' => 'sun', 'Lalb_Chr01g0004861' => 'lal', 'Lalb_Chr02g0140591' => 'lal', 'Lalb_Chr02g0140611' => 'lal', 'Lalb_Chr03g0028101' => 'lal', 'Lalb_Chr07g0185791' => 'lal', 'Lalb_Chr12g0204491' => 'lal', 'Lalb_Chr13g0295671' => 'lal', 'Lalb_Chr19g0136461' => 'lal', 'Lalb_Chr21g0309191' => 'lal', 'Lj1g0028158' => 'lja', 'Lj1P236T38' => 'lonja', 'Lj2C32G2' => 'lonja', 'Lj2P944T8' => 'lonja', 'Lj2P963T15' => 'lonja', 'Lj3g0011788' => 'lja', 'Lj4g0025027' => 'lja', 'Lj5P255T36' => 'lonja', 'Lj6g0018866' => 'lja', 'Lj6P608T31' => 'lonja', 'LjContig00408g0008879' => 'lja', 'Lsat_1_v5_gn_5_105820' => 'lsa', 'Lsat_1_v5_gn_6_38800' => 'lsa', 'Lsat_1_v5_gn_7_67141' => 'lsa', 'Manes.04G003400' => 'mes', 'Manes.07G020000' => 'mes', 'Manes.07G020100' => 'mes', 'Manes.07G020150' => 'mes', 'Manes.10G061500' => 'mes', 'Manes.10G123200' => 'mes', 'Manes.11G161900' => 'mes', 'Manes.15G029300' => 'mes', 'Mapoly0071s0018' => 'mpo', 'Mapoly0082s0023' => 'mpo', 'Mapoly3477s0001' => 'mpo', 'MBI05_g31233_MAGBIO' => 'mbi', 'MBI09_g05946_MAGBIO' => 'mbi', 'MBI09_g05947_MAGBIO' => 'mbi', 'MBI17_g08346_MAGBIO' => 'mbi', 'MCO04G038' => 'mco', 'MCO09G370' => 'mco', 'MCO13G605' => 'mco', 'MD00G1075500' => 'mdo', 'MD03G1144300' => 'mdo', 'MD08G1236800' => 'mdo', 'MD13G1193300' => 'mdo', 'MD15G1428700' => 'mdo', 'Medtr1g112030' => 'mtr', 'Medtr1g112050' => 'mtr', 'Medtr2g006290' => 'mtr', 'Medtr2g086510' => 'mtr', 'Medtr4g053120' => 'mtr', 'Medtr5g006320' => 'mtr', 'Medtr8g088720' => 'mtr', 'MELO3C004712.2' => 'cme', 'MELO3C006533.2' => 'cme', 'MELO3C019438.2' => 'cme', 'MELO3C019440.2' => 'cme', 'MELO3C019441.2' => 'cme', 'MELO3C019895.2' => 'cme', 'Migut.B00811' => 'egut', 'Migut.D02447' => 'egut', 'Migut.F00875' => 'egut', 'Migut.N00186' => 'egut', 'Migut.N01051' => 'egut', 'Migut.N02491' => 'egut', 'Migut.O00784' => 'egut', 'MSTRG.12367' => 'ama', 'MSTRG.18756' => 'ama', 'MSTRG.21042' => 'ama', 'Nitab4.5_0000559g0040' => 'nta', 'Nitab4.5_0000667g0190' => 'nta', 'Nitab4.5_0000755g0160' => 'nta', 'Nitab4.5_0001216g0080' => 'nta', 'Nitab4.5_0004069g0040' => 'nta', 'Nitab4.5_0004129g0010' => 'nta', 'Nitab4.5_0005744g0030' => 'nta', 'Nitab4.5_0006996g0030' => 'nta', 'Nitab4.5_0008971g0040' => 'nta', 'Nitab4.5_0009769g0020' => 'nta', 'Nitab4.5_0009833g0010' => 'nta', 'Nitab4.5_0013140g0020' => 'nta', 'Nn003s41376' => 'nnu', 'Nn1g01857' => 'nnu', 'Nn1g03611' => 'nnu', 'Nn1g06853' => 'nnu', 'Nn3g18360' => 'nnu', 'Nn4g26328' => 'nnu', 'Nn5g27531' => 'nnu', 'Nn6g34899' => 'nnu', 'Nn7g36299' => 'nnu', 'Oeu021485.1' => 'oeu', 'Oeu022433.1' => 'oeu', 'Oeu032111.1' => 'oeu', 'Oeu051608.1' => 'oeu', 'Os01g0860601' => 'osa', 'Os03g0659200' => 'osa', 'Os03g0835900' => 'osa', 'Os04g0412200' => 'osa', 'Os05g0443500' => 'osa', 'Os07g0251500' => 'osa', 'Os08g0104600' => 'osa', 'Peaxi162Scf00003g00047' => 'pax', 'Peaxi162Scf00003g00052' => 'pax', 'Peaxi162Scf00003g00394' => 'pax', 'Peaxi162Scf00091g00621' => 'pax', 'Peaxi162Scf00152g00146' => 'pax', 'Peaxi162Scf00173g00025' => 'pax', 'Peaxi162Scf00195g00102' => 'pax', 'Peaxi162Scf00402g00013' => 'pax', 'Peaxi162Scf00519g00618' => 'pax', 'PGR004G2838' => 'pgr', 'PGR044G2275' => 'pgr', 'PGR102G1377' => 'pgr', 'PGR119G1245' => 'pgr', 'PGR142G4449' => 'pgr', 'PGSC0003DMG400004532' => 'stu', 'PGSC0003DMG400011950' => 'stu', 'PGSC0003DMG400023391' => 'stu', 'PGSC0003DMG400023985' => 'stu', 'PGSC0003DMG400026360' => 'stu', 'PGSC0003DMG400035711' => 'stu', 'PGSC0003DMG400037286' => 'stu', 'PGSC0003DMG402005881' => 'stu', 'Phvul.002G045400' => 'pvu', 'Phvul.006G216600' => 'pvu', 'Phvul.006G216700' => 'pvu', 'Phvul.006G216800' => 'pvu', 'Phvul.007G022500' => 'pvu', 'Phvul.011G094400' => 'pvu', 'Potri.001G470700' => 'ptr', 'Potri.003G015200' => 'ptr', 'Potri.004G202500' => 'ptr', 'Potri.004G218400' => 'ptr', 'Potri.008G020100' => 'ptr', 'Potri.008G153200' => 'ptr', 'Potri.009G163800' => 'ptr', 'Potri.010G087300' => 'ptr', 'Potri.010G239100' => 'ptr', 'Pp3c10_16100' => 'ppa', 'Pp3c10_16880' => 'ppa', 'Pp3c16_6230' => 'ppa', 'Pp3c17_18910' => 'ppa', 'Pp3c3_22119' => 'ppa', 'Pp3c3_22140' => 'ppa', 'Pp3c4_8159' => 'ppa', 'Pp3c4_8171' => 'ppa', 'Pp3c4_8330' => 'ppa', 'PRCOL_00004098' => 'pco', 'Prupe.1G013900' => 'ppe', 'Prupe.1G226300' => 'ppe', 'Prupe.1G573600' => 'ppe', 'Prupe.6G130100' => 'ppe', 'Psat3g090040' => 'psa', 'Psat4g210440' => 'psa', 'Psat6g231040' => 'psa', 'Psat6g231080' => 'psa', 'Psat7g063000' => 'psa', 'Psat7g188000' => 'psa', 'Psat7g188040' => 'psa', 'PSO017G0206' => 'pso', 'PSO170G0501' => 'pso', 'PSO170G6422' => 'pso', 'PSO210G7739' => 'pso', 'PSO339G1808' => 'pso', 'PSO339G6135' => 'pso', 'PSO384G0010' => 'pso', 'PSO384G0964' => 'pso', 'PSO761G0050' => 'pso', 'PSO782G4085' => 'pso', 'QL01p012264' => 'qlo', 'QL02p099491' => 'qlo', 'QL03p033868' => 'qlo', 'QL04p046678' => 'qlo', 'QL06p002448' => 'qlo', 'RcHm_v2.0_Chr4g0416181' => 'rch', 'RcHm_v2.0_Chr5g0044701' => 'rch', 'RcHm_v2.0_Chr6g0265781' => 'rch', 'RcHm_v2.0_Chr7g0221031' => 'rch', 'Rhsim04G0202000' => 'rsi', 'Rhsim11G0127300' => 'rsi', 'Rhsim13G0111800' => 'rsi', 'Sabra01G0165600' => 'sbr', 'Sabra03G0008300' => 'sbr', 'Sabra04G0136900' => 'sbr', 'Sabra08G0013400' => 'sbr', 'Sabra08G0116800' => 'sbr', 'Sabra09G0128000' => 'sbr', 'Sabra10G0055500' => 'sbr', 'Sabra10G0073300' => 'sbr', 'SalBow3G0385' => 'sbo', 'SalBow3G1119' => 'sbo', 'SalBow3G2005' => 'sbo', 'SalBow6G2563' => 'sbo', 'SalBow6G6386' => 'sbo', 'Sc06g0008800' => 'sci', 'Sc07g0004950' => 'sci', 'Sc09g0005340' => 'sci', 'Sc13g0004410' => 'sci', 'Sc21g0007090' => 'sci', 'Sed0009285' => 'sed', 'Sed0017583' => 'sed', 'Sed0019699' => 'sed', 'Sed0023107' => 'sed', 'SEGI_10916' => 'sgi', 'SEGI_16217' => 'sgi', 'SEGI_19466' => 'sgi', 'SEGI_41115' => 'sgi', 'SGA_v2.0_scaffold111G31534' => 'sas', 'SGA_v2.0_scaffold22G09864' => 'sas', 'SGA_v2.0_scaffold338G49219' => 'sas', 'SGA_v2.0_scaffold92G28298' => 'sas', 'SMO119G0064' => 'smo', 'SMO223G0038' => 'smo', 'SMO347G0584' => 'smo', 'SMO351G0010' => 'smo', 'SMO356G0404' => 'smo', 'Solyc01g103920.3' => 'sly', 'Solyc04g009710.2' => 'sly', 'Solyc05g055280.2' => 'sly', 'Solyc10g044520.3' => 'sly', 'Solyc10g075160.1' => 'sly', 'Solyc11g006910.3' => 'sly', 'Solyc11g068430.3' => 'sly', 'Sopen01g046310' => 'spe', 'Sopen03g001200' => 'spe', 'Sopen04g004830' => 'spe', 'Sopen05g033720' => 'spe', 'Sopen06g030740' => 'spe', 'Sopen10g013090' => 'spe', 'Sopen10g027630' => 'spe', 'Sopen10g027640' => 'spe', 'Sopen11g002820' => 'spe', 'Sopen11g027140' => 'spe', 'Sp1g09680' => 'spa', 'Sp2g03630' => 'spa', 'Sp4g10320' => 'spa', 'Sp6g33400' => 'spa', 'Sp7g13030' => 'spa', 'TAR365G0317' => 'tar', 'TAR376G0979' => 'tar', 'TAR623G1665' => 'tar', 'TAR633G2373' => 'tar', 'TAR636G1400' => 'tar', 'THA.LOC104800529' => 'tha', 'THA.LOC104808547' => 'tha', 'THA.LOC104809615' => 'tha', 'THA.LOC104815724' => 'tha', 'THA.LOC104818480' => 'tha', 'THA.LOC104819179' => 'tha', 'THA.LOC104822270' => 'tha', 'THA.LOC104826425' => 'tha', 'Thecc.02G089700' => 'tca', 'Thecc.04G232300' => 'tca', 'Thecc.09G283400' => 'tca', 'Thhalv10009020m.g' => 'esa', 'Thhalv10015506m.g' => 'esa', 'Thhalv10017364m.g' => 'esa', 'Thhalv10023742m.g' => 'esa', 'Thhalv10026483m.g' => 'esa', 'TPR.G17232' => 'tpr', 'TPR.G2133' => 'tpr', 'TPR.G2498' => 'tpr', 'TPR.G31942' => 'tpr', 'TPR.G37877' => 'tpr', 'TPR.G4571' => 'tpr', 'TWI14G1113' => 'twi', 'TWI15G0426' => 'twi', 'TWI31G1005' => 'twi', 'TWI38G0513' => 'twi', 'TWI38G1484' => 'twi', 'TWI73G1098' => 'twi', 'unitig_26.g10519' => 'ugi', 'unitig_736.g22395' => 'ugi', 'unitig_747.g21234' => 'ugi', 'unitig_747.g21942' => 'ugi', 'vmacro14351' => 'vma', 'VMungo0540G0082' => 'vmu', 'VMungo0540G0405' => 'vmu', 'VMungo0540G1486' => 'vmu', 'VMungo0540G1692' => 'vmu', 'VMungo0720G2473' => 'vmu', 'VMungo1127G1562' => 'vmu', 'VMungo1215G1918' => 'vmu', 'Zm00001eb052650' => 'zma', 'Zm00001eb063710' => 'zma', 'Zm00001eb083950' => 'zma', 'Zm00001eb174420' => 'zma', 'Zm00001eb260140' => 'zma', 'Zm00001eb260150' => 'zma', 'Zm00001eb260160' => 'zma', 'Zm00001eb348290' => 'zma', 'Zm00001eb366870' => 'zma', 'Zm00001eb421930' => 'zma' ), 'gf_id' => 'HOM05D001025', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001025' ), 'data_identifier' => 'HOM05D001025', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001025', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '592', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p22650' => 'bna', 'A01p29720' => 'bna', 'A03p26560' => 'bna', 'A03p68820' => 'bna', 'A04p20980' => 'bna', 'A06p07730' => 'bna', 'A07p18260' => 'bna', 'A08p33710' => 'bna', 'A09p16970' => 'bna', 'A10p27490' => 'bna', 'Aa31LG1G17300' => 'aar', 'Aa31LG1G3910' => 'aar', 'Aa31LG2G9630' => 'aar', 'Aa31LG5G8360' => 'aar', 'Aa31LG9G2410' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4699' => 'aag', 'Actinidia23512' => 'ach', 'Actinidia37080' => 'ach', 'Ah.01g020380' => 'amhyb', 'Ah.08g215710' => 'amhyb', 'Ah.09g225110' => 'amhyb', 'Ah.10g036680' => 'amhyb', 'AL1G21940' => 'aly', 'AL2G15540' => 'aly', 'AL4G21520' => 'aly', 'AL7G40960' => 'aly', 'Aqoxy2G01191' => 'aox', 'Aqoxy2G03393' => 'aox', 'Aqoxy4G02775' => 'aox', 'Aqoxy6G00058' => 'aox', 'arahy.Tifrunner.gnm1.ann1.9X74H2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CW3FX9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R485W7' => 'arhy', 'AT1G10960' => 'ath', 'AT1G60950' => 'ath', 'AT2G27510' => 'ath', 'AT4G14890' => 'ath', 'AT5G10000' => 'ath', 'ATR0665G624' => 'atr', 'ATR0697G138' => 'atr', 'ATR0776G046' => 'atr', 'ATR1134G135' => 'atr', 'Atru.chr12.1025' => 'acertr', 'Atru.chr3.3241' => 'acertr', 'Atru.chr4.2460' => 'acertr', 'AUR62007427' => 'cqu', 'AUR62010960' => 'cqu', 'AUR62012201' => 'cqu', 'AUR62021470' => 'cqu', 'AUR62022834' => 'cqu', 'AUR62033635' => 'cqu', 'AUR62036186' => 'cqu', 'BcaB01g03077' => 'bca', 'BcaB02g10093' => 'bca', 'BcaB04g20295' => 'bca', 'BcaB06g28147' => 'bca', 'BcaB07g31253' => 'bca', 'BcaC01g04946' => 'bca', 'BcaC02g10614' => 'bca', 'BcaC02g10885' => 'bca', 'BcaC04g19356' => 'bca', 'BcaC04g22297' => 'bca', 'BcaC05g24977' => 'bca', 'BcaC06g31823' => 'bca', 'BcaC07g38633' => 'bca', 'BcaC09g49353' => 'bca', 'BcaC09g50168' => 'bca', 'BcaNung00322' => 'bca', 'BcaNung04769' => 'bca', 'BolC1t02753H' => 'bol', 'BolC1t03721H' => 'bol', 'BolC3t15525H' => 'bol', 'BolC4t23903H' => 'bol', 'BolC4t24231H' => 'bol', 'BolC4t27209H' => 'bol', 'BolC5t29671H' => 'bol', 'BolC8t49044H' => 'bol', 'BolC9t54999H' => 'bol', 'BolC9t59517H' => 'bol', 'BraA01t02178Z' => 'bra', 'BraA01t03099Z' => 'bra', 'BraA03t11867Z' => 'bra', 'BraA04t17667Z' => 'bra', 'BraA07t29542Z' => 'bra', 'BraA08t35287Z' => 'bra', 'BraA09t37334Z' => 'bra', 'BraA10t44801Z' => 'bra', 'BraSC39t46181Z' => 'bra', 'C01p28240' => 'bna', 'C01p37530' => 'bna', 'C03p31820' => 'bna', 'C04p24080' => 'bna', 'C04p25790' => 'bna', 'C04p56770' => 'bna', 'C05p09310' => 'bna', 'C09p21010' => 'bna', 'C09p67560' => 'bna', 'CAN.G1324.7' => 'can', 'CAN.G1358.10' => 'can', 'CAN.G1550.2' => 'can', 'CAN.G186.56' => 'can', 'CAN.G1965.1' => 'can', 'CAN.G645.15' => 'can', 'CAN.G798.26' => 'can', 'CAN.G798.27' => 'can', 'CAN.G798.29' => 'can', 'CAN.G919.31' => 'can', 'CANSAT11G0133' => 'cansat', 'CANSAT11G1171' => 'cansat', 'CANSAT11G2056' => 'cansat', 'CANSAT56G1202' => 'cansat', 'CANSAT56G1514' => 'cansat', 'CANSAT78G0455' => 'cansat', 'CARHR011190' => 'chi', 'CARHR051980' => 'chi', 'CARHR120170' => 'chi', 'CARHR203310' => 'chi', 'CARHR221490' => 'chi', 'Carub.0001s1054' => 'cru', 'Carub.0002s0431' => 'cru', 'Carub.0004s0818' => 'cru', 'Carub.0006s0846' => 'cru', 'Carub.0007s2722' => 'cru', 'Ca_00058_v3' => 'car', 'Ca_17831_v3' => 'car', 'Ca_19408_v3' => 'car', 'Ca_24397_v3' => 'car', 'Ca_25664_v3' => 'car', 'CBR_g21818' => 'cbr', 'CBR_g31195' => 'cbr', 'CBR_g32282' => 'cbr', 'CBR_g39599' => 'cbr', 'CBR_g49410' => 'cbr', 'Cc01_g09120' => 'ccan', 'Cc01_g09130' => 'ccan', 'Cc02_g09630' => 'ccan', 'Cc02_g22810' => 'ccan', 'Cc03_g03810' => 'ccan', 'CDE02G3718' => 'cde', 'CDE04G3183' => 'cde', 'CDE07G1046' => 'cde', 'CDE08G0480' => 'cde', 'Cfa005493' => 'cfa', 'Cfa010312' => 'cfa', 'Cfa015648' => 'cfa', 'Ciclev10002793m.g' => 'ccl', 'Ciclev10003356m.g' => 'ccl', 'Ciclev10006141m.g' => 'ccl', 'Ciclev10016676m.g' => 'ccl', 'Ciclev10017081m.g' => 'ccl', 'Ciclev10029499m.g' => 'ccl', 'CiPaw.01G166300' => 'cil', 'CiPaw.06G145600' => 'cil', 'CiPaw.13G040100' => 'cil', 'CiPaw.13G135800' => 'cil', 'ClCG01G012230' => 'cla', 'ClCG05G009510' => 'cla', 'ClCG08G008270' => 'cla', 'COL.COLO4_11763' => 'col', 'COL.COLO4_19876' => 'col', 'COL.COLO4_21481' => 'col', 'Cpa.g.sc118.34' => 'cpa', 'Cpa.g.sc32.13' => 'cpa', 'Cpa.g.sc58.103' => 'cpa', 'Cre03.g183850' => 'cre', 'Cre06.g306350' => 'cre', 'Cre07.g334800' => 'cre', 'Cre12.g487900' => 'cre', 'Cre14.g626700' => 'cre', 'Cre16.g658400' => 'cre', 'Cre17.g700950' => 'cre', 'CsaV3_1G014830' => 'csa', 'CsaV3_3G013320' => 'csa', 'CsaV3_3G019210' => 'csa', 'CsaV3_3G019220' => 'csa', 'CsaV3_6G004230' => 'csa', 'CSS0003773' => 'camsi', 'CSS0004563' => 'camsi', 'CSS0013949' => 'camsi', 'CSS0025971' => 'camsi', 'CSS0028570' => 'camsi', 'CSS0033127' => 'camsi', 'CSS0036051' => 'camsi', 'CSS0040087' => 'camsi', 'CSS0043179' => 'camsi', 'DCAR_006161' => 'dca', 'DCAR_010351' => 'dca', 'DCAR_012197' => 'dca', 'DCAR_024162' => 'dca', 'Dinv01030' => 'din', 'Dinv10924' => 'din', 'Dinv11835' => 'din', 'Dinv22841' => 'din', 'Dinv42553' => 'din', 'Duzib052G0560' => 'dzi', 'Duzib132G0389' => 'dzi', 'Duzib150G1181' => 'dzi', 'Duzib168G0623' => 'dzi', 'Duzib170G1036' => 'dzi', 'Duzib212G0200' => 'dzi', 'Duzib248G0194' => 'dzi', 'ECA232G2193' => 'eca', 'ECA233G0302' => 'eca', 'ECA234G2813' => 'eca', 'ECA234G4866' => 'eca', 'ECA240G3932' => 'eca', 'ECA248G0385' => 'eca', 'EL10Ac2g04781' => 'bvu', 'EL10Ac3g06445' => 'bvu', 'EL10Ac7g15825' => 'bvu', 'EL10Ac8g18550' => 'bvu', 'Eucgr.B03849' => 'egr', 'Eucgr.I02744' => 'egr', 'Eucgr.J00264' => 'egr', 'Eucgr.J00493' => 'egr', 'FAN04G2181' => 'fan', 'FAN07G2666' => 'fan', 'FAN11G0024' => 'fan', 'FAN12G1105' => 'fan', 'FAN13G0302' => 'fan', 'FAN15G2781' => 'fan', 'FAN16G1274' => 'fan', 'FAN17G2988' => 'fan', 'FAN18G2621' => 'fan', 'FAN21G0013' => 'fan', 'FAN22G1211' => 'fan', 'FAN25G3626' => 'fan', 'FvH4_2g09491' => 'fve', 'FvH4_3g24910' => 'fve', 'FvH4_4g15630' => 'fve', 'FvH4_5g28820' => 'fve', 'Glyma.01G238000' => 'gma', 'Glyma.05G168400' => 'gma', 'Glyma.08G126800' => 'gma', 'Glyma.08G188500' => 'gma', 'Glyma.10G278900' => 'gma', 'Glyma.11G005700' => 'gma', 'Glyma.11G183300' => 'gma', 'Glyma.12G089200' => 'gma', 'Glyma.12G169400' => 'gma', 'Glyma.12G169500' => 'gma', 'Glyma.12G169600' => 'gma', 'Glyma.20G110800' => 'gma', 'Gohir.A03G192900' => 'ghi', 'Gohir.A03G193000' => 'ghi', 'Gohir.A05G080700' => 'ghi', 'Gohir.A09G216000' => 'ghi', 'Gohir.A12G027700' => 'ghi', 'Gohir.A13G036200' => 'ghi', 'Gohir.A13G222600' => 'ghi', 'Gohir.D02G213900' => 'ghi', 'Gohir.D02G214000' => 'ghi', 'Gohir.D05G083700' => 'ghi', 'Gohir.D05G083800' => 'ghi', 'Gohir.D05G083850' => 'ghi', 'Gohir.D08G015400' => 'ghi', 'Gohir.D09G218400' => 'ghi', 'Gohir.D12G027100' => 'ghi', 'Gohir.D13G034500' => 'ghi', 'Gohir.D13G227400' => 'ghi', 'Gorai.005G241800' => 'gra', 'Gorai.005G241900' => 'gra', 'Gorai.006G239400' => 'gra', 'Gorai.008G027600' => 'gra', 'Gorai.009G085400' => 'gra', 'Gorai.009G085500' => 'gra', 'Gorai.013G039000' => 'gra', 'Gorai.013G194800' => 'gra', 'Gorai.013G257900' => 'gra', 'GSVIVG01000982001' => 'vvi', 'GSVIVG01017981001' => 'vvi', 'HanXRQChr01g0024061' => 'han', 'HanXRQChr09g0247831' => 'han', 'HanXRQChr10g0294611' => 'han', 'HanXRQChr10g0294621' => 'han', 'HanXRQChr11g0346821' => 'han', 'HanXRQChr13g0397461' => 'han', 'HanXRQChr16g0513651' => 'han', 'HanXRQChr16g0513701' => 'han', 'Haze_00897' => 'cav', 'Haze_01745' => 'cav', 'Haze_02486' => 'cav', 'Haze_02487' => 'cav', 'Haze_23374' => 'cav', 'Hma1.2p1_0578F.1_g182520' => 'hma', 'Hma1.2p1_0602F.1_g187350' => 'hma', 'Hma1.2p1_0602F.1_g187360' => 'hma', 'Hma1.2p1_0874F.1_g231320' => 'hma', 'Hma1.2p1_1197F.1_g266210' => 'hma', 'Hma1.2p1_1197F.1_g266220' => 'hma', 'Hma1.2p1_2167F.1_g315895' => 'hma', 'Hma1.2p1_2190F.1_g316640' => 'hma', 'Hma1.2p1_3645F.1_g337153' => 'hma', 'HPP92_004907' => 'vpl', 'HPP92_012134' => 'vpl', 'HPP92_025136' => 'vpl', 'HPP92_026087' => 'vpl', 'Hund06782' => 'sun', 'Hund06784' => 'sun', 'Lalb_Chr01g0004861' => 'lal', 'Lalb_Chr02g0140591' => 'lal', 'Lalb_Chr02g0140611' => 'lal', 'Lalb_Chr03g0028101' => 'lal', 'Lalb_Chr07g0185791' => 'lal', 'Lalb_Chr12g0204491' => 'lal', 'Lalb_Chr13g0295671' => 'lal', 'Lalb_Chr19g0136461' => 'lal', 'Lalb_Chr21g0309191' => 'lal', 'Lj1g0028158' => 'lja', 'Lj1P236T38' => 'lonja', 'Lj2C32G2' => 'lonja', 'Lj2P944T8' => 'lonja', 'Lj2P963T15' => 'lonja', 'Lj3g0011788' => 'lja', 'Lj4g0025027' => 'lja', 'Lj5P255T36' => 'lonja', 'Lj6g0018866' => 'lja', 'Lj6P608T31' => 'lonja', 'LjContig00408g0008879' => 'lja', 'Lsat_1_v5_gn_5_105820' => 'lsa', 'Lsat_1_v5_gn_6_38800' => 'lsa', 'Lsat_1_v5_gn_7_67141' => 'lsa', 'Manes.04G003400' => 'mes', 'Manes.07G020000' => 'mes', 'Manes.07G020100' => 'mes', 'Manes.07G020150' => 'mes', 'Manes.10G061500' => 'mes', 'Manes.10G123200' => 'mes', 'Manes.11G161900' => 'mes', 'Manes.15G029300' => 'mes', 'Mapoly0071s0018' => 'mpo', 'Mapoly0082s0023' => 'mpo', 'Mapoly3477s0001' => 'mpo', 'MBI05_g31233_MAGBIO' => 'mbi', 'MBI09_g05946_MAGBIO' => 'mbi', 'MBI09_g05947_MAGBIO' => 'mbi', 'MBI17_g08346_MAGBIO' => 'mbi', 'MCO04G038' => 'mco', 'MCO09G370' => 'mco', 'MCO13G605' => 'mco', 'MD00G1075500' => 'mdo', 'MD03G1144300' => 'mdo', 'MD08G1236800' => 'mdo', 'MD13G1193300' => 'mdo', 'MD15G1428700' => 'mdo', 'Medtr1g112030' => 'mtr', 'Medtr1g112050' => 'mtr', 'Medtr2g006290' => 'mtr', 'Medtr2g086510' => 'mtr', 'Medtr4g053120' => 'mtr', 'Medtr5g006320' => 'mtr', 'Medtr8g088720' => 'mtr', 'MELO3C004712.2' => 'cme', 'MELO3C006533.2' => 'cme', 'MELO3C019438.2' => 'cme', 'MELO3C019440.2' => 'cme', 'MELO3C019441.2' => 'cme', 'MELO3C019895.2' => 'cme', 'Migut.B00811' => 'egut', 'Migut.D02447' => 'egut', 'Migut.F00875' => 'egut', 'Migut.N00186' => 'egut', 'Migut.N01051' => 'egut', 'Migut.N02491' => 'egut', 'Migut.O00784' => 'egut', 'MSTRG.12367' => 'ama', 'MSTRG.18756' => 'ama', 'MSTRG.21042' => 'ama', 'Nitab4.5_0000559g0040' => 'nta', 'Nitab4.5_0000667g0190' => 'nta', 'Nitab4.5_0000755g0160' => 'nta', 'Nitab4.5_0001216g0080' => 'nta', 'Nitab4.5_0004069g0040' => 'nta', 'Nitab4.5_0004129g0010' => 'nta', 'Nitab4.5_0005744g0030' => 'nta', 'Nitab4.5_0006996g0030' => 'nta', 'Nitab4.5_0008971g0040' => 'nta', 'Nitab4.5_0009769g0020' => 'nta', 'Nitab4.5_0009833g0010' => 'nta', 'Nitab4.5_0013140g0020' => 'nta', 'Nn003s41376' => 'nnu', 'Nn1g01857' => 'nnu', 'Nn1g03611' => 'nnu', 'Nn1g06853' => 'nnu', 'Nn3g18360' => 'nnu', 'Nn4g26328' => 'nnu', 'Nn5g27531' => 'nnu', 'Nn6g34899' => 'nnu', 'Nn7g36299' => 'nnu', 'Oeu021485.1' => 'oeu', 'Oeu022433.1' => 'oeu', 'Oeu032111.1' => 'oeu', 'Oeu051608.1' => 'oeu', 'Os01g0860601' => 'osa', 'Os03g0659200' => 'osa', 'Os03g0835900' => 'osa', 'Os04g0412200' => 'osa', 'Os05g0443500' => 'osa', 'Os07g0251500' => 'osa', 'Os08g0104600' => 'osa', 'Peaxi162Scf00003g00047' => 'pax', 'Peaxi162Scf00003g00052' => 'pax', 'Peaxi162Scf00003g00394' => 'pax', 'Peaxi162Scf00091g00621' => 'pax', 'Peaxi162Scf00152g00146' => 'pax', 'Peaxi162Scf00173g00025' => 'pax', 'Peaxi162Scf00195g00102' => 'pax', 'Peaxi162Scf00402g00013' => 'pax', 'Peaxi162Scf00519g00618' => 'pax', 'PGR004G2838' => 'pgr', 'PGR044G2275' => 'pgr', 'PGR102G1377' => 'pgr', 'PGR119G1245' => 'pgr', 'PGR142G4449' => 'pgr', 'PGSC0003DMG400004532' => 'stu', 'PGSC0003DMG400011950' => 'stu', 'PGSC0003DMG400023391' => 'stu', 'PGSC0003DMG400023985' => 'stu', 'PGSC0003DMG400026360' => 'stu', 'PGSC0003DMG400035711' => 'stu', 'PGSC0003DMG400037286' => 'stu', 'PGSC0003DMG402005881' => 'stu', 'Phvul.002G045400' => 'pvu', 'Phvul.006G216600' => 'pvu', 'Phvul.006G216700' => 'pvu', 'Phvul.006G216800' => 'pvu', 'Phvul.007G022500' => 'pvu', 'Phvul.011G094400' => 'pvu', 'Potri.001G470700' => 'ptr', 'Potri.003G015200' => 'ptr', 'Potri.004G202500' => 'ptr', 'Potri.004G218400' => 'ptr', 'Potri.008G020100' => 'ptr', 'Potri.008G153200' => 'ptr', 'Potri.009G163800' => 'ptr', 'Potri.010G087300' => 'ptr', 'Potri.010G239100' => 'ptr', 'Pp3c10_16100' => 'ppa', 'Pp3c10_16880' => 'ppa', 'Pp3c16_6230' => 'ppa', 'Pp3c17_18910' => 'ppa', 'Pp3c3_22119' => 'ppa', 'Pp3c3_22140' => 'ppa', 'Pp3c4_8159' => 'ppa', 'Pp3c4_8171' => 'ppa', 'Pp3c4_8330' => 'ppa', 'PRCOL_00004098' => 'pco', 'Prupe.1G013900' => 'ppe', 'Prupe.1G226300' => 'ppe', 'Prupe.1G573600' => 'ppe', 'Prupe.6G130100' => 'ppe', 'Psat3g090040' => 'psa', 'Psat4g210440' => 'psa', 'Psat6g231040' => 'psa', 'Psat6g231080' => 'psa', 'Psat7g063000' => 'psa', 'Psat7g188000' => 'psa', 'Psat7g188040' => 'psa', 'PSO017G0206' => 'pso', 'PSO170G0501' => 'pso', 'PSO170G6422' => 'pso', 'PSO210G7739' => 'pso', 'PSO339G1808' => 'pso', 'PSO339G6135' => 'pso', 'PSO384G0010' => 'pso', 'PSO384G0964' => 'pso', 'PSO761G0050' => 'pso', 'PSO782G4085' => 'pso', 'QL01p012264' => 'qlo', 'QL02p099491' => 'qlo', 'QL03p033868' => 'qlo', 'QL04p046678' => 'qlo', 'QL06p002448' => 'qlo', 'RcHm_v2.0_Chr4g0416181' => 'rch', 'RcHm_v2.0_Chr5g0044701' => 'rch', 'RcHm_v2.0_Chr6g0265781' => 'rch', 'RcHm_v2.0_Chr7g0221031' => 'rch', 'Rhsim04G0202000' => 'rsi', 'Rhsim11G0127300' => 'rsi', 'Rhsim13G0111800' => 'rsi', 'Sabra01G0165600' => 'sbr', 'Sabra03G0008300' => 'sbr', 'Sabra04G0136900' => 'sbr', 'Sabra08G0013400' => 'sbr', 'Sabra08G0116800' => 'sbr', 'Sabra09G0128000' => 'sbr', 'Sabra10G0055500' => 'sbr', 'Sabra10G0073300' => 'sbr', 'SalBow3G0385' => 'sbo', 'SalBow3G1119' => 'sbo', 'SalBow3G2005' => 'sbo', 'SalBow6G2563' => 'sbo', 'SalBow6G6386' => 'sbo', 'Sc06g0008800' => 'sci', 'Sc07g0004950' => 'sci', 'Sc09g0005340' => 'sci', 'Sc13g0004410' => 'sci', 'Sc21g0007090' => 'sci', 'Sed0009285' => 'sed', 'Sed0017583' => 'sed', 'Sed0019699' => 'sed', 'Sed0023107' => 'sed', 'SEGI_10916' => 'sgi', 'SEGI_16217' => 'sgi', 'SEGI_19466' => 'sgi', 'SEGI_41115' => 'sgi', 'SGA_v2.0_scaffold111G31534' => 'sas', 'SGA_v2.0_scaffold22G09864' => 'sas', 'SGA_v2.0_scaffold338G49219' => 'sas', 'SGA_v2.0_scaffold92G28298' => 'sas', 'SMO119G0064' => 'smo', 'SMO223G0038' => 'smo', 'SMO347G0584' => 'smo', 'SMO351G0010' => 'smo', 'SMO356G0404' => 'smo', 'Solyc01g103920.3' => 'sly', 'Solyc04g009710.2' => 'sly', 'Solyc05g055280.2' => 'sly', 'Solyc10g044520.3' => 'sly', 'Solyc10g075160.1' => 'sly', 'Solyc11g006910.3' => 'sly', 'Solyc11g068430.3' => 'sly', 'Sopen01g046310' => 'spe', 'Sopen03g001200' => 'spe', 'Sopen04g004830' => 'spe', 'Sopen05g033720' => 'spe', 'Sopen06g030740' => 'spe', 'Sopen10g013090' => 'spe', 'Sopen10g027630' => 'spe', 'Sopen10g027640' => 'spe', 'Sopen11g002820' => 'spe', 'Sopen11g027140' => 'spe', 'Sp1g09680' => 'spa', 'Sp2g03630' => 'spa', 'Sp4g10320' => 'spa', 'Sp6g33400' => 'spa', 'Sp7g13030' => 'spa', 'TAR365G0317' => 'tar', 'TAR376G0979' => 'tar', 'TAR623G1665' => 'tar', 'TAR633G2373' => 'tar', 'TAR636G1400' => 'tar', 'THA.LOC104800529' => 'tha', 'THA.LOC104808547' => 'tha', 'THA.LOC104809615' => 'tha', 'THA.LOC104815724' => 'tha', 'THA.LOC104818480' => 'tha', 'THA.LOC104819179' => 'tha', 'THA.LOC104822270' => 'tha', 'THA.LOC104826425' => 'tha', 'Thecc.02G089700' => 'tca', 'Thecc.04G232300' => 'tca', 'Thecc.09G283400' => 'tca', 'Thhalv10009020m.g' => 'esa', 'Thhalv10015506m.g' => 'esa', 'Thhalv10017364m.g' => 'esa', 'Thhalv10023742m.g' => 'esa', 'Thhalv10026483m.g' => 'esa', 'TPR.G17232' => 'tpr', 'TPR.G2133' => 'tpr', 'TPR.G2498' => 'tpr', 'TPR.G31942' => 'tpr', 'TPR.G37877' => 'tpr', 'TPR.G4571' => 'tpr', 'TWI14G1113' => 'twi', 'TWI15G0426' => 'twi', 'TWI31G1005' => 'twi', 'TWI38G0513' => 'twi', 'TWI38G1484' => 'twi', 'TWI73G1098' => 'twi', 'unitig_26.g10519' => 'ugi', 'unitig_736.g22395' => 'ugi', 'unitig_747.g21234' => 'ugi', 'unitig_747.g21942' => 'ugi', 'vmacro14351' => 'vma', 'VMungo0540G0082' => 'vmu', 'VMungo0540G0405' => 'vmu', 'VMungo0540G1486' => 'vmu', 'VMungo0540G1692' => 'vmu', 'VMungo0720G2473' => 'vmu', 'VMungo1127G1562' => 'vmu', 'VMungo1215G1918' => 'vmu', 'Zm00001eb052650' => 'zma', 'Zm00001eb063710' => 'zma', 'Zm00001eb083950' => 'zma', 'Zm00001eb174420' => 'zma', 'Zm00001eb260140' => 'zma', 'Zm00001eb260150' => 'zma', 'Zm00001eb260160' => 'zma', 'Zm00001eb348290' => 'zma', 'Zm00001eb366870' => 'zma', 'Zm00001eb421930' => 'zma' ) $gf_id = 'HOM05D001025' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001025' ) $data_identifier = 'HOM05D001025' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 19, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 2, 'amhyb' => (int) 4, 'aly' => (int) 4, 'aox' => (int) 4, 'arhy' => (int) 3, 'ath' => (int) 5, 'atr' => (int) 4, 'acertr' => (int) 3, 'cqu' => (int) 7, 'bca' => (int) 17, 'bol' => (int) 10, 'bra' => (int) 9, 'can' => (int) 10, 'cansat' => (int) 6, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 5, 'cbr' => (int) 5, 'ccan' => (int) 5, 'cde' => (int) 4, 'cfa' => (int) 3, 'ccl' => (int) 6, 'cil' => (int) 4, 'cla' => (int) 3, 'col' => (int) 3, 'cpa' => (int) 3, 'cre' => (int) 7, 'csa' => (int) 5, 'camsi' => (int) 9, 'dca' => (int) 4, 'din' => (int) 5, 'dzi' => (int) 7, 'eca' => (int) 6, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 12, 'fve' => (int) 4, 'gma' => (int) 12, 'ghi' => (int) 17, 'gra' => (int) 9, 'vvi' => (int) 2, 'han' => (int) 8, 'cav' => (int) 5, 'hma' => (int) 9, 'vpl' => (int) 4, 'sun' => (int) 2, 'lal' => (int) 9, 'lja' => (int) 5, 'lonja' => (int) 6, 'lsa' => (int) 3, 'mes' => (int) 8, 'mpo' => (int) 3, 'mbi' => (int) 4, 'mco' => (int) 3, 'mdo' => (int) 5, 'mtr' => (int) 7, 'cme' => (int) 6, 'egut' => (int) 7, 'ama' => (int) 3, 'nta' => (int) 12, 'nnu' => (int) 9, 'oeu' => (int) 4, 'osa' => (int) 7, 'pax' => (int) 9, 'pgr' => (int) 5, 'stu' => (int) 8, 'pvu' => (int) 6, 'ptr' => (int) 9, 'ppa' => (int) 9, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 7, 'pso' => (int) 10, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 3, 'sbr' => (int) 8, 'sbo' => (int) 5, 'sci' => (int) 5, 'sed' => (int) 4, 'sgi' => (int) 4, 'sas' => (int) 4, 'smo' => (int) 5, 'sly' => (int) 7, 'spe' => (int) 10, 'spa' => (int) 5, 'tar' => (int) 5, 'tha' => (int) 8, 'tca' => (int) 3, 'esa' => (int) 5, 'tpr' => (int) 6, 'twi' => (int) 6, 'ugi' => (int) 4, 'vma' => (int) 1, 'vmu' => (int) 7, 'zma' => (int) 10 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb421930' $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' => 'HOM05D001025', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '592', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p22650' => 'bna', 'A01p29720' => 'bna', 'A03p26560' => 'bna', 'A03p68820' => 'bna', 'A04p20980' => 'bna', 'A06p07730' => 'bna', 'A07p18260' => 'bna', 'A08p33710' => 'bna', 'A09p16970' => 'bna', 'A10p27490' => 'bna', 'Aa31LG1G17300' => 'aar', 'Aa31LG1G3910' => 'aar', 'Aa31LG2G9630' => 'aar', 'Aa31LG5G8360' => 'aar', 'Aa31LG9G2410' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4699' => 'aag', 'Actinidia23512' => 'ach', 'Actinidia37080' => 'ach', 'Ah.01g020380' => 'amhyb', 'Ah.08g215710' => 'amhyb', 'Ah.09g225110' => 'amhyb', 'Ah.10g036680' => 'amhyb', 'AL1G21940' => 'aly', 'AL2G15540' => 'aly', 'AL4G21520' => 'aly', 'AL7G40960' => 'aly', 'Aqoxy2G01191' => 'aox', 'Aqoxy2G03393' => 'aox', 'Aqoxy4G02775' => 'aox', 'Aqoxy6G00058' => 'aox', 'arahy.Tifrunner.gnm1.ann1.9X74H2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CW3FX9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R485W7' => 'arhy', 'AT1G10960' => 'ath', 'AT1G60950' => 'ath', 'AT2G27510' => 'ath', 'AT4G14890' => 'ath', 'AT5G10000' => 'ath', 'ATR0665G624' => 'atr', 'ATR0697G138' => 'atr', 'ATR0776G046' => 'atr', 'ATR1134G135' => 'atr', 'Atru.chr12.1025' => 'acertr', 'Atru.chr3.3241' => 'acertr', 'Atru.chr4.2460' => 'acertr', 'AUR62007427' => 'cqu', 'AUR62010960' => 'cqu', 'AUR62012201' => 'cqu', 'AUR62021470' => 'cqu', 'AUR62022834' => 'cqu', 'AUR62033635' => 'cqu', 'AUR62036186' => 'cqu', 'BcaB01g03077' => 'bca', 'BcaB02g10093' => 'bca', 'BcaB04g20295' => 'bca', 'BcaB06g28147' => 'bca', 'BcaB07g31253' => 'bca', 'BcaC01g04946' => 'bca', 'BcaC02g10614' => 'bca', 'BcaC02g10885' => 'bca', 'BcaC04g19356' => 'bca', 'BcaC04g22297' => 'bca', 'BcaC05g24977' => 'bca', 'BcaC06g31823' => 'bca', 'BcaC07g38633' => 'bca', 'BcaC09g49353' => 'bca', 'BcaC09g50168' => 'bca', 'BcaNung00322' => 'bca', 'BcaNung04769' => 'bca', 'BolC1t02753H' => 'bol', 'BolC1t03721H' => 'bol', 'BolC3t15525H' => 'bol', 'BolC4t23903H' => 'bol', 'BolC4t24231H' => 'bol', 'BolC4t27209H' => 'bol', 'BolC5t29671H' => 'bol', 'BolC8t49044H' => 'bol', 'BolC9t54999H' => 'bol', 'BolC9t59517H' => 'bol', 'BraA01t02178Z' => 'bra', 'BraA01t03099Z' => 'bra', 'BraA03t11867Z' => 'bra', 'BraA04t17667Z' => 'bra', 'BraA07t29542Z' => 'bra', 'BraA08t35287Z' => 'bra', 'BraA09t37334Z' => 'bra', 'BraA10t44801Z' => 'bra', 'BraSC39t46181Z' => 'bra', 'C01p28240' => 'bna', 'C01p37530' => 'bna', 'C03p31820' => 'bna', 'C04p24080' => 'bna', 'C04p25790' => 'bna', 'C04p56770' => 'bna', 'C05p09310' => 'bna', 'C09p21010' => 'bna', 'C09p67560' => 'bna', 'CAN.G1324.7' => 'can', 'CAN.G1358.10' => 'can', 'CAN.G1550.2' => 'can', 'CAN.G186.56' => 'can', 'CAN.G1965.1' => 'can', 'CAN.G645.15' => 'can', 'CAN.G798.26' => 'can', 'CAN.G798.27' => 'can', 'CAN.G798.29' => 'can', 'CAN.G919.31' => 'can', 'CANSAT11G0133' => 'cansat', 'CANSAT11G1171' => 'cansat', 'CANSAT11G2056' => 'cansat', 'CANSAT56G1202' => 'cansat', 'CANSAT56G1514' => 'cansat', 'CANSAT78G0455' => 'cansat', 'CARHR011190' => 'chi', 'CARHR051980' => 'chi', 'CARHR120170' => 'chi', 'CARHR203310' => 'chi', 'CARHR221490' => 'chi', 'Carub.0001s1054' => 'cru', 'Carub.0002s0431' => 'cru', 'Carub.0004s0818' => 'cru', 'Carub.0006s0846' => 'cru', 'Carub.0007s2722' => 'cru', 'Ca_00058_v3' => 'car', 'Ca_17831_v3' => 'car', 'Ca_19408_v3' => 'car', 'Ca_24397_v3' => 'car', 'Ca_25664_v3' => 'car', 'CBR_g21818' => 'cbr', 'CBR_g31195' => 'cbr', 'CBR_g32282' => 'cbr', 'CBR_g39599' => 'cbr', 'CBR_g49410' => 'cbr', 'Cc01_g09120' => 'ccan', 'Cc01_g09130' => 'ccan', 'Cc02_g09630' => 'ccan', 'Cc02_g22810' => 'ccan', 'Cc03_g03810' => 'ccan', 'CDE02G3718' => 'cde', 'CDE04G3183' => 'cde', 'CDE07G1046' => 'cde', 'CDE08G0480' => 'cde', 'Cfa005493' => 'cfa', 'Cfa010312' => 'cfa', 'Cfa015648' => 'cfa', 'Ciclev10002793m.g' => 'ccl', 'Ciclev10003356m.g' => 'ccl', 'Ciclev10006141m.g' => 'ccl', 'Ciclev10016676m.g' => 'ccl', 'Ciclev10017081m.g' => 'ccl', 'Ciclev10029499m.g' => 'ccl', 'CiPaw.01G166300' => 'cil', 'CiPaw.06G145600' => 'cil', 'CiPaw.13G040100' => 'cil', 'CiPaw.13G135800' => 'cil', 'ClCG01G012230' => 'cla', 'ClCG05G009510' => 'cla', 'ClCG08G008270' => 'cla', 'COL.COLO4_11763' => 'col', 'COL.COLO4_19876' => 'col', 'COL.COLO4_21481' => 'col', 'Cpa.g.sc118.34' => 'cpa', 'Cpa.g.sc32.13' => 'cpa', 'Cpa.g.sc58.103' => 'cpa', 'Cre03.g183850' => 'cre', 'Cre06.g306350' => 'cre', 'Cre07.g334800' => 'cre', 'Cre12.g487900' => 'cre', 'Cre14.g626700' => 'cre', 'Cre16.g658400' => 'cre', 'Cre17.g700950' => 'cre', 'CsaV3_1G014830' => 'csa', 'CsaV3_3G013320' => 'csa', 'CsaV3_3G019210' => 'csa', 'CsaV3_3G019220' => 'csa', 'CsaV3_6G004230' => 'csa', 'CSS0003773' => 'camsi', 'CSS0004563' => 'camsi', 'CSS0013949' => 'camsi', 'CSS0025971' => 'camsi', 'CSS0028570' => 'camsi', 'CSS0033127' => 'camsi', 'CSS0036051' => 'camsi', 'CSS0040087' => 'camsi', 'CSS0043179' => 'camsi', 'DCAR_006161' => 'dca', 'DCAR_010351' => 'dca', 'DCAR_012197' => 'dca', 'DCAR_024162' => 'dca', 'Dinv01030' => 'din', 'Dinv10924' => 'din', 'Dinv11835' => 'din', 'Dinv22841' => 'din', 'Dinv42553' => 'din', 'Duzib052G0560' => 'dzi', 'Duzib132G0389' => 'dzi', 'Duzib150G1181' => 'dzi', 'Duzib168G0623' => 'dzi', 'Duzib170G1036' => 'dzi', 'Duzib212G0200' => 'dzi', 'Duzib248G0194' => 'dzi', 'ECA232G2193' => 'eca', 'ECA233G0302' => 'eca', 'ECA234G2813' => 'eca', 'ECA234G4866' => 'eca', 'ECA240G3932' => 'eca', 'ECA248G0385' => 'eca', 'EL10Ac2g04781' => 'bvu', 'EL10Ac3g06445' => 'bvu', 'EL10Ac7g15825' => 'bvu', 'EL10Ac8g18550' => 'bvu', 'Eucgr.B03849' => 'egr', 'Eucgr.I02744' => 'egr', 'Eucgr.J00264' => 'egr', 'Eucgr.J00493' => 'egr', 'FAN04G2181' => 'fan', 'FAN07G2666' => 'fan', 'FAN11G0024' => 'fan', 'FAN12G1105' => 'fan', 'FAN13G0302' => 'fan', 'FAN15G2781' => 'fan', 'FAN16G1274' => 'fan', 'FAN17G2988' => 'fan', 'FAN18G2621' => 'fan', 'FAN21G0013' => 'fan', 'FAN22G1211' => 'fan', 'FAN25G3626' => 'fan', 'FvH4_2g09491' => 'fve', 'FvH4_3g24910' => 'fve', 'FvH4_4g15630' => 'fve', 'FvH4_5g28820' => 'fve', 'Glyma.01G238000' => 'gma', 'Glyma.05G168400' => 'gma', 'Glyma.08G126800' => 'gma', 'Glyma.08G188500' => 'gma', 'Glyma.10G278900' => 'gma', 'Glyma.11G005700' => 'gma', 'Glyma.11G183300' => 'gma', 'Glyma.12G089200' => 'gma', 'Glyma.12G169400' => 'gma', 'Glyma.12G169500' => 'gma', 'Glyma.12G169600' => 'gma', 'Glyma.20G110800' => 'gma', 'Gohir.A03G192900' => 'ghi', 'Gohir.A03G193000' => 'ghi', 'Gohir.A05G080700' => 'ghi', 'Gohir.A09G216000' => 'ghi', 'Gohir.A12G027700' => 'ghi', 'Gohir.A13G036200' => 'ghi', 'Gohir.A13G222600' => 'ghi', 'Gohir.D02G213900' => 'ghi', 'Gohir.D02G214000' => 'ghi', 'Gohir.D05G083700' => 'ghi', 'Gohir.D05G083800' => 'ghi', 'Gohir.D05G083850' => 'ghi', 'Gohir.D08G015400' => 'ghi', 'Gohir.D09G218400' => 'ghi', 'Gohir.D12G027100' => 'ghi', 'Gohir.D13G034500' => 'ghi', 'Gohir.D13G227400' => 'ghi', 'Gorai.005G241800' => 'gra', 'Gorai.005G241900' => 'gra', 'Gorai.006G239400' => 'gra', 'Gorai.008G027600' => 'gra', 'Gorai.009G085400' => 'gra', 'Gorai.009G085500' => 'gra', 'Gorai.013G039000' => 'gra', 'Gorai.013G194800' => 'gra', 'Gorai.013G257900' => 'gra', 'GSVIVG01000982001' => 'vvi', 'GSVIVG01017981001' => 'vvi', 'HanXRQChr01g0024061' => 'han', 'HanXRQChr09g0247831' => 'han', 'HanXRQChr10g0294611' => 'han', 'HanXRQChr10g0294621' => 'han', 'HanXRQChr11g0346821' => 'han', 'HanXRQChr13g0397461' => 'han', 'HanXRQChr16g0513651' => 'han', 'HanXRQChr16g0513701' => 'han', 'Haze_00897' => 'cav', 'Haze_01745' => 'cav', 'Haze_02486' => 'cav', 'Haze_02487' => 'cav', 'Haze_23374' => 'cav', 'Hma1.2p1_0578F.1_g182520' => 'hma', 'Hma1.2p1_0602F.1_g187350' => 'hma', 'Hma1.2p1_0602F.1_g187360' => 'hma', 'Hma1.2p1_0874F.1_g231320' => 'hma', 'Hma1.2p1_1197F.1_g266210' => 'hma', 'Hma1.2p1_1197F.1_g266220' => 'hma', 'Hma1.2p1_2167F.1_g315895' => 'hma', 'Hma1.2p1_2190F.1_g316640' => 'hma', 'Hma1.2p1_3645F.1_g337153' => 'hma', 'HPP92_004907' => 'vpl', 'HPP92_012134' => 'vpl', 'HPP92_025136' => 'vpl', 'HPP92_026087' => 'vpl', 'Hund06782' => 'sun', 'Hund06784' => 'sun', 'Lalb_Chr01g0004861' => 'lal', 'Lalb_Chr02g0140591' => 'lal', 'Lalb_Chr02g0140611' => 'lal', 'Lalb_Chr03g0028101' => 'lal', 'Lalb_Chr07g0185791' => 'lal', 'Lalb_Chr12g0204491' => 'lal', 'Lalb_Chr13g0295671' => 'lal', 'Lalb_Chr19g0136461' => 'lal', 'Lalb_Chr21g0309191' => 'lal', 'Lj1g0028158' => 'lja', 'Lj1P236T38' => 'lonja', 'Lj2C32G2' => 'lonja', 'Lj2P944T8' => 'lonja', 'Lj2P963T15' => 'lonja', 'Lj3g0011788' => 'lja', 'Lj4g0025027' => 'lja', 'Lj5P255T36' => 'lonja', 'Lj6g0018866' => 'lja', 'Lj6P608T31' => 'lonja', 'LjContig00408g0008879' => 'lja', 'Lsat_1_v5_gn_5_105820' => 'lsa', 'Lsat_1_v5_gn_6_38800' => 'lsa', 'Lsat_1_v5_gn_7_67141' => 'lsa', 'Manes.04G003400' => 'mes', 'Manes.07G020000' => 'mes', 'Manes.07G020100' => 'mes', 'Manes.07G020150' => 'mes', 'Manes.10G061500' => 'mes', 'Manes.10G123200' => 'mes', 'Manes.11G161900' => 'mes', 'Manes.15G029300' => 'mes', 'Mapoly0071s0018' => 'mpo', 'Mapoly0082s0023' => 'mpo', 'Mapoly3477s0001' => 'mpo', 'MBI05_g31233_MAGBIO' => 'mbi', 'MBI09_g05946_MAGBIO' => 'mbi', 'MBI09_g05947_MAGBIO' => 'mbi', 'MBI17_g08346_MAGBIO' => 'mbi', 'MCO04G038' => 'mco', 'MCO09G370' => 'mco', 'MCO13G605' => 'mco', 'MD00G1075500' => 'mdo', 'MD03G1144300' => 'mdo', 'MD08G1236800' => 'mdo', 'MD13G1193300' => 'mdo', 'MD15G1428700' => 'mdo', 'Medtr1g112030' => 'mtr', 'Medtr1g112050' => 'mtr', 'Medtr2g006290' => 'mtr', 'Medtr2g086510' => 'mtr', 'Medtr4g053120' => 'mtr', 'Medtr5g006320' => 'mtr', 'Medtr8g088720' => 'mtr', 'MELO3C004712.2' => 'cme', 'MELO3C006533.2' => 'cme', 'MELO3C019438.2' => 'cme', 'MELO3C019440.2' => 'cme', 'MELO3C019441.2' => 'cme', 'MELO3C019895.2' => 'cme', 'Migut.B00811' => 'egut', 'Migut.D02447' => 'egut', 'Migut.F00875' => 'egut', 'Migut.N00186' => 'egut', 'Migut.N01051' => 'egut', 'Migut.N02491' => 'egut', 'Migut.O00784' => 'egut', 'MSTRG.12367' => 'ama', 'MSTRG.18756' => 'ama', 'MSTRG.21042' => 'ama', 'Nitab4.5_0000559g0040' => 'nta', 'Nitab4.5_0000667g0190' => 'nta', 'Nitab4.5_0000755g0160' => 'nta', 'Nitab4.5_0001216g0080' => 'nta', 'Nitab4.5_0004069g0040' => 'nta', 'Nitab4.5_0004129g0010' => 'nta', 'Nitab4.5_0005744g0030' => 'nta', 'Nitab4.5_0006996g0030' => 'nta', 'Nitab4.5_0008971g0040' => 'nta', 'Nitab4.5_0009769g0020' => 'nta', 'Nitab4.5_0009833g0010' => 'nta', 'Nitab4.5_0013140g0020' => 'nta', 'Nn003s41376' => 'nnu', 'Nn1g01857' => 'nnu', 'Nn1g03611' => 'nnu', 'Nn1g06853' => 'nnu', 'Nn3g18360' => 'nnu', 'Nn4g26328' => 'nnu', 'Nn5g27531' => 'nnu', 'Nn6g34899' => 'nnu', 'Nn7g36299' => 'nnu', 'Oeu021485.1' => 'oeu', 'Oeu022433.1' => 'oeu', 'Oeu032111.1' => 'oeu', 'Oeu051608.1' => 'oeu', 'Os01g0860601' => 'osa', 'Os03g0659200' => 'osa', 'Os03g0835900' => 'osa', 'Os04g0412200' => 'osa', 'Os05g0443500' => 'osa', 'Os07g0251500' => 'osa', 'Os08g0104600' => 'osa', 'Peaxi162Scf00003g00047' => 'pax', 'Peaxi162Scf00003g00052' => 'pax', 'Peaxi162Scf00003g00394' => 'pax', 'Peaxi162Scf00091g00621' => 'pax', 'Peaxi162Scf00152g00146' => 'pax', 'Peaxi162Scf00173g00025' => 'pax', 'Peaxi162Scf00195g00102' => 'pax', 'Peaxi162Scf00402g00013' => 'pax', 'Peaxi162Scf00519g00618' => 'pax', 'PGR004G2838' => 'pgr', 'PGR044G2275' => 'pgr', 'PGR102G1377' => 'pgr', 'PGR119G1245' => 'pgr', 'PGR142G4449' => 'pgr', 'PGSC0003DMG400004532' => 'stu', 'PGSC0003DMG400011950' => 'stu', 'PGSC0003DMG400023391' => 'stu', 'PGSC0003DMG400023985' => 'stu', 'PGSC0003DMG400026360' => 'stu', 'PGSC0003DMG400035711' => 'stu', 'PGSC0003DMG400037286' => 'stu', 'PGSC0003DMG402005881' => 'stu', 'Phvul.002G045400' => 'pvu', 'Phvul.006G216600' => 'pvu', 'Phvul.006G216700' => 'pvu', 'Phvul.006G216800' => 'pvu', 'Phvul.007G022500' => 'pvu', 'Phvul.011G094400' => 'pvu', 'Potri.001G470700' => 'ptr', 'Potri.003G015200' => 'ptr', 'Potri.004G202500' => 'ptr', 'Potri.004G218400' => 'ptr', 'Potri.008G020100' => 'ptr', 'Potri.008G153200' => 'ptr', 'Potri.009G163800' => 'ptr', 'Potri.010G087300' => 'ptr', 'Potri.010G239100' => 'ptr', 'Pp3c10_16100' => 'ppa', 'Pp3c10_16880' => 'ppa', 'Pp3c16_6230' => 'ppa', 'Pp3c17_18910' => 'ppa', 'Pp3c3_22119' => 'ppa', 'Pp3c3_22140' => 'ppa', 'Pp3c4_8159' => 'ppa', 'Pp3c4_8171' => 'ppa', 'Pp3c4_8330' => 'ppa', 'PRCOL_00004098' => 'pco', 'Prupe.1G013900' => 'ppe', 'Prupe.1G226300' => 'ppe', 'Prupe.1G573600' => 'ppe', 'Prupe.6G130100' => 'ppe', 'Psat3g090040' => 'psa', 'Psat4g210440' => 'psa', 'Psat6g231040' => 'psa', 'Psat6g231080' => 'psa', 'Psat7g063000' => 'psa', 'Psat7g188000' => 'psa', 'Psat7g188040' => 'psa', 'PSO017G0206' => 'pso', 'PSO170G0501' => 'pso', 'PSO170G6422' => 'pso', 'PSO210G7739' => 'pso', 'PSO339G1808' => 'pso', 'PSO339G6135' => 'pso', 'PSO384G0010' => 'pso', 'PSO384G0964' => 'pso', 'PSO761G0050' => 'pso', 'PSO782G4085' => 'pso', 'QL01p012264' => 'qlo', 'QL02p099491' => 'qlo', 'QL03p033868' => 'qlo', 'QL04p046678' => 'qlo', 'QL06p002448' => 'qlo', 'RcHm_v2.0_Chr4g0416181' => 'rch', 'RcHm_v2.0_Chr5g0044701' => 'rch', 'RcHm_v2.0_Chr6g0265781' => 'rch', 'RcHm_v2.0_Chr7g0221031' => 'rch', 'Rhsim04G0202000' => 'rsi', 'Rhsim11G0127300' => 'rsi', 'Rhsim13G0111800' => 'rsi', 'Sabra01G0165600' => 'sbr', 'Sabra03G0008300' => 'sbr', 'Sabra04G0136900' => 'sbr', 'Sabra08G0013400' => 'sbr', 'Sabra08G0116800' => 'sbr', 'Sabra09G0128000' => 'sbr', 'Sabra10G0055500' => 'sbr', 'Sabra10G0073300' => 'sbr', 'SalBow3G0385' => 'sbo', 'SalBow3G1119' => 'sbo', 'SalBow3G2005' => 'sbo', 'SalBow6G2563' => 'sbo', 'SalBow6G6386' => 'sbo', 'Sc06g0008800' => 'sci', 'Sc07g0004950' => 'sci', 'Sc09g0005340' => 'sci', 'Sc13g0004410' => 'sci', 'Sc21g0007090' => 'sci', 'Sed0009285' => 'sed', 'Sed0017583' => 'sed', 'Sed0019699' => 'sed', 'Sed0023107' => 'sed', 'SEGI_10916' => 'sgi', 'SEGI_16217' => 'sgi', 'SEGI_19466' => 'sgi', 'SEGI_41115' => 'sgi', 'SGA_v2.0_scaffold111G31534' => 'sas', 'SGA_v2.0_scaffold22G09864' => 'sas', 'SGA_v2.0_scaffold338G49219' => 'sas', 'SGA_v2.0_scaffold92G28298' => 'sas', 'SMO119G0064' => 'smo', 'SMO223G0038' => 'smo', 'SMO347G0584' => 'smo', 'SMO351G0010' => 'smo', 'SMO356G0404' => 'smo', 'Solyc01g103920.3' => 'sly', 'Solyc04g009710.2' => 'sly', 'Solyc05g055280.2' => 'sly', 'Solyc10g044520.3' => 'sly', 'Solyc10g075160.1' => 'sly', 'Solyc11g006910.3' => 'sly', 'Solyc11g068430.3' => 'sly', 'Sopen01g046310' => 'spe', 'Sopen03g001200' => 'spe', 'Sopen04g004830' => 'spe', 'Sopen05g033720' => 'spe', 'Sopen06g030740' => 'spe', 'Sopen10g013090' => 'spe', 'Sopen10g027630' => 'spe', 'Sopen10g027640' => 'spe', 'Sopen11g002820' => 'spe', 'Sopen11g027140' => 'spe', 'Sp1g09680' => 'spa', 'Sp2g03630' => 'spa', 'Sp4g10320' => 'spa', 'Sp6g33400' => 'spa', 'Sp7g13030' => 'spa', 'TAR365G0317' => 'tar', 'TAR376G0979' => 'tar', 'TAR623G1665' => 'tar', 'TAR633G2373' => 'tar', 'TAR636G1400' => 'tar', 'THA.LOC104800529' => 'tha', 'THA.LOC104808547' => 'tha', 'THA.LOC104809615' => 'tha', 'THA.LOC104815724' => 'tha', 'THA.LOC104818480' => 'tha', 'THA.LOC104819179' => 'tha', 'THA.LOC104822270' => 'tha', 'THA.LOC104826425' => 'tha', 'Thecc.02G089700' => 'tca', 'Thecc.04G232300' => 'tca', 'Thecc.09G283400' => 'tca', 'Thhalv10009020m.g' => 'esa', 'Thhalv10015506m.g' => 'esa', 'Thhalv10017364m.g' => 'esa', 'Thhalv10023742m.g' => 'esa', 'Thhalv10026483m.g' => 'esa', 'TPR.G17232' => 'tpr', 'TPR.G2133' => 'tpr', 'TPR.G2498' => 'tpr', 'TPR.G31942' => 'tpr', 'TPR.G37877' => 'tpr', 'TPR.G4571' => 'tpr', 'TWI14G1113' => 'twi', 'TWI15G0426' => 'twi', 'TWI31G1005' => 'twi', 'TWI38G0513' => 'twi', 'TWI38G1484' => 'twi', 'TWI73G1098' => 'twi', 'unitig_26.g10519' => 'ugi', 'unitig_736.g22395' => 'ugi', 'unitig_747.g21234' => 'ugi', 'unitig_747.g21942' => 'ugi', 'vmacro14351' => 'vma', 'VMungo0540G0082' => 'vmu', 'VMungo0540G0405' => 'vmu', 'VMungo0540G1486' => 'vmu', 'VMungo0540G1692' => 'vmu', 'VMungo0720G2473' => 'vmu', 'VMungo1127G1562' => 'vmu', 'VMungo1215G1918' => 'vmu', 'Zm00001eb052650' => 'zma', 'Zm00001eb063710' => 'zma', 'Zm00001eb083950' => 'zma', 'Zm00001eb174420' => 'zma', 'Zm00001eb260140' => 'zma', 'Zm00001eb260150' => 'zma', 'Zm00001eb260160' => 'zma', 'Zm00001eb348290' => 'zma', 'Zm00001eb366870' => 'zma', 'Zm00001eb421930' => 'zma' ), 'gf_id' => 'HOM05D001025', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001025' ), 'data_identifier' => 'HOM05D001025', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001025', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '592', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p22650' => 'bna', 'A01p29720' => 'bna', 'A03p26560' => 'bna', 'A03p68820' => 'bna', 'A04p20980' => 'bna', 'A06p07730' => 'bna', 'A07p18260' => 'bna', 'A08p33710' => 'bna', 'A09p16970' => 'bna', 'A10p27490' => 'bna', 'Aa31LG1G17300' => 'aar', 'Aa31LG1G3910' => 'aar', 'Aa31LG2G9630' => 'aar', 'Aa31LG5G8360' => 'aar', 'Aa31LG9G2410' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4699' => 'aag', 'Actinidia23512' => 'ach', 'Actinidia37080' => 'ach', 'Ah.01g020380' => 'amhyb', 'Ah.08g215710' => 'amhyb', 'Ah.09g225110' => 'amhyb', 'Ah.10g036680' => 'amhyb', 'AL1G21940' => 'aly', 'AL2G15540' => 'aly', 'AL4G21520' => 'aly', 'AL7G40960' => 'aly', 'Aqoxy2G01191' => 'aox', 'Aqoxy2G03393' => 'aox', 'Aqoxy4G02775' => 'aox', 'Aqoxy6G00058' => 'aox', 'arahy.Tifrunner.gnm1.ann1.9X74H2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CW3FX9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R485W7' => 'arhy', 'AT1G10960' => 'ath', 'AT1G60950' => 'ath', 'AT2G27510' => 'ath', 'AT4G14890' => 'ath', 'AT5G10000' => 'ath', 'ATR0665G624' => 'atr', 'ATR0697G138' => 'atr', 'ATR0776G046' => 'atr', 'ATR1134G135' => 'atr', 'Atru.chr12.1025' => 'acertr', 'Atru.chr3.3241' => 'acertr', 'Atru.chr4.2460' => 'acertr', 'AUR62007427' => 'cqu', 'AUR62010960' => 'cqu', 'AUR62012201' => 'cqu', 'AUR62021470' => 'cqu', 'AUR62022834' => 'cqu', 'AUR62033635' => 'cqu', 'AUR62036186' => 'cqu', 'BcaB01g03077' => 'bca', 'BcaB02g10093' => 'bca', 'BcaB04g20295' => 'bca', 'BcaB06g28147' => 'bca', 'BcaB07g31253' => 'bca', 'BcaC01g04946' => 'bca', 'BcaC02g10614' => 'bca', 'BcaC02g10885' => 'bca', 'BcaC04g19356' => 'bca', 'BcaC04g22297' => 'bca', 'BcaC05g24977' => 'bca', 'BcaC06g31823' => 'bca', 'BcaC07g38633' => 'bca', 'BcaC09g49353' => 'bca', 'BcaC09g50168' => 'bca', 'BcaNung00322' => 'bca', 'BcaNung04769' => 'bca', 'BolC1t02753H' => 'bol', 'BolC1t03721H' => 'bol', 'BolC3t15525H' => 'bol', 'BolC4t23903H' => 'bol', 'BolC4t24231H' => 'bol', 'BolC4t27209H' => 'bol', 'BolC5t29671H' => 'bol', 'BolC8t49044H' => 'bol', 'BolC9t54999H' => 'bol', 'BolC9t59517H' => 'bol', 'BraA01t02178Z' => 'bra', 'BraA01t03099Z' => 'bra', 'BraA03t11867Z' => 'bra', 'BraA04t17667Z' => 'bra', 'BraA07t29542Z' => 'bra', 'BraA08t35287Z' => 'bra', 'BraA09t37334Z' => 'bra', 'BraA10t44801Z' => 'bra', 'BraSC39t46181Z' => 'bra', 'C01p28240' => 'bna', 'C01p37530' => 'bna', 'C03p31820' => 'bna', 'C04p24080' => 'bna', 'C04p25790' => 'bna', 'C04p56770' => 'bna', 'C05p09310' => 'bna', 'C09p21010' => 'bna', 'C09p67560' => 'bna', 'CAN.G1324.7' => 'can', 'CAN.G1358.10' => 'can', 'CAN.G1550.2' => 'can', 'CAN.G186.56' => 'can', 'CAN.G1965.1' => 'can', 'CAN.G645.15' => 'can', 'CAN.G798.26' => 'can', 'CAN.G798.27' => 'can', 'CAN.G798.29' => 'can', 'CAN.G919.31' => 'can', 'CANSAT11G0133' => 'cansat', 'CANSAT11G1171' => 'cansat', 'CANSAT11G2056' => 'cansat', 'CANSAT56G1202' => 'cansat', 'CANSAT56G1514' => 'cansat', 'CANSAT78G0455' => 'cansat', 'CARHR011190' => 'chi', 'CARHR051980' => 'chi', 'CARHR120170' => 'chi', 'CARHR203310' => 'chi', 'CARHR221490' => 'chi', 'Carub.0001s1054' => 'cru', 'Carub.0002s0431' => 'cru', 'Carub.0004s0818' => 'cru', 'Carub.0006s0846' => 'cru', 'Carub.0007s2722' => 'cru', 'Ca_00058_v3' => 'car', 'Ca_17831_v3' => 'car', 'Ca_19408_v3' => 'car', 'Ca_24397_v3' => 'car', 'Ca_25664_v3' => 'car', 'CBR_g21818' => 'cbr', 'CBR_g31195' => 'cbr', 'CBR_g32282' => 'cbr', 'CBR_g39599' => 'cbr', 'CBR_g49410' => 'cbr', 'Cc01_g09120' => 'ccan', 'Cc01_g09130' => 'ccan', 'Cc02_g09630' => 'ccan', 'Cc02_g22810' => 'ccan', 'Cc03_g03810' => 'ccan', 'CDE02G3718' => 'cde', 'CDE04G3183' => 'cde', 'CDE07G1046' => 'cde', 'CDE08G0480' => 'cde', 'Cfa005493' => 'cfa', 'Cfa010312' => 'cfa', 'Cfa015648' => 'cfa', 'Ciclev10002793m.g' => 'ccl', 'Ciclev10003356m.g' => 'ccl', 'Ciclev10006141m.g' => 'ccl', 'Ciclev10016676m.g' => 'ccl', 'Ciclev10017081m.g' => 'ccl', 'Ciclev10029499m.g' => 'ccl', 'CiPaw.01G166300' => 'cil', 'CiPaw.06G145600' => 'cil', 'CiPaw.13G040100' => 'cil', 'CiPaw.13G135800' => 'cil', 'ClCG01G012230' => 'cla', 'ClCG05G009510' => 'cla', 'ClCG08G008270' => 'cla', 'COL.COLO4_11763' => 'col', 'COL.COLO4_19876' => 'col', 'COL.COLO4_21481' => 'col', 'Cpa.g.sc118.34' => 'cpa', 'Cpa.g.sc32.13' => 'cpa', 'Cpa.g.sc58.103' => 'cpa', 'Cre03.g183850' => 'cre', 'Cre06.g306350' => 'cre', 'Cre07.g334800' => 'cre', 'Cre12.g487900' => 'cre', 'Cre14.g626700' => 'cre', 'Cre16.g658400' => 'cre', 'Cre17.g700950' => 'cre', 'CsaV3_1G014830' => 'csa', 'CsaV3_3G013320' => 'csa', 'CsaV3_3G019210' => 'csa', 'CsaV3_3G019220' => 'csa', 'CsaV3_6G004230' => 'csa', 'CSS0003773' => 'camsi', 'CSS0004563' => 'camsi', 'CSS0013949' => 'camsi', 'CSS0025971' => 'camsi', 'CSS0028570' => 'camsi', 'CSS0033127' => 'camsi', 'CSS0036051' => 'camsi', 'CSS0040087' => 'camsi', 'CSS0043179' => 'camsi', 'DCAR_006161' => 'dca', 'DCAR_010351' => 'dca', 'DCAR_012197' => 'dca', 'DCAR_024162' => 'dca', 'Dinv01030' => 'din', 'Dinv10924' => 'din', 'Dinv11835' => 'din', 'Dinv22841' => 'din', 'Dinv42553' => 'din', 'Duzib052G0560' => 'dzi', 'Duzib132G0389' => 'dzi', 'Duzib150G1181' => 'dzi', 'Duzib168G0623' => 'dzi', 'Duzib170G1036' => 'dzi', 'Duzib212G0200' => 'dzi', 'Duzib248G0194' => 'dzi', 'ECA232G2193' => 'eca', 'ECA233G0302' => 'eca', 'ECA234G2813' => 'eca', 'ECA234G4866' => 'eca', 'ECA240G3932' => 'eca', 'ECA248G0385' => 'eca', 'EL10Ac2g04781' => 'bvu', 'EL10Ac3g06445' => 'bvu', 'EL10Ac7g15825' => 'bvu', 'EL10Ac8g18550' => 'bvu', 'Eucgr.B03849' => 'egr', 'Eucgr.I02744' => 'egr', 'Eucgr.J00264' => 'egr', 'Eucgr.J00493' => 'egr', 'FAN04G2181' => 'fan', 'FAN07G2666' => 'fan', 'FAN11G0024' => 'fan', 'FAN12G1105' => 'fan', 'FAN13G0302' => 'fan', 'FAN15G2781' => 'fan', 'FAN16G1274' => 'fan', 'FAN17G2988' => 'fan', 'FAN18G2621' => 'fan', 'FAN21G0013' => 'fan', 'FAN22G1211' => 'fan', 'FAN25G3626' => 'fan', 'FvH4_2g09491' => 'fve', 'FvH4_3g24910' => 'fve', 'FvH4_4g15630' => 'fve', 'FvH4_5g28820' => 'fve', 'Glyma.01G238000' => 'gma', 'Glyma.05G168400' => 'gma', 'Glyma.08G126800' => 'gma', 'Glyma.08G188500' => 'gma', 'Glyma.10G278900' => 'gma', 'Glyma.11G005700' => 'gma', 'Glyma.11G183300' => 'gma', 'Glyma.12G089200' => 'gma', 'Glyma.12G169400' => 'gma', 'Glyma.12G169500' => 'gma', 'Glyma.12G169600' => 'gma', 'Glyma.20G110800' => 'gma', 'Gohir.A03G192900' => 'ghi', 'Gohir.A03G193000' => 'ghi', 'Gohir.A05G080700' => 'ghi', 'Gohir.A09G216000' => 'ghi', 'Gohir.A12G027700' => 'ghi', 'Gohir.A13G036200' => 'ghi', 'Gohir.A13G222600' => 'ghi', 'Gohir.D02G213900' => 'ghi', 'Gohir.D02G214000' => 'ghi', 'Gohir.D05G083700' => 'ghi', 'Gohir.D05G083800' => 'ghi', 'Gohir.D05G083850' => 'ghi', 'Gohir.D08G015400' => 'ghi', 'Gohir.D09G218400' => 'ghi', 'Gohir.D12G027100' => 'ghi', 'Gohir.D13G034500' => 'ghi', 'Gohir.D13G227400' => 'ghi', 'Gorai.005G241800' => 'gra', 'Gorai.005G241900' => 'gra', 'Gorai.006G239400' => 'gra', 'Gorai.008G027600' => 'gra', 'Gorai.009G085400' => 'gra', 'Gorai.009G085500' => 'gra', 'Gorai.013G039000' => 'gra', 'Gorai.013G194800' => 'gra', 'Gorai.013G257900' => 'gra', 'GSVIVG01000982001' => 'vvi', 'GSVIVG01017981001' => 'vvi', 'HanXRQChr01g0024061' => 'han', 'HanXRQChr09g0247831' => 'han', 'HanXRQChr10g0294611' => 'han', 'HanXRQChr10g0294621' => 'han', 'HanXRQChr11g0346821' => 'han', 'HanXRQChr13g0397461' => 'han', 'HanXRQChr16g0513651' => 'han', 'HanXRQChr16g0513701' => 'han', 'Haze_00897' => 'cav', 'Haze_01745' => 'cav', 'Haze_02486' => 'cav', 'Haze_02487' => 'cav', 'Haze_23374' => 'cav', 'Hma1.2p1_0578F.1_g182520' => 'hma', 'Hma1.2p1_0602F.1_g187350' => 'hma', 'Hma1.2p1_0602F.1_g187360' => 'hma', 'Hma1.2p1_0874F.1_g231320' => 'hma', 'Hma1.2p1_1197F.1_g266210' => 'hma', 'Hma1.2p1_1197F.1_g266220' => 'hma', 'Hma1.2p1_2167F.1_g315895' => 'hma', 'Hma1.2p1_2190F.1_g316640' => 'hma', 'Hma1.2p1_3645F.1_g337153' => 'hma', 'HPP92_004907' => 'vpl', 'HPP92_012134' => 'vpl', 'HPP92_025136' => 'vpl', 'HPP92_026087' => 'vpl', 'Hund06782' => 'sun', 'Hund06784' => 'sun', 'Lalb_Chr01g0004861' => 'lal', 'Lalb_Chr02g0140591' => 'lal', 'Lalb_Chr02g0140611' => 'lal', 'Lalb_Chr03g0028101' => 'lal', 'Lalb_Chr07g0185791' => 'lal', 'Lalb_Chr12g0204491' => 'lal', 'Lalb_Chr13g0295671' => 'lal', 'Lalb_Chr19g0136461' => 'lal', 'Lalb_Chr21g0309191' => 'lal', 'Lj1g0028158' => 'lja', 'Lj1P236T38' => 'lonja', 'Lj2C32G2' => 'lonja', 'Lj2P944T8' => 'lonja', 'Lj2P963T15' => 'lonja', 'Lj3g0011788' => 'lja', 'Lj4g0025027' => 'lja', 'Lj5P255T36' => 'lonja', 'Lj6g0018866' => 'lja', 'Lj6P608T31' => 'lonja', 'LjContig00408g0008879' => 'lja', 'Lsat_1_v5_gn_5_105820' => 'lsa', 'Lsat_1_v5_gn_6_38800' => 'lsa', 'Lsat_1_v5_gn_7_67141' => 'lsa', 'Manes.04G003400' => 'mes', 'Manes.07G020000' => 'mes', 'Manes.07G020100' => 'mes', 'Manes.07G020150' => 'mes', 'Manes.10G061500' => 'mes', 'Manes.10G123200' => 'mes', 'Manes.11G161900' => 'mes', 'Manes.15G029300' => 'mes', 'Mapoly0071s0018' => 'mpo', 'Mapoly0082s0023' => 'mpo', 'Mapoly3477s0001' => 'mpo', 'MBI05_g31233_MAGBIO' => 'mbi', 'MBI09_g05946_MAGBIO' => 'mbi', 'MBI09_g05947_MAGBIO' => 'mbi', 'MBI17_g08346_MAGBIO' => 'mbi', 'MCO04G038' => 'mco', 'MCO09G370' => 'mco', 'MCO13G605' => 'mco', 'MD00G1075500' => 'mdo', 'MD03G1144300' => 'mdo', 'MD08G1236800' => 'mdo', 'MD13G1193300' => 'mdo', 'MD15G1428700' => 'mdo', 'Medtr1g112030' => 'mtr', 'Medtr1g112050' => 'mtr', 'Medtr2g006290' => 'mtr', 'Medtr2g086510' => 'mtr', 'Medtr4g053120' => 'mtr', 'Medtr5g006320' => 'mtr', 'Medtr8g088720' => 'mtr', 'MELO3C004712.2' => 'cme', 'MELO3C006533.2' => 'cme', 'MELO3C019438.2' => 'cme', 'MELO3C019440.2' => 'cme', 'MELO3C019441.2' => 'cme', 'MELO3C019895.2' => 'cme', 'Migut.B00811' => 'egut', 'Migut.D02447' => 'egut', 'Migut.F00875' => 'egut', 'Migut.N00186' => 'egut', 'Migut.N01051' => 'egut', 'Migut.N02491' => 'egut', 'Migut.O00784' => 'egut', 'MSTRG.12367' => 'ama', 'MSTRG.18756' => 'ama', 'MSTRG.21042' => 'ama', 'Nitab4.5_0000559g0040' => 'nta', 'Nitab4.5_0000667g0190' => 'nta', 'Nitab4.5_0000755g0160' => 'nta', 'Nitab4.5_0001216g0080' => 'nta', 'Nitab4.5_0004069g0040' => 'nta', 'Nitab4.5_0004129g0010' => 'nta', 'Nitab4.5_0005744g0030' => 'nta', 'Nitab4.5_0006996g0030' => 'nta', 'Nitab4.5_0008971g0040' => 'nta', 'Nitab4.5_0009769g0020' => 'nta', 'Nitab4.5_0009833g0010' => 'nta', 'Nitab4.5_0013140g0020' => 'nta', 'Nn003s41376' => 'nnu', 'Nn1g01857' => 'nnu', 'Nn1g03611' => 'nnu', 'Nn1g06853' => 'nnu', 'Nn3g18360' => 'nnu', 'Nn4g26328' => 'nnu', 'Nn5g27531' => 'nnu', 'Nn6g34899' => 'nnu', 'Nn7g36299' => 'nnu', 'Oeu021485.1' => 'oeu', 'Oeu022433.1' => 'oeu', 'Oeu032111.1' => 'oeu', 'Oeu051608.1' => 'oeu', 'Os01g0860601' => 'osa', 'Os03g0659200' => 'osa', 'Os03g0835900' => 'osa', 'Os04g0412200' => 'osa', 'Os05g0443500' => 'osa', 'Os07g0251500' => 'osa', 'Os08g0104600' => 'osa', 'Peaxi162Scf00003g00047' => 'pax', 'Peaxi162Scf00003g00052' => 'pax', 'Peaxi162Scf00003g00394' => 'pax', 'Peaxi162Scf00091g00621' => 'pax', 'Peaxi162Scf00152g00146' => 'pax', 'Peaxi162Scf00173g00025' => 'pax', 'Peaxi162Scf00195g00102' => 'pax', 'Peaxi162Scf00402g00013' => 'pax', 'Peaxi162Scf00519g00618' => 'pax', 'PGR004G2838' => 'pgr', 'PGR044G2275' => 'pgr', 'PGR102G1377' => 'pgr', 'PGR119G1245' => 'pgr', 'PGR142G4449' => 'pgr', 'PGSC0003DMG400004532' => 'stu', 'PGSC0003DMG400011950' => 'stu', 'PGSC0003DMG400023391' => 'stu', 'PGSC0003DMG400023985' => 'stu', 'PGSC0003DMG400026360' => 'stu', 'PGSC0003DMG400035711' => 'stu', 'PGSC0003DMG400037286' => 'stu', 'PGSC0003DMG402005881' => 'stu', 'Phvul.002G045400' => 'pvu', 'Phvul.006G216600' => 'pvu', 'Phvul.006G216700' => 'pvu', 'Phvul.006G216800' => 'pvu', 'Phvul.007G022500' => 'pvu', 'Phvul.011G094400' => 'pvu', 'Potri.001G470700' => 'ptr', 'Potri.003G015200' => 'ptr', 'Potri.004G202500' => 'ptr', 'Potri.004G218400' => 'ptr', 'Potri.008G020100' => 'ptr', 'Potri.008G153200' => 'ptr', 'Potri.009G163800' => 'ptr', 'Potri.010G087300' => 'ptr', 'Potri.010G239100' => 'ptr', 'Pp3c10_16100' => 'ppa', 'Pp3c10_16880' => 'ppa', 'Pp3c16_6230' => 'ppa', 'Pp3c17_18910' => 'ppa', 'Pp3c3_22119' => 'ppa', 'Pp3c3_22140' => 'ppa', 'Pp3c4_8159' => 'ppa', 'Pp3c4_8171' => 'ppa', 'Pp3c4_8330' => 'ppa', 'PRCOL_00004098' => 'pco', 'Prupe.1G013900' => 'ppe', 'Prupe.1G226300' => 'ppe', 'Prupe.1G573600' => 'ppe', 'Prupe.6G130100' => 'ppe', 'Psat3g090040' => 'psa', 'Psat4g210440' => 'psa', 'Psat6g231040' => 'psa', 'Psat6g231080' => 'psa', 'Psat7g063000' => 'psa', 'Psat7g188000' => 'psa', 'Psat7g188040' => 'psa', 'PSO017G0206' => 'pso', 'PSO170G0501' => 'pso', 'PSO170G6422' => 'pso', 'PSO210G7739' => 'pso', 'PSO339G1808' => 'pso', 'PSO339G6135' => 'pso', 'PSO384G0010' => 'pso', 'PSO384G0964' => 'pso', 'PSO761G0050' => 'pso', 'PSO782G4085' => 'pso', 'QL01p012264' => 'qlo', 'QL02p099491' => 'qlo', 'QL03p033868' => 'qlo', 'QL04p046678' => 'qlo', 'QL06p002448' => 'qlo', 'RcHm_v2.0_Chr4g0416181' => 'rch', 'RcHm_v2.0_Chr5g0044701' => 'rch', 'RcHm_v2.0_Chr6g0265781' => 'rch', 'RcHm_v2.0_Chr7g0221031' => 'rch', 'Rhsim04G0202000' => 'rsi', 'Rhsim11G0127300' => 'rsi', 'Rhsim13G0111800' => 'rsi', 'Sabra01G0165600' => 'sbr', 'Sabra03G0008300' => 'sbr', 'Sabra04G0136900' => 'sbr', 'Sabra08G0013400' => 'sbr', 'Sabra08G0116800' => 'sbr', 'Sabra09G0128000' => 'sbr', 'Sabra10G0055500' => 'sbr', 'Sabra10G0073300' => 'sbr', 'SalBow3G0385' => 'sbo', 'SalBow3G1119' => 'sbo', 'SalBow3G2005' => 'sbo', 'SalBow6G2563' => 'sbo', 'SalBow6G6386' => 'sbo', 'Sc06g0008800' => 'sci', 'Sc07g0004950' => 'sci', 'Sc09g0005340' => 'sci', 'Sc13g0004410' => 'sci', 'Sc21g0007090' => 'sci', 'Sed0009285' => 'sed', 'Sed0017583' => 'sed', 'Sed0019699' => 'sed', 'Sed0023107' => 'sed', 'SEGI_10916' => 'sgi', 'SEGI_16217' => 'sgi', 'SEGI_19466' => 'sgi', 'SEGI_41115' => 'sgi', 'SGA_v2.0_scaffold111G31534' => 'sas', 'SGA_v2.0_scaffold22G09864' => 'sas', 'SGA_v2.0_scaffold338G49219' => 'sas', 'SGA_v2.0_scaffold92G28298' => 'sas', 'SMO119G0064' => 'smo', 'SMO223G0038' => 'smo', 'SMO347G0584' => 'smo', 'SMO351G0010' => 'smo', 'SMO356G0404' => 'smo', 'Solyc01g103920.3' => 'sly', 'Solyc04g009710.2' => 'sly', 'Solyc05g055280.2' => 'sly', 'Solyc10g044520.3' => 'sly', 'Solyc10g075160.1' => 'sly', 'Solyc11g006910.3' => 'sly', 'Solyc11g068430.3' => 'sly', 'Sopen01g046310' => 'spe', 'Sopen03g001200' => 'spe', 'Sopen04g004830' => 'spe', 'Sopen05g033720' => 'spe', 'Sopen06g030740' => 'spe', 'Sopen10g013090' => 'spe', 'Sopen10g027630' => 'spe', 'Sopen10g027640' => 'spe', 'Sopen11g002820' => 'spe', 'Sopen11g027140' => 'spe', 'Sp1g09680' => 'spa', 'Sp2g03630' => 'spa', 'Sp4g10320' => 'spa', 'Sp6g33400' => 'spa', 'Sp7g13030' => 'spa', 'TAR365G0317' => 'tar', 'TAR376G0979' => 'tar', 'TAR623G1665' => 'tar', 'TAR633G2373' => 'tar', 'TAR636G1400' => 'tar', 'THA.LOC104800529' => 'tha', 'THA.LOC104808547' => 'tha', 'THA.LOC104809615' => 'tha', 'THA.LOC104815724' => 'tha', 'THA.LOC104818480' => 'tha', 'THA.LOC104819179' => 'tha', 'THA.LOC104822270' => 'tha', 'THA.LOC104826425' => 'tha', 'Thecc.02G089700' => 'tca', 'Thecc.04G232300' => 'tca', 'Thecc.09G283400' => 'tca', 'Thhalv10009020m.g' => 'esa', 'Thhalv10015506m.g' => 'esa', 'Thhalv10017364m.g' => 'esa', 'Thhalv10023742m.g' => 'esa', 'Thhalv10026483m.g' => 'esa', 'TPR.G17232' => 'tpr', 'TPR.G2133' => 'tpr', 'TPR.G2498' => 'tpr', 'TPR.G31942' => 'tpr', 'TPR.G37877' => 'tpr', 'TPR.G4571' => 'tpr', 'TWI14G1113' => 'twi', 'TWI15G0426' => 'twi', 'TWI31G1005' => 'twi', 'TWI38G0513' => 'twi', 'TWI38G1484' => 'twi', 'TWI73G1098' => 'twi', 'unitig_26.g10519' => 'ugi', 'unitig_736.g22395' => 'ugi', 'unitig_747.g21234' => 'ugi', 'unitig_747.g21942' => 'ugi', 'vmacro14351' => 'vma', 'VMungo0540G0082' => 'vmu', 'VMungo0540G0405' => 'vmu', 'VMungo0540G1486' => 'vmu', 'VMungo0540G1692' => 'vmu', 'VMungo0720G2473' => 'vmu', 'VMungo1127G1562' => 'vmu', 'VMungo1215G1918' => 'vmu', 'Zm00001eb052650' => 'zma', 'Zm00001eb063710' => 'zma', 'Zm00001eb083950' => 'zma', 'Zm00001eb174420' => 'zma', 'Zm00001eb260140' => 'zma', 'Zm00001eb260150' => 'zma', 'Zm00001eb260160' => 'zma', 'Zm00001eb348290' => 'zma', 'Zm00001eb366870' => 'zma', 'Zm00001eb421930' => 'zma' ) $gf_id = 'HOM05D001025' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001025' ) $data_identifier = 'HOM05D001025' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 19, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 2, 'amhyb' => (int) 4, 'aly' => (int) 4, 'aox' => (int) 4, 'arhy' => (int) 3, 'ath' => (int) 5, 'atr' => (int) 4, 'acertr' => (int) 3, 'cqu' => (int) 7, 'bca' => (int) 17, 'bol' => (int) 10, 'bra' => (int) 9, 'can' => (int) 10, 'cansat' => (int) 6, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 5, 'cbr' => (int) 5, 'ccan' => (int) 5, 'cde' => (int) 4, 'cfa' => (int) 3, 'ccl' => (int) 6, 'cil' => (int) 4, 'cla' => (int) 3, 'col' => (int) 3, 'cpa' => (int) 3, 'cre' => (int) 7, 'csa' => (int) 5, 'camsi' => (int) 9, 'dca' => (int) 4, 'din' => (int) 5, 'dzi' => (int) 7, 'eca' => (int) 6, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 12, 'fve' => (int) 4, 'gma' => (int) 12, 'ghi' => (int) 17, 'gra' => (int) 9, 'vvi' => (int) 2, 'han' => (int) 8, 'cav' => (int) 5, 'hma' => (int) 9, 'vpl' => (int) 4, 'sun' => (int) 2, 'lal' => (int) 9, 'lja' => (int) 5, 'lonja' => (int) 6, 'lsa' => (int) 3, 'mes' => (int) 8, 'mpo' => (int) 3, 'mbi' => (int) 4, 'mco' => (int) 3, 'mdo' => (int) 5, 'mtr' => (int) 7, 'cme' => (int) 6, 'egut' => (int) 7, 'ama' => (int) 3, 'nta' => (int) 12, 'nnu' => (int) 9, 'oeu' => (int) 4, 'osa' => (int) 7, 'pax' => (int) 9, 'pgr' => (int) 5, 'stu' => (int) 8, 'pvu' => (int) 6, 'ptr' => (int) 9, 'ppa' => (int) 9, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 7, 'pso' => (int) 10, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 3, 'sbr' => (int) 8, 'sbo' => (int) 5, 'sci' => (int) 5, 'sed' => (int) 4, 'sgi' => (int) 4, 'sas' => (int) 4, 'smo' => (int) 5, 'sly' => (int) 7, 'spe' => (int) 10, 'spa' => (int) 5, 'tar' => (int) 5, 'tha' => (int) 8, 'tca' => (int) 3, 'esa' => (int) 5, 'tpr' => (int) 6, 'twi' => (int) 6, 'ugi' => (int) 4, 'vma' => (int) 1, 'vmu' => (int) 7, 'zma' => (int) 10 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb421930' $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' => 'HOM05D001025', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '592', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p22650' => 'bna', 'A01p29720' => 'bna', 'A03p26560' => 'bna', 'A03p68820' => 'bna', 'A04p20980' => 'bna', 'A06p07730' => 'bna', 'A07p18260' => 'bna', 'A08p33710' => 'bna', 'A09p16970' => 'bna', 'A10p27490' => 'bna', 'Aa31LG1G17300' => 'aar', 'Aa31LG1G3910' => 'aar', 'Aa31LG2G9630' => 'aar', 'Aa31LG5G8360' => 'aar', 'Aa31LG9G2410' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4699' => 'aag', 'Actinidia23512' => 'ach', 'Actinidia37080' => 'ach', 'Ah.01g020380' => 'amhyb', 'Ah.08g215710' => 'amhyb', 'Ah.09g225110' => 'amhyb', 'Ah.10g036680' => 'amhyb', 'AL1G21940' => 'aly', 'AL2G15540' => 'aly', 'AL4G21520' => 'aly', 'AL7G40960' => 'aly', 'Aqoxy2G01191' => 'aox', 'Aqoxy2G03393' => 'aox', 'Aqoxy4G02775' => 'aox', 'Aqoxy6G00058' => 'aox', 'arahy.Tifrunner.gnm1.ann1.9X74H2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CW3FX9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R485W7' => 'arhy', 'AT1G10960' => 'ath', 'AT1G60950' => 'ath', 'AT2G27510' => 'ath', 'AT4G14890' => 'ath', 'AT5G10000' => 'ath', 'ATR0665G624' => 'atr', 'ATR0697G138' => 'atr', 'ATR0776G046' => 'atr', 'ATR1134G135' => 'atr', 'Atru.chr12.1025' => 'acertr', 'Atru.chr3.3241' => 'acertr', 'Atru.chr4.2460' => 'acertr', 'AUR62007427' => 'cqu', 'AUR62010960' => 'cqu', 'AUR62012201' => 'cqu', 'AUR62021470' => 'cqu', 'AUR62022834' => 'cqu', 'AUR62033635' => 'cqu', 'AUR62036186' => 'cqu', 'BcaB01g03077' => 'bca', 'BcaB02g10093' => 'bca', 'BcaB04g20295' => 'bca', 'BcaB06g28147' => 'bca', 'BcaB07g31253' => 'bca', 'BcaC01g04946' => 'bca', 'BcaC02g10614' => 'bca', 'BcaC02g10885' => 'bca', 'BcaC04g19356' => 'bca', 'BcaC04g22297' => 'bca', 'BcaC05g24977' => 'bca', 'BcaC06g31823' => 'bca', 'BcaC07g38633' => 'bca', 'BcaC09g49353' => 'bca', 'BcaC09g50168' => 'bca', 'BcaNung00322' => 'bca', 'BcaNung04769' => 'bca', 'BolC1t02753H' => 'bol', 'BolC1t03721H' => 'bol', 'BolC3t15525H' => 'bol', 'BolC4t23903H' => 'bol', 'BolC4t24231H' => 'bol', 'BolC4t27209H' => 'bol', 'BolC5t29671H' => 'bol', 'BolC8t49044H' => 'bol', 'BolC9t54999H' => 'bol', 'BolC9t59517H' => 'bol', 'BraA01t02178Z' => 'bra', 'BraA01t03099Z' => 'bra', 'BraA03t11867Z' => 'bra', 'BraA04t17667Z' => 'bra', 'BraA07t29542Z' => 'bra', 'BraA08t35287Z' => 'bra', 'BraA09t37334Z' => 'bra', 'BraA10t44801Z' => 'bra', 'BraSC39t46181Z' => 'bra', 'C01p28240' => 'bna', 'C01p37530' => 'bna', 'C03p31820' => 'bna', 'C04p24080' => 'bna', 'C04p25790' => 'bna', 'C04p56770' => 'bna', 'C05p09310' => 'bna', 'C09p21010' => 'bna', 'C09p67560' => 'bna', 'CAN.G1324.7' => 'can', 'CAN.G1358.10' => 'can', 'CAN.G1550.2' => 'can', 'CAN.G186.56' => 'can', 'CAN.G1965.1' => 'can', 'CAN.G645.15' => 'can', 'CAN.G798.26' => 'can', 'CAN.G798.27' => 'can', 'CAN.G798.29' => 'can', 'CAN.G919.31' => 'can', 'CANSAT11G0133' => 'cansat', 'CANSAT11G1171' => 'cansat', 'CANSAT11G2056' => 'cansat', 'CANSAT56G1202' => 'cansat', 'CANSAT56G1514' => 'cansat', 'CANSAT78G0455' => 'cansat', 'CARHR011190' => 'chi', 'CARHR051980' => 'chi', 'CARHR120170' => 'chi', 'CARHR203310' => 'chi', 'CARHR221490' => 'chi', 'Carub.0001s1054' => 'cru', 'Carub.0002s0431' => 'cru', 'Carub.0004s0818' => 'cru', 'Carub.0006s0846' => 'cru', 'Carub.0007s2722' => 'cru', 'Ca_00058_v3' => 'car', 'Ca_17831_v3' => 'car', 'Ca_19408_v3' => 'car', 'Ca_24397_v3' => 'car', 'Ca_25664_v3' => 'car', 'CBR_g21818' => 'cbr', 'CBR_g31195' => 'cbr', 'CBR_g32282' => 'cbr', 'CBR_g39599' => 'cbr', 'CBR_g49410' => 'cbr', 'Cc01_g09120' => 'ccan', 'Cc01_g09130' => 'ccan', 'Cc02_g09630' => 'ccan', 'Cc02_g22810' => 'ccan', 'Cc03_g03810' => 'ccan', 'CDE02G3718' => 'cde', 'CDE04G3183' => 'cde', 'CDE07G1046' => 'cde', 'CDE08G0480' => 'cde', 'Cfa005493' => 'cfa', 'Cfa010312' => 'cfa', 'Cfa015648' => 'cfa', 'Ciclev10002793m.g' => 'ccl', 'Ciclev10003356m.g' => 'ccl', 'Ciclev10006141m.g' => 'ccl', 'Ciclev10016676m.g' => 'ccl', 'Ciclev10017081m.g' => 'ccl', 'Ciclev10029499m.g' => 'ccl', 'CiPaw.01G166300' => 'cil', 'CiPaw.06G145600' => 'cil', 'CiPaw.13G040100' => 'cil', 'CiPaw.13G135800' => 'cil', 'ClCG01G012230' => 'cla', 'ClCG05G009510' => 'cla', 'ClCG08G008270' => 'cla', 'COL.COLO4_11763' => 'col', 'COL.COLO4_19876' => 'col', 'COL.COLO4_21481' => 'col', 'Cpa.g.sc118.34' => 'cpa', 'Cpa.g.sc32.13' => 'cpa', 'Cpa.g.sc58.103' => 'cpa', 'Cre03.g183850' => 'cre', 'Cre06.g306350' => 'cre', 'Cre07.g334800' => 'cre', 'Cre12.g487900' => 'cre', 'Cre14.g626700' => 'cre', 'Cre16.g658400' => 'cre', 'Cre17.g700950' => 'cre', 'CsaV3_1G014830' => 'csa', 'CsaV3_3G013320' => 'csa', 'CsaV3_3G019210' => 'csa', 'CsaV3_3G019220' => 'csa', 'CsaV3_6G004230' => 'csa', 'CSS0003773' => 'camsi', 'CSS0004563' => 'camsi', 'CSS0013949' => 'camsi', 'CSS0025971' => 'camsi', 'CSS0028570' => 'camsi', 'CSS0033127' => 'camsi', 'CSS0036051' => 'camsi', 'CSS0040087' => 'camsi', 'CSS0043179' => 'camsi', 'DCAR_006161' => 'dca', 'DCAR_010351' => 'dca', 'DCAR_012197' => 'dca', 'DCAR_024162' => 'dca', 'Dinv01030' => 'din', 'Dinv10924' => 'din', 'Dinv11835' => 'din', 'Dinv22841' => 'din', 'Dinv42553' => 'din', 'Duzib052G0560' => 'dzi', 'Duzib132G0389' => 'dzi', 'Duzib150G1181' => 'dzi', 'Duzib168G0623' => 'dzi', 'Duzib170G1036' => 'dzi', 'Duzib212G0200' => 'dzi', 'Duzib248G0194' => 'dzi', 'ECA232G2193' => 'eca', 'ECA233G0302' => 'eca', 'ECA234G2813' => 'eca', 'ECA234G4866' => 'eca', 'ECA240G3932' => 'eca', 'ECA248G0385' => 'eca', 'EL10Ac2g04781' => 'bvu', 'EL10Ac3g06445' => 'bvu', 'EL10Ac7g15825' => 'bvu', 'EL10Ac8g18550' => 'bvu', 'Eucgr.B03849' => 'egr', 'Eucgr.I02744' => 'egr', 'Eucgr.J00264' => 'egr', 'Eucgr.J00493' => 'egr', 'FAN04G2181' => 'fan', 'FAN07G2666' => 'fan', 'FAN11G0024' => 'fan', 'FAN12G1105' => 'fan', 'FAN13G0302' => 'fan', 'FAN15G2781' => 'fan', 'FAN16G1274' => 'fan', 'FAN17G2988' => 'fan', 'FAN18G2621' => 'fan', 'FAN21G0013' => 'fan', 'FAN22G1211' => 'fan', 'FAN25G3626' => 'fan', 'FvH4_2g09491' => 'fve', 'FvH4_3g24910' => 'fve', 'FvH4_4g15630' => 'fve', 'FvH4_5g28820' => 'fve', 'Glyma.01G238000' => 'gma', 'Glyma.05G168400' => 'gma', 'Glyma.08G126800' => 'gma', 'Glyma.08G188500' => 'gma', 'Glyma.10G278900' => 'gma', 'Glyma.11G005700' => 'gma', 'Glyma.11G183300' => 'gma', 'Glyma.12G089200' => 'gma', 'Glyma.12G169400' => 'gma', 'Glyma.12G169500' => 'gma', 'Glyma.12G169600' => 'gma', 'Glyma.20G110800' => 'gma', 'Gohir.A03G192900' => 'ghi', 'Gohir.A03G193000' => 'ghi', 'Gohir.A05G080700' => 'ghi', 'Gohir.A09G216000' => 'ghi', 'Gohir.A12G027700' => 'ghi', 'Gohir.A13G036200' => 'ghi', 'Gohir.A13G222600' => 'ghi', 'Gohir.D02G213900' => 'ghi', 'Gohir.D02G214000' => 'ghi', 'Gohir.D05G083700' => 'ghi', 'Gohir.D05G083800' => 'ghi', 'Gohir.D05G083850' => 'ghi', 'Gohir.D08G015400' => 'ghi', 'Gohir.D09G218400' => 'ghi', 'Gohir.D12G027100' => 'ghi', 'Gohir.D13G034500' => 'ghi', 'Gohir.D13G227400' => 'ghi', 'Gorai.005G241800' => 'gra', 'Gorai.005G241900' => 'gra', 'Gorai.006G239400' => 'gra', 'Gorai.008G027600' => 'gra', 'Gorai.009G085400' => 'gra', 'Gorai.009G085500' => 'gra', 'Gorai.013G039000' => 'gra', 'Gorai.013G194800' => 'gra', 'Gorai.013G257900' => 'gra', 'GSVIVG01000982001' => 'vvi', 'GSVIVG01017981001' => 'vvi', 'HanXRQChr01g0024061' => 'han', 'HanXRQChr09g0247831' => 'han', 'HanXRQChr10g0294611' => 'han', 'HanXRQChr10g0294621' => 'han', 'HanXRQChr11g0346821' => 'han', 'HanXRQChr13g0397461' => 'han', 'HanXRQChr16g0513651' => 'han', 'HanXRQChr16g0513701' => 'han', 'Haze_00897' => 'cav', 'Haze_01745' => 'cav', 'Haze_02486' => 'cav', 'Haze_02487' => 'cav', 'Haze_23374' => 'cav', 'Hma1.2p1_0578F.1_g182520' => 'hma', 'Hma1.2p1_0602F.1_g187350' => 'hma', 'Hma1.2p1_0602F.1_g187360' => 'hma', 'Hma1.2p1_0874F.1_g231320' => 'hma', 'Hma1.2p1_1197F.1_g266210' => 'hma', 'Hma1.2p1_1197F.1_g266220' => 'hma', 'Hma1.2p1_2167F.1_g315895' => 'hma', 'Hma1.2p1_2190F.1_g316640' => 'hma', 'Hma1.2p1_3645F.1_g337153' => 'hma', 'HPP92_004907' => 'vpl', 'HPP92_012134' => 'vpl', 'HPP92_025136' => 'vpl', 'HPP92_026087' => 'vpl', 'Hund06782' => 'sun', 'Hund06784' => 'sun', 'Lalb_Chr01g0004861' => 'lal', 'Lalb_Chr02g0140591' => 'lal', 'Lalb_Chr02g0140611' => 'lal', 'Lalb_Chr03g0028101' => 'lal', 'Lalb_Chr07g0185791' => 'lal', 'Lalb_Chr12g0204491' => 'lal', 'Lalb_Chr13g0295671' => 'lal', 'Lalb_Chr19g0136461' => 'lal', 'Lalb_Chr21g0309191' => 'lal', 'Lj1g0028158' => 'lja', 'Lj1P236T38' => 'lonja', 'Lj2C32G2' => 'lonja', 'Lj2P944T8' => 'lonja', 'Lj2P963T15' => 'lonja', 'Lj3g0011788' => 'lja', 'Lj4g0025027' => 'lja', 'Lj5P255T36' => 'lonja', 'Lj6g0018866' => 'lja', 'Lj6P608T31' => 'lonja', 'LjContig00408g0008879' => 'lja', 'Lsat_1_v5_gn_5_105820' => 'lsa', 'Lsat_1_v5_gn_6_38800' => 'lsa', 'Lsat_1_v5_gn_7_67141' => 'lsa', 'Manes.04G003400' => 'mes', 'Manes.07G020000' => 'mes', 'Manes.07G020100' => 'mes', 'Manes.07G020150' => 'mes', 'Manes.10G061500' => 'mes', 'Manes.10G123200' => 'mes', 'Manes.11G161900' => 'mes', 'Manes.15G029300' => 'mes', 'Mapoly0071s0018' => 'mpo', 'Mapoly0082s0023' => 'mpo', 'Mapoly3477s0001' => 'mpo', 'MBI05_g31233_MAGBIO' => 'mbi', 'MBI09_g05946_MAGBIO' => 'mbi', 'MBI09_g05947_MAGBIO' => 'mbi', 'MBI17_g08346_MAGBIO' => 'mbi', 'MCO04G038' => 'mco', 'MCO09G370' => 'mco', 'MCO13G605' => 'mco', 'MD00G1075500' => 'mdo', 'MD03G1144300' => 'mdo', 'MD08G1236800' => 'mdo', 'MD13G1193300' => 'mdo', 'MD15G1428700' => 'mdo', 'Medtr1g112030' => 'mtr', 'Medtr1g112050' => 'mtr', 'Medtr2g006290' => 'mtr', 'Medtr2g086510' => 'mtr', 'Medtr4g053120' => 'mtr', 'Medtr5g006320' => 'mtr', 'Medtr8g088720' => 'mtr', 'MELO3C004712.2' => 'cme', 'MELO3C006533.2' => 'cme', 'MELO3C019438.2' => 'cme', 'MELO3C019440.2' => 'cme', 'MELO3C019441.2' => 'cme', 'MELO3C019895.2' => 'cme', 'Migut.B00811' => 'egut', 'Migut.D02447' => 'egut', 'Migut.F00875' => 'egut', 'Migut.N00186' => 'egut', 'Migut.N01051' => 'egut', 'Migut.N02491' => 'egut', 'Migut.O00784' => 'egut', 'MSTRG.12367' => 'ama', 'MSTRG.18756' => 'ama', 'MSTRG.21042' => 'ama', 'Nitab4.5_0000559g0040' => 'nta', 'Nitab4.5_0000667g0190' => 'nta', 'Nitab4.5_0000755g0160' => 'nta', 'Nitab4.5_0001216g0080' => 'nta', 'Nitab4.5_0004069g0040' => 'nta', 'Nitab4.5_0004129g0010' => 'nta', 'Nitab4.5_0005744g0030' => 'nta', 'Nitab4.5_0006996g0030' => 'nta', 'Nitab4.5_0008971g0040' => 'nta', 'Nitab4.5_0009769g0020' => 'nta', 'Nitab4.5_0009833g0010' => 'nta', 'Nitab4.5_0013140g0020' => 'nta', 'Nn003s41376' => 'nnu', 'Nn1g01857' => 'nnu', 'Nn1g03611' => 'nnu', 'Nn1g06853' => 'nnu', 'Nn3g18360' => 'nnu', 'Nn4g26328' => 'nnu', 'Nn5g27531' => 'nnu', 'Nn6g34899' => 'nnu', 'Nn7g36299' => 'nnu', 'Oeu021485.1' => 'oeu', 'Oeu022433.1' => 'oeu', 'Oeu032111.1' => 'oeu', 'Oeu051608.1' => 'oeu', 'Os01g0860601' => 'osa', 'Os03g0659200' => 'osa', 'Os03g0835900' => 'osa', 'Os04g0412200' => 'osa', 'Os05g0443500' => 'osa', 'Os07g0251500' => 'osa', 'Os08g0104600' => 'osa', 'Peaxi162Scf00003g00047' => 'pax', 'Peaxi162Scf00003g00052' => 'pax', 'Peaxi162Scf00003g00394' => 'pax', 'Peaxi162Scf00091g00621' => 'pax', 'Peaxi162Scf00152g00146' => 'pax', 'Peaxi162Scf00173g00025' => 'pax', 'Peaxi162Scf00195g00102' => 'pax', 'Peaxi162Scf00402g00013' => 'pax', 'Peaxi162Scf00519g00618' => 'pax', 'PGR004G2838' => 'pgr', 'PGR044G2275' => 'pgr', 'PGR102G1377' => 'pgr', 'PGR119G1245' => 'pgr', 'PGR142G4449' => 'pgr', 'PGSC0003DMG400004532' => 'stu', 'PGSC0003DMG400011950' => 'stu', 'PGSC0003DMG400023391' => 'stu', 'PGSC0003DMG400023985' => 'stu', 'PGSC0003DMG400026360' => 'stu', 'PGSC0003DMG400035711' => 'stu', 'PGSC0003DMG400037286' => 'stu', 'PGSC0003DMG402005881' => 'stu', 'Phvul.002G045400' => 'pvu', 'Phvul.006G216600' => 'pvu', 'Phvul.006G216700' => 'pvu', 'Phvul.006G216800' => 'pvu', 'Phvul.007G022500' => 'pvu', 'Phvul.011G094400' => 'pvu', 'Potri.001G470700' => 'ptr', 'Potri.003G015200' => 'ptr', 'Potri.004G202500' => 'ptr', 'Potri.004G218400' => 'ptr', 'Potri.008G020100' => 'ptr', 'Potri.008G153200' => 'ptr', 'Potri.009G163800' => 'ptr', 'Potri.010G087300' => 'ptr', 'Potri.010G239100' => 'ptr', 'Pp3c10_16100' => 'ppa', 'Pp3c10_16880' => 'ppa', 'Pp3c16_6230' => 'ppa', 'Pp3c17_18910' => 'ppa', 'Pp3c3_22119' => 'ppa', 'Pp3c3_22140' => 'ppa', 'Pp3c4_8159' => 'ppa', 'Pp3c4_8171' => 'ppa', 'Pp3c4_8330' => 'ppa', 'PRCOL_00004098' => 'pco', 'Prupe.1G013900' => 'ppe', 'Prupe.1G226300' => 'ppe', 'Prupe.1G573600' => 'ppe', 'Prupe.6G130100' => 'ppe', 'Psat3g090040' => 'psa', 'Psat4g210440' => 'psa', 'Psat6g231040' => 'psa', 'Psat6g231080' => 'psa', 'Psat7g063000' => 'psa', 'Psat7g188000' => 'psa', 'Psat7g188040' => 'psa', 'PSO017G0206' => 'pso', 'PSO170G0501' => 'pso', 'PSO170G6422' => 'pso', 'PSO210G7739' => 'pso', 'PSO339G1808' => 'pso', 'PSO339G6135' => 'pso', 'PSO384G0010' => 'pso', 'PSO384G0964' => 'pso', 'PSO761G0050' => 'pso', 'PSO782G4085' => 'pso', 'QL01p012264' => 'qlo', 'QL02p099491' => 'qlo', 'QL03p033868' => 'qlo', 'QL04p046678' => 'qlo', 'QL06p002448' => 'qlo', 'RcHm_v2.0_Chr4g0416181' => 'rch', 'RcHm_v2.0_Chr5g0044701' => 'rch', 'RcHm_v2.0_Chr6g0265781' => 'rch', 'RcHm_v2.0_Chr7g0221031' => 'rch', 'Rhsim04G0202000' => 'rsi', 'Rhsim11G0127300' => 'rsi', 'Rhsim13G0111800' => 'rsi', 'Sabra01G0165600' => 'sbr', 'Sabra03G0008300' => 'sbr', 'Sabra04G0136900' => 'sbr', 'Sabra08G0013400' => 'sbr', 'Sabra08G0116800' => 'sbr', 'Sabra09G0128000' => 'sbr', 'Sabra10G0055500' => 'sbr', 'Sabra10G0073300' => 'sbr', 'SalBow3G0385' => 'sbo', 'SalBow3G1119' => 'sbo', 'SalBow3G2005' => 'sbo', 'SalBow6G2563' => 'sbo', 'SalBow6G6386' => 'sbo', 'Sc06g0008800' => 'sci', 'Sc07g0004950' => 'sci', 'Sc09g0005340' => 'sci', 'Sc13g0004410' => 'sci', 'Sc21g0007090' => 'sci', 'Sed0009285' => 'sed', 'Sed0017583' => 'sed', 'Sed0019699' => 'sed', 'Sed0023107' => 'sed', 'SEGI_10916' => 'sgi', 'SEGI_16217' => 'sgi', 'SEGI_19466' => 'sgi', 'SEGI_41115' => 'sgi', 'SGA_v2.0_scaffold111G31534' => 'sas', 'SGA_v2.0_scaffold22G09864' => 'sas', 'SGA_v2.0_scaffold338G49219' => 'sas', 'SGA_v2.0_scaffold92G28298' => 'sas', 'SMO119G0064' => 'smo', 'SMO223G0038' => 'smo', 'SMO347G0584' => 'smo', 'SMO351G0010' => 'smo', 'SMO356G0404' => 'smo', 'Solyc01g103920.3' => 'sly', 'Solyc04g009710.2' => 'sly', 'Solyc05g055280.2' => 'sly', 'Solyc10g044520.3' => 'sly', 'Solyc10g075160.1' => 'sly', 'Solyc11g006910.3' => 'sly', 'Solyc11g068430.3' => 'sly', 'Sopen01g046310' => 'spe', 'Sopen03g001200' => 'spe', 'Sopen04g004830' => 'spe', 'Sopen05g033720' => 'spe', 'Sopen06g030740' => 'spe', 'Sopen10g013090' => 'spe', 'Sopen10g027630' => 'spe', 'Sopen10g027640' => 'spe', 'Sopen11g002820' => 'spe', 'Sopen11g027140' => 'spe', 'Sp1g09680' => 'spa', 'Sp2g03630' => 'spa', 'Sp4g10320' => 'spa', 'Sp6g33400' => 'spa', 'Sp7g13030' => 'spa', 'TAR365G0317' => 'tar', 'TAR376G0979' => 'tar', 'TAR623G1665' => 'tar', 'TAR633G2373' => 'tar', 'TAR636G1400' => 'tar', 'THA.LOC104800529' => 'tha', 'THA.LOC104808547' => 'tha', 'THA.LOC104809615' => 'tha', 'THA.LOC104815724' => 'tha', 'THA.LOC104818480' => 'tha', 'THA.LOC104819179' => 'tha', 'THA.LOC104822270' => 'tha', 'THA.LOC104826425' => 'tha', 'Thecc.02G089700' => 'tca', 'Thecc.04G232300' => 'tca', 'Thecc.09G283400' => 'tca', 'Thhalv10009020m.g' => 'esa', 'Thhalv10015506m.g' => 'esa', 'Thhalv10017364m.g' => 'esa', 'Thhalv10023742m.g' => 'esa', 'Thhalv10026483m.g' => 'esa', 'TPR.G17232' => 'tpr', 'TPR.G2133' => 'tpr', 'TPR.G2498' => 'tpr', 'TPR.G31942' => 'tpr', 'TPR.G37877' => 'tpr', 'TPR.G4571' => 'tpr', 'TWI14G1113' => 'twi', 'TWI15G0426' => 'twi', 'TWI31G1005' => 'twi', 'TWI38G0513' => 'twi', 'TWI38G1484' => 'twi', 'TWI73G1098' => 'twi', 'unitig_26.g10519' => 'ugi', 'unitig_736.g22395' => 'ugi', 'unitig_747.g21234' => 'ugi', 'unitig_747.g21942' => 'ugi', 'vmacro14351' => 'vma', 'VMungo0540G0082' => 'vmu', 'VMungo0540G0405' => 'vmu', 'VMungo0540G1486' => 'vmu', 'VMungo0540G1692' => 'vmu', 'VMungo0720G2473' => 'vmu', 'VMungo1127G1562' => 'vmu', 'VMungo1215G1918' => 'vmu', 'Zm00001eb052650' => 'zma', 'Zm00001eb063710' => 'zma', 'Zm00001eb083950' => 'zma', 'Zm00001eb174420' => 'zma', 'Zm00001eb260140' => 'zma', 'Zm00001eb260150' => 'zma', 'Zm00001eb260160' => 'zma', 'Zm00001eb348290' => 'zma', 'Zm00001eb366870' => 'zma', 'Zm00001eb421930' => 'zma' ), 'gf_id' => 'HOM05D001025', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001025' ), 'data_identifier' => 'HOM05D001025', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001025', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '592', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p22650' => 'bna', 'A01p29720' => 'bna', 'A03p26560' => 'bna', 'A03p68820' => 'bna', 'A04p20980' => 'bna', 'A06p07730' => 'bna', 'A07p18260' => 'bna', 'A08p33710' => 'bna', 'A09p16970' => 'bna', 'A10p27490' => 'bna', 'Aa31LG1G17300' => 'aar', 'Aa31LG1G3910' => 'aar', 'Aa31LG2G9630' => 'aar', 'Aa31LG5G8360' => 'aar', 'Aa31LG9G2410' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4699' => 'aag', 'Actinidia23512' => 'ach', 'Actinidia37080' => 'ach', 'Ah.01g020380' => 'amhyb', 'Ah.08g215710' => 'amhyb', 'Ah.09g225110' => 'amhyb', 'Ah.10g036680' => 'amhyb', 'AL1G21940' => 'aly', 'AL2G15540' => 'aly', 'AL4G21520' => 'aly', 'AL7G40960' => 'aly', 'Aqoxy2G01191' => 'aox', 'Aqoxy2G03393' => 'aox', 'Aqoxy4G02775' => 'aox', 'Aqoxy6G00058' => 'aox', 'arahy.Tifrunner.gnm1.ann1.9X74H2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CW3FX9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R485W7' => 'arhy', 'AT1G10960' => 'ath', 'AT1G60950' => 'ath', 'AT2G27510' => 'ath', 'AT4G14890' => 'ath', 'AT5G10000' => 'ath', 'ATR0665G624' => 'atr', 'ATR0697G138' => 'atr', 'ATR0776G046' => 'atr', 'ATR1134G135' => 'atr', 'Atru.chr12.1025' => 'acertr', 'Atru.chr3.3241' => 'acertr', 'Atru.chr4.2460' => 'acertr', 'AUR62007427' => 'cqu', 'AUR62010960' => 'cqu', 'AUR62012201' => 'cqu', 'AUR62021470' => 'cqu', 'AUR62022834' => 'cqu', 'AUR62033635' => 'cqu', 'AUR62036186' => 'cqu', 'BcaB01g03077' => 'bca', 'BcaB02g10093' => 'bca', 'BcaB04g20295' => 'bca', 'BcaB06g28147' => 'bca', 'BcaB07g31253' => 'bca', 'BcaC01g04946' => 'bca', 'BcaC02g10614' => 'bca', 'BcaC02g10885' => 'bca', 'BcaC04g19356' => 'bca', 'BcaC04g22297' => 'bca', 'BcaC05g24977' => 'bca', 'BcaC06g31823' => 'bca', 'BcaC07g38633' => 'bca', 'BcaC09g49353' => 'bca', 'BcaC09g50168' => 'bca', 'BcaNung00322' => 'bca', 'BcaNung04769' => 'bca', 'BolC1t02753H' => 'bol', 'BolC1t03721H' => 'bol', 'BolC3t15525H' => 'bol', 'BolC4t23903H' => 'bol', 'BolC4t24231H' => 'bol', 'BolC4t27209H' => 'bol', 'BolC5t29671H' => 'bol', 'BolC8t49044H' => 'bol', 'BolC9t54999H' => 'bol', 'BolC9t59517H' => 'bol', 'BraA01t02178Z' => 'bra', 'BraA01t03099Z' => 'bra', 'BraA03t11867Z' => 'bra', 'BraA04t17667Z' => 'bra', 'BraA07t29542Z' => 'bra', 'BraA08t35287Z' => 'bra', 'BraA09t37334Z' => 'bra', 'BraA10t44801Z' => 'bra', 'BraSC39t46181Z' => 'bra', 'C01p28240' => 'bna', 'C01p37530' => 'bna', 'C03p31820' => 'bna', 'C04p24080' => 'bna', 'C04p25790' => 'bna', 'C04p56770' => 'bna', 'C05p09310' => 'bna', 'C09p21010' => 'bna', 'C09p67560' => 'bna', 'CAN.G1324.7' => 'can', 'CAN.G1358.10' => 'can', 'CAN.G1550.2' => 'can', 'CAN.G186.56' => 'can', 'CAN.G1965.1' => 'can', 'CAN.G645.15' => 'can', 'CAN.G798.26' => 'can', 'CAN.G798.27' => 'can', 'CAN.G798.29' => 'can', 'CAN.G919.31' => 'can', 'CANSAT11G0133' => 'cansat', 'CANSAT11G1171' => 'cansat', 'CANSAT11G2056' => 'cansat', 'CANSAT56G1202' => 'cansat', 'CANSAT56G1514' => 'cansat', 'CANSAT78G0455' => 'cansat', 'CARHR011190' => 'chi', 'CARHR051980' => 'chi', 'CARHR120170' => 'chi', 'CARHR203310' => 'chi', 'CARHR221490' => 'chi', 'Carub.0001s1054' => 'cru', 'Carub.0002s0431' => 'cru', 'Carub.0004s0818' => 'cru', 'Carub.0006s0846' => 'cru', 'Carub.0007s2722' => 'cru', 'Ca_00058_v3' => 'car', 'Ca_17831_v3' => 'car', 'Ca_19408_v3' => 'car', 'Ca_24397_v3' => 'car', 'Ca_25664_v3' => 'car', 'CBR_g21818' => 'cbr', 'CBR_g31195' => 'cbr', 'CBR_g32282' => 'cbr', 'CBR_g39599' => 'cbr', 'CBR_g49410' => 'cbr', 'Cc01_g09120' => 'ccan', 'Cc01_g09130' => 'ccan', 'Cc02_g09630' => 'ccan', 'Cc02_g22810' => 'ccan', 'Cc03_g03810' => 'ccan', 'CDE02G3718' => 'cde', 'CDE04G3183' => 'cde', 'CDE07G1046' => 'cde', 'CDE08G0480' => 'cde', 'Cfa005493' => 'cfa', 'Cfa010312' => 'cfa', 'Cfa015648' => 'cfa', 'Ciclev10002793m.g' => 'ccl', 'Ciclev10003356m.g' => 'ccl', 'Ciclev10006141m.g' => 'ccl', 'Ciclev10016676m.g' => 'ccl', 'Ciclev10017081m.g' => 'ccl', 'Ciclev10029499m.g' => 'ccl', 'CiPaw.01G166300' => 'cil', 'CiPaw.06G145600' => 'cil', 'CiPaw.13G040100' => 'cil', 'CiPaw.13G135800' => 'cil', 'ClCG01G012230' => 'cla', 'ClCG05G009510' => 'cla', 'ClCG08G008270' => 'cla', 'COL.COLO4_11763' => 'col', 'COL.COLO4_19876' => 'col', 'COL.COLO4_21481' => 'col', 'Cpa.g.sc118.34' => 'cpa', 'Cpa.g.sc32.13' => 'cpa', 'Cpa.g.sc58.103' => 'cpa', 'Cre03.g183850' => 'cre', 'Cre06.g306350' => 'cre', 'Cre07.g334800' => 'cre', 'Cre12.g487900' => 'cre', 'Cre14.g626700' => 'cre', 'Cre16.g658400' => 'cre', 'Cre17.g700950' => 'cre', 'CsaV3_1G014830' => 'csa', 'CsaV3_3G013320' => 'csa', 'CsaV3_3G019210' => 'csa', 'CsaV3_3G019220' => 'csa', 'CsaV3_6G004230' => 'csa', 'CSS0003773' => 'camsi', 'CSS0004563' => 'camsi', 'CSS0013949' => 'camsi', 'CSS0025971' => 'camsi', 'CSS0028570' => 'camsi', 'CSS0033127' => 'camsi', 'CSS0036051' => 'camsi', 'CSS0040087' => 'camsi', 'CSS0043179' => 'camsi', 'DCAR_006161' => 'dca', 'DCAR_010351' => 'dca', 'DCAR_012197' => 'dca', 'DCAR_024162' => 'dca', 'Dinv01030' => 'din', 'Dinv10924' => 'din', 'Dinv11835' => 'din', 'Dinv22841' => 'din', 'Dinv42553' => 'din', 'Duzib052G0560' => 'dzi', 'Duzib132G0389' => 'dzi', 'Duzib150G1181' => 'dzi', 'Duzib168G0623' => 'dzi', 'Duzib170G1036' => 'dzi', 'Duzib212G0200' => 'dzi', 'Duzib248G0194' => 'dzi', 'ECA232G2193' => 'eca', 'ECA233G0302' => 'eca', 'ECA234G2813' => 'eca', 'ECA234G4866' => 'eca', 'ECA240G3932' => 'eca', 'ECA248G0385' => 'eca', 'EL10Ac2g04781' => 'bvu', 'EL10Ac3g06445' => 'bvu', 'EL10Ac7g15825' => 'bvu', 'EL10Ac8g18550' => 'bvu', 'Eucgr.B03849' => 'egr', 'Eucgr.I02744' => 'egr', 'Eucgr.J00264' => 'egr', 'Eucgr.J00493' => 'egr', 'FAN04G2181' => 'fan', 'FAN07G2666' => 'fan', 'FAN11G0024' => 'fan', 'FAN12G1105' => 'fan', 'FAN13G0302' => 'fan', 'FAN15G2781' => 'fan', 'FAN16G1274' => 'fan', 'FAN17G2988' => 'fan', 'FAN18G2621' => 'fan', 'FAN21G0013' => 'fan', 'FAN22G1211' => 'fan', 'FAN25G3626' => 'fan', 'FvH4_2g09491' => 'fve', 'FvH4_3g24910' => 'fve', 'FvH4_4g15630' => 'fve', 'FvH4_5g28820' => 'fve', 'Glyma.01G238000' => 'gma', 'Glyma.05G168400' => 'gma', 'Glyma.08G126800' => 'gma', 'Glyma.08G188500' => 'gma', 'Glyma.10G278900' => 'gma', 'Glyma.11G005700' => 'gma', 'Glyma.11G183300' => 'gma', 'Glyma.12G089200' => 'gma', 'Glyma.12G169400' => 'gma', 'Glyma.12G169500' => 'gma', 'Glyma.12G169600' => 'gma', 'Glyma.20G110800' => 'gma', 'Gohir.A03G192900' => 'ghi', 'Gohir.A03G193000' => 'ghi', 'Gohir.A05G080700' => 'ghi', 'Gohir.A09G216000' => 'ghi', 'Gohir.A12G027700' => 'ghi', 'Gohir.A13G036200' => 'ghi', 'Gohir.A13G222600' => 'ghi', 'Gohir.D02G213900' => 'ghi', 'Gohir.D02G214000' => 'ghi', 'Gohir.D05G083700' => 'ghi', 'Gohir.D05G083800' => 'ghi', 'Gohir.D05G083850' => 'ghi', 'Gohir.D08G015400' => 'ghi', 'Gohir.D09G218400' => 'ghi', 'Gohir.D12G027100' => 'ghi', 'Gohir.D13G034500' => 'ghi', 'Gohir.D13G227400' => 'ghi', 'Gorai.005G241800' => 'gra', 'Gorai.005G241900' => 'gra', 'Gorai.006G239400' => 'gra', 'Gorai.008G027600' => 'gra', 'Gorai.009G085400' => 'gra', 'Gorai.009G085500' => 'gra', 'Gorai.013G039000' => 'gra', 'Gorai.013G194800' => 'gra', 'Gorai.013G257900' => 'gra', 'GSVIVG01000982001' => 'vvi', 'GSVIVG01017981001' => 'vvi', 'HanXRQChr01g0024061' => 'han', 'HanXRQChr09g0247831' => 'han', 'HanXRQChr10g0294611' => 'han', 'HanXRQChr10g0294621' => 'han', 'HanXRQChr11g0346821' => 'han', 'HanXRQChr13g0397461' => 'han', 'HanXRQChr16g0513651' => 'han', 'HanXRQChr16g0513701' => 'han', 'Haze_00897' => 'cav', 'Haze_01745' => 'cav', 'Haze_02486' => 'cav', 'Haze_02487' => 'cav', 'Haze_23374' => 'cav', 'Hma1.2p1_0578F.1_g182520' => 'hma', 'Hma1.2p1_0602F.1_g187350' => 'hma', 'Hma1.2p1_0602F.1_g187360' => 'hma', 'Hma1.2p1_0874F.1_g231320' => 'hma', 'Hma1.2p1_1197F.1_g266210' => 'hma', 'Hma1.2p1_1197F.1_g266220' => 'hma', 'Hma1.2p1_2167F.1_g315895' => 'hma', 'Hma1.2p1_2190F.1_g316640' => 'hma', 'Hma1.2p1_3645F.1_g337153' => 'hma', 'HPP92_004907' => 'vpl', 'HPP92_012134' => 'vpl', 'HPP92_025136' => 'vpl', 'HPP92_026087' => 'vpl', 'Hund06782' => 'sun', 'Hund06784' => 'sun', 'Lalb_Chr01g0004861' => 'lal', 'Lalb_Chr02g0140591' => 'lal', 'Lalb_Chr02g0140611' => 'lal', 'Lalb_Chr03g0028101' => 'lal', 'Lalb_Chr07g0185791' => 'lal', 'Lalb_Chr12g0204491' => 'lal', 'Lalb_Chr13g0295671' => 'lal', 'Lalb_Chr19g0136461' => 'lal', 'Lalb_Chr21g0309191' => 'lal', 'Lj1g0028158' => 'lja', 'Lj1P236T38' => 'lonja', 'Lj2C32G2' => 'lonja', 'Lj2P944T8' => 'lonja', 'Lj2P963T15' => 'lonja', 'Lj3g0011788' => 'lja', 'Lj4g0025027' => 'lja', 'Lj5P255T36' => 'lonja', 'Lj6g0018866' => 'lja', 'Lj6P608T31' => 'lonja', 'LjContig00408g0008879' => 'lja', 'Lsat_1_v5_gn_5_105820' => 'lsa', 'Lsat_1_v5_gn_6_38800' => 'lsa', 'Lsat_1_v5_gn_7_67141' => 'lsa', 'Manes.04G003400' => 'mes', 'Manes.07G020000' => 'mes', 'Manes.07G020100' => 'mes', 'Manes.07G020150' => 'mes', 'Manes.10G061500' => 'mes', 'Manes.10G123200' => 'mes', 'Manes.11G161900' => 'mes', 'Manes.15G029300' => 'mes', 'Mapoly0071s0018' => 'mpo', 'Mapoly0082s0023' => 'mpo', 'Mapoly3477s0001' => 'mpo', 'MBI05_g31233_MAGBIO' => 'mbi', 'MBI09_g05946_MAGBIO' => 'mbi', 'MBI09_g05947_MAGBIO' => 'mbi', 'MBI17_g08346_MAGBIO' => 'mbi', 'MCO04G038' => 'mco', 'MCO09G370' => 'mco', 'MCO13G605' => 'mco', 'MD00G1075500' => 'mdo', 'MD03G1144300' => 'mdo', 'MD08G1236800' => 'mdo', 'MD13G1193300' => 'mdo', 'MD15G1428700' => 'mdo', 'Medtr1g112030' => 'mtr', 'Medtr1g112050' => 'mtr', 'Medtr2g006290' => 'mtr', 'Medtr2g086510' => 'mtr', 'Medtr4g053120' => 'mtr', 'Medtr5g006320' => 'mtr', 'Medtr8g088720' => 'mtr', 'MELO3C004712.2' => 'cme', 'MELO3C006533.2' => 'cme', 'MELO3C019438.2' => 'cme', 'MELO3C019440.2' => 'cme', 'MELO3C019441.2' => 'cme', 'MELO3C019895.2' => 'cme', 'Migut.B00811' => 'egut', 'Migut.D02447' => 'egut', 'Migut.F00875' => 'egut', 'Migut.N00186' => 'egut', 'Migut.N01051' => 'egut', 'Migut.N02491' => 'egut', 'Migut.O00784' => 'egut', 'MSTRG.12367' => 'ama', 'MSTRG.18756' => 'ama', 'MSTRG.21042' => 'ama', 'Nitab4.5_0000559g0040' => 'nta', 'Nitab4.5_0000667g0190' => 'nta', 'Nitab4.5_0000755g0160' => 'nta', 'Nitab4.5_0001216g0080' => 'nta', 'Nitab4.5_0004069g0040' => 'nta', 'Nitab4.5_0004129g0010' => 'nta', 'Nitab4.5_0005744g0030' => 'nta', 'Nitab4.5_0006996g0030' => 'nta', 'Nitab4.5_0008971g0040' => 'nta', 'Nitab4.5_0009769g0020' => 'nta', 'Nitab4.5_0009833g0010' => 'nta', 'Nitab4.5_0013140g0020' => 'nta', 'Nn003s41376' => 'nnu', 'Nn1g01857' => 'nnu', 'Nn1g03611' => 'nnu', 'Nn1g06853' => 'nnu', 'Nn3g18360' => 'nnu', 'Nn4g26328' => 'nnu', 'Nn5g27531' => 'nnu', 'Nn6g34899' => 'nnu', 'Nn7g36299' => 'nnu', 'Oeu021485.1' => 'oeu', 'Oeu022433.1' => 'oeu', 'Oeu032111.1' => 'oeu', 'Oeu051608.1' => 'oeu', 'Os01g0860601' => 'osa', 'Os03g0659200' => 'osa', 'Os03g0835900' => 'osa', 'Os04g0412200' => 'osa', 'Os05g0443500' => 'osa', 'Os07g0251500' => 'osa', 'Os08g0104600' => 'osa', 'Peaxi162Scf00003g00047' => 'pax', 'Peaxi162Scf00003g00052' => 'pax', 'Peaxi162Scf00003g00394' => 'pax', 'Peaxi162Scf00091g00621' => 'pax', 'Peaxi162Scf00152g00146' => 'pax', 'Peaxi162Scf00173g00025' => 'pax', 'Peaxi162Scf00195g00102' => 'pax', 'Peaxi162Scf00402g00013' => 'pax', 'Peaxi162Scf00519g00618' => 'pax', 'PGR004G2838' => 'pgr', 'PGR044G2275' => 'pgr', 'PGR102G1377' => 'pgr', 'PGR119G1245' => 'pgr', 'PGR142G4449' => 'pgr', 'PGSC0003DMG400004532' => 'stu', 'PGSC0003DMG400011950' => 'stu', 'PGSC0003DMG400023391' => 'stu', 'PGSC0003DMG400023985' => 'stu', 'PGSC0003DMG400026360' => 'stu', 'PGSC0003DMG400035711' => 'stu', 'PGSC0003DMG400037286' => 'stu', 'PGSC0003DMG402005881' => 'stu', 'Phvul.002G045400' => 'pvu', 'Phvul.006G216600' => 'pvu', 'Phvul.006G216700' => 'pvu', 'Phvul.006G216800' => 'pvu', 'Phvul.007G022500' => 'pvu', 'Phvul.011G094400' => 'pvu', 'Potri.001G470700' => 'ptr', 'Potri.003G015200' => 'ptr', 'Potri.004G202500' => 'ptr', 'Potri.004G218400' => 'ptr', 'Potri.008G020100' => 'ptr', 'Potri.008G153200' => 'ptr', 'Potri.009G163800' => 'ptr', 'Potri.010G087300' => 'ptr', 'Potri.010G239100' => 'ptr', 'Pp3c10_16100' => 'ppa', 'Pp3c10_16880' => 'ppa', 'Pp3c16_6230' => 'ppa', 'Pp3c17_18910' => 'ppa', 'Pp3c3_22119' => 'ppa', 'Pp3c3_22140' => 'ppa', 'Pp3c4_8159' => 'ppa', 'Pp3c4_8171' => 'ppa', 'Pp3c4_8330' => 'ppa', 'PRCOL_00004098' => 'pco', 'Prupe.1G013900' => 'ppe', 'Prupe.1G226300' => 'ppe', 'Prupe.1G573600' => 'ppe', 'Prupe.6G130100' => 'ppe', 'Psat3g090040' => 'psa', 'Psat4g210440' => 'psa', 'Psat6g231040' => 'psa', 'Psat6g231080' => 'psa', 'Psat7g063000' => 'psa', 'Psat7g188000' => 'psa', 'Psat7g188040' => 'psa', 'PSO017G0206' => 'pso', 'PSO170G0501' => 'pso', 'PSO170G6422' => 'pso', 'PSO210G7739' => 'pso', 'PSO339G1808' => 'pso', 'PSO339G6135' => 'pso', 'PSO384G0010' => 'pso', 'PSO384G0964' => 'pso', 'PSO761G0050' => 'pso', 'PSO782G4085' => 'pso', 'QL01p012264' => 'qlo', 'QL02p099491' => 'qlo', 'QL03p033868' => 'qlo', 'QL04p046678' => 'qlo', 'QL06p002448' => 'qlo', 'RcHm_v2.0_Chr4g0416181' => 'rch', 'RcHm_v2.0_Chr5g0044701' => 'rch', 'RcHm_v2.0_Chr6g0265781' => 'rch', 'RcHm_v2.0_Chr7g0221031' => 'rch', 'Rhsim04G0202000' => 'rsi', 'Rhsim11G0127300' => 'rsi', 'Rhsim13G0111800' => 'rsi', 'Sabra01G0165600' => 'sbr', 'Sabra03G0008300' => 'sbr', 'Sabra04G0136900' => 'sbr', 'Sabra08G0013400' => 'sbr', 'Sabra08G0116800' => 'sbr', 'Sabra09G0128000' => 'sbr', 'Sabra10G0055500' => 'sbr', 'Sabra10G0073300' => 'sbr', 'SalBow3G0385' => 'sbo', 'SalBow3G1119' => 'sbo', 'SalBow3G2005' => 'sbo', 'SalBow6G2563' => 'sbo', 'SalBow6G6386' => 'sbo', 'Sc06g0008800' => 'sci', 'Sc07g0004950' => 'sci', 'Sc09g0005340' => 'sci', 'Sc13g0004410' => 'sci', 'Sc21g0007090' => 'sci', 'Sed0009285' => 'sed', 'Sed0017583' => 'sed', 'Sed0019699' => 'sed', 'Sed0023107' => 'sed', 'SEGI_10916' => 'sgi', 'SEGI_16217' => 'sgi', 'SEGI_19466' => 'sgi', 'SEGI_41115' => 'sgi', 'SGA_v2.0_scaffold111G31534' => 'sas', 'SGA_v2.0_scaffold22G09864' => 'sas', 'SGA_v2.0_scaffold338G49219' => 'sas', 'SGA_v2.0_scaffold92G28298' => 'sas', 'SMO119G0064' => 'smo', 'SMO223G0038' => 'smo', 'SMO347G0584' => 'smo', 'SMO351G0010' => 'smo', 'SMO356G0404' => 'smo', 'Solyc01g103920.3' => 'sly', 'Solyc04g009710.2' => 'sly', 'Solyc05g055280.2' => 'sly', 'Solyc10g044520.3' => 'sly', 'Solyc10g075160.1' => 'sly', 'Solyc11g006910.3' => 'sly', 'Solyc11g068430.3' => 'sly', 'Sopen01g046310' => 'spe', 'Sopen03g001200' => 'spe', 'Sopen04g004830' => 'spe', 'Sopen05g033720' => 'spe', 'Sopen06g030740' => 'spe', 'Sopen10g013090' => 'spe', 'Sopen10g027630' => 'spe', 'Sopen10g027640' => 'spe', 'Sopen11g002820' => 'spe', 'Sopen11g027140' => 'spe', 'Sp1g09680' => 'spa', 'Sp2g03630' => 'spa', 'Sp4g10320' => 'spa', 'Sp6g33400' => 'spa', 'Sp7g13030' => 'spa', 'TAR365G0317' => 'tar', 'TAR376G0979' => 'tar', 'TAR623G1665' => 'tar', 'TAR633G2373' => 'tar', 'TAR636G1400' => 'tar', 'THA.LOC104800529' => 'tha', 'THA.LOC104808547' => 'tha', 'THA.LOC104809615' => 'tha', 'THA.LOC104815724' => 'tha', 'THA.LOC104818480' => 'tha', 'THA.LOC104819179' => 'tha', 'THA.LOC104822270' => 'tha', 'THA.LOC104826425' => 'tha', 'Thecc.02G089700' => 'tca', 'Thecc.04G232300' => 'tca', 'Thecc.09G283400' => 'tca', 'Thhalv10009020m.g' => 'esa', 'Thhalv10015506m.g' => 'esa', 'Thhalv10017364m.g' => 'esa', 'Thhalv10023742m.g' => 'esa', 'Thhalv10026483m.g' => 'esa', 'TPR.G17232' => 'tpr', 'TPR.G2133' => 'tpr', 'TPR.G2498' => 'tpr', 'TPR.G31942' => 'tpr', 'TPR.G37877' => 'tpr', 'TPR.G4571' => 'tpr', 'TWI14G1113' => 'twi', 'TWI15G0426' => 'twi', 'TWI31G1005' => 'twi', 'TWI38G0513' => 'twi', 'TWI38G1484' => 'twi', 'TWI73G1098' => 'twi', 'unitig_26.g10519' => 'ugi', 'unitig_736.g22395' => 'ugi', 'unitig_747.g21234' => 'ugi', 'unitig_747.g21942' => 'ugi', 'vmacro14351' => 'vma', 'VMungo0540G0082' => 'vmu', 'VMungo0540G0405' => 'vmu', 'VMungo0540G1486' => 'vmu', 'VMungo0540G1692' => 'vmu', 'VMungo0720G2473' => 'vmu', 'VMungo1127G1562' => 'vmu', 'VMungo1215G1918' => 'vmu', 'Zm00001eb052650' => 'zma', 'Zm00001eb063710' => 'zma', 'Zm00001eb083950' => 'zma', 'Zm00001eb174420' => 'zma', 'Zm00001eb260140' => 'zma', 'Zm00001eb260150' => 'zma', 'Zm00001eb260160' => 'zma', 'Zm00001eb348290' => 'zma', 'Zm00001eb366870' => 'zma', 'Zm00001eb421930' => 'zma' ) $gf_id = 'HOM05D001025' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001025' ) $data_identifier = 'HOM05D001025' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 19, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 2, 'amhyb' => (int) 4, 'aly' => (int) 4, 'aox' => (int) 4, 'arhy' => (int) 3, 'ath' => (int) 5, 'atr' => (int) 4, 'acertr' => (int) 3, 'cqu' => (int) 7, 'bca' => (int) 17, 'bol' => (int) 10, 'bra' => (int) 9, 'can' => (int) 10, 'cansat' => (int) 6, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 5, 'cbr' => (int) 5, 'ccan' => (int) 5, 'cde' => (int) 4, 'cfa' => (int) 3, 'ccl' => (int) 6, 'cil' => (int) 4, 'cla' => (int) 3, 'col' => (int) 3, 'cpa' => (int) 3, 'cre' => (int) 7, 'csa' => (int) 5, 'camsi' => (int) 9, 'dca' => (int) 4, 'din' => (int) 5, 'dzi' => (int) 7, 'eca' => (int) 6, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 12, 'fve' => (int) 4, 'gma' => (int) 12, 'ghi' => (int) 17, 'gra' => (int) 9, 'vvi' => (int) 2, 'han' => (int) 8, 'cav' => (int) 5, 'hma' => (int) 9, 'vpl' => (int) 4, 'sun' => (int) 2, 'lal' => (int) 9, 'lja' => (int) 5, 'lonja' => (int) 6, 'lsa' => (int) 3, 'mes' => (int) 8, 'mpo' => (int) 3, 'mbi' => (int) 4, 'mco' => (int) 3, 'mdo' => (int) 5, 'mtr' => (int) 7, 'cme' => (int) 6, 'egut' => (int) 7, 'ama' => (int) 3, 'nta' => (int) 12, 'nnu' => (int) 9, 'oeu' => (int) 4, 'osa' => (int) 7, 'pax' => (int) 9, 'pgr' => (int) 5, 'stu' => (int) 8, 'pvu' => (int) 6, 'ptr' => (int) 9, 'ppa' => (int) 9, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 7, 'pso' => (int) 10, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 3, 'sbr' => (int) 8, 'sbo' => (int) 5, 'sci' => (int) 5, 'sed' => (int) 4, 'sgi' => (int) 4, 'sas' => (int) 4, 'smo' => (int) 5, 'sly' => (int) 7, 'spe' => (int) 10, 'spa' => (int) 5, 'tar' => (int) 5, 'tha' => (int) 8, 'tca' => (int) 3, 'esa' => (int) 5, 'tpr' => (int) 6, 'twi' => (int) 6, 'ugi' => (int) 4, 'vma' => (int) 1, 'vmu' => (int) 7, 'zma' => (int) 10 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb421930' $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' => 'HOM05D001025', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '592', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p22650' => 'bna', 'A01p29720' => 'bna', 'A03p26560' => 'bna', 'A03p68820' => 'bna', 'A04p20980' => 'bna', 'A06p07730' => 'bna', 'A07p18260' => 'bna', 'A08p33710' => 'bna', 'A09p16970' => 'bna', 'A10p27490' => 'bna', 'Aa31LG1G17300' => 'aar', 'Aa31LG1G3910' => 'aar', 'Aa31LG2G9630' => 'aar', 'Aa31LG5G8360' => 'aar', 'Aa31LG9G2410' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4699' => 'aag', 'Actinidia23512' => 'ach', 'Actinidia37080' => 'ach', 'Ah.01g020380' => 'amhyb', 'Ah.08g215710' => 'amhyb', 'Ah.09g225110' => 'amhyb', 'Ah.10g036680' => 'amhyb', 'AL1G21940' => 'aly', 'AL2G15540' => 'aly', 'AL4G21520' => 'aly', 'AL7G40960' => 'aly', 'Aqoxy2G01191' => 'aox', 'Aqoxy2G03393' => 'aox', 'Aqoxy4G02775' => 'aox', 'Aqoxy6G00058' => 'aox', 'arahy.Tifrunner.gnm1.ann1.9X74H2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CW3FX9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R485W7' => 'arhy', 'AT1G10960' => 'ath', 'AT1G60950' => 'ath', 'AT2G27510' => 'ath', 'AT4G14890' => 'ath', 'AT5G10000' => 'ath', 'ATR0665G624' => 'atr', 'ATR0697G138' => 'atr', 'ATR0776G046' => 'atr', 'ATR1134G135' => 'atr', 'Atru.chr12.1025' => 'acertr', 'Atru.chr3.3241' => 'acertr', 'Atru.chr4.2460' => 'acertr', 'AUR62007427' => 'cqu', 'AUR62010960' => 'cqu', 'AUR62012201' => 'cqu', 'AUR62021470' => 'cqu', 'AUR62022834' => 'cqu', 'AUR62033635' => 'cqu', 'AUR62036186' => 'cqu', 'BcaB01g03077' => 'bca', 'BcaB02g10093' => 'bca', 'BcaB04g20295' => 'bca', 'BcaB06g28147' => 'bca', 'BcaB07g31253' => 'bca', 'BcaC01g04946' => 'bca', 'BcaC02g10614' => 'bca', 'BcaC02g10885' => 'bca', 'BcaC04g19356' => 'bca', 'BcaC04g22297' => 'bca', 'BcaC05g24977' => 'bca', 'BcaC06g31823' => 'bca', 'BcaC07g38633' => 'bca', 'BcaC09g49353' => 'bca', 'BcaC09g50168' => 'bca', 'BcaNung00322' => 'bca', 'BcaNung04769' => 'bca', 'BolC1t02753H' => 'bol', 'BolC1t03721H' => 'bol', 'BolC3t15525H' => 'bol', 'BolC4t23903H' => 'bol', 'BolC4t24231H' => 'bol', 'BolC4t27209H' => 'bol', 'BolC5t29671H' => 'bol', 'BolC8t49044H' => 'bol', 'BolC9t54999H' => 'bol', 'BolC9t59517H' => 'bol', 'BraA01t02178Z' => 'bra', 'BraA01t03099Z' => 'bra', 'BraA03t11867Z' => 'bra', 'BraA04t17667Z' => 'bra', 'BraA07t29542Z' => 'bra', 'BraA08t35287Z' => 'bra', 'BraA09t37334Z' => 'bra', 'BraA10t44801Z' => 'bra', 'BraSC39t46181Z' => 'bra', 'C01p28240' => 'bna', 'C01p37530' => 'bna', 'C03p31820' => 'bna', 'C04p24080' => 'bna', 'C04p25790' => 'bna', 'C04p56770' => 'bna', 'C05p09310' => 'bna', 'C09p21010' => 'bna', 'C09p67560' => 'bna', 'CAN.G1324.7' => 'can', 'CAN.G1358.10' => 'can', 'CAN.G1550.2' => 'can', 'CAN.G186.56' => 'can', 'CAN.G1965.1' => 'can', 'CAN.G645.15' => 'can', 'CAN.G798.26' => 'can', 'CAN.G798.27' => 'can', 'CAN.G798.29' => 'can', 'CAN.G919.31' => 'can', 'CANSAT11G0133' => 'cansat', 'CANSAT11G1171' => 'cansat', 'CANSAT11G2056' => 'cansat', 'CANSAT56G1202' => 'cansat', 'CANSAT56G1514' => 'cansat', 'CANSAT78G0455' => 'cansat', 'CARHR011190' => 'chi', 'CARHR051980' => 'chi', 'CARHR120170' => 'chi', 'CARHR203310' => 'chi', 'CARHR221490' => 'chi', 'Carub.0001s1054' => 'cru', 'Carub.0002s0431' => 'cru', 'Carub.0004s0818' => 'cru', 'Carub.0006s0846' => 'cru', 'Carub.0007s2722' => 'cru', 'Ca_00058_v3' => 'car', 'Ca_17831_v3' => 'car', 'Ca_19408_v3' => 'car', 'Ca_24397_v3' => 'car', 'Ca_25664_v3' => 'car', 'CBR_g21818' => 'cbr', 'CBR_g31195' => 'cbr', 'CBR_g32282' => 'cbr', 'CBR_g39599' => 'cbr', 'CBR_g49410' => 'cbr', 'Cc01_g09120' => 'ccan', 'Cc01_g09130' => 'ccan', 'Cc02_g09630' => 'ccan', 'Cc02_g22810' => 'ccan', 'Cc03_g03810' => 'ccan', 'CDE02G3718' => 'cde', 'CDE04G3183' => 'cde', 'CDE07G1046' => 'cde', 'CDE08G0480' => 'cde', 'Cfa005493' => 'cfa', 'Cfa010312' => 'cfa', 'Cfa015648' => 'cfa', 'Ciclev10002793m.g' => 'ccl', 'Ciclev10003356m.g' => 'ccl', 'Ciclev10006141m.g' => 'ccl', 'Ciclev10016676m.g' => 'ccl', 'Ciclev10017081m.g' => 'ccl', 'Ciclev10029499m.g' => 'ccl', 'CiPaw.01G166300' => 'cil', 'CiPaw.06G145600' => 'cil', 'CiPaw.13G040100' => 'cil', 'CiPaw.13G135800' => 'cil', 'ClCG01G012230' => 'cla', 'ClCG05G009510' => 'cla', 'ClCG08G008270' => 'cla', 'COL.COLO4_11763' => 'col', 'COL.COLO4_19876' => 'col', 'COL.COLO4_21481' => 'col', 'Cpa.g.sc118.34' => 'cpa', 'Cpa.g.sc32.13' => 'cpa', 'Cpa.g.sc58.103' => 'cpa', 'Cre03.g183850' => 'cre', 'Cre06.g306350' => 'cre', 'Cre07.g334800' => 'cre', 'Cre12.g487900' => 'cre', 'Cre14.g626700' => 'cre', 'Cre16.g658400' => 'cre', 'Cre17.g700950' => 'cre', 'CsaV3_1G014830' => 'csa', 'CsaV3_3G013320' => 'csa', 'CsaV3_3G019210' => 'csa', 'CsaV3_3G019220' => 'csa', 'CsaV3_6G004230' => 'csa', 'CSS0003773' => 'camsi', 'CSS0004563' => 'camsi', 'CSS0013949' => 'camsi', 'CSS0025971' => 'camsi', 'CSS0028570' => 'camsi', 'CSS0033127' => 'camsi', 'CSS0036051' => 'camsi', 'CSS0040087' => 'camsi', 'CSS0043179' => 'camsi', 'DCAR_006161' => 'dca', 'DCAR_010351' => 'dca', 'DCAR_012197' => 'dca', 'DCAR_024162' => 'dca', 'Dinv01030' => 'din', 'Dinv10924' => 'din', 'Dinv11835' => 'din', 'Dinv22841' => 'din', 'Dinv42553' => 'din', 'Duzib052G0560' => 'dzi', 'Duzib132G0389' => 'dzi', 'Duzib150G1181' => 'dzi', 'Duzib168G0623' => 'dzi', 'Duzib170G1036' => 'dzi', 'Duzib212G0200' => 'dzi', 'Duzib248G0194' => 'dzi', 'ECA232G2193' => 'eca', 'ECA233G0302' => 'eca', 'ECA234G2813' => 'eca', 'ECA234G4866' => 'eca', 'ECA240G3932' => 'eca', 'ECA248G0385' => 'eca', 'EL10Ac2g04781' => 'bvu', 'EL10Ac3g06445' => 'bvu', 'EL10Ac7g15825' => 'bvu', 'EL10Ac8g18550' => 'bvu', 'Eucgr.B03849' => 'egr', 'Eucgr.I02744' => 'egr', 'Eucgr.J00264' => 'egr', 'Eucgr.J00493' => 'egr', 'FAN04G2181' => 'fan', 'FAN07G2666' => 'fan', 'FAN11G0024' => 'fan', 'FAN12G1105' => 'fan', 'FAN13G0302' => 'fan', 'FAN15G2781' => 'fan', 'FAN16G1274' => 'fan', 'FAN17G2988' => 'fan', 'FAN18G2621' => 'fan', 'FAN21G0013' => 'fan', 'FAN22G1211' => 'fan', 'FAN25G3626' => 'fan', 'FvH4_2g09491' => 'fve', 'FvH4_3g24910' => 'fve', 'FvH4_4g15630' => 'fve', 'FvH4_5g28820' => 'fve', 'Glyma.01G238000' => 'gma', 'Glyma.05G168400' => 'gma', 'Glyma.08G126800' => 'gma', 'Glyma.08G188500' => 'gma', 'Glyma.10G278900' => 'gma', 'Glyma.11G005700' => 'gma', 'Glyma.11G183300' => 'gma', 'Glyma.12G089200' => 'gma', 'Glyma.12G169400' => 'gma', 'Glyma.12G169500' => 'gma', 'Glyma.12G169600' => 'gma', 'Glyma.20G110800' => 'gma', 'Gohir.A03G192900' => 'ghi', 'Gohir.A03G193000' => 'ghi', 'Gohir.A05G080700' => 'ghi', 'Gohir.A09G216000' => 'ghi', 'Gohir.A12G027700' => 'ghi', 'Gohir.A13G036200' => 'ghi', 'Gohir.A13G222600' => 'ghi', 'Gohir.D02G213900' => 'ghi', 'Gohir.D02G214000' => 'ghi', 'Gohir.D05G083700' => 'ghi', 'Gohir.D05G083800' => 'ghi', 'Gohir.D05G083850' => 'ghi', 'Gohir.D08G015400' => 'ghi', 'Gohir.D09G218400' => 'ghi', 'Gohir.D12G027100' => 'ghi', 'Gohir.D13G034500' => 'ghi', 'Gohir.D13G227400' => 'ghi', 'Gorai.005G241800' => 'gra', 'Gorai.005G241900' => 'gra', 'Gorai.006G239400' => 'gra', 'Gorai.008G027600' => 'gra', 'Gorai.009G085400' => 'gra', 'Gorai.009G085500' => 'gra', 'Gorai.013G039000' => 'gra', 'Gorai.013G194800' => 'gra', 'Gorai.013G257900' => 'gra', 'GSVIVG01000982001' => 'vvi', 'GSVIVG01017981001' => 'vvi', 'HanXRQChr01g0024061' => 'han', 'HanXRQChr09g0247831' => 'han', 'HanXRQChr10g0294611' => 'han', 'HanXRQChr10g0294621' => 'han', 'HanXRQChr11g0346821' => 'han', 'HanXRQChr13g0397461' => 'han', 'HanXRQChr16g0513651' => 'han', 'HanXRQChr16g0513701' => 'han', 'Haze_00897' => 'cav', 'Haze_01745' => 'cav', 'Haze_02486' => 'cav', 'Haze_02487' => 'cav', 'Haze_23374' => 'cav', 'Hma1.2p1_0578F.1_g182520' => 'hma', 'Hma1.2p1_0602F.1_g187350' => 'hma', 'Hma1.2p1_0602F.1_g187360' => 'hma', 'Hma1.2p1_0874F.1_g231320' => 'hma', 'Hma1.2p1_1197F.1_g266210' => 'hma', 'Hma1.2p1_1197F.1_g266220' => 'hma', 'Hma1.2p1_2167F.1_g315895' => 'hma', 'Hma1.2p1_2190F.1_g316640' => 'hma', 'Hma1.2p1_3645F.1_g337153' => 'hma', 'HPP92_004907' => 'vpl', 'HPP92_012134' => 'vpl', 'HPP92_025136' => 'vpl', 'HPP92_026087' => 'vpl', 'Hund06782' => 'sun', 'Hund06784' => 'sun', 'Lalb_Chr01g0004861' => 'lal', 'Lalb_Chr02g0140591' => 'lal', 'Lalb_Chr02g0140611' => 'lal', 'Lalb_Chr03g0028101' => 'lal', 'Lalb_Chr07g0185791' => 'lal', 'Lalb_Chr12g0204491' => 'lal', 'Lalb_Chr13g0295671' => 'lal', 'Lalb_Chr19g0136461' => 'lal', 'Lalb_Chr21g0309191' => 'lal', 'Lj1g0028158' => 'lja', 'Lj1P236T38' => 'lonja', 'Lj2C32G2' => 'lonja', 'Lj2P944T8' => 'lonja', 'Lj2P963T15' => 'lonja', 'Lj3g0011788' => 'lja', 'Lj4g0025027' => 'lja', 'Lj5P255T36' => 'lonja', 'Lj6g0018866' => 'lja', 'Lj6P608T31' => 'lonja', 'LjContig00408g0008879' => 'lja', 'Lsat_1_v5_gn_5_105820' => 'lsa', 'Lsat_1_v5_gn_6_38800' => 'lsa', 'Lsat_1_v5_gn_7_67141' => 'lsa', 'Manes.04G003400' => 'mes', 'Manes.07G020000' => 'mes', 'Manes.07G020100' => 'mes', 'Manes.07G020150' => 'mes', 'Manes.10G061500' => 'mes', 'Manes.10G123200' => 'mes', 'Manes.11G161900' => 'mes', 'Manes.15G029300' => 'mes', 'Mapoly0071s0018' => 'mpo', 'Mapoly0082s0023' => 'mpo', 'Mapoly3477s0001' => 'mpo', 'MBI05_g31233_MAGBIO' => 'mbi', 'MBI09_g05946_MAGBIO' => 'mbi', 'MBI09_g05947_MAGBIO' => 'mbi', 'MBI17_g08346_MAGBIO' => 'mbi', 'MCO04G038' => 'mco', 'MCO09G370' => 'mco', 'MCO13G605' => 'mco', 'MD00G1075500' => 'mdo', 'MD03G1144300' => 'mdo', 'MD08G1236800' => 'mdo', 'MD13G1193300' => 'mdo', 'MD15G1428700' => 'mdo', 'Medtr1g112030' => 'mtr', 'Medtr1g112050' => 'mtr', 'Medtr2g006290' => 'mtr', 'Medtr2g086510' => 'mtr', 'Medtr4g053120' => 'mtr', 'Medtr5g006320' => 'mtr', 'Medtr8g088720' => 'mtr', 'MELO3C004712.2' => 'cme', 'MELO3C006533.2' => 'cme', 'MELO3C019438.2' => 'cme', 'MELO3C019440.2' => 'cme', 'MELO3C019441.2' => 'cme', 'MELO3C019895.2' => 'cme', 'Migut.B00811' => 'egut', 'Migut.D02447' => 'egut', 'Migut.F00875' => 'egut', 'Migut.N00186' => 'egut', 'Migut.N01051' => 'egut', 'Migut.N02491' => 'egut', 'Migut.O00784' => 'egut', 'MSTRG.12367' => 'ama', 'MSTRG.18756' => 'ama', 'MSTRG.21042' => 'ama', 'Nitab4.5_0000559g0040' => 'nta', 'Nitab4.5_0000667g0190' => 'nta', 'Nitab4.5_0000755g0160' => 'nta', 'Nitab4.5_0001216g0080' => 'nta', 'Nitab4.5_0004069g0040' => 'nta', 'Nitab4.5_0004129g0010' => 'nta', 'Nitab4.5_0005744g0030' => 'nta', 'Nitab4.5_0006996g0030' => 'nta', 'Nitab4.5_0008971g0040' => 'nta', 'Nitab4.5_0009769g0020' => 'nta', 'Nitab4.5_0009833g0010' => 'nta', 'Nitab4.5_0013140g0020' => 'nta', 'Nn003s41376' => 'nnu', 'Nn1g01857' => 'nnu', 'Nn1g03611' => 'nnu', 'Nn1g06853' => 'nnu', 'Nn3g18360' => 'nnu', 'Nn4g26328' => 'nnu', 'Nn5g27531' => 'nnu', 'Nn6g34899' => 'nnu', 'Nn7g36299' => 'nnu', 'Oeu021485.1' => 'oeu', 'Oeu022433.1' => 'oeu', 'Oeu032111.1' => 'oeu', 'Oeu051608.1' => 'oeu', 'Os01g0860601' => 'osa', 'Os03g0659200' => 'osa', 'Os03g0835900' => 'osa', 'Os04g0412200' => 'osa', 'Os05g0443500' => 'osa', 'Os07g0251500' => 'osa', 'Os08g0104600' => 'osa', 'Peaxi162Scf00003g00047' => 'pax', 'Peaxi162Scf00003g00052' => 'pax', 'Peaxi162Scf00003g00394' => 'pax', 'Peaxi162Scf00091g00621' => 'pax', 'Peaxi162Scf00152g00146' => 'pax', 'Peaxi162Scf00173g00025' => 'pax', 'Peaxi162Scf00195g00102' => 'pax', 'Peaxi162Scf00402g00013' => 'pax', 'Peaxi162Scf00519g00618' => 'pax', 'PGR004G2838' => 'pgr', 'PGR044G2275' => 'pgr', 'PGR102G1377' => 'pgr', 'PGR119G1245' => 'pgr', 'PGR142G4449' => 'pgr', 'PGSC0003DMG400004532' => 'stu', 'PGSC0003DMG400011950' => 'stu', 'PGSC0003DMG400023391' => 'stu', 'PGSC0003DMG400023985' => 'stu', 'PGSC0003DMG400026360' => 'stu', 'PGSC0003DMG400035711' => 'stu', 'PGSC0003DMG400037286' => 'stu', 'PGSC0003DMG402005881' => 'stu', 'Phvul.002G045400' => 'pvu', 'Phvul.006G216600' => 'pvu', 'Phvul.006G216700' => 'pvu', 'Phvul.006G216800' => 'pvu', 'Phvul.007G022500' => 'pvu', 'Phvul.011G094400' => 'pvu', 'Potri.001G470700' => 'ptr', 'Potri.003G015200' => 'ptr', 'Potri.004G202500' => 'ptr', 'Potri.004G218400' => 'ptr', 'Potri.008G020100' => 'ptr', 'Potri.008G153200' => 'ptr', 'Potri.009G163800' => 'ptr', 'Potri.010G087300' => 'ptr', 'Potri.010G239100' => 'ptr', 'Pp3c10_16100' => 'ppa', 'Pp3c10_16880' => 'ppa', 'Pp3c16_6230' => 'ppa', 'Pp3c17_18910' => 'ppa', 'Pp3c3_22119' => 'ppa', 'Pp3c3_22140' => 'ppa', 'Pp3c4_8159' => 'ppa', 'Pp3c4_8171' => 'ppa', 'Pp3c4_8330' => 'ppa', 'PRCOL_00004098' => 'pco', 'Prupe.1G013900' => 'ppe', 'Prupe.1G226300' => 'ppe', 'Prupe.1G573600' => 'ppe', 'Prupe.6G130100' => 'ppe', 'Psat3g090040' => 'psa', 'Psat4g210440' => 'psa', 'Psat6g231040' => 'psa', 'Psat6g231080' => 'psa', 'Psat7g063000' => 'psa', 'Psat7g188000' => 'psa', 'Psat7g188040' => 'psa', 'PSO017G0206' => 'pso', 'PSO170G0501' => 'pso', 'PSO170G6422' => 'pso', 'PSO210G7739' => 'pso', 'PSO339G1808' => 'pso', 'PSO339G6135' => 'pso', 'PSO384G0010' => 'pso', 'PSO384G0964' => 'pso', 'PSO761G0050' => 'pso', 'PSO782G4085' => 'pso', 'QL01p012264' => 'qlo', 'QL02p099491' => 'qlo', 'QL03p033868' => 'qlo', 'QL04p046678' => 'qlo', 'QL06p002448' => 'qlo', 'RcHm_v2.0_Chr4g0416181' => 'rch', 'RcHm_v2.0_Chr5g0044701' => 'rch', 'RcHm_v2.0_Chr6g0265781' => 'rch', 'RcHm_v2.0_Chr7g0221031' => 'rch', 'Rhsim04G0202000' => 'rsi', 'Rhsim11G0127300' => 'rsi', 'Rhsim13G0111800' => 'rsi', 'Sabra01G0165600' => 'sbr', 'Sabra03G0008300' => 'sbr', 'Sabra04G0136900' => 'sbr', 'Sabra08G0013400' => 'sbr', 'Sabra08G0116800' => 'sbr', 'Sabra09G0128000' => 'sbr', 'Sabra10G0055500' => 'sbr', 'Sabra10G0073300' => 'sbr', 'SalBow3G0385' => 'sbo', 'SalBow3G1119' => 'sbo', 'SalBow3G2005' => 'sbo', 'SalBow6G2563' => 'sbo', 'SalBow6G6386' => 'sbo', 'Sc06g0008800' => 'sci', 'Sc07g0004950' => 'sci', 'Sc09g0005340' => 'sci', 'Sc13g0004410' => 'sci', 'Sc21g0007090' => 'sci', 'Sed0009285' => 'sed', 'Sed0017583' => 'sed', 'Sed0019699' => 'sed', 'Sed0023107' => 'sed', 'SEGI_10916' => 'sgi', 'SEGI_16217' => 'sgi', 'SEGI_19466' => 'sgi', 'SEGI_41115' => 'sgi', 'SGA_v2.0_scaffold111G31534' => 'sas', 'SGA_v2.0_scaffold22G09864' => 'sas', 'SGA_v2.0_scaffold338G49219' => 'sas', 'SGA_v2.0_scaffold92G28298' => 'sas', 'SMO119G0064' => 'smo', 'SMO223G0038' => 'smo', 'SMO347G0584' => 'smo', 'SMO351G0010' => 'smo', 'SMO356G0404' => 'smo', 'Solyc01g103920.3' => 'sly', 'Solyc04g009710.2' => 'sly', 'Solyc05g055280.2' => 'sly', 'Solyc10g044520.3' => 'sly', 'Solyc10g075160.1' => 'sly', 'Solyc11g006910.3' => 'sly', 'Solyc11g068430.3' => 'sly', 'Sopen01g046310' => 'spe', 'Sopen03g001200' => 'spe', 'Sopen04g004830' => 'spe', 'Sopen05g033720' => 'spe', 'Sopen06g030740' => 'spe', 'Sopen10g013090' => 'spe', 'Sopen10g027630' => 'spe', 'Sopen10g027640' => 'spe', 'Sopen11g002820' => 'spe', 'Sopen11g027140' => 'spe', 'Sp1g09680' => 'spa', 'Sp2g03630' => 'spa', 'Sp4g10320' => 'spa', 'Sp6g33400' => 'spa', 'Sp7g13030' => 'spa', 'TAR365G0317' => 'tar', 'TAR376G0979' => 'tar', 'TAR623G1665' => 'tar', 'TAR633G2373' => 'tar', 'TAR636G1400' => 'tar', 'THA.LOC104800529' => 'tha', 'THA.LOC104808547' => 'tha', 'THA.LOC104809615' => 'tha', 'THA.LOC104815724' => 'tha', 'THA.LOC104818480' => 'tha', 'THA.LOC104819179' => 'tha', 'THA.LOC104822270' => 'tha', 'THA.LOC104826425' => 'tha', 'Thecc.02G089700' => 'tca', 'Thecc.04G232300' => 'tca', 'Thecc.09G283400' => 'tca', 'Thhalv10009020m.g' => 'esa', 'Thhalv10015506m.g' => 'esa', 'Thhalv10017364m.g' => 'esa', 'Thhalv10023742m.g' => 'esa', 'Thhalv10026483m.g' => 'esa', 'TPR.G17232' => 'tpr', 'TPR.G2133' => 'tpr', 'TPR.G2498' => 'tpr', 'TPR.G31942' => 'tpr', 'TPR.G37877' => 'tpr', 'TPR.G4571' => 'tpr', 'TWI14G1113' => 'twi', 'TWI15G0426' => 'twi', 'TWI31G1005' => 'twi', 'TWI38G0513' => 'twi', 'TWI38G1484' => 'twi', 'TWI73G1098' => 'twi', 'unitig_26.g10519' => 'ugi', 'unitig_736.g22395' => 'ugi', 'unitig_747.g21234' => 'ugi', 'unitig_747.g21942' => 'ugi', 'vmacro14351' => 'vma', 'VMungo0540G0082' => 'vmu', 'VMungo0540G0405' => 'vmu', 'VMungo0540G1486' => 'vmu', 'VMungo0540G1692' => 'vmu', 'VMungo0720G2473' => 'vmu', 'VMungo1127G1562' => 'vmu', 'VMungo1215G1918' => 'vmu', 'Zm00001eb052650' => 'zma', 'Zm00001eb063710' => 'zma', 'Zm00001eb083950' => 'zma', 'Zm00001eb174420' => 'zma', 'Zm00001eb260140' => 'zma', 'Zm00001eb260150' => 'zma', 'Zm00001eb260160' => 'zma', 'Zm00001eb348290' => 'zma', 'Zm00001eb366870' => 'zma', 'Zm00001eb421930' => 'zma' ), 'gf_id' => 'HOM05D001025', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001025' ), 'data_identifier' => 'HOM05D001025', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001025', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '592', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p22650' => 'bna', 'A01p29720' => 'bna', 'A03p26560' => 'bna', 'A03p68820' => 'bna', 'A04p20980' => 'bna', 'A06p07730' => 'bna', 'A07p18260' => 'bna', 'A08p33710' => 'bna', 'A09p16970' => 'bna', 'A10p27490' => 'bna', 'Aa31LG1G17300' => 'aar', 'Aa31LG1G3910' => 'aar', 'Aa31LG2G9630' => 'aar', 'Aa31LG5G8360' => 'aar', 'Aa31LG9G2410' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4699' => 'aag', 'Actinidia23512' => 'ach', 'Actinidia37080' => 'ach', 'Ah.01g020380' => 'amhyb', 'Ah.08g215710' => 'amhyb', 'Ah.09g225110' => 'amhyb', 'Ah.10g036680' => 'amhyb', 'AL1G21940' => 'aly', 'AL2G15540' => 'aly', 'AL4G21520' => 'aly', 'AL7G40960' => 'aly', 'Aqoxy2G01191' => 'aox', 'Aqoxy2G03393' => 'aox', 'Aqoxy4G02775' => 'aox', 'Aqoxy6G00058' => 'aox', 'arahy.Tifrunner.gnm1.ann1.9X74H2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CW3FX9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R485W7' => 'arhy', 'AT1G10960' => 'ath', 'AT1G60950' => 'ath', 'AT2G27510' => 'ath', 'AT4G14890' => 'ath', 'AT5G10000' => 'ath', 'ATR0665G624' => 'atr', 'ATR0697G138' => 'atr', 'ATR0776G046' => 'atr', 'ATR1134G135' => 'atr', 'Atru.chr12.1025' => 'acertr', 'Atru.chr3.3241' => 'acertr', 'Atru.chr4.2460' => 'acertr', 'AUR62007427' => 'cqu', 'AUR62010960' => 'cqu', 'AUR62012201' => 'cqu', 'AUR62021470' => 'cqu', 'AUR62022834' => 'cqu', 'AUR62033635' => 'cqu', 'AUR62036186' => 'cqu', 'BcaB01g03077' => 'bca', 'BcaB02g10093' => 'bca', 'BcaB04g20295' => 'bca', 'BcaB06g28147' => 'bca', 'BcaB07g31253' => 'bca', 'BcaC01g04946' => 'bca', 'BcaC02g10614' => 'bca', 'BcaC02g10885' => 'bca', 'BcaC04g19356' => 'bca', 'BcaC04g22297' => 'bca', 'BcaC05g24977' => 'bca', 'BcaC06g31823' => 'bca', 'BcaC07g38633' => 'bca', 'BcaC09g49353' => 'bca', 'BcaC09g50168' => 'bca', 'BcaNung00322' => 'bca', 'BcaNung04769' => 'bca', 'BolC1t02753H' => 'bol', 'BolC1t03721H' => 'bol', 'BolC3t15525H' => 'bol', 'BolC4t23903H' => 'bol', 'BolC4t24231H' => 'bol', 'BolC4t27209H' => 'bol', 'BolC5t29671H' => 'bol', 'BolC8t49044H' => 'bol', 'BolC9t54999H' => 'bol', 'BolC9t59517H' => 'bol', 'BraA01t02178Z' => 'bra', 'BraA01t03099Z' => 'bra', 'BraA03t11867Z' => 'bra', 'BraA04t17667Z' => 'bra', 'BraA07t29542Z' => 'bra', 'BraA08t35287Z' => 'bra', 'BraA09t37334Z' => 'bra', 'BraA10t44801Z' => 'bra', 'BraSC39t46181Z' => 'bra', 'C01p28240' => 'bna', 'C01p37530' => 'bna', 'C03p31820' => 'bna', 'C04p24080' => 'bna', 'C04p25790' => 'bna', 'C04p56770' => 'bna', 'C05p09310' => 'bna', 'C09p21010' => 'bna', 'C09p67560' => 'bna', 'CAN.G1324.7' => 'can', 'CAN.G1358.10' => 'can', 'CAN.G1550.2' => 'can', 'CAN.G186.56' => 'can', 'CAN.G1965.1' => 'can', 'CAN.G645.15' => 'can', 'CAN.G798.26' => 'can', 'CAN.G798.27' => 'can', 'CAN.G798.29' => 'can', 'CAN.G919.31' => 'can', 'CANSAT11G0133' => 'cansat', 'CANSAT11G1171' => 'cansat', 'CANSAT11G2056' => 'cansat', 'CANSAT56G1202' => 'cansat', 'CANSAT56G1514' => 'cansat', 'CANSAT78G0455' => 'cansat', 'CARHR011190' => 'chi', 'CARHR051980' => 'chi', 'CARHR120170' => 'chi', 'CARHR203310' => 'chi', 'CARHR221490' => 'chi', 'Carub.0001s1054' => 'cru', 'Carub.0002s0431' => 'cru', 'Carub.0004s0818' => 'cru', 'Carub.0006s0846' => 'cru', 'Carub.0007s2722' => 'cru', 'Ca_00058_v3' => 'car', 'Ca_17831_v3' => 'car', 'Ca_19408_v3' => 'car', 'Ca_24397_v3' => 'car', 'Ca_25664_v3' => 'car', 'CBR_g21818' => 'cbr', 'CBR_g31195' => 'cbr', 'CBR_g32282' => 'cbr', 'CBR_g39599' => 'cbr', 'CBR_g49410' => 'cbr', 'Cc01_g09120' => 'ccan', 'Cc01_g09130' => 'ccan', 'Cc02_g09630' => 'ccan', 'Cc02_g22810' => 'ccan', 'Cc03_g03810' => 'ccan', 'CDE02G3718' => 'cde', 'CDE04G3183' => 'cde', 'CDE07G1046' => 'cde', 'CDE08G0480' => 'cde', 'Cfa005493' => 'cfa', 'Cfa010312' => 'cfa', 'Cfa015648' => 'cfa', 'Ciclev10002793m.g' => 'ccl', 'Ciclev10003356m.g' => 'ccl', 'Ciclev10006141m.g' => 'ccl', 'Ciclev10016676m.g' => 'ccl', 'Ciclev10017081m.g' => 'ccl', 'Ciclev10029499m.g' => 'ccl', 'CiPaw.01G166300' => 'cil', 'CiPaw.06G145600' => 'cil', 'CiPaw.13G040100' => 'cil', 'CiPaw.13G135800' => 'cil', 'ClCG01G012230' => 'cla', 'ClCG05G009510' => 'cla', 'ClCG08G008270' => 'cla', 'COL.COLO4_11763' => 'col', 'COL.COLO4_19876' => 'col', 'COL.COLO4_21481' => 'col', 'Cpa.g.sc118.34' => 'cpa', 'Cpa.g.sc32.13' => 'cpa', 'Cpa.g.sc58.103' => 'cpa', 'Cre03.g183850' => 'cre', 'Cre06.g306350' => 'cre', 'Cre07.g334800' => 'cre', 'Cre12.g487900' => 'cre', 'Cre14.g626700' => 'cre', 'Cre16.g658400' => 'cre', 'Cre17.g700950' => 'cre', 'CsaV3_1G014830' => 'csa', 'CsaV3_3G013320' => 'csa', 'CsaV3_3G019210' => 'csa', 'CsaV3_3G019220' => 'csa', 'CsaV3_6G004230' => 'csa', 'CSS0003773' => 'camsi', 'CSS0004563' => 'camsi', 'CSS0013949' => 'camsi', 'CSS0025971' => 'camsi', 'CSS0028570' => 'camsi', 'CSS0033127' => 'camsi', 'CSS0036051' => 'camsi', 'CSS0040087' => 'camsi', 'CSS0043179' => 'camsi', 'DCAR_006161' => 'dca', 'DCAR_010351' => 'dca', 'DCAR_012197' => 'dca', 'DCAR_024162' => 'dca', 'Dinv01030' => 'din', 'Dinv10924' => 'din', 'Dinv11835' => 'din', 'Dinv22841' => 'din', 'Dinv42553' => 'din', 'Duzib052G0560' => 'dzi', 'Duzib132G0389' => 'dzi', 'Duzib150G1181' => 'dzi', 'Duzib168G0623' => 'dzi', 'Duzib170G1036' => 'dzi', 'Duzib212G0200' => 'dzi', 'Duzib248G0194' => 'dzi', 'ECA232G2193' => 'eca', 'ECA233G0302' => 'eca', 'ECA234G2813' => 'eca', 'ECA234G4866' => 'eca', 'ECA240G3932' => 'eca', 'ECA248G0385' => 'eca', 'EL10Ac2g04781' => 'bvu', 'EL10Ac3g06445' => 'bvu', 'EL10Ac7g15825' => 'bvu', 'EL10Ac8g18550' => 'bvu', 'Eucgr.B03849' => 'egr', 'Eucgr.I02744' => 'egr', 'Eucgr.J00264' => 'egr', 'Eucgr.J00493' => 'egr', 'FAN04G2181' => 'fan', 'FAN07G2666' => 'fan', 'FAN11G0024' => 'fan', 'FAN12G1105' => 'fan', 'FAN13G0302' => 'fan', 'FAN15G2781' => 'fan', 'FAN16G1274' => 'fan', 'FAN17G2988' => 'fan', 'FAN18G2621' => 'fan', 'FAN21G0013' => 'fan', 'FAN22G1211' => 'fan', 'FAN25G3626' => 'fan', 'FvH4_2g09491' => 'fve', 'FvH4_3g24910' => 'fve', 'FvH4_4g15630' => 'fve', 'FvH4_5g28820' => 'fve', 'Glyma.01G238000' => 'gma', 'Glyma.05G168400' => 'gma', 'Glyma.08G126800' => 'gma', 'Glyma.08G188500' => 'gma', 'Glyma.10G278900' => 'gma', 'Glyma.11G005700' => 'gma', 'Glyma.11G183300' => 'gma', 'Glyma.12G089200' => 'gma', 'Glyma.12G169400' => 'gma', 'Glyma.12G169500' => 'gma', 'Glyma.12G169600' => 'gma', 'Glyma.20G110800' => 'gma', 'Gohir.A03G192900' => 'ghi', 'Gohir.A03G193000' => 'ghi', 'Gohir.A05G080700' => 'ghi', 'Gohir.A09G216000' => 'ghi', 'Gohir.A12G027700' => 'ghi', 'Gohir.A13G036200' => 'ghi', 'Gohir.A13G222600' => 'ghi', 'Gohir.D02G213900' => 'ghi', 'Gohir.D02G214000' => 'ghi', 'Gohir.D05G083700' => 'ghi', 'Gohir.D05G083800' => 'ghi', 'Gohir.D05G083850' => 'ghi', 'Gohir.D08G015400' => 'ghi', 'Gohir.D09G218400' => 'ghi', 'Gohir.D12G027100' => 'ghi', 'Gohir.D13G034500' => 'ghi', 'Gohir.D13G227400' => 'ghi', 'Gorai.005G241800' => 'gra', 'Gorai.005G241900' => 'gra', 'Gorai.006G239400' => 'gra', 'Gorai.008G027600' => 'gra', 'Gorai.009G085400' => 'gra', 'Gorai.009G085500' => 'gra', 'Gorai.013G039000' => 'gra', 'Gorai.013G194800' => 'gra', 'Gorai.013G257900' => 'gra', 'GSVIVG01000982001' => 'vvi', 'GSVIVG01017981001' => 'vvi', 'HanXRQChr01g0024061' => 'han', 'HanXRQChr09g0247831' => 'han', 'HanXRQChr10g0294611' => 'han', 'HanXRQChr10g0294621' => 'han', 'HanXRQChr11g0346821' => 'han', 'HanXRQChr13g0397461' => 'han', 'HanXRQChr16g0513651' => 'han', 'HanXRQChr16g0513701' => 'han', 'Haze_00897' => 'cav', 'Haze_01745' => 'cav', 'Haze_02486' => 'cav', 'Haze_02487' => 'cav', 'Haze_23374' => 'cav', 'Hma1.2p1_0578F.1_g182520' => 'hma', 'Hma1.2p1_0602F.1_g187350' => 'hma', 'Hma1.2p1_0602F.1_g187360' => 'hma', 'Hma1.2p1_0874F.1_g231320' => 'hma', 'Hma1.2p1_1197F.1_g266210' => 'hma', 'Hma1.2p1_1197F.1_g266220' => 'hma', 'Hma1.2p1_2167F.1_g315895' => 'hma', 'Hma1.2p1_2190F.1_g316640' => 'hma', 'Hma1.2p1_3645F.1_g337153' => 'hma', 'HPP92_004907' => 'vpl', 'HPP92_012134' => 'vpl', 'HPP92_025136' => 'vpl', 'HPP92_026087' => 'vpl', 'Hund06782' => 'sun', 'Hund06784' => 'sun', 'Lalb_Chr01g0004861' => 'lal', 'Lalb_Chr02g0140591' => 'lal', 'Lalb_Chr02g0140611' => 'lal', 'Lalb_Chr03g0028101' => 'lal', 'Lalb_Chr07g0185791' => 'lal', 'Lalb_Chr12g0204491' => 'lal', 'Lalb_Chr13g0295671' => 'lal', 'Lalb_Chr19g0136461' => 'lal', 'Lalb_Chr21g0309191' => 'lal', 'Lj1g0028158' => 'lja', 'Lj1P236T38' => 'lonja', 'Lj2C32G2' => 'lonja', 'Lj2P944T8' => 'lonja', 'Lj2P963T15' => 'lonja', 'Lj3g0011788' => 'lja', 'Lj4g0025027' => 'lja', 'Lj5P255T36' => 'lonja', 'Lj6g0018866' => 'lja', 'Lj6P608T31' => 'lonja', 'LjContig00408g0008879' => 'lja', 'Lsat_1_v5_gn_5_105820' => 'lsa', 'Lsat_1_v5_gn_6_38800' => 'lsa', 'Lsat_1_v5_gn_7_67141' => 'lsa', 'Manes.04G003400' => 'mes', 'Manes.07G020000' => 'mes', 'Manes.07G020100' => 'mes', 'Manes.07G020150' => 'mes', 'Manes.10G061500' => 'mes', 'Manes.10G123200' => 'mes', 'Manes.11G161900' => 'mes', 'Manes.15G029300' => 'mes', 'Mapoly0071s0018' => 'mpo', 'Mapoly0082s0023' => 'mpo', 'Mapoly3477s0001' => 'mpo', 'MBI05_g31233_MAGBIO' => 'mbi', 'MBI09_g05946_MAGBIO' => 'mbi', 'MBI09_g05947_MAGBIO' => 'mbi', 'MBI17_g08346_MAGBIO' => 'mbi', 'MCO04G038' => 'mco', 'MCO09G370' => 'mco', 'MCO13G605' => 'mco', 'MD00G1075500' => 'mdo', 'MD03G1144300' => 'mdo', 'MD08G1236800' => 'mdo', 'MD13G1193300' => 'mdo', 'MD15G1428700' => 'mdo', 'Medtr1g112030' => 'mtr', 'Medtr1g112050' => 'mtr', 'Medtr2g006290' => 'mtr', 'Medtr2g086510' => 'mtr', 'Medtr4g053120' => 'mtr', 'Medtr5g006320' => 'mtr', 'Medtr8g088720' => 'mtr', 'MELO3C004712.2' => 'cme', 'MELO3C006533.2' => 'cme', 'MELO3C019438.2' => 'cme', 'MELO3C019440.2' => 'cme', 'MELO3C019441.2' => 'cme', 'MELO3C019895.2' => 'cme', 'Migut.B00811' => 'egut', 'Migut.D02447' => 'egut', 'Migut.F00875' => 'egut', 'Migut.N00186' => 'egut', 'Migut.N01051' => 'egut', 'Migut.N02491' => 'egut', 'Migut.O00784' => 'egut', 'MSTRG.12367' => 'ama', 'MSTRG.18756' => 'ama', 'MSTRG.21042' => 'ama', 'Nitab4.5_0000559g0040' => 'nta', 'Nitab4.5_0000667g0190' => 'nta', 'Nitab4.5_0000755g0160' => 'nta', 'Nitab4.5_0001216g0080' => 'nta', 'Nitab4.5_0004069g0040' => 'nta', 'Nitab4.5_0004129g0010' => 'nta', 'Nitab4.5_0005744g0030' => 'nta', 'Nitab4.5_0006996g0030' => 'nta', 'Nitab4.5_0008971g0040' => 'nta', 'Nitab4.5_0009769g0020' => 'nta', 'Nitab4.5_0009833g0010' => 'nta', 'Nitab4.5_0013140g0020' => 'nta', 'Nn003s41376' => 'nnu', 'Nn1g01857' => 'nnu', 'Nn1g03611' => 'nnu', 'Nn1g06853' => 'nnu', 'Nn3g18360' => 'nnu', 'Nn4g26328' => 'nnu', 'Nn5g27531' => 'nnu', 'Nn6g34899' => 'nnu', 'Nn7g36299' => 'nnu', 'Oeu021485.1' => 'oeu', 'Oeu022433.1' => 'oeu', 'Oeu032111.1' => 'oeu', 'Oeu051608.1' => 'oeu', 'Os01g0860601' => 'osa', 'Os03g0659200' => 'osa', 'Os03g0835900' => 'osa', 'Os04g0412200' => 'osa', 'Os05g0443500' => 'osa', 'Os07g0251500' => 'osa', 'Os08g0104600' => 'osa', 'Peaxi162Scf00003g00047' => 'pax', 'Peaxi162Scf00003g00052' => 'pax', 'Peaxi162Scf00003g00394' => 'pax', 'Peaxi162Scf00091g00621' => 'pax', 'Peaxi162Scf00152g00146' => 'pax', 'Peaxi162Scf00173g00025' => 'pax', 'Peaxi162Scf00195g00102' => 'pax', 'Peaxi162Scf00402g00013' => 'pax', 'Peaxi162Scf00519g00618' => 'pax', 'PGR004G2838' => 'pgr', 'PGR044G2275' => 'pgr', 'PGR102G1377' => 'pgr', 'PGR119G1245' => 'pgr', 'PGR142G4449' => 'pgr', 'PGSC0003DMG400004532' => 'stu', 'PGSC0003DMG400011950' => 'stu', 'PGSC0003DMG400023391' => 'stu', 'PGSC0003DMG400023985' => 'stu', 'PGSC0003DMG400026360' => 'stu', 'PGSC0003DMG400035711' => 'stu', 'PGSC0003DMG400037286' => 'stu', 'PGSC0003DMG402005881' => 'stu', 'Phvul.002G045400' => 'pvu', 'Phvul.006G216600' => 'pvu', 'Phvul.006G216700' => 'pvu', 'Phvul.006G216800' => 'pvu', 'Phvul.007G022500' => 'pvu', 'Phvul.011G094400' => 'pvu', 'Potri.001G470700' => 'ptr', 'Potri.003G015200' => 'ptr', 'Potri.004G202500' => 'ptr', 'Potri.004G218400' => 'ptr', 'Potri.008G020100' => 'ptr', 'Potri.008G153200' => 'ptr', 'Potri.009G163800' => 'ptr', 'Potri.010G087300' => 'ptr', 'Potri.010G239100' => 'ptr', 'Pp3c10_16100' => 'ppa', 'Pp3c10_16880' => 'ppa', 'Pp3c16_6230' => 'ppa', 'Pp3c17_18910' => 'ppa', 'Pp3c3_22119' => 'ppa', 'Pp3c3_22140' => 'ppa', 'Pp3c4_8159' => 'ppa', 'Pp3c4_8171' => 'ppa', 'Pp3c4_8330' => 'ppa', 'PRCOL_00004098' => 'pco', 'Prupe.1G013900' => 'ppe', 'Prupe.1G226300' => 'ppe', 'Prupe.1G573600' => 'ppe', 'Prupe.6G130100' => 'ppe', 'Psat3g090040' => 'psa', 'Psat4g210440' => 'psa', 'Psat6g231040' => 'psa', 'Psat6g231080' => 'psa', 'Psat7g063000' => 'psa', 'Psat7g188000' => 'psa', 'Psat7g188040' => 'psa', 'PSO017G0206' => 'pso', 'PSO170G0501' => 'pso', 'PSO170G6422' => 'pso', 'PSO210G7739' => 'pso', 'PSO339G1808' => 'pso', 'PSO339G6135' => 'pso', 'PSO384G0010' => 'pso', 'PSO384G0964' => 'pso', 'PSO761G0050' => 'pso', 'PSO782G4085' => 'pso', 'QL01p012264' => 'qlo', 'QL02p099491' => 'qlo', 'QL03p033868' => 'qlo', 'QL04p046678' => 'qlo', 'QL06p002448' => 'qlo', 'RcHm_v2.0_Chr4g0416181' => 'rch', 'RcHm_v2.0_Chr5g0044701' => 'rch', 'RcHm_v2.0_Chr6g0265781' => 'rch', 'RcHm_v2.0_Chr7g0221031' => 'rch', 'Rhsim04G0202000' => 'rsi', 'Rhsim11G0127300' => 'rsi', 'Rhsim13G0111800' => 'rsi', 'Sabra01G0165600' => 'sbr', 'Sabra03G0008300' => 'sbr', 'Sabra04G0136900' => 'sbr', 'Sabra08G0013400' => 'sbr', 'Sabra08G0116800' => 'sbr', 'Sabra09G0128000' => 'sbr', 'Sabra10G0055500' => 'sbr', 'Sabra10G0073300' => 'sbr', 'SalBow3G0385' => 'sbo', 'SalBow3G1119' => 'sbo', 'SalBow3G2005' => 'sbo', 'SalBow6G2563' => 'sbo', 'SalBow6G6386' => 'sbo', 'Sc06g0008800' => 'sci', 'Sc07g0004950' => 'sci', 'Sc09g0005340' => 'sci', 'Sc13g0004410' => 'sci', 'Sc21g0007090' => 'sci', 'Sed0009285' => 'sed', 'Sed0017583' => 'sed', 'Sed0019699' => 'sed', 'Sed0023107' => 'sed', 'SEGI_10916' => 'sgi', 'SEGI_16217' => 'sgi', 'SEGI_19466' => 'sgi', 'SEGI_41115' => 'sgi', 'SGA_v2.0_scaffold111G31534' => 'sas', 'SGA_v2.0_scaffold22G09864' => 'sas', 'SGA_v2.0_scaffold338G49219' => 'sas', 'SGA_v2.0_scaffold92G28298' => 'sas', 'SMO119G0064' => 'smo', 'SMO223G0038' => 'smo', 'SMO347G0584' => 'smo', 'SMO351G0010' => 'smo', 'SMO356G0404' => 'smo', 'Solyc01g103920.3' => 'sly', 'Solyc04g009710.2' => 'sly', 'Solyc05g055280.2' => 'sly', 'Solyc10g044520.3' => 'sly', 'Solyc10g075160.1' => 'sly', 'Solyc11g006910.3' => 'sly', 'Solyc11g068430.3' => 'sly', 'Sopen01g046310' => 'spe', 'Sopen03g001200' => 'spe', 'Sopen04g004830' => 'spe', 'Sopen05g033720' => 'spe', 'Sopen06g030740' => 'spe', 'Sopen10g013090' => 'spe', 'Sopen10g027630' => 'spe', 'Sopen10g027640' => 'spe', 'Sopen11g002820' => 'spe', 'Sopen11g027140' => 'spe', 'Sp1g09680' => 'spa', 'Sp2g03630' => 'spa', 'Sp4g10320' => 'spa', 'Sp6g33400' => 'spa', 'Sp7g13030' => 'spa', 'TAR365G0317' => 'tar', 'TAR376G0979' => 'tar', 'TAR623G1665' => 'tar', 'TAR633G2373' => 'tar', 'TAR636G1400' => 'tar', 'THA.LOC104800529' => 'tha', 'THA.LOC104808547' => 'tha', 'THA.LOC104809615' => 'tha', 'THA.LOC104815724' => 'tha', 'THA.LOC104818480' => 'tha', 'THA.LOC104819179' => 'tha', 'THA.LOC104822270' => 'tha', 'THA.LOC104826425' => 'tha', 'Thecc.02G089700' => 'tca', 'Thecc.04G232300' => 'tca', 'Thecc.09G283400' => 'tca', 'Thhalv10009020m.g' => 'esa', 'Thhalv10015506m.g' => 'esa', 'Thhalv10017364m.g' => 'esa', 'Thhalv10023742m.g' => 'esa', 'Thhalv10026483m.g' => 'esa', 'TPR.G17232' => 'tpr', 'TPR.G2133' => 'tpr', 'TPR.G2498' => 'tpr', 'TPR.G31942' => 'tpr', 'TPR.G37877' => 'tpr', 'TPR.G4571' => 'tpr', 'TWI14G1113' => 'twi', 'TWI15G0426' => 'twi', 'TWI31G1005' => 'twi', 'TWI38G0513' => 'twi', 'TWI38G1484' => 'twi', 'TWI73G1098' => 'twi', 'unitig_26.g10519' => 'ugi', 'unitig_736.g22395' => 'ugi', 'unitig_747.g21234' => 'ugi', 'unitig_747.g21942' => 'ugi', 'vmacro14351' => 'vma', 'VMungo0540G0082' => 'vmu', 'VMungo0540G0405' => 'vmu', 'VMungo0540G1486' => 'vmu', 'VMungo0540G1692' => 'vmu', 'VMungo0720G2473' => 'vmu', 'VMungo1127G1562' => 'vmu', 'VMungo1215G1918' => 'vmu', 'Zm00001eb052650' => 'zma', 'Zm00001eb063710' => 'zma', 'Zm00001eb083950' => 'zma', 'Zm00001eb174420' => 'zma', 'Zm00001eb260140' => 'zma', 'Zm00001eb260150' => 'zma', 'Zm00001eb260160' => 'zma', 'Zm00001eb348290' => 'zma', 'Zm00001eb366870' => 'zma', 'Zm00001eb421930' => 'zma' ) $gf_id = 'HOM05D001025' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001025' ) $data_identifier = 'HOM05D001025' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 19, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 2, 'amhyb' => (int) 4, 'aly' => (int) 4, 'aox' => (int) 4, 'arhy' => (int) 3, 'ath' => (int) 5, 'atr' => (int) 4, 'acertr' => (int) 3, 'cqu' => (int) 7, 'bca' => (int) 17, 'bol' => (int) 10, 'bra' => (int) 9, 'can' => (int) 10, 'cansat' => (int) 6, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 5, 'cbr' => (int) 5, 'ccan' => (int) 5, 'cde' => (int) 4, 'cfa' => (int) 3, 'ccl' => (int) 6, 'cil' => (int) 4, 'cla' => (int) 3, 'col' => (int) 3, 'cpa' => (int) 3, 'cre' => (int) 7, 'csa' => (int) 5, 'camsi' => (int) 9, 'dca' => (int) 4, 'din' => (int) 5, 'dzi' => (int) 7, 'eca' => (int) 6, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 12, 'fve' => (int) 4, 'gma' => (int) 12, 'ghi' => (int) 17, 'gra' => (int) 9, 'vvi' => (int) 2, 'han' => (int) 8, 'cav' => (int) 5, 'hma' => (int) 9, 'vpl' => (int) 4, 'sun' => (int) 2, 'lal' => (int) 9, 'lja' => (int) 5, 'lonja' => (int) 6, 'lsa' => (int) 3, 'mes' => (int) 8, 'mpo' => (int) 3, 'mbi' => (int) 4, 'mco' => (int) 3, 'mdo' => (int) 5, 'mtr' => (int) 7, 'cme' => (int) 6, 'egut' => (int) 7, 'ama' => (int) 3, 'nta' => (int) 12, 'nnu' => (int) 9, 'oeu' => (int) 4, 'osa' => (int) 7, 'pax' => (int) 9, 'pgr' => (int) 5, 'stu' => (int) 8, 'pvu' => (int) 6, 'ptr' => (int) 9, 'ppa' => (int) 9, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 7, 'pso' => (int) 10, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 3, 'sbr' => (int) 8, 'sbo' => (int) 5, 'sci' => (int) 5, 'sed' => (int) 4, 'sgi' => (int) 4, 'sas' => (int) 4, 'smo' => (int) 5, 'sly' => (int) 7, 'spe' => (int) 10, 'spa' => (int) 5, 'tar' => (int) 5, 'tha' => (int) 8, 'tca' => (int) 3, 'esa' => (int) 5, 'tpr' => (int) 6, 'twi' => (int) 6, 'ugi' => (int) 4, 'vma' => (int) 1, 'vmu' => (int) 7, 'zma' => (int) 10 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb421930' $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' => 'HOM05D001025', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '592', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p22650' => 'bna', 'A01p29720' => 'bna', 'A03p26560' => 'bna', 'A03p68820' => 'bna', 'A04p20980' => 'bna', 'A06p07730' => 'bna', 'A07p18260' => 'bna', 'A08p33710' => 'bna', 'A09p16970' => 'bna', 'A10p27490' => 'bna', 'Aa31LG1G17300' => 'aar', 'Aa31LG1G3910' => 'aar', 'Aa31LG2G9630' => 'aar', 'Aa31LG5G8360' => 'aar', 'Aa31LG9G2410' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4699' => 'aag', 'Actinidia23512' => 'ach', 'Actinidia37080' => 'ach', 'Ah.01g020380' => 'amhyb', 'Ah.08g215710' => 'amhyb', 'Ah.09g225110' => 'amhyb', 'Ah.10g036680' => 'amhyb', 'AL1G21940' => 'aly', 'AL2G15540' => 'aly', 'AL4G21520' => 'aly', 'AL7G40960' => 'aly', 'Aqoxy2G01191' => 'aox', 'Aqoxy2G03393' => 'aox', 'Aqoxy4G02775' => 'aox', 'Aqoxy6G00058' => 'aox', 'arahy.Tifrunner.gnm1.ann1.9X74H2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CW3FX9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R485W7' => 'arhy', 'AT1G10960' => 'ath', 'AT1G60950' => 'ath', 'AT2G27510' => 'ath', 'AT4G14890' => 'ath', 'AT5G10000' => 'ath', 'ATR0665G624' => 'atr', 'ATR0697G138' => 'atr', 'ATR0776G046' => 'atr', 'ATR1134G135' => 'atr', 'Atru.chr12.1025' => 'acertr', 'Atru.chr3.3241' => 'acertr', 'Atru.chr4.2460' => 'acertr', 'AUR62007427' => 'cqu', 'AUR62010960' => 'cqu', 'AUR62012201' => 'cqu', 'AUR62021470' => 'cqu', 'AUR62022834' => 'cqu', 'AUR62033635' => 'cqu', 'AUR62036186' => 'cqu', 'BcaB01g03077' => 'bca', 'BcaB02g10093' => 'bca', 'BcaB04g20295' => 'bca', 'BcaB06g28147' => 'bca', 'BcaB07g31253' => 'bca', 'BcaC01g04946' => 'bca', 'BcaC02g10614' => 'bca', 'BcaC02g10885' => 'bca', 'BcaC04g19356' => 'bca', 'BcaC04g22297' => 'bca', 'BcaC05g24977' => 'bca', 'BcaC06g31823' => 'bca', 'BcaC07g38633' => 'bca', 'BcaC09g49353' => 'bca', 'BcaC09g50168' => 'bca', 'BcaNung00322' => 'bca', 'BcaNung04769' => 'bca', 'BolC1t02753H' => 'bol', 'BolC1t03721H' => 'bol', 'BolC3t15525H' => 'bol', 'BolC4t23903H' => 'bol', 'BolC4t24231H' => 'bol', 'BolC4t27209H' => 'bol', 'BolC5t29671H' => 'bol', 'BolC8t49044H' => 'bol', 'BolC9t54999H' => 'bol', 'BolC9t59517H' => 'bol', 'BraA01t02178Z' => 'bra', 'BraA01t03099Z' => 'bra', 'BraA03t11867Z' => 'bra', 'BraA04t17667Z' => 'bra', 'BraA07t29542Z' => 'bra', 'BraA08t35287Z' => 'bra', 'BraA09t37334Z' => 'bra', 'BraA10t44801Z' => 'bra', 'BraSC39t46181Z' => 'bra', 'C01p28240' => 'bna', 'C01p37530' => 'bna', 'C03p31820' => 'bna', 'C04p24080' => 'bna', 'C04p25790' => 'bna', 'C04p56770' => 'bna', 'C05p09310' => 'bna', 'C09p21010' => 'bna', 'C09p67560' => 'bna', 'CAN.G1324.7' => 'can', 'CAN.G1358.10' => 'can', 'CAN.G1550.2' => 'can', 'CAN.G186.56' => 'can', 'CAN.G1965.1' => 'can', 'CAN.G645.15' => 'can', 'CAN.G798.26' => 'can', 'CAN.G798.27' => 'can', 'CAN.G798.29' => 'can', 'CAN.G919.31' => 'can', 'CANSAT11G0133' => 'cansat', 'CANSAT11G1171' => 'cansat', 'CANSAT11G2056' => 'cansat', 'CANSAT56G1202' => 'cansat', 'CANSAT56G1514' => 'cansat', 'CANSAT78G0455' => 'cansat', 'CARHR011190' => 'chi', 'CARHR051980' => 'chi', 'CARHR120170' => 'chi', 'CARHR203310' => 'chi', 'CARHR221490' => 'chi', 'Carub.0001s1054' => 'cru', 'Carub.0002s0431' => 'cru', 'Carub.0004s0818' => 'cru', 'Carub.0006s0846' => 'cru', 'Carub.0007s2722' => 'cru', 'Ca_00058_v3' => 'car', 'Ca_17831_v3' => 'car', 'Ca_19408_v3' => 'car', 'Ca_24397_v3' => 'car', 'Ca_25664_v3' => 'car', 'CBR_g21818' => 'cbr', 'CBR_g31195' => 'cbr', 'CBR_g32282' => 'cbr', 'CBR_g39599' => 'cbr', 'CBR_g49410' => 'cbr', 'Cc01_g09120' => 'ccan', 'Cc01_g09130' => 'ccan', 'Cc02_g09630' => 'ccan', 'Cc02_g22810' => 'ccan', 'Cc03_g03810' => 'ccan', 'CDE02G3718' => 'cde', 'CDE04G3183' => 'cde', 'CDE07G1046' => 'cde', 'CDE08G0480' => 'cde', 'Cfa005493' => 'cfa', 'Cfa010312' => 'cfa', 'Cfa015648' => 'cfa', 'Ciclev10002793m.g' => 'ccl', 'Ciclev10003356m.g' => 'ccl', 'Ciclev10006141m.g' => 'ccl', 'Ciclev10016676m.g' => 'ccl', 'Ciclev10017081m.g' => 'ccl', 'Ciclev10029499m.g' => 'ccl', 'CiPaw.01G166300' => 'cil', 'CiPaw.06G145600' => 'cil', 'CiPaw.13G040100' => 'cil', 'CiPaw.13G135800' => 'cil', 'ClCG01G012230' => 'cla', 'ClCG05G009510' => 'cla', 'ClCG08G008270' => 'cla', 'COL.COLO4_11763' => 'col', 'COL.COLO4_19876' => 'col', 'COL.COLO4_21481' => 'col', 'Cpa.g.sc118.34' => 'cpa', 'Cpa.g.sc32.13' => 'cpa', 'Cpa.g.sc58.103' => 'cpa', 'Cre03.g183850' => 'cre', 'Cre06.g306350' => 'cre', 'Cre07.g334800' => 'cre', 'Cre12.g487900' => 'cre', 'Cre14.g626700' => 'cre', 'Cre16.g658400' => 'cre', 'Cre17.g700950' => 'cre', 'CsaV3_1G014830' => 'csa', 'CsaV3_3G013320' => 'csa', 'CsaV3_3G019210' => 'csa', 'CsaV3_3G019220' => 'csa', 'CsaV3_6G004230' => 'csa', 'CSS0003773' => 'camsi', 'CSS0004563' => 'camsi', 'CSS0013949' => 'camsi', 'CSS0025971' => 'camsi', 'CSS0028570' => 'camsi', 'CSS0033127' => 'camsi', 'CSS0036051' => 'camsi', 'CSS0040087' => 'camsi', 'CSS0043179' => 'camsi', 'DCAR_006161' => 'dca', 'DCAR_010351' => 'dca', 'DCAR_012197' => 'dca', 'DCAR_024162' => 'dca', 'Dinv01030' => 'din', 'Dinv10924' => 'din', 'Dinv11835' => 'din', 'Dinv22841' => 'din', 'Dinv42553' => 'din', 'Duzib052G0560' => 'dzi', 'Duzib132G0389' => 'dzi', 'Duzib150G1181' => 'dzi', 'Duzib168G0623' => 'dzi', 'Duzib170G1036' => 'dzi', 'Duzib212G0200' => 'dzi', 'Duzib248G0194' => 'dzi', 'ECA232G2193' => 'eca', 'ECA233G0302' => 'eca', 'ECA234G2813' => 'eca', 'ECA234G4866' => 'eca', 'ECA240G3932' => 'eca', 'ECA248G0385' => 'eca', 'EL10Ac2g04781' => 'bvu', 'EL10Ac3g06445' => 'bvu', 'EL10Ac7g15825' => 'bvu', 'EL10Ac8g18550' => 'bvu', 'Eucgr.B03849' => 'egr', 'Eucgr.I02744' => 'egr', 'Eucgr.J00264' => 'egr', 'Eucgr.J00493' => 'egr', 'FAN04G2181' => 'fan', 'FAN07G2666' => 'fan', 'FAN11G0024' => 'fan', 'FAN12G1105' => 'fan', 'FAN13G0302' => 'fan', 'FAN15G2781' => 'fan', 'FAN16G1274' => 'fan', 'FAN17G2988' => 'fan', 'FAN18G2621' => 'fan', 'FAN21G0013' => 'fan', 'FAN22G1211' => 'fan', 'FAN25G3626' => 'fan', 'FvH4_2g09491' => 'fve', 'FvH4_3g24910' => 'fve', 'FvH4_4g15630' => 'fve', 'FvH4_5g28820' => 'fve', 'Glyma.01G238000' => 'gma', 'Glyma.05G168400' => 'gma', 'Glyma.08G126800' => 'gma', 'Glyma.08G188500' => 'gma', 'Glyma.10G278900' => 'gma', 'Glyma.11G005700' => 'gma', 'Glyma.11G183300' => 'gma', 'Glyma.12G089200' => 'gma', 'Glyma.12G169400' => 'gma', 'Glyma.12G169500' => 'gma', 'Glyma.12G169600' => 'gma', 'Glyma.20G110800' => 'gma', 'Gohir.A03G192900' => 'ghi', 'Gohir.A03G193000' => 'ghi', 'Gohir.A05G080700' => 'ghi', 'Gohir.A09G216000' => 'ghi', 'Gohir.A12G027700' => 'ghi', 'Gohir.A13G036200' => 'ghi', 'Gohir.A13G222600' => 'ghi', 'Gohir.D02G213900' => 'ghi', 'Gohir.D02G214000' => 'ghi', 'Gohir.D05G083700' => 'ghi', 'Gohir.D05G083800' => 'ghi', 'Gohir.D05G083850' => 'ghi', 'Gohir.D08G015400' => 'ghi', 'Gohir.D09G218400' => 'ghi', 'Gohir.D12G027100' => 'ghi', 'Gohir.D13G034500' => 'ghi', 'Gohir.D13G227400' => 'ghi', 'Gorai.005G241800' => 'gra', 'Gorai.005G241900' => 'gra', 'Gorai.006G239400' => 'gra', 'Gorai.008G027600' => 'gra', 'Gorai.009G085400' => 'gra', 'Gorai.009G085500' => 'gra', 'Gorai.013G039000' => 'gra', 'Gorai.013G194800' => 'gra', 'Gorai.013G257900' => 'gra', 'GSVIVG01000982001' => 'vvi', 'GSVIVG01017981001' => 'vvi', 'HanXRQChr01g0024061' => 'han', 'HanXRQChr09g0247831' => 'han', 'HanXRQChr10g0294611' => 'han', 'HanXRQChr10g0294621' => 'han', 'HanXRQChr11g0346821' => 'han', 'HanXRQChr13g0397461' => 'han', 'HanXRQChr16g0513651' => 'han', 'HanXRQChr16g0513701' => 'han', 'Haze_00897' => 'cav', 'Haze_01745' => 'cav', 'Haze_02486' => 'cav', 'Haze_02487' => 'cav', 'Haze_23374' => 'cav', 'Hma1.2p1_0578F.1_g182520' => 'hma', 'Hma1.2p1_0602F.1_g187350' => 'hma', 'Hma1.2p1_0602F.1_g187360' => 'hma', 'Hma1.2p1_0874F.1_g231320' => 'hma', 'Hma1.2p1_1197F.1_g266210' => 'hma', 'Hma1.2p1_1197F.1_g266220' => 'hma', 'Hma1.2p1_2167F.1_g315895' => 'hma', 'Hma1.2p1_2190F.1_g316640' => 'hma', 'Hma1.2p1_3645F.1_g337153' => 'hma', 'HPP92_004907' => 'vpl', 'HPP92_012134' => 'vpl', 'HPP92_025136' => 'vpl', 'HPP92_026087' => 'vpl', 'Hund06782' => 'sun', 'Hund06784' => 'sun', 'Lalb_Chr01g0004861' => 'lal', 'Lalb_Chr02g0140591' => 'lal', 'Lalb_Chr02g0140611' => 'lal', 'Lalb_Chr03g0028101' => 'lal', 'Lalb_Chr07g0185791' => 'lal', 'Lalb_Chr12g0204491' => 'lal', 'Lalb_Chr13g0295671' => 'lal', 'Lalb_Chr19g0136461' => 'lal', 'Lalb_Chr21g0309191' => 'lal', 'Lj1g0028158' => 'lja', 'Lj1P236T38' => 'lonja', 'Lj2C32G2' => 'lonja', 'Lj2P944T8' => 'lonja', 'Lj2P963T15' => 'lonja', 'Lj3g0011788' => 'lja', 'Lj4g0025027' => 'lja', 'Lj5P255T36' => 'lonja', 'Lj6g0018866' => 'lja', 'Lj6P608T31' => 'lonja', 'LjContig00408g0008879' => 'lja', 'Lsat_1_v5_gn_5_105820' => 'lsa', 'Lsat_1_v5_gn_6_38800' => 'lsa', 'Lsat_1_v5_gn_7_67141' => 'lsa', 'Manes.04G003400' => 'mes', 'Manes.07G020000' => 'mes', 'Manes.07G020100' => 'mes', 'Manes.07G020150' => 'mes', 'Manes.10G061500' => 'mes', 'Manes.10G123200' => 'mes', 'Manes.11G161900' => 'mes', 'Manes.15G029300' => 'mes', 'Mapoly0071s0018' => 'mpo', 'Mapoly0082s0023' => 'mpo', 'Mapoly3477s0001' => 'mpo', 'MBI05_g31233_MAGBIO' => 'mbi', 'MBI09_g05946_MAGBIO' => 'mbi', 'MBI09_g05947_MAGBIO' => 'mbi', 'MBI17_g08346_MAGBIO' => 'mbi', 'MCO04G038' => 'mco', 'MCO09G370' => 'mco', 'MCO13G605' => 'mco', 'MD00G1075500' => 'mdo', 'MD03G1144300' => 'mdo', 'MD08G1236800' => 'mdo', 'MD13G1193300' => 'mdo', 'MD15G1428700' => 'mdo', 'Medtr1g112030' => 'mtr', 'Medtr1g112050' => 'mtr', 'Medtr2g006290' => 'mtr', 'Medtr2g086510' => 'mtr', 'Medtr4g053120' => 'mtr', 'Medtr5g006320' => 'mtr', 'Medtr8g088720' => 'mtr', 'MELO3C004712.2' => 'cme', 'MELO3C006533.2' => 'cme', 'MELO3C019438.2' => 'cme', 'MELO3C019440.2' => 'cme', 'MELO3C019441.2' => 'cme', 'MELO3C019895.2' => 'cme', 'Migut.B00811' => 'egut', 'Migut.D02447' => 'egut', 'Migut.F00875' => 'egut', 'Migut.N00186' => 'egut', 'Migut.N01051' => 'egut', 'Migut.N02491' => 'egut', 'Migut.O00784' => 'egut', 'MSTRG.12367' => 'ama', 'MSTRG.18756' => 'ama', 'MSTRG.21042' => 'ama', 'Nitab4.5_0000559g0040' => 'nta', 'Nitab4.5_0000667g0190' => 'nta', 'Nitab4.5_0000755g0160' => 'nta', 'Nitab4.5_0001216g0080' => 'nta', 'Nitab4.5_0004069g0040' => 'nta', 'Nitab4.5_0004129g0010' => 'nta', 'Nitab4.5_0005744g0030' => 'nta', 'Nitab4.5_0006996g0030' => 'nta', 'Nitab4.5_0008971g0040' => 'nta', 'Nitab4.5_0009769g0020' => 'nta', 'Nitab4.5_0009833g0010' => 'nta', 'Nitab4.5_0013140g0020' => 'nta', 'Nn003s41376' => 'nnu', 'Nn1g01857' => 'nnu', 'Nn1g03611' => 'nnu', 'Nn1g06853' => 'nnu', 'Nn3g18360' => 'nnu', 'Nn4g26328' => 'nnu', 'Nn5g27531' => 'nnu', 'Nn6g34899' => 'nnu', 'Nn7g36299' => 'nnu', 'Oeu021485.1' => 'oeu', 'Oeu022433.1' => 'oeu', 'Oeu032111.1' => 'oeu', 'Oeu051608.1' => 'oeu', 'Os01g0860601' => 'osa', 'Os03g0659200' => 'osa', 'Os03g0835900' => 'osa', 'Os04g0412200' => 'osa', 'Os05g0443500' => 'osa', 'Os07g0251500' => 'osa', 'Os08g0104600' => 'osa', 'Peaxi162Scf00003g00047' => 'pax', 'Peaxi162Scf00003g00052' => 'pax', 'Peaxi162Scf00003g00394' => 'pax', 'Peaxi162Scf00091g00621' => 'pax', 'Peaxi162Scf00152g00146' => 'pax', 'Peaxi162Scf00173g00025' => 'pax', 'Peaxi162Scf00195g00102' => 'pax', 'Peaxi162Scf00402g00013' => 'pax', 'Peaxi162Scf00519g00618' => 'pax', 'PGR004G2838' => 'pgr', 'PGR044G2275' => 'pgr', 'PGR102G1377' => 'pgr', 'PGR119G1245' => 'pgr', 'PGR142G4449' => 'pgr', 'PGSC0003DMG400004532' => 'stu', 'PGSC0003DMG400011950' => 'stu', 'PGSC0003DMG400023391' => 'stu', 'PGSC0003DMG400023985' => 'stu', 'PGSC0003DMG400026360' => 'stu', 'PGSC0003DMG400035711' => 'stu', 'PGSC0003DMG400037286' => 'stu', 'PGSC0003DMG402005881' => 'stu', 'Phvul.002G045400' => 'pvu', 'Phvul.006G216600' => 'pvu', 'Phvul.006G216700' => 'pvu', 'Phvul.006G216800' => 'pvu', 'Phvul.007G022500' => 'pvu', 'Phvul.011G094400' => 'pvu', 'Potri.001G470700' => 'ptr', 'Potri.003G015200' => 'ptr', 'Potri.004G202500' => 'ptr', 'Potri.004G218400' => 'ptr', 'Potri.008G020100' => 'ptr', 'Potri.008G153200' => 'ptr', 'Potri.009G163800' => 'ptr', 'Potri.010G087300' => 'ptr', 'Potri.010G239100' => 'ptr', 'Pp3c10_16100' => 'ppa', 'Pp3c10_16880' => 'ppa', 'Pp3c16_6230' => 'ppa', 'Pp3c17_18910' => 'ppa', 'Pp3c3_22119' => 'ppa', 'Pp3c3_22140' => 'ppa', 'Pp3c4_8159' => 'ppa', 'Pp3c4_8171' => 'ppa', 'Pp3c4_8330' => 'ppa', 'PRCOL_00004098' => 'pco', 'Prupe.1G013900' => 'ppe', 'Prupe.1G226300' => 'ppe', 'Prupe.1G573600' => 'ppe', 'Prupe.6G130100' => 'ppe', 'Psat3g090040' => 'psa', 'Psat4g210440' => 'psa', 'Psat6g231040' => 'psa', 'Psat6g231080' => 'psa', 'Psat7g063000' => 'psa', 'Psat7g188000' => 'psa', 'Psat7g188040' => 'psa', 'PSO017G0206' => 'pso', 'PSO170G0501' => 'pso', 'PSO170G6422' => 'pso', 'PSO210G7739' => 'pso', 'PSO339G1808' => 'pso', 'PSO339G6135' => 'pso', 'PSO384G0010' => 'pso', 'PSO384G0964' => 'pso', 'PSO761G0050' => 'pso', 'PSO782G4085' => 'pso', 'QL01p012264' => 'qlo', 'QL02p099491' => 'qlo', 'QL03p033868' => 'qlo', 'QL04p046678' => 'qlo', 'QL06p002448' => 'qlo', 'RcHm_v2.0_Chr4g0416181' => 'rch', 'RcHm_v2.0_Chr5g0044701' => 'rch', 'RcHm_v2.0_Chr6g0265781' => 'rch', 'RcHm_v2.0_Chr7g0221031' => 'rch', 'Rhsim04G0202000' => 'rsi', 'Rhsim11G0127300' => 'rsi', 'Rhsim13G0111800' => 'rsi', 'Sabra01G0165600' => 'sbr', 'Sabra03G0008300' => 'sbr', 'Sabra04G0136900' => 'sbr', 'Sabra08G0013400' => 'sbr', 'Sabra08G0116800' => 'sbr', 'Sabra09G0128000' => 'sbr', 'Sabra10G0055500' => 'sbr', 'Sabra10G0073300' => 'sbr', 'SalBow3G0385' => 'sbo', 'SalBow3G1119' => 'sbo', 'SalBow3G2005' => 'sbo', 'SalBow6G2563' => 'sbo', 'SalBow6G6386' => 'sbo', 'Sc06g0008800' => 'sci', 'Sc07g0004950' => 'sci', 'Sc09g0005340' => 'sci', 'Sc13g0004410' => 'sci', 'Sc21g0007090' => 'sci', 'Sed0009285' => 'sed', 'Sed0017583' => 'sed', 'Sed0019699' => 'sed', 'Sed0023107' => 'sed', 'SEGI_10916' => 'sgi', 'SEGI_16217' => 'sgi', 'SEGI_19466' => 'sgi', 'SEGI_41115' => 'sgi', 'SGA_v2.0_scaffold111G31534' => 'sas', 'SGA_v2.0_scaffold22G09864' => 'sas', 'SGA_v2.0_scaffold338G49219' => 'sas', 'SGA_v2.0_scaffold92G28298' => 'sas', 'SMO119G0064' => 'smo', 'SMO223G0038' => 'smo', 'SMO347G0584' => 'smo', 'SMO351G0010' => 'smo', 'SMO356G0404' => 'smo', 'Solyc01g103920.3' => 'sly', 'Solyc04g009710.2' => 'sly', 'Solyc05g055280.2' => 'sly', 'Solyc10g044520.3' => 'sly', 'Solyc10g075160.1' => 'sly', 'Solyc11g006910.3' => 'sly', 'Solyc11g068430.3' => 'sly', 'Sopen01g046310' => 'spe', 'Sopen03g001200' => 'spe', 'Sopen04g004830' => 'spe', 'Sopen05g033720' => 'spe', 'Sopen06g030740' => 'spe', 'Sopen10g013090' => 'spe', 'Sopen10g027630' => 'spe', 'Sopen10g027640' => 'spe', 'Sopen11g002820' => 'spe', 'Sopen11g027140' => 'spe', 'Sp1g09680' => 'spa', 'Sp2g03630' => 'spa', 'Sp4g10320' => 'spa', 'Sp6g33400' => 'spa', 'Sp7g13030' => 'spa', 'TAR365G0317' => 'tar', 'TAR376G0979' => 'tar', 'TAR623G1665' => 'tar', 'TAR633G2373' => 'tar', 'TAR636G1400' => 'tar', 'THA.LOC104800529' => 'tha', 'THA.LOC104808547' => 'tha', 'THA.LOC104809615' => 'tha', 'THA.LOC104815724' => 'tha', 'THA.LOC104818480' => 'tha', 'THA.LOC104819179' => 'tha', 'THA.LOC104822270' => 'tha', 'THA.LOC104826425' => 'tha', 'Thecc.02G089700' => 'tca', 'Thecc.04G232300' => 'tca', 'Thecc.09G283400' => 'tca', 'Thhalv10009020m.g' => 'esa', 'Thhalv10015506m.g' => 'esa', 'Thhalv10017364m.g' => 'esa', 'Thhalv10023742m.g' => 'esa', 'Thhalv10026483m.g' => 'esa', 'TPR.G17232' => 'tpr', 'TPR.G2133' => 'tpr', 'TPR.G2498' => 'tpr', 'TPR.G31942' => 'tpr', 'TPR.G37877' => 'tpr', 'TPR.G4571' => 'tpr', 'TWI14G1113' => 'twi', 'TWI15G0426' => 'twi', 'TWI31G1005' => 'twi', 'TWI38G0513' => 'twi', 'TWI38G1484' => 'twi', 'TWI73G1098' => 'twi', 'unitig_26.g10519' => 'ugi', 'unitig_736.g22395' => 'ugi', 'unitig_747.g21234' => 'ugi', 'unitig_747.g21942' => 'ugi', 'vmacro14351' => 'vma', 'VMungo0540G0082' => 'vmu', 'VMungo0540G0405' => 'vmu', 'VMungo0540G1486' => 'vmu', 'VMungo0540G1692' => 'vmu', 'VMungo0720G2473' => 'vmu', 'VMungo1127G1562' => 'vmu', 'VMungo1215G1918' => 'vmu', 'Zm00001eb052650' => 'zma', 'Zm00001eb063710' => 'zma', 'Zm00001eb083950' => 'zma', 'Zm00001eb174420' => 'zma', 'Zm00001eb260140' => 'zma', 'Zm00001eb260150' => 'zma', 'Zm00001eb260160' => 'zma', 'Zm00001eb348290' => 'zma', 'Zm00001eb366870' => 'zma', 'Zm00001eb421930' => 'zma' ), 'gf_id' => 'HOM05D001025', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001025' ), 'data_identifier' => 'HOM05D001025', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001025', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '592', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p22650' => 'bna', 'A01p29720' => 'bna', 'A03p26560' => 'bna', 'A03p68820' => 'bna', 'A04p20980' => 'bna', 'A06p07730' => 'bna', 'A07p18260' => 'bna', 'A08p33710' => 'bna', 'A09p16970' => 'bna', 'A10p27490' => 'bna', 'Aa31LG1G17300' => 'aar', 'Aa31LG1G3910' => 'aar', 'Aa31LG2G9630' => 'aar', 'Aa31LG5G8360' => 'aar', 'Aa31LG9G2410' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4699' => 'aag', 'Actinidia23512' => 'ach', 'Actinidia37080' => 'ach', 'Ah.01g020380' => 'amhyb', 'Ah.08g215710' => 'amhyb', 'Ah.09g225110' => 'amhyb', 'Ah.10g036680' => 'amhyb', 'AL1G21940' => 'aly', 'AL2G15540' => 'aly', 'AL4G21520' => 'aly', 'AL7G40960' => 'aly', 'Aqoxy2G01191' => 'aox', 'Aqoxy2G03393' => 'aox', 'Aqoxy4G02775' => 'aox', 'Aqoxy6G00058' => 'aox', 'arahy.Tifrunner.gnm1.ann1.9X74H2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CW3FX9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R485W7' => 'arhy', 'AT1G10960' => 'ath', 'AT1G60950' => 'ath', 'AT2G27510' => 'ath', 'AT4G14890' => 'ath', 'AT5G10000' => 'ath', 'ATR0665G624' => 'atr', 'ATR0697G138' => 'atr', 'ATR0776G046' => 'atr', 'ATR1134G135' => 'atr', 'Atru.chr12.1025' => 'acertr', 'Atru.chr3.3241' => 'acertr', 'Atru.chr4.2460' => 'acertr', 'AUR62007427' => 'cqu', 'AUR62010960' => 'cqu', 'AUR62012201' => 'cqu', 'AUR62021470' => 'cqu', 'AUR62022834' => 'cqu', 'AUR62033635' => 'cqu', 'AUR62036186' => 'cqu', 'BcaB01g03077' => 'bca', 'BcaB02g10093' => 'bca', 'BcaB04g20295' => 'bca', 'BcaB06g28147' => 'bca', 'BcaB07g31253' => 'bca', 'BcaC01g04946' => 'bca', 'BcaC02g10614' => 'bca', 'BcaC02g10885' => 'bca', 'BcaC04g19356' => 'bca', 'BcaC04g22297' => 'bca', 'BcaC05g24977' => 'bca', 'BcaC06g31823' => 'bca', 'BcaC07g38633' => 'bca', 'BcaC09g49353' => 'bca', 'BcaC09g50168' => 'bca', 'BcaNung00322' => 'bca', 'BcaNung04769' => 'bca', 'BolC1t02753H' => 'bol', 'BolC1t03721H' => 'bol', 'BolC3t15525H' => 'bol', 'BolC4t23903H' => 'bol', 'BolC4t24231H' => 'bol', 'BolC4t27209H' => 'bol', 'BolC5t29671H' => 'bol', 'BolC8t49044H' => 'bol', 'BolC9t54999H' => 'bol', 'BolC9t59517H' => 'bol', 'BraA01t02178Z' => 'bra', 'BraA01t03099Z' => 'bra', 'BraA03t11867Z' => 'bra', 'BraA04t17667Z' => 'bra', 'BraA07t29542Z' => 'bra', 'BraA08t35287Z' => 'bra', 'BraA09t37334Z' => 'bra', 'BraA10t44801Z' => 'bra', 'BraSC39t46181Z' => 'bra', 'C01p28240' => 'bna', 'C01p37530' => 'bna', 'C03p31820' => 'bna', 'C04p24080' => 'bna', 'C04p25790' => 'bna', 'C04p56770' => 'bna', 'C05p09310' => 'bna', 'C09p21010' => 'bna', 'C09p67560' => 'bna', 'CAN.G1324.7' => 'can', 'CAN.G1358.10' => 'can', 'CAN.G1550.2' => 'can', 'CAN.G186.56' => 'can', 'CAN.G1965.1' => 'can', 'CAN.G645.15' => 'can', 'CAN.G798.26' => 'can', 'CAN.G798.27' => 'can', 'CAN.G798.29' => 'can', 'CAN.G919.31' => 'can', 'CANSAT11G0133' => 'cansat', 'CANSAT11G1171' => 'cansat', 'CANSAT11G2056' => 'cansat', 'CANSAT56G1202' => 'cansat', 'CANSAT56G1514' => 'cansat', 'CANSAT78G0455' => 'cansat', 'CARHR011190' => 'chi', 'CARHR051980' => 'chi', 'CARHR120170' => 'chi', 'CARHR203310' => 'chi', 'CARHR221490' => 'chi', 'Carub.0001s1054' => 'cru', 'Carub.0002s0431' => 'cru', 'Carub.0004s0818' => 'cru', 'Carub.0006s0846' => 'cru', 'Carub.0007s2722' => 'cru', 'Ca_00058_v3' => 'car', 'Ca_17831_v3' => 'car', 'Ca_19408_v3' => 'car', 'Ca_24397_v3' => 'car', 'Ca_25664_v3' => 'car', 'CBR_g21818' => 'cbr', 'CBR_g31195' => 'cbr', 'CBR_g32282' => 'cbr', 'CBR_g39599' => 'cbr', 'CBR_g49410' => 'cbr', 'Cc01_g09120' => 'ccan', 'Cc01_g09130' => 'ccan', 'Cc02_g09630' => 'ccan', 'Cc02_g22810' => 'ccan', 'Cc03_g03810' => 'ccan', 'CDE02G3718' => 'cde', 'CDE04G3183' => 'cde', 'CDE07G1046' => 'cde', 'CDE08G0480' => 'cde', 'Cfa005493' => 'cfa', 'Cfa010312' => 'cfa', 'Cfa015648' => 'cfa', 'Ciclev10002793m.g' => 'ccl', 'Ciclev10003356m.g' => 'ccl', 'Ciclev10006141m.g' => 'ccl', 'Ciclev10016676m.g' => 'ccl', 'Ciclev10017081m.g' => 'ccl', 'Ciclev10029499m.g' => 'ccl', 'CiPaw.01G166300' => 'cil', 'CiPaw.06G145600' => 'cil', 'CiPaw.13G040100' => 'cil', 'CiPaw.13G135800' => 'cil', 'ClCG01G012230' => 'cla', 'ClCG05G009510' => 'cla', 'ClCG08G008270' => 'cla', 'COL.COLO4_11763' => 'col', 'COL.COLO4_19876' => 'col', 'COL.COLO4_21481' => 'col', 'Cpa.g.sc118.34' => 'cpa', 'Cpa.g.sc32.13' => 'cpa', 'Cpa.g.sc58.103' => 'cpa', 'Cre03.g183850' => 'cre', 'Cre06.g306350' => 'cre', 'Cre07.g334800' => 'cre', 'Cre12.g487900' => 'cre', 'Cre14.g626700' => 'cre', 'Cre16.g658400' => 'cre', 'Cre17.g700950' => 'cre', 'CsaV3_1G014830' => 'csa', 'CsaV3_3G013320' => 'csa', 'CsaV3_3G019210' => 'csa', 'CsaV3_3G019220' => 'csa', 'CsaV3_6G004230' => 'csa', 'CSS0003773' => 'camsi', 'CSS0004563' => 'camsi', 'CSS0013949' => 'camsi', 'CSS0025971' => 'camsi', 'CSS0028570' => 'camsi', 'CSS0033127' => 'camsi', 'CSS0036051' => 'camsi', 'CSS0040087' => 'camsi', 'CSS0043179' => 'camsi', 'DCAR_006161' => 'dca', 'DCAR_010351' => 'dca', 'DCAR_012197' => 'dca', 'DCAR_024162' => 'dca', 'Dinv01030' => 'din', 'Dinv10924' => 'din', 'Dinv11835' => 'din', 'Dinv22841' => 'din', 'Dinv42553' => 'din', 'Duzib052G0560' => 'dzi', 'Duzib132G0389' => 'dzi', 'Duzib150G1181' => 'dzi', 'Duzib168G0623' => 'dzi', 'Duzib170G1036' => 'dzi', 'Duzib212G0200' => 'dzi', 'Duzib248G0194' => 'dzi', 'ECA232G2193' => 'eca', 'ECA233G0302' => 'eca', 'ECA234G2813' => 'eca', 'ECA234G4866' => 'eca', 'ECA240G3932' => 'eca', 'ECA248G0385' => 'eca', 'EL10Ac2g04781' => 'bvu', 'EL10Ac3g06445' => 'bvu', 'EL10Ac7g15825' => 'bvu', 'EL10Ac8g18550' => 'bvu', 'Eucgr.B03849' => 'egr', 'Eucgr.I02744' => 'egr', 'Eucgr.J00264' => 'egr', 'Eucgr.J00493' => 'egr', 'FAN04G2181' => 'fan', 'FAN07G2666' => 'fan', 'FAN11G0024' => 'fan', 'FAN12G1105' => 'fan', 'FAN13G0302' => 'fan', 'FAN15G2781' => 'fan', 'FAN16G1274' => 'fan', 'FAN17G2988' => 'fan', 'FAN18G2621' => 'fan', 'FAN21G0013' => 'fan', 'FAN22G1211' => 'fan', 'FAN25G3626' => 'fan', 'FvH4_2g09491' => 'fve', 'FvH4_3g24910' => 'fve', 'FvH4_4g15630' => 'fve', 'FvH4_5g28820' => 'fve', 'Glyma.01G238000' => 'gma', 'Glyma.05G168400' => 'gma', 'Glyma.08G126800' => 'gma', 'Glyma.08G188500' => 'gma', 'Glyma.10G278900' => 'gma', 'Glyma.11G005700' => 'gma', 'Glyma.11G183300' => 'gma', 'Glyma.12G089200' => 'gma', 'Glyma.12G169400' => 'gma', 'Glyma.12G169500' => 'gma', 'Glyma.12G169600' => 'gma', 'Glyma.20G110800' => 'gma', 'Gohir.A03G192900' => 'ghi', 'Gohir.A03G193000' => 'ghi', 'Gohir.A05G080700' => 'ghi', 'Gohir.A09G216000' => 'ghi', 'Gohir.A12G027700' => 'ghi', 'Gohir.A13G036200' => 'ghi', 'Gohir.A13G222600' => 'ghi', 'Gohir.D02G213900' => 'ghi', 'Gohir.D02G214000' => 'ghi', 'Gohir.D05G083700' => 'ghi', 'Gohir.D05G083800' => 'ghi', 'Gohir.D05G083850' => 'ghi', 'Gohir.D08G015400' => 'ghi', 'Gohir.D09G218400' => 'ghi', 'Gohir.D12G027100' => 'ghi', 'Gohir.D13G034500' => 'ghi', 'Gohir.D13G227400' => 'ghi', 'Gorai.005G241800' => 'gra', 'Gorai.005G241900' => 'gra', 'Gorai.006G239400' => 'gra', 'Gorai.008G027600' => 'gra', 'Gorai.009G085400' => 'gra', 'Gorai.009G085500' => 'gra', 'Gorai.013G039000' => 'gra', 'Gorai.013G194800' => 'gra', 'Gorai.013G257900' => 'gra', 'GSVIVG01000982001' => 'vvi', 'GSVIVG01017981001' => 'vvi', 'HanXRQChr01g0024061' => 'han', 'HanXRQChr09g0247831' => 'han', 'HanXRQChr10g0294611' => 'han', 'HanXRQChr10g0294621' => 'han', 'HanXRQChr11g0346821' => 'han', 'HanXRQChr13g0397461' => 'han', 'HanXRQChr16g0513651' => 'han', 'HanXRQChr16g0513701' => 'han', 'Haze_00897' => 'cav', 'Haze_01745' => 'cav', 'Haze_02486' => 'cav', 'Haze_02487' => 'cav', 'Haze_23374' => 'cav', 'Hma1.2p1_0578F.1_g182520' => 'hma', 'Hma1.2p1_0602F.1_g187350' => 'hma', 'Hma1.2p1_0602F.1_g187360' => 'hma', 'Hma1.2p1_0874F.1_g231320' => 'hma', 'Hma1.2p1_1197F.1_g266210' => 'hma', 'Hma1.2p1_1197F.1_g266220' => 'hma', 'Hma1.2p1_2167F.1_g315895' => 'hma', 'Hma1.2p1_2190F.1_g316640' => 'hma', 'Hma1.2p1_3645F.1_g337153' => 'hma', 'HPP92_004907' => 'vpl', 'HPP92_012134' => 'vpl', 'HPP92_025136' => 'vpl', 'HPP92_026087' => 'vpl', 'Hund06782' => 'sun', 'Hund06784' => 'sun', 'Lalb_Chr01g0004861' => 'lal', 'Lalb_Chr02g0140591' => 'lal', 'Lalb_Chr02g0140611' => 'lal', 'Lalb_Chr03g0028101' => 'lal', 'Lalb_Chr07g0185791' => 'lal', 'Lalb_Chr12g0204491' => 'lal', 'Lalb_Chr13g0295671' => 'lal', 'Lalb_Chr19g0136461' => 'lal', 'Lalb_Chr21g0309191' => 'lal', 'Lj1g0028158' => 'lja', 'Lj1P236T38' => 'lonja', 'Lj2C32G2' => 'lonja', 'Lj2P944T8' => 'lonja', 'Lj2P963T15' => 'lonja', 'Lj3g0011788' => 'lja', 'Lj4g0025027' => 'lja', 'Lj5P255T36' => 'lonja', 'Lj6g0018866' => 'lja', 'Lj6P608T31' => 'lonja', 'LjContig00408g0008879' => 'lja', 'Lsat_1_v5_gn_5_105820' => 'lsa', 'Lsat_1_v5_gn_6_38800' => 'lsa', 'Lsat_1_v5_gn_7_67141' => 'lsa', 'Manes.04G003400' => 'mes', 'Manes.07G020000' => 'mes', 'Manes.07G020100' => 'mes', 'Manes.07G020150' => 'mes', 'Manes.10G061500' => 'mes', 'Manes.10G123200' => 'mes', 'Manes.11G161900' => 'mes', 'Manes.15G029300' => 'mes', 'Mapoly0071s0018' => 'mpo', 'Mapoly0082s0023' => 'mpo', 'Mapoly3477s0001' => 'mpo', 'MBI05_g31233_MAGBIO' => 'mbi', 'MBI09_g05946_MAGBIO' => 'mbi', 'MBI09_g05947_MAGBIO' => 'mbi', 'MBI17_g08346_MAGBIO' => 'mbi', 'MCO04G038' => 'mco', 'MCO09G370' => 'mco', 'MCO13G605' => 'mco', 'MD00G1075500' => 'mdo', 'MD03G1144300' => 'mdo', 'MD08G1236800' => 'mdo', 'MD13G1193300' => 'mdo', 'MD15G1428700' => 'mdo', 'Medtr1g112030' => 'mtr', 'Medtr1g112050' => 'mtr', 'Medtr2g006290' => 'mtr', 'Medtr2g086510' => 'mtr', 'Medtr4g053120' => 'mtr', 'Medtr5g006320' => 'mtr', 'Medtr8g088720' => 'mtr', 'MELO3C004712.2' => 'cme', 'MELO3C006533.2' => 'cme', 'MELO3C019438.2' => 'cme', 'MELO3C019440.2' => 'cme', 'MELO3C019441.2' => 'cme', 'MELO3C019895.2' => 'cme', 'Migut.B00811' => 'egut', 'Migut.D02447' => 'egut', 'Migut.F00875' => 'egut', 'Migut.N00186' => 'egut', 'Migut.N01051' => 'egut', 'Migut.N02491' => 'egut', 'Migut.O00784' => 'egut', 'MSTRG.12367' => 'ama', 'MSTRG.18756' => 'ama', 'MSTRG.21042' => 'ama', 'Nitab4.5_0000559g0040' => 'nta', 'Nitab4.5_0000667g0190' => 'nta', 'Nitab4.5_0000755g0160' => 'nta', 'Nitab4.5_0001216g0080' => 'nta', 'Nitab4.5_0004069g0040' => 'nta', 'Nitab4.5_0004129g0010' => 'nta', 'Nitab4.5_0005744g0030' => 'nta', 'Nitab4.5_0006996g0030' => 'nta', 'Nitab4.5_0008971g0040' => 'nta', 'Nitab4.5_0009769g0020' => 'nta', 'Nitab4.5_0009833g0010' => 'nta', 'Nitab4.5_0013140g0020' => 'nta', 'Nn003s41376' => 'nnu', 'Nn1g01857' => 'nnu', 'Nn1g03611' => 'nnu', 'Nn1g06853' => 'nnu', 'Nn3g18360' => 'nnu', 'Nn4g26328' => 'nnu', 'Nn5g27531' => 'nnu', 'Nn6g34899' => 'nnu', 'Nn7g36299' => 'nnu', 'Oeu021485.1' => 'oeu', 'Oeu022433.1' => 'oeu', 'Oeu032111.1' => 'oeu', 'Oeu051608.1' => 'oeu', 'Os01g0860601' => 'osa', 'Os03g0659200' => 'osa', 'Os03g0835900' => 'osa', 'Os04g0412200' => 'osa', 'Os05g0443500' => 'osa', 'Os07g0251500' => 'osa', 'Os08g0104600' => 'osa', 'Peaxi162Scf00003g00047' => 'pax', 'Peaxi162Scf00003g00052' => 'pax', 'Peaxi162Scf00003g00394' => 'pax', 'Peaxi162Scf00091g00621' => 'pax', 'Peaxi162Scf00152g00146' => 'pax', 'Peaxi162Scf00173g00025' => 'pax', 'Peaxi162Scf00195g00102' => 'pax', 'Peaxi162Scf00402g00013' => 'pax', 'Peaxi162Scf00519g00618' => 'pax', 'PGR004G2838' => 'pgr', 'PGR044G2275' => 'pgr', 'PGR102G1377' => 'pgr', 'PGR119G1245' => 'pgr', 'PGR142G4449' => 'pgr', 'PGSC0003DMG400004532' => 'stu', 'PGSC0003DMG400011950' => 'stu', 'PGSC0003DMG400023391' => 'stu', 'PGSC0003DMG400023985' => 'stu', 'PGSC0003DMG400026360' => 'stu', 'PGSC0003DMG400035711' => 'stu', 'PGSC0003DMG400037286' => 'stu', 'PGSC0003DMG402005881' => 'stu', 'Phvul.002G045400' => 'pvu', 'Phvul.006G216600' => 'pvu', 'Phvul.006G216700' => 'pvu', 'Phvul.006G216800' => 'pvu', 'Phvul.007G022500' => 'pvu', 'Phvul.011G094400' => 'pvu', 'Potri.001G470700' => 'ptr', 'Potri.003G015200' => 'ptr', 'Potri.004G202500' => 'ptr', 'Potri.004G218400' => 'ptr', 'Potri.008G020100' => 'ptr', 'Potri.008G153200' => 'ptr', 'Potri.009G163800' => 'ptr', 'Potri.010G087300' => 'ptr', 'Potri.010G239100' => 'ptr', 'Pp3c10_16100' => 'ppa', 'Pp3c10_16880' => 'ppa', 'Pp3c16_6230' => 'ppa', 'Pp3c17_18910' => 'ppa', 'Pp3c3_22119' => 'ppa', 'Pp3c3_22140' => 'ppa', 'Pp3c4_8159' => 'ppa', 'Pp3c4_8171' => 'ppa', 'Pp3c4_8330' => 'ppa', 'PRCOL_00004098' => 'pco', 'Prupe.1G013900' => 'ppe', 'Prupe.1G226300' => 'ppe', 'Prupe.1G573600' => 'ppe', 'Prupe.6G130100' => 'ppe', 'Psat3g090040' => 'psa', 'Psat4g210440' => 'psa', 'Psat6g231040' => 'psa', 'Psat6g231080' => 'psa', 'Psat7g063000' => 'psa', 'Psat7g188000' => 'psa', 'Psat7g188040' => 'psa', 'PSO017G0206' => 'pso', 'PSO170G0501' => 'pso', 'PSO170G6422' => 'pso', 'PSO210G7739' => 'pso', 'PSO339G1808' => 'pso', 'PSO339G6135' => 'pso', 'PSO384G0010' => 'pso', 'PSO384G0964' => 'pso', 'PSO761G0050' => 'pso', 'PSO782G4085' => 'pso', 'QL01p012264' => 'qlo', 'QL02p099491' => 'qlo', 'QL03p033868' => 'qlo', 'QL04p046678' => 'qlo', 'QL06p002448' => 'qlo', 'RcHm_v2.0_Chr4g0416181' => 'rch', 'RcHm_v2.0_Chr5g0044701' => 'rch', 'RcHm_v2.0_Chr6g0265781' => 'rch', 'RcHm_v2.0_Chr7g0221031' => 'rch', 'Rhsim04G0202000' => 'rsi', 'Rhsim11G0127300' => 'rsi', 'Rhsim13G0111800' => 'rsi', 'Sabra01G0165600' => 'sbr', 'Sabra03G0008300' => 'sbr', 'Sabra04G0136900' => 'sbr', 'Sabra08G0013400' => 'sbr', 'Sabra08G0116800' => 'sbr', 'Sabra09G0128000' => 'sbr', 'Sabra10G0055500' => 'sbr', 'Sabra10G0073300' => 'sbr', 'SalBow3G0385' => 'sbo', 'SalBow3G1119' => 'sbo', 'SalBow3G2005' => 'sbo', 'SalBow6G2563' => 'sbo', 'SalBow6G6386' => 'sbo', 'Sc06g0008800' => 'sci', 'Sc07g0004950' => 'sci', 'Sc09g0005340' => 'sci', 'Sc13g0004410' => 'sci', 'Sc21g0007090' => 'sci', 'Sed0009285' => 'sed', 'Sed0017583' => 'sed', 'Sed0019699' => 'sed', 'Sed0023107' => 'sed', 'SEGI_10916' => 'sgi', 'SEGI_16217' => 'sgi', 'SEGI_19466' => 'sgi', 'SEGI_41115' => 'sgi', 'SGA_v2.0_scaffold111G31534' => 'sas', 'SGA_v2.0_scaffold22G09864' => 'sas', 'SGA_v2.0_scaffold338G49219' => 'sas', 'SGA_v2.0_scaffold92G28298' => 'sas', 'SMO119G0064' => 'smo', 'SMO223G0038' => 'smo', 'SMO347G0584' => 'smo', 'SMO351G0010' => 'smo', 'SMO356G0404' => 'smo', 'Solyc01g103920.3' => 'sly', 'Solyc04g009710.2' => 'sly', 'Solyc05g055280.2' => 'sly', 'Solyc10g044520.3' => 'sly', 'Solyc10g075160.1' => 'sly', 'Solyc11g006910.3' => 'sly', 'Solyc11g068430.3' => 'sly', 'Sopen01g046310' => 'spe', 'Sopen03g001200' => 'spe', 'Sopen04g004830' => 'spe', 'Sopen05g033720' => 'spe', 'Sopen06g030740' => 'spe', 'Sopen10g013090' => 'spe', 'Sopen10g027630' => 'spe', 'Sopen10g027640' => 'spe', 'Sopen11g002820' => 'spe', 'Sopen11g027140' => 'spe', 'Sp1g09680' => 'spa', 'Sp2g03630' => 'spa', 'Sp4g10320' => 'spa', 'Sp6g33400' => 'spa', 'Sp7g13030' => 'spa', 'TAR365G0317' => 'tar', 'TAR376G0979' => 'tar', 'TAR623G1665' => 'tar', 'TAR633G2373' => 'tar', 'TAR636G1400' => 'tar', 'THA.LOC104800529' => 'tha', 'THA.LOC104808547' => 'tha', 'THA.LOC104809615' => 'tha', 'THA.LOC104815724' => 'tha', 'THA.LOC104818480' => 'tha', 'THA.LOC104819179' => 'tha', 'THA.LOC104822270' => 'tha', 'THA.LOC104826425' => 'tha', 'Thecc.02G089700' => 'tca', 'Thecc.04G232300' => 'tca', 'Thecc.09G283400' => 'tca', 'Thhalv10009020m.g' => 'esa', 'Thhalv10015506m.g' => 'esa', 'Thhalv10017364m.g' => 'esa', 'Thhalv10023742m.g' => 'esa', 'Thhalv10026483m.g' => 'esa', 'TPR.G17232' => 'tpr', 'TPR.G2133' => 'tpr', 'TPR.G2498' => 'tpr', 'TPR.G31942' => 'tpr', 'TPR.G37877' => 'tpr', 'TPR.G4571' => 'tpr', 'TWI14G1113' => 'twi', 'TWI15G0426' => 'twi', 'TWI31G1005' => 'twi', 'TWI38G0513' => 'twi', 'TWI38G1484' => 'twi', 'TWI73G1098' => 'twi', 'unitig_26.g10519' => 'ugi', 'unitig_736.g22395' => 'ugi', 'unitig_747.g21234' => 'ugi', 'unitig_747.g21942' => 'ugi', 'vmacro14351' => 'vma', 'VMungo0540G0082' => 'vmu', 'VMungo0540G0405' => 'vmu', 'VMungo0540G1486' => 'vmu', 'VMungo0540G1692' => 'vmu', 'VMungo0720G2473' => 'vmu', 'VMungo1127G1562' => 'vmu', 'VMungo1215G1918' => 'vmu', 'Zm00001eb052650' => 'zma', 'Zm00001eb063710' => 'zma', 'Zm00001eb083950' => 'zma', 'Zm00001eb174420' => 'zma', 'Zm00001eb260140' => 'zma', 'Zm00001eb260150' => 'zma', 'Zm00001eb260160' => 'zma', 'Zm00001eb348290' => 'zma', 'Zm00001eb366870' => 'zma', 'Zm00001eb421930' => 'zma' ) $gf_id = 'HOM05D001025' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001025' ) $data_identifier = 'HOM05D001025' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 19, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 2, 'amhyb' => (int) 4, 'aly' => (int) 4, 'aox' => (int) 4, 'arhy' => (int) 3, 'ath' => (int) 5, 'atr' => (int) 4, 'acertr' => (int) 3, 'cqu' => (int) 7, 'bca' => (int) 17, 'bol' => (int) 10, 'bra' => (int) 9, 'can' => (int) 10, 'cansat' => (int) 6, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 5, 'cbr' => (int) 5, 'ccan' => (int) 5, 'cde' => (int) 4, 'cfa' => (int) 3, 'ccl' => (int) 6, 'cil' => (int) 4, 'cla' => (int) 3, 'col' => (int) 3, 'cpa' => (int) 3, 'cre' => (int) 7, 'csa' => (int) 5, 'camsi' => (int) 9, 'dca' => (int) 4, 'din' => (int) 5, 'dzi' => (int) 7, 'eca' => (int) 6, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 12, 'fve' => (int) 4, 'gma' => (int) 12, 'ghi' => (int) 17, 'gra' => (int) 9, 'vvi' => (int) 2, 'han' => (int) 8, 'cav' => (int) 5, 'hma' => (int) 9, 'vpl' => (int) 4, 'sun' => (int) 2, 'lal' => (int) 9, 'lja' => (int) 5, 'lonja' => (int) 6, 'lsa' => (int) 3, 'mes' => (int) 8, 'mpo' => (int) 3, 'mbi' => (int) 4, 'mco' => (int) 3, 'mdo' => (int) 5, 'mtr' => (int) 7, 'cme' => (int) 6, 'egut' => (int) 7, 'ama' => (int) 3, 'nta' => (int) 12, 'nnu' => (int) 9, 'oeu' => (int) 4, 'osa' => (int) 7, 'pax' => (int) 9, 'pgr' => (int) 5, 'stu' => (int) 8, 'pvu' => (int) 6, 'ptr' => (int) 9, 'ppa' => (int) 9, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 7, 'pso' => (int) 10, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 3, 'sbr' => (int) 8, 'sbo' => (int) 5, 'sci' => (int) 5, 'sed' => (int) 4, 'sgi' => (int) 4, 'sas' => (int) 4, 'smo' => (int) 5, 'sly' => (int) 7, 'spe' => (int) 10, 'spa' => (int) 5, 'tar' => (int) 5, 'tha' => (int) 8, 'tca' => (int) 3, 'esa' => (int) 5, 'tpr' => (int) 6, 'twi' => (int) 6, 'ugi' => (int) 4, 'vma' => (int) 1, 'vmu' => (int) 7, 'zma' => (int) 10 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb421930' $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' => 'HOM05D001025', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '592', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p22650' => 'bna', 'A01p29720' => 'bna', 'A03p26560' => 'bna', 'A03p68820' => 'bna', 'A04p20980' => 'bna', 'A06p07730' => 'bna', 'A07p18260' => 'bna', 'A08p33710' => 'bna', 'A09p16970' => 'bna', 'A10p27490' => 'bna', 'Aa31LG1G17300' => 'aar', 'Aa31LG1G3910' => 'aar', 'Aa31LG2G9630' => 'aar', 'Aa31LG5G8360' => 'aar', 'Aa31LG9G2410' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4699' => 'aag', 'Actinidia23512' => 'ach', 'Actinidia37080' => 'ach', 'Ah.01g020380' => 'amhyb', 'Ah.08g215710' => 'amhyb', 'Ah.09g225110' => 'amhyb', 'Ah.10g036680' => 'amhyb', 'AL1G21940' => 'aly', 'AL2G15540' => 'aly', 'AL4G21520' => 'aly', 'AL7G40960' => 'aly', 'Aqoxy2G01191' => 'aox', 'Aqoxy2G03393' => 'aox', 'Aqoxy4G02775' => 'aox', 'Aqoxy6G00058' => 'aox', 'arahy.Tifrunner.gnm1.ann1.9X74H2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CW3FX9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R485W7' => 'arhy', 'AT1G10960' => 'ath', 'AT1G60950' => 'ath', 'AT2G27510' => 'ath', 'AT4G14890' => 'ath', 'AT5G10000' => 'ath', 'ATR0665G624' => 'atr', 'ATR0697G138' => 'atr', 'ATR0776G046' => 'atr', 'ATR1134G135' => 'atr', 'Atru.chr12.1025' => 'acertr', 'Atru.chr3.3241' => 'acertr', 'Atru.chr4.2460' => 'acertr', 'AUR62007427' => 'cqu', 'AUR62010960' => 'cqu', 'AUR62012201' => 'cqu', 'AUR62021470' => 'cqu', 'AUR62022834' => 'cqu', 'AUR62033635' => 'cqu', 'AUR62036186' => 'cqu', 'BcaB01g03077' => 'bca', 'BcaB02g10093' => 'bca', 'BcaB04g20295' => 'bca', 'BcaB06g28147' => 'bca', 'BcaB07g31253' => 'bca', 'BcaC01g04946' => 'bca', 'BcaC02g10614' => 'bca', 'BcaC02g10885' => 'bca', 'BcaC04g19356' => 'bca', 'BcaC04g22297' => 'bca', 'BcaC05g24977' => 'bca', 'BcaC06g31823' => 'bca', 'BcaC07g38633' => 'bca', 'BcaC09g49353' => 'bca', 'BcaC09g50168' => 'bca', 'BcaNung00322' => 'bca', 'BcaNung04769' => 'bca', 'BolC1t02753H' => 'bol', 'BolC1t03721H' => 'bol', 'BolC3t15525H' => 'bol', 'BolC4t23903H' => 'bol', 'BolC4t24231H' => 'bol', 'BolC4t27209H' => 'bol', 'BolC5t29671H' => 'bol', 'BolC8t49044H' => 'bol', 'BolC9t54999H' => 'bol', 'BolC9t59517H' => 'bol', 'BraA01t02178Z' => 'bra', 'BraA01t03099Z' => 'bra', 'BraA03t11867Z' => 'bra', 'BraA04t17667Z' => 'bra', 'BraA07t29542Z' => 'bra', 'BraA08t35287Z' => 'bra', 'BraA09t37334Z' => 'bra', 'BraA10t44801Z' => 'bra', 'BraSC39t46181Z' => 'bra', 'C01p28240' => 'bna', 'C01p37530' => 'bna', 'C03p31820' => 'bna', 'C04p24080' => 'bna', 'C04p25790' => 'bna', 'C04p56770' => 'bna', 'C05p09310' => 'bna', 'C09p21010' => 'bna', 'C09p67560' => 'bna', 'CAN.G1324.7' => 'can', 'CAN.G1358.10' => 'can', 'CAN.G1550.2' => 'can', 'CAN.G186.56' => 'can', 'CAN.G1965.1' => 'can', 'CAN.G645.15' => 'can', 'CAN.G798.26' => 'can', 'CAN.G798.27' => 'can', 'CAN.G798.29' => 'can', 'CAN.G919.31' => 'can', 'CANSAT11G0133' => 'cansat', 'CANSAT11G1171' => 'cansat', 'CANSAT11G2056' => 'cansat', 'CANSAT56G1202' => 'cansat', 'CANSAT56G1514' => 'cansat', 'CANSAT78G0455' => 'cansat', 'CARHR011190' => 'chi', 'CARHR051980' => 'chi', 'CARHR120170' => 'chi', 'CARHR203310' => 'chi', 'CARHR221490' => 'chi', 'Carub.0001s1054' => 'cru', 'Carub.0002s0431' => 'cru', 'Carub.0004s0818' => 'cru', 'Carub.0006s0846' => 'cru', 'Carub.0007s2722' => 'cru', 'Ca_00058_v3' => 'car', 'Ca_17831_v3' => 'car', 'Ca_19408_v3' => 'car', 'Ca_24397_v3' => 'car', 'Ca_25664_v3' => 'car', 'CBR_g21818' => 'cbr', 'CBR_g31195' => 'cbr', 'CBR_g32282' => 'cbr', 'CBR_g39599' => 'cbr', 'CBR_g49410' => 'cbr', 'Cc01_g09120' => 'ccan', 'Cc01_g09130' => 'ccan', 'Cc02_g09630' => 'ccan', 'Cc02_g22810' => 'ccan', 'Cc03_g03810' => 'ccan', 'CDE02G3718' => 'cde', 'CDE04G3183' => 'cde', 'CDE07G1046' => 'cde', 'CDE08G0480' => 'cde', 'Cfa005493' => 'cfa', 'Cfa010312' => 'cfa', 'Cfa015648' => 'cfa', 'Ciclev10002793m.g' => 'ccl', 'Ciclev10003356m.g' => 'ccl', 'Ciclev10006141m.g' => 'ccl', 'Ciclev10016676m.g' => 'ccl', 'Ciclev10017081m.g' => 'ccl', 'Ciclev10029499m.g' => 'ccl', 'CiPaw.01G166300' => 'cil', 'CiPaw.06G145600' => 'cil', 'CiPaw.13G040100' => 'cil', 'CiPaw.13G135800' => 'cil', 'ClCG01G012230' => 'cla', 'ClCG05G009510' => 'cla', 'ClCG08G008270' => 'cla', 'COL.COLO4_11763' => 'col', 'COL.COLO4_19876' => 'col', 'COL.COLO4_21481' => 'col', 'Cpa.g.sc118.34' => 'cpa', 'Cpa.g.sc32.13' => 'cpa', 'Cpa.g.sc58.103' => 'cpa', 'Cre03.g183850' => 'cre', 'Cre06.g306350' => 'cre', 'Cre07.g334800' => 'cre', 'Cre12.g487900' => 'cre', 'Cre14.g626700' => 'cre', 'Cre16.g658400' => 'cre', 'Cre17.g700950' => 'cre', 'CsaV3_1G014830' => 'csa', 'CsaV3_3G013320' => 'csa', 'CsaV3_3G019210' => 'csa', 'CsaV3_3G019220' => 'csa', 'CsaV3_6G004230' => 'csa', 'CSS0003773' => 'camsi', 'CSS0004563' => 'camsi', 'CSS0013949' => 'camsi', 'CSS0025971' => 'camsi', 'CSS0028570' => 'camsi', 'CSS0033127' => 'camsi', 'CSS0036051' => 'camsi', 'CSS0040087' => 'camsi', 'CSS0043179' => 'camsi', 'DCAR_006161' => 'dca', 'DCAR_010351' => 'dca', 'DCAR_012197' => 'dca', 'DCAR_024162' => 'dca', 'Dinv01030' => 'din', 'Dinv10924' => 'din', 'Dinv11835' => 'din', 'Dinv22841' => 'din', 'Dinv42553' => 'din', 'Duzib052G0560' => 'dzi', 'Duzib132G0389' => 'dzi', 'Duzib150G1181' => 'dzi', 'Duzib168G0623' => 'dzi', 'Duzib170G1036' => 'dzi', 'Duzib212G0200' => 'dzi', 'Duzib248G0194' => 'dzi', 'ECA232G2193' => 'eca', 'ECA233G0302' => 'eca', 'ECA234G2813' => 'eca', 'ECA234G4866' => 'eca', 'ECA240G3932' => 'eca', 'ECA248G0385' => 'eca', 'EL10Ac2g04781' => 'bvu', 'EL10Ac3g06445' => 'bvu', 'EL10Ac7g15825' => 'bvu', 'EL10Ac8g18550' => 'bvu', 'Eucgr.B03849' => 'egr', 'Eucgr.I02744' => 'egr', 'Eucgr.J00264' => 'egr', 'Eucgr.J00493' => 'egr', 'FAN04G2181' => 'fan', 'FAN07G2666' => 'fan', 'FAN11G0024' => 'fan', 'FAN12G1105' => 'fan', 'FAN13G0302' => 'fan', 'FAN15G2781' => 'fan', 'FAN16G1274' => 'fan', 'FAN17G2988' => 'fan', 'FAN18G2621' => 'fan', 'FAN21G0013' => 'fan', 'FAN22G1211' => 'fan', 'FAN25G3626' => 'fan', 'FvH4_2g09491' => 'fve', 'FvH4_3g24910' => 'fve', 'FvH4_4g15630' => 'fve', 'FvH4_5g28820' => 'fve', 'Glyma.01G238000' => 'gma', 'Glyma.05G168400' => 'gma', 'Glyma.08G126800' => 'gma', 'Glyma.08G188500' => 'gma', 'Glyma.10G278900' => 'gma', 'Glyma.11G005700' => 'gma', 'Glyma.11G183300' => 'gma', 'Glyma.12G089200' => 'gma', 'Glyma.12G169400' => 'gma', 'Glyma.12G169500' => 'gma', 'Glyma.12G169600' => 'gma', 'Glyma.20G110800' => 'gma', 'Gohir.A03G192900' => 'ghi', 'Gohir.A03G193000' => 'ghi', 'Gohir.A05G080700' => 'ghi', 'Gohir.A09G216000' => 'ghi', 'Gohir.A12G027700' => 'ghi', 'Gohir.A13G036200' => 'ghi', 'Gohir.A13G222600' => 'ghi', 'Gohir.D02G213900' => 'ghi', 'Gohir.D02G214000' => 'ghi', 'Gohir.D05G083700' => 'ghi', 'Gohir.D05G083800' => 'ghi', 'Gohir.D05G083850' => 'ghi', 'Gohir.D08G015400' => 'ghi', 'Gohir.D09G218400' => 'ghi', 'Gohir.D12G027100' => 'ghi', 'Gohir.D13G034500' => 'ghi', 'Gohir.D13G227400' => 'ghi', 'Gorai.005G241800' => 'gra', 'Gorai.005G241900' => 'gra', 'Gorai.006G239400' => 'gra', 'Gorai.008G027600' => 'gra', 'Gorai.009G085400' => 'gra', 'Gorai.009G085500' => 'gra', 'Gorai.013G039000' => 'gra', 'Gorai.013G194800' => 'gra', 'Gorai.013G257900' => 'gra', 'GSVIVG01000982001' => 'vvi', 'GSVIVG01017981001' => 'vvi', 'HanXRQChr01g0024061' => 'han', 'HanXRQChr09g0247831' => 'han', 'HanXRQChr10g0294611' => 'han', 'HanXRQChr10g0294621' => 'han', 'HanXRQChr11g0346821' => 'han', 'HanXRQChr13g0397461' => 'han', 'HanXRQChr16g0513651' => 'han', 'HanXRQChr16g0513701' => 'han', 'Haze_00897' => 'cav', 'Haze_01745' => 'cav', 'Haze_02486' => 'cav', 'Haze_02487' => 'cav', 'Haze_23374' => 'cav', 'Hma1.2p1_0578F.1_g182520' => 'hma', 'Hma1.2p1_0602F.1_g187350' => 'hma', 'Hma1.2p1_0602F.1_g187360' => 'hma', 'Hma1.2p1_0874F.1_g231320' => 'hma', 'Hma1.2p1_1197F.1_g266210' => 'hma', 'Hma1.2p1_1197F.1_g266220' => 'hma', 'Hma1.2p1_2167F.1_g315895' => 'hma', 'Hma1.2p1_2190F.1_g316640' => 'hma', 'Hma1.2p1_3645F.1_g337153' => 'hma', 'HPP92_004907' => 'vpl', 'HPP92_012134' => 'vpl', 'HPP92_025136' => 'vpl', 'HPP92_026087' => 'vpl', 'Hund06782' => 'sun', 'Hund06784' => 'sun', 'Lalb_Chr01g0004861' => 'lal', 'Lalb_Chr02g0140591' => 'lal', 'Lalb_Chr02g0140611' => 'lal', 'Lalb_Chr03g0028101' => 'lal', 'Lalb_Chr07g0185791' => 'lal', 'Lalb_Chr12g0204491' => 'lal', 'Lalb_Chr13g0295671' => 'lal', 'Lalb_Chr19g0136461' => 'lal', 'Lalb_Chr21g0309191' => 'lal', 'Lj1g0028158' => 'lja', 'Lj1P236T38' => 'lonja', 'Lj2C32G2' => 'lonja', 'Lj2P944T8' => 'lonja', 'Lj2P963T15' => 'lonja', 'Lj3g0011788' => 'lja', 'Lj4g0025027' => 'lja', 'Lj5P255T36' => 'lonja', 'Lj6g0018866' => 'lja', 'Lj6P608T31' => 'lonja', 'LjContig00408g0008879' => 'lja', 'Lsat_1_v5_gn_5_105820' => 'lsa', 'Lsat_1_v5_gn_6_38800' => 'lsa', 'Lsat_1_v5_gn_7_67141' => 'lsa', 'Manes.04G003400' => 'mes', 'Manes.07G020000' => 'mes', 'Manes.07G020100' => 'mes', 'Manes.07G020150' => 'mes', 'Manes.10G061500' => 'mes', 'Manes.10G123200' => 'mes', 'Manes.11G161900' => 'mes', 'Manes.15G029300' => 'mes', 'Mapoly0071s0018' => 'mpo', 'Mapoly0082s0023' => 'mpo', 'Mapoly3477s0001' => 'mpo', 'MBI05_g31233_MAGBIO' => 'mbi', 'MBI09_g05946_MAGBIO' => 'mbi', 'MBI09_g05947_MAGBIO' => 'mbi', 'MBI17_g08346_MAGBIO' => 'mbi', 'MCO04G038' => 'mco', 'MCO09G370' => 'mco', 'MCO13G605' => 'mco', 'MD00G1075500' => 'mdo', 'MD03G1144300' => 'mdo', 'MD08G1236800' => 'mdo', 'MD13G1193300' => 'mdo', 'MD15G1428700' => 'mdo', 'Medtr1g112030' => 'mtr', 'Medtr1g112050' => 'mtr', 'Medtr2g006290' => 'mtr', 'Medtr2g086510' => 'mtr', 'Medtr4g053120' => 'mtr', 'Medtr5g006320' => 'mtr', 'Medtr8g088720' => 'mtr', 'MELO3C004712.2' => 'cme', 'MELO3C006533.2' => 'cme', 'MELO3C019438.2' => 'cme', 'MELO3C019440.2' => 'cme', 'MELO3C019441.2' => 'cme', 'MELO3C019895.2' => 'cme', 'Migut.B00811' => 'egut', 'Migut.D02447' => 'egut', 'Migut.F00875' => 'egut', 'Migut.N00186' => 'egut', 'Migut.N01051' => 'egut', 'Migut.N02491' => 'egut', 'Migut.O00784' => 'egut', 'MSTRG.12367' => 'ama', 'MSTRG.18756' => 'ama', 'MSTRG.21042' => 'ama', 'Nitab4.5_0000559g0040' => 'nta', 'Nitab4.5_0000667g0190' => 'nta', 'Nitab4.5_0000755g0160' => 'nta', 'Nitab4.5_0001216g0080' => 'nta', 'Nitab4.5_0004069g0040' => 'nta', 'Nitab4.5_0004129g0010' => 'nta', 'Nitab4.5_0005744g0030' => 'nta', 'Nitab4.5_0006996g0030' => 'nta', 'Nitab4.5_0008971g0040' => 'nta', 'Nitab4.5_0009769g0020' => 'nta', 'Nitab4.5_0009833g0010' => 'nta', 'Nitab4.5_0013140g0020' => 'nta', 'Nn003s41376' => 'nnu', 'Nn1g01857' => 'nnu', 'Nn1g03611' => 'nnu', 'Nn1g06853' => 'nnu', 'Nn3g18360' => 'nnu', 'Nn4g26328' => 'nnu', 'Nn5g27531' => 'nnu', 'Nn6g34899' => 'nnu', 'Nn7g36299' => 'nnu', 'Oeu021485.1' => 'oeu', 'Oeu022433.1' => 'oeu', 'Oeu032111.1' => 'oeu', 'Oeu051608.1' => 'oeu', 'Os01g0860601' => 'osa', 'Os03g0659200' => 'osa', 'Os03g0835900' => 'osa', 'Os04g0412200' => 'osa', 'Os05g0443500' => 'osa', 'Os07g0251500' => 'osa', 'Os08g0104600' => 'osa', 'Peaxi162Scf00003g00047' => 'pax', 'Peaxi162Scf00003g00052' => 'pax', 'Peaxi162Scf00003g00394' => 'pax', 'Peaxi162Scf00091g00621' => 'pax', 'Peaxi162Scf00152g00146' => 'pax', 'Peaxi162Scf00173g00025' => 'pax', 'Peaxi162Scf00195g00102' => 'pax', 'Peaxi162Scf00402g00013' => 'pax', 'Peaxi162Scf00519g00618' => 'pax', 'PGR004G2838' => 'pgr', 'PGR044G2275' => 'pgr', 'PGR102G1377' => 'pgr', 'PGR119G1245' => 'pgr', 'PGR142G4449' => 'pgr', 'PGSC0003DMG400004532' => 'stu', 'PGSC0003DMG400011950' => 'stu', 'PGSC0003DMG400023391' => 'stu', 'PGSC0003DMG400023985' => 'stu', 'PGSC0003DMG400026360' => 'stu', 'PGSC0003DMG400035711' => 'stu', 'PGSC0003DMG400037286' => 'stu', 'PGSC0003DMG402005881' => 'stu', 'Phvul.002G045400' => 'pvu', 'Phvul.006G216600' => 'pvu', 'Phvul.006G216700' => 'pvu', 'Phvul.006G216800' => 'pvu', 'Phvul.007G022500' => 'pvu', 'Phvul.011G094400' => 'pvu', 'Potri.001G470700' => 'ptr', 'Potri.003G015200' => 'ptr', 'Potri.004G202500' => 'ptr', 'Potri.004G218400' => 'ptr', 'Potri.008G020100' => 'ptr', 'Potri.008G153200' => 'ptr', 'Potri.009G163800' => 'ptr', 'Potri.010G087300' => 'ptr', 'Potri.010G239100' => 'ptr', 'Pp3c10_16100' => 'ppa', 'Pp3c10_16880' => 'ppa', 'Pp3c16_6230' => 'ppa', 'Pp3c17_18910' => 'ppa', 'Pp3c3_22119' => 'ppa', 'Pp3c3_22140' => 'ppa', 'Pp3c4_8159' => 'ppa', 'Pp3c4_8171' => 'ppa', 'Pp3c4_8330' => 'ppa', 'PRCOL_00004098' => 'pco', 'Prupe.1G013900' => 'ppe', 'Prupe.1G226300' => 'ppe', 'Prupe.1G573600' => 'ppe', 'Prupe.6G130100' => 'ppe', 'Psat3g090040' => 'psa', 'Psat4g210440' => 'psa', 'Psat6g231040' => 'psa', 'Psat6g231080' => 'psa', 'Psat7g063000' => 'psa', 'Psat7g188000' => 'psa', 'Psat7g188040' => 'psa', 'PSO017G0206' => 'pso', 'PSO170G0501' => 'pso', 'PSO170G6422' => 'pso', 'PSO210G7739' => 'pso', 'PSO339G1808' => 'pso', 'PSO339G6135' => 'pso', 'PSO384G0010' => 'pso', 'PSO384G0964' => 'pso', 'PSO761G0050' => 'pso', 'PSO782G4085' => 'pso', 'QL01p012264' => 'qlo', 'QL02p099491' => 'qlo', 'QL03p033868' => 'qlo', 'QL04p046678' => 'qlo', 'QL06p002448' => 'qlo', 'RcHm_v2.0_Chr4g0416181' => 'rch', 'RcHm_v2.0_Chr5g0044701' => 'rch', 'RcHm_v2.0_Chr6g0265781' => 'rch', 'RcHm_v2.0_Chr7g0221031' => 'rch', 'Rhsim04G0202000' => 'rsi', 'Rhsim11G0127300' => 'rsi', 'Rhsim13G0111800' => 'rsi', 'Sabra01G0165600' => 'sbr', 'Sabra03G0008300' => 'sbr', 'Sabra04G0136900' => 'sbr', 'Sabra08G0013400' => 'sbr', 'Sabra08G0116800' => 'sbr', 'Sabra09G0128000' => 'sbr', 'Sabra10G0055500' => 'sbr', 'Sabra10G0073300' => 'sbr', 'SalBow3G0385' => 'sbo', 'SalBow3G1119' => 'sbo', 'SalBow3G2005' => 'sbo', 'SalBow6G2563' => 'sbo', 'SalBow6G6386' => 'sbo', 'Sc06g0008800' => 'sci', 'Sc07g0004950' => 'sci', 'Sc09g0005340' => 'sci', 'Sc13g0004410' => 'sci', 'Sc21g0007090' => 'sci', 'Sed0009285' => 'sed', 'Sed0017583' => 'sed', 'Sed0019699' => 'sed', 'Sed0023107' => 'sed', 'SEGI_10916' => 'sgi', 'SEGI_16217' => 'sgi', 'SEGI_19466' => 'sgi', 'SEGI_41115' => 'sgi', 'SGA_v2.0_scaffold111G31534' => 'sas', 'SGA_v2.0_scaffold22G09864' => 'sas', 'SGA_v2.0_scaffold338G49219' => 'sas', 'SGA_v2.0_scaffold92G28298' => 'sas', 'SMO119G0064' => 'smo', 'SMO223G0038' => 'smo', 'SMO347G0584' => 'smo', 'SMO351G0010' => 'smo', 'SMO356G0404' => 'smo', 'Solyc01g103920.3' => 'sly', 'Solyc04g009710.2' => 'sly', 'Solyc05g055280.2' => 'sly', 'Solyc10g044520.3' => 'sly', 'Solyc10g075160.1' => 'sly', 'Solyc11g006910.3' => 'sly', 'Solyc11g068430.3' => 'sly', 'Sopen01g046310' => 'spe', 'Sopen03g001200' => 'spe', 'Sopen04g004830' => 'spe', 'Sopen05g033720' => 'spe', 'Sopen06g030740' => 'spe', 'Sopen10g013090' => 'spe', 'Sopen10g027630' => 'spe', 'Sopen10g027640' => 'spe', 'Sopen11g002820' => 'spe', 'Sopen11g027140' => 'spe', 'Sp1g09680' => 'spa', 'Sp2g03630' => 'spa', 'Sp4g10320' => 'spa', 'Sp6g33400' => 'spa', 'Sp7g13030' => 'spa', 'TAR365G0317' => 'tar', 'TAR376G0979' => 'tar', 'TAR623G1665' => 'tar', 'TAR633G2373' => 'tar', 'TAR636G1400' => 'tar', 'THA.LOC104800529' => 'tha', 'THA.LOC104808547' => 'tha', 'THA.LOC104809615' => 'tha', 'THA.LOC104815724' => 'tha', 'THA.LOC104818480' => 'tha', 'THA.LOC104819179' => 'tha', 'THA.LOC104822270' => 'tha', 'THA.LOC104826425' => 'tha', 'Thecc.02G089700' => 'tca', 'Thecc.04G232300' => 'tca', 'Thecc.09G283400' => 'tca', 'Thhalv10009020m.g' => 'esa', 'Thhalv10015506m.g' => 'esa', 'Thhalv10017364m.g' => 'esa', 'Thhalv10023742m.g' => 'esa', 'Thhalv10026483m.g' => 'esa', 'TPR.G17232' => 'tpr', 'TPR.G2133' => 'tpr', 'TPR.G2498' => 'tpr', 'TPR.G31942' => 'tpr', 'TPR.G37877' => 'tpr', 'TPR.G4571' => 'tpr', 'TWI14G1113' => 'twi', 'TWI15G0426' => 'twi', 'TWI31G1005' => 'twi', 'TWI38G0513' => 'twi', 'TWI38G1484' => 'twi', 'TWI73G1098' => 'twi', 'unitig_26.g10519' => 'ugi', 'unitig_736.g22395' => 'ugi', 'unitig_747.g21234' => 'ugi', 'unitig_747.g21942' => 'ugi', 'vmacro14351' => 'vma', 'VMungo0540G0082' => 'vmu', 'VMungo0540G0405' => 'vmu', 'VMungo0540G1486' => 'vmu', 'VMungo0540G1692' => 'vmu', 'VMungo0720G2473' => 'vmu', 'VMungo1127G1562' => 'vmu', 'VMungo1215G1918' => 'vmu', 'Zm00001eb052650' => 'zma', 'Zm00001eb063710' => 'zma', 'Zm00001eb083950' => 'zma', 'Zm00001eb174420' => 'zma', 'Zm00001eb260140' => 'zma', 'Zm00001eb260150' => 'zma', 'Zm00001eb260160' => 'zma', 'Zm00001eb348290' => 'zma', 'Zm00001eb366870' => 'zma', 'Zm00001eb421930' => 'zma' ), 'gf_id' => 'HOM05D001025', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001025' ), 'data_identifier' => 'HOM05D001025', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001025', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '592', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p22650' => 'bna', 'A01p29720' => 'bna', 'A03p26560' => 'bna', 'A03p68820' => 'bna', 'A04p20980' => 'bna', 'A06p07730' => 'bna', 'A07p18260' => 'bna', 'A08p33710' => 'bna', 'A09p16970' => 'bna', 'A10p27490' => 'bna', 'Aa31LG1G17300' => 'aar', 'Aa31LG1G3910' => 'aar', 'Aa31LG2G9630' => 'aar', 'Aa31LG5G8360' => 'aar', 'Aa31LG9G2410' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4699' => 'aag', 'Actinidia23512' => 'ach', 'Actinidia37080' => 'ach', 'Ah.01g020380' => 'amhyb', 'Ah.08g215710' => 'amhyb', 'Ah.09g225110' => 'amhyb', 'Ah.10g036680' => 'amhyb', 'AL1G21940' => 'aly', 'AL2G15540' => 'aly', 'AL4G21520' => 'aly', 'AL7G40960' => 'aly', 'Aqoxy2G01191' => 'aox', 'Aqoxy2G03393' => 'aox', 'Aqoxy4G02775' => 'aox', 'Aqoxy6G00058' => 'aox', 'arahy.Tifrunner.gnm1.ann1.9X74H2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CW3FX9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R485W7' => 'arhy', 'AT1G10960' => 'ath', 'AT1G60950' => 'ath', 'AT2G27510' => 'ath', 'AT4G14890' => 'ath', 'AT5G10000' => 'ath', 'ATR0665G624' => 'atr', 'ATR0697G138' => 'atr', 'ATR0776G046' => 'atr', 'ATR1134G135' => 'atr', 'Atru.chr12.1025' => 'acertr', 'Atru.chr3.3241' => 'acertr', 'Atru.chr4.2460' => 'acertr', 'AUR62007427' => 'cqu', 'AUR62010960' => 'cqu', 'AUR62012201' => 'cqu', 'AUR62021470' => 'cqu', 'AUR62022834' => 'cqu', 'AUR62033635' => 'cqu', 'AUR62036186' => 'cqu', 'BcaB01g03077' => 'bca', 'BcaB02g10093' => 'bca', 'BcaB04g20295' => 'bca', 'BcaB06g28147' => 'bca', 'BcaB07g31253' => 'bca', 'BcaC01g04946' => 'bca', 'BcaC02g10614' => 'bca', 'BcaC02g10885' => 'bca', 'BcaC04g19356' => 'bca', 'BcaC04g22297' => 'bca', 'BcaC05g24977' => 'bca', 'BcaC06g31823' => 'bca', 'BcaC07g38633' => 'bca', 'BcaC09g49353' => 'bca', 'BcaC09g50168' => 'bca', 'BcaNung00322' => 'bca', 'BcaNung04769' => 'bca', 'BolC1t02753H' => 'bol', 'BolC1t03721H' => 'bol', 'BolC3t15525H' => 'bol', 'BolC4t23903H' => 'bol', 'BolC4t24231H' => 'bol', 'BolC4t27209H' => 'bol', 'BolC5t29671H' => 'bol', 'BolC8t49044H' => 'bol', 'BolC9t54999H' => 'bol', 'BolC9t59517H' => 'bol', 'BraA01t02178Z' => 'bra', 'BraA01t03099Z' => 'bra', 'BraA03t11867Z' => 'bra', 'BraA04t17667Z' => 'bra', 'BraA07t29542Z' => 'bra', 'BraA08t35287Z' => 'bra', 'BraA09t37334Z' => 'bra', 'BraA10t44801Z' => 'bra', 'BraSC39t46181Z' => 'bra', 'C01p28240' => 'bna', 'C01p37530' => 'bna', 'C03p31820' => 'bna', 'C04p24080' => 'bna', 'C04p25790' => 'bna', 'C04p56770' => 'bna', 'C05p09310' => 'bna', 'C09p21010' => 'bna', 'C09p67560' => 'bna', 'CAN.G1324.7' => 'can', 'CAN.G1358.10' => 'can', 'CAN.G1550.2' => 'can', 'CAN.G186.56' => 'can', 'CAN.G1965.1' => 'can', 'CAN.G645.15' => 'can', 'CAN.G798.26' => 'can', 'CAN.G798.27' => 'can', 'CAN.G798.29' => 'can', 'CAN.G919.31' => 'can', 'CANSAT11G0133' => 'cansat', 'CANSAT11G1171' => 'cansat', 'CANSAT11G2056' => 'cansat', 'CANSAT56G1202' => 'cansat', 'CANSAT56G1514' => 'cansat', 'CANSAT78G0455' => 'cansat', 'CARHR011190' => 'chi', 'CARHR051980' => 'chi', 'CARHR120170' => 'chi', 'CARHR203310' => 'chi', 'CARHR221490' => 'chi', 'Carub.0001s1054' => 'cru', 'Carub.0002s0431' => 'cru', 'Carub.0004s0818' => 'cru', 'Carub.0006s0846' => 'cru', 'Carub.0007s2722' => 'cru', 'Ca_00058_v3' => 'car', 'Ca_17831_v3' => 'car', 'Ca_19408_v3' => 'car', 'Ca_24397_v3' => 'car', 'Ca_25664_v3' => 'car', 'CBR_g21818' => 'cbr', 'CBR_g31195' => 'cbr', 'CBR_g32282' => 'cbr', 'CBR_g39599' => 'cbr', 'CBR_g49410' => 'cbr', 'Cc01_g09120' => 'ccan', 'Cc01_g09130' => 'ccan', 'Cc02_g09630' => 'ccan', 'Cc02_g22810' => 'ccan', 'Cc03_g03810' => 'ccan', 'CDE02G3718' => 'cde', 'CDE04G3183' => 'cde', 'CDE07G1046' => 'cde', 'CDE08G0480' => 'cde', 'Cfa005493' => 'cfa', 'Cfa010312' => 'cfa', 'Cfa015648' => 'cfa', 'Ciclev10002793m.g' => 'ccl', 'Ciclev10003356m.g' => 'ccl', 'Ciclev10006141m.g' => 'ccl', 'Ciclev10016676m.g' => 'ccl', 'Ciclev10017081m.g' => 'ccl', 'Ciclev10029499m.g' => 'ccl', 'CiPaw.01G166300' => 'cil', 'CiPaw.06G145600' => 'cil', 'CiPaw.13G040100' => 'cil', 'CiPaw.13G135800' => 'cil', 'ClCG01G012230' => 'cla', 'ClCG05G009510' => 'cla', 'ClCG08G008270' => 'cla', 'COL.COLO4_11763' => 'col', 'COL.COLO4_19876' => 'col', 'COL.COLO4_21481' => 'col', 'Cpa.g.sc118.34' => 'cpa', 'Cpa.g.sc32.13' => 'cpa', 'Cpa.g.sc58.103' => 'cpa', 'Cre03.g183850' => 'cre', 'Cre06.g306350' => 'cre', 'Cre07.g334800' => 'cre', 'Cre12.g487900' => 'cre', 'Cre14.g626700' => 'cre', 'Cre16.g658400' => 'cre', 'Cre17.g700950' => 'cre', 'CsaV3_1G014830' => 'csa', 'CsaV3_3G013320' => 'csa', 'CsaV3_3G019210' => 'csa', 'CsaV3_3G019220' => 'csa', 'CsaV3_6G004230' => 'csa', 'CSS0003773' => 'camsi', 'CSS0004563' => 'camsi', 'CSS0013949' => 'camsi', 'CSS0025971' => 'camsi', 'CSS0028570' => 'camsi', 'CSS0033127' => 'camsi', 'CSS0036051' => 'camsi', 'CSS0040087' => 'camsi', 'CSS0043179' => 'camsi', 'DCAR_006161' => 'dca', 'DCAR_010351' => 'dca', 'DCAR_012197' => 'dca', 'DCAR_024162' => 'dca', 'Dinv01030' => 'din', 'Dinv10924' => 'din', 'Dinv11835' => 'din', 'Dinv22841' => 'din', 'Dinv42553' => 'din', 'Duzib052G0560' => 'dzi', 'Duzib132G0389' => 'dzi', 'Duzib150G1181' => 'dzi', 'Duzib168G0623' => 'dzi', 'Duzib170G1036' => 'dzi', 'Duzib212G0200' => 'dzi', 'Duzib248G0194' => 'dzi', 'ECA232G2193' => 'eca', 'ECA233G0302' => 'eca', 'ECA234G2813' => 'eca', 'ECA234G4866' => 'eca', 'ECA240G3932' => 'eca', 'ECA248G0385' => 'eca', 'EL10Ac2g04781' => 'bvu', 'EL10Ac3g06445' => 'bvu', 'EL10Ac7g15825' => 'bvu', 'EL10Ac8g18550' => 'bvu', 'Eucgr.B03849' => 'egr', 'Eucgr.I02744' => 'egr', 'Eucgr.J00264' => 'egr', 'Eucgr.J00493' => 'egr', 'FAN04G2181' => 'fan', 'FAN07G2666' => 'fan', 'FAN11G0024' => 'fan', 'FAN12G1105' => 'fan', 'FAN13G0302' => 'fan', 'FAN15G2781' => 'fan', 'FAN16G1274' => 'fan', 'FAN17G2988' => 'fan', 'FAN18G2621' => 'fan', 'FAN21G0013' => 'fan', 'FAN22G1211' => 'fan', 'FAN25G3626' => 'fan', 'FvH4_2g09491' => 'fve', 'FvH4_3g24910' => 'fve', 'FvH4_4g15630' => 'fve', 'FvH4_5g28820' => 'fve', 'Glyma.01G238000' => 'gma', 'Glyma.05G168400' => 'gma', 'Glyma.08G126800' => 'gma', 'Glyma.08G188500' => 'gma', 'Glyma.10G278900' => 'gma', 'Glyma.11G005700' => 'gma', 'Glyma.11G183300' => 'gma', 'Glyma.12G089200' => 'gma', 'Glyma.12G169400' => 'gma', 'Glyma.12G169500' => 'gma', 'Glyma.12G169600' => 'gma', 'Glyma.20G110800' => 'gma', 'Gohir.A03G192900' => 'ghi', 'Gohir.A03G193000' => 'ghi', 'Gohir.A05G080700' => 'ghi', 'Gohir.A09G216000' => 'ghi', 'Gohir.A12G027700' => 'ghi', 'Gohir.A13G036200' => 'ghi', 'Gohir.A13G222600' => 'ghi', 'Gohir.D02G213900' => 'ghi', 'Gohir.D02G214000' => 'ghi', 'Gohir.D05G083700' => 'ghi', 'Gohir.D05G083800' => 'ghi', 'Gohir.D05G083850' => 'ghi', 'Gohir.D08G015400' => 'ghi', 'Gohir.D09G218400' => 'ghi', 'Gohir.D12G027100' => 'ghi', 'Gohir.D13G034500' => 'ghi', 'Gohir.D13G227400' => 'ghi', 'Gorai.005G241800' => 'gra', 'Gorai.005G241900' => 'gra', 'Gorai.006G239400' => 'gra', 'Gorai.008G027600' => 'gra', 'Gorai.009G085400' => 'gra', 'Gorai.009G085500' => 'gra', 'Gorai.013G039000' => 'gra', 'Gorai.013G194800' => 'gra', 'Gorai.013G257900' => 'gra', 'GSVIVG01000982001' => 'vvi', 'GSVIVG01017981001' => 'vvi', 'HanXRQChr01g0024061' => 'han', 'HanXRQChr09g0247831' => 'han', 'HanXRQChr10g0294611' => 'han', 'HanXRQChr10g0294621' => 'han', 'HanXRQChr11g0346821' => 'han', 'HanXRQChr13g0397461' => 'han', 'HanXRQChr16g0513651' => 'han', 'HanXRQChr16g0513701' => 'han', 'Haze_00897' => 'cav', 'Haze_01745' => 'cav', 'Haze_02486' => 'cav', 'Haze_02487' => 'cav', 'Haze_23374' => 'cav', 'Hma1.2p1_0578F.1_g182520' => 'hma', 'Hma1.2p1_0602F.1_g187350' => 'hma', 'Hma1.2p1_0602F.1_g187360' => 'hma', 'Hma1.2p1_0874F.1_g231320' => 'hma', 'Hma1.2p1_1197F.1_g266210' => 'hma', 'Hma1.2p1_1197F.1_g266220' => 'hma', 'Hma1.2p1_2167F.1_g315895' => 'hma', 'Hma1.2p1_2190F.1_g316640' => 'hma', 'Hma1.2p1_3645F.1_g337153' => 'hma', 'HPP92_004907' => 'vpl', 'HPP92_012134' => 'vpl', 'HPP92_025136' => 'vpl', 'HPP92_026087' => 'vpl', 'Hund06782' => 'sun', 'Hund06784' => 'sun', 'Lalb_Chr01g0004861' => 'lal', 'Lalb_Chr02g0140591' => 'lal', 'Lalb_Chr02g0140611' => 'lal', 'Lalb_Chr03g0028101' => 'lal', 'Lalb_Chr07g0185791' => 'lal', 'Lalb_Chr12g0204491' => 'lal', 'Lalb_Chr13g0295671' => 'lal', 'Lalb_Chr19g0136461' => 'lal', 'Lalb_Chr21g0309191' => 'lal', 'Lj1g0028158' => 'lja', 'Lj1P236T38' => 'lonja', 'Lj2C32G2' => 'lonja', 'Lj2P944T8' => 'lonja', 'Lj2P963T15' => 'lonja', 'Lj3g0011788' => 'lja', 'Lj4g0025027' => 'lja', 'Lj5P255T36' => 'lonja', 'Lj6g0018866' => 'lja', 'Lj6P608T31' => 'lonja', 'LjContig00408g0008879' => 'lja', 'Lsat_1_v5_gn_5_105820' => 'lsa', 'Lsat_1_v5_gn_6_38800' => 'lsa', 'Lsat_1_v5_gn_7_67141' => 'lsa', 'Manes.04G003400' => 'mes', 'Manes.07G020000' => 'mes', 'Manes.07G020100' => 'mes', 'Manes.07G020150' => 'mes', 'Manes.10G061500' => 'mes', 'Manes.10G123200' => 'mes', 'Manes.11G161900' => 'mes', 'Manes.15G029300' => 'mes', 'Mapoly0071s0018' => 'mpo', 'Mapoly0082s0023' => 'mpo', 'Mapoly3477s0001' => 'mpo', 'MBI05_g31233_MAGBIO' => 'mbi', 'MBI09_g05946_MAGBIO' => 'mbi', 'MBI09_g05947_MAGBIO' => 'mbi', 'MBI17_g08346_MAGBIO' => 'mbi', 'MCO04G038' => 'mco', 'MCO09G370' => 'mco', 'MCO13G605' => 'mco', 'MD00G1075500' => 'mdo', 'MD03G1144300' => 'mdo', 'MD08G1236800' => 'mdo', 'MD13G1193300' => 'mdo', 'MD15G1428700' => 'mdo', 'Medtr1g112030' => 'mtr', 'Medtr1g112050' => 'mtr', 'Medtr2g006290' => 'mtr', 'Medtr2g086510' => 'mtr', 'Medtr4g053120' => 'mtr', 'Medtr5g006320' => 'mtr', 'Medtr8g088720' => 'mtr', 'MELO3C004712.2' => 'cme', 'MELO3C006533.2' => 'cme', 'MELO3C019438.2' => 'cme', 'MELO3C019440.2' => 'cme', 'MELO3C019441.2' => 'cme', 'MELO3C019895.2' => 'cme', 'Migut.B00811' => 'egut', 'Migut.D02447' => 'egut', 'Migut.F00875' => 'egut', 'Migut.N00186' => 'egut', 'Migut.N01051' => 'egut', 'Migut.N02491' => 'egut', 'Migut.O00784' => 'egut', 'MSTRG.12367' => 'ama', 'MSTRG.18756' => 'ama', 'MSTRG.21042' => 'ama', 'Nitab4.5_0000559g0040' => 'nta', 'Nitab4.5_0000667g0190' => 'nta', 'Nitab4.5_0000755g0160' => 'nta', 'Nitab4.5_0001216g0080' => 'nta', 'Nitab4.5_0004069g0040' => 'nta', 'Nitab4.5_0004129g0010' => 'nta', 'Nitab4.5_0005744g0030' => 'nta', 'Nitab4.5_0006996g0030' => 'nta', 'Nitab4.5_0008971g0040' => 'nta', 'Nitab4.5_0009769g0020' => 'nta', 'Nitab4.5_0009833g0010' => 'nta', 'Nitab4.5_0013140g0020' => 'nta', 'Nn003s41376' => 'nnu', 'Nn1g01857' => 'nnu', 'Nn1g03611' => 'nnu', 'Nn1g06853' => 'nnu', 'Nn3g18360' => 'nnu', 'Nn4g26328' => 'nnu', 'Nn5g27531' => 'nnu', 'Nn6g34899' => 'nnu', 'Nn7g36299' => 'nnu', 'Oeu021485.1' => 'oeu', 'Oeu022433.1' => 'oeu', 'Oeu032111.1' => 'oeu', 'Oeu051608.1' => 'oeu', 'Os01g0860601' => 'osa', 'Os03g0659200' => 'osa', 'Os03g0835900' => 'osa', 'Os04g0412200' => 'osa', 'Os05g0443500' => 'osa', 'Os07g0251500' => 'osa', 'Os08g0104600' => 'osa', 'Peaxi162Scf00003g00047' => 'pax', 'Peaxi162Scf00003g00052' => 'pax', 'Peaxi162Scf00003g00394' => 'pax', 'Peaxi162Scf00091g00621' => 'pax', 'Peaxi162Scf00152g00146' => 'pax', 'Peaxi162Scf00173g00025' => 'pax', 'Peaxi162Scf00195g00102' => 'pax', 'Peaxi162Scf00402g00013' => 'pax', 'Peaxi162Scf00519g00618' => 'pax', 'PGR004G2838' => 'pgr', 'PGR044G2275' => 'pgr', 'PGR102G1377' => 'pgr', 'PGR119G1245' => 'pgr', 'PGR142G4449' => 'pgr', 'PGSC0003DMG400004532' => 'stu', 'PGSC0003DMG400011950' => 'stu', 'PGSC0003DMG400023391' => 'stu', 'PGSC0003DMG400023985' => 'stu', 'PGSC0003DMG400026360' => 'stu', 'PGSC0003DMG400035711' => 'stu', 'PGSC0003DMG400037286' => 'stu', 'PGSC0003DMG402005881' => 'stu', 'Phvul.002G045400' => 'pvu', 'Phvul.006G216600' => 'pvu', 'Phvul.006G216700' => 'pvu', 'Phvul.006G216800' => 'pvu', 'Phvul.007G022500' => 'pvu', 'Phvul.011G094400' => 'pvu', 'Potri.001G470700' => 'ptr', 'Potri.003G015200' => 'ptr', 'Potri.004G202500' => 'ptr', 'Potri.004G218400' => 'ptr', 'Potri.008G020100' => 'ptr', 'Potri.008G153200' => 'ptr', 'Potri.009G163800' => 'ptr', 'Potri.010G087300' => 'ptr', 'Potri.010G239100' => 'ptr', 'Pp3c10_16100' => 'ppa', 'Pp3c10_16880' => 'ppa', 'Pp3c16_6230' => 'ppa', 'Pp3c17_18910' => 'ppa', 'Pp3c3_22119' => 'ppa', 'Pp3c3_22140' => 'ppa', 'Pp3c4_8159' => 'ppa', 'Pp3c4_8171' => 'ppa', 'Pp3c4_8330' => 'ppa', 'PRCOL_00004098' => 'pco', 'Prupe.1G013900' => 'ppe', 'Prupe.1G226300' => 'ppe', 'Prupe.1G573600' => 'ppe', 'Prupe.6G130100' => 'ppe', 'Psat3g090040' => 'psa', 'Psat4g210440' => 'psa', 'Psat6g231040' => 'psa', 'Psat6g231080' => 'psa', 'Psat7g063000' => 'psa', 'Psat7g188000' => 'psa', 'Psat7g188040' => 'psa', 'PSO017G0206' => 'pso', 'PSO170G0501' => 'pso', 'PSO170G6422' => 'pso', 'PSO210G7739' => 'pso', 'PSO339G1808' => 'pso', 'PSO339G6135' => 'pso', 'PSO384G0010' => 'pso', 'PSO384G0964' => 'pso', 'PSO761G0050' => 'pso', 'PSO782G4085' => 'pso', 'QL01p012264' => 'qlo', 'QL02p099491' => 'qlo', 'QL03p033868' => 'qlo', 'QL04p046678' => 'qlo', 'QL06p002448' => 'qlo', 'RcHm_v2.0_Chr4g0416181' => 'rch', 'RcHm_v2.0_Chr5g0044701' => 'rch', 'RcHm_v2.0_Chr6g0265781' => 'rch', 'RcHm_v2.0_Chr7g0221031' => 'rch', 'Rhsim04G0202000' => 'rsi', 'Rhsim11G0127300' => 'rsi', 'Rhsim13G0111800' => 'rsi', 'Sabra01G0165600' => 'sbr', 'Sabra03G0008300' => 'sbr', 'Sabra04G0136900' => 'sbr', 'Sabra08G0013400' => 'sbr', 'Sabra08G0116800' => 'sbr', 'Sabra09G0128000' => 'sbr', 'Sabra10G0055500' => 'sbr', 'Sabra10G0073300' => 'sbr', 'SalBow3G0385' => 'sbo', 'SalBow3G1119' => 'sbo', 'SalBow3G2005' => 'sbo', 'SalBow6G2563' => 'sbo', 'SalBow6G6386' => 'sbo', 'Sc06g0008800' => 'sci', 'Sc07g0004950' => 'sci', 'Sc09g0005340' => 'sci', 'Sc13g0004410' => 'sci', 'Sc21g0007090' => 'sci', 'Sed0009285' => 'sed', 'Sed0017583' => 'sed', 'Sed0019699' => 'sed', 'Sed0023107' => 'sed', 'SEGI_10916' => 'sgi', 'SEGI_16217' => 'sgi', 'SEGI_19466' => 'sgi', 'SEGI_41115' => 'sgi', 'SGA_v2.0_scaffold111G31534' => 'sas', 'SGA_v2.0_scaffold22G09864' => 'sas', 'SGA_v2.0_scaffold338G49219' => 'sas', 'SGA_v2.0_scaffold92G28298' => 'sas', 'SMO119G0064' => 'smo', 'SMO223G0038' => 'smo', 'SMO347G0584' => 'smo', 'SMO351G0010' => 'smo', 'SMO356G0404' => 'smo', 'Solyc01g103920.3' => 'sly', 'Solyc04g009710.2' => 'sly', 'Solyc05g055280.2' => 'sly', 'Solyc10g044520.3' => 'sly', 'Solyc10g075160.1' => 'sly', 'Solyc11g006910.3' => 'sly', 'Solyc11g068430.3' => 'sly', 'Sopen01g046310' => 'spe', 'Sopen03g001200' => 'spe', 'Sopen04g004830' => 'spe', 'Sopen05g033720' => 'spe', 'Sopen06g030740' => 'spe', 'Sopen10g013090' => 'spe', 'Sopen10g027630' => 'spe', 'Sopen10g027640' => 'spe', 'Sopen11g002820' => 'spe', 'Sopen11g027140' => 'spe', 'Sp1g09680' => 'spa', 'Sp2g03630' => 'spa', 'Sp4g10320' => 'spa', 'Sp6g33400' => 'spa', 'Sp7g13030' => 'spa', 'TAR365G0317' => 'tar', 'TAR376G0979' => 'tar', 'TAR623G1665' => 'tar', 'TAR633G2373' => 'tar', 'TAR636G1400' => 'tar', 'THA.LOC104800529' => 'tha', 'THA.LOC104808547' => 'tha', 'THA.LOC104809615' => 'tha', 'THA.LOC104815724' => 'tha', 'THA.LOC104818480' => 'tha', 'THA.LOC104819179' => 'tha', 'THA.LOC104822270' => 'tha', 'THA.LOC104826425' => 'tha', 'Thecc.02G089700' => 'tca', 'Thecc.04G232300' => 'tca', 'Thecc.09G283400' => 'tca', 'Thhalv10009020m.g' => 'esa', 'Thhalv10015506m.g' => 'esa', 'Thhalv10017364m.g' => 'esa', 'Thhalv10023742m.g' => 'esa', 'Thhalv10026483m.g' => 'esa', 'TPR.G17232' => 'tpr', 'TPR.G2133' => 'tpr', 'TPR.G2498' => 'tpr', 'TPR.G31942' => 'tpr', 'TPR.G37877' => 'tpr', 'TPR.G4571' => 'tpr', 'TWI14G1113' => 'twi', 'TWI15G0426' => 'twi', 'TWI31G1005' => 'twi', 'TWI38G0513' => 'twi', 'TWI38G1484' => 'twi', 'TWI73G1098' => 'twi', 'unitig_26.g10519' => 'ugi', 'unitig_736.g22395' => 'ugi', 'unitig_747.g21234' => 'ugi', 'unitig_747.g21942' => 'ugi', 'vmacro14351' => 'vma', 'VMungo0540G0082' => 'vmu', 'VMungo0540G0405' => 'vmu', 'VMungo0540G1486' => 'vmu', 'VMungo0540G1692' => 'vmu', 'VMungo0720G2473' => 'vmu', 'VMungo1127G1562' => 'vmu', 'VMungo1215G1918' => 'vmu', 'Zm00001eb052650' => 'zma', 'Zm00001eb063710' => 'zma', 'Zm00001eb083950' => 'zma', 'Zm00001eb174420' => 'zma', 'Zm00001eb260140' => 'zma', 'Zm00001eb260150' => 'zma', 'Zm00001eb260160' => 'zma', 'Zm00001eb348290' => 'zma', 'Zm00001eb366870' => 'zma', 'Zm00001eb421930' => 'zma' ) $gf_id = 'HOM05D001025' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001025' ) $data_identifier = 'HOM05D001025' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 19, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 2, 'amhyb' => (int) 4, 'aly' => (int) 4, 'aox' => (int) 4, 'arhy' => (int) 3, 'ath' => (int) 5, 'atr' => (int) 4, 'acertr' => (int) 3, 'cqu' => (int) 7, 'bca' => (int) 17, 'bol' => (int) 10, 'bra' => (int) 9, 'can' => (int) 10, 'cansat' => (int) 6, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 5, 'cbr' => (int) 5, 'ccan' => (int) 5, 'cde' => (int) 4, 'cfa' => (int) 3, 'ccl' => (int) 6, 'cil' => (int) 4, 'cla' => (int) 3, 'col' => (int) 3, 'cpa' => (int) 3, 'cre' => (int) 7, 'csa' => (int) 5, 'camsi' => (int) 9, 'dca' => (int) 4, 'din' => (int) 5, 'dzi' => (int) 7, 'eca' => (int) 6, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 12, 'fve' => (int) 4, 'gma' => (int) 12, 'ghi' => (int) 17, 'gra' => (int) 9, 'vvi' => (int) 2, 'han' => (int) 8, 'cav' => (int) 5, 'hma' => (int) 9, 'vpl' => (int) 4, 'sun' => (int) 2, 'lal' => (int) 9, 'lja' => (int) 5, 'lonja' => (int) 6, 'lsa' => (int) 3, 'mes' => (int) 8, 'mpo' => (int) 3, 'mbi' => (int) 4, 'mco' => (int) 3, 'mdo' => (int) 5, 'mtr' => (int) 7, 'cme' => (int) 6, 'egut' => (int) 7, 'ama' => (int) 3, 'nta' => (int) 12, 'nnu' => (int) 9, 'oeu' => (int) 4, 'osa' => (int) 7, 'pax' => (int) 9, 'pgr' => (int) 5, 'stu' => (int) 8, 'pvu' => (int) 6, 'ptr' => (int) 9, 'ppa' => (int) 9, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 7, 'pso' => (int) 10, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 3, 'sbr' => (int) 8, 'sbo' => (int) 5, 'sci' => (int) 5, 'sed' => (int) 4, 'sgi' => (int) 4, 'sas' => (int) 4, 'smo' => (int) 5, 'sly' => (int) 7, 'spe' => (int) 10, 'spa' => (int) 5, 'tar' => (int) 5, 'tha' => (int) 8, 'tca' => (int) 3, 'esa' => (int) 5, 'tpr' => (int) 6, 'twi' => (int) 6, 'ugi' => (int) 4, 'vma' => (int) 1, 'vmu' => (int) 7, 'zma' => (int) 10 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb421930' $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' => 'HOM05D001025', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '592', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p22650' => 'bna', 'A01p29720' => 'bna', 'A03p26560' => 'bna', 'A03p68820' => 'bna', 'A04p20980' => 'bna', 'A06p07730' => 'bna', 'A07p18260' => 'bna', 'A08p33710' => 'bna', 'A09p16970' => 'bna', 'A10p27490' => 'bna', 'Aa31LG1G17300' => 'aar', 'Aa31LG1G3910' => 'aar', 'Aa31LG2G9630' => 'aar', 'Aa31LG5G8360' => 'aar', 'Aa31LG9G2410' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4699' => 'aag', 'Actinidia23512' => 'ach', 'Actinidia37080' => 'ach', 'Ah.01g020380' => 'amhyb', 'Ah.08g215710' => 'amhyb', 'Ah.09g225110' => 'amhyb', 'Ah.10g036680' => 'amhyb', 'AL1G21940' => 'aly', 'AL2G15540' => 'aly', 'AL4G21520' => 'aly', 'AL7G40960' => 'aly', 'Aqoxy2G01191' => 'aox', 'Aqoxy2G03393' => 'aox', 'Aqoxy4G02775' => 'aox', 'Aqoxy6G00058' => 'aox', 'arahy.Tifrunner.gnm1.ann1.9X74H2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CW3FX9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R485W7' => 'arhy', 'AT1G10960' => 'ath', 'AT1G60950' => 'ath', 'AT2G27510' => 'ath', 'AT4G14890' => 'ath', 'AT5G10000' => 'ath', 'ATR0665G624' => 'atr', 'ATR0697G138' => 'atr', 'ATR0776G046' => 'atr', 'ATR1134G135' => 'atr', 'Atru.chr12.1025' => 'acertr', 'Atru.chr3.3241' => 'acertr', 'Atru.chr4.2460' => 'acertr', 'AUR62007427' => 'cqu', 'AUR62010960' => 'cqu', 'AUR62012201' => 'cqu', 'AUR62021470' => 'cqu', 'AUR62022834' => 'cqu', 'AUR62033635' => 'cqu', 'AUR62036186' => 'cqu', 'BcaB01g03077' => 'bca', 'BcaB02g10093' => 'bca', 'BcaB04g20295' => 'bca', 'BcaB06g28147' => 'bca', 'BcaB07g31253' => 'bca', 'BcaC01g04946' => 'bca', 'BcaC02g10614' => 'bca', 'BcaC02g10885' => 'bca', 'BcaC04g19356' => 'bca', 'BcaC04g22297' => 'bca', 'BcaC05g24977' => 'bca', 'BcaC06g31823' => 'bca', 'BcaC07g38633' => 'bca', 'BcaC09g49353' => 'bca', 'BcaC09g50168' => 'bca', 'BcaNung00322' => 'bca', 'BcaNung04769' => 'bca', 'BolC1t02753H' => 'bol', 'BolC1t03721H' => 'bol', 'BolC3t15525H' => 'bol', 'BolC4t23903H' => 'bol', 'BolC4t24231H' => 'bol', 'BolC4t27209H' => 'bol', 'BolC5t29671H' => 'bol', 'BolC8t49044H' => 'bol', 'BolC9t54999H' => 'bol', 'BolC9t59517H' => 'bol', 'BraA01t02178Z' => 'bra', 'BraA01t03099Z' => 'bra', 'BraA03t11867Z' => 'bra', 'BraA04t17667Z' => 'bra', 'BraA07t29542Z' => 'bra', 'BraA08t35287Z' => 'bra', 'BraA09t37334Z' => 'bra', 'BraA10t44801Z' => 'bra', 'BraSC39t46181Z' => 'bra', 'C01p28240' => 'bna', 'C01p37530' => 'bna', 'C03p31820' => 'bna', 'C04p24080' => 'bna', 'C04p25790' => 'bna', 'C04p56770' => 'bna', 'C05p09310' => 'bna', 'C09p21010' => 'bna', 'C09p67560' => 'bna', 'CAN.G1324.7' => 'can', 'CAN.G1358.10' => 'can', 'CAN.G1550.2' => 'can', 'CAN.G186.56' => 'can', 'CAN.G1965.1' => 'can', 'CAN.G645.15' => 'can', 'CAN.G798.26' => 'can', 'CAN.G798.27' => 'can', 'CAN.G798.29' => 'can', 'CAN.G919.31' => 'can', 'CANSAT11G0133' => 'cansat', 'CANSAT11G1171' => 'cansat', 'CANSAT11G2056' => 'cansat', 'CANSAT56G1202' => 'cansat', 'CANSAT56G1514' => 'cansat', 'CANSAT78G0455' => 'cansat', 'CARHR011190' => 'chi', 'CARHR051980' => 'chi', 'CARHR120170' => 'chi', 'CARHR203310' => 'chi', 'CARHR221490' => 'chi', 'Carub.0001s1054' => 'cru', 'Carub.0002s0431' => 'cru', 'Carub.0004s0818' => 'cru', 'Carub.0006s0846' => 'cru', 'Carub.0007s2722' => 'cru', 'Ca_00058_v3' => 'car', 'Ca_17831_v3' => 'car', 'Ca_19408_v3' => 'car', 'Ca_24397_v3' => 'car', 'Ca_25664_v3' => 'car', 'CBR_g21818' => 'cbr', 'CBR_g31195' => 'cbr', 'CBR_g32282' => 'cbr', 'CBR_g39599' => 'cbr', 'CBR_g49410' => 'cbr', 'Cc01_g09120' => 'ccan', 'Cc01_g09130' => 'ccan', 'Cc02_g09630' => 'ccan', 'Cc02_g22810' => 'ccan', 'Cc03_g03810' => 'ccan', 'CDE02G3718' => 'cde', 'CDE04G3183' => 'cde', 'CDE07G1046' => 'cde', 'CDE08G0480' => 'cde', 'Cfa005493' => 'cfa', 'Cfa010312' => 'cfa', 'Cfa015648' => 'cfa', 'Ciclev10002793m.g' => 'ccl', 'Ciclev10003356m.g' => 'ccl', 'Ciclev10006141m.g' => 'ccl', 'Ciclev10016676m.g' => 'ccl', 'Ciclev10017081m.g' => 'ccl', 'Ciclev10029499m.g' => 'ccl', 'CiPaw.01G166300' => 'cil', 'CiPaw.06G145600' => 'cil', 'CiPaw.13G040100' => 'cil', 'CiPaw.13G135800' => 'cil', 'ClCG01G012230' => 'cla', 'ClCG05G009510' => 'cla', 'ClCG08G008270' => 'cla', 'COL.COLO4_11763' => 'col', 'COL.COLO4_19876' => 'col', 'COL.COLO4_21481' => 'col', 'Cpa.g.sc118.34' => 'cpa', 'Cpa.g.sc32.13' => 'cpa', 'Cpa.g.sc58.103' => 'cpa', 'Cre03.g183850' => 'cre', 'Cre06.g306350' => 'cre', 'Cre07.g334800' => 'cre', 'Cre12.g487900' => 'cre', 'Cre14.g626700' => 'cre', 'Cre16.g658400' => 'cre', 'Cre17.g700950' => 'cre', 'CsaV3_1G014830' => 'csa', 'CsaV3_3G013320' => 'csa', 'CsaV3_3G019210' => 'csa', 'CsaV3_3G019220' => 'csa', 'CsaV3_6G004230' => 'csa', 'CSS0003773' => 'camsi', 'CSS0004563' => 'camsi', 'CSS0013949' => 'camsi', 'CSS0025971' => 'camsi', 'CSS0028570' => 'camsi', 'CSS0033127' => 'camsi', 'CSS0036051' => 'camsi', 'CSS0040087' => 'camsi', 'CSS0043179' => 'camsi', 'DCAR_006161' => 'dca', 'DCAR_010351' => 'dca', 'DCAR_012197' => 'dca', 'DCAR_024162' => 'dca', 'Dinv01030' => 'din', 'Dinv10924' => 'din', 'Dinv11835' => 'din', 'Dinv22841' => 'din', 'Dinv42553' => 'din', 'Duzib052G0560' => 'dzi', 'Duzib132G0389' => 'dzi', 'Duzib150G1181' => 'dzi', 'Duzib168G0623' => 'dzi', 'Duzib170G1036' => 'dzi', 'Duzib212G0200' => 'dzi', 'Duzib248G0194' => 'dzi', 'ECA232G2193' => 'eca', 'ECA233G0302' => 'eca', 'ECA234G2813' => 'eca', 'ECA234G4866' => 'eca', 'ECA240G3932' => 'eca', 'ECA248G0385' => 'eca', 'EL10Ac2g04781' => 'bvu', 'EL10Ac3g06445' => 'bvu', 'EL10Ac7g15825' => 'bvu', 'EL10Ac8g18550' => 'bvu', 'Eucgr.B03849' => 'egr', 'Eucgr.I02744' => 'egr', 'Eucgr.J00264' => 'egr', 'Eucgr.J00493' => 'egr', 'FAN04G2181' => 'fan', 'FAN07G2666' => 'fan', 'FAN11G0024' => 'fan', 'FAN12G1105' => 'fan', 'FAN13G0302' => 'fan', 'FAN15G2781' => 'fan', 'FAN16G1274' => 'fan', 'FAN17G2988' => 'fan', 'FAN18G2621' => 'fan', 'FAN21G0013' => 'fan', 'FAN22G1211' => 'fan', 'FAN25G3626' => 'fan', 'FvH4_2g09491' => 'fve', 'FvH4_3g24910' => 'fve', 'FvH4_4g15630' => 'fve', 'FvH4_5g28820' => 'fve', 'Glyma.01G238000' => 'gma', 'Glyma.05G168400' => 'gma', 'Glyma.08G126800' => 'gma', 'Glyma.08G188500' => 'gma', 'Glyma.10G278900' => 'gma', 'Glyma.11G005700' => 'gma', 'Glyma.11G183300' => 'gma', 'Glyma.12G089200' => 'gma', 'Glyma.12G169400' => 'gma', 'Glyma.12G169500' => 'gma', 'Glyma.12G169600' => 'gma', 'Glyma.20G110800' => 'gma', 'Gohir.A03G192900' => 'ghi', 'Gohir.A03G193000' => 'ghi', 'Gohir.A05G080700' => 'ghi', 'Gohir.A09G216000' => 'ghi', 'Gohir.A12G027700' => 'ghi', 'Gohir.A13G036200' => 'ghi', 'Gohir.A13G222600' => 'ghi', 'Gohir.D02G213900' => 'ghi', 'Gohir.D02G214000' => 'ghi', 'Gohir.D05G083700' => 'ghi', 'Gohir.D05G083800' => 'ghi', 'Gohir.D05G083850' => 'ghi', 'Gohir.D08G015400' => 'ghi', 'Gohir.D09G218400' => 'ghi', 'Gohir.D12G027100' => 'ghi', 'Gohir.D13G034500' => 'ghi', 'Gohir.D13G227400' => 'ghi', 'Gorai.005G241800' => 'gra', 'Gorai.005G241900' => 'gra', 'Gorai.006G239400' => 'gra', 'Gorai.008G027600' => 'gra', 'Gorai.009G085400' => 'gra', 'Gorai.009G085500' => 'gra', 'Gorai.013G039000' => 'gra', 'Gorai.013G194800' => 'gra', 'Gorai.013G257900' => 'gra', 'GSVIVG01000982001' => 'vvi', 'GSVIVG01017981001' => 'vvi', 'HanXRQChr01g0024061' => 'han', 'HanXRQChr09g0247831' => 'han', 'HanXRQChr10g0294611' => 'han', 'HanXRQChr10g0294621' => 'han', 'HanXRQChr11g0346821' => 'han', 'HanXRQChr13g0397461' => 'han', 'HanXRQChr16g0513651' => 'han', 'HanXRQChr16g0513701' => 'han', 'Haze_00897' => 'cav', 'Haze_01745' => 'cav', 'Haze_02486' => 'cav', 'Haze_02487' => 'cav', 'Haze_23374' => 'cav', 'Hma1.2p1_0578F.1_g182520' => 'hma', 'Hma1.2p1_0602F.1_g187350' => 'hma', 'Hma1.2p1_0602F.1_g187360' => 'hma', 'Hma1.2p1_0874F.1_g231320' => 'hma', 'Hma1.2p1_1197F.1_g266210' => 'hma', 'Hma1.2p1_1197F.1_g266220' => 'hma', 'Hma1.2p1_2167F.1_g315895' => 'hma', 'Hma1.2p1_2190F.1_g316640' => 'hma', 'Hma1.2p1_3645F.1_g337153' => 'hma', 'HPP92_004907' => 'vpl', 'HPP92_012134' => 'vpl', 'HPP92_025136' => 'vpl', 'HPP92_026087' => 'vpl', 'Hund06782' => 'sun', 'Hund06784' => 'sun', 'Lalb_Chr01g0004861' => 'lal', 'Lalb_Chr02g0140591' => 'lal', 'Lalb_Chr02g0140611' => 'lal', 'Lalb_Chr03g0028101' => 'lal', 'Lalb_Chr07g0185791' => 'lal', 'Lalb_Chr12g0204491' => 'lal', 'Lalb_Chr13g0295671' => 'lal', 'Lalb_Chr19g0136461' => 'lal', 'Lalb_Chr21g0309191' => 'lal', 'Lj1g0028158' => 'lja', 'Lj1P236T38' => 'lonja', 'Lj2C32G2' => 'lonja', 'Lj2P944T8' => 'lonja', 'Lj2P963T15' => 'lonja', 'Lj3g0011788' => 'lja', 'Lj4g0025027' => 'lja', 'Lj5P255T36' => 'lonja', 'Lj6g0018866' => 'lja', 'Lj6P608T31' => 'lonja', 'LjContig00408g0008879' => 'lja', 'Lsat_1_v5_gn_5_105820' => 'lsa', 'Lsat_1_v5_gn_6_38800' => 'lsa', 'Lsat_1_v5_gn_7_67141' => 'lsa', 'Manes.04G003400' => 'mes', 'Manes.07G020000' => 'mes', 'Manes.07G020100' => 'mes', 'Manes.07G020150' => 'mes', 'Manes.10G061500' => 'mes', 'Manes.10G123200' => 'mes', 'Manes.11G161900' => 'mes', 'Manes.15G029300' => 'mes', 'Mapoly0071s0018' => 'mpo', 'Mapoly0082s0023' => 'mpo', 'Mapoly3477s0001' => 'mpo', 'MBI05_g31233_MAGBIO' => 'mbi', 'MBI09_g05946_MAGBIO' => 'mbi', 'MBI09_g05947_MAGBIO' => 'mbi', 'MBI17_g08346_MAGBIO' => 'mbi', 'MCO04G038' => 'mco', 'MCO09G370' => 'mco', 'MCO13G605' => 'mco', 'MD00G1075500' => 'mdo', 'MD03G1144300' => 'mdo', 'MD08G1236800' => 'mdo', 'MD13G1193300' => 'mdo', 'MD15G1428700' => 'mdo', 'Medtr1g112030' => 'mtr', 'Medtr1g112050' => 'mtr', 'Medtr2g006290' => 'mtr', 'Medtr2g086510' => 'mtr', 'Medtr4g053120' => 'mtr', 'Medtr5g006320' => 'mtr', 'Medtr8g088720' => 'mtr', 'MELO3C004712.2' => 'cme', 'MELO3C006533.2' => 'cme', 'MELO3C019438.2' => 'cme', 'MELO3C019440.2' => 'cme', 'MELO3C019441.2' => 'cme', 'MELO3C019895.2' => 'cme', 'Migut.B00811' => 'egut', 'Migut.D02447' => 'egut', 'Migut.F00875' => 'egut', 'Migut.N00186' => 'egut', 'Migut.N01051' => 'egut', 'Migut.N02491' => 'egut', 'Migut.O00784' => 'egut', 'MSTRG.12367' => 'ama', 'MSTRG.18756' => 'ama', 'MSTRG.21042' => 'ama', 'Nitab4.5_0000559g0040' => 'nta', 'Nitab4.5_0000667g0190' => 'nta', 'Nitab4.5_0000755g0160' => 'nta', 'Nitab4.5_0001216g0080' => 'nta', 'Nitab4.5_0004069g0040' => 'nta', 'Nitab4.5_0004129g0010' => 'nta', 'Nitab4.5_0005744g0030' => 'nta', 'Nitab4.5_0006996g0030' => 'nta', 'Nitab4.5_0008971g0040' => 'nta', 'Nitab4.5_0009769g0020' => 'nta', 'Nitab4.5_0009833g0010' => 'nta', 'Nitab4.5_0013140g0020' => 'nta', 'Nn003s41376' => 'nnu', 'Nn1g01857' => 'nnu', 'Nn1g03611' => 'nnu', 'Nn1g06853' => 'nnu', 'Nn3g18360' => 'nnu', 'Nn4g26328' => 'nnu', 'Nn5g27531' => 'nnu', 'Nn6g34899' => 'nnu', 'Nn7g36299' => 'nnu', 'Oeu021485.1' => 'oeu', 'Oeu022433.1' => 'oeu', 'Oeu032111.1' => 'oeu', 'Oeu051608.1' => 'oeu', 'Os01g0860601' => 'osa', 'Os03g0659200' => 'osa', 'Os03g0835900' => 'osa', 'Os04g0412200' => 'osa', 'Os05g0443500' => 'osa', 'Os07g0251500' => 'osa', 'Os08g0104600' => 'osa', 'Peaxi162Scf00003g00047' => 'pax', 'Peaxi162Scf00003g00052' => 'pax', 'Peaxi162Scf00003g00394' => 'pax', 'Peaxi162Scf00091g00621' => 'pax', 'Peaxi162Scf00152g00146' => 'pax', 'Peaxi162Scf00173g00025' => 'pax', 'Peaxi162Scf00195g00102' => 'pax', 'Peaxi162Scf00402g00013' => 'pax', 'Peaxi162Scf00519g00618' => 'pax', 'PGR004G2838' => 'pgr', 'PGR044G2275' => 'pgr', 'PGR102G1377' => 'pgr', 'PGR119G1245' => 'pgr', 'PGR142G4449' => 'pgr', 'PGSC0003DMG400004532' => 'stu', 'PGSC0003DMG400011950' => 'stu', 'PGSC0003DMG400023391' => 'stu', 'PGSC0003DMG400023985' => 'stu', 'PGSC0003DMG400026360' => 'stu', 'PGSC0003DMG400035711' => 'stu', 'PGSC0003DMG400037286' => 'stu', 'PGSC0003DMG402005881' => 'stu', 'Phvul.002G045400' => 'pvu', 'Phvul.006G216600' => 'pvu', 'Phvul.006G216700' => 'pvu', 'Phvul.006G216800' => 'pvu', 'Phvul.007G022500' => 'pvu', 'Phvul.011G094400' => 'pvu', 'Potri.001G470700' => 'ptr', 'Potri.003G015200' => 'ptr', 'Potri.004G202500' => 'ptr', 'Potri.004G218400' => 'ptr', 'Potri.008G020100' => 'ptr', 'Potri.008G153200' => 'ptr', 'Potri.009G163800' => 'ptr', 'Potri.010G087300' => 'ptr', 'Potri.010G239100' => 'ptr', 'Pp3c10_16100' => 'ppa', 'Pp3c10_16880' => 'ppa', 'Pp3c16_6230' => 'ppa', 'Pp3c17_18910' => 'ppa', 'Pp3c3_22119' => 'ppa', 'Pp3c3_22140' => 'ppa', 'Pp3c4_8159' => 'ppa', 'Pp3c4_8171' => 'ppa', 'Pp3c4_8330' => 'ppa', 'PRCOL_00004098' => 'pco', 'Prupe.1G013900' => 'ppe', 'Prupe.1G226300' => 'ppe', 'Prupe.1G573600' => 'ppe', 'Prupe.6G130100' => 'ppe', 'Psat3g090040' => 'psa', 'Psat4g210440' => 'psa', 'Psat6g231040' => 'psa', 'Psat6g231080' => 'psa', 'Psat7g063000' => 'psa', 'Psat7g188000' => 'psa', 'Psat7g188040' => 'psa', 'PSO017G0206' => 'pso', 'PSO170G0501' => 'pso', 'PSO170G6422' => 'pso', 'PSO210G7739' => 'pso', 'PSO339G1808' => 'pso', 'PSO339G6135' => 'pso', 'PSO384G0010' => 'pso', 'PSO384G0964' => 'pso', 'PSO761G0050' => 'pso', 'PSO782G4085' => 'pso', 'QL01p012264' => 'qlo', 'QL02p099491' => 'qlo', 'QL03p033868' => 'qlo', 'QL04p046678' => 'qlo', 'QL06p002448' => 'qlo', 'RcHm_v2.0_Chr4g0416181' => 'rch', 'RcHm_v2.0_Chr5g0044701' => 'rch', 'RcHm_v2.0_Chr6g0265781' => 'rch', 'RcHm_v2.0_Chr7g0221031' => 'rch', 'Rhsim04G0202000' => 'rsi', 'Rhsim11G0127300' => 'rsi', 'Rhsim13G0111800' => 'rsi', 'Sabra01G0165600' => 'sbr', 'Sabra03G0008300' => 'sbr', 'Sabra04G0136900' => 'sbr', 'Sabra08G0013400' => 'sbr', 'Sabra08G0116800' => 'sbr', 'Sabra09G0128000' => 'sbr', 'Sabra10G0055500' => 'sbr', 'Sabra10G0073300' => 'sbr', 'SalBow3G0385' => 'sbo', 'SalBow3G1119' => 'sbo', 'SalBow3G2005' => 'sbo', 'SalBow6G2563' => 'sbo', 'SalBow6G6386' => 'sbo', 'Sc06g0008800' => 'sci', 'Sc07g0004950' => 'sci', 'Sc09g0005340' => 'sci', 'Sc13g0004410' => 'sci', 'Sc21g0007090' => 'sci', 'Sed0009285' => 'sed', 'Sed0017583' => 'sed', 'Sed0019699' => 'sed', 'Sed0023107' => 'sed', 'SEGI_10916' => 'sgi', 'SEGI_16217' => 'sgi', 'SEGI_19466' => 'sgi', 'SEGI_41115' => 'sgi', 'SGA_v2.0_scaffold111G31534' => 'sas', 'SGA_v2.0_scaffold22G09864' => 'sas', 'SGA_v2.0_scaffold338G49219' => 'sas', 'SGA_v2.0_scaffold92G28298' => 'sas', 'SMO119G0064' => 'smo', 'SMO223G0038' => 'smo', 'SMO347G0584' => 'smo', 'SMO351G0010' => 'smo', 'SMO356G0404' => 'smo', 'Solyc01g103920.3' => 'sly', 'Solyc04g009710.2' => 'sly', 'Solyc05g055280.2' => 'sly', 'Solyc10g044520.3' => 'sly', 'Solyc10g075160.1' => 'sly', 'Solyc11g006910.3' => 'sly', 'Solyc11g068430.3' => 'sly', 'Sopen01g046310' => 'spe', 'Sopen03g001200' => 'spe', 'Sopen04g004830' => 'spe', 'Sopen05g033720' => 'spe', 'Sopen06g030740' => 'spe', 'Sopen10g013090' => 'spe', 'Sopen10g027630' => 'spe', 'Sopen10g027640' => 'spe', 'Sopen11g002820' => 'spe', 'Sopen11g027140' => 'spe', 'Sp1g09680' => 'spa', 'Sp2g03630' => 'spa', 'Sp4g10320' => 'spa', 'Sp6g33400' => 'spa', 'Sp7g13030' => 'spa', 'TAR365G0317' => 'tar', 'TAR376G0979' => 'tar', 'TAR623G1665' => 'tar', 'TAR633G2373' => 'tar', 'TAR636G1400' => 'tar', 'THA.LOC104800529' => 'tha', 'THA.LOC104808547' => 'tha', 'THA.LOC104809615' => 'tha', 'THA.LOC104815724' => 'tha', 'THA.LOC104818480' => 'tha', 'THA.LOC104819179' => 'tha', 'THA.LOC104822270' => 'tha', 'THA.LOC104826425' => 'tha', 'Thecc.02G089700' => 'tca', 'Thecc.04G232300' => 'tca', 'Thecc.09G283400' => 'tca', 'Thhalv10009020m.g' => 'esa', 'Thhalv10015506m.g' => 'esa', 'Thhalv10017364m.g' => 'esa', 'Thhalv10023742m.g' => 'esa', 'Thhalv10026483m.g' => 'esa', 'TPR.G17232' => 'tpr', 'TPR.G2133' => 'tpr', 'TPR.G2498' => 'tpr', 'TPR.G31942' => 'tpr', 'TPR.G37877' => 'tpr', 'TPR.G4571' => 'tpr', 'TWI14G1113' => 'twi', 'TWI15G0426' => 'twi', 'TWI31G1005' => 'twi', 'TWI38G0513' => 'twi', 'TWI38G1484' => 'twi', 'TWI73G1098' => 'twi', 'unitig_26.g10519' => 'ugi', 'unitig_736.g22395' => 'ugi', 'unitig_747.g21234' => 'ugi', 'unitig_747.g21942' => 'ugi', 'vmacro14351' => 'vma', 'VMungo0540G0082' => 'vmu', 'VMungo0540G0405' => 'vmu', 'VMungo0540G1486' => 'vmu', 'VMungo0540G1692' => 'vmu', 'VMungo0720G2473' => 'vmu', 'VMungo1127G1562' => 'vmu', 'VMungo1215G1918' => 'vmu', 'Zm00001eb052650' => 'zma', 'Zm00001eb063710' => 'zma', 'Zm00001eb083950' => 'zma', 'Zm00001eb174420' => 'zma', 'Zm00001eb260140' => 'zma', 'Zm00001eb260150' => 'zma', 'Zm00001eb260160' => 'zma', 'Zm00001eb348290' => 'zma', 'Zm00001eb366870' => 'zma', 'Zm00001eb421930' => 'zma' ), 'gf_id' => 'HOM05D001025', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001025' ), 'data_identifier' => 'HOM05D001025', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001025', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '592', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p22650' => 'bna', 'A01p29720' => 'bna', 'A03p26560' => 'bna', 'A03p68820' => 'bna', 'A04p20980' => 'bna', 'A06p07730' => 'bna', 'A07p18260' => 'bna', 'A08p33710' => 'bna', 'A09p16970' => 'bna', 'A10p27490' => 'bna', 'Aa31LG1G17300' => 'aar', 'Aa31LG1G3910' => 'aar', 'Aa31LG2G9630' => 'aar', 'Aa31LG5G8360' => 'aar', 'Aa31LG9G2410' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4699' => 'aag', 'Actinidia23512' => 'ach', 'Actinidia37080' => 'ach', 'Ah.01g020380' => 'amhyb', 'Ah.08g215710' => 'amhyb', 'Ah.09g225110' => 'amhyb', 'Ah.10g036680' => 'amhyb', 'AL1G21940' => 'aly', 'AL2G15540' => 'aly', 'AL4G21520' => 'aly', 'AL7G40960' => 'aly', 'Aqoxy2G01191' => 'aox', 'Aqoxy2G03393' => 'aox', 'Aqoxy4G02775' => 'aox', 'Aqoxy6G00058' => 'aox', 'arahy.Tifrunner.gnm1.ann1.9X74H2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CW3FX9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R485W7' => 'arhy', 'AT1G10960' => 'ath', 'AT1G60950' => 'ath', 'AT2G27510' => 'ath', 'AT4G14890' => 'ath', 'AT5G10000' => 'ath', 'ATR0665G624' => 'atr', 'ATR0697G138' => 'atr', 'ATR0776G046' => 'atr', 'ATR1134G135' => 'atr', 'Atru.chr12.1025' => 'acertr', 'Atru.chr3.3241' => 'acertr', 'Atru.chr4.2460' => 'acertr', 'AUR62007427' => 'cqu', 'AUR62010960' => 'cqu', 'AUR62012201' => 'cqu', 'AUR62021470' => 'cqu', 'AUR62022834' => 'cqu', 'AUR62033635' => 'cqu', 'AUR62036186' => 'cqu', 'BcaB01g03077' => 'bca', 'BcaB02g10093' => 'bca', 'BcaB04g20295' => 'bca', 'BcaB06g28147' => 'bca', 'BcaB07g31253' => 'bca', 'BcaC01g04946' => 'bca', 'BcaC02g10614' => 'bca', 'BcaC02g10885' => 'bca', 'BcaC04g19356' => 'bca', 'BcaC04g22297' => 'bca', 'BcaC05g24977' => 'bca', 'BcaC06g31823' => 'bca', 'BcaC07g38633' => 'bca', 'BcaC09g49353' => 'bca', 'BcaC09g50168' => 'bca', 'BcaNung00322' => 'bca', 'BcaNung04769' => 'bca', 'BolC1t02753H' => 'bol', 'BolC1t03721H' => 'bol', 'BolC3t15525H' => 'bol', 'BolC4t23903H' => 'bol', 'BolC4t24231H' => 'bol', 'BolC4t27209H' => 'bol', 'BolC5t29671H' => 'bol', 'BolC8t49044H' => 'bol', 'BolC9t54999H' => 'bol', 'BolC9t59517H' => 'bol', 'BraA01t02178Z' => 'bra', 'BraA01t03099Z' => 'bra', 'BraA03t11867Z' => 'bra', 'BraA04t17667Z' => 'bra', 'BraA07t29542Z' => 'bra', 'BraA08t35287Z' => 'bra', 'BraA09t37334Z' => 'bra', 'BraA10t44801Z' => 'bra', 'BraSC39t46181Z' => 'bra', 'C01p28240' => 'bna', 'C01p37530' => 'bna', 'C03p31820' => 'bna', 'C04p24080' => 'bna', 'C04p25790' => 'bna', 'C04p56770' => 'bna', 'C05p09310' => 'bna', 'C09p21010' => 'bna', 'C09p67560' => 'bna', 'CAN.G1324.7' => 'can', 'CAN.G1358.10' => 'can', 'CAN.G1550.2' => 'can', 'CAN.G186.56' => 'can', 'CAN.G1965.1' => 'can', 'CAN.G645.15' => 'can', 'CAN.G798.26' => 'can', 'CAN.G798.27' => 'can', 'CAN.G798.29' => 'can', 'CAN.G919.31' => 'can', 'CANSAT11G0133' => 'cansat', 'CANSAT11G1171' => 'cansat', 'CANSAT11G2056' => 'cansat', 'CANSAT56G1202' => 'cansat', 'CANSAT56G1514' => 'cansat', 'CANSAT78G0455' => 'cansat', 'CARHR011190' => 'chi', 'CARHR051980' => 'chi', 'CARHR120170' => 'chi', 'CARHR203310' => 'chi', 'CARHR221490' => 'chi', 'Carub.0001s1054' => 'cru', 'Carub.0002s0431' => 'cru', 'Carub.0004s0818' => 'cru', 'Carub.0006s0846' => 'cru', 'Carub.0007s2722' => 'cru', 'Ca_00058_v3' => 'car', 'Ca_17831_v3' => 'car', 'Ca_19408_v3' => 'car', 'Ca_24397_v3' => 'car', 'Ca_25664_v3' => 'car', 'CBR_g21818' => 'cbr', 'CBR_g31195' => 'cbr', 'CBR_g32282' => 'cbr', 'CBR_g39599' => 'cbr', 'CBR_g49410' => 'cbr', 'Cc01_g09120' => 'ccan', 'Cc01_g09130' => 'ccan', 'Cc02_g09630' => 'ccan', 'Cc02_g22810' => 'ccan', 'Cc03_g03810' => 'ccan', 'CDE02G3718' => 'cde', 'CDE04G3183' => 'cde', 'CDE07G1046' => 'cde', 'CDE08G0480' => 'cde', 'Cfa005493' => 'cfa', 'Cfa010312' => 'cfa', 'Cfa015648' => 'cfa', 'Ciclev10002793m.g' => 'ccl', 'Ciclev10003356m.g' => 'ccl', 'Ciclev10006141m.g' => 'ccl', 'Ciclev10016676m.g' => 'ccl', 'Ciclev10017081m.g' => 'ccl', 'Ciclev10029499m.g' => 'ccl', 'CiPaw.01G166300' => 'cil', 'CiPaw.06G145600' => 'cil', 'CiPaw.13G040100' => 'cil', 'CiPaw.13G135800' => 'cil', 'ClCG01G012230' => 'cla', 'ClCG05G009510' => 'cla', 'ClCG08G008270' => 'cla', 'COL.COLO4_11763' => 'col', 'COL.COLO4_19876' => 'col', 'COL.COLO4_21481' => 'col', 'Cpa.g.sc118.34' => 'cpa', 'Cpa.g.sc32.13' => 'cpa', 'Cpa.g.sc58.103' => 'cpa', 'Cre03.g183850' => 'cre', 'Cre06.g306350' => 'cre', 'Cre07.g334800' => 'cre', 'Cre12.g487900' => 'cre', 'Cre14.g626700' => 'cre', 'Cre16.g658400' => 'cre', 'Cre17.g700950' => 'cre', 'CsaV3_1G014830' => 'csa', 'CsaV3_3G013320' => 'csa', 'CsaV3_3G019210' => 'csa', 'CsaV3_3G019220' => 'csa', 'CsaV3_6G004230' => 'csa', 'CSS0003773' => 'camsi', 'CSS0004563' => 'camsi', 'CSS0013949' => 'camsi', 'CSS0025971' => 'camsi', 'CSS0028570' => 'camsi', 'CSS0033127' => 'camsi', 'CSS0036051' => 'camsi', 'CSS0040087' => 'camsi', 'CSS0043179' => 'camsi', 'DCAR_006161' => 'dca', 'DCAR_010351' => 'dca', 'DCAR_012197' => 'dca', 'DCAR_024162' => 'dca', 'Dinv01030' => 'din', 'Dinv10924' => 'din', 'Dinv11835' => 'din', 'Dinv22841' => 'din', 'Dinv42553' => 'din', 'Duzib052G0560' => 'dzi', 'Duzib132G0389' => 'dzi', 'Duzib150G1181' => 'dzi', 'Duzib168G0623' => 'dzi', 'Duzib170G1036' => 'dzi', 'Duzib212G0200' => 'dzi', 'Duzib248G0194' => 'dzi', 'ECA232G2193' => 'eca', 'ECA233G0302' => 'eca', 'ECA234G2813' => 'eca', 'ECA234G4866' => 'eca', 'ECA240G3932' => 'eca', 'ECA248G0385' => 'eca', 'EL10Ac2g04781' => 'bvu', 'EL10Ac3g06445' => 'bvu', 'EL10Ac7g15825' => 'bvu', 'EL10Ac8g18550' => 'bvu', 'Eucgr.B03849' => 'egr', 'Eucgr.I02744' => 'egr', 'Eucgr.J00264' => 'egr', 'Eucgr.J00493' => 'egr', 'FAN04G2181' => 'fan', 'FAN07G2666' => 'fan', 'FAN11G0024' => 'fan', 'FAN12G1105' => 'fan', 'FAN13G0302' => 'fan', 'FAN15G2781' => 'fan', 'FAN16G1274' => 'fan', 'FAN17G2988' => 'fan', 'FAN18G2621' => 'fan', 'FAN21G0013' => 'fan', 'FAN22G1211' => 'fan', 'FAN25G3626' => 'fan', 'FvH4_2g09491' => 'fve', 'FvH4_3g24910' => 'fve', 'FvH4_4g15630' => 'fve', 'FvH4_5g28820' => 'fve', 'Glyma.01G238000' => 'gma', 'Glyma.05G168400' => 'gma', 'Glyma.08G126800' => 'gma', 'Glyma.08G188500' => 'gma', 'Glyma.10G278900' => 'gma', 'Glyma.11G005700' => 'gma', 'Glyma.11G183300' => 'gma', 'Glyma.12G089200' => 'gma', 'Glyma.12G169400' => 'gma', 'Glyma.12G169500' => 'gma', 'Glyma.12G169600' => 'gma', 'Glyma.20G110800' => 'gma', 'Gohir.A03G192900' => 'ghi', 'Gohir.A03G193000' => 'ghi', 'Gohir.A05G080700' => 'ghi', 'Gohir.A09G216000' => 'ghi', 'Gohir.A12G027700' => 'ghi', 'Gohir.A13G036200' => 'ghi', 'Gohir.A13G222600' => 'ghi', 'Gohir.D02G213900' => 'ghi', 'Gohir.D02G214000' => 'ghi', 'Gohir.D05G083700' => 'ghi', 'Gohir.D05G083800' => 'ghi', 'Gohir.D05G083850' => 'ghi', 'Gohir.D08G015400' => 'ghi', 'Gohir.D09G218400' => 'ghi', 'Gohir.D12G027100' => 'ghi', 'Gohir.D13G034500' => 'ghi', 'Gohir.D13G227400' => 'ghi', 'Gorai.005G241800' => 'gra', 'Gorai.005G241900' => 'gra', 'Gorai.006G239400' => 'gra', 'Gorai.008G027600' => 'gra', 'Gorai.009G085400' => 'gra', 'Gorai.009G085500' => 'gra', 'Gorai.013G039000' => 'gra', 'Gorai.013G194800' => 'gra', 'Gorai.013G257900' => 'gra', 'GSVIVG01000982001' => 'vvi', 'GSVIVG01017981001' => 'vvi', 'HanXRQChr01g0024061' => 'han', 'HanXRQChr09g0247831' => 'han', 'HanXRQChr10g0294611' => 'han', 'HanXRQChr10g0294621' => 'han', 'HanXRQChr11g0346821' => 'han', 'HanXRQChr13g0397461' => 'han', 'HanXRQChr16g0513651' => 'han', 'HanXRQChr16g0513701' => 'han', 'Haze_00897' => 'cav', 'Haze_01745' => 'cav', 'Haze_02486' => 'cav', 'Haze_02487' => 'cav', 'Haze_23374' => 'cav', 'Hma1.2p1_0578F.1_g182520' => 'hma', 'Hma1.2p1_0602F.1_g187350' => 'hma', 'Hma1.2p1_0602F.1_g187360' => 'hma', 'Hma1.2p1_0874F.1_g231320' => 'hma', 'Hma1.2p1_1197F.1_g266210' => 'hma', 'Hma1.2p1_1197F.1_g266220' => 'hma', 'Hma1.2p1_2167F.1_g315895' => 'hma', 'Hma1.2p1_2190F.1_g316640' => 'hma', 'Hma1.2p1_3645F.1_g337153' => 'hma', 'HPP92_004907' => 'vpl', 'HPP92_012134' => 'vpl', 'HPP92_025136' => 'vpl', 'HPP92_026087' => 'vpl', 'Hund06782' => 'sun', 'Hund06784' => 'sun', 'Lalb_Chr01g0004861' => 'lal', 'Lalb_Chr02g0140591' => 'lal', 'Lalb_Chr02g0140611' => 'lal', 'Lalb_Chr03g0028101' => 'lal', 'Lalb_Chr07g0185791' => 'lal', 'Lalb_Chr12g0204491' => 'lal', 'Lalb_Chr13g0295671' => 'lal', 'Lalb_Chr19g0136461' => 'lal', 'Lalb_Chr21g0309191' => 'lal', 'Lj1g0028158' => 'lja', 'Lj1P236T38' => 'lonja', 'Lj2C32G2' => 'lonja', 'Lj2P944T8' => 'lonja', 'Lj2P963T15' => 'lonja', 'Lj3g0011788' => 'lja', 'Lj4g0025027' => 'lja', 'Lj5P255T36' => 'lonja', 'Lj6g0018866' => 'lja', 'Lj6P608T31' => 'lonja', 'LjContig00408g0008879' => 'lja', 'Lsat_1_v5_gn_5_105820' => 'lsa', 'Lsat_1_v5_gn_6_38800' => 'lsa', 'Lsat_1_v5_gn_7_67141' => 'lsa', 'Manes.04G003400' => 'mes', 'Manes.07G020000' => 'mes', 'Manes.07G020100' => 'mes', 'Manes.07G020150' => 'mes', 'Manes.10G061500' => 'mes', 'Manes.10G123200' => 'mes', 'Manes.11G161900' => 'mes', 'Manes.15G029300' => 'mes', 'Mapoly0071s0018' => 'mpo', 'Mapoly0082s0023' => 'mpo', 'Mapoly3477s0001' => 'mpo', 'MBI05_g31233_MAGBIO' => 'mbi', 'MBI09_g05946_MAGBIO' => 'mbi', 'MBI09_g05947_MAGBIO' => 'mbi', 'MBI17_g08346_MAGBIO' => 'mbi', 'MCO04G038' => 'mco', 'MCO09G370' => 'mco', 'MCO13G605' => 'mco', 'MD00G1075500' => 'mdo', 'MD03G1144300' => 'mdo', 'MD08G1236800' => 'mdo', 'MD13G1193300' => 'mdo', 'MD15G1428700' => 'mdo', 'Medtr1g112030' => 'mtr', 'Medtr1g112050' => 'mtr', 'Medtr2g006290' => 'mtr', 'Medtr2g086510' => 'mtr', 'Medtr4g053120' => 'mtr', 'Medtr5g006320' => 'mtr', 'Medtr8g088720' => 'mtr', 'MELO3C004712.2' => 'cme', 'MELO3C006533.2' => 'cme', 'MELO3C019438.2' => 'cme', 'MELO3C019440.2' => 'cme', 'MELO3C019441.2' => 'cme', 'MELO3C019895.2' => 'cme', 'Migut.B00811' => 'egut', 'Migut.D02447' => 'egut', 'Migut.F00875' => 'egut', 'Migut.N00186' => 'egut', 'Migut.N01051' => 'egut', 'Migut.N02491' => 'egut', 'Migut.O00784' => 'egut', 'MSTRG.12367' => 'ama', 'MSTRG.18756' => 'ama', 'MSTRG.21042' => 'ama', 'Nitab4.5_0000559g0040' => 'nta', 'Nitab4.5_0000667g0190' => 'nta', 'Nitab4.5_0000755g0160' => 'nta', 'Nitab4.5_0001216g0080' => 'nta', 'Nitab4.5_0004069g0040' => 'nta', 'Nitab4.5_0004129g0010' => 'nta', 'Nitab4.5_0005744g0030' => 'nta', 'Nitab4.5_0006996g0030' => 'nta', 'Nitab4.5_0008971g0040' => 'nta', 'Nitab4.5_0009769g0020' => 'nta', 'Nitab4.5_0009833g0010' => 'nta', 'Nitab4.5_0013140g0020' => 'nta', 'Nn003s41376' => 'nnu', 'Nn1g01857' => 'nnu', 'Nn1g03611' => 'nnu', 'Nn1g06853' => 'nnu', 'Nn3g18360' => 'nnu', 'Nn4g26328' => 'nnu', 'Nn5g27531' => 'nnu', 'Nn6g34899' => 'nnu', 'Nn7g36299' => 'nnu', 'Oeu021485.1' => 'oeu', 'Oeu022433.1' => 'oeu', 'Oeu032111.1' => 'oeu', 'Oeu051608.1' => 'oeu', 'Os01g0860601' => 'osa', 'Os03g0659200' => 'osa', 'Os03g0835900' => 'osa', 'Os04g0412200' => 'osa', 'Os05g0443500' => 'osa', 'Os07g0251500' => 'osa', 'Os08g0104600' => 'osa', 'Peaxi162Scf00003g00047' => 'pax', 'Peaxi162Scf00003g00052' => 'pax', 'Peaxi162Scf00003g00394' => 'pax', 'Peaxi162Scf00091g00621' => 'pax', 'Peaxi162Scf00152g00146' => 'pax', 'Peaxi162Scf00173g00025' => 'pax', 'Peaxi162Scf00195g00102' => 'pax', 'Peaxi162Scf00402g00013' => 'pax', 'Peaxi162Scf00519g00618' => 'pax', 'PGR004G2838' => 'pgr', 'PGR044G2275' => 'pgr', 'PGR102G1377' => 'pgr', 'PGR119G1245' => 'pgr', 'PGR142G4449' => 'pgr', 'PGSC0003DMG400004532' => 'stu', 'PGSC0003DMG400011950' => 'stu', 'PGSC0003DMG400023391' => 'stu', 'PGSC0003DMG400023985' => 'stu', 'PGSC0003DMG400026360' => 'stu', 'PGSC0003DMG400035711' => 'stu', 'PGSC0003DMG400037286' => 'stu', 'PGSC0003DMG402005881' => 'stu', 'Phvul.002G045400' => 'pvu', 'Phvul.006G216600' => 'pvu', 'Phvul.006G216700' => 'pvu', 'Phvul.006G216800' => 'pvu', 'Phvul.007G022500' => 'pvu', 'Phvul.011G094400' => 'pvu', 'Potri.001G470700' => 'ptr', 'Potri.003G015200' => 'ptr', 'Potri.004G202500' => 'ptr', 'Potri.004G218400' => 'ptr', 'Potri.008G020100' => 'ptr', 'Potri.008G153200' => 'ptr', 'Potri.009G163800' => 'ptr', 'Potri.010G087300' => 'ptr', 'Potri.010G239100' => 'ptr', 'Pp3c10_16100' => 'ppa', 'Pp3c10_16880' => 'ppa', 'Pp3c16_6230' => 'ppa', 'Pp3c17_18910' => 'ppa', 'Pp3c3_22119' => 'ppa', 'Pp3c3_22140' => 'ppa', 'Pp3c4_8159' => 'ppa', 'Pp3c4_8171' => 'ppa', 'Pp3c4_8330' => 'ppa', 'PRCOL_00004098' => 'pco', 'Prupe.1G013900' => 'ppe', 'Prupe.1G226300' => 'ppe', 'Prupe.1G573600' => 'ppe', 'Prupe.6G130100' => 'ppe', 'Psat3g090040' => 'psa', 'Psat4g210440' => 'psa', 'Psat6g231040' => 'psa', 'Psat6g231080' => 'psa', 'Psat7g063000' => 'psa', 'Psat7g188000' => 'psa', 'Psat7g188040' => 'psa', 'PSO017G0206' => 'pso', 'PSO170G0501' => 'pso', 'PSO170G6422' => 'pso', 'PSO210G7739' => 'pso', 'PSO339G1808' => 'pso', 'PSO339G6135' => 'pso', 'PSO384G0010' => 'pso', 'PSO384G0964' => 'pso', 'PSO761G0050' => 'pso', 'PSO782G4085' => 'pso', 'QL01p012264' => 'qlo', 'QL02p099491' => 'qlo', 'QL03p033868' => 'qlo', 'QL04p046678' => 'qlo', 'QL06p002448' => 'qlo', 'RcHm_v2.0_Chr4g0416181' => 'rch', 'RcHm_v2.0_Chr5g0044701' => 'rch', 'RcHm_v2.0_Chr6g0265781' => 'rch', 'RcHm_v2.0_Chr7g0221031' => 'rch', 'Rhsim04G0202000' => 'rsi', 'Rhsim11G0127300' => 'rsi', 'Rhsim13G0111800' => 'rsi', 'Sabra01G0165600' => 'sbr', 'Sabra03G0008300' => 'sbr', 'Sabra04G0136900' => 'sbr', 'Sabra08G0013400' => 'sbr', 'Sabra08G0116800' => 'sbr', 'Sabra09G0128000' => 'sbr', 'Sabra10G0055500' => 'sbr', 'Sabra10G0073300' => 'sbr', 'SalBow3G0385' => 'sbo', 'SalBow3G1119' => 'sbo', 'SalBow3G2005' => 'sbo', 'SalBow6G2563' => 'sbo', 'SalBow6G6386' => 'sbo', 'Sc06g0008800' => 'sci', 'Sc07g0004950' => 'sci', 'Sc09g0005340' => 'sci', 'Sc13g0004410' => 'sci', 'Sc21g0007090' => 'sci', 'Sed0009285' => 'sed', 'Sed0017583' => 'sed', 'Sed0019699' => 'sed', 'Sed0023107' => 'sed', 'SEGI_10916' => 'sgi', 'SEGI_16217' => 'sgi', 'SEGI_19466' => 'sgi', 'SEGI_41115' => 'sgi', 'SGA_v2.0_scaffold111G31534' => 'sas', 'SGA_v2.0_scaffold22G09864' => 'sas', 'SGA_v2.0_scaffold338G49219' => 'sas', 'SGA_v2.0_scaffold92G28298' => 'sas', 'SMO119G0064' => 'smo', 'SMO223G0038' => 'smo', 'SMO347G0584' => 'smo', 'SMO351G0010' => 'smo', 'SMO356G0404' => 'smo', 'Solyc01g103920.3' => 'sly', 'Solyc04g009710.2' => 'sly', 'Solyc05g055280.2' => 'sly', 'Solyc10g044520.3' => 'sly', 'Solyc10g075160.1' => 'sly', 'Solyc11g006910.3' => 'sly', 'Solyc11g068430.3' => 'sly', 'Sopen01g046310' => 'spe', 'Sopen03g001200' => 'spe', 'Sopen04g004830' => 'spe', 'Sopen05g033720' => 'spe', 'Sopen06g030740' => 'spe', 'Sopen10g013090' => 'spe', 'Sopen10g027630' => 'spe', 'Sopen10g027640' => 'spe', 'Sopen11g002820' => 'spe', 'Sopen11g027140' => 'spe', 'Sp1g09680' => 'spa', 'Sp2g03630' => 'spa', 'Sp4g10320' => 'spa', 'Sp6g33400' => 'spa', 'Sp7g13030' => 'spa', 'TAR365G0317' => 'tar', 'TAR376G0979' => 'tar', 'TAR623G1665' => 'tar', 'TAR633G2373' => 'tar', 'TAR636G1400' => 'tar', 'THA.LOC104800529' => 'tha', 'THA.LOC104808547' => 'tha', 'THA.LOC104809615' => 'tha', 'THA.LOC104815724' => 'tha', 'THA.LOC104818480' => 'tha', 'THA.LOC104819179' => 'tha', 'THA.LOC104822270' => 'tha', 'THA.LOC104826425' => 'tha', 'Thecc.02G089700' => 'tca', 'Thecc.04G232300' => 'tca', 'Thecc.09G283400' => 'tca', 'Thhalv10009020m.g' => 'esa', 'Thhalv10015506m.g' => 'esa', 'Thhalv10017364m.g' => 'esa', 'Thhalv10023742m.g' => 'esa', 'Thhalv10026483m.g' => 'esa', 'TPR.G17232' => 'tpr', 'TPR.G2133' => 'tpr', 'TPR.G2498' => 'tpr', 'TPR.G31942' => 'tpr', 'TPR.G37877' => 'tpr', 'TPR.G4571' => 'tpr', 'TWI14G1113' => 'twi', 'TWI15G0426' => 'twi', 'TWI31G1005' => 'twi', 'TWI38G0513' => 'twi', 'TWI38G1484' => 'twi', 'TWI73G1098' => 'twi', 'unitig_26.g10519' => 'ugi', 'unitig_736.g22395' => 'ugi', 'unitig_747.g21234' => 'ugi', 'unitig_747.g21942' => 'ugi', 'vmacro14351' => 'vma', 'VMungo0540G0082' => 'vmu', 'VMungo0540G0405' => 'vmu', 'VMungo0540G1486' => 'vmu', 'VMungo0540G1692' => 'vmu', 'VMungo0720G2473' => 'vmu', 'VMungo1127G1562' => 'vmu', 'VMungo1215G1918' => 'vmu', 'Zm00001eb052650' => 'zma', 'Zm00001eb063710' => 'zma', 'Zm00001eb083950' => 'zma', 'Zm00001eb174420' => 'zma', 'Zm00001eb260140' => 'zma', 'Zm00001eb260150' => 'zma', 'Zm00001eb260160' => 'zma', 'Zm00001eb348290' => 'zma', 'Zm00001eb366870' => 'zma', 'Zm00001eb421930' => 'zma' ) $gf_id = 'HOM05D001025' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001025' ) $data_identifier = 'HOM05D001025' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 19, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 2, 'amhyb' => (int) 4, 'aly' => (int) 4, 'aox' => (int) 4, 'arhy' => (int) 3, 'ath' => (int) 5, 'atr' => (int) 4, 'acertr' => (int) 3, 'cqu' => (int) 7, 'bca' => (int) 17, 'bol' => (int) 10, 'bra' => (int) 9, 'can' => (int) 10, 'cansat' => (int) 6, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 5, 'cbr' => (int) 5, 'ccan' => (int) 5, 'cde' => (int) 4, 'cfa' => (int) 3, 'ccl' => (int) 6, 'cil' => (int) 4, 'cla' => (int) 3, 'col' => (int) 3, 'cpa' => (int) 3, 'cre' => (int) 7, 'csa' => (int) 5, 'camsi' => (int) 9, 'dca' => (int) 4, 'din' => (int) 5, 'dzi' => (int) 7, 'eca' => (int) 6, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 12, 'fve' => (int) 4, 'gma' => (int) 12, 'ghi' => (int) 17, 'gra' => (int) 9, 'vvi' => (int) 2, 'han' => (int) 8, 'cav' => (int) 5, 'hma' => (int) 9, 'vpl' => (int) 4, 'sun' => (int) 2, 'lal' => (int) 9, 'lja' => (int) 5, 'lonja' => (int) 6, 'lsa' => (int) 3, 'mes' => (int) 8, 'mpo' => (int) 3, 'mbi' => (int) 4, 'mco' => (int) 3, 'mdo' => (int) 5, 'mtr' => (int) 7, 'cme' => (int) 6, 'egut' => (int) 7, 'ama' => (int) 3, 'nta' => (int) 12, 'nnu' => (int) 9, 'oeu' => (int) 4, 'osa' => (int) 7, 'pax' => (int) 9, 'pgr' => (int) 5, 'stu' => (int) 8, 'pvu' => (int) 6, 'ptr' => (int) 9, 'ppa' => (int) 9, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 7, 'pso' => (int) 10, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 3, 'sbr' => (int) 8, 'sbo' => (int) 5, 'sci' => (int) 5, 'sed' => (int) 4, 'sgi' => (int) 4, 'sas' => (int) 4, 'smo' => (int) 5, 'sly' => (int) 7, 'spe' => (int) 10, 'spa' => (int) 5, 'tar' => (int) 5, 'tha' => (int) 8, 'tca' => (int) 3, 'esa' => (int) 5, 'tpr' => (int) 6, 'twi' => (int) 6, 'ugi' => (int) 4, 'vma' => (int) 1, 'vmu' => (int) 7, 'zma' => (int) 10 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb421930' $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' => 'HOM05D001025', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '592', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p22650' => 'bna', 'A01p29720' => 'bna', 'A03p26560' => 'bna', 'A03p68820' => 'bna', 'A04p20980' => 'bna', 'A06p07730' => 'bna', 'A07p18260' => 'bna', 'A08p33710' => 'bna', 'A09p16970' => 'bna', 'A10p27490' => 'bna', 'Aa31LG1G17300' => 'aar', 'Aa31LG1G3910' => 'aar', 'Aa31LG2G9630' => 'aar', 'Aa31LG5G8360' => 'aar', 'Aa31LG9G2410' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4699' => 'aag', 'Actinidia23512' => 'ach', 'Actinidia37080' => 'ach', 'Ah.01g020380' => 'amhyb', 'Ah.08g215710' => 'amhyb', 'Ah.09g225110' => 'amhyb', 'Ah.10g036680' => 'amhyb', 'AL1G21940' => 'aly', 'AL2G15540' => 'aly', 'AL4G21520' => 'aly', 'AL7G40960' => 'aly', 'Aqoxy2G01191' => 'aox', 'Aqoxy2G03393' => 'aox', 'Aqoxy4G02775' => 'aox', 'Aqoxy6G00058' => 'aox', 'arahy.Tifrunner.gnm1.ann1.9X74H2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CW3FX9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R485W7' => 'arhy', 'AT1G10960' => 'ath', 'AT1G60950' => 'ath', 'AT2G27510' => 'ath', 'AT4G14890' => 'ath', 'AT5G10000' => 'ath', 'ATR0665G624' => 'atr', 'ATR0697G138' => 'atr', 'ATR0776G046' => 'atr', 'ATR1134G135' => 'atr', 'Atru.chr12.1025' => 'acertr', 'Atru.chr3.3241' => 'acertr', 'Atru.chr4.2460' => 'acertr', 'AUR62007427' => 'cqu', 'AUR62010960' => 'cqu', 'AUR62012201' => 'cqu', 'AUR62021470' => 'cqu', 'AUR62022834' => 'cqu', 'AUR62033635' => 'cqu', 'AUR62036186' => 'cqu', 'BcaB01g03077' => 'bca', 'BcaB02g10093' => 'bca', 'BcaB04g20295' => 'bca', 'BcaB06g28147' => 'bca', 'BcaB07g31253' => 'bca', 'BcaC01g04946' => 'bca', 'BcaC02g10614' => 'bca', 'BcaC02g10885' => 'bca', 'BcaC04g19356' => 'bca', 'BcaC04g22297' => 'bca', 'BcaC05g24977' => 'bca', 'BcaC06g31823' => 'bca', 'BcaC07g38633' => 'bca', 'BcaC09g49353' => 'bca', 'BcaC09g50168' => 'bca', 'BcaNung00322' => 'bca', 'BcaNung04769' => 'bca', 'BolC1t02753H' => 'bol', 'BolC1t03721H' => 'bol', 'BolC3t15525H' => 'bol', 'BolC4t23903H' => 'bol', 'BolC4t24231H' => 'bol', 'BolC4t27209H' => 'bol', 'BolC5t29671H' => 'bol', 'BolC8t49044H' => 'bol', 'BolC9t54999H' => 'bol', 'BolC9t59517H' => 'bol', 'BraA01t02178Z' => 'bra', 'BraA01t03099Z' => 'bra', 'BraA03t11867Z' => 'bra', 'BraA04t17667Z' => 'bra', 'BraA07t29542Z' => 'bra', 'BraA08t35287Z' => 'bra', 'BraA09t37334Z' => 'bra', 'BraA10t44801Z' => 'bra', 'BraSC39t46181Z' => 'bra', 'C01p28240' => 'bna', 'C01p37530' => 'bna', 'C03p31820' => 'bna', 'C04p24080' => 'bna', 'C04p25790' => 'bna', 'C04p56770' => 'bna', 'C05p09310' => 'bna', 'C09p21010' => 'bna', 'C09p67560' => 'bna', 'CAN.G1324.7' => 'can', 'CAN.G1358.10' => 'can', 'CAN.G1550.2' => 'can', 'CAN.G186.56' => 'can', 'CAN.G1965.1' => 'can', 'CAN.G645.15' => 'can', 'CAN.G798.26' => 'can', 'CAN.G798.27' => 'can', 'CAN.G798.29' => 'can', 'CAN.G919.31' => 'can', 'CANSAT11G0133' => 'cansat', 'CANSAT11G1171' => 'cansat', 'CANSAT11G2056' => 'cansat', 'CANSAT56G1202' => 'cansat', 'CANSAT56G1514' => 'cansat', 'CANSAT78G0455' => 'cansat', 'CARHR011190' => 'chi', 'CARHR051980' => 'chi', 'CARHR120170' => 'chi', 'CARHR203310' => 'chi', 'CARHR221490' => 'chi', 'Carub.0001s1054' => 'cru', 'Carub.0002s0431' => 'cru', 'Carub.0004s0818' => 'cru', 'Carub.0006s0846' => 'cru', 'Carub.0007s2722' => 'cru', 'Ca_00058_v3' => 'car', 'Ca_17831_v3' => 'car', 'Ca_19408_v3' => 'car', 'Ca_24397_v3' => 'car', 'Ca_25664_v3' => 'car', 'CBR_g21818' => 'cbr', 'CBR_g31195' => 'cbr', 'CBR_g32282' => 'cbr', 'CBR_g39599' => 'cbr', 'CBR_g49410' => 'cbr', 'Cc01_g09120' => 'ccan', 'Cc01_g09130' => 'ccan', 'Cc02_g09630' => 'ccan', 'Cc02_g22810' => 'ccan', 'Cc03_g03810' => 'ccan', 'CDE02G3718' => 'cde', 'CDE04G3183' => 'cde', 'CDE07G1046' => 'cde', 'CDE08G0480' => 'cde', 'Cfa005493' => 'cfa', 'Cfa010312' => 'cfa', 'Cfa015648' => 'cfa', 'Ciclev10002793m.g' => 'ccl', 'Ciclev10003356m.g' => 'ccl', 'Ciclev10006141m.g' => 'ccl', 'Ciclev10016676m.g' => 'ccl', 'Ciclev10017081m.g' => 'ccl', 'Ciclev10029499m.g' => 'ccl', 'CiPaw.01G166300' => 'cil', 'CiPaw.06G145600' => 'cil', 'CiPaw.13G040100' => 'cil', 'CiPaw.13G135800' => 'cil', 'ClCG01G012230' => 'cla', 'ClCG05G009510' => 'cla', 'ClCG08G008270' => 'cla', 'COL.COLO4_11763' => 'col', 'COL.COLO4_19876' => 'col', 'COL.COLO4_21481' => 'col', 'Cpa.g.sc118.34' => 'cpa', 'Cpa.g.sc32.13' => 'cpa', 'Cpa.g.sc58.103' => 'cpa', 'Cre03.g183850' => 'cre', 'Cre06.g306350' => 'cre', 'Cre07.g334800' => 'cre', 'Cre12.g487900' => 'cre', 'Cre14.g626700' => 'cre', 'Cre16.g658400' => 'cre', 'Cre17.g700950' => 'cre', 'CsaV3_1G014830' => 'csa', 'CsaV3_3G013320' => 'csa', 'CsaV3_3G019210' => 'csa', 'CsaV3_3G019220' => 'csa', 'CsaV3_6G004230' => 'csa', 'CSS0003773' => 'camsi', 'CSS0004563' => 'camsi', 'CSS0013949' => 'camsi', 'CSS0025971' => 'camsi', 'CSS0028570' => 'camsi', 'CSS0033127' => 'camsi', 'CSS0036051' => 'camsi', 'CSS0040087' => 'camsi', 'CSS0043179' => 'camsi', 'DCAR_006161' => 'dca', 'DCAR_010351' => 'dca', 'DCAR_012197' => 'dca', 'DCAR_024162' => 'dca', 'Dinv01030' => 'din', 'Dinv10924' => 'din', 'Dinv11835' => 'din', 'Dinv22841' => 'din', 'Dinv42553' => 'din', 'Duzib052G0560' => 'dzi', 'Duzib132G0389' => 'dzi', 'Duzib150G1181' => 'dzi', 'Duzib168G0623' => 'dzi', 'Duzib170G1036' => 'dzi', 'Duzib212G0200' => 'dzi', 'Duzib248G0194' => 'dzi', 'ECA232G2193' => 'eca', 'ECA233G0302' => 'eca', 'ECA234G2813' => 'eca', 'ECA234G4866' => 'eca', 'ECA240G3932' => 'eca', 'ECA248G0385' => 'eca', 'EL10Ac2g04781' => 'bvu', 'EL10Ac3g06445' => 'bvu', 'EL10Ac7g15825' => 'bvu', 'EL10Ac8g18550' => 'bvu', 'Eucgr.B03849' => 'egr', 'Eucgr.I02744' => 'egr', 'Eucgr.J00264' => 'egr', 'Eucgr.J00493' => 'egr', 'FAN04G2181' => 'fan', 'FAN07G2666' => 'fan', 'FAN11G0024' => 'fan', 'FAN12G1105' => 'fan', 'FAN13G0302' => 'fan', 'FAN15G2781' => 'fan', 'FAN16G1274' => 'fan', 'FAN17G2988' => 'fan', 'FAN18G2621' => 'fan', 'FAN21G0013' => 'fan', 'FAN22G1211' => 'fan', 'FAN25G3626' => 'fan', 'FvH4_2g09491' => 'fve', 'FvH4_3g24910' => 'fve', 'FvH4_4g15630' => 'fve', 'FvH4_5g28820' => 'fve', 'Glyma.01G238000' => 'gma', 'Glyma.05G168400' => 'gma', 'Glyma.08G126800' => 'gma', 'Glyma.08G188500' => 'gma', 'Glyma.10G278900' => 'gma', 'Glyma.11G005700' => 'gma', 'Glyma.11G183300' => 'gma', 'Glyma.12G089200' => 'gma', 'Glyma.12G169400' => 'gma', 'Glyma.12G169500' => 'gma', 'Glyma.12G169600' => 'gma', 'Glyma.20G110800' => 'gma', 'Gohir.A03G192900' => 'ghi', 'Gohir.A03G193000' => 'ghi', 'Gohir.A05G080700' => 'ghi', 'Gohir.A09G216000' => 'ghi', 'Gohir.A12G027700' => 'ghi', 'Gohir.A13G036200' => 'ghi', 'Gohir.A13G222600' => 'ghi', 'Gohir.D02G213900' => 'ghi', 'Gohir.D02G214000' => 'ghi', 'Gohir.D05G083700' => 'ghi', 'Gohir.D05G083800' => 'ghi', 'Gohir.D05G083850' => 'ghi', 'Gohir.D08G015400' => 'ghi', 'Gohir.D09G218400' => 'ghi', 'Gohir.D12G027100' => 'ghi', 'Gohir.D13G034500' => 'ghi', 'Gohir.D13G227400' => 'ghi', 'Gorai.005G241800' => 'gra', 'Gorai.005G241900' => 'gra', 'Gorai.006G239400' => 'gra', 'Gorai.008G027600' => 'gra', 'Gorai.009G085400' => 'gra', 'Gorai.009G085500' => 'gra', 'Gorai.013G039000' => 'gra', 'Gorai.013G194800' => 'gra', 'Gorai.013G257900' => 'gra', 'GSVIVG01000982001' => 'vvi', 'GSVIVG01017981001' => 'vvi', 'HanXRQChr01g0024061' => 'han', 'HanXRQChr09g0247831' => 'han', 'HanXRQChr10g0294611' => 'han', 'HanXRQChr10g0294621' => 'han', 'HanXRQChr11g0346821' => 'han', 'HanXRQChr13g0397461' => 'han', 'HanXRQChr16g0513651' => 'han', 'HanXRQChr16g0513701' => 'han', 'Haze_00897' => 'cav', 'Haze_01745' => 'cav', 'Haze_02486' => 'cav', 'Haze_02487' => 'cav', 'Haze_23374' => 'cav', 'Hma1.2p1_0578F.1_g182520' => 'hma', 'Hma1.2p1_0602F.1_g187350' => 'hma', 'Hma1.2p1_0602F.1_g187360' => 'hma', 'Hma1.2p1_0874F.1_g231320' => 'hma', 'Hma1.2p1_1197F.1_g266210' => 'hma', 'Hma1.2p1_1197F.1_g266220' => 'hma', 'Hma1.2p1_2167F.1_g315895' => 'hma', 'Hma1.2p1_2190F.1_g316640' => 'hma', 'Hma1.2p1_3645F.1_g337153' => 'hma', 'HPP92_004907' => 'vpl', 'HPP92_012134' => 'vpl', 'HPP92_025136' => 'vpl', 'HPP92_026087' => 'vpl', 'Hund06782' => 'sun', 'Hund06784' => 'sun', 'Lalb_Chr01g0004861' => 'lal', 'Lalb_Chr02g0140591' => 'lal', 'Lalb_Chr02g0140611' => 'lal', 'Lalb_Chr03g0028101' => 'lal', 'Lalb_Chr07g0185791' => 'lal', 'Lalb_Chr12g0204491' => 'lal', 'Lalb_Chr13g0295671' => 'lal', 'Lalb_Chr19g0136461' => 'lal', 'Lalb_Chr21g0309191' => 'lal', 'Lj1g0028158' => 'lja', 'Lj1P236T38' => 'lonja', 'Lj2C32G2' => 'lonja', 'Lj2P944T8' => 'lonja', 'Lj2P963T15' => 'lonja', 'Lj3g0011788' => 'lja', 'Lj4g0025027' => 'lja', 'Lj5P255T36' => 'lonja', 'Lj6g0018866' => 'lja', 'Lj6P608T31' => 'lonja', 'LjContig00408g0008879' => 'lja', 'Lsat_1_v5_gn_5_105820' => 'lsa', 'Lsat_1_v5_gn_6_38800' => 'lsa', 'Lsat_1_v5_gn_7_67141' => 'lsa', 'Manes.04G003400' => 'mes', 'Manes.07G020000' => 'mes', 'Manes.07G020100' => 'mes', 'Manes.07G020150' => 'mes', 'Manes.10G061500' => 'mes', 'Manes.10G123200' => 'mes', 'Manes.11G161900' => 'mes', 'Manes.15G029300' => 'mes', 'Mapoly0071s0018' => 'mpo', 'Mapoly0082s0023' => 'mpo', 'Mapoly3477s0001' => 'mpo', 'MBI05_g31233_MAGBIO' => 'mbi', 'MBI09_g05946_MAGBIO' => 'mbi', 'MBI09_g05947_MAGBIO' => 'mbi', 'MBI17_g08346_MAGBIO' => 'mbi', 'MCO04G038' => 'mco', 'MCO09G370' => 'mco', 'MCO13G605' => 'mco', 'MD00G1075500' => 'mdo', 'MD03G1144300' => 'mdo', 'MD08G1236800' => 'mdo', 'MD13G1193300' => 'mdo', 'MD15G1428700' => 'mdo', 'Medtr1g112030' => 'mtr', 'Medtr1g112050' => 'mtr', 'Medtr2g006290' => 'mtr', 'Medtr2g086510' => 'mtr', 'Medtr4g053120' => 'mtr', 'Medtr5g006320' => 'mtr', 'Medtr8g088720' => 'mtr', 'MELO3C004712.2' => 'cme', 'MELO3C006533.2' => 'cme', 'MELO3C019438.2' => 'cme', 'MELO3C019440.2' => 'cme', 'MELO3C019441.2' => 'cme', 'MELO3C019895.2' => 'cme', 'Migut.B00811' => 'egut', 'Migut.D02447' => 'egut', 'Migut.F00875' => 'egut', 'Migut.N00186' => 'egut', 'Migut.N01051' => 'egut', 'Migut.N02491' => 'egut', 'Migut.O00784' => 'egut', 'MSTRG.12367' => 'ama', 'MSTRG.18756' => 'ama', 'MSTRG.21042' => 'ama', 'Nitab4.5_0000559g0040' => 'nta', 'Nitab4.5_0000667g0190' => 'nta', 'Nitab4.5_0000755g0160' => 'nta', 'Nitab4.5_0001216g0080' => 'nta', 'Nitab4.5_0004069g0040' => 'nta', 'Nitab4.5_0004129g0010' => 'nta', 'Nitab4.5_0005744g0030' => 'nta', 'Nitab4.5_0006996g0030' => 'nta', 'Nitab4.5_0008971g0040' => 'nta', 'Nitab4.5_0009769g0020' => 'nta', 'Nitab4.5_0009833g0010' => 'nta', 'Nitab4.5_0013140g0020' => 'nta', 'Nn003s41376' => 'nnu', 'Nn1g01857' => 'nnu', 'Nn1g03611' => 'nnu', 'Nn1g06853' => 'nnu', 'Nn3g18360' => 'nnu', 'Nn4g26328' => 'nnu', 'Nn5g27531' => 'nnu', 'Nn6g34899' => 'nnu', 'Nn7g36299' => 'nnu', 'Oeu021485.1' => 'oeu', 'Oeu022433.1' => 'oeu', 'Oeu032111.1' => 'oeu', 'Oeu051608.1' => 'oeu', 'Os01g0860601' => 'osa', 'Os03g0659200' => 'osa', 'Os03g0835900' => 'osa', 'Os04g0412200' => 'osa', 'Os05g0443500' => 'osa', 'Os07g0251500' => 'osa', 'Os08g0104600' => 'osa', 'Peaxi162Scf00003g00047' => 'pax', 'Peaxi162Scf00003g00052' => 'pax', 'Peaxi162Scf00003g00394' => 'pax', 'Peaxi162Scf00091g00621' => 'pax', 'Peaxi162Scf00152g00146' => 'pax', 'Peaxi162Scf00173g00025' => 'pax', 'Peaxi162Scf00195g00102' => 'pax', 'Peaxi162Scf00402g00013' => 'pax', 'Peaxi162Scf00519g00618' => 'pax', 'PGR004G2838' => 'pgr', 'PGR044G2275' => 'pgr', 'PGR102G1377' => 'pgr', 'PGR119G1245' => 'pgr', 'PGR142G4449' => 'pgr', 'PGSC0003DMG400004532' => 'stu', 'PGSC0003DMG400011950' => 'stu', 'PGSC0003DMG400023391' => 'stu', 'PGSC0003DMG400023985' => 'stu', 'PGSC0003DMG400026360' => 'stu', 'PGSC0003DMG400035711' => 'stu', 'PGSC0003DMG400037286' => 'stu', 'PGSC0003DMG402005881' => 'stu', 'Phvul.002G045400' => 'pvu', 'Phvul.006G216600' => 'pvu', 'Phvul.006G216700' => 'pvu', 'Phvul.006G216800' => 'pvu', 'Phvul.007G022500' => 'pvu', 'Phvul.011G094400' => 'pvu', 'Potri.001G470700' => 'ptr', 'Potri.003G015200' => 'ptr', 'Potri.004G202500' => 'ptr', 'Potri.004G218400' => 'ptr', 'Potri.008G020100' => 'ptr', 'Potri.008G153200' => 'ptr', 'Potri.009G163800' => 'ptr', 'Potri.010G087300' => 'ptr', 'Potri.010G239100' => 'ptr', 'Pp3c10_16100' => 'ppa', 'Pp3c10_16880' => 'ppa', 'Pp3c16_6230' => 'ppa', 'Pp3c17_18910' => 'ppa', 'Pp3c3_22119' => 'ppa', 'Pp3c3_22140' => 'ppa', 'Pp3c4_8159' => 'ppa', 'Pp3c4_8171' => 'ppa', 'Pp3c4_8330' => 'ppa', 'PRCOL_00004098' => 'pco', 'Prupe.1G013900' => 'ppe', 'Prupe.1G226300' => 'ppe', 'Prupe.1G573600' => 'ppe', 'Prupe.6G130100' => 'ppe', 'Psat3g090040' => 'psa', 'Psat4g210440' => 'psa', 'Psat6g231040' => 'psa', 'Psat6g231080' => 'psa', 'Psat7g063000' => 'psa', 'Psat7g188000' => 'psa', 'Psat7g188040' => 'psa', 'PSO017G0206' => 'pso', 'PSO170G0501' => 'pso', 'PSO170G6422' => 'pso', 'PSO210G7739' => 'pso', 'PSO339G1808' => 'pso', 'PSO339G6135' => 'pso', 'PSO384G0010' => 'pso', 'PSO384G0964' => 'pso', 'PSO761G0050' => 'pso', 'PSO782G4085' => 'pso', 'QL01p012264' => 'qlo', 'QL02p099491' => 'qlo', 'QL03p033868' => 'qlo', 'QL04p046678' => 'qlo', 'QL06p002448' => 'qlo', 'RcHm_v2.0_Chr4g0416181' => 'rch', 'RcHm_v2.0_Chr5g0044701' => 'rch', 'RcHm_v2.0_Chr6g0265781' => 'rch', 'RcHm_v2.0_Chr7g0221031' => 'rch', 'Rhsim04G0202000' => 'rsi', 'Rhsim11G0127300' => 'rsi', 'Rhsim13G0111800' => 'rsi', 'Sabra01G0165600' => 'sbr', 'Sabra03G0008300' => 'sbr', 'Sabra04G0136900' => 'sbr', 'Sabra08G0013400' => 'sbr', 'Sabra08G0116800' => 'sbr', 'Sabra09G0128000' => 'sbr', 'Sabra10G0055500' => 'sbr', 'Sabra10G0073300' => 'sbr', 'SalBow3G0385' => 'sbo', 'SalBow3G1119' => 'sbo', 'SalBow3G2005' => 'sbo', 'SalBow6G2563' => 'sbo', 'SalBow6G6386' => 'sbo', 'Sc06g0008800' => 'sci', 'Sc07g0004950' => 'sci', 'Sc09g0005340' => 'sci', 'Sc13g0004410' => 'sci', 'Sc21g0007090' => 'sci', 'Sed0009285' => 'sed', 'Sed0017583' => 'sed', 'Sed0019699' => 'sed', 'Sed0023107' => 'sed', 'SEGI_10916' => 'sgi', 'SEGI_16217' => 'sgi', 'SEGI_19466' => 'sgi', 'SEGI_41115' => 'sgi', 'SGA_v2.0_scaffold111G31534' => 'sas', 'SGA_v2.0_scaffold22G09864' => 'sas', 'SGA_v2.0_scaffold338G49219' => 'sas', 'SGA_v2.0_scaffold92G28298' => 'sas', 'SMO119G0064' => 'smo', 'SMO223G0038' => 'smo', 'SMO347G0584' => 'smo', 'SMO351G0010' => 'smo', 'SMO356G0404' => 'smo', 'Solyc01g103920.3' => 'sly', 'Solyc04g009710.2' => 'sly', 'Solyc05g055280.2' => 'sly', 'Solyc10g044520.3' => 'sly', 'Solyc10g075160.1' => 'sly', 'Solyc11g006910.3' => 'sly', 'Solyc11g068430.3' => 'sly', 'Sopen01g046310' => 'spe', 'Sopen03g001200' => 'spe', 'Sopen04g004830' => 'spe', 'Sopen05g033720' => 'spe', 'Sopen06g030740' => 'spe', 'Sopen10g013090' => 'spe', 'Sopen10g027630' => 'spe', 'Sopen10g027640' => 'spe', 'Sopen11g002820' => 'spe', 'Sopen11g027140' => 'spe', 'Sp1g09680' => 'spa', 'Sp2g03630' => 'spa', 'Sp4g10320' => 'spa', 'Sp6g33400' => 'spa', 'Sp7g13030' => 'spa', 'TAR365G0317' => 'tar', 'TAR376G0979' => 'tar', 'TAR623G1665' => 'tar', 'TAR633G2373' => 'tar', 'TAR636G1400' => 'tar', 'THA.LOC104800529' => 'tha', 'THA.LOC104808547' => 'tha', 'THA.LOC104809615' => 'tha', 'THA.LOC104815724' => 'tha', 'THA.LOC104818480' => 'tha', 'THA.LOC104819179' => 'tha', 'THA.LOC104822270' => 'tha', 'THA.LOC104826425' => 'tha', 'Thecc.02G089700' => 'tca', 'Thecc.04G232300' => 'tca', 'Thecc.09G283400' => 'tca', 'Thhalv10009020m.g' => 'esa', 'Thhalv10015506m.g' => 'esa', 'Thhalv10017364m.g' => 'esa', 'Thhalv10023742m.g' => 'esa', 'Thhalv10026483m.g' => 'esa', 'TPR.G17232' => 'tpr', 'TPR.G2133' => 'tpr', 'TPR.G2498' => 'tpr', 'TPR.G31942' => 'tpr', 'TPR.G37877' => 'tpr', 'TPR.G4571' => 'tpr', 'TWI14G1113' => 'twi', 'TWI15G0426' => 'twi', 'TWI31G1005' => 'twi', 'TWI38G0513' => 'twi', 'TWI38G1484' => 'twi', 'TWI73G1098' => 'twi', 'unitig_26.g10519' => 'ugi', 'unitig_736.g22395' => 'ugi', 'unitig_747.g21234' => 'ugi', 'unitig_747.g21942' => 'ugi', 'vmacro14351' => 'vma', 'VMungo0540G0082' => 'vmu', 'VMungo0540G0405' => 'vmu', 'VMungo0540G1486' => 'vmu', 'VMungo0540G1692' => 'vmu', 'VMungo0720G2473' => 'vmu', 'VMungo1127G1562' => 'vmu', 'VMungo1215G1918' => 'vmu', 'Zm00001eb052650' => 'zma', 'Zm00001eb063710' => 'zma', 'Zm00001eb083950' => 'zma', 'Zm00001eb174420' => 'zma', 'Zm00001eb260140' => 'zma', 'Zm00001eb260150' => 'zma', 'Zm00001eb260160' => 'zma', 'Zm00001eb348290' => 'zma', 'Zm00001eb366870' => 'zma', 'Zm00001eb421930' => 'zma' ), 'gf_id' => 'HOM05D001025', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001025' ), 'data_identifier' => 'HOM05D001025', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001025', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '592', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p22650' => 'bna', 'A01p29720' => 'bna', 'A03p26560' => 'bna', 'A03p68820' => 'bna', 'A04p20980' => 'bna', 'A06p07730' => 'bna', 'A07p18260' => 'bna', 'A08p33710' => 'bna', 'A09p16970' => 'bna', 'A10p27490' => 'bna', 'Aa31LG1G17300' => 'aar', 'Aa31LG1G3910' => 'aar', 'Aa31LG2G9630' => 'aar', 'Aa31LG5G8360' => 'aar', 'Aa31LG9G2410' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4699' => 'aag', 'Actinidia23512' => 'ach', 'Actinidia37080' => 'ach', 'Ah.01g020380' => 'amhyb', 'Ah.08g215710' => 'amhyb', 'Ah.09g225110' => 'amhyb', 'Ah.10g036680' => 'amhyb', 'AL1G21940' => 'aly', 'AL2G15540' => 'aly', 'AL4G21520' => 'aly', 'AL7G40960' => 'aly', 'Aqoxy2G01191' => 'aox', 'Aqoxy2G03393' => 'aox', 'Aqoxy4G02775' => 'aox', 'Aqoxy6G00058' => 'aox', 'arahy.Tifrunner.gnm1.ann1.9X74H2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CW3FX9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R485W7' => 'arhy', 'AT1G10960' => 'ath', 'AT1G60950' => 'ath', 'AT2G27510' => 'ath', 'AT4G14890' => 'ath', 'AT5G10000' => 'ath', 'ATR0665G624' => 'atr', 'ATR0697G138' => 'atr', 'ATR0776G046' => 'atr', 'ATR1134G135' => 'atr', 'Atru.chr12.1025' => 'acertr', 'Atru.chr3.3241' => 'acertr', 'Atru.chr4.2460' => 'acertr', 'AUR62007427' => 'cqu', 'AUR62010960' => 'cqu', 'AUR62012201' => 'cqu', 'AUR62021470' => 'cqu', 'AUR62022834' => 'cqu', 'AUR62033635' => 'cqu', 'AUR62036186' => 'cqu', 'BcaB01g03077' => 'bca', 'BcaB02g10093' => 'bca', 'BcaB04g20295' => 'bca', 'BcaB06g28147' => 'bca', 'BcaB07g31253' => 'bca', 'BcaC01g04946' => 'bca', 'BcaC02g10614' => 'bca', 'BcaC02g10885' => 'bca', 'BcaC04g19356' => 'bca', 'BcaC04g22297' => 'bca', 'BcaC05g24977' => 'bca', 'BcaC06g31823' => 'bca', 'BcaC07g38633' => 'bca', 'BcaC09g49353' => 'bca', 'BcaC09g50168' => 'bca', 'BcaNung00322' => 'bca', 'BcaNung04769' => 'bca', 'BolC1t02753H' => 'bol', 'BolC1t03721H' => 'bol', 'BolC3t15525H' => 'bol', 'BolC4t23903H' => 'bol', 'BolC4t24231H' => 'bol', 'BolC4t27209H' => 'bol', 'BolC5t29671H' => 'bol', 'BolC8t49044H' => 'bol', 'BolC9t54999H' => 'bol', 'BolC9t59517H' => 'bol', 'BraA01t02178Z' => 'bra', 'BraA01t03099Z' => 'bra', 'BraA03t11867Z' => 'bra', 'BraA04t17667Z' => 'bra', 'BraA07t29542Z' => 'bra', 'BraA08t35287Z' => 'bra', 'BraA09t37334Z' => 'bra', 'BraA10t44801Z' => 'bra', 'BraSC39t46181Z' => 'bra', 'C01p28240' => 'bna', 'C01p37530' => 'bna', 'C03p31820' => 'bna', 'C04p24080' => 'bna', 'C04p25790' => 'bna', 'C04p56770' => 'bna', 'C05p09310' => 'bna', 'C09p21010' => 'bna', 'C09p67560' => 'bna', 'CAN.G1324.7' => 'can', 'CAN.G1358.10' => 'can', 'CAN.G1550.2' => 'can', 'CAN.G186.56' => 'can', 'CAN.G1965.1' => 'can', 'CAN.G645.15' => 'can', 'CAN.G798.26' => 'can', 'CAN.G798.27' => 'can', 'CAN.G798.29' => 'can', 'CAN.G919.31' => 'can', 'CANSAT11G0133' => 'cansat', 'CANSAT11G1171' => 'cansat', 'CANSAT11G2056' => 'cansat', 'CANSAT56G1202' => 'cansat', 'CANSAT56G1514' => 'cansat', 'CANSAT78G0455' => 'cansat', 'CARHR011190' => 'chi', 'CARHR051980' => 'chi', 'CARHR120170' => 'chi', 'CARHR203310' => 'chi', 'CARHR221490' => 'chi', 'Carub.0001s1054' => 'cru', 'Carub.0002s0431' => 'cru', 'Carub.0004s0818' => 'cru', 'Carub.0006s0846' => 'cru', 'Carub.0007s2722' => 'cru', 'Ca_00058_v3' => 'car', 'Ca_17831_v3' => 'car', 'Ca_19408_v3' => 'car', 'Ca_24397_v3' => 'car', 'Ca_25664_v3' => 'car', 'CBR_g21818' => 'cbr', 'CBR_g31195' => 'cbr', 'CBR_g32282' => 'cbr', 'CBR_g39599' => 'cbr', 'CBR_g49410' => 'cbr', 'Cc01_g09120' => 'ccan', 'Cc01_g09130' => 'ccan', 'Cc02_g09630' => 'ccan', 'Cc02_g22810' => 'ccan', 'Cc03_g03810' => 'ccan', 'CDE02G3718' => 'cde', 'CDE04G3183' => 'cde', 'CDE07G1046' => 'cde', 'CDE08G0480' => 'cde', 'Cfa005493' => 'cfa', 'Cfa010312' => 'cfa', 'Cfa015648' => 'cfa', 'Ciclev10002793m.g' => 'ccl', 'Ciclev10003356m.g' => 'ccl', 'Ciclev10006141m.g' => 'ccl', 'Ciclev10016676m.g' => 'ccl', 'Ciclev10017081m.g' => 'ccl', 'Ciclev10029499m.g' => 'ccl', 'CiPaw.01G166300' => 'cil', 'CiPaw.06G145600' => 'cil', 'CiPaw.13G040100' => 'cil', 'CiPaw.13G135800' => 'cil', 'ClCG01G012230' => 'cla', 'ClCG05G009510' => 'cla', 'ClCG08G008270' => 'cla', 'COL.COLO4_11763' => 'col', 'COL.COLO4_19876' => 'col', 'COL.COLO4_21481' => 'col', 'Cpa.g.sc118.34' => 'cpa', 'Cpa.g.sc32.13' => 'cpa', 'Cpa.g.sc58.103' => 'cpa', 'Cre03.g183850' => 'cre', 'Cre06.g306350' => 'cre', 'Cre07.g334800' => 'cre', 'Cre12.g487900' => 'cre', 'Cre14.g626700' => 'cre', 'Cre16.g658400' => 'cre', 'Cre17.g700950' => 'cre', 'CsaV3_1G014830' => 'csa', 'CsaV3_3G013320' => 'csa', 'CsaV3_3G019210' => 'csa', 'CsaV3_3G019220' => 'csa', 'CsaV3_6G004230' => 'csa', 'CSS0003773' => 'camsi', 'CSS0004563' => 'camsi', 'CSS0013949' => 'camsi', 'CSS0025971' => 'camsi', 'CSS0028570' => 'camsi', 'CSS0033127' => 'camsi', 'CSS0036051' => 'camsi', 'CSS0040087' => 'camsi', 'CSS0043179' => 'camsi', 'DCAR_006161' => 'dca', 'DCAR_010351' => 'dca', 'DCAR_012197' => 'dca', 'DCAR_024162' => 'dca', 'Dinv01030' => 'din', 'Dinv10924' => 'din', 'Dinv11835' => 'din', 'Dinv22841' => 'din', 'Dinv42553' => 'din', 'Duzib052G0560' => 'dzi', 'Duzib132G0389' => 'dzi', 'Duzib150G1181' => 'dzi', 'Duzib168G0623' => 'dzi', 'Duzib170G1036' => 'dzi', 'Duzib212G0200' => 'dzi', 'Duzib248G0194' => 'dzi', 'ECA232G2193' => 'eca', 'ECA233G0302' => 'eca', 'ECA234G2813' => 'eca', 'ECA234G4866' => 'eca', 'ECA240G3932' => 'eca', 'ECA248G0385' => 'eca', 'EL10Ac2g04781' => 'bvu', 'EL10Ac3g06445' => 'bvu', 'EL10Ac7g15825' => 'bvu', 'EL10Ac8g18550' => 'bvu', 'Eucgr.B03849' => 'egr', 'Eucgr.I02744' => 'egr', 'Eucgr.J00264' => 'egr', 'Eucgr.J00493' => 'egr', 'FAN04G2181' => 'fan', 'FAN07G2666' => 'fan', 'FAN11G0024' => 'fan', 'FAN12G1105' => 'fan', 'FAN13G0302' => 'fan', 'FAN15G2781' => 'fan', 'FAN16G1274' => 'fan', 'FAN17G2988' => 'fan', 'FAN18G2621' => 'fan', 'FAN21G0013' => 'fan', 'FAN22G1211' => 'fan', 'FAN25G3626' => 'fan', 'FvH4_2g09491' => 'fve', 'FvH4_3g24910' => 'fve', 'FvH4_4g15630' => 'fve', 'FvH4_5g28820' => 'fve', 'Glyma.01G238000' => 'gma', 'Glyma.05G168400' => 'gma', 'Glyma.08G126800' => 'gma', 'Glyma.08G188500' => 'gma', 'Glyma.10G278900' => 'gma', 'Glyma.11G005700' => 'gma', 'Glyma.11G183300' => 'gma', 'Glyma.12G089200' => 'gma', 'Glyma.12G169400' => 'gma', 'Glyma.12G169500' => 'gma', 'Glyma.12G169600' => 'gma', 'Glyma.20G110800' => 'gma', 'Gohir.A03G192900' => 'ghi', 'Gohir.A03G193000' => 'ghi', 'Gohir.A05G080700' => 'ghi', 'Gohir.A09G216000' => 'ghi', 'Gohir.A12G027700' => 'ghi', 'Gohir.A13G036200' => 'ghi', 'Gohir.A13G222600' => 'ghi', 'Gohir.D02G213900' => 'ghi', 'Gohir.D02G214000' => 'ghi', 'Gohir.D05G083700' => 'ghi', 'Gohir.D05G083800' => 'ghi', 'Gohir.D05G083850' => 'ghi', 'Gohir.D08G015400' => 'ghi', 'Gohir.D09G218400' => 'ghi', 'Gohir.D12G027100' => 'ghi', 'Gohir.D13G034500' => 'ghi', 'Gohir.D13G227400' => 'ghi', 'Gorai.005G241800' => 'gra', 'Gorai.005G241900' => 'gra', 'Gorai.006G239400' => 'gra', 'Gorai.008G027600' => 'gra', 'Gorai.009G085400' => 'gra', 'Gorai.009G085500' => 'gra', 'Gorai.013G039000' => 'gra', 'Gorai.013G194800' => 'gra', 'Gorai.013G257900' => 'gra', 'GSVIVG01000982001' => 'vvi', 'GSVIVG01017981001' => 'vvi', 'HanXRQChr01g0024061' => 'han', 'HanXRQChr09g0247831' => 'han', 'HanXRQChr10g0294611' => 'han', 'HanXRQChr10g0294621' => 'han', 'HanXRQChr11g0346821' => 'han', 'HanXRQChr13g0397461' => 'han', 'HanXRQChr16g0513651' => 'han', 'HanXRQChr16g0513701' => 'han', 'Haze_00897' => 'cav', 'Haze_01745' => 'cav', 'Haze_02486' => 'cav', 'Haze_02487' => 'cav', 'Haze_23374' => 'cav', 'Hma1.2p1_0578F.1_g182520' => 'hma', 'Hma1.2p1_0602F.1_g187350' => 'hma', 'Hma1.2p1_0602F.1_g187360' => 'hma', 'Hma1.2p1_0874F.1_g231320' => 'hma', 'Hma1.2p1_1197F.1_g266210' => 'hma', 'Hma1.2p1_1197F.1_g266220' => 'hma', 'Hma1.2p1_2167F.1_g315895' => 'hma', 'Hma1.2p1_2190F.1_g316640' => 'hma', 'Hma1.2p1_3645F.1_g337153' => 'hma', 'HPP92_004907' => 'vpl', 'HPP92_012134' => 'vpl', 'HPP92_025136' => 'vpl', 'HPP92_026087' => 'vpl', 'Hund06782' => 'sun', 'Hund06784' => 'sun', 'Lalb_Chr01g0004861' => 'lal', 'Lalb_Chr02g0140591' => 'lal', 'Lalb_Chr02g0140611' => 'lal', 'Lalb_Chr03g0028101' => 'lal', 'Lalb_Chr07g0185791' => 'lal', 'Lalb_Chr12g0204491' => 'lal', 'Lalb_Chr13g0295671' => 'lal', 'Lalb_Chr19g0136461' => 'lal', 'Lalb_Chr21g0309191' => 'lal', 'Lj1g0028158' => 'lja', 'Lj1P236T38' => 'lonja', 'Lj2C32G2' => 'lonja', 'Lj2P944T8' => 'lonja', 'Lj2P963T15' => 'lonja', 'Lj3g0011788' => 'lja', 'Lj4g0025027' => 'lja', 'Lj5P255T36' => 'lonja', 'Lj6g0018866' => 'lja', 'Lj6P608T31' => 'lonja', 'LjContig00408g0008879' => 'lja', 'Lsat_1_v5_gn_5_105820' => 'lsa', 'Lsat_1_v5_gn_6_38800' => 'lsa', 'Lsat_1_v5_gn_7_67141' => 'lsa', 'Manes.04G003400' => 'mes', 'Manes.07G020000' => 'mes', 'Manes.07G020100' => 'mes', 'Manes.07G020150' => 'mes', 'Manes.10G061500' => 'mes', 'Manes.10G123200' => 'mes', 'Manes.11G161900' => 'mes', 'Manes.15G029300' => 'mes', 'Mapoly0071s0018' => 'mpo', 'Mapoly0082s0023' => 'mpo', 'Mapoly3477s0001' => 'mpo', 'MBI05_g31233_MAGBIO' => 'mbi', 'MBI09_g05946_MAGBIO' => 'mbi', 'MBI09_g05947_MAGBIO' => 'mbi', 'MBI17_g08346_MAGBIO' => 'mbi', 'MCO04G038' => 'mco', 'MCO09G370' => 'mco', 'MCO13G605' => 'mco', 'MD00G1075500' => 'mdo', 'MD03G1144300' => 'mdo', 'MD08G1236800' => 'mdo', 'MD13G1193300' => 'mdo', 'MD15G1428700' => 'mdo', 'Medtr1g112030' => 'mtr', 'Medtr1g112050' => 'mtr', 'Medtr2g006290' => 'mtr', 'Medtr2g086510' => 'mtr', 'Medtr4g053120' => 'mtr', 'Medtr5g006320' => 'mtr', 'Medtr8g088720' => 'mtr', 'MELO3C004712.2' => 'cme', 'MELO3C006533.2' => 'cme', 'MELO3C019438.2' => 'cme', 'MELO3C019440.2' => 'cme', 'MELO3C019441.2' => 'cme', 'MELO3C019895.2' => 'cme', 'Migut.B00811' => 'egut', 'Migut.D02447' => 'egut', 'Migut.F00875' => 'egut', 'Migut.N00186' => 'egut', 'Migut.N01051' => 'egut', 'Migut.N02491' => 'egut', 'Migut.O00784' => 'egut', 'MSTRG.12367' => 'ama', 'MSTRG.18756' => 'ama', 'MSTRG.21042' => 'ama', 'Nitab4.5_0000559g0040' => 'nta', 'Nitab4.5_0000667g0190' => 'nta', 'Nitab4.5_0000755g0160' => 'nta', 'Nitab4.5_0001216g0080' => 'nta', 'Nitab4.5_0004069g0040' => 'nta', 'Nitab4.5_0004129g0010' => 'nta', 'Nitab4.5_0005744g0030' => 'nta', 'Nitab4.5_0006996g0030' => 'nta', 'Nitab4.5_0008971g0040' => 'nta', 'Nitab4.5_0009769g0020' => 'nta', 'Nitab4.5_0009833g0010' => 'nta', 'Nitab4.5_0013140g0020' => 'nta', 'Nn003s41376' => 'nnu', 'Nn1g01857' => 'nnu', 'Nn1g03611' => 'nnu', 'Nn1g06853' => 'nnu', 'Nn3g18360' => 'nnu', 'Nn4g26328' => 'nnu', 'Nn5g27531' => 'nnu', 'Nn6g34899' => 'nnu', 'Nn7g36299' => 'nnu', 'Oeu021485.1' => 'oeu', 'Oeu022433.1' => 'oeu', 'Oeu032111.1' => 'oeu', 'Oeu051608.1' => 'oeu', 'Os01g0860601' => 'osa', 'Os03g0659200' => 'osa', 'Os03g0835900' => 'osa', 'Os04g0412200' => 'osa', 'Os05g0443500' => 'osa', 'Os07g0251500' => 'osa', 'Os08g0104600' => 'osa', 'Peaxi162Scf00003g00047' => 'pax', 'Peaxi162Scf00003g00052' => 'pax', 'Peaxi162Scf00003g00394' => 'pax', 'Peaxi162Scf00091g00621' => 'pax', 'Peaxi162Scf00152g00146' => 'pax', 'Peaxi162Scf00173g00025' => 'pax', 'Peaxi162Scf00195g00102' => 'pax', 'Peaxi162Scf00402g00013' => 'pax', 'Peaxi162Scf00519g00618' => 'pax', 'PGR004G2838' => 'pgr', 'PGR044G2275' => 'pgr', 'PGR102G1377' => 'pgr', 'PGR119G1245' => 'pgr', 'PGR142G4449' => 'pgr', 'PGSC0003DMG400004532' => 'stu', 'PGSC0003DMG400011950' => 'stu', 'PGSC0003DMG400023391' => 'stu', 'PGSC0003DMG400023985' => 'stu', 'PGSC0003DMG400026360' => 'stu', 'PGSC0003DMG400035711' => 'stu', 'PGSC0003DMG400037286' => 'stu', 'PGSC0003DMG402005881' => 'stu', 'Phvul.002G045400' => 'pvu', 'Phvul.006G216600' => 'pvu', 'Phvul.006G216700' => 'pvu', 'Phvul.006G216800' => 'pvu', 'Phvul.007G022500' => 'pvu', 'Phvul.011G094400' => 'pvu', 'Potri.001G470700' => 'ptr', 'Potri.003G015200' => 'ptr', 'Potri.004G202500' => 'ptr', 'Potri.004G218400' => 'ptr', 'Potri.008G020100' => 'ptr', 'Potri.008G153200' => 'ptr', 'Potri.009G163800' => 'ptr', 'Potri.010G087300' => 'ptr', 'Potri.010G239100' => 'ptr', 'Pp3c10_16100' => 'ppa', 'Pp3c10_16880' => 'ppa', 'Pp3c16_6230' => 'ppa', 'Pp3c17_18910' => 'ppa', 'Pp3c3_22119' => 'ppa', 'Pp3c3_22140' => 'ppa', 'Pp3c4_8159' => 'ppa', 'Pp3c4_8171' => 'ppa', 'Pp3c4_8330' => 'ppa', 'PRCOL_00004098' => 'pco', 'Prupe.1G013900' => 'ppe', 'Prupe.1G226300' => 'ppe', 'Prupe.1G573600' => 'ppe', 'Prupe.6G130100' => 'ppe', 'Psat3g090040' => 'psa', 'Psat4g210440' => 'psa', 'Psat6g231040' => 'psa', 'Psat6g231080' => 'psa', 'Psat7g063000' => 'psa', 'Psat7g188000' => 'psa', 'Psat7g188040' => 'psa', 'PSO017G0206' => 'pso', 'PSO170G0501' => 'pso', 'PSO170G6422' => 'pso', 'PSO210G7739' => 'pso', 'PSO339G1808' => 'pso', 'PSO339G6135' => 'pso', 'PSO384G0010' => 'pso', 'PSO384G0964' => 'pso', 'PSO761G0050' => 'pso', 'PSO782G4085' => 'pso', 'QL01p012264' => 'qlo', 'QL02p099491' => 'qlo', 'QL03p033868' => 'qlo', 'QL04p046678' => 'qlo', 'QL06p002448' => 'qlo', 'RcHm_v2.0_Chr4g0416181' => 'rch', 'RcHm_v2.0_Chr5g0044701' => 'rch', 'RcHm_v2.0_Chr6g0265781' => 'rch', 'RcHm_v2.0_Chr7g0221031' => 'rch', 'Rhsim04G0202000' => 'rsi', 'Rhsim11G0127300' => 'rsi', 'Rhsim13G0111800' => 'rsi', 'Sabra01G0165600' => 'sbr', 'Sabra03G0008300' => 'sbr', 'Sabra04G0136900' => 'sbr', 'Sabra08G0013400' => 'sbr', 'Sabra08G0116800' => 'sbr', 'Sabra09G0128000' => 'sbr', 'Sabra10G0055500' => 'sbr', 'Sabra10G0073300' => 'sbr', 'SalBow3G0385' => 'sbo', 'SalBow3G1119' => 'sbo', 'SalBow3G2005' => 'sbo', 'SalBow6G2563' => 'sbo', 'SalBow6G6386' => 'sbo', 'Sc06g0008800' => 'sci', 'Sc07g0004950' => 'sci', 'Sc09g0005340' => 'sci', 'Sc13g0004410' => 'sci', 'Sc21g0007090' => 'sci', 'Sed0009285' => 'sed', 'Sed0017583' => 'sed', 'Sed0019699' => 'sed', 'Sed0023107' => 'sed', 'SEGI_10916' => 'sgi', 'SEGI_16217' => 'sgi', 'SEGI_19466' => 'sgi', 'SEGI_41115' => 'sgi', 'SGA_v2.0_scaffold111G31534' => 'sas', 'SGA_v2.0_scaffold22G09864' => 'sas', 'SGA_v2.0_scaffold338G49219' => 'sas', 'SGA_v2.0_scaffold92G28298' => 'sas', 'SMO119G0064' => 'smo', 'SMO223G0038' => 'smo', 'SMO347G0584' => 'smo', 'SMO351G0010' => 'smo', 'SMO356G0404' => 'smo', 'Solyc01g103920.3' => 'sly', 'Solyc04g009710.2' => 'sly', 'Solyc05g055280.2' => 'sly', 'Solyc10g044520.3' => 'sly', 'Solyc10g075160.1' => 'sly', 'Solyc11g006910.3' => 'sly', 'Solyc11g068430.3' => 'sly', 'Sopen01g046310' => 'spe', 'Sopen03g001200' => 'spe', 'Sopen04g004830' => 'spe', 'Sopen05g033720' => 'spe', 'Sopen06g030740' => 'spe', 'Sopen10g013090' => 'spe', 'Sopen10g027630' => 'spe', 'Sopen10g027640' => 'spe', 'Sopen11g002820' => 'spe', 'Sopen11g027140' => 'spe', 'Sp1g09680' => 'spa', 'Sp2g03630' => 'spa', 'Sp4g10320' => 'spa', 'Sp6g33400' => 'spa', 'Sp7g13030' => 'spa', 'TAR365G0317' => 'tar', 'TAR376G0979' => 'tar', 'TAR623G1665' => 'tar', 'TAR633G2373' => 'tar', 'TAR636G1400' => 'tar', 'THA.LOC104800529' => 'tha', 'THA.LOC104808547' => 'tha', 'THA.LOC104809615' => 'tha', 'THA.LOC104815724' => 'tha', 'THA.LOC104818480' => 'tha', 'THA.LOC104819179' => 'tha', 'THA.LOC104822270' => 'tha', 'THA.LOC104826425' => 'tha', 'Thecc.02G089700' => 'tca', 'Thecc.04G232300' => 'tca', 'Thecc.09G283400' => 'tca', 'Thhalv10009020m.g' => 'esa', 'Thhalv10015506m.g' => 'esa', 'Thhalv10017364m.g' => 'esa', 'Thhalv10023742m.g' => 'esa', 'Thhalv10026483m.g' => 'esa', 'TPR.G17232' => 'tpr', 'TPR.G2133' => 'tpr', 'TPR.G2498' => 'tpr', 'TPR.G31942' => 'tpr', 'TPR.G37877' => 'tpr', 'TPR.G4571' => 'tpr', 'TWI14G1113' => 'twi', 'TWI15G0426' => 'twi', 'TWI31G1005' => 'twi', 'TWI38G0513' => 'twi', 'TWI38G1484' => 'twi', 'TWI73G1098' => 'twi', 'unitig_26.g10519' => 'ugi', 'unitig_736.g22395' => 'ugi', 'unitig_747.g21234' => 'ugi', 'unitig_747.g21942' => 'ugi', 'vmacro14351' => 'vma', 'VMungo0540G0082' => 'vmu', 'VMungo0540G0405' => 'vmu', 'VMungo0540G1486' => 'vmu', 'VMungo0540G1692' => 'vmu', 'VMungo0720G2473' => 'vmu', 'VMungo1127G1562' => 'vmu', 'VMungo1215G1918' => 'vmu', 'Zm00001eb052650' => 'zma', 'Zm00001eb063710' => 'zma', 'Zm00001eb083950' => 'zma', 'Zm00001eb174420' => 'zma', 'Zm00001eb260140' => 'zma', 'Zm00001eb260150' => 'zma', 'Zm00001eb260160' => 'zma', 'Zm00001eb348290' => 'zma', 'Zm00001eb366870' => 'zma', 'Zm00001eb421930' => 'zma' ) $gf_id = 'HOM05D001025' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001025' ) $data_identifier = 'HOM05D001025' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 19, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 2, 'amhyb' => (int) 4, 'aly' => (int) 4, 'aox' => (int) 4, 'arhy' => (int) 3, 'ath' => (int) 5, 'atr' => (int) 4, 'acertr' => (int) 3, 'cqu' => (int) 7, 'bca' => (int) 17, 'bol' => (int) 10, 'bra' => (int) 9, 'can' => (int) 10, 'cansat' => (int) 6, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 5, 'cbr' => (int) 5, 'ccan' => (int) 5, 'cde' => (int) 4, 'cfa' => (int) 3, 'ccl' => (int) 6, 'cil' => (int) 4, 'cla' => (int) 3, 'col' => (int) 3, 'cpa' => (int) 3, 'cre' => (int) 7, 'csa' => (int) 5, 'camsi' => (int) 9, 'dca' => (int) 4, 'din' => (int) 5, 'dzi' => (int) 7, 'eca' => (int) 6, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 12, 'fve' => (int) 4, 'gma' => (int) 12, 'ghi' => (int) 17, 'gra' => (int) 9, 'vvi' => (int) 2, 'han' => (int) 8, 'cav' => (int) 5, 'hma' => (int) 9, 'vpl' => (int) 4, 'sun' => (int) 2, 'lal' => (int) 9, 'lja' => (int) 5, 'lonja' => (int) 6, 'lsa' => (int) 3, 'mes' => (int) 8, 'mpo' => (int) 3, 'mbi' => (int) 4, 'mco' => (int) 3, 'mdo' => (int) 5, 'mtr' => (int) 7, 'cme' => (int) 6, 'egut' => (int) 7, 'ama' => (int) 3, 'nta' => (int) 12, 'nnu' => (int) 9, 'oeu' => (int) 4, 'osa' => (int) 7, 'pax' => (int) 9, 'pgr' => (int) 5, 'stu' => (int) 8, 'pvu' => (int) 6, 'ptr' => (int) 9, 'ppa' => (int) 9, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 7, 'pso' => (int) 10, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 3, 'sbr' => (int) 8, 'sbo' => (int) 5, 'sci' => (int) 5, 'sed' => (int) 4, 'sgi' => (int) 4, 'sas' => (int) 4, 'smo' => (int) 5, 'sly' => (int) 7, 'spe' => (int) 10, 'spa' => (int) 5, 'tar' => (int) 5, 'tha' => (int) 8, 'tca' => (int) 3, 'esa' => (int) 5, 'tpr' => (int) 6, 'twi' => (int) 6, 'ugi' => (int) 4, 'vma' => (int) 1, 'vmu' => (int) 7, 'zma' => (int) 10 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb421930' $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' => 'HOM05D001025', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '592', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p22650' => 'bna', 'A01p29720' => 'bna', 'A03p26560' => 'bna', 'A03p68820' => 'bna', 'A04p20980' => 'bna', 'A06p07730' => 'bna', 'A07p18260' => 'bna', 'A08p33710' => 'bna', 'A09p16970' => 'bna', 'A10p27490' => 'bna', 'Aa31LG1G17300' => 'aar', 'Aa31LG1G3910' => 'aar', 'Aa31LG2G9630' => 'aar', 'Aa31LG5G8360' => 'aar', 'Aa31LG9G2410' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4699' => 'aag', 'Actinidia23512' => 'ach', 'Actinidia37080' => 'ach', 'Ah.01g020380' => 'amhyb', 'Ah.08g215710' => 'amhyb', 'Ah.09g225110' => 'amhyb', 'Ah.10g036680' => 'amhyb', 'AL1G21940' => 'aly', 'AL2G15540' => 'aly', 'AL4G21520' => 'aly', 'AL7G40960' => 'aly', 'Aqoxy2G01191' => 'aox', 'Aqoxy2G03393' => 'aox', 'Aqoxy4G02775' => 'aox', 'Aqoxy6G00058' => 'aox', 'arahy.Tifrunner.gnm1.ann1.9X74H2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CW3FX9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R485W7' => 'arhy', 'AT1G10960' => 'ath', 'AT1G60950' => 'ath', 'AT2G27510' => 'ath', 'AT4G14890' => 'ath', 'AT5G10000' => 'ath', 'ATR0665G624' => 'atr', 'ATR0697G138' => 'atr', 'ATR0776G046' => 'atr', 'ATR1134G135' => 'atr', 'Atru.chr12.1025' => 'acertr', 'Atru.chr3.3241' => 'acertr', 'Atru.chr4.2460' => 'acertr', 'AUR62007427' => 'cqu', 'AUR62010960' => 'cqu', 'AUR62012201' => 'cqu', 'AUR62021470' => 'cqu', 'AUR62022834' => 'cqu', 'AUR62033635' => 'cqu', 'AUR62036186' => 'cqu', 'BcaB01g03077' => 'bca', 'BcaB02g10093' => 'bca', 'BcaB04g20295' => 'bca', 'BcaB06g28147' => 'bca', 'BcaB07g31253' => 'bca', 'BcaC01g04946' => 'bca', 'BcaC02g10614' => 'bca', 'BcaC02g10885' => 'bca', 'BcaC04g19356' => 'bca', 'BcaC04g22297' => 'bca', 'BcaC05g24977' => 'bca', 'BcaC06g31823' => 'bca', 'BcaC07g38633' => 'bca', 'BcaC09g49353' => 'bca', 'BcaC09g50168' => 'bca', 'BcaNung00322' => 'bca', 'BcaNung04769' => 'bca', 'BolC1t02753H' => 'bol', 'BolC1t03721H' => 'bol', 'BolC3t15525H' => 'bol', 'BolC4t23903H' => 'bol', 'BolC4t24231H' => 'bol', 'BolC4t27209H' => 'bol', 'BolC5t29671H' => 'bol', 'BolC8t49044H' => 'bol', 'BolC9t54999H' => 'bol', 'BolC9t59517H' => 'bol', 'BraA01t02178Z' => 'bra', 'BraA01t03099Z' => 'bra', 'BraA03t11867Z' => 'bra', 'BraA04t17667Z' => 'bra', 'BraA07t29542Z' => 'bra', 'BraA08t35287Z' => 'bra', 'BraA09t37334Z' => 'bra', 'BraA10t44801Z' => 'bra', 'BraSC39t46181Z' => 'bra', 'C01p28240' => 'bna', 'C01p37530' => 'bna', 'C03p31820' => 'bna', 'C04p24080' => 'bna', 'C04p25790' => 'bna', 'C04p56770' => 'bna', 'C05p09310' => 'bna', 'C09p21010' => 'bna', 'C09p67560' => 'bna', 'CAN.G1324.7' => 'can', 'CAN.G1358.10' => 'can', 'CAN.G1550.2' => 'can', 'CAN.G186.56' => 'can', 'CAN.G1965.1' => 'can', 'CAN.G645.15' => 'can', 'CAN.G798.26' => 'can', 'CAN.G798.27' => 'can', 'CAN.G798.29' => 'can', 'CAN.G919.31' => 'can', 'CANSAT11G0133' => 'cansat', 'CANSAT11G1171' => 'cansat', 'CANSAT11G2056' => 'cansat', 'CANSAT56G1202' => 'cansat', 'CANSAT56G1514' => 'cansat', 'CANSAT78G0455' => 'cansat', 'CARHR011190' => 'chi', 'CARHR051980' => 'chi', 'CARHR120170' => 'chi', 'CARHR203310' => 'chi', 'CARHR221490' => 'chi', 'Carub.0001s1054' => 'cru', 'Carub.0002s0431' => 'cru', 'Carub.0004s0818' => 'cru', 'Carub.0006s0846' => 'cru', 'Carub.0007s2722' => 'cru', 'Ca_00058_v3' => 'car', 'Ca_17831_v3' => 'car', 'Ca_19408_v3' => 'car', 'Ca_24397_v3' => 'car', 'Ca_25664_v3' => 'car', 'CBR_g21818' => 'cbr', 'CBR_g31195' => 'cbr', 'CBR_g32282' => 'cbr', 'CBR_g39599' => 'cbr', 'CBR_g49410' => 'cbr', 'Cc01_g09120' => 'ccan', 'Cc01_g09130' => 'ccan', 'Cc02_g09630' => 'ccan', 'Cc02_g22810' => 'ccan', 'Cc03_g03810' => 'ccan', 'CDE02G3718' => 'cde', 'CDE04G3183' => 'cde', 'CDE07G1046' => 'cde', 'CDE08G0480' => 'cde', 'Cfa005493' => 'cfa', 'Cfa010312' => 'cfa', 'Cfa015648' => 'cfa', 'Ciclev10002793m.g' => 'ccl', 'Ciclev10003356m.g' => 'ccl', 'Ciclev10006141m.g' => 'ccl', 'Ciclev10016676m.g' => 'ccl', 'Ciclev10017081m.g' => 'ccl', 'Ciclev10029499m.g' => 'ccl', 'CiPaw.01G166300' => 'cil', 'CiPaw.06G145600' => 'cil', 'CiPaw.13G040100' => 'cil', 'CiPaw.13G135800' => 'cil', 'ClCG01G012230' => 'cla', 'ClCG05G009510' => 'cla', 'ClCG08G008270' => 'cla', 'COL.COLO4_11763' => 'col', 'COL.COLO4_19876' => 'col', 'COL.COLO4_21481' => 'col', 'Cpa.g.sc118.34' => 'cpa', 'Cpa.g.sc32.13' => 'cpa', 'Cpa.g.sc58.103' => 'cpa', 'Cre03.g183850' => 'cre', 'Cre06.g306350' => 'cre', 'Cre07.g334800' => 'cre', 'Cre12.g487900' => 'cre', 'Cre14.g626700' => 'cre', 'Cre16.g658400' => 'cre', 'Cre17.g700950' => 'cre', 'CsaV3_1G014830' => 'csa', 'CsaV3_3G013320' => 'csa', 'CsaV3_3G019210' => 'csa', 'CsaV3_3G019220' => 'csa', 'CsaV3_6G004230' => 'csa', 'CSS0003773' => 'camsi', 'CSS0004563' => 'camsi', 'CSS0013949' => 'camsi', 'CSS0025971' => 'camsi', 'CSS0028570' => 'camsi', 'CSS0033127' => 'camsi', 'CSS0036051' => 'camsi', 'CSS0040087' => 'camsi', 'CSS0043179' => 'camsi', 'DCAR_006161' => 'dca', 'DCAR_010351' => 'dca', 'DCAR_012197' => 'dca', 'DCAR_024162' => 'dca', 'Dinv01030' => 'din', 'Dinv10924' => 'din', 'Dinv11835' => 'din', 'Dinv22841' => 'din', 'Dinv42553' => 'din', 'Duzib052G0560' => 'dzi', 'Duzib132G0389' => 'dzi', 'Duzib150G1181' => 'dzi', 'Duzib168G0623' => 'dzi', 'Duzib170G1036' => 'dzi', 'Duzib212G0200' => 'dzi', 'Duzib248G0194' => 'dzi', 'ECA232G2193' => 'eca', 'ECA233G0302' => 'eca', 'ECA234G2813' => 'eca', 'ECA234G4866' => 'eca', 'ECA240G3932' => 'eca', 'ECA248G0385' => 'eca', 'EL10Ac2g04781' => 'bvu', 'EL10Ac3g06445' => 'bvu', 'EL10Ac7g15825' => 'bvu', 'EL10Ac8g18550' => 'bvu', 'Eucgr.B03849' => 'egr', 'Eucgr.I02744' => 'egr', 'Eucgr.J00264' => 'egr', 'Eucgr.J00493' => 'egr', 'FAN04G2181' => 'fan', 'FAN07G2666' => 'fan', 'FAN11G0024' => 'fan', 'FAN12G1105' => 'fan', 'FAN13G0302' => 'fan', 'FAN15G2781' => 'fan', 'FAN16G1274' => 'fan', 'FAN17G2988' => 'fan', 'FAN18G2621' => 'fan', 'FAN21G0013' => 'fan', 'FAN22G1211' => 'fan', 'FAN25G3626' => 'fan', 'FvH4_2g09491' => 'fve', 'FvH4_3g24910' => 'fve', 'FvH4_4g15630' => 'fve', 'FvH4_5g28820' => 'fve', 'Glyma.01G238000' => 'gma', 'Glyma.05G168400' => 'gma', 'Glyma.08G126800' => 'gma', 'Glyma.08G188500' => 'gma', 'Glyma.10G278900' => 'gma', 'Glyma.11G005700' => 'gma', 'Glyma.11G183300' => 'gma', 'Glyma.12G089200' => 'gma', 'Glyma.12G169400' => 'gma', 'Glyma.12G169500' => 'gma', 'Glyma.12G169600' => 'gma', 'Glyma.20G110800' => 'gma', 'Gohir.A03G192900' => 'ghi', 'Gohir.A03G193000' => 'ghi', 'Gohir.A05G080700' => 'ghi', 'Gohir.A09G216000' => 'ghi', 'Gohir.A12G027700' => 'ghi', 'Gohir.A13G036200' => 'ghi', 'Gohir.A13G222600' => 'ghi', 'Gohir.D02G213900' => 'ghi', 'Gohir.D02G214000' => 'ghi', 'Gohir.D05G083700' => 'ghi', 'Gohir.D05G083800' => 'ghi', 'Gohir.D05G083850' => 'ghi', 'Gohir.D08G015400' => 'ghi', 'Gohir.D09G218400' => 'ghi', 'Gohir.D12G027100' => 'ghi', 'Gohir.D13G034500' => 'ghi', 'Gohir.D13G227400' => 'ghi', 'Gorai.005G241800' => 'gra', 'Gorai.005G241900' => 'gra', 'Gorai.006G239400' => 'gra', 'Gorai.008G027600' => 'gra', 'Gorai.009G085400' => 'gra', 'Gorai.009G085500' => 'gra', 'Gorai.013G039000' => 'gra', 'Gorai.013G194800' => 'gra', 'Gorai.013G257900' => 'gra', 'GSVIVG01000982001' => 'vvi', 'GSVIVG01017981001' => 'vvi', 'HanXRQChr01g0024061' => 'han', 'HanXRQChr09g0247831' => 'han', 'HanXRQChr10g0294611' => 'han', 'HanXRQChr10g0294621' => 'han', 'HanXRQChr11g0346821' => 'han', 'HanXRQChr13g0397461' => 'han', 'HanXRQChr16g0513651' => 'han', 'HanXRQChr16g0513701' => 'han', 'Haze_00897' => 'cav', 'Haze_01745' => 'cav', 'Haze_02486' => 'cav', 'Haze_02487' => 'cav', 'Haze_23374' => 'cav', 'Hma1.2p1_0578F.1_g182520' => 'hma', 'Hma1.2p1_0602F.1_g187350' => 'hma', 'Hma1.2p1_0602F.1_g187360' => 'hma', 'Hma1.2p1_0874F.1_g231320' => 'hma', 'Hma1.2p1_1197F.1_g266210' => 'hma', 'Hma1.2p1_1197F.1_g266220' => 'hma', 'Hma1.2p1_2167F.1_g315895' => 'hma', 'Hma1.2p1_2190F.1_g316640' => 'hma', 'Hma1.2p1_3645F.1_g337153' => 'hma', 'HPP92_004907' => 'vpl', 'HPP92_012134' => 'vpl', 'HPP92_025136' => 'vpl', 'HPP92_026087' => 'vpl', 'Hund06782' => 'sun', 'Hund06784' => 'sun', 'Lalb_Chr01g0004861' => 'lal', 'Lalb_Chr02g0140591' => 'lal', 'Lalb_Chr02g0140611' => 'lal', 'Lalb_Chr03g0028101' => 'lal', 'Lalb_Chr07g0185791' => 'lal', 'Lalb_Chr12g0204491' => 'lal', 'Lalb_Chr13g0295671' => 'lal', 'Lalb_Chr19g0136461' => 'lal', 'Lalb_Chr21g0309191' => 'lal', 'Lj1g0028158' => 'lja', 'Lj1P236T38' => 'lonja', 'Lj2C32G2' => 'lonja', 'Lj2P944T8' => 'lonja', 'Lj2P963T15' => 'lonja', 'Lj3g0011788' => 'lja', 'Lj4g0025027' => 'lja', 'Lj5P255T36' => 'lonja', 'Lj6g0018866' => 'lja', 'Lj6P608T31' => 'lonja', 'LjContig00408g0008879' => 'lja', 'Lsat_1_v5_gn_5_105820' => 'lsa', 'Lsat_1_v5_gn_6_38800' => 'lsa', 'Lsat_1_v5_gn_7_67141' => 'lsa', 'Manes.04G003400' => 'mes', 'Manes.07G020000' => 'mes', 'Manes.07G020100' => 'mes', 'Manes.07G020150' => 'mes', 'Manes.10G061500' => 'mes', 'Manes.10G123200' => 'mes', 'Manes.11G161900' => 'mes', 'Manes.15G029300' => 'mes', 'Mapoly0071s0018' => 'mpo', 'Mapoly0082s0023' => 'mpo', 'Mapoly3477s0001' => 'mpo', 'MBI05_g31233_MAGBIO' => 'mbi', 'MBI09_g05946_MAGBIO' => 'mbi', 'MBI09_g05947_MAGBIO' => 'mbi', 'MBI17_g08346_MAGBIO' => 'mbi', 'MCO04G038' => 'mco', 'MCO09G370' => 'mco', 'MCO13G605' => 'mco', 'MD00G1075500' => 'mdo', 'MD03G1144300' => 'mdo', 'MD08G1236800' => 'mdo', 'MD13G1193300' => 'mdo', 'MD15G1428700' => 'mdo', 'Medtr1g112030' => 'mtr', 'Medtr1g112050' => 'mtr', 'Medtr2g006290' => 'mtr', 'Medtr2g086510' => 'mtr', 'Medtr4g053120' => 'mtr', 'Medtr5g006320' => 'mtr', 'Medtr8g088720' => 'mtr', 'MELO3C004712.2' => 'cme', 'MELO3C006533.2' => 'cme', 'MELO3C019438.2' => 'cme', 'MELO3C019440.2' => 'cme', 'MELO3C019441.2' => 'cme', 'MELO3C019895.2' => 'cme', 'Migut.B00811' => 'egut', 'Migut.D02447' => 'egut', 'Migut.F00875' => 'egut', 'Migut.N00186' => 'egut', 'Migut.N01051' => 'egut', 'Migut.N02491' => 'egut', 'Migut.O00784' => 'egut', 'MSTRG.12367' => 'ama', 'MSTRG.18756' => 'ama', 'MSTRG.21042' => 'ama', 'Nitab4.5_0000559g0040' => 'nta', 'Nitab4.5_0000667g0190' => 'nta', 'Nitab4.5_0000755g0160' => 'nta', 'Nitab4.5_0001216g0080' => 'nta', 'Nitab4.5_0004069g0040' => 'nta', 'Nitab4.5_0004129g0010' => 'nta', 'Nitab4.5_0005744g0030' => 'nta', 'Nitab4.5_0006996g0030' => 'nta', 'Nitab4.5_0008971g0040' => 'nta', 'Nitab4.5_0009769g0020' => 'nta', 'Nitab4.5_0009833g0010' => 'nta', 'Nitab4.5_0013140g0020' => 'nta', 'Nn003s41376' => 'nnu', 'Nn1g01857' => 'nnu', 'Nn1g03611' => 'nnu', 'Nn1g06853' => 'nnu', 'Nn3g18360' => 'nnu', 'Nn4g26328' => 'nnu', 'Nn5g27531' => 'nnu', 'Nn6g34899' => 'nnu', 'Nn7g36299' => 'nnu', 'Oeu021485.1' => 'oeu', 'Oeu022433.1' => 'oeu', 'Oeu032111.1' => 'oeu', 'Oeu051608.1' => 'oeu', 'Os01g0860601' => 'osa', 'Os03g0659200' => 'osa', 'Os03g0835900' => 'osa', 'Os04g0412200' => 'osa', 'Os05g0443500' => 'osa', 'Os07g0251500' => 'osa', 'Os08g0104600' => 'osa', 'Peaxi162Scf00003g00047' => 'pax', 'Peaxi162Scf00003g00052' => 'pax', 'Peaxi162Scf00003g00394' => 'pax', 'Peaxi162Scf00091g00621' => 'pax', 'Peaxi162Scf00152g00146' => 'pax', 'Peaxi162Scf00173g00025' => 'pax', 'Peaxi162Scf00195g00102' => 'pax', 'Peaxi162Scf00402g00013' => 'pax', 'Peaxi162Scf00519g00618' => 'pax', 'PGR004G2838' => 'pgr', 'PGR044G2275' => 'pgr', 'PGR102G1377' => 'pgr', 'PGR119G1245' => 'pgr', 'PGR142G4449' => 'pgr', 'PGSC0003DMG400004532' => 'stu', 'PGSC0003DMG400011950' => 'stu', 'PGSC0003DMG400023391' => 'stu', 'PGSC0003DMG400023985' => 'stu', 'PGSC0003DMG400026360' => 'stu', 'PGSC0003DMG400035711' => 'stu', 'PGSC0003DMG400037286' => 'stu', 'PGSC0003DMG402005881' => 'stu', 'Phvul.002G045400' => 'pvu', 'Phvul.006G216600' => 'pvu', 'Phvul.006G216700' => 'pvu', 'Phvul.006G216800' => 'pvu', 'Phvul.007G022500' => 'pvu', 'Phvul.011G094400' => 'pvu', 'Potri.001G470700' => 'ptr', 'Potri.003G015200' => 'ptr', 'Potri.004G202500' => 'ptr', 'Potri.004G218400' => 'ptr', 'Potri.008G020100' => 'ptr', 'Potri.008G153200' => 'ptr', 'Potri.009G163800' => 'ptr', 'Potri.010G087300' => 'ptr', 'Potri.010G239100' => 'ptr', 'Pp3c10_16100' => 'ppa', 'Pp3c10_16880' => 'ppa', 'Pp3c16_6230' => 'ppa', 'Pp3c17_18910' => 'ppa', 'Pp3c3_22119' => 'ppa', 'Pp3c3_22140' => 'ppa', 'Pp3c4_8159' => 'ppa', 'Pp3c4_8171' => 'ppa', 'Pp3c4_8330' => 'ppa', 'PRCOL_00004098' => 'pco', 'Prupe.1G013900' => 'ppe', 'Prupe.1G226300' => 'ppe', 'Prupe.1G573600' => 'ppe', 'Prupe.6G130100' => 'ppe', 'Psat3g090040' => 'psa', 'Psat4g210440' => 'psa', 'Psat6g231040' => 'psa', 'Psat6g231080' => 'psa', 'Psat7g063000' => 'psa', 'Psat7g188000' => 'psa', 'Psat7g188040' => 'psa', 'PSO017G0206' => 'pso', 'PSO170G0501' => 'pso', 'PSO170G6422' => 'pso', 'PSO210G7739' => 'pso', 'PSO339G1808' => 'pso', 'PSO339G6135' => 'pso', 'PSO384G0010' => 'pso', 'PSO384G0964' => 'pso', 'PSO761G0050' => 'pso', 'PSO782G4085' => 'pso', 'QL01p012264' => 'qlo', 'QL02p099491' => 'qlo', 'QL03p033868' => 'qlo', 'QL04p046678' => 'qlo', 'QL06p002448' => 'qlo', 'RcHm_v2.0_Chr4g0416181' => 'rch', 'RcHm_v2.0_Chr5g0044701' => 'rch', 'RcHm_v2.0_Chr6g0265781' => 'rch', 'RcHm_v2.0_Chr7g0221031' => 'rch', 'Rhsim04G0202000' => 'rsi', 'Rhsim11G0127300' => 'rsi', 'Rhsim13G0111800' => 'rsi', 'Sabra01G0165600' => 'sbr', 'Sabra03G0008300' => 'sbr', 'Sabra04G0136900' => 'sbr', 'Sabra08G0013400' => 'sbr', 'Sabra08G0116800' => 'sbr', 'Sabra09G0128000' => 'sbr', 'Sabra10G0055500' => 'sbr', 'Sabra10G0073300' => 'sbr', 'SalBow3G0385' => 'sbo', 'SalBow3G1119' => 'sbo', 'SalBow3G2005' => 'sbo', 'SalBow6G2563' => 'sbo', 'SalBow6G6386' => 'sbo', 'Sc06g0008800' => 'sci', 'Sc07g0004950' => 'sci', 'Sc09g0005340' => 'sci', 'Sc13g0004410' => 'sci', 'Sc21g0007090' => 'sci', 'Sed0009285' => 'sed', 'Sed0017583' => 'sed', 'Sed0019699' => 'sed', 'Sed0023107' => 'sed', 'SEGI_10916' => 'sgi', 'SEGI_16217' => 'sgi', 'SEGI_19466' => 'sgi', 'SEGI_41115' => 'sgi', 'SGA_v2.0_scaffold111G31534' => 'sas', 'SGA_v2.0_scaffold22G09864' => 'sas', 'SGA_v2.0_scaffold338G49219' => 'sas', 'SGA_v2.0_scaffold92G28298' => 'sas', 'SMO119G0064' => 'smo', 'SMO223G0038' => 'smo', 'SMO347G0584' => 'smo', 'SMO351G0010' => 'smo', 'SMO356G0404' => 'smo', 'Solyc01g103920.3' => 'sly', 'Solyc04g009710.2' => 'sly', 'Solyc05g055280.2' => 'sly', 'Solyc10g044520.3' => 'sly', 'Solyc10g075160.1' => 'sly', 'Solyc11g006910.3' => 'sly', 'Solyc11g068430.3' => 'sly', 'Sopen01g046310' => 'spe', 'Sopen03g001200' => 'spe', 'Sopen04g004830' => 'spe', 'Sopen05g033720' => 'spe', 'Sopen06g030740' => 'spe', 'Sopen10g013090' => 'spe', 'Sopen10g027630' => 'spe', 'Sopen10g027640' => 'spe', 'Sopen11g002820' => 'spe', 'Sopen11g027140' => 'spe', 'Sp1g09680' => 'spa', 'Sp2g03630' => 'spa', 'Sp4g10320' => 'spa', 'Sp6g33400' => 'spa', 'Sp7g13030' => 'spa', 'TAR365G0317' => 'tar', 'TAR376G0979' => 'tar', 'TAR623G1665' => 'tar', 'TAR633G2373' => 'tar', 'TAR636G1400' => 'tar', 'THA.LOC104800529' => 'tha', 'THA.LOC104808547' => 'tha', 'THA.LOC104809615' => 'tha', 'THA.LOC104815724' => 'tha', 'THA.LOC104818480' => 'tha', 'THA.LOC104819179' => 'tha', 'THA.LOC104822270' => 'tha', 'THA.LOC104826425' => 'tha', 'Thecc.02G089700' => 'tca', 'Thecc.04G232300' => 'tca', 'Thecc.09G283400' => 'tca', 'Thhalv10009020m.g' => 'esa', 'Thhalv10015506m.g' => 'esa', 'Thhalv10017364m.g' => 'esa', 'Thhalv10023742m.g' => 'esa', 'Thhalv10026483m.g' => 'esa', 'TPR.G17232' => 'tpr', 'TPR.G2133' => 'tpr', 'TPR.G2498' => 'tpr', 'TPR.G31942' => 'tpr', 'TPR.G37877' => 'tpr', 'TPR.G4571' => 'tpr', 'TWI14G1113' => 'twi', 'TWI15G0426' => 'twi', 'TWI31G1005' => 'twi', 'TWI38G0513' => 'twi', 'TWI38G1484' => 'twi', 'TWI73G1098' => 'twi', 'unitig_26.g10519' => 'ugi', 'unitig_736.g22395' => 'ugi', 'unitig_747.g21234' => 'ugi', 'unitig_747.g21942' => 'ugi', 'vmacro14351' => 'vma', 'VMungo0540G0082' => 'vmu', 'VMungo0540G0405' => 'vmu', 'VMungo0540G1486' => 'vmu', 'VMungo0540G1692' => 'vmu', 'VMungo0720G2473' => 'vmu', 'VMungo1127G1562' => 'vmu', 'VMungo1215G1918' => 'vmu', 'Zm00001eb052650' => 'zma', 'Zm00001eb063710' => 'zma', 'Zm00001eb083950' => 'zma', 'Zm00001eb174420' => 'zma', 'Zm00001eb260140' => 'zma', 'Zm00001eb260150' => 'zma', 'Zm00001eb260160' => 'zma', 'Zm00001eb348290' => 'zma', 'Zm00001eb366870' => 'zma', 'Zm00001eb421930' => 'zma' ), 'gf_id' => 'HOM05D001025', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001025' ), 'data_identifier' => 'HOM05D001025', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001025', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '592', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p22650' => 'bna', 'A01p29720' => 'bna', 'A03p26560' => 'bna', 'A03p68820' => 'bna', 'A04p20980' => 'bna', 'A06p07730' => 'bna', 'A07p18260' => 'bna', 'A08p33710' => 'bna', 'A09p16970' => 'bna', 'A10p27490' => 'bna', 'Aa31LG1G17300' => 'aar', 'Aa31LG1G3910' => 'aar', 'Aa31LG2G9630' => 'aar', 'Aa31LG5G8360' => 'aar', 'Aa31LG9G2410' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4699' => 'aag', 'Actinidia23512' => 'ach', 'Actinidia37080' => 'ach', 'Ah.01g020380' => 'amhyb', 'Ah.08g215710' => 'amhyb', 'Ah.09g225110' => 'amhyb', 'Ah.10g036680' => 'amhyb', 'AL1G21940' => 'aly', 'AL2G15540' => 'aly', 'AL4G21520' => 'aly', 'AL7G40960' => 'aly', 'Aqoxy2G01191' => 'aox', 'Aqoxy2G03393' => 'aox', 'Aqoxy4G02775' => 'aox', 'Aqoxy6G00058' => 'aox', 'arahy.Tifrunner.gnm1.ann1.9X74H2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CW3FX9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R485W7' => 'arhy', 'AT1G10960' => 'ath', 'AT1G60950' => 'ath', 'AT2G27510' => 'ath', 'AT4G14890' => 'ath', 'AT5G10000' => 'ath', 'ATR0665G624' => 'atr', 'ATR0697G138' => 'atr', 'ATR0776G046' => 'atr', 'ATR1134G135' => 'atr', 'Atru.chr12.1025' => 'acertr', 'Atru.chr3.3241' => 'acertr', 'Atru.chr4.2460' => 'acertr', 'AUR62007427' => 'cqu', 'AUR62010960' => 'cqu', 'AUR62012201' => 'cqu', 'AUR62021470' => 'cqu', 'AUR62022834' => 'cqu', 'AUR62033635' => 'cqu', 'AUR62036186' => 'cqu', 'BcaB01g03077' => 'bca', 'BcaB02g10093' => 'bca', 'BcaB04g20295' => 'bca', 'BcaB06g28147' => 'bca', 'BcaB07g31253' => 'bca', 'BcaC01g04946' => 'bca', 'BcaC02g10614' => 'bca', 'BcaC02g10885' => 'bca', 'BcaC04g19356' => 'bca', 'BcaC04g22297' => 'bca', 'BcaC05g24977' => 'bca', 'BcaC06g31823' => 'bca', 'BcaC07g38633' => 'bca', 'BcaC09g49353' => 'bca', 'BcaC09g50168' => 'bca', 'BcaNung00322' => 'bca', 'BcaNung04769' => 'bca', 'BolC1t02753H' => 'bol', 'BolC1t03721H' => 'bol', 'BolC3t15525H' => 'bol', 'BolC4t23903H' => 'bol', 'BolC4t24231H' => 'bol', 'BolC4t27209H' => 'bol', 'BolC5t29671H' => 'bol', 'BolC8t49044H' => 'bol', 'BolC9t54999H' => 'bol', 'BolC9t59517H' => 'bol', 'BraA01t02178Z' => 'bra', 'BraA01t03099Z' => 'bra', 'BraA03t11867Z' => 'bra', 'BraA04t17667Z' => 'bra', 'BraA07t29542Z' => 'bra', 'BraA08t35287Z' => 'bra', 'BraA09t37334Z' => 'bra', 'BraA10t44801Z' => 'bra', 'BraSC39t46181Z' => 'bra', 'C01p28240' => 'bna', 'C01p37530' => 'bna', 'C03p31820' => 'bna', 'C04p24080' => 'bna', 'C04p25790' => 'bna', 'C04p56770' => 'bna', 'C05p09310' => 'bna', 'C09p21010' => 'bna', 'C09p67560' => 'bna', 'CAN.G1324.7' => 'can', 'CAN.G1358.10' => 'can', 'CAN.G1550.2' => 'can', 'CAN.G186.56' => 'can', 'CAN.G1965.1' => 'can', 'CAN.G645.15' => 'can', 'CAN.G798.26' => 'can', 'CAN.G798.27' => 'can', 'CAN.G798.29' => 'can', 'CAN.G919.31' => 'can', 'CANSAT11G0133' => 'cansat', 'CANSAT11G1171' => 'cansat', 'CANSAT11G2056' => 'cansat', 'CANSAT56G1202' => 'cansat', 'CANSAT56G1514' => 'cansat', 'CANSAT78G0455' => 'cansat', 'CARHR011190' => 'chi', 'CARHR051980' => 'chi', 'CARHR120170' => 'chi', 'CARHR203310' => 'chi', 'CARHR221490' => 'chi', 'Carub.0001s1054' => 'cru', 'Carub.0002s0431' => 'cru', 'Carub.0004s0818' => 'cru', 'Carub.0006s0846' => 'cru', 'Carub.0007s2722' => 'cru', 'Ca_00058_v3' => 'car', 'Ca_17831_v3' => 'car', 'Ca_19408_v3' => 'car', 'Ca_24397_v3' => 'car', 'Ca_25664_v3' => 'car', 'CBR_g21818' => 'cbr', 'CBR_g31195' => 'cbr', 'CBR_g32282' => 'cbr', 'CBR_g39599' => 'cbr', 'CBR_g49410' => 'cbr', 'Cc01_g09120' => 'ccan', 'Cc01_g09130' => 'ccan', 'Cc02_g09630' => 'ccan', 'Cc02_g22810' => 'ccan', 'Cc03_g03810' => 'ccan', 'CDE02G3718' => 'cde', 'CDE04G3183' => 'cde', 'CDE07G1046' => 'cde', 'CDE08G0480' => 'cde', 'Cfa005493' => 'cfa', 'Cfa010312' => 'cfa', 'Cfa015648' => 'cfa', 'Ciclev10002793m.g' => 'ccl', 'Ciclev10003356m.g' => 'ccl', 'Ciclev10006141m.g' => 'ccl', 'Ciclev10016676m.g' => 'ccl', 'Ciclev10017081m.g' => 'ccl', 'Ciclev10029499m.g' => 'ccl', 'CiPaw.01G166300' => 'cil', 'CiPaw.06G145600' => 'cil', 'CiPaw.13G040100' => 'cil', 'CiPaw.13G135800' => 'cil', 'ClCG01G012230' => 'cla', 'ClCG05G009510' => 'cla', 'ClCG08G008270' => 'cla', 'COL.COLO4_11763' => 'col', 'COL.COLO4_19876' => 'col', 'COL.COLO4_21481' => 'col', 'Cpa.g.sc118.34' => 'cpa', 'Cpa.g.sc32.13' => 'cpa', 'Cpa.g.sc58.103' => 'cpa', 'Cre03.g183850' => 'cre', 'Cre06.g306350' => 'cre', 'Cre07.g334800' => 'cre', 'Cre12.g487900' => 'cre', 'Cre14.g626700' => 'cre', 'Cre16.g658400' => 'cre', 'Cre17.g700950' => 'cre', 'CsaV3_1G014830' => 'csa', 'CsaV3_3G013320' => 'csa', 'CsaV3_3G019210' => 'csa', 'CsaV3_3G019220' => 'csa', 'CsaV3_6G004230' => 'csa', 'CSS0003773' => 'camsi', 'CSS0004563' => 'camsi', 'CSS0013949' => 'camsi', 'CSS0025971' => 'camsi', 'CSS0028570' => 'camsi', 'CSS0033127' => 'camsi', 'CSS0036051' => 'camsi', 'CSS0040087' => 'camsi', 'CSS0043179' => 'camsi', 'DCAR_006161' => 'dca', 'DCAR_010351' => 'dca', 'DCAR_012197' => 'dca', 'DCAR_024162' => 'dca', 'Dinv01030' => 'din', 'Dinv10924' => 'din', 'Dinv11835' => 'din', 'Dinv22841' => 'din', 'Dinv42553' => 'din', 'Duzib052G0560' => 'dzi', 'Duzib132G0389' => 'dzi', 'Duzib150G1181' => 'dzi', 'Duzib168G0623' => 'dzi', 'Duzib170G1036' => 'dzi', 'Duzib212G0200' => 'dzi', 'Duzib248G0194' => 'dzi', 'ECA232G2193' => 'eca', 'ECA233G0302' => 'eca', 'ECA234G2813' => 'eca', 'ECA234G4866' => 'eca', 'ECA240G3932' => 'eca', 'ECA248G0385' => 'eca', 'EL10Ac2g04781' => 'bvu', 'EL10Ac3g06445' => 'bvu', 'EL10Ac7g15825' => 'bvu', 'EL10Ac8g18550' => 'bvu', 'Eucgr.B03849' => 'egr', 'Eucgr.I02744' => 'egr', 'Eucgr.J00264' => 'egr', 'Eucgr.J00493' => 'egr', 'FAN04G2181' => 'fan', 'FAN07G2666' => 'fan', 'FAN11G0024' => 'fan', 'FAN12G1105' => 'fan', 'FAN13G0302' => 'fan', 'FAN15G2781' => 'fan', 'FAN16G1274' => 'fan', 'FAN17G2988' => 'fan', 'FAN18G2621' => 'fan', 'FAN21G0013' => 'fan', 'FAN22G1211' => 'fan', 'FAN25G3626' => 'fan', 'FvH4_2g09491' => 'fve', 'FvH4_3g24910' => 'fve', 'FvH4_4g15630' => 'fve', 'FvH4_5g28820' => 'fve', 'Glyma.01G238000' => 'gma', 'Glyma.05G168400' => 'gma', 'Glyma.08G126800' => 'gma', 'Glyma.08G188500' => 'gma', 'Glyma.10G278900' => 'gma', 'Glyma.11G005700' => 'gma', 'Glyma.11G183300' => 'gma', 'Glyma.12G089200' => 'gma', 'Glyma.12G169400' => 'gma', 'Glyma.12G169500' => 'gma', 'Glyma.12G169600' => 'gma', 'Glyma.20G110800' => 'gma', 'Gohir.A03G192900' => 'ghi', 'Gohir.A03G193000' => 'ghi', 'Gohir.A05G080700' => 'ghi', 'Gohir.A09G216000' => 'ghi', 'Gohir.A12G027700' => 'ghi', 'Gohir.A13G036200' => 'ghi', 'Gohir.A13G222600' => 'ghi', 'Gohir.D02G213900' => 'ghi', 'Gohir.D02G214000' => 'ghi', 'Gohir.D05G083700' => 'ghi', 'Gohir.D05G083800' => 'ghi', 'Gohir.D05G083850' => 'ghi', 'Gohir.D08G015400' => 'ghi', 'Gohir.D09G218400' => 'ghi', 'Gohir.D12G027100' => 'ghi', 'Gohir.D13G034500' => 'ghi', 'Gohir.D13G227400' => 'ghi', 'Gorai.005G241800' => 'gra', 'Gorai.005G241900' => 'gra', 'Gorai.006G239400' => 'gra', 'Gorai.008G027600' => 'gra', 'Gorai.009G085400' => 'gra', 'Gorai.009G085500' => 'gra', 'Gorai.013G039000' => 'gra', 'Gorai.013G194800' => 'gra', 'Gorai.013G257900' => 'gra', 'GSVIVG01000982001' => 'vvi', 'GSVIVG01017981001' => 'vvi', 'HanXRQChr01g0024061' => 'han', 'HanXRQChr09g0247831' => 'han', 'HanXRQChr10g0294611' => 'han', 'HanXRQChr10g0294621' => 'han', 'HanXRQChr11g0346821' => 'han', 'HanXRQChr13g0397461' => 'han', 'HanXRQChr16g0513651' => 'han', 'HanXRQChr16g0513701' => 'han', 'Haze_00897' => 'cav', 'Haze_01745' => 'cav', 'Haze_02486' => 'cav', 'Haze_02487' => 'cav', 'Haze_23374' => 'cav', 'Hma1.2p1_0578F.1_g182520' => 'hma', 'Hma1.2p1_0602F.1_g187350' => 'hma', 'Hma1.2p1_0602F.1_g187360' => 'hma', 'Hma1.2p1_0874F.1_g231320' => 'hma', 'Hma1.2p1_1197F.1_g266210' => 'hma', 'Hma1.2p1_1197F.1_g266220' => 'hma', 'Hma1.2p1_2167F.1_g315895' => 'hma', 'Hma1.2p1_2190F.1_g316640' => 'hma', 'Hma1.2p1_3645F.1_g337153' => 'hma', 'HPP92_004907' => 'vpl', 'HPP92_012134' => 'vpl', 'HPP92_025136' => 'vpl', 'HPP92_026087' => 'vpl', 'Hund06782' => 'sun', 'Hund06784' => 'sun', 'Lalb_Chr01g0004861' => 'lal', 'Lalb_Chr02g0140591' => 'lal', 'Lalb_Chr02g0140611' => 'lal', 'Lalb_Chr03g0028101' => 'lal', 'Lalb_Chr07g0185791' => 'lal', 'Lalb_Chr12g0204491' => 'lal', 'Lalb_Chr13g0295671' => 'lal', 'Lalb_Chr19g0136461' => 'lal', 'Lalb_Chr21g0309191' => 'lal', 'Lj1g0028158' => 'lja', 'Lj1P236T38' => 'lonja', 'Lj2C32G2' => 'lonja', 'Lj2P944T8' => 'lonja', 'Lj2P963T15' => 'lonja', 'Lj3g0011788' => 'lja', 'Lj4g0025027' => 'lja', 'Lj5P255T36' => 'lonja', 'Lj6g0018866' => 'lja', 'Lj6P608T31' => 'lonja', 'LjContig00408g0008879' => 'lja', 'Lsat_1_v5_gn_5_105820' => 'lsa', 'Lsat_1_v5_gn_6_38800' => 'lsa', 'Lsat_1_v5_gn_7_67141' => 'lsa', 'Manes.04G003400' => 'mes', 'Manes.07G020000' => 'mes', 'Manes.07G020100' => 'mes', 'Manes.07G020150' => 'mes', 'Manes.10G061500' => 'mes', 'Manes.10G123200' => 'mes', 'Manes.11G161900' => 'mes', 'Manes.15G029300' => 'mes', 'Mapoly0071s0018' => 'mpo', 'Mapoly0082s0023' => 'mpo', 'Mapoly3477s0001' => 'mpo', 'MBI05_g31233_MAGBIO' => 'mbi', 'MBI09_g05946_MAGBIO' => 'mbi', 'MBI09_g05947_MAGBIO' => 'mbi', 'MBI17_g08346_MAGBIO' => 'mbi', 'MCO04G038' => 'mco', 'MCO09G370' => 'mco', 'MCO13G605' => 'mco', 'MD00G1075500' => 'mdo', 'MD03G1144300' => 'mdo', 'MD08G1236800' => 'mdo', 'MD13G1193300' => 'mdo', 'MD15G1428700' => 'mdo', 'Medtr1g112030' => 'mtr', 'Medtr1g112050' => 'mtr', 'Medtr2g006290' => 'mtr', 'Medtr2g086510' => 'mtr', 'Medtr4g053120' => 'mtr', 'Medtr5g006320' => 'mtr', 'Medtr8g088720' => 'mtr', 'MELO3C004712.2' => 'cme', 'MELO3C006533.2' => 'cme', 'MELO3C019438.2' => 'cme', 'MELO3C019440.2' => 'cme', 'MELO3C019441.2' => 'cme', 'MELO3C019895.2' => 'cme', 'Migut.B00811' => 'egut', 'Migut.D02447' => 'egut', 'Migut.F00875' => 'egut', 'Migut.N00186' => 'egut', 'Migut.N01051' => 'egut', 'Migut.N02491' => 'egut', 'Migut.O00784' => 'egut', 'MSTRG.12367' => 'ama', 'MSTRG.18756' => 'ama', 'MSTRG.21042' => 'ama', 'Nitab4.5_0000559g0040' => 'nta', 'Nitab4.5_0000667g0190' => 'nta', 'Nitab4.5_0000755g0160' => 'nta', 'Nitab4.5_0001216g0080' => 'nta', 'Nitab4.5_0004069g0040' => 'nta', 'Nitab4.5_0004129g0010' => 'nta', 'Nitab4.5_0005744g0030' => 'nta', 'Nitab4.5_0006996g0030' => 'nta', 'Nitab4.5_0008971g0040' => 'nta', 'Nitab4.5_0009769g0020' => 'nta', 'Nitab4.5_0009833g0010' => 'nta', 'Nitab4.5_0013140g0020' => 'nta', 'Nn003s41376' => 'nnu', 'Nn1g01857' => 'nnu', 'Nn1g03611' => 'nnu', 'Nn1g06853' => 'nnu', 'Nn3g18360' => 'nnu', 'Nn4g26328' => 'nnu', 'Nn5g27531' => 'nnu', 'Nn6g34899' => 'nnu', 'Nn7g36299' => 'nnu', 'Oeu021485.1' => 'oeu', 'Oeu022433.1' => 'oeu', 'Oeu032111.1' => 'oeu', 'Oeu051608.1' => 'oeu', 'Os01g0860601' => 'osa', 'Os03g0659200' => 'osa', 'Os03g0835900' => 'osa', 'Os04g0412200' => 'osa', 'Os05g0443500' => 'osa', 'Os07g0251500' => 'osa', 'Os08g0104600' => 'osa', 'Peaxi162Scf00003g00047' => 'pax', 'Peaxi162Scf00003g00052' => 'pax', 'Peaxi162Scf00003g00394' => 'pax', 'Peaxi162Scf00091g00621' => 'pax', 'Peaxi162Scf00152g00146' => 'pax', 'Peaxi162Scf00173g00025' => 'pax', 'Peaxi162Scf00195g00102' => 'pax', 'Peaxi162Scf00402g00013' => 'pax', 'Peaxi162Scf00519g00618' => 'pax', 'PGR004G2838' => 'pgr', 'PGR044G2275' => 'pgr', 'PGR102G1377' => 'pgr', 'PGR119G1245' => 'pgr', 'PGR142G4449' => 'pgr', 'PGSC0003DMG400004532' => 'stu', 'PGSC0003DMG400011950' => 'stu', 'PGSC0003DMG400023391' => 'stu', 'PGSC0003DMG400023985' => 'stu', 'PGSC0003DMG400026360' => 'stu', 'PGSC0003DMG400035711' => 'stu', 'PGSC0003DMG400037286' => 'stu', 'PGSC0003DMG402005881' => 'stu', 'Phvul.002G045400' => 'pvu', 'Phvul.006G216600' => 'pvu', 'Phvul.006G216700' => 'pvu', 'Phvul.006G216800' => 'pvu', 'Phvul.007G022500' => 'pvu', 'Phvul.011G094400' => 'pvu', 'Potri.001G470700' => 'ptr', 'Potri.003G015200' => 'ptr', 'Potri.004G202500' => 'ptr', 'Potri.004G218400' => 'ptr', 'Potri.008G020100' => 'ptr', 'Potri.008G153200' => 'ptr', 'Potri.009G163800' => 'ptr', 'Potri.010G087300' => 'ptr', 'Potri.010G239100' => 'ptr', 'Pp3c10_16100' => 'ppa', 'Pp3c10_16880' => 'ppa', 'Pp3c16_6230' => 'ppa', 'Pp3c17_18910' => 'ppa', 'Pp3c3_22119' => 'ppa', 'Pp3c3_22140' => 'ppa', 'Pp3c4_8159' => 'ppa', 'Pp3c4_8171' => 'ppa', 'Pp3c4_8330' => 'ppa', 'PRCOL_00004098' => 'pco', 'Prupe.1G013900' => 'ppe', 'Prupe.1G226300' => 'ppe', 'Prupe.1G573600' => 'ppe', 'Prupe.6G130100' => 'ppe', 'Psat3g090040' => 'psa', 'Psat4g210440' => 'psa', 'Psat6g231040' => 'psa', 'Psat6g231080' => 'psa', 'Psat7g063000' => 'psa', 'Psat7g188000' => 'psa', 'Psat7g188040' => 'psa', 'PSO017G0206' => 'pso', 'PSO170G0501' => 'pso', 'PSO170G6422' => 'pso', 'PSO210G7739' => 'pso', 'PSO339G1808' => 'pso', 'PSO339G6135' => 'pso', 'PSO384G0010' => 'pso', 'PSO384G0964' => 'pso', 'PSO761G0050' => 'pso', 'PSO782G4085' => 'pso', 'QL01p012264' => 'qlo', 'QL02p099491' => 'qlo', 'QL03p033868' => 'qlo', 'QL04p046678' => 'qlo', 'QL06p002448' => 'qlo', 'RcHm_v2.0_Chr4g0416181' => 'rch', 'RcHm_v2.0_Chr5g0044701' => 'rch', 'RcHm_v2.0_Chr6g0265781' => 'rch', 'RcHm_v2.0_Chr7g0221031' => 'rch', 'Rhsim04G0202000' => 'rsi', 'Rhsim11G0127300' => 'rsi', 'Rhsim13G0111800' => 'rsi', 'Sabra01G0165600' => 'sbr', 'Sabra03G0008300' => 'sbr', 'Sabra04G0136900' => 'sbr', 'Sabra08G0013400' => 'sbr', 'Sabra08G0116800' => 'sbr', 'Sabra09G0128000' => 'sbr', 'Sabra10G0055500' => 'sbr', 'Sabra10G0073300' => 'sbr', 'SalBow3G0385' => 'sbo', 'SalBow3G1119' => 'sbo', 'SalBow3G2005' => 'sbo', 'SalBow6G2563' => 'sbo', 'SalBow6G6386' => 'sbo', 'Sc06g0008800' => 'sci', 'Sc07g0004950' => 'sci', 'Sc09g0005340' => 'sci', 'Sc13g0004410' => 'sci', 'Sc21g0007090' => 'sci', 'Sed0009285' => 'sed', 'Sed0017583' => 'sed', 'Sed0019699' => 'sed', 'Sed0023107' => 'sed', 'SEGI_10916' => 'sgi', 'SEGI_16217' => 'sgi', 'SEGI_19466' => 'sgi', 'SEGI_41115' => 'sgi', 'SGA_v2.0_scaffold111G31534' => 'sas', 'SGA_v2.0_scaffold22G09864' => 'sas', 'SGA_v2.0_scaffold338G49219' => 'sas', 'SGA_v2.0_scaffold92G28298' => 'sas', 'SMO119G0064' => 'smo', 'SMO223G0038' => 'smo', 'SMO347G0584' => 'smo', 'SMO351G0010' => 'smo', 'SMO356G0404' => 'smo', 'Solyc01g103920.3' => 'sly', 'Solyc04g009710.2' => 'sly', 'Solyc05g055280.2' => 'sly', 'Solyc10g044520.3' => 'sly', 'Solyc10g075160.1' => 'sly', 'Solyc11g006910.3' => 'sly', 'Solyc11g068430.3' => 'sly', 'Sopen01g046310' => 'spe', 'Sopen03g001200' => 'spe', 'Sopen04g004830' => 'spe', 'Sopen05g033720' => 'spe', 'Sopen06g030740' => 'spe', 'Sopen10g013090' => 'spe', 'Sopen10g027630' => 'spe', 'Sopen10g027640' => 'spe', 'Sopen11g002820' => 'spe', 'Sopen11g027140' => 'spe', 'Sp1g09680' => 'spa', 'Sp2g03630' => 'spa', 'Sp4g10320' => 'spa', 'Sp6g33400' => 'spa', 'Sp7g13030' => 'spa', 'TAR365G0317' => 'tar', 'TAR376G0979' => 'tar', 'TAR623G1665' => 'tar', 'TAR633G2373' => 'tar', 'TAR636G1400' => 'tar', 'THA.LOC104800529' => 'tha', 'THA.LOC104808547' => 'tha', 'THA.LOC104809615' => 'tha', 'THA.LOC104815724' => 'tha', 'THA.LOC104818480' => 'tha', 'THA.LOC104819179' => 'tha', 'THA.LOC104822270' => 'tha', 'THA.LOC104826425' => 'tha', 'Thecc.02G089700' => 'tca', 'Thecc.04G232300' => 'tca', 'Thecc.09G283400' => 'tca', 'Thhalv10009020m.g' => 'esa', 'Thhalv10015506m.g' => 'esa', 'Thhalv10017364m.g' => 'esa', 'Thhalv10023742m.g' => 'esa', 'Thhalv10026483m.g' => 'esa', 'TPR.G17232' => 'tpr', 'TPR.G2133' => 'tpr', 'TPR.G2498' => 'tpr', 'TPR.G31942' => 'tpr', 'TPR.G37877' => 'tpr', 'TPR.G4571' => 'tpr', 'TWI14G1113' => 'twi', 'TWI15G0426' => 'twi', 'TWI31G1005' => 'twi', 'TWI38G0513' => 'twi', 'TWI38G1484' => 'twi', 'TWI73G1098' => 'twi', 'unitig_26.g10519' => 'ugi', 'unitig_736.g22395' => 'ugi', 'unitig_747.g21234' => 'ugi', 'unitig_747.g21942' => 'ugi', 'vmacro14351' => 'vma', 'VMungo0540G0082' => 'vmu', 'VMungo0540G0405' => 'vmu', 'VMungo0540G1486' => 'vmu', 'VMungo0540G1692' => 'vmu', 'VMungo0720G2473' => 'vmu', 'VMungo1127G1562' => 'vmu', 'VMungo1215G1918' => 'vmu', 'Zm00001eb052650' => 'zma', 'Zm00001eb063710' => 'zma', 'Zm00001eb083950' => 'zma', 'Zm00001eb174420' => 'zma', 'Zm00001eb260140' => 'zma', 'Zm00001eb260150' => 'zma', 'Zm00001eb260160' => 'zma', 'Zm00001eb348290' => 'zma', 'Zm00001eb366870' => 'zma', 'Zm00001eb421930' => 'zma' ) $gf_id = 'HOM05D001025' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001025' ) $data_identifier = 'HOM05D001025' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 19, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 2, 'amhyb' => (int) 4, 'aly' => (int) 4, 'aox' => (int) 4, 'arhy' => (int) 3, 'ath' => (int) 5, 'atr' => (int) 4, 'acertr' => (int) 3, 'cqu' => (int) 7, 'bca' => (int) 17, 'bol' => (int) 10, 'bra' => (int) 9, 'can' => (int) 10, 'cansat' => (int) 6, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 5, 'cbr' => (int) 5, 'ccan' => (int) 5, 'cde' => (int) 4, 'cfa' => (int) 3, 'ccl' => (int) 6, 'cil' => (int) 4, 'cla' => (int) 3, 'col' => (int) 3, 'cpa' => (int) 3, 'cre' => (int) 7, 'csa' => (int) 5, 'camsi' => (int) 9, 'dca' => (int) 4, 'din' => (int) 5, 'dzi' => (int) 7, 'eca' => (int) 6, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 12, 'fve' => (int) 4, 'gma' => (int) 12, 'ghi' => (int) 17, 'gra' => (int) 9, 'vvi' => (int) 2, 'han' => (int) 8, 'cav' => (int) 5, 'hma' => (int) 9, 'vpl' => (int) 4, 'sun' => (int) 2, 'lal' => (int) 9, 'lja' => (int) 5, 'lonja' => (int) 6, 'lsa' => (int) 3, 'mes' => (int) 8, 'mpo' => (int) 3, 'mbi' => (int) 4, 'mco' => (int) 3, 'mdo' => (int) 5, 'mtr' => (int) 7, 'cme' => (int) 6, 'egut' => (int) 7, 'ama' => (int) 3, 'nta' => (int) 12, 'nnu' => (int) 9, 'oeu' => (int) 4, 'osa' => (int) 7, 'pax' => (int) 9, 'pgr' => (int) 5, 'stu' => (int) 8, 'pvu' => (int) 6, 'ptr' => (int) 9, 'ppa' => (int) 9, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 7, 'pso' => (int) 10, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 3, 'sbr' => (int) 8, 'sbo' => (int) 5, 'sci' => (int) 5, 'sed' => (int) 4, 'sgi' => (int) 4, 'sas' => (int) 4, 'smo' => (int) 5, 'sly' => (int) 7, 'spe' => (int) 10, 'spa' => (int) 5, 'tar' => (int) 5, 'tha' => (int) 8, 'tca' => (int) 3, 'esa' => (int) 5, 'tpr' => (int) 6, 'twi' => (int) 6, 'ugi' => (int) 4, 'vma' => (int) 1, 'vmu' => (int) 7, 'zma' => (int) 10 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb421930' $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' => 'HOM05D001025', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '592', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p22650' => 'bna', 'A01p29720' => 'bna', 'A03p26560' => 'bna', 'A03p68820' => 'bna', 'A04p20980' => 'bna', 'A06p07730' => 'bna', 'A07p18260' => 'bna', 'A08p33710' => 'bna', 'A09p16970' => 'bna', 'A10p27490' => 'bna', 'Aa31LG1G17300' => 'aar', 'Aa31LG1G3910' => 'aar', 'Aa31LG2G9630' => 'aar', 'Aa31LG5G8360' => 'aar', 'Aa31LG9G2410' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4699' => 'aag', 'Actinidia23512' => 'ach', 'Actinidia37080' => 'ach', 'Ah.01g020380' => 'amhyb', 'Ah.08g215710' => 'amhyb', 'Ah.09g225110' => 'amhyb', 'Ah.10g036680' => 'amhyb', 'AL1G21940' => 'aly', 'AL2G15540' => 'aly', 'AL4G21520' => 'aly', 'AL7G40960' => 'aly', 'Aqoxy2G01191' => 'aox', 'Aqoxy2G03393' => 'aox', 'Aqoxy4G02775' => 'aox', 'Aqoxy6G00058' => 'aox', 'arahy.Tifrunner.gnm1.ann1.9X74H2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CW3FX9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R485W7' => 'arhy', 'AT1G10960' => 'ath', 'AT1G60950' => 'ath', 'AT2G27510' => 'ath', 'AT4G14890' => 'ath', 'AT5G10000' => 'ath', 'ATR0665G624' => 'atr', 'ATR0697G138' => 'atr', 'ATR0776G046' => 'atr', 'ATR1134G135' => 'atr', 'Atru.chr12.1025' => 'acertr', 'Atru.chr3.3241' => 'acertr', 'Atru.chr4.2460' => 'acertr', 'AUR62007427' => 'cqu', 'AUR62010960' => 'cqu', 'AUR62012201' => 'cqu', 'AUR62021470' => 'cqu', 'AUR62022834' => 'cqu', 'AUR62033635' => 'cqu', 'AUR62036186' => 'cqu', 'BcaB01g03077' => 'bca', 'BcaB02g10093' => 'bca', 'BcaB04g20295' => 'bca', 'BcaB06g28147' => 'bca', 'BcaB07g31253' => 'bca', 'BcaC01g04946' => 'bca', 'BcaC02g10614' => 'bca', 'BcaC02g10885' => 'bca', 'BcaC04g19356' => 'bca', 'BcaC04g22297' => 'bca', 'BcaC05g24977' => 'bca', 'BcaC06g31823' => 'bca', 'BcaC07g38633' => 'bca', 'BcaC09g49353' => 'bca', 'BcaC09g50168' => 'bca', 'BcaNung00322' => 'bca', 'BcaNung04769' => 'bca', 'BolC1t02753H' => 'bol', 'BolC1t03721H' => 'bol', 'BolC3t15525H' => 'bol', 'BolC4t23903H' => 'bol', 'BolC4t24231H' => 'bol', 'BolC4t27209H' => 'bol', 'BolC5t29671H' => 'bol', 'BolC8t49044H' => 'bol', 'BolC9t54999H' => 'bol', 'BolC9t59517H' => 'bol', 'BraA01t02178Z' => 'bra', 'BraA01t03099Z' => 'bra', 'BraA03t11867Z' => 'bra', 'BraA04t17667Z' => 'bra', 'BraA07t29542Z' => 'bra', 'BraA08t35287Z' => 'bra', 'BraA09t37334Z' => 'bra', 'BraA10t44801Z' => 'bra', 'BraSC39t46181Z' => 'bra', 'C01p28240' => 'bna', 'C01p37530' => 'bna', 'C03p31820' => 'bna', 'C04p24080' => 'bna', 'C04p25790' => 'bna', 'C04p56770' => 'bna', 'C05p09310' => 'bna', 'C09p21010' => 'bna', 'C09p67560' => 'bna', 'CAN.G1324.7' => 'can', 'CAN.G1358.10' => 'can', 'CAN.G1550.2' => 'can', 'CAN.G186.56' => 'can', 'CAN.G1965.1' => 'can', 'CAN.G645.15' => 'can', 'CAN.G798.26' => 'can', 'CAN.G798.27' => 'can', 'CAN.G798.29' => 'can', 'CAN.G919.31' => 'can', 'CANSAT11G0133' => 'cansat', 'CANSAT11G1171' => 'cansat', 'CANSAT11G2056' => 'cansat', 'CANSAT56G1202' => 'cansat', 'CANSAT56G1514' => 'cansat', 'CANSAT78G0455' => 'cansat', 'CARHR011190' => 'chi', 'CARHR051980' => 'chi', 'CARHR120170' => 'chi', 'CARHR203310' => 'chi', 'CARHR221490' => 'chi', 'Carub.0001s1054' => 'cru', 'Carub.0002s0431' => 'cru', 'Carub.0004s0818' => 'cru', 'Carub.0006s0846' => 'cru', 'Carub.0007s2722' => 'cru', 'Ca_00058_v3' => 'car', 'Ca_17831_v3' => 'car', 'Ca_19408_v3' => 'car', 'Ca_24397_v3' => 'car', 'Ca_25664_v3' => 'car', 'CBR_g21818' => 'cbr', 'CBR_g31195' => 'cbr', 'CBR_g32282' => 'cbr', 'CBR_g39599' => 'cbr', 'CBR_g49410' => 'cbr', 'Cc01_g09120' => 'ccan', 'Cc01_g09130' => 'ccan', 'Cc02_g09630' => 'ccan', 'Cc02_g22810' => 'ccan', 'Cc03_g03810' => 'ccan', 'CDE02G3718' => 'cde', 'CDE04G3183' => 'cde', 'CDE07G1046' => 'cde', 'CDE08G0480' => 'cde', 'Cfa005493' => 'cfa', 'Cfa010312' => 'cfa', 'Cfa015648' => 'cfa', 'Ciclev10002793m.g' => 'ccl', 'Ciclev10003356m.g' => 'ccl', 'Ciclev10006141m.g' => 'ccl', 'Ciclev10016676m.g' => 'ccl', 'Ciclev10017081m.g' => 'ccl', 'Ciclev10029499m.g' => 'ccl', 'CiPaw.01G166300' => 'cil', 'CiPaw.06G145600' => 'cil', 'CiPaw.13G040100' => 'cil', 'CiPaw.13G135800' => 'cil', 'ClCG01G012230' => 'cla', 'ClCG05G009510' => 'cla', 'ClCG08G008270' => 'cla', 'COL.COLO4_11763' => 'col', 'COL.COLO4_19876' => 'col', 'COL.COLO4_21481' => 'col', 'Cpa.g.sc118.34' => 'cpa', 'Cpa.g.sc32.13' => 'cpa', 'Cpa.g.sc58.103' => 'cpa', 'Cre03.g183850' => 'cre', 'Cre06.g306350' => 'cre', 'Cre07.g334800' => 'cre', 'Cre12.g487900' => 'cre', 'Cre14.g626700' => 'cre', 'Cre16.g658400' => 'cre', 'Cre17.g700950' => 'cre', 'CsaV3_1G014830' => 'csa', 'CsaV3_3G013320' => 'csa', 'CsaV3_3G019210' => 'csa', 'CsaV3_3G019220' => 'csa', 'CsaV3_6G004230' => 'csa', 'CSS0003773' => 'camsi', 'CSS0004563' => 'camsi', 'CSS0013949' => 'camsi', 'CSS0025971' => 'camsi', 'CSS0028570' => 'camsi', 'CSS0033127' => 'camsi', 'CSS0036051' => 'camsi', 'CSS0040087' => 'camsi', 'CSS0043179' => 'camsi', 'DCAR_006161' => 'dca', 'DCAR_010351' => 'dca', 'DCAR_012197' => 'dca', 'DCAR_024162' => 'dca', 'Dinv01030' => 'din', 'Dinv10924' => 'din', 'Dinv11835' => 'din', 'Dinv22841' => 'din', 'Dinv42553' => 'din', 'Duzib052G0560' => 'dzi', 'Duzib132G0389' => 'dzi', 'Duzib150G1181' => 'dzi', 'Duzib168G0623' => 'dzi', 'Duzib170G1036' => 'dzi', 'Duzib212G0200' => 'dzi', 'Duzib248G0194' => 'dzi', 'ECA232G2193' => 'eca', 'ECA233G0302' => 'eca', 'ECA234G2813' => 'eca', 'ECA234G4866' => 'eca', 'ECA240G3932' => 'eca', 'ECA248G0385' => 'eca', 'EL10Ac2g04781' => 'bvu', 'EL10Ac3g06445' => 'bvu', 'EL10Ac7g15825' => 'bvu', 'EL10Ac8g18550' => 'bvu', 'Eucgr.B03849' => 'egr', 'Eucgr.I02744' => 'egr', 'Eucgr.J00264' => 'egr', 'Eucgr.J00493' => 'egr', 'FAN04G2181' => 'fan', 'FAN07G2666' => 'fan', 'FAN11G0024' => 'fan', 'FAN12G1105' => 'fan', 'FAN13G0302' => 'fan', 'FAN15G2781' => 'fan', 'FAN16G1274' => 'fan', 'FAN17G2988' => 'fan', 'FAN18G2621' => 'fan', 'FAN21G0013' => 'fan', 'FAN22G1211' => 'fan', 'FAN25G3626' => 'fan', 'FvH4_2g09491' => 'fve', 'FvH4_3g24910' => 'fve', 'FvH4_4g15630' => 'fve', 'FvH4_5g28820' => 'fve', 'Glyma.01G238000' => 'gma', 'Glyma.05G168400' => 'gma', 'Glyma.08G126800' => 'gma', 'Glyma.08G188500' => 'gma', 'Glyma.10G278900' => 'gma', 'Glyma.11G005700' => 'gma', 'Glyma.11G183300' => 'gma', 'Glyma.12G089200' => 'gma', 'Glyma.12G169400' => 'gma', 'Glyma.12G169500' => 'gma', 'Glyma.12G169600' => 'gma', 'Glyma.20G110800' => 'gma', 'Gohir.A03G192900' => 'ghi', 'Gohir.A03G193000' => 'ghi', 'Gohir.A05G080700' => 'ghi', 'Gohir.A09G216000' => 'ghi', 'Gohir.A12G027700' => 'ghi', 'Gohir.A13G036200' => 'ghi', 'Gohir.A13G222600' => 'ghi', 'Gohir.D02G213900' => 'ghi', 'Gohir.D02G214000' => 'ghi', 'Gohir.D05G083700' => 'ghi', 'Gohir.D05G083800' => 'ghi', 'Gohir.D05G083850' => 'ghi', 'Gohir.D08G015400' => 'ghi', 'Gohir.D09G218400' => 'ghi', 'Gohir.D12G027100' => 'ghi', 'Gohir.D13G034500' => 'ghi', 'Gohir.D13G227400' => 'ghi', 'Gorai.005G241800' => 'gra', 'Gorai.005G241900' => 'gra', 'Gorai.006G239400' => 'gra', 'Gorai.008G027600' => 'gra', 'Gorai.009G085400' => 'gra', 'Gorai.009G085500' => 'gra', 'Gorai.013G039000' => 'gra', 'Gorai.013G194800' => 'gra', 'Gorai.013G257900' => 'gra', 'GSVIVG01000982001' => 'vvi', 'GSVIVG01017981001' => 'vvi', 'HanXRQChr01g0024061' => 'han', 'HanXRQChr09g0247831' => 'han', 'HanXRQChr10g0294611' => 'han', 'HanXRQChr10g0294621' => 'han', 'HanXRQChr11g0346821' => 'han', 'HanXRQChr13g0397461' => 'han', 'HanXRQChr16g0513651' => 'han', 'HanXRQChr16g0513701' => 'han', 'Haze_00897' => 'cav', 'Haze_01745' => 'cav', 'Haze_02486' => 'cav', 'Haze_02487' => 'cav', 'Haze_23374' => 'cav', 'Hma1.2p1_0578F.1_g182520' => 'hma', 'Hma1.2p1_0602F.1_g187350' => 'hma', 'Hma1.2p1_0602F.1_g187360' => 'hma', 'Hma1.2p1_0874F.1_g231320' => 'hma', 'Hma1.2p1_1197F.1_g266210' => 'hma', 'Hma1.2p1_1197F.1_g266220' => 'hma', 'Hma1.2p1_2167F.1_g315895' => 'hma', 'Hma1.2p1_2190F.1_g316640' => 'hma', 'Hma1.2p1_3645F.1_g337153' => 'hma', 'HPP92_004907' => 'vpl', 'HPP92_012134' => 'vpl', 'HPP92_025136' => 'vpl', 'HPP92_026087' => 'vpl', 'Hund06782' => 'sun', 'Hund06784' => 'sun', 'Lalb_Chr01g0004861' => 'lal', 'Lalb_Chr02g0140591' => 'lal', 'Lalb_Chr02g0140611' => 'lal', 'Lalb_Chr03g0028101' => 'lal', 'Lalb_Chr07g0185791' => 'lal', 'Lalb_Chr12g0204491' => 'lal', 'Lalb_Chr13g0295671' => 'lal', 'Lalb_Chr19g0136461' => 'lal', 'Lalb_Chr21g0309191' => 'lal', 'Lj1g0028158' => 'lja', 'Lj1P236T38' => 'lonja', 'Lj2C32G2' => 'lonja', 'Lj2P944T8' => 'lonja', 'Lj2P963T15' => 'lonja', 'Lj3g0011788' => 'lja', 'Lj4g0025027' => 'lja', 'Lj5P255T36' => 'lonja', 'Lj6g0018866' => 'lja', 'Lj6P608T31' => 'lonja', 'LjContig00408g0008879' => 'lja', 'Lsat_1_v5_gn_5_105820' => 'lsa', 'Lsat_1_v5_gn_6_38800' => 'lsa', 'Lsat_1_v5_gn_7_67141' => 'lsa', 'Manes.04G003400' => 'mes', 'Manes.07G020000' => 'mes', 'Manes.07G020100' => 'mes', 'Manes.07G020150' => 'mes', 'Manes.10G061500' => 'mes', 'Manes.10G123200' => 'mes', 'Manes.11G161900' => 'mes', 'Manes.15G029300' => 'mes', 'Mapoly0071s0018' => 'mpo', 'Mapoly0082s0023' => 'mpo', 'Mapoly3477s0001' => 'mpo', 'MBI05_g31233_MAGBIO' => 'mbi', 'MBI09_g05946_MAGBIO' => 'mbi', 'MBI09_g05947_MAGBIO' => 'mbi', 'MBI17_g08346_MAGBIO' => 'mbi', 'MCO04G038' => 'mco', 'MCO09G370' => 'mco', 'MCO13G605' => 'mco', 'MD00G1075500' => 'mdo', 'MD03G1144300' => 'mdo', 'MD08G1236800' => 'mdo', 'MD13G1193300' => 'mdo', 'MD15G1428700' => 'mdo', 'Medtr1g112030' => 'mtr', 'Medtr1g112050' => 'mtr', 'Medtr2g006290' => 'mtr', 'Medtr2g086510' => 'mtr', 'Medtr4g053120' => 'mtr', 'Medtr5g006320' => 'mtr', 'Medtr8g088720' => 'mtr', 'MELO3C004712.2' => 'cme', 'MELO3C006533.2' => 'cme', 'MELO3C019438.2' => 'cme', 'MELO3C019440.2' => 'cme', 'MELO3C019441.2' => 'cme', 'MELO3C019895.2' => 'cme', 'Migut.B00811' => 'egut', 'Migut.D02447' => 'egut', 'Migut.F00875' => 'egut', 'Migut.N00186' => 'egut', 'Migut.N01051' => 'egut', 'Migut.N02491' => 'egut', 'Migut.O00784' => 'egut', 'MSTRG.12367' => 'ama', 'MSTRG.18756' => 'ama', 'MSTRG.21042' => 'ama', 'Nitab4.5_0000559g0040' => 'nta', 'Nitab4.5_0000667g0190' => 'nta', 'Nitab4.5_0000755g0160' => 'nta', 'Nitab4.5_0001216g0080' => 'nta', 'Nitab4.5_0004069g0040' => 'nta', 'Nitab4.5_0004129g0010' => 'nta', 'Nitab4.5_0005744g0030' => 'nta', 'Nitab4.5_0006996g0030' => 'nta', 'Nitab4.5_0008971g0040' => 'nta', 'Nitab4.5_0009769g0020' => 'nta', 'Nitab4.5_0009833g0010' => 'nta', 'Nitab4.5_0013140g0020' => 'nta', 'Nn003s41376' => 'nnu', 'Nn1g01857' => 'nnu', 'Nn1g03611' => 'nnu', 'Nn1g06853' => 'nnu', 'Nn3g18360' => 'nnu', 'Nn4g26328' => 'nnu', 'Nn5g27531' => 'nnu', 'Nn6g34899' => 'nnu', 'Nn7g36299' => 'nnu', 'Oeu021485.1' => 'oeu', 'Oeu022433.1' => 'oeu', 'Oeu032111.1' => 'oeu', 'Oeu051608.1' => 'oeu', 'Os01g0860601' => 'osa', 'Os03g0659200' => 'osa', 'Os03g0835900' => 'osa', 'Os04g0412200' => 'osa', 'Os05g0443500' => 'osa', 'Os07g0251500' => 'osa', 'Os08g0104600' => 'osa', 'Peaxi162Scf00003g00047' => 'pax', 'Peaxi162Scf00003g00052' => 'pax', 'Peaxi162Scf00003g00394' => 'pax', 'Peaxi162Scf00091g00621' => 'pax', 'Peaxi162Scf00152g00146' => 'pax', 'Peaxi162Scf00173g00025' => 'pax', 'Peaxi162Scf00195g00102' => 'pax', 'Peaxi162Scf00402g00013' => 'pax', 'Peaxi162Scf00519g00618' => 'pax', 'PGR004G2838' => 'pgr', 'PGR044G2275' => 'pgr', 'PGR102G1377' => 'pgr', 'PGR119G1245' => 'pgr', 'PGR142G4449' => 'pgr', 'PGSC0003DMG400004532' => 'stu', 'PGSC0003DMG400011950' => 'stu', 'PGSC0003DMG400023391' => 'stu', 'PGSC0003DMG400023985' => 'stu', 'PGSC0003DMG400026360' => 'stu', 'PGSC0003DMG400035711' => 'stu', 'PGSC0003DMG400037286' => 'stu', 'PGSC0003DMG402005881' => 'stu', 'Phvul.002G045400' => 'pvu', 'Phvul.006G216600' => 'pvu', 'Phvul.006G216700' => 'pvu', 'Phvul.006G216800' => 'pvu', 'Phvul.007G022500' => 'pvu', 'Phvul.011G094400' => 'pvu', 'Potri.001G470700' => 'ptr', 'Potri.003G015200' => 'ptr', 'Potri.004G202500' => 'ptr', 'Potri.004G218400' => 'ptr', 'Potri.008G020100' => 'ptr', 'Potri.008G153200' => 'ptr', 'Potri.009G163800' => 'ptr', 'Potri.010G087300' => 'ptr', 'Potri.010G239100' => 'ptr', 'Pp3c10_16100' => 'ppa', 'Pp3c10_16880' => 'ppa', 'Pp3c16_6230' => 'ppa', 'Pp3c17_18910' => 'ppa', 'Pp3c3_22119' => 'ppa', 'Pp3c3_22140' => 'ppa', 'Pp3c4_8159' => 'ppa', 'Pp3c4_8171' => 'ppa', 'Pp3c4_8330' => 'ppa', 'PRCOL_00004098' => 'pco', 'Prupe.1G013900' => 'ppe', 'Prupe.1G226300' => 'ppe', 'Prupe.1G573600' => 'ppe', 'Prupe.6G130100' => 'ppe', 'Psat3g090040' => 'psa', 'Psat4g210440' => 'psa', 'Psat6g231040' => 'psa', 'Psat6g231080' => 'psa', 'Psat7g063000' => 'psa', 'Psat7g188000' => 'psa', 'Psat7g188040' => 'psa', 'PSO017G0206' => 'pso', 'PSO170G0501' => 'pso', 'PSO170G6422' => 'pso', 'PSO210G7739' => 'pso', 'PSO339G1808' => 'pso', 'PSO339G6135' => 'pso', 'PSO384G0010' => 'pso', 'PSO384G0964' => 'pso', 'PSO761G0050' => 'pso', 'PSO782G4085' => 'pso', 'QL01p012264' => 'qlo', 'QL02p099491' => 'qlo', 'QL03p033868' => 'qlo', 'QL04p046678' => 'qlo', 'QL06p002448' => 'qlo', 'RcHm_v2.0_Chr4g0416181' => 'rch', 'RcHm_v2.0_Chr5g0044701' => 'rch', 'RcHm_v2.0_Chr6g0265781' => 'rch', 'RcHm_v2.0_Chr7g0221031' => 'rch', 'Rhsim04G0202000' => 'rsi', 'Rhsim11G0127300' => 'rsi', 'Rhsim13G0111800' => 'rsi', 'Sabra01G0165600' => 'sbr', 'Sabra03G0008300' => 'sbr', 'Sabra04G0136900' => 'sbr', 'Sabra08G0013400' => 'sbr', 'Sabra08G0116800' => 'sbr', 'Sabra09G0128000' => 'sbr', 'Sabra10G0055500' => 'sbr', 'Sabra10G0073300' => 'sbr', 'SalBow3G0385' => 'sbo', 'SalBow3G1119' => 'sbo', 'SalBow3G2005' => 'sbo', 'SalBow6G2563' => 'sbo', 'SalBow6G6386' => 'sbo', 'Sc06g0008800' => 'sci', 'Sc07g0004950' => 'sci', 'Sc09g0005340' => 'sci', 'Sc13g0004410' => 'sci', 'Sc21g0007090' => 'sci', 'Sed0009285' => 'sed', 'Sed0017583' => 'sed', 'Sed0019699' => 'sed', 'Sed0023107' => 'sed', 'SEGI_10916' => 'sgi', 'SEGI_16217' => 'sgi', 'SEGI_19466' => 'sgi', 'SEGI_41115' => 'sgi', 'SGA_v2.0_scaffold111G31534' => 'sas', 'SGA_v2.0_scaffold22G09864' => 'sas', 'SGA_v2.0_scaffold338G49219' => 'sas', 'SGA_v2.0_scaffold92G28298' => 'sas', 'SMO119G0064' => 'smo', 'SMO223G0038' => 'smo', 'SMO347G0584' => 'smo', 'SMO351G0010' => 'smo', 'SMO356G0404' => 'smo', 'Solyc01g103920.3' => 'sly', 'Solyc04g009710.2' => 'sly', 'Solyc05g055280.2' => 'sly', 'Solyc10g044520.3' => 'sly', 'Solyc10g075160.1' => 'sly', 'Solyc11g006910.3' => 'sly', 'Solyc11g068430.3' => 'sly', 'Sopen01g046310' => 'spe', 'Sopen03g001200' => 'spe', 'Sopen04g004830' => 'spe', 'Sopen05g033720' => 'spe', 'Sopen06g030740' => 'spe', 'Sopen10g013090' => 'spe', 'Sopen10g027630' => 'spe', 'Sopen10g027640' => 'spe', 'Sopen11g002820' => 'spe', 'Sopen11g027140' => 'spe', 'Sp1g09680' => 'spa', 'Sp2g03630' => 'spa', 'Sp4g10320' => 'spa', 'Sp6g33400' => 'spa', 'Sp7g13030' => 'spa', 'TAR365G0317' => 'tar', 'TAR376G0979' => 'tar', 'TAR623G1665' => 'tar', 'TAR633G2373' => 'tar', 'TAR636G1400' => 'tar', 'THA.LOC104800529' => 'tha', 'THA.LOC104808547' => 'tha', 'THA.LOC104809615' => 'tha', 'THA.LOC104815724' => 'tha', 'THA.LOC104818480' => 'tha', 'THA.LOC104819179' => 'tha', 'THA.LOC104822270' => 'tha', 'THA.LOC104826425' => 'tha', 'Thecc.02G089700' => 'tca', 'Thecc.04G232300' => 'tca', 'Thecc.09G283400' => 'tca', 'Thhalv10009020m.g' => 'esa', 'Thhalv10015506m.g' => 'esa', 'Thhalv10017364m.g' => 'esa', 'Thhalv10023742m.g' => 'esa', 'Thhalv10026483m.g' => 'esa', 'TPR.G17232' => 'tpr', 'TPR.G2133' => 'tpr', 'TPR.G2498' => 'tpr', 'TPR.G31942' => 'tpr', 'TPR.G37877' => 'tpr', 'TPR.G4571' => 'tpr', 'TWI14G1113' => 'twi', 'TWI15G0426' => 'twi', 'TWI31G1005' => 'twi', 'TWI38G0513' => 'twi', 'TWI38G1484' => 'twi', 'TWI73G1098' => 'twi', 'unitig_26.g10519' => 'ugi', 'unitig_736.g22395' => 'ugi', 'unitig_747.g21234' => 'ugi', 'unitig_747.g21942' => 'ugi', 'vmacro14351' => 'vma', 'VMungo0540G0082' => 'vmu', 'VMungo0540G0405' => 'vmu', 'VMungo0540G1486' => 'vmu', 'VMungo0540G1692' => 'vmu', 'VMungo0720G2473' => 'vmu', 'VMungo1127G1562' => 'vmu', 'VMungo1215G1918' => 'vmu', 'Zm00001eb052650' => 'zma', 'Zm00001eb063710' => 'zma', 'Zm00001eb083950' => 'zma', 'Zm00001eb174420' => 'zma', 'Zm00001eb260140' => 'zma', 'Zm00001eb260150' => 'zma', 'Zm00001eb260160' => 'zma', 'Zm00001eb348290' => 'zma', 'Zm00001eb366870' => 'zma', 'Zm00001eb421930' => 'zma' ), 'gf_id' => 'HOM05D001025', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001025' ), 'data_identifier' => 'HOM05D001025', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001025', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '592', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p22650' => 'bna', 'A01p29720' => 'bna', 'A03p26560' => 'bna', 'A03p68820' => 'bna', 'A04p20980' => 'bna', 'A06p07730' => 'bna', 'A07p18260' => 'bna', 'A08p33710' => 'bna', 'A09p16970' => 'bna', 'A10p27490' => 'bna', 'Aa31LG1G17300' => 'aar', 'Aa31LG1G3910' => 'aar', 'Aa31LG2G9630' => 'aar', 'Aa31LG5G8360' => 'aar', 'Aa31LG9G2410' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4699' => 'aag', 'Actinidia23512' => 'ach', 'Actinidia37080' => 'ach', 'Ah.01g020380' => 'amhyb', 'Ah.08g215710' => 'amhyb', 'Ah.09g225110' => 'amhyb', 'Ah.10g036680' => 'amhyb', 'AL1G21940' => 'aly', 'AL2G15540' => 'aly', 'AL4G21520' => 'aly', 'AL7G40960' => 'aly', 'Aqoxy2G01191' => 'aox', 'Aqoxy2G03393' => 'aox', 'Aqoxy4G02775' => 'aox', 'Aqoxy6G00058' => 'aox', 'arahy.Tifrunner.gnm1.ann1.9X74H2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CW3FX9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R485W7' => 'arhy', 'AT1G10960' => 'ath', 'AT1G60950' => 'ath', 'AT2G27510' => 'ath', 'AT4G14890' => 'ath', 'AT5G10000' => 'ath', 'ATR0665G624' => 'atr', 'ATR0697G138' => 'atr', 'ATR0776G046' => 'atr', 'ATR1134G135' => 'atr', 'Atru.chr12.1025' => 'acertr', 'Atru.chr3.3241' => 'acertr', 'Atru.chr4.2460' => 'acertr', 'AUR62007427' => 'cqu', 'AUR62010960' => 'cqu', 'AUR62012201' => 'cqu', 'AUR62021470' => 'cqu', 'AUR62022834' => 'cqu', 'AUR62033635' => 'cqu', 'AUR62036186' => 'cqu', 'BcaB01g03077' => 'bca', 'BcaB02g10093' => 'bca', 'BcaB04g20295' => 'bca', 'BcaB06g28147' => 'bca', 'BcaB07g31253' => 'bca', 'BcaC01g04946' => 'bca', 'BcaC02g10614' => 'bca', 'BcaC02g10885' => 'bca', 'BcaC04g19356' => 'bca', 'BcaC04g22297' => 'bca', 'BcaC05g24977' => 'bca', 'BcaC06g31823' => 'bca', 'BcaC07g38633' => 'bca', 'BcaC09g49353' => 'bca', 'BcaC09g50168' => 'bca', 'BcaNung00322' => 'bca', 'BcaNung04769' => 'bca', 'BolC1t02753H' => 'bol', 'BolC1t03721H' => 'bol', 'BolC3t15525H' => 'bol', 'BolC4t23903H' => 'bol', 'BolC4t24231H' => 'bol', 'BolC4t27209H' => 'bol', 'BolC5t29671H' => 'bol', 'BolC8t49044H' => 'bol', 'BolC9t54999H' => 'bol', 'BolC9t59517H' => 'bol', 'BraA01t02178Z' => 'bra', 'BraA01t03099Z' => 'bra', 'BraA03t11867Z' => 'bra', 'BraA04t17667Z' => 'bra', 'BraA07t29542Z' => 'bra', 'BraA08t35287Z' => 'bra', 'BraA09t37334Z' => 'bra', 'BraA10t44801Z' => 'bra', 'BraSC39t46181Z' => 'bra', 'C01p28240' => 'bna', 'C01p37530' => 'bna', 'C03p31820' => 'bna', 'C04p24080' => 'bna', 'C04p25790' => 'bna', 'C04p56770' => 'bna', 'C05p09310' => 'bna', 'C09p21010' => 'bna', 'C09p67560' => 'bna', 'CAN.G1324.7' => 'can', 'CAN.G1358.10' => 'can', 'CAN.G1550.2' => 'can', 'CAN.G186.56' => 'can', 'CAN.G1965.1' => 'can', 'CAN.G645.15' => 'can', 'CAN.G798.26' => 'can', 'CAN.G798.27' => 'can', 'CAN.G798.29' => 'can', 'CAN.G919.31' => 'can', 'CANSAT11G0133' => 'cansat', 'CANSAT11G1171' => 'cansat', 'CANSAT11G2056' => 'cansat', 'CANSAT56G1202' => 'cansat', 'CANSAT56G1514' => 'cansat', 'CANSAT78G0455' => 'cansat', 'CARHR011190' => 'chi', 'CARHR051980' => 'chi', 'CARHR120170' => 'chi', 'CARHR203310' => 'chi', 'CARHR221490' => 'chi', 'Carub.0001s1054' => 'cru', 'Carub.0002s0431' => 'cru', 'Carub.0004s0818' => 'cru', 'Carub.0006s0846' => 'cru', 'Carub.0007s2722' => 'cru', 'Ca_00058_v3' => 'car', 'Ca_17831_v3' => 'car', 'Ca_19408_v3' => 'car', 'Ca_24397_v3' => 'car', 'Ca_25664_v3' => 'car', 'CBR_g21818' => 'cbr', 'CBR_g31195' => 'cbr', 'CBR_g32282' => 'cbr', 'CBR_g39599' => 'cbr', 'CBR_g49410' => 'cbr', 'Cc01_g09120' => 'ccan', 'Cc01_g09130' => 'ccan', 'Cc02_g09630' => 'ccan', 'Cc02_g22810' => 'ccan', 'Cc03_g03810' => 'ccan', 'CDE02G3718' => 'cde', 'CDE04G3183' => 'cde', 'CDE07G1046' => 'cde', 'CDE08G0480' => 'cde', 'Cfa005493' => 'cfa', 'Cfa010312' => 'cfa', 'Cfa015648' => 'cfa', 'Ciclev10002793m.g' => 'ccl', 'Ciclev10003356m.g' => 'ccl', 'Ciclev10006141m.g' => 'ccl', 'Ciclev10016676m.g' => 'ccl', 'Ciclev10017081m.g' => 'ccl', 'Ciclev10029499m.g' => 'ccl', 'CiPaw.01G166300' => 'cil', 'CiPaw.06G145600' => 'cil', 'CiPaw.13G040100' => 'cil', 'CiPaw.13G135800' => 'cil', 'ClCG01G012230' => 'cla', 'ClCG05G009510' => 'cla', 'ClCG08G008270' => 'cla', 'COL.COLO4_11763' => 'col', 'COL.COLO4_19876' => 'col', 'COL.COLO4_21481' => 'col', 'Cpa.g.sc118.34' => 'cpa', 'Cpa.g.sc32.13' => 'cpa', 'Cpa.g.sc58.103' => 'cpa', 'Cre03.g183850' => 'cre', 'Cre06.g306350' => 'cre', 'Cre07.g334800' => 'cre', 'Cre12.g487900' => 'cre', 'Cre14.g626700' => 'cre', 'Cre16.g658400' => 'cre', 'Cre17.g700950' => 'cre', 'CsaV3_1G014830' => 'csa', 'CsaV3_3G013320' => 'csa', 'CsaV3_3G019210' => 'csa', 'CsaV3_3G019220' => 'csa', 'CsaV3_6G004230' => 'csa', 'CSS0003773' => 'camsi', 'CSS0004563' => 'camsi', 'CSS0013949' => 'camsi', 'CSS0025971' => 'camsi', 'CSS0028570' => 'camsi', 'CSS0033127' => 'camsi', 'CSS0036051' => 'camsi', 'CSS0040087' => 'camsi', 'CSS0043179' => 'camsi', 'DCAR_006161' => 'dca', 'DCAR_010351' => 'dca', 'DCAR_012197' => 'dca', 'DCAR_024162' => 'dca', 'Dinv01030' => 'din', 'Dinv10924' => 'din', 'Dinv11835' => 'din', 'Dinv22841' => 'din', 'Dinv42553' => 'din', 'Duzib052G0560' => 'dzi', 'Duzib132G0389' => 'dzi', 'Duzib150G1181' => 'dzi', 'Duzib168G0623' => 'dzi', 'Duzib170G1036' => 'dzi', 'Duzib212G0200' => 'dzi', 'Duzib248G0194' => 'dzi', 'ECA232G2193' => 'eca', 'ECA233G0302' => 'eca', 'ECA234G2813' => 'eca', 'ECA234G4866' => 'eca', 'ECA240G3932' => 'eca', 'ECA248G0385' => 'eca', 'EL10Ac2g04781' => 'bvu', 'EL10Ac3g06445' => 'bvu', 'EL10Ac7g15825' => 'bvu', 'EL10Ac8g18550' => 'bvu', 'Eucgr.B03849' => 'egr', 'Eucgr.I02744' => 'egr', 'Eucgr.J00264' => 'egr', 'Eucgr.J00493' => 'egr', 'FAN04G2181' => 'fan', 'FAN07G2666' => 'fan', 'FAN11G0024' => 'fan', 'FAN12G1105' => 'fan', 'FAN13G0302' => 'fan', 'FAN15G2781' => 'fan', 'FAN16G1274' => 'fan', 'FAN17G2988' => 'fan', 'FAN18G2621' => 'fan', 'FAN21G0013' => 'fan', 'FAN22G1211' => 'fan', 'FAN25G3626' => 'fan', 'FvH4_2g09491' => 'fve', 'FvH4_3g24910' => 'fve', 'FvH4_4g15630' => 'fve', 'FvH4_5g28820' => 'fve', 'Glyma.01G238000' => 'gma', 'Glyma.05G168400' => 'gma', 'Glyma.08G126800' => 'gma', 'Glyma.08G188500' => 'gma', 'Glyma.10G278900' => 'gma', 'Glyma.11G005700' => 'gma', 'Glyma.11G183300' => 'gma', 'Glyma.12G089200' => 'gma', 'Glyma.12G169400' => 'gma', 'Glyma.12G169500' => 'gma', 'Glyma.12G169600' => 'gma', 'Glyma.20G110800' => 'gma', 'Gohir.A03G192900' => 'ghi', 'Gohir.A03G193000' => 'ghi', 'Gohir.A05G080700' => 'ghi', 'Gohir.A09G216000' => 'ghi', 'Gohir.A12G027700' => 'ghi', 'Gohir.A13G036200' => 'ghi', 'Gohir.A13G222600' => 'ghi', 'Gohir.D02G213900' => 'ghi', 'Gohir.D02G214000' => 'ghi', 'Gohir.D05G083700' => 'ghi', 'Gohir.D05G083800' => 'ghi', 'Gohir.D05G083850' => 'ghi', 'Gohir.D08G015400' => 'ghi', 'Gohir.D09G218400' => 'ghi', 'Gohir.D12G027100' => 'ghi', 'Gohir.D13G034500' => 'ghi', 'Gohir.D13G227400' => 'ghi', 'Gorai.005G241800' => 'gra', 'Gorai.005G241900' => 'gra', 'Gorai.006G239400' => 'gra', 'Gorai.008G027600' => 'gra', 'Gorai.009G085400' => 'gra', 'Gorai.009G085500' => 'gra', 'Gorai.013G039000' => 'gra', 'Gorai.013G194800' => 'gra', 'Gorai.013G257900' => 'gra', 'GSVIVG01000982001' => 'vvi', 'GSVIVG01017981001' => 'vvi', 'HanXRQChr01g0024061' => 'han', 'HanXRQChr09g0247831' => 'han', 'HanXRQChr10g0294611' => 'han', 'HanXRQChr10g0294621' => 'han', 'HanXRQChr11g0346821' => 'han', 'HanXRQChr13g0397461' => 'han', 'HanXRQChr16g0513651' => 'han', 'HanXRQChr16g0513701' => 'han', 'Haze_00897' => 'cav', 'Haze_01745' => 'cav', 'Haze_02486' => 'cav', 'Haze_02487' => 'cav', 'Haze_23374' => 'cav', 'Hma1.2p1_0578F.1_g182520' => 'hma', 'Hma1.2p1_0602F.1_g187350' => 'hma', 'Hma1.2p1_0602F.1_g187360' => 'hma', 'Hma1.2p1_0874F.1_g231320' => 'hma', 'Hma1.2p1_1197F.1_g266210' => 'hma', 'Hma1.2p1_1197F.1_g266220' => 'hma', 'Hma1.2p1_2167F.1_g315895' => 'hma', 'Hma1.2p1_2190F.1_g316640' => 'hma', 'Hma1.2p1_3645F.1_g337153' => 'hma', 'HPP92_004907' => 'vpl', 'HPP92_012134' => 'vpl', 'HPP92_025136' => 'vpl', 'HPP92_026087' => 'vpl', 'Hund06782' => 'sun', 'Hund06784' => 'sun', 'Lalb_Chr01g0004861' => 'lal', 'Lalb_Chr02g0140591' => 'lal', 'Lalb_Chr02g0140611' => 'lal', 'Lalb_Chr03g0028101' => 'lal', 'Lalb_Chr07g0185791' => 'lal', 'Lalb_Chr12g0204491' => 'lal', 'Lalb_Chr13g0295671' => 'lal', 'Lalb_Chr19g0136461' => 'lal', 'Lalb_Chr21g0309191' => 'lal', 'Lj1g0028158' => 'lja', 'Lj1P236T38' => 'lonja', 'Lj2C32G2' => 'lonja', 'Lj2P944T8' => 'lonja', 'Lj2P963T15' => 'lonja', 'Lj3g0011788' => 'lja', 'Lj4g0025027' => 'lja', 'Lj5P255T36' => 'lonja', 'Lj6g0018866' => 'lja', 'Lj6P608T31' => 'lonja', 'LjContig00408g0008879' => 'lja', 'Lsat_1_v5_gn_5_105820' => 'lsa', 'Lsat_1_v5_gn_6_38800' => 'lsa', 'Lsat_1_v5_gn_7_67141' => 'lsa', 'Manes.04G003400' => 'mes', 'Manes.07G020000' => 'mes', 'Manes.07G020100' => 'mes', 'Manes.07G020150' => 'mes', 'Manes.10G061500' => 'mes', 'Manes.10G123200' => 'mes', 'Manes.11G161900' => 'mes', 'Manes.15G029300' => 'mes', 'Mapoly0071s0018' => 'mpo', 'Mapoly0082s0023' => 'mpo', 'Mapoly3477s0001' => 'mpo', 'MBI05_g31233_MAGBIO' => 'mbi', 'MBI09_g05946_MAGBIO' => 'mbi', 'MBI09_g05947_MAGBIO' => 'mbi', 'MBI17_g08346_MAGBIO' => 'mbi', 'MCO04G038' => 'mco', 'MCO09G370' => 'mco', 'MCO13G605' => 'mco', 'MD00G1075500' => 'mdo', 'MD03G1144300' => 'mdo', 'MD08G1236800' => 'mdo', 'MD13G1193300' => 'mdo', 'MD15G1428700' => 'mdo', 'Medtr1g112030' => 'mtr', 'Medtr1g112050' => 'mtr', 'Medtr2g006290' => 'mtr', 'Medtr2g086510' => 'mtr', 'Medtr4g053120' => 'mtr', 'Medtr5g006320' => 'mtr', 'Medtr8g088720' => 'mtr', 'MELO3C004712.2' => 'cme', 'MELO3C006533.2' => 'cme', 'MELO3C019438.2' => 'cme', 'MELO3C019440.2' => 'cme', 'MELO3C019441.2' => 'cme', 'MELO3C019895.2' => 'cme', 'Migut.B00811' => 'egut', 'Migut.D02447' => 'egut', 'Migut.F00875' => 'egut', 'Migut.N00186' => 'egut', 'Migut.N01051' => 'egut', 'Migut.N02491' => 'egut', 'Migut.O00784' => 'egut', 'MSTRG.12367' => 'ama', 'MSTRG.18756' => 'ama', 'MSTRG.21042' => 'ama', 'Nitab4.5_0000559g0040' => 'nta', 'Nitab4.5_0000667g0190' => 'nta', 'Nitab4.5_0000755g0160' => 'nta', 'Nitab4.5_0001216g0080' => 'nta', 'Nitab4.5_0004069g0040' => 'nta', 'Nitab4.5_0004129g0010' => 'nta', 'Nitab4.5_0005744g0030' => 'nta', 'Nitab4.5_0006996g0030' => 'nta', 'Nitab4.5_0008971g0040' => 'nta', 'Nitab4.5_0009769g0020' => 'nta', 'Nitab4.5_0009833g0010' => 'nta', 'Nitab4.5_0013140g0020' => 'nta', 'Nn003s41376' => 'nnu', 'Nn1g01857' => 'nnu', 'Nn1g03611' => 'nnu', 'Nn1g06853' => 'nnu', 'Nn3g18360' => 'nnu', 'Nn4g26328' => 'nnu', 'Nn5g27531' => 'nnu', 'Nn6g34899' => 'nnu', 'Nn7g36299' => 'nnu', 'Oeu021485.1' => 'oeu', 'Oeu022433.1' => 'oeu', 'Oeu032111.1' => 'oeu', 'Oeu051608.1' => 'oeu', 'Os01g0860601' => 'osa', 'Os03g0659200' => 'osa', 'Os03g0835900' => 'osa', 'Os04g0412200' => 'osa', 'Os05g0443500' => 'osa', 'Os07g0251500' => 'osa', 'Os08g0104600' => 'osa', 'Peaxi162Scf00003g00047' => 'pax', 'Peaxi162Scf00003g00052' => 'pax', 'Peaxi162Scf00003g00394' => 'pax', 'Peaxi162Scf00091g00621' => 'pax', 'Peaxi162Scf00152g00146' => 'pax', 'Peaxi162Scf00173g00025' => 'pax', 'Peaxi162Scf00195g00102' => 'pax', 'Peaxi162Scf00402g00013' => 'pax', 'Peaxi162Scf00519g00618' => 'pax', 'PGR004G2838' => 'pgr', 'PGR044G2275' => 'pgr', 'PGR102G1377' => 'pgr', 'PGR119G1245' => 'pgr', 'PGR142G4449' => 'pgr', 'PGSC0003DMG400004532' => 'stu', 'PGSC0003DMG400011950' => 'stu', 'PGSC0003DMG400023391' => 'stu', 'PGSC0003DMG400023985' => 'stu', 'PGSC0003DMG400026360' => 'stu', 'PGSC0003DMG400035711' => 'stu', 'PGSC0003DMG400037286' => 'stu', 'PGSC0003DMG402005881' => 'stu', 'Phvul.002G045400' => 'pvu', 'Phvul.006G216600' => 'pvu', 'Phvul.006G216700' => 'pvu', 'Phvul.006G216800' => 'pvu', 'Phvul.007G022500' => 'pvu', 'Phvul.011G094400' => 'pvu', 'Potri.001G470700' => 'ptr', 'Potri.003G015200' => 'ptr', 'Potri.004G202500' => 'ptr', 'Potri.004G218400' => 'ptr', 'Potri.008G020100' => 'ptr', 'Potri.008G153200' => 'ptr', 'Potri.009G163800' => 'ptr', 'Potri.010G087300' => 'ptr', 'Potri.010G239100' => 'ptr', 'Pp3c10_16100' => 'ppa', 'Pp3c10_16880' => 'ppa', 'Pp3c16_6230' => 'ppa', 'Pp3c17_18910' => 'ppa', 'Pp3c3_22119' => 'ppa', 'Pp3c3_22140' => 'ppa', 'Pp3c4_8159' => 'ppa', 'Pp3c4_8171' => 'ppa', 'Pp3c4_8330' => 'ppa', 'PRCOL_00004098' => 'pco', 'Prupe.1G013900' => 'ppe', 'Prupe.1G226300' => 'ppe', 'Prupe.1G573600' => 'ppe', 'Prupe.6G130100' => 'ppe', 'Psat3g090040' => 'psa', 'Psat4g210440' => 'psa', 'Psat6g231040' => 'psa', 'Psat6g231080' => 'psa', 'Psat7g063000' => 'psa', 'Psat7g188000' => 'psa', 'Psat7g188040' => 'psa', 'PSO017G0206' => 'pso', 'PSO170G0501' => 'pso', 'PSO170G6422' => 'pso', 'PSO210G7739' => 'pso', 'PSO339G1808' => 'pso', 'PSO339G6135' => 'pso', 'PSO384G0010' => 'pso', 'PSO384G0964' => 'pso', 'PSO761G0050' => 'pso', 'PSO782G4085' => 'pso', 'QL01p012264' => 'qlo', 'QL02p099491' => 'qlo', 'QL03p033868' => 'qlo', 'QL04p046678' => 'qlo', 'QL06p002448' => 'qlo', 'RcHm_v2.0_Chr4g0416181' => 'rch', 'RcHm_v2.0_Chr5g0044701' => 'rch', 'RcHm_v2.0_Chr6g0265781' => 'rch', 'RcHm_v2.0_Chr7g0221031' => 'rch', 'Rhsim04G0202000' => 'rsi', 'Rhsim11G0127300' => 'rsi', 'Rhsim13G0111800' => 'rsi', 'Sabra01G0165600' => 'sbr', 'Sabra03G0008300' => 'sbr', 'Sabra04G0136900' => 'sbr', 'Sabra08G0013400' => 'sbr', 'Sabra08G0116800' => 'sbr', 'Sabra09G0128000' => 'sbr', 'Sabra10G0055500' => 'sbr', 'Sabra10G0073300' => 'sbr', 'SalBow3G0385' => 'sbo', 'SalBow3G1119' => 'sbo', 'SalBow3G2005' => 'sbo', 'SalBow6G2563' => 'sbo', 'SalBow6G6386' => 'sbo', 'Sc06g0008800' => 'sci', 'Sc07g0004950' => 'sci', 'Sc09g0005340' => 'sci', 'Sc13g0004410' => 'sci', 'Sc21g0007090' => 'sci', 'Sed0009285' => 'sed', 'Sed0017583' => 'sed', 'Sed0019699' => 'sed', 'Sed0023107' => 'sed', 'SEGI_10916' => 'sgi', 'SEGI_16217' => 'sgi', 'SEGI_19466' => 'sgi', 'SEGI_41115' => 'sgi', 'SGA_v2.0_scaffold111G31534' => 'sas', 'SGA_v2.0_scaffold22G09864' => 'sas', 'SGA_v2.0_scaffold338G49219' => 'sas', 'SGA_v2.0_scaffold92G28298' => 'sas', 'SMO119G0064' => 'smo', 'SMO223G0038' => 'smo', 'SMO347G0584' => 'smo', 'SMO351G0010' => 'smo', 'SMO356G0404' => 'smo', 'Solyc01g103920.3' => 'sly', 'Solyc04g009710.2' => 'sly', 'Solyc05g055280.2' => 'sly', 'Solyc10g044520.3' => 'sly', 'Solyc10g075160.1' => 'sly', 'Solyc11g006910.3' => 'sly', 'Solyc11g068430.3' => 'sly', 'Sopen01g046310' => 'spe', 'Sopen03g001200' => 'spe', 'Sopen04g004830' => 'spe', 'Sopen05g033720' => 'spe', 'Sopen06g030740' => 'spe', 'Sopen10g013090' => 'spe', 'Sopen10g027630' => 'spe', 'Sopen10g027640' => 'spe', 'Sopen11g002820' => 'spe', 'Sopen11g027140' => 'spe', 'Sp1g09680' => 'spa', 'Sp2g03630' => 'spa', 'Sp4g10320' => 'spa', 'Sp6g33400' => 'spa', 'Sp7g13030' => 'spa', 'TAR365G0317' => 'tar', 'TAR376G0979' => 'tar', 'TAR623G1665' => 'tar', 'TAR633G2373' => 'tar', 'TAR636G1400' => 'tar', 'THA.LOC104800529' => 'tha', 'THA.LOC104808547' => 'tha', 'THA.LOC104809615' => 'tha', 'THA.LOC104815724' => 'tha', 'THA.LOC104818480' => 'tha', 'THA.LOC104819179' => 'tha', 'THA.LOC104822270' => 'tha', 'THA.LOC104826425' => 'tha', 'Thecc.02G089700' => 'tca', 'Thecc.04G232300' => 'tca', 'Thecc.09G283400' => 'tca', 'Thhalv10009020m.g' => 'esa', 'Thhalv10015506m.g' => 'esa', 'Thhalv10017364m.g' => 'esa', 'Thhalv10023742m.g' => 'esa', 'Thhalv10026483m.g' => 'esa', 'TPR.G17232' => 'tpr', 'TPR.G2133' => 'tpr', 'TPR.G2498' => 'tpr', 'TPR.G31942' => 'tpr', 'TPR.G37877' => 'tpr', 'TPR.G4571' => 'tpr', 'TWI14G1113' => 'twi', 'TWI15G0426' => 'twi', 'TWI31G1005' => 'twi', 'TWI38G0513' => 'twi', 'TWI38G1484' => 'twi', 'TWI73G1098' => 'twi', 'unitig_26.g10519' => 'ugi', 'unitig_736.g22395' => 'ugi', 'unitig_747.g21234' => 'ugi', 'unitig_747.g21942' => 'ugi', 'vmacro14351' => 'vma', 'VMungo0540G0082' => 'vmu', 'VMungo0540G0405' => 'vmu', 'VMungo0540G1486' => 'vmu', 'VMungo0540G1692' => 'vmu', 'VMungo0720G2473' => 'vmu', 'VMungo1127G1562' => 'vmu', 'VMungo1215G1918' => 'vmu', 'Zm00001eb052650' => 'zma', 'Zm00001eb063710' => 'zma', 'Zm00001eb083950' => 'zma', 'Zm00001eb174420' => 'zma', 'Zm00001eb260140' => 'zma', 'Zm00001eb260150' => 'zma', 'Zm00001eb260160' => 'zma', 'Zm00001eb348290' => 'zma', 'Zm00001eb366870' => 'zma', 'Zm00001eb421930' => 'zma' ) $gf_id = 'HOM05D001025' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001025' ) $data_identifier = 'HOM05D001025' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 19, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 2, 'amhyb' => (int) 4, 'aly' => (int) 4, 'aox' => (int) 4, 'arhy' => (int) 3, 'ath' => (int) 5, 'atr' => (int) 4, 'acertr' => (int) 3, 'cqu' => (int) 7, 'bca' => (int) 17, 'bol' => (int) 10, 'bra' => (int) 9, 'can' => (int) 10, 'cansat' => (int) 6, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 5, 'cbr' => (int) 5, 'ccan' => (int) 5, 'cde' => (int) 4, 'cfa' => (int) 3, 'ccl' => (int) 6, 'cil' => (int) 4, 'cla' => (int) 3, 'col' => (int) 3, 'cpa' => (int) 3, 'cre' => (int) 7, 'csa' => (int) 5, 'camsi' => (int) 9, 'dca' => (int) 4, 'din' => (int) 5, 'dzi' => (int) 7, 'eca' => (int) 6, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 12, 'fve' => (int) 4, 'gma' => (int) 12, 'ghi' => (int) 17, 'gra' => (int) 9, 'vvi' => (int) 2, 'han' => (int) 8, 'cav' => (int) 5, 'hma' => (int) 9, 'vpl' => (int) 4, 'sun' => (int) 2, 'lal' => (int) 9, 'lja' => (int) 5, 'lonja' => (int) 6, 'lsa' => (int) 3, 'mes' => (int) 8, 'mpo' => (int) 3, 'mbi' => (int) 4, 'mco' => (int) 3, 'mdo' => (int) 5, 'mtr' => (int) 7, 'cme' => (int) 6, 'egut' => (int) 7, 'ama' => (int) 3, 'nta' => (int) 12, 'nnu' => (int) 9, 'oeu' => (int) 4, 'osa' => (int) 7, 'pax' => (int) 9, 'pgr' => (int) 5, 'stu' => (int) 8, 'pvu' => (int) 6, 'ptr' => (int) 9, 'ppa' => (int) 9, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 7, 'pso' => (int) 10, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 3, 'sbr' => (int) 8, 'sbo' => (int) 5, 'sci' => (int) 5, 'sed' => (int) 4, 'sgi' => (int) 4, 'sas' => (int) 4, 'smo' => (int) 5, 'sly' => (int) 7, 'spe' => (int) 10, 'spa' => (int) 5, 'tar' => (int) 5, 'tha' => (int) 8, 'tca' => (int) 3, 'esa' => (int) 5, 'tpr' => (int) 6, 'twi' => (int) 6, 'ugi' => (int) 4, 'vma' => (int) 1, 'vmu' => (int) 7, 'zma' => (int) 10 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb421930' $species_info = array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ) $local_species = 'spa' $disabled = '' $selected = '' $num_hits = (int) 0include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001025', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '592', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p22650' => 'bna', 'A01p29720' => 'bna', 'A03p26560' => 'bna', 'A03p68820' => 'bna', 'A04p20980' => 'bna', 'A06p07730' => 'bna', 'A07p18260' => 'bna', 'A08p33710' => 'bna', 'A09p16970' => 'bna', 'A10p27490' => 'bna', 'Aa31LG1G17300' => 'aar', 'Aa31LG1G3910' => 'aar', 'Aa31LG2G9630' => 'aar', 'Aa31LG5G8360' => 'aar', 'Aa31LG9G2410' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4699' => 'aag', 'Actinidia23512' => 'ach', 'Actinidia37080' => 'ach', 'Ah.01g020380' => 'amhyb', 'Ah.08g215710' => 'amhyb', 'Ah.09g225110' => 'amhyb', 'Ah.10g036680' => 'amhyb', 'AL1G21940' => 'aly', 'AL2G15540' => 'aly', 'AL4G21520' => 'aly', 'AL7G40960' => 'aly', 'Aqoxy2G01191' => 'aox', 'Aqoxy2G03393' => 'aox', 'Aqoxy4G02775' => 'aox', 'Aqoxy6G00058' => 'aox', 'arahy.Tifrunner.gnm1.ann1.9X74H2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CW3FX9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R485W7' => 'arhy', 'AT1G10960' => 'ath', 'AT1G60950' => 'ath', 'AT2G27510' => 'ath', 'AT4G14890' => 'ath', 'AT5G10000' => 'ath', 'ATR0665G624' => 'atr', 'ATR0697G138' => 'atr', 'ATR0776G046' => 'atr', 'ATR1134G135' => 'atr', 'Atru.chr12.1025' => 'acertr', 'Atru.chr3.3241' => 'acertr', 'Atru.chr4.2460' => 'acertr', 'AUR62007427' => 'cqu', 'AUR62010960' => 'cqu', 'AUR62012201' => 'cqu', 'AUR62021470' => 'cqu', 'AUR62022834' => 'cqu', 'AUR62033635' => 'cqu', 'AUR62036186' => 'cqu', 'BcaB01g03077' => 'bca', 'BcaB02g10093' => 'bca', 'BcaB04g20295' => 'bca', 'BcaB06g28147' => 'bca', 'BcaB07g31253' => 'bca', 'BcaC01g04946' => 'bca', 'BcaC02g10614' => 'bca', 'BcaC02g10885' => 'bca', 'BcaC04g19356' => 'bca', 'BcaC04g22297' => 'bca', 'BcaC05g24977' => 'bca', 'BcaC06g31823' => 'bca', 'BcaC07g38633' => 'bca', 'BcaC09g49353' => 'bca', 'BcaC09g50168' => 'bca', 'BcaNung00322' => 'bca', 'BcaNung04769' => 'bca', 'BolC1t02753H' => 'bol', 'BolC1t03721H' => 'bol', 'BolC3t15525H' => 'bol', 'BolC4t23903H' => 'bol', 'BolC4t24231H' => 'bol', 'BolC4t27209H' => 'bol', 'BolC5t29671H' => 'bol', 'BolC8t49044H' => 'bol', 'BolC9t54999H' => 'bol', 'BolC9t59517H' => 'bol', 'BraA01t02178Z' => 'bra', 'BraA01t03099Z' => 'bra', 'BraA03t11867Z' => 'bra', 'BraA04t17667Z' => 'bra', 'BraA07t29542Z' => 'bra', 'BraA08t35287Z' => 'bra', 'BraA09t37334Z' => 'bra', 'BraA10t44801Z' => 'bra', 'BraSC39t46181Z' => 'bra', 'C01p28240' => 'bna', 'C01p37530' => 'bna', 'C03p31820' => 'bna', 'C04p24080' => 'bna', 'C04p25790' => 'bna', 'C04p56770' => 'bna', 'C05p09310' => 'bna', 'C09p21010' => 'bna', 'C09p67560' => 'bna', 'CAN.G1324.7' => 'can', 'CAN.G1358.10' => 'can', 'CAN.G1550.2' => 'can', 'CAN.G186.56' => 'can', 'CAN.G1965.1' => 'can', 'CAN.G645.15' => 'can', 'CAN.G798.26' => 'can', 'CAN.G798.27' => 'can', 'CAN.G798.29' => 'can', 'CAN.G919.31' => 'can', 'CANSAT11G0133' => 'cansat', 'CANSAT11G1171' => 'cansat', 'CANSAT11G2056' => 'cansat', 'CANSAT56G1202' => 'cansat', 'CANSAT56G1514' => 'cansat', 'CANSAT78G0455' => 'cansat', 'CARHR011190' => 'chi', 'CARHR051980' => 'chi', 'CARHR120170' => 'chi', 'CARHR203310' => 'chi', 'CARHR221490' => 'chi', 'Carub.0001s1054' => 'cru', 'Carub.0002s0431' => 'cru', 'Carub.0004s0818' => 'cru', 'Carub.0006s0846' => 'cru', 'Carub.0007s2722' => 'cru', 'Ca_00058_v3' => 'car', 'Ca_17831_v3' => 'car', 'Ca_19408_v3' => 'car', 'Ca_24397_v3' => 'car', 'Ca_25664_v3' => 'car', 'CBR_g21818' => 'cbr', 'CBR_g31195' => 'cbr', 'CBR_g32282' => 'cbr', 'CBR_g39599' => 'cbr', 'CBR_g49410' => 'cbr', 'Cc01_g09120' => 'ccan', 'Cc01_g09130' => 'ccan', 'Cc02_g09630' => 'ccan', 'Cc02_g22810' => 'ccan', 'Cc03_g03810' => 'ccan', 'CDE02G3718' => 'cde', 'CDE04G3183' => 'cde', 'CDE07G1046' => 'cde', 'CDE08G0480' => 'cde', 'Cfa005493' => 'cfa', 'Cfa010312' => 'cfa', 'Cfa015648' => 'cfa', 'Ciclev10002793m.g' => 'ccl', 'Ciclev10003356m.g' => 'ccl', 'Ciclev10006141m.g' => 'ccl', 'Ciclev10016676m.g' => 'ccl', 'Ciclev10017081m.g' => 'ccl', 'Ciclev10029499m.g' => 'ccl', 'CiPaw.01G166300' => 'cil', 'CiPaw.06G145600' => 'cil', 'CiPaw.13G040100' => 'cil', 'CiPaw.13G135800' => 'cil', 'ClCG01G012230' => 'cla', 'ClCG05G009510' => 'cla', 'ClCG08G008270' => 'cla', 'COL.COLO4_11763' => 'col', 'COL.COLO4_19876' => 'col', 'COL.COLO4_21481' => 'col', 'Cpa.g.sc118.34' => 'cpa', 'Cpa.g.sc32.13' => 'cpa', 'Cpa.g.sc58.103' => 'cpa', 'Cre03.g183850' => 'cre', 'Cre06.g306350' => 'cre', 'Cre07.g334800' => 'cre', 'Cre12.g487900' => 'cre', 'Cre14.g626700' => 'cre', 'Cre16.g658400' => 'cre', 'Cre17.g700950' => 'cre', 'CsaV3_1G014830' => 'csa', 'CsaV3_3G013320' => 'csa', 'CsaV3_3G019210' => 'csa', 'CsaV3_3G019220' => 'csa', 'CsaV3_6G004230' => 'csa', 'CSS0003773' => 'camsi', 'CSS0004563' => 'camsi', 'CSS0013949' => 'camsi', 'CSS0025971' => 'camsi', 'CSS0028570' => 'camsi', 'CSS0033127' => 'camsi', 'CSS0036051' => 'camsi', 'CSS0040087' => 'camsi', 'CSS0043179' => 'camsi', 'DCAR_006161' => 'dca', 'DCAR_010351' => 'dca', 'DCAR_012197' => 'dca', 'DCAR_024162' => 'dca', 'Dinv01030' => 'din', 'Dinv10924' => 'din', 'Dinv11835' => 'din', 'Dinv22841' => 'din', 'Dinv42553' => 'din', 'Duzib052G0560' => 'dzi', 'Duzib132G0389' => 'dzi', 'Duzib150G1181' => 'dzi', 'Duzib168G0623' => 'dzi', 'Duzib170G1036' => 'dzi', 'Duzib212G0200' => 'dzi', 'Duzib248G0194' => 'dzi', 'ECA232G2193' => 'eca', 'ECA233G0302' => 'eca', 'ECA234G2813' => 'eca', 'ECA234G4866' => 'eca', 'ECA240G3932' => 'eca', 'ECA248G0385' => 'eca', 'EL10Ac2g04781' => 'bvu', 'EL10Ac3g06445' => 'bvu', 'EL10Ac7g15825' => 'bvu', 'EL10Ac8g18550' => 'bvu', 'Eucgr.B03849' => 'egr', 'Eucgr.I02744' => 'egr', 'Eucgr.J00264' => 'egr', 'Eucgr.J00493' => 'egr', 'FAN04G2181' => 'fan', 'FAN07G2666' => 'fan', 'FAN11G0024' => 'fan', 'FAN12G1105' => 'fan', 'FAN13G0302' => 'fan', 'FAN15G2781' => 'fan', 'FAN16G1274' => 'fan', 'FAN17G2988' => 'fan', 'FAN18G2621' => 'fan', 'FAN21G0013' => 'fan', 'FAN22G1211' => 'fan', 'FAN25G3626' => 'fan', 'FvH4_2g09491' => 'fve', 'FvH4_3g24910' => 'fve', 'FvH4_4g15630' => 'fve', 'FvH4_5g28820' => 'fve', 'Glyma.01G238000' => 'gma', 'Glyma.05G168400' => 'gma', 'Glyma.08G126800' => 'gma', 'Glyma.08G188500' => 'gma', 'Glyma.10G278900' => 'gma', 'Glyma.11G005700' => 'gma', 'Glyma.11G183300' => 'gma', 'Glyma.12G089200' => 'gma', 'Glyma.12G169400' => 'gma', 'Glyma.12G169500' => 'gma', 'Glyma.12G169600' => 'gma', 'Glyma.20G110800' => 'gma', 'Gohir.A03G192900' => 'ghi', 'Gohir.A03G193000' => 'ghi', 'Gohir.A05G080700' => 'ghi', 'Gohir.A09G216000' => 'ghi', 'Gohir.A12G027700' => 'ghi', 'Gohir.A13G036200' => 'ghi', 'Gohir.A13G222600' => 'ghi', 'Gohir.D02G213900' => 'ghi', 'Gohir.D02G214000' => 'ghi', 'Gohir.D05G083700' => 'ghi', 'Gohir.D05G083800' => 'ghi', 'Gohir.D05G083850' => 'ghi', 'Gohir.D08G015400' => 'ghi', 'Gohir.D09G218400' => 'ghi', 'Gohir.D12G027100' => 'ghi', 'Gohir.D13G034500' => 'ghi', 'Gohir.D13G227400' => 'ghi', 'Gorai.005G241800' => 'gra', 'Gorai.005G241900' => 'gra', 'Gorai.006G239400' => 'gra', 'Gorai.008G027600' => 'gra', 'Gorai.009G085400' => 'gra', 'Gorai.009G085500' => 'gra', 'Gorai.013G039000' => 'gra', 'Gorai.013G194800' => 'gra', 'Gorai.013G257900' => 'gra', 'GSVIVG01000982001' => 'vvi', 'GSVIVG01017981001' => 'vvi', 'HanXRQChr01g0024061' => 'han', 'HanXRQChr09g0247831' => 'han', 'HanXRQChr10g0294611' => 'han', 'HanXRQChr10g0294621' => 'han', 'HanXRQChr11g0346821' => 'han', 'HanXRQChr13g0397461' => 'han', 'HanXRQChr16g0513651' => 'han', 'HanXRQChr16g0513701' => 'han', 'Haze_00897' => 'cav', 'Haze_01745' => 'cav', 'Haze_02486' => 'cav', 'Haze_02487' => 'cav', 'Haze_23374' => 'cav', 'Hma1.2p1_0578F.1_g182520' => 'hma', 'Hma1.2p1_0602F.1_g187350' => 'hma', 'Hma1.2p1_0602F.1_g187360' => 'hma', 'Hma1.2p1_0874F.1_g231320' => 'hma', 'Hma1.2p1_1197F.1_g266210' => 'hma', 'Hma1.2p1_1197F.1_g266220' => 'hma', 'Hma1.2p1_2167F.1_g315895' => 'hma', 'Hma1.2p1_2190F.1_g316640' => 'hma', 'Hma1.2p1_3645F.1_g337153' => 'hma', 'HPP92_004907' => 'vpl', 'HPP92_012134' => 'vpl', 'HPP92_025136' => 'vpl', 'HPP92_026087' => 'vpl', 'Hund06782' => 'sun', 'Hund06784' => 'sun', 'Lalb_Chr01g0004861' => 'lal', 'Lalb_Chr02g0140591' => 'lal', 'Lalb_Chr02g0140611' => 'lal', 'Lalb_Chr03g0028101' => 'lal', 'Lalb_Chr07g0185791' => 'lal', 'Lalb_Chr12g0204491' => 'lal', 'Lalb_Chr13g0295671' => 'lal', 'Lalb_Chr19g0136461' => 'lal', 'Lalb_Chr21g0309191' => 'lal', 'Lj1g0028158' => 'lja', 'Lj1P236T38' => 'lonja', 'Lj2C32G2' => 'lonja', 'Lj2P944T8' => 'lonja', 'Lj2P963T15' => 'lonja', 'Lj3g0011788' => 'lja', 'Lj4g0025027' => 'lja', 'Lj5P255T36' => 'lonja', 'Lj6g0018866' => 'lja', 'Lj6P608T31' => 'lonja', 'LjContig00408g0008879' => 'lja', 'Lsat_1_v5_gn_5_105820' => 'lsa', 'Lsat_1_v5_gn_6_38800' => 'lsa', 'Lsat_1_v5_gn_7_67141' => 'lsa', 'Manes.04G003400' => 'mes', 'Manes.07G020000' => 'mes', 'Manes.07G020100' => 'mes', 'Manes.07G020150' => 'mes', 'Manes.10G061500' => 'mes', 'Manes.10G123200' => 'mes', 'Manes.11G161900' => 'mes', 'Manes.15G029300' => 'mes', 'Mapoly0071s0018' => 'mpo', 'Mapoly0082s0023' => 'mpo', 'Mapoly3477s0001' => 'mpo', 'MBI05_g31233_MAGBIO' => 'mbi', 'MBI09_g05946_MAGBIO' => 'mbi', 'MBI09_g05947_MAGBIO' => 'mbi', 'MBI17_g08346_MAGBIO' => 'mbi', 'MCO04G038' => 'mco', 'MCO09G370' => 'mco', 'MCO13G605' => 'mco', 'MD00G1075500' => 'mdo', 'MD03G1144300' => 'mdo', 'MD08G1236800' => 'mdo', 'MD13G1193300' => 'mdo', 'MD15G1428700' => 'mdo', 'Medtr1g112030' => 'mtr', 'Medtr1g112050' => 'mtr', 'Medtr2g006290' => 'mtr', 'Medtr2g086510' => 'mtr', 'Medtr4g053120' => 'mtr', 'Medtr5g006320' => 'mtr', 'Medtr8g088720' => 'mtr', 'MELO3C004712.2' => 'cme', 'MELO3C006533.2' => 'cme', 'MELO3C019438.2' => 'cme', 'MELO3C019440.2' => 'cme', 'MELO3C019441.2' => 'cme', 'MELO3C019895.2' => 'cme', 'Migut.B00811' => 'egut', 'Migut.D02447' => 'egut', 'Migut.F00875' => 'egut', 'Migut.N00186' => 'egut', 'Migut.N01051' => 'egut', 'Migut.N02491' => 'egut', 'Migut.O00784' => 'egut', 'MSTRG.12367' => 'ama', 'MSTRG.18756' => 'ama', 'MSTRG.21042' => 'ama', 'Nitab4.5_0000559g0040' => 'nta', 'Nitab4.5_0000667g0190' => 'nta', 'Nitab4.5_0000755g0160' => 'nta', 'Nitab4.5_0001216g0080' => 'nta', 'Nitab4.5_0004069g0040' => 'nta', 'Nitab4.5_0004129g0010' => 'nta', 'Nitab4.5_0005744g0030' => 'nta', 'Nitab4.5_0006996g0030' => 'nta', 'Nitab4.5_0008971g0040' => 'nta', 'Nitab4.5_0009769g0020' => 'nta', 'Nitab4.5_0009833g0010' => 'nta', 'Nitab4.5_0013140g0020' => 'nta', 'Nn003s41376' => 'nnu', 'Nn1g01857' => 'nnu', 'Nn1g03611' => 'nnu', 'Nn1g06853' => 'nnu', 'Nn3g18360' => 'nnu', 'Nn4g26328' => 'nnu', 'Nn5g27531' => 'nnu', 'Nn6g34899' => 'nnu', 'Nn7g36299' => 'nnu', 'Oeu021485.1' => 'oeu', 'Oeu022433.1' => 'oeu', 'Oeu032111.1' => 'oeu', 'Oeu051608.1' => 'oeu', 'Os01g0860601' => 'osa', 'Os03g0659200' => 'osa', 'Os03g0835900' => 'osa', 'Os04g0412200' => 'osa', 'Os05g0443500' => 'osa', 'Os07g0251500' => 'osa', 'Os08g0104600' => 'osa', 'Peaxi162Scf00003g00047' => 'pax', 'Peaxi162Scf00003g00052' => 'pax', 'Peaxi162Scf00003g00394' => 'pax', 'Peaxi162Scf00091g00621' => 'pax', 'Peaxi162Scf00152g00146' => 'pax', 'Peaxi162Scf00173g00025' => 'pax', 'Peaxi162Scf00195g00102' => 'pax', 'Peaxi162Scf00402g00013' => 'pax', 'Peaxi162Scf00519g00618' => 'pax', 'PGR004G2838' => 'pgr', 'PGR044G2275' => 'pgr', 'PGR102G1377' => 'pgr', 'PGR119G1245' => 'pgr', 'PGR142G4449' => 'pgr', 'PGSC0003DMG400004532' => 'stu', 'PGSC0003DMG400011950' => 'stu', 'PGSC0003DMG400023391' => 'stu', 'PGSC0003DMG400023985' => 'stu', 'PGSC0003DMG400026360' => 'stu', 'PGSC0003DMG400035711' => 'stu', 'PGSC0003DMG400037286' => 'stu', 'PGSC0003DMG402005881' => 'stu', 'Phvul.002G045400' => 'pvu', 'Phvul.006G216600' => 'pvu', 'Phvul.006G216700' => 'pvu', 'Phvul.006G216800' => 'pvu', 'Phvul.007G022500' => 'pvu', 'Phvul.011G094400' => 'pvu', 'Potri.001G470700' => 'ptr', 'Potri.003G015200' => 'ptr', 'Potri.004G202500' => 'ptr', 'Potri.004G218400' => 'ptr', 'Potri.008G020100' => 'ptr', 'Potri.008G153200' => 'ptr', 'Potri.009G163800' => 'ptr', 'Potri.010G087300' => 'ptr', 'Potri.010G239100' => 'ptr', 'Pp3c10_16100' => 'ppa', 'Pp3c10_16880' => 'ppa', 'Pp3c16_6230' => 'ppa', 'Pp3c17_18910' => 'ppa', 'Pp3c3_22119' => 'ppa', 'Pp3c3_22140' => 'ppa', 'Pp3c4_8159' => 'ppa', 'Pp3c4_8171' => 'ppa', 'Pp3c4_8330' => 'ppa', 'PRCOL_00004098' => 'pco', 'Prupe.1G013900' => 'ppe', 'Prupe.1G226300' => 'ppe', 'Prupe.1G573600' => 'ppe', 'Prupe.6G130100' => 'ppe', 'Psat3g090040' => 'psa', 'Psat4g210440' => 'psa', 'Psat6g231040' => 'psa', 'Psat6g231080' => 'psa', 'Psat7g063000' => 'psa', 'Psat7g188000' => 'psa', 'Psat7g188040' => 'psa', 'PSO017G0206' => 'pso', 'PSO170G0501' => 'pso', 'PSO170G6422' => 'pso', 'PSO210G7739' => 'pso', 'PSO339G1808' => 'pso', 'PSO339G6135' => 'pso', 'PSO384G0010' => 'pso', 'PSO384G0964' => 'pso', 'PSO761G0050' => 'pso', 'PSO782G4085' => 'pso', 'QL01p012264' => 'qlo', 'QL02p099491' => 'qlo', 'QL03p033868' => 'qlo', 'QL04p046678' => 'qlo', 'QL06p002448' => 'qlo', 'RcHm_v2.0_Chr4g0416181' => 'rch', 'RcHm_v2.0_Chr5g0044701' => 'rch', 'RcHm_v2.0_Chr6g0265781' => 'rch', 'RcHm_v2.0_Chr7g0221031' => 'rch', 'Rhsim04G0202000' => 'rsi', 'Rhsim11G0127300' => 'rsi', 'Rhsim13G0111800' => 'rsi', 'Sabra01G0165600' => 'sbr', 'Sabra03G0008300' => 'sbr', 'Sabra04G0136900' => 'sbr', 'Sabra08G0013400' => 'sbr', 'Sabra08G0116800' => 'sbr', 'Sabra09G0128000' => 'sbr', 'Sabra10G0055500' => 'sbr', 'Sabra10G0073300' => 'sbr', 'SalBow3G0385' => 'sbo', 'SalBow3G1119' => 'sbo', 'SalBow3G2005' => 'sbo', 'SalBow6G2563' => 'sbo', 'SalBow6G6386' => 'sbo', 'Sc06g0008800' => 'sci', 'Sc07g0004950' => 'sci', 'Sc09g0005340' => 'sci', 'Sc13g0004410' => 'sci', 'Sc21g0007090' => 'sci', 'Sed0009285' => 'sed', 'Sed0017583' => 'sed', 'Sed0019699' => 'sed', 'Sed0023107' => 'sed', 'SEGI_10916' => 'sgi', 'SEGI_16217' => 'sgi', 'SEGI_19466' => 'sgi', 'SEGI_41115' => 'sgi', 'SGA_v2.0_scaffold111G31534' => 'sas', 'SGA_v2.0_scaffold22G09864' => 'sas', 'SGA_v2.0_scaffold338G49219' => 'sas', 'SGA_v2.0_scaffold92G28298' => 'sas', 'SMO119G0064' => 'smo', 'SMO223G0038' => 'smo', 'SMO347G0584' => 'smo', 'SMO351G0010' => 'smo', 'SMO356G0404' => 'smo', 'Solyc01g103920.3' => 'sly', 'Solyc04g009710.2' => 'sly', 'Solyc05g055280.2' => 'sly', 'Solyc10g044520.3' => 'sly', 'Solyc10g075160.1' => 'sly', 'Solyc11g006910.3' => 'sly', 'Solyc11g068430.3' => 'sly', 'Sopen01g046310' => 'spe', 'Sopen03g001200' => 'spe', 'Sopen04g004830' => 'spe', 'Sopen05g033720' => 'spe', 'Sopen06g030740' => 'spe', 'Sopen10g013090' => 'spe', 'Sopen10g027630' => 'spe', 'Sopen10g027640' => 'spe', 'Sopen11g002820' => 'spe', 'Sopen11g027140' => 'spe', 'Sp1g09680' => 'spa', 'Sp2g03630' => 'spa', 'Sp4g10320' => 'spa', 'Sp6g33400' => 'spa', 'Sp7g13030' => 'spa', 'TAR365G0317' => 'tar', 'TAR376G0979' => 'tar', 'TAR623G1665' => 'tar', 'TAR633G2373' => 'tar', 'TAR636G1400' => 'tar', 'THA.LOC104800529' => 'tha', 'THA.LOC104808547' => 'tha', 'THA.LOC104809615' => 'tha', 'THA.LOC104815724' => 'tha', 'THA.LOC104818480' => 'tha', 'THA.LOC104819179' => 'tha', 'THA.LOC104822270' => 'tha', 'THA.LOC104826425' => 'tha', 'Thecc.02G089700' => 'tca', 'Thecc.04G232300' => 'tca', 'Thecc.09G283400' => 'tca', 'Thhalv10009020m.g' => 'esa', 'Thhalv10015506m.g' => 'esa', 'Thhalv10017364m.g' => 'esa', 'Thhalv10023742m.g' => 'esa', 'Thhalv10026483m.g' => 'esa', 'TPR.G17232' => 'tpr', 'TPR.G2133' => 'tpr', 'TPR.G2498' => 'tpr', 'TPR.G31942' => 'tpr', 'TPR.G37877' => 'tpr', 'TPR.G4571' => 'tpr', 'TWI14G1113' => 'twi', 'TWI15G0426' => 'twi', 'TWI31G1005' => 'twi', 'TWI38G0513' => 'twi', 'TWI38G1484' => 'twi', 'TWI73G1098' => 'twi', 'unitig_26.g10519' => 'ugi', 'unitig_736.g22395' => 'ugi', 'unitig_747.g21234' => 'ugi', 'unitig_747.g21942' => 'ugi', 'vmacro14351' => 'vma', 'VMungo0540G0082' => 'vmu', 'VMungo0540G0405' => 'vmu', 'VMungo0540G1486' => 'vmu', 'VMungo0540G1692' => 'vmu', 'VMungo0720G2473' => 'vmu', 'VMungo1127G1562' => 'vmu', 'VMungo1215G1918' => 'vmu', 'Zm00001eb052650' => 'zma', 'Zm00001eb063710' => 'zma', 'Zm00001eb083950' => 'zma', 'Zm00001eb174420' => 'zma', 'Zm00001eb260140' => 'zma', 'Zm00001eb260150' => 'zma', 'Zm00001eb260160' => 'zma', 'Zm00001eb348290' => 'zma', 'Zm00001eb366870' => 'zma', 'Zm00001eb421930' => 'zma' ), 'gf_id' => 'HOM05D001025', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001025' ), 'data_identifier' => 'HOM05D001025', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001025', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '592', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p22650' => 'bna', 'A01p29720' => 'bna', 'A03p26560' => 'bna', 'A03p68820' => 'bna', 'A04p20980' => 'bna', 'A06p07730' => 'bna', 'A07p18260' => 'bna', 'A08p33710' => 'bna', 'A09p16970' => 'bna', 'A10p27490' => 'bna', 'Aa31LG1G17300' => 'aar', 'Aa31LG1G3910' => 'aar', 'Aa31LG2G9630' => 'aar', 'Aa31LG5G8360' => 'aar', 'Aa31LG9G2410' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4699' => 'aag', 'Actinidia23512' => 'ach', 'Actinidia37080' => 'ach', 'Ah.01g020380' => 'amhyb', 'Ah.08g215710' => 'amhyb', 'Ah.09g225110' => 'amhyb', 'Ah.10g036680' => 'amhyb', 'AL1G21940' => 'aly', 'AL2G15540' => 'aly', 'AL4G21520' => 'aly', 'AL7G40960' => 'aly', 'Aqoxy2G01191' => 'aox', 'Aqoxy2G03393' => 'aox', 'Aqoxy4G02775' => 'aox', 'Aqoxy6G00058' => 'aox', 'arahy.Tifrunner.gnm1.ann1.9X74H2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CW3FX9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R485W7' => 'arhy', 'AT1G10960' => 'ath', 'AT1G60950' => 'ath', 'AT2G27510' => 'ath', 'AT4G14890' => 'ath', 'AT5G10000' => 'ath', 'ATR0665G624' => 'atr', 'ATR0697G138' => 'atr', 'ATR0776G046' => 'atr', 'ATR1134G135' => 'atr', 'Atru.chr12.1025' => 'acertr', 'Atru.chr3.3241' => 'acertr', 'Atru.chr4.2460' => 'acertr', 'AUR62007427' => 'cqu', 'AUR62010960' => 'cqu', 'AUR62012201' => 'cqu', 'AUR62021470' => 'cqu', 'AUR62022834' => 'cqu', 'AUR62033635' => 'cqu', 'AUR62036186' => 'cqu', 'BcaB01g03077' => 'bca', 'BcaB02g10093' => 'bca', 'BcaB04g20295' => 'bca', 'BcaB06g28147' => 'bca', 'BcaB07g31253' => 'bca', 'BcaC01g04946' => 'bca', 'BcaC02g10614' => 'bca', 'BcaC02g10885' => 'bca', 'BcaC04g19356' => 'bca', 'BcaC04g22297' => 'bca', 'BcaC05g24977' => 'bca', 'BcaC06g31823' => 'bca', 'BcaC07g38633' => 'bca', 'BcaC09g49353' => 'bca', 'BcaC09g50168' => 'bca', 'BcaNung00322' => 'bca', 'BcaNung04769' => 'bca', 'BolC1t02753H' => 'bol', 'BolC1t03721H' => 'bol', 'BolC3t15525H' => 'bol', 'BolC4t23903H' => 'bol', 'BolC4t24231H' => 'bol', 'BolC4t27209H' => 'bol', 'BolC5t29671H' => 'bol', 'BolC8t49044H' => 'bol', 'BolC9t54999H' => 'bol', 'BolC9t59517H' => 'bol', 'BraA01t02178Z' => 'bra', 'BraA01t03099Z' => 'bra', 'BraA03t11867Z' => 'bra', 'BraA04t17667Z' => 'bra', 'BraA07t29542Z' => 'bra', 'BraA08t35287Z' => 'bra', 'BraA09t37334Z' => 'bra', 'BraA10t44801Z' => 'bra', 'BraSC39t46181Z' => 'bra', 'C01p28240' => 'bna', 'C01p37530' => 'bna', 'C03p31820' => 'bna', 'C04p24080' => 'bna', 'C04p25790' => 'bna', 'C04p56770' => 'bna', 'C05p09310' => 'bna', 'C09p21010' => 'bna', 'C09p67560' => 'bna', 'CAN.G1324.7' => 'can', 'CAN.G1358.10' => 'can', 'CAN.G1550.2' => 'can', 'CAN.G186.56' => 'can', 'CAN.G1965.1' => 'can', 'CAN.G645.15' => 'can', 'CAN.G798.26' => 'can', 'CAN.G798.27' => 'can', 'CAN.G798.29' => 'can', 'CAN.G919.31' => 'can', 'CANSAT11G0133' => 'cansat', 'CANSAT11G1171' => 'cansat', 'CANSAT11G2056' => 'cansat', 'CANSAT56G1202' => 'cansat', 'CANSAT56G1514' => 'cansat', 'CANSAT78G0455' => 'cansat', 'CARHR011190' => 'chi', 'CARHR051980' => 'chi', 'CARHR120170' => 'chi', 'CARHR203310' => 'chi', 'CARHR221490' => 'chi', 'Carub.0001s1054' => 'cru', 'Carub.0002s0431' => 'cru', 'Carub.0004s0818' => 'cru', 'Carub.0006s0846' => 'cru', 'Carub.0007s2722' => 'cru', 'Ca_00058_v3' => 'car', 'Ca_17831_v3' => 'car', 'Ca_19408_v3' => 'car', 'Ca_24397_v3' => 'car', 'Ca_25664_v3' => 'car', 'CBR_g21818' => 'cbr', 'CBR_g31195' => 'cbr', 'CBR_g32282' => 'cbr', 'CBR_g39599' => 'cbr', 'CBR_g49410' => 'cbr', 'Cc01_g09120' => 'ccan', 'Cc01_g09130' => 'ccan', 'Cc02_g09630' => 'ccan', 'Cc02_g22810' => 'ccan', 'Cc03_g03810' => 'ccan', 'CDE02G3718' => 'cde', 'CDE04G3183' => 'cde', 'CDE07G1046' => 'cde', 'CDE08G0480' => 'cde', 'Cfa005493' => 'cfa', 'Cfa010312' => 'cfa', 'Cfa015648' => 'cfa', 'Ciclev10002793m.g' => 'ccl', 'Ciclev10003356m.g' => 'ccl', 'Ciclev10006141m.g' => 'ccl', 'Ciclev10016676m.g' => 'ccl', 'Ciclev10017081m.g' => 'ccl', 'Ciclev10029499m.g' => 'ccl', 'CiPaw.01G166300' => 'cil', 'CiPaw.06G145600' => 'cil', 'CiPaw.13G040100' => 'cil', 'CiPaw.13G135800' => 'cil', 'ClCG01G012230' => 'cla', 'ClCG05G009510' => 'cla', 'ClCG08G008270' => 'cla', 'COL.COLO4_11763' => 'col', 'COL.COLO4_19876' => 'col', 'COL.COLO4_21481' => 'col', 'Cpa.g.sc118.34' => 'cpa', 'Cpa.g.sc32.13' => 'cpa', 'Cpa.g.sc58.103' => 'cpa', 'Cre03.g183850' => 'cre', 'Cre06.g306350' => 'cre', 'Cre07.g334800' => 'cre', 'Cre12.g487900' => 'cre', 'Cre14.g626700' => 'cre', 'Cre16.g658400' => 'cre', 'Cre17.g700950' => 'cre', 'CsaV3_1G014830' => 'csa', 'CsaV3_3G013320' => 'csa', 'CsaV3_3G019210' => 'csa', 'CsaV3_3G019220' => 'csa', 'CsaV3_6G004230' => 'csa', 'CSS0003773' => 'camsi', 'CSS0004563' => 'camsi', 'CSS0013949' => 'camsi', 'CSS0025971' => 'camsi', 'CSS0028570' => 'camsi', 'CSS0033127' => 'camsi', 'CSS0036051' => 'camsi', 'CSS0040087' => 'camsi', 'CSS0043179' => 'camsi', 'DCAR_006161' => 'dca', 'DCAR_010351' => 'dca', 'DCAR_012197' => 'dca', 'DCAR_024162' => 'dca', 'Dinv01030' => 'din', 'Dinv10924' => 'din', 'Dinv11835' => 'din', 'Dinv22841' => 'din', 'Dinv42553' => 'din', 'Duzib052G0560' => 'dzi', 'Duzib132G0389' => 'dzi', 'Duzib150G1181' => 'dzi', 'Duzib168G0623' => 'dzi', 'Duzib170G1036' => 'dzi', 'Duzib212G0200' => 'dzi', 'Duzib248G0194' => 'dzi', 'ECA232G2193' => 'eca', 'ECA233G0302' => 'eca', 'ECA234G2813' => 'eca', 'ECA234G4866' => 'eca', 'ECA240G3932' => 'eca', 'ECA248G0385' => 'eca', 'EL10Ac2g04781' => 'bvu', 'EL10Ac3g06445' => 'bvu', 'EL10Ac7g15825' => 'bvu', 'EL10Ac8g18550' => 'bvu', 'Eucgr.B03849' => 'egr', 'Eucgr.I02744' => 'egr', 'Eucgr.J00264' => 'egr', 'Eucgr.J00493' => 'egr', 'FAN04G2181' => 'fan', 'FAN07G2666' => 'fan', 'FAN11G0024' => 'fan', 'FAN12G1105' => 'fan', 'FAN13G0302' => 'fan', 'FAN15G2781' => 'fan', 'FAN16G1274' => 'fan', 'FAN17G2988' => 'fan', 'FAN18G2621' => 'fan', 'FAN21G0013' => 'fan', 'FAN22G1211' => 'fan', 'FAN25G3626' => 'fan', 'FvH4_2g09491' => 'fve', 'FvH4_3g24910' => 'fve', 'FvH4_4g15630' => 'fve', 'FvH4_5g28820' => 'fve', 'Glyma.01G238000' => 'gma', 'Glyma.05G168400' => 'gma', 'Glyma.08G126800' => 'gma', 'Glyma.08G188500' => 'gma', 'Glyma.10G278900' => 'gma', 'Glyma.11G005700' => 'gma', 'Glyma.11G183300' => 'gma', 'Glyma.12G089200' => 'gma', 'Glyma.12G169400' => 'gma', 'Glyma.12G169500' => 'gma', 'Glyma.12G169600' => 'gma', 'Glyma.20G110800' => 'gma', 'Gohir.A03G192900' => 'ghi', 'Gohir.A03G193000' => 'ghi', 'Gohir.A05G080700' => 'ghi', 'Gohir.A09G216000' => 'ghi', 'Gohir.A12G027700' => 'ghi', 'Gohir.A13G036200' => 'ghi', 'Gohir.A13G222600' => 'ghi', 'Gohir.D02G213900' => 'ghi', 'Gohir.D02G214000' => 'ghi', 'Gohir.D05G083700' => 'ghi', 'Gohir.D05G083800' => 'ghi', 'Gohir.D05G083850' => 'ghi', 'Gohir.D08G015400' => 'ghi', 'Gohir.D09G218400' => 'ghi', 'Gohir.D12G027100' => 'ghi', 'Gohir.D13G034500' => 'ghi', 'Gohir.D13G227400' => 'ghi', 'Gorai.005G241800' => 'gra', 'Gorai.005G241900' => 'gra', 'Gorai.006G239400' => 'gra', 'Gorai.008G027600' => 'gra', 'Gorai.009G085400' => 'gra', 'Gorai.009G085500' => 'gra', 'Gorai.013G039000' => 'gra', 'Gorai.013G194800' => 'gra', 'Gorai.013G257900' => 'gra', 'GSVIVG01000982001' => 'vvi', 'GSVIVG01017981001' => 'vvi', 'HanXRQChr01g0024061' => 'han', 'HanXRQChr09g0247831' => 'han', 'HanXRQChr10g0294611' => 'han', 'HanXRQChr10g0294621' => 'han', 'HanXRQChr11g0346821' => 'han', 'HanXRQChr13g0397461' => 'han', 'HanXRQChr16g0513651' => 'han', 'HanXRQChr16g0513701' => 'han', 'Haze_00897' => 'cav', 'Haze_01745' => 'cav', 'Haze_02486' => 'cav', 'Haze_02487' => 'cav', 'Haze_23374' => 'cav', 'Hma1.2p1_0578F.1_g182520' => 'hma', 'Hma1.2p1_0602F.1_g187350' => 'hma', 'Hma1.2p1_0602F.1_g187360' => 'hma', 'Hma1.2p1_0874F.1_g231320' => 'hma', 'Hma1.2p1_1197F.1_g266210' => 'hma', 'Hma1.2p1_1197F.1_g266220' => 'hma', 'Hma1.2p1_2167F.1_g315895' => 'hma', 'Hma1.2p1_2190F.1_g316640' => 'hma', 'Hma1.2p1_3645F.1_g337153' => 'hma', 'HPP92_004907' => 'vpl', 'HPP92_012134' => 'vpl', 'HPP92_025136' => 'vpl', 'HPP92_026087' => 'vpl', 'Hund06782' => 'sun', 'Hund06784' => 'sun', 'Lalb_Chr01g0004861' => 'lal', 'Lalb_Chr02g0140591' => 'lal', 'Lalb_Chr02g0140611' => 'lal', 'Lalb_Chr03g0028101' => 'lal', 'Lalb_Chr07g0185791' => 'lal', 'Lalb_Chr12g0204491' => 'lal', 'Lalb_Chr13g0295671' => 'lal', 'Lalb_Chr19g0136461' => 'lal', 'Lalb_Chr21g0309191' => 'lal', 'Lj1g0028158' => 'lja', 'Lj1P236T38' => 'lonja', 'Lj2C32G2' => 'lonja', 'Lj2P944T8' => 'lonja', 'Lj2P963T15' => 'lonja', 'Lj3g0011788' => 'lja', 'Lj4g0025027' => 'lja', 'Lj5P255T36' => 'lonja', 'Lj6g0018866' => 'lja', 'Lj6P608T31' => 'lonja', 'LjContig00408g0008879' => 'lja', 'Lsat_1_v5_gn_5_105820' => 'lsa', 'Lsat_1_v5_gn_6_38800' => 'lsa', 'Lsat_1_v5_gn_7_67141' => 'lsa', 'Manes.04G003400' => 'mes', 'Manes.07G020000' => 'mes', 'Manes.07G020100' => 'mes', 'Manes.07G020150' => 'mes', 'Manes.10G061500' => 'mes', 'Manes.10G123200' => 'mes', 'Manes.11G161900' => 'mes', 'Manes.15G029300' => 'mes', 'Mapoly0071s0018' => 'mpo', 'Mapoly0082s0023' => 'mpo', 'Mapoly3477s0001' => 'mpo', 'MBI05_g31233_MAGBIO' => 'mbi', 'MBI09_g05946_MAGBIO' => 'mbi', 'MBI09_g05947_MAGBIO' => 'mbi', 'MBI17_g08346_MAGBIO' => 'mbi', 'MCO04G038' => 'mco', 'MCO09G370' => 'mco', 'MCO13G605' => 'mco', 'MD00G1075500' => 'mdo', 'MD03G1144300' => 'mdo', 'MD08G1236800' => 'mdo', 'MD13G1193300' => 'mdo', 'MD15G1428700' => 'mdo', 'Medtr1g112030' => 'mtr', 'Medtr1g112050' => 'mtr', 'Medtr2g006290' => 'mtr', 'Medtr2g086510' => 'mtr', 'Medtr4g053120' => 'mtr', 'Medtr5g006320' => 'mtr', 'Medtr8g088720' => 'mtr', 'MELO3C004712.2' => 'cme', 'MELO3C006533.2' => 'cme', 'MELO3C019438.2' => 'cme', 'MELO3C019440.2' => 'cme', 'MELO3C019441.2' => 'cme', 'MELO3C019895.2' => 'cme', 'Migut.B00811' => 'egut', 'Migut.D02447' => 'egut', 'Migut.F00875' => 'egut', 'Migut.N00186' => 'egut', 'Migut.N01051' => 'egut', 'Migut.N02491' => 'egut', 'Migut.O00784' => 'egut', 'MSTRG.12367' => 'ama', 'MSTRG.18756' => 'ama', 'MSTRG.21042' => 'ama', 'Nitab4.5_0000559g0040' => 'nta', 'Nitab4.5_0000667g0190' => 'nta', 'Nitab4.5_0000755g0160' => 'nta', 'Nitab4.5_0001216g0080' => 'nta', 'Nitab4.5_0004069g0040' => 'nta', 'Nitab4.5_0004129g0010' => 'nta', 'Nitab4.5_0005744g0030' => 'nta', 'Nitab4.5_0006996g0030' => 'nta', 'Nitab4.5_0008971g0040' => 'nta', 'Nitab4.5_0009769g0020' => 'nta', 'Nitab4.5_0009833g0010' => 'nta', 'Nitab4.5_0013140g0020' => 'nta', 'Nn003s41376' => 'nnu', 'Nn1g01857' => 'nnu', 'Nn1g03611' => 'nnu', 'Nn1g06853' => 'nnu', 'Nn3g18360' => 'nnu', 'Nn4g26328' => 'nnu', 'Nn5g27531' => 'nnu', 'Nn6g34899' => 'nnu', 'Nn7g36299' => 'nnu', 'Oeu021485.1' => 'oeu', 'Oeu022433.1' => 'oeu', 'Oeu032111.1' => 'oeu', 'Oeu051608.1' => 'oeu', 'Os01g0860601' => 'osa', 'Os03g0659200' => 'osa', 'Os03g0835900' => 'osa', 'Os04g0412200' => 'osa', 'Os05g0443500' => 'osa', 'Os07g0251500' => 'osa', 'Os08g0104600' => 'osa', 'Peaxi162Scf00003g00047' => 'pax', 'Peaxi162Scf00003g00052' => 'pax', 'Peaxi162Scf00003g00394' => 'pax', 'Peaxi162Scf00091g00621' => 'pax', 'Peaxi162Scf00152g00146' => 'pax', 'Peaxi162Scf00173g00025' => 'pax', 'Peaxi162Scf00195g00102' => 'pax', 'Peaxi162Scf00402g00013' => 'pax', 'Peaxi162Scf00519g00618' => 'pax', 'PGR004G2838' => 'pgr', 'PGR044G2275' => 'pgr', 'PGR102G1377' => 'pgr', 'PGR119G1245' => 'pgr', 'PGR142G4449' => 'pgr', 'PGSC0003DMG400004532' => 'stu', 'PGSC0003DMG400011950' => 'stu', 'PGSC0003DMG400023391' => 'stu', 'PGSC0003DMG400023985' => 'stu', 'PGSC0003DMG400026360' => 'stu', 'PGSC0003DMG400035711' => 'stu', 'PGSC0003DMG400037286' => 'stu', 'PGSC0003DMG402005881' => 'stu', 'Phvul.002G045400' => 'pvu', 'Phvul.006G216600' => 'pvu', 'Phvul.006G216700' => 'pvu', 'Phvul.006G216800' => 'pvu', 'Phvul.007G022500' => 'pvu', 'Phvul.011G094400' => 'pvu', 'Potri.001G470700' => 'ptr', 'Potri.003G015200' => 'ptr', 'Potri.004G202500' => 'ptr', 'Potri.004G218400' => 'ptr', 'Potri.008G020100' => 'ptr', 'Potri.008G153200' => 'ptr', 'Potri.009G163800' => 'ptr', 'Potri.010G087300' => 'ptr', 'Potri.010G239100' => 'ptr', 'Pp3c10_16100' => 'ppa', 'Pp3c10_16880' => 'ppa', 'Pp3c16_6230' => 'ppa', 'Pp3c17_18910' => 'ppa', 'Pp3c3_22119' => 'ppa', 'Pp3c3_22140' => 'ppa', 'Pp3c4_8159' => 'ppa', 'Pp3c4_8171' => 'ppa', 'Pp3c4_8330' => 'ppa', 'PRCOL_00004098' => 'pco', 'Prupe.1G013900' => 'ppe', 'Prupe.1G226300' => 'ppe', 'Prupe.1G573600' => 'ppe', 'Prupe.6G130100' => 'ppe', 'Psat3g090040' => 'psa', 'Psat4g210440' => 'psa', 'Psat6g231040' => 'psa', 'Psat6g231080' => 'psa', 'Psat7g063000' => 'psa', 'Psat7g188000' => 'psa', 'Psat7g188040' => 'psa', 'PSO017G0206' => 'pso', 'PSO170G0501' => 'pso', 'PSO170G6422' => 'pso', 'PSO210G7739' => 'pso', 'PSO339G1808' => 'pso', 'PSO339G6135' => 'pso', 'PSO384G0010' => 'pso', 'PSO384G0964' => 'pso', 'PSO761G0050' => 'pso', 'PSO782G4085' => 'pso', 'QL01p012264' => 'qlo', 'QL02p099491' => 'qlo', 'QL03p033868' => 'qlo', 'QL04p046678' => 'qlo', 'QL06p002448' => 'qlo', 'RcHm_v2.0_Chr4g0416181' => 'rch', 'RcHm_v2.0_Chr5g0044701' => 'rch', 'RcHm_v2.0_Chr6g0265781' => 'rch', 'RcHm_v2.0_Chr7g0221031' => 'rch', 'Rhsim04G0202000' => 'rsi', 'Rhsim11G0127300' => 'rsi', 'Rhsim13G0111800' => 'rsi', 'Sabra01G0165600' => 'sbr', 'Sabra03G0008300' => 'sbr', 'Sabra04G0136900' => 'sbr', 'Sabra08G0013400' => 'sbr', 'Sabra08G0116800' => 'sbr', 'Sabra09G0128000' => 'sbr', 'Sabra10G0055500' => 'sbr', 'Sabra10G0073300' => 'sbr', 'SalBow3G0385' => 'sbo', 'SalBow3G1119' => 'sbo', 'SalBow3G2005' => 'sbo', 'SalBow6G2563' => 'sbo', 'SalBow6G6386' => 'sbo', 'Sc06g0008800' => 'sci', 'Sc07g0004950' => 'sci', 'Sc09g0005340' => 'sci', 'Sc13g0004410' => 'sci', 'Sc21g0007090' => 'sci', 'Sed0009285' => 'sed', 'Sed0017583' => 'sed', 'Sed0019699' => 'sed', 'Sed0023107' => 'sed', 'SEGI_10916' => 'sgi', 'SEGI_16217' => 'sgi', 'SEGI_19466' => 'sgi', 'SEGI_41115' => 'sgi', 'SGA_v2.0_scaffold111G31534' => 'sas', 'SGA_v2.0_scaffold22G09864' => 'sas', 'SGA_v2.0_scaffold338G49219' => 'sas', 'SGA_v2.0_scaffold92G28298' => 'sas', 'SMO119G0064' => 'smo', 'SMO223G0038' => 'smo', 'SMO347G0584' => 'smo', 'SMO351G0010' => 'smo', 'SMO356G0404' => 'smo', 'Solyc01g103920.3' => 'sly', 'Solyc04g009710.2' => 'sly', 'Solyc05g055280.2' => 'sly', 'Solyc10g044520.3' => 'sly', 'Solyc10g075160.1' => 'sly', 'Solyc11g006910.3' => 'sly', 'Solyc11g068430.3' => 'sly', 'Sopen01g046310' => 'spe', 'Sopen03g001200' => 'spe', 'Sopen04g004830' => 'spe', 'Sopen05g033720' => 'spe', 'Sopen06g030740' => 'spe', 'Sopen10g013090' => 'spe', 'Sopen10g027630' => 'spe', 'Sopen10g027640' => 'spe', 'Sopen11g002820' => 'spe', 'Sopen11g027140' => 'spe', 'Sp1g09680' => 'spa', 'Sp2g03630' => 'spa', 'Sp4g10320' => 'spa', 'Sp6g33400' => 'spa', 'Sp7g13030' => 'spa', 'TAR365G0317' => 'tar', 'TAR376G0979' => 'tar', 'TAR623G1665' => 'tar', 'TAR633G2373' => 'tar', 'TAR636G1400' => 'tar', 'THA.LOC104800529' => 'tha', 'THA.LOC104808547' => 'tha', 'THA.LOC104809615' => 'tha', 'THA.LOC104815724' => 'tha', 'THA.LOC104818480' => 'tha', 'THA.LOC104819179' => 'tha', 'THA.LOC104822270' => 'tha', 'THA.LOC104826425' => 'tha', 'Thecc.02G089700' => 'tca', 'Thecc.04G232300' => 'tca', 'Thecc.09G283400' => 'tca', 'Thhalv10009020m.g' => 'esa', 'Thhalv10015506m.g' => 'esa', 'Thhalv10017364m.g' => 'esa', 'Thhalv10023742m.g' => 'esa', 'Thhalv10026483m.g' => 'esa', 'TPR.G17232' => 'tpr', 'TPR.G2133' => 'tpr', 'TPR.G2498' => 'tpr', 'TPR.G31942' => 'tpr', 'TPR.G37877' => 'tpr', 'TPR.G4571' => 'tpr', 'TWI14G1113' => 'twi', 'TWI15G0426' => 'twi', 'TWI31G1005' => 'twi', 'TWI38G0513' => 'twi', 'TWI38G1484' => 'twi', 'TWI73G1098' => 'twi', 'unitig_26.g10519' => 'ugi', 'unitig_736.g22395' => 'ugi', 'unitig_747.g21234' => 'ugi', 'unitig_747.g21942' => 'ugi', 'vmacro14351' => 'vma', 'VMungo0540G0082' => 'vmu', 'VMungo0540G0405' => 'vmu', 'VMungo0540G1486' => 'vmu', 'VMungo0540G1692' => 'vmu', 'VMungo0720G2473' => 'vmu', 'VMungo1127G1562' => 'vmu', 'VMungo1215G1918' => 'vmu', 'Zm00001eb052650' => 'zma', 'Zm00001eb063710' => 'zma', 'Zm00001eb083950' => 'zma', 'Zm00001eb174420' => 'zma', 'Zm00001eb260140' => 'zma', 'Zm00001eb260150' => 'zma', 'Zm00001eb260160' => 'zma', 'Zm00001eb348290' => 'zma', 'Zm00001eb366870' => 'zma', 'Zm00001eb421930' => 'zma' ) $gf_id = 'HOM05D001025' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001025' ) $data_identifier = 'HOM05D001025' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 19, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 2, 'amhyb' => (int) 4, 'aly' => (int) 4, 'aox' => (int) 4, 'arhy' => (int) 3, 'ath' => (int) 5, 'atr' => (int) 4, 'acertr' => (int) 3, 'cqu' => (int) 7, 'bca' => (int) 17, 'bol' => (int) 10, 'bra' => (int) 9, 'can' => (int) 10, 'cansat' => (int) 6, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 5, 'cbr' => (int) 5, 'ccan' => (int) 5, 'cde' => (int) 4, 'cfa' => (int) 3, 'ccl' => (int) 6, 'cil' => (int) 4, 'cla' => (int) 3, 'col' => (int) 3, 'cpa' => (int) 3, 'cre' => (int) 7, 'csa' => (int) 5, 'camsi' => (int) 9, 'dca' => (int) 4, 'din' => (int) 5, 'dzi' => (int) 7, 'eca' => (int) 6, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 12, 'fve' => (int) 4, 'gma' => (int) 12, 'ghi' => (int) 17, 'gra' => (int) 9, 'vvi' => (int) 2, 'han' => (int) 8, 'cav' => (int) 5, 'hma' => (int) 9, 'vpl' => (int) 4, 'sun' => (int) 2, 'lal' => (int) 9, 'lja' => (int) 5, 'lonja' => (int) 6, 'lsa' => (int) 3, 'mes' => (int) 8, 'mpo' => (int) 3, 'mbi' => (int) 4, 'mco' => (int) 3, 'mdo' => (int) 5, 'mtr' => (int) 7, 'cme' => (int) 6, 'egut' => (int) 7, 'ama' => (int) 3, 'nta' => (int) 12, 'nnu' => (int) 9, 'oeu' => (int) 4, 'osa' => (int) 7, 'pax' => (int) 9, 'pgr' => (int) 5, 'stu' => (int) 8, 'pvu' => (int) 6, 'ptr' => (int) 9, 'ppa' => (int) 9, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 7, 'pso' => (int) 10, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 3, 'sbr' => (int) 8, 'sbo' => (int) 5, 'sci' => (int) 5, 'sed' => (int) 4, 'sgi' => (int) 4, 'sas' => (int) 4, 'smo' => (int) 5, 'sly' => (int) 7, 'spe' => (int) 10, 'spa' => (int) 5, 'tar' => (int) 5, 'tha' => (int) 8, 'tca' => (int) 3, 'esa' => (int) 5, 'tpr' => (int) 6, 'twi' => (int) 6, 'ugi' => (int) 4, 'vma' => (int) 1, 'vmu' => (int) 7, 'zma' => (int) 10 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb421930' $species_info = array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ) $local_species = 'spa' $disabled = '' $selected = '' $num_hits = (int) 0
Warning (2): count(): Parameter must be an array or an object that implements Countable [APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001025', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '592', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p22650' => 'bna', 'A01p29720' => 'bna', 'A03p26560' => 'bna', 'A03p68820' => 'bna', 'A04p20980' => 'bna', 'A06p07730' => 'bna', 'A07p18260' => 'bna', 'A08p33710' => 'bna', 'A09p16970' => 'bna', 'A10p27490' => 'bna', 'Aa31LG1G17300' => 'aar', 'Aa31LG1G3910' => 'aar', 'Aa31LG2G9630' => 'aar', 'Aa31LG5G8360' => 'aar', 'Aa31LG9G2410' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4699' => 'aag', 'Actinidia23512' => 'ach', 'Actinidia37080' => 'ach', 'Ah.01g020380' => 'amhyb', 'Ah.08g215710' => 'amhyb', 'Ah.09g225110' => 'amhyb', 'Ah.10g036680' => 'amhyb', 'AL1G21940' => 'aly', 'AL2G15540' => 'aly', 'AL4G21520' => 'aly', 'AL7G40960' => 'aly', 'Aqoxy2G01191' => 'aox', 'Aqoxy2G03393' => 'aox', 'Aqoxy4G02775' => 'aox', 'Aqoxy6G00058' => 'aox', 'arahy.Tifrunner.gnm1.ann1.9X74H2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CW3FX9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R485W7' => 'arhy', 'AT1G10960' => 'ath', 'AT1G60950' => 'ath', 'AT2G27510' => 'ath', 'AT4G14890' => 'ath', 'AT5G10000' => 'ath', 'ATR0665G624' => 'atr', 'ATR0697G138' => 'atr', 'ATR0776G046' => 'atr', 'ATR1134G135' => 'atr', 'Atru.chr12.1025' => 'acertr', 'Atru.chr3.3241' => 'acertr', 'Atru.chr4.2460' => 'acertr', 'AUR62007427' => 'cqu', 'AUR62010960' => 'cqu', 'AUR62012201' => 'cqu', 'AUR62021470' => 'cqu', 'AUR62022834' => 'cqu', 'AUR62033635' => 'cqu', 'AUR62036186' => 'cqu', 'BcaB01g03077' => 'bca', 'BcaB02g10093' => 'bca', 'BcaB04g20295' => 'bca', 'BcaB06g28147' => 'bca', 'BcaB07g31253' => 'bca', 'BcaC01g04946' => 'bca', 'BcaC02g10614' => 'bca', 'BcaC02g10885' => 'bca', 'BcaC04g19356' => 'bca', 'BcaC04g22297' => 'bca', 'BcaC05g24977' => 'bca', 'BcaC06g31823' => 'bca', 'BcaC07g38633' => 'bca', 'BcaC09g49353' => 'bca', 'BcaC09g50168' => 'bca', 'BcaNung00322' => 'bca', 'BcaNung04769' => 'bca', 'BolC1t02753H' => 'bol', 'BolC1t03721H' => 'bol', 'BolC3t15525H' => 'bol', 'BolC4t23903H' => 'bol', 'BolC4t24231H' => 'bol', 'BolC4t27209H' => 'bol', 'BolC5t29671H' => 'bol', 'BolC8t49044H' => 'bol', 'BolC9t54999H' => 'bol', 'BolC9t59517H' => 'bol', 'BraA01t02178Z' => 'bra', 'BraA01t03099Z' => 'bra', 'BraA03t11867Z' => 'bra', 'BraA04t17667Z' => 'bra', 'BraA07t29542Z' => 'bra', 'BraA08t35287Z' => 'bra', 'BraA09t37334Z' => 'bra', 'BraA10t44801Z' => 'bra', 'BraSC39t46181Z' => 'bra', 'C01p28240' => 'bna', 'C01p37530' => 'bna', 'C03p31820' => 'bna', 'C04p24080' => 'bna', 'C04p25790' => 'bna', 'C04p56770' => 'bna', 'C05p09310' => 'bna', 'C09p21010' => 'bna', 'C09p67560' => 'bna', 'CAN.G1324.7' => 'can', 'CAN.G1358.10' => 'can', 'CAN.G1550.2' => 'can', 'CAN.G186.56' => 'can', 'CAN.G1965.1' => 'can', 'CAN.G645.15' => 'can', 'CAN.G798.26' => 'can', 'CAN.G798.27' => 'can', 'CAN.G798.29' => 'can', 'CAN.G919.31' => 'can', 'CANSAT11G0133' => 'cansat', 'CANSAT11G1171' => 'cansat', 'CANSAT11G2056' => 'cansat', 'CANSAT56G1202' => 'cansat', 'CANSAT56G1514' => 'cansat', 'CANSAT78G0455' => 'cansat', 'CARHR011190' => 'chi', 'CARHR051980' => 'chi', 'CARHR120170' => 'chi', 'CARHR203310' => 'chi', 'CARHR221490' => 'chi', 'Carub.0001s1054' => 'cru', 'Carub.0002s0431' => 'cru', 'Carub.0004s0818' => 'cru', 'Carub.0006s0846' => 'cru', 'Carub.0007s2722' => 'cru', 'Ca_00058_v3' => 'car', 'Ca_17831_v3' => 'car', 'Ca_19408_v3' => 'car', 'Ca_24397_v3' => 'car', 'Ca_25664_v3' => 'car', 'CBR_g21818' => 'cbr', 'CBR_g31195' => 'cbr', 'CBR_g32282' => 'cbr', 'CBR_g39599' => 'cbr', 'CBR_g49410' => 'cbr', 'Cc01_g09120' => 'ccan', 'Cc01_g09130' => 'ccan', 'Cc02_g09630' => 'ccan', 'Cc02_g22810' => 'ccan', 'Cc03_g03810' => 'ccan', 'CDE02G3718' => 'cde', 'CDE04G3183' => 'cde', 'CDE07G1046' => 'cde', 'CDE08G0480' => 'cde', 'Cfa005493' => 'cfa', 'Cfa010312' => 'cfa', 'Cfa015648' => 'cfa', 'Ciclev10002793m.g' => 'ccl', 'Ciclev10003356m.g' => 'ccl', 'Ciclev10006141m.g' => 'ccl', 'Ciclev10016676m.g' => 'ccl', 'Ciclev10017081m.g' => 'ccl', 'Ciclev10029499m.g' => 'ccl', 'CiPaw.01G166300' => 'cil', 'CiPaw.06G145600' => 'cil', 'CiPaw.13G040100' => 'cil', 'CiPaw.13G135800' => 'cil', 'ClCG01G012230' => 'cla', 'ClCG05G009510' => 'cla', 'ClCG08G008270' => 'cla', 'COL.COLO4_11763' => 'col', 'COL.COLO4_19876' => 'col', 'COL.COLO4_21481' => 'col', 'Cpa.g.sc118.34' => 'cpa', 'Cpa.g.sc32.13' => 'cpa', 'Cpa.g.sc58.103' => 'cpa', 'Cre03.g183850' => 'cre', 'Cre06.g306350' => 'cre', 'Cre07.g334800' => 'cre', 'Cre12.g487900' => 'cre', 'Cre14.g626700' => 'cre', 'Cre16.g658400' => 'cre', 'Cre17.g700950' => 'cre', 'CsaV3_1G014830' => 'csa', 'CsaV3_3G013320' => 'csa', 'CsaV3_3G019210' => 'csa', 'CsaV3_3G019220' => 'csa', 'CsaV3_6G004230' => 'csa', 'CSS0003773' => 'camsi', 'CSS0004563' => 'camsi', 'CSS0013949' => 'camsi', 'CSS0025971' => 'camsi', 'CSS0028570' => 'camsi', 'CSS0033127' => 'camsi', 'CSS0036051' => 'camsi', 'CSS0040087' => 'camsi', 'CSS0043179' => 'camsi', 'DCAR_006161' => 'dca', 'DCAR_010351' => 'dca', 'DCAR_012197' => 'dca', 'DCAR_024162' => 'dca', 'Dinv01030' => 'din', 'Dinv10924' => 'din', 'Dinv11835' => 'din', 'Dinv22841' => 'din', 'Dinv42553' => 'din', 'Duzib052G0560' => 'dzi', 'Duzib132G0389' => 'dzi', 'Duzib150G1181' => 'dzi', 'Duzib168G0623' => 'dzi', 'Duzib170G1036' => 'dzi', 'Duzib212G0200' => 'dzi', 'Duzib248G0194' => 'dzi', 'ECA232G2193' => 'eca', 'ECA233G0302' => 'eca', 'ECA234G2813' => 'eca', 'ECA234G4866' => 'eca', 'ECA240G3932' => 'eca', 'ECA248G0385' => 'eca', 'EL10Ac2g04781' => 'bvu', 'EL10Ac3g06445' => 'bvu', 'EL10Ac7g15825' => 'bvu', 'EL10Ac8g18550' => 'bvu', 'Eucgr.B03849' => 'egr', 'Eucgr.I02744' => 'egr', 'Eucgr.J00264' => 'egr', 'Eucgr.J00493' => 'egr', 'FAN04G2181' => 'fan', 'FAN07G2666' => 'fan', 'FAN11G0024' => 'fan', 'FAN12G1105' => 'fan', 'FAN13G0302' => 'fan', 'FAN15G2781' => 'fan', 'FAN16G1274' => 'fan', 'FAN17G2988' => 'fan', 'FAN18G2621' => 'fan', 'FAN21G0013' => 'fan', 'FAN22G1211' => 'fan', 'FAN25G3626' => 'fan', 'FvH4_2g09491' => 'fve', 'FvH4_3g24910' => 'fve', 'FvH4_4g15630' => 'fve', 'FvH4_5g28820' => 'fve', 'Glyma.01G238000' => 'gma', 'Glyma.05G168400' => 'gma', 'Glyma.08G126800' => 'gma', 'Glyma.08G188500' => 'gma', 'Glyma.10G278900' => 'gma', 'Glyma.11G005700' => 'gma', 'Glyma.11G183300' => 'gma', 'Glyma.12G089200' => 'gma', 'Glyma.12G169400' => 'gma', 'Glyma.12G169500' => 'gma', 'Glyma.12G169600' => 'gma', 'Glyma.20G110800' => 'gma', 'Gohir.A03G192900' => 'ghi', 'Gohir.A03G193000' => 'ghi', 'Gohir.A05G080700' => 'ghi', 'Gohir.A09G216000' => 'ghi', 'Gohir.A12G027700' => 'ghi', 'Gohir.A13G036200' => 'ghi', 'Gohir.A13G222600' => 'ghi', 'Gohir.D02G213900' => 'ghi', 'Gohir.D02G214000' => 'ghi', 'Gohir.D05G083700' => 'ghi', 'Gohir.D05G083800' => 'ghi', 'Gohir.D05G083850' => 'ghi', 'Gohir.D08G015400' => 'ghi', 'Gohir.D09G218400' => 'ghi', 'Gohir.D12G027100' => 'ghi', 'Gohir.D13G034500' => 'ghi', 'Gohir.D13G227400' => 'ghi', 'Gorai.005G241800' => 'gra', 'Gorai.005G241900' => 'gra', 'Gorai.006G239400' => 'gra', 'Gorai.008G027600' => 'gra', 'Gorai.009G085400' => 'gra', 'Gorai.009G085500' => 'gra', 'Gorai.013G039000' => 'gra', 'Gorai.013G194800' => 'gra', 'Gorai.013G257900' => 'gra', 'GSVIVG01000982001' => 'vvi', 'GSVIVG01017981001' => 'vvi', 'HanXRQChr01g0024061' => 'han', 'HanXRQChr09g0247831' => 'han', 'HanXRQChr10g0294611' => 'han', 'HanXRQChr10g0294621' => 'han', 'HanXRQChr11g0346821' => 'han', 'HanXRQChr13g0397461' => 'han', 'HanXRQChr16g0513651' => 'han', 'HanXRQChr16g0513701' => 'han', 'Haze_00897' => 'cav', 'Haze_01745' => 'cav', 'Haze_02486' => 'cav', 'Haze_02487' => 'cav', 'Haze_23374' => 'cav', 'Hma1.2p1_0578F.1_g182520' => 'hma', 'Hma1.2p1_0602F.1_g187350' => 'hma', 'Hma1.2p1_0602F.1_g187360' => 'hma', 'Hma1.2p1_0874F.1_g231320' => 'hma', 'Hma1.2p1_1197F.1_g266210' => 'hma', 'Hma1.2p1_1197F.1_g266220' => 'hma', 'Hma1.2p1_2167F.1_g315895' => 'hma', 'Hma1.2p1_2190F.1_g316640' => 'hma', 'Hma1.2p1_3645F.1_g337153' => 'hma', 'HPP92_004907' => 'vpl', 'HPP92_012134' => 'vpl', 'HPP92_025136' => 'vpl', 'HPP92_026087' => 'vpl', 'Hund06782' => 'sun', 'Hund06784' => 'sun', 'Lalb_Chr01g0004861' => 'lal', 'Lalb_Chr02g0140591' => 'lal', 'Lalb_Chr02g0140611' => 'lal', 'Lalb_Chr03g0028101' => 'lal', 'Lalb_Chr07g0185791' => 'lal', 'Lalb_Chr12g0204491' => 'lal', 'Lalb_Chr13g0295671' => 'lal', 'Lalb_Chr19g0136461' => 'lal', 'Lalb_Chr21g0309191' => 'lal', 'Lj1g0028158' => 'lja', 'Lj1P236T38' => 'lonja', 'Lj2C32G2' => 'lonja', 'Lj2P944T8' => 'lonja', 'Lj2P963T15' => 'lonja', 'Lj3g0011788' => 'lja', 'Lj4g0025027' => 'lja', 'Lj5P255T36' => 'lonja', 'Lj6g0018866' => 'lja', 'Lj6P608T31' => 'lonja', 'LjContig00408g0008879' => 'lja', 'Lsat_1_v5_gn_5_105820' => 'lsa', 'Lsat_1_v5_gn_6_38800' => 'lsa', 'Lsat_1_v5_gn_7_67141' => 'lsa', 'Manes.04G003400' => 'mes', 'Manes.07G020000' => 'mes', 'Manes.07G020100' => 'mes', 'Manes.07G020150' => 'mes', 'Manes.10G061500' => 'mes', 'Manes.10G123200' => 'mes', 'Manes.11G161900' => 'mes', 'Manes.15G029300' => 'mes', 'Mapoly0071s0018' => 'mpo', 'Mapoly0082s0023' => 'mpo', 'Mapoly3477s0001' => 'mpo', 'MBI05_g31233_MAGBIO' => 'mbi', 'MBI09_g05946_MAGBIO' => 'mbi', 'MBI09_g05947_MAGBIO' => 'mbi', 'MBI17_g08346_MAGBIO' => 'mbi', 'MCO04G038' => 'mco', 'MCO09G370' => 'mco', 'MCO13G605' => 'mco', 'MD00G1075500' => 'mdo', 'MD03G1144300' => 'mdo', 'MD08G1236800' => 'mdo', 'MD13G1193300' => 'mdo', 'MD15G1428700' => 'mdo', 'Medtr1g112030' => 'mtr', 'Medtr1g112050' => 'mtr', 'Medtr2g006290' => 'mtr', 'Medtr2g086510' => 'mtr', 'Medtr4g053120' => 'mtr', 'Medtr5g006320' => 'mtr', 'Medtr8g088720' => 'mtr', 'MELO3C004712.2' => 'cme', 'MELO3C006533.2' => 'cme', 'MELO3C019438.2' => 'cme', 'MELO3C019440.2' => 'cme', 'MELO3C019441.2' => 'cme', 'MELO3C019895.2' => 'cme', 'Migut.B00811' => 'egut', 'Migut.D02447' => 'egut', 'Migut.F00875' => 'egut', 'Migut.N00186' => 'egut', 'Migut.N01051' => 'egut', 'Migut.N02491' => 'egut', 'Migut.O00784' => 'egut', 'MSTRG.12367' => 'ama', 'MSTRG.18756' => 'ama', 'MSTRG.21042' => 'ama', 'Nitab4.5_0000559g0040' => 'nta', 'Nitab4.5_0000667g0190' => 'nta', 'Nitab4.5_0000755g0160' => 'nta', 'Nitab4.5_0001216g0080' => 'nta', 'Nitab4.5_0004069g0040' => 'nta', 'Nitab4.5_0004129g0010' => 'nta', 'Nitab4.5_0005744g0030' => 'nta', 'Nitab4.5_0006996g0030' => 'nta', 'Nitab4.5_0008971g0040' => 'nta', 'Nitab4.5_0009769g0020' => 'nta', 'Nitab4.5_0009833g0010' => 'nta', 'Nitab4.5_0013140g0020' => 'nta', 'Nn003s41376' => 'nnu', 'Nn1g01857' => 'nnu', 'Nn1g03611' => 'nnu', 'Nn1g06853' => 'nnu', 'Nn3g18360' => 'nnu', 'Nn4g26328' => 'nnu', 'Nn5g27531' => 'nnu', 'Nn6g34899' => 'nnu', 'Nn7g36299' => 'nnu', 'Oeu021485.1' => 'oeu', 'Oeu022433.1' => 'oeu', 'Oeu032111.1' => 'oeu', 'Oeu051608.1' => 'oeu', 'Os01g0860601' => 'osa', 'Os03g0659200' => 'osa', 'Os03g0835900' => 'osa', 'Os04g0412200' => 'osa', 'Os05g0443500' => 'osa', 'Os07g0251500' => 'osa', 'Os08g0104600' => 'osa', 'Peaxi162Scf00003g00047' => 'pax', 'Peaxi162Scf00003g00052' => 'pax', 'Peaxi162Scf00003g00394' => 'pax', 'Peaxi162Scf00091g00621' => 'pax', 'Peaxi162Scf00152g00146' => 'pax', 'Peaxi162Scf00173g00025' => 'pax', 'Peaxi162Scf00195g00102' => 'pax', 'Peaxi162Scf00402g00013' => 'pax', 'Peaxi162Scf00519g00618' => 'pax', 'PGR004G2838' => 'pgr', 'PGR044G2275' => 'pgr', 'PGR102G1377' => 'pgr', 'PGR119G1245' => 'pgr', 'PGR142G4449' => 'pgr', 'PGSC0003DMG400004532' => 'stu', 'PGSC0003DMG400011950' => 'stu', 'PGSC0003DMG400023391' => 'stu', 'PGSC0003DMG400023985' => 'stu', 'PGSC0003DMG400026360' => 'stu', 'PGSC0003DMG400035711' => 'stu', 'PGSC0003DMG400037286' => 'stu', 'PGSC0003DMG402005881' => 'stu', 'Phvul.002G045400' => 'pvu', 'Phvul.006G216600' => 'pvu', 'Phvul.006G216700' => 'pvu', 'Phvul.006G216800' => 'pvu', 'Phvul.007G022500' => 'pvu', 'Phvul.011G094400' => 'pvu', 'Potri.001G470700' => 'ptr', 'Potri.003G015200' => 'ptr', 'Potri.004G202500' => 'ptr', 'Potri.004G218400' => 'ptr', 'Potri.008G020100' => 'ptr', 'Potri.008G153200' => 'ptr', 'Potri.009G163800' => 'ptr', 'Potri.010G087300' => 'ptr', 'Potri.010G239100' => 'ptr', 'Pp3c10_16100' => 'ppa', 'Pp3c10_16880' => 'ppa', 'Pp3c16_6230' => 'ppa', 'Pp3c17_18910' => 'ppa', 'Pp3c3_22119' => 'ppa', 'Pp3c3_22140' => 'ppa', 'Pp3c4_8159' => 'ppa', 'Pp3c4_8171' => 'ppa', 'Pp3c4_8330' => 'ppa', 'PRCOL_00004098' => 'pco', 'Prupe.1G013900' => 'ppe', 'Prupe.1G226300' => 'ppe', 'Prupe.1G573600' => 'ppe', 'Prupe.6G130100' => 'ppe', 'Psat3g090040' => 'psa', 'Psat4g210440' => 'psa', 'Psat6g231040' => 'psa', 'Psat6g231080' => 'psa', 'Psat7g063000' => 'psa', 'Psat7g188000' => 'psa', 'Psat7g188040' => 'psa', 'PSO017G0206' => 'pso', 'PSO170G0501' => 'pso', 'PSO170G6422' => 'pso', 'PSO210G7739' => 'pso', 'PSO339G1808' => 'pso', 'PSO339G6135' => 'pso', 'PSO384G0010' => 'pso', 'PSO384G0964' => 'pso', 'PSO761G0050' => 'pso', 'PSO782G4085' => 'pso', 'QL01p012264' => 'qlo', 'QL02p099491' => 'qlo', 'QL03p033868' => 'qlo', 'QL04p046678' => 'qlo', 'QL06p002448' => 'qlo', 'RcHm_v2.0_Chr4g0416181' => 'rch', 'RcHm_v2.0_Chr5g0044701' => 'rch', 'RcHm_v2.0_Chr6g0265781' => 'rch', 'RcHm_v2.0_Chr7g0221031' => 'rch', 'Rhsim04G0202000' => 'rsi', 'Rhsim11G0127300' => 'rsi', 'Rhsim13G0111800' => 'rsi', 'Sabra01G0165600' => 'sbr', 'Sabra03G0008300' => 'sbr', 'Sabra04G0136900' => 'sbr', 'Sabra08G0013400' => 'sbr', 'Sabra08G0116800' => 'sbr', 'Sabra09G0128000' => 'sbr', 'Sabra10G0055500' => 'sbr', 'Sabra10G0073300' => 'sbr', 'SalBow3G0385' => 'sbo', 'SalBow3G1119' => 'sbo', 'SalBow3G2005' => 'sbo', 'SalBow6G2563' => 'sbo', 'SalBow6G6386' => 'sbo', 'Sc06g0008800' => 'sci', 'Sc07g0004950' => 'sci', 'Sc09g0005340' => 'sci', 'Sc13g0004410' => 'sci', 'Sc21g0007090' => 'sci', 'Sed0009285' => 'sed', 'Sed0017583' => 'sed', 'Sed0019699' => 'sed', 'Sed0023107' => 'sed', 'SEGI_10916' => 'sgi', 'SEGI_16217' => 'sgi', 'SEGI_19466' => 'sgi', 'SEGI_41115' => 'sgi', 'SGA_v2.0_scaffold111G31534' => 'sas', 'SGA_v2.0_scaffold22G09864' => 'sas', 'SGA_v2.0_scaffold338G49219' => 'sas', 'SGA_v2.0_scaffold92G28298' => 'sas', 'SMO119G0064' => 'smo', 'SMO223G0038' => 'smo', 'SMO347G0584' => 'smo', 'SMO351G0010' => 'smo', 'SMO356G0404' => 'smo', 'Solyc01g103920.3' => 'sly', 'Solyc04g009710.2' => 'sly', 'Solyc05g055280.2' => 'sly', 'Solyc10g044520.3' => 'sly', 'Solyc10g075160.1' => 'sly', 'Solyc11g006910.3' => 'sly', 'Solyc11g068430.3' => 'sly', 'Sopen01g046310' => 'spe', 'Sopen03g001200' => 'spe', 'Sopen04g004830' => 'spe', 'Sopen05g033720' => 'spe', 'Sopen06g030740' => 'spe', 'Sopen10g013090' => 'spe', 'Sopen10g027630' => 'spe', 'Sopen10g027640' => 'spe', 'Sopen11g002820' => 'spe', 'Sopen11g027140' => 'spe', 'Sp1g09680' => 'spa', 'Sp2g03630' => 'spa', 'Sp4g10320' => 'spa', 'Sp6g33400' => 'spa', 'Sp7g13030' => 'spa', 'TAR365G0317' => 'tar', 'TAR376G0979' => 'tar', 'TAR623G1665' => 'tar', 'TAR633G2373' => 'tar', 'TAR636G1400' => 'tar', 'THA.LOC104800529' => 'tha', 'THA.LOC104808547' => 'tha', 'THA.LOC104809615' => 'tha', 'THA.LOC104815724' => 'tha', 'THA.LOC104818480' => 'tha', 'THA.LOC104819179' => 'tha', 'THA.LOC104822270' => 'tha', 'THA.LOC104826425' => 'tha', 'Thecc.02G089700' => 'tca', 'Thecc.04G232300' => 'tca', 'Thecc.09G283400' => 'tca', 'Thhalv10009020m.g' => 'esa', 'Thhalv10015506m.g' => 'esa', 'Thhalv10017364m.g' => 'esa', 'Thhalv10023742m.g' => 'esa', 'Thhalv10026483m.g' => 'esa', 'TPR.G17232' => 'tpr', 'TPR.G2133' => 'tpr', 'TPR.G2498' => 'tpr', 'TPR.G31942' => 'tpr', 'TPR.G37877' => 'tpr', 'TPR.G4571' => 'tpr', 'TWI14G1113' => 'twi', 'TWI15G0426' => 'twi', 'TWI31G1005' => 'twi', 'TWI38G0513' => 'twi', 'TWI38G1484' => 'twi', 'TWI73G1098' => 'twi', 'unitig_26.g10519' => 'ugi', 'unitig_736.g22395' => 'ugi', 'unitig_747.g21234' => 'ugi', 'unitig_747.g21942' => 'ugi', 'vmacro14351' => 'vma', 'VMungo0540G0082' => 'vmu', 'VMungo0540G0405' => 'vmu', 'VMungo0540G1486' => 'vmu', 'VMungo0540G1692' => 'vmu', 'VMungo0720G2473' => 'vmu', 'VMungo1127G1562' => 'vmu', 'VMungo1215G1918' => 'vmu', 'Zm00001eb052650' => 'zma', 'Zm00001eb063710' => 'zma', 'Zm00001eb083950' => 'zma', 'Zm00001eb174420' => 'zma', 'Zm00001eb260140' => 'zma', 'Zm00001eb260150' => 'zma', 'Zm00001eb260160' => 'zma', 'Zm00001eb348290' => 'zma', 'Zm00001eb366870' => 'zma', 'Zm00001eb421930' => 'zma' ), 'gf_id' => 'HOM05D001025', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001025' ), 'data_identifier' => 'HOM05D001025', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001025', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '592', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p22650' => 'bna', 'A01p29720' => 'bna', 'A03p26560' => 'bna', 'A03p68820' => 'bna', 'A04p20980' => 'bna', 'A06p07730' => 'bna', 'A07p18260' => 'bna', 'A08p33710' => 'bna', 'A09p16970' => 'bna', 'A10p27490' => 'bna', 'Aa31LG1G17300' => 'aar', 'Aa31LG1G3910' => 'aar', 'Aa31LG2G9630' => 'aar', 'Aa31LG5G8360' => 'aar', 'Aa31LG9G2410' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4699' => 'aag', 'Actinidia23512' => 'ach', 'Actinidia37080' => 'ach', 'Ah.01g020380' => 'amhyb', 'Ah.08g215710' => 'amhyb', 'Ah.09g225110' => 'amhyb', 'Ah.10g036680' => 'amhyb', 'AL1G21940' => 'aly', 'AL2G15540' => 'aly', 'AL4G21520' => 'aly', 'AL7G40960' => 'aly', 'Aqoxy2G01191' => 'aox', 'Aqoxy2G03393' => 'aox', 'Aqoxy4G02775' => 'aox', 'Aqoxy6G00058' => 'aox', 'arahy.Tifrunner.gnm1.ann1.9X74H2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CW3FX9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R485W7' => 'arhy', 'AT1G10960' => 'ath', 'AT1G60950' => 'ath', 'AT2G27510' => 'ath', 'AT4G14890' => 'ath', 'AT5G10000' => 'ath', 'ATR0665G624' => 'atr', 'ATR0697G138' => 'atr', 'ATR0776G046' => 'atr', 'ATR1134G135' => 'atr', 'Atru.chr12.1025' => 'acertr', 'Atru.chr3.3241' => 'acertr', 'Atru.chr4.2460' => 'acertr', 'AUR62007427' => 'cqu', 'AUR62010960' => 'cqu', 'AUR62012201' => 'cqu', 'AUR62021470' => 'cqu', 'AUR62022834' => 'cqu', 'AUR62033635' => 'cqu', 'AUR62036186' => 'cqu', 'BcaB01g03077' => 'bca', 'BcaB02g10093' => 'bca', 'BcaB04g20295' => 'bca', 'BcaB06g28147' => 'bca', 'BcaB07g31253' => 'bca', 'BcaC01g04946' => 'bca', 'BcaC02g10614' => 'bca', 'BcaC02g10885' => 'bca', 'BcaC04g19356' => 'bca', 'BcaC04g22297' => 'bca', 'BcaC05g24977' => 'bca', 'BcaC06g31823' => 'bca', 'BcaC07g38633' => 'bca', 'BcaC09g49353' => 'bca', 'BcaC09g50168' => 'bca', 'BcaNung00322' => 'bca', 'BcaNung04769' => 'bca', 'BolC1t02753H' => 'bol', 'BolC1t03721H' => 'bol', 'BolC3t15525H' => 'bol', 'BolC4t23903H' => 'bol', 'BolC4t24231H' => 'bol', 'BolC4t27209H' => 'bol', 'BolC5t29671H' => 'bol', 'BolC8t49044H' => 'bol', 'BolC9t54999H' => 'bol', 'BolC9t59517H' => 'bol', 'BraA01t02178Z' => 'bra', 'BraA01t03099Z' => 'bra', 'BraA03t11867Z' => 'bra', 'BraA04t17667Z' => 'bra', 'BraA07t29542Z' => 'bra', 'BraA08t35287Z' => 'bra', 'BraA09t37334Z' => 'bra', 'BraA10t44801Z' => 'bra', 'BraSC39t46181Z' => 'bra', 'C01p28240' => 'bna', 'C01p37530' => 'bna', 'C03p31820' => 'bna', 'C04p24080' => 'bna', 'C04p25790' => 'bna', 'C04p56770' => 'bna', 'C05p09310' => 'bna', 'C09p21010' => 'bna', 'C09p67560' => 'bna', 'CAN.G1324.7' => 'can', 'CAN.G1358.10' => 'can', 'CAN.G1550.2' => 'can', 'CAN.G186.56' => 'can', 'CAN.G1965.1' => 'can', 'CAN.G645.15' => 'can', 'CAN.G798.26' => 'can', 'CAN.G798.27' => 'can', 'CAN.G798.29' => 'can', 'CAN.G919.31' => 'can', 'CANSAT11G0133' => 'cansat', 'CANSAT11G1171' => 'cansat', 'CANSAT11G2056' => 'cansat', 'CANSAT56G1202' => 'cansat', 'CANSAT56G1514' => 'cansat', 'CANSAT78G0455' => 'cansat', 'CARHR011190' => 'chi', 'CARHR051980' => 'chi', 'CARHR120170' => 'chi', 'CARHR203310' => 'chi', 'CARHR221490' => 'chi', 'Carub.0001s1054' => 'cru', 'Carub.0002s0431' => 'cru', 'Carub.0004s0818' => 'cru', 'Carub.0006s0846' => 'cru', 'Carub.0007s2722' => 'cru', 'Ca_00058_v3' => 'car', 'Ca_17831_v3' => 'car', 'Ca_19408_v3' => 'car', 'Ca_24397_v3' => 'car', 'Ca_25664_v3' => 'car', 'CBR_g21818' => 'cbr', 'CBR_g31195' => 'cbr', 'CBR_g32282' => 'cbr', 'CBR_g39599' => 'cbr', 'CBR_g49410' => 'cbr', 'Cc01_g09120' => 'ccan', 'Cc01_g09130' => 'ccan', 'Cc02_g09630' => 'ccan', 'Cc02_g22810' => 'ccan', 'Cc03_g03810' => 'ccan', 'CDE02G3718' => 'cde', 'CDE04G3183' => 'cde', 'CDE07G1046' => 'cde', 'CDE08G0480' => 'cde', 'Cfa005493' => 'cfa', 'Cfa010312' => 'cfa', 'Cfa015648' => 'cfa', 'Ciclev10002793m.g' => 'ccl', 'Ciclev10003356m.g' => 'ccl', 'Ciclev10006141m.g' => 'ccl', 'Ciclev10016676m.g' => 'ccl', 'Ciclev10017081m.g' => 'ccl', 'Ciclev10029499m.g' => 'ccl', 'CiPaw.01G166300' => 'cil', 'CiPaw.06G145600' => 'cil', 'CiPaw.13G040100' => 'cil', 'CiPaw.13G135800' => 'cil', 'ClCG01G012230' => 'cla', 'ClCG05G009510' => 'cla', 'ClCG08G008270' => 'cla', 'COL.COLO4_11763' => 'col', 'COL.COLO4_19876' => 'col', 'COL.COLO4_21481' => 'col', 'Cpa.g.sc118.34' => 'cpa', 'Cpa.g.sc32.13' => 'cpa', 'Cpa.g.sc58.103' => 'cpa', 'Cre03.g183850' => 'cre', 'Cre06.g306350' => 'cre', 'Cre07.g334800' => 'cre', 'Cre12.g487900' => 'cre', 'Cre14.g626700' => 'cre', 'Cre16.g658400' => 'cre', 'Cre17.g700950' => 'cre', 'CsaV3_1G014830' => 'csa', 'CsaV3_3G013320' => 'csa', 'CsaV3_3G019210' => 'csa', 'CsaV3_3G019220' => 'csa', 'CsaV3_6G004230' => 'csa', 'CSS0003773' => 'camsi', 'CSS0004563' => 'camsi', 'CSS0013949' => 'camsi', 'CSS0025971' => 'camsi', 'CSS0028570' => 'camsi', 'CSS0033127' => 'camsi', 'CSS0036051' => 'camsi', 'CSS0040087' => 'camsi', 'CSS0043179' => 'camsi', 'DCAR_006161' => 'dca', 'DCAR_010351' => 'dca', 'DCAR_012197' => 'dca', 'DCAR_024162' => 'dca', 'Dinv01030' => 'din', 'Dinv10924' => 'din', 'Dinv11835' => 'din', 'Dinv22841' => 'din', 'Dinv42553' => 'din', 'Duzib052G0560' => 'dzi', 'Duzib132G0389' => 'dzi', 'Duzib150G1181' => 'dzi', 'Duzib168G0623' => 'dzi', 'Duzib170G1036' => 'dzi', 'Duzib212G0200' => 'dzi', 'Duzib248G0194' => 'dzi', 'ECA232G2193' => 'eca', 'ECA233G0302' => 'eca', 'ECA234G2813' => 'eca', 'ECA234G4866' => 'eca', 'ECA240G3932' => 'eca', 'ECA248G0385' => 'eca', 'EL10Ac2g04781' => 'bvu', 'EL10Ac3g06445' => 'bvu', 'EL10Ac7g15825' => 'bvu', 'EL10Ac8g18550' => 'bvu', 'Eucgr.B03849' => 'egr', 'Eucgr.I02744' => 'egr', 'Eucgr.J00264' => 'egr', 'Eucgr.J00493' => 'egr', 'FAN04G2181' => 'fan', 'FAN07G2666' => 'fan', 'FAN11G0024' => 'fan', 'FAN12G1105' => 'fan', 'FAN13G0302' => 'fan', 'FAN15G2781' => 'fan', 'FAN16G1274' => 'fan', 'FAN17G2988' => 'fan', 'FAN18G2621' => 'fan', 'FAN21G0013' => 'fan', 'FAN22G1211' => 'fan', 'FAN25G3626' => 'fan', 'FvH4_2g09491' => 'fve', 'FvH4_3g24910' => 'fve', 'FvH4_4g15630' => 'fve', 'FvH4_5g28820' => 'fve', 'Glyma.01G238000' => 'gma', 'Glyma.05G168400' => 'gma', 'Glyma.08G126800' => 'gma', 'Glyma.08G188500' => 'gma', 'Glyma.10G278900' => 'gma', 'Glyma.11G005700' => 'gma', 'Glyma.11G183300' => 'gma', 'Glyma.12G089200' => 'gma', 'Glyma.12G169400' => 'gma', 'Glyma.12G169500' => 'gma', 'Glyma.12G169600' => 'gma', 'Glyma.20G110800' => 'gma', 'Gohir.A03G192900' => 'ghi', 'Gohir.A03G193000' => 'ghi', 'Gohir.A05G080700' => 'ghi', 'Gohir.A09G216000' => 'ghi', 'Gohir.A12G027700' => 'ghi', 'Gohir.A13G036200' => 'ghi', 'Gohir.A13G222600' => 'ghi', 'Gohir.D02G213900' => 'ghi', 'Gohir.D02G214000' => 'ghi', 'Gohir.D05G083700' => 'ghi', 'Gohir.D05G083800' => 'ghi', 'Gohir.D05G083850' => 'ghi', 'Gohir.D08G015400' => 'ghi', 'Gohir.D09G218400' => 'ghi', 'Gohir.D12G027100' => 'ghi', 'Gohir.D13G034500' => 'ghi', 'Gohir.D13G227400' => 'ghi', 'Gorai.005G241800' => 'gra', 'Gorai.005G241900' => 'gra', 'Gorai.006G239400' => 'gra', 'Gorai.008G027600' => 'gra', 'Gorai.009G085400' => 'gra', 'Gorai.009G085500' => 'gra', 'Gorai.013G039000' => 'gra', 'Gorai.013G194800' => 'gra', 'Gorai.013G257900' => 'gra', 'GSVIVG01000982001' => 'vvi', 'GSVIVG01017981001' => 'vvi', 'HanXRQChr01g0024061' => 'han', 'HanXRQChr09g0247831' => 'han', 'HanXRQChr10g0294611' => 'han', 'HanXRQChr10g0294621' => 'han', 'HanXRQChr11g0346821' => 'han', 'HanXRQChr13g0397461' => 'han', 'HanXRQChr16g0513651' => 'han', 'HanXRQChr16g0513701' => 'han', 'Haze_00897' => 'cav', 'Haze_01745' => 'cav', 'Haze_02486' => 'cav', 'Haze_02487' => 'cav', 'Haze_23374' => 'cav', 'Hma1.2p1_0578F.1_g182520' => 'hma', 'Hma1.2p1_0602F.1_g187350' => 'hma', 'Hma1.2p1_0602F.1_g187360' => 'hma', 'Hma1.2p1_0874F.1_g231320' => 'hma', 'Hma1.2p1_1197F.1_g266210' => 'hma', 'Hma1.2p1_1197F.1_g266220' => 'hma', 'Hma1.2p1_2167F.1_g315895' => 'hma', 'Hma1.2p1_2190F.1_g316640' => 'hma', 'Hma1.2p1_3645F.1_g337153' => 'hma', 'HPP92_004907' => 'vpl', 'HPP92_012134' => 'vpl', 'HPP92_025136' => 'vpl', 'HPP92_026087' => 'vpl', 'Hund06782' => 'sun', 'Hund06784' => 'sun', 'Lalb_Chr01g0004861' => 'lal', 'Lalb_Chr02g0140591' => 'lal', 'Lalb_Chr02g0140611' => 'lal', 'Lalb_Chr03g0028101' => 'lal', 'Lalb_Chr07g0185791' => 'lal', 'Lalb_Chr12g0204491' => 'lal', 'Lalb_Chr13g0295671' => 'lal', 'Lalb_Chr19g0136461' => 'lal', 'Lalb_Chr21g0309191' => 'lal', 'Lj1g0028158' => 'lja', 'Lj1P236T38' => 'lonja', 'Lj2C32G2' => 'lonja', 'Lj2P944T8' => 'lonja', 'Lj2P963T15' => 'lonja', 'Lj3g0011788' => 'lja', 'Lj4g0025027' => 'lja', 'Lj5P255T36' => 'lonja', 'Lj6g0018866' => 'lja', 'Lj6P608T31' => 'lonja', 'LjContig00408g0008879' => 'lja', 'Lsat_1_v5_gn_5_105820' => 'lsa', 'Lsat_1_v5_gn_6_38800' => 'lsa', 'Lsat_1_v5_gn_7_67141' => 'lsa', 'Manes.04G003400' => 'mes', 'Manes.07G020000' => 'mes', 'Manes.07G020100' => 'mes', 'Manes.07G020150' => 'mes', 'Manes.10G061500' => 'mes', 'Manes.10G123200' => 'mes', 'Manes.11G161900' => 'mes', 'Manes.15G029300' => 'mes', 'Mapoly0071s0018' => 'mpo', 'Mapoly0082s0023' => 'mpo', 'Mapoly3477s0001' => 'mpo', 'MBI05_g31233_MAGBIO' => 'mbi', 'MBI09_g05946_MAGBIO' => 'mbi', 'MBI09_g05947_MAGBIO' => 'mbi', 'MBI17_g08346_MAGBIO' => 'mbi', 'MCO04G038' => 'mco', 'MCO09G370' => 'mco', 'MCO13G605' => 'mco', 'MD00G1075500' => 'mdo', 'MD03G1144300' => 'mdo', 'MD08G1236800' => 'mdo', 'MD13G1193300' => 'mdo', 'MD15G1428700' => 'mdo', 'Medtr1g112030' => 'mtr', 'Medtr1g112050' => 'mtr', 'Medtr2g006290' => 'mtr', 'Medtr2g086510' => 'mtr', 'Medtr4g053120' => 'mtr', 'Medtr5g006320' => 'mtr', 'Medtr8g088720' => 'mtr', 'MELO3C004712.2' => 'cme', 'MELO3C006533.2' => 'cme', 'MELO3C019438.2' => 'cme', 'MELO3C019440.2' => 'cme', 'MELO3C019441.2' => 'cme', 'MELO3C019895.2' => 'cme', 'Migut.B00811' => 'egut', 'Migut.D02447' => 'egut', 'Migut.F00875' => 'egut', 'Migut.N00186' => 'egut', 'Migut.N01051' => 'egut', 'Migut.N02491' => 'egut', 'Migut.O00784' => 'egut', 'MSTRG.12367' => 'ama', 'MSTRG.18756' => 'ama', 'MSTRG.21042' => 'ama', 'Nitab4.5_0000559g0040' => 'nta', 'Nitab4.5_0000667g0190' => 'nta', 'Nitab4.5_0000755g0160' => 'nta', 'Nitab4.5_0001216g0080' => 'nta', 'Nitab4.5_0004069g0040' => 'nta', 'Nitab4.5_0004129g0010' => 'nta', 'Nitab4.5_0005744g0030' => 'nta', 'Nitab4.5_0006996g0030' => 'nta', 'Nitab4.5_0008971g0040' => 'nta', 'Nitab4.5_0009769g0020' => 'nta', 'Nitab4.5_0009833g0010' => 'nta', 'Nitab4.5_0013140g0020' => 'nta', 'Nn003s41376' => 'nnu', 'Nn1g01857' => 'nnu', 'Nn1g03611' => 'nnu', 'Nn1g06853' => 'nnu', 'Nn3g18360' => 'nnu', 'Nn4g26328' => 'nnu', 'Nn5g27531' => 'nnu', 'Nn6g34899' => 'nnu', 'Nn7g36299' => 'nnu', 'Oeu021485.1' => 'oeu', 'Oeu022433.1' => 'oeu', 'Oeu032111.1' => 'oeu', 'Oeu051608.1' => 'oeu', 'Os01g0860601' => 'osa', 'Os03g0659200' => 'osa', 'Os03g0835900' => 'osa', 'Os04g0412200' => 'osa', 'Os05g0443500' => 'osa', 'Os07g0251500' => 'osa', 'Os08g0104600' => 'osa', 'Peaxi162Scf00003g00047' => 'pax', 'Peaxi162Scf00003g00052' => 'pax', 'Peaxi162Scf00003g00394' => 'pax', 'Peaxi162Scf00091g00621' => 'pax', 'Peaxi162Scf00152g00146' => 'pax', 'Peaxi162Scf00173g00025' => 'pax', 'Peaxi162Scf00195g00102' => 'pax', 'Peaxi162Scf00402g00013' => 'pax', 'Peaxi162Scf00519g00618' => 'pax', 'PGR004G2838' => 'pgr', 'PGR044G2275' => 'pgr', 'PGR102G1377' => 'pgr', 'PGR119G1245' => 'pgr', 'PGR142G4449' => 'pgr', 'PGSC0003DMG400004532' => 'stu', 'PGSC0003DMG400011950' => 'stu', 'PGSC0003DMG400023391' => 'stu', 'PGSC0003DMG400023985' => 'stu', 'PGSC0003DMG400026360' => 'stu', 'PGSC0003DMG400035711' => 'stu', 'PGSC0003DMG400037286' => 'stu', 'PGSC0003DMG402005881' => 'stu', 'Phvul.002G045400' => 'pvu', 'Phvul.006G216600' => 'pvu', 'Phvul.006G216700' => 'pvu', 'Phvul.006G216800' => 'pvu', 'Phvul.007G022500' => 'pvu', 'Phvul.011G094400' => 'pvu', 'Potri.001G470700' => 'ptr', 'Potri.003G015200' => 'ptr', 'Potri.004G202500' => 'ptr', 'Potri.004G218400' => 'ptr', 'Potri.008G020100' => 'ptr', 'Potri.008G153200' => 'ptr', 'Potri.009G163800' => 'ptr', 'Potri.010G087300' => 'ptr', 'Potri.010G239100' => 'ptr', 'Pp3c10_16100' => 'ppa', 'Pp3c10_16880' => 'ppa', 'Pp3c16_6230' => 'ppa', 'Pp3c17_18910' => 'ppa', 'Pp3c3_22119' => 'ppa', 'Pp3c3_22140' => 'ppa', 'Pp3c4_8159' => 'ppa', 'Pp3c4_8171' => 'ppa', 'Pp3c4_8330' => 'ppa', 'PRCOL_00004098' => 'pco', 'Prupe.1G013900' => 'ppe', 'Prupe.1G226300' => 'ppe', 'Prupe.1G573600' => 'ppe', 'Prupe.6G130100' => 'ppe', 'Psat3g090040' => 'psa', 'Psat4g210440' => 'psa', 'Psat6g231040' => 'psa', 'Psat6g231080' => 'psa', 'Psat7g063000' => 'psa', 'Psat7g188000' => 'psa', 'Psat7g188040' => 'psa', 'PSO017G0206' => 'pso', 'PSO170G0501' => 'pso', 'PSO170G6422' => 'pso', 'PSO210G7739' => 'pso', 'PSO339G1808' => 'pso', 'PSO339G6135' => 'pso', 'PSO384G0010' => 'pso', 'PSO384G0964' => 'pso', 'PSO761G0050' => 'pso', 'PSO782G4085' => 'pso', 'QL01p012264' => 'qlo', 'QL02p099491' => 'qlo', 'QL03p033868' => 'qlo', 'QL04p046678' => 'qlo', 'QL06p002448' => 'qlo', 'RcHm_v2.0_Chr4g0416181' => 'rch', 'RcHm_v2.0_Chr5g0044701' => 'rch', 'RcHm_v2.0_Chr6g0265781' => 'rch', 'RcHm_v2.0_Chr7g0221031' => 'rch', 'Rhsim04G0202000' => 'rsi', 'Rhsim11G0127300' => 'rsi', 'Rhsim13G0111800' => 'rsi', 'Sabra01G0165600' => 'sbr', 'Sabra03G0008300' => 'sbr', 'Sabra04G0136900' => 'sbr', 'Sabra08G0013400' => 'sbr', 'Sabra08G0116800' => 'sbr', 'Sabra09G0128000' => 'sbr', 'Sabra10G0055500' => 'sbr', 'Sabra10G0073300' => 'sbr', 'SalBow3G0385' => 'sbo', 'SalBow3G1119' => 'sbo', 'SalBow3G2005' => 'sbo', 'SalBow6G2563' => 'sbo', 'SalBow6G6386' => 'sbo', 'Sc06g0008800' => 'sci', 'Sc07g0004950' => 'sci', 'Sc09g0005340' => 'sci', 'Sc13g0004410' => 'sci', 'Sc21g0007090' => 'sci', 'Sed0009285' => 'sed', 'Sed0017583' => 'sed', 'Sed0019699' => 'sed', 'Sed0023107' => 'sed', 'SEGI_10916' => 'sgi', 'SEGI_16217' => 'sgi', 'SEGI_19466' => 'sgi', 'SEGI_41115' => 'sgi', 'SGA_v2.0_scaffold111G31534' => 'sas', 'SGA_v2.0_scaffold22G09864' => 'sas', 'SGA_v2.0_scaffold338G49219' => 'sas', 'SGA_v2.0_scaffold92G28298' => 'sas', 'SMO119G0064' => 'smo', 'SMO223G0038' => 'smo', 'SMO347G0584' => 'smo', 'SMO351G0010' => 'smo', 'SMO356G0404' => 'smo', 'Solyc01g103920.3' => 'sly', 'Solyc04g009710.2' => 'sly', 'Solyc05g055280.2' => 'sly', 'Solyc10g044520.3' => 'sly', 'Solyc10g075160.1' => 'sly', 'Solyc11g006910.3' => 'sly', 'Solyc11g068430.3' => 'sly', 'Sopen01g046310' => 'spe', 'Sopen03g001200' => 'spe', 'Sopen04g004830' => 'spe', 'Sopen05g033720' => 'spe', 'Sopen06g030740' => 'spe', 'Sopen10g013090' => 'spe', 'Sopen10g027630' => 'spe', 'Sopen10g027640' => 'spe', 'Sopen11g002820' => 'spe', 'Sopen11g027140' => 'spe', 'Sp1g09680' => 'spa', 'Sp2g03630' => 'spa', 'Sp4g10320' => 'spa', 'Sp6g33400' => 'spa', 'Sp7g13030' => 'spa', 'TAR365G0317' => 'tar', 'TAR376G0979' => 'tar', 'TAR623G1665' => 'tar', 'TAR633G2373' => 'tar', 'TAR636G1400' => 'tar', 'THA.LOC104800529' => 'tha', 'THA.LOC104808547' => 'tha', 'THA.LOC104809615' => 'tha', 'THA.LOC104815724' => 'tha', 'THA.LOC104818480' => 'tha', 'THA.LOC104819179' => 'tha', 'THA.LOC104822270' => 'tha', 'THA.LOC104826425' => 'tha', 'Thecc.02G089700' => 'tca', 'Thecc.04G232300' => 'tca', 'Thecc.09G283400' => 'tca', 'Thhalv10009020m.g' => 'esa', 'Thhalv10015506m.g' => 'esa', 'Thhalv10017364m.g' => 'esa', 'Thhalv10023742m.g' => 'esa', 'Thhalv10026483m.g' => 'esa', 'TPR.G17232' => 'tpr', 'TPR.G2133' => 'tpr', 'TPR.G2498' => 'tpr', 'TPR.G31942' => 'tpr', 'TPR.G37877' => 'tpr', 'TPR.G4571' => 'tpr', 'TWI14G1113' => 'twi', 'TWI15G0426' => 'twi', 'TWI31G1005' => 'twi', 'TWI38G0513' => 'twi', 'TWI38G1484' => 'twi', 'TWI73G1098' => 'twi', 'unitig_26.g10519' => 'ugi', 'unitig_736.g22395' => 'ugi', 'unitig_747.g21234' => 'ugi', 'unitig_747.g21942' => 'ugi', 'vmacro14351' => 'vma', 'VMungo0540G0082' => 'vmu', 'VMungo0540G0405' => 'vmu', 'VMungo0540G1486' => 'vmu', 'VMungo0540G1692' => 'vmu', 'VMungo0720G2473' => 'vmu', 'VMungo1127G1562' => 'vmu', 'VMungo1215G1918' => 'vmu', 'Zm00001eb052650' => 'zma', 'Zm00001eb063710' => 'zma', 'Zm00001eb083950' => 'zma', 'Zm00001eb174420' => 'zma', 'Zm00001eb260140' => 'zma', 'Zm00001eb260150' => 'zma', 'Zm00001eb260160' => 'zma', 'Zm00001eb348290' => 'zma', 'Zm00001eb366870' => 'zma', 'Zm00001eb421930' => 'zma' ) $gf_id = 'HOM05D001025' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001025' ) $data_identifier = 'HOM05D001025' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 19, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 2, 'amhyb' => (int) 4, 'aly' => (int) 4, 'aox' => (int) 4, 'arhy' => (int) 3, 'ath' => (int) 5, 'atr' => (int) 4, 'acertr' => (int) 3, 'cqu' => (int) 7, 'bca' => (int) 17, 'bol' => (int) 10, 'bra' => (int) 9, 'can' => (int) 10, 'cansat' => (int) 6, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 5, 'cbr' => (int) 5, 'ccan' => (int) 5, 'cde' => (int) 4, 'cfa' => (int) 3, 'ccl' => (int) 6, 'cil' => (int) 4, 'cla' => (int) 3, 'col' => (int) 3, 'cpa' => (int) 3, 'cre' => (int) 7, 'csa' => (int) 5, 'camsi' => (int) 9, 'dca' => (int) 4, 'din' => (int) 5, 'dzi' => (int) 7, 'eca' => (int) 6, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 12, 'fve' => (int) 4, 'gma' => (int) 12, 'ghi' => (int) 17, 'gra' => (int) 9, 'vvi' => (int) 2, 'han' => (int) 8, 'cav' => (int) 5, 'hma' => (int) 9, 'vpl' => (int) 4, 'sun' => (int) 2, 'lal' => (int) 9, 'lja' => (int) 5, 'lonja' => (int) 6, 'lsa' => (int) 3, 'mes' => (int) 8, 'mpo' => (int) 3, 'mbi' => (int) 4, 'mco' => (int) 3, 'mdo' => (int) 5, 'mtr' => (int) 7, 'cme' => (int) 6, 'egut' => (int) 7, 'ama' => (int) 3, 'nta' => (int) 12, 'nnu' => (int) 9, 'oeu' => (int) 4, 'osa' => (int) 7, 'pax' => (int) 9, 'pgr' => (int) 5, 'stu' => (int) 8, 'pvu' => (int) 6, 'ptr' => (int) 9, 'ppa' => (int) 9, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 7, 'pso' => (int) 10, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 3, 'sbr' => (int) 8, 'sbo' => (int) 5, 'sci' => (int) 5, 'sed' => (int) 4, 'sgi' => (int) 4, 'sas' => (int) 4, 'smo' => (int) 5, 'sly' => (int) 7, 'spe' => (int) 10, 'spa' => (int) 5, 'tar' => (int) 5, 'tha' => (int) 8, 'tca' => (int) 3, 'esa' => (int) 5, 'tpr' => (int) 6, 'twi' => (int) 6, 'ugi' => (int) 4, 'vma' => (int) 1, 'vmu' => (int) 7, 'zma' => (int) 10 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb421930' $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' => 'HOM05D001025', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '592', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p22650' => 'bna', 'A01p29720' => 'bna', 'A03p26560' => 'bna', 'A03p68820' => 'bna', 'A04p20980' => 'bna', 'A06p07730' => 'bna', 'A07p18260' => 'bna', 'A08p33710' => 'bna', 'A09p16970' => 'bna', 'A10p27490' => 'bna', 'Aa31LG1G17300' => 'aar', 'Aa31LG1G3910' => 'aar', 'Aa31LG2G9630' => 'aar', 'Aa31LG5G8360' => 'aar', 'Aa31LG9G2410' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4699' => 'aag', 'Actinidia23512' => 'ach', 'Actinidia37080' => 'ach', 'Ah.01g020380' => 'amhyb', 'Ah.08g215710' => 'amhyb', 'Ah.09g225110' => 'amhyb', 'Ah.10g036680' => 'amhyb', 'AL1G21940' => 'aly', 'AL2G15540' => 'aly', 'AL4G21520' => 'aly', 'AL7G40960' => 'aly', 'Aqoxy2G01191' => 'aox', 'Aqoxy2G03393' => 'aox', 'Aqoxy4G02775' => 'aox', 'Aqoxy6G00058' => 'aox', 'arahy.Tifrunner.gnm1.ann1.9X74H2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CW3FX9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R485W7' => 'arhy', 'AT1G10960' => 'ath', 'AT1G60950' => 'ath', 'AT2G27510' => 'ath', 'AT4G14890' => 'ath', 'AT5G10000' => 'ath', 'ATR0665G624' => 'atr', 'ATR0697G138' => 'atr', 'ATR0776G046' => 'atr', 'ATR1134G135' => 'atr', 'Atru.chr12.1025' => 'acertr', 'Atru.chr3.3241' => 'acertr', 'Atru.chr4.2460' => 'acertr', 'AUR62007427' => 'cqu', 'AUR62010960' => 'cqu', 'AUR62012201' => 'cqu', 'AUR62021470' => 'cqu', 'AUR62022834' => 'cqu', 'AUR62033635' => 'cqu', 'AUR62036186' => 'cqu', 'BcaB01g03077' => 'bca', 'BcaB02g10093' => 'bca', 'BcaB04g20295' => 'bca', 'BcaB06g28147' => 'bca', 'BcaB07g31253' => 'bca', 'BcaC01g04946' => 'bca', 'BcaC02g10614' => 'bca', 'BcaC02g10885' => 'bca', 'BcaC04g19356' => 'bca', 'BcaC04g22297' => 'bca', 'BcaC05g24977' => 'bca', 'BcaC06g31823' => 'bca', 'BcaC07g38633' => 'bca', 'BcaC09g49353' => 'bca', 'BcaC09g50168' => 'bca', 'BcaNung00322' => 'bca', 'BcaNung04769' => 'bca', 'BolC1t02753H' => 'bol', 'BolC1t03721H' => 'bol', 'BolC3t15525H' => 'bol', 'BolC4t23903H' => 'bol', 'BolC4t24231H' => 'bol', 'BolC4t27209H' => 'bol', 'BolC5t29671H' => 'bol', 'BolC8t49044H' => 'bol', 'BolC9t54999H' => 'bol', 'BolC9t59517H' => 'bol', 'BraA01t02178Z' => 'bra', 'BraA01t03099Z' => 'bra', 'BraA03t11867Z' => 'bra', 'BraA04t17667Z' => 'bra', 'BraA07t29542Z' => 'bra', 'BraA08t35287Z' => 'bra', 'BraA09t37334Z' => 'bra', 'BraA10t44801Z' => 'bra', 'BraSC39t46181Z' => 'bra', 'C01p28240' => 'bna', 'C01p37530' => 'bna', 'C03p31820' => 'bna', 'C04p24080' => 'bna', 'C04p25790' => 'bna', 'C04p56770' => 'bna', 'C05p09310' => 'bna', 'C09p21010' => 'bna', 'C09p67560' => 'bna', 'CAN.G1324.7' => 'can', 'CAN.G1358.10' => 'can', 'CAN.G1550.2' => 'can', 'CAN.G186.56' => 'can', 'CAN.G1965.1' => 'can', 'CAN.G645.15' => 'can', 'CAN.G798.26' => 'can', 'CAN.G798.27' => 'can', 'CAN.G798.29' => 'can', 'CAN.G919.31' => 'can', 'CANSAT11G0133' => 'cansat', 'CANSAT11G1171' => 'cansat', 'CANSAT11G2056' => 'cansat', 'CANSAT56G1202' => 'cansat', 'CANSAT56G1514' => 'cansat', 'CANSAT78G0455' => 'cansat', 'CARHR011190' => 'chi', 'CARHR051980' => 'chi', 'CARHR120170' => 'chi', 'CARHR203310' => 'chi', 'CARHR221490' => 'chi', 'Carub.0001s1054' => 'cru', 'Carub.0002s0431' => 'cru', 'Carub.0004s0818' => 'cru', 'Carub.0006s0846' => 'cru', 'Carub.0007s2722' => 'cru', 'Ca_00058_v3' => 'car', 'Ca_17831_v3' => 'car', 'Ca_19408_v3' => 'car', 'Ca_24397_v3' => 'car', 'Ca_25664_v3' => 'car', 'CBR_g21818' => 'cbr', 'CBR_g31195' => 'cbr', 'CBR_g32282' => 'cbr', 'CBR_g39599' => 'cbr', 'CBR_g49410' => 'cbr', 'Cc01_g09120' => 'ccan', 'Cc01_g09130' => 'ccan', 'Cc02_g09630' => 'ccan', 'Cc02_g22810' => 'ccan', 'Cc03_g03810' => 'ccan', 'CDE02G3718' => 'cde', 'CDE04G3183' => 'cde', 'CDE07G1046' => 'cde', 'CDE08G0480' => 'cde', 'Cfa005493' => 'cfa', 'Cfa010312' => 'cfa', 'Cfa015648' => 'cfa', 'Ciclev10002793m.g' => 'ccl', 'Ciclev10003356m.g' => 'ccl', 'Ciclev10006141m.g' => 'ccl', 'Ciclev10016676m.g' => 'ccl', 'Ciclev10017081m.g' => 'ccl', 'Ciclev10029499m.g' => 'ccl', 'CiPaw.01G166300' => 'cil', 'CiPaw.06G145600' => 'cil', 'CiPaw.13G040100' => 'cil', 'CiPaw.13G135800' => 'cil', 'ClCG01G012230' => 'cla', 'ClCG05G009510' => 'cla', 'ClCG08G008270' => 'cla', 'COL.COLO4_11763' => 'col', 'COL.COLO4_19876' => 'col', 'COL.COLO4_21481' => 'col', 'Cpa.g.sc118.34' => 'cpa', 'Cpa.g.sc32.13' => 'cpa', 'Cpa.g.sc58.103' => 'cpa', 'Cre03.g183850' => 'cre', 'Cre06.g306350' => 'cre', 'Cre07.g334800' => 'cre', 'Cre12.g487900' => 'cre', 'Cre14.g626700' => 'cre', 'Cre16.g658400' => 'cre', 'Cre17.g700950' => 'cre', 'CsaV3_1G014830' => 'csa', 'CsaV3_3G013320' => 'csa', 'CsaV3_3G019210' => 'csa', 'CsaV3_3G019220' => 'csa', 'CsaV3_6G004230' => 'csa', 'CSS0003773' => 'camsi', 'CSS0004563' => 'camsi', 'CSS0013949' => 'camsi', 'CSS0025971' => 'camsi', 'CSS0028570' => 'camsi', 'CSS0033127' => 'camsi', 'CSS0036051' => 'camsi', 'CSS0040087' => 'camsi', 'CSS0043179' => 'camsi', 'DCAR_006161' => 'dca', 'DCAR_010351' => 'dca', 'DCAR_012197' => 'dca', 'DCAR_024162' => 'dca', 'Dinv01030' => 'din', 'Dinv10924' => 'din', 'Dinv11835' => 'din', 'Dinv22841' => 'din', 'Dinv42553' => 'din', 'Duzib052G0560' => 'dzi', 'Duzib132G0389' => 'dzi', 'Duzib150G1181' => 'dzi', 'Duzib168G0623' => 'dzi', 'Duzib170G1036' => 'dzi', 'Duzib212G0200' => 'dzi', 'Duzib248G0194' => 'dzi', 'ECA232G2193' => 'eca', 'ECA233G0302' => 'eca', 'ECA234G2813' => 'eca', 'ECA234G4866' => 'eca', 'ECA240G3932' => 'eca', 'ECA248G0385' => 'eca', 'EL10Ac2g04781' => 'bvu', 'EL10Ac3g06445' => 'bvu', 'EL10Ac7g15825' => 'bvu', 'EL10Ac8g18550' => 'bvu', 'Eucgr.B03849' => 'egr', 'Eucgr.I02744' => 'egr', 'Eucgr.J00264' => 'egr', 'Eucgr.J00493' => 'egr', 'FAN04G2181' => 'fan', 'FAN07G2666' => 'fan', 'FAN11G0024' => 'fan', 'FAN12G1105' => 'fan', 'FAN13G0302' => 'fan', 'FAN15G2781' => 'fan', 'FAN16G1274' => 'fan', 'FAN17G2988' => 'fan', 'FAN18G2621' => 'fan', 'FAN21G0013' => 'fan', 'FAN22G1211' => 'fan', 'FAN25G3626' => 'fan', 'FvH4_2g09491' => 'fve', 'FvH4_3g24910' => 'fve', 'FvH4_4g15630' => 'fve', 'FvH4_5g28820' => 'fve', 'Glyma.01G238000' => 'gma', 'Glyma.05G168400' => 'gma', 'Glyma.08G126800' => 'gma', 'Glyma.08G188500' => 'gma', 'Glyma.10G278900' => 'gma', 'Glyma.11G005700' => 'gma', 'Glyma.11G183300' => 'gma', 'Glyma.12G089200' => 'gma', 'Glyma.12G169400' => 'gma', 'Glyma.12G169500' => 'gma', 'Glyma.12G169600' => 'gma', 'Glyma.20G110800' => 'gma', 'Gohir.A03G192900' => 'ghi', 'Gohir.A03G193000' => 'ghi', 'Gohir.A05G080700' => 'ghi', 'Gohir.A09G216000' => 'ghi', 'Gohir.A12G027700' => 'ghi', 'Gohir.A13G036200' => 'ghi', 'Gohir.A13G222600' => 'ghi', 'Gohir.D02G213900' => 'ghi', 'Gohir.D02G214000' => 'ghi', 'Gohir.D05G083700' => 'ghi', 'Gohir.D05G083800' => 'ghi', 'Gohir.D05G083850' => 'ghi', 'Gohir.D08G015400' => 'ghi', 'Gohir.D09G218400' => 'ghi', 'Gohir.D12G027100' => 'ghi', 'Gohir.D13G034500' => 'ghi', 'Gohir.D13G227400' => 'ghi', 'Gorai.005G241800' => 'gra', 'Gorai.005G241900' => 'gra', 'Gorai.006G239400' => 'gra', 'Gorai.008G027600' => 'gra', 'Gorai.009G085400' => 'gra', 'Gorai.009G085500' => 'gra', 'Gorai.013G039000' => 'gra', 'Gorai.013G194800' => 'gra', 'Gorai.013G257900' => 'gra', 'GSVIVG01000982001' => 'vvi', 'GSVIVG01017981001' => 'vvi', 'HanXRQChr01g0024061' => 'han', 'HanXRQChr09g0247831' => 'han', 'HanXRQChr10g0294611' => 'han', 'HanXRQChr10g0294621' => 'han', 'HanXRQChr11g0346821' => 'han', 'HanXRQChr13g0397461' => 'han', 'HanXRQChr16g0513651' => 'han', 'HanXRQChr16g0513701' => 'han', 'Haze_00897' => 'cav', 'Haze_01745' => 'cav', 'Haze_02486' => 'cav', 'Haze_02487' => 'cav', 'Haze_23374' => 'cav', 'Hma1.2p1_0578F.1_g182520' => 'hma', 'Hma1.2p1_0602F.1_g187350' => 'hma', 'Hma1.2p1_0602F.1_g187360' => 'hma', 'Hma1.2p1_0874F.1_g231320' => 'hma', 'Hma1.2p1_1197F.1_g266210' => 'hma', 'Hma1.2p1_1197F.1_g266220' => 'hma', 'Hma1.2p1_2167F.1_g315895' => 'hma', 'Hma1.2p1_2190F.1_g316640' => 'hma', 'Hma1.2p1_3645F.1_g337153' => 'hma', 'HPP92_004907' => 'vpl', 'HPP92_012134' => 'vpl', 'HPP92_025136' => 'vpl', 'HPP92_026087' => 'vpl', 'Hund06782' => 'sun', 'Hund06784' => 'sun', 'Lalb_Chr01g0004861' => 'lal', 'Lalb_Chr02g0140591' => 'lal', 'Lalb_Chr02g0140611' => 'lal', 'Lalb_Chr03g0028101' => 'lal', 'Lalb_Chr07g0185791' => 'lal', 'Lalb_Chr12g0204491' => 'lal', 'Lalb_Chr13g0295671' => 'lal', 'Lalb_Chr19g0136461' => 'lal', 'Lalb_Chr21g0309191' => 'lal', 'Lj1g0028158' => 'lja', 'Lj1P236T38' => 'lonja', 'Lj2C32G2' => 'lonja', 'Lj2P944T8' => 'lonja', 'Lj2P963T15' => 'lonja', 'Lj3g0011788' => 'lja', 'Lj4g0025027' => 'lja', 'Lj5P255T36' => 'lonja', 'Lj6g0018866' => 'lja', 'Lj6P608T31' => 'lonja', 'LjContig00408g0008879' => 'lja', 'Lsat_1_v5_gn_5_105820' => 'lsa', 'Lsat_1_v5_gn_6_38800' => 'lsa', 'Lsat_1_v5_gn_7_67141' => 'lsa', 'Manes.04G003400' => 'mes', 'Manes.07G020000' => 'mes', 'Manes.07G020100' => 'mes', 'Manes.07G020150' => 'mes', 'Manes.10G061500' => 'mes', 'Manes.10G123200' => 'mes', 'Manes.11G161900' => 'mes', 'Manes.15G029300' => 'mes', 'Mapoly0071s0018' => 'mpo', 'Mapoly0082s0023' => 'mpo', 'Mapoly3477s0001' => 'mpo', 'MBI05_g31233_MAGBIO' => 'mbi', 'MBI09_g05946_MAGBIO' => 'mbi', 'MBI09_g05947_MAGBIO' => 'mbi', 'MBI17_g08346_MAGBIO' => 'mbi', 'MCO04G038' => 'mco', 'MCO09G370' => 'mco', 'MCO13G605' => 'mco', 'MD00G1075500' => 'mdo', 'MD03G1144300' => 'mdo', 'MD08G1236800' => 'mdo', 'MD13G1193300' => 'mdo', 'MD15G1428700' => 'mdo', 'Medtr1g112030' => 'mtr', 'Medtr1g112050' => 'mtr', 'Medtr2g006290' => 'mtr', 'Medtr2g086510' => 'mtr', 'Medtr4g053120' => 'mtr', 'Medtr5g006320' => 'mtr', 'Medtr8g088720' => 'mtr', 'MELO3C004712.2' => 'cme', 'MELO3C006533.2' => 'cme', 'MELO3C019438.2' => 'cme', 'MELO3C019440.2' => 'cme', 'MELO3C019441.2' => 'cme', 'MELO3C019895.2' => 'cme', 'Migut.B00811' => 'egut', 'Migut.D02447' => 'egut', 'Migut.F00875' => 'egut', 'Migut.N00186' => 'egut', 'Migut.N01051' => 'egut', 'Migut.N02491' => 'egut', 'Migut.O00784' => 'egut', 'MSTRG.12367' => 'ama', 'MSTRG.18756' => 'ama', 'MSTRG.21042' => 'ama', 'Nitab4.5_0000559g0040' => 'nta', 'Nitab4.5_0000667g0190' => 'nta', 'Nitab4.5_0000755g0160' => 'nta', 'Nitab4.5_0001216g0080' => 'nta', 'Nitab4.5_0004069g0040' => 'nta', 'Nitab4.5_0004129g0010' => 'nta', 'Nitab4.5_0005744g0030' => 'nta', 'Nitab4.5_0006996g0030' => 'nta', 'Nitab4.5_0008971g0040' => 'nta', 'Nitab4.5_0009769g0020' => 'nta', 'Nitab4.5_0009833g0010' => 'nta', 'Nitab4.5_0013140g0020' => 'nta', 'Nn003s41376' => 'nnu', 'Nn1g01857' => 'nnu', 'Nn1g03611' => 'nnu', 'Nn1g06853' => 'nnu', 'Nn3g18360' => 'nnu', 'Nn4g26328' => 'nnu', 'Nn5g27531' => 'nnu', 'Nn6g34899' => 'nnu', 'Nn7g36299' => 'nnu', 'Oeu021485.1' => 'oeu', 'Oeu022433.1' => 'oeu', 'Oeu032111.1' => 'oeu', 'Oeu051608.1' => 'oeu', 'Os01g0860601' => 'osa', 'Os03g0659200' => 'osa', 'Os03g0835900' => 'osa', 'Os04g0412200' => 'osa', 'Os05g0443500' => 'osa', 'Os07g0251500' => 'osa', 'Os08g0104600' => 'osa', 'Peaxi162Scf00003g00047' => 'pax', 'Peaxi162Scf00003g00052' => 'pax', 'Peaxi162Scf00003g00394' => 'pax', 'Peaxi162Scf00091g00621' => 'pax', 'Peaxi162Scf00152g00146' => 'pax', 'Peaxi162Scf00173g00025' => 'pax', 'Peaxi162Scf00195g00102' => 'pax', 'Peaxi162Scf00402g00013' => 'pax', 'Peaxi162Scf00519g00618' => 'pax', 'PGR004G2838' => 'pgr', 'PGR044G2275' => 'pgr', 'PGR102G1377' => 'pgr', 'PGR119G1245' => 'pgr', 'PGR142G4449' => 'pgr', 'PGSC0003DMG400004532' => 'stu', 'PGSC0003DMG400011950' => 'stu', 'PGSC0003DMG400023391' => 'stu', 'PGSC0003DMG400023985' => 'stu', 'PGSC0003DMG400026360' => 'stu', 'PGSC0003DMG400035711' => 'stu', 'PGSC0003DMG400037286' => 'stu', 'PGSC0003DMG402005881' => 'stu', 'Phvul.002G045400' => 'pvu', 'Phvul.006G216600' => 'pvu', 'Phvul.006G216700' => 'pvu', 'Phvul.006G216800' => 'pvu', 'Phvul.007G022500' => 'pvu', 'Phvul.011G094400' => 'pvu', 'Potri.001G470700' => 'ptr', 'Potri.003G015200' => 'ptr', 'Potri.004G202500' => 'ptr', 'Potri.004G218400' => 'ptr', 'Potri.008G020100' => 'ptr', 'Potri.008G153200' => 'ptr', 'Potri.009G163800' => 'ptr', 'Potri.010G087300' => 'ptr', 'Potri.010G239100' => 'ptr', 'Pp3c10_16100' => 'ppa', 'Pp3c10_16880' => 'ppa', 'Pp3c16_6230' => 'ppa', 'Pp3c17_18910' => 'ppa', 'Pp3c3_22119' => 'ppa', 'Pp3c3_22140' => 'ppa', 'Pp3c4_8159' => 'ppa', 'Pp3c4_8171' => 'ppa', 'Pp3c4_8330' => 'ppa', 'PRCOL_00004098' => 'pco', 'Prupe.1G013900' => 'ppe', 'Prupe.1G226300' => 'ppe', 'Prupe.1G573600' => 'ppe', 'Prupe.6G130100' => 'ppe', 'Psat3g090040' => 'psa', 'Psat4g210440' => 'psa', 'Psat6g231040' => 'psa', 'Psat6g231080' => 'psa', 'Psat7g063000' => 'psa', 'Psat7g188000' => 'psa', 'Psat7g188040' => 'psa', 'PSO017G0206' => 'pso', 'PSO170G0501' => 'pso', 'PSO170G6422' => 'pso', 'PSO210G7739' => 'pso', 'PSO339G1808' => 'pso', 'PSO339G6135' => 'pso', 'PSO384G0010' => 'pso', 'PSO384G0964' => 'pso', 'PSO761G0050' => 'pso', 'PSO782G4085' => 'pso', 'QL01p012264' => 'qlo', 'QL02p099491' => 'qlo', 'QL03p033868' => 'qlo', 'QL04p046678' => 'qlo', 'QL06p002448' => 'qlo', 'RcHm_v2.0_Chr4g0416181' => 'rch', 'RcHm_v2.0_Chr5g0044701' => 'rch', 'RcHm_v2.0_Chr6g0265781' => 'rch', 'RcHm_v2.0_Chr7g0221031' => 'rch', 'Rhsim04G0202000' => 'rsi', 'Rhsim11G0127300' => 'rsi', 'Rhsim13G0111800' => 'rsi', 'Sabra01G0165600' => 'sbr', 'Sabra03G0008300' => 'sbr', 'Sabra04G0136900' => 'sbr', 'Sabra08G0013400' => 'sbr', 'Sabra08G0116800' => 'sbr', 'Sabra09G0128000' => 'sbr', 'Sabra10G0055500' => 'sbr', 'Sabra10G0073300' => 'sbr', 'SalBow3G0385' => 'sbo', 'SalBow3G1119' => 'sbo', 'SalBow3G2005' => 'sbo', 'SalBow6G2563' => 'sbo', 'SalBow6G6386' => 'sbo', 'Sc06g0008800' => 'sci', 'Sc07g0004950' => 'sci', 'Sc09g0005340' => 'sci', 'Sc13g0004410' => 'sci', 'Sc21g0007090' => 'sci', 'Sed0009285' => 'sed', 'Sed0017583' => 'sed', 'Sed0019699' => 'sed', 'Sed0023107' => 'sed', 'SEGI_10916' => 'sgi', 'SEGI_16217' => 'sgi', 'SEGI_19466' => 'sgi', 'SEGI_41115' => 'sgi', 'SGA_v2.0_scaffold111G31534' => 'sas', 'SGA_v2.0_scaffold22G09864' => 'sas', 'SGA_v2.0_scaffold338G49219' => 'sas', 'SGA_v2.0_scaffold92G28298' => 'sas', 'SMO119G0064' => 'smo', 'SMO223G0038' => 'smo', 'SMO347G0584' => 'smo', 'SMO351G0010' => 'smo', 'SMO356G0404' => 'smo', 'Solyc01g103920.3' => 'sly', 'Solyc04g009710.2' => 'sly', 'Solyc05g055280.2' => 'sly', 'Solyc10g044520.3' => 'sly', 'Solyc10g075160.1' => 'sly', 'Solyc11g006910.3' => 'sly', 'Solyc11g068430.3' => 'sly', 'Sopen01g046310' => 'spe', 'Sopen03g001200' => 'spe', 'Sopen04g004830' => 'spe', 'Sopen05g033720' => 'spe', 'Sopen06g030740' => 'spe', 'Sopen10g013090' => 'spe', 'Sopen10g027630' => 'spe', 'Sopen10g027640' => 'spe', 'Sopen11g002820' => 'spe', 'Sopen11g027140' => 'spe', 'Sp1g09680' => 'spa', 'Sp2g03630' => 'spa', 'Sp4g10320' => 'spa', 'Sp6g33400' => 'spa', 'Sp7g13030' => 'spa', 'TAR365G0317' => 'tar', 'TAR376G0979' => 'tar', 'TAR623G1665' => 'tar', 'TAR633G2373' => 'tar', 'TAR636G1400' => 'tar', 'THA.LOC104800529' => 'tha', 'THA.LOC104808547' => 'tha', 'THA.LOC104809615' => 'tha', 'THA.LOC104815724' => 'tha', 'THA.LOC104818480' => 'tha', 'THA.LOC104819179' => 'tha', 'THA.LOC104822270' => 'tha', 'THA.LOC104826425' => 'tha', 'Thecc.02G089700' => 'tca', 'Thecc.04G232300' => 'tca', 'Thecc.09G283400' => 'tca', 'Thhalv10009020m.g' => 'esa', 'Thhalv10015506m.g' => 'esa', 'Thhalv10017364m.g' => 'esa', 'Thhalv10023742m.g' => 'esa', 'Thhalv10026483m.g' => 'esa', 'TPR.G17232' => 'tpr', 'TPR.G2133' => 'tpr', 'TPR.G2498' => 'tpr', 'TPR.G31942' => 'tpr', 'TPR.G37877' => 'tpr', 'TPR.G4571' => 'tpr', 'TWI14G1113' => 'twi', 'TWI15G0426' => 'twi', 'TWI31G1005' => 'twi', 'TWI38G0513' => 'twi', 'TWI38G1484' => 'twi', 'TWI73G1098' => 'twi', 'unitig_26.g10519' => 'ugi', 'unitig_736.g22395' => 'ugi', 'unitig_747.g21234' => 'ugi', 'unitig_747.g21942' => 'ugi', 'vmacro14351' => 'vma', 'VMungo0540G0082' => 'vmu', 'VMungo0540G0405' => 'vmu', 'VMungo0540G1486' => 'vmu', 'VMungo0540G1692' => 'vmu', 'VMungo0720G2473' => 'vmu', 'VMungo1127G1562' => 'vmu', 'VMungo1215G1918' => 'vmu', 'Zm00001eb052650' => 'zma', 'Zm00001eb063710' => 'zma', 'Zm00001eb083950' => 'zma', 'Zm00001eb174420' => 'zma', 'Zm00001eb260140' => 'zma', 'Zm00001eb260150' => 'zma', 'Zm00001eb260160' => 'zma', 'Zm00001eb348290' => 'zma', 'Zm00001eb366870' => 'zma', 'Zm00001eb421930' => 'zma' ), 'gf_id' => 'HOM05D001025', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001025' ), 'data_identifier' => 'HOM05D001025', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001025', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '592', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p22650' => 'bna', 'A01p29720' => 'bna', 'A03p26560' => 'bna', 'A03p68820' => 'bna', 'A04p20980' => 'bna', 'A06p07730' => 'bna', 'A07p18260' => 'bna', 'A08p33710' => 'bna', 'A09p16970' => 'bna', 'A10p27490' => 'bna', 'Aa31LG1G17300' => 'aar', 'Aa31LG1G3910' => 'aar', 'Aa31LG2G9630' => 'aar', 'Aa31LG5G8360' => 'aar', 'Aa31LG9G2410' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4699' => 'aag', 'Actinidia23512' => 'ach', 'Actinidia37080' => 'ach', 'Ah.01g020380' => 'amhyb', 'Ah.08g215710' => 'amhyb', 'Ah.09g225110' => 'amhyb', 'Ah.10g036680' => 'amhyb', 'AL1G21940' => 'aly', 'AL2G15540' => 'aly', 'AL4G21520' => 'aly', 'AL7G40960' => 'aly', 'Aqoxy2G01191' => 'aox', 'Aqoxy2G03393' => 'aox', 'Aqoxy4G02775' => 'aox', 'Aqoxy6G00058' => 'aox', 'arahy.Tifrunner.gnm1.ann1.9X74H2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CW3FX9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R485W7' => 'arhy', 'AT1G10960' => 'ath', 'AT1G60950' => 'ath', 'AT2G27510' => 'ath', 'AT4G14890' => 'ath', 'AT5G10000' => 'ath', 'ATR0665G624' => 'atr', 'ATR0697G138' => 'atr', 'ATR0776G046' => 'atr', 'ATR1134G135' => 'atr', 'Atru.chr12.1025' => 'acertr', 'Atru.chr3.3241' => 'acertr', 'Atru.chr4.2460' => 'acertr', 'AUR62007427' => 'cqu', 'AUR62010960' => 'cqu', 'AUR62012201' => 'cqu', 'AUR62021470' => 'cqu', 'AUR62022834' => 'cqu', 'AUR62033635' => 'cqu', 'AUR62036186' => 'cqu', 'BcaB01g03077' => 'bca', 'BcaB02g10093' => 'bca', 'BcaB04g20295' => 'bca', 'BcaB06g28147' => 'bca', 'BcaB07g31253' => 'bca', 'BcaC01g04946' => 'bca', 'BcaC02g10614' => 'bca', 'BcaC02g10885' => 'bca', 'BcaC04g19356' => 'bca', 'BcaC04g22297' => 'bca', 'BcaC05g24977' => 'bca', 'BcaC06g31823' => 'bca', 'BcaC07g38633' => 'bca', 'BcaC09g49353' => 'bca', 'BcaC09g50168' => 'bca', 'BcaNung00322' => 'bca', 'BcaNung04769' => 'bca', 'BolC1t02753H' => 'bol', 'BolC1t03721H' => 'bol', 'BolC3t15525H' => 'bol', 'BolC4t23903H' => 'bol', 'BolC4t24231H' => 'bol', 'BolC4t27209H' => 'bol', 'BolC5t29671H' => 'bol', 'BolC8t49044H' => 'bol', 'BolC9t54999H' => 'bol', 'BolC9t59517H' => 'bol', 'BraA01t02178Z' => 'bra', 'BraA01t03099Z' => 'bra', 'BraA03t11867Z' => 'bra', 'BraA04t17667Z' => 'bra', 'BraA07t29542Z' => 'bra', 'BraA08t35287Z' => 'bra', 'BraA09t37334Z' => 'bra', 'BraA10t44801Z' => 'bra', 'BraSC39t46181Z' => 'bra', 'C01p28240' => 'bna', 'C01p37530' => 'bna', 'C03p31820' => 'bna', 'C04p24080' => 'bna', 'C04p25790' => 'bna', 'C04p56770' => 'bna', 'C05p09310' => 'bna', 'C09p21010' => 'bna', 'C09p67560' => 'bna', 'CAN.G1324.7' => 'can', 'CAN.G1358.10' => 'can', 'CAN.G1550.2' => 'can', 'CAN.G186.56' => 'can', 'CAN.G1965.1' => 'can', 'CAN.G645.15' => 'can', 'CAN.G798.26' => 'can', 'CAN.G798.27' => 'can', 'CAN.G798.29' => 'can', 'CAN.G919.31' => 'can', 'CANSAT11G0133' => 'cansat', 'CANSAT11G1171' => 'cansat', 'CANSAT11G2056' => 'cansat', 'CANSAT56G1202' => 'cansat', 'CANSAT56G1514' => 'cansat', 'CANSAT78G0455' => 'cansat', 'CARHR011190' => 'chi', 'CARHR051980' => 'chi', 'CARHR120170' => 'chi', 'CARHR203310' => 'chi', 'CARHR221490' => 'chi', 'Carub.0001s1054' => 'cru', 'Carub.0002s0431' => 'cru', 'Carub.0004s0818' => 'cru', 'Carub.0006s0846' => 'cru', 'Carub.0007s2722' => 'cru', 'Ca_00058_v3' => 'car', 'Ca_17831_v3' => 'car', 'Ca_19408_v3' => 'car', 'Ca_24397_v3' => 'car', 'Ca_25664_v3' => 'car', 'CBR_g21818' => 'cbr', 'CBR_g31195' => 'cbr', 'CBR_g32282' => 'cbr', 'CBR_g39599' => 'cbr', 'CBR_g49410' => 'cbr', 'Cc01_g09120' => 'ccan', 'Cc01_g09130' => 'ccan', 'Cc02_g09630' => 'ccan', 'Cc02_g22810' => 'ccan', 'Cc03_g03810' => 'ccan', 'CDE02G3718' => 'cde', 'CDE04G3183' => 'cde', 'CDE07G1046' => 'cde', 'CDE08G0480' => 'cde', 'Cfa005493' => 'cfa', 'Cfa010312' => 'cfa', 'Cfa015648' => 'cfa', 'Ciclev10002793m.g' => 'ccl', 'Ciclev10003356m.g' => 'ccl', 'Ciclev10006141m.g' => 'ccl', 'Ciclev10016676m.g' => 'ccl', 'Ciclev10017081m.g' => 'ccl', 'Ciclev10029499m.g' => 'ccl', 'CiPaw.01G166300' => 'cil', 'CiPaw.06G145600' => 'cil', 'CiPaw.13G040100' => 'cil', 'CiPaw.13G135800' => 'cil', 'ClCG01G012230' => 'cla', 'ClCG05G009510' => 'cla', 'ClCG08G008270' => 'cla', 'COL.COLO4_11763' => 'col', 'COL.COLO4_19876' => 'col', 'COL.COLO4_21481' => 'col', 'Cpa.g.sc118.34' => 'cpa', 'Cpa.g.sc32.13' => 'cpa', 'Cpa.g.sc58.103' => 'cpa', 'Cre03.g183850' => 'cre', 'Cre06.g306350' => 'cre', 'Cre07.g334800' => 'cre', 'Cre12.g487900' => 'cre', 'Cre14.g626700' => 'cre', 'Cre16.g658400' => 'cre', 'Cre17.g700950' => 'cre', 'CsaV3_1G014830' => 'csa', 'CsaV3_3G013320' => 'csa', 'CsaV3_3G019210' => 'csa', 'CsaV3_3G019220' => 'csa', 'CsaV3_6G004230' => 'csa', 'CSS0003773' => 'camsi', 'CSS0004563' => 'camsi', 'CSS0013949' => 'camsi', 'CSS0025971' => 'camsi', 'CSS0028570' => 'camsi', 'CSS0033127' => 'camsi', 'CSS0036051' => 'camsi', 'CSS0040087' => 'camsi', 'CSS0043179' => 'camsi', 'DCAR_006161' => 'dca', 'DCAR_010351' => 'dca', 'DCAR_012197' => 'dca', 'DCAR_024162' => 'dca', 'Dinv01030' => 'din', 'Dinv10924' => 'din', 'Dinv11835' => 'din', 'Dinv22841' => 'din', 'Dinv42553' => 'din', 'Duzib052G0560' => 'dzi', 'Duzib132G0389' => 'dzi', 'Duzib150G1181' => 'dzi', 'Duzib168G0623' => 'dzi', 'Duzib170G1036' => 'dzi', 'Duzib212G0200' => 'dzi', 'Duzib248G0194' => 'dzi', 'ECA232G2193' => 'eca', 'ECA233G0302' => 'eca', 'ECA234G2813' => 'eca', 'ECA234G4866' => 'eca', 'ECA240G3932' => 'eca', 'ECA248G0385' => 'eca', 'EL10Ac2g04781' => 'bvu', 'EL10Ac3g06445' => 'bvu', 'EL10Ac7g15825' => 'bvu', 'EL10Ac8g18550' => 'bvu', 'Eucgr.B03849' => 'egr', 'Eucgr.I02744' => 'egr', 'Eucgr.J00264' => 'egr', 'Eucgr.J00493' => 'egr', 'FAN04G2181' => 'fan', 'FAN07G2666' => 'fan', 'FAN11G0024' => 'fan', 'FAN12G1105' => 'fan', 'FAN13G0302' => 'fan', 'FAN15G2781' => 'fan', 'FAN16G1274' => 'fan', 'FAN17G2988' => 'fan', 'FAN18G2621' => 'fan', 'FAN21G0013' => 'fan', 'FAN22G1211' => 'fan', 'FAN25G3626' => 'fan', 'FvH4_2g09491' => 'fve', 'FvH4_3g24910' => 'fve', 'FvH4_4g15630' => 'fve', 'FvH4_5g28820' => 'fve', 'Glyma.01G238000' => 'gma', 'Glyma.05G168400' => 'gma', 'Glyma.08G126800' => 'gma', 'Glyma.08G188500' => 'gma', 'Glyma.10G278900' => 'gma', 'Glyma.11G005700' => 'gma', 'Glyma.11G183300' => 'gma', 'Glyma.12G089200' => 'gma', 'Glyma.12G169400' => 'gma', 'Glyma.12G169500' => 'gma', 'Glyma.12G169600' => 'gma', 'Glyma.20G110800' => 'gma', 'Gohir.A03G192900' => 'ghi', 'Gohir.A03G193000' => 'ghi', 'Gohir.A05G080700' => 'ghi', 'Gohir.A09G216000' => 'ghi', 'Gohir.A12G027700' => 'ghi', 'Gohir.A13G036200' => 'ghi', 'Gohir.A13G222600' => 'ghi', 'Gohir.D02G213900' => 'ghi', 'Gohir.D02G214000' => 'ghi', 'Gohir.D05G083700' => 'ghi', 'Gohir.D05G083800' => 'ghi', 'Gohir.D05G083850' => 'ghi', 'Gohir.D08G015400' => 'ghi', 'Gohir.D09G218400' => 'ghi', 'Gohir.D12G027100' => 'ghi', 'Gohir.D13G034500' => 'ghi', 'Gohir.D13G227400' => 'ghi', 'Gorai.005G241800' => 'gra', 'Gorai.005G241900' => 'gra', 'Gorai.006G239400' => 'gra', 'Gorai.008G027600' => 'gra', 'Gorai.009G085400' => 'gra', 'Gorai.009G085500' => 'gra', 'Gorai.013G039000' => 'gra', 'Gorai.013G194800' => 'gra', 'Gorai.013G257900' => 'gra', 'GSVIVG01000982001' => 'vvi', 'GSVIVG01017981001' => 'vvi', 'HanXRQChr01g0024061' => 'han', 'HanXRQChr09g0247831' => 'han', 'HanXRQChr10g0294611' => 'han', 'HanXRQChr10g0294621' => 'han', 'HanXRQChr11g0346821' => 'han', 'HanXRQChr13g0397461' => 'han', 'HanXRQChr16g0513651' => 'han', 'HanXRQChr16g0513701' => 'han', 'Haze_00897' => 'cav', 'Haze_01745' => 'cav', 'Haze_02486' => 'cav', 'Haze_02487' => 'cav', 'Haze_23374' => 'cav', 'Hma1.2p1_0578F.1_g182520' => 'hma', 'Hma1.2p1_0602F.1_g187350' => 'hma', 'Hma1.2p1_0602F.1_g187360' => 'hma', 'Hma1.2p1_0874F.1_g231320' => 'hma', 'Hma1.2p1_1197F.1_g266210' => 'hma', 'Hma1.2p1_1197F.1_g266220' => 'hma', 'Hma1.2p1_2167F.1_g315895' => 'hma', 'Hma1.2p1_2190F.1_g316640' => 'hma', 'Hma1.2p1_3645F.1_g337153' => 'hma', 'HPP92_004907' => 'vpl', 'HPP92_012134' => 'vpl', 'HPP92_025136' => 'vpl', 'HPP92_026087' => 'vpl', 'Hund06782' => 'sun', 'Hund06784' => 'sun', 'Lalb_Chr01g0004861' => 'lal', 'Lalb_Chr02g0140591' => 'lal', 'Lalb_Chr02g0140611' => 'lal', 'Lalb_Chr03g0028101' => 'lal', 'Lalb_Chr07g0185791' => 'lal', 'Lalb_Chr12g0204491' => 'lal', 'Lalb_Chr13g0295671' => 'lal', 'Lalb_Chr19g0136461' => 'lal', 'Lalb_Chr21g0309191' => 'lal', 'Lj1g0028158' => 'lja', 'Lj1P236T38' => 'lonja', 'Lj2C32G2' => 'lonja', 'Lj2P944T8' => 'lonja', 'Lj2P963T15' => 'lonja', 'Lj3g0011788' => 'lja', 'Lj4g0025027' => 'lja', 'Lj5P255T36' => 'lonja', 'Lj6g0018866' => 'lja', 'Lj6P608T31' => 'lonja', 'LjContig00408g0008879' => 'lja', 'Lsat_1_v5_gn_5_105820' => 'lsa', 'Lsat_1_v5_gn_6_38800' => 'lsa', 'Lsat_1_v5_gn_7_67141' => 'lsa', 'Manes.04G003400' => 'mes', 'Manes.07G020000' => 'mes', 'Manes.07G020100' => 'mes', 'Manes.07G020150' => 'mes', 'Manes.10G061500' => 'mes', 'Manes.10G123200' => 'mes', 'Manes.11G161900' => 'mes', 'Manes.15G029300' => 'mes', 'Mapoly0071s0018' => 'mpo', 'Mapoly0082s0023' => 'mpo', 'Mapoly3477s0001' => 'mpo', 'MBI05_g31233_MAGBIO' => 'mbi', 'MBI09_g05946_MAGBIO' => 'mbi', 'MBI09_g05947_MAGBIO' => 'mbi', 'MBI17_g08346_MAGBIO' => 'mbi', 'MCO04G038' => 'mco', 'MCO09G370' => 'mco', 'MCO13G605' => 'mco', 'MD00G1075500' => 'mdo', 'MD03G1144300' => 'mdo', 'MD08G1236800' => 'mdo', 'MD13G1193300' => 'mdo', 'MD15G1428700' => 'mdo', 'Medtr1g112030' => 'mtr', 'Medtr1g112050' => 'mtr', 'Medtr2g006290' => 'mtr', 'Medtr2g086510' => 'mtr', 'Medtr4g053120' => 'mtr', 'Medtr5g006320' => 'mtr', 'Medtr8g088720' => 'mtr', 'MELO3C004712.2' => 'cme', 'MELO3C006533.2' => 'cme', 'MELO3C019438.2' => 'cme', 'MELO3C019440.2' => 'cme', 'MELO3C019441.2' => 'cme', 'MELO3C019895.2' => 'cme', 'Migut.B00811' => 'egut', 'Migut.D02447' => 'egut', 'Migut.F00875' => 'egut', 'Migut.N00186' => 'egut', 'Migut.N01051' => 'egut', 'Migut.N02491' => 'egut', 'Migut.O00784' => 'egut', 'MSTRG.12367' => 'ama', 'MSTRG.18756' => 'ama', 'MSTRG.21042' => 'ama', 'Nitab4.5_0000559g0040' => 'nta', 'Nitab4.5_0000667g0190' => 'nta', 'Nitab4.5_0000755g0160' => 'nta', 'Nitab4.5_0001216g0080' => 'nta', 'Nitab4.5_0004069g0040' => 'nta', 'Nitab4.5_0004129g0010' => 'nta', 'Nitab4.5_0005744g0030' => 'nta', 'Nitab4.5_0006996g0030' => 'nta', 'Nitab4.5_0008971g0040' => 'nta', 'Nitab4.5_0009769g0020' => 'nta', 'Nitab4.5_0009833g0010' => 'nta', 'Nitab4.5_0013140g0020' => 'nta', 'Nn003s41376' => 'nnu', 'Nn1g01857' => 'nnu', 'Nn1g03611' => 'nnu', 'Nn1g06853' => 'nnu', 'Nn3g18360' => 'nnu', 'Nn4g26328' => 'nnu', 'Nn5g27531' => 'nnu', 'Nn6g34899' => 'nnu', 'Nn7g36299' => 'nnu', 'Oeu021485.1' => 'oeu', 'Oeu022433.1' => 'oeu', 'Oeu032111.1' => 'oeu', 'Oeu051608.1' => 'oeu', 'Os01g0860601' => 'osa', 'Os03g0659200' => 'osa', 'Os03g0835900' => 'osa', 'Os04g0412200' => 'osa', 'Os05g0443500' => 'osa', 'Os07g0251500' => 'osa', 'Os08g0104600' => 'osa', 'Peaxi162Scf00003g00047' => 'pax', 'Peaxi162Scf00003g00052' => 'pax', 'Peaxi162Scf00003g00394' => 'pax', 'Peaxi162Scf00091g00621' => 'pax', 'Peaxi162Scf00152g00146' => 'pax', 'Peaxi162Scf00173g00025' => 'pax', 'Peaxi162Scf00195g00102' => 'pax', 'Peaxi162Scf00402g00013' => 'pax', 'Peaxi162Scf00519g00618' => 'pax', 'PGR004G2838' => 'pgr', 'PGR044G2275' => 'pgr', 'PGR102G1377' => 'pgr', 'PGR119G1245' => 'pgr', 'PGR142G4449' => 'pgr', 'PGSC0003DMG400004532' => 'stu', 'PGSC0003DMG400011950' => 'stu', 'PGSC0003DMG400023391' => 'stu', 'PGSC0003DMG400023985' => 'stu', 'PGSC0003DMG400026360' => 'stu', 'PGSC0003DMG400035711' => 'stu', 'PGSC0003DMG400037286' => 'stu', 'PGSC0003DMG402005881' => 'stu', 'Phvul.002G045400' => 'pvu', 'Phvul.006G216600' => 'pvu', 'Phvul.006G216700' => 'pvu', 'Phvul.006G216800' => 'pvu', 'Phvul.007G022500' => 'pvu', 'Phvul.011G094400' => 'pvu', 'Potri.001G470700' => 'ptr', 'Potri.003G015200' => 'ptr', 'Potri.004G202500' => 'ptr', 'Potri.004G218400' => 'ptr', 'Potri.008G020100' => 'ptr', 'Potri.008G153200' => 'ptr', 'Potri.009G163800' => 'ptr', 'Potri.010G087300' => 'ptr', 'Potri.010G239100' => 'ptr', 'Pp3c10_16100' => 'ppa', 'Pp3c10_16880' => 'ppa', 'Pp3c16_6230' => 'ppa', 'Pp3c17_18910' => 'ppa', 'Pp3c3_22119' => 'ppa', 'Pp3c3_22140' => 'ppa', 'Pp3c4_8159' => 'ppa', 'Pp3c4_8171' => 'ppa', 'Pp3c4_8330' => 'ppa', 'PRCOL_00004098' => 'pco', 'Prupe.1G013900' => 'ppe', 'Prupe.1G226300' => 'ppe', 'Prupe.1G573600' => 'ppe', 'Prupe.6G130100' => 'ppe', 'Psat3g090040' => 'psa', 'Psat4g210440' => 'psa', 'Psat6g231040' => 'psa', 'Psat6g231080' => 'psa', 'Psat7g063000' => 'psa', 'Psat7g188000' => 'psa', 'Psat7g188040' => 'psa', 'PSO017G0206' => 'pso', 'PSO170G0501' => 'pso', 'PSO170G6422' => 'pso', 'PSO210G7739' => 'pso', 'PSO339G1808' => 'pso', 'PSO339G6135' => 'pso', 'PSO384G0010' => 'pso', 'PSO384G0964' => 'pso', 'PSO761G0050' => 'pso', 'PSO782G4085' => 'pso', 'QL01p012264' => 'qlo', 'QL02p099491' => 'qlo', 'QL03p033868' => 'qlo', 'QL04p046678' => 'qlo', 'QL06p002448' => 'qlo', 'RcHm_v2.0_Chr4g0416181' => 'rch', 'RcHm_v2.0_Chr5g0044701' => 'rch', 'RcHm_v2.0_Chr6g0265781' => 'rch', 'RcHm_v2.0_Chr7g0221031' => 'rch', 'Rhsim04G0202000' => 'rsi', 'Rhsim11G0127300' => 'rsi', 'Rhsim13G0111800' => 'rsi', 'Sabra01G0165600' => 'sbr', 'Sabra03G0008300' => 'sbr', 'Sabra04G0136900' => 'sbr', 'Sabra08G0013400' => 'sbr', 'Sabra08G0116800' => 'sbr', 'Sabra09G0128000' => 'sbr', 'Sabra10G0055500' => 'sbr', 'Sabra10G0073300' => 'sbr', 'SalBow3G0385' => 'sbo', 'SalBow3G1119' => 'sbo', 'SalBow3G2005' => 'sbo', 'SalBow6G2563' => 'sbo', 'SalBow6G6386' => 'sbo', 'Sc06g0008800' => 'sci', 'Sc07g0004950' => 'sci', 'Sc09g0005340' => 'sci', 'Sc13g0004410' => 'sci', 'Sc21g0007090' => 'sci', 'Sed0009285' => 'sed', 'Sed0017583' => 'sed', 'Sed0019699' => 'sed', 'Sed0023107' => 'sed', 'SEGI_10916' => 'sgi', 'SEGI_16217' => 'sgi', 'SEGI_19466' => 'sgi', 'SEGI_41115' => 'sgi', 'SGA_v2.0_scaffold111G31534' => 'sas', 'SGA_v2.0_scaffold22G09864' => 'sas', 'SGA_v2.0_scaffold338G49219' => 'sas', 'SGA_v2.0_scaffold92G28298' => 'sas', 'SMO119G0064' => 'smo', 'SMO223G0038' => 'smo', 'SMO347G0584' => 'smo', 'SMO351G0010' => 'smo', 'SMO356G0404' => 'smo', 'Solyc01g103920.3' => 'sly', 'Solyc04g009710.2' => 'sly', 'Solyc05g055280.2' => 'sly', 'Solyc10g044520.3' => 'sly', 'Solyc10g075160.1' => 'sly', 'Solyc11g006910.3' => 'sly', 'Solyc11g068430.3' => 'sly', 'Sopen01g046310' => 'spe', 'Sopen03g001200' => 'spe', 'Sopen04g004830' => 'spe', 'Sopen05g033720' => 'spe', 'Sopen06g030740' => 'spe', 'Sopen10g013090' => 'spe', 'Sopen10g027630' => 'spe', 'Sopen10g027640' => 'spe', 'Sopen11g002820' => 'spe', 'Sopen11g027140' => 'spe', 'Sp1g09680' => 'spa', 'Sp2g03630' => 'spa', 'Sp4g10320' => 'spa', 'Sp6g33400' => 'spa', 'Sp7g13030' => 'spa', 'TAR365G0317' => 'tar', 'TAR376G0979' => 'tar', 'TAR623G1665' => 'tar', 'TAR633G2373' => 'tar', 'TAR636G1400' => 'tar', 'THA.LOC104800529' => 'tha', 'THA.LOC104808547' => 'tha', 'THA.LOC104809615' => 'tha', 'THA.LOC104815724' => 'tha', 'THA.LOC104818480' => 'tha', 'THA.LOC104819179' => 'tha', 'THA.LOC104822270' => 'tha', 'THA.LOC104826425' => 'tha', 'Thecc.02G089700' => 'tca', 'Thecc.04G232300' => 'tca', 'Thecc.09G283400' => 'tca', 'Thhalv10009020m.g' => 'esa', 'Thhalv10015506m.g' => 'esa', 'Thhalv10017364m.g' => 'esa', 'Thhalv10023742m.g' => 'esa', 'Thhalv10026483m.g' => 'esa', 'TPR.G17232' => 'tpr', 'TPR.G2133' => 'tpr', 'TPR.G2498' => 'tpr', 'TPR.G31942' => 'tpr', 'TPR.G37877' => 'tpr', 'TPR.G4571' => 'tpr', 'TWI14G1113' => 'twi', 'TWI15G0426' => 'twi', 'TWI31G1005' => 'twi', 'TWI38G0513' => 'twi', 'TWI38G1484' => 'twi', 'TWI73G1098' => 'twi', 'unitig_26.g10519' => 'ugi', 'unitig_736.g22395' => 'ugi', 'unitig_747.g21234' => 'ugi', 'unitig_747.g21942' => 'ugi', 'vmacro14351' => 'vma', 'VMungo0540G0082' => 'vmu', 'VMungo0540G0405' => 'vmu', 'VMungo0540G1486' => 'vmu', 'VMungo0540G1692' => 'vmu', 'VMungo0720G2473' => 'vmu', 'VMungo1127G1562' => 'vmu', 'VMungo1215G1918' => 'vmu', 'Zm00001eb052650' => 'zma', 'Zm00001eb063710' => 'zma', 'Zm00001eb083950' => 'zma', 'Zm00001eb174420' => 'zma', 'Zm00001eb260140' => 'zma', 'Zm00001eb260150' => 'zma', 'Zm00001eb260160' => 'zma', 'Zm00001eb348290' => 'zma', 'Zm00001eb366870' => 'zma', 'Zm00001eb421930' => 'zma' ) $gf_id = 'HOM05D001025' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001025' ) $data_identifier = 'HOM05D001025' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 19, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 2, 'amhyb' => (int) 4, 'aly' => (int) 4, 'aox' => (int) 4, 'arhy' => (int) 3, 'ath' => (int) 5, 'atr' => (int) 4, 'acertr' => (int) 3, 'cqu' => (int) 7, 'bca' => (int) 17, 'bol' => (int) 10, 'bra' => (int) 9, 'can' => (int) 10, 'cansat' => (int) 6, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 5, 'cbr' => (int) 5, 'ccan' => (int) 5, 'cde' => (int) 4, 'cfa' => (int) 3, 'ccl' => (int) 6, 'cil' => (int) 4, 'cla' => (int) 3, 'col' => (int) 3, 'cpa' => (int) 3, 'cre' => (int) 7, 'csa' => (int) 5, 'camsi' => (int) 9, 'dca' => (int) 4, 'din' => (int) 5, 'dzi' => (int) 7, 'eca' => (int) 6, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 12, 'fve' => (int) 4, 'gma' => (int) 12, 'ghi' => (int) 17, 'gra' => (int) 9, 'vvi' => (int) 2, 'han' => (int) 8, 'cav' => (int) 5, 'hma' => (int) 9, 'vpl' => (int) 4, 'sun' => (int) 2, 'lal' => (int) 9, 'lja' => (int) 5, 'lonja' => (int) 6, 'lsa' => (int) 3, 'mes' => (int) 8, 'mpo' => (int) 3, 'mbi' => (int) 4, 'mco' => (int) 3, 'mdo' => (int) 5, 'mtr' => (int) 7, 'cme' => (int) 6, 'egut' => (int) 7, 'ama' => (int) 3, 'nta' => (int) 12, 'nnu' => (int) 9, 'oeu' => (int) 4, 'osa' => (int) 7, 'pax' => (int) 9, 'pgr' => (int) 5, 'stu' => (int) 8, 'pvu' => (int) 6, 'ptr' => (int) 9, 'ppa' => (int) 9, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 7, 'pso' => (int) 10, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 3, 'sbr' => (int) 8, 'sbo' => (int) 5, 'sci' => (int) 5, 'sed' => (int) 4, 'sgi' => (int) 4, 'sas' => (int) 4, 'smo' => (int) 5, 'sly' => (int) 7, 'spe' => (int) 10, 'spa' => (int) 5, 'tar' => (int) 5, 'tha' => (int) 8, 'tca' => (int) 3, 'esa' => (int) 5, 'tpr' => (int) 6, 'twi' => (int) 6, 'ugi' => (int) 4, 'vma' => (int) 1, 'vmu' => (int) 7, 'zma' => (int) 10 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb421930' $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' => 'HOM05D001025', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '592', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p22650' => 'bna', 'A01p29720' => 'bna', 'A03p26560' => 'bna', 'A03p68820' => 'bna', 'A04p20980' => 'bna', 'A06p07730' => 'bna', 'A07p18260' => 'bna', 'A08p33710' => 'bna', 'A09p16970' => 'bna', 'A10p27490' => 'bna', 'Aa31LG1G17300' => 'aar', 'Aa31LG1G3910' => 'aar', 'Aa31LG2G9630' => 'aar', 'Aa31LG5G8360' => 'aar', 'Aa31LG9G2410' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4699' => 'aag', 'Actinidia23512' => 'ach', 'Actinidia37080' => 'ach', 'Ah.01g020380' => 'amhyb', 'Ah.08g215710' => 'amhyb', 'Ah.09g225110' => 'amhyb', 'Ah.10g036680' => 'amhyb', 'AL1G21940' => 'aly', 'AL2G15540' => 'aly', 'AL4G21520' => 'aly', 'AL7G40960' => 'aly', 'Aqoxy2G01191' => 'aox', 'Aqoxy2G03393' => 'aox', 'Aqoxy4G02775' => 'aox', 'Aqoxy6G00058' => 'aox', 'arahy.Tifrunner.gnm1.ann1.9X74H2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CW3FX9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R485W7' => 'arhy', 'AT1G10960' => 'ath', 'AT1G60950' => 'ath', 'AT2G27510' => 'ath', 'AT4G14890' => 'ath', 'AT5G10000' => 'ath', 'ATR0665G624' => 'atr', 'ATR0697G138' => 'atr', 'ATR0776G046' => 'atr', 'ATR1134G135' => 'atr', 'Atru.chr12.1025' => 'acertr', 'Atru.chr3.3241' => 'acertr', 'Atru.chr4.2460' => 'acertr', 'AUR62007427' => 'cqu', 'AUR62010960' => 'cqu', 'AUR62012201' => 'cqu', 'AUR62021470' => 'cqu', 'AUR62022834' => 'cqu', 'AUR62033635' => 'cqu', 'AUR62036186' => 'cqu', 'BcaB01g03077' => 'bca', 'BcaB02g10093' => 'bca', 'BcaB04g20295' => 'bca', 'BcaB06g28147' => 'bca', 'BcaB07g31253' => 'bca', 'BcaC01g04946' => 'bca', 'BcaC02g10614' => 'bca', 'BcaC02g10885' => 'bca', 'BcaC04g19356' => 'bca', 'BcaC04g22297' => 'bca', 'BcaC05g24977' => 'bca', 'BcaC06g31823' => 'bca', 'BcaC07g38633' => 'bca', 'BcaC09g49353' => 'bca', 'BcaC09g50168' => 'bca', 'BcaNung00322' => 'bca', 'BcaNung04769' => 'bca', 'BolC1t02753H' => 'bol', 'BolC1t03721H' => 'bol', 'BolC3t15525H' => 'bol', 'BolC4t23903H' => 'bol', 'BolC4t24231H' => 'bol', 'BolC4t27209H' => 'bol', 'BolC5t29671H' => 'bol', 'BolC8t49044H' => 'bol', 'BolC9t54999H' => 'bol', 'BolC9t59517H' => 'bol', 'BraA01t02178Z' => 'bra', 'BraA01t03099Z' => 'bra', 'BraA03t11867Z' => 'bra', 'BraA04t17667Z' => 'bra', 'BraA07t29542Z' => 'bra', 'BraA08t35287Z' => 'bra', 'BraA09t37334Z' => 'bra', 'BraA10t44801Z' => 'bra', 'BraSC39t46181Z' => 'bra', 'C01p28240' => 'bna', 'C01p37530' => 'bna', 'C03p31820' => 'bna', 'C04p24080' => 'bna', 'C04p25790' => 'bna', 'C04p56770' => 'bna', 'C05p09310' => 'bna', 'C09p21010' => 'bna', 'C09p67560' => 'bna', 'CAN.G1324.7' => 'can', 'CAN.G1358.10' => 'can', 'CAN.G1550.2' => 'can', 'CAN.G186.56' => 'can', 'CAN.G1965.1' => 'can', 'CAN.G645.15' => 'can', 'CAN.G798.26' => 'can', 'CAN.G798.27' => 'can', 'CAN.G798.29' => 'can', 'CAN.G919.31' => 'can', 'CANSAT11G0133' => 'cansat', 'CANSAT11G1171' => 'cansat', 'CANSAT11G2056' => 'cansat', 'CANSAT56G1202' => 'cansat', 'CANSAT56G1514' => 'cansat', 'CANSAT78G0455' => 'cansat', 'CARHR011190' => 'chi', 'CARHR051980' => 'chi', 'CARHR120170' => 'chi', 'CARHR203310' => 'chi', 'CARHR221490' => 'chi', 'Carub.0001s1054' => 'cru', 'Carub.0002s0431' => 'cru', 'Carub.0004s0818' => 'cru', 'Carub.0006s0846' => 'cru', 'Carub.0007s2722' => 'cru', 'Ca_00058_v3' => 'car', 'Ca_17831_v3' => 'car', 'Ca_19408_v3' => 'car', 'Ca_24397_v3' => 'car', 'Ca_25664_v3' => 'car', 'CBR_g21818' => 'cbr', 'CBR_g31195' => 'cbr', 'CBR_g32282' => 'cbr', 'CBR_g39599' => 'cbr', 'CBR_g49410' => 'cbr', 'Cc01_g09120' => 'ccan', 'Cc01_g09130' => 'ccan', 'Cc02_g09630' => 'ccan', 'Cc02_g22810' => 'ccan', 'Cc03_g03810' => 'ccan', 'CDE02G3718' => 'cde', 'CDE04G3183' => 'cde', 'CDE07G1046' => 'cde', 'CDE08G0480' => 'cde', 'Cfa005493' => 'cfa', 'Cfa010312' => 'cfa', 'Cfa015648' => 'cfa', 'Ciclev10002793m.g' => 'ccl', 'Ciclev10003356m.g' => 'ccl', 'Ciclev10006141m.g' => 'ccl', 'Ciclev10016676m.g' => 'ccl', 'Ciclev10017081m.g' => 'ccl', 'Ciclev10029499m.g' => 'ccl', 'CiPaw.01G166300' => 'cil', 'CiPaw.06G145600' => 'cil', 'CiPaw.13G040100' => 'cil', 'CiPaw.13G135800' => 'cil', 'ClCG01G012230' => 'cla', 'ClCG05G009510' => 'cla', 'ClCG08G008270' => 'cla', 'COL.COLO4_11763' => 'col', 'COL.COLO4_19876' => 'col', 'COL.COLO4_21481' => 'col', 'Cpa.g.sc118.34' => 'cpa', 'Cpa.g.sc32.13' => 'cpa', 'Cpa.g.sc58.103' => 'cpa', 'Cre03.g183850' => 'cre', 'Cre06.g306350' => 'cre', 'Cre07.g334800' => 'cre', 'Cre12.g487900' => 'cre', 'Cre14.g626700' => 'cre', 'Cre16.g658400' => 'cre', 'Cre17.g700950' => 'cre', 'CsaV3_1G014830' => 'csa', 'CsaV3_3G013320' => 'csa', 'CsaV3_3G019210' => 'csa', 'CsaV3_3G019220' => 'csa', 'CsaV3_6G004230' => 'csa', 'CSS0003773' => 'camsi', 'CSS0004563' => 'camsi', 'CSS0013949' => 'camsi', 'CSS0025971' => 'camsi', 'CSS0028570' => 'camsi', 'CSS0033127' => 'camsi', 'CSS0036051' => 'camsi', 'CSS0040087' => 'camsi', 'CSS0043179' => 'camsi', 'DCAR_006161' => 'dca', 'DCAR_010351' => 'dca', 'DCAR_012197' => 'dca', 'DCAR_024162' => 'dca', 'Dinv01030' => 'din', 'Dinv10924' => 'din', 'Dinv11835' => 'din', 'Dinv22841' => 'din', 'Dinv42553' => 'din', 'Duzib052G0560' => 'dzi', 'Duzib132G0389' => 'dzi', 'Duzib150G1181' => 'dzi', 'Duzib168G0623' => 'dzi', 'Duzib170G1036' => 'dzi', 'Duzib212G0200' => 'dzi', 'Duzib248G0194' => 'dzi', 'ECA232G2193' => 'eca', 'ECA233G0302' => 'eca', 'ECA234G2813' => 'eca', 'ECA234G4866' => 'eca', 'ECA240G3932' => 'eca', 'ECA248G0385' => 'eca', 'EL10Ac2g04781' => 'bvu', 'EL10Ac3g06445' => 'bvu', 'EL10Ac7g15825' => 'bvu', 'EL10Ac8g18550' => 'bvu', 'Eucgr.B03849' => 'egr', 'Eucgr.I02744' => 'egr', 'Eucgr.J00264' => 'egr', 'Eucgr.J00493' => 'egr', 'FAN04G2181' => 'fan', 'FAN07G2666' => 'fan', 'FAN11G0024' => 'fan', 'FAN12G1105' => 'fan', 'FAN13G0302' => 'fan', 'FAN15G2781' => 'fan', 'FAN16G1274' => 'fan', 'FAN17G2988' => 'fan', 'FAN18G2621' => 'fan', 'FAN21G0013' => 'fan', 'FAN22G1211' => 'fan', 'FAN25G3626' => 'fan', 'FvH4_2g09491' => 'fve', 'FvH4_3g24910' => 'fve', 'FvH4_4g15630' => 'fve', 'FvH4_5g28820' => 'fve', 'Glyma.01G238000' => 'gma', 'Glyma.05G168400' => 'gma', 'Glyma.08G126800' => 'gma', 'Glyma.08G188500' => 'gma', 'Glyma.10G278900' => 'gma', 'Glyma.11G005700' => 'gma', 'Glyma.11G183300' => 'gma', 'Glyma.12G089200' => 'gma', 'Glyma.12G169400' => 'gma', 'Glyma.12G169500' => 'gma', 'Glyma.12G169600' => 'gma', 'Glyma.20G110800' => 'gma', 'Gohir.A03G192900' => 'ghi', 'Gohir.A03G193000' => 'ghi', 'Gohir.A05G080700' => 'ghi', 'Gohir.A09G216000' => 'ghi', 'Gohir.A12G027700' => 'ghi', 'Gohir.A13G036200' => 'ghi', 'Gohir.A13G222600' => 'ghi', 'Gohir.D02G213900' => 'ghi', 'Gohir.D02G214000' => 'ghi', 'Gohir.D05G083700' => 'ghi', 'Gohir.D05G083800' => 'ghi', 'Gohir.D05G083850' => 'ghi', 'Gohir.D08G015400' => 'ghi', 'Gohir.D09G218400' => 'ghi', 'Gohir.D12G027100' => 'ghi', 'Gohir.D13G034500' => 'ghi', 'Gohir.D13G227400' => 'ghi', 'Gorai.005G241800' => 'gra', 'Gorai.005G241900' => 'gra', 'Gorai.006G239400' => 'gra', 'Gorai.008G027600' => 'gra', 'Gorai.009G085400' => 'gra', 'Gorai.009G085500' => 'gra', 'Gorai.013G039000' => 'gra', 'Gorai.013G194800' => 'gra', 'Gorai.013G257900' => 'gra', 'GSVIVG01000982001' => 'vvi', 'GSVIVG01017981001' => 'vvi', 'HanXRQChr01g0024061' => 'han', 'HanXRQChr09g0247831' => 'han', 'HanXRQChr10g0294611' => 'han', 'HanXRQChr10g0294621' => 'han', 'HanXRQChr11g0346821' => 'han', 'HanXRQChr13g0397461' => 'han', 'HanXRQChr16g0513651' => 'han', 'HanXRQChr16g0513701' => 'han', 'Haze_00897' => 'cav', 'Haze_01745' => 'cav', 'Haze_02486' => 'cav', 'Haze_02487' => 'cav', 'Haze_23374' => 'cav', 'Hma1.2p1_0578F.1_g182520' => 'hma', 'Hma1.2p1_0602F.1_g187350' => 'hma', 'Hma1.2p1_0602F.1_g187360' => 'hma', 'Hma1.2p1_0874F.1_g231320' => 'hma', 'Hma1.2p1_1197F.1_g266210' => 'hma', 'Hma1.2p1_1197F.1_g266220' => 'hma', 'Hma1.2p1_2167F.1_g315895' => 'hma', 'Hma1.2p1_2190F.1_g316640' => 'hma', 'Hma1.2p1_3645F.1_g337153' => 'hma', 'HPP92_004907' => 'vpl', 'HPP92_012134' => 'vpl', 'HPP92_025136' => 'vpl', 'HPP92_026087' => 'vpl', 'Hund06782' => 'sun', 'Hund06784' => 'sun', 'Lalb_Chr01g0004861' => 'lal', 'Lalb_Chr02g0140591' => 'lal', 'Lalb_Chr02g0140611' => 'lal', 'Lalb_Chr03g0028101' => 'lal', 'Lalb_Chr07g0185791' => 'lal', 'Lalb_Chr12g0204491' => 'lal', 'Lalb_Chr13g0295671' => 'lal', 'Lalb_Chr19g0136461' => 'lal', 'Lalb_Chr21g0309191' => 'lal', 'Lj1g0028158' => 'lja', 'Lj1P236T38' => 'lonja', 'Lj2C32G2' => 'lonja', 'Lj2P944T8' => 'lonja', 'Lj2P963T15' => 'lonja', 'Lj3g0011788' => 'lja', 'Lj4g0025027' => 'lja', 'Lj5P255T36' => 'lonja', 'Lj6g0018866' => 'lja', 'Lj6P608T31' => 'lonja', 'LjContig00408g0008879' => 'lja', 'Lsat_1_v5_gn_5_105820' => 'lsa', 'Lsat_1_v5_gn_6_38800' => 'lsa', 'Lsat_1_v5_gn_7_67141' => 'lsa', 'Manes.04G003400' => 'mes', 'Manes.07G020000' => 'mes', 'Manes.07G020100' => 'mes', 'Manes.07G020150' => 'mes', 'Manes.10G061500' => 'mes', 'Manes.10G123200' => 'mes', 'Manes.11G161900' => 'mes', 'Manes.15G029300' => 'mes', 'Mapoly0071s0018' => 'mpo', 'Mapoly0082s0023' => 'mpo', 'Mapoly3477s0001' => 'mpo', 'MBI05_g31233_MAGBIO' => 'mbi', 'MBI09_g05946_MAGBIO' => 'mbi', 'MBI09_g05947_MAGBIO' => 'mbi', 'MBI17_g08346_MAGBIO' => 'mbi', 'MCO04G038' => 'mco', 'MCO09G370' => 'mco', 'MCO13G605' => 'mco', 'MD00G1075500' => 'mdo', 'MD03G1144300' => 'mdo', 'MD08G1236800' => 'mdo', 'MD13G1193300' => 'mdo', 'MD15G1428700' => 'mdo', 'Medtr1g112030' => 'mtr', 'Medtr1g112050' => 'mtr', 'Medtr2g006290' => 'mtr', 'Medtr2g086510' => 'mtr', 'Medtr4g053120' => 'mtr', 'Medtr5g006320' => 'mtr', 'Medtr8g088720' => 'mtr', 'MELO3C004712.2' => 'cme', 'MELO3C006533.2' => 'cme', 'MELO3C019438.2' => 'cme', 'MELO3C019440.2' => 'cme', 'MELO3C019441.2' => 'cme', 'MELO3C019895.2' => 'cme', 'Migut.B00811' => 'egut', 'Migut.D02447' => 'egut', 'Migut.F00875' => 'egut', 'Migut.N00186' => 'egut', 'Migut.N01051' => 'egut', 'Migut.N02491' => 'egut', 'Migut.O00784' => 'egut', 'MSTRG.12367' => 'ama', 'MSTRG.18756' => 'ama', 'MSTRG.21042' => 'ama', 'Nitab4.5_0000559g0040' => 'nta', 'Nitab4.5_0000667g0190' => 'nta', 'Nitab4.5_0000755g0160' => 'nta', 'Nitab4.5_0001216g0080' => 'nta', 'Nitab4.5_0004069g0040' => 'nta', 'Nitab4.5_0004129g0010' => 'nta', 'Nitab4.5_0005744g0030' => 'nta', 'Nitab4.5_0006996g0030' => 'nta', 'Nitab4.5_0008971g0040' => 'nta', 'Nitab4.5_0009769g0020' => 'nta', 'Nitab4.5_0009833g0010' => 'nta', 'Nitab4.5_0013140g0020' => 'nta', 'Nn003s41376' => 'nnu', 'Nn1g01857' => 'nnu', 'Nn1g03611' => 'nnu', 'Nn1g06853' => 'nnu', 'Nn3g18360' => 'nnu', 'Nn4g26328' => 'nnu', 'Nn5g27531' => 'nnu', 'Nn6g34899' => 'nnu', 'Nn7g36299' => 'nnu', 'Oeu021485.1' => 'oeu', 'Oeu022433.1' => 'oeu', 'Oeu032111.1' => 'oeu', 'Oeu051608.1' => 'oeu', 'Os01g0860601' => 'osa', 'Os03g0659200' => 'osa', 'Os03g0835900' => 'osa', 'Os04g0412200' => 'osa', 'Os05g0443500' => 'osa', 'Os07g0251500' => 'osa', 'Os08g0104600' => 'osa', 'Peaxi162Scf00003g00047' => 'pax', 'Peaxi162Scf00003g00052' => 'pax', 'Peaxi162Scf00003g00394' => 'pax', 'Peaxi162Scf00091g00621' => 'pax', 'Peaxi162Scf00152g00146' => 'pax', 'Peaxi162Scf00173g00025' => 'pax', 'Peaxi162Scf00195g00102' => 'pax', 'Peaxi162Scf00402g00013' => 'pax', 'Peaxi162Scf00519g00618' => 'pax', 'PGR004G2838' => 'pgr', 'PGR044G2275' => 'pgr', 'PGR102G1377' => 'pgr', 'PGR119G1245' => 'pgr', 'PGR142G4449' => 'pgr', 'PGSC0003DMG400004532' => 'stu', 'PGSC0003DMG400011950' => 'stu', 'PGSC0003DMG400023391' => 'stu', 'PGSC0003DMG400023985' => 'stu', 'PGSC0003DMG400026360' => 'stu', 'PGSC0003DMG400035711' => 'stu', 'PGSC0003DMG400037286' => 'stu', 'PGSC0003DMG402005881' => 'stu', 'Phvul.002G045400' => 'pvu', 'Phvul.006G216600' => 'pvu', 'Phvul.006G216700' => 'pvu', 'Phvul.006G216800' => 'pvu', 'Phvul.007G022500' => 'pvu', 'Phvul.011G094400' => 'pvu', 'Potri.001G470700' => 'ptr', 'Potri.003G015200' => 'ptr', 'Potri.004G202500' => 'ptr', 'Potri.004G218400' => 'ptr', 'Potri.008G020100' => 'ptr', 'Potri.008G153200' => 'ptr', 'Potri.009G163800' => 'ptr', 'Potri.010G087300' => 'ptr', 'Potri.010G239100' => 'ptr', 'Pp3c10_16100' => 'ppa', 'Pp3c10_16880' => 'ppa', 'Pp3c16_6230' => 'ppa', 'Pp3c17_18910' => 'ppa', 'Pp3c3_22119' => 'ppa', 'Pp3c3_22140' => 'ppa', 'Pp3c4_8159' => 'ppa', 'Pp3c4_8171' => 'ppa', 'Pp3c4_8330' => 'ppa', 'PRCOL_00004098' => 'pco', 'Prupe.1G013900' => 'ppe', 'Prupe.1G226300' => 'ppe', 'Prupe.1G573600' => 'ppe', 'Prupe.6G130100' => 'ppe', 'Psat3g090040' => 'psa', 'Psat4g210440' => 'psa', 'Psat6g231040' => 'psa', 'Psat6g231080' => 'psa', 'Psat7g063000' => 'psa', 'Psat7g188000' => 'psa', 'Psat7g188040' => 'psa', 'PSO017G0206' => 'pso', 'PSO170G0501' => 'pso', 'PSO170G6422' => 'pso', 'PSO210G7739' => 'pso', 'PSO339G1808' => 'pso', 'PSO339G6135' => 'pso', 'PSO384G0010' => 'pso', 'PSO384G0964' => 'pso', 'PSO761G0050' => 'pso', 'PSO782G4085' => 'pso', 'QL01p012264' => 'qlo', 'QL02p099491' => 'qlo', 'QL03p033868' => 'qlo', 'QL04p046678' => 'qlo', 'QL06p002448' => 'qlo', 'RcHm_v2.0_Chr4g0416181' => 'rch', 'RcHm_v2.0_Chr5g0044701' => 'rch', 'RcHm_v2.0_Chr6g0265781' => 'rch', 'RcHm_v2.0_Chr7g0221031' => 'rch', 'Rhsim04G0202000' => 'rsi', 'Rhsim11G0127300' => 'rsi', 'Rhsim13G0111800' => 'rsi', 'Sabra01G0165600' => 'sbr', 'Sabra03G0008300' => 'sbr', 'Sabra04G0136900' => 'sbr', 'Sabra08G0013400' => 'sbr', 'Sabra08G0116800' => 'sbr', 'Sabra09G0128000' => 'sbr', 'Sabra10G0055500' => 'sbr', 'Sabra10G0073300' => 'sbr', 'SalBow3G0385' => 'sbo', 'SalBow3G1119' => 'sbo', 'SalBow3G2005' => 'sbo', 'SalBow6G2563' => 'sbo', 'SalBow6G6386' => 'sbo', 'Sc06g0008800' => 'sci', 'Sc07g0004950' => 'sci', 'Sc09g0005340' => 'sci', 'Sc13g0004410' => 'sci', 'Sc21g0007090' => 'sci', 'Sed0009285' => 'sed', 'Sed0017583' => 'sed', 'Sed0019699' => 'sed', 'Sed0023107' => 'sed', 'SEGI_10916' => 'sgi', 'SEGI_16217' => 'sgi', 'SEGI_19466' => 'sgi', 'SEGI_41115' => 'sgi', 'SGA_v2.0_scaffold111G31534' => 'sas', 'SGA_v2.0_scaffold22G09864' => 'sas', 'SGA_v2.0_scaffold338G49219' => 'sas', 'SGA_v2.0_scaffold92G28298' => 'sas', 'SMO119G0064' => 'smo', 'SMO223G0038' => 'smo', 'SMO347G0584' => 'smo', 'SMO351G0010' => 'smo', 'SMO356G0404' => 'smo', 'Solyc01g103920.3' => 'sly', 'Solyc04g009710.2' => 'sly', 'Solyc05g055280.2' => 'sly', 'Solyc10g044520.3' => 'sly', 'Solyc10g075160.1' => 'sly', 'Solyc11g006910.3' => 'sly', 'Solyc11g068430.3' => 'sly', 'Sopen01g046310' => 'spe', 'Sopen03g001200' => 'spe', 'Sopen04g004830' => 'spe', 'Sopen05g033720' => 'spe', 'Sopen06g030740' => 'spe', 'Sopen10g013090' => 'spe', 'Sopen10g027630' => 'spe', 'Sopen10g027640' => 'spe', 'Sopen11g002820' => 'spe', 'Sopen11g027140' => 'spe', 'Sp1g09680' => 'spa', 'Sp2g03630' => 'spa', 'Sp4g10320' => 'spa', 'Sp6g33400' => 'spa', 'Sp7g13030' => 'spa', 'TAR365G0317' => 'tar', 'TAR376G0979' => 'tar', 'TAR623G1665' => 'tar', 'TAR633G2373' => 'tar', 'TAR636G1400' => 'tar', 'THA.LOC104800529' => 'tha', 'THA.LOC104808547' => 'tha', 'THA.LOC104809615' => 'tha', 'THA.LOC104815724' => 'tha', 'THA.LOC104818480' => 'tha', 'THA.LOC104819179' => 'tha', 'THA.LOC104822270' => 'tha', 'THA.LOC104826425' => 'tha', 'Thecc.02G089700' => 'tca', 'Thecc.04G232300' => 'tca', 'Thecc.09G283400' => 'tca', 'Thhalv10009020m.g' => 'esa', 'Thhalv10015506m.g' => 'esa', 'Thhalv10017364m.g' => 'esa', 'Thhalv10023742m.g' => 'esa', 'Thhalv10026483m.g' => 'esa', 'TPR.G17232' => 'tpr', 'TPR.G2133' => 'tpr', 'TPR.G2498' => 'tpr', 'TPR.G31942' => 'tpr', 'TPR.G37877' => 'tpr', 'TPR.G4571' => 'tpr', 'TWI14G1113' => 'twi', 'TWI15G0426' => 'twi', 'TWI31G1005' => 'twi', 'TWI38G0513' => 'twi', 'TWI38G1484' => 'twi', 'TWI73G1098' => 'twi', 'unitig_26.g10519' => 'ugi', 'unitig_736.g22395' => 'ugi', 'unitig_747.g21234' => 'ugi', 'unitig_747.g21942' => 'ugi', 'vmacro14351' => 'vma', 'VMungo0540G0082' => 'vmu', 'VMungo0540G0405' => 'vmu', 'VMungo0540G1486' => 'vmu', 'VMungo0540G1692' => 'vmu', 'VMungo0720G2473' => 'vmu', 'VMungo1127G1562' => 'vmu', 'VMungo1215G1918' => 'vmu', 'Zm00001eb052650' => 'zma', 'Zm00001eb063710' => 'zma', 'Zm00001eb083950' => 'zma', 'Zm00001eb174420' => 'zma', 'Zm00001eb260140' => 'zma', 'Zm00001eb260150' => 'zma', 'Zm00001eb260160' => 'zma', 'Zm00001eb348290' => 'zma', 'Zm00001eb366870' => 'zma', 'Zm00001eb421930' => 'zma' ), 'gf_id' => 'HOM05D001025', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001025' ), 'data_identifier' => 'HOM05D001025', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001025', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '592', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p22650' => 'bna', 'A01p29720' => 'bna', 'A03p26560' => 'bna', 'A03p68820' => 'bna', 'A04p20980' => 'bna', 'A06p07730' => 'bna', 'A07p18260' => 'bna', 'A08p33710' => 'bna', 'A09p16970' => 'bna', 'A10p27490' => 'bna', 'Aa31LG1G17300' => 'aar', 'Aa31LG1G3910' => 'aar', 'Aa31LG2G9630' => 'aar', 'Aa31LG5G8360' => 'aar', 'Aa31LG9G2410' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4699' => 'aag', 'Actinidia23512' => 'ach', 'Actinidia37080' => 'ach', 'Ah.01g020380' => 'amhyb', 'Ah.08g215710' => 'amhyb', 'Ah.09g225110' => 'amhyb', 'Ah.10g036680' => 'amhyb', 'AL1G21940' => 'aly', 'AL2G15540' => 'aly', 'AL4G21520' => 'aly', 'AL7G40960' => 'aly', 'Aqoxy2G01191' => 'aox', 'Aqoxy2G03393' => 'aox', 'Aqoxy4G02775' => 'aox', 'Aqoxy6G00058' => 'aox', 'arahy.Tifrunner.gnm1.ann1.9X74H2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CW3FX9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R485W7' => 'arhy', 'AT1G10960' => 'ath', 'AT1G60950' => 'ath', 'AT2G27510' => 'ath', 'AT4G14890' => 'ath', 'AT5G10000' => 'ath', 'ATR0665G624' => 'atr', 'ATR0697G138' => 'atr', 'ATR0776G046' => 'atr', 'ATR1134G135' => 'atr', 'Atru.chr12.1025' => 'acertr', 'Atru.chr3.3241' => 'acertr', 'Atru.chr4.2460' => 'acertr', 'AUR62007427' => 'cqu', 'AUR62010960' => 'cqu', 'AUR62012201' => 'cqu', 'AUR62021470' => 'cqu', 'AUR62022834' => 'cqu', 'AUR62033635' => 'cqu', 'AUR62036186' => 'cqu', 'BcaB01g03077' => 'bca', 'BcaB02g10093' => 'bca', 'BcaB04g20295' => 'bca', 'BcaB06g28147' => 'bca', 'BcaB07g31253' => 'bca', 'BcaC01g04946' => 'bca', 'BcaC02g10614' => 'bca', 'BcaC02g10885' => 'bca', 'BcaC04g19356' => 'bca', 'BcaC04g22297' => 'bca', 'BcaC05g24977' => 'bca', 'BcaC06g31823' => 'bca', 'BcaC07g38633' => 'bca', 'BcaC09g49353' => 'bca', 'BcaC09g50168' => 'bca', 'BcaNung00322' => 'bca', 'BcaNung04769' => 'bca', 'BolC1t02753H' => 'bol', 'BolC1t03721H' => 'bol', 'BolC3t15525H' => 'bol', 'BolC4t23903H' => 'bol', 'BolC4t24231H' => 'bol', 'BolC4t27209H' => 'bol', 'BolC5t29671H' => 'bol', 'BolC8t49044H' => 'bol', 'BolC9t54999H' => 'bol', 'BolC9t59517H' => 'bol', 'BraA01t02178Z' => 'bra', 'BraA01t03099Z' => 'bra', 'BraA03t11867Z' => 'bra', 'BraA04t17667Z' => 'bra', 'BraA07t29542Z' => 'bra', 'BraA08t35287Z' => 'bra', 'BraA09t37334Z' => 'bra', 'BraA10t44801Z' => 'bra', 'BraSC39t46181Z' => 'bra', 'C01p28240' => 'bna', 'C01p37530' => 'bna', 'C03p31820' => 'bna', 'C04p24080' => 'bna', 'C04p25790' => 'bna', 'C04p56770' => 'bna', 'C05p09310' => 'bna', 'C09p21010' => 'bna', 'C09p67560' => 'bna', 'CAN.G1324.7' => 'can', 'CAN.G1358.10' => 'can', 'CAN.G1550.2' => 'can', 'CAN.G186.56' => 'can', 'CAN.G1965.1' => 'can', 'CAN.G645.15' => 'can', 'CAN.G798.26' => 'can', 'CAN.G798.27' => 'can', 'CAN.G798.29' => 'can', 'CAN.G919.31' => 'can', 'CANSAT11G0133' => 'cansat', 'CANSAT11G1171' => 'cansat', 'CANSAT11G2056' => 'cansat', 'CANSAT56G1202' => 'cansat', 'CANSAT56G1514' => 'cansat', 'CANSAT78G0455' => 'cansat', 'CARHR011190' => 'chi', 'CARHR051980' => 'chi', 'CARHR120170' => 'chi', 'CARHR203310' => 'chi', 'CARHR221490' => 'chi', 'Carub.0001s1054' => 'cru', 'Carub.0002s0431' => 'cru', 'Carub.0004s0818' => 'cru', 'Carub.0006s0846' => 'cru', 'Carub.0007s2722' => 'cru', 'Ca_00058_v3' => 'car', 'Ca_17831_v3' => 'car', 'Ca_19408_v3' => 'car', 'Ca_24397_v3' => 'car', 'Ca_25664_v3' => 'car', 'CBR_g21818' => 'cbr', 'CBR_g31195' => 'cbr', 'CBR_g32282' => 'cbr', 'CBR_g39599' => 'cbr', 'CBR_g49410' => 'cbr', 'Cc01_g09120' => 'ccan', 'Cc01_g09130' => 'ccan', 'Cc02_g09630' => 'ccan', 'Cc02_g22810' => 'ccan', 'Cc03_g03810' => 'ccan', 'CDE02G3718' => 'cde', 'CDE04G3183' => 'cde', 'CDE07G1046' => 'cde', 'CDE08G0480' => 'cde', 'Cfa005493' => 'cfa', 'Cfa010312' => 'cfa', 'Cfa015648' => 'cfa', 'Ciclev10002793m.g' => 'ccl', 'Ciclev10003356m.g' => 'ccl', 'Ciclev10006141m.g' => 'ccl', 'Ciclev10016676m.g' => 'ccl', 'Ciclev10017081m.g' => 'ccl', 'Ciclev10029499m.g' => 'ccl', 'CiPaw.01G166300' => 'cil', 'CiPaw.06G145600' => 'cil', 'CiPaw.13G040100' => 'cil', 'CiPaw.13G135800' => 'cil', 'ClCG01G012230' => 'cla', 'ClCG05G009510' => 'cla', 'ClCG08G008270' => 'cla', 'COL.COLO4_11763' => 'col', 'COL.COLO4_19876' => 'col', 'COL.COLO4_21481' => 'col', 'Cpa.g.sc118.34' => 'cpa', 'Cpa.g.sc32.13' => 'cpa', 'Cpa.g.sc58.103' => 'cpa', 'Cre03.g183850' => 'cre', 'Cre06.g306350' => 'cre', 'Cre07.g334800' => 'cre', 'Cre12.g487900' => 'cre', 'Cre14.g626700' => 'cre', 'Cre16.g658400' => 'cre', 'Cre17.g700950' => 'cre', 'CsaV3_1G014830' => 'csa', 'CsaV3_3G013320' => 'csa', 'CsaV3_3G019210' => 'csa', 'CsaV3_3G019220' => 'csa', 'CsaV3_6G004230' => 'csa', 'CSS0003773' => 'camsi', 'CSS0004563' => 'camsi', 'CSS0013949' => 'camsi', 'CSS0025971' => 'camsi', 'CSS0028570' => 'camsi', 'CSS0033127' => 'camsi', 'CSS0036051' => 'camsi', 'CSS0040087' => 'camsi', 'CSS0043179' => 'camsi', 'DCAR_006161' => 'dca', 'DCAR_010351' => 'dca', 'DCAR_012197' => 'dca', 'DCAR_024162' => 'dca', 'Dinv01030' => 'din', 'Dinv10924' => 'din', 'Dinv11835' => 'din', 'Dinv22841' => 'din', 'Dinv42553' => 'din', 'Duzib052G0560' => 'dzi', 'Duzib132G0389' => 'dzi', 'Duzib150G1181' => 'dzi', 'Duzib168G0623' => 'dzi', 'Duzib170G1036' => 'dzi', 'Duzib212G0200' => 'dzi', 'Duzib248G0194' => 'dzi', 'ECA232G2193' => 'eca', 'ECA233G0302' => 'eca', 'ECA234G2813' => 'eca', 'ECA234G4866' => 'eca', 'ECA240G3932' => 'eca', 'ECA248G0385' => 'eca', 'EL10Ac2g04781' => 'bvu', 'EL10Ac3g06445' => 'bvu', 'EL10Ac7g15825' => 'bvu', 'EL10Ac8g18550' => 'bvu', 'Eucgr.B03849' => 'egr', 'Eucgr.I02744' => 'egr', 'Eucgr.J00264' => 'egr', 'Eucgr.J00493' => 'egr', 'FAN04G2181' => 'fan', 'FAN07G2666' => 'fan', 'FAN11G0024' => 'fan', 'FAN12G1105' => 'fan', 'FAN13G0302' => 'fan', 'FAN15G2781' => 'fan', 'FAN16G1274' => 'fan', 'FAN17G2988' => 'fan', 'FAN18G2621' => 'fan', 'FAN21G0013' => 'fan', 'FAN22G1211' => 'fan', 'FAN25G3626' => 'fan', 'FvH4_2g09491' => 'fve', 'FvH4_3g24910' => 'fve', 'FvH4_4g15630' => 'fve', 'FvH4_5g28820' => 'fve', 'Glyma.01G238000' => 'gma', 'Glyma.05G168400' => 'gma', 'Glyma.08G126800' => 'gma', 'Glyma.08G188500' => 'gma', 'Glyma.10G278900' => 'gma', 'Glyma.11G005700' => 'gma', 'Glyma.11G183300' => 'gma', 'Glyma.12G089200' => 'gma', 'Glyma.12G169400' => 'gma', 'Glyma.12G169500' => 'gma', 'Glyma.12G169600' => 'gma', 'Glyma.20G110800' => 'gma', 'Gohir.A03G192900' => 'ghi', 'Gohir.A03G193000' => 'ghi', 'Gohir.A05G080700' => 'ghi', 'Gohir.A09G216000' => 'ghi', 'Gohir.A12G027700' => 'ghi', 'Gohir.A13G036200' => 'ghi', 'Gohir.A13G222600' => 'ghi', 'Gohir.D02G213900' => 'ghi', 'Gohir.D02G214000' => 'ghi', 'Gohir.D05G083700' => 'ghi', 'Gohir.D05G083800' => 'ghi', 'Gohir.D05G083850' => 'ghi', 'Gohir.D08G015400' => 'ghi', 'Gohir.D09G218400' => 'ghi', 'Gohir.D12G027100' => 'ghi', 'Gohir.D13G034500' => 'ghi', 'Gohir.D13G227400' => 'ghi', 'Gorai.005G241800' => 'gra', 'Gorai.005G241900' => 'gra', 'Gorai.006G239400' => 'gra', 'Gorai.008G027600' => 'gra', 'Gorai.009G085400' => 'gra', 'Gorai.009G085500' => 'gra', 'Gorai.013G039000' => 'gra', 'Gorai.013G194800' => 'gra', 'Gorai.013G257900' => 'gra', 'GSVIVG01000982001' => 'vvi', 'GSVIVG01017981001' => 'vvi', 'HanXRQChr01g0024061' => 'han', 'HanXRQChr09g0247831' => 'han', 'HanXRQChr10g0294611' => 'han', 'HanXRQChr10g0294621' => 'han', 'HanXRQChr11g0346821' => 'han', 'HanXRQChr13g0397461' => 'han', 'HanXRQChr16g0513651' => 'han', 'HanXRQChr16g0513701' => 'han', 'Haze_00897' => 'cav', 'Haze_01745' => 'cav', 'Haze_02486' => 'cav', 'Haze_02487' => 'cav', 'Haze_23374' => 'cav', 'Hma1.2p1_0578F.1_g182520' => 'hma', 'Hma1.2p1_0602F.1_g187350' => 'hma', 'Hma1.2p1_0602F.1_g187360' => 'hma', 'Hma1.2p1_0874F.1_g231320' => 'hma', 'Hma1.2p1_1197F.1_g266210' => 'hma', 'Hma1.2p1_1197F.1_g266220' => 'hma', 'Hma1.2p1_2167F.1_g315895' => 'hma', 'Hma1.2p1_2190F.1_g316640' => 'hma', 'Hma1.2p1_3645F.1_g337153' => 'hma', 'HPP92_004907' => 'vpl', 'HPP92_012134' => 'vpl', 'HPP92_025136' => 'vpl', 'HPP92_026087' => 'vpl', 'Hund06782' => 'sun', 'Hund06784' => 'sun', 'Lalb_Chr01g0004861' => 'lal', 'Lalb_Chr02g0140591' => 'lal', 'Lalb_Chr02g0140611' => 'lal', 'Lalb_Chr03g0028101' => 'lal', 'Lalb_Chr07g0185791' => 'lal', 'Lalb_Chr12g0204491' => 'lal', 'Lalb_Chr13g0295671' => 'lal', 'Lalb_Chr19g0136461' => 'lal', 'Lalb_Chr21g0309191' => 'lal', 'Lj1g0028158' => 'lja', 'Lj1P236T38' => 'lonja', 'Lj2C32G2' => 'lonja', 'Lj2P944T8' => 'lonja', 'Lj2P963T15' => 'lonja', 'Lj3g0011788' => 'lja', 'Lj4g0025027' => 'lja', 'Lj5P255T36' => 'lonja', 'Lj6g0018866' => 'lja', 'Lj6P608T31' => 'lonja', 'LjContig00408g0008879' => 'lja', 'Lsat_1_v5_gn_5_105820' => 'lsa', 'Lsat_1_v5_gn_6_38800' => 'lsa', 'Lsat_1_v5_gn_7_67141' => 'lsa', 'Manes.04G003400' => 'mes', 'Manes.07G020000' => 'mes', 'Manes.07G020100' => 'mes', 'Manes.07G020150' => 'mes', 'Manes.10G061500' => 'mes', 'Manes.10G123200' => 'mes', 'Manes.11G161900' => 'mes', 'Manes.15G029300' => 'mes', 'Mapoly0071s0018' => 'mpo', 'Mapoly0082s0023' => 'mpo', 'Mapoly3477s0001' => 'mpo', 'MBI05_g31233_MAGBIO' => 'mbi', 'MBI09_g05946_MAGBIO' => 'mbi', 'MBI09_g05947_MAGBIO' => 'mbi', 'MBI17_g08346_MAGBIO' => 'mbi', 'MCO04G038' => 'mco', 'MCO09G370' => 'mco', 'MCO13G605' => 'mco', 'MD00G1075500' => 'mdo', 'MD03G1144300' => 'mdo', 'MD08G1236800' => 'mdo', 'MD13G1193300' => 'mdo', 'MD15G1428700' => 'mdo', 'Medtr1g112030' => 'mtr', 'Medtr1g112050' => 'mtr', 'Medtr2g006290' => 'mtr', 'Medtr2g086510' => 'mtr', 'Medtr4g053120' => 'mtr', 'Medtr5g006320' => 'mtr', 'Medtr8g088720' => 'mtr', 'MELO3C004712.2' => 'cme', 'MELO3C006533.2' => 'cme', 'MELO3C019438.2' => 'cme', 'MELO3C019440.2' => 'cme', 'MELO3C019441.2' => 'cme', 'MELO3C019895.2' => 'cme', 'Migut.B00811' => 'egut', 'Migut.D02447' => 'egut', 'Migut.F00875' => 'egut', 'Migut.N00186' => 'egut', 'Migut.N01051' => 'egut', 'Migut.N02491' => 'egut', 'Migut.O00784' => 'egut', 'MSTRG.12367' => 'ama', 'MSTRG.18756' => 'ama', 'MSTRG.21042' => 'ama', 'Nitab4.5_0000559g0040' => 'nta', 'Nitab4.5_0000667g0190' => 'nta', 'Nitab4.5_0000755g0160' => 'nta', 'Nitab4.5_0001216g0080' => 'nta', 'Nitab4.5_0004069g0040' => 'nta', 'Nitab4.5_0004129g0010' => 'nta', 'Nitab4.5_0005744g0030' => 'nta', 'Nitab4.5_0006996g0030' => 'nta', 'Nitab4.5_0008971g0040' => 'nta', 'Nitab4.5_0009769g0020' => 'nta', 'Nitab4.5_0009833g0010' => 'nta', 'Nitab4.5_0013140g0020' => 'nta', 'Nn003s41376' => 'nnu', 'Nn1g01857' => 'nnu', 'Nn1g03611' => 'nnu', 'Nn1g06853' => 'nnu', 'Nn3g18360' => 'nnu', 'Nn4g26328' => 'nnu', 'Nn5g27531' => 'nnu', 'Nn6g34899' => 'nnu', 'Nn7g36299' => 'nnu', 'Oeu021485.1' => 'oeu', 'Oeu022433.1' => 'oeu', 'Oeu032111.1' => 'oeu', 'Oeu051608.1' => 'oeu', 'Os01g0860601' => 'osa', 'Os03g0659200' => 'osa', 'Os03g0835900' => 'osa', 'Os04g0412200' => 'osa', 'Os05g0443500' => 'osa', 'Os07g0251500' => 'osa', 'Os08g0104600' => 'osa', 'Peaxi162Scf00003g00047' => 'pax', 'Peaxi162Scf00003g00052' => 'pax', 'Peaxi162Scf00003g00394' => 'pax', 'Peaxi162Scf00091g00621' => 'pax', 'Peaxi162Scf00152g00146' => 'pax', 'Peaxi162Scf00173g00025' => 'pax', 'Peaxi162Scf00195g00102' => 'pax', 'Peaxi162Scf00402g00013' => 'pax', 'Peaxi162Scf00519g00618' => 'pax', 'PGR004G2838' => 'pgr', 'PGR044G2275' => 'pgr', 'PGR102G1377' => 'pgr', 'PGR119G1245' => 'pgr', 'PGR142G4449' => 'pgr', 'PGSC0003DMG400004532' => 'stu', 'PGSC0003DMG400011950' => 'stu', 'PGSC0003DMG400023391' => 'stu', 'PGSC0003DMG400023985' => 'stu', 'PGSC0003DMG400026360' => 'stu', 'PGSC0003DMG400035711' => 'stu', 'PGSC0003DMG400037286' => 'stu', 'PGSC0003DMG402005881' => 'stu', 'Phvul.002G045400' => 'pvu', 'Phvul.006G216600' => 'pvu', 'Phvul.006G216700' => 'pvu', 'Phvul.006G216800' => 'pvu', 'Phvul.007G022500' => 'pvu', 'Phvul.011G094400' => 'pvu', 'Potri.001G470700' => 'ptr', 'Potri.003G015200' => 'ptr', 'Potri.004G202500' => 'ptr', 'Potri.004G218400' => 'ptr', 'Potri.008G020100' => 'ptr', 'Potri.008G153200' => 'ptr', 'Potri.009G163800' => 'ptr', 'Potri.010G087300' => 'ptr', 'Potri.010G239100' => 'ptr', 'Pp3c10_16100' => 'ppa', 'Pp3c10_16880' => 'ppa', 'Pp3c16_6230' => 'ppa', 'Pp3c17_18910' => 'ppa', 'Pp3c3_22119' => 'ppa', 'Pp3c3_22140' => 'ppa', 'Pp3c4_8159' => 'ppa', 'Pp3c4_8171' => 'ppa', 'Pp3c4_8330' => 'ppa', 'PRCOL_00004098' => 'pco', 'Prupe.1G013900' => 'ppe', 'Prupe.1G226300' => 'ppe', 'Prupe.1G573600' => 'ppe', 'Prupe.6G130100' => 'ppe', 'Psat3g090040' => 'psa', 'Psat4g210440' => 'psa', 'Psat6g231040' => 'psa', 'Psat6g231080' => 'psa', 'Psat7g063000' => 'psa', 'Psat7g188000' => 'psa', 'Psat7g188040' => 'psa', 'PSO017G0206' => 'pso', 'PSO170G0501' => 'pso', 'PSO170G6422' => 'pso', 'PSO210G7739' => 'pso', 'PSO339G1808' => 'pso', 'PSO339G6135' => 'pso', 'PSO384G0010' => 'pso', 'PSO384G0964' => 'pso', 'PSO761G0050' => 'pso', 'PSO782G4085' => 'pso', 'QL01p012264' => 'qlo', 'QL02p099491' => 'qlo', 'QL03p033868' => 'qlo', 'QL04p046678' => 'qlo', 'QL06p002448' => 'qlo', 'RcHm_v2.0_Chr4g0416181' => 'rch', 'RcHm_v2.0_Chr5g0044701' => 'rch', 'RcHm_v2.0_Chr6g0265781' => 'rch', 'RcHm_v2.0_Chr7g0221031' => 'rch', 'Rhsim04G0202000' => 'rsi', 'Rhsim11G0127300' => 'rsi', 'Rhsim13G0111800' => 'rsi', 'Sabra01G0165600' => 'sbr', 'Sabra03G0008300' => 'sbr', 'Sabra04G0136900' => 'sbr', 'Sabra08G0013400' => 'sbr', 'Sabra08G0116800' => 'sbr', 'Sabra09G0128000' => 'sbr', 'Sabra10G0055500' => 'sbr', 'Sabra10G0073300' => 'sbr', 'SalBow3G0385' => 'sbo', 'SalBow3G1119' => 'sbo', 'SalBow3G2005' => 'sbo', 'SalBow6G2563' => 'sbo', 'SalBow6G6386' => 'sbo', 'Sc06g0008800' => 'sci', 'Sc07g0004950' => 'sci', 'Sc09g0005340' => 'sci', 'Sc13g0004410' => 'sci', 'Sc21g0007090' => 'sci', 'Sed0009285' => 'sed', 'Sed0017583' => 'sed', 'Sed0019699' => 'sed', 'Sed0023107' => 'sed', 'SEGI_10916' => 'sgi', 'SEGI_16217' => 'sgi', 'SEGI_19466' => 'sgi', 'SEGI_41115' => 'sgi', 'SGA_v2.0_scaffold111G31534' => 'sas', 'SGA_v2.0_scaffold22G09864' => 'sas', 'SGA_v2.0_scaffold338G49219' => 'sas', 'SGA_v2.0_scaffold92G28298' => 'sas', 'SMO119G0064' => 'smo', 'SMO223G0038' => 'smo', 'SMO347G0584' => 'smo', 'SMO351G0010' => 'smo', 'SMO356G0404' => 'smo', 'Solyc01g103920.3' => 'sly', 'Solyc04g009710.2' => 'sly', 'Solyc05g055280.2' => 'sly', 'Solyc10g044520.3' => 'sly', 'Solyc10g075160.1' => 'sly', 'Solyc11g006910.3' => 'sly', 'Solyc11g068430.3' => 'sly', 'Sopen01g046310' => 'spe', 'Sopen03g001200' => 'spe', 'Sopen04g004830' => 'spe', 'Sopen05g033720' => 'spe', 'Sopen06g030740' => 'spe', 'Sopen10g013090' => 'spe', 'Sopen10g027630' => 'spe', 'Sopen10g027640' => 'spe', 'Sopen11g002820' => 'spe', 'Sopen11g027140' => 'spe', 'Sp1g09680' => 'spa', 'Sp2g03630' => 'spa', 'Sp4g10320' => 'spa', 'Sp6g33400' => 'spa', 'Sp7g13030' => 'spa', 'TAR365G0317' => 'tar', 'TAR376G0979' => 'tar', 'TAR623G1665' => 'tar', 'TAR633G2373' => 'tar', 'TAR636G1400' => 'tar', 'THA.LOC104800529' => 'tha', 'THA.LOC104808547' => 'tha', 'THA.LOC104809615' => 'tha', 'THA.LOC104815724' => 'tha', 'THA.LOC104818480' => 'tha', 'THA.LOC104819179' => 'tha', 'THA.LOC104822270' => 'tha', 'THA.LOC104826425' => 'tha', 'Thecc.02G089700' => 'tca', 'Thecc.04G232300' => 'tca', 'Thecc.09G283400' => 'tca', 'Thhalv10009020m.g' => 'esa', 'Thhalv10015506m.g' => 'esa', 'Thhalv10017364m.g' => 'esa', 'Thhalv10023742m.g' => 'esa', 'Thhalv10026483m.g' => 'esa', 'TPR.G17232' => 'tpr', 'TPR.G2133' => 'tpr', 'TPR.G2498' => 'tpr', 'TPR.G31942' => 'tpr', 'TPR.G37877' => 'tpr', 'TPR.G4571' => 'tpr', 'TWI14G1113' => 'twi', 'TWI15G0426' => 'twi', 'TWI31G1005' => 'twi', 'TWI38G0513' => 'twi', 'TWI38G1484' => 'twi', 'TWI73G1098' => 'twi', 'unitig_26.g10519' => 'ugi', 'unitig_736.g22395' => 'ugi', 'unitig_747.g21234' => 'ugi', 'unitig_747.g21942' => 'ugi', 'vmacro14351' => 'vma', 'VMungo0540G0082' => 'vmu', 'VMungo0540G0405' => 'vmu', 'VMungo0540G1486' => 'vmu', 'VMungo0540G1692' => 'vmu', 'VMungo0720G2473' => 'vmu', 'VMungo1127G1562' => 'vmu', 'VMungo1215G1918' => 'vmu', 'Zm00001eb052650' => 'zma', 'Zm00001eb063710' => 'zma', 'Zm00001eb083950' => 'zma', 'Zm00001eb174420' => 'zma', 'Zm00001eb260140' => 'zma', 'Zm00001eb260150' => 'zma', 'Zm00001eb260160' => 'zma', 'Zm00001eb348290' => 'zma', 'Zm00001eb366870' => 'zma', 'Zm00001eb421930' => 'zma' ) $gf_id = 'HOM05D001025' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001025' ) $data_identifier = 'HOM05D001025' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 19, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 2, 'amhyb' => (int) 4, 'aly' => (int) 4, 'aox' => (int) 4, 'arhy' => (int) 3, 'ath' => (int) 5, 'atr' => (int) 4, 'acertr' => (int) 3, 'cqu' => (int) 7, 'bca' => (int) 17, 'bol' => (int) 10, 'bra' => (int) 9, 'can' => (int) 10, 'cansat' => (int) 6, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 5, 'cbr' => (int) 5, 'ccan' => (int) 5, 'cde' => (int) 4, 'cfa' => (int) 3, 'ccl' => (int) 6, 'cil' => (int) 4, 'cla' => (int) 3, 'col' => (int) 3, 'cpa' => (int) 3, 'cre' => (int) 7, 'csa' => (int) 5, 'camsi' => (int) 9, 'dca' => (int) 4, 'din' => (int) 5, 'dzi' => (int) 7, 'eca' => (int) 6, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 12, 'fve' => (int) 4, 'gma' => (int) 12, 'ghi' => (int) 17, 'gra' => (int) 9, 'vvi' => (int) 2, 'han' => (int) 8, 'cav' => (int) 5, 'hma' => (int) 9, 'vpl' => (int) 4, 'sun' => (int) 2, 'lal' => (int) 9, 'lja' => (int) 5, 'lonja' => (int) 6, 'lsa' => (int) 3, 'mes' => (int) 8, 'mpo' => (int) 3, 'mbi' => (int) 4, 'mco' => (int) 3, 'mdo' => (int) 5, 'mtr' => (int) 7, 'cme' => (int) 6, 'egut' => (int) 7, 'ama' => (int) 3, 'nta' => (int) 12, 'nnu' => (int) 9, 'oeu' => (int) 4, 'osa' => (int) 7, 'pax' => (int) 9, 'pgr' => (int) 5, 'stu' => (int) 8, 'pvu' => (int) 6, 'ptr' => (int) 9, 'ppa' => (int) 9, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 7, 'pso' => (int) 10, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 3, 'sbr' => (int) 8, 'sbo' => (int) 5, 'sci' => (int) 5, 'sed' => (int) 4, 'sgi' => (int) 4, 'sas' => (int) 4, 'smo' => (int) 5, 'sly' => (int) 7, 'spe' => (int) 10, 'spa' => (int) 5, 'tar' => (int) 5, 'tha' => (int) 8, 'tca' => (int) 3, 'esa' => (int) 5, 'tpr' => (int) 6, 'twi' => (int) 6, 'ugi' => (int) 4, 'vma' => (int) 1, 'vmu' => (int) 7, 'zma' => (int) 10 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb421930' $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' => 'HOM05D001025', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '592', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p22650' => 'bna', 'A01p29720' => 'bna', 'A03p26560' => 'bna', 'A03p68820' => 'bna', 'A04p20980' => 'bna', 'A06p07730' => 'bna', 'A07p18260' => 'bna', 'A08p33710' => 'bna', 'A09p16970' => 'bna', 'A10p27490' => 'bna', 'Aa31LG1G17300' => 'aar', 'Aa31LG1G3910' => 'aar', 'Aa31LG2G9630' => 'aar', 'Aa31LG5G8360' => 'aar', 'Aa31LG9G2410' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4699' => 'aag', 'Actinidia23512' => 'ach', 'Actinidia37080' => 'ach', 'Ah.01g020380' => 'amhyb', 'Ah.08g215710' => 'amhyb', 'Ah.09g225110' => 'amhyb', 'Ah.10g036680' => 'amhyb', 'AL1G21940' => 'aly', 'AL2G15540' => 'aly', 'AL4G21520' => 'aly', 'AL7G40960' => 'aly', 'Aqoxy2G01191' => 'aox', 'Aqoxy2G03393' => 'aox', 'Aqoxy4G02775' => 'aox', 'Aqoxy6G00058' => 'aox', 'arahy.Tifrunner.gnm1.ann1.9X74H2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CW3FX9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R485W7' => 'arhy', 'AT1G10960' => 'ath', 'AT1G60950' => 'ath', 'AT2G27510' => 'ath', 'AT4G14890' => 'ath', 'AT5G10000' => 'ath', 'ATR0665G624' => 'atr', 'ATR0697G138' => 'atr', 'ATR0776G046' => 'atr', 'ATR1134G135' => 'atr', 'Atru.chr12.1025' => 'acertr', 'Atru.chr3.3241' => 'acertr', 'Atru.chr4.2460' => 'acertr', 'AUR62007427' => 'cqu', 'AUR62010960' => 'cqu', 'AUR62012201' => 'cqu', 'AUR62021470' => 'cqu', 'AUR62022834' => 'cqu', 'AUR62033635' => 'cqu', 'AUR62036186' => 'cqu', 'BcaB01g03077' => 'bca', 'BcaB02g10093' => 'bca', 'BcaB04g20295' => 'bca', 'BcaB06g28147' => 'bca', 'BcaB07g31253' => 'bca', 'BcaC01g04946' => 'bca', 'BcaC02g10614' => 'bca', 'BcaC02g10885' => 'bca', 'BcaC04g19356' => 'bca', 'BcaC04g22297' => 'bca', 'BcaC05g24977' => 'bca', 'BcaC06g31823' => 'bca', 'BcaC07g38633' => 'bca', 'BcaC09g49353' => 'bca', 'BcaC09g50168' => 'bca', 'BcaNung00322' => 'bca', 'BcaNung04769' => 'bca', 'BolC1t02753H' => 'bol', 'BolC1t03721H' => 'bol', 'BolC3t15525H' => 'bol', 'BolC4t23903H' => 'bol', 'BolC4t24231H' => 'bol', 'BolC4t27209H' => 'bol', 'BolC5t29671H' => 'bol', 'BolC8t49044H' => 'bol', 'BolC9t54999H' => 'bol', 'BolC9t59517H' => 'bol', 'BraA01t02178Z' => 'bra', 'BraA01t03099Z' => 'bra', 'BraA03t11867Z' => 'bra', 'BraA04t17667Z' => 'bra', 'BraA07t29542Z' => 'bra', 'BraA08t35287Z' => 'bra', 'BraA09t37334Z' => 'bra', 'BraA10t44801Z' => 'bra', 'BraSC39t46181Z' => 'bra', 'C01p28240' => 'bna', 'C01p37530' => 'bna', 'C03p31820' => 'bna', 'C04p24080' => 'bna', 'C04p25790' => 'bna', 'C04p56770' => 'bna', 'C05p09310' => 'bna', 'C09p21010' => 'bna', 'C09p67560' => 'bna', 'CAN.G1324.7' => 'can', 'CAN.G1358.10' => 'can', 'CAN.G1550.2' => 'can', 'CAN.G186.56' => 'can', 'CAN.G1965.1' => 'can', 'CAN.G645.15' => 'can', 'CAN.G798.26' => 'can', 'CAN.G798.27' => 'can', 'CAN.G798.29' => 'can', 'CAN.G919.31' => 'can', 'CANSAT11G0133' => 'cansat', 'CANSAT11G1171' => 'cansat', 'CANSAT11G2056' => 'cansat', 'CANSAT56G1202' => 'cansat', 'CANSAT56G1514' => 'cansat', 'CANSAT78G0455' => 'cansat', 'CARHR011190' => 'chi', 'CARHR051980' => 'chi', 'CARHR120170' => 'chi', 'CARHR203310' => 'chi', 'CARHR221490' => 'chi', 'Carub.0001s1054' => 'cru', 'Carub.0002s0431' => 'cru', 'Carub.0004s0818' => 'cru', 'Carub.0006s0846' => 'cru', 'Carub.0007s2722' => 'cru', 'Ca_00058_v3' => 'car', 'Ca_17831_v3' => 'car', 'Ca_19408_v3' => 'car', 'Ca_24397_v3' => 'car', 'Ca_25664_v3' => 'car', 'CBR_g21818' => 'cbr', 'CBR_g31195' => 'cbr', 'CBR_g32282' => 'cbr', 'CBR_g39599' => 'cbr', 'CBR_g49410' => 'cbr', 'Cc01_g09120' => 'ccan', 'Cc01_g09130' => 'ccan', 'Cc02_g09630' => 'ccan', 'Cc02_g22810' => 'ccan', 'Cc03_g03810' => 'ccan', 'CDE02G3718' => 'cde', 'CDE04G3183' => 'cde', 'CDE07G1046' => 'cde', 'CDE08G0480' => 'cde', 'Cfa005493' => 'cfa', 'Cfa010312' => 'cfa', 'Cfa015648' => 'cfa', 'Ciclev10002793m.g' => 'ccl', 'Ciclev10003356m.g' => 'ccl', 'Ciclev10006141m.g' => 'ccl', 'Ciclev10016676m.g' => 'ccl', 'Ciclev10017081m.g' => 'ccl', 'Ciclev10029499m.g' => 'ccl', 'CiPaw.01G166300' => 'cil', 'CiPaw.06G145600' => 'cil', 'CiPaw.13G040100' => 'cil', 'CiPaw.13G135800' => 'cil', 'ClCG01G012230' => 'cla', 'ClCG05G009510' => 'cla', 'ClCG08G008270' => 'cla', 'COL.COLO4_11763' => 'col', 'COL.COLO4_19876' => 'col', 'COL.COLO4_21481' => 'col', 'Cpa.g.sc118.34' => 'cpa', 'Cpa.g.sc32.13' => 'cpa', 'Cpa.g.sc58.103' => 'cpa', 'Cre03.g183850' => 'cre', 'Cre06.g306350' => 'cre', 'Cre07.g334800' => 'cre', 'Cre12.g487900' => 'cre', 'Cre14.g626700' => 'cre', 'Cre16.g658400' => 'cre', 'Cre17.g700950' => 'cre', 'CsaV3_1G014830' => 'csa', 'CsaV3_3G013320' => 'csa', 'CsaV3_3G019210' => 'csa', 'CsaV3_3G019220' => 'csa', 'CsaV3_6G004230' => 'csa', 'CSS0003773' => 'camsi', 'CSS0004563' => 'camsi', 'CSS0013949' => 'camsi', 'CSS0025971' => 'camsi', 'CSS0028570' => 'camsi', 'CSS0033127' => 'camsi', 'CSS0036051' => 'camsi', 'CSS0040087' => 'camsi', 'CSS0043179' => 'camsi', 'DCAR_006161' => 'dca', 'DCAR_010351' => 'dca', 'DCAR_012197' => 'dca', 'DCAR_024162' => 'dca', 'Dinv01030' => 'din', 'Dinv10924' => 'din', 'Dinv11835' => 'din', 'Dinv22841' => 'din', 'Dinv42553' => 'din', 'Duzib052G0560' => 'dzi', 'Duzib132G0389' => 'dzi', 'Duzib150G1181' => 'dzi', 'Duzib168G0623' => 'dzi', 'Duzib170G1036' => 'dzi', 'Duzib212G0200' => 'dzi', 'Duzib248G0194' => 'dzi', 'ECA232G2193' => 'eca', 'ECA233G0302' => 'eca', 'ECA234G2813' => 'eca', 'ECA234G4866' => 'eca', 'ECA240G3932' => 'eca', 'ECA248G0385' => 'eca', 'EL10Ac2g04781' => 'bvu', 'EL10Ac3g06445' => 'bvu', 'EL10Ac7g15825' => 'bvu', 'EL10Ac8g18550' => 'bvu', 'Eucgr.B03849' => 'egr', 'Eucgr.I02744' => 'egr', 'Eucgr.J00264' => 'egr', 'Eucgr.J00493' => 'egr', 'FAN04G2181' => 'fan', 'FAN07G2666' => 'fan', 'FAN11G0024' => 'fan', 'FAN12G1105' => 'fan', 'FAN13G0302' => 'fan', 'FAN15G2781' => 'fan', 'FAN16G1274' => 'fan', 'FAN17G2988' => 'fan', 'FAN18G2621' => 'fan', 'FAN21G0013' => 'fan', 'FAN22G1211' => 'fan', 'FAN25G3626' => 'fan', 'FvH4_2g09491' => 'fve', 'FvH4_3g24910' => 'fve', 'FvH4_4g15630' => 'fve', 'FvH4_5g28820' => 'fve', 'Glyma.01G238000' => 'gma', 'Glyma.05G168400' => 'gma', 'Glyma.08G126800' => 'gma', 'Glyma.08G188500' => 'gma', 'Glyma.10G278900' => 'gma', 'Glyma.11G005700' => 'gma', 'Glyma.11G183300' => 'gma', 'Glyma.12G089200' => 'gma', 'Glyma.12G169400' => 'gma', 'Glyma.12G169500' => 'gma', 'Glyma.12G169600' => 'gma', 'Glyma.20G110800' => 'gma', 'Gohir.A03G192900' => 'ghi', 'Gohir.A03G193000' => 'ghi', 'Gohir.A05G080700' => 'ghi', 'Gohir.A09G216000' => 'ghi', 'Gohir.A12G027700' => 'ghi', 'Gohir.A13G036200' => 'ghi', 'Gohir.A13G222600' => 'ghi', 'Gohir.D02G213900' => 'ghi', 'Gohir.D02G214000' => 'ghi', 'Gohir.D05G083700' => 'ghi', 'Gohir.D05G083800' => 'ghi', 'Gohir.D05G083850' => 'ghi', 'Gohir.D08G015400' => 'ghi', 'Gohir.D09G218400' => 'ghi', 'Gohir.D12G027100' => 'ghi', 'Gohir.D13G034500' => 'ghi', 'Gohir.D13G227400' => 'ghi', 'Gorai.005G241800' => 'gra', 'Gorai.005G241900' => 'gra', 'Gorai.006G239400' => 'gra', 'Gorai.008G027600' => 'gra', 'Gorai.009G085400' => 'gra', 'Gorai.009G085500' => 'gra', 'Gorai.013G039000' => 'gra', 'Gorai.013G194800' => 'gra', 'Gorai.013G257900' => 'gra', 'GSVIVG01000982001' => 'vvi', 'GSVIVG01017981001' => 'vvi', 'HanXRQChr01g0024061' => 'han', 'HanXRQChr09g0247831' => 'han', 'HanXRQChr10g0294611' => 'han', 'HanXRQChr10g0294621' => 'han', 'HanXRQChr11g0346821' => 'han', 'HanXRQChr13g0397461' => 'han', 'HanXRQChr16g0513651' => 'han', 'HanXRQChr16g0513701' => 'han', 'Haze_00897' => 'cav', 'Haze_01745' => 'cav', 'Haze_02486' => 'cav', 'Haze_02487' => 'cav', 'Haze_23374' => 'cav', 'Hma1.2p1_0578F.1_g182520' => 'hma', 'Hma1.2p1_0602F.1_g187350' => 'hma', 'Hma1.2p1_0602F.1_g187360' => 'hma', 'Hma1.2p1_0874F.1_g231320' => 'hma', 'Hma1.2p1_1197F.1_g266210' => 'hma', 'Hma1.2p1_1197F.1_g266220' => 'hma', 'Hma1.2p1_2167F.1_g315895' => 'hma', 'Hma1.2p1_2190F.1_g316640' => 'hma', 'Hma1.2p1_3645F.1_g337153' => 'hma', 'HPP92_004907' => 'vpl', 'HPP92_012134' => 'vpl', 'HPP92_025136' => 'vpl', 'HPP92_026087' => 'vpl', 'Hund06782' => 'sun', 'Hund06784' => 'sun', 'Lalb_Chr01g0004861' => 'lal', 'Lalb_Chr02g0140591' => 'lal', 'Lalb_Chr02g0140611' => 'lal', 'Lalb_Chr03g0028101' => 'lal', 'Lalb_Chr07g0185791' => 'lal', 'Lalb_Chr12g0204491' => 'lal', 'Lalb_Chr13g0295671' => 'lal', 'Lalb_Chr19g0136461' => 'lal', 'Lalb_Chr21g0309191' => 'lal', 'Lj1g0028158' => 'lja', 'Lj1P236T38' => 'lonja', 'Lj2C32G2' => 'lonja', 'Lj2P944T8' => 'lonja', 'Lj2P963T15' => 'lonja', 'Lj3g0011788' => 'lja', 'Lj4g0025027' => 'lja', 'Lj5P255T36' => 'lonja', 'Lj6g0018866' => 'lja', 'Lj6P608T31' => 'lonja', 'LjContig00408g0008879' => 'lja', 'Lsat_1_v5_gn_5_105820' => 'lsa', 'Lsat_1_v5_gn_6_38800' => 'lsa', 'Lsat_1_v5_gn_7_67141' => 'lsa', 'Manes.04G003400' => 'mes', 'Manes.07G020000' => 'mes', 'Manes.07G020100' => 'mes', 'Manes.07G020150' => 'mes', 'Manes.10G061500' => 'mes', 'Manes.10G123200' => 'mes', 'Manes.11G161900' => 'mes', 'Manes.15G029300' => 'mes', 'Mapoly0071s0018' => 'mpo', 'Mapoly0082s0023' => 'mpo', 'Mapoly3477s0001' => 'mpo', 'MBI05_g31233_MAGBIO' => 'mbi', 'MBI09_g05946_MAGBIO' => 'mbi', 'MBI09_g05947_MAGBIO' => 'mbi', 'MBI17_g08346_MAGBIO' => 'mbi', 'MCO04G038' => 'mco', 'MCO09G370' => 'mco', 'MCO13G605' => 'mco', 'MD00G1075500' => 'mdo', 'MD03G1144300' => 'mdo', 'MD08G1236800' => 'mdo', 'MD13G1193300' => 'mdo', 'MD15G1428700' => 'mdo', 'Medtr1g112030' => 'mtr', 'Medtr1g112050' => 'mtr', 'Medtr2g006290' => 'mtr', 'Medtr2g086510' => 'mtr', 'Medtr4g053120' => 'mtr', 'Medtr5g006320' => 'mtr', 'Medtr8g088720' => 'mtr', 'MELO3C004712.2' => 'cme', 'MELO3C006533.2' => 'cme', 'MELO3C019438.2' => 'cme', 'MELO3C019440.2' => 'cme', 'MELO3C019441.2' => 'cme', 'MELO3C019895.2' => 'cme', 'Migut.B00811' => 'egut', 'Migut.D02447' => 'egut', 'Migut.F00875' => 'egut', 'Migut.N00186' => 'egut', 'Migut.N01051' => 'egut', 'Migut.N02491' => 'egut', 'Migut.O00784' => 'egut', 'MSTRG.12367' => 'ama', 'MSTRG.18756' => 'ama', 'MSTRG.21042' => 'ama', 'Nitab4.5_0000559g0040' => 'nta', 'Nitab4.5_0000667g0190' => 'nta', 'Nitab4.5_0000755g0160' => 'nta', 'Nitab4.5_0001216g0080' => 'nta', 'Nitab4.5_0004069g0040' => 'nta', 'Nitab4.5_0004129g0010' => 'nta', 'Nitab4.5_0005744g0030' => 'nta', 'Nitab4.5_0006996g0030' => 'nta', 'Nitab4.5_0008971g0040' => 'nta', 'Nitab4.5_0009769g0020' => 'nta', 'Nitab4.5_0009833g0010' => 'nta', 'Nitab4.5_0013140g0020' => 'nta', 'Nn003s41376' => 'nnu', 'Nn1g01857' => 'nnu', 'Nn1g03611' => 'nnu', 'Nn1g06853' => 'nnu', 'Nn3g18360' => 'nnu', 'Nn4g26328' => 'nnu', 'Nn5g27531' => 'nnu', 'Nn6g34899' => 'nnu', 'Nn7g36299' => 'nnu', 'Oeu021485.1' => 'oeu', 'Oeu022433.1' => 'oeu', 'Oeu032111.1' => 'oeu', 'Oeu051608.1' => 'oeu', 'Os01g0860601' => 'osa', 'Os03g0659200' => 'osa', 'Os03g0835900' => 'osa', 'Os04g0412200' => 'osa', 'Os05g0443500' => 'osa', 'Os07g0251500' => 'osa', 'Os08g0104600' => 'osa', 'Peaxi162Scf00003g00047' => 'pax', 'Peaxi162Scf00003g00052' => 'pax', 'Peaxi162Scf00003g00394' => 'pax', 'Peaxi162Scf00091g00621' => 'pax', 'Peaxi162Scf00152g00146' => 'pax', 'Peaxi162Scf00173g00025' => 'pax', 'Peaxi162Scf00195g00102' => 'pax', 'Peaxi162Scf00402g00013' => 'pax', 'Peaxi162Scf00519g00618' => 'pax', 'PGR004G2838' => 'pgr', 'PGR044G2275' => 'pgr', 'PGR102G1377' => 'pgr', 'PGR119G1245' => 'pgr', 'PGR142G4449' => 'pgr', 'PGSC0003DMG400004532' => 'stu', 'PGSC0003DMG400011950' => 'stu', 'PGSC0003DMG400023391' => 'stu', 'PGSC0003DMG400023985' => 'stu', 'PGSC0003DMG400026360' => 'stu', 'PGSC0003DMG400035711' => 'stu', 'PGSC0003DMG400037286' => 'stu', 'PGSC0003DMG402005881' => 'stu', 'Phvul.002G045400' => 'pvu', 'Phvul.006G216600' => 'pvu', 'Phvul.006G216700' => 'pvu', 'Phvul.006G216800' => 'pvu', 'Phvul.007G022500' => 'pvu', 'Phvul.011G094400' => 'pvu', 'Potri.001G470700' => 'ptr', 'Potri.003G015200' => 'ptr', 'Potri.004G202500' => 'ptr', 'Potri.004G218400' => 'ptr', 'Potri.008G020100' => 'ptr', 'Potri.008G153200' => 'ptr', 'Potri.009G163800' => 'ptr', 'Potri.010G087300' => 'ptr', 'Potri.010G239100' => 'ptr', 'Pp3c10_16100' => 'ppa', 'Pp3c10_16880' => 'ppa', 'Pp3c16_6230' => 'ppa', 'Pp3c17_18910' => 'ppa', 'Pp3c3_22119' => 'ppa', 'Pp3c3_22140' => 'ppa', 'Pp3c4_8159' => 'ppa', 'Pp3c4_8171' => 'ppa', 'Pp3c4_8330' => 'ppa', 'PRCOL_00004098' => 'pco', 'Prupe.1G013900' => 'ppe', 'Prupe.1G226300' => 'ppe', 'Prupe.1G573600' => 'ppe', 'Prupe.6G130100' => 'ppe', 'Psat3g090040' => 'psa', 'Psat4g210440' => 'psa', 'Psat6g231040' => 'psa', 'Psat6g231080' => 'psa', 'Psat7g063000' => 'psa', 'Psat7g188000' => 'psa', 'Psat7g188040' => 'psa', 'PSO017G0206' => 'pso', 'PSO170G0501' => 'pso', 'PSO170G6422' => 'pso', 'PSO210G7739' => 'pso', 'PSO339G1808' => 'pso', 'PSO339G6135' => 'pso', 'PSO384G0010' => 'pso', 'PSO384G0964' => 'pso', 'PSO761G0050' => 'pso', 'PSO782G4085' => 'pso', 'QL01p012264' => 'qlo', 'QL02p099491' => 'qlo', 'QL03p033868' => 'qlo', 'QL04p046678' => 'qlo', 'QL06p002448' => 'qlo', 'RcHm_v2.0_Chr4g0416181' => 'rch', 'RcHm_v2.0_Chr5g0044701' => 'rch', 'RcHm_v2.0_Chr6g0265781' => 'rch', 'RcHm_v2.0_Chr7g0221031' => 'rch', 'Rhsim04G0202000' => 'rsi', 'Rhsim11G0127300' => 'rsi', 'Rhsim13G0111800' => 'rsi', 'Sabra01G0165600' => 'sbr', 'Sabra03G0008300' => 'sbr', 'Sabra04G0136900' => 'sbr', 'Sabra08G0013400' => 'sbr', 'Sabra08G0116800' => 'sbr', 'Sabra09G0128000' => 'sbr', 'Sabra10G0055500' => 'sbr', 'Sabra10G0073300' => 'sbr', 'SalBow3G0385' => 'sbo', 'SalBow3G1119' => 'sbo', 'SalBow3G2005' => 'sbo', 'SalBow6G2563' => 'sbo', 'SalBow6G6386' => 'sbo', 'Sc06g0008800' => 'sci', 'Sc07g0004950' => 'sci', 'Sc09g0005340' => 'sci', 'Sc13g0004410' => 'sci', 'Sc21g0007090' => 'sci', 'Sed0009285' => 'sed', 'Sed0017583' => 'sed', 'Sed0019699' => 'sed', 'Sed0023107' => 'sed', 'SEGI_10916' => 'sgi', 'SEGI_16217' => 'sgi', 'SEGI_19466' => 'sgi', 'SEGI_41115' => 'sgi', 'SGA_v2.0_scaffold111G31534' => 'sas', 'SGA_v2.0_scaffold22G09864' => 'sas', 'SGA_v2.0_scaffold338G49219' => 'sas', 'SGA_v2.0_scaffold92G28298' => 'sas', 'SMO119G0064' => 'smo', 'SMO223G0038' => 'smo', 'SMO347G0584' => 'smo', 'SMO351G0010' => 'smo', 'SMO356G0404' => 'smo', 'Solyc01g103920.3' => 'sly', 'Solyc04g009710.2' => 'sly', 'Solyc05g055280.2' => 'sly', 'Solyc10g044520.3' => 'sly', 'Solyc10g075160.1' => 'sly', 'Solyc11g006910.3' => 'sly', 'Solyc11g068430.3' => 'sly', 'Sopen01g046310' => 'spe', 'Sopen03g001200' => 'spe', 'Sopen04g004830' => 'spe', 'Sopen05g033720' => 'spe', 'Sopen06g030740' => 'spe', 'Sopen10g013090' => 'spe', 'Sopen10g027630' => 'spe', 'Sopen10g027640' => 'spe', 'Sopen11g002820' => 'spe', 'Sopen11g027140' => 'spe', 'Sp1g09680' => 'spa', 'Sp2g03630' => 'spa', 'Sp4g10320' => 'spa', 'Sp6g33400' => 'spa', 'Sp7g13030' => 'spa', 'TAR365G0317' => 'tar', 'TAR376G0979' => 'tar', 'TAR623G1665' => 'tar', 'TAR633G2373' => 'tar', 'TAR636G1400' => 'tar', 'THA.LOC104800529' => 'tha', 'THA.LOC104808547' => 'tha', 'THA.LOC104809615' => 'tha', 'THA.LOC104815724' => 'tha', 'THA.LOC104818480' => 'tha', 'THA.LOC104819179' => 'tha', 'THA.LOC104822270' => 'tha', 'THA.LOC104826425' => 'tha', 'Thecc.02G089700' => 'tca', 'Thecc.04G232300' => 'tca', 'Thecc.09G283400' => 'tca', 'Thhalv10009020m.g' => 'esa', 'Thhalv10015506m.g' => 'esa', 'Thhalv10017364m.g' => 'esa', 'Thhalv10023742m.g' => 'esa', 'Thhalv10026483m.g' => 'esa', 'TPR.G17232' => 'tpr', 'TPR.G2133' => 'tpr', 'TPR.G2498' => 'tpr', 'TPR.G31942' => 'tpr', 'TPR.G37877' => 'tpr', 'TPR.G4571' => 'tpr', 'TWI14G1113' => 'twi', 'TWI15G0426' => 'twi', 'TWI31G1005' => 'twi', 'TWI38G0513' => 'twi', 'TWI38G1484' => 'twi', 'TWI73G1098' => 'twi', 'unitig_26.g10519' => 'ugi', 'unitig_736.g22395' => 'ugi', 'unitig_747.g21234' => 'ugi', 'unitig_747.g21942' => 'ugi', 'vmacro14351' => 'vma', 'VMungo0540G0082' => 'vmu', 'VMungo0540G0405' => 'vmu', 'VMungo0540G1486' => 'vmu', 'VMungo0540G1692' => 'vmu', 'VMungo0720G2473' => 'vmu', 'VMungo1127G1562' => 'vmu', 'VMungo1215G1918' => 'vmu', 'Zm00001eb052650' => 'zma', 'Zm00001eb063710' => 'zma', 'Zm00001eb083950' => 'zma', 'Zm00001eb174420' => 'zma', 'Zm00001eb260140' => 'zma', 'Zm00001eb260150' => 'zma', 'Zm00001eb260160' => 'zma', 'Zm00001eb348290' => 'zma', 'Zm00001eb366870' => 'zma', 'Zm00001eb421930' => 'zma' ), 'gf_id' => 'HOM05D001025', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001025' ), 'data_identifier' => 'HOM05D001025', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001025', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '592', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p22650' => 'bna', 'A01p29720' => 'bna', 'A03p26560' => 'bna', 'A03p68820' => 'bna', 'A04p20980' => 'bna', 'A06p07730' => 'bna', 'A07p18260' => 'bna', 'A08p33710' => 'bna', 'A09p16970' => 'bna', 'A10p27490' => 'bna', 'Aa31LG1G17300' => 'aar', 'Aa31LG1G3910' => 'aar', 'Aa31LG2G9630' => 'aar', 'Aa31LG5G8360' => 'aar', 'Aa31LG9G2410' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4699' => 'aag', 'Actinidia23512' => 'ach', 'Actinidia37080' => 'ach', 'Ah.01g020380' => 'amhyb', 'Ah.08g215710' => 'amhyb', 'Ah.09g225110' => 'amhyb', 'Ah.10g036680' => 'amhyb', 'AL1G21940' => 'aly', 'AL2G15540' => 'aly', 'AL4G21520' => 'aly', 'AL7G40960' => 'aly', 'Aqoxy2G01191' => 'aox', 'Aqoxy2G03393' => 'aox', 'Aqoxy4G02775' => 'aox', 'Aqoxy6G00058' => 'aox', 'arahy.Tifrunner.gnm1.ann1.9X74H2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CW3FX9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R485W7' => 'arhy', 'AT1G10960' => 'ath', 'AT1G60950' => 'ath', 'AT2G27510' => 'ath', 'AT4G14890' => 'ath', 'AT5G10000' => 'ath', 'ATR0665G624' => 'atr', 'ATR0697G138' => 'atr', 'ATR0776G046' => 'atr', 'ATR1134G135' => 'atr', 'Atru.chr12.1025' => 'acertr', 'Atru.chr3.3241' => 'acertr', 'Atru.chr4.2460' => 'acertr', 'AUR62007427' => 'cqu', 'AUR62010960' => 'cqu', 'AUR62012201' => 'cqu', 'AUR62021470' => 'cqu', 'AUR62022834' => 'cqu', 'AUR62033635' => 'cqu', 'AUR62036186' => 'cqu', 'BcaB01g03077' => 'bca', 'BcaB02g10093' => 'bca', 'BcaB04g20295' => 'bca', 'BcaB06g28147' => 'bca', 'BcaB07g31253' => 'bca', 'BcaC01g04946' => 'bca', 'BcaC02g10614' => 'bca', 'BcaC02g10885' => 'bca', 'BcaC04g19356' => 'bca', 'BcaC04g22297' => 'bca', 'BcaC05g24977' => 'bca', 'BcaC06g31823' => 'bca', 'BcaC07g38633' => 'bca', 'BcaC09g49353' => 'bca', 'BcaC09g50168' => 'bca', 'BcaNung00322' => 'bca', 'BcaNung04769' => 'bca', 'BolC1t02753H' => 'bol', 'BolC1t03721H' => 'bol', 'BolC3t15525H' => 'bol', 'BolC4t23903H' => 'bol', 'BolC4t24231H' => 'bol', 'BolC4t27209H' => 'bol', 'BolC5t29671H' => 'bol', 'BolC8t49044H' => 'bol', 'BolC9t54999H' => 'bol', 'BolC9t59517H' => 'bol', 'BraA01t02178Z' => 'bra', 'BraA01t03099Z' => 'bra', 'BraA03t11867Z' => 'bra', 'BraA04t17667Z' => 'bra', 'BraA07t29542Z' => 'bra', 'BraA08t35287Z' => 'bra', 'BraA09t37334Z' => 'bra', 'BraA10t44801Z' => 'bra', 'BraSC39t46181Z' => 'bra', 'C01p28240' => 'bna', 'C01p37530' => 'bna', 'C03p31820' => 'bna', 'C04p24080' => 'bna', 'C04p25790' => 'bna', 'C04p56770' => 'bna', 'C05p09310' => 'bna', 'C09p21010' => 'bna', 'C09p67560' => 'bna', 'CAN.G1324.7' => 'can', 'CAN.G1358.10' => 'can', 'CAN.G1550.2' => 'can', 'CAN.G186.56' => 'can', 'CAN.G1965.1' => 'can', 'CAN.G645.15' => 'can', 'CAN.G798.26' => 'can', 'CAN.G798.27' => 'can', 'CAN.G798.29' => 'can', 'CAN.G919.31' => 'can', 'CANSAT11G0133' => 'cansat', 'CANSAT11G1171' => 'cansat', 'CANSAT11G2056' => 'cansat', 'CANSAT56G1202' => 'cansat', 'CANSAT56G1514' => 'cansat', 'CANSAT78G0455' => 'cansat', 'CARHR011190' => 'chi', 'CARHR051980' => 'chi', 'CARHR120170' => 'chi', 'CARHR203310' => 'chi', 'CARHR221490' => 'chi', 'Carub.0001s1054' => 'cru', 'Carub.0002s0431' => 'cru', 'Carub.0004s0818' => 'cru', 'Carub.0006s0846' => 'cru', 'Carub.0007s2722' => 'cru', 'Ca_00058_v3' => 'car', 'Ca_17831_v3' => 'car', 'Ca_19408_v3' => 'car', 'Ca_24397_v3' => 'car', 'Ca_25664_v3' => 'car', 'CBR_g21818' => 'cbr', 'CBR_g31195' => 'cbr', 'CBR_g32282' => 'cbr', 'CBR_g39599' => 'cbr', 'CBR_g49410' => 'cbr', 'Cc01_g09120' => 'ccan', 'Cc01_g09130' => 'ccan', 'Cc02_g09630' => 'ccan', 'Cc02_g22810' => 'ccan', 'Cc03_g03810' => 'ccan', 'CDE02G3718' => 'cde', 'CDE04G3183' => 'cde', 'CDE07G1046' => 'cde', 'CDE08G0480' => 'cde', 'Cfa005493' => 'cfa', 'Cfa010312' => 'cfa', 'Cfa015648' => 'cfa', 'Ciclev10002793m.g' => 'ccl', 'Ciclev10003356m.g' => 'ccl', 'Ciclev10006141m.g' => 'ccl', 'Ciclev10016676m.g' => 'ccl', 'Ciclev10017081m.g' => 'ccl', 'Ciclev10029499m.g' => 'ccl', 'CiPaw.01G166300' => 'cil', 'CiPaw.06G145600' => 'cil', 'CiPaw.13G040100' => 'cil', 'CiPaw.13G135800' => 'cil', 'ClCG01G012230' => 'cla', 'ClCG05G009510' => 'cla', 'ClCG08G008270' => 'cla', 'COL.COLO4_11763' => 'col', 'COL.COLO4_19876' => 'col', 'COL.COLO4_21481' => 'col', 'Cpa.g.sc118.34' => 'cpa', 'Cpa.g.sc32.13' => 'cpa', 'Cpa.g.sc58.103' => 'cpa', 'Cre03.g183850' => 'cre', 'Cre06.g306350' => 'cre', 'Cre07.g334800' => 'cre', 'Cre12.g487900' => 'cre', 'Cre14.g626700' => 'cre', 'Cre16.g658400' => 'cre', 'Cre17.g700950' => 'cre', 'CsaV3_1G014830' => 'csa', 'CsaV3_3G013320' => 'csa', 'CsaV3_3G019210' => 'csa', 'CsaV3_3G019220' => 'csa', 'CsaV3_6G004230' => 'csa', 'CSS0003773' => 'camsi', 'CSS0004563' => 'camsi', 'CSS0013949' => 'camsi', 'CSS0025971' => 'camsi', 'CSS0028570' => 'camsi', 'CSS0033127' => 'camsi', 'CSS0036051' => 'camsi', 'CSS0040087' => 'camsi', 'CSS0043179' => 'camsi', 'DCAR_006161' => 'dca', 'DCAR_010351' => 'dca', 'DCAR_012197' => 'dca', 'DCAR_024162' => 'dca', 'Dinv01030' => 'din', 'Dinv10924' => 'din', 'Dinv11835' => 'din', 'Dinv22841' => 'din', 'Dinv42553' => 'din', 'Duzib052G0560' => 'dzi', 'Duzib132G0389' => 'dzi', 'Duzib150G1181' => 'dzi', 'Duzib168G0623' => 'dzi', 'Duzib170G1036' => 'dzi', 'Duzib212G0200' => 'dzi', 'Duzib248G0194' => 'dzi', 'ECA232G2193' => 'eca', 'ECA233G0302' => 'eca', 'ECA234G2813' => 'eca', 'ECA234G4866' => 'eca', 'ECA240G3932' => 'eca', 'ECA248G0385' => 'eca', 'EL10Ac2g04781' => 'bvu', 'EL10Ac3g06445' => 'bvu', 'EL10Ac7g15825' => 'bvu', 'EL10Ac8g18550' => 'bvu', 'Eucgr.B03849' => 'egr', 'Eucgr.I02744' => 'egr', 'Eucgr.J00264' => 'egr', 'Eucgr.J00493' => 'egr', 'FAN04G2181' => 'fan', 'FAN07G2666' => 'fan', 'FAN11G0024' => 'fan', 'FAN12G1105' => 'fan', 'FAN13G0302' => 'fan', 'FAN15G2781' => 'fan', 'FAN16G1274' => 'fan', 'FAN17G2988' => 'fan', 'FAN18G2621' => 'fan', 'FAN21G0013' => 'fan', 'FAN22G1211' => 'fan', 'FAN25G3626' => 'fan', 'FvH4_2g09491' => 'fve', 'FvH4_3g24910' => 'fve', 'FvH4_4g15630' => 'fve', 'FvH4_5g28820' => 'fve', 'Glyma.01G238000' => 'gma', 'Glyma.05G168400' => 'gma', 'Glyma.08G126800' => 'gma', 'Glyma.08G188500' => 'gma', 'Glyma.10G278900' => 'gma', 'Glyma.11G005700' => 'gma', 'Glyma.11G183300' => 'gma', 'Glyma.12G089200' => 'gma', 'Glyma.12G169400' => 'gma', 'Glyma.12G169500' => 'gma', 'Glyma.12G169600' => 'gma', 'Glyma.20G110800' => 'gma', 'Gohir.A03G192900' => 'ghi', 'Gohir.A03G193000' => 'ghi', 'Gohir.A05G080700' => 'ghi', 'Gohir.A09G216000' => 'ghi', 'Gohir.A12G027700' => 'ghi', 'Gohir.A13G036200' => 'ghi', 'Gohir.A13G222600' => 'ghi', 'Gohir.D02G213900' => 'ghi', 'Gohir.D02G214000' => 'ghi', 'Gohir.D05G083700' => 'ghi', 'Gohir.D05G083800' => 'ghi', 'Gohir.D05G083850' => 'ghi', 'Gohir.D08G015400' => 'ghi', 'Gohir.D09G218400' => 'ghi', 'Gohir.D12G027100' => 'ghi', 'Gohir.D13G034500' => 'ghi', 'Gohir.D13G227400' => 'ghi', 'Gorai.005G241800' => 'gra', 'Gorai.005G241900' => 'gra', 'Gorai.006G239400' => 'gra', 'Gorai.008G027600' => 'gra', 'Gorai.009G085400' => 'gra', 'Gorai.009G085500' => 'gra', 'Gorai.013G039000' => 'gra', 'Gorai.013G194800' => 'gra', 'Gorai.013G257900' => 'gra', 'GSVIVG01000982001' => 'vvi', 'GSVIVG01017981001' => 'vvi', 'HanXRQChr01g0024061' => 'han', 'HanXRQChr09g0247831' => 'han', 'HanXRQChr10g0294611' => 'han', 'HanXRQChr10g0294621' => 'han', 'HanXRQChr11g0346821' => 'han', 'HanXRQChr13g0397461' => 'han', 'HanXRQChr16g0513651' => 'han', 'HanXRQChr16g0513701' => 'han', 'Haze_00897' => 'cav', 'Haze_01745' => 'cav', 'Haze_02486' => 'cav', 'Haze_02487' => 'cav', 'Haze_23374' => 'cav', 'Hma1.2p1_0578F.1_g182520' => 'hma', 'Hma1.2p1_0602F.1_g187350' => 'hma', 'Hma1.2p1_0602F.1_g187360' => 'hma', 'Hma1.2p1_0874F.1_g231320' => 'hma', 'Hma1.2p1_1197F.1_g266210' => 'hma', 'Hma1.2p1_1197F.1_g266220' => 'hma', 'Hma1.2p1_2167F.1_g315895' => 'hma', 'Hma1.2p1_2190F.1_g316640' => 'hma', 'Hma1.2p1_3645F.1_g337153' => 'hma', 'HPP92_004907' => 'vpl', 'HPP92_012134' => 'vpl', 'HPP92_025136' => 'vpl', 'HPP92_026087' => 'vpl', 'Hund06782' => 'sun', 'Hund06784' => 'sun', 'Lalb_Chr01g0004861' => 'lal', 'Lalb_Chr02g0140591' => 'lal', 'Lalb_Chr02g0140611' => 'lal', 'Lalb_Chr03g0028101' => 'lal', 'Lalb_Chr07g0185791' => 'lal', 'Lalb_Chr12g0204491' => 'lal', 'Lalb_Chr13g0295671' => 'lal', 'Lalb_Chr19g0136461' => 'lal', 'Lalb_Chr21g0309191' => 'lal', 'Lj1g0028158' => 'lja', 'Lj1P236T38' => 'lonja', 'Lj2C32G2' => 'lonja', 'Lj2P944T8' => 'lonja', 'Lj2P963T15' => 'lonja', 'Lj3g0011788' => 'lja', 'Lj4g0025027' => 'lja', 'Lj5P255T36' => 'lonja', 'Lj6g0018866' => 'lja', 'Lj6P608T31' => 'lonja', 'LjContig00408g0008879' => 'lja', 'Lsat_1_v5_gn_5_105820' => 'lsa', 'Lsat_1_v5_gn_6_38800' => 'lsa', 'Lsat_1_v5_gn_7_67141' => 'lsa', 'Manes.04G003400' => 'mes', 'Manes.07G020000' => 'mes', 'Manes.07G020100' => 'mes', 'Manes.07G020150' => 'mes', 'Manes.10G061500' => 'mes', 'Manes.10G123200' => 'mes', 'Manes.11G161900' => 'mes', 'Manes.15G029300' => 'mes', 'Mapoly0071s0018' => 'mpo', 'Mapoly0082s0023' => 'mpo', 'Mapoly3477s0001' => 'mpo', 'MBI05_g31233_MAGBIO' => 'mbi', 'MBI09_g05946_MAGBIO' => 'mbi', 'MBI09_g05947_MAGBIO' => 'mbi', 'MBI17_g08346_MAGBIO' => 'mbi', 'MCO04G038' => 'mco', 'MCO09G370' => 'mco', 'MCO13G605' => 'mco', 'MD00G1075500' => 'mdo', 'MD03G1144300' => 'mdo', 'MD08G1236800' => 'mdo', 'MD13G1193300' => 'mdo', 'MD15G1428700' => 'mdo', 'Medtr1g112030' => 'mtr', 'Medtr1g112050' => 'mtr', 'Medtr2g006290' => 'mtr', 'Medtr2g086510' => 'mtr', 'Medtr4g053120' => 'mtr', 'Medtr5g006320' => 'mtr', 'Medtr8g088720' => 'mtr', 'MELO3C004712.2' => 'cme', 'MELO3C006533.2' => 'cme', 'MELO3C019438.2' => 'cme', 'MELO3C019440.2' => 'cme', 'MELO3C019441.2' => 'cme', 'MELO3C019895.2' => 'cme', 'Migut.B00811' => 'egut', 'Migut.D02447' => 'egut', 'Migut.F00875' => 'egut', 'Migut.N00186' => 'egut', 'Migut.N01051' => 'egut', 'Migut.N02491' => 'egut', 'Migut.O00784' => 'egut', 'MSTRG.12367' => 'ama', 'MSTRG.18756' => 'ama', 'MSTRG.21042' => 'ama', 'Nitab4.5_0000559g0040' => 'nta', 'Nitab4.5_0000667g0190' => 'nta', 'Nitab4.5_0000755g0160' => 'nta', 'Nitab4.5_0001216g0080' => 'nta', 'Nitab4.5_0004069g0040' => 'nta', 'Nitab4.5_0004129g0010' => 'nta', 'Nitab4.5_0005744g0030' => 'nta', 'Nitab4.5_0006996g0030' => 'nta', 'Nitab4.5_0008971g0040' => 'nta', 'Nitab4.5_0009769g0020' => 'nta', 'Nitab4.5_0009833g0010' => 'nta', 'Nitab4.5_0013140g0020' => 'nta', 'Nn003s41376' => 'nnu', 'Nn1g01857' => 'nnu', 'Nn1g03611' => 'nnu', 'Nn1g06853' => 'nnu', 'Nn3g18360' => 'nnu', 'Nn4g26328' => 'nnu', 'Nn5g27531' => 'nnu', 'Nn6g34899' => 'nnu', 'Nn7g36299' => 'nnu', 'Oeu021485.1' => 'oeu', 'Oeu022433.1' => 'oeu', 'Oeu032111.1' => 'oeu', 'Oeu051608.1' => 'oeu', 'Os01g0860601' => 'osa', 'Os03g0659200' => 'osa', 'Os03g0835900' => 'osa', 'Os04g0412200' => 'osa', 'Os05g0443500' => 'osa', 'Os07g0251500' => 'osa', 'Os08g0104600' => 'osa', 'Peaxi162Scf00003g00047' => 'pax', 'Peaxi162Scf00003g00052' => 'pax', 'Peaxi162Scf00003g00394' => 'pax', 'Peaxi162Scf00091g00621' => 'pax', 'Peaxi162Scf00152g00146' => 'pax', 'Peaxi162Scf00173g00025' => 'pax', 'Peaxi162Scf00195g00102' => 'pax', 'Peaxi162Scf00402g00013' => 'pax', 'Peaxi162Scf00519g00618' => 'pax', 'PGR004G2838' => 'pgr', 'PGR044G2275' => 'pgr', 'PGR102G1377' => 'pgr', 'PGR119G1245' => 'pgr', 'PGR142G4449' => 'pgr', 'PGSC0003DMG400004532' => 'stu', 'PGSC0003DMG400011950' => 'stu', 'PGSC0003DMG400023391' => 'stu', 'PGSC0003DMG400023985' => 'stu', 'PGSC0003DMG400026360' => 'stu', 'PGSC0003DMG400035711' => 'stu', 'PGSC0003DMG400037286' => 'stu', 'PGSC0003DMG402005881' => 'stu', 'Phvul.002G045400' => 'pvu', 'Phvul.006G216600' => 'pvu', 'Phvul.006G216700' => 'pvu', 'Phvul.006G216800' => 'pvu', 'Phvul.007G022500' => 'pvu', 'Phvul.011G094400' => 'pvu', 'Potri.001G470700' => 'ptr', 'Potri.003G015200' => 'ptr', 'Potri.004G202500' => 'ptr', 'Potri.004G218400' => 'ptr', 'Potri.008G020100' => 'ptr', 'Potri.008G153200' => 'ptr', 'Potri.009G163800' => 'ptr', 'Potri.010G087300' => 'ptr', 'Potri.010G239100' => 'ptr', 'Pp3c10_16100' => 'ppa', 'Pp3c10_16880' => 'ppa', 'Pp3c16_6230' => 'ppa', 'Pp3c17_18910' => 'ppa', 'Pp3c3_22119' => 'ppa', 'Pp3c3_22140' => 'ppa', 'Pp3c4_8159' => 'ppa', 'Pp3c4_8171' => 'ppa', 'Pp3c4_8330' => 'ppa', 'PRCOL_00004098' => 'pco', 'Prupe.1G013900' => 'ppe', 'Prupe.1G226300' => 'ppe', 'Prupe.1G573600' => 'ppe', 'Prupe.6G130100' => 'ppe', 'Psat3g090040' => 'psa', 'Psat4g210440' => 'psa', 'Psat6g231040' => 'psa', 'Psat6g231080' => 'psa', 'Psat7g063000' => 'psa', 'Psat7g188000' => 'psa', 'Psat7g188040' => 'psa', 'PSO017G0206' => 'pso', 'PSO170G0501' => 'pso', 'PSO170G6422' => 'pso', 'PSO210G7739' => 'pso', 'PSO339G1808' => 'pso', 'PSO339G6135' => 'pso', 'PSO384G0010' => 'pso', 'PSO384G0964' => 'pso', 'PSO761G0050' => 'pso', 'PSO782G4085' => 'pso', 'QL01p012264' => 'qlo', 'QL02p099491' => 'qlo', 'QL03p033868' => 'qlo', 'QL04p046678' => 'qlo', 'QL06p002448' => 'qlo', 'RcHm_v2.0_Chr4g0416181' => 'rch', 'RcHm_v2.0_Chr5g0044701' => 'rch', 'RcHm_v2.0_Chr6g0265781' => 'rch', 'RcHm_v2.0_Chr7g0221031' => 'rch', 'Rhsim04G0202000' => 'rsi', 'Rhsim11G0127300' => 'rsi', 'Rhsim13G0111800' => 'rsi', 'Sabra01G0165600' => 'sbr', 'Sabra03G0008300' => 'sbr', 'Sabra04G0136900' => 'sbr', 'Sabra08G0013400' => 'sbr', 'Sabra08G0116800' => 'sbr', 'Sabra09G0128000' => 'sbr', 'Sabra10G0055500' => 'sbr', 'Sabra10G0073300' => 'sbr', 'SalBow3G0385' => 'sbo', 'SalBow3G1119' => 'sbo', 'SalBow3G2005' => 'sbo', 'SalBow6G2563' => 'sbo', 'SalBow6G6386' => 'sbo', 'Sc06g0008800' => 'sci', 'Sc07g0004950' => 'sci', 'Sc09g0005340' => 'sci', 'Sc13g0004410' => 'sci', 'Sc21g0007090' => 'sci', 'Sed0009285' => 'sed', 'Sed0017583' => 'sed', 'Sed0019699' => 'sed', 'Sed0023107' => 'sed', 'SEGI_10916' => 'sgi', 'SEGI_16217' => 'sgi', 'SEGI_19466' => 'sgi', 'SEGI_41115' => 'sgi', 'SGA_v2.0_scaffold111G31534' => 'sas', 'SGA_v2.0_scaffold22G09864' => 'sas', 'SGA_v2.0_scaffold338G49219' => 'sas', 'SGA_v2.0_scaffold92G28298' => 'sas', 'SMO119G0064' => 'smo', 'SMO223G0038' => 'smo', 'SMO347G0584' => 'smo', 'SMO351G0010' => 'smo', 'SMO356G0404' => 'smo', 'Solyc01g103920.3' => 'sly', 'Solyc04g009710.2' => 'sly', 'Solyc05g055280.2' => 'sly', 'Solyc10g044520.3' => 'sly', 'Solyc10g075160.1' => 'sly', 'Solyc11g006910.3' => 'sly', 'Solyc11g068430.3' => 'sly', 'Sopen01g046310' => 'spe', 'Sopen03g001200' => 'spe', 'Sopen04g004830' => 'spe', 'Sopen05g033720' => 'spe', 'Sopen06g030740' => 'spe', 'Sopen10g013090' => 'spe', 'Sopen10g027630' => 'spe', 'Sopen10g027640' => 'spe', 'Sopen11g002820' => 'spe', 'Sopen11g027140' => 'spe', 'Sp1g09680' => 'spa', 'Sp2g03630' => 'spa', 'Sp4g10320' => 'spa', 'Sp6g33400' => 'spa', 'Sp7g13030' => 'spa', 'TAR365G0317' => 'tar', 'TAR376G0979' => 'tar', 'TAR623G1665' => 'tar', 'TAR633G2373' => 'tar', 'TAR636G1400' => 'tar', 'THA.LOC104800529' => 'tha', 'THA.LOC104808547' => 'tha', 'THA.LOC104809615' => 'tha', 'THA.LOC104815724' => 'tha', 'THA.LOC104818480' => 'tha', 'THA.LOC104819179' => 'tha', 'THA.LOC104822270' => 'tha', 'THA.LOC104826425' => 'tha', 'Thecc.02G089700' => 'tca', 'Thecc.04G232300' => 'tca', 'Thecc.09G283400' => 'tca', 'Thhalv10009020m.g' => 'esa', 'Thhalv10015506m.g' => 'esa', 'Thhalv10017364m.g' => 'esa', 'Thhalv10023742m.g' => 'esa', 'Thhalv10026483m.g' => 'esa', 'TPR.G17232' => 'tpr', 'TPR.G2133' => 'tpr', 'TPR.G2498' => 'tpr', 'TPR.G31942' => 'tpr', 'TPR.G37877' => 'tpr', 'TPR.G4571' => 'tpr', 'TWI14G1113' => 'twi', 'TWI15G0426' => 'twi', 'TWI31G1005' => 'twi', 'TWI38G0513' => 'twi', 'TWI38G1484' => 'twi', 'TWI73G1098' => 'twi', 'unitig_26.g10519' => 'ugi', 'unitig_736.g22395' => 'ugi', 'unitig_747.g21234' => 'ugi', 'unitig_747.g21942' => 'ugi', 'vmacro14351' => 'vma', 'VMungo0540G0082' => 'vmu', 'VMungo0540G0405' => 'vmu', 'VMungo0540G1486' => 'vmu', 'VMungo0540G1692' => 'vmu', 'VMungo0720G2473' => 'vmu', 'VMungo1127G1562' => 'vmu', 'VMungo1215G1918' => 'vmu', 'Zm00001eb052650' => 'zma', 'Zm00001eb063710' => 'zma', 'Zm00001eb083950' => 'zma', 'Zm00001eb174420' => 'zma', 'Zm00001eb260140' => 'zma', 'Zm00001eb260150' => 'zma', 'Zm00001eb260160' => 'zma', 'Zm00001eb348290' => 'zma', 'Zm00001eb366870' => 'zma', 'Zm00001eb421930' => 'zma' ) $gf_id = 'HOM05D001025' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001025' ) $data_identifier = 'HOM05D001025' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 19, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 2, 'amhyb' => (int) 4, 'aly' => (int) 4, 'aox' => (int) 4, 'arhy' => (int) 3, 'ath' => (int) 5, 'atr' => (int) 4, 'acertr' => (int) 3, 'cqu' => (int) 7, 'bca' => (int) 17, 'bol' => (int) 10, 'bra' => (int) 9, 'can' => (int) 10, 'cansat' => (int) 6, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 5, 'cbr' => (int) 5, 'ccan' => (int) 5, 'cde' => (int) 4, 'cfa' => (int) 3, 'ccl' => (int) 6, 'cil' => (int) 4, 'cla' => (int) 3, 'col' => (int) 3, 'cpa' => (int) 3, 'cre' => (int) 7, 'csa' => (int) 5, 'camsi' => (int) 9, 'dca' => (int) 4, 'din' => (int) 5, 'dzi' => (int) 7, 'eca' => (int) 6, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 12, 'fve' => (int) 4, 'gma' => (int) 12, 'ghi' => (int) 17, 'gra' => (int) 9, 'vvi' => (int) 2, 'han' => (int) 8, 'cav' => (int) 5, 'hma' => (int) 9, 'vpl' => (int) 4, 'sun' => (int) 2, 'lal' => (int) 9, 'lja' => (int) 5, 'lonja' => (int) 6, 'lsa' => (int) 3, 'mes' => (int) 8, 'mpo' => (int) 3, 'mbi' => (int) 4, 'mco' => (int) 3, 'mdo' => (int) 5, 'mtr' => (int) 7, 'cme' => (int) 6, 'egut' => (int) 7, 'ama' => (int) 3, 'nta' => (int) 12, 'nnu' => (int) 9, 'oeu' => (int) 4, 'osa' => (int) 7, 'pax' => (int) 9, 'pgr' => (int) 5, 'stu' => (int) 8, 'pvu' => (int) 6, 'ptr' => (int) 9, 'ppa' => (int) 9, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 7, 'pso' => (int) 10, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 3, 'sbr' => (int) 8, 'sbo' => (int) 5, 'sci' => (int) 5, 'sed' => (int) 4, 'sgi' => (int) 4, 'sas' => (int) 4, 'smo' => (int) 5, 'sly' => (int) 7, 'spe' => (int) 10, 'spa' => (int) 5, 'tar' => (int) 5, 'tha' => (int) 8, 'tca' => (int) 3, 'esa' => (int) 5, 'tpr' => (int) 6, 'twi' => (int) 6, 'ugi' => (int) 4, 'vma' => (int) 1, 'vmu' => (int) 7, 'zma' => (int) 10 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb421930' $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' => 'HOM05D001025', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '592', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p22650' => 'bna', 'A01p29720' => 'bna', 'A03p26560' => 'bna', 'A03p68820' => 'bna', 'A04p20980' => 'bna', 'A06p07730' => 'bna', 'A07p18260' => 'bna', 'A08p33710' => 'bna', 'A09p16970' => 'bna', 'A10p27490' => 'bna', 'Aa31LG1G17300' => 'aar', 'Aa31LG1G3910' => 'aar', 'Aa31LG2G9630' => 'aar', 'Aa31LG5G8360' => 'aar', 'Aa31LG9G2410' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4699' => 'aag', 'Actinidia23512' => 'ach', 'Actinidia37080' => 'ach', 'Ah.01g020380' => 'amhyb', 'Ah.08g215710' => 'amhyb', 'Ah.09g225110' => 'amhyb', 'Ah.10g036680' => 'amhyb', 'AL1G21940' => 'aly', 'AL2G15540' => 'aly', 'AL4G21520' => 'aly', 'AL7G40960' => 'aly', 'Aqoxy2G01191' => 'aox', 'Aqoxy2G03393' => 'aox', 'Aqoxy4G02775' => 'aox', 'Aqoxy6G00058' => 'aox', 'arahy.Tifrunner.gnm1.ann1.9X74H2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CW3FX9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R485W7' => 'arhy', 'AT1G10960' => 'ath', 'AT1G60950' => 'ath', 'AT2G27510' => 'ath', 'AT4G14890' => 'ath', 'AT5G10000' => 'ath', 'ATR0665G624' => 'atr', 'ATR0697G138' => 'atr', 'ATR0776G046' => 'atr', 'ATR1134G135' => 'atr', 'Atru.chr12.1025' => 'acertr', 'Atru.chr3.3241' => 'acertr', 'Atru.chr4.2460' => 'acertr', 'AUR62007427' => 'cqu', 'AUR62010960' => 'cqu', 'AUR62012201' => 'cqu', 'AUR62021470' => 'cqu', 'AUR62022834' => 'cqu', 'AUR62033635' => 'cqu', 'AUR62036186' => 'cqu', 'BcaB01g03077' => 'bca', 'BcaB02g10093' => 'bca', 'BcaB04g20295' => 'bca', 'BcaB06g28147' => 'bca', 'BcaB07g31253' => 'bca', 'BcaC01g04946' => 'bca', 'BcaC02g10614' => 'bca', 'BcaC02g10885' => 'bca', 'BcaC04g19356' => 'bca', 'BcaC04g22297' => 'bca', 'BcaC05g24977' => 'bca', 'BcaC06g31823' => 'bca', 'BcaC07g38633' => 'bca', 'BcaC09g49353' => 'bca', 'BcaC09g50168' => 'bca', 'BcaNung00322' => 'bca', 'BcaNung04769' => 'bca', 'BolC1t02753H' => 'bol', 'BolC1t03721H' => 'bol', 'BolC3t15525H' => 'bol', 'BolC4t23903H' => 'bol', 'BolC4t24231H' => 'bol', 'BolC4t27209H' => 'bol', 'BolC5t29671H' => 'bol', 'BolC8t49044H' => 'bol', 'BolC9t54999H' => 'bol', 'BolC9t59517H' => 'bol', 'BraA01t02178Z' => 'bra', 'BraA01t03099Z' => 'bra', 'BraA03t11867Z' => 'bra', 'BraA04t17667Z' => 'bra', 'BraA07t29542Z' => 'bra', 'BraA08t35287Z' => 'bra', 'BraA09t37334Z' => 'bra', 'BraA10t44801Z' => 'bra', 'BraSC39t46181Z' => 'bra', 'C01p28240' => 'bna', 'C01p37530' => 'bna', 'C03p31820' => 'bna', 'C04p24080' => 'bna', 'C04p25790' => 'bna', 'C04p56770' => 'bna', 'C05p09310' => 'bna', 'C09p21010' => 'bna', 'C09p67560' => 'bna', 'CAN.G1324.7' => 'can', 'CAN.G1358.10' => 'can', 'CAN.G1550.2' => 'can', 'CAN.G186.56' => 'can', 'CAN.G1965.1' => 'can', 'CAN.G645.15' => 'can', 'CAN.G798.26' => 'can', 'CAN.G798.27' => 'can', 'CAN.G798.29' => 'can', 'CAN.G919.31' => 'can', 'CANSAT11G0133' => 'cansat', 'CANSAT11G1171' => 'cansat', 'CANSAT11G2056' => 'cansat', 'CANSAT56G1202' => 'cansat', 'CANSAT56G1514' => 'cansat', 'CANSAT78G0455' => 'cansat', 'CARHR011190' => 'chi', 'CARHR051980' => 'chi', 'CARHR120170' => 'chi', 'CARHR203310' => 'chi', 'CARHR221490' => 'chi', 'Carub.0001s1054' => 'cru', 'Carub.0002s0431' => 'cru', 'Carub.0004s0818' => 'cru', 'Carub.0006s0846' => 'cru', 'Carub.0007s2722' => 'cru', 'Ca_00058_v3' => 'car', 'Ca_17831_v3' => 'car', 'Ca_19408_v3' => 'car', 'Ca_24397_v3' => 'car', 'Ca_25664_v3' => 'car', 'CBR_g21818' => 'cbr', 'CBR_g31195' => 'cbr', 'CBR_g32282' => 'cbr', 'CBR_g39599' => 'cbr', 'CBR_g49410' => 'cbr', 'Cc01_g09120' => 'ccan', 'Cc01_g09130' => 'ccan', 'Cc02_g09630' => 'ccan', 'Cc02_g22810' => 'ccan', 'Cc03_g03810' => 'ccan', 'CDE02G3718' => 'cde', 'CDE04G3183' => 'cde', 'CDE07G1046' => 'cde', 'CDE08G0480' => 'cde', 'Cfa005493' => 'cfa', 'Cfa010312' => 'cfa', 'Cfa015648' => 'cfa', 'Ciclev10002793m.g' => 'ccl', 'Ciclev10003356m.g' => 'ccl', 'Ciclev10006141m.g' => 'ccl', 'Ciclev10016676m.g' => 'ccl', 'Ciclev10017081m.g' => 'ccl', 'Ciclev10029499m.g' => 'ccl', 'CiPaw.01G166300' => 'cil', 'CiPaw.06G145600' => 'cil', 'CiPaw.13G040100' => 'cil', 'CiPaw.13G135800' => 'cil', 'ClCG01G012230' => 'cla', 'ClCG05G009510' => 'cla', 'ClCG08G008270' => 'cla', 'COL.COLO4_11763' => 'col', 'COL.COLO4_19876' => 'col', 'COL.COLO4_21481' => 'col', 'Cpa.g.sc118.34' => 'cpa', 'Cpa.g.sc32.13' => 'cpa', 'Cpa.g.sc58.103' => 'cpa', 'Cre03.g183850' => 'cre', 'Cre06.g306350' => 'cre', 'Cre07.g334800' => 'cre', 'Cre12.g487900' => 'cre', 'Cre14.g626700' => 'cre', 'Cre16.g658400' => 'cre', 'Cre17.g700950' => 'cre', 'CsaV3_1G014830' => 'csa', 'CsaV3_3G013320' => 'csa', 'CsaV3_3G019210' => 'csa', 'CsaV3_3G019220' => 'csa', 'CsaV3_6G004230' => 'csa', 'CSS0003773' => 'camsi', 'CSS0004563' => 'camsi', 'CSS0013949' => 'camsi', 'CSS0025971' => 'camsi', 'CSS0028570' => 'camsi', 'CSS0033127' => 'camsi', 'CSS0036051' => 'camsi', 'CSS0040087' => 'camsi', 'CSS0043179' => 'camsi', 'DCAR_006161' => 'dca', 'DCAR_010351' => 'dca', 'DCAR_012197' => 'dca', 'DCAR_024162' => 'dca', 'Dinv01030' => 'din', 'Dinv10924' => 'din', 'Dinv11835' => 'din', 'Dinv22841' => 'din', 'Dinv42553' => 'din', 'Duzib052G0560' => 'dzi', 'Duzib132G0389' => 'dzi', 'Duzib150G1181' => 'dzi', 'Duzib168G0623' => 'dzi', 'Duzib170G1036' => 'dzi', 'Duzib212G0200' => 'dzi', 'Duzib248G0194' => 'dzi', 'ECA232G2193' => 'eca', 'ECA233G0302' => 'eca', 'ECA234G2813' => 'eca', 'ECA234G4866' => 'eca', 'ECA240G3932' => 'eca', 'ECA248G0385' => 'eca', 'EL10Ac2g04781' => 'bvu', 'EL10Ac3g06445' => 'bvu', 'EL10Ac7g15825' => 'bvu', 'EL10Ac8g18550' => 'bvu', 'Eucgr.B03849' => 'egr', 'Eucgr.I02744' => 'egr', 'Eucgr.J00264' => 'egr', 'Eucgr.J00493' => 'egr', 'FAN04G2181' => 'fan', 'FAN07G2666' => 'fan', 'FAN11G0024' => 'fan', 'FAN12G1105' => 'fan', 'FAN13G0302' => 'fan', 'FAN15G2781' => 'fan', 'FAN16G1274' => 'fan', 'FAN17G2988' => 'fan', 'FAN18G2621' => 'fan', 'FAN21G0013' => 'fan', 'FAN22G1211' => 'fan', 'FAN25G3626' => 'fan', 'FvH4_2g09491' => 'fve', 'FvH4_3g24910' => 'fve', 'FvH4_4g15630' => 'fve', 'FvH4_5g28820' => 'fve', 'Glyma.01G238000' => 'gma', 'Glyma.05G168400' => 'gma', 'Glyma.08G126800' => 'gma', 'Glyma.08G188500' => 'gma', 'Glyma.10G278900' => 'gma', 'Glyma.11G005700' => 'gma', 'Glyma.11G183300' => 'gma', 'Glyma.12G089200' => 'gma', 'Glyma.12G169400' => 'gma', 'Glyma.12G169500' => 'gma', 'Glyma.12G169600' => 'gma', 'Glyma.20G110800' => 'gma', 'Gohir.A03G192900' => 'ghi', 'Gohir.A03G193000' => 'ghi', 'Gohir.A05G080700' => 'ghi', 'Gohir.A09G216000' => 'ghi', 'Gohir.A12G027700' => 'ghi', 'Gohir.A13G036200' => 'ghi', 'Gohir.A13G222600' => 'ghi', 'Gohir.D02G213900' => 'ghi', 'Gohir.D02G214000' => 'ghi', 'Gohir.D05G083700' => 'ghi', 'Gohir.D05G083800' => 'ghi', 'Gohir.D05G083850' => 'ghi', 'Gohir.D08G015400' => 'ghi', 'Gohir.D09G218400' => 'ghi', 'Gohir.D12G027100' => 'ghi', 'Gohir.D13G034500' => 'ghi', 'Gohir.D13G227400' => 'ghi', 'Gorai.005G241800' => 'gra', 'Gorai.005G241900' => 'gra', 'Gorai.006G239400' => 'gra', 'Gorai.008G027600' => 'gra', 'Gorai.009G085400' => 'gra', 'Gorai.009G085500' => 'gra', 'Gorai.013G039000' => 'gra', 'Gorai.013G194800' => 'gra', 'Gorai.013G257900' => 'gra', 'GSVIVG01000982001' => 'vvi', 'GSVIVG01017981001' => 'vvi', 'HanXRQChr01g0024061' => 'han', 'HanXRQChr09g0247831' => 'han', 'HanXRQChr10g0294611' => 'han', 'HanXRQChr10g0294621' => 'han', 'HanXRQChr11g0346821' => 'han', 'HanXRQChr13g0397461' => 'han', 'HanXRQChr16g0513651' => 'han', 'HanXRQChr16g0513701' => 'han', 'Haze_00897' => 'cav', 'Haze_01745' => 'cav', 'Haze_02486' => 'cav', 'Haze_02487' => 'cav', 'Haze_23374' => 'cav', 'Hma1.2p1_0578F.1_g182520' => 'hma', 'Hma1.2p1_0602F.1_g187350' => 'hma', 'Hma1.2p1_0602F.1_g187360' => 'hma', 'Hma1.2p1_0874F.1_g231320' => 'hma', 'Hma1.2p1_1197F.1_g266210' => 'hma', 'Hma1.2p1_1197F.1_g266220' => 'hma', 'Hma1.2p1_2167F.1_g315895' => 'hma', 'Hma1.2p1_2190F.1_g316640' => 'hma', 'Hma1.2p1_3645F.1_g337153' => 'hma', 'HPP92_004907' => 'vpl', 'HPP92_012134' => 'vpl', 'HPP92_025136' => 'vpl', 'HPP92_026087' => 'vpl', 'Hund06782' => 'sun', 'Hund06784' => 'sun', 'Lalb_Chr01g0004861' => 'lal', 'Lalb_Chr02g0140591' => 'lal', 'Lalb_Chr02g0140611' => 'lal', 'Lalb_Chr03g0028101' => 'lal', 'Lalb_Chr07g0185791' => 'lal', 'Lalb_Chr12g0204491' => 'lal', 'Lalb_Chr13g0295671' => 'lal', 'Lalb_Chr19g0136461' => 'lal', 'Lalb_Chr21g0309191' => 'lal', 'Lj1g0028158' => 'lja', 'Lj1P236T38' => 'lonja', 'Lj2C32G2' => 'lonja', 'Lj2P944T8' => 'lonja', 'Lj2P963T15' => 'lonja', 'Lj3g0011788' => 'lja', 'Lj4g0025027' => 'lja', 'Lj5P255T36' => 'lonja', 'Lj6g0018866' => 'lja', 'Lj6P608T31' => 'lonja', 'LjContig00408g0008879' => 'lja', 'Lsat_1_v5_gn_5_105820' => 'lsa', 'Lsat_1_v5_gn_6_38800' => 'lsa', 'Lsat_1_v5_gn_7_67141' => 'lsa', 'Manes.04G003400' => 'mes', 'Manes.07G020000' => 'mes', 'Manes.07G020100' => 'mes', 'Manes.07G020150' => 'mes', 'Manes.10G061500' => 'mes', 'Manes.10G123200' => 'mes', 'Manes.11G161900' => 'mes', 'Manes.15G029300' => 'mes', 'Mapoly0071s0018' => 'mpo', 'Mapoly0082s0023' => 'mpo', 'Mapoly3477s0001' => 'mpo', 'MBI05_g31233_MAGBIO' => 'mbi', 'MBI09_g05946_MAGBIO' => 'mbi', 'MBI09_g05947_MAGBIO' => 'mbi', 'MBI17_g08346_MAGBIO' => 'mbi', 'MCO04G038' => 'mco', 'MCO09G370' => 'mco', 'MCO13G605' => 'mco', 'MD00G1075500' => 'mdo', 'MD03G1144300' => 'mdo', 'MD08G1236800' => 'mdo', 'MD13G1193300' => 'mdo', 'MD15G1428700' => 'mdo', 'Medtr1g112030' => 'mtr', 'Medtr1g112050' => 'mtr', 'Medtr2g006290' => 'mtr', 'Medtr2g086510' => 'mtr', 'Medtr4g053120' => 'mtr', 'Medtr5g006320' => 'mtr', 'Medtr8g088720' => 'mtr', 'MELO3C004712.2' => 'cme', 'MELO3C006533.2' => 'cme', 'MELO3C019438.2' => 'cme', 'MELO3C019440.2' => 'cme', 'MELO3C019441.2' => 'cme', 'MELO3C019895.2' => 'cme', 'Migut.B00811' => 'egut', 'Migut.D02447' => 'egut', 'Migut.F00875' => 'egut', 'Migut.N00186' => 'egut', 'Migut.N01051' => 'egut', 'Migut.N02491' => 'egut', 'Migut.O00784' => 'egut', 'MSTRG.12367' => 'ama', 'MSTRG.18756' => 'ama', 'MSTRG.21042' => 'ama', 'Nitab4.5_0000559g0040' => 'nta', 'Nitab4.5_0000667g0190' => 'nta', 'Nitab4.5_0000755g0160' => 'nta', 'Nitab4.5_0001216g0080' => 'nta', 'Nitab4.5_0004069g0040' => 'nta', 'Nitab4.5_0004129g0010' => 'nta', 'Nitab4.5_0005744g0030' => 'nta', 'Nitab4.5_0006996g0030' => 'nta', 'Nitab4.5_0008971g0040' => 'nta', 'Nitab4.5_0009769g0020' => 'nta', 'Nitab4.5_0009833g0010' => 'nta', 'Nitab4.5_0013140g0020' => 'nta', 'Nn003s41376' => 'nnu', 'Nn1g01857' => 'nnu', 'Nn1g03611' => 'nnu', 'Nn1g06853' => 'nnu', 'Nn3g18360' => 'nnu', 'Nn4g26328' => 'nnu', 'Nn5g27531' => 'nnu', 'Nn6g34899' => 'nnu', 'Nn7g36299' => 'nnu', 'Oeu021485.1' => 'oeu', 'Oeu022433.1' => 'oeu', 'Oeu032111.1' => 'oeu', 'Oeu051608.1' => 'oeu', 'Os01g0860601' => 'osa', 'Os03g0659200' => 'osa', 'Os03g0835900' => 'osa', 'Os04g0412200' => 'osa', 'Os05g0443500' => 'osa', 'Os07g0251500' => 'osa', 'Os08g0104600' => 'osa', 'Peaxi162Scf00003g00047' => 'pax', 'Peaxi162Scf00003g00052' => 'pax', 'Peaxi162Scf00003g00394' => 'pax', 'Peaxi162Scf00091g00621' => 'pax', 'Peaxi162Scf00152g00146' => 'pax', 'Peaxi162Scf00173g00025' => 'pax', 'Peaxi162Scf00195g00102' => 'pax', 'Peaxi162Scf00402g00013' => 'pax', 'Peaxi162Scf00519g00618' => 'pax', 'PGR004G2838' => 'pgr', 'PGR044G2275' => 'pgr', 'PGR102G1377' => 'pgr', 'PGR119G1245' => 'pgr', 'PGR142G4449' => 'pgr', 'PGSC0003DMG400004532' => 'stu', 'PGSC0003DMG400011950' => 'stu', 'PGSC0003DMG400023391' => 'stu', 'PGSC0003DMG400023985' => 'stu', 'PGSC0003DMG400026360' => 'stu', 'PGSC0003DMG400035711' => 'stu', 'PGSC0003DMG400037286' => 'stu', 'PGSC0003DMG402005881' => 'stu', 'Phvul.002G045400' => 'pvu', 'Phvul.006G216600' => 'pvu', 'Phvul.006G216700' => 'pvu', 'Phvul.006G216800' => 'pvu', 'Phvul.007G022500' => 'pvu', 'Phvul.011G094400' => 'pvu', 'Potri.001G470700' => 'ptr', 'Potri.003G015200' => 'ptr', 'Potri.004G202500' => 'ptr', 'Potri.004G218400' => 'ptr', 'Potri.008G020100' => 'ptr', 'Potri.008G153200' => 'ptr', 'Potri.009G163800' => 'ptr', 'Potri.010G087300' => 'ptr', 'Potri.010G239100' => 'ptr', 'Pp3c10_16100' => 'ppa', 'Pp3c10_16880' => 'ppa', 'Pp3c16_6230' => 'ppa', 'Pp3c17_18910' => 'ppa', 'Pp3c3_22119' => 'ppa', 'Pp3c3_22140' => 'ppa', 'Pp3c4_8159' => 'ppa', 'Pp3c4_8171' => 'ppa', 'Pp3c4_8330' => 'ppa', 'PRCOL_00004098' => 'pco', 'Prupe.1G013900' => 'ppe', 'Prupe.1G226300' => 'ppe', 'Prupe.1G573600' => 'ppe', 'Prupe.6G130100' => 'ppe', 'Psat3g090040' => 'psa', 'Psat4g210440' => 'psa', 'Psat6g231040' => 'psa', 'Psat6g231080' => 'psa', 'Psat7g063000' => 'psa', 'Psat7g188000' => 'psa', 'Psat7g188040' => 'psa', 'PSO017G0206' => 'pso', 'PSO170G0501' => 'pso', 'PSO170G6422' => 'pso', 'PSO210G7739' => 'pso', 'PSO339G1808' => 'pso', 'PSO339G6135' => 'pso', 'PSO384G0010' => 'pso', 'PSO384G0964' => 'pso', 'PSO761G0050' => 'pso', 'PSO782G4085' => 'pso', 'QL01p012264' => 'qlo', 'QL02p099491' => 'qlo', 'QL03p033868' => 'qlo', 'QL04p046678' => 'qlo', 'QL06p002448' => 'qlo', 'RcHm_v2.0_Chr4g0416181' => 'rch', 'RcHm_v2.0_Chr5g0044701' => 'rch', 'RcHm_v2.0_Chr6g0265781' => 'rch', 'RcHm_v2.0_Chr7g0221031' => 'rch', 'Rhsim04G0202000' => 'rsi', 'Rhsim11G0127300' => 'rsi', 'Rhsim13G0111800' => 'rsi', 'Sabra01G0165600' => 'sbr', 'Sabra03G0008300' => 'sbr', 'Sabra04G0136900' => 'sbr', 'Sabra08G0013400' => 'sbr', 'Sabra08G0116800' => 'sbr', 'Sabra09G0128000' => 'sbr', 'Sabra10G0055500' => 'sbr', 'Sabra10G0073300' => 'sbr', 'SalBow3G0385' => 'sbo', 'SalBow3G1119' => 'sbo', 'SalBow3G2005' => 'sbo', 'SalBow6G2563' => 'sbo', 'SalBow6G6386' => 'sbo', 'Sc06g0008800' => 'sci', 'Sc07g0004950' => 'sci', 'Sc09g0005340' => 'sci', 'Sc13g0004410' => 'sci', 'Sc21g0007090' => 'sci', 'Sed0009285' => 'sed', 'Sed0017583' => 'sed', 'Sed0019699' => 'sed', 'Sed0023107' => 'sed', 'SEGI_10916' => 'sgi', 'SEGI_16217' => 'sgi', 'SEGI_19466' => 'sgi', 'SEGI_41115' => 'sgi', 'SGA_v2.0_scaffold111G31534' => 'sas', 'SGA_v2.0_scaffold22G09864' => 'sas', 'SGA_v2.0_scaffold338G49219' => 'sas', 'SGA_v2.0_scaffold92G28298' => 'sas', 'SMO119G0064' => 'smo', 'SMO223G0038' => 'smo', 'SMO347G0584' => 'smo', 'SMO351G0010' => 'smo', 'SMO356G0404' => 'smo', 'Solyc01g103920.3' => 'sly', 'Solyc04g009710.2' => 'sly', 'Solyc05g055280.2' => 'sly', 'Solyc10g044520.3' => 'sly', 'Solyc10g075160.1' => 'sly', 'Solyc11g006910.3' => 'sly', 'Solyc11g068430.3' => 'sly', 'Sopen01g046310' => 'spe', 'Sopen03g001200' => 'spe', 'Sopen04g004830' => 'spe', 'Sopen05g033720' => 'spe', 'Sopen06g030740' => 'spe', 'Sopen10g013090' => 'spe', 'Sopen10g027630' => 'spe', 'Sopen10g027640' => 'spe', 'Sopen11g002820' => 'spe', 'Sopen11g027140' => 'spe', 'Sp1g09680' => 'spa', 'Sp2g03630' => 'spa', 'Sp4g10320' => 'spa', 'Sp6g33400' => 'spa', 'Sp7g13030' => 'spa', 'TAR365G0317' => 'tar', 'TAR376G0979' => 'tar', 'TAR623G1665' => 'tar', 'TAR633G2373' => 'tar', 'TAR636G1400' => 'tar', 'THA.LOC104800529' => 'tha', 'THA.LOC104808547' => 'tha', 'THA.LOC104809615' => 'tha', 'THA.LOC104815724' => 'tha', 'THA.LOC104818480' => 'tha', 'THA.LOC104819179' => 'tha', 'THA.LOC104822270' => 'tha', 'THA.LOC104826425' => 'tha', 'Thecc.02G089700' => 'tca', 'Thecc.04G232300' => 'tca', 'Thecc.09G283400' => 'tca', 'Thhalv10009020m.g' => 'esa', 'Thhalv10015506m.g' => 'esa', 'Thhalv10017364m.g' => 'esa', 'Thhalv10023742m.g' => 'esa', 'Thhalv10026483m.g' => 'esa', 'TPR.G17232' => 'tpr', 'TPR.G2133' => 'tpr', 'TPR.G2498' => 'tpr', 'TPR.G31942' => 'tpr', 'TPR.G37877' => 'tpr', 'TPR.G4571' => 'tpr', 'TWI14G1113' => 'twi', 'TWI15G0426' => 'twi', 'TWI31G1005' => 'twi', 'TWI38G0513' => 'twi', 'TWI38G1484' => 'twi', 'TWI73G1098' => 'twi', 'unitig_26.g10519' => 'ugi', 'unitig_736.g22395' => 'ugi', 'unitig_747.g21234' => 'ugi', 'unitig_747.g21942' => 'ugi', 'vmacro14351' => 'vma', 'VMungo0540G0082' => 'vmu', 'VMungo0540G0405' => 'vmu', 'VMungo0540G1486' => 'vmu', 'VMungo0540G1692' => 'vmu', 'VMungo0720G2473' => 'vmu', 'VMungo1127G1562' => 'vmu', 'VMungo1215G1918' => 'vmu', 'Zm00001eb052650' => 'zma', 'Zm00001eb063710' => 'zma', 'Zm00001eb083950' => 'zma', 'Zm00001eb174420' => 'zma', 'Zm00001eb260140' => 'zma', 'Zm00001eb260150' => 'zma', 'Zm00001eb260160' => 'zma', 'Zm00001eb348290' => 'zma', 'Zm00001eb366870' => 'zma', 'Zm00001eb421930' => 'zma' ), 'gf_id' => 'HOM05D001025', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001025' ), 'data_identifier' => 'HOM05D001025', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001025', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '592', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p22650' => 'bna', 'A01p29720' => 'bna', 'A03p26560' => 'bna', 'A03p68820' => 'bna', 'A04p20980' => 'bna', 'A06p07730' => 'bna', 'A07p18260' => 'bna', 'A08p33710' => 'bna', 'A09p16970' => 'bna', 'A10p27490' => 'bna', 'Aa31LG1G17300' => 'aar', 'Aa31LG1G3910' => 'aar', 'Aa31LG2G9630' => 'aar', 'Aa31LG5G8360' => 'aar', 'Aa31LG9G2410' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4699' => 'aag', 'Actinidia23512' => 'ach', 'Actinidia37080' => 'ach', 'Ah.01g020380' => 'amhyb', 'Ah.08g215710' => 'amhyb', 'Ah.09g225110' => 'amhyb', 'Ah.10g036680' => 'amhyb', 'AL1G21940' => 'aly', 'AL2G15540' => 'aly', 'AL4G21520' => 'aly', 'AL7G40960' => 'aly', 'Aqoxy2G01191' => 'aox', 'Aqoxy2G03393' => 'aox', 'Aqoxy4G02775' => 'aox', 'Aqoxy6G00058' => 'aox', 'arahy.Tifrunner.gnm1.ann1.9X74H2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CW3FX9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R485W7' => 'arhy', 'AT1G10960' => 'ath', 'AT1G60950' => 'ath', 'AT2G27510' => 'ath', 'AT4G14890' => 'ath', 'AT5G10000' => 'ath', 'ATR0665G624' => 'atr', 'ATR0697G138' => 'atr', 'ATR0776G046' => 'atr', 'ATR1134G135' => 'atr', 'Atru.chr12.1025' => 'acertr', 'Atru.chr3.3241' => 'acertr', 'Atru.chr4.2460' => 'acertr', 'AUR62007427' => 'cqu', 'AUR62010960' => 'cqu', 'AUR62012201' => 'cqu', 'AUR62021470' => 'cqu', 'AUR62022834' => 'cqu', 'AUR62033635' => 'cqu', 'AUR62036186' => 'cqu', 'BcaB01g03077' => 'bca', 'BcaB02g10093' => 'bca', 'BcaB04g20295' => 'bca', 'BcaB06g28147' => 'bca', 'BcaB07g31253' => 'bca', 'BcaC01g04946' => 'bca', 'BcaC02g10614' => 'bca', 'BcaC02g10885' => 'bca', 'BcaC04g19356' => 'bca', 'BcaC04g22297' => 'bca', 'BcaC05g24977' => 'bca', 'BcaC06g31823' => 'bca', 'BcaC07g38633' => 'bca', 'BcaC09g49353' => 'bca', 'BcaC09g50168' => 'bca', 'BcaNung00322' => 'bca', 'BcaNung04769' => 'bca', 'BolC1t02753H' => 'bol', 'BolC1t03721H' => 'bol', 'BolC3t15525H' => 'bol', 'BolC4t23903H' => 'bol', 'BolC4t24231H' => 'bol', 'BolC4t27209H' => 'bol', 'BolC5t29671H' => 'bol', 'BolC8t49044H' => 'bol', 'BolC9t54999H' => 'bol', 'BolC9t59517H' => 'bol', 'BraA01t02178Z' => 'bra', 'BraA01t03099Z' => 'bra', 'BraA03t11867Z' => 'bra', 'BraA04t17667Z' => 'bra', 'BraA07t29542Z' => 'bra', 'BraA08t35287Z' => 'bra', 'BraA09t37334Z' => 'bra', 'BraA10t44801Z' => 'bra', 'BraSC39t46181Z' => 'bra', 'C01p28240' => 'bna', 'C01p37530' => 'bna', 'C03p31820' => 'bna', 'C04p24080' => 'bna', 'C04p25790' => 'bna', 'C04p56770' => 'bna', 'C05p09310' => 'bna', 'C09p21010' => 'bna', 'C09p67560' => 'bna', 'CAN.G1324.7' => 'can', 'CAN.G1358.10' => 'can', 'CAN.G1550.2' => 'can', 'CAN.G186.56' => 'can', 'CAN.G1965.1' => 'can', 'CAN.G645.15' => 'can', 'CAN.G798.26' => 'can', 'CAN.G798.27' => 'can', 'CAN.G798.29' => 'can', 'CAN.G919.31' => 'can', 'CANSAT11G0133' => 'cansat', 'CANSAT11G1171' => 'cansat', 'CANSAT11G2056' => 'cansat', 'CANSAT56G1202' => 'cansat', 'CANSAT56G1514' => 'cansat', 'CANSAT78G0455' => 'cansat', 'CARHR011190' => 'chi', 'CARHR051980' => 'chi', 'CARHR120170' => 'chi', 'CARHR203310' => 'chi', 'CARHR221490' => 'chi', 'Carub.0001s1054' => 'cru', 'Carub.0002s0431' => 'cru', 'Carub.0004s0818' => 'cru', 'Carub.0006s0846' => 'cru', 'Carub.0007s2722' => 'cru', 'Ca_00058_v3' => 'car', 'Ca_17831_v3' => 'car', 'Ca_19408_v3' => 'car', 'Ca_24397_v3' => 'car', 'Ca_25664_v3' => 'car', 'CBR_g21818' => 'cbr', 'CBR_g31195' => 'cbr', 'CBR_g32282' => 'cbr', 'CBR_g39599' => 'cbr', 'CBR_g49410' => 'cbr', 'Cc01_g09120' => 'ccan', 'Cc01_g09130' => 'ccan', 'Cc02_g09630' => 'ccan', 'Cc02_g22810' => 'ccan', 'Cc03_g03810' => 'ccan', 'CDE02G3718' => 'cde', 'CDE04G3183' => 'cde', 'CDE07G1046' => 'cde', 'CDE08G0480' => 'cde', 'Cfa005493' => 'cfa', 'Cfa010312' => 'cfa', 'Cfa015648' => 'cfa', 'Ciclev10002793m.g' => 'ccl', 'Ciclev10003356m.g' => 'ccl', 'Ciclev10006141m.g' => 'ccl', 'Ciclev10016676m.g' => 'ccl', 'Ciclev10017081m.g' => 'ccl', 'Ciclev10029499m.g' => 'ccl', 'CiPaw.01G166300' => 'cil', 'CiPaw.06G145600' => 'cil', 'CiPaw.13G040100' => 'cil', 'CiPaw.13G135800' => 'cil', 'ClCG01G012230' => 'cla', 'ClCG05G009510' => 'cla', 'ClCG08G008270' => 'cla', 'COL.COLO4_11763' => 'col', 'COL.COLO4_19876' => 'col', 'COL.COLO4_21481' => 'col', 'Cpa.g.sc118.34' => 'cpa', 'Cpa.g.sc32.13' => 'cpa', 'Cpa.g.sc58.103' => 'cpa', 'Cre03.g183850' => 'cre', 'Cre06.g306350' => 'cre', 'Cre07.g334800' => 'cre', 'Cre12.g487900' => 'cre', 'Cre14.g626700' => 'cre', 'Cre16.g658400' => 'cre', 'Cre17.g700950' => 'cre', 'CsaV3_1G014830' => 'csa', 'CsaV3_3G013320' => 'csa', 'CsaV3_3G019210' => 'csa', 'CsaV3_3G019220' => 'csa', 'CsaV3_6G004230' => 'csa', 'CSS0003773' => 'camsi', 'CSS0004563' => 'camsi', 'CSS0013949' => 'camsi', 'CSS0025971' => 'camsi', 'CSS0028570' => 'camsi', 'CSS0033127' => 'camsi', 'CSS0036051' => 'camsi', 'CSS0040087' => 'camsi', 'CSS0043179' => 'camsi', 'DCAR_006161' => 'dca', 'DCAR_010351' => 'dca', 'DCAR_012197' => 'dca', 'DCAR_024162' => 'dca', 'Dinv01030' => 'din', 'Dinv10924' => 'din', 'Dinv11835' => 'din', 'Dinv22841' => 'din', 'Dinv42553' => 'din', 'Duzib052G0560' => 'dzi', 'Duzib132G0389' => 'dzi', 'Duzib150G1181' => 'dzi', 'Duzib168G0623' => 'dzi', 'Duzib170G1036' => 'dzi', 'Duzib212G0200' => 'dzi', 'Duzib248G0194' => 'dzi', 'ECA232G2193' => 'eca', 'ECA233G0302' => 'eca', 'ECA234G2813' => 'eca', 'ECA234G4866' => 'eca', 'ECA240G3932' => 'eca', 'ECA248G0385' => 'eca', 'EL10Ac2g04781' => 'bvu', 'EL10Ac3g06445' => 'bvu', 'EL10Ac7g15825' => 'bvu', 'EL10Ac8g18550' => 'bvu', 'Eucgr.B03849' => 'egr', 'Eucgr.I02744' => 'egr', 'Eucgr.J00264' => 'egr', 'Eucgr.J00493' => 'egr', 'FAN04G2181' => 'fan', 'FAN07G2666' => 'fan', 'FAN11G0024' => 'fan', 'FAN12G1105' => 'fan', 'FAN13G0302' => 'fan', 'FAN15G2781' => 'fan', 'FAN16G1274' => 'fan', 'FAN17G2988' => 'fan', 'FAN18G2621' => 'fan', 'FAN21G0013' => 'fan', 'FAN22G1211' => 'fan', 'FAN25G3626' => 'fan', 'FvH4_2g09491' => 'fve', 'FvH4_3g24910' => 'fve', 'FvH4_4g15630' => 'fve', 'FvH4_5g28820' => 'fve', 'Glyma.01G238000' => 'gma', 'Glyma.05G168400' => 'gma', 'Glyma.08G126800' => 'gma', 'Glyma.08G188500' => 'gma', 'Glyma.10G278900' => 'gma', 'Glyma.11G005700' => 'gma', 'Glyma.11G183300' => 'gma', 'Glyma.12G089200' => 'gma', 'Glyma.12G169400' => 'gma', 'Glyma.12G169500' => 'gma', 'Glyma.12G169600' => 'gma', 'Glyma.20G110800' => 'gma', 'Gohir.A03G192900' => 'ghi', 'Gohir.A03G193000' => 'ghi', 'Gohir.A05G080700' => 'ghi', 'Gohir.A09G216000' => 'ghi', 'Gohir.A12G027700' => 'ghi', 'Gohir.A13G036200' => 'ghi', 'Gohir.A13G222600' => 'ghi', 'Gohir.D02G213900' => 'ghi', 'Gohir.D02G214000' => 'ghi', 'Gohir.D05G083700' => 'ghi', 'Gohir.D05G083800' => 'ghi', 'Gohir.D05G083850' => 'ghi', 'Gohir.D08G015400' => 'ghi', 'Gohir.D09G218400' => 'ghi', 'Gohir.D12G027100' => 'ghi', 'Gohir.D13G034500' => 'ghi', 'Gohir.D13G227400' => 'ghi', 'Gorai.005G241800' => 'gra', 'Gorai.005G241900' => 'gra', 'Gorai.006G239400' => 'gra', 'Gorai.008G027600' => 'gra', 'Gorai.009G085400' => 'gra', 'Gorai.009G085500' => 'gra', 'Gorai.013G039000' => 'gra', 'Gorai.013G194800' => 'gra', 'Gorai.013G257900' => 'gra', 'GSVIVG01000982001' => 'vvi', 'GSVIVG01017981001' => 'vvi', 'HanXRQChr01g0024061' => 'han', 'HanXRQChr09g0247831' => 'han', 'HanXRQChr10g0294611' => 'han', 'HanXRQChr10g0294621' => 'han', 'HanXRQChr11g0346821' => 'han', 'HanXRQChr13g0397461' => 'han', 'HanXRQChr16g0513651' => 'han', 'HanXRQChr16g0513701' => 'han', 'Haze_00897' => 'cav', 'Haze_01745' => 'cav', 'Haze_02486' => 'cav', 'Haze_02487' => 'cav', 'Haze_23374' => 'cav', 'Hma1.2p1_0578F.1_g182520' => 'hma', 'Hma1.2p1_0602F.1_g187350' => 'hma', 'Hma1.2p1_0602F.1_g187360' => 'hma', 'Hma1.2p1_0874F.1_g231320' => 'hma', 'Hma1.2p1_1197F.1_g266210' => 'hma', 'Hma1.2p1_1197F.1_g266220' => 'hma', 'Hma1.2p1_2167F.1_g315895' => 'hma', 'Hma1.2p1_2190F.1_g316640' => 'hma', 'Hma1.2p1_3645F.1_g337153' => 'hma', 'HPP92_004907' => 'vpl', 'HPP92_012134' => 'vpl', 'HPP92_025136' => 'vpl', 'HPP92_026087' => 'vpl', 'Hund06782' => 'sun', 'Hund06784' => 'sun', 'Lalb_Chr01g0004861' => 'lal', 'Lalb_Chr02g0140591' => 'lal', 'Lalb_Chr02g0140611' => 'lal', 'Lalb_Chr03g0028101' => 'lal', 'Lalb_Chr07g0185791' => 'lal', 'Lalb_Chr12g0204491' => 'lal', 'Lalb_Chr13g0295671' => 'lal', 'Lalb_Chr19g0136461' => 'lal', 'Lalb_Chr21g0309191' => 'lal', 'Lj1g0028158' => 'lja', 'Lj1P236T38' => 'lonja', 'Lj2C32G2' => 'lonja', 'Lj2P944T8' => 'lonja', 'Lj2P963T15' => 'lonja', 'Lj3g0011788' => 'lja', 'Lj4g0025027' => 'lja', 'Lj5P255T36' => 'lonja', 'Lj6g0018866' => 'lja', 'Lj6P608T31' => 'lonja', 'LjContig00408g0008879' => 'lja', 'Lsat_1_v5_gn_5_105820' => 'lsa', 'Lsat_1_v5_gn_6_38800' => 'lsa', 'Lsat_1_v5_gn_7_67141' => 'lsa', 'Manes.04G003400' => 'mes', 'Manes.07G020000' => 'mes', 'Manes.07G020100' => 'mes', 'Manes.07G020150' => 'mes', 'Manes.10G061500' => 'mes', 'Manes.10G123200' => 'mes', 'Manes.11G161900' => 'mes', 'Manes.15G029300' => 'mes', 'Mapoly0071s0018' => 'mpo', 'Mapoly0082s0023' => 'mpo', 'Mapoly3477s0001' => 'mpo', 'MBI05_g31233_MAGBIO' => 'mbi', 'MBI09_g05946_MAGBIO' => 'mbi', 'MBI09_g05947_MAGBIO' => 'mbi', 'MBI17_g08346_MAGBIO' => 'mbi', 'MCO04G038' => 'mco', 'MCO09G370' => 'mco', 'MCO13G605' => 'mco', 'MD00G1075500' => 'mdo', 'MD03G1144300' => 'mdo', 'MD08G1236800' => 'mdo', 'MD13G1193300' => 'mdo', 'MD15G1428700' => 'mdo', 'Medtr1g112030' => 'mtr', 'Medtr1g112050' => 'mtr', 'Medtr2g006290' => 'mtr', 'Medtr2g086510' => 'mtr', 'Medtr4g053120' => 'mtr', 'Medtr5g006320' => 'mtr', 'Medtr8g088720' => 'mtr', 'MELO3C004712.2' => 'cme', 'MELO3C006533.2' => 'cme', 'MELO3C019438.2' => 'cme', 'MELO3C019440.2' => 'cme', 'MELO3C019441.2' => 'cme', 'MELO3C019895.2' => 'cme', 'Migut.B00811' => 'egut', 'Migut.D02447' => 'egut', 'Migut.F00875' => 'egut', 'Migut.N00186' => 'egut', 'Migut.N01051' => 'egut', 'Migut.N02491' => 'egut', 'Migut.O00784' => 'egut', 'MSTRG.12367' => 'ama', 'MSTRG.18756' => 'ama', 'MSTRG.21042' => 'ama', 'Nitab4.5_0000559g0040' => 'nta', 'Nitab4.5_0000667g0190' => 'nta', 'Nitab4.5_0000755g0160' => 'nta', 'Nitab4.5_0001216g0080' => 'nta', 'Nitab4.5_0004069g0040' => 'nta', 'Nitab4.5_0004129g0010' => 'nta', 'Nitab4.5_0005744g0030' => 'nta', 'Nitab4.5_0006996g0030' => 'nta', 'Nitab4.5_0008971g0040' => 'nta', 'Nitab4.5_0009769g0020' => 'nta', 'Nitab4.5_0009833g0010' => 'nta', 'Nitab4.5_0013140g0020' => 'nta', 'Nn003s41376' => 'nnu', 'Nn1g01857' => 'nnu', 'Nn1g03611' => 'nnu', 'Nn1g06853' => 'nnu', 'Nn3g18360' => 'nnu', 'Nn4g26328' => 'nnu', 'Nn5g27531' => 'nnu', 'Nn6g34899' => 'nnu', 'Nn7g36299' => 'nnu', 'Oeu021485.1' => 'oeu', 'Oeu022433.1' => 'oeu', 'Oeu032111.1' => 'oeu', 'Oeu051608.1' => 'oeu', 'Os01g0860601' => 'osa', 'Os03g0659200' => 'osa', 'Os03g0835900' => 'osa', 'Os04g0412200' => 'osa', 'Os05g0443500' => 'osa', 'Os07g0251500' => 'osa', 'Os08g0104600' => 'osa', 'Peaxi162Scf00003g00047' => 'pax', 'Peaxi162Scf00003g00052' => 'pax', 'Peaxi162Scf00003g00394' => 'pax', 'Peaxi162Scf00091g00621' => 'pax', 'Peaxi162Scf00152g00146' => 'pax', 'Peaxi162Scf00173g00025' => 'pax', 'Peaxi162Scf00195g00102' => 'pax', 'Peaxi162Scf00402g00013' => 'pax', 'Peaxi162Scf00519g00618' => 'pax', 'PGR004G2838' => 'pgr', 'PGR044G2275' => 'pgr', 'PGR102G1377' => 'pgr', 'PGR119G1245' => 'pgr', 'PGR142G4449' => 'pgr', 'PGSC0003DMG400004532' => 'stu', 'PGSC0003DMG400011950' => 'stu', 'PGSC0003DMG400023391' => 'stu', 'PGSC0003DMG400023985' => 'stu', 'PGSC0003DMG400026360' => 'stu', 'PGSC0003DMG400035711' => 'stu', 'PGSC0003DMG400037286' => 'stu', 'PGSC0003DMG402005881' => 'stu', 'Phvul.002G045400' => 'pvu', 'Phvul.006G216600' => 'pvu', 'Phvul.006G216700' => 'pvu', 'Phvul.006G216800' => 'pvu', 'Phvul.007G022500' => 'pvu', 'Phvul.011G094400' => 'pvu', 'Potri.001G470700' => 'ptr', 'Potri.003G015200' => 'ptr', 'Potri.004G202500' => 'ptr', 'Potri.004G218400' => 'ptr', 'Potri.008G020100' => 'ptr', 'Potri.008G153200' => 'ptr', 'Potri.009G163800' => 'ptr', 'Potri.010G087300' => 'ptr', 'Potri.010G239100' => 'ptr', 'Pp3c10_16100' => 'ppa', 'Pp3c10_16880' => 'ppa', 'Pp3c16_6230' => 'ppa', 'Pp3c17_18910' => 'ppa', 'Pp3c3_22119' => 'ppa', 'Pp3c3_22140' => 'ppa', 'Pp3c4_8159' => 'ppa', 'Pp3c4_8171' => 'ppa', 'Pp3c4_8330' => 'ppa', 'PRCOL_00004098' => 'pco', 'Prupe.1G013900' => 'ppe', 'Prupe.1G226300' => 'ppe', 'Prupe.1G573600' => 'ppe', 'Prupe.6G130100' => 'ppe', 'Psat3g090040' => 'psa', 'Psat4g210440' => 'psa', 'Psat6g231040' => 'psa', 'Psat6g231080' => 'psa', 'Psat7g063000' => 'psa', 'Psat7g188000' => 'psa', 'Psat7g188040' => 'psa', 'PSO017G0206' => 'pso', 'PSO170G0501' => 'pso', 'PSO170G6422' => 'pso', 'PSO210G7739' => 'pso', 'PSO339G1808' => 'pso', 'PSO339G6135' => 'pso', 'PSO384G0010' => 'pso', 'PSO384G0964' => 'pso', 'PSO761G0050' => 'pso', 'PSO782G4085' => 'pso', 'QL01p012264' => 'qlo', 'QL02p099491' => 'qlo', 'QL03p033868' => 'qlo', 'QL04p046678' => 'qlo', 'QL06p002448' => 'qlo', 'RcHm_v2.0_Chr4g0416181' => 'rch', 'RcHm_v2.0_Chr5g0044701' => 'rch', 'RcHm_v2.0_Chr6g0265781' => 'rch', 'RcHm_v2.0_Chr7g0221031' => 'rch', 'Rhsim04G0202000' => 'rsi', 'Rhsim11G0127300' => 'rsi', 'Rhsim13G0111800' => 'rsi', 'Sabra01G0165600' => 'sbr', 'Sabra03G0008300' => 'sbr', 'Sabra04G0136900' => 'sbr', 'Sabra08G0013400' => 'sbr', 'Sabra08G0116800' => 'sbr', 'Sabra09G0128000' => 'sbr', 'Sabra10G0055500' => 'sbr', 'Sabra10G0073300' => 'sbr', 'SalBow3G0385' => 'sbo', 'SalBow3G1119' => 'sbo', 'SalBow3G2005' => 'sbo', 'SalBow6G2563' => 'sbo', 'SalBow6G6386' => 'sbo', 'Sc06g0008800' => 'sci', 'Sc07g0004950' => 'sci', 'Sc09g0005340' => 'sci', 'Sc13g0004410' => 'sci', 'Sc21g0007090' => 'sci', 'Sed0009285' => 'sed', 'Sed0017583' => 'sed', 'Sed0019699' => 'sed', 'Sed0023107' => 'sed', 'SEGI_10916' => 'sgi', 'SEGI_16217' => 'sgi', 'SEGI_19466' => 'sgi', 'SEGI_41115' => 'sgi', 'SGA_v2.0_scaffold111G31534' => 'sas', 'SGA_v2.0_scaffold22G09864' => 'sas', 'SGA_v2.0_scaffold338G49219' => 'sas', 'SGA_v2.0_scaffold92G28298' => 'sas', 'SMO119G0064' => 'smo', 'SMO223G0038' => 'smo', 'SMO347G0584' => 'smo', 'SMO351G0010' => 'smo', 'SMO356G0404' => 'smo', 'Solyc01g103920.3' => 'sly', 'Solyc04g009710.2' => 'sly', 'Solyc05g055280.2' => 'sly', 'Solyc10g044520.3' => 'sly', 'Solyc10g075160.1' => 'sly', 'Solyc11g006910.3' => 'sly', 'Solyc11g068430.3' => 'sly', 'Sopen01g046310' => 'spe', 'Sopen03g001200' => 'spe', 'Sopen04g004830' => 'spe', 'Sopen05g033720' => 'spe', 'Sopen06g030740' => 'spe', 'Sopen10g013090' => 'spe', 'Sopen10g027630' => 'spe', 'Sopen10g027640' => 'spe', 'Sopen11g002820' => 'spe', 'Sopen11g027140' => 'spe', 'Sp1g09680' => 'spa', 'Sp2g03630' => 'spa', 'Sp4g10320' => 'spa', 'Sp6g33400' => 'spa', 'Sp7g13030' => 'spa', 'TAR365G0317' => 'tar', 'TAR376G0979' => 'tar', 'TAR623G1665' => 'tar', 'TAR633G2373' => 'tar', 'TAR636G1400' => 'tar', 'THA.LOC104800529' => 'tha', 'THA.LOC104808547' => 'tha', 'THA.LOC104809615' => 'tha', 'THA.LOC104815724' => 'tha', 'THA.LOC104818480' => 'tha', 'THA.LOC104819179' => 'tha', 'THA.LOC104822270' => 'tha', 'THA.LOC104826425' => 'tha', 'Thecc.02G089700' => 'tca', 'Thecc.04G232300' => 'tca', 'Thecc.09G283400' => 'tca', 'Thhalv10009020m.g' => 'esa', 'Thhalv10015506m.g' => 'esa', 'Thhalv10017364m.g' => 'esa', 'Thhalv10023742m.g' => 'esa', 'Thhalv10026483m.g' => 'esa', 'TPR.G17232' => 'tpr', 'TPR.G2133' => 'tpr', 'TPR.G2498' => 'tpr', 'TPR.G31942' => 'tpr', 'TPR.G37877' => 'tpr', 'TPR.G4571' => 'tpr', 'TWI14G1113' => 'twi', 'TWI15G0426' => 'twi', 'TWI31G1005' => 'twi', 'TWI38G0513' => 'twi', 'TWI38G1484' => 'twi', 'TWI73G1098' => 'twi', 'unitig_26.g10519' => 'ugi', 'unitig_736.g22395' => 'ugi', 'unitig_747.g21234' => 'ugi', 'unitig_747.g21942' => 'ugi', 'vmacro14351' => 'vma', 'VMungo0540G0082' => 'vmu', 'VMungo0540G0405' => 'vmu', 'VMungo0540G1486' => 'vmu', 'VMungo0540G1692' => 'vmu', 'VMungo0720G2473' => 'vmu', 'VMungo1127G1562' => 'vmu', 'VMungo1215G1918' => 'vmu', 'Zm00001eb052650' => 'zma', 'Zm00001eb063710' => 'zma', 'Zm00001eb083950' => 'zma', 'Zm00001eb174420' => 'zma', 'Zm00001eb260140' => 'zma', 'Zm00001eb260150' => 'zma', 'Zm00001eb260160' => 'zma', 'Zm00001eb348290' => 'zma', 'Zm00001eb366870' => 'zma', 'Zm00001eb421930' => 'zma' ) $gf_id = 'HOM05D001025' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001025' ) $data_identifier = 'HOM05D001025' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 19, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 2, 'amhyb' => (int) 4, 'aly' => (int) 4, 'aox' => (int) 4, 'arhy' => (int) 3, 'ath' => (int) 5, 'atr' => (int) 4, 'acertr' => (int) 3, 'cqu' => (int) 7, 'bca' => (int) 17, 'bol' => (int) 10, 'bra' => (int) 9, 'can' => (int) 10, 'cansat' => (int) 6, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 5, 'cbr' => (int) 5, 'ccan' => (int) 5, 'cde' => (int) 4, 'cfa' => (int) 3, 'ccl' => (int) 6, 'cil' => (int) 4, 'cla' => (int) 3, 'col' => (int) 3, 'cpa' => (int) 3, 'cre' => (int) 7, 'csa' => (int) 5, 'camsi' => (int) 9, 'dca' => (int) 4, 'din' => (int) 5, 'dzi' => (int) 7, 'eca' => (int) 6, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 12, 'fve' => (int) 4, 'gma' => (int) 12, 'ghi' => (int) 17, 'gra' => (int) 9, 'vvi' => (int) 2, 'han' => (int) 8, 'cav' => (int) 5, 'hma' => (int) 9, 'vpl' => (int) 4, 'sun' => (int) 2, 'lal' => (int) 9, 'lja' => (int) 5, 'lonja' => (int) 6, 'lsa' => (int) 3, 'mes' => (int) 8, 'mpo' => (int) 3, 'mbi' => (int) 4, 'mco' => (int) 3, 'mdo' => (int) 5, 'mtr' => (int) 7, 'cme' => (int) 6, 'egut' => (int) 7, 'ama' => (int) 3, 'nta' => (int) 12, 'nnu' => (int) 9, 'oeu' => (int) 4, 'osa' => (int) 7, 'pax' => (int) 9, 'pgr' => (int) 5, 'stu' => (int) 8, 'pvu' => (int) 6, 'ptr' => (int) 9, 'ppa' => (int) 9, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 7, 'pso' => (int) 10, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 3, 'sbr' => (int) 8, 'sbo' => (int) 5, 'sci' => (int) 5, 'sed' => (int) 4, 'sgi' => (int) 4, 'sas' => (int) 4, 'smo' => (int) 5, 'sly' => (int) 7, 'spe' => (int) 10, 'spa' => (int) 5, 'tar' => (int) 5, 'tha' => (int) 8, 'tca' => (int) 3, 'esa' => (int) 5, 'tpr' => (int) 6, 'twi' => (int) 6, 'ugi' => (int) 4, 'vma' => (int) 1, 'vmu' => (int) 7, 'zma' => (int) 10 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb421930' $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' => 'HOM05D001025', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '592', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p22650' => 'bna', 'A01p29720' => 'bna', 'A03p26560' => 'bna', 'A03p68820' => 'bna', 'A04p20980' => 'bna', 'A06p07730' => 'bna', 'A07p18260' => 'bna', 'A08p33710' => 'bna', 'A09p16970' => 'bna', 'A10p27490' => 'bna', 'Aa31LG1G17300' => 'aar', 'Aa31LG1G3910' => 'aar', 'Aa31LG2G9630' => 'aar', 'Aa31LG5G8360' => 'aar', 'Aa31LG9G2410' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4699' => 'aag', 'Actinidia23512' => 'ach', 'Actinidia37080' => 'ach', 'Ah.01g020380' => 'amhyb', 'Ah.08g215710' => 'amhyb', 'Ah.09g225110' => 'amhyb', 'Ah.10g036680' => 'amhyb', 'AL1G21940' => 'aly', 'AL2G15540' => 'aly', 'AL4G21520' => 'aly', 'AL7G40960' => 'aly', 'Aqoxy2G01191' => 'aox', 'Aqoxy2G03393' => 'aox', 'Aqoxy4G02775' => 'aox', 'Aqoxy6G00058' => 'aox', 'arahy.Tifrunner.gnm1.ann1.9X74H2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CW3FX9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R485W7' => 'arhy', 'AT1G10960' => 'ath', 'AT1G60950' => 'ath', 'AT2G27510' => 'ath', 'AT4G14890' => 'ath', 'AT5G10000' => 'ath', 'ATR0665G624' => 'atr', 'ATR0697G138' => 'atr', 'ATR0776G046' => 'atr', 'ATR1134G135' => 'atr', 'Atru.chr12.1025' => 'acertr', 'Atru.chr3.3241' => 'acertr', 'Atru.chr4.2460' => 'acertr', 'AUR62007427' => 'cqu', 'AUR62010960' => 'cqu', 'AUR62012201' => 'cqu', 'AUR62021470' => 'cqu', 'AUR62022834' => 'cqu', 'AUR62033635' => 'cqu', 'AUR62036186' => 'cqu', 'BcaB01g03077' => 'bca', 'BcaB02g10093' => 'bca', 'BcaB04g20295' => 'bca', 'BcaB06g28147' => 'bca', 'BcaB07g31253' => 'bca', 'BcaC01g04946' => 'bca', 'BcaC02g10614' => 'bca', 'BcaC02g10885' => 'bca', 'BcaC04g19356' => 'bca', 'BcaC04g22297' => 'bca', 'BcaC05g24977' => 'bca', 'BcaC06g31823' => 'bca', 'BcaC07g38633' => 'bca', 'BcaC09g49353' => 'bca', 'BcaC09g50168' => 'bca', 'BcaNung00322' => 'bca', 'BcaNung04769' => 'bca', 'BolC1t02753H' => 'bol', 'BolC1t03721H' => 'bol', 'BolC3t15525H' => 'bol', 'BolC4t23903H' => 'bol', 'BolC4t24231H' => 'bol', 'BolC4t27209H' => 'bol', 'BolC5t29671H' => 'bol', 'BolC8t49044H' => 'bol', 'BolC9t54999H' => 'bol', 'BolC9t59517H' => 'bol', 'BraA01t02178Z' => 'bra', 'BraA01t03099Z' => 'bra', 'BraA03t11867Z' => 'bra', 'BraA04t17667Z' => 'bra', 'BraA07t29542Z' => 'bra', 'BraA08t35287Z' => 'bra', 'BraA09t37334Z' => 'bra', 'BraA10t44801Z' => 'bra', 'BraSC39t46181Z' => 'bra', 'C01p28240' => 'bna', 'C01p37530' => 'bna', 'C03p31820' => 'bna', 'C04p24080' => 'bna', 'C04p25790' => 'bna', 'C04p56770' => 'bna', 'C05p09310' => 'bna', 'C09p21010' => 'bna', 'C09p67560' => 'bna', 'CAN.G1324.7' => 'can', 'CAN.G1358.10' => 'can', 'CAN.G1550.2' => 'can', 'CAN.G186.56' => 'can', 'CAN.G1965.1' => 'can', 'CAN.G645.15' => 'can', 'CAN.G798.26' => 'can', 'CAN.G798.27' => 'can', 'CAN.G798.29' => 'can', 'CAN.G919.31' => 'can', 'CANSAT11G0133' => 'cansat', 'CANSAT11G1171' => 'cansat', 'CANSAT11G2056' => 'cansat', 'CANSAT56G1202' => 'cansat', 'CANSAT56G1514' => 'cansat', 'CANSAT78G0455' => 'cansat', 'CARHR011190' => 'chi', 'CARHR051980' => 'chi', 'CARHR120170' => 'chi', 'CARHR203310' => 'chi', 'CARHR221490' => 'chi', 'Carub.0001s1054' => 'cru', 'Carub.0002s0431' => 'cru', 'Carub.0004s0818' => 'cru', 'Carub.0006s0846' => 'cru', 'Carub.0007s2722' => 'cru', 'Ca_00058_v3' => 'car', 'Ca_17831_v3' => 'car', 'Ca_19408_v3' => 'car', 'Ca_24397_v3' => 'car', 'Ca_25664_v3' => 'car', 'CBR_g21818' => 'cbr', 'CBR_g31195' => 'cbr', 'CBR_g32282' => 'cbr', 'CBR_g39599' => 'cbr', 'CBR_g49410' => 'cbr', 'Cc01_g09120' => 'ccan', 'Cc01_g09130' => 'ccan', 'Cc02_g09630' => 'ccan', 'Cc02_g22810' => 'ccan', 'Cc03_g03810' => 'ccan', 'CDE02G3718' => 'cde', 'CDE04G3183' => 'cde', 'CDE07G1046' => 'cde', 'CDE08G0480' => 'cde', 'Cfa005493' => 'cfa', 'Cfa010312' => 'cfa', 'Cfa015648' => 'cfa', 'Ciclev10002793m.g' => 'ccl', 'Ciclev10003356m.g' => 'ccl', 'Ciclev10006141m.g' => 'ccl', 'Ciclev10016676m.g' => 'ccl', 'Ciclev10017081m.g' => 'ccl', 'Ciclev10029499m.g' => 'ccl', 'CiPaw.01G166300' => 'cil', 'CiPaw.06G145600' => 'cil', 'CiPaw.13G040100' => 'cil', 'CiPaw.13G135800' => 'cil', 'ClCG01G012230' => 'cla', 'ClCG05G009510' => 'cla', 'ClCG08G008270' => 'cla', 'COL.COLO4_11763' => 'col', 'COL.COLO4_19876' => 'col', 'COL.COLO4_21481' => 'col', 'Cpa.g.sc118.34' => 'cpa', 'Cpa.g.sc32.13' => 'cpa', 'Cpa.g.sc58.103' => 'cpa', 'Cre03.g183850' => 'cre', 'Cre06.g306350' => 'cre', 'Cre07.g334800' => 'cre', 'Cre12.g487900' => 'cre', 'Cre14.g626700' => 'cre', 'Cre16.g658400' => 'cre', 'Cre17.g700950' => 'cre', 'CsaV3_1G014830' => 'csa', 'CsaV3_3G013320' => 'csa', 'CsaV3_3G019210' => 'csa', 'CsaV3_3G019220' => 'csa', 'CsaV3_6G004230' => 'csa', 'CSS0003773' => 'camsi', 'CSS0004563' => 'camsi', 'CSS0013949' => 'camsi', 'CSS0025971' => 'camsi', 'CSS0028570' => 'camsi', 'CSS0033127' => 'camsi', 'CSS0036051' => 'camsi', 'CSS0040087' => 'camsi', 'CSS0043179' => 'camsi', 'DCAR_006161' => 'dca', 'DCAR_010351' => 'dca', 'DCAR_012197' => 'dca', 'DCAR_024162' => 'dca', 'Dinv01030' => 'din', 'Dinv10924' => 'din', 'Dinv11835' => 'din', 'Dinv22841' => 'din', 'Dinv42553' => 'din', 'Duzib052G0560' => 'dzi', 'Duzib132G0389' => 'dzi', 'Duzib150G1181' => 'dzi', 'Duzib168G0623' => 'dzi', 'Duzib170G1036' => 'dzi', 'Duzib212G0200' => 'dzi', 'Duzib248G0194' => 'dzi', 'ECA232G2193' => 'eca', 'ECA233G0302' => 'eca', 'ECA234G2813' => 'eca', 'ECA234G4866' => 'eca', 'ECA240G3932' => 'eca', 'ECA248G0385' => 'eca', 'EL10Ac2g04781' => 'bvu', 'EL10Ac3g06445' => 'bvu', 'EL10Ac7g15825' => 'bvu', 'EL10Ac8g18550' => 'bvu', 'Eucgr.B03849' => 'egr', 'Eucgr.I02744' => 'egr', 'Eucgr.J00264' => 'egr', 'Eucgr.J00493' => 'egr', 'FAN04G2181' => 'fan', 'FAN07G2666' => 'fan', 'FAN11G0024' => 'fan', 'FAN12G1105' => 'fan', 'FAN13G0302' => 'fan', 'FAN15G2781' => 'fan', 'FAN16G1274' => 'fan', 'FAN17G2988' => 'fan', 'FAN18G2621' => 'fan', 'FAN21G0013' => 'fan', 'FAN22G1211' => 'fan', 'FAN25G3626' => 'fan', 'FvH4_2g09491' => 'fve', 'FvH4_3g24910' => 'fve', 'FvH4_4g15630' => 'fve', 'FvH4_5g28820' => 'fve', 'Glyma.01G238000' => 'gma', 'Glyma.05G168400' => 'gma', 'Glyma.08G126800' => 'gma', 'Glyma.08G188500' => 'gma', 'Glyma.10G278900' => 'gma', 'Glyma.11G005700' => 'gma', 'Glyma.11G183300' => 'gma', 'Glyma.12G089200' => 'gma', 'Glyma.12G169400' => 'gma', 'Glyma.12G169500' => 'gma', 'Glyma.12G169600' => 'gma', 'Glyma.20G110800' => 'gma', 'Gohir.A03G192900' => 'ghi', 'Gohir.A03G193000' => 'ghi', 'Gohir.A05G080700' => 'ghi', 'Gohir.A09G216000' => 'ghi', 'Gohir.A12G027700' => 'ghi', 'Gohir.A13G036200' => 'ghi', 'Gohir.A13G222600' => 'ghi', 'Gohir.D02G213900' => 'ghi', 'Gohir.D02G214000' => 'ghi', 'Gohir.D05G083700' => 'ghi', 'Gohir.D05G083800' => 'ghi', 'Gohir.D05G083850' => 'ghi', 'Gohir.D08G015400' => 'ghi', 'Gohir.D09G218400' => 'ghi', 'Gohir.D12G027100' => 'ghi', 'Gohir.D13G034500' => 'ghi', 'Gohir.D13G227400' => 'ghi', 'Gorai.005G241800' => 'gra', 'Gorai.005G241900' => 'gra', 'Gorai.006G239400' => 'gra', 'Gorai.008G027600' => 'gra', 'Gorai.009G085400' => 'gra', 'Gorai.009G085500' => 'gra', 'Gorai.013G039000' => 'gra', 'Gorai.013G194800' => 'gra', 'Gorai.013G257900' => 'gra', 'GSVIVG01000982001' => 'vvi', 'GSVIVG01017981001' => 'vvi', 'HanXRQChr01g0024061' => 'han', 'HanXRQChr09g0247831' => 'han', 'HanXRQChr10g0294611' => 'han', 'HanXRQChr10g0294621' => 'han', 'HanXRQChr11g0346821' => 'han', 'HanXRQChr13g0397461' => 'han', 'HanXRQChr16g0513651' => 'han', 'HanXRQChr16g0513701' => 'han', 'Haze_00897' => 'cav', 'Haze_01745' => 'cav', 'Haze_02486' => 'cav', 'Haze_02487' => 'cav', 'Haze_23374' => 'cav', 'Hma1.2p1_0578F.1_g182520' => 'hma', 'Hma1.2p1_0602F.1_g187350' => 'hma', 'Hma1.2p1_0602F.1_g187360' => 'hma', 'Hma1.2p1_0874F.1_g231320' => 'hma', 'Hma1.2p1_1197F.1_g266210' => 'hma', 'Hma1.2p1_1197F.1_g266220' => 'hma', 'Hma1.2p1_2167F.1_g315895' => 'hma', 'Hma1.2p1_2190F.1_g316640' => 'hma', 'Hma1.2p1_3645F.1_g337153' => 'hma', 'HPP92_004907' => 'vpl', 'HPP92_012134' => 'vpl', 'HPP92_025136' => 'vpl', 'HPP92_026087' => 'vpl', 'Hund06782' => 'sun', 'Hund06784' => 'sun', 'Lalb_Chr01g0004861' => 'lal', 'Lalb_Chr02g0140591' => 'lal', 'Lalb_Chr02g0140611' => 'lal', 'Lalb_Chr03g0028101' => 'lal', 'Lalb_Chr07g0185791' => 'lal', 'Lalb_Chr12g0204491' => 'lal', 'Lalb_Chr13g0295671' => 'lal', 'Lalb_Chr19g0136461' => 'lal', 'Lalb_Chr21g0309191' => 'lal', 'Lj1g0028158' => 'lja', 'Lj1P236T38' => 'lonja', 'Lj2C32G2' => 'lonja', 'Lj2P944T8' => 'lonja', 'Lj2P963T15' => 'lonja', 'Lj3g0011788' => 'lja', 'Lj4g0025027' => 'lja', 'Lj5P255T36' => 'lonja', 'Lj6g0018866' => 'lja', 'Lj6P608T31' => 'lonja', 'LjContig00408g0008879' => 'lja', 'Lsat_1_v5_gn_5_105820' => 'lsa', 'Lsat_1_v5_gn_6_38800' => 'lsa', 'Lsat_1_v5_gn_7_67141' => 'lsa', 'Manes.04G003400' => 'mes', 'Manes.07G020000' => 'mes', 'Manes.07G020100' => 'mes', 'Manes.07G020150' => 'mes', 'Manes.10G061500' => 'mes', 'Manes.10G123200' => 'mes', 'Manes.11G161900' => 'mes', 'Manes.15G029300' => 'mes', 'Mapoly0071s0018' => 'mpo', 'Mapoly0082s0023' => 'mpo', 'Mapoly3477s0001' => 'mpo', 'MBI05_g31233_MAGBIO' => 'mbi', 'MBI09_g05946_MAGBIO' => 'mbi', 'MBI09_g05947_MAGBIO' => 'mbi', 'MBI17_g08346_MAGBIO' => 'mbi', 'MCO04G038' => 'mco', 'MCO09G370' => 'mco', 'MCO13G605' => 'mco', 'MD00G1075500' => 'mdo', 'MD03G1144300' => 'mdo', 'MD08G1236800' => 'mdo', 'MD13G1193300' => 'mdo', 'MD15G1428700' => 'mdo', 'Medtr1g112030' => 'mtr', 'Medtr1g112050' => 'mtr', 'Medtr2g006290' => 'mtr', 'Medtr2g086510' => 'mtr', 'Medtr4g053120' => 'mtr', 'Medtr5g006320' => 'mtr', 'Medtr8g088720' => 'mtr', 'MELO3C004712.2' => 'cme', 'MELO3C006533.2' => 'cme', 'MELO3C019438.2' => 'cme', 'MELO3C019440.2' => 'cme', 'MELO3C019441.2' => 'cme', 'MELO3C019895.2' => 'cme', 'Migut.B00811' => 'egut', 'Migut.D02447' => 'egut', 'Migut.F00875' => 'egut', 'Migut.N00186' => 'egut', 'Migut.N01051' => 'egut', 'Migut.N02491' => 'egut', 'Migut.O00784' => 'egut', 'MSTRG.12367' => 'ama', 'MSTRG.18756' => 'ama', 'MSTRG.21042' => 'ama', 'Nitab4.5_0000559g0040' => 'nta', 'Nitab4.5_0000667g0190' => 'nta', 'Nitab4.5_0000755g0160' => 'nta', 'Nitab4.5_0001216g0080' => 'nta', 'Nitab4.5_0004069g0040' => 'nta', 'Nitab4.5_0004129g0010' => 'nta', 'Nitab4.5_0005744g0030' => 'nta', 'Nitab4.5_0006996g0030' => 'nta', 'Nitab4.5_0008971g0040' => 'nta', 'Nitab4.5_0009769g0020' => 'nta', 'Nitab4.5_0009833g0010' => 'nta', 'Nitab4.5_0013140g0020' => 'nta', 'Nn003s41376' => 'nnu', 'Nn1g01857' => 'nnu', 'Nn1g03611' => 'nnu', 'Nn1g06853' => 'nnu', 'Nn3g18360' => 'nnu', 'Nn4g26328' => 'nnu', 'Nn5g27531' => 'nnu', 'Nn6g34899' => 'nnu', 'Nn7g36299' => 'nnu', 'Oeu021485.1' => 'oeu', 'Oeu022433.1' => 'oeu', 'Oeu032111.1' => 'oeu', 'Oeu051608.1' => 'oeu', 'Os01g0860601' => 'osa', 'Os03g0659200' => 'osa', 'Os03g0835900' => 'osa', 'Os04g0412200' => 'osa', 'Os05g0443500' => 'osa', 'Os07g0251500' => 'osa', 'Os08g0104600' => 'osa', 'Peaxi162Scf00003g00047' => 'pax', 'Peaxi162Scf00003g00052' => 'pax', 'Peaxi162Scf00003g00394' => 'pax', 'Peaxi162Scf00091g00621' => 'pax', 'Peaxi162Scf00152g00146' => 'pax', 'Peaxi162Scf00173g00025' => 'pax', 'Peaxi162Scf00195g00102' => 'pax', 'Peaxi162Scf00402g00013' => 'pax', 'Peaxi162Scf00519g00618' => 'pax', 'PGR004G2838' => 'pgr', 'PGR044G2275' => 'pgr', 'PGR102G1377' => 'pgr', 'PGR119G1245' => 'pgr', 'PGR142G4449' => 'pgr', 'PGSC0003DMG400004532' => 'stu', 'PGSC0003DMG400011950' => 'stu', 'PGSC0003DMG400023391' => 'stu', 'PGSC0003DMG400023985' => 'stu', 'PGSC0003DMG400026360' => 'stu', 'PGSC0003DMG400035711' => 'stu', 'PGSC0003DMG400037286' => 'stu', 'PGSC0003DMG402005881' => 'stu', 'Phvul.002G045400' => 'pvu', 'Phvul.006G216600' => 'pvu', 'Phvul.006G216700' => 'pvu', 'Phvul.006G216800' => 'pvu', 'Phvul.007G022500' => 'pvu', 'Phvul.011G094400' => 'pvu', 'Potri.001G470700' => 'ptr', 'Potri.003G015200' => 'ptr', 'Potri.004G202500' => 'ptr', 'Potri.004G218400' => 'ptr', 'Potri.008G020100' => 'ptr', 'Potri.008G153200' => 'ptr', 'Potri.009G163800' => 'ptr', 'Potri.010G087300' => 'ptr', 'Potri.010G239100' => 'ptr', 'Pp3c10_16100' => 'ppa', 'Pp3c10_16880' => 'ppa', 'Pp3c16_6230' => 'ppa', 'Pp3c17_18910' => 'ppa', 'Pp3c3_22119' => 'ppa', 'Pp3c3_22140' => 'ppa', 'Pp3c4_8159' => 'ppa', 'Pp3c4_8171' => 'ppa', 'Pp3c4_8330' => 'ppa', 'PRCOL_00004098' => 'pco', 'Prupe.1G013900' => 'ppe', 'Prupe.1G226300' => 'ppe', 'Prupe.1G573600' => 'ppe', 'Prupe.6G130100' => 'ppe', 'Psat3g090040' => 'psa', 'Psat4g210440' => 'psa', 'Psat6g231040' => 'psa', 'Psat6g231080' => 'psa', 'Psat7g063000' => 'psa', 'Psat7g188000' => 'psa', 'Psat7g188040' => 'psa', 'PSO017G0206' => 'pso', 'PSO170G0501' => 'pso', 'PSO170G6422' => 'pso', 'PSO210G7739' => 'pso', 'PSO339G1808' => 'pso', 'PSO339G6135' => 'pso', 'PSO384G0010' => 'pso', 'PSO384G0964' => 'pso', 'PSO761G0050' => 'pso', 'PSO782G4085' => 'pso', 'QL01p012264' => 'qlo', 'QL02p099491' => 'qlo', 'QL03p033868' => 'qlo', 'QL04p046678' => 'qlo', 'QL06p002448' => 'qlo', 'RcHm_v2.0_Chr4g0416181' => 'rch', 'RcHm_v2.0_Chr5g0044701' => 'rch', 'RcHm_v2.0_Chr6g0265781' => 'rch', 'RcHm_v2.0_Chr7g0221031' => 'rch', 'Rhsim04G0202000' => 'rsi', 'Rhsim11G0127300' => 'rsi', 'Rhsim13G0111800' => 'rsi', 'Sabra01G0165600' => 'sbr', 'Sabra03G0008300' => 'sbr', 'Sabra04G0136900' => 'sbr', 'Sabra08G0013400' => 'sbr', 'Sabra08G0116800' => 'sbr', 'Sabra09G0128000' => 'sbr', 'Sabra10G0055500' => 'sbr', 'Sabra10G0073300' => 'sbr', 'SalBow3G0385' => 'sbo', 'SalBow3G1119' => 'sbo', 'SalBow3G2005' => 'sbo', 'SalBow6G2563' => 'sbo', 'SalBow6G6386' => 'sbo', 'Sc06g0008800' => 'sci', 'Sc07g0004950' => 'sci', 'Sc09g0005340' => 'sci', 'Sc13g0004410' => 'sci', 'Sc21g0007090' => 'sci', 'Sed0009285' => 'sed', 'Sed0017583' => 'sed', 'Sed0019699' => 'sed', 'Sed0023107' => 'sed', 'SEGI_10916' => 'sgi', 'SEGI_16217' => 'sgi', 'SEGI_19466' => 'sgi', 'SEGI_41115' => 'sgi', 'SGA_v2.0_scaffold111G31534' => 'sas', 'SGA_v2.0_scaffold22G09864' => 'sas', 'SGA_v2.0_scaffold338G49219' => 'sas', 'SGA_v2.0_scaffold92G28298' => 'sas', 'SMO119G0064' => 'smo', 'SMO223G0038' => 'smo', 'SMO347G0584' => 'smo', 'SMO351G0010' => 'smo', 'SMO356G0404' => 'smo', 'Solyc01g103920.3' => 'sly', 'Solyc04g009710.2' => 'sly', 'Solyc05g055280.2' => 'sly', 'Solyc10g044520.3' => 'sly', 'Solyc10g075160.1' => 'sly', 'Solyc11g006910.3' => 'sly', 'Solyc11g068430.3' => 'sly', 'Sopen01g046310' => 'spe', 'Sopen03g001200' => 'spe', 'Sopen04g004830' => 'spe', 'Sopen05g033720' => 'spe', 'Sopen06g030740' => 'spe', 'Sopen10g013090' => 'spe', 'Sopen10g027630' => 'spe', 'Sopen10g027640' => 'spe', 'Sopen11g002820' => 'spe', 'Sopen11g027140' => 'spe', 'Sp1g09680' => 'spa', 'Sp2g03630' => 'spa', 'Sp4g10320' => 'spa', 'Sp6g33400' => 'spa', 'Sp7g13030' => 'spa', 'TAR365G0317' => 'tar', 'TAR376G0979' => 'tar', 'TAR623G1665' => 'tar', 'TAR633G2373' => 'tar', 'TAR636G1400' => 'tar', 'THA.LOC104800529' => 'tha', 'THA.LOC104808547' => 'tha', 'THA.LOC104809615' => 'tha', 'THA.LOC104815724' => 'tha', 'THA.LOC104818480' => 'tha', 'THA.LOC104819179' => 'tha', 'THA.LOC104822270' => 'tha', 'THA.LOC104826425' => 'tha', 'Thecc.02G089700' => 'tca', 'Thecc.04G232300' => 'tca', 'Thecc.09G283400' => 'tca', 'Thhalv10009020m.g' => 'esa', 'Thhalv10015506m.g' => 'esa', 'Thhalv10017364m.g' => 'esa', 'Thhalv10023742m.g' => 'esa', 'Thhalv10026483m.g' => 'esa', 'TPR.G17232' => 'tpr', 'TPR.G2133' => 'tpr', 'TPR.G2498' => 'tpr', 'TPR.G31942' => 'tpr', 'TPR.G37877' => 'tpr', 'TPR.G4571' => 'tpr', 'TWI14G1113' => 'twi', 'TWI15G0426' => 'twi', 'TWI31G1005' => 'twi', 'TWI38G0513' => 'twi', 'TWI38G1484' => 'twi', 'TWI73G1098' => 'twi', 'unitig_26.g10519' => 'ugi', 'unitig_736.g22395' => 'ugi', 'unitig_747.g21234' => 'ugi', 'unitig_747.g21942' => 'ugi', 'vmacro14351' => 'vma', 'VMungo0540G0082' => 'vmu', 'VMungo0540G0405' => 'vmu', 'VMungo0540G1486' => 'vmu', 'VMungo0540G1692' => 'vmu', 'VMungo0720G2473' => 'vmu', 'VMungo1127G1562' => 'vmu', 'VMungo1215G1918' => 'vmu', 'Zm00001eb052650' => 'zma', 'Zm00001eb063710' => 'zma', 'Zm00001eb083950' => 'zma', 'Zm00001eb174420' => 'zma', 'Zm00001eb260140' => 'zma', 'Zm00001eb260150' => 'zma', 'Zm00001eb260160' => 'zma', 'Zm00001eb348290' => 'zma', 'Zm00001eb366870' => 'zma', 'Zm00001eb421930' => 'zma' ), 'gf_id' => 'HOM05D001025', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001025' ), 'data_identifier' => 'HOM05D001025', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001025', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '592', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p22650' => 'bna', 'A01p29720' => 'bna', 'A03p26560' => 'bna', 'A03p68820' => 'bna', 'A04p20980' => 'bna', 'A06p07730' => 'bna', 'A07p18260' => 'bna', 'A08p33710' => 'bna', 'A09p16970' => 'bna', 'A10p27490' => 'bna', 'Aa31LG1G17300' => 'aar', 'Aa31LG1G3910' => 'aar', 'Aa31LG2G9630' => 'aar', 'Aa31LG5G8360' => 'aar', 'Aa31LG9G2410' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4699' => 'aag', 'Actinidia23512' => 'ach', 'Actinidia37080' => 'ach', 'Ah.01g020380' => 'amhyb', 'Ah.08g215710' => 'amhyb', 'Ah.09g225110' => 'amhyb', 'Ah.10g036680' => 'amhyb', 'AL1G21940' => 'aly', 'AL2G15540' => 'aly', 'AL4G21520' => 'aly', 'AL7G40960' => 'aly', 'Aqoxy2G01191' => 'aox', 'Aqoxy2G03393' => 'aox', 'Aqoxy4G02775' => 'aox', 'Aqoxy6G00058' => 'aox', 'arahy.Tifrunner.gnm1.ann1.9X74H2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CW3FX9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R485W7' => 'arhy', 'AT1G10960' => 'ath', 'AT1G60950' => 'ath', 'AT2G27510' => 'ath', 'AT4G14890' => 'ath', 'AT5G10000' => 'ath', 'ATR0665G624' => 'atr', 'ATR0697G138' => 'atr', 'ATR0776G046' => 'atr', 'ATR1134G135' => 'atr', 'Atru.chr12.1025' => 'acertr', 'Atru.chr3.3241' => 'acertr', 'Atru.chr4.2460' => 'acertr', 'AUR62007427' => 'cqu', 'AUR62010960' => 'cqu', 'AUR62012201' => 'cqu', 'AUR62021470' => 'cqu', 'AUR62022834' => 'cqu', 'AUR62033635' => 'cqu', 'AUR62036186' => 'cqu', 'BcaB01g03077' => 'bca', 'BcaB02g10093' => 'bca', 'BcaB04g20295' => 'bca', 'BcaB06g28147' => 'bca', 'BcaB07g31253' => 'bca', 'BcaC01g04946' => 'bca', 'BcaC02g10614' => 'bca', 'BcaC02g10885' => 'bca', 'BcaC04g19356' => 'bca', 'BcaC04g22297' => 'bca', 'BcaC05g24977' => 'bca', 'BcaC06g31823' => 'bca', 'BcaC07g38633' => 'bca', 'BcaC09g49353' => 'bca', 'BcaC09g50168' => 'bca', 'BcaNung00322' => 'bca', 'BcaNung04769' => 'bca', 'BolC1t02753H' => 'bol', 'BolC1t03721H' => 'bol', 'BolC3t15525H' => 'bol', 'BolC4t23903H' => 'bol', 'BolC4t24231H' => 'bol', 'BolC4t27209H' => 'bol', 'BolC5t29671H' => 'bol', 'BolC8t49044H' => 'bol', 'BolC9t54999H' => 'bol', 'BolC9t59517H' => 'bol', 'BraA01t02178Z' => 'bra', 'BraA01t03099Z' => 'bra', 'BraA03t11867Z' => 'bra', 'BraA04t17667Z' => 'bra', 'BraA07t29542Z' => 'bra', 'BraA08t35287Z' => 'bra', 'BraA09t37334Z' => 'bra', 'BraA10t44801Z' => 'bra', 'BraSC39t46181Z' => 'bra', 'C01p28240' => 'bna', 'C01p37530' => 'bna', 'C03p31820' => 'bna', 'C04p24080' => 'bna', 'C04p25790' => 'bna', 'C04p56770' => 'bna', 'C05p09310' => 'bna', 'C09p21010' => 'bna', 'C09p67560' => 'bna', 'CAN.G1324.7' => 'can', 'CAN.G1358.10' => 'can', 'CAN.G1550.2' => 'can', 'CAN.G186.56' => 'can', 'CAN.G1965.1' => 'can', 'CAN.G645.15' => 'can', 'CAN.G798.26' => 'can', 'CAN.G798.27' => 'can', 'CAN.G798.29' => 'can', 'CAN.G919.31' => 'can', 'CANSAT11G0133' => 'cansat', 'CANSAT11G1171' => 'cansat', 'CANSAT11G2056' => 'cansat', 'CANSAT56G1202' => 'cansat', 'CANSAT56G1514' => 'cansat', 'CANSAT78G0455' => 'cansat', 'CARHR011190' => 'chi', 'CARHR051980' => 'chi', 'CARHR120170' => 'chi', 'CARHR203310' => 'chi', 'CARHR221490' => 'chi', 'Carub.0001s1054' => 'cru', 'Carub.0002s0431' => 'cru', 'Carub.0004s0818' => 'cru', 'Carub.0006s0846' => 'cru', 'Carub.0007s2722' => 'cru', 'Ca_00058_v3' => 'car', 'Ca_17831_v3' => 'car', 'Ca_19408_v3' => 'car', 'Ca_24397_v3' => 'car', 'Ca_25664_v3' => 'car', 'CBR_g21818' => 'cbr', 'CBR_g31195' => 'cbr', 'CBR_g32282' => 'cbr', 'CBR_g39599' => 'cbr', 'CBR_g49410' => 'cbr', 'Cc01_g09120' => 'ccan', 'Cc01_g09130' => 'ccan', 'Cc02_g09630' => 'ccan', 'Cc02_g22810' => 'ccan', 'Cc03_g03810' => 'ccan', 'CDE02G3718' => 'cde', 'CDE04G3183' => 'cde', 'CDE07G1046' => 'cde', 'CDE08G0480' => 'cde', 'Cfa005493' => 'cfa', 'Cfa010312' => 'cfa', 'Cfa015648' => 'cfa', 'Ciclev10002793m.g' => 'ccl', 'Ciclev10003356m.g' => 'ccl', 'Ciclev10006141m.g' => 'ccl', 'Ciclev10016676m.g' => 'ccl', 'Ciclev10017081m.g' => 'ccl', 'Ciclev10029499m.g' => 'ccl', 'CiPaw.01G166300' => 'cil', 'CiPaw.06G145600' => 'cil', 'CiPaw.13G040100' => 'cil', 'CiPaw.13G135800' => 'cil', 'ClCG01G012230' => 'cla', 'ClCG05G009510' => 'cla', 'ClCG08G008270' => 'cla', 'COL.COLO4_11763' => 'col', 'COL.COLO4_19876' => 'col', 'COL.COLO4_21481' => 'col', 'Cpa.g.sc118.34' => 'cpa', 'Cpa.g.sc32.13' => 'cpa', 'Cpa.g.sc58.103' => 'cpa', 'Cre03.g183850' => 'cre', 'Cre06.g306350' => 'cre', 'Cre07.g334800' => 'cre', 'Cre12.g487900' => 'cre', 'Cre14.g626700' => 'cre', 'Cre16.g658400' => 'cre', 'Cre17.g700950' => 'cre', 'CsaV3_1G014830' => 'csa', 'CsaV3_3G013320' => 'csa', 'CsaV3_3G019210' => 'csa', 'CsaV3_3G019220' => 'csa', 'CsaV3_6G004230' => 'csa', 'CSS0003773' => 'camsi', 'CSS0004563' => 'camsi', 'CSS0013949' => 'camsi', 'CSS0025971' => 'camsi', 'CSS0028570' => 'camsi', 'CSS0033127' => 'camsi', 'CSS0036051' => 'camsi', 'CSS0040087' => 'camsi', 'CSS0043179' => 'camsi', 'DCAR_006161' => 'dca', 'DCAR_010351' => 'dca', 'DCAR_012197' => 'dca', 'DCAR_024162' => 'dca', 'Dinv01030' => 'din', 'Dinv10924' => 'din', 'Dinv11835' => 'din', 'Dinv22841' => 'din', 'Dinv42553' => 'din', 'Duzib052G0560' => 'dzi', 'Duzib132G0389' => 'dzi', 'Duzib150G1181' => 'dzi', 'Duzib168G0623' => 'dzi', 'Duzib170G1036' => 'dzi', 'Duzib212G0200' => 'dzi', 'Duzib248G0194' => 'dzi', 'ECA232G2193' => 'eca', 'ECA233G0302' => 'eca', 'ECA234G2813' => 'eca', 'ECA234G4866' => 'eca', 'ECA240G3932' => 'eca', 'ECA248G0385' => 'eca', 'EL10Ac2g04781' => 'bvu', 'EL10Ac3g06445' => 'bvu', 'EL10Ac7g15825' => 'bvu', 'EL10Ac8g18550' => 'bvu', 'Eucgr.B03849' => 'egr', 'Eucgr.I02744' => 'egr', 'Eucgr.J00264' => 'egr', 'Eucgr.J00493' => 'egr', 'FAN04G2181' => 'fan', 'FAN07G2666' => 'fan', 'FAN11G0024' => 'fan', 'FAN12G1105' => 'fan', 'FAN13G0302' => 'fan', 'FAN15G2781' => 'fan', 'FAN16G1274' => 'fan', 'FAN17G2988' => 'fan', 'FAN18G2621' => 'fan', 'FAN21G0013' => 'fan', 'FAN22G1211' => 'fan', 'FAN25G3626' => 'fan', 'FvH4_2g09491' => 'fve', 'FvH4_3g24910' => 'fve', 'FvH4_4g15630' => 'fve', 'FvH4_5g28820' => 'fve', 'Glyma.01G238000' => 'gma', 'Glyma.05G168400' => 'gma', 'Glyma.08G126800' => 'gma', 'Glyma.08G188500' => 'gma', 'Glyma.10G278900' => 'gma', 'Glyma.11G005700' => 'gma', 'Glyma.11G183300' => 'gma', 'Glyma.12G089200' => 'gma', 'Glyma.12G169400' => 'gma', 'Glyma.12G169500' => 'gma', 'Glyma.12G169600' => 'gma', 'Glyma.20G110800' => 'gma', 'Gohir.A03G192900' => 'ghi', 'Gohir.A03G193000' => 'ghi', 'Gohir.A05G080700' => 'ghi', 'Gohir.A09G216000' => 'ghi', 'Gohir.A12G027700' => 'ghi', 'Gohir.A13G036200' => 'ghi', 'Gohir.A13G222600' => 'ghi', 'Gohir.D02G213900' => 'ghi', 'Gohir.D02G214000' => 'ghi', 'Gohir.D05G083700' => 'ghi', 'Gohir.D05G083800' => 'ghi', 'Gohir.D05G083850' => 'ghi', 'Gohir.D08G015400' => 'ghi', 'Gohir.D09G218400' => 'ghi', 'Gohir.D12G027100' => 'ghi', 'Gohir.D13G034500' => 'ghi', 'Gohir.D13G227400' => 'ghi', 'Gorai.005G241800' => 'gra', 'Gorai.005G241900' => 'gra', 'Gorai.006G239400' => 'gra', 'Gorai.008G027600' => 'gra', 'Gorai.009G085400' => 'gra', 'Gorai.009G085500' => 'gra', 'Gorai.013G039000' => 'gra', 'Gorai.013G194800' => 'gra', 'Gorai.013G257900' => 'gra', 'GSVIVG01000982001' => 'vvi', 'GSVIVG01017981001' => 'vvi', 'HanXRQChr01g0024061' => 'han', 'HanXRQChr09g0247831' => 'han', 'HanXRQChr10g0294611' => 'han', 'HanXRQChr10g0294621' => 'han', 'HanXRQChr11g0346821' => 'han', 'HanXRQChr13g0397461' => 'han', 'HanXRQChr16g0513651' => 'han', 'HanXRQChr16g0513701' => 'han', 'Haze_00897' => 'cav', 'Haze_01745' => 'cav', 'Haze_02486' => 'cav', 'Haze_02487' => 'cav', 'Haze_23374' => 'cav', 'Hma1.2p1_0578F.1_g182520' => 'hma', 'Hma1.2p1_0602F.1_g187350' => 'hma', 'Hma1.2p1_0602F.1_g187360' => 'hma', 'Hma1.2p1_0874F.1_g231320' => 'hma', 'Hma1.2p1_1197F.1_g266210' => 'hma', 'Hma1.2p1_1197F.1_g266220' => 'hma', 'Hma1.2p1_2167F.1_g315895' => 'hma', 'Hma1.2p1_2190F.1_g316640' => 'hma', 'Hma1.2p1_3645F.1_g337153' => 'hma', 'HPP92_004907' => 'vpl', 'HPP92_012134' => 'vpl', 'HPP92_025136' => 'vpl', 'HPP92_026087' => 'vpl', 'Hund06782' => 'sun', 'Hund06784' => 'sun', 'Lalb_Chr01g0004861' => 'lal', 'Lalb_Chr02g0140591' => 'lal', 'Lalb_Chr02g0140611' => 'lal', 'Lalb_Chr03g0028101' => 'lal', 'Lalb_Chr07g0185791' => 'lal', 'Lalb_Chr12g0204491' => 'lal', 'Lalb_Chr13g0295671' => 'lal', 'Lalb_Chr19g0136461' => 'lal', 'Lalb_Chr21g0309191' => 'lal', 'Lj1g0028158' => 'lja', 'Lj1P236T38' => 'lonja', 'Lj2C32G2' => 'lonja', 'Lj2P944T8' => 'lonja', 'Lj2P963T15' => 'lonja', 'Lj3g0011788' => 'lja', 'Lj4g0025027' => 'lja', 'Lj5P255T36' => 'lonja', 'Lj6g0018866' => 'lja', 'Lj6P608T31' => 'lonja', 'LjContig00408g0008879' => 'lja', 'Lsat_1_v5_gn_5_105820' => 'lsa', 'Lsat_1_v5_gn_6_38800' => 'lsa', 'Lsat_1_v5_gn_7_67141' => 'lsa', 'Manes.04G003400' => 'mes', 'Manes.07G020000' => 'mes', 'Manes.07G020100' => 'mes', 'Manes.07G020150' => 'mes', 'Manes.10G061500' => 'mes', 'Manes.10G123200' => 'mes', 'Manes.11G161900' => 'mes', 'Manes.15G029300' => 'mes', 'Mapoly0071s0018' => 'mpo', 'Mapoly0082s0023' => 'mpo', 'Mapoly3477s0001' => 'mpo', 'MBI05_g31233_MAGBIO' => 'mbi', 'MBI09_g05946_MAGBIO' => 'mbi', 'MBI09_g05947_MAGBIO' => 'mbi', 'MBI17_g08346_MAGBIO' => 'mbi', 'MCO04G038' => 'mco', 'MCO09G370' => 'mco', 'MCO13G605' => 'mco', 'MD00G1075500' => 'mdo', 'MD03G1144300' => 'mdo', 'MD08G1236800' => 'mdo', 'MD13G1193300' => 'mdo', 'MD15G1428700' => 'mdo', 'Medtr1g112030' => 'mtr', 'Medtr1g112050' => 'mtr', 'Medtr2g006290' => 'mtr', 'Medtr2g086510' => 'mtr', 'Medtr4g053120' => 'mtr', 'Medtr5g006320' => 'mtr', 'Medtr8g088720' => 'mtr', 'MELO3C004712.2' => 'cme', 'MELO3C006533.2' => 'cme', 'MELO3C019438.2' => 'cme', 'MELO3C019440.2' => 'cme', 'MELO3C019441.2' => 'cme', 'MELO3C019895.2' => 'cme', 'Migut.B00811' => 'egut', 'Migut.D02447' => 'egut', 'Migut.F00875' => 'egut', 'Migut.N00186' => 'egut', 'Migut.N01051' => 'egut', 'Migut.N02491' => 'egut', 'Migut.O00784' => 'egut', 'MSTRG.12367' => 'ama', 'MSTRG.18756' => 'ama', 'MSTRG.21042' => 'ama', 'Nitab4.5_0000559g0040' => 'nta', 'Nitab4.5_0000667g0190' => 'nta', 'Nitab4.5_0000755g0160' => 'nta', 'Nitab4.5_0001216g0080' => 'nta', 'Nitab4.5_0004069g0040' => 'nta', 'Nitab4.5_0004129g0010' => 'nta', 'Nitab4.5_0005744g0030' => 'nta', 'Nitab4.5_0006996g0030' => 'nta', 'Nitab4.5_0008971g0040' => 'nta', 'Nitab4.5_0009769g0020' => 'nta', 'Nitab4.5_0009833g0010' => 'nta', 'Nitab4.5_0013140g0020' => 'nta', 'Nn003s41376' => 'nnu', 'Nn1g01857' => 'nnu', 'Nn1g03611' => 'nnu', 'Nn1g06853' => 'nnu', 'Nn3g18360' => 'nnu', 'Nn4g26328' => 'nnu', 'Nn5g27531' => 'nnu', 'Nn6g34899' => 'nnu', 'Nn7g36299' => 'nnu', 'Oeu021485.1' => 'oeu', 'Oeu022433.1' => 'oeu', 'Oeu032111.1' => 'oeu', 'Oeu051608.1' => 'oeu', 'Os01g0860601' => 'osa', 'Os03g0659200' => 'osa', 'Os03g0835900' => 'osa', 'Os04g0412200' => 'osa', 'Os05g0443500' => 'osa', 'Os07g0251500' => 'osa', 'Os08g0104600' => 'osa', 'Peaxi162Scf00003g00047' => 'pax', 'Peaxi162Scf00003g00052' => 'pax', 'Peaxi162Scf00003g00394' => 'pax', 'Peaxi162Scf00091g00621' => 'pax', 'Peaxi162Scf00152g00146' => 'pax', 'Peaxi162Scf00173g00025' => 'pax', 'Peaxi162Scf00195g00102' => 'pax', 'Peaxi162Scf00402g00013' => 'pax', 'Peaxi162Scf00519g00618' => 'pax', 'PGR004G2838' => 'pgr', 'PGR044G2275' => 'pgr', 'PGR102G1377' => 'pgr', 'PGR119G1245' => 'pgr', 'PGR142G4449' => 'pgr', 'PGSC0003DMG400004532' => 'stu', 'PGSC0003DMG400011950' => 'stu', 'PGSC0003DMG400023391' => 'stu', 'PGSC0003DMG400023985' => 'stu', 'PGSC0003DMG400026360' => 'stu', 'PGSC0003DMG400035711' => 'stu', 'PGSC0003DMG400037286' => 'stu', 'PGSC0003DMG402005881' => 'stu', 'Phvul.002G045400' => 'pvu', 'Phvul.006G216600' => 'pvu', 'Phvul.006G216700' => 'pvu', 'Phvul.006G216800' => 'pvu', 'Phvul.007G022500' => 'pvu', 'Phvul.011G094400' => 'pvu', 'Potri.001G470700' => 'ptr', 'Potri.003G015200' => 'ptr', 'Potri.004G202500' => 'ptr', 'Potri.004G218400' => 'ptr', 'Potri.008G020100' => 'ptr', 'Potri.008G153200' => 'ptr', 'Potri.009G163800' => 'ptr', 'Potri.010G087300' => 'ptr', 'Potri.010G239100' => 'ptr', 'Pp3c10_16100' => 'ppa', 'Pp3c10_16880' => 'ppa', 'Pp3c16_6230' => 'ppa', 'Pp3c17_18910' => 'ppa', 'Pp3c3_22119' => 'ppa', 'Pp3c3_22140' => 'ppa', 'Pp3c4_8159' => 'ppa', 'Pp3c4_8171' => 'ppa', 'Pp3c4_8330' => 'ppa', 'PRCOL_00004098' => 'pco', 'Prupe.1G013900' => 'ppe', 'Prupe.1G226300' => 'ppe', 'Prupe.1G573600' => 'ppe', 'Prupe.6G130100' => 'ppe', 'Psat3g090040' => 'psa', 'Psat4g210440' => 'psa', 'Psat6g231040' => 'psa', 'Psat6g231080' => 'psa', 'Psat7g063000' => 'psa', 'Psat7g188000' => 'psa', 'Psat7g188040' => 'psa', 'PSO017G0206' => 'pso', 'PSO170G0501' => 'pso', 'PSO170G6422' => 'pso', 'PSO210G7739' => 'pso', 'PSO339G1808' => 'pso', 'PSO339G6135' => 'pso', 'PSO384G0010' => 'pso', 'PSO384G0964' => 'pso', 'PSO761G0050' => 'pso', 'PSO782G4085' => 'pso', 'QL01p012264' => 'qlo', 'QL02p099491' => 'qlo', 'QL03p033868' => 'qlo', 'QL04p046678' => 'qlo', 'QL06p002448' => 'qlo', 'RcHm_v2.0_Chr4g0416181' => 'rch', 'RcHm_v2.0_Chr5g0044701' => 'rch', 'RcHm_v2.0_Chr6g0265781' => 'rch', 'RcHm_v2.0_Chr7g0221031' => 'rch', 'Rhsim04G0202000' => 'rsi', 'Rhsim11G0127300' => 'rsi', 'Rhsim13G0111800' => 'rsi', 'Sabra01G0165600' => 'sbr', 'Sabra03G0008300' => 'sbr', 'Sabra04G0136900' => 'sbr', 'Sabra08G0013400' => 'sbr', 'Sabra08G0116800' => 'sbr', 'Sabra09G0128000' => 'sbr', 'Sabra10G0055500' => 'sbr', 'Sabra10G0073300' => 'sbr', 'SalBow3G0385' => 'sbo', 'SalBow3G1119' => 'sbo', 'SalBow3G2005' => 'sbo', 'SalBow6G2563' => 'sbo', 'SalBow6G6386' => 'sbo', 'Sc06g0008800' => 'sci', 'Sc07g0004950' => 'sci', 'Sc09g0005340' => 'sci', 'Sc13g0004410' => 'sci', 'Sc21g0007090' => 'sci', 'Sed0009285' => 'sed', 'Sed0017583' => 'sed', 'Sed0019699' => 'sed', 'Sed0023107' => 'sed', 'SEGI_10916' => 'sgi', 'SEGI_16217' => 'sgi', 'SEGI_19466' => 'sgi', 'SEGI_41115' => 'sgi', 'SGA_v2.0_scaffold111G31534' => 'sas', 'SGA_v2.0_scaffold22G09864' => 'sas', 'SGA_v2.0_scaffold338G49219' => 'sas', 'SGA_v2.0_scaffold92G28298' => 'sas', 'SMO119G0064' => 'smo', 'SMO223G0038' => 'smo', 'SMO347G0584' => 'smo', 'SMO351G0010' => 'smo', 'SMO356G0404' => 'smo', 'Solyc01g103920.3' => 'sly', 'Solyc04g009710.2' => 'sly', 'Solyc05g055280.2' => 'sly', 'Solyc10g044520.3' => 'sly', 'Solyc10g075160.1' => 'sly', 'Solyc11g006910.3' => 'sly', 'Solyc11g068430.3' => 'sly', 'Sopen01g046310' => 'spe', 'Sopen03g001200' => 'spe', 'Sopen04g004830' => 'spe', 'Sopen05g033720' => 'spe', 'Sopen06g030740' => 'spe', 'Sopen10g013090' => 'spe', 'Sopen10g027630' => 'spe', 'Sopen10g027640' => 'spe', 'Sopen11g002820' => 'spe', 'Sopen11g027140' => 'spe', 'Sp1g09680' => 'spa', 'Sp2g03630' => 'spa', 'Sp4g10320' => 'spa', 'Sp6g33400' => 'spa', 'Sp7g13030' => 'spa', 'TAR365G0317' => 'tar', 'TAR376G0979' => 'tar', 'TAR623G1665' => 'tar', 'TAR633G2373' => 'tar', 'TAR636G1400' => 'tar', 'THA.LOC104800529' => 'tha', 'THA.LOC104808547' => 'tha', 'THA.LOC104809615' => 'tha', 'THA.LOC104815724' => 'tha', 'THA.LOC104818480' => 'tha', 'THA.LOC104819179' => 'tha', 'THA.LOC104822270' => 'tha', 'THA.LOC104826425' => 'tha', 'Thecc.02G089700' => 'tca', 'Thecc.04G232300' => 'tca', 'Thecc.09G283400' => 'tca', 'Thhalv10009020m.g' => 'esa', 'Thhalv10015506m.g' => 'esa', 'Thhalv10017364m.g' => 'esa', 'Thhalv10023742m.g' => 'esa', 'Thhalv10026483m.g' => 'esa', 'TPR.G17232' => 'tpr', 'TPR.G2133' => 'tpr', 'TPR.G2498' => 'tpr', 'TPR.G31942' => 'tpr', 'TPR.G37877' => 'tpr', 'TPR.G4571' => 'tpr', 'TWI14G1113' => 'twi', 'TWI15G0426' => 'twi', 'TWI31G1005' => 'twi', 'TWI38G0513' => 'twi', 'TWI38G1484' => 'twi', 'TWI73G1098' => 'twi', 'unitig_26.g10519' => 'ugi', 'unitig_736.g22395' => 'ugi', 'unitig_747.g21234' => 'ugi', 'unitig_747.g21942' => 'ugi', 'vmacro14351' => 'vma', 'VMungo0540G0082' => 'vmu', 'VMungo0540G0405' => 'vmu', 'VMungo0540G1486' => 'vmu', 'VMungo0540G1692' => 'vmu', 'VMungo0720G2473' => 'vmu', 'VMungo1127G1562' => 'vmu', 'VMungo1215G1918' => 'vmu', 'Zm00001eb052650' => 'zma', 'Zm00001eb063710' => 'zma', 'Zm00001eb083950' => 'zma', 'Zm00001eb174420' => 'zma', 'Zm00001eb260140' => 'zma', 'Zm00001eb260150' => 'zma', 'Zm00001eb260160' => 'zma', 'Zm00001eb348290' => 'zma', 'Zm00001eb366870' => 'zma', 'Zm00001eb421930' => 'zma' ) $gf_id = 'HOM05D001025' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001025' ) $data_identifier = 'HOM05D001025' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 19, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 2, 'amhyb' => (int) 4, 'aly' => (int) 4, 'aox' => (int) 4, 'arhy' => (int) 3, 'ath' => (int) 5, 'atr' => (int) 4, 'acertr' => (int) 3, 'cqu' => (int) 7, 'bca' => (int) 17, 'bol' => (int) 10, 'bra' => (int) 9, 'can' => (int) 10, 'cansat' => (int) 6, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 5, 'cbr' => (int) 5, 'ccan' => (int) 5, 'cde' => (int) 4, 'cfa' => (int) 3, 'ccl' => (int) 6, 'cil' => (int) 4, 'cla' => (int) 3, 'col' => (int) 3, 'cpa' => (int) 3, 'cre' => (int) 7, 'csa' => (int) 5, 'camsi' => (int) 9, 'dca' => (int) 4, 'din' => (int) 5, 'dzi' => (int) 7, 'eca' => (int) 6, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 12, 'fve' => (int) 4, 'gma' => (int) 12, 'ghi' => (int) 17, 'gra' => (int) 9, 'vvi' => (int) 2, 'han' => (int) 8, 'cav' => (int) 5, 'hma' => (int) 9, 'vpl' => (int) 4, 'sun' => (int) 2, 'lal' => (int) 9, 'lja' => (int) 5, 'lonja' => (int) 6, 'lsa' => (int) 3, 'mes' => (int) 8, 'mpo' => (int) 3, 'mbi' => (int) 4, 'mco' => (int) 3, 'mdo' => (int) 5, 'mtr' => (int) 7, 'cme' => (int) 6, 'egut' => (int) 7, 'ama' => (int) 3, 'nta' => (int) 12, 'nnu' => (int) 9, 'oeu' => (int) 4, 'osa' => (int) 7, 'pax' => (int) 9, 'pgr' => (int) 5, 'stu' => (int) 8, 'pvu' => (int) 6, 'ptr' => (int) 9, 'ppa' => (int) 9, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 7, 'pso' => (int) 10, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 3, 'sbr' => (int) 8, 'sbo' => (int) 5, 'sci' => (int) 5, 'sed' => (int) 4, 'sgi' => (int) 4, 'sas' => (int) 4, 'smo' => (int) 5, 'sly' => (int) 7, 'spe' => (int) 10, 'spa' => (int) 5, 'tar' => (int) 5, 'tha' => (int) 8, 'tca' => (int) 3, 'esa' => (int) 5, 'tpr' => (int) 6, 'twi' => (int) 6, 'ugi' => (int) 4, 'vma' => (int) 1, 'vmu' => (int) 7, 'zma' => (int) 10 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb421930' $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' => 'HOM05D001025', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '592', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p22650' => 'bna', 'A01p29720' => 'bna', 'A03p26560' => 'bna', 'A03p68820' => 'bna', 'A04p20980' => 'bna', 'A06p07730' => 'bna', 'A07p18260' => 'bna', 'A08p33710' => 'bna', 'A09p16970' => 'bna', 'A10p27490' => 'bna', 'Aa31LG1G17300' => 'aar', 'Aa31LG1G3910' => 'aar', 'Aa31LG2G9630' => 'aar', 'Aa31LG5G8360' => 'aar', 'Aa31LG9G2410' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4699' => 'aag', 'Actinidia23512' => 'ach', 'Actinidia37080' => 'ach', 'Ah.01g020380' => 'amhyb', 'Ah.08g215710' => 'amhyb', 'Ah.09g225110' => 'amhyb', 'Ah.10g036680' => 'amhyb', 'AL1G21940' => 'aly', 'AL2G15540' => 'aly', 'AL4G21520' => 'aly', 'AL7G40960' => 'aly', 'Aqoxy2G01191' => 'aox', 'Aqoxy2G03393' => 'aox', 'Aqoxy4G02775' => 'aox', 'Aqoxy6G00058' => 'aox', 'arahy.Tifrunner.gnm1.ann1.9X74H2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CW3FX9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R485W7' => 'arhy', 'AT1G10960' => 'ath', 'AT1G60950' => 'ath', 'AT2G27510' => 'ath', 'AT4G14890' => 'ath', 'AT5G10000' => 'ath', 'ATR0665G624' => 'atr', 'ATR0697G138' => 'atr', 'ATR0776G046' => 'atr', 'ATR1134G135' => 'atr', 'Atru.chr12.1025' => 'acertr', 'Atru.chr3.3241' => 'acertr', 'Atru.chr4.2460' => 'acertr', 'AUR62007427' => 'cqu', 'AUR62010960' => 'cqu', 'AUR62012201' => 'cqu', 'AUR62021470' => 'cqu', 'AUR62022834' => 'cqu', 'AUR62033635' => 'cqu', 'AUR62036186' => 'cqu', 'BcaB01g03077' => 'bca', 'BcaB02g10093' => 'bca', 'BcaB04g20295' => 'bca', 'BcaB06g28147' => 'bca', 'BcaB07g31253' => 'bca', 'BcaC01g04946' => 'bca', 'BcaC02g10614' => 'bca', 'BcaC02g10885' => 'bca', 'BcaC04g19356' => 'bca', 'BcaC04g22297' => 'bca', 'BcaC05g24977' => 'bca', 'BcaC06g31823' => 'bca', 'BcaC07g38633' => 'bca', 'BcaC09g49353' => 'bca', 'BcaC09g50168' => 'bca', 'BcaNung00322' => 'bca', 'BcaNung04769' => 'bca', 'BolC1t02753H' => 'bol', 'BolC1t03721H' => 'bol', 'BolC3t15525H' => 'bol', 'BolC4t23903H' => 'bol', 'BolC4t24231H' => 'bol', 'BolC4t27209H' => 'bol', 'BolC5t29671H' => 'bol', 'BolC8t49044H' => 'bol', 'BolC9t54999H' => 'bol', 'BolC9t59517H' => 'bol', 'BraA01t02178Z' => 'bra', 'BraA01t03099Z' => 'bra', 'BraA03t11867Z' => 'bra', 'BraA04t17667Z' => 'bra', 'BraA07t29542Z' => 'bra', 'BraA08t35287Z' => 'bra', 'BraA09t37334Z' => 'bra', 'BraA10t44801Z' => 'bra', 'BraSC39t46181Z' => 'bra', 'C01p28240' => 'bna', 'C01p37530' => 'bna', 'C03p31820' => 'bna', 'C04p24080' => 'bna', 'C04p25790' => 'bna', 'C04p56770' => 'bna', 'C05p09310' => 'bna', 'C09p21010' => 'bna', 'C09p67560' => 'bna', 'CAN.G1324.7' => 'can', 'CAN.G1358.10' => 'can', 'CAN.G1550.2' => 'can', 'CAN.G186.56' => 'can', 'CAN.G1965.1' => 'can', 'CAN.G645.15' => 'can', 'CAN.G798.26' => 'can', 'CAN.G798.27' => 'can', 'CAN.G798.29' => 'can', 'CAN.G919.31' => 'can', 'CANSAT11G0133' => 'cansat', 'CANSAT11G1171' => 'cansat', 'CANSAT11G2056' => 'cansat', 'CANSAT56G1202' => 'cansat', 'CANSAT56G1514' => 'cansat', 'CANSAT78G0455' => 'cansat', 'CARHR011190' => 'chi', 'CARHR051980' => 'chi', 'CARHR120170' => 'chi', 'CARHR203310' => 'chi', 'CARHR221490' => 'chi', 'Carub.0001s1054' => 'cru', 'Carub.0002s0431' => 'cru', 'Carub.0004s0818' => 'cru', 'Carub.0006s0846' => 'cru', 'Carub.0007s2722' => 'cru', 'Ca_00058_v3' => 'car', 'Ca_17831_v3' => 'car', 'Ca_19408_v3' => 'car', 'Ca_24397_v3' => 'car', 'Ca_25664_v3' => 'car', 'CBR_g21818' => 'cbr', 'CBR_g31195' => 'cbr', 'CBR_g32282' => 'cbr', 'CBR_g39599' => 'cbr', 'CBR_g49410' => 'cbr', 'Cc01_g09120' => 'ccan', 'Cc01_g09130' => 'ccan', 'Cc02_g09630' => 'ccan', 'Cc02_g22810' => 'ccan', 'Cc03_g03810' => 'ccan', 'CDE02G3718' => 'cde', 'CDE04G3183' => 'cde', 'CDE07G1046' => 'cde', 'CDE08G0480' => 'cde', 'Cfa005493' => 'cfa', 'Cfa010312' => 'cfa', 'Cfa015648' => 'cfa', 'Ciclev10002793m.g' => 'ccl', 'Ciclev10003356m.g' => 'ccl', 'Ciclev10006141m.g' => 'ccl', 'Ciclev10016676m.g' => 'ccl', 'Ciclev10017081m.g' => 'ccl', 'Ciclev10029499m.g' => 'ccl', 'CiPaw.01G166300' => 'cil', 'CiPaw.06G145600' => 'cil', 'CiPaw.13G040100' => 'cil', 'CiPaw.13G135800' => 'cil', 'ClCG01G012230' => 'cla', 'ClCG05G009510' => 'cla', 'ClCG08G008270' => 'cla', 'COL.COLO4_11763' => 'col', 'COL.COLO4_19876' => 'col', 'COL.COLO4_21481' => 'col', 'Cpa.g.sc118.34' => 'cpa', 'Cpa.g.sc32.13' => 'cpa', 'Cpa.g.sc58.103' => 'cpa', 'Cre03.g183850' => 'cre', 'Cre06.g306350' => 'cre', 'Cre07.g334800' => 'cre', 'Cre12.g487900' => 'cre', 'Cre14.g626700' => 'cre', 'Cre16.g658400' => 'cre', 'Cre17.g700950' => 'cre', 'CsaV3_1G014830' => 'csa', 'CsaV3_3G013320' => 'csa', 'CsaV3_3G019210' => 'csa', 'CsaV3_3G019220' => 'csa', 'CsaV3_6G004230' => 'csa', 'CSS0003773' => 'camsi', 'CSS0004563' => 'camsi', 'CSS0013949' => 'camsi', 'CSS0025971' => 'camsi', 'CSS0028570' => 'camsi', 'CSS0033127' => 'camsi', 'CSS0036051' => 'camsi', 'CSS0040087' => 'camsi', 'CSS0043179' => 'camsi', 'DCAR_006161' => 'dca', 'DCAR_010351' => 'dca', 'DCAR_012197' => 'dca', 'DCAR_024162' => 'dca', 'Dinv01030' => 'din', 'Dinv10924' => 'din', 'Dinv11835' => 'din', 'Dinv22841' => 'din', 'Dinv42553' => 'din', 'Duzib052G0560' => 'dzi', 'Duzib132G0389' => 'dzi', 'Duzib150G1181' => 'dzi', 'Duzib168G0623' => 'dzi', 'Duzib170G1036' => 'dzi', 'Duzib212G0200' => 'dzi', 'Duzib248G0194' => 'dzi', 'ECA232G2193' => 'eca', 'ECA233G0302' => 'eca', 'ECA234G2813' => 'eca', 'ECA234G4866' => 'eca', 'ECA240G3932' => 'eca', 'ECA248G0385' => 'eca', 'EL10Ac2g04781' => 'bvu', 'EL10Ac3g06445' => 'bvu', 'EL10Ac7g15825' => 'bvu', 'EL10Ac8g18550' => 'bvu', 'Eucgr.B03849' => 'egr', 'Eucgr.I02744' => 'egr', 'Eucgr.J00264' => 'egr', 'Eucgr.J00493' => 'egr', 'FAN04G2181' => 'fan', 'FAN07G2666' => 'fan', 'FAN11G0024' => 'fan', 'FAN12G1105' => 'fan', 'FAN13G0302' => 'fan', 'FAN15G2781' => 'fan', 'FAN16G1274' => 'fan', 'FAN17G2988' => 'fan', 'FAN18G2621' => 'fan', 'FAN21G0013' => 'fan', 'FAN22G1211' => 'fan', 'FAN25G3626' => 'fan', 'FvH4_2g09491' => 'fve', 'FvH4_3g24910' => 'fve', 'FvH4_4g15630' => 'fve', 'FvH4_5g28820' => 'fve', 'Glyma.01G238000' => 'gma', 'Glyma.05G168400' => 'gma', 'Glyma.08G126800' => 'gma', 'Glyma.08G188500' => 'gma', 'Glyma.10G278900' => 'gma', 'Glyma.11G005700' => 'gma', 'Glyma.11G183300' => 'gma', 'Glyma.12G089200' => 'gma', 'Glyma.12G169400' => 'gma', 'Glyma.12G169500' => 'gma', 'Glyma.12G169600' => 'gma', 'Glyma.20G110800' => 'gma', 'Gohir.A03G192900' => 'ghi', 'Gohir.A03G193000' => 'ghi', 'Gohir.A05G080700' => 'ghi', 'Gohir.A09G216000' => 'ghi', 'Gohir.A12G027700' => 'ghi', 'Gohir.A13G036200' => 'ghi', 'Gohir.A13G222600' => 'ghi', 'Gohir.D02G213900' => 'ghi', 'Gohir.D02G214000' => 'ghi', 'Gohir.D05G083700' => 'ghi', 'Gohir.D05G083800' => 'ghi', 'Gohir.D05G083850' => 'ghi', 'Gohir.D08G015400' => 'ghi', 'Gohir.D09G218400' => 'ghi', 'Gohir.D12G027100' => 'ghi', 'Gohir.D13G034500' => 'ghi', 'Gohir.D13G227400' => 'ghi', 'Gorai.005G241800' => 'gra', 'Gorai.005G241900' => 'gra', 'Gorai.006G239400' => 'gra', 'Gorai.008G027600' => 'gra', 'Gorai.009G085400' => 'gra', 'Gorai.009G085500' => 'gra', 'Gorai.013G039000' => 'gra', 'Gorai.013G194800' => 'gra', 'Gorai.013G257900' => 'gra', 'GSVIVG01000982001' => 'vvi', 'GSVIVG01017981001' => 'vvi', 'HanXRQChr01g0024061' => 'han', 'HanXRQChr09g0247831' => 'han', 'HanXRQChr10g0294611' => 'han', 'HanXRQChr10g0294621' => 'han', 'HanXRQChr11g0346821' => 'han', 'HanXRQChr13g0397461' => 'han', 'HanXRQChr16g0513651' => 'han', 'HanXRQChr16g0513701' => 'han', 'Haze_00897' => 'cav', 'Haze_01745' => 'cav', 'Haze_02486' => 'cav', 'Haze_02487' => 'cav', 'Haze_23374' => 'cav', 'Hma1.2p1_0578F.1_g182520' => 'hma', 'Hma1.2p1_0602F.1_g187350' => 'hma', 'Hma1.2p1_0602F.1_g187360' => 'hma', 'Hma1.2p1_0874F.1_g231320' => 'hma', 'Hma1.2p1_1197F.1_g266210' => 'hma', 'Hma1.2p1_1197F.1_g266220' => 'hma', 'Hma1.2p1_2167F.1_g315895' => 'hma', 'Hma1.2p1_2190F.1_g316640' => 'hma', 'Hma1.2p1_3645F.1_g337153' => 'hma', 'HPP92_004907' => 'vpl', 'HPP92_012134' => 'vpl', 'HPP92_025136' => 'vpl', 'HPP92_026087' => 'vpl', 'Hund06782' => 'sun', 'Hund06784' => 'sun', 'Lalb_Chr01g0004861' => 'lal', 'Lalb_Chr02g0140591' => 'lal', 'Lalb_Chr02g0140611' => 'lal', 'Lalb_Chr03g0028101' => 'lal', 'Lalb_Chr07g0185791' => 'lal', 'Lalb_Chr12g0204491' => 'lal', 'Lalb_Chr13g0295671' => 'lal', 'Lalb_Chr19g0136461' => 'lal', 'Lalb_Chr21g0309191' => 'lal', 'Lj1g0028158' => 'lja', 'Lj1P236T38' => 'lonja', 'Lj2C32G2' => 'lonja', 'Lj2P944T8' => 'lonja', 'Lj2P963T15' => 'lonja', 'Lj3g0011788' => 'lja', 'Lj4g0025027' => 'lja', 'Lj5P255T36' => 'lonja', 'Lj6g0018866' => 'lja', 'Lj6P608T31' => 'lonja', 'LjContig00408g0008879' => 'lja', 'Lsat_1_v5_gn_5_105820' => 'lsa', 'Lsat_1_v5_gn_6_38800' => 'lsa', 'Lsat_1_v5_gn_7_67141' => 'lsa', 'Manes.04G003400' => 'mes', 'Manes.07G020000' => 'mes', 'Manes.07G020100' => 'mes', 'Manes.07G020150' => 'mes', 'Manes.10G061500' => 'mes', 'Manes.10G123200' => 'mes', 'Manes.11G161900' => 'mes', 'Manes.15G029300' => 'mes', 'Mapoly0071s0018' => 'mpo', 'Mapoly0082s0023' => 'mpo', 'Mapoly3477s0001' => 'mpo', 'MBI05_g31233_MAGBIO' => 'mbi', 'MBI09_g05946_MAGBIO' => 'mbi', 'MBI09_g05947_MAGBIO' => 'mbi', 'MBI17_g08346_MAGBIO' => 'mbi', 'MCO04G038' => 'mco', 'MCO09G370' => 'mco', 'MCO13G605' => 'mco', 'MD00G1075500' => 'mdo', 'MD03G1144300' => 'mdo', 'MD08G1236800' => 'mdo', 'MD13G1193300' => 'mdo', 'MD15G1428700' => 'mdo', 'Medtr1g112030' => 'mtr', 'Medtr1g112050' => 'mtr', 'Medtr2g006290' => 'mtr', 'Medtr2g086510' => 'mtr', 'Medtr4g053120' => 'mtr', 'Medtr5g006320' => 'mtr', 'Medtr8g088720' => 'mtr', 'MELO3C004712.2' => 'cme', 'MELO3C006533.2' => 'cme', 'MELO3C019438.2' => 'cme', 'MELO3C019440.2' => 'cme', 'MELO3C019441.2' => 'cme', 'MELO3C019895.2' => 'cme', 'Migut.B00811' => 'egut', 'Migut.D02447' => 'egut', 'Migut.F00875' => 'egut', 'Migut.N00186' => 'egut', 'Migut.N01051' => 'egut', 'Migut.N02491' => 'egut', 'Migut.O00784' => 'egut', 'MSTRG.12367' => 'ama', 'MSTRG.18756' => 'ama', 'MSTRG.21042' => 'ama', 'Nitab4.5_0000559g0040' => 'nta', 'Nitab4.5_0000667g0190' => 'nta', 'Nitab4.5_0000755g0160' => 'nta', 'Nitab4.5_0001216g0080' => 'nta', 'Nitab4.5_0004069g0040' => 'nta', 'Nitab4.5_0004129g0010' => 'nta', 'Nitab4.5_0005744g0030' => 'nta', 'Nitab4.5_0006996g0030' => 'nta', 'Nitab4.5_0008971g0040' => 'nta', 'Nitab4.5_0009769g0020' => 'nta', 'Nitab4.5_0009833g0010' => 'nta', 'Nitab4.5_0013140g0020' => 'nta', 'Nn003s41376' => 'nnu', 'Nn1g01857' => 'nnu', 'Nn1g03611' => 'nnu', 'Nn1g06853' => 'nnu', 'Nn3g18360' => 'nnu', 'Nn4g26328' => 'nnu', 'Nn5g27531' => 'nnu', 'Nn6g34899' => 'nnu', 'Nn7g36299' => 'nnu', 'Oeu021485.1' => 'oeu', 'Oeu022433.1' => 'oeu', 'Oeu032111.1' => 'oeu', 'Oeu051608.1' => 'oeu', 'Os01g0860601' => 'osa', 'Os03g0659200' => 'osa', 'Os03g0835900' => 'osa', 'Os04g0412200' => 'osa', 'Os05g0443500' => 'osa', 'Os07g0251500' => 'osa', 'Os08g0104600' => 'osa', 'Peaxi162Scf00003g00047' => 'pax', 'Peaxi162Scf00003g00052' => 'pax', 'Peaxi162Scf00003g00394' => 'pax', 'Peaxi162Scf00091g00621' => 'pax', 'Peaxi162Scf00152g00146' => 'pax', 'Peaxi162Scf00173g00025' => 'pax', 'Peaxi162Scf00195g00102' => 'pax', 'Peaxi162Scf00402g00013' => 'pax', 'Peaxi162Scf00519g00618' => 'pax', 'PGR004G2838' => 'pgr', 'PGR044G2275' => 'pgr', 'PGR102G1377' => 'pgr', 'PGR119G1245' => 'pgr', 'PGR142G4449' => 'pgr', 'PGSC0003DMG400004532' => 'stu', 'PGSC0003DMG400011950' => 'stu', 'PGSC0003DMG400023391' => 'stu', 'PGSC0003DMG400023985' => 'stu', 'PGSC0003DMG400026360' => 'stu', 'PGSC0003DMG400035711' => 'stu', 'PGSC0003DMG400037286' => 'stu', 'PGSC0003DMG402005881' => 'stu', 'Phvul.002G045400' => 'pvu', 'Phvul.006G216600' => 'pvu', 'Phvul.006G216700' => 'pvu', 'Phvul.006G216800' => 'pvu', 'Phvul.007G022500' => 'pvu', 'Phvul.011G094400' => 'pvu', 'Potri.001G470700' => 'ptr', 'Potri.003G015200' => 'ptr', 'Potri.004G202500' => 'ptr', 'Potri.004G218400' => 'ptr', 'Potri.008G020100' => 'ptr', 'Potri.008G153200' => 'ptr', 'Potri.009G163800' => 'ptr', 'Potri.010G087300' => 'ptr', 'Potri.010G239100' => 'ptr', 'Pp3c10_16100' => 'ppa', 'Pp3c10_16880' => 'ppa', 'Pp3c16_6230' => 'ppa', 'Pp3c17_18910' => 'ppa', 'Pp3c3_22119' => 'ppa', 'Pp3c3_22140' => 'ppa', 'Pp3c4_8159' => 'ppa', 'Pp3c4_8171' => 'ppa', 'Pp3c4_8330' => 'ppa', 'PRCOL_00004098' => 'pco', 'Prupe.1G013900' => 'ppe', 'Prupe.1G226300' => 'ppe', 'Prupe.1G573600' => 'ppe', 'Prupe.6G130100' => 'ppe', 'Psat3g090040' => 'psa', 'Psat4g210440' => 'psa', 'Psat6g231040' => 'psa', 'Psat6g231080' => 'psa', 'Psat7g063000' => 'psa', 'Psat7g188000' => 'psa', 'Psat7g188040' => 'psa', 'PSO017G0206' => 'pso', 'PSO170G0501' => 'pso', 'PSO170G6422' => 'pso', 'PSO210G7739' => 'pso', 'PSO339G1808' => 'pso', 'PSO339G6135' => 'pso', 'PSO384G0010' => 'pso', 'PSO384G0964' => 'pso', 'PSO761G0050' => 'pso', 'PSO782G4085' => 'pso', 'QL01p012264' => 'qlo', 'QL02p099491' => 'qlo', 'QL03p033868' => 'qlo', 'QL04p046678' => 'qlo', 'QL06p002448' => 'qlo', 'RcHm_v2.0_Chr4g0416181' => 'rch', 'RcHm_v2.0_Chr5g0044701' => 'rch', 'RcHm_v2.0_Chr6g0265781' => 'rch', 'RcHm_v2.0_Chr7g0221031' => 'rch', 'Rhsim04G0202000' => 'rsi', 'Rhsim11G0127300' => 'rsi', 'Rhsim13G0111800' => 'rsi', 'Sabra01G0165600' => 'sbr', 'Sabra03G0008300' => 'sbr', 'Sabra04G0136900' => 'sbr', 'Sabra08G0013400' => 'sbr', 'Sabra08G0116800' => 'sbr', 'Sabra09G0128000' => 'sbr', 'Sabra10G0055500' => 'sbr', 'Sabra10G0073300' => 'sbr', 'SalBow3G0385' => 'sbo', 'SalBow3G1119' => 'sbo', 'SalBow3G2005' => 'sbo', 'SalBow6G2563' => 'sbo', 'SalBow6G6386' => 'sbo', 'Sc06g0008800' => 'sci', 'Sc07g0004950' => 'sci', 'Sc09g0005340' => 'sci', 'Sc13g0004410' => 'sci', 'Sc21g0007090' => 'sci', 'Sed0009285' => 'sed', 'Sed0017583' => 'sed', 'Sed0019699' => 'sed', 'Sed0023107' => 'sed', 'SEGI_10916' => 'sgi', 'SEGI_16217' => 'sgi', 'SEGI_19466' => 'sgi', 'SEGI_41115' => 'sgi', 'SGA_v2.0_scaffold111G31534' => 'sas', 'SGA_v2.0_scaffold22G09864' => 'sas', 'SGA_v2.0_scaffold338G49219' => 'sas', 'SGA_v2.0_scaffold92G28298' => 'sas', 'SMO119G0064' => 'smo', 'SMO223G0038' => 'smo', 'SMO347G0584' => 'smo', 'SMO351G0010' => 'smo', 'SMO356G0404' => 'smo', 'Solyc01g103920.3' => 'sly', 'Solyc04g009710.2' => 'sly', 'Solyc05g055280.2' => 'sly', 'Solyc10g044520.3' => 'sly', 'Solyc10g075160.1' => 'sly', 'Solyc11g006910.3' => 'sly', 'Solyc11g068430.3' => 'sly', 'Sopen01g046310' => 'spe', 'Sopen03g001200' => 'spe', 'Sopen04g004830' => 'spe', 'Sopen05g033720' => 'spe', 'Sopen06g030740' => 'spe', 'Sopen10g013090' => 'spe', 'Sopen10g027630' => 'spe', 'Sopen10g027640' => 'spe', 'Sopen11g002820' => 'spe', 'Sopen11g027140' => 'spe', 'Sp1g09680' => 'spa', 'Sp2g03630' => 'spa', 'Sp4g10320' => 'spa', 'Sp6g33400' => 'spa', 'Sp7g13030' => 'spa', 'TAR365G0317' => 'tar', 'TAR376G0979' => 'tar', 'TAR623G1665' => 'tar', 'TAR633G2373' => 'tar', 'TAR636G1400' => 'tar', 'THA.LOC104800529' => 'tha', 'THA.LOC104808547' => 'tha', 'THA.LOC104809615' => 'tha', 'THA.LOC104815724' => 'tha', 'THA.LOC104818480' => 'tha', 'THA.LOC104819179' => 'tha', 'THA.LOC104822270' => 'tha', 'THA.LOC104826425' => 'tha', 'Thecc.02G089700' => 'tca', 'Thecc.04G232300' => 'tca', 'Thecc.09G283400' => 'tca', 'Thhalv10009020m.g' => 'esa', 'Thhalv10015506m.g' => 'esa', 'Thhalv10017364m.g' => 'esa', 'Thhalv10023742m.g' => 'esa', 'Thhalv10026483m.g' => 'esa', 'TPR.G17232' => 'tpr', 'TPR.G2133' => 'tpr', 'TPR.G2498' => 'tpr', 'TPR.G31942' => 'tpr', 'TPR.G37877' => 'tpr', 'TPR.G4571' => 'tpr', 'TWI14G1113' => 'twi', 'TWI15G0426' => 'twi', 'TWI31G1005' => 'twi', 'TWI38G0513' => 'twi', 'TWI38G1484' => 'twi', 'TWI73G1098' => 'twi', 'unitig_26.g10519' => 'ugi', 'unitig_736.g22395' => 'ugi', 'unitig_747.g21234' => 'ugi', 'unitig_747.g21942' => 'ugi', 'vmacro14351' => 'vma', 'VMungo0540G0082' => 'vmu', 'VMungo0540G0405' => 'vmu', 'VMungo0540G1486' => 'vmu', 'VMungo0540G1692' => 'vmu', 'VMungo0720G2473' => 'vmu', 'VMungo1127G1562' => 'vmu', 'VMungo1215G1918' => 'vmu', 'Zm00001eb052650' => 'zma', 'Zm00001eb063710' => 'zma', 'Zm00001eb083950' => 'zma', 'Zm00001eb174420' => 'zma', 'Zm00001eb260140' => 'zma', 'Zm00001eb260150' => 'zma', 'Zm00001eb260160' => 'zma', 'Zm00001eb348290' => 'zma', 'Zm00001eb366870' => 'zma', 'Zm00001eb421930' => 'zma' ), 'gf_id' => 'HOM05D001025', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001025' ), 'data_identifier' => 'HOM05D001025', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001025', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '592', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p22650' => 'bna', 'A01p29720' => 'bna', 'A03p26560' => 'bna', 'A03p68820' => 'bna', 'A04p20980' => 'bna', 'A06p07730' => 'bna', 'A07p18260' => 'bna', 'A08p33710' => 'bna', 'A09p16970' => 'bna', 'A10p27490' => 'bna', 'Aa31LG1G17300' => 'aar', 'Aa31LG1G3910' => 'aar', 'Aa31LG2G9630' => 'aar', 'Aa31LG5G8360' => 'aar', 'Aa31LG9G2410' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4699' => 'aag', 'Actinidia23512' => 'ach', 'Actinidia37080' => 'ach', 'Ah.01g020380' => 'amhyb', 'Ah.08g215710' => 'amhyb', 'Ah.09g225110' => 'amhyb', 'Ah.10g036680' => 'amhyb', 'AL1G21940' => 'aly', 'AL2G15540' => 'aly', 'AL4G21520' => 'aly', 'AL7G40960' => 'aly', 'Aqoxy2G01191' => 'aox', 'Aqoxy2G03393' => 'aox', 'Aqoxy4G02775' => 'aox', 'Aqoxy6G00058' => 'aox', 'arahy.Tifrunner.gnm1.ann1.9X74H2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CW3FX9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R485W7' => 'arhy', 'AT1G10960' => 'ath', 'AT1G60950' => 'ath', 'AT2G27510' => 'ath', 'AT4G14890' => 'ath', 'AT5G10000' => 'ath', 'ATR0665G624' => 'atr', 'ATR0697G138' => 'atr', 'ATR0776G046' => 'atr', 'ATR1134G135' => 'atr', 'Atru.chr12.1025' => 'acertr', 'Atru.chr3.3241' => 'acertr', 'Atru.chr4.2460' => 'acertr', 'AUR62007427' => 'cqu', 'AUR62010960' => 'cqu', 'AUR62012201' => 'cqu', 'AUR62021470' => 'cqu', 'AUR62022834' => 'cqu', 'AUR62033635' => 'cqu', 'AUR62036186' => 'cqu', 'BcaB01g03077' => 'bca', 'BcaB02g10093' => 'bca', 'BcaB04g20295' => 'bca', 'BcaB06g28147' => 'bca', 'BcaB07g31253' => 'bca', 'BcaC01g04946' => 'bca', 'BcaC02g10614' => 'bca', 'BcaC02g10885' => 'bca', 'BcaC04g19356' => 'bca', 'BcaC04g22297' => 'bca', 'BcaC05g24977' => 'bca', 'BcaC06g31823' => 'bca', 'BcaC07g38633' => 'bca', 'BcaC09g49353' => 'bca', 'BcaC09g50168' => 'bca', 'BcaNung00322' => 'bca', 'BcaNung04769' => 'bca', 'BolC1t02753H' => 'bol', 'BolC1t03721H' => 'bol', 'BolC3t15525H' => 'bol', 'BolC4t23903H' => 'bol', 'BolC4t24231H' => 'bol', 'BolC4t27209H' => 'bol', 'BolC5t29671H' => 'bol', 'BolC8t49044H' => 'bol', 'BolC9t54999H' => 'bol', 'BolC9t59517H' => 'bol', 'BraA01t02178Z' => 'bra', 'BraA01t03099Z' => 'bra', 'BraA03t11867Z' => 'bra', 'BraA04t17667Z' => 'bra', 'BraA07t29542Z' => 'bra', 'BraA08t35287Z' => 'bra', 'BraA09t37334Z' => 'bra', 'BraA10t44801Z' => 'bra', 'BraSC39t46181Z' => 'bra', 'C01p28240' => 'bna', 'C01p37530' => 'bna', 'C03p31820' => 'bna', 'C04p24080' => 'bna', 'C04p25790' => 'bna', 'C04p56770' => 'bna', 'C05p09310' => 'bna', 'C09p21010' => 'bna', 'C09p67560' => 'bna', 'CAN.G1324.7' => 'can', 'CAN.G1358.10' => 'can', 'CAN.G1550.2' => 'can', 'CAN.G186.56' => 'can', 'CAN.G1965.1' => 'can', 'CAN.G645.15' => 'can', 'CAN.G798.26' => 'can', 'CAN.G798.27' => 'can', 'CAN.G798.29' => 'can', 'CAN.G919.31' => 'can', 'CANSAT11G0133' => 'cansat', 'CANSAT11G1171' => 'cansat', 'CANSAT11G2056' => 'cansat', 'CANSAT56G1202' => 'cansat', 'CANSAT56G1514' => 'cansat', 'CANSAT78G0455' => 'cansat', 'CARHR011190' => 'chi', 'CARHR051980' => 'chi', 'CARHR120170' => 'chi', 'CARHR203310' => 'chi', 'CARHR221490' => 'chi', 'Carub.0001s1054' => 'cru', 'Carub.0002s0431' => 'cru', 'Carub.0004s0818' => 'cru', 'Carub.0006s0846' => 'cru', 'Carub.0007s2722' => 'cru', 'Ca_00058_v3' => 'car', 'Ca_17831_v3' => 'car', 'Ca_19408_v3' => 'car', 'Ca_24397_v3' => 'car', 'Ca_25664_v3' => 'car', 'CBR_g21818' => 'cbr', 'CBR_g31195' => 'cbr', 'CBR_g32282' => 'cbr', 'CBR_g39599' => 'cbr', 'CBR_g49410' => 'cbr', 'Cc01_g09120' => 'ccan', 'Cc01_g09130' => 'ccan', 'Cc02_g09630' => 'ccan', 'Cc02_g22810' => 'ccan', 'Cc03_g03810' => 'ccan', 'CDE02G3718' => 'cde', 'CDE04G3183' => 'cde', 'CDE07G1046' => 'cde', 'CDE08G0480' => 'cde', 'Cfa005493' => 'cfa', 'Cfa010312' => 'cfa', 'Cfa015648' => 'cfa', 'Ciclev10002793m.g' => 'ccl', 'Ciclev10003356m.g' => 'ccl', 'Ciclev10006141m.g' => 'ccl', 'Ciclev10016676m.g' => 'ccl', 'Ciclev10017081m.g' => 'ccl', 'Ciclev10029499m.g' => 'ccl', 'CiPaw.01G166300' => 'cil', 'CiPaw.06G145600' => 'cil', 'CiPaw.13G040100' => 'cil', 'CiPaw.13G135800' => 'cil', 'ClCG01G012230' => 'cla', 'ClCG05G009510' => 'cla', 'ClCG08G008270' => 'cla', 'COL.COLO4_11763' => 'col', 'COL.COLO4_19876' => 'col', 'COL.COLO4_21481' => 'col', 'Cpa.g.sc118.34' => 'cpa', 'Cpa.g.sc32.13' => 'cpa', 'Cpa.g.sc58.103' => 'cpa', 'Cre03.g183850' => 'cre', 'Cre06.g306350' => 'cre', 'Cre07.g334800' => 'cre', 'Cre12.g487900' => 'cre', 'Cre14.g626700' => 'cre', 'Cre16.g658400' => 'cre', 'Cre17.g700950' => 'cre', 'CsaV3_1G014830' => 'csa', 'CsaV3_3G013320' => 'csa', 'CsaV3_3G019210' => 'csa', 'CsaV3_3G019220' => 'csa', 'CsaV3_6G004230' => 'csa', 'CSS0003773' => 'camsi', 'CSS0004563' => 'camsi', 'CSS0013949' => 'camsi', 'CSS0025971' => 'camsi', 'CSS0028570' => 'camsi', 'CSS0033127' => 'camsi', 'CSS0036051' => 'camsi', 'CSS0040087' => 'camsi', 'CSS0043179' => 'camsi', 'DCAR_006161' => 'dca', 'DCAR_010351' => 'dca', 'DCAR_012197' => 'dca', 'DCAR_024162' => 'dca', 'Dinv01030' => 'din', 'Dinv10924' => 'din', 'Dinv11835' => 'din', 'Dinv22841' => 'din', 'Dinv42553' => 'din', 'Duzib052G0560' => 'dzi', 'Duzib132G0389' => 'dzi', 'Duzib150G1181' => 'dzi', 'Duzib168G0623' => 'dzi', 'Duzib170G1036' => 'dzi', 'Duzib212G0200' => 'dzi', 'Duzib248G0194' => 'dzi', 'ECA232G2193' => 'eca', 'ECA233G0302' => 'eca', 'ECA234G2813' => 'eca', 'ECA234G4866' => 'eca', 'ECA240G3932' => 'eca', 'ECA248G0385' => 'eca', 'EL10Ac2g04781' => 'bvu', 'EL10Ac3g06445' => 'bvu', 'EL10Ac7g15825' => 'bvu', 'EL10Ac8g18550' => 'bvu', 'Eucgr.B03849' => 'egr', 'Eucgr.I02744' => 'egr', 'Eucgr.J00264' => 'egr', 'Eucgr.J00493' => 'egr', 'FAN04G2181' => 'fan', 'FAN07G2666' => 'fan', 'FAN11G0024' => 'fan', 'FAN12G1105' => 'fan', 'FAN13G0302' => 'fan', 'FAN15G2781' => 'fan', 'FAN16G1274' => 'fan', 'FAN17G2988' => 'fan', 'FAN18G2621' => 'fan', 'FAN21G0013' => 'fan', 'FAN22G1211' => 'fan', 'FAN25G3626' => 'fan', 'FvH4_2g09491' => 'fve', 'FvH4_3g24910' => 'fve', 'FvH4_4g15630' => 'fve', 'FvH4_5g28820' => 'fve', 'Glyma.01G238000' => 'gma', 'Glyma.05G168400' => 'gma', 'Glyma.08G126800' => 'gma', 'Glyma.08G188500' => 'gma', 'Glyma.10G278900' => 'gma', 'Glyma.11G005700' => 'gma', 'Glyma.11G183300' => 'gma', 'Glyma.12G089200' => 'gma', 'Glyma.12G169400' => 'gma', 'Glyma.12G169500' => 'gma', 'Glyma.12G169600' => 'gma', 'Glyma.20G110800' => 'gma', 'Gohir.A03G192900' => 'ghi', 'Gohir.A03G193000' => 'ghi', 'Gohir.A05G080700' => 'ghi', 'Gohir.A09G216000' => 'ghi', 'Gohir.A12G027700' => 'ghi', 'Gohir.A13G036200' => 'ghi', 'Gohir.A13G222600' => 'ghi', 'Gohir.D02G213900' => 'ghi', 'Gohir.D02G214000' => 'ghi', 'Gohir.D05G083700' => 'ghi', 'Gohir.D05G083800' => 'ghi', 'Gohir.D05G083850' => 'ghi', 'Gohir.D08G015400' => 'ghi', 'Gohir.D09G218400' => 'ghi', 'Gohir.D12G027100' => 'ghi', 'Gohir.D13G034500' => 'ghi', 'Gohir.D13G227400' => 'ghi', 'Gorai.005G241800' => 'gra', 'Gorai.005G241900' => 'gra', 'Gorai.006G239400' => 'gra', 'Gorai.008G027600' => 'gra', 'Gorai.009G085400' => 'gra', 'Gorai.009G085500' => 'gra', 'Gorai.013G039000' => 'gra', 'Gorai.013G194800' => 'gra', 'Gorai.013G257900' => 'gra', 'GSVIVG01000982001' => 'vvi', 'GSVIVG01017981001' => 'vvi', 'HanXRQChr01g0024061' => 'han', 'HanXRQChr09g0247831' => 'han', 'HanXRQChr10g0294611' => 'han', 'HanXRQChr10g0294621' => 'han', 'HanXRQChr11g0346821' => 'han', 'HanXRQChr13g0397461' => 'han', 'HanXRQChr16g0513651' => 'han', 'HanXRQChr16g0513701' => 'han', 'Haze_00897' => 'cav', 'Haze_01745' => 'cav', 'Haze_02486' => 'cav', 'Haze_02487' => 'cav', 'Haze_23374' => 'cav', 'Hma1.2p1_0578F.1_g182520' => 'hma', 'Hma1.2p1_0602F.1_g187350' => 'hma', 'Hma1.2p1_0602F.1_g187360' => 'hma', 'Hma1.2p1_0874F.1_g231320' => 'hma', 'Hma1.2p1_1197F.1_g266210' => 'hma', 'Hma1.2p1_1197F.1_g266220' => 'hma', 'Hma1.2p1_2167F.1_g315895' => 'hma', 'Hma1.2p1_2190F.1_g316640' => 'hma', 'Hma1.2p1_3645F.1_g337153' => 'hma', 'HPP92_004907' => 'vpl', 'HPP92_012134' => 'vpl', 'HPP92_025136' => 'vpl', 'HPP92_026087' => 'vpl', 'Hund06782' => 'sun', 'Hund06784' => 'sun', 'Lalb_Chr01g0004861' => 'lal', 'Lalb_Chr02g0140591' => 'lal', 'Lalb_Chr02g0140611' => 'lal', 'Lalb_Chr03g0028101' => 'lal', 'Lalb_Chr07g0185791' => 'lal', 'Lalb_Chr12g0204491' => 'lal', 'Lalb_Chr13g0295671' => 'lal', 'Lalb_Chr19g0136461' => 'lal', 'Lalb_Chr21g0309191' => 'lal', 'Lj1g0028158' => 'lja', 'Lj1P236T38' => 'lonja', 'Lj2C32G2' => 'lonja', 'Lj2P944T8' => 'lonja', 'Lj2P963T15' => 'lonja', 'Lj3g0011788' => 'lja', 'Lj4g0025027' => 'lja', 'Lj5P255T36' => 'lonja', 'Lj6g0018866' => 'lja', 'Lj6P608T31' => 'lonja', 'LjContig00408g0008879' => 'lja', 'Lsat_1_v5_gn_5_105820' => 'lsa', 'Lsat_1_v5_gn_6_38800' => 'lsa', 'Lsat_1_v5_gn_7_67141' => 'lsa', 'Manes.04G003400' => 'mes', 'Manes.07G020000' => 'mes', 'Manes.07G020100' => 'mes', 'Manes.07G020150' => 'mes', 'Manes.10G061500' => 'mes', 'Manes.10G123200' => 'mes', 'Manes.11G161900' => 'mes', 'Manes.15G029300' => 'mes', 'Mapoly0071s0018' => 'mpo', 'Mapoly0082s0023' => 'mpo', 'Mapoly3477s0001' => 'mpo', 'MBI05_g31233_MAGBIO' => 'mbi', 'MBI09_g05946_MAGBIO' => 'mbi', 'MBI09_g05947_MAGBIO' => 'mbi', 'MBI17_g08346_MAGBIO' => 'mbi', 'MCO04G038' => 'mco', 'MCO09G370' => 'mco', 'MCO13G605' => 'mco', 'MD00G1075500' => 'mdo', 'MD03G1144300' => 'mdo', 'MD08G1236800' => 'mdo', 'MD13G1193300' => 'mdo', 'MD15G1428700' => 'mdo', 'Medtr1g112030' => 'mtr', 'Medtr1g112050' => 'mtr', 'Medtr2g006290' => 'mtr', 'Medtr2g086510' => 'mtr', 'Medtr4g053120' => 'mtr', 'Medtr5g006320' => 'mtr', 'Medtr8g088720' => 'mtr', 'MELO3C004712.2' => 'cme', 'MELO3C006533.2' => 'cme', 'MELO3C019438.2' => 'cme', 'MELO3C019440.2' => 'cme', 'MELO3C019441.2' => 'cme', 'MELO3C019895.2' => 'cme', 'Migut.B00811' => 'egut', 'Migut.D02447' => 'egut', 'Migut.F00875' => 'egut', 'Migut.N00186' => 'egut', 'Migut.N01051' => 'egut', 'Migut.N02491' => 'egut', 'Migut.O00784' => 'egut', 'MSTRG.12367' => 'ama', 'MSTRG.18756' => 'ama', 'MSTRG.21042' => 'ama', 'Nitab4.5_0000559g0040' => 'nta', 'Nitab4.5_0000667g0190' => 'nta', 'Nitab4.5_0000755g0160' => 'nta', 'Nitab4.5_0001216g0080' => 'nta', 'Nitab4.5_0004069g0040' => 'nta', 'Nitab4.5_0004129g0010' => 'nta', 'Nitab4.5_0005744g0030' => 'nta', 'Nitab4.5_0006996g0030' => 'nta', 'Nitab4.5_0008971g0040' => 'nta', 'Nitab4.5_0009769g0020' => 'nta', 'Nitab4.5_0009833g0010' => 'nta', 'Nitab4.5_0013140g0020' => 'nta', 'Nn003s41376' => 'nnu', 'Nn1g01857' => 'nnu', 'Nn1g03611' => 'nnu', 'Nn1g06853' => 'nnu', 'Nn3g18360' => 'nnu', 'Nn4g26328' => 'nnu', 'Nn5g27531' => 'nnu', 'Nn6g34899' => 'nnu', 'Nn7g36299' => 'nnu', 'Oeu021485.1' => 'oeu', 'Oeu022433.1' => 'oeu', 'Oeu032111.1' => 'oeu', 'Oeu051608.1' => 'oeu', 'Os01g0860601' => 'osa', 'Os03g0659200' => 'osa', 'Os03g0835900' => 'osa', 'Os04g0412200' => 'osa', 'Os05g0443500' => 'osa', 'Os07g0251500' => 'osa', 'Os08g0104600' => 'osa', 'Peaxi162Scf00003g00047' => 'pax', 'Peaxi162Scf00003g00052' => 'pax', 'Peaxi162Scf00003g00394' => 'pax', 'Peaxi162Scf00091g00621' => 'pax', 'Peaxi162Scf00152g00146' => 'pax', 'Peaxi162Scf00173g00025' => 'pax', 'Peaxi162Scf00195g00102' => 'pax', 'Peaxi162Scf00402g00013' => 'pax', 'Peaxi162Scf00519g00618' => 'pax', 'PGR004G2838' => 'pgr', 'PGR044G2275' => 'pgr', 'PGR102G1377' => 'pgr', 'PGR119G1245' => 'pgr', 'PGR142G4449' => 'pgr', 'PGSC0003DMG400004532' => 'stu', 'PGSC0003DMG400011950' => 'stu', 'PGSC0003DMG400023391' => 'stu', 'PGSC0003DMG400023985' => 'stu', 'PGSC0003DMG400026360' => 'stu', 'PGSC0003DMG400035711' => 'stu', 'PGSC0003DMG400037286' => 'stu', 'PGSC0003DMG402005881' => 'stu', 'Phvul.002G045400' => 'pvu', 'Phvul.006G216600' => 'pvu', 'Phvul.006G216700' => 'pvu', 'Phvul.006G216800' => 'pvu', 'Phvul.007G022500' => 'pvu', 'Phvul.011G094400' => 'pvu', 'Potri.001G470700' => 'ptr', 'Potri.003G015200' => 'ptr', 'Potri.004G202500' => 'ptr', 'Potri.004G218400' => 'ptr', 'Potri.008G020100' => 'ptr', 'Potri.008G153200' => 'ptr', 'Potri.009G163800' => 'ptr', 'Potri.010G087300' => 'ptr', 'Potri.010G239100' => 'ptr', 'Pp3c10_16100' => 'ppa', 'Pp3c10_16880' => 'ppa', 'Pp3c16_6230' => 'ppa', 'Pp3c17_18910' => 'ppa', 'Pp3c3_22119' => 'ppa', 'Pp3c3_22140' => 'ppa', 'Pp3c4_8159' => 'ppa', 'Pp3c4_8171' => 'ppa', 'Pp3c4_8330' => 'ppa', 'PRCOL_00004098' => 'pco', 'Prupe.1G013900' => 'ppe', 'Prupe.1G226300' => 'ppe', 'Prupe.1G573600' => 'ppe', 'Prupe.6G130100' => 'ppe', 'Psat3g090040' => 'psa', 'Psat4g210440' => 'psa', 'Psat6g231040' => 'psa', 'Psat6g231080' => 'psa', 'Psat7g063000' => 'psa', 'Psat7g188000' => 'psa', 'Psat7g188040' => 'psa', 'PSO017G0206' => 'pso', 'PSO170G0501' => 'pso', 'PSO170G6422' => 'pso', 'PSO210G7739' => 'pso', 'PSO339G1808' => 'pso', 'PSO339G6135' => 'pso', 'PSO384G0010' => 'pso', 'PSO384G0964' => 'pso', 'PSO761G0050' => 'pso', 'PSO782G4085' => 'pso', 'QL01p012264' => 'qlo', 'QL02p099491' => 'qlo', 'QL03p033868' => 'qlo', 'QL04p046678' => 'qlo', 'QL06p002448' => 'qlo', 'RcHm_v2.0_Chr4g0416181' => 'rch', 'RcHm_v2.0_Chr5g0044701' => 'rch', 'RcHm_v2.0_Chr6g0265781' => 'rch', 'RcHm_v2.0_Chr7g0221031' => 'rch', 'Rhsim04G0202000' => 'rsi', 'Rhsim11G0127300' => 'rsi', 'Rhsim13G0111800' => 'rsi', 'Sabra01G0165600' => 'sbr', 'Sabra03G0008300' => 'sbr', 'Sabra04G0136900' => 'sbr', 'Sabra08G0013400' => 'sbr', 'Sabra08G0116800' => 'sbr', 'Sabra09G0128000' => 'sbr', 'Sabra10G0055500' => 'sbr', 'Sabra10G0073300' => 'sbr', 'SalBow3G0385' => 'sbo', 'SalBow3G1119' => 'sbo', 'SalBow3G2005' => 'sbo', 'SalBow6G2563' => 'sbo', 'SalBow6G6386' => 'sbo', 'Sc06g0008800' => 'sci', 'Sc07g0004950' => 'sci', 'Sc09g0005340' => 'sci', 'Sc13g0004410' => 'sci', 'Sc21g0007090' => 'sci', 'Sed0009285' => 'sed', 'Sed0017583' => 'sed', 'Sed0019699' => 'sed', 'Sed0023107' => 'sed', 'SEGI_10916' => 'sgi', 'SEGI_16217' => 'sgi', 'SEGI_19466' => 'sgi', 'SEGI_41115' => 'sgi', 'SGA_v2.0_scaffold111G31534' => 'sas', 'SGA_v2.0_scaffold22G09864' => 'sas', 'SGA_v2.0_scaffold338G49219' => 'sas', 'SGA_v2.0_scaffold92G28298' => 'sas', 'SMO119G0064' => 'smo', 'SMO223G0038' => 'smo', 'SMO347G0584' => 'smo', 'SMO351G0010' => 'smo', 'SMO356G0404' => 'smo', 'Solyc01g103920.3' => 'sly', 'Solyc04g009710.2' => 'sly', 'Solyc05g055280.2' => 'sly', 'Solyc10g044520.3' => 'sly', 'Solyc10g075160.1' => 'sly', 'Solyc11g006910.3' => 'sly', 'Solyc11g068430.3' => 'sly', 'Sopen01g046310' => 'spe', 'Sopen03g001200' => 'spe', 'Sopen04g004830' => 'spe', 'Sopen05g033720' => 'spe', 'Sopen06g030740' => 'spe', 'Sopen10g013090' => 'spe', 'Sopen10g027630' => 'spe', 'Sopen10g027640' => 'spe', 'Sopen11g002820' => 'spe', 'Sopen11g027140' => 'spe', 'Sp1g09680' => 'spa', 'Sp2g03630' => 'spa', 'Sp4g10320' => 'spa', 'Sp6g33400' => 'spa', 'Sp7g13030' => 'spa', 'TAR365G0317' => 'tar', 'TAR376G0979' => 'tar', 'TAR623G1665' => 'tar', 'TAR633G2373' => 'tar', 'TAR636G1400' => 'tar', 'THA.LOC104800529' => 'tha', 'THA.LOC104808547' => 'tha', 'THA.LOC104809615' => 'tha', 'THA.LOC104815724' => 'tha', 'THA.LOC104818480' => 'tha', 'THA.LOC104819179' => 'tha', 'THA.LOC104822270' => 'tha', 'THA.LOC104826425' => 'tha', 'Thecc.02G089700' => 'tca', 'Thecc.04G232300' => 'tca', 'Thecc.09G283400' => 'tca', 'Thhalv10009020m.g' => 'esa', 'Thhalv10015506m.g' => 'esa', 'Thhalv10017364m.g' => 'esa', 'Thhalv10023742m.g' => 'esa', 'Thhalv10026483m.g' => 'esa', 'TPR.G17232' => 'tpr', 'TPR.G2133' => 'tpr', 'TPR.G2498' => 'tpr', 'TPR.G31942' => 'tpr', 'TPR.G37877' => 'tpr', 'TPR.G4571' => 'tpr', 'TWI14G1113' => 'twi', 'TWI15G0426' => 'twi', 'TWI31G1005' => 'twi', 'TWI38G0513' => 'twi', 'TWI38G1484' => 'twi', 'TWI73G1098' => 'twi', 'unitig_26.g10519' => 'ugi', 'unitig_736.g22395' => 'ugi', 'unitig_747.g21234' => 'ugi', 'unitig_747.g21942' => 'ugi', 'vmacro14351' => 'vma', 'VMungo0540G0082' => 'vmu', 'VMungo0540G0405' => 'vmu', 'VMungo0540G1486' => 'vmu', 'VMungo0540G1692' => 'vmu', 'VMungo0720G2473' => 'vmu', 'VMungo1127G1562' => 'vmu', 'VMungo1215G1918' => 'vmu', 'Zm00001eb052650' => 'zma', 'Zm00001eb063710' => 'zma', 'Zm00001eb083950' => 'zma', 'Zm00001eb174420' => 'zma', 'Zm00001eb260140' => 'zma', 'Zm00001eb260150' => 'zma', 'Zm00001eb260160' => 'zma', 'Zm00001eb348290' => 'zma', 'Zm00001eb366870' => 'zma', 'Zm00001eb421930' => 'zma' ) $gf_id = 'HOM05D001025' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001025' ) $data_identifier = 'HOM05D001025' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 19, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 2, 'amhyb' => (int) 4, 'aly' => (int) 4, 'aox' => (int) 4, 'arhy' => (int) 3, 'ath' => (int) 5, 'atr' => (int) 4, 'acertr' => (int) 3, 'cqu' => (int) 7, 'bca' => (int) 17, 'bol' => (int) 10, 'bra' => (int) 9, 'can' => (int) 10, 'cansat' => (int) 6, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 5, 'cbr' => (int) 5, 'ccan' => (int) 5, 'cde' => (int) 4, 'cfa' => (int) 3, 'ccl' => (int) 6, 'cil' => (int) 4, 'cla' => (int) 3, 'col' => (int) 3, 'cpa' => (int) 3, 'cre' => (int) 7, 'csa' => (int) 5, 'camsi' => (int) 9, 'dca' => (int) 4, 'din' => (int) 5, 'dzi' => (int) 7, 'eca' => (int) 6, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 12, 'fve' => (int) 4, 'gma' => (int) 12, 'ghi' => (int) 17, 'gra' => (int) 9, 'vvi' => (int) 2, 'han' => (int) 8, 'cav' => (int) 5, 'hma' => (int) 9, 'vpl' => (int) 4, 'sun' => (int) 2, 'lal' => (int) 9, 'lja' => (int) 5, 'lonja' => (int) 6, 'lsa' => (int) 3, 'mes' => (int) 8, 'mpo' => (int) 3, 'mbi' => (int) 4, 'mco' => (int) 3, 'mdo' => (int) 5, 'mtr' => (int) 7, 'cme' => (int) 6, 'egut' => (int) 7, 'ama' => (int) 3, 'nta' => (int) 12, 'nnu' => (int) 9, 'oeu' => (int) 4, 'osa' => (int) 7, 'pax' => (int) 9, 'pgr' => (int) 5, 'stu' => (int) 8, 'pvu' => (int) 6, 'ptr' => (int) 9, 'ppa' => (int) 9, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 7, 'pso' => (int) 10, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 3, 'sbr' => (int) 8, 'sbo' => (int) 5, 'sci' => (int) 5, 'sed' => (int) 4, 'sgi' => (int) 4, 'sas' => (int) 4, 'smo' => (int) 5, 'sly' => (int) 7, 'spe' => (int) 10, 'spa' => (int) 5, 'tar' => (int) 5, 'tha' => (int) 8, 'tca' => (int) 3, 'esa' => (int) 5, 'tpr' => (int) 6, 'twi' => (int) 6, 'ugi' => (int) 4, 'vma' => (int) 1, 'vmu' => (int) 7, 'zma' => (int) 10 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb421930' $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' => 'HOM05D001025', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '592', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p22650' => 'bna', 'A01p29720' => 'bna', 'A03p26560' => 'bna', 'A03p68820' => 'bna', 'A04p20980' => 'bna', 'A06p07730' => 'bna', 'A07p18260' => 'bna', 'A08p33710' => 'bna', 'A09p16970' => 'bna', 'A10p27490' => 'bna', 'Aa31LG1G17300' => 'aar', 'Aa31LG1G3910' => 'aar', 'Aa31LG2G9630' => 'aar', 'Aa31LG5G8360' => 'aar', 'Aa31LG9G2410' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4699' => 'aag', 'Actinidia23512' => 'ach', 'Actinidia37080' => 'ach', 'Ah.01g020380' => 'amhyb', 'Ah.08g215710' => 'amhyb', 'Ah.09g225110' => 'amhyb', 'Ah.10g036680' => 'amhyb', 'AL1G21940' => 'aly', 'AL2G15540' => 'aly', 'AL4G21520' => 'aly', 'AL7G40960' => 'aly', 'Aqoxy2G01191' => 'aox', 'Aqoxy2G03393' => 'aox', 'Aqoxy4G02775' => 'aox', 'Aqoxy6G00058' => 'aox', 'arahy.Tifrunner.gnm1.ann1.9X74H2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CW3FX9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R485W7' => 'arhy', 'AT1G10960' => 'ath', 'AT1G60950' => 'ath', 'AT2G27510' => 'ath', 'AT4G14890' => 'ath', 'AT5G10000' => 'ath', 'ATR0665G624' => 'atr', 'ATR0697G138' => 'atr', 'ATR0776G046' => 'atr', 'ATR1134G135' => 'atr', 'Atru.chr12.1025' => 'acertr', 'Atru.chr3.3241' => 'acertr', 'Atru.chr4.2460' => 'acertr', 'AUR62007427' => 'cqu', 'AUR62010960' => 'cqu', 'AUR62012201' => 'cqu', 'AUR62021470' => 'cqu', 'AUR62022834' => 'cqu', 'AUR62033635' => 'cqu', 'AUR62036186' => 'cqu', 'BcaB01g03077' => 'bca', 'BcaB02g10093' => 'bca', 'BcaB04g20295' => 'bca', 'BcaB06g28147' => 'bca', 'BcaB07g31253' => 'bca', 'BcaC01g04946' => 'bca', 'BcaC02g10614' => 'bca', 'BcaC02g10885' => 'bca', 'BcaC04g19356' => 'bca', 'BcaC04g22297' => 'bca', 'BcaC05g24977' => 'bca', 'BcaC06g31823' => 'bca', 'BcaC07g38633' => 'bca', 'BcaC09g49353' => 'bca', 'BcaC09g50168' => 'bca', 'BcaNung00322' => 'bca', 'BcaNung04769' => 'bca', 'BolC1t02753H' => 'bol', 'BolC1t03721H' => 'bol', 'BolC3t15525H' => 'bol', 'BolC4t23903H' => 'bol', 'BolC4t24231H' => 'bol', 'BolC4t27209H' => 'bol', 'BolC5t29671H' => 'bol', 'BolC8t49044H' => 'bol', 'BolC9t54999H' => 'bol', 'BolC9t59517H' => 'bol', 'BraA01t02178Z' => 'bra', 'BraA01t03099Z' => 'bra', 'BraA03t11867Z' => 'bra', 'BraA04t17667Z' => 'bra', 'BraA07t29542Z' => 'bra', 'BraA08t35287Z' => 'bra', 'BraA09t37334Z' => 'bra', 'BraA10t44801Z' => 'bra', 'BraSC39t46181Z' => 'bra', 'C01p28240' => 'bna', 'C01p37530' => 'bna', 'C03p31820' => 'bna', 'C04p24080' => 'bna', 'C04p25790' => 'bna', 'C04p56770' => 'bna', 'C05p09310' => 'bna', 'C09p21010' => 'bna', 'C09p67560' => 'bna', 'CAN.G1324.7' => 'can', 'CAN.G1358.10' => 'can', 'CAN.G1550.2' => 'can', 'CAN.G186.56' => 'can', 'CAN.G1965.1' => 'can', 'CAN.G645.15' => 'can', 'CAN.G798.26' => 'can', 'CAN.G798.27' => 'can', 'CAN.G798.29' => 'can', 'CAN.G919.31' => 'can', 'CANSAT11G0133' => 'cansat', 'CANSAT11G1171' => 'cansat', 'CANSAT11G2056' => 'cansat', 'CANSAT56G1202' => 'cansat', 'CANSAT56G1514' => 'cansat', 'CANSAT78G0455' => 'cansat', 'CARHR011190' => 'chi', 'CARHR051980' => 'chi', 'CARHR120170' => 'chi', 'CARHR203310' => 'chi', 'CARHR221490' => 'chi', 'Carub.0001s1054' => 'cru', 'Carub.0002s0431' => 'cru', 'Carub.0004s0818' => 'cru', 'Carub.0006s0846' => 'cru', 'Carub.0007s2722' => 'cru', 'Ca_00058_v3' => 'car', 'Ca_17831_v3' => 'car', 'Ca_19408_v3' => 'car', 'Ca_24397_v3' => 'car', 'Ca_25664_v3' => 'car', 'CBR_g21818' => 'cbr', 'CBR_g31195' => 'cbr', 'CBR_g32282' => 'cbr', 'CBR_g39599' => 'cbr', 'CBR_g49410' => 'cbr', 'Cc01_g09120' => 'ccan', 'Cc01_g09130' => 'ccan', 'Cc02_g09630' => 'ccan', 'Cc02_g22810' => 'ccan', 'Cc03_g03810' => 'ccan', 'CDE02G3718' => 'cde', 'CDE04G3183' => 'cde', 'CDE07G1046' => 'cde', 'CDE08G0480' => 'cde', 'Cfa005493' => 'cfa', 'Cfa010312' => 'cfa', 'Cfa015648' => 'cfa', 'Ciclev10002793m.g' => 'ccl', 'Ciclev10003356m.g' => 'ccl', 'Ciclev10006141m.g' => 'ccl', 'Ciclev10016676m.g' => 'ccl', 'Ciclev10017081m.g' => 'ccl', 'Ciclev10029499m.g' => 'ccl', 'CiPaw.01G166300' => 'cil', 'CiPaw.06G145600' => 'cil', 'CiPaw.13G040100' => 'cil', 'CiPaw.13G135800' => 'cil', 'ClCG01G012230' => 'cla', 'ClCG05G009510' => 'cla', 'ClCG08G008270' => 'cla', 'COL.COLO4_11763' => 'col', 'COL.COLO4_19876' => 'col', 'COL.COLO4_21481' => 'col', 'Cpa.g.sc118.34' => 'cpa', 'Cpa.g.sc32.13' => 'cpa', 'Cpa.g.sc58.103' => 'cpa', 'Cre03.g183850' => 'cre', 'Cre06.g306350' => 'cre', 'Cre07.g334800' => 'cre', 'Cre12.g487900' => 'cre', 'Cre14.g626700' => 'cre', 'Cre16.g658400' => 'cre', 'Cre17.g700950' => 'cre', 'CsaV3_1G014830' => 'csa', 'CsaV3_3G013320' => 'csa', 'CsaV3_3G019210' => 'csa', 'CsaV3_3G019220' => 'csa', 'CsaV3_6G004230' => 'csa', 'CSS0003773' => 'camsi', 'CSS0004563' => 'camsi', 'CSS0013949' => 'camsi', 'CSS0025971' => 'camsi', 'CSS0028570' => 'camsi', 'CSS0033127' => 'camsi', 'CSS0036051' => 'camsi', 'CSS0040087' => 'camsi', 'CSS0043179' => 'camsi', 'DCAR_006161' => 'dca', 'DCAR_010351' => 'dca', 'DCAR_012197' => 'dca', 'DCAR_024162' => 'dca', 'Dinv01030' => 'din', 'Dinv10924' => 'din', 'Dinv11835' => 'din', 'Dinv22841' => 'din', 'Dinv42553' => 'din', 'Duzib052G0560' => 'dzi', 'Duzib132G0389' => 'dzi', 'Duzib150G1181' => 'dzi', 'Duzib168G0623' => 'dzi', 'Duzib170G1036' => 'dzi', 'Duzib212G0200' => 'dzi', 'Duzib248G0194' => 'dzi', 'ECA232G2193' => 'eca', 'ECA233G0302' => 'eca', 'ECA234G2813' => 'eca', 'ECA234G4866' => 'eca', 'ECA240G3932' => 'eca', 'ECA248G0385' => 'eca', 'EL10Ac2g04781' => 'bvu', 'EL10Ac3g06445' => 'bvu', 'EL10Ac7g15825' => 'bvu', 'EL10Ac8g18550' => 'bvu', 'Eucgr.B03849' => 'egr', 'Eucgr.I02744' => 'egr', 'Eucgr.J00264' => 'egr', 'Eucgr.J00493' => 'egr', 'FAN04G2181' => 'fan', 'FAN07G2666' => 'fan', 'FAN11G0024' => 'fan', 'FAN12G1105' => 'fan', 'FAN13G0302' => 'fan', 'FAN15G2781' => 'fan', 'FAN16G1274' => 'fan', 'FAN17G2988' => 'fan', 'FAN18G2621' => 'fan', 'FAN21G0013' => 'fan', 'FAN22G1211' => 'fan', 'FAN25G3626' => 'fan', 'FvH4_2g09491' => 'fve', 'FvH4_3g24910' => 'fve', 'FvH4_4g15630' => 'fve', 'FvH4_5g28820' => 'fve', 'Glyma.01G238000' => 'gma', 'Glyma.05G168400' => 'gma', 'Glyma.08G126800' => 'gma', 'Glyma.08G188500' => 'gma', 'Glyma.10G278900' => 'gma', 'Glyma.11G005700' => 'gma', 'Glyma.11G183300' => 'gma', 'Glyma.12G089200' => 'gma', 'Glyma.12G169400' => 'gma', 'Glyma.12G169500' => 'gma', 'Glyma.12G169600' => 'gma', 'Glyma.20G110800' => 'gma', 'Gohir.A03G192900' => 'ghi', 'Gohir.A03G193000' => 'ghi', 'Gohir.A05G080700' => 'ghi', 'Gohir.A09G216000' => 'ghi', 'Gohir.A12G027700' => 'ghi', 'Gohir.A13G036200' => 'ghi', 'Gohir.A13G222600' => 'ghi', 'Gohir.D02G213900' => 'ghi', 'Gohir.D02G214000' => 'ghi', 'Gohir.D05G083700' => 'ghi', 'Gohir.D05G083800' => 'ghi', 'Gohir.D05G083850' => 'ghi', 'Gohir.D08G015400' => 'ghi', 'Gohir.D09G218400' => 'ghi', 'Gohir.D12G027100' => 'ghi', 'Gohir.D13G034500' => 'ghi', 'Gohir.D13G227400' => 'ghi', 'Gorai.005G241800' => 'gra', 'Gorai.005G241900' => 'gra', 'Gorai.006G239400' => 'gra', 'Gorai.008G027600' => 'gra', 'Gorai.009G085400' => 'gra', 'Gorai.009G085500' => 'gra', 'Gorai.013G039000' => 'gra', 'Gorai.013G194800' => 'gra', 'Gorai.013G257900' => 'gra', 'GSVIVG01000982001' => 'vvi', 'GSVIVG01017981001' => 'vvi', 'HanXRQChr01g0024061' => 'han', 'HanXRQChr09g0247831' => 'han', 'HanXRQChr10g0294611' => 'han', 'HanXRQChr10g0294621' => 'han', 'HanXRQChr11g0346821' => 'han', 'HanXRQChr13g0397461' => 'han', 'HanXRQChr16g0513651' => 'han', 'HanXRQChr16g0513701' => 'han', 'Haze_00897' => 'cav', 'Haze_01745' => 'cav', 'Haze_02486' => 'cav', 'Haze_02487' => 'cav', 'Haze_23374' => 'cav', 'Hma1.2p1_0578F.1_g182520' => 'hma', 'Hma1.2p1_0602F.1_g187350' => 'hma', 'Hma1.2p1_0602F.1_g187360' => 'hma', 'Hma1.2p1_0874F.1_g231320' => 'hma', 'Hma1.2p1_1197F.1_g266210' => 'hma', 'Hma1.2p1_1197F.1_g266220' => 'hma', 'Hma1.2p1_2167F.1_g315895' => 'hma', 'Hma1.2p1_2190F.1_g316640' => 'hma', 'Hma1.2p1_3645F.1_g337153' => 'hma', 'HPP92_004907' => 'vpl', 'HPP92_012134' => 'vpl', 'HPP92_025136' => 'vpl', 'HPP92_026087' => 'vpl', 'Hund06782' => 'sun', 'Hund06784' => 'sun', 'Lalb_Chr01g0004861' => 'lal', 'Lalb_Chr02g0140591' => 'lal', 'Lalb_Chr02g0140611' => 'lal', 'Lalb_Chr03g0028101' => 'lal', 'Lalb_Chr07g0185791' => 'lal', 'Lalb_Chr12g0204491' => 'lal', 'Lalb_Chr13g0295671' => 'lal', 'Lalb_Chr19g0136461' => 'lal', 'Lalb_Chr21g0309191' => 'lal', 'Lj1g0028158' => 'lja', 'Lj1P236T38' => 'lonja', 'Lj2C32G2' => 'lonja', 'Lj2P944T8' => 'lonja', 'Lj2P963T15' => 'lonja', 'Lj3g0011788' => 'lja', 'Lj4g0025027' => 'lja', 'Lj5P255T36' => 'lonja', 'Lj6g0018866' => 'lja', 'Lj6P608T31' => 'lonja', 'LjContig00408g0008879' => 'lja', 'Lsat_1_v5_gn_5_105820' => 'lsa', 'Lsat_1_v5_gn_6_38800' => 'lsa', 'Lsat_1_v5_gn_7_67141' => 'lsa', 'Manes.04G003400' => 'mes', 'Manes.07G020000' => 'mes', 'Manes.07G020100' => 'mes', 'Manes.07G020150' => 'mes', 'Manes.10G061500' => 'mes', 'Manes.10G123200' => 'mes', 'Manes.11G161900' => 'mes', 'Manes.15G029300' => 'mes', 'Mapoly0071s0018' => 'mpo', 'Mapoly0082s0023' => 'mpo', 'Mapoly3477s0001' => 'mpo', 'MBI05_g31233_MAGBIO' => 'mbi', 'MBI09_g05946_MAGBIO' => 'mbi', 'MBI09_g05947_MAGBIO' => 'mbi', 'MBI17_g08346_MAGBIO' => 'mbi', 'MCO04G038' => 'mco', 'MCO09G370' => 'mco', 'MCO13G605' => 'mco', 'MD00G1075500' => 'mdo', 'MD03G1144300' => 'mdo', 'MD08G1236800' => 'mdo', 'MD13G1193300' => 'mdo', 'MD15G1428700' => 'mdo', 'Medtr1g112030' => 'mtr', 'Medtr1g112050' => 'mtr', 'Medtr2g006290' => 'mtr', 'Medtr2g086510' => 'mtr', 'Medtr4g053120' => 'mtr', 'Medtr5g006320' => 'mtr', 'Medtr8g088720' => 'mtr', 'MELO3C004712.2' => 'cme', 'MELO3C006533.2' => 'cme', 'MELO3C019438.2' => 'cme', 'MELO3C019440.2' => 'cme', 'MELO3C019441.2' => 'cme', 'MELO3C019895.2' => 'cme', 'Migut.B00811' => 'egut', 'Migut.D02447' => 'egut', 'Migut.F00875' => 'egut', 'Migut.N00186' => 'egut', 'Migut.N01051' => 'egut', 'Migut.N02491' => 'egut', 'Migut.O00784' => 'egut', 'MSTRG.12367' => 'ama', 'MSTRG.18756' => 'ama', 'MSTRG.21042' => 'ama', 'Nitab4.5_0000559g0040' => 'nta', 'Nitab4.5_0000667g0190' => 'nta', 'Nitab4.5_0000755g0160' => 'nta', 'Nitab4.5_0001216g0080' => 'nta', 'Nitab4.5_0004069g0040' => 'nta', 'Nitab4.5_0004129g0010' => 'nta', 'Nitab4.5_0005744g0030' => 'nta', 'Nitab4.5_0006996g0030' => 'nta', 'Nitab4.5_0008971g0040' => 'nta', 'Nitab4.5_0009769g0020' => 'nta', 'Nitab4.5_0009833g0010' => 'nta', 'Nitab4.5_0013140g0020' => 'nta', 'Nn003s41376' => 'nnu', 'Nn1g01857' => 'nnu', 'Nn1g03611' => 'nnu', 'Nn1g06853' => 'nnu', 'Nn3g18360' => 'nnu', 'Nn4g26328' => 'nnu', 'Nn5g27531' => 'nnu', 'Nn6g34899' => 'nnu', 'Nn7g36299' => 'nnu', 'Oeu021485.1' => 'oeu', 'Oeu022433.1' => 'oeu', 'Oeu032111.1' => 'oeu', 'Oeu051608.1' => 'oeu', 'Os01g0860601' => 'osa', 'Os03g0659200' => 'osa', 'Os03g0835900' => 'osa', 'Os04g0412200' => 'osa', 'Os05g0443500' => 'osa', 'Os07g0251500' => 'osa', 'Os08g0104600' => 'osa', 'Peaxi162Scf00003g00047' => 'pax', 'Peaxi162Scf00003g00052' => 'pax', 'Peaxi162Scf00003g00394' => 'pax', 'Peaxi162Scf00091g00621' => 'pax', 'Peaxi162Scf00152g00146' => 'pax', 'Peaxi162Scf00173g00025' => 'pax', 'Peaxi162Scf00195g00102' => 'pax', 'Peaxi162Scf00402g00013' => 'pax', 'Peaxi162Scf00519g00618' => 'pax', 'PGR004G2838' => 'pgr', 'PGR044G2275' => 'pgr', 'PGR102G1377' => 'pgr', 'PGR119G1245' => 'pgr', 'PGR142G4449' => 'pgr', 'PGSC0003DMG400004532' => 'stu', 'PGSC0003DMG400011950' => 'stu', 'PGSC0003DMG400023391' => 'stu', 'PGSC0003DMG400023985' => 'stu', 'PGSC0003DMG400026360' => 'stu', 'PGSC0003DMG400035711' => 'stu', 'PGSC0003DMG400037286' => 'stu', 'PGSC0003DMG402005881' => 'stu', 'Phvul.002G045400' => 'pvu', 'Phvul.006G216600' => 'pvu', 'Phvul.006G216700' => 'pvu', 'Phvul.006G216800' => 'pvu', 'Phvul.007G022500' => 'pvu', 'Phvul.011G094400' => 'pvu', 'Potri.001G470700' => 'ptr', 'Potri.003G015200' => 'ptr', 'Potri.004G202500' => 'ptr', 'Potri.004G218400' => 'ptr', 'Potri.008G020100' => 'ptr', 'Potri.008G153200' => 'ptr', 'Potri.009G163800' => 'ptr', 'Potri.010G087300' => 'ptr', 'Potri.010G239100' => 'ptr', 'Pp3c10_16100' => 'ppa', 'Pp3c10_16880' => 'ppa', 'Pp3c16_6230' => 'ppa', 'Pp3c17_18910' => 'ppa', 'Pp3c3_22119' => 'ppa', 'Pp3c3_22140' => 'ppa', 'Pp3c4_8159' => 'ppa', 'Pp3c4_8171' => 'ppa', 'Pp3c4_8330' => 'ppa', 'PRCOL_00004098' => 'pco', 'Prupe.1G013900' => 'ppe', 'Prupe.1G226300' => 'ppe', 'Prupe.1G573600' => 'ppe', 'Prupe.6G130100' => 'ppe', 'Psat3g090040' => 'psa', 'Psat4g210440' => 'psa', 'Psat6g231040' => 'psa', 'Psat6g231080' => 'psa', 'Psat7g063000' => 'psa', 'Psat7g188000' => 'psa', 'Psat7g188040' => 'psa', 'PSO017G0206' => 'pso', 'PSO170G0501' => 'pso', 'PSO170G6422' => 'pso', 'PSO210G7739' => 'pso', 'PSO339G1808' => 'pso', 'PSO339G6135' => 'pso', 'PSO384G0010' => 'pso', 'PSO384G0964' => 'pso', 'PSO761G0050' => 'pso', 'PSO782G4085' => 'pso', 'QL01p012264' => 'qlo', 'QL02p099491' => 'qlo', 'QL03p033868' => 'qlo', 'QL04p046678' => 'qlo', 'QL06p002448' => 'qlo', 'RcHm_v2.0_Chr4g0416181' => 'rch', 'RcHm_v2.0_Chr5g0044701' => 'rch', 'RcHm_v2.0_Chr6g0265781' => 'rch', 'RcHm_v2.0_Chr7g0221031' => 'rch', 'Rhsim04G0202000' => 'rsi', 'Rhsim11G0127300' => 'rsi', 'Rhsim13G0111800' => 'rsi', 'Sabra01G0165600' => 'sbr', 'Sabra03G0008300' => 'sbr', 'Sabra04G0136900' => 'sbr', 'Sabra08G0013400' => 'sbr', 'Sabra08G0116800' => 'sbr', 'Sabra09G0128000' => 'sbr', 'Sabra10G0055500' => 'sbr', 'Sabra10G0073300' => 'sbr', 'SalBow3G0385' => 'sbo', 'SalBow3G1119' => 'sbo', 'SalBow3G2005' => 'sbo', 'SalBow6G2563' => 'sbo', 'SalBow6G6386' => 'sbo', 'Sc06g0008800' => 'sci', 'Sc07g0004950' => 'sci', 'Sc09g0005340' => 'sci', 'Sc13g0004410' => 'sci', 'Sc21g0007090' => 'sci', 'Sed0009285' => 'sed', 'Sed0017583' => 'sed', 'Sed0019699' => 'sed', 'Sed0023107' => 'sed', 'SEGI_10916' => 'sgi', 'SEGI_16217' => 'sgi', 'SEGI_19466' => 'sgi', 'SEGI_41115' => 'sgi', 'SGA_v2.0_scaffold111G31534' => 'sas', 'SGA_v2.0_scaffold22G09864' => 'sas', 'SGA_v2.0_scaffold338G49219' => 'sas', 'SGA_v2.0_scaffold92G28298' => 'sas', 'SMO119G0064' => 'smo', 'SMO223G0038' => 'smo', 'SMO347G0584' => 'smo', 'SMO351G0010' => 'smo', 'SMO356G0404' => 'smo', 'Solyc01g103920.3' => 'sly', 'Solyc04g009710.2' => 'sly', 'Solyc05g055280.2' => 'sly', 'Solyc10g044520.3' => 'sly', 'Solyc10g075160.1' => 'sly', 'Solyc11g006910.3' => 'sly', 'Solyc11g068430.3' => 'sly', 'Sopen01g046310' => 'spe', 'Sopen03g001200' => 'spe', 'Sopen04g004830' => 'spe', 'Sopen05g033720' => 'spe', 'Sopen06g030740' => 'spe', 'Sopen10g013090' => 'spe', 'Sopen10g027630' => 'spe', 'Sopen10g027640' => 'spe', 'Sopen11g002820' => 'spe', 'Sopen11g027140' => 'spe', 'Sp1g09680' => 'spa', 'Sp2g03630' => 'spa', 'Sp4g10320' => 'spa', 'Sp6g33400' => 'spa', 'Sp7g13030' => 'spa', 'TAR365G0317' => 'tar', 'TAR376G0979' => 'tar', 'TAR623G1665' => 'tar', 'TAR633G2373' => 'tar', 'TAR636G1400' => 'tar', 'THA.LOC104800529' => 'tha', 'THA.LOC104808547' => 'tha', 'THA.LOC104809615' => 'tha', 'THA.LOC104815724' => 'tha', 'THA.LOC104818480' => 'tha', 'THA.LOC104819179' => 'tha', 'THA.LOC104822270' => 'tha', 'THA.LOC104826425' => 'tha', 'Thecc.02G089700' => 'tca', 'Thecc.04G232300' => 'tca', 'Thecc.09G283400' => 'tca', 'Thhalv10009020m.g' => 'esa', 'Thhalv10015506m.g' => 'esa', 'Thhalv10017364m.g' => 'esa', 'Thhalv10023742m.g' => 'esa', 'Thhalv10026483m.g' => 'esa', 'TPR.G17232' => 'tpr', 'TPR.G2133' => 'tpr', 'TPR.G2498' => 'tpr', 'TPR.G31942' => 'tpr', 'TPR.G37877' => 'tpr', 'TPR.G4571' => 'tpr', 'TWI14G1113' => 'twi', 'TWI15G0426' => 'twi', 'TWI31G1005' => 'twi', 'TWI38G0513' => 'twi', 'TWI38G1484' => 'twi', 'TWI73G1098' => 'twi', 'unitig_26.g10519' => 'ugi', 'unitig_736.g22395' => 'ugi', 'unitig_747.g21234' => 'ugi', 'unitig_747.g21942' => 'ugi', 'vmacro14351' => 'vma', 'VMungo0540G0082' => 'vmu', 'VMungo0540G0405' => 'vmu', 'VMungo0540G1486' => 'vmu', 'VMungo0540G1692' => 'vmu', 'VMungo0720G2473' => 'vmu', 'VMungo1127G1562' => 'vmu', 'VMungo1215G1918' => 'vmu', 'Zm00001eb052650' => 'zma', 'Zm00001eb063710' => 'zma', 'Zm00001eb083950' => 'zma', 'Zm00001eb174420' => 'zma', 'Zm00001eb260140' => 'zma', 'Zm00001eb260150' => 'zma', 'Zm00001eb260160' => 'zma', 'Zm00001eb348290' => 'zma', 'Zm00001eb366870' => 'zma', 'Zm00001eb421930' => 'zma' ), 'gf_id' => 'HOM05D001025', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001025' ), 'data_identifier' => 'HOM05D001025', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001025', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '592', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p22650' => 'bna', 'A01p29720' => 'bna', 'A03p26560' => 'bna', 'A03p68820' => 'bna', 'A04p20980' => 'bna', 'A06p07730' => 'bna', 'A07p18260' => 'bna', 'A08p33710' => 'bna', 'A09p16970' => 'bna', 'A10p27490' => 'bna', 'Aa31LG1G17300' => 'aar', 'Aa31LG1G3910' => 'aar', 'Aa31LG2G9630' => 'aar', 'Aa31LG5G8360' => 'aar', 'Aa31LG9G2410' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4699' => 'aag', 'Actinidia23512' => 'ach', 'Actinidia37080' => 'ach', 'Ah.01g020380' => 'amhyb', 'Ah.08g215710' => 'amhyb', 'Ah.09g225110' => 'amhyb', 'Ah.10g036680' => 'amhyb', 'AL1G21940' => 'aly', 'AL2G15540' => 'aly', 'AL4G21520' => 'aly', 'AL7G40960' => 'aly', 'Aqoxy2G01191' => 'aox', 'Aqoxy2G03393' => 'aox', 'Aqoxy4G02775' => 'aox', 'Aqoxy6G00058' => 'aox', 'arahy.Tifrunner.gnm1.ann1.9X74H2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CW3FX9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R485W7' => 'arhy', 'AT1G10960' => 'ath', 'AT1G60950' => 'ath', 'AT2G27510' => 'ath', 'AT4G14890' => 'ath', 'AT5G10000' => 'ath', 'ATR0665G624' => 'atr', 'ATR0697G138' => 'atr', 'ATR0776G046' => 'atr', 'ATR1134G135' => 'atr', 'Atru.chr12.1025' => 'acertr', 'Atru.chr3.3241' => 'acertr', 'Atru.chr4.2460' => 'acertr', 'AUR62007427' => 'cqu', 'AUR62010960' => 'cqu', 'AUR62012201' => 'cqu', 'AUR62021470' => 'cqu', 'AUR62022834' => 'cqu', 'AUR62033635' => 'cqu', 'AUR62036186' => 'cqu', 'BcaB01g03077' => 'bca', 'BcaB02g10093' => 'bca', 'BcaB04g20295' => 'bca', 'BcaB06g28147' => 'bca', 'BcaB07g31253' => 'bca', 'BcaC01g04946' => 'bca', 'BcaC02g10614' => 'bca', 'BcaC02g10885' => 'bca', 'BcaC04g19356' => 'bca', 'BcaC04g22297' => 'bca', 'BcaC05g24977' => 'bca', 'BcaC06g31823' => 'bca', 'BcaC07g38633' => 'bca', 'BcaC09g49353' => 'bca', 'BcaC09g50168' => 'bca', 'BcaNung00322' => 'bca', 'BcaNung04769' => 'bca', 'BolC1t02753H' => 'bol', 'BolC1t03721H' => 'bol', 'BolC3t15525H' => 'bol', 'BolC4t23903H' => 'bol', 'BolC4t24231H' => 'bol', 'BolC4t27209H' => 'bol', 'BolC5t29671H' => 'bol', 'BolC8t49044H' => 'bol', 'BolC9t54999H' => 'bol', 'BolC9t59517H' => 'bol', 'BraA01t02178Z' => 'bra', 'BraA01t03099Z' => 'bra', 'BraA03t11867Z' => 'bra', 'BraA04t17667Z' => 'bra', 'BraA07t29542Z' => 'bra', 'BraA08t35287Z' => 'bra', 'BraA09t37334Z' => 'bra', 'BraA10t44801Z' => 'bra', 'BraSC39t46181Z' => 'bra', 'C01p28240' => 'bna', 'C01p37530' => 'bna', 'C03p31820' => 'bna', 'C04p24080' => 'bna', 'C04p25790' => 'bna', 'C04p56770' => 'bna', 'C05p09310' => 'bna', 'C09p21010' => 'bna', 'C09p67560' => 'bna', 'CAN.G1324.7' => 'can', 'CAN.G1358.10' => 'can', 'CAN.G1550.2' => 'can', 'CAN.G186.56' => 'can', 'CAN.G1965.1' => 'can', 'CAN.G645.15' => 'can', 'CAN.G798.26' => 'can', 'CAN.G798.27' => 'can', 'CAN.G798.29' => 'can', 'CAN.G919.31' => 'can', 'CANSAT11G0133' => 'cansat', 'CANSAT11G1171' => 'cansat', 'CANSAT11G2056' => 'cansat', 'CANSAT56G1202' => 'cansat', 'CANSAT56G1514' => 'cansat', 'CANSAT78G0455' => 'cansat', 'CARHR011190' => 'chi', 'CARHR051980' => 'chi', 'CARHR120170' => 'chi', 'CARHR203310' => 'chi', 'CARHR221490' => 'chi', 'Carub.0001s1054' => 'cru', 'Carub.0002s0431' => 'cru', 'Carub.0004s0818' => 'cru', 'Carub.0006s0846' => 'cru', 'Carub.0007s2722' => 'cru', 'Ca_00058_v3' => 'car', 'Ca_17831_v3' => 'car', 'Ca_19408_v3' => 'car', 'Ca_24397_v3' => 'car', 'Ca_25664_v3' => 'car', 'CBR_g21818' => 'cbr', 'CBR_g31195' => 'cbr', 'CBR_g32282' => 'cbr', 'CBR_g39599' => 'cbr', 'CBR_g49410' => 'cbr', 'Cc01_g09120' => 'ccan', 'Cc01_g09130' => 'ccan', 'Cc02_g09630' => 'ccan', 'Cc02_g22810' => 'ccan', 'Cc03_g03810' => 'ccan', 'CDE02G3718' => 'cde', 'CDE04G3183' => 'cde', 'CDE07G1046' => 'cde', 'CDE08G0480' => 'cde', 'Cfa005493' => 'cfa', 'Cfa010312' => 'cfa', 'Cfa015648' => 'cfa', 'Ciclev10002793m.g' => 'ccl', 'Ciclev10003356m.g' => 'ccl', 'Ciclev10006141m.g' => 'ccl', 'Ciclev10016676m.g' => 'ccl', 'Ciclev10017081m.g' => 'ccl', 'Ciclev10029499m.g' => 'ccl', 'CiPaw.01G166300' => 'cil', 'CiPaw.06G145600' => 'cil', 'CiPaw.13G040100' => 'cil', 'CiPaw.13G135800' => 'cil', 'ClCG01G012230' => 'cla', 'ClCG05G009510' => 'cla', 'ClCG08G008270' => 'cla', 'COL.COLO4_11763' => 'col', 'COL.COLO4_19876' => 'col', 'COL.COLO4_21481' => 'col', 'Cpa.g.sc118.34' => 'cpa', 'Cpa.g.sc32.13' => 'cpa', 'Cpa.g.sc58.103' => 'cpa', 'Cre03.g183850' => 'cre', 'Cre06.g306350' => 'cre', 'Cre07.g334800' => 'cre', 'Cre12.g487900' => 'cre', 'Cre14.g626700' => 'cre', 'Cre16.g658400' => 'cre', 'Cre17.g700950' => 'cre', 'CsaV3_1G014830' => 'csa', 'CsaV3_3G013320' => 'csa', 'CsaV3_3G019210' => 'csa', 'CsaV3_3G019220' => 'csa', 'CsaV3_6G004230' => 'csa', 'CSS0003773' => 'camsi', 'CSS0004563' => 'camsi', 'CSS0013949' => 'camsi', 'CSS0025971' => 'camsi', 'CSS0028570' => 'camsi', 'CSS0033127' => 'camsi', 'CSS0036051' => 'camsi', 'CSS0040087' => 'camsi', 'CSS0043179' => 'camsi', 'DCAR_006161' => 'dca', 'DCAR_010351' => 'dca', 'DCAR_012197' => 'dca', 'DCAR_024162' => 'dca', 'Dinv01030' => 'din', 'Dinv10924' => 'din', 'Dinv11835' => 'din', 'Dinv22841' => 'din', 'Dinv42553' => 'din', 'Duzib052G0560' => 'dzi', 'Duzib132G0389' => 'dzi', 'Duzib150G1181' => 'dzi', 'Duzib168G0623' => 'dzi', 'Duzib170G1036' => 'dzi', 'Duzib212G0200' => 'dzi', 'Duzib248G0194' => 'dzi', 'ECA232G2193' => 'eca', 'ECA233G0302' => 'eca', 'ECA234G2813' => 'eca', 'ECA234G4866' => 'eca', 'ECA240G3932' => 'eca', 'ECA248G0385' => 'eca', 'EL10Ac2g04781' => 'bvu', 'EL10Ac3g06445' => 'bvu', 'EL10Ac7g15825' => 'bvu', 'EL10Ac8g18550' => 'bvu', 'Eucgr.B03849' => 'egr', 'Eucgr.I02744' => 'egr', 'Eucgr.J00264' => 'egr', 'Eucgr.J00493' => 'egr', 'FAN04G2181' => 'fan', 'FAN07G2666' => 'fan', 'FAN11G0024' => 'fan', 'FAN12G1105' => 'fan', 'FAN13G0302' => 'fan', 'FAN15G2781' => 'fan', 'FAN16G1274' => 'fan', 'FAN17G2988' => 'fan', 'FAN18G2621' => 'fan', 'FAN21G0013' => 'fan', 'FAN22G1211' => 'fan', 'FAN25G3626' => 'fan', 'FvH4_2g09491' => 'fve', 'FvH4_3g24910' => 'fve', 'FvH4_4g15630' => 'fve', 'FvH4_5g28820' => 'fve', 'Glyma.01G238000' => 'gma', 'Glyma.05G168400' => 'gma', 'Glyma.08G126800' => 'gma', 'Glyma.08G188500' => 'gma', 'Glyma.10G278900' => 'gma', 'Glyma.11G005700' => 'gma', 'Glyma.11G183300' => 'gma', 'Glyma.12G089200' => 'gma', 'Glyma.12G169400' => 'gma', 'Glyma.12G169500' => 'gma', 'Glyma.12G169600' => 'gma', 'Glyma.20G110800' => 'gma', 'Gohir.A03G192900' => 'ghi', 'Gohir.A03G193000' => 'ghi', 'Gohir.A05G080700' => 'ghi', 'Gohir.A09G216000' => 'ghi', 'Gohir.A12G027700' => 'ghi', 'Gohir.A13G036200' => 'ghi', 'Gohir.A13G222600' => 'ghi', 'Gohir.D02G213900' => 'ghi', 'Gohir.D02G214000' => 'ghi', 'Gohir.D05G083700' => 'ghi', 'Gohir.D05G083800' => 'ghi', 'Gohir.D05G083850' => 'ghi', 'Gohir.D08G015400' => 'ghi', 'Gohir.D09G218400' => 'ghi', 'Gohir.D12G027100' => 'ghi', 'Gohir.D13G034500' => 'ghi', 'Gohir.D13G227400' => 'ghi', 'Gorai.005G241800' => 'gra', 'Gorai.005G241900' => 'gra', 'Gorai.006G239400' => 'gra', 'Gorai.008G027600' => 'gra', 'Gorai.009G085400' => 'gra', 'Gorai.009G085500' => 'gra', 'Gorai.013G039000' => 'gra', 'Gorai.013G194800' => 'gra', 'Gorai.013G257900' => 'gra', 'GSVIVG01000982001' => 'vvi', 'GSVIVG01017981001' => 'vvi', 'HanXRQChr01g0024061' => 'han', 'HanXRQChr09g0247831' => 'han', 'HanXRQChr10g0294611' => 'han', 'HanXRQChr10g0294621' => 'han', 'HanXRQChr11g0346821' => 'han', 'HanXRQChr13g0397461' => 'han', 'HanXRQChr16g0513651' => 'han', 'HanXRQChr16g0513701' => 'han', 'Haze_00897' => 'cav', 'Haze_01745' => 'cav', 'Haze_02486' => 'cav', 'Haze_02487' => 'cav', 'Haze_23374' => 'cav', 'Hma1.2p1_0578F.1_g182520' => 'hma', 'Hma1.2p1_0602F.1_g187350' => 'hma', 'Hma1.2p1_0602F.1_g187360' => 'hma', 'Hma1.2p1_0874F.1_g231320' => 'hma', 'Hma1.2p1_1197F.1_g266210' => 'hma', 'Hma1.2p1_1197F.1_g266220' => 'hma', 'Hma1.2p1_2167F.1_g315895' => 'hma', 'Hma1.2p1_2190F.1_g316640' => 'hma', 'Hma1.2p1_3645F.1_g337153' => 'hma', 'HPP92_004907' => 'vpl', 'HPP92_012134' => 'vpl', 'HPP92_025136' => 'vpl', 'HPP92_026087' => 'vpl', 'Hund06782' => 'sun', 'Hund06784' => 'sun', 'Lalb_Chr01g0004861' => 'lal', 'Lalb_Chr02g0140591' => 'lal', 'Lalb_Chr02g0140611' => 'lal', 'Lalb_Chr03g0028101' => 'lal', 'Lalb_Chr07g0185791' => 'lal', 'Lalb_Chr12g0204491' => 'lal', 'Lalb_Chr13g0295671' => 'lal', 'Lalb_Chr19g0136461' => 'lal', 'Lalb_Chr21g0309191' => 'lal', 'Lj1g0028158' => 'lja', 'Lj1P236T38' => 'lonja', 'Lj2C32G2' => 'lonja', 'Lj2P944T8' => 'lonja', 'Lj2P963T15' => 'lonja', 'Lj3g0011788' => 'lja', 'Lj4g0025027' => 'lja', 'Lj5P255T36' => 'lonja', 'Lj6g0018866' => 'lja', 'Lj6P608T31' => 'lonja', 'LjContig00408g0008879' => 'lja', 'Lsat_1_v5_gn_5_105820' => 'lsa', 'Lsat_1_v5_gn_6_38800' => 'lsa', 'Lsat_1_v5_gn_7_67141' => 'lsa', 'Manes.04G003400' => 'mes', 'Manes.07G020000' => 'mes', 'Manes.07G020100' => 'mes', 'Manes.07G020150' => 'mes', 'Manes.10G061500' => 'mes', 'Manes.10G123200' => 'mes', 'Manes.11G161900' => 'mes', 'Manes.15G029300' => 'mes', 'Mapoly0071s0018' => 'mpo', 'Mapoly0082s0023' => 'mpo', 'Mapoly3477s0001' => 'mpo', 'MBI05_g31233_MAGBIO' => 'mbi', 'MBI09_g05946_MAGBIO' => 'mbi', 'MBI09_g05947_MAGBIO' => 'mbi', 'MBI17_g08346_MAGBIO' => 'mbi', 'MCO04G038' => 'mco', 'MCO09G370' => 'mco', 'MCO13G605' => 'mco', 'MD00G1075500' => 'mdo', 'MD03G1144300' => 'mdo', 'MD08G1236800' => 'mdo', 'MD13G1193300' => 'mdo', 'MD15G1428700' => 'mdo', 'Medtr1g112030' => 'mtr', 'Medtr1g112050' => 'mtr', 'Medtr2g006290' => 'mtr', 'Medtr2g086510' => 'mtr', 'Medtr4g053120' => 'mtr', 'Medtr5g006320' => 'mtr', 'Medtr8g088720' => 'mtr', 'MELO3C004712.2' => 'cme', 'MELO3C006533.2' => 'cme', 'MELO3C019438.2' => 'cme', 'MELO3C019440.2' => 'cme', 'MELO3C019441.2' => 'cme', 'MELO3C019895.2' => 'cme', 'Migut.B00811' => 'egut', 'Migut.D02447' => 'egut', 'Migut.F00875' => 'egut', 'Migut.N00186' => 'egut', 'Migut.N01051' => 'egut', 'Migut.N02491' => 'egut', 'Migut.O00784' => 'egut', 'MSTRG.12367' => 'ama', 'MSTRG.18756' => 'ama', 'MSTRG.21042' => 'ama', 'Nitab4.5_0000559g0040' => 'nta', 'Nitab4.5_0000667g0190' => 'nta', 'Nitab4.5_0000755g0160' => 'nta', 'Nitab4.5_0001216g0080' => 'nta', 'Nitab4.5_0004069g0040' => 'nta', 'Nitab4.5_0004129g0010' => 'nta', 'Nitab4.5_0005744g0030' => 'nta', 'Nitab4.5_0006996g0030' => 'nta', 'Nitab4.5_0008971g0040' => 'nta', 'Nitab4.5_0009769g0020' => 'nta', 'Nitab4.5_0009833g0010' => 'nta', 'Nitab4.5_0013140g0020' => 'nta', 'Nn003s41376' => 'nnu', 'Nn1g01857' => 'nnu', 'Nn1g03611' => 'nnu', 'Nn1g06853' => 'nnu', 'Nn3g18360' => 'nnu', 'Nn4g26328' => 'nnu', 'Nn5g27531' => 'nnu', 'Nn6g34899' => 'nnu', 'Nn7g36299' => 'nnu', 'Oeu021485.1' => 'oeu', 'Oeu022433.1' => 'oeu', 'Oeu032111.1' => 'oeu', 'Oeu051608.1' => 'oeu', 'Os01g0860601' => 'osa', 'Os03g0659200' => 'osa', 'Os03g0835900' => 'osa', 'Os04g0412200' => 'osa', 'Os05g0443500' => 'osa', 'Os07g0251500' => 'osa', 'Os08g0104600' => 'osa', 'Peaxi162Scf00003g00047' => 'pax', 'Peaxi162Scf00003g00052' => 'pax', 'Peaxi162Scf00003g00394' => 'pax', 'Peaxi162Scf00091g00621' => 'pax', 'Peaxi162Scf00152g00146' => 'pax', 'Peaxi162Scf00173g00025' => 'pax', 'Peaxi162Scf00195g00102' => 'pax', 'Peaxi162Scf00402g00013' => 'pax', 'Peaxi162Scf00519g00618' => 'pax', 'PGR004G2838' => 'pgr', 'PGR044G2275' => 'pgr', 'PGR102G1377' => 'pgr', 'PGR119G1245' => 'pgr', 'PGR142G4449' => 'pgr', 'PGSC0003DMG400004532' => 'stu', 'PGSC0003DMG400011950' => 'stu', 'PGSC0003DMG400023391' => 'stu', 'PGSC0003DMG400023985' => 'stu', 'PGSC0003DMG400026360' => 'stu', 'PGSC0003DMG400035711' => 'stu', 'PGSC0003DMG400037286' => 'stu', 'PGSC0003DMG402005881' => 'stu', 'Phvul.002G045400' => 'pvu', 'Phvul.006G216600' => 'pvu', 'Phvul.006G216700' => 'pvu', 'Phvul.006G216800' => 'pvu', 'Phvul.007G022500' => 'pvu', 'Phvul.011G094400' => 'pvu', 'Potri.001G470700' => 'ptr', 'Potri.003G015200' => 'ptr', 'Potri.004G202500' => 'ptr', 'Potri.004G218400' => 'ptr', 'Potri.008G020100' => 'ptr', 'Potri.008G153200' => 'ptr', 'Potri.009G163800' => 'ptr', 'Potri.010G087300' => 'ptr', 'Potri.010G239100' => 'ptr', 'Pp3c10_16100' => 'ppa', 'Pp3c10_16880' => 'ppa', 'Pp3c16_6230' => 'ppa', 'Pp3c17_18910' => 'ppa', 'Pp3c3_22119' => 'ppa', 'Pp3c3_22140' => 'ppa', 'Pp3c4_8159' => 'ppa', 'Pp3c4_8171' => 'ppa', 'Pp3c4_8330' => 'ppa', 'PRCOL_00004098' => 'pco', 'Prupe.1G013900' => 'ppe', 'Prupe.1G226300' => 'ppe', 'Prupe.1G573600' => 'ppe', 'Prupe.6G130100' => 'ppe', 'Psat3g090040' => 'psa', 'Psat4g210440' => 'psa', 'Psat6g231040' => 'psa', 'Psat6g231080' => 'psa', 'Psat7g063000' => 'psa', 'Psat7g188000' => 'psa', 'Psat7g188040' => 'psa', 'PSO017G0206' => 'pso', 'PSO170G0501' => 'pso', 'PSO170G6422' => 'pso', 'PSO210G7739' => 'pso', 'PSO339G1808' => 'pso', 'PSO339G6135' => 'pso', 'PSO384G0010' => 'pso', 'PSO384G0964' => 'pso', 'PSO761G0050' => 'pso', 'PSO782G4085' => 'pso', 'QL01p012264' => 'qlo', 'QL02p099491' => 'qlo', 'QL03p033868' => 'qlo', 'QL04p046678' => 'qlo', 'QL06p002448' => 'qlo', 'RcHm_v2.0_Chr4g0416181' => 'rch', 'RcHm_v2.0_Chr5g0044701' => 'rch', 'RcHm_v2.0_Chr6g0265781' => 'rch', 'RcHm_v2.0_Chr7g0221031' => 'rch', 'Rhsim04G0202000' => 'rsi', 'Rhsim11G0127300' => 'rsi', 'Rhsim13G0111800' => 'rsi', 'Sabra01G0165600' => 'sbr', 'Sabra03G0008300' => 'sbr', 'Sabra04G0136900' => 'sbr', 'Sabra08G0013400' => 'sbr', 'Sabra08G0116800' => 'sbr', 'Sabra09G0128000' => 'sbr', 'Sabra10G0055500' => 'sbr', 'Sabra10G0073300' => 'sbr', 'SalBow3G0385' => 'sbo', 'SalBow3G1119' => 'sbo', 'SalBow3G2005' => 'sbo', 'SalBow6G2563' => 'sbo', 'SalBow6G6386' => 'sbo', 'Sc06g0008800' => 'sci', 'Sc07g0004950' => 'sci', 'Sc09g0005340' => 'sci', 'Sc13g0004410' => 'sci', 'Sc21g0007090' => 'sci', 'Sed0009285' => 'sed', 'Sed0017583' => 'sed', 'Sed0019699' => 'sed', 'Sed0023107' => 'sed', 'SEGI_10916' => 'sgi', 'SEGI_16217' => 'sgi', 'SEGI_19466' => 'sgi', 'SEGI_41115' => 'sgi', 'SGA_v2.0_scaffold111G31534' => 'sas', 'SGA_v2.0_scaffold22G09864' => 'sas', 'SGA_v2.0_scaffold338G49219' => 'sas', 'SGA_v2.0_scaffold92G28298' => 'sas', 'SMO119G0064' => 'smo', 'SMO223G0038' => 'smo', 'SMO347G0584' => 'smo', 'SMO351G0010' => 'smo', 'SMO356G0404' => 'smo', 'Solyc01g103920.3' => 'sly', 'Solyc04g009710.2' => 'sly', 'Solyc05g055280.2' => 'sly', 'Solyc10g044520.3' => 'sly', 'Solyc10g075160.1' => 'sly', 'Solyc11g006910.3' => 'sly', 'Solyc11g068430.3' => 'sly', 'Sopen01g046310' => 'spe', 'Sopen03g001200' => 'spe', 'Sopen04g004830' => 'spe', 'Sopen05g033720' => 'spe', 'Sopen06g030740' => 'spe', 'Sopen10g013090' => 'spe', 'Sopen10g027630' => 'spe', 'Sopen10g027640' => 'spe', 'Sopen11g002820' => 'spe', 'Sopen11g027140' => 'spe', 'Sp1g09680' => 'spa', 'Sp2g03630' => 'spa', 'Sp4g10320' => 'spa', 'Sp6g33400' => 'spa', 'Sp7g13030' => 'spa', 'TAR365G0317' => 'tar', 'TAR376G0979' => 'tar', 'TAR623G1665' => 'tar', 'TAR633G2373' => 'tar', 'TAR636G1400' => 'tar', 'THA.LOC104800529' => 'tha', 'THA.LOC104808547' => 'tha', 'THA.LOC104809615' => 'tha', 'THA.LOC104815724' => 'tha', 'THA.LOC104818480' => 'tha', 'THA.LOC104819179' => 'tha', 'THA.LOC104822270' => 'tha', 'THA.LOC104826425' => 'tha', 'Thecc.02G089700' => 'tca', 'Thecc.04G232300' => 'tca', 'Thecc.09G283400' => 'tca', 'Thhalv10009020m.g' => 'esa', 'Thhalv10015506m.g' => 'esa', 'Thhalv10017364m.g' => 'esa', 'Thhalv10023742m.g' => 'esa', 'Thhalv10026483m.g' => 'esa', 'TPR.G17232' => 'tpr', 'TPR.G2133' => 'tpr', 'TPR.G2498' => 'tpr', 'TPR.G31942' => 'tpr', 'TPR.G37877' => 'tpr', 'TPR.G4571' => 'tpr', 'TWI14G1113' => 'twi', 'TWI15G0426' => 'twi', 'TWI31G1005' => 'twi', 'TWI38G0513' => 'twi', 'TWI38G1484' => 'twi', 'TWI73G1098' => 'twi', 'unitig_26.g10519' => 'ugi', 'unitig_736.g22395' => 'ugi', 'unitig_747.g21234' => 'ugi', 'unitig_747.g21942' => 'ugi', 'vmacro14351' => 'vma', 'VMungo0540G0082' => 'vmu', 'VMungo0540G0405' => 'vmu', 'VMungo0540G1486' => 'vmu', 'VMungo0540G1692' => 'vmu', 'VMungo0720G2473' => 'vmu', 'VMungo1127G1562' => 'vmu', 'VMungo1215G1918' => 'vmu', 'Zm00001eb052650' => 'zma', 'Zm00001eb063710' => 'zma', 'Zm00001eb083950' => 'zma', 'Zm00001eb174420' => 'zma', 'Zm00001eb260140' => 'zma', 'Zm00001eb260150' => 'zma', 'Zm00001eb260160' => 'zma', 'Zm00001eb348290' => 'zma', 'Zm00001eb366870' => 'zma', 'Zm00001eb421930' => 'zma' ) $gf_id = 'HOM05D001025' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001025' ) $data_identifier = 'HOM05D001025' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 19, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 2, 'amhyb' => (int) 4, 'aly' => (int) 4, 'aox' => (int) 4, 'arhy' => (int) 3, 'ath' => (int) 5, 'atr' => (int) 4, 'acertr' => (int) 3, 'cqu' => (int) 7, 'bca' => (int) 17, 'bol' => (int) 10, 'bra' => (int) 9, 'can' => (int) 10, 'cansat' => (int) 6, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 5, 'cbr' => (int) 5, 'ccan' => (int) 5, 'cde' => (int) 4, 'cfa' => (int) 3, 'ccl' => (int) 6, 'cil' => (int) 4, 'cla' => (int) 3, 'col' => (int) 3, 'cpa' => (int) 3, 'cre' => (int) 7, 'csa' => (int) 5, 'camsi' => (int) 9, 'dca' => (int) 4, 'din' => (int) 5, 'dzi' => (int) 7, 'eca' => (int) 6, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 12, 'fve' => (int) 4, 'gma' => (int) 12, 'ghi' => (int) 17, 'gra' => (int) 9, 'vvi' => (int) 2, 'han' => (int) 8, 'cav' => (int) 5, 'hma' => (int) 9, 'vpl' => (int) 4, 'sun' => (int) 2, 'lal' => (int) 9, 'lja' => (int) 5, 'lonja' => (int) 6, 'lsa' => (int) 3, 'mes' => (int) 8, 'mpo' => (int) 3, 'mbi' => (int) 4, 'mco' => (int) 3, 'mdo' => (int) 5, 'mtr' => (int) 7, 'cme' => (int) 6, 'egut' => (int) 7, 'ama' => (int) 3, 'nta' => (int) 12, 'nnu' => (int) 9, 'oeu' => (int) 4, 'osa' => (int) 7, 'pax' => (int) 9, 'pgr' => (int) 5, 'stu' => (int) 8, 'pvu' => (int) 6, 'ptr' => (int) 9, 'ppa' => (int) 9, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 7, 'pso' => (int) 10, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 3, 'sbr' => (int) 8, 'sbo' => (int) 5, 'sci' => (int) 5, 'sed' => (int) 4, 'sgi' => (int) 4, 'sas' => (int) 4, 'smo' => (int) 5, 'sly' => (int) 7, 'spe' => (int) 10, 'spa' => (int) 5, 'tar' => (int) 5, 'tha' => (int) 8, 'tca' => (int) 3, 'esa' => (int) 5, 'tpr' => (int) 6, 'twi' => (int) 6, 'ugi' => (int) 4, 'vma' => (int) 1, 'vmu' => (int) 7, 'zma' => (int) 10 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb421930' $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' => 'HOM05D001025', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '592', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p22650' => 'bna', 'A01p29720' => 'bna', 'A03p26560' => 'bna', 'A03p68820' => 'bna', 'A04p20980' => 'bna', 'A06p07730' => 'bna', 'A07p18260' => 'bna', 'A08p33710' => 'bna', 'A09p16970' => 'bna', 'A10p27490' => 'bna', 'Aa31LG1G17300' => 'aar', 'Aa31LG1G3910' => 'aar', 'Aa31LG2G9630' => 'aar', 'Aa31LG5G8360' => 'aar', 'Aa31LG9G2410' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4699' => 'aag', 'Actinidia23512' => 'ach', 'Actinidia37080' => 'ach', 'Ah.01g020380' => 'amhyb', 'Ah.08g215710' => 'amhyb', 'Ah.09g225110' => 'amhyb', 'Ah.10g036680' => 'amhyb', 'AL1G21940' => 'aly', 'AL2G15540' => 'aly', 'AL4G21520' => 'aly', 'AL7G40960' => 'aly', 'Aqoxy2G01191' => 'aox', 'Aqoxy2G03393' => 'aox', 'Aqoxy4G02775' => 'aox', 'Aqoxy6G00058' => 'aox', 'arahy.Tifrunner.gnm1.ann1.9X74H2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CW3FX9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R485W7' => 'arhy', 'AT1G10960' => 'ath', 'AT1G60950' => 'ath', 'AT2G27510' => 'ath', 'AT4G14890' => 'ath', 'AT5G10000' => 'ath', 'ATR0665G624' => 'atr', 'ATR0697G138' => 'atr', 'ATR0776G046' => 'atr', 'ATR1134G135' => 'atr', 'Atru.chr12.1025' => 'acertr', 'Atru.chr3.3241' => 'acertr', 'Atru.chr4.2460' => 'acertr', 'AUR62007427' => 'cqu', 'AUR62010960' => 'cqu', 'AUR62012201' => 'cqu', 'AUR62021470' => 'cqu', 'AUR62022834' => 'cqu', 'AUR62033635' => 'cqu', 'AUR62036186' => 'cqu', 'BcaB01g03077' => 'bca', 'BcaB02g10093' => 'bca', 'BcaB04g20295' => 'bca', 'BcaB06g28147' => 'bca', 'BcaB07g31253' => 'bca', 'BcaC01g04946' => 'bca', 'BcaC02g10614' => 'bca', 'BcaC02g10885' => 'bca', 'BcaC04g19356' => 'bca', 'BcaC04g22297' => 'bca', 'BcaC05g24977' => 'bca', 'BcaC06g31823' => 'bca', 'BcaC07g38633' => 'bca', 'BcaC09g49353' => 'bca', 'BcaC09g50168' => 'bca', 'BcaNung00322' => 'bca', 'BcaNung04769' => 'bca', 'BolC1t02753H' => 'bol', 'BolC1t03721H' => 'bol', 'BolC3t15525H' => 'bol', 'BolC4t23903H' => 'bol', 'BolC4t24231H' => 'bol', 'BolC4t27209H' => 'bol', 'BolC5t29671H' => 'bol', 'BolC8t49044H' => 'bol', 'BolC9t54999H' => 'bol', 'BolC9t59517H' => 'bol', 'BraA01t02178Z' => 'bra', 'BraA01t03099Z' => 'bra', 'BraA03t11867Z' => 'bra', 'BraA04t17667Z' => 'bra', 'BraA07t29542Z' => 'bra', 'BraA08t35287Z' => 'bra', 'BraA09t37334Z' => 'bra', 'BraA10t44801Z' => 'bra', 'BraSC39t46181Z' => 'bra', 'C01p28240' => 'bna', 'C01p37530' => 'bna', 'C03p31820' => 'bna', 'C04p24080' => 'bna', 'C04p25790' => 'bna', 'C04p56770' => 'bna', 'C05p09310' => 'bna', 'C09p21010' => 'bna', 'C09p67560' => 'bna', 'CAN.G1324.7' => 'can', 'CAN.G1358.10' => 'can', 'CAN.G1550.2' => 'can', 'CAN.G186.56' => 'can', 'CAN.G1965.1' => 'can', 'CAN.G645.15' => 'can', 'CAN.G798.26' => 'can', 'CAN.G798.27' => 'can', 'CAN.G798.29' => 'can', 'CAN.G919.31' => 'can', 'CANSAT11G0133' => 'cansat', 'CANSAT11G1171' => 'cansat', 'CANSAT11G2056' => 'cansat', 'CANSAT56G1202' => 'cansat', 'CANSAT56G1514' => 'cansat', 'CANSAT78G0455' => 'cansat', 'CARHR011190' => 'chi', 'CARHR051980' => 'chi', 'CARHR120170' => 'chi', 'CARHR203310' => 'chi', 'CARHR221490' => 'chi', 'Carub.0001s1054' => 'cru', 'Carub.0002s0431' => 'cru', 'Carub.0004s0818' => 'cru', 'Carub.0006s0846' => 'cru', 'Carub.0007s2722' => 'cru', 'Ca_00058_v3' => 'car', 'Ca_17831_v3' => 'car', 'Ca_19408_v3' => 'car', 'Ca_24397_v3' => 'car', 'Ca_25664_v3' => 'car', 'CBR_g21818' => 'cbr', 'CBR_g31195' => 'cbr', 'CBR_g32282' => 'cbr', 'CBR_g39599' => 'cbr', 'CBR_g49410' => 'cbr', 'Cc01_g09120' => 'ccan', 'Cc01_g09130' => 'ccan', 'Cc02_g09630' => 'ccan', 'Cc02_g22810' => 'ccan', 'Cc03_g03810' => 'ccan', 'CDE02G3718' => 'cde', 'CDE04G3183' => 'cde', 'CDE07G1046' => 'cde', 'CDE08G0480' => 'cde', 'Cfa005493' => 'cfa', 'Cfa010312' => 'cfa', 'Cfa015648' => 'cfa', 'Ciclev10002793m.g' => 'ccl', 'Ciclev10003356m.g' => 'ccl', 'Ciclev10006141m.g' => 'ccl', 'Ciclev10016676m.g' => 'ccl', 'Ciclev10017081m.g' => 'ccl', 'Ciclev10029499m.g' => 'ccl', 'CiPaw.01G166300' => 'cil', 'CiPaw.06G145600' => 'cil', 'CiPaw.13G040100' => 'cil', 'CiPaw.13G135800' => 'cil', 'ClCG01G012230' => 'cla', 'ClCG05G009510' => 'cla', 'ClCG08G008270' => 'cla', 'COL.COLO4_11763' => 'col', 'COL.COLO4_19876' => 'col', 'COL.COLO4_21481' => 'col', 'Cpa.g.sc118.34' => 'cpa', 'Cpa.g.sc32.13' => 'cpa', 'Cpa.g.sc58.103' => 'cpa', 'Cre03.g183850' => 'cre', 'Cre06.g306350' => 'cre', 'Cre07.g334800' => 'cre', 'Cre12.g487900' => 'cre', 'Cre14.g626700' => 'cre', 'Cre16.g658400' => 'cre', 'Cre17.g700950' => 'cre', 'CsaV3_1G014830' => 'csa', 'CsaV3_3G013320' => 'csa', 'CsaV3_3G019210' => 'csa', 'CsaV3_3G019220' => 'csa', 'CsaV3_6G004230' => 'csa', 'CSS0003773' => 'camsi', 'CSS0004563' => 'camsi', 'CSS0013949' => 'camsi', 'CSS0025971' => 'camsi', 'CSS0028570' => 'camsi', 'CSS0033127' => 'camsi', 'CSS0036051' => 'camsi', 'CSS0040087' => 'camsi', 'CSS0043179' => 'camsi', 'DCAR_006161' => 'dca', 'DCAR_010351' => 'dca', 'DCAR_012197' => 'dca', 'DCAR_024162' => 'dca', 'Dinv01030' => 'din', 'Dinv10924' => 'din', 'Dinv11835' => 'din', 'Dinv22841' => 'din', 'Dinv42553' => 'din', 'Duzib052G0560' => 'dzi', 'Duzib132G0389' => 'dzi', 'Duzib150G1181' => 'dzi', 'Duzib168G0623' => 'dzi', 'Duzib170G1036' => 'dzi', 'Duzib212G0200' => 'dzi', 'Duzib248G0194' => 'dzi', 'ECA232G2193' => 'eca', 'ECA233G0302' => 'eca', 'ECA234G2813' => 'eca', 'ECA234G4866' => 'eca', 'ECA240G3932' => 'eca', 'ECA248G0385' => 'eca', 'EL10Ac2g04781' => 'bvu', 'EL10Ac3g06445' => 'bvu', 'EL10Ac7g15825' => 'bvu', 'EL10Ac8g18550' => 'bvu', 'Eucgr.B03849' => 'egr', 'Eucgr.I02744' => 'egr', 'Eucgr.J00264' => 'egr', 'Eucgr.J00493' => 'egr', 'FAN04G2181' => 'fan', 'FAN07G2666' => 'fan', 'FAN11G0024' => 'fan', 'FAN12G1105' => 'fan', 'FAN13G0302' => 'fan', 'FAN15G2781' => 'fan', 'FAN16G1274' => 'fan', 'FAN17G2988' => 'fan', 'FAN18G2621' => 'fan', 'FAN21G0013' => 'fan', 'FAN22G1211' => 'fan', 'FAN25G3626' => 'fan', 'FvH4_2g09491' => 'fve', 'FvH4_3g24910' => 'fve', 'FvH4_4g15630' => 'fve', 'FvH4_5g28820' => 'fve', 'Glyma.01G238000' => 'gma', 'Glyma.05G168400' => 'gma', 'Glyma.08G126800' => 'gma', 'Glyma.08G188500' => 'gma', 'Glyma.10G278900' => 'gma', 'Glyma.11G005700' => 'gma', 'Glyma.11G183300' => 'gma', 'Glyma.12G089200' => 'gma', 'Glyma.12G169400' => 'gma', 'Glyma.12G169500' => 'gma', 'Glyma.12G169600' => 'gma', 'Glyma.20G110800' => 'gma', 'Gohir.A03G192900' => 'ghi', 'Gohir.A03G193000' => 'ghi', 'Gohir.A05G080700' => 'ghi', 'Gohir.A09G216000' => 'ghi', 'Gohir.A12G027700' => 'ghi', 'Gohir.A13G036200' => 'ghi', 'Gohir.A13G222600' => 'ghi', 'Gohir.D02G213900' => 'ghi', 'Gohir.D02G214000' => 'ghi', 'Gohir.D05G083700' => 'ghi', 'Gohir.D05G083800' => 'ghi', 'Gohir.D05G083850' => 'ghi', 'Gohir.D08G015400' => 'ghi', 'Gohir.D09G218400' => 'ghi', 'Gohir.D12G027100' => 'ghi', 'Gohir.D13G034500' => 'ghi', 'Gohir.D13G227400' => 'ghi', 'Gorai.005G241800' => 'gra', 'Gorai.005G241900' => 'gra', 'Gorai.006G239400' => 'gra', 'Gorai.008G027600' => 'gra', 'Gorai.009G085400' => 'gra', 'Gorai.009G085500' => 'gra', 'Gorai.013G039000' => 'gra', 'Gorai.013G194800' => 'gra', 'Gorai.013G257900' => 'gra', 'GSVIVG01000982001' => 'vvi', 'GSVIVG01017981001' => 'vvi', 'HanXRQChr01g0024061' => 'han', 'HanXRQChr09g0247831' => 'han', 'HanXRQChr10g0294611' => 'han', 'HanXRQChr10g0294621' => 'han', 'HanXRQChr11g0346821' => 'han', 'HanXRQChr13g0397461' => 'han', 'HanXRQChr16g0513651' => 'han', 'HanXRQChr16g0513701' => 'han', 'Haze_00897' => 'cav', 'Haze_01745' => 'cav', 'Haze_02486' => 'cav', 'Haze_02487' => 'cav', 'Haze_23374' => 'cav', 'Hma1.2p1_0578F.1_g182520' => 'hma', 'Hma1.2p1_0602F.1_g187350' => 'hma', 'Hma1.2p1_0602F.1_g187360' => 'hma', 'Hma1.2p1_0874F.1_g231320' => 'hma', 'Hma1.2p1_1197F.1_g266210' => 'hma', 'Hma1.2p1_1197F.1_g266220' => 'hma', 'Hma1.2p1_2167F.1_g315895' => 'hma', 'Hma1.2p1_2190F.1_g316640' => 'hma', 'Hma1.2p1_3645F.1_g337153' => 'hma', 'HPP92_004907' => 'vpl', 'HPP92_012134' => 'vpl', 'HPP92_025136' => 'vpl', 'HPP92_026087' => 'vpl', 'Hund06782' => 'sun', 'Hund06784' => 'sun', 'Lalb_Chr01g0004861' => 'lal', 'Lalb_Chr02g0140591' => 'lal', 'Lalb_Chr02g0140611' => 'lal', 'Lalb_Chr03g0028101' => 'lal', 'Lalb_Chr07g0185791' => 'lal', 'Lalb_Chr12g0204491' => 'lal', 'Lalb_Chr13g0295671' => 'lal', 'Lalb_Chr19g0136461' => 'lal', 'Lalb_Chr21g0309191' => 'lal', 'Lj1g0028158' => 'lja', 'Lj1P236T38' => 'lonja', 'Lj2C32G2' => 'lonja', 'Lj2P944T8' => 'lonja', 'Lj2P963T15' => 'lonja', 'Lj3g0011788' => 'lja', 'Lj4g0025027' => 'lja', 'Lj5P255T36' => 'lonja', 'Lj6g0018866' => 'lja', 'Lj6P608T31' => 'lonja', 'LjContig00408g0008879' => 'lja', 'Lsat_1_v5_gn_5_105820' => 'lsa', 'Lsat_1_v5_gn_6_38800' => 'lsa', 'Lsat_1_v5_gn_7_67141' => 'lsa', 'Manes.04G003400' => 'mes', 'Manes.07G020000' => 'mes', 'Manes.07G020100' => 'mes', 'Manes.07G020150' => 'mes', 'Manes.10G061500' => 'mes', 'Manes.10G123200' => 'mes', 'Manes.11G161900' => 'mes', 'Manes.15G029300' => 'mes', 'Mapoly0071s0018' => 'mpo', 'Mapoly0082s0023' => 'mpo', 'Mapoly3477s0001' => 'mpo', 'MBI05_g31233_MAGBIO' => 'mbi', 'MBI09_g05946_MAGBIO' => 'mbi', 'MBI09_g05947_MAGBIO' => 'mbi', 'MBI17_g08346_MAGBIO' => 'mbi', 'MCO04G038' => 'mco', 'MCO09G370' => 'mco', 'MCO13G605' => 'mco', 'MD00G1075500' => 'mdo', 'MD03G1144300' => 'mdo', 'MD08G1236800' => 'mdo', 'MD13G1193300' => 'mdo', 'MD15G1428700' => 'mdo', 'Medtr1g112030' => 'mtr', 'Medtr1g112050' => 'mtr', 'Medtr2g006290' => 'mtr', 'Medtr2g086510' => 'mtr', 'Medtr4g053120' => 'mtr', 'Medtr5g006320' => 'mtr', 'Medtr8g088720' => 'mtr', 'MELO3C004712.2' => 'cme', 'MELO3C006533.2' => 'cme', 'MELO3C019438.2' => 'cme', 'MELO3C019440.2' => 'cme', 'MELO3C019441.2' => 'cme', 'MELO3C019895.2' => 'cme', 'Migut.B00811' => 'egut', 'Migut.D02447' => 'egut', 'Migut.F00875' => 'egut', 'Migut.N00186' => 'egut', 'Migut.N01051' => 'egut', 'Migut.N02491' => 'egut', 'Migut.O00784' => 'egut', 'MSTRG.12367' => 'ama', 'MSTRG.18756' => 'ama', 'MSTRG.21042' => 'ama', 'Nitab4.5_0000559g0040' => 'nta', 'Nitab4.5_0000667g0190' => 'nta', 'Nitab4.5_0000755g0160' => 'nta', 'Nitab4.5_0001216g0080' => 'nta', 'Nitab4.5_0004069g0040' => 'nta', 'Nitab4.5_0004129g0010' => 'nta', 'Nitab4.5_0005744g0030' => 'nta', 'Nitab4.5_0006996g0030' => 'nta', 'Nitab4.5_0008971g0040' => 'nta', 'Nitab4.5_0009769g0020' => 'nta', 'Nitab4.5_0009833g0010' => 'nta', 'Nitab4.5_0013140g0020' => 'nta', 'Nn003s41376' => 'nnu', 'Nn1g01857' => 'nnu', 'Nn1g03611' => 'nnu', 'Nn1g06853' => 'nnu', 'Nn3g18360' => 'nnu', 'Nn4g26328' => 'nnu', 'Nn5g27531' => 'nnu', 'Nn6g34899' => 'nnu', 'Nn7g36299' => 'nnu', 'Oeu021485.1' => 'oeu', 'Oeu022433.1' => 'oeu', 'Oeu032111.1' => 'oeu', 'Oeu051608.1' => 'oeu', 'Os01g0860601' => 'osa', 'Os03g0659200' => 'osa', 'Os03g0835900' => 'osa', 'Os04g0412200' => 'osa', 'Os05g0443500' => 'osa', 'Os07g0251500' => 'osa', 'Os08g0104600' => 'osa', 'Peaxi162Scf00003g00047' => 'pax', 'Peaxi162Scf00003g00052' => 'pax', 'Peaxi162Scf00003g00394' => 'pax', 'Peaxi162Scf00091g00621' => 'pax', 'Peaxi162Scf00152g00146' => 'pax', 'Peaxi162Scf00173g00025' => 'pax', 'Peaxi162Scf00195g00102' => 'pax', 'Peaxi162Scf00402g00013' => 'pax', 'Peaxi162Scf00519g00618' => 'pax', 'PGR004G2838' => 'pgr', 'PGR044G2275' => 'pgr', 'PGR102G1377' => 'pgr', 'PGR119G1245' => 'pgr', 'PGR142G4449' => 'pgr', 'PGSC0003DMG400004532' => 'stu', 'PGSC0003DMG400011950' => 'stu', 'PGSC0003DMG400023391' => 'stu', 'PGSC0003DMG400023985' => 'stu', 'PGSC0003DMG400026360' => 'stu', 'PGSC0003DMG400035711' => 'stu', 'PGSC0003DMG400037286' => 'stu', 'PGSC0003DMG402005881' => 'stu', 'Phvul.002G045400' => 'pvu', 'Phvul.006G216600' => 'pvu', 'Phvul.006G216700' => 'pvu', 'Phvul.006G216800' => 'pvu', 'Phvul.007G022500' => 'pvu', 'Phvul.011G094400' => 'pvu', 'Potri.001G470700' => 'ptr', 'Potri.003G015200' => 'ptr', 'Potri.004G202500' => 'ptr', 'Potri.004G218400' => 'ptr', 'Potri.008G020100' => 'ptr', 'Potri.008G153200' => 'ptr', 'Potri.009G163800' => 'ptr', 'Potri.010G087300' => 'ptr', 'Potri.010G239100' => 'ptr', 'Pp3c10_16100' => 'ppa', 'Pp3c10_16880' => 'ppa', 'Pp3c16_6230' => 'ppa', 'Pp3c17_18910' => 'ppa', 'Pp3c3_22119' => 'ppa', 'Pp3c3_22140' => 'ppa', 'Pp3c4_8159' => 'ppa', 'Pp3c4_8171' => 'ppa', 'Pp3c4_8330' => 'ppa', 'PRCOL_00004098' => 'pco', 'Prupe.1G013900' => 'ppe', 'Prupe.1G226300' => 'ppe', 'Prupe.1G573600' => 'ppe', 'Prupe.6G130100' => 'ppe', 'Psat3g090040' => 'psa', 'Psat4g210440' => 'psa', 'Psat6g231040' => 'psa', 'Psat6g231080' => 'psa', 'Psat7g063000' => 'psa', 'Psat7g188000' => 'psa', 'Psat7g188040' => 'psa', 'PSO017G0206' => 'pso', 'PSO170G0501' => 'pso', 'PSO170G6422' => 'pso', 'PSO210G7739' => 'pso', 'PSO339G1808' => 'pso', 'PSO339G6135' => 'pso', 'PSO384G0010' => 'pso', 'PSO384G0964' => 'pso', 'PSO761G0050' => 'pso', 'PSO782G4085' => 'pso', 'QL01p012264' => 'qlo', 'QL02p099491' => 'qlo', 'QL03p033868' => 'qlo', 'QL04p046678' => 'qlo', 'QL06p002448' => 'qlo', 'RcHm_v2.0_Chr4g0416181' => 'rch', 'RcHm_v2.0_Chr5g0044701' => 'rch', 'RcHm_v2.0_Chr6g0265781' => 'rch', 'RcHm_v2.0_Chr7g0221031' => 'rch', 'Rhsim04G0202000' => 'rsi', 'Rhsim11G0127300' => 'rsi', 'Rhsim13G0111800' => 'rsi', 'Sabra01G0165600' => 'sbr', 'Sabra03G0008300' => 'sbr', 'Sabra04G0136900' => 'sbr', 'Sabra08G0013400' => 'sbr', 'Sabra08G0116800' => 'sbr', 'Sabra09G0128000' => 'sbr', 'Sabra10G0055500' => 'sbr', 'Sabra10G0073300' => 'sbr', 'SalBow3G0385' => 'sbo', 'SalBow3G1119' => 'sbo', 'SalBow3G2005' => 'sbo', 'SalBow6G2563' => 'sbo', 'SalBow6G6386' => 'sbo', 'Sc06g0008800' => 'sci', 'Sc07g0004950' => 'sci', 'Sc09g0005340' => 'sci', 'Sc13g0004410' => 'sci', 'Sc21g0007090' => 'sci', 'Sed0009285' => 'sed', 'Sed0017583' => 'sed', 'Sed0019699' => 'sed', 'Sed0023107' => 'sed', 'SEGI_10916' => 'sgi', 'SEGI_16217' => 'sgi', 'SEGI_19466' => 'sgi', 'SEGI_41115' => 'sgi', 'SGA_v2.0_scaffold111G31534' => 'sas', 'SGA_v2.0_scaffold22G09864' => 'sas', 'SGA_v2.0_scaffold338G49219' => 'sas', 'SGA_v2.0_scaffold92G28298' => 'sas', 'SMO119G0064' => 'smo', 'SMO223G0038' => 'smo', 'SMO347G0584' => 'smo', 'SMO351G0010' => 'smo', 'SMO356G0404' => 'smo', 'Solyc01g103920.3' => 'sly', 'Solyc04g009710.2' => 'sly', 'Solyc05g055280.2' => 'sly', 'Solyc10g044520.3' => 'sly', 'Solyc10g075160.1' => 'sly', 'Solyc11g006910.3' => 'sly', 'Solyc11g068430.3' => 'sly', 'Sopen01g046310' => 'spe', 'Sopen03g001200' => 'spe', 'Sopen04g004830' => 'spe', 'Sopen05g033720' => 'spe', 'Sopen06g030740' => 'spe', 'Sopen10g013090' => 'spe', 'Sopen10g027630' => 'spe', 'Sopen10g027640' => 'spe', 'Sopen11g002820' => 'spe', 'Sopen11g027140' => 'spe', 'Sp1g09680' => 'spa', 'Sp2g03630' => 'spa', 'Sp4g10320' => 'spa', 'Sp6g33400' => 'spa', 'Sp7g13030' => 'spa', 'TAR365G0317' => 'tar', 'TAR376G0979' => 'tar', 'TAR623G1665' => 'tar', 'TAR633G2373' => 'tar', 'TAR636G1400' => 'tar', 'THA.LOC104800529' => 'tha', 'THA.LOC104808547' => 'tha', 'THA.LOC104809615' => 'tha', 'THA.LOC104815724' => 'tha', 'THA.LOC104818480' => 'tha', 'THA.LOC104819179' => 'tha', 'THA.LOC104822270' => 'tha', 'THA.LOC104826425' => 'tha', 'Thecc.02G089700' => 'tca', 'Thecc.04G232300' => 'tca', 'Thecc.09G283400' => 'tca', 'Thhalv10009020m.g' => 'esa', 'Thhalv10015506m.g' => 'esa', 'Thhalv10017364m.g' => 'esa', 'Thhalv10023742m.g' => 'esa', 'Thhalv10026483m.g' => 'esa', 'TPR.G17232' => 'tpr', 'TPR.G2133' => 'tpr', 'TPR.G2498' => 'tpr', 'TPR.G31942' => 'tpr', 'TPR.G37877' => 'tpr', 'TPR.G4571' => 'tpr', 'TWI14G1113' => 'twi', 'TWI15G0426' => 'twi', 'TWI31G1005' => 'twi', 'TWI38G0513' => 'twi', 'TWI38G1484' => 'twi', 'TWI73G1098' => 'twi', 'unitig_26.g10519' => 'ugi', 'unitig_736.g22395' => 'ugi', 'unitig_747.g21234' => 'ugi', 'unitig_747.g21942' => 'ugi', 'vmacro14351' => 'vma', 'VMungo0540G0082' => 'vmu', 'VMungo0540G0405' => 'vmu', 'VMungo0540G1486' => 'vmu', 'VMungo0540G1692' => 'vmu', 'VMungo0720G2473' => 'vmu', 'VMungo1127G1562' => 'vmu', 'VMungo1215G1918' => 'vmu', 'Zm00001eb052650' => 'zma', 'Zm00001eb063710' => 'zma', 'Zm00001eb083950' => 'zma', 'Zm00001eb174420' => 'zma', 'Zm00001eb260140' => 'zma', 'Zm00001eb260150' => 'zma', 'Zm00001eb260160' => 'zma', 'Zm00001eb348290' => 'zma', 'Zm00001eb366870' => 'zma', 'Zm00001eb421930' => 'zma' ), 'gf_id' => 'HOM05D001025', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001025' ), 'data_identifier' => 'HOM05D001025', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001025', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '592', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p22650' => 'bna', 'A01p29720' => 'bna', 'A03p26560' => 'bna', 'A03p68820' => 'bna', 'A04p20980' => 'bna', 'A06p07730' => 'bna', 'A07p18260' => 'bna', 'A08p33710' => 'bna', 'A09p16970' => 'bna', 'A10p27490' => 'bna', 'Aa31LG1G17300' => 'aar', 'Aa31LG1G3910' => 'aar', 'Aa31LG2G9630' => 'aar', 'Aa31LG5G8360' => 'aar', 'Aa31LG9G2410' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4699' => 'aag', 'Actinidia23512' => 'ach', 'Actinidia37080' => 'ach', 'Ah.01g020380' => 'amhyb', 'Ah.08g215710' => 'amhyb', 'Ah.09g225110' => 'amhyb', 'Ah.10g036680' => 'amhyb', 'AL1G21940' => 'aly', 'AL2G15540' => 'aly', 'AL4G21520' => 'aly', 'AL7G40960' => 'aly', 'Aqoxy2G01191' => 'aox', 'Aqoxy2G03393' => 'aox', 'Aqoxy4G02775' => 'aox', 'Aqoxy6G00058' => 'aox', 'arahy.Tifrunner.gnm1.ann1.9X74H2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CW3FX9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R485W7' => 'arhy', 'AT1G10960' => 'ath', 'AT1G60950' => 'ath', 'AT2G27510' => 'ath', 'AT4G14890' => 'ath', 'AT5G10000' => 'ath', 'ATR0665G624' => 'atr', 'ATR0697G138' => 'atr', 'ATR0776G046' => 'atr', 'ATR1134G135' => 'atr', 'Atru.chr12.1025' => 'acertr', 'Atru.chr3.3241' => 'acertr', 'Atru.chr4.2460' => 'acertr', 'AUR62007427' => 'cqu', 'AUR62010960' => 'cqu', 'AUR62012201' => 'cqu', 'AUR62021470' => 'cqu', 'AUR62022834' => 'cqu', 'AUR62033635' => 'cqu', 'AUR62036186' => 'cqu', 'BcaB01g03077' => 'bca', 'BcaB02g10093' => 'bca', 'BcaB04g20295' => 'bca', 'BcaB06g28147' => 'bca', 'BcaB07g31253' => 'bca', 'BcaC01g04946' => 'bca', 'BcaC02g10614' => 'bca', 'BcaC02g10885' => 'bca', 'BcaC04g19356' => 'bca', 'BcaC04g22297' => 'bca', 'BcaC05g24977' => 'bca', 'BcaC06g31823' => 'bca', 'BcaC07g38633' => 'bca', 'BcaC09g49353' => 'bca', 'BcaC09g50168' => 'bca', 'BcaNung00322' => 'bca', 'BcaNung04769' => 'bca', 'BolC1t02753H' => 'bol', 'BolC1t03721H' => 'bol', 'BolC3t15525H' => 'bol', 'BolC4t23903H' => 'bol', 'BolC4t24231H' => 'bol', 'BolC4t27209H' => 'bol', 'BolC5t29671H' => 'bol', 'BolC8t49044H' => 'bol', 'BolC9t54999H' => 'bol', 'BolC9t59517H' => 'bol', 'BraA01t02178Z' => 'bra', 'BraA01t03099Z' => 'bra', 'BraA03t11867Z' => 'bra', 'BraA04t17667Z' => 'bra', 'BraA07t29542Z' => 'bra', 'BraA08t35287Z' => 'bra', 'BraA09t37334Z' => 'bra', 'BraA10t44801Z' => 'bra', 'BraSC39t46181Z' => 'bra', 'C01p28240' => 'bna', 'C01p37530' => 'bna', 'C03p31820' => 'bna', 'C04p24080' => 'bna', 'C04p25790' => 'bna', 'C04p56770' => 'bna', 'C05p09310' => 'bna', 'C09p21010' => 'bna', 'C09p67560' => 'bna', 'CAN.G1324.7' => 'can', 'CAN.G1358.10' => 'can', 'CAN.G1550.2' => 'can', 'CAN.G186.56' => 'can', 'CAN.G1965.1' => 'can', 'CAN.G645.15' => 'can', 'CAN.G798.26' => 'can', 'CAN.G798.27' => 'can', 'CAN.G798.29' => 'can', 'CAN.G919.31' => 'can', 'CANSAT11G0133' => 'cansat', 'CANSAT11G1171' => 'cansat', 'CANSAT11G2056' => 'cansat', 'CANSAT56G1202' => 'cansat', 'CANSAT56G1514' => 'cansat', 'CANSAT78G0455' => 'cansat', 'CARHR011190' => 'chi', 'CARHR051980' => 'chi', 'CARHR120170' => 'chi', 'CARHR203310' => 'chi', 'CARHR221490' => 'chi', 'Carub.0001s1054' => 'cru', 'Carub.0002s0431' => 'cru', 'Carub.0004s0818' => 'cru', 'Carub.0006s0846' => 'cru', 'Carub.0007s2722' => 'cru', 'Ca_00058_v3' => 'car', 'Ca_17831_v3' => 'car', 'Ca_19408_v3' => 'car', 'Ca_24397_v3' => 'car', 'Ca_25664_v3' => 'car', 'CBR_g21818' => 'cbr', 'CBR_g31195' => 'cbr', 'CBR_g32282' => 'cbr', 'CBR_g39599' => 'cbr', 'CBR_g49410' => 'cbr', 'Cc01_g09120' => 'ccan', 'Cc01_g09130' => 'ccan', 'Cc02_g09630' => 'ccan', 'Cc02_g22810' => 'ccan', 'Cc03_g03810' => 'ccan', 'CDE02G3718' => 'cde', 'CDE04G3183' => 'cde', 'CDE07G1046' => 'cde', 'CDE08G0480' => 'cde', 'Cfa005493' => 'cfa', 'Cfa010312' => 'cfa', 'Cfa015648' => 'cfa', 'Ciclev10002793m.g' => 'ccl', 'Ciclev10003356m.g' => 'ccl', 'Ciclev10006141m.g' => 'ccl', 'Ciclev10016676m.g' => 'ccl', 'Ciclev10017081m.g' => 'ccl', 'Ciclev10029499m.g' => 'ccl', 'CiPaw.01G166300' => 'cil', 'CiPaw.06G145600' => 'cil', 'CiPaw.13G040100' => 'cil', 'CiPaw.13G135800' => 'cil', 'ClCG01G012230' => 'cla', 'ClCG05G009510' => 'cla', 'ClCG08G008270' => 'cla', 'COL.COLO4_11763' => 'col', 'COL.COLO4_19876' => 'col', 'COL.COLO4_21481' => 'col', 'Cpa.g.sc118.34' => 'cpa', 'Cpa.g.sc32.13' => 'cpa', 'Cpa.g.sc58.103' => 'cpa', 'Cre03.g183850' => 'cre', 'Cre06.g306350' => 'cre', 'Cre07.g334800' => 'cre', 'Cre12.g487900' => 'cre', 'Cre14.g626700' => 'cre', 'Cre16.g658400' => 'cre', 'Cre17.g700950' => 'cre', 'CsaV3_1G014830' => 'csa', 'CsaV3_3G013320' => 'csa', 'CsaV3_3G019210' => 'csa', 'CsaV3_3G019220' => 'csa', 'CsaV3_6G004230' => 'csa', 'CSS0003773' => 'camsi', 'CSS0004563' => 'camsi', 'CSS0013949' => 'camsi', 'CSS0025971' => 'camsi', 'CSS0028570' => 'camsi', 'CSS0033127' => 'camsi', 'CSS0036051' => 'camsi', 'CSS0040087' => 'camsi', 'CSS0043179' => 'camsi', 'DCAR_006161' => 'dca', 'DCAR_010351' => 'dca', 'DCAR_012197' => 'dca', 'DCAR_024162' => 'dca', 'Dinv01030' => 'din', 'Dinv10924' => 'din', 'Dinv11835' => 'din', 'Dinv22841' => 'din', 'Dinv42553' => 'din', 'Duzib052G0560' => 'dzi', 'Duzib132G0389' => 'dzi', 'Duzib150G1181' => 'dzi', 'Duzib168G0623' => 'dzi', 'Duzib170G1036' => 'dzi', 'Duzib212G0200' => 'dzi', 'Duzib248G0194' => 'dzi', 'ECA232G2193' => 'eca', 'ECA233G0302' => 'eca', 'ECA234G2813' => 'eca', 'ECA234G4866' => 'eca', 'ECA240G3932' => 'eca', 'ECA248G0385' => 'eca', 'EL10Ac2g04781' => 'bvu', 'EL10Ac3g06445' => 'bvu', 'EL10Ac7g15825' => 'bvu', 'EL10Ac8g18550' => 'bvu', 'Eucgr.B03849' => 'egr', 'Eucgr.I02744' => 'egr', 'Eucgr.J00264' => 'egr', 'Eucgr.J00493' => 'egr', 'FAN04G2181' => 'fan', 'FAN07G2666' => 'fan', 'FAN11G0024' => 'fan', 'FAN12G1105' => 'fan', 'FAN13G0302' => 'fan', 'FAN15G2781' => 'fan', 'FAN16G1274' => 'fan', 'FAN17G2988' => 'fan', 'FAN18G2621' => 'fan', 'FAN21G0013' => 'fan', 'FAN22G1211' => 'fan', 'FAN25G3626' => 'fan', 'FvH4_2g09491' => 'fve', 'FvH4_3g24910' => 'fve', 'FvH4_4g15630' => 'fve', 'FvH4_5g28820' => 'fve', 'Glyma.01G238000' => 'gma', 'Glyma.05G168400' => 'gma', 'Glyma.08G126800' => 'gma', 'Glyma.08G188500' => 'gma', 'Glyma.10G278900' => 'gma', 'Glyma.11G005700' => 'gma', 'Glyma.11G183300' => 'gma', 'Glyma.12G089200' => 'gma', 'Glyma.12G169400' => 'gma', 'Glyma.12G169500' => 'gma', 'Glyma.12G169600' => 'gma', 'Glyma.20G110800' => 'gma', 'Gohir.A03G192900' => 'ghi', 'Gohir.A03G193000' => 'ghi', 'Gohir.A05G080700' => 'ghi', 'Gohir.A09G216000' => 'ghi', 'Gohir.A12G027700' => 'ghi', 'Gohir.A13G036200' => 'ghi', 'Gohir.A13G222600' => 'ghi', 'Gohir.D02G213900' => 'ghi', 'Gohir.D02G214000' => 'ghi', 'Gohir.D05G083700' => 'ghi', 'Gohir.D05G083800' => 'ghi', 'Gohir.D05G083850' => 'ghi', 'Gohir.D08G015400' => 'ghi', 'Gohir.D09G218400' => 'ghi', 'Gohir.D12G027100' => 'ghi', 'Gohir.D13G034500' => 'ghi', 'Gohir.D13G227400' => 'ghi', 'Gorai.005G241800' => 'gra', 'Gorai.005G241900' => 'gra', 'Gorai.006G239400' => 'gra', 'Gorai.008G027600' => 'gra', 'Gorai.009G085400' => 'gra', 'Gorai.009G085500' => 'gra', 'Gorai.013G039000' => 'gra', 'Gorai.013G194800' => 'gra', 'Gorai.013G257900' => 'gra', 'GSVIVG01000982001' => 'vvi', 'GSVIVG01017981001' => 'vvi', 'HanXRQChr01g0024061' => 'han', 'HanXRQChr09g0247831' => 'han', 'HanXRQChr10g0294611' => 'han', 'HanXRQChr10g0294621' => 'han', 'HanXRQChr11g0346821' => 'han', 'HanXRQChr13g0397461' => 'han', 'HanXRQChr16g0513651' => 'han', 'HanXRQChr16g0513701' => 'han', 'Haze_00897' => 'cav', 'Haze_01745' => 'cav', 'Haze_02486' => 'cav', 'Haze_02487' => 'cav', 'Haze_23374' => 'cav', 'Hma1.2p1_0578F.1_g182520' => 'hma', 'Hma1.2p1_0602F.1_g187350' => 'hma', 'Hma1.2p1_0602F.1_g187360' => 'hma', 'Hma1.2p1_0874F.1_g231320' => 'hma', 'Hma1.2p1_1197F.1_g266210' => 'hma', 'Hma1.2p1_1197F.1_g266220' => 'hma', 'Hma1.2p1_2167F.1_g315895' => 'hma', 'Hma1.2p1_2190F.1_g316640' => 'hma', 'Hma1.2p1_3645F.1_g337153' => 'hma', 'HPP92_004907' => 'vpl', 'HPP92_012134' => 'vpl', 'HPP92_025136' => 'vpl', 'HPP92_026087' => 'vpl', 'Hund06782' => 'sun', 'Hund06784' => 'sun', 'Lalb_Chr01g0004861' => 'lal', 'Lalb_Chr02g0140591' => 'lal', 'Lalb_Chr02g0140611' => 'lal', 'Lalb_Chr03g0028101' => 'lal', 'Lalb_Chr07g0185791' => 'lal', 'Lalb_Chr12g0204491' => 'lal', 'Lalb_Chr13g0295671' => 'lal', 'Lalb_Chr19g0136461' => 'lal', 'Lalb_Chr21g0309191' => 'lal', 'Lj1g0028158' => 'lja', 'Lj1P236T38' => 'lonja', 'Lj2C32G2' => 'lonja', 'Lj2P944T8' => 'lonja', 'Lj2P963T15' => 'lonja', 'Lj3g0011788' => 'lja', 'Lj4g0025027' => 'lja', 'Lj5P255T36' => 'lonja', 'Lj6g0018866' => 'lja', 'Lj6P608T31' => 'lonja', 'LjContig00408g0008879' => 'lja', 'Lsat_1_v5_gn_5_105820' => 'lsa', 'Lsat_1_v5_gn_6_38800' => 'lsa', 'Lsat_1_v5_gn_7_67141' => 'lsa', 'Manes.04G003400' => 'mes', 'Manes.07G020000' => 'mes', 'Manes.07G020100' => 'mes', 'Manes.07G020150' => 'mes', 'Manes.10G061500' => 'mes', 'Manes.10G123200' => 'mes', 'Manes.11G161900' => 'mes', 'Manes.15G029300' => 'mes', 'Mapoly0071s0018' => 'mpo', 'Mapoly0082s0023' => 'mpo', 'Mapoly3477s0001' => 'mpo', 'MBI05_g31233_MAGBIO' => 'mbi', 'MBI09_g05946_MAGBIO' => 'mbi', 'MBI09_g05947_MAGBIO' => 'mbi', 'MBI17_g08346_MAGBIO' => 'mbi', 'MCO04G038' => 'mco', 'MCO09G370' => 'mco', 'MCO13G605' => 'mco', 'MD00G1075500' => 'mdo', 'MD03G1144300' => 'mdo', 'MD08G1236800' => 'mdo', 'MD13G1193300' => 'mdo', 'MD15G1428700' => 'mdo', 'Medtr1g112030' => 'mtr', 'Medtr1g112050' => 'mtr', 'Medtr2g006290' => 'mtr', 'Medtr2g086510' => 'mtr', 'Medtr4g053120' => 'mtr', 'Medtr5g006320' => 'mtr', 'Medtr8g088720' => 'mtr', 'MELO3C004712.2' => 'cme', 'MELO3C006533.2' => 'cme', 'MELO3C019438.2' => 'cme', 'MELO3C019440.2' => 'cme', 'MELO3C019441.2' => 'cme', 'MELO3C019895.2' => 'cme', 'Migut.B00811' => 'egut', 'Migut.D02447' => 'egut', 'Migut.F00875' => 'egut', 'Migut.N00186' => 'egut', 'Migut.N01051' => 'egut', 'Migut.N02491' => 'egut', 'Migut.O00784' => 'egut', 'MSTRG.12367' => 'ama', 'MSTRG.18756' => 'ama', 'MSTRG.21042' => 'ama', 'Nitab4.5_0000559g0040' => 'nta', 'Nitab4.5_0000667g0190' => 'nta', 'Nitab4.5_0000755g0160' => 'nta', 'Nitab4.5_0001216g0080' => 'nta', 'Nitab4.5_0004069g0040' => 'nta', 'Nitab4.5_0004129g0010' => 'nta', 'Nitab4.5_0005744g0030' => 'nta', 'Nitab4.5_0006996g0030' => 'nta', 'Nitab4.5_0008971g0040' => 'nta', 'Nitab4.5_0009769g0020' => 'nta', 'Nitab4.5_0009833g0010' => 'nta', 'Nitab4.5_0013140g0020' => 'nta', 'Nn003s41376' => 'nnu', 'Nn1g01857' => 'nnu', 'Nn1g03611' => 'nnu', 'Nn1g06853' => 'nnu', 'Nn3g18360' => 'nnu', 'Nn4g26328' => 'nnu', 'Nn5g27531' => 'nnu', 'Nn6g34899' => 'nnu', 'Nn7g36299' => 'nnu', 'Oeu021485.1' => 'oeu', 'Oeu022433.1' => 'oeu', 'Oeu032111.1' => 'oeu', 'Oeu051608.1' => 'oeu', 'Os01g0860601' => 'osa', 'Os03g0659200' => 'osa', 'Os03g0835900' => 'osa', 'Os04g0412200' => 'osa', 'Os05g0443500' => 'osa', 'Os07g0251500' => 'osa', 'Os08g0104600' => 'osa', 'Peaxi162Scf00003g00047' => 'pax', 'Peaxi162Scf00003g00052' => 'pax', 'Peaxi162Scf00003g00394' => 'pax', 'Peaxi162Scf00091g00621' => 'pax', 'Peaxi162Scf00152g00146' => 'pax', 'Peaxi162Scf00173g00025' => 'pax', 'Peaxi162Scf00195g00102' => 'pax', 'Peaxi162Scf00402g00013' => 'pax', 'Peaxi162Scf00519g00618' => 'pax', 'PGR004G2838' => 'pgr', 'PGR044G2275' => 'pgr', 'PGR102G1377' => 'pgr', 'PGR119G1245' => 'pgr', 'PGR142G4449' => 'pgr', 'PGSC0003DMG400004532' => 'stu', 'PGSC0003DMG400011950' => 'stu', 'PGSC0003DMG400023391' => 'stu', 'PGSC0003DMG400023985' => 'stu', 'PGSC0003DMG400026360' => 'stu', 'PGSC0003DMG400035711' => 'stu', 'PGSC0003DMG400037286' => 'stu', 'PGSC0003DMG402005881' => 'stu', 'Phvul.002G045400' => 'pvu', 'Phvul.006G216600' => 'pvu', 'Phvul.006G216700' => 'pvu', 'Phvul.006G216800' => 'pvu', 'Phvul.007G022500' => 'pvu', 'Phvul.011G094400' => 'pvu', 'Potri.001G470700' => 'ptr', 'Potri.003G015200' => 'ptr', 'Potri.004G202500' => 'ptr', 'Potri.004G218400' => 'ptr', 'Potri.008G020100' => 'ptr', 'Potri.008G153200' => 'ptr', 'Potri.009G163800' => 'ptr', 'Potri.010G087300' => 'ptr', 'Potri.010G239100' => 'ptr', 'Pp3c10_16100' => 'ppa', 'Pp3c10_16880' => 'ppa', 'Pp3c16_6230' => 'ppa', 'Pp3c17_18910' => 'ppa', 'Pp3c3_22119' => 'ppa', 'Pp3c3_22140' => 'ppa', 'Pp3c4_8159' => 'ppa', 'Pp3c4_8171' => 'ppa', 'Pp3c4_8330' => 'ppa', 'PRCOL_00004098' => 'pco', 'Prupe.1G013900' => 'ppe', 'Prupe.1G226300' => 'ppe', 'Prupe.1G573600' => 'ppe', 'Prupe.6G130100' => 'ppe', 'Psat3g090040' => 'psa', 'Psat4g210440' => 'psa', 'Psat6g231040' => 'psa', 'Psat6g231080' => 'psa', 'Psat7g063000' => 'psa', 'Psat7g188000' => 'psa', 'Psat7g188040' => 'psa', 'PSO017G0206' => 'pso', 'PSO170G0501' => 'pso', 'PSO170G6422' => 'pso', 'PSO210G7739' => 'pso', 'PSO339G1808' => 'pso', 'PSO339G6135' => 'pso', 'PSO384G0010' => 'pso', 'PSO384G0964' => 'pso', 'PSO761G0050' => 'pso', 'PSO782G4085' => 'pso', 'QL01p012264' => 'qlo', 'QL02p099491' => 'qlo', 'QL03p033868' => 'qlo', 'QL04p046678' => 'qlo', 'QL06p002448' => 'qlo', 'RcHm_v2.0_Chr4g0416181' => 'rch', 'RcHm_v2.0_Chr5g0044701' => 'rch', 'RcHm_v2.0_Chr6g0265781' => 'rch', 'RcHm_v2.0_Chr7g0221031' => 'rch', 'Rhsim04G0202000' => 'rsi', 'Rhsim11G0127300' => 'rsi', 'Rhsim13G0111800' => 'rsi', 'Sabra01G0165600' => 'sbr', 'Sabra03G0008300' => 'sbr', 'Sabra04G0136900' => 'sbr', 'Sabra08G0013400' => 'sbr', 'Sabra08G0116800' => 'sbr', 'Sabra09G0128000' => 'sbr', 'Sabra10G0055500' => 'sbr', 'Sabra10G0073300' => 'sbr', 'SalBow3G0385' => 'sbo', 'SalBow3G1119' => 'sbo', 'SalBow3G2005' => 'sbo', 'SalBow6G2563' => 'sbo', 'SalBow6G6386' => 'sbo', 'Sc06g0008800' => 'sci', 'Sc07g0004950' => 'sci', 'Sc09g0005340' => 'sci', 'Sc13g0004410' => 'sci', 'Sc21g0007090' => 'sci', 'Sed0009285' => 'sed', 'Sed0017583' => 'sed', 'Sed0019699' => 'sed', 'Sed0023107' => 'sed', 'SEGI_10916' => 'sgi', 'SEGI_16217' => 'sgi', 'SEGI_19466' => 'sgi', 'SEGI_41115' => 'sgi', 'SGA_v2.0_scaffold111G31534' => 'sas', 'SGA_v2.0_scaffold22G09864' => 'sas', 'SGA_v2.0_scaffold338G49219' => 'sas', 'SGA_v2.0_scaffold92G28298' => 'sas', 'SMO119G0064' => 'smo', 'SMO223G0038' => 'smo', 'SMO347G0584' => 'smo', 'SMO351G0010' => 'smo', 'SMO356G0404' => 'smo', 'Solyc01g103920.3' => 'sly', 'Solyc04g009710.2' => 'sly', 'Solyc05g055280.2' => 'sly', 'Solyc10g044520.3' => 'sly', 'Solyc10g075160.1' => 'sly', 'Solyc11g006910.3' => 'sly', 'Solyc11g068430.3' => 'sly', 'Sopen01g046310' => 'spe', 'Sopen03g001200' => 'spe', 'Sopen04g004830' => 'spe', 'Sopen05g033720' => 'spe', 'Sopen06g030740' => 'spe', 'Sopen10g013090' => 'spe', 'Sopen10g027630' => 'spe', 'Sopen10g027640' => 'spe', 'Sopen11g002820' => 'spe', 'Sopen11g027140' => 'spe', 'Sp1g09680' => 'spa', 'Sp2g03630' => 'spa', 'Sp4g10320' => 'spa', 'Sp6g33400' => 'spa', 'Sp7g13030' => 'spa', 'TAR365G0317' => 'tar', 'TAR376G0979' => 'tar', 'TAR623G1665' => 'tar', 'TAR633G2373' => 'tar', 'TAR636G1400' => 'tar', 'THA.LOC104800529' => 'tha', 'THA.LOC104808547' => 'tha', 'THA.LOC104809615' => 'tha', 'THA.LOC104815724' => 'tha', 'THA.LOC104818480' => 'tha', 'THA.LOC104819179' => 'tha', 'THA.LOC104822270' => 'tha', 'THA.LOC104826425' => 'tha', 'Thecc.02G089700' => 'tca', 'Thecc.04G232300' => 'tca', 'Thecc.09G283400' => 'tca', 'Thhalv10009020m.g' => 'esa', 'Thhalv10015506m.g' => 'esa', 'Thhalv10017364m.g' => 'esa', 'Thhalv10023742m.g' => 'esa', 'Thhalv10026483m.g' => 'esa', 'TPR.G17232' => 'tpr', 'TPR.G2133' => 'tpr', 'TPR.G2498' => 'tpr', 'TPR.G31942' => 'tpr', 'TPR.G37877' => 'tpr', 'TPR.G4571' => 'tpr', 'TWI14G1113' => 'twi', 'TWI15G0426' => 'twi', 'TWI31G1005' => 'twi', 'TWI38G0513' => 'twi', 'TWI38G1484' => 'twi', 'TWI73G1098' => 'twi', 'unitig_26.g10519' => 'ugi', 'unitig_736.g22395' => 'ugi', 'unitig_747.g21234' => 'ugi', 'unitig_747.g21942' => 'ugi', 'vmacro14351' => 'vma', 'VMungo0540G0082' => 'vmu', 'VMungo0540G0405' => 'vmu', 'VMungo0540G1486' => 'vmu', 'VMungo0540G1692' => 'vmu', 'VMungo0720G2473' => 'vmu', 'VMungo1127G1562' => 'vmu', 'VMungo1215G1918' => 'vmu', 'Zm00001eb052650' => 'zma', 'Zm00001eb063710' => 'zma', 'Zm00001eb083950' => 'zma', 'Zm00001eb174420' => 'zma', 'Zm00001eb260140' => 'zma', 'Zm00001eb260150' => 'zma', 'Zm00001eb260160' => 'zma', 'Zm00001eb348290' => 'zma', 'Zm00001eb366870' => 'zma', 'Zm00001eb421930' => 'zma' ) $gf_id = 'HOM05D001025' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001025' ) $data_identifier = 'HOM05D001025' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 19, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 2, 'amhyb' => (int) 4, 'aly' => (int) 4, 'aox' => (int) 4, 'arhy' => (int) 3, 'ath' => (int) 5, 'atr' => (int) 4, 'acertr' => (int) 3, 'cqu' => (int) 7, 'bca' => (int) 17, 'bol' => (int) 10, 'bra' => (int) 9, 'can' => (int) 10, 'cansat' => (int) 6, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 5, 'cbr' => (int) 5, 'ccan' => (int) 5, 'cde' => (int) 4, 'cfa' => (int) 3, 'ccl' => (int) 6, 'cil' => (int) 4, 'cla' => (int) 3, 'col' => (int) 3, 'cpa' => (int) 3, 'cre' => (int) 7, 'csa' => (int) 5, 'camsi' => (int) 9, 'dca' => (int) 4, 'din' => (int) 5, 'dzi' => (int) 7, 'eca' => (int) 6, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 12, 'fve' => (int) 4, 'gma' => (int) 12, 'ghi' => (int) 17, 'gra' => (int) 9, 'vvi' => (int) 2, 'han' => (int) 8, 'cav' => (int) 5, 'hma' => (int) 9, 'vpl' => (int) 4, 'sun' => (int) 2, 'lal' => (int) 9, 'lja' => (int) 5, 'lonja' => (int) 6, 'lsa' => (int) 3, 'mes' => (int) 8, 'mpo' => (int) 3, 'mbi' => (int) 4, 'mco' => (int) 3, 'mdo' => (int) 5, 'mtr' => (int) 7, 'cme' => (int) 6, 'egut' => (int) 7, 'ama' => (int) 3, 'nta' => (int) 12, 'nnu' => (int) 9, 'oeu' => (int) 4, 'osa' => (int) 7, 'pax' => (int) 9, 'pgr' => (int) 5, 'stu' => (int) 8, 'pvu' => (int) 6, 'ptr' => (int) 9, 'ppa' => (int) 9, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 7, 'pso' => (int) 10, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 3, 'sbr' => (int) 8, 'sbo' => (int) 5, 'sci' => (int) 5, 'sed' => (int) 4, 'sgi' => (int) 4, 'sas' => (int) 4, 'smo' => (int) 5, 'sly' => (int) 7, 'spe' => (int) 10, 'spa' => (int) 5, 'tar' => (int) 5, 'tha' => (int) 8, 'tca' => (int) 3, 'esa' => (int) 5, 'tpr' => (int) 6, 'twi' => (int) 6, 'ugi' => (int) 4, 'vma' => (int) 1, 'vmu' => (int) 7, 'zma' => (int) 10 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb421930' $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' => 'HOM05D001025', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '592', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p22650' => 'bna', 'A01p29720' => 'bna', 'A03p26560' => 'bna', 'A03p68820' => 'bna', 'A04p20980' => 'bna', 'A06p07730' => 'bna', 'A07p18260' => 'bna', 'A08p33710' => 'bna', 'A09p16970' => 'bna', 'A10p27490' => 'bna', 'Aa31LG1G17300' => 'aar', 'Aa31LG1G3910' => 'aar', 'Aa31LG2G9630' => 'aar', 'Aa31LG5G8360' => 'aar', 'Aa31LG9G2410' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4699' => 'aag', 'Actinidia23512' => 'ach', 'Actinidia37080' => 'ach', 'Ah.01g020380' => 'amhyb', 'Ah.08g215710' => 'amhyb', 'Ah.09g225110' => 'amhyb', 'Ah.10g036680' => 'amhyb', 'AL1G21940' => 'aly', 'AL2G15540' => 'aly', 'AL4G21520' => 'aly', 'AL7G40960' => 'aly', 'Aqoxy2G01191' => 'aox', 'Aqoxy2G03393' => 'aox', 'Aqoxy4G02775' => 'aox', 'Aqoxy6G00058' => 'aox', 'arahy.Tifrunner.gnm1.ann1.9X74H2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CW3FX9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R485W7' => 'arhy', 'AT1G10960' => 'ath', 'AT1G60950' => 'ath', 'AT2G27510' => 'ath', 'AT4G14890' => 'ath', 'AT5G10000' => 'ath', 'ATR0665G624' => 'atr', 'ATR0697G138' => 'atr', 'ATR0776G046' => 'atr', 'ATR1134G135' => 'atr', 'Atru.chr12.1025' => 'acertr', 'Atru.chr3.3241' => 'acertr', 'Atru.chr4.2460' => 'acertr', 'AUR62007427' => 'cqu', 'AUR62010960' => 'cqu', 'AUR62012201' => 'cqu', 'AUR62021470' => 'cqu', 'AUR62022834' => 'cqu', 'AUR62033635' => 'cqu', 'AUR62036186' => 'cqu', 'BcaB01g03077' => 'bca', 'BcaB02g10093' => 'bca', 'BcaB04g20295' => 'bca', 'BcaB06g28147' => 'bca', 'BcaB07g31253' => 'bca', 'BcaC01g04946' => 'bca', 'BcaC02g10614' => 'bca', 'BcaC02g10885' => 'bca', 'BcaC04g19356' => 'bca', 'BcaC04g22297' => 'bca', 'BcaC05g24977' => 'bca', 'BcaC06g31823' => 'bca', 'BcaC07g38633' => 'bca', 'BcaC09g49353' => 'bca', 'BcaC09g50168' => 'bca', 'BcaNung00322' => 'bca', 'BcaNung04769' => 'bca', 'BolC1t02753H' => 'bol', 'BolC1t03721H' => 'bol', 'BolC3t15525H' => 'bol', 'BolC4t23903H' => 'bol', 'BolC4t24231H' => 'bol', 'BolC4t27209H' => 'bol', 'BolC5t29671H' => 'bol', 'BolC8t49044H' => 'bol', 'BolC9t54999H' => 'bol', 'BolC9t59517H' => 'bol', 'BraA01t02178Z' => 'bra', 'BraA01t03099Z' => 'bra', 'BraA03t11867Z' => 'bra', 'BraA04t17667Z' => 'bra', 'BraA07t29542Z' => 'bra', 'BraA08t35287Z' => 'bra', 'BraA09t37334Z' => 'bra', 'BraA10t44801Z' => 'bra', 'BraSC39t46181Z' => 'bra', 'C01p28240' => 'bna', 'C01p37530' => 'bna', 'C03p31820' => 'bna', 'C04p24080' => 'bna', 'C04p25790' => 'bna', 'C04p56770' => 'bna', 'C05p09310' => 'bna', 'C09p21010' => 'bna', 'C09p67560' => 'bna', 'CAN.G1324.7' => 'can', 'CAN.G1358.10' => 'can', 'CAN.G1550.2' => 'can', 'CAN.G186.56' => 'can', 'CAN.G1965.1' => 'can', 'CAN.G645.15' => 'can', 'CAN.G798.26' => 'can', 'CAN.G798.27' => 'can', 'CAN.G798.29' => 'can', 'CAN.G919.31' => 'can', 'CANSAT11G0133' => 'cansat', 'CANSAT11G1171' => 'cansat', 'CANSAT11G2056' => 'cansat', 'CANSAT56G1202' => 'cansat', 'CANSAT56G1514' => 'cansat', 'CANSAT78G0455' => 'cansat', 'CARHR011190' => 'chi', 'CARHR051980' => 'chi', 'CARHR120170' => 'chi', 'CARHR203310' => 'chi', 'CARHR221490' => 'chi', 'Carub.0001s1054' => 'cru', 'Carub.0002s0431' => 'cru', 'Carub.0004s0818' => 'cru', 'Carub.0006s0846' => 'cru', 'Carub.0007s2722' => 'cru', 'Ca_00058_v3' => 'car', 'Ca_17831_v3' => 'car', 'Ca_19408_v3' => 'car', 'Ca_24397_v3' => 'car', 'Ca_25664_v3' => 'car', 'CBR_g21818' => 'cbr', 'CBR_g31195' => 'cbr', 'CBR_g32282' => 'cbr', 'CBR_g39599' => 'cbr', 'CBR_g49410' => 'cbr', 'Cc01_g09120' => 'ccan', 'Cc01_g09130' => 'ccan', 'Cc02_g09630' => 'ccan', 'Cc02_g22810' => 'ccan', 'Cc03_g03810' => 'ccan', 'CDE02G3718' => 'cde', 'CDE04G3183' => 'cde', 'CDE07G1046' => 'cde', 'CDE08G0480' => 'cde', 'Cfa005493' => 'cfa', 'Cfa010312' => 'cfa', 'Cfa015648' => 'cfa', 'Ciclev10002793m.g' => 'ccl', 'Ciclev10003356m.g' => 'ccl', 'Ciclev10006141m.g' => 'ccl', 'Ciclev10016676m.g' => 'ccl', 'Ciclev10017081m.g' => 'ccl', 'Ciclev10029499m.g' => 'ccl', 'CiPaw.01G166300' => 'cil', 'CiPaw.06G145600' => 'cil', 'CiPaw.13G040100' => 'cil', 'CiPaw.13G135800' => 'cil', 'ClCG01G012230' => 'cla', 'ClCG05G009510' => 'cla', 'ClCG08G008270' => 'cla', 'COL.COLO4_11763' => 'col', 'COL.COLO4_19876' => 'col', 'COL.COLO4_21481' => 'col', 'Cpa.g.sc118.34' => 'cpa', 'Cpa.g.sc32.13' => 'cpa', 'Cpa.g.sc58.103' => 'cpa', 'Cre03.g183850' => 'cre', 'Cre06.g306350' => 'cre', 'Cre07.g334800' => 'cre', 'Cre12.g487900' => 'cre', 'Cre14.g626700' => 'cre', 'Cre16.g658400' => 'cre', 'Cre17.g700950' => 'cre', 'CsaV3_1G014830' => 'csa', 'CsaV3_3G013320' => 'csa', 'CsaV3_3G019210' => 'csa', 'CsaV3_3G019220' => 'csa', 'CsaV3_6G004230' => 'csa', 'CSS0003773' => 'camsi', 'CSS0004563' => 'camsi', 'CSS0013949' => 'camsi', 'CSS0025971' => 'camsi', 'CSS0028570' => 'camsi', 'CSS0033127' => 'camsi', 'CSS0036051' => 'camsi', 'CSS0040087' => 'camsi', 'CSS0043179' => 'camsi', 'DCAR_006161' => 'dca', 'DCAR_010351' => 'dca', 'DCAR_012197' => 'dca', 'DCAR_024162' => 'dca', 'Dinv01030' => 'din', 'Dinv10924' => 'din', 'Dinv11835' => 'din', 'Dinv22841' => 'din', 'Dinv42553' => 'din', 'Duzib052G0560' => 'dzi', 'Duzib132G0389' => 'dzi', 'Duzib150G1181' => 'dzi', 'Duzib168G0623' => 'dzi', 'Duzib170G1036' => 'dzi', 'Duzib212G0200' => 'dzi', 'Duzib248G0194' => 'dzi', 'ECA232G2193' => 'eca', 'ECA233G0302' => 'eca', 'ECA234G2813' => 'eca', 'ECA234G4866' => 'eca', 'ECA240G3932' => 'eca', 'ECA248G0385' => 'eca', 'EL10Ac2g04781' => 'bvu', 'EL10Ac3g06445' => 'bvu', 'EL10Ac7g15825' => 'bvu', 'EL10Ac8g18550' => 'bvu', 'Eucgr.B03849' => 'egr', 'Eucgr.I02744' => 'egr', 'Eucgr.J00264' => 'egr', 'Eucgr.J00493' => 'egr', 'FAN04G2181' => 'fan', 'FAN07G2666' => 'fan', 'FAN11G0024' => 'fan', 'FAN12G1105' => 'fan', 'FAN13G0302' => 'fan', 'FAN15G2781' => 'fan', 'FAN16G1274' => 'fan', 'FAN17G2988' => 'fan', 'FAN18G2621' => 'fan', 'FAN21G0013' => 'fan', 'FAN22G1211' => 'fan', 'FAN25G3626' => 'fan', 'FvH4_2g09491' => 'fve', 'FvH4_3g24910' => 'fve', 'FvH4_4g15630' => 'fve', 'FvH4_5g28820' => 'fve', 'Glyma.01G238000' => 'gma', 'Glyma.05G168400' => 'gma', 'Glyma.08G126800' => 'gma', 'Glyma.08G188500' => 'gma', 'Glyma.10G278900' => 'gma', 'Glyma.11G005700' => 'gma', 'Glyma.11G183300' => 'gma', 'Glyma.12G089200' => 'gma', 'Glyma.12G169400' => 'gma', 'Glyma.12G169500' => 'gma', 'Glyma.12G169600' => 'gma', 'Glyma.20G110800' => 'gma', 'Gohir.A03G192900' => 'ghi', 'Gohir.A03G193000' => 'ghi', 'Gohir.A05G080700' => 'ghi', 'Gohir.A09G216000' => 'ghi', 'Gohir.A12G027700' => 'ghi', 'Gohir.A13G036200' => 'ghi', 'Gohir.A13G222600' => 'ghi', 'Gohir.D02G213900' => 'ghi', 'Gohir.D02G214000' => 'ghi', 'Gohir.D05G083700' => 'ghi', 'Gohir.D05G083800' => 'ghi', 'Gohir.D05G083850' => 'ghi', 'Gohir.D08G015400' => 'ghi', 'Gohir.D09G218400' => 'ghi', 'Gohir.D12G027100' => 'ghi', 'Gohir.D13G034500' => 'ghi', 'Gohir.D13G227400' => 'ghi', 'Gorai.005G241800' => 'gra', 'Gorai.005G241900' => 'gra', 'Gorai.006G239400' => 'gra', 'Gorai.008G027600' => 'gra', 'Gorai.009G085400' => 'gra', 'Gorai.009G085500' => 'gra', 'Gorai.013G039000' => 'gra', 'Gorai.013G194800' => 'gra', 'Gorai.013G257900' => 'gra', 'GSVIVG01000982001' => 'vvi', 'GSVIVG01017981001' => 'vvi', 'HanXRQChr01g0024061' => 'han', 'HanXRQChr09g0247831' => 'han', 'HanXRQChr10g0294611' => 'han', 'HanXRQChr10g0294621' => 'han', 'HanXRQChr11g0346821' => 'han', 'HanXRQChr13g0397461' => 'han', 'HanXRQChr16g0513651' => 'han', 'HanXRQChr16g0513701' => 'han', 'Haze_00897' => 'cav', 'Haze_01745' => 'cav', 'Haze_02486' => 'cav', 'Haze_02487' => 'cav', 'Haze_23374' => 'cav', 'Hma1.2p1_0578F.1_g182520' => 'hma', 'Hma1.2p1_0602F.1_g187350' => 'hma', 'Hma1.2p1_0602F.1_g187360' => 'hma', 'Hma1.2p1_0874F.1_g231320' => 'hma', 'Hma1.2p1_1197F.1_g266210' => 'hma', 'Hma1.2p1_1197F.1_g266220' => 'hma', 'Hma1.2p1_2167F.1_g315895' => 'hma', 'Hma1.2p1_2190F.1_g316640' => 'hma', 'Hma1.2p1_3645F.1_g337153' => 'hma', 'HPP92_004907' => 'vpl', 'HPP92_012134' => 'vpl', 'HPP92_025136' => 'vpl', 'HPP92_026087' => 'vpl', 'Hund06782' => 'sun', 'Hund06784' => 'sun', 'Lalb_Chr01g0004861' => 'lal', 'Lalb_Chr02g0140591' => 'lal', 'Lalb_Chr02g0140611' => 'lal', 'Lalb_Chr03g0028101' => 'lal', 'Lalb_Chr07g0185791' => 'lal', 'Lalb_Chr12g0204491' => 'lal', 'Lalb_Chr13g0295671' => 'lal', 'Lalb_Chr19g0136461' => 'lal', 'Lalb_Chr21g0309191' => 'lal', 'Lj1g0028158' => 'lja', 'Lj1P236T38' => 'lonja', 'Lj2C32G2' => 'lonja', 'Lj2P944T8' => 'lonja', 'Lj2P963T15' => 'lonja', 'Lj3g0011788' => 'lja', 'Lj4g0025027' => 'lja', 'Lj5P255T36' => 'lonja', 'Lj6g0018866' => 'lja', 'Lj6P608T31' => 'lonja', 'LjContig00408g0008879' => 'lja', 'Lsat_1_v5_gn_5_105820' => 'lsa', 'Lsat_1_v5_gn_6_38800' => 'lsa', 'Lsat_1_v5_gn_7_67141' => 'lsa', 'Manes.04G003400' => 'mes', 'Manes.07G020000' => 'mes', 'Manes.07G020100' => 'mes', 'Manes.07G020150' => 'mes', 'Manes.10G061500' => 'mes', 'Manes.10G123200' => 'mes', 'Manes.11G161900' => 'mes', 'Manes.15G029300' => 'mes', 'Mapoly0071s0018' => 'mpo', 'Mapoly0082s0023' => 'mpo', 'Mapoly3477s0001' => 'mpo', 'MBI05_g31233_MAGBIO' => 'mbi', 'MBI09_g05946_MAGBIO' => 'mbi', 'MBI09_g05947_MAGBIO' => 'mbi', 'MBI17_g08346_MAGBIO' => 'mbi', 'MCO04G038' => 'mco', 'MCO09G370' => 'mco', 'MCO13G605' => 'mco', 'MD00G1075500' => 'mdo', 'MD03G1144300' => 'mdo', 'MD08G1236800' => 'mdo', 'MD13G1193300' => 'mdo', 'MD15G1428700' => 'mdo', 'Medtr1g112030' => 'mtr', 'Medtr1g112050' => 'mtr', 'Medtr2g006290' => 'mtr', 'Medtr2g086510' => 'mtr', 'Medtr4g053120' => 'mtr', 'Medtr5g006320' => 'mtr', 'Medtr8g088720' => 'mtr', 'MELO3C004712.2' => 'cme', 'MELO3C006533.2' => 'cme', 'MELO3C019438.2' => 'cme', 'MELO3C019440.2' => 'cme', 'MELO3C019441.2' => 'cme', 'MELO3C019895.2' => 'cme', 'Migut.B00811' => 'egut', 'Migut.D02447' => 'egut', 'Migut.F00875' => 'egut', 'Migut.N00186' => 'egut', 'Migut.N01051' => 'egut', 'Migut.N02491' => 'egut', 'Migut.O00784' => 'egut', 'MSTRG.12367' => 'ama', 'MSTRG.18756' => 'ama', 'MSTRG.21042' => 'ama', 'Nitab4.5_0000559g0040' => 'nta', 'Nitab4.5_0000667g0190' => 'nta', 'Nitab4.5_0000755g0160' => 'nta', 'Nitab4.5_0001216g0080' => 'nta', 'Nitab4.5_0004069g0040' => 'nta', 'Nitab4.5_0004129g0010' => 'nta', 'Nitab4.5_0005744g0030' => 'nta', 'Nitab4.5_0006996g0030' => 'nta', 'Nitab4.5_0008971g0040' => 'nta', 'Nitab4.5_0009769g0020' => 'nta', 'Nitab4.5_0009833g0010' => 'nta', 'Nitab4.5_0013140g0020' => 'nta', 'Nn003s41376' => 'nnu', 'Nn1g01857' => 'nnu', 'Nn1g03611' => 'nnu', 'Nn1g06853' => 'nnu', 'Nn3g18360' => 'nnu', 'Nn4g26328' => 'nnu', 'Nn5g27531' => 'nnu', 'Nn6g34899' => 'nnu', 'Nn7g36299' => 'nnu', 'Oeu021485.1' => 'oeu', 'Oeu022433.1' => 'oeu', 'Oeu032111.1' => 'oeu', 'Oeu051608.1' => 'oeu', 'Os01g0860601' => 'osa', 'Os03g0659200' => 'osa', 'Os03g0835900' => 'osa', 'Os04g0412200' => 'osa', 'Os05g0443500' => 'osa', 'Os07g0251500' => 'osa', 'Os08g0104600' => 'osa', 'Peaxi162Scf00003g00047' => 'pax', 'Peaxi162Scf00003g00052' => 'pax', 'Peaxi162Scf00003g00394' => 'pax', 'Peaxi162Scf00091g00621' => 'pax', 'Peaxi162Scf00152g00146' => 'pax', 'Peaxi162Scf00173g00025' => 'pax', 'Peaxi162Scf00195g00102' => 'pax', 'Peaxi162Scf00402g00013' => 'pax', 'Peaxi162Scf00519g00618' => 'pax', 'PGR004G2838' => 'pgr', 'PGR044G2275' => 'pgr', 'PGR102G1377' => 'pgr', 'PGR119G1245' => 'pgr', 'PGR142G4449' => 'pgr', 'PGSC0003DMG400004532' => 'stu', 'PGSC0003DMG400011950' => 'stu', 'PGSC0003DMG400023391' => 'stu', 'PGSC0003DMG400023985' => 'stu', 'PGSC0003DMG400026360' => 'stu', 'PGSC0003DMG400035711' => 'stu', 'PGSC0003DMG400037286' => 'stu', 'PGSC0003DMG402005881' => 'stu', 'Phvul.002G045400' => 'pvu', 'Phvul.006G216600' => 'pvu', 'Phvul.006G216700' => 'pvu', 'Phvul.006G216800' => 'pvu', 'Phvul.007G022500' => 'pvu', 'Phvul.011G094400' => 'pvu', 'Potri.001G470700' => 'ptr', 'Potri.003G015200' => 'ptr', 'Potri.004G202500' => 'ptr', 'Potri.004G218400' => 'ptr', 'Potri.008G020100' => 'ptr', 'Potri.008G153200' => 'ptr', 'Potri.009G163800' => 'ptr', 'Potri.010G087300' => 'ptr', 'Potri.010G239100' => 'ptr', 'Pp3c10_16100' => 'ppa', 'Pp3c10_16880' => 'ppa', 'Pp3c16_6230' => 'ppa', 'Pp3c17_18910' => 'ppa', 'Pp3c3_22119' => 'ppa', 'Pp3c3_22140' => 'ppa', 'Pp3c4_8159' => 'ppa', 'Pp3c4_8171' => 'ppa', 'Pp3c4_8330' => 'ppa', 'PRCOL_00004098' => 'pco', 'Prupe.1G013900' => 'ppe', 'Prupe.1G226300' => 'ppe', 'Prupe.1G573600' => 'ppe', 'Prupe.6G130100' => 'ppe', 'Psat3g090040' => 'psa', 'Psat4g210440' => 'psa', 'Psat6g231040' => 'psa', 'Psat6g231080' => 'psa', 'Psat7g063000' => 'psa', 'Psat7g188000' => 'psa', 'Psat7g188040' => 'psa', 'PSO017G0206' => 'pso', 'PSO170G0501' => 'pso', 'PSO170G6422' => 'pso', 'PSO210G7739' => 'pso', 'PSO339G1808' => 'pso', 'PSO339G6135' => 'pso', 'PSO384G0010' => 'pso', 'PSO384G0964' => 'pso', 'PSO761G0050' => 'pso', 'PSO782G4085' => 'pso', 'QL01p012264' => 'qlo', 'QL02p099491' => 'qlo', 'QL03p033868' => 'qlo', 'QL04p046678' => 'qlo', 'QL06p002448' => 'qlo', 'RcHm_v2.0_Chr4g0416181' => 'rch', 'RcHm_v2.0_Chr5g0044701' => 'rch', 'RcHm_v2.0_Chr6g0265781' => 'rch', 'RcHm_v2.0_Chr7g0221031' => 'rch', 'Rhsim04G0202000' => 'rsi', 'Rhsim11G0127300' => 'rsi', 'Rhsim13G0111800' => 'rsi', 'Sabra01G0165600' => 'sbr', 'Sabra03G0008300' => 'sbr', 'Sabra04G0136900' => 'sbr', 'Sabra08G0013400' => 'sbr', 'Sabra08G0116800' => 'sbr', 'Sabra09G0128000' => 'sbr', 'Sabra10G0055500' => 'sbr', 'Sabra10G0073300' => 'sbr', 'SalBow3G0385' => 'sbo', 'SalBow3G1119' => 'sbo', 'SalBow3G2005' => 'sbo', 'SalBow6G2563' => 'sbo', 'SalBow6G6386' => 'sbo', 'Sc06g0008800' => 'sci', 'Sc07g0004950' => 'sci', 'Sc09g0005340' => 'sci', 'Sc13g0004410' => 'sci', 'Sc21g0007090' => 'sci', 'Sed0009285' => 'sed', 'Sed0017583' => 'sed', 'Sed0019699' => 'sed', 'Sed0023107' => 'sed', 'SEGI_10916' => 'sgi', 'SEGI_16217' => 'sgi', 'SEGI_19466' => 'sgi', 'SEGI_41115' => 'sgi', 'SGA_v2.0_scaffold111G31534' => 'sas', 'SGA_v2.0_scaffold22G09864' => 'sas', 'SGA_v2.0_scaffold338G49219' => 'sas', 'SGA_v2.0_scaffold92G28298' => 'sas', 'SMO119G0064' => 'smo', 'SMO223G0038' => 'smo', 'SMO347G0584' => 'smo', 'SMO351G0010' => 'smo', 'SMO356G0404' => 'smo', 'Solyc01g103920.3' => 'sly', 'Solyc04g009710.2' => 'sly', 'Solyc05g055280.2' => 'sly', 'Solyc10g044520.3' => 'sly', 'Solyc10g075160.1' => 'sly', 'Solyc11g006910.3' => 'sly', 'Solyc11g068430.3' => 'sly', 'Sopen01g046310' => 'spe', 'Sopen03g001200' => 'spe', 'Sopen04g004830' => 'spe', 'Sopen05g033720' => 'spe', 'Sopen06g030740' => 'spe', 'Sopen10g013090' => 'spe', 'Sopen10g027630' => 'spe', 'Sopen10g027640' => 'spe', 'Sopen11g002820' => 'spe', 'Sopen11g027140' => 'spe', 'Sp1g09680' => 'spa', 'Sp2g03630' => 'spa', 'Sp4g10320' => 'spa', 'Sp6g33400' => 'spa', 'Sp7g13030' => 'spa', 'TAR365G0317' => 'tar', 'TAR376G0979' => 'tar', 'TAR623G1665' => 'tar', 'TAR633G2373' => 'tar', 'TAR636G1400' => 'tar', 'THA.LOC104800529' => 'tha', 'THA.LOC104808547' => 'tha', 'THA.LOC104809615' => 'tha', 'THA.LOC104815724' => 'tha', 'THA.LOC104818480' => 'tha', 'THA.LOC104819179' => 'tha', 'THA.LOC104822270' => 'tha', 'THA.LOC104826425' => 'tha', 'Thecc.02G089700' => 'tca', 'Thecc.04G232300' => 'tca', 'Thecc.09G283400' => 'tca', 'Thhalv10009020m.g' => 'esa', 'Thhalv10015506m.g' => 'esa', 'Thhalv10017364m.g' => 'esa', 'Thhalv10023742m.g' => 'esa', 'Thhalv10026483m.g' => 'esa', 'TPR.G17232' => 'tpr', 'TPR.G2133' => 'tpr', 'TPR.G2498' => 'tpr', 'TPR.G31942' => 'tpr', 'TPR.G37877' => 'tpr', 'TPR.G4571' => 'tpr', 'TWI14G1113' => 'twi', 'TWI15G0426' => 'twi', 'TWI31G1005' => 'twi', 'TWI38G0513' => 'twi', 'TWI38G1484' => 'twi', 'TWI73G1098' => 'twi', 'unitig_26.g10519' => 'ugi', 'unitig_736.g22395' => 'ugi', 'unitig_747.g21234' => 'ugi', 'unitig_747.g21942' => 'ugi', 'vmacro14351' => 'vma', 'VMungo0540G0082' => 'vmu', 'VMungo0540G0405' => 'vmu', 'VMungo0540G1486' => 'vmu', 'VMungo0540G1692' => 'vmu', 'VMungo0720G2473' => 'vmu', 'VMungo1127G1562' => 'vmu', 'VMungo1215G1918' => 'vmu', 'Zm00001eb052650' => 'zma', 'Zm00001eb063710' => 'zma', 'Zm00001eb083950' => 'zma', 'Zm00001eb174420' => 'zma', 'Zm00001eb260140' => 'zma', 'Zm00001eb260150' => 'zma', 'Zm00001eb260160' => 'zma', 'Zm00001eb348290' => 'zma', 'Zm00001eb366870' => 'zma', 'Zm00001eb421930' => 'zma' ), 'gf_id' => 'HOM05D001025', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001025' ), 'data_identifier' => 'HOM05D001025', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001025', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '592', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p22650' => 'bna', 'A01p29720' => 'bna', 'A03p26560' => 'bna', 'A03p68820' => 'bna', 'A04p20980' => 'bna', 'A06p07730' => 'bna', 'A07p18260' => 'bna', 'A08p33710' => 'bna', 'A09p16970' => 'bna', 'A10p27490' => 'bna', 'Aa31LG1G17300' => 'aar', 'Aa31LG1G3910' => 'aar', 'Aa31LG2G9630' => 'aar', 'Aa31LG5G8360' => 'aar', 'Aa31LG9G2410' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4699' => 'aag', 'Actinidia23512' => 'ach', 'Actinidia37080' => 'ach', 'Ah.01g020380' => 'amhyb', 'Ah.08g215710' => 'amhyb', 'Ah.09g225110' => 'amhyb', 'Ah.10g036680' => 'amhyb', 'AL1G21940' => 'aly', 'AL2G15540' => 'aly', 'AL4G21520' => 'aly', 'AL7G40960' => 'aly', 'Aqoxy2G01191' => 'aox', 'Aqoxy2G03393' => 'aox', 'Aqoxy4G02775' => 'aox', 'Aqoxy6G00058' => 'aox', 'arahy.Tifrunner.gnm1.ann1.9X74H2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CW3FX9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R485W7' => 'arhy', 'AT1G10960' => 'ath', 'AT1G60950' => 'ath', 'AT2G27510' => 'ath', 'AT4G14890' => 'ath', 'AT5G10000' => 'ath', 'ATR0665G624' => 'atr', 'ATR0697G138' => 'atr', 'ATR0776G046' => 'atr', 'ATR1134G135' => 'atr', 'Atru.chr12.1025' => 'acertr', 'Atru.chr3.3241' => 'acertr', 'Atru.chr4.2460' => 'acertr', 'AUR62007427' => 'cqu', 'AUR62010960' => 'cqu', 'AUR62012201' => 'cqu', 'AUR62021470' => 'cqu', 'AUR62022834' => 'cqu', 'AUR62033635' => 'cqu', 'AUR62036186' => 'cqu', 'BcaB01g03077' => 'bca', 'BcaB02g10093' => 'bca', 'BcaB04g20295' => 'bca', 'BcaB06g28147' => 'bca', 'BcaB07g31253' => 'bca', 'BcaC01g04946' => 'bca', 'BcaC02g10614' => 'bca', 'BcaC02g10885' => 'bca', 'BcaC04g19356' => 'bca', 'BcaC04g22297' => 'bca', 'BcaC05g24977' => 'bca', 'BcaC06g31823' => 'bca', 'BcaC07g38633' => 'bca', 'BcaC09g49353' => 'bca', 'BcaC09g50168' => 'bca', 'BcaNung00322' => 'bca', 'BcaNung04769' => 'bca', 'BolC1t02753H' => 'bol', 'BolC1t03721H' => 'bol', 'BolC3t15525H' => 'bol', 'BolC4t23903H' => 'bol', 'BolC4t24231H' => 'bol', 'BolC4t27209H' => 'bol', 'BolC5t29671H' => 'bol', 'BolC8t49044H' => 'bol', 'BolC9t54999H' => 'bol', 'BolC9t59517H' => 'bol', 'BraA01t02178Z' => 'bra', 'BraA01t03099Z' => 'bra', 'BraA03t11867Z' => 'bra', 'BraA04t17667Z' => 'bra', 'BraA07t29542Z' => 'bra', 'BraA08t35287Z' => 'bra', 'BraA09t37334Z' => 'bra', 'BraA10t44801Z' => 'bra', 'BraSC39t46181Z' => 'bra', 'C01p28240' => 'bna', 'C01p37530' => 'bna', 'C03p31820' => 'bna', 'C04p24080' => 'bna', 'C04p25790' => 'bna', 'C04p56770' => 'bna', 'C05p09310' => 'bna', 'C09p21010' => 'bna', 'C09p67560' => 'bna', 'CAN.G1324.7' => 'can', 'CAN.G1358.10' => 'can', 'CAN.G1550.2' => 'can', 'CAN.G186.56' => 'can', 'CAN.G1965.1' => 'can', 'CAN.G645.15' => 'can', 'CAN.G798.26' => 'can', 'CAN.G798.27' => 'can', 'CAN.G798.29' => 'can', 'CAN.G919.31' => 'can', 'CANSAT11G0133' => 'cansat', 'CANSAT11G1171' => 'cansat', 'CANSAT11G2056' => 'cansat', 'CANSAT56G1202' => 'cansat', 'CANSAT56G1514' => 'cansat', 'CANSAT78G0455' => 'cansat', 'CARHR011190' => 'chi', 'CARHR051980' => 'chi', 'CARHR120170' => 'chi', 'CARHR203310' => 'chi', 'CARHR221490' => 'chi', 'Carub.0001s1054' => 'cru', 'Carub.0002s0431' => 'cru', 'Carub.0004s0818' => 'cru', 'Carub.0006s0846' => 'cru', 'Carub.0007s2722' => 'cru', 'Ca_00058_v3' => 'car', 'Ca_17831_v3' => 'car', 'Ca_19408_v3' => 'car', 'Ca_24397_v3' => 'car', 'Ca_25664_v3' => 'car', 'CBR_g21818' => 'cbr', 'CBR_g31195' => 'cbr', 'CBR_g32282' => 'cbr', 'CBR_g39599' => 'cbr', 'CBR_g49410' => 'cbr', 'Cc01_g09120' => 'ccan', 'Cc01_g09130' => 'ccan', 'Cc02_g09630' => 'ccan', 'Cc02_g22810' => 'ccan', 'Cc03_g03810' => 'ccan', 'CDE02G3718' => 'cde', 'CDE04G3183' => 'cde', 'CDE07G1046' => 'cde', 'CDE08G0480' => 'cde', 'Cfa005493' => 'cfa', 'Cfa010312' => 'cfa', 'Cfa015648' => 'cfa', 'Ciclev10002793m.g' => 'ccl', 'Ciclev10003356m.g' => 'ccl', 'Ciclev10006141m.g' => 'ccl', 'Ciclev10016676m.g' => 'ccl', 'Ciclev10017081m.g' => 'ccl', 'Ciclev10029499m.g' => 'ccl', 'CiPaw.01G166300' => 'cil', 'CiPaw.06G145600' => 'cil', 'CiPaw.13G040100' => 'cil', 'CiPaw.13G135800' => 'cil', 'ClCG01G012230' => 'cla', 'ClCG05G009510' => 'cla', 'ClCG08G008270' => 'cla', 'COL.COLO4_11763' => 'col', 'COL.COLO4_19876' => 'col', 'COL.COLO4_21481' => 'col', 'Cpa.g.sc118.34' => 'cpa', 'Cpa.g.sc32.13' => 'cpa', 'Cpa.g.sc58.103' => 'cpa', 'Cre03.g183850' => 'cre', 'Cre06.g306350' => 'cre', 'Cre07.g334800' => 'cre', 'Cre12.g487900' => 'cre', 'Cre14.g626700' => 'cre', 'Cre16.g658400' => 'cre', 'Cre17.g700950' => 'cre', 'CsaV3_1G014830' => 'csa', 'CsaV3_3G013320' => 'csa', 'CsaV3_3G019210' => 'csa', 'CsaV3_3G019220' => 'csa', 'CsaV3_6G004230' => 'csa', 'CSS0003773' => 'camsi', 'CSS0004563' => 'camsi', 'CSS0013949' => 'camsi', 'CSS0025971' => 'camsi', 'CSS0028570' => 'camsi', 'CSS0033127' => 'camsi', 'CSS0036051' => 'camsi', 'CSS0040087' => 'camsi', 'CSS0043179' => 'camsi', 'DCAR_006161' => 'dca', 'DCAR_010351' => 'dca', 'DCAR_012197' => 'dca', 'DCAR_024162' => 'dca', 'Dinv01030' => 'din', 'Dinv10924' => 'din', 'Dinv11835' => 'din', 'Dinv22841' => 'din', 'Dinv42553' => 'din', 'Duzib052G0560' => 'dzi', 'Duzib132G0389' => 'dzi', 'Duzib150G1181' => 'dzi', 'Duzib168G0623' => 'dzi', 'Duzib170G1036' => 'dzi', 'Duzib212G0200' => 'dzi', 'Duzib248G0194' => 'dzi', 'ECA232G2193' => 'eca', 'ECA233G0302' => 'eca', 'ECA234G2813' => 'eca', 'ECA234G4866' => 'eca', 'ECA240G3932' => 'eca', 'ECA248G0385' => 'eca', 'EL10Ac2g04781' => 'bvu', 'EL10Ac3g06445' => 'bvu', 'EL10Ac7g15825' => 'bvu', 'EL10Ac8g18550' => 'bvu', 'Eucgr.B03849' => 'egr', 'Eucgr.I02744' => 'egr', 'Eucgr.J00264' => 'egr', 'Eucgr.J00493' => 'egr', 'FAN04G2181' => 'fan', 'FAN07G2666' => 'fan', 'FAN11G0024' => 'fan', 'FAN12G1105' => 'fan', 'FAN13G0302' => 'fan', 'FAN15G2781' => 'fan', 'FAN16G1274' => 'fan', 'FAN17G2988' => 'fan', 'FAN18G2621' => 'fan', 'FAN21G0013' => 'fan', 'FAN22G1211' => 'fan', 'FAN25G3626' => 'fan', 'FvH4_2g09491' => 'fve', 'FvH4_3g24910' => 'fve', 'FvH4_4g15630' => 'fve', 'FvH4_5g28820' => 'fve', 'Glyma.01G238000' => 'gma', 'Glyma.05G168400' => 'gma', 'Glyma.08G126800' => 'gma', 'Glyma.08G188500' => 'gma', 'Glyma.10G278900' => 'gma', 'Glyma.11G005700' => 'gma', 'Glyma.11G183300' => 'gma', 'Glyma.12G089200' => 'gma', 'Glyma.12G169400' => 'gma', 'Glyma.12G169500' => 'gma', 'Glyma.12G169600' => 'gma', 'Glyma.20G110800' => 'gma', 'Gohir.A03G192900' => 'ghi', 'Gohir.A03G193000' => 'ghi', 'Gohir.A05G080700' => 'ghi', 'Gohir.A09G216000' => 'ghi', 'Gohir.A12G027700' => 'ghi', 'Gohir.A13G036200' => 'ghi', 'Gohir.A13G222600' => 'ghi', 'Gohir.D02G213900' => 'ghi', 'Gohir.D02G214000' => 'ghi', 'Gohir.D05G083700' => 'ghi', 'Gohir.D05G083800' => 'ghi', 'Gohir.D05G083850' => 'ghi', 'Gohir.D08G015400' => 'ghi', 'Gohir.D09G218400' => 'ghi', 'Gohir.D12G027100' => 'ghi', 'Gohir.D13G034500' => 'ghi', 'Gohir.D13G227400' => 'ghi', 'Gorai.005G241800' => 'gra', 'Gorai.005G241900' => 'gra', 'Gorai.006G239400' => 'gra', 'Gorai.008G027600' => 'gra', 'Gorai.009G085400' => 'gra', 'Gorai.009G085500' => 'gra', 'Gorai.013G039000' => 'gra', 'Gorai.013G194800' => 'gra', 'Gorai.013G257900' => 'gra', 'GSVIVG01000982001' => 'vvi', 'GSVIVG01017981001' => 'vvi', 'HanXRQChr01g0024061' => 'han', 'HanXRQChr09g0247831' => 'han', 'HanXRQChr10g0294611' => 'han', 'HanXRQChr10g0294621' => 'han', 'HanXRQChr11g0346821' => 'han', 'HanXRQChr13g0397461' => 'han', 'HanXRQChr16g0513651' => 'han', 'HanXRQChr16g0513701' => 'han', 'Haze_00897' => 'cav', 'Haze_01745' => 'cav', 'Haze_02486' => 'cav', 'Haze_02487' => 'cav', 'Haze_23374' => 'cav', 'Hma1.2p1_0578F.1_g182520' => 'hma', 'Hma1.2p1_0602F.1_g187350' => 'hma', 'Hma1.2p1_0602F.1_g187360' => 'hma', 'Hma1.2p1_0874F.1_g231320' => 'hma', 'Hma1.2p1_1197F.1_g266210' => 'hma', 'Hma1.2p1_1197F.1_g266220' => 'hma', 'Hma1.2p1_2167F.1_g315895' => 'hma', 'Hma1.2p1_2190F.1_g316640' => 'hma', 'Hma1.2p1_3645F.1_g337153' => 'hma', 'HPP92_004907' => 'vpl', 'HPP92_012134' => 'vpl', 'HPP92_025136' => 'vpl', 'HPP92_026087' => 'vpl', 'Hund06782' => 'sun', 'Hund06784' => 'sun', 'Lalb_Chr01g0004861' => 'lal', 'Lalb_Chr02g0140591' => 'lal', 'Lalb_Chr02g0140611' => 'lal', 'Lalb_Chr03g0028101' => 'lal', 'Lalb_Chr07g0185791' => 'lal', 'Lalb_Chr12g0204491' => 'lal', 'Lalb_Chr13g0295671' => 'lal', 'Lalb_Chr19g0136461' => 'lal', 'Lalb_Chr21g0309191' => 'lal', 'Lj1g0028158' => 'lja', 'Lj1P236T38' => 'lonja', 'Lj2C32G2' => 'lonja', 'Lj2P944T8' => 'lonja', 'Lj2P963T15' => 'lonja', 'Lj3g0011788' => 'lja', 'Lj4g0025027' => 'lja', 'Lj5P255T36' => 'lonja', 'Lj6g0018866' => 'lja', 'Lj6P608T31' => 'lonja', 'LjContig00408g0008879' => 'lja', 'Lsat_1_v5_gn_5_105820' => 'lsa', 'Lsat_1_v5_gn_6_38800' => 'lsa', 'Lsat_1_v5_gn_7_67141' => 'lsa', 'Manes.04G003400' => 'mes', 'Manes.07G020000' => 'mes', 'Manes.07G020100' => 'mes', 'Manes.07G020150' => 'mes', 'Manes.10G061500' => 'mes', 'Manes.10G123200' => 'mes', 'Manes.11G161900' => 'mes', 'Manes.15G029300' => 'mes', 'Mapoly0071s0018' => 'mpo', 'Mapoly0082s0023' => 'mpo', 'Mapoly3477s0001' => 'mpo', 'MBI05_g31233_MAGBIO' => 'mbi', 'MBI09_g05946_MAGBIO' => 'mbi', 'MBI09_g05947_MAGBIO' => 'mbi', 'MBI17_g08346_MAGBIO' => 'mbi', 'MCO04G038' => 'mco', 'MCO09G370' => 'mco', 'MCO13G605' => 'mco', 'MD00G1075500' => 'mdo', 'MD03G1144300' => 'mdo', 'MD08G1236800' => 'mdo', 'MD13G1193300' => 'mdo', 'MD15G1428700' => 'mdo', 'Medtr1g112030' => 'mtr', 'Medtr1g112050' => 'mtr', 'Medtr2g006290' => 'mtr', 'Medtr2g086510' => 'mtr', 'Medtr4g053120' => 'mtr', 'Medtr5g006320' => 'mtr', 'Medtr8g088720' => 'mtr', 'MELO3C004712.2' => 'cme', 'MELO3C006533.2' => 'cme', 'MELO3C019438.2' => 'cme', 'MELO3C019440.2' => 'cme', 'MELO3C019441.2' => 'cme', 'MELO3C019895.2' => 'cme', 'Migut.B00811' => 'egut', 'Migut.D02447' => 'egut', 'Migut.F00875' => 'egut', 'Migut.N00186' => 'egut', 'Migut.N01051' => 'egut', 'Migut.N02491' => 'egut', 'Migut.O00784' => 'egut', 'MSTRG.12367' => 'ama', 'MSTRG.18756' => 'ama', 'MSTRG.21042' => 'ama', 'Nitab4.5_0000559g0040' => 'nta', 'Nitab4.5_0000667g0190' => 'nta', 'Nitab4.5_0000755g0160' => 'nta', 'Nitab4.5_0001216g0080' => 'nta', 'Nitab4.5_0004069g0040' => 'nta', 'Nitab4.5_0004129g0010' => 'nta', 'Nitab4.5_0005744g0030' => 'nta', 'Nitab4.5_0006996g0030' => 'nta', 'Nitab4.5_0008971g0040' => 'nta', 'Nitab4.5_0009769g0020' => 'nta', 'Nitab4.5_0009833g0010' => 'nta', 'Nitab4.5_0013140g0020' => 'nta', 'Nn003s41376' => 'nnu', 'Nn1g01857' => 'nnu', 'Nn1g03611' => 'nnu', 'Nn1g06853' => 'nnu', 'Nn3g18360' => 'nnu', 'Nn4g26328' => 'nnu', 'Nn5g27531' => 'nnu', 'Nn6g34899' => 'nnu', 'Nn7g36299' => 'nnu', 'Oeu021485.1' => 'oeu', 'Oeu022433.1' => 'oeu', 'Oeu032111.1' => 'oeu', 'Oeu051608.1' => 'oeu', 'Os01g0860601' => 'osa', 'Os03g0659200' => 'osa', 'Os03g0835900' => 'osa', 'Os04g0412200' => 'osa', 'Os05g0443500' => 'osa', 'Os07g0251500' => 'osa', 'Os08g0104600' => 'osa', 'Peaxi162Scf00003g00047' => 'pax', 'Peaxi162Scf00003g00052' => 'pax', 'Peaxi162Scf00003g00394' => 'pax', 'Peaxi162Scf00091g00621' => 'pax', 'Peaxi162Scf00152g00146' => 'pax', 'Peaxi162Scf00173g00025' => 'pax', 'Peaxi162Scf00195g00102' => 'pax', 'Peaxi162Scf00402g00013' => 'pax', 'Peaxi162Scf00519g00618' => 'pax', 'PGR004G2838' => 'pgr', 'PGR044G2275' => 'pgr', 'PGR102G1377' => 'pgr', 'PGR119G1245' => 'pgr', 'PGR142G4449' => 'pgr', 'PGSC0003DMG400004532' => 'stu', 'PGSC0003DMG400011950' => 'stu', 'PGSC0003DMG400023391' => 'stu', 'PGSC0003DMG400023985' => 'stu', 'PGSC0003DMG400026360' => 'stu', 'PGSC0003DMG400035711' => 'stu', 'PGSC0003DMG400037286' => 'stu', 'PGSC0003DMG402005881' => 'stu', 'Phvul.002G045400' => 'pvu', 'Phvul.006G216600' => 'pvu', 'Phvul.006G216700' => 'pvu', 'Phvul.006G216800' => 'pvu', 'Phvul.007G022500' => 'pvu', 'Phvul.011G094400' => 'pvu', 'Potri.001G470700' => 'ptr', 'Potri.003G015200' => 'ptr', 'Potri.004G202500' => 'ptr', 'Potri.004G218400' => 'ptr', 'Potri.008G020100' => 'ptr', 'Potri.008G153200' => 'ptr', 'Potri.009G163800' => 'ptr', 'Potri.010G087300' => 'ptr', 'Potri.010G239100' => 'ptr', 'Pp3c10_16100' => 'ppa', 'Pp3c10_16880' => 'ppa', 'Pp3c16_6230' => 'ppa', 'Pp3c17_18910' => 'ppa', 'Pp3c3_22119' => 'ppa', 'Pp3c3_22140' => 'ppa', 'Pp3c4_8159' => 'ppa', 'Pp3c4_8171' => 'ppa', 'Pp3c4_8330' => 'ppa', 'PRCOL_00004098' => 'pco', 'Prupe.1G013900' => 'ppe', 'Prupe.1G226300' => 'ppe', 'Prupe.1G573600' => 'ppe', 'Prupe.6G130100' => 'ppe', 'Psat3g090040' => 'psa', 'Psat4g210440' => 'psa', 'Psat6g231040' => 'psa', 'Psat6g231080' => 'psa', 'Psat7g063000' => 'psa', 'Psat7g188000' => 'psa', 'Psat7g188040' => 'psa', 'PSO017G0206' => 'pso', 'PSO170G0501' => 'pso', 'PSO170G6422' => 'pso', 'PSO210G7739' => 'pso', 'PSO339G1808' => 'pso', 'PSO339G6135' => 'pso', 'PSO384G0010' => 'pso', 'PSO384G0964' => 'pso', 'PSO761G0050' => 'pso', 'PSO782G4085' => 'pso', 'QL01p012264' => 'qlo', 'QL02p099491' => 'qlo', 'QL03p033868' => 'qlo', 'QL04p046678' => 'qlo', 'QL06p002448' => 'qlo', 'RcHm_v2.0_Chr4g0416181' => 'rch', 'RcHm_v2.0_Chr5g0044701' => 'rch', 'RcHm_v2.0_Chr6g0265781' => 'rch', 'RcHm_v2.0_Chr7g0221031' => 'rch', 'Rhsim04G0202000' => 'rsi', 'Rhsim11G0127300' => 'rsi', 'Rhsim13G0111800' => 'rsi', 'Sabra01G0165600' => 'sbr', 'Sabra03G0008300' => 'sbr', 'Sabra04G0136900' => 'sbr', 'Sabra08G0013400' => 'sbr', 'Sabra08G0116800' => 'sbr', 'Sabra09G0128000' => 'sbr', 'Sabra10G0055500' => 'sbr', 'Sabra10G0073300' => 'sbr', 'SalBow3G0385' => 'sbo', 'SalBow3G1119' => 'sbo', 'SalBow3G2005' => 'sbo', 'SalBow6G2563' => 'sbo', 'SalBow6G6386' => 'sbo', 'Sc06g0008800' => 'sci', 'Sc07g0004950' => 'sci', 'Sc09g0005340' => 'sci', 'Sc13g0004410' => 'sci', 'Sc21g0007090' => 'sci', 'Sed0009285' => 'sed', 'Sed0017583' => 'sed', 'Sed0019699' => 'sed', 'Sed0023107' => 'sed', 'SEGI_10916' => 'sgi', 'SEGI_16217' => 'sgi', 'SEGI_19466' => 'sgi', 'SEGI_41115' => 'sgi', 'SGA_v2.0_scaffold111G31534' => 'sas', 'SGA_v2.0_scaffold22G09864' => 'sas', 'SGA_v2.0_scaffold338G49219' => 'sas', 'SGA_v2.0_scaffold92G28298' => 'sas', 'SMO119G0064' => 'smo', 'SMO223G0038' => 'smo', 'SMO347G0584' => 'smo', 'SMO351G0010' => 'smo', 'SMO356G0404' => 'smo', 'Solyc01g103920.3' => 'sly', 'Solyc04g009710.2' => 'sly', 'Solyc05g055280.2' => 'sly', 'Solyc10g044520.3' => 'sly', 'Solyc10g075160.1' => 'sly', 'Solyc11g006910.3' => 'sly', 'Solyc11g068430.3' => 'sly', 'Sopen01g046310' => 'spe', 'Sopen03g001200' => 'spe', 'Sopen04g004830' => 'spe', 'Sopen05g033720' => 'spe', 'Sopen06g030740' => 'spe', 'Sopen10g013090' => 'spe', 'Sopen10g027630' => 'spe', 'Sopen10g027640' => 'spe', 'Sopen11g002820' => 'spe', 'Sopen11g027140' => 'spe', 'Sp1g09680' => 'spa', 'Sp2g03630' => 'spa', 'Sp4g10320' => 'spa', 'Sp6g33400' => 'spa', 'Sp7g13030' => 'spa', 'TAR365G0317' => 'tar', 'TAR376G0979' => 'tar', 'TAR623G1665' => 'tar', 'TAR633G2373' => 'tar', 'TAR636G1400' => 'tar', 'THA.LOC104800529' => 'tha', 'THA.LOC104808547' => 'tha', 'THA.LOC104809615' => 'tha', 'THA.LOC104815724' => 'tha', 'THA.LOC104818480' => 'tha', 'THA.LOC104819179' => 'tha', 'THA.LOC104822270' => 'tha', 'THA.LOC104826425' => 'tha', 'Thecc.02G089700' => 'tca', 'Thecc.04G232300' => 'tca', 'Thecc.09G283400' => 'tca', 'Thhalv10009020m.g' => 'esa', 'Thhalv10015506m.g' => 'esa', 'Thhalv10017364m.g' => 'esa', 'Thhalv10023742m.g' => 'esa', 'Thhalv10026483m.g' => 'esa', 'TPR.G17232' => 'tpr', 'TPR.G2133' => 'tpr', 'TPR.G2498' => 'tpr', 'TPR.G31942' => 'tpr', 'TPR.G37877' => 'tpr', 'TPR.G4571' => 'tpr', 'TWI14G1113' => 'twi', 'TWI15G0426' => 'twi', 'TWI31G1005' => 'twi', 'TWI38G0513' => 'twi', 'TWI38G1484' => 'twi', 'TWI73G1098' => 'twi', 'unitig_26.g10519' => 'ugi', 'unitig_736.g22395' => 'ugi', 'unitig_747.g21234' => 'ugi', 'unitig_747.g21942' => 'ugi', 'vmacro14351' => 'vma', 'VMungo0540G0082' => 'vmu', 'VMungo0540G0405' => 'vmu', 'VMungo0540G1486' => 'vmu', 'VMungo0540G1692' => 'vmu', 'VMungo0720G2473' => 'vmu', 'VMungo1127G1562' => 'vmu', 'VMungo1215G1918' => 'vmu', 'Zm00001eb052650' => 'zma', 'Zm00001eb063710' => 'zma', 'Zm00001eb083950' => 'zma', 'Zm00001eb174420' => 'zma', 'Zm00001eb260140' => 'zma', 'Zm00001eb260150' => 'zma', 'Zm00001eb260160' => 'zma', 'Zm00001eb348290' => 'zma', 'Zm00001eb366870' => 'zma', 'Zm00001eb421930' => 'zma' ) $gf_id = 'HOM05D001025' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001025' ) $data_identifier = 'HOM05D001025' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 19, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 2, 'amhyb' => (int) 4, 'aly' => (int) 4, 'aox' => (int) 4, 'arhy' => (int) 3, 'ath' => (int) 5, 'atr' => (int) 4, 'acertr' => (int) 3, 'cqu' => (int) 7, 'bca' => (int) 17, 'bol' => (int) 10, 'bra' => (int) 9, 'can' => (int) 10, 'cansat' => (int) 6, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 5, 'cbr' => (int) 5, 'ccan' => (int) 5, 'cde' => (int) 4, 'cfa' => (int) 3, 'ccl' => (int) 6, 'cil' => (int) 4, 'cla' => (int) 3, 'col' => (int) 3, 'cpa' => (int) 3, 'cre' => (int) 7, 'csa' => (int) 5, 'camsi' => (int) 9, 'dca' => (int) 4, 'din' => (int) 5, 'dzi' => (int) 7, 'eca' => (int) 6, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 12, 'fve' => (int) 4, 'gma' => (int) 12, 'ghi' => (int) 17, 'gra' => (int) 9, 'vvi' => (int) 2, 'han' => (int) 8, 'cav' => (int) 5, 'hma' => (int) 9, 'vpl' => (int) 4, 'sun' => (int) 2, 'lal' => (int) 9, 'lja' => (int) 5, 'lonja' => (int) 6, 'lsa' => (int) 3, 'mes' => (int) 8, 'mpo' => (int) 3, 'mbi' => (int) 4, 'mco' => (int) 3, 'mdo' => (int) 5, 'mtr' => (int) 7, 'cme' => (int) 6, 'egut' => (int) 7, 'ama' => (int) 3, 'nta' => (int) 12, 'nnu' => (int) 9, 'oeu' => (int) 4, 'osa' => (int) 7, 'pax' => (int) 9, 'pgr' => (int) 5, 'stu' => (int) 8, 'pvu' => (int) 6, 'ptr' => (int) 9, 'ppa' => (int) 9, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 7, 'pso' => (int) 10, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 3, 'sbr' => (int) 8, 'sbo' => (int) 5, 'sci' => (int) 5, 'sed' => (int) 4, 'sgi' => (int) 4, 'sas' => (int) 4, 'smo' => (int) 5, 'sly' => (int) 7, 'spe' => (int) 10, 'spa' => (int) 5, 'tar' => (int) 5, 'tha' => (int) 8, 'tca' => (int) 3, 'esa' => (int) 5, 'tpr' => (int) 6, 'twi' => (int) 6, 'ugi' => (int) 4, 'vma' => (int) 1, 'vmu' => (int) 7, 'zma' => (int) 10 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb421930' $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' => 'HOM05D001025', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '592', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p22650' => 'bna', 'A01p29720' => 'bna', 'A03p26560' => 'bna', 'A03p68820' => 'bna', 'A04p20980' => 'bna', 'A06p07730' => 'bna', 'A07p18260' => 'bna', 'A08p33710' => 'bna', 'A09p16970' => 'bna', 'A10p27490' => 'bna', 'Aa31LG1G17300' => 'aar', 'Aa31LG1G3910' => 'aar', 'Aa31LG2G9630' => 'aar', 'Aa31LG5G8360' => 'aar', 'Aa31LG9G2410' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4699' => 'aag', 'Actinidia23512' => 'ach', 'Actinidia37080' => 'ach', 'Ah.01g020380' => 'amhyb', 'Ah.08g215710' => 'amhyb', 'Ah.09g225110' => 'amhyb', 'Ah.10g036680' => 'amhyb', 'AL1G21940' => 'aly', 'AL2G15540' => 'aly', 'AL4G21520' => 'aly', 'AL7G40960' => 'aly', 'Aqoxy2G01191' => 'aox', 'Aqoxy2G03393' => 'aox', 'Aqoxy4G02775' => 'aox', 'Aqoxy6G00058' => 'aox', 'arahy.Tifrunner.gnm1.ann1.9X74H2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CW3FX9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R485W7' => 'arhy', 'AT1G10960' => 'ath', 'AT1G60950' => 'ath', 'AT2G27510' => 'ath', 'AT4G14890' => 'ath', 'AT5G10000' => 'ath', 'ATR0665G624' => 'atr', 'ATR0697G138' => 'atr', 'ATR0776G046' => 'atr', 'ATR1134G135' => 'atr', 'Atru.chr12.1025' => 'acertr', 'Atru.chr3.3241' => 'acertr', 'Atru.chr4.2460' => 'acertr', 'AUR62007427' => 'cqu', 'AUR62010960' => 'cqu', 'AUR62012201' => 'cqu', 'AUR62021470' => 'cqu', 'AUR62022834' => 'cqu', 'AUR62033635' => 'cqu', 'AUR62036186' => 'cqu', 'BcaB01g03077' => 'bca', 'BcaB02g10093' => 'bca', 'BcaB04g20295' => 'bca', 'BcaB06g28147' => 'bca', 'BcaB07g31253' => 'bca', 'BcaC01g04946' => 'bca', 'BcaC02g10614' => 'bca', 'BcaC02g10885' => 'bca', 'BcaC04g19356' => 'bca', 'BcaC04g22297' => 'bca', 'BcaC05g24977' => 'bca', 'BcaC06g31823' => 'bca', 'BcaC07g38633' => 'bca', 'BcaC09g49353' => 'bca', 'BcaC09g50168' => 'bca', 'BcaNung00322' => 'bca', 'BcaNung04769' => 'bca', 'BolC1t02753H' => 'bol', 'BolC1t03721H' => 'bol', 'BolC3t15525H' => 'bol', 'BolC4t23903H' => 'bol', 'BolC4t24231H' => 'bol', 'BolC4t27209H' => 'bol', 'BolC5t29671H' => 'bol', 'BolC8t49044H' => 'bol', 'BolC9t54999H' => 'bol', 'BolC9t59517H' => 'bol', 'BraA01t02178Z' => 'bra', 'BraA01t03099Z' => 'bra', 'BraA03t11867Z' => 'bra', 'BraA04t17667Z' => 'bra', 'BraA07t29542Z' => 'bra', 'BraA08t35287Z' => 'bra', 'BraA09t37334Z' => 'bra', 'BraA10t44801Z' => 'bra', 'BraSC39t46181Z' => 'bra', 'C01p28240' => 'bna', 'C01p37530' => 'bna', 'C03p31820' => 'bna', 'C04p24080' => 'bna', 'C04p25790' => 'bna', 'C04p56770' => 'bna', 'C05p09310' => 'bna', 'C09p21010' => 'bna', 'C09p67560' => 'bna', 'CAN.G1324.7' => 'can', 'CAN.G1358.10' => 'can', 'CAN.G1550.2' => 'can', 'CAN.G186.56' => 'can', 'CAN.G1965.1' => 'can', 'CAN.G645.15' => 'can', 'CAN.G798.26' => 'can', 'CAN.G798.27' => 'can', 'CAN.G798.29' => 'can', 'CAN.G919.31' => 'can', 'CANSAT11G0133' => 'cansat', 'CANSAT11G1171' => 'cansat', 'CANSAT11G2056' => 'cansat', 'CANSAT56G1202' => 'cansat', 'CANSAT56G1514' => 'cansat', 'CANSAT78G0455' => 'cansat', 'CARHR011190' => 'chi', 'CARHR051980' => 'chi', 'CARHR120170' => 'chi', 'CARHR203310' => 'chi', 'CARHR221490' => 'chi', 'Carub.0001s1054' => 'cru', 'Carub.0002s0431' => 'cru', 'Carub.0004s0818' => 'cru', 'Carub.0006s0846' => 'cru', 'Carub.0007s2722' => 'cru', 'Ca_00058_v3' => 'car', 'Ca_17831_v3' => 'car', 'Ca_19408_v3' => 'car', 'Ca_24397_v3' => 'car', 'Ca_25664_v3' => 'car', 'CBR_g21818' => 'cbr', 'CBR_g31195' => 'cbr', 'CBR_g32282' => 'cbr', 'CBR_g39599' => 'cbr', 'CBR_g49410' => 'cbr', 'Cc01_g09120' => 'ccan', 'Cc01_g09130' => 'ccan', 'Cc02_g09630' => 'ccan', 'Cc02_g22810' => 'ccan', 'Cc03_g03810' => 'ccan', 'CDE02G3718' => 'cde', 'CDE04G3183' => 'cde', 'CDE07G1046' => 'cde', 'CDE08G0480' => 'cde', 'Cfa005493' => 'cfa', 'Cfa010312' => 'cfa', 'Cfa015648' => 'cfa', 'Ciclev10002793m.g' => 'ccl', 'Ciclev10003356m.g' => 'ccl', 'Ciclev10006141m.g' => 'ccl', 'Ciclev10016676m.g' => 'ccl', 'Ciclev10017081m.g' => 'ccl', 'Ciclev10029499m.g' => 'ccl', 'CiPaw.01G166300' => 'cil', 'CiPaw.06G145600' => 'cil', 'CiPaw.13G040100' => 'cil', 'CiPaw.13G135800' => 'cil', 'ClCG01G012230' => 'cla', 'ClCG05G009510' => 'cla', 'ClCG08G008270' => 'cla', 'COL.COLO4_11763' => 'col', 'COL.COLO4_19876' => 'col', 'COL.COLO4_21481' => 'col', 'Cpa.g.sc118.34' => 'cpa', 'Cpa.g.sc32.13' => 'cpa', 'Cpa.g.sc58.103' => 'cpa', 'Cre03.g183850' => 'cre', 'Cre06.g306350' => 'cre', 'Cre07.g334800' => 'cre', 'Cre12.g487900' => 'cre', 'Cre14.g626700' => 'cre', 'Cre16.g658400' => 'cre', 'Cre17.g700950' => 'cre', 'CsaV3_1G014830' => 'csa', 'CsaV3_3G013320' => 'csa', 'CsaV3_3G019210' => 'csa', 'CsaV3_3G019220' => 'csa', 'CsaV3_6G004230' => 'csa', 'CSS0003773' => 'camsi', 'CSS0004563' => 'camsi', 'CSS0013949' => 'camsi', 'CSS0025971' => 'camsi', 'CSS0028570' => 'camsi', 'CSS0033127' => 'camsi', 'CSS0036051' => 'camsi', 'CSS0040087' => 'camsi', 'CSS0043179' => 'camsi', 'DCAR_006161' => 'dca', 'DCAR_010351' => 'dca', 'DCAR_012197' => 'dca', 'DCAR_024162' => 'dca', 'Dinv01030' => 'din', 'Dinv10924' => 'din', 'Dinv11835' => 'din', 'Dinv22841' => 'din', 'Dinv42553' => 'din', 'Duzib052G0560' => 'dzi', 'Duzib132G0389' => 'dzi', 'Duzib150G1181' => 'dzi', 'Duzib168G0623' => 'dzi', 'Duzib170G1036' => 'dzi', 'Duzib212G0200' => 'dzi', 'Duzib248G0194' => 'dzi', 'ECA232G2193' => 'eca', 'ECA233G0302' => 'eca', 'ECA234G2813' => 'eca', 'ECA234G4866' => 'eca', 'ECA240G3932' => 'eca', 'ECA248G0385' => 'eca', 'EL10Ac2g04781' => 'bvu', 'EL10Ac3g06445' => 'bvu', 'EL10Ac7g15825' => 'bvu', 'EL10Ac8g18550' => 'bvu', 'Eucgr.B03849' => 'egr', 'Eucgr.I02744' => 'egr', 'Eucgr.J00264' => 'egr', 'Eucgr.J00493' => 'egr', 'FAN04G2181' => 'fan', 'FAN07G2666' => 'fan', 'FAN11G0024' => 'fan', 'FAN12G1105' => 'fan', 'FAN13G0302' => 'fan', 'FAN15G2781' => 'fan', 'FAN16G1274' => 'fan', 'FAN17G2988' => 'fan', 'FAN18G2621' => 'fan', 'FAN21G0013' => 'fan', 'FAN22G1211' => 'fan', 'FAN25G3626' => 'fan', 'FvH4_2g09491' => 'fve', 'FvH4_3g24910' => 'fve', 'FvH4_4g15630' => 'fve', 'FvH4_5g28820' => 'fve', 'Glyma.01G238000' => 'gma', 'Glyma.05G168400' => 'gma', 'Glyma.08G126800' => 'gma', 'Glyma.08G188500' => 'gma', 'Glyma.10G278900' => 'gma', 'Glyma.11G005700' => 'gma', 'Glyma.11G183300' => 'gma', 'Glyma.12G089200' => 'gma', 'Glyma.12G169400' => 'gma', 'Glyma.12G169500' => 'gma', 'Glyma.12G169600' => 'gma', 'Glyma.20G110800' => 'gma', 'Gohir.A03G192900' => 'ghi', 'Gohir.A03G193000' => 'ghi', 'Gohir.A05G080700' => 'ghi', 'Gohir.A09G216000' => 'ghi', 'Gohir.A12G027700' => 'ghi', 'Gohir.A13G036200' => 'ghi', 'Gohir.A13G222600' => 'ghi', 'Gohir.D02G213900' => 'ghi', 'Gohir.D02G214000' => 'ghi', 'Gohir.D05G083700' => 'ghi', 'Gohir.D05G083800' => 'ghi', 'Gohir.D05G083850' => 'ghi', 'Gohir.D08G015400' => 'ghi', 'Gohir.D09G218400' => 'ghi', 'Gohir.D12G027100' => 'ghi', 'Gohir.D13G034500' => 'ghi', 'Gohir.D13G227400' => 'ghi', 'Gorai.005G241800' => 'gra', 'Gorai.005G241900' => 'gra', 'Gorai.006G239400' => 'gra', 'Gorai.008G027600' => 'gra', 'Gorai.009G085400' => 'gra', 'Gorai.009G085500' => 'gra', 'Gorai.013G039000' => 'gra', 'Gorai.013G194800' => 'gra', 'Gorai.013G257900' => 'gra', 'GSVIVG01000982001' => 'vvi', 'GSVIVG01017981001' => 'vvi', 'HanXRQChr01g0024061' => 'han', 'HanXRQChr09g0247831' => 'han', 'HanXRQChr10g0294611' => 'han', 'HanXRQChr10g0294621' => 'han', 'HanXRQChr11g0346821' => 'han', 'HanXRQChr13g0397461' => 'han', 'HanXRQChr16g0513651' => 'han', 'HanXRQChr16g0513701' => 'han', 'Haze_00897' => 'cav', 'Haze_01745' => 'cav', 'Haze_02486' => 'cav', 'Haze_02487' => 'cav', 'Haze_23374' => 'cav', 'Hma1.2p1_0578F.1_g182520' => 'hma', 'Hma1.2p1_0602F.1_g187350' => 'hma', 'Hma1.2p1_0602F.1_g187360' => 'hma', 'Hma1.2p1_0874F.1_g231320' => 'hma', 'Hma1.2p1_1197F.1_g266210' => 'hma', 'Hma1.2p1_1197F.1_g266220' => 'hma', 'Hma1.2p1_2167F.1_g315895' => 'hma', 'Hma1.2p1_2190F.1_g316640' => 'hma', 'Hma1.2p1_3645F.1_g337153' => 'hma', 'HPP92_004907' => 'vpl', 'HPP92_012134' => 'vpl', 'HPP92_025136' => 'vpl', 'HPP92_026087' => 'vpl', 'Hund06782' => 'sun', 'Hund06784' => 'sun', 'Lalb_Chr01g0004861' => 'lal', 'Lalb_Chr02g0140591' => 'lal', 'Lalb_Chr02g0140611' => 'lal', 'Lalb_Chr03g0028101' => 'lal', 'Lalb_Chr07g0185791' => 'lal', 'Lalb_Chr12g0204491' => 'lal', 'Lalb_Chr13g0295671' => 'lal', 'Lalb_Chr19g0136461' => 'lal', 'Lalb_Chr21g0309191' => 'lal', 'Lj1g0028158' => 'lja', 'Lj1P236T38' => 'lonja', 'Lj2C32G2' => 'lonja', 'Lj2P944T8' => 'lonja', 'Lj2P963T15' => 'lonja', 'Lj3g0011788' => 'lja', 'Lj4g0025027' => 'lja', 'Lj5P255T36' => 'lonja', 'Lj6g0018866' => 'lja', 'Lj6P608T31' => 'lonja', 'LjContig00408g0008879' => 'lja', 'Lsat_1_v5_gn_5_105820' => 'lsa', 'Lsat_1_v5_gn_6_38800' => 'lsa', 'Lsat_1_v5_gn_7_67141' => 'lsa', 'Manes.04G003400' => 'mes', 'Manes.07G020000' => 'mes', 'Manes.07G020100' => 'mes', 'Manes.07G020150' => 'mes', 'Manes.10G061500' => 'mes', 'Manes.10G123200' => 'mes', 'Manes.11G161900' => 'mes', 'Manes.15G029300' => 'mes', 'Mapoly0071s0018' => 'mpo', 'Mapoly0082s0023' => 'mpo', 'Mapoly3477s0001' => 'mpo', 'MBI05_g31233_MAGBIO' => 'mbi', 'MBI09_g05946_MAGBIO' => 'mbi', 'MBI09_g05947_MAGBIO' => 'mbi', 'MBI17_g08346_MAGBIO' => 'mbi', 'MCO04G038' => 'mco', 'MCO09G370' => 'mco', 'MCO13G605' => 'mco', 'MD00G1075500' => 'mdo', 'MD03G1144300' => 'mdo', 'MD08G1236800' => 'mdo', 'MD13G1193300' => 'mdo', 'MD15G1428700' => 'mdo', 'Medtr1g112030' => 'mtr', 'Medtr1g112050' => 'mtr', 'Medtr2g006290' => 'mtr', 'Medtr2g086510' => 'mtr', 'Medtr4g053120' => 'mtr', 'Medtr5g006320' => 'mtr', 'Medtr8g088720' => 'mtr', 'MELO3C004712.2' => 'cme', 'MELO3C006533.2' => 'cme', 'MELO3C019438.2' => 'cme', 'MELO3C019440.2' => 'cme', 'MELO3C019441.2' => 'cme', 'MELO3C019895.2' => 'cme', 'Migut.B00811' => 'egut', 'Migut.D02447' => 'egut', 'Migut.F00875' => 'egut', 'Migut.N00186' => 'egut', 'Migut.N01051' => 'egut', 'Migut.N02491' => 'egut', 'Migut.O00784' => 'egut', 'MSTRG.12367' => 'ama', 'MSTRG.18756' => 'ama', 'MSTRG.21042' => 'ama', 'Nitab4.5_0000559g0040' => 'nta', 'Nitab4.5_0000667g0190' => 'nta', 'Nitab4.5_0000755g0160' => 'nta', 'Nitab4.5_0001216g0080' => 'nta', 'Nitab4.5_0004069g0040' => 'nta', 'Nitab4.5_0004129g0010' => 'nta', 'Nitab4.5_0005744g0030' => 'nta', 'Nitab4.5_0006996g0030' => 'nta', 'Nitab4.5_0008971g0040' => 'nta', 'Nitab4.5_0009769g0020' => 'nta', 'Nitab4.5_0009833g0010' => 'nta', 'Nitab4.5_0013140g0020' => 'nta', 'Nn003s41376' => 'nnu', 'Nn1g01857' => 'nnu', 'Nn1g03611' => 'nnu', 'Nn1g06853' => 'nnu', 'Nn3g18360' => 'nnu', 'Nn4g26328' => 'nnu', 'Nn5g27531' => 'nnu', 'Nn6g34899' => 'nnu', 'Nn7g36299' => 'nnu', 'Oeu021485.1' => 'oeu', 'Oeu022433.1' => 'oeu', 'Oeu032111.1' => 'oeu', 'Oeu051608.1' => 'oeu', 'Os01g0860601' => 'osa', 'Os03g0659200' => 'osa', 'Os03g0835900' => 'osa', 'Os04g0412200' => 'osa', 'Os05g0443500' => 'osa', 'Os07g0251500' => 'osa', 'Os08g0104600' => 'osa', 'Peaxi162Scf00003g00047' => 'pax', 'Peaxi162Scf00003g00052' => 'pax', 'Peaxi162Scf00003g00394' => 'pax', 'Peaxi162Scf00091g00621' => 'pax', 'Peaxi162Scf00152g00146' => 'pax', 'Peaxi162Scf00173g00025' => 'pax', 'Peaxi162Scf00195g00102' => 'pax', 'Peaxi162Scf00402g00013' => 'pax', 'Peaxi162Scf00519g00618' => 'pax', 'PGR004G2838' => 'pgr', 'PGR044G2275' => 'pgr', 'PGR102G1377' => 'pgr', 'PGR119G1245' => 'pgr', 'PGR142G4449' => 'pgr', 'PGSC0003DMG400004532' => 'stu', 'PGSC0003DMG400011950' => 'stu', 'PGSC0003DMG400023391' => 'stu', 'PGSC0003DMG400023985' => 'stu', 'PGSC0003DMG400026360' => 'stu', 'PGSC0003DMG400035711' => 'stu', 'PGSC0003DMG400037286' => 'stu', 'PGSC0003DMG402005881' => 'stu', 'Phvul.002G045400' => 'pvu', 'Phvul.006G216600' => 'pvu', 'Phvul.006G216700' => 'pvu', 'Phvul.006G216800' => 'pvu', 'Phvul.007G022500' => 'pvu', 'Phvul.011G094400' => 'pvu', 'Potri.001G470700' => 'ptr', 'Potri.003G015200' => 'ptr', 'Potri.004G202500' => 'ptr', 'Potri.004G218400' => 'ptr', 'Potri.008G020100' => 'ptr', 'Potri.008G153200' => 'ptr', 'Potri.009G163800' => 'ptr', 'Potri.010G087300' => 'ptr', 'Potri.010G239100' => 'ptr', 'Pp3c10_16100' => 'ppa', 'Pp3c10_16880' => 'ppa', 'Pp3c16_6230' => 'ppa', 'Pp3c17_18910' => 'ppa', 'Pp3c3_22119' => 'ppa', 'Pp3c3_22140' => 'ppa', 'Pp3c4_8159' => 'ppa', 'Pp3c4_8171' => 'ppa', 'Pp3c4_8330' => 'ppa', 'PRCOL_00004098' => 'pco', 'Prupe.1G013900' => 'ppe', 'Prupe.1G226300' => 'ppe', 'Prupe.1G573600' => 'ppe', 'Prupe.6G130100' => 'ppe', 'Psat3g090040' => 'psa', 'Psat4g210440' => 'psa', 'Psat6g231040' => 'psa', 'Psat6g231080' => 'psa', 'Psat7g063000' => 'psa', 'Psat7g188000' => 'psa', 'Psat7g188040' => 'psa', 'PSO017G0206' => 'pso', 'PSO170G0501' => 'pso', 'PSO170G6422' => 'pso', 'PSO210G7739' => 'pso', 'PSO339G1808' => 'pso', 'PSO339G6135' => 'pso', 'PSO384G0010' => 'pso', 'PSO384G0964' => 'pso', 'PSO761G0050' => 'pso', 'PSO782G4085' => 'pso', 'QL01p012264' => 'qlo', 'QL02p099491' => 'qlo', 'QL03p033868' => 'qlo', 'QL04p046678' => 'qlo', 'QL06p002448' => 'qlo', 'RcHm_v2.0_Chr4g0416181' => 'rch', 'RcHm_v2.0_Chr5g0044701' => 'rch', 'RcHm_v2.0_Chr6g0265781' => 'rch', 'RcHm_v2.0_Chr7g0221031' => 'rch', 'Rhsim04G0202000' => 'rsi', 'Rhsim11G0127300' => 'rsi', 'Rhsim13G0111800' => 'rsi', 'Sabra01G0165600' => 'sbr', 'Sabra03G0008300' => 'sbr', 'Sabra04G0136900' => 'sbr', 'Sabra08G0013400' => 'sbr', 'Sabra08G0116800' => 'sbr', 'Sabra09G0128000' => 'sbr', 'Sabra10G0055500' => 'sbr', 'Sabra10G0073300' => 'sbr', 'SalBow3G0385' => 'sbo', 'SalBow3G1119' => 'sbo', 'SalBow3G2005' => 'sbo', 'SalBow6G2563' => 'sbo', 'SalBow6G6386' => 'sbo', 'Sc06g0008800' => 'sci', 'Sc07g0004950' => 'sci', 'Sc09g0005340' => 'sci', 'Sc13g0004410' => 'sci', 'Sc21g0007090' => 'sci', 'Sed0009285' => 'sed', 'Sed0017583' => 'sed', 'Sed0019699' => 'sed', 'Sed0023107' => 'sed', 'SEGI_10916' => 'sgi', 'SEGI_16217' => 'sgi', 'SEGI_19466' => 'sgi', 'SEGI_41115' => 'sgi', 'SGA_v2.0_scaffold111G31534' => 'sas', 'SGA_v2.0_scaffold22G09864' => 'sas', 'SGA_v2.0_scaffold338G49219' => 'sas', 'SGA_v2.0_scaffold92G28298' => 'sas', 'SMO119G0064' => 'smo', 'SMO223G0038' => 'smo', 'SMO347G0584' => 'smo', 'SMO351G0010' => 'smo', 'SMO356G0404' => 'smo', 'Solyc01g103920.3' => 'sly', 'Solyc04g009710.2' => 'sly', 'Solyc05g055280.2' => 'sly', 'Solyc10g044520.3' => 'sly', 'Solyc10g075160.1' => 'sly', 'Solyc11g006910.3' => 'sly', 'Solyc11g068430.3' => 'sly', 'Sopen01g046310' => 'spe', 'Sopen03g001200' => 'spe', 'Sopen04g004830' => 'spe', 'Sopen05g033720' => 'spe', 'Sopen06g030740' => 'spe', 'Sopen10g013090' => 'spe', 'Sopen10g027630' => 'spe', 'Sopen10g027640' => 'spe', 'Sopen11g002820' => 'spe', 'Sopen11g027140' => 'spe', 'Sp1g09680' => 'spa', 'Sp2g03630' => 'spa', 'Sp4g10320' => 'spa', 'Sp6g33400' => 'spa', 'Sp7g13030' => 'spa', 'TAR365G0317' => 'tar', 'TAR376G0979' => 'tar', 'TAR623G1665' => 'tar', 'TAR633G2373' => 'tar', 'TAR636G1400' => 'tar', 'THA.LOC104800529' => 'tha', 'THA.LOC104808547' => 'tha', 'THA.LOC104809615' => 'tha', 'THA.LOC104815724' => 'tha', 'THA.LOC104818480' => 'tha', 'THA.LOC104819179' => 'tha', 'THA.LOC104822270' => 'tha', 'THA.LOC104826425' => 'tha', 'Thecc.02G089700' => 'tca', 'Thecc.04G232300' => 'tca', 'Thecc.09G283400' => 'tca', 'Thhalv10009020m.g' => 'esa', 'Thhalv10015506m.g' => 'esa', 'Thhalv10017364m.g' => 'esa', 'Thhalv10023742m.g' => 'esa', 'Thhalv10026483m.g' => 'esa', 'TPR.G17232' => 'tpr', 'TPR.G2133' => 'tpr', 'TPR.G2498' => 'tpr', 'TPR.G31942' => 'tpr', 'TPR.G37877' => 'tpr', 'TPR.G4571' => 'tpr', 'TWI14G1113' => 'twi', 'TWI15G0426' => 'twi', 'TWI31G1005' => 'twi', 'TWI38G0513' => 'twi', 'TWI38G1484' => 'twi', 'TWI73G1098' => 'twi', 'unitig_26.g10519' => 'ugi', 'unitig_736.g22395' => 'ugi', 'unitig_747.g21234' => 'ugi', 'unitig_747.g21942' => 'ugi', 'vmacro14351' => 'vma', 'VMungo0540G0082' => 'vmu', 'VMungo0540G0405' => 'vmu', 'VMungo0540G1486' => 'vmu', 'VMungo0540G1692' => 'vmu', 'VMungo0720G2473' => 'vmu', 'VMungo1127G1562' => 'vmu', 'VMungo1215G1918' => 'vmu', 'Zm00001eb052650' => 'zma', 'Zm00001eb063710' => 'zma', 'Zm00001eb083950' => 'zma', 'Zm00001eb174420' => 'zma', 'Zm00001eb260140' => 'zma', 'Zm00001eb260150' => 'zma', 'Zm00001eb260160' => 'zma', 'Zm00001eb348290' => 'zma', 'Zm00001eb366870' => 'zma', 'Zm00001eb421930' => 'zma' ), 'gf_id' => 'HOM05D001025', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001025' ), 'data_identifier' => 'HOM05D001025', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001025', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '592', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p22650' => 'bna', 'A01p29720' => 'bna', 'A03p26560' => 'bna', 'A03p68820' => 'bna', 'A04p20980' => 'bna', 'A06p07730' => 'bna', 'A07p18260' => 'bna', 'A08p33710' => 'bna', 'A09p16970' => 'bna', 'A10p27490' => 'bna', 'Aa31LG1G17300' => 'aar', 'Aa31LG1G3910' => 'aar', 'Aa31LG2G9630' => 'aar', 'Aa31LG5G8360' => 'aar', 'Aa31LG9G2410' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4699' => 'aag', 'Actinidia23512' => 'ach', 'Actinidia37080' => 'ach', 'Ah.01g020380' => 'amhyb', 'Ah.08g215710' => 'amhyb', 'Ah.09g225110' => 'amhyb', 'Ah.10g036680' => 'amhyb', 'AL1G21940' => 'aly', 'AL2G15540' => 'aly', 'AL4G21520' => 'aly', 'AL7G40960' => 'aly', 'Aqoxy2G01191' => 'aox', 'Aqoxy2G03393' => 'aox', 'Aqoxy4G02775' => 'aox', 'Aqoxy6G00058' => 'aox', 'arahy.Tifrunner.gnm1.ann1.9X74H2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CW3FX9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R485W7' => 'arhy', 'AT1G10960' => 'ath', 'AT1G60950' => 'ath', 'AT2G27510' => 'ath', 'AT4G14890' => 'ath', 'AT5G10000' => 'ath', 'ATR0665G624' => 'atr', 'ATR0697G138' => 'atr', 'ATR0776G046' => 'atr', 'ATR1134G135' => 'atr', 'Atru.chr12.1025' => 'acertr', 'Atru.chr3.3241' => 'acertr', 'Atru.chr4.2460' => 'acertr', 'AUR62007427' => 'cqu', 'AUR62010960' => 'cqu', 'AUR62012201' => 'cqu', 'AUR62021470' => 'cqu', 'AUR62022834' => 'cqu', 'AUR62033635' => 'cqu', 'AUR62036186' => 'cqu', 'BcaB01g03077' => 'bca', 'BcaB02g10093' => 'bca', 'BcaB04g20295' => 'bca', 'BcaB06g28147' => 'bca', 'BcaB07g31253' => 'bca', 'BcaC01g04946' => 'bca', 'BcaC02g10614' => 'bca', 'BcaC02g10885' => 'bca', 'BcaC04g19356' => 'bca', 'BcaC04g22297' => 'bca', 'BcaC05g24977' => 'bca', 'BcaC06g31823' => 'bca', 'BcaC07g38633' => 'bca', 'BcaC09g49353' => 'bca', 'BcaC09g50168' => 'bca', 'BcaNung00322' => 'bca', 'BcaNung04769' => 'bca', 'BolC1t02753H' => 'bol', 'BolC1t03721H' => 'bol', 'BolC3t15525H' => 'bol', 'BolC4t23903H' => 'bol', 'BolC4t24231H' => 'bol', 'BolC4t27209H' => 'bol', 'BolC5t29671H' => 'bol', 'BolC8t49044H' => 'bol', 'BolC9t54999H' => 'bol', 'BolC9t59517H' => 'bol', 'BraA01t02178Z' => 'bra', 'BraA01t03099Z' => 'bra', 'BraA03t11867Z' => 'bra', 'BraA04t17667Z' => 'bra', 'BraA07t29542Z' => 'bra', 'BraA08t35287Z' => 'bra', 'BraA09t37334Z' => 'bra', 'BraA10t44801Z' => 'bra', 'BraSC39t46181Z' => 'bra', 'C01p28240' => 'bna', 'C01p37530' => 'bna', 'C03p31820' => 'bna', 'C04p24080' => 'bna', 'C04p25790' => 'bna', 'C04p56770' => 'bna', 'C05p09310' => 'bna', 'C09p21010' => 'bna', 'C09p67560' => 'bna', 'CAN.G1324.7' => 'can', 'CAN.G1358.10' => 'can', 'CAN.G1550.2' => 'can', 'CAN.G186.56' => 'can', 'CAN.G1965.1' => 'can', 'CAN.G645.15' => 'can', 'CAN.G798.26' => 'can', 'CAN.G798.27' => 'can', 'CAN.G798.29' => 'can', 'CAN.G919.31' => 'can', 'CANSAT11G0133' => 'cansat', 'CANSAT11G1171' => 'cansat', 'CANSAT11G2056' => 'cansat', 'CANSAT56G1202' => 'cansat', 'CANSAT56G1514' => 'cansat', 'CANSAT78G0455' => 'cansat', 'CARHR011190' => 'chi', 'CARHR051980' => 'chi', 'CARHR120170' => 'chi', 'CARHR203310' => 'chi', 'CARHR221490' => 'chi', 'Carub.0001s1054' => 'cru', 'Carub.0002s0431' => 'cru', 'Carub.0004s0818' => 'cru', 'Carub.0006s0846' => 'cru', 'Carub.0007s2722' => 'cru', 'Ca_00058_v3' => 'car', 'Ca_17831_v3' => 'car', 'Ca_19408_v3' => 'car', 'Ca_24397_v3' => 'car', 'Ca_25664_v3' => 'car', 'CBR_g21818' => 'cbr', 'CBR_g31195' => 'cbr', 'CBR_g32282' => 'cbr', 'CBR_g39599' => 'cbr', 'CBR_g49410' => 'cbr', 'Cc01_g09120' => 'ccan', 'Cc01_g09130' => 'ccan', 'Cc02_g09630' => 'ccan', 'Cc02_g22810' => 'ccan', 'Cc03_g03810' => 'ccan', 'CDE02G3718' => 'cde', 'CDE04G3183' => 'cde', 'CDE07G1046' => 'cde', 'CDE08G0480' => 'cde', 'Cfa005493' => 'cfa', 'Cfa010312' => 'cfa', 'Cfa015648' => 'cfa', 'Ciclev10002793m.g' => 'ccl', 'Ciclev10003356m.g' => 'ccl', 'Ciclev10006141m.g' => 'ccl', 'Ciclev10016676m.g' => 'ccl', 'Ciclev10017081m.g' => 'ccl', 'Ciclev10029499m.g' => 'ccl', 'CiPaw.01G166300' => 'cil', 'CiPaw.06G145600' => 'cil', 'CiPaw.13G040100' => 'cil', 'CiPaw.13G135800' => 'cil', 'ClCG01G012230' => 'cla', 'ClCG05G009510' => 'cla', 'ClCG08G008270' => 'cla', 'COL.COLO4_11763' => 'col', 'COL.COLO4_19876' => 'col', 'COL.COLO4_21481' => 'col', 'Cpa.g.sc118.34' => 'cpa', 'Cpa.g.sc32.13' => 'cpa', 'Cpa.g.sc58.103' => 'cpa', 'Cre03.g183850' => 'cre', 'Cre06.g306350' => 'cre', 'Cre07.g334800' => 'cre', 'Cre12.g487900' => 'cre', 'Cre14.g626700' => 'cre', 'Cre16.g658400' => 'cre', 'Cre17.g700950' => 'cre', 'CsaV3_1G014830' => 'csa', 'CsaV3_3G013320' => 'csa', 'CsaV3_3G019210' => 'csa', 'CsaV3_3G019220' => 'csa', 'CsaV3_6G004230' => 'csa', 'CSS0003773' => 'camsi', 'CSS0004563' => 'camsi', 'CSS0013949' => 'camsi', 'CSS0025971' => 'camsi', 'CSS0028570' => 'camsi', 'CSS0033127' => 'camsi', 'CSS0036051' => 'camsi', 'CSS0040087' => 'camsi', 'CSS0043179' => 'camsi', 'DCAR_006161' => 'dca', 'DCAR_010351' => 'dca', 'DCAR_012197' => 'dca', 'DCAR_024162' => 'dca', 'Dinv01030' => 'din', 'Dinv10924' => 'din', 'Dinv11835' => 'din', 'Dinv22841' => 'din', 'Dinv42553' => 'din', 'Duzib052G0560' => 'dzi', 'Duzib132G0389' => 'dzi', 'Duzib150G1181' => 'dzi', 'Duzib168G0623' => 'dzi', 'Duzib170G1036' => 'dzi', 'Duzib212G0200' => 'dzi', 'Duzib248G0194' => 'dzi', 'ECA232G2193' => 'eca', 'ECA233G0302' => 'eca', 'ECA234G2813' => 'eca', 'ECA234G4866' => 'eca', 'ECA240G3932' => 'eca', 'ECA248G0385' => 'eca', 'EL10Ac2g04781' => 'bvu', 'EL10Ac3g06445' => 'bvu', 'EL10Ac7g15825' => 'bvu', 'EL10Ac8g18550' => 'bvu', 'Eucgr.B03849' => 'egr', 'Eucgr.I02744' => 'egr', 'Eucgr.J00264' => 'egr', 'Eucgr.J00493' => 'egr', 'FAN04G2181' => 'fan', 'FAN07G2666' => 'fan', 'FAN11G0024' => 'fan', 'FAN12G1105' => 'fan', 'FAN13G0302' => 'fan', 'FAN15G2781' => 'fan', 'FAN16G1274' => 'fan', 'FAN17G2988' => 'fan', 'FAN18G2621' => 'fan', 'FAN21G0013' => 'fan', 'FAN22G1211' => 'fan', 'FAN25G3626' => 'fan', 'FvH4_2g09491' => 'fve', 'FvH4_3g24910' => 'fve', 'FvH4_4g15630' => 'fve', 'FvH4_5g28820' => 'fve', 'Glyma.01G238000' => 'gma', 'Glyma.05G168400' => 'gma', 'Glyma.08G126800' => 'gma', 'Glyma.08G188500' => 'gma', 'Glyma.10G278900' => 'gma', 'Glyma.11G005700' => 'gma', 'Glyma.11G183300' => 'gma', 'Glyma.12G089200' => 'gma', 'Glyma.12G169400' => 'gma', 'Glyma.12G169500' => 'gma', 'Glyma.12G169600' => 'gma', 'Glyma.20G110800' => 'gma', 'Gohir.A03G192900' => 'ghi', 'Gohir.A03G193000' => 'ghi', 'Gohir.A05G080700' => 'ghi', 'Gohir.A09G216000' => 'ghi', 'Gohir.A12G027700' => 'ghi', 'Gohir.A13G036200' => 'ghi', 'Gohir.A13G222600' => 'ghi', 'Gohir.D02G213900' => 'ghi', 'Gohir.D02G214000' => 'ghi', 'Gohir.D05G083700' => 'ghi', 'Gohir.D05G083800' => 'ghi', 'Gohir.D05G083850' => 'ghi', 'Gohir.D08G015400' => 'ghi', 'Gohir.D09G218400' => 'ghi', 'Gohir.D12G027100' => 'ghi', 'Gohir.D13G034500' => 'ghi', 'Gohir.D13G227400' => 'ghi', 'Gorai.005G241800' => 'gra', 'Gorai.005G241900' => 'gra', 'Gorai.006G239400' => 'gra', 'Gorai.008G027600' => 'gra', 'Gorai.009G085400' => 'gra', 'Gorai.009G085500' => 'gra', 'Gorai.013G039000' => 'gra', 'Gorai.013G194800' => 'gra', 'Gorai.013G257900' => 'gra', 'GSVIVG01000982001' => 'vvi', 'GSVIVG01017981001' => 'vvi', 'HanXRQChr01g0024061' => 'han', 'HanXRQChr09g0247831' => 'han', 'HanXRQChr10g0294611' => 'han', 'HanXRQChr10g0294621' => 'han', 'HanXRQChr11g0346821' => 'han', 'HanXRQChr13g0397461' => 'han', 'HanXRQChr16g0513651' => 'han', 'HanXRQChr16g0513701' => 'han', 'Haze_00897' => 'cav', 'Haze_01745' => 'cav', 'Haze_02486' => 'cav', 'Haze_02487' => 'cav', 'Haze_23374' => 'cav', 'Hma1.2p1_0578F.1_g182520' => 'hma', 'Hma1.2p1_0602F.1_g187350' => 'hma', 'Hma1.2p1_0602F.1_g187360' => 'hma', 'Hma1.2p1_0874F.1_g231320' => 'hma', 'Hma1.2p1_1197F.1_g266210' => 'hma', 'Hma1.2p1_1197F.1_g266220' => 'hma', 'Hma1.2p1_2167F.1_g315895' => 'hma', 'Hma1.2p1_2190F.1_g316640' => 'hma', 'Hma1.2p1_3645F.1_g337153' => 'hma', 'HPP92_004907' => 'vpl', 'HPP92_012134' => 'vpl', 'HPP92_025136' => 'vpl', 'HPP92_026087' => 'vpl', 'Hund06782' => 'sun', 'Hund06784' => 'sun', 'Lalb_Chr01g0004861' => 'lal', 'Lalb_Chr02g0140591' => 'lal', 'Lalb_Chr02g0140611' => 'lal', 'Lalb_Chr03g0028101' => 'lal', 'Lalb_Chr07g0185791' => 'lal', 'Lalb_Chr12g0204491' => 'lal', 'Lalb_Chr13g0295671' => 'lal', 'Lalb_Chr19g0136461' => 'lal', 'Lalb_Chr21g0309191' => 'lal', 'Lj1g0028158' => 'lja', 'Lj1P236T38' => 'lonja', 'Lj2C32G2' => 'lonja', 'Lj2P944T8' => 'lonja', 'Lj2P963T15' => 'lonja', 'Lj3g0011788' => 'lja', 'Lj4g0025027' => 'lja', 'Lj5P255T36' => 'lonja', 'Lj6g0018866' => 'lja', 'Lj6P608T31' => 'lonja', 'LjContig00408g0008879' => 'lja', 'Lsat_1_v5_gn_5_105820' => 'lsa', 'Lsat_1_v5_gn_6_38800' => 'lsa', 'Lsat_1_v5_gn_7_67141' => 'lsa', 'Manes.04G003400' => 'mes', 'Manes.07G020000' => 'mes', 'Manes.07G020100' => 'mes', 'Manes.07G020150' => 'mes', 'Manes.10G061500' => 'mes', 'Manes.10G123200' => 'mes', 'Manes.11G161900' => 'mes', 'Manes.15G029300' => 'mes', 'Mapoly0071s0018' => 'mpo', 'Mapoly0082s0023' => 'mpo', 'Mapoly3477s0001' => 'mpo', 'MBI05_g31233_MAGBIO' => 'mbi', 'MBI09_g05946_MAGBIO' => 'mbi', 'MBI09_g05947_MAGBIO' => 'mbi', 'MBI17_g08346_MAGBIO' => 'mbi', 'MCO04G038' => 'mco', 'MCO09G370' => 'mco', 'MCO13G605' => 'mco', 'MD00G1075500' => 'mdo', 'MD03G1144300' => 'mdo', 'MD08G1236800' => 'mdo', 'MD13G1193300' => 'mdo', 'MD15G1428700' => 'mdo', 'Medtr1g112030' => 'mtr', 'Medtr1g112050' => 'mtr', 'Medtr2g006290' => 'mtr', 'Medtr2g086510' => 'mtr', 'Medtr4g053120' => 'mtr', 'Medtr5g006320' => 'mtr', 'Medtr8g088720' => 'mtr', 'MELO3C004712.2' => 'cme', 'MELO3C006533.2' => 'cme', 'MELO3C019438.2' => 'cme', 'MELO3C019440.2' => 'cme', 'MELO3C019441.2' => 'cme', 'MELO3C019895.2' => 'cme', 'Migut.B00811' => 'egut', 'Migut.D02447' => 'egut', 'Migut.F00875' => 'egut', 'Migut.N00186' => 'egut', 'Migut.N01051' => 'egut', 'Migut.N02491' => 'egut', 'Migut.O00784' => 'egut', 'MSTRG.12367' => 'ama', 'MSTRG.18756' => 'ama', 'MSTRG.21042' => 'ama', 'Nitab4.5_0000559g0040' => 'nta', 'Nitab4.5_0000667g0190' => 'nta', 'Nitab4.5_0000755g0160' => 'nta', 'Nitab4.5_0001216g0080' => 'nta', 'Nitab4.5_0004069g0040' => 'nta', 'Nitab4.5_0004129g0010' => 'nta', 'Nitab4.5_0005744g0030' => 'nta', 'Nitab4.5_0006996g0030' => 'nta', 'Nitab4.5_0008971g0040' => 'nta', 'Nitab4.5_0009769g0020' => 'nta', 'Nitab4.5_0009833g0010' => 'nta', 'Nitab4.5_0013140g0020' => 'nta', 'Nn003s41376' => 'nnu', 'Nn1g01857' => 'nnu', 'Nn1g03611' => 'nnu', 'Nn1g06853' => 'nnu', 'Nn3g18360' => 'nnu', 'Nn4g26328' => 'nnu', 'Nn5g27531' => 'nnu', 'Nn6g34899' => 'nnu', 'Nn7g36299' => 'nnu', 'Oeu021485.1' => 'oeu', 'Oeu022433.1' => 'oeu', 'Oeu032111.1' => 'oeu', 'Oeu051608.1' => 'oeu', 'Os01g0860601' => 'osa', 'Os03g0659200' => 'osa', 'Os03g0835900' => 'osa', 'Os04g0412200' => 'osa', 'Os05g0443500' => 'osa', 'Os07g0251500' => 'osa', 'Os08g0104600' => 'osa', 'Peaxi162Scf00003g00047' => 'pax', 'Peaxi162Scf00003g00052' => 'pax', 'Peaxi162Scf00003g00394' => 'pax', 'Peaxi162Scf00091g00621' => 'pax', 'Peaxi162Scf00152g00146' => 'pax', 'Peaxi162Scf00173g00025' => 'pax', 'Peaxi162Scf00195g00102' => 'pax', 'Peaxi162Scf00402g00013' => 'pax', 'Peaxi162Scf00519g00618' => 'pax', 'PGR004G2838' => 'pgr', 'PGR044G2275' => 'pgr', 'PGR102G1377' => 'pgr', 'PGR119G1245' => 'pgr', 'PGR142G4449' => 'pgr', 'PGSC0003DMG400004532' => 'stu', 'PGSC0003DMG400011950' => 'stu', 'PGSC0003DMG400023391' => 'stu', 'PGSC0003DMG400023985' => 'stu', 'PGSC0003DMG400026360' => 'stu', 'PGSC0003DMG400035711' => 'stu', 'PGSC0003DMG400037286' => 'stu', 'PGSC0003DMG402005881' => 'stu', 'Phvul.002G045400' => 'pvu', 'Phvul.006G216600' => 'pvu', 'Phvul.006G216700' => 'pvu', 'Phvul.006G216800' => 'pvu', 'Phvul.007G022500' => 'pvu', 'Phvul.011G094400' => 'pvu', 'Potri.001G470700' => 'ptr', 'Potri.003G015200' => 'ptr', 'Potri.004G202500' => 'ptr', 'Potri.004G218400' => 'ptr', 'Potri.008G020100' => 'ptr', 'Potri.008G153200' => 'ptr', 'Potri.009G163800' => 'ptr', 'Potri.010G087300' => 'ptr', 'Potri.010G239100' => 'ptr', 'Pp3c10_16100' => 'ppa', 'Pp3c10_16880' => 'ppa', 'Pp3c16_6230' => 'ppa', 'Pp3c17_18910' => 'ppa', 'Pp3c3_22119' => 'ppa', 'Pp3c3_22140' => 'ppa', 'Pp3c4_8159' => 'ppa', 'Pp3c4_8171' => 'ppa', 'Pp3c4_8330' => 'ppa', 'PRCOL_00004098' => 'pco', 'Prupe.1G013900' => 'ppe', 'Prupe.1G226300' => 'ppe', 'Prupe.1G573600' => 'ppe', 'Prupe.6G130100' => 'ppe', 'Psat3g090040' => 'psa', 'Psat4g210440' => 'psa', 'Psat6g231040' => 'psa', 'Psat6g231080' => 'psa', 'Psat7g063000' => 'psa', 'Psat7g188000' => 'psa', 'Psat7g188040' => 'psa', 'PSO017G0206' => 'pso', 'PSO170G0501' => 'pso', 'PSO170G6422' => 'pso', 'PSO210G7739' => 'pso', 'PSO339G1808' => 'pso', 'PSO339G6135' => 'pso', 'PSO384G0010' => 'pso', 'PSO384G0964' => 'pso', 'PSO761G0050' => 'pso', 'PSO782G4085' => 'pso', 'QL01p012264' => 'qlo', 'QL02p099491' => 'qlo', 'QL03p033868' => 'qlo', 'QL04p046678' => 'qlo', 'QL06p002448' => 'qlo', 'RcHm_v2.0_Chr4g0416181' => 'rch', 'RcHm_v2.0_Chr5g0044701' => 'rch', 'RcHm_v2.0_Chr6g0265781' => 'rch', 'RcHm_v2.0_Chr7g0221031' => 'rch', 'Rhsim04G0202000' => 'rsi', 'Rhsim11G0127300' => 'rsi', 'Rhsim13G0111800' => 'rsi', 'Sabra01G0165600' => 'sbr', 'Sabra03G0008300' => 'sbr', 'Sabra04G0136900' => 'sbr', 'Sabra08G0013400' => 'sbr', 'Sabra08G0116800' => 'sbr', 'Sabra09G0128000' => 'sbr', 'Sabra10G0055500' => 'sbr', 'Sabra10G0073300' => 'sbr', 'SalBow3G0385' => 'sbo', 'SalBow3G1119' => 'sbo', 'SalBow3G2005' => 'sbo', 'SalBow6G2563' => 'sbo', 'SalBow6G6386' => 'sbo', 'Sc06g0008800' => 'sci', 'Sc07g0004950' => 'sci', 'Sc09g0005340' => 'sci', 'Sc13g0004410' => 'sci', 'Sc21g0007090' => 'sci', 'Sed0009285' => 'sed', 'Sed0017583' => 'sed', 'Sed0019699' => 'sed', 'Sed0023107' => 'sed', 'SEGI_10916' => 'sgi', 'SEGI_16217' => 'sgi', 'SEGI_19466' => 'sgi', 'SEGI_41115' => 'sgi', 'SGA_v2.0_scaffold111G31534' => 'sas', 'SGA_v2.0_scaffold22G09864' => 'sas', 'SGA_v2.0_scaffold338G49219' => 'sas', 'SGA_v2.0_scaffold92G28298' => 'sas', 'SMO119G0064' => 'smo', 'SMO223G0038' => 'smo', 'SMO347G0584' => 'smo', 'SMO351G0010' => 'smo', 'SMO356G0404' => 'smo', 'Solyc01g103920.3' => 'sly', 'Solyc04g009710.2' => 'sly', 'Solyc05g055280.2' => 'sly', 'Solyc10g044520.3' => 'sly', 'Solyc10g075160.1' => 'sly', 'Solyc11g006910.3' => 'sly', 'Solyc11g068430.3' => 'sly', 'Sopen01g046310' => 'spe', 'Sopen03g001200' => 'spe', 'Sopen04g004830' => 'spe', 'Sopen05g033720' => 'spe', 'Sopen06g030740' => 'spe', 'Sopen10g013090' => 'spe', 'Sopen10g027630' => 'spe', 'Sopen10g027640' => 'spe', 'Sopen11g002820' => 'spe', 'Sopen11g027140' => 'spe', 'Sp1g09680' => 'spa', 'Sp2g03630' => 'spa', 'Sp4g10320' => 'spa', 'Sp6g33400' => 'spa', 'Sp7g13030' => 'spa', 'TAR365G0317' => 'tar', 'TAR376G0979' => 'tar', 'TAR623G1665' => 'tar', 'TAR633G2373' => 'tar', 'TAR636G1400' => 'tar', 'THA.LOC104800529' => 'tha', 'THA.LOC104808547' => 'tha', 'THA.LOC104809615' => 'tha', 'THA.LOC104815724' => 'tha', 'THA.LOC104818480' => 'tha', 'THA.LOC104819179' => 'tha', 'THA.LOC104822270' => 'tha', 'THA.LOC104826425' => 'tha', 'Thecc.02G089700' => 'tca', 'Thecc.04G232300' => 'tca', 'Thecc.09G283400' => 'tca', 'Thhalv10009020m.g' => 'esa', 'Thhalv10015506m.g' => 'esa', 'Thhalv10017364m.g' => 'esa', 'Thhalv10023742m.g' => 'esa', 'Thhalv10026483m.g' => 'esa', 'TPR.G17232' => 'tpr', 'TPR.G2133' => 'tpr', 'TPR.G2498' => 'tpr', 'TPR.G31942' => 'tpr', 'TPR.G37877' => 'tpr', 'TPR.G4571' => 'tpr', 'TWI14G1113' => 'twi', 'TWI15G0426' => 'twi', 'TWI31G1005' => 'twi', 'TWI38G0513' => 'twi', 'TWI38G1484' => 'twi', 'TWI73G1098' => 'twi', 'unitig_26.g10519' => 'ugi', 'unitig_736.g22395' => 'ugi', 'unitig_747.g21234' => 'ugi', 'unitig_747.g21942' => 'ugi', 'vmacro14351' => 'vma', 'VMungo0540G0082' => 'vmu', 'VMungo0540G0405' => 'vmu', 'VMungo0540G1486' => 'vmu', 'VMungo0540G1692' => 'vmu', 'VMungo0720G2473' => 'vmu', 'VMungo1127G1562' => 'vmu', 'VMungo1215G1918' => 'vmu', 'Zm00001eb052650' => 'zma', 'Zm00001eb063710' => 'zma', 'Zm00001eb083950' => 'zma', 'Zm00001eb174420' => 'zma', 'Zm00001eb260140' => 'zma', 'Zm00001eb260150' => 'zma', 'Zm00001eb260160' => 'zma', 'Zm00001eb348290' => 'zma', 'Zm00001eb366870' => 'zma', 'Zm00001eb421930' => 'zma' ) $gf_id = 'HOM05D001025' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001025' ) $data_identifier = 'HOM05D001025' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 19, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 2, 'amhyb' => (int) 4, 'aly' => (int) 4, 'aox' => (int) 4, 'arhy' => (int) 3, 'ath' => (int) 5, 'atr' => (int) 4, 'acertr' => (int) 3, 'cqu' => (int) 7, 'bca' => (int) 17, 'bol' => (int) 10, 'bra' => (int) 9, 'can' => (int) 10, 'cansat' => (int) 6, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 5, 'cbr' => (int) 5, 'ccan' => (int) 5, 'cde' => (int) 4, 'cfa' => (int) 3, 'ccl' => (int) 6, 'cil' => (int) 4, 'cla' => (int) 3, 'col' => (int) 3, 'cpa' => (int) 3, 'cre' => (int) 7, 'csa' => (int) 5, 'camsi' => (int) 9, 'dca' => (int) 4, 'din' => (int) 5, 'dzi' => (int) 7, 'eca' => (int) 6, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 12, 'fve' => (int) 4, 'gma' => (int) 12, 'ghi' => (int) 17, 'gra' => (int) 9, 'vvi' => (int) 2, 'han' => (int) 8, 'cav' => (int) 5, 'hma' => (int) 9, 'vpl' => (int) 4, 'sun' => (int) 2, 'lal' => (int) 9, 'lja' => (int) 5, 'lonja' => (int) 6, 'lsa' => (int) 3, 'mes' => (int) 8, 'mpo' => (int) 3, 'mbi' => (int) 4, 'mco' => (int) 3, 'mdo' => (int) 5, 'mtr' => (int) 7, 'cme' => (int) 6, 'egut' => (int) 7, 'ama' => (int) 3, 'nta' => (int) 12, 'nnu' => (int) 9, 'oeu' => (int) 4, 'osa' => (int) 7, 'pax' => (int) 9, 'pgr' => (int) 5, 'stu' => (int) 8, 'pvu' => (int) 6, 'ptr' => (int) 9, 'ppa' => (int) 9, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 7, 'pso' => (int) 10, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 3, 'sbr' => (int) 8, 'sbo' => (int) 5, 'sci' => (int) 5, 'sed' => (int) 4, 'sgi' => (int) 4, 'sas' => (int) 4, 'smo' => (int) 5, 'sly' => (int) 7, 'spe' => (int) 10, 'spa' => (int) 5, 'tar' => (int) 5, 'tha' => (int) 8, 'tca' => (int) 3, 'esa' => (int) 5, 'tpr' => (int) 6, 'twi' => (int) 6, 'ugi' => (int) 4, 'vma' => (int) 1, 'vmu' => (int) 7, 'zma' => (int) 10 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb421930' $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' => 'HOM05D001025', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '592', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p22650' => 'bna', 'A01p29720' => 'bna', 'A03p26560' => 'bna', 'A03p68820' => 'bna', 'A04p20980' => 'bna', 'A06p07730' => 'bna', 'A07p18260' => 'bna', 'A08p33710' => 'bna', 'A09p16970' => 'bna', 'A10p27490' => 'bna', 'Aa31LG1G17300' => 'aar', 'Aa31LG1G3910' => 'aar', 'Aa31LG2G9630' => 'aar', 'Aa31LG5G8360' => 'aar', 'Aa31LG9G2410' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4699' => 'aag', 'Actinidia23512' => 'ach', 'Actinidia37080' => 'ach', 'Ah.01g020380' => 'amhyb', 'Ah.08g215710' => 'amhyb', 'Ah.09g225110' => 'amhyb', 'Ah.10g036680' => 'amhyb', 'AL1G21940' => 'aly', 'AL2G15540' => 'aly', 'AL4G21520' => 'aly', 'AL7G40960' => 'aly', 'Aqoxy2G01191' => 'aox', 'Aqoxy2G03393' => 'aox', 'Aqoxy4G02775' => 'aox', 'Aqoxy6G00058' => 'aox', 'arahy.Tifrunner.gnm1.ann1.9X74H2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CW3FX9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R485W7' => 'arhy', 'AT1G10960' => 'ath', 'AT1G60950' => 'ath', 'AT2G27510' => 'ath', 'AT4G14890' => 'ath', 'AT5G10000' => 'ath', 'ATR0665G624' => 'atr', 'ATR0697G138' => 'atr', 'ATR0776G046' => 'atr', 'ATR1134G135' => 'atr', 'Atru.chr12.1025' => 'acertr', 'Atru.chr3.3241' => 'acertr', 'Atru.chr4.2460' => 'acertr', 'AUR62007427' => 'cqu', 'AUR62010960' => 'cqu', 'AUR62012201' => 'cqu', 'AUR62021470' => 'cqu', 'AUR62022834' => 'cqu', 'AUR62033635' => 'cqu', 'AUR62036186' => 'cqu', 'BcaB01g03077' => 'bca', 'BcaB02g10093' => 'bca', 'BcaB04g20295' => 'bca', 'BcaB06g28147' => 'bca', 'BcaB07g31253' => 'bca', 'BcaC01g04946' => 'bca', 'BcaC02g10614' => 'bca', 'BcaC02g10885' => 'bca', 'BcaC04g19356' => 'bca', 'BcaC04g22297' => 'bca', 'BcaC05g24977' => 'bca', 'BcaC06g31823' => 'bca', 'BcaC07g38633' => 'bca', 'BcaC09g49353' => 'bca', 'BcaC09g50168' => 'bca', 'BcaNung00322' => 'bca', 'BcaNung04769' => 'bca', 'BolC1t02753H' => 'bol', 'BolC1t03721H' => 'bol', 'BolC3t15525H' => 'bol', 'BolC4t23903H' => 'bol', 'BolC4t24231H' => 'bol', 'BolC4t27209H' => 'bol', 'BolC5t29671H' => 'bol', 'BolC8t49044H' => 'bol', 'BolC9t54999H' => 'bol', 'BolC9t59517H' => 'bol', 'BraA01t02178Z' => 'bra', 'BraA01t03099Z' => 'bra', 'BraA03t11867Z' => 'bra', 'BraA04t17667Z' => 'bra', 'BraA07t29542Z' => 'bra', 'BraA08t35287Z' => 'bra', 'BraA09t37334Z' => 'bra', 'BraA10t44801Z' => 'bra', 'BraSC39t46181Z' => 'bra', 'C01p28240' => 'bna', 'C01p37530' => 'bna', 'C03p31820' => 'bna', 'C04p24080' => 'bna', 'C04p25790' => 'bna', 'C04p56770' => 'bna', 'C05p09310' => 'bna', 'C09p21010' => 'bna', 'C09p67560' => 'bna', 'CAN.G1324.7' => 'can', 'CAN.G1358.10' => 'can', 'CAN.G1550.2' => 'can', 'CAN.G186.56' => 'can', 'CAN.G1965.1' => 'can', 'CAN.G645.15' => 'can', 'CAN.G798.26' => 'can', 'CAN.G798.27' => 'can', 'CAN.G798.29' => 'can', 'CAN.G919.31' => 'can', 'CANSAT11G0133' => 'cansat', 'CANSAT11G1171' => 'cansat', 'CANSAT11G2056' => 'cansat', 'CANSAT56G1202' => 'cansat', 'CANSAT56G1514' => 'cansat', 'CANSAT78G0455' => 'cansat', 'CARHR011190' => 'chi', 'CARHR051980' => 'chi', 'CARHR120170' => 'chi', 'CARHR203310' => 'chi', 'CARHR221490' => 'chi', 'Carub.0001s1054' => 'cru', 'Carub.0002s0431' => 'cru', 'Carub.0004s0818' => 'cru', 'Carub.0006s0846' => 'cru', 'Carub.0007s2722' => 'cru', 'Ca_00058_v3' => 'car', 'Ca_17831_v3' => 'car', 'Ca_19408_v3' => 'car', 'Ca_24397_v3' => 'car', 'Ca_25664_v3' => 'car', 'CBR_g21818' => 'cbr', 'CBR_g31195' => 'cbr', 'CBR_g32282' => 'cbr', 'CBR_g39599' => 'cbr', 'CBR_g49410' => 'cbr', 'Cc01_g09120' => 'ccan', 'Cc01_g09130' => 'ccan', 'Cc02_g09630' => 'ccan', 'Cc02_g22810' => 'ccan', 'Cc03_g03810' => 'ccan', 'CDE02G3718' => 'cde', 'CDE04G3183' => 'cde', 'CDE07G1046' => 'cde', 'CDE08G0480' => 'cde', 'Cfa005493' => 'cfa', 'Cfa010312' => 'cfa', 'Cfa015648' => 'cfa', 'Ciclev10002793m.g' => 'ccl', 'Ciclev10003356m.g' => 'ccl', 'Ciclev10006141m.g' => 'ccl', 'Ciclev10016676m.g' => 'ccl', 'Ciclev10017081m.g' => 'ccl', 'Ciclev10029499m.g' => 'ccl', 'CiPaw.01G166300' => 'cil', 'CiPaw.06G145600' => 'cil', 'CiPaw.13G040100' => 'cil', 'CiPaw.13G135800' => 'cil', 'ClCG01G012230' => 'cla', 'ClCG05G009510' => 'cla', 'ClCG08G008270' => 'cla', 'COL.COLO4_11763' => 'col', 'COL.COLO4_19876' => 'col', 'COL.COLO4_21481' => 'col', 'Cpa.g.sc118.34' => 'cpa', 'Cpa.g.sc32.13' => 'cpa', 'Cpa.g.sc58.103' => 'cpa', 'Cre03.g183850' => 'cre', 'Cre06.g306350' => 'cre', 'Cre07.g334800' => 'cre', 'Cre12.g487900' => 'cre', 'Cre14.g626700' => 'cre', 'Cre16.g658400' => 'cre', 'Cre17.g700950' => 'cre', 'CsaV3_1G014830' => 'csa', 'CsaV3_3G013320' => 'csa', 'CsaV3_3G019210' => 'csa', 'CsaV3_3G019220' => 'csa', 'CsaV3_6G004230' => 'csa', 'CSS0003773' => 'camsi', 'CSS0004563' => 'camsi', 'CSS0013949' => 'camsi', 'CSS0025971' => 'camsi', 'CSS0028570' => 'camsi', 'CSS0033127' => 'camsi', 'CSS0036051' => 'camsi', 'CSS0040087' => 'camsi', 'CSS0043179' => 'camsi', 'DCAR_006161' => 'dca', 'DCAR_010351' => 'dca', 'DCAR_012197' => 'dca', 'DCAR_024162' => 'dca', 'Dinv01030' => 'din', 'Dinv10924' => 'din', 'Dinv11835' => 'din', 'Dinv22841' => 'din', 'Dinv42553' => 'din', 'Duzib052G0560' => 'dzi', 'Duzib132G0389' => 'dzi', 'Duzib150G1181' => 'dzi', 'Duzib168G0623' => 'dzi', 'Duzib170G1036' => 'dzi', 'Duzib212G0200' => 'dzi', 'Duzib248G0194' => 'dzi', 'ECA232G2193' => 'eca', 'ECA233G0302' => 'eca', 'ECA234G2813' => 'eca', 'ECA234G4866' => 'eca', 'ECA240G3932' => 'eca', 'ECA248G0385' => 'eca', 'EL10Ac2g04781' => 'bvu', 'EL10Ac3g06445' => 'bvu', 'EL10Ac7g15825' => 'bvu', 'EL10Ac8g18550' => 'bvu', 'Eucgr.B03849' => 'egr', 'Eucgr.I02744' => 'egr', 'Eucgr.J00264' => 'egr', 'Eucgr.J00493' => 'egr', 'FAN04G2181' => 'fan', 'FAN07G2666' => 'fan', 'FAN11G0024' => 'fan', 'FAN12G1105' => 'fan', 'FAN13G0302' => 'fan', 'FAN15G2781' => 'fan', 'FAN16G1274' => 'fan', 'FAN17G2988' => 'fan', 'FAN18G2621' => 'fan', 'FAN21G0013' => 'fan', 'FAN22G1211' => 'fan', 'FAN25G3626' => 'fan', 'FvH4_2g09491' => 'fve', 'FvH4_3g24910' => 'fve', 'FvH4_4g15630' => 'fve', 'FvH4_5g28820' => 'fve', 'Glyma.01G238000' => 'gma', 'Glyma.05G168400' => 'gma', 'Glyma.08G126800' => 'gma', 'Glyma.08G188500' => 'gma', 'Glyma.10G278900' => 'gma', 'Glyma.11G005700' => 'gma', 'Glyma.11G183300' => 'gma', 'Glyma.12G089200' => 'gma', 'Glyma.12G169400' => 'gma', 'Glyma.12G169500' => 'gma', 'Glyma.12G169600' => 'gma', 'Glyma.20G110800' => 'gma', 'Gohir.A03G192900' => 'ghi', 'Gohir.A03G193000' => 'ghi', 'Gohir.A05G080700' => 'ghi', 'Gohir.A09G216000' => 'ghi', 'Gohir.A12G027700' => 'ghi', 'Gohir.A13G036200' => 'ghi', 'Gohir.A13G222600' => 'ghi', 'Gohir.D02G213900' => 'ghi', 'Gohir.D02G214000' => 'ghi', 'Gohir.D05G083700' => 'ghi', 'Gohir.D05G083800' => 'ghi', 'Gohir.D05G083850' => 'ghi', 'Gohir.D08G015400' => 'ghi', 'Gohir.D09G218400' => 'ghi', 'Gohir.D12G027100' => 'ghi', 'Gohir.D13G034500' => 'ghi', 'Gohir.D13G227400' => 'ghi', 'Gorai.005G241800' => 'gra', 'Gorai.005G241900' => 'gra', 'Gorai.006G239400' => 'gra', 'Gorai.008G027600' => 'gra', 'Gorai.009G085400' => 'gra', 'Gorai.009G085500' => 'gra', 'Gorai.013G039000' => 'gra', 'Gorai.013G194800' => 'gra', 'Gorai.013G257900' => 'gra', 'GSVIVG01000982001' => 'vvi', 'GSVIVG01017981001' => 'vvi', 'HanXRQChr01g0024061' => 'han', 'HanXRQChr09g0247831' => 'han', 'HanXRQChr10g0294611' => 'han', 'HanXRQChr10g0294621' => 'han', 'HanXRQChr11g0346821' => 'han', 'HanXRQChr13g0397461' => 'han', 'HanXRQChr16g0513651' => 'han', 'HanXRQChr16g0513701' => 'han', 'Haze_00897' => 'cav', 'Haze_01745' => 'cav', 'Haze_02486' => 'cav', 'Haze_02487' => 'cav', 'Haze_23374' => 'cav', 'Hma1.2p1_0578F.1_g182520' => 'hma', 'Hma1.2p1_0602F.1_g187350' => 'hma', 'Hma1.2p1_0602F.1_g187360' => 'hma', 'Hma1.2p1_0874F.1_g231320' => 'hma', 'Hma1.2p1_1197F.1_g266210' => 'hma', 'Hma1.2p1_1197F.1_g266220' => 'hma', 'Hma1.2p1_2167F.1_g315895' => 'hma', 'Hma1.2p1_2190F.1_g316640' => 'hma', 'Hma1.2p1_3645F.1_g337153' => 'hma', 'HPP92_004907' => 'vpl', 'HPP92_012134' => 'vpl', 'HPP92_025136' => 'vpl', 'HPP92_026087' => 'vpl', 'Hund06782' => 'sun', 'Hund06784' => 'sun', 'Lalb_Chr01g0004861' => 'lal', 'Lalb_Chr02g0140591' => 'lal', 'Lalb_Chr02g0140611' => 'lal', 'Lalb_Chr03g0028101' => 'lal', 'Lalb_Chr07g0185791' => 'lal', 'Lalb_Chr12g0204491' => 'lal', 'Lalb_Chr13g0295671' => 'lal', 'Lalb_Chr19g0136461' => 'lal', 'Lalb_Chr21g0309191' => 'lal', 'Lj1g0028158' => 'lja', 'Lj1P236T38' => 'lonja', 'Lj2C32G2' => 'lonja', 'Lj2P944T8' => 'lonja', 'Lj2P963T15' => 'lonja', 'Lj3g0011788' => 'lja', 'Lj4g0025027' => 'lja', 'Lj5P255T36' => 'lonja', 'Lj6g0018866' => 'lja', 'Lj6P608T31' => 'lonja', 'LjContig00408g0008879' => 'lja', 'Lsat_1_v5_gn_5_105820' => 'lsa', 'Lsat_1_v5_gn_6_38800' => 'lsa', 'Lsat_1_v5_gn_7_67141' => 'lsa', 'Manes.04G003400' => 'mes', 'Manes.07G020000' => 'mes', 'Manes.07G020100' => 'mes', 'Manes.07G020150' => 'mes', 'Manes.10G061500' => 'mes', 'Manes.10G123200' => 'mes', 'Manes.11G161900' => 'mes', 'Manes.15G029300' => 'mes', 'Mapoly0071s0018' => 'mpo', 'Mapoly0082s0023' => 'mpo', 'Mapoly3477s0001' => 'mpo', 'MBI05_g31233_MAGBIO' => 'mbi', 'MBI09_g05946_MAGBIO' => 'mbi', 'MBI09_g05947_MAGBIO' => 'mbi', 'MBI17_g08346_MAGBIO' => 'mbi', 'MCO04G038' => 'mco', 'MCO09G370' => 'mco', 'MCO13G605' => 'mco', 'MD00G1075500' => 'mdo', 'MD03G1144300' => 'mdo', 'MD08G1236800' => 'mdo', 'MD13G1193300' => 'mdo', 'MD15G1428700' => 'mdo', 'Medtr1g112030' => 'mtr', 'Medtr1g112050' => 'mtr', 'Medtr2g006290' => 'mtr', 'Medtr2g086510' => 'mtr', 'Medtr4g053120' => 'mtr', 'Medtr5g006320' => 'mtr', 'Medtr8g088720' => 'mtr', 'MELO3C004712.2' => 'cme', 'MELO3C006533.2' => 'cme', 'MELO3C019438.2' => 'cme', 'MELO3C019440.2' => 'cme', 'MELO3C019441.2' => 'cme', 'MELO3C019895.2' => 'cme', 'Migut.B00811' => 'egut', 'Migut.D02447' => 'egut', 'Migut.F00875' => 'egut', 'Migut.N00186' => 'egut', 'Migut.N01051' => 'egut', 'Migut.N02491' => 'egut', 'Migut.O00784' => 'egut', 'MSTRG.12367' => 'ama', 'MSTRG.18756' => 'ama', 'MSTRG.21042' => 'ama', 'Nitab4.5_0000559g0040' => 'nta', 'Nitab4.5_0000667g0190' => 'nta', 'Nitab4.5_0000755g0160' => 'nta', 'Nitab4.5_0001216g0080' => 'nta', 'Nitab4.5_0004069g0040' => 'nta', 'Nitab4.5_0004129g0010' => 'nta', 'Nitab4.5_0005744g0030' => 'nta', 'Nitab4.5_0006996g0030' => 'nta', 'Nitab4.5_0008971g0040' => 'nta', 'Nitab4.5_0009769g0020' => 'nta', 'Nitab4.5_0009833g0010' => 'nta', 'Nitab4.5_0013140g0020' => 'nta', 'Nn003s41376' => 'nnu', 'Nn1g01857' => 'nnu', 'Nn1g03611' => 'nnu', 'Nn1g06853' => 'nnu', 'Nn3g18360' => 'nnu', 'Nn4g26328' => 'nnu', 'Nn5g27531' => 'nnu', 'Nn6g34899' => 'nnu', 'Nn7g36299' => 'nnu', 'Oeu021485.1' => 'oeu', 'Oeu022433.1' => 'oeu', 'Oeu032111.1' => 'oeu', 'Oeu051608.1' => 'oeu', 'Os01g0860601' => 'osa', 'Os03g0659200' => 'osa', 'Os03g0835900' => 'osa', 'Os04g0412200' => 'osa', 'Os05g0443500' => 'osa', 'Os07g0251500' => 'osa', 'Os08g0104600' => 'osa', 'Peaxi162Scf00003g00047' => 'pax', 'Peaxi162Scf00003g00052' => 'pax', 'Peaxi162Scf00003g00394' => 'pax', 'Peaxi162Scf00091g00621' => 'pax', 'Peaxi162Scf00152g00146' => 'pax', 'Peaxi162Scf00173g00025' => 'pax', 'Peaxi162Scf00195g00102' => 'pax', 'Peaxi162Scf00402g00013' => 'pax', 'Peaxi162Scf00519g00618' => 'pax', 'PGR004G2838' => 'pgr', 'PGR044G2275' => 'pgr', 'PGR102G1377' => 'pgr', 'PGR119G1245' => 'pgr', 'PGR142G4449' => 'pgr', 'PGSC0003DMG400004532' => 'stu', 'PGSC0003DMG400011950' => 'stu', 'PGSC0003DMG400023391' => 'stu', 'PGSC0003DMG400023985' => 'stu', 'PGSC0003DMG400026360' => 'stu', 'PGSC0003DMG400035711' => 'stu', 'PGSC0003DMG400037286' => 'stu', 'PGSC0003DMG402005881' => 'stu', 'Phvul.002G045400' => 'pvu', 'Phvul.006G216600' => 'pvu', 'Phvul.006G216700' => 'pvu', 'Phvul.006G216800' => 'pvu', 'Phvul.007G022500' => 'pvu', 'Phvul.011G094400' => 'pvu', 'Potri.001G470700' => 'ptr', 'Potri.003G015200' => 'ptr', 'Potri.004G202500' => 'ptr', 'Potri.004G218400' => 'ptr', 'Potri.008G020100' => 'ptr', 'Potri.008G153200' => 'ptr', 'Potri.009G163800' => 'ptr', 'Potri.010G087300' => 'ptr', 'Potri.010G239100' => 'ptr', 'Pp3c10_16100' => 'ppa', 'Pp3c10_16880' => 'ppa', 'Pp3c16_6230' => 'ppa', 'Pp3c17_18910' => 'ppa', 'Pp3c3_22119' => 'ppa', 'Pp3c3_22140' => 'ppa', 'Pp3c4_8159' => 'ppa', 'Pp3c4_8171' => 'ppa', 'Pp3c4_8330' => 'ppa', 'PRCOL_00004098' => 'pco', 'Prupe.1G013900' => 'ppe', 'Prupe.1G226300' => 'ppe', 'Prupe.1G573600' => 'ppe', 'Prupe.6G130100' => 'ppe', 'Psat3g090040' => 'psa', 'Psat4g210440' => 'psa', 'Psat6g231040' => 'psa', 'Psat6g231080' => 'psa', 'Psat7g063000' => 'psa', 'Psat7g188000' => 'psa', 'Psat7g188040' => 'psa', 'PSO017G0206' => 'pso', 'PSO170G0501' => 'pso', 'PSO170G6422' => 'pso', 'PSO210G7739' => 'pso', 'PSO339G1808' => 'pso', 'PSO339G6135' => 'pso', 'PSO384G0010' => 'pso', 'PSO384G0964' => 'pso', 'PSO761G0050' => 'pso', 'PSO782G4085' => 'pso', 'QL01p012264' => 'qlo', 'QL02p099491' => 'qlo', 'QL03p033868' => 'qlo', 'QL04p046678' => 'qlo', 'QL06p002448' => 'qlo', 'RcHm_v2.0_Chr4g0416181' => 'rch', 'RcHm_v2.0_Chr5g0044701' => 'rch', 'RcHm_v2.0_Chr6g0265781' => 'rch', 'RcHm_v2.0_Chr7g0221031' => 'rch', 'Rhsim04G0202000' => 'rsi', 'Rhsim11G0127300' => 'rsi', 'Rhsim13G0111800' => 'rsi', 'Sabra01G0165600' => 'sbr', 'Sabra03G0008300' => 'sbr', 'Sabra04G0136900' => 'sbr', 'Sabra08G0013400' => 'sbr', 'Sabra08G0116800' => 'sbr', 'Sabra09G0128000' => 'sbr', 'Sabra10G0055500' => 'sbr', 'Sabra10G0073300' => 'sbr', 'SalBow3G0385' => 'sbo', 'SalBow3G1119' => 'sbo', 'SalBow3G2005' => 'sbo', 'SalBow6G2563' => 'sbo', 'SalBow6G6386' => 'sbo', 'Sc06g0008800' => 'sci', 'Sc07g0004950' => 'sci', 'Sc09g0005340' => 'sci', 'Sc13g0004410' => 'sci', 'Sc21g0007090' => 'sci', 'Sed0009285' => 'sed', 'Sed0017583' => 'sed', 'Sed0019699' => 'sed', 'Sed0023107' => 'sed', 'SEGI_10916' => 'sgi', 'SEGI_16217' => 'sgi', 'SEGI_19466' => 'sgi', 'SEGI_41115' => 'sgi', 'SGA_v2.0_scaffold111G31534' => 'sas', 'SGA_v2.0_scaffold22G09864' => 'sas', 'SGA_v2.0_scaffold338G49219' => 'sas', 'SGA_v2.0_scaffold92G28298' => 'sas', 'SMO119G0064' => 'smo', 'SMO223G0038' => 'smo', 'SMO347G0584' => 'smo', 'SMO351G0010' => 'smo', 'SMO356G0404' => 'smo', 'Solyc01g103920.3' => 'sly', 'Solyc04g009710.2' => 'sly', 'Solyc05g055280.2' => 'sly', 'Solyc10g044520.3' => 'sly', 'Solyc10g075160.1' => 'sly', 'Solyc11g006910.3' => 'sly', 'Solyc11g068430.3' => 'sly', 'Sopen01g046310' => 'spe', 'Sopen03g001200' => 'spe', 'Sopen04g004830' => 'spe', 'Sopen05g033720' => 'spe', 'Sopen06g030740' => 'spe', 'Sopen10g013090' => 'spe', 'Sopen10g027630' => 'spe', 'Sopen10g027640' => 'spe', 'Sopen11g002820' => 'spe', 'Sopen11g027140' => 'spe', 'Sp1g09680' => 'spa', 'Sp2g03630' => 'spa', 'Sp4g10320' => 'spa', 'Sp6g33400' => 'spa', 'Sp7g13030' => 'spa', 'TAR365G0317' => 'tar', 'TAR376G0979' => 'tar', 'TAR623G1665' => 'tar', 'TAR633G2373' => 'tar', 'TAR636G1400' => 'tar', 'THA.LOC104800529' => 'tha', 'THA.LOC104808547' => 'tha', 'THA.LOC104809615' => 'tha', 'THA.LOC104815724' => 'tha', 'THA.LOC104818480' => 'tha', 'THA.LOC104819179' => 'tha', 'THA.LOC104822270' => 'tha', 'THA.LOC104826425' => 'tha', 'Thecc.02G089700' => 'tca', 'Thecc.04G232300' => 'tca', 'Thecc.09G283400' => 'tca', 'Thhalv10009020m.g' => 'esa', 'Thhalv10015506m.g' => 'esa', 'Thhalv10017364m.g' => 'esa', 'Thhalv10023742m.g' => 'esa', 'Thhalv10026483m.g' => 'esa', 'TPR.G17232' => 'tpr', 'TPR.G2133' => 'tpr', 'TPR.G2498' => 'tpr', 'TPR.G31942' => 'tpr', 'TPR.G37877' => 'tpr', 'TPR.G4571' => 'tpr', 'TWI14G1113' => 'twi', 'TWI15G0426' => 'twi', 'TWI31G1005' => 'twi', 'TWI38G0513' => 'twi', 'TWI38G1484' => 'twi', 'TWI73G1098' => 'twi', 'unitig_26.g10519' => 'ugi', 'unitig_736.g22395' => 'ugi', 'unitig_747.g21234' => 'ugi', 'unitig_747.g21942' => 'ugi', 'vmacro14351' => 'vma', 'VMungo0540G0082' => 'vmu', 'VMungo0540G0405' => 'vmu', 'VMungo0540G1486' => 'vmu', 'VMungo0540G1692' => 'vmu', 'VMungo0720G2473' => 'vmu', 'VMungo1127G1562' => 'vmu', 'VMungo1215G1918' => 'vmu', 'Zm00001eb052650' => 'zma', 'Zm00001eb063710' => 'zma', 'Zm00001eb083950' => 'zma', 'Zm00001eb174420' => 'zma', 'Zm00001eb260140' => 'zma', 'Zm00001eb260150' => 'zma', 'Zm00001eb260160' => 'zma', 'Zm00001eb348290' => 'zma', 'Zm00001eb366870' => 'zma', 'Zm00001eb421930' => 'zma' ), 'gf_id' => 'HOM05D001025', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001025' ), 'data_identifier' => 'HOM05D001025', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001025', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '592', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p22650' => 'bna', 'A01p29720' => 'bna', 'A03p26560' => 'bna', 'A03p68820' => 'bna', 'A04p20980' => 'bna', 'A06p07730' => 'bna', 'A07p18260' => 'bna', 'A08p33710' => 'bna', 'A09p16970' => 'bna', 'A10p27490' => 'bna', 'Aa31LG1G17300' => 'aar', 'Aa31LG1G3910' => 'aar', 'Aa31LG2G9630' => 'aar', 'Aa31LG5G8360' => 'aar', 'Aa31LG9G2410' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4699' => 'aag', 'Actinidia23512' => 'ach', 'Actinidia37080' => 'ach', 'Ah.01g020380' => 'amhyb', 'Ah.08g215710' => 'amhyb', 'Ah.09g225110' => 'amhyb', 'Ah.10g036680' => 'amhyb', 'AL1G21940' => 'aly', 'AL2G15540' => 'aly', 'AL4G21520' => 'aly', 'AL7G40960' => 'aly', 'Aqoxy2G01191' => 'aox', 'Aqoxy2G03393' => 'aox', 'Aqoxy4G02775' => 'aox', 'Aqoxy6G00058' => 'aox', 'arahy.Tifrunner.gnm1.ann1.9X74H2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CW3FX9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R485W7' => 'arhy', 'AT1G10960' => 'ath', 'AT1G60950' => 'ath', 'AT2G27510' => 'ath', 'AT4G14890' => 'ath', 'AT5G10000' => 'ath', 'ATR0665G624' => 'atr', 'ATR0697G138' => 'atr', 'ATR0776G046' => 'atr', 'ATR1134G135' => 'atr', 'Atru.chr12.1025' => 'acertr', 'Atru.chr3.3241' => 'acertr', 'Atru.chr4.2460' => 'acertr', 'AUR62007427' => 'cqu', 'AUR62010960' => 'cqu', 'AUR62012201' => 'cqu', 'AUR62021470' => 'cqu', 'AUR62022834' => 'cqu', 'AUR62033635' => 'cqu', 'AUR62036186' => 'cqu', 'BcaB01g03077' => 'bca', 'BcaB02g10093' => 'bca', 'BcaB04g20295' => 'bca', 'BcaB06g28147' => 'bca', 'BcaB07g31253' => 'bca', 'BcaC01g04946' => 'bca', 'BcaC02g10614' => 'bca', 'BcaC02g10885' => 'bca', 'BcaC04g19356' => 'bca', 'BcaC04g22297' => 'bca', 'BcaC05g24977' => 'bca', 'BcaC06g31823' => 'bca', 'BcaC07g38633' => 'bca', 'BcaC09g49353' => 'bca', 'BcaC09g50168' => 'bca', 'BcaNung00322' => 'bca', 'BcaNung04769' => 'bca', 'BolC1t02753H' => 'bol', 'BolC1t03721H' => 'bol', 'BolC3t15525H' => 'bol', 'BolC4t23903H' => 'bol', 'BolC4t24231H' => 'bol', 'BolC4t27209H' => 'bol', 'BolC5t29671H' => 'bol', 'BolC8t49044H' => 'bol', 'BolC9t54999H' => 'bol', 'BolC9t59517H' => 'bol', 'BraA01t02178Z' => 'bra', 'BraA01t03099Z' => 'bra', 'BraA03t11867Z' => 'bra', 'BraA04t17667Z' => 'bra', 'BraA07t29542Z' => 'bra', 'BraA08t35287Z' => 'bra', 'BraA09t37334Z' => 'bra', 'BraA10t44801Z' => 'bra', 'BraSC39t46181Z' => 'bra', 'C01p28240' => 'bna', 'C01p37530' => 'bna', 'C03p31820' => 'bna', 'C04p24080' => 'bna', 'C04p25790' => 'bna', 'C04p56770' => 'bna', 'C05p09310' => 'bna', 'C09p21010' => 'bna', 'C09p67560' => 'bna', 'CAN.G1324.7' => 'can', 'CAN.G1358.10' => 'can', 'CAN.G1550.2' => 'can', 'CAN.G186.56' => 'can', 'CAN.G1965.1' => 'can', 'CAN.G645.15' => 'can', 'CAN.G798.26' => 'can', 'CAN.G798.27' => 'can', 'CAN.G798.29' => 'can', 'CAN.G919.31' => 'can', 'CANSAT11G0133' => 'cansat', 'CANSAT11G1171' => 'cansat', 'CANSAT11G2056' => 'cansat', 'CANSAT56G1202' => 'cansat', 'CANSAT56G1514' => 'cansat', 'CANSAT78G0455' => 'cansat', 'CARHR011190' => 'chi', 'CARHR051980' => 'chi', 'CARHR120170' => 'chi', 'CARHR203310' => 'chi', 'CARHR221490' => 'chi', 'Carub.0001s1054' => 'cru', 'Carub.0002s0431' => 'cru', 'Carub.0004s0818' => 'cru', 'Carub.0006s0846' => 'cru', 'Carub.0007s2722' => 'cru', 'Ca_00058_v3' => 'car', 'Ca_17831_v3' => 'car', 'Ca_19408_v3' => 'car', 'Ca_24397_v3' => 'car', 'Ca_25664_v3' => 'car', 'CBR_g21818' => 'cbr', 'CBR_g31195' => 'cbr', 'CBR_g32282' => 'cbr', 'CBR_g39599' => 'cbr', 'CBR_g49410' => 'cbr', 'Cc01_g09120' => 'ccan', 'Cc01_g09130' => 'ccan', 'Cc02_g09630' => 'ccan', 'Cc02_g22810' => 'ccan', 'Cc03_g03810' => 'ccan', 'CDE02G3718' => 'cde', 'CDE04G3183' => 'cde', 'CDE07G1046' => 'cde', 'CDE08G0480' => 'cde', 'Cfa005493' => 'cfa', 'Cfa010312' => 'cfa', 'Cfa015648' => 'cfa', 'Ciclev10002793m.g' => 'ccl', 'Ciclev10003356m.g' => 'ccl', 'Ciclev10006141m.g' => 'ccl', 'Ciclev10016676m.g' => 'ccl', 'Ciclev10017081m.g' => 'ccl', 'Ciclev10029499m.g' => 'ccl', 'CiPaw.01G166300' => 'cil', 'CiPaw.06G145600' => 'cil', 'CiPaw.13G040100' => 'cil', 'CiPaw.13G135800' => 'cil', 'ClCG01G012230' => 'cla', 'ClCG05G009510' => 'cla', 'ClCG08G008270' => 'cla', 'COL.COLO4_11763' => 'col', 'COL.COLO4_19876' => 'col', 'COL.COLO4_21481' => 'col', 'Cpa.g.sc118.34' => 'cpa', 'Cpa.g.sc32.13' => 'cpa', 'Cpa.g.sc58.103' => 'cpa', 'Cre03.g183850' => 'cre', 'Cre06.g306350' => 'cre', 'Cre07.g334800' => 'cre', 'Cre12.g487900' => 'cre', 'Cre14.g626700' => 'cre', 'Cre16.g658400' => 'cre', 'Cre17.g700950' => 'cre', 'CsaV3_1G014830' => 'csa', 'CsaV3_3G013320' => 'csa', 'CsaV3_3G019210' => 'csa', 'CsaV3_3G019220' => 'csa', 'CsaV3_6G004230' => 'csa', 'CSS0003773' => 'camsi', 'CSS0004563' => 'camsi', 'CSS0013949' => 'camsi', 'CSS0025971' => 'camsi', 'CSS0028570' => 'camsi', 'CSS0033127' => 'camsi', 'CSS0036051' => 'camsi', 'CSS0040087' => 'camsi', 'CSS0043179' => 'camsi', 'DCAR_006161' => 'dca', 'DCAR_010351' => 'dca', 'DCAR_012197' => 'dca', 'DCAR_024162' => 'dca', 'Dinv01030' => 'din', 'Dinv10924' => 'din', 'Dinv11835' => 'din', 'Dinv22841' => 'din', 'Dinv42553' => 'din', 'Duzib052G0560' => 'dzi', 'Duzib132G0389' => 'dzi', 'Duzib150G1181' => 'dzi', 'Duzib168G0623' => 'dzi', 'Duzib170G1036' => 'dzi', 'Duzib212G0200' => 'dzi', 'Duzib248G0194' => 'dzi', 'ECA232G2193' => 'eca', 'ECA233G0302' => 'eca', 'ECA234G2813' => 'eca', 'ECA234G4866' => 'eca', 'ECA240G3932' => 'eca', 'ECA248G0385' => 'eca', 'EL10Ac2g04781' => 'bvu', 'EL10Ac3g06445' => 'bvu', 'EL10Ac7g15825' => 'bvu', 'EL10Ac8g18550' => 'bvu', 'Eucgr.B03849' => 'egr', 'Eucgr.I02744' => 'egr', 'Eucgr.J00264' => 'egr', 'Eucgr.J00493' => 'egr', 'FAN04G2181' => 'fan', 'FAN07G2666' => 'fan', 'FAN11G0024' => 'fan', 'FAN12G1105' => 'fan', 'FAN13G0302' => 'fan', 'FAN15G2781' => 'fan', 'FAN16G1274' => 'fan', 'FAN17G2988' => 'fan', 'FAN18G2621' => 'fan', 'FAN21G0013' => 'fan', 'FAN22G1211' => 'fan', 'FAN25G3626' => 'fan', 'FvH4_2g09491' => 'fve', 'FvH4_3g24910' => 'fve', 'FvH4_4g15630' => 'fve', 'FvH4_5g28820' => 'fve', 'Glyma.01G238000' => 'gma', 'Glyma.05G168400' => 'gma', 'Glyma.08G126800' => 'gma', 'Glyma.08G188500' => 'gma', 'Glyma.10G278900' => 'gma', 'Glyma.11G005700' => 'gma', 'Glyma.11G183300' => 'gma', 'Glyma.12G089200' => 'gma', 'Glyma.12G169400' => 'gma', 'Glyma.12G169500' => 'gma', 'Glyma.12G169600' => 'gma', 'Glyma.20G110800' => 'gma', 'Gohir.A03G192900' => 'ghi', 'Gohir.A03G193000' => 'ghi', 'Gohir.A05G080700' => 'ghi', 'Gohir.A09G216000' => 'ghi', 'Gohir.A12G027700' => 'ghi', 'Gohir.A13G036200' => 'ghi', 'Gohir.A13G222600' => 'ghi', 'Gohir.D02G213900' => 'ghi', 'Gohir.D02G214000' => 'ghi', 'Gohir.D05G083700' => 'ghi', 'Gohir.D05G083800' => 'ghi', 'Gohir.D05G083850' => 'ghi', 'Gohir.D08G015400' => 'ghi', 'Gohir.D09G218400' => 'ghi', 'Gohir.D12G027100' => 'ghi', 'Gohir.D13G034500' => 'ghi', 'Gohir.D13G227400' => 'ghi', 'Gorai.005G241800' => 'gra', 'Gorai.005G241900' => 'gra', 'Gorai.006G239400' => 'gra', 'Gorai.008G027600' => 'gra', 'Gorai.009G085400' => 'gra', 'Gorai.009G085500' => 'gra', 'Gorai.013G039000' => 'gra', 'Gorai.013G194800' => 'gra', 'Gorai.013G257900' => 'gra', 'GSVIVG01000982001' => 'vvi', 'GSVIVG01017981001' => 'vvi', 'HanXRQChr01g0024061' => 'han', 'HanXRQChr09g0247831' => 'han', 'HanXRQChr10g0294611' => 'han', 'HanXRQChr10g0294621' => 'han', 'HanXRQChr11g0346821' => 'han', 'HanXRQChr13g0397461' => 'han', 'HanXRQChr16g0513651' => 'han', 'HanXRQChr16g0513701' => 'han', 'Haze_00897' => 'cav', 'Haze_01745' => 'cav', 'Haze_02486' => 'cav', 'Haze_02487' => 'cav', 'Haze_23374' => 'cav', 'Hma1.2p1_0578F.1_g182520' => 'hma', 'Hma1.2p1_0602F.1_g187350' => 'hma', 'Hma1.2p1_0602F.1_g187360' => 'hma', 'Hma1.2p1_0874F.1_g231320' => 'hma', 'Hma1.2p1_1197F.1_g266210' => 'hma', 'Hma1.2p1_1197F.1_g266220' => 'hma', 'Hma1.2p1_2167F.1_g315895' => 'hma', 'Hma1.2p1_2190F.1_g316640' => 'hma', 'Hma1.2p1_3645F.1_g337153' => 'hma', 'HPP92_004907' => 'vpl', 'HPP92_012134' => 'vpl', 'HPP92_025136' => 'vpl', 'HPP92_026087' => 'vpl', 'Hund06782' => 'sun', 'Hund06784' => 'sun', 'Lalb_Chr01g0004861' => 'lal', 'Lalb_Chr02g0140591' => 'lal', 'Lalb_Chr02g0140611' => 'lal', 'Lalb_Chr03g0028101' => 'lal', 'Lalb_Chr07g0185791' => 'lal', 'Lalb_Chr12g0204491' => 'lal', 'Lalb_Chr13g0295671' => 'lal', 'Lalb_Chr19g0136461' => 'lal', 'Lalb_Chr21g0309191' => 'lal', 'Lj1g0028158' => 'lja', 'Lj1P236T38' => 'lonja', 'Lj2C32G2' => 'lonja', 'Lj2P944T8' => 'lonja', 'Lj2P963T15' => 'lonja', 'Lj3g0011788' => 'lja', 'Lj4g0025027' => 'lja', 'Lj5P255T36' => 'lonja', 'Lj6g0018866' => 'lja', 'Lj6P608T31' => 'lonja', 'LjContig00408g0008879' => 'lja', 'Lsat_1_v5_gn_5_105820' => 'lsa', 'Lsat_1_v5_gn_6_38800' => 'lsa', 'Lsat_1_v5_gn_7_67141' => 'lsa', 'Manes.04G003400' => 'mes', 'Manes.07G020000' => 'mes', 'Manes.07G020100' => 'mes', 'Manes.07G020150' => 'mes', 'Manes.10G061500' => 'mes', 'Manes.10G123200' => 'mes', 'Manes.11G161900' => 'mes', 'Manes.15G029300' => 'mes', 'Mapoly0071s0018' => 'mpo', 'Mapoly0082s0023' => 'mpo', 'Mapoly3477s0001' => 'mpo', 'MBI05_g31233_MAGBIO' => 'mbi', 'MBI09_g05946_MAGBIO' => 'mbi', 'MBI09_g05947_MAGBIO' => 'mbi', 'MBI17_g08346_MAGBIO' => 'mbi', 'MCO04G038' => 'mco', 'MCO09G370' => 'mco', 'MCO13G605' => 'mco', 'MD00G1075500' => 'mdo', 'MD03G1144300' => 'mdo', 'MD08G1236800' => 'mdo', 'MD13G1193300' => 'mdo', 'MD15G1428700' => 'mdo', 'Medtr1g112030' => 'mtr', 'Medtr1g112050' => 'mtr', 'Medtr2g006290' => 'mtr', 'Medtr2g086510' => 'mtr', 'Medtr4g053120' => 'mtr', 'Medtr5g006320' => 'mtr', 'Medtr8g088720' => 'mtr', 'MELO3C004712.2' => 'cme', 'MELO3C006533.2' => 'cme', 'MELO3C019438.2' => 'cme', 'MELO3C019440.2' => 'cme', 'MELO3C019441.2' => 'cme', 'MELO3C019895.2' => 'cme', 'Migut.B00811' => 'egut', 'Migut.D02447' => 'egut', 'Migut.F00875' => 'egut', 'Migut.N00186' => 'egut', 'Migut.N01051' => 'egut', 'Migut.N02491' => 'egut', 'Migut.O00784' => 'egut', 'MSTRG.12367' => 'ama', 'MSTRG.18756' => 'ama', 'MSTRG.21042' => 'ama', 'Nitab4.5_0000559g0040' => 'nta', 'Nitab4.5_0000667g0190' => 'nta', 'Nitab4.5_0000755g0160' => 'nta', 'Nitab4.5_0001216g0080' => 'nta', 'Nitab4.5_0004069g0040' => 'nta', 'Nitab4.5_0004129g0010' => 'nta', 'Nitab4.5_0005744g0030' => 'nta', 'Nitab4.5_0006996g0030' => 'nta', 'Nitab4.5_0008971g0040' => 'nta', 'Nitab4.5_0009769g0020' => 'nta', 'Nitab4.5_0009833g0010' => 'nta', 'Nitab4.5_0013140g0020' => 'nta', 'Nn003s41376' => 'nnu', 'Nn1g01857' => 'nnu', 'Nn1g03611' => 'nnu', 'Nn1g06853' => 'nnu', 'Nn3g18360' => 'nnu', 'Nn4g26328' => 'nnu', 'Nn5g27531' => 'nnu', 'Nn6g34899' => 'nnu', 'Nn7g36299' => 'nnu', 'Oeu021485.1' => 'oeu', 'Oeu022433.1' => 'oeu', 'Oeu032111.1' => 'oeu', 'Oeu051608.1' => 'oeu', 'Os01g0860601' => 'osa', 'Os03g0659200' => 'osa', 'Os03g0835900' => 'osa', 'Os04g0412200' => 'osa', 'Os05g0443500' => 'osa', 'Os07g0251500' => 'osa', 'Os08g0104600' => 'osa', 'Peaxi162Scf00003g00047' => 'pax', 'Peaxi162Scf00003g00052' => 'pax', 'Peaxi162Scf00003g00394' => 'pax', 'Peaxi162Scf00091g00621' => 'pax', 'Peaxi162Scf00152g00146' => 'pax', 'Peaxi162Scf00173g00025' => 'pax', 'Peaxi162Scf00195g00102' => 'pax', 'Peaxi162Scf00402g00013' => 'pax', 'Peaxi162Scf00519g00618' => 'pax', 'PGR004G2838' => 'pgr', 'PGR044G2275' => 'pgr', 'PGR102G1377' => 'pgr', 'PGR119G1245' => 'pgr', 'PGR142G4449' => 'pgr', 'PGSC0003DMG400004532' => 'stu', 'PGSC0003DMG400011950' => 'stu', 'PGSC0003DMG400023391' => 'stu', 'PGSC0003DMG400023985' => 'stu', 'PGSC0003DMG400026360' => 'stu', 'PGSC0003DMG400035711' => 'stu', 'PGSC0003DMG400037286' => 'stu', 'PGSC0003DMG402005881' => 'stu', 'Phvul.002G045400' => 'pvu', 'Phvul.006G216600' => 'pvu', 'Phvul.006G216700' => 'pvu', 'Phvul.006G216800' => 'pvu', 'Phvul.007G022500' => 'pvu', 'Phvul.011G094400' => 'pvu', 'Potri.001G470700' => 'ptr', 'Potri.003G015200' => 'ptr', 'Potri.004G202500' => 'ptr', 'Potri.004G218400' => 'ptr', 'Potri.008G020100' => 'ptr', 'Potri.008G153200' => 'ptr', 'Potri.009G163800' => 'ptr', 'Potri.010G087300' => 'ptr', 'Potri.010G239100' => 'ptr', 'Pp3c10_16100' => 'ppa', 'Pp3c10_16880' => 'ppa', 'Pp3c16_6230' => 'ppa', 'Pp3c17_18910' => 'ppa', 'Pp3c3_22119' => 'ppa', 'Pp3c3_22140' => 'ppa', 'Pp3c4_8159' => 'ppa', 'Pp3c4_8171' => 'ppa', 'Pp3c4_8330' => 'ppa', 'PRCOL_00004098' => 'pco', 'Prupe.1G013900' => 'ppe', 'Prupe.1G226300' => 'ppe', 'Prupe.1G573600' => 'ppe', 'Prupe.6G130100' => 'ppe', 'Psat3g090040' => 'psa', 'Psat4g210440' => 'psa', 'Psat6g231040' => 'psa', 'Psat6g231080' => 'psa', 'Psat7g063000' => 'psa', 'Psat7g188000' => 'psa', 'Psat7g188040' => 'psa', 'PSO017G0206' => 'pso', 'PSO170G0501' => 'pso', 'PSO170G6422' => 'pso', 'PSO210G7739' => 'pso', 'PSO339G1808' => 'pso', 'PSO339G6135' => 'pso', 'PSO384G0010' => 'pso', 'PSO384G0964' => 'pso', 'PSO761G0050' => 'pso', 'PSO782G4085' => 'pso', 'QL01p012264' => 'qlo', 'QL02p099491' => 'qlo', 'QL03p033868' => 'qlo', 'QL04p046678' => 'qlo', 'QL06p002448' => 'qlo', 'RcHm_v2.0_Chr4g0416181' => 'rch', 'RcHm_v2.0_Chr5g0044701' => 'rch', 'RcHm_v2.0_Chr6g0265781' => 'rch', 'RcHm_v2.0_Chr7g0221031' => 'rch', 'Rhsim04G0202000' => 'rsi', 'Rhsim11G0127300' => 'rsi', 'Rhsim13G0111800' => 'rsi', 'Sabra01G0165600' => 'sbr', 'Sabra03G0008300' => 'sbr', 'Sabra04G0136900' => 'sbr', 'Sabra08G0013400' => 'sbr', 'Sabra08G0116800' => 'sbr', 'Sabra09G0128000' => 'sbr', 'Sabra10G0055500' => 'sbr', 'Sabra10G0073300' => 'sbr', 'SalBow3G0385' => 'sbo', 'SalBow3G1119' => 'sbo', 'SalBow3G2005' => 'sbo', 'SalBow6G2563' => 'sbo', 'SalBow6G6386' => 'sbo', 'Sc06g0008800' => 'sci', 'Sc07g0004950' => 'sci', 'Sc09g0005340' => 'sci', 'Sc13g0004410' => 'sci', 'Sc21g0007090' => 'sci', 'Sed0009285' => 'sed', 'Sed0017583' => 'sed', 'Sed0019699' => 'sed', 'Sed0023107' => 'sed', 'SEGI_10916' => 'sgi', 'SEGI_16217' => 'sgi', 'SEGI_19466' => 'sgi', 'SEGI_41115' => 'sgi', 'SGA_v2.0_scaffold111G31534' => 'sas', 'SGA_v2.0_scaffold22G09864' => 'sas', 'SGA_v2.0_scaffold338G49219' => 'sas', 'SGA_v2.0_scaffold92G28298' => 'sas', 'SMO119G0064' => 'smo', 'SMO223G0038' => 'smo', 'SMO347G0584' => 'smo', 'SMO351G0010' => 'smo', 'SMO356G0404' => 'smo', 'Solyc01g103920.3' => 'sly', 'Solyc04g009710.2' => 'sly', 'Solyc05g055280.2' => 'sly', 'Solyc10g044520.3' => 'sly', 'Solyc10g075160.1' => 'sly', 'Solyc11g006910.3' => 'sly', 'Solyc11g068430.3' => 'sly', 'Sopen01g046310' => 'spe', 'Sopen03g001200' => 'spe', 'Sopen04g004830' => 'spe', 'Sopen05g033720' => 'spe', 'Sopen06g030740' => 'spe', 'Sopen10g013090' => 'spe', 'Sopen10g027630' => 'spe', 'Sopen10g027640' => 'spe', 'Sopen11g002820' => 'spe', 'Sopen11g027140' => 'spe', 'Sp1g09680' => 'spa', 'Sp2g03630' => 'spa', 'Sp4g10320' => 'spa', 'Sp6g33400' => 'spa', 'Sp7g13030' => 'spa', 'TAR365G0317' => 'tar', 'TAR376G0979' => 'tar', 'TAR623G1665' => 'tar', 'TAR633G2373' => 'tar', 'TAR636G1400' => 'tar', 'THA.LOC104800529' => 'tha', 'THA.LOC104808547' => 'tha', 'THA.LOC104809615' => 'tha', 'THA.LOC104815724' => 'tha', 'THA.LOC104818480' => 'tha', 'THA.LOC104819179' => 'tha', 'THA.LOC104822270' => 'tha', 'THA.LOC104826425' => 'tha', 'Thecc.02G089700' => 'tca', 'Thecc.04G232300' => 'tca', 'Thecc.09G283400' => 'tca', 'Thhalv10009020m.g' => 'esa', 'Thhalv10015506m.g' => 'esa', 'Thhalv10017364m.g' => 'esa', 'Thhalv10023742m.g' => 'esa', 'Thhalv10026483m.g' => 'esa', 'TPR.G17232' => 'tpr', 'TPR.G2133' => 'tpr', 'TPR.G2498' => 'tpr', 'TPR.G31942' => 'tpr', 'TPR.G37877' => 'tpr', 'TPR.G4571' => 'tpr', 'TWI14G1113' => 'twi', 'TWI15G0426' => 'twi', 'TWI31G1005' => 'twi', 'TWI38G0513' => 'twi', 'TWI38G1484' => 'twi', 'TWI73G1098' => 'twi', 'unitig_26.g10519' => 'ugi', 'unitig_736.g22395' => 'ugi', 'unitig_747.g21234' => 'ugi', 'unitig_747.g21942' => 'ugi', 'vmacro14351' => 'vma', 'VMungo0540G0082' => 'vmu', 'VMungo0540G0405' => 'vmu', 'VMungo0540G1486' => 'vmu', 'VMungo0540G1692' => 'vmu', 'VMungo0720G2473' => 'vmu', 'VMungo1127G1562' => 'vmu', 'VMungo1215G1918' => 'vmu', 'Zm00001eb052650' => 'zma', 'Zm00001eb063710' => 'zma', 'Zm00001eb083950' => 'zma', 'Zm00001eb174420' => 'zma', 'Zm00001eb260140' => 'zma', 'Zm00001eb260150' => 'zma', 'Zm00001eb260160' => 'zma', 'Zm00001eb348290' => 'zma', 'Zm00001eb366870' => 'zma', 'Zm00001eb421930' => 'zma' ) $gf_id = 'HOM05D001025' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001025' ) $data_identifier = 'HOM05D001025' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 19, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 2, 'amhyb' => (int) 4, 'aly' => (int) 4, 'aox' => (int) 4, 'arhy' => (int) 3, 'ath' => (int) 5, 'atr' => (int) 4, 'acertr' => (int) 3, 'cqu' => (int) 7, 'bca' => (int) 17, 'bol' => (int) 10, 'bra' => (int) 9, 'can' => (int) 10, 'cansat' => (int) 6, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 5, 'cbr' => (int) 5, 'ccan' => (int) 5, 'cde' => (int) 4, 'cfa' => (int) 3, 'ccl' => (int) 6, 'cil' => (int) 4, 'cla' => (int) 3, 'col' => (int) 3, 'cpa' => (int) 3, 'cre' => (int) 7, 'csa' => (int) 5, 'camsi' => (int) 9, 'dca' => (int) 4, 'din' => (int) 5, 'dzi' => (int) 7, 'eca' => (int) 6, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 12, 'fve' => (int) 4, 'gma' => (int) 12, 'ghi' => (int) 17, 'gra' => (int) 9, 'vvi' => (int) 2, 'han' => (int) 8, 'cav' => (int) 5, 'hma' => (int) 9, 'vpl' => (int) 4, 'sun' => (int) 2, 'lal' => (int) 9, 'lja' => (int) 5, 'lonja' => (int) 6, 'lsa' => (int) 3, 'mes' => (int) 8, 'mpo' => (int) 3, 'mbi' => (int) 4, 'mco' => (int) 3, 'mdo' => (int) 5, 'mtr' => (int) 7, 'cme' => (int) 6, 'egut' => (int) 7, 'ama' => (int) 3, 'nta' => (int) 12, 'nnu' => (int) 9, 'oeu' => (int) 4, 'osa' => (int) 7, 'pax' => (int) 9, 'pgr' => (int) 5, 'stu' => (int) 8, 'pvu' => (int) 6, 'ptr' => (int) 9, 'ppa' => (int) 9, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 7, 'pso' => (int) 10, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 3, 'sbr' => (int) 8, 'sbo' => (int) 5, 'sci' => (int) 5, 'sed' => (int) 4, 'sgi' => (int) 4, 'sas' => (int) 4, 'smo' => (int) 5, 'sly' => (int) 7, 'spe' => (int) 10, 'spa' => (int) 5, 'tar' => (int) 5, 'tha' => (int) 8, 'tca' => (int) 3, 'esa' => (int) 5, 'tpr' => (int) 6, 'twi' => (int) 6, 'ugi' => (int) 4, 'vma' => (int) 1, 'vmu' => (int) 7, 'zma' => (int) 10 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb421930' $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' => 'HOM05D001025', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '592', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p22650' => 'bna', 'A01p29720' => 'bna', 'A03p26560' => 'bna', 'A03p68820' => 'bna', 'A04p20980' => 'bna', 'A06p07730' => 'bna', 'A07p18260' => 'bna', 'A08p33710' => 'bna', 'A09p16970' => 'bna', 'A10p27490' => 'bna', 'Aa31LG1G17300' => 'aar', 'Aa31LG1G3910' => 'aar', 'Aa31LG2G9630' => 'aar', 'Aa31LG5G8360' => 'aar', 'Aa31LG9G2410' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4699' => 'aag', 'Actinidia23512' => 'ach', 'Actinidia37080' => 'ach', 'Ah.01g020380' => 'amhyb', 'Ah.08g215710' => 'amhyb', 'Ah.09g225110' => 'amhyb', 'Ah.10g036680' => 'amhyb', 'AL1G21940' => 'aly', 'AL2G15540' => 'aly', 'AL4G21520' => 'aly', 'AL7G40960' => 'aly', 'Aqoxy2G01191' => 'aox', 'Aqoxy2G03393' => 'aox', 'Aqoxy4G02775' => 'aox', 'Aqoxy6G00058' => 'aox', 'arahy.Tifrunner.gnm1.ann1.9X74H2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CW3FX9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R485W7' => 'arhy', 'AT1G10960' => 'ath', 'AT1G60950' => 'ath', 'AT2G27510' => 'ath', 'AT4G14890' => 'ath', 'AT5G10000' => 'ath', 'ATR0665G624' => 'atr', 'ATR0697G138' => 'atr', 'ATR0776G046' => 'atr', 'ATR1134G135' => 'atr', 'Atru.chr12.1025' => 'acertr', 'Atru.chr3.3241' => 'acertr', 'Atru.chr4.2460' => 'acertr', 'AUR62007427' => 'cqu', 'AUR62010960' => 'cqu', 'AUR62012201' => 'cqu', 'AUR62021470' => 'cqu', 'AUR62022834' => 'cqu', 'AUR62033635' => 'cqu', 'AUR62036186' => 'cqu', 'BcaB01g03077' => 'bca', 'BcaB02g10093' => 'bca', 'BcaB04g20295' => 'bca', 'BcaB06g28147' => 'bca', 'BcaB07g31253' => 'bca', 'BcaC01g04946' => 'bca', 'BcaC02g10614' => 'bca', 'BcaC02g10885' => 'bca', 'BcaC04g19356' => 'bca', 'BcaC04g22297' => 'bca', 'BcaC05g24977' => 'bca', 'BcaC06g31823' => 'bca', 'BcaC07g38633' => 'bca', 'BcaC09g49353' => 'bca', 'BcaC09g50168' => 'bca', 'BcaNung00322' => 'bca', 'BcaNung04769' => 'bca', 'BolC1t02753H' => 'bol', 'BolC1t03721H' => 'bol', 'BolC3t15525H' => 'bol', 'BolC4t23903H' => 'bol', 'BolC4t24231H' => 'bol', 'BolC4t27209H' => 'bol', 'BolC5t29671H' => 'bol', 'BolC8t49044H' => 'bol', 'BolC9t54999H' => 'bol', 'BolC9t59517H' => 'bol', 'BraA01t02178Z' => 'bra', 'BraA01t03099Z' => 'bra', 'BraA03t11867Z' => 'bra', 'BraA04t17667Z' => 'bra', 'BraA07t29542Z' => 'bra', 'BraA08t35287Z' => 'bra', 'BraA09t37334Z' => 'bra', 'BraA10t44801Z' => 'bra', 'BraSC39t46181Z' => 'bra', 'C01p28240' => 'bna', 'C01p37530' => 'bna', 'C03p31820' => 'bna', 'C04p24080' => 'bna', 'C04p25790' => 'bna', 'C04p56770' => 'bna', 'C05p09310' => 'bna', 'C09p21010' => 'bna', 'C09p67560' => 'bna', 'CAN.G1324.7' => 'can', 'CAN.G1358.10' => 'can', 'CAN.G1550.2' => 'can', 'CAN.G186.56' => 'can', 'CAN.G1965.1' => 'can', 'CAN.G645.15' => 'can', 'CAN.G798.26' => 'can', 'CAN.G798.27' => 'can', 'CAN.G798.29' => 'can', 'CAN.G919.31' => 'can', 'CANSAT11G0133' => 'cansat', 'CANSAT11G1171' => 'cansat', 'CANSAT11G2056' => 'cansat', 'CANSAT56G1202' => 'cansat', 'CANSAT56G1514' => 'cansat', 'CANSAT78G0455' => 'cansat', 'CARHR011190' => 'chi', 'CARHR051980' => 'chi', 'CARHR120170' => 'chi', 'CARHR203310' => 'chi', 'CARHR221490' => 'chi', 'Carub.0001s1054' => 'cru', 'Carub.0002s0431' => 'cru', 'Carub.0004s0818' => 'cru', 'Carub.0006s0846' => 'cru', 'Carub.0007s2722' => 'cru', 'Ca_00058_v3' => 'car', 'Ca_17831_v3' => 'car', 'Ca_19408_v3' => 'car', 'Ca_24397_v3' => 'car', 'Ca_25664_v3' => 'car', 'CBR_g21818' => 'cbr', 'CBR_g31195' => 'cbr', 'CBR_g32282' => 'cbr', 'CBR_g39599' => 'cbr', 'CBR_g49410' => 'cbr', 'Cc01_g09120' => 'ccan', 'Cc01_g09130' => 'ccan', 'Cc02_g09630' => 'ccan', 'Cc02_g22810' => 'ccan', 'Cc03_g03810' => 'ccan', 'CDE02G3718' => 'cde', 'CDE04G3183' => 'cde', 'CDE07G1046' => 'cde', 'CDE08G0480' => 'cde', 'Cfa005493' => 'cfa', 'Cfa010312' => 'cfa', 'Cfa015648' => 'cfa', 'Ciclev10002793m.g' => 'ccl', 'Ciclev10003356m.g' => 'ccl', 'Ciclev10006141m.g' => 'ccl', 'Ciclev10016676m.g' => 'ccl', 'Ciclev10017081m.g' => 'ccl', 'Ciclev10029499m.g' => 'ccl', 'CiPaw.01G166300' => 'cil', 'CiPaw.06G145600' => 'cil', 'CiPaw.13G040100' => 'cil', 'CiPaw.13G135800' => 'cil', 'ClCG01G012230' => 'cla', 'ClCG05G009510' => 'cla', 'ClCG08G008270' => 'cla', 'COL.COLO4_11763' => 'col', 'COL.COLO4_19876' => 'col', 'COL.COLO4_21481' => 'col', 'Cpa.g.sc118.34' => 'cpa', 'Cpa.g.sc32.13' => 'cpa', 'Cpa.g.sc58.103' => 'cpa', 'Cre03.g183850' => 'cre', 'Cre06.g306350' => 'cre', 'Cre07.g334800' => 'cre', 'Cre12.g487900' => 'cre', 'Cre14.g626700' => 'cre', 'Cre16.g658400' => 'cre', 'Cre17.g700950' => 'cre', 'CsaV3_1G014830' => 'csa', 'CsaV3_3G013320' => 'csa', 'CsaV3_3G019210' => 'csa', 'CsaV3_3G019220' => 'csa', 'CsaV3_6G004230' => 'csa', 'CSS0003773' => 'camsi', 'CSS0004563' => 'camsi', 'CSS0013949' => 'camsi', 'CSS0025971' => 'camsi', 'CSS0028570' => 'camsi', 'CSS0033127' => 'camsi', 'CSS0036051' => 'camsi', 'CSS0040087' => 'camsi', 'CSS0043179' => 'camsi', 'DCAR_006161' => 'dca', 'DCAR_010351' => 'dca', 'DCAR_012197' => 'dca', 'DCAR_024162' => 'dca', 'Dinv01030' => 'din', 'Dinv10924' => 'din', 'Dinv11835' => 'din', 'Dinv22841' => 'din', 'Dinv42553' => 'din', 'Duzib052G0560' => 'dzi', 'Duzib132G0389' => 'dzi', 'Duzib150G1181' => 'dzi', 'Duzib168G0623' => 'dzi', 'Duzib170G1036' => 'dzi', 'Duzib212G0200' => 'dzi', 'Duzib248G0194' => 'dzi', 'ECA232G2193' => 'eca', 'ECA233G0302' => 'eca', 'ECA234G2813' => 'eca', 'ECA234G4866' => 'eca', 'ECA240G3932' => 'eca', 'ECA248G0385' => 'eca', 'EL10Ac2g04781' => 'bvu', 'EL10Ac3g06445' => 'bvu', 'EL10Ac7g15825' => 'bvu', 'EL10Ac8g18550' => 'bvu', 'Eucgr.B03849' => 'egr', 'Eucgr.I02744' => 'egr', 'Eucgr.J00264' => 'egr', 'Eucgr.J00493' => 'egr', 'FAN04G2181' => 'fan', 'FAN07G2666' => 'fan', 'FAN11G0024' => 'fan', 'FAN12G1105' => 'fan', 'FAN13G0302' => 'fan', 'FAN15G2781' => 'fan', 'FAN16G1274' => 'fan', 'FAN17G2988' => 'fan', 'FAN18G2621' => 'fan', 'FAN21G0013' => 'fan', 'FAN22G1211' => 'fan', 'FAN25G3626' => 'fan', 'FvH4_2g09491' => 'fve', 'FvH4_3g24910' => 'fve', 'FvH4_4g15630' => 'fve', 'FvH4_5g28820' => 'fve', 'Glyma.01G238000' => 'gma', 'Glyma.05G168400' => 'gma', 'Glyma.08G126800' => 'gma', 'Glyma.08G188500' => 'gma', 'Glyma.10G278900' => 'gma', 'Glyma.11G005700' => 'gma', 'Glyma.11G183300' => 'gma', 'Glyma.12G089200' => 'gma', 'Glyma.12G169400' => 'gma', 'Glyma.12G169500' => 'gma', 'Glyma.12G169600' => 'gma', 'Glyma.20G110800' => 'gma', 'Gohir.A03G192900' => 'ghi', 'Gohir.A03G193000' => 'ghi', 'Gohir.A05G080700' => 'ghi', 'Gohir.A09G216000' => 'ghi', 'Gohir.A12G027700' => 'ghi', 'Gohir.A13G036200' => 'ghi', 'Gohir.A13G222600' => 'ghi', 'Gohir.D02G213900' => 'ghi', 'Gohir.D02G214000' => 'ghi', 'Gohir.D05G083700' => 'ghi', 'Gohir.D05G083800' => 'ghi', 'Gohir.D05G083850' => 'ghi', 'Gohir.D08G015400' => 'ghi', 'Gohir.D09G218400' => 'ghi', 'Gohir.D12G027100' => 'ghi', 'Gohir.D13G034500' => 'ghi', 'Gohir.D13G227400' => 'ghi', 'Gorai.005G241800' => 'gra', 'Gorai.005G241900' => 'gra', 'Gorai.006G239400' => 'gra', 'Gorai.008G027600' => 'gra', 'Gorai.009G085400' => 'gra', 'Gorai.009G085500' => 'gra', 'Gorai.013G039000' => 'gra', 'Gorai.013G194800' => 'gra', 'Gorai.013G257900' => 'gra', 'GSVIVG01000982001' => 'vvi', 'GSVIVG01017981001' => 'vvi', 'HanXRQChr01g0024061' => 'han', 'HanXRQChr09g0247831' => 'han', 'HanXRQChr10g0294611' => 'han', 'HanXRQChr10g0294621' => 'han', 'HanXRQChr11g0346821' => 'han', 'HanXRQChr13g0397461' => 'han', 'HanXRQChr16g0513651' => 'han', 'HanXRQChr16g0513701' => 'han', 'Haze_00897' => 'cav', 'Haze_01745' => 'cav', 'Haze_02486' => 'cav', 'Haze_02487' => 'cav', 'Haze_23374' => 'cav', 'Hma1.2p1_0578F.1_g182520' => 'hma', 'Hma1.2p1_0602F.1_g187350' => 'hma', 'Hma1.2p1_0602F.1_g187360' => 'hma', 'Hma1.2p1_0874F.1_g231320' => 'hma', 'Hma1.2p1_1197F.1_g266210' => 'hma', 'Hma1.2p1_1197F.1_g266220' => 'hma', 'Hma1.2p1_2167F.1_g315895' => 'hma', 'Hma1.2p1_2190F.1_g316640' => 'hma', 'Hma1.2p1_3645F.1_g337153' => 'hma', 'HPP92_004907' => 'vpl', 'HPP92_012134' => 'vpl', 'HPP92_025136' => 'vpl', 'HPP92_026087' => 'vpl', 'Hund06782' => 'sun', 'Hund06784' => 'sun', 'Lalb_Chr01g0004861' => 'lal', 'Lalb_Chr02g0140591' => 'lal', 'Lalb_Chr02g0140611' => 'lal', 'Lalb_Chr03g0028101' => 'lal', 'Lalb_Chr07g0185791' => 'lal', 'Lalb_Chr12g0204491' => 'lal', 'Lalb_Chr13g0295671' => 'lal', 'Lalb_Chr19g0136461' => 'lal', 'Lalb_Chr21g0309191' => 'lal', 'Lj1g0028158' => 'lja', 'Lj1P236T38' => 'lonja', 'Lj2C32G2' => 'lonja', 'Lj2P944T8' => 'lonja', 'Lj2P963T15' => 'lonja', 'Lj3g0011788' => 'lja', 'Lj4g0025027' => 'lja', 'Lj5P255T36' => 'lonja', 'Lj6g0018866' => 'lja', 'Lj6P608T31' => 'lonja', 'LjContig00408g0008879' => 'lja', 'Lsat_1_v5_gn_5_105820' => 'lsa', 'Lsat_1_v5_gn_6_38800' => 'lsa', 'Lsat_1_v5_gn_7_67141' => 'lsa', 'Manes.04G003400' => 'mes', 'Manes.07G020000' => 'mes', 'Manes.07G020100' => 'mes', 'Manes.07G020150' => 'mes', 'Manes.10G061500' => 'mes', 'Manes.10G123200' => 'mes', 'Manes.11G161900' => 'mes', 'Manes.15G029300' => 'mes', 'Mapoly0071s0018' => 'mpo', 'Mapoly0082s0023' => 'mpo', 'Mapoly3477s0001' => 'mpo', 'MBI05_g31233_MAGBIO' => 'mbi', 'MBI09_g05946_MAGBIO' => 'mbi', 'MBI09_g05947_MAGBIO' => 'mbi', 'MBI17_g08346_MAGBIO' => 'mbi', 'MCO04G038' => 'mco', 'MCO09G370' => 'mco', 'MCO13G605' => 'mco', 'MD00G1075500' => 'mdo', 'MD03G1144300' => 'mdo', 'MD08G1236800' => 'mdo', 'MD13G1193300' => 'mdo', 'MD15G1428700' => 'mdo', 'Medtr1g112030' => 'mtr', 'Medtr1g112050' => 'mtr', 'Medtr2g006290' => 'mtr', 'Medtr2g086510' => 'mtr', 'Medtr4g053120' => 'mtr', 'Medtr5g006320' => 'mtr', 'Medtr8g088720' => 'mtr', 'MELO3C004712.2' => 'cme', 'MELO3C006533.2' => 'cme', 'MELO3C019438.2' => 'cme', 'MELO3C019440.2' => 'cme', 'MELO3C019441.2' => 'cme', 'MELO3C019895.2' => 'cme', 'Migut.B00811' => 'egut', 'Migut.D02447' => 'egut', 'Migut.F00875' => 'egut', 'Migut.N00186' => 'egut', 'Migut.N01051' => 'egut', 'Migut.N02491' => 'egut', 'Migut.O00784' => 'egut', 'MSTRG.12367' => 'ama', 'MSTRG.18756' => 'ama', 'MSTRG.21042' => 'ama', 'Nitab4.5_0000559g0040' => 'nta', 'Nitab4.5_0000667g0190' => 'nta', 'Nitab4.5_0000755g0160' => 'nta', 'Nitab4.5_0001216g0080' => 'nta', 'Nitab4.5_0004069g0040' => 'nta', 'Nitab4.5_0004129g0010' => 'nta', 'Nitab4.5_0005744g0030' => 'nta', 'Nitab4.5_0006996g0030' => 'nta', 'Nitab4.5_0008971g0040' => 'nta', 'Nitab4.5_0009769g0020' => 'nta', 'Nitab4.5_0009833g0010' => 'nta', 'Nitab4.5_0013140g0020' => 'nta', 'Nn003s41376' => 'nnu', 'Nn1g01857' => 'nnu', 'Nn1g03611' => 'nnu', 'Nn1g06853' => 'nnu', 'Nn3g18360' => 'nnu', 'Nn4g26328' => 'nnu', 'Nn5g27531' => 'nnu', 'Nn6g34899' => 'nnu', 'Nn7g36299' => 'nnu', 'Oeu021485.1' => 'oeu', 'Oeu022433.1' => 'oeu', 'Oeu032111.1' => 'oeu', 'Oeu051608.1' => 'oeu', 'Os01g0860601' => 'osa', 'Os03g0659200' => 'osa', 'Os03g0835900' => 'osa', 'Os04g0412200' => 'osa', 'Os05g0443500' => 'osa', 'Os07g0251500' => 'osa', 'Os08g0104600' => 'osa', 'Peaxi162Scf00003g00047' => 'pax', 'Peaxi162Scf00003g00052' => 'pax', 'Peaxi162Scf00003g00394' => 'pax', 'Peaxi162Scf00091g00621' => 'pax', 'Peaxi162Scf00152g00146' => 'pax', 'Peaxi162Scf00173g00025' => 'pax', 'Peaxi162Scf00195g00102' => 'pax', 'Peaxi162Scf00402g00013' => 'pax', 'Peaxi162Scf00519g00618' => 'pax', 'PGR004G2838' => 'pgr', 'PGR044G2275' => 'pgr', 'PGR102G1377' => 'pgr', 'PGR119G1245' => 'pgr', 'PGR142G4449' => 'pgr', 'PGSC0003DMG400004532' => 'stu', 'PGSC0003DMG400011950' => 'stu', 'PGSC0003DMG400023391' => 'stu', 'PGSC0003DMG400023985' => 'stu', 'PGSC0003DMG400026360' => 'stu', 'PGSC0003DMG400035711' => 'stu', 'PGSC0003DMG400037286' => 'stu', 'PGSC0003DMG402005881' => 'stu', 'Phvul.002G045400' => 'pvu', 'Phvul.006G216600' => 'pvu', 'Phvul.006G216700' => 'pvu', 'Phvul.006G216800' => 'pvu', 'Phvul.007G022500' => 'pvu', 'Phvul.011G094400' => 'pvu', 'Potri.001G470700' => 'ptr', 'Potri.003G015200' => 'ptr', 'Potri.004G202500' => 'ptr', 'Potri.004G218400' => 'ptr', 'Potri.008G020100' => 'ptr', 'Potri.008G153200' => 'ptr', 'Potri.009G163800' => 'ptr', 'Potri.010G087300' => 'ptr', 'Potri.010G239100' => 'ptr', 'Pp3c10_16100' => 'ppa', 'Pp3c10_16880' => 'ppa', 'Pp3c16_6230' => 'ppa', 'Pp3c17_18910' => 'ppa', 'Pp3c3_22119' => 'ppa', 'Pp3c3_22140' => 'ppa', 'Pp3c4_8159' => 'ppa', 'Pp3c4_8171' => 'ppa', 'Pp3c4_8330' => 'ppa', 'PRCOL_00004098' => 'pco', 'Prupe.1G013900' => 'ppe', 'Prupe.1G226300' => 'ppe', 'Prupe.1G573600' => 'ppe', 'Prupe.6G130100' => 'ppe', 'Psat3g090040' => 'psa', 'Psat4g210440' => 'psa', 'Psat6g231040' => 'psa', 'Psat6g231080' => 'psa', 'Psat7g063000' => 'psa', 'Psat7g188000' => 'psa', 'Psat7g188040' => 'psa', 'PSO017G0206' => 'pso', 'PSO170G0501' => 'pso', 'PSO170G6422' => 'pso', 'PSO210G7739' => 'pso', 'PSO339G1808' => 'pso', 'PSO339G6135' => 'pso', 'PSO384G0010' => 'pso', 'PSO384G0964' => 'pso', 'PSO761G0050' => 'pso', 'PSO782G4085' => 'pso', 'QL01p012264' => 'qlo', 'QL02p099491' => 'qlo', 'QL03p033868' => 'qlo', 'QL04p046678' => 'qlo', 'QL06p002448' => 'qlo', 'RcHm_v2.0_Chr4g0416181' => 'rch', 'RcHm_v2.0_Chr5g0044701' => 'rch', 'RcHm_v2.0_Chr6g0265781' => 'rch', 'RcHm_v2.0_Chr7g0221031' => 'rch', 'Rhsim04G0202000' => 'rsi', 'Rhsim11G0127300' => 'rsi', 'Rhsim13G0111800' => 'rsi', 'Sabra01G0165600' => 'sbr', 'Sabra03G0008300' => 'sbr', 'Sabra04G0136900' => 'sbr', 'Sabra08G0013400' => 'sbr', 'Sabra08G0116800' => 'sbr', 'Sabra09G0128000' => 'sbr', 'Sabra10G0055500' => 'sbr', 'Sabra10G0073300' => 'sbr', 'SalBow3G0385' => 'sbo', 'SalBow3G1119' => 'sbo', 'SalBow3G2005' => 'sbo', 'SalBow6G2563' => 'sbo', 'SalBow6G6386' => 'sbo', 'Sc06g0008800' => 'sci', 'Sc07g0004950' => 'sci', 'Sc09g0005340' => 'sci', 'Sc13g0004410' => 'sci', 'Sc21g0007090' => 'sci', 'Sed0009285' => 'sed', 'Sed0017583' => 'sed', 'Sed0019699' => 'sed', 'Sed0023107' => 'sed', 'SEGI_10916' => 'sgi', 'SEGI_16217' => 'sgi', 'SEGI_19466' => 'sgi', 'SEGI_41115' => 'sgi', 'SGA_v2.0_scaffold111G31534' => 'sas', 'SGA_v2.0_scaffold22G09864' => 'sas', 'SGA_v2.0_scaffold338G49219' => 'sas', 'SGA_v2.0_scaffold92G28298' => 'sas', 'SMO119G0064' => 'smo', 'SMO223G0038' => 'smo', 'SMO347G0584' => 'smo', 'SMO351G0010' => 'smo', 'SMO356G0404' => 'smo', 'Solyc01g103920.3' => 'sly', 'Solyc04g009710.2' => 'sly', 'Solyc05g055280.2' => 'sly', 'Solyc10g044520.3' => 'sly', 'Solyc10g075160.1' => 'sly', 'Solyc11g006910.3' => 'sly', 'Solyc11g068430.3' => 'sly', 'Sopen01g046310' => 'spe', 'Sopen03g001200' => 'spe', 'Sopen04g004830' => 'spe', 'Sopen05g033720' => 'spe', 'Sopen06g030740' => 'spe', 'Sopen10g013090' => 'spe', 'Sopen10g027630' => 'spe', 'Sopen10g027640' => 'spe', 'Sopen11g002820' => 'spe', 'Sopen11g027140' => 'spe', 'Sp1g09680' => 'spa', 'Sp2g03630' => 'spa', 'Sp4g10320' => 'spa', 'Sp6g33400' => 'spa', 'Sp7g13030' => 'spa', 'TAR365G0317' => 'tar', 'TAR376G0979' => 'tar', 'TAR623G1665' => 'tar', 'TAR633G2373' => 'tar', 'TAR636G1400' => 'tar', 'THA.LOC104800529' => 'tha', 'THA.LOC104808547' => 'tha', 'THA.LOC104809615' => 'tha', 'THA.LOC104815724' => 'tha', 'THA.LOC104818480' => 'tha', 'THA.LOC104819179' => 'tha', 'THA.LOC104822270' => 'tha', 'THA.LOC104826425' => 'tha', 'Thecc.02G089700' => 'tca', 'Thecc.04G232300' => 'tca', 'Thecc.09G283400' => 'tca', 'Thhalv10009020m.g' => 'esa', 'Thhalv10015506m.g' => 'esa', 'Thhalv10017364m.g' => 'esa', 'Thhalv10023742m.g' => 'esa', 'Thhalv10026483m.g' => 'esa', 'TPR.G17232' => 'tpr', 'TPR.G2133' => 'tpr', 'TPR.G2498' => 'tpr', 'TPR.G31942' => 'tpr', 'TPR.G37877' => 'tpr', 'TPR.G4571' => 'tpr', 'TWI14G1113' => 'twi', 'TWI15G0426' => 'twi', 'TWI31G1005' => 'twi', 'TWI38G0513' => 'twi', 'TWI38G1484' => 'twi', 'TWI73G1098' => 'twi', 'unitig_26.g10519' => 'ugi', 'unitig_736.g22395' => 'ugi', 'unitig_747.g21234' => 'ugi', 'unitig_747.g21942' => 'ugi', 'vmacro14351' => 'vma', 'VMungo0540G0082' => 'vmu', 'VMungo0540G0405' => 'vmu', 'VMungo0540G1486' => 'vmu', 'VMungo0540G1692' => 'vmu', 'VMungo0720G2473' => 'vmu', 'VMungo1127G1562' => 'vmu', 'VMungo1215G1918' => 'vmu', 'Zm00001eb052650' => 'zma', 'Zm00001eb063710' => 'zma', 'Zm00001eb083950' => 'zma', 'Zm00001eb174420' => 'zma', 'Zm00001eb260140' => 'zma', 'Zm00001eb260150' => 'zma', 'Zm00001eb260160' => 'zma', 'Zm00001eb348290' => 'zma', 'Zm00001eb366870' => 'zma', 'Zm00001eb421930' => 'zma' ), 'gf_id' => 'HOM05D001025', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001025' ), 'data_identifier' => 'HOM05D001025', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001025', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '592', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p22650' => 'bna', 'A01p29720' => 'bna', 'A03p26560' => 'bna', 'A03p68820' => 'bna', 'A04p20980' => 'bna', 'A06p07730' => 'bna', 'A07p18260' => 'bna', 'A08p33710' => 'bna', 'A09p16970' => 'bna', 'A10p27490' => 'bna', 'Aa31LG1G17300' => 'aar', 'Aa31LG1G3910' => 'aar', 'Aa31LG2G9630' => 'aar', 'Aa31LG5G8360' => 'aar', 'Aa31LG9G2410' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4699' => 'aag', 'Actinidia23512' => 'ach', 'Actinidia37080' => 'ach', 'Ah.01g020380' => 'amhyb', 'Ah.08g215710' => 'amhyb', 'Ah.09g225110' => 'amhyb', 'Ah.10g036680' => 'amhyb', 'AL1G21940' => 'aly', 'AL2G15540' => 'aly', 'AL4G21520' => 'aly', 'AL7G40960' => 'aly', 'Aqoxy2G01191' => 'aox', 'Aqoxy2G03393' => 'aox', 'Aqoxy4G02775' => 'aox', 'Aqoxy6G00058' => 'aox', 'arahy.Tifrunner.gnm1.ann1.9X74H2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CW3FX9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R485W7' => 'arhy', 'AT1G10960' => 'ath', 'AT1G60950' => 'ath', 'AT2G27510' => 'ath', 'AT4G14890' => 'ath', 'AT5G10000' => 'ath', 'ATR0665G624' => 'atr', 'ATR0697G138' => 'atr', 'ATR0776G046' => 'atr', 'ATR1134G135' => 'atr', 'Atru.chr12.1025' => 'acertr', 'Atru.chr3.3241' => 'acertr', 'Atru.chr4.2460' => 'acertr', 'AUR62007427' => 'cqu', 'AUR62010960' => 'cqu', 'AUR62012201' => 'cqu', 'AUR62021470' => 'cqu', 'AUR62022834' => 'cqu', 'AUR62033635' => 'cqu', 'AUR62036186' => 'cqu', 'BcaB01g03077' => 'bca', 'BcaB02g10093' => 'bca', 'BcaB04g20295' => 'bca', 'BcaB06g28147' => 'bca', 'BcaB07g31253' => 'bca', 'BcaC01g04946' => 'bca', 'BcaC02g10614' => 'bca', 'BcaC02g10885' => 'bca', 'BcaC04g19356' => 'bca', 'BcaC04g22297' => 'bca', 'BcaC05g24977' => 'bca', 'BcaC06g31823' => 'bca', 'BcaC07g38633' => 'bca', 'BcaC09g49353' => 'bca', 'BcaC09g50168' => 'bca', 'BcaNung00322' => 'bca', 'BcaNung04769' => 'bca', 'BolC1t02753H' => 'bol', 'BolC1t03721H' => 'bol', 'BolC3t15525H' => 'bol', 'BolC4t23903H' => 'bol', 'BolC4t24231H' => 'bol', 'BolC4t27209H' => 'bol', 'BolC5t29671H' => 'bol', 'BolC8t49044H' => 'bol', 'BolC9t54999H' => 'bol', 'BolC9t59517H' => 'bol', 'BraA01t02178Z' => 'bra', 'BraA01t03099Z' => 'bra', 'BraA03t11867Z' => 'bra', 'BraA04t17667Z' => 'bra', 'BraA07t29542Z' => 'bra', 'BraA08t35287Z' => 'bra', 'BraA09t37334Z' => 'bra', 'BraA10t44801Z' => 'bra', 'BraSC39t46181Z' => 'bra', 'C01p28240' => 'bna', 'C01p37530' => 'bna', 'C03p31820' => 'bna', 'C04p24080' => 'bna', 'C04p25790' => 'bna', 'C04p56770' => 'bna', 'C05p09310' => 'bna', 'C09p21010' => 'bna', 'C09p67560' => 'bna', 'CAN.G1324.7' => 'can', 'CAN.G1358.10' => 'can', 'CAN.G1550.2' => 'can', 'CAN.G186.56' => 'can', 'CAN.G1965.1' => 'can', 'CAN.G645.15' => 'can', 'CAN.G798.26' => 'can', 'CAN.G798.27' => 'can', 'CAN.G798.29' => 'can', 'CAN.G919.31' => 'can', 'CANSAT11G0133' => 'cansat', 'CANSAT11G1171' => 'cansat', 'CANSAT11G2056' => 'cansat', 'CANSAT56G1202' => 'cansat', 'CANSAT56G1514' => 'cansat', 'CANSAT78G0455' => 'cansat', 'CARHR011190' => 'chi', 'CARHR051980' => 'chi', 'CARHR120170' => 'chi', 'CARHR203310' => 'chi', 'CARHR221490' => 'chi', 'Carub.0001s1054' => 'cru', 'Carub.0002s0431' => 'cru', 'Carub.0004s0818' => 'cru', 'Carub.0006s0846' => 'cru', 'Carub.0007s2722' => 'cru', 'Ca_00058_v3' => 'car', 'Ca_17831_v3' => 'car', 'Ca_19408_v3' => 'car', 'Ca_24397_v3' => 'car', 'Ca_25664_v3' => 'car', 'CBR_g21818' => 'cbr', 'CBR_g31195' => 'cbr', 'CBR_g32282' => 'cbr', 'CBR_g39599' => 'cbr', 'CBR_g49410' => 'cbr', 'Cc01_g09120' => 'ccan', 'Cc01_g09130' => 'ccan', 'Cc02_g09630' => 'ccan', 'Cc02_g22810' => 'ccan', 'Cc03_g03810' => 'ccan', 'CDE02G3718' => 'cde', 'CDE04G3183' => 'cde', 'CDE07G1046' => 'cde', 'CDE08G0480' => 'cde', 'Cfa005493' => 'cfa', 'Cfa010312' => 'cfa', 'Cfa015648' => 'cfa', 'Ciclev10002793m.g' => 'ccl', 'Ciclev10003356m.g' => 'ccl', 'Ciclev10006141m.g' => 'ccl', 'Ciclev10016676m.g' => 'ccl', 'Ciclev10017081m.g' => 'ccl', 'Ciclev10029499m.g' => 'ccl', 'CiPaw.01G166300' => 'cil', 'CiPaw.06G145600' => 'cil', 'CiPaw.13G040100' => 'cil', 'CiPaw.13G135800' => 'cil', 'ClCG01G012230' => 'cla', 'ClCG05G009510' => 'cla', 'ClCG08G008270' => 'cla', 'COL.COLO4_11763' => 'col', 'COL.COLO4_19876' => 'col', 'COL.COLO4_21481' => 'col', 'Cpa.g.sc118.34' => 'cpa', 'Cpa.g.sc32.13' => 'cpa', 'Cpa.g.sc58.103' => 'cpa', 'Cre03.g183850' => 'cre', 'Cre06.g306350' => 'cre', 'Cre07.g334800' => 'cre', 'Cre12.g487900' => 'cre', 'Cre14.g626700' => 'cre', 'Cre16.g658400' => 'cre', 'Cre17.g700950' => 'cre', 'CsaV3_1G014830' => 'csa', 'CsaV3_3G013320' => 'csa', 'CsaV3_3G019210' => 'csa', 'CsaV3_3G019220' => 'csa', 'CsaV3_6G004230' => 'csa', 'CSS0003773' => 'camsi', 'CSS0004563' => 'camsi', 'CSS0013949' => 'camsi', 'CSS0025971' => 'camsi', 'CSS0028570' => 'camsi', 'CSS0033127' => 'camsi', 'CSS0036051' => 'camsi', 'CSS0040087' => 'camsi', 'CSS0043179' => 'camsi', 'DCAR_006161' => 'dca', 'DCAR_010351' => 'dca', 'DCAR_012197' => 'dca', 'DCAR_024162' => 'dca', 'Dinv01030' => 'din', 'Dinv10924' => 'din', 'Dinv11835' => 'din', 'Dinv22841' => 'din', 'Dinv42553' => 'din', 'Duzib052G0560' => 'dzi', 'Duzib132G0389' => 'dzi', 'Duzib150G1181' => 'dzi', 'Duzib168G0623' => 'dzi', 'Duzib170G1036' => 'dzi', 'Duzib212G0200' => 'dzi', 'Duzib248G0194' => 'dzi', 'ECA232G2193' => 'eca', 'ECA233G0302' => 'eca', 'ECA234G2813' => 'eca', 'ECA234G4866' => 'eca', 'ECA240G3932' => 'eca', 'ECA248G0385' => 'eca', 'EL10Ac2g04781' => 'bvu', 'EL10Ac3g06445' => 'bvu', 'EL10Ac7g15825' => 'bvu', 'EL10Ac8g18550' => 'bvu', 'Eucgr.B03849' => 'egr', 'Eucgr.I02744' => 'egr', 'Eucgr.J00264' => 'egr', 'Eucgr.J00493' => 'egr', 'FAN04G2181' => 'fan', 'FAN07G2666' => 'fan', 'FAN11G0024' => 'fan', 'FAN12G1105' => 'fan', 'FAN13G0302' => 'fan', 'FAN15G2781' => 'fan', 'FAN16G1274' => 'fan', 'FAN17G2988' => 'fan', 'FAN18G2621' => 'fan', 'FAN21G0013' => 'fan', 'FAN22G1211' => 'fan', 'FAN25G3626' => 'fan', 'FvH4_2g09491' => 'fve', 'FvH4_3g24910' => 'fve', 'FvH4_4g15630' => 'fve', 'FvH4_5g28820' => 'fve', 'Glyma.01G238000' => 'gma', 'Glyma.05G168400' => 'gma', 'Glyma.08G126800' => 'gma', 'Glyma.08G188500' => 'gma', 'Glyma.10G278900' => 'gma', 'Glyma.11G005700' => 'gma', 'Glyma.11G183300' => 'gma', 'Glyma.12G089200' => 'gma', 'Glyma.12G169400' => 'gma', 'Glyma.12G169500' => 'gma', 'Glyma.12G169600' => 'gma', 'Glyma.20G110800' => 'gma', 'Gohir.A03G192900' => 'ghi', 'Gohir.A03G193000' => 'ghi', 'Gohir.A05G080700' => 'ghi', 'Gohir.A09G216000' => 'ghi', 'Gohir.A12G027700' => 'ghi', 'Gohir.A13G036200' => 'ghi', 'Gohir.A13G222600' => 'ghi', 'Gohir.D02G213900' => 'ghi', 'Gohir.D02G214000' => 'ghi', 'Gohir.D05G083700' => 'ghi', 'Gohir.D05G083800' => 'ghi', 'Gohir.D05G083850' => 'ghi', 'Gohir.D08G015400' => 'ghi', 'Gohir.D09G218400' => 'ghi', 'Gohir.D12G027100' => 'ghi', 'Gohir.D13G034500' => 'ghi', 'Gohir.D13G227400' => 'ghi', 'Gorai.005G241800' => 'gra', 'Gorai.005G241900' => 'gra', 'Gorai.006G239400' => 'gra', 'Gorai.008G027600' => 'gra', 'Gorai.009G085400' => 'gra', 'Gorai.009G085500' => 'gra', 'Gorai.013G039000' => 'gra', 'Gorai.013G194800' => 'gra', 'Gorai.013G257900' => 'gra', 'GSVIVG01000982001' => 'vvi', 'GSVIVG01017981001' => 'vvi', 'HanXRQChr01g0024061' => 'han', 'HanXRQChr09g0247831' => 'han', 'HanXRQChr10g0294611' => 'han', 'HanXRQChr10g0294621' => 'han', 'HanXRQChr11g0346821' => 'han', 'HanXRQChr13g0397461' => 'han', 'HanXRQChr16g0513651' => 'han', 'HanXRQChr16g0513701' => 'han', 'Haze_00897' => 'cav', 'Haze_01745' => 'cav', 'Haze_02486' => 'cav', 'Haze_02487' => 'cav', 'Haze_23374' => 'cav', 'Hma1.2p1_0578F.1_g182520' => 'hma', 'Hma1.2p1_0602F.1_g187350' => 'hma', 'Hma1.2p1_0602F.1_g187360' => 'hma', 'Hma1.2p1_0874F.1_g231320' => 'hma', 'Hma1.2p1_1197F.1_g266210' => 'hma', 'Hma1.2p1_1197F.1_g266220' => 'hma', 'Hma1.2p1_2167F.1_g315895' => 'hma', 'Hma1.2p1_2190F.1_g316640' => 'hma', 'Hma1.2p1_3645F.1_g337153' => 'hma', 'HPP92_004907' => 'vpl', 'HPP92_012134' => 'vpl', 'HPP92_025136' => 'vpl', 'HPP92_026087' => 'vpl', 'Hund06782' => 'sun', 'Hund06784' => 'sun', 'Lalb_Chr01g0004861' => 'lal', 'Lalb_Chr02g0140591' => 'lal', 'Lalb_Chr02g0140611' => 'lal', 'Lalb_Chr03g0028101' => 'lal', 'Lalb_Chr07g0185791' => 'lal', 'Lalb_Chr12g0204491' => 'lal', 'Lalb_Chr13g0295671' => 'lal', 'Lalb_Chr19g0136461' => 'lal', 'Lalb_Chr21g0309191' => 'lal', 'Lj1g0028158' => 'lja', 'Lj1P236T38' => 'lonja', 'Lj2C32G2' => 'lonja', 'Lj2P944T8' => 'lonja', 'Lj2P963T15' => 'lonja', 'Lj3g0011788' => 'lja', 'Lj4g0025027' => 'lja', 'Lj5P255T36' => 'lonja', 'Lj6g0018866' => 'lja', 'Lj6P608T31' => 'lonja', 'LjContig00408g0008879' => 'lja', 'Lsat_1_v5_gn_5_105820' => 'lsa', 'Lsat_1_v5_gn_6_38800' => 'lsa', 'Lsat_1_v5_gn_7_67141' => 'lsa', 'Manes.04G003400' => 'mes', 'Manes.07G020000' => 'mes', 'Manes.07G020100' => 'mes', 'Manes.07G020150' => 'mes', 'Manes.10G061500' => 'mes', 'Manes.10G123200' => 'mes', 'Manes.11G161900' => 'mes', 'Manes.15G029300' => 'mes', 'Mapoly0071s0018' => 'mpo', 'Mapoly0082s0023' => 'mpo', 'Mapoly3477s0001' => 'mpo', 'MBI05_g31233_MAGBIO' => 'mbi', 'MBI09_g05946_MAGBIO' => 'mbi', 'MBI09_g05947_MAGBIO' => 'mbi', 'MBI17_g08346_MAGBIO' => 'mbi', 'MCO04G038' => 'mco', 'MCO09G370' => 'mco', 'MCO13G605' => 'mco', 'MD00G1075500' => 'mdo', 'MD03G1144300' => 'mdo', 'MD08G1236800' => 'mdo', 'MD13G1193300' => 'mdo', 'MD15G1428700' => 'mdo', 'Medtr1g112030' => 'mtr', 'Medtr1g112050' => 'mtr', 'Medtr2g006290' => 'mtr', 'Medtr2g086510' => 'mtr', 'Medtr4g053120' => 'mtr', 'Medtr5g006320' => 'mtr', 'Medtr8g088720' => 'mtr', 'MELO3C004712.2' => 'cme', 'MELO3C006533.2' => 'cme', 'MELO3C019438.2' => 'cme', 'MELO3C019440.2' => 'cme', 'MELO3C019441.2' => 'cme', 'MELO3C019895.2' => 'cme', 'Migut.B00811' => 'egut', 'Migut.D02447' => 'egut', 'Migut.F00875' => 'egut', 'Migut.N00186' => 'egut', 'Migut.N01051' => 'egut', 'Migut.N02491' => 'egut', 'Migut.O00784' => 'egut', 'MSTRG.12367' => 'ama', 'MSTRG.18756' => 'ama', 'MSTRG.21042' => 'ama', 'Nitab4.5_0000559g0040' => 'nta', 'Nitab4.5_0000667g0190' => 'nta', 'Nitab4.5_0000755g0160' => 'nta', 'Nitab4.5_0001216g0080' => 'nta', 'Nitab4.5_0004069g0040' => 'nta', 'Nitab4.5_0004129g0010' => 'nta', 'Nitab4.5_0005744g0030' => 'nta', 'Nitab4.5_0006996g0030' => 'nta', 'Nitab4.5_0008971g0040' => 'nta', 'Nitab4.5_0009769g0020' => 'nta', 'Nitab4.5_0009833g0010' => 'nta', 'Nitab4.5_0013140g0020' => 'nta', 'Nn003s41376' => 'nnu', 'Nn1g01857' => 'nnu', 'Nn1g03611' => 'nnu', 'Nn1g06853' => 'nnu', 'Nn3g18360' => 'nnu', 'Nn4g26328' => 'nnu', 'Nn5g27531' => 'nnu', 'Nn6g34899' => 'nnu', 'Nn7g36299' => 'nnu', 'Oeu021485.1' => 'oeu', 'Oeu022433.1' => 'oeu', 'Oeu032111.1' => 'oeu', 'Oeu051608.1' => 'oeu', 'Os01g0860601' => 'osa', 'Os03g0659200' => 'osa', 'Os03g0835900' => 'osa', 'Os04g0412200' => 'osa', 'Os05g0443500' => 'osa', 'Os07g0251500' => 'osa', 'Os08g0104600' => 'osa', 'Peaxi162Scf00003g00047' => 'pax', 'Peaxi162Scf00003g00052' => 'pax', 'Peaxi162Scf00003g00394' => 'pax', 'Peaxi162Scf00091g00621' => 'pax', 'Peaxi162Scf00152g00146' => 'pax', 'Peaxi162Scf00173g00025' => 'pax', 'Peaxi162Scf00195g00102' => 'pax', 'Peaxi162Scf00402g00013' => 'pax', 'Peaxi162Scf00519g00618' => 'pax', 'PGR004G2838' => 'pgr', 'PGR044G2275' => 'pgr', 'PGR102G1377' => 'pgr', 'PGR119G1245' => 'pgr', 'PGR142G4449' => 'pgr', 'PGSC0003DMG400004532' => 'stu', 'PGSC0003DMG400011950' => 'stu', 'PGSC0003DMG400023391' => 'stu', 'PGSC0003DMG400023985' => 'stu', 'PGSC0003DMG400026360' => 'stu', 'PGSC0003DMG400035711' => 'stu', 'PGSC0003DMG400037286' => 'stu', 'PGSC0003DMG402005881' => 'stu', 'Phvul.002G045400' => 'pvu', 'Phvul.006G216600' => 'pvu', 'Phvul.006G216700' => 'pvu', 'Phvul.006G216800' => 'pvu', 'Phvul.007G022500' => 'pvu', 'Phvul.011G094400' => 'pvu', 'Potri.001G470700' => 'ptr', 'Potri.003G015200' => 'ptr', 'Potri.004G202500' => 'ptr', 'Potri.004G218400' => 'ptr', 'Potri.008G020100' => 'ptr', 'Potri.008G153200' => 'ptr', 'Potri.009G163800' => 'ptr', 'Potri.010G087300' => 'ptr', 'Potri.010G239100' => 'ptr', 'Pp3c10_16100' => 'ppa', 'Pp3c10_16880' => 'ppa', 'Pp3c16_6230' => 'ppa', 'Pp3c17_18910' => 'ppa', 'Pp3c3_22119' => 'ppa', 'Pp3c3_22140' => 'ppa', 'Pp3c4_8159' => 'ppa', 'Pp3c4_8171' => 'ppa', 'Pp3c4_8330' => 'ppa', 'PRCOL_00004098' => 'pco', 'Prupe.1G013900' => 'ppe', 'Prupe.1G226300' => 'ppe', 'Prupe.1G573600' => 'ppe', 'Prupe.6G130100' => 'ppe', 'Psat3g090040' => 'psa', 'Psat4g210440' => 'psa', 'Psat6g231040' => 'psa', 'Psat6g231080' => 'psa', 'Psat7g063000' => 'psa', 'Psat7g188000' => 'psa', 'Psat7g188040' => 'psa', 'PSO017G0206' => 'pso', 'PSO170G0501' => 'pso', 'PSO170G6422' => 'pso', 'PSO210G7739' => 'pso', 'PSO339G1808' => 'pso', 'PSO339G6135' => 'pso', 'PSO384G0010' => 'pso', 'PSO384G0964' => 'pso', 'PSO761G0050' => 'pso', 'PSO782G4085' => 'pso', 'QL01p012264' => 'qlo', 'QL02p099491' => 'qlo', 'QL03p033868' => 'qlo', 'QL04p046678' => 'qlo', 'QL06p002448' => 'qlo', 'RcHm_v2.0_Chr4g0416181' => 'rch', 'RcHm_v2.0_Chr5g0044701' => 'rch', 'RcHm_v2.0_Chr6g0265781' => 'rch', 'RcHm_v2.0_Chr7g0221031' => 'rch', 'Rhsim04G0202000' => 'rsi', 'Rhsim11G0127300' => 'rsi', 'Rhsim13G0111800' => 'rsi', 'Sabra01G0165600' => 'sbr', 'Sabra03G0008300' => 'sbr', 'Sabra04G0136900' => 'sbr', 'Sabra08G0013400' => 'sbr', 'Sabra08G0116800' => 'sbr', 'Sabra09G0128000' => 'sbr', 'Sabra10G0055500' => 'sbr', 'Sabra10G0073300' => 'sbr', 'SalBow3G0385' => 'sbo', 'SalBow3G1119' => 'sbo', 'SalBow3G2005' => 'sbo', 'SalBow6G2563' => 'sbo', 'SalBow6G6386' => 'sbo', 'Sc06g0008800' => 'sci', 'Sc07g0004950' => 'sci', 'Sc09g0005340' => 'sci', 'Sc13g0004410' => 'sci', 'Sc21g0007090' => 'sci', 'Sed0009285' => 'sed', 'Sed0017583' => 'sed', 'Sed0019699' => 'sed', 'Sed0023107' => 'sed', 'SEGI_10916' => 'sgi', 'SEGI_16217' => 'sgi', 'SEGI_19466' => 'sgi', 'SEGI_41115' => 'sgi', 'SGA_v2.0_scaffold111G31534' => 'sas', 'SGA_v2.0_scaffold22G09864' => 'sas', 'SGA_v2.0_scaffold338G49219' => 'sas', 'SGA_v2.0_scaffold92G28298' => 'sas', 'SMO119G0064' => 'smo', 'SMO223G0038' => 'smo', 'SMO347G0584' => 'smo', 'SMO351G0010' => 'smo', 'SMO356G0404' => 'smo', 'Solyc01g103920.3' => 'sly', 'Solyc04g009710.2' => 'sly', 'Solyc05g055280.2' => 'sly', 'Solyc10g044520.3' => 'sly', 'Solyc10g075160.1' => 'sly', 'Solyc11g006910.3' => 'sly', 'Solyc11g068430.3' => 'sly', 'Sopen01g046310' => 'spe', 'Sopen03g001200' => 'spe', 'Sopen04g004830' => 'spe', 'Sopen05g033720' => 'spe', 'Sopen06g030740' => 'spe', 'Sopen10g013090' => 'spe', 'Sopen10g027630' => 'spe', 'Sopen10g027640' => 'spe', 'Sopen11g002820' => 'spe', 'Sopen11g027140' => 'spe', 'Sp1g09680' => 'spa', 'Sp2g03630' => 'spa', 'Sp4g10320' => 'spa', 'Sp6g33400' => 'spa', 'Sp7g13030' => 'spa', 'TAR365G0317' => 'tar', 'TAR376G0979' => 'tar', 'TAR623G1665' => 'tar', 'TAR633G2373' => 'tar', 'TAR636G1400' => 'tar', 'THA.LOC104800529' => 'tha', 'THA.LOC104808547' => 'tha', 'THA.LOC104809615' => 'tha', 'THA.LOC104815724' => 'tha', 'THA.LOC104818480' => 'tha', 'THA.LOC104819179' => 'tha', 'THA.LOC104822270' => 'tha', 'THA.LOC104826425' => 'tha', 'Thecc.02G089700' => 'tca', 'Thecc.04G232300' => 'tca', 'Thecc.09G283400' => 'tca', 'Thhalv10009020m.g' => 'esa', 'Thhalv10015506m.g' => 'esa', 'Thhalv10017364m.g' => 'esa', 'Thhalv10023742m.g' => 'esa', 'Thhalv10026483m.g' => 'esa', 'TPR.G17232' => 'tpr', 'TPR.G2133' => 'tpr', 'TPR.G2498' => 'tpr', 'TPR.G31942' => 'tpr', 'TPR.G37877' => 'tpr', 'TPR.G4571' => 'tpr', 'TWI14G1113' => 'twi', 'TWI15G0426' => 'twi', 'TWI31G1005' => 'twi', 'TWI38G0513' => 'twi', 'TWI38G1484' => 'twi', 'TWI73G1098' => 'twi', 'unitig_26.g10519' => 'ugi', 'unitig_736.g22395' => 'ugi', 'unitig_747.g21234' => 'ugi', 'unitig_747.g21942' => 'ugi', 'vmacro14351' => 'vma', 'VMungo0540G0082' => 'vmu', 'VMungo0540G0405' => 'vmu', 'VMungo0540G1486' => 'vmu', 'VMungo0540G1692' => 'vmu', 'VMungo0720G2473' => 'vmu', 'VMungo1127G1562' => 'vmu', 'VMungo1215G1918' => 'vmu', 'Zm00001eb052650' => 'zma', 'Zm00001eb063710' => 'zma', 'Zm00001eb083950' => 'zma', 'Zm00001eb174420' => 'zma', 'Zm00001eb260140' => 'zma', 'Zm00001eb260150' => 'zma', 'Zm00001eb260160' => 'zma', 'Zm00001eb348290' => 'zma', 'Zm00001eb366870' => 'zma', 'Zm00001eb421930' => 'zma' ) $gf_id = 'HOM05D001025' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001025' ) $data_identifier = 'HOM05D001025' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 19, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 2, 'amhyb' => (int) 4, 'aly' => (int) 4, 'aox' => (int) 4, 'arhy' => (int) 3, 'ath' => (int) 5, 'atr' => (int) 4, 'acertr' => (int) 3, 'cqu' => (int) 7, 'bca' => (int) 17, 'bol' => (int) 10, 'bra' => (int) 9, 'can' => (int) 10, 'cansat' => (int) 6, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 5, 'cbr' => (int) 5, 'ccan' => (int) 5, 'cde' => (int) 4, 'cfa' => (int) 3, 'ccl' => (int) 6, 'cil' => (int) 4, 'cla' => (int) 3, 'col' => (int) 3, 'cpa' => (int) 3, 'cre' => (int) 7, 'csa' => (int) 5, 'camsi' => (int) 9, 'dca' => (int) 4, 'din' => (int) 5, 'dzi' => (int) 7, 'eca' => (int) 6, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 12, 'fve' => (int) 4, 'gma' => (int) 12, 'ghi' => (int) 17, 'gra' => (int) 9, 'vvi' => (int) 2, 'han' => (int) 8, 'cav' => (int) 5, 'hma' => (int) 9, 'vpl' => (int) 4, 'sun' => (int) 2, 'lal' => (int) 9, 'lja' => (int) 5, 'lonja' => (int) 6, 'lsa' => (int) 3, 'mes' => (int) 8, 'mpo' => (int) 3, 'mbi' => (int) 4, 'mco' => (int) 3, 'mdo' => (int) 5, 'mtr' => (int) 7, 'cme' => (int) 6, 'egut' => (int) 7, 'ama' => (int) 3, 'nta' => (int) 12, 'nnu' => (int) 9, 'oeu' => (int) 4, 'osa' => (int) 7, 'pax' => (int) 9, 'pgr' => (int) 5, 'stu' => (int) 8, 'pvu' => (int) 6, 'ptr' => (int) 9, 'ppa' => (int) 9, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 7, 'pso' => (int) 10, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 3, 'sbr' => (int) 8, 'sbo' => (int) 5, 'sci' => (int) 5, 'sed' => (int) 4, 'sgi' => (int) 4, 'sas' => (int) 4, 'smo' => (int) 5, 'sly' => (int) 7, 'spe' => (int) 10, 'spa' => (int) 5, 'tar' => (int) 5, 'tha' => (int) 8, 'tca' => (int) 3, 'esa' => (int) 5, 'tpr' => (int) 6, 'twi' => (int) 6, 'ugi' => (int) 4, 'vma' => (int) 1, 'vmu' => (int) 7, 'zma' => (int) 10 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb421930' $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' => 'HOM05D001025', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '592', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p22650' => 'bna', 'A01p29720' => 'bna', 'A03p26560' => 'bna', 'A03p68820' => 'bna', 'A04p20980' => 'bna', 'A06p07730' => 'bna', 'A07p18260' => 'bna', 'A08p33710' => 'bna', 'A09p16970' => 'bna', 'A10p27490' => 'bna', 'Aa31LG1G17300' => 'aar', 'Aa31LG1G3910' => 'aar', 'Aa31LG2G9630' => 'aar', 'Aa31LG5G8360' => 'aar', 'Aa31LG9G2410' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4699' => 'aag', 'Actinidia23512' => 'ach', 'Actinidia37080' => 'ach', 'Ah.01g020380' => 'amhyb', 'Ah.08g215710' => 'amhyb', 'Ah.09g225110' => 'amhyb', 'Ah.10g036680' => 'amhyb', 'AL1G21940' => 'aly', 'AL2G15540' => 'aly', 'AL4G21520' => 'aly', 'AL7G40960' => 'aly', 'Aqoxy2G01191' => 'aox', 'Aqoxy2G03393' => 'aox', 'Aqoxy4G02775' => 'aox', 'Aqoxy6G00058' => 'aox', 'arahy.Tifrunner.gnm1.ann1.9X74H2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CW3FX9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R485W7' => 'arhy', 'AT1G10960' => 'ath', 'AT1G60950' => 'ath', 'AT2G27510' => 'ath', 'AT4G14890' => 'ath', 'AT5G10000' => 'ath', 'ATR0665G624' => 'atr', 'ATR0697G138' => 'atr', 'ATR0776G046' => 'atr', 'ATR1134G135' => 'atr', 'Atru.chr12.1025' => 'acertr', 'Atru.chr3.3241' => 'acertr', 'Atru.chr4.2460' => 'acertr', 'AUR62007427' => 'cqu', 'AUR62010960' => 'cqu', 'AUR62012201' => 'cqu', 'AUR62021470' => 'cqu', 'AUR62022834' => 'cqu', 'AUR62033635' => 'cqu', 'AUR62036186' => 'cqu', 'BcaB01g03077' => 'bca', 'BcaB02g10093' => 'bca', 'BcaB04g20295' => 'bca', 'BcaB06g28147' => 'bca', 'BcaB07g31253' => 'bca', 'BcaC01g04946' => 'bca', 'BcaC02g10614' => 'bca', 'BcaC02g10885' => 'bca', 'BcaC04g19356' => 'bca', 'BcaC04g22297' => 'bca', 'BcaC05g24977' => 'bca', 'BcaC06g31823' => 'bca', 'BcaC07g38633' => 'bca', 'BcaC09g49353' => 'bca', 'BcaC09g50168' => 'bca', 'BcaNung00322' => 'bca', 'BcaNung04769' => 'bca', 'BolC1t02753H' => 'bol', 'BolC1t03721H' => 'bol', 'BolC3t15525H' => 'bol', 'BolC4t23903H' => 'bol', 'BolC4t24231H' => 'bol', 'BolC4t27209H' => 'bol', 'BolC5t29671H' => 'bol', 'BolC8t49044H' => 'bol', 'BolC9t54999H' => 'bol', 'BolC9t59517H' => 'bol', 'BraA01t02178Z' => 'bra', 'BraA01t03099Z' => 'bra', 'BraA03t11867Z' => 'bra', 'BraA04t17667Z' => 'bra', 'BraA07t29542Z' => 'bra', 'BraA08t35287Z' => 'bra', 'BraA09t37334Z' => 'bra', 'BraA10t44801Z' => 'bra', 'BraSC39t46181Z' => 'bra', 'C01p28240' => 'bna', 'C01p37530' => 'bna', 'C03p31820' => 'bna', 'C04p24080' => 'bna', 'C04p25790' => 'bna', 'C04p56770' => 'bna', 'C05p09310' => 'bna', 'C09p21010' => 'bna', 'C09p67560' => 'bna', 'CAN.G1324.7' => 'can', 'CAN.G1358.10' => 'can', 'CAN.G1550.2' => 'can', 'CAN.G186.56' => 'can', 'CAN.G1965.1' => 'can', 'CAN.G645.15' => 'can', 'CAN.G798.26' => 'can', 'CAN.G798.27' => 'can', 'CAN.G798.29' => 'can', 'CAN.G919.31' => 'can', 'CANSAT11G0133' => 'cansat', 'CANSAT11G1171' => 'cansat', 'CANSAT11G2056' => 'cansat', 'CANSAT56G1202' => 'cansat', 'CANSAT56G1514' => 'cansat', 'CANSAT78G0455' => 'cansat', 'CARHR011190' => 'chi', 'CARHR051980' => 'chi', 'CARHR120170' => 'chi', 'CARHR203310' => 'chi', 'CARHR221490' => 'chi', 'Carub.0001s1054' => 'cru', 'Carub.0002s0431' => 'cru', 'Carub.0004s0818' => 'cru', 'Carub.0006s0846' => 'cru', 'Carub.0007s2722' => 'cru', 'Ca_00058_v3' => 'car', 'Ca_17831_v3' => 'car', 'Ca_19408_v3' => 'car', 'Ca_24397_v3' => 'car', 'Ca_25664_v3' => 'car', 'CBR_g21818' => 'cbr', 'CBR_g31195' => 'cbr', 'CBR_g32282' => 'cbr', 'CBR_g39599' => 'cbr', 'CBR_g49410' => 'cbr', 'Cc01_g09120' => 'ccan', 'Cc01_g09130' => 'ccan', 'Cc02_g09630' => 'ccan', 'Cc02_g22810' => 'ccan', 'Cc03_g03810' => 'ccan', 'CDE02G3718' => 'cde', 'CDE04G3183' => 'cde', 'CDE07G1046' => 'cde', 'CDE08G0480' => 'cde', 'Cfa005493' => 'cfa', 'Cfa010312' => 'cfa', 'Cfa015648' => 'cfa', 'Ciclev10002793m.g' => 'ccl', 'Ciclev10003356m.g' => 'ccl', 'Ciclev10006141m.g' => 'ccl', 'Ciclev10016676m.g' => 'ccl', 'Ciclev10017081m.g' => 'ccl', 'Ciclev10029499m.g' => 'ccl', 'CiPaw.01G166300' => 'cil', 'CiPaw.06G145600' => 'cil', 'CiPaw.13G040100' => 'cil', 'CiPaw.13G135800' => 'cil', 'ClCG01G012230' => 'cla', 'ClCG05G009510' => 'cla', 'ClCG08G008270' => 'cla', 'COL.COLO4_11763' => 'col', 'COL.COLO4_19876' => 'col', 'COL.COLO4_21481' => 'col', 'Cpa.g.sc118.34' => 'cpa', 'Cpa.g.sc32.13' => 'cpa', 'Cpa.g.sc58.103' => 'cpa', 'Cre03.g183850' => 'cre', 'Cre06.g306350' => 'cre', 'Cre07.g334800' => 'cre', 'Cre12.g487900' => 'cre', 'Cre14.g626700' => 'cre', 'Cre16.g658400' => 'cre', 'Cre17.g700950' => 'cre', 'CsaV3_1G014830' => 'csa', 'CsaV3_3G013320' => 'csa', 'CsaV3_3G019210' => 'csa', 'CsaV3_3G019220' => 'csa', 'CsaV3_6G004230' => 'csa', 'CSS0003773' => 'camsi', 'CSS0004563' => 'camsi', 'CSS0013949' => 'camsi', 'CSS0025971' => 'camsi', 'CSS0028570' => 'camsi', 'CSS0033127' => 'camsi', 'CSS0036051' => 'camsi', 'CSS0040087' => 'camsi', 'CSS0043179' => 'camsi', 'DCAR_006161' => 'dca', 'DCAR_010351' => 'dca', 'DCAR_012197' => 'dca', 'DCAR_024162' => 'dca', 'Dinv01030' => 'din', 'Dinv10924' => 'din', 'Dinv11835' => 'din', 'Dinv22841' => 'din', 'Dinv42553' => 'din', 'Duzib052G0560' => 'dzi', 'Duzib132G0389' => 'dzi', 'Duzib150G1181' => 'dzi', 'Duzib168G0623' => 'dzi', 'Duzib170G1036' => 'dzi', 'Duzib212G0200' => 'dzi', 'Duzib248G0194' => 'dzi', 'ECA232G2193' => 'eca', 'ECA233G0302' => 'eca', 'ECA234G2813' => 'eca', 'ECA234G4866' => 'eca', 'ECA240G3932' => 'eca', 'ECA248G0385' => 'eca', 'EL10Ac2g04781' => 'bvu', 'EL10Ac3g06445' => 'bvu', 'EL10Ac7g15825' => 'bvu', 'EL10Ac8g18550' => 'bvu', 'Eucgr.B03849' => 'egr', 'Eucgr.I02744' => 'egr', 'Eucgr.J00264' => 'egr', 'Eucgr.J00493' => 'egr', 'FAN04G2181' => 'fan', 'FAN07G2666' => 'fan', 'FAN11G0024' => 'fan', 'FAN12G1105' => 'fan', 'FAN13G0302' => 'fan', 'FAN15G2781' => 'fan', 'FAN16G1274' => 'fan', 'FAN17G2988' => 'fan', 'FAN18G2621' => 'fan', 'FAN21G0013' => 'fan', 'FAN22G1211' => 'fan', 'FAN25G3626' => 'fan', 'FvH4_2g09491' => 'fve', 'FvH4_3g24910' => 'fve', 'FvH4_4g15630' => 'fve', 'FvH4_5g28820' => 'fve', 'Glyma.01G238000' => 'gma', 'Glyma.05G168400' => 'gma', 'Glyma.08G126800' => 'gma', 'Glyma.08G188500' => 'gma', 'Glyma.10G278900' => 'gma', 'Glyma.11G005700' => 'gma', 'Glyma.11G183300' => 'gma', 'Glyma.12G089200' => 'gma', 'Glyma.12G169400' => 'gma', 'Glyma.12G169500' => 'gma', 'Glyma.12G169600' => 'gma', 'Glyma.20G110800' => 'gma', 'Gohir.A03G192900' => 'ghi', 'Gohir.A03G193000' => 'ghi', 'Gohir.A05G080700' => 'ghi', 'Gohir.A09G216000' => 'ghi', 'Gohir.A12G027700' => 'ghi', 'Gohir.A13G036200' => 'ghi', 'Gohir.A13G222600' => 'ghi', 'Gohir.D02G213900' => 'ghi', 'Gohir.D02G214000' => 'ghi', 'Gohir.D05G083700' => 'ghi', 'Gohir.D05G083800' => 'ghi', 'Gohir.D05G083850' => 'ghi', 'Gohir.D08G015400' => 'ghi', 'Gohir.D09G218400' => 'ghi', 'Gohir.D12G027100' => 'ghi', 'Gohir.D13G034500' => 'ghi', 'Gohir.D13G227400' => 'ghi', 'Gorai.005G241800' => 'gra', 'Gorai.005G241900' => 'gra', 'Gorai.006G239400' => 'gra', 'Gorai.008G027600' => 'gra', 'Gorai.009G085400' => 'gra', 'Gorai.009G085500' => 'gra', 'Gorai.013G039000' => 'gra', 'Gorai.013G194800' => 'gra', 'Gorai.013G257900' => 'gra', 'GSVIVG01000982001' => 'vvi', 'GSVIVG01017981001' => 'vvi', 'HanXRQChr01g0024061' => 'han', 'HanXRQChr09g0247831' => 'han', 'HanXRQChr10g0294611' => 'han', 'HanXRQChr10g0294621' => 'han', 'HanXRQChr11g0346821' => 'han', 'HanXRQChr13g0397461' => 'han', 'HanXRQChr16g0513651' => 'han', 'HanXRQChr16g0513701' => 'han', 'Haze_00897' => 'cav', 'Haze_01745' => 'cav', 'Haze_02486' => 'cav', 'Haze_02487' => 'cav', 'Haze_23374' => 'cav', 'Hma1.2p1_0578F.1_g182520' => 'hma', 'Hma1.2p1_0602F.1_g187350' => 'hma', 'Hma1.2p1_0602F.1_g187360' => 'hma', 'Hma1.2p1_0874F.1_g231320' => 'hma', 'Hma1.2p1_1197F.1_g266210' => 'hma', 'Hma1.2p1_1197F.1_g266220' => 'hma', 'Hma1.2p1_2167F.1_g315895' => 'hma', 'Hma1.2p1_2190F.1_g316640' => 'hma', 'Hma1.2p1_3645F.1_g337153' => 'hma', 'HPP92_004907' => 'vpl', 'HPP92_012134' => 'vpl', 'HPP92_025136' => 'vpl', 'HPP92_026087' => 'vpl', 'Hund06782' => 'sun', 'Hund06784' => 'sun', 'Lalb_Chr01g0004861' => 'lal', 'Lalb_Chr02g0140591' => 'lal', 'Lalb_Chr02g0140611' => 'lal', 'Lalb_Chr03g0028101' => 'lal', 'Lalb_Chr07g0185791' => 'lal', 'Lalb_Chr12g0204491' => 'lal', 'Lalb_Chr13g0295671' => 'lal', 'Lalb_Chr19g0136461' => 'lal', 'Lalb_Chr21g0309191' => 'lal', 'Lj1g0028158' => 'lja', 'Lj1P236T38' => 'lonja', 'Lj2C32G2' => 'lonja', 'Lj2P944T8' => 'lonja', 'Lj2P963T15' => 'lonja', 'Lj3g0011788' => 'lja', 'Lj4g0025027' => 'lja', 'Lj5P255T36' => 'lonja', 'Lj6g0018866' => 'lja', 'Lj6P608T31' => 'lonja', 'LjContig00408g0008879' => 'lja', 'Lsat_1_v5_gn_5_105820' => 'lsa', 'Lsat_1_v5_gn_6_38800' => 'lsa', 'Lsat_1_v5_gn_7_67141' => 'lsa', 'Manes.04G003400' => 'mes', 'Manes.07G020000' => 'mes', 'Manes.07G020100' => 'mes', 'Manes.07G020150' => 'mes', 'Manes.10G061500' => 'mes', 'Manes.10G123200' => 'mes', 'Manes.11G161900' => 'mes', 'Manes.15G029300' => 'mes', 'Mapoly0071s0018' => 'mpo', 'Mapoly0082s0023' => 'mpo', 'Mapoly3477s0001' => 'mpo', 'MBI05_g31233_MAGBIO' => 'mbi', 'MBI09_g05946_MAGBIO' => 'mbi', 'MBI09_g05947_MAGBIO' => 'mbi', 'MBI17_g08346_MAGBIO' => 'mbi', 'MCO04G038' => 'mco', 'MCO09G370' => 'mco', 'MCO13G605' => 'mco', 'MD00G1075500' => 'mdo', 'MD03G1144300' => 'mdo', 'MD08G1236800' => 'mdo', 'MD13G1193300' => 'mdo', 'MD15G1428700' => 'mdo', 'Medtr1g112030' => 'mtr', 'Medtr1g112050' => 'mtr', 'Medtr2g006290' => 'mtr', 'Medtr2g086510' => 'mtr', 'Medtr4g053120' => 'mtr', 'Medtr5g006320' => 'mtr', 'Medtr8g088720' => 'mtr', 'MELO3C004712.2' => 'cme', 'MELO3C006533.2' => 'cme', 'MELO3C019438.2' => 'cme', 'MELO3C019440.2' => 'cme', 'MELO3C019441.2' => 'cme', 'MELO3C019895.2' => 'cme', 'Migut.B00811' => 'egut', 'Migut.D02447' => 'egut', 'Migut.F00875' => 'egut', 'Migut.N00186' => 'egut', 'Migut.N01051' => 'egut', 'Migut.N02491' => 'egut', 'Migut.O00784' => 'egut', 'MSTRG.12367' => 'ama', 'MSTRG.18756' => 'ama', 'MSTRG.21042' => 'ama', 'Nitab4.5_0000559g0040' => 'nta', 'Nitab4.5_0000667g0190' => 'nta', 'Nitab4.5_0000755g0160' => 'nta', 'Nitab4.5_0001216g0080' => 'nta', 'Nitab4.5_0004069g0040' => 'nta', 'Nitab4.5_0004129g0010' => 'nta', 'Nitab4.5_0005744g0030' => 'nta', 'Nitab4.5_0006996g0030' => 'nta', 'Nitab4.5_0008971g0040' => 'nta', 'Nitab4.5_0009769g0020' => 'nta', 'Nitab4.5_0009833g0010' => 'nta', 'Nitab4.5_0013140g0020' => 'nta', 'Nn003s41376' => 'nnu', 'Nn1g01857' => 'nnu', 'Nn1g03611' => 'nnu', 'Nn1g06853' => 'nnu', 'Nn3g18360' => 'nnu', 'Nn4g26328' => 'nnu', 'Nn5g27531' => 'nnu', 'Nn6g34899' => 'nnu', 'Nn7g36299' => 'nnu', 'Oeu021485.1' => 'oeu', 'Oeu022433.1' => 'oeu', 'Oeu032111.1' => 'oeu', 'Oeu051608.1' => 'oeu', 'Os01g0860601' => 'osa', 'Os03g0659200' => 'osa', 'Os03g0835900' => 'osa', 'Os04g0412200' => 'osa', 'Os05g0443500' => 'osa', 'Os07g0251500' => 'osa', 'Os08g0104600' => 'osa', 'Peaxi162Scf00003g00047' => 'pax', 'Peaxi162Scf00003g00052' => 'pax', 'Peaxi162Scf00003g00394' => 'pax', 'Peaxi162Scf00091g00621' => 'pax', 'Peaxi162Scf00152g00146' => 'pax', 'Peaxi162Scf00173g00025' => 'pax', 'Peaxi162Scf00195g00102' => 'pax', 'Peaxi162Scf00402g00013' => 'pax', 'Peaxi162Scf00519g00618' => 'pax', 'PGR004G2838' => 'pgr', 'PGR044G2275' => 'pgr', 'PGR102G1377' => 'pgr', 'PGR119G1245' => 'pgr', 'PGR142G4449' => 'pgr', 'PGSC0003DMG400004532' => 'stu', 'PGSC0003DMG400011950' => 'stu', 'PGSC0003DMG400023391' => 'stu', 'PGSC0003DMG400023985' => 'stu', 'PGSC0003DMG400026360' => 'stu', 'PGSC0003DMG400035711' => 'stu', 'PGSC0003DMG400037286' => 'stu', 'PGSC0003DMG402005881' => 'stu', 'Phvul.002G045400' => 'pvu', 'Phvul.006G216600' => 'pvu', 'Phvul.006G216700' => 'pvu', 'Phvul.006G216800' => 'pvu', 'Phvul.007G022500' => 'pvu', 'Phvul.011G094400' => 'pvu', 'Potri.001G470700' => 'ptr', 'Potri.003G015200' => 'ptr', 'Potri.004G202500' => 'ptr', 'Potri.004G218400' => 'ptr', 'Potri.008G020100' => 'ptr', 'Potri.008G153200' => 'ptr', 'Potri.009G163800' => 'ptr', 'Potri.010G087300' => 'ptr', 'Potri.010G239100' => 'ptr', 'Pp3c10_16100' => 'ppa', 'Pp3c10_16880' => 'ppa', 'Pp3c16_6230' => 'ppa', 'Pp3c17_18910' => 'ppa', 'Pp3c3_22119' => 'ppa', 'Pp3c3_22140' => 'ppa', 'Pp3c4_8159' => 'ppa', 'Pp3c4_8171' => 'ppa', 'Pp3c4_8330' => 'ppa', 'PRCOL_00004098' => 'pco', 'Prupe.1G013900' => 'ppe', 'Prupe.1G226300' => 'ppe', 'Prupe.1G573600' => 'ppe', 'Prupe.6G130100' => 'ppe', 'Psat3g090040' => 'psa', 'Psat4g210440' => 'psa', 'Psat6g231040' => 'psa', 'Psat6g231080' => 'psa', 'Psat7g063000' => 'psa', 'Psat7g188000' => 'psa', 'Psat7g188040' => 'psa', 'PSO017G0206' => 'pso', 'PSO170G0501' => 'pso', 'PSO170G6422' => 'pso', 'PSO210G7739' => 'pso', 'PSO339G1808' => 'pso', 'PSO339G6135' => 'pso', 'PSO384G0010' => 'pso', 'PSO384G0964' => 'pso', 'PSO761G0050' => 'pso', 'PSO782G4085' => 'pso', 'QL01p012264' => 'qlo', 'QL02p099491' => 'qlo', 'QL03p033868' => 'qlo', 'QL04p046678' => 'qlo', 'QL06p002448' => 'qlo', 'RcHm_v2.0_Chr4g0416181' => 'rch', 'RcHm_v2.0_Chr5g0044701' => 'rch', 'RcHm_v2.0_Chr6g0265781' => 'rch', 'RcHm_v2.0_Chr7g0221031' => 'rch', 'Rhsim04G0202000' => 'rsi', 'Rhsim11G0127300' => 'rsi', 'Rhsim13G0111800' => 'rsi', 'Sabra01G0165600' => 'sbr', 'Sabra03G0008300' => 'sbr', 'Sabra04G0136900' => 'sbr', 'Sabra08G0013400' => 'sbr', 'Sabra08G0116800' => 'sbr', 'Sabra09G0128000' => 'sbr', 'Sabra10G0055500' => 'sbr', 'Sabra10G0073300' => 'sbr', 'SalBow3G0385' => 'sbo', 'SalBow3G1119' => 'sbo', 'SalBow3G2005' => 'sbo', 'SalBow6G2563' => 'sbo', 'SalBow6G6386' => 'sbo', 'Sc06g0008800' => 'sci', 'Sc07g0004950' => 'sci', 'Sc09g0005340' => 'sci', 'Sc13g0004410' => 'sci', 'Sc21g0007090' => 'sci', 'Sed0009285' => 'sed', 'Sed0017583' => 'sed', 'Sed0019699' => 'sed', 'Sed0023107' => 'sed', 'SEGI_10916' => 'sgi', 'SEGI_16217' => 'sgi', 'SEGI_19466' => 'sgi', 'SEGI_41115' => 'sgi', 'SGA_v2.0_scaffold111G31534' => 'sas', 'SGA_v2.0_scaffold22G09864' => 'sas', 'SGA_v2.0_scaffold338G49219' => 'sas', 'SGA_v2.0_scaffold92G28298' => 'sas', 'SMO119G0064' => 'smo', 'SMO223G0038' => 'smo', 'SMO347G0584' => 'smo', 'SMO351G0010' => 'smo', 'SMO356G0404' => 'smo', 'Solyc01g103920.3' => 'sly', 'Solyc04g009710.2' => 'sly', 'Solyc05g055280.2' => 'sly', 'Solyc10g044520.3' => 'sly', 'Solyc10g075160.1' => 'sly', 'Solyc11g006910.3' => 'sly', 'Solyc11g068430.3' => 'sly', 'Sopen01g046310' => 'spe', 'Sopen03g001200' => 'spe', 'Sopen04g004830' => 'spe', 'Sopen05g033720' => 'spe', 'Sopen06g030740' => 'spe', 'Sopen10g013090' => 'spe', 'Sopen10g027630' => 'spe', 'Sopen10g027640' => 'spe', 'Sopen11g002820' => 'spe', 'Sopen11g027140' => 'spe', 'Sp1g09680' => 'spa', 'Sp2g03630' => 'spa', 'Sp4g10320' => 'spa', 'Sp6g33400' => 'spa', 'Sp7g13030' => 'spa', 'TAR365G0317' => 'tar', 'TAR376G0979' => 'tar', 'TAR623G1665' => 'tar', 'TAR633G2373' => 'tar', 'TAR636G1400' => 'tar', 'THA.LOC104800529' => 'tha', 'THA.LOC104808547' => 'tha', 'THA.LOC104809615' => 'tha', 'THA.LOC104815724' => 'tha', 'THA.LOC104818480' => 'tha', 'THA.LOC104819179' => 'tha', 'THA.LOC104822270' => 'tha', 'THA.LOC104826425' => 'tha', 'Thecc.02G089700' => 'tca', 'Thecc.04G232300' => 'tca', 'Thecc.09G283400' => 'tca', 'Thhalv10009020m.g' => 'esa', 'Thhalv10015506m.g' => 'esa', 'Thhalv10017364m.g' => 'esa', 'Thhalv10023742m.g' => 'esa', 'Thhalv10026483m.g' => 'esa', 'TPR.G17232' => 'tpr', 'TPR.G2133' => 'tpr', 'TPR.G2498' => 'tpr', 'TPR.G31942' => 'tpr', 'TPR.G37877' => 'tpr', 'TPR.G4571' => 'tpr', 'TWI14G1113' => 'twi', 'TWI15G0426' => 'twi', 'TWI31G1005' => 'twi', 'TWI38G0513' => 'twi', 'TWI38G1484' => 'twi', 'TWI73G1098' => 'twi', 'unitig_26.g10519' => 'ugi', 'unitig_736.g22395' => 'ugi', 'unitig_747.g21234' => 'ugi', 'unitig_747.g21942' => 'ugi', 'vmacro14351' => 'vma', 'VMungo0540G0082' => 'vmu', 'VMungo0540G0405' => 'vmu', 'VMungo0540G1486' => 'vmu', 'VMungo0540G1692' => 'vmu', 'VMungo0720G2473' => 'vmu', 'VMungo1127G1562' => 'vmu', 'VMungo1215G1918' => 'vmu', 'Zm00001eb052650' => 'zma', 'Zm00001eb063710' => 'zma', 'Zm00001eb083950' => 'zma', 'Zm00001eb174420' => 'zma', 'Zm00001eb260140' => 'zma', 'Zm00001eb260150' => 'zma', 'Zm00001eb260160' => 'zma', 'Zm00001eb348290' => 'zma', 'Zm00001eb366870' => 'zma', 'Zm00001eb421930' => 'zma' ), 'gf_id' => 'HOM05D001025', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001025' ), 'data_identifier' => 'HOM05D001025', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001025', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '592', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p22650' => 'bna', 'A01p29720' => 'bna', 'A03p26560' => 'bna', 'A03p68820' => 'bna', 'A04p20980' => 'bna', 'A06p07730' => 'bna', 'A07p18260' => 'bna', 'A08p33710' => 'bna', 'A09p16970' => 'bna', 'A10p27490' => 'bna', 'Aa31LG1G17300' => 'aar', 'Aa31LG1G3910' => 'aar', 'Aa31LG2G9630' => 'aar', 'Aa31LG5G8360' => 'aar', 'Aa31LG9G2410' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4699' => 'aag', 'Actinidia23512' => 'ach', 'Actinidia37080' => 'ach', 'Ah.01g020380' => 'amhyb', 'Ah.08g215710' => 'amhyb', 'Ah.09g225110' => 'amhyb', 'Ah.10g036680' => 'amhyb', 'AL1G21940' => 'aly', 'AL2G15540' => 'aly', 'AL4G21520' => 'aly', 'AL7G40960' => 'aly', 'Aqoxy2G01191' => 'aox', 'Aqoxy2G03393' => 'aox', 'Aqoxy4G02775' => 'aox', 'Aqoxy6G00058' => 'aox', 'arahy.Tifrunner.gnm1.ann1.9X74H2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CW3FX9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R485W7' => 'arhy', 'AT1G10960' => 'ath', 'AT1G60950' => 'ath', 'AT2G27510' => 'ath', 'AT4G14890' => 'ath', 'AT5G10000' => 'ath', 'ATR0665G624' => 'atr', 'ATR0697G138' => 'atr', 'ATR0776G046' => 'atr', 'ATR1134G135' => 'atr', 'Atru.chr12.1025' => 'acertr', 'Atru.chr3.3241' => 'acertr', 'Atru.chr4.2460' => 'acertr', 'AUR62007427' => 'cqu', 'AUR62010960' => 'cqu', 'AUR62012201' => 'cqu', 'AUR62021470' => 'cqu', 'AUR62022834' => 'cqu', 'AUR62033635' => 'cqu', 'AUR62036186' => 'cqu', 'BcaB01g03077' => 'bca', 'BcaB02g10093' => 'bca', 'BcaB04g20295' => 'bca', 'BcaB06g28147' => 'bca', 'BcaB07g31253' => 'bca', 'BcaC01g04946' => 'bca', 'BcaC02g10614' => 'bca', 'BcaC02g10885' => 'bca', 'BcaC04g19356' => 'bca', 'BcaC04g22297' => 'bca', 'BcaC05g24977' => 'bca', 'BcaC06g31823' => 'bca', 'BcaC07g38633' => 'bca', 'BcaC09g49353' => 'bca', 'BcaC09g50168' => 'bca', 'BcaNung00322' => 'bca', 'BcaNung04769' => 'bca', 'BolC1t02753H' => 'bol', 'BolC1t03721H' => 'bol', 'BolC3t15525H' => 'bol', 'BolC4t23903H' => 'bol', 'BolC4t24231H' => 'bol', 'BolC4t27209H' => 'bol', 'BolC5t29671H' => 'bol', 'BolC8t49044H' => 'bol', 'BolC9t54999H' => 'bol', 'BolC9t59517H' => 'bol', 'BraA01t02178Z' => 'bra', 'BraA01t03099Z' => 'bra', 'BraA03t11867Z' => 'bra', 'BraA04t17667Z' => 'bra', 'BraA07t29542Z' => 'bra', 'BraA08t35287Z' => 'bra', 'BraA09t37334Z' => 'bra', 'BraA10t44801Z' => 'bra', 'BraSC39t46181Z' => 'bra', 'C01p28240' => 'bna', 'C01p37530' => 'bna', 'C03p31820' => 'bna', 'C04p24080' => 'bna', 'C04p25790' => 'bna', 'C04p56770' => 'bna', 'C05p09310' => 'bna', 'C09p21010' => 'bna', 'C09p67560' => 'bna', 'CAN.G1324.7' => 'can', 'CAN.G1358.10' => 'can', 'CAN.G1550.2' => 'can', 'CAN.G186.56' => 'can', 'CAN.G1965.1' => 'can', 'CAN.G645.15' => 'can', 'CAN.G798.26' => 'can', 'CAN.G798.27' => 'can', 'CAN.G798.29' => 'can', 'CAN.G919.31' => 'can', 'CANSAT11G0133' => 'cansat', 'CANSAT11G1171' => 'cansat', 'CANSAT11G2056' => 'cansat', 'CANSAT56G1202' => 'cansat', 'CANSAT56G1514' => 'cansat', 'CANSAT78G0455' => 'cansat', 'CARHR011190' => 'chi', 'CARHR051980' => 'chi', 'CARHR120170' => 'chi', 'CARHR203310' => 'chi', 'CARHR221490' => 'chi', 'Carub.0001s1054' => 'cru', 'Carub.0002s0431' => 'cru', 'Carub.0004s0818' => 'cru', 'Carub.0006s0846' => 'cru', 'Carub.0007s2722' => 'cru', 'Ca_00058_v3' => 'car', 'Ca_17831_v3' => 'car', 'Ca_19408_v3' => 'car', 'Ca_24397_v3' => 'car', 'Ca_25664_v3' => 'car', 'CBR_g21818' => 'cbr', 'CBR_g31195' => 'cbr', 'CBR_g32282' => 'cbr', 'CBR_g39599' => 'cbr', 'CBR_g49410' => 'cbr', 'Cc01_g09120' => 'ccan', 'Cc01_g09130' => 'ccan', 'Cc02_g09630' => 'ccan', 'Cc02_g22810' => 'ccan', 'Cc03_g03810' => 'ccan', 'CDE02G3718' => 'cde', 'CDE04G3183' => 'cde', 'CDE07G1046' => 'cde', 'CDE08G0480' => 'cde', 'Cfa005493' => 'cfa', 'Cfa010312' => 'cfa', 'Cfa015648' => 'cfa', 'Ciclev10002793m.g' => 'ccl', 'Ciclev10003356m.g' => 'ccl', 'Ciclev10006141m.g' => 'ccl', 'Ciclev10016676m.g' => 'ccl', 'Ciclev10017081m.g' => 'ccl', 'Ciclev10029499m.g' => 'ccl', 'CiPaw.01G166300' => 'cil', 'CiPaw.06G145600' => 'cil', 'CiPaw.13G040100' => 'cil', 'CiPaw.13G135800' => 'cil', 'ClCG01G012230' => 'cla', 'ClCG05G009510' => 'cla', 'ClCG08G008270' => 'cla', 'COL.COLO4_11763' => 'col', 'COL.COLO4_19876' => 'col', 'COL.COLO4_21481' => 'col', 'Cpa.g.sc118.34' => 'cpa', 'Cpa.g.sc32.13' => 'cpa', 'Cpa.g.sc58.103' => 'cpa', 'Cre03.g183850' => 'cre', 'Cre06.g306350' => 'cre', 'Cre07.g334800' => 'cre', 'Cre12.g487900' => 'cre', 'Cre14.g626700' => 'cre', 'Cre16.g658400' => 'cre', 'Cre17.g700950' => 'cre', 'CsaV3_1G014830' => 'csa', 'CsaV3_3G013320' => 'csa', 'CsaV3_3G019210' => 'csa', 'CsaV3_3G019220' => 'csa', 'CsaV3_6G004230' => 'csa', 'CSS0003773' => 'camsi', 'CSS0004563' => 'camsi', 'CSS0013949' => 'camsi', 'CSS0025971' => 'camsi', 'CSS0028570' => 'camsi', 'CSS0033127' => 'camsi', 'CSS0036051' => 'camsi', 'CSS0040087' => 'camsi', 'CSS0043179' => 'camsi', 'DCAR_006161' => 'dca', 'DCAR_010351' => 'dca', 'DCAR_012197' => 'dca', 'DCAR_024162' => 'dca', 'Dinv01030' => 'din', 'Dinv10924' => 'din', 'Dinv11835' => 'din', 'Dinv22841' => 'din', 'Dinv42553' => 'din', 'Duzib052G0560' => 'dzi', 'Duzib132G0389' => 'dzi', 'Duzib150G1181' => 'dzi', 'Duzib168G0623' => 'dzi', 'Duzib170G1036' => 'dzi', 'Duzib212G0200' => 'dzi', 'Duzib248G0194' => 'dzi', 'ECA232G2193' => 'eca', 'ECA233G0302' => 'eca', 'ECA234G2813' => 'eca', 'ECA234G4866' => 'eca', 'ECA240G3932' => 'eca', 'ECA248G0385' => 'eca', 'EL10Ac2g04781' => 'bvu', 'EL10Ac3g06445' => 'bvu', 'EL10Ac7g15825' => 'bvu', 'EL10Ac8g18550' => 'bvu', 'Eucgr.B03849' => 'egr', 'Eucgr.I02744' => 'egr', 'Eucgr.J00264' => 'egr', 'Eucgr.J00493' => 'egr', 'FAN04G2181' => 'fan', 'FAN07G2666' => 'fan', 'FAN11G0024' => 'fan', 'FAN12G1105' => 'fan', 'FAN13G0302' => 'fan', 'FAN15G2781' => 'fan', 'FAN16G1274' => 'fan', 'FAN17G2988' => 'fan', 'FAN18G2621' => 'fan', 'FAN21G0013' => 'fan', 'FAN22G1211' => 'fan', 'FAN25G3626' => 'fan', 'FvH4_2g09491' => 'fve', 'FvH4_3g24910' => 'fve', 'FvH4_4g15630' => 'fve', 'FvH4_5g28820' => 'fve', 'Glyma.01G238000' => 'gma', 'Glyma.05G168400' => 'gma', 'Glyma.08G126800' => 'gma', 'Glyma.08G188500' => 'gma', 'Glyma.10G278900' => 'gma', 'Glyma.11G005700' => 'gma', 'Glyma.11G183300' => 'gma', 'Glyma.12G089200' => 'gma', 'Glyma.12G169400' => 'gma', 'Glyma.12G169500' => 'gma', 'Glyma.12G169600' => 'gma', 'Glyma.20G110800' => 'gma', 'Gohir.A03G192900' => 'ghi', 'Gohir.A03G193000' => 'ghi', 'Gohir.A05G080700' => 'ghi', 'Gohir.A09G216000' => 'ghi', 'Gohir.A12G027700' => 'ghi', 'Gohir.A13G036200' => 'ghi', 'Gohir.A13G222600' => 'ghi', 'Gohir.D02G213900' => 'ghi', 'Gohir.D02G214000' => 'ghi', 'Gohir.D05G083700' => 'ghi', 'Gohir.D05G083800' => 'ghi', 'Gohir.D05G083850' => 'ghi', 'Gohir.D08G015400' => 'ghi', 'Gohir.D09G218400' => 'ghi', 'Gohir.D12G027100' => 'ghi', 'Gohir.D13G034500' => 'ghi', 'Gohir.D13G227400' => 'ghi', 'Gorai.005G241800' => 'gra', 'Gorai.005G241900' => 'gra', 'Gorai.006G239400' => 'gra', 'Gorai.008G027600' => 'gra', 'Gorai.009G085400' => 'gra', 'Gorai.009G085500' => 'gra', 'Gorai.013G039000' => 'gra', 'Gorai.013G194800' => 'gra', 'Gorai.013G257900' => 'gra', 'GSVIVG01000982001' => 'vvi', 'GSVIVG01017981001' => 'vvi', 'HanXRQChr01g0024061' => 'han', 'HanXRQChr09g0247831' => 'han', 'HanXRQChr10g0294611' => 'han', 'HanXRQChr10g0294621' => 'han', 'HanXRQChr11g0346821' => 'han', 'HanXRQChr13g0397461' => 'han', 'HanXRQChr16g0513651' => 'han', 'HanXRQChr16g0513701' => 'han', 'Haze_00897' => 'cav', 'Haze_01745' => 'cav', 'Haze_02486' => 'cav', 'Haze_02487' => 'cav', 'Haze_23374' => 'cav', 'Hma1.2p1_0578F.1_g182520' => 'hma', 'Hma1.2p1_0602F.1_g187350' => 'hma', 'Hma1.2p1_0602F.1_g187360' => 'hma', 'Hma1.2p1_0874F.1_g231320' => 'hma', 'Hma1.2p1_1197F.1_g266210' => 'hma', 'Hma1.2p1_1197F.1_g266220' => 'hma', 'Hma1.2p1_2167F.1_g315895' => 'hma', 'Hma1.2p1_2190F.1_g316640' => 'hma', 'Hma1.2p1_3645F.1_g337153' => 'hma', 'HPP92_004907' => 'vpl', 'HPP92_012134' => 'vpl', 'HPP92_025136' => 'vpl', 'HPP92_026087' => 'vpl', 'Hund06782' => 'sun', 'Hund06784' => 'sun', 'Lalb_Chr01g0004861' => 'lal', 'Lalb_Chr02g0140591' => 'lal', 'Lalb_Chr02g0140611' => 'lal', 'Lalb_Chr03g0028101' => 'lal', 'Lalb_Chr07g0185791' => 'lal', 'Lalb_Chr12g0204491' => 'lal', 'Lalb_Chr13g0295671' => 'lal', 'Lalb_Chr19g0136461' => 'lal', 'Lalb_Chr21g0309191' => 'lal', 'Lj1g0028158' => 'lja', 'Lj1P236T38' => 'lonja', 'Lj2C32G2' => 'lonja', 'Lj2P944T8' => 'lonja', 'Lj2P963T15' => 'lonja', 'Lj3g0011788' => 'lja', 'Lj4g0025027' => 'lja', 'Lj5P255T36' => 'lonja', 'Lj6g0018866' => 'lja', 'Lj6P608T31' => 'lonja', 'LjContig00408g0008879' => 'lja', 'Lsat_1_v5_gn_5_105820' => 'lsa', 'Lsat_1_v5_gn_6_38800' => 'lsa', 'Lsat_1_v5_gn_7_67141' => 'lsa', 'Manes.04G003400' => 'mes', 'Manes.07G020000' => 'mes', 'Manes.07G020100' => 'mes', 'Manes.07G020150' => 'mes', 'Manes.10G061500' => 'mes', 'Manes.10G123200' => 'mes', 'Manes.11G161900' => 'mes', 'Manes.15G029300' => 'mes', 'Mapoly0071s0018' => 'mpo', 'Mapoly0082s0023' => 'mpo', 'Mapoly3477s0001' => 'mpo', 'MBI05_g31233_MAGBIO' => 'mbi', 'MBI09_g05946_MAGBIO' => 'mbi', 'MBI09_g05947_MAGBIO' => 'mbi', 'MBI17_g08346_MAGBIO' => 'mbi', 'MCO04G038' => 'mco', 'MCO09G370' => 'mco', 'MCO13G605' => 'mco', 'MD00G1075500' => 'mdo', 'MD03G1144300' => 'mdo', 'MD08G1236800' => 'mdo', 'MD13G1193300' => 'mdo', 'MD15G1428700' => 'mdo', 'Medtr1g112030' => 'mtr', 'Medtr1g112050' => 'mtr', 'Medtr2g006290' => 'mtr', 'Medtr2g086510' => 'mtr', 'Medtr4g053120' => 'mtr', 'Medtr5g006320' => 'mtr', 'Medtr8g088720' => 'mtr', 'MELO3C004712.2' => 'cme', 'MELO3C006533.2' => 'cme', 'MELO3C019438.2' => 'cme', 'MELO3C019440.2' => 'cme', 'MELO3C019441.2' => 'cme', 'MELO3C019895.2' => 'cme', 'Migut.B00811' => 'egut', 'Migut.D02447' => 'egut', 'Migut.F00875' => 'egut', 'Migut.N00186' => 'egut', 'Migut.N01051' => 'egut', 'Migut.N02491' => 'egut', 'Migut.O00784' => 'egut', 'MSTRG.12367' => 'ama', 'MSTRG.18756' => 'ama', 'MSTRG.21042' => 'ama', 'Nitab4.5_0000559g0040' => 'nta', 'Nitab4.5_0000667g0190' => 'nta', 'Nitab4.5_0000755g0160' => 'nta', 'Nitab4.5_0001216g0080' => 'nta', 'Nitab4.5_0004069g0040' => 'nta', 'Nitab4.5_0004129g0010' => 'nta', 'Nitab4.5_0005744g0030' => 'nta', 'Nitab4.5_0006996g0030' => 'nta', 'Nitab4.5_0008971g0040' => 'nta', 'Nitab4.5_0009769g0020' => 'nta', 'Nitab4.5_0009833g0010' => 'nta', 'Nitab4.5_0013140g0020' => 'nta', 'Nn003s41376' => 'nnu', 'Nn1g01857' => 'nnu', 'Nn1g03611' => 'nnu', 'Nn1g06853' => 'nnu', 'Nn3g18360' => 'nnu', 'Nn4g26328' => 'nnu', 'Nn5g27531' => 'nnu', 'Nn6g34899' => 'nnu', 'Nn7g36299' => 'nnu', 'Oeu021485.1' => 'oeu', 'Oeu022433.1' => 'oeu', 'Oeu032111.1' => 'oeu', 'Oeu051608.1' => 'oeu', 'Os01g0860601' => 'osa', 'Os03g0659200' => 'osa', 'Os03g0835900' => 'osa', 'Os04g0412200' => 'osa', 'Os05g0443500' => 'osa', 'Os07g0251500' => 'osa', 'Os08g0104600' => 'osa', 'Peaxi162Scf00003g00047' => 'pax', 'Peaxi162Scf00003g00052' => 'pax', 'Peaxi162Scf00003g00394' => 'pax', 'Peaxi162Scf00091g00621' => 'pax', 'Peaxi162Scf00152g00146' => 'pax', 'Peaxi162Scf00173g00025' => 'pax', 'Peaxi162Scf00195g00102' => 'pax', 'Peaxi162Scf00402g00013' => 'pax', 'Peaxi162Scf00519g00618' => 'pax', 'PGR004G2838' => 'pgr', 'PGR044G2275' => 'pgr', 'PGR102G1377' => 'pgr', 'PGR119G1245' => 'pgr', 'PGR142G4449' => 'pgr', 'PGSC0003DMG400004532' => 'stu', 'PGSC0003DMG400011950' => 'stu', 'PGSC0003DMG400023391' => 'stu', 'PGSC0003DMG400023985' => 'stu', 'PGSC0003DMG400026360' => 'stu', 'PGSC0003DMG400035711' => 'stu', 'PGSC0003DMG400037286' => 'stu', 'PGSC0003DMG402005881' => 'stu', 'Phvul.002G045400' => 'pvu', 'Phvul.006G216600' => 'pvu', 'Phvul.006G216700' => 'pvu', 'Phvul.006G216800' => 'pvu', 'Phvul.007G022500' => 'pvu', 'Phvul.011G094400' => 'pvu', 'Potri.001G470700' => 'ptr', 'Potri.003G015200' => 'ptr', 'Potri.004G202500' => 'ptr', 'Potri.004G218400' => 'ptr', 'Potri.008G020100' => 'ptr', 'Potri.008G153200' => 'ptr', 'Potri.009G163800' => 'ptr', 'Potri.010G087300' => 'ptr', 'Potri.010G239100' => 'ptr', 'Pp3c10_16100' => 'ppa', 'Pp3c10_16880' => 'ppa', 'Pp3c16_6230' => 'ppa', 'Pp3c17_18910' => 'ppa', 'Pp3c3_22119' => 'ppa', 'Pp3c3_22140' => 'ppa', 'Pp3c4_8159' => 'ppa', 'Pp3c4_8171' => 'ppa', 'Pp3c4_8330' => 'ppa', 'PRCOL_00004098' => 'pco', 'Prupe.1G013900' => 'ppe', 'Prupe.1G226300' => 'ppe', 'Prupe.1G573600' => 'ppe', 'Prupe.6G130100' => 'ppe', 'Psat3g090040' => 'psa', 'Psat4g210440' => 'psa', 'Psat6g231040' => 'psa', 'Psat6g231080' => 'psa', 'Psat7g063000' => 'psa', 'Psat7g188000' => 'psa', 'Psat7g188040' => 'psa', 'PSO017G0206' => 'pso', 'PSO170G0501' => 'pso', 'PSO170G6422' => 'pso', 'PSO210G7739' => 'pso', 'PSO339G1808' => 'pso', 'PSO339G6135' => 'pso', 'PSO384G0010' => 'pso', 'PSO384G0964' => 'pso', 'PSO761G0050' => 'pso', 'PSO782G4085' => 'pso', 'QL01p012264' => 'qlo', 'QL02p099491' => 'qlo', 'QL03p033868' => 'qlo', 'QL04p046678' => 'qlo', 'QL06p002448' => 'qlo', 'RcHm_v2.0_Chr4g0416181' => 'rch', 'RcHm_v2.0_Chr5g0044701' => 'rch', 'RcHm_v2.0_Chr6g0265781' => 'rch', 'RcHm_v2.0_Chr7g0221031' => 'rch', 'Rhsim04G0202000' => 'rsi', 'Rhsim11G0127300' => 'rsi', 'Rhsim13G0111800' => 'rsi', 'Sabra01G0165600' => 'sbr', 'Sabra03G0008300' => 'sbr', 'Sabra04G0136900' => 'sbr', 'Sabra08G0013400' => 'sbr', 'Sabra08G0116800' => 'sbr', 'Sabra09G0128000' => 'sbr', 'Sabra10G0055500' => 'sbr', 'Sabra10G0073300' => 'sbr', 'SalBow3G0385' => 'sbo', 'SalBow3G1119' => 'sbo', 'SalBow3G2005' => 'sbo', 'SalBow6G2563' => 'sbo', 'SalBow6G6386' => 'sbo', 'Sc06g0008800' => 'sci', 'Sc07g0004950' => 'sci', 'Sc09g0005340' => 'sci', 'Sc13g0004410' => 'sci', 'Sc21g0007090' => 'sci', 'Sed0009285' => 'sed', 'Sed0017583' => 'sed', 'Sed0019699' => 'sed', 'Sed0023107' => 'sed', 'SEGI_10916' => 'sgi', 'SEGI_16217' => 'sgi', 'SEGI_19466' => 'sgi', 'SEGI_41115' => 'sgi', 'SGA_v2.0_scaffold111G31534' => 'sas', 'SGA_v2.0_scaffold22G09864' => 'sas', 'SGA_v2.0_scaffold338G49219' => 'sas', 'SGA_v2.0_scaffold92G28298' => 'sas', 'SMO119G0064' => 'smo', 'SMO223G0038' => 'smo', 'SMO347G0584' => 'smo', 'SMO351G0010' => 'smo', 'SMO356G0404' => 'smo', 'Solyc01g103920.3' => 'sly', 'Solyc04g009710.2' => 'sly', 'Solyc05g055280.2' => 'sly', 'Solyc10g044520.3' => 'sly', 'Solyc10g075160.1' => 'sly', 'Solyc11g006910.3' => 'sly', 'Solyc11g068430.3' => 'sly', 'Sopen01g046310' => 'spe', 'Sopen03g001200' => 'spe', 'Sopen04g004830' => 'spe', 'Sopen05g033720' => 'spe', 'Sopen06g030740' => 'spe', 'Sopen10g013090' => 'spe', 'Sopen10g027630' => 'spe', 'Sopen10g027640' => 'spe', 'Sopen11g002820' => 'spe', 'Sopen11g027140' => 'spe', 'Sp1g09680' => 'spa', 'Sp2g03630' => 'spa', 'Sp4g10320' => 'spa', 'Sp6g33400' => 'spa', 'Sp7g13030' => 'spa', 'TAR365G0317' => 'tar', 'TAR376G0979' => 'tar', 'TAR623G1665' => 'tar', 'TAR633G2373' => 'tar', 'TAR636G1400' => 'tar', 'THA.LOC104800529' => 'tha', 'THA.LOC104808547' => 'tha', 'THA.LOC104809615' => 'tha', 'THA.LOC104815724' => 'tha', 'THA.LOC104818480' => 'tha', 'THA.LOC104819179' => 'tha', 'THA.LOC104822270' => 'tha', 'THA.LOC104826425' => 'tha', 'Thecc.02G089700' => 'tca', 'Thecc.04G232300' => 'tca', 'Thecc.09G283400' => 'tca', 'Thhalv10009020m.g' => 'esa', 'Thhalv10015506m.g' => 'esa', 'Thhalv10017364m.g' => 'esa', 'Thhalv10023742m.g' => 'esa', 'Thhalv10026483m.g' => 'esa', 'TPR.G17232' => 'tpr', 'TPR.G2133' => 'tpr', 'TPR.G2498' => 'tpr', 'TPR.G31942' => 'tpr', 'TPR.G37877' => 'tpr', 'TPR.G4571' => 'tpr', 'TWI14G1113' => 'twi', 'TWI15G0426' => 'twi', 'TWI31G1005' => 'twi', 'TWI38G0513' => 'twi', 'TWI38G1484' => 'twi', 'TWI73G1098' => 'twi', 'unitig_26.g10519' => 'ugi', 'unitig_736.g22395' => 'ugi', 'unitig_747.g21234' => 'ugi', 'unitig_747.g21942' => 'ugi', 'vmacro14351' => 'vma', 'VMungo0540G0082' => 'vmu', 'VMungo0540G0405' => 'vmu', 'VMungo0540G1486' => 'vmu', 'VMungo0540G1692' => 'vmu', 'VMungo0720G2473' => 'vmu', 'VMungo1127G1562' => 'vmu', 'VMungo1215G1918' => 'vmu', 'Zm00001eb052650' => 'zma', 'Zm00001eb063710' => 'zma', 'Zm00001eb083950' => 'zma', 'Zm00001eb174420' => 'zma', 'Zm00001eb260140' => 'zma', 'Zm00001eb260150' => 'zma', 'Zm00001eb260160' => 'zma', 'Zm00001eb348290' => 'zma', 'Zm00001eb366870' => 'zma', 'Zm00001eb421930' => 'zma' ) $gf_id = 'HOM05D001025' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001025' ) $data_identifier = 'HOM05D001025' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 19, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 2, 'amhyb' => (int) 4, 'aly' => (int) 4, 'aox' => (int) 4, 'arhy' => (int) 3, 'ath' => (int) 5, 'atr' => (int) 4, 'acertr' => (int) 3, 'cqu' => (int) 7, 'bca' => (int) 17, 'bol' => (int) 10, 'bra' => (int) 9, 'can' => (int) 10, 'cansat' => (int) 6, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 5, 'cbr' => (int) 5, 'ccan' => (int) 5, 'cde' => (int) 4, 'cfa' => (int) 3, 'ccl' => (int) 6, 'cil' => (int) 4, 'cla' => (int) 3, 'col' => (int) 3, 'cpa' => (int) 3, 'cre' => (int) 7, 'csa' => (int) 5, 'camsi' => (int) 9, 'dca' => (int) 4, 'din' => (int) 5, 'dzi' => (int) 7, 'eca' => (int) 6, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 12, 'fve' => (int) 4, 'gma' => (int) 12, 'ghi' => (int) 17, 'gra' => (int) 9, 'vvi' => (int) 2, 'han' => (int) 8, 'cav' => (int) 5, 'hma' => (int) 9, 'vpl' => (int) 4, 'sun' => (int) 2, 'lal' => (int) 9, 'lja' => (int) 5, 'lonja' => (int) 6, 'lsa' => (int) 3, 'mes' => (int) 8, 'mpo' => (int) 3, 'mbi' => (int) 4, 'mco' => (int) 3, 'mdo' => (int) 5, 'mtr' => (int) 7, 'cme' => (int) 6, 'egut' => (int) 7, 'ama' => (int) 3, 'nta' => (int) 12, 'nnu' => (int) 9, 'oeu' => (int) 4, 'osa' => (int) 7, 'pax' => (int) 9, 'pgr' => (int) 5, 'stu' => (int) 8, 'pvu' => (int) 6, 'ptr' => (int) 9, 'ppa' => (int) 9, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 7, 'pso' => (int) 10, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 3, 'sbr' => (int) 8, 'sbo' => (int) 5, 'sci' => (int) 5, 'sed' => (int) 4, 'sgi' => (int) 4, 'sas' => (int) 4, 'smo' => (int) 5, 'sly' => (int) 7, 'spe' => (int) 10, 'spa' => (int) 5, 'tar' => (int) 5, 'tha' => (int) 8, 'tca' => (int) 3, 'esa' => (int) 5, 'tpr' => (int) 6, 'twi' => (int) 6, 'ugi' => (int) 4, 'vma' => (int) 1, 'vmu' => (int) 7, 'zma' => (int) 10 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb421930' $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' => 'HOM05D001025', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '592', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p22650' => 'bna', 'A01p29720' => 'bna', 'A03p26560' => 'bna', 'A03p68820' => 'bna', 'A04p20980' => 'bna', 'A06p07730' => 'bna', 'A07p18260' => 'bna', 'A08p33710' => 'bna', 'A09p16970' => 'bna', 'A10p27490' => 'bna', 'Aa31LG1G17300' => 'aar', 'Aa31LG1G3910' => 'aar', 'Aa31LG2G9630' => 'aar', 'Aa31LG5G8360' => 'aar', 'Aa31LG9G2410' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4699' => 'aag', 'Actinidia23512' => 'ach', 'Actinidia37080' => 'ach', 'Ah.01g020380' => 'amhyb', 'Ah.08g215710' => 'amhyb', 'Ah.09g225110' => 'amhyb', 'Ah.10g036680' => 'amhyb', 'AL1G21940' => 'aly', 'AL2G15540' => 'aly', 'AL4G21520' => 'aly', 'AL7G40960' => 'aly', 'Aqoxy2G01191' => 'aox', 'Aqoxy2G03393' => 'aox', 'Aqoxy4G02775' => 'aox', 'Aqoxy6G00058' => 'aox', 'arahy.Tifrunner.gnm1.ann1.9X74H2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CW3FX9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R485W7' => 'arhy', 'AT1G10960' => 'ath', 'AT1G60950' => 'ath', 'AT2G27510' => 'ath', 'AT4G14890' => 'ath', 'AT5G10000' => 'ath', 'ATR0665G624' => 'atr', 'ATR0697G138' => 'atr', 'ATR0776G046' => 'atr', 'ATR1134G135' => 'atr', 'Atru.chr12.1025' => 'acertr', 'Atru.chr3.3241' => 'acertr', 'Atru.chr4.2460' => 'acertr', 'AUR62007427' => 'cqu', 'AUR62010960' => 'cqu', 'AUR62012201' => 'cqu', 'AUR62021470' => 'cqu', 'AUR62022834' => 'cqu', 'AUR62033635' => 'cqu', 'AUR62036186' => 'cqu', 'BcaB01g03077' => 'bca', 'BcaB02g10093' => 'bca', 'BcaB04g20295' => 'bca', 'BcaB06g28147' => 'bca', 'BcaB07g31253' => 'bca', 'BcaC01g04946' => 'bca', 'BcaC02g10614' => 'bca', 'BcaC02g10885' => 'bca', 'BcaC04g19356' => 'bca', 'BcaC04g22297' => 'bca', 'BcaC05g24977' => 'bca', 'BcaC06g31823' => 'bca', 'BcaC07g38633' => 'bca', 'BcaC09g49353' => 'bca', 'BcaC09g50168' => 'bca', 'BcaNung00322' => 'bca', 'BcaNung04769' => 'bca', 'BolC1t02753H' => 'bol', 'BolC1t03721H' => 'bol', 'BolC3t15525H' => 'bol', 'BolC4t23903H' => 'bol', 'BolC4t24231H' => 'bol', 'BolC4t27209H' => 'bol', 'BolC5t29671H' => 'bol', 'BolC8t49044H' => 'bol', 'BolC9t54999H' => 'bol', 'BolC9t59517H' => 'bol', 'BraA01t02178Z' => 'bra', 'BraA01t03099Z' => 'bra', 'BraA03t11867Z' => 'bra', 'BraA04t17667Z' => 'bra', 'BraA07t29542Z' => 'bra', 'BraA08t35287Z' => 'bra', 'BraA09t37334Z' => 'bra', 'BraA10t44801Z' => 'bra', 'BraSC39t46181Z' => 'bra', 'C01p28240' => 'bna', 'C01p37530' => 'bna', 'C03p31820' => 'bna', 'C04p24080' => 'bna', 'C04p25790' => 'bna', 'C04p56770' => 'bna', 'C05p09310' => 'bna', 'C09p21010' => 'bna', 'C09p67560' => 'bna', 'CAN.G1324.7' => 'can', 'CAN.G1358.10' => 'can', 'CAN.G1550.2' => 'can', 'CAN.G186.56' => 'can', 'CAN.G1965.1' => 'can', 'CAN.G645.15' => 'can', 'CAN.G798.26' => 'can', 'CAN.G798.27' => 'can', 'CAN.G798.29' => 'can', 'CAN.G919.31' => 'can', 'CANSAT11G0133' => 'cansat', 'CANSAT11G1171' => 'cansat', 'CANSAT11G2056' => 'cansat', 'CANSAT56G1202' => 'cansat', 'CANSAT56G1514' => 'cansat', 'CANSAT78G0455' => 'cansat', 'CARHR011190' => 'chi', 'CARHR051980' => 'chi', 'CARHR120170' => 'chi', 'CARHR203310' => 'chi', 'CARHR221490' => 'chi', 'Carub.0001s1054' => 'cru', 'Carub.0002s0431' => 'cru', 'Carub.0004s0818' => 'cru', 'Carub.0006s0846' => 'cru', 'Carub.0007s2722' => 'cru', 'Ca_00058_v3' => 'car', 'Ca_17831_v3' => 'car', 'Ca_19408_v3' => 'car', 'Ca_24397_v3' => 'car', 'Ca_25664_v3' => 'car', 'CBR_g21818' => 'cbr', 'CBR_g31195' => 'cbr', 'CBR_g32282' => 'cbr', 'CBR_g39599' => 'cbr', 'CBR_g49410' => 'cbr', 'Cc01_g09120' => 'ccan', 'Cc01_g09130' => 'ccan', 'Cc02_g09630' => 'ccan', 'Cc02_g22810' => 'ccan', 'Cc03_g03810' => 'ccan', 'CDE02G3718' => 'cde', 'CDE04G3183' => 'cde', 'CDE07G1046' => 'cde', 'CDE08G0480' => 'cde', 'Cfa005493' => 'cfa', 'Cfa010312' => 'cfa', 'Cfa015648' => 'cfa', 'Ciclev10002793m.g' => 'ccl', 'Ciclev10003356m.g' => 'ccl', 'Ciclev10006141m.g' => 'ccl', 'Ciclev10016676m.g' => 'ccl', 'Ciclev10017081m.g' => 'ccl', 'Ciclev10029499m.g' => 'ccl', 'CiPaw.01G166300' => 'cil', 'CiPaw.06G145600' => 'cil', 'CiPaw.13G040100' => 'cil', 'CiPaw.13G135800' => 'cil', 'ClCG01G012230' => 'cla', 'ClCG05G009510' => 'cla', 'ClCG08G008270' => 'cla', 'COL.COLO4_11763' => 'col', 'COL.COLO4_19876' => 'col', 'COL.COLO4_21481' => 'col', 'Cpa.g.sc118.34' => 'cpa', 'Cpa.g.sc32.13' => 'cpa', 'Cpa.g.sc58.103' => 'cpa', 'Cre03.g183850' => 'cre', 'Cre06.g306350' => 'cre', 'Cre07.g334800' => 'cre', 'Cre12.g487900' => 'cre', 'Cre14.g626700' => 'cre', 'Cre16.g658400' => 'cre', 'Cre17.g700950' => 'cre', 'CsaV3_1G014830' => 'csa', 'CsaV3_3G013320' => 'csa', 'CsaV3_3G019210' => 'csa', 'CsaV3_3G019220' => 'csa', 'CsaV3_6G004230' => 'csa', 'CSS0003773' => 'camsi', 'CSS0004563' => 'camsi', 'CSS0013949' => 'camsi', 'CSS0025971' => 'camsi', 'CSS0028570' => 'camsi', 'CSS0033127' => 'camsi', 'CSS0036051' => 'camsi', 'CSS0040087' => 'camsi', 'CSS0043179' => 'camsi', 'DCAR_006161' => 'dca', 'DCAR_010351' => 'dca', 'DCAR_012197' => 'dca', 'DCAR_024162' => 'dca', 'Dinv01030' => 'din', 'Dinv10924' => 'din', 'Dinv11835' => 'din', 'Dinv22841' => 'din', 'Dinv42553' => 'din', 'Duzib052G0560' => 'dzi', 'Duzib132G0389' => 'dzi', 'Duzib150G1181' => 'dzi', 'Duzib168G0623' => 'dzi', 'Duzib170G1036' => 'dzi', 'Duzib212G0200' => 'dzi', 'Duzib248G0194' => 'dzi', 'ECA232G2193' => 'eca', 'ECA233G0302' => 'eca', 'ECA234G2813' => 'eca', 'ECA234G4866' => 'eca', 'ECA240G3932' => 'eca', 'ECA248G0385' => 'eca', 'EL10Ac2g04781' => 'bvu', 'EL10Ac3g06445' => 'bvu', 'EL10Ac7g15825' => 'bvu', 'EL10Ac8g18550' => 'bvu', 'Eucgr.B03849' => 'egr', 'Eucgr.I02744' => 'egr', 'Eucgr.J00264' => 'egr', 'Eucgr.J00493' => 'egr', 'FAN04G2181' => 'fan', 'FAN07G2666' => 'fan', 'FAN11G0024' => 'fan', 'FAN12G1105' => 'fan', 'FAN13G0302' => 'fan', 'FAN15G2781' => 'fan', 'FAN16G1274' => 'fan', 'FAN17G2988' => 'fan', 'FAN18G2621' => 'fan', 'FAN21G0013' => 'fan', 'FAN22G1211' => 'fan', 'FAN25G3626' => 'fan', 'FvH4_2g09491' => 'fve', 'FvH4_3g24910' => 'fve', 'FvH4_4g15630' => 'fve', 'FvH4_5g28820' => 'fve', 'Glyma.01G238000' => 'gma', 'Glyma.05G168400' => 'gma', 'Glyma.08G126800' => 'gma', 'Glyma.08G188500' => 'gma', 'Glyma.10G278900' => 'gma', 'Glyma.11G005700' => 'gma', 'Glyma.11G183300' => 'gma', 'Glyma.12G089200' => 'gma', 'Glyma.12G169400' => 'gma', 'Glyma.12G169500' => 'gma', 'Glyma.12G169600' => 'gma', 'Glyma.20G110800' => 'gma', 'Gohir.A03G192900' => 'ghi', 'Gohir.A03G193000' => 'ghi', 'Gohir.A05G080700' => 'ghi', 'Gohir.A09G216000' => 'ghi', 'Gohir.A12G027700' => 'ghi', 'Gohir.A13G036200' => 'ghi', 'Gohir.A13G222600' => 'ghi', 'Gohir.D02G213900' => 'ghi', 'Gohir.D02G214000' => 'ghi', 'Gohir.D05G083700' => 'ghi', 'Gohir.D05G083800' => 'ghi', 'Gohir.D05G083850' => 'ghi', 'Gohir.D08G015400' => 'ghi', 'Gohir.D09G218400' => 'ghi', 'Gohir.D12G027100' => 'ghi', 'Gohir.D13G034500' => 'ghi', 'Gohir.D13G227400' => 'ghi', 'Gorai.005G241800' => 'gra', 'Gorai.005G241900' => 'gra', 'Gorai.006G239400' => 'gra', 'Gorai.008G027600' => 'gra', 'Gorai.009G085400' => 'gra', 'Gorai.009G085500' => 'gra', 'Gorai.013G039000' => 'gra', 'Gorai.013G194800' => 'gra', 'Gorai.013G257900' => 'gra', 'GSVIVG01000982001' => 'vvi', 'GSVIVG01017981001' => 'vvi', 'HanXRQChr01g0024061' => 'han', 'HanXRQChr09g0247831' => 'han', 'HanXRQChr10g0294611' => 'han', 'HanXRQChr10g0294621' => 'han', 'HanXRQChr11g0346821' => 'han', 'HanXRQChr13g0397461' => 'han', 'HanXRQChr16g0513651' => 'han', 'HanXRQChr16g0513701' => 'han', 'Haze_00897' => 'cav', 'Haze_01745' => 'cav', 'Haze_02486' => 'cav', 'Haze_02487' => 'cav', 'Haze_23374' => 'cav', 'Hma1.2p1_0578F.1_g182520' => 'hma', 'Hma1.2p1_0602F.1_g187350' => 'hma', 'Hma1.2p1_0602F.1_g187360' => 'hma', 'Hma1.2p1_0874F.1_g231320' => 'hma', 'Hma1.2p1_1197F.1_g266210' => 'hma', 'Hma1.2p1_1197F.1_g266220' => 'hma', 'Hma1.2p1_2167F.1_g315895' => 'hma', 'Hma1.2p1_2190F.1_g316640' => 'hma', 'Hma1.2p1_3645F.1_g337153' => 'hma', 'HPP92_004907' => 'vpl', 'HPP92_012134' => 'vpl', 'HPP92_025136' => 'vpl', 'HPP92_026087' => 'vpl', 'Hund06782' => 'sun', 'Hund06784' => 'sun', 'Lalb_Chr01g0004861' => 'lal', 'Lalb_Chr02g0140591' => 'lal', 'Lalb_Chr02g0140611' => 'lal', 'Lalb_Chr03g0028101' => 'lal', 'Lalb_Chr07g0185791' => 'lal', 'Lalb_Chr12g0204491' => 'lal', 'Lalb_Chr13g0295671' => 'lal', 'Lalb_Chr19g0136461' => 'lal', 'Lalb_Chr21g0309191' => 'lal', 'Lj1g0028158' => 'lja', 'Lj1P236T38' => 'lonja', 'Lj2C32G2' => 'lonja', 'Lj2P944T8' => 'lonja', 'Lj2P963T15' => 'lonja', 'Lj3g0011788' => 'lja', 'Lj4g0025027' => 'lja', 'Lj5P255T36' => 'lonja', 'Lj6g0018866' => 'lja', 'Lj6P608T31' => 'lonja', 'LjContig00408g0008879' => 'lja', 'Lsat_1_v5_gn_5_105820' => 'lsa', 'Lsat_1_v5_gn_6_38800' => 'lsa', 'Lsat_1_v5_gn_7_67141' => 'lsa', 'Manes.04G003400' => 'mes', 'Manes.07G020000' => 'mes', 'Manes.07G020100' => 'mes', 'Manes.07G020150' => 'mes', 'Manes.10G061500' => 'mes', 'Manes.10G123200' => 'mes', 'Manes.11G161900' => 'mes', 'Manes.15G029300' => 'mes', 'Mapoly0071s0018' => 'mpo', 'Mapoly0082s0023' => 'mpo', 'Mapoly3477s0001' => 'mpo', 'MBI05_g31233_MAGBIO' => 'mbi', 'MBI09_g05946_MAGBIO' => 'mbi', 'MBI09_g05947_MAGBIO' => 'mbi', 'MBI17_g08346_MAGBIO' => 'mbi', 'MCO04G038' => 'mco', 'MCO09G370' => 'mco', 'MCO13G605' => 'mco', 'MD00G1075500' => 'mdo', 'MD03G1144300' => 'mdo', 'MD08G1236800' => 'mdo', 'MD13G1193300' => 'mdo', 'MD15G1428700' => 'mdo', 'Medtr1g112030' => 'mtr', 'Medtr1g112050' => 'mtr', 'Medtr2g006290' => 'mtr', 'Medtr2g086510' => 'mtr', 'Medtr4g053120' => 'mtr', 'Medtr5g006320' => 'mtr', 'Medtr8g088720' => 'mtr', 'MELO3C004712.2' => 'cme', 'MELO3C006533.2' => 'cme', 'MELO3C019438.2' => 'cme', 'MELO3C019440.2' => 'cme', 'MELO3C019441.2' => 'cme', 'MELO3C019895.2' => 'cme', 'Migut.B00811' => 'egut', 'Migut.D02447' => 'egut', 'Migut.F00875' => 'egut', 'Migut.N00186' => 'egut', 'Migut.N01051' => 'egut', 'Migut.N02491' => 'egut', 'Migut.O00784' => 'egut', 'MSTRG.12367' => 'ama', 'MSTRG.18756' => 'ama', 'MSTRG.21042' => 'ama', 'Nitab4.5_0000559g0040' => 'nta', 'Nitab4.5_0000667g0190' => 'nta', 'Nitab4.5_0000755g0160' => 'nta', 'Nitab4.5_0001216g0080' => 'nta', 'Nitab4.5_0004069g0040' => 'nta', 'Nitab4.5_0004129g0010' => 'nta', 'Nitab4.5_0005744g0030' => 'nta', 'Nitab4.5_0006996g0030' => 'nta', 'Nitab4.5_0008971g0040' => 'nta', 'Nitab4.5_0009769g0020' => 'nta', 'Nitab4.5_0009833g0010' => 'nta', 'Nitab4.5_0013140g0020' => 'nta', 'Nn003s41376' => 'nnu', 'Nn1g01857' => 'nnu', 'Nn1g03611' => 'nnu', 'Nn1g06853' => 'nnu', 'Nn3g18360' => 'nnu', 'Nn4g26328' => 'nnu', 'Nn5g27531' => 'nnu', 'Nn6g34899' => 'nnu', 'Nn7g36299' => 'nnu', 'Oeu021485.1' => 'oeu', 'Oeu022433.1' => 'oeu', 'Oeu032111.1' => 'oeu', 'Oeu051608.1' => 'oeu', 'Os01g0860601' => 'osa', 'Os03g0659200' => 'osa', 'Os03g0835900' => 'osa', 'Os04g0412200' => 'osa', 'Os05g0443500' => 'osa', 'Os07g0251500' => 'osa', 'Os08g0104600' => 'osa', 'Peaxi162Scf00003g00047' => 'pax', 'Peaxi162Scf00003g00052' => 'pax', 'Peaxi162Scf00003g00394' => 'pax', 'Peaxi162Scf00091g00621' => 'pax', 'Peaxi162Scf00152g00146' => 'pax', 'Peaxi162Scf00173g00025' => 'pax', 'Peaxi162Scf00195g00102' => 'pax', 'Peaxi162Scf00402g00013' => 'pax', 'Peaxi162Scf00519g00618' => 'pax', 'PGR004G2838' => 'pgr', 'PGR044G2275' => 'pgr', 'PGR102G1377' => 'pgr', 'PGR119G1245' => 'pgr', 'PGR142G4449' => 'pgr', 'PGSC0003DMG400004532' => 'stu', 'PGSC0003DMG400011950' => 'stu', 'PGSC0003DMG400023391' => 'stu', 'PGSC0003DMG400023985' => 'stu', 'PGSC0003DMG400026360' => 'stu', 'PGSC0003DMG400035711' => 'stu', 'PGSC0003DMG400037286' => 'stu', 'PGSC0003DMG402005881' => 'stu', 'Phvul.002G045400' => 'pvu', 'Phvul.006G216600' => 'pvu', 'Phvul.006G216700' => 'pvu', 'Phvul.006G216800' => 'pvu', 'Phvul.007G022500' => 'pvu', 'Phvul.011G094400' => 'pvu', 'Potri.001G470700' => 'ptr', 'Potri.003G015200' => 'ptr', 'Potri.004G202500' => 'ptr', 'Potri.004G218400' => 'ptr', 'Potri.008G020100' => 'ptr', 'Potri.008G153200' => 'ptr', 'Potri.009G163800' => 'ptr', 'Potri.010G087300' => 'ptr', 'Potri.010G239100' => 'ptr', 'Pp3c10_16100' => 'ppa', 'Pp3c10_16880' => 'ppa', 'Pp3c16_6230' => 'ppa', 'Pp3c17_18910' => 'ppa', 'Pp3c3_22119' => 'ppa', 'Pp3c3_22140' => 'ppa', 'Pp3c4_8159' => 'ppa', 'Pp3c4_8171' => 'ppa', 'Pp3c4_8330' => 'ppa', 'PRCOL_00004098' => 'pco', 'Prupe.1G013900' => 'ppe', 'Prupe.1G226300' => 'ppe', 'Prupe.1G573600' => 'ppe', 'Prupe.6G130100' => 'ppe', 'Psat3g090040' => 'psa', 'Psat4g210440' => 'psa', 'Psat6g231040' => 'psa', 'Psat6g231080' => 'psa', 'Psat7g063000' => 'psa', 'Psat7g188000' => 'psa', 'Psat7g188040' => 'psa', 'PSO017G0206' => 'pso', 'PSO170G0501' => 'pso', 'PSO170G6422' => 'pso', 'PSO210G7739' => 'pso', 'PSO339G1808' => 'pso', 'PSO339G6135' => 'pso', 'PSO384G0010' => 'pso', 'PSO384G0964' => 'pso', 'PSO761G0050' => 'pso', 'PSO782G4085' => 'pso', 'QL01p012264' => 'qlo', 'QL02p099491' => 'qlo', 'QL03p033868' => 'qlo', 'QL04p046678' => 'qlo', 'QL06p002448' => 'qlo', 'RcHm_v2.0_Chr4g0416181' => 'rch', 'RcHm_v2.0_Chr5g0044701' => 'rch', 'RcHm_v2.0_Chr6g0265781' => 'rch', 'RcHm_v2.0_Chr7g0221031' => 'rch', 'Rhsim04G0202000' => 'rsi', 'Rhsim11G0127300' => 'rsi', 'Rhsim13G0111800' => 'rsi', 'Sabra01G0165600' => 'sbr', 'Sabra03G0008300' => 'sbr', 'Sabra04G0136900' => 'sbr', 'Sabra08G0013400' => 'sbr', 'Sabra08G0116800' => 'sbr', 'Sabra09G0128000' => 'sbr', 'Sabra10G0055500' => 'sbr', 'Sabra10G0073300' => 'sbr', 'SalBow3G0385' => 'sbo', 'SalBow3G1119' => 'sbo', 'SalBow3G2005' => 'sbo', 'SalBow6G2563' => 'sbo', 'SalBow6G6386' => 'sbo', 'Sc06g0008800' => 'sci', 'Sc07g0004950' => 'sci', 'Sc09g0005340' => 'sci', 'Sc13g0004410' => 'sci', 'Sc21g0007090' => 'sci', 'Sed0009285' => 'sed', 'Sed0017583' => 'sed', 'Sed0019699' => 'sed', 'Sed0023107' => 'sed', 'SEGI_10916' => 'sgi', 'SEGI_16217' => 'sgi', 'SEGI_19466' => 'sgi', 'SEGI_41115' => 'sgi', 'SGA_v2.0_scaffold111G31534' => 'sas', 'SGA_v2.0_scaffold22G09864' => 'sas', 'SGA_v2.0_scaffold338G49219' => 'sas', 'SGA_v2.0_scaffold92G28298' => 'sas', 'SMO119G0064' => 'smo', 'SMO223G0038' => 'smo', 'SMO347G0584' => 'smo', 'SMO351G0010' => 'smo', 'SMO356G0404' => 'smo', 'Solyc01g103920.3' => 'sly', 'Solyc04g009710.2' => 'sly', 'Solyc05g055280.2' => 'sly', 'Solyc10g044520.3' => 'sly', 'Solyc10g075160.1' => 'sly', 'Solyc11g006910.3' => 'sly', 'Solyc11g068430.3' => 'sly', 'Sopen01g046310' => 'spe', 'Sopen03g001200' => 'spe', 'Sopen04g004830' => 'spe', 'Sopen05g033720' => 'spe', 'Sopen06g030740' => 'spe', 'Sopen10g013090' => 'spe', 'Sopen10g027630' => 'spe', 'Sopen10g027640' => 'spe', 'Sopen11g002820' => 'spe', 'Sopen11g027140' => 'spe', 'Sp1g09680' => 'spa', 'Sp2g03630' => 'spa', 'Sp4g10320' => 'spa', 'Sp6g33400' => 'spa', 'Sp7g13030' => 'spa', 'TAR365G0317' => 'tar', 'TAR376G0979' => 'tar', 'TAR623G1665' => 'tar', 'TAR633G2373' => 'tar', 'TAR636G1400' => 'tar', 'THA.LOC104800529' => 'tha', 'THA.LOC104808547' => 'tha', 'THA.LOC104809615' => 'tha', 'THA.LOC104815724' => 'tha', 'THA.LOC104818480' => 'tha', 'THA.LOC104819179' => 'tha', 'THA.LOC104822270' => 'tha', 'THA.LOC104826425' => 'tha', 'Thecc.02G089700' => 'tca', 'Thecc.04G232300' => 'tca', 'Thecc.09G283400' => 'tca', 'Thhalv10009020m.g' => 'esa', 'Thhalv10015506m.g' => 'esa', 'Thhalv10017364m.g' => 'esa', 'Thhalv10023742m.g' => 'esa', 'Thhalv10026483m.g' => 'esa', 'TPR.G17232' => 'tpr', 'TPR.G2133' => 'tpr', 'TPR.G2498' => 'tpr', 'TPR.G31942' => 'tpr', 'TPR.G37877' => 'tpr', 'TPR.G4571' => 'tpr', 'TWI14G1113' => 'twi', 'TWI15G0426' => 'twi', 'TWI31G1005' => 'twi', 'TWI38G0513' => 'twi', 'TWI38G1484' => 'twi', 'TWI73G1098' => 'twi', 'unitig_26.g10519' => 'ugi', 'unitig_736.g22395' => 'ugi', 'unitig_747.g21234' => 'ugi', 'unitig_747.g21942' => 'ugi', 'vmacro14351' => 'vma', 'VMungo0540G0082' => 'vmu', 'VMungo0540G0405' => 'vmu', 'VMungo0540G1486' => 'vmu', 'VMungo0540G1692' => 'vmu', 'VMungo0720G2473' => 'vmu', 'VMungo1127G1562' => 'vmu', 'VMungo1215G1918' => 'vmu', 'Zm00001eb052650' => 'zma', 'Zm00001eb063710' => 'zma', 'Zm00001eb083950' => 'zma', 'Zm00001eb174420' => 'zma', 'Zm00001eb260140' => 'zma', 'Zm00001eb260150' => 'zma', 'Zm00001eb260160' => 'zma', 'Zm00001eb348290' => 'zma', 'Zm00001eb366870' => 'zma', 'Zm00001eb421930' => 'zma' ), 'gf_id' => 'HOM05D001025', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001025' ), 'data_identifier' => 'HOM05D001025', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001025', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '592', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p22650' => 'bna', 'A01p29720' => 'bna', 'A03p26560' => 'bna', 'A03p68820' => 'bna', 'A04p20980' => 'bna', 'A06p07730' => 'bna', 'A07p18260' => 'bna', 'A08p33710' => 'bna', 'A09p16970' => 'bna', 'A10p27490' => 'bna', 'Aa31LG1G17300' => 'aar', 'Aa31LG1G3910' => 'aar', 'Aa31LG2G9630' => 'aar', 'Aa31LG5G8360' => 'aar', 'Aa31LG9G2410' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4699' => 'aag', 'Actinidia23512' => 'ach', 'Actinidia37080' => 'ach', 'Ah.01g020380' => 'amhyb', 'Ah.08g215710' => 'amhyb', 'Ah.09g225110' => 'amhyb', 'Ah.10g036680' => 'amhyb', 'AL1G21940' => 'aly', 'AL2G15540' => 'aly', 'AL4G21520' => 'aly', 'AL7G40960' => 'aly', 'Aqoxy2G01191' => 'aox', 'Aqoxy2G03393' => 'aox', 'Aqoxy4G02775' => 'aox', 'Aqoxy6G00058' => 'aox', 'arahy.Tifrunner.gnm1.ann1.9X74H2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CW3FX9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R485W7' => 'arhy', 'AT1G10960' => 'ath', 'AT1G60950' => 'ath', 'AT2G27510' => 'ath', 'AT4G14890' => 'ath', 'AT5G10000' => 'ath', 'ATR0665G624' => 'atr', 'ATR0697G138' => 'atr', 'ATR0776G046' => 'atr', 'ATR1134G135' => 'atr', 'Atru.chr12.1025' => 'acertr', 'Atru.chr3.3241' => 'acertr', 'Atru.chr4.2460' => 'acertr', 'AUR62007427' => 'cqu', 'AUR62010960' => 'cqu', 'AUR62012201' => 'cqu', 'AUR62021470' => 'cqu', 'AUR62022834' => 'cqu', 'AUR62033635' => 'cqu', 'AUR62036186' => 'cqu', 'BcaB01g03077' => 'bca', 'BcaB02g10093' => 'bca', 'BcaB04g20295' => 'bca', 'BcaB06g28147' => 'bca', 'BcaB07g31253' => 'bca', 'BcaC01g04946' => 'bca', 'BcaC02g10614' => 'bca', 'BcaC02g10885' => 'bca', 'BcaC04g19356' => 'bca', 'BcaC04g22297' => 'bca', 'BcaC05g24977' => 'bca', 'BcaC06g31823' => 'bca', 'BcaC07g38633' => 'bca', 'BcaC09g49353' => 'bca', 'BcaC09g50168' => 'bca', 'BcaNung00322' => 'bca', 'BcaNung04769' => 'bca', 'BolC1t02753H' => 'bol', 'BolC1t03721H' => 'bol', 'BolC3t15525H' => 'bol', 'BolC4t23903H' => 'bol', 'BolC4t24231H' => 'bol', 'BolC4t27209H' => 'bol', 'BolC5t29671H' => 'bol', 'BolC8t49044H' => 'bol', 'BolC9t54999H' => 'bol', 'BolC9t59517H' => 'bol', 'BraA01t02178Z' => 'bra', 'BraA01t03099Z' => 'bra', 'BraA03t11867Z' => 'bra', 'BraA04t17667Z' => 'bra', 'BraA07t29542Z' => 'bra', 'BraA08t35287Z' => 'bra', 'BraA09t37334Z' => 'bra', 'BraA10t44801Z' => 'bra', 'BraSC39t46181Z' => 'bra', 'C01p28240' => 'bna', 'C01p37530' => 'bna', 'C03p31820' => 'bna', 'C04p24080' => 'bna', 'C04p25790' => 'bna', 'C04p56770' => 'bna', 'C05p09310' => 'bna', 'C09p21010' => 'bna', 'C09p67560' => 'bna', 'CAN.G1324.7' => 'can', 'CAN.G1358.10' => 'can', 'CAN.G1550.2' => 'can', 'CAN.G186.56' => 'can', 'CAN.G1965.1' => 'can', 'CAN.G645.15' => 'can', 'CAN.G798.26' => 'can', 'CAN.G798.27' => 'can', 'CAN.G798.29' => 'can', 'CAN.G919.31' => 'can', 'CANSAT11G0133' => 'cansat', 'CANSAT11G1171' => 'cansat', 'CANSAT11G2056' => 'cansat', 'CANSAT56G1202' => 'cansat', 'CANSAT56G1514' => 'cansat', 'CANSAT78G0455' => 'cansat', 'CARHR011190' => 'chi', 'CARHR051980' => 'chi', 'CARHR120170' => 'chi', 'CARHR203310' => 'chi', 'CARHR221490' => 'chi', 'Carub.0001s1054' => 'cru', 'Carub.0002s0431' => 'cru', 'Carub.0004s0818' => 'cru', 'Carub.0006s0846' => 'cru', 'Carub.0007s2722' => 'cru', 'Ca_00058_v3' => 'car', 'Ca_17831_v3' => 'car', 'Ca_19408_v3' => 'car', 'Ca_24397_v3' => 'car', 'Ca_25664_v3' => 'car', 'CBR_g21818' => 'cbr', 'CBR_g31195' => 'cbr', 'CBR_g32282' => 'cbr', 'CBR_g39599' => 'cbr', 'CBR_g49410' => 'cbr', 'Cc01_g09120' => 'ccan', 'Cc01_g09130' => 'ccan', 'Cc02_g09630' => 'ccan', 'Cc02_g22810' => 'ccan', 'Cc03_g03810' => 'ccan', 'CDE02G3718' => 'cde', 'CDE04G3183' => 'cde', 'CDE07G1046' => 'cde', 'CDE08G0480' => 'cde', 'Cfa005493' => 'cfa', 'Cfa010312' => 'cfa', 'Cfa015648' => 'cfa', 'Ciclev10002793m.g' => 'ccl', 'Ciclev10003356m.g' => 'ccl', 'Ciclev10006141m.g' => 'ccl', 'Ciclev10016676m.g' => 'ccl', 'Ciclev10017081m.g' => 'ccl', 'Ciclev10029499m.g' => 'ccl', 'CiPaw.01G166300' => 'cil', 'CiPaw.06G145600' => 'cil', 'CiPaw.13G040100' => 'cil', 'CiPaw.13G135800' => 'cil', 'ClCG01G012230' => 'cla', 'ClCG05G009510' => 'cla', 'ClCG08G008270' => 'cla', 'COL.COLO4_11763' => 'col', 'COL.COLO4_19876' => 'col', 'COL.COLO4_21481' => 'col', 'Cpa.g.sc118.34' => 'cpa', 'Cpa.g.sc32.13' => 'cpa', 'Cpa.g.sc58.103' => 'cpa', 'Cre03.g183850' => 'cre', 'Cre06.g306350' => 'cre', 'Cre07.g334800' => 'cre', 'Cre12.g487900' => 'cre', 'Cre14.g626700' => 'cre', 'Cre16.g658400' => 'cre', 'Cre17.g700950' => 'cre', 'CsaV3_1G014830' => 'csa', 'CsaV3_3G013320' => 'csa', 'CsaV3_3G019210' => 'csa', 'CsaV3_3G019220' => 'csa', 'CsaV3_6G004230' => 'csa', 'CSS0003773' => 'camsi', 'CSS0004563' => 'camsi', 'CSS0013949' => 'camsi', 'CSS0025971' => 'camsi', 'CSS0028570' => 'camsi', 'CSS0033127' => 'camsi', 'CSS0036051' => 'camsi', 'CSS0040087' => 'camsi', 'CSS0043179' => 'camsi', 'DCAR_006161' => 'dca', 'DCAR_010351' => 'dca', 'DCAR_012197' => 'dca', 'DCAR_024162' => 'dca', 'Dinv01030' => 'din', 'Dinv10924' => 'din', 'Dinv11835' => 'din', 'Dinv22841' => 'din', 'Dinv42553' => 'din', 'Duzib052G0560' => 'dzi', 'Duzib132G0389' => 'dzi', 'Duzib150G1181' => 'dzi', 'Duzib168G0623' => 'dzi', 'Duzib170G1036' => 'dzi', 'Duzib212G0200' => 'dzi', 'Duzib248G0194' => 'dzi', 'ECA232G2193' => 'eca', 'ECA233G0302' => 'eca', 'ECA234G2813' => 'eca', 'ECA234G4866' => 'eca', 'ECA240G3932' => 'eca', 'ECA248G0385' => 'eca', 'EL10Ac2g04781' => 'bvu', 'EL10Ac3g06445' => 'bvu', 'EL10Ac7g15825' => 'bvu', 'EL10Ac8g18550' => 'bvu', 'Eucgr.B03849' => 'egr', 'Eucgr.I02744' => 'egr', 'Eucgr.J00264' => 'egr', 'Eucgr.J00493' => 'egr', 'FAN04G2181' => 'fan', 'FAN07G2666' => 'fan', 'FAN11G0024' => 'fan', 'FAN12G1105' => 'fan', 'FAN13G0302' => 'fan', 'FAN15G2781' => 'fan', 'FAN16G1274' => 'fan', 'FAN17G2988' => 'fan', 'FAN18G2621' => 'fan', 'FAN21G0013' => 'fan', 'FAN22G1211' => 'fan', 'FAN25G3626' => 'fan', 'FvH4_2g09491' => 'fve', 'FvH4_3g24910' => 'fve', 'FvH4_4g15630' => 'fve', 'FvH4_5g28820' => 'fve', 'Glyma.01G238000' => 'gma', 'Glyma.05G168400' => 'gma', 'Glyma.08G126800' => 'gma', 'Glyma.08G188500' => 'gma', 'Glyma.10G278900' => 'gma', 'Glyma.11G005700' => 'gma', 'Glyma.11G183300' => 'gma', 'Glyma.12G089200' => 'gma', 'Glyma.12G169400' => 'gma', 'Glyma.12G169500' => 'gma', 'Glyma.12G169600' => 'gma', 'Glyma.20G110800' => 'gma', 'Gohir.A03G192900' => 'ghi', 'Gohir.A03G193000' => 'ghi', 'Gohir.A05G080700' => 'ghi', 'Gohir.A09G216000' => 'ghi', 'Gohir.A12G027700' => 'ghi', 'Gohir.A13G036200' => 'ghi', 'Gohir.A13G222600' => 'ghi', 'Gohir.D02G213900' => 'ghi', 'Gohir.D02G214000' => 'ghi', 'Gohir.D05G083700' => 'ghi', 'Gohir.D05G083800' => 'ghi', 'Gohir.D05G083850' => 'ghi', 'Gohir.D08G015400' => 'ghi', 'Gohir.D09G218400' => 'ghi', 'Gohir.D12G027100' => 'ghi', 'Gohir.D13G034500' => 'ghi', 'Gohir.D13G227400' => 'ghi', 'Gorai.005G241800' => 'gra', 'Gorai.005G241900' => 'gra', 'Gorai.006G239400' => 'gra', 'Gorai.008G027600' => 'gra', 'Gorai.009G085400' => 'gra', 'Gorai.009G085500' => 'gra', 'Gorai.013G039000' => 'gra', 'Gorai.013G194800' => 'gra', 'Gorai.013G257900' => 'gra', 'GSVIVG01000982001' => 'vvi', 'GSVIVG01017981001' => 'vvi', 'HanXRQChr01g0024061' => 'han', 'HanXRQChr09g0247831' => 'han', 'HanXRQChr10g0294611' => 'han', 'HanXRQChr10g0294621' => 'han', 'HanXRQChr11g0346821' => 'han', 'HanXRQChr13g0397461' => 'han', 'HanXRQChr16g0513651' => 'han', 'HanXRQChr16g0513701' => 'han', 'Haze_00897' => 'cav', 'Haze_01745' => 'cav', 'Haze_02486' => 'cav', 'Haze_02487' => 'cav', 'Haze_23374' => 'cav', 'Hma1.2p1_0578F.1_g182520' => 'hma', 'Hma1.2p1_0602F.1_g187350' => 'hma', 'Hma1.2p1_0602F.1_g187360' => 'hma', 'Hma1.2p1_0874F.1_g231320' => 'hma', 'Hma1.2p1_1197F.1_g266210' => 'hma', 'Hma1.2p1_1197F.1_g266220' => 'hma', 'Hma1.2p1_2167F.1_g315895' => 'hma', 'Hma1.2p1_2190F.1_g316640' => 'hma', 'Hma1.2p1_3645F.1_g337153' => 'hma', 'HPP92_004907' => 'vpl', 'HPP92_012134' => 'vpl', 'HPP92_025136' => 'vpl', 'HPP92_026087' => 'vpl', 'Hund06782' => 'sun', 'Hund06784' => 'sun', 'Lalb_Chr01g0004861' => 'lal', 'Lalb_Chr02g0140591' => 'lal', 'Lalb_Chr02g0140611' => 'lal', 'Lalb_Chr03g0028101' => 'lal', 'Lalb_Chr07g0185791' => 'lal', 'Lalb_Chr12g0204491' => 'lal', 'Lalb_Chr13g0295671' => 'lal', 'Lalb_Chr19g0136461' => 'lal', 'Lalb_Chr21g0309191' => 'lal', 'Lj1g0028158' => 'lja', 'Lj1P236T38' => 'lonja', 'Lj2C32G2' => 'lonja', 'Lj2P944T8' => 'lonja', 'Lj2P963T15' => 'lonja', 'Lj3g0011788' => 'lja', 'Lj4g0025027' => 'lja', 'Lj5P255T36' => 'lonja', 'Lj6g0018866' => 'lja', 'Lj6P608T31' => 'lonja', 'LjContig00408g0008879' => 'lja', 'Lsat_1_v5_gn_5_105820' => 'lsa', 'Lsat_1_v5_gn_6_38800' => 'lsa', 'Lsat_1_v5_gn_7_67141' => 'lsa', 'Manes.04G003400' => 'mes', 'Manes.07G020000' => 'mes', 'Manes.07G020100' => 'mes', 'Manes.07G020150' => 'mes', 'Manes.10G061500' => 'mes', 'Manes.10G123200' => 'mes', 'Manes.11G161900' => 'mes', 'Manes.15G029300' => 'mes', 'Mapoly0071s0018' => 'mpo', 'Mapoly0082s0023' => 'mpo', 'Mapoly3477s0001' => 'mpo', 'MBI05_g31233_MAGBIO' => 'mbi', 'MBI09_g05946_MAGBIO' => 'mbi', 'MBI09_g05947_MAGBIO' => 'mbi', 'MBI17_g08346_MAGBIO' => 'mbi', 'MCO04G038' => 'mco', 'MCO09G370' => 'mco', 'MCO13G605' => 'mco', 'MD00G1075500' => 'mdo', 'MD03G1144300' => 'mdo', 'MD08G1236800' => 'mdo', 'MD13G1193300' => 'mdo', 'MD15G1428700' => 'mdo', 'Medtr1g112030' => 'mtr', 'Medtr1g112050' => 'mtr', 'Medtr2g006290' => 'mtr', 'Medtr2g086510' => 'mtr', 'Medtr4g053120' => 'mtr', 'Medtr5g006320' => 'mtr', 'Medtr8g088720' => 'mtr', 'MELO3C004712.2' => 'cme', 'MELO3C006533.2' => 'cme', 'MELO3C019438.2' => 'cme', 'MELO3C019440.2' => 'cme', 'MELO3C019441.2' => 'cme', 'MELO3C019895.2' => 'cme', 'Migut.B00811' => 'egut', 'Migut.D02447' => 'egut', 'Migut.F00875' => 'egut', 'Migut.N00186' => 'egut', 'Migut.N01051' => 'egut', 'Migut.N02491' => 'egut', 'Migut.O00784' => 'egut', 'MSTRG.12367' => 'ama', 'MSTRG.18756' => 'ama', 'MSTRG.21042' => 'ama', 'Nitab4.5_0000559g0040' => 'nta', 'Nitab4.5_0000667g0190' => 'nta', 'Nitab4.5_0000755g0160' => 'nta', 'Nitab4.5_0001216g0080' => 'nta', 'Nitab4.5_0004069g0040' => 'nta', 'Nitab4.5_0004129g0010' => 'nta', 'Nitab4.5_0005744g0030' => 'nta', 'Nitab4.5_0006996g0030' => 'nta', 'Nitab4.5_0008971g0040' => 'nta', 'Nitab4.5_0009769g0020' => 'nta', 'Nitab4.5_0009833g0010' => 'nta', 'Nitab4.5_0013140g0020' => 'nta', 'Nn003s41376' => 'nnu', 'Nn1g01857' => 'nnu', 'Nn1g03611' => 'nnu', 'Nn1g06853' => 'nnu', 'Nn3g18360' => 'nnu', 'Nn4g26328' => 'nnu', 'Nn5g27531' => 'nnu', 'Nn6g34899' => 'nnu', 'Nn7g36299' => 'nnu', 'Oeu021485.1' => 'oeu', 'Oeu022433.1' => 'oeu', 'Oeu032111.1' => 'oeu', 'Oeu051608.1' => 'oeu', 'Os01g0860601' => 'osa', 'Os03g0659200' => 'osa', 'Os03g0835900' => 'osa', 'Os04g0412200' => 'osa', 'Os05g0443500' => 'osa', 'Os07g0251500' => 'osa', 'Os08g0104600' => 'osa', 'Peaxi162Scf00003g00047' => 'pax', 'Peaxi162Scf00003g00052' => 'pax', 'Peaxi162Scf00003g00394' => 'pax', 'Peaxi162Scf00091g00621' => 'pax', 'Peaxi162Scf00152g00146' => 'pax', 'Peaxi162Scf00173g00025' => 'pax', 'Peaxi162Scf00195g00102' => 'pax', 'Peaxi162Scf00402g00013' => 'pax', 'Peaxi162Scf00519g00618' => 'pax', 'PGR004G2838' => 'pgr', 'PGR044G2275' => 'pgr', 'PGR102G1377' => 'pgr', 'PGR119G1245' => 'pgr', 'PGR142G4449' => 'pgr', 'PGSC0003DMG400004532' => 'stu', 'PGSC0003DMG400011950' => 'stu', 'PGSC0003DMG400023391' => 'stu', 'PGSC0003DMG400023985' => 'stu', 'PGSC0003DMG400026360' => 'stu', 'PGSC0003DMG400035711' => 'stu', 'PGSC0003DMG400037286' => 'stu', 'PGSC0003DMG402005881' => 'stu', 'Phvul.002G045400' => 'pvu', 'Phvul.006G216600' => 'pvu', 'Phvul.006G216700' => 'pvu', 'Phvul.006G216800' => 'pvu', 'Phvul.007G022500' => 'pvu', 'Phvul.011G094400' => 'pvu', 'Potri.001G470700' => 'ptr', 'Potri.003G015200' => 'ptr', 'Potri.004G202500' => 'ptr', 'Potri.004G218400' => 'ptr', 'Potri.008G020100' => 'ptr', 'Potri.008G153200' => 'ptr', 'Potri.009G163800' => 'ptr', 'Potri.010G087300' => 'ptr', 'Potri.010G239100' => 'ptr', 'Pp3c10_16100' => 'ppa', 'Pp3c10_16880' => 'ppa', 'Pp3c16_6230' => 'ppa', 'Pp3c17_18910' => 'ppa', 'Pp3c3_22119' => 'ppa', 'Pp3c3_22140' => 'ppa', 'Pp3c4_8159' => 'ppa', 'Pp3c4_8171' => 'ppa', 'Pp3c4_8330' => 'ppa', 'PRCOL_00004098' => 'pco', 'Prupe.1G013900' => 'ppe', 'Prupe.1G226300' => 'ppe', 'Prupe.1G573600' => 'ppe', 'Prupe.6G130100' => 'ppe', 'Psat3g090040' => 'psa', 'Psat4g210440' => 'psa', 'Psat6g231040' => 'psa', 'Psat6g231080' => 'psa', 'Psat7g063000' => 'psa', 'Psat7g188000' => 'psa', 'Psat7g188040' => 'psa', 'PSO017G0206' => 'pso', 'PSO170G0501' => 'pso', 'PSO170G6422' => 'pso', 'PSO210G7739' => 'pso', 'PSO339G1808' => 'pso', 'PSO339G6135' => 'pso', 'PSO384G0010' => 'pso', 'PSO384G0964' => 'pso', 'PSO761G0050' => 'pso', 'PSO782G4085' => 'pso', 'QL01p012264' => 'qlo', 'QL02p099491' => 'qlo', 'QL03p033868' => 'qlo', 'QL04p046678' => 'qlo', 'QL06p002448' => 'qlo', 'RcHm_v2.0_Chr4g0416181' => 'rch', 'RcHm_v2.0_Chr5g0044701' => 'rch', 'RcHm_v2.0_Chr6g0265781' => 'rch', 'RcHm_v2.0_Chr7g0221031' => 'rch', 'Rhsim04G0202000' => 'rsi', 'Rhsim11G0127300' => 'rsi', 'Rhsim13G0111800' => 'rsi', 'Sabra01G0165600' => 'sbr', 'Sabra03G0008300' => 'sbr', 'Sabra04G0136900' => 'sbr', 'Sabra08G0013400' => 'sbr', 'Sabra08G0116800' => 'sbr', 'Sabra09G0128000' => 'sbr', 'Sabra10G0055500' => 'sbr', 'Sabra10G0073300' => 'sbr', 'SalBow3G0385' => 'sbo', 'SalBow3G1119' => 'sbo', 'SalBow3G2005' => 'sbo', 'SalBow6G2563' => 'sbo', 'SalBow6G6386' => 'sbo', 'Sc06g0008800' => 'sci', 'Sc07g0004950' => 'sci', 'Sc09g0005340' => 'sci', 'Sc13g0004410' => 'sci', 'Sc21g0007090' => 'sci', 'Sed0009285' => 'sed', 'Sed0017583' => 'sed', 'Sed0019699' => 'sed', 'Sed0023107' => 'sed', 'SEGI_10916' => 'sgi', 'SEGI_16217' => 'sgi', 'SEGI_19466' => 'sgi', 'SEGI_41115' => 'sgi', 'SGA_v2.0_scaffold111G31534' => 'sas', 'SGA_v2.0_scaffold22G09864' => 'sas', 'SGA_v2.0_scaffold338G49219' => 'sas', 'SGA_v2.0_scaffold92G28298' => 'sas', 'SMO119G0064' => 'smo', 'SMO223G0038' => 'smo', 'SMO347G0584' => 'smo', 'SMO351G0010' => 'smo', 'SMO356G0404' => 'smo', 'Solyc01g103920.3' => 'sly', 'Solyc04g009710.2' => 'sly', 'Solyc05g055280.2' => 'sly', 'Solyc10g044520.3' => 'sly', 'Solyc10g075160.1' => 'sly', 'Solyc11g006910.3' => 'sly', 'Solyc11g068430.3' => 'sly', 'Sopen01g046310' => 'spe', 'Sopen03g001200' => 'spe', 'Sopen04g004830' => 'spe', 'Sopen05g033720' => 'spe', 'Sopen06g030740' => 'spe', 'Sopen10g013090' => 'spe', 'Sopen10g027630' => 'spe', 'Sopen10g027640' => 'spe', 'Sopen11g002820' => 'spe', 'Sopen11g027140' => 'spe', 'Sp1g09680' => 'spa', 'Sp2g03630' => 'spa', 'Sp4g10320' => 'spa', 'Sp6g33400' => 'spa', 'Sp7g13030' => 'spa', 'TAR365G0317' => 'tar', 'TAR376G0979' => 'tar', 'TAR623G1665' => 'tar', 'TAR633G2373' => 'tar', 'TAR636G1400' => 'tar', 'THA.LOC104800529' => 'tha', 'THA.LOC104808547' => 'tha', 'THA.LOC104809615' => 'tha', 'THA.LOC104815724' => 'tha', 'THA.LOC104818480' => 'tha', 'THA.LOC104819179' => 'tha', 'THA.LOC104822270' => 'tha', 'THA.LOC104826425' => 'tha', 'Thecc.02G089700' => 'tca', 'Thecc.04G232300' => 'tca', 'Thecc.09G283400' => 'tca', 'Thhalv10009020m.g' => 'esa', 'Thhalv10015506m.g' => 'esa', 'Thhalv10017364m.g' => 'esa', 'Thhalv10023742m.g' => 'esa', 'Thhalv10026483m.g' => 'esa', 'TPR.G17232' => 'tpr', 'TPR.G2133' => 'tpr', 'TPR.G2498' => 'tpr', 'TPR.G31942' => 'tpr', 'TPR.G37877' => 'tpr', 'TPR.G4571' => 'tpr', 'TWI14G1113' => 'twi', 'TWI15G0426' => 'twi', 'TWI31G1005' => 'twi', 'TWI38G0513' => 'twi', 'TWI38G1484' => 'twi', 'TWI73G1098' => 'twi', 'unitig_26.g10519' => 'ugi', 'unitig_736.g22395' => 'ugi', 'unitig_747.g21234' => 'ugi', 'unitig_747.g21942' => 'ugi', 'vmacro14351' => 'vma', 'VMungo0540G0082' => 'vmu', 'VMungo0540G0405' => 'vmu', 'VMungo0540G1486' => 'vmu', 'VMungo0540G1692' => 'vmu', 'VMungo0720G2473' => 'vmu', 'VMungo1127G1562' => 'vmu', 'VMungo1215G1918' => 'vmu', 'Zm00001eb052650' => 'zma', 'Zm00001eb063710' => 'zma', 'Zm00001eb083950' => 'zma', 'Zm00001eb174420' => 'zma', 'Zm00001eb260140' => 'zma', 'Zm00001eb260150' => 'zma', 'Zm00001eb260160' => 'zma', 'Zm00001eb348290' => 'zma', 'Zm00001eb366870' => 'zma', 'Zm00001eb421930' => 'zma' ) $gf_id = 'HOM05D001025' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001025' ) $data_identifier = 'HOM05D001025' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 19, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 2, 'amhyb' => (int) 4, 'aly' => (int) 4, 'aox' => (int) 4, 'arhy' => (int) 3, 'ath' => (int) 5, 'atr' => (int) 4, 'acertr' => (int) 3, 'cqu' => (int) 7, 'bca' => (int) 17, 'bol' => (int) 10, 'bra' => (int) 9, 'can' => (int) 10, 'cansat' => (int) 6, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 5, 'cbr' => (int) 5, 'ccan' => (int) 5, 'cde' => (int) 4, 'cfa' => (int) 3, 'ccl' => (int) 6, 'cil' => (int) 4, 'cla' => (int) 3, 'col' => (int) 3, 'cpa' => (int) 3, 'cre' => (int) 7, 'csa' => (int) 5, 'camsi' => (int) 9, 'dca' => (int) 4, 'din' => (int) 5, 'dzi' => (int) 7, 'eca' => (int) 6, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 12, 'fve' => (int) 4, 'gma' => (int) 12, 'ghi' => (int) 17, 'gra' => (int) 9, 'vvi' => (int) 2, 'han' => (int) 8, 'cav' => (int) 5, 'hma' => (int) 9, 'vpl' => (int) 4, 'sun' => (int) 2, 'lal' => (int) 9, 'lja' => (int) 5, 'lonja' => (int) 6, 'lsa' => (int) 3, 'mes' => (int) 8, 'mpo' => (int) 3, 'mbi' => (int) 4, 'mco' => (int) 3, 'mdo' => (int) 5, 'mtr' => (int) 7, 'cme' => (int) 6, 'egut' => (int) 7, 'ama' => (int) 3, 'nta' => (int) 12, 'nnu' => (int) 9, 'oeu' => (int) 4, 'osa' => (int) 7, 'pax' => (int) 9, 'pgr' => (int) 5, 'stu' => (int) 8, 'pvu' => (int) 6, 'ptr' => (int) 9, 'ppa' => (int) 9, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 7, 'pso' => (int) 10, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 3, 'sbr' => (int) 8, 'sbo' => (int) 5, 'sci' => (int) 5, 'sed' => (int) 4, 'sgi' => (int) 4, 'sas' => (int) 4, 'smo' => (int) 5, 'sly' => (int) 7, 'spe' => (int) 10, 'spa' => (int) 5, 'tar' => (int) 5, 'tha' => (int) 8, 'tca' => (int) 3, 'esa' => (int) 5, 'tpr' => (int) 6, 'twi' => (int) 6, 'ugi' => (int) 4, 'vma' => (int) 1, 'vmu' => (int) 7, 'zma' => (int) 10 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb421930' $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' => 'HOM05D001025', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '592', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p22650' => 'bna', 'A01p29720' => 'bna', 'A03p26560' => 'bna', 'A03p68820' => 'bna', 'A04p20980' => 'bna', 'A06p07730' => 'bna', 'A07p18260' => 'bna', 'A08p33710' => 'bna', 'A09p16970' => 'bna', 'A10p27490' => 'bna', 'Aa31LG1G17300' => 'aar', 'Aa31LG1G3910' => 'aar', 'Aa31LG2G9630' => 'aar', 'Aa31LG5G8360' => 'aar', 'Aa31LG9G2410' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4699' => 'aag', 'Actinidia23512' => 'ach', 'Actinidia37080' => 'ach', 'Ah.01g020380' => 'amhyb', 'Ah.08g215710' => 'amhyb', 'Ah.09g225110' => 'amhyb', 'Ah.10g036680' => 'amhyb', 'AL1G21940' => 'aly', 'AL2G15540' => 'aly', 'AL4G21520' => 'aly', 'AL7G40960' => 'aly', 'Aqoxy2G01191' => 'aox', 'Aqoxy2G03393' => 'aox', 'Aqoxy4G02775' => 'aox', 'Aqoxy6G00058' => 'aox', 'arahy.Tifrunner.gnm1.ann1.9X74H2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CW3FX9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R485W7' => 'arhy', 'AT1G10960' => 'ath', 'AT1G60950' => 'ath', 'AT2G27510' => 'ath', 'AT4G14890' => 'ath', 'AT5G10000' => 'ath', 'ATR0665G624' => 'atr', 'ATR0697G138' => 'atr', 'ATR0776G046' => 'atr', 'ATR1134G135' => 'atr', 'Atru.chr12.1025' => 'acertr', 'Atru.chr3.3241' => 'acertr', 'Atru.chr4.2460' => 'acertr', 'AUR62007427' => 'cqu', 'AUR62010960' => 'cqu', 'AUR62012201' => 'cqu', 'AUR62021470' => 'cqu', 'AUR62022834' => 'cqu', 'AUR62033635' => 'cqu', 'AUR62036186' => 'cqu', 'BcaB01g03077' => 'bca', 'BcaB02g10093' => 'bca', 'BcaB04g20295' => 'bca', 'BcaB06g28147' => 'bca', 'BcaB07g31253' => 'bca', 'BcaC01g04946' => 'bca', 'BcaC02g10614' => 'bca', 'BcaC02g10885' => 'bca', 'BcaC04g19356' => 'bca', 'BcaC04g22297' => 'bca', 'BcaC05g24977' => 'bca', 'BcaC06g31823' => 'bca', 'BcaC07g38633' => 'bca', 'BcaC09g49353' => 'bca', 'BcaC09g50168' => 'bca', 'BcaNung00322' => 'bca', 'BcaNung04769' => 'bca', 'BolC1t02753H' => 'bol', 'BolC1t03721H' => 'bol', 'BolC3t15525H' => 'bol', 'BolC4t23903H' => 'bol', 'BolC4t24231H' => 'bol', 'BolC4t27209H' => 'bol', 'BolC5t29671H' => 'bol', 'BolC8t49044H' => 'bol', 'BolC9t54999H' => 'bol', 'BolC9t59517H' => 'bol', 'BraA01t02178Z' => 'bra', 'BraA01t03099Z' => 'bra', 'BraA03t11867Z' => 'bra', 'BraA04t17667Z' => 'bra', 'BraA07t29542Z' => 'bra', 'BraA08t35287Z' => 'bra', 'BraA09t37334Z' => 'bra', 'BraA10t44801Z' => 'bra', 'BraSC39t46181Z' => 'bra', 'C01p28240' => 'bna', 'C01p37530' => 'bna', 'C03p31820' => 'bna', 'C04p24080' => 'bna', 'C04p25790' => 'bna', 'C04p56770' => 'bna', 'C05p09310' => 'bna', 'C09p21010' => 'bna', 'C09p67560' => 'bna', 'CAN.G1324.7' => 'can', 'CAN.G1358.10' => 'can', 'CAN.G1550.2' => 'can', 'CAN.G186.56' => 'can', 'CAN.G1965.1' => 'can', 'CAN.G645.15' => 'can', 'CAN.G798.26' => 'can', 'CAN.G798.27' => 'can', 'CAN.G798.29' => 'can', 'CAN.G919.31' => 'can', 'CANSAT11G0133' => 'cansat', 'CANSAT11G1171' => 'cansat', 'CANSAT11G2056' => 'cansat', 'CANSAT56G1202' => 'cansat', 'CANSAT56G1514' => 'cansat', 'CANSAT78G0455' => 'cansat', 'CARHR011190' => 'chi', 'CARHR051980' => 'chi', 'CARHR120170' => 'chi', 'CARHR203310' => 'chi', 'CARHR221490' => 'chi', 'Carub.0001s1054' => 'cru', 'Carub.0002s0431' => 'cru', 'Carub.0004s0818' => 'cru', 'Carub.0006s0846' => 'cru', 'Carub.0007s2722' => 'cru', 'Ca_00058_v3' => 'car', 'Ca_17831_v3' => 'car', 'Ca_19408_v3' => 'car', 'Ca_24397_v3' => 'car', 'Ca_25664_v3' => 'car', 'CBR_g21818' => 'cbr', 'CBR_g31195' => 'cbr', 'CBR_g32282' => 'cbr', 'CBR_g39599' => 'cbr', 'CBR_g49410' => 'cbr', 'Cc01_g09120' => 'ccan', 'Cc01_g09130' => 'ccan', 'Cc02_g09630' => 'ccan', 'Cc02_g22810' => 'ccan', 'Cc03_g03810' => 'ccan', 'CDE02G3718' => 'cde', 'CDE04G3183' => 'cde', 'CDE07G1046' => 'cde', 'CDE08G0480' => 'cde', 'Cfa005493' => 'cfa', 'Cfa010312' => 'cfa', 'Cfa015648' => 'cfa', 'Ciclev10002793m.g' => 'ccl', 'Ciclev10003356m.g' => 'ccl', 'Ciclev10006141m.g' => 'ccl', 'Ciclev10016676m.g' => 'ccl', 'Ciclev10017081m.g' => 'ccl', 'Ciclev10029499m.g' => 'ccl', 'CiPaw.01G166300' => 'cil', 'CiPaw.06G145600' => 'cil', 'CiPaw.13G040100' => 'cil', 'CiPaw.13G135800' => 'cil', 'ClCG01G012230' => 'cla', 'ClCG05G009510' => 'cla', 'ClCG08G008270' => 'cla', 'COL.COLO4_11763' => 'col', 'COL.COLO4_19876' => 'col', 'COL.COLO4_21481' => 'col', 'Cpa.g.sc118.34' => 'cpa', 'Cpa.g.sc32.13' => 'cpa', 'Cpa.g.sc58.103' => 'cpa', 'Cre03.g183850' => 'cre', 'Cre06.g306350' => 'cre', 'Cre07.g334800' => 'cre', 'Cre12.g487900' => 'cre', 'Cre14.g626700' => 'cre', 'Cre16.g658400' => 'cre', 'Cre17.g700950' => 'cre', 'CsaV3_1G014830' => 'csa', 'CsaV3_3G013320' => 'csa', 'CsaV3_3G019210' => 'csa', 'CsaV3_3G019220' => 'csa', 'CsaV3_6G004230' => 'csa', 'CSS0003773' => 'camsi', 'CSS0004563' => 'camsi', 'CSS0013949' => 'camsi', 'CSS0025971' => 'camsi', 'CSS0028570' => 'camsi', 'CSS0033127' => 'camsi', 'CSS0036051' => 'camsi', 'CSS0040087' => 'camsi', 'CSS0043179' => 'camsi', 'DCAR_006161' => 'dca', 'DCAR_010351' => 'dca', 'DCAR_012197' => 'dca', 'DCAR_024162' => 'dca', 'Dinv01030' => 'din', 'Dinv10924' => 'din', 'Dinv11835' => 'din', 'Dinv22841' => 'din', 'Dinv42553' => 'din', 'Duzib052G0560' => 'dzi', 'Duzib132G0389' => 'dzi', 'Duzib150G1181' => 'dzi', 'Duzib168G0623' => 'dzi', 'Duzib170G1036' => 'dzi', 'Duzib212G0200' => 'dzi', 'Duzib248G0194' => 'dzi', 'ECA232G2193' => 'eca', 'ECA233G0302' => 'eca', 'ECA234G2813' => 'eca', 'ECA234G4866' => 'eca', 'ECA240G3932' => 'eca', 'ECA248G0385' => 'eca', 'EL10Ac2g04781' => 'bvu', 'EL10Ac3g06445' => 'bvu', 'EL10Ac7g15825' => 'bvu', 'EL10Ac8g18550' => 'bvu', 'Eucgr.B03849' => 'egr', 'Eucgr.I02744' => 'egr', 'Eucgr.J00264' => 'egr', 'Eucgr.J00493' => 'egr', 'FAN04G2181' => 'fan', 'FAN07G2666' => 'fan', 'FAN11G0024' => 'fan', 'FAN12G1105' => 'fan', 'FAN13G0302' => 'fan', 'FAN15G2781' => 'fan', 'FAN16G1274' => 'fan', 'FAN17G2988' => 'fan', 'FAN18G2621' => 'fan', 'FAN21G0013' => 'fan', 'FAN22G1211' => 'fan', 'FAN25G3626' => 'fan', 'FvH4_2g09491' => 'fve', 'FvH4_3g24910' => 'fve', 'FvH4_4g15630' => 'fve', 'FvH4_5g28820' => 'fve', 'Glyma.01G238000' => 'gma', 'Glyma.05G168400' => 'gma', 'Glyma.08G126800' => 'gma', 'Glyma.08G188500' => 'gma', 'Glyma.10G278900' => 'gma', 'Glyma.11G005700' => 'gma', 'Glyma.11G183300' => 'gma', 'Glyma.12G089200' => 'gma', 'Glyma.12G169400' => 'gma', 'Glyma.12G169500' => 'gma', 'Glyma.12G169600' => 'gma', 'Glyma.20G110800' => 'gma', 'Gohir.A03G192900' => 'ghi', 'Gohir.A03G193000' => 'ghi', 'Gohir.A05G080700' => 'ghi', 'Gohir.A09G216000' => 'ghi', 'Gohir.A12G027700' => 'ghi', 'Gohir.A13G036200' => 'ghi', 'Gohir.A13G222600' => 'ghi', 'Gohir.D02G213900' => 'ghi', 'Gohir.D02G214000' => 'ghi', 'Gohir.D05G083700' => 'ghi', 'Gohir.D05G083800' => 'ghi', 'Gohir.D05G083850' => 'ghi', 'Gohir.D08G015400' => 'ghi', 'Gohir.D09G218400' => 'ghi', 'Gohir.D12G027100' => 'ghi', 'Gohir.D13G034500' => 'ghi', 'Gohir.D13G227400' => 'ghi', 'Gorai.005G241800' => 'gra', 'Gorai.005G241900' => 'gra', 'Gorai.006G239400' => 'gra', 'Gorai.008G027600' => 'gra', 'Gorai.009G085400' => 'gra', 'Gorai.009G085500' => 'gra', 'Gorai.013G039000' => 'gra', 'Gorai.013G194800' => 'gra', 'Gorai.013G257900' => 'gra', 'GSVIVG01000982001' => 'vvi', 'GSVIVG01017981001' => 'vvi', 'HanXRQChr01g0024061' => 'han', 'HanXRQChr09g0247831' => 'han', 'HanXRQChr10g0294611' => 'han', 'HanXRQChr10g0294621' => 'han', 'HanXRQChr11g0346821' => 'han', 'HanXRQChr13g0397461' => 'han', 'HanXRQChr16g0513651' => 'han', 'HanXRQChr16g0513701' => 'han', 'Haze_00897' => 'cav', 'Haze_01745' => 'cav', 'Haze_02486' => 'cav', 'Haze_02487' => 'cav', 'Haze_23374' => 'cav', 'Hma1.2p1_0578F.1_g182520' => 'hma', 'Hma1.2p1_0602F.1_g187350' => 'hma', 'Hma1.2p1_0602F.1_g187360' => 'hma', 'Hma1.2p1_0874F.1_g231320' => 'hma', 'Hma1.2p1_1197F.1_g266210' => 'hma', 'Hma1.2p1_1197F.1_g266220' => 'hma', 'Hma1.2p1_2167F.1_g315895' => 'hma', 'Hma1.2p1_2190F.1_g316640' => 'hma', 'Hma1.2p1_3645F.1_g337153' => 'hma', 'HPP92_004907' => 'vpl', 'HPP92_012134' => 'vpl', 'HPP92_025136' => 'vpl', 'HPP92_026087' => 'vpl', 'Hund06782' => 'sun', 'Hund06784' => 'sun', 'Lalb_Chr01g0004861' => 'lal', 'Lalb_Chr02g0140591' => 'lal', 'Lalb_Chr02g0140611' => 'lal', 'Lalb_Chr03g0028101' => 'lal', 'Lalb_Chr07g0185791' => 'lal', 'Lalb_Chr12g0204491' => 'lal', 'Lalb_Chr13g0295671' => 'lal', 'Lalb_Chr19g0136461' => 'lal', 'Lalb_Chr21g0309191' => 'lal', 'Lj1g0028158' => 'lja', 'Lj1P236T38' => 'lonja', 'Lj2C32G2' => 'lonja', 'Lj2P944T8' => 'lonja', 'Lj2P963T15' => 'lonja', 'Lj3g0011788' => 'lja', 'Lj4g0025027' => 'lja', 'Lj5P255T36' => 'lonja', 'Lj6g0018866' => 'lja', 'Lj6P608T31' => 'lonja', 'LjContig00408g0008879' => 'lja', 'Lsat_1_v5_gn_5_105820' => 'lsa', 'Lsat_1_v5_gn_6_38800' => 'lsa', 'Lsat_1_v5_gn_7_67141' => 'lsa', 'Manes.04G003400' => 'mes', 'Manes.07G020000' => 'mes', 'Manes.07G020100' => 'mes', 'Manes.07G020150' => 'mes', 'Manes.10G061500' => 'mes', 'Manes.10G123200' => 'mes', 'Manes.11G161900' => 'mes', 'Manes.15G029300' => 'mes', 'Mapoly0071s0018' => 'mpo', 'Mapoly0082s0023' => 'mpo', 'Mapoly3477s0001' => 'mpo', 'MBI05_g31233_MAGBIO' => 'mbi', 'MBI09_g05946_MAGBIO' => 'mbi', 'MBI09_g05947_MAGBIO' => 'mbi', 'MBI17_g08346_MAGBIO' => 'mbi', 'MCO04G038' => 'mco', 'MCO09G370' => 'mco', 'MCO13G605' => 'mco', 'MD00G1075500' => 'mdo', 'MD03G1144300' => 'mdo', 'MD08G1236800' => 'mdo', 'MD13G1193300' => 'mdo', 'MD15G1428700' => 'mdo', 'Medtr1g112030' => 'mtr', 'Medtr1g112050' => 'mtr', 'Medtr2g006290' => 'mtr', 'Medtr2g086510' => 'mtr', 'Medtr4g053120' => 'mtr', 'Medtr5g006320' => 'mtr', 'Medtr8g088720' => 'mtr', 'MELO3C004712.2' => 'cme', 'MELO3C006533.2' => 'cme', 'MELO3C019438.2' => 'cme', 'MELO3C019440.2' => 'cme', 'MELO3C019441.2' => 'cme', 'MELO3C019895.2' => 'cme', 'Migut.B00811' => 'egut', 'Migut.D02447' => 'egut', 'Migut.F00875' => 'egut', 'Migut.N00186' => 'egut', 'Migut.N01051' => 'egut', 'Migut.N02491' => 'egut', 'Migut.O00784' => 'egut', 'MSTRG.12367' => 'ama', 'MSTRG.18756' => 'ama', 'MSTRG.21042' => 'ama', 'Nitab4.5_0000559g0040' => 'nta', 'Nitab4.5_0000667g0190' => 'nta', 'Nitab4.5_0000755g0160' => 'nta', 'Nitab4.5_0001216g0080' => 'nta', 'Nitab4.5_0004069g0040' => 'nta', 'Nitab4.5_0004129g0010' => 'nta', 'Nitab4.5_0005744g0030' => 'nta', 'Nitab4.5_0006996g0030' => 'nta', 'Nitab4.5_0008971g0040' => 'nta', 'Nitab4.5_0009769g0020' => 'nta', 'Nitab4.5_0009833g0010' => 'nta', 'Nitab4.5_0013140g0020' => 'nta', 'Nn003s41376' => 'nnu', 'Nn1g01857' => 'nnu', 'Nn1g03611' => 'nnu', 'Nn1g06853' => 'nnu', 'Nn3g18360' => 'nnu', 'Nn4g26328' => 'nnu', 'Nn5g27531' => 'nnu', 'Nn6g34899' => 'nnu', 'Nn7g36299' => 'nnu', 'Oeu021485.1' => 'oeu', 'Oeu022433.1' => 'oeu', 'Oeu032111.1' => 'oeu', 'Oeu051608.1' => 'oeu', 'Os01g0860601' => 'osa', 'Os03g0659200' => 'osa', 'Os03g0835900' => 'osa', 'Os04g0412200' => 'osa', 'Os05g0443500' => 'osa', 'Os07g0251500' => 'osa', 'Os08g0104600' => 'osa', 'Peaxi162Scf00003g00047' => 'pax', 'Peaxi162Scf00003g00052' => 'pax', 'Peaxi162Scf00003g00394' => 'pax', 'Peaxi162Scf00091g00621' => 'pax', 'Peaxi162Scf00152g00146' => 'pax', 'Peaxi162Scf00173g00025' => 'pax', 'Peaxi162Scf00195g00102' => 'pax', 'Peaxi162Scf00402g00013' => 'pax', 'Peaxi162Scf00519g00618' => 'pax', 'PGR004G2838' => 'pgr', 'PGR044G2275' => 'pgr', 'PGR102G1377' => 'pgr', 'PGR119G1245' => 'pgr', 'PGR142G4449' => 'pgr', 'PGSC0003DMG400004532' => 'stu', 'PGSC0003DMG400011950' => 'stu', 'PGSC0003DMG400023391' => 'stu', 'PGSC0003DMG400023985' => 'stu', 'PGSC0003DMG400026360' => 'stu', 'PGSC0003DMG400035711' => 'stu', 'PGSC0003DMG400037286' => 'stu', 'PGSC0003DMG402005881' => 'stu', 'Phvul.002G045400' => 'pvu', 'Phvul.006G216600' => 'pvu', 'Phvul.006G216700' => 'pvu', 'Phvul.006G216800' => 'pvu', 'Phvul.007G022500' => 'pvu', 'Phvul.011G094400' => 'pvu', 'Potri.001G470700' => 'ptr', 'Potri.003G015200' => 'ptr', 'Potri.004G202500' => 'ptr', 'Potri.004G218400' => 'ptr', 'Potri.008G020100' => 'ptr', 'Potri.008G153200' => 'ptr', 'Potri.009G163800' => 'ptr', 'Potri.010G087300' => 'ptr', 'Potri.010G239100' => 'ptr', 'Pp3c10_16100' => 'ppa', 'Pp3c10_16880' => 'ppa', 'Pp3c16_6230' => 'ppa', 'Pp3c17_18910' => 'ppa', 'Pp3c3_22119' => 'ppa', 'Pp3c3_22140' => 'ppa', 'Pp3c4_8159' => 'ppa', 'Pp3c4_8171' => 'ppa', 'Pp3c4_8330' => 'ppa', 'PRCOL_00004098' => 'pco', 'Prupe.1G013900' => 'ppe', 'Prupe.1G226300' => 'ppe', 'Prupe.1G573600' => 'ppe', 'Prupe.6G130100' => 'ppe', 'Psat3g090040' => 'psa', 'Psat4g210440' => 'psa', 'Psat6g231040' => 'psa', 'Psat6g231080' => 'psa', 'Psat7g063000' => 'psa', 'Psat7g188000' => 'psa', 'Psat7g188040' => 'psa', 'PSO017G0206' => 'pso', 'PSO170G0501' => 'pso', 'PSO170G6422' => 'pso', 'PSO210G7739' => 'pso', 'PSO339G1808' => 'pso', 'PSO339G6135' => 'pso', 'PSO384G0010' => 'pso', 'PSO384G0964' => 'pso', 'PSO761G0050' => 'pso', 'PSO782G4085' => 'pso', 'QL01p012264' => 'qlo', 'QL02p099491' => 'qlo', 'QL03p033868' => 'qlo', 'QL04p046678' => 'qlo', 'QL06p002448' => 'qlo', 'RcHm_v2.0_Chr4g0416181' => 'rch', 'RcHm_v2.0_Chr5g0044701' => 'rch', 'RcHm_v2.0_Chr6g0265781' => 'rch', 'RcHm_v2.0_Chr7g0221031' => 'rch', 'Rhsim04G0202000' => 'rsi', 'Rhsim11G0127300' => 'rsi', 'Rhsim13G0111800' => 'rsi', 'Sabra01G0165600' => 'sbr', 'Sabra03G0008300' => 'sbr', 'Sabra04G0136900' => 'sbr', 'Sabra08G0013400' => 'sbr', 'Sabra08G0116800' => 'sbr', 'Sabra09G0128000' => 'sbr', 'Sabra10G0055500' => 'sbr', 'Sabra10G0073300' => 'sbr', 'SalBow3G0385' => 'sbo', 'SalBow3G1119' => 'sbo', 'SalBow3G2005' => 'sbo', 'SalBow6G2563' => 'sbo', 'SalBow6G6386' => 'sbo', 'Sc06g0008800' => 'sci', 'Sc07g0004950' => 'sci', 'Sc09g0005340' => 'sci', 'Sc13g0004410' => 'sci', 'Sc21g0007090' => 'sci', 'Sed0009285' => 'sed', 'Sed0017583' => 'sed', 'Sed0019699' => 'sed', 'Sed0023107' => 'sed', 'SEGI_10916' => 'sgi', 'SEGI_16217' => 'sgi', 'SEGI_19466' => 'sgi', 'SEGI_41115' => 'sgi', 'SGA_v2.0_scaffold111G31534' => 'sas', 'SGA_v2.0_scaffold22G09864' => 'sas', 'SGA_v2.0_scaffold338G49219' => 'sas', 'SGA_v2.0_scaffold92G28298' => 'sas', 'SMO119G0064' => 'smo', 'SMO223G0038' => 'smo', 'SMO347G0584' => 'smo', 'SMO351G0010' => 'smo', 'SMO356G0404' => 'smo', 'Solyc01g103920.3' => 'sly', 'Solyc04g009710.2' => 'sly', 'Solyc05g055280.2' => 'sly', 'Solyc10g044520.3' => 'sly', 'Solyc10g075160.1' => 'sly', 'Solyc11g006910.3' => 'sly', 'Solyc11g068430.3' => 'sly', 'Sopen01g046310' => 'spe', 'Sopen03g001200' => 'spe', 'Sopen04g004830' => 'spe', 'Sopen05g033720' => 'spe', 'Sopen06g030740' => 'spe', 'Sopen10g013090' => 'spe', 'Sopen10g027630' => 'spe', 'Sopen10g027640' => 'spe', 'Sopen11g002820' => 'spe', 'Sopen11g027140' => 'spe', 'Sp1g09680' => 'spa', 'Sp2g03630' => 'spa', 'Sp4g10320' => 'spa', 'Sp6g33400' => 'spa', 'Sp7g13030' => 'spa', 'TAR365G0317' => 'tar', 'TAR376G0979' => 'tar', 'TAR623G1665' => 'tar', 'TAR633G2373' => 'tar', 'TAR636G1400' => 'tar', 'THA.LOC104800529' => 'tha', 'THA.LOC104808547' => 'tha', 'THA.LOC104809615' => 'tha', 'THA.LOC104815724' => 'tha', 'THA.LOC104818480' => 'tha', 'THA.LOC104819179' => 'tha', 'THA.LOC104822270' => 'tha', 'THA.LOC104826425' => 'tha', 'Thecc.02G089700' => 'tca', 'Thecc.04G232300' => 'tca', 'Thecc.09G283400' => 'tca', 'Thhalv10009020m.g' => 'esa', 'Thhalv10015506m.g' => 'esa', 'Thhalv10017364m.g' => 'esa', 'Thhalv10023742m.g' => 'esa', 'Thhalv10026483m.g' => 'esa', 'TPR.G17232' => 'tpr', 'TPR.G2133' => 'tpr', 'TPR.G2498' => 'tpr', 'TPR.G31942' => 'tpr', 'TPR.G37877' => 'tpr', 'TPR.G4571' => 'tpr', 'TWI14G1113' => 'twi', 'TWI15G0426' => 'twi', 'TWI31G1005' => 'twi', 'TWI38G0513' => 'twi', 'TWI38G1484' => 'twi', 'TWI73G1098' => 'twi', 'unitig_26.g10519' => 'ugi', 'unitig_736.g22395' => 'ugi', 'unitig_747.g21234' => 'ugi', 'unitig_747.g21942' => 'ugi', 'vmacro14351' => 'vma', 'VMungo0540G0082' => 'vmu', 'VMungo0540G0405' => 'vmu', 'VMungo0540G1486' => 'vmu', 'VMungo0540G1692' => 'vmu', 'VMungo0720G2473' => 'vmu', 'VMungo1127G1562' => 'vmu', 'VMungo1215G1918' => 'vmu', 'Zm00001eb052650' => 'zma', 'Zm00001eb063710' => 'zma', 'Zm00001eb083950' => 'zma', 'Zm00001eb174420' => 'zma', 'Zm00001eb260140' => 'zma', 'Zm00001eb260150' => 'zma', 'Zm00001eb260160' => 'zma', 'Zm00001eb348290' => 'zma', 'Zm00001eb366870' => 'zma', 'Zm00001eb421930' => 'zma' ), 'gf_id' => 'HOM05D001025', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001025' ), 'data_identifier' => 'HOM05D001025', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001025', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '592', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p22650' => 'bna', 'A01p29720' => 'bna', 'A03p26560' => 'bna', 'A03p68820' => 'bna', 'A04p20980' => 'bna', 'A06p07730' => 'bna', 'A07p18260' => 'bna', 'A08p33710' => 'bna', 'A09p16970' => 'bna', 'A10p27490' => 'bna', 'Aa31LG1G17300' => 'aar', 'Aa31LG1G3910' => 'aar', 'Aa31LG2G9630' => 'aar', 'Aa31LG5G8360' => 'aar', 'Aa31LG9G2410' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4699' => 'aag', 'Actinidia23512' => 'ach', 'Actinidia37080' => 'ach', 'Ah.01g020380' => 'amhyb', 'Ah.08g215710' => 'amhyb', 'Ah.09g225110' => 'amhyb', 'Ah.10g036680' => 'amhyb', 'AL1G21940' => 'aly', 'AL2G15540' => 'aly', 'AL4G21520' => 'aly', 'AL7G40960' => 'aly', 'Aqoxy2G01191' => 'aox', 'Aqoxy2G03393' => 'aox', 'Aqoxy4G02775' => 'aox', 'Aqoxy6G00058' => 'aox', 'arahy.Tifrunner.gnm1.ann1.9X74H2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CW3FX9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R485W7' => 'arhy', 'AT1G10960' => 'ath', 'AT1G60950' => 'ath', 'AT2G27510' => 'ath', 'AT4G14890' => 'ath', 'AT5G10000' => 'ath', 'ATR0665G624' => 'atr', 'ATR0697G138' => 'atr', 'ATR0776G046' => 'atr', 'ATR1134G135' => 'atr', 'Atru.chr12.1025' => 'acertr', 'Atru.chr3.3241' => 'acertr', 'Atru.chr4.2460' => 'acertr', 'AUR62007427' => 'cqu', 'AUR62010960' => 'cqu', 'AUR62012201' => 'cqu', 'AUR62021470' => 'cqu', 'AUR62022834' => 'cqu', 'AUR62033635' => 'cqu', 'AUR62036186' => 'cqu', 'BcaB01g03077' => 'bca', 'BcaB02g10093' => 'bca', 'BcaB04g20295' => 'bca', 'BcaB06g28147' => 'bca', 'BcaB07g31253' => 'bca', 'BcaC01g04946' => 'bca', 'BcaC02g10614' => 'bca', 'BcaC02g10885' => 'bca', 'BcaC04g19356' => 'bca', 'BcaC04g22297' => 'bca', 'BcaC05g24977' => 'bca', 'BcaC06g31823' => 'bca', 'BcaC07g38633' => 'bca', 'BcaC09g49353' => 'bca', 'BcaC09g50168' => 'bca', 'BcaNung00322' => 'bca', 'BcaNung04769' => 'bca', 'BolC1t02753H' => 'bol', 'BolC1t03721H' => 'bol', 'BolC3t15525H' => 'bol', 'BolC4t23903H' => 'bol', 'BolC4t24231H' => 'bol', 'BolC4t27209H' => 'bol', 'BolC5t29671H' => 'bol', 'BolC8t49044H' => 'bol', 'BolC9t54999H' => 'bol', 'BolC9t59517H' => 'bol', 'BraA01t02178Z' => 'bra', 'BraA01t03099Z' => 'bra', 'BraA03t11867Z' => 'bra', 'BraA04t17667Z' => 'bra', 'BraA07t29542Z' => 'bra', 'BraA08t35287Z' => 'bra', 'BraA09t37334Z' => 'bra', 'BraA10t44801Z' => 'bra', 'BraSC39t46181Z' => 'bra', 'C01p28240' => 'bna', 'C01p37530' => 'bna', 'C03p31820' => 'bna', 'C04p24080' => 'bna', 'C04p25790' => 'bna', 'C04p56770' => 'bna', 'C05p09310' => 'bna', 'C09p21010' => 'bna', 'C09p67560' => 'bna', 'CAN.G1324.7' => 'can', 'CAN.G1358.10' => 'can', 'CAN.G1550.2' => 'can', 'CAN.G186.56' => 'can', 'CAN.G1965.1' => 'can', 'CAN.G645.15' => 'can', 'CAN.G798.26' => 'can', 'CAN.G798.27' => 'can', 'CAN.G798.29' => 'can', 'CAN.G919.31' => 'can', 'CANSAT11G0133' => 'cansat', 'CANSAT11G1171' => 'cansat', 'CANSAT11G2056' => 'cansat', 'CANSAT56G1202' => 'cansat', 'CANSAT56G1514' => 'cansat', 'CANSAT78G0455' => 'cansat', 'CARHR011190' => 'chi', 'CARHR051980' => 'chi', 'CARHR120170' => 'chi', 'CARHR203310' => 'chi', 'CARHR221490' => 'chi', 'Carub.0001s1054' => 'cru', 'Carub.0002s0431' => 'cru', 'Carub.0004s0818' => 'cru', 'Carub.0006s0846' => 'cru', 'Carub.0007s2722' => 'cru', 'Ca_00058_v3' => 'car', 'Ca_17831_v3' => 'car', 'Ca_19408_v3' => 'car', 'Ca_24397_v3' => 'car', 'Ca_25664_v3' => 'car', 'CBR_g21818' => 'cbr', 'CBR_g31195' => 'cbr', 'CBR_g32282' => 'cbr', 'CBR_g39599' => 'cbr', 'CBR_g49410' => 'cbr', 'Cc01_g09120' => 'ccan', 'Cc01_g09130' => 'ccan', 'Cc02_g09630' => 'ccan', 'Cc02_g22810' => 'ccan', 'Cc03_g03810' => 'ccan', 'CDE02G3718' => 'cde', 'CDE04G3183' => 'cde', 'CDE07G1046' => 'cde', 'CDE08G0480' => 'cde', 'Cfa005493' => 'cfa', 'Cfa010312' => 'cfa', 'Cfa015648' => 'cfa', 'Ciclev10002793m.g' => 'ccl', 'Ciclev10003356m.g' => 'ccl', 'Ciclev10006141m.g' => 'ccl', 'Ciclev10016676m.g' => 'ccl', 'Ciclev10017081m.g' => 'ccl', 'Ciclev10029499m.g' => 'ccl', 'CiPaw.01G166300' => 'cil', 'CiPaw.06G145600' => 'cil', 'CiPaw.13G040100' => 'cil', 'CiPaw.13G135800' => 'cil', 'ClCG01G012230' => 'cla', 'ClCG05G009510' => 'cla', 'ClCG08G008270' => 'cla', 'COL.COLO4_11763' => 'col', 'COL.COLO4_19876' => 'col', 'COL.COLO4_21481' => 'col', 'Cpa.g.sc118.34' => 'cpa', 'Cpa.g.sc32.13' => 'cpa', 'Cpa.g.sc58.103' => 'cpa', 'Cre03.g183850' => 'cre', 'Cre06.g306350' => 'cre', 'Cre07.g334800' => 'cre', 'Cre12.g487900' => 'cre', 'Cre14.g626700' => 'cre', 'Cre16.g658400' => 'cre', 'Cre17.g700950' => 'cre', 'CsaV3_1G014830' => 'csa', 'CsaV3_3G013320' => 'csa', 'CsaV3_3G019210' => 'csa', 'CsaV3_3G019220' => 'csa', 'CsaV3_6G004230' => 'csa', 'CSS0003773' => 'camsi', 'CSS0004563' => 'camsi', 'CSS0013949' => 'camsi', 'CSS0025971' => 'camsi', 'CSS0028570' => 'camsi', 'CSS0033127' => 'camsi', 'CSS0036051' => 'camsi', 'CSS0040087' => 'camsi', 'CSS0043179' => 'camsi', 'DCAR_006161' => 'dca', 'DCAR_010351' => 'dca', 'DCAR_012197' => 'dca', 'DCAR_024162' => 'dca', 'Dinv01030' => 'din', 'Dinv10924' => 'din', 'Dinv11835' => 'din', 'Dinv22841' => 'din', 'Dinv42553' => 'din', 'Duzib052G0560' => 'dzi', 'Duzib132G0389' => 'dzi', 'Duzib150G1181' => 'dzi', 'Duzib168G0623' => 'dzi', 'Duzib170G1036' => 'dzi', 'Duzib212G0200' => 'dzi', 'Duzib248G0194' => 'dzi', 'ECA232G2193' => 'eca', 'ECA233G0302' => 'eca', 'ECA234G2813' => 'eca', 'ECA234G4866' => 'eca', 'ECA240G3932' => 'eca', 'ECA248G0385' => 'eca', 'EL10Ac2g04781' => 'bvu', 'EL10Ac3g06445' => 'bvu', 'EL10Ac7g15825' => 'bvu', 'EL10Ac8g18550' => 'bvu', 'Eucgr.B03849' => 'egr', 'Eucgr.I02744' => 'egr', 'Eucgr.J00264' => 'egr', 'Eucgr.J00493' => 'egr', 'FAN04G2181' => 'fan', 'FAN07G2666' => 'fan', 'FAN11G0024' => 'fan', 'FAN12G1105' => 'fan', 'FAN13G0302' => 'fan', 'FAN15G2781' => 'fan', 'FAN16G1274' => 'fan', 'FAN17G2988' => 'fan', 'FAN18G2621' => 'fan', 'FAN21G0013' => 'fan', 'FAN22G1211' => 'fan', 'FAN25G3626' => 'fan', 'FvH4_2g09491' => 'fve', 'FvH4_3g24910' => 'fve', 'FvH4_4g15630' => 'fve', 'FvH4_5g28820' => 'fve', 'Glyma.01G238000' => 'gma', 'Glyma.05G168400' => 'gma', 'Glyma.08G126800' => 'gma', 'Glyma.08G188500' => 'gma', 'Glyma.10G278900' => 'gma', 'Glyma.11G005700' => 'gma', 'Glyma.11G183300' => 'gma', 'Glyma.12G089200' => 'gma', 'Glyma.12G169400' => 'gma', 'Glyma.12G169500' => 'gma', 'Glyma.12G169600' => 'gma', 'Glyma.20G110800' => 'gma', 'Gohir.A03G192900' => 'ghi', 'Gohir.A03G193000' => 'ghi', 'Gohir.A05G080700' => 'ghi', 'Gohir.A09G216000' => 'ghi', 'Gohir.A12G027700' => 'ghi', 'Gohir.A13G036200' => 'ghi', 'Gohir.A13G222600' => 'ghi', 'Gohir.D02G213900' => 'ghi', 'Gohir.D02G214000' => 'ghi', 'Gohir.D05G083700' => 'ghi', 'Gohir.D05G083800' => 'ghi', 'Gohir.D05G083850' => 'ghi', 'Gohir.D08G015400' => 'ghi', 'Gohir.D09G218400' => 'ghi', 'Gohir.D12G027100' => 'ghi', 'Gohir.D13G034500' => 'ghi', 'Gohir.D13G227400' => 'ghi', 'Gorai.005G241800' => 'gra', 'Gorai.005G241900' => 'gra', 'Gorai.006G239400' => 'gra', 'Gorai.008G027600' => 'gra', 'Gorai.009G085400' => 'gra', 'Gorai.009G085500' => 'gra', 'Gorai.013G039000' => 'gra', 'Gorai.013G194800' => 'gra', 'Gorai.013G257900' => 'gra', 'GSVIVG01000982001' => 'vvi', 'GSVIVG01017981001' => 'vvi', 'HanXRQChr01g0024061' => 'han', 'HanXRQChr09g0247831' => 'han', 'HanXRQChr10g0294611' => 'han', 'HanXRQChr10g0294621' => 'han', 'HanXRQChr11g0346821' => 'han', 'HanXRQChr13g0397461' => 'han', 'HanXRQChr16g0513651' => 'han', 'HanXRQChr16g0513701' => 'han', 'Haze_00897' => 'cav', 'Haze_01745' => 'cav', 'Haze_02486' => 'cav', 'Haze_02487' => 'cav', 'Haze_23374' => 'cav', 'Hma1.2p1_0578F.1_g182520' => 'hma', 'Hma1.2p1_0602F.1_g187350' => 'hma', 'Hma1.2p1_0602F.1_g187360' => 'hma', 'Hma1.2p1_0874F.1_g231320' => 'hma', 'Hma1.2p1_1197F.1_g266210' => 'hma', 'Hma1.2p1_1197F.1_g266220' => 'hma', 'Hma1.2p1_2167F.1_g315895' => 'hma', 'Hma1.2p1_2190F.1_g316640' => 'hma', 'Hma1.2p1_3645F.1_g337153' => 'hma', 'HPP92_004907' => 'vpl', 'HPP92_012134' => 'vpl', 'HPP92_025136' => 'vpl', 'HPP92_026087' => 'vpl', 'Hund06782' => 'sun', 'Hund06784' => 'sun', 'Lalb_Chr01g0004861' => 'lal', 'Lalb_Chr02g0140591' => 'lal', 'Lalb_Chr02g0140611' => 'lal', 'Lalb_Chr03g0028101' => 'lal', 'Lalb_Chr07g0185791' => 'lal', 'Lalb_Chr12g0204491' => 'lal', 'Lalb_Chr13g0295671' => 'lal', 'Lalb_Chr19g0136461' => 'lal', 'Lalb_Chr21g0309191' => 'lal', 'Lj1g0028158' => 'lja', 'Lj1P236T38' => 'lonja', 'Lj2C32G2' => 'lonja', 'Lj2P944T8' => 'lonja', 'Lj2P963T15' => 'lonja', 'Lj3g0011788' => 'lja', 'Lj4g0025027' => 'lja', 'Lj5P255T36' => 'lonja', 'Lj6g0018866' => 'lja', 'Lj6P608T31' => 'lonja', 'LjContig00408g0008879' => 'lja', 'Lsat_1_v5_gn_5_105820' => 'lsa', 'Lsat_1_v5_gn_6_38800' => 'lsa', 'Lsat_1_v5_gn_7_67141' => 'lsa', 'Manes.04G003400' => 'mes', 'Manes.07G020000' => 'mes', 'Manes.07G020100' => 'mes', 'Manes.07G020150' => 'mes', 'Manes.10G061500' => 'mes', 'Manes.10G123200' => 'mes', 'Manes.11G161900' => 'mes', 'Manes.15G029300' => 'mes', 'Mapoly0071s0018' => 'mpo', 'Mapoly0082s0023' => 'mpo', 'Mapoly3477s0001' => 'mpo', 'MBI05_g31233_MAGBIO' => 'mbi', 'MBI09_g05946_MAGBIO' => 'mbi', 'MBI09_g05947_MAGBIO' => 'mbi', 'MBI17_g08346_MAGBIO' => 'mbi', 'MCO04G038' => 'mco', 'MCO09G370' => 'mco', 'MCO13G605' => 'mco', 'MD00G1075500' => 'mdo', 'MD03G1144300' => 'mdo', 'MD08G1236800' => 'mdo', 'MD13G1193300' => 'mdo', 'MD15G1428700' => 'mdo', 'Medtr1g112030' => 'mtr', 'Medtr1g112050' => 'mtr', 'Medtr2g006290' => 'mtr', 'Medtr2g086510' => 'mtr', 'Medtr4g053120' => 'mtr', 'Medtr5g006320' => 'mtr', 'Medtr8g088720' => 'mtr', 'MELO3C004712.2' => 'cme', 'MELO3C006533.2' => 'cme', 'MELO3C019438.2' => 'cme', 'MELO3C019440.2' => 'cme', 'MELO3C019441.2' => 'cme', 'MELO3C019895.2' => 'cme', 'Migut.B00811' => 'egut', 'Migut.D02447' => 'egut', 'Migut.F00875' => 'egut', 'Migut.N00186' => 'egut', 'Migut.N01051' => 'egut', 'Migut.N02491' => 'egut', 'Migut.O00784' => 'egut', 'MSTRG.12367' => 'ama', 'MSTRG.18756' => 'ama', 'MSTRG.21042' => 'ama', 'Nitab4.5_0000559g0040' => 'nta', 'Nitab4.5_0000667g0190' => 'nta', 'Nitab4.5_0000755g0160' => 'nta', 'Nitab4.5_0001216g0080' => 'nta', 'Nitab4.5_0004069g0040' => 'nta', 'Nitab4.5_0004129g0010' => 'nta', 'Nitab4.5_0005744g0030' => 'nta', 'Nitab4.5_0006996g0030' => 'nta', 'Nitab4.5_0008971g0040' => 'nta', 'Nitab4.5_0009769g0020' => 'nta', 'Nitab4.5_0009833g0010' => 'nta', 'Nitab4.5_0013140g0020' => 'nta', 'Nn003s41376' => 'nnu', 'Nn1g01857' => 'nnu', 'Nn1g03611' => 'nnu', 'Nn1g06853' => 'nnu', 'Nn3g18360' => 'nnu', 'Nn4g26328' => 'nnu', 'Nn5g27531' => 'nnu', 'Nn6g34899' => 'nnu', 'Nn7g36299' => 'nnu', 'Oeu021485.1' => 'oeu', 'Oeu022433.1' => 'oeu', 'Oeu032111.1' => 'oeu', 'Oeu051608.1' => 'oeu', 'Os01g0860601' => 'osa', 'Os03g0659200' => 'osa', 'Os03g0835900' => 'osa', 'Os04g0412200' => 'osa', 'Os05g0443500' => 'osa', 'Os07g0251500' => 'osa', 'Os08g0104600' => 'osa', 'Peaxi162Scf00003g00047' => 'pax', 'Peaxi162Scf00003g00052' => 'pax', 'Peaxi162Scf00003g00394' => 'pax', 'Peaxi162Scf00091g00621' => 'pax', 'Peaxi162Scf00152g00146' => 'pax', 'Peaxi162Scf00173g00025' => 'pax', 'Peaxi162Scf00195g00102' => 'pax', 'Peaxi162Scf00402g00013' => 'pax', 'Peaxi162Scf00519g00618' => 'pax', 'PGR004G2838' => 'pgr', 'PGR044G2275' => 'pgr', 'PGR102G1377' => 'pgr', 'PGR119G1245' => 'pgr', 'PGR142G4449' => 'pgr', 'PGSC0003DMG400004532' => 'stu', 'PGSC0003DMG400011950' => 'stu', 'PGSC0003DMG400023391' => 'stu', 'PGSC0003DMG400023985' => 'stu', 'PGSC0003DMG400026360' => 'stu', 'PGSC0003DMG400035711' => 'stu', 'PGSC0003DMG400037286' => 'stu', 'PGSC0003DMG402005881' => 'stu', 'Phvul.002G045400' => 'pvu', 'Phvul.006G216600' => 'pvu', 'Phvul.006G216700' => 'pvu', 'Phvul.006G216800' => 'pvu', 'Phvul.007G022500' => 'pvu', 'Phvul.011G094400' => 'pvu', 'Potri.001G470700' => 'ptr', 'Potri.003G015200' => 'ptr', 'Potri.004G202500' => 'ptr', 'Potri.004G218400' => 'ptr', 'Potri.008G020100' => 'ptr', 'Potri.008G153200' => 'ptr', 'Potri.009G163800' => 'ptr', 'Potri.010G087300' => 'ptr', 'Potri.010G239100' => 'ptr', 'Pp3c10_16100' => 'ppa', 'Pp3c10_16880' => 'ppa', 'Pp3c16_6230' => 'ppa', 'Pp3c17_18910' => 'ppa', 'Pp3c3_22119' => 'ppa', 'Pp3c3_22140' => 'ppa', 'Pp3c4_8159' => 'ppa', 'Pp3c4_8171' => 'ppa', 'Pp3c4_8330' => 'ppa', 'PRCOL_00004098' => 'pco', 'Prupe.1G013900' => 'ppe', 'Prupe.1G226300' => 'ppe', 'Prupe.1G573600' => 'ppe', 'Prupe.6G130100' => 'ppe', 'Psat3g090040' => 'psa', 'Psat4g210440' => 'psa', 'Psat6g231040' => 'psa', 'Psat6g231080' => 'psa', 'Psat7g063000' => 'psa', 'Psat7g188000' => 'psa', 'Psat7g188040' => 'psa', 'PSO017G0206' => 'pso', 'PSO170G0501' => 'pso', 'PSO170G6422' => 'pso', 'PSO210G7739' => 'pso', 'PSO339G1808' => 'pso', 'PSO339G6135' => 'pso', 'PSO384G0010' => 'pso', 'PSO384G0964' => 'pso', 'PSO761G0050' => 'pso', 'PSO782G4085' => 'pso', 'QL01p012264' => 'qlo', 'QL02p099491' => 'qlo', 'QL03p033868' => 'qlo', 'QL04p046678' => 'qlo', 'QL06p002448' => 'qlo', 'RcHm_v2.0_Chr4g0416181' => 'rch', 'RcHm_v2.0_Chr5g0044701' => 'rch', 'RcHm_v2.0_Chr6g0265781' => 'rch', 'RcHm_v2.0_Chr7g0221031' => 'rch', 'Rhsim04G0202000' => 'rsi', 'Rhsim11G0127300' => 'rsi', 'Rhsim13G0111800' => 'rsi', 'Sabra01G0165600' => 'sbr', 'Sabra03G0008300' => 'sbr', 'Sabra04G0136900' => 'sbr', 'Sabra08G0013400' => 'sbr', 'Sabra08G0116800' => 'sbr', 'Sabra09G0128000' => 'sbr', 'Sabra10G0055500' => 'sbr', 'Sabra10G0073300' => 'sbr', 'SalBow3G0385' => 'sbo', 'SalBow3G1119' => 'sbo', 'SalBow3G2005' => 'sbo', 'SalBow6G2563' => 'sbo', 'SalBow6G6386' => 'sbo', 'Sc06g0008800' => 'sci', 'Sc07g0004950' => 'sci', 'Sc09g0005340' => 'sci', 'Sc13g0004410' => 'sci', 'Sc21g0007090' => 'sci', 'Sed0009285' => 'sed', 'Sed0017583' => 'sed', 'Sed0019699' => 'sed', 'Sed0023107' => 'sed', 'SEGI_10916' => 'sgi', 'SEGI_16217' => 'sgi', 'SEGI_19466' => 'sgi', 'SEGI_41115' => 'sgi', 'SGA_v2.0_scaffold111G31534' => 'sas', 'SGA_v2.0_scaffold22G09864' => 'sas', 'SGA_v2.0_scaffold338G49219' => 'sas', 'SGA_v2.0_scaffold92G28298' => 'sas', 'SMO119G0064' => 'smo', 'SMO223G0038' => 'smo', 'SMO347G0584' => 'smo', 'SMO351G0010' => 'smo', 'SMO356G0404' => 'smo', 'Solyc01g103920.3' => 'sly', 'Solyc04g009710.2' => 'sly', 'Solyc05g055280.2' => 'sly', 'Solyc10g044520.3' => 'sly', 'Solyc10g075160.1' => 'sly', 'Solyc11g006910.3' => 'sly', 'Solyc11g068430.3' => 'sly', 'Sopen01g046310' => 'spe', 'Sopen03g001200' => 'spe', 'Sopen04g004830' => 'spe', 'Sopen05g033720' => 'spe', 'Sopen06g030740' => 'spe', 'Sopen10g013090' => 'spe', 'Sopen10g027630' => 'spe', 'Sopen10g027640' => 'spe', 'Sopen11g002820' => 'spe', 'Sopen11g027140' => 'spe', 'Sp1g09680' => 'spa', 'Sp2g03630' => 'spa', 'Sp4g10320' => 'spa', 'Sp6g33400' => 'spa', 'Sp7g13030' => 'spa', 'TAR365G0317' => 'tar', 'TAR376G0979' => 'tar', 'TAR623G1665' => 'tar', 'TAR633G2373' => 'tar', 'TAR636G1400' => 'tar', 'THA.LOC104800529' => 'tha', 'THA.LOC104808547' => 'tha', 'THA.LOC104809615' => 'tha', 'THA.LOC104815724' => 'tha', 'THA.LOC104818480' => 'tha', 'THA.LOC104819179' => 'tha', 'THA.LOC104822270' => 'tha', 'THA.LOC104826425' => 'tha', 'Thecc.02G089700' => 'tca', 'Thecc.04G232300' => 'tca', 'Thecc.09G283400' => 'tca', 'Thhalv10009020m.g' => 'esa', 'Thhalv10015506m.g' => 'esa', 'Thhalv10017364m.g' => 'esa', 'Thhalv10023742m.g' => 'esa', 'Thhalv10026483m.g' => 'esa', 'TPR.G17232' => 'tpr', 'TPR.G2133' => 'tpr', 'TPR.G2498' => 'tpr', 'TPR.G31942' => 'tpr', 'TPR.G37877' => 'tpr', 'TPR.G4571' => 'tpr', 'TWI14G1113' => 'twi', 'TWI15G0426' => 'twi', 'TWI31G1005' => 'twi', 'TWI38G0513' => 'twi', 'TWI38G1484' => 'twi', 'TWI73G1098' => 'twi', 'unitig_26.g10519' => 'ugi', 'unitig_736.g22395' => 'ugi', 'unitig_747.g21234' => 'ugi', 'unitig_747.g21942' => 'ugi', 'vmacro14351' => 'vma', 'VMungo0540G0082' => 'vmu', 'VMungo0540G0405' => 'vmu', 'VMungo0540G1486' => 'vmu', 'VMungo0540G1692' => 'vmu', 'VMungo0720G2473' => 'vmu', 'VMungo1127G1562' => 'vmu', 'VMungo1215G1918' => 'vmu', 'Zm00001eb052650' => 'zma', 'Zm00001eb063710' => 'zma', 'Zm00001eb083950' => 'zma', 'Zm00001eb174420' => 'zma', 'Zm00001eb260140' => 'zma', 'Zm00001eb260150' => 'zma', 'Zm00001eb260160' => 'zma', 'Zm00001eb348290' => 'zma', 'Zm00001eb366870' => 'zma', 'Zm00001eb421930' => 'zma' ) $gf_id = 'HOM05D001025' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001025' ) $data_identifier = 'HOM05D001025' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 19, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 2, 'amhyb' => (int) 4, 'aly' => (int) 4, 'aox' => (int) 4, 'arhy' => (int) 3, 'ath' => (int) 5, 'atr' => (int) 4, 'acertr' => (int) 3, 'cqu' => (int) 7, 'bca' => (int) 17, 'bol' => (int) 10, 'bra' => (int) 9, 'can' => (int) 10, 'cansat' => (int) 6, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 5, 'cbr' => (int) 5, 'ccan' => (int) 5, 'cde' => (int) 4, 'cfa' => (int) 3, 'ccl' => (int) 6, 'cil' => (int) 4, 'cla' => (int) 3, 'col' => (int) 3, 'cpa' => (int) 3, 'cre' => (int) 7, 'csa' => (int) 5, 'camsi' => (int) 9, 'dca' => (int) 4, 'din' => (int) 5, 'dzi' => (int) 7, 'eca' => (int) 6, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 12, 'fve' => (int) 4, 'gma' => (int) 12, 'ghi' => (int) 17, 'gra' => (int) 9, 'vvi' => (int) 2, 'han' => (int) 8, 'cav' => (int) 5, 'hma' => (int) 9, 'vpl' => (int) 4, 'sun' => (int) 2, 'lal' => (int) 9, 'lja' => (int) 5, 'lonja' => (int) 6, 'lsa' => (int) 3, 'mes' => (int) 8, 'mpo' => (int) 3, 'mbi' => (int) 4, 'mco' => (int) 3, 'mdo' => (int) 5, 'mtr' => (int) 7, 'cme' => (int) 6, 'egut' => (int) 7, 'ama' => (int) 3, 'nta' => (int) 12, 'nnu' => (int) 9, 'oeu' => (int) 4, 'osa' => (int) 7, 'pax' => (int) 9, 'pgr' => (int) 5, 'stu' => (int) 8, 'pvu' => (int) 6, 'ptr' => (int) 9, 'ppa' => (int) 9, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 7, 'pso' => (int) 10, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 3, 'sbr' => (int) 8, 'sbo' => (int) 5, 'sci' => (int) 5, 'sed' => (int) 4, 'sgi' => (int) 4, 'sas' => (int) 4, 'smo' => (int) 5, 'sly' => (int) 7, 'spe' => (int) 10, 'spa' => (int) 5, 'tar' => (int) 5, 'tha' => (int) 8, 'tca' => (int) 3, 'esa' => (int) 5, 'tpr' => (int) 6, 'twi' => (int) 6, 'ugi' => (int) 4, 'vma' => (int) 1, 'vmu' => (int) 7, 'zma' => (int) 10 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb421930' $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' => 'HOM05D001025', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '592', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p22650' => 'bna', 'A01p29720' => 'bna', 'A03p26560' => 'bna', 'A03p68820' => 'bna', 'A04p20980' => 'bna', 'A06p07730' => 'bna', 'A07p18260' => 'bna', 'A08p33710' => 'bna', 'A09p16970' => 'bna', 'A10p27490' => 'bna', 'Aa31LG1G17300' => 'aar', 'Aa31LG1G3910' => 'aar', 'Aa31LG2G9630' => 'aar', 'Aa31LG5G8360' => 'aar', 'Aa31LG9G2410' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4699' => 'aag', 'Actinidia23512' => 'ach', 'Actinidia37080' => 'ach', 'Ah.01g020380' => 'amhyb', 'Ah.08g215710' => 'amhyb', 'Ah.09g225110' => 'amhyb', 'Ah.10g036680' => 'amhyb', 'AL1G21940' => 'aly', 'AL2G15540' => 'aly', 'AL4G21520' => 'aly', 'AL7G40960' => 'aly', 'Aqoxy2G01191' => 'aox', 'Aqoxy2G03393' => 'aox', 'Aqoxy4G02775' => 'aox', 'Aqoxy6G00058' => 'aox', 'arahy.Tifrunner.gnm1.ann1.9X74H2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CW3FX9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R485W7' => 'arhy', 'AT1G10960' => 'ath', 'AT1G60950' => 'ath', 'AT2G27510' => 'ath', 'AT4G14890' => 'ath', 'AT5G10000' => 'ath', 'ATR0665G624' => 'atr', 'ATR0697G138' => 'atr', 'ATR0776G046' => 'atr', 'ATR1134G135' => 'atr', 'Atru.chr12.1025' => 'acertr', 'Atru.chr3.3241' => 'acertr', 'Atru.chr4.2460' => 'acertr', 'AUR62007427' => 'cqu', 'AUR62010960' => 'cqu', 'AUR62012201' => 'cqu', 'AUR62021470' => 'cqu', 'AUR62022834' => 'cqu', 'AUR62033635' => 'cqu', 'AUR62036186' => 'cqu', 'BcaB01g03077' => 'bca', 'BcaB02g10093' => 'bca', 'BcaB04g20295' => 'bca', 'BcaB06g28147' => 'bca', 'BcaB07g31253' => 'bca', 'BcaC01g04946' => 'bca', 'BcaC02g10614' => 'bca', 'BcaC02g10885' => 'bca', 'BcaC04g19356' => 'bca', 'BcaC04g22297' => 'bca', 'BcaC05g24977' => 'bca', 'BcaC06g31823' => 'bca', 'BcaC07g38633' => 'bca', 'BcaC09g49353' => 'bca', 'BcaC09g50168' => 'bca', 'BcaNung00322' => 'bca', 'BcaNung04769' => 'bca', 'BolC1t02753H' => 'bol', 'BolC1t03721H' => 'bol', 'BolC3t15525H' => 'bol', 'BolC4t23903H' => 'bol', 'BolC4t24231H' => 'bol', 'BolC4t27209H' => 'bol', 'BolC5t29671H' => 'bol', 'BolC8t49044H' => 'bol', 'BolC9t54999H' => 'bol', 'BolC9t59517H' => 'bol', 'BraA01t02178Z' => 'bra', 'BraA01t03099Z' => 'bra', 'BraA03t11867Z' => 'bra', 'BraA04t17667Z' => 'bra', 'BraA07t29542Z' => 'bra', 'BraA08t35287Z' => 'bra', 'BraA09t37334Z' => 'bra', 'BraA10t44801Z' => 'bra', 'BraSC39t46181Z' => 'bra', 'C01p28240' => 'bna', 'C01p37530' => 'bna', 'C03p31820' => 'bna', 'C04p24080' => 'bna', 'C04p25790' => 'bna', 'C04p56770' => 'bna', 'C05p09310' => 'bna', 'C09p21010' => 'bna', 'C09p67560' => 'bna', 'CAN.G1324.7' => 'can', 'CAN.G1358.10' => 'can', 'CAN.G1550.2' => 'can', 'CAN.G186.56' => 'can', 'CAN.G1965.1' => 'can', 'CAN.G645.15' => 'can', 'CAN.G798.26' => 'can', 'CAN.G798.27' => 'can', 'CAN.G798.29' => 'can', 'CAN.G919.31' => 'can', 'CANSAT11G0133' => 'cansat', 'CANSAT11G1171' => 'cansat', 'CANSAT11G2056' => 'cansat', 'CANSAT56G1202' => 'cansat', 'CANSAT56G1514' => 'cansat', 'CANSAT78G0455' => 'cansat', 'CARHR011190' => 'chi', 'CARHR051980' => 'chi', 'CARHR120170' => 'chi', 'CARHR203310' => 'chi', 'CARHR221490' => 'chi', 'Carub.0001s1054' => 'cru', 'Carub.0002s0431' => 'cru', 'Carub.0004s0818' => 'cru', 'Carub.0006s0846' => 'cru', 'Carub.0007s2722' => 'cru', 'Ca_00058_v3' => 'car', 'Ca_17831_v3' => 'car', 'Ca_19408_v3' => 'car', 'Ca_24397_v3' => 'car', 'Ca_25664_v3' => 'car', 'CBR_g21818' => 'cbr', 'CBR_g31195' => 'cbr', 'CBR_g32282' => 'cbr', 'CBR_g39599' => 'cbr', 'CBR_g49410' => 'cbr', 'Cc01_g09120' => 'ccan', 'Cc01_g09130' => 'ccan', 'Cc02_g09630' => 'ccan', 'Cc02_g22810' => 'ccan', 'Cc03_g03810' => 'ccan', 'CDE02G3718' => 'cde', 'CDE04G3183' => 'cde', 'CDE07G1046' => 'cde', 'CDE08G0480' => 'cde', 'Cfa005493' => 'cfa', 'Cfa010312' => 'cfa', 'Cfa015648' => 'cfa', 'Ciclev10002793m.g' => 'ccl', 'Ciclev10003356m.g' => 'ccl', 'Ciclev10006141m.g' => 'ccl', 'Ciclev10016676m.g' => 'ccl', 'Ciclev10017081m.g' => 'ccl', 'Ciclev10029499m.g' => 'ccl', 'CiPaw.01G166300' => 'cil', 'CiPaw.06G145600' => 'cil', 'CiPaw.13G040100' => 'cil', 'CiPaw.13G135800' => 'cil', 'ClCG01G012230' => 'cla', 'ClCG05G009510' => 'cla', 'ClCG08G008270' => 'cla', 'COL.COLO4_11763' => 'col', 'COL.COLO4_19876' => 'col', 'COL.COLO4_21481' => 'col', 'Cpa.g.sc118.34' => 'cpa', 'Cpa.g.sc32.13' => 'cpa', 'Cpa.g.sc58.103' => 'cpa', 'Cre03.g183850' => 'cre', 'Cre06.g306350' => 'cre', 'Cre07.g334800' => 'cre', 'Cre12.g487900' => 'cre', 'Cre14.g626700' => 'cre', 'Cre16.g658400' => 'cre', 'Cre17.g700950' => 'cre', 'CsaV3_1G014830' => 'csa', 'CsaV3_3G013320' => 'csa', 'CsaV3_3G019210' => 'csa', 'CsaV3_3G019220' => 'csa', 'CsaV3_6G004230' => 'csa', 'CSS0003773' => 'camsi', 'CSS0004563' => 'camsi', 'CSS0013949' => 'camsi', 'CSS0025971' => 'camsi', 'CSS0028570' => 'camsi', 'CSS0033127' => 'camsi', 'CSS0036051' => 'camsi', 'CSS0040087' => 'camsi', 'CSS0043179' => 'camsi', 'DCAR_006161' => 'dca', 'DCAR_010351' => 'dca', 'DCAR_012197' => 'dca', 'DCAR_024162' => 'dca', 'Dinv01030' => 'din', 'Dinv10924' => 'din', 'Dinv11835' => 'din', 'Dinv22841' => 'din', 'Dinv42553' => 'din', 'Duzib052G0560' => 'dzi', 'Duzib132G0389' => 'dzi', 'Duzib150G1181' => 'dzi', 'Duzib168G0623' => 'dzi', 'Duzib170G1036' => 'dzi', 'Duzib212G0200' => 'dzi', 'Duzib248G0194' => 'dzi', 'ECA232G2193' => 'eca', 'ECA233G0302' => 'eca', 'ECA234G2813' => 'eca', 'ECA234G4866' => 'eca', 'ECA240G3932' => 'eca', 'ECA248G0385' => 'eca', 'EL10Ac2g04781' => 'bvu', 'EL10Ac3g06445' => 'bvu', 'EL10Ac7g15825' => 'bvu', 'EL10Ac8g18550' => 'bvu', 'Eucgr.B03849' => 'egr', 'Eucgr.I02744' => 'egr', 'Eucgr.J00264' => 'egr', 'Eucgr.J00493' => 'egr', 'FAN04G2181' => 'fan', 'FAN07G2666' => 'fan', 'FAN11G0024' => 'fan', 'FAN12G1105' => 'fan', 'FAN13G0302' => 'fan', 'FAN15G2781' => 'fan', 'FAN16G1274' => 'fan', 'FAN17G2988' => 'fan', 'FAN18G2621' => 'fan', 'FAN21G0013' => 'fan', 'FAN22G1211' => 'fan', 'FAN25G3626' => 'fan', 'FvH4_2g09491' => 'fve', 'FvH4_3g24910' => 'fve', 'FvH4_4g15630' => 'fve', 'FvH4_5g28820' => 'fve', 'Glyma.01G238000' => 'gma', 'Glyma.05G168400' => 'gma', 'Glyma.08G126800' => 'gma', 'Glyma.08G188500' => 'gma', 'Glyma.10G278900' => 'gma', 'Glyma.11G005700' => 'gma', 'Glyma.11G183300' => 'gma', 'Glyma.12G089200' => 'gma', 'Glyma.12G169400' => 'gma', 'Glyma.12G169500' => 'gma', 'Glyma.12G169600' => 'gma', 'Glyma.20G110800' => 'gma', 'Gohir.A03G192900' => 'ghi', 'Gohir.A03G193000' => 'ghi', 'Gohir.A05G080700' => 'ghi', 'Gohir.A09G216000' => 'ghi', 'Gohir.A12G027700' => 'ghi', 'Gohir.A13G036200' => 'ghi', 'Gohir.A13G222600' => 'ghi', 'Gohir.D02G213900' => 'ghi', 'Gohir.D02G214000' => 'ghi', 'Gohir.D05G083700' => 'ghi', 'Gohir.D05G083800' => 'ghi', 'Gohir.D05G083850' => 'ghi', 'Gohir.D08G015400' => 'ghi', 'Gohir.D09G218400' => 'ghi', 'Gohir.D12G027100' => 'ghi', 'Gohir.D13G034500' => 'ghi', 'Gohir.D13G227400' => 'ghi', 'Gorai.005G241800' => 'gra', 'Gorai.005G241900' => 'gra', 'Gorai.006G239400' => 'gra', 'Gorai.008G027600' => 'gra', 'Gorai.009G085400' => 'gra', 'Gorai.009G085500' => 'gra', 'Gorai.013G039000' => 'gra', 'Gorai.013G194800' => 'gra', 'Gorai.013G257900' => 'gra', 'GSVIVG01000982001' => 'vvi', 'GSVIVG01017981001' => 'vvi', 'HanXRQChr01g0024061' => 'han', 'HanXRQChr09g0247831' => 'han', 'HanXRQChr10g0294611' => 'han', 'HanXRQChr10g0294621' => 'han', 'HanXRQChr11g0346821' => 'han', 'HanXRQChr13g0397461' => 'han', 'HanXRQChr16g0513651' => 'han', 'HanXRQChr16g0513701' => 'han', 'Haze_00897' => 'cav', 'Haze_01745' => 'cav', 'Haze_02486' => 'cav', 'Haze_02487' => 'cav', 'Haze_23374' => 'cav', 'Hma1.2p1_0578F.1_g182520' => 'hma', 'Hma1.2p1_0602F.1_g187350' => 'hma', 'Hma1.2p1_0602F.1_g187360' => 'hma', 'Hma1.2p1_0874F.1_g231320' => 'hma', 'Hma1.2p1_1197F.1_g266210' => 'hma', 'Hma1.2p1_1197F.1_g266220' => 'hma', 'Hma1.2p1_2167F.1_g315895' => 'hma', 'Hma1.2p1_2190F.1_g316640' => 'hma', 'Hma1.2p1_3645F.1_g337153' => 'hma', 'HPP92_004907' => 'vpl', 'HPP92_012134' => 'vpl', 'HPP92_025136' => 'vpl', 'HPP92_026087' => 'vpl', 'Hund06782' => 'sun', 'Hund06784' => 'sun', 'Lalb_Chr01g0004861' => 'lal', 'Lalb_Chr02g0140591' => 'lal', 'Lalb_Chr02g0140611' => 'lal', 'Lalb_Chr03g0028101' => 'lal', 'Lalb_Chr07g0185791' => 'lal', 'Lalb_Chr12g0204491' => 'lal', 'Lalb_Chr13g0295671' => 'lal', 'Lalb_Chr19g0136461' => 'lal', 'Lalb_Chr21g0309191' => 'lal', 'Lj1g0028158' => 'lja', 'Lj1P236T38' => 'lonja', 'Lj2C32G2' => 'lonja', 'Lj2P944T8' => 'lonja', 'Lj2P963T15' => 'lonja', 'Lj3g0011788' => 'lja', 'Lj4g0025027' => 'lja', 'Lj5P255T36' => 'lonja', 'Lj6g0018866' => 'lja', 'Lj6P608T31' => 'lonja', 'LjContig00408g0008879' => 'lja', 'Lsat_1_v5_gn_5_105820' => 'lsa', 'Lsat_1_v5_gn_6_38800' => 'lsa', 'Lsat_1_v5_gn_7_67141' => 'lsa', 'Manes.04G003400' => 'mes', 'Manes.07G020000' => 'mes', 'Manes.07G020100' => 'mes', 'Manes.07G020150' => 'mes', 'Manes.10G061500' => 'mes', 'Manes.10G123200' => 'mes', 'Manes.11G161900' => 'mes', 'Manes.15G029300' => 'mes', 'Mapoly0071s0018' => 'mpo', 'Mapoly0082s0023' => 'mpo', 'Mapoly3477s0001' => 'mpo', 'MBI05_g31233_MAGBIO' => 'mbi', 'MBI09_g05946_MAGBIO' => 'mbi', 'MBI09_g05947_MAGBIO' => 'mbi', 'MBI17_g08346_MAGBIO' => 'mbi', 'MCO04G038' => 'mco', 'MCO09G370' => 'mco', 'MCO13G605' => 'mco', 'MD00G1075500' => 'mdo', 'MD03G1144300' => 'mdo', 'MD08G1236800' => 'mdo', 'MD13G1193300' => 'mdo', 'MD15G1428700' => 'mdo', 'Medtr1g112030' => 'mtr', 'Medtr1g112050' => 'mtr', 'Medtr2g006290' => 'mtr', 'Medtr2g086510' => 'mtr', 'Medtr4g053120' => 'mtr', 'Medtr5g006320' => 'mtr', 'Medtr8g088720' => 'mtr', 'MELO3C004712.2' => 'cme', 'MELO3C006533.2' => 'cme', 'MELO3C019438.2' => 'cme', 'MELO3C019440.2' => 'cme', 'MELO3C019441.2' => 'cme', 'MELO3C019895.2' => 'cme', 'Migut.B00811' => 'egut', 'Migut.D02447' => 'egut', 'Migut.F00875' => 'egut', 'Migut.N00186' => 'egut', 'Migut.N01051' => 'egut', 'Migut.N02491' => 'egut', 'Migut.O00784' => 'egut', 'MSTRG.12367' => 'ama', 'MSTRG.18756' => 'ama', 'MSTRG.21042' => 'ama', 'Nitab4.5_0000559g0040' => 'nta', 'Nitab4.5_0000667g0190' => 'nta', 'Nitab4.5_0000755g0160' => 'nta', 'Nitab4.5_0001216g0080' => 'nta', 'Nitab4.5_0004069g0040' => 'nta', 'Nitab4.5_0004129g0010' => 'nta', 'Nitab4.5_0005744g0030' => 'nta', 'Nitab4.5_0006996g0030' => 'nta', 'Nitab4.5_0008971g0040' => 'nta', 'Nitab4.5_0009769g0020' => 'nta', 'Nitab4.5_0009833g0010' => 'nta', 'Nitab4.5_0013140g0020' => 'nta', 'Nn003s41376' => 'nnu', 'Nn1g01857' => 'nnu', 'Nn1g03611' => 'nnu', 'Nn1g06853' => 'nnu', 'Nn3g18360' => 'nnu', 'Nn4g26328' => 'nnu', 'Nn5g27531' => 'nnu', 'Nn6g34899' => 'nnu', 'Nn7g36299' => 'nnu', 'Oeu021485.1' => 'oeu', 'Oeu022433.1' => 'oeu', 'Oeu032111.1' => 'oeu', 'Oeu051608.1' => 'oeu', 'Os01g0860601' => 'osa', 'Os03g0659200' => 'osa', 'Os03g0835900' => 'osa', 'Os04g0412200' => 'osa', 'Os05g0443500' => 'osa', 'Os07g0251500' => 'osa', 'Os08g0104600' => 'osa', 'Peaxi162Scf00003g00047' => 'pax', 'Peaxi162Scf00003g00052' => 'pax', 'Peaxi162Scf00003g00394' => 'pax', 'Peaxi162Scf00091g00621' => 'pax', 'Peaxi162Scf00152g00146' => 'pax', 'Peaxi162Scf00173g00025' => 'pax', 'Peaxi162Scf00195g00102' => 'pax', 'Peaxi162Scf00402g00013' => 'pax', 'Peaxi162Scf00519g00618' => 'pax', 'PGR004G2838' => 'pgr', 'PGR044G2275' => 'pgr', 'PGR102G1377' => 'pgr', 'PGR119G1245' => 'pgr', 'PGR142G4449' => 'pgr', 'PGSC0003DMG400004532' => 'stu', 'PGSC0003DMG400011950' => 'stu', 'PGSC0003DMG400023391' => 'stu', 'PGSC0003DMG400023985' => 'stu', 'PGSC0003DMG400026360' => 'stu', 'PGSC0003DMG400035711' => 'stu', 'PGSC0003DMG400037286' => 'stu', 'PGSC0003DMG402005881' => 'stu', 'Phvul.002G045400' => 'pvu', 'Phvul.006G216600' => 'pvu', 'Phvul.006G216700' => 'pvu', 'Phvul.006G216800' => 'pvu', 'Phvul.007G022500' => 'pvu', 'Phvul.011G094400' => 'pvu', 'Potri.001G470700' => 'ptr', 'Potri.003G015200' => 'ptr', 'Potri.004G202500' => 'ptr', 'Potri.004G218400' => 'ptr', 'Potri.008G020100' => 'ptr', 'Potri.008G153200' => 'ptr', 'Potri.009G163800' => 'ptr', 'Potri.010G087300' => 'ptr', 'Potri.010G239100' => 'ptr', 'Pp3c10_16100' => 'ppa', 'Pp3c10_16880' => 'ppa', 'Pp3c16_6230' => 'ppa', 'Pp3c17_18910' => 'ppa', 'Pp3c3_22119' => 'ppa', 'Pp3c3_22140' => 'ppa', 'Pp3c4_8159' => 'ppa', 'Pp3c4_8171' => 'ppa', 'Pp3c4_8330' => 'ppa', 'PRCOL_00004098' => 'pco', 'Prupe.1G013900' => 'ppe', 'Prupe.1G226300' => 'ppe', 'Prupe.1G573600' => 'ppe', 'Prupe.6G130100' => 'ppe', 'Psat3g090040' => 'psa', 'Psat4g210440' => 'psa', 'Psat6g231040' => 'psa', 'Psat6g231080' => 'psa', 'Psat7g063000' => 'psa', 'Psat7g188000' => 'psa', 'Psat7g188040' => 'psa', 'PSO017G0206' => 'pso', 'PSO170G0501' => 'pso', 'PSO170G6422' => 'pso', 'PSO210G7739' => 'pso', 'PSO339G1808' => 'pso', 'PSO339G6135' => 'pso', 'PSO384G0010' => 'pso', 'PSO384G0964' => 'pso', 'PSO761G0050' => 'pso', 'PSO782G4085' => 'pso', 'QL01p012264' => 'qlo', 'QL02p099491' => 'qlo', 'QL03p033868' => 'qlo', 'QL04p046678' => 'qlo', 'QL06p002448' => 'qlo', 'RcHm_v2.0_Chr4g0416181' => 'rch', 'RcHm_v2.0_Chr5g0044701' => 'rch', 'RcHm_v2.0_Chr6g0265781' => 'rch', 'RcHm_v2.0_Chr7g0221031' => 'rch', 'Rhsim04G0202000' => 'rsi', 'Rhsim11G0127300' => 'rsi', 'Rhsim13G0111800' => 'rsi', 'Sabra01G0165600' => 'sbr', 'Sabra03G0008300' => 'sbr', 'Sabra04G0136900' => 'sbr', 'Sabra08G0013400' => 'sbr', 'Sabra08G0116800' => 'sbr', 'Sabra09G0128000' => 'sbr', 'Sabra10G0055500' => 'sbr', 'Sabra10G0073300' => 'sbr', 'SalBow3G0385' => 'sbo', 'SalBow3G1119' => 'sbo', 'SalBow3G2005' => 'sbo', 'SalBow6G2563' => 'sbo', 'SalBow6G6386' => 'sbo', 'Sc06g0008800' => 'sci', 'Sc07g0004950' => 'sci', 'Sc09g0005340' => 'sci', 'Sc13g0004410' => 'sci', 'Sc21g0007090' => 'sci', 'Sed0009285' => 'sed', 'Sed0017583' => 'sed', 'Sed0019699' => 'sed', 'Sed0023107' => 'sed', 'SEGI_10916' => 'sgi', 'SEGI_16217' => 'sgi', 'SEGI_19466' => 'sgi', 'SEGI_41115' => 'sgi', 'SGA_v2.0_scaffold111G31534' => 'sas', 'SGA_v2.0_scaffold22G09864' => 'sas', 'SGA_v2.0_scaffold338G49219' => 'sas', 'SGA_v2.0_scaffold92G28298' => 'sas', 'SMO119G0064' => 'smo', 'SMO223G0038' => 'smo', 'SMO347G0584' => 'smo', 'SMO351G0010' => 'smo', 'SMO356G0404' => 'smo', 'Solyc01g103920.3' => 'sly', 'Solyc04g009710.2' => 'sly', 'Solyc05g055280.2' => 'sly', 'Solyc10g044520.3' => 'sly', 'Solyc10g075160.1' => 'sly', 'Solyc11g006910.3' => 'sly', 'Solyc11g068430.3' => 'sly', 'Sopen01g046310' => 'spe', 'Sopen03g001200' => 'spe', 'Sopen04g004830' => 'spe', 'Sopen05g033720' => 'spe', 'Sopen06g030740' => 'spe', 'Sopen10g013090' => 'spe', 'Sopen10g027630' => 'spe', 'Sopen10g027640' => 'spe', 'Sopen11g002820' => 'spe', 'Sopen11g027140' => 'spe', 'Sp1g09680' => 'spa', 'Sp2g03630' => 'spa', 'Sp4g10320' => 'spa', 'Sp6g33400' => 'spa', 'Sp7g13030' => 'spa', 'TAR365G0317' => 'tar', 'TAR376G0979' => 'tar', 'TAR623G1665' => 'tar', 'TAR633G2373' => 'tar', 'TAR636G1400' => 'tar', 'THA.LOC104800529' => 'tha', 'THA.LOC104808547' => 'tha', 'THA.LOC104809615' => 'tha', 'THA.LOC104815724' => 'tha', 'THA.LOC104818480' => 'tha', 'THA.LOC104819179' => 'tha', 'THA.LOC104822270' => 'tha', 'THA.LOC104826425' => 'tha', 'Thecc.02G089700' => 'tca', 'Thecc.04G232300' => 'tca', 'Thecc.09G283400' => 'tca', 'Thhalv10009020m.g' => 'esa', 'Thhalv10015506m.g' => 'esa', 'Thhalv10017364m.g' => 'esa', 'Thhalv10023742m.g' => 'esa', 'Thhalv10026483m.g' => 'esa', 'TPR.G17232' => 'tpr', 'TPR.G2133' => 'tpr', 'TPR.G2498' => 'tpr', 'TPR.G31942' => 'tpr', 'TPR.G37877' => 'tpr', 'TPR.G4571' => 'tpr', 'TWI14G1113' => 'twi', 'TWI15G0426' => 'twi', 'TWI31G1005' => 'twi', 'TWI38G0513' => 'twi', 'TWI38G1484' => 'twi', 'TWI73G1098' => 'twi', 'unitig_26.g10519' => 'ugi', 'unitig_736.g22395' => 'ugi', 'unitig_747.g21234' => 'ugi', 'unitig_747.g21942' => 'ugi', 'vmacro14351' => 'vma', 'VMungo0540G0082' => 'vmu', 'VMungo0540G0405' => 'vmu', 'VMungo0540G1486' => 'vmu', 'VMungo0540G1692' => 'vmu', 'VMungo0720G2473' => 'vmu', 'VMungo1127G1562' => 'vmu', 'VMungo1215G1918' => 'vmu', 'Zm00001eb052650' => 'zma', 'Zm00001eb063710' => 'zma', 'Zm00001eb083950' => 'zma', 'Zm00001eb174420' => 'zma', 'Zm00001eb260140' => 'zma', 'Zm00001eb260150' => 'zma', 'Zm00001eb260160' => 'zma', 'Zm00001eb348290' => 'zma', 'Zm00001eb366870' => 'zma', 'Zm00001eb421930' => 'zma' ), 'gf_id' => 'HOM05D001025', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001025' ), 'data_identifier' => 'HOM05D001025', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001025', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '592', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p22650' => 'bna', 'A01p29720' => 'bna', 'A03p26560' => 'bna', 'A03p68820' => 'bna', 'A04p20980' => 'bna', 'A06p07730' => 'bna', 'A07p18260' => 'bna', 'A08p33710' => 'bna', 'A09p16970' => 'bna', 'A10p27490' => 'bna', 'Aa31LG1G17300' => 'aar', 'Aa31LG1G3910' => 'aar', 'Aa31LG2G9630' => 'aar', 'Aa31LG5G8360' => 'aar', 'Aa31LG9G2410' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4699' => 'aag', 'Actinidia23512' => 'ach', 'Actinidia37080' => 'ach', 'Ah.01g020380' => 'amhyb', 'Ah.08g215710' => 'amhyb', 'Ah.09g225110' => 'amhyb', 'Ah.10g036680' => 'amhyb', 'AL1G21940' => 'aly', 'AL2G15540' => 'aly', 'AL4G21520' => 'aly', 'AL7G40960' => 'aly', 'Aqoxy2G01191' => 'aox', 'Aqoxy2G03393' => 'aox', 'Aqoxy4G02775' => 'aox', 'Aqoxy6G00058' => 'aox', 'arahy.Tifrunner.gnm1.ann1.9X74H2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CW3FX9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R485W7' => 'arhy', 'AT1G10960' => 'ath', 'AT1G60950' => 'ath', 'AT2G27510' => 'ath', 'AT4G14890' => 'ath', 'AT5G10000' => 'ath', 'ATR0665G624' => 'atr', 'ATR0697G138' => 'atr', 'ATR0776G046' => 'atr', 'ATR1134G135' => 'atr', 'Atru.chr12.1025' => 'acertr', 'Atru.chr3.3241' => 'acertr', 'Atru.chr4.2460' => 'acertr', 'AUR62007427' => 'cqu', 'AUR62010960' => 'cqu', 'AUR62012201' => 'cqu', 'AUR62021470' => 'cqu', 'AUR62022834' => 'cqu', 'AUR62033635' => 'cqu', 'AUR62036186' => 'cqu', 'BcaB01g03077' => 'bca', 'BcaB02g10093' => 'bca', 'BcaB04g20295' => 'bca', 'BcaB06g28147' => 'bca', 'BcaB07g31253' => 'bca', 'BcaC01g04946' => 'bca', 'BcaC02g10614' => 'bca', 'BcaC02g10885' => 'bca', 'BcaC04g19356' => 'bca', 'BcaC04g22297' => 'bca', 'BcaC05g24977' => 'bca', 'BcaC06g31823' => 'bca', 'BcaC07g38633' => 'bca', 'BcaC09g49353' => 'bca', 'BcaC09g50168' => 'bca', 'BcaNung00322' => 'bca', 'BcaNung04769' => 'bca', 'BolC1t02753H' => 'bol', 'BolC1t03721H' => 'bol', 'BolC3t15525H' => 'bol', 'BolC4t23903H' => 'bol', 'BolC4t24231H' => 'bol', 'BolC4t27209H' => 'bol', 'BolC5t29671H' => 'bol', 'BolC8t49044H' => 'bol', 'BolC9t54999H' => 'bol', 'BolC9t59517H' => 'bol', 'BraA01t02178Z' => 'bra', 'BraA01t03099Z' => 'bra', 'BraA03t11867Z' => 'bra', 'BraA04t17667Z' => 'bra', 'BraA07t29542Z' => 'bra', 'BraA08t35287Z' => 'bra', 'BraA09t37334Z' => 'bra', 'BraA10t44801Z' => 'bra', 'BraSC39t46181Z' => 'bra', 'C01p28240' => 'bna', 'C01p37530' => 'bna', 'C03p31820' => 'bna', 'C04p24080' => 'bna', 'C04p25790' => 'bna', 'C04p56770' => 'bna', 'C05p09310' => 'bna', 'C09p21010' => 'bna', 'C09p67560' => 'bna', 'CAN.G1324.7' => 'can', 'CAN.G1358.10' => 'can', 'CAN.G1550.2' => 'can', 'CAN.G186.56' => 'can', 'CAN.G1965.1' => 'can', 'CAN.G645.15' => 'can', 'CAN.G798.26' => 'can', 'CAN.G798.27' => 'can', 'CAN.G798.29' => 'can', 'CAN.G919.31' => 'can', 'CANSAT11G0133' => 'cansat', 'CANSAT11G1171' => 'cansat', 'CANSAT11G2056' => 'cansat', 'CANSAT56G1202' => 'cansat', 'CANSAT56G1514' => 'cansat', 'CANSAT78G0455' => 'cansat', 'CARHR011190' => 'chi', 'CARHR051980' => 'chi', 'CARHR120170' => 'chi', 'CARHR203310' => 'chi', 'CARHR221490' => 'chi', 'Carub.0001s1054' => 'cru', 'Carub.0002s0431' => 'cru', 'Carub.0004s0818' => 'cru', 'Carub.0006s0846' => 'cru', 'Carub.0007s2722' => 'cru', 'Ca_00058_v3' => 'car', 'Ca_17831_v3' => 'car', 'Ca_19408_v3' => 'car', 'Ca_24397_v3' => 'car', 'Ca_25664_v3' => 'car', 'CBR_g21818' => 'cbr', 'CBR_g31195' => 'cbr', 'CBR_g32282' => 'cbr', 'CBR_g39599' => 'cbr', 'CBR_g49410' => 'cbr', 'Cc01_g09120' => 'ccan', 'Cc01_g09130' => 'ccan', 'Cc02_g09630' => 'ccan', 'Cc02_g22810' => 'ccan', 'Cc03_g03810' => 'ccan', 'CDE02G3718' => 'cde', 'CDE04G3183' => 'cde', 'CDE07G1046' => 'cde', 'CDE08G0480' => 'cde', 'Cfa005493' => 'cfa', 'Cfa010312' => 'cfa', 'Cfa015648' => 'cfa', 'Ciclev10002793m.g' => 'ccl', 'Ciclev10003356m.g' => 'ccl', 'Ciclev10006141m.g' => 'ccl', 'Ciclev10016676m.g' => 'ccl', 'Ciclev10017081m.g' => 'ccl', 'Ciclev10029499m.g' => 'ccl', 'CiPaw.01G166300' => 'cil', 'CiPaw.06G145600' => 'cil', 'CiPaw.13G040100' => 'cil', 'CiPaw.13G135800' => 'cil', 'ClCG01G012230' => 'cla', 'ClCG05G009510' => 'cla', 'ClCG08G008270' => 'cla', 'COL.COLO4_11763' => 'col', 'COL.COLO4_19876' => 'col', 'COL.COLO4_21481' => 'col', 'Cpa.g.sc118.34' => 'cpa', 'Cpa.g.sc32.13' => 'cpa', 'Cpa.g.sc58.103' => 'cpa', 'Cre03.g183850' => 'cre', 'Cre06.g306350' => 'cre', 'Cre07.g334800' => 'cre', 'Cre12.g487900' => 'cre', 'Cre14.g626700' => 'cre', 'Cre16.g658400' => 'cre', 'Cre17.g700950' => 'cre', 'CsaV3_1G014830' => 'csa', 'CsaV3_3G013320' => 'csa', 'CsaV3_3G019210' => 'csa', 'CsaV3_3G019220' => 'csa', 'CsaV3_6G004230' => 'csa', 'CSS0003773' => 'camsi', 'CSS0004563' => 'camsi', 'CSS0013949' => 'camsi', 'CSS0025971' => 'camsi', 'CSS0028570' => 'camsi', 'CSS0033127' => 'camsi', 'CSS0036051' => 'camsi', 'CSS0040087' => 'camsi', 'CSS0043179' => 'camsi', 'DCAR_006161' => 'dca', 'DCAR_010351' => 'dca', 'DCAR_012197' => 'dca', 'DCAR_024162' => 'dca', 'Dinv01030' => 'din', 'Dinv10924' => 'din', 'Dinv11835' => 'din', 'Dinv22841' => 'din', 'Dinv42553' => 'din', 'Duzib052G0560' => 'dzi', 'Duzib132G0389' => 'dzi', 'Duzib150G1181' => 'dzi', 'Duzib168G0623' => 'dzi', 'Duzib170G1036' => 'dzi', 'Duzib212G0200' => 'dzi', 'Duzib248G0194' => 'dzi', 'ECA232G2193' => 'eca', 'ECA233G0302' => 'eca', 'ECA234G2813' => 'eca', 'ECA234G4866' => 'eca', 'ECA240G3932' => 'eca', 'ECA248G0385' => 'eca', 'EL10Ac2g04781' => 'bvu', 'EL10Ac3g06445' => 'bvu', 'EL10Ac7g15825' => 'bvu', 'EL10Ac8g18550' => 'bvu', 'Eucgr.B03849' => 'egr', 'Eucgr.I02744' => 'egr', 'Eucgr.J00264' => 'egr', 'Eucgr.J00493' => 'egr', 'FAN04G2181' => 'fan', 'FAN07G2666' => 'fan', 'FAN11G0024' => 'fan', 'FAN12G1105' => 'fan', 'FAN13G0302' => 'fan', 'FAN15G2781' => 'fan', 'FAN16G1274' => 'fan', 'FAN17G2988' => 'fan', 'FAN18G2621' => 'fan', 'FAN21G0013' => 'fan', 'FAN22G1211' => 'fan', 'FAN25G3626' => 'fan', 'FvH4_2g09491' => 'fve', 'FvH4_3g24910' => 'fve', 'FvH4_4g15630' => 'fve', 'FvH4_5g28820' => 'fve', 'Glyma.01G238000' => 'gma', 'Glyma.05G168400' => 'gma', 'Glyma.08G126800' => 'gma', 'Glyma.08G188500' => 'gma', 'Glyma.10G278900' => 'gma', 'Glyma.11G005700' => 'gma', 'Glyma.11G183300' => 'gma', 'Glyma.12G089200' => 'gma', 'Glyma.12G169400' => 'gma', 'Glyma.12G169500' => 'gma', 'Glyma.12G169600' => 'gma', 'Glyma.20G110800' => 'gma', 'Gohir.A03G192900' => 'ghi', 'Gohir.A03G193000' => 'ghi', 'Gohir.A05G080700' => 'ghi', 'Gohir.A09G216000' => 'ghi', 'Gohir.A12G027700' => 'ghi', 'Gohir.A13G036200' => 'ghi', 'Gohir.A13G222600' => 'ghi', 'Gohir.D02G213900' => 'ghi', 'Gohir.D02G214000' => 'ghi', 'Gohir.D05G083700' => 'ghi', 'Gohir.D05G083800' => 'ghi', 'Gohir.D05G083850' => 'ghi', 'Gohir.D08G015400' => 'ghi', 'Gohir.D09G218400' => 'ghi', 'Gohir.D12G027100' => 'ghi', 'Gohir.D13G034500' => 'ghi', 'Gohir.D13G227400' => 'ghi', 'Gorai.005G241800' => 'gra', 'Gorai.005G241900' => 'gra', 'Gorai.006G239400' => 'gra', 'Gorai.008G027600' => 'gra', 'Gorai.009G085400' => 'gra', 'Gorai.009G085500' => 'gra', 'Gorai.013G039000' => 'gra', 'Gorai.013G194800' => 'gra', 'Gorai.013G257900' => 'gra', 'GSVIVG01000982001' => 'vvi', 'GSVIVG01017981001' => 'vvi', 'HanXRQChr01g0024061' => 'han', 'HanXRQChr09g0247831' => 'han', 'HanXRQChr10g0294611' => 'han', 'HanXRQChr10g0294621' => 'han', 'HanXRQChr11g0346821' => 'han', 'HanXRQChr13g0397461' => 'han', 'HanXRQChr16g0513651' => 'han', 'HanXRQChr16g0513701' => 'han', 'Haze_00897' => 'cav', 'Haze_01745' => 'cav', 'Haze_02486' => 'cav', 'Haze_02487' => 'cav', 'Haze_23374' => 'cav', 'Hma1.2p1_0578F.1_g182520' => 'hma', 'Hma1.2p1_0602F.1_g187350' => 'hma', 'Hma1.2p1_0602F.1_g187360' => 'hma', 'Hma1.2p1_0874F.1_g231320' => 'hma', 'Hma1.2p1_1197F.1_g266210' => 'hma', 'Hma1.2p1_1197F.1_g266220' => 'hma', 'Hma1.2p1_2167F.1_g315895' => 'hma', 'Hma1.2p1_2190F.1_g316640' => 'hma', 'Hma1.2p1_3645F.1_g337153' => 'hma', 'HPP92_004907' => 'vpl', 'HPP92_012134' => 'vpl', 'HPP92_025136' => 'vpl', 'HPP92_026087' => 'vpl', 'Hund06782' => 'sun', 'Hund06784' => 'sun', 'Lalb_Chr01g0004861' => 'lal', 'Lalb_Chr02g0140591' => 'lal', 'Lalb_Chr02g0140611' => 'lal', 'Lalb_Chr03g0028101' => 'lal', 'Lalb_Chr07g0185791' => 'lal', 'Lalb_Chr12g0204491' => 'lal', 'Lalb_Chr13g0295671' => 'lal', 'Lalb_Chr19g0136461' => 'lal', 'Lalb_Chr21g0309191' => 'lal', 'Lj1g0028158' => 'lja', 'Lj1P236T38' => 'lonja', 'Lj2C32G2' => 'lonja', 'Lj2P944T8' => 'lonja', 'Lj2P963T15' => 'lonja', 'Lj3g0011788' => 'lja', 'Lj4g0025027' => 'lja', 'Lj5P255T36' => 'lonja', 'Lj6g0018866' => 'lja', 'Lj6P608T31' => 'lonja', 'LjContig00408g0008879' => 'lja', 'Lsat_1_v5_gn_5_105820' => 'lsa', 'Lsat_1_v5_gn_6_38800' => 'lsa', 'Lsat_1_v5_gn_7_67141' => 'lsa', 'Manes.04G003400' => 'mes', 'Manes.07G020000' => 'mes', 'Manes.07G020100' => 'mes', 'Manes.07G020150' => 'mes', 'Manes.10G061500' => 'mes', 'Manes.10G123200' => 'mes', 'Manes.11G161900' => 'mes', 'Manes.15G029300' => 'mes', 'Mapoly0071s0018' => 'mpo', 'Mapoly0082s0023' => 'mpo', 'Mapoly3477s0001' => 'mpo', 'MBI05_g31233_MAGBIO' => 'mbi', 'MBI09_g05946_MAGBIO' => 'mbi', 'MBI09_g05947_MAGBIO' => 'mbi', 'MBI17_g08346_MAGBIO' => 'mbi', 'MCO04G038' => 'mco', 'MCO09G370' => 'mco', 'MCO13G605' => 'mco', 'MD00G1075500' => 'mdo', 'MD03G1144300' => 'mdo', 'MD08G1236800' => 'mdo', 'MD13G1193300' => 'mdo', 'MD15G1428700' => 'mdo', 'Medtr1g112030' => 'mtr', 'Medtr1g112050' => 'mtr', 'Medtr2g006290' => 'mtr', 'Medtr2g086510' => 'mtr', 'Medtr4g053120' => 'mtr', 'Medtr5g006320' => 'mtr', 'Medtr8g088720' => 'mtr', 'MELO3C004712.2' => 'cme', 'MELO3C006533.2' => 'cme', 'MELO3C019438.2' => 'cme', 'MELO3C019440.2' => 'cme', 'MELO3C019441.2' => 'cme', 'MELO3C019895.2' => 'cme', 'Migut.B00811' => 'egut', 'Migut.D02447' => 'egut', 'Migut.F00875' => 'egut', 'Migut.N00186' => 'egut', 'Migut.N01051' => 'egut', 'Migut.N02491' => 'egut', 'Migut.O00784' => 'egut', 'MSTRG.12367' => 'ama', 'MSTRG.18756' => 'ama', 'MSTRG.21042' => 'ama', 'Nitab4.5_0000559g0040' => 'nta', 'Nitab4.5_0000667g0190' => 'nta', 'Nitab4.5_0000755g0160' => 'nta', 'Nitab4.5_0001216g0080' => 'nta', 'Nitab4.5_0004069g0040' => 'nta', 'Nitab4.5_0004129g0010' => 'nta', 'Nitab4.5_0005744g0030' => 'nta', 'Nitab4.5_0006996g0030' => 'nta', 'Nitab4.5_0008971g0040' => 'nta', 'Nitab4.5_0009769g0020' => 'nta', 'Nitab4.5_0009833g0010' => 'nta', 'Nitab4.5_0013140g0020' => 'nta', 'Nn003s41376' => 'nnu', 'Nn1g01857' => 'nnu', 'Nn1g03611' => 'nnu', 'Nn1g06853' => 'nnu', 'Nn3g18360' => 'nnu', 'Nn4g26328' => 'nnu', 'Nn5g27531' => 'nnu', 'Nn6g34899' => 'nnu', 'Nn7g36299' => 'nnu', 'Oeu021485.1' => 'oeu', 'Oeu022433.1' => 'oeu', 'Oeu032111.1' => 'oeu', 'Oeu051608.1' => 'oeu', 'Os01g0860601' => 'osa', 'Os03g0659200' => 'osa', 'Os03g0835900' => 'osa', 'Os04g0412200' => 'osa', 'Os05g0443500' => 'osa', 'Os07g0251500' => 'osa', 'Os08g0104600' => 'osa', 'Peaxi162Scf00003g00047' => 'pax', 'Peaxi162Scf00003g00052' => 'pax', 'Peaxi162Scf00003g00394' => 'pax', 'Peaxi162Scf00091g00621' => 'pax', 'Peaxi162Scf00152g00146' => 'pax', 'Peaxi162Scf00173g00025' => 'pax', 'Peaxi162Scf00195g00102' => 'pax', 'Peaxi162Scf00402g00013' => 'pax', 'Peaxi162Scf00519g00618' => 'pax', 'PGR004G2838' => 'pgr', 'PGR044G2275' => 'pgr', 'PGR102G1377' => 'pgr', 'PGR119G1245' => 'pgr', 'PGR142G4449' => 'pgr', 'PGSC0003DMG400004532' => 'stu', 'PGSC0003DMG400011950' => 'stu', 'PGSC0003DMG400023391' => 'stu', 'PGSC0003DMG400023985' => 'stu', 'PGSC0003DMG400026360' => 'stu', 'PGSC0003DMG400035711' => 'stu', 'PGSC0003DMG400037286' => 'stu', 'PGSC0003DMG402005881' => 'stu', 'Phvul.002G045400' => 'pvu', 'Phvul.006G216600' => 'pvu', 'Phvul.006G216700' => 'pvu', 'Phvul.006G216800' => 'pvu', 'Phvul.007G022500' => 'pvu', 'Phvul.011G094400' => 'pvu', 'Potri.001G470700' => 'ptr', 'Potri.003G015200' => 'ptr', 'Potri.004G202500' => 'ptr', 'Potri.004G218400' => 'ptr', 'Potri.008G020100' => 'ptr', 'Potri.008G153200' => 'ptr', 'Potri.009G163800' => 'ptr', 'Potri.010G087300' => 'ptr', 'Potri.010G239100' => 'ptr', 'Pp3c10_16100' => 'ppa', 'Pp3c10_16880' => 'ppa', 'Pp3c16_6230' => 'ppa', 'Pp3c17_18910' => 'ppa', 'Pp3c3_22119' => 'ppa', 'Pp3c3_22140' => 'ppa', 'Pp3c4_8159' => 'ppa', 'Pp3c4_8171' => 'ppa', 'Pp3c4_8330' => 'ppa', 'PRCOL_00004098' => 'pco', 'Prupe.1G013900' => 'ppe', 'Prupe.1G226300' => 'ppe', 'Prupe.1G573600' => 'ppe', 'Prupe.6G130100' => 'ppe', 'Psat3g090040' => 'psa', 'Psat4g210440' => 'psa', 'Psat6g231040' => 'psa', 'Psat6g231080' => 'psa', 'Psat7g063000' => 'psa', 'Psat7g188000' => 'psa', 'Psat7g188040' => 'psa', 'PSO017G0206' => 'pso', 'PSO170G0501' => 'pso', 'PSO170G6422' => 'pso', 'PSO210G7739' => 'pso', 'PSO339G1808' => 'pso', 'PSO339G6135' => 'pso', 'PSO384G0010' => 'pso', 'PSO384G0964' => 'pso', 'PSO761G0050' => 'pso', 'PSO782G4085' => 'pso', 'QL01p012264' => 'qlo', 'QL02p099491' => 'qlo', 'QL03p033868' => 'qlo', 'QL04p046678' => 'qlo', 'QL06p002448' => 'qlo', 'RcHm_v2.0_Chr4g0416181' => 'rch', 'RcHm_v2.0_Chr5g0044701' => 'rch', 'RcHm_v2.0_Chr6g0265781' => 'rch', 'RcHm_v2.0_Chr7g0221031' => 'rch', 'Rhsim04G0202000' => 'rsi', 'Rhsim11G0127300' => 'rsi', 'Rhsim13G0111800' => 'rsi', 'Sabra01G0165600' => 'sbr', 'Sabra03G0008300' => 'sbr', 'Sabra04G0136900' => 'sbr', 'Sabra08G0013400' => 'sbr', 'Sabra08G0116800' => 'sbr', 'Sabra09G0128000' => 'sbr', 'Sabra10G0055500' => 'sbr', 'Sabra10G0073300' => 'sbr', 'SalBow3G0385' => 'sbo', 'SalBow3G1119' => 'sbo', 'SalBow3G2005' => 'sbo', 'SalBow6G2563' => 'sbo', 'SalBow6G6386' => 'sbo', 'Sc06g0008800' => 'sci', 'Sc07g0004950' => 'sci', 'Sc09g0005340' => 'sci', 'Sc13g0004410' => 'sci', 'Sc21g0007090' => 'sci', 'Sed0009285' => 'sed', 'Sed0017583' => 'sed', 'Sed0019699' => 'sed', 'Sed0023107' => 'sed', 'SEGI_10916' => 'sgi', 'SEGI_16217' => 'sgi', 'SEGI_19466' => 'sgi', 'SEGI_41115' => 'sgi', 'SGA_v2.0_scaffold111G31534' => 'sas', 'SGA_v2.0_scaffold22G09864' => 'sas', 'SGA_v2.0_scaffold338G49219' => 'sas', 'SGA_v2.0_scaffold92G28298' => 'sas', 'SMO119G0064' => 'smo', 'SMO223G0038' => 'smo', 'SMO347G0584' => 'smo', 'SMO351G0010' => 'smo', 'SMO356G0404' => 'smo', 'Solyc01g103920.3' => 'sly', 'Solyc04g009710.2' => 'sly', 'Solyc05g055280.2' => 'sly', 'Solyc10g044520.3' => 'sly', 'Solyc10g075160.1' => 'sly', 'Solyc11g006910.3' => 'sly', 'Solyc11g068430.3' => 'sly', 'Sopen01g046310' => 'spe', 'Sopen03g001200' => 'spe', 'Sopen04g004830' => 'spe', 'Sopen05g033720' => 'spe', 'Sopen06g030740' => 'spe', 'Sopen10g013090' => 'spe', 'Sopen10g027630' => 'spe', 'Sopen10g027640' => 'spe', 'Sopen11g002820' => 'spe', 'Sopen11g027140' => 'spe', 'Sp1g09680' => 'spa', 'Sp2g03630' => 'spa', 'Sp4g10320' => 'spa', 'Sp6g33400' => 'spa', 'Sp7g13030' => 'spa', 'TAR365G0317' => 'tar', 'TAR376G0979' => 'tar', 'TAR623G1665' => 'tar', 'TAR633G2373' => 'tar', 'TAR636G1400' => 'tar', 'THA.LOC104800529' => 'tha', 'THA.LOC104808547' => 'tha', 'THA.LOC104809615' => 'tha', 'THA.LOC104815724' => 'tha', 'THA.LOC104818480' => 'tha', 'THA.LOC104819179' => 'tha', 'THA.LOC104822270' => 'tha', 'THA.LOC104826425' => 'tha', 'Thecc.02G089700' => 'tca', 'Thecc.04G232300' => 'tca', 'Thecc.09G283400' => 'tca', 'Thhalv10009020m.g' => 'esa', 'Thhalv10015506m.g' => 'esa', 'Thhalv10017364m.g' => 'esa', 'Thhalv10023742m.g' => 'esa', 'Thhalv10026483m.g' => 'esa', 'TPR.G17232' => 'tpr', 'TPR.G2133' => 'tpr', 'TPR.G2498' => 'tpr', 'TPR.G31942' => 'tpr', 'TPR.G37877' => 'tpr', 'TPR.G4571' => 'tpr', 'TWI14G1113' => 'twi', 'TWI15G0426' => 'twi', 'TWI31G1005' => 'twi', 'TWI38G0513' => 'twi', 'TWI38G1484' => 'twi', 'TWI73G1098' => 'twi', 'unitig_26.g10519' => 'ugi', 'unitig_736.g22395' => 'ugi', 'unitig_747.g21234' => 'ugi', 'unitig_747.g21942' => 'ugi', 'vmacro14351' => 'vma', 'VMungo0540G0082' => 'vmu', 'VMungo0540G0405' => 'vmu', 'VMungo0540G1486' => 'vmu', 'VMungo0540G1692' => 'vmu', 'VMungo0720G2473' => 'vmu', 'VMungo1127G1562' => 'vmu', 'VMungo1215G1918' => 'vmu', 'Zm00001eb052650' => 'zma', 'Zm00001eb063710' => 'zma', 'Zm00001eb083950' => 'zma', 'Zm00001eb174420' => 'zma', 'Zm00001eb260140' => 'zma', 'Zm00001eb260150' => 'zma', 'Zm00001eb260160' => 'zma', 'Zm00001eb348290' => 'zma', 'Zm00001eb366870' => 'zma', 'Zm00001eb421930' => 'zma' ) $gf_id = 'HOM05D001025' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001025' ) $data_identifier = 'HOM05D001025' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 19, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 2, 'amhyb' => (int) 4, 'aly' => (int) 4, 'aox' => (int) 4, 'arhy' => (int) 3, 'ath' => (int) 5, 'atr' => (int) 4, 'acertr' => (int) 3, 'cqu' => (int) 7, 'bca' => (int) 17, 'bol' => (int) 10, 'bra' => (int) 9, 'can' => (int) 10, 'cansat' => (int) 6, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 5, 'cbr' => (int) 5, 'ccan' => (int) 5, 'cde' => (int) 4, 'cfa' => (int) 3, 'ccl' => (int) 6, 'cil' => (int) 4, 'cla' => (int) 3, 'col' => (int) 3, 'cpa' => (int) 3, 'cre' => (int) 7, 'csa' => (int) 5, 'camsi' => (int) 9, 'dca' => (int) 4, 'din' => (int) 5, 'dzi' => (int) 7, 'eca' => (int) 6, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 12, 'fve' => (int) 4, 'gma' => (int) 12, 'ghi' => (int) 17, 'gra' => (int) 9, 'vvi' => (int) 2, 'han' => (int) 8, 'cav' => (int) 5, 'hma' => (int) 9, 'vpl' => (int) 4, 'sun' => (int) 2, 'lal' => (int) 9, 'lja' => (int) 5, 'lonja' => (int) 6, 'lsa' => (int) 3, 'mes' => (int) 8, 'mpo' => (int) 3, 'mbi' => (int) 4, 'mco' => (int) 3, 'mdo' => (int) 5, 'mtr' => (int) 7, 'cme' => (int) 6, 'egut' => (int) 7, 'ama' => (int) 3, 'nta' => (int) 12, 'nnu' => (int) 9, 'oeu' => (int) 4, 'osa' => (int) 7, 'pax' => (int) 9, 'pgr' => (int) 5, 'stu' => (int) 8, 'pvu' => (int) 6, 'ptr' => (int) 9, 'ppa' => (int) 9, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 7, 'pso' => (int) 10, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 3, 'sbr' => (int) 8, 'sbo' => (int) 5, 'sci' => (int) 5, 'sed' => (int) 4, 'sgi' => (int) 4, 'sas' => (int) 4, 'smo' => (int) 5, 'sly' => (int) 7, 'spe' => (int) 10, 'spa' => (int) 5, 'tar' => (int) 5, 'tha' => (int) 8, 'tca' => (int) 3, 'esa' => (int) 5, 'tpr' => (int) 6, 'twi' => (int) 6, 'ugi' => (int) 4, 'vma' => (int) 1, 'vmu' => (int) 7, 'zma' => (int) 10 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb421930' $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' => 'HOM05D001025', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '592', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p22650' => 'bna', 'A01p29720' => 'bna', 'A03p26560' => 'bna', 'A03p68820' => 'bna', 'A04p20980' => 'bna', 'A06p07730' => 'bna', 'A07p18260' => 'bna', 'A08p33710' => 'bna', 'A09p16970' => 'bna', 'A10p27490' => 'bna', 'Aa31LG1G17300' => 'aar', 'Aa31LG1G3910' => 'aar', 'Aa31LG2G9630' => 'aar', 'Aa31LG5G8360' => 'aar', 'Aa31LG9G2410' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4699' => 'aag', 'Actinidia23512' => 'ach', 'Actinidia37080' => 'ach', 'Ah.01g020380' => 'amhyb', 'Ah.08g215710' => 'amhyb', 'Ah.09g225110' => 'amhyb', 'Ah.10g036680' => 'amhyb', 'AL1G21940' => 'aly', 'AL2G15540' => 'aly', 'AL4G21520' => 'aly', 'AL7G40960' => 'aly', 'Aqoxy2G01191' => 'aox', 'Aqoxy2G03393' => 'aox', 'Aqoxy4G02775' => 'aox', 'Aqoxy6G00058' => 'aox', 'arahy.Tifrunner.gnm1.ann1.9X74H2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CW3FX9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R485W7' => 'arhy', 'AT1G10960' => 'ath', 'AT1G60950' => 'ath', 'AT2G27510' => 'ath', 'AT4G14890' => 'ath', 'AT5G10000' => 'ath', 'ATR0665G624' => 'atr', 'ATR0697G138' => 'atr', 'ATR0776G046' => 'atr', 'ATR1134G135' => 'atr', 'Atru.chr12.1025' => 'acertr', 'Atru.chr3.3241' => 'acertr', 'Atru.chr4.2460' => 'acertr', 'AUR62007427' => 'cqu', 'AUR62010960' => 'cqu', 'AUR62012201' => 'cqu', 'AUR62021470' => 'cqu', 'AUR62022834' => 'cqu', 'AUR62033635' => 'cqu', 'AUR62036186' => 'cqu', 'BcaB01g03077' => 'bca', 'BcaB02g10093' => 'bca', 'BcaB04g20295' => 'bca', 'BcaB06g28147' => 'bca', 'BcaB07g31253' => 'bca', 'BcaC01g04946' => 'bca', 'BcaC02g10614' => 'bca', 'BcaC02g10885' => 'bca', 'BcaC04g19356' => 'bca', 'BcaC04g22297' => 'bca', 'BcaC05g24977' => 'bca', 'BcaC06g31823' => 'bca', 'BcaC07g38633' => 'bca', 'BcaC09g49353' => 'bca', 'BcaC09g50168' => 'bca', 'BcaNung00322' => 'bca', 'BcaNung04769' => 'bca', 'BolC1t02753H' => 'bol', 'BolC1t03721H' => 'bol', 'BolC3t15525H' => 'bol', 'BolC4t23903H' => 'bol', 'BolC4t24231H' => 'bol', 'BolC4t27209H' => 'bol', 'BolC5t29671H' => 'bol', 'BolC8t49044H' => 'bol', 'BolC9t54999H' => 'bol', 'BolC9t59517H' => 'bol', 'BraA01t02178Z' => 'bra', 'BraA01t03099Z' => 'bra', 'BraA03t11867Z' => 'bra', 'BraA04t17667Z' => 'bra', 'BraA07t29542Z' => 'bra', 'BraA08t35287Z' => 'bra', 'BraA09t37334Z' => 'bra', 'BraA10t44801Z' => 'bra', 'BraSC39t46181Z' => 'bra', 'C01p28240' => 'bna', 'C01p37530' => 'bna', 'C03p31820' => 'bna', 'C04p24080' => 'bna', 'C04p25790' => 'bna', 'C04p56770' => 'bna', 'C05p09310' => 'bna', 'C09p21010' => 'bna', 'C09p67560' => 'bna', 'CAN.G1324.7' => 'can', 'CAN.G1358.10' => 'can', 'CAN.G1550.2' => 'can', 'CAN.G186.56' => 'can', 'CAN.G1965.1' => 'can', 'CAN.G645.15' => 'can', 'CAN.G798.26' => 'can', 'CAN.G798.27' => 'can', 'CAN.G798.29' => 'can', 'CAN.G919.31' => 'can', 'CANSAT11G0133' => 'cansat', 'CANSAT11G1171' => 'cansat', 'CANSAT11G2056' => 'cansat', 'CANSAT56G1202' => 'cansat', 'CANSAT56G1514' => 'cansat', 'CANSAT78G0455' => 'cansat', 'CARHR011190' => 'chi', 'CARHR051980' => 'chi', 'CARHR120170' => 'chi', 'CARHR203310' => 'chi', 'CARHR221490' => 'chi', 'Carub.0001s1054' => 'cru', 'Carub.0002s0431' => 'cru', 'Carub.0004s0818' => 'cru', 'Carub.0006s0846' => 'cru', 'Carub.0007s2722' => 'cru', 'Ca_00058_v3' => 'car', 'Ca_17831_v3' => 'car', 'Ca_19408_v3' => 'car', 'Ca_24397_v3' => 'car', 'Ca_25664_v3' => 'car', 'CBR_g21818' => 'cbr', 'CBR_g31195' => 'cbr', 'CBR_g32282' => 'cbr', 'CBR_g39599' => 'cbr', 'CBR_g49410' => 'cbr', 'Cc01_g09120' => 'ccan', 'Cc01_g09130' => 'ccan', 'Cc02_g09630' => 'ccan', 'Cc02_g22810' => 'ccan', 'Cc03_g03810' => 'ccan', 'CDE02G3718' => 'cde', 'CDE04G3183' => 'cde', 'CDE07G1046' => 'cde', 'CDE08G0480' => 'cde', 'Cfa005493' => 'cfa', 'Cfa010312' => 'cfa', 'Cfa015648' => 'cfa', 'Ciclev10002793m.g' => 'ccl', 'Ciclev10003356m.g' => 'ccl', 'Ciclev10006141m.g' => 'ccl', 'Ciclev10016676m.g' => 'ccl', 'Ciclev10017081m.g' => 'ccl', 'Ciclev10029499m.g' => 'ccl', 'CiPaw.01G166300' => 'cil', 'CiPaw.06G145600' => 'cil', 'CiPaw.13G040100' => 'cil', 'CiPaw.13G135800' => 'cil', 'ClCG01G012230' => 'cla', 'ClCG05G009510' => 'cla', 'ClCG08G008270' => 'cla', 'COL.COLO4_11763' => 'col', 'COL.COLO4_19876' => 'col', 'COL.COLO4_21481' => 'col', 'Cpa.g.sc118.34' => 'cpa', 'Cpa.g.sc32.13' => 'cpa', 'Cpa.g.sc58.103' => 'cpa', 'Cre03.g183850' => 'cre', 'Cre06.g306350' => 'cre', 'Cre07.g334800' => 'cre', 'Cre12.g487900' => 'cre', 'Cre14.g626700' => 'cre', 'Cre16.g658400' => 'cre', 'Cre17.g700950' => 'cre', 'CsaV3_1G014830' => 'csa', 'CsaV3_3G013320' => 'csa', 'CsaV3_3G019210' => 'csa', 'CsaV3_3G019220' => 'csa', 'CsaV3_6G004230' => 'csa', 'CSS0003773' => 'camsi', 'CSS0004563' => 'camsi', 'CSS0013949' => 'camsi', 'CSS0025971' => 'camsi', 'CSS0028570' => 'camsi', 'CSS0033127' => 'camsi', 'CSS0036051' => 'camsi', 'CSS0040087' => 'camsi', 'CSS0043179' => 'camsi', 'DCAR_006161' => 'dca', 'DCAR_010351' => 'dca', 'DCAR_012197' => 'dca', 'DCAR_024162' => 'dca', 'Dinv01030' => 'din', 'Dinv10924' => 'din', 'Dinv11835' => 'din', 'Dinv22841' => 'din', 'Dinv42553' => 'din', 'Duzib052G0560' => 'dzi', 'Duzib132G0389' => 'dzi', 'Duzib150G1181' => 'dzi', 'Duzib168G0623' => 'dzi', 'Duzib170G1036' => 'dzi', 'Duzib212G0200' => 'dzi', 'Duzib248G0194' => 'dzi', 'ECA232G2193' => 'eca', 'ECA233G0302' => 'eca', 'ECA234G2813' => 'eca', 'ECA234G4866' => 'eca', 'ECA240G3932' => 'eca', 'ECA248G0385' => 'eca', 'EL10Ac2g04781' => 'bvu', 'EL10Ac3g06445' => 'bvu', 'EL10Ac7g15825' => 'bvu', 'EL10Ac8g18550' => 'bvu', 'Eucgr.B03849' => 'egr', 'Eucgr.I02744' => 'egr', 'Eucgr.J00264' => 'egr', 'Eucgr.J00493' => 'egr', 'FAN04G2181' => 'fan', 'FAN07G2666' => 'fan', 'FAN11G0024' => 'fan', 'FAN12G1105' => 'fan', 'FAN13G0302' => 'fan', 'FAN15G2781' => 'fan', 'FAN16G1274' => 'fan', 'FAN17G2988' => 'fan', 'FAN18G2621' => 'fan', 'FAN21G0013' => 'fan', 'FAN22G1211' => 'fan', 'FAN25G3626' => 'fan', 'FvH4_2g09491' => 'fve', 'FvH4_3g24910' => 'fve', 'FvH4_4g15630' => 'fve', 'FvH4_5g28820' => 'fve', 'Glyma.01G238000' => 'gma', 'Glyma.05G168400' => 'gma', 'Glyma.08G126800' => 'gma', 'Glyma.08G188500' => 'gma', 'Glyma.10G278900' => 'gma', 'Glyma.11G005700' => 'gma', 'Glyma.11G183300' => 'gma', 'Glyma.12G089200' => 'gma', 'Glyma.12G169400' => 'gma', 'Glyma.12G169500' => 'gma', 'Glyma.12G169600' => 'gma', 'Glyma.20G110800' => 'gma', 'Gohir.A03G192900' => 'ghi', 'Gohir.A03G193000' => 'ghi', 'Gohir.A05G080700' => 'ghi', 'Gohir.A09G216000' => 'ghi', 'Gohir.A12G027700' => 'ghi', 'Gohir.A13G036200' => 'ghi', 'Gohir.A13G222600' => 'ghi', 'Gohir.D02G213900' => 'ghi', 'Gohir.D02G214000' => 'ghi', 'Gohir.D05G083700' => 'ghi', 'Gohir.D05G083800' => 'ghi', 'Gohir.D05G083850' => 'ghi', 'Gohir.D08G015400' => 'ghi', 'Gohir.D09G218400' => 'ghi', 'Gohir.D12G027100' => 'ghi', 'Gohir.D13G034500' => 'ghi', 'Gohir.D13G227400' => 'ghi', 'Gorai.005G241800' => 'gra', 'Gorai.005G241900' => 'gra', 'Gorai.006G239400' => 'gra', 'Gorai.008G027600' => 'gra', 'Gorai.009G085400' => 'gra', 'Gorai.009G085500' => 'gra', 'Gorai.013G039000' => 'gra', 'Gorai.013G194800' => 'gra', 'Gorai.013G257900' => 'gra', 'GSVIVG01000982001' => 'vvi', 'GSVIVG01017981001' => 'vvi', 'HanXRQChr01g0024061' => 'han', 'HanXRQChr09g0247831' => 'han', 'HanXRQChr10g0294611' => 'han', 'HanXRQChr10g0294621' => 'han', 'HanXRQChr11g0346821' => 'han', 'HanXRQChr13g0397461' => 'han', 'HanXRQChr16g0513651' => 'han', 'HanXRQChr16g0513701' => 'han', 'Haze_00897' => 'cav', 'Haze_01745' => 'cav', 'Haze_02486' => 'cav', 'Haze_02487' => 'cav', 'Haze_23374' => 'cav', 'Hma1.2p1_0578F.1_g182520' => 'hma', 'Hma1.2p1_0602F.1_g187350' => 'hma', 'Hma1.2p1_0602F.1_g187360' => 'hma', 'Hma1.2p1_0874F.1_g231320' => 'hma', 'Hma1.2p1_1197F.1_g266210' => 'hma', 'Hma1.2p1_1197F.1_g266220' => 'hma', 'Hma1.2p1_2167F.1_g315895' => 'hma', 'Hma1.2p1_2190F.1_g316640' => 'hma', 'Hma1.2p1_3645F.1_g337153' => 'hma', 'HPP92_004907' => 'vpl', 'HPP92_012134' => 'vpl', 'HPP92_025136' => 'vpl', 'HPP92_026087' => 'vpl', 'Hund06782' => 'sun', 'Hund06784' => 'sun', 'Lalb_Chr01g0004861' => 'lal', 'Lalb_Chr02g0140591' => 'lal', 'Lalb_Chr02g0140611' => 'lal', 'Lalb_Chr03g0028101' => 'lal', 'Lalb_Chr07g0185791' => 'lal', 'Lalb_Chr12g0204491' => 'lal', 'Lalb_Chr13g0295671' => 'lal', 'Lalb_Chr19g0136461' => 'lal', 'Lalb_Chr21g0309191' => 'lal', 'Lj1g0028158' => 'lja', 'Lj1P236T38' => 'lonja', 'Lj2C32G2' => 'lonja', 'Lj2P944T8' => 'lonja', 'Lj2P963T15' => 'lonja', 'Lj3g0011788' => 'lja', 'Lj4g0025027' => 'lja', 'Lj5P255T36' => 'lonja', 'Lj6g0018866' => 'lja', 'Lj6P608T31' => 'lonja', 'LjContig00408g0008879' => 'lja', 'Lsat_1_v5_gn_5_105820' => 'lsa', 'Lsat_1_v5_gn_6_38800' => 'lsa', 'Lsat_1_v5_gn_7_67141' => 'lsa', 'Manes.04G003400' => 'mes', 'Manes.07G020000' => 'mes', 'Manes.07G020100' => 'mes', 'Manes.07G020150' => 'mes', 'Manes.10G061500' => 'mes', 'Manes.10G123200' => 'mes', 'Manes.11G161900' => 'mes', 'Manes.15G029300' => 'mes', 'Mapoly0071s0018' => 'mpo', 'Mapoly0082s0023' => 'mpo', 'Mapoly3477s0001' => 'mpo', 'MBI05_g31233_MAGBIO' => 'mbi', 'MBI09_g05946_MAGBIO' => 'mbi', 'MBI09_g05947_MAGBIO' => 'mbi', 'MBI17_g08346_MAGBIO' => 'mbi', 'MCO04G038' => 'mco', 'MCO09G370' => 'mco', 'MCO13G605' => 'mco', 'MD00G1075500' => 'mdo', 'MD03G1144300' => 'mdo', 'MD08G1236800' => 'mdo', 'MD13G1193300' => 'mdo', 'MD15G1428700' => 'mdo', 'Medtr1g112030' => 'mtr', 'Medtr1g112050' => 'mtr', 'Medtr2g006290' => 'mtr', 'Medtr2g086510' => 'mtr', 'Medtr4g053120' => 'mtr', 'Medtr5g006320' => 'mtr', 'Medtr8g088720' => 'mtr', 'MELO3C004712.2' => 'cme', 'MELO3C006533.2' => 'cme', 'MELO3C019438.2' => 'cme', 'MELO3C019440.2' => 'cme', 'MELO3C019441.2' => 'cme', 'MELO3C019895.2' => 'cme', 'Migut.B00811' => 'egut', 'Migut.D02447' => 'egut', 'Migut.F00875' => 'egut', 'Migut.N00186' => 'egut', 'Migut.N01051' => 'egut', 'Migut.N02491' => 'egut', 'Migut.O00784' => 'egut', 'MSTRG.12367' => 'ama', 'MSTRG.18756' => 'ama', 'MSTRG.21042' => 'ama', 'Nitab4.5_0000559g0040' => 'nta', 'Nitab4.5_0000667g0190' => 'nta', 'Nitab4.5_0000755g0160' => 'nta', 'Nitab4.5_0001216g0080' => 'nta', 'Nitab4.5_0004069g0040' => 'nta', 'Nitab4.5_0004129g0010' => 'nta', 'Nitab4.5_0005744g0030' => 'nta', 'Nitab4.5_0006996g0030' => 'nta', 'Nitab4.5_0008971g0040' => 'nta', 'Nitab4.5_0009769g0020' => 'nta', 'Nitab4.5_0009833g0010' => 'nta', 'Nitab4.5_0013140g0020' => 'nta', 'Nn003s41376' => 'nnu', 'Nn1g01857' => 'nnu', 'Nn1g03611' => 'nnu', 'Nn1g06853' => 'nnu', 'Nn3g18360' => 'nnu', 'Nn4g26328' => 'nnu', 'Nn5g27531' => 'nnu', 'Nn6g34899' => 'nnu', 'Nn7g36299' => 'nnu', 'Oeu021485.1' => 'oeu', 'Oeu022433.1' => 'oeu', 'Oeu032111.1' => 'oeu', 'Oeu051608.1' => 'oeu', 'Os01g0860601' => 'osa', 'Os03g0659200' => 'osa', 'Os03g0835900' => 'osa', 'Os04g0412200' => 'osa', 'Os05g0443500' => 'osa', 'Os07g0251500' => 'osa', 'Os08g0104600' => 'osa', 'Peaxi162Scf00003g00047' => 'pax', 'Peaxi162Scf00003g00052' => 'pax', 'Peaxi162Scf00003g00394' => 'pax', 'Peaxi162Scf00091g00621' => 'pax', 'Peaxi162Scf00152g00146' => 'pax', 'Peaxi162Scf00173g00025' => 'pax', 'Peaxi162Scf00195g00102' => 'pax', 'Peaxi162Scf00402g00013' => 'pax', 'Peaxi162Scf00519g00618' => 'pax', 'PGR004G2838' => 'pgr', 'PGR044G2275' => 'pgr', 'PGR102G1377' => 'pgr', 'PGR119G1245' => 'pgr', 'PGR142G4449' => 'pgr', 'PGSC0003DMG400004532' => 'stu', 'PGSC0003DMG400011950' => 'stu', 'PGSC0003DMG400023391' => 'stu', 'PGSC0003DMG400023985' => 'stu', 'PGSC0003DMG400026360' => 'stu', 'PGSC0003DMG400035711' => 'stu', 'PGSC0003DMG400037286' => 'stu', 'PGSC0003DMG402005881' => 'stu', 'Phvul.002G045400' => 'pvu', 'Phvul.006G216600' => 'pvu', 'Phvul.006G216700' => 'pvu', 'Phvul.006G216800' => 'pvu', 'Phvul.007G022500' => 'pvu', 'Phvul.011G094400' => 'pvu', 'Potri.001G470700' => 'ptr', 'Potri.003G015200' => 'ptr', 'Potri.004G202500' => 'ptr', 'Potri.004G218400' => 'ptr', 'Potri.008G020100' => 'ptr', 'Potri.008G153200' => 'ptr', 'Potri.009G163800' => 'ptr', 'Potri.010G087300' => 'ptr', 'Potri.010G239100' => 'ptr', 'Pp3c10_16100' => 'ppa', 'Pp3c10_16880' => 'ppa', 'Pp3c16_6230' => 'ppa', 'Pp3c17_18910' => 'ppa', 'Pp3c3_22119' => 'ppa', 'Pp3c3_22140' => 'ppa', 'Pp3c4_8159' => 'ppa', 'Pp3c4_8171' => 'ppa', 'Pp3c4_8330' => 'ppa', 'PRCOL_00004098' => 'pco', 'Prupe.1G013900' => 'ppe', 'Prupe.1G226300' => 'ppe', 'Prupe.1G573600' => 'ppe', 'Prupe.6G130100' => 'ppe', 'Psat3g090040' => 'psa', 'Psat4g210440' => 'psa', 'Psat6g231040' => 'psa', 'Psat6g231080' => 'psa', 'Psat7g063000' => 'psa', 'Psat7g188000' => 'psa', 'Psat7g188040' => 'psa', 'PSO017G0206' => 'pso', 'PSO170G0501' => 'pso', 'PSO170G6422' => 'pso', 'PSO210G7739' => 'pso', 'PSO339G1808' => 'pso', 'PSO339G6135' => 'pso', 'PSO384G0010' => 'pso', 'PSO384G0964' => 'pso', 'PSO761G0050' => 'pso', 'PSO782G4085' => 'pso', 'QL01p012264' => 'qlo', 'QL02p099491' => 'qlo', 'QL03p033868' => 'qlo', 'QL04p046678' => 'qlo', 'QL06p002448' => 'qlo', 'RcHm_v2.0_Chr4g0416181' => 'rch', 'RcHm_v2.0_Chr5g0044701' => 'rch', 'RcHm_v2.0_Chr6g0265781' => 'rch', 'RcHm_v2.0_Chr7g0221031' => 'rch', 'Rhsim04G0202000' => 'rsi', 'Rhsim11G0127300' => 'rsi', 'Rhsim13G0111800' => 'rsi', 'Sabra01G0165600' => 'sbr', 'Sabra03G0008300' => 'sbr', 'Sabra04G0136900' => 'sbr', 'Sabra08G0013400' => 'sbr', 'Sabra08G0116800' => 'sbr', 'Sabra09G0128000' => 'sbr', 'Sabra10G0055500' => 'sbr', 'Sabra10G0073300' => 'sbr', 'SalBow3G0385' => 'sbo', 'SalBow3G1119' => 'sbo', 'SalBow3G2005' => 'sbo', 'SalBow6G2563' => 'sbo', 'SalBow6G6386' => 'sbo', 'Sc06g0008800' => 'sci', 'Sc07g0004950' => 'sci', 'Sc09g0005340' => 'sci', 'Sc13g0004410' => 'sci', 'Sc21g0007090' => 'sci', 'Sed0009285' => 'sed', 'Sed0017583' => 'sed', 'Sed0019699' => 'sed', 'Sed0023107' => 'sed', 'SEGI_10916' => 'sgi', 'SEGI_16217' => 'sgi', 'SEGI_19466' => 'sgi', 'SEGI_41115' => 'sgi', 'SGA_v2.0_scaffold111G31534' => 'sas', 'SGA_v2.0_scaffold22G09864' => 'sas', 'SGA_v2.0_scaffold338G49219' => 'sas', 'SGA_v2.0_scaffold92G28298' => 'sas', 'SMO119G0064' => 'smo', 'SMO223G0038' => 'smo', 'SMO347G0584' => 'smo', 'SMO351G0010' => 'smo', 'SMO356G0404' => 'smo', 'Solyc01g103920.3' => 'sly', 'Solyc04g009710.2' => 'sly', 'Solyc05g055280.2' => 'sly', 'Solyc10g044520.3' => 'sly', 'Solyc10g075160.1' => 'sly', 'Solyc11g006910.3' => 'sly', 'Solyc11g068430.3' => 'sly', 'Sopen01g046310' => 'spe', 'Sopen03g001200' => 'spe', 'Sopen04g004830' => 'spe', 'Sopen05g033720' => 'spe', 'Sopen06g030740' => 'spe', 'Sopen10g013090' => 'spe', 'Sopen10g027630' => 'spe', 'Sopen10g027640' => 'spe', 'Sopen11g002820' => 'spe', 'Sopen11g027140' => 'spe', 'Sp1g09680' => 'spa', 'Sp2g03630' => 'spa', 'Sp4g10320' => 'spa', 'Sp6g33400' => 'spa', 'Sp7g13030' => 'spa', 'TAR365G0317' => 'tar', 'TAR376G0979' => 'tar', 'TAR623G1665' => 'tar', 'TAR633G2373' => 'tar', 'TAR636G1400' => 'tar', 'THA.LOC104800529' => 'tha', 'THA.LOC104808547' => 'tha', 'THA.LOC104809615' => 'tha', 'THA.LOC104815724' => 'tha', 'THA.LOC104818480' => 'tha', 'THA.LOC104819179' => 'tha', 'THA.LOC104822270' => 'tha', 'THA.LOC104826425' => 'tha', 'Thecc.02G089700' => 'tca', 'Thecc.04G232300' => 'tca', 'Thecc.09G283400' => 'tca', 'Thhalv10009020m.g' => 'esa', 'Thhalv10015506m.g' => 'esa', 'Thhalv10017364m.g' => 'esa', 'Thhalv10023742m.g' => 'esa', 'Thhalv10026483m.g' => 'esa', 'TPR.G17232' => 'tpr', 'TPR.G2133' => 'tpr', 'TPR.G2498' => 'tpr', 'TPR.G31942' => 'tpr', 'TPR.G37877' => 'tpr', 'TPR.G4571' => 'tpr', 'TWI14G1113' => 'twi', 'TWI15G0426' => 'twi', 'TWI31G1005' => 'twi', 'TWI38G0513' => 'twi', 'TWI38G1484' => 'twi', 'TWI73G1098' => 'twi', 'unitig_26.g10519' => 'ugi', 'unitig_736.g22395' => 'ugi', 'unitig_747.g21234' => 'ugi', 'unitig_747.g21942' => 'ugi', 'vmacro14351' => 'vma', 'VMungo0540G0082' => 'vmu', 'VMungo0540G0405' => 'vmu', 'VMungo0540G1486' => 'vmu', 'VMungo0540G1692' => 'vmu', 'VMungo0720G2473' => 'vmu', 'VMungo1127G1562' => 'vmu', 'VMungo1215G1918' => 'vmu', 'Zm00001eb052650' => 'zma', 'Zm00001eb063710' => 'zma', 'Zm00001eb083950' => 'zma', 'Zm00001eb174420' => 'zma', 'Zm00001eb260140' => 'zma', 'Zm00001eb260150' => 'zma', 'Zm00001eb260160' => 'zma', 'Zm00001eb348290' => 'zma', 'Zm00001eb366870' => 'zma', 'Zm00001eb421930' => 'zma' ), 'gf_id' => 'HOM05D001025', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001025' ), 'data_identifier' => 'HOM05D001025', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001025', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '592', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p22650' => 'bna', 'A01p29720' => 'bna', 'A03p26560' => 'bna', 'A03p68820' => 'bna', 'A04p20980' => 'bna', 'A06p07730' => 'bna', 'A07p18260' => 'bna', 'A08p33710' => 'bna', 'A09p16970' => 'bna', 'A10p27490' => 'bna', 'Aa31LG1G17300' => 'aar', 'Aa31LG1G3910' => 'aar', 'Aa31LG2G9630' => 'aar', 'Aa31LG5G8360' => 'aar', 'Aa31LG9G2410' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4699' => 'aag', 'Actinidia23512' => 'ach', 'Actinidia37080' => 'ach', 'Ah.01g020380' => 'amhyb', 'Ah.08g215710' => 'amhyb', 'Ah.09g225110' => 'amhyb', 'Ah.10g036680' => 'amhyb', 'AL1G21940' => 'aly', 'AL2G15540' => 'aly', 'AL4G21520' => 'aly', 'AL7G40960' => 'aly', 'Aqoxy2G01191' => 'aox', 'Aqoxy2G03393' => 'aox', 'Aqoxy4G02775' => 'aox', 'Aqoxy6G00058' => 'aox', 'arahy.Tifrunner.gnm1.ann1.9X74H2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CW3FX9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R485W7' => 'arhy', 'AT1G10960' => 'ath', 'AT1G60950' => 'ath', 'AT2G27510' => 'ath', 'AT4G14890' => 'ath', 'AT5G10000' => 'ath', 'ATR0665G624' => 'atr', 'ATR0697G138' => 'atr', 'ATR0776G046' => 'atr', 'ATR1134G135' => 'atr', 'Atru.chr12.1025' => 'acertr', 'Atru.chr3.3241' => 'acertr', 'Atru.chr4.2460' => 'acertr', 'AUR62007427' => 'cqu', 'AUR62010960' => 'cqu', 'AUR62012201' => 'cqu', 'AUR62021470' => 'cqu', 'AUR62022834' => 'cqu', 'AUR62033635' => 'cqu', 'AUR62036186' => 'cqu', 'BcaB01g03077' => 'bca', 'BcaB02g10093' => 'bca', 'BcaB04g20295' => 'bca', 'BcaB06g28147' => 'bca', 'BcaB07g31253' => 'bca', 'BcaC01g04946' => 'bca', 'BcaC02g10614' => 'bca', 'BcaC02g10885' => 'bca', 'BcaC04g19356' => 'bca', 'BcaC04g22297' => 'bca', 'BcaC05g24977' => 'bca', 'BcaC06g31823' => 'bca', 'BcaC07g38633' => 'bca', 'BcaC09g49353' => 'bca', 'BcaC09g50168' => 'bca', 'BcaNung00322' => 'bca', 'BcaNung04769' => 'bca', 'BolC1t02753H' => 'bol', 'BolC1t03721H' => 'bol', 'BolC3t15525H' => 'bol', 'BolC4t23903H' => 'bol', 'BolC4t24231H' => 'bol', 'BolC4t27209H' => 'bol', 'BolC5t29671H' => 'bol', 'BolC8t49044H' => 'bol', 'BolC9t54999H' => 'bol', 'BolC9t59517H' => 'bol', 'BraA01t02178Z' => 'bra', 'BraA01t03099Z' => 'bra', 'BraA03t11867Z' => 'bra', 'BraA04t17667Z' => 'bra', 'BraA07t29542Z' => 'bra', 'BraA08t35287Z' => 'bra', 'BraA09t37334Z' => 'bra', 'BraA10t44801Z' => 'bra', 'BraSC39t46181Z' => 'bra', 'C01p28240' => 'bna', 'C01p37530' => 'bna', 'C03p31820' => 'bna', 'C04p24080' => 'bna', 'C04p25790' => 'bna', 'C04p56770' => 'bna', 'C05p09310' => 'bna', 'C09p21010' => 'bna', 'C09p67560' => 'bna', 'CAN.G1324.7' => 'can', 'CAN.G1358.10' => 'can', 'CAN.G1550.2' => 'can', 'CAN.G186.56' => 'can', 'CAN.G1965.1' => 'can', 'CAN.G645.15' => 'can', 'CAN.G798.26' => 'can', 'CAN.G798.27' => 'can', 'CAN.G798.29' => 'can', 'CAN.G919.31' => 'can', 'CANSAT11G0133' => 'cansat', 'CANSAT11G1171' => 'cansat', 'CANSAT11G2056' => 'cansat', 'CANSAT56G1202' => 'cansat', 'CANSAT56G1514' => 'cansat', 'CANSAT78G0455' => 'cansat', 'CARHR011190' => 'chi', 'CARHR051980' => 'chi', 'CARHR120170' => 'chi', 'CARHR203310' => 'chi', 'CARHR221490' => 'chi', 'Carub.0001s1054' => 'cru', 'Carub.0002s0431' => 'cru', 'Carub.0004s0818' => 'cru', 'Carub.0006s0846' => 'cru', 'Carub.0007s2722' => 'cru', 'Ca_00058_v3' => 'car', 'Ca_17831_v3' => 'car', 'Ca_19408_v3' => 'car', 'Ca_24397_v3' => 'car', 'Ca_25664_v3' => 'car', 'CBR_g21818' => 'cbr', 'CBR_g31195' => 'cbr', 'CBR_g32282' => 'cbr', 'CBR_g39599' => 'cbr', 'CBR_g49410' => 'cbr', 'Cc01_g09120' => 'ccan', 'Cc01_g09130' => 'ccan', 'Cc02_g09630' => 'ccan', 'Cc02_g22810' => 'ccan', 'Cc03_g03810' => 'ccan', 'CDE02G3718' => 'cde', 'CDE04G3183' => 'cde', 'CDE07G1046' => 'cde', 'CDE08G0480' => 'cde', 'Cfa005493' => 'cfa', 'Cfa010312' => 'cfa', 'Cfa015648' => 'cfa', 'Ciclev10002793m.g' => 'ccl', 'Ciclev10003356m.g' => 'ccl', 'Ciclev10006141m.g' => 'ccl', 'Ciclev10016676m.g' => 'ccl', 'Ciclev10017081m.g' => 'ccl', 'Ciclev10029499m.g' => 'ccl', 'CiPaw.01G166300' => 'cil', 'CiPaw.06G145600' => 'cil', 'CiPaw.13G040100' => 'cil', 'CiPaw.13G135800' => 'cil', 'ClCG01G012230' => 'cla', 'ClCG05G009510' => 'cla', 'ClCG08G008270' => 'cla', 'COL.COLO4_11763' => 'col', 'COL.COLO4_19876' => 'col', 'COL.COLO4_21481' => 'col', 'Cpa.g.sc118.34' => 'cpa', 'Cpa.g.sc32.13' => 'cpa', 'Cpa.g.sc58.103' => 'cpa', 'Cre03.g183850' => 'cre', 'Cre06.g306350' => 'cre', 'Cre07.g334800' => 'cre', 'Cre12.g487900' => 'cre', 'Cre14.g626700' => 'cre', 'Cre16.g658400' => 'cre', 'Cre17.g700950' => 'cre', 'CsaV3_1G014830' => 'csa', 'CsaV3_3G013320' => 'csa', 'CsaV3_3G019210' => 'csa', 'CsaV3_3G019220' => 'csa', 'CsaV3_6G004230' => 'csa', 'CSS0003773' => 'camsi', 'CSS0004563' => 'camsi', 'CSS0013949' => 'camsi', 'CSS0025971' => 'camsi', 'CSS0028570' => 'camsi', 'CSS0033127' => 'camsi', 'CSS0036051' => 'camsi', 'CSS0040087' => 'camsi', 'CSS0043179' => 'camsi', 'DCAR_006161' => 'dca', 'DCAR_010351' => 'dca', 'DCAR_012197' => 'dca', 'DCAR_024162' => 'dca', 'Dinv01030' => 'din', 'Dinv10924' => 'din', 'Dinv11835' => 'din', 'Dinv22841' => 'din', 'Dinv42553' => 'din', 'Duzib052G0560' => 'dzi', 'Duzib132G0389' => 'dzi', 'Duzib150G1181' => 'dzi', 'Duzib168G0623' => 'dzi', 'Duzib170G1036' => 'dzi', 'Duzib212G0200' => 'dzi', 'Duzib248G0194' => 'dzi', 'ECA232G2193' => 'eca', 'ECA233G0302' => 'eca', 'ECA234G2813' => 'eca', 'ECA234G4866' => 'eca', 'ECA240G3932' => 'eca', 'ECA248G0385' => 'eca', 'EL10Ac2g04781' => 'bvu', 'EL10Ac3g06445' => 'bvu', 'EL10Ac7g15825' => 'bvu', 'EL10Ac8g18550' => 'bvu', 'Eucgr.B03849' => 'egr', 'Eucgr.I02744' => 'egr', 'Eucgr.J00264' => 'egr', 'Eucgr.J00493' => 'egr', 'FAN04G2181' => 'fan', 'FAN07G2666' => 'fan', 'FAN11G0024' => 'fan', 'FAN12G1105' => 'fan', 'FAN13G0302' => 'fan', 'FAN15G2781' => 'fan', 'FAN16G1274' => 'fan', 'FAN17G2988' => 'fan', 'FAN18G2621' => 'fan', 'FAN21G0013' => 'fan', 'FAN22G1211' => 'fan', 'FAN25G3626' => 'fan', 'FvH4_2g09491' => 'fve', 'FvH4_3g24910' => 'fve', 'FvH4_4g15630' => 'fve', 'FvH4_5g28820' => 'fve', 'Glyma.01G238000' => 'gma', 'Glyma.05G168400' => 'gma', 'Glyma.08G126800' => 'gma', 'Glyma.08G188500' => 'gma', 'Glyma.10G278900' => 'gma', 'Glyma.11G005700' => 'gma', 'Glyma.11G183300' => 'gma', 'Glyma.12G089200' => 'gma', 'Glyma.12G169400' => 'gma', 'Glyma.12G169500' => 'gma', 'Glyma.12G169600' => 'gma', 'Glyma.20G110800' => 'gma', 'Gohir.A03G192900' => 'ghi', 'Gohir.A03G193000' => 'ghi', 'Gohir.A05G080700' => 'ghi', 'Gohir.A09G216000' => 'ghi', 'Gohir.A12G027700' => 'ghi', 'Gohir.A13G036200' => 'ghi', 'Gohir.A13G222600' => 'ghi', 'Gohir.D02G213900' => 'ghi', 'Gohir.D02G214000' => 'ghi', 'Gohir.D05G083700' => 'ghi', 'Gohir.D05G083800' => 'ghi', 'Gohir.D05G083850' => 'ghi', 'Gohir.D08G015400' => 'ghi', 'Gohir.D09G218400' => 'ghi', 'Gohir.D12G027100' => 'ghi', 'Gohir.D13G034500' => 'ghi', 'Gohir.D13G227400' => 'ghi', 'Gorai.005G241800' => 'gra', 'Gorai.005G241900' => 'gra', 'Gorai.006G239400' => 'gra', 'Gorai.008G027600' => 'gra', 'Gorai.009G085400' => 'gra', 'Gorai.009G085500' => 'gra', 'Gorai.013G039000' => 'gra', 'Gorai.013G194800' => 'gra', 'Gorai.013G257900' => 'gra', 'GSVIVG01000982001' => 'vvi', 'GSVIVG01017981001' => 'vvi', 'HanXRQChr01g0024061' => 'han', 'HanXRQChr09g0247831' => 'han', 'HanXRQChr10g0294611' => 'han', 'HanXRQChr10g0294621' => 'han', 'HanXRQChr11g0346821' => 'han', 'HanXRQChr13g0397461' => 'han', 'HanXRQChr16g0513651' => 'han', 'HanXRQChr16g0513701' => 'han', 'Haze_00897' => 'cav', 'Haze_01745' => 'cav', 'Haze_02486' => 'cav', 'Haze_02487' => 'cav', 'Haze_23374' => 'cav', 'Hma1.2p1_0578F.1_g182520' => 'hma', 'Hma1.2p1_0602F.1_g187350' => 'hma', 'Hma1.2p1_0602F.1_g187360' => 'hma', 'Hma1.2p1_0874F.1_g231320' => 'hma', 'Hma1.2p1_1197F.1_g266210' => 'hma', 'Hma1.2p1_1197F.1_g266220' => 'hma', 'Hma1.2p1_2167F.1_g315895' => 'hma', 'Hma1.2p1_2190F.1_g316640' => 'hma', 'Hma1.2p1_3645F.1_g337153' => 'hma', 'HPP92_004907' => 'vpl', 'HPP92_012134' => 'vpl', 'HPP92_025136' => 'vpl', 'HPP92_026087' => 'vpl', 'Hund06782' => 'sun', 'Hund06784' => 'sun', 'Lalb_Chr01g0004861' => 'lal', 'Lalb_Chr02g0140591' => 'lal', 'Lalb_Chr02g0140611' => 'lal', 'Lalb_Chr03g0028101' => 'lal', 'Lalb_Chr07g0185791' => 'lal', 'Lalb_Chr12g0204491' => 'lal', 'Lalb_Chr13g0295671' => 'lal', 'Lalb_Chr19g0136461' => 'lal', 'Lalb_Chr21g0309191' => 'lal', 'Lj1g0028158' => 'lja', 'Lj1P236T38' => 'lonja', 'Lj2C32G2' => 'lonja', 'Lj2P944T8' => 'lonja', 'Lj2P963T15' => 'lonja', 'Lj3g0011788' => 'lja', 'Lj4g0025027' => 'lja', 'Lj5P255T36' => 'lonja', 'Lj6g0018866' => 'lja', 'Lj6P608T31' => 'lonja', 'LjContig00408g0008879' => 'lja', 'Lsat_1_v5_gn_5_105820' => 'lsa', 'Lsat_1_v5_gn_6_38800' => 'lsa', 'Lsat_1_v5_gn_7_67141' => 'lsa', 'Manes.04G003400' => 'mes', 'Manes.07G020000' => 'mes', 'Manes.07G020100' => 'mes', 'Manes.07G020150' => 'mes', 'Manes.10G061500' => 'mes', 'Manes.10G123200' => 'mes', 'Manes.11G161900' => 'mes', 'Manes.15G029300' => 'mes', 'Mapoly0071s0018' => 'mpo', 'Mapoly0082s0023' => 'mpo', 'Mapoly3477s0001' => 'mpo', 'MBI05_g31233_MAGBIO' => 'mbi', 'MBI09_g05946_MAGBIO' => 'mbi', 'MBI09_g05947_MAGBIO' => 'mbi', 'MBI17_g08346_MAGBIO' => 'mbi', 'MCO04G038' => 'mco', 'MCO09G370' => 'mco', 'MCO13G605' => 'mco', 'MD00G1075500' => 'mdo', 'MD03G1144300' => 'mdo', 'MD08G1236800' => 'mdo', 'MD13G1193300' => 'mdo', 'MD15G1428700' => 'mdo', 'Medtr1g112030' => 'mtr', 'Medtr1g112050' => 'mtr', 'Medtr2g006290' => 'mtr', 'Medtr2g086510' => 'mtr', 'Medtr4g053120' => 'mtr', 'Medtr5g006320' => 'mtr', 'Medtr8g088720' => 'mtr', 'MELO3C004712.2' => 'cme', 'MELO3C006533.2' => 'cme', 'MELO3C019438.2' => 'cme', 'MELO3C019440.2' => 'cme', 'MELO3C019441.2' => 'cme', 'MELO3C019895.2' => 'cme', 'Migut.B00811' => 'egut', 'Migut.D02447' => 'egut', 'Migut.F00875' => 'egut', 'Migut.N00186' => 'egut', 'Migut.N01051' => 'egut', 'Migut.N02491' => 'egut', 'Migut.O00784' => 'egut', 'MSTRG.12367' => 'ama', 'MSTRG.18756' => 'ama', 'MSTRG.21042' => 'ama', 'Nitab4.5_0000559g0040' => 'nta', 'Nitab4.5_0000667g0190' => 'nta', 'Nitab4.5_0000755g0160' => 'nta', 'Nitab4.5_0001216g0080' => 'nta', 'Nitab4.5_0004069g0040' => 'nta', 'Nitab4.5_0004129g0010' => 'nta', 'Nitab4.5_0005744g0030' => 'nta', 'Nitab4.5_0006996g0030' => 'nta', 'Nitab4.5_0008971g0040' => 'nta', 'Nitab4.5_0009769g0020' => 'nta', 'Nitab4.5_0009833g0010' => 'nta', 'Nitab4.5_0013140g0020' => 'nta', 'Nn003s41376' => 'nnu', 'Nn1g01857' => 'nnu', 'Nn1g03611' => 'nnu', 'Nn1g06853' => 'nnu', 'Nn3g18360' => 'nnu', 'Nn4g26328' => 'nnu', 'Nn5g27531' => 'nnu', 'Nn6g34899' => 'nnu', 'Nn7g36299' => 'nnu', 'Oeu021485.1' => 'oeu', 'Oeu022433.1' => 'oeu', 'Oeu032111.1' => 'oeu', 'Oeu051608.1' => 'oeu', 'Os01g0860601' => 'osa', 'Os03g0659200' => 'osa', 'Os03g0835900' => 'osa', 'Os04g0412200' => 'osa', 'Os05g0443500' => 'osa', 'Os07g0251500' => 'osa', 'Os08g0104600' => 'osa', 'Peaxi162Scf00003g00047' => 'pax', 'Peaxi162Scf00003g00052' => 'pax', 'Peaxi162Scf00003g00394' => 'pax', 'Peaxi162Scf00091g00621' => 'pax', 'Peaxi162Scf00152g00146' => 'pax', 'Peaxi162Scf00173g00025' => 'pax', 'Peaxi162Scf00195g00102' => 'pax', 'Peaxi162Scf00402g00013' => 'pax', 'Peaxi162Scf00519g00618' => 'pax', 'PGR004G2838' => 'pgr', 'PGR044G2275' => 'pgr', 'PGR102G1377' => 'pgr', 'PGR119G1245' => 'pgr', 'PGR142G4449' => 'pgr', 'PGSC0003DMG400004532' => 'stu', 'PGSC0003DMG400011950' => 'stu', 'PGSC0003DMG400023391' => 'stu', 'PGSC0003DMG400023985' => 'stu', 'PGSC0003DMG400026360' => 'stu', 'PGSC0003DMG400035711' => 'stu', 'PGSC0003DMG400037286' => 'stu', 'PGSC0003DMG402005881' => 'stu', 'Phvul.002G045400' => 'pvu', 'Phvul.006G216600' => 'pvu', 'Phvul.006G216700' => 'pvu', 'Phvul.006G216800' => 'pvu', 'Phvul.007G022500' => 'pvu', 'Phvul.011G094400' => 'pvu', 'Potri.001G470700' => 'ptr', 'Potri.003G015200' => 'ptr', 'Potri.004G202500' => 'ptr', 'Potri.004G218400' => 'ptr', 'Potri.008G020100' => 'ptr', 'Potri.008G153200' => 'ptr', 'Potri.009G163800' => 'ptr', 'Potri.010G087300' => 'ptr', 'Potri.010G239100' => 'ptr', 'Pp3c10_16100' => 'ppa', 'Pp3c10_16880' => 'ppa', 'Pp3c16_6230' => 'ppa', 'Pp3c17_18910' => 'ppa', 'Pp3c3_22119' => 'ppa', 'Pp3c3_22140' => 'ppa', 'Pp3c4_8159' => 'ppa', 'Pp3c4_8171' => 'ppa', 'Pp3c4_8330' => 'ppa', 'PRCOL_00004098' => 'pco', 'Prupe.1G013900' => 'ppe', 'Prupe.1G226300' => 'ppe', 'Prupe.1G573600' => 'ppe', 'Prupe.6G130100' => 'ppe', 'Psat3g090040' => 'psa', 'Psat4g210440' => 'psa', 'Psat6g231040' => 'psa', 'Psat6g231080' => 'psa', 'Psat7g063000' => 'psa', 'Psat7g188000' => 'psa', 'Psat7g188040' => 'psa', 'PSO017G0206' => 'pso', 'PSO170G0501' => 'pso', 'PSO170G6422' => 'pso', 'PSO210G7739' => 'pso', 'PSO339G1808' => 'pso', 'PSO339G6135' => 'pso', 'PSO384G0010' => 'pso', 'PSO384G0964' => 'pso', 'PSO761G0050' => 'pso', 'PSO782G4085' => 'pso', 'QL01p012264' => 'qlo', 'QL02p099491' => 'qlo', 'QL03p033868' => 'qlo', 'QL04p046678' => 'qlo', 'QL06p002448' => 'qlo', 'RcHm_v2.0_Chr4g0416181' => 'rch', 'RcHm_v2.0_Chr5g0044701' => 'rch', 'RcHm_v2.0_Chr6g0265781' => 'rch', 'RcHm_v2.0_Chr7g0221031' => 'rch', 'Rhsim04G0202000' => 'rsi', 'Rhsim11G0127300' => 'rsi', 'Rhsim13G0111800' => 'rsi', 'Sabra01G0165600' => 'sbr', 'Sabra03G0008300' => 'sbr', 'Sabra04G0136900' => 'sbr', 'Sabra08G0013400' => 'sbr', 'Sabra08G0116800' => 'sbr', 'Sabra09G0128000' => 'sbr', 'Sabra10G0055500' => 'sbr', 'Sabra10G0073300' => 'sbr', 'SalBow3G0385' => 'sbo', 'SalBow3G1119' => 'sbo', 'SalBow3G2005' => 'sbo', 'SalBow6G2563' => 'sbo', 'SalBow6G6386' => 'sbo', 'Sc06g0008800' => 'sci', 'Sc07g0004950' => 'sci', 'Sc09g0005340' => 'sci', 'Sc13g0004410' => 'sci', 'Sc21g0007090' => 'sci', 'Sed0009285' => 'sed', 'Sed0017583' => 'sed', 'Sed0019699' => 'sed', 'Sed0023107' => 'sed', 'SEGI_10916' => 'sgi', 'SEGI_16217' => 'sgi', 'SEGI_19466' => 'sgi', 'SEGI_41115' => 'sgi', 'SGA_v2.0_scaffold111G31534' => 'sas', 'SGA_v2.0_scaffold22G09864' => 'sas', 'SGA_v2.0_scaffold338G49219' => 'sas', 'SGA_v2.0_scaffold92G28298' => 'sas', 'SMO119G0064' => 'smo', 'SMO223G0038' => 'smo', 'SMO347G0584' => 'smo', 'SMO351G0010' => 'smo', 'SMO356G0404' => 'smo', 'Solyc01g103920.3' => 'sly', 'Solyc04g009710.2' => 'sly', 'Solyc05g055280.2' => 'sly', 'Solyc10g044520.3' => 'sly', 'Solyc10g075160.1' => 'sly', 'Solyc11g006910.3' => 'sly', 'Solyc11g068430.3' => 'sly', 'Sopen01g046310' => 'spe', 'Sopen03g001200' => 'spe', 'Sopen04g004830' => 'spe', 'Sopen05g033720' => 'spe', 'Sopen06g030740' => 'spe', 'Sopen10g013090' => 'spe', 'Sopen10g027630' => 'spe', 'Sopen10g027640' => 'spe', 'Sopen11g002820' => 'spe', 'Sopen11g027140' => 'spe', 'Sp1g09680' => 'spa', 'Sp2g03630' => 'spa', 'Sp4g10320' => 'spa', 'Sp6g33400' => 'spa', 'Sp7g13030' => 'spa', 'TAR365G0317' => 'tar', 'TAR376G0979' => 'tar', 'TAR623G1665' => 'tar', 'TAR633G2373' => 'tar', 'TAR636G1400' => 'tar', 'THA.LOC104800529' => 'tha', 'THA.LOC104808547' => 'tha', 'THA.LOC104809615' => 'tha', 'THA.LOC104815724' => 'tha', 'THA.LOC104818480' => 'tha', 'THA.LOC104819179' => 'tha', 'THA.LOC104822270' => 'tha', 'THA.LOC104826425' => 'tha', 'Thecc.02G089700' => 'tca', 'Thecc.04G232300' => 'tca', 'Thecc.09G283400' => 'tca', 'Thhalv10009020m.g' => 'esa', 'Thhalv10015506m.g' => 'esa', 'Thhalv10017364m.g' => 'esa', 'Thhalv10023742m.g' => 'esa', 'Thhalv10026483m.g' => 'esa', 'TPR.G17232' => 'tpr', 'TPR.G2133' => 'tpr', 'TPR.G2498' => 'tpr', 'TPR.G31942' => 'tpr', 'TPR.G37877' => 'tpr', 'TPR.G4571' => 'tpr', 'TWI14G1113' => 'twi', 'TWI15G0426' => 'twi', 'TWI31G1005' => 'twi', 'TWI38G0513' => 'twi', 'TWI38G1484' => 'twi', 'TWI73G1098' => 'twi', 'unitig_26.g10519' => 'ugi', 'unitig_736.g22395' => 'ugi', 'unitig_747.g21234' => 'ugi', 'unitig_747.g21942' => 'ugi', 'vmacro14351' => 'vma', 'VMungo0540G0082' => 'vmu', 'VMungo0540G0405' => 'vmu', 'VMungo0540G1486' => 'vmu', 'VMungo0540G1692' => 'vmu', 'VMungo0720G2473' => 'vmu', 'VMungo1127G1562' => 'vmu', 'VMungo1215G1918' => 'vmu', 'Zm00001eb052650' => 'zma', 'Zm00001eb063710' => 'zma', 'Zm00001eb083950' => 'zma', 'Zm00001eb174420' => 'zma', 'Zm00001eb260140' => 'zma', 'Zm00001eb260150' => 'zma', 'Zm00001eb260160' => 'zma', 'Zm00001eb348290' => 'zma', 'Zm00001eb366870' => 'zma', 'Zm00001eb421930' => 'zma' ) $gf_id = 'HOM05D001025' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001025' ) $data_identifier = 'HOM05D001025' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 19, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 2, 'amhyb' => (int) 4, 'aly' => (int) 4, 'aox' => (int) 4, 'arhy' => (int) 3, 'ath' => (int) 5, 'atr' => (int) 4, 'acertr' => (int) 3, 'cqu' => (int) 7, 'bca' => (int) 17, 'bol' => (int) 10, 'bra' => (int) 9, 'can' => (int) 10, 'cansat' => (int) 6, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 5, 'cbr' => (int) 5, 'ccan' => (int) 5, 'cde' => (int) 4, 'cfa' => (int) 3, 'ccl' => (int) 6, 'cil' => (int) 4, 'cla' => (int) 3, 'col' => (int) 3, 'cpa' => (int) 3, 'cre' => (int) 7, 'csa' => (int) 5, 'camsi' => (int) 9, 'dca' => (int) 4, 'din' => (int) 5, 'dzi' => (int) 7, 'eca' => (int) 6, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 12, 'fve' => (int) 4, 'gma' => (int) 12, 'ghi' => (int) 17, 'gra' => (int) 9, 'vvi' => (int) 2, 'han' => (int) 8, 'cav' => (int) 5, 'hma' => (int) 9, 'vpl' => (int) 4, 'sun' => (int) 2, 'lal' => (int) 9, 'lja' => (int) 5, 'lonja' => (int) 6, 'lsa' => (int) 3, 'mes' => (int) 8, 'mpo' => (int) 3, 'mbi' => (int) 4, 'mco' => (int) 3, 'mdo' => (int) 5, 'mtr' => (int) 7, 'cme' => (int) 6, 'egut' => (int) 7, 'ama' => (int) 3, 'nta' => (int) 12, 'nnu' => (int) 9, 'oeu' => (int) 4, 'osa' => (int) 7, 'pax' => (int) 9, 'pgr' => (int) 5, 'stu' => (int) 8, 'pvu' => (int) 6, 'ptr' => (int) 9, 'ppa' => (int) 9, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 7, 'pso' => (int) 10, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 3, 'sbr' => (int) 8, 'sbo' => (int) 5, 'sci' => (int) 5, 'sed' => (int) 4, 'sgi' => (int) 4, 'sas' => (int) 4, 'smo' => (int) 5, 'sly' => (int) 7, 'spe' => (int) 10, 'spa' => (int) 5, 'tar' => (int) 5, 'tha' => (int) 8, 'tca' => (int) 3, 'esa' => (int) 5, 'tpr' => (int) 6, 'twi' => (int) 6, 'ugi' => (int) 4, 'vma' => (int) 1, 'vmu' => (int) 7, 'zma' => (int) 10 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb421930' $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' => 'HOM05D001025', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '592', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p22650' => 'bna', 'A01p29720' => 'bna', 'A03p26560' => 'bna', 'A03p68820' => 'bna', 'A04p20980' => 'bna', 'A06p07730' => 'bna', 'A07p18260' => 'bna', 'A08p33710' => 'bna', 'A09p16970' => 'bna', 'A10p27490' => 'bna', 'Aa31LG1G17300' => 'aar', 'Aa31LG1G3910' => 'aar', 'Aa31LG2G9630' => 'aar', 'Aa31LG5G8360' => 'aar', 'Aa31LG9G2410' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4699' => 'aag', 'Actinidia23512' => 'ach', 'Actinidia37080' => 'ach', 'Ah.01g020380' => 'amhyb', 'Ah.08g215710' => 'amhyb', 'Ah.09g225110' => 'amhyb', 'Ah.10g036680' => 'amhyb', 'AL1G21940' => 'aly', 'AL2G15540' => 'aly', 'AL4G21520' => 'aly', 'AL7G40960' => 'aly', 'Aqoxy2G01191' => 'aox', 'Aqoxy2G03393' => 'aox', 'Aqoxy4G02775' => 'aox', 'Aqoxy6G00058' => 'aox', 'arahy.Tifrunner.gnm1.ann1.9X74H2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CW3FX9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R485W7' => 'arhy', 'AT1G10960' => 'ath', 'AT1G60950' => 'ath', 'AT2G27510' => 'ath', 'AT4G14890' => 'ath', 'AT5G10000' => 'ath', 'ATR0665G624' => 'atr', 'ATR0697G138' => 'atr', 'ATR0776G046' => 'atr', 'ATR1134G135' => 'atr', 'Atru.chr12.1025' => 'acertr', 'Atru.chr3.3241' => 'acertr', 'Atru.chr4.2460' => 'acertr', 'AUR62007427' => 'cqu', 'AUR62010960' => 'cqu', 'AUR62012201' => 'cqu', 'AUR62021470' => 'cqu', 'AUR62022834' => 'cqu', 'AUR62033635' => 'cqu', 'AUR62036186' => 'cqu', 'BcaB01g03077' => 'bca', 'BcaB02g10093' => 'bca', 'BcaB04g20295' => 'bca', 'BcaB06g28147' => 'bca', 'BcaB07g31253' => 'bca', 'BcaC01g04946' => 'bca', 'BcaC02g10614' => 'bca', 'BcaC02g10885' => 'bca', 'BcaC04g19356' => 'bca', 'BcaC04g22297' => 'bca', 'BcaC05g24977' => 'bca', 'BcaC06g31823' => 'bca', 'BcaC07g38633' => 'bca', 'BcaC09g49353' => 'bca', 'BcaC09g50168' => 'bca', 'BcaNung00322' => 'bca', 'BcaNung04769' => 'bca', 'BolC1t02753H' => 'bol', 'BolC1t03721H' => 'bol', 'BolC3t15525H' => 'bol', 'BolC4t23903H' => 'bol', 'BolC4t24231H' => 'bol', 'BolC4t27209H' => 'bol', 'BolC5t29671H' => 'bol', 'BolC8t49044H' => 'bol', 'BolC9t54999H' => 'bol', 'BolC9t59517H' => 'bol', 'BraA01t02178Z' => 'bra', 'BraA01t03099Z' => 'bra', 'BraA03t11867Z' => 'bra', 'BraA04t17667Z' => 'bra', 'BraA07t29542Z' => 'bra', 'BraA08t35287Z' => 'bra', 'BraA09t37334Z' => 'bra', 'BraA10t44801Z' => 'bra', 'BraSC39t46181Z' => 'bra', 'C01p28240' => 'bna', 'C01p37530' => 'bna', 'C03p31820' => 'bna', 'C04p24080' => 'bna', 'C04p25790' => 'bna', 'C04p56770' => 'bna', 'C05p09310' => 'bna', 'C09p21010' => 'bna', 'C09p67560' => 'bna', 'CAN.G1324.7' => 'can', 'CAN.G1358.10' => 'can', 'CAN.G1550.2' => 'can', 'CAN.G186.56' => 'can', 'CAN.G1965.1' => 'can', 'CAN.G645.15' => 'can', 'CAN.G798.26' => 'can', 'CAN.G798.27' => 'can', 'CAN.G798.29' => 'can', 'CAN.G919.31' => 'can', 'CANSAT11G0133' => 'cansat', 'CANSAT11G1171' => 'cansat', 'CANSAT11G2056' => 'cansat', 'CANSAT56G1202' => 'cansat', 'CANSAT56G1514' => 'cansat', 'CANSAT78G0455' => 'cansat', 'CARHR011190' => 'chi', 'CARHR051980' => 'chi', 'CARHR120170' => 'chi', 'CARHR203310' => 'chi', 'CARHR221490' => 'chi', 'Carub.0001s1054' => 'cru', 'Carub.0002s0431' => 'cru', 'Carub.0004s0818' => 'cru', 'Carub.0006s0846' => 'cru', 'Carub.0007s2722' => 'cru', 'Ca_00058_v3' => 'car', 'Ca_17831_v3' => 'car', 'Ca_19408_v3' => 'car', 'Ca_24397_v3' => 'car', 'Ca_25664_v3' => 'car', 'CBR_g21818' => 'cbr', 'CBR_g31195' => 'cbr', 'CBR_g32282' => 'cbr', 'CBR_g39599' => 'cbr', 'CBR_g49410' => 'cbr', 'Cc01_g09120' => 'ccan', 'Cc01_g09130' => 'ccan', 'Cc02_g09630' => 'ccan', 'Cc02_g22810' => 'ccan', 'Cc03_g03810' => 'ccan', 'CDE02G3718' => 'cde', 'CDE04G3183' => 'cde', 'CDE07G1046' => 'cde', 'CDE08G0480' => 'cde', 'Cfa005493' => 'cfa', 'Cfa010312' => 'cfa', 'Cfa015648' => 'cfa', 'Ciclev10002793m.g' => 'ccl', 'Ciclev10003356m.g' => 'ccl', 'Ciclev10006141m.g' => 'ccl', 'Ciclev10016676m.g' => 'ccl', 'Ciclev10017081m.g' => 'ccl', 'Ciclev10029499m.g' => 'ccl', 'CiPaw.01G166300' => 'cil', 'CiPaw.06G145600' => 'cil', 'CiPaw.13G040100' => 'cil', 'CiPaw.13G135800' => 'cil', 'ClCG01G012230' => 'cla', 'ClCG05G009510' => 'cla', 'ClCG08G008270' => 'cla', 'COL.COLO4_11763' => 'col', 'COL.COLO4_19876' => 'col', 'COL.COLO4_21481' => 'col', 'Cpa.g.sc118.34' => 'cpa', 'Cpa.g.sc32.13' => 'cpa', 'Cpa.g.sc58.103' => 'cpa', 'Cre03.g183850' => 'cre', 'Cre06.g306350' => 'cre', 'Cre07.g334800' => 'cre', 'Cre12.g487900' => 'cre', 'Cre14.g626700' => 'cre', 'Cre16.g658400' => 'cre', 'Cre17.g700950' => 'cre', 'CsaV3_1G014830' => 'csa', 'CsaV3_3G013320' => 'csa', 'CsaV3_3G019210' => 'csa', 'CsaV3_3G019220' => 'csa', 'CsaV3_6G004230' => 'csa', 'CSS0003773' => 'camsi', 'CSS0004563' => 'camsi', 'CSS0013949' => 'camsi', 'CSS0025971' => 'camsi', 'CSS0028570' => 'camsi', 'CSS0033127' => 'camsi', 'CSS0036051' => 'camsi', 'CSS0040087' => 'camsi', 'CSS0043179' => 'camsi', 'DCAR_006161' => 'dca', 'DCAR_010351' => 'dca', 'DCAR_012197' => 'dca', 'DCAR_024162' => 'dca', 'Dinv01030' => 'din', 'Dinv10924' => 'din', 'Dinv11835' => 'din', 'Dinv22841' => 'din', 'Dinv42553' => 'din', 'Duzib052G0560' => 'dzi', 'Duzib132G0389' => 'dzi', 'Duzib150G1181' => 'dzi', 'Duzib168G0623' => 'dzi', 'Duzib170G1036' => 'dzi', 'Duzib212G0200' => 'dzi', 'Duzib248G0194' => 'dzi', 'ECA232G2193' => 'eca', 'ECA233G0302' => 'eca', 'ECA234G2813' => 'eca', 'ECA234G4866' => 'eca', 'ECA240G3932' => 'eca', 'ECA248G0385' => 'eca', 'EL10Ac2g04781' => 'bvu', 'EL10Ac3g06445' => 'bvu', 'EL10Ac7g15825' => 'bvu', 'EL10Ac8g18550' => 'bvu', 'Eucgr.B03849' => 'egr', 'Eucgr.I02744' => 'egr', 'Eucgr.J00264' => 'egr', 'Eucgr.J00493' => 'egr', 'FAN04G2181' => 'fan', 'FAN07G2666' => 'fan', 'FAN11G0024' => 'fan', 'FAN12G1105' => 'fan', 'FAN13G0302' => 'fan', 'FAN15G2781' => 'fan', 'FAN16G1274' => 'fan', 'FAN17G2988' => 'fan', 'FAN18G2621' => 'fan', 'FAN21G0013' => 'fan', 'FAN22G1211' => 'fan', 'FAN25G3626' => 'fan', 'FvH4_2g09491' => 'fve', 'FvH4_3g24910' => 'fve', 'FvH4_4g15630' => 'fve', 'FvH4_5g28820' => 'fve', 'Glyma.01G238000' => 'gma', 'Glyma.05G168400' => 'gma', 'Glyma.08G126800' => 'gma', 'Glyma.08G188500' => 'gma', 'Glyma.10G278900' => 'gma', 'Glyma.11G005700' => 'gma', 'Glyma.11G183300' => 'gma', 'Glyma.12G089200' => 'gma', 'Glyma.12G169400' => 'gma', 'Glyma.12G169500' => 'gma', 'Glyma.12G169600' => 'gma', 'Glyma.20G110800' => 'gma', 'Gohir.A03G192900' => 'ghi', 'Gohir.A03G193000' => 'ghi', 'Gohir.A05G080700' => 'ghi', 'Gohir.A09G216000' => 'ghi', 'Gohir.A12G027700' => 'ghi', 'Gohir.A13G036200' => 'ghi', 'Gohir.A13G222600' => 'ghi', 'Gohir.D02G213900' => 'ghi', 'Gohir.D02G214000' => 'ghi', 'Gohir.D05G083700' => 'ghi', 'Gohir.D05G083800' => 'ghi', 'Gohir.D05G083850' => 'ghi', 'Gohir.D08G015400' => 'ghi', 'Gohir.D09G218400' => 'ghi', 'Gohir.D12G027100' => 'ghi', 'Gohir.D13G034500' => 'ghi', 'Gohir.D13G227400' => 'ghi', 'Gorai.005G241800' => 'gra', 'Gorai.005G241900' => 'gra', 'Gorai.006G239400' => 'gra', 'Gorai.008G027600' => 'gra', 'Gorai.009G085400' => 'gra', 'Gorai.009G085500' => 'gra', 'Gorai.013G039000' => 'gra', 'Gorai.013G194800' => 'gra', 'Gorai.013G257900' => 'gra', 'GSVIVG01000982001' => 'vvi', 'GSVIVG01017981001' => 'vvi', 'HanXRQChr01g0024061' => 'han', 'HanXRQChr09g0247831' => 'han', 'HanXRQChr10g0294611' => 'han', 'HanXRQChr10g0294621' => 'han', 'HanXRQChr11g0346821' => 'han', 'HanXRQChr13g0397461' => 'han', 'HanXRQChr16g0513651' => 'han', 'HanXRQChr16g0513701' => 'han', 'Haze_00897' => 'cav', 'Haze_01745' => 'cav', 'Haze_02486' => 'cav', 'Haze_02487' => 'cav', 'Haze_23374' => 'cav', 'Hma1.2p1_0578F.1_g182520' => 'hma', 'Hma1.2p1_0602F.1_g187350' => 'hma', 'Hma1.2p1_0602F.1_g187360' => 'hma', 'Hma1.2p1_0874F.1_g231320' => 'hma', 'Hma1.2p1_1197F.1_g266210' => 'hma', 'Hma1.2p1_1197F.1_g266220' => 'hma', 'Hma1.2p1_2167F.1_g315895' => 'hma', 'Hma1.2p1_2190F.1_g316640' => 'hma', 'Hma1.2p1_3645F.1_g337153' => 'hma', 'HPP92_004907' => 'vpl', 'HPP92_012134' => 'vpl', 'HPP92_025136' => 'vpl', 'HPP92_026087' => 'vpl', 'Hund06782' => 'sun', 'Hund06784' => 'sun', 'Lalb_Chr01g0004861' => 'lal', 'Lalb_Chr02g0140591' => 'lal', 'Lalb_Chr02g0140611' => 'lal', 'Lalb_Chr03g0028101' => 'lal', 'Lalb_Chr07g0185791' => 'lal', 'Lalb_Chr12g0204491' => 'lal', 'Lalb_Chr13g0295671' => 'lal', 'Lalb_Chr19g0136461' => 'lal', 'Lalb_Chr21g0309191' => 'lal', 'Lj1g0028158' => 'lja', 'Lj1P236T38' => 'lonja', 'Lj2C32G2' => 'lonja', 'Lj2P944T8' => 'lonja', 'Lj2P963T15' => 'lonja', 'Lj3g0011788' => 'lja', 'Lj4g0025027' => 'lja', 'Lj5P255T36' => 'lonja', 'Lj6g0018866' => 'lja', 'Lj6P608T31' => 'lonja', 'LjContig00408g0008879' => 'lja', 'Lsat_1_v5_gn_5_105820' => 'lsa', 'Lsat_1_v5_gn_6_38800' => 'lsa', 'Lsat_1_v5_gn_7_67141' => 'lsa', 'Manes.04G003400' => 'mes', 'Manes.07G020000' => 'mes', 'Manes.07G020100' => 'mes', 'Manes.07G020150' => 'mes', 'Manes.10G061500' => 'mes', 'Manes.10G123200' => 'mes', 'Manes.11G161900' => 'mes', 'Manes.15G029300' => 'mes', 'Mapoly0071s0018' => 'mpo', 'Mapoly0082s0023' => 'mpo', 'Mapoly3477s0001' => 'mpo', 'MBI05_g31233_MAGBIO' => 'mbi', 'MBI09_g05946_MAGBIO' => 'mbi', 'MBI09_g05947_MAGBIO' => 'mbi', 'MBI17_g08346_MAGBIO' => 'mbi', 'MCO04G038' => 'mco', 'MCO09G370' => 'mco', 'MCO13G605' => 'mco', 'MD00G1075500' => 'mdo', 'MD03G1144300' => 'mdo', 'MD08G1236800' => 'mdo', 'MD13G1193300' => 'mdo', 'MD15G1428700' => 'mdo', 'Medtr1g112030' => 'mtr', 'Medtr1g112050' => 'mtr', 'Medtr2g006290' => 'mtr', 'Medtr2g086510' => 'mtr', 'Medtr4g053120' => 'mtr', 'Medtr5g006320' => 'mtr', 'Medtr8g088720' => 'mtr', 'MELO3C004712.2' => 'cme', 'MELO3C006533.2' => 'cme', 'MELO3C019438.2' => 'cme', 'MELO3C019440.2' => 'cme', 'MELO3C019441.2' => 'cme', 'MELO3C019895.2' => 'cme', 'Migut.B00811' => 'egut', 'Migut.D02447' => 'egut', 'Migut.F00875' => 'egut', 'Migut.N00186' => 'egut', 'Migut.N01051' => 'egut', 'Migut.N02491' => 'egut', 'Migut.O00784' => 'egut', 'MSTRG.12367' => 'ama', 'MSTRG.18756' => 'ama', 'MSTRG.21042' => 'ama', 'Nitab4.5_0000559g0040' => 'nta', 'Nitab4.5_0000667g0190' => 'nta', 'Nitab4.5_0000755g0160' => 'nta', 'Nitab4.5_0001216g0080' => 'nta', 'Nitab4.5_0004069g0040' => 'nta', 'Nitab4.5_0004129g0010' => 'nta', 'Nitab4.5_0005744g0030' => 'nta', 'Nitab4.5_0006996g0030' => 'nta', 'Nitab4.5_0008971g0040' => 'nta', 'Nitab4.5_0009769g0020' => 'nta', 'Nitab4.5_0009833g0010' => 'nta', 'Nitab4.5_0013140g0020' => 'nta', 'Nn003s41376' => 'nnu', 'Nn1g01857' => 'nnu', 'Nn1g03611' => 'nnu', 'Nn1g06853' => 'nnu', 'Nn3g18360' => 'nnu', 'Nn4g26328' => 'nnu', 'Nn5g27531' => 'nnu', 'Nn6g34899' => 'nnu', 'Nn7g36299' => 'nnu', 'Oeu021485.1' => 'oeu', 'Oeu022433.1' => 'oeu', 'Oeu032111.1' => 'oeu', 'Oeu051608.1' => 'oeu', 'Os01g0860601' => 'osa', 'Os03g0659200' => 'osa', 'Os03g0835900' => 'osa', 'Os04g0412200' => 'osa', 'Os05g0443500' => 'osa', 'Os07g0251500' => 'osa', 'Os08g0104600' => 'osa', 'Peaxi162Scf00003g00047' => 'pax', 'Peaxi162Scf00003g00052' => 'pax', 'Peaxi162Scf00003g00394' => 'pax', 'Peaxi162Scf00091g00621' => 'pax', 'Peaxi162Scf00152g00146' => 'pax', 'Peaxi162Scf00173g00025' => 'pax', 'Peaxi162Scf00195g00102' => 'pax', 'Peaxi162Scf00402g00013' => 'pax', 'Peaxi162Scf00519g00618' => 'pax', 'PGR004G2838' => 'pgr', 'PGR044G2275' => 'pgr', 'PGR102G1377' => 'pgr', 'PGR119G1245' => 'pgr', 'PGR142G4449' => 'pgr', 'PGSC0003DMG400004532' => 'stu', 'PGSC0003DMG400011950' => 'stu', 'PGSC0003DMG400023391' => 'stu', 'PGSC0003DMG400023985' => 'stu', 'PGSC0003DMG400026360' => 'stu', 'PGSC0003DMG400035711' => 'stu', 'PGSC0003DMG400037286' => 'stu', 'PGSC0003DMG402005881' => 'stu', 'Phvul.002G045400' => 'pvu', 'Phvul.006G216600' => 'pvu', 'Phvul.006G216700' => 'pvu', 'Phvul.006G216800' => 'pvu', 'Phvul.007G022500' => 'pvu', 'Phvul.011G094400' => 'pvu', 'Potri.001G470700' => 'ptr', 'Potri.003G015200' => 'ptr', 'Potri.004G202500' => 'ptr', 'Potri.004G218400' => 'ptr', 'Potri.008G020100' => 'ptr', 'Potri.008G153200' => 'ptr', 'Potri.009G163800' => 'ptr', 'Potri.010G087300' => 'ptr', 'Potri.010G239100' => 'ptr', 'Pp3c10_16100' => 'ppa', 'Pp3c10_16880' => 'ppa', 'Pp3c16_6230' => 'ppa', 'Pp3c17_18910' => 'ppa', 'Pp3c3_22119' => 'ppa', 'Pp3c3_22140' => 'ppa', 'Pp3c4_8159' => 'ppa', 'Pp3c4_8171' => 'ppa', 'Pp3c4_8330' => 'ppa', 'PRCOL_00004098' => 'pco', 'Prupe.1G013900' => 'ppe', 'Prupe.1G226300' => 'ppe', 'Prupe.1G573600' => 'ppe', 'Prupe.6G130100' => 'ppe', 'Psat3g090040' => 'psa', 'Psat4g210440' => 'psa', 'Psat6g231040' => 'psa', 'Psat6g231080' => 'psa', 'Psat7g063000' => 'psa', 'Psat7g188000' => 'psa', 'Psat7g188040' => 'psa', 'PSO017G0206' => 'pso', 'PSO170G0501' => 'pso', 'PSO170G6422' => 'pso', 'PSO210G7739' => 'pso', 'PSO339G1808' => 'pso', 'PSO339G6135' => 'pso', 'PSO384G0010' => 'pso', 'PSO384G0964' => 'pso', 'PSO761G0050' => 'pso', 'PSO782G4085' => 'pso', 'QL01p012264' => 'qlo', 'QL02p099491' => 'qlo', 'QL03p033868' => 'qlo', 'QL04p046678' => 'qlo', 'QL06p002448' => 'qlo', 'RcHm_v2.0_Chr4g0416181' => 'rch', 'RcHm_v2.0_Chr5g0044701' => 'rch', 'RcHm_v2.0_Chr6g0265781' => 'rch', 'RcHm_v2.0_Chr7g0221031' => 'rch', 'Rhsim04G0202000' => 'rsi', 'Rhsim11G0127300' => 'rsi', 'Rhsim13G0111800' => 'rsi', 'Sabra01G0165600' => 'sbr', 'Sabra03G0008300' => 'sbr', 'Sabra04G0136900' => 'sbr', 'Sabra08G0013400' => 'sbr', 'Sabra08G0116800' => 'sbr', 'Sabra09G0128000' => 'sbr', 'Sabra10G0055500' => 'sbr', 'Sabra10G0073300' => 'sbr', 'SalBow3G0385' => 'sbo', 'SalBow3G1119' => 'sbo', 'SalBow3G2005' => 'sbo', 'SalBow6G2563' => 'sbo', 'SalBow6G6386' => 'sbo', 'Sc06g0008800' => 'sci', 'Sc07g0004950' => 'sci', 'Sc09g0005340' => 'sci', 'Sc13g0004410' => 'sci', 'Sc21g0007090' => 'sci', 'Sed0009285' => 'sed', 'Sed0017583' => 'sed', 'Sed0019699' => 'sed', 'Sed0023107' => 'sed', 'SEGI_10916' => 'sgi', 'SEGI_16217' => 'sgi', 'SEGI_19466' => 'sgi', 'SEGI_41115' => 'sgi', 'SGA_v2.0_scaffold111G31534' => 'sas', 'SGA_v2.0_scaffold22G09864' => 'sas', 'SGA_v2.0_scaffold338G49219' => 'sas', 'SGA_v2.0_scaffold92G28298' => 'sas', 'SMO119G0064' => 'smo', 'SMO223G0038' => 'smo', 'SMO347G0584' => 'smo', 'SMO351G0010' => 'smo', 'SMO356G0404' => 'smo', 'Solyc01g103920.3' => 'sly', 'Solyc04g009710.2' => 'sly', 'Solyc05g055280.2' => 'sly', 'Solyc10g044520.3' => 'sly', 'Solyc10g075160.1' => 'sly', 'Solyc11g006910.3' => 'sly', 'Solyc11g068430.3' => 'sly', 'Sopen01g046310' => 'spe', 'Sopen03g001200' => 'spe', 'Sopen04g004830' => 'spe', 'Sopen05g033720' => 'spe', 'Sopen06g030740' => 'spe', 'Sopen10g013090' => 'spe', 'Sopen10g027630' => 'spe', 'Sopen10g027640' => 'spe', 'Sopen11g002820' => 'spe', 'Sopen11g027140' => 'spe', 'Sp1g09680' => 'spa', 'Sp2g03630' => 'spa', 'Sp4g10320' => 'spa', 'Sp6g33400' => 'spa', 'Sp7g13030' => 'spa', 'TAR365G0317' => 'tar', 'TAR376G0979' => 'tar', 'TAR623G1665' => 'tar', 'TAR633G2373' => 'tar', 'TAR636G1400' => 'tar', 'THA.LOC104800529' => 'tha', 'THA.LOC104808547' => 'tha', 'THA.LOC104809615' => 'tha', 'THA.LOC104815724' => 'tha', 'THA.LOC104818480' => 'tha', 'THA.LOC104819179' => 'tha', 'THA.LOC104822270' => 'tha', 'THA.LOC104826425' => 'tha', 'Thecc.02G089700' => 'tca', 'Thecc.04G232300' => 'tca', 'Thecc.09G283400' => 'tca', 'Thhalv10009020m.g' => 'esa', 'Thhalv10015506m.g' => 'esa', 'Thhalv10017364m.g' => 'esa', 'Thhalv10023742m.g' => 'esa', 'Thhalv10026483m.g' => 'esa', 'TPR.G17232' => 'tpr', 'TPR.G2133' => 'tpr', 'TPR.G2498' => 'tpr', 'TPR.G31942' => 'tpr', 'TPR.G37877' => 'tpr', 'TPR.G4571' => 'tpr', 'TWI14G1113' => 'twi', 'TWI15G0426' => 'twi', 'TWI31G1005' => 'twi', 'TWI38G0513' => 'twi', 'TWI38G1484' => 'twi', 'TWI73G1098' => 'twi', 'unitig_26.g10519' => 'ugi', 'unitig_736.g22395' => 'ugi', 'unitig_747.g21234' => 'ugi', 'unitig_747.g21942' => 'ugi', 'vmacro14351' => 'vma', 'VMungo0540G0082' => 'vmu', 'VMungo0540G0405' => 'vmu', 'VMungo0540G1486' => 'vmu', 'VMungo0540G1692' => 'vmu', 'VMungo0720G2473' => 'vmu', 'VMungo1127G1562' => 'vmu', 'VMungo1215G1918' => 'vmu', 'Zm00001eb052650' => 'zma', 'Zm00001eb063710' => 'zma', 'Zm00001eb083950' => 'zma', 'Zm00001eb174420' => 'zma', 'Zm00001eb260140' => 'zma', 'Zm00001eb260150' => 'zma', 'Zm00001eb260160' => 'zma', 'Zm00001eb348290' => 'zma', 'Zm00001eb366870' => 'zma', 'Zm00001eb421930' => 'zma' ), 'gf_id' => 'HOM05D001025', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001025' ), 'data_identifier' => 'HOM05D001025', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001025', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '592', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p22650' => 'bna', 'A01p29720' => 'bna', 'A03p26560' => 'bna', 'A03p68820' => 'bna', 'A04p20980' => 'bna', 'A06p07730' => 'bna', 'A07p18260' => 'bna', 'A08p33710' => 'bna', 'A09p16970' => 'bna', 'A10p27490' => 'bna', 'Aa31LG1G17300' => 'aar', 'Aa31LG1G3910' => 'aar', 'Aa31LG2G9630' => 'aar', 'Aa31LG5G8360' => 'aar', 'Aa31LG9G2410' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4699' => 'aag', 'Actinidia23512' => 'ach', 'Actinidia37080' => 'ach', 'Ah.01g020380' => 'amhyb', 'Ah.08g215710' => 'amhyb', 'Ah.09g225110' => 'amhyb', 'Ah.10g036680' => 'amhyb', 'AL1G21940' => 'aly', 'AL2G15540' => 'aly', 'AL4G21520' => 'aly', 'AL7G40960' => 'aly', 'Aqoxy2G01191' => 'aox', 'Aqoxy2G03393' => 'aox', 'Aqoxy4G02775' => 'aox', 'Aqoxy6G00058' => 'aox', 'arahy.Tifrunner.gnm1.ann1.9X74H2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CW3FX9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R485W7' => 'arhy', 'AT1G10960' => 'ath', 'AT1G60950' => 'ath', 'AT2G27510' => 'ath', 'AT4G14890' => 'ath', 'AT5G10000' => 'ath', 'ATR0665G624' => 'atr', 'ATR0697G138' => 'atr', 'ATR0776G046' => 'atr', 'ATR1134G135' => 'atr', 'Atru.chr12.1025' => 'acertr', 'Atru.chr3.3241' => 'acertr', 'Atru.chr4.2460' => 'acertr', 'AUR62007427' => 'cqu', 'AUR62010960' => 'cqu', 'AUR62012201' => 'cqu', 'AUR62021470' => 'cqu', 'AUR62022834' => 'cqu', 'AUR62033635' => 'cqu', 'AUR62036186' => 'cqu', 'BcaB01g03077' => 'bca', 'BcaB02g10093' => 'bca', 'BcaB04g20295' => 'bca', 'BcaB06g28147' => 'bca', 'BcaB07g31253' => 'bca', 'BcaC01g04946' => 'bca', 'BcaC02g10614' => 'bca', 'BcaC02g10885' => 'bca', 'BcaC04g19356' => 'bca', 'BcaC04g22297' => 'bca', 'BcaC05g24977' => 'bca', 'BcaC06g31823' => 'bca', 'BcaC07g38633' => 'bca', 'BcaC09g49353' => 'bca', 'BcaC09g50168' => 'bca', 'BcaNung00322' => 'bca', 'BcaNung04769' => 'bca', 'BolC1t02753H' => 'bol', 'BolC1t03721H' => 'bol', 'BolC3t15525H' => 'bol', 'BolC4t23903H' => 'bol', 'BolC4t24231H' => 'bol', 'BolC4t27209H' => 'bol', 'BolC5t29671H' => 'bol', 'BolC8t49044H' => 'bol', 'BolC9t54999H' => 'bol', 'BolC9t59517H' => 'bol', 'BraA01t02178Z' => 'bra', 'BraA01t03099Z' => 'bra', 'BraA03t11867Z' => 'bra', 'BraA04t17667Z' => 'bra', 'BraA07t29542Z' => 'bra', 'BraA08t35287Z' => 'bra', 'BraA09t37334Z' => 'bra', 'BraA10t44801Z' => 'bra', 'BraSC39t46181Z' => 'bra', 'C01p28240' => 'bna', 'C01p37530' => 'bna', 'C03p31820' => 'bna', 'C04p24080' => 'bna', 'C04p25790' => 'bna', 'C04p56770' => 'bna', 'C05p09310' => 'bna', 'C09p21010' => 'bna', 'C09p67560' => 'bna', 'CAN.G1324.7' => 'can', 'CAN.G1358.10' => 'can', 'CAN.G1550.2' => 'can', 'CAN.G186.56' => 'can', 'CAN.G1965.1' => 'can', 'CAN.G645.15' => 'can', 'CAN.G798.26' => 'can', 'CAN.G798.27' => 'can', 'CAN.G798.29' => 'can', 'CAN.G919.31' => 'can', 'CANSAT11G0133' => 'cansat', 'CANSAT11G1171' => 'cansat', 'CANSAT11G2056' => 'cansat', 'CANSAT56G1202' => 'cansat', 'CANSAT56G1514' => 'cansat', 'CANSAT78G0455' => 'cansat', 'CARHR011190' => 'chi', 'CARHR051980' => 'chi', 'CARHR120170' => 'chi', 'CARHR203310' => 'chi', 'CARHR221490' => 'chi', 'Carub.0001s1054' => 'cru', 'Carub.0002s0431' => 'cru', 'Carub.0004s0818' => 'cru', 'Carub.0006s0846' => 'cru', 'Carub.0007s2722' => 'cru', 'Ca_00058_v3' => 'car', 'Ca_17831_v3' => 'car', 'Ca_19408_v3' => 'car', 'Ca_24397_v3' => 'car', 'Ca_25664_v3' => 'car', 'CBR_g21818' => 'cbr', 'CBR_g31195' => 'cbr', 'CBR_g32282' => 'cbr', 'CBR_g39599' => 'cbr', 'CBR_g49410' => 'cbr', 'Cc01_g09120' => 'ccan', 'Cc01_g09130' => 'ccan', 'Cc02_g09630' => 'ccan', 'Cc02_g22810' => 'ccan', 'Cc03_g03810' => 'ccan', 'CDE02G3718' => 'cde', 'CDE04G3183' => 'cde', 'CDE07G1046' => 'cde', 'CDE08G0480' => 'cde', 'Cfa005493' => 'cfa', 'Cfa010312' => 'cfa', 'Cfa015648' => 'cfa', 'Ciclev10002793m.g' => 'ccl', 'Ciclev10003356m.g' => 'ccl', 'Ciclev10006141m.g' => 'ccl', 'Ciclev10016676m.g' => 'ccl', 'Ciclev10017081m.g' => 'ccl', 'Ciclev10029499m.g' => 'ccl', 'CiPaw.01G166300' => 'cil', 'CiPaw.06G145600' => 'cil', 'CiPaw.13G040100' => 'cil', 'CiPaw.13G135800' => 'cil', 'ClCG01G012230' => 'cla', 'ClCG05G009510' => 'cla', 'ClCG08G008270' => 'cla', 'COL.COLO4_11763' => 'col', 'COL.COLO4_19876' => 'col', 'COL.COLO4_21481' => 'col', 'Cpa.g.sc118.34' => 'cpa', 'Cpa.g.sc32.13' => 'cpa', 'Cpa.g.sc58.103' => 'cpa', 'Cre03.g183850' => 'cre', 'Cre06.g306350' => 'cre', 'Cre07.g334800' => 'cre', 'Cre12.g487900' => 'cre', 'Cre14.g626700' => 'cre', 'Cre16.g658400' => 'cre', 'Cre17.g700950' => 'cre', 'CsaV3_1G014830' => 'csa', 'CsaV3_3G013320' => 'csa', 'CsaV3_3G019210' => 'csa', 'CsaV3_3G019220' => 'csa', 'CsaV3_6G004230' => 'csa', 'CSS0003773' => 'camsi', 'CSS0004563' => 'camsi', 'CSS0013949' => 'camsi', 'CSS0025971' => 'camsi', 'CSS0028570' => 'camsi', 'CSS0033127' => 'camsi', 'CSS0036051' => 'camsi', 'CSS0040087' => 'camsi', 'CSS0043179' => 'camsi', 'DCAR_006161' => 'dca', 'DCAR_010351' => 'dca', 'DCAR_012197' => 'dca', 'DCAR_024162' => 'dca', 'Dinv01030' => 'din', 'Dinv10924' => 'din', 'Dinv11835' => 'din', 'Dinv22841' => 'din', 'Dinv42553' => 'din', 'Duzib052G0560' => 'dzi', 'Duzib132G0389' => 'dzi', 'Duzib150G1181' => 'dzi', 'Duzib168G0623' => 'dzi', 'Duzib170G1036' => 'dzi', 'Duzib212G0200' => 'dzi', 'Duzib248G0194' => 'dzi', 'ECA232G2193' => 'eca', 'ECA233G0302' => 'eca', 'ECA234G2813' => 'eca', 'ECA234G4866' => 'eca', 'ECA240G3932' => 'eca', 'ECA248G0385' => 'eca', 'EL10Ac2g04781' => 'bvu', 'EL10Ac3g06445' => 'bvu', 'EL10Ac7g15825' => 'bvu', 'EL10Ac8g18550' => 'bvu', 'Eucgr.B03849' => 'egr', 'Eucgr.I02744' => 'egr', 'Eucgr.J00264' => 'egr', 'Eucgr.J00493' => 'egr', 'FAN04G2181' => 'fan', 'FAN07G2666' => 'fan', 'FAN11G0024' => 'fan', 'FAN12G1105' => 'fan', 'FAN13G0302' => 'fan', 'FAN15G2781' => 'fan', 'FAN16G1274' => 'fan', 'FAN17G2988' => 'fan', 'FAN18G2621' => 'fan', 'FAN21G0013' => 'fan', 'FAN22G1211' => 'fan', 'FAN25G3626' => 'fan', 'FvH4_2g09491' => 'fve', 'FvH4_3g24910' => 'fve', 'FvH4_4g15630' => 'fve', 'FvH4_5g28820' => 'fve', 'Glyma.01G238000' => 'gma', 'Glyma.05G168400' => 'gma', 'Glyma.08G126800' => 'gma', 'Glyma.08G188500' => 'gma', 'Glyma.10G278900' => 'gma', 'Glyma.11G005700' => 'gma', 'Glyma.11G183300' => 'gma', 'Glyma.12G089200' => 'gma', 'Glyma.12G169400' => 'gma', 'Glyma.12G169500' => 'gma', 'Glyma.12G169600' => 'gma', 'Glyma.20G110800' => 'gma', 'Gohir.A03G192900' => 'ghi', 'Gohir.A03G193000' => 'ghi', 'Gohir.A05G080700' => 'ghi', 'Gohir.A09G216000' => 'ghi', 'Gohir.A12G027700' => 'ghi', 'Gohir.A13G036200' => 'ghi', 'Gohir.A13G222600' => 'ghi', 'Gohir.D02G213900' => 'ghi', 'Gohir.D02G214000' => 'ghi', 'Gohir.D05G083700' => 'ghi', 'Gohir.D05G083800' => 'ghi', 'Gohir.D05G083850' => 'ghi', 'Gohir.D08G015400' => 'ghi', 'Gohir.D09G218400' => 'ghi', 'Gohir.D12G027100' => 'ghi', 'Gohir.D13G034500' => 'ghi', 'Gohir.D13G227400' => 'ghi', 'Gorai.005G241800' => 'gra', 'Gorai.005G241900' => 'gra', 'Gorai.006G239400' => 'gra', 'Gorai.008G027600' => 'gra', 'Gorai.009G085400' => 'gra', 'Gorai.009G085500' => 'gra', 'Gorai.013G039000' => 'gra', 'Gorai.013G194800' => 'gra', 'Gorai.013G257900' => 'gra', 'GSVIVG01000982001' => 'vvi', 'GSVIVG01017981001' => 'vvi', 'HanXRQChr01g0024061' => 'han', 'HanXRQChr09g0247831' => 'han', 'HanXRQChr10g0294611' => 'han', 'HanXRQChr10g0294621' => 'han', 'HanXRQChr11g0346821' => 'han', 'HanXRQChr13g0397461' => 'han', 'HanXRQChr16g0513651' => 'han', 'HanXRQChr16g0513701' => 'han', 'Haze_00897' => 'cav', 'Haze_01745' => 'cav', 'Haze_02486' => 'cav', 'Haze_02487' => 'cav', 'Haze_23374' => 'cav', 'Hma1.2p1_0578F.1_g182520' => 'hma', 'Hma1.2p1_0602F.1_g187350' => 'hma', 'Hma1.2p1_0602F.1_g187360' => 'hma', 'Hma1.2p1_0874F.1_g231320' => 'hma', 'Hma1.2p1_1197F.1_g266210' => 'hma', 'Hma1.2p1_1197F.1_g266220' => 'hma', 'Hma1.2p1_2167F.1_g315895' => 'hma', 'Hma1.2p1_2190F.1_g316640' => 'hma', 'Hma1.2p1_3645F.1_g337153' => 'hma', 'HPP92_004907' => 'vpl', 'HPP92_012134' => 'vpl', 'HPP92_025136' => 'vpl', 'HPP92_026087' => 'vpl', 'Hund06782' => 'sun', 'Hund06784' => 'sun', 'Lalb_Chr01g0004861' => 'lal', 'Lalb_Chr02g0140591' => 'lal', 'Lalb_Chr02g0140611' => 'lal', 'Lalb_Chr03g0028101' => 'lal', 'Lalb_Chr07g0185791' => 'lal', 'Lalb_Chr12g0204491' => 'lal', 'Lalb_Chr13g0295671' => 'lal', 'Lalb_Chr19g0136461' => 'lal', 'Lalb_Chr21g0309191' => 'lal', 'Lj1g0028158' => 'lja', 'Lj1P236T38' => 'lonja', 'Lj2C32G2' => 'lonja', 'Lj2P944T8' => 'lonja', 'Lj2P963T15' => 'lonja', 'Lj3g0011788' => 'lja', 'Lj4g0025027' => 'lja', 'Lj5P255T36' => 'lonja', 'Lj6g0018866' => 'lja', 'Lj6P608T31' => 'lonja', 'LjContig00408g0008879' => 'lja', 'Lsat_1_v5_gn_5_105820' => 'lsa', 'Lsat_1_v5_gn_6_38800' => 'lsa', 'Lsat_1_v5_gn_7_67141' => 'lsa', 'Manes.04G003400' => 'mes', 'Manes.07G020000' => 'mes', 'Manes.07G020100' => 'mes', 'Manes.07G020150' => 'mes', 'Manes.10G061500' => 'mes', 'Manes.10G123200' => 'mes', 'Manes.11G161900' => 'mes', 'Manes.15G029300' => 'mes', 'Mapoly0071s0018' => 'mpo', 'Mapoly0082s0023' => 'mpo', 'Mapoly3477s0001' => 'mpo', 'MBI05_g31233_MAGBIO' => 'mbi', 'MBI09_g05946_MAGBIO' => 'mbi', 'MBI09_g05947_MAGBIO' => 'mbi', 'MBI17_g08346_MAGBIO' => 'mbi', 'MCO04G038' => 'mco', 'MCO09G370' => 'mco', 'MCO13G605' => 'mco', 'MD00G1075500' => 'mdo', 'MD03G1144300' => 'mdo', 'MD08G1236800' => 'mdo', 'MD13G1193300' => 'mdo', 'MD15G1428700' => 'mdo', 'Medtr1g112030' => 'mtr', 'Medtr1g112050' => 'mtr', 'Medtr2g006290' => 'mtr', 'Medtr2g086510' => 'mtr', 'Medtr4g053120' => 'mtr', 'Medtr5g006320' => 'mtr', 'Medtr8g088720' => 'mtr', 'MELO3C004712.2' => 'cme', 'MELO3C006533.2' => 'cme', 'MELO3C019438.2' => 'cme', 'MELO3C019440.2' => 'cme', 'MELO3C019441.2' => 'cme', 'MELO3C019895.2' => 'cme', 'Migut.B00811' => 'egut', 'Migut.D02447' => 'egut', 'Migut.F00875' => 'egut', 'Migut.N00186' => 'egut', 'Migut.N01051' => 'egut', 'Migut.N02491' => 'egut', 'Migut.O00784' => 'egut', 'MSTRG.12367' => 'ama', 'MSTRG.18756' => 'ama', 'MSTRG.21042' => 'ama', 'Nitab4.5_0000559g0040' => 'nta', 'Nitab4.5_0000667g0190' => 'nta', 'Nitab4.5_0000755g0160' => 'nta', 'Nitab4.5_0001216g0080' => 'nta', 'Nitab4.5_0004069g0040' => 'nta', 'Nitab4.5_0004129g0010' => 'nta', 'Nitab4.5_0005744g0030' => 'nta', 'Nitab4.5_0006996g0030' => 'nta', 'Nitab4.5_0008971g0040' => 'nta', 'Nitab4.5_0009769g0020' => 'nta', 'Nitab4.5_0009833g0010' => 'nta', 'Nitab4.5_0013140g0020' => 'nta', 'Nn003s41376' => 'nnu', 'Nn1g01857' => 'nnu', 'Nn1g03611' => 'nnu', 'Nn1g06853' => 'nnu', 'Nn3g18360' => 'nnu', 'Nn4g26328' => 'nnu', 'Nn5g27531' => 'nnu', 'Nn6g34899' => 'nnu', 'Nn7g36299' => 'nnu', 'Oeu021485.1' => 'oeu', 'Oeu022433.1' => 'oeu', 'Oeu032111.1' => 'oeu', 'Oeu051608.1' => 'oeu', 'Os01g0860601' => 'osa', 'Os03g0659200' => 'osa', 'Os03g0835900' => 'osa', 'Os04g0412200' => 'osa', 'Os05g0443500' => 'osa', 'Os07g0251500' => 'osa', 'Os08g0104600' => 'osa', 'Peaxi162Scf00003g00047' => 'pax', 'Peaxi162Scf00003g00052' => 'pax', 'Peaxi162Scf00003g00394' => 'pax', 'Peaxi162Scf00091g00621' => 'pax', 'Peaxi162Scf00152g00146' => 'pax', 'Peaxi162Scf00173g00025' => 'pax', 'Peaxi162Scf00195g00102' => 'pax', 'Peaxi162Scf00402g00013' => 'pax', 'Peaxi162Scf00519g00618' => 'pax', 'PGR004G2838' => 'pgr', 'PGR044G2275' => 'pgr', 'PGR102G1377' => 'pgr', 'PGR119G1245' => 'pgr', 'PGR142G4449' => 'pgr', 'PGSC0003DMG400004532' => 'stu', 'PGSC0003DMG400011950' => 'stu', 'PGSC0003DMG400023391' => 'stu', 'PGSC0003DMG400023985' => 'stu', 'PGSC0003DMG400026360' => 'stu', 'PGSC0003DMG400035711' => 'stu', 'PGSC0003DMG400037286' => 'stu', 'PGSC0003DMG402005881' => 'stu', 'Phvul.002G045400' => 'pvu', 'Phvul.006G216600' => 'pvu', 'Phvul.006G216700' => 'pvu', 'Phvul.006G216800' => 'pvu', 'Phvul.007G022500' => 'pvu', 'Phvul.011G094400' => 'pvu', 'Potri.001G470700' => 'ptr', 'Potri.003G015200' => 'ptr', 'Potri.004G202500' => 'ptr', 'Potri.004G218400' => 'ptr', 'Potri.008G020100' => 'ptr', 'Potri.008G153200' => 'ptr', 'Potri.009G163800' => 'ptr', 'Potri.010G087300' => 'ptr', 'Potri.010G239100' => 'ptr', 'Pp3c10_16100' => 'ppa', 'Pp3c10_16880' => 'ppa', 'Pp3c16_6230' => 'ppa', 'Pp3c17_18910' => 'ppa', 'Pp3c3_22119' => 'ppa', 'Pp3c3_22140' => 'ppa', 'Pp3c4_8159' => 'ppa', 'Pp3c4_8171' => 'ppa', 'Pp3c4_8330' => 'ppa', 'PRCOL_00004098' => 'pco', 'Prupe.1G013900' => 'ppe', 'Prupe.1G226300' => 'ppe', 'Prupe.1G573600' => 'ppe', 'Prupe.6G130100' => 'ppe', 'Psat3g090040' => 'psa', 'Psat4g210440' => 'psa', 'Psat6g231040' => 'psa', 'Psat6g231080' => 'psa', 'Psat7g063000' => 'psa', 'Psat7g188000' => 'psa', 'Psat7g188040' => 'psa', 'PSO017G0206' => 'pso', 'PSO170G0501' => 'pso', 'PSO170G6422' => 'pso', 'PSO210G7739' => 'pso', 'PSO339G1808' => 'pso', 'PSO339G6135' => 'pso', 'PSO384G0010' => 'pso', 'PSO384G0964' => 'pso', 'PSO761G0050' => 'pso', 'PSO782G4085' => 'pso', 'QL01p012264' => 'qlo', 'QL02p099491' => 'qlo', 'QL03p033868' => 'qlo', 'QL04p046678' => 'qlo', 'QL06p002448' => 'qlo', 'RcHm_v2.0_Chr4g0416181' => 'rch', 'RcHm_v2.0_Chr5g0044701' => 'rch', 'RcHm_v2.0_Chr6g0265781' => 'rch', 'RcHm_v2.0_Chr7g0221031' => 'rch', 'Rhsim04G0202000' => 'rsi', 'Rhsim11G0127300' => 'rsi', 'Rhsim13G0111800' => 'rsi', 'Sabra01G0165600' => 'sbr', 'Sabra03G0008300' => 'sbr', 'Sabra04G0136900' => 'sbr', 'Sabra08G0013400' => 'sbr', 'Sabra08G0116800' => 'sbr', 'Sabra09G0128000' => 'sbr', 'Sabra10G0055500' => 'sbr', 'Sabra10G0073300' => 'sbr', 'SalBow3G0385' => 'sbo', 'SalBow3G1119' => 'sbo', 'SalBow3G2005' => 'sbo', 'SalBow6G2563' => 'sbo', 'SalBow6G6386' => 'sbo', 'Sc06g0008800' => 'sci', 'Sc07g0004950' => 'sci', 'Sc09g0005340' => 'sci', 'Sc13g0004410' => 'sci', 'Sc21g0007090' => 'sci', 'Sed0009285' => 'sed', 'Sed0017583' => 'sed', 'Sed0019699' => 'sed', 'Sed0023107' => 'sed', 'SEGI_10916' => 'sgi', 'SEGI_16217' => 'sgi', 'SEGI_19466' => 'sgi', 'SEGI_41115' => 'sgi', 'SGA_v2.0_scaffold111G31534' => 'sas', 'SGA_v2.0_scaffold22G09864' => 'sas', 'SGA_v2.0_scaffold338G49219' => 'sas', 'SGA_v2.0_scaffold92G28298' => 'sas', 'SMO119G0064' => 'smo', 'SMO223G0038' => 'smo', 'SMO347G0584' => 'smo', 'SMO351G0010' => 'smo', 'SMO356G0404' => 'smo', 'Solyc01g103920.3' => 'sly', 'Solyc04g009710.2' => 'sly', 'Solyc05g055280.2' => 'sly', 'Solyc10g044520.3' => 'sly', 'Solyc10g075160.1' => 'sly', 'Solyc11g006910.3' => 'sly', 'Solyc11g068430.3' => 'sly', 'Sopen01g046310' => 'spe', 'Sopen03g001200' => 'spe', 'Sopen04g004830' => 'spe', 'Sopen05g033720' => 'spe', 'Sopen06g030740' => 'spe', 'Sopen10g013090' => 'spe', 'Sopen10g027630' => 'spe', 'Sopen10g027640' => 'spe', 'Sopen11g002820' => 'spe', 'Sopen11g027140' => 'spe', 'Sp1g09680' => 'spa', 'Sp2g03630' => 'spa', 'Sp4g10320' => 'spa', 'Sp6g33400' => 'spa', 'Sp7g13030' => 'spa', 'TAR365G0317' => 'tar', 'TAR376G0979' => 'tar', 'TAR623G1665' => 'tar', 'TAR633G2373' => 'tar', 'TAR636G1400' => 'tar', 'THA.LOC104800529' => 'tha', 'THA.LOC104808547' => 'tha', 'THA.LOC104809615' => 'tha', 'THA.LOC104815724' => 'tha', 'THA.LOC104818480' => 'tha', 'THA.LOC104819179' => 'tha', 'THA.LOC104822270' => 'tha', 'THA.LOC104826425' => 'tha', 'Thecc.02G089700' => 'tca', 'Thecc.04G232300' => 'tca', 'Thecc.09G283400' => 'tca', 'Thhalv10009020m.g' => 'esa', 'Thhalv10015506m.g' => 'esa', 'Thhalv10017364m.g' => 'esa', 'Thhalv10023742m.g' => 'esa', 'Thhalv10026483m.g' => 'esa', 'TPR.G17232' => 'tpr', 'TPR.G2133' => 'tpr', 'TPR.G2498' => 'tpr', 'TPR.G31942' => 'tpr', 'TPR.G37877' => 'tpr', 'TPR.G4571' => 'tpr', 'TWI14G1113' => 'twi', 'TWI15G0426' => 'twi', 'TWI31G1005' => 'twi', 'TWI38G0513' => 'twi', 'TWI38G1484' => 'twi', 'TWI73G1098' => 'twi', 'unitig_26.g10519' => 'ugi', 'unitig_736.g22395' => 'ugi', 'unitig_747.g21234' => 'ugi', 'unitig_747.g21942' => 'ugi', 'vmacro14351' => 'vma', 'VMungo0540G0082' => 'vmu', 'VMungo0540G0405' => 'vmu', 'VMungo0540G1486' => 'vmu', 'VMungo0540G1692' => 'vmu', 'VMungo0720G2473' => 'vmu', 'VMungo1127G1562' => 'vmu', 'VMungo1215G1918' => 'vmu', 'Zm00001eb052650' => 'zma', 'Zm00001eb063710' => 'zma', 'Zm00001eb083950' => 'zma', 'Zm00001eb174420' => 'zma', 'Zm00001eb260140' => 'zma', 'Zm00001eb260150' => 'zma', 'Zm00001eb260160' => 'zma', 'Zm00001eb348290' => 'zma', 'Zm00001eb366870' => 'zma', 'Zm00001eb421930' => 'zma' ) $gf_id = 'HOM05D001025' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001025' ) $data_identifier = 'HOM05D001025' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 19, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 2, 'amhyb' => (int) 4, 'aly' => (int) 4, 'aox' => (int) 4, 'arhy' => (int) 3, 'ath' => (int) 5, 'atr' => (int) 4, 'acertr' => (int) 3, 'cqu' => (int) 7, 'bca' => (int) 17, 'bol' => (int) 10, 'bra' => (int) 9, 'can' => (int) 10, 'cansat' => (int) 6, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 5, 'cbr' => (int) 5, 'ccan' => (int) 5, 'cde' => (int) 4, 'cfa' => (int) 3, 'ccl' => (int) 6, 'cil' => (int) 4, 'cla' => (int) 3, 'col' => (int) 3, 'cpa' => (int) 3, 'cre' => (int) 7, 'csa' => (int) 5, 'camsi' => (int) 9, 'dca' => (int) 4, 'din' => (int) 5, 'dzi' => (int) 7, 'eca' => (int) 6, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 12, 'fve' => (int) 4, 'gma' => (int) 12, 'ghi' => (int) 17, 'gra' => (int) 9, 'vvi' => (int) 2, 'han' => (int) 8, 'cav' => (int) 5, 'hma' => (int) 9, 'vpl' => (int) 4, 'sun' => (int) 2, 'lal' => (int) 9, 'lja' => (int) 5, 'lonja' => (int) 6, 'lsa' => (int) 3, 'mes' => (int) 8, 'mpo' => (int) 3, 'mbi' => (int) 4, 'mco' => (int) 3, 'mdo' => (int) 5, 'mtr' => (int) 7, 'cme' => (int) 6, 'egut' => (int) 7, 'ama' => (int) 3, 'nta' => (int) 12, 'nnu' => (int) 9, 'oeu' => (int) 4, 'osa' => (int) 7, 'pax' => (int) 9, 'pgr' => (int) 5, 'stu' => (int) 8, 'pvu' => (int) 6, 'ptr' => (int) 9, 'ppa' => (int) 9, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 7, 'pso' => (int) 10, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 3, 'sbr' => (int) 8, 'sbo' => (int) 5, 'sci' => (int) 5, 'sed' => (int) 4, 'sgi' => (int) 4, 'sas' => (int) 4, 'smo' => (int) 5, 'sly' => (int) 7, 'spe' => (int) 10, 'spa' => (int) 5, 'tar' => (int) 5, 'tha' => (int) 8, 'tca' => (int) 3, 'esa' => (int) 5, 'tpr' => (int) 6, 'twi' => (int) 6, 'ugi' => (int) 4, 'vma' => (int) 1, 'vmu' => (int) 7, 'zma' => (int) 10 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb421930' $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' => 'HOM05D001025', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '592', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p22650' => 'bna', 'A01p29720' => 'bna', 'A03p26560' => 'bna', 'A03p68820' => 'bna', 'A04p20980' => 'bna', 'A06p07730' => 'bna', 'A07p18260' => 'bna', 'A08p33710' => 'bna', 'A09p16970' => 'bna', 'A10p27490' => 'bna', 'Aa31LG1G17300' => 'aar', 'Aa31LG1G3910' => 'aar', 'Aa31LG2G9630' => 'aar', 'Aa31LG5G8360' => 'aar', 'Aa31LG9G2410' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4699' => 'aag', 'Actinidia23512' => 'ach', 'Actinidia37080' => 'ach', 'Ah.01g020380' => 'amhyb', 'Ah.08g215710' => 'amhyb', 'Ah.09g225110' => 'amhyb', 'Ah.10g036680' => 'amhyb', 'AL1G21940' => 'aly', 'AL2G15540' => 'aly', 'AL4G21520' => 'aly', 'AL7G40960' => 'aly', 'Aqoxy2G01191' => 'aox', 'Aqoxy2G03393' => 'aox', 'Aqoxy4G02775' => 'aox', 'Aqoxy6G00058' => 'aox', 'arahy.Tifrunner.gnm1.ann1.9X74H2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CW3FX9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R485W7' => 'arhy', 'AT1G10960' => 'ath', 'AT1G60950' => 'ath', 'AT2G27510' => 'ath', 'AT4G14890' => 'ath', 'AT5G10000' => 'ath', 'ATR0665G624' => 'atr', 'ATR0697G138' => 'atr', 'ATR0776G046' => 'atr', 'ATR1134G135' => 'atr', 'Atru.chr12.1025' => 'acertr', 'Atru.chr3.3241' => 'acertr', 'Atru.chr4.2460' => 'acertr', 'AUR62007427' => 'cqu', 'AUR62010960' => 'cqu', 'AUR62012201' => 'cqu', 'AUR62021470' => 'cqu', 'AUR62022834' => 'cqu', 'AUR62033635' => 'cqu', 'AUR62036186' => 'cqu', 'BcaB01g03077' => 'bca', 'BcaB02g10093' => 'bca', 'BcaB04g20295' => 'bca', 'BcaB06g28147' => 'bca', 'BcaB07g31253' => 'bca', 'BcaC01g04946' => 'bca', 'BcaC02g10614' => 'bca', 'BcaC02g10885' => 'bca', 'BcaC04g19356' => 'bca', 'BcaC04g22297' => 'bca', 'BcaC05g24977' => 'bca', 'BcaC06g31823' => 'bca', 'BcaC07g38633' => 'bca', 'BcaC09g49353' => 'bca', 'BcaC09g50168' => 'bca', 'BcaNung00322' => 'bca', 'BcaNung04769' => 'bca', 'BolC1t02753H' => 'bol', 'BolC1t03721H' => 'bol', 'BolC3t15525H' => 'bol', 'BolC4t23903H' => 'bol', 'BolC4t24231H' => 'bol', 'BolC4t27209H' => 'bol', 'BolC5t29671H' => 'bol', 'BolC8t49044H' => 'bol', 'BolC9t54999H' => 'bol', 'BolC9t59517H' => 'bol', 'BraA01t02178Z' => 'bra', 'BraA01t03099Z' => 'bra', 'BraA03t11867Z' => 'bra', 'BraA04t17667Z' => 'bra', 'BraA07t29542Z' => 'bra', 'BraA08t35287Z' => 'bra', 'BraA09t37334Z' => 'bra', 'BraA10t44801Z' => 'bra', 'BraSC39t46181Z' => 'bra', 'C01p28240' => 'bna', 'C01p37530' => 'bna', 'C03p31820' => 'bna', 'C04p24080' => 'bna', 'C04p25790' => 'bna', 'C04p56770' => 'bna', 'C05p09310' => 'bna', 'C09p21010' => 'bna', 'C09p67560' => 'bna', 'CAN.G1324.7' => 'can', 'CAN.G1358.10' => 'can', 'CAN.G1550.2' => 'can', 'CAN.G186.56' => 'can', 'CAN.G1965.1' => 'can', 'CAN.G645.15' => 'can', 'CAN.G798.26' => 'can', 'CAN.G798.27' => 'can', 'CAN.G798.29' => 'can', 'CAN.G919.31' => 'can', 'CANSAT11G0133' => 'cansat', 'CANSAT11G1171' => 'cansat', 'CANSAT11G2056' => 'cansat', 'CANSAT56G1202' => 'cansat', 'CANSAT56G1514' => 'cansat', 'CANSAT78G0455' => 'cansat', 'CARHR011190' => 'chi', 'CARHR051980' => 'chi', 'CARHR120170' => 'chi', 'CARHR203310' => 'chi', 'CARHR221490' => 'chi', 'Carub.0001s1054' => 'cru', 'Carub.0002s0431' => 'cru', 'Carub.0004s0818' => 'cru', 'Carub.0006s0846' => 'cru', 'Carub.0007s2722' => 'cru', 'Ca_00058_v3' => 'car', 'Ca_17831_v3' => 'car', 'Ca_19408_v3' => 'car', 'Ca_24397_v3' => 'car', 'Ca_25664_v3' => 'car', 'CBR_g21818' => 'cbr', 'CBR_g31195' => 'cbr', 'CBR_g32282' => 'cbr', 'CBR_g39599' => 'cbr', 'CBR_g49410' => 'cbr', 'Cc01_g09120' => 'ccan', 'Cc01_g09130' => 'ccan', 'Cc02_g09630' => 'ccan', 'Cc02_g22810' => 'ccan', 'Cc03_g03810' => 'ccan', 'CDE02G3718' => 'cde', 'CDE04G3183' => 'cde', 'CDE07G1046' => 'cde', 'CDE08G0480' => 'cde', 'Cfa005493' => 'cfa', 'Cfa010312' => 'cfa', 'Cfa015648' => 'cfa', 'Ciclev10002793m.g' => 'ccl', 'Ciclev10003356m.g' => 'ccl', 'Ciclev10006141m.g' => 'ccl', 'Ciclev10016676m.g' => 'ccl', 'Ciclev10017081m.g' => 'ccl', 'Ciclev10029499m.g' => 'ccl', 'CiPaw.01G166300' => 'cil', 'CiPaw.06G145600' => 'cil', 'CiPaw.13G040100' => 'cil', 'CiPaw.13G135800' => 'cil', 'ClCG01G012230' => 'cla', 'ClCG05G009510' => 'cla', 'ClCG08G008270' => 'cla', 'COL.COLO4_11763' => 'col', 'COL.COLO4_19876' => 'col', 'COL.COLO4_21481' => 'col', 'Cpa.g.sc118.34' => 'cpa', 'Cpa.g.sc32.13' => 'cpa', 'Cpa.g.sc58.103' => 'cpa', 'Cre03.g183850' => 'cre', 'Cre06.g306350' => 'cre', 'Cre07.g334800' => 'cre', 'Cre12.g487900' => 'cre', 'Cre14.g626700' => 'cre', 'Cre16.g658400' => 'cre', 'Cre17.g700950' => 'cre', 'CsaV3_1G014830' => 'csa', 'CsaV3_3G013320' => 'csa', 'CsaV3_3G019210' => 'csa', 'CsaV3_3G019220' => 'csa', 'CsaV3_6G004230' => 'csa', 'CSS0003773' => 'camsi', 'CSS0004563' => 'camsi', 'CSS0013949' => 'camsi', 'CSS0025971' => 'camsi', 'CSS0028570' => 'camsi', 'CSS0033127' => 'camsi', 'CSS0036051' => 'camsi', 'CSS0040087' => 'camsi', 'CSS0043179' => 'camsi', 'DCAR_006161' => 'dca', 'DCAR_010351' => 'dca', 'DCAR_012197' => 'dca', 'DCAR_024162' => 'dca', 'Dinv01030' => 'din', 'Dinv10924' => 'din', 'Dinv11835' => 'din', 'Dinv22841' => 'din', 'Dinv42553' => 'din', 'Duzib052G0560' => 'dzi', 'Duzib132G0389' => 'dzi', 'Duzib150G1181' => 'dzi', 'Duzib168G0623' => 'dzi', 'Duzib170G1036' => 'dzi', 'Duzib212G0200' => 'dzi', 'Duzib248G0194' => 'dzi', 'ECA232G2193' => 'eca', 'ECA233G0302' => 'eca', 'ECA234G2813' => 'eca', 'ECA234G4866' => 'eca', 'ECA240G3932' => 'eca', 'ECA248G0385' => 'eca', 'EL10Ac2g04781' => 'bvu', 'EL10Ac3g06445' => 'bvu', 'EL10Ac7g15825' => 'bvu', 'EL10Ac8g18550' => 'bvu', 'Eucgr.B03849' => 'egr', 'Eucgr.I02744' => 'egr', 'Eucgr.J00264' => 'egr', 'Eucgr.J00493' => 'egr', 'FAN04G2181' => 'fan', 'FAN07G2666' => 'fan', 'FAN11G0024' => 'fan', 'FAN12G1105' => 'fan', 'FAN13G0302' => 'fan', 'FAN15G2781' => 'fan', 'FAN16G1274' => 'fan', 'FAN17G2988' => 'fan', 'FAN18G2621' => 'fan', 'FAN21G0013' => 'fan', 'FAN22G1211' => 'fan', 'FAN25G3626' => 'fan', 'FvH4_2g09491' => 'fve', 'FvH4_3g24910' => 'fve', 'FvH4_4g15630' => 'fve', 'FvH4_5g28820' => 'fve', 'Glyma.01G238000' => 'gma', 'Glyma.05G168400' => 'gma', 'Glyma.08G126800' => 'gma', 'Glyma.08G188500' => 'gma', 'Glyma.10G278900' => 'gma', 'Glyma.11G005700' => 'gma', 'Glyma.11G183300' => 'gma', 'Glyma.12G089200' => 'gma', 'Glyma.12G169400' => 'gma', 'Glyma.12G169500' => 'gma', 'Glyma.12G169600' => 'gma', 'Glyma.20G110800' => 'gma', 'Gohir.A03G192900' => 'ghi', 'Gohir.A03G193000' => 'ghi', 'Gohir.A05G080700' => 'ghi', 'Gohir.A09G216000' => 'ghi', 'Gohir.A12G027700' => 'ghi', 'Gohir.A13G036200' => 'ghi', 'Gohir.A13G222600' => 'ghi', 'Gohir.D02G213900' => 'ghi', 'Gohir.D02G214000' => 'ghi', 'Gohir.D05G083700' => 'ghi', 'Gohir.D05G083800' => 'ghi', 'Gohir.D05G083850' => 'ghi', 'Gohir.D08G015400' => 'ghi', 'Gohir.D09G218400' => 'ghi', 'Gohir.D12G027100' => 'ghi', 'Gohir.D13G034500' => 'ghi', 'Gohir.D13G227400' => 'ghi', 'Gorai.005G241800' => 'gra', 'Gorai.005G241900' => 'gra', 'Gorai.006G239400' => 'gra', 'Gorai.008G027600' => 'gra', 'Gorai.009G085400' => 'gra', 'Gorai.009G085500' => 'gra', 'Gorai.013G039000' => 'gra', 'Gorai.013G194800' => 'gra', 'Gorai.013G257900' => 'gra', 'GSVIVG01000982001' => 'vvi', 'GSVIVG01017981001' => 'vvi', 'HanXRQChr01g0024061' => 'han', 'HanXRQChr09g0247831' => 'han', 'HanXRQChr10g0294611' => 'han', 'HanXRQChr10g0294621' => 'han', 'HanXRQChr11g0346821' => 'han', 'HanXRQChr13g0397461' => 'han', 'HanXRQChr16g0513651' => 'han', 'HanXRQChr16g0513701' => 'han', 'Haze_00897' => 'cav', 'Haze_01745' => 'cav', 'Haze_02486' => 'cav', 'Haze_02487' => 'cav', 'Haze_23374' => 'cav', 'Hma1.2p1_0578F.1_g182520' => 'hma', 'Hma1.2p1_0602F.1_g187350' => 'hma', 'Hma1.2p1_0602F.1_g187360' => 'hma', 'Hma1.2p1_0874F.1_g231320' => 'hma', 'Hma1.2p1_1197F.1_g266210' => 'hma', 'Hma1.2p1_1197F.1_g266220' => 'hma', 'Hma1.2p1_2167F.1_g315895' => 'hma', 'Hma1.2p1_2190F.1_g316640' => 'hma', 'Hma1.2p1_3645F.1_g337153' => 'hma', 'HPP92_004907' => 'vpl', 'HPP92_012134' => 'vpl', 'HPP92_025136' => 'vpl', 'HPP92_026087' => 'vpl', 'Hund06782' => 'sun', 'Hund06784' => 'sun', 'Lalb_Chr01g0004861' => 'lal', 'Lalb_Chr02g0140591' => 'lal', 'Lalb_Chr02g0140611' => 'lal', 'Lalb_Chr03g0028101' => 'lal', 'Lalb_Chr07g0185791' => 'lal', 'Lalb_Chr12g0204491' => 'lal', 'Lalb_Chr13g0295671' => 'lal', 'Lalb_Chr19g0136461' => 'lal', 'Lalb_Chr21g0309191' => 'lal', 'Lj1g0028158' => 'lja', 'Lj1P236T38' => 'lonja', 'Lj2C32G2' => 'lonja', 'Lj2P944T8' => 'lonja', 'Lj2P963T15' => 'lonja', 'Lj3g0011788' => 'lja', 'Lj4g0025027' => 'lja', 'Lj5P255T36' => 'lonja', 'Lj6g0018866' => 'lja', 'Lj6P608T31' => 'lonja', 'LjContig00408g0008879' => 'lja', 'Lsat_1_v5_gn_5_105820' => 'lsa', 'Lsat_1_v5_gn_6_38800' => 'lsa', 'Lsat_1_v5_gn_7_67141' => 'lsa', 'Manes.04G003400' => 'mes', 'Manes.07G020000' => 'mes', 'Manes.07G020100' => 'mes', 'Manes.07G020150' => 'mes', 'Manes.10G061500' => 'mes', 'Manes.10G123200' => 'mes', 'Manes.11G161900' => 'mes', 'Manes.15G029300' => 'mes', 'Mapoly0071s0018' => 'mpo', 'Mapoly0082s0023' => 'mpo', 'Mapoly3477s0001' => 'mpo', 'MBI05_g31233_MAGBIO' => 'mbi', 'MBI09_g05946_MAGBIO' => 'mbi', 'MBI09_g05947_MAGBIO' => 'mbi', 'MBI17_g08346_MAGBIO' => 'mbi', 'MCO04G038' => 'mco', 'MCO09G370' => 'mco', 'MCO13G605' => 'mco', 'MD00G1075500' => 'mdo', 'MD03G1144300' => 'mdo', 'MD08G1236800' => 'mdo', 'MD13G1193300' => 'mdo', 'MD15G1428700' => 'mdo', 'Medtr1g112030' => 'mtr', 'Medtr1g112050' => 'mtr', 'Medtr2g006290' => 'mtr', 'Medtr2g086510' => 'mtr', 'Medtr4g053120' => 'mtr', 'Medtr5g006320' => 'mtr', 'Medtr8g088720' => 'mtr', 'MELO3C004712.2' => 'cme', 'MELO3C006533.2' => 'cme', 'MELO3C019438.2' => 'cme', 'MELO3C019440.2' => 'cme', 'MELO3C019441.2' => 'cme', 'MELO3C019895.2' => 'cme', 'Migut.B00811' => 'egut', 'Migut.D02447' => 'egut', 'Migut.F00875' => 'egut', 'Migut.N00186' => 'egut', 'Migut.N01051' => 'egut', 'Migut.N02491' => 'egut', 'Migut.O00784' => 'egut', 'MSTRG.12367' => 'ama', 'MSTRG.18756' => 'ama', 'MSTRG.21042' => 'ama', 'Nitab4.5_0000559g0040' => 'nta', 'Nitab4.5_0000667g0190' => 'nta', 'Nitab4.5_0000755g0160' => 'nta', 'Nitab4.5_0001216g0080' => 'nta', 'Nitab4.5_0004069g0040' => 'nta', 'Nitab4.5_0004129g0010' => 'nta', 'Nitab4.5_0005744g0030' => 'nta', 'Nitab4.5_0006996g0030' => 'nta', 'Nitab4.5_0008971g0040' => 'nta', 'Nitab4.5_0009769g0020' => 'nta', 'Nitab4.5_0009833g0010' => 'nta', 'Nitab4.5_0013140g0020' => 'nta', 'Nn003s41376' => 'nnu', 'Nn1g01857' => 'nnu', 'Nn1g03611' => 'nnu', 'Nn1g06853' => 'nnu', 'Nn3g18360' => 'nnu', 'Nn4g26328' => 'nnu', 'Nn5g27531' => 'nnu', 'Nn6g34899' => 'nnu', 'Nn7g36299' => 'nnu', 'Oeu021485.1' => 'oeu', 'Oeu022433.1' => 'oeu', 'Oeu032111.1' => 'oeu', 'Oeu051608.1' => 'oeu', 'Os01g0860601' => 'osa', 'Os03g0659200' => 'osa', 'Os03g0835900' => 'osa', 'Os04g0412200' => 'osa', 'Os05g0443500' => 'osa', 'Os07g0251500' => 'osa', 'Os08g0104600' => 'osa', 'Peaxi162Scf00003g00047' => 'pax', 'Peaxi162Scf00003g00052' => 'pax', 'Peaxi162Scf00003g00394' => 'pax', 'Peaxi162Scf00091g00621' => 'pax', 'Peaxi162Scf00152g00146' => 'pax', 'Peaxi162Scf00173g00025' => 'pax', 'Peaxi162Scf00195g00102' => 'pax', 'Peaxi162Scf00402g00013' => 'pax', 'Peaxi162Scf00519g00618' => 'pax', 'PGR004G2838' => 'pgr', 'PGR044G2275' => 'pgr', 'PGR102G1377' => 'pgr', 'PGR119G1245' => 'pgr', 'PGR142G4449' => 'pgr', 'PGSC0003DMG400004532' => 'stu', 'PGSC0003DMG400011950' => 'stu', 'PGSC0003DMG400023391' => 'stu', 'PGSC0003DMG400023985' => 'stu', 'PGSC0003DMG400026360' => 'stu', 'PGSC0003DMG400035711' => 'stu', 'PGSC0003DMG400037286' => 'stu', 'PGSC0003DMG402005881' => 'stu', 'Phvul.002G045400' => 'pvu', 'Phvul.006G216600' => 'pvu', 'Phvul.006G216700' => 'pvu', 'Phvul.006G216800' => 'pvu', 'Phvul.007G022500' => 'pvu', 'Phvul.011G094400' => 'pvu', 'Potri.001G470700' => 'ptr', 'Potri.003G015200' => 'ptr', 'Potri.004G202500' => 'ptr', 'Potri.004G218400' => 'ptr', 'Potri.008G020100' => 'ptr', 'Potri.008G153200' => 'ptr', 'Potri.009G163800' => 'ptr', 'Potri.010G087300' => 'ptr', 'Potri.010G239100' => 'ptr', 'Pp3c10_16100' => 'ppa', 'Pp3c10_16880' => 'ppa', 'Pp3c16_6230' => 'ppa', 'Pp3c17_18910' => 'ppa', 'Pp3c3_22119' => 'ppa', 'Pp3c3_22140' => 'ppa', 'Pp3c4_8159' => 'ppa', 'Pp3c4_8171' => 'ppa', 'Pp3c4_8330' => 'ppa', 'PRCOL_00004098' => 'pco', 'Prupe.1G013900' => 'ppe', 'Prupe.1G226300' => 'ppe', 'Prupe.1G573600' => 'ppe', 'Prupe.6G130100' => 'ppe', 'Psat3g090040' => 'psa', 'Psat4g210440' => 'psa', 'Psat6g231040' => 'psa', 'Psat6g231080' => 'psa', 'Psat7g063000' => 'psa', 'Psat7g188000' => 'psa', 'Psat7g188040' => 'psa', 'PSO017G0206' => 'pso', 'PSO170G0501' => 'pso', 'PSO170G6422' => 'pso', 'PSO210G7739' => 'pso', 'PSO339G1808' => 'pso', 'PSO339G6135' => 'pso', 'PSO384G0010' => 'pso', 'PSO384G0964' => 'pso', 'PSO761G0050' => 'pso', 'PSO782G4085' => 'pso', 'QL01p012264' => 'qlo', 'QL02p099491' => 'qlo', 'QL03p033868' => 'qlo', 'QL04p046678' => 'qlo', 'QL06p002448' => 'qlo', 'RcHm_v2.0_Chr4g0416181' => 'rch', 'RcHm_v2.0_Chr5g0044701' => 'rch', 'RcHm_v2.0_Chr6g0265781' => 'rch', 'RcHm_v2.0_Chr7g0221031' => 'rch', 'Rhsim04G0202000' => 'rsi', 'Rhsim11G0127300' => 'rsi', 'Rhsim13G0111800' => 'rsi', 'Sabra01G0165600' => 'sbr', 'Sabra03G0008300' => 'sbr', 'Sabra04G0136900' => 'sbr', 'Sabra08G0013400' => 'sbr', 'Sabra08G0116800' => 'sbr', 'Sabra09G0128000' => 'sbr', 'Sabra10G0055500' => 'sbr', 'Sabra10G0073300' => 'sbr', 'SalBow3G0385' => 'sbo', 'SalBow3G1119' => 'sbo', 'SalBow3G2005' => 'sbo', 'SalBow6G2563' => 'sbo', 'SalBow6G6386' => 'sbo', 'Sc06g0008800' => 'sci', 'Sc07g0004950' => 'sci', 'Sc09g0005340' => 'sci', 'Sc13g0004410' => 'sci', 'Sc21g0007090' => 'sci', 'Sed0009285' => 'sed', 'Sed0017583' => 'sed', 'Sed0019699' => 'sed', 'Sed0023107' => 'sed', 'SEGI_10916' => 'sgi', 'SEGI_16217' => 'sgi', 'SEGI_19466' => 'sgi', 'SEGI_41115' => 'sgi', 'SGA_v2.0_scaffold111G31534' => 'sas', 'SGA_v2.0_scaffold22G09864' => 'sas', 'SGA_v2.0_scaffold338G49219' => 'sas', 'SGA_v2.0_scaffold92G28298' => 'sas', 'SMO119G0064' => 'smo', 'SMO223G0038' => 'smo', 'SMO347G0584' => 'smo', 'SMO351G0010' => 'smo', 'SMO356G0404' => 'smo', 'Solyc01g103920.3' => 'sly', 'Solyc04g009710.2' => 'sly', 'Solyc05g055280.2' => 'sly', 'Solyc10g044520.3' => 'sly', 'Solyc10g075160.1' => 'sly', 'Solyc11g006910.3' => 'sly', 'Solyc11g068430.3' => 'sly', 'Sopen01g046310' => 'spe', 'Sopen03g001200' => 'spe', 'Sopen04g004830' => 'spe', 'Sopen05g033720' => 'spe', 'Sopen06g030740' => 'spe', 'Sopen10g013090' => 'spe', 'Sopen10g027630' => 'spe', 'Sopen10g027640' => 'spe', 'Sopen11g002820' => 'spe', 'Sopen11g027140' => 'spe', 'Sp1g09680' => 'spa', 'Sp2g03630' => 'spa', 'Sp4g10320' => 'spa', 'Sp6g33400' => 'spa', 'Sp7g13030' => 'spa', 'TAR365G0317' => 'tar', 'TAR376G0979' => 'tar', 'TAR623G1665' => 'tar', 'TAR633G2373' => 'tar', 'TAR636G1400' => 'tar', 'THA.LOC104800529' => 'tha', 'THA.LOC104808547' => 'tha', 'THA.LOC104809615' => 'tha', 'THA.LOC104815724' => 'tha', 'THA.LOC104818480' => 'tha', 'THA.LOC104819179' => 'tha', 'THA.LOC104822270' => 'tha', 'THA.LOC104826425' => 'tha', 'Thecc.02G089700' => 'tca', 'Thecc.04G232300' => 'tca', 'Thecc.09G283400' => 'tca', 'Thhalv10009020m.g' => 'esa', 'Thhalv10015506m.g' => 'esa', 'Thhalv10017364m.g' => 'esa', 'Thhalv10023742m.g' => 'esa', 'Thhalv10026483m.g' => 'esa', 'TPR.G17232' => 'tpr', 'TPR.G2133' => 'tpr', 'TPR.G2498' => 'tpr', 'TPR.G31942' => 'tpr', 'TPR.G37877' => 'tpr', 'TPR.G4571' => 'tpr', 'TWI14G1113' => 'twi', 'TWI15G0426' => 'twi', 'TWI31G1005' => 'twi', 'TWI38G0513' => 'twi', 'TWI38G1484' => 'twi', 'TWI73G1098' => 'twi', 'unitig_26.g10519' => 'ugi', 'unitig_736.g22395' => 'ugi', 'unitig_747.g21234' => 'ugi', 'unitig_747.g21942' => 'ugi', 'vmacro14351' => 'vma', 'VMungo0540G0082' => 'vmu', 'VMungo0540G0405' => 'vmu', 'VMungo0540G1486' => 'vmu', 'VMungo0540G1692' => 'vmu', 'VMungo0720G2473' => 'vmu', 'VMungo1127G1562' => 'vmu', 'VMungo1215G1918' => 'vmu', 'Zm00001eb052650' => 'zma', 'Zm00001eb063710' => 'zma', 'Zm00001eb083950' => 'zma', 'Zm00001eb174420' => 'zma', 'Zm00001eb260140' => 'zma', 'Zm00001eb260150' => 'zma', 'Zm00001eb260160' => 'zma', 'Zm00001eb348290' => 'zma', 'Zm00001eb366870' => 'zma', 'Zm00001eb421930' => 'zma' ), 'gf_id' => 'HOM05D001025', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001025' ), 'data_identifier' => 'HOM05D001025', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001025', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '592', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p22650' => 'bna', 'A01p29720' => 'bna', 'A03p26560' => 'bna', 'A03p68820' => 'bna', 'A04p20980' => 'bna', 'A06p07730' => 'bna', 'A07p18260' => 'bna', 'A08p33710' => 'bna', 'A09p16970' => 'bna', 'A10p27490' => 'bna', 'Aa31LG1G17300' => 'aar', 'Aa31LG1G3910' => 'aar', 'Aa31LG2G9630' => 'aar', 'Aa31LG5G8360' => 'aar', 'Aa31LG9G2410' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4699' => 'aag', 'Actinidia23512' => 'ach', 'Actinidia37080' => 'ach', 'Ah.01g020380' => 'amhyb', 'Ah.08g215710' => 'amhyb', 'Ah.09g225110' => 'amhyb', 'Ah.10g036680' => 'amhyb', 'AL1G21940' => 'aly', 'AL2G15540' => 'aly', 'AL4G21520' => 'aly', 'AL7G40960' => 'aly', 'Aqoxy2G01191' => 'aox', 'Aqoxy2G03393' => 'aox', 'Aqoxy4G02775' => 'aox', 'Aqoxy6G00058' => 'aox', 'arahy.Tifrunner.gnm1.ann1.9X74H2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CW3FX9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R485W7' => 'arhy', 'AT1G10960' => 'ath', 'AT1G60950' => 'ath', 'AT2G27510' => 'ath', 'AT4G14890' => 'ath', 'AT5G10000' => 'ath', 'ATR0665G624' => 'atr', 'ATR0697G138' => 'atr', 'ATR0776G046' => 'atr', 'ATR1134G135' => 'atr', 'Atru.chr12.1025' => 'acertr', 'Atru.chr3.3241' => 'acertr', 'Atru.chr4.2460' => 'acertr', 'AUR62007427' => 'cqu', 'AUR62010960' => 'cqu', 'AUR62012201' => 'cqu', 'AUR62021470' => 'cqu', 'AUR62022834' => 'cqu', 'AUR62033635' => 'cqu', 'AUR62036186' => 'cqu', 'BcaB01g03077' => 'bca', 'BcaB02g10093' => 'bca', 'BcaB04g20295' => 'bca', 'BcaB06g28147' => 'bca', 'BcaB07g31253' => 'bca', 'BcaC01g04946' => 'bca', 'BcaC02g10614' => 'bca', 'BcaC02g10885' => 'bca', 'BcaC04g19356' => 'bca', 'BcaC04g22297' => 'bca', 'BcaC05g24977' => 'bca', 'BcaC06g31823' => 'bca', 'BcaC07g38633' => 'bca', 'BcaC09g49353' => 'bca', 'BcaC09g50168' => 'bca', 'BcaNung00322' => 'bca', 'BcaNung04769' => 'bca', 'BolC1t02753H' => 'bol', 'BolC1t03721H' => 'bol', 'BolC3t15525H' => 'bol', 'BolC4t23903H' => 'bol', 'BolC4t24231H' => 'bol', 'BolC4t27209H' => 'bol', 'BolC5t29671H' => 'bol', 'BolC8t49044H' => 'bol', 'BolC9t54999H' => 'bol', 'BolC9t59517H' => 'bol', 'BraA01t02178Z' => 'bra', 'BraA01t03099Z' => 'bra', 'BraA03t11867Z' => 'bra', 'BraA04t17667Z' => 'bra', 'BraA07t29542Z' => 'bra', 'BraA08t35287Z' => 'bra', 'BraA09t37334Z' => 'bra', 'BraA10t44801Z' => 'bra', 'BraSC39t46181Z' => 'bra', 'C01p28240' => 'bna', 'C01p37530' => 'bna', 'C03p31820' => 'bna', 'C04p24080' => 'bna', 'C04p25790' => 'bna', 'C04p56770' => 'bna', 'C05p09310' => 'bna', 'C09p21010' => 'bna', 'C09p67560' => 'bna', 'CAN.G1324.7' => 'can', 'CAN.G1358.10' => 'can', 'CAN.G1550.2' => 'can', 'CAN.G186.56' => 'can', 'CAN.G1965.1' => 'can', 'CAN.G645.15' => 'can', 'CAN.G798.26' => 'can', 'CAN.G798.27' => 'can', 'CAN.G798.29' => 'can', 'CAN.G919.31' => 'can', 'CANSAT11G0133' => 'cansat', 'CANSAT11G1171' => 'cansat', 'CANSAT11G2056' => 'cansat', 'CANSAT56G1202' => 'cansat', 'CANSAT56G1514' => 'cansat', 'CANSAT78G0455' => 'cansat', 'CARHR011190' => 'chi', 'CARHR051980' => 'chi', 'CARHR120170' => 'chi', 'CARHR203310' => 'chi', 'CARHR221490' => 'chi', 'Carub.0001s1054' => 'cru', 'Carub.0002s0431' => 'cru', 'Carub.0004s0818' => 'cru', 'Carub.0006s0846' => 'cru', 'Carub.0007s2722' => 'cru', 'Ca_00058_v3' => 'car', 'Ca_17831_v3' => 'car', 'Ca_19408_v3' => 'car', 'Ca_24397_v3' => 'car', 'Ca_25664_v3' => 'car', 'CBR_g21818' => 'cbr', 'CBR_g31195' => 'cbr', 'CBR_g32282' => 'cbr', 'CBR_g39599' => 'cbr', 'CBR_g49410' => 'cbr', 'Cc01_g09120' => 'ccan', 'Cc01_g09130' => 'ccan', 'Cc02_g09630' => 'ccan', 'Cc02_g22810' => 'ccan', 'Cc03_g03810' => 'ccan', 'CDE02G3718' => 'cde', 'CDE04G3183' => 'cde', 'CDE07G1046' => 'cde', 'CDE08G0480' => 'cde', 'Cfa005493' => 'cfa', 'Cfa010312' => 'cfa', 'Cfa015648' => 'cfa', 'Ciclev10002793m.g' => 'ccl', 'Ciclev10003356m.g' => 'ccl', 'Ciclev10006141m.g' => 'ccl', 'Ciclev10016676m.g' => 'ccl', 'Ciclev10017081m.g' => 'ccl', 'Ciclev10029499m.g' => 'ccl', 'CiPaw.01G166300' => 'cil', 'CiPaw.06G145600' => 'cil', 'CiPaw.13G040100' => 'cil', 'CiPaw.13G135800' => 'cil', 'ClCG01G012230' => 'cla', 'ClCG05G009510' => 'cla', 'ClCG08G008270' => 'cla', 'COL.COLO4_11763' => 'col', 'COL.COLO4_19876' => 'col', 'COL.COLO4_21481' => 'col', 'Cpa.g.sc118.34' => 'cpa', 'Cpa.g.sc32.13' => 'cpa', 'Cpa.g.sc58.103' => 'cpa', 'Cre03.g183850' => 'cre', 'Cre06.g306350' => 'cre', 'Cre07.g334800' => 'cre', 'Cre12.g487900' => 'cre', 'Cre14.g626700' => 'cre', 'Cre16.g658400' => 'cre', 'Cre17.g700950' => 'cre', 'CsaV3_1G014830' => 'csa', 'CsaV3_3G013320' => 'csa', 'CsaV3_3G019210' => 'csa', 'CsaV3_3G019220' => 'csa', 'CsaV3_6G004230' => 'csa', 'CSS0003773' => 'camsi', 'CSS0004563' => 'camsi', 'CSS0013949' => 'camsi', 'CSS0025971' => 'camsi', 'CSS0028570' => 'camsi', 'CSS0033127' => 'camsi', 'CSS0036051' => 'camsi', 'CSS0040087' => 'camsi', 'CSS0043179' => 'camsi', 'DCAR_006161' => 'dca', 'DCAR_010351' => 'dca', 'DCAR_012197' => 'dca', 'DCAR_024162' => 'dca', 'Dinv01030' => 'din', 'Dinv10924' => 'din', 'Dinv11835' => 'din', 'Dinv22841' => 'din', 'Dinv42553' => 'din', 'Duzib052G0560' => 'dzi', 'Duzib132G0389' => 'dzi', 'Duzib150G1181' => 'dzi', 'Duzib168G0623' => 'dzi', 'Duzib170G1036' => 'dzi', 'Duzib212G0200' => 'dzi', 'Duzib248G0194' => 'dzi', 'ECA232G2193' => 'eca', 'ECA233G0302' => 'eca', 'ECA234G2813' => 'eca', 'ECA234G4866' => 'eca', 'ECA240G3932' => 'eca', 'ECA248G0385' => 'eca', 'EL10Ac2g04781' => 'bvu', 'EL10Ac3g06445' => 'bvu', 'EL10Ac7g15825' => 'bvu', 'EL10Ac8g18550' => 'bvu', 'Eucgr.B03849' => 'egr', 'Eucgr.I02744' => 'egr', 'Eucgr.J00264' => 'egr', 'Eucgr.J00493' => 'egr', 'FAN04G2181' => 'fan', 'FAN07G2666' => 'fan', 'FAN11G0024' => 'fan', 'FAN12G1105' => 'fan', 'FAN13G0302' => 'fan', 'FAN15G2781' => 'fan', 'FAN16G1274' => 'fan', 'FAN17G2988' => 'fan', 'FAN18G2621' => 'fan', 'FAN21G0013' => 'fan', 'FAN22G1211' => 'fan', 'FAN25G3626' => 'fan', 'FvH4_2g09491' => 'fve', 'FvH4_3g24910' => 'fve', 'FvH4_4g15630' => 'fve', 'FvH4_5g28820' => 'fve', 'Glyma.01G238000' => 'gma', 'Glyma.05G168400' => 'gma', 'Glyma.08G126800' => 'gma', 'Glyma.08G188500' => 'gma', 'Glyma.10G278900' => 'gma', 'Glyma.11G005700' => 'gma', 'Glyma.11G183300' => 'gma', 'Glyma.12G089200' => 'gma', 'Glyma.12G169400' => 'gma', 'Glyma.12G169500' => 'gma', 'Glyma.12G169600' => 'gma', 'Glyma.20G110800' => 'gma', 'Gohir.A03G192900' => 'ghi', 'Gohir.A03G193000' => 'ghi', 'Gohir.A05G080700' => 'ghi', 'Gohir.A09G216000' => 'ghi', 'Gohir.A12G027700' => 'ghi', 'Gohir.A13G036200' => 'ghi', 'Gohir.A13G222600' => 'ghi', 'Gohir.D02G213900' => 'ghi', 'Gohir.D02G214000' => 'ghi', 'Gohir.D05G083700' => 'ghi', 'Gohir.D05G083800' => 'ghi', 'Gohir.D05G083850' => 'ghi', 'Gohir.D08G015400' => 'ghi', 'Gohir.D09G218400' => 'ghi', 'Gohir.D12G027100' => 'ghi', 'Gohir.D13G034500' => 'ghi', 'Gohir.D13G227400' => 'ghi', 'Gorai.005G241800' => 'gra', 'Gorai.005G241900' => 'gra', 'Gorai.006G239400' => 'gra', 'Gorai.008G027600' => 'gra', 'Gorai.009G085400' => 'gra', 'Gorai.009G085500' => 'gra', 'Gorai.013G039000' => 'gra', 'Gorai.013G194800' => 'gra', 'Gorai.013G257900' => 'gra', 'GSVIVG01000982001' => 'vvi', 'GSVIVG01017981001' => 'vvi', 'HanXRQChr01g0024061' => 'han', 'HanXRQChr09g0247831' => 'han', 'HanXRQChr10g0294611' => 'han', 'HanXRQChr10g0294621' => 'han', 'HanXRQChr11g0346821' => 'han', 'HanXRQChr13g0397461' => 'han', 'HanXRQChr16g0513651' => 'han', 'HanXRQChr16g0513701' => 'han', 'Haze_00897' => 'cav', 'Haze_01745' => 'cav', 'Haze_02486' => 'cav', 'Haze_02487' => 'cav', 'Haze_23374' => 'cav', 'Hma1.2p1_0578F.1_g182520' => 'hma', 'Hma1.2p1_0602F.1_g187350' => 'hma', 'Hma1.2p1_0602F.1_g187360' => 'hma', 'Hma1.2p1_0874F.1_g231320' => 'hma', 'Hma1.2p1_1197F.1_g266210' => 'hma', 'Hma1.2p1_1197F.1_g266220' => 'hma', 'Hma1.2p1_2167F.1_g315895' => 'hma', 'Hma1.2p1_2190F.1_g316640' => 'hma', 'Hma1.2p1_3645F.1_g337153' => 'hma', 'HPP92_004907' => 'vpl', 'HPP92_012134' => 'vpl', 'HPP92_025136' => 'vpl', 'HPP92_026087' => 'vpl', 'Hund06782' => 'sun', 'Hund06784' => 'sun', 'Lalb_Chr01g0004861' => 'lal', 'Lalb_Chr02g0140591' => 'lal', 'Lalb_Chr02g0140611' => 'lal', 'Lalb_Chr03g0028101' => 'lal', 'Lalb_Chr07g0185791' => 'lal', 'Lalb_Chr12g0204491' => 'lal', 'Lalb_Chr13g0295671' => 'lal', 'Lalb_Chr19g0136461' => 'lal', 'Lalb_Chr21g0309191' => 'lal', 'Lj1g0028158' => 'lja', 'Lj1P236T38' => 'lonja', 'Lj2C32G2' => 'lonja', 'Lj2P944T8' => 'lonja', 'Lj2P963T15' => 'lonja', 'Lj3g0011788' => 'lja', 'Lj4g0025027' => 'lja', 'Lj5P255T36' => 'lonja', 'Lj6g0018866' => 'lja', 'Lj6P608T31' => 'lonja', 'LjContig00408g0008879' => 'lja', 'Lsat_1_v5_gn_5_105820' => 'lsa', 'Lsat_1_v5_gn_6_38800' => 'lsa', 'Lsat_1_v5_gn_7_67141' => 'lsa', 'Manes.04G003400' => 'mes', 'Manes.07G020000' => 'mes', 'Manes.07G020100' => 'mes', 'Manes.07G020150' => 'mes', 'Manes.10G061500' => 'mes', 'Manes.10G123200' => 'mes', 'Manes.11G161900' => 'mes', 'Manes.15G029300' => 'mes', 'Mapoly0071s0018' => 'mpo', 'Mapoly0082s0023' => 'mpo', 'Mapoly3477s0001' => 'mpo', 'MBI05_g31233_MAGBIO' => 'mbi', 'MBI09_g05946_MAGBIO' => 'mbi', 'MBI09_g05947_MAGBIO' => 'mbi', 'MBI17_g08346_MAGBIO' => 'mbi', 'MCO04G038' => 'mco', 'MCO09G370' => 'mco', 'MCO13G605' => 'mco', 'MD00G1075500' => 'mdo', 'MD03G1144300' => 'mdo', 'MD08G1236800' => 'mdo', 'MD13G1193300' => 'mdo', 'MD15G1428700' => 'mdo', 'Medtr1g112030' => 'mtr', 'Medtr1g112050' => 'mtr', 'Medtr2g006290' => 'mtr', 'Medtr2g086510' => 'mtr', 'Medtr4g053120' => 'mtr', 'Medtr5g006320' => 'mtr', 'Medtr8g088720' => 'mtr', 'MELO3C004712.2' => 'cme', 'MELO3C006533.2' => 'cme', 'MELO3C019438.2' => 'cme', 'MELO3C019440.2' => 'cme', 'MELO3C019441.2' => 'cme', 'MELO3C019895.2' => 'cme', 'Migut.B00811' => 'egut', 'Migut.D02447' => 'egut', 'Migut.F00875' => 'egut', 'Migut.N00186' => 'egut', 'Migut.N01051' => 'egut', 'Migut.N02491' => 'egut', 'Migut.O00784' => 'egut', 'MSTRG.12367' => 'ama', 'MSTRG.18756' => 'ama', 'MSTRG.21042' => 'ama', 'Nitab4.5_0000559g0040' => 'nta', 'Nitab4.5_0000667g0190' => 'nta', 'Nitab4.5_0000755g0160' => 'nta', 'Nitab4.5_0001216g0080' => 'nta', 'Nitab4.5_0004069g0040' => 'nta', 'Nitab4.5_0004129g0010' => 'nta', 'Nitab4.5_0005744g0030' => 'nta', 'Nitab4.5_0006996g0030' => 'nta', 'Nitab4.5_0008971g0040' => 'nta', 'Nitab4.5_0009769g0020' => 'nta', 'Nitab4.5_0009833g0010' => 'nta', 'Nitab4.5_0013140g0020' => 'nta', 'Nn003s41376' => 'nnu', 'Nn1g01857' => 'nnu', 'Nn1g03611' => 'nnu', 'Nn1g06853' => 'nnu', 'Nn3g18360' => 'nnu', 'Nn4g26328' => 'nnu', 'Nn5g27531' => 'nnu', 'Nn6g34899' => 'nnu', 'Nn7g36299' => 'nnu', 'Oeu021485.1' => 'oeu', 'Oeu022433.1' => 'oeu', 'Oeu032111.1' => 'oeu', 'Oeu051608.1' => 'oeu', 'Os01g0860601' => 'osa', 'Os03g0659200' => 'osa', 'Os03g0835900' => 'osa', 'Os04g0412200' => 'osa', 'Os05g0443500' => 'osa', 'Os07g0251500' => 'osa', 'Os08g0104600' => 'osa', 'Peaxi162Scf00003g00047' => 'pax', 'Peaxi162Scf00003g00052' => 'pax', 'Peaxi162Scf00003g00394' => 'pax', 'Peaxi162Scf00091g00621' => 'pax', 'Peaxi162Scf00152g00146' => 'pax', 'Peaxi162Scf00173g00025' => 'pax', 'Peaxi162Scf00195g00102' => 'pax', 'Peaxi162Scf00402g00013' => 'pax', 'Peaxi162Scf00519g00618' => 'pax', 'PGR004G2838' => 'pgr', 'PGR044G2275' => 'pgr', 'PGR102G1377' => 'pgr', 'PGR119G1245' => 'pgr', 'PGR142G4449' => 'pgr', 'PGSC0003DMG400004532' => 'stu', 'PGSC0003DMG400011950' => 'stu', 'PGSC0003DMG400023391' => 'stu', 'PGSC0003DMG400023985' => 'stu', 'PGSC0003DMG400026360' => 'stu', 'PGSC0003DMG400035711' => 'stu', 'PGSC0003DMG400037286' => 'stu', 'PGSC0003DMG402005881' => 'stu', 'Phvul.002G045400' => 'pvu', 'Phvul.006G216600' => 'pvu', 'Phvul.006G216700' => 'pvu', 'Phvul.006G216800' => 'pvu', 'Phvul.007G022500' => 'pvu', 'Phvul.011G094400' => 'pvu', 'Potri.001G470700' => 'ptr', 'Potri.003G015200' => 'ptr', 'Potri.004G202500' => 'ptr', 'Potri.004G218400' => 'ptr', 'Potri.008G020100' => 'ptr', 'Potri.008G153200' => 'ptr', 'Potri.009G163800' => 'ptr', 'Potri.010G087300' => 'ptr', 'Potri.010G239100' => 'ptr', 'Pp3c10_16100' => 'ppa', 'Pp3c10_16880' => 'ppa', 'Pp3c16_6230' => 'ppa', 'Pp3c17_18910' => 'ppa', 'Pp3c3_22119' => 'ppa', 'Pp3c3_22140' => 'ppa', 'Pp3c4_8159' => 'ppa', 'Pp3c4_8171' => 'ppa', 'Pp3c4_8330' => 'ppa', 'PRCOL_00004098' => 'pco', 'Prupe.1G013900' => 'ppe', 'Prupe.1G226300' => 'ppe', 'Prupe.1G573600' => 'ppe', 'Prupe.6G130100' => 'ppe', 'Psat3g090040' => 'psa', 'Psat4g210440' => 'psa', 'Psat6g231040' => 'psa', 'Psat6g231080' => 'psa', 'Psat7g063000' => 'psa', 'Psat7g188000' => 'psa', 'Psat7g188040' => 'psa', 'PSO017G0206' => 'pso', 'PSO170G0501' => 'pso', 'PSO170G6422' => 'pso', 'PSO210G7739' => 'pso', 'PSO339G1808' => 'pso', 'PSO339G6135' => 'pso', 'PSO384G0010' => 'pso', 'PSO384G0964' => 'pso', 'PSO761G0050' => 'pso', 'PSO782G4085' => 'pso', 'QL01p012264' => 'qlo', 'QL02p099491' => 'qlo', 'QL03p033868' => 'qlo', 'QL04p046678' => 'qlo', 'QL06p002448' => 'qlo', 'RcHm_v2.0_Chr4g0416181' => 'rch', 'RcHm_v2.0_Chr5g0044701' => 'rch', 'RcHm_v2.0_Chr6g0265781' => 'rch', 'RcHm_v2.0_Chr7g0221031' => 'rch', 'Rhsim04G0202000' => 'rsi', 'Rhsim11G0127300' => 'rsi', 'Rhsim13G0111800' => 'rsi', 'Sabra01G0165600' => 'sbr', 'Sabra03G0008300' => 'sbr', 'Sabra04G0136900' => 'sbr', 'Sabra08G0013400' => 'sbr', 'Sabra08G0116800' => 'sbr', 'Sabra09G0128000' => 'sbr', 'Sabra10G0055500' => 'sbr', 'Sabra10G0073300' => 'sbr', 'SalBow3G0385' => 'sbo', 'SalBow3G1119' => 'sbo', 'SalBow3G2005' => 'sbo', 'SalBow6G2563' => 'sbo', 'SalBow6G6386' => 'sbo', 'Sc06g0008800' => 'sci', 'Sc07g0004950' => 'sci', 'Sc09g0005340' => 'sci', 'Sc13g0004410' => 'sci', 'Sc21g0007090' => 'sci', 'Sed0009285' => 'sed', 'Sed0017583' => 'sed', 'Sed0019699' => 'sed', 'Sed0023107' => 'sed', 'SEGI_10916' => 'sgi', 'SEGI_16217' => 'sgi', 'SEGI_19466' => 'sgi', 'SEGI_41115' => 'sgi', 'SGA_v2.0_scaffold111G31534' => 'sas', 'SGA_v2.0_scaffold22G09864' => 'sas', 'SGA_v2.0_scaffold338G49219' => 'sas', 'SGA_v2.0_scaffold92G28298' => 'sas', 'SMO119G0064' => 'smo', 'SMO223G0038' => 'smo', 'SMO347G0584' => 'smo', 'SMO351G0010' => 'smo', 'SMO356G0404' => 'smo', 'Solyc01g103920.3' => 'sly', 'Solyc04g009710.2' => 'sly', 'Solyc05g055280.2' => 'sly', 'Solyc10g044520.3' => 'sly', 'Solyc10g075160.1' => 'sly', 'Solyc11g006910.3' => 'sly', 'Solyc11g068430.3' => 'sly', 'Sopen01g046310' => 'spe', 'Sopen03g001200' => 'spe', 'Sopen04g004830' => 'spe', 'Sopen05g033720' => 'spe', 'Sopen06g030740' => 'spe', 'Sopen10g013090' => 'spe', 'Sopen10g027630' => 'spe', 'Sopen10g027640' => 'spe', 'Sopen11g002820' => 'spe', 'Sopen11g027140' => 'spe', 'Sp1g09680' => 'spa', 'Sp2g03630' => 'spa', 'Sp4g10320' => 'spa', 'Sp6g33400' => 'spa', 'Sp7g13030' => 'spa', 'TAR365G0317' => 'tar', 'TAR376G0979' => 'tar', 'TAR623G1665' => 'tar', 'TAR633G2373' => 'tar', 'TAR636G1400' => 'tar', 'THA.LOC104800529' => 'tha', 'THA.LOC104808547' => 'tha', 'THA.LOC104809615' => 'tha', 'THA.LOC104815724' => 'tha', 'THA.LOC104818480' => 'tha', 'THA.LOC104819179' => 'tha', 'THA.LOC104822270' => 'tha', 'THA.LOC104826425' => 'tha', 'Thecc.02G089700' => 'tca', 'Thecc.04G232300' => 'tca', 'Thecc.09G283400' => 'tca', 'Thhalv10009020m.g' => 'esa', 'Thhalv10015506m.g' => 'esa', 'Thhalv10017364m.g' => 'esa', 'Thhalv10023742m.g' => 'esa', 'Thhalv10026483m.g' => 'esa', 'TPR.G17232' => 'tpr', 'TPR.G2133' => 'tpr', 'TPR.G2498' => 'tpr', 'TPR.G31942' => 'tpr', 'TPR.G37877' => 'tpr', 'TPR.G4571' => 'tpr', 'TWI14G1113' => 'twi', 'TWI15G0426' => 'twi', 'TWI31G1005' => 'twi', 'TWI38G0513' => 'twi', 'TWI38G1484' => 'twi', 'TWI73G1098' => 'twi', 'unitig_26.g10519' => 'ugi', 'unitig_736.g22395' => 'ugi', 'unitig_747.g21234' => 'ugi', 'unitig_747.g21942' => 'ugi', 'vmacro14351' => 'vma', 'VMungo0540G0082' => 'vmu', 'VMungo0540G0405' => 'vmu', 'VMungo0540G1486' => 'vmu', 'VMungo0540G1692' => 'vmu', 'VMungo0720G2473' => 'vmu', 'VMungo1127G1562' => 'vmu', 'VMungo1215G1918' => 'vmu', 'Zm00001eb052650' => 'zma', 'Zm00001eb063710' => 'zma', 'Zm00001eb083950' => 'zma', 'Zm00001eb174420' => 'zma', 'Zm00001eb260140' => 'zma', 'Zm00001eb260150' => 'zma', 'Zm00001eb260160' => 'zma', 'Zm00001eb348290' => 'zma', 'Zm00001eb366870' => 'zma', 'Zm00001eb421930' => 'zma' ) $gf_id = 'HOM05D001025' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001025' ) $data_identifier = 'HOM05D001025' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 19, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 2, 'amhyb' => (int) 4, 'aly' => (int) 4, 'aox' => (int) 4, 'arhy' => (int) 3, 'ath' => (int) 5, 'atr' => (int) 4, 'acertr' => (int) 3, 'cqu' => (int) 7, 'bca' => (int) 17, 'bol' => (int) 10, 'bra' => (int) 9, 'can' => (int) 10, 'cansat' => (int) 6, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 5, 'cbr' => (int) 5, 'ccan' => (int) 5, 'cde' => (int) 4, 'cfa' => (int) 3, 'ccl' => (int) 6, 'cil' => (int) 4, 'cla' => (int) 3, 'col' => (int) 3, 'cpa' => (int) 3, 'cre' => (int) 7, 'csa' => (int) 5, 'camsi' => (int) 9, 'dca' => (int) 4, 'din' => (int) 5, 'dzi' => (int) 7, 'eca' => (int) 6, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 12, 'fve' => (int) 4, 'gma' => (int) 12, 'ghi' => (int) 17, 'gra' => (int) 9, 'vvi' => (int) 2, 'han' => (int) 8, 'cav' => (int) 5, 'hma' => (int) 9, 'vpl' => (int) 4, 'sun' => (int) 2, 'lal' => (int) 9, 'lja' => (int) 5, 'lonja' => (int) 6, 'lsa' => (int) 3, 'mes' => (int) 8, 'mpo' => (int) 3, 'mbi' => (int) 4, 'mco' => (int) 3, 'mdo' => (int) 5, 'mtr' => (int) 7, 'cme' => (int) 6, 'egut' => (int) 7, 'ama' => (int) 3, 'nta' => (int) 12, 'nnu' => (int) 9, 'oeu' => (int) 4, 'osa' => (int) 7, 'pax' => (int) 9, 'pgr' => (int) 5, 'stu' => (int) 8, 'pvu' => (int) 6, 'ptr' => (int) 9, 'ppa' => (int) 9, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 7, 'pso' => (int) 10, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 3, 'sbr' => (int) 8, 'sbo' => (int) 5, 'sci' => (int) 5, 'sed' => (int) 4, 'sgi' => (int) 4, 'sas' => (int) 4, 'smo' => (int) 5, 'sly' => (int) 7, 'spe' => (int) 10, 'spa' => (int) 5, 'tar' => (int) 5, 'tha' => (int) 8, 'tca' => (int) 3, 'esa' => (int) 5, 'tpr' => (int) 6, 'twi' => (int) 6, 'ugi' => (int) 4, 'vma' => (int) 1, 'vmu' => (int) 7, 'zma' => (int) 10 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb421930' $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' => 'HOM05D001025', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '592', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p22650' => 'bna', 'A01p29720' => 'bna', 'A03p26560' => 'bna', 'A03p68820' => 'bna', 'A04p20980' => 'bna', 'A06p07730' => 'bna', 'A07p18260' => 'bna', 'A08p33710' => 'bna', 'A09p16970' => 'bna', 'A10p27490' => 'bna', 'Aa31LG1G17300' => 'aar', 'Aa31LG1G3910' => 'aar', 'Aa31LG2G9630' => 'aar', 'Aa31LG5G8360' => 'aar', 'Aa31LG9G2410' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4699' => 'aag', 'Actinidia23512' => 'ach', 'Actinidia37080' => 'ach', 'Ah.01g020380' => 'amhyb', 'Ah.08g215710' => 'amhyb', 'Ah.09g225110' => 'amhyb', 'Ah.10g036680' => 'amhyb', 'AL1G21940' => 'aly', 'AL2G15540' => 'aly', 'AL4G21520' => 'aly', 'AL7G40960' => 'aly', 'Aqoxy2G01191' => 'aox', 'Aqoxy2G03393' => 'aox', 'Aqoxy4G02775' => 'aox', 'Aqoxy6G00058' => 'aox', 'arahy.Tifrunner.gnm1.ann1.9X74H2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CW3FX9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R485W7' => 'arhy', 'AT1G10960' => 'ath', 'AT1G60950' => 'ath', 'AT2G27510' => 'ath', 'AT4G14890' => 'ath', 'AT5G10000' => 'ath', 'ATR0665G624' => 'atr', 'ATR0697G138' => 'atr', 'ATR0776G046' => 'atr', 'ATR1134G135' => 'atr', 'Atru.chr12.1025' => 'acertr', 'Atru.chr3.3241' => 'acertr', 'Atru.chr4.2460' => 'acertr', 'AUR62007427' => 'cqu', 'AUR62010960' => 'cqu', 'AUR62012201' => 'cqu', 'AUR62021470' => 'cqu', 'AUR62022834' => 'cqu', 'AUR62033635' => 'cqu', 'AUR62036186' => 'cqu', 'BcaB01g03077' => 'bca', 'BcaB02g10093' => 'bca', 'BcaB04g20295' => 'bca', 'BcaB06g28147' => 'bca', 'BcaB07g31253' => 'bca', 'BcaC01g04946' => 'bca', 'BcaC02g10614' => 'bca', 'BcaC02g10885' => 'bca', 'BcaC04g19356' => 'bca', 'BcaC04g22297' => 'bca', 'BcaC05g24977' => 'bca', 'BcaC06g31823' => 'bca', 'BcaC07g38633' => 'bca', 'BcaC09g49353' => 'bca', 'BcaC09g50168' => 'bca', 'BcaNung00322' => 'bca', 'BcaNung04769' => 'bca', 'BolC1t02753H' => 'bol', 'BolC1t03721H' => 'bol', 'BolC3t15525H' => 'bol', 'BolC4t23903H' => 'bol', 'BolC4t24231H' => 'bol', 'BolC4t27209H' => 'bol', 'BolC5t29671H' => 'bol', 'BolC8t49044H' => 'bol', 'BolC9t54999H' => 'bol', 'BolC9t59517H' => 'bol', 'BraA01t02178Z' => 'bra', 'BraA01t03099Z' => 'bra', 'BraA03t11867Z' => 'bra', 'BraA04t17667Z' => 'bra', 'BraA07t29542Z' => 'bra', 'BraA08t35287Z' => 'bra', 'BraA09t37334Z' => 'bra', 'BraA10t44801Z' => 'bra', 'BraSC39t46181Z' => 'bra', 'C01p28240' => 'bna', 'C01p37530' => 'bna', 'C03p31820' => 'bna', 'C04p24080' => 'bna', 'C04p25790' => 'bna', 'C04p56770' => 'bna', 'C05p09310' => 'bna', 'C09p21010' => 'bna', 'C09p67560' => 'bna', 'CAN.G1324.7' => 'can', 'CAN.G1358.10' => 'can', 'CAN.G1550.2' => 'can', 'CAN.G186.56' => 'can', 'CAN.G1965.1' => 'can', 'CAN.G645.15' => 'can', 'CAN.G798.26' => 'can', 'CAN.G798.27' => 'can', 'CAN.G798.29' => 'can', 'CAN.G919.31' => 'can', 'CANSAT11G0133' => 'cansat', 'CANSAT11G1171' => 'cansat', 'CANSAT11G2056' => 'cansat', 'CANSAT56G1202' => 'cansat', 'CANSAT56G1514' => 'cansat', 'CANSAT78G0455' => 'cansat', 'CARHR011190' => 'chi', 'CARHR051980' => 'chi', 'CARHR120170' => 'chi', 'CARHR203310' => 'chi', 'CARHR221490' => 'chi', 'Carub.0001s1054' => 'cru', 'Carub.0002s0431' => 'cru', 'Carub.0004s0818' => 'cru', 'Carub.0006s0846' => 'cru', 'Carub.0007s2722' => 'cru', 'Ca_00058_v3' => 'car', 'Ca_17831_v3' => 'car', 'Ca_19408_v3' => 'car', 'Ca_24397_v3' => 'car', 'Ca_25664_v3' => 'car', 'CBR_g21818' => 'cbr', 'CBR_g31195' => 'cbr', 'CBR_g32282' => 'cbr', 'CBR_g39599' => 'cbr', 'CBR_g49410' => 'cbr', 'Cc01_g09120' => 'ccan', 'Cc01_g09130' => 'ccan', 'Cc02_g09630' => 'ccan', 'Cc02_g22810' => 'ccan', 'Cc03_g03810' => 'ccan', 'CDE02G3718' => 'cde', 'CDE04G3183' => 'cde', 'CDE07G1046' => 'cde', 'CDE08G0480' => 'cde', 'Cfa005493' => 'cfa', 'Cfa010312' => 'cfa', 'Cfa015648' => 'cfa', 'Ciclev10002793m.g' => 'ccl', 'Ciclev10003356m.g' => 'ccl', 'Ciclev10006141m.g' => 'ccl', 'Ciclev10016676m.g' => 'ccl', 'Ciclev10017081m.g' => 'ccl', 'Ciclev10029499m.g' => 'ccl', 'CiPaw.01G166300' => 'cil', 'CiPaw.06G145600' => 'cil', 'CiPaw.13G040100' => 'cil', 'CiPaw.13G135800' => 'cil', 'ClCG01G012230' => 'cla', 'ClCG05G009510' => 'cla', 'ClCG08G008270' => 'cla', 'COL.COLO4_11763' => 'col', 'COL.COLO4_19876' => 'col', 'COL.COLO4_21481' => 'col', 'Cpa.g.sc118.34' => 'cpa', 'Cpa.g.sc32.13' => 'cpa', 'Cpa.g.sc58.103' => 'cpa', 'Cre03.g183850' => 'cre', 'Cre06.g306350' => 'cre', 'Cre07.g334800' => 'cre', 'Cre12.g487900' => 'cre', 'Cre14.g626700' => 'cre', 'Cre16.g658400' => 'cre', 'Cre17.g700950' => 'cre', 'CsaV3_1G014830' => 'csa', 'CsaV3_3G013320' => 'csa', 'CsaV3_3G019210' => 'csa', 'CsaV3_3G019220' => 'csa', 'CsaV3_6G004230' => 'csa', 'CSS0003773' => 'camsi', 'CSS0004563' => 'camsi', 'CSS0013949' => 'camsi', 'CSS0025971' => 'camsi', 'CSS0028570' => 'camsi', 'CSS0033127' => 'camsi', 'CSS0036051' => 'camsi', 'CSS0040087' => 'camsi', 'CSS0043179' => 'camsi', 'DCAR_006161' => 'dca', 'DCAR_010351' => 'dca', 'DCAR_012197' => 'dca', 'DCAR_024162' => 'dca', 'Dinv01030' => 'din', 'Dinv10924' => 'din', 'Dinv11835' => 'din', 'Dinv22841' => 'din', 'Dinv42553' => 'din', 'Duzib052G0560' => 'dzi', 'Duzib132G0389' => 'dzi', 'Duzib150G1181' => 'dzi', 'Duzib168G0623' => 'dzi', 'Duzib170G1036' => 'dzi', 'Duzib212G0200' => 'dzi', 'Duzib248G0194' => 'dzi', 'ECA232G2193' => 'eca', 'ECA233G0302' => 'eca', 'ECA234G2813' => 'eca', 'ECA234G4866' => 'eca', 'ECA240G3932' => 'eca', 'ECA248G0385' => 'eca', 'EL10Ac2g04781' => 'bvu', 'EL10Ac3g06445' => 'bvu', 'EL10Ac7g15825' => 'bvu', 'EL10Ac8g18550' => 'bvu', 'Eucgr.B03849' => 'egr', 'Eucgr.I02744' => 'egr', 'Eucgr.J00264' => 'egr', 'Eucgr.J00493' => 'egr', 'FAN04G2181' => 'fan', 'FAN07G2666' => 'fan', 'FAN11G0024' => 'fan', 'FAN12G1105' => 'fan', 'FAN13G0302' => 'fan', 'FAN15G2781' => 'fan', 'FAN16G1274' => 'fan', 'FAN17G2988' => 'fan', 'FAN18G2621' => 'fan', 'FAN21G0013' => 'fan', 'FAN22G1211' => 'fan', 'FAN25G3626' => 'fan', 'FvH4_2g09491' => 'fve', 'FvH4_3g24910' => 'fve', 'FvH4_4g15630' => 'fve', 'FvH4_5g28820' => 'fve', 'Glyma.01G238000' => 'gma', 'Glyma.05G168400' => 'gma', 'Glyma.08G126800' => 'gma', 'Glyma.08G188500' => 'gma', 'Glyma.10G278900' => 'gma', 'Glyma.11G005700' => 'gma', 'Glyma.11G183300' => 'gma', 'Glyma.12G089200' => 'gma', 'Glyma.12G169400' => 'gma', 'Glyma.12G169500' => 'gma', 'Glyma.12G169600' => 'gma', 'Glyma.20G110800' => 'gma', 'Gohir.A03G192900' => 'ghi', 'Gohir.A03G193000' => 'ghi', 'Gohir.A05G080700' => 'ghi', 'Gohir.A09G216000' => 'ghi', 'Gohir.A12G027700' => 'ghi', 'Gohir.A13G036200' => 'ghi', 'Gohir.A13G222600' => 'ghi', 'Gohir.D02G213900' => 'ghi', 'Gohir.D02G214000' => 'ghi', 'Gohir.D05G083700' => 'ghi', 'Gohir.D05G083800' => 'ghi', 'Gohir.D05G083850' => 'ghi', 'Gohir.D08G015400' => 'ghi', 'Gohir.D09G218400' => 'ghi', 'Gohir.D12G027100' => 'ghi', 'Gohir.D13G034500' => 'ghi', 'Gohir.D13G227400' => 'ghi', 'Gorai.005G241800' => 'gra', 'Gorai.005G241900' => 'gra', 'Gorai.006G239400' => 'gra', 'Gorai.008G027600' => 'gra', 'Gorai.009G085400' => 'gra', 'Gorai.009G085500' => 'gra', 'Gorai.013G039000' => 'gra', 'Gorai.013G194800' => 'gra', 'Gorai.013G257900' => 'gra', 'GSVIVG01000982001' => 'vvi', 'GSVIVG01017981001' => 'vvi', 'HanXRQChr01g0024061' => 'han', 'HanXRQChr09g0247831' => 'han', 'HanXRQChr10g0294611' => 'han', 'HanXRQChr10g0294621' => 'han', 'HanXRQChr11g0346821' => 'han', 'HanXRQChr13g0397461' => 'han', 'HanXRQChr16g0513651' => 'han', 'HanXRQChr16g0513701' => 'han', 'Haze_00897' => 'cav', 'Haze_01745' => 'cav', 'Haze_02486' => 'cav', 'Haze_02487' => 'cav', 'Haze_23374' => 'cav', 'Hma1.2p1_0578F.1_g182520' => 'hma', 'Hma1.2p1_0602F.1_g187350' => 'hma', 'Hma1.2p1_0602F.1_g187360' => 'hma', 'Hma1.2p1_0874F.1_g231320' => 'hma', 'Hma1.2p1_1197F.1_g266210' => 'hma', 'Hma1.2p1_1197F.1_g266220' => 'hma', 'Hma1.2p1_2167F.1_g315895' => 'hma', 'Hma1.2p1_2190F.1_g316640' => 'hma', 'Hma1.2p1_3645F.1_g337153' => 'hma', 'HPP92_004907' => 'vpl', 'HPP92_012134' => 'vpl', 'HPP92_025136' => 'vpl', 'HPP92_026087' => 'vpl', 'Hund06782' => 'sun', 'Hund06784' => 'sun', 'Lalb_Chr01g0004861' => 'lal', 'Lalb_Chr02g0140591' => 'lal', 'Lalb_Chr02g0140611' => 'lal', 'Lalb_Chr03g0028101' => 'lal', 'Lalb_Chr07g0185791' => 'lal', 'Lalb_Chr12g0204491' => 'lal', 'Lalb_Chr13g0295671' => 'lal', 'Lalb_Chr19g0136461' => 'lal', 'Lalb_Chr21g0309191' => 'lal', 'Lj1g0028158' => 'lja', 'Lj1P236T38' => 'lonja', 'Lj2C32G2' => 'lonja', 'Lj2P944T8' => 'lonja', 'Lj2P963T15' => 'lonja', 'Lj3g0011788' => 'lja', 'Lj4g0025027' => 'lja', 'Lj5P255T36' => 'lonja', 'Lj6g0018866' => 'lja', 'Lj6P608T31' => 'lonja', 'LjContig00408g0008879' => 'lja', 'Lsat_1_v5_gn_5_105820' => 'lsa', 'Lsat_1_v5_gn_6_38800' => 'lsa', 'Lsat_1_v5_gn_7_67141' => 'lsa', 'Manes.04G003400' => 'mes', 'Manes.07G020000' => 'mes', 'Manes.07G020100' => 'mes', 'Manes.07G020150' => 'mes', 'Manes.10G061500' => 'mes', 'Manes.10G123200' => 'mes', 'Manes.11G161900' => 'mes', 'Manes.15G029300' => 'mes', 'Mapoly0071s0018' => 'mpo', 'Mapoly0082s0023' => 'mpo', 'Mapoly3477s0001' => 'mpo', 'MBI05_g31233_MAGBIO' => 'mbi', 'MBI09_g05946_MAGBIO' => 'mbi', 'MBI09_g05947_MAGBIO' => 'mbi', 'MBI17_g08346_MAGBIO' => 'mbi', 'MCO04G038' => 'mco', 'MCO09G370' => 'mco', 'MCO13G605' => 'mco', 'MD00G1075500' => 'mdo', 'MD03G1144300' => 'mdo', 'MD08G1236800' => 'mdo', 'MD13G1193300' => 'mdo', 'MD15G1428700' => 'mdo', 'Medtr1g112030' => 'mtr', 'Medtr1g112050' => 'mtr', 'Medtr2g006290' => 'mtr', 'Medtr2g086510' => 'mtr', 'Medtr4g053120' => 'mtr', 'Medtr5g006320' => 'mtr', 'Medtr8g088720' => 'mtr', 'MELO3C004712.2' => 'cme', 'MELO3C006533.2' => 'cme', 'MELO3C019438.2' => 'cme', 'MELO3C019440.2' => 'cme', 'MELO3C019441.2' => 'cme', 'MELO3C019895.2' => 'cme', 'Migut.B00811' => 'egut', 'Migut.D02447' => 'egut', 'Migut.F00875' => 'egut', 'Migut.N00186' => 'egut', 'Migut.N01051' => 'egut', 'Migut.N02491' => 'egut', 'Migut.O00784' => 'egut', 'MSTRG.12367' => 'ama', 'MSTRG.18756' => 'ama', 'MSTRG.21042' => 'ama', 'Nitab4.5_0000559g0040' => 'nta', 'Nitab4.5_0000667g0190' => 'nta', 'Nitab4.5_0000755g0160' => 'nta', 'Nitab4.5_0001216g0080' => 'nta', 'Nitab4.5_0004069g0040' => 'nta', 'Nitab4.5_0004129g0010' => 'nta', 'Nitab4.5_0005744g0030' => 'nta', 'Nitab4.5_0006996g0030' => 'nta', 'Nitab4.5_0008971g0040' => 'nta', 'Nitab4.5_0009769g0020' => 'nta', 'Nitab4.5_0009833g0010' => 'nta', 'Nitab4.5_0013140g0020' => 'nta', 'Nn003s41376' => 'nnu', 'Nn1g01857' => 'nnu', 'Nn1g03611' => 'nnu', 'Nn1g06853' => 'nnu', 'Nn3g18360' => 'nnu', 'Nn4g26328' => 'nnu', 'Nn5g27531' => 'nnu', 'Nn6g34899' => 'nnu', 'Nn7g36299' => 'nnu', 'Oeu021485.1' => 'oeu', 'Oeu022433.1' => 'oeu', 'Oeu032111.1' => 'oeu', 'Oeu051608.1' => 'oeu', 'Os01g0860601' => 'osa', 'Os03g0659200' => 'osa', 'Os03g0835900' => 'osa', 'Os04g0412200' => 'osa', 'Os05g0443500' => 'osa', 'Os07g0251500' => 'osa', 'Os08g0104600' => 'osa', 'Peaxi162Scf00003g00047' => 'pax', 'Peaxi162Scf00003g00052' => 'pax', 'Peaxi162Scf00003g00394' => 'pax', 'Peaxi162Scf00091g00621' => 'pax', 'Peaxi162Scf00152g00146' => 'pax', 'Peaxi162Scf00173g00025' => 'pax', 'Peaxi162Scf00195g00102' => 'pax', 'Peaxi162Scf00402g00013' => 'pax', 'Peaxi162Scf00519g00618' => 'pax', 'PGR004G2838' => 'pgr', 'PGR044G2275' => 'pgr', 'PGR102G1377' => 'pgr', 'PGR119G1245' => 'pgr', 'PGR142G4449' => 'pgr', 'PGSC0003DMG400004532' => 'stu', 'PGSC0003DMG400011950' => 'stu', 'PGSC0003DMG400023391' => 'stu', 'PGSC0003DMG400023985' => 'stu', 'PGSC0003DMG400026360' => 'stu', 'PGSC0003DMG400035711' => 'stu', 'PGSC0003DMG400037286' => 'stu', 'PGSC0003DMG402005881' => 'stu', 'Phvul.002G045400' => 'pvu', 'Phvul.006G216600' => 'pvu', 'Phvul.006G216700' => 'pvu', 'Phvul.006G216800' => 'pvu', 'Phvul.007G022500' => 'pvu', 'Phvul.011G094400' => 'pvu', 'Potri.001G470700' => 'ptr', 'Potri.003G015200' => 'ptr', 'Potri.004G202500' => 'ptr', 'Potri.004G218400' => 'ptr', 'Potri.008G020100' => 'ptr', 'Potri.008G153200' => 'ptr', 'Potri.009G163800' => 'ptr', 'Potri.010G087300' => 'ptr', 'Potri.010G239100' => 'ptr', 'Pp3c10_16100' => 'ppa', 'Pp3c10_16880' => 'ppa', 'Pp3c16_6230' => 'ppa', 'Pp3c17_18910' => 'ppa', 'Pp3c3_22119' => 'ppa', 'Pp3c3_22140' => 'ppa', 'Pp3c4_8159' => 'ppa', 'Pp3c4_8171' => 'ppa', 'Pp3c4_8330' => 'ppa', 'PRCOL_00004098' => 'pco', 'Prupe.1G013900' => 'ppe', 'Prupe.1G226300' => 'ppe', 'Prupe.1G573600' => 'ppe', 'Prupe.6G130100' => 'ppe', 'Psat3g090040' => 'psa', 'Psat4g210440' => 'psa', 'Psat6g231040' => 'psa', 'Psat6g231080' => 'psa', 'Psat7g063000' => 'psa', 'Psat7g188000' => 'psa', 'Psat7g188040' => 'psa', 'PSO017G0206' => 'pso', 'PSO170G0501' => 'pso', 'PSO170G6422' => 'pso', 'PSO210G7739' => 'pso', 'PSO339G1808' => 'pso', 'PSO339G6135' => 'pso', 'PSO384G0010' => 'pso', 'PSO384G0964' => 'pso', 'PSO761G0050' => 'pso', 'PSO782G4085' => 'pso', 'QL01p012264' => 'qlo', 'QL02p099491' => 'qlo', 'QL03p033868' => 'qlo', 'QL04p046678' => 'qlo', 'QL06p002448' => 'qlo', 'RcHm_v2.0_Chr4g0416181' => 'rch', 'RcHm_v2.0_Chr5g0044701' => 'rch', 'RcHm_v2.0_Chr6g0265781' => 'rch', 'RcHm_v2.0_Chr7g0221031' => 'rch', 'Rhsim04G0202000' => 'rsi', 'Rhsim11G0127300' => 'rsi', 'Rhsim13G0111800' => 'rsi', 'Sabra01G0165600' => 'sbr', 'Sabra03G0008300' => 'sbr', 'Sabra04G0136900' => 'sbr', 'Sabra08G0013400' => 'sbr', 'Sabra08G0116800' => 'sbr', 'Sabra09G0128000' => 'sbr', 'Sabra10G0055500' => 'sbr', 'Sabra10G0073300' => 'sbr', 'SalBow3G0385' => 'sbo', 'SalBow3G1119' => 'sbo', 'SalBow3G2005' => 'sbo', 'SalBow6G2563' => 'sbo', 'SalBow6G6386' => 'sbo', 'Sc06g0008800' => 'sci', 'Sc07g0004950' => 'sci', 'Sc09g0005340' => 'sci', 'Sc13g0004410' => 'sci', 'Sc21g0007090' => 'sci', 'Sed0009285' => 'sed', 'Sed0017583' => 'sed', 'Sed0019699' => 'sed', 'Sed0023107' => 'sed', 'SEGI_10916' => 'sgi', 'SEGI_16217' => 'sgi', 'SEGI_19466' => 'sgi', 'SEGI_41115' => 'sgi', 'SGA_v2.0_scaffold111G31534' => 'sas', 'SGA_v2.0_scaffold22G09864' => 'sas', 'SGA_v2.0_scaffold338G49219' => 'sas', 'SGA_v2.0_scaffold92G28298' => 'sas', 'SMO119G0064' => 'smo', 'SMO223G0038' => 'smo', 'SMO347G0584' => 'smo', 'SMO351G0010' => 'smo', 'SMO356G0404' => 'smo', 'Solyc01g103920.3' => 'sly', 'Solyc04g009710.2' => 'sly', 'Solyc05g055280.2' => 'sly', 'Solyc10g044520.3' => 'sly', 'Solyc10g075160.1' => 'sly', 'Solyc11g006910.3' => 'sly', 'Solyc11g068430.3' => 'sly', 'Sopen01g046310' => 'spe', 'Sopen03g001200' => 'spe', 'Sopen04g004830' => 'spe', 'Sopen05g033720' => 'spe', 'Sopen06g030740' => 'spe', 'Sopen10g013090' => 'spe', 'Sopen10g027630' => 'spe', 'Sopen10g027640' => 'spe', 'Sopen11g002820' => 'spe', 'Sopen11g027140' => 'spe', 'Sp1g09680' => 'spa', 'Sp2g03630' => 'spa', 'Sp4g10320' => 'spa', 'Sp6g33400' => 'spa', 'Sp7g13030' => 'spa', 'TAR365G0317' => 'tar', 'TAR376G0979' => 'tar', 'TAR623G1665' => 'tar', 'TAR633G2373' => 'tar', 'TAR636G1400' => 'tar', 'THA.LOC104800529' => 'tha', 'THA.LOC104808547' => 'tha', 'THA.LOC104809615' => 'tha', 'THA.LOC104815724' => 'tha', 'THA.LOC104818480' => 'tha', 'THA.LOC104819179' => 'tha', 'THA.LOC104822270' => 'tha', 'THA.LOC104826425' => 'tha', 'Thecc.02G089700' => 'tca', 'Thecc.04G232300' => 'tca', 'Thecc.09G283400' => 'tca', 'Thhalv10009020m.g' => 'esa', 'Thhalv10015506m.g' => 'esa', 'Thhalv10017364m.g' => 'esa', 'Thhalv10023742m.g' => 'esa', 'Thhalv10026483m.g' => 'esa', 'TPR.G17232' => 'tpr', 'TPR.G2133' => 'tpr', 'TPR.G2498' => 'tpr', 'TPR.G31942' => 'tpr', 'TPR.G37877' => 'tpr', 'TPR.G4571' => 'tpr', 'TWI14G1113' => 'twi', 'TWI15G0426' => 'twi', 'TWI31G1005' => 'twi', 'TWI38G0513' => 'twi', 'TWI38G1484' => 'twi', 'TWI73G1098' => 'twi', 'unitig_26.g10519' => 'ugi', 'unitig_736.g22395' => 'ugi', 'unitig_747.g21234' => 'ugi', 'unitig_747.g21942' => 'ugi', 'vmacro14351' => 'vma', 'VMungo0540G0082' => 'vmu', 'VMungo0540G0405' => 'vmu', 'VMungo0540G1486' => 'vmu', 'VMungo0540G1692' => 'vmu', 'VMungo0720G2473' => 'vmu', 'VMungo1127G1562' => 'vmu', 'VMungo1215G1918' => 'vmu', 'Zm00001eb052650' => 'zma', 'Zm00001eb063710' => 'zma', 'Zm00001eb083950' => 'zma', 'Zm00001eb174420' => 'zma', 'Zm00001eb260140' => 'zma', 'Zm00001eb260150' => 'zma', 'Zm00001eb260160' => 'zma', 'Zm00001eb348290' => 'zma', 'Zm00001eb366870' => 'zma', 'Zm00001eb421930' => 'zma' ), 'gf_id' => 'HOM05D001025', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001025' ), 'data_identifier' => 'HOM05D001025', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001025', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '592', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p22650' => 'bna', 'A01p29720' => 'bna', 'A03p26560' => 'bna', 'A03p68820' => 'bna', 'A04p20980' => 'bna', 'A06p07730' => 'bna', 'A07p18260' => 'bna', 'A08p33710' => 'bna', 'A09p16970' => 'bna', 'A10p27490' => 'bna', 'Aa31LG1G17300' => 'aar', 'Aa31LG1G3910' => 'aar', 'Aa31LG2G9630' => 'aar', 'Aa31LG5G8360' => 'aar', 'Aa31LG9G2410' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4699' => 'aag', 'Actinidia23512' => 'ach', 'Actinidia37080' => 'ach', 'Ah.01g020380' => 'amhyb', 'Ah.08g215710' => 'amhyb', 'Ah.09g225110' => 'amhyb', 'Ah.10g036680' => 'amhyb', 'AL1G21940' => 'aly', 'AL2G15540' => 'aly', 'AL4G21520' => 'aly', 'AL7G40960' => 'aly', 'Aqoxy2G01191' => 'aox', 'Aqoxy2G03393' => 'aox', 'Aqoxy4G02775' => 'aox', 'Aqoxy6G00058' => 'aox', 'arahy.Tifrunner.gnm1.ann1.9X74H2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CW3FX9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R485W7' => 'arhy', 'AT1G10960' => 'ath', 'AT1G60950' => 'ath', 'AT2G27510' => 'ath', 'AT4G14890' => 'ath', 'AT5G10000' => 'ath', 'ATR0665G624' => 'atr', 'ATR0697G138' => 'atr', 'ATR0776G046' => 'atr', 'ATR1134G135' => 'atr', 'Atru.chr12.1025' => 'acertr', 'Atru.chr3.3241' => 'acertr', 'Atru.chr4.2460' => 'acertr', 'AUR62007427' => 'cqu', 'AUR62010960' => 'cqu', 'AUR62012201' => 'cqu', 'AUR62021470' => 'cqu', 'AUR62022834' => 'cqu', 'AUR62033635' => 'cqu', 'AUR62036186' => 'cqu', 'BcaB01g03077' => 'bca', 'BcaB02g10093' => 'bca', 'BcaB04g20295' => 'bca', 'BcaB06g28147' => 'bca', 'BcaB07g31253' => 'bca', 'BcaC01g04946' => 'bca', 'BcaC02g10614' => 'bca', 'BcaC02g10885' => 'bca', 'BcaC04g19356' => 'bca', 'BcaC04g22297' => 'bca', 'BcaC05g24977' => 'bca', 'BcaC06g31823' => 'bca', 'BcaC07g38633' => 'bca', 'BcaC09g49353' => 'bca', 'BcaC09g50168' => 'bca', 'BcaNung00322' => 'bca', 'BcaNung04769' => 'bca', 'BolC1t02753H' => 'bol', 'BolC1t03721H' => 'bol', 'BolC3t15525H' => 'bol', 'BolC4t23903H' => 'bol', 'BolC4t24231H' => 'bol', 'BolC4t27209H' => 'bol', 'BolC5t29671H' => 'bol', 'BolC8t49044H' => 'bol', 'BolC9t54999H' => 'bol', 'BolC9t59517H' => 'bol', 'BraA01t02178Z' => 'bra', 'BraA01t03099Z' => 'bra', 'BraA03t11867Z' => 'bra', 'BraA04t17667Z' => 'bra', 'BraA07t29542Z' => 'bra', 'BraA08t35287Z' => 'bra', 'BraA09t37334Z' => 'bra', 'BraA10t44801Z' => 'bra', 'BraSC39t46181Z' => 'bra', 'C01p28240' => 'bna', 'C01p37530' => 'bna', 'C03p31820' => 'bna', 'C04p24080' => 'bna', 'C04p25790' => 'bna', 'C04p56770' => 'bna', 'C05p09310' => 'bna', 'C09p21010' => 'bna', 'C09p67560' => 'bna', 'CAN.G1324.7' => 'can', 'CAN.G1358.10' => 'can', 'CAN.G1550.2' => 'can', 'CAN.G186.56' => 'can', 'CAN.G1965.1' => 'can', 'CAN.G645.15' => 'can', 'CAN.G798.26' => 'can', 'CAN.G798.27' => 'can', 'CAN.G798.29' => 'can', 'CAN.G919.31' => 'can', 'CANSAT11G0133' => 'cansat', 'CANSAT11G1171' => 'cansat', 'CANSAT11G2056' => 'cansat', 'CANSAT56G1202' => 'cansat', 'CANSAT56G1514' => 'cansat', 'CANSAT78G0455' => 'cansat', 'CARHR011190' => 'chi', 'CARHR051980' => 'chi', 'CARHR120170' => 'chi', 'CARHR203310' => 'chi', 'CARHR221490' => 'chi', 'Carub.0001s1054' => 'cru', 'Carub.0002s0431' => 'cru', 'Carub.0004s0818' => 'cru', 'Carub.0006s0846' => 'cru', 'Carub.0007s2722' => 'cru', 'Ca_00058_v3' => 'car', 'Ca_17831_v3' => 'car', 'Ca_19408_v3' => 'car', 'Ca_24397_v3' => 'car', 'Ca_25664_v3' => 'car', 'CBR_g21818' => 'cbr', 'CBR_g31195' => 'cbr', 'CBR_g32282' => 'cbr', 'CBR_g39599' => 'cbr', 'CBR_g49410' => 'cbr', 'Cc01_g09120' => 'ccan', 'Cc01_g09130' => 'ccan', 'Cc02_g09630' => 'ccan', 'Cc02_g22810' => 'ccan', 'Cc03_g03810' => 'ccan', 'CDE02G3718' => 'cde', 'CDE04G3183' => 'cde', 'CDE07G1046' => 'cde', 'CDE08G0480' => 'cde', 'Cfa005493' => 'cfa', 'Cfa010312' => 'cfa', 'Cfa015648' => 'cfa', 'Ciclev10002793m.g' => 'ccl', 'Ciclev10003356m.g' => 'ccl', 'Ciclev10006141m.g' => 'ccl', 'Ciclev10016676m.g' => 'ccl', 'Ciclev10017081m.g' => 'ccl', 'Ciclev10029499m.g' => 'ccl', 'CiPaw.01G166300' => 'cil', 'CiPaw.06G145600' => 'cil', 'CiPaw.13G040100' => 'cil', 'CiPaw.13G135800' => 'cil', 'ClCG01G012230' => 'cla', 'ClCG05G009510' => 'cla', 'ClCG08G008270' => 'cla', 'COL.COLO4_11763' => 'col', 'COL.COLO4_19876' => 'col', 'COL.COLO4_21481' => 'col', 'Cpa.g.sc118.34' => 'cpa', 'Cpa.g.sc32.13' => 'cpa', 'Cpa.g.sc58.103' => 'cpa', 'Cre03.g183850' => 'cre', 'Cre06.g306350' => 'cre', 'Cre07.g334800' => 'cre', 'Cre12.g487900' => 'cre', 'Cre14.g626700' => 'cre', 'Cre16.g658400' => 'cre', 'Cre17.g700950' => 'cre', 'CsaV3_1G014830' => 'csa', 'CsaV3_3G013320' => 'csa', 'CsaV3_3G019210' => 'csa', 'CsaV3_3G019220' => 'csa', 'CsaV3_6G004230' => 'csa', 'CSS0003773' => 'camsi', 'CSS0004563' => 'camsi', 'CSS0013949' => 'camsi', 'CSS0025971' => 'camsi', 'CSS0028570' => 'camsi', 'CSS0033127' => 'camsi', 'CSS0036051' => 'camsi', 'CSS0040087' => 'camsi', 'CSS0043179' => 'camsi', 'DCAR_006161' => 'dca', 'DCAR_010351' => 'dca', 'DCAR_012197' => 'dca', 'DCAR_024162' => 'dca', 'Dinv01030' => 'din', 'Dinv10924' => 'din', 'Dinv11835' => 'din', 'Dinv22841' => 'din', 'Dinv42553' => 'din', 'Duzib052G0560' => 'dzi', 'Duzib132G0389' => 'dzi', 'Duzib150G1181' => 'dzi', 'Duzib168G0623' => 'dzi', 'Duzib170G1036' => 'dzi', 'Duzib212G0200' => 'dzi', 'Duzib248G0194' => 'dzi', 'ECA232G2193' => 'eca', 'ECA233G0302' => 'eca', 'ECA234G2813' => 'eca', 'ECA234G4866' => 'eca', 'ECA240G3932' => 'eca', 'ECA248G0385' => 'eca', 'EL10Ac2g04781' => 'bvu', 'EL10Ac3g06445' => 'bvu', 'EL10Ac7g15825' => 'bvu', 'EL10Ac8g18550' => 'bvu', 'Eucgr.B03849' => 'egr', 'Eucgr.I02744' => 'egr', 'Eucgr.J00264' => 'egr', 'Eucgr.J00493' => 'egr', 'FAN04G2181' => 'fan', 'FAN07G2666' => 'fan', 'FAN11G0024' => 'fan', 'FAN12G1105' => 'fan', 'FAN13G0302' => 'fan', 'FAN15G2781' => 'fan', 'FAN16G1274' => 'fan', 'FAN17G2988' => 'fan', 'FAN18G2621' => 'fan', 'FAN21G0013' => 'fan', 'FAN22G1211' => 'fan', 'FAN25G3626' => 'fan', 'FvH4_2g09491' => 'fve', 'FvH4_3g24910' => 'fve', 'FvH4_4g15630' => 'fve', 'FvH4_5g28820' => 'fve', 'Glyma.01G238000' => 'gma', 'Glyma.05G168400' => 'gma', 'Glyma.08G126800' => 'gma', 'Glyma.08G188500' => 'gma', 'Glyma.10G278900' => 'gma', 'Glyma.11G005700' => 'gma', 'Glyma.11G183300' => 'gma', 'Glyma.12G089200' => 'gma', 'Glyma.12G169400' => 'gma', 'Glyma.12G169500' => 'gma', 'Glyma.12G169600' => 'gma', 'Glyma.20G110800' => 'gma', 'Gohir.A03G192900' => 'ghi', 'Gohir.A03G193000' => 'ghi', 'Gohir.A05G080700' => 'ghi', 'Gohir.A09G216000' => 'ghi', 'Gohir.A12G027700' => 'ghi', 'Gohir.A13G036200' => 'ghi', 'Gohir.A13G222600' => 'ghi', 'Gohir.D02G213900' => 'ghi', 'Gohir.D02G214000' => 'ghi', 'Gohir.D05G083700' => 'ghi', 'Gohir.D05G083800' => 'ghi', 'Gohir.D05G083850' => 'ghi', 'Gohir.D08G015400' => 'ghi', 'Gohir.D09G218400' => 'ghi', 'Gohir.D12G027100' => 'ghi', 'Gohir.D13G034500' => 'ghi', 'Gohir.D13G227400' => 'ghi', 'Gorai.005G241800' => 'gra', 'Gorai.005G241900' => 'gra', 'Gorai.006G239400' => 'gra', 'Gorai.008G027600' => 'gra', 'Gorai.009G085400' => 'gra', 'Gorai.009G085500' => 'gra', 'Gorai.013G039000' => 'gra', 'Gorai.013G194800' => 'gra', 'Gorai.013G257900' => 'gra', 'GSVIVG01000982001' => 'vvi', 'GSVIVG01017981001' => 'vvi', 'HanXRQChr01g0024061' => 'han', 'HanXRQChr09g0247831' => 'han', 'HanXRQChr10g0294611' => 'han', 'HanXRQChr10g0294621' => 'han', 'HanXRQChr11g0346821' => 'han', 'HanXRQChr13g0397461' => 'han', 'HanXRQChr16g0513651' => 'han', 'HanXRQChr16g0513701' => 'han', 'Haze_00897' => 'cav', 'Haze_01745' => 'cav', 'Haze_02486' => 'cav', 'Haze_02487' => 'cav', 'Haze_23374' => 'cav', 'Hma1.2p1_0578F.1_g182520' => 'hma', 'Hma1.2p1_0602F.1_g187350' => 'hma', 'Hma1.2p1_0602F.1_g187360' => 'hma', 'Hma1.2p1_0874F.1_g231320' => 'hma', 'Hma1.2p1_1197F.1_g266210' => 'hma', 'Hma1.2p1_1197F.1_g266220' => 'hma', 'Hma1.2p1_2167F.1_g315895' => 'hma', 'Hma1.2p1_2190F.1_g316640' => 'hma', 'Hma1.2p1_3645F.1_g337153' => 'hma', 'HPP92_004907' => 'vpl', 'HPP92_012134' => 'vpl', 'HPP92_025136' => 'vpl', 'HPP92_026087' => 'vpl', 'Hund06782' => 'sun', 'Hund06784' => 'sun', 'Lalb_Chr01g0004861' => 'lal', 'Lalb_Chr02g0140591' => 'lal', 'Lalb_Chr02g0140611' => 'lal', 'Lalb_Chr03g0028101' => 'lal', 'Lalb_Chr07g0185791' => 'lal', 'Lalb_Chr12g0204491' => 'lal', 'Lalb_Chr13g0295671' => 'lal', 'Lalb_Chr19g0136461' => 'lal', 'Lalb_Chr21g0309191' => 'lal', 'Lj1g0028158' => 'lja', 'Lj1P236T38' => 'lonja', 'Lj2C32G2' => 'lonja', 'Lj2P944T8' => 'lonja', 'Lj2P963T15' => 'lonja', 'Lj3g0011788' => 'lja', 'Lj4g0025027' => 'lja', 'Lj5P255T36' => 'lonja', 'Lj6g0018866' => 'lja', 'Lj6P608T31' => 'lonja', 'LjContig00408g0008879' => 'lja', 'Lsat_1_v5_gn_5_105820' => 'lsa', 'Lsat_1_v5_gn_6_38800' => 'lsa', 'Lsat_1_v5_gn_7_67141' => 'lsa', 'Manes.04G003400' => 'mes', 'Manes.07G020000' => 'mes', 'Manes.07G020100' => 'mes', 'Manes.07G020150' => 'mes', 'Manes.10G061500' => 'mes', 'Manes.10G123200' => 'mes', 'Manes.11G161900' => 'mes', 'Manes.15G029300' => 'mes', 'Mapoly0071s0018' => 'mpo', 'Mapoly0082s0023' => 'mpo', 'Mapoly3477s0001' => 'mpo', 'MBI05_g31233_MAGBIO' => 'mbi', 'MBI09_g05946_MAGBIO' => 'mbi', 'MBI09_g05947_MAGBIO' => 'mbi', 'MBI17_g08346_MAGBIO' => 'mbi', 'MCO04G038' => 'mco', 'MCO09G370' => 'mco', 'MCO13G605' => 'mco', 'MD00G1075500' => 'mdo', 'MD03G1144300' => 'mdo', 'MD08G1236800' => 'mdo', 'MD13G1193300' => 'mdo', 'MD15G1428700' => 'mdo', 'Medtr1g112030' => 'mtr', 'Medtr1g112050' => 'mtr', 'Medtr2g006290' => 'mtr', 'Medtr2g086510' => 'mtr', 'Medtr4g053120' => 'mtr', 'Medtr5g006320' => 'mtr', 'Medtr8g088720' => 'mtr', 'MELO3C004712.2' => 'cme', 'MELO3C006533.2' => 'cme', 'MELO3C019438.2' => 'cme', 'MELO3C019440.2' => 'cme', 'MELO3C019441.2' => 'cme', 'MELO3C019895.2' => 'cme', 'Migut.B00811' => 'egut', 'Migut.D02447' => 'egut', 'Migut.F00875' => 'egut', 'Migut.N00186' => 'egut', 'Migut.N01051' => 'egut', 'Migut.N02491' => 'egut', 'Migut.O00784' => 'egut', 'MSTRG.12367' => 'ama', 'MSTRG.18756' => 'ama', 'MSTRG.21042' => 'ama', 'Nitab4.5_0000559g0040' => 'nta', 'Nitab4.5_0000667g0190' => 'nta', 'Nitab4.5_0000755g0160' => 'nta', 'Nitab4.5_0001216g0080' => 'nta', 'Nitab4.5_0004069g0040' => 'nta', 'Nitab4.5_0004129g0010' => 'nta', 'Nitab4.5_0005744g0030' => 'nta', 'Nitab4.5_0006996g0030' => 'nta', 'Nitab4.5_0008971g0040' => 'nta', 'Nitab4.5_0009769g0020' => 'nta', 'Nitab4.5_0009833g0010' => 'nta', 'Nitab4.5_0013140g0020' => 'nta', 'Nn003s41376' => 'nnu', 'Nn1g01857' => 'nnu', 'Nn1g03611' => 'nnu', 'Nn1g06853' => 'nnu', 'Nn3g18360' => 'nnu', 'Nn4g26328' => 'nnu', 'Nn5g27531' => 'nnu', 'Nn6g34899' => 'nnu', 'Nn7g36299' => 'nnu', 'Oeu021485.1' => 'oeu', 'Oeu022433.1' => 'oeu', 'Oeu032111.1' => 'oeu', 'Oeu051608.1' => 'oeu', 'Os01g0860601' => 'osa', 'Os03g0659200' => 'osa', 'Os03g0835900' => 'osa', 'Os04g0412200' => 'osa', 'Os05g0443500' => 'osa', 'Os07g0251500' => 'osa', 'Os08g0104600' => 'osa', 'Peaxi162Scf00003g00047' => 'pax', 'Peaxi162Scf00003g00052' => 'pax', 'Peaxi162Scf00003g00394' => 'pax', 'Peaxi162Scf00091g00621' => 'pax', 'Peaxi162Scf00152g00146' => 'pax', 'Peaxi162Scf00173g00025' => 'pax', 'Peaxi162Scf00195g00102' => 'pax', 'Peaxi162Scf00402g00013' => 'pax', 'Peaxi162Scf00519g00618' => 'pax', 'PGR004G2838' => 'pgr', 'PGR044G2275' => 'pgr', 'PGR102G1377' => 'pgr', 'PGR119G1245' => 'pgr', 'PGR142G4449' => 'pgr', 'PGSC0003DMG400004532' => 'stu', 'PGSC0003DMG400011950' => 'stu', 'PGSC0003DMG400023391' => 'stu', 'PGSC0003DMG400023985' => 'stu', 'PGSC0003DMG400026360' => 'stu', 'PGSC0003DMG400035711' => 'stu', 'PGSC0003DMG400037286' => 'stu', 'PGSC0003DMG402005881' => 'stu', 'Phvul.002G045400' => 'pvu', 'Phvul.006G216600' => 'pvu', 'Phvul.006G216700' => 'pvu', 'Phvul.006G216800' => 'pvu', 'Phvul.007G022500' => 'pvu', 'Phvul.011G094400' => 'pvu', 'Potri.001G470700' => 'ptr', 'Potri.003G015200' => 'ptr', 'Potri.004G202500' => 'ptr', 'Potri.004G218400' => 'ptr', 'Potri.008G020100' => 'ptr', 'Potri.008G153200' => 'ptr', 'Potri.009G163800' => 'ptr', 'Potri.010G087300' => 'ptr', 'Potri.010G239100' => 'ptr', 'Pp3c10_16100' => 'ppa', 'Pp3c10_16880' => 'ppa', 'Pp3c16_6230' => 'ppa', 'Pp3c17_18910' => 'ppa', 'Pp3c3_22119' => 'ppa', 'Pp3c3_22140' => 'ppa', 'Pp3c4_8159' => 'ppa', 'Pp3c4_8171' => 'ppa', 'Pp3c4_8330' => 'ppa', 'PRCOL_00004098' => 'pco', 'Prupe.1G013900' => 'ppe', 'Prupe.1G226300' => 'ppe', 'Prupe.1G573600' => 'ppe', 'Prupe.6G130100' => 'ppe', 'Psat3g090040' => 'psa', 'Psat4g210440' => 'psa', 'Psat6g231040' => 'psa', 'Psat6g231080' => 'psa', 'Psat7g063000' => 'psa', 'Psat7g188000' => 'psa', 'Psat7g188040' => 'psa', 'PSO017G0206' => 'pso', 'PSO170G0501' => 'pso', 'PSO170G6422' => 'pso', 'PSO210G7739' => 'pso', 'PSO339G1808' => 'pso', 'PSO339G6135' => 'pso', 'PSO384G0010' => 'pso', 'PSO384G0964' => 'pso', 'PSO761G0050' => 'pso', 'PSO782G4085' => 'pso', 'QL01p012264' => 'qlo', 'QL02p099491' => 'qlo', 'QL03p033868' => 'qlo', 'QL04p046678' => 'qlo', 'QL06p002448' => 'qlo', 'RcHm_v2.0_Chr4g0416181' => 'rch', 'RcHm_v2.0_Chr5g0044701' => 'rch', 'RcHm_v2.0_Chr6g0265781' => 'rch', 'RcHm_v2.0_Chr7g0221031' => 'rch', 'Rhsim04G0202000' => 'rsi', 'Rhsim11G0127300' => 'rsi', 'Rhsim13G0111800' => 'rsi', 'Sabra01G0165600' => 'sbr', 'Sabra03G0008300' => 'sbr', 'Sabra04G0136900' => 'sbr', 'Sabra08G0013400' => 'sbr', 'Sabra08G0116800' => 'sbr', 'Sabra09G0128000' => 'sbr', 'Sabra10G0055500' => 'sbr', 'Sabra10G0073300' => 'sbr', 'SalBow3G0385' => 'sbo', 'SalBow3G1119' => 'sbo', 'SalBow3G2005' => 'sbo', 'SalBow6G2563' => 'sbo', 'SalBow6G6386' => 'sbo', 'Sc06g0008800' => 'sci', 'Sc07g0004950' => 'sci', 'Sc09g0005340' => 'sci', 'Sc13g0004410' => 'sci', 'Sc21g0007090' => 'sci', 'Sed0009285' => 'sed', 'Sed0017583' => 'sed', 'Sed0019699' => 'sed', 'Sed0023107' => 'sed', 'SEGI_10916' => 'sgi', 'SEGI_16217' => 'sgi', 'SEGI_19466' => 'sgi', 'SEGI_41115' => 'sgi', 'SGA_v2.0_scaffold111G31534' => 'sas', 'SGA_v2.0_scaffold22G09864' => 'sas', 'SGA_v2.0_scaffold338G49219' => 'sas', 'SGA_v2.0_scaffold92G28298' => 'sas', 'SMO119G0064' => 'smo', 'SMO223G0038' => 'smo', 'SMO347G0584' => 'smo', 'SMO351G0010' => 'smo', 'SMO356G0404' => 'smo', 'Solyc01g103920.3' => 'sly', 'Solyc04g009710.2' => 'sly', 'Solyc05g055280.2' => 'sly', 'Solyc10g044520.3' => 'sly', 'Solyc10g075160.1' => 'sly', 'Solyc11g006910.3' => 'sly', 'Solyc11g068430.3' => 'sly', 'Sopen01g046310' => 'spe', 'Sopen03g001200' => 'spe', 'Sopen04g004830' => 'spe', 'Sopen05g033720' => 'spe', 'Sopen06g030740' => 'spe', 'Sopen10g013090' => 'spe', 'Sopen10g027630' => 'spe', 'Sopen10g027640' => 'spe', 'Sopen11g002820' => 'spe', 'Sopen11g027140' => 'spe', 'Sp1g09680' => 'spa', 'Sp2g03630' => 'spa', 'Sp4g10320' => 'spa', 'Sp6g33400' => 'spa', 'Sp7g13030' => 'spa', 'TAR365G0317' => 'tar', 'TAR376G0979' => 'tar', 'TAR623G1665' => 'tar', 'TAR633G2373' => 'tar', 'TAR636G1400' => 'tar', 'THA.LOC104800529' => 'tha', 'THA.LOC104808547' => 'tha', 'THA.LOC104809615' => 'tha', 'THA.LOC104815724' => 'tha', 'THA.LOC104818480' => 'tha', 'THA.LOC104819179' => 'tha', 'THA.LOC104822270' => 'tha', 'THA.LOC104826425' => 'tha', 'Thecc.02G089700' => 'tca', 'Thecc.04G232300' => 'tca', 'Thecc.09G283400' => 'tca', 'Thhalv10009020m.g' => 'esa', 'Thhalv10015506m.g' => 'esa', 'Thhalv10017364m.g' => 'esa', 'Thhalv10023742m.g' => 'esa', 'Thhalv10026483m.g' => 'esa', 'TPR.G17232' => 'tpr', 'TPR.G2133' => 'tpr', 'TPR.G2498' => 'tpr', 'TPR.G31942' => 'tpr', 'TPR.G37877' => 'tpr', 'TPR.G4571' => 'tpr', 'TWI14G1113' => 'twi', 'TWI15G0426' => 'twi', 'TWI31G1005' => 'twi', 'TWI38G0513' => 'twi', 'TWI38G1484' => 'twi', 'TWI73G1098' => 'twi', 'unitig_26.g10519' => 'ugi', 'unitig_736.g22395' => 'ugi', 'unitig_747.g21234' => 'ugi', 'unitig_747.g21942' => 'ugi', 'vmacro14351' => 'vma', 'VMungo0540G0082' => 'vmu', 'VMungo0540G0405' => 'vmu', 'VMungo0540G1486' => 'vmu', 'VMungo0540G1692' => 'vmu', 'VMungo0720G2473' => 'vmu', 'VMungo1127G1562' => 'vmu', 'VMungo1215G1918' => 'vmu', 'Zm00001eb052650' => 'zma', 'Zm00001eb063710' => 'zma', 'Zm00001eb083950' => 'zma', 'Zm00001eb174420' => 'zma', 'Zm00001eb260140' => 'zma', 'Zm00001eb260150' => 'zma', 'Zm00001eb260160' => 'zma', 'Zm00001eb348290' => 'zma', 'Zm00001eb366870' => 'zma', 'Zm00001eb421930' => 'zma' ) $gf_id = 'HOM05D001025' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001025' ) $data_identifier = 'HOM05D001025' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 19, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 2, 'amhyb' => (int) 4, 'aly' => (int) 4, 'aox' => (int) 4, 'arhy' => (int) 3, 'ath' => (int) 5, 'atr' => (int) 4, 'acertr' => (int) 3, 'cqu' => (int) 7, 'bca' => (int) 17, 'bol' => (int) 10, 'bra' => (int) 9, 'can' => (int) 10, 'cansat' => (int) 6, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 5, 'cbr' => (int) 5, 'ccan' => (int) 5, 'cde' => (int) 4, 'cfa' => (int) 3, 'ccl' => (int) 6, 'cil' => (int) 4, 'cla' => (int) 3, 'col' => (int) 3, 'cpa' => (int) 3, 'cre' => (int) 7, 'csa' => (int) 5, 'camsi' => (int) 9, 'dca' => (int) 4, 'din' => (int) 5, 'dzi' => (int) 7, 'eca' => (int) 6, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 12, 'fve' => (int) 4, 'gma' => (int) 12, 'ghi' => (int) 17, 'gra' => (int) 9, 'vvi' => (int) 2, 'han' => (int) 8, 'cav' => (int) 5, 'hma' => (int) 9, 'vpl' => (int) 4, 'sun' => (int) 2, 'lal' => (int) 9, 'lja' => (int) 5, 'lonja' => (int) 6, 'lsa' => (int) 3, 'mes' => (int) 8, 'mpo' => (int) 3, 'mbi' => (int) 4, 'mco' => (int) 3, 'mdo' => (int) 5, 'mtr' => (int) 7, 'cme' => (int) 6, 'egut' => (int) 7, 'ama' => (int) 3, 'nta' => (int) 12, 'nnu' => (int) 9, 'oeu' => (int) 4, 'osa' => (int) 7, 'pax' => (int) 9, 'pgr' => (int) 5, 'stu' => (int) 8, 'pvu' => (int) 6, 'ptr' => (int) 9, 'ppa' => (int) 9, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 7, 'pso' => (int) 10, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 3, 'sbr' => (int) 8, 'sbo' => (int) 5, 'sci' => (int) 5, 'sed' => (int) 4, 'sgi' => (int) 4, 'sas' => (int) 4, 'smo' => (int) 5, 'sly' => (int) 7, 'spe' => (int) 10, 'spa' => (int) 5, 'tar' => (int) 5, 'tha' => (int) 8, 'tca' => (int) 3, 'esa' => (int) 5, 'tpr' => (int) 6, 'twi' => (int) 6, 'ugi' => (int) 4, 'vma' => (int) 1, 'vmu' => (int) 7, 'zma' => (int) 10 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb421930' $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' => 'HOM05D001025', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '592', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p22650' => 'bna', 'A01p29720' => 'bna', 'A03p26560' => 'bna', 'A03p68820' => 'bna', 'A04p20980' => 'bna', 'A06p07730' => 'bna', 'A07p18260' => 'bna', 'A08p33710' => 'bna', 'A09p16970' => 'bna', 'A10p27490' => 'bna', 'Aa31LG1G17300' => 'aar', 'Aa31LG1G3910' => 'aar', 'Aa31LG2G9630' => 'aar', 'Aa31LG5G8360' => 'aar', 'Aa31LG9G2410' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4699' => 'aag', 'Actinidia23512' => 'ach', 'Actinidia37080' => 'ach', 'Ah.01g020380' => 'amhyb', 'Ah.08g215710' => 'amhyb', 'Ah.09g225110' => 'amhyb', 'Ah.10g036680' => 'amhyb', 'AL1G21940' => 'aly', 'AL2G15540' => 'aly', 'AL4G21520' => 'aly', 'AL7G40960' => 'aly', 'Aqoxy2G01191' => 'aox', 'Aqoxy2G03393' => 'aox', 'Aqoxy4G02775' => 'aox', 'Aqoxy6G00058' => 'aox', 'arahy.Tifrunner.gnm1.ann1.9X74H2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CW3FX9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R485W7' => 'arhy', 'AT1G10960' => 'ath', 'AT1G60950' => 'ath', 'AT2G27510' => 'ath', 'AT4G14890' => 'ath', 'AT5G10000' => 'ath', 'ATR0665G624' => 'atr', 'ATR0697G138' => 'atr', 'ATR0776G046' => 'atr', 'ATR1134G135' => 'atr', 'Atru.chr12.1025' => 'acertr', 'Atru.chr3.3241' => 'acertr', 'Atru.chr4.2460' => 'acertr', 'AUR62007427' => 'cqu', 'AUR62010960' => 'cqu', 'AUR62012201' => 'cqu', 'AUR62021470' => 'cqu', 'AUR62022834' => 'cqu', 'AUR62033635' => 'cqu', 'AUR62036186' => 'cqu', 'BcaB01g03077' => 'bca', 'BcaB02g10093' => 'bca', 'BcaB04g20295' => 'bca', 'BcaB06g28147' => 'bca', 'BcaB07g31253' => 'bca', 'BcaC01g04946' => 'bca', 'BcaC02g10614' => 'bca', 'BcaC02g10885' => 'bca', 'BcaC04g19356' => 'bca', 'BcaC04g22297' => 'bca', 'BcaC05g24977' => 'bca', 'BcaC06g31823' => 'bca', 'BcaC07g38633' => 'bca', 'BcaC09g49353' => 'bca', 'BcaC09g50168' => 'bca', 'BcaNung00322' => 'bca', 'BcaNung04769' => 'bca', 'BolC1t02753H' => 'bol', 'BolC1t03721H' => 'bol', 'BolC3t15525H' => 'bol', 'BolC4t23903H' => 'bol', 'BolC4t24231H' => 'bol', 'BolC4t27209H' => 'bol', 'BolC5t29671H' => 'bol', 'BolC8t49044H' => 'bol', 'BolC9t54999H' => 'bol', 'BolC9t59517H' => 'bol', 'BraA01t02178Z' => 'bra', 'BraA01t03099Z' => 'bra', 'BraA03t11867Z' => 'bra', 'BraA04t17667Z' => 'bra', 'BraA07t29542Z' => 'bra', 'BraA08t35287Z' => 'bra', 'BraA09t37334Z' => 'bra', 'BraA10t44801Z' => 'bra', 'BraSC39t46181Z' => 'bra', 'C01p28240' => 'bna', 'C01p37530' => 'bna', 'C03p31820' => 'bna', 'C04p24080' => 'bna', 'C04p25790' => 'bna', 'C04p56770' => 'bna', 'C05p09310' => 'bna', 'C09p21010' => 'bna', 'C09p67560' => 'bna', 'CAN.G1324.7' => 'can', 'CAN.G1358.10' => 'can', 'CAN.G1550.2' => 'can', 'CAN.G186.56' => 'can', 'CAN.G1965.1' => 'can', 'CAN.G645.15' => 'can', 'CAN.G798.26' => 'can', 'CAN.G798.27' => 'can', 'CAN.G798.29' => 'can', 'CAN.G919.31' => 'can', 'CANSAT11G0133' => 'cansat', 'CANSAT11G1171' => 'cansat', 'CANSAT11G2056' => 'cansat', 'CANSAT56G1202' => 'cansat', 'CANSAT56G1514' => 'cansat', 'CANSAT78G0455' => 'cansat', 'CARHR011190' => 'chi', 'CARHR051980' => 'chi', 'CARHR120170' => 'chi', 'CARHR203310' => 'chi', 'CARHR221490' => 'chi', 'Carub.0001s1054' => 'cru', 'Carub.0002s0431' => 'cru', 'Carub.0004s0818' => 'cru', 'Carub.0006s0846' => 'cru', 'Carub.0007s2722' => 'cru', 'Ca_00058_v3' => 'car', 'Ca_17831_v3' => 'car', 'Ca_19408_v3' => 'car', 'Ca_24397_v3' => 'car', 'Ca_25664_v3' => 'car', 'CBR_g21818' => 'cbr', 'CBR_g31195' => 'cbr', 'CBR_g32282' => 'cbr', 'CBR_g39599' => 'cbr', 'CBR_g49410' => 'cbr', 'Cc01_g09120' => 'ccan', 'Cc01_g09130' => 'ccan', 'Cc02_g09630' => 'ccan', 'Cc02_g22810' => 'ccan', 'Cc03_g03810' => 'ccan', 'CDE02G3718' => 'cde', 'CDE04G3183' => 'cde', 'CDE07G1046' => 'cde', 'CDE08G0480' => 'cde', 'Cfa005493' => 'cfa', 'Cfa010312' => 'cfa', 'Cfa015648' => 'cfa', 'Ciclev10002793m.g' => 'ccl', 'Ciclev10003356m.g' => 'ccl', 'Ciclev10006141m.g' => 'ccl', 'Ciclev10016676m.g' => 'ccl', 'Ciclev10017081m.g' => 'ccl', 'Ciclev10029499m.g' => 'ccl', 'CiPaw.01G166300' => 'cil', 'CiPaw.06G145600' => 'cil', 'CiPaw.13G040100' => 'cil', 'CiPaw.13G135800' => 'cil', 'ClCG01G012230' => 'cla', 'ClCG05G009510' => 'cla', 'ClCG08G008270' => 'cla', 'COL.COLO4_11763' => 'col', 'COL.COLO4_19876' => 'col', 'COL.COLO4_21481' => 'col', 'Cpa.g.sc118.34' => 'cpa', 'Cpa.g.sc32.13' => 'cpa', 'Cpa.g.sc58.103' => 'cpa', 'Cre03.g183850' => 'cre', 'Cre06.g306350' => 'cre', 'Cre07.g334800' => 'cre', 'Cre12.g487900' => 'cre', 'Cre14.g626700' => 'cre', 'Cre16.g658400' => 'cre', 'Cre17.g700950' => 'cre', 'CsaV3_1G014830' => 'csa', 'CsaV3_3G013320' => 'csa', 'CsaV3_3G019210' => 'csa', 'CsaV3_3G019220' => 'csa', 'CsaV3_6G004230' => 'csa', 'CSS0003773' => 'camsi', 'CSS0004563' => 'camsi', 'CSS0013949' => 'camsi', 'CSS0025971' => 'camsi', 'CSS0028570' => 'camsi', 'CSS0033127' => 'camsi', 'CSS0036051' => 'camsi', 'CSS0040087' => 'camsi', 'CSS0043179' => 'camsi', 'DCAR_006161' => 'dca', 'DCAR_010351' => 'dca', 'DCAR_012197' => 'dca', 'DCAR_024162' => 'dca', 'Dinv01030' => 'din', 'Dinv10924' => 'din', 'Dinv11835' => 'din', 'Dinv22841' => 'din', 'Dinv42553' => 'din', 'Duzib052G0560' => 'dzi', 'Duzib132G0389' => 'dzi', 'Duzib150G1181' => 'dzi', 'Duzib168G0623' => 'dzi', 'Duzib170G1036' => 'dzi', 'Duzib212G0200' => 'dzi', 'Duzib248G0194' => 'dzi', 'ECA232G2193' => 'eca', 'ECA233G0302' => 'eca', 'ECA234G2813' => 'eca', 'ECA234G4866' => 'eca', 'ECA240G3932' => 'eca', 'ECA248G0385' => 'eca', 'EL10Ac2g04781' => 'bvu', 'EL10Ac3g06445' => 'bvu', 'EL10Ac7g15825' => 'bvu', 'EL10Ac8g18550' => 'bvu', 'Eucgr.B03849' => 'egr', 'Eucgr.I02744' => 'egr', 'Eucgr.J00264' => 'egr', 'Eucgr.J00493' => 'egr', 'FAN04G2181' => 'fan', 'FAN07G2666' => 'fan', 'FAN11G0024' => 'fan', 'FAN12G1105' => 'fan', 'FAN13G0302' => 'fan', 'FAN15G2781' => 'fan', 'FAN16G1274' => 'fan', 'FAN17G2988' => 'fan', 'FAN18G2621' => 'fan', 'FAN21G0013' => 'fan', 'FAN22G1211' => 'fan', 'FAN25G3626' => 'fan', 'FvH4_2g09491' => 'fve', 'FvH4_3g24910' => 'fve', 'FvH4_4g15630' => 'fve', 'FvH4_5g28820' => 'fve', 'Glyma.01G238000' => 'gma', 'Glyma.05G168400' => 'gma', 'Glyma.08G126800' => 'gma', 'Glyma.08G188500' => 'gma', 'Glyma.10G278900' => 'gma', 'Glyma.11G005700' => 'gma', 'Glyma.11G183300' => 'gma', 'Glyma.12G089200' => 'gma', 'Glyma.12G169400' => 'gma', 'Glyma.12G169500' => 'gma', 'Glyma.12G169600' => 'gma', 'Glyma.20G110800' => 'gma', 'Gohir.A03G192900' => 'ghi', 'Gohir.A03G193000' => 'ghi', 'Gohir.A05G080700' => 'ghi', 'Gohir.A09G216000' => 'ghi', 'Gohir.A12G027700' => 'ghi', 'Gohir.A13G036200' => 'ghi', 'Gohir.A13G222600' => 'ghi', 'Gohir.D02G213900' => 'ghi', 'Gohir.D02G214000' => 'ghi', 'Gohir.D05G083700' => 'ghi', 'Gohir.D05G083800' => 'ghi', 'Gohir.D05G083850' => 'ghi', 'Gohir.D08G015400' => 'ghi', 'Gohir.D09G218400' => 'ghi', 'Gohir.D12G027100' => 'ghi', 'Gohir.D13G034500' => 'ghi', 'Gohir.D13G227400' => 'ghi', 'Gorai.005G241800' => 'gra', 'Gorai.005G241900' => 'gra', 'Gorai.006G239400' => 'gra', 'Gorai.008G027600' => 'gra', 'Gorai.009G085400' => 'gra', 'Gorai.009G085500' => 'gra', 'Gorai.013G039000' => 'gra', 'Gorai.013G194800' => 'gra', 'Gorai.013G257900' => 'gra', 'GSVIVG01000982001' => 'vvi', 'GSVIVG01017981001' => 'vvi', 'HanXRQChr01g0024061' => 'han', 'HanXRQChr09g0247831' => 'han', 'HanXRQChr10g0294611' => 'han', 'HanXRQChr10g0294621' => 'han', 'HanXRQChr11g0346821' => 'han', 'HanXRQChr13g0397461' => 'han', 'HanXRQChr16g0513651' => 'han', 'HanXRQChr16g0513701' => 'han', 'Haze_00897' => 'cav', 'Haze_01745' => 'cav', 'Haze_02486' => 'cav', 'Haze_02487' => 'cav', 'Haze_23374' => 'cav', 'Hma1.2p1_0578F.1_g182520' => 'hma', 'Hma1.2p1_0602F.1_g187350' => 'hma', 'Hma1.2p1_0602F.1_g187360' => 'hma', 'Hma1.2p1_0874F.1_g231320' => 'hma', 'Hma1.2p1_1197F.1_g266210' => 'hma', 'Hma1.2p1_1197F.1_g266220' => 'hma', 'Hma1.2p1_2167F.1_g315895' => 'hma', 'Hma1.2p1_2190F.1_g316640' => 'hma', 'Hma1.2p1_3645F.1_g337153' => 'hma', 'HPP92_004907' => 'vpl', 'HPP92_012134' => 'vpl', 'HPP92_025136' => 'vpl', 'HPP92_026087' => 'vpl', 'Hund06782' => 'sun', 'Hund06784' => 'sun', 'Lalb_Chr01g0004861' => 'lal', 'Lalb_Chr02g0140591' => 'lal', 'Lalb_Chr02g0140611' => 'lal', 'Lalb_Chr03g0028101' => 'lal', 'Lalb_Chr07g0185791' => 'lal', 'Lalb_Chr12g0204491' => 'lal', 'Lalb_Chr13g0295671' => 'lal', 'Lalb_Chr19g0136461' => 'lal', 'Lalb_Chr21g0309191' => 'lal', 'Lj1g0028158' => 'lja', 'Lj1P236T38' => 'lonja', 'Lj2C32G2' => 'lonja', 'Lj2P944T8' => 'lonja', 'Lj2P963T15' => 'lonja', 'Lj3g0011788' => 'lja', 'Lj4g0025027' => 'lja', 'Lj5P255T36' => 'lonja', 'Lj6g0018866' => 'lja', 'Lj6P608T31' => 'lonja', 'LjContig00408g0008879' => 'lja', 'Lsat_1_v5_gn_5_105820' => 'lsa', 'Lsat_1_v5_gn_6_38800' => 'lsa', 'Lsat_1_v5_gn_7_67141' => 'lsa', 'Manes.04G003400' => 'mes', 'Manes.07G020000' => 'mes', 'Manes.07G020100' => 'mes', 'Manes.07G020150' => 'mes', 'Manes.10G061500' => 'mes', 'Manes.10G123200' => 'mes', 'Manes.11G161900' => 'mes', 'Manes.15G029300' => 'mes', 'Mapoly0071s0018' => 'mpo', 'Mapoly0082s0023' => 'mpo', 'Mapoly3477s0001' => 'mpo', 'MBI05_g31233_MAGBIO' => 'mbi', 'MBI09_g05946_MAGBIO' => 'mbi', 'MBI09_g05947_MAGBIO' => 'mbi', 'MBI17_g08346_MAGBIO' => 'mbi', 'MCO04G038' => 'mco', 'MCO09G370' => 'mco', 'MCO13G605' => 'mco', 'MD00G1075500' => 'mdo', 'MD03G1144300' => 'mdo', 'MD08G1236800' => 'mdo', 'MD13G1193300' => 'mdo', 'MD15G1428700' => 'mdo', 'Medtr1g112030' => 'mtr', 'Medtr1g112050' => 'mtr', 'Medtr2g006290' => 'mtr', 'Medtr2g086510' => 'mtr', 'Medtr4g053120' => 'mtr', 'Medtr5g006320' => 'mtr', 'Medtr8g088720' => 'mtr', 'MELO3C004712.2' => 'cme', 'MELO3C006533.2' => 'cme', 'MELO3C019438.2' => 'cme', 'MELO3C019440.2' => 'cme', 'MELO3C019441.2' => 'cme', 'MELO3C019895.2' => 'cme', 'Migut.B00811' => 'egut', 'Migut.D02447' => 'egut', 'Migut.F00875' => 'egut', 'Migut.N00186' => 'egut', 'Migut.N01051' => 'egut', 'Migut.N02491' => 'egut', 'Migut.O00784' => 'egut', 'MSTRG.12367' => 'ama', 'MSTRG.18756' => 'ama', 'MSTRG.21042' => 'ama', 'Nitab4.5_0000559g0040' => 'nta', 'Nitab4.5_0000667g0190' => 'nta', 'Nitab4.5_0000755g0160' => 'nta', 'Nitab4.5_0001216g0080' => 'nta', 'Nitab4.5_0004069g0040' => 'nta', 'Nitab4.5_0004129g0010' => 'nta', 'Nitab4.5_0005744g0030' => 'nta', 'Nitab4.5_0006996g0030' => 'nta', 'Nitab4.5_0008971g0040' => 'nta', 'Nitab4.5_0009769g0020' => 'nta', 'Nitab4.5_0009833g0010' => 'nta', 'Nitab4.5_0013140g0020' => 'nta', 'Nn003s41376' => 'nnu', 'Nn1g01857' => 'nnu', 'Nn1g03611' => 'nnu', 'Nn1g06853' => 'nnu', 'Nn3g18360' => 'nnu', 'Nn4g26328' => 'nnu', 'Nn5g27531' => 'nnu', 'Nn6g34899' => 'nnu', 'Nn7g36299' => 'nnu', 'Oeu021485.1' => 'oeu', 'Oeu022433.1' => 'oeu', 'Oeu032111.1' => 'oeu', 'Oeu051608.1' => 'oeu', 'Os01g0860601' => 'osa', 'Os03g0659200' => 'osa', 'Os03g0835900' => 'osa', 'Os04g0412200' => 'osa', 'Os05g0443500' => 'osa', 'Os07g0251500' => 'osa', 'Os08g0104600' => 'osa', 'Peaxi162Scf00003g00047' => 'pax', 'Peaxi162Scf00003g00052' => 'pax', 'Peaxi162Scf00003g00394' => 'pax', 'Peaxi162Scf00091g00621' => 'pax', 'Peaxi162Scf00152g00146' => 'pax', 'Peaxi162Scf00173g00025' => 'pax', 'Peaxi162Scf00195g00102' => 'pax', 'Peaxi162Scf00402g00013' => 'pax', 'Peaxi162Scf00519g00618' => 'pax', 'PGR004G2838' => 'pgr', 'PGR044G2275' => 'pgr', 'PGR102G1377' => 'pgr', 'PGR119G1245' => 'pgr', 'PGR142G4449' => 'pgr', 'PGSC0003DMG400004532' => 'stu', 'PGSC0003DMG400011950' => 'stu', 'PGSC0003DMG400023391' => 'stu', 'PGSC0003DMG400023985' => 'stu', 'PGSC0003DMG400026360' => 'stu', 'PGSC0003DMG400035711' => 'stu', 'PGSC0003DMG400037286' => 'stu', 'PGSC0003DMG402005881' => 'stu', 'Phvul.002G045400' => 'pvu', 'Phvul.006G216600' => 'pvu', 'Phvul.006G216700' => 'pvu', 'Phvul.006G216800' => 'pvu', 'Phvul.007G022500' => 'pvu', 'Phvul.011G094400' => 'pvu', 'Potri.001G470700' => 'ptr', 'Potri.003G015200' => 'ptr', 'Potri.004G202500' => 'ptr', 'Potri.004G218400' => 'ptr', 'Potri.008G020100' => 'ptr', 'Potri.008G153200' => 'ptr', 'Potri.009G163800' => 'ptr', 'Potri.010G087300' => 'ptr', 'Potri.010G239100' => 'ptr', 'Pp3c10_16100' => 'ppa', 'Pp3c10_16880' => 'ppa', 'Pp3c16_6230' => 'ppa', 'Pp3c17_18910' => 'ppa', 'Pp3c3_22119' => 'ppa', 'Pp3c3_22140' => 'ppa', 'Pp3c4_8159' => 'ppa', 'Pp3c4_8171' => 'ppa', 'Pp3c4_8330' => 'ppa', 'PRCOL_00004098' => 'pco', 'Prupe.1G013900' => 'ppe', 'Prupe.1G226300' => 'ppe', 'Prupe.1G573600' => 'ppe', 'Prupe.6G130100' => 'ppe', 'Psat3g090040' => 'psa', 'Psat4g210440' => 'psa', 'Psat6g231040' => 'psa', 'Psat6g231080' => 'psa', 'Psat7g063000' => 'psa', 'Psat7g188000' => 'psa', 'Psat7g188040' => 'psa', 'PSO017G0206' => 'pso', 'PSO170G0501' => 'pso', 'PSO170G6422' => 'pso', 'PSO210G7739' => 'pso', 'PSO339G1808' => 'pso', 'PSO339G6135' => 'pso', 'PSO384G0010' => 'pso', 'PSO384G0964' => 'pso', 'PSO761G0050' => 'pso', 'PSO782G4085' => 'pso', 'QL01p012264' => 'qlo', 'QL02p099491' => 'qlo', 'QL03p033868' => 'qlo', 'QL04p046678' => 'qlo', 'QL06p002448' => 'qlo', 'RcHm_v2.0_Chr4g0416181' => 'rch', 'RcHm_v2.0_Chr5g0044701' => 'rch', 'RcHm_v2.0_Chr6g0265781' => 'rch', 'RcHm_v2.0_Chr7g0221031' => 'rch', 'Rhsim04G0202000' => 'rsi', 'Rhsim11G0127300' => 'rsi', 'Rhsim13G0111800' => 'rsi', 'Sabra01G0165600' => 'sbr', 'Sabra03G0008300' => 'sbr', 'Sabra04G0136900' => 'sbr', 'Sabra08G0013400' => 'sbr', 'Sabra08G0116800' => 'sbr', 'Sabra09G0128000' => 'sbr', 'Sabra10G0055500' => 'sbr', 'Sabra10G0073300' => 'sbr', 'SalBow3G0385' => 'sbo', 'SalBow3G1119' => 'sbo', 'SalBow3G2005' => 'sbo', 'SalBow6G2563' => 'sbo', 'SalBow6G6386' => 'sbo', 'Sc06g0008800' => 'sci', 'Sc07g0004950' => 'sci', 'Sc09g0005340' => 'sci', 'Sc13g0004410' => 'sci', 'Sc21g0007090' => 'sci', 'Sed0009285' => 'sed', 'Sed0017583' => 'sed', 'Sed0019699' => 'sed', 'Sed0023107' => 'sed', 'SEGI_10916' => 'sgi', 'SEGI_16217' => 'sgi', 'SEGI_19466' => 'sgi', 'SEGI_41115' => 'sgi', 'SGA_v2.0_scaffold111G31534' => 'sas', 'SGA_v2.0_scaffold22G09864' => 'sas', 'SGA_v2.0_scaffold338G49219' => 'sas', 'SGA_v2.0_scaffold92G28298' => 'sas', 'SMO119G0064' => 'smo', 'SMO223G0038' => 'smo', 'SMO347G0584' => 'smo', 'SMO351G0010' => 'smo', 'SMO356G0404' => 'smo', 'Solyc01g103920.3' => 'sly', 'Solyc04g009710.2' => 'sly', 'Solyc05g055280.2' => 'sly', 'Solyc10g044520.3' => 'sly', 'Solyc10g075160.1' => 'sly', 'Solyc11g006910.3' => 'sly', 'Solyc11g068430.3' => 'sly', 'Sopen01g046310' => 'spe', 'Sopen03g001200' => 'spe', 'Sopen04g004830' => 'spe', 'Sopen05g033720' => 'spe', 'Sopen06g030740' => 'spe', 'Sopen10g013090' => 'spe', 'Sopen10g027630' => 'spe', 'Sopen10g027640' => 'spe', 'Sopen11g002820' => 'spe', 'Sopen11g027140' => 'spe', 'Sp1g09680' => 'spa', 'Sp2g03630' => 'spa', 'Sp4g10320' => 'spa', 'Sp6g33400' => 'spa', 'Sp7g13030' => 'spa', 'TAR365G0317' => 'tar', 'TAR376G0979' => 'tar', 'TAR623G1665' => 'tar', 'TAR633G2373' => 'tar', 'TAR636G1400' => 'tar', 'THA.LOC104800529' => 'tha', 'THA.LOC104808547' => 'tha', 'THA.LOC104809615' => 'tha', 'THA.LOC104815724' => 'tha', 'THA.LOC104818480' => 'tha', 'THA.LOC104819179' => 'tha', 'THA.LOC104822270' => 'tha', 'THA.LOC104826425' => 'tha', 'Thecc.02G089700' => 'tca', 'Thecc.04G232300' => 'tca', 'Thecc.09G283400' => 'tca', 'Thhalv10009020m.g' => 'esa', 'Thhalv10015506m.g' => 'esa', 'Thhalv10017364m.g' => 'esa', 'Thhalv10023742m.g' => 'esa', 'Thhalv10026483m.g' => 'esa', 'TPR.G17232' => 'tpr', 'TPR.G2133' => 'tpr', 'TPR.G2498' => 'tpr', 'TPR.G31942' => 'tpr', 'TPR.G37877' => 'tpr', 'TPR.G4571' => 'tpr', 'TWI14G1113' => 'twi', 'TWI15G0426' => 'twi', 'TWI31G1005' => 'twi', 'TWI38G0513' => 'twi', 'TWI38G1484' => 'twi', 'TWI73G1098' => 'twi', 'unitig_26.g10519' => 'ugi', 'unitig_736.g22395' => 'ugi', 'unitig_747.g21234' => 'ugi', 'unitig_747.g21942' => 'ugi', 'vmacro14351' => 'vma', 'VMungo0540G0082' => 'vmu', 'VMungo0540G0405' => 'vmu', 'VMungo0540G1486' => 'vmu', 'VMungo0540G1692' => 'vmu', 'VMungo0720G2473' => 'vmu', 'VMungo1127G1562' => 'vmu', 'VMungo1215G1918' => 'vmu', 'Zm00001eb052650' => 'zma', 'Zm00001eb063710' => 'zma', 'Zm00001eb083950' => 'zma', 'Zm00001eb174420' => 'zma', 'Zm00001eb260140' => 'zma', 'Zm00001eb260150' => 'zma', 'Zm00001eb260160' => 'zma', 'Zm00001eb348290' => 'zma', 'Zm00001eb366870' => 'zma', 'Zm00001eb421930' => 'zma' ), 'gf_id' => 'HOM05D001025', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001025' ), 'data_identifier' => 'HOM05D001025', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001025', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '592', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p22650' => 'bna', 'A01p29720' => 'bna', 'A03p26560' => 'bna', 'A03p68820' => 'bna', 'A04p20980' => 'bna', 'A06p07730' => 'bna', 'A07p18260' => 'bna', 'A08p33710' => 'bna', 'A09p16970' => 'bna', 'A10p27490' => 'bna', 'Aa31LG1G17300' => 'aar', 'Aa31LG1G3910' => 'aar', 'Aa31LG2G9630' => 'aar', 'Aa31LG5G8360' => 'aar', 'Aa31LG9G2410' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4699' => 'aag', 'Actinidia23512' => 'ach', 'Actinidia37080' => 'ach', 'Ah.01g020380' => 'amhyb', 'Ah.08g215710' => 'amhyb', 'Ah.09g225110' => 'amhyb', 'Ah.10g036680' => 'amhyb', 'AL1G21940' => 'aly', 'AL2G15540' => 'aly', 'AL4G21520' => 'aly', 'AL7G40960' => 'aly', 'Aqoxy2G01191' => 'aox', 'Aqoxy2G03393' => 'aox', 'Aqoxy4G02775' => 'aox', 'Aqoxy6G00058' => 'aox', 'arahy.Tifrunner.gnm1.ann1.9X74H2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CW3FX9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R485W7' => 'arhy', 'AT1G10960' => 'ath', 'AT1G60950' => 'ath', 'AT2G27510' => 'ath', 'AT4G14890' => 'ath', 'AT5G10000' => 'ath', 'ATR0665G624' => 'atr', 'ATR0697G138' => 'atr', 'ATR0776G046' => 'atr', 'ATR1134G135' => 'atr', 'Atru.chr12.1025' => 'acertr', 'Atru.chr3.3241' => 'acertr', 'Atru.chr4.2460' => 'acertr', 'AUR62007427' => 'cqu', 'AUR62010960' => 'cqu', 'AUR62012201' => 'cqu', 'AUR62021470' => 'cqu', 'AUR62022834' => 'cqu', 'AUR62033635' => 'cqu', 'AUR62036186' => 'cqu', 'BcaB01g03077' => 'bca', 'BcaB02g10093' => 'bca', 'BcaB04g20295' => 'bca', 'BcaB06g28147' => 'bca', 'BcaB07g31253' => 'bca', 'BcaC01g04946' => 'bca', 'BcaC02g10614' => 'bca', 'BcaC02g10885' => 'bca', 'BcaC04g19356' => 'bca', 'BcaC04g22297' => 'bca', 'BcaC05g24977' => 'bca', 'BcaC06g31823' => 'bca', 'BcaC07g38633' => 'bca', 'BcaC09g49353' => 'bca', 'BcaC09g50168' => 'bca', 'BcaNung00322' => 'bca', 'BcaNung04769' => 'bca', 'BolC1t02753H' => 'bol', 'BolC1t03721H' => 'bol', 'BolC3t15525H' => 'bol', 'BolC4t23903H' => 'bol', 'BolC4t24231H' => 'bol', 'BolC4t27209H' => 'bol', 'BolC5t29671H' => 'bol', 'BolC8t49044H' => 'bol', 'BolC9t54999H' => 'bol', 'BolC9t59517H' => 'bol', 'BraA01t02178Z' => 'bra', 'BraA01t03099Z' => 'bra', 'BraA03t11867Z' => 'bra', 'BraA04t17667Z' => 'bra', 'BraA07t29542Z' => 'bra', 'BraA08t35287Z' => 'bra', 'BraA09t37334Z' => 'bra', 'BraA10t44801Z' => 'bra', 'BraSC39t46181Z' => 'bra', 'C01p28240' => 'bna', 'C01p37530' => 'bna', 'C03p31820' => 'bna', 'C04p24080' => 'bna', 'C04p25790' => 'bna', 'C04p56770' => 'bna', 'C05p09310' => 'bna', 'C09p21010' => 'bna', 'C09p67560' => 'bna', 'CAN.G1324.7' => 'can', 'CAN.G1358.10' => 'can', 'CAN.G1550.2' => 'can', 'CAN.G186.56' => 'can', 'CAN.G1965.1' => 'can', 'CAN.G645.15' => 'can', 'CAN.G798.26' => 'can', 'CAN.G798.27' => 'can', 'CAN.G798.29' => 'can', 'CAN.G919.31' => 'can', 'CANSAT11G0133' => 'cansat', 'CANSAT11G1171' => 'cansat', 'CANSAT11G2056' => 'cansat', 'CANSAT56G1202' => 'cansat', 'CANSAT56G1514' => 'cansat', 'CANSAT78G0455' => 'cansat', 'CARHR011190' => 'chi', 'CARHR051980' => 'chi', 'CARHR120170' => 'chi', 'CARHR203310' => 'chi', 'CARHR221490' => 'chi', 'Carub.0001s1054' => 'cru', 'Carub.0002s0431' => 'cru', 'Carub.0004s0818' => 'cru', 'Carub.0006s0846' => 'cru', 'Carub.0007s2722' => 'cru', 'Ca_00058_v3' => 'car', 'Ca_17831_v3' => 'car', 'Ca_19408_v3' => 'car', 'Ca_24397_v3' => 'car', 'Ca_25664_v3' => 'car', 'CBR_g21818' => 'cbr', 'CBR_g31195' => 'cbr', 'CBR_g32282' => 'cbr', 'CBR_g39599' => 'cbr', 'CBR_g49410' => 'cbr', 'Cc01_g09120' => 'ccan', 'Cc01_g09130' => 'ccan', 'Cc02_g09630' => 'ccan', 'Cc02_g22810' => 'ccan', 'Cc03_g03810' => 'ccan', 'CDE02G3718' => 'cde', 'CDE04G3183' => 'cde', 'CDE07G1046' => 'cde', 'CDE08G0480' => 'cde', 'Cfa005493' => 'cfa', 'Cfa010312' => 'cfa', 'Cfa015648' => 'cfa', 'Ciclev10002793m.g' => 'ccl', 'Ciclev10003356m.g' => 'ccl', 'Ciclev10006141m.g' => 'ccl', 'Ciclev10016676m.g' => 'ccl', 'Ciclev10017081m.g' => 'ccl', 'Ciclev10029499m.g' => 'ccl', 'CiPaw.01G166300' => 'cil', 'CiPaw.06G145600' => 'cil', 'CiPaw.13G040100' => 'cil', 'CiPaw.13G135800' => 'cil', 'ClCG01G012230' => 'cla', 'ClCG05G009510' => 'cla', 'ClCG08G008270' => 'cla', 'COL.COLO4_11763' => 'col', 'COL.COLO4_19876' => 'col', 'COL.COLO4_21481' => 'col', 'Cpa.g.sc118.34' => 'cpa', 'Cpa.g.sc32.13' => 'cpa', 'Cpa.g.sc58.103' => 'cpa', 'Cre03.g183850' => 'cre', 'Cre06.g306350' => 'cre', 'Cre07.g334800' => 'cre', 'Cre12.g487900' => 'cre', 'Cre14.g626700' => 'cre', 'Cre16.g658400' => 'cre', 'Cre17.g700950' => 'cre', 'CsaV3_1G014830' => 'csa', 'CsaV3_3G013320' => 'csa', 'CsaV3_3G019210' => 'csa', 'CsaV3_3G019220' => 'csa', 'CsaV3_6G004230' => 'csa', 'CSS0003773' => 'camsi', 'CSS0004563' => 'camsi', 'CSS0013949' => 'camsi', 'CSS0025971' => 'camsi', 'CSS0028570' => 'camsi', 'CSS0033127' => 'camsi', 'CSS0036051' => 'camsi', 'CSS0040087' => 'camsi', 'CSS0043179' => 'camsi', 'DCAR_006161' => 'dca', 'DCAR_010351' => 'dca', 'DCAR_012197' => 'dca', 'DCAR_024162' => 'dca', 'Dinv01030' => 'din', 'Dinv10924' => 'din', 'Dinv11835' => 'din', 'Dinv22841' => 'din', 'Dinv42553' => 'din', 'Duzib052G0560' => 'dzi', 'Duzib132G0389' => 'dzi', 'Duzib150G1181' => 'dzi', 'Duzib168G0623' => 'dzi', 'Duzib170G1036' => 'dzi', 'Duzib212G0200' => 'dzi', 'Duzib248G0194' => 'dzi', 'ECA232G2193' => 'eca', 'ECA233G0302' => 'eca', 'ECA234G2813' => 'eca', 'ECA234G4866' => 'eca', 'ECA240G3932' => 'eca', 'ECA248G0385' => 'eca', 'EL10Ac2g04781' => 'bvu', 'EL10Ac3g06445' => 'bvu', 'EL10Ac7g15825' => 'bvu', 'EL10Ac8g18550' => 'bvu', 'Eucgr.B03849' => 'egr', 'Eucgr.I02744' => 'egr', 'Eucgr.J00264' => 'egr', 'Eucgr.J00493' => 'egr', 'FAN04G2181' => 'fan', 'FAN07G2666' => 'fan', 'FAN11G0024' => 'fan', 'FAN12G1105' => 'fan', 'FAN13G0302' => 'fan', 'FAN15G2781' => 'fan', 'FAN16G1274' => 'fan', 'FAN17G2988' => 'fan', 'FAN18G2621' => 'fan', 'FAN21G0013' => 'fan', 'FAN22G1211' => 'fan', 'FAN25G3626' => 'fan', 'FvH4_2g09491' => 'fve', 'FvH4_3g24910' => 'fve', 'FvH4_4g15630' => 'fve', 'FvH4_5g28820' => 'fve', 'Glyma.01G238000' => 'gma', 'Glyma.05G168400' => 'gma', 'Glyma.08G126800' => 'gma', 'Glyma.08G188500' => 'gma', 'Glyma.10G278900' => 'gma', 'Glyma.11G005700' => 'gma', 'Glyma.11G183300' => 'gma', 'Glyma.12G089200' => 'gma', 'Glyma.12G169400' => 'gma', 'Glyma.12G169500' => 'gma', 'Glyma.12G169600' => 'gma', 'Glyma.20G110800' => 'gma', 'Gohir.A03G192900' => 'ghi', 'Gohir.A03G193000' => 'ghi', 'Gohir.A05G080700' => 'ghi', 'Gohir.A09G216000' => 'ghi', 'Gohir.A12G027700' => 'ghi', 'Gohir.A13G036200' => 'ghi', 'Gohir.A13G222600' => 'ghi', 'Gohir.D02G213900' => 'ghi', 'Gohir.D02G214000' => 'ghi', 'Gohir.D05G083700' => 'ghi', 'Gohir.D05G083800' => 'ghi', 'Gohir.D05G083850' => 'ghi', 'Gohir.D08G015400' => 'ghi', 'Gohir.D09G218400' => 'ghi', 'Gohir.D12G027100' => 'ghi', 'Gohir.D13G034500' => 'ghi', 'Gohir.D13G227400' => 'ghi', 'Gorai.005G241800' => 'gra', 'Gorai.005G241900' => 'gra', 'Gorai.006G239400' => 'gra', 'Gorai.008G027600' => 'gra', 'Gorai.009G085400' => 'gra', 'Gorai.009G085500' => 'gra', 'Gorai.013G039000' => 'gra', 'Gorai.013G194800' => 'gra', 'Gorai.013G257900' => 'gra', 'GSVIVG01000982001' => 'vvi', 'GSVIVG01017981001' => 'vvi', 'HanXRQChr01g0024061' => 'han', 'HanXRQChr09g0247831' => 'han', 'HanXRQChr10g0294611' => 'han', 'HanXRQChr10g0294621' => 'han', 'HanXRQChr11g0346821' => 'han', 'HanXRQChr13g0397461' => 'han', 'HanXRQChr16g0513651' => 'han', 'HanXRQChr16g0513701' => 'han', 'Haze_00897' => 'cav', 'Haze_01745' => 'cav', 'Haze_02486' => 'cav', 'Haze_02487' => 'cav', 'Haze_23374' => 'cav', 'Hma1.2p1_0578F.1_g182520' => 'hma', 'Hma1.2p1_0602F.1_g187350' => 'hma', 'Hma1.2p1_0602F.1_g187360' => 'hma', 'Hma1.2p1_0874F.1_g231320' => 'hma', 'Hma1.2p1_1197F.1_g266210' => 'hma', 'Hma1.2p1_1197F.1_g266220' => 'hma', 'Hma1.2p1_2167F.1_g315895' => 'hma', 'Hma1.2p1_2190F.1_g316640' => 'hma', 'Hma1.2p1_3645F.1_g337153' => 'hma', 'HPP92_004907' => 'vpl', 'HPP92_012134' => 'vpl', 'HPP92_025136' => 'vpl', 'HPP92_026087' => 'vpl', 'Hund06782' => 'sun', 'Hund06784' => 'sun', 'Lalb_Chr01g0004861' => 'lal', 'Lalb_Chr02g0140591' => 'lal', 'Lalb_Chr02g0140611' => 'lal', 'Lalb_Chr03g0028101' => 'lal', 'Lalb_Chr07g0185791' => 'lal', 'Lalb_Chr12g0204491' => 'lal', 'Lalb_Chr13g0295671' => 'lal', 'Lalb_Chr19g0136461' => 'lal', 'Lalb_Chr21g0309191' => 'lal', 'Lj1g0028158' => 'lja', 'Lj1P236T38' => 'lonja', 'Lj2C32G2' => 'lonja', 'Lj2P944T8' => 'lonja', 'Lj2P963T15' => 'lonja', 'Lj3g0011788' => 'lja', 'Lj4g0025027' => 'lja', 'Lj5P255T36' => 'lonja', 'Lj6g0018866' => 'lja', 'Lj6P608T31' => 'lonja', 'LjContig00408g0008879' => 'lja', 'Lsat_1_v5_gn_5_105820' => 'lsa', 'Lsat_1_v5_gn_6_38800' => 'lsa', 'Lsat_1_v5_gn_7_67141' => 'lsa', 'Manes.04G003400' => 'mes', 'Manes.07G020000' => 'mes', 'Manes.07G020100' => 'mes', 'Manes.07G020150' => 'mes', 'Manes.10G061500' => 'mes', 'Manes.10G123200' => 'mes', 'Manes.11G161900' => 'mes', 'Manes.15G029300' => 'mes', 'Mapoly0071s0018' => 'mpo', 'Mapoly0082s0023' => 'mpo', 'Mapoly3477s0001' => 'mpo', 'MBI05_g31233_MAGBIO' => 'mbi', 'MBI09_g05946_MAGBIO' => 'mbi', 'MBI09_g05947_MAGBIO' => 'mbi', 'MBI17_g08346_MAGBIO' => 'mbi', 'MCO04G038' => 'mco', 'MCO09G370' => 'mco', 'MCO13G605' => 'mco', 'MD00G1075500' => 'mdo', 'MD03G1144300' => 'mdo', 'MD08G1236800' => 'mdo', 'MD13G1193300' => 'mdo', 'MD15G1428700' => 'mdo', 'Medtr1g112030' => 'mtr', 'Medtr1g112050' => 'mtr', 'Medtr2g006290' => 'mtr', 'Medtr2g086510' => 'mtr', 'Medtr4g053120' => 'mtr', 'Medtr5g006320' => 'mtr', 'Medtr8g088720' => 'mtr', 'MELO3C004712.2' => 'cme', 'MELO3C006533.2' => 'cme', 'MELO3C019438.2' => 'cme', 'MELO3C019440.2' => 'cme', 'MELO3C019441.2' => 'cme', 'MELO3C019895.2' => 'cme', 'Migut.B00811' => 'egut', 'Migut.D02447' => 'egut', 'Migut.F00875' => 'egut', 'Migut.N00186' => 'egut', 'Migut.N01051' => 'egut', 'Migut.N02491' => 'egut', 'Migut.O00784' => 'egut', 'MSTRG.12367' => 'ama', 'MSTRG.18756' => 'ama', 'MSTRG.21042' => 'ama', 'Nitab4.5_0000559g0040' => 'nta', 'Nitab4.5_0000667g0190' => 'nta', 'Nitab4.5_0000755g0160' => 'nta', 'Nitab4.5_0001216g0080' => 'nta', 'Nitab4.5_0004069g0040' => 'nta', 'Nitab4.5_0004129g0010' => 'nta', 'Nitab4.5_0005744g0030' => 'nta', 'Nitab4.5_0006996g0030' => 'nta', 'Nitab4.5_0008971g0040' => 'nta', 'Nitab4.5_0009769g0020' => 'nta', 'Nitab4.5_0009833g0010' => 'nta', 'Nitab4.5_0013140g0020' => 'nta', 'Nn003s41376' => 'nnu', 'Nn1g01857' => 'nnu', 'Nn1g03611' => 'nnu', 'Nn1g06853' => 'nnu', 'Nn3g18360' => 'nnu', 'Nn4g26328' => 'nnu', 'Nn5g27531' => 'nnu', 'Nn6g34899' => 'nnu', 'Nn7g36299' => 'nnu', 'Oeu021485.1' => 'oeu', 'Oeu022433.1' => 'oeu', 'Oeu032111.1' => 'oeu', 'Oeu051608.1' => 'oeu', 'Os01g0860601' => 'osa', 'Os03g0659200' => 'osa', 'Os03g0835900' => 'osa', 'Os04g0412200' => 'osa', 'Os05g0443500' => 'osa', 'Os07g0251500' => 'osa', 'Os08g0104600' => 'osa', 'Peaxi162Scf00003g00047' => 'pax', 'Peaxi162Scf00003g00052' => 'pax', 'Peaxi162Scf00003g00394' => 'pax', 'Peaxi162Scf00091g00621' => 'pax', 'Peaxi162Scf00152g00146' => 'pax', 'Peaxi162Scf00173g00025' => 'pax', 'Peaxi162Scf00195g00102' => 'pax', 'Peaxi162Scf00402g00013' => 'pax', 'Peaxi162Scf00519g00618' => 'pax', 'PGR004G2838' => 'pgr', 'PGR044G2275' => 'pgr', 'PGR102G1377' => 'pgr', 'PGR119G1245' => 'pgr', 'PGR142G4449' => 'pgr', 'PGSC0003DMG400004532' => 'stu', 'PGSC0003DMG400011950' => 'stu', 'PGSC0003DMG400023391' => 'stu', 'PGSC0003DMG400023985' => 'stu', 'PGSC0003DMG400026360' => 'stu', 'PGSC0003DMG400035711' => 'stu', 'PGSC0003DMG400037286' => 'stu', 'PGSC0003DMG402005881' => 'stu', 'Phvul.002G045400' => 'pvu', 'Phvul.006G216600' => 'pvu', 'Phvul.006G216700' => 'pvu', 'Phvul.006G216800' => 'pvu', 'Phvul.007G022500' => 'pvu', 'Phvul.011G094400' => 'pvu', 'Potri.001G470700' => 'ptr', 'Potri.003G015200' => 'ptr', 'Potri.004G202500' => 'ptr', 'Potri.004G218400' => 'ptr', 'Potri.008G020100' => 'ptr', 'Potri.008G153200' => 'ptr', 'Potri.009G163800' => 'ptr', 'Potri.010G087300' => 'ptr', 'Potri.010G239100' => 'ptr', 'Pp3c10_16100' => 'ppa', 'Pp3c10_16880' => 'ppa', 'Pp3c16_6230' => 'ppa', 'Pp3c17_18910' => 'ppa', 'Pp3c3_22119' => 'ppa', 'Pp3c3_22140' => 'ppa', 'Pp3c4_8159' => 'ppa', 'Pp3c4_8171' => 'ppa', 'Pp3c4_8330' => 'ppa', 'PRCOL_00004098' => 'pco', 'Prupe.1G013900' => 'ppe', 'Prupe.1G226300' => 'ppe', 'Prupe.1G573600' => 'ppe', 'Prupe.6G130100' => 'ppe', 'Psat3g090040' => 'psa', 'Psat4g210440' => 'psa', 'Psat6g231040' => 'psa', 'Psat6g231080' => 'psa', 'Psat7g063000' => 'psa', 'Psat7g188000' => 'psa', 'Psat7g188040' => 'psa', 'PSO017G0206' => 'pso', 'PSO170G0501' => 'pso', 'PSO170G6422' => 'pso', 'PSO210G7739' => 'pso', 'PSO339G1808' => 'pso', 'PSO339G6135' => 'pso', 'PSO384G0010' => 'pso', 'PSO384G0964' => 'pso', 'PSO761G0050' => 'pso', 'PSO782G4085' => 'pso', 'QL01p012264' => 'qlo', 'QL02p099491' => 'qlo', 'QL03p033868' => 'qlo', 'QL04p046678' => 'qlo', 'QL06p002448' => 'qlo', 'RcHm_v2.0_Chr4g0416181' => 'rch', 'RcHm_v2.0_Chr5g0044701' => 'rch', 'RcHm_v2.0_Chr6g0265781' => 'rch', 'RcHm_v2.0_Chr7g0221031' => 'rch', 'Rhsim04G0202000' => 'rsi', 'Rhsim11G0127300' => 'rsi', 'Rhsim13G0111800' => 'rsi', 'Sabra01G0165600' => 'sbr', 'Sabra03G0008300' => 'sbr', 'Sabra04G0136900' => 'sbr', 'Sabra08G0013400' => 'sbr', 'Sabra08G0116800' => 'sbr', 'Sabra09G0128000' => 'sbr', 'Sabra10G0055500' => 'sbr', 'Sabra10G0073300' => 'sbr', 'SalBow3G0385' => 'sbo', 'SalBow3G1119' => 'sbo', 'SalBow3G2005' => 'sbo', 'SalBow6G2563' => 'sbo', 'SalBow6G6386' => 'sbo', 'Sc06g0008800' => 'sci', 'Sc07g0004950' => 'sci', 'Sc09g0005340' => 'sci', 'Sc13g0004410' => 'sci', 'Sc21g0007090' => 'sci', 'Sed0009285' => 'sed', 'Sed0017583' => 'sed', 'Sed0019699' => 'sed', 'Sed0023107' => 'sed', 'SEGI_10916' => 'sgi', 'SEGI_16217' => 'sgi', 'SEGI_19466' => 'sgi', 'SEGI_41115' => 'sgi', 'SGA_v2.0_scaffold111G31534' => 'sas', 'SGA_v2.0_scaffold22G09864' => 'sas', 'SGA_v2.0_scaffold338G49219' => 'sas', 'SGA_v2.0_scaffold92G28298' => 'sas', 'SMO119G0064' => 'smo', 'SMO223G0038' => 'smo', 'SMO347G0584' => 'smo', 'SMO351G0010' => 'smo', 'SMO356G0404' => 'smo', 'Solyc01g103920.3' => 'sly', 'Solyc04g009710.2' => 'sly', 'Solyc05g055280.2' => 'sly', 'Solyc10g044520.3' => 'sly', 'Solyc10g075160.1' => 'sly', 'Solyc11g006910.3' => 'sly', 'Solyc11g068430.3' => 'sly', 'Sopen01g046310' => 'spe', 'Sopen03g001200' => 'spe', 'Sopen04g004830' => 'spe', 'Sopen05g033720' => 'spe', 'Sopen06g030740' => 'spe', 'Sopen10g013090' => 'spe', 'Sopen10g027630' => 'spe', 'Sopen10g027640' => 'spe', 'Sopen11g002820' => 'spe', 'Sopen11g027140' => 'spe', 'Sp1g09680' => 'spa', 'Sp2g03630' => 'spa', 'Sp4g10320' => 'spa', 'Sp6g33400' => 'spa', 'Sp7g13030' => 'spa', 'TAR365G0317' => 'tar', 'TAR376G0979' => 'tar', 'TAR623G1665' => 'tar', 'TAR633G2373' => 'tar', 'TAR636G1400' => 'tar', 'THA.LOC104800529' => 'tha', 'THA.LOC104808547' => 'tha', 'THA.LOC104809615' => 'tha', 'THA.LOC104815724' => 'tha', 'THA.LOC104818480' => 'tha', 'THA.LOC104819179' => 'tha', 'THA.LOC104822270' => 'tha', 'THA.LOC104826425' => 'tha', 'Thecc.02G089700' => 'tca', 'Thecc.04G232300' => 'tca', 'Thecc.09G283400' => 'tca', 'Thhalv10009020m.g' => 'esa', 'Thhalv10015506m.g' => 'esa', 'Thhalv10017364m.g' => 'esa', 'Thhalv10023742m.g' => 'esa', 'Thhalv10026483m.g' => 'esa', 'TPR.G17232' => 'tpr', 'TPR.G2133' => 'tpr', 'TPR.G2498' => 'tpr', 'TPR.G31942' => 'tpr', 'TPR.G37877' => 'tpr', 'TPR.G4571' => 'tpr', 'TWI14G1113' => 'twi', 'TWI15G0426' => 'twi', 'TWI31G1005' => 'twi', 'TWI38G0513' => 'twi', 'TWI38G1484' => 'twi', 'TWI73G1098' => 'twi', 'unitig_26.g10519' => 'ugi', 'unitig_736.g22395' => 'ugi', 'unitig_747.g21234' => 'ugi', 'unitig_747.g21942' => 'ugi', 'vmacro14351' => 'vma', 'VMungo0540G0082' => 'vmu', 'VMungo0540G0405' => 'vmu', 'VMungo0540G1486' => 'vmu', 'VMungo0540G1692' => 'vmu', 'VMungo0720G2473' => 'vmu', 'VMungo1127G1562' => 'vmu', 'VMungo1215G1918' => 'vmu', 'Zm00001eb052650' => 'zma', 'Zm00001eb063710' => 'zma', 'Zm00001eb083950' => 'zma', 'Zm00001eb174420' => 'zma', 'Zm00001eb260140' => 'zma', 'Zm00001eb260150' => 'zma', 'Zm00001eb260160' => 'zma', 'Zm00001eb348290' => 'zma', 'Zm00001eb366870' => 'zma', 'Zm00001eb421930' => 'zma' ) $gf_id = 'HOM05D001025' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001025' ) $data_identifier = 'HOM05D001025' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 19, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 2, 'amhyb' => (int) 4, 'aly' => (int) 4, 'aox' => (int) 4, 'arhy' => (int) 3, 'ath' => (int) 5, 'atr' => (int) 4, 'acertr' => (int) 3, 'cqu' => (int) 7, 'bca' => (int) 17, 'bol' => (int) 10, 'bra' => (int) 9, 'can' => (int) 10, 'cansat' => (int) 6, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 5, 'cbr' => (int) 5, 'ccan' => (int) 5, 'cde' => (int) 4, 'cfa' => (int) 3, 'ccl' => (int) 6, 'cil' => (int) 4, 'cla' => (int) 3, 'col' => (int) 3, 'cpa' => (int) 3, 'cre' => (int) 7, 'csa' => (int) 5, 'camsi' => (int) 9, 'dca' => (int) 4, 'din' => (int) 5, 'dzi' => (int) 7, 'eca' => (int) 6, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 12, 'fve' => (int) 4, 'gma' => (int) 12, 'ghi' => (int) 17, 'gra' => (int) 9, 'vvi' => (int) 2, 'han' => (int) 8, 'cav' => (int) 5, 'hma' => (int) 9, 'vpl' => (int) 4, 'sun' => (int) 2, 'lal' => (int) 9, 'lja' => (int) 5, 'lonja' => (int) 6, 'lsa' => (int) 3, 'mes' => (int) 8, 'mpo' => (int) 3, 'mbi' => (int) 4, 'mco' => (int) 3, 'mdo' => (int) 5, 'mtr' => (int) 7, 'cme' => (int) 6, 'egut' => (int) 7, 'ama' => (int) 3, 'nta' => (int) 12, 'nnu' => (int) 9, 'oeu' => (int) 4, 'osa' => (int) 7, 'pax' => (int) 9, 'pgr' => (int) 5, 'stu' => (int) 8, 'pvu' => (int) 6, 'ptr' => (int) 9, 'ppa' => (int) 9, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 7, 'pso' => (int) 10, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 3, 'sbr' => (int) 8, 'sbo' => (int) 5, 'sci' => (int) 5, 'sed' => (int) 4, 'sgi' => (int) 4, 'sas' => (int) 4, 'smo' => (int) 5, 'sly' => (int) 7, 'spe' => (int) 10, 'spa' => (int) 5, 'tar' => (int) 5, 'tha' => (int) 8, 'tca' => (int) 3, 'esa' => (int) 5, 'tpr' => (int) 6, 'twi' => (int) 6, 'ugi' => (int) 4, 'vma' => (int) 1, 'vmu' => (int) 7, 'zma' => (int) 10 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb421930' $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' => 'HOM05D001025', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '592', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p22650' => 'bna', 'A01p29720' => 'bna', 'A03p26560' => 'bna', 'A03p68820' => 'bna', 'A04p20980' => 'bna', 'A06p07730' => 'bna', 'A07p18260' => 'bna', 'A08p33710' => 'bna', 'A09p16970' => 'bna', 'A10p27490' => 'bna', 'Aa31LG1G17300' => 'aar', 'Aa31LG1G3910' => 'aar', 'Aa31LG2G9630' => 'aar', 'Aa31LG5G8360' => 'aar', 'Aa31LG9G2410' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4699' => 'aag', 'Actinidia23512' => 'ach', 'Actinidia37080' => 'ach', 'Ah.01g020380' => 'amhyb', 'Ah.08g215710' => 'amhyb', 'Ah.09g225110' => 'amhyb', 'Ah.10g036680' => 'amhyb', 'AL1G21940' => 'aly', 'AL2G15540' => 'aly', 'AL4G21520' => 'aly', 'AL7G40960' => 'aly', 'Aqoxy2G01191' => 'aox', 'Aqoxy2G03393' => 'aox', 'Aqoxy4G02775' => 'aox', 'Aqoxy6G00058' => 'aox', 'arahy.Tifrunner.gnm1.ann1.9X74H2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CW3FX9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R485W7' => 'arhy', 'AT1G10960' => 'ath', 'AT1G60950' => 'ath', 'AT2G27510' => 'ath', 'AT4G14890' => 'ath', 'AT5G10000' => 'ath', 'ATR0665G624' => 'atr', 'ATR0697G138' => 'atr', 'ATR0776G046' => 'atr', 'ATR1134G135' => 'atr', 'Atru.chr12.1025' => 'acertr', 'Atru.chr3.3241' => 'acertr', 'Atru.chr4.2460' => 'acertr', 'AUR62007427' => 'cqu', 'AUR62010960' => 'cqu', 'AUR62012201' => 'cqu', 'AUR62021470' => 'cqu', 'AUR62022834' => 'cqu', 'AUR62033635' => 'cqu', 'AUR62036186' => 'cqu', 'BcaB01g03077' => 'bca', 'BcaB02g10093' => 'bca', 'BcaB04g20295' => 'bca', 'BcaB06g28147' => 'bca', 'BcaB07g31253' => 'bca', 'BcaC01g04946' => 'bca', 'BcaC02g10614' => 'bca', 'BcaC02g10885' => 'bca', 'BcaC04g19356' => 'bca', 'BcaC04g22297' => 'bca', 'BcaC05g24977' => 'bca', 'BcaC06g31823' => 'bca', 'BcaC07g38633' => 'bca', 'BcaC09g49353' => 'bca', 'BcaC09g50168' => 'bca', 'BcaNung00322' => 'bca', 'BcaNung04769' => 'bca', 'BolC1t02753H' => 'bol', 'BolC1t03721H' => 'bol', 'BolC3t15525H' => 'bol', 'BolC4t23903H' => 'bol', 'BolC4t24231H' => 'bol', 'BolC4t27209H' => 'bol', 'BolC5t29671H' => 'bol', 'BolC8t49044H' => 'bol', 'BolC9t54999H' => 'bol', 'BolC9t59517H' => 'bol', 'BraA01t02178Z' => 'bra', 'BraA01t03099Z' => 'bra', 'BraA03t11867Z' => 'bra', 'BraA04t17667Z' => 'bra', 'BraA07t29542Z' => 'bra', 'BraA08t35287Z' => 'bra', 'BraA09t37334Z' => 'bra', 'BraA10t44801Z' => 'bra', 'BraSC39t46181Z' => 'bra', 'C01p28240' => 'bna', 'C01p37530' => 'bna', 'C03p31820' => 'bna', 'C04p24080' => 'bna', 'C04p25790' => 'bna', 'C04p56770' => 'bna', 'C05p09310' => 'bna', 'C09p21010' => 'bna', 'C09p67560' => 'bna', 'CAN.G1324.7' => 'can', 'CAN.G1358.10' => 'can', 'CAN.G1550.2' => 'can', 'CAN.G186.56' => 'can', 'CAN.G1965.1' => 'can', 'CAN.G645.15' => 'can', 'CAN.G798.26' => 'can', 'CAN.G798.27' => 'can', 'CAN.G798.29' => 'can', 'CAN.G919.31' => 'can', 'CANSAT11G0133' => 'cansat', 'CANSAT11G1171' => 'cansat', 'CANSAT11G2056' => 'cansat', 'CANSAT56G1202' => 'cansat', 'CANSAT56G1514' => 'cansat', 'CANSAT78G0455' => 'cansat', 'CARHR011190' => 'chi', 'CARHR051980' => 'chi', 'CARHR120170' => 'chi', 'CARHR203310' => 'chi', 'CARHR221490' => 'chi', 'Carub.0001s1054' => 'cru', 'Carub.0002s0431' => 'cru', 'Carub.0004s0818' => 'cru', 'Carub.0006s0846' => 'cru', 'Carub.0007s2722' => 'cru', 'Ca_00058_v3' => 'car', 'Ca_17831_v3' => 'car', 'Ca_19408_v3' => 'car', 'Ca_24397_v3' => 'car', 'Ca_25664_v3' => 'car', 'CBR_g21818' => 'cbr', 'CBR_g31195' => 'cbr', 'CBR_g32282' => 'cbr', 'CBR_g39599' => 'cbr', 'CBR_g49410' => 'cbr', 'Cc01_g09120' => 'ccan', 'Cc01_g09130' => 'ccan', 'Cc02_g09630' => 'ccan', 'Cc02_g22810' => 'ccan', 'Cc03_g03810' => 'ccan', 'CDE02G3718' => 'cde', 'CDE04G3183' => 'cde', 'CDE07G1046' => 'cde', 'CDE08G0480' => 'cde', 'Cfa005493' => 'cfa', 'Cfa010312' => 'cfa', 'Cfa015648' => 'cfa', 'Ciclev10002793m.g' => 'ccl', 'Ciclev10003356m.g' => 'ccl', 'Ciclev10006141m.g' => 'ccl', 'Ciclev10016676m.g' => 'ccl', 'Ciclev10017081m.g' => 'ccl', 'Ciclev10029499m.g' => 'ccl', 'CiPaw.01G166300' => 'cil', 'CiPaw.06G145600' => 'cil', 'CiPaw.13G040100' => 'cil', 'CiPaw.13G135800' => 'cil', 'ClCG01G012230' => 'cla', 'ClCG05G009510' => 'cla', 'ClCG08G008270' => 'cla', 'COL.COLO4_11763' => 'col', 'COL.COLO4_19876' => 'col', 'COL.COLO4_21481' => 'col', 'Cpa.g.sc118.34' => 'cpa', 'Cpa.g.sc32.13' => 'cpa', 'Cpa.g.sc58.103' => 'cpa', 'Cre03.g183850' => 'cre', 'Cre06.g306350' => 'cre', 'Cre07.g334800' => 'cre', 'Cre12.g487900' => 'cre', 'Cre14.g626700' => 'cre', 'Cre16.g658400' => 'cre', 'Cre17.g700950' => 'cre', 'CsaV3_1G014830' => 'csa', 'CsaV3_3G013320' => 'csa', 'CsaV3_3G019210' => 'csa', 'CsaV3_3G019220' => 'csa', 'CsaV3_6G004230' => 'csa', 'CSS0003773' => 'camsi', 'CSS0004563' => 'camsi', 'CSS0013949' => 'camsi', 'CSS0025971' => 'camsi', 'CSS0028570' => 'camsi', 'CSS0033127' => 'camsi', 'CSS0036051' => 'camsi', 'CSS0040087' => 'camsi', 'CSS0043179' => 'camsi', 'DCAR_006161' => 'dca', 'DCAR_010351' => 'dca', 'DCAR_012197' => 'dca', 'DCAR_024162' => 'dca', 'Dinv01030' => 'din', 'Dinv10924' => 'din', 'Dinv11835' => 'din', 'Dinv22841' => 'din', 'Dinv42553' => 'din', 'Duzib052G0560' => 'dzi', 'Duzib132G0389' => 'dzi', 'Duzib150G1181' => 'dzi', 'Duzib168G0623' => 'dzi', 'Duzib170G1036' => 'dzi', 'Duzib212G0200' => 'dzi', 'Duzib248G0194' => 'dzi', 'ECA232G2193' => 'eca', 'ECA233G0302' => 'eca', 'ECA234G2813' => 'eca', 'ECA234G4866' => 'eca', 'ECA240G3932' => 'eca', 'ECA248G0385' => 'eca', 'EL10Ac2g04781' => 'bvu', 'EL10Ac3g06445' => 'bvu', 'EL10Ac7g15825' => 'bvu', 'EL10Ac8g18550' => 'bvu', 'Eucgr.B03849' => 'egr', 'Eucgr.I02744' => 'egr', 'Eucgr.J00264' => 'egr', 'Eucgr.J00493' => 'egr', 'FAN04G2181' => 'fan', 'FAN07G2666' => 'fan', 'FAN11G0024' => 'fan', 'FAN12G1105' => 'fan', 'FAN13G0302' => 'fan', 'FAN15G2781' => 'fan', 'FAN16G1274' => 'fan', 'FAN17G2988' => 'fan', 'FAN18G2621' => 'fan', 'FAN21G0013' => 'fan', 'FAN22G1211' => 'fan', 'FAN25G3626' => 'fan', 'FvH4_2g09491' => 'fve', 'FvH4_3g24910' => 'fve', 'FvH4_4g15630' => 'fve', 'FvH4_5g28820' => 'fve', 'Glyma.01G238000' => 'gma', 'Glyma.05G168400' => 'gma', 'Glyma.08G126800' => 'gma', 'Glyma.08G188500' => 'gma', 'Glyma.10G278900' => 'gma', 'Glyma.11G005700' => 'gma', 'Glyma.11G183300' => 'gma', 'Glyma.12G089200' => 'gma', 'Glyma.12G169400' => 'gma', 'Glyma.12G169500' => 'gma', 'Glyma.12G169600' => 'gma', 'Glyma.20G110800' => 'gma', 'Gohir.A03G192900' => 'ghi', 'Gohir.A03G193000' => 'ghi', 'Gohir.A05G080700' => 'ghi', 'Gohir.A09G216000' => 'ghi', 'Gohir.A12G027700' => 'ghi', 'Gohir.A13G036200' => 'ghi', 'Gohir.A13G222600' => 'ghi', 'Gohir.D02G213900' => 'ghi', 'Gohir.D02G214000' => 'ghi', 'Gohir.D05G083700' => 'ghi', 'Gohir.D05G083800' => 'ghi', 'Gohir.D05G083850' => 'ghi', 'Gohir.D08G015400' => 'ghi', 'Gohir.D09G218400' => 'ghi', 'Gohir.D12G027100' => 'ghi', 'Gohir.D13G034500' => 'ghi', 'Gohir.D13G227400' => 'ghi', 'Gorai.005G241800' => 'gra', 'Gorai.005G241900' => 'gra', 'Gorai.006G239400' => 'gra', 'Gorai.008G027600' => 'gra', 'Gorai.009G085400' => 'gra', 'Gorai.009G085500' => 'gra', 'Gorai.013G039000' => 'gra', 'Gorai.013G194800' => 'gra', 'Gorai.013G257900' => 'gra', 'GSVIVG01000982001' => 'vvi', 'GSVIVG01017981001' => 'vvi', 'HanXRQChr01g0024061' => 'han', 'HanXRQChr09g0247831' => 'han', 'HanXRQChr10g0294611' => 'han', 'HanXRQChr10g0294621' => 'han', 'HanXRQChr11g0346821' => 'han', 'HanXRQChr13g0397461' => 'han', 'HanXRQChr16g0513651' => 'han', 'HanXRQChr16g0513701' => 'han', 'Haze_00897' => 'cav', 'Haze_01745' => 'cav', 'Haze_02486' => 'cav', 'Haze_02487' => 'cav', 'Haze_23374' => 'cav', 'Hma1.2p1_0578F.1_g182520' => 'hma', 'Hma1.2p1_0602F.1_g187350' => 'hma', 'Hma1.2p1_0602F.1_g187360' => 'hma', 'Hma1.2p1_0874F.1_g231320' => 'hma', 'Hma1.2p1_1197F.1_g266210' => 'hma', 'Hma1.2p1_1197F.1_g266220' => 'hma', 'Hma1.2p1_2167F.1_g315895' => 'hma', 'Hma1.2p1_2190F.1_g316640' => 'hma', 'Hma1.2p1_3645F.1_g337153' => 'hma', 'HPP92_004907' => 'vpl', 'HPP92_012134' => 'vpl', 'HPP92_025136' => 'vpl', 'HPP92_026087' => 'vpl', 'Hund06782' => 'sun', 'Hund06784' => 'sun', 'Lalb_Chr01g0004861' => 'lal', 'Lalb_Chr02g0140591' => 'lal', 'Lalb_Chr02g0140611' => 'lal', 'Lalb_Chr03g0028101' => 'lal', 'Lalb_Chr07g0185791' => 'lal', 'Lalb_Chr12g0204491' => 'lal', 'Lalb_Chr13g0295671' => 'lal', 'Lalb_Chr19g0136461' => 'lal', 'Lalb_Chr21g0309191' => 'lal', 'Lj1g0028158' => 'lja', 'Lj1P236T38' => 'lonja', 'Lj2C32G2' => 'lonja', 'Lj2P944T8' => 'lonja', 'Lj2P963T15' => 'lonja', 'Lj3g0011788' => 'lja', 'Lj4g0025027' => 'lja', 'Lj5P255T36' => 'lonja', 'Lj6g0018866' => 'lja', 'Lj6P608T31' => 'lonja', 'LjContig00408g0008879' => 'lja', 'Lsat_1_v5_gn_5_105820' => 'lsa', 'Lsat_1_v5_gn_6_38800' => 'lsa', 'Lsat_1_v5_gn_7_67141' => 'lsa', 'Manes.04G003400' => 'mes', 'Manes.07G020000' => 'mes', 'Manes.07G020100' => 'mes', 'Manes.07G020150' => 'mes', 'Manes.10G061500' => 'mes', 'Manes.10G123200' => 'mes', 'Manes.11G161900' => 'mes', 'Manes.15G029300' => 'mes', 'Mapoly0071s0018' => 'mpo', 'Mapoly0082s0023' => 'mpo', 'Mapoly3477s0001' => 'mpo', 'MBI05_g31233_MAGBIO' => 'mbi', 'MBI09_g05946_MAGBIO' => 'mbi', 'MBI09_g05947_MAGBIO' => 'mbi', 'MBI17_g08346_MAGBIO' => 'mbi', 'MCO04G038' => 'mco', 'MCO09G370' => 'mco', 'MCO13G605' => 'mco', 'MD00G1075500' => 'mdo', 'MD03G1144300' => 'mdo', 'MD08G1236800' => 'mdo', 'MD13G1193300' => 'mdo', 'MD15G1428700' => 'mdo', 'Medtr1g112030' => 'mtr', 'Medtr1g112050' => 'mtr', 'Medtr2g006290' => 'mtr', 'Medtr2g086510' => 'mtr', 'Medtr4g053120' => 'mtr', 'Medtr5g006320' => 'mtr', 'Medtr8g088720' => 'mtr', 'MELO3C004712.2' => 'cme', 'MELO3C006533.2' => 'cme', 'MELO3C019438.2' => 'cme', 'MELO3C019440.2' => 'cme', 'MELO3C019441.2' => 'cme', 'MELO3C019895.2' => 'cme', 'Migut.B00811' => 'egut', 'Migut.D02447' => 'egut', 'Migut.F00875' => 'egut', 'Migut.N00186' => 'egut', 'Migut.N01051' => 'egut', 'Migut.N02491' => 'egut', 'Migut.O00784' => 'egut', 'MSTRG.12367' => 'ama', 'MSTRG.18756' => 'ama', 'MSTRG.21042' => 'ama', 'Nitab4.5_0000559g0040' => 'nta', 'Nitab4.5_0000667g0190' => 'nta', 'Nitab4.5_0000755g0160' => 'nta', 'Nitab4.5_0001216g0080' => 'nta', 'Nitab4.5_0004069g0040' => 'nta', 'Nitab4.5_0004129g0010' => 'nta', 'Nitab4.5_0005744g0030' => 'nta', 'Nitab4.5_0006996g0030' => 'nta', 'Nitab4.5_0008971g0040' => 'nta', 'Nitab4.5_0009769g0020' => 'nta', 'Nitab4.5_0009833g0010' => 'nta', 'Nitab4.5_0013140g0020' => 'nta', 'Nn003s41376' => 'nnu', 'Nn1g01857' => 'nnu', 'Nn1g03611' => 'nnu', 'Nn1g06853' => 'nnu', 'Nn3g18360' => 'nnu', 'Nn4g26328' => 'nnu', 'Nn5g27531' => 'nnu', 'Nn6g34899' => 'nnu', 'Nn7g36299' => 'nnu', 'Oeu021485.1' => 'oeu', 'Oeu022433.1' => 'oeu', 'Oeu032111.1' => 'oeu', 'Oeu051608.1' => 'oeu', 'Os01g0860601' => 'osa', 'Os03g0659200' => 'osa', 'Os03g0835900' => 'osa', 'Os04g0412200' => 'osa', 'Os05g0443500' => 'osa', 'Os07g0251500' => 'osa', 'Os08g0104600' => 'osa', 'Peaxi162Scf00003g00047' => 'pax', 'Peaxi162Scf00003g00052' => 'pax', 'Peaxi162Scf00003g00394' => 'pax', 'Peaxi162Scf00091g00621' => 'pax', 'Peaxi162Scf00152g00146' => 'pax', 'Peaxi162Scf00173g00025' => 'pax', 'Peaxi162Scf00195g00102' => 'pax', 'Peaxi162Scf00402g00013' => 'pax', 'Peaxi162Scf00519g00618' => 'pax', 'PGR004G2838' => 'pgr', 'PGR044G2275' => 'pgr', 'PGR102G1377' => 'pgr', 'PGR119G1245' => 'pgr', 'PGR142G4449' => 'pgr', 'PGSC0003DMG400004532' => 'stu', 'PGSC0003DMG400011950' => 'stu', 'PGSC0003DMG400023391' => 'stu', 'PGSC0003DMG400023985' => 'stu', 'PGSC0003DMG400026360' => 'stu', 'PGSC0003DMG400035711' => 'stu', 'PGSC0003DMG400037286' => 'stu', 'PGSC0003DMG402005881' => 'stu', 'Phvul.002G045400' => 'pvu', 'Phvul.006G216600' => 'pvu', 'Phvul.006G216700' => 'pvu', 'Phvul.006G216800' => 'pvu', 'Phvul.007G022500' => 'pvu', 'Phvul.011G094400' => 'pvu', 'Potri.001G470700' => 'ptr', 'Potri.003G015200' => 'ptr', 'Potri.004G202500' => 'ptr', 'Potri.004G218400' => 'ptr', 'Potri.008G020100' => 'ptr', 'Potri.008G153200' => 'ptr', 'Potri.009G163800' => 'ptr', 'Potri.010G087300' => 'ptr', 'Potri.010G239100' => 'ptr', 'Pp3c10_16100' => 'ppa', 'Pp3c10_16880' => 'ppa', 'Pp3c16_6230' => 'ppa', 'Pp3c17_18910' => 'ppa', 'Pp3c3_22119' => 'ppa', 'Pp3c3_22140' => 'ppa', 'Pp3c4_8159' => 'ppa', 'Pp3c4_8171' => 'ppa', 'Pp3c4_8330' => 'ppa', 'PRCOL_00004098' => 'pco', 'Prupe.1G013900' => 'ppe', 'Prupe.1G226300' => 'ppe', 'Prupe.1G573600' => 'ppe', 'Prupe.6G130100' => 'ppe', 'Psat3g090040' => 'psa', 'Psat4g210440' => 'psa', 'Psat6g231040' => 'psa', 'Psat6g231080' => 'psa', 'Psat7g063000' => 'psa', 'Psat7g188000' => 'psa', 'Psat7g188040' => 'psa', 'PSO017G0206' => 'pso', 'PSO170G0501' => 'pso', 'PSO170G6422' => 'pso', 'PSO210G7739' => 'pso', 'PSO339G1808' => 'pso', 'PSO339G6135' => 'pso', 'PSO384G0010' => 'pso', 'PSO384G0964' => 'pso', 'PSO761G0050' => 'pso', 'PSO782G4085' => 'pso', 'QL01p012264' => 'qlo', 'QL02p099491' => 'qlo', 'QL03p033868' => 'qlo', 'QL04p046678' => 'qlo', 'QL06p002448' => 'qlo', 'RcHm_v2.0_Chr4g0416181' => 'rch', 'RcHm_v2.0_Chr5g0044701' => 'rch', 'RcHm_v2.0_Chr6g0265781' => 'rch', 'RcHm_v2.0_Chr7g0221031' => 'rch', 'Rhsim04G0202000' => 'rsi', 'Rhsim11G0127300' => 'rsi', 'Rhsim13G0111800' => 'rsi', 'Sabra01G0165600' => 'sbr', 'Sabra03G0008300' => 'sbr', 'Sabra04G0136900' => 'sbr', 'Sabra08G0013400' => 'sbr', 'Sabra08G0116800' => 'sbr', 'Sabra09G0128000' => 'sbr', 'Sabra10G0055500' => 'sbr', 'Sabra10G0073300' => 'sbr', 'SalBow3G0385' => 'sbo', 'SalBow3G1119' => 'sbo', 'SalBow3G2005' => 'sbo', 'SalBow6G2563' => 'sbo', 'SalBow6G6386' => 'sbo', 'Sc06g0008800' => 'sci', 'Sc07g0004950' => 'sci', 'Sc09g0005340' => 'sci', 'Sc13g0004410' => 'sci', 'Sc21g0007090' => 'sci', 'Sed0009285' => 'sed', 'Sed0017583' => 'sed', 'Sed0019699' => 'sed', 'Sed0023107' => 'sed', 'SEGI_10916' => 'sgi', 'SEGI_16217' => 'sgi', 'SEGI_19466' => 'sgi', 'SEGI_41115' => 'sgi', 'SGA_v2.0_scaffold111G31534' => 'sas', 'SGA_v2.0_scaffold22G09864' => 'sas', 'SGA_v2.0_scaffold338G49219' => 'sas', 'SGA_v2.0_scaffold92G28298' => 'sas', 'SMO119G0064' => 'smo', 'SMO223G0038' => 'smo', 'SMO347G0584' => 'smo', 'SMO351G0010' => 'smo', 'SMO356G0404' => 'smo', 'Solyc01g103920.3' => 'sly', 'Solyc04g009710.2' => 'sly', 'Solyc05g055280.2' => 'sly', 'Solyc10g044520.3' => 'sly', 'Solyc10g075160.1' => 'sly', 'Solyc11g006910.3' => 'sly', 'Solyc11g068430.3' => 'sly', 'Sopen01g046310' => 'spe', 'Sopen03g001200' => 'spe', 'Sopen04g004830' => 'spe', 'Sopen05g033720' => 'spe', 'Sopen06g030740' => 'spe', 'Sopen10g013090' => 'spe', 'Sopen10g027630' => 'spe', 'Sopen10g027640' => 'spe', 'Sopen11g002820' => 'spe', 'Sopen11g027140' => 'spe', 'Sp1g09680' => 'spa', 'Sp2g03630' => 'spa', 'Sp4g10320' => 'spa', 'Sp6g33400' => 'spa', 'Sp7g13030' => 'spa', 'TAR365G0317' => 'tar', 'TAR376G0979' => 'tar', 'TAR623G1665' => 'tar', 'TAR633G2373' => 'tar', 'TAR636G1400' => 'tar', 'THA.LOC104800529' => 'tha', 'THA.LOC104808547' => 'tha', 'THA.LOC104809615' => 'tha', 'THA.LOC104815724' => 'tha', 'THA.LOC104818480' => 'tha', 'THA.LOC104819179' => 'tha', 'THA.LOC104822270' => 'tha', 'THA.LOC104826425' => 'tha', 'Thecc.02G089700' => 'tca', 'Thecc.04G232300' => 'tca', 'Thecc.09G283400' => 'tca', 'Thhalv10009020m.g' => 'esa', 'Thhalv10015506m.g' => 'esa', 'Thhalv10017364m.g' => 'esa', 'Thhalv10023742m.g' => 'esa', 'Thhalv10026483m.g' => 'esa', 'TPR.G17232' => 'tpr', 'TPR.G2133' => 'tpr', 'TPR.G2498' => 'tpr', 'TPR.G31942' => 'tpr', 'TPR.G37877' => 'tpr', 'TPR.G4571' => 'tpr', 'TWI14G1113' => 'twi', 'TWI15G0426' => 'twi', 'TWI31G1005' => 'twi', 'TWI38G0513' => 'twi', 'TWI38G1484' => 'twi', 'TWI73G1098' => 'twi', 'unitig_26.g10519' => 'ugi', 'unitig_736.g22395' => 'ugi', 'unitig_747.g21234' => 'ugi', 'unitig_747.g21942' => 'ugi', 'vmacro14351' => 'vma', 'VMungo0540G0082' => 'vmu', 'VMungo0540G0405' => 'vmu', 'VMungo0540G1486' => 'vmu', 'VMungo0540G1692' => 'vmu', 'VMungo0720G2473' => 'vmu', 'VMungo1127G1562' => 'vmu', 'VMungo1215G1918' => 'vmu', 'Zm00001eb052650' => 'zma', 'Zm00001eb063710' => 'zma', 'Zm00001eb083950' => 'zma', 'Zm00001eb174420' => 'zma', 'Zm00001eb260140' => 'zma', 'Zm00001eb260150' => 'zma', 'Zm00001eb260160' => 'zma', 'Zm00001eb348290' => 'zma', 'Zm00001eb366870' => 'zma', 'Zm00001eb421930' => 'zma' ), 'gf_id' => 'HOM05D001025', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001025' ), 'data_identifier' => 'HOM05D001025', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001025', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '592', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p22650' => 'bna', 'A01p29720' => 'bna', 'A03p26560' => 'bna', 'A03p68820' => 'bna', 'A04p20980' => 'bna', 'A06p07730' => 'bna', 'A07p18260' => 'bna', 'A08p33710' => 'bna', 'A09p16970' => 'bna', 'A10p27490' => 'bna', 'Aa31LG1G17300' => 'aar', 'Aa31LG1G3910' => 'aar', 'Aa31LG2G9630' => 'aar', 'Aa31LG5G8360' => 'aar', 'Aa31LG9G2410' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4699' => 'aag', 'Actinidia23512' => 'ach', 'Actinidia37080' => 'ach', 'Ah.01g020380' => 'amhyb', 'Ah.08g215710' => 'amhyb', 'Ah.09g225110' => 'amhyb', 'Ah.10g036680' => 'amhyb', 'AL1G21940' => 'aly', 'AL2G15540' => 'aly', 'AL4G21520' => 'aly', 'AL7G40960' => 'aly', 'Aqoxy2G01191' => 'aox', 'Aqoxy2G03393' => 'aox', 'Aqoxy4G02775' => 'aox', 'Aqoxy6G00058' => 'aox', 'arahy.Tifrunner.gnm1.ann1.9X74H2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CW3FX9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R485W7' => 'arhy', 'AT1G10960' => 'ath', 'AT1G60950' => 'ath', 'AT2G27510' => 'ath', 'AT4G14890' => 'ath', 'AT5G10000' => 'ath', 'ATR0665G624' => 'atr', 'ATR0697G138' => 'atr', 'ATR0776G046' => 'atr', 'ATR1134G135' => 'atr', 'Atru.chr12.1025' => 'acertr', 'Atru.chr3.3241' => 'acertr', 'Atru.chr4.2460' => 'acertr', 'AUR62007427' => 'cqu', 'AUR62010960' => 'cqu', 'AUR62012201' => 'cqu', 'AUR62021470' => 'cqu', 'AUR62022834' => 'cqu', 'AUR62033635' => 'cqu', 'AUR62036186' => 'cqu', 'BcaB01g03077' => 'bca', 'BcaB02g10093' => 'bca', 'BcaB04g20295' => 'bca', 'BcaB06g28147' => 'bca', 'BcaB07g31253' => 'bca', 'BcaC01g04946' => 'bca', 'BcaC02g10614' => 'bca', 'BcaC02g10885' => 'bca', 'BcaC04g19356' => 'bca', 'BcaC04g22297' => 'bca', 'BcaC05g24977' => 'bca', 'BcaC06g31823' => 'bca', 'BcaC07g38633' => 'bca', 'BcaC09g49353' => 'bca', 'BcaC09g50168' => 'bca', 'BcaNung00322' => 'bca', 'BcaNung04769' => 'bca', 'BolC1t02753H' => 'bol', 'BolC1t03721H' => 'bol', 'BolC3t15525H' => 'bol', 'BolC4t23903H' => 'bol', 'BolC4t24231H' => 'bol', 'BolC4t27209H' => 'bol', 'BolC5t29671H' => 'bol', 'BolC8t49044H' => 'bol', 'BolC9t54999H' => 'bol', 'BolC9t59517H' => 'bol', 'BraA01t02178Z' => 'bra', 'BraA01t03099Z' => 'bra', 'BraA03t11867Z' => 'bra', 'BraA04t17667Z' => 'bra', 'BraA07t29542Z' => 'bra', 'BraA08t35287Z' => 'bra', 'BraA09t37334Z' => 'bra', 'BraA10t44801Z' => 'bra', 'BraSC39t46181Z' => 'bra', 'C01p28240' => 'bna', 'C01p37530' => 'bna', 'C03p31820' => 'bna', 'C04p24080' => 'bna', 'C04p25790' => 'bna', 'C04p56770' => 'bna', 'C05p09310' => 'bna', 'C09p21010' => 'bna', 'C09p67560' => 'bna', 'CAN.G1324.7' => 'can', 'CAN.G1358.10' => 'can', 'CAN.G1550.2' => 'can', 'CAN.G186.56' => 'can', 'CAN.G1965.1' => 'can', 'CAN.G645.15' => 'can', 'CAN.G798.26' => 'can', 'CAN.G798.27' => 'can', 'CAN.G798.29' => 'can', 'CAN.G919.31' => 'can', 'CANSAT11G0133' => 'cansat', 'CANSAT11G1171' => 'cansat', 'CANSAT11G2056' => 'cansat', 'CANSAT56G1202' => 'cansat', 'CANSAT56G1514' => 'cansat', 'CANSAT78G0455' => 'cansat', 'CARHR011190' => 'chi', 'CARHR051980' => 'chi', 'CARHR120170' => 'chi', 'CARHR203310' => 'chi', 'CARHR221490' => 'chi', 'Carub.0001s1054' => 'cru', 'Carub.0002s0431' => 'cru', 'Carub.0004s0818' => 'cru', 'Carub.0006s0846' => 'cru', 'Carub.0007s2722' => 'cru', 'Ca_00058_v3' => 'car', 'Ca_17831_v3' => 'car', 'Ca_19408_v3' => 'car', 'Ca_24397_v3' => 'car', 'Ca_25664_v3' => 'car', 'CBR_g21818' => 'cbr', 'CBR_g31195' => 'cbr', 'CBR_g32282' => 'cbr', 'CBR_g39599' => 'cbr', 'CBR_g49410' => 'cbr', 'Cc01_g09120' => 'ccan', 'Cc01_g09130' => 'ccan', 'Cc02_g09630' => 'ccan', 'Cc02_g22810' => 'ccan', 'Cc03_g03810' => 'ccan', 'CDE02G3718' => 'cde', 'CDE04G3183' => 'cde', 'CDE07G1046' => 'cde', 'CDE08G0480' => 'cde', 'Cfa005493' => 'cfa', 'Cfa010312' => 'cfa', 'Cfa015648' => 'cfa', 'Ciclev10002793m.g' => 'ccl', 'Ciclev10003356m.g' => 'ccl', 'Ciclev10006141m.g' => 'ccl', 'Ciclev10016676m.g' => 'ccl', 'Ciclev10017081m.g' => 'ccl', 'Ciclev10029499m.g' => 'ccl', 'CiPaw.01G166300' => 'cil', 'CiPaw.06G145600' => 'cil', 'CiPaw.13G040100' => 'cil', 'CiPaw.13G135800' => 'cil', 'ClCG01G012230' => 'cla', 'ClCG05G009510' => 'cla', 'ClCG08G008270' => 'cla', 'COL.COLO4_11763' => 'col', 'COL.COLO4_19876' => 'col', 'COL.COLO4_21481' => 'col', 'Cpa.g.sc118.34' => 'cpa', 'Cpa.g.sc32.13' => 'cpa', 'Cpa.g.sc58.103' => 'cpa', 'Cre03.g183850' => 'cre', 'Cre06.g306350' => 'cre', 'Cre07.g334800' => 'cre', 'Cre12.g487900' => 'cre', 'Cre14.g626700' => 'cre', 'Cre16.g658400' => 'cre', 'Cre17.g700950' => 'cre', 'CsaV3_1G014830' => 'csa', 'CsaV3_3G013320' => 'csa', 'CsaV3_3G019210' => 'csa', 'CsaV3_3G019220' => 'csa', 'CsaV3_6G004230' => 'csa', 'CSS0003773' => 'camsi', 'CSS0004563' => 'camsi', 'CSS0013949' => 'camsi', 'CSS0025971' => 'camsi', 'CSS0028570' => 'camsi', 'CSS0033127' => 'camsi', 'CSS0036051' => 'camsi', 'CSS0040087' => 'camsi', 'CSS0043179' => 'camsi', 'DCAR_006161' => 'dca', 'DCAR_010351' => 'dca', 'DCAR_012197' => 'dca', 'DCAR_024162' => 'dca', 'Dinv01030' => 'din', 'Dinv10924' => 'din', 'Dinv11835' => 'din', 'Dinv22841' => 'din', 'Dinv42553' => 'din', 'Duzib052G0560' => 'dzi', 'Duzib132G0389' => 'dzi', 'Duzib150G1181' => 'dzi', 'Duzib168G0623' => 'dzi', 'Duzib170G1036' => 'dzi', 'Duzib212G0200' => 'dzi', 'Duzib248G0194' => 'dzi', 'ECA232G2193' => 'eca', 'ECA233G0302' => 'eca', 'ECA234G2813' => 'eca', 'ECA234G4866' => 'eca', 'ECA240G3932' => 'eca', 'ECA248G0385' => 'eca', 'EL10Ac2g04781' => 'bvu', 'EL10Ac3g06445' => 'bvu', 'EL10Ac7g15825' => 'bvu', 'EL10Ac8g18550' => 'bvu', 'Eucgr.B03849' => 'egr', 'Eucgr.I02744' => 'egr', 'Eucgr.J00264' => 'egr', 'Eucgr.J00493' => 'egr', 'FAN04G2181' => 'fan', 'FAN07G2666' => 'fan', 'FAN11G0024' => 'fan', 'FAN12G1105' => 'fan', 'FAN13G0302' => 'fan', 'FAN15G2781' => 'fan', 'FAN16G1274' => 'fan', 'FAN17G2988' => 'fan', 'FAN18G2621' => 'fan', 'FAN21G0013' => 'fan', 'FAN22G1211' => 'fan', 'FAN25G3626' => 'fan', 'FvH4_2g09491' => 'fve', 'FvH4_3g24910' => 'fve', 'FvH4_4g15630' => 'fve', 'FvH4_5g28820' => 'fve', 'Glyma.01G238000' => 'gma', 'Glyma.05G168400' => 'gma', 'Glyma.08G126800' => 'gma', 'Glyma.08G188500' => 'gma', 'Glyma.10G278900' => 'gma', 'Glyma.11G005700' => 'gma', 'Glyma.11G183300' => 'gma', 'Glyma.12G089200' => 'gma', 'Glyma.12G169400' => 'gma', 'Glyma.12G169500' => 'gma', 'Glyma.12G169600' => 'gma', 'Glyma.20G110800' => 'gma', 'Gohir.A03G192900' => 'ghi', 'Gohir.A03G193000' => 'ghi', 'Gohir.A05G080700' => 'ghi', 'Gohir.A09G216000' => 'ghi', 'Gohir.A12G027700' => 'ghi', 'Gohir.A13G036200' => 'ghi', 'Gohir.A13G222600' => 'ghi', 'Gohir.D02G213900' => 'ghi', 'Gohir.D02G214000' => 'ghi', 'Gohir.D05G083700' => 'ghi', 'Gohir.D05G083800' => 'ghi', 'Gohir.D05G083850' => 'ghi', 'Gohir.D08G015400' => 'ghi', 'Gohir.D09G218400' => 'ghi', 'Gohir.D12G027100' => 'ghi', 'Gohir.D13G034500' => 'ghi', 'Gohir.D13G227400' => 'ghi', 'Gorai.005G241800' => 'gra', 'Gorai.005G241900' => 'gra', 'Gorai.006G239400' => 'gra', 'Gorai.008G027600' => 'gra', 'Gorai.009G085400' => 'gra', 'Gorai.009G085500' => 'gra', 'Gorai.013G039000' => 'gra', 'Gorai.013G194800' => 'gra', 'Gorai.013G257900' => 'gra', 'GSVIVG01000982001' => 'vvi', 'GSVIVG01017981001' => 'vvi', 'HanXRQChr01g0024061' => 'han', 'HanXRQChr09g0247831' => 'han', 'HanXRQChr10g0294611' => 'han', 'HanXRQChr10g0294621' => 'han', 'HanXRQChr11g0346821' => 'han', 'HanXRQChr13g0397461' => 'han', 'HanXRQChr16g0513651' => 'han', 'HanXRQChr16g0513701' => 'han', 'Haze_00897' => 'cav', 'Haze_01745' => 'cav', 'Haze_02486' => 'cav', 'Haze_02487' => 'cav', 'Haze_23374' => 'cav', 'Hma1.2p1_0578F.1_g182520' => 'hma', 'Hma1.2p1_0602F.1_g187350' => 'hma', 'Hma1.2p1_0602F.1_g187360' => 'hma', 'Hma1.2p1_0874F.1_g231320' => 'hma', 'Hma1.2p1_1197F.1_g266210' => 'hma', 'Hma1.2p1_1197F.1_g266220' => 'hma', 'Hma1.2p1_2167F.1_g315895' => 'hma', 'Hma1.2p1_2190F.1_g316640' => 'hma', 'Hma1.2p1_3645F.1_g337153' => 'hma', 'HPP92_004907' => 'vpl', 'HPP92_012134' => 'vpl', 'HPP92_025136' => 'vpl', 'HPP92_026087' => 'vpl', 'Hund06782' => 'sun', 'Hund06784' => 'sun', 'Lalb_Chr01g0004861' => 'lal', 'Lalb_Chr02g0140591' => 'lal', 'Lalb_Chr02g0140611' => 'lal', 'Lalb_Chr03g0028101' => 'lal', 'Lalb_Chr07g0185791' => 'lal', 'Lalb_Chr12g0204491' => 'lal', 'Lalb_Chr13g0295671' => 'lal', 'Lalb_Chr19g0136461' => 'lal', 'Lalb_Chr21g0309191' => 'lal', 'Lj1g0028158' => 'lja', 'Lj1P236T38' => 'lonja', 'Lj2C32G2' => 'lonja', 'Lj2P944T8' => 'lonja', 'Lj2P963T15' => 'lonja', 'Lj3g0011788' => 'lja', 'Lj4g0025027' => 'lja', 'Lj5P255T36' => 'lonja', 'Lj6g0018866' => 'lja', 'Lj6P608T31' => 'lonja', 'LjContig00408g0008879' => 'lja', 'Lsat_1_v5_gn_5_105820' => 'lsa', 'Lsat_1_v5_gn_6_38800' => 'lsa', 'Lsat_1_v5_gn_7_67141' => 'lsa', 'Manes.04G003400' => 'mes', 'Manes.07G020000' => 'mes', 'Manes.07G020100' => 'mes', 'Manes.07G020150' => 'mes', 'Manes.10G061500' => 'mes', 'Manes.10G123200' => 'mes', 'Manes.11G161900' => 'mes', 'Manes.15G029300' => 'mes', 'Mapoly0071s0018' => 'mpo', 'Mapoly0082s0023' => 'mpo', 'Mapoly3477s0001' => 'mpo', 'MBI05_g31233_MAGBIO' => 'mbi', 'MBI09_g05946_MAGBIO' => 'mbi', 'MBI09_g05947_MAGBIO' => 'mbi', 'MBI17_g08346_MAGBIO' => 'mbi', 'MCO04G038' => 'mco', 'MCO09G370' => 'mco', 'MCO13G605' => 'mco', 'MD00G1075500' => 'mdo', 'MD03G1144300' => 'mdo', 'MD08G1236800' => 'mdo', 'MD13G1193300' => 'mdo', 'MD15G1428700' => 'mdo', 'Medtr1g112030' => 'mtr', 'Medtr1g112050' => 'mtr', 'Medtr2g006290' => 'mtr', 'Medtr2g086510' => 'mtr', 'Medtr4g053120' => 'mtr', 'Medtr5g006320' => 'mtr', 'Medtr8g088720' => 'mtr', 'MELO3C004712.2' => 'cme', 'MELO3C006533.2' => 'cme', 'MELO3C019438.2' => 'cme', 'MELO3C019440.2' => 'cme', 'MELO3C019441.2' => 'cme', 'MELO3C019895.2' => 'cme', 'Migut.B00811' => 'egut', 'Migut.D02447' => 'egut', 'Migut.F00875' => 'egut', 'Migut.N00186' => 'egut', 'Migut.N01051' => 'egut', 'Migut.N02491' => 'egut', 'Migut.O00784' => 'egut', 'MSTRG.12367' => 'ama', 'MSTRG.18756' => 'ama', 'MSTRG.21042' => 'ama', 'Nitab4.5_0000559g0040' => 'nta', 'Nitab4.5_0000667g0190' => 'nta', 'Nitab4.5_0000755g0160' => 'nta', 'Nitab4.5_0001216g0080' => 'nta', 'Nitab4.5_0004069g0040' => 'nta', 'Nitab4.5_0004129g0010' => 'nta', 'Nitab4.5_0005744g0030' => 'nta', 'Nitab4.5_0006996g0030' => 'nta', 'Nitab4.5_0008971g0040' => 'nta', 'Nitab4.5_0009769g0020' => 'nta', 'Nitab4.5_0009833g0010' => 'nta', 'Nitab4.5_0013140g0020' => 'nta', 'Nn003s41376' => 'nnu', 'Nn1g01857' => 'nnu', 'Nn1g03611' => 'nnu', 'Nn1g06853' => 'nnu', 'Nn3g18360' => 'nnu', 'Nn4g26328' => 'nnu', 'Nn5g27531' => 'nnu', 'Nn6g34899' => 'nnu', 'Nn7g36299' => 'nnu', 'Oeu021485.1' => 'oeu', 'Oeu022433.1' => 'oeu', 'Oeu032111.1' => 'oeu', 'Oeu051608.1' => 'oeu', 'Os01g0860601' => 'osa', 'Os03g0659200' => 'osa', 'Os03g0835900' => 'osa', 'Os04g0412200' => 'osa', 'Os05g0443500' => 'osa', 'Os07g0251500' => 'osa', 'Os08g0104600' => 'osa', 'Peaxi162Scf00003g00047' => 'pax', 'Peaxi162Scf00003g00052' => 'pax', 'Peaxi162Scf00003g00394' => 'pax', 'Peaxi162Scf00091g00621' => 'pax', 'Peaxi162Scf00152g00146' => 'pax', 'Peaxi162Scf00173g00025' => 'pax', 'Peaxi162Scf00195g00102' => 'pax', 'Peaxi162Scf00402g00013' => 'pax', 'Peaxi162Scf00519g00618' => 'pax', 'PGR004G2838' => 'pgr', 'PGR044G2275' => 'pgr', 'PGR102G1377' => 'pgr', 'PGR119G1245' => 'pgr', 'PGR142G4449' => 'pgr', 'PGSC0003DMG400004532' => 'stu', 'PGSC0003DMG400011950' => 'stu', 'PGSC0003DMG400023391' => 'stu', 'PGSC0003DMG400023985' => 'stu', 'PGSC0003DMG400026360' => 'stu', 'PGSC0003DMG400035711' => 'stu', 'PGSC0003DMG400037286' => 'stu', 'PGSC0003DMG402005881' => 'stu', 'Phvul.002G045400' => 'pvu', 'Phvul.006G216600' => 'pvu', 'Phvul.006G216700' => 'pvu', 'Phvul.006G216800' => 'pvu', 'Phvul.007G022500' => 'pvu', 'Phvul.011G094400' => 'pvu', 'Potri.001G470700' => 'ptr', 'Potri.003G015200' => 'ptr', 'Potri.004G202500' => 'ptr', 'Potri.004G218400' => 'ptr', 'Potri.008G020100' => 'ptr', 'Potri.008G153200' => 'ptr', 'Potri.009G163800' => 'ptr', 'Potri.010G087300' => 'ptr', 'Potri.010G239100' => 'ptr', 'Pp3c10_16100' => 'ppa', 'Pp3c10_16880' => 'ppa', 'Pp3c16_6230' => 'ppa', 'Pp3c17_18910' => 'ppa', 'Pp3c3_22119' => 'ppa', 'Pp3c3_22140' => 'ppa', 'Pp3c4_8159' => 'ppa', 'Pp3c4_8171' => 'ppa', 'Pp3c4_8330' => 'ppa', 'PRCOL_00004098' => 'pco', 'Prupe.1G013900' => 'ppe', 'Prupe.1G226300' => 'ppe', 'Prupe.1G573600' => 'ppe', 'Prupe.6G130100' => 'ppe', 'Psat3g090040' => 'psa', 'Psat4g210440' => 'psa', 'Psat6g231040' => 'psa', 'Psat6g231080' => 'psa', 'Psat7g063000' => 'psa', 'Psat7g188000' => 'psa', 'Psat7g188040' => 'psa', 'PSO017G0206' => 'pso', 'PSO170G0501' => 'pso', 'PSO170G6422' => 'pso', 'PSO210G7739' => 'pso', 'PSO339G1808' => 'pso', 'PSO339G6135' => 'pso', 'PSO384G0010' => 'pso', 'PSO384G0964' => 'pso', 'PSO761G0050' => 'pso', 'PSO782G4085' => 'pso', 'QL01p012264' => 'qlo', 'QL02p099491' => 'qlo', 'QL03p033868' => 'qlo', 'QL04p046678' => 'qlo', 'QL06p002448' => 'qlo', 'RcHm_v2.0_Chr4g0416181' => 'rch', 'RcHm_v2.0_Chr5g0044701' => 'rch', 'RcHm_v2.0_Chr6g0265781' => 'rch', 'RcHm_v2.0_Chr7g0221031' => 'rch', 'Rhsim04G0202000' => 'rsi', 'Rhsim11G0127300' => 'rsi', 'Rhsim13G0111800' => 'rsi', 'Sabra01G0165600' => 'sbr', 'Sabra03G0008300' => 'sbr', 'Sabra04G0136900' => 'sbr', 'Sabra08G0013400' => 'sbr', 'Sabra08G0116800' => 'sbr', 'Sabra09G0128000' => 'sbr', 'Sabra10G0055500' => 'sbr', 'Sabra10G0073300' => 'sbr', 'SalBow3G0385' => 'sbo', 'SalBow3G1119' => 'sbo', 'SalBow3G2005' => 'sbo', 'SalBow6G2563' => 'sbo', 'SalBow6G6386' => 'sbo', 'Sc06g0008800' => 'sci', 'Sc07g0004950' => 'sci', 'Sc09g0005340' => 'sci', 'Sc13g0004410' => 'sci', 'Sc21g0007090' => 'sci', 'Sed0009285' => 'sed', 'Sed0017583' => 'sed', 'Sed0019699' => 'sed', 'Sed0023107' => 'sed', 'SEGI_10916' => 'sgi', 'SEGI_16217' => 'sgi', 'SEGI_19466' => 'sgi', 'SEGI_41115' => 'sgi', 'SGA_v2.0_scaffold111G31534' => 'sas', 'SGA_v2.0_scaffold22G09864' => 'sas', 'SGA_v2.0_scaffold338G49219' => 'sas', 'SGA_v2.0_scaffold92G28298' => 'sas', 'SMO119G0064' => 'smo', 'SMO223G0038' => 'smo', 'SMO347G0584' => 'smo', 'SMO351G0010' => 'smo', 'SMO356G0404' => 'smo', 'Solyc01g103920.3' => 'sly', 'Solyc04g009710.2' => 'sly', 'Solyc05g055280.2' => 'sly', 'Solyc10g044520.3' => 'sly', 'Solyc10g075160.1' => 'sly', 'Solyc11g006910.3' => 'sly', 'Solyc11g068430.3' => 'sly', 'Sopen01g046310' => 'spe', 'Sopen03g001200' => 'spe', 'Sopen04g004830' => 'spe', 'Sopen05g033720' => 'spe', 'Sopen06g030740' => 'spe', 'Sopen10g013090' => 'spe', 'Sopen10g027630' => 'spe', 'Sopen10g027640' => 'spe', 'Sopen11g002820' => 'spe', 'Sopen11g027140' => 'spe', 'Sp1g09680' => 'spa', 'Sp2g03630' => 'spa', 'Sp4g10320' => 'spa', 'Sp6g33400' => 'spa', 'Sp7g13030' => 'spa', 'TAR365G0317' => 'tar', 'TAR376G0979' => 'tar', 'TAR623G1665' => 'tar', 'TAR633G2373' => 'tar', 'TAR636G1400' => 'tar', 'THA.LOC104800529' => 'tha', 'THA.LOC104808547' => 'tha', 'THA.LOC104809615' => 'tha', 'THA.LOC104815724' => 'tha', 'THA.LOC104818480' => 'tha', 'THA.LOC104819179' => 'tha', 'THA.LOC104822270' => 'tha', 'THA.LOC104826425' => 'tha', 'Thecc.02G089700' => 'tca', 'Thecc.04G232300' => 'tca', 'Thecc.09G283400' => 'tca', 'Thhalv10009020m.g' => 'esa', 'Thhalv10015506m.g' => 'esa', 'Thhalv10017364m.g' => 'esa', 'Thhalv10023742m.g' => 'esa', 'Thhalv10026483m.g' => 'esa', 'TPR.G17232' => 'tpr', 'TPR.G2133' => 'tpr', 'TPR.G2498' => 'tpr', 'TPR.G31942' => 'tpr', 'TPR.G37877' => 'tpr', 'TPR.G4571' => 'tpr', 'TWI14G1113' => 'twi', 'TWI15G0426' => 'twi', 'TWI31G1005' => 'twi', 'TWI38G0513' => 'twi', 'TWI38G1484' => 'twi', 'TWI73G1098' => 'twi', 'unitig_26.g10519' => 'ugi', 'unitig_736.g22395' => 'ugi', 'unitig_747.g21234' => 'ugi', 'unitig_747.g21942' => 'ugi', 'vmacro14351' => 'vma', 'VMungo0540G0082' => 'vmu', 'VMungo0540G0405' => 'vmu', 'VMungo0540G1486' => 'vmu', 'VMungo0540G1692' => 'vmu', 'VMungo0720G2473' => 'vmu', 'VMungo1127G1562' => 'vmu', 'VMungo1215G1918' => 'vmu', 'Zm00001eb052650' => 'zma', 'Zm00001eb063710' => 'zma', 'Zm00001eb083950' => 'zma', 'Zm00001eb174420' => 'zma', 'Zm00001eb260140' => 'zma', 'Zm00001eb260150' => 'zma', 'Zm00001eb260160' => 'zma', 'Zm00001eb348290' => 'zma', 'Zm00001eb366870' => 'zma', 'Zm00001eb421930' => 'zma' ) $gf_id = 'HOM05D001025' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001025' ) $data_identifier = 'HOM05D001025' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 19, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 2, 'amhyb' => (int) 4, 'aly' => (int) 4, 'aox' => (int) 4, 'arhy' => (int) 3, 'ath' => (int) 5, 'atr' => (int) 4, 'acertr' => (int) 3, 'cqu' => (int) 7, 'bca' => (int) 17, 'bol' => (int) 10, 'bra' => (int) 9, 'can' => (int) 10, 'cansat' => (int) 6, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 5, 'cbr' => (int) 5, 'ccan' => (int) 5, 'cde' => (int) 4, 'cfa' => (int) 3, 'ccl' => (int) 6, 'cil' => (int) 4, 'cla' => (int) 3, 'col' => (int) 3, 'cpa' => (int) 3, 'cre' => (int) 7, 'csa' => (int) 5, 'camsi' => (int) 9, 'dca' => (int) 4, 'din' => (int) 5, 'dzi' => (int) 7, 'eca' => (int) 6, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 12, 'fve' => (int) 4, 'gma' => (int) 12, 'ghi' => (int) 17, 'gra' => (int) 9, 'vvi' => (int) 2, 'han' => (int) 8, 'cav' => (int) 5, 'hma' => (int) 9, 'vpl' => (int) 4, 'sun' => (int) 2, 'lal' => (int) 9, 'lja' => (int) 5, 'lonja' => (int) 6, 'lsa' => (int) 3, 'mes' => (int) 8, 'mpo' => (int) 3, 'mbi' => (int) 4, 'mco' => (int) 3, 'mdo' => (int) 5, 'mtr' => (int) 7, 'cme' => (int) 6, 'egut' => (int) 7, 'ama' => (int) 3, 'nta' => (int) 12, 'nnu' => (int) 9, 'oeu' => (int) 4, 'osa' => (int) 7, 'pax' => (int) 9, 'pgr' => (int) 5, 'stu' => (int) 8, 'pvu' => (int) 6, 'ptr' => (int) 9, 'ppa' => (int) 9, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 7, 'pso' => (int) 10, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 3, 'sbr' => (int) 8, 'sbo' => (int) 5, 'sci' => (int) 5, 'sed' => (int) 4, 'sgi' => (int) 4, 'sas' => (int) 4, 'smo' => (int) 5, 'sly' => (int) 7, 'spe' => (int) 10, 'spa' => (int) 5, 'tar' => (int) 5, 'tha' => (int) 8, 'tca' => (int) 3, 'esa' => (int) 5, 'tpr' => (int) 6, 'twi' => (int) 6, 'ugi' => (int) 4, 'vma' => (int) 1, 'vmu' => (int) 7, 'zma' => (int) 10 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb421930' $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' => 'HOM05D001025', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '592', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p22650' => 'bna', 'A01p29720' => 'bna', 'A03p26560' => 'bna', 'A03p68820' => 'bna', 'A04p20980' => 'bna', 'A06p07730' => 'bna', 'A07p18260' => 'bna', 'A08p33710' => 'bna', 'A09p16970' => 'bna', 'A10p27490' => 'bna', 'Aa31LG1G17300' => 'aar', 'Aa31LG1G3910' => 'aar', 'Aa31LG2G9630' => 'aar', 'Aa31LG5G8360' => 'aar', 'Aa31LG9G2410' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4699' => 'aag', 'Actinidia23512' => 'ach', 'Actinidia37080' => 'ach', 'Ah.01g020380' => 'amhyb', 'Ah.08g215710' => 'amhyb', 'Ah.09g225110' => 'amhyb', 'Ah.10g036680' => 'amhyb', 'AL1G21940' => 'aly', 'AL2G15540' => 'aly', 'AL4G21520' => 'aly', 'AL7G40960' => 'aly', 'Aqoxy2G01191' => 'aox', 'Aqoxy2G03393' => 'aox', 'Aqoxy4G02775' => 'aox', 'Aqoxy6G00058' => 'aox', 'arahy.Tifrunner.gnm1.ann1.9X74H2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CW3FX9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R485W7' => 'arhy', 'AT1G10960' => 'ath', 'AT1G60950' => 'ath', 'AT2G27510' => 'ath', 'AT4G14890' => 'ath', 'AT5G10000' => 'ath', 'ATR0665G624' => 'atr', 'ATR0697G138' => 'atr', 'ATR0776G046' => 'atr', 'ATR1134G135' => 'atr', 'Atru.chr12.1025' => 'acertr', 'Atru.chr3.3241' => 'acertr', 'Atru.chr4.2460' => 'acertr', 'AUR62007427' => 'cqu', 'AUR62010960' => 'cqu', 'AUR62012201' => 'cqu', 'AUR62021470' => 'cqu', 'AUR62022834' => 'cqu', 'AUR62033635' => 'cqu', 'AUR62036186' => 'cqu', 'BcaB01g03077' => 'bca', 'BcaB02g10093' => 'bca', 'BcaB04g20295' => 'bca', 'BcaB06g28147' => 'bca', 'BcaB07g31253' => 'bca', 'BcaC01g04946' => 'bca', 'BcaC02g10614' => 'bca', 'BcaC02g10885' => 'bca', 'BcaC04g19356' => 'bca', 'BcaC04g22297' => 'bca', 'BcaC05g24977' => 'bca', 'BcaC06g31823' => 'bca', 'BcaC07g38633' => 'bca', 'BcaC09g49353' => 'bca', 'BcaC09g50168' => 'bca', 'BcaNung00322' => 'bca', 'BcaNung04769' => 'bca', 'BolC1t02753H' => 'bol', 'BolC1t03721H' => 'bol', 'BolC3t15525H' => 'bol', 'BolC4t23903H' => 'bol', 'BolC4t24231H' => 'bol', 'BolC4t27209H' => 'bol', 'BolC5t29671H' => 'bol', 'BolC8t49044H' => 'bol', 'BolC9t54999H' => 'bol', 'BolC9t59517H' => 'bol', 'BraA01t02178Z' => 'bra', 'BraA01t03099Z' => 'bra', 'BraA03t11867Z' => 'bra', 'BraA04t17667Z' => 'bra', 'BraA07t29542Z' => 'bra', 'BraA08t35287Z' => 'bra', 'BraA09t37334Z' => 'bra', 'BraA10t44801Z' => 'bra', 'BraSC39t46181Z' => 'bra', 'C01p28240' => 'bna', 'C01p37530' => 'bna', 'C03p31820' => 'bna', 'C04p24080' => 'bna', 'C04p25790' => 'bna', 'C04p56770' => 'bna', 'C05p09310' => 'bna', 'C09p21010' => 'bna', 'C09p67560' => 'bna', 'CAN.G1324.7' => 'can', 'CAN.G1358.10' => 'can', 'CAN.G1550.2' => 'can', 'CAN.G186.56' => 'can', 'CAN.G1965.1' => 'can', 'CAN.G645.15' => 'can', 'CAN.G798.26' => 'can', 'CAN.G798.27' => 'can', 'CAN.G798.29' => 'can', 'CAN.G919.31' => 'can', 'CANSAT11G0133' => 'cansat', 'CANSAT11G1171' => 'cansat', 'CANSAT11G2056' => 'cansat', 'CANSAT56G1202' => 'cansat', 'CANSAT56G1514' => 'cansat', 'CANSAT78G0455' => 'cansat', 'CARHR011190' => 'chi', 'CARHR051980' => 'chi', 'CARHR120170' => 'chi', 'CARHR203310' => 'chi', 'CARHR221490' => 'chi', 'Carub.0001s1054' => 'cru', 'Carub.0002s0431' => 'cru', 'Carub.0004s0818' => 'cru', 'Carub.0006s0846' => 'cru', 'Carub.0007s2722' => 'cru', 'Ca_00058_v3' => 'car', 'Ca_17831_v3' => 'car', 'Ca_19408_v3' => 'car', 'Ca_24397_v3' => 'car', 'Ca_25664_v3' => 'car', 'CBR_g21818' => 'cbr', 'CBR_g31195' => 'cbr', 'CBR_g32282' => 'cbr', 'CBR_g39599' => 'cbr', 'CBR_g49410' => 'cbr', 'Cc01_g09120' => 'ccan', 'Cc01_g09130' => 'ccan', 'Cc02_g09630' => 'ccan', 'Cc02_g22810' => 'ccan', 'Cc03_g03810' => 'ccan', 'CDE02G3718' => 'cde', 'CDE04G3183' => 'cde', 'CDE07G1046' => 'cde', 'CDE08G0480' => 'cde', 'Cfa005493' => 'cfa', 'Cfa010312' => 'cfa', 'Cfa015648' => 'cfa', 'Ciclev10002793m.g' => 'ccl', 'Ciclev10003356m.g' => 'ccl', 'Ciclev10006141m.g' => 'ccl', 'Ciclev10016676m.g' => 'ccl', 'Ciclev10017081m.g' => 'ccl', 'Ciclev10029499m.g' => 'ccl', 'CiPaw.01G166300' => 'cil', 'CiPaw.06G145600' => 'cil', 'CiPaw.13G040100' => 'cil', 'CiPaw.13G135800' => 'cil', 'ClCG01G012230' => 'cla', 'ClCG05G009510' => 'cla', 'ClCG08G008270' => 'cla', 'COL.COLO4_11763' => 'col', 'COL.COLO4_19876' => 'col', 'COL.COLO4_21481' => 'col', 'Cpa.g.sc118.34' => 'cpa', 'Cpa.g.sc32.13' => 'cpa', 'Cpa.g.sc58.103' => 'cpa', 'Cre03.g183850' => 'cre', 'Cre06.g306350' => 'cre', 'Cre07.g334800' => 'cre', 'Cre12.g487900' => 'cre', 'Cre14.g626700' => 'cre', 'Cre16.g658400' => 'cre', 'Cre17.g700950' => 'cre', 'CsaV3_1G014830' => 'csa', 'CsaV3_3G013320' => 'csa', 'CsaV3_3G019210' => 'csa', 'CsaV3_3G019220' => 'csa', 'CsaV3_6G004230' => 'csa', 'CSS0003773' => 'camsi', 'CSS0004563' => 'camsi', 'CSS0013949' => 'camsi', 'CSS0025971' => 'camsi', 'CSS0028570' => 'camsi', 'CSS0033127' => 'camsi', 'CSS0036051' => 'camsi', 'CSS0040087' => 'camsi', 'CSS0043179' => 'camsi', 'DCAR_006161' => 'dca', 'DCAR_010351' => 'dca', 'DCAR_012197' => 'dca', 'DCAR_024162' => 'dca', 'Dinv01030' => 'din', 'Dinv10924' => 'din', 'Dinv11835' => 'din', 'Dinv22841' => 'din', 'Dinv42553' => 'din', 'Duzib052G0560' => 'dzi', 'Duzib132G0389' => 'dzi', 'Duzib150G1181' => 'dzi', 'Duzib168G0623' => 'dzi', 'Duzib170G1036' => 'dzi', 'Duzib212G0200' => 'dzi', 'Duzib248G0194' => 'dzi', 'ECA232G2193' => 'eca', 'ECA233G0302' => 'eca', 'ECA234G2813' => 'eca', 'ECA234G4866' => 'eca', 'ECA240G3932' => 'eca', 'ECA248G0385' => 'eca', 'EL10Ac2g04781' => 'bvu', 'EL10Ac3g06445' => 'bvu', 'EL10Ac7g15825' => 'bvu', 'EL10Ac8g18550' => 'bvu', 'Eucgr.B03849' => 'egr', 'Eucgr.I02744' => 'egr', 'Eucgr.J00264' => 'egr', 'Eucgr.J00493' => 'egr', 'FAN04G2181' => 'fan', 'FAN07G2666' => 'fan', 'FAN11G0024' => 'fan', 'FAN12G1105' => 'fan', 'FAN13G0302' => 'fan', 'FAN15G2781' => 'fan', 'FAN16G1274' => 'fan', 'FAN17G2988' => 'fan', 'FAN18G2621' => 'fan', 'FAN21G0013' => 'fan', 'FAN22G1211' => 'fan', 'FAN25G3626' => 'fan', 'FvH4_2g09491' => 'fve', 'FvH4_3g24910' => 'fve', 'FvH4_4g15630' => 'fve', 'FvH4_5g28820' => 'fve', 'Glyma.01G238000' => 'gma', 'Glyma.05G168400' => 'gma', 'Glyma.08G126800' => 'gma', 'Glyma.08G188500' => 'gma', 'Glyma.10G278900' => 'gma', 'Glyma.11G005700' => 'gma', 'Glyma.11G183300' => 'gma', 'Glyma.12G089200' => 'gma', 'Glyma.12G169400' => 'gma', 'Glyma.12G169500' => 'gma', 'Glyma.12G169600' => 'gma', 'Glyma.20G110800' => 'gma', 'Gohir.A03G192900' => 'ghi', 'Gohir.A03G193000' => 'ghi', 'Gohir.A05G080700' => 'ghi', 'Gohir.A09G216000' => 'ghi', 'Gohir.A12G027700' => 'ghi', 'Gohir.A13G036200' => 'ghi', 'Gohir.A13G222600' => 'ghi', 'Gohir.D02G213900' => 'ghi', 'Gohir.D02G214000' => 'ghi', 'Gohir.D05G083700' => 'ghi', 'Gohir.D05G083800' => 'ghi', 'Gohir.D05G083850' => 'ghi', 'Gohir.D08G015400' => 'ghi', 'Gohir.D09G218400' => 'ghi', 'Gohir.D12G027100' => 'ghi', 'Gohir.D13G034500' => 'ghi', 'Gohir.D13G227400' => 'ghi', 'Gorai.005G241800' => 'gra', 'Gorai.005G241900' => 'gra', 'Gorai.006G239400' => 'gra', 'Gorai.008G027600' => 'gra', 'Gorai.009G085400' => 'gra', 'Gorai.009G085500' => 'gra', 'Gorai.013G039000' => 'gra', 'Gorai.013G194800' => 'gra', 'Gorai.013G257900' => 'gra', 'GSVIVG01000982001' => 'vvi', 'GSVIVG01017981001' => 'vvi', 'HanXRQChr01g0024061' => 'han', 'HanXRQChr09g0247831' => 'han', 'HanXRQChr10g0294611' => 'han', 'HanXRQChr10g0294621' => 'han', 'HanXRQChr11g0346821' => 'han', 'HanXRQChr13g0397461' => 'han', 'HanXRQChr16g0513651' => 'han', 'HanXRQChr16g0513701' => 'han', 'Haze_00897' => 'cav', 'Haze_01745' => 'cav', 'Haze_02486' => 'cav', 'Haze_02487' => 'cav', 'Haze_23374' => 'cav', 'Hma1.2p1_0578F.1_g182520' => 'hma', 'Hma1.2p1_0602F.1_g187350' => 'hma', 'Hma1.2p1_0602F.1_g187360' => 'hma', 'Hma1.2p1_0874F.1_g231320' => 'hma', 'Hma1.2p1_1197F.1_g266210' => 'hma', 'Hma1.2p1_1197F.1_g266220' => 'hma', 'Hma1.2p1_2167F.1_g315895' => 'hma', 'Hma1.2p1_2190F.1_g316640' => 'hma', 'Hma1.2p1_3645F.1_g337153' => 'hma', 'HPP92_004907' => 'vpl', 'HPP92_012134' => 'vpl', 'HPP92_025136' => 'vpl', 'HPP92_026087' => 'vpl', 'Hund06782' => 'sun', 'Hund06784' => 'sun', 'Lalb_Chr01g0004861' => 'lal', 'Lalb_Chr02g0140591' => 'lal', 'Lalb_Chr02g0140611' => 'lal', 'Lalb_Chr03g0028101' => 'lal', 'Lalb_Chr07g0185791' => 'lal', 'Lalb_Chr12g0204491' => 'lal', 'Lalb_Chr13g0295671' => 'lal', 'Lalb_Chr19g0136461' => 'lal', 'Lalb_Chr21g0309191' => 'lal', 'Lj1g0028158' => 'lja', 'Lj1P236T38' => 'lonja', 'Lj2C32G2' => 'lonja', 'Lj2P944T8' => 'lonja', 'Lj2P963T15' => 'lonja', 'Lj3g0011788' => 'lja', 'Lj4g0025027' => 'lja', 'Lj5P255T36' => 'lonja', 'Lj6g0018866' => 'lja', 'Lj6P608T31' => 'lonja', 'LjContig00408g0008879' => 'lja', 'Lsat_1_v5_gn_5_105820' => 'lsa', 'Lsat_1_v5_gn_6_38800' => 'lsa', 'Lsat_1_v5_gn_7_67141' => 'lsa', 'Manes.04G003400' => 'mes', 'Manes.07G020000' => 'mes', 'Manes.07G020100' => 'mes', 'Manes.07G020150' => 'mes', 'Manes.10G061500' => 'mes', 'Manes.10G123200' => 'mes', 'Manes.11G161900' => 'mes', 'Manes.15G029300' => 'mes', 'Mapoly0071s0018' => 'mpo', 'Mapoly0082s0023' => 'mpo', 'Mapoly3477s0001' => 'mpo', 'MBI05_g31233_MAGBIO' => 'mbi', 'MBI09_g05946_MAGBIO' => 'mbi', 'MBI09_g05947_MAGBIO' => 'mbi', 'MBI17_g08346_MAGBIO' => 'mbi', 'MCO04G038' => 'mco', 'MCO09G370' => 'mco', 'MCO13G605' => 'mco', 'MD00G1075500' => 'mdo', 'MD03G1144300' => 'mdo', 'MD08G1236800' => 'mdo', 'MD13G1193300' => 'mdo', 'MD15G1428700' => 'mdo', 'Medtr1g112030' => 'mtr', 'Medtr1g112050' => 'mtr', 'Medtr2g006290' => 'mtr', 'Medtr2g086510' => 'mtr', 'Medtr4g053120' => 'mtr', 'Medtr5g006320' => 'mtr', 'Medtr8g088720' => 'mtr', 'MELO3C004712.2' => 'cme', 'MELO3C006533.2' => 'cme', 'MELO3C019438.2' => 'cme', 'MELO3C019440.2' => 'cme', 'MELO3C019441.2' => 'cme', 'MELO3C019895.2' => 'cme', 'Migut.B00811' => 'egut', 'Migut.D02447' => 'egut', 'Migut.F00875' => 'egut', 'Migut.N00186' => 'egut', 'Migut.N01051' => 'egut', 'Migut.N02491' => 'egut', 'Migut.O00784' => 'egut', 'MSTRG.12367' => 'ama', 'MSTRG.18756' => 'ama', 'MSTRG.21042' => 'ama', 'Nitab4.5_0000559g0040' => 'nta', 'Nitab4.5_0000667g0190' => 'nta', 'Nitab4.5_0000755g0160' => 'nta', 'Nitab4.5_0001216g0080' => 'nta', 'Nitab4.5_0004069g0040' => 'nta', 'Nitab4.5_0004129g0010' => 'nta', 'Nitab4.5_0005744g0030' => 'nta', 'Nitab4.5_0006996g0030' => 'nta', 'Nitab4.5_0008971g0040' => 'nta', 'Nitab4.5_0009769g0020' => 'nta', 'Nitab4.5_0009833g0010' => 'nta', 'Nitab4.5_0013140g0020' => 'nta', 'Nn003s41376' => 'nnu', 'Nn1g01857' => 'nnu', 'Nn1g03611' => 'nnu', 'Nn1g06853' => 'nnu', 'Nn3g18360' => 'nnu', 'Nn4g26328' => 'nnu', 'Nn5g27531' => 'nnu', 'Nn6g34899' => 'nnu', 'Nn7g36299' => 'nnu', 'Oeu021485.1' => 'oeu', 'Oeu022433.1' => 'oeu', 'Oeu032111.1' => 'oeu', 'Oeu051608.1' => 'oeu', 'Os01g0860601' => 'osa', 'Os03g0659200' => 'osa', 'Os03g0835900' => 'osa', 'Os04g0412200' => 'osa', 'Os05g0443500' => 'osa', 'Os07g0251500' => 'osa', 'Os08g0104600' => 'osa', 'Peaxi162Scf00003g00047' => 'pax', 'Peaxi162Scf00003g00052' => 'pax', 'Peaxi162Scf00003g00394' => 'pax', 'Peaxi162Scf00091g00621' => 'pax', 'Peaxi162Scf00152g00146' => 'pax', 'Peaxi162Scf00173g00025' => 'pax', 'Peaxi162Scf00195g00102' => 'pax', 'Peaxi162Scf00402g00013' => 'pax', 'Peaxi162Scf00519g00618' => 'pax', 'PGR004G2838' => 'pgr', 'PGR044G2275' => 'pgr', 'PGR102G1377' => 'pgr', 'PGR119G1245' => 'pgr', 'PGR142G4449' => 'pgr', 'PGSC0003DMG400004532' => 'stu', 'PGSC0003DMG400011950' => 'stu', 'PGSC0003DMG400023391' => 'stu', 'PGSC0003DMG400023985' => 'stu', 'PGSC0003DMG400026360' => 'stu', 'PGSC0003DMG400035711' => 'stu', 'PGSC0003DMG400037286' => 'stu', 'PGSC0003DMG402005881' => 'stu', 'Phvul.002G045400' => 'pvu', 'Phvul.006G216600' => 'pvu', 'Phvul.006G216700' => 'pvu', 'Phvul.006G216800' => 'pvu', 'Phvul.007G022500' => 'pvu', 'Phvul.011G094400' => 'pvu', 'Potri.001G470700' => 'ptr', 'Potri.003G015200' => 'ptr', 'Potri.004G202500' => 'ptr', 'Potri.004G218400' => 'ptr', 'Potri.008G020100' => 'ptr', 'Potri.008G153200' => 'ptr', 'Potri.009G163800' => 'ptr', 'Potri.010G087300' => 'ptr', 'Potri.010G239100' => 'ptr', 'Pp3c10_16100' => 'ppa', 'Pp3c10_16880' => 'ppa', 'Pp3c16_6230' => 'ppa', 'Pp3c17_18910' => 'ppa', 'Pp3c3_22119' => 'ppa', 'Pp3c3_22140' => 'ppa', 'Pp3c4_8159' => 'ppa', 'Pp3c4_8171' => 'ppa', 'Pp3c4_8330' => 'ppa', 'PRCOL_00004098' => 'pco', 'Prupe.1G013900' => 'ppe', 'Prupe.1G226300' => 'ppe', 'Prupe.1G573600' => 'ppe', 'Prupe.6G130100' => 'ppe', 'Psat3g090040' => 'psa', 'Psat4g210440' => 'psa', 'Psat6g231040' => 'psa', 'Psat6g231080' => 'psa', 'Psat7g063000' => 'psa', 'Psat7g188000' => 'psa', 'Psat7g188040' => 'psa', 'PSO017G0206' => 'pso', 'PSO170G0501' => 'pso', 'PSO170G6422' => 'pso', 'PSO210G7739' => 'pso', 'PSO339G1808' => 'pso', 'PSO339G6135' => 'pso', 'PSO384G0010' => 'pso', 'PSO384G0964' => 'pso', 'PSO761G0050' => 'pso', 'PSO782G4085' => 'pso', 'QL01p012264' => 'qlo', 'QL02p099491' => 'qlo', 'QL03p033868' => 'qlo', 'QL04p046678' => 'qlo', 'QL06p002448' => 'qlo', 'RcHm_v2.0_Chr4g0416181' => 'rch', 'RcHm_v2.0_Chr5g0044701' => 'rch', 'RcHm_v2.0_Chr6g0265781' => 'rch', 'RcHm_v2.0_Chr7g0221031' => 'rch', 'Rhsim04G0202000' => 'rsi', 'Rhsim11G0127300' => 'rsi', 'Rhsim13G0111800' => 'rsi', 'Sabra01G0165600' => 'sbr', 'Sabra03G0008300' => 'sbr', 'Sabra04G0136900' => 'sbr', 'Sabra08G0013400' => 'sbr', 'Sabra08G0116800' => 'sbr', 'Sabra09G0128000' => 'sbr', 'Sabra10G0055500' => 'sbr', 'Sabra10G0073300' => 'sbr', 'SalBow3G0385' => 'sbo', 'SalBow3G1119' => 'sbo', 'SalBow3G2005' => 'sbo', 'SalBow6G2563' => 'sbo', 'SalBow6G6386' => 'sbo', 'Sc06g0008800' => 'sci', 'Sc07g0004950' => 'sci', 'Sc09g0005340' => 'sci', 'Sc13g0004410' => 'sci', 'Sc21g0007090' => 'sci', 'Sed0009285' => 'sed', 'Sed0017583' => 'sed', 'Sed0019699' => 'sed', 'Sed0023107' => 'sed', 'SEGI_10916' => 'sgi', 'SEGI_16217' => 'sgi', 'SEGI_19466' => 'sgi', 'SEGI_41115' => 'sgi', 'SGA_v2.0_scaffold111G31534' => 'sas', 'SGA_v2.0_scaffold22G09864' => 'sas', 'SGA_v2.0_scaffold338G49219' => 'sas', 'SGA_v2.0_scaffold92G28298' => 'sas', 'SMO119G0064' => 'smo', 'SMO223G0038' => 'smo', 'SMO347G0584' => 'smo', 'SMO351G0010' => 'smo', 'SMO356G0404' => 'smo', 'Solyc01g103920.3' => 'sly', 'Solyc04g009710.2' => 'sly', 'Solyc05g055280.2' => 'sly', 'Solyc10g044520.3' => 'sly', 'Solyc10g075160.1' => 'sly', 'Solyc11g006910.3' => 'sly', 'Solyc11g068430.3' => 'sly', 'Sopen01g046310' => 'spe', 'Sopen03g001200' => 'spe', 'Sopen04g004830' => 'spe', 'Sopen05g033720' => 'spe', 'Sopen06g030740' => 'spe', 'Sopen10g013090' => 'spe', 'Sopen10g027630' => 'spe', 'Sopen10g027640' => 'spe', 'Sopen11g002820' => 'spe', 'Sopen11g027140' => 'spe', 'Sp1g09680' => 'spa', 'Sp2g03630' => 'spa', 'Sp4g10320' => 'spa', 'Sp6g33400' => 'spa', 'Sp7g13030' => 'spa', 'TAR365G0317' => 'tar', 'TAR376G0979' => 'tar', 'TAR623G1665' => 'tar', 'TAR633G2373' => 'tar', 'TAR636G1400' => 'tar', 'THA.LOC104800529' => 'tha', 'THA.LOC104808547' => 'tha', 'THA.LOC104809615' => 'tha', 'THA.LOC104815724' => 'tha', 'THA.LOC104818480' => 'tha', 'THA.LOC104819179' => 'tha', 'THA.LOC104822270' => 'tha', 'THA.LOC104826425' => 'tha', 'Thecc.02G089700' => 'tca', 'Thecc.04G232300' => 'tca', 'Thecc.09G283400' => 'tca', 'Thhalv10009020m.g' => 'esa', 'Thhalv10015506m.g' => 'esa', 'Thhalv10017364m.g' => 'esa', 'Thhalv10023742m.g' => 'esa', 'Thhalv10026483m.g' => 'esa', 'TPR.G17232' => 'tpr', 'TPR.G2133' => 'tpr', 'TPR.G2498' => 'tpr', 'TPR.G31942' => 'tpr', 'TPR.G37877' => 'tpr', 'TPR.G4571' => 'tpr', 'TWI14G1113' => 'twi', 'TWI15G0426' => 'twi', 'TWI31G1005' => 'twi', 'TWI38G0513' => 'twi', 'TWI38G1484' => 'twi', 'TWI73G1098' => 'twi', 'unitig_26.g10519' => 'ugi', 'unitig_736.g22395' => 'ugi', 'unitig_747.g21234' => 'ugi', 'unitig_747.g21942' => 'ugi', 'vmacro14351' => 'vma', 'VMungo0540G0082' => 'vmu', 'VMungo0540G0405' => 'vmu', 'VMungo0540G1486' => 'vmu', 'VMungo0540G1692' => 'vmu', 'VMungo0720G2473' => 'vmu', 'VMungo1127G1562' => 'vmu', 'VMungo1215G1918' => 'vmu', 'Zm00001eb052650' => 'zma', 'Zm00001eb063710' => 'zma', 'Zm00001eb083950' => 'zma', 'Zm00001eb174420' => 'zma', 'Zm00001eb260140' => 'zma', 'Zm00001eb260150' => 'zma', 'Zm00001eb260160' => 'zma', 'Zm00001eb348290' => 'zma', 'Zm00001eb366870' => 'zma', 'Zm00001eb421930' => 'zma' ), 'gf_id' => 'HOM05D001025', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001025' ), 'data_identifier' => 'HOM05D001025', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001025', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '592', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p22650' => 'bna', 'A01p29720' => 'bna', 'A03p26560' => 'bna', 'A03p68820' => 'bna', 'A04p20980' => 'bna', 'A06p07730' => 'bna', 'A07p18260' => 'bna', 'A08p33710' => 'bna', 'A09p16970' => 'bna', 'A10p27490' => 'bna', 'Aa31LG1G17300' => 'aar', 'Aa31LG1G3910' => 'aar', 'Aa31LG2G9630' => 'aar', 'Aa31LG5G8360' => 'aar', 'Aa31LG9G2410' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4699' => 'aag', 'Actinidia23512' => 'ach', 'Actinidia37080' => 'ach', 'Ah.01g020380' => 'amhyb', 'Ah.08g215710' => 'amhyb', 'Ah.09g225110' => 'amhyb', 'Ah.10g036680' => 'amhyb', 'AL1G21940' => 'aly', 'AL2G15540' => 'aly', 'AL4G21520' => 'aly', 'AL7G40960' => 'aly', 'Aqoxy2G01191' => 'aox', 'Aqoxy2G03393' => 'aox', 'Aqoxy4G02775' => 'aox', 'Aqoxy6G00058' => 'aox', 'arahy.Tifrunner.gnm1.ann1.9X74H2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CW3FX9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R485W7' => 'arhy', 'AT1G10960' => 'ath', 'AT1G60950' => 'ath', 'AT2G27510' => 'ath', 'AT4G14890' => 'ath', 'AT5G10000' => 'ath', 'ATR0665G624' => 'atr', 'ATR0697G138' => 'atr', 'ATR0776G046' => 'atr', 'ATR1134G135' => 'atr', 'Atru.chr12.1025' => 'acertr', 'Atru.chr3.3241' => 'acertr', 'Atru.chr4.2460' => 'acertr', 'AUR62007427' => 'cqu', 'AUR62010960' => 'cqu', 'AUR62012201' => 'cqu', 'AUR62021470' => 'cqu', 'AUR62022834' => 'cqu', 'AUR62033635' => 'cqu', 'AUR62036186' => 'cqu', 'BcaB01g03077' => 'bca', 'BcaB02g10093' => 'bca', 'BcaB04g20295' => 'bca', 'BcaB06g28147' => 'bca', 'BcaB07g31253' => 'bca', 'BcaC01g04946' => 'bca', 'BcaC02g10614' => 'bca', 'BcaC02g10885' => 'bca', 'BcaC04g19356' => 'bca', 'BcaC04g22297' => 'bca', 'BcaC05g24977' => 'bca', 'BcaC06g31823' => 'bca', 'BcaC07g38633' => 'bca', 'BcaC09g49353' => 'bca', 'BcaC09g50168' => 'bca', 'BcaNung00322' => 'bca', 'BcaNung04769' => 'bca', 'BolC1t02753H' => 'bol', 'BolC1t03721H' => 'bol', 'BolC3t15525H' => 'bol', 'BolC4t23903H' => 'bol', 'BolC4t24231H' => 'bol', 'BolC4t27209H' => 'bol', 'BolC5t29671H' => 'bol', 'BolC8t49044H' => 'bol', 'BolC9t54999H' => 'bol', 'BolC9t59517H' => 'bol', 'BraA01t02178Z' => 'bra', 'BraA01t03099Z' => 'bra', 'BraA03t11867Z' => 'bra', 'BraA04t17667Z' => 'bra', 'BraA07t29542Z' => 'bra', 'BraA08t35287Z' => 'bra', 'BraA09t37334Z' => 'bra', 'BraA10t44801Z' => 'bra', 'BraSC39t46181Z' => 'bra', 'C01p28240' => 'bna', 'C01p37530' => 'bna', 'C03p31820' => 'bna', 'C04p24080' => 'bna', 'C04p25790' => 'bna', 'C04p56770' => 'bna', 'C05p09310' => 'bna', 'C09p21010' => 'bna', 'C09p67560' => 'bna', 'CAN.G1324.7' => 'can', 'CAN.G1358.10' => 'can', 'CAN.G1550.2' => 'can', 'CAN.G186.56' => 'can', 'CAN.G1965.1' => 'can', 'CAN.G645.15' => 'can', 'CAN.G798.26' => 'can', 'CAN.G798.27' => 'can', 'CAN.G798.29' => 'can', 'CAN.G919.31' => 'can', 'CANSAT11G0133' => 'cansat', 'CANSAT11G1171' => 'cansat', 'CANSAT11G2056' => 'cansat', 'CANSAT56G1202' => 'cansat', 'CANSAT56G1514' => 'cansat', 'CANSAT78G0455' => 'cansat', 'CARHR011190' => 'chi', 'CARHR051980' => 'chi', 'CARHR120170' => 'chi', 'CARHR203310' => 'chi', 'CARHR221490' => 'chi', 'Carub.0001s1054' => 'cru', 'Carub.0002s0431' => 'cru', 'Carub.0004s0818' => 'cru', 'Carub.0006s0846' => 'cru', 'Carub.0007s2722' => 'cru', 'Ca_00058_v3' => 'car', 'Ca_17831_v3' => 'car', 'Ca_19408_v3' => 'car', 'Ca_24397_v3' => 'car', 'Ca_25664_v3' => 'car', 'CBR_g21818' => 'cbr', 'CBR_g31195' => 'cbr', 'CBR_g32282' => 'cbr', 'CBR_g39599' => 'cbr', 'CBR_g49410' => 'cbr', 'Cc01_g09120' => 'ccan', 'Cc01_g09130' => 'ccan', 'Cc02_g09630' => 'ccan', 'Cc02_g22810' => 'ccan', 'Cc03_g03810' => 'ccan', 'CDE02G3718' => 'cde', 'CDE04G3183' => 'cde', 'CDE07G1046' => 'cde', 'CDE08G0480' => 'cde', 'Cfa005493' => 'cfa', 'Cfa010312' => 'cfa', 'Cfa015648' => 'cfa', 'Ciclev10002793m.g' => 'ccl', 'Ciclev10003356m.g' => 'ccl', 'Ciclev10006141m.g' => 'ccl', 'Ciclev10016676m.g' => 'ccl', 'Ciclev10017081m.g' => 'ccl', 'Ciclev10029499m.g' => 'ccl', 'CiPaw.01G166300' => 'cil', 'CiPaw.06G145600' => 'cil', 'CiPaw.13G040100' => 'cil', 'CiPaw.13G135800' => 'cil', 'ClCG01G012230' => 'cla', 'ClCG05G009510' => 'cla', 'ClCG08G008270' => 'cla', 'COL.COLO4_11763' => 'col', 'COL.COLO4_19876' => 'col', 'COL.COLO4_21481' => 'col', 'Cpa.g.sc118.34' => 'cpa', 'Cpa.g.sc32.13' => 'cpa', 'Cpa.g.sc58.103' => 'cpa', 'Cre03.g183850' => 'cre', 'Cre06.g306350' => 'cre', 'Cre07.g334800' => 'cre', 'Cre12.g487900' => 'cre', 'Cre14.g626700' => 'cre', 'Cre16.g658400' => 'cre', 'Cre17.g700950' => 'cre', 'CsaV3_1G014830' => 'csa', 'CsaV3_3G013320' => 'csa', 'CsaV3_3G019210' => 'csa', 'CsaV3_3G019220' => 'csa', 'CsaV3_6G004230' => 'csa', 'CSS0003773' => 'camsi', 'CSS0004563' => 'camsi', 'CSS0013949' => 'camsi', 'CSS0025971' => 'camsi', 'CSS0028570' => 'camsi', 'CSS0033127' => 'camsi', 'CSS0036051' => 'camsi', 'CSS0040087' => 'camsi', 'CSS0043179' => 'camsi', 'DCAR_006161' => 'dca', 'DCAR_010351' => 'dca', 'DCAR_012197' => 'dca', 'DCAR_024162' => 'dca', 'Dinv01030' => 'din', 'Dinv10924' => 'din', 'Dinv11835' => 'din', 'Dinv22841' => 'din', 'Dinv42553' => 'din', 'Duzib052G0560' => 'dzi', 'Duzib132G0389' => 'dzi', 'Duzib150G1181' => 'dzi', 'Duzib168G0623' => 'dzi', 'Duzib170G1036' => 'dzi', 'Duzib212G0200' => 'dzi', 'Duzib248G0194' => 'dzi', 'ECA232G2193' => 'eca', 'ECA233G0302' => 'eca', 'ECA234G2813' => 'eca', 'ECA234G4866' => 'eca', 'ECA240G3932' => 'eca', 'ECA248G0385' => 'eca', 'EL10Ac2g04781' => 'bvu', 'EL10Ac3g06445' => 'bvu', 'EL10Ac7g15825' => 'bvu', 'EL10Ac8g18550' => 'bvu', 'Eucgr.B03849' => 'egr', 'Eucgr.I02744' => 'egr', 'Eucgr.J00264' => 'egr', 'Eucgr.J00493' => 'egr', 'FAN04G2181' => 'fan', 'FAN07G2666' => 'fan', 'FAN11G0024' => 'fan', 'FAN12G1105' => 'fan', 'FAN13G0302' => 'fan', 'FAN15G2781' => 'fan', 'FAN16G1274' => 'fan', 'FAN17G2988' => 'fan', 'FAN18G2621' => 'fan', 'FAN21G0013' => 'fan', 'FAN22G1211' => 'fan', 'FAN25G3626' => 'fan', 'FvH4_2g09491' => 'fve', 'FvH4_3g24910' => 'fve', 'FvH4_4g15630' => 'fve', 'FvH4_5g28820' => 'fve', 'Glyma.01G238000' => 'gma', 'Glyma.05G168400' => 'gma', 'Glyma.08G126800' => 'gma', 'Glyma.08G188500' => 'gma', 'Glyma.10G278900' => 'gma', 'Glyma.11G005700' => 'gma', 'Glyma.11G183300' => 'gma', 'Glyma.12G089200' => 'gma', 'Glyma.12G169400' => 'gma', 'Glyma.12G169500' => 'gma', 'Glyma.12G169600' => 'gma', 'Glyma.20G110800' => 'gma', 'Gohir.A03G192900' => 'ghi', 'Gohir.A03G193000' => 'ghi', 'Gohir.A05G080700' => 'ghi', 'Gohir.A09G216000' => 'ghi', 'Gohir.A12G027700' => 'ghi', 'Gohir.A13G036200' => 'ghi', 'Gohir.A13G222600' => 'ghi', 'Gohir.D02G213900' => 'ghi', 'Gohir.D02G214000' => 'ghi', 'Gohir.D05G083700' => 'ghi', 'Gohir.D05G083800' => 'ghi', 'Gohir.D05G083850' => 'ghi', 'Gohir.D08G015400' => 'ghi', 'Gohir.D09G218400' => 'ghi', 'Gohir.D12G027100' => 'ghi', 'Gohir.D13G034500' => 'ghi', 'Gohir.D13G227400' => 'ghi', 'Gorai.005G241800' => 'gra', 'Gorai.005G241900' => 'gra', 'Gorai.006G239400' => 'gra', 'Gorai.008G027600' => 'gra', 'Gorai.009G085400' => 'gra', 'Gorai.009G085500' => 'gra', 'Gorai.013G039000' => 'gra', 'Gorai.013G194800' => 'gra', 'Gorai.013G257900' => 'gra', 'GSVIVG01000982001' => 'vvi', 'GSVIVG01017981001' => 'vvi', 'HanXRQChr01g0024061' => 'han', 'HanXRQChr09g0247831' => 'han', 'HanXRQChr10g0294611' => 'han', 'HanXRQChr10g0294621' => 'han', 'HanXRQChr11g0346821' => 'han', 'HanXRQChr13g0397461' => 'han', 'HanXRQChr16g0513651' => 'han', 'HanXRQChr16g0513701' => 'han', 'Haze_00897' => 'cav', 'Haze_01745' => 'cav', 'Haze_02486' => 'cav', 'Haze_02487' => 'cav', 'Haze_23374' => 'cav', 'Hma1.2p1_0578F.1_g182520' => 'hma', 'Hma1.2p1_0602F.1_g187350' => 'hma', 'Hma1.2p1_0602F.1_g187360' => 'hma', 'Hma1.2p1_0874F.1_g231320' => 'hma', 'Hma1.2p1_1197F.1_g266210' => 'hma', 'Hma1.2p1_1197F.1_g266220' => 'hma', 'Hma1.2p1_2167F.1_g315895' => 'hma', 'Hma1.2p1_2190F.1_g316640' => 'hma', 'Hma1.2p1_3645F.1_g337153' => 'hma', 'HPP92_004907' => 'vpl', 'HPP92_012134' => 'vpl', 'HPP92_025136' => 'vpl', 'HPP92_026087' => 'vpl', 'Hund06782' => 'sun', 'Hund06784' => 'sun', 'Lalb_Chr01g0004861' => 'lal', 'Lalb_Chr02g0140591' => 'lal', 'Lalb_Chr02g0140611' => 'lal', 'Lalb_Chr03g0028101' => 'lal', 'Lalb_Chr07g0185791' => 'lal', 'Lalb_Chr12g0204491' => 'lal', 'Lalb_Chr13g0295671' => 'lal', 'Lalb_Chr19g0136461' => 'lal', 'Lalb_Chr21g0309191' => 'lal', 'Lj1g0028158' => 'lja', 'Lj1P236T38' => 'lonja', 'Lj2C32G2' => 'lonja', 'Lj2P944T8' => 'lonja', 'Lj2P963T15' => 'lonja', 'Lj3g0011788' => 'lja', 'Lj4g0025027' => 'lja', 'Lj5P255T36' => 'lonja', 'Lj6g0018866' => 'lja', 'Lj6P608T31' => 'lonja', 'LjContig00408g0008879' => 'lja', 'Lsat_1_v5_gn_5_105820' => 'lsa', 'Lsat_1_v5_gn_6_38800' => 'lsa', 'Lsat_1_v5_gn_7_67141' => 'lsa', 'Manes.04G003400' => 'mes', 'Manes.07G020000' => 'mes', 'Manes.07G020100' => 'mes', 'Manes.07G020150' => 'mes', 'Manes.10G061500' => 'mes', 'Manes.10G123200' => 'mes', 'Manes.11G161900' => 'mes', 'Manes.15G029300' => 'mes', 'Mapoly0071s0018' => 'mpo', 'Mapoly0082s0023' => 'mpo', 'Mapoly3477s0001' => 'mpo', 'MBI05_g31233_MAGBIO' => 'mbi', 'MBI09_g05946_MAGBIO' => 'mbi', 'MBI09_g05947_MAGBIO' => 'mbi', 'MBI17_g08346_MAGBIO' => 'mbi', 'MCO04G038' => 'mco', 'MCO09G370' => 'mco', 'MCO13G605' => 'mco', 'MD00G1075500' => 'mdo', 'MD03G1144300' => 'mdo', 'MD08G1236800' => 'mdo', 'MD13G1193300' => 'mdo', 'MD15G1428700' => 'mdo', 'Medtr1g112030' => 'mtr', 'Medtr1g112050' => 'mtr', 'Medtr2g006290' => 'mtr', 'Medtr2g086510' => 'mtr', 'Medtr4g053120' => 'mtr', 'Medtr5g006320' => 'mtr', 'Medtr8g088720' => 'mtr', 'MELO3C004712.2' => 'cme', 'MELO3C006533.2' => 'cme', 'MELO3C019438.2' => 'cme', 'MELO3C019440.2' => 'cme', 'MELO3C019441.2' => 'cme', 'MELO3C019895.2' => 'cme', 'Migut.B00811' => 'egut', 'Migut.D02447' => 'egut', 'Migut.F00875' => 'egut', 'Migut.N00186' => 'egut', 'Migut.N01051' => 'egut', 'Migut.N02491' => 'egut', 'Migut.O00784' => 'egut', 'MSTRG.12367' => 'ama', 'MSTRG.18756' => 'ama', 'MSTRG.21042' => 'ama', 'Nitab4.5_0000559g0040' => 'nta', 'Nitab4.5_0000667g0190' => 'nta', 'Nitab4.5_0000755g0160' => 'nta', 'Nitab4.5_0001216g0080' => 'nta', 'Nitab4.5_0004069g0040' => 'nta', 'Nitab4.5_0004129g0010' => 'nta', 'Nitab4.5_0005744g0030' => 'nta', 'Nitab4.5_0006996g0030' => 'nta', 'Nitab4.5_0008971g0040' => 'nta', 'Nitab4.5_0009769g0020' => 'nta', 'Nitab4.5_0009833g0010' => 'nta', 'Nitab4.5_0013140g0020' => 'nta', 'Nn003s41376' => 'nnu', 'Nn1g01857' => 'nnu', 'Nn1g03611' => 'nnu', 'Nn1g06853' => 'nnu', 'Nn3g18360' => 'nnu', 'Nn4g26328' => 'nnu', 'Nn5g27531' => 'nnu', 'Nn6g34899' => 'nnu', 'Nn7g36299' => 'nnu', 'Oeu021485.1' => 'oeu', 'Oeu022433.1' => 'oeu', 'Oeu032111.1' => 'oeu', 'Oeu051608.1' => 'oeu', 'Os01g0860601' => 'osa', 'Os03g0659200' => 'osa', 'Os03g0835900' => 'osa', 'Os04g0412200' => 'osa', 'Os05g0443500' => 'osa', 'Os07g0251500' => 'osa', 'Os08g0104600' => 'osa', 'Peaxi162Scf00003g00047' => 'pax', 'Peaxi162Scf00003g00052' => 'pax', 'Peaxi162Scf00003g00394' => 'pax', 'Peaxi162Scf00091g00621' => 'pax', 'Peaxi162Scf00152g00146' => 'pax', 'Peaxi162Scf00173g00025' => 'pax', 'Peaxi162Scf00195g00102' => 'pax', 'Peaxi162Scf00402g00013' => 'pax', 'Peaxi162Scf00519g00618' => 'pax', 'PGR004G2838' => 'pgr', 'PGR044G2275' => 'pgr', 'PGR102G1377' => 'pgr', 'PGR119G1245' => 'pgr', 'PGR142G4449' => 'pgr', 'PGSC0003DMG400004532' => 'stu', 'PGSC0003DMG400011950' => 'stu', 'PGSC0003DMG400023391' => 'stu', 'PGSC0003DMG400023985' => 'stu', 'PGSC0003DMG400026360' => 'stu', 'PGSC0003DMG400035711' => 'stu', 'PGSC0003DMG400037286' => 'stu', 'PGSC0003DMG402005881' => 'stu', 'Phvul.002G045400' => 'pvu', 'Phvul.006G216600' => 'pvu', 'Phvul.006G216700' => 'pvu', 'Phvul.006G216800' => 'pvu', 'Phvul.007G022500' => 'pvu', 'Phvul.011G094400' => 'pvu', 'Potri.001G470700' => 'ptr', 'Potri.003G015200' => 'ptr', 'Potri.004G202500' => 'ptr', 'Potri.004G218400' => 'ptr', 'Potri.008G020100' => 'ptr', 'Potri.008G153200' => 'ptr', 'Potri.009G163800' => 'ptr', 'Potri.010G087300' => 'ptr', 'Potri.010G239100' => 'ptr', 'Pp3c10_16100' => 'ppa', 'Pp3c10_16880' => 'ppa', 'Pp3c16_6230' => 'ppa', 'Pp3c17_18910' => 'ppa', 'Pp3c3_22119' => 'ppa', 'Pp3c3_22140' => 'ppa', 'Pp3c4_8159' => 'ppa', 'Pp3c4_8171' => 'ppa', 'Pp3c4_8330' => 'ppa', 'PRCOL_00004098' => 'pco', 'Prupe.1G013900' => 'ppe', 'Prupe.1G226300' => 'ppe', 'Prupe.1G573600' => 'ppe', 'Prupe.6G130100' => 'ppe', 'Psat3g090040' => 'psa', 'Psat4g210440' => 'psa', 'Psat6g231040' => 'psa', 'Psat6g231080' => 'psa', 'Psat7g063000' => 'psa', 'Psat7g188000' => 'psa', 'Psat7g188040' => 'psa', 'PSO017G0206' => 'pso', 'PSO170G0501' => 'pso', 'PSO170G6422' => 'pso', 'PSO210G7739' => 'pso', 'PSO339G1808' => 'pso', 'PSO339G6135' => 'pso', 'PSO384G0010' => 'pso', 'PSO384G0964' => 'pso', 'PSO761G0050' => 'pso', 'PSO782G4085' => 'pso', 'QL01p012264' => 'qlo', 'QL02p099491' => 'qlo', 'QL03p033868' => 'qlo', 'QL04p046678' => 'qlo', 'QL06p002448' => 'qlo', 'RcHm_v2.0_Chr4g0416181' => 'rch', 'RcHm_v2.0_Chr5g0044701' => 'rch', 'RcHm_v2.0_Chr6g0265781' => 'rch', 'RcHm_v2.0_Chr7g0221031' => 'rch', 'Rhsim04G0202000' => 'rsi', 'Rhsim11G0127300' => 'rsi', 'Rhsim13G0111800' => 'rsi', 'Sabra01G0165600' => 'sbr', 'Sabra03G0008300' => 'sbr', 'Sabra04G0136900' => 'sbr', 'Sabra08G0013400' => 'sbr', 'Sabra08G0116800' => 'sbr', 'Sabra09G0128000' => 'sbr', 'Sabra10G0055500' => 'sbr', 'Sabra10G0073300' => 'sbr', 'SalBow3G0385' => 'sbo', 'SalBow3G1119' => 'sbo', 'SalBow3G2005' => 'sbo', 'SalBow6G2563' => 'sbo', 'SalBow6G6386' => 'sbo', 'Sc06g0008800' => 'sci', 'Sc07g0004950' => 'sci', 'Sc09g0005340' => 'sci', 'Sc13g0004410' => 'sci', 'Sc21g0007090' => 'sci', 'Sed0009285' => 'sed', 'Sed0017583' => 'sed', 'Sed0019699' => 'sed', 'Sed0023107' => 'sed', 'SEGI_10916' => 'sgi', 'SEGI_16217' => 'sgi', 'SEGI_19466' => 'sgi', 'SEGI_41115' => 'sgi', 'SGA_v2.0_scaffold111G31534' => 'sas', 'SGA_v2.0_scaffold22G09864' => 'sas', 'SGA_v2.0_scaffold338G49219' => 'sas', 'SGA_v2.0_scaffold92G28298' => 'sas', 'SMO119G0064' => 'smo', 'SMO223G0038' => 'smo', 'SMO347G0584' => 'smo', 'SMO351G0010' => 'smo', 'SMO356G0404' => 'smo', 'Solyc01g103920.3' => 'sly', 'Solyc04g009710.2' => 'sly', 'Solyc05g055280.2' => 'sly', 'Solyc10g044520.3' => 'sly', 'Solyc10g075160.1' => 'sly', 'Solyc11g006910.3' => 'sly', 'Solyc11g068430.3' => 'sly', 'Sopen01g046310' => 'spe', 'Sopen03g001200' => 'spe', 'Sopen04g004830' => 'spe', 'Sopen05g033720' => 'spe', 'Sopen06g030740' => 'spe', 'Sopen10g013090' => 'spe', 'Sopen10g027630' => 'spe', 'Sopen10g027640' => 'spe', 'Sopen11g002820' => 'spe', 'Sopen11g027140' => 'spe', 'Sp1g09680' => 'spa', 'Sp2g03630' => 'spa', 'Sp4g10320' => 'spa', 'Sp6g33400' => 'spa', 'Sp7g13030' => 'spa', 'TAR365G0317' => 'tar', 'TAR376G0979' => 'tar', 'TAR623G1665' => 'tar', 'TAR633G2373' => 'tar', 'TAR636G1400' => 'tar', 'THA.LOC104800529' => 'tha', 'THA.LOC104808547' => 'tha', 'THA.LOC104809615' => 'tha', 'THA.LOC104815724' => 'tha', 'THA.LOC104818480' => 'tha', 'THA.LOC104819179' => 'tha', 'THA.LOC104822270' => 'tha', 'THA.LOC104826425' => 'tha', 'Thecc.02G089700' => 'tca', 'Thecc.04G232300' => 'tca', 'Thecc.09G283400' => 'tca', 'Thhalv10009020m.g' => 'esa', 'Thhalv10015506m.g' => 'esa', 'Thhalv10017364m.g' => 'esa', 'Thhalv10023742m.g' => 'esa', 'Thhalv10026483m.g' => 'esa', 'TPR.G17232' => 'tpr', 'TPR.G2133' => 'tpr', 'TPR.G2498' => 'tpr', 'TPR.G31942' => 'tpr', 'TPR.G37877' => 'tpr', 'TPR.G4571' => 'tpr', 'TWI14G1113' => 'twi', 'TWI15G0426' => 'twi', 'TWI31G1005' => 'twi', 'TWI38G0513' => 'twi', 'TWI38G1484' => 'twi', 'TWI73G1098' => 'twi', 'unitig_26.g10519' => 'ugi', 'unitig_736.g22395' => 'ugi', 'unitig_747.g21234' => 'ugi', 'unitig_747.g21942' => 'ugi', 'vmacro14351' => 'vma', 'VMungo0540G0082' => 'vmu', 'VMungo0540G0405' => 'vmu', 'VMungo0540G1486' => 'vmu', 'VMungo0540G1692' => 'vmu', 'VMungo0720G2473' => 'vmu', 'VMungo1127G1562' => 'vmu', 'VMungo1215G1918' => 'vmu', 'Zm00001eb052650' => 'zma', 'Zm00001eb063710' => 'zma', 'Zm00001eb083950' => 'zma', 'Zm00001eb174420' => 'zma', 'Zm00001eb260140' => 'zma', 'Zm00001eb260150' => 'zma', 'Zm00001eb260160' => 'zma', 'Zm00001eb348290' => 'zma', 'Zm00001eb366870' => 'zma', 'Zm00001eb421930' => 'zma' ) $gf_id = 'HOM05D001025' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001025' ) $data_identifier = 'HOM05D001025' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 19, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 2, 'amhyb' => (int) 4, 'aly' => (int) 4, 'aox' => (int) 4, 'arhy' => (int) 3, 'ath' => (int) 5, 'atr' => (int) 4, 'acertr' => (int) 3, 'cqu' => (int) 7, 'bca' => (int) 17, 'bol' => (int) 10, 'bra' => (int) 9, 'can' => (int) 10, 'cansat' => (int) 6, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 5, 'cbr' => (int) 5, 'ccan' => (int) 5, 'cde' => (int) 4, 'cfa' => (int) 3, 'ccl' => (int) 6, 'cil' => (int) 4, 'cla' => (int) 3, 'col' => (int) 3, 'cpa' => (int) 3, 'cre' => (int) 7, 'csa' => (int) 5, 'camsi' => (int) 9, 'dca' => (int) 4, 'din' => (int) 5, 'dzi' => (int) 7, 'eca' => (int) 6, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 12, 'fve' => (int) 4, 'gma' => (int) 12, 'ghi' => (int) 17, 'gra' => (int) 9, 'vvi' => (int) 2, 'han' => (int) 8, 'cav' => (int) 5, 'hma' => (int) 9, 'vpl' => (int) 4, 'sun' => (int) 2, 'lal' => (int) 9, 'lja' => (int) 5, 'lonja' => (int) 6, 'lsa' => (int) 3, 'mes' => (int) 8, 'mpo' => (int) 3, 'mbi' => (int) 4, 'mco' => (int) 3, 'mdo' => (int) 5, 'mtr' => (int) 7, 'cme' => (int) 6, 'egut' => (int) 7, 'ama' => (int) 3, 'nta' => (int) 12, 'nnu' => (int) 9, 'oeu' => (int) 4, 'osa' => (int) 7, 'pax' => (int) 9, 'pgr' => (int) 5, 'stu' => (int) 8, 'pvu' => (int) 6, 'ptr' => (int) 9, 'ppa' => (int) 9, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 7, 'pso' => (int) 10, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 3, 'sbr' => (int) 8, 'sbo' => (int) 5, 'sci' => (int) 5, 'sed' => (int) 4, 'sgi' => (int) 4, 'sas' => (int) 4, 'smo' => (int) 5, 'sly' => (int) 7, 'spe' => (int) 10, 'spa' => (int) 5, 'tar' => (int) 5, 'tha' => (int) 8, 'tca' => (int) 3, 'esa' => (int) 5, 'tpr' => (int) 6, 'twi' => (int) 6, 'ugi' => (int) 4, 'vma' => (int) 1, 'vmu' => (int) 7, 'zma' => (int) 10 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb421930' $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' => 'HOM05D001025', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '592', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p22650' => 'bna', 'A01p29720' => 'bna', 'A03p26560' => 'bna', 'A03p68820' => 'bna', 'A04p20980' => 'bna', 'A06p07730' => 'bna', 'A07p18260' => 'bna', 'A08p33710' => 'bna', 'A09p16970' => 'bna', 'A10p27490' => 'bna', 'Aa31LG1G17300' => 'aar', 'Aa31LG1G3910' => 'aar', 'Aa31LG2G9630' => 'aar', 'Aa31LG5G8360' => 'aar', 'Aa31LG9G2410' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4699' => 'aag', 'Actinidia23512' => 'ach', 'Actinidia37080' => 'ach', 'Ah.01g020380' => 'amhyb', 'Ah.08g215710' => 'amhyb', 'Ah.09g225110' => 'amhyb', 'Ah.10g036680' => 'amhyb', 'AL1G21940' => 'aly', 'AL2G15540' => 'aly', 'AL4G21520' => 'aly', 'AL7G40960' => 'aly', 'Aqoxy2G01191' => 'aox', 'Aqoxy2G03393' => 'aox', 'Aqoxy4G02775' => 'aox', 'Aqoxy6G00058' => 'aox', 'arahy.Tifrunner.gnm1.ann1.9X74H2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CW3FX9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R485W7' => 'arhy', 'AT1G10960' => 'ath', 'AT1G60950' => 'ath', 'AT2G27510' => 'ath', 'AT4G14890' => 'ath', 'AT5G10000' => 'ath', 'ATR0665G624' => 'atr', 'ATR0697G138' => 'atr', 'ATR0776G046' => 'atr', 'ATR1134G135' => 'atr', 'Atru.chr12.1025' => 'acertr', 'Atru.chr3.3241' => 'acertr', 'Atru.chr4.2460' => 'acertr', 'AUR62007427' => 'cqu', 'AUR62010960' => 'cqu', 'AUR62012201' => 'cqu', 'AUR62021470' => 'cqu', 'AUR62022834' => 'cqu', 'AUR62033635' => 'cqu', 'AUR62036186' => 'cqu', 'BcaB01g03077' => 'bca', 'BcaB02g10093' => 'bca', 'BcaB04g20295' => 'bca', 'BcaB06g28147' => 'bca', 'BcaB07g31253' => 'bca', 'BcaC01g04946' => 'bca', 'BcaC02g10614' => 'bca', 'BcaC02g10885' => 'bca', 'BcaC04g19356' => 'bca', 'BcaC04g22297' => 'bca', 'BcaC05g24977' => 'bca', 'BcaC06g31823' => 'bca', 'BcaC07g38633' => 'bca', 'BcaC09g49353' => 'bca', 'BcaC09g50168' => 'bca', 'BcaNung00322' => 'bca', 'BcaNung04769' => 'bca', 'BolC1t02753H' => 'bol', 'BolC1t03721H' => 'bol', 'BolC3t15525H' => 'bol', 'BolC4t23903H' => 'bol', 'BolC4t24231H' => 'bol', 'BolC4t27209H' => 'bol', 'BolC5t29671H' => 'bol', 'BolC8t49044H' => 'bol', 'BolC9t54999H' => 'bol', 'BolC9t59517H' => 'bol', 'BraA01t02178Z' => 'bra', 'BraA01t03099Z' => 'bra', 'BraA03t11867Z' => 'bra', 'BraA04t17667Z' => 'bra', 'BraA07t29542Z' => 'bra', 'BraA08t35287Z' => 'bra', 'BraA09t37334Z' => 'bra', 'BraA10t44801Z' => 'bra', 'BraSC39t46181Z' => 'bra', 'C01p28240' => 'bna', 'C01p37530' => 'bna', 'C03p31820' => 'bna', 'C04p24080' => 'bna', 'C04p25790' => 'bna', 'C04p56770' => 'bna', 'C05p09310' => 'bna', 'C09p21010' => 'bna', 'C09p67560' => 'bna', 'CAN.G1324.7' => 'can', 'CAN.G1358.10' => 'can', 'CAN.G1550.2' => 'can', 'CAN.G186.56' => 'can', 'CAN.G1965.1' => 'can', 'CAN.G645.15' => 'can', 'CAN.G798.26' => 'can', 'CAN.G798.27' => 'can', 'CAN.G798.29' => 'can', 'CAN.G919.31' => 'can', 'CANSAT11G0133' => 'cansat', 'CANSAT11G1171' => 'cansat', 'CANSAT11G2056' => 'cansat', 'CANSAT56G1202' => 'cansat', 'CANSAT56G1514' => 'cansat', 'CANSAT78G0455' => 'cansat', 'CARHR011190' => 'chi', 'CARHR051980' => 'chi', 'CARHR120170' => 'chi', 'CARHR203310' => 'chi', 'CARHR221490' => 'chi', 'Carub.0001s1054' => 'cru', 'Carub.0002s0431' => 'cru', 'Carub.0004s0818' => 'cru', 'Carub.0006s0846' => 'cru', 'Carub.0007s2722' => 'cru', 'Ca_00058_v3' => 'car', 'Ca_17831_v3' => 'car', 'Ca_19408_v3' => 'car', 'Ca_24397_v3' => 'car', 'Ca_25664_v3' => 'car', 'CBR_g21818' => 'cbr', 'CBR_g31195' => 'cbr', 'CBR_g32282' => 'cbr', 'CBR_g39599' => 'cbr', 'CBR_g49410' => 'cbr', 'Cc01_g09120' => 'ccan', 'Cc01_g09130' => 'ccan', 'Cc02_g09630' => 'ccan', 'Cc02_g22810' => 'ccan', 'Cc03_g03810' => 'ccan', 'CDE02G3718' => 'cde', 'CDE04G3183' => 'cde', 'CDE07G1046' => 'cde', 'CDE08G0480' => 'cde', 'Cfa005493' => 'cfa', 'Cfa010312' => 'cfa', 'Cfa015648' => 'cfa', 'Ciclev10002793m.g' => 'ccl', 'Ciclev10003356m.g' => 'ccl', 'Ciclev10006141m.g' => 'ccl', 'Ciclev10016676m.g' => 'ccl', 'Ciclev10017081m.g' => 'ccl', 'Ciclev10029499m.g' => 'ccl', 'CiPaw.01G166300' => 'cil', 'CiPaw.06G145600' => 'cil', 'CiPaw.13G040100' => 'cil', 'CiPaw.13G135800' => 'cil', 'ClCG01G012230' => 'cla', 'ClCG05G009510' => 'cla', 'ClCG08G008270' => 'cla', 'COL.COLO4_11763' => 'col', 'COL.COLO4_19876' => 'col', 'COL.COLO4_21481' => 'col', 'Cpa.g.sc118.34' => 'cpa', 'Cpa.g.sc32.13' => 'cpa', 'Cpa.g.sc58.103' => 'cpa', 'Cre03.g183850' => 'cre', 'Cre06.g306350' => 'cre', 'Cre07.g334800' => 'cre', 'Cre12.g487900' => 'cre', 'Cre14.g626700' => 'cre', 'Cre16.g658400' => 'cre', 'Cre17.g700950' => 'cre', 'CsaV3_1G014830' => 'csa', 'CsaV3_3G013320' => 'csa', 'CsaV3_3G019210' => 'csa', 'CsaV3_3G019220' => 'csa', 'CsaV3_6G004230' => 'csa', 'CSS0003773' => 'camsi', 'CSS0004563' => 'camsi', 'CSS0013949' => 'camsi', 'CSS0025971' => 'camsi', 'CSS0028570' => 'camsi', 'CSS0033127' => 'camsi', 'CSS0036051' => 'camsi', 'CSS0040087' => 'camsi', 'CSS0043179' => 'camsi', 'DCAR_006161' => 'dca', 'DCAR_010351' => 'dca', 'DCAR_012197' => 'dca', 'DCAR_024162' => 'dca', 'Dinv01030' => 'din', 'Dinv10924' => 'din', 'Dinv11835' => 'din', 'Dinv22841' => 'din', 'Dinv42553' => 'din', 'Duzib052G0560' => 'dzi', 'Duzib132G0389' => 'dzi', 'Duzib150G1181' => 'dzi', 'Duzib168G0623' => 'dzi', 'Duzib170G1036' => 'dzi', 'Duzib212G0200' => 'dzi', 'Duzib248G0194' => 'dzi', 'ECA232G2193' => 'eca', 'ECA233G0302' => 'eca', 'ECA234G2813' => 'eca', 'ECA234G4866' => 'eca', 'ECA240G3932' => 'eca', 'ECA248G0385' => 'eca', 'EL10Ac2g04781' => 'bvu', 'EL10Ac3g06445' => 'bvu', 'EL10Ac7g15825' => 'bvu', 'EL10Ac8g18550' => 'bvu', 'Eucgr.B03849' => 'egr', 'Eucgr.I02744' => 'egr', 'Eucgr.J00264' => 'egr', 'Eucgr.J00493' => 'egr', 'FAN04G2181' => 'fan', 'FAN07G2666' => 'fan', 'FAN11G0024' => 'fan', 'FAN12G1105' => 'fan', 'FAN13G0302' => 'fan', 'FAN15G2781' => 'fan', 'FAN16G1274' => 'fan', 'FAN17G2988' => 'fan', 'FAN18G2621' => 'fan', 'FAN21G0013' => 'fan', 'FAN22G1211' => 'fan', 'FAN25G3626' => 'fan', 'FvH4_2g09491' => 'fve', 'FvH4_3g24910' => 'fve', 'FvH4_4g15630' => 'fve', 'FvH4_5g28820' => 'fve', 'Glyma.01G238000' => 'gma', 'Glyma.05G168400' => 'gma', 'Glyma.08G126800' => 'gma', 'Glyma.08G188500' => 'gma', 'Glyma.10G278900' => 'gma', 'Glyma.11G005700' => 'gma', 'Glyma.11G183300' => 'gma', 'Glyma.12G089200' => 'gma', 'Glyma.12G169400' => 'gma', 'Glyma.12G169500' => 'gma', 'Glyma.12G169600' => 'gma', 'Glyma.20G110800' => 'gma', 'Gohir.A03G192900' => 'ghi', 'Gohir.A03G193000' => 'ghi', 'Gohir.A05G080700' => 'ghi', 'Gohir.A09G216000' => 'ghi', 'Gohir.A12G027700' => 'ghi', 'Gohir.A13G036200' => 'ghi', 'Gohir.A13G222600' => 'ghi', 'Gohir.D02G213900' => 'ghi', 'Gohir.D02G214000' => 'ghi', 'Gohir.D05G083700' => 'ghi', 'Gohir.D05G083800' => 'ghi', 'Gohir.D05G083850' => 'ghi', 'Gohir.D08G015400' => 'ghi', 'Gohir.D09G218400' => 'ghi', 'Gohir.D12G027100' => 'ghi', 'Gohir.D13G034500' => 'ghi', 'Gohir.D13G227400' => 'ghi', 'Gorai.005G241800' => 'gra', 'Gorai.005G241900' => 'gra', 'Gorai.006G239400' => 'gra', 'Gorai.008G027600' => 'gra', 'Gorai.009G085400' => 'gra', 'Gorai.009G085500' => 'gra', 'Gorai.013G039000' => 'gra', 'Gorai.013G194800' => 'gra', 'Gorai.013G257900' => 'gra', 'GSVIVG01000982001' => 'vvi', 'GSVIVG01017981001' => 'vvi', 'HanXRQChr01g0024061' => 'han', 'HanXRQChr09g0247831' => 'han', 'HanXRQChr10g0294611' => 'han', 'HanXRQChr10g0294621' => 'han', 'HanXRQChr11g0346821' => 'han', 'HanXRQChr13g0397461' => 'han', 'HanXRQChr16g0513651' => 'han', 'HanXRQChr16g0513701' => 'han', 'Haze_00897' => 'cav', 'Haze_01745' => 'cav', 'Haze_02486' => 'cav', 'Haze_02487' => 'cav', 'Haze_23374' => 'cav', 'Hma1.2p1_0578F.1_g182520' => 'hma', 'Hma1.2p1_0602F.1_g187350' => 'hma', 'Hma1.2p1_0602F.1_g187360' => 'hma', 'Hma1.2p1_0874F.1_g231320' => 'hma', 'Hma1.2p1_1197F.1_g266210' => 'hma', 'Hma1.2p1_1197F.1_g266220' => 'hma', 'Hma1.2p1_2167F.1_g315895' => 'hma', 'Hma1.2p1_2190F.1_g316640' => 'hma', 'Hma1.2p1_3645F.1_g337153' => 'hma', 'HPP92_004907' => 'vpl', 'HPP92_012134' => 'vpl', 'HPP92_025136' => 'vpl', 'HPP92_026087' => 'vpl', 'Hund06782' => 'sun', 'Hund06784' => 'sun', 'Lalb_Chr01g0004861' => 'lal', 'Lalb_Chr02g0140591' => 'lal', 'Lalb_Chr02g0140611' => 'lal', 'Lalb_Chr03g0028101' => 'lal', 'Lalb_Chr07g0185791' => 'lal', 'Lalb_Chr12g0204491' => 'lal', 'Lalb_Chr13g0295671' => 'lal', 'Lalb_Chr19g0136461' => 'lal', 'Lalb_Chr21g0309191' => 'lal', 'Lj1g0028158' => 'lja', 'Lj1P236T38' => 'lonja', 'Lj2C32G2' => 'lonja', 'Lj2P944T8' => 'lonja', 'Lj2P963T15' => 'lonja', 'Lj3g0011788' => 'lja', 'Lj4g0025027' => 'lja', 'Lj5P255T36' => 'lonja', 'Lj6g0018866' => 'lja', 'Lj6P608T31' => 'lonja', 'LjContig00408g0008879' => 'lja', 'Lsat_1_v5_gn_5_105820' => 'lsa', 'Lsat_1_v5_gn_6_38800' => 'lsa', 'Lsat_1_v5_gn_7_67141' => 'lsa', 'Manes.04G003400' => 'mes', 'Manes.07G020000' => 'mes', 'Manes.07G020100' => 'mes', 'Manes.07G020150' => 'mes', 'Manes.10G061500' => 'mes', 'Manes.10G123200' => 'mes', 'Manes.11G161900' => 'mes', 'Manes.15G029300' => 'mes', 'Mapoly0071s0018' => 'mpo', 'Mapoly0082s0023' => 'mpo', 'Mapoly3477s0001' => 'mpo', 'MBI05_g31233_MAGBIO' => 'mbi', 'MBI09_g05946_MAGBIO' => 'mbi', 'MBI09_g05947_MAGBIO' => 'mbi', 'MBI17_g08346_MAGBIO' => 'mbi', 'MCO04G038' => 'mco', 'MCO09G370' => 'mco', 'MCO13G605' => 'mco', 'MD00G1075500' => 'mdo', 'MD03G1144300' => 'mdo', 'MD08G1236800' => 'mdo', 'MD13G1193300' => 'mdo', 'MD15G1428700' => 'mdo', 'Medtr1g112030' => 'mtr', 'Medtr1g112050' => 'mtr', 'Medtr2g006290' => 'mtr', 'Medtr2g086510' => 'mtr', 'Medtr4g053120' => 'mtr', 'Medtr5g006320' => 'mtr', 'Medtr8g088720' => 'mtr', 'MELO3C004712.2' => 'cme', 'MELO3C006533.2' => 'cme', 'MELO3C019438.2' => 'cme', 'MELO3C019440.2' => 'cme', 'MELO3C019441.2' => 'cme', 'MELO3C019895.2' => 'cme', 'Migut.B00811' => 'egut', 'Migut.D02447' => 'egut', 'Migut.F00875' => 'egut', 'Migut.N00186' => 'egut', 'Migut.N01051' => 'egut', 'Migut.N02491' => 'egut', 'Migut.O00784' => 'egut', 'MSTRG.12367' => 'ama', 'MSTRG.18756' => 'ama', 'MSTRG.21042' => 'ama', 'Nitab4.5_0000559g0040' => 'nta', 'Nitab4.5_0000667g0190' => 'nta', 'Nitab4.5_0000755g0160' => 'nta', 'Nitab4.5_0001216g0080' => 'nta', 'Nitab4.5_0004069g0040' => 'nta', 'Nitab4.5_0004129g0010' => 'nta', 'Nitab4.5_0005744g0030' => 'nta', 'Nitab4.5_0006996g0030' => 'nta', 'Nitab4.5_0008971g0040' => 'nta', 'Nitab4.5_0009769g0020' => 'nta', 'Nitab4.5_0009833g0010' => 'nta', 'Nitab4.5_0013140g0020' => 'nta', 'Nn003s41376' => 'nnu', 'Nn1g01857' => 'nnu', 'Nn1g03611' => 'nnu', 'Nn1g06853' => 'nnu', 'Nn3g18360' => 'nnu', 'Nn4g26328' => 'nnu', 'Nn5g27531' => 'nnu', 'Nn6g34899' => 'nnu', 'Nn7g36299' => 'nnu', 'Oeu021485.1' => 'oeu', 'Oeu022433.1' => 'oeu', 'Oeu032111.1' => 'oeu', 'Oeu051608.1' => 'oeu', 'Os01g0860601' => 'osa', 'Os03g0659200' => 'osa', 'Os03g0835900' => 'osa', 'Os04g0412200' => 'osa', 'Os05g0443500' => 'osa', 'Os07g0251500' => 'osa', 'Os08g0104600' => 'osa', 'Peaxi162Scf00003g00047' => 'pax', 'Peaxi162Scf00003g00052' => 'pax', 'Peaxi162Scf00003g00394' => 'pax', 'Peaxi162Scf00091g00621' => 'pax', 'Peaxi162Scf00152g00146' => 'pax', 'Peaxi162Scf00173g00025' => 'pax', 'Peaxi162Scf00195g00102' => 'pax', 'Peaxi162Scf00402g00013' => 'pax', 'Peaxi162Scf00519g00618' => 'pax', 'PGR004G2838' => 'pgr', 'PGR044G2275' => 'pgr', 'PGR102G1377' => 'pgr', 'PGR119G1245' => 'pgr', 'PGR142G4449' => 'pgr', 'PGSC0003DMG400004532' => 'stu', 'PGSC0003DMG400011950' => 'stu', 'PGSC0003DMG400023391' => 'stu', 'PGSC0003DMG400023985' => 'stu', 'PGSC0003DMG400026360' => 'stu', 'PGSC0003DMG400035711' => 'stu', 'PGSC0003DMG400037286' => 'stu', 'PGSC0003DMG402005881' => 'stu', 'Phvul.002G045400' => 'pvu', 'Phvul.006G216600' => 'pvu', 'Phvul.006G216700' => 'pvu', 'Phvul.006G216800' => 'pvu', 'Phvul.007G022500' => 'pvu', 'Phvul.011G094400' => 'pvu', 'Potri.001G470700' => 'ptr', 'Potri.003G015200' => 'ptr', 'Potri.004G202500' => 'ptr', 'Potri.004G218400' => 'ptr', 'Potri.008G020100' => 'ptr', 'Potri.008G153200' => 'ptr', 'Potri.009G163800' => 'ptr', 'Potri.010G087300' => 'ptr', 'Potri.010G239100' => 'ptr', 'Pp3c10_16100' => 'ppa', 'Pp3c10_16880' => 'ppa', 'Pp3c16_6230' => 'ppa', 'Pp3c17_18910' => 'ppa', 'Pp3c3_22119' => 'ppa', 'Pp3c3_22140' => 'ppa', 'Pp3c4_8159' => 'ppa', 'Pp3c4_8171' => 'ppa', 'Pp3c4_8330' => 'ppa', 'PRCOL_00004098' => 'pco', 'Prupe.1G013900' => 'ppe', 'Prupe.1G226300' => 'ppe', 'Prupe.1G573600' => 'ppe', 'Prupe.6G130100' => 'ppe', 'Psat3g090040' => 'psa', 'Psat4g210440' => 'psa', 'Psat6g231040' => 'psa', 'Psat6g231080' => 'psa', 'Psat7g063000' => 'psa', 'Psat7g188000' => 'psa', 'Psat7g188040' => 'psa', 'PSO017G0206' => 'pso', 'PSO170G0501' => 'pso', 'PSO170G6422' => 'pso', 'PSO210G7739' => 'pso', 'PSO339G1808' => 'pso', 'PSO339G6135' => 'pso', 'PSO384G0010' => 'pso', 'PSO384G0964' => 'pso', 'PSO761G0050' => 'pso', 'PSO782G4085' => 'pso', 'QL01p012264' => 'qlo', 'QL02p099491' => 'qlo', 'QL03p033868' => 'qlo', 'QL04p046678' => 'qlo', 'QL06p002448' => 'qlo', 'RcHm_v2.0_Chr4g0416181' => 'rch', 'RcHm_v2.0_Chr5g0044701' => 'rch', 'RcHm_v2.0_Chr6g0265781' => 'rch', 'RcHm_v2.0_Chr7g0221031' => 'rch', 'Rhsim04G0202000' => 'rsi', 'Rhsim11G0127300' => 'rsi', 'Rhsim13G0111800' => 'rsi', 'Sabra01G0165600' => 'sbr', 'Sabra03G0008300' => 'sbr', 'Sabra04G0136900' => 'sbr', 'Sabra08G0013400' => 'sbr', 'Sabra08G0116800' => 'sbr', 'Sabra09G0128000' => 'sbr', 'Sabra10G0055500' => 'sbr', 'Sabra10G0073300' => 'sbr', 'SalBow3G0385' => 'sbo', 'SalBow3G1119' => 'sbo', 'SalBow3G2005' => 'sbo', 'SalBow6G2563' => 'sbo', 'SalBow6G6386' => 'sbo', 'Sc06g0008800' => 'sci', 'Sc07g0004950' => 'sci', 'Sc09g0005340' => 'sci', 'Sc13g0004410' => 'sci', 'Sc21g0007090' => 'sci', 'Sed0009285' => 'sed', 'Sed0017583' => 'sed', 'Sed0019699' => 'sed', 'Sed0023107' => 'sed', 'SEGI_10916' => 'sgi', 'SEGI_16217' => 'sgi', 'SEGI_19466' => 'sgi', 'SEGI_41115' => 'sgi', 'SGA_v2.0_scaffold111G31534' => 'sas', 'SGA_v2.0_scaffold22G09864' => 'sas', 'SGA_v2.0_scaffold338G49219' => 'sas', 'SGA_v2.0_scaffold92G28298' => 'sas', 'SMO119G0064' => 'smo', 'SMO223G0038' => 'smo', 'SMO347G0584' => 'smo', 'SMO351G0010' => 'smo', 'SMO356G0404' => 'smo', 'Solyc01g103920.3' => 'sly', 'Solyc04g009710.2' => 'sly', 'Solyc05g055280.2' => 'sly', 'Solyc10g044520.3' => 'sly', 'Solyc10g075160.1' => 'sly', 'Solyc11g006910.3' => 'sly', 'Solyc11g068430.3' => 'sly', 'Sopen01g046310' => 'spe', 'Sopen03g001200' => 'spe', 'Sopen04g004830' => 'spe', 'Sopen05g033720' => 'spe', 'Sopen06g030740' => 'spe', 'Sopen10g013090' => 'spe', 'Sopen10g027630' => 'spe', 'Sopen10g027640' => 'spe', 'Sopen11g002820' => 'spe', 'Sopen11g027140' => 'spe', 'Sp1g09680' => 'spa', 'Sp2g03630' => 'spa', 'Sp4g10320' => 'spa', 'Sp6g33400' => 'spa', 'Sp7g13030' => 'spa', 'TAR365G0317' => 'tar', 'TAR376G0979' => 'tar', 'TAR623G1665' => 'tar', 'TAR633G2373' => 'tar', 'TAR636G1400' => 'tar', 'THA.LOC104800529' => 'tha', 'THA.LOC104808547' => 'tha', 'THA.LOC104809615' => 'tha', 'THA.LOC104815724' => 'tha', 'THA.LOC104818480' => 'tha', 'THA.LOC104819179' => 'tha', 'THA.LOC104822270' => 'tha', 'THA.LOC104826425' => 'tha', 'Thecc.02G089700' => 'tca', 'Thecc.04G232300' => 'tca', 'Thecc.09G283400' => 'tca', 'Thhalv10009020m.g' => 'esa', 'Thhalv10015506m.g' => 'esa', 'Thhalv10017364m.g' => 'esa', 'Thhalv10023742m.g' => 'esa', 'Thhalv10026483m.g' => 'esa', 'TPR.G17232' => 'tpr', 'TPR.G2133' => 'tpr', 'TPR.G2498' => 'tpr', 'TPR.G31942' => 'tpr', 'TPR.G37877' => 'tpr', 'TPR.G4571' => 'tpr', 'TWI14G1113' => 'twi', 'TWI15G0426' => 'twi', 'TWI31G1005' => 'twi', 'TWI38G0513' => 'twi', 'TWI38G1484' => 'twi', 'TWI73G1098' => 'twi', 'unitig_26.g10519' => 'ugi', 'unitig_736.g22395' => 'ugi', 'unitig_747.g21234' => 'ugi', 'unitig_747.g21942' => 'ugi', 'vmacro14351' => 'vma', 'VMungo0540G0082' => 'vmu', 'VMungo0540G0405' => 'vmu', 'VMungo0540G1486' => 'vmu', 'VMungo0540G1692' => 'vmu', 'VMungo0720G2473' => 'vmu', 'VMungo1127G1562' => 'vmu', 'VMungo1215G1918' => 'vmu', 'Zm00001eb052650' => 'zma', 'Zm00001eb063710' => 'zma', 'Zm00001eb083950' => 'zma', 'Zm00001eb174420' => 'zma', 'Zm00001eb260140' => 'zma', 'Zm00001eb260150' => 'zma', 'Zm00001eb260160' => 'zma', 'Zm00001eb348290' => 'zma', 'Zm00001eb366870' => 'zma', 'Zm00001eb421930' => 'zma' ), 'gf_id' => 'HOM05D001025', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001025' ), 'data_identifier' => 'HOM05D001025', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001025', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '592', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p22650' => 'bna', 'A01p29720' => 'bna', 'A03p26560' => 'bna', 'A03p68820' => 'bna', 'A04p20980' => 'bna', 'A06p07730' => 'bna', 'A07p18260' => 'bna', 'A08p33710' => 'bna', 'A09p16970' => 'bna', 'A10p27490' => 'bna', 'Aa31LG1G17300' => 'aar', 'Aa31LG1G3910' => 'aar', 'Aa31LG2G9630' => 'aar', 'Aa31LG5G8360' => 'aar', 'Aa31LG9G2410' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4699' => 'aag', 'Actinidia23512' => 'ach', 'Actinidia37080' => 'ach', 'Ah.01g020380' => 'amhyb', 'Ah.08g215710' => 'amhyb', 'Ah.09g225110' => 'amhyb', 'Ah.10g036680' => 'amhyb', 'AL1G21940' => 'aly', 'AL2G15540' => 'aly', 'AL4G21520' => 'aly', 'AL7G40960' => 'aly', 'Aqoxy2G01191' => 'aox', 'Aqoxy2G03393' => 'aox', 'Aqoxy4G02775' => 'aox', 'Aqoxy6G00058' => 'aox', 'arahy.Tifrunner.gnm1.ann1.9X74H2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CW3FX9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R485W7' => 'arhy', 'AT1G10960' => 'ath', 'AT1G60950' => 'ath', 'AT2G27510' => 'ath', 'AT4G14890' => 'ath', 'AT5G10000' => 'ath', 'ATR0665G624' => 'atr', 'ATR0697G138' => 'atr', 'ATR0776G046' => 'atr', 'ATR1134G135' => 'atr', 'Atru.chr12.1025' => 'acertr', 'Atru.chr3.3241' => 'acertr', 'Atru.chr4.2460' => 'acertr', 'AUR62007427' => 'cqu', 'AUR62010960' => 'cqu', 'AUR62012201' => 'cqu', 'AUR62021470' => 'cqu', 'AUR62022834' => 'cqu', 'AUR62033635' => 'cqu', 'AUR62036186' => 'cqu', 'BcaB01g03077' => 'bca', 'BcaB02g10093' => 'bca', 'BcaB04g20295' => 'bca', 'BcaB06g28147' => 'bca', 'BcaB07g31253' => 'bca', 'BcaC01g04946' => 'bca', 'BcaC02g10614' => 'bca', 'BcaC02g10885' => 'bca', 'BcaC04g19356' => 'bca', 'BcaC04g22297' => 'bca', 'BcaC05g24977' => 'bca', 'BcaC06g31823' => 'bca', 'BcaC07g38633' => 'bca', 'BcaC09g49353' => 'bca', 'BcaC09g50168' => 'bca', 'BcaNung00322' => 'bca', 'BcaNung04769' => 'bca', 'BolC1t02753H' => 'bol', 'BolC1t03721H' => 'bol', 'BolC3t15525H' => 'bol', 'BolC4t23903H' => 'bol', 'BolC4t24231H' => 'bol', 'BolC4t27209H' => 'bol', 'BolC5t29671H' => 'bol', 'BolC8t49044H' => 'bol', 'BolC9t54999H' => 'bol', 'BolC9t59517H' => 'bol', 'BraA01t02178Z' => 'bra', 'BraA01t03099Z' => 'bra', 'BraA03t11867Z' => 'bra', 'BraA04t17667Z' => 'bra', 'BraA07t29542Z' => 'bra', 'BraA08t35287Z' => 'bra', 'BraA09t37334Z' => 'bra', 'BraA10t44801Z' => 'bra', 'BraSC39t46181Z' => 'bra', 'C01p28240' => 'bna', 'C01p37530' => 'bna', 'C03p31820' => 'bna', 'C04p24080' => 'bna', 'C04p25790' => 'bna', 'C04p56770' => 'bna', 'C05p09310' => 'bna', 'C09p21010' => 'bna', 'C09p67560' => 'bna', 'CAN.G1324.7' => 'can', 'CAN.G1358.10' => 'can', 'CAN.G1550.2' => 'can', 'CAN.G186.56' => 'can', 'CAN.G1965.1' => 'can', 'CAN.G645.15' => 'can', 'CAN.G798.26' => 'can', 'CAN.G798.27' => 'can', 'CAN.G798.29' => 'can', 'CAN.G919.31' => 'can', 'CANSAT11G0133' => 'cansat', 'CANSAT11G1171' => 'cansat', 'CANSAT11G2056' => 'cansat', 'CANSAT56G1202' => 'cansat', 'CANSAT56G1514' => 'cansat', 'CANSAT78G0455' => 'cansat', 'CARHR011190' => 'chi', 'CARHR051980' => 'chi', 'CARHR120170' => 'chi', 'CARHR203310' => 'chi', 'CARHR221490' => 'chi', 'Carub.0001s1054' => 'cru', 'Carub.0002s0431' => 'cru', 'Carub.0004s0818' => 'cru', 'Carub.0006s0846' => 'cru', 'Carub.0007s2722' => 'cru', 'Ca_00058_v3' => 'car', 'Ca_17831_v3' => 'car', 'Ca_19408_v3' => 'car', 'Ca_24397_v3' => 'car', 'Ca_25664_v3' => 'car', 'CBR_g21818' => 'cbr', 'CBR_g31195' => 'cbr', 'CBR_g32282' => 'cbr', 'CBR_g39599' => 'cbr', 'CBR_g49410' => 'cbr', 'Cc01_g09120' => 'ccan', 'Cc01_g09130' => 'ccan', 'Cc02_g09630' => 'ccan', 'Cc02_g22810' => 'ccan', 'Cc03_g03810' => 'ccan', 'CDE02G3718' => 'cde', 'CDE04G3183' => 'cde', 'CDE07G1046' => 'cde', 'CDE08G0480' => 'cde', 'Cfa005493' => 'cfa', 'Cfa010312' => 'cfa', 'Cfa015648' => 'cfa', 'Ciclev10002793m.g' => 'ccl', 'Ciclev10003356m.g' => 'ccl', 'Ciclev10006141m.g' => 'ccl', 'Ciclev10016676m.g' => 'ccl', 'Ciclev10017081m.g' => 'ccl', 'Ciclev10029499m.g' => 'ccl', 'CiPaw.01G166300' => 'cil', 'CiPaw.06G145600' => 'cil', 'CiPaw.13G040100' => 'cil', 'CiPaw.13G135800' => 'cil', 'ClCG01G012230' => 'cla', 'ClCG05G009510' => 'cla', 'ClCG08G008270' => 'cla', 'COL.COLO4_11763' => 'col', 'COL.COLO4_19876' => 'col', 'COL.COLO4_21481' => 'col', 'Cpa.g.sc118.34' => 'cpa', 'Cpa.g.sc32.13' => 'cpa', 'Cpa.g.sc58.103' => 'cpa', 'Cre03.g183850' => 'cre', 'Cre06.g306350' => 'cre', 'Cre07.g334800' => 'cre', 'Cre12.g487900' => 'cre', 'Cre14.g626700' => 'cre', 'Cre16.g658400' => 'cre', 'Cre17.g700950' => 'cre', 'CsaV3_1G014830' => 'csa', 'CsaV3_3G013320' => 'csa', 'CsaV3_3G019210' => 'csa', 'CsaV3_3G019220' => 'csa', 'CsaV3_6G004230' => 'csa', 'CSS0003773' => 'camsi', 'CSS0004563' => 'camsi', 'CSS0013949' => 'camsi', 'CSS0025971' => 'camsi', 'CSS0028570' => 'camsi', 'CSS0033127' => 'camsi', 'CSS0036051' => 'camsi', 'CSS0040087' => 'camsi', 'CSS0043179' => 'camsi', 'DCAR_006161' => 'dca', 'DCAR_010351' => 'dca', 'DCAR_012197' => 'dca', 'DCAR_024162' => 'dca', 'Dinv01030' => 'din', 'Dinv10924' => 'din', 'Dinv11835' => 'din', 'Dinv22841' => 'din', 'Dinv42553' => 'din', 'Duzib052G0560' => 'dzi', 'Duzib132G0389' => 'dzi', 'Duzib150G1181' => 'dzi', 'Duzib168G0623' => 'dzi', 'Duzib170G1036' => 'dzi', 'Duzib212G0200' => 'dzi', 'Duzib248G0194' => 'dzi', 'ECA232G2193' => 'eca', 'ECA233G0302' => 'eca', 'ECA234G2813' => 'eca', 'ECA234G4866' => 'eca', 'ECA240G3932' => 'eca', 'ECA248G0385' => 'eca', 'EL10Ac2g04781' => 'bvu', 'EL10Ac3g06445' => 'bvu', 'EL10Ac7g15825' => 'bvu', 'EL10Ac8g18550' => 'bvu', 'Eucgr.B03849' => 'egr', 'Eucgr.I02744' => 'egr', 'Eucgr.J00264' => 'egr', 'Eucgr.J00493' => 'egr', 'FAN04G2181' => 'fan', 'FAN07G2666' => 'fan', 'FAN11G0024' => 'fan', 'FAN12G1105' => 'fan', 'FAN13G0302' => 'fan', 'FAN15G2781' => 'fan', 'FAN16G1274' => 'fan', 'FAN17G2988' => 'fan', 'FAN18G2621' => 'fan', 'FAN21G0013' => 'fan', 'FAN22G1211' => 'fan', 'FAN25G3626' => 'fan', 'FvH4_2g09491' => 'fve', 'FvH4_3g24910' => 'fve', 'FvH4_4g15630' => 'fve', 'FvH4_5g28820' => 'fve', 'Glyma.01G238000' => 'gma', 'Glyma.05G168400' => 'gma', 'Glyma.08G126800' => 'gma', 'Glyma.08G188500' => 'gma', 'Glyma.10G278900' => 'gma', 'Glyma.11G005700' => 'gma', 'Glyma.11G183300' => 'gma', 'Glyma.12G089200' => 'gma', 'Glyma.12G169400' => 'gma', 'Glyma.12G169500' => 'gma', 'Glyma.12G169600' => 'gma', 'Glyma.20G110800' => 'gma', 'Gohir.A03G192900' => 'ghi', 'Gohir.A03G193000' => 'ghi', 'Gohir.A05G080700' => 'ghi', 'Gohir.A09G216000' => 'ghi', 'Gohir.A12G027700' => 'ghi', 'Gohir.A13G036200' => 'ghi', 'Gohir.A13G222600' => 'ghi', 'Gohir.D02G213900' => 'ghi', 'Gohir.D02G214000' => 'ghi', 'Gohir.D05G083700' => 'ghi', 'Gohir.D05G083800' => 'ghi', 'Gohir.D05G083850' => 'ghi', 'Gohir.D08G015400' => 'ghi', 'Gohir.D09G218400' => 'ghi', 'Gohir.D12G027100' => 'ghi', 'Gohir.D13G034500' => 'ghi', 'Gohir.D13G227400' => 'ghi', 'Gorai.005G241800' => 'gra', 'Gorai.005G241900' => 'gra', 'Gorai.006G239400' => 'gra', 'Gorai.008G027600' => 'gra', 'Gorai.009G085400' => 'gra', 'Gorai.009G085500' => 'gra', 'Gorai.013G039000' => 'gra', 'Gorai.013G194800' => 'gra', 'Gorai.013G257900' => 'gra', 'GSVIVG01000982001' => 'vvi', 'GSVIVG01017981001' => 'vvi', 'HanXRQChr01g0024061' => 'han', 'HanXRQChr09g0247831' => 'han', 'HanXRQChr10g0294611' => 'han', 'HanXRQChr10g0294621' => 'han', 'HanXRQChr11g0346821' => 'han', 'HanXRQChr13g0397461' => 'han', 'HanXRQChr16g0513651' => 'han', 'HanXRQChr16g0513701' => 'han', 'Haze_00897' => 'cav', 'Haze_01745' => 'cav', 'Haze_02486' => 'cav', 'Haze_02487' => 'cav', 'Haze_23374' => 'cav', 'Hma1.2p1_0578F.1_g182520' => 'hma', 'Hma1.2p1_0602F.1_g187350' => 'hma', 'Hma1.2p1_0602F.1_g187360' => 'hma', 'Hma1.2p1_0874F.1_g231320' => 'hma', 'Hma1.2p1_1197F.1_g266210' => 'hma', 'Hma1.2p1_1197F.1_g266220' => 'hma', 'Hma1.2p1_2167F.1_g315895' => 'hma', 'Hma1.2p1_2190F.1_g316640' => 'hma', 'Hma1.2p1_3645F.1_g337153' => 'hma', 'HPP92_004907' => 'vpl', 'HPP92_012134' => 'vpl', 'HPP92_025136' => 'vpl', 'HPP92_026087' => 'vpl', 'Hund06782' => 'sun', 'Hund06784' => 'sun', 'Lalb_Chr01g0004861' => 'lal', 'Lalb_Chr02g0140591' => 'lal', 'Lalb_Chr02g0140611' => 'lal', 'Lalb_Chr03g0028101' => 'lal', 'Lalb_Chr07g0185791' => 'lal', 'Lalb_Chr12g0204491' => 'lal', 'Lalb_Chr13g0295671' => 'lal', 'Lalb_Chr19g0136461' => 'lal', 'Lalb_Chr21g0309191' => 'lal', 'Lj1g0028158' => 'lja', 'Lj1P236T38' => 'lonja', 'Lj2C32G2' => 'lonja', 'Lj2P944T8' => 'lonja', 'Lj2P963T15' => 'lonja', 'Lj3g0011788' => 'lja', 'Lj4g0025027' => 'lja', 'Lj5P255T36' => 'lonja', 'Lj6g0018866' => 'lja', 'Lj6P608T31' => 'lonja', 'LjContig00408g0008879' => 'lja', 'Lsat_1_v5_gn_5_105820' => 'lsa', 'Lsat_1_v5_gn_6_38800' => 'lsa', 'Lsat_1_v5_gn_7_67141' => 'lsa', 'Manes.04G003400' => 'mes', 'Manes.07G020000' => 'mes', 'Manes.07G020100' => 'mes', 'Manes.07G020150' => 'mes', 'Manes.10G061500' => 'mes', 'Manes.10G123200' => 'mes', 'Manes.11G161900' => 'mes', 'Manes.15G029300' => 'mes', 'Mapoly0071s0018' => 'mpo', 'Mapoly0082s0023' => 'mpo', 'Mapoly3477s0001' => 'mpo', 'MBI05_g31233_MAGBIO' => 'mbi', 'MBI09_g05946_MAGBIO' => 'mbi', 'MBI09_g05947_MAGBIO' => 'mbi', 'MBI17_g08346_MAGBIO' => 'mbi', 'MCO04G038' => 'mco', 'MCO09G370' => 'mco', 'MCO13G605' => 'mco', 'MD00G1075500' => 'mdo', 'MD03G1144300' => 'mdo', 'MD08G1236800' => 'mdo', 'MD13G1193300' => 'mdo', 'MD15G1428700' => 'mdo', 'Medtr1g112030' => 'mtr', 'Medtr1g112050' => 'mtr', 'Medtr2g006290' => 'mtr', 'Medtr2g086510' => 'mtr', 'Medtr4g053120' => 'mtr', 'Medtr5g006320' => 'mtr', 'Medtr8g088720' => 'mtr', 'MELO3C004712.2' => 'cme', 'MELO3C006533.2' => 'cme', 'MELO3C019438.2' => 'cme', 'MELO3C019440.2' => 'cme', 'MELO3C019441.2' => 'cme', 'MELO3C019895.2' => 'cme', 'Migut.B00811' => 'egut', 'Migut.D02447' => 'egut', 'Migut.F00875' => 'egut', 'Migut.N00186' => 'egut', 'Migut.N01051' => 'egut', 'Migut.N02491' => 'egut', 'Migut.O00784' => 'egut', 'MSTRG.12367' => 'ama', 'MSTRG.18756' => 'ama', 'MSTRG.21042' => 'ama', 'Nitab4.5_0000559g0040' => 'nta', 'Nitab4.5_0000667g0190' => 'nta', 'Nitab4.5_0000755g0160' => 'nta', 'Nitab4.5_0001216g0080' => 'nta', 'Nitab4.5_0004069g0040' => 'nta', 'Nitab4.5_0004129g0010' => 'nta', 'Nitab4.5_0005744g0030' => 'nta', 'Nitab4.5_0006996g0030' => 'nta', 'Nitab4.5_0008971g0040' => 'nta', 'Nitab4.5_0009769g0020' => 'nta', 'Nitab4.5_0009833g0010' => 'nta', 'Nitab4.5_0013140g0020' => 'nta', 'Nn003s41376' => 'nnu', 'Nn1g01857' => 'nnu', 'Nn1g03611' => 'nnu', 'Nn1g06853' => 'nnu', 'Nn3g18360' => 'nnu', 'Nn4g26328' => 'nnu', 'Nn5g27531' => 'nnu', 'Nn6g34899' => 'nnu', 'Nn7g36299' => 'nnu', 'Oeu021485.1' => 'oeu', 'Oeu022433.1' => 'oeu', 'Oeu032111.1' => 'oeu', 'Oeu051608.1' => 'oeu', 'Os01g0860601' => 'osa', 'Os03g0659200' => 'osa', 'Os03g0835900' => 'osa', 'Os04g0412200' => 'osa', 'Os05g0443500' => 'osa', 'Os07g0251500' => 'osa', 'Os08g0104600' => 'osa', 'Peaxi162Scf00003g00047' => 'pax', 'Peaxi162Scf00003g00052' => 'pax', 'Peaxi162Scf00003g00394' => 'pax', 'Peaxi162Scf00091g00621' => 'pax', 'Peaxi162Scf00152g00146' => 'pax', 'Peaxi162Scf00173g00025' => 'pax', 'Peaxi162Scf00195g00102' => 'pax', 'Peaxi162Scf00402g00013' => 'pax', 'Peaxi162Scf00519g00618' => 'pax', 'PGR004G2838' => 'pgr', 'PGR044G2275' => 'pgr', 'PGR102G1377' => 'pgr', 'PGR119G1245' => 'pgr', 'PGR142G4449' => 'pgr', 'PGSC0003DMG400004532' => 'stu', 'PGSC0003DMG400011950' => 'stu', 'PGSC0003DMG400023391' => 'stu', 'PGSC0003DMG400023985' => 'stu', 'PGSC0003DMG400026360' => 'stu', 'PGSC0003DMG400035711' => 'stu', 'PGSC0003DMG400037286' => 'stu', 'PGSC0003DMG402005881' => 'stu', 'Phvul.002G045400' => 'pvu', 'Phvul.006G216600' => 'pvu', 'Phvul.006G216700' => 'pvu', 'Phvul.006G216800' => 'pvu', 'Phvul.007G022500' => 'pvu', 'Phvul.011G094400' => 'pvu', 'Potri.001G470700' => 'ptr', 'Potri.003G015200' => 'ptr', 'Potri.004G202500' => 'ptr', 'Potri.004G218400' => 'ptr', 'Potri.008G020100' => 'ptr', 'Potri.008G153200' => 'ptr', 'Potri.009G163800' => 'ptr', 'Potri.010G087300' => 'ptr', 'Potri.010G239100' => 'ptr', 'Pp3c10_16100' => 'ppa', 'Pp3c10_16880' => 'ppa', 'Pp3c16_6230' => 'ppa', 'Pp3c17_18910' => 'ppa', 'Pp3c3_22119' => 'ppa', 'Pp3c3_22140' => 'ppa', 'Pp3c4_8159' => 'ppa', 'Pp3c4_8171' => 'ppa', 'Pp3c4_8330' => 'ppa', 'PRCOL_00004098' => 'pco', 'Prupe.1G013900' => 'ppe', 'Prupe.1G226300' => 'ppe', 'Prupe.1G573600' => 'ppe', 'Prupe.6G130100' => 'ppe', 'Psat3g090040' => 'psa', 'Psat4g210440' => 'psa', 'Psat6g231040' => 'psa', 'Psat6g231080' => 'psa', 'Psat7g063000' => 'psa', 'Psat7g188000' => 'psa', 'Psat7g188040' => 'psa', 'PSO017G0206' => 'pso', 'PSO170G0501' => 'pso', 'PSO170G6422' => 'pso', 'PSO210G7739' => 'pso', 'PSO339G1808' => 'pso', 'PSO339G6135' => 'pso', 'PSO384G0010' => 'pso', 'PSO384G0964' => 'pso', 'PSO761G0050' => 'pso', 'PSO782G4085' => 'pso', 'QL01p012264' => 'qlo', 'QL02p099491' => 'qlo', 'QL03p033868' => 'qlo', 'QL04p046678' => 'qlo', 'QL06p002448' => 'qlo', 'RcHm_v2.0_Chr4g0416181' => 'rch', 'RcHm_v2.0_Chr5g0044701' => 'rch', 'RcHm_v2.0_Chr6g0265781' => 'rch', 'RcHm_v2.0_Chr7g0221031' => 'rch', 'Rhsim04G0202000' => 'rsi', 'Rhsim11G0127300' => 'rsi', 'Rhsim13G0111800' => 'rsi', 'Sabra01G0165600' => 'sbr', 'Sabra03G0008300' => 'sbr', 'Sabra04G0136900' => 'sbr', 'Sabra08G0013400' => 'sbr', 'Sabra08G0116800' => 'sbr', 'Sabra09G0128000' => 'sbr', 'Sabra10G0055500' => 'sbr', 'Sabra10G0073300' => 'sbr', 'SalBow3G0385' => 'sbo', 'SalBow3G1119' => 'sbo', 'SalBow3G2005' => 'sbo', 'SalBow6G2563' => 'sbo', 'SalBow6G6386' => 'sbo', 'Sc06g0008800' => 'sci', 'Sc07g0004950' => 'sci', 'Sc09g0005340' => 'sci', 'Sc13g0004410' => 'sci', 'Sc21g0007090' => 'sci', 'Sed0009285' => 'sed', 'Sed0017583' => 'sed', 'Sed0019699' => 'sed', 'Sed0023107' => 'sed', 'SEGI_10916' => 'sgi', 'SEGI_16217' => 'sgi', 'SEGI_19466' => 'sgi', 'SEGI_41115' => 'sgi', 'SGA_v2.0_scaffold111G31534' => 'sas', 'SGA_v2.0_scaffold22G09864' => 'sas', 'SGA_v2.0_scaffold338G49219' => 'sas', 'SGA_v2.0_scaffold92G28298' => 'sas', 'SMO119G0064' => 'smo', 'SMO223G0038' => 'smo', 'SMO347G0584' => 'smo', 'SMO351G0010' => 'smo', 'SMO356G0404' => 'smo', 'Solyc01g103920.3' => 'sly', 'Solyc04g009710.2' => 'sly', 'Solyc05g055280.2' => 'sly', 'Solyc10g044520.3' => 'sly', 'Solyc10g075160.1' => 'sly', 'Solyc11g006910.3' => 'sly', 'Solyc11g068430.3' => 'sly', 'Sopen01g046310' => 'spe', 'Sopen03g001200' => 'spe', 'Sopen04g004830' => 'spe', 'Sopen05g033720' => 'spe', 'Sopen06g030740' => 'spe', 'Sopen10g013090' => 'spe', 'Sopen10g027630' => 'spe', 'Sopen10g027640' => 'spe', 'Sopen11g002820' => 'spe', 'Sopen11g027140' => 'spe', 'Sp1g09680' => 'spa', 'Sp2g03630' => 'spa', 'Sp4g10320' => 'spa', 'Sp6g33400' => 'spa', 'Sp7g13030' => 'spa', 'TAR365G0317' => 'tar', 'TAR376G0979' => 'tar', 'TAR623G1665' => 'tar', 'TAR633G2373' => 'tar', 'TAR636G1400' => 'tar', 'THA.LOC104800529' => 'tha', 'THA.LOC104808547' => 'tha', 'THA.LOC104809615' => 'tha', 'THA.LOC104815724' => 'tha', 'THA.LOC104818480' => 'tha', 'THA.LOC104819179' => 'tha', 'THA.LOC104822270' => 'tha', 'THA.LOC104826425' => 'tha', 'Thecc.02G089700' => 'tca', 'Thecc.04G232300' => 'tca', 'Thecc.09G283400' => 'tca', 'Thhalv10009020m.g' => 'esa', 'Thhalv10015506m.g' => 'esa', 'Thhalv10017364m.g' => 'esa', 'Thhalv10023742m.g' => 'esa', 'Thhalv10026483m.g' => 'esa', 'TPR.G17232' => 'tpr', 'TPR.G2133' => 'tpr', 'TPR.G2498' => 'tpr', 'TPR.G31942' => 'tpr', 'TPR.G37877' => 'tpr', 'TPR.G4571' => 'tpr', 'TWI14G1113' => 'twi', 'TWI15G0426' => 'twi', 'TWI31G1005' => 'twi', 'TWI38G0513' => 'twi', 'TWI38G1484' => 'twi', 'TWI73G1098' => 'twi', 'unitig_26.g10519' => 'ugi', 'unitig_736.g22395' => 'ugi', 'unitig_747.g21234' => 'ugi', 'unitig_747.g21942' => 'ugi', 'vmacro14351' => 'vma', 'VMungo0540G0082' => 'vmu', 'VMungo0540G0405' => 'vmu', 'VMungo0540G1486' => 'vmu', 'VMungo0540G1692' => 'vmu', 'VMungo0720G2473' => 'vmu', 'VMungo1127G1562' => 'vmu', 'VMungo1215G1918' => 'vmu', 'Zm00001eb052650' => 'zma', 'Zm00001eb063710' => 'zma', 'Zm00001eb083950' => 'zma', 'Zm00001eb174420' => 'zma', 'Zm00001eb260140' => 'zma', 'Zm00001eb260150' => 'zma', 'Zm00001eb260160' => 'zma', 'Zm00001eb348290' => 'zma', 'Zm00001eb366870' => 'zma', 'Zm00001eb421930' => 'zma' ) $gf_id = 'HOM05D001025' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001025' ) $data_identifier = 'HOM05D001025' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 19, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 2, 'amhyb' => (int) 4, 'aly' => (int) 4, 'aox' => (int) 4, 'arhy' => (int) 3, 'ath' => (int) 5, 'atr' => (int) 4, 'acertr' => (int) 3, 'cqu' => (int) 7, 'bca' => (int) 17, 'bol' => (int) 10, 'bra' => (int) 9, 'can' => (int) 10, 'cansat' => (int) 6, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 5, 'cbr' => (int) 5, 'ccan' => (int) 5, 'cde' => (int) 4, 'cfa' => (int) 3, 'ccl' => (int) 6, 'cil' => (int) 4, 'cla' => (int) 3, 'col' => (int) 3, 'cpa' => (int) 3, 'cre' => (int) 7, 'csa' => (int) 5, 'camsi' => (int) 9, 'dca' => (int) 4, 'din' => (int) 5, 'dzi' => (int) 7, 'eca' => (int) 6, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 12, 'fve' => (int) 4, 'gma' => (int) 12, 'ghi' => (int) 17, 'gra' => (int) 9, 'vvi' => (int) 2, 'han' => (int) 8, 'cav' => (int) 5, 'hma' => (int) 9, 'vpl' => (int) 4, 'sun' => (int) 2, 'lal' => (int) 9, 'lja' => (int) 5, 'lonja' => (int) 6, 'lsa' => (int) 3, 'mes' => (int) 8, 'mpo' => (int) 3, 'mbi' => (int) 4, 'mco' => (int) 3, 'mdo' => (int) 5, 'mtr' => (int) 7, 'cme' => (int) 6, 'egut' => (int) 7, 'ama' => (int) 3, 'nta' => (int) 12, 'nnu' => (int) 9, 'oeu' => (int) 4, 'osa' => (int) 7, 'pax' => (int) 9, 'pgr' => (int) 5, 'stu' => (int) 8, 'pvu' => (int) 6, 'ptr' => (int) 9, 'ppa' => (int) 9, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 7, 'pso' => (int) 10, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 3, 'sbr' => (int) 8, 'sbo' => (int) 5, 'sci' => (int) 5, 'sed' => (int) 4, 'sgi' => (int) 4, 'sas' => (int) 4, 'smo' => (int) 5, 'sly' => (int) 7, 'spe' => (int) 10, 'spa' => (int) 5, 'tar' => (int) 5, 'tha' => (int) 8, 'tca' => (int) 3, 'esa' => (int) 5, 'tpr' => (int) 6, 'twi' => (int) 6, 'ugi' => (int) 4, 'vma' => (int) 1, 'vmu' => (int) 7, 'zma' => (int) 10 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb421930' $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' => 'HOM05D001025', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '592', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p22650' => 'bna', 'A01p29720' => 'bna', 'A03p26560' => 'bna', 'A03p68820' => 'bna', 'A04p20980' => 'bna', 'A06p07730' => 'bna', 'A07p18260' => 'bna', 'A08p33710' => 'bna', 'A09p16970' => 'bna', 'A10p27490' => 'bna', 'Aa31LG1G17300' => 'aar', 'Aa31LG1G3910' => 'aar', 'Aa31LG2G9630' => 'aar', 'Aa31LG5G8360' => 'aar', 'Aa31LG9G2410' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4699' => 'aag', 'Actinidia23512' => 'ach', 'Actinidia37080' => 'ach', 'Ah.01g020380' => 'amhyb', 'Ah.08g215710' => 'amhyb', 'Ah.09g225110' => 'amhyb', 'Ah.10g036680' => 'amhyb', 'AL1G21940' => 'aly', 'AL2G15540' => 'aly', 'AL4G21520' => 'aly', 'AL7G40960' => 'aly', 'Aqoxy2G01191' => 'aox', 'Aqoxy2G03393' => 'aox', 'Aqoxy4G02775' => 'aox', 'Aqoxy6G00058' => 'aox', 'arahy.Tifrunner.gnm1.ann1.9X74H2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CW3FX9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R485W7' => 'arhy', 'AT1G10960' => 'ath', 'AT1G60950' => 'ath', 'AT2G27510' => 'ath', 'AT4G14890' => 'ath', 'AT5G10000' => 'ath', 'ATR0665G624' => 'atr', 'ATR0697G138' => 'atr', 'ATR0776G046' => 'atr', 'ATR1134G135' => 'atr', 'Atru.chr12.1025' => 'acertr', 'Atru.chr3.3241' => 'acertr', 'Atru.chr4.2460' => 'acertr', 'AUR62007427' => 'cqu', 'AUR62010960' => 'cqu', 'AUR62012201' => 'cqu', 'AUR62021470' => 'cqu', 'AUR62022834' => 'cqu', 'AUR62033635' => 'cqu', 'AUR62036186' => 'cqu', 'BcaB01g03077' => 'bca', 'BcaB02g10093' => 'bca', 'BcaB04g20295' => 'bca', 'BcaB06g28147' => 'bca', 'BcaB07g31253' => 'bca', 'BcaC01g04946' => 'bca', 'BcaC02g10614' => 'bca', 'BcaC02g10885' => 'bca', 'BcaC04g19356' => 'bca', 'BcaC04g22297' => 'bca', 'BcaC05g24977' => 'bca', 'BcaC06g31823' => 'bca', 'BcaC07g38633' => 'bca', 'BcaC09g49353' => 'bca', 'BcaC09g50168' => 'bca', 'BcaNung00322' => 'bca', 'BcaNung04769' => 'bca', 'BolC1t02753H' => 'bol', 'BolC1t03721H' => 'bol', 'BolC3t15525H' => 'bol', 'BolC4t23903H' => 'bol', 'BolC4t24231H' => 'bol', 'BolC4t27209H' => 'bol', 'BolC5t29671H' => 'bol', 'BolC8t49044H' => 'bol', 'BolC9t54999H' => 'bol', 'BolC9t59517H' => 'bol', 'BraA01t02178Z' => 'bra', 'BraA01t03099Z' => 'bra', 'BraA03t11867Z' => 'bra', 'BraA04t17667Z' => 'bra', 'BraA07t29542Z' => 'bra', 'BraA08t35287Z' => 'bra', 'BraA09t37334Z' => 'bra', 'BraA10t44801Z' => 'bra', 'BraSC39t46181Z' => 'bra', 'C01p28240' => 'bna', 'C01p37530' => 'bna', 'C03p31820' => 'bna', 'C04p24080' => 'bna', 'C04p25790' => 'bna', 'C04p56770' => 'bna', 'C05p09310' => 'bna', 'C09p21010' => 'bna', 'C09p67560' => 'bna', 'CAN.G1324.7' => 'can', 'CAN.G1358.10' => 'can', 'CAN.G1550.2' => 'can', 'CAN.G186.56' => 'can', 'CAN.G1965.1' => 'can', 'CAN.G645.15' => 'can', 'CAN.G798.26' => 'can', 'CAN.G798.27' => 'can', 'CAN.G798.29' => 'can', 'CAN.G919.31' => 'can', 'CANSAT11G0133' => 'cansat', 'CANSAT11G1171' => 'cansat', 'CANSAT11G2056' => 'cansat', 'CANSAT56G1202' => 'cansat', 'CANSAT56G1514' => 'cansat', 'CANSAT78G0455' => 'cansat', 'CARHR011190' => 'chi', 'CARHR051980' => 'chi', 'CARHR120170' => 'chi', 'CARHR203310' => 'chi', 'CARHR221490' => 'chi', 'Carub.0001s1054' => 'cru', 'Carub.0002s0431' => 'cru', 'Carub.0004s0818' => 'cru', 'Carub.0006s0846' => 'cru', 'Carub.0007s2722' => 'cru', 'Ca_00058_v3' => 'car', 'Ca_17831_v3' => 'car', 'Ca_19408_v3' => 'car', 'Ca_24397_v3' => 'car', 'Ca_25664_v3' => 'car', 'CBR_g21818' => 'cbr', 'CBR_g31195' => 'cbr', 'CBR_g32282' => 'cbr', 'CBR_g39599' => 'cbr', 'CBR_g49410' => 'cbr', 'Cc01_g09120' => 'ccan', 'Cc01_g09130' => 'ccan', 'Cc02_g09630' => 'ccan', 'Cc02_g22810' => 'ccan', 'Cc03_g03810' => 'ccan', 'CDE02G3718' => 'cde', 'CDE04G3183' => 'cde', 'CDE07G1046' => 'cde', 'CDE08G0480' => 'cde', 'Cfa005493' => 'cfa', 'Cfa010312' => 'cfa', 'Cfa015648' => 'cfa', 'Ciclev10002793m.g' => 'ccl', 'Ciclev10003356m.g' => 'ccl', 'Ciclev10006141m.g' => 'ccl', 'Ciclev10016676m.g' => 'ccl', 'Ciclev10017081m.g' => 'ccl', 'Ciclev10029499m.g' => 'ccl', 'CiPaw.01G166300' => 'cil', 'CiPaw.06G145600' => 'cil', 'CiPaw.13G040100' => 'cil', 'CiPaw.13G135800' => 'cil', 'ClCG01G012230' => 'cla', 'ClCG05G009510' => 'cla', 'ClCG08G008270' => 'cla', 'COL.COLO4_11763' => 'col', 'COL.COLO4_19876' => 'col', 'COL.COLO4_21481' => 'col', 'Cpa.g.sc118.34' => 'cpa', 'Cpa.g.sc32.13' => 'cpa', 'Cpa.g.sc58.103' => 'cpa', 'Cre03.g183850' => 'cre', 'Cre06.g306350' => 'cre', 'Cre07.g334800' => 'cre', 'Cre12.g487900' => 'cre', 'Cre14.g626700' => 'cre', 'Cre16.g658400' => 'cre', 'Cre17.g700950' => 'cre', 'CsaV3_1G014830' => 'csa', 'CsaV3_3G013320' => 'csa', 'CsaV3_3G019210' => 'csa', 'CsaV3_3G019220' => 'csa', 'CsaV3_6G004230' => 'csa', 'CSS0003773' => 'camsi', 'CSS0004563' => 'camsi', 'CSS0013949' => 'camsi', 'CSS0025971' => 'camsi', 'CSS0028570' => 'camsi', 'CSS0033127' => 'camsi', 'CSS0036051' => 'camsi', 'CSS0040087' => 'camsi', 'CSS0043179' => 'camsi', 'DCAR_006161' => 'dca', 'DCAR_010351' => 'dca', 'DCAR_012197' => 'dca', 'DCAR_024162' => 'dca', 'Dinv01030' => 'din', 'Dinv10924' => 'din', 'Dinv11835' => 'din', 'Dinv22841' => 'din', 'Dinv42553' => 'din', 'Duzib052G0560' => 'dzi', 'Duzib132G0389' => 'dzi', 'Duzib150G1181' => 'dzi', 'Duzib168G0623' => 'dzi', 'Duzib170G1036' => 'dzi', 'Duzib212G0200' => 'dzi', 'Duzib248G0194' => 'dzi', 'ECA232G2193' => 'eca', 'ECA233G0302' => 'eca', 'ECA234G2813' => 'eca', 'ECA234G4866' => 'eca', 'ECA240G3932' => 'eca', 'ECA248G0385' => 'eca', 'EL10Ac2g04781' => 'bvu', 'EL10Ac3g06445' => 'bvu', 'EL10Ac7g15825' => 'bvu', 'EL10Ac8g18550' => 'bvu', 'Eucgr.B03849' => 'egr', 'Eucgr.I02744' => 'egr', 'Eucgr.J00264' => 'egr', 'Eucgr.J00493' => 'egr', 'FAN04G2181' => 'fan', 'FAN07G2666' => 'fan', 'FAN11G0024' => 'fan', 'FAN12G1105' => 'fan', 'FAN13G0302' => 'fan', 'FAN15G2781' => 'fan', 'FAN16G1274' => 'fan', 'FAN17G2988' => 'fan', 'FAN18G2621' => 'fan', 'FAN21G0013' => 'fan', 'FAN22G1211' => 'fan', 'FAN25G3626' => 'fan', 'FvH4_2g09491' => 'fve', 'FvH4_3g24910' => 'fve', 'FvH4_4g15630' => 'fve', 'FvH4_5g28820' => 'fve', 'Glyma.01G238000' => 'gma', 'Glyma.05G168400' => 'gma', 'Glyma.08G126800' => 'gma', 'Glyma.08G188500' => 'gma', 'Glyma.10G278900' => 'gma', 'Glyma.11G005700' => 'gma', 'Glyma.11G183300' => 'gma', 'Glyma.12G089200' => 'gma', 'Glyma.12G169400' => 'gma', 'Glyma.12G169500' => 'gma', 'Glyma.12G169600' => 'gma', 'Glyma.20G110800' => 'gma', 'Gohir.A03G192900' => 'ghi', 'Gohir.A03G193000' => 'ghi', 'Gohir.A05G080700' => 'ghi', 'Gohir.A09G216000' => 'ghi', 'Gohir.A12G027700' => 'ghi', 'Gohir.A13G036200' => 'ghi', 'Gohir.A13G222600' => 'ghi', 'Gohir.D02G213900' => 'ghi', 'Gohir.D02G214000' => 'ghi', 'Gohir.D05G083700' => 'ghi', 'Gohir.D05G083800' => 'ghi', 'Gohir.D05G083850' => 'ghi', 'Gohir.D08G015400' => 'ghi', 'Gohir.D09G218400' => 'ghi', 'Gohir.D12G027100' => 'ghi', 'Gohir.D13G034500' => 'ghi', 'Gohir.D13G227400' => 'ghi', 'Gorai.005G241800' => 'gra', 'Gorai.005G241900' => 'gra', 'Gorai.006G239400' => 'gra', 'Gorai.008G027600' => 'gra', 'Gorai.009G085400' => 'gra', 'Gorai.009G085500' => 'gra', 'Gorai.013G039000' => 'gra', 'Gorai.013G194800' => 'gra', 'Gorai.013G257900' => 'gra', 'GSVIVG01000982001' => 'vvi', 'GSVIVG01017981001' => 'vvi', 'HanXRQChr01g0024061' => 'han', 'HanXRQChr09g0247831' => 'han', 'HanXRQChr10g0294611' => 'han', 'HanXRQChr10g0294621' => 'han', 'HanXRQChr11g0346821' => 'han', 'HanXRQChr13g0397461' => 'han', 'HanXRQChr16g0513651' => 'han', 'HanXRQChr16g0513701' => 'han', 'Haze_00897' => 'cav', 'Haze_01745' => 'cav', 'Haze_02486' => 'cav', 'Haze_02487' => 'cav', 'Haze_23374' => 'cav', 'Hma1.2p1_0578F.1_g182520' => 'hma', 'Hma1.2p1_0602F.1_g187350' => 'hma', 'Hma1.2p1_0602F.1_g187360' => 'hma', 'Hma1.2p1_0874F.1_g231320' => 'hma', 'Hma1.2p1_1197F.1_g266210' => 'hma', 'Hma1.2p1_1197F.1_g266220' => 'hma', 'Hma1.2p1_2167F.1_g315895' => 'hma', 'Hma1.2p1_2190F.1_g316640' => 'hma', 'Hma1.2p1_3645F.1_g337153' => 'hma', 'HPP92_004907' => 'vpl', 'HPP92_012134' => 'vpl', 'HPP92_025136' => 'vpl', 'HPP92_026087' => 'vpl', 'Hund06782' => 'sun', 'Hund06784' => 'sun', 'Lalb_Chr01g0004861' => 'lal', 'Lalb_Chr02g0140591' => 'lal', 'Lalb_Chr02g0140611' => 'lal', 'Lalb_Chr03g0028101' => 'lal', 'Lalb_Chr07g0185791' => 'lal', 'Lalb_Chr12g0204491' => 'lal', 'Lalb_Chr13g0295671' => 'lal', 'Lalb_Chr19g0136461' => 'lal', 'Lalb_Chr21g0309191' => 'lal', 'Lj1g0028158' => 'lja', 'Lj1P236T38' => 'lonja', 'Lj2C32G2' => 'lonja', 'Lj2P944T8' => 'lonja', 'Lj2P963T15' => 'lonja', 'Lj3g0011788' => 'lja', 'Lj4g0025027' => 'lja', 'Lj5P255T36' => 'lonja', 'Lj6g0018866' => 'lja', 'Lj6P608T31' => 'lonja', 'LjContig00408g0008879' => 'lja', 'Lsat_1_v5_gn_5_105820' => 'lsa', 'Lsat_1_v5_gn_6_38800' => 'lsa', 'Lsat_1_v5_gn_7_67141' => 'lsa', 'Manes.04G003400' => 'mes', 'Manes.07G020000' => 'mes', 'Manes.07G020100' => 'mes', 'Manes.07G020150' => 'mes', 'Manes.10G061500' => 'mes', 'Manes.10G123200' => 'mes', 'Manes.11G161900' => 'mes', 'Manes.15G029300' => 'mes', 'Mapoly0071s0018' => 'mpo', 'Mapoly0082s0023' => 'mpo', 'Mapoly3477s0001' => 'mpo', 'MBI05_g31233_MAGBIO' => 'mbi', 'MBI09_g05946_MAGBIO' => 'mbi', 'MBI09_g05947_MAGBIO' => 'mbi', 'MBI17_g08346_MAGBIO' => 'mbi', 'MCO04G038' => 'mco', 'MCO09G370' => 'mco', 'MCO13G605' => 'mco', 'MD00G1075500' => 'mdo', 'MD03G1144300' => 'mdo', 'MD08G1236800' => 'mdo', 'MD13G1193300' => 'mdo', 'MD15G1428700' => 'mdo', 'Medtr1g112030' => 'mtr', 'Medtr1g112050' => 'mtr', 'Medtr2g006290' => 'mtr', 'Medtr2g086510' => 'mtr', 'Medtr4g053120' => 'mtr', 'Medtr5g006320' => 'mtr', 'Medtr8g088720' => 'mtr', 'MELO3C004712.2' => 'cme', 'MELO3C006533.2' => 'cme', 'MELO3C019438.2' => 'cme', 'MELO3C019440.2' => 'cme', 'MELO3C019441.2' => 'cme', 'MELO3C019895.2' => 'cme', 'Migut.B00811' => 'egut', 'Migut.D02447' => 'egut', 'Migut.F00875' => 'egut', 'Migut.N00186' => 'egut', 'Migut.N01051' => 'egut', 'Migut.N02491' => 'egut', 'Migut.O00784' => 'egut', 'MSTRG.12367' => 'ama', 'MSTRG.18756' => 'ama', 'MSTRG.21042' => 'ama', 'Nitab4.5_0000559g0040' => 'nta', 'Nitab4.5_0000667g0190' => 'nta', 'Nitab4.5_0000755g0160' => 'nta', 'Nitab4.5_0001216g0080' => 'nta', 'Nitab4.5_0004069g0040' => 'nta', 'Nitab4.5_0004129g0010' => 'nta', 'Nitab4.5_0005744g0030' => 'nta', 'Nitab4.5_0006996g0030' => 'nta', 'Nitab4.5_0008971g0040' => 'nta', 'Nitab4.5_0009769g0020' => 'nta', 'Nitab4.5_0009833g0010' => 'nta', 'Nitab4.5_0013140g0020' => 'nta', 'Nn003s41376' => 'nnu', 'Nn1g01857' => 'nnu', 'Nn1g03611' => 'nnu', 'Nn1g06853' => 'nnu', 'Nn3g18360' => 'nnu', 'Nn4g26328' => 'nnu', 'Nn5g27531' => 'nnu', 'Nn6g34899' => 'nnu', 'Nn7g36299' => 'nnu', 'Oeu021485.1' => 'oeu', 'Oeu022433.1' => 'oeu', 'Oeu032111.1' => 'oeu', 'Oeu051608.1' => 'oeu', 'Os01g0860601' => 'osa', 'Os03g0659200' => 'osa', 'Os03g0835900' => 'osa', 'Os04g0412200' => 'osa', 'Os05g0443500' => 'osa', 'Os07g0251500' => 'osa', 'Os08g0104600' => 'osa', 'Peaxi162Scf00003g00047' => 'pax', 'Peaxi162Scf00003g00052' => 'pax', 'Peaxi162Scf00003g00394' => 'pax', 'Peaxi162Scf00091g00621' => 'pax', 'Peaxi162Scf00152g00146' => 'pax', 'Peaxi162Scf00173g00025' => 'pax', 'Peaxi162Scf00195g00102' => 'pax', 'Peaxi162Scf00402g00013' => 'pax', 'Peaxi162Scf00519g00618' => 'pax', 'PGR004G2838' => 'pgr', 'PGR044G2275' => 'pgr', 'PGR102G1377' => 'pgr', 'PGR119G1245' => 'pgr', 'PGR142G4449' => 'pgr', 'PGSC0003DMG400004532' => 'stu', 'PGSC0003DMG400011950' => 'stu', 'PGSC0003DMG400023391' => 'stu', 'PGSC0003DMG400023985' => 'stu', 'PGSC0003DMG400026360' => 'stu', 'PGSC0003DMG400035711' => 'stu', 'PGSC0003DMG400037286' => 'stu', 'PGSC0003DMG402005881' => 'stu', 'Phvul.002G045400' => 'pvu', 'Phvul.006G216600' => 'pvu', 'Phvul.006G216700' => 'pvu', 'Phvul.006G216800' => 'pvu', 'Phvul.007G022500' => 'pvu', 'Phvul.011G094400' => 'pvu', 'Potri.001G470700' => 'ptr', 'Potri.003G015200' => 'ptr', 'Potri.004G202500' => 'ptr', 'Potri.004G218400' => 'ptr', 'Potri.008G020100' => 'ptr', 'Potri.008G153200' => 'ptr', 'Potri.009G163800' => 'ptr', 'Potri.010G087300' => 'ptr', 'Potri.010G239100' => 'ptr', 'Pp3c10_16100' => 'ppa', 'Pp3c10_16880' => 'ppa', 'Pp3c16_6230' => 'ppa', 'Pp3c17_18910' => 'ppa', 'Pp3c3_22119' => 'ppa', 'Pp3c3_22140' => 'ppa', 'Pp3c4_8159' => 'ppa', 'Pp3c4_8171' => 'ppa', 'Pp3c4_8330' => 'ppa', 'PRCOL_00004098' => 'pco', 'Prupe.1G013900' => 'ppe', 'Prupe.1G226300' => 'ppe', 'Prupe.1G573600' => 'ppe', 'Prupe.6G130100' => 'ppe', 'Psat3g090040' => 'psa', 'Psat4g210440' => 'psa', 'Psat6g231040' => 'psa', 'Psat6g231080' => 'psa', 'Psat7g063000' => 'psa', 'Psat7g188000' => 'psa', 'Psat7g188040' => 'psa', 'PSO017G0206' => 'pso', 'PSO170G0501' => 'pso', 'PSO170G6422' => 'pso', 'PSO210G7739' => 'pso', 'PSO339G1808' => 'pso', 'PSO339G6135' => 'pso', 'PSO384G0010' => 'pso', 'PSO384G0964' => 'pso', 'PSO761G0050' => 'pso', 'PSO782G4085' => 'pso', 'QL01p012264' => 'qlo', 'QL02p099491' => 'qlo', 'QL03p033868' => 'qlo', 'QL04p046678' => 'qlo', 'QL06p002448' => 'qlo', 'RcHm_v2.0_Chr4g0416181' => 'rch', 'RcHm_v2.0_Chr5g0044701' => 'rch', 'RcHm_v2.0_Chr6g0265781' => 'rch', 'RcHm_v2.0_Chr7g0221031' => 'rch', 'Rhsim04G0202000' => 'rsi', 'Rhsim11G0127300' => 'rsi', 'Rhsim13G0111800' => 'rsi', 'Sabra01G0165600' => 'sbr', 'Sabra03G0008300' => 'sbr', 'Sabra04G0136900' => 'sbr', 'Sabra08G0013400' => 'sbr', 'Sabra08G0116800' => 'sbr', 'Sabra09G0128000' => 'sbr', 'Sabra10G0055500' => 'sbr', 'Sabra10G0073300' => 'sbr', 'SalBow3G0385' => 'sbo', 'SalBow3G1119' => 'sbo', 'SalBow3G2005' => 'sbo', 'SalBow6G2563' => 'sbo', 'SalBow6G6386' => 'sbo', 'Sc06g0008800' => 'sci', 'Sc07g0004950' => 'sci', 'Sc09g0005340' => 'sci', 'Sc13g0004410' => 'sci', 'Sc21g0007090' => 'sci', 'Sed0009285' => 'sed', 'Sed0017583' => 'sed', 'Sed0019699' => 'sed', 'Sed0023107' => 'sed', 'SEGI_10916' => 'sgi', 'SEGI_16217' => 'sgi', 'SEGI_19466' => 'sgi', 'SEGI_41115' => 'sgi', 'SGA_v2.0_scaffold111G31534' => 'sas', 'SGA_v2.0_scaffold22G09864' => 'sas', 'SGA_v2.0_scaffold338G49219' => 'sas', 'SGA_v2.0_scaffold92G28298' => 'sas', 'SMO119G0064' => 'smo', 'SMO223G0038' => 'smo', 'SMO347G0584' => 'smo', 'SMO351G0010' => 'smo', 'SMO356G0404' => 'smo', 'Solyc01g103920.3' => 'sly', 'Solyc04g009710.2' => 'sly', 'Solyc05g055280.2' => 'sly', 'Solyc10g044520.3' => 'sly', 'Solyc10g075160.1' => 'sly', 'Solyc11g006910.3' => 'sly', 'Solyc11g068430.3' => 'sly', 'Sopen01g046310' => 'spe', 'Sopen03g001200' => 'spe', 'Sopen04g004830' => 'spe', 'Sopen05g033720' => 'spe', 'Sopen06g030740' => 'spe', 'Sopen10g013090' => 'spe', 'Sopen10g027630' => 'spe', 'Sopen10g027640' => 'spe', 'Sopen11g002820' => 'spe', 'Sopen11g027140' => 'spe', 'Sp1g09680' => 'spa', 'Sp2g03630' => 'spa', 'Sp4g10320' => 'spa', 'Sp6g33400' => 'spa', 'Sp7g13030' => 'spa', 'TAR365G0317' => 'tar', 'TAR376G0979' => 'tar', 'TAR623G1665' => 'tar', 'TAR633G2373' => 'tar', 'TAR636G1400' => 'tar', 'THA.LOC104800529' => 'tha', 'THA.LOC104808547' => 'tha', 'THA.LOC104809615' => 'tha', 'THA.LOC104815724' => 'tha', 'THA.LOC104818480' => 'tha', 'THA.LOC104819179' => 'tha', 'THA.LOC104822270' => 'tha', 'THA.LOC104826425' => 'tha', 'Thecc.02G089700' => 'tca', 'Thecc.04G232300' => 'tca', 'Thecc.09G283400' => 'tca', 'Thhalv10009020m.g' => 'esa', 'Thhalv10015506m.g' => 'esa', 'Thhalv10017364m.g' => 'esa', 'Thhalv10023742m.g' => 'esa', 'Thhalv10026483m.g' => 'esa', 'TPR.G17232' => 'tpr', 'TPR.G2133' => 'tpr', 'TPR.G2498' => 'tpr', 'TPR.G31942' => 'tpr', 'TPR.G37877' => 'tpr', 'TPR.G4571' => 'tpr', 'TWI14G1113' => 'twi', 'TWI15G0426' => 'twi', 'TWI31G1005' => 'twi', 'TWI38G0513' => 'twi', 'TWI38G1484' => 'twi', 'TWI73G1098' => 'twi', 'unitig_26.g10519' => 'ugi', 'unitig_736.g22395' => 'ugi', 'unitig_747.g21234' => 'ugi', 'unitig_747.g21942' => 'ugi', 'vmacro14351' => 'vma', 'VMungo0540G0082' => 'vmu', 'VMungo0540G0405' => 'vmu', 'VMungo0540G1486' => 'vmu', 'VMungo0540G1692' => 'vmu', 'VMungo0720G2473' => 'vmu', 'VMungo1127G1562' => 'vmu', 'VMungo1215G1918' => 'vmu', 'Zm00001eb052650' => 'zma', 'Zm00001eb063710' => 'zma', 'Zm00001eb083950' => 'zma', 'Zm00001eb174420' => 'zma', 'Zm00001eb260140' => 'zma', 'Zm00001eb260150' => 'zma', 'Zm00001eb260160' => 'zma', 'Zm00001eb348290' => 'zma', 'Zm00001eb366870' => 'zma', 'Zm00001eb421930' => 'zma' ), 'gf_id' => 'HOM05D001025', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001025' ), 'data_identifier' => 'HOM05D001025', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001025', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '592', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p22650' => 'bna', 'A01p29720' => 'bna', 'A03p26560' => 'bna', 'A03p68820' => 'bna', 'A04p20980' => 'bna', 'A06p07730' => 'bna', 'A07p18260' => 'bna', 'A08p33710' => 'bna', 'A09p16970' => 'bna', 'A10p27490' => 'bna', 'Aa31LG1G17300' => 'aar', 'Aa31LG1G3910' => 'aar', 'Aa31LG2G9630' => 'aar', 'Aa31LG5G8360' => 'aar', 'Aa31LG9G2410' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4699' => 'aag', 'Actinidia23512' => 'ach', 'Actinidia37080' => 'ach', 'Ah.01g020380' => 'amhyb', 'Ah.08g215710' => 'amhyb', 'Ah.09g225110' => 'amhyb', 'Ah.10g036680' => 'amhyb', 'AL1G21940' => 'aly', 'AL2G15540' => 'aly', 'AL4G21520' => 'aly', 'AL7G40960' => 'aly', 'Aqoxy2G01191' => 'aox', 'Aqoxy2G03393' => 'aox', 'Aqoxy4G02775' => 'aox', 'Aqoxy6G00058' => 'aox', 'arahy.Tifrunner.gnm1.ann1.9X74H2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CW3FX9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R485W7' => 'arhy', 'AT1G10960' => 'ath', 'AT1G60950' => 'ath', 'AT2G27510' => 'ath', 'AT4G14890' => 'ath', 'AT5G10000' => 'ath', 'ATR0665G624' => 'atr', 'ATR0697G138' => 'atr', 'ATR0776G046' => 'atr', 'ATR1134G135' => 'atr', 'Atru.chr12.1025' => 'acertr', 'Atru.chr3.3241' => 'acertr', 'Atru.chr4.2460' => 'acertr', 'AUR62007427' => 'cqu', 'AUR62010960' => 'cqu', 'AUR62012201' => 'cqu', 'AUR62021470' => 'cqu', 'AUR62022834' => 'cqu', 'AUR62033635' => 'cqu', 'AUR62036186' => 'cqu', 'BcaB01g03077' => 'bca', 'BcaB02g10093' => 'bca', 'BcaB04g20295' => 'bca', 'BcaB06g28147' => 'bca', 'BcaB07g31253' => 'bca', 'BcaC01g04946' => 'bca', 'BcaC02g10614' => 'bca', 'BcaC02g10885' => 'bca', 'BcaC04g19356' => 'bca', 'BcaC04g22297' => 'bca', 'BcaC05g24977' => 'bca', 'BcaC06g31823' => 'bca', 'BcaC07g38633' => 'bca', 'BcaC09g49353' => 'bca', 'BcaC09g50168' => 'bca', 'BcaNung00322' => 'bca', 'BcaNung04769' => 'bca', 'BolC1t02753H' => 'bol', 'BolC1t03721H' => 'bol', 'BolC3t15525H' => 'bol', 'BolC4t23903H' => 'bol', 'BolC4t24231H' => 'bol', 'BolC4t27209H' => 'bol', 'BolC5t29671H' => 'bol', 'BolC8t49044H' => 'bol', 'BolC9t54999H' => 'bol', 'BolC9t59517H' => 'bol', 'BraA01t02178Z' => 'bra', 'BraA01t03099Z' => 'bra', 'BraA03t11867Z' => 'bra', 'BraA04t17667Z' => 'bra', 'BraA07t29542Z' => 'bra', 'BraA08t35287Z' => 'bra', 'BraA09t37334Z' => 'bra', 'BraA10t44801Z' => 'bra', 'BraSC39t46181Z' => 'bra', 'C01p28240' => 'bna', 'C01p37530' => 'bna', 'C03p31820' => 'bna', 'C04p24080' => 'bna', 'C04p25790' => 'bna', 'C04p56770' => 'bna', 'C05p09310' => 'bna', 'C09p21010' => 'bna', 'C09p67560' => 'bna', 'CAN.G1324.7' => 'can', 'CAN.G1358.10' => 'can', 'CAN.G1550.2' => 'can', 'CAN.G186.56' => 'can', 'CAN.G1965.1' => 'can', 'CAN.G645.15' => 'can', 'CAN.G798.26' => 'can', 'CAN.G798.27' => 'can', 'CAN.G798.29' => 'can', 'CAN.G919.31' => 'can', 'CANSAT11G0133' => 'cansat', 'CANSAT11G1171' => 'cansat', 'CANSAT11G2056' => 'cansat', 'CANSAT56G1202' => 'cansat', 'CANSAT56G1514' => 'cansat', 'CANSAT78G0455' => 'cansat', 'CARHR011190' => 'chi', 'CARHR051980' => 'chi', 'CARHR120170' => 'chi', 'CARHR203310' => 'chi', 'CARHR221490' => 'chi', 'Carub.0001s1054' => 'cru', 'Carub.0002s0431' => 'cru', 'Carub.0004s0818' => 'cru', 'Carub.0006s0846' => 'cru', 'Carub.0007s2722' => 'cru', 'Ca_00058_v3' => 'car', 'Ca_17831_v3' => 'car', 'Ca_19408_v3' => 'car', 'Ca_24397_v3' => 'car', 'Ca_25664_v3' => 'car', 'CBR_g21818' => 'cbr', 'CBR_g31195' => 'cbr', 'CBR_g32282' => 'cbr', 'CBR_g39599' => 'cbr', 'CBR_g49410' => 'cbr', 'Cc01_g09120' => 'ccan', 'Cc01_g09130' => 'ccan', 'Cc02_g09630' => 'ccan', 'Cc02_g22810' => 'ccan', 'Cc03_g03810' => 'ccan', 'CDE02G3718' => 'cde', 'CDE04G3183' => 'cde', 'CDE07G1046' => 'cde', 'CDE08G0480' => 'cde', 'Cfa005493' => 'cfa', 'Cfa010312' => 'cfa', 'Cfa015648' => 'cfa', 'Ciclev10002793m.g' => 'ccl', 'Ciclev10003356m.g' => 'ccl', 'Ciclev10006141m.g' => 'ccl', 'Ciclev10016676m.g' => 'ccl', 'Ciclev10017081m.g' => 'ccl', 'Ciclev10029499m.g' => 'ccl', 'CiPaw.01G166300' => 'cil', 'CiPaw.06G145600' => 'cil', 'CiPaw.13G040100' => 'cil', 'CiPaw.13G135800' => 'cil', 'ClCG01G012230' => 'cla', 'ClCG05G009510' => 'cla', 'ClCG08G008270' => 'cla', 'COL.COLO4_11763' => 'col', 'COL.COLO4_19876' => 'col', 'COL.COLO4_21481' => 'col', 'Cpa.g.sc118.34' => 'cpa', 'Cpa.g.sc32.13' => 'cpa', 'Cpa.g.sc58.103' => 'cpa', 'Cre03.g183850' => 'cre', 'Cre06.g306350' => 'cre', 'Cre07.g334800' => 'cre', 'Cre12.g487900' => 'cre', 'Cre14.g626700' => 'cre', 'Cre16.g658400' => 'cre', 'Cre17.g700950' => 'cre', 'CsaV3_1G014830' => 'csa', 'CsaV3_3G013320' => 'csa', 'CsaV3_3G019210' => 'csa', 'CsaV3_3G019220' => 'csa', 'CsaV3_6G004230' => 'csa', 'CSS0003773' => 'camsi', 'CSS0004563' => 'camsi', 'CSS0013949' => 'camsi', 'CSS0025971' => 'camsi', 'CSS0028570' => 'camsi', 'CSS0033127' => 'camsi', 'CSS0036051' => 'camsi', 'CSS0040087' => 'camsi', 'CSS0043179' => 'camsi', 'DCAR_006161' => 'dca', 'DCAR_010351' => 'dca', 'DCAR_012197' => 'dca', 'DCAR_024162' => 'dca', 'Dinv01030' => 'din', 'Dinv10924' => 'din', 'Dinv11835' => 'din', 'Dinv22841' => 'din', 'Dinv42553' => 'din', 'Duzib052G0560' => 'dzi', 'Duzib132G0389' => 'dzi', 'Duzib150G1181' => 'dzi', 'Duzib168G0623' => 'dzi', 'Duzib170G1036' => 'dzi', 'Duzib212G0200' => 'dzi', 'Duzib248G0194' => 'dzi', 'ECA232G2193' => 'eca', 'ECA233G0302' => 'eca', 'ECA234G2813' => 'eca', 'ECA234G4866' => 'eca', 'ECA240G3932' => 'eca', 'ECA248G0385' => 'eca', 'EL10Ac2g04781' => 'bvu', 'EL10Ac3g06445' => 'bvu', 'EL10Ac7g15825' => 'bvu', 'EL10Ac8g18550' => 'bvu', 'Eucgr.B03849' => 'egr', 'Eucgr.I02744' => 'egr', 'Eucgr.J00264' => 'egr', 'Eucgr.J00493' => 'egr', 'FAN04G2181' => 'fan', 'FAN07G2666' => 'fan', 'FAN11G0024' => 'fan', 'FAN12G1105' => 'fan', 'FAN13G0302' => 'fan', 'FAN15G2781' => 'fan', 'FAN16G1274' => 'fan', 'FAN17G2988' => 'fan', 'FAN18G2621' => 'fan', 'FAN21G0013' => 'fan', 'FAN22G1211' => 'fan', 'FAN25G3626' => 'fan', 'FvH4_2g09491' => 'fve', 'FvH4_3g24910' => 'fve', 'FvH4_4g15630' => 'fve', 'FvH4_5g28820' => 'fve', 'Glyma.01G238000' => 'gma', 'Glyma.05G168400' => 'gma', 'Glyma.08G126800' => 'gma', 'Glyma.08G188500' => 'gma', 'Glyma.10G278900' => 'gma', 'Glyma.11G005700' => 'gma', 'Glyma.11G183300' => 'gma', 'Glyma.12G089200' => 'gma', 'Glyma.12G169400' => 'gma', 'Glyma.12G169500' => 'gma', 'Glyma.12G169600' => 'gma', 'Glyma.20G110800' => 'gma', 'Gohir.A03G192900' => 'ghi', 'Gohir.A03G193000' => 'ghi', 'Gohir.A05G080700' => 'ghi', 'Gohir.A09G216000' => 'ghi', 'Gohir.A12G027700' => 'ghi', 'Gohir.A13G036200' => 'ghi', 'Gohir.A13G222600' => 'ghi', 'Gohir.D02G213900' => 'ghi', 'Gohir.D02G214000' => 'ghi', 'Gohir.D05G083700' => 'ghi', 'Gohir.D05G083800' => 'ghi', 'Gohir.D05G083850' => 'ghi', 'Gohir.D08G015400' => 'ghi', 'Gohir.D09G218400' => 'ghi', 'Gohir.D12G027100' => 'ghi', 'Gohir.D13G034500' => 'ghi', 'Gohir.D13G227400' => 'ghi', 'Gorai.005G241800' => 'gra', 'Gorai.005G241900' => 'gra', 'Gorai.006G239400' => 'gra', 'Gorai.008G027600' => 'gra', 'Gorai.009G085400' => 'gra', 'Gorai.009G085500' => 'gra', 'Gorai.013G039000' => 'gra', 'Gorai.013G194800' => 'gra', 'Gorai.013G257900' => 'gra', 'GSVIVG01000982001' => 'vvi', 'GSVIVG01017981001' => 'vvi', 'HanXRQChr01g0024061' => 'han', 'HanXRQChr09g0247831' => 'han', 'HanXRQChr10g0294611' => 'han', 'HanXRQChr10g0294621' => 'han', 'HanXRQChr11g0346821' => 'han', 'HanXRQChr13g0397461' => 'han', 'HanXRQChr16g0513651' => 'han', 'HanXRQChr16g0513701' => 'han', 'Haze_00897' => 'cav', 'Haze_01745' => 'cav', 'Haze_02486' => 'cav', 'Haze_02487' => 'cav', 'Haze_23374' => 'cav', 'Hma1.2p1_0578F.1_g182520' => 'hma', 'Hma1.2p1_0602F.1_g187350' => 'hma', 'Hma1.2p1_0602F.1_g187360' => 'hma', 'Hma1.2p1_0874F.1_g231320' => 'hma', 'Hma1.2p1_1197F.1_g266210' => 'hma', 'Hma1.2p1_1197F.1_g266220' => 'hma', 'Hma1.2p1_2167F.1_g315895' => 'hma', 'Hma1.2p1_2190F.1_g316640' => 'hma', 'Hma1.2p1_3645F.1_g337153' => 'hma', 'HPP92_004907' => 'vpl', 'HPP92_012134' => 'vpl', 'HPP92_025136' => 'vpl', 'HPP92_026087' => 'vpl', 'Hund06782' => 'sun', 'Hund06784' => 'sun', 'Lalb_Chr01g0004861' => 'lal', 'Lalb_Chr02g0140591' => 'lal', 'Lalb_Chr02g0140611' => 'lal', 'Lalb_Chr03g0028101' => 'lal', 'Lalb_Chr07g0185791' => 'lal', 'Lalb_Chr12g0204491' => 'lal', 'Lalb_Chr13g0295671' => 'lal', 'Lalb_Chr19g0136461' => 'lal', 'Lalb_Chr21g0309191' => 'lal', 'Lj1g0028158' => 'lja', 'Lj1P236T38' => 'lonja', 'Lj2C32G2' => 'lonja', 'Lj2P944T8' => 'lonja', 'Lj2P963T15' => 'lonja', 'Lj3g0011788' => 'lja', 'Lj4g0025027' => 'lja', 'Lj5P255T36' => 'lonja', 'Lj6g0018866' => 'lja', 'Lj6P608T31' => 'lonja', 'LjContig00408g0008879' => 'lja', 'Lsat_1_v5_gn_5_105820' => 'lsa', 'Lsat_1_v5_gn_6_38800' => 'lsa', 'Lsat_1_v5_gn_7_67141' => 'lsa', 'Manes.04G003400' => 'mes', 'Manes.07G020000' => 'mes', 'Manes.07G020100' => 'mes', 'Manes.07G020150' => 'mes', 'Manes.10G061500' => 'mes', 'Manes.10G123200' => 'mes', 'Manes.11G161900' => 'mes', 'Manes.15G029300' => 'mes', 'Mapoly0071s0018' => 'mpo', 'Mapoly0082s0023' => 'mpo', 'Mapoly3477s0001' => 'mpo', 'MBI05_g31233_MAGBIO' => 'mbi', 'MBI09_g05946_MAGBIO' => 'mbi', 'MBI09_g05947_MAGBIO' => 'mbi', 'MBI17_g08346_MAGBIO' => 'mbi', 'MCO04G038' => 'mco', 'MCO09G370' => 'mco', 'MCO13G605' => 'mco', 'MD00G1075500' => 'mdo', 'MD03G1144300' => 'mdo', 'MD08G1236800' => 'mdo', 'MD13G1193300' => 'mdo', 'MD15G1428700' => 'mdo', 'Medtr1g112030' => 'mtr', 'Medtr1g112050' => 'mtr', 'Medtr2g006290' => 'mtr', 'Medtr2g086510' => 'mtr', 'Medtr4g053120' => 'mtr', 'Medtr5g006320' => 'mtr', 'Medtr8g088720' => 'mtr', 'MELO3C004712.2' => 'cme', 'MELO3C006533.2' => 'cme', 'MELO3C019438.2' => 'cme', 'MELO3C019440.2' => 'cme', 'MELO3C019441.2' => 'cme', 'MELO3C019895.2' => 'cme', 'Migut.B00811' => 'egut', 'Migut.D02447' => 'egut', 'Migut.F00875' => 'egut', 'Migut.N00186' => 'egut', 'Migut.N01051' => 'egut', 'Migut.N02491' => 'egut', 'Migut.O00784' => 'egut', 'MSTRG.12367' => 'ama', 'MSTRG.18756' => 'ama', 'MSTRG.21042' => 'ama', 'Nitab4.5_0000559g0040' => 'nta', 'Nitab4.5_0000667g0190' => 'nta', 'Nitab4.5_0000755g0160' => 'nta', 'Nitab4.5_0001216g0080' => 'nta', 'Nitab4.5_0004069g0040' => 'nta', 'Nitab4.5_0004129g0010' => 'nta', 'Nitab4.5_0005744g0030' => 'nta', 'Nitab4.5_0006996g0030' => 'nta', 'Nitab4.5_0008971g0040' => 'nta', 'Nitab4.5_0009769g0020' => 'nta', 'Nitab4.5_0009833g0010' => 'nta', 'Nitab4.5_0013140g0020' => 'nta', 'Nn003s41376' => 'nnu', 'Nn1g01857' => 'nnu', 'Nn1g03611' => 'nnu', 'Nn1g06853' => 'nnu', 'Nn3g18360' => 'nnu', 'Nn4g26328' => 'nnu', 'Nn5g27531' => 'nnu', 'Nn6g34899' => 'nnu', 'Nn7g36299' => 'nnu', 'Oeu021485.1' => 'oeu', 'Oeu022433.1' => 'oeu', 'Oeu032111.1' => 'oeu', 'Oeu051608.1' => 'oeu', 'Os01g0860601' => 'osa', 'Os03g0659200' => 'osa', 'Os03g0835900' => 'osa', 'Os04g0412200' => 'osa', 'Os05g0443500' => 'osa', 'Os07g0251500' => 'osa', 'Os08g0104600' => 'osa', 'Peaxi162Scf00003g00047' => 'pax', 'Peaxi162Scf00003g00052' => 'pax', 'Peaxi162Scf00003g00394' => 'pax', 'Peaxi162Scf00091g00621' => 'pax', 'Peaxi162Scf00152g00146' => 'pax', 'Peaxi162Scf00173g00025' => 'pax', 'Peaxi162Scf00195g00102' => 'pax', 'Peaxi162Scf00402g00013' => 'pax', 'Peaxi162Scf00519g00618' => 'pax', 'PGR004G2838' => 'pgr', 'PGR044G2275' => 'pgr', 'PGR102G1377' => 'pgr', 'PGR119G1245' => 'pgr', 'PGR142G4449' => 'pgr', 'PGSC0003DMG400004532' => 'stu', 'PGSC0003DMG400011950' => 'stu', 'PGSC0003DMG400023391' => 'stu', 'PGSC0003DMG400023985' => 'stu', 'PGSC0003DMG400026360' => 'stu', 'PGSC0003DMG400035711' => 'stu', 'PGSC0003DMG400037286' => 'stu', 'PGSC0003DMG402005881' => 'stu', 'Phvul.002G045400' => 'pvu', 'Phvul.006G216600' => 'pvu', 'Phvul.006G216700' => 'pvu', 'Phvul.006G216800' => 'pvu', 'Phvul.007G022500' => 'pvu', 'Phvul.011G094400' => 'pvu', 'Potri.001G470700' => 'ptr', 'Potri.003G015200' => 'ptr', 'Potri.004G202500' => 'ptr', 'Potri.004G218400' => 'ptr', 'Potri.008G020100' => 'ptr', 'Potri.008G153200' => 'ptr', 'Potri.009G163800' => 'ptr', 'Potri.010G087300' => 'ptr', 'Potri.010G239100' => 'ptr', 'Pp3c10_16100' => 'ppa', 'Pp3c10_16880' => 'ppa', 'Pp3c16_6230' => 'ppa', 'Pp3c17_18910' => 'ppa', 'Pp3c3_22119' => 'ppa', 'Pp3c3_22140' => 'ppa', 'Pp3c4_8159' => 'ppa', 'Pp3c4_8171' => 'ppa', 'Pp3c4_8330' => 'ppa', 'PRCOL_00004098' => 'pco', 'Prupe.1G013900' => 'ppe', 'Prupe.1G226300' => 'ppe', 'Prupe.1G573600' => 'ppe', 'Prupe.6G130100' => 'ppe', 'Psat3g090040' => 'psa', 'Psat4g210440' => 'psa', 'Psat6g231040' => 'psa', 'Psat6g231080' => 'psa', 'Psat7g063000' => 'psa', 'Psat7g188000' => 'psa', 'Psat7g188040' => 'psa', 'PSO017G0206' => 'pso', 'PSO170G0501' => 'pso', 'PSO170G6422' => 'pso', 'PSO210G7739' => 'pso', 'PSO339G1808' => 'pso', 'PSO339G6135' => 'pso', 'PSO384G0010' => 'pso', 'PSO384G0964' => 'pso', 'PSO761G0050' => 'pso', 'PSO782G4085' => 'pso', 'QL01p012264' => 'qlo', 'QL02p099491' => 'qlo', 'QL03p033868' => 'qlo', 'QL04p046678' => 'qlo', 'QL06p002448' => 'qlo', 'RcHm_v2.0_Chr4g0416181' => 'rch', 'RcHm_v2.0_Chr5g0044701' => 'rch', 'RcHm_v2.0_Chr6g0265781' => 'rch', 'RcHm_v2.0_Chr7g0221031' => 'rch', 'Rhsim04G0202000' => 'rsi', 'Rhsim11G0127300' => 'rsi', 'Rhsim13G0111800' => 'rsi', 'Sabra01G0165600' => 'sbr', 'Sabra03G0008300' => 'sbr', 'Sabra04G0136900' => 'sbr', 'Sabra08G0013400' => 'sbr', 'Sabra08G0116800' => 'sbr', 'Sabra09G0128000' => 'sbr', 'Sabra10G0055500' => 'sbr', 'Sabra10G0073300' => 'sbr', 'SalBow3G0385' => 'sbo', 'SalBow3G1119' => 'sbo', 'SalBow3G2005' => 'sbo', 'SalBow6G2563' => 'sbo', 'SalBow6G6386' => 'sbo', 'Sc06g0008800' => 'sci', 'Sc07g0004950' => 'sci', 'Sc09g0005340' => 'sci', 'Sc13g0004410' => 'sci', 'Sc21g0007090' => 'sci', 'Sed0009285' => 'sed', 'Sed0017583' => 'sed', 'Sed0019699' => 'sed', 'Sed0023107' => 'sed', 'SEGI_10916' => 'sgi', 'SEGI_16217' => 'sgi', 'SEGI_19466' => 'sgi', 'SEGI_41115' => 'sgi', 'SGA_v2.0_scaffold111G31534' => 'sas', 'SGA_v2.0_scaffold22G09864' => 'sas', 'SGA_v2.0_scaffold338G49219' => 'sas', 'SGA_v2.0_scaffold92G28298' => 'sas', 'SMO119G0064' => 'smo', 'SMO223G0038' => 'smo', 'SMO347G0584' => 'smo', 'SMO351G0010' => 'smo', 'SMO356G0404' => 'smo', 'Solyc01g103920.3' => 'sly', 'Solyc04g009710.2' => 'sly', 'Solyc05g055280.2' => 'sly', 'Solyc10g044520.3' => 'sly', 'Solyc10g075160.1' => 'sly', 'Solyc11g006910.3' => 'sly', 'Solyc11g068430.3' => 'sly', 'Sopen01g046310' => 'spe', 'Sopen03g001200' => 'spe', 'Sopen04g004830' => 'spe', 'Sopen05g033720' => 'spe', 'Sopen06g030740' => 'spe', 'Sopen10g013090' => 'spe', 'Sopen10g027630' => 'spe', 'Sopen10g027640' => 'spe', 'Sopen11g002820' => 'spe', 'Sopen11g027140' => 'spe', 'Sp1g09680' => 'spa', 'Sp2g03630' => 'spa', 'Sp4g10320' => 'spa', 'Sp6g33400' => 'spa', 'Sp7g13030' => 'spa', 'TAR365G0317' => 'tar', 'TAR376G0979' => 'tar', 'TAR623G1665' => 'tar', 'TAR633G2373' => 'tar', 'TAR636G1400' => 'tar', 'THA.LOC104800529' => 'tha', 'THA.LOC104808547' => 'tha', 'THA.LOC104809615' => 'tha', 'THA.LOC104815724' => 'tha', 'THA.LOC104818480' => 'tha', 'THA.LOC104819179' => 'tha', 'THA.LOC104822270' => 'tha', 'THA.LOC104826425' => 'tha', 'Thecc.02G089700' => 'tca', 'Thecc.04G232300' => 'tca', 'Thecc.09G283400' => 'tca', 'Thhalv10009020m.g' => 'esa', 'Thhalv10015506m.g' => 'esa', 'Thhalv10017364m.g' => 'esa', 'Thhalv10023742m.g' => 'esa', 'Thhalv10026483m.g' => 'esa', 'TPR.G17232' => 'tpr', 'TPR.G2133' => 'tpr', 'TPR.G2498' => 'tpr', 'TPR.G31942' => 'tpr', 'TPR.G37877' => 'tpr', 'TPR.G4571' => 'tpr', 'TWI14G1113' => 'twi', 'TWI15G0426' => 'twi', 'TWI31G1005' => 'twi', 'TWI38G0513' => 'twi', 'TWI38G1484' => 'twi', 'TWI73G1098' => 'twi', 'unitig_26.g10519' => 'ugi', 'unitig_736.g22395' => 'ugi', 'unitig_747.g21234' => 'ugi', 'unitig_747.g21942' => 'ugi', 'vmacro14351' => 'vma', 'VMungo0540G0082' => 'vmu', 'VMungo0540G0405' => 'vmu', 'VMungo0540G1486' => 'vmu', 'VMungo0540G1692' => 'vmu', 'VMungo0720G2473' => 'vmu', 'VMungo1127G1562' => 'vmu', 'VMungo1215G1918' => 'vmu', 'Zm00001eb052650' => 'zma', 'Zm00001eb063710' => 'zma', 'Zm00001eb083950' => 'zma', 'Zm00001eb174420' => 'zma', 'Zm00001eb260140' => 'zma', 'Zm00001eb260150' => 'zma', 'Zm00001eb260160' => 'zma', 'Zm00001eb348290' => 'zma', 'Zm00001eb366870' => 'zma', 'Zm00001eb421930' => 'zma' ) $gf_id = 'HOM05D001025' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001025' ) $data_identifier = 'HOM05D001025' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 19, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 2, 'amhyb' => (int) 4, 'aly' => (int) 4, 'aox' => (int) 4, 'arhy' => (int) 3, 'ath' => (int) 5, 'atr' => (int) 4, 'acertr' => (int) 3, 'cqu' => (int) 7, 'bca' => (int) 17, 'bol' => (int) 10, 'bra' => (int) 9, 'can' => (int) 10, 'cansat' => (int) 6, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 5, 'cbr' => (int) 5, 'ccan' => (int) 5, 'cde' => (int) 4, 'cfa' => (int) 3, 'ccl' => (int) 6, 'cil' => (int) 4, 'cla' => (int) 3, 'col' => (int) 3, 'cpa' => (int) 3, 'cre' => (int) 7, 'csa' => (int) 5, 'camsi' => (int) 9, 'dca' => (int) 4, 'din' => (int) 5, 'dzi' => (int) 7, 'eca' => (int) 6, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 12, 'fve' => (int) 4, 'gma' => (int) 12, 'ghi' => (int) 17, 'gra' => (int) 9, 'vvi' => (int) 2, 'han' => (int) 8, 'cav' => (int) 5, 'hma' => (int) 9, 'vpl' => (int) 4, 'sun' => (int) 2, 'lal' => (int) 9, 'lja' => (int) 5, 'lonja' => (int) 6, 'lsa' => (int) 3, 'mes' => (int) 8, 'mpo' => (int) 3, 'mbi' => (int) 4, 'mco' => (int) 3, 'mdo' => (int) 5, 'mtr' => (int) 7, 'cme' => (int) 6, 'egut' => (int) 7, 'ama' => (int) 3, 'nta' => (int) 12, 'nnu' => (int) 9, 'oeu' => (int) 4, 'osa' => (int) 7, 'pax' => (int) 9, 'pgr' => (int) 5, 'stu' => (int) 8, 'pvu' => (int) 6, 'ptr' => (int) 9, 'ppa' => (int) 9, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 7, 'pso' => (int) 10, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 3, 'sbr' => (int) 8, 'sbo' => (int) 5, 'sci' => (int) 5, 'sed' => (int) 4, 'sgi' => (int) 4, 'sas' => (int) 4, 'smo' => (int) 5, 'sly' => (int) 7, 'spe' => (int) 10, 'spa' => (int) 5, 'tar' => (int) 5, 'tha' => (int) 8, 'tca' => (int) 3, 'esa' => (int) 5, 'tpr' => (int) 6, 'twi' => (int) 6, 'ugi' => (int) 4, 'vma' => (int) 1, 'vmu' => (int) 7, 'zma' => (int) 10 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb421930' $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' => 'HOM05D001025', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '592', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p22650' => 'bna', 'A01p29720' => 'bna', 'A03p26560' => 'bna', 'A03p68820' => 'bna', 'A04p20980' => 'bna', 'A06p07730' => 'bna', 'A07p18260' => 'bna', 'A08p33710' => 'bna', 'A09p16970' => 'bna', 'A10p27490' => 'bna', 'Aa31LG1G17300' => 'aar', 'Aa31LG1G3910' => 'aar', 'Aa31LG2G9630' => 'aar', 'Aa31LG5G8360' => 'aar', 'Aa31LG9G2410' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4699' => 'aag', 'Actinidia23512' => 'ach', 'Actinidia37080' => 'ach', 'Ah.01g020380' => 'amhyb', 'Ah.08g215710' => 'amhyb', 'Ah.09g225110' => 'amhyb', 'Ah.10g036680' => 'amhyb', 'AL1G21940' => 'aly', 'AL2G15540' => 'aly', 'AL4G21520' => 'aly', 'AL7G40960' => 'aly', 'Aqoxy2G01191' => 'aox', 'Aqoxy2G03393' => 'aox', 'Aqoxy4G02775' => 'aox', 'Aqoxy6G00058' => 'aox', 'arahy.Tifrunner.gnm1.ann1.9X74H2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CW3FX9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R485W7' => 'arhy', 'AT1G10960' => 'ath', 'AT1G60950' => 'ath', 'AT2G27510' => 'ath', 'AT4G14890' => 'ath', 'AT5G10000' => 'ath', 'ATR0665G624' => 'atr', 'ATR0697G138' => 'atr', 'ATR0776G046' => 'atr', 'ATR1134G135' => 'atr', 'Atru.chr12.1025' => 'acertr', 'Atru.chr3.3241' => 'acertr', 'Atru.chr4.2460' => 'acertr', 'AUR62007427' => 'cqu', 'AUR62010960' => 'cqu', 'AUR62012201' => 'cqu', 'AUR62021470' => 'cqu', 'AUR62022834' => 'cqu', 'AUR62033635' => 'cqu', 'AUR62036186' => 'cqu', 'BcaB01g03077' => 'bca', 'BcaB02g10093' => 'bca', 'BcaB04g20295' => 'bca', 'BcaB06g28147' => 'bca', 'BcaB07g31253' => 'bca', 'BcaC01g04946' => 'bca', 'BcaC02g10614' => 'bca', 'BcaC02g10885' => 'bca', 'BcaC04g19356' => 'bca', 'BcaC04g22297' => 'bca', 'BcaC05g24977' => 'bca', 'BcaC06g31823' => 'bca', 'BcaC07g38633' => 'bca', 'BcaC09g49353' => 'bca', 'BcaC09g50168' => 'bca', 'BcaNung00322' => 'bca', 'BcaNung04769' => 'bca', 'BolC1t02753H' => 'bol', 'BolC1t03721H' => 'bol', 'BolC3t15525H' => 'bol', 'BolC4t23903H' => 'bol', 'BolC4t24231H' => 'bol', 'BolC4t27209H' => 'bol', 'BolC5t29671H' => 'bol', 'BolC8t49044H' => 'bol', 'BolC9t54999H' => 'bol', 'BolC9t59517H' => 'bol', 'BraA01t02178Z' => 'bra', 'BraA01t03099Z' => 'bra', 'BraA03t11867Z' => 'bra', 'BraA04t17667Z' => 'bra', 'BraA07t29542Z' => 'bra', 'BraA08t35287Z' => 'bra', 'BraA09t37334Z' => 'bra', 'BraA10t44801Z' => 'bra', 'BraSC39t46181Z' => 'bra', 'C01p28240' => 'bna', 'C01p37530' => 'bna', 'C03p31820' => 'bna', 'C04p24080' => 'bna', 'C04p25790' => 'bna', 'C04p56770' => 'bna', 'C05p09310' => 'bna', 'C09p21010' => 'bna', 'C09p67560' => 'bna', 'CAN.G1324.7' => 'can', 'CAN.G1358.10' => 'can', 'CAN.G1550.2' => 'can', 'CAN.G186.56' => 'can', 'CAN.G1965.1' => 'can', 'CAN.G645.15' => 'can', 'CAN.G798.26' => 'can', 'CAN.G798.27' => 'can', 'CAN.G798.29' => 'can', 'CAN.G919.31' => 'can', 'CANSAT11G0133' => 'cansat', 'CANSAT11G1171' => 'cansat', 'CANSAT11G2056' => 'cansat', 'CANSAT56G1202' => 'cansat', 'CANSAT56G1514' => 'cansat', 'CANSAT78G0455' => 'cansat', 'CARHR011190' => 'chi', 'CARHR051980' => 'chi', 'CARHR120170' => 'chi', 'CARHR203310' => 'chi', 'CARHR221490' => 'chi', 'Carub.0001s1054' => 'cru', 'Carub.0002s0431' => 'cru', 'Carub.0004s0818' => 'cru', 'Carub.0006s0846' => 'cru', 'Carub.0007s2722' => 'cru', 'Ca_00058_v3' => 'car', 'Ca_17831_v3' => 'car', 'Ca_19408_v3' => 'car', 'Ca_24397_v3' => 'car', 'Ca_25664_v3' => 'car', 'CBR_g21818' => 'cbr', 'CBR_g31195' => 'cbr', 'CBR_g32282' => 'cbr', 'CBR_g39599' => 'cbr', 'CBR_g49410' => 'cbr', 'Cc01_g09120' => 'ccan', 'Cc01_g09130' => 'ccan', 'Cc02_g09630' => 'ccan', 'Cc02_g22810' => 'ccan', 'Cc03_g03810' => 'ccan', 'CDE02G3718' => 'cde', 'CDE04G3183' => 'cde', 'CDE07G1046' => 'cde', 'CDE08G0480' => 'cde', 'Cfa005493' => 'cfa', 'Cfa010312' => 'cfa', 'Cfa015648' => 'cfa', 'Ciclev10002793m.g' => 'ccl', 'Ciclev10003356m.g' => 'ccl', 'Ciclev10006141m.g' => 'ccl', 'Ciclev10016676m.g' => 'ccl', 'Ciclev10017081m.g' => 'ccl', 'Ciclev10029499m.g' => 'ccl', 'CiPaw.01G166300' => 'cil', 'CiPaw.06G145600' => 'cil', 'CiPaw.13G040100' => 'cil', 'CiPaw.13G135800' => 'cil', 'ClCG01G012230' => 'cla', 'ClCG05G009510' => 'cla', 'ClCG08G008270' => 'cla', 'COL.COLO4_11763' => 'col', 'COL.COLO4_19876' => 'col', 'COL.COLO4_21481' => 'col', 'Cpa.g.sc118.34' => 'cpa', 'Cpa.g.sc32.13' => 'cpa', 'Cpa.g.sc58.103' => 'cpa', 'Cre03.g183850' => 'cre', 'Cre06.g306350' => 'cre', 'Cre07.g334800' => 'cre', 'Cre12.g487900' => 'cre', 'Cre14.g626700' => 'cre', 'Cre16.g658400' => 'cre', 'Cre17.g700950' => 'cre', 'CsaV3_1G014830' => 'csa', 'CsaV3_3G013320' => 'csa', 'CsaV3_3G019210' => 'csa', 'CsaV3_3G019220' => 'csa', 'CsaV3_6G004230' => 'csa', 'CSS0003773' => 'camsi', 'CSS0004563' => 'camsi', 'CSS0013949' => 'camsi', 'CSS0025971' => 'camsi', 'CSS0028570' => 'camsi', 'CSS0033127' => 'camsi', 'CSS0036051' => 'camsi', 'CSS0040087' => 'camsi', 'CSS0043179' => 'camsi', 'DCAR_006161' => 'dca', 'DCAR_010351' => 'dca', 'DCAR_012197' => 'dca', 'DCAR_024162' => 'dca', 'Dinv01030' => 'din', 'Dinv10924' => 'din', 'Dinv11835' => 'din', 'Dinv22841' => 'din', 'Dinv42553' => 'din', 'Duzib052G0560' => 'dzi', 'Duzib132G0389' => 'dzi', 'Duzib150G1181' => 'dzi', 'Duzib168G0623' => 'dzi', 'Duzib170G1036' => 'dzi', 'Duzib212G0200' => 'dzi', 'Duzib248G0194' => 'dzi', 'ECA232G2193' => 'eca', 'ECA233G0302' => 'eca', 'ECA234G2813' => 'eca', 'ECA234G4866' => 'eca', 'ECA240G3932' => 'eca', 'ECA248G0385' => 'eca', 'EL10Ac2g04781' => 'bvu', 'EL10Ac3g06445' => 'bvu', 'EL10Ac7g15825' => 'bvu', 'EL10Ac8g18550' => 'bvu', 'Eucgr.B03849' => 'egr', 'Eucgr.I02744' => 'egr', 'Eucgr.J00264' => 'egr', 'Eucgr.J00493' => 'egr', 'FAN04G2181' => 'fan', 'FAN07G2666' => 'fan', 'FAN11G0024' => 'fan', 'FAN12G1105' => 'fan', 'FAN13G0302' => 'fan', 'FAN15G2781' => 'fan', 'FAN16G1274' => 'fan', 'FAN17G2988' => 'fan', 'FAN18G2621' => 'fan', 'FAN21G0013' => 'fan', 'FAN22G1211' => 'fan', 'FAN25G3626' => 'fan', 'FvH4_2g09491' => 'fve', 'FvH4_3g24910' => 'fve', 'FvH4_4g15630' => 'fve', 'FvH4_5g28820' => 'fve', 'Glyma.01G238000' => 'gma', 'Glyma.05G168400' => 'gma', 'Glyma.08G126800' => 'gma', 'Glyma.08G188500' => 'gma', 'Glyma.10G278900' => 'gma', 'Glyma.11G005700' => 'gma', 'Glyma.11G183300' => 'gma', 'Glyma.12G089200' => 'gma', 'Glyma.12G169400' => 'gma', 'Glyma.12G169500' => 'gma', 'Glyma.12G169600' => 'gma', 'Glyma.20G110800' => 'gma', 'Gohir.A03G192900' => 'ghi', 'Gohir.A03G193000' => 'ghi', 'Gohir.A05G080700' => 'ghi', 'Gohir.A09G216000' => 'ghi', 'Gohir.A12G027700' => 'ghi', 'Gohir.A13G036200' => 'ghi', 'Gohir.A13G222600' => 'ghi', 'Gohir.D02G213900' => 'ghi', 'Gohir.D02G214000' => 'ghi', 'Gohir.D05G083700' => 'ghi', 'Gohir.D05G083800' => 'ghi', 'Gohir.D05G083850' => 'ghi', 'Gohir.D08G015400' => 'ghi', 'Gohir.D09G218400' => 'ghi', 'Gohir.D12G027100' => 'ghi', 'Gohir.D13G034500' => 'ghi', 'Gohir.D13G227400' => 'ghi', 'Gorai.005G241800' => 'gra', 'Gorai.005G241900' => 'gra', 'Gorai.006G239400' => 'gra', 'Gorai.008G027600' => 'gra', 'Gorai.009G085400' => 'gra', 'Gorai.009G085500' => 'gra', 'Gorai.013G039000' => 'gra', 'Gorai.013G194800' => 'gra', 'Gorai.013G257900' => 'gra', 'GSVIVG01000982001' => 'vvi', 'GSVIVG01017981001' => 'vvi', 'HanXRQChr01g0024061' => 'han', 'HanXRQChr09g0247831' => 'han', 'HanXRQChr10g0294611' => 'han', 'HanXRQChr10g0294621' => 'han', 'HanXRQChr11g0346821' => 'han', 'HanXRQChr13g0397461' => 'han', 'HanXRQChr16g0513651' => 'han', 'HanXRQChr16g0513701' => 'han', 'Haze_00897' => 'cav', 'Haze_01745' => 'cav', 'Haze_02486' => 'cav', 'Haze_02487' => 'cav', 'Haze_23374' => 'cav', 'Hma1.2p1_0578F.1_g182520' => 'hma', 'Hma1.2p1_0602F.1_g187350' => 'hma', 'Hma1.2p1_0602F.1_g187360' => 'hma', 'Hma1.2p1_0874F.1_g231320' => 'hma', 'Hma1.2p1_1197F.1_g266210' => 'hma', 'Hma1.2p1_1197F.1_g266220' => 'hma', 'Hma1.2p1_2167F.1_g315895' => 'hma', 'Hma1.2p1_2190F.1_g316640' => 'hma', 'Hma1.2p1_3645F.1_g337153' => 'hma', 'HPP92_004907' => 'vpl', 'HPP92_012134' => 'vpl', 'HPP92_025136' => 'vpl', 'HPP92_026087' => 'vpl', 'Hund06782' => 'sun', 'Hund06784' => 'sun', 'Lalb_Chr01g0004861' => 'lal', 'Lalb_Chr02g0140591' => 'lal', 'Lalb_Chr02g0140611' => 'lal', 'Lalb_Chr03g0028101' => 'lal', 'Lalb_Chr07g0185791' => 'lal', 'Lalb_Chr12g0204491' => 'lal', 'Lalb_Chr13g0295671' => 'lal', 'Lalb_Chr19g0136461' => 'lal', 'Lalb_Chr21g0309191' => 'lal', 'Lj1g0028158' => 'lja', 'Lj1P236T38' => 'lonja', 'Lj2C32G2' => 'lonja', 'Lj2P944T8' => 'lonja', 'Lj2P963T15' => 'lonja', 'Lj3g0011788' => 'lja', 'Lj4g0025027' => 'lja', 'Lj5P255T36' => 'lonja', 'Lj6g0018866' => 'lja', 'Lj6P608T31' => 'lonja', 'LjContig00408g0008879' => 'lja', 'Lsat_1_v5_gn_5_105820' => 'lsa', 'Lsat_1_v5_gn_6_38800' => 'lsa', 'Lsat_1_v5_gn_7_67141' => 'lsa', 'Manes.04G003400' => 'mes', 'Manes.07G020000' => 'mes', 'Manes.07G020100' => 'mes', 'Manes.07G020150' => 'mes', 'Manes.10G061500' => 'mes', 'Manes.10G123200' => 'mes', 'Manes.11G161900' => 'mes', 'Manes.15G029300' => 'mes', 'Mapoly0071s0018' => 'mpo', 'Mapoly0082s0023' => 'mpo', 'Mapoly3477s0001' => 'mpo', 'MBI05_g31233_MAGBIO' => 'mbi', 'MBI09_g05946_MAGBIO' => 'mbi', 'MBI09_g05947_MAGBIO' => 'mbi', 'MBI17_g08346_MAGBIO' => 'mbi', 'MCO04G038' => 'mco', 'MCO09G370' => 'mco', 'MCO13G605' => 'mco', 'MD00G1075500' => 'mdo', 'MD03G1144300' => 'mdo', 'MD08G1236800' => 'mdo', 'MD13G1193300' => 'mdo', 'MD15G1428700' => 'mdo', 'Medtr1g112030' => 'mtr', 'Medtr1g112050' => 'mtr', 'Medtr2g006290' => 'mtr', 'Medtr2g086510' => 'mtr', 'Medtr4g053120' => 'mtr', 'Medtr5g006320' => 'mtr', 'Medtr8g088720' => 'mtr', 'MELO3C004712.2' => 'cme', 'MELO3C006533.2' => 'cme', 'MELO3C019438.2' => 'cme', 'MELO3C019440.2' => 'cme', 'MELO3C019441.2' => 'cme', 'MELO3C019895.2' => 'cme', 'Migut.B00811' => 'egut', 'Migut.D02447' => 'egut', 'Migut.F00875' => 'egut', 'Migut.N00186' => 'egut', 'Migut.N01051' => 'egut', 'Migut.N02491' => 'egut', 'Migut.O00784' => 'egut', 'MSTRG.12367' => 'ama', 'MSTRG.18756' => 'ama', 'MSTRG.21042' => 'ama', 'Nitab4.5_0000559g0040' => 'nta', 'Nitab4.5_0000667g0190' => 'nta', 'Nitab4.5_0000755g0160' => 'nta', 'Nitab4.5_0001216g0080' => 'nta', 'Nitab4.5_0004069g0040' => 'nta', 'Nitab4.5_0004129g0010' => 'nta', 'Nitab4.5_0005744g0030' => 'nta', 'Nitab4.5_0006996g0030' => 'nta', 'Nitab4.5_0008971g0040' => 'nta', 'Nitab4.5_0009769g0020' => 'nta', 'Nitab4.5_0009833g0010' => 'nta', 'Nitab4.5_0013140g0020' => 'nta', 'Nn003s41376' => 'nnu', 'Nn1g01857' => 'nnu', 'Nn1g03611' => 'nnu', 'Nn1g06853' => 'nnu', 'Nn3g18360' => 'nnu', 'Nn4g26328' => 'nnu', 'Nn5g27531' => 'nnu', 'Nn6g34899' => 'nnu', 'Nn7g36299' => 'nnu', 'Oeu021485.1' => 'oeu', 'Oeu022433.1' => 'oeu', 'Oeu032111.1' => 'oeu', 'Oeu051608.1' => 'oeu', 'Os01g0860601' => 'osa', 'Os03g0659200' => 'osa', 'Os03g0835900' => 'osa', 'Os04g0412200' => 'osa', 'Os05g0443500' => 'osa', 'Os07g0251500' => 'osa', 'Os08g0104600' => 'osa', 'Peaxi162Scf00003g00047' => 'pax', 'Peaxi162Scf00003g00052' => 'pax', 'Peaxi162Scf00003g00394' => 'pax', 'Peaxi162Scf00091g00621' => 'pax', 'Peaxi162Scf00152g00146' => 'pax', 'Peaxi162Scf00173g00025' => 'pax', 'Peaxi162Scf00195g00102' => 'pax', 'Peaxi162Scf00402g00013' => 'pax', 'Peaxi162Scf00519g00618' => 'pax', 'PGR004G2838' => 'pgr', 'PGR044G2275' => 'pgr', 'PGR102G1377' => 'pgr', 'PGR119G1245' => 'pgr', 'PGR142G4449' => 'pgr', 'PGSC0003DMG400004532' => 'stu', 'PGSC0003DMG400011950' => 'stu', 'PGSC0003DMG400023391' => 'stu', 'PGSC0003DMG400023985' => 'stu', 'PGSC0003DMG400026360' => 'stu', 'PGSC0003DMG400035711' => 'stu', 'PGSC0003DMG400037286' => 'stu', 'PGSC0003DMG402005881' => 'stu', 'Phvul.002G045400' => 'pvu', 'Phvul.006G216600' => 'pvu', 'Phvul.006G216700' => 'pvu', 'Phvul.006G216800' => 'pvu', 'Phvul.007G022500' => 'pvu', 'Phvul.011G094400' => 'pvu', 'Potri.001G470700' => 'ptr', 'Potri.003G015200' => 'ptr', 'Potri.004G202500' => 'ptr', 'Potri.004G218400' => 'ptr', 'Potri.008G020100' => 'ptr', 'Potri.008G153200' => 'ptr', 'Potri.009G163800' => 'ptr', 'Potri.010G087300' => 'ptr', 'Potri.010G239100' => 'ptr', 'Pp3c10_16100' => 'ppa', 'Pp3c10_16880' => 'ppa', 'Pp3c16_6230' => 'ppa', 'Pp3c17_18910' => 'ppa', 'Pp3c3_22119' => 'ppa', 'Pp3c3_22140' => 'ppa', 'Pp3c4_8159' => 'ppa', 'Pp3c4_8171' => 'ppa', 'Pp3c4_8330' => 'ppa', 'PRCOL_00004098' => 'pco', 'Prupe.1G013900' => 'ppe', 'Prupe.1G226300' => 'ppe', 'Prupe.1G573600' => 'ppe', 'Prupe.6G130100' => 'ppe', 'Psat3g090040' => 'psa', 'Psat4g210440' => 'psa', 'Psat6g231040' => 'psa', 'Psat6g231080' => 'psa', 'Psat7g063000' => 'psa', 'Psat7g188000' => 'psa', 'Psat7g188040' => 'psa', 'PSO017G0206' => 'pso', 'PSO170G0501' => 'pso', 'PSO170G6422' => 'pso', 'PSO210G7739' => 'pso', 'PSO339G1808' => 'pso', 'PSO339G6135' => 'pso', 'PSO384G0010' => 'pso', 'PSO384G0964' => 'pso', 'PSO761G0050' => 'pso', 'PSO782G4085' => 'pso', 'QL01p012264' => 'qlo', 'QL02p099491' => 'qlo', 'QL03p033868' => 'qlo', 'QL04p046678' => 'qlo', 'QL06p002448' => 'qlo', 'RcHm_v2.0_Chr4g0416181' => 'rch', 'RcHm_v2.0_Chr5g0044701' => 'rch', 'RcHm_v2.0_Chr6g0265781' => 'rch', 'RcHm_v2.0_Chr7g0221031' => 'rch', 'Rhsim04G0202000' => 'rsi', 'Rhsim11G0127300' => 'rsi', 'Rhsim13G0111800' => 'rsi', 'Sabra01G0165600' => 'sbr', 'Sabra03G0008300' => 'sbr', 'Sabra04G0136900' => 'sbr', 'Sabra08G0013400' => 'sbr', 'Sabra08G0116800' => 'sbr', 'Sabra09G0128000' => 'sbr', 'Sabra10G0055500' => 'sbr', 'Sabra10G0073300' => 'sbr', 'SalBow3G0385' => 'sbo', 'SalBow3G1119' => 'sbo', 'SalBow3G2005' => 'sbo', 'SalBow6G2563' => 'sbo', 'SalBow6G6386' => 'sbo', 'Sc06g0008800' => 'sci', 'Sc07g0004950' => 'sci', 'Sc09g0005340' => 'sci', 'Sc13g0004410' => 'sci', 'Sc21g0007090' => 'sci', 'Sed0009285' => 'sed', 'Sed0017583' => 'sed', 'Sed0019699' => 'sed', 'Sed0023107' => 'sed', 'SEGI_10916' => 'sgi', 'SEGI_16217' => 'sgi', 'SEGI_19466' => 'sgi', 'SEGI_41115' => 'sgi', 'SGA_v2.0_scaffold111G31534' => 'sas', 'SGA_v2.0_scaffold22G09864' => 'sas', 'SGA_v2.0_scaffold338G49219' => 'sas', 'SGA_v2.0_scaffold92G28298' => 'sas', 'SMO119G0064' => 'smo', 'SMO223G0038' => 'smo', 'SMO347G0584' => 'smo', 'SMO351G0010' => 'smo', 'SMO356G0404' => 'smo', 'Solyc01g103920.3' => 'sly', 'Solyc04g009710.2' => 'sly', 'Solyc05g055280.2' => 'sly', 'Solyc10g044520.3' => 'sly', 'Solyc10g075160.1' => 'sly', 'Solyc11g006910.3' => 'sly', 'Solyc11g068430.3' => 'sly', 'Sopen01g046310' => 'spe', 'Sopen03g001200' => 'spe', 'Sopen04g004830' => 'spe', 'Sopen05g033720' => 'spe', 'Sopen06g030740' => 'spe', 'Sopen10g013090' => 'spe', 'Sopen10g027630' => 'spe', 'Sopen10g027640' => 'spe', 'Sopen11g002820' => 'spe', 'Sopen11g027140' => 'spe', 'Sp1g09680' => 'spa', 'Sp2g03630' => 'spa', 'Sp4g10320' => 'spa', 'Sp6g33400' => 'spa', 'Sp7g13030' => 'spa', 'TAR365G0317' => 'tar', 'TAR376G0979' => 'tar', 'TAR623G1665' => 'tar', 'TAR633G2373' => 'tar', 'TAR636G1400' => 'tar', 'THA.LOC104800529' => 'tha', 'THA.LOC104808547' => 'tha', 'THA.LOC104809615' => 'tha', 'THA.LOC104815724' => 'tha', 'THA.LOC104818480' => 'tha', 'THA.LOC104819179' => 'tha', 'THA.LOC104822270' => 'tha', 'THA.LOC104826425' => 'tha', 'Thecc.02G089700' => 'tca', 'Thecc.04G232300' => 'tca', 'Thecc.09G283400' => 'tca', 'Thhalv10009020m.g' => 'esa', 'Thhalv10015506m.g' => 'esa', 'Thhalv10017364m.g' => 'esa', 'Thhalv10023742m.g' => 'esa', 'Thhalv10026483m.g' => 'esa', 'TPR.G17232' => 'tpr', 'TPR.G2133' => 'tpr', 'TPR.G2498' => 'tpr', 'TPR.G31942' => 'tpr', 'TPR.G37877' => 'tpr', 'TPR.G4571' => 'tpr', 'TWI14G1113' => 'twi', 'TWI15G0426' => 'twi', 'TWI31G1005' => 'twi', 'TWI38G0513' => 'twi', 'TWI38G1484' => 'twi', 'TWI73G1098' => 'twi', 'unitig_26.g10519' => 'ugi', 'unitig_736.g22395' => 'ugi', 'unitig_747.g21234' => 'ugi', 'unitig_747.g21942' => 'ugi', 'vmacro14351' => 'vma', 'VMungo0540G0082' => 'vmu', 'VMungo0540G0405' => 'vmu', 'VMungo0540G1486' => 'vmu', 'VMungo0540G1692' => 'vmu', 'VMungo0720G2473' => 'vmu', 'VMungo1127G1562' => 'vmu', 'VMungo1215G1918' => 'vmu', 'Zm00001eb052650' => 'zma', 'Zm00001eb063710' => 'zma', 'Zm00001eb083950' => 'zma', 'Zm00001eb174420' => 'zma', 'Zm00001eb260140' => 'zma', 'Zm00001eb260150' => 'zma', 'Zm00001eb260160' => 'zma', 'Zm00001eb348290' => 'zma', 'Zm00001eb366870' => 'zma', 'Zm00001eb421930' => 'zma' ), 'gf_id' => 'HOM05D001025', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001025' ), 'data_identifier' => 'HOM05D001025', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001025', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '592', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p22650' => 'bna', 'A01p29720' => 'bna', 'A03p26560' => 'bna', 'A03p68820' => 'bna', 'A04p20980' => 'bna', 'A06p07730' => 'bna', 'A07p18260' => 'bna', 'A08p33710' => 'bna', 'A09p16970' => 'bna', 'A10p27490' => 'bna', 'Aa31LG1G17300' => 'aar', 'Aa31LG1G3910' => 'aar', 'Aa31LG2G9630' => 'aar', 'Aa31LG5G8360' => 'aar', 'Aa31LG9G2410' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4699' => 'aag', 'Actinidia23512' => 'ach', 'Actinidia37080' => 'ach', 'Ah.01g020380' => 'amhyb', 'Ah.08g215710' => 'amhyb', 'Ah.09g225110' => 'amhyb', 'Ah.10g036680' => 'amhyb', 'AL1G21940' => 'aly', 'AL2G15540' => 'aly', 'AL4G21520' => 'aly', 'AL7G40960' => 'aly', 'Aqoxy2G01191' => 'aox', 'Aqoxy2G03393' => 'aox', 'Aqoxy4G02775' => 'aox', 'Aqoxy6G00058' => 'aox', 'arahy.Tifrunner.gnm1.ann1.9X74H2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CW3FX9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R485W7' => 'arhy', 'AT1G10960' => 'ath', 'AT1G60950' => 'ath', 'AT2G27510' => 'ath', 'AT4G14890' => 'ath', 'AT5G10000' => 'ath', 'ATR0665G624' => 'atr', 'ATR0697G138' => 'atr', 'ATR0776G046' => 'atr', 'ATR1134G135' => 'atr', 'Atru.chr12.1025' => 'acertr', 'Atru.chr3.3241' => 'acertr', 'Atru.chr4.2460' => 'acertr', 'AUR62007427' => 'cqu', 'AUR62010960' => 'cqu', 'AUR62012201' => 'cqu', 'AUR62021470' => 'cqu', 'AUR62022834' => 'cqu', 'AUR62033635' => 'cqu', 'AUR62036186' => 'cqu', 'BcaB01g03077' => 'bca', 'BcaB02g10093' => 'bca', 'BcaB04g20295' => 'bca', 'BcaB06g28147' => 'bca', 'BcaB07g31253' => 'bca', 'BcaC01g04946' => 'bca', 'BcaC02g10614' => 'bca', 'BcaC02g10885' => 'bca', 'BcaC04g19356' => 'bca', 'BcaC04g22297' => 'bca', 'BcaC05g24977' => 'bca', 'BcaC06g31823' => 'bca', 'BcaC07g38633' => 'bca', 'BcaC09g49353' => 'bca', 'BcaC09g50168' => 'bca', 'BcaNung00322' => 'bca', 'BcaNung04769' => 'bca', 'BolC1t02753H' => 'bol', 'BolC1t03721H' => 'bol', 'BolC3t15525H' => 'bol', 'BolC4t23903H' => 'bol', 'BolC4t24231H' => 'bol', 'BolC4t27209H' => 'bol', 'BolC5t29671H' => 'bol', 'BolC8t49044H' => 'bol', 'BolC9t54999H' => 'bol', 'BolC9t59517H' => 'bol', 'BraA01t02178Z' => 'bra', 'BraA01t03099Z' => 'bra', 'BraA03t11867Z' => 'bra', 'BraA04t17667Z' => 'bra', 'BraA07t29542Z' => 'bra', 'BraA08t35287Z' => 'bra', 'BraA09t37334Z' => 'bra', 'BraA10t44801Z' => 'bra', 'BraSC39t46181Z' => 'bra', 'C01p28240' => 'bna', 'C01p37530' => 'bna', 'C03p31820' => 'bna', 'C04p24080' => 'bna', 'C04p25790' => 'bna', 'C04p56770' => 'bna', 'C05p09310' => 'bna', 'C09p21010' => 'bna', 'C09p67560' => 'bna', 'CAN.G1324.7' => 'can', 'CAN.G1358.10' => 'can', 'CAN.G1550.2' => 'can', 'CAN.G186.56' => 'can', 'CAN.G1965.1' => 'can', 'CAN.G645.15' => 'can', 'CAN.G798.26' => 'can', 'CAN.G798.27' => 'can', 'CAN.G798.29' => 'can', 'CAN.G919.31' => 'can', 'CANSAT11G0133' => 'cansat', 'CANSAT11G1171' => 'cansat', 'CANSAT11G2056' => 'cansat', 'CANSAT56G1202' => 'cansat', 'CANSAT56G1514' => 'cansat', 'CANSAT78G0455' => 'cansat', 'CARHR011190' => 'chi', 'CARHR051980' => 'chi', 'CARHR120170' => 'chi', 'CARHR203310' => 'chi', 'CARHR221490' => 'chi', 'Carub.0001s1054' => 'cru', 'Carub.0002s0431' => 'cru', 'Carub.0004s0818' => 'cru', 'Carub.0006s0846' => 'cru', 'Carub.0007s2722' => 'cru', 'Ca_00058_v3' => 'car', 'Ca_17831_v3' => 'car', 'Ca_19408_v3' => 'car', 'Ca_24397_v3' => 'car', 'Ca_25664_v3' => 'car', 'CBR_g21818' => 'cbr', 'CBR_g31195' => 'cbr', 'CBR_g32282' => 'cbr', 'CBR_g39599' => 'cbr', 'CBR_g49410' => 'cbr', 'Cc01_g09120' => 'ccan', 'Cc01_g09130' => 'ccan', 'Cc02_g09630' => 'ccan', 'Cc02_g22810' => 'ccan', 'Cc03_g03810' => 'ccan', 'CDE02G3718' => 'cde', 'CDE04G3183' => 'cde', 'CDE07G1046' => 'cde', 'CDE08G0480' => 'cde', 'Cfa005493' => 'cfa', 'Cfa010312' => 'cfa', 'Cfa015648' => 'cfa', 'Ciclev10002793m.g' => 'ccl', 'Ciclev10003356m.g' => 'ccl', 'Ciclev10006141m.g' => 'ccl', 'Ciclev10016676m.g' => 'ccl', 'Ciclev10017081m.g' => 'ccl', 'Ciclev10029499m.g' => 'ccl', 'CiPaw.01G166300' => 'cil', 'CiPaw.06G145600' => 'cil', 'CiPaw.13G040100' => 'cil', 'CiPaw.13G135800' => 'cil', 'ClCG01G012230' => 'cla', 'ClCG05G009510' => 'cla', 'ClCG08G008270' => 'cla', 'COL.COLO4_11763' => 'col', 'COL.COLO4_19876' => 'col', 'COL.COLO4_21481' => 'col', 'Cpa.g.sc118.34' => 'cpa', 'Cpa.g.sc32.13' => 'cpa', 'Cpa.g.sc58.103' => 'cpa', 'Cre03.g183850' => 'cre', 'Cre06.g306350' => 'cre', 'Cre07.g334800' => 'cre', 'Cre12.g487900' => 'cre', 'Cre14.g626700' => 'cre', 'Cre16.g658400' => 'cre', 'Cre17.g700950' => 'cre', 'CsaV3_1G014830' => 'csa', 'CsaV3_3G013320' => 'csa', 'CsaV3_3G019210' => 'csa', 'CsaV3_3G019220' => 'csa', 'CsaV3_6G004230' => 'csa', 'CSS0003773' => 'camsi', 'CSS0004563' => 'camsi', 'CSS0013949' => 'camsi', 'CSS0025971' => 'camsi', 'CSS0028570' => 'camsi', 'CSS0033127' => 'camsi', 'CSS0036051' => 'camsi', 'CSS0040087' => 'camsi', 'CSS0043179' => 'camsi', 'DCAR_006161' => 'dca', 'DCAR_010351' => 'dca', 'DCAR_012197' => 'dca', 'DCAR_024162' => 'dca', 'Dinv01030' => 'din', 'Dinv10924' => 'din', 'Dinv11835' => 'din', 'Dinv22841' => 'din', 'Dinv42553' => 'din', 'Duzib052G0560' => 'dzi', 'Duzib132G0389' => 'dzi', 'Duzib150G1181' => 'dzi', 'Duzib168G0623' => 'dzi', 'Duzib170G1036' => 'dzi', 'Duzib212G0200' => 'dzi', 'Duzib248G0194' => 'dzi', 'ECA232G2193' => 'eca', 'ECA233G0302' => 'eca', 'ECA234G2813' => 'eca', 'ECA234G4866' => 'eca', 'ECA240G3932' => 'eca', 'ECA248G0385' => 'eca', 'EL10Ac2g04781' => 'bvu', 'EL10Ac3g06445' => 'bvu', 'EL10Ac7g15825' => 'bvu', 'EL10Ac8g18550' => 'bvu', 'Eucgr.B03849' => 'egr', 'Eucgr.I02744' => 'egr', 'Eucgr.J00264' => 'egr', 'Eucgr.J00493' => 'egr', 'FAN04G2181' => 'fan', 'FAN07G2666' => 'fan', 'FAN11G0024' => 'fan', 'FAN12G1105' => 'fan', 'FAN13G0302' => 'fan', 'FAN15G2781' => 'fan', 'FAN16G1274' => 'fan', 'FAN17G2988' => 'fan', 'FAN18G2621' => 'fan', 'FAN21G0013' => 'fan', 'FAN22G1211' => 'fan', 'FAN25G3626' => 'fan', 'FvH4_2g09491' => 'fve', 'FvH4_3g24910' => 'fve', 'FvH4_4g15630' => 'fve', 'FvH4_5g28820' => 'fve', 'Glyma.01G238000' => 'gma', 'Glyma.05G168400' => 'gma', 'Glyma.08G126800' => 'gma', 'Glyma.08G188500' => 'gma', 'Glyma.10G278900' => 'gma', 'Glyma.11G005700' => 'gma', 'Glyma.11G183300' => 'gma', 'Glyma.12G089200' => 'gma', 'Glyma.12G169400' => 'gma', 'Glyma.12G169500' => 'gma', 'Glyma.12G169600' => 'gma', 'Glyma.20G110800' => 'gma', 'Gohir.A03G192900' => 'ghi', 'Gohir.A03G193000' => 'ghi', 'Gohir.A05G080700' => 'ghi', 'Gohir.A09G216000' => 'ghi', 'Gohir.A12G027700' => 'ghi', 'Gohir.A13G036200' => 'ghi', 'Gohir.A13G222600' => 'ghi', 'Gohir.D02G213900' => 'ghi', 'Gohir.D02G214000' => 'ghi', 'Gohir.D05G083700' => 'ghi', 'Gohir.D05G083800' => 'ghi', 'Gohir.D05G083850' => 'ghi', 'Gohir.D08G015400' => 'ghi', 'Gohir.D09G218400' => 'ghi', 'Gohir.D12G027100' => 'ghi', 'Gohir.D13G034500' => 'ghi', 'Gohir.D13G227400' => 'ghi', 'Gorai.005G241800' => 'gra', 'Gorai.005G241900' => 'gra', 'Gorai.006G239400' => 'gra', 'Gorai.008G027600' => 'gra', 'Gorai.009G085400' => 'gra', 'Gorai.009G085500' => 'gra', 'Gorai.013G039000' => 'gra', 'Gorai.013G194800' => 'gra', 'Gorai.013G257900' => 'gra', 'GSVIVG01000982001' => 'vvi', 'GSVIVG01017981001' => 'vvi', 'HanXRQChr01g0024061' => 'han', 'HanXRQChr09g0247831' => 'han', 'HanXRQChr10g0294611' => 'han', 'HanXRQChr10g0294621' => 'han', 'HanXRQChr11g0346821' => 'han', 'HanXRQChr13g0397461' => 'han', 'HanXRQChr16g0513651' => 'han', 'HanXRQChr16g0513701' => 'han', 'Haze_00897' => 'cav', 'Haze_01745' => 'cav', 'Haze_02486' => 'cav', 'Haze_02487' => 'cav', 'Haze_23374' => 'cav', 'Hma1.2p1_0578F.1_g182520' => 'hma', 'Hma1.2p1_0602F.1_g187350' => 'hma', 'Hma1.2p1_0602F.1_g187360' => 'hma', 'Hma1.2p1_0874F.1_g231320' => 'hma', 'Hma1.2p1_1197F.1_g266210' => 'hma', 'Hma1.2p1_1197F.1_g266220' => 'hma', 'Hma1.2p1_2167F.1_g315895' => 'hma', 'Hma1.2p1_2190F.1_g316640' => 'hma', 'Hma1.2p1_3645F.1_g337153' => 'hma', 'HPP92_004907' => 'vpl', 'HPP92_012134' => 'vpl', 'HPP92_025136' => 'vpl', 'HPP92_026087' => 'vpl', 'Hund06782' => 'sun', 'Hund06784' => 'sun', 'Lalb_Chr01g0004861' => 'lal', 'Lalb_Chr02g0140591' => 'lal', 'Lalb_Chr02g0140611' => 'lal', 'Lalb_Chr03g0028101' => 'lal', 'Lalb_Chr07g0185791' => 'lal', 'Lalb_Chr12g0204491' => 'lal', 'Lalb_Chr13g0295671' => 'lal', 'Lalb_Chr19g0136461' => 'lal', 'Lalb_Chr21g0309191' => 'lal', 'Lj1g0028158' => 'lja', 'Lj1P236T38' => 'lonja', 'Lj2C32G2' => 'lonja', 'Lj2P944T8' => 'lonja', 'Lj2P963T15' => 'lonja', 'Lj3g0011788' => 'lja', 'Lj4g0025027' => 'lja', 'Lj5P255T36' => 'lonja', 'Lj6g0018866' => 'lja', 'Lj6P608T31' => 'lonja', 'LjContig00408g0008879' => 'lja', 'Lsat_1_v5_gn_5_105820' => 'lsa', 'Lsat_1_v5_gn_6_38800' => 'lsa', 'Lsat_1_v5_gn_7_67141' => 'lsa', 'Manes.04G003400' => 'mes', 'Manes.07G020000' => 'mes', 'Manes.07G020100' => 'mes', 'Manes.07G020150' => 'mes', 'Manes.10G061500' => 'mes', 'Manes.10G123200' => 'mes', 'Manes.11G161900' => 'mes', 'Manes.15G029300' => 'mes', 'Mapoly0071s0018' => 'mpo', 'Mapoly0082s0023' => 'mpo', 'Mapoly3477s0001' => 'mpo', 'MBI05_g31233_MAGBIO' => 'mbi', 'MBI09_g05946_MAGBIO' => 'mbi', 'MBI09_g05947_MAGBIO' => 'mbi', 'MBI17_g08346_MAGBIO' => 'mbi', 'MCO04G038' => 'mco', 'MCO09G370' => 'mco', 'MCO13G605' => 'mco', 'MD00G1075500' => 'mdo', 'MD03G1144300' => 'mdo', 'MD08G1236800' => 'mdo', 'MD13G1193300' => 'mdo', 'MD15G1428700' => 'mdo', 'Medtr1g112030' => 'mtr', 'Medtr1g112050' => 'mtr', 'Medtr2g006290' => 'mtr', 'Medtr2g086510' => 'mtr', 'Medtr4g053120' => 'mtr', 'Medtr5g006320' => 'mtr', 'Medtr8g088720' => 'mtr', 'MELO3C004712.2' => 'cme', 'MELO3C006533.2' => 'cme', 'MELO3C019438.2' => 'cme', 'MELO3C019440.2' => 'cme', 'MELO3C019441.2' => 'cme', 'MELO3C019895.2' => 'cme', 'Migut.B00811' => 'egut', 'Migut.D02447' => 'egut', 'Migut.F00875' => 'egut', 'Migut.N00186' => 'egut', 'Migut.N01051' => 'egut', 'Migut.N02491' => 'egut', 'Migut.O00784' => 'egut', 'MSTRG.12367' => 'ama', 'MSTRG.18756' => 'ama', 'MSTRG.21042' => 'ama', 'Nitab4.5_0000559g0040' => 'nta', 'Nitab4.5_0000667g0190' => 'nta', 'Nitab4.5_0000755g0160' => 'nta', 'Nitab4.5_0001216g0080' => 'nta', 'Nitab4.5_0004069g0040' => 'nta', 'Nitab4.5_0004129g0010' => 'nta', 'Nitab4.5_0005744g0030' => 'nta', 'Nitab4.5_0006996g0030' => 'nta', 'Nitab4.5_0008971g0040' => 'nta', 'Nitab4.5_0009769g0020' => 'nta', 'Nitab4.5_0009833g0010' => 'nta', 'Nitab4.5_0013140g0020' => 'nta', 'Nn003s41376' => 'nnu', 'Nn1g01857' => 'nnu', 'Nn1g03611' => 'nnu', 'Nn1g06853' => 'nnu', 'Nn3g18360' => 'nnu', 'Nn4g26328' => 'nnu', 'Nn5g27531' => 'nnu', 'Nn6g34899' => 'nnu', 'Nn7g36299' => 'nnu', 'Oeu021485.1' => 'oeu', 'Oeu022433.1' => 'oeu', 'Oeu032111.1' => 'oeu', 'Oeu051608.1' => 'oeu', 'Os01g0860601' => 'osa', 'Os03g0659200' => 'osa', 'Os03g0835900' => 'osa', 'Os04g0412200' => 'osa', 'Os05g0443500' => 'osa', 'Os07g0251500' => 'osa', 'Os08g0104600' => 'osa', 'Peaxi162Scf00003g00047' => 'pax', 'Peaxi162Scf00003g00052' => 'pax', 'Peaxi162Scf00003g00394' => 'pax', 'Peaxi162Scf00091g00621' => 'pax', 'Peaxi162Scf00152g00146' => 'pax', 'Peaxi162Scf00173g00025' => 'pax', 'Peaxi162Scf00195g00102' => 'pax', 'Peaxi162Scf00402g00013' => 'pax', 'Peaxi162Scf00519g00618' => 'pax', 'PGR004G2838' => 'pgr', 'PGR044G2275' => 'pgr', 'PGR102G1377' => 'pgr', 'PGR119G1245' => 'pgr', 'PGR142G4449' => 'pgr', 'PGSC0003DMG400004532' => 'stu', 'PGSC0003DMG400011950' => 'stu', 'PGSC0003DMG400023391' => 'stu', 'PGSC0003DMG400023985' => 'stu', 'PGSC0003DMG400026360' => 'stu', 'PGSC0003DMG400035711' => 'stu', 'PGSC0003DMG400037286' => 'stu', 'PGSC0003DMG402005881' => 'stu', 'Phvul.002G045400' => 'pvu', 'Phvul.006G216600' => 'pvu', 'Phvul.006G216700' => 'pvu', 'Phvul.006G216800' => 'pvu', 'Phvul.007G022500' => 'pvu', 'Phvul.011G094400' => 'pvu', 'Potri.001G470700' => 'ptr', 'Potri.003G015200' => 'ptr', 'Potri.004G202500' => 'ptr', 'Potri.004G218400' => 'ptr', 'Potri.008G020100' => 'ptr', 'Potri.008G153200' => 'ptr', 'Potri.009G163800' => 'ptr', 'Potri.010G087300' => 'ptr', 'Potri.010G239100' => 'ptr', 'Pp3c10_16100' => 'ppa', 'Pp3c10_16880' => 'ppa', 'Pp3c16_6230' => 'ppa', 'Pp3c17_18910' => 'ppa', 'Pp3c3_22119' => 'ppa', 'Pp3c3_22140' => 'ppa', 'Pp3c4_8159' => 'ppa', 'Pp3c4_8171' => 'ppa', 'Pp3c4_8330' => 'ppa', 'PRCOL_00004098' => 'pco', 'Prupe.1G013900' => 'ppe', 'Prupe.1G226300' => 'ppe', 'Prupe.1G573600' => 'ppe', 'Prupe.6G130100' => 'ppe', 'Psat3g090040' => 'psa', 'Psat4g210440' => 'psa', 'Psat6g231040' => 'psa', 'Psat6g231080' => 'psa', 'Psat7g063000' => 'psa', 'Psat7g188000' => 'psa', 'Psat7g188040' => 'psa', 'PSO017G0206' => 'pso', 'PSO170G0501' => 'pso', 'PSO170G6422' => 'pso', 'PSO210G7739' => 'pso', 'PSO339G1808' => 'pso', 'PSO339G6135' => 'pso', 'PSO384G0010' => 'pso', 'PSO384G0964' => 'pso', 'PSO761G0050' => 'pso', 'PSO782G4085' => 'pso', 'QL01p012264' => 'qlo', 'QL02p099491' => 'qlo', 'QL03p033868' => 'qlo', 'QL04p046678' => 'qlo', 'QL06p002448' => 'qlo', 'RcHm_v2.0_Chr4g0416181' => 'rch', 'RcHm_v2.0_Chr5g0044701' => 'rch', 'RcHm_v2.0_Chr6g0265781' => 'rch', 'RcHm_v2.0_Chr7g0221031' => 'rch', 'Rhsim04G0202000' => 'rsi', 'Rhsim11G0127300' => 'rsi', 'Rhsim13G0111800' => 'rsi', 'Sabra01G0165600' => 'sbr', 'Sabra03G0008300' => 'sbr', 'Sabra04G0136900' => 'sbr', 'Sabra08G0013400' => 'sbr', 'Sabra08G0116800' => 'sbr', 'Sabra09G0128000' => 'sbr', 'Sabra10G0055500' => 'sbr', 'Sabra10G0073300' => 'sbr', 'SalBow3G0385' => 'sbo', 'SalBow3G1119' => 'sbo', 'SalBow3G2005' => 'sbo', 'SalBow6G2563' => 'sbo', 'SalBow6G6386' => 'sbo', 'Sc06g0008800' => 'sci', 'Sc07g0004950' => 'sci', 'Sc09g0005340' => 'sci', 'Sc13g0004410' => 'sci', 'Sc21g0007090' => 'sci', 'Sed0009285' => 'sed', 'Sed0017583' => 'sed', 'Sed0019699' => 'sed', 'Sed0023107' => 'sed', 'SEGI_10916' => 'sgi', 'SEGI_16217' => 'sgi', 'SEGI_19466' => 'sgi', 'SEGI_41115' => 'sgi', 'SGA_v2.0_scaffold111G31534' => 'sas', 'SGA_v2.0_scaffold22G09864' => 'sas', 'SGA_v2.0_scaffold338G49219' => 'sas', 'SGA_v2.0_scaffold92G28298' => 'sas', 'SMO119G0064' => 'smo', 'SMO223G0038' => 'smo', 'SMO347G0584' => 'smo', 'SMO351G0010' => 'smo', 'SMO356G0404' => 'smo', 'Solyc01g103920.3' => 'sly', 'Solyc04g009710.2' => 'sly', 'Solyc05g055280.2' => 'sly', 'Solyc10g044520.3' => 'sly', 'Solyc10g075160.1' => 'sly', 'Solyc11g006910.3' => 'sly', 'Solyc11g068430.3' => 'sly', 'Sopen01g046310' => 'spe', 'Sopen03g001200' => 'spe', 'Sopen04g004830' => 'spe', 'Sopen05g033720' => 'spe', 'Sopen06g030740' => 'spe', 'Sopen10g013090' => 'spe', 'Sopen10g027630' => 'spe', 'Sopen10g027640' => 'spe', 'Sopen11g002820' => 'spe', 'Sopen11g027140' => 'spe', 'Sp1g09680' => 'spa', 'Sp2g03630' => 'spa', 'Sp4g10320' => 'spa', 'Sp6g33400' => 'spa', 'Sp7g13030' => 'spa', 'TAR365G0317' => 'tar', 'TAR376G0979' => 'tar', 'TAR623G1665' => 'tar', 'TAR633G2373' => 'tar', 'TAR636G1400' => 'tar', 'THA.LOC104800529' => 'tha', 'THA.LOC104808547' => 'tha', 'THA.LOC104809615' => 'tha', 'THA.LOC104815724' => 'tha', 'THA.LOC104818480' => 'tha', 'THA.LOC104819179' => 'tha', 'THA.LOC104822270' => 'tha', 'THA.LOC104826425' => 'tha', 'Thecc.02G089700' => 'tca', 'Thecc.04G232300' => 'tca', 'Thecc.09G283400' => 'tca', 'Thhalv10009020m.g' => 'esa', 'Thhalv10015506m.g' => 'esa', 'Thhalv10017364m.g' => 'esa', 'Thhalv10023742m.g' => 'esa', 'Thhalv10026483m.g' => 'esa', 'TPR.G17232' => 'tpr', 'TPR.G2133' => 'tpr', 'TPR.G2498' => 'tpr', 'TPR.G31942' => 'tpr', 'TPR.G37877' => 'tpr', 'TPR.G4571' => 'tpr', 'TWI14G1113' => 'twi', 'TWI15G0426' => 'twi', 'TWI31G1005' => 'twi', 'TWI38G0513' => 'twi', 'TWI38G1484' => 'twi', 'TWI73G1098' => 'twi', 'unitig_26.g10519' => 'ugi', 'unitig_736.g22395' => 'ugi', 'unitig_747.g21234' => 'ugi', 'unitig_747.g21942' => 'ugi', 'vmacro14351' => 'vma', 'VMungo0540G0082' => 'vmu', 'VMungo0540G0405' => 'vmu', 'VMungo0540G1486' => 'vmu', 'VMungo0540G1692' => 'vmu', 'VMungo0720G2473' => 'vmu', 'VMungo1127G1562' => 'vmu', 'VMungo1215G1918' => 'vmu', 'Zm00001eb052650' => 'zma', 'Zm00001eb063710' => 'zma', 'Zm00001eb083950' => 'zma', 'Zm00001eb174420' => 'zma', 'Zm00001eb260140' => 'zma', 'Zm00001eb260150' => 'zma', 'Zm00001eb260160' => 'zma', 'Zm00001eb348290' => 'zma', 'Zm00001eb366870' => 'zma', 'Zm00001eb421930' => 'zma' ) $gf_id = 'HOM05D001025' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001025' ) $data_identifier = 'HOM05D001025' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 19, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 2, 'amhyb' => (int) 4, 'aly' => (int) 4, 'aox' => (int) 4, 'arhy' => (int) 3, 'ath' => (int) 5, 'atr' => (int) 4, 'acertr' => (int) 3, 'cqu' => (int) 7, 'bca' => (int) 17, 'bol' => (int) 10, 'bra' => (int) 9, 'can' => (int) 10, 'cansat' => (int) 6, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 5, 'cbr' => (int) 5, 'ccan' => (int) 5, 'cde' => (int) 4, 'cfa' => (int) 3, 'ccl' => (int) 6, 'cil' => (int) 4, 'cla' => (int) 3, 'col' => (int) 3, 'cpa' => (int) 3, 'cre' => (int) 7, 'csa' => (int) 5, 'camsi' => (int) 9, 'dca' => (int) 4, 'din' => (int) 5, 'dzi' => (int) 7, 'eca' => (int) 6, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 12, 'fve' => (int) 4, 'gma' => (int) 12, 'ghi' => (int) 17, 'gra' => (int) 9, 'vvi' => (int) 2, 'han' => (int) 8, 'cav' => (int) 5, 'hma' => (int) 9, 'vpl' => (int) 4, 'sun' => (int) 2, 'lal' => (int) 9, 'lja' => (int) 5, 'lonja' => (int) 6, 'lsa' => (int) 3, 'mes' => (int) 8, 'mpo' => (int) 3, 'mbi' => (int) 4, 'mco' => (int) 3, 'mdo' => (int) 5, 'mtr' => (int) 7, 'cme' => (int) 6, 'egut' => (int) 7, 'ama' => (int) 3, 'nta' => (int) 12, 'nnu' => (int) 9, 'oeu' => (int) 4, 'osa' => (int) 7, 'pax' => (int) 9, 'pgr' => (int) 5, 'stu' => (int) 8, 'pvu' => (int) 6, 'ptr' => (int) 9, 'ppa' => (int) 9, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 7, 'pso' => (int) 10, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 3, 'sbr' => (int) 8, 'sbo' => (int) 5, 'sci' => (int) 5, 'sed' => (int) 4, 'sgi' => (int) 4, 'sas' => (int) 4, 'smo' => (int) 5, 'sly' => (int) 7, 'spe' => (int) 10, 'spa' => (int) 5, 'tar' => (int) 5, 'tha' => (int) 8, 'tca' => (int) 3, 'esa' => (int) 5, 'tpr' => (int) 6, 'twi' => (int) 6, 'ugi' => (int) 4, 'vma' => (int) 1, 'vmu' => (int) 7, 'zma' => (int) 10 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb421930' $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' => 'HOM05D001025', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '592', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p22650' => 'bna', 'A01p29720' => 'bna', 'A03p26560' => 'bna', 'A03p68820' => 'bna', 'A04p20980' => 'bna', 'A06p07730' => 'bna', 'A07p18260' => 'bna', 'A08p33710' => 'bna', 'A09p16970' => 'bna', 'A10p27490' => 'bna', 'Aa31LG1G17300' => 'aar', 'Aa31LG1G3910' => 'aar', 'Aa31LG2G9630' => 'aar', 'Aa31LG5G8360' => 'aar', 'Aa31LG9G2410' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4699' => 'aag', 'Actinidia23512' => 'ach', 'Actinidia37080' => 'ach', 'Ah.01g020380' => 'amhyb', 'Ah.08g215710' => 'amhyb', 'Ah.09g225110' => 'amhyb', 'Ah.10g036680' => 'amhyb', 'AL1G21940' => 'aly', 'AL2G15540' => 'aly', 'AL4G21520' => 'aly', 'AL7G40960' => 'aly', 'Aqoxy2G01191' => 'aox', 'Aqoxy2G03393' => 'aox', 'Aqoxy4G02775' => 'aox', 'Aqoxy6G00058' => 'aox', 'arahy.Tifrunner.gnm1.ann1.9X74H2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CW3FX9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R485W7' => 'arhy', 'AT1G10960' => 'ath', 'AT1G60950' => 'ath', 'AT2G27510' => 'ath', 'AT4G14890' => 'ath', 'AT5G10000' => 'ath', 'ATR0665G624' => 'atr', 'ATR0697G138' => 'atr', 'ATR0776G046' => 'atr', 'ATR1134G135' => 'atr', 'Atru.chr12.1025' => 'acertr', 'Atru.chr3.3241' => 'acertr', 'Atru.chr4.2460' => 'acertr', 'AUR62007427' => 'cqu', 'AUR62010960' => 'cqu', 'AUR62012201' => 'cqu', 'AUR62021470' => 'cqu', 'AUR62022834' => 'cqu', 'AUR62033635' => 'cqu', 'AUR62036186' => 'cqu', 'BcaB01g03077' => 'bca', 'BcaB02g10093' => 'bca', 'BcaB04g20295' => 'bca', 'BcaB06g28147' => 'bca', 'BcaB07g31253' => 'bca', 'BcaC01g04946' => 'bca', 'BcaC02g10614' => 'bca', 'BcaC02g10885' => 'bca', 'BcaC04g19356' => 'bca', 'BcaC04g22297' => 'bca', 'BcaC05g24977' => 'bca', 'BcaC06g31823' => 'bca', 'BcaC07g38633' => 'bca', 'BcaC09g49353' => 'bca', 'BcaC09g50168' => 'bca', 'BcaNung00322' => 'bca', 'BcaNung04769' => 'bca', 'BolC1t02753H' => 'bol', 'BolC1t03721H' => 'bol', 'BolC3t15525H' => 'bol', 'BolC4t23903H' => 'bol', 'BolC4t24231H' => 'bol', 'BolC4t27209H' => 'bol', 'BolC5t29671H' => 'bol', 'BolC8t49044H' => 'bol', 'BolC9t54999H' => 'bol', 'BolC9t59517H' => 'bol', 'BraA01t02178Z' => 'bra', 'BraA01t03099Z' => 'bra', 'BraA03t11867Z' => 'bra', 'BraA04t17667Z' => 'bra', 'BraA07t29542Z' => 'bra', 'BraA08t35287Z' => 'bra', 'BraA09t37334Z' => 'bra', 'BraA10t44801Z' => 'bra', 'BraSC39t46181Z' => 'bra', 'C01p28240' => 'bna', 'C01p37530' => 'bna', 'C03p31820' => 'bna', 'C04p24080' => 'bna', 'C04p25790' => 'bna', 'C04p56770' => 'bna', 'C05p09310' => 'bna', 'C09p21010' => 'bna', 'C09p67560' => 'bna', 'CAN.G1324.7' => 'can', 'CAN.G1358.10' => 'can', 'CAN.G1550.2' => 'can', 'CAN.G186.56' => 'can', 'CAN.G1965.1' => 'can', 'CAN.G645.15' => 'can', 'CAN.G798.26' => 'can', 'CAN.G798.27' => 'can', 'CAN.G798.29' => 'can', 'CAN.G919.31' => 'can', 'CANSAT11G0133' => 'cansat', 'CANSAT11G1171' => 'cansat', 'CANSAT11G2056' => 'cansat', 'CANSAT56G1202' => 'cansat', 'CANSAT56G1514' => 'cansat', 'CANSAT78G0455' => 'cansat', 'CARHR011190' => 'chi', 'CARHR051980' => 'chi', 'CARHR120170' => 'chi', 'CARHR203310' => 'chi', 'CARHR221490' => 'chi', 'Carub.0001s1054' => 'cru', 'Carub.0002s0431' => 'cru', 'Carub.0004s0818' => 'cru', 'Carub.0006s0846' => 'cru', 'Carub.0007s2722' => 'cru', 'Ca_00058_v3' => 'car', 'Ca_17831_v3' => 'car', 'Ca_19408_v3' => 'car', 'Ca_24397_v3' => 'car', 'Ca_25664_v3' => 'car', 'CBR_g21818' => 'cbr', 'CBR_g31195' => 'cbr', 'CBR_g32282' => 'cbr', 'CBR_g39599' => 'cbr', 'CBR_g49410' => 'cbr', 'Cc01_g09120' => 'ccan', 'Cc01_g09130' => 'ccan', 'Cc02_g09630' => 'ccan', 'Cc02_g22810' => 'ccan', 'Cc03_g03810' => 'ccan', 'CDE02G3718' => 'cde', 'CDE04G3183' => 'cde', 'CDE07G1046' => 'cde', 'CDE08G0480' => 'cde', 'Cfa005493' => 'cfa', 'Cfa010312' => 'cfa', 'Cfa015648' => 'cfa', 'Ciclev10002793m.g' => 'ccl', 'Ciclev10003356m.g' => 'ccl', 'Ciclev10006141m.g' => 'ccl', 'Ciclev10016676m.g' => 'ccl', 'Ciclev10017081m.g' => 'ccl', 'Ciclev10029499m.g' => 'ccl', 'CiPaw.01G166300' => 'cil', 'CiPaw.06G145600' => 'cil', 'CiPaw.13G040100' => 'cil', 'CiPaw.13G135800' => 'cil', 'ClCG01G012230' => 'cla', 'ClCG05G009510' => 'cla', 'ClCG08G008270' => 'cla', 'COL.COLO4_11763' => 'col', 'COL.COLO4_19876' => 'col', 'COL.COLO4_21481' => 'col', 'Cpa.g.sc118.34' => 'cpa', 'Cpa.g.sc32.13' => 'cpa', 'Cpa.g.sc58.103' => 'cpa', 'Cre03.g183850' => 'cre', 'Cre06.g306350' => 'cre', 'Cre07.g334800' => 'cre', 'Cre12.g487900' => 'cre', 'Cre14.g626700' => 'cre', 'Cre16.g658400' => 'cre', 'Cre17.g700950' => 'cre', 'CsaV3_1G014830' => 'csa', 'CsaV3_3G013320' => 'csa', 'CsaV3_3G019210' => 'csa', 'CsaV3_3G019220' => 'csa', 'CsaV3_6G004230' => 'csa', 'CSS0003773' => 'camsi', 'CSS0004563' => 'camsi', 'CSS0013949' => 'camsi', 'CSS0025971' => 'camsi', 'CSS0028570' => 'camsi', 'CSS0033127' => 'camsi', 'CSS0036051' => 'camsi', 'CSS0040087' => 'camsi', 'CSS0043179' => 'camsi', 'DCAR_006161' => 'dca', 'DCAR_010351' => 'dca', 'DCAR_012197' => 'dca', 'DCAR_024162' => 'dca', 'Dinv01030' => 'din', 'Dinv10924' => 'din', 'Dinv11835' => 'din', 'Dinv22841' => 'din', 'Dinv42553' => 'din', 'Duzib052G0560' => 'dzi', 'Duzib132G0389' => 'dzi', 'Duzib150G1181' => 'dzi', 'Duzib168G0623' => 'dzi', 'Duzib170G1036' => 'dzi', 'Duzib212G0200' => 'dzi', 'Duzib248G0194' => 'dzi', 'ECA232G2193' => 'eca', 'ECA233G0302' => 'eca', 'ECA234G2813' => 'eca', 'ECA234G4866' => 'eca', 'ECA240G3932' => 'eca', 'ECA248G0385' => 'eca', 'EL10Ac2g04781' => 'bvu', 'EL10Ac3g06445' => 'bvu', 'EL10Ac7g15825' => 'bvu', 'EL10Ac8g18550' => 'bvu', 'Eucgr.B03849' => 'egr', 'Eucgr.I02744' => 'egr', 'Eucgr.J00264' => 'egr', 'Eucgr.J00493' => 'egr', 'FAN04G2181' => 'fan', 'FAN07G2666' => 'fan', 'FAN11G0024' => 'fan', 'FAN12G1105' => 'fan', 'FAN13G0302' => 'fan', 'FAN15G2781' => 'fan', 'FAN16G1274' => 'fan', 'FAN17G2988' => 'fan', 'FAN18G2621' => 'fan', 'FAN21G0013' => 'fan', 'FAN22G1211' => 'fan', 'FAN25G3626' => 'fan', 'FvH4_2g09491' => 'fve', 'FvH4_3g24910' => 'fve', 'FvH4_4g15630' => 'fve', 'FvH4_5g28820' => 'fve', 'Glyma.01G238000' => 'gma', 'Glyma.05G168400' => 'gma', 'Glyma.08G126800' => 'gma', 'Glyma.08G188500' => 'gma', 'Glyma.10G278900' => 'gma', 'Glyma.11G005700' => 'gma', 'Glyma.11G183300' => 'gma', 'Glyma.12G089200' => 'gma', 'Glyma.12G169400' => 'gma', 'Glyma.12G169500' => 'gma', 'Glyma.12G169600' => 'gma', 'Glyma.20G110800' => 'gma', 'Gohir.A03G192900' => 'ghi', 'Gohir.A03G193000' => 'ghi', 'Gohir.A05G080700' => 'ghi', 'Gohir.A09G216000' => 'ghi', 'Gohir.A12G027700' => 'ghi', 'Gohir.A13G036200' => 'ghi', 'Gohir.A13G222600' => 'ghi', 'Gohir.D02G213900' => 'ghi', 'Gohir.D02G214000' => 'ghi', 'Gohir.D05G083700' => 'ghi', 'Gohir.D05G083800' => 'ghi', 'Gohir.D05G083850' => 'ghi', 'Gohir.D08G015400' => 'ghi', 'Gohir.D09G218400' => 'ghi', 'Gohir.D12G027100' => 'ghi', 'Gohir.D13G034500' => 'ghi', 'Gohir.D13G227400' => 'ghi', 'Gorai.005G241800' => 'gra', 'Gorai.005G241900' => 'gra', 'Gorai.006G239400' => 'gra', 'Gorai.008G027600' => 'gra', 'Gorai.009G085400' => 'gra', 'Gorai.009G085500' => 'gra', 'Gorai.013G039000' => 'gra', 'Gorai.013G194800' => 'gra', 'Gorai.013G257900' => 'gra', 'GSVIVG01000982001' => 'vvi', 'GSVIVG01017981001' => 'vvi', 'HanXRQChr01g0024061' => 'han', 'HanXRQChr09g0247831' => 'han', 'HanXRQChr10g0294611' => 'han', 'HanXRQChr10g0294621' => 'han', 'HanXRQChr11g0346821' => 'han', 'HanXRQChr13g0397461' => 'han', 'HanXRQChr16g0513651' => 'han', 'HanXRQChr16g0513701' => 'han', 'Haze_00897' => 'cav', 'Haze_01745' => 'cav', 'Haze_02486' => 'cav', 'Haze_02487' => 'cav', 'Haze_23374' => 'cav', 'Hma1.2p1_0578F.1_g182520' => 'hma', 'Hma1.2p1_0602F.1_g187350' => 'hma', 'Hma1.2p1_0602F.1_g187360' => 'hma', 'Hma1.2p1_0874F.1_g231320' => 'hma', 'Hma1.2p1_1197F.1_g266210' => 'hma', 'Hma1.2p1_1197F.1_g266220' => 'hma', 'Hma1.2p1_2167F.1_g315895' => 'hma', 'Hma1.2p1_2190F.1_g316640' => 'hma', 'Hma1.2p1_3645F.1_g337153' => 'hma', 'HPP92_004907' => 'vpl', 'HPP92_012134' => 'vpl', 'HPP92_025136' => 'vpl', 'HPP92_026087' => 'vpl', 'Hund06782' => 'sun', 'Hund06784' => 'sun', 'Lalb_Chr01g0004861' => 'lal', 'Lalb_Chr02g0140591' => 'lal', 'Lalb_Chr02g0140611' => 'lal', 'Lalb_Chr03g0028101' => 'lal', 'Lalb_Chr07g0185791' => 'lal', 'Lalb_Chr12g0204491' => 'lal', 'Lalb_Chr13g0295671' => 'lal', 'Lalb_Chr19g0136461' => 'lal', 'Lalb_Chr21g0309191' => 'lal', 'Lj1g0028158' => 'lja', 'Lj1P236T38' => 'lonja', 'Lj2C32G2' => 'lonja', 'Lj2P944T8' => 'lonja', 'Lj2P963T15' => 'lonja', 'Lj3g0011788' => 'lja', 'Lj4g0025027' => 'lja', 'Lj5P255T36' => 'lonja', 'Lj6g0018866' => 'lja', 'Lj6P608T31' => 'lonja', 'LjContig00408g0008879' => 'lja', 'Lsat_1_v5_gn_5_105820' => 'lsa', 'Lsat_1_v5_gn_6_38800' => 'lsa', 'Lsat_1_v5_gn_7_67141' => 'lsa', 'Manes.04G003400' => 'mes', 'Manes.07G020000' => 'mes', 'Manes.07G020100' => 'mes', 'Manes.07G020150' => 'mes', 'Manes.10G061500' => 'mes', 'Manes.10G123200' => 'mes', 'Manes.11G161900' => 'mes', 'Manes.15G029300' => 'mes', 'Mapoly0071s0018' => 'mpo', 'Mapoly0082s0023' => 'mpo', 'Mapoly3477s0001' => 'mpo', 'MBI05_g31233_MAGBIO' => 'mbi', 'MBI09_g05946_MAGBIO' => 'mbi', 'MBI09_g05947_MAGBIO' => 'mbi', 'MBI17_g08346_MAGBIO' => 'mbi', 'MCO04G038' => 'mco', 'MCO09G370' => 'mco', 'MCO13G605' => 'mco', 'MD00G1075500' => 'mdo', 'MD03G1144300' => 'mdo', 'MD08G1236800' => 'mdo', 'MD13G1193300' => 'mdo', 'MD15G1428700' => 'mdo', 'Medtr1g112030' => 'mtr', 'Medtr1g112050' => 'mtr', 'Medtr2g006290' => 'mtr', 'Medtr2g086510' => 'mtr', 'Medtr4g053120' => 'mtr', 'Medtr5g006320' => 'mtr', 'Medtr8g088720' => 'mtr', 'MELO3C004712.2' => 'cme', 'MELO3C006533.2' => 'cme', 'MELO3C019438.2' => 'cme', 'MELO3C019440.2' => 'cme', 'MELO3C019441.2' => 'cme', 'MELO3C019895.2' => 'cme', 'Migut.B00811' => 'egut', 'Migut.D02447' => 'egut', 'Migut.F00875' => 'egut', 'Migut.N00186' => 'egut', 'Migut.N01051' => 'egut', 'Migut.N02491' => 'egut', 'Migut.O00784' => 'egut', 'MSTRG.12367' => 'ama', 'MSTRG.18756' => 'ama', 'MSTRG.21042' => 'ama', 'Nitab4.5_0000559g0040' => 'nta', 'Nitab4.5_0000667g0190' => 'nta', 'Nitab4.5_0000755g0160' => 'nta', 'Nitab4.5_0001216g0080' => 'nta', 'Nitab4.5_0004069g0040' => 'nta', 'Nitab4.5_0004129g0010' => 'nta', 'Nitab4.5_0005744g0030' => 'nta', 'Nitab4.5_0006996g0030' => 'nta', 'Nitab4.5_0008971g0040' => 'nta', 'Nitab4.5_0009769g0020' => 'nta', 'Nitab4.5_0009833g0010' => 'nta', 'Nitab4.5_0013140g0020' => 'nta', 'Nn003s41376' => 'nnu', 'Nn1g01857' => 'nnu', 'Nn1g03611' => 'nnu', 'Nn1g06853' => 'nnu', 'Nn3g18360' => 'nnu', 'Nn4g26328' => 'nnu', 'Nn5g27531' => 'nnu', 'Nn6g34899' => 'nnu', 'Nn7g36299' => 'nnu', 'Oeu021485.1' => 'oeu', 'Oeu022433.1' => 'oeu', 'Oeu032111.1' => 'oeu', 'Oeu051608.1' => 'oeu', 'Os01g0860601' => 'osa', 'Os03g0659200' => 'osa', 'Os03g0835900' => 'osa', 'Os04g0412200' => 'osa', 'Os05g0443500' => 'osa', 'Os07g0251500' => 'osa', 'Os08g0104600' => 'osa', 'Peaxi162Scf00003g00047' => 'pax', 'Peaxi162Scf00003g00052' => 'pax', 'Peaxi162Scf00003g00394' => 'pax', 'Peaxi162Scf00091g00621' => 'pax', 'Peaxi162Scf00152g00146' => 'pax', 'Peaxi162Scf00173g00025' => 'pax', 'Peaxi162Scf00195g00102' => 'pax', 'Peaxi162Scf00402g00013' => 'pax', 'Peaxi162Scf00519g00618' => 'pax', 'PGR004G2838' => 'pgr', 'PGR044G2275' => 'pgr', 'PGR102G1377' => 'pgr', 'PGR119G1245' => 'pgr', 'PGR142G4449' => 'pgr', 'PGSC0003DMG400004532' => 'stu', 'PGSC0003DMG400011950' => 'stu', 'PGSC0003DMG400023391' => 'stu', 'PGSC0003DMG400023985' => 'stu', 'PGSC0003DMG400026360' => 'stu', 'PGSC0003DMG400035711' => 'stu', 'PGSC0003DMG400037286' => 'stu', 'PGSC0003DMG402005881' => 'stu', 'Phvul.002G045400' => 'pvu', 'Phvul.006G216600' => 'pvu', 'Phvul.006G216700' => 'pvu', 'Phvul.006G216800' => 'pvu', 'Phvul.007G022500' => 'pvu', 'Phvul.011G094400' => 'pvu', 'Potri.001G470700' => 'ptr', 'Potri.003G015200' => 'ptr', 'Potri.004G202500' => 'ptr', 'Potri.004G218400' => 'ptr', 'Potri.008G020100' => 'ptr', 'Potri.008G153200' => 'ptr', 'Potri.009G163800' => 'ptr', 'Potri.010G087300' => 'ptr', 'Potri.010G239100' => 'ptr', 'Pp3c10_16100' => 'ppa', 'Pp3c10_16880' => 'ppa', 'Pp3c16_6230' => 'ppa', 'Pp3c17_18910' => 'ppa', 'Pp3c3_22119' => 'ppa', 'Pp3c3_22140' => 'ppa', 'Pp3c4_8159' => 'ppa', 'Pp3c4_8171' => 'ppa', 'Pp3c4_8330' => 'ppa', 'PRCOL_00004098' => 'pco', 'Prupe.1G013900' => 'ppe', 'Prupe.1G226300' => 'ppe', 'Prupe.1G573600' => 'ppe', 'Prupe.6G130100' => 'ppe', 'Psat3g090040' => 'psa', 'Psat4g210440' => 'psa', 'Psat6g231040' => 'psa', 'Psat6g231080' => 'psa', 'Psat7g063000' => 'psa', 'Psat7g188000' => 'psa', 'Psat7g188040' => 'psa', 'PSO017G0206' => 'pso', 'PSO170G0501' => 'pso', 'PSO170G6422' => 'pso', 'PSO210G7739' => 'pso', 'PSO339G1808' => 'pso', 'PSO339G6135' => 'pso', 'PSO384G0010' => 'pso', 'PSO384G0964' => 'pso', 'PSO761G0050' => 'pso', 'PSO782G4085' => 'pso', 'QL01p012264' => 'qlo', 'QL02p099491' => 'qlo', 'QL03p033868' => 'qlo', 'QL04p046678' => 'qlo', 'QL06p002448' => 'qlo', 'RcHm_v2.0_Chr4g0416181' => 'rch', 'RcHm_v2.0_Chr5g0044701' => 'rch', 'RcHm_v2.0_Chr6g0265781' => 'rch', 'RcHm_v2.0_Chr7g0221031' => 'rch', 'Rhsim04G0202000' => 'rsi', 'Rhsim11G0127300' => 'rsi', 'Rhsim13G0111800' => 'rsi', 'Sabra01G0165600' => 'sbr', 'Sabra03G0008300' => 'sbr', 'Sabra04G0136900' => 'sbr', 'Sabra08G0013400' => 'sbr', 'Sabra08G0116800' => 'sbr', 'Sabra09G0128000' => 'sbr', 'Sabra10G0055500' => 'sbr', 'Sabra10G0073300' => 'sbr', 'SalBow3G0385' => 'sbo', 'SalBow3G1119' => 'sbo', 'SalBow3G2005' => 'sbo', 'SalBow6G2563' => 'sbo', 'SalBow6G6386' => 'sbo', 'Sc06g0008800' => 'sci', 'Sc07g0004950' => 'sci', 'Sc09g0005340' => 'sci', 'Sc13g0004410' => 'sci', 'Sc21g0007090' => 'sci', 'Sed0009285' => 'sed', 'Sed0017583' => 'sed', 'Sed0019699' => 'sed', 'Sed0023107' => 'sed', 'SEGI_10916' => 'sgi', 'SEGI_16217' => 'sgi', 'SEGI_19466' => 'sgi', 'SEGI_41115' => 'sgi', 'SGA_v2.0_scaffold111G31534' => 'sas', 'SGA_v2.0_scaffold22G09864' => 'sas', 'SGA_v2.0_scaffold338G49219' => 'sas', 'SGA_v2.0_scaffold92G28298' => 'sas', 'SMO119G0064' => 'smo', 'SMO223G0038' => 'smo', 'SMO347G0584' => 'smo', 'SMO351G0010' => 'smo', 'SMO356G0404' => 'smo', 'Solyc01g103920.3' => 'sly', 'Solyc04g009710.2' => 'sly', 'Solyc05g055280.2' => 'sly', 'Solyc10g044520.3' => 'sly', 'Solyc10g075160.1' => 'sly', 'Solyc11g006910.3' => 'sly', 'Solyc11g068430.3' => 'sly', 'Sopen01g046310' => 'spe', 'Sopen03g001200' => 'spe', 'Sopen04g004830' => 'spe', 'Sopen05g033720' => 'spe', 'Sopen06g030740' => 'spe', 'Sopen10g013090' => 'spe', 'Sopen10g027630' => 'spe', 'Sopen10g027640' => 'spe', 'Sopen11g002820' => 'spe', 'Sopen11g027140' => 'spe', 'Sp1g09680' => 'spa', 'Sp2g03630' => 'spa', 'Sp4g10320' => 'spa', 'Sp6g33400' => 'spa', 'Sp7g13030' => 'spa', 'TAR365G0317' => 'tar', 'TAR376G0979' => 'tar', 'TAR623G1665' => 'tar', 'TAR633G2373' => 'tar', 'TAR636G1400' => 'tar', 'THA.LOC104800529' => 'tha', 'THA.LOC104808547' => 'tha', 'THA.LOC104809615' => 'tha', 'THA.LOC104815724' => 'tha', 'THA.LOC104818480' => 'tha', 'THA.LOC104819179' => 'tha', 'THA.LOC104822270' => 'tha', 'THA.LOC104826425' => 'tha', 'Thecc.02G089700' => 'tca', 'Thecc.04G232300' => 'tca', 'Thecc.09G283400' => 'tca', 'Thhalv10009020m.g' => 'esa', 'Thhalv10015506m.g' => 'esa', 'Thhalv10017364m.g' => 'esa', 'Thhalv10023742m.g' => 'esa', 'Thhalv10026483m.g' => 'esa', 'TPR.G17232' => 'tpr', 'TPR.G2133' => 'tpr', 'TPR.G2498' => 'tpr', 'TPR.G31942' => 'tpr', 'TPR.G37877' => 'tpr', 'TPR.G4571' => 'tpr', 'TWI14G1113' => 'twi', 'TWI15G0426' => 'twi', 'TWI31G1005' => 'twi', 'TWI38G0513' => 'twi', 'TWI38G1484' => 'twi', 'TWI73G1098' => 'twi', 'unitig_26.g10519' => 'ugi', 'unitig_736.g22395' => 'ugi', 'unitig_747.g21234' => 'ugi', 'unitig_747.g21942' => 'ugi', 'vmacro14351' => 'vma', 'VMungo0540G0082' => 'vmu', 'VMungo0540G0405' => 'vmu', 'VMungo0540G1486' => 'vmu', 'VMungo0540G1692' => 'vmu', 'VMungo0720G2473' => 'vmu', 'VMungo1127G1562' => 'vmu', 'VMungo1215G1918' => 'vmu', 'Zm00001eb052650' => 'zma', 'Zm00001eb063710' => 'zma', 'Zm00001eb083950' => 'zma', 'Zm00001eb174420' => 'zma', 'Zm00001eb260140' => 'zma', 'Zm00001eb260150' => 'zma', 'Zm00001eb260160' => 'zma', 'Zm00001eb348290' => 'zma', 'Zm00001eb366870' => 'zma', 'Zm00001eb421930' => 'zma' ), 'gf_id' => 'HOM05D001025', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001025' ), 'data_identifier' => 'HOM05D001025', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001025', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '592', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p22650' => 'bna', 'A01p29720' => 'bna', 'A03p26560' => 'bna', 'A03p68820' => 'bna', 'A04p20980' => 'bna', 'A06p07730' => 'bna', 'A07p18260' => 'bna', 'A08p33710' => 'bna', 'A09p16970' => 'bna', 'A10p27490' => 'bna', 'Aa31LG1G17300' => 'aar', 'Aa31LG1G3910' => 'aar', 'Aa31LG2G9630' => 'aar', 'Aa31LG5G8360' => 'aar', 'Aa31LG9G2410' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4699' => 'aag', 'Actinidia23512' => 'ach', 'Actinidia37080' => 'ach', 'Ah.01g020380' => 'amhyb', 'Ah.08g215710' => 'amhyb', 'Ah.09g225110' => 'amhyb', 'Ah.10g036680' => 'amhyb', 'AL1G21940' => 'aly', 'AL2G15540' => 'aly', 'AL4G21520' => 'aly', 'AL7G40960' => 'aly', 'Aqoxy2G01191' => 'aox', 'Aqoxy2G03393' => 'aox', 'Aqoxy4G02775' => 'aox', 'Aqoxy6G00058' => 'aox', 'arahy.Tifrunner.gnm1.ann1.9X74H2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CW3FX9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R485W7' => 'arhy', 'AT1G10960' => 'ath', 'AT1G60950' => 'ath', 'AT2G27510' => 'ath', 'AT4G14890' => 'ath', 'AT5G10000' => 'ath', 'ATR0665G624' => 'atr', 'ATR0697G138' => 'atr', 'ATR0776G046' => 'atr', 'ATR1134G135' => 'atr', 'Atru.chr12.1025' => 'acertr', 'Atru.chr3.3241' => 'acertr', 'Atru.chr4.2460' => 'acertr', 'AUR62007427' => 'cqu', 'AUR62010960' => 'cqu', 'AUR62012201' => 'cqu', 'AUR62021470' => 'cqu', 'AUR62022834' => 'cqu', 'AUR62033635' => 'cqu', 'AUR62036186' => 'cqu', 'BcaB01g03077' => 'bca', 'BcaB02g10093' => 'bca', 'BcaB04g20295' => 'bca', 'BcaB06g28147' => 'bca', 'BcaB07g31253' => 'bca', 'BcaC01g04946' => 'bca', 'BcaC02g10614' => 'bca', 'BcaC02g10885' => 'bca', 'BcaC04g19356' => 'bca', 'BcaC04g22297' => 'bca', 'BcaC05g24977' => 'bca', 'BcaC06g31823' => 'bca', 'BcaC07g38633' => 'bca', 'BcaC09g49353' => 'bca', 'BcaC09g50168' => 'bca', 'BcaNung00322' => 'bca', 'BcaNung04769' => 'bca', 'BolC1t02753H' => 'bol', 'BolC1t03721H' => 'bol', 'BolC3t15525H' => 'bol', 'BolC4t23903H' => 'bol', 'BolC4t24231H' => 'bol', 'BolC4t27209H' => 'bol', 'BolC5t29671H' => 'bol', 'BolC8t49044H' => 'bol', 'BolC9t54999H' => 'bol', 'BolC9t59517H' => 'bol', 'BraA01t02178Z' => 'bra', 'BraA01t03099Z' => 'bra', 'BraA03t11867Z' => 'bra', 'BraA04t17667Z' => 'bra', 'BraA07t29542Z' => 'bra', 'BraA08t35287Z' => 'bra', 'BraA09t37334Z' => 'bra', 'BraA10t44801Z' => 'bra', 'BraSC39t46181Z' => 'bra', 'C01p28240' => 'bna', 'C01p37530' => 'bna', 'C03p31820' => 'bna', 'C04p24080' => 'bna', 'C04p25790' => 'bna', 'C04p56770' => 'bna', 'C05p09310' => 'bna', 'C09p21010' => 'bna', 'C09p67560' => 'bna', 'CAN.G1324.7' => 'can', 'CAN.G1358.10' => 'can', 'CAN.G1550.2' => 'can', 'CAN.G186.56' => 'can', 'CAN.G1965.1' => 'can', 'CAN.G645.15' => 'can', 'CAN.G798.26' => 'can', 'CAN.G798.27' => 'can', 'CAN.G798.29' => 'can', 'CAN.G919.31' => 'can', 'CANSAT11G0133' => 'cansat', 'CANSAT11G1171' => 'cansat', 'CANSAT11G2056' => 'cansat', 'CANSAT56G1202' => 'cansat', 'CANSAT56G1514' => 'cansat', 'CANSAT78G0455' => 'cansat', 'CARHR011190' => 'chi', 'CARHR051980' => 'chi', 'CARHR120170' => 'chi', 'CARHR203310' => 'chi', 'CARHR221490' => 'chi', 'Carub.0001s1054' => 'cru', 'Carub.0002s0431' => 'cru', 'Carub.0004s0818' => 'cru', 'Carub.0006s0846' => 'cru', 'Carub.0007s2722' => 'cru', 'Ca_00058_v3' => 'car', 'Ca_17831_v3' => 'car', 'Ca_19408_v3' => 'car', 'Ca_24397_v3' => 'car', 'Ca_25664_v3' => 'car', 'CBR_g21818' => 'cbr', 'CBR_g31195' => 'cbr', 'CBR_g32282' => 'cbr', 'CBR_g39599' => 'cbr', 'CBR_g49410' => 'cbr', 'Cc01_g09120' => 'ccan', 'Cc01_g09130' => 'ccan', 'Cc02_g09630' => 'ccan', 'Cc02_g22810' => 'ccan', 'Cc03_g03810' => 'ccan', 'CDE02G3718' => 'cde', 'CDE04G3183' => 'cde', 'CDE07G1046' => 'cde', 'CDE08G0480' => 'cde', 'Cfa005493' => 'cfa', 'Cfa010312' => 'cfa', 'Cfa015648' => 'cfa', 'Ciclev10002793m.g' => 'ccl', 'Ciclev10003356m.g' => 'ccl', 'Ciclev10006141m.g' => 'ccl', 'Ciclev10016676m.g' => 'ccl', 'Ciclev10017081m.g' => 'ccl', 'Ciclev10029499m.g' => 'ccl', 'CiPaw.01G166300' => 'cil', 'CiPaw.06G145600' => 'cil', 'CiPaw.13G040100' => 'cil', 'CiPaw.13G135800' => 'cil', 'ClCG01G012230' => 'cla', 'ClCG05G009510' => 'cla', 'ClCG08G008270' => 'cla', 'COL.COLO4_11763' => 'col', 'COL.COLO4_19876' => 'col', 'COL.COLO4_21481' => 'col', 'Cpa.g.sc118.34' => 'cpa', 'Cpa.g.sc32.13' => 'cpa', 'Cpa.g.sc58.103' => 'cpa', 'Cre03.g183850' => 'cre', 'Cre06.g306350' => 'cre', 'Cre07.g334800' => 'cre', 'Cre12.g487900' => 'cre', 'Cre14.g626700' => 'cre', 'Cre16.g658400' => 'cre', 'Cre17.g700950' => 'cre', 'CsaV3_1G014830' => 'csa', 'CsaV3_3G013320' => 'csa', 'CsaV3_3G019210' => 'csa', 'CsaV3_3G019220' => 'csa', 'CsaV3_6G004230' => 'csa', 'CSS0003773' => 'camsi', 'CSS0004563' => 'camsi', 'CSS0013949' => 'camsi', 'CSS0025971' => 'camsi', 'CSS0028570' => 'camsi', 'CSS0033127' => 'camsi', 'CSS0036051' => 'camsi', 'CSS0040087' => 'camsi', 'CSS0043179' => 'camsi', 'DCAR_006161' => 'dca', 'DCAR_010351' => 'dca', 'DCAR_012197' => 'dca', 'DCAR_024162' => 'dca', 'Dinv01030' => 'din', 'Dinv10924' => 'din', 'Dinv11835' => 'din', 'Dinv22841' => 'din', 'Dinv42553' => 'din', 'Duzib052G0560' => 'dzi', 'Duzib132G0389' => 'dzi', 'Duzib150G1181' => 'dzi', 'Duzib168G0623' => 'dzi', 'Duzib170G1036' => 'dzi', 'Duzib212G0200' => 'dzi', 'Duzib248G0194' => 'dzi', 'ECA232G2193' => 'eca', 'ECA233G0302' => 'eca', 'ECA234G2813' => 'eca', 'ECA234G4866' => 'eca', 'ECA240G3932' => 'eca', 'ECA248G0385' => 'eca', 'EL10Ac2g04781' => 'bvu', 'EL10Ac3g06445' => 'bvu', 'EL10Ac7g15825' => 'bvu', 'EL10Ac8g18550' => 'bvu', 'Eucgr.B03849' => 'egr', 'Eucgr.I02744' => 'egr', 'Eucgr.J00264' => 'egr', 'Eucgr.J00493' => 'egr', 'FAN04G2181' => 'fan', 'FAN07G2666' => 'fan', 'FAN11G0024' => 'fan', 'FAN12G1105' => 'fan', 'FAN13G0302' => 'fan', 'FAN15G2781' => 'fan', 'FAN16G1274' => 'fan', 'FAN17G2988' => 'fan', 'FAN18G2621' => 'fan', 'FAN21G0013' => 'fan', 'FAN22G1211' => 'fan', 'FAN25G3626' => 'fan', 'FvH4_2g09491' => 'fve', 'FvH4_3g24910' => 'fve', 'FvH4_4g15630' => 'fve', 'FvH4_5g28820' => 'fve', 'Glyma.01G238000' => 'gma', 'Glyma.05G168400' => 'gma', 'Glyma.08G126800' => 'gma', 'Glyma.08G188500' => 'gma', 'Glyma.10G278900' => 'gma', 'Glyma.11G005700' => 'gma', 'Glyma.11G183300' => 'gma', 'Glyma.12G089200' => 'gma', 'Glyma.12G169400' => 'gma', 'Glyma.12G169500' => 'gma', 'Glyma.12G169600' => 'gma', 'Glyma.20G110800' => 'gma', 'Gohir.A03G192900' => 'ghi', 'Gohir.A03G193000' => 'ghi', 'Gohir.A05G080700' => 'ghi', 'Gohir.A09G216000' => 'ghi', 'Gohir.A12G027700' => 'ghi', 'Gohir.A13G036200' => 'ghi', 'Gohir.A13G222600' => 'ghi', 'Gohir.D02G213900' => 'ghi', 'Gohir.D02G214000' => 'ghi', 'Gohir.D05G083700' => 'ghi', 'Gohir.D05G083800' => 'ghi', 'Gohir.D05G083850' => 'ghi', 'Gohir.D08G015400' => 'ghi', 'Gohir.D09G218400' => 'ghi', 'Gohir.D12G027100' => 'ghi', 'Gohir.D13G034500' => 'ghi', 'Gohir.D13G227400' => 'ghi', 'Gorai.005G241800' => 'gra', 'Gorai.005G241900' => 'gra', 'Gorai.006G239400' => 'gra', 'Gorai.008G027600' => 'gra', 'Gorai.009G085400' => 'gra', 'Gorai.009G085500' => 'gra', 'Gorai.013G039000' => 'gra', 'Gorai.013G194800' => 'gra', 'Gorai.013G257900' => 'gra', 'GSVIVG01000982001' => 'vvi', 'GSVIVG01017981001' => 'vvi', 'HanXRQChr01g0024061' => 'han', 'HanXRQChr09g0247831' => 'han', 'HanXRQChr10g0294611' => 'han', 'HanXRQChr10g0294621' => 'han', 'HanXRQChr11g0346821' => 'han', 'HanXRQChr13g0397461' => 'han', 'HanXRQChr16g0513651' => 'han', 'HanXRQChr16g0513701' => 'han', 'Haze_00897' => 'cav', 'Haze_01745' => 'cav', 'Haze_02486' => 'cav', 'Haze_02487' => 'cav', 'Haze_23374' => 'cav', 'Hma1.2p1_0578F.1_g182520' => 'hma', 'Hma1.2p1_0602F.1_g187350' => 'hma', 'Hma1.2p1_0602F.1_g187360' => 'hma', 'Hma1.2p1_0874F.1_g231320' => 'hma', 'Hma1.2p1_1197F.1_g266210' => 'hma', 'Hma1.2p1_1197F.1_g266220' => 'hma', 'Hma1.2p1_2167F.1_g315895' => 'hma', 'Hma1.2p1_2190F.1_g316640' => 'hma', 'Hma1.2p1_3645F.1_g337153' => 'hma', 'HPP92_004907' => 'vpl', 'HPP92_012134' => 'vpl', 'HPP92_025136' => 'vpl', 'HPP92_026087' => 'vpl', 'Hund06782' => 'sun', 'Hund06784' => 'sun', 'Lalb_Chr01g0004861' => 'lal', 'Lalb_Chr02g0140591' => 'lal', 'Lalb_Chr02g0140611' => 'lal', 'Lalb_Chr03g0028101' => 'lal', 'Lalb_Chr07g0185791' => 'lal', 'Lalb_Chr12g0204491' => 'lal', 'Lalb_Chr13g0295671' => 'lal', 'Lalb_Chr19g0136461' => 'lal', 'Lalb_Chr21g0309191' => 'lal', 'Lj1g0028158' => 'lja', 'Lj1P236T38' => 'lonja', 'Lj2C32G2' => 'lonja', 'Lj2P944T8' => 'lonja', 'Lj2P963T15' => 'lonja', 'Lj3g0011788' => 'lja', 'Lj4g0025027' => 'lja', 'Lj5P255T36' => 'lonja', 'Lj6g0018866' => 'lja', 'Lj6P608T31' => 'lonja', 'LjContig00408g0008879' => 'lja', 'Lsat_1_v5_gn_5_105820' => 'lsa', 'Lsat_1_v5_gn_6_38800' => 'lsa', 'Lsat_1_v5_gn_7_67141' => 'lsa', 'Manes.04G003400' => 'mes', 'Manes.07G020000' => 'mes', 'Manes.07G020100' => 'mes', 'Manes.07G020150' => 'mes', 'Manes.10G061500' => 'mes', 'Manes.10G123200' => 'mes', 'Manes.11G161900' => 'mes', 'Manes.15G029300' => 'mes', 'Mapoly0071s0018' => 'mpo', 'Mapoly0082s0023' => 'mpo', 'Mapoly3477s0001' => 'mpo', 'MBI05_g31233_MAGBIO' => 'mbi', 'MBI09_g05946_MAGBIO' => 'mbi', 'MBI09_g05947_MAGBIO' => 'mbi', 'MBI17_g08346_MAGBIO' => 'mbi', 'MCO04G038' => 'mco', 'MCO09G370' => 'mco', 'MCO13G605' => 'mco', 'MD00G1075500' => 'mdo', 'MD03G1144300' => 'mdo', 'MD08G1236800' => 'mdo', 'MD13G1193300' => 'mdo', 'MD15G1428700' => 'mdo', 'Medtr1g112030' => 'mtr', 'Medtr1g112050' => 'mtr', 'Medtr2g006290' => 'mtr', 'Medtr2g086510' => 'mtr', 'Medtr4g053120' => 'mtr', 'Medtr5g006320' => 'mtr', 'Medtr8g088720' => 'mtr', 'MELO3C004712.2' => 'cme', 'MELO3C006533.2' => 'cme', 'MELO3C019438.2' => 'cme', 'MELO3C019440.2' => 'cme', 'MELO3C019441.2' => 'cme', 'MELO3C019895.2' => 'cme', 'Migut.B00811' => 'egut', 'Migut.D02447' => 'egut', 'Migut.F00875' => 'egut', 'Migut.N00186' => 'egut', 'Migut.N01051' => 'egut', 'Migut.N02491' => 'egut', 'Migut.O00784' => 'egut', 'MSTRG.12367' => 'ama', 'MSTRG.18756' => 'ama', 'MSTRG.21042' => 'ama', 'Nitab4.5_0000559g0040' => 'nta', 'Nitab4.5_0000667g0190' => 'nta', 'Nitab4.5_0000755g0160' => 'nta', 'Nitab4.5_0001216g0080' => 'nta', 'Nitab4.5_0004069g0040' => 'nta', 'Nitab4.5_0004129g0010' => 'nta', 'Nitab4.5_0005744g0030' => 'nta', 'Nitab4.5_0006996g0030' => 'nta', 'Nitab4.5_0008971g0040' => 'nta', 'Nitab4.5_0009769g0020' => 'nta', 'Nitab4.5_0009833g0010' => 'nta', 'Nitab4.5_0013140g0020' => 'nta', 'Nn003s41376' => 'nnu', 'Nn1g01857' => 'nnu', 'Nn1g03611' => 'nnu', 'Nn1g06853' => 'nnu', 'Nn3g18360' => 'nnu', 'Nn4g26328' => 'nnu', 'Nn5g27531' => 'nnu', 'Nn6g34899' => 'nnu', 'Nn7g36299' => 'nnu', 'Oeu021485.1' => 'oeu', 'Oeu022433.1' => 'oeu', 'Oeu032111.1' => 'oeu', 'Oeu051608.1' => 'oeu', 'Os01g0860601' => 'osa', 'Os03g0659200' => 'osa', 'Os03g0835900' => 'osa', 'Os04g0412200' => 'osa', 'Os05g0443500' => 'osa', 'Os07g0251500' => 'osa', 'Os08g0104600' => 'osa', 'Peaxi162Scf00003g00047' => 'pax', 'Peaxi162Scf00003g00052' => 'pax', 'Peaxi162Scf00003g00394' => 'pax', 'Peaxi162Scf00091g00621' => 'pax', 'Peaxi162Scf00152g00146' => 'pax', 'Peaxi162Scf00173g00025' => 'pax', 'Peaxi162Scf00195g00102' => 'pax', 'Peaxi162Scf00402g00013' => 'pax', 'Peaxi162Scf00519g00618' => 'pax', 'PGR004G2838' => 'pgr', 'PGR044G2275' => 'pgr', 'PGR102G1377' => 'pgr', 'PGR119G1245' => 'pgr', 'PGR142G4449' => 'pgr', 'PGSC0003DMG400004532' => 'stu', 'PGSC0003DMG400011950' => 'stu', 'PGSC0003DMG400023391' => 'stu', 'PGSC0003DMG400023985' => 'stu', 'PGSC0003DMG400026360' => 'stu', 'PGSC0003DMG400035711' => 'stu', 'PGSC0003DMG400037286' => 'stu', 'PGSC0003DMG402005881' => 'stu', 'Phvul.002G045400' => 'pvu', 'Phvul.006G216600' => 'pvu', 'Phvul.006G216700' => 'pvu', 'Phvul.006G216800' => 'pvu', 'Phvul.007G022500' => 'pvu', 'Phvul.011G094400' => 'pvu', 'Potri.001G470700' => 'ptr', 'Potri.003G015200' => 'ptr', 'Potri.004G202500' => 'ptr', 'Potri.004G218400' => 'ptr', 'Potri.008G020100' => 'ptr', 'Potri.008G153200' => 'ptr', 'Potri.009G163800' => 'ptr', 'Potri.010G087300' => 'ptr', 'Potri.010G239100' => 'ptr', 'Pp3c10_16100' => 'ppa', 'Pp3c10_16880' => 'ppa', 'Pp3c16_6230' => 'ppa', 'Pp3c17_18910' => 'ppa', 'Pp3c3_22119' => 'ppa', 'Pp3c3_22140' => 'ppa', 'Pp3c4_8159' => 'ppa', 'Pp3c4_8171' => 'ppa', 'Pp3c4_8330' => 'ppa', 'PRCOL_00004098' => 'pco', 'Prupe.1G013900' => 'ppe', 'Prupe.1G226300' => 'ppe', 'Prupe.1G573600' => 'ppe', 'Prupe.6G130100' => 'ppe', 'Psat3g090040' => 'psa', 'Psat4g210440' => 'psa', 'Psat6g231040' => 'psa', 'Psat6g231080' => 'psa', 'Psat7g063000' => 'psa', 'Psat7g188000' => 'psa', 'Psat7g188040' => 'psa', 'PSO017G0206' => 'pso', 'PSO170G0501' => 'pso', 'PSO170G6422' => 'pso', 'PSO210G7739' => 'pso', 'PSO339G1808' => 'pso', 'PSO339G6135' => 'pso', 'PSO384G0010' => 'pso', 'PSO384G0964' => 'pso', 'PSO761G0050' => 'pso', 'PSO782G4085' => 'pso', 'QL01p012264' => 'qlo', 'QL02p099491' => 'qlo', 'QL03p033868' => 'qlo', 'QL04p046678' => 'qlo', 'QL06p002448' => 'qlo', 'RcHm_v2.0_Chr4g0416181' => 'rch', 'RcHm_v2.0_Chr5g0044701' => 'rch', 'RcHm_v2.0_Chr6g0265781' => 'rch', 'RcHm_v2.0_Chr7g0221031' => 'rch', 'Rhsim04G0202000' => 'rsi', 'Rhsim11G0127300' => 'rsi', 'Rhsim13G0111800' => 'rsi', 'Sabra01G0165600' => 'sbr', 'Sabra03G0008300' => 'sbr', 'Sabra04G0136900' => 'sbr', 'Sabra08G0013400' => 'sbr', 'Sabra08G0116800' => 'sbr', 'Sabra09G0128000' => 'sbr', 'Sabra10G0055500' => 'sbr', 'Sabra10G0073300' => 'sbr', 'SalBow3G0385' => 'sbo', 'SalBow3G1119' => 'sbo', 'SalBow3G2005' => 'sbo', 'SalBow6G2563' => 'sbo', 'SalBow6G6386' => 'sbo', 'Sc06g0008800' => 'sci', 'Sc07g0004950' => 'sci', 'Sc09g0005340' => 'sci', 'Sc13g0004410' => 'sci', 'Sc21g0007090' => 'sci', 'Sed0009285' => 'sed', 'Sed0017583' => 'sed', 'Sed0019699' => 'sed', 'Sed0023107' => 'sed', 'SEGI_10916' => 'sgi', 'SEGI_16217' => 'sgi', 'SEGI_19466' => 'sgi', 'SEGI_41115' => 'sgi', 'SGA_v2.0_scaffold111G31534' => 'sas', 'SGA_v2.0_scaffold22G09864' => 'sas', 'SGA_v2.0_scaffold338G49219' => 'sas', 'SGA_v2.0_scaffold92G28298' => 'sas', 'SMO119G0064' => 'smo', 'SMO223G0038' => 'smo', 'SMO347G0584' => 'smo', 'SMO351G0010' => 'smo', 'SMO356G0404' => 'smo', 'Solyc01g103920.3' => 'sly', 'Solyc04g009710.2' => 'sly', 'Solyc05g055280.2' => 'sly', 'Solyc10g044520.3' => 'sly', 'Solyc10g075160.1' => 'sly', 'Solyc11g006910.3' => 'sly', 'Solyc11g068430.3' => 'sly', 'Sopen01g046310' => 'spe', 'Sopen03g001200' => 'spe', 'Sopen04g004830' => 'spe', 'Sopen05g033720' => 'spe', 'Sopen06g030740' => 'spe', 'Sopen10g013090' => 'spe', 'Sopen10g027630' => 'spe', 'Sopen10g027640' => 'spe', 'Sopen11g002820' => 'spe', 'Sopen11g027140' => 'spe', 'Sp1g09680' => 'spa', 'Sp2g03630' => 'spa', 'Sp4g10320' => 'spa', 'Sp6g33400' => 'spa', 'Sp7g13030' => 'spa', 'TAR365G0317' => 'tar', 'TAR376G0979' => 'tar', 'TAR623G1665' => 'tar', 'TAR633G2373' => 'tar', 'TAR636G1400' => 'tar', 'THA.LOC104800529' => 'tha', 'THA.LOC104808547' => 'tha', 'THA.LOC104809615' => 'tha', 'THA.LOC104815724' => 'tha', 'THA.LOC104818480' => 'tha', 'THA.LOC104819179' => 'tha', 'THA.LOC104822270' => 'tha', 'THA.LOC104826425' => 'tha', 'Thecc.02G089700' => 'tca', 'Thecc.04G232300' => 'tca', 'Thecc.09G283400' => 'tca', 'Thhalv10009020m.g' => 'esa', 'Thhalv10015506m.g' => 'esa', 'Thhalv10017364m.g' => 'esa', 'Thhalv10023742m.g' => 'esa', 'Thhalv10026483m.g' => 'esa', 'TPR.G17232' => 'tpr', 'TPR.G2133' => 'tpr', 'TPR.G2498' => 'tpr', 'TPR.G31942' => 'tpr', 'TPR.G37877' => 'tpr', 'TPR.G4571' => 'tpr', 'TWI14G1113' => 'twi', 'TWI15G0426' => 'twi', 'TWI31G1005' => 'twi', 'TWI38G0513' => 'twi', 'TWI38G1484' => 'twi', 'TWI73G1098' => 'twi', 'unitig_26.g10519' => 'ugi', 'unitig_736.g22395' => 'ugi', 'unitig_747.g21234' => 'ugi', 'unitig_747.g21942' => 'ugi', 'vmacro14351' => 'vma', 'VMungo0540G0082' => 'vmu', 'VMungo0540G0405' => 'vmu', 'VMungo0540G1486' => 'vmu', 'VMungo0540G1692' => 'vmu', 'VMungo0720G2473' => 'vmu', 'VMungo1127G1562' => 'vmu', 'VMungo1215G1918' => 'vmu', 'Zm00001eb052650' => 'zma', 'Zm00001eb063710' => 'zma', 'Zm00001eb083950' => 'zma', 'Zm00001eb174420' => 'zma', 'Zm00001eb260140' => 'zma', 'Zm00001eb260150' => 'zma', 'Zm00001eb260160' => 'zma', 'Zm00001eb348290' => 'zma', 'Zm00001eb366870' => 'zma', 'Zm00001eb421930' => 'zma' ) $gf_id = 'HOM05D001025' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001025' ) $data_identifier = 'HOM05D001025' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 19, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 2, 'amhyb' => (int) 4, 'aly' => (int) 4, 'aox' => (int) 4, 'arhy' => (int) 3, 'ath' => (int) 5, 'atr' => (int) 4, 'acertr' => (int) 3, 'cqu' => (int) 7, 'bca' => (int) 17, 'bol' => (int) 10, 'bra' => (int) 9, 'can' => (int) 10, 'cansat' => (int) 6, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 5, 'cbr' => (int) 5, 'ccan' => (int) 5, 'cde' => (int) 4, 'cfa' => (int) 3, 'ccl' => (int) 6, 'cil' => (int) 4, 'cla' => (int) 3, 'col' => (int) 3, 'cpa' => (int) 3, 'cre' => (int) 7, 'csa' => (int) 5, 'camsi' => (int) 9, 'dca' => (int) 4, 'din' => (int) 5, 'dzi' => (int) 7, 'eca' => (int) 6, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 12, 'fve' => (int) 4, 'gma' => (int) 12, 'ghi' => (int) 17, 'gra' => (int) 9, 'vvi' => (int) 2, 'han' => (int) 8, 'cav' => (int) 5, 'hma' => (int) 9, 'vpl' => (int) 4, 'sun' => (int) 2, 'lal' => (int) 9, 'lja' => (int) 5, 'lonja' => (int) 6, 'lsa' => (int) 3, 'mes' => (int) 8, 'mpo' => (int) 3, 'mbi' => (int) 4, 'mco' => (int) 3, 'mdo' => (int) 5, 'mtr' => (int) 7, 'cme' => (int) 6, 'egut' => (int) 7, 'ama' => (int) 3, 'nta' => (int) 12, 'nnu' => (int) 9, 'oeu' => (int) 4, 'osa' => (int) 7, 'pax' => (int) 9, 'pgr' => (int) 5, 'stu' => (int) 8, 'pvu' => (int) 6, 'ptr' => (int) 9, 'ppa' => (int) 9, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 7, 'pso' => (int) 10, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 3, 'sbr' => (int) 8, 'sbo' => (int) 5, 'sci' => (int) 5, 'sed' => (int) 4, 'sgi' => (int) 4, 'sas' => (int) 4, 'smo' => (int) 5, 'sly' => (int) 7, 'spe' => (int) 10, 'spa' => (int) 5, 'tar' => (int) 5, 'tha' => (int) 8, 'tca' => (int) 3, 'esa' => (int) 5, 'tpr' => (int) 6, 'twi' => (int) 6, 'ugi' => (int) 4, 'vma' => (int) 1, 'vmu' => (int) 7, 'zma' => (int) 10 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb421930' $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' => 'HOM05D001025', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '592', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p22650' => 'bna', 'A01p29720' => 'bna', 'A03p26560' => 'bna', 'A03p68820' => 'bna', 'A04p20980' => 'bna', 'A06p07730' => 'bna', 'A07p18260' => 'bna', 'A08p33710' => 'bna', 'A09p16970' => 'bna', 'A10p27490' => 'bna', 'Aa31LG1G17300' => 'aar', 'Aa31LG1G3910' => 'aar', 'Aa31LG2G9630' => 'aar', 'Aa31LG5G8360' => 'aar', 'Aa31LG9G2410' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4699' => 'aag', 'Actinidia23512' => 'ach', 'Actinidia37080' => 'ach', 'Ah.01g020380' => 'amhyb', 'Ah.08g215710' => 'amhyb', 'Ah.09g225110' => 'amhyb', 'Ah.10g036680' => 'amhyb', 'AL1G21940' => 'aly', 'AL2G15540' => 'aly', 'AL4G21520' => 'aly', 'AL7G40960' => 'aly', 'Aqoxy2G01191' => 'aox', 'Aqoxy2G03393' => 'aox', 'Aqoxy4G02775' => 'aox', 'Aqoxy6G00058' => 'aox', 'arahy.Tifrunner.gnm1.ann1.9X74H2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CW3FX9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R485W7' => 'arhy', 'AT1G10960' => 'ath', 'AT1G60950' => 'ath', 'AT2G27510' => 'ath', 'AT4G14890' => 'ath', 'AT5G10000' => 'ath', 'ATR0665G624' => 'atr', 'ATR0697G138' => 'atr', 'ATR0776G046' => 'atr', 'ATR1134G135' => 'atr', 'Atru.chr12.1025' => 'acertr', 'Atru.chr3.3241' => 'acertr', 'Atru.chr4.2460' => 'acertr', 'AUR62007427' => 'cqu', 'AUR62010960' => 'cqu', 'AUR62012201' => 'cqu', 'AUR62021470' => 'cqu', 'AUR62022834' => 'cqu', 'AUR62033635' => 'cqu', 'AUR62036186' => 'cqu', 'BcaB01g03077' => 'bca', 'BcaB02g10093' => 'bca', 'BcaB04g20295' => 'bca', 'BcaB06g28147' => 'bca', 'BcaB07g31253' => 'bca', 'BcaC01g04946' => 'bca', 'BcaC02g10614' => 'bca', 'BcaC02g10885' => 'bca', 'BcaC04g19356' => 'bca', 'BcaC04g22297' => 'bca', 'BcaC05g24977' => 'bca', 'BcaC06g31823' => 'bca', 'BcaC07g38633' => 'bca', 'BcaC09g49353' => 'bca', 'BcaC09g50168' => 'bca', 'BcaNung00322' => 'bca', 'BcaNung04769' => 'bca', 'BolC1t02753H' => 'bol', 'BolC1t03721H' => 'bol', 'BolC3t15525H' => 'bol', 'BolC4t23903H' => 'bol', 'BolC4t24231H' => 'bol', 'BolC4t27209H' => 'bol', 'BolC5t29671H' => 'bol', 'BolC8t49044H' => 'bol', 'BolC9t54999H' => 'bol', 'BolC9t59517H' => 'bol', 'BraA01t02178Z' => 'bra', 'BraA01t03099Z' => 'bra', 'BraA03t11867Z' => 'bra', 'BraA04t17667Z' => 'bra', 'BraA07t29542Z' => 'bra', 'BraA08t35287Z' => 'bra', 'BraA09t37334Z' => 'bra', 'BraA10t44801Z' => 'bra', 'BraSC39t46181Z' => 'bra', 'C01p28240' => 'bna', 'C01p37530' => 'bna', 'C03p31820' => 'bna', 'C04p24080' => 'bna', 'C04p25790' => 'bna', 'C04p56770' => 'bna', 'C05p09310' => 'bna', 'C09p21010' => 'bna', 'C09p67560' => 'bna', 'CAN.G1324.7' => 'can', 'CAN.G1358.10' => 'can', 'CAN.G1550.2' => 'can', 'CAN.G186.56' => 'can', 'CAN.G1965.1' => 'can', 'CAN.G645.15' => 'can', 'CAN.G798.26' => 'can', 'CAN.G798.27' => 'can', 'CAN.G798.29' => 'can', 'CAN.G919.31' => 'can', 'CANSAT11G0133' => 'cansat', 'CANSAT11G1171' => 'cansat', 'CANSAT11G2056' => 'cansat', 'CANSAT56G1202' => 'cansat', 'CANSAT56G1514' => 'cansat', 'CANSAT78G0455' => 'cansat', 'CARHR011190' => 'chi', 'CARHR051980' => 'chi', 'CARHR120170' => 'chi', 'CARHR203310' => 'chi', 'CARHR221490' => 'chi', 'Carub.0001s1054' => 'cru', 'Carub.0002s0431' => 'cru', 'Carub.0004s0818' => 'cru', 'Carub.0006s0846' => 'cru', 'Carub.0007s2722' => 'cru', 'Ca_00058_v3' => 'car', 'Ca_17831_v3' => 'car', 'Ca_19408_v3' => 'car', 'Ca_24397_v3' => 'car', 'Ca_25664_v3' => 'car', 'CBR_g21818' => 'cbr', 'CBR_g31195' => 'cbr', 'CBR_g32282' => 'cbr', 'CBR_g39599' => 'cbr', 'CBR_g49410' => 'cbr', 'Cc01_g09120' => 'ccan', 'Cc01_g09130' => 'ccan', 'Cc02_g09630' => 'ccan', 'Cc02_g22810' => 'ccan', 'Cc03_g03810' => 'ccan', 'CDE02G3718' => 'cde', 'CDE04G3183' => 'cde', 'CDE07G1046' => 'cde', 'CDE08G0480' => 'cde', 'Cfa005493' => 'cfa', 'Cfa010312' => 'cfa', 'Cfa015648' => 'cfa', 'Ciclev10002793m.g' => 'ccl', 'Ciclev10003356m.g' => 'ccl', 'Ciclev10006141m.g' => 'ccl', 'Ciclev10016676m.g' => 'ccl', 'Ciclev10017081m.g' => 'ccl', 'Ciclev10029499m.g' => 'ccl', 'CiPaw.01G166300' => 'cil', 'CiPaw.06G145600' => 'cil', 'CiPaw.13G040100' => 'cil', 'CiPaw.13G135800' => 'cil', 'ClCG01G012230' => 'cla', 'ClCG05G009510' => 'cla', 'ClCG08G008270' => 'cla', 'COL.COLO4_11763' => 'col', 'COL.COLO4_19876' => 'col', 'COL.COLO4_21481' => 'col', 'Cpa.g.sc118.34' => 'cpa', 'Cpa.g.sc32.13' => 'cpa', 'Cpa.g.sc58.103' => 'cpa', 'Cre03.g183850' => 'cre', 'Cre06.g306350' => 'cre', 'Cre07.g334800' => 'cre', 'Cre12.g487900' => 'cre', 'Cre14.g626700' => 'cre', 'Cre16.g658400' => 'cre', 'Cre17.g700950' => 'cre', 'CsaV3_1G014830' => 'csa', 'CsaV3_3G013320' => 'csa', 'CsaV3_3G019210' => 'csa', 'CsaV3_3G019220' => 'csa', 'CsaV3_6G004230' => 'csa', 'CSS0003773' => 'camsi', 'CSS0004563' => 'camsi', 'CSS0013949' => 'camsi', 'CSS0025971' => 'camsi', 'CSS0028570' => 'camsi', 'CSS0033127' => 'camsi', 'CSS0036051' => 'camsi', 'CSS0040087' => 'camsi', 'CSS0043179' => 'camsi', 'DCAR_006161' => 'dca', 'DCAR_010351' => 'dca', 'DCAR_012197' => 'dca', 'DCAR_024162' => 'dca', 'Dinv01030' => 'din', 'Dinv10924' => 'din', 'Dinv11835' => 'din', 'Dinv22841' => 'din', 'Dinv42553' => 'din', 'Duzib052G0560' => 'dzi', 'Duzib132G0389' => 'dzi', 'Duzib150G1181' => 'dzi', 'Duzib168G0623' => 'dzi', 'Duzib170G1036' => 'dzi', 'Duzib212G0200' => 'dzi', 'Duzib248G0194' => 'dzi', 'ECA232G2193' => 'eca', 'ECA233G0302' => 'eca', 'ECA234G2813' => 'eca', 'ECA234G4866' => 'eca', 'ECA240G3932' => 'eca', 'ECA248G0385' => 'eca', 'EL10Ac2g04781' => 'bvu', 'EL10Ac3g06445' => 'bvu', 'EL10Ac7g15825' => 'bvu', 'EL10Ac8g18550' => 'bvu', 'Eucgr.B03849' => 'egr', 'Eucgr.I02744' => 'egr', 'Eucgr.J00264' => 'egr', 'Eucgr.J00493' => 'egr', 'FAN04G2181' => 'fan', 'FAN07G2666' => 'fan', 'FAN11G0024' => 'fan', 'FAN12G1105' => 'fan', 'FAN13G0302' => 'fan', 'FAN15G2781' => 'fan', 'FAN16G1274' => 'fan', 'FAN17G2988' => 'fan', 'FAN18G2621' => 'fan', 'FAN21G0013' => 'fan', 'FAN22G1211' => 'fan', 'FAN25G3626' => 'fan', 'FvH4_2g09491' => 'fve', 'FvH4_3g24910' => 'fve', 'FvH4_4g15630' => 'fve', 'FvH4_5g28820' => 'fve', 'Glyma.01G238000' => 'gma', 'Glyma.05G168400' => 'gma', 'Glyma.08G126800' => 'gma', 'Glyma.08G188500' => 'gma', 'Glyma.10G278900' => 'gma', 'Glyma.11G005700' => 'gma', 'Glyma.11G183300' => 'gma', 'Glyma.12G089200' => 'gma', 'Glyma.12G169400' => 'gma', 'Glyma.12G169500' => 'gma', 'Glyma.12G169600' => 'gma', 'Glyma.20G110800' => 'gma', 'Gohir.A03G192900' => 'ghi', 'Gohir.A03G193000' => 'ghi', 'Gohir.A05G080700' => 'ghi', 'Gohir.A09G216000' => 'ghi', 'Gohir.A12G027700' => 'ghi', 'Gohir.A13G036200' => 'ghi', 'Gohir.A13G222600' => 'ghi', 'Gohir.D02G213900' => 'ghi', 'Gohir.D02G214000' => 'ghi', 'Gohir.D05G083700' => 'ghi', 'Gohir.D05G083800' => 'ghi', 'Gohir.D05G083850' => 'ghi', 'Gohir.D08G015400' => 'ghi', 'Gohir.D09G218400' => 'ghi', 'Gohir.D12G027100' => 'ghi', 'Gohir.D13G034500' => 'ghi', 'Gohir.D13G227400' => 'ghi', 'Gorai.005G241800' => 'gra', 'Gorai.005G241900' => 'gra', 'Gorai.006G239400' => 'gra', 'Gorai.008G027600' => 'gra', 'Gorai.009G085400' => 'gra', 'Gorai.009G085500' => 'gra', 'Gorai.013G039000' => 'gra', 'Gorai.013G194800' => 'gra', 'Gorai.013G257900' => 'gra', 'GSVIVG01000982001' => 'vvi', 'GSVIVG01017981001' => 'vvi', 'HanXRQChr01g0024061' => 'han', 'HanXRQChr09g0247831' => 'han', 'HanXRQChr10g0294611' => 'han', 'HanXRQChr10g0294621' => 'han', 'HanXRQChr11g0346821' => 'han', 'HanXRQChr13g0397461' => 'han', 'HanXRQChr16g0513651' => 'han', 'HanXRQChr16g0513701' => 'han', 'Haze_00897' => 'cav', 'Haze_01745' => 'cav', 'Haze_02486' => 'cav', 'Haze_02487' => 'cav', 'Haze_23374' => 'cav', 'Hma1.2p1_0578F.1_g182520' => 'hma', 'Hma1.2p1_0602F.1_g187350' => 'hma', 'Hma1.2p1_0602F.1_g187360' => 'hma', 'Hma1.2p1_0874F.1_g231320' => 'hma', 'Hma1.2p1_1197F.1_g266210' => 'hma', 'Hma1.2p1_1197F.1_g266220' => 'hma', 'Hma1.2p1_2167F.1_g315895' => 'hma', 'Hma1.2p1_2190F.1_g316640' => 'hma', 'Hma1.2p1_3645F.1_g337153' => 'hma', 'HPP92_004907' => 'vpl', 'HPP92_012134' => 'vpl', 'HPP92_025136' => 'vpl', 'HPP92_026087' => 'vpl', 'Hund06782' => 'sun', 'Hund06784' => 'sun', 'Lalb_Chr01g0004861' => 'lal', 'Lalb_Chr02g0140591' => 'lal', 'Lalb_Chr02g0140611' => 'lal', 'Lalb_Chr03g0028101' => 'lal', 'Lalb_Chr07g0185791' => 'lal', 'Lalb_Chr12g0204491' => 'lal', 'Lalb_Chr13g0295671' => 'lal', 'Lalb_Chr19g0136461' => 'lal', 'Lalb_Chr21g0309191' => 'lal', 'Lj1g0028158' => 'lja', 'Lj1P236T38' => 'lonja', 'Lj2C32G2' => 'lonja', 'Lj2P944T8' => 'lonja', 'Lj2P963T15' => 'lonja', 'Lj3g0011788' => 'lja', 'Lj4g0025027' => 'lja', 'Lj5P255T36' => 'lonja', 'Lj6g0018866' => 'lja', 'Lj6P608T31' => 'lonja', 'LjContig00408g0008879' => 'lja', 'Lsat_1_v5_gn_5_105820' => 'lsa', 'Lsat_1_v5_gn_6_38800' => 'lsa', 'Lsat_1_v5_gn_7_67141' => 'lsa', 'Manes.04G003400' => 'mes', 'Manes.07G020000' => 'mes', 'Manes.07G020100' => 'mes', 'Manes.07G020150' => 'mes', 'Manes.10G061500' => 'mes', 'Manes.10G123200' => 'mes', 'Manes.11G161900' => 'mes', 'Manes.15G029300' => 'mes', 'Mapoly0071s0018' => 'mpo', 'Mapoly0082s0023' => 'mpo', 'Mapoly3477s0001' => 'mpo', 'MBI05_g31233_MAGBIO' => 'mbi', 'MBI09_g05946_MAGBIO' => 'mbi', 'MBI09_g05947_MAGBIO' => 'mbi', 'MBI17_g08346_MAGBIO' => 'mbi', 'MCO04G038' => 'mco', 'MCO09G370' => 'mco', 'MCO13G605' => 'mco', 'MD00G1075500' => 'mdo', 'MD03G1144300' => 'mdo', 'MD08G1236800' => 'mdo', 'MD13G1193300' => 'mdo', 'MD15G1428700' => 'mdo', 'Medtr1g112030' => 'mtr', 'Medtr1g112050' => 'mtr', 'Medtr2g006290' => 'mtr', 'Medtr2g086510' => 'mtr', 'Medtr4g053120' => 'mtr', 'Medtr5g006320' => 'mtr', 'Medtr8g088720' => 'mtr', 'MELO3C004712.2' => 'cme', 'MELO3C006533.2' => 'cme', 'MELO3C019438.2' => 'cme', 'MELO3C019440.2' => 'cme', 'MELO3C019441.2' => 'cme', 'MELO3C019895.2' => 'cme', 'Migut.B00811' => 'egut', 'Migut.D02447' => 'egut', 'Migut.F00875' => 'egut', 'Migut.N00186' => 'egut', 'Migut.N01051' => 'egut', 'Migut.N02491' => 'egut', 'Migut.O00784' => 'egut', 'MSTRG.12367' => 'ama', 'MSTRG.18756' => 'ama', 'MSTRG.21042' => 'ama', 'Nitab4.5_0000559g0040' => 'nta', 'Nitab4.5_0000667g0190' => 'nta', 'Nitab4.5_0000755g0160' => 'nta', 'Nitab4.5_0001216g0080' => 'nta', 'Nitab4.5_0004069g0040' => 'nta', 'Nitab4.5_0004129g0010' => 'nta', 'Nitab4.5_0005744g0030' => 'nta', 'Nitab4.5_0006996g0030' => 'nta', 'Nitab4.5_0008971g0040' => 'nta', 'Nitab4.5_0009769g0020' => 'nta', 'Nitab4.5_0009833g0010' => 'nta', 'Nitab4.5_0013140g0020' => 'nta', 'Nn003s41376' => 'nnu', 'Nn1g01857' => 'nnu', 'Nn1g03611' => 'nnu', 'Nn1g06853' => 'nnu', 'Nn3g18360' => 'nnu', 'Nn4g26328' => 'nnu', 'Nn5g27531' => 'nnu', 'Nn6g34899' => 'nnu', 'Nn7g36299' => 'nnu', 'Oeu021485.1' => 'oeu', 'Oeu022433.1' => 'oeu', 'Oeu032111.1' => 'oeu', 'Oeu051608.1' => 'oeu', 'Os01g0860601' => 'osa', 'Os03g0659200' => 'osa', 'Os03g0835900' => 'osa', 'Os04g0412200' => 'osa', 'Os05g0443500' => 'osa', 'Os07g0251500' => 'osa', 'Os08g0104600' => 'osa', 'Peaxi162Scf00003g00047' => 'pax', 'Peaxi162Scf00003g00052' => 'pax', 'Peaxi162Scf00003g00394' => 'pax', 'Peaxi162Scf00091g00621' => 'pax', 'Peaxi162Scf00152g00146' => 'pax', 'Peaxi162Scf00173g00025' => 'pax', 'Peaxi162Scf00195g00102' => 'pax', 'Peaxi162Scf00402g00013' => 'pax', 'Peaxi162Scf00519g00618' => 'pax', 'PGR004G2838' => 'pgr', 'PGR044G2275' => 'pgr', 'PGR102G1377' => 'pgr', 'PGR119G1245' => 'pgr', 'PGR142G4449' => 'pgr', 'PGSC0003DMG400004532' => 'stu', 'PGSC0003DMG400011950' => 'stu', 'PGSC0003DMG400023391' => 'stu', 'PGSC0003DMG400023985' => 'stu', 'PGSC0003DMG400026360' => 'stu', 'PGSC0003DMG400035711' => 'stu', 'PGSC0003DMG400037286' => 'stu', 'PGSC0003DMG402005881' => 'stu', 'Phvul.002G045400' => 'pvu', 'Phvul.006G216600' => 'pvu', 'Phvul.006G216700' => 'pvu', 'Phvul.006G216800' => 'pvu', 'Phvul.007G022500' => 'pvu', 'Phvul.011G094400' => 'pvu', 'Potri.001G470700' => 'ptr', 'Potri.003G015200' => 'ptr', 'Potri.004G202500' => 'ptr', 'Potri.004G218400' => 'ptr', 'Potri.008G020100' => 'ptr', 'Potri.008G153200' => 'ptr', 'Potri.009G163800' => 'ptr', 'Potri.010G087300' => 'ptr', 'Potri.010G239100' => 'ptr', 'Pp3c10_16100' => 'ppa', 'Pp3c10_16880' => 'ppa', 'Pp3c16_6230' => 'ppa', 'Pp3c17_18910' => 'ppa', 'Pp3c3_22119' => 'ppa', 'Pp3c3_22140' => 'ppa', 'Pp3c4_8159' => 'ppa', 'Pp3c4_8171' => 'ppa', 'Pp3c4_8330' => 'ppa', 'PRCOL_00004098' => 'pco', 'Prupe.1G013900' => 'ppe', 'Prupe.1G226300' => 'ppe', 'Prupe.1G573600' => 'ppe', 'Prupe.6G130100' => 'ppe', 'Psat3g090040' => 'psa', 'Psat4g210440' => 'psa', 'Psat6g231040' => 'psa', 'Psat6g231080' => 'psa', 'Psat7g063000' => 'psa', 'Psat7g188000' => 'psa', 'Psat7g188040' => 'psa', 'PSO017G0206' => 'pso', 'PSO170G0501' => 'pso', 'PSO170G6422' => 'pso', 'PSO210G7739' => 'pso', 'PSO339G1808' => 'pso', 'PSO339G6135' => 'pso', 'PSO384G0010' => 'pso', 'PSO384G0964' => 'pso', 'PSO761G0050' => 'pso', 'PSO782G4085' => 'pso', 'QL01p012264' => 'qlo', 'QL02p099491' => 'qlo', 'QL03p033868' => 'qlo', 'QL04p046678' => 'qlo', 'QL06p002448' => 'qlo', 'RcHm_v2.0_Chr4g0416181' => 'rch', 'RcHm_v2.0_Chr5g0044701' => 'rch', 'RcHm_v2.0_Chr6g0265781' => 'rch', 'RcHm_v2.0_Chr7g0221031' => 'rch', 'Rhsim04G0202000' => 'rsi', 'Rhsim11G0127300' => 'rsi', 'Rhsim13G0111800' => 'rsi', 'Sabra01G0165600' => 'sbr', 'Sabra03G0008300' => 'sbr', 'Sabra04G0136900' => 'sbr', 'Sabra08G0013400' => 'sbr', 'Sabra08G0116800' => 'sbr', 'Sabra09G0128000' => 'sbr', 'Sabra10G0055500' => 'sbr', 'Sabra10G0073300' => 'sbr', 'SalBow3G0385' => 'sbo', 'SalBow3G1119' => 'sbo', 'SalBow3G2005' => 'sbo', 'SalBow6G2563' => 'sbo', 'SalBow6G6386' => 'sbo', 'Sc06g0008800' => 'sci', 'Sc07g0004950' => 'sci', 'Sc09g0005340' => 'sci', 'Sc13g0004410' => 'sci', 'Sc21g0007090' => 'sci', 'Sed0009285' => 'sed', 'Sed0017583' => 'sed', 'Sed0019699' => 'sed', 'Sed0023107' => 'sed', 'SEGI_10916' => 'sgi', 'SEGI_16217' => 'sgi', 'SEGI_19466' => 'sgi', 'SEGI_41115' => 'sgi', 'SGA_v2.0_scaffold111G31534' => 'sas', 'SGA_v2.0_scaffold22G09864' => 'sas', 'SGA_v2.0_scaffold338G49219' => 'sas', 'SGA_v2.0_scaffold92G28298' => 'sas', 'SMO119G0064' => 'smo', 'SMO223G0038' => 'smo', 'SMO347G0584' => 'smo', 'SMO351G0010' => 'smo', 'SMO356G0404' => 'smo', 'Solyc01g103920.3' => 'sly', 'Solyc04g009710.2' => 'sly', 'Solyc05g055280.2' => 'sly', 'Solyc10g044520.3' => 'sly', 'Solyc10g075160.1' => 'sly', 'Solyc11g006910.3' => 'sly', 'Solyc11g068430.3' => 'sly', 'Sopen01g046310' => 'spe', 'Sopen03g001200' => 'spe', 'Sopen04g004830' => 'spe', 'Sopen05g033720' => 'spe', 'Sopen06g030740' => 'spe', 'Sopen10g013090' => 'spe', 'Sopen10g027630' => 'spe', 'Sopen10g027640' => 'spe', 'Sopen11g002820' => 'spe', 'Sopen11g027140' => 'spe', 'Sp1g09680' => 'spa', 'Sp2g03630' => 'spa', 'Sp4g10320' => 'spa', 'Sp6g33400' => 'spa', 'Sp7g13030' => 'spa', 'TAR365G0317' => 'tar', 'TAR376G0979' => 'tar', 'TAR623G1665' => 'tar', 'TAR633G2373' => 'tar', 'TAR636G1400' => 'tar', 'THA.LOC104800529' => 'tha', 'THA.LOC104808547' => 'tha', 'THA.LOC104809615' => 'tha', 'THA.LOC104815724' => 'tha', 'THA.LOC104818480' => 'tha', 'THA.LOC104819179' => 'tha', 'THA.LOC104822270' => 'tha', 'THA.LOC104826425' => 'tha', 'Thecc.02G089700' => 'tca', 'Thecc.04G232300' => 'tca', 'Thecc.09G283400' => 'tca', 'Thhalv10009020m.g' => 'esa', 'Thhalv10015506m.g' => 'esa', 'Thhalv10017364m.g' => 'esa', 'Thhalv10023742m.g' => 'esa', 'Thhalv10026483m.g' => 'esa', 'TPR.G17232' => 'tpr', 'TPR.G2133' => 'tpr', 'TPR.G2498' => 'tpr', 'TPR.G31942' => 'tpr', 'TPR.G37877' => 'tpr', 'TPR.G4571' => 'tpr', 'TWI14G1113' => 'twi', 'TWI15G0426' => 'twi', 'TWI31G1005' => 'twi', 'TWI38G0513' => 'twi', 'TWI38G1484' => 'twi', 'TWI73G1098' => 'twi', 'unitig_26.g10519' => 'ugi', 'unitig_736.g22395' => 'ugi', 'unitig_747.g21234' => 'ugi', 'unitig_747.g21942' => 'ugi', 'vmacro14351' => 'vma', 'VMungo0540G0082' => 'vmu', 'VMungo0540G0405' => 'vmu', 'VMungo0540G1486' => 'vmu', 'VMungo0540G1692' => 'vmu', 'VMungo0720G2473' => 'vmu', 'VMungo1127G1562' => 'vmu', 'VMungo1215G1918' => 'vmu', 'Zm00001eb052650' => 'zma', 'Zm00001eb063710' => 'zma', 'Zm00001eb083950' => 'zma', 'Zm00001eb174420' => 'zma', 'Zm00001eb260140' => 'zma', 'Zm00001eb260150' => 'zma', 'Zm00001eb260160' => 'zma', 'Zm00001eb348290' => 'zma', 'Zm00001eb366870' => 'zma', 'Zm00001eb421930' => 'zma' ), 'gf_id' => 'HOM05D001025', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001025' ), 'data_identifier' => 'HOM05D001025', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001025', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '592', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p22650' => 'bna', 'A01p29720' => 'bna', 'A03p26560' => 'bna', 'A03p68820' => 'bna', 'A04p20980' => 'bna', 'A06p07730' => 'bna', 'A07p18260' => 'bna', 'A08p33710' => 'bna', 'A09p16970' => 'bna', 'A10p27490' => 'bna', 'Aa31LG1G17300' => 'aar', 'Aa31LG1G3910' => 'aar', 'Aa31LG2G9630' => 'aar', 'Aa31LG5G8360' => 'aar', 'Aa31LG9G2410' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4699' => 'aag', 'Actinidia23512' => 'ach', 'Actinidia37080' => 'ach', 'Ah.01g020380' => 'amhyb', 'Ah.08g215710' => 'amhyb', 'Ah.09g225110' => 'amhyb', 'Ah.10g036680' => 'amhyb', 'AL1G21940' => 'aly', 'AL2G15540' => 'aly', 'AL4G21520' => 'aly', 'AL7G40960' => 'aly', 'Aqoxy2G01191' => 'aox', 'Aqoxy2G03393' => 'aox', 'Aqoxy4G02775' => 'aox', 'Aqoxy6G00058' => 'aox', 'arahy.Tifrunner.gnm1.ann1.9X74H2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CW3FX9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R485W7' => 'arhy', 'AT1G10960' => 'ath', 'AT1G60950' => 'ath', 'AT2G27510' => 'ath', 'AT4G14890' => 'ath', 'AT5G10000' => 'ath', 'ATR0665G624' => 'atr', 'ATR0697G138' => 'atr', 'ATR0776G046' => 'atr', 'ATR1134G135' => 'atr', 'Atru.chr12.1025' => 'acertr', 'Atru.chr3.3241' => 'acertr', 'Atru.chr4.2460' => 'acertr', 'AUR62007427' => 'cqu', 'AUR62010960' => 'cqu', 'AUR62012201' => 'cqu', 'AUR62021470' => 'cqu', 'AUR62022834' => 'cqu', 'AUR62033635' => 'cqu', 'AUR62036186' => 'cqu', 'BcaB01g03077' => 'bca', 'BcaB02g10093' => 'bca', 'BcaB04g20295' => 'bca', 'BcaB06g28147' => 'bca', 'BcaB07g31253' => 'bca', 'BcaC01g04946' => 'bca', 'BcaC02g10614' => 'bca', 'BcaC02g10885' => 'bca', 'BcaC04g19356' => 'bca', 'BcaC04g22297' => 'bca', 'BcaC05g24977' => 'bca', 'BcaC06g31823' => 'bca', 'BcaC07g38633' => 'bca', 'BcaC09g49353' => 'bca', 'BcaC09g50168' => 'bca', 'BcaNung00322' => 'bca', 'BcaNung04769' => 'bca', 'BolC1t02753H' => 'bol', 'BolC1t03721H' => 'bol', 'BolC3t15525H' => 'bol', 'BolC4t23903H' => 'bol', 'BolC4t24231H' => 'bol', 'BolC4t27209H' => 'bol', 'BolC5t29671H' => 'bol', 'BolC8t49044H' => 'bol', 'BolC9t54999H' => 'bol', 'BolC9t59517H' => 'bol', 'BraA01t02178Z' => 'bra', 'BraA01t03099Z' => 'bra', 'BraA03t11867Z' => 'bra', 'BraA04t17667Z' => 'bra', 'BraA07t29542Z' => 'bra', 'BraA08t35287Z' => 'bra', 'BraA09t37334Z' => 'bra', 'BraA10t44801Z' => 'bra', 'BraSC39t46181Z' => 'bra', 'C01p28240' => 'bna', 'C01p37530' => 'bna', 'C03p31820' => 'bna', 'C04p24080' => 'bna', 'C04p25790' => 'bna', 'C04p56770' => 'bna', 'C05p09310' => 'bna', 'C09p21010' => 'bna', 'C09p67560' => 'bna', 'CAN.G1324.7' => 'can', 'CAN.G1358.10' => 'can', 'CAN.G1550.2' => 'can', 'CAN.G186.56' => 'can', 'CAN.G1965.1' => 'can', 'CAN.G645.15' => 'can', 'CAN.G798.26' => 'can', 'CAN.G798.27' => 'can', 'CAN.G798.29' => 'can', 'CAN.G919.31' => 'can', 'CANSAT11G0133' => 'cansat', 'CANSAT11G1171' => 'cansat', 'CANSAT11G2056' => 'cansat', 'CANSAT56G1202' => 'cansat', 'CANSAT56G1514' => 'cansat', 'CANSAT78G0455' => 'cansat', 'CARHR011190' => 'chi', 'CARHR051980' => 'chi', 'CARHR120170' => 'chi', 'CARHR203310' => 'chi', 'CARHR221490' => 'chi', 'Carub.0001s1054' => 'cru', 'Carub.0002s0431' => 'cru', 'Carub.0004s0818' => 'cru', 'Carub.0006s0846' => 'cru', 'Carub.0007s2722' => 'cru', 'Ca_00058_v3' => 'car', 'Ca_17831_v3' => 'car', 'Ca_19408_v3' => 'car', 'Ca_24397_v3' => 'car', 'Ca_25664_v3' => 'car', 'CBR_g21818' => 'cbr', 'CBR_g31195' => 'cbr', 'CBR_g32282' => 'cbr', 'CBR_g39599' => 'cbr', 'CBR_g49410' => 'cbr', 'Cc01_g09120' => 'ccan', 'Cc01_g09130' => 'ccan', 'Cc02_g09630' => 'ccan', 'Cc02_g22810' => 'ccan', 'Cc03_g03810' => 'ccan', 'CDE02G3718' => 'cde', 'CDE04G3183' => 'cde', 'CDE07G1046' => 'cde', 'CDE08G0480' => 'cde', 'Cfa005493' => 'cfa', 'Cfa010312' => 'cfa', 'Cfa015648' => 'cfa', 'Ciclev10002793m.g' => 'ccl', 'Ciclev10003356m.g' => 'ccl', 'Ciclev10006141m.g' => 'ccl', 'Ciclev10016676m.g' => 'ccl', 'Ciclev10017081m.g' => 'ccl', 'Ciclev10029499m.g' => 'ccl', 'CiPaw.01G166300' => 'cil', 'CiPaw.06G145600' => 'cil', 'CiPaw.13G040100' => 'cil', 'CiPaw.13G135800' => 'cil', 'ClCG01G012230' => 'cla', 'ClCG05G009510' => 'cla', 'ClCG08G008270' => 'cla', 'COL.COLO4_11763' => 'col', 'COL.COLO4_19876' => 'col', 'COL.COLO4_21481' => 'col', 'Cpa.g.sc118.34' => 'cpa', 'Cpa.g.sc32.13' => 'cpa', 'Cpa.g.sc58.103' => 'cpa', 'Cre03.g183850' => 'cre', 'Cre06.g306350' => 'cre', 'Cre07.g334800' => 'cre', 'Cre12.g487900' => 'cre', 'Cre14.g626700' => 'cre', 'Cre16.g658400' => 'cre', 'Cre17.g700950' => 'cre', 'CsaV3_1G014830' => 'csa', 'CsaV3_3G013320' => 'csa', 'CsaV3_3G019210' => 'csa', 'CsaV3_3G019220' => 'csa', 'CsaV3_6G004230' => 'csa', 'CSS0003773' => 'camsi', 'CSS0004563' => 'camsi', 'CSS0013949' => 'camsi', 'CSS0025971' => 'camsi', 'CSS0028570' => 'camsi', 'CSS0033127' => 'camsi', 'CSS0036051' => 'camsi', 'CSS0040087' => 'camsi', 'CSS0043179' => 'camsi', 'DCAR_006161' => 'dca', 'DCAR_010351' => 'dca', 'DCAR_012197' => 'dca', 'DCAR_024162' => 'dca', 'Dinv01030' => 'din', 'Dinv10924' => 'din', 'Dinv11835' => 'din', 'Dinv22841' => 'din', 'Dinv42553' => 'din', 'Duzib052G0560' => 'dzi', 'Duzib132G0389' => 'dzi', 'Duzib150G1181' => 'dzi', 'Duzib168G0623' => 'dzi', 'Duzib170G1036' => 'dzi', 'Duzib212G0200' => 'dzi', 'Duzib248G0194' => 'dzi', 'ECA232G2193' => 'eca', 'ECA233G0302' => 'eca', 'ECA234G2813' => 'eca', 'ECA234G4866' => 'eca', 'ECA240G3932' => 'eca', 'ECA248G0385' => 'eca', 'EL10Ac2g04781' => 'bvu', 'EL10Ac3g06445' => 'bvu', 'EL10Ac7g15825' => 'bvu', 'EL10Ac8g18550' => 'bvu', 'Eucgr.B03849' => 'egr', 'Eucgr.I02744' => 'egr', 'Eucgr.J00264' => 'egr', 'Eucgr.J00493' => 'egr', 'FAN04G2181' => 'fan', 'FAN07G2666' => 'fan', 'FAN11G0024' => 'fan', 'FAN12G1105' => 'fan', 'FAN13G0302' => 'fan', 'FAN15G2781' => 'fan', 'FAN16G1274' => 'fan', 'FAN17G2988' => 'fan', 'FAN18G2621' => 'fan', 'FAN21G0013' => 'fan', 'FAN22G1211' => 'fan', 'FAN25G3626' => 'fan', 'FvH4_2g09491' => 'fve', 'FvH4_3g24910' => 'fve', 'FvH4_4g15630' => 'fve', 'FvH4_5g28820' => 'fve', 'Glyma.01G238000' => 'gma', 'Glyma.05G168400' => 'gma', 'Glyma.08G126800' => 'gma', 'Glyma.08G188500' => 'gma', 'Glyma.10G278900' => 'gma', 'Glyma.11G005700' => 'gma', 'Glyma.11G183300' => 'gma', 'Glyma.12G089200' => 'gma', 'Glyma.12G169400' => 'gma', 'Glyma.12G169500' => 'gma', 'Glyma.12G169600' => 'gma', 'Glyma.20G110800' => 'gma', 'Gohir.A03G192900' => 'ghi', 'Gohir.A03G193000' => 'ghi', 'Gohir.A05G080700' => 'ghi', 'Gohir.A09G216000' => 'ghi', 'Gohir.A12G027700' => 'ghi', 'Gohir.A13G036200' => 'ghi', 'Gohir.A13G222600' => 'ghi', 'Gohir.D02G213900' => 'ghi', 'Gohir.D02G214000' => 'ghi', 'Gohir.D05G083700' => 'ghi', 'Gohir.D05G083800' => 'ghi', 'Gohir.D05G083850' => 'ghi', 'Gohir.D08G015400' => 'ghi', 'Gohir.D09G218400' => 'ghi', 'Gohir.D12G027100' => 'ghi', 'Gohir.D13G034500' => 'ghi', 'Gohir.D13G227400' => 'ghi', 'Gorai.005G241800' => 'gra', 'Gorai.005G241900' => 'gra', 'Gorai.006G239400' => 'gra', 'Gorai.008G027600' => 'gra', 'Gorai.009G085400' => 'gra', 'Gorai.009G085500' => 'gra', 'Gorai.013G039000' => 'gra', 'Gorai.013G194800' => 'gra', 'Gorai.013G257900' => 'gra', 'GSVIVG01000982001' => 'vvi', 'GSVIVG01017981001' => 'vvi', 'HanXRQChr01g0024061' => 'han', 'HanXRQChr09g0247831' => 'han', 'HanXRQChr10g0294611' => 'han', 'HanXRQChr10g0294621' => 'han', 'HanXRQChr11g0346821' => 'han', 'HanXRQChr13g0397461' => 'han', 'HanXRQChr16g0513651' => 'han', 'HanXRQChr16g0513701' => 'han', 'Haze_00897' => 'cav', 'Haze_01745' => 'cav', 'Haze_02486' => 'cav', 'Haze_02487' => 'cav', 'Haze_23374' => 'cav', 'Hma1.2p1_0578F.1_g182520' => 'hma', 'Hma1.2p1_0602F.1_g187350' => 'hma', 'Hma1.2p1_0602F.1_g187360' => 'hma', 'Hma1.2p1_0874F.1_g231320' => 'hma', 'Hma1.2p1_1197F.1_g266210' => 'hma', 'Hma1.2p1_1197F.1_g266220' => 'hma', 'Hma1.2p1_2167F.1_g315895' => 'hma', 'Hma1.2p1_2190F.1_g316640' => 'hma', 'Hma1.2p1_3645F.1_g337153' => 'hma', 'HPP92_004907' => 'vpl', 'HPP92_012134' => 'vpl', 'HPP92_025136' => 'vpl', 'HPP92_026087' => 'vpl', 'Hund06782' => 'sun', 'Hund06784' => 'sun', 'Lalb_Chr01g0004861' => 'lal', 'Lalb_Chr02g0140591' => 'lal', 'Lalb_Chr02g0140611' => 'lal', 'Lalb_Chr03g0028101' => 'lal', 'Lalb_Chr07g0185791' => 'lal', 'Lalb_Chr12g0204491' => 'lal', 'Lalb_Chr13g0295671' => 'lal', 'Lalb_Chr19g0136461' => 'lal', 'Lalb_Chr21g0309191' => 'lal', 'Lj1g0028158' => 'lja', 'Lj1P236T38' => 'lonja', 'Lj2C32G2' => 'lonja', 'Lj2P944T8' => 'lonja', 'Lj2P963T15' => 'lonja', 'Lj3g0011788' => 'lja', 'Lj4g0025027' => 'lja', 'Lj5P255T36' => 'lonja', 'Lj6g0018866' => 'lja', 'Lj6P608T31' => 'lonja', 'LjContig00408g0008879' => 'lja', 'Lsat_1_v5_gn_5_105820' => 'lsa', 'Lsat_1_v5_gn_6_38800' => 'lsa', 'Lsat_1_v5_gn_7_67141' => 'lsa', 'Manes.04G003400' => 'mes', 'Manes.07G020000' => 'mes', 'Manes.07G020100' => 'mes', 'Manes.07G020150' => 'mes', 'Manes.10G061500' => 'mes', 'Manes.10G123200' => 'mes', 'Manes.11G161900' => 'mes', 'Manes.15G029300' => 'mes', 'Mapoly0071s0018' => 'mpo', 'Mapoly0082s0023' => 'mpo', 'Mapoly3477s0001' => 'mpo', 'MBI05_g31233_MAGBIO' => 'mbi', 'MBI09_g05946_MAGBIO' => 'mbi', 'MBI09_g05947_MAGBIO' => 'mbi', 'MBI17_g08346_MAGBIO' => 'mbi', 'MCO04G038' => 'mco', 'MCO09G370' => 'mco', 'MCO13G605' => 'mco', 'MD00G1075500' => 'mdo', 'MD03G1144300' => 'mdo', 'MD08G1236800' => 'mdo', 'MD13G1193300' => 'mdo', 'MD15G1428700' => 'mdo', 'Medtr1g112030' => 'mtr', 'Medtr1g112050' => 'mtr', 'Medtr2g006290' => 'mtr', 'Medtr2g086510' => 'mtr', 'Medtr4g053120' => 'mtr', 'Medtr5g006320' => 'mtr', 'Medtr8g088720' => 'mtr', 'MELO3C004712.2' => 'cme', 'MELO3C006533.2' => 'cme', 'MELO3C019438.2' => 'cme', 'MELO3C019440.2' => 'cme', 'MELO3C019441.2' => 'cme', 'MELO3C019895.2' => 'cme', 'Migut.B00811' => 'egut', 'Migut.D02447' => 'egut', 'Migut.F00875' => 'egut', 'Migut.N00186' => 'egut', 'Migut.N01051' => 'egut', 'Migut.N02491' => 'egut', 'Migut.O00784' => 'egut', 'MSTRG.12367' => 'ama', 'MSTRG.18756' => 'ama', 'MSTRG.21042' => 'ama', 'Nitab4.5_0000559g0040' => 'nta', 'Nitab4.5_0000667g0190' => 'nta', 'Nitab4.5_0000755g0160' => 'nta', 'Nitab4.5_0001216g0080' => 'nta', 'Nitab4.5_0004069g0040' => 'nta', 'Nitab4.5_0004129g0010' => 'nta', 'Nitab4.5_0005744g0030' => 'nta', 'Nitab4.5_0006996g0030' => 'nta', 'Nitab4.5_0008971g0040' => 'nta', 'Nitab4.5_0009769g0020' => 'nta', 'Nitab4.5_0009833g0010' => 'nta', 'Nitab4.5_0013140g0020' => 'nta', 'Nn003s41376' => 'nnu', 'Nn1g01857' => 'nnu', 'Nn1g03611' => 'nnu', 'Nn1g06853' => 'nnu', 'Nn3g18360' => 'nnu', 'Nn4g26328' => 'nnu', 'Nn5g27531' => 'nnu', 'Nn6g34899' => 'nnu', 'Nn7g36299' => 'nnu', 'Oeu021485.1' => 'oeu', 'Oeu022433.1' => 'oeu', 'Oeu032111.1' => 'oeu', 'Oeu051608.1' => 'oeu', 'Os01g0860601' => 'osa', 'Os03g0659200' => 'osa', 'Os03g0835900' => 'osa', 'Os04g0412200' => 'osa', 'Os05g0443500' => 'osa', 'Os07g0251500' => 'osa', 'Os08g0104600' => 'osa', 'Peaxi162Scf00003g00047' => 'pax', 'Peaxi162Scf00003g00052' => 'pax', 'Peaxi162Scf00003g00394' => 'pax', 'Peaxi162Scf00091g00621' => 'pax', 'Peaxi162Scf00152g00146' => 'pax', 'Peaxi162Scf00173g00025' => 'pax', 'Peaxi162Scf00195g00102' => 'pax', 'Peaxi162Scf00402g00013' => 'pax', 'Peaxi162Scf00519g00618' => 'pax', 'PGR004G2838' => 'pgr', 'PGR044G2275' => 'pgr', 'PGR102G1377' => 'pgr', 'PGR119G1245' => 'pgr', 'PGR142G4449' => 'pgr', 'PGSC0003DMG400004532' => 'stu', 'PGSC0003DMG400011950' => 'stu', 'PGSC0003DMG400023391' => 'stu', 'PGSC0003DMG400023985' => 'stu', 'PGSC0003DMG400026360' => 'stu', 'PGSC0003DMG400035711' => 'stu', 'PGSC0003DMG400037286' => 'stu', 'PGSC0003DMG402005881' => 'stu', 'Phvul.002G045400' => 'pvu', 'Phvul.006G216600' => 'pvu', 'Phvul.006G216700' => 'pvu', 'Phvul.006G216800' => 'pvu', 'Phvul.007G022500' => 'pvu', 'Phvul.011G094400' => 'pvu', 'Potri.001G470700' => 'ptr', 'Potri.003G015200' => 'ptr', 'Potri.004G202500' => 'ptr', 'Potri.004G218400' => 'ptr', 'Potri.008G020100' => 'ptr', 'Potri.008G153200' => 'ptr', 'Potri.009G163800' => 'ptr', 'Potri.010G087300' => 'ptr', 'Potri.010G239100' => 'ptr', 'Pp3c10_16100' => 'ppa', 'Pp3c10_16880' => 'ppa', 'Pp3c16_6230' => 'ppa', 'Pp3c17_18910' => 'ppa', 'Pp3c3_22119' => 'ppa', 'Pp3c3_22140' => 'ppa', 'Pp3c4_8159' => 'ppa', 'Pp3c4_8171' => 'ppa', 'Pp3c4_8330' => 'ppa', 'PRCOL_00004098' => 'pco', 'Prupe.1G013900' => 'ppe', 'Prupe.1G226300' => 'ppe', 'Prupe.1G573600' => 'ppe', 'Prupe.6G130100' => 'ppe', 'Psat3g090040' => 'psa', 'Psat4g210440' => 'psa', 'Psat6g231040' => 'psa', 'Psat6g231080' => 'psa', 'Psat7g063000' => 'psa', 'Psat7g188000' => 'psa', 'Psat7g188040' => 'psa', 'PSO017G0206' => 'pso', 'PSO170G0501' => 'pso', 'PSO170G6422' => 'pso', 'PSO210G7739' => 'pso', 'PSO339G1808' => 'pso', 'PSO339G6135' => 'pso', 'PSO384G0010' => 'pso', 'PSO384G0964' => 'pso', 'PSO761G0050' => 'pso', 'PSO782G4085' => 'pso', 'QL01p012264' => 'qlo', 'QL02p099491' => 'qlo', 'QL03p033868' => 'qlo', 'QL04p046678' => 'qlo', 'QL06p002448' => 'qlo', 'RcHm_v2.0_Chr4g0416181' => 'rch', 'RcHm_v2.0_Chr5g0044701' => 'rch', 'RcHm_v2.0_Chr6g0265781' => 'rch', 'RcHm_v2.0_Chr7g0221031' => 'rch', 'Rhsim04G0202000' => 'rsi', 'Rhsim11G0127300' => 'rsi', 'Rhsim13G0111800' => 'rsi', 'Sabra01G0165600' => 'sbr', 'Sabra03G0008300' => 'sbr', 'Sabra04G0136900' => 'sbr', 'Sabra08G0013400' => 'sbr', 'Sabra08G0116800' => 'sbr', 'Sabra09G0128000' => 'sbr', 'Sabra10G0055500' => 'sbr', 'Sabra10G0073300' => 'sbr', 'SalBow3G0385' => 'sbo', 'SalBow3G1119' => 'sbo', 'SalBow3G2005' => 'sbo', 'SalBow6G2563' => 'sbo', 'SalBow6G6386' => 'sbo', 'Sc06g0008800' => 'sci', 'Sc07g0004950' => 'sci', 'Sc09g0005340' => 'sci', 'Sc13g0004410' => 'sci', 'Sc21g0007090' => 'sci', 'Sed0009285' => 'sed', 'Sed0017583' => 'sed', 'Sed0019699' => 'sed', 'Sed0023107' => 'sed', 'SEGI_10916' => 'sgi', 'SEGI_16217' => 'sgi', 'SEGI_19466' => 'sgi', 'SEGI_41115' => 'sgi', 'SGA_v2.0_scaffold111G31534' => 'sas', 'SGA_v2.0_scaffold22G09864' => 'sas', 'SGA_v2.0_scaffold338G49219' => 'sas', 'SGA_v2.0_scaffold92G28298' => 'sas', 'SMO119G0064' => 'smo', 'SMO223G0038' => 'smo', 'SMO347G0584' => 'smo', 'SMO351G0010' => 'smo', 'SMO356G0404' => 'smo', 'Solyc01g103920.3' => 'sly', 'Solyc04g009710.2' => 'sly', 'Solyc05g055280.2' => 'sly', 'Solyc10g044520.3' => 'sly', 'Solyc10g075160.1' => 'sly', 'Solyc11g006910.3' => 'sly', 'Solyc11g068430.3' => 'sly', 'Sopen01g046310' => 'spe', 'Sopen03g001200' => 'spe', 'Sopen04g004830' => 'spe', 'Sopen05g033720' => 'spe', 'Sopen06g030740' => 'spe', 'Sopen10g013090' => 'spe', 'Sopen10g027630' => 'spe', 'Sopen10g027640' => 'spe', 'Sopen11g002820' => 'spe', 'Sopen11g027140' => 'spe', 'Sp1g09680' => 'spa', 'Sp2g03630' => 'spa', 'Sp4g10320' => 'spa', 'Sp6g33400' => 'spa', 'Sp7g13030' => 'spa', 'TAR365G0317' => 'tar', 'TAR376G0979' => 'tar', 'TAR623G1665' => 'tar', 'TAR633G2373' => 'tar', 'TAR636G1400' => 'tar', 'THA.LOC104800529' => 'tha', 'THA.LOC104808547' => 'tha', 'THA.LOC104809615' => 'tha', 'THA.LOC104815724' => 'tha', 'THA.LOC104818480' => 'tha', 'THA.LOC104819179' => 'tha', 'THA.LOC104822270' => 'tha', 'THA.LOC104826425' => 'tha', 'Thecc.02G089700' => 'tca', 'Thecc.04G232300' => 'tca', 'Thecc.09G283400' => 'tca', 'Thhalv10009020m.g' => 'esa', 'Thhalv10015506m.g' => 'esa', 'Thhalv10017364m.g' => 'esa', 'Thhalv10023742m.g' => 'esa', 'Thhalv10026483m.g' => 'esa', 'TPR.G17232' => 'tpr', 'TPR.G2133' => 'tpr', 'TPR.G2498' => 'tpr', 'TPR.G31942' => 'tpr', 'TPR.G37877' => 'tpr', 'TPR.G4571' => 'tpr', 'TWI14G1113' => 'twi', 'TWI15G0426' => 'twi', 'TWI31G1005' => 'twi', 'TWI38G0513' => 'twi', 'TWI38G1484' => 'twi', 'TWI73G1098' => 'twi', 'unitig_26.g10519' => 'ugi', 'unitig_736.g22395' => 'ugi', 'unitig_747.g21234' => 'ugi', 'unitig_747.g21942' => 'ugi', 'vmacro14351' => 'vma', 'VMungo0540G0082' => 'vmu', 'VMungo0540G0405' => 'vmu', 'VMungo0540G1486' => 'vmu', 'VMungo0540G1692' => 'vmu', 'VMungo0720G2473' => 'vmu', 'VMungo1127G1562' => 'vmu', 'VMungo1215G1918' => 'vmu', 'Zm00001eb052650' => 'zma', 'Zm00001eb063710' => 'zma', 'Zm00001eb083950' => 'zma', 'Zm00001eb174420' => 'zma', 'Zm00001eb260140' => 'zma', 'Zm00001eb260150' => 'zma', 'Zm00001eb260160' => 'zma', 'Zm00001eb348290' => 'zma', 'Zm00001eb366870' => 'zma', 'Zm00001eb421930' => 'zma' ) $gf_id = 'HOM05D001025' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001025' ) $data_identifier = 'HOM05D001025' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 19, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 2, 'amhyb' => (int) 4, 'aly' => (int) 4, 'aox' => (int) 4, 'arhy' => (int) 3, 'ath' => (int) 5, 'atr' => (int) 4, 'acertr' => (int) 3, 'cqu' => (int) 7, 'bca' => (int) 17, 'bol' => (int) 10, 'bra' => (int) 9, 'can' => (int) 10, 'cansat' => (int) 6, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 5, 'cbr' => (int) 5, 'ccan' => (int) 5, 'cde' => (int) 4, 'cfa' => (int) 3, 'ccl' => (int) 6, 'cil' => (int) 4, 'cla' => (int) 3, 'col' => (int) 3, 'cpa' => (int) 3, 'cre' => (int) 7, 'csa' => (int) 5, 'camsi' => (int) 9, 'dca' => (int) 4, 'din' => (int) 5, 'dzi' => (int) 7, 'eca' => (int) 6, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 12, 'fve' => (int) 4, 'gma' => (int) 12, 'ghi' => (int) 17, 'gra' => (int) 9, 'vvi' => (int) 2, 'han' => (int) 8, 'cav' => (int) 5, 'hma' => (int) 9, 'vpl' => (int) 4, 'sun' => (int) 2, 'lal' => (int) 9, 'lja' => (int) 5, 'lonja' => (int) 6, 'lsa' => (int) 3, 'mes' => (int) 8, 'mpo' => (int) 3, 'mbi' => (int) 4, 'mco' => (int) 3, 'mdo' => (int) 5, 'mtr' => (int) 7, 'cme' => (int) 6, 'egut' => (int) 7, 'ama' => (int) 3, 'nta' => (int) 12, 'nnu' => (int) 9, 'oeu' => (int) 4, 'osa' => (int) 7, 'pax' => (int) 9, 'pgr' => (int) 5, 'stu' => (int) 8, 'pvu' => (int) 6, 'ptr' => (int) 9, 'ppa' => (int) 9, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 7, 'pso' => (int) 10, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 3, 'sbr' => (int) 8, 'sbo' => (int) 5, 'sci' => (int) 5, 'sed' => (int) 4, 'sgi' => (int) 4, 'sas' => (int) 4, 'smo' => (int) 5, 'sly' => (int) 7, 'spe' => (int) 10, 'spa' => (int) 5, 'tar' => (int) 5, 'tha' => (int) 8, 'tca' => (int) 3, 'esa' => (int) 5, 'tpr' => (int) 6, 'twi' => (int) 6, 'ugi' => (int) 4, 'vma' => (int) 1, 'vmu' => (int) 7, 'zma' => (int) 10 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb421930' $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' => 'HOM05D001025', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '592', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p22650' => 'bna', 'A01p29720' => 'bna', 'A03p26560' => 'bna', 'A03p68820' => 'bna', 'A04p20980' => 'bna', 'A06p07730' => 'bna', 'A07p18260' => 'bna', 'A08p33710' => 'bna', 'A09p16970' => 'bna', 'A10p27490' => 'bna', 'Aa31LG1G17300' => 'aar', 'Aa31LG1G3910' => 'aar', 'Aa31LG2G9630' => 'aar', 'Aa31LG5G8360' => 'aar', 'Aa31LG9G2410' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4699' => 'aag', 'Actinidia23512' => 'ach', 'Actinidia37080' => 'ach', 'Ah.01g020380' => 'amhyb', 'Ah.08g215710' => 'amhyb', 'Ah.09g225110' => 'amhyb', 'Ah.10g036680' => 'amhyb', 'AL1G21940' => 'aly', 'AL2G15540' => 'aly', 'AL4G21520' => 'aly', 'AL7G40960' => 'aly', 'Aqoxy2G01191' => 'aox', 'Aqoxy2G03393' => 'aox', 'Aqoxy4G02775' => 'aox', 'Aqoxy6G00058' => 'aox', 'arahy.Tifrunner.gnm1.ann1.9X74H2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CW3FX9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R485W7' => 'arhy', 'AT1G10960' => 'ath', 'AT1G60950' => 'ath', 'AT2G27510' => 'ath', 'AT4G14890' => 'ath', 'AT5G10000' => 'ath', 'ATR0665G624' => 'atr', 'ATR0697G138' => 'atr', 'ATR0776G046' => 'atr', 'ATR1134G135' => 'atr', 'Atru.chr12.1025' => 'acertr', 'Atru.chr3.3241' => 'acertr', 'Atru.chr4.2460' => 'acertr', 'AUR62007427' => 'cqu', 'AUR62010960' => 'cqu', 'AUR62012201' => 'cqu', 'AUR62021470' => 'cqu', 'AUR62022834' => 'cqu', 'AUR62033635' => 'cqu', 'AUR62036186' => 'cqu', 'BcaB01g03077' => 'bca', 'BcaB02g10093' => 'bca', 'BcaB04g20295' => 'bca', 'BcaB06g28147' => 'bca', 'BcaB07g31253' => 'bca', 'BcaC01g04946' => 'bca', 'BcaC02g10614' => 'bca', 'BcaC02g10885' => 'bca', 'BcaC04g19356' => 'bca', 'BcaC04g22297' => 'bca', 'BcaC05g24977' => 'bca', 'BcaC06g31823' => 'bca', 'BcaC07g38633' => 'bca', 'BcaC09g49353' => 'bca', 'BcaC09g50168' => 'bca', 'BcaNung00322' => 'bca', 'BcaNung04769' => 'bca', 'BolC1t02753H' => 'bol', 'BolC1t03721H' => 'bol', 'BolC3t15525H' => 'bol', 'BolC4t23903H' => 'bol', 'BolC4t24231H' => 'bol', 'BolC4t27209H' => 'bol', 'BolC5t29671H' => 'bol', 'BolC8t49044H' => 'bol', 'BolC9t54999H' => 'bol', 'BolC9t59517H' => 'bol', 'BraA01t02178Z' => 'bra', 'BraA01t03099Z' => 'bra', 'BraA03t11867Z' => 'bra', 'BraA04t17667Z' => 'bra', 'BraA07t29542Z' => 'bra', 'BraA08t35287Z' => 'bra', 'BraA09t37334Z' => 'bra', 'BraA10t44801Z' => 'bra', 'BraSC39t46181Z' => 'bra', 'C01p28240' => 'bna', 'C01p37530' => 'bna', 'C03p31820' => 'bna', 'C04p24080' => 'bna', 'C04p25790' => 'bna', 'C04p56770' => 'bna', 'C05p09310' => 'bna', 'C09p21010' => 'bna', 'C09p67560' => 'bna', 'CAN.G1324.7' => 'can', 'CAN.G1358.10' => 'can', 'CAN.G1550.2' => 'can', 'CAN.G186.56' => 'can', 'CAN.G1965.1' => 'can', 'CAN.G645.15' => 'can', 'CAN.G798.26' => 'can', 'CAN.G798.27' => 'can', 'CAN.G798.29' => 'can', 'CAN.G919.31' => 'can', 'CANSAT11G0133' => 'cansat', 'CANSAT11G1171' => 'cansat', 'CANSAT11G2056' => 'cansat', 'CANSAT56G1202' => 'cansat', 'CANSAT56G1514' => 'cansat', 'CANSAT78G0455' => 'cansat', 'CARHR011190' => 'chi', 'CARHR051980' => 'chi', 'CARHR120170' => 'chi', 'CARHR203310' => 'chi', 'CARHR221490' => 'chi', 'Carub.0001s1054' => 'cru', 'Carub.0002s0431' => 'cru', 'Carub.0004s0818' => 'cru', 'Carub.0006s0846' => 'cru', 'Carub.0007s2722' => 'cru', 'Ca_00058_v3' => 'car', 'Ca_17831_v3' => 'car', 'Ca_19408_v3' => 'car', 'Ca_24397_v3' => 'car', 'Ca_25664_v3' => 'car', 'CBR_g21818' => 'cbr', 'CBR_g31195' => 'cbr', 'CBR_g32282' => 'cbr', 'CBR_g39599' => 'cbr', 'CBR_g49410' => 'cbr', 'Cc01_g09120' => 'ccan', 'Cc01_g09130' => 'ccan', 'Cc02_g09630' => 'ccan', 'Cc02_g22810' => 'ccan', 'Cc03_g03810' => 'ccan', 'CDE02G3718' => 'cde', 'CDE04G3183' => 'cde', 'CDE07G1046' => 'cde', 'CDE08G0480' => 'cde', 'Cfa005493' => 'cfa', 'Cfa010312' => 'cfa', 'Cfa015648' => 'cfa', 'Ciclev10002793m.g' => 'ccl', 'Ciclev10003356m.g' => 'ccl', 'Ciclev10006141m.g' => 'ccl', 'Ciclev10016676m.g' => 'ccl', 'Ciclev10017081m.g' => 'ccl', 'Ciclev10029499m.g' => 'ccl', 'CiPaw.01G166300' => 'cil', 'CiPaw.06G145600' => 'cil', 'CiPaw.13G040100' => 'cil', 'CiPaw.13G135800' => 'cil', 'ClCG01G012230' => 'cla', 'ClCG05G009510' => 'cla', 'ClCG08G008270' => 'cla', 'COL.COLO4_11763' => 'col', 'COL.COLO4_19876' => 'col', 'COL.COLO4_21481' => 'col', 'Cpa.g.sc118.34' => 'cpa', 'Cpa.g.sc32.13' => 'cpa', 'Cpa.g.sc58.103' => 'cpa', 'Cre03.g183850' => 'cre', 'Cre06.g306350' => 'cre', 'Cre07.g334800' => 'cre', 'Cre12.g487900' => 'cre', 'Cre14.g626700' => 'cre', 'Cre16.g658400' => 'cre', 'Cre17.g700950' => 'cre', 'CsaV3_1G014830' => 'csa', 'CsaV3_3G013320' => 'csa', 'CsaV3_3G019210' => 'csa', 'CsaV3_3G019220' => 'csa', 'CsaV3_6G004230' => 'csa', 'CSS0003773' => 'camsi', 'CSS0004563' => 'camsi', 'CSS0013949' => 'camsi', 'CSS0025971' => 'camsi', 'CSS0028570' => 'camsi', 'CSS0033127' => 'camsi', 'CSS0036051' => 'camsi', 'CSS0040087' => 'camsi', 'CSS0043179' => 'camsi', 'DCAR_006161' => 'dca', 'DCAR_010351' => 'dca', 'DCAR_012197' => 'dca', 'DCAR_024162' => 'dca', 'Dinv01030' => 'din', 'Dinv10924' => 'din', 'Dinv11835' => 'din', 'Dinv22841' => 'din', 'Dinv42553' => 'din', 'Duzib052G0560' => 'dzi', 'Duzib132G0389' => 'dzi', 'Duzib150G1181' => 'dzi', 'Duzib168G0623' => 'dzi', 'Duzib170G1036' => 'dzi', 'Duzib212G0200' => 'dzi', 'Duzib248G0194' => 'dzi', 'ECA232G2193' => 'eca', 'ECA233G0302' => 'eca', 'ECA234G2813' => 'eca', 'ECA234G4866' => 'eca', 'ECA240G3932' => 'eca', 'ECA248G0385' => 'eca', 'EL10Ac2g04781' => 'bvu', 'EL10Ac3g06445' => 'bvu', 'EL10Ac7g15825' => 'bvu', 'EL10Ac8g18550' => 'bvu', 'Eucgr.B03849' => 'egr', 'Eucgr.I02744' => 'egr', 'Eucgr.J00264' => 'egr', 'Eucgr.J00493' => 'egr', 'FAN04G2181' => 'fan', 'FAN07G2666' => 'fan', 'FAN11G0024' => 'fan', 'FAN12G1105' => 'fan', 'FAN13G0302' => 'fan', 'FAN15G2781' => 'fan', 'FAN16G1274' => 'fan', 'FAN17G2988' => 'fan', 'FAN18G2621' => 'fan', 'FAN21G0013' => 'fan', 'FAN22G1211' => 'fan', 'FAN25G3626' => 'fan', 'FvH4_2g09491' => 'fve', 'FvH4_3g24910' => 'fve', 'FvH4_4g15630' => 'fve', 'FvH4_5g28820' => 'fve', 'Glyma.01G238000' => 'gma', 'Glyma.05G168400' => 'gma', 'Glyma.08G126800' => 'gma', 'Glyma.08G188500' => 'gma', 'Glyma.10G278900' => 'gma', 'Glyma.11G005700' => 'gma', 'Glyma.11G183300' => 'gma', 'Glyma.12G089200' => 'gma', 'Glyma.12G169400' => 'gma', 'Glyma.12G169500' => 'gma', 'Glyma.12G169600' => 'gma', 'Glyma.20G110800' => 'gma', 'Gohir.A03G192900' => 'ghi', 'Gohir.A03G193000' => 'ghi', 'Gohir.A05G080700' => 'ghi', 'Gohir.A09G216000' => 'ghi', 'Gohir.A12G027700' => 'ghi', 'Gohir.A13G036200' => 'ghi', 'Gohir.A13G222600' => 'ghi', 'Gohir.D02G213900' => 'ghi', 'Gohir.D02G214000' => 'ghi', 'Gohir.D05G083700' => 'ghi', 'Gohir.D05G083800' => 'ghi', 'Gohir.D05G083850' => 'ghi', 'Gohir.D08G015400' => 'ghi', 'Gohir.D09G218400' => 'ghi', 'Gohir.D12G027100' => 'ghi', 'Gohir.D13G034500' => 'ghi', 'Gohir.D13G227400' => 'ghi', 'Gorai.005G241800' => 'gra', 'Gorai.005G241900' => 'gra', 'Gorai.006G239400' => 'gra', 'Gorai.008G027600' => 'gra', 'Gorai.009G085400' => 'gra', 'Gorai.009G085500' => 'gra', 'Gorai.013G039000' => 'gra', 'Gorai.013G194800' => 'gra', 'Gorai.013G257900' => 'gra', 'GSVIVG01000982001' => 'vvi', 'GSVIVG01017981001' => 'vvi', 'HanXRQChr01g0024061' => 'han', 'HanXRQChr09g0247831' => 'han', 'HanXRQChr10g0294611' => 'han', 'HanXRQChr10g0294621' => 'han', 'HanXRQChr11g0346821' => 'han', 'HanXRQChr13g0397461' => 'han', 'HanXRQChr16g0513651' => 'han', 'HanXRQChr16g0513701' => 'han', 'Haze_00897' => 'cav', 'Haze_01745' => 'cav', 'Haze_02486' => 'cav', 'Haze_02487' => 'cav', 'Haze_23374' => 'cav', 'Hma1.2p1_0578F.1_g182520' => 'hma', 'Hma1.2p1_0602F.1_g187350' => 'hma', 'Hma1.2p1_0602F.1_g187360' => 'hma', 'Hma1.2p1_0874F.1_g231320' => 'hma', 'Hma1.2p1_1197F.1_g266210' => 'hma', 'Hma1.2p1_1197F.1_g266220' => 'hma', 'Hma1.2p1_2167F.1_g315895' => 'hma', 'Hma1.2p1_2190F.1_g316640' => 'hma', 'Hma1.2p1_3645F.1_g337153' => 'hma', 'HPP92_004907' => 'vpl', 'HPP92_012134' => 'vpl', 'HPP92_025136' => 'vpl', 'HPP92_026087' => 'vpl', 'Hund06782' => 'sun', 'Hund06784' => 'sun', 'Lalb_Chr01g0004861' => 'lal', 'Lalb_Chr02g0140591' => 'lal', 'Lalb_Chr02g0140611' => 'lal', 'Lalb_Chr03g0028101' => 'lal', 'Lalb_Chr07g0185791' => 'lal', 'Lalb_Chr12g0204491' => 'lal', 'Lalb_Chr13g0295671' => 'lal', 'Lalb_Chr19g0136461' => 'lal', 'Lalb_Chr21g0309191' => 'lal', 'Lj1g0028158' => 'lja', 'Lj1P236T38' => 'lonja', 'Lj2C32G2' => 'lonja', 'Lj2P944T8' => 'lonja', 'Lj2P963T15' => 'lonja', 'Lj3g0011788' => 'lja', 'Lj4g0025027' => 'lja', 'Lj5P255T36' => 'lonja', 'Lj6g0018866' => 'lja', 'Lj6P608T31' => 'lonja', 'LjContig00408g0008879' => 'lja', 'Lsat_1_v5_gn_5_105820' => 'lsa', 'Lsat_1_v5_gn_6_38800' => 'lsa', 'Lsat_1_v5_gn_7_67141' => 'lsa', 'Manes.04G003400' => 'mes', 'Manes.07G020000' => 'mes', 'Manes.07G020100' => 'mes', 'Manes.07G020150' => 'mes', 'Manes.10G061500' => 'mes', 'Manes.10G123200' => 'mes', 'Manes.11G161900' => 'mes', 'Manes.15G029300' => 'mes', 'Mapoly0071s0018' => 'mpo', 'Mapoly0082s0023' => 'mpo', 'Mapoly3477s0001' => 'mpo', 'MBI05_g31233_MAGBIO' => 'mbi', 'MBI09_g05946_MAGBIO' => 'mbi', 'MBI09_g05947_MAGBIO' => 'mbi', 'MBI17_g08346_MAGBIO' => 'mbi', 'MCO04G038' => 'mco', 'MCO09G370' => 'mco', 'MCO13G605' => 'mco', 'MD00G1075500' => 'mdo', 'MD03G1144300' => 'mdo', 'MD08G1236800' => 'mdo', 'MD13G1193300' => 'mdo', 'MD15G1428700' => 'mdo', 'Medtr1g112030' => 'mtr', 'Medtr1g112050' => 'mtr', 'Medtr2g006290' => 'mtr', 'Medtr2g086510' => 'mtr', 'Medtr4g053120' => 'mtr', 'Medtr5g006320' => 'mtr', 'Medtr8g088720' => 'mtr', 'MELO3C004712.2' => 'cme', 'MELO3C006533.2' => 'cme', 'MELO3C019438.2' => 'cme', 'MELO3C019440.2' => 'cme', 'MELO3C019441.2' => 'cme', 'MELO3C019895.2' => 'cme', 'Migut.B00811' => 'egut', 'Migut.D02447' => 'egut', 'Migut.F00875' => 'egut', 'Migut.N00186' => 'egut', 'Migut.N01051' => 'egut', 'Migut.N02491' => 'egut', 'Migut.O00784' => 'egut', 'MSTRG.12367' => 'ama', 'MSTRG.18756' => 'ama', 'MSTRG.21042' => 'ama', 'Nitab4.5_0000559g0040' => 'nta', 'Nitab4.5_0000667g0190' => 'nta', 'Nitab4.5_0000755g0160' => 'nta', 'Nitab4.5_0001216g0080' => 'nta', 'Nitab4.5_0004069g0040' => 'nta', 'Nitab4.5_0004129g0010' => 'nta', 'Nitab4.5_0005744g0030' => 'nta', 'Nitab4.5_0006996g0030' => 'nta', 'Nitab4.5_0008971g0040' => 'nta', 'Nitab4.5_0009769g0020' => 'nta', 'Nitab4.5_0009833g0010' => 'nta', 'Nitab4.5_0013140g0020' => 'nta', 'Nn003s41376' => 'nnu', 'Nn1g01857' => 'nnu', 'Nn1g03611' => 'nnu', 'Nn1g06853' => 'nnu', 'Nn3g18360' => 'nnu', 'Nn4g26328' => 'nnu', 'Nn5g27531' => 'nnu', 'Nn6g34899' => 'nnu', 'Nn7g36299' => 'nnu', 'Oeu021485.1' => 'oeu', 'Oeu022433.1' => 'oeu', 'Oeu032111.1' => 'oeu', 'Oeu051608.1' => 'oeu', 'Os01g0860601' => 'osa', 'Os03g0659200' => 'osa', 'Os03g0835900' => 'osa', 'Os04g0412200' => 'osa', 'Os05g0443500' => 'osa', 'Os07g0251500' => 'osa', 'Os08g0104600' => 'osa', 'Peaxi162Scf00003g00047' => 'pax', 'Peaxi162Scf00003g00052' => 'pax', 'Peaxi162Scf00003g00394' => 'pax', 'Peaxi162Scf00091g00621' => 'pax', 'Peaxi162Scf00152g00146' => 'pax', 'Peaxi162Scf00173g00025' => 'pax', 'Peaxi162Scf00195g00102' => 'pax', 'Peaxi162Scf00402g00013' => 'pax', 'Peaxi162Scf00519g00618' => 'pax', 'PGR004G2838' => 'pgr', 'PGR044G2275' => 'pgr', 'PGR102G1377' => 'pgr', 'PGR119G1245' => 'pgr', 'PGR142G4449' => 'pgr', 'PGSC0003DMG400004532' => 'stu', 'PGSC0003DMG400011950' => 'stu', 'PGSC0003DMG400023391' => 'stu', 'PGSC0003DMG400023985' => 'stu', 'PGSC0003DMG400026360' => 'stu', 'PGSC0003DMG400035711' => 'stu', 'PGSC0003DMG400037286' => 'stu', 'PGSC0003DMG402005881' => 'stu', 'Phvul.002G045400' => 'pvu', 'Phvul.006G216600' => 'pvu', 'Phvul.006G216700' => 'pvu', 'Phvul.006G216800' => 'pvu', 'Phvul.007G022500' => 'pvu', 'Phvul.011G094400' => 'pvu', 'Potri.001G470700' => 'ptr', 'Potri.003G015200' => 'ptr', 'Potri.004G202500' => 'ptr', 'Potri.004G218400' => 'ptr', 'Potri.008G020100' => 'ptr', 'Potri.008G153200' => 'ptr', 'Potri.009G163800' => 'ptr', 'Potri.010G087300' => 'ptr', 'Potri.010G239100' => 'ptr', 'Pp3c10_16100' => 'ppa', 'Pp3c10_16880' => 'ppa', 'Pp3c16_6230' => 'ppa', 'Pp3c17_18910' => 'ppa', 'Pp3c3_22119' => 'ppa', 'Pp3c3_22140' => 'ppa', 'Pp3c4_8159' => 'ppa', 'Pp3c4_8171' => 'ppa', 'Pp3c4_8330' => 'ppa', 'PRCOL_00004098' => 'pco', 'Prupe.1G013900' => 'ppe', 'Prupe.1G226300' => 'ppe', 'Prupe.1G573600' => 'ppe', 'Prupe.6G130100' => 'ppe', 'Psat3g090040' => 'psa', 'Psat4g210440' => 'psa', 'Psat6g231040' => 'psa', 'Psat6g231080' => 'psa', 'Psat7g063000' => 'psa', 'Psat7g188000' => 'psa', 'Psat7g188040' => 'psa', 'PSO017G0206' => 'pso', 'PSO170G0501' => 'pso', 'PSO170G6422' => 'pso', 'PSO210G7739' => 'pso', 'PSO339G1808' => 'pso', 'PSO339G6135' => 'pso', 'PSO384G0010' => 'pso', 'PSO384G0964' => 'pso', 'PSO761G0050' => 'pso', 'PSO782G4085' => 'pso', 'QL01p012264' => 'qlo', 'QL02p099491' => 'qlo', 'QL03p033868' => 'qlo', 'QL04p046678' => 'qlo', 'QL06p002448' => 'qlo', 'RcHm_v2.0_Chr4g0416181' => 'rch', 'RcHm_v2.0_Chr5g0044701' => 'rch', 'RcHm_v2.0_Chr6g0265781' => 'rch', 'RcHm_v2.0_Chr7g0221031' => 'rch', 'Rhsim04G0202000' => 'rsi', 'Rhsim11G0127300' => 'rsi', 'Rhsim13G0111800' => 'rsi', 'Sabra01G0165600' => 'sbr', 'Sabra03G0008300' => 'sbr', 'Sabra04G0136900' => 'sbr', 'Sabra08G0013400' => 'sbr', 'Sabra08G0116800' => 'sbr', 'Sabra09G0128000' => 'sbr', 'Sabra10G0055500' => 'sbr', 'Sabra10G0073300' => 'sbr', 'SalBow3G0385' => 'sbo', 'SalBow3G1119' => 'sbo', 'SalBow3G2005' => 'sbo', 'SalBow6G2563' => 'sbo', 'SalBow6G6386' => 'sbo', 'Sc06g0008800' => 'sci', 'Sc07g0004950' => 'sci', 'Sc09g0005340' => 'sci', 'Sc13g0004410' => 'sci', 'Sc21g0007090' => 'sci', 'Sed0009285' => 'sed', 'Sed0017583' => 'sed', 'Sed0019699' => 'sed', 'Sed0023107' => 'sed', 'SEGI_10916' => 'sgi', 'SEGI_16217' => 'sgi', 'SEGI_19466' => 'sgi', 'SEGI_41115' => 'sgi', 'SGA_v2.0_scaffold111G31534' => 'sas', 'SGA_v2.0_scaffold22G09864' => 'sas', 'SGA_v2.0_scaffold338G49219' => 'sas', 'SGA_v2.0_scaffold92G28298' => 'sas', 'SMO119G0064' => 'smo', 'SMO223G0038' => 'smo', 'SMO347G0584' => 'smo', 'SMO351G0010' => 'smo', 'SMO356G0404' => 'smo', 'Solyc01g103920.3' => 'sly', 'Solyc04g009710.2' => 'sly', 'Solyc05g055280.2' => 'sly', 'Solyc10g044520.3' => 'sly', 'Solyc10g075160.1' => 'sly', 'Solyc11g006910.3' => 'sly', 'Solyc11g068430.3' => 'sly', 'Sopen01g046310' => 'spe', 'Sopen03g001200' => 'spe', 'Sopen04g004830' => 'spe', 'Sopen05g033720' => 'spe', 'Sopen06g030740' => 'spe', 'Sopen10g013090' => 'spe', 'Sopen10g027630' => 'spe', 'Sopen10g027640' => 'spe', 'Sopen11g002820' => 'spe', 'Sopen11g027140' => 'spe', 'Sp1g09680' => 'spa', 'Sp2g03630' => 'spa', 'Sp4g10320' => 'spa', 'Sp6g33400' => 'spa', 'Sp7g13030' => 'spa', 'TAR365G0317' => 'tar', 'TAR376G0979' => 'tar', 'TAR623G1665' => 'tar', 'TAR633G2373' => 'tar', 'TAR636G1400' => 'tar', 'THA.LOC104800529' => 'tha', 'THA.LOC104808547' => 'tha', 'THA.LOC104809615' => 'tha', 'THA.LOC104815724' => 'tha', 'THA.LOC104818480' => 'tha', 'THA.LOC104819179' => 'tha', 'THA.LOC104822270' => 'tha', 'THA.LOC104826425' => 'tha', 'Thecc.02G089700' => 'tca', 'Thecc.04G232300' => 'tca', 'Thecc.09G283400' => 'tca', 'Thhalv10009020m.g' => 'esa', 'Thhalv10015506m.g' => 'esa', 'Thhalv10017364m.g' => 'esa', 'Thhalv10023742m.g' => 'esa', 'Thhalv10026483m.g' => 'esa', 'TPR.G17232' => 'tpr', 'TPR.G2133' => 'tpr', 'TPR.G2498' => 'tpr', 'TPR.G31942' => 'tpr', 'TPR.G37877' => 'tpr', 'TPR.G4571' => 'tpr', 'TWI14G1113' => 'twi', 'TWI15G0426' => 'twi', 'TWI31G1005' => 'twi', 'TWI38G0513' => 'twi', 'TWI38G1484' => 'twi', 'TWI73G1098' => 'twi', 'unitig_26.g10519' => 'ugi', 'unitig_736.g22395' => 'ugi', 'unitig_747.g21234' => 'ugi', 'unitig_747.g21942' => 'ugi', 'vmacro14351' => 'vma', 'VMungo0540G0082' => 'vmu', 'VMungo0540G0405' => 'vmu', 'VMungo0540G1486' => 'vmu', 'VMungo0540G1692' => 'vmu', 'VMungo0720G2473' => 'vmu', 'VMungo1127G1562' => 'vmu', 'VMungo1215G1918' => 'vmu', 'Zm00001eb052650' => 'zma', 'Zm00001eb063710' => 'zma', 'Zm00001eb083950' => 'zma', 'Zm00001eb174420' => 'zma', 'Zm00001eb260140' => 'zma', 'Zm00001eb260150' => 'zma', 'Zm00001eb260160' => 'zma', 'Zm00001eb348290' => 'zma', 'Zm00001eb366870' => 'zma', 'Zm00001eb421930' => 'zma' ), 'gf_id' => 'HOM05D001025', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001025' ), 'data_identifier' => 'HOM05D001025', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001025', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '592', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p22650' => 'bna', 'A01p29720' => 'bna', 'A03p26560' => 'bna', 'A03p68820' => 'bna', 'A04p20980' => 'bna', 'A06p07730' => 'bna', 'A07p18260' => 'bna', 'A08p33710' => 'bna', 'A09p16970' => 'bna', 'A10p27490' => 'bna', 'Aa31LG1G17300' => 'aar', 'Aa31LG1G3910' => 'aar', 'Aa31LG2G9630' => 'aar', 'Aa31LG5G8360' => 'aar', 'Aa31LG9G2410' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4699' => 'aag', 'Actinidia23512' => 'ach', 'Actinidia37080' => 'ach', 'Ah.01g020380' => 'amhyb', 'Ah.08g215710' => 'amhyb', 'Ah.09g225110' => 'amhyb', 'Ah.10g036680' => 'amhyb', 'AL1G21940' => 'aly', 'AL2G15540' => 'aly', 'AL4G21520' => 'aly', 'AL7G40960' => 'aly', 'Aqoxy2G01191' => 'aox', 'Aqoxy2G03393' => 'aox', 'Aqoxy4G02775' => 'aox', 'Aqoxy6G00058' => 'aox', 'arahy.Tifrunner.gnm1.ann1.9X74H2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CW3FX9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R485W7' => 'arhy', 'AT1G10960' => 'ath', 'AT1G60950' => 'ath', 'AT2G27510' => 'ath', 'AT4G14890' => 'ath', 'AT5G10000' => 'ath', 'ATR0665G624' => 'atr', 'ATR0697G138' => 'atr', 'ATR0776G046' => 'atr', 'ATR1134G135' => 'atr', 'Atru.chr12.1025' => 'acertr', 'Atru.chr3.3241' => 'acertr', 'Atru.chr4.2460' => 'acertr', 'AUR62007427' => 'cqu', 'AUR62010960' => 'cqu', 'AUR62012201' => 'cqu', 'AUR62021470' => 'cqu', 'AUR62022834' => 'cqu', 'AUR62033635' => 'cqu', 'AUR62036186' => 'cqu', 'BcaB01g03077' => 'bca', 'BcaB02g10093' => 'bca', 'BcaB04g20295' => 'bca', 'BcaB06g28147' => 'bca', 'BcaB07g31253' => 'bca', 'BcaC01g04946' => 'bca', 'BcaC02g10614' => 'bca', 'BcaC02g10885' => 'bca', 'BcaC04g19356' => 'bca', 'BcaC04g22297' => 'bca', 'BcaC05g24977' => 'bca', 'BcaC06g31823' => 'bca', 'BcaC07g38633' => 'bca', 'BcaC09g49353' => 'bca', 'BcaC09g50168' => 'bca', 'BcaNung00322' => 'bca', 'BcaNung04769' => 'bca', 'BolC1t02753H' => 'bol', 'BolC1t03721H' => 'bol', 'BolC3t15525H' => 'bol', 'BolC4t23903H' => 'bol', 'BolC4t24231H' => 'bol', 'BolC4t27209H' => 'bol', 'BolC5t29671H' => 'bol', 'BolC8t49044H' => 'bol', 'BolC9t54999H' => 'bol', 'BolC9t59517H' => 'bol', 'BraA01t02178Z' => 'bra', 'BraA01t03099Z' => 'bra', 'BraA03t11867Z' => 'bra', 'BraA04t17667Z' => 'bra', 'BraA07t29542Z' => 'bra', 'BraA08t35287Z' => 'bra', 'BraA09t37334Z' => 'bra', 'BraA10t44801Z' => 'bra', 'BraSC39t46181Z' => 'bra', 'C01p28240' => 'bna', 'C01p37530' => 'bna', 'C03p31820' => 'bna', 'C04p24080' => 'bna', 'C04p25790' => 'bna', 'C04p56770' => 'bna', 'C05p09310' => 'bna', 'C09p21010' => 'bna', 'C09p67560' => 'bna', 'CAN.G1324.7' => 'can', 'CAN.G1358.10' => 'can', 'CAN.G1550.2' => 'can', 'CAN.G186.56' => 'can', 'CAN.G1965.1' => 'can', 'CAN.G645.15' => 'can', 'CAN.G798.26' => 'can', 'CAN.G798.27' => 'can', 'CAN.G798.29' => 'can', 'CAN.G919.31' => 'can', 'CANSAT11G0133' => 'cansat', 'CANSAT11G1171' => 'cansat', 'CANSAT11G2056' => 'cansat', 'CANSAT56G1202' => 'cansat', 'CANSAT56G1514' => 'cansat', 'CANSAT78G0455' => 'cansat', 'CARHR011190' => 'chi', 'CARHR051980' => 'chi', 'CARHR120170' => 'chi', 'CARHR203310' => 'chi', 'CARHR221490' => 'chi', 'Carub.0001s1054' => 'cru', 'Carub.0002s0431' => 'cru', 'Carub.0004s0818' => 'cru', 'Carub.0006s0846' => 'cru', 'Carub.0007s2722' => 'cru', 'Ca_00058_v3' => 'car', 'Ca_17831_v3' => 'car', 'Ca_19408_v3' => 'car', 'Ca_24397_v3' => 'car', 'Ca_25664_v3' => 'car', 'CBR_g21818' => 'cbr', 'CBR_g31195' => 'cbr', 'CBR_g32282' => 'cbr', 'CBR_g39599' => 'cbr', 'CBR_g49410' => 'cbr', 'Cc01_g09120' => 'ccan', 'Cc01_g09130' => 'ccan', 'Cc02_g09630' => 'ccan', 'Cc02_g22810' => 'ccan', 'Cc03_g03810' => 'ccan', 'CDE02G3718' => 'cde', 'CDE04G3183' => 'cde', 'CDE07G1046' => 'cde', 'CDE08G0480' => 'cde', 'Cfa005493' => 'cfa', 'Cfa010312' => 'cfa', 'Cfa015648' => 'cfa', 'Ciclev10002793m.g' => 'ccl', 'Ciclev10003356m.g' => 'ccl', 'Ciclev10006141m.g' => 'ccl', 'Ciclev10016676m.g' => 'ccl', 'Ciclev10017081m.g' => 'ccl', 'Ciclev10029499m.g' => 'ccl', 'CiPaw.01G166300' => 'cil', 'CiPaw.06G145600' => 'cil', 'CiPaw.13G040100' => 'cil', 'CiPaw.13G135800' => 'cil', 'ClCG01G012230' => 'cla', 'ClCG05G009510' => 'cla', 'ClCG08G008270' => 'cla', 'COL.COLO4_11763' => 'col', 'COL.COLO4_19876' => 'col', 'COL.COLO4_21481' => 'col', 'Cpa.g.sc118.34' => 'cpa', 'Cpa.g.sc32.13' => 'cpa', 'Cpa.g.sc58.103' => 'cpa', 'Cre03.g183850' => 'cre', 'Cre06.g306350' => 'cre', 'Cre07.g334800' => 'cre', 'Cre12.g487900' => 'cre', 'Cre14.g626700' => 'cre', 'Cre16.g658400' => 'cre', 'Cre17.g700950' => 'cre', 'CsaV3_1G014830' => 'csa', 'CsaV3_3G013320' => 'csa', 'CsaV3_3G019210' => 'csa', 'CsaV3_3G019220' => 'csa', 'CsaV3_6G004230' => 'csa', 'CSS0003773' => 'camsi', 'CSS0004563' => 'camsi', 'CSS0013949' => 'camsi', 'CSS0025971' => 'camsi', 'CSS0028570' => 'camsi', 'CSS0033127' => 'camsi', 'CSS0036051' => 'camsi', 'CSS0040087' => 'camsi', 'CSS0043179' => 'camsi', 'DCAR_006161' => 'dca', 'DCAR_010351' => 'dca', 'DCAR_012197' => 'dca', 'DCAR_024162' => 'dca', 'Dinv01030' => 'din', 'Dinv10924' => 'din', 'Dinv11835' => 'din', 'Dinv22841' => 'din', 'Dinv42553' => 'din', 'Duzib052G0560' => 'dzi', 'Duzib132G0389' => 'dzi', 'Duzib150G1181' => 'dzi', 'Duzib168G0623' => 'dzi', 'Duzib170G1036' => 'dzi', 'Duzib212G0200' => 'dzi', 'Duzib248G0194' => 'dzi', 'ECA232G2193' => 'eca', 'ECA233G0302' => 'eca', 'ECA234G2813' => 'eca', 'ECA234G4866' => 'eca', 'ECA240G3932' => 'eca', 'ECA248G0385' => 'eca', 'EL10Ac2g04781' => 'bvu', 'EL10Ac3g06445' => 'bvu', 'EL10Ac7g15825' => 'bvu', 'EL10Ac8g18550' => 'bvu', 'Eucgr.B03849' => 'egr', 'Eucgr.I02744' => 'egr', 'Eucgr.J00264' => 'egr', 'Eucgr.J00493' => 'egr', 'FAN04G2181' => 'fan', 'FAN07G2666' => 'fan', 'FAN11G0024' => 'fan', 'FAN12G1105' => 'fan', 'FAN13G0302' => 'fan', 'FAN15G2781' => 'fan', 'FAN16G1274' => 'fan', 'FAN17G2988' => 'fan', 'FAN18G2621' => 'fan', 'FAN21G0013' => 'fan', 'FAN22G1211' => 'fan', 'FAN25G3626' => 'fan', 'FvH4_2g09491' => 'fve', 'FvH4_3g24910' => 'fve', 'FvH4_4g15630' => 'fve', 'FvH4_5g28820' => 'fve', 'Glyma.01G238000' => 'gma', 'Glyma.05G168400' => 'gma', 'Glyma.08G126800' => 'gma', 'Glyma.08G188500' => 'gma', 'Glyma.10G278900' => 'gma', 'Glyma.11G005700' => 'gma', 'Glyma.11G183300' => 'gma', 'Glyma.12G089200' => 'gma', 'Glyma.12G169400' => 'gma', 'Glyma.12G169500' => 'gma', 'Glyma.12G169600' => 'gma', 'Glyma.20G110800' => 'gma', 'Gohir.A03G192900' => 'ghi', 'Gohir.A03G193000' => 'ghi', 'Gohir.A05G080700' => 'ghi', 'Gohir.A09G216000' => 'ghi', 'Gohir.A12G027700' => 'ghi', 'Gohir.A13G036200' => 'ghi', 'Gohir.A13G222600' => 'ghi', 'Gohir.D02G213900' => 'ghi', 'Gohir.D02G214000' => 'ghi', 'Gohir.D05G083700' => 'ghi', 'Gohir.D05G083800' => 'ghi', 'Gohir.D05G083850' => 'ghi', 'Gohir.D08G015400' => 'ghi', 'Gohir.D09G218400' => 'ghi', 'Gohir.D12G027100' => 'ghi', 'Gohir.D13G034500' => 'ghi', 'Gohir.D13G227400' => 'ghi', 'Gorai.005G241800' => 'gra', 'Gorai.005G241900' => 'gra', 'Gorai.006G239400' => 'gra', 'Gorai.008G027600' => 'gra', 'Gorai.009G085400' => 'gra', 'Gorai.009G085500' => 'gra', 'Gorai.013G039000' => 'gra', 'Gorai.013G194800' => 'gra', 'Gorai.013G257900' => 'gra', 'GSVIVG01000982001' => 'vvi', 'GSVIVG01017981001' => 'vvi', 'HanXRQChr01g0024061' => 'han', 'HanXRQChr09g0247831' => 'han', 'HanXRQChr10g0294611' => 'han', 'HanXRQChr10g0294621' => 'han', 'HanXRQChr11g0346821' => 'han', 'HanXRQChr13g0397461' => 'han', 'HanXRQChr16g0513651' => 'han', 'HanXRQChr16g0513701' => 'han', 'Haze_00897' => 'cav', 'Haze_01745' => 'cav', 'Haze_02486' => 'cav', 'Haze_02487' => 'cav', 'Haze_23374' => 'cav', 'Hma1.2p1_0578F.1_g182520' => 'hma', 'Hma1.2p1_0602F.1_g187350' => 'hma', 'Hma1.2p1_0602F.1_g187360' => 'hma', 'Hma1.2p1_0874F.1_g231320' => 'hma', 'Hma1.2p1_1197F.1_g266210' => 'hma', 'Hma1.2p1_1197F.1_g266220' => 'hma', 'Hma1.2p1_2167F.1_g315895' => 'hma', 'Hma1.2p1_2190F.1_g316640' => 'hma', 'Hma1.2p1_3645F.1_g337153' => 'hma', 'HPP92_004907' => 'vpl', 'HPP92_012134' => 'vpl', 'HPP92_025136' => 'vpl', 'HPP92_026087' => 'vpl', 'Hund06782' => 'sun', 'Hund06784' => 'sun', 'Lalb_Chr01g0004861' => 'lal', 'Lalb_Chr02g0140591' => 'lal', 'Lalb_Chr02g0140611' => 'lal', 'Lalb_Chr03g0028101' => 'lal', 'Lalb_Chr07g0185791' => 'lal', 'Lalb_Chr12g0204491' => 'lal', 'Lalb_Chr13g0295671' => 'lal', 'Lalb_Chr19g0136461' => 'lal', 'Lalb_Chr21g0309191' => 'lal', 'Lj1g0028158' => 'lja', 'Lj1P236T38' => 'lonja', 'Lj2C32G2' => 'lonja', 'Lj2P944T8' => 'lonja', 'Lj2P963T15' => 'lonja', 'Lj3g0011788' => 'lja', 'Lj4g0025027' => 'lja', 'Lj5P255T36' => 'lonja', 'Lj6g0018866' => 'lja', 'Lj6P608T31' => 'lonja', 'LjContig00408g0008879' => 'lja', 'Lsat_1_v5_gn_5_105820' => 'lsa', 'Lsat_1_v5_gn_6_38800' => 'lsa', 'Lsat_1_v5_gn_7_67141' => 'lsa', 'Manes.04G003400' => 'mes', 'Manes.07G020000' => 'mes', 'Manes.07G020100' => 'mes', 'Manes.07G020150' => 'mes', 'Manes.10G061500' => 'mes', 'Manes.10G123200' => 'mes', 'Manes.11G161900' => 'mes', 'Manes.15G029300' => 'mes', 'Mapoly0071s0018' => 'mpo', 'Mapoly0082s0023' => 'mpo', 'Mapoly3477s0001' => 'mpo', 'MBI05_g31233_MAGBIO' => 'mbi', 'MBI09_g05946_MAGBIO' => 'mbi', 'MBI09_g05947_MAGBIO' => 'mbi', 'MBI17_g08346_MAGBIO' => 'mbi', 'MCO04G038' => 'mco', 'MCO09G370' => 'mco', 'MCO13G605' => 'mco', 'MD00G1075500' => 'mdo', 'MD03G1144300' => 'mdo', 'MD08G1236800' => 'mdo', 'MD13G1193300' => 'mdo', 'MD15G1428700' => 'mdo', 'Medtr1g112030' => 'mtr', 'Medtr1g112050' => 'mtr', 'Medtr2g006290' => 'mtr', 'Medtr2g086510' => 'mtr', 'Medtr4g053120' => 'mtr', 'Medtr5g006320' => 'mtr', 'Medtr8g088720' => 'mtr', 'MELO3C004712.2' => 'cme', 'MELO3C006533.2' => 'cme', 'MELO3C019438.2' => 'cme', 'MELO3C019440.2' => 'cme', 'MELO3C019441.2' => 'cme', 'MELO3C019895.2' => 'cme', 'Migut.B00811' => 'egut', 'Migut.D02447' => 'egut', 'Migut.F00875' => 'egut', 'Migut.N00186' => 'egut', 'Migut.N01051' => 'egut', 'Migut.N02491' => 'egut', 'Migut.O00784' => 'egut', 'MSTRG.12367' => 'ama', 'MSTRG.18756' => 'ama', 'MSTRG.21042' => 'ama', 'Nitab4.5_0000559g0040' => 'nta', 'Nitab4.5_0000667g0190' => 'nta', 'Nitab4.5_0000755g0160' => 'nta', 'Nitab4.5_0001216g0080' => 'nta', 'Nitab4.5_0004069g0040' => 'nta', 'Nitab4.5_0004129g0010' => 'nta', 'Nitab4.5_0005744g0030' => 'nta', 'Nitab4.5_0006996g0030' => 'nta', 'Nitab4.5_0008971g0040' => 'nta', 'Nitab4.5_0009769g0020' => 'nta', 'Nitab4.5_0009833g0010' => 'nta', 'Nitab4.5_0013140g0020' => 'nta', 'Nn003s41376' => 'nnu', 'Nn1g01857' => 'nnu', 'Nn1g03611' => 'nnu', 'Nn1g06853' => 'nnu', 'Nn3g18360' => 'nnu', 'Nn4g26328' => 'nnu', 'Nn5g27531' => 'nnu', 'Nn6g34899' => 'nnu', 'Nn7g36299' => 'nnu', 'Oeu021485.1' => 'oeu', 'Oeu022433.1' => 'oeu', 'Oeu032111.1' => 'oeu', 'Oeu051608.1' => 'oeu', 'Os01g0860601' => 'osa', 'Os03g0659200' => 'osa', 'Os03g0835900' => 'osa', 'Os04g0412200' => 'osa', 'Os05g0443500' => 'osa', 'Os07g0251500' => 'osa', 'Os08g0104600' => 'osa', 'Peaxi162Scf00003g00047' => 'pax', 'Peaxi162Scf00003g00052' => 'pax', 'Peaxi162Scf00003g00394' => 'pax', 'Peaxi162Scf00091g00621' => 'pax', 'Peaxi162Scf00152g00146' => 'pax', 'Peaxi162Scf00173g00025' => 'pax', 'Peaxi162Scf00195g00102' => 'pax', 'Peaxi162Scf00402g00013' => 'pax', 'Peaxi162Scf00519g00618' => 'pax', 'PGR004G2838' => 'pgr', 'PGR044G2275' => 'pgr', 'PGR102G1377' => 'pgr', 'PGR119G1245' => 'pgr', 'PGR142G4449' => 'pgr', 'PGSC0003DMG400004532' => 'stu', 'PGSC0003DMG400011950' => 'stu', 'PGSC0003DMG400023391' => 'stu', 'PGSC0003DMG400023985' => 'stu', 'PGSC0003DMG400026360' => 'stu', 'PGSC0003DMG400035711' => 'stu', 'PGSC0003DMG400037286' => 'stu', 'PGSC0003DMG402005881' => 'stu', 'Phvul.002G045400' => 'pvu', 'Phvul.006G216600' => 'pvu', 'Phvul.006G216700' => 'pvu', 'Phvul.006G216800' => 'pvu', 'Phvul.007G022500' => 'pvu', 'Phvul.011G094400' => 'pvu', 'Potri.001G470700' => 'ptr', 'Potri.003G015200' => 'ptr', 'Potri.004G202500' => 'ptr', 'Potri.004G218400' => 'ptr', 'Potri.008G020100' => 'ptr', 'Potri.008G153200' => 'ptr', 'Potri.009G163800' => 'ptr', 'Potri.010G087300' => 'ptr', 'Potri.010G239100' => 'ptr', 'Pp3c10_16100' => 'ppa', 'Pp3c10_16880' => 'ppa', 'Pp3c16_6230' => 'ppa', 'Pp3c17_18910' => 'ppa', 'Pp3c3_22119' => 'ppa', 'Pp3c3_22140' => 'ppa', 'Pp3c4_8159' => 'ppa', 'Pp3c4_8171' => 'ppa', 'Pp3c4_8330' => 'ppa', 'PRCOL_00004098' => 'pco', 'Prupe.1G013900' => 'ppe', 'Prupe.1G226300' => 'ppe', 'Prupe.1G573600' => 'ppe', 'Prupe.6G130100' => 'ppe', 'Psat3g090040' => 'psa', 'Psat4g210440' => 'psa', 'Psat6g231040' => 'psa', 'Psat6g231080' => 'psa', 'Psat7g063000' => 'psa', 'Psat7g188000' => 'psa', 'Psat7g188040' => 'psa', 'PSO017G0206' => 'pso', 'PSO170G0501' => 'pso', 'PSO170G6422' => 'pso', 'PSO210G7739' => 'pso', 'PSO339G1808' => 'pso', 'PSO339G6135' => 'pso', 'PSO384G0010' => 'pso', 'PSO384G0964' => 'pso', 'PSO761G0050' => 'pso', 'PSO782G4085' => 'pso', 'QL01p012264' => 'qlo', 'QL02p099491' => 'qlo', 'QL03p033868' => 'qlo', 'QL04p046678' => 'qlo', 'QL06p002448' => 'qlo', 'RcHm_v2.0_Chr4g0416181' => 'rch', 'RcHm_v2.0_Chr5g0044701' => 'rch', 'RcHm_v2.0_Chr6g0265781' => 'rch', 'RcHm_v2.0_Chr7g0221031' => 'rch', 'Rhsim04G0202000' => 'rsi', 'Rhsim11G0127300' => 'rsi', 'Rhsim13G0111800' => 'rsi', 'Sabra01G0165600' => 'sbr', 'Sabra03G0008300' => 'sbr', 'Sabra04G0136900' => 'sbr', 'Sabra08G0013400' => 'sbr', 'Sabra08G0116800' => 'sbr', 'Sabra09G0128000' => 'sbr', 'Sabra10G0055500' => 'sbr', 'Sabra10G0073300' => 'sbr', 'SalBow3G0385' => 'sbo', 'SalBow3G1119' => 'sbo', 'SalBow3G2005' => 'sbo', 'SalBow6G2563' => 'sbo', 'SalBow6G6386' => 'sbo', 'Sc06g0008800' => 'sci', 'Sc07g0004950' => 'sci', 'Sc09g0005340' => 'sci', 'Sc13g0004410' => 'sci', 'Sc21g0007090' => 'sci', 'Sed0009285' => 'sed', 'Sed0017583' => 'sed', 'Sed0019699' => 'sed', 'Sed0023107' => 'sed', 'SEGI_10916' => 'sgi', 'SEGI_16217' => 'sgi', 'SEGI_19466' => 'sgi', 'SEGI_41115' => 'sgi', 'SGA_v2.0_scaffold111G31534' => 'sas', 'SGA_v2.0_scaffold22G09864' => 'sas', 'SGA_v2.0_scaffold338G49219' => 'sas', 'SGA_v2.0_scaffold92G28298' => 'sas', 'SMO119G0064' => 'smo', 'SMO223G0038' => 'smo', 'SMO347G0584' => 'smo', 'SMO351G0010' => 'smo', 'SMO356G0404' => 'smo', 'Solyc01g103920.3' => 'sly', 'Solyc04g009710.2' => 'sly', 'Solyc05g055280.2' => 'sly', 'Solyc10g044520.3' => 'sly', 'Solyc10g075160.1' => 'sly', 'Solyc11g006910.3' => 'sly', 'Solyc11g068430.3' => 'sly', 'Sopen01g046310' => 'spe', 'Sopen03g001200' => 'spe', 'Sopen04g004830' => 'spe', 'Sopen05g033720' => 'spe', 'Sopen06g030740' => 'spe', 'Sopen10g013090' => 'spe', 'Sopen10g027630' => 'spe', 'Sopen10g027640' => 'spe', 'Sopen11g002820' => 'spe', 'Sopen11g027140' => 'spe', 'Sp1g09680' => 'spa', 'Sp2g03630' => 'spa', 'Sp4g10320' => 'spa', 'Sp6g33400' => 'spa', 'Sp7g13030' => 'spa', 'TAR365G0317' => 'tar', 'TAR376G0979' => 'tar', 'TAR623G1665' => 'tar', 'TAR633G2373' => 'tar', 'TAR636G1400' => 'tar', 'THA.LOC104800529' => 'tha', 'THA.LOC104808547' => 'tha', 'THA.LOC104809615' => 'tha', 'THA.LOC104815724' => 'tha', 'THA.LOC104818480' => 'tha', 'THA.LOC104819179' => 'tha', 'THA.LOC104822270' => 'tha', 'THA.LOC104826425' => 'tha', 'Thecc.02G089700' => 'tca', 'Thecc.04G232300' => 'tca', 'Thecc.09G283400' => 'tca', 'Thhalv10009020m.g' => 'esa', 'Thhalv10015506m.g' => 'esa', 'Thhalv10017364m.g' => 'esa', 'Thhalv10023742m.g' => 'esa', 'Thhalv10026483m.g' => 'esa', 'TPR.G17232' => 'tpr', 'TPR.G2133' => 'tpr', 'TPR.G2498' => 'tpr', 'TPR.G31942' => 'tpr', 'TPR.G37877' => 'tpr', 'TPR.G4571' => 'tpr', 'TWI14G1113' => 'twi', 'TWI15G0426' => 'twi', 'TWI31G1005' => 'twi', 'TWI38G0513' => 'twi', 'TWI38G1484' => 'twi', 'TWI73G1098' => 'twi', 'unitig_26.g10519' => 'ugi', 'unitig_736.g22395' => 'ugi', 'unitig_747.g21234' => 'ugi', 'unitig_747.g21942' => 'ugi', 'vmacro14351' => 'vma', 'VMungo0540G0082' => 'vmu', 'VMungo0540G0405' => 'vmu', 'VMungo0540G1486' => 'vmu', 'VMungo0540G1692' => 'vmu', 'VMungo0720G2473' => 'vmu', 'VMungo1127G1562' => 'vmu', 'VMungo1215G1918' => 'vmu', 'Zm00001eb052650' => 'zma', 'Zm00001eb063710' => 'zma', 'Zm00001eb083950' => 'zma', 'Zm00001eb174420' => 'zma', 'Zm00001eb260140' => 'zma', 'Zm00001eb260150' => 'zma', 'Zm00001eb260160' => 'zma', 'Zm00001eb348290' => 'zma', 'Zm00001eb366870' => 'zma', 'Zm00001eb421930' => 'zma' ) $gf_id = 'HOM05D001025' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001025' ) $data_identifier = 'HOM05D001025' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 19, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 2, 'amhyb' => (int) 4, 'aly' => (int) 4, 'aox' => (int) 4, 'arhy' => (int) 3, 'ath' => (int) 5, 'atr' => (int) 4, 'acertr' => (int) 3, 'cqu' => (int) 7, 'bca' => (int) 17, 'bol' => (int) 10, 'bra' => (int) 9, 'can' => (int) 10, 'cansat' => (int) 6, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 5, 'cbr' => (int) 5, 'ccan' => (int) 5, 'cde' => (int) 4, 'cfa' => (int) 3, 'ccl' => (int) 6, 'cil' => (int) 4, 'cla' => (int) 3, 'col' => (int) 3, 'cpa' => (int) 3, 'cre' => (int) 7, 'csa' => (int) 5, 'camsi' => (int) 9, 'dca' => (int) 4, 'din' => (int) 5, 'dzi' => (int) 7, 'eca' => (int) 6, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 12, 'fve' => (int) 4, 'gma' => (int) 12, 'ghi' => (int) 17, 'gra' => (int) 9, 'vvi' => (int) 2, 'han' => (int) 8, 'cav' => (int) 5, 'hma' => (int) 9, 'vpl' => (int) 4, 'sun' => (int) 2, 'lal' => (int) 9, 'lja' => (int) 5, 'lonja' => (int) 6, 'lsa' => (int) 3, 'mes' => (int) 8, 'mpo' => (int) 3, 'mbi' => (int) 4, 'mco' => (int) 3, 'mdo' => (int) 5, 'mtr' => (int) 7, 'cme' => (int) 6, 'egut' => (int) 7, 'ama' => (int) 3, 'nta' => (int) 12, 'nnu' => (int) 9, 'oeu' => (int) 4, 'osa' => (int) 7, 'pax' => (int) 9, 'pgr' => (int) 5, 'stu' => (int) 8, 'pvu' => (int) 6, 'ptr' => (int) 9, 'ppa' => (int) 9, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 7, 'pso' => (int) 10, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 3, 'sbr' => (int) 8, 'sbo' => (int) 5, 'sci' => (int) 5, 'sed' => (int) 4, 'sgi' => (int) 4, 'sas' => (int) 4, 'smo' => (int) 5, 'sly' => (int) 7, 'spe' => (int) 10, 'spa' => (int) 5, 'tar' => (int) 5, 'tha' => (int) 8, 'tca' => (int) 3, 'esa' => (int) 5, 'tpr' => (int) 6, 'twi' => (int) 6, 'ugi' => (int) 4, 'vma' => (int) 1, 'vmu' => (int) 7, 'zma' => (int) 10 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb421930' $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' => 'HOM05D001025', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '592', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p22650' => 'bna', 'A01p29720' => 'bna', 'A03p26560' => 'bna', 'A03p68820' => 'bna', 'A04p20980' => 'bna', 'A06p07730' => 'bna', 'A07p18260' => 'bna', 'A08p33710' => 'bna', 'A09p16970' => 'bna', 'A10p27490' => 'bna', 'Aa31LG1G17300' => 'aar', 'Aa31LG1G3910' => 'aar', 'Aa31LG2G9630' => 'aar', 'Aa31LG5G8360' => 'aar', 'Aa31LG9G2410' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4699' => 'aag', 'Actinidia23512' => 'ach', 'Actinidia37080' => 'ach', 'Ah.01g020380' => 'amhyb', 'Ah.08g215710' => 'amhyb', 'Ah.09g225110' => 'amhyb', 'Ah.10g036680' => 'amhyb', 'AL1G21940' => 'aly', 'AL2G15540' => 'aly', 'AL4G21520' => 'aly', 'AL7G40960' => 'aly', 'Aqoxy2G01191' => 'aox', 'Aqoxy2G03393' => 'aox', 'Aqoxy4G02775' => 'aox', 'Aqoxy6G00058' => 'aox', 'arahy.Tifrunner.gnm1.ann1.9X74H2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CW3FX9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R485W7' => 'arhy', 'AT1G10960' => 'ath', 'AT1G60950' => 'ath', 'AT2G27510' => 'ath', 'AT4G14890' => 'ath', 'AT5G10000' => 'ath', 'ATR0665G624' => 'atr', 'ATR0697G138' => 'atr', 'ATR0776G046' => 'atr', 'ATR1134G135' => 'atr', 'Atru.chr12.1025' => 'acertr', 'Atru.chr3.3241' => 'acertr', 'Atru.chr4.2460' => 'acertr', 'AUR62007427' => 'cqu', 'AUR62010960' => 'cqu', 'AUR62012201' => 'cqu', 'AUR62021470' => 'cqu', 'AUR62022834' => 'cqu', 'AUR62033635' => 'cqu', 'AUR62036186' => 'cqu', 'BcaB01g03077' => 'bca', 'BcaB02g10093' => 'bca', 'BcaB04g20295' => 'bca', 'BcaB06g28147' => 'bca', 'BcaB07g31253' => 'bca', 'BcaC01g04946' => 'bca', 'BcaC02g10614' => 'bca', 'BcaC02g10885' => 'bca', 'BcaC04g19356' => 'bca', 'BcaC04g22297' => 'bca', 'BcaC05g24977' => 'bca', 'BcaC06g31823' => 'bca', 'BcaC07g38633' => 'bca', 'BcaC09g49353' => 'bca', 'BcaC09g50168' => 'bca', 'BcaNung00322' => 'bca', 'BcaNung04769' => 'bca', 'BolC1t02753H' => 'bol', 'BolC1t03721H' => 'bol', 'BolC3t15525H' => 'bol', 'BolC4t23903H' => 'bol', 'BolC4t24231H' => 'bol', 'BolC4t27209H' => 'bol', 'BolC5t29671H' => 'bol', 'BolC8t49044H' => 'bol', 'BolC9t54999H' => 'bol', 'BolC9t59517H' => 'bol', 'BraA01t02178Z' => 'bra', 'BraA01t03099Z' => 'bra', 'BraA03t11867Z' => 'bra', 'BraA04t17667Z' => 'bra', 'BraA07t29542Z' => 'bra', 'BraA08t35287Z' => 'bra', 'BraA09t37334Z' => 'bra', 'BraA10t44801Z' => 'bra', 'BraSC39t46181Z' => 'bra', 'C01p28240' => 'bna', 'C01p37530' => 'bna', 'C03p31820' => 'bna', 'C04p24080' => 'bna', 'C04p25790' => 'bna', 'C04p56770' => 'bna', 'C05p09310' => 'bna', 'C09p21010' => 'bna', 'C09p67560' => 'bna', 'CAN.G1324.7' => 'can', 'CAN.G1358.10' => 'can', 'CAN.G1550.2' => 'can', 'CAN.G186.56' => 'can', 'CAN.G1965.1' => 'can', 'CAN.G645.15' => 'can', 'CAN.G798.26' => 'can', 'CAN.G798.27' => 'can', 'CAN.G798.29' => 'can', 'CAN.G919.31' => 'can', 'CANSAT11G0133' => 'cansat', 'CANSAT11G1171' => 'cansat', 'CANSAT11G2056' => 'cansat', 'CANSAT56G1202' => 'cansat', 'CANSAT56G1514' => 'cansat', 'CANSAT78G0455' => 'cansat', 'CARHR011190' => 'chi', 'CARHR051980' => 'chi', 'CARHR120170' => 'chi', 'CARHR203310' => 'chi', 'CARHR221490' => 'chi', 'Carub.0001s1054' => 'cru', 'Carub.0002s0431' => 'cru', 'Carub.0004s0818' => 'cru', 'Carub.0006s0846' => 'cru', 'Carub.0007s2722' => 'cru', 'Ca_00058_v3' => 'car', 'Ca_17831_v3' => 'car', 'Ca_19408_v3' => 'car', 'Ca_24397_v3' => 'car', 'Ca_25664_v3' => 'car', 'CBR_g21818' => 'cbr', 'CBR_g31195' => 'cbr', 'CBR_g32282' => 'cbr', 'CBR_g39599' => 'cbr', 'CBR_g49410' => 'cbr', 'Cc01_g09120' => 'ccan', 'Cc01_g09130' => 'ccan', 'Cc02_g09630' => 'ccan', 'Cc02_g22810' => 'ccan', 'Cc03_g03810' => 'ccan', 'CDE02G3718' => 'cde', 'CDE04G3183' => 'cde', 'CDE07G1046' => 'cde', 'CDE08G0480' => 'cde', 'Cfa005493' => 'cfa', 'Cfa010312' => 'cfa', 'Cfa015648' => 'cfa', 'Ciclev10002793m.g' => 'ccl', 'Ciclev10003356m.g' => 'ccl', 'Ciclev10006141m.g' => 'ccl', 'Ciclev10016676m.g' => 'ccl', 'Ciclev10017081m.g' => 'ccl', 'Ciclev10029499m.g' => 'ccl', 'CiPaw.01G166300' => 'cil', 'CiPaw.06G145600' => 'cil', 'CiPaw.13G040100' => 'cil', 'CiPaw.13G135800' => 'cil', 'ClCG01G012230' => 'cla', 'ClCG05G009510' => 'cla', 'ClCG08G008270' => 'cla', 'COL.COLO4_11763' => 'col', 'COL.COLO4_19876' => 'col', 'COL.COLO4_21481' => 'col', 'Cpa.g.sc118.34' => 'cpa', 'Cpa.g.sc32.13' => 'cpa', 'Cpa.g.sc58.103' => 'cpa', 'Cre03.g183850' => 'cre', 'Cre06.g306350' => 'cre', 'Cre07.g334800' => 'cre', 'Cre12.g487900' => 'cre', 'Cre14.g626700' => 'cre', 'Cre16.g658400' => 'cre', 'Cre17.g700950' => 'cre', 'CsaV3_1G014830' => 'csa', 'CsaV3_3G013320' => 'csa', 'CsaV3_3G019210' => 'csa', 'CsaV3_3G019220' => 'csa', 'CsaV3_6G004230' => 'csa', 'CSS0003773' => 'camsi', 'CSS0004563' => 'camsi', 'CSS0013949' => 'camsi', 'CSS0025971' => 'camsi', 'CSS0028570' => 'camsi', 'CSS0033127' => 'camsi', 'CSS0036051' => 'camsi', 'CSS0040087' => 'camsi', 'CSS0043179' => 'camsi', 'DCAR_006161' => 'dca', 'DCAR_010351' => 'dca', 'DCAR_012197' => 'dca', 'DCAR_024162' => 'dca', 'Dinv01030' => 'din', 'Dinv10924' => 'din', 'Dinv11835' => 'din', 'Dinv22841' => 'din', 'Dinv42553' => 'din', 'Duzib052G0560' => 'dzi', 'Duzib132G0389' => 'dzi', 'Duzib150G1181' => 'dzi', 'Duzib168G0623' => 'dzi', 'Duzib170G1036' => 'dzi', 'Duzib212G0200' => 'dzi', 'Duzib248G0194' => 'dzi', 'ECA232G2193' => 'eca', 'ECA233G0302' => 'eca', 'ECA234G2813' => 'eca', 'ECA234G4866' => 'eca', 'ECA240G3932' => 'eca', 'ECA248G0385' => 'eca', 'EL10Ac2g04781' => 'bvu', 'EL10Ac3g06445' => 'bvu', 'EL10Ac7g15825' => 'bvu', 'EL10Ac8g18550' => 'bvu', 'Eucgr.B03849' => 'egr', 'Eucgr.I02744' => 'egr', 'Eucgr.J00264' => 'egr', 'Eucgr.J00493' => 'egr', 'FAN04G2181' => 'fan', 'FAN07G2666' => 'fan', 'FAN11G0024' => 'fan', 'FAN12G1105' => 'fan', 'FAN13G0302' => 'fan', 'FAN15G2781' => 'fan', 'FAN16G1274' => 'fan', 'FAN17G2988' => 'fan', 'FAN18G2621' => 'fan', 'FAN21G0013' => 'fan', 'FAN22G1211' => 'fan', 'FAN25G3626' => 'fan', 'FvH4_2g09491' => 'fve', 'FvH4_3g24910' => 'fve', 'FvH4_4g15630' => 'fve', 'FvH4_5g28820' => 'fve', 'Glyma.01G238000' => 'gma', 'Glyma.05G168400' => 'gma', 'Glyma.08G126800' => 'gma', 'Glyma.08G188500' => 'gma', 'Glyma.10G278900' => 'gma', 'Glyma.11G005700' => 'gma', 'Glyma.11G183300' => 'gma', 'Glyma.12G089200' => 'gma', 'Glyma.12G169400' => 'gma', 'Glyma.12G169500' => 'gma', 'Glyma.12G169600' => 'gma', 'Glyma.20G110800' => 'gma', 'Gohir.A03G192900' => 'ghi', 'Gohir.A03G193000' => 'ghi', 'Gohir.A05G080700' => 'ghi', 'Gohir.A09G216000' => 'ghi', 'Gohir.A12G027700' => 'ghi', 'Gohir.A13G036200' => 'ghi', 'Gohir.A13G222600' => 'ghi', 'Gohir.D02G213900' => 'ghi', 'Gohir.D02G214000' => 'ghi', 'Gohir.D05G083700' => 'ghi', 'Gohir.D05G083800' => 'ghi', 'Gohir.D05G083850' => 'ghi', 'Gohir.D08G015400' => 'ghi', 'Gohir.D09G218400' => 'ghi', 'Gohir.D12G027100' => 'ghi', 'Gohir.D13G034500' => 'ghi', 'Gohir.D13G227400' => 'ghi', 'Gorai.005G241800' => 'gra', 'Gorai.005G241900' => 'gra', 'Gorai.006G239400' => 'gra', 'Gorai.008G027600' => 'gra', 'Gorai.009G085400' => 'gra', 'Gorai.009G085500' => 'gra', 'Gorai.013G039000' => 'gra', 'Gorai.013G194800' => 'gra', 'Gorai.013G257900' => 'gra', 'GSVIVG01000982001' => 'vvi', 'GSVIVG01017981001' => 'vvi', 'HanXRQChr01g0024061' => 'han', 'HanXRQChr09g0247831' => 'han', 'HanXRQChr10g0294611' => 'han', 'HanXRQChr10g0294621' => 'han', 'HanXRQChr11g0346821' => 'han', 'HanXRQChr13g0397461' => 'han', 'HanXRQChr16g0513651' => 'han', 'HanXRQChr16g0513701' => 'han', 'Haze_00897' => 'cav', 'Haze_01745' => 'cav', 'Haze_02486' => 'cav', 'Haze_02487' => 'cav', 'Haze_23374' => 'cav', 'Hma1.2p1_0578F.1_g182520' => 'hma', 'Hma1.2p1_0602F.1_g187350' => 'hma', 'Hma1.2p1_0602F.1_g187360' => 'hma', 'Hma1.2p1_0874F.1_g231320' => 'hma', 'Hma1.2p1_1197F.1_g266210' => 'hma', 'Hma1.2p1_1197F.1_g266220' => 'hma', 'Hma1.2p1_2167F.1_g315895' => 'hma', 'Hma1.2p1_2190F.1_g316640' => 'hma', 'Hma1.2p1_3645F.1_g337153' => 'hma', 'HPP92_004907' => 'vpl', 'HPP92_012134' => 'vpl', 'HPP92_025136' => 'vpl', 'HPP92_026087' => 'vpl', 'Hund06782' => 'sun', 'Hund06784' => 'sun', 'Lalb_Chr01g0004861' => 'lal', 'Lalb_Chr02g0140591' => 'lal', 'Lalb_Chr02g0140611' => 'lal', 'Lalb_Chr03g0028101' => 'lal', 'Lalb_Chr07g0185791' => 'lal', 'Lalb_Chr12g0204491' => 'lal', 'Lalb_Chr13g0295671' => 'lal', 'Lalb_Chr19g0136461' => 'lal', 'Lalb_Chr21g0309191' => 'lal', 'Lj1g0028158' => 'lja', 'Lj1P236T38' => 'lonja', 'Lj2C32G2' => 'lonja', 'Lj2P944T8' => 'lonja', 'Lj2P963T15' => 'lonja', 'Lj3g0011788' => 'lja', 'Lj4g0025027' => 'lja', 'Lj5P255T36' => 'lonja', 'Lj6g0018866' => 'lja', 'Lj6P608T31' => 'lonja', 'LjContig00408g0008879' => 'lja', 'Lsat_1_v5_gn_5_105820' => 'lsa', 'Lsat_1_v5_gn_6_38800' => 'lsa', 'Lsat_1_v5_gn_7_67141' => 'lsa', 'Manes.04G003400' => 'mes', 'Manes.07G020000' => 'mes', 'Manes.07G020100' => 'mes', 'Manes.07G020150' => 'mes', 'Manes.10G061500' => 'mes', 'Manes.10G123200' => 'mes', 'Manes.11G161900' => 'mes', 'Manes.15G029300' => 'mes', 'Mapoly0071s0018' => 'mpo', 'Mapoly0082s0023' => 'mpo', 'Mapoly3477s0001' => 'mpo', 'MBI05_g31233_MAGBIO' => 'mbi', 'MBI09_g05946_MAGBIO' => 'mbi', 'MBI09_g05947_MAGBIO' => 'mbi', 'MBI17_g08346_MAGBIO' => 'mbi', 'MCO04G038' => 'mco', 'MCO09G370' => 'mco', 'MCO13G605' => 'mco', 'MD00G1075500' => 'mdo', 'MD03G1144300' => 'mdo', 'MD08G1236800' => 'mdo', 'MD13G1193300' => 'mdo', 'MD15G1428700' => 'mdo', 'Medtr1g112030' => 'mtr', 'Medtr1g112050' => 'mtr', 'Medtr2g006290' => 'mtr', 'Medtr2g086510' => 'mtr', 'Medtr4g053120' => 'mtr', 'Medtr5g006320' => 'mtr', 'Medtr8g088720' => 'mtr', 'MELO3C004712.2' => 'cme', 'MELO3C006533.2' => 'cme', 'MELO3C019438.2' => 'cme', 'MELO3C019440.2' => 'cme', 'MELO3C019441.2' => 'cme', 'MELO3C019895.2' => 'cme', 'Migut.B00811' => 'egut', 'Migut.D02447' => 'egut', 'Migut.F00875' => 'egut', 'Migut.N00186' => 'egut', 'Migut.N01051' => 'egut', 'Migut.N02491' => 'egut', 'Migut.O00784' => 'egut', 'MSTRG.12367' => 'ama', 'MSTRG.18756' => 'ama', 'MSTRG.21042' => 'ama', 'Nitab4.5_0000559g0040' => 'nta', 'Nitab4.5_0000667g0190' => 'nta', 'Nitab4.5_0000755g0160' => 'nta', 'Nitab4.5_0001216g0080' => 'nta', 'Nitab4.5_0004069g0040' => 'nta', 'Nitab4.5_0004129g0010' => 'nta', 'Nitab4.5_0005744g0030' => 'nta', 'Nitab4.5_0006996g0030' => 'nta', 'Nitab4.5_0008971g0040' => 'nta', 'Nitab4.5_0009769g0020' => 'nta', 'Nitab4.5_0009833g0010' => 'nta', 'Nitab4.5_0013140g0020' => 'nta', 'Nn003s41376' => 'nnu', 'Nn1g01857' => 'nnu', 'Nn1g03611' => 'nnu', 'Nn1g06853' => 'nnu', 'Nn3g18360' => 'nnu', 'Nn4g26328' => 'nnu', 'Nn5g27531' => 'nnu', 'Nn6g34899' => 'nnu', 'Nn7g36299' => 'nnu', 'Oeu021485.1' => 'oeu', 'Oeu022433.1' => 'oeu', 'Oeu032111.1' => 'oeu', 'Oeu051608.1' => 'oeu', 'Os01g0860601' => 'osa', 'Os03g0659200' => 'osa', 'Os03g0835900' => 'osa', 'Os04g0412200' => 'osa', 'Os05g0443500' => 'osa', 'Os07g0251500' => 'osa', 'Os08g0104600' => 'osa', 'Peaxi162Scf00003g00047' => 'pax', 'Peaxi162Scf00003g00052' => 'pax', 'Peaxi162Scf00003g00394' => 'pax', 'Peaxi162Scf00091g00621' => 'pax', 'Peaxi162Scf00152g00146' => 'pax', 'Peaxi162Scf00173g00025' => 'pax', 'Peaxi162Scf00195g00102' => 'pax', 'Peaxi162Scf00402g00013' => 'pax', 'Peaxi162Scf00519g00618' => 'pax', 'PGR004G2838' => 'pgr', 'PGR044G2275' => 'pgr', 'PGR102G1377' => 'pgr', 'PGR119G1245' => 'pgr', 'PGR142G4449' => 'pgr', 'PGSC0003DMG400004532' => 'stu', 'PGSC0003DMG400011950' => 'stu', 'PGSC0003DMG400023391' => 'stu', 'PGSC0003DMG400023985' => 'stu', 'PGSC0003DMG400026360' => 'stu', 'PGSC0003DMG400035711' => 'stu', 'PGSC0003DMG400037286' => 'stu', 'PGSC0003DMG402005881' => 'stu', 'Phvul.002G045400' => 'pvu', 'Phvul.006G216600' => 'pvu', 'Phvul.006G216700' => 'pvu', 'Phvul.006G216800' => 'pvu', 'Phvul.007G022500' => 'pvu', 'Phvul.011G094400' => 'pvu', 'Potri.001G470700' => 'ptr', 'Potri.003G015200' => 'ptr', 'Potri.004G202500' => 'ptr', 'Potri.004G218400' => 'ptr', 'Potri.008G020100' => 'ptr', 'Potri.008G153200' => 'ptr', 'Potri.009G163800' => 'ptr', 'Potri.010G087300' => 'ptr', 'Potri.010G239100' => 'ptr', 'Pp3c10_16100' => 'ppa', 'Pp3c10_16880' => 'ppa', 'Pp3c16_6230' => 'ppa', 'Pp3c17_18910' => 'ppa', 'Pp3c3_22119' => 'ppa', 'Pp3c3_22140' => 'ppa', 'Pp3c4_8159' => 'ppa', 'Pp3c4_8171' => 'ppa', 'Pp3c4_8330' => 'ppa', 'PRCOL_00004098' => 'pco', 'Prupe.1G013900' => 'ppe', 'Prupe.1G226300' => 'ppe', 'Prupe.1G573600' => 'ppe', 'Prupe.6G130100' => 'ppe', 'Psat3g090040' => 'psa', 'Psat4g210440' => 'psa', 'Psat6g231040' => 'psa', 'Psat6g231080' => 'psa', 'Psat7g063000' => 'psa', 'Psat7g188000' => 'psa', 'Psat7g188040' => 'psa', 'PSO017G0206' => 'pso', 'PSO170G0501' => 'pso', 'PSO170G6422' => 'pso', 'PSO210G7739' => 'pso', 'PSO339G1808' => 'pso', 'PSO339G6135' => 'pso', 'PSO384G0010' => 'pso', 'PSO384G0964' => 'pso', 'PSO761G0050' => 'pso', 'PSO782G4085' => 'pso', 'QL01p012264' => 'qlo', 'QL02p099491' => 'qlo', 'QL03p033868' => 'qlo', 'QL04p046678' => 'qlo', 'QL06p002448' => 'qlo', 'RcHm_v2.0_Chr4g0416181' => 'rch', 'RcHm_v2.0_Chr5g0044701' => 'rch', 'RcHm_v2.0_Chr6g0265781' => 'rch', 'RcHm_v2.0_Chr7g0221031' => 'rch', 'Rhsim04G0202000' => 'rsi', 'Rhsim11G0127300' => 'rsi', 'Rhsim13G0111800' => 'rsi', 'Sabra01G0165600' => 'sbr', 'Sabra03G0008300' => 'sbr', 'Sabra04G0136900' => 'sbr', 'Sabra08G0013400' => 'sbr', 'Sabra08G0116800' => 'sbr', 'Sabra09G0128000' => 'sbr', 'Sabra10G0055500' => 'sbr', 'Sabra10G0073300' => 'sbr', 'SalBow3G0385' => 'sbo', 'SalBow3G1119' => 'sbo', 'SalBow3G2005' => 'sbo', 'SalBow6G2563' => 'sbo', 'SalBow6G6386' => 'sbo', 'Sc06g0008800' => 'sci', 'Sc07g0004950' => 'sci', 'Sc09g0005340' => 'sci', 'Sc13g0004410' => 'sci', 'Sc21g0007090' => 'sci', 'Sed0009285' => 'sed', 'Sed0017583' => 'sed', 'Sed0019699' => 'sed', 'Sed0023107' => 'sed', 'SEGI_10916' => 'sgi', 'SEGI_16217' => 'sgi', 'SEGI_19466' => 'sgi', 'SEGI_41115' => 'sgi', 'SGA_v2.0_scaffold111G31534' => 'sas', 'SGA_v2.0_scaffold22G09864' => 'sas', 'SGA_v2.0_scaffold338G49219' => 'sas', 'SGA_v2.0_scaffold92G28298' => 'sas', 'SMO119G0064' => 'smo', 'SMO223G0038' => 'smo', 'SMO347G0584' => 'smo', 'SMO351G0010' => 'smo', 'SMO356G0404' => 'smo', 'Solyc01g103920.3' => 'sly', 'Solyc04g009710.2' => 'sly', 'Solyc05g055280.2' => 'sly', 'Solyc10g044520.3' => 'sly', 'Solyc10g075160.1' => 'sly', 'Solyc11g006910.3' => 'sly', 'Solyc11g068430.3' => 'sly', 'Sopen01g046310' => 'spe', 'Sopen03g001200' => 'spe', 'Sopen04g004830' => 'spe', 'Sopen05g033720' => 'spe', 'Sopen06g030740' => 'spe', 'Sopen10g013090' => 'spe', 'Sopen10g027630' => 'spe', 'Sopen10g027640' => 'spe', 'Sopen11g002820' => 'spe', 'Sopen11g027140' => 'spe', 'Sp1g09680' => 'spa', 'Sp2g03630' => 'spa', 'Sp4g10320' => 'spa', 'Sp6g33400' => 'spa', 'Sp7g13030' => 'spa', 'TAR365G0317' => 'tar', 'TAR376G0979' => 'tar', 'TAR623G1665' => 'tar', 'TAR633G2373' => 'tar', 'TAR636G1400' => 'tar', 'THA.LOC104800529' => 'tha', 'THA.LOC104808547' => 'tha', 'THA.LOC104809615' => 'tha', 'THA.LOC104815724' => 'tha', 'THA.LOC104818480' => 'tha', 'THA.LOC104819179' => 'tha', 'THA.LOC104822270' => 'tha', 'THA.LOC104826425' => 'tha', 'Thecc.02G089700' => 'tca', 'Thecc.04G232300' => 'tca', 'Thecc.09G283400' => 'tca', 'Thhalv10009020m.g' => 'esa', 'Thhalv10015506m.g' => 'esa', 'Thhalv10017364m.g' => 'esa', 'Thhalv10023742m.g' => 'esa', 'Thhalv10026483m.g' => 'esa', 'TPR.G17232' => 'tpr', 'TPR.G2133' => 'tpr', 'TPR.G2498' => 'tpr', 'TPR.G31942' => 'tpr', 'TPR.G37877' => 'tpr', 'TPR.G4571' => 'tpr', 'TWI14G1113' => 'twi', 'TWI15G0426' => 'twi', 'TWI31G1005' => 'twi', 'TWI38G0513' => 'twi', 'TWI38G1484' => 'twi', 'TWI73G1098' => 'twi', 'unitig_26.g10519' => 'ugi', 'unitig_736.g22395' => 'ugi', 'unitig_747.g21234' => 'ugi', 'unitig_747.g21942' => 'ugi', 'vmacro14351' => 'vma', 'VMungo0540G0082' => 'vmu', 'VMungo0540G0405' => 'vmu', 'VMungo0540G1486' => 'vmu', 'VMungo0540G1692' => 'vmu', 'VMungo0720G2473' => 'vmu', 'VMungo1127G1562' => 'vmu', 'VMungo1215G1918' => 'vmu', 'Zm00001eb052650' => 'zma', 'Zm00001eb063710' => 'zma', 'Zm00001eb083950' => 'zma', 'Zm00001eb174420' => 'zma', 'Zm00001eb260140' => 'zma', 'Zm00001eb260150' => 'zma', 'Zm00001eb260160' => 'zma', 'Zm00001eb348290' => 'zma', 'Zm00001eb366870' => 'zma', 'Zm00001eb421930' => 'zma' ), 'gf_id' => 'HOM05D001025', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001025' ), 'data_identifier' => 'HOM05D001025', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001025', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '592', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p22650' => 'bna', 'A01p29720' => 'bna', 'A03p26560' => 'bna', 'A03p68820' => 'bna', 'A04p20980' => 'bna', 'A06p07730' => 'bna', 'A07p18260' => 'bna', 'A08p33710' => 'bna', 'A09p16970' => 'bna', 'A10p27490' => 'bna', 'Aa31LG1G17300' => 'aar', 'Aa31LG1G3910' => 'aar', 'Aa31LG2G9630' => 'aar', 'Aa31LG5G8360' => 'aar', 'Aa31LG9G2410' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4699' => 'aag', 'Actinidia23512' => 'ach', 'Actinidia37080' => 'ach', 'Ah.01g020380' => 'amhyb', 'Ah.08g215710' => 'amhyb', 'Ah.09g225110' => 'amhyb', 'Ah.10g036680' => 'amhyb', 'AL1G21940' => 'aly', 'AL2G15540' => 'aly', 'AL4G21520' => 'aly', 'AL7G40960' => 'aly', 'Aqoxy2G01191' => 'aox', 'Aqoxy2G03393' => 'aox', 'Aqoxy4G02775' => 'aox', 'Aqoxy6G00058' => 'aox', 'arahy.Tifrunner.gnm1.ann1.9X74H2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CW3FX9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R485W7' => 'arhy', 'AT1G10960' => 'ath', 'AT1G60950' => 'ath', 'AT2G27510' => 'ath', 'AT4G14890' => 'ath', 'AT5G10000' => 'ath', 'ATR0665G624' => 'atr', 'ATR0697G138' => 'atr', 'ATR0776G046' => 'atr', 'ATR1134G135' => 'atr', 'Atru.chr12.1025' => 'acertr', 'Atru.chr3.3241' => 'acertr', 'Atru.chr4.2460' => 'acertr', 'AUR62007427' => 'cqu', 'AUR62010960' => 'cqu', 'AUR62012201' => 'cqu', 'AUR62021470' => 'cqu', 'AUR62022834' => 'cqu', 'AUR62033635' => 'cqu', 'AUR62036186' => 'cqu', 'BcaB01g03077' => 'bca', 'BcaB02g10093' => 'bca', 'BcaB04g20295' => 'bca', 'BcaB06g28147' => 'bca', 'BcaB07g31253' => 'bca', 'BcaC01g04946' => 'bca', 'BcaC02g10614' => 'bca', 'BcaC02g10885' => 'bca', 'BcaC04g19356' => 'bca', 'BcaC04g22297' => 'bca', 'BcaC05g24977' => 'bca', 'BcaC06g31823' => 'bca', 'BcaC07g38633' => 'bca', 'BcaC09g49353' => 'bca', 'BcaC09g50168' => 'bca', 'BcaNung00322' => 'bca', 'BcaNung04769' => 'bca', 'BolC1t02753H' => 'bol', 'BolC1t03721H' => 'bol', 'BolC3t15525H' => 'bol', 'BolC4t23903H' => 'bol', 'BolC4t24231H' => 'bol', 'BolC4t27209H' => 'bol', 'BolC5t29671H' => 'bol', 'BolC8t49044H' => 'bol', 'BolC9t54999H' => 'bol', 'BolC9t59517H' => 'bol', 'BraA01t02178Z' => 'bra', 'BraA01t03099Z' => 'bra', 'BraA03t11867Z' => 'bra', 'BraA04t17667Z' => 'bra', 'BraA07t29542Z' => 'bra', 'BraA08t35287Z' => 'bra', 'BraA09t37334Z' => 'bra', 'BraA10t44801Z' => 'bra', 'BraSC39t46181Z' => 'bra', 'C01p28240' => 'bna', 'C01p37530' => 'bna', 'C03p31820' => 'bna', 'C04p24080' => 'bna', 'C04p25790' => 'bna', 'C04p56770' => 'bna', 'C05p09310' => 'bna', 'C09p21010' => 'bna', 'C09p67560' => 'bna', 'CAN.G1324.7' => 'can', 'CAN.G1358.10' => 'can', 'CAN.G1550.2' => 'can', 'CAN.G186.56' => 'can', 'CAN.G1965.1' => 'can', 'CAN.G645.15' => 'can', 'CAN.G798.26' => 'can', 'CAN.G798.27' => 'can', 'CAN.G798.29' => 'can', 'CAN.G919.31' => 'can', 'CANSAT11G0133' => 'cansat', 'CANSAT11G1171' => 'cansat', 'CANSAT11G2056' => 'cansat', 'CANSAT56G1202' => 'cansat', 'CANSAT56G1514' => 'cansat', 'CANSAT78G0455' => 'cansat', 'CARHR011190' => 'chi', 'CARHR051980' => 'chi', 'CARHR120170' => 'chi', 'CARHR203310' => 'chi', 'CARHR221490' => 'chi', 'Carub.0001s1054' => 'cru', 'Carub.0002s0431' => 'cru', 'Carub.0004s0818' => 'cru', 'Carub.0006s0846' => 'cru', 'Carub.0007s2722' => 'cru', 'Ca_00058_v3' => 'car', 'Ca_17831_v3' => 'car', 'Ca_19408_v3' => 'car', 'Ca_24397_v3' => 'car', 'Ca_25664_v3' => 'car', 'CBR_g21818' => 'cbr', 'CBR_g31195' => 'cbr', 'CBR_g32282' => 'cbr', 'CBR_g39599' => 'cbr', 'CBR_g49410' => 'cbr', 'Cc01_g09120' => 'ccan', 'Cc01_g09130' => 'ccan', 'Cc02_g09630' => 'ccan', 'Cc02_g22810' => 'ccan', 'Cc03_g03810' => 'ccan', 'CDE02G3718' => 'cde', 'CDE04G3183' => 'cde', 'CDE07G1046' => 'cde', 'CDE08G0480' => 'cde', 'Cfa005493' => 'cfa', 'Cfa010312' => 'cfa', 'Cfa015648' => 'cfa', 'Ciclev10002793m.g' => 'ccl', 'Ciclev10003356m.g' => 'ccl', 'Ciclev10006141m.g' => 'ccl', 'Ciclev10016676m.g' => 'ccl', 'Ciclev10017081m.g' => 'ccl', 'Ciclev10029499m.g' => 'ccl', 'CiPaw.01G166300' => 'cil', 'CiPaw.06G145600' => 'cil', 'CiPaw.13G040100' => 'cil', 'CiPaw.13G135800' => 'cil', 'ClCG01G012230' => 'cla', 'ClCG05G009510' => 'cla', 'ClCG08G008270' => 'cla', 'COL.COLO4_11763' => 'col', 'COL.COLO4_19876' => 'col', 'COL.COLO4_21481' => 'col', 'Cpa.g.sc118.34' => 'cpa', 'Cpa.g.sc32.13' => 'cpa', 'Cpa.g.sc58.103' => 'cpa', 'Cre03.g183850' => 'cre', 'Cre06.g306350' => 'cre', 'Cre07.g334800' => 'cre', 'Cre12.g487900' => 'cre', 'Cre14.g626700' => 'cre', 'Cre16.g658400' => 'cre', 'Cre17.g700950' => 'cre', 'CsaV3_1G014830' => 'csa', 'CsaV3_3G013320' => 'csa', 'CsaV3_3G019210' => 'csa', 'CsaV3_3G019220' => 'csa', 'CsaV3_6G004230' => 'csa', 'CSS0003773' => 'camsi', 'CSS0004563' => 'camsi', 'CSS0013949' => 'camsi', 'CSS0025971' => 'camsi', 'CSS0028570' => 'camsi', 'CSS0033127' => 'camsi', 'CSS0036051' => 'camsi', 'CSS0040087' => 'camsi', 'CSS0043179' => 'camsi', 'DCAR_006161' => 'dca', 'DCAR_010351' => 'dca', 'DCAR_012197' => 'dca', 'DCAR_024162' => 'dca', 'Dinv01030' => 'din', 'Dinv10924' => 'din', 'Dinv11835' => 'din', 'Dinv22841' => 'din', 'Dinv42553' => 'din', 'Duzib052G0560' => 'dzi', 'Duzib132G0389' => 'dzi', 'Duzib150G1181' => 'dzi', 'Duzib168G0623' => 'dzi', 'Duzib170G1036' => 'dzi', 'Duzib212G0200' => 'dzi', 'Duzib248G0194' => 'dzi', 'ECA232G2193' => 'eca', 'ECA233G0302' => 'eca', 'ECA234G2813' => 'eca', 'ECA234G4866' => 'eca', 'ECA240G3932' => 'eca', 'ECA248G0385' => 'eca', 'EL10Ac2g04781' => 'bvu', 'EL10Ac3g06445' => 'bvu', 'EL10Ac7g15825' => 'bvu', 'EL10Ac8g18550' => 'bvu', 'Eucgr.B03849' => 'egr', 'Eucgr.I02744' => 'egr', 'Eucgr.J00264' => 'egr', 'Eucgr.J00493' => 'egr', 'FAN04G2181' => 'fan', 'FAN07G2666' => 'fan', 'FAN11G0024' => 'fan', 'FAN12G1105' => 'fan', 'FAN13G0302' => 'fan', 'FAN15G2781' => 'fan', 'FAN16G1274' => 'fan', 'FAN17G2988' => 'fan', 'FAN18G2621' => 'fan', 'FAN21G0013' => 'fan', 'FAN22G1211' => 'fan', 'FAN25G3626' => 'fan', 'FvH4_2g09491' => 'fve', 'FvH4_3g24910' => 'fve', 'FvH4_4g15630' => 'fve', 'FvH4_5g28820' => 'fve', 'Glyma.01G238000' => 'gma', 'Glyma.05G168400' => 'gma', 'Glyma.08G126800' => 'gma', 'Glyma.08G188500' => 'gma', 'Glyma.10G278900' => 'gma', 'Glyma.11G005700' => 'gma', 'Glyma.11G183300' => 'gma', 'Glyma.12G089200' => 'gma', 'Glyma.12G169400' => 'gma', 'Glyma.12G169500' => 'gma', 'Glyma.12G169600' => 'gma', 'Glyma.20G110800' => 'gma', 'Gohir.A03G192900' => 'ghi', 'Gohir.A03G193000' => 'ghi', 'Gohir.A05G080700' => 'ghi', 'Gohir.A09G216000' => 'ghi', 'Gohir.A12G027700' => 'ghi', 'Gohir.A13G036200' => 'ghi', 'Gohir.A13G222600' => 'ghi', 'Gohir.D02G213900' => 'ghi', 'Gohir.D02G214000' => 'ghi', 'Gohir.D05G083700' => 'ghi', 'Gohir.D05G083800' => 'ghi', 'Gohir.D05G083850' => 'ghi', 'Gohir.D08G015400' => 'ghi', 'Gohir.D09G218400' => 'ghi', 'Gohir.D12G027100' => 'ghi', 'Gohir.D13G034500' => 'ghi', 'Gohir.D13G227400' => 'ghi', 'Gorai.005G241800' => 'gra', 'Gorai.005G241900' => 'gra', 'Gorai.006G239400' => 'gra', 'Gorai.008G027600' => 'gra', 'Gorai.009G085400' => 'gra', 'Gorai.009G085500' => 'gra', 'Gorai.013G039000' => 'gra', 'Gorai.013G194800' => 'gra', 'Gorai.013G257900' => 'gra', 'GSVIVG01000982001' => 'vvi', 'GSVIVG01017981001' => 'vvi', 'HanXRQChr01g0024061' => 'han', 'HanXRQChr09g0247831' => 'han', 'HanXRQChr10g0294611' => 'han', 'HanXRQChr10g0294621' => 'han', 'HanXRQChr11g0346821' => 'han', 'HanXRQChr13g0397461' => 'han', 'HanXRQChr16g0513651' => 'han', 'HanXRQChr16g0513701' => 'han', 'Haze_00897' => 'cav', 'Haze_01745' => 'cav', 'Haze_02486' => 'cav', 'Haze_02487' => 'cav', 'Haze_23374' => 'cav', 'Hma1.2p1_0578F.1_g182520' => 'hma', 'Hma1.2p1_0602F.1_g187350' => 'hma', 'Hma1.2p1_0602F.1_g187360' => 'hma', 'Hma1.2p1_0874F.1_g231320' => 'hma', 'Hma1.2p1_1197F.1_g266210' => 'hma', 'Hma1.2p1_1197F.1_g266220' => 'hma', 'Hma1.2p1_2167F.1_g315895' => 'hma', 'Hma1.2p1_2190F.1_g316640' => 'hma', 'Hma1.2p1_3645F.1_g337153' => 'hma', 'HPP92_004907' => 'vpl', 'HPP92_012134' => 'vpl', 'HPP92_025136' => 'vpl', 'HPP92_026087' => 'vpl', 'Hund06782' => 'sun', 'Hund06784' => 'sun', 'Lalb_Chr01g0004861' => 'lal', 'Lalb_Chr02g0140591' => 'lal', 'Lalb_Chr02g0140611' => 'lal', 'Lalb_Chr03g0028101' => 'lal', 'Lalb_Chr07g0185791' => 'lal', 'Lalb_Chr12g0204491' => 'lal', 'Lalb_Chr13g0295671' => 'lal', 'Lalb_Chr19g0136461' => 'lal', 'Lalb_Chr21g0309191' => 'lal', 'Lj1g0028158' => 'lja', 'Lj1P236T38' => 'lonja', 'Lj2C32G2' => 'lonja', 'Lj2P944T8' => 'lonja', 'Lj2P963T15' => 'lonja', 'Lj3g0011788' => 'lja', 'Lj4g0025027' => 'lja', 'Lj5P255T36' => 'lonja', 'Lj6g0018866' => 'lja', 'Lj6P608T31' => 'lonja', 'LjContig00408g0008879' => 'lja', 'Lsat_1_v5_gn_5_105820' => 'lsa', 'Lsat_1_v5_gn_6_38800' => 'lsa', 'Lsat_1_v5_gn_7_67141' => 'lsa', 'Manes.04G003400' => 'mes', 'Manes.07G020000' => 'mes', 'Manes.07G020100' => 'mes', 'Manes.07G020150' => 'mes', 'Manes.10G061500' => 'mes', 'Manes.10G123200' => 'mes', 'Manes.11G161900' => 'mes', 'Manes.15G029300' => 'mes', 'Mapoly0071s0018' => 'mpo', 'Mapoly0082s0023' => 'mpo', 'Mapoly3477s0001' => 'mpo', 'MBI05_g31233_MAGBIO' => 'mbi', 'MBI09_g05946_MAGBIO' => 'mbi', 'MBI09_g05947_MAGBIO' => 'mbi', 'MBI17_g08346_MAGBIO' => 'mbi', 'MCO04G038' => 'mco', 'MCO09G370' => 'mco', 'MCO13G605' => 'mco', 'MD00G1075500' => 'mdo', 'MD03G1144300' => 'mdo', 'MD08G1236800' => 'mdo', 'MD13G1193300' => 'mdo', 'MD15G1428700' => 'mdo', 'Medtr1g112030' => 'mtr', 'Medtr1g112050' => 'mtr', 'Medtr2g006290' => 'mtr', 'Medtr2g086510' => 'mtr', 'Medtr4g053120' => 'mtr', 'Medtr5g006320' => 'mtr', 'Medtr8g088720' => 'mtr', 'MELO3C004712.2' => 'cme', 'MELO3C006533.2' => 'cme', 'MELO3C019438.2' => 'cme', 'MELO3C019440.2' => 'cme', 'MELO3C019441.2' => 'cme', 'MELO3C019895.2' => 'cme', 'Migut.B00811' => 'egut', 'Migut.D02447' => 'egut', 'Migut.F00875' => 'egut', 'Migut.N00186' => 'egut', 'Migut.N01051' => 'egut', 'Migut.N02491' => 'egut', 'Migut.O00784' => 'egut', 'MSTRG.12367' => 'ama', 'MSTRG.18756' => 'ama', 'MSTRG.21042' => 'ama', 'Nitab4.5_0000559g0040' => 'nta', 'Nitab4.5_0000667g0190' => 'nta', 'Nitab4.5_0000755g0160' => 'nta', 'Nitab4.5_0001216g0080' => 'nta', 'Nitab4.5_0004069g0040' => 'nta', 'Nitab4.5_0004129g0010' => 'nta', 'Nitab4.5_0005744g0030' => 'nta', 'Nitab4.5_0006996g0030' => 'nta', 'Nitab4.5_0008971g0040' => 'nta', 'Nitab4.5_0009769g0020' => 'nta', 'Nitab4.5_0009833g0010' => 'nta', 'Nitab4.5_0013140g0020' => 'nta', 'Nn003s41376' => 'nnu', 'Nn1g01857' => 'nnu', 'Nn1g03611' => 'nnu', 'Nn1g06853' => 'nnu', 'Nn3g18360' => 'nnu', 'Nn4g26328' => 'nnu', 'Nn5g27531' => 'nnu', 'Nn6g34899' => 'nnu', 'Nn7g36299' => 'nnu', 'Oeu021485.1' => 'oeu', 'Oeu022433.1' => 'oeu', 'Oeu032111.1' => 'oeu', 'Oeu051608.1' => 'oeu', 'Os01g0860601' => 'osa', 'Os03g0659200' => 'osa', 'Os03g0835900' => 'osa', 'Os04g0412200' => 'osa', 'Os05g0443500' => 'osa', 'Os07g0251500' => 'osa', 'Os08g0104600' => 'osa', 'Peaxi162Scf00003g00047' => 'pax', 'Peaxi162Scf00003g00052' => 'pax', 'Peaxi162Scf00003g00394' => 'pax', 'Peaxi162Scf00091g00621' => 'pax', 'Peaxi162Scf00152g00146' => 'pax', 'Peaxi162Scf00173g00025' => 'pax', 'Peaxi162Scf00195g00102' => 'pax', 'Peaxi162Scf00402g00013' => 'pax', 'Peaxi162Scf00519g00618' => 'pax', 'PGR004G2838' => 'pgr', 'PGR044G2275' => 'pgr', 'PGR102G1377' => 'pgr', 'PGR119G1245' => 'pgr', 'PGR142G4449' => 'pgr', 'PGSC0003DMG400004532' => 'stu', 'PGSC0003DMG400011950' => 'stu', 'PGSC0003DMG400023391' => 'stu', 'PGSC0003DMG400023985' => 'stu', 'PGSC0003DMG400026360' => 'stu', 'PGSC0003DMG400035711' => 'stu', 'PGSC0003DMG400037286' => 'stu', 'PGSC0003DMG402005881' => 'stu', 'Phvul.002G045400' => 'pvu', 'Phvul.006G216600' => 'pvu', 'Phvul.006G216700' => 'pvu', 'Phvul.006G216800' => 'pvu', 'Phvul.007G022500' => 'pvu', 'Phvul.011G094400' => 'pvu', 'Potri.001G470700' => 'ptr', 'Potri.003G015200' => 'ptr', 'Potri.004G202500' => 'ptr', 'Potri.004G218400' => 'ptr', 'Potri.008G020100' => 'ptr', 'Potri.008G153200' => 'ptr', 'Potri.009G163800' => 'ptr', 'Potri.010G087300' => 'ptr', 'Potri.010G239100' => 'ptr', 'Pp3c10_16100' => 'ppa', 'Pp3c10_16880' => 'ppa', 'Pp3c16_6230' => 'ppa', 'Pp3c17_18910' => 'ppa', 'Pp3c3_22119' => 'ppa', 'Pp3c3_22140' => 'ppa', 'Pp3c4_8159' => 'ppa', 'Pp3c4_8171' => 'ppa', 'Pp3c4_8330' => 'ppa', 'PRCOL_00004098' => 'pco', 'Prupe.1G013900' => 'ppe', 'Prupe.1G226300' => 'ppe', 'Prupe.1G573600' => 'ppe', 'Prupe.6G130100' => 'ppe', 'Psat3g090040' => 'psa', 'Psat4g210440' => 'psa', 'Psat6g231040' => 'psa', 'Psat6g231080' => 'psa', 'Psat7g063000' => 'psa', 'Psat7g188000' => 'psa', 'Psat7g188040' => 'psa', 'PSO017G0206' => 'pso', 'PSO170G0501' => 'pso', 'PSO170G6422' => 'pso', 'PSO210G7739' => 'pso', 'PSO339G1808' => 'pso', 'PSO339G6135' => 'pso', 'PSO384G0010' => 'pso', 'PSO384G0964' => 'pso', 'PSO761G0050' => 'pso', 'PSO782G4085' => 'pso', 'QL01p012264' => 'qlo', 'QL02p099491' => 'qlo', 'QL03p033868' => 'qlo', 'QL04p046678' => 'qlo', 'QL06p002448' => 'qlo', 'RcHm_v2.0_Chr4g0416181' => 'rch', 'RcHm_v2.0_Chr5g0044701' => 'rch', 'RcHm_v2.0_Chr6g0265781' => 'rch', 'RcHm_v2.0_Chr7g0221031' => 'rch', 'Rhsim04G0202000' => 'rsi', 'Rhsim11G0127300' => 'rsi', 'Rhsim13G0111800' => 'rsi', 'Sabra01G0165600' => 'sbr', 'Sabra03G0008300' => 'sbr', 'Sabra04G0136900' => 'sbr', 'Sabra08G0013400' => 'sbr', 'Sabra08G0116800' => 'sbr', 'Sabra09G0128000' => 'sbr', 'Sabra10G0055500' => 'sbr', 'Sabra10G0073300' => 'sbr', 'SalBow3G0385' => 'sbo', 'SalBow3G1119' => 'sbo', 'SalBow3G2005' => 'sbo', 'SalBow6G2563' => 'sbo', 'SalBow6G6386' => 'sbo', 'Sc06g0008800' => 'sci', 'Sc07g0004950' => 'sci', 'Sc09g0005340' => 'sci', 'Sc13g0004410' => 'sci', 'Sc21g0007090' => 'sci', 'Sed0009285' => 'sed', 'Sed0017583' => 'sed', 'Sed0019699' => 'sed', 'Sed0023107' => 'sed', 'SEGI_10916' => 'sgi', 'SEGI_16217' => 'sgi', 'SEGI_19466' => 'sgi', 'SEGI_41115' => 'sgi', 'SGA_v2.0_scaffold111G31534' => 'sas', 'SGA_v2.0_scaffold22G09864' => 'sas', 'SGA_v2.0_scaffold338G49219' => 'sas', 'SGA_v2.0_scaffold92G28298' => 'sas', 'SMO119G0064' => 'smo', 'SMO223G0038' => 'smo', 'SMO347G0584' => 'smo', 'SMO351G0010' => 'smo', 'SMO356G0404' => 'smo', 'Solyc01g103920.3' => 'sly', 'Solyc04g009710.2' => 'sly', 'Solyc05g055280.2' => 'sly', 'Solyc10g044520.3' => 'sly', 'Solyc10g075160.1' => 'sly', 'Solyc11g006910.3' => 'sly', 'Solyc11g068430.3' => 'sly', 'Sopen01g046310' => 'spe', 'Sopen03g001200' => 'spe', 'Sopen04g004830' => 'spe', 'Sopen05g033720' => 'spe', 'Sopen06g030740' => 'spe', 'Sopen10g013090' => 'spe', 'Sopen10g027630' => 'spe', 'Sopen10g027640' => 'spe', 'Sopen11g002820' => 'spe', 'Sopen11g027140' => 'spe', 'Sp1g09680' => 'spa', 'Sp2g03630' => 'spa', 'Sp4g10320' => 'spa', 'Sp6g33400' => 'spa', 'Sp7g13030' => 'spa', 'TAR365G0317' => 'tar', 'TAR376G0979' => 'tar', 'TAR623G1665' => 'tar', 'TAR633G2373' => 'tar', 'TAR636G1400' => 'tar', 'THA.LOC104800529' => 'tha', 'THA.LOC104808547' => 'tha', 'THA.LOC104809615' => 'tha', 'THA.LOC104815724' => 'tha', 'THA.LOC104818480' => 'tha', 'THA.LOC104819179' => 'tha', 'THA.LOC104822270' => 'tha', 'THA.LOC104826425' => 'tha', 'Thecc.02G089700' => 'tca', 'Thecc.04G232300' => 'tca', 'Thecc.09G283400' => 'tca', 'Thhalv10009020m.g' => 'esa', 'Thhalv10015506m.g' => 'esa', 'Thhalv10017364m.g' => 'esa', 'Thhalv10023742m.g' => 'esa', 'Thhalv10026483m.g' => 'esa', 'TPR.G17232' => 'tpr', 'TPR.G2133' => 'tpr', 'TPR.G2498' => 'tpr', 'TPR.G31942' => 'tpr', 'TPR.G37877' => 'tpr', 'TPR.G4571' => 'tpr', 'TWI14G1113' => 'twi', 'TWI15G0426' => 'twi', 'TWI31G1005' => 'twi', 'TWI38G0513' => 'twi', 'TWI38G1484' => 'twi', 'TWI73G1098' => 'twi', 'unitig_26.g10519' => 'ugi', 'unitig_736.g22395' => 'ugi', 'unitig_747.g21234' => 'ugi', 'unitig_747.g21942' => 'ugi', 'vmacro14351' => 'vma', 'VMungo0540G0082' => 'vmu', 'VMungo0540G0405' => 'vmu', 'VMungo0540G1486' => 'vmu', 'VMungo0540G1692' => 'vmu', 'VMungo0720G2473' => 'vmu', 'VMungo1127G1562' => 'vmu', 'VMungo1215G1918' => 'vmu', 'Zm00001eb052650' => 'zma', 'Zm00001eb063710' => 'zma', 'Zm00001eb083950' => 'zma', 'Zm00001eb174420' => 'zma', 'Zm00001eb260140' => 'zma', 'Zm00001eb260150' => 'zma', 'Zm00001eb260160' => 'zma', 'Zm00001eb348290' => 'zma', 'Zm00001eb366870' => 'zma', 'Zm00001eb421930' => 'zma' ) $gf_id = 'HOM05D001025' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001025' ) $data_identifier = 'HOM05D001025' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 19, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 2, 'amhyb' => (int) 4, 'aly' => (int) 4, 'aox' => (int) 4, 'arhy' => (int) 3, 'ath' => (int) 5, 'atr' => (int) 4, 'acertr' => (int) 3, 'cqu' => (int) 7, 'bca' => (int) 17, 'bol' => (int) 10, 'bra' => (int) 9, 'can' => (int) 10, 'cansat' => (int) 6, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 5, 'cbr' => (int) 5, 'ccan' => (int) 5, 'cde' => (int) 4, 'cfa' => (int) 3, 'ccl' => (int) 6, 'cil' => (int) 4, 'cla' => (int) 3, 'col' => (int) 3, 'cpa' => (int) 3, 'cre' => (int) 7, 'csa' => (int) 5, 'camsi' => (int) 9, 'dca' => (int) 4, 'din' => (int) 5, 'dzi' => (int) 7, 'eca' => (int) 6, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 12, 'fve' => (int) 4, 'gma' => (int) 12, 'ghi' => (int) 17, 'gra' => (int) 9, 'vvi' => (int) 2, 'han' => (int) 8, 'cav' => (int) 5, 'hma' => (int) 9, 'vpl' => (int) 4, 'sun' => (int) 2, 'lal' => (int) 9, 'lja' => (int) 5, 'lonja' => (int) 6, 'lsa' => (int) 3, 'mes' => (int) 8, 'mpo' => (int) 3, 'mbi' => (int) 4, 'mco' => (int) 3, 'mdo' => (int) 5, 'mtr' => (int) 7, 'cme' => (int) 6, 'egut' => (int) 7, 'ama' => (int) 3, 'nta' => (int) 12, 'nnu' => (int) 9, 'oeu' => (int) 4, 'osa' => (int) 7, 'pax' => (int) 9, 'pgr' => (int) 5, 'stu' => (int) 8, 'pvu' => (int) 6, 'ptr' => (int) 9, 'ppa' => (int) 9, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 7, 'pso' => (int) 10, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 3, 'sbr' => (int) 8, 'sbo' => (int) 5, 'sci' => (int) 5, 'sed' => (int) 4, 'sgi' => (int) 4, 'sas' => (int) 4, 'smo' => (int) 5, 'sly' => (int) 7, 'spe' => (int) 10, 'spa' => (int) 5, 'tar' => (int) 5, 'tha' => (int) 8, 'tca' => (int) 3, 'esa' => (int) 5, 'tpr' => (int) 6, 'twi' => (int) 6, 'ugi' => (int) 4, 'vma' => (int) 1, 'vmu' => (int) 7, 'zma' => (int) 10 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb421930' $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' => 'HOM05D001025', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '592', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p22650' => 'bna', 'A01p29720' => 'bna', 'A03p26560' => 'bna', 'A03p68820' => 'bna', 'A04p20980' => 'bna', 'A06p07730' => 'bna', 'A07p18260' => 'bna', 'A08p33710' => 'bna', 'A09p16970' => 'bna', 'A10p27490' => 'bna', 'Aa31LG1G17300' => 'aar', 'Aa31LG1G3910' => 'aar', 'Aa31LG2G9630' => 'aar', 'Aa31LG5G8360' => 'aar', 'Aa31LG9G2410' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4699' => 'aag', 'Actinidia23512' => 'ach', 'Actinidia37080' => 'ach', 'Ah.01g020380' => 'amhyb', 'Ah.08g215710' => 'amhyb', 'Ah.09g225110' => 'amhyb', 'Ah.10g036680' => 'amhyb', 'AL1G21940' => 'aly', 'AL2G15540' => 'aly', 'AL4G21520' => 'aly', 'AL7G40960' => 'aly', 'Aqoxy2G01191' => 'aox', 'Aqoxy2G03393' => 'aox', 'Aqoxy4G02775' => 'aox', 'Aqoxy6G00058' => 'aox', 'arahy.Tifrunner.gnm1.ann1.9X74H2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CW3FX9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R485W7' => 'arhy', 'AT1G10960' => 'ath', 'AT1G60950' => 'ath', 'AT2G27510' => 'ath', 'AT4G14890' => 'ath', 'AT5G10000' => 'ath', 'ATR0665G624' => 'atr', 'ATR0697G138' => 'atr', 'ATR0776G046' => 'atr', 'ATR1134G135' => 'atr', 'Atru.chr12.1025' => 'acertr', 'Atru.chr3.3241' => 'acertr', 'Atru.chr4.2460' => 'acertr', 'AUR62007427' => 'cqu', 'AUR62010960' => 'cqu', 'AUR62012201' => 'cqu', 'AUR62021470' => 'cqu', 'AUR62022834' => 'cqu', 'AUR62033635' => 'cqu', 'AUR62036186' => 'cqu', 'BcaB01g03077' => 'bca', 'BcaB02g10093' => 'bca', 'BcaB04g20295' => 'bca', 'BcaB06g28147' => 'bca', 'BcaB07g31253' => 'bca', 'BcaC01g04946' => 'bca', 'BcaC02g10614' => 'bca', 'BcaC02g10885' => 'bca', 'BcaC04g19356' => 'bca', 'BcaC04g22297' => 'bca', 'BcaC05g24977' => 'bca', 'BcaC06g31823' => 'bca', 'BcaC07g38633' => 'bca', 'BcaC09g49353' => 'bca', 'BcaC09g50168' => 'bca', 'BcaNung00322' => 'bca', 'BcaNung04769' => 'bca', 'BolC1t02753H' => 'bol', 'BolC1t03721H' => 'bol', 'BolC3t15525H' => 'bol', 'BolC4t23903H' => 'bol', 'BolC4t24231H' => 'bol', 'BolC4t27209H' => 'bol', 'BolC5t29671H' => 'bol', 'BolC8t49044H' => 'bol', 'BolC9t54999H' => 'bol', 'BolC9t59517H' => 'bol', 'BraA01t02178Z' => 'bra', 'BraA01t03099Z' => 'bra', 'BraA03t11867Z' => 'bra', 'BraA04t17667Z' => 'bra', 'BraA07t29542Z' => 'bra', 'BraA08t35287Z' => 'bra', 'BraA09t37334Z' => 'bra', 'BraA10t44801Z' => 'bra', 'BraSC39t46181Z' => 'bra', 'C01p28240' => 'bna', 'C01p37530' => 'bna', 'C03p31820' => 'bna', 'C04p24080' => 'bna', 'C04p25790' => 'bna', 'C04p56770' => 'bna', 'C05p09310' => 'bna', 'C09p21010' => 'bna', 'C09p67560' => 'bna', 'CAN.G1324.7' => 'can', 'CAN.G1358.10' => 'can', 'CAN.G1550.2' => 'can', 'CAN.G186.56' => 'can', 'CAN.G1965.1' => 'can', 'CAN.G645.15' => 'can', 'CAN.G798.26' => 'can', 'CAN.G798.27' => 'can', 'CAN.G798.29' => 'can', 'CAN.G919.31' => 'can', 'CANSAT11G0133' => 'cansat', 'CANSAT11G1171' => 'cansat', 'CANSAT11G2056' => 'cansat', 'CANSAT56G1202' => 'cansat', 'CANSAT56G1514' => 'cansat', 'CANSAT78G0455' => 'cansat', 'CARHR011190' => 'chi', 'CARHR051980' => 'chi', 'CARHR120170' => 'chi', 'CARHR203310' => 'chi', 'CARHR221490' => 'chi', 'Carub.0001s1054' => 'cru', 'Carub.0002s0431' => 'cru', 'Carub.0004s0818' => 'cru', 'Carub.0006s0846' => 'cru', 'Carub.0007s2722' => 'cru', 'Ca_00058_v3' => 'car', 'Ca_17831_v3' => 'car', 'Ca_19408_v3' => 'car', 'Ca_24397_v3' => 'car', 'Ca_25664_v3' => 'car', 'CBR_g21818' => 'cbr', 'CBR_g31195' => 'cbr', 'CBR_g32282' => 'cbr', 'CBR_g39599' => 'cbr', 'CBR_g49410' => 'cbr', 'Cc01_g09120' => 'ccan', 'Cc01_g09130' => 'ccan', 'Cc02_g09630' => 'ccan', 'Cc02_g22810' => 'ccan', 'Cc03_g03810' => 'ccan', 'CDE02G3718' => 'cde', 'CDE04G3183' => 'cde', 'CDE07G1046' => 'cde', 'CDE08G0480' => 'cde', 'Cfa005493' => 'cfa', 'Cfa010312' => 'cfa', 'Cfa015648' => 'cfa', 'Ciclev10002793m.g' => 'ccl', 'Ciclev10003356m.g' => 'ccl', 'Ciclev10006141m.g' => 'ccl', 'Ciclev10016676m.g' => 'ccl', 'Ciclev10017081m.g' => 'ccl', 'Ciclev10029499m.g' => 'ccl', 'CiPaw.01G166300' => 'cil', 'CiPaw.06G145600' => 'cil', 'CiPaw.13G040100' => 'cil', 'CiPaw.13G135800' => 'cil', 'ClCG01G012230' => 'cla', 'ClCG05G009510' => 'cla', 'ClCG08G008270' => 'cla', 'COL.COLO4_11763' => 'col', 'COL.COLO4_19876' => 'col', 'COL.COLO4_21481' => 'col', 'Cpa.g.sc118.34' => 'cpa', 'Cpa.g.sc32.13' => 'cpa', 'Cpa.g.sc58.103' => 'cpa', 'Cre03.g183850' => 'cre', 'Cre06.g306350' => 'cre', 'Cre07.g334800' => 'cre', 'Cre12.g487900' => 'cre', 'Cre14.g626700' => 'cre', 'Cre16.g658400' => 'cre', 'Cre17.g700950' => 'cre', 'CsaV3_1G014830' => 'csa', 'CsaV3_3G013320' => 'csa', 'CsaV3_3G019210' => 'csa', 'CsaV3_3G019220' => 'csa', 'CsaV3_6G004230' => 'csa', 'CSS0003773' => 'camsi', 'CSS0004563' => 'camsi', 'CSS0013949' => 'camsi', 'CSS0025971' => 'camsi', 'CSS0028570' => 'camsi', 'CSS0033127' => 'camsi', 'CSS0036051' => 'camsi', 'CSS0040087' => 'camsi', 'CSS0043179' => 'camsi', 'DCAR_006161' => 'dca', 'DCAR_010351' => 'dca', 'DCAR_012197' => 'dca', 'DCAR_024162' => 'dca', 'Dinv01030' => 'din', 'Dinv10924' => 'din', 'Dinv11835' => 'din', 'Dinv22841' => 'din', 'Dinv42553' => 'din', 'Duzib052G0560' => 'dzi', 'Duzib132G0389' => 'dzi', 'Duzib150G1181' => 'dzi', 'Duzib168G0623' => 'dzi', 'Duzib170G1036' => 'dzi', 'Duzib212G0200' => 'dzi', 'Duzib248G0194' => 'dzi', 'ECA232G2193' => 'eca', 'ECA233G0302' => 'eca', 'ECA234G2813' => 'eca', 'ECA234G4866' => 'eca', 'ECA240G3932' => 'eca', 'ECA248G0385' => 'eca', 'EL10Ac2g04781' => 'bvu', 'EL10Ac3g06445' => 'bvu', 'EL10Ac7g15825' => 'bvu', 'EL10Ac8g18550' => 'bvu', 'Eucgr.B03849' => 'egr', 'Eucgr.I02744' => 'egr', 'Eucgr.J00264' => 'egr', 'Eucgr.J00493' => 'egr', 'FAN04G2181' => 'fan', 'FAN07G2666' => 'fan', 'FAN11G0024' => 'fan', 'FAN12G1105' => 'fan', 'FAN13G0302' => 'fan', 'FAN15G2781' => 'fan', 'FAN16G1274' => 'fan', 'FAN17G2988' => 'fan', 'FAN18G2621' => 'fan', 'FAN21G0013' => 'fan', 'FAN22G1211' => 'fan', 'FAN25G3626' => 'fan', 'FvH4_2g09491' => 'fve', 'FvH4_3g24910' => 'fve', 'FvH4_4g15630' => 'fve', 'FvH4_5g28820' => 'fve', 'Glyma.01G238000' => 'gma', 'Glyma.05G168400' => 'gma', 'Glyma.08G126800' => 'gma', 'Glyma.08G188500' => 'gma', 'Glyma.10G278900' => 'gma', 'Glyma.11G005700' => 'gma', 'Glyma.11G183300' => 'gma', 'Glyma.12G089200' => 'gma', 'Glyma.12G169400' => 'gma', 'Glyma.12G169500' => 'gma', 'Glyma.12G169600' => 'gma', 'Glyma.20G110800' => 'gma', 'Gohir.A03G192900' => 'ghi', 'Gohir.A03G193000' => 'ghi', 'Gohir.A05G080700' => 'ghi', 'Gohir.A09G216000' => 'ghi', 'Gohir.A12G027700' => 'ghi', 'Gohir.A13G036200' => 'ghi', 'Gohir.A13G222600' => 'ghi', 'Gohir.D02G213900' => 'ghi', 'Gohir.D02G214000' => 'ghi', 'Gohir.D05G083700' => 'ghi', 'Gohir.D05G083800' => 'ghi', 'Gohir.D05G083850' => 'ghi', 'Gohir.D08G015400' => 'ghi', 'Gohir.D09G218400' => 'ghi', 'Gohir.D12G027100' => 'ghi', 'Gohir.D13G034500' => 'ghi', 'Gohir.D13G227400' => 'ghi', 'Gorai.005G241800' => 'gra', 'Gorai.005G241900' => 'gra', 'Gorai.006G239400' => 'gra', 'Gorai.008G027600' => 'gra', 'Gorai.009G085400' => 'gra', 'Gorai.009G085500' => 'gra', 'Gorai.013G039000' => 'gra', 'Gorai.013G194800' => 'gra', 'Gorai.013G257900' => 'gra', 'GSVIVG01000982001' => 'vvi', 'GSVIVG01017981001' => 'vvi', 'HanXRQChr01g0024061' => 'han', 'HanXRQChr09g0247831' => 'han', 'HanXRQChr10g0294611' => 'han', 'HanXRQChr10g0294621' => 'han', 'HanXRQChr11g0346821' => 'han', 'HanXRQChr13g0397461' => 'han', 'HanXRQChr16g0513651' => 'han', 'HanXRQChr16g0513701' => 'han', 'Haze_00897' => 'cav', 'Haze_01745' => 'cav', 'Haze_02486' => 'cav', 'Haze_02487' => 'cav', 'Haze_23374' => 'cav', 'Hma1.2p1_0578F.1_g182520' => 'hma', 'Hma1.2p1_0602F.1_g187350' => 'hma', 'Hma1.2p1_0602F.1_g187360' => 'hma', 'Hma1.2p1_0874F.1_g231320' => 'hma', 'Hma1.2p1_1197F.1_g266210' => 'hma', 'Hma1.2p1_1197F.1_g266220' => 'hma', 'Hma1.2p1_2167F.1_g315895' => 'hma', 'Hma1.2p1_2190F.1_g316640' => 'hma', 'Hma1.2p1_3645F.1_g337153' => 'hma', 'HPP92_004907' => 'vpl', 'HPP92_012134' => 'vpl', 'HPP92_025136' => 'vpl', 'HPP92_026087' => 'vpl', 'Hund06782' => 'sun', 'Hund06784' => 'sun', 'Lalb_Chr01g0004861' => 'lal', 'Lalb_Chr02g0140591' => 'lal', 'Lalb_Chr02g0140611' => 'lal', 'Lalb_Chr03g0028101' => 'lal', 'Lalb_Chr07g0185791' => 'lal', 'Lalb_Chr12g0204491' => 'lal', 'Lalb_Chr13g0295671' => 'lal', 'Lalb_Chr19g0136461' => 'lal', 'Lalb_Chr21g0309191' => 'lal', 'Lj1g0028158' => 'lja', 'Lj1P236T38' => 'lonja', 'Lj2C32G2' => 'lonja', 'Lj2P944T8' => 'lonja', 'Lj2P963T15' => 'lonja', 'Lj3g0011788' => 'lja', 'Lj4g0025027' => 'lja', 'Lj5P255T36' => 'lonja', 'Lj6g0018866' => 'lja', 'Lj6P608T31' => 'lonja', 'LjContig00408g0008879' => 'lja', 'Lsat_1_v5_gn_5_105820' => 'lsa', 'Lsat_1_v5_gn_6_38800' => 'lsa', 'Lsat_1_v5_gn_7_67141' => 'lsa', 'Manes.04G003400' => 'mes', 'Manes.07G020000' => 'mes', 'Manes.07G020100' => 'mes', 'Manes.07G020150' => 'mes', 'Manes.10G061500' => 'mes', 'Manes.10G123200' => 'mes', 'Manes.11G161900' => 'mes', 'Manes.15G029300' => 'mes', 'Mapoly0071s0018' => 'mpo', 'Mapoly0082s0023' => 'mpo', 'Mapoly3477s0001' => 'mpo', 'MBI05_g31233_MAGBIO' => 'mbi', 'MBI09_g05946_MAGBIO' => 'mbi', 'MBI09_g05947_MAGBIO' => 'mbi', 'MBI17_g08346_MAGBIO' => 'mbi', 'MCO04G038' => 'mco', 'MCO09G370' => 'mco', 'MCO13G605' => 'mco', 'MD00G1075500' => 'mdo', 'MD03G1144300' => 'mdo', 'MD08G1236800' => 'mdo', 'MD13G1193300' => 'mdo', 'MD15G1428700' => 'mdo', 'Medtr1g112030' => 'mtr', 'Medtr1g112050' => 'mtr', 'Medtr2g006290' => 'mtr', 'Medtr2g086510' => 'mtr', 'Medtr4g053120' => 'mtr', 'Medtr5g006320' => 'mtr', 'Medtr8g088720' => 'mtr', 'MELO3C004712.2' => 'cme', 'MELO3C006533.2' => 'cme', 'MELO3C019438.2' => 'cme', 'MELO3C019440.2' => 'cme', 'MELO3C019441.2' => 'cme', 'MELO3C019895.2' => 'cme', 'Migut.B00811' => 'egut', 'Migut.D02447' => 'egut', 'Migut.F00875' => 'egut', 'Migut.N00186' => 'egut', 'Migut.N01051' => 'egut', 'Migut.N02491' => 'egut', 'Migut.O00784' => 'egut', 'MSTRG.12367' => 'ama', 'MSTRG.18756' => 'ama', 'MSTRG.21042' => 'ama', 'Nitab4.5_0000559g0040' => 'nta', 'Nitab4.5_0000667g0190' => 'nta', 'Nitab4.5_0000755g0160' => 'nta', 'Nitab4.5_0001216g0080' => 'nta', 'Nitab4.5_0004069g0040' => 'nta', 'Nitab4.5_0004129g0010' => 'nta', 'Nitab4.5_0005744g0030' => 'nta', 'Nitab4.5_0006996g0030' => 'nta', 'Nitab4.5_0008971g0040' => 'nta', 'Nitab4.5_0009769g0020' => 'nta', 'Nitab4.5_0009833g0010' => 'nta', 'Nitab4.5_0013140g0020' => 'nta', 'Nn003s41376' => 'nnu', 'Nn1g01857' => 'nnu', 'Nn1g03611' => 'nnu', 'Nn1g06853' => 'nnu', 'Nn3g18360' => 'nnu', 'Nn4g26328' => 'nnu', 'Nn5g27531' => 'nnu', 'Nn6g34899' => 'nnu', 'Nn7g36299' => 'nnu', 'Oeu021485.1' => 'oeu', 'Oeu022433.1' => 'oeu', 'Oeu032111.1' => 'oeu', 'Oeu051608.1' => 'oeu', 'Os01g0860601' => 'osa', 'Os03g0659200' => 'osa', 'Os03g0835900' => 'osa', 'Os04g0412200' => 'osa', 'Os05g0443500' => 'osa', 'Os07g0251500' => 'osa', 'Os08g0104600' => 'osa', 'Peaxi162Scf00003g00047' => 'pax', 'Peaxi162Scf00003g00052' => 'pax', 'Peaxi162Scf00003g00394' => 'pax', 'Peaxi162Scf00091g00621' => 'pax', 'Peaxi162Scf00152g00146' => 'pax', 'Peaxi162Scf00173g00025' => 'pax', 'Peaxi162Scf00195g00102' => 'pax', 'Peaxi162Scf00402g00013' => 'pax', 'Peaxi162Scf00519g00618' => 'pax', 'PGR004G2838' => 'pgr', 'PGR044G2275' => 'pgr', 'PGR102G1377' => 'pgr', 'PGR119G1245' => 'pgr', 'PGR142G4449' => 'pgr', 'PGSC0003DMG400004532' => 'stu', 'PGSC0003DMG400011950' => 'stu', 'PGSC0003DMG400023391' => 'stu', 'PGSC0003DMG400023985' => 'stu', 'PGSC0003DMG400026360' => 'stu', 'PGSC0003DMG400035711' => 'stu', 'PGSC0003DMG400037286' => 'stu', 'PGSC0003DMG402005881' => 'stu', 'Phvul.002G045400' => 'pvu', 'Phvul.006G216600' => 'pvu', 'Phvul.006G216700' => 'pvu', 'Phvul.006G216800' => 'pvu', 'Phvul.007G022500' => 'pvu', 'Phvul.011G094400' => 'pvu', 'Potri.001G470700' => 'ptr', 'Potri.003G015200' => 'ptr', 'Potri.004G202500' => 'ptr', 'Potri.004G218400' => 'ptr', 'Potri.008G020100' => 'ptr', 'Potri.008G153200' => 'ptr', 'Potri.009G163800' => 'ptr', 'Potri.010G087300' => 'ptr', 'Potri.010G239100' => 'ptr', 'Pp3c10_16100' => 'ppa', 'Pp3c10_16880' => 'ppa', 'Pp3c16_6230' => 'ppa', 'Pp3c17_18910' => 'ppa', 'Pp3c3_22119' => 'ppa', 'Pp3c3_22140' => 'ppa', 'Pp3c4_8159' => 'ppa', 'Pp3c4_8171' => 'ppa', 'Pp3c4_8330' => 'ppa', 'PRCOL_00004098' => 'pco', 'Prupe.1G013900' => 'ppe', 'Prupe.1G226300' => 'ppe', 'Prupe.1G573600' => 'ppe', 'Prupe.6G130100' => 'ppe', 'Psat3g090040' => 'psa', 'Psat4g210440' => 'psa', 'Psat6g231040' => 'psa', 'Psat6g231080' => 'psa', 'Psat7g063000' => 'psa', 'Psat7g188000' => 'psa', 'Psat7g188040' => 'psa', 'PSO017G0206' => 'pso', 'PSO170G0501' => 'pso', 'PSO170G6422' => 'pso', 'PSO210G7739' => 'pso', 'PSO339G1808' => 'pso', 'PSO339G6135' => 'pso', 'PSO384G0010' => 'pso', 'PSO384G0964' => 'pso', 'PSO761G0050' => 'pso', 'PSO782G4085' => 'pso', 'QL01p012264' => 'qlo', 'QL02p099491' => 'qlo', 'QL03p033868' => 'qlo', 'QL04p046678' => 'qlo', 'QL06p002448' => 'qlo', 'RcHm_v2.0_Chr4g0416181' => 'rch', 'RcHm_v2.0_Chr5g0044701' => 'rch', 'RcHm_v2.0_Chr6g0265781' => 'rch', 'RcHm_v2.0_Chr7g0221031' => 'rch', 'Rhsim04G0202000' => 'rsi', 'Rhsim11G0127300' => 'rsi', 'Rhsim13G0111800' => 'rsi', 'Sabra01G0165600' => 'sbr', 'Sabra03G0008300' => 'sbr', 'Sabra04G0136900' => 'sbr', 'Sabra08G0013400' => 'sbr', 'Sabra08G0116800' => 'sbr', 'Sabra09G0128000' => 'sbr', 'Sabra10G0055500' => 'sbr', 'Sabra10G0073300' => 'sbr', 'SalBow3G0385' => 'sbo', 'SalBow3G1119' => 'sbo', 'SalBow3G2005' => 'sbo', 'SalBow6G2563' => 'sbo', 'SalBow6G6386' => 'sbo', 'Sc06g0008800' => 'sci', 'Sc07g0004950' => 'sci', 'Sc09g0005340' => 'sci', 'Sc13g0004410' => 'sci', 'Sc21g0007090' => 'sci', 'Sed0009285' => 'sed', 'Sed0017583' => 'sed', 'Sed0019699' => 'sed', 'Sed0023107' => 'sed', 'SEGI_10916' => 'sgi', 'SEGI_16217' => 'sgi', 'SEGI_19466' => 'sgi', 'SEGI_41115' => 'sgi', 'SGA_v2.0_scaffold111G31534' => 'sas', 'SGA_v2.0_scaffold22G09864' => 'sas', 'SGA_v2.0_scaffold338G49219' => 'sas', 'SGA_v2.0_scaffold92G28298' => 'sas', 'SMO119G0064' => 'smo', 'SMO223G0038' => 'smo', 'SMO347G0584' => 'smo', 'SMO351G0010' => 'smo', 'SMO356G0404' => 'smo', 'Solyc01g103920.3' => 'sly', 'Solyc04g009710.2' => 'sly', 'Solyc05g055280.2' => 'sly', 'Solyc10g044520.3' => 'sly', 'Solyc10g075160.1' => 'sly', 'Solyc11g006910.3' => 'sly', 'Solyc11g068430.3' => 'sly', 'Sopen01g046310' => 'spe', 'Sopen03g001200' => 'spe', 'Sopen04g004830' => 'spe', 'Sopen05g033720' => 'spe', 'Sopen06g030740' => 'spe', 'Sopen10g013090' => 'spe', 'Sopen10g027630' => 'spe', 'Sopen10g027640' => 'spe', 'Sopen11g002820' => 'spe', 'Sopen11g027140' => 'spe', 'Sp1g09680' => 'spa', 'Sp2g03630' => 'spa', 'Sp4g10320' => 'spa', 'Sp6g33400' => 'spa', 'Sp7g13030' => 'spa', 'TAR365G0317' => 'tar', 'TAR376G0979' => 'tar', 'TAR623G1665' => 'tar', 'TAR633G2373' => 'tar', 'TAR636G1400' => 'tar', 'THA.LOC104800529' => 'tha', 'THA.LOC104808547' => 'tha', 'THA.LOC104809615' => 'tha', 'THA.LOC104815724' => 'tha', 'THA.LOC104818480' => 'tha', 'THA.LOC104819179' => 'tha', 'THA.LOC104822270' => 'tha', 'THA.LOC104826425' => 'tha', 'Thecc.02G089700' => 'tca', 'Thecc.04G232300' => 'tca', 'Thecc.09G283400' => 'tca', 'Thhalv10009020m.g' => 'esa', 'Thhalv10015506m.g' => 'esa', 'Thhalv10017364m.g' => 'esa', 'Thhalv10023742m.g' => 'esa', 'Thhalv10026483m.g' => 'esa', 'TPR.G17232' => 'tpr', 'TPR.G2133' => 'tpr', 'TPR.G2498' => 'tpr', 'TPR.G31942' => 'tpr', 'TPR.G37877' => 'tpr', 'TPR.G4571' => 'tpr', 'TWI14G1113' => 'twi', 'TWI15G0426' => 'twi', 'TWI31G1005' => 'twi', 'TWI38G0513' => 'twi', 'TWI38G1484' => 'twi', 'TWI73G1098' => 'twi', 'unitig_26.g10519' => 'ugi', 'unitig_736.g22395' => 'ugi', 'unitig_747.g21234' => 'ugi', 'unitig_747.g21942' => 'ugi', 'vmacro14351' => 'vma', 'VMungo0540G0082' => 'vmu', 'VMungo0540G0405' => 'vmu', 'VMungo0540G1486' => 'vmu', 'VMungo0540G1692' => 'vmu', 'VMungo0720G2473' => 'vmu', 'VMungo1127G1562' => 'vmu', 'VMungo1215G1918' => 'vmu', 'Zm00001eb052650' => 'zma', 'Zm00001eb063710' => 'zma', 'Zm00001eb083950' => 'zma', 'Zm00001eb174420' => 'zma', 'Zm00001eb260140' => 'zma', 'Zm00001eb260150' => 'zma', 'Zm00001eb260160' => 'zma', 'Zm00001eb348290' => 'zma', 'Zm00001eb366870' => 'zma', 'Zm00001eb421930' => 'zma' ), 'gf_id' => 'HOM05D001025', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001025' ), 'data_identifier' => 'HOM05D001025', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001025', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '592', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p22650' => 'bna', 'A01p29720' => 'bna', 'A03p26560' => 'bna', 'A03p68820' => 'bna', 'A04p20980' => 'bna', 'A06p07730' => 'bna', 'A07p18260' => 'bna', 'A08p33710' => 'bna', 'A09p16970' => 'bna', 'A10p27490' => 'bna', 'Aa31LG1G17300' => 'aar', 'Aa31LG1G3910' => 'aar', 'Aa31LG2G9630' => 'aar', 'Aa31LG5G8360' => 'aar', 'Aa31LG9G2410' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4699' => 'aag', 'Actinidia23512' => 'ach', 'Actinidia37080' => 'ach', 'Ah.01g020380' => 'amhyb', 'Ah.08g215710' => 'amhyb', 'Ah.09g225110' => 'amhyb', 'Ah.10g036680' => 'amhyb', 'AL1G21940' => 'aly', 'AL2G15540' => 'aly', 'AL4G21520' => 'aly', 'AL7G40960' => 'aly', 'Aqoxy2G01191' => 'aox', 'Aqoxy2G03393' => 'aox', 'Aqoxy4G02775' => 'aox', 'Aqoxy6G00058' => 'aox', 'arahy.Tifrunner.gnm1.ann1.9X74H2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CW3FX9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R485W7' => 'arhy', 'AT1G10960' => 'ath', 'AT1G60950' => 'ath', 'AT2G27510' => 'ath', 'AT4G14890' => 'ath', 'AT5G10000' => 'ath', 'ATR0665G624' => 'atr', 'ATR0697G138' => 'atr', 'ATR0776G046' => 'atr', 'ATR1134G135' => 'atr', 'Atru.chr12.1025' => 'acertr', 'Atru.chr3.3241' => 'acertr', 'Atru.chr4.2460' => 'acertr', 'AUR62007427' => 'cqu', 'AUR62010960' => 'cqu', 'AUR62012201' => 'cqu', 'AUR62021470' => 'cqu', 'AUR62022834' => 'cqu', 'AUR62033635' => 'cqu', 'AUR62036186' => 'cqu', 'BcaB01g03077' => 'bca', 'BcaB02g10093' => 'bca', 'BcaB04g20295' => 'bca', 'BcaB06g28147' => 'bca', 'BcaB07g31253' => 'bca', 'BcaC01g04946' => 'bca', 'BcaC02g10614' => 'bca', 'BcaC02g10885' => 'bca', 'BcaC04g19356' => 'bca', 'BcaC04g22297' => 'bca', 'BcaC05g24977' => 'bca', 'BcaC06g31823' => 'bca', 'BcaC07g38633' => 'bca', 'BcaC09g49353' => 'bca', 'BcaC09g50168' => 'bca', 'BcaNung00322' => 'bca', 'BcaNung04769' => 'bca', 'BolC1t02753H' => 'bol', 'BolC1t03721H' => 'bol', 'BolC3t15525H' => 'bol', 'BolC4t23903H' => 'bol', 'BolC4t24231H' => 'bol', 'BolC4t27209H' => 'bol', 'BolC5t29671H' => 'bol', 'BolC8t49044H' => 'bol', 'BolC9t54999H' => 'bol', 'BolC9t59517H' => 'bol', 'BraA01t02178Z' => 'bra', 'BraA01t03099Z' => 'bra', 'BraA03t11867Z' => 'bra', 'BraA04t17667Z' => 'bra', 'BraA07t29542Z' => 'bra', 'BraA08t35287Z' => 'bra', 'BraA09t37334Z' => 'bra', 'BraA10t44801Z' => 'bra', 'BraSC39t46181Z' => 'bra', 'C01p28240' => 'bna', 'C01p37530' => 'bna', 'C03p31820' => 'bna', 'C04p24080' => 'bna', 'C04p25790' => 'bna', 'C04p56770' => 'bna', 'C05p09310' => 'bna', 'C09p21010' => 'bna', 'C09p67560' => 'bna', 'CAN.G1324.7' => 'can', 'CAN.G1358.10' => 'can', 'CAN.G1550.2' => 'can', 'CAN.G186.56' => 'can', 'CAN.G1965.1' => 'can', 'CAN.G645.15' => 'can', 'CAN.G798.26' => 'can', 'CAN.G798.27' => 'can', 'CAN.G798.29' => 'can', 'CAN.G919.31' => 'can', 'CANSAT11G0133' => 'cansat', 'CANSAT11G1171' => 'cansat', 'CANSAT11G2056' => 'cansat', 'CANSAT56G1202' => 'cansat', 'CANSAT56G1514' => 'cansat', 'CANSAT78G0455' => 'cansat', 'CARHR011190' => 'chi', 'CARHR051980' => 'chi', 'CARHR120170' => 'chi', 'CARHR203310' => 'chi', 'CARHR221490' => 'chi', 'Carub.0001s1054' => 'cru', 'Carub.0002s0431' => 'cru', 'Carub.0004s0818' => 'cru', 'Carub.0006s0846' => 'cru', 'Carub.0007s2722' => 'cru', 'Ca_00058_v3' => 'car', 'Ca_17831_v3' => 'car', 'Ca_19408_v3' => 'car', 'Ca_24397_v3' => 'car', 'Ca_25664_v3' => 'car', 'CBR_g21818' => 'cbr', 'CBR_g31195' => 'cbr', 'CBR_g32282' => 'cbr', 'CBR_g39599' => 'cbr', 'CBR_g49410' => 'cbr', 'Cc01_g09120' => 'ccan', 'Cc01_g09130' => 'ccan', 'Cc02_g09630' => 'ccan', 'Cc02_g22810' => 'ccan', 'Cc03_g03810' => 'ccan', 'CDE02G3718' => 'cde', 'CDE04G3183' => 'cde', 'CDE07G1046' => 'cde', 'CDE08G0480' => 'cde', 'Cfa005493' => 'cfa', 'Cfa010312' => 'cfa', 'Cfa015648' => 'cfa', 'Ciclev10002793m.g' => 'ccl', 'Ciclev10003356m.g' => 'ccl', 'Ciclev10006141m.g' => 'ccl', 'Ciclev10016676m.g' => 'ccl', 'Ciclev10017081m.g' => 'ccl', 'Ciclev10029499m.g' => 'ccl', 'CiPaw.01G166300' => 'cil', 'CiPaw.06G145600' => 'cil', 'CiPaw.13G040100' => 'cil', 'CiPaw.13G135800' => 'cil', 'ClCG01G012230' => 'cla', 'ClCG05G009510' => 'cla', 'ClCG08G008270' => 'cla', 'COL.COLO4_11763' => 'col', 'COL.COLO4_19876' => 'col', 'COL.COLO4_21481' => 'col', 'Cpa.g.sc118.34' => 'cpa', 'Cpa.g.sc32.13' => 'cpa', 'Cpa.g.sc58.103' => 'cpa', 'Cre03.g183850' => 'cre', 'Cre06.g306350' => 'cre', 'Cre07.g334800' => 'cre', 'Cre12.g487900' => 'cre', 'Cre14.g626700' => 'cre', 'Cre16.g658400' => 'cre', 'Cre17.g700950' => 'cre', 'CsaV3_1G014830' => 'csa', 'CsaV3_3G013320' => 'csa', 'CsaV3_3G019210' => 'csa', 'CsaV3_3G019220' => 'csa', 'CsaV3_6G004230' => 'csa', 'CSS0003773' => 'camsi', 'CSS0004563' => 'camsi', 'CSS0013949' => 'camsi', 'CSS0025971' => 'camsi', 'CSS0028570' => 'camsi', 'CSS0033127' => 'camsi', 'CSS0036051' => 'camsi', 'CSS0040087' => 'camsi', 'CSS0043179' => 'camsi', 'DCAR_006161' => 'dca', 'DCAR_010351' => 'dca', 'DCAR_012197' => 'dca', 'DCAR_024162' => 'dca', 'Dinv01030' => 'din', 'Dinv10924' => 'din', 'Dinv11835' => 'din', 'Dinv22841' => 'din', 'Dinv42553' => 'din', 'Duzib052G0560' => 'dzi', 'Duzib132G0389' => 'dzi', 'Duzib150G1181' => 'dzi', 'Duzib168G0623' => 'dzi', 'Duzib170G1036' => 'dzi', 'Duzib212G0200' => 'dzi', 'Duzib248G0194' => 'dzi', 'ECA232G2193' => 'eca', 'ECA233G0302' => 'eca', 'ECA234G2813' => 'eca', 'ECA234G4866' => 'eca', 'ECA240G3932' => 'eca', 'ECA248G0385' => 'eca', 'EL10Ac2g04781' => 'bvu', 'EL10Ac3g06445' => 'bvu', 'EL10Ac7g15825' => 'bvu', 'EL10Ac8g18550' => 'bvu', 'Eucgr.B03849' => 'egr', 'Eucgr.I02744' => 'egr', 'Eucgr.J00264' => 'egr', 'Eucgr.J00493' => 'egr', 'FAN04G2181' => 'fan', 'FAN07G2666' => 'fan', 'FAN11G0024' => 'fan', 'FAN12G1105' => 'fan', 'FAN13G0302' => 'fan', 'FAN15G2781' => 'fan', 'FAN16G1274' => 'fan', 'FAN17G2988' => 'fan', 'FAN18G2621' => 'fan', 'FAN21G0013' => 'fan', 'FAN22G1211' => 'fan', 'FAN25G3626' => 'fan', 'FvH4_2g09491' => 'fve', 'FvH4_3g24910' => 'fve', 'FvH4_4g15630' => 'fve', 'FvH4_5g28820' => 'fve', 'Glyma.01G238000' => 'gma', 'Glyma.05G168400' => 'gma', 'Glyma.08G126800' => 'gma', 'Glyma.08G188500' => 'gma', 'Glyma.10G278900' => 'gma', 'Glyma.11G005700' => 'gma', 'Glyma.11G183300' => 'gma', 'Glyma.12G089200' => 'gma', 'Glyma.12G169400' => 'gma', 'Glyma.12G169500' => 'gma', 'Glyma.12G169600' => 'gma', 'Glyma.20G110800' => 'gma', 'Gohir.A03G192900' => 'ghi', 'Gohir.A03G193000' => 'ghi', 'Gohir.A05G080700' => 'ghi', 'Gohir.A09G216000' => 'ghi', 'Gohir.A12G027700' => 'ghi', 'Gohir.A13G036200' => 'ghi', 'Gohir.A13G222600' => 'ghi', 'Gohir.D02G213900' => 'ghi', 'Gohir.D02G214000' => 'ghi', 'Gohir.D05G083700' => 'ghi', 'Gohir.D05G083800' => 'ghi', 'Gohir.D05G083850' => 'ghi', 'Gohir.D08G015400' => 'ghi', 'Gohir.D09G218400' => 'ghi', 'Gohir.D12G027100' => 'ghi', 'Gohir.D13G034500' => 'ghi', 'Gohir.D13G227400' => 'ghi', 'Gorai.005G241800' => 'gra', 'Gorai.005G241900' => 'gra', 'Gorai.006G239400' => 'gra', 'Gorai.008G027600' => 'gra', 'Gorai.009G085400' => 'gra', 'Gorai.009G085500' => 'gra', 'Gorai.013G039000' => 'gra', 'Gorai.013G194800' => 'gra', 'Gorai.013G257900' => 'gra', 'GSVIVG01000982001' => 'vvi', 'GSVIVG01017981001' => 'vvi', 'HanXRQChr01g0024061' => 'han', 'HanXRQChr09g0247831' => 'han', 'HanXRQChr10g0294611' => 'han', 'HanXRQChr10g0294621' => 'han', 'HanXRQChr11g0346821' => 'han', 'HanXRQChr13g0397461' => 'han', 'HanXRQChr16g0513651' => 'han', 'HanXRQChr16g0513701' => 'han', 'Haze_00897' => 'cav', 'Haze_01745' => 'cav', 'Haze_02486' => 'cav', 'Haze_02487' => 'cav', 'Haze_23374' => 'cav', 'Hma1.2p1_0578F.1_g182520' => 'hma', 'Hma1.2p1_0602F.1_g187350' => 'hma', 'Hma1.2p1_0602F.1_g187360' => 'hma', 'Hma1.2p1_0874F.1_g231320' => 'hma', 'Hma1.2p1_1197F.1_g266210' => 'hma', 'Hma1.2p1_1197F.1_g266220' => 'hma', 'Hma1.2p1_2167F.1_g315895' => 'hma', 'Hma1.2p1_2190F.1_g316640' => 'hma', 'Hma1.2p1_3645F.1_g337153' => 'hma', 'HPP92_004907' => 'vpl', 'HPP92_012134' => 'vpl', 'HPP92_025136' => 'vpl', 'HPP92_026087' => 'vpl', 'Hund06782' => 'sun', 'Hund06784' => 'sun', 'Lalb_Chr01g0004861' => 'lal', 'Lalb_Chr02g0140591' => 'lal', 'Lalb_Chr02g0140611' => 'lal', 'Lalb_Chr03g0028101' => 'lal', 'Lalb_Chr07g0185791' => 'lal', 'Lalb_Chr12g0204491' => 'lal', 'Lalb_Chr13g0295671' => 'lal', 'Lalb_Chr19g0136461' => 'lal', 'Lalb_Chr21g0309191' => 'lal', 'Lj1g0028158' => 'lja', 'Lj1P236T38' => 'lonja', 'Lj2C32G2' => 'lonja', 'Lj2P944T8' => 'lonja', 'Lj2P963T15' => 'lonja', 'Lj3g0011788' => 'lja', 'Lj4g0025027' => 'lja', 'Lj5P255T36' => 'lonja', 'Lj6g0018866' => 'lja', 'Lj6P608T31' => 'lonja', 'LjContig00408g0008879' => 'lja', 'Lsat_1_v5_gn_5_105820' => 'lsa', 'Lsat_1_v5_gn_6_38800' => 'lsa', 'Lsat_1_v5_gn_7_67141' => 'lsa', 'Manes.04G003400' => 'mes', 'Manes.07G020000' => 'mes', 'Manes.07G020100' => 'mes', 'Manes.07G020150' => 'mes', 'Manes.10G061500' => 'mes', 'Manes.10G123200' => 'mes', 'Manes.11G161900' => 'mes', 'Manes.15G029300' => 'mes', 'Mapoly0071s0018' => 'mpo', 'Mapoly0082s0023' => 'mpo', 'Mapoly3477s0001' => 'mpo', 'MBI05_g31233_MAGBIO' => 'mbi', 'MBI09_g05946_MAGBIO' => 'mbi', 'MBI09_g05947_MAGBIO' => 'mbi', 'MBI17_g08346_MAGBIO' => 'mbi', 'MCO04G038' => 'mco', 'MCO09G370' => 'mco', 'MCO13G605' => 'mco', 'MD00G1075500' => 'mdo', 'MD03G1144300' => 'mdo', 'MD08G1236800' => 'mdo', 'MD13G1193300' => 'mdo', 'MD15G1428700' => 'mdo', 'Medtr1g112030' => 'mtr', 'Medtr1g112050' => 'mtr', 'Medtr2g006290' => 'mtr', 'Medtr2g086510' => 'mtr', 'Medtr4g053120' => 'mtr', 'Medtr5g006320' => 'mtr', 'Medtr8g088720' => 'mtr', 'MELO3C004712.2' => 'cme', 'MELO3C006533.2' => 'cme', 'MELO3C019438.2' => 'cme', 'MELO3C019440.2' => 'cme', 'MELO3C019441.2' => 'cme', 'MELO3C019895.2' => 'cme', 'Migut.B00811' => 'egut', 'Migut.D02447' => 'egut', 'Migut.F00875' => 'egut', 'Migut.N00186' => 'egut', 'Migut.N01051' => 'egut', 'Migut.N02491' => 'egut', 'Migut.O00784' => 'egut', 'MSTRG.12367' => 'ama', 'MSTRG.18756' => 'ama', 'MSTRG.21042' => 'ama', 'Nitab4.5_0000559g0040' => 'nta', 'Nitab4.5_0000667g0190' => 'nta', 'Nitab4.5_0000755g0160' => 'nta', 'Nitab4.5_0001216g0080' => 'nta', 'Nitab4.5_0004069g0040' => 'nta', 'Nitab4.5_0004129g0010' => 'nta', 'Nitab4.5_0005744g0030' => 'nta', 'Nitab4.5_0006996g0030' => 'nta', 'Nitab4.5_0008971g0040' => 'nta', 'Nitab4.5_0009769g0020' => 'nta', 'Nitab4.5_0009833g0010' => 'nta', 'Nitab4.5_0013140g0020' => 'nta', 'Nn003s41376' => 'nnu', 'Nn1g01857' => 'nnu', 'Nn1g03611' => 'nnu', 'Nn1g06853' => 'nnu', 'Nn3g18360' => 'nnu', 'Nn4g26328' => 'nnu', 'Nn5g27531' => 'nnu', 'Nn6g34899' => 'nnu', 'Nn7g36299' => 'nnu', 'Oeu021485.1' => 'oeu', 'Oeu022433.1' => 'oeu', 'Oeu032111.1' => 'oeu', 'Oeu051608.1' => 'oeu', 'Os01g0860601' => 'osa', 'Os03g0659200' => 'osa', 'Os03g0835900' => 'osa', 'Os04g0412200' => 'osa', 'Os05g0443500' => 'osa', 'Os07g0251500' => 'osa', 'Os08g0104600' => 'osa', 'Peaxi162Scf00003g00047' => 'pax', 'Peaxi162Scf00003g00052' => 'pax', 'Peaxi162Scf00003g00394' => 'pax', 'Peaxi162Scf00091g00621' => 'pax', 'Peaxi162Scf00152g00146' => 'pax', 'Peaxi162Scf00173g00025' => 'pax', 'Peaxi162Scf00195g00102' => 'pax', 'Peaxi162Scf00402g00013' => 'pax', 'Peaxi162Scf00519g00618' => 'pax', 'PGR004G2838' => 'pgr', 'PGR044G2275' => 'pgr', 'PGR102G1377' => 'pgr', 'PGR119G1245' => 'pgr', 'PGR142G4449' => 'pgr', 'PGSC0003DMG400004532' => 'stu', 'PGSC0003DMG400011950' => 'stu', 'PGSC0003DMG400023391' => 'stu', 'PGSC0003DMG400023985' => 'stu', 'PGSC0003DMG400026360' => 'stu', 'PGSC0003DMG400035711' => 'stu', 'PGSC0003DMG400037286' => 'stu', 'PGSC0003DMG402005881' => 'stu', 'Phvul.002G045400' => 'pvu', 'Phvul.006G216600' => 'pvu', 'Phvul.006G216700' => 'pvu', 'Phvul.006G216800' => 'pvu', 'Phvul.007G022500' => 'pvu', 'Phvul.011G094400' => 'pvu', 'Potri.001G470700' => 'ptr', 'Potri.003G015200' => 'ptr', 'Potri.004G202500' => 'ptr', 'Potri.004G218400' => 'ptr', 'Potri.008G020100' => 'ptr', 'Potri.008G153200' => 'ptr', 'Potri.009G163800' => 'ptr', 'Potri.010G087300' => 'ptr', 'Potri.010G239100' => 'ptr', 'Pp3c10_16100' => 'ppa', 'Pp3c10_16880' => 'ppa', 'Pp3c16_6230' => 'ppa', 'Pp3c17_18910' => 'ppa', 'Pp3c3_22119' => 'ppa', 'Pp3c3_22140' => 'ppa', 'Pp3c4_8159' => 'ppa', 'Pp3c4_8171' => 'ppa', 'Pp3c4_8330' => 'ppa', 'PRCOL_00004098' => 'pco', 'Prupe.1G013900' => 'ppe', 'Prupe.1G226300' => 'ppe', 'Prupe.1G573600' => 'ppe', 'Prupe.6G130100' => 'ppe', 'Psat3g090040' => 'psa', 'Psat4g210440' => 'psa', 'Psat6g231040' => 'psa', 'Psat6g231080' => 'psa', 'Psat7g063000' => 'psa', 'Psat7g188000' => 'psa', 'Psat7g188040' => 'psa', 'PSO017G0206' => 'pso', 'PSO170G0501' => 'pso', 'PSO170G6422' => 'pso', 'PSO210G7739' => 'pso', 'PSO339G1808' => 'pso', 'PSO339G6135' => 'pso', 'PSO384G0010' => 'pso', 'PSO384G0964' => 'pso', 'PSO761G0050' => 'pso', 'PSO782G4085' => 'pso', 'QL01p012264' => 'qlo', 'QL02p099491' => 'qlo', 'QL03p033868' => 'qlo', 'QL04p046678' => 'qlo', 'QL06p002448' => 'qlo', 'RcHm_v2.0_Chr4g0416181' => 'rch', 'RcHm_v2.0_Chr5g0044701' => 'rch', 'RcHm_v2.0_Chr6g0265781' => 'rch', 'RcHm_v2.0_Chr7g0221031' => 'rch', 'Rhsim04G0202000' => 'rsi', 'Rhsim11G0127300' => 'rsi', 'Rhsim13G0111800' => 'rsi', 'Sabra01G0165600' => 'sbr', 'Sabra03G0008300' => 'sbr', 'Sabra04G0136900' => 'sbr', 'Sabra08G0013400' => 'sbr', 'Sabra08G0116800' => 'sbr', 'Sabra09G0128000' => 'sbr', 'Sabra10G0055500' => 'sbr', 'Sabra10G0073300' => 'sbr', 'SalBow3G0385' => 'sbo', 'SalBow3G1119' => 'sbo', 'SalBow3G2005' => 'sbo', 'SalBow6G2563' => 'sbo', 'SalBow6G6386' => 'sbo', 'Sc06g0008800' => 'sci', 'Sc07g0004950' => 'sci', 'Sc09g0005340' => 'sci', 'Sc13g0004410' => 'sci', 'Sc21g0007090' => 'sci', 'Sed0009285' => 'sed', 'Sed0017583' => 'sed', 'Sed0019699' => 'sed', 'Sed0023107' => 'sed', 'SEGI_10916' => 'sgi', 'SEGI_16217' => 'sgi', 'SEGI_19466' => 'sgi', 'SEGI_41115' => 'sgi', 'SGA_v2.0_scaffold111G31534' => 'sas', 'SGA_v2.0_scaffold22G09864' => 'sas', 'SGA_v2.0_scaffold338G49219' => 'sas', 'SGA_v2.0_scaffold92G28298' => 'sas', 'SMO119G0064' => 'smo', 'SMO223G0038' => 'smo', 'SMO347G0584' => 'smo', 'SMO351G0010' => 'smo', 'SMO356G0404' => 'smo', 'Solyc01g103920.3' => 'sly', 'Solyc04g009710.2' => 'sly', 'Solyc05g055280.2' => 'sly', 'Solyc10g044520.3' => 'sly', 'Solyc10g075160.1' => 'sly', 'Solyc11g006910.3' => 'sly', 'Solyc11g068430.3' => 'sly', 'Sopen01g046310' => 'spe', 'Sopen03g001200' => 'spe', 'Sopen04g004830' => 'spe', 'Sopen05g033720' => 'spe', 'Sopen06g030740' => 'spe', 'Sopen10g013090' => 'spe', 'Sopen10g027630' => 'spe', 'Sopen10g027640' => 'spe', 'Sopen11g002820' => 'spe', 'Sopen11g027140' => 'spe', 'Sp1g09680' => 'spa', 'Sp2g03630' => 'spa', 'Sp4g10320' => 'spa', 'Sp6g33400' => 'spa', 'Sp7g13030' => 'spa', 'TAR365G0317' => 'tar', 'TAR376G0979' => 'tar', 'TAR623G1665' => 'tar', 'TAR633G2373' => 'tar', 'TAR636G1400' => 'tar', 'THA.LOC104800529' => 'tha', 'THA.LOC104808547' => 'tha', 'THA.LOC104809615' => 'tha', 'THA.LOC104815724' => 'tha', 'THA.LOC104818480' => 'tha', 'THA.LOC104819179' => 'tha', 'THA.LOC104822270' => 'tha', 'THA.LOC104826425' => 'tha', 'Thecc.02G089700' => 'tca', 'Thecc.04G232300' => 'tca', 'Thecc.09G283400' => 'tca', 'Thhalv10009020m.g' => 'esa', 'Thhalv10015506m.g' => 'esa', 'Thhalv10017364m.g' => 'esa', 'Thhalv10023742m.g' => 'esa', 'Thhalv10026483m.g' => 'esa', 'TPR.G17232' => 'tpr', 'TPR.G2133' => 'tpr', 'TPR.G2498' => 'tpr', 'TPR.G31942' => 'tpr', 'TPR.G37877' => 'tpr', 'TPR.G4571' => 'tpr', 'TWI14G1113' => 'twi', 'TWI15G0426' => 'twi', 'TWI31G1005' => 'twi', 'TWI38G0513' => 'twi', 'TWI38G1484' => 'twi', 'TWI73G1098' => 'twi', 'unitig_26.g10519' => 'ugi', 'unitig_736.g22395' => 'ugi', 'unitig_747.g21234' => 'ugi', 'unitig_747.g21942' => 'ugi', 'vmacro14351' => 'vma', 'VMungo0540G0082' => 'vmu', 'VMungo0540G0405' => 'vmu', 'VMungo0540G1486' => 'vmu', 'VMungo0540G1692' => 'vmu', 'VMungo0720G2473' => 'vmu', 'VMungo1127G1562' => 'vmu', 'VMungo1215G1918' => 'vmu', 'Zm00001eb052650' => 'zma', 'Zm00001eb063710' => 'zma', 'Zm00001eb083950' => 'zma', 'Zm00001eb174420' => 'zma', 'Zm00001eb260140' => 'zma', 'Zm00001eb260150' => 'zma', 'Zm00001eb260160' => 'zma', 'Zm00001eb348290' => 'zma', 'Zm00001eb366870' => 'zma', 'Zm00001eb421930' => 'zma' ) $gf_id = 'HOM05D001025' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001025' ) $data_identifier = 'HOM05D001025' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 19, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 2, 'amhyb' => (int) 4, 'aly' => (int) 4, 'aox' => (int) 4, 'arhy' => (int) 3, 'ath' => (int) 5, 'atr' => (int) 4, 'acertr' => (int) 3, 'cqu' => (int) 7, 'bca' => (int) 17, 'bol' => (int) 10, 'bra' => (int) 9, 'can' => (int) 10, 'cansat' => (int) 6, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 5, 'cbr' => (int) 5, 'ccan' => (int) 5, 'cde' => (int) 4, 'cfa' => (int) 3, 'ccl' => (int) 6, 'cil' => (int) 4, 'cla' => (int) 3, 'col' => (int) 3, 'cpa' => (int) 3, 'cre' => (int) 7, 'csa' => (int) 5, 'camsi' => (int) 9, 'dca' => (int) 4, 'din' => (int) 5, 'dzi' => (int) 7, 'eca' => (int) 6, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 12, 'fve' => (int) 4, 'gma' => (int) 12, 'ghi' => (int) 17, 'gra' => (int) 9, 'vvi' => (int) 2, 'han' => (int) 8, 'cav' => (int) 5, 'hma' => (int) 9, 'vpl' => (int) 4, 'sun' => (int) 2, 'lal' => (int) 9, 'lja' => (int) 5, 'lonja' => (int) 6, 'lsa' => (int) 3, 'mes' => (int) 8, 'mpo' => (int) 3, 'mbi' => (int) 4, 'mco' => (int) 3, 'mdo' => (int) 5, 'mtr' => (int) 7, 'cme' => (int) 6, 'egut' => (int) 7, 'ama' => (int) 3, 'nta' => (int) 12, 'nnu' => (int) 9, 'oeu' => (int) 4, 'osa' => (int) 7, 'pax' => (int) 9, 'pgr' => (int) 5, 'stu' => (int) 8, 'pvu' => (int) 6, 'ptr' => (int) 9, 'ppa' => (int) 9, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 7, 'pso' => (int) 10, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 3, 'sbr' => (int) 8, 'sbo' => (int) 5, 'sci' => (int) 5, 'sed' => (int) 4, 'sgi' => (int) 4, 'sas' => (int) 4, 'smo' => (int) 5, 'sly' => (int) 7, 'spe' => (int) 10, 'spa' => (int) 5, 'tar' => (int) 5, 'tha' => (int) 8, 'tca' => (int) 3, 'esa' => (int) 5, 'tpr' => (int) 6, 'twi' => (int) 6, 'ugi' => (int) 4, 'vma' => (int) 1, 'vmu' => (int) 7, 'zma' => (int) 10 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb421930' $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' => 'HOM05D001025', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '592', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p22650' => 'bna', 'A01p29720' => 'bna', 'A03p26560' => 'bna', 'A03p68820' => 'bna', 'A04p20980' => 'bna', 'A06p07730' => 'bna', 'A07p18260' => 'bna', 'A08p33710' => 'bna', 'A09p16970' => 'bna', 'A10p27490' => 'bna', 'Aa31LG1G17300' => 'aar', 'Aa31LG1G3910' => 'aar', 'Aa31LG2G9630' => 'aar', 'Aa31LG5G8360' => 'aar', 'Aa31LG9G2410' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4699' => 'aag', 'Actinidia23512' => 'ach', 'Actinidia37080' => 'ach', 'Ah.01g020380' => 'amhyb', 'Ah.08g215710' => 'amhyb', 'Ah.09g225110' => 'amhyb', 'Ah.10g036680' => 'amhyb', 'AL1G21940' => 'aly', 'AL2G15540' => 'aly', 'AL4G21520' => 'aly', 'AL7G40960' => 'aly', 'Aqoxy2G01191' => 'aox', 'Aqoxy2G03393' => 'aox', 'Aqoxy4G02775' => 'aox', 'Aqoxy6G00058' => 'aox', 'arahy.Tifrunner.gnm1.ann1.9X74H2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CW3FX9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R485W7' => 'arhy', 'AT1G10960' => 'ath', 'AT1G60950' => 'ath', 'AT2G27510' => 'ath', 'AT4G14890' => 'ath', 'AT5G10000' => 'ath', 'ATR0665G624' => 'atr', 'ATR0697G138' => 'atr', 'ATR0776G046' => 'atr', 'ATR1134G135' => 'atr', 'Atru.chr12.1025' => 'acertr', 'Atru.chr3.3241' => 'acertr', 'Atru.chr4.2460' => 'acertr', 'AUR62007427' => 'cqu', 'AUR62010960' => 'cqu', 'AUR62012201' => 'cqu', 'AUR62021470' => 'cqu', 'AUR62022834' => 'cqu', 'AUR62033635' => 'cqu', 'AUR62036186' => 'cqu', 'BcaB01g03077' => 'bca', 'BcaB02g10093' => 'bca', 'BcaB04g20295' => 'bca', 'BcaB06g28147' => 'bca', 'BcaB07g31253' => 'bca', 'BcaC01g04946' => 'bca', 'BcaC02g10614' => 'bca', 'BcaC02g10885' => 'bca', 'BcaC04g19356' => 'bca', 'BcaC04g22297' => 'bca', 'BcaC05g24977' => 'bca', 'BcaC06g31823' => 'bca', 'BcaC07g38633' => 'bca', 'BcaC09g49353' => 'bca', 'BcaC09g50168' => 'bca', 'BcaNung00322' => 'bca', 'BcaNung04769' => 'bca', 'BolC1t02753H' => 'bol', 'BolC1t03721H' => 'bol', 'BolC3t15525H' => 'bol', 'BolC4t23903H' => 'bol', 'BolC4t24231H' => 'bol', 'BolC4t27209H' => 'bol', 'BolC5t29671H' => 'bol', 'BolC8t49044H' => 'bol', 'BolC9t54999H' => 'bol', 'BolC9t59517H' => 'bol', 'BraA01t02178Z' => 'bra', 'BraA01t03099Z' => 'bra', 'BraA03t11867Z' => 'bra', 'BraA04t17667Z' => 'bra', 'BraA07t29542Z' => 'bra', 'BraA08t35287Z' => 'bra', 'BraA09t37334Z' => 'bra', 'BraA10t44801Z' => 'bra', 'BraSC39t46181Z' => 'bra', 'C01p28240' => 'bna', 'C01p37530' => 'bna', 'C03p31820' => 'bna', 'C04p24080' => 'bna', 'C04p25790' => 'bna', 'C04p56770' => 'bna', 'C05p09310' => 'bna', 'C09p21010' => 'bna', 'C09p67560' => 'bna', 'CAN.G1324.7' => 'can', 'CAN.G1358.10' => 'can', 'CAN.G1550.2' => 'can', 'CAN.G186.56' => 'can', 'CAN.G1965.1' => 'can', 'CAN.G645.15' => 'can', 'CAN.G798.26' => 'can', 'CAN.G798.27' => 'can', 'CAN.G798.29' => 'can', 'CAN.G919.31' => 'can', 'CANSAT11G0133' => 'cansat', 'CANSAT11G1171' => 'cansat', 'CANSAT11G2056' => 'cansat', 'CANSAT56G1202' => 'cansat', 'CANSAT56G1514' => 'cansat', 'CANSAT78G0455' => 'cansat', 'CARHR011190' => 'chi', 'CARHR051980' => 'chi', 'CARHR120170' => 'chi', 'CARHR203310' => 'chi', 'CARHR221490' => 'chi', 'Carub.0001s1054' => 'cru', 'Carub.0002s0431' => 'cru', 'Carub.0004s0818' => 'cru', 'Carub.0006s0846' => 'cru', 'Carub.0007s2722' => 'cru', 'Ca_00058_v3' => 'car', 'Ca_17831_v3' => 'car', 'Ca_19408_v3' => 'car', 'Ca_24397_v3' => 'car', 'Ca_25664_v3' => 'car', 'CBR_g21818' => 'cbr', 'CBR_g31195' => 'cbr', 'CBR_g32282' => 'cbr', 'CBR_g39599' => 'cbr', 'CBR_g49410' => 'cbr', 'Cc01_g09120' => 'ccan', 'Cc01_g09130' => 'ccan', 'Cc02_g09630' => 'ccan', 'Cc02_g22810' => 'ccan', 'Cc03_g03810' => 'ccan', 'CDE02G3718' => 'cde', 'CDE04G3183' => 'cde', 'CDE07G1046' => 'cde', 'CDE08G0480' => 'cde', 'Cfa005493' => 'cfa', 'Cfa010312' => 'cfa', 'Cfa015648' => 'cfa', 'Ciclev10002793m.g' => 'ccl', 'Ciclev10003356m.g' => 'ccl', 'Ciclev10006141m.g' => 'ccl', 'Ciclev10016676m.g' => 'ccl', 'Ciclev10017081m.g' => 'ccl', 'Ciclev10029499m.g' => 'ccl', 'CiPaw.01G166300' => 'cil', 'CiPaw.06G145600' => 'cil', 'CiPaw.13G040100' => 'cil', 'CiPaw.13G135800' => 'cil', 'ClCG01G012230' => 'cla', 'ClCG05G009510' => 'cla', 'ClCG08G008270' => 'cla', 'COL.COLO4_11763' => 'col', 'COL.COLO4_19876' => 'col', 'COL.COLO4_21481' => 'col', 'Cpa.g.sc118.34' => 'cpa', 'Cpa.g.sc32.13' => 'cpa', 'Cpa.g.sc58.103' => 'cpa', 'Cre03.g183850' => 'cre', 'Cre06.g306350' => 'cre', 'Cre07.g334800' => 'cre', 'Cre12.g487900' => 'cre', 'Cre14.g626700' => 'cre', 'Cre16.g658400' => 'cre', 'Cre17.g700950' => 'cre', 'CsaV3_1G014830' => 'csa', 'CsaV3_3G013320' => 'csa', 'CsaV3_3G019210' => 'csa', 'CsaV3_3G019220' => 'csa', 'CsaV3_6G004230' => 'csa', 'CSS0003773' => 'camsi', 'CSS0004563' => 'camsi', 'CSS0013949' => 'camsi', 'CSS0025971' => 'camsi', 'CSS0028570' => 'camsi', 'CSS0033127' => 'camsi', 'CSS0036051' => 'camsi', 'CSS0040087' => 'camsi', 'CSS0043179' => 'camsi', 'DCAR_006161' => 'dca', 'DCAR_010351' => 'dca', 'DCAR_012197' => 'dca', 'DCAR_024162' => 'dca', 'Dinv01030' => 'din', 'Dinv10924' => 'din', 'Dinv11835' => 'din', 'Dinv22841' => 'din', 'Dinv42553' => 'din', 'Duzib052G0560' => 'dzi', 'Duzib132G0389' => 'dzi', 'Duzib150G1181' => 'dzi', 'Duzib168G0623' => 'dzi', 'Duzib170G1036' => 'dzi', 'Duzib212G0200' => 'dzi', 'Duzib248G0194' => 'dzi', 'ECA232G2193' => 'eca', 'ECA233G0302' => 'eca', 'ECA234G2813' => 'eca', 'ECA234G4866' => 'eca', 'ECA240G3932' => 'eca', 'ECA248G0385' => 'eca', 'EL10Ac2g04781' => 'bvu', 'EL10Ac3g06445' => 'bvu', 'EL10Ac7g15825' => 'bvu', 'EL10Ac8g18550' => 'bvu', 'Eucgr.B03849' => 'egr', 'Eucgr.I02744' => 'egr', 'Eucgr.J00264' => 'egr', 'Eucgr.J00493' => 'egr', 'FAN04G2181' => 'fan', 'FAN07G2666' => 'fan', 'FAN11G0024' => 'fan', 'FAN12G1105' => 'fan', 'FAN13G0302' => 'fan', 'FAN15G2781' => 'fan', 'FAN16G1274' => 'fan', 'FAN17G2988' => 'fan', 'FAN18G2621' => 'fan', 'FAN21G0013' => 'fan', 'FAN22G1211' => 'fan', 'FAN25G3626' => 'fan', 'FvH4_2g09491' => 'fve', 'FvH4_3g24910' => 'fve', 'FvH4_4g15630' => 'fve', 'FvH4_5g28820' => 'fve', 'Glyma.01G238000' => 'gma', 'Glyma.05G168400' => 'gma', 'Glyma.08G126800' => 'gma', 'Glyma.08G188500' => 'gma', 'Glyma.10G278900' => 'gma', 'Glyma.11G005700' => 'gma', 'Glyma.11G183300' => 'gma', 'Glyma.12G089200' => 'gma', 'Glyma.12G169400' => 'gma', 'Glyma.12G169500' => 'gma', 'Glyma.12G169600' => 'gma', 'Glyma.20G110800' => 'gma', 'Gohir.A03G192900' => 'ghi', 'Gohir.A03G193000' => 'ghi', 'Gohir.A05G080700' => 'ghi', 'Gohir.A09G216000' => 'ghi', 'Gohir.A12G027700' => 'ghi', 'Gohir.A13G036200' => 'ghi', 'Gohir.A13G222600' => 'ghi', 'Gohir.D02G213900' => 'ghi', 'Gohir.D02G214000' => 'ghi', 'Gohir.D05G083700' => 'ghi', 'Gohir.D05G083800' => 'ghi', 'Gohir.D05G083850' => 'ghi', 'Gohir.D08G015400' => 'ghi', 'Gohir.D09G218400' => 'ghi', 'Gohir.D12G027100' => 'ghi', 'Gohir.D13G034500' => 'ghi', 'Gohir.D13G227400' => 'ghi', 'Gorai.005G241800' => 'gra', 'Gorai.005G241900' => 'gra', 'Gorai.006G239400' => 'gra', 'Gorai.008G027600' => 'gra', 'Gorai.009G085400' => 'gra', 'Gorai.009G085500' => 'gra', 'Gorai.013G039000' => 'gra', 'Gorai.013G194800' => 'gra', 'Gorai.013G257900' => 'gra', 'GSVIVG01000982001' => 'vvi', 'GSVIVG01017981001' => 'vvi', 'HanXRQChr01g0024061' => 'han', 'HanXRQChr09g0247831' => 'han', 'HanXRQChr10g0294611' => 'han', 'HanXRQChr10g0294621' => 'han', 'HanXRQChr11g0346821' => 'han', 'HanXRQChr13g0397461' => 'han', 'HanXRQChr16g0513651' => 'han', 'HanXRQChr16g0513701' => 'han', 'Haze_00897' => 'cav', 'Haze_01745' => 'cav', 'Haze_02486' => 'cav', 'Haze_02487' => 'cav', 'Haze_23374' => 'cav', 'Hma1.2p1_0578F.1_g182520' => 'hma', 'Hma1.2p1_0602F.1_g187350' => 'hma', 'Hma1.2p1_0602F.1_g187360' => 'hma', 'Hma1.2p1_0874F.1_g231320' => 'hma', 'Hma1.2p1_1197F.1_g266210' => 'hma', 'Hma1.2p1_1197F.1_g266220' => 'hma', 'Hma1.2p1_2167F.1_g315895' => 'hma', 'Hma1.2p1_2190F.1_g316640' => 'hma', 'Hma1.2p1_3645F.1_g337153' => 'hma', 'HPP92_004907' => 'vpl', 'HPP92_012134' => 'vpl', 'HPP92_025136' => 'vpl', 'HPP92_026087' => 'vpl', 'Hund06782' => 'sun', 'Hund06784' => 'sun', 'Lalb_Chr01g0004861' => 'lal', 'Lalb_Chr02g0140591' => 'lal', 'Lalb_Chr02g0140611' => 'lal', 'Lalb_Chr03g0028101' => 'lal', 'Lalb_Chr07g0185791' => 'lal', 'Lalb_Chr12g0204491' => 'lal', 'Lalb_Chr13g0295671' => 'lal', 'Lalb_Chr19g0136461' => 'lal', 'Lalb_Chr21g0309191' => 'lal', 'Lj1g0028158' => 'lja', 'Lj1P236T38' => 'lonja', 'Lj2C32G2' => 'lonja', 'Lj2P944T8' => 'lonja', 'Lj2P963T15' => 'lonja', 'Lj3g0011788' => 'lja', 'Lj4g0025027' => 'lja', 'Lj5P255T36' => 'lonja', 'Lj6g0018866' => 'lja', 'Lj6P608T31' => 'lonja', 'LjContig00408g0008879' => 'lja', 'Lsat_1_v5_gn_5_105820' => 'lsa', 'Lsat_1_v5_gn_6_38800' => 'lsa', 'Lsat_1_v5_gn_7_67141' => 'lsa', 'Manes.04G003400' => 'mes', 'Manes.07G020000' => 'mes', 'Manes.07G020100' => 'mes', 'Manes.07G020150' => 'mes', 'Manes.10G061500' => 'mes', 'Manes.10G123200' => 'mes', 'Manes.11G161900' => 'mes', 'Manes.15G029300' => 'mes', 'Mapoly0071s0018' => 'mpo', 'Mapoly0082s0023' => 'mpo', 'Mapoly3477s0001' => 'mpo', 'MBI05_g31233_MAGBIO' => 'mbi', 'MBI09_g05946_MAGBIO' => 'mbi', 'MBI09_g05947_MAGBIO' => 'mbi', 'MBI17_g08346_MAGBIO' => 'mbi', 'MCO04G038' => 'mco', 'MCO09G370' => 'mco', 'MCO13G605' => 'mco', 'MD00G1075500' => 'mdo', 'MD03G1144300' => 'mdo', 'MD08G1236800' => 'mdo', 'MD13G1193300' => 'mdo', 'MD15G1428700' => 'mdo', 'Medtr1g112030' => 'mtr', 'Medtr1g112050' => 'mtr', 'Medtr2g006290' => 'mtr', 'Medtr2g086510' => 'mtr', 'Medtr4g053120' => 'mtr', 'Medtr5g006320' => 'mtr', 'Medtr8g088720' => 'mtr', 'MELO3C004712.2' => 'cme', 'MELO3C006533.2' => 'cme', 'MELO3C019438.2' => 'cme', 'MELO3C019440.2' => 'cme', 'MELO3C019441.2' => 'cme', 'MELO3C019895.2' => 'cme', 'Migut.B00811' => 'egut', 'Migut.D02447' => 'egut', 'Migut.F00875' => 'egut', 'Migut.N00186' => 'egut', 'Migut.N01051' => 'egut', 'Migut.N02491' => 'egut', 'Migut.O00784' => 'egut', 'MSTRG.12367' => 'ama', 'MSTRG.18756' => 'ama', 'MSTRG.21042' => 'ama', 'Nitab4.5_0000559g0040' => 'nta', 'Nitab4.5_0000667g0190' => 'nta', 'Nitab4.5_0000755g0160' => 'nta', 'Nitab4.5_0001216g0080' => 'nta', 'Nitab4.5_0004069g0040' => 'nta', 'Nitab4.5_0004129g0010' => 'nta', 'Nitab4.5_0005744g0030' => 'nta', 'Nitab4.5_0006996g0030' => 'nta', 'Nitab4.5_0008971g0040' => 'nta', 'Nitab4.5_0009769g0020' => 'nta', 'Nitab4.5_0009833g0010' => 'nta', 'Nitab4.5_0013140g0020' => 'nta', 'Nn003s41376' => 'nnu', 'Nn1g01857' => 'nnu', 'Nn1g03611' => 'nnu', 'Nn1g06853' => 'nnu', 'Nn3g18360' => 'nnu', 'Nn4g26328' => 'nnu', 'Nn5g27531' => 'nnu', 'Nn6g34899' => 'nnu', 'Nn7g36299' => 'nnu', 'Oeu021485.1' => 'oeu', 'Oeu022433.1' => 'oeu', 'Oeu032111.1' => 'oeu', 'Oeu051608.1' => 'oeu', 'Os01g0860601' => 'osa', 'Os03g0659200' => 'osa', 'Os03g0835900' => 'osa', 'Os04g0412200' => 'osa', 'Os05g0443500' => 'osa', 'Os07g0251500' => 'osa', 'Os08g0104600' => 'osa', 'Peaxi162Scf00003g00047' => 'pax', 'Peaxi162Scf00003g00052' => 'pax', 'Peaxi162Scf00003g00394' => 'pax', 'Peaxi162Scf00091g00621' => 'pax', 'Peaxi162Scf00152g00146' => 'pax', 'Peaxi162Scf00173g00025' => 'pax', 'Peaxi162Scf00195g00102' => 'pax', 'Peaxi162Scf00402g00013' => 'pax', 'Peaxi162Scf00519g00618' => 'pax', 'PGR004G2838' => 'pgr', 'PGR044G2275' => 'pgr', 'PGR102G1377' => 'pgr', 'PGR119G1245' => 'pgr', 'PGR142G4449' => 'pgr', 'PGSC0003DMG400004532' => 'stu', 'PGSC0003DMG400011950' => 'stu', 'PGSC0003DMG400023391' => 'stu', 'PGSC0003DMG400023985' => 'stu', 'PGSC0003DMG400026360' => 'stu', 'PGSC0003DMG400035711' => 'stu', 'PGSC0003DMG400037286' => 'stu', 'PGSC0003DMG402005881' => 'stu', 'Phvul.002G045400' => 'pvu', 'Phvul.006G216600' => 'pvu', 'Phvul.006G216700' => 'pvu', 'Phvul.006G216800' => 'pvu', 'Phvul.007G022500' => 'pvu', 'Phvul.011G094400' => 'pvu', 'Potri.001G470700' => 'ptr', 'Potri.003G015200' => 'ptr', 'Potri.004G202500' => 'ptr', 'Potri.004G218400' => 'ptr', 'Potri.008G020100' => 'ptr', 'Potri.008G153200' => 'ptr', 'Potri.009G163800' => 'ptr', 'Potri.010G087300' => 'ptr', 'Potri.010G239100' => 'ptr', 'Pp3c10_16100' => 'ppa', 'Pp3c10_16880' => 'ppa', 'Pp3c16_6230' => 'ppa', 'Pp3c17_18910' => 'ppa', 'Pp3c3_22119' => 'ppa', 'Pp3c3_22140' => 'ppa', 'Pp3c4_8159' => 'ppa', 'Pp3c4_8171' => 'ppa', 'Pp3c4_8330' => 'ppa', 'PRCOL_00004098' => 'pco', 'Prupe.1G013900' => 'ppe', 'Prupe.1G226300' => 'ppe', 'Prupe.1G573600' => 'ppe', 'Prupe.6G130100' => 'ppe', 'Psat3g090040' => 'psa', 'Psat4g210440' => 'psa', 'Psat6g231040' => 'psa', 'Psat6g231080' => 'psa', 'Psat7g063000' => 'psa', 'Psat7g188000' => 'psa', 'Psat7g188040' => 'psa', 'PSO017G0206' => 'pso', 'PSO170G0501' => 'pso', 'PSO170G6422' => 'pso', 'PSO210G7739' => 'pso', 'PSO339G1808' => 'pso', 'PSO339G6135' => 'pso', 'PSO384G0010' => 'pso', 'PSO384G0964' => 'pso', 'PSO761G0050' => 'pso', 'PSO782G4085' => 'pso', 'QL01p012264' => 'qlo', 'QL02p099491' => 'qlo', 'QL03p033868' => 'qlo', 'QL04p046678' => 'qlo', 'QL06p002448' => 'qlo', 'RcHm_v2.0_Chr4g0416181' => 'rch', 'RcHm_v2.0_Chr5g0044701' => 'rch', 'RcHm_v2.0_Chr6g0265781' => 'rch', 'RcHm_v2.0_Chr7g0221031' => 'rch', 'Rhsim04G0202000' => 'rsi', 'Rhsim11G0127300' => 'rsi', 'Rhsim13G0111800' => 'rsi', 'Sabra01G0165600' => 'sbr', 'Sabra03G0008300' => 'sbr', 'Sabra04G0136900' => 'sbr', 'Sabra08G0013400' => 'sbr', 'Sabra08G0116800' => 'sbr', 'Sabra09G0128000' => 'sbr', 'Sabra10G0055500' => 'sbr', 'Sabra10G0073300' => 'sbr', 'SalBow3G0385' => 'sbo', 'SalBow3G1119' => 'sbo', 'SalBow3G2005' => 'sbo', 'SalBow6G2563' => 'sbo', 'SalBow6G6386' => 'sbo', 'Sc06g0008800' => 'sci', 'Sc07g0004950' => 'sci', 'Sc09g0005340' => 'sci', 'Sc13g0004410' => 'sci', 'Sc21g0007090' => 'sci', 'Sed0009285' => 'sed', 'Sed0017583' => 'sed', 'Sed0019699' => 'sed', 'Sed0023107' => 'sed', 'SEGI_10916' => 'sgi', 'SEGI_16217' => 'sgi', 'SEGI_19466' => 'sgi', 'SEGI_41115' => 'sgi', 'SGA_v2.0_scaffold111G31534' => 'sas', 'SGA_v2.0_scaffold22G09864' => 'sas', 'SGA_v2.0_scaffold338G49219' => 'sas', 'SGA_v2.0_scaffold92G28298' => 'sas', 'SMO119G0064' => 'smo', 'SMO223G0038' => 'smo', 'SMO347G0584' => 'smo', 'SMO351G0010' => 'smo', 'SMO356G0404' => 'smo', 'Solyc01g103920.3' => 'sly', 'Solyc04g009710.2' => 'sly', 'Solyc05g055280.2' => 'sly', 'Solyc10g044520.3' => 'sly', 'Solyc10g075160.1' => 'sly', 'Solyc11g006910.3' => 'sly', 'Solyc11g068430.3' => 'sly', 'Sopen01g046310' => 'spe', 'Sopen03g001200' => 'spe', 'Sopen04g004830' => 'spe', 'Sopen05g033720' => 'spe', 'Sopen06g030740' => 'spe', 'Sopen10g013090' => 'spe', 'Sopen10g027630' => 'spe', 'Sopen10g027640' => 'spe', 'Sopen11g002820' => 'spe', 'Sopen11g027140' => 'spe', 'Sp1g09680' => 'spa', 'Sp2g03630' => 'spa', 'Sp4g10320' => 'spa', 'Sp6g33400' => 'spa', 'Sp7g13030' => 'spa', 'TAR365G0317' => 'tar', 'TAR376G0979' => 'tar', 'TAR623G1665' => 'tar', 'TAR633G2373' => 'tar', 'TAR636G1400' => 'tar', 'THA.LOC104800529' => 'tha', 'THA.LOC104808547' => 'tha', 'THA.LOC104809615' => 'tha', 'THA.LOC104815724' => 'tha', 'THA.LOC104818480' => 'tha', 'THA.LOC104819179' => 'tha', 'THA.LOC104822270' => 'tha', 'THA.LOC104826425' => 'tha', 'Thecc.02G089700' => 'tca', 'Thecc.04G232300' => 'tca', 'Thecc.09G283400' => 'tca', 'Thhalv10009020m.g' => 'esa', 'Thhalv10015506m.g' => 'esa', 'Thhalv10017364m.g' => 'esa', 'Thhalv10023742m.g' => 'esa', 'Thhalv10026483m.g' => 'esa', 'TPR.G17232' => 'tpr', 'TPR.G2133' => 'tpr', 'TPR.G2498' => 'tpr', 'TPR.G31942' => 'tpr', 'TPR.G37877' => 'tpr', 'TPR.G4571' => 'tpr', 'TWI14G1113' => 'twi', 'TWI15G0426' => 'twi', 'TWI31G1005' => 'twi', 'TWI38G0513' => 'twi', 'TWI38G1484' => 'twi', 'TWI73G1098' => 'twi', 'unitig_26.g10519' => 'ugi', 'unitig_736.g22395' => 'ugi', 'unitig_747.g21234' => 'ugi', 'unitig_747.g21942' => 'ugi', 'vmacro14351' => 'vma', 'VMungo0540G0082' => 'vmu', 'VMungo0540G0405' => 'vmu', 'VMungo0540G1486' => 'vmu', 'VMungo0540G1692' => 'vmu', 'VMungo0720G2473' => 'vmu', 'VMungo1127G1562' => 'vmu', 'VMungo1215G1918' => 'vmu', 'Zm00001eb052650' => 'zma', 'Zm00001eb063710' => 'zma', 'Zm00001eb083950' => 'zma', 'Zm00001eb174420' => 'zma', 'Zm00001eb260140' => 'zma', 'Zm00001eb260150' => 'zma', 'Zm00001eb260160' => 'zma', 'Zm00001eb348290' => 'zma', 'Zm00001eb366870' => 'zma', 'Zm00001eb421930' => 'zma' ), 'gf_id' => 'HOM05D001025', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001025' ), 'data_identifier' => 'HOM05D001025', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001025', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '592', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p22650' => 'bna', 'A01p29720' => 'bna', 'A03p26560' => 'bna', 'A03p68820' => 'bna', 'A04p20980' => 'bna', 'A06p07730' => 'bna', 'A07p18260' => 'bna', 'A08p33710' => 'bna', 'A09p16970' => 'bna', 'A10p27490' => 'bna', 'Aa31LG1G17300' => 'aar', 'Aa31LG1G3910' => 'aar', 'Aa31LG2G9630' => 'aar', 'Aa31LG5G8360' => 'aar', 'Aa31LG9G2410' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4699' => 'aag', 'Actinidia23512' => 'ach', 'Actinidia37080' => 'ach', 'Ah.01g020380' => 'amhyb', 'Ah.08g215710' => 'amhyb', 'Ah.09g225110' => 'amhyb', 'Ah.10g036680' => 'amhyb', 'AL1G21940' => 'aly', 'AL2G15540' => 'aly', 'AL4G21520' => 'aly', 'AL7G40960' => 'aly', 'Aqoxy2G01191' => 'aox', 'Aqoxy2G03393' => 'aox', 'Aqoxy4G02775' => 'aox', 'Aqoxy6G00058' => 'aox', 'arahy.Tifrunner.gnm1.ann1.9X74H2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CW3FX9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R485W7' => 'arhy', 'AT1G10960' => 'ath', 'AT1G60950' => 'ath', 'AT2G27510' => 'ath', 'AT4G14890' => 'ath', 'AT5G10000' => 'ath', 'ATR0665G624' => 'atr', 'ATR0697G138' => 'atr', 'ATR0776G046' => 'atr', 'ATR1134G135' => 'atr', 'Atru.chr12.1025' => 'acertr', 'Atru.chr3.3241' => 'acertr', 'Atru.chr4.2460' => 'acertr', 'AUR62007427' => 'cqu', 'AUR62010960' => 'cqu', 'AUR62012201' => 'cqu', 'AUR62021470' => 'cqu', 'AUR62022834' => 'cqu', 'AUR62033635' => 'cqu', 'AUR62036186' => 'cqu', 'BcaB01g03077' => 'bca', 'BcaB02g10093' => 'bca', 'BcaB04g20295' => 'bca', 'BcaB06g28147' => 'bca', 'BcaB07g31253' => 'bca', 'BcaC01g04946' => 'bca', 'BcaC02g10614' => 'bca', 'BcaC02g10885' => 'bca', 'BcaC04g19356' => 'bca', 'BcaC04g22297' => 'bca', 'BcaC05g24977' => 'bca', 'BcaC06g31823' => 'bca', 'BcaC07g38633' => 'bca', 'BcaC09g49353' => 'bca', 'BcaC09g50168' => 'bca', 'BcaNung00322' => 'bca', 'BcaNung04769' => 'bca', 'BolC1t02753H' => 'bol', 'BolC1t03721H' => 'bol', 'BolC3t15525H' => 'bol', 'BolC4t23903H' => 'bol', 'BolC4t24231H' => 'bol', 'BolC4t27209H' => 'bol', 'BolC5t29671H' => 'bol', 'BolC8t49044H' => 'bol', 'BolC9t54999H' => 'bol', 'BolC9t59517H' => 'bol', 'BraA01t02178Z' => 'bra', 'BraA01t03099Z' => 'bra', 'BraA03t11867Z' => 'bra', 'BraA04t17667Z' => 'bra', 'BraA07t29542Z' => 'bra', 'BraA08t35287Z' => 'bra', 'BraA09t37334Z' => 'bra', 'BraA10t44801Z' => 'bra', 'BraSC39t46181Z' => 'bra', 'C01p28240' => 'bna', 'C01p37530' => 'bna', 'C03p31820' => 'bna', 'C04p24080' => 'bna', 'C04p25790' => 'bna', 'C04p56770' => 'bna', 'C05p09310' => 'bna', 'C09p21010' => 'bna', 'C09p67560' => 'bna', 'CAN.G1324.7' => 'can', 'CAN.G1358.10' => 'can', 'CAN.G1550.2' => 'can', 'CAN.G186.56' => 'can', 'CAN.G1965.1' => 'can', 'CAN.G645.15' => 'can', 'CAN.G798.26' => 'can', 'CAN.G798.27' => 'can', 'CAN.G798.29' => 'can', 'CAN.G919.31' => 'can', 'CANSAT11G0133' => 'cansat', 'CANSAT11G1171' => 'cansat', 'CANSAT11G2056' => 'cansat', 'CANSAT56G1202' => 'cansat', 'CANSAT56G1514' => 'cansat', 'CANSAT78G0455' => 'cansat', 'CARHR011190' => 'chi', 'CARHR051980' => 'chi', 'CARHR120170' => 'chi', 'CARHR203310' => 'chi', 'CARHR221490' => 'chi', 'Carub.0001s1054' => 'cru', 'Carub.0002s0431' => 'cru', 'Carub.0004s0818' => 'cru', 'Carub.0006s0846' => 'cru', 'Carub.0007s2722' => 'cru', 'Ca_00058_v3' => 'car', 'Ca_17831_v3' => 'car', 'Ca_19408_v3' => 'car', 'Ca_24397_v3' => 'car', 'Ca_25664_v3' => 'car', 'CBR_g21818' => 'cbr', 'CBR_g31195' => 'cbr', 'CBR_g32282' => 'cbr', 'CBR_g39599' => 'cbr', 'CBR_g49410' => 'cbr', 'Cc01_g09120' => 'ccan', 'Cc01_g09130' => 'ccan', 'Cc02_g09630' => 'ccan', 'Cc02_g22810' => 'ccan', 'Cc03_g03810' => 'ccan', 'CDE02G3718' => 'cde', 'CDE04G3183' => 'cde', 'CDE07G1046' => 'cde', 'CDE08G0480' => 'cde', 'Cfa005493' => 'cfa', 'Cfa010312' => 'cfa', 'Cfa015648' => 'cfa', 'Ciclev10002793m.g' => 'ccl', 'Ciclev10003356m.g' => 'ccl', 'Ciclev10006141m.g' => 'ccl', 'Ciclev10016676m.g' => 'ccl', 'Ciclev10017081m.g' => 'ccl', 'Ciclev10029499m.g' => 'ccl', 'CiPaw.01G166300' => 'cil', 'CiPaw.06G145600' => 'cil', 'CiPaw.13G040100' => 'cil', 'CiPaw.13G135800' => 'cil', 'ClCG01G012230' => 'cla', 'ClCG05G009510' => 'cla', 'ClCG08G008270' => 'cla', 'COL.COLO4_11763' => 'col', 'COL.COLO4_19876' => 'col', 'COL.COLO4_21481' => 'col', 'Cpa.g.sc118.34' => 'cpa', 'Cpa.g.sc32.13' => 'cpa', 'Cpa.g.sc58.103' => 'cpa', 'Cre03.g183850' => 'cre', 'Cre06.g306350' => 'cre', 'Cre07.g334800' => 'cre', 'Cre12.g487900' => 'cre', 'Cre14.g626700' => 'cre', 'Cre16.g658400' => 'cre', 'Cre17.g700950' => 'cre', 'CsaV3_1G014830' => 'csa', 'CsaV3_3G013320' => 'csa', 'CsaV3_3G019210' => 'csa', 'CsaV3_3G019220' => 'csa', 'CsaV3_6G004230' => 'csa', 'CSS0003773' => 'camsi', 'CSS0004563' => 'camsi', 'CSS0013949' => 'camsi', 'CSS0025971' => 'camsi', 'CSS0028570' => 'camsi', 'CSS0033127' => 'camsi', 'CSS0036051' => 'camsi', 'CSS0040087' => 'camsi', 'CSS0043179' => 'camsi', 'DCAR_006161' => 'dca', 'DCAR_010351' => 'dca', 'DCAR_012197' => 'dca', 'DCAR_024162' => 'dca', 'Dinv01030' => 'din', 'Dinv10924' => 'din', 'Dinv11835' => 'din', 'Dinv22841' => 'din', 'Dinv42553' => 'din', 'Duzib052G0560' => 'dzi', 'Duzib132G0389' => 'dzi', 'Duzib150G1181' => 'dzi', 'Duzib168G0623' => 'dzi', 'Duzib170G1036' => 'dzi', 'Duzib212G0200' => 'dzi', 'Duzib248G0194' => 'dzi', 'ECA232G2193' => 'eca', 'ECA233G0302' => 'eca', 'ECA234G2813' => 'eca', 'ECA234G4866' => 'eca', 'ECA240G3932' => 'eca', 'ECA248G0385' => 'eca', 'EL10Ac2g04781' => 'bvu', 'EL10Ac3g06445' => 'bvu', 'EL10Ac7g15825' => 'bvu', 'EL10Ac8g18550' => 'bvu', 'Eucgr.B03849' => 'egr', 'Eucgr.I02744' => 'egr', 'Eucgr.J00264' => 'egr', 'Eucgr.J00493' => 'egr', 'FAN04G2181' => 'fan', 'FAN07G2666' => 'fan', 'FAN11G0024' => 'fan', 'FAN12G1105' => 'fan', 'FAN13G0302' => 'fan', 'FAN15G2781' => 'fan', 'FAN16G1274' => 'fan', 'FAN17G2988' => 'fan', 'FAN18G2621' => 'fan', 'FAN21G0013' => 'fan', 'FAN22G1211' => 'fan', 'FAN25G3626' => 'fan', 'FvH4_2g09491' => 'fve', 'FvH4_3g24910' => 'fve', 'FvH4_4g15630' => 'fve', 'FvH4_5g28820' => 'fve', 'Glyma.01G238000' => 'gma', 'Glyma.05G168400' => 'gma', 'Glyma.08G126800' => 'gma', 'Glyma.08G188500' => 'gma', 'Glyma.10G278900' => 'gma', 'Glyma.11G005700' => 'gma', 'Glyma.11G183300' => 'gma', 'Glyma.12G089200' => 'gma', 'Glyma.12G169400' => 'gma', 'Glyma.12G169500' => 'gma', 'Glyma.12G169600' => 'gma', 'Glyma.20G110800' => 'gma', 'Gohir.A03G192900' => 'ghi', 'Gohir.A03G193000' => 'ghi', 'Gohir.A05G080700' => 'ghi', 'Gohir.A09G216000' => 'ghi', 'Gohir.A12G027700' => 'ghi', 'Gohir.A13G036200' => 'ghi', 'Gohir.A13G222600' => 'ghi', 'Gohir.D02G213900' => 'ghi', 'Gohir.D02G214000' => 'ghi', 'Gohir.D05G083700' => 'ghi', 'Gohir.D05G083800' => 'ghi', 'Gohir.D05G083850' => 'ghi', 'Gohir.D08G015400' => 'ghi', 'Gohir.D09G218400' => 'ghi', 'Gohir.D12G027100' => 'ghi', 'Gohir.D13G034500' => 'ghi', 'Gohir.D13G227400' => 'ghi', 'Gorai.005G241800' => 'gra', 'Gorai.005G241900' => 'gra', 'Gorai.006G239400' => 'gra', 'Gorai.008G027600' => 'gra', 'Gorai.009G085400' => 'gra', 'Gorai.009G085500' => 'gra', 'Gorai.013G039000' => 'gra', 'Gorai.013G194800' => 'gra', 'Gorai.013G257900' => 'gra', 'GSVIVG01000982001' => 'vvi', 'GSVIVG01017981001' => 'vvi', 'HanXRQChr01g0024061' => 'han', 'HanXRQChr09g0247831' => 'han', 'HanXRQChr10g0294611' => 'han', 'HanXRQChr10g0294621' => 'han', 'HanXRQChr11g0346821' => 'han', 'HanXRQChr13g0397461' => 'han', 'HanXRQChr16g0513651' => 'han', 'HanXRQChr16g0513701' => 'han', 'Haze_00897' => 'cav', 'Haze_01745' => 'cav', 'Haze_02486' => 'cav', 'Haze_02487' => 'cav', 'Haze_23374' => 'cav', 'Hma1.2p1_0578F.1_g182520' => 'hma', 'Hma1.2p1_0602F.1_g187350' => 'hma', 'Hma1.2p1_0602F.1_g187360' => 'hma', 'Hma1.2p1_0874F.1_g231320' => 'hma', 'Hma1.2p1_1197F.1_g266210' => 'hma', 'Hma1.2p1_1197F.1_g266220' => 'hma', 'Hma1.2p1_2167F.1_g315895' => 'hma', 'Hma1.2p1_2190F.1_g316640' => 'hma', 'Hma1.2p1_3645F.1_g337153' => 'hma', 'HPP92_004907' => 'vpl', 'HPP92_012134' => 'vpl', 'HPP92_025136' => 'vpl', 'HPP92_026087' => 'vpl', 'Hund06782' => 'sun', 'Hund06784' => 'sun', 'Lalb_Chr01g0004861' => 'lal', 'Lalb_Chr02g0140591' => 'lal', 'Lalb_Chr02g0140611' => 'lal', 'Lalb_Chr03g0028101' => 'lal', 'Lalb_Chr07g0185791' => 'lal', 'Lalb_Chr12g0204491' => 'lal', 'Lalb_Chr13g0295671' => 'lal', 'Lalb_Chr19g0136461' => 'lal', 'Lalb_Chr21g0309191' => 'lal', 'Lj1g0028158' => 'lja', 'Lj1P236T38' => 'lonja', 'Lj2C32G2' => 'lonja', 'Lj2P944T8' => 'lonja', 'Lj2P963T15' => 'lonja', 'Lj3g0011788' => 'lja', 'Lj4g0025027' => 'lja', 'Lj5P255T36' => 'lonja', 'Lj6g0018866' => 'lja', 'Lj6P608T31' => 'lonja', 'LjContig00408g0008879' => 'lja', 'Lsat_1_v5_gn_5_105820' => 'lsa', 'Lsat_1_v5_gn_6_38800' => 'lsa', 'Lsat_1_v5_gn_7_67141' => 'lsa', 'Manes.04G003400' => 'mes', 'Manes.07G020000' => 'mes', 'Manes.07G020100' => 'mes', 'Manes.07G020150' => 'mes', 'Manes.10G061500' => 'mes', 'Manes.10G123200' => 'mes', 'Manes.11G161900' => 'mes', 'Manes.15G029300' => 'mes', 'Mapoly0071s0018' => 'mpo', 'Mapoly0082s0023' => 'mpo', 'Mapoly3477s0001' => 'mpo', 'MBI05_g31233_MAGBIO' => 'mbi', 'MBI09_g05946_MAGBIO' => 'mbi', 'MBI09_g05947_MAGBIO' => 'mbi', 'MBI17_g08346_MAGBIO' => 'mbi', 'MCO04G038' => 'mco', 'MCO09G370' => 'mco', 'MCO13G605' => 'mco', 'MD00G1075500' => 'mdo', 'MD03G1144300' => 'mdo', 'MD08G1236800' => 'mdo', 'MD13G1193300' => 'mdo', 'MD15G1428700' => 'mdo', 'Medtr1g112030' => 'mtr', 'Medtr1g112050' => 'mtr', 'Medtr2g006290' => 'mtr', 'Medtr2g086510' => 'mtr', 'Medtr4g053120' => 'mtr', 'Medtr5g006320' => 'mtr', 'Medtr8g088720' => 'mtr', 'MELO3C004712.2' => 'cme', 'MELO3C006533.2' => 'cme', 'MELO3C019438.2' => 'cme', 'MELO3C019440.2' => 'cme', 'MELO3C019441.2' => 'cme', 'MELO3C019895.2' => 'cme', 'Migut.B00811' => 'egut', 'Migut.D02447' => 'egut', 'Migut.F00875' => 'egut', 'Migut.N00186' => 'egut', 'Migut.N01051' => 'egut', 'Migut.N02491' => 'egut', 'Migut.O00784' => 'egut', 'MSTRG.12367' => 'ama', 'MSTRG.18756' => 'ama', 'MSTRG.21042' => 'ama', 'Nitab4.5_0000559g0040' => 'nta', 'Nitab4.5_0000667g0190' => 'nta', 'Nitab4.5_0000755g0160' => 'nta', 'Nitab4.5_0001216g0080' => 'nta', 'Nitab4.5_0004069g0040' => 'nta', 'Nitab4.5_0004129g0010' => 'nta', 'Nitab4.5_0005744g0030' => 'nta', 'Nitab4.5_0006996g0030' => 'nta', 'Nitab4.5_0008971g0040' => 'nta', 'Nitab4.5_0009769g0020' => 'nta', 'Nitab4.5_0009833g0010' => 'nta', 'Nitab4.5_0013140g0020' => 'nta', 'Nn003s41376' => 'nnu', 'Nn1g01857' => 'nnu', 'Nn1g03611' => 'nnu', 'Nn1g06853' => 'nnu', 'Nn3g18360' => 'nnu', 'Nn4g26328' => 'nnu', 'Nn5g27531' => 'nnu', 'Nn6g34899' => 'nnu', 'Nn7g36299' => 'nnu', 'Oeu021485.1' => 'oeu', 'Oeu022433.1' => 'oeu', 'Oeu032111.1' => 'oeu', 'Oeu051608.1' => 'oeu', 'Os01g0860601' => 'osa', 'Os03g0659200' => 'osa', 'Os03g0835900' => 'osa', 'Os04g0412200' => 'osa', 'Os05g0443500' => 'osa', 'Os07g0251500' => 'osa', 'Os08g0104600' => 'osa', 'Peaxi162Scf00003g00047' => 'pax', 'Peaxi162Scf00003g00052' => 'pax', 'Peaxi162Scf00003g00394' => 'pax', 'Peaxi162Scf00091g00621' => 'pax', 'Peaxi162Scf00152g00146' => 'pax', 'Peaxi162Scf00173g00025' => 'pax', 'Peaxi162Scf00195g00102' => 'pax', 'Peaxi162Scf00402g00013' => 'pax', 'Peaxi162Scf00519g00618' => 'pax', 'PGR004G2838' => 'pgr', 'PGR044G2275' => 'pgr', 'PGR102G1377' => 'pgr', 'PGR119G1245' => 'pgr', 'PGR142G4449' => 'pgr', 'PGSC0003DMG400004532' => 'stu', 'PGSC0003DMG400011950' => 'stu', 'PGSC0003DMG400023391' => 'stu', 'PGSC0003DMG400023985' => 'stu', 'PGSC0003DMG400026360' => 'stu', 'PGSC0003DMG400035711' => 'stu', 'PGSC0003DMG400037286' => 'stu', 'PGSC0003DMG402005881' => 'stu', 'Phvul.002G045400' => 'pvu', 'Phvul.006G216600' => 'pvu', 'Phvul.006G216700' => 'pvu', 'Phvul.006G216800' => 'pvu', 'Phvul.007G022500' => 'pvu', 'Phvul.011G094400' => 'pvu', 'Potri.001G470700' => 'ptr', 'Potri.003G015200' => 'ptr', 'Potri.004G202500' => 'ptr', 'Potri.004G218400' => 'ptr', 'Potri.008G020100' => 'ptr', 'Potri.008G153200' => 'ptr', 'Potri.009G163800' => 'ptr', 'Potri.010G087300' => 'ptr', 'Potri.010G239100' => 'ptr', 'Pp3c10_16100' => 'ppa', 'Pp3c10_16880' => 'ppa', 'Pp3c16_6230' => 'ppa', 'Pp3c17_18910' => 'ppa', 'Pp3c3_22119' => 'ppa', 'Pp3c3_22140' => 'ppa', 'Pp3c4_8159' => 'ppa', 'Pp3c4_8171' => 'ppa', 'Pp3c4_8330' => 'ppa', 'PRCOL_00004098' => 'pco', 'Prupe.1G013900' => 'ppe', 'Prupe.1G226300' => 'ppe', 'Prupe.1G573600' => 'ppe', 'Prupe.6G130100' => 'ppe', 'Psat3g090040' => 'psa', 'Psat4g210440' => 'psa', 'Psat6g231040' => 'psa', 'Psat6g231080' => 'psa', 'Psat7g063000' => 'psa', 'Psat7g188000' => 'psa', 'Psat7g188040' => 'psa', 'PSO017G0206' => 'pso', 'PSO170G0501' => 'pso', 'PSO170G6422' => 'pso', 'PSO210G7739' => 'pso', 'PSO339G1808' => 'pso', 'PSO339G6135' => 'pso', 'PSO384G0010' => 'pso', 'PSO384G0964' => 'pso', 'PSO761G0050' => 'pso', 'PSO782G4085' => 'pso', 'QL01p012264' => 'qlo', 'QL02p099491' => 'qlo', 'QL03p033868' => 'qlo', 'QL04p046678' => 'qlo', 'QL06p002448' => 'qlo', 'RcHm_v2.0_Chr4g0416181' => 'rch', 'RcHm_v2.0_Chr5g0044701' => 'rch', 'RcHm_v2.0_Chr6g0265781' => 'rch', 'RcHm_v2.0_Chr7g0221031' => 'rch', 'Rhsim04G0202000' => 'rsi', 'Rhsim11G0127300' => 'rsi', 'Rhsim13G0111800' => 'rsi', 'Sabra01G0165600' => 'sbr', 'Sabra03G0008300' => 'sbr', 'Sabra04G0136900' => 'sbr', 'Sabra08G0013400' => 'sbr', 'Sabra08G0116800' => 'sbr', 'Sabra09G0128000' => 'sbr', 'Sabra10G0055500' => 'sbr', 'Sabra10G0073300' => 'sbr', 'SalBow3G0385' => 'sbo', 'SalBow3G1119' => 'sbo', 'SalBow3G2005' => 'sbo', 'SalBow6G2563' => 'sbo', 'SalBow6G6386' => 'sbo', 'Sc06g0008800' => 'sci', 'Sc07g0004950' => 'sci', 'Sc09g0005340' => 'sci', 'Sc13g0004410' => 'sci', 'Sc21g0007090' => 'sci', 'Sed0009285' => 'sed', 'Sed0017583' => 'sed', 'Sed0019699' => 'sed', 'Sed0023107' => 'sed', 'SEGI_10916' => 'sgi', 'SEGI_16217' => 'sgi', 'SEGI_19466' => 'sgi', 'SEGI_41115' => 'sgi', 'SGA_v2.0_scaffold111G31534' => 'sas', 'SGA_v2.0_scaffold22G09864' => 'sas', 'SGA_v2.0_scaffold338G49219' => 'sas', 'SGA_v2.0_scaffold92G28298' => 'sas', 'SMO119G0064' => 'smo', 'SMO223G0038' => 'smo', 'SMO347G0584' => 'smo', 'SMO351G0010' => 'smo', 'SMO356G0404' => 'smo', 'Solyc01g103920.3' => 'sly', 'Solyc04g009710.2' => 'sly', 'Solyc05g055280.2' => 'sly', 'Solyc10g044520.3' => 'sly', 'Solyc10g075160.1' => 'sly', 'Solyc11g006910.3' => 'sly', 'Solyc11g068430.3' => 'sly', 'Sopen01g046310' => 'spe', 'Sopen03g001200' => 'spe', 'Sopen04g004830' => 'spe', 'Sopen05g033720' => 'spe', 'Sopen06g030740' => 'spe', 'Sopen10g013090' => 'spe', 'Sopen10g027630' => 'spe', 'Sopen10g027640' => 'spe', 'Sopen11g002820' => 'spe', 'Sopen11g027140' => 'spe', 'Sp1g09680' => 'spa', 'Sp2g03630' => 'spa', 'Sp4g10320' => 'spa', 'Sp6g33400' => 'spa', 'Sp7g13030' => 'spa', 'TAR365G0317' => 'tar', 'TAR376G0979' => 'tar', 'TAR623G1665' => 'tar', 'TAR633G2373' => 'tar', 'TAR636G1400' => 'tar', 'THA.LOC104800529' => 'tha', 'THA.LOC104808547' => 'tha', 'THA.LOC104809615' => 'tha', 'THA.LOC104815724' => 'tha', 'THA.LOC104818480' => 'tha', 'THA.LOC104819179' => 'tha', 'THA.LOC104822270' => 'tha', 'THA.LOC104826425' => 'tha', 'Thecc.02G089700' => 'tca', 'Thecc.04G232300' => 'tca', 'Thecc.09G283400' => 'tca', 'Thhalv10009020m.g' => 'esa', 'Thhalv10015506m.g' => 'esa', 'Thhalv10017364m.g' => 'esa', 'Thhalv10023742m.g' => 'esa', 'Thhalv10026483m.g' => 'esa', 'TPR.G17232' => 'tpr', 'TPR.G2133' => 'tpr', 'TPR.G2498' => 'tpr', 'TPR.G31942' => 'tpr', 'TPR.G37877' => 'tpr', 'TPR.G4571' => 'tpr', 'TWI14G1113' => 'twi', 'TWI15G0426' => 'twi', 'TWI31G1005' => 'twi', 'TWI38G0513' => 'twi', 'TWI38G1484' => 'twi', 'TWI73G1098' => 'twi', 'unitig_26.g10519' => 'ugi', 'unitig_736.g22395' => 'ugi', 'unitig_747.g21234' => 'ugi', 'unitig_747.g21942' => 'ugi', 'vmacro14351' => 'vma', 'VMungo0540G0082' => 'vmu', 'VMungo0540G0405' => 'vmu', 'VMungo0540G1486' => 'vmu', 'VMungo0540G1692' => 'vmu', 'VMungo0720G2473' => 'vmu', 'VMungo1127G1562' => 'vmu', 'VMungo1215G1918' => 'vmu', 'Zm00001eb052650' => 'zma', 'Zm00001eb063710' => 'zma', 'Zm00001eb083950' => 'zma', 'Zm00001eb174420' => 'zma', 'Zm00001eb260140' => 'zma', 'Zm00001eb260150' => 'zma', 'Zm00001eb260160' => 'zma', 'Zm00001eb348290' => 'zma', 'Zm00001eb366870' => 'zma', 'Zm00001eb421930' => 'zma' ) $gf_id = 'HOM05D001025' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001025' ) $data_identifier = 'HOM05D001025' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 19, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 2, 'amhyb' => (int) 4, 'aly' => (int) 4, 'aox' => (int) 4, 'arhy' => (int) 3, 'ath' => (int) 5, 'atr' => (int) 4, 'acertr' => (int) 3, 'cqu' => (int) 7, 'bca' => (int) 17, 'bol' => (int) 10, 'bra' => (int) 9, 'can' => (int) 10, 'cansat' => (int) 6, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 5, 'cbr' => (int) 5, 'ccan' => (int) 5, 'cde' => (int) 4, 'cfa' => (int) 3, 'ccl' => (int) 6, 'cil' => (int) 4, 'cla' => (int) 3, 'col' => (int) 3, 'cpa' => (int) 3, 'cre' => (int) 7, 'csa' => (int) 5, 'camsi' => (int) 9, 'dca' => (int) 4, 'din' => (int) 5, 'dzi' => (int) 7, 'eca' => (int) 6, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 12, 'fve' => (int) 4, 'gma' => (int) 12, 'ghi' => (int) 17, 'gra' => (int) 9, 'vvi' => (int) 2, 'han' => (int) 8, 'cav' => (int) 5, 'hma' => (int) 9, 'vpl' => (int) 4, 'sun' => (int) 2, 'lal' => (int) 9, 'lja' => (int) 5, 'lonja' => (int) 6, 'lsa' => (int) 3, 'mes' => (int) 8, 'mpo' => (int) 3, 'mbi' => (int) 4, 'mco' => (int) 3, 'mdo' => (int) 5, 'mtr' => (int) 7, 'cme' => (int) 6, 'egut' => (int) 7, 'ama' => (int) 3, 'nta' => (int) 12, 'nnu' => (int) 9, 'oeu' => (int) 4, 'osa' => (int) 7, 'pax' => (int) 9, 'pgr' => (int) 5, 'stu' => (int) 8, 'pvu' => (int) 6, 'ptr' => (int) 9, 'ppa' => (int) 9, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 7, 'pso' => (int) 10, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 3, 'sbr' => (int) 8, 'sbo' => (int) 5, 'sci' => (int) 5, 'sed' => (int) 4, 'sgi' => (int) 4, 'sas' => (int) 4, 'smo' => (int) 5, 'sly' => (int) 7, 'spe' => (int) 10, 'spa' => (int) 5, 'tar' => (int) 5, 'tha' => (int) 8, 'tca' => (int) 3, 'esa' => (int) 5, 'tpr' => (int) 6, 'twi' => (int) 6, 'ugi' => (int) 4, 'vma' => (int) 1, 'vmu' => (int) 7, 'zma' => (int) 10 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb421930' $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' => 'HOM05D001025', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '592', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p22650' => 'bna', 'A01p29720' => 'bna', 'A03p26560' => 'bna', 'A03p68820' => 'bna', 'A04p20980' => 'bna', 'A06p07730' => 'bna', 'A07p18260' => 'bna', 'A08p33710' => 'bna', 'A09p16970' => 'bna', 'A10p27490' => 'bna', 'Aa31LG1G17300' => 'aar', 'Aa31LG1G3910' => 'aar', 'Aa31LG2G9630' => 'aar', 'Aa31LG5G8360' => 'aar', 'Aa31LG9G2410' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4699' => 'aag', 'Actinidia23512' => 'ach', 'Actinidia37080' => 'ach', 'Ah.01g020380' => 'amhyb', 'Ah.08g215710' => 'amhyb', 'Ah.09g225110' => 'amhyb', 'Ah.10g036680' => 'amhyb', 'AL1G21940' => 'aly', 'AL2G15540' => 'aly', 'AL4G21520' => 'aly', 'AL7G40960' => 'aly', 'Aqoxy2G01191' => 'aox', 'Aqoxy2G03393' => 'aox', 'Aqoxy4G02775' => 'aox', 'Aqoxy6G00058' => 'aox', 'arahy.Tifrunner.gnm1.ann1.9X74H2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CW3FX9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R485W7' => 'arhy', 'AT1G10960' => 'ath', 'AT1G60950' => 'ath', 'AT2G27510' => 'ath', 'AT4G14890' => 'ath', 'AT5G10000' => 'ath', 'ATR0665G624' => 'atr', 'ATR0697G138' => 'atr', 'ATR0776G046' => 'atr', 'ATR1134G135' => 'atr', 'Atru.chr12.1025' => 'acertr', 'Atru.chr3.3241' => 'acertr', 'Atru.chr4.2460' => 'acertr', 'AUR62007427' => 'cqu', 'AUR62010960' => 'cqu', 'AUR62012201' => 'cqu', 'AUR62021470' => 'cqu', 'AUR62022834' => 'cqu', 'AUR62033635' => 'cqu', 'AUR62036186' => 'cqu', 'BcaB01g03077' => 'bca', 'BcaB02g10093' => 'bca', 'BcaB04g20295' => 'bca', 'BcaB06g28147' => 'bca', 'BcaB07g31253' => 'bca', 'BcaC01g04946' => 'bca', 'BcaC02g10614' => 'bca', 'BcaC02g10885' => 'bca', 'BcaC04g19356' => 'bca', 'BcaC04g22297' => 'bca', 'BcaC05g24977' => 'bca', 'BcaC06g31823' => 'bca', 'BcaC07g38633' => 'bca', 'BcaC09g49353' => 'bca', 'BcaC09g50168' => 'bca', 'BcaNung00322' => 'bca', 'BcaNung04769' => 'bca', 'BolC1t02753H' => 'bol', 'BolC1t03721H' => 'bol', 'BolC3t15525H' => 'bol', 'BolC4t23903H' => 'bol', 'BolC4t24231H' => 'bol', 'BolC4t27209H' => 'bol', 'BolC5t29671H' => 'bol', 'BolC8t49044H' => 'bol', 'BolC9t54999H' => 'bol', 'BolC9t59517H' => 'bol', 'BraA01t02178Z' => 'bra', 'BraA01t03099Z' => 'bra', 'BraA03t11867Z' => 'bra', 'BraA04t17667Z' => 'bra', 'BraA07t29542Z' => 'bra', 'BraA08t35287Z' => 'bra', 'BraA09t37334Z' => 'bra', 'BraA10t44801Z' => 'bra', 'BraSC39t46181Z' => 'bra', 'C01p28240' => 'bna', 'C01p37530' => 'bna', 'C03p31820' => 'bna', 'C04p24080' => 'bna', 'C04p25790' => 'bna', 'C04p56770' => 'bna', 'C05p09310' => 'bna', 'C09p21010' => 'bna', 'C09p67560' => 'bna', 'CAN.G1324.7' => 'can', 'CAN.G1358.10' => 'can', 'CAN.G1550.2' => 'can', 'CAN.G186.56' => 'can', 'CAN.G1965.1' => 'can', 'CAN.G645.15' => 'can', 'CAN.G798.26' => 'can', 'CAN.G798.27' => 'can', 'CAN.G798.29' => 'can', 'CAN.G919.31' => 'can', 'CANSAT11G0133' => 'cansat', 'CANSAT11G1171' => 'cansat', 'CANSAT11G2056' => 'cansat', 'CANSAT56G1202' => 'cansat', 'CANSAT56G1514' => 'cansat', 'CANSAT78G0455' => 'cansat', 'CARHR011190' => 'chi', 'CARHR051980' => 'chi', 'CARHR120170' => 'chi', 'CARHR203310' => 'chi', 'CARHR221490' => 'chi', 'Carub.0001s1054' => 'cru', 'Carub.0002s0431' => 'cru', 'Carub.0004s0818' => 'cru', 'Carub.0006s0846' => 'cru', 'Carub.0007s2722' => 'cru', 'Ca_00058_v3' => 'car', 'Ca_17831_v3' => 'car', 'Ca_19408_v3' => 'car', 'Ca_24397_v3' => 'car', 'Ca_25664_v3' => 'car', 'CBR_g21818' => 'cbr', 'CBR_g31195' => 'cbr', 'CBR_g32282' => 'cbr', 'CBR_g39599' => 'cbr', 'CBR_g49410' => 'cbr', 'Cc01_g09120' => 'ccan', 'Cc01_g09130' => 'ccan', 'Cc02_g09630' => 'ccan', 'Cc02_g22810' => 'ccan', 'Cc03_g03810' => 'ccan', 'CDE02G3718' => 'cde', 'CDE04G3183' => 'cde', 'CDE07G1046' => 'cde', 'CDE08G0480' => 'cde', 'Cfa005493' => 'cfa', 'Cfa010312' => 'cfa', 'Cfa015648' => 'cfa', 'Ciclev10002793m.g' => 'ccl', 'Ciclev10003356m.g' => 'ccl', 'Ciclev10006141m.g' => 'ccl', 'Ciclev10016676m.g' => 'ccl', 'Ciclev10017081m.g' => 'ccl', 'Ciclev10029499m.g' => 'ccl', 'CiPaw.01G166300' => 'cil', 'CiPaw.06G145600' => 'cil', 'CiPaw.13G040100' => 'cil', 'CiPaw.13G135800' => 'cil', 'ClCG01G012230' => 'cla', 'ClCG05G009510' => 'cla', 'ClCG08G008270' => 'cla', 'COL.COLO4_11763' => 'col', 'COL.COLO4_19876' => 'col', 'COL.COLO4_21481' => 'col', 'Cpa.g.sc118.34' => 'cpa', 'Cpa.g.sc32.13' => 'cpa', 'Cpa.g.sc58.103' => 'cpa', 'Cre03.g183850' => 'cre', 'Cre06.g306350' => 'cre', 'Cre07.g334800' => 'cre', 'Cre12.g487900' => 'cre', 'Cre14.g626700' => 'cre', 'Cre16.g658400' => 'cre', 'Cre17.g700950' => 'cre', 'CsaV3_1G014830' => 'csa', 'CsaV3_3G013320' => 'csa', 'CsaV3_3G019210' => 'csa', 'CsaV3_3G019220' => 'csa', 'CsaV3_6G004230' => 'csa', 'CSS0003773' => 'camsi', 'CSS0004563' => 'camsi', 'CSS0013949' => 'camsi', 'CSS0025971' => 'camsi', 'CSS0028570' => 'camsi', 'CSS0033127' => 'camsi', 'CSS0036051' => 'camsi', 'CSS0040087' => 'camsi', 'CSS0043179' => 'camsi', 'DCAR_006161' => 'dca', 'DCAR_010351' => 'dca', 'DCAR_012197' => 'dca', 'DCAR_024162' => 'dca', 'Dinv01030' => 'din', 'Dinv10924' => 'din', 'Dinv11835' => 'din', 'Dinv22841' => 'din', 'Dinv42553' => 'din', 'Duzib052G0560' => 'dzi', 'Duzib132G0389' => 'dzi', 'Duzib150G1181' => 'dzi', 'Duzib168G0623' => 'dzi', 'Duzib170G1036' => 'dzi', 'Duzib212G0200' => 'dzi', 'Duzib248G0194' => 'dzi', 'ECA232G2193' => 'eca', 'ECA233G0302' => 'eca', 'ECA234G2813' => 'eca', 'ECA234G4866' => 'eca', 'ECA240G3932' => 'eca', 'ECA248G0385' => 'eca', 'EL10Ac2g04781' => 'bvu', 'EL10Ac3g06445' => 'bvu', 'EL10Ac7g15825' => 'bvu', 'EL10Ac8g18550' => 'bvu', 'Eucgr.B03849' => 'egr', 'Eucgr.I02744' => 'egr', 'Eucgr.J00264' => 'egr', 'Eucgr.J00493' => 'egr', 'FAN04G2181' => 'fan', 'FAN07G2666' => 'fan', 'FAN11G0024' => 'fan', 'FAN12G1105' => 'fan', 'FAN13G0302' => 'fan', 'FAN15G2781' => 'fan', 'FAN16G1274' => 'fan', 'FAN17G2988' => 'fan', 'FAN18G2621' => 'fan', 'FAN21G0013' => 'fan', 'FAN22G1211' => 'fan', 'FAN25G3626' => 'fan', 'FvH4_2g09491' => 'fve', 'FvH4_3g24910' => 'fve', 'FvH4_4g15630' => 'fve', 'FvH4_5g28820' => 'fve', 'Glyma.01G238000' => 'gma', 'Glyma.05G168400' => 'gma', 'Glyma.08G126800' => 'gma', 'Glyma.08G188500' => 'gma', 'Glyma.10G278900' => 'gma', 'Glyma.11G005700' => 'gma', 'Glyma.11G183300' => 'gma', 'Glyma.12G089200' => 'gma', 'Glyma.12G169400' => 'gma', 'Glyma.12G169500' => 'gma', 'Glyma.12G169600' => 'gma', 'Glyma.20G110800' => 'gma', 'Gohir.A03G192900' => 'ghi', 'Gohir.A03G193000' => 'ghi', 'Gohir.A05G080700' => 'ghi', 'Gohir.A09G216000' => 'ghi', 'Gohir.A12G027700' => 'ghi', 'Gohir.A13G036200' => 'ghi', 'Gohir.A13G222600' => 'ghi', 'Gohir.D02G213900' => 'ghi', 'Gohir.D02G214000' => 'ghi', 'Gohir.D05G083700' => 'ghi', 'Gohir.D05G083800' => 'ghi', 'Gohir.D05G083850' => 'ghi', 'Gohir.D08G015400' => 'ghi', 'Gohir.D09G218400' => 'ghi', 'Gohir.D12G027100' => 'ghi', 'Gohir.D13G034500' => 'ghi', 'Gohir.D13G227400' => 'ghi', 'Gorai.005G241800' => 'gra', 'Gorai.005G241900' => 'gra', 'Gorai.006G239400' => 'gra', 'Gorai.008G027600' => 'gra', 'Gorai.009G085400' => 'gra', 'Gorai.009G085500' => 'gra', 'Gorai.013G039000' => 'gra', 'Gorai.013G194800' => 'gra', 'Gorai.013G257900' => 'gra', 'GSVIVG01000982001' => 'vvi', 'GSVIVG01017981001' => 'vvi', 'HanXRQChr01g0024061' => 'han', 'HanXRQChr09g0247831' => 'han', 'HanXRQChr10g0294611' => 'han', 'HanXRQChr10g0294621' => 'han', 'HanXRQChr11g0346821' => 'han', 'HanXRQChr13g0397461' => 'han', 'HanXRQChr16g0513651' => 'han', 'HanXRQChr16g0513701' => 'han', 'Haze_00897' => 'cav', 'Haze_01745' => 'cav', 'Haze_02486' => 'cav', 'Haze_02487' => 'cav', 'Haze_23374' => 'cav', 'Hma1.2p1_0578F.1_g182520' => 'hma', 'Hma1.2p1_0602F.1_g187350' => 'hma', 'Hma1.2p1_0602F.1_g187360' => 'hma', 'Hma1.2p1_0874F.1_g231320' => 'hma', 'Hma1.2p1_1197F.1_g266210' => 'hma', 'Hma1.2p1_1197F.1_g266220' => 'hma', 'Hma1.2p1_2167F.1_g315895' => 'hma', 'Hma1.2p1_2190F.1_g316640' => 'hma', 'Hma1.2p1_3645F.1_g337153' => 'hma', 'HPP92_004907' => 'vpl', 'HPP92_012134' => 'vpl', 'HPP92_025136' => 'vpl', 'HPP92_026087' => 'vpl', 'Hund06782' => 'sun', 'Hund06784' => 'sun', 'Lalb_Chr01g0004861' => 'lal', 'Lalb_Chr02g0140591' => 'lal', 'Lalb_Chr02g0140611' => 'lal', 'Lalb_Chr03g0028101' => 'lal', 'Lalb_Chr07g0185791' => 'lal', 'Lalb_Chr12g0204491' => 'lal', 'Lalb_Chr13g0295671' => 'lal', 'Lalb_Chr19g0136461' => 'lal', 'Lalb_Chr21g0309191' => 'lal', 'Lj1g0028158' => 'lja', 'Lj1P236T38' => 'lonja', 'Lj2C32G2' => 'lonja', 'Lj2P944T8' => 'lonja', 'Lj2P963T15' => 'lonja', 'Lj3g0011788' => 'lja', 'Lj4g0025027' => 'lja', 'Lj5P255T36' => 'lonja', 'Lj6g0018866' => 'lja', 'Lj6P608T31' => 'lonja', 'LjContig00408g0008879' => 'lja', 'Lsat_1_v5_gn_5_105820' => 'lsa', 'Lsat_1_v5_gn_6_38800' => 'lsa', 'Lsat_1_v5_gn_7_67141' => 'lsa', 'Manes.04G003400' => 'mes', 'Manes.07G020000' => 'mes', 'Manes.07G020100' => 'mes', 'Manes.07G020150' => 'mes', 'Manes.10G061500' => 'mes', 'Manes.10G123200' => 'mes', 'Manes.11G161900' => 'mes', 'Manes.15G029300' => 'mes', 'Mapoly0071s0018' => 'mpo', 'Mapoly0082s0023' => 'mpo', 'Mapoly3477s0001' => 'mpo', 'MBI05_g31233_MAGBIO' => 'mbi', 'MBI09_g05946_MAGBIO' => 'mbi', 'MBI09_g05947_MAGBIO' => 'mbi', 'MBI17_g08346_MAGBIO' => 'mbi', 'MCO04G038' => 'mco', 'MCO09G370' => 'mco', 'MCO13G605' => 'mco', 'MD00G1075500' => 'mdo', 'MD03G1144300' => 'mdo', 'MD08G1236800' => 'mdo', 'MD13G1193300' => 'mdo', 'MD15G1428700' => 'mdo', 'Medtr1g112030' => 'mtr', 'Medtr1g112050' => 'mtr', 'Medtr2g006290' => 'mtr', 'Medtr2g086510' => 'mtr', 'Medtr4g053120' => 'mtr', 'Medtr5g006320' => 'mtr', 'Medtr8g088720' => 'mtr', 'MELO3C004712.2' => 'cme', 'MELO3C006533.2' => 'cme', 'MELO3C019438.2' => 'cme', 'MELO3C019440.2' => 'cme', 'MELO3C019441.2' => 'cme', 'MELO3C019895.2' => 'cme', 'Migut.B00811' => 'egut', 'Migut.D02447' => 'egut', 'Migut.F00875' => 'egut', 'Migut.N00186' => 'egut', 'Migut.N01051' => 'egut', 'Migut.N02491' => 'egut', 'Migut.O00784' => 'egut', 'MSTRG.12367' => 'ama', 'MSTRG.18756' => 'ama', 'MSTRG.21042' => 'ama', 'Nitab4.5_0000559g0040' => 'nta', 'Nitab4.5_0000667g0190' => 'nta', 'Nitab4.5_0000755g0160' => 'nta', 'Nitab4.5_0001216g0080' => 'nta', 'Nitab4.5_0004069g0040' => 'nta', 'Nitab4.5_0004129g0010' => 'nta', 'Nitab4.5_0005744g0030' => 'nta', 'Nitab4.5_0006996g0030' => 'nta', 'Nitab4.5_0008971g0040' => 'nta', 'Nitab4.5_0009769g0020' => 'nta', 'Nitab4.5_0009833g0010' => 'nta', 'Nitab4.5_0013140g0020' => 'nta', 'Nn003s41376' => 'nnu', 'Nn1g01857' => 'nnu', 'Nn1g03611' => 'nnu', 'Nn1g06853' => 'nnu', 'Nn3g18360' => 'nnu', 'Nn4g26328' => 'nnu', 'Nn5g27531' => 'nnu', 'Nn6g34899' => 'nnu', 'Nn7g36299' => 'nnu', 'Oeu021485.1' => 'oeu', 'Oeu022433.1' => 'oeu', 'Oeu032111.1' => 'oeu', 'Oeu051608.1' => 'oeu', 'Os01g0860601' => 'osa', 'Os03g0659200' => 'osa', 'Os03g0835900' => 'osa', 'Os04g0412200' => 'osa', 'Os05g0443500' => 'osa', 'Os07g0251500' => 'osa', 'Os08g0104600' => 'osa', 'Peaxi162Scf00003g00047' => 'pax', 'Peaxi162Scf00003g00052' => 'pax', 'Peaxi162Scf00003g00394' => 'pax', 'Peaxi162Scf00091g00621' => 'pax', 'Peaxi162Scf00152g00146' => 'pax', 'Peaxi162Scf00173g00025' => 'pax', 'Peaxi162Scf00195g00102' => 'pax', 'Peaxi162Scf00402g00013' => 'pax', 'Peaxi162Scf00519g00618' => 'pax', 'PGR004G2838' => 'pgr', 'PGR044G2275' => 'pgr', 'PGR102G1377' => 'pgr', 'PGR119G1245' => 'pgr', 'PGR142G4449' => 'pgr', 'PGSC0003DMG400004532' => 'stu', 'PGSC0003DMG400011950' => 'stu', 'PGSC0003DMG400023391' => 'stu', 'PGSC0003DMG400023985' => 'stu', 'PGSC0003DMG400026360' => 'stu', 'PGSC0003DMG400035711' => 'stu', 'PGSC0003DMG400037286' => 'stu', 'PGSC0003DMG402005881' => 'stu', 'Phvul.002G045400' => 'pvu', 'Phvul.006G216600' => 'pvu', 'Phvul.006G216700' => 'pvu', 'Phvul.006G216800' => 'pvu', 'Phvul.007G022500' => 'pvu', 'Phvul.011G094400' => 'pvu', 'Potri.001G470700' => 'ptr', 'Potri.003G015200' => 'ptr', 'Potri.004G202500' => 'ptr', 'Potri.004G218400' => 'ptr', 'Potri.008G020100' => 'ptr', 'Potri.008G153200' => 'ptr', 'Potri.009G163800' => 'ptr', 'Potri.010G087300' => 'ptr', 'Potri.010G239100' => 'ptr', 'Pp3c10_16100' => 'ppa', 'Pp3c10_16880' => 'ppa', 'Pp3c16_6230' => 'ppa', 'Pp3c17_18910' => 'ppa', 'Pp3c3_22119' => 'ppa', 'Pp3c3_22140' => 'ppa', 'Pp3c4_8159' => 'ppa', 'Pp3c4_8171' => 'ppa', 'Pp3c4_8330' => 'ppa', 'PRCOL_00004098' => 'pco', 'Prupe.1G013900' => 'ppe', 'Prupe.1G226300' => 'ppe', 'Prupe.1G573600' => 'ppe', 'Prupe.6G130100' => 'ppe', 'Psat3g090040' => 'psa', 'Psat4g210440' => 'psa', 'Psat6g231040' => 'psa', 'Psat6g231080' => 'psa', 'Psat7g063000' => 'psa', 'Psat7g188000' => 'psa', 'Psat7g188040' => 'psa', 'PSO017G0206' => 'pso', 'PSO170G0501' => 'pso', 'PSO170G6422' => 'pso', 'PSO210G7739' => 'pso', 'PSO339G1808' => 'pso', 'PSO339G6135' => 'pso', 'PSO384G0010' => 'pso', 'PSO384G0964' => 'pso', 'PSO761G0050' => 'pso', 'PSO782G4085' => 'pso', 'QL01p012264' => 'qlo', 'QL02p099491' => 'qlo', 'QL03p033868' => 'qlo', 'QL04p046678' => 'qlo', 'QL06p002448' => 'qlo', 'RcHm_v2.0_Chr4g0416181' => 'rch', 'RcHm_v2.0_Chr5g0044701' => 'rch', 'RcHm_v2.0_Chr6g0265781' => 'rch', 'RcHm_v2.0_Chr7g0221031' => 'rch', 'Rhsim04G0202000' => 'rsi', 'Rhsim11G0127300' => 'rsi', 'Rhsim13G0111800' => 'rsi', 'Sabra01G0165600' => 'sbr', 'Sabra03G0008300' => 'sbr', 'Sabra04G0136900' => 'sbr', 'Sabra08G0013400' => 'sbr', 'Sabra08G0116800' => 'sbr', 'Sabra09G0128000' => 'sbr', 'Sabra10G0055500' => 'sbr', 'Sabra10G0073300' => 'sbr', 'SalBow3G0385' => 'sbo', 'SalBow3G1119' => 'sbo', 'SalBow3G2005' => 'sbo', 'SalBow6G2563' => 'sbo', 'SalBow6G6386' => 'sbo', 'Sc06g0008800' => 'sci', 'Sc07g0004950' => 'sci', 'Sc09g0005340' => 'sci', 'Sc13g0004410' => 'sci', 'Sc21g0007090' => 'sci', 'Sed0009285' => 'sed', 'Sed0017583' => 'sed', 'Sed0019699' => 'sed', 'Sed0023107' => 'sed', 'SEGI_10916' => 'sgi', 'SEGI_16217' => 'sgi', 'SEGI_19466' => 'sgi', 'SEGI_41115' => 'sgi', 'SGA_v2.0_scaffold111G31534' => 'sas', 'SGA_v2.0_scaffold22G09864' => 'sas', 'SGA_v2.0_scaffold338G49219' => 'sas', 'SGA_v2.0_scaffold92G28298' => 'sas', 'SMO119G0064' => 'smo', 'SMO223G0038' => 'smo', 'SMO347G0584' => 'smo', 'SMO351G0010' => 'smo', 'SMO356G0404' => 'smo', 'Solyc01g103920.3' => 'sly', 'Solyc04g009710.2' => 'sly', 'Solyc05g055280.2' => 'sly', 'Solyc10g044520.3' => 'sly', 'Solyc10g075160.1' => 'sly', 'Solyc11g006910.3' => 'sly', 'Solyc11g068430.3' => 'sly', 'Sopen01g046310' => 'spe', 'Sopen03g001200' => 'spe', 'Sopen04g004830' => 'spe', 'Sopen05g033720' => 'spe', 'Sopen06g030740' => 'spe', 'Sopen10g013090' => 'spe', 'Sopen10g027630' => 'spe', 'Sopen10g027640' => 'spe', 'Sopen11g002820' => 'spe', 'Sopen11g027140' => 'spe', 'Sp1g09680' => 'spa', 'Sp2g03630' => 'spa', 'Sp4g10320' => 'spa', 'Sp6g33400' => 'spa', 'Sp7g13030' => 'spa', 'TAR365G0317' => 'tar', 'TAR376G0979' => 'tar', 'TAR623G1665' => 'tar', 'TAR633G2373' => 'tar', 'TAR636G1400' => 'tar', 'THA.LOC104800529' => 'tha', 'THA.LOC104808547' => 'tha', 'THA.LOC104809615' => 'tha', 'THA.LOC104815724' => 'tha', 'THA.LOC104818480' => 'tha', 'THA.LOC104819179' => 'tha', 'THA.LOC104822270' => 'tha', 'THA.LOC104826425' => 'tha', 'Thecc.02G089700' => 'tca', 'Thecc.04G232300' => 'tca', 'Thecc.09G283400' => 'tca', 'Thhalv10009020m.g' => 'esa', 'Thhalv10015506m.g' => 'esa', 'Thhalv10017364m.g' => 'esa', 'Thhalv10023742m.g' => 'esa', 'Thhalv10026483m.g' => 'esa', 'TPR.G17232' => 'tpr', 'TPR.G2133' => 'tpr', 'TPR.G2498' => 'tpr', 'TPR.G31942' => 'tpr', 'TPR.G37877' => 'tpr', 'TPR.G4571' => 'tpr', 'TWI14G1113' => 'twi', 'TWI15G0426' => 'twi', 'TWI31G1005' => 'twi', 'TWI38G0513' => 'twi', 'TWI38G1484' => 'twi', 'TWI73G1098' => 'twi', 'unitig_26.g10519' => 'ugi', 'unitig_736.g22395' => 'ugi', 'unitig_747.g21234' => 'ugi', 'unitig_747.g21942' => 'ugi', 'vmacro14351' => 'vma', 'VMungo0540G0082' => 'vmu', 'VMungo0540G0405' => 'vmu', 'VMungo0540G1486' => 'vmu', 'VMungo0540G1692' => 'vmu', 'VMungo0720G2473' => 'vmu', 'VMungo1127G1562' => 'vmu', 'VMungo1215G1918' => 'vmu', 'Zm00001eb052650' => 'zma', 'Zm00001eb063710' => 'zma', 'Zm00001eb083950' => 'zma', 'Zm00001eb174420' => 'zma', 'Zm00001eb260140' => 'zma', 'Zm00001eb260150' => 'zma', 'Zm00001eb260160' => 'zma', 'Zm00001eb348290' => 'zma', 'Zm00001eb366870' => 'zma', 'Zm00001eb421930' => 'zma' ), 'gf_id' => 'HOM05D001025', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001025' ), 'data_identifier' => 'HOM05D001025', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001025', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '592', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p22650' => 'bna', 'A01p29720' => 'bna', 'A03p26560' => 'bna', 'A03p68820' => 'bna', 'A04p20980' => 'bna', 'A06p07730' => 'bna', 'A07p18260' => 'bna', 'A08p33710' => 'bna', 'A09p16970' => 'bna', 'A10p27490' => 'bna', 'Aa31LG1G17300' => 'aar', 'Aa31LG1G3910' => 'aar', 'Aa31LG2G9630' => 'aar', 'Aa31LG5G8360' => 'aar', 'Aa31LG9G2410' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4699' => 'aag', 'Actinidia23512' => 'ach', 'Actinidia37080' => 'ach', 'Ah.01g020380' => 'amhyb', 'Ah.08g215710' => 'amhyb', 'Ah.09g225110' => 'amhyb', 'Ah.10g036680' => 'amhyb', 'AL1G21940' => 'aly', 'AL2G15540' => 'aly', 'AL4G21520' => 'aly', 'AL7G40960' => 'aly', 'Aqoxy2G01191' => 'aox', 'Aqoxy2G03393' => 'aox', 'Aqoxy4G02775' => 'aox', 'Aqoxy6G00058' => 'aox', 'arahy.Tifrunner.gnm1.ann1.9X74H2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CW3FX9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R485W7' => 'arhy', 'AT1G10960' => 'ath', 'AT1G60950' => 'ath', 'AT2G27510' => 'ath', 'AT4G14890' => 'ath', 'AT5G10000' => 'ath', 'ATR0665G624' => 'atr', 'ATR0697G138' => 'atr', 'ATR0776G046' => 'atr', 'ATR1134G135' => 'atr', 'Atru.chr12.1025' => 'acertr', 'Atru.chr3.3241' => 'acertr', 'Atru.chr4.2460' => 'acertr', 'AUR62007427' => 'cqu', 'AUR62010960' => 'cqu', 'AUR62012201' => 'cqu', 'AUR62021470' => 'cqu', 'AUR62022834' => 'cqu', 'AUR62033635' => 'cqu', 'AUR62036186' => 'cqu', 'BcaB01g03077' => 'bca', 'BcaB02g10093' => 'bca', 'BcaB04g20295' => 'bca', 'BcaB06g28147' => 'bca', 'BcaB07g31253' => 'bca', 'BcaC01g04946' => 'bca', 'BcaC02g10614' => 'bca', 'BcaC02g10885' => 'bca', 'BcaC04g19356' => 'bca', 'BcaC04g22297' => 'bca', 'BcaC05g24977' => 'bca', 'BcaC06g31823' => 'bca', 'BcaC07g38633' => 'bca', 'BcaC09g49353' => 'bca', 'BcaC09g50168' => 'bca', 'BcaNung00322' => 'bca', 'BcaNung04769' => 'bca', 'BolC1t02753H' => 'bol', 'BolC1t03721H' => 'bol', 'BolC3t15525H' => 'bol', 'BolC4t23903H' => 'bol', 'BolC4t24231H' => 'bol', 'BolC4t27209H' => 'bol', 'BolC5t29671H' => 'bol', 'BolC8t49044H' => 'bol', 'BolC9t54999H' => 'bol', 'BolC9t59517H' => 'bol', 'BraA01t02178Z' => 'bra', 'BraA01t03099Z' => 'bra', 'BraA03t11867Z' => 'bra', 'BraA04t17667Z' => 'bra', 'BraA07t29542Z' => 'bra', 'BraA08t35287Z' => 'bra', 'BraA09t37334Z' => 'bra', 'BraA10t44801Z' => 'bra', 'BraSC39t46181Z' => 'bra', 'C01p28240' => 'bna', 'C01p37530' => 'bna', 'C03p31820' => 'bna', 'C04p24080' => 'bna', 'C04p25790' => 'bna', 'C04p56770' => 'bna', 'C05p09310' => 'bna', 'C09p21010' => 'bna', 'C09p67560' => 'bna', 'CAN.G1324.7' => 'can', 'CAN.G1358.10' => 'can', 'CAN.G1550.2' => 'can', 'CAN.G186.56' => 'can', 'CAN.G1965.1' => 'can', 'CAN.G645.15' => 'can', 'CAN.G798.26' => 'can', 'CAN.G798.27' => 'can', 'CAN.G798.29' => 'can', 'CAN.G919.31' => 'can', 'CANSAT11G0133' => 'cansat', 'CANSAT11G1171' => 'cansat', 'CANSAT11G2056' => 'cansat', 'CANSAT56G1202' => 'cansat', 'CANSAT56G1514' => 'cansat', 'CANSAT78G0455' => 'cansat', 'CARHR011190' => 'chi', 'CARHR051980' => 'chi', 'CARHR120170' => 'chi', 'CARHR203310' => 'chi', 'CARHR221490' => 'chi', 'Carub.0001s1054' => 'cru', 'Carub.0002s0431' => 'cru', 'Carub.0004s0818' => 'cru', 'Carub.0006s0846' => 'cru', 'Carub.0007s2722' => 'cru', 'Ca_00058_v3' => 'car', 'Ca_17831_v3' => 'car', 'Ca_19408_v3' => 'car', 'Ca_24397_v3' => 'car', 'Ca_25664_v3' => 'car', 'CBR_g21818' => 'cbr', 'CBR_g31195' => 'cbr', 'CBR_g32282' => 'cbr', 'CBR_g39599' => 'cbr', 'CBR_g49410' => 'cbr', 'Cc01_g09120' => 'ccan', 'Cc01_g09130' => 'ccan', 'Cc02_g09630' => 'ccan', 'Cc02_g22810' => 'ccan', 'Cc03_g03810' => 'ccan', 'CDE02G3718' => 'cde', 'CDE04G3183' => 'cde', 'CDE07G1046' => 'cde', 'CDE08G0480' => 'cde', 'Cfa005493' => 'cfa', 'Cfa010312' => 'cfa', 'Cfa015648' => 'cfa', 'Ciclev10002793m.g' => 'ccl', 'Ciclev10003356m.g' => 'ccl', 'Ciclev10006141m.g' => 'ccl', 'Ciclev10016676m.g' => 'ccl', 'Ciclev10017081m.g' => 'ccl', 'Ciclev10029499m.g' => 'ccl', 'CiPaw.01G166300' => 'cil', 'CiPaw.06G145600' => 'cil', 'CiPaw.13G040100' => 'cil', 'CiPaw.13G135800' => 'cil', 'ClCG01G012230' => 'cla', 'ClCG05G009510' => 'cla', 'ClCG08G008270' => 'cla', 'COL.COLO4_11763' => 'col', 'COL.COLO4_19876' => 'col', 'COL.COLO4_21481' => 'col', 'Cpa.g.sc118.34' => 'cpa', 'Cpa.g.sc32.13' => 'cpa', 'Cpa.g.sc58.103' => 'cpa', 'Cre03.g183850' => 'cre', 'Cre06.g306350' => 'cre', 'Cre07.g334800' => 'cre', 'Cre12.g487900' => 'cre', 'Cre14.g626700' => 'cre', 'Cre16.g658400' => 'cre', 'Cre17.g700950' => 'cre', 'CsaV3_1G014830' => 'csa', 'CsaV3_3G013320' => 'csa', 'CsaV3_3G019210' => 'csa', 'CsaV3_3G019220' => 'csa', 'CsaV3_6G004230' => 'csa', 'CSS0003773' => 'camsi', 'CSS0004563' => 'camsi', 'CSS0013949' => 'camsi', 'CSS0025971' => 'camsi', 'CSS0028570' => 'camsi', 'CSS0033127' => 'camsi', 'CSS0036051' => 'camsi', 'CSS0040087' => 'camsi', 'CSS0043179' => 'camsi', 'DCAR_006161' => 'dca', 'DCAR_010351' => 'dca', 'DCAR_012197' => 'dca', 'DCAR_024162' => 'dca', 'Dinv01030' => 'din', 'Dinv10924' => 'din', 'Dinv11835' => 'din', 'Dinv22841' => 'din', 'Dinv42553' => 'din', 'Duzib052G0560' => 'dzi', 'Duzib132G0389' => 'dzi', 'Duzib150G1181' => 'dzi', 'Duzib168G0623' => 'dzi', 'Duzib170G1036' => 'dzi', 'Duzib212G0200' => 'dzi', 'Duzib248G0194' => 'dzi', 'ECA232G2193' => 'eca', 'ECA233G0302' => 'eca', 'ECA234G2813' => 'eca', 'ECA234G4866' => 'eca', 'ECA240G3932' => 'eca', 'ECA248G0385' => 'eca', 'EL10Ac2g04781' => 'bvu', 'EL10Ac3g06445' => 'bvu', 'EL10Ac7g15825' => 'bvu', 'EL10Ac8g18550' => 'bvu', 'Eucgr.B03849' => 'egr', 'Eucgr.I02744' => 'egr', 'Eucgr.J00264' => 'egr', 'Eucgr.J00493' => 'egr', 'FAN04G2181' => 'fan', 'FAN07G2666' => 'fan', 'FAN11G0024' => 'fan', 'FAN12G1105' => 'fan', 'FAN13G0302' => 'fan', 'FAN15G2781' => 'fan', 'FAN16G1274' => 'fan', 'FAN17G2988' => 'fan', 'FAN18G2621' => 'fan', 'FAN21G0013' => 'fan', 'FAN22G1211' => 'fan', 'FAN25G3626' => 'fan', 'FvH4_2g09491' => 'fve', 'FvH4_3g24910' => 'fve', 'FvH4_4g15630' => 'fve', 'FvH4_5g28820' => 'fve', 'Glyma.01G238000' => 'gma', 'Glyma.05G168400' => 'gma', 'Glyma.08G126800' => 'gma', 'Glyma.08G188500' => 'gma', 'Glyma.10G278900' => 'gma', 'Glyma.11G005700' => 'gma', 'Glyma.11G183300' => 'gma', 'Glyma.12G089200' => 'gma', 'Glyma.12G169400' => 'gma', 'Glyma.12G169500' => 'gma', 'Glyma.12G169600' => 'gma', 'Glyma.20G110800' => 'gma', 'Gohir.A03G192900' => 'ghi', 'Gohir.A03G193000' => 'ghi', 'Gohir.A05G080700' => 'ghi', 'Gohir.A09G216000' => 'ghi', 'Gohir.A12G027700' => 'ghi', 'Gohir.A13G036200' => 'ghi', 'Gohir.A13G222600' => 'ghi', 'Gohir.D02G213900' => 'ghi', 'Gohir.D02G214000' => 'ghi', 'Gohir.D05G083700' => 'ghi', 'Gohir.D05G083800' => 'ghi', 'Gohir.D05G083850' => 'ghi', 'Gohir.D08G015400' => 'ghi', 'Gohir.D09G218400' => 'ghi', 'Gohir.D12G027100' => 'ghi', 'Gohir.D13G034500' => 'ghi', 'Gohir.D13G227400' => 'ghi', 'Gorai.005G241800' => 'gra', 'Gorai.005G241900' => 'gra', 'Gorai.006G239400' => 'gra', 'Gorai.008G027600' => 'gra', 'Gorai.009G085400' => 'gra', 'Gorai.009G085500' => 'gra', 'Gorai.013G039000' => 'gra', 'Gorai.013G194800' => 'gra', 'Gorai.013G257900' => 'gra', 'GSVIVG01000982001' => 'vvi', 'GSVIVG01017981001' => 'vvi', 'HanXRQChr01g0024061' => 'han', 'HanXRQChr09g0247831' => 'han', 'HanXRQChr10g0294611' => 'han', 'HanXRQChr10g0294621' => 'han', 'HanXRQChr11g0346821' => 'han', 'HanXRQChr13g0397461' => 'han', 'HanXRQChr16g0513651' => 'han', 'HanXRQChr16g0513701' => 'han', 'Haze_00897' => 'cav', 'Haze_01745' => 'cav', 'Haze_02486' => 'cav', 'Haze_02487' => 'cav', 'Haze_23374' => 'cav', 'Hma1.2p1_0578F.1_g182520' => 'hma', 'Hma1.2p1_0602F.1_g187350' => 'hma', 'Hma1.2p1_0602F.1_g187360' => 'hma', 'Hma1.2p1_0874F.1_g231320' => 'hma', 'Hma1.2p1_1197F.1_g266210' => 'hma', 'Hma1.2p1_1197F.1_g266220' => 'hma', 'Hma1.2p1_2167F.1_g315895' => 'hma', 'Hma1.2p1_2190F.1_g316640' => 'hma', 'Hma1.2p1_3645F.1_g337153' => 'hma', 'HPP92_004907' => 'vpl', 'HPP92_012134' => 'vpl', 'HPP92_025136' => 'vpl', 'HPP92_026087' => 'vpl', 'Hund06782' => 'sun', 'Hund06784' => 'sun', 'Lalb_Chr01g0004861' => 'lal', 'Lalb_Chr02g0140591' => 'lal', 'Lalb_Chr02g0140611' => 'lal', 'Lalb_Chr03g0028101' => 'lal', 'Lalb_Chr07g0185791' => 'lal', 'Lalb_Chr12g0204491' => 'lal', 'Lalb_Chr13g0295671' => 'lal', 'Lalb_Chr19g0136461' => 'lal', 'Lalb_Chr21g0309191' => 'lal', 'Lj1g0028158' => 'lja', 'Lj1P236T38' => 'lonja', 'Lj2C32G2' => 'lonja', 'Lj2P944T8' => 'lonja', 'Lj2P963T15' => 'lonja', 'Lj3g0011788' => 'lja', 'Lj4g0025027' => 'lja', 'Lj5P255T36' => 'lonja', 'Lj6g0018866' => 'lja', 'Lj6P608T31' => 'lonja', 'LjContig00408g0008879' => 'lja', 'Lsat_1_v5_gn_5_105820' => 'lsa', 'Lsat_1_v5_gn_6_38800' => 'lsa', 'Lsat_1_v5_gn_7_67141' => 'lsa', 'Manes.04G003400' => 'mes', 'Manes.07G020000' => 'mes', 'Manes.07G020100' => 'mes', 'Manes.07G020150' => 'mes', 'Manes.10G061500' => 'mes', 'Manes.10G123200' => 'mes', 'Manes.11G161900' => 'mes', 'Manes.15G029300' => 'mes', 'Mapoly0071s0018' => 'mpo', 'Mapoly0082s0023' => 'mpo', 'Mapoly3477s0001' => 'mpo', 'MBI05_g31233_MAGBIO' => 'mbi', 'MBI09_g05946_MAGBIO' => 'mbi', 'MBI09_g05947_MAGBIO' => 'mbi', 'MBI17_g08346_MAGBIO' => 'mbi', 'MCO04G038' => 'mco', 'MCO09G370' => 'mco', 'MCO13G605' => 'mco', 'MD00G1075500' => 'mdo', 'MD03G1144300' => 'mdo', 'MD08G1236800' => 'mdo', 'MD13G1193300' => 'mdo', 'MD15G1428700' => 'mdo', 'Medtr1g112030' => 'mtr', 'Medtr1g112050' => 'mtr', 'Medtr2g006290' => 'mtr', 'Medtr2g086510' => 'mtr', 'Medtr4g053120' => 'mtr', 'Medtr5g006320' => 'mtr', 'Medtr8g088720' => 'mtr', 'MELO3C004712.2' => 'cme', 'MELO3C006533.2' => 'cme', 'MELO3C019438.2' => 'cme', 'MELO3C019440.2' => 'cme', 'MELO3C019441.2' => 'cme', 'MELO3C019895.2' => 'cme', 'Migut.B00811' => 'egut', 'Migut.D02447' => 'egut', 'Migut.F00875' => 'egut', 'Migut.N00186' => 'egut', 'Migut.N01051' => 'egut', 'Migut.N02491' => 'egut', 'Migut.O00784' => 'egut', 'MSTRG.12367' => 'ama', 'MSTRG.18756' => 'ama', 'MSTRG.21042' => 'ama', 'Nitab4.5_0000559g0040' => 'nta', 'Nitab4.5_0000667g0190' => 'nta', 'Nitab4.5_0000755g0160' => 'nta', 'Nitab4.5_0001216g0080' => 'nta', 'Nitab4.5_0004069g0040' => 'nta', 'Nitab4.5_0004129g0010' => 'nta', 'Nitab4.5_0005744g0030' => 'nta', 'Nitab4.5_0006996g0030' => 'nta', 'Nitab4.5_0008971g0040' => 'nta', 'Nitab4.5_0009769g0020' => 'nta', 'Nitab4.5_0009833g0010' => 'nta', 'Nitab4.5_0013140g0020' => 'nta', 'Nn003s41376' => 'nnu', 'Nn1g01857' => 'nnu', 'Nn1g03611' => 'nnu', 'Nn1g06853' => 'nnu', 'Nn3g18360' => 'nnu', 'Nn4g26328' => 'nnu', 'Nn5g27531' => 'nnu', 'Nn6g34899' => 'nnu', 'Nn7g36299' => 'nnu', 'Oeu021485.1' => 'oeu', 'Oeu022433.1' => 'oeu', 'Oeu032111.1' => 'oeu', 'Oeu051608.1' => 'oeu', 'Os01g0860601' => 'osa', 'Os03g0659200' => 'osa', 'Os03g0835900' => 'osa', 'Os04g0412200' => 'osa', 'Os05g0443500' => 'osa', 'Os07g0251500' => 'osa', 'Os08g0104600' => 'osa', 'Peaxi162Scf00003g00047' => 'pax', 'Peaxi162Scf00003g00052' => 'pax', 'Peaxi162Scf00003g00394' => 'pax', 'Peaxi162Scf00091g00621' => 'pax', 'Peaxi162Scf00152g00146' => 'pax', 'Peaxi162Scf00173g00025' => 'pax', 'Peaxi162Scf00195g00102' => 'pax', 'Peaxi162Scf00402g00013' => 'pax', 'Peaxi162Scf00519g00618' => 'pax', 'PGR004G2838' => 'pgr', 'PGR044G2275' => 'pgr', 'PGR102G1377' => 'pgr', 'PGR119G1245' => 'pgr', 'PGR142G4449' => 'pgr', 'PGSC0003DMG400004532' => 'stu', 'PGSC0003DMG400011950' => 'stu', 'PGSC0003DMG400023391' => 'stu', 'PGSC0003DMG400023985' => 'stu', 'PGSC0003DMG400026360' => 'stu', 'PGSC0003DMG400035711' => 'stu', 'PGSC0003DMG400037286' => 'stu', 'PGSC0003DMG402005881' => 'stu', 'Phvul.002G045400' => 'pvu', 'Phvul.006G216600' => 'pvu', 'Phvul.006G216700' => 'pvu', 'Phvul.006G216800' => 'pvu', 'Phvul.007G022500' => 'pvu', 'Phvul.011G094400' => 'pvu', 'Potri.001G470700' => 'ptr', 'Potri.003G015200' => 'ptr', 'Potri.004G202500' => 'ptr', 'Potri.004G218400' => 'ptr', 'Potri.008G020100' => 'ptr', 'Potri.008G153200' => 'ptr', 'Potri.009G163800' => 'ptr', 'Potri.010G087300' => 'ptr', 'Potri.010G239100' => 'ptr', 'Pp3c10_16100' => 'ppa', 'Pp3c10_16880' => 'ppa', 'Pp3c16_6230' => 'ppa', 'Pp3c17_18910' => 'ppa', 'Pp3c3_22119' => 'ppa', 'Pp3c3_22140' => 'ppa', 'Pp3c4_8159' => 'ppa', 'Pp3c4_8171' => 'ppa', 'Pp3c4_8330' => 'ppa', 'PRCOL_00004098' => 'pco', 'Prupe.1G013900' => 'ppe', 'Prupe.1G226300' => 'ppe', 'Prupe.1G573600' => 'ppe', 'Prupe.6G130100' => 'ppe', 'Psat3g090040' => 'psa', 'Psat4g210440' => 'psa', 'Psat6g231040' => 'psa', 'Psat6g231080' => 'psa', 'Psat7g063000' => 'psa', 'Psat7g188000' => 'psa', 'Psat7g188040' => 'psa', 'PSO017G0206' => 'pso', 'PSO170G0501' => 'pso', 'PSO170G6422' => 'pso', 'PSO210G7739' => 'pso', 'PSO339G1808' => 'pso', 'PSO339G6135' => 'pso', 'PSO384G0010' => 'pso', 'PSO384G0964' => 'pso', 'PSO761G0050' => 'pso', 'PSO782G4085' => 'pso', 'QL01p012264' => 'qlo', 'QL02p099491' => 'qlo', 'QL03p033868' => 'qlo', 'QL04p046678' => 'qlo', 'QL06p002448' => 'qlo', 'RcHm_v2.0_Chr4g0416181' => 'rch', 'RcHm_v2.0_Chr5g0044701' => 'rch', 'RcHm_v2.0_Chr6g0265781' => 'rch', 'RcHm_v2.0_Chr7g0221031' => 'rch', 'Rhsim04G0202000' => 'rsi', 'Rhsim11G0127300' => 'rsi', 'Rhsim13G0111800' => 'rsi', 'Sabra01G0165600' => 'sbr', 'Sabra03G0008300' => 'sbr', 'Sabra04G0136900' => 'sbr', 'Sabra08G0013400' => 'sbr', 'Sabra08G0116800' => 'sbr', 'Sabra09G0128000' => 'sbr', 'Sabra10G0055500' => 'sbr', 'Sabra10G0073300' => 'sbr', 'SalBow3G0385' => 'sbo', 'SalBow3G1119' => 'sbo', 'SalBow3G2005' => 'sbo', 'SalBow6G2563' => 'sbo', 'SalBow6G6386' => 'sbo', 'Sc06g0008800' => 'sci', 'Sc07g0004950' => 'sci', 'Sc09g0005340' => 'sci', 'Sc13g0004410' => 'sci', 'Sc21g0007090' => 'sci', 'Sed0009285' => 'sed', 'Sed0017583' => 'sed', 'Sed0019699' => 'sed', 'Sed0023107' => 'sed', 'SEGI_10916' => 'sgi', 'SEGI_16217' => 'sgi', 'SEGI_19466' => 'sgi', 'SEGI_41115' => 'sgi', 'SGA_v2.0_scaffold111G31534' => 'sas', 'SGA_v2.0_scaffold22G09864' => 'sas', 'SGA_v2.0_scaffold338G49219' => 'sas', 'SGA_v2.0_scaffold92G28298' => 'sas', 'SMO119G0064' => 'smo', 'SMO223G0038' => 'smo', 'SMO347G0584' => 'smo', 'SMO351G0010' => 'smo', 'SMO356G0404' => 'smo', 'Solyc01g103920.3' => 'sly', 'Solyc04g009710.2' => 'sly', 'Solyc05g055280.2' => 'sly', 'Solyc10g044520.3' => 'sly', 'Solyc10g075160.1' => 'sly', 'Solyc11g006910.3' => 'sly', 'Solyc11g068430.3' => 'sly', 'Sopen01g046310' => 'spe', 'Sopen03g001200' => 'spe', 'Sopen04g004830' => 'spe', 'Sopen05g033720' => 'spe', 'Sopen06g030740' => 'spe', 'Sopen10g013090' => 'spe', 'Sopen10g027630' => 'spe', 'Sopen10g027640' => 'spe', 'Sopen11g002820' => 'spe', 'Sopen11g027140' => 'spe', 'Sp1g09680' => 'spa', 'Sp2g03630' => 'spa', 'Sp4g10320' => 'spa', 'Sp6g33400' => 'spa', 'Sp7g13030' => 'spa', 'TAR365G0317' => 'tar', 'TAR376G0979' => 'tar', 'TAR623G1665' => 'tar', 'TAR633G2373' => 'tar', 'TAR636G1400' => 'tar', 'THA.LOC104800529' => 'tha', 'THA.LOC104808547' => 'tha', 'THA.LOC104809615' => 'tha', 'THA.LOC104815724' => 'tha', 'THA.LOC104818480' => 'tha', 'THA.LOC104819179' => 'tha', 'THA.LOC104822270' => 'tha', 'THA.LOC104826425' => 'tha', 'Thecc.02G089700' => 'tca', 'Thecc.04G232300' => 'tca', 'Thecc.09G283400' => 'tca', 'Thhalv10009020m.g' => 'esa', 'Thhalv10015506m.g' => 'esa', 'Thhalv10017364m.g' => 'esa', 'Thhalv10023742m.g' => 'esa', 'Thhalv10026483m.g' => 'esa', 'TPR.G17232' => 'tpr', 'TPR.G2133' => 'tpr', 'TPR.G2498' => 'tpr', 'TPR.G31942' => 'tpr', 'TPR.G37877' => 'tpr', 'TPR.G4571' => 'tpr', 'TWI14G1113' => 'twi', 'TWI15G0426' => 'twi', 'TWI31G1005' => 'twi', 'TWI38G0513' => 'twi', 'TWI38G1484' => 'twi', 'TWI73G1098' => 'twi', 'unitig_26.g10519' => 'ugi', 'unitig_736.g22395' => 'ugi', 'unitig_747.g21234' => 'ugi', 'unitig_747.g21942' => 'ugi', 'vmacro14351' => 'vma', 'VMungo0540G0082' => 'vmu', 'VMungo0540G0405' => 'vmu', 'VMungo0540G1486' => 'vmu', 'VMungo0540G1692' => 'vmu', 'VMungo0720G2473' => 'vmu', 'VMungo1127G1562' => 'vmu', 'VMungo1215G1918' => 'vmu', 'Zm00001eb052650' => 'zma', 'Zm00001eb063710' => 'zma', 'Zm00001eb083950' => 'zma', 'Zm00001eb174420' => 'zma', 'Zm00001eb260140' => 'zma', 'Zm00001eb260150' => 'zma', 'Zm00001eb260160' => 'zma', 'Zm00001eb348290' => 'zma', 'Zm00001eb366870' => 'zma', 'Zm00001eb421930' => 'zma' ) $gf_id = 'HOM05D001025' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001025' ) $data_identifier = 'HOM05D001025' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 19, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 2, 'amhyb' => (int) 4, 'aly' => (int) 4, 'aox' => (int) 4, 'arhy' => (int) 3, 'ath' => (int) 5, 'atr' => (int) 4, 'acertr' => (int) 3, 'cqu' => (int) 7, 'bca' => (int) 17, 'bol' => (int) 10, 'bra' => (int) 9, 'can' => (int) 10, 'cansat' => (int) 6, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 5, 'cbr' => (int) 5, 'ccan' => (int) 5, 'cde' => (int) 4, 'cfa' => (int) 3, 'ccl' => (int) 6, 'cil' => (int) 4, 'cla' => (int) 3, 'col' => (int) 3, 'cpa' => (int) 3, 'cre' => (int) 7, 'csa' => (int) 5, 'camsi' => (int) 9, 'dca' => (int) 4, 'din' => (int) 5, 'dzi' => (int) 7, 'eca' => (int) 6, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 12, 'fve' => (int) 4, 'gma' => (int) 12, 'ghi' => (int) 17, 'gra' => (int) 9, 'vvi' => (int) 2, 'han' => (int) 8, 'cav' => (int) 5, 'hma' => (int) 9, 'vpl' => (int) 4, 'sun' => (int) 2, 'lal' => (int) 9, 'lja' => (int) 5, 'lonja' => (int) 6, 'lsa' => (int) 3, 'mes' => (int) 8, 'mpo' => (int) 3, 'mbi' => (int) 4, 'mco' => (int) 3, 'mdo' => (int) 5, 'mtr' => (int) 7, 'cme' => (int) 6, 'egut' => (int) 7, 'ama' => (int) 3, 'nta' => (int) 12, 'nnu' => (int) 9, 'oeu' => (int) 4, 'osa' => (int) 7, 'pax' => (int) 9, 'pgr' => (int) 5, 'stu' => (int) 8, 'pvu' => (int) 6, 'ptr' => (int) 9, 'ppa' => (int) 9, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 7, 'pso' => (int) 10, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 3, 'sbr' => (int) 8, 'sbo' => (int) 5, 'sci' => (int) 5, 'sed' => (int) 4, 'sgi' => (int) 4, 'sas' => (int) 4, 'smo' => (int) 5, 'sly' => (int) 7, 'spe' => (int) 10, 'spa' => (int) 5, 'tar' => (int) 5, 'tha' => (int) 8, 'tca' => (int) 3, 'esa' => (int) 5, 'tpr' => (int) 6, 'twi' => (int) 6, 'ugi' => (int) 4, 'vma' => (int) 1, 'vmu' => (int) 7, 'zma' => (int) 10 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb421930' $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' => 'HOM05D001025', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '592', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p22650' => 'bna', 'A01p29720' => 'bna', 'A03p26560' => 'bna', 'A03p68820' => 'bna', 'A04p20980' => 'bna', 'A06p07730' => 'bna', 'A07p18260' => 'bna', 'A08p33710' => 'bna', 'A09p16970' => 'bna', 'A10p27490' => 'bna', 'Aa31LG1G17300' => 'aar', 'Aa31LG1G3910' => 'aar', 'Aa31LG2G9630' => 'aar', 'Aa31LG5G8360' => 'aar', 'Aa31LG9G2410' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4699' => 'aag', 'Actinidia23512' => 'ach', 'Actinidia37080' => 'ach', 'Ah.01g020380' => 'amhyb', 'Ah.08g215710' => 'amhyb', 'Ah.09g225110' => 'amhyb', 'Ah.10g036680' => 'amhyb', 'AL1G21940' => 'aly', 'AL2G15540' => 'aly', 'AL4G21520' => 'aly', 'AL7G40960' => 'aly', 'Aqoxy2G01191' => 'aox', 'Aqoxy2G03393' => 'aox', 'Aqoxy4G02775' => 'aox', 'Aqoxy6G00058' => 'aox', 'arahy.Tifrunner.gnm1.ann1.9X74H2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CW3FX9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R485W7' => 'arhy', 'AT1G10960' => 'ath', 'AT1G60950' => 'ath', 'AT2G27510' => 'ath', 'AT4G14890' => 'ath', 'AT5G10000' => 'ath', 'ATR0665G624' => 'atr', 'ATR0697G138' => 'atr', 'ATR0776G046' => 'atr', 'ATR1134G135' => 'atr', 'Atru.chr12.1025' => 'acertr', 'Atru.chr3.3241' => 'acertr', 'Atru.chr4.2460' => 'acertr', 'AUR62007427' => 'cqu', 'AUR62010960' => 'cqu', 'AUR62012201' => 'cqu', 'AUR62021470' => 'cqu', 'AUR62022834' => 'cqu', 'AUR62033635' => 'cqu', 'AUR62036186' => 'cqu', 'BcaB01g03077' => 'bca', 'BcaB02g10093' => 'bca', 'BcaB04g20295' => 'bca', 'BcaB06g28147' => 'bca', 'BcaB07g31253' => 'bca', 'BcaC01g04946' => 'bca', 'BcaC02g10614' => 'bca', 'BcaC02g10885' => 'bca', 'BcaC04g19356' => 'bca', 'BcaC04g22297' => 'bca', 'BcaC05g24977' => 'bca', 'BcaC06g31823' => 'bca', 'BcaC07g38633' => 'bca', 'BcaC09g49353' => 'bca', 'BcaC09g50168' => 'bca', 'BcaNung00322' => 'bca', 'BcaNung04769' => 'bca', 'BolC1t02753H' => 'bol', 'BolC1t03721H' => 'bol', 'BolC3t15525H' => 'bol', 'BolC4t23903H' => 'bol', 'BolC4t24231H' => 'bol', 'BolC4t27209H' => 'bol', 'BolC5t29671H' => 'bol', 'BolC8t49044H' => 'bol', 'BolC9t54999H' => 'bol', 'BolC9t59517H' => 'bol', 'BraA01t02178Z' => 'bra', 'BraA01t03099Z' => 'bra', 'BraA03t11867Z' => 'bra', 'BraA04t17667Z' => 'bra', 'BraA07t29542Z' => 'bra', 'BraA08t35287Z' => 'bra', 'BraA09t37334Z' => 'bra', 'BraA10t44801Z' => 'bra', 'BraSC39t46181Z' => 'bra', 'C01p28240' => 'bna', 'C01p37530' => 'bna', 'C03p31820' => 'bna', 'C04p24080' => 'bna', 'C04p25790' => 'bna', 'C04p56770' => 'bna', 'C05p09310' => 'bna', 'C09p21010' => 'bna', 'C09p67560' => 'bna', 'CAN.G1324.7' => 'can', 'CAN.G1358.10' => 'can', 'CAN.G1550.2' => 'can', 'CAN.G186.56' => 'can', 'CAN.G1965.1' => 'can', 'CAN.G645.15' => 'can', 'CAN.G798.26' => 'can', 'CAN.G798.27' => 'can', 'CAN.G798.29' => 'can', 'CAN.G919.31' => 'can', 'CANSAT11G0133' => 'cansat', 'CANSAT11G1171' => 'cansat', 'CANSAT11G2056' => 'cansat', 'CANSAT56G1202' => 'cansat', 'CANSAT56G1514' => 'cansat', 'CANSAT78G0455' => 'cansat', 'CARHR011190' => 'chi', 'CARHR051980' => 'chi', 'CARHR120170' => 'chi', 'CARHR203310' => 'chi', 'CARHR221490' => 'chi', 'Carub.0001s1054' => 'cru', 'Carub.0002s0431' => 'cru', 'Carub.0004s0818' => 'cru', 'Carub.0006s0846' => 'cru', 'Carub.0007s2722' => 'cru', 'Ca_00058_v3' => 'car', 'Ca_17831_v3' => 'car', 'Ca_19408_v3' => 'car', 'Ca_24397_v3' => 'car', 'Ca_25664_v3' => 'car', 'CBR_g21818' => 'cbr', 'CBR_g31195' => 'cbr', 'CBR_g32282' => 'cbr', 'CBR_g39599' => 'cbr', 'CBR_g49410' => 'cbr', 'Cc01_g09120' => 'ccan', 'Cc01_g09130' => 'ccan', 'Cc02_g09630' => 'ccan', 'Cc02_g22810' => 'ccan', 'Cc03_g03810' => 'ccan', 'CDE02G3718' => 'cde', 'CDE04G3183' => 'cde', 'CDE07G1046' => 'cde', 'CDE08G0480' => 'cde', 'Cfa005493' => 'cfa', 'Cfa010312' => 'cfa', 'Cfa015648' => 'cfa', 'Ciclev10002793m.g' => 'ccl', 'Ciclev10003356m.g' => 'ccl', 'Ciclev10006141m.g' => 'ccl', 'Ciclev10016676m.g' => 'ccl', 'Ciclev10017081m.g' => 'ccl', 'Ciclev10029499m.g' => 'ccl', 'CiPaw.01G166300' => 'cil', 'CiPaw.06G145600' => 'cil', 'CiPaw.13G040100' => 'cil', 'CiPaw.13G135800' => 'cil', 'ClCG01G012230' => 'cla', 'ClCG05G009510' => 'cla', 'ClCG08G008270' => 'cla', 'COL.COLO4_11763' => 'col', 'COL.COLO4_19876' => 'col', 'COL.COLO4_21481' => 'col', 'Cpa.g.sc118.34' => 'cpa', 'Cpa.g.sc32.13' => 'cpa', 'Cpa.g.sc58.103' => 'cpa', 'Cre03.g183850' => 'cre', 'Cre06.g306350' => 'cre', 'Cre07.g334800' => 'cre', 'Cre12.g487900' => 'cre', 'Cre14.g626700' => 'cre', 'Cre16.g658400' => 'cre', 'Cre17.g700950' => 'cre', 'CsaV3_1G014830' => 'csa', 'CsaV3_3G013320' => 'csa', 'CsaV3_3G019210' => 'csa', 'CsaV3_3G019220' => 'csa', 'CsaV3_6G004230' => 'csa', 'CSS0003773' => 'camsi', 'CSS0004563' => 'camsi', 'CSS0013949' => 'camsi', 'CSS0025971' => 'camsi', 'CSS0028570' => 'camsi', 'CSS0033127' => 'camsi', 'CSS0036051' => 'camsi', 'CSS0040087' => 'camsi', 'CSS0043179' => 'camsi', 'DCAR_006161' => 'dca', 'DCAR_010351' => 'dca', 'DCAR_012197' => 'dca', 'DCAR_024162' => 'dca', 'Dinv01030' => 'din', 'Dinv10924' => 'din', 'Dinv11835' => 'din', 'Dinv22841' => 'din', 'Dinv42553' => 'din', 'Duzib052G0560' => 'dzi', 'Duzib132G0389' => 'dzi', 'Duzib150G1181' => 'dzi', 'Duzib168G0623' => 'dzi', 'Duzib170G1036' => 'dzi', 'Duzib212G0200' => 'dzi', 'Duzib248G0194' => 'dzi', 'ECA232G2193' => 'eca', 'ECA233G0302' => 'eca', 'ECA234G2813' => 'eca', 'ECA234G4866' => 'eca', 'ECA240G3932' => 'eca', 'ECA248G0385' => 'eca', 'EL10Ac2g04781' => 'bvu', 'EL10Ac3g06445' => 'bvu', 'EL10Ac7g15825' => 'bvu', 'EL10Ac8g18550' => 'bvu', 'Eucgr.B03849' => 'egr', 'Eucgr.I02744' => 'egr', 'Eucgr.J00264' => 'egr', 'Eucgr.J00493' => 'egr', 'FAN04G2181' => 'fan', 'FAN07G2666' => 'fan', 'FAN11G0024' => 'fan', 'FAN12G1105' => 'fan', 'FAN13G0302' => 'fan', 'FAN15G2781' => 'fan', 'FAN16G1274' => 'fan', 'FAN17G2988' => 'fan', 'FAN18G2621' => 'fan', 'FAN21G0013' => 'fan', 'FAN22G1211' => 'fan', 'FAN25G3626' => 'fan', 'FvH4_2g09491' => 'fve', 'FvH4_3g24910' => 'fve', 'FvH4_4g15630' => 'fve', 'FvH4_5g28820' => 'fve', 'Glyma.01G238000' => 'gma', 'Glyma.05G168400' => 'gma', 'Glyma.08G126800' => 'gma', 'Glyma.08G188500' => 'gma', 'Glyma.10G278900' => 'gma', 'Glyma.11G005700' => 'gma', 'Glyma.11G183300' => 'gma', 'Glyma.12G089200' => 'gma', 'Glyma.12G169400' => 'gma', 'Glyma.12G169500' => 'gma', 'Glyma.12G169600' => 'gma', 'Glyma.20G110800' => 'gma', 'Gohir.A03G192900' => 'ghi', 'Gohir.A03G193000' => 'ghi', 'Gohir.A05G080700' => 'ghi', 'Gohir.A09G216000' => 'ghi', 'Gohir.A12G027700' => 'ghi', 'Gohir.A13G036200' => 'ghi', 'Gohir.A13G222600' => 'ghi', 'Gohir.D02G213900' => 'ghi', 'Gohir.D02G214000' => 'ghi', 'Gohir.D05G083700' => 'ghi', 'Gohir.D05G083800' => 'ghi', 'Gohir.D05G083850' => 'ghi', 'Gohir.D08G015400' => 'ghi', 'Gohir.D09G218400' => 'ghi', 'Gohir.D12G027100' => 'ghi', 'Gohir.D13G034500' => 'ghi', 'Gohir.D13G227400' => 'ghi', 'Gorai.005G241800' => 'gra', 'Gorai.005G241900' => 'gra', 'Gorai.006G239400' => 'gra', 'Gorai.008G027600' => 'gra', 'Gorai.009G085400' => 'gra', 'Gorai.009G085500' => 'gra', 'Gorai.013G039000' => 'gra', 'Gorai.013G194800' => 'gra', 'Gorai.013G257900' => 'gra', 'GSVIVG01000982001' => 'vvi', 'GSVIVG01017981001' => 'vvi', 'HanXRQChr01g0024061' => 'han', 'HanXRQChr09g0247831' => 'han', 'HanXRQChr10g0294611' => 'han', 'HanXRQChr10g0294621' => 'han', 'HanXRQChr11g0346821' => 'han', 'HanXRQChr13g0397461' => 'han', 'HanXRQChr16g0513651' => 'han', 'HanXRQChr16g0513701' => 'han', 'Haze_00897' => 'cav', 'Haze_01745' => 'cav', 'Haze_02486' => 'cav', 'Haze_02487' => 'cav', 'Haze_23374' => 'cav', 'Hma1.2p1_0578F.1_g182520' => 'hma', 'Hma1.2p1_0602F.1_g187350' => 'hma', 'Hma1.2p1_0602F.1_g187360' => 'hma', 'Hma1.2p1_0874F.1_g231320' => 'hma', 'Hma1.2p1_1197F.1_g266210' => 'hma', 'Hma1.2p1_1197F.1_g266220' => 'hma', 'Hma1.2p1_2167F.1_g315895' => 'hma', 'Hma1.2p1_2190F.1_g316640' => 'hma', 'Hma1.2p1_3645F.1_g337153' => 'hma', 'HPP92_004907' => 'vpl', 'HPP92_012134' => 'vpl', 'HPP92_025136' => 'vpl', 'HPP92_026087' => 'vpl', 'Hund06782' => 'sun', 'Hund06784' => 'sun', 'Lalb_Chr01g0004861' => 'lal', 'Lalb_Chr02g0140591' => 'lal', 'Lalb_Chr02g0140611' => 'lal', 'Lalb_Chr03g0028101' => 'lal', 'Lalb_Chr07g0185791' => 'lal', 'Lalb_Chr12g0204491' => 'lal', 'Lalb_Chr13g0295671' => 'lal', 'Lalb_Chr19g0136461' => 'lal', 'Lalb_Chr21g0309191' => 'lal', 'Lj1g0028158' => 'lja', 'Lj1P236T38' => 'lonja', 'Lj2C32G2' => 'lonja', 'Lj2P944T8' => 'lonja', 'Lj2P963T15' => 'lonja', 'Lj3g0011788' => 'lja', 'Lj4g0025027' => 'lja', 'Lj5P255T36' => 'lonja', 'Lj6g0018866' => 'lja', 'Lj6P608T31' => 'lonja', 'LjContig00408g0008879' => 'lja', 'Lsat_1_v5_gn_5_105820' => 'lsa', 'Lsat_1_v5_gn_6_38800' => 'lsa', 'Lsat_1_v5_gn_7_67141' => 'lsa', 'Manes.04G003400' => 'mes', 'Manes.07G020000' => 'mes', 'Manes.07G020100' => 'mes', 'Manes.07G020150' => 'mes', 'Manes.10G061500' => 'mes', 'Manes.10G123200' => 'mes', 'Manes.11G161900' => 'mes', 'Manes.15G029300' => 'mes', 'Mapoly0071s0018' => 'mpo', 'Mapoly0082s0023' => 'mpo', 'Mapoly3477s0001' => 'mpo', 'MBI05_g31233_MAGBIO' => 'mbi', 'MBI09_g05946_MAGBIO' => 'mbi', 'MBI09_g05947_MAGBIO' => 'mbi', 'MBI17_g08346_MAGBIO' => 'mbi', 'MCO04G038' => 'mco', 'MCO09G370' => 'mco', 'MCO13G605' => 'mco', 'MD00G1075500' => 'mdo', 'MD03G1144300' => 'mdo', 'MD08G1236800' => 'mdo', 'MD13G1193300' => 'mdo', 'MD15G1428700' => 'mdo', 'Medtr1g112030' => 'mtr', 'Medtr1g112050' => 'mtr', 'Medtr2g006290' => 'mtr', 'Medtr2g086510' => 'mtr', 'Medtr4g053120' => 'mtr', 'Medtr5g006320' => 'mtr', 'Medtr8g088720' => 'mtr', 'MELO3C004712.2' => 'cme', 'MELO3C006533.2' => 'cme', 'MELO3C019438.2' => 'cme', 'MELO3C019440.2' => 'cme', 'MELO3C019441.2' => 'cme', 'MELO3C019895.2' => 'cme', 'Migut.B00811' => 'egut', 'Migut.D02447' => 'egut', 'Migut.F00875' => 'egut', 'Migut.N00186' => 'egut', 'Migut.N01051' => 'egut', 'Migut.N02491' => 'egut', 'Migut.O00784' => 'egut', 'MSTRG.12367' => 'ama', 'MSTRG.18756' => 'ama', 'MSTRG.21042' => 'ama', 'Nitab4.5_0000559g0040' => 'nta', 'Nitab4.5_0000667g0190' => 'nta', 'Nitab4.5_0000755g0160' => 'nta', 'Nitab4.5_0001216g0080' => 'nta', 'Nitab4.5_0004069g0040' => 'nta', 'Nitab4.5_0004129g0010' => 'nta', 'Nitab4.5_0005744g0030' => 'nta', 'Nitab4.5_0006996g0030' => 'nta', 'Nitab4.5_0008971g0040' => 'nta', 'Nitab4.5_0009769g0020' => 'nta', 'Nitab4.5_0009833g0010' => 'nta', 'Nitab4.5_0013140g0020' => 'nta', 'Nn003s41376' => 'nnu', 'Nn1g01857' => 'nnu', 'Nn1g03611' => 'nnu', 'Nn1g06853' => 'nnu', 'Nn3g18360' => 'nnu', 'Nn4g26328' => 'nnu', 'Nn5g27531' => 'nnu', 'Nn6g34899' => 'nnu', 'Nn7g36299' => 'nnu', 'Oeu021485.1' => 'oeu', 'Oeu022433.1' => 'oeu', 'Oeu032111.1' => 'oeu', 'Oeu051608.1' => 'oeu', 'Os01g0860601' => 'osa', 'Os03g0659200' => 'osa', 'Os03g0835900' => 'osa', 'Os04g0412200' => 'osa', 'Os05g0443500' => 'osa', 'Os07g0251500' => 'osa', 'Os08g0104600' => 'osa', 'Peaxi162Scf00003g00047' => 'pax', 'Peaxi162Scf00003g00052' => 'pax', 'Peaxi162Scf00003g00394' => 'pax', 'Peaxi162Scf00091g00621' => 'pax', 'Peaxi162Scf00152g00146' => 'pax', 'Peaxi162Scf00173g00025' => 'pax', 'Peaxi162Scf00195g00102' => 'pax', 'Peaxi162Scf00402g00013' => 'pax', 'Peaxi162Scf00519g00618' => 'pax', 'PGR004G2838' => 'pgr', 'PGR044G2275' => 'pgr', 'PGR102G1377' => 'pgr', 'PGR119G1245' => 'pgr', 'PGR142G4449' => 'pgr', 'PGSC0003DMG400004532' => 'stu', 'PGSC0003DMG400011950' => 'stu', 'PGSC0003DMG400023391' => 'stu', 'PGSC0003DMG400023985' => 'stu', 'PGSC0003DMG400026360' => 'stu', 'PGSC0003DMG400035711' => 'stu', 'PGSC0003DMG400037286' => 'stu', 'PGSC0003DMG402005881' => 'stu', 'Phvul.002G045400' => 'pvu', 'Phvul.006G216600' => 'pvu', 'Phvul.006G216700' => 'pvu', 'Phvul.006G216800' => 'pvu', 'Phvul.007G022500' => 'pvu', 'Phvul.011G094400' => 'pvu', 'Potri.001G470700' => 'ptr', 'Potri.003G015200' => 'ptr', 'Potri.004G202500' => 'ptr', 'Potri.004G218400' => 'ptr', 'Potri.008G020100' => 'ptr', 'Potri.008G153200' => 'ptr', 'Potri.009G163800' => 'ptr', 'Potri.010G087300' => 'ptr', 'Potri.010G239100' => 'ptr', 'Pp3c10_16100' => 'ppa', 'Pp3c10_16880' => 'ppa', 'Pp3c16_6230' => 'ppa', 'Pp3c17_18910' => 'ppa', 'Pp3c3_22119' => 'ppa', 'Pp3c3_22140' => 'ppa', 'Pp3c4_8159' => 'ppa', 'Pp3c4_8171' => 'ppa', 'Pp3c4_8330' => 'ppa', 'PRCOL_00004098' => 'pco', 'Prupe.1G013900' => 'ppe', 'Prupe.1G226300' => 'ppe', 'Prupe.1G573600' => 'ppe', 'Prupe.6G130100' => 'ppe', 'Psat3g090040' => 'psa', 'Psat4g210440' => 'psa', 'Psat6g231040' => 'psa', 'Psat6g231080' => 'psa', 'Psat7g063000' => 'psa', 'Psat7g188000' => 'psa', 'Psat7g188040' => 'psa', 'PSO017G0206' => 'pso', 'PSO170G0501' => 'pso', 'PSO170G6422' => 'pso', 'PSO210G7739' => 'pso', 'PSO339G1808' => 'pso', 'PSO339G6135' => 'pso', 'PSO384G0010' => 'pso', 'PSO384G0964' => 'pso', 'PSO761G0050' => 'pso', 'PSO782G4085' => 'pso', 'QL01p012264' => 'qlo', 'QL02p099491' => 'qlo', 'QL03p033868' => 'qlo', 'QL04p046678' => 'qlo', 'QL06p002448' => 'qlo', 'RcHm_v2.0_Chr4g0416181' => 'rch', 'RcHm_v2.0_Chr5g0044701' => 'rch', 'RcHm_v2.0_Chr6g0265781' => 'rch', 'RcHm_v2.0_Chr7g0221031' => 'rch', 'Rhsim04G0202000' => 'rsi', 'Rhsim11G0127300' => 'rsi', 'Rhsim13G0111800' => 'rsi', 'Sabra01G0165600' => 'sbr', 'Sabra03G0008300' => 'sbr', 'Sabra04G0136900' => 'sbr', 'Sabra08G0013400' => 'sbr', 'Sabra08G0116800' => 'sbr', 'Sabra09G0128000' => 'sbr', 'Sabra10G0055500' => 'sbr', 'Sabra10G0073300' => 'sbr', 'SalBow3G0385' => 'sbo', 'SalBow3G1119' => 'sbo', 'SalBow3G2005' => 'sbo', 'SalBow6G2563' => 'sbo', 'SalBow6G6386' => 'sbo', 'Sc06g0008800' => 'sci', 'Sc07g0004950' => 'sci', 'Sc09g0005340' => 'sci', 'Sc13g0004410' => 'sci', 'Sc21g0007090' => 'sci', 'Sed0009285' => 'sed', 'Sed0017583' => 'sed', 'Sed0019699' => 'sed', 'Sed0023107' => 'sed', 'SEGI_10916' => 'sgi', 'SEGI_16217' => 'sgi', 'SEGI_19466' => 'sgi', 'SEGI_41115' => 'sgi', 'SGA_v2.0_scaffold111G31534' => 'sas', 'SGA_v2.0_scaffold22G09864' => 'sas', 'SGA_v2.0_scaffold338G49219' => 'sas', 'SGA_v2.0_scaffold92G28298' => 'sas', 'SMO119G0064' => 'smo', 'SMO223G0038' => 'smo', 'SMO347G0584' => 'smo', 'SMO351G0010' => 'smo', 'SMO356G0404' => 'smo', 'Solyc01g103920.3' => 'sly', 'Solyc04g009710.2' => 'sly', 'Solyc05g055280.2' => 'sly', 'Solyc10g044520.3' => 'sly', 'Solyc10g075160.1' => 'sly', 'Solyc11g006910.3' => 'sly', 'Solyc11g068430.3' => 'sly', 'Sopen01g046310' => 'spe', 'Sopen03g001200' => 'spe', 'Sopen04g004830' => 'spe', 'Sopen05g033720' => 'spe', 'Sopen06g030740' => 'spe', 'Sopen10g013090' => 'spe', 'Sopen10g027630' => 'spe', 'Sopen10g027640' => 'spe', 'Sopen11g002820' => 'spe', 'Sopen11g027140' => 'spe', 'Sp1g09680' => 'spa', 'Sp2g03630' => 'spa', 'Sp4g10320' => 'spa', 'Sp6g33400' => 'spa', 'Sp7g13030' => 'spa', 'TAR365G0317' => 'tar', 'TAR376G0979' => 'tar', 'TAR623G1665' => 'tar', 'TAR633G2373' => 'tar', 'TAR636G1400' => 'tar', 'THA.LOC104800529' => 'tha', 'THA.LOC104808547' => 'tha', 'THA.LOC104809615' => 'tha', 'THA.LOC104815724' => 'tha', 'THA.LOC104818480' => 'tha', 'THA.LOC104819179' => 'tha', 'THA.LOC104822270' => 'tha', 'THA.LOC104826425' => 'tha', 'Thecc.02G089700' => 'tca', 'Thecc.04G232300' => 'tca', 'Thecc.09G283400' => 'tca', 'Thhalv10009020m.g' => 'esa', 'Thhalv10015506m.g' => 'esa', 'Thhalv10017364m.g' => 'esa', 'Thhalv10023742m.g' => 'esa', 'Thhalv10026483m.g' => 'esa', 'TPR.G17232' => 'tpr', 'TPR.G2133' => 'tpr', 'TPR.G2498' => 'tpr', 'TPR.G31942' => 'tpr', 'TPR.G37877' => 'tpr', 'TPR.G4571' => 'tpr', 'TWI14G1113' => 'twi', 'TWI15G0426' => 'twi', 'TWI31G1005' => 'twi', 'TWI38G0513' => 'twi', 'TWI38G1484' => 'twi', 'TWI73G1098' => 'twi', 'unitig_26.g10519' => 'ugi', 'unitig_736.g22395' => 'ugi', 'unitig_747.g21234' => 'ugi', 'unitig_747.g21942' => 'ugi', 'vmacro14351' => 'vma', 'VMungo0540G0082' => 'vmu', 'VMungo0540G0405' => 'vmu', 'VMungo0540G1486' => 'vmu', 'VMungo0540G1692' => 'vmu', 'VMungo0720G2473' => 'vmu', 'VMungo1127G1562' => 'vmu', 'VMungo1215G1918' => 'vmu', 'Zm00001eb052650' => 'zma', 'Zm00001eb063710' => 'zma', 'Zm00001eb083950' => 'zma', 'Zm00001eb174420' => 'zma', 'Zm00001eb260140' => 'zma', 'Zm00001eb260150' => 'zma', 'Zm00001eb260160' => 'zma', 'Zm00001eb348290' => 'zma', 'Zm00001eb366870' => 'zma', 'Zm00001eb421930' => 'zma' ), 'gf_id' => 'HOM05D001025', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001025' ), 'data_identifier' => 'HOM05D001025', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001025', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '592', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p22650' => 'bna', 'A01p29720' => 'bna', 'A03p26560' => 'bna', 'A03p68820' => 'bna', 'A04p20980' => 'bna', 'A06p07730' => 'bna', 'A07p18260' => 'bna', 'A08p33710' => 'bna', 'A09p16970' => 'bna', 'A10p27490' => 'bna', 'Aa31LG1G17300' => 'aar', 'Aa31LG1G3910' => 'aar', 'Aa31LG2G9630' => 'aar', 'Aa31LG5G8360' => 'aar', 'Aa31LG9G2410' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4699' => 'aag', 'Actinidia23512' => 'ach', 'Actinidia37080' => 'ach', 'Ah.01g020380' => 'amhyb', 'Ah.08g215710' => 'amhyb', 'Ah.09g225110' => 'amhyb', 'Ah.10g036680' => 'amhyb', 'AL1G21940' => 'aly', 'AL2G15540' => 'aly', 'AL4G21520' => 'aly', 'AL7G40960' => 'aly', 'Aqoxy2G01191' => 'aox', 'Aqoxy2G03393' => 'aox', 'Aqoxy4G02775' => 'aox', 'Aqoxy6G00058' => 'aox', 'arahy.Tifrunner.gnm1.ann1.9X74H2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CW3FX9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R485W7' => 'arhy', 'AT1G10960' => 'ath', 'AT1G60950' => 'ath', 'AT2G27510' => 'ath', 'AT4G14890' => 'ath', 'AT5G10000' => 'ath', 'ATR0665G624' => 'atr', 'ATR0697G138' => 'atr', 'ATR0776G046' => 'atr', 'ATR1134G135' => 'atr', 'Atru.chr12.1025' => 'acertr', 'Atru.chr3.3241' => 'acertr', 'Atru.chr4.2460' => 'acertr', 'AUR62007427' => 'cqu', 'AUR62010960' => 'cqu', 'AUR62012201' => 'cqu', 'AUR62021470' => 'cqu', 'AUR62022834' => 'cqu', 'AUR62033635' => 'cqu', 'AUR62036186' => 'cqu', 'BcaB01g03077' => 'bca', 'BcaB02g10093' => 'bca', 'BcaB04g20295' => 'bca', 'BcaB06g28147' => 'bca', 'BcaB07g31253' => 'bca', 'BcaC01g04946' => 'bca', 'BcaC02g10614' => 'bca', 'BcaC02g10885' => 'bca', 'BcaC04g19356' => 'bca', 'BcaC04g22297' => 'bca', 'BcaC05g24977' => 'bca', 'BcaC06g31823' => 'bca', 'BcaC07g38633' => 'bca', 'BcaC09g49353' => 'bca', 'BcaC09g50168' => 'bca', 'BcaNung00322' => 'bca', 'BcaNung04769' => 'bca', 'BolC1t02753H' => 'bol', 'BolC1t03721H' => 'bol', 'BolC3t15525H' => 'bol', 'BolC4t23903H' => 'bol', 'BolC4t24231H' => 'bol', 'BolC4t27209H' => 'bol', 'BolC5t29671H' => 'bol', 'BolC8t49044H' => 'bol', 'BolC9t54999H' => 'bol', 'BolC9t59517H' => 'bol', 'BraA01t02178Z' => 'bra', 'BraA01t03099Z' => 'bra', 'BraA03t11867Z' => 'bra', 'BraA04t17667Z' => 'bra', 'BraA07t29542Z' => 'bra', 'BraA08t35287Z' => 'bra', 'BraA09t37334Z' => 'bra', 'BraA10t44801Z' => 'bra', 'BraSC39t46181Z' => 'bra', 'C01p28240' => 'bna', 'C01p37530' => 'bna', 'C03p31820' => 'bna', 'C04p24080' => 'bna', 'C04p25790' => 'bna', 'C04p56770' => 'bna', 'C05p09310' => 'bna', 'C09p21010' => 'bna', 'C09p67560' => 'bna', 'CAN.G1324.7' => 'can', 'CAN.G1358.10' => 'can', 'CAN.G1550.2' => 'can', 'CAN.G186.56' => 'can', 'CAN.G1965.1' => 'can', 'CAN.G645.15' => 'can', 'CAN.G798.26' => 'can', 'CAN.G798.27' => 'can', 'CAN.G798.29' => 'can', 'CAN.G919.31' => 'can', 'CANSAT11G0133' => 'cansat', 'CANSAT11G1171' => 'cansat', 'CANSAT11G2056' => 'cansat', 'CANSAT56G1202' => 'cansat', 'CANSAT56G1514' => 'cansat', 'CANSAT78G0455' => 'cansat', 'CARHR011190' => 'chi', 'CARHR051980' => 'chi', 'CARHR120170' => 'chi', 'CARHR203310' => 'chi', 'CARHR221490' => 'chi', 'Carub.0001s1054' => 'cru', 'Carub.0002s0431' => 'cru', 'Carub.0004s0818' => 'cru', 'Carub.0006s0846' => 'cru', 'Carub.0007s2722' => 'cru', 'Ca_00058_v3' => 'car', 'Ca_17831_v3' => 'car', 'Ca_19408_v3' => 'car', 'Ca_24397_v3' => 'car', 'Ca_25664_v3' => 'car', 'CBR_g21818' => 'cbr', 'CBR_g31195' => 'cbr', 'CBR_g32282' => 'cbr', 'CBR_g39599' => 'cbr', 'CBR_g49410' => 'cbr', 'Cc01_g09120' => 'ccan', 'Cc01_g09130' => 'ccan', 'Cc02_g09630' => 'ccan', 'Cc02_g22810' => 'ccan', 'Cc03_g03810' => 'ccan', 'CDE02G3718' => 'cde', 'CDE04G3183' => 'cde', 'CDE07G1046' => 'cde', 'CDE08G0480' => 'cde', 'Cfa005493' => 'cfa', 'Cfa010312' => 'cfa', 'Cfa015648' => 'cfa', 'Ciclev10002793m.g' => 'ccl', 'Ciclev10003356m.g' => 'ccl', 'Ciclev10006141m.g' => 'ccl', 'Ciclev10016676m.g' => 'ccl', 'Ciclev10017081m.g' => 'ccl', 'Ciclev10029499m.g' => 'ccl', 'CiPaw.01G166300' => 'cil', 'CiPaw.06G145600' => 'cil', 'CiPaw.13G040100' => 'cil', 'CiPaw.13G135800' => 'cil', 'ClCG01G012230' => 'cla', 'ClCG05G009510' => 'cla', 'ClCG08G008270' => 'cla', 'COL.COLO4_11763' => 'col', 'COL.COLO4_19876' => 'col', 'COL.COLO4_21481' => 'col', 'Cpa.g.sc118.34' => 'cpa', 'Cpa.g.sc32.13' => 'cpa', 'Cpa.g.sc58.103' => 'cpa', 'Cre03.g183850' => 'cre', 'Cre06.g306350' => 'cre', 'Cre07.g334800' => 'cre', 'Cre12.g487900' => 'cre', 'Cre14.g626700' => 'cre', 'Cre16.g658400' => 'cre', 'Cre17.g700950' => 'cre', 'CsaV3_1G014830' => 'csa', 'CsaV3_3G013320' => 'csa', 'CsaV3_3G019210' => 'csa', 'CsaV3_3G019220' => 'csa', 'CsaV3_6G004230' => 'csa', 'CSS0003773' => 'camsi', 'CSS0004563' => 'camsi', 'CSS0013949' => 'camsi', 'CSS0025971' => 'camsi', 'CSS0028570' => 'camsi', 'CSS0033127' => 'camsi', 'CSS0036051' => 'camsi', 'CSS0040087' => 'camsi', 'CSS0043179' => 'camsi', 'DCAR_006161' => 'dca', 'DCAR_010351' => 'dca', 'DCAR_012197' => 'dca', 'DCAR_024162' => 'dca', 'Dinv01030' => 'din', 'Dinv10924' => 'din', 'Dinv11835' => 'din', 'Dinv22841' => 'din', 'Dinv42553' => 'din', 'Duzib052G0560' => 'dzi', 'Duzib132G0389' => 'dzi', 'Duzib150G1181' => 'dzi', 'Duzib168G0623' => 'dzi', 'Duzib170G1036' => 'dzi', 'Duzib212G0200' => 'dzi', 'Duzib248G0194' => 'dzi', 'ECA232G2193' => 'eca', 'ECA233G0302' => 'eca', 'ECA234G2813' => 'eca', 'ECA234G4866' => 'eca', 'ECA240G3932' => 'eca', 'ECA248G0385' => 'eca', 'EL10Ac2g04781' => 'bvu', 'EL10Ac3g06445' => 'bvu', 'EL10Ac7g15825' => 'bvu', 'EL10Ac8g18550' => 'bvu', 'Eucgr.B03849' => 'egr', 'Eucgr.I02744' => 'egr', 'Eucgr.J00264' => 'egr', 'Eucgr.J00493' => 'egr', 'FAN04G2181' => 'fan', 'FAN07G2666' => 'fan', 'FAN11G0024' => 'fan', 'FAN12G1105' => 'fan', 'FAN13G0302' => 'fan', 'FAN15G2781' => 'fan', 'FAN16G1274' => 'fan', 'FAN17G2988' => 'fan', 'FAN18G2621' => 'fan', 'FAN21G0013' => 'fan', 'FAN22G1211' => 'fan', 'FAN25G3626' => 'fan', 'FvH4_2g09491' => 'fve', 'FvH4_3g24910' => 'fve', 'FvH4_4g15630' => 'fve', 'FvH4_5g28820' => 'fve', 'Glyma.01G238000' => 'gma', 'Glyma.05G168400' => 'gma', 'Glyma.08G126800' => 'gma', 'Glyma.08G188500' => 'gma', 'Glyma.10G278900' => 'gma', 'Glyma.11G005700' => 'gma', 'Glyma.11G183300' => 'gma', 'Glyma.12G089200' => 'gma', 'Glyma.12G169400' => 'gma', 'Glyma.12G169500' => 'gma', 'Glyma.12G169600' => 'gma', 'Glyma.20G110800' => 'gma', 'Gohir.A03G192900' => 'ghi', 'Gohir.A03G193000' => 'ghi', 'Gohir.A05G080700' => 'ghi', 'Gohir.A09G216000' => 'ghi', 'Gohir.A12G027700' => 'ghi', 'Gohir.A13G036200' => 'ghi', 'Gohir.A13G222600' => 'ghi', 'Gohir.D02G213900' => 'ghi', 'Gohir.D02G214000' => 'ghi', 'Gohir.D05G083700' => 'ghi', 'Gohir.D05G083800' => 'ghi', 'Gohir.D05G083850' => 'ghi', 'Gohir.D08G015400' => 'ghi', 'Gohir.D09G218400' => 'ghi', 'Gohir.D12G027100' => 'ghi', 'Gohir.D13G034500' => 'ghi', 'Gohir.D13G227400' => 'ghi', 'Gorai.005G241800' => 'gra', 'Gorai.005G241900' => 'gra', 'Gorai.006G239400' => 'gra', 'Gorai.008G027600' => 'gra', 'Gorai.009G085400' => 'gra', 'Gorai.009G085500' => 'gra', 'Gorai.013G039000' => 'gra', 'Gorai.013G194800' => 'gra', 'Gorai.013G257900' => 'gra', 'GSVIVG01000982001' => 'vvi', 'GSVIVG01017981001' => 'vvi', 'HanXRQChr01g0024061' => 'han', 'HanXRQChr09g0247831' => 'han', 'HanXRQChr10g0294611' => 'han', 'HanXRQChr10g0294621' => 'han', 'HanXRQChr11g0346821' => 'han', 'HanXRQChr13g0397461' => 'han', 'HanXRQChr16g0513651' => 'han', 'HanXRQChr16g0513701' => 'han', 'Haze_00897' => 'cav', 'Haze_01745' => 'cav', 'Haze_02486' => 'cav', 'Haze_02487' => 'cav', 'Haze_23374' => 'cav', 'Hma1.2p1_0578F.1_g182520' => 'hma', 'Hma1.2p1_0602F.1_g187350' => 'hma', 'Hma1.2p1_0602F.1_g187360' => 'hma', 'Hma1.2p1_0874F.1_g231320' => 'hma', 'Hma1.2p1_1197F.1_g266210' => 'hma', 'Hma1.2p1_1197F.1_g266220' => 'hma', 'Hma1.2p1_2167F.1_g315895' => 'hma', 'Hma1.2p1_2190F.1_g316640' => 'hma', 'Hma1.2p1_3645F.1_g337153' => 'hma', 'HPP92_004907' => 'vpl', 'HPP92_012134' => 'vpl', 'HPP92_025136' => 'vpl', 'HPP92_026087' => 'vpl', 'Hund06782' => 'sun', 'Hund06784' => 'sun', 'Lalb_Chr01g0004861' => 'lal', 'Lalb_Chr02g0140591' => 'lal', 'Lalb_Chr02g0140611' => 'lal', 'Lalb_Chr03g0028101' => 'lal', 'Lalb_Chr07g0185791' => 'lal', 'Lalb_Chr12g0204491' => 'lal', 'Lalb_Chr13g0295671' => 'lal', 'Lalb_Chr19g0136461' => 'lal', 'Lalb_Chr21g0309191' => 'lal', 'Lj1g0028158' => 'lja', 'Lj1P236T38' => 'lonja', 'Lj2C32G2' => 'lonja', 'Lj2P944T8' => 'lonja', 'Lj2P963T15' => 'lonja', 'Lj3g0011788' => 'lja', 'Lj4g0025027' => 'lja', 'Lj5P255T36' => 'lonja', 'Lj6g0018866' => 'lja', 'Lj6P608T31' => 'lonja', 'LjContig00408g0008879' => 'lja', 'Lsat_1_v5_gn_5_105820' => 'lsa', 'Lsat_1_v5_gn_6_38800' => 'lsa', 'Lsat_1_v5_gn_7_67141' => 'lsa', 'Manes.04G003400' => 'mes', 'Manes.07G020000' => 'mes', 'Manes.07G020100' => 'mes', 'Manes.07G020150' => 'mes', 'Manes.10G061500' => 'mes', 'Manes.10G123200' => 'mes', 'Manes.11G161900' => 'mes', 'Manes.15G029300' => 'mes', 'Mapoly0071s0018' => 'mpo', 'Mapoly0082s0023' => 'mpo', 'Mapoly3477s0001' => 'mpo', 'MBI05_g31233_MAGBIO' => 'mbi', 'MBI09_g05946_MAGBIO' => 'mbi', 'MBI09_g05947_MAGBIO' => 'mbi', 'MBI17_g08346_MAGBIO' => 'mbi', 'MCO04G038' => 'mco', 'MCO09G370' => 'mco', 'MCO13G605' => 'mco', 'MD00G1075500' => 'mdo', 'MD03G1144300' => 'mdo', 'MD08G1236800' => 'mdo', 'MD13G1193300' => 'mdo', 'MD15G1428700' => 'mdo', 'Medtr1g112030' => 'mtr', 'Medtr1g112050' => 'mtr', 'Medtr2g006290' => 'mtr', 'Medtr2g086510' => 'mtr', 'Medtr4g053120' => 'mtr', 'Medtr5g006320' => 'mtr', 'Medtr8g088720' => 'mtr', 'MELO3C004712.2' => 'cme', 'MELO3C006533.2' => 'cme', 'MELO3C019438.2' => 'cme', 'MELO3C019440.2' => 'cme', 'MELO3C019441.2' => 'cme', 'MELO3C019895.2' => 'cme', 'Migut.B00811' => 'egut', 'Migut.D02447' => 'egut', 'Migut.F00875' => 'egut', 'Migut.N00186' => 'egut', 'Migut.N01051' => 'egut', 'Migut.N02491' => 'egut', 'Migut.O00784' => 'egut', 'MSTRG.12367' => 'ama', 'MSTRG.18756' => 'ama', 'MSTRG.21042' => 'ama', 'Nitab4.5_0000559g0040' => 'nta', 'Nitab4.5_0000667g0190' => 'nta', 'Nitab4.5_0000755g0160' => 'nta', 'Nitab4.5_0001216g0080' => 'nta', 'Nitab4.5_0004069g0040' => 'nta', 'Nitab4.5_0004129g0010' => 'nta', 'Nitab4.5_0005744g0030' => 'nta', 'Nitab4.5_0006996g0030' => 'nta', 'Nitab4.5_0008971g0040' => 'nta', 'Nitab4.5_0009769g0020' => 'nta', 'Nitab4.5_0009833g0010' => 'nta', 'Nitab4.5_0013140g0020' => 'nta', 'Nn003s41376' => 'nnu', 'Nn1g01857' => 'nnu', 'Nn1g03611' => 'nnu', 'Nn1g06853' => 'nnu', 'Nn3g18360' => 'nnu', 'Nn4g26328' => 'nnu', 'Nn5g27531' => 'nnu', 'Nn6g34899' => 'nnu', 'Nn7g36299' => 'nnu', 'Oeu021485.1' => 'oeu', 'Oeu022433.1' => 'oeu', 'Oeu032111.1' => 'oeu', 'Oeu051608.1' => 'oeu', 'Os01g0860601' => 'osa', 'Os03g0659200' => 'osa', 'Os03g0835900' => 'osa', 'Os04g0412200' => 'osa', 'Os05g0443500' => 'osa', 'Os07g0251500' => 'osa', 'Os08g0104600' => 'osa', 'Peaxi162Scf00003g00047' => 'pax', 'Peaxi162Scf00003g00052' => 'pax', 'Peaxi162Scf00003g00394' => 'pax', 'Peaxi162Scf00091g00621' => 'pax', 'Peaxi162Scf00152g00146' => 'pax', 'Peaxi162Scf00173g00025' => 'pax', 'Peaxi162Scf00195g00102' => 'pax', 'Peaxi162Scf00402g00013' => 'pax', 'Peaxi162Scf00519g00618' => 'pax', 'PGR004G2838' => 'pgr', 'PGR044G2275' => 'pgr', 'PGR102G1377' => 'pgr', 'PGR119G1245' => 'pgr', 'PGR142G4449' => 'pgr', 'PGSC0003DMG400004532' => 'stu', 'PGSC0003DMG400011950' => 'stu', 'PGSC0003DMG400023391' => 'stu', 'PGSC0003DMG400023985' => 'stu', 'PGSC0003DMG400026360' => 'stu', 'PGSC0003DMG400035711' => 'stu', 'PGSC0003DMG400037286' => 'stu', 'PGSC0003DMG402005881' => 'stu', 'Phvul.002G045400' => 'pvu', 'Phvul.006G216600' => 'pvu', 'Phvul.006G216700' => 'pvu', 'Phvul.006G216800' => 'pvu', 'Phvul.007G022500' => 'pvu', 'Phvul.011G094400' => 'pvu', 'Potri.001G470700' => 'ptr', 'Potri.003G015200' => 'ptr', 'Potri.004G202500' => 'ptr', 'Potri.004G218400' => 'ptr', 'Potri.008G020100' => 'ptr', 'Potri.008G153200' => 'ptr', 'Potri.009G163800' => 'ptr', 'Potri.010G087300' => 'ptr', 'Potri.010G239100' => 'ptr', 'Pp3c10_16100' => 'ppa', 'Pp3c10_16880' => 'ppa', 'Pp3c16_6230' => 'ppa', 'Pp3c17_18910' => 'ppa', 'Pp3c3_22119' => 'ppa', 'Pp3c3_22140' => 'ppa', 'Pp3c4_8159' => 'ppa', 'Pp3c4_8171' => 'ppa', 'Pp3c4_8330' => 'ppa', 'PRCOL_00004098' => 'pco', 'Prupe.1G013900' => 'ppe', 'Prupe.1G226300' => 'ppe', 'Prupe.1G573600' => 'ppe', 'Prupe.6G130100' => 'ppe', 'Psat3g090040' => 'psa', 'Psat4g210440' => 'psa', 'Psat6g231040' => 'psa', 'Psat6g231080' => 'psa', 'Psat7g063000' => 'psa', 'Psat7g188000' => 'psa', 'Psat7g188040' => 'psa', 'PSO017G0206' => 'pso', 'PSO170G0501' => 'pso', 'PSO170G6422' => 'pso', 'PSO210G7739' => 'pso', 'PSO339G1808' => 'pso', 'PSO339G6135' => 'pso', 'PSO384G0010' => 'pso', 'PSO384G0964' => 'pso', 'PSO761G0050' => 'pso', 'PSO782G4085' => 'pso', 'QL01p012264' => 'qlo', 'QL02p099491' => 'qlo', 'QL03p033868' => 'qlo', 'QL04p046678' => 'qlo', 'QL06p002448' => 'qlo', 'RcHm_v2.0_Chr4g0416181' => 'rch', 'RcHm_v2.0_Chr5g0044701' => 'rch', 'RcHm_v2.0_Chr6g0265781' => 'rch', 'RcHm_v2.0_Chr7g0221031' => 'rch', 'Rhsim04G0202000' => 'rsi', 'Rhsim11G0127300' => 'rsi', 'Rhsim13G0111800' => 'rsi', 'Sabra01G0165600' => 'sbr', 'Sabra03G0008300' => 'sbr', 'Sabra04G0136900' => 'sbr', 'Sabra08G0013400' => 'sbr', 'Sabra08G0116800' => 'sbr', 'Sabra09G0128000' => 'sbr', 'Sabra10G0055500' => 'sbr', 'Sabra10G0073300' => 'sbr', 'SalBow3G0385' => 'sbo', 'SalBow3G1119' => 'sbo', 'SalBow3G2005' => 'sbo', 'SalBow6G2563' => 'sbo', 'SalBow6G6386' => 'sbo', 'Sc06g0008800' => 'sci', 'Sc07g0004950' => 'sci', 'Sc09g0005340' => 'sci', 'Sc13g0004410' => 'sci', 'Sc21g0007090' => 'sci', 'Sed0009285' => 'sed', 'Sed0017583' => 'sed', 'Sed0019699' => 'sed', 'Sed0023107' => 'sed', 'SEGI_10916' => 'sgi', 'SEGI_16217' => 'sgi', 'SEGI_19466' => 'sgi', 'SEGI_41115' => 'sgi', 'SGA_v2.0_scaffold111G31534' => 'sas', 'SGA_v2.0_scaffold22G09864' => 'sas', 'SGA_v2.0_scaffold338G49219' => 'sas', 'SGA_v2.0_scaffold92G28298' => 'sas', 'SMO119G0064' => 'smo', 'SMO223G0038' => 'smo', 'SMO347G0584' => 'smo', 'SMO351G0010' => 'smo', 'SMO356G0404' => 'smo', 'Solyc01g103920.3' => 'sly', 'Solyc04g009710.2' => 'sly', 'Solyc05g055280.2' => 'sly', 'Solyc10g044520.3' => 'sly', 'Solyc10g075160.1' => 'sly', 'Solyc11g006910.3' => 'sly', 'Solyc11g068430.3' => 'sly', 'Sopen01g046310' => 'spe', 'Sopen03g001200' => 'spe', 'Sopen04g004830' => 'spe', 'Sopen05g033720' => 'spe', 'Sopen06g030740' => 'spe', 'Sopen10g013090' => 'spe', 'Sopen10g027630' => 'spe', 'Sopen10g027640' => 'spe', 'Sopen11g002820' => 'spe', 'Sopen11g027140' => 'spe', 'Sp1g09680' => 'spa', 'Sp2g03630' => 'spa', 'Sp4g10320' => 'spa', 'Sp6g33400' => 'spa', 'Sp7g13030' => 'spa', 'TAR365G0317' => 'tar', 'TAR376G0979' => 'tar', 'TAR623G1665' => 'tar', 'TAR633G2373' => 'tar', 'TAR636G1400' => 'tar', 'THA.LOC104800529' => 'tha', 'THA.LOC104808547' => 'tha', 'THA.LOC104809615' => 'tha', 'THA.LOC104815724' => 'tha', 'THA.LOC104818480' => 'tha', 'THA.LOC104819179' => 'tha', 'THA.LOC104822270' => 'tha', 'THA.LOC104826425' => 'tha', 'Thecc.02G089700' => 'tca', 'Thecc.04G232300' => 'tca', 'Thecc.09G283400' => 'tca', 'Thhalv10009020m.g' => 'esa', 'Thhalv10015506m.g' => 'esa', 'Thhalv10017364m.g' => 'esa', 'Thhalv10023742m.g' => 'esa', 'Thhalv10026483m.g' => 'esa', 'TPR.G17232' => 'tpr', 'TPR.G2133' => 'tpr', 'TPR.G2498' => 'tpr', 'TPR.G31942' => 'tpr', 'TPR.G37877' => 'tpr', 'TPR.G4571' => 'tpr', 'TWI14G1113' => 'twi', 'TWI15G0426' => 'twi', 'TWI31G1005' => 'twi', 'TWI38G0513' => 'twi', 'TWI38G1484' => 'twi', 'TWI73G1098' => 'twi', 'unitig_26.g10519' => 'ugi', 'unitig_736.g22395' => 'ugi', 'unitig_747.g21234' => 'ugi', 'unitig_747.g21942' => 'ugi', 'vmacro14351' => 'vma', 'VMungo0540G0082' => 'vmu', 'VMungo0540G0405' => 'vmu', 'VMungo0540G1486' => 'vmu', 'VMungo0540G1692' => 'vmu', 'VMungo0720G2473' => 'vmu', 'VMungo1127G1562' => 'vmu', 'VMungo1215G1918' => 'vmu', 'Zm00001eb052650' => 'zma', 'Zm00001eb063710' => 'zma', 'Zm00001eb083950' => 'zma', 'Zm00001eb174420' => 'zma', 'Zm00001eb260140' => 'zma', 'Zm00001eb260150' => 'zma', 'Zm00001eb260160' => 'zma', 'Zm00001eb348290' => 'zma', 'Zm00001eb366870' => 'zma', 'Zm00001eb421930' => 'zma' ) $gf_id = 'HOM05D001025' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001025' ) $data_identifier = 'HOM05D001025' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 19, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 2, 'amhyb' => (int) 4, 'aly' => (int) 4, 'aox' => (int) 4, 'arhy' => (int) 3, 'ath' => (int) 5, 'atr' => (int) 4, 'acertr' => (int) 3, 'cqu' => (int) 7, 'bca' => (int) 17, 'bol' => (int) 10, 'bra' => (int) 9, 'can' => (int) 10, 'cansat' => (int) 6, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 5, 'cbr' => (int) 5, 'ccan' => (int) 5, 'cde' => (int) 4, 'cfa' => (int) 3, 'ccl' => (int) 6, 'cil' => (int) 4, 'cla' => (int) 3, 'col' => (int) 3, 'cpa' => (int) 3, 'cre' => (int) 7, 'csa' => (int) 5, 'camsi' => (int) 9, 'dca' => (int) 4, 'din' => (int) 5, 'dzi' => (int) 7, 'eca' => (int) 6, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 12, 'fve' => (int) 4, 'gma' => (int) 12, 'ghi' => (int) 17, 'gra' => (int) 9, 'vvi' => (int) 2, 'han' => (int) 8, 'cav' => (int) 5, 'hma' => (int) 9, 'vpl' => (int) 4, 'sun' => (int) 2, 'lal' => (int) 9, 'lja' => (int) 5, 'lonja' => (int) 6, 'lsa' => (int) 3, 'mes' => (int) 8, 'mpo' => (int) 3, 'mbi' => (int) 4, 'mco' => (int) 3, 'mdo' => (int) 5, 'mtr' => (int) 7, 'cme' => (int) 6, 'egut' => (int) 7, 'ama' => (int) 3, 'nta' => (int) 12, 'nnu' => (int) 9, 'oeu' => (int) 4, 'osa' => (int) 7, 'pax' => (int) 9, 'pgr' => (int) 5, 'stu' => (int) 8, 'pvu' => (int) 6, 'ptr' => (int) 9, 'ppa' => (int) 9, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 7, 'pso' => (int) 10, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 3, 'sbr' => (int) 8, 'sbo' => (int) 5, 'sci' => (int) 5, 'sed' => (int) 4, 'sgi' => (int) 4, 'sas' => (int) 4, 'smo' => (int) 5, 'sly' => (int) 7, 'spe' => (int) 10, 'spa' => (int) 5, 'tar' => (int) 5, 'tha' => (int) 8, 'tca' => (int) 3, 'esa' => (int) 5, 'tpr' => (int) 6, 'twi' => (int) 6, 'ugi' => (int) 4, 'vma' => (int) 1, 'vmu' => (int) 7, 'zma' => (int) 10 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb421930' $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' => 'HOM05D001025', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '592', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p22650' => 'bna', 'A01p29720' => 'bna', 'A03p26560' => 'bna', 'A03p68820' => 'bna', 'A04p20980' => 'bna', 'A06p07730' => 'bna', 'A07p18260' => 'bna', 'A08p33710' => 'bna', 'A09p16970' => 'bna', 'A10p27490' => 'bna', 'Aa31LG1G17300' => 'aar', 'Aa31LG1G3910' => 'aar', 'Aa31LG2G9630' => 'aar', 'Aa31LG5G8360' => 'aar', 'Aa31LG9G2410' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4699' => 'aag', 'Actinidia23512' => 'ach', 'Actinidia37080' => 'ach', 'Ah.01g020380' => 'amhyb', 'Ah.08g215710' => 'amhyb', 'Ah.09g225110' => 'amhyb', 'Ah.10g036680' => 'amhyb', 'AL1G21940' => 'aly', 'AL2G15540' => 'aly', 'AL4G21520' => 'aly', 'AL7G40960' => 'aly', 'Aqoxy2G01191' => 'aox', 'Aqoxy2G03393' => 'aox', 'Aqoxy4G02775' => 'aox', 'Aqoxy6G00058' => 'aox', 'arahy.Tifrunner.gnm1.ann1.9X74H2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CW3FX9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R485W7' => 'arhy', 'AT1G10960' => 'ath', 'AT1G60950' => 'ath', 'AT2G27510' => 'ath', 'AT4G14890' => 'ath', 'AT5G10000' => 'ath', 'ATR0665G624' => 'atr', 'ATR0697G138' => 'atr', 'ATR0776G046' => 'atr', 'ATR1134G135' => 'atr', 'Atru.chr12.1025' => 'acertr', 'Atru.chr3.3241' => 'acertr', 'Atru.chr4.2460' => 'acertr', 'AUR62007427' => 'cqu', 'AUR62010960' => 'cqu', 'AUR62012201' => 'cqu', 'AUR62021470' => 'cqu', 'AUR62022834' => 'cqu', 'AUR62033635' => 'cqu', 'AUR62036186' => 'cqu', 'BcaB01g03077' => 'bca', 'BcaB02g10093' => 'bca', 'BcaB04g20295' => 'bca', 'BcaB06g28147' => 'bca', 'BcaB07g31253' => 'bca', 'BcaC01g04946' => 'bca', 'BcaC02g10614' => 'bca', 'BcaC02g10885' => 'bca', 'BcaC04g19356' => 'bca', 'BcaC04g22297' => 'bca', 'BcaC05g24977' => 'bca', 'BcaC06g31823' => 'bca', 'BcaC07g38633' => 'bca', 'BcaC09g49353' => 'bca', 'BcaC09g50168' => 'bca', 'BcaNung00322' => 'bca', 'BcaNung04769' => 'bca', 'BolC1t02753H' => 'bol', 'BolC1t03721H' => 'bol', 'BolC3t15525H' => 'bol', 'BolC4t23903H' => 'bol', 'BolC4t24231H' => 'bol', 'BolC4t27209H' => 'bol', 'BolC5t29671H' => 'bol', 'BolC8t49044H' => 'bol', 'BolC9t54999H' => 'bol', 'BolC9t59517H' => 'bol', 'BraA01t02178Z' => 'bra', 'BraA01t03099Z' => 'bra', 'BraA03t11867Z' => 'bra', 'BraA04t17667Z' => 'bra', 'BraA07t29542Z' => 'bra', 'BraA08t35287Z' => 'bra', 'BraA09t37334Z' => 'bra', 'BraA10t44801Z' => 'bra', 'BraSC39t46181Z' => 'bra', 'C01p28240' => 'bna', 'C01p37530' => 'bna', 'C03p31820' => 'bna', 'C04p24080' => 'bna', 'C04p25790' => 'bna', 'C04p56770' => 'bna', 'C05p09310' => 'bna', 'C09p21010' => 'bna', 'C09p67560' => 'bna', 'CAN.G1324.7' => 'can', 'CAN.G1358.10' => 'can', 'CAN.G1550.2' => 'can', 'CAN.G186.56' => 'can', 'CAN.G1965.1' => 'can', 'CAN.G645.15' => 'can', 'CAN.G798.26' => 'can', 'CAN.G798.27' => 'can', 'CAN.G798.29' => 'can', 'CAN.G919.31' => 'can', 'CANSAT11G0133' => 'cansat', 'CANSAT11G1171' => 'cansat', 'CANSAT11G2056' => 'cansat', 'CANSAT56G1202' => 'cansat', 'CANSAT56G1514' => 'cansat', 'CANSAT78G0455' => 'cansat', 'CARHR011190' => 'chi', 'CARHR051980' => 'chi', 'CARHR120170' => 'chi', 'CARHR203310' => 'chi', 'CARHR221490' => 'chi', 'Carub.0001s1054' => 'cru', 'Carub.0002s0431' => 'cru', 'Carub.0004s0818' => 'cru', 'Carub.0006s0846' => 'cru', 'Carub.0007s2722' => 'cru', 'Ca_00058_v3' => 'car', 'Ca_17831_v3' => 'car', 'Ca_19408_v3' => 'car', 'Ca_24397_v3' => 'car', 'Ca_25664_v3' => 'car', 'CBR_g21818' => 'cbr', 'CBR_g31195' => 'cbr', 'CBR_g32282' => 'cbr', 'CBR_g39599' => 'cbr', 'CBR_g49410' => 'cbr', 'Cc01_g09120' => 'ccan', 'Cc01_g09130' => 'ccan', 'Cc02_g09630' => 'ccan', 'Cc02_g22810' => 'ccan', 'Cc03_g03810' => 'ccan', 'CDE02G3718' => 'cde', 'CDE04G3183' => 'cde', 'CDE07G1046' => 'cde', 'CDE08G0480' => 'cde', 'Cfa005493' => 'cfa', 'Cfa010312' => 'cfa', 'Cfa015648' => 'cfa', 'Ciclev10002793m.g' => 'ccl', 'Ciclev10003356m.g' => 'ccl', 'Ciclev10006141m.g' => 'ccl', 'Ciclev10016676m.g' => 'ccl', 'Ciclev10017081m.g' => 'ccl', 'Ciclev10029499m.g' => 'ccl', 'CiPaw.01G166300' => 'cil', 'CiPaw.06G145600' => 'cil', 'CiPaw.13G040100' => 'cil', 'CiPaw.13G135800' => 'cil', 'ClCG01G012230' => 'cla', 'ClCG05G009510' => 'cla', 'ClCG08G008270' => 'cla', 'COL.COLO4_11763' => 'col', 'COL.COLO4_19876' => 'col', 'COL.COLO4_21481' => 'col', 'Cpa.g.sc118.34' => 'cpa', 'Cpa.g.sc32.13' => 'cpa', 'Cpa.g.sc58.103' => 'cpa', 'Cre03.g183850' => 'cre', 'Cre06.g306350' => 'cre', 'Cre07.g334800' => 'cre', 'Cre12.g487900' => 'cre', 'Cre14.g626700' => 'cre', 'Cre16.g658400' => 'cre', 'Cre17.g700950' => 'cre', 'CsaV3_1G014830' => 'csa', 'CsaV3_3G013320' => 'csa', 'CsaV3_3G019210' => 'csa', 'CsaV3_3G019220' => 'csa', 'CsaV3_6G004230' => 'csa', 'CSS0003773' => 'camsi', 'CSS0004563' => 'camsi', 'CSS0013949' => 'camsi', 'CSS0025971' => 'camsi', 'CSS0028570' => 'camsi', 'CSS0033127' => 'camsi', 'CSS0036051' => 'camsi', 'CSS0040087' => 'camsi', 'CSS0043179' => 'camsi', 'DCAR_006161' => 'dca', 'DCAR_010351' => 'dca', 'DCAR_012197' => 'dca', 'DCAR_024162' => 'dca', 'Dinv01030' => 'din', 'Dinv10924' => 'din', 'Dinv11835' => 'din', 'Dinv22841' => 'din', 'Dinv42553' => 'din', 'Duzib052G0560' => 'dzi', 'Duzib132G0389' => 'dzi', 'Duzib150G1181' => 'dzi', 'Duzib168G0623' => 'dzi', 'Duzib170G1036' => 'dzi', 'Duzib212G0200' => 'dzi', 'Duzib248G0194' => 'dzi', 'ECA232G2193' => 'eca', 'ECA233G0302' => 'eca', 'ECA234G2813' => 'eca', 'ECA234G4866' => 'eca', 'ECA240G3932' => 'eca', 'ECA248G0385' => 'eca', 'EL10Ac2g04781' => 'bvu', 'EL10Ac3g06445' => 'bvu', 'EL10Ac7g15825' => 'bvu', 'EL10Ac8g18550' => 'bvu', 'Eucgr.B03849' => 'egr', 'Eucgr.I02744' => 'egr', 'Eucgr.J00264' => 'egr', 'Eucgr.J00493' => 'egr', 'FAN04G2181' => 'fan', 'FAN07G2666' => 'fan', 'FAN11G0024' => 'fan', 'FAN12G1105' => 'fan', 'FAN13G0302' => 'fan', 'FAN15G2781' => 'fan', 'FAN16G1274' => 'fan', 'FAN17G2988' => 'fan', 'FAN18G2621' => 'fan', 'FAN21G0013' => 'fan', 'FAN22G1211' => 'fan', 'FAN25G3626' => 'fan', 'FvH4_2g09491' => 'fve', 'FvH4_3g24910' => 'fve', 'FvH4_4g15630' => 'fve', 'FvH4_5g28820' => 'fve', 'Glyma.01G238000' => 'gma', 'Glyma.05G168400' => 'gma', 'Glyma.08G126800' => 'gma', 'Glyma.08G188500' => 'gma', 'Glyma.10G278900' => 'gma', 'Glyma.11G005700' => 'gma', 'Glyma.11G183300' => 'gma', 'Glyma.12G089200' => 'gma', 'Glyma.12G169400' => 'gma', 'Glyma.12G169500' => 'gma', 'Glyma.12G169600' => 'gma', 'Glyma.20G110800' => 'gma', 'Gohir.A03G192900' => 'ghi', 'Gohir.A03G193000' => 'ghi', 'Gohir.A05G080700' => 'ghi', 'Gohir.A09G216000' => 'ghi', 'Gohir.A12G027700' => 'ghi', 'Gohir.A13G036200' => 'ghi', 'Gohir.A13G222600' => 'ghi', 'Gohir.D02G213900' => 'ghi', 'Gohir.D02G214000' => 'ghi', 'Gohir.D05G083700' => 'ghi', 'Gohir.D05G083800' => 'ghi', 'Gohir.D05G083850' => 'ghi', 'Gohir.D08G015400' => 'ghi', 'Gohir.D09G218400' => 'ghi', 'Gohir.D12G027100' => 'ghi', 'Gohir.D13G034500' => 'ghi', 'Gohir.D13G227400' => 'ghi', 'Gorai.005G241800' => 'gra', 'Gorai.005G241900' => 'gra', 'Gorai.006G239400' => 'gra', 'Gorai.008G027600' => 'gra', 'Gorai.009G085400' => 'gra', 'Gorai.009G085500' => 'gra', 'Gorai.013G039000' => 'gra', 'Gorai.013G194800' => 'gra', 'Gorai.013G257900' => 'gra', 'GSVIVG01000982001' => 'vvi', 'GSVIVG01017981001' => 'vvi', 'HanXRQChr01g0024061' => 'han', 'HanXRQChr09g0247831' => 'han', 'HanXRQChr10g0294611' => 'han', 'HanXRQChr10g0294621' => 'han', 'HanXRQChr11g0346821' => 'han', 'HanXRQChr13g0397461' => 'han', 'HanXRQChr16g0513651' => 'han', 'HanXRQChr16g0513701' => 'han', 'Haze_00897' => 'cav', 'Haze_01745' => 'cav', 'Haze_02486' => 'cav', 'Haze_02487' => 'cav', 'Haze_23374' => 'cav', 'Hma1.2p1_0578F.1_g182520' => 'hma', 'Hma1.2p1_0602F.1_g187350' => 'hma', 'Hma1.2p1_0602F.1_g187360' => 'hma', 'Hma1.2p1_0874F.1_g231320' => 'hma', 'Hma1.2p1_1197F.1_g266210' => 'hma', 'Hma1.2p1_1197F.1_g266220' => 'hma', 'Hma1.2p1_2167F.1_g315895' => 'hma', 'Hma1.2p1_2190F.1_g316640' => 'hma', 'Hma1.2p1_3645F.1_g337153' => 'hma', 'HPP92_004907' => 'vpl', 'HPP92_012134' => 'vpl', 'HPP92_025136' => 'vpl', 'HPP92_026087' => 'vpl', 'Hund06782' => 'sun', 'Hund06784' => 'sun', 'Lalb_Chr01g0004861' => 'lal', 'Lalb_Chr02g0140591' => 'lal', 'Lalb_Chr02g0140611' => 'lal', 'Lalb_Chr03g0028101' => 'lal', 'Lalb_Chr07g0185791' => 'lal', 'Lalb_Chr12g0204491' => 'lal', 'Lalb_Chr13g0295671' => 'lal', 'Lalb_Chr19g0136461' => 'lal', 'Lalb_Chr21g0309191' => 'lal', 'Lj1g0028158' => 'lja', 'Lj1P236T38' => 'lonja', 'Lj2C32G2' => 'lonja', 'Lj2P944T8' => 'lonja', 'Lj2P963T15' => 'lonja', 'Lj3g0011788' => 'lja', 'Lj4g0025027' => 'lja', 'Lj5P255T36' => 'lonja', 'Lj6g0018866' => 'lja', 'Lj6P608T31' => 'lonja', 'LjContig00408g0008879' => 'lja', 'Lsat_1_v5_gn_5_105820' => 'lsa', 'Lsat_1_v5_gn_6_38800' => 'lsa', 'Lsat_1_v5_gn_7_67141' => 'lsa', 'Manes.04G003400' => 'mes', 'Manes.07G020000' => 'mes', 'Manes.07G020100' => 'mes', 'Manes.07G020150' => 'mes', 'Manes.10G061500' => 'mes', 'Manes.10G123200' => 'mes', 'Manes.11G161900' => 'mes', 'Manes.15G029300' => 'mes', 'Mapoly0071s0018' => 'mpo', 'Mapoly0082s0023' => 'mpo', 'Mapoly3477s0001' => 'mpo', 'MBI05_g31233_MAGBIO' => 'mbi', 'MBI09_g05946_MAGBIO' => 'mbi', 'MBI09_g05947_MAGBIO' => 'mbi', 'MBI17_g08346_MAGBIO' => 'mbi', 'MCO04G038' => 'mco', 'MCO09G370' => 'mco', 'MCO13G605' => 'mco', 'MD00G1075500' => 'mdo', 'MD03G1144300' => 'mdo', 'MD08G1236800' => 'mdo', 'MD13G1193300' => 'mdo', 'MD15G1428700' => 'mdo', 'Medtr1g112030' => 'mtr', 'Medtr1g112050' => 'mtr', 'Medtr2g006290' => 'mtr', 'Medtr2g086510' => 'mtr', 'Medtr4g053120' => 'mtr', 'Medtr5g006320' => 'mtr', 'Medtr8g088720' => 'mtr', 'MELO3C004712.2' => 'cme', 'MELO3C006533.2' => 'cme', 'MELO3C019438.2' => 'cme', 'MELO3C019440.2' => 'cme', 'MELO3C019441.2' => 'cme', 'MELO3C019895.2' => 'cme', 'Migut.B00811' => 'egut', 'Migut.D02447' => 'egut', 'Migut.F00875' => 'egut', 'Migut.N00186' => 'egut', 'Migut.N01051' => 'egut', 'Migut.N02491' => 'egut', 'Migut.O00784' => 'egut', 'MSTRG.12367' => 'ama', 'MSTRG.18756' => 'ama', 'MSTRG.21042' => 'ama', 'Nitab4.5_0000559g0040' => 'nta', 'Nitab4.5_0000667g0190' => 'nta', 'Nitab4.5_0000755g0160' => 'nta', 'Nitab4.5_0001216g0080' => 'nta', 'Nitab4.5_0004069g0040' => 'nta', 'Nitab4.5_0004129g0010' => 'nta', 'Nitab4.5_0005744g0030' => 'nta', 'Nitab4.5_0006996g0030' => 'nta', 'Nitab4.5_0008971g0040' => 'nta', 'Nitab4.5_0009769g0020' => 'nta', 'Nitab4.5_0009833g0010' => 'nta', 'Nitab4.5_0013140g0020' => 'nta', 'Nn003s41376' => 'nnu', 'Nn1g01857' => 'nnu', 'Nn1g03611' => 'nnu', 'Nn1g06853' => 'nnu', 'Nn3g18360' => 'nnu', 'Nn4g26328' => 'nnu', 'Nn5g27531' => 'nnu', 'Nn6g34899' => 'nnu', 'Nn7g36299' => 'nnu', 'Oeu021485.1' => 'oeu', 'Oeu022433.1' => 'oeu', 'Oeu032111.1' => 'oeu', 'Oeu051608.1' => 'oeu', 'Os01g0860601' => 'osa', 'Os03g0659200' => 'osa', 'Os03g0835900' => 'osa', 'Os04g0412200' => 'osa', 'Os05g0443500' => 'osa', 'Os07g0251500' => 'osa', 'Os08g0104600' => 'osa', 'Peaxi162Scf00003g00047' => 'pax', 'Peaxi162Scf00003g00052' => 'pax', 'Peaxi162Scf00003g00394' => 'pax', 'Peaxi162Scf00091g00621' => 'pax', 'Peaxi162Scf00152g00146' => 'pax', 'Peaxi162Scf00173g00025' => 'pax', 'Peaxi162Scf00195g00102' => 'pax', 'Peaxi162Scf00402g00013' => 'pax', 'Peaxi162Scf00519g00618' => 'pax', 'PGR004G2838' => 'pgr', 'PGR044G2275' => 'pgr', 'PGR102G1377' => 'pgr', 'PGR119G1245' => 'pgr', 'PGR142G4449' => 'pgr', 'PGSC0003DMG400004532' => 'stu', 'PGSC0003DMG400011950' => 'stu', 'PGSC0003DMG400023391' => 'stu', 'PGSC0003DMG400023985' => 'stu', 'PGSC0003DMG400026360' => 'stu', 'PGSC0003DMG400035711' => 'stu', 'PGSC0003DMG400037286' => 'stu', 'PGSC0003DMG402005881' => 'stu', 'Phvul.002G045400' => 'pvu', 'Phvul.006G216600' => 'pvu', 'Phvul.006G216700' => 'pvu', 'Phvul.006G216800' => 'pvu', 'Phvul.007G022500' => 'pvu', 'Phvul.011G094400' => 'pvu', 'Potri.001G470700' => 'ptr', 'Potri.003G015200' => 'ptr', 'Potri.004G202500' => 'ptr', 'Potri.004G218400' => 'ptr', 'Potri.008G020100' => 'ptr', 'Potri.008G153200' => 'ptr', 'Potri.009G163800' => 'ptr', 'Potri.010G087300' => 'ptr', 'Potri.010G239100' => 'ptr', 'Pp3c10_16100' => 'ppa', 'Pp3c10_16880' => 'ppa', 'Pp3c16_6230' => 'ppa', 'Pp3c17_18910' => 'ppa', 'Pp3c3_22119' => 'ppa', 'Pp3c3_22140' => 'ppa', 'Pp3c4_8159' => 'ppa', 'Pp3c4_8171' => 'ppa', 'Pp3c4_8330' => 'ppa', 'PRCOL_00004098' => 'pco', 'Prupe.1G013900' => 'ppe', 'Prupe.1G226300' => 'ppe', 'Prupe.1G573600' => 'ppe', 'Prupe.6G130100' => 'ppe', 'Psat3g090040' => 'psa', 'Psat4g210440' => 'psa', 'Psat6g231040' => 'psa', 'Psat6g231080' => 'psa', 'Psat7g063000' => 'psa', 'Psat7g188000' => 'psa', 'Psat7g188040' => 'psa', 'PSO017G0206' => 'pso', 'PSO170G0501' => 'pso', 'PSO170G6422' => 'pso', 'PSO210G7739' => 'pso', 'PSO339G1808' => 'pso', 'PSO339G6135' => 'pso', 'PSO384G0010' => 'pso', 'PSO384G0964' => 'pso', 'PSO761G0050' => 'pso', 'PSO782G4085' => 'pso', 'QL01p012264' => 'qlo', 'QL02p099491' => 'qlo', 'QL03p033868' => 'qlo', 'QL04p046678' => 'qlo', 'QL06p002448' => 'qlo', 'RcHm_v2.0_Chr4g0416181' => 'rch', 'RcHm_v2.0_Chr5g0044701' => 'rch', 'RcHm_v2.0_Chr6g0265781' => 'rch', 'RcHm_v2.0_Chr7g0221031' => 'rch', 'Rhsim04G0202000' => 'rsi', 'Rhsim11G0127300' => 'rsi', 'Rhsim13G0111800' => 'rsi', 'Sabra01G0165600' => 'sbr', 'Sabra03G0008300' => 'sbr', 'Sabra04G0136900' => 'sbr', 'Sabra08G0013400' => 'sbr', 'Sabra08G0116800' => 'sbr', 'Sabra09G0128000' => 'sbr', 'Sabra10G0055500' => 'sbr', 'Sabra10G0073300' => 'sbr', 'SalBow3G0385' => 'sbo', 'SalBow3G1119' => 'sbo', 'SalBow3G2005' => 'sbo', 'SalBow6G2563' => 'sbo', 'SalBow6G6386' => 'sbo', 'Sc06g0008800' => 'sci', 'Sc07g0004950' => 'sci', 'Sc09g0005340' => 'sci', 'Sc13g0004410' => 'sci', 'Sc21g0007090' => 'sci', 'Sed0009285' => 'sed', 'Sed0017583' => 'sed', 'Sed0019699' => 'sed', 'Sed0023107' => 'sed', 'SEGI_10916' => 'sgi', 'SEGI_16217' => 'sgi', 'SEGI_19466' => 'sgi', 'SEGI_41115' => 'sgi', 'SGA_v2.0_scaffold111G31534' => 'sas', 'SGA_v2.0_scaffold22G09864' => 'sas', 'SGA_v2.0_scaffold338G49219' => 'sas', 'SGA_v2.0_scaffold92G28298' => 'sas', 'SMO119G0064' => 'smo', 'SMO223G0038' => 'smo', 'SMO347G0584' => 'smo', 'SMO351G0010' => 'smo', 'SMO356G0404' => 'smo', 'Solyc01g103920.3' => 'sly', 'Solyc04g009710.2' => 'sly', 'Solyc05g055280.2' => 'sly', 'Solyc10g044520.3' => 'sly', 'Solyc10g075160.1' => 'sly', 'Solyc11g006910.3' => 'sly', 'Solyc11g068430.3' => 'sly', 'Sopen01g046310' => 'spe', 'Sopen03g001200' => 'spe', 'Sopen04g004830' => 'spe', 'Sopen05g033720' => 'spe', 'Sopen06g030740' => 'spe', 'Sopen10g013090' => 'spe', 'Sopen10g027630' => 'spe', 'Sopen10g027640' => 'spe', 'Sopen11g002820' => 'spe', 'Sopen11g027140' => 'spe', 'Sp1g09680' => 'spa', 'Sp2g03630' => 'spa', 'Sp4g10320' => 'spa', 'Sp6g33400' => 'spa', 'Sp7g13030' => 'spa', 'TAR365G0317' => 'tar', 'TAR376G0979' => 'tar', 'TAR623G1665' => 'tar', 'TAR633G2373' => 'tar', 'TAR636G1400' => 'tar', 'THA.LOC104800529' => 'tha', 'THA.LOC104808547' => 'tha', 'THA.LOC104809615' => 'tha', 'THA.LOC104815724' => 'tha', 'THA.LOC104818480' => 'tha', 'THA.LOC104819179' => 'tha', 'THA.LOC104822270' => 'tha', 'THA.LOC104826425' => 'tha', 'Thecc.02G089700' => 'tca', 'Thecc.04G232300' => 'tca', 'Thecc.09G283400' => 'tca', 'Thhalv10009020m.g' => 'esa', 'Thhalv10015506m.g' => 'esa', 'Thhalv10017364m.g' => 'esa', 'Thhalv10023742m.g' => 'esa', 'Thhalv10026483m.g' => 'esa', 'TPR.G17232' => 'tpr', 'TPR.G2133' => 'tpr', 'TPR.G2498' => 'tpr', 'TPR.G31942' => 'tpr', 'TPR.G37877' => 'tpr', 'TPR.G4571' => 'tpr', 'TWI14G1113' => 'twi', 'TWI15G0426' => 'twi', 'TWI31G1005' => 'twi', 'TWI38G0513' => 'twi', 'TWI38G1484' => 'twi', 'TWI73G1098' => 'twi', 'unitig_26.g10519' => 'ugi', 'unitig_736.g22395' => 'ugi', 'unitig_747.g21234' => 'ugi', 'unitig_747.g21942' => 'ugi', 'vmacro14351' => 'vma', 'VMungo0540G0082' => 'vmu', 'VMungo0540G0405' => 'vmu', 'VMungo0540G1486' => 'vmu', 'VMungo0540G1692' => 'vmu', 'VMungo0720G2473' => 'vmu', 'VMungo1127G1562' => 'vmu', 'VMungo1215G1918' => 'vmu', 'Zm00001eb052650' => 'zma', 'Zm00001eb063710' => 'zma', 'Zm00001eb083950' => 'zma', 'Zm00001eb174420' => 'zma', 'Zm00001eb260140' => 'zma', 'Zm00001eb260150' => 'zma', 'Zm00001eb260160' => 'zma', 'Zm00001eb348290' => 'zma', 'Zm00001eb366870' => 'zma', 'Zm00001eb421930' => 'zma' ), 'gf_id' => 'HOM05D001025', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001025' ), 'data_identifier' => 'HOM05D001025', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001025', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '592', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p22650' => 'bna', 'A01p29720' => 'bna', 'A03p26560' => 'bna', 'A03p68820' => 'bna', 'A04p20980' => 'bna', 'A06p07730' => 'bna', 'A07p18260' => 'bna', 'A08p33710' => 'bna', 'A09p16970' => 'bna', 'A10p27490' => 'bna', 'Aa31LG1G17300' => 'aar', 'Aa31LG1G3910' => 'aar', 'Aa31LG2G9630' => 'aar', 'Aa31LG5G8360' => 'aar', 'Aa31LG9G2410' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4699' => 'aag', 'Actinidia23512' => 'ach', 'Actinidia37080' => 'ach', 'Ah.01g020380' => 'amhyb', 'Ah.08g215710' => 'amhyb', 'Ah.09g225110' => 'amhyb', 'Ah.10g036680' => 'amhyb', 'AL1G21940' => 'aly', 'AL2G15540' => 'aly', 'AL4G21520' => 'aly', 'AL7G40960' => 'aly', 'Aqoxy2G01191' => 'aox', 'Aqoxy2G03393' => 'aox', 'Aqoxy4G02775' => 'aox', 'Aqoxy6G00058' => 'aox', 'arahy.Tifrunner.gnm1.ann1.9X74H2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CW3FX9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R485W7' => 'arhy', 'AT1G10960' => 'ath', 'AT1G60950' => 'ath', 'AT2G27510' => 'ath', 'AT4G14890' => 'ath', 'AT5G10000' => 'ath', 'ATR0665G624' => 'atr', 'ATR0697G138' => 'atr', 'ATR0776G046' => 'atr', 'ATR1134G135' => 'atr', 'Atru.chr12.1025' => 'acertr', 'Atru.chr3.3241' => 'acertr', 'Atru.chr4.2460' => 'acertr', 'AUR62007427' => 'cqu', 'AUR62010960' => 'cqu', 'AUR62012201' => 'cqu', 'AUR62021470' => 'cqu', 'AUR62022834' => 'cqu', 'AUR62033635' => 'cqu', 'AUR62036186' => 'cqu', 'BcaB01g03077' => 'bca', 'BcaB02g10093' => 'bca', 'BcaB04g20295' => 'bca', 'BcaB06g28147' => 'bca', 'BcaB07g31253' => 'bca', 'BcaC01g04946' => 'bca', 'BcaC02g10614' => 'bca', 'BcaC02g10885' => 'bca', 'BcaC04g19356' => 'bca', 'BcaC04g22297' => 'bca', 'BcaC05g24977' => 'bca', 'BcaC06g31823' => 'bca', 'BcaC07g38633' => 'bca', 'BcaC09g49353' => 'bca', 'BcaC09g50168' => 'bca', 'BcaNung00322' => 'bca', 'BcaNung04769' => 'bca', 'BolC1t02753H' => 'bol', 'BolC1t03721H' => 'bol', 'BolC3t15525H' => 'bol', 'BolC4t23903H' => 'bol', 'BolC4t24231H' => 'bol', 'BolC4t27209H' => 'bol', 'BolC5t29671H' => 'bol', 'BolC8t49044H' => 'bol', 'BolC9t54999H' => 'bol', 'BolC9t59517H' => 'bol', 'BraA01t02178Z' => 'bra', 'BraA01t03099Z' => 'bra', 'BraA03t11867Z' => 'bra', 'BraA04t17667Z' => 'bra', 'BraA07t29542Z' => 'bra', 'BraA08t35287Z' => 'bra', 'BraA09t37334Z' => 'bra', 'BraA10t44801Z' => 'bra', 'BraSC39t46181Z' => 'bra', 'C01p28240' => 'bna', 'C01p37530' => 'bna', 'C03p31820' => 'bna', 'C04p24080' => 'bna', 'C04p25790' => 'bna', 'C04p56770' => 'bna', 'C05p09310' => 'bna', 'C09p21010' => 'bna', 'C09p67560' => 'bna', 'CAN.G1324.7' => 'can', 'CAN.G1358.10' => 'can', 'CAN.G1550.2' => 'can', 'CAN.G186.56' => 'can', 'CAN.G1965.1' => 'can', 'CAN.G645.15' => 'can', 'CAN.G798.26' => 'can', 'CAN.G798.27' => 'can', 'CAN.G798.29' => 'can', 'CAN.G919.31' => 'can', 'CANSAT11G0133' => 'cansat', 'CANSAT11G1171' => 'cansat', 'CANSAT11G2056' => 'cansat', 'CANSAT56G1202' => 'cansat', 'CANSAT56G1514' => 'cansat', 'CANSAT78G0455' => 'cansat', 'CARHR011190' => 'chi', 'CARHR051980' => 'chi', 'CARHR120170' => 'chi', 'CARHR203310' => 'chi', 'CARHR221490' => 'chi', 'Carub.0001s1054' => 'cru', 'Carub.0002s0431' => 'cru', 'Carub.0004s0818' => 'cru', 'Carub.0006s0846' => 'cru', 'Carub.0007s2722' => 'cru', 'Ca_00058_v3' => 'car', 'Ca_17831_v3' => 'car', 'Ca_19408_v3' => 'car', 'Ca_24397_v3' => 'car', 'Ca_25664_v3' => 'car', 'CBR_g21818' => 'cbr', 'CBR_g31195' => 'cbr', 'CBR_g32282' => 'cbr', 'CBR_g39599' => 'cbr', 'CBR_g49410' => 'cbr', 'Cc01_g09120' => 'ccan', 'Cc01_g09130' => 'ccan', 'Cc02_g09630' => 'ccan', 'Cc02_g22810' => 'ccan', 'Cc03_g03810' => 'ccan', 'CDE02G3718' => 'cde', 'CDE04G3183' => 'cde', 'CDE07G1046' => 'cde', 'CDE08G0480' => 'cde', 'Cfa005493' => 'cfa', 'Cfa010312' => 'cfa', 'Cfa015648' => 'cfa', 'Ciclev10002793m.g' => 'ccl', 'Ciclev10003356m.g' => 'ccl', 'Ciclev10006141m.g' => 'ccl', 'Ciclev10016676m.g' => 'ccl', 'Ciclev10017081m.g' => 'ccl', 'Ciclev10029499m.g' => 'ccl', 'CiPaw.01G166300' => 'cil', 'CiPaw.06G145600' => 'cil', 'CiPaw.13G040100' => 'cil', 'CiPaw.13G135800' => 'cil', 'ClCG01G012230' => 'cla', 'ClCG05G009510' => 'cla', 'ClCG08G008270' => 'cla', 'COL.COLO4_11763' => 'col', 'COL.COLO4_19876' => 'col', 'COL.COLO4_21481' => 'col', 'Cpa.g.sc118.34' => 'cpa', 'Cpa.g.sc32.13' => 'cpa', 'Cpa.g.sc58.103' => 'cpa', 'Cre03.g183850' => 'cre', 'Cre06.g306350' => 'cre', 'Cre07.g334800' => 'cre', 'Cre12.g487900' => 'cre', 'Cre14.g626700' => 'cre', 'Cre16.g658400' => 'cre', 'Cre17.g700950' => 'cre', 'CsaV3_1G014830' => 'csa', 'CsaV3_3G013320' => 'csa', 'CsaV3_3G019210' => 'csa', 'CsaV3_3G019220' => 'csa', 'CsaV3_6G004230' => 'csa', 'CSS0003773' => 'camsi', 'CSS0004563' => 'camsi', 'CSS0013949' => 'camsi', 'CSS0025971' => 'camsi', 'CSS0028570' => 'camsi', 'CSS0033127' => 'camsi', 'CSS0036051' => 'camsi', 'CSS0040087' => 'camsi', 'CSS0043179' => 'camsi', 'DCAR_006161' => 'dca', 'DCAR_010351' => 'dca', 'DCAR_012197' => 'dca', 'DCAR_024162' => 'dca', 'Dinv01030' => 'din', 'Dinv10924' => 'din', 'Dinv11835' => 'din', 'Dinv22841' => 'din', 'Dinv42553' => 'din', 'Duzib052G0560' => 'dzi', 'Duzib132G0389' => 'dzi', 'Duzib150G1181' => 'dzi', 'Duzib168G0623' => 'dzi', 'Duzib170G1036' => 'dzi', 'Duzib212G0200' => 'dzi', 'Duzib248G0194' => 'dzi', 'ECA232G2193' => 'eca', 'ECA233G0302' => 'eca', 'ECA234G2813' => 'eca', 'ECA234G4866' => 'eca', 'ECA240G3932' => 'eca', 'ECA248G0385' => 'eca', 'EL10Ac2g04781' => 'bvu', 'EL10Ac3g06445' => 'bvu', 'EL10Ac7g15825' => 'bvu', 'EL10Ac8g18550' => 'bvu', 'Eucgr.B03849' => 'egr', 'Eucgr.I02744' => 'egr', 'Eucgr.J00264' => 'egr', 'Eucgr.J00493' => 'egr', 'FAN04G2181' => 'fan', 'FAN07G2666' => 'fan', 'FAN11G0024' => 'fan', 'FAN12G1105' => 'fan', 'FAN13G0302' => 'fan', 'FAN15G2781' => 'fan', 'FAN16G1274' => 'fan', 'FAN17G2988' => 'fan', 'FAN18G2621' => 'fan', 'FAN21G0013' => 'fan', 'FAN22G1211' => 'fan', 'FAN25G3626' => 'fan', 'FvH4_2g09491' => 'fve', 'FvH4_3g24910' => 'fve', 'FvH4_4g15630' => 'fve', 'FvH4_5g28820' => 'fve', 'Glyma.01G238000' => 'gma', 'Glyma.05G168400' => 'gma', 'Glyma.08G126800' => 'gma', 'Glyma.08G188500' => 'gma', 'Glyma.10G278900' => 'gma', 'Glyma.11G005700' => 'gma', 'Glyma.11G183300' => 'gma', 'Glyma.12G089200' => 'gma', 'Glyma.12G169400' => 'gma', 'Glyma.12G169500' => 'gma', 'Glyma.12G169600' => 'gma', 'Glyma.20G110800' => 'gma', 'Gohir.A03G192900' => 'ghi', 'Gohir.A03G193000' => 'ghi', 'Gohir.A05G080700' => 'ghi', 'Gohir.A09G216000' => 'ghi', 'Gohir.A12G027700' => 'ghi', 'Gohir.A13G036200' => 'ghi', 'Gohir.A13G222600' => 'ghi', 'Gohir.D02G213900' => 'ghi', 'Gohir.D02G214000' => 'ghi', 'Gohir.D05G083700' => 'ghi', 'Gohir.D05G083800' => 'ghi', 'Gohir.D05G083850' => 'ghi', 'Gohir.D08G015400' => 'ghi', 'Gohir.D09G218400' => 'ghi', 'Gohir.D12G027100' => 'ghi', 'Gohir.D13G034500' => 'ghi', 'Gohir.D13G227400' => 'ghi', 'Gorai.005G241800' => 'gra', 'Gorai.005G241900' => 'gra', 'Gorai.006G239400' => 'gra', 'Gorai.008G027600' => 'gra', 'Gorai.009G085400' => 'gra', 'Gorai.009G085500' => 'gra', 'Gorai.013G039000' => 'gra', 'Gorai.013G194800' => 'gra', 'Gorai.013G257900' => 'gra', 'GSVIVG01000982001' => 'vvi', 'GSVIVG01017981001' => 'vvi', 'HanXRQChr01g0024061' => 'han', 'HanXRQChr09g0247831' => 'han', 'HanXRQChr10g0294611' => 'han', 'HanXRQChr10g0294621' => 'han', 'HanXRQChr11g0346821' => 'han', 'HanXRQChr13g0397461' => 'han', 'HanXRQChr16g0513651' => 'han', 'HanXRQChr16g0513701' => 'han', 'Haze_00897' => 'cav', 'Haze_01745' => 'cav', 'Haze_02486' => 'cav', 'Haze_02487' => 'cav', 'Haze_23374' => 'cav', 'Hma1.2p1_0578F.1_g182520' => 'hma', 'Hma1.2p1_0602F.1_g187350' => 'hma', 'Hma1.2p1_0602F.1_g187360' => 'hma', 'Hma1.2p1_0874F.1_g231320' => 'hma', 'Hma1.2p1_1197F.1_g266210' => 'hma', 'Hma1.2p1_1197F.1_g266220' => 'hma', 'Hma1.2p1_2167F.1_g315895' => 'hma', 'Hma1.2p1_2190F.1_g316640' => 'hma', 'Hma1.2p1_3645F.1_g337153' => 'hma', 'HPP92_004907' => 'vpl', 'HPP92_012134' => 'vpl', 'HPP92_025136' => 'vpl', 'HPP92_026087' => 'vpl', 'Hund06782' => 'sun', 'Hund06784' => 'sun', 'Lalb_Chr01g0004861' => 'lal', 'Lalb_Chr02g0140591' => 'lal', 'Lalb_Chr02g0140611' => 'lal', 'Lalb_Chr03g0028101' => 'lal', 'Lalb_Chr07g0185791' => 'lal', 'Lalb_Chr12g0204491' => 'lal', 'Lalb_Chr13g0295671' => 'lal', 'Lalb_Chr19g0136461' => 'lal', 'Lalb_Chr21g0309191' => 'lal', 'Lj1g0028158' => 'lja', 'Lj1P236T38' => 'lonja', 'Lj2C32G2' => 'lonja', 'Lj2P944T8' => 'lonja', 'Lj2P963T15' => 'lonja', 'Lj3g0011788' => 'lja', 'Lj4g0025027' => 'lja', 'Lj5P255T36' => 'lonja', 'Lj6g0018866' => 'lja', 'Lj6P608T31' => 'lonja', 'LjContig00408g0008879' => 'lja', 'Lsat_1_v5_gn_5_105820' => 'lsa', 'Lsat_1_v5_gn_6_38800' => 'lsa', 'Lsat_1_v5_gn_7_67141' => 'lsa', 'Manes.04G003400' => 'mes', 'Manes.07G020000' => 'mes', 'Manes.07G020100' => 'mes', 'Manes.07G020150' => 'mes', 'Manes.10G061500' => 'mes', 'Manes.10G123200' => 'mes', 'Manes.11G161900' => 'mes', 'Manes.15G029300' => 'mes', 'Mapoly0071s0018' => 'mpo', 'Mapoly0082s0023' => 'mpo', 'Mapoly3477s0001' => 'mpo', 'MBI05_g31233_MAGBIO' => 'mbi', 'MBI09_g05946_MAGBIO' => 'mbi', 'MBI09_g05947_MAGBIO' => 'mbi', 'MBI17_g08346_MAGBIO' => 'mbi', 'MCO04G038' => 'mco', 'MCO09G370' => 'mco', 'MCO13G605' => 'mco', 'MD00G1075500' => 'mdo', 'MD03G1144300' => 'mdo', 'MD08G1236800' => 'mdo', 'MD13G1193300' => 'mdo', 'MD15G1428700' => 'mdo', 'Medtr1g112030' => 'mtr', 'Medtr1g112050' => 'mtr', 'Medtr2g006290' => 'mtr', 'Medtr2g086510' => 'mtr', 'Medtr4g053120' => 'mtr', 'Medtr5g006320' => 'mtr', 'Medtr8g088720' => 'mtr', 'MELO3C004712.2' => 'cme', 'MELO3C006533.2' => 'cme', 'MELO3C019438.2' => 'cme', 'MELO3C019440.2' => 'cme', 'MELO3C019441.2' => 'cme', 'MELO3C019895.2' => 'cme', 'Migut.B00811' => 'egut', 'Migut.D02447' => 'egut', 'Migut.F00875' => 'egut', 'Migut.N00186' => 'egut', 'Migut.N01051' => 'egut', 'Migut.N02491' => 'egut', 'Migut.O00784' => 'egut', 'MSTRG.12367' => 'ama', 'MSTRG.18756' => 'ama', 'MSTRG.21042' => 'ama', 'Nitab4.5_0000559g0040' => 'nta', 'Nitab4.5_0000667g0190' => 'nta', 'Nitab4.5_0000755g0160' => 'nta', 'Nitab4.5_0001216g0080' => 'nta', 'Nitab4.5_0004069g0040' => 'nta', 'Nitab4.5_0004129g0010' => 'nta', 'Nitab4.5_0005744g0030' => 'nta', 'Nitab4.5_0006996g0030' => 'nta', 'Nitab4.5_0008971g0040' => 'nta', 'Nitab4.5_0009769g0020' => 'nta', 'Nitab4.5_0009833g0010' => 'nta', 'Nitab4.5_0013140g0020' => 'nta', 'Nn003s41376' => 'nnu', 'Nn1g01857' => 'nnu', 'Nn1g03611' => 'nnu', 'Nn1g06853' => 'nnu', 'Nn3g18360' => 'nnu', 'Nn4g26328' => 'nnu', 'Nn5g27531' => 'nnu', 'Nn6g34899' => 'nnu', 'Nn7g36299' => 'nnu', 'Oeu021485.1' => 'oeu', 'Oeu022433.1' => 'oeu', 'Oeu032111.1' => 'oeu', 'Oeu051608.1' => 'oeu', 'Os01g0860601' => 'osa', 'Os03g0659200' => 'osa', 'Os03g0835900' => 'osa', 'Os04g0412200' => 'osa', 'Os05g0443500' => 'osa', 'Os07g0251500' => 'osa', 'Os08g0104600' => 'osa', 'Peaxi162Scf00003g00047' => 'pax', 'Peaxi162Scf00003g00052' => 'pax', 'Peaxi162Scf00003g00394' => 'pax', 'Peaxi162Scf00091g00621' => 'pax', 'Peaxi162Scf00152g00146' => 'pax', 'Peaxi162Scf00173g00025' => 'pax', 'Peaxi162Scf00195g00102' => 'pax', 'Peaxi162Scf00402g00013' => 'pax', 'Peaxi162Scf00519g00618' => 'pax', 'PGR004G2838' => 'pgr', 'PGR044G2275' => 'pgr', 'PGR102G1377' => 'pgr', 'PGR119G1245' => 'pgr', 'PGR142G4449' => 'pgr', 'PGSC0003DMG400004532' => 'stu', 'PGSC0003DMG400011950' => 'stu', 'PGSC0003DMG400023391' => 'stu', 'PGSC0003DMG400023985' => 'stu', 'PGSC0003DMG400026360' => 'stu', 'PGSC0003DMG400035711' => 'stu', 'PGSC0003DMG400037286' => 'stu', 'PGSC0003DMG402005881' => 'stu', 'Phvul.002G045400' => 'pvu', 'Phvul.006G216600' => 'pvu', 'Phvul.006G216700' => 'pvu', 'Phvul.006G216800' => 'pvu', 'Phvul.007G022500' => 'pvu', 'Phvul.011G094400' => 'pvu', 'Potri.001G470700' => 'ptr', 'Potri.003G015200' => 'ptr', 'Potri.004G202500' => 'ptr', 'Potri.004G218400' => 'ptr', 'Potri.008G020100' => 'ptr', 'Potri.008G153200' => 'ptr', 'Potri.009G163800' => 'ptr', 'Potri.010G087300' => 'ptr', 'Potri.010G239100' => 'ptr', 'Pp3c10_16100' => 'ppa', 'Pp3c10_16880' => 'ppa', 'Pp3c16_6230' => 'ppa', 'Pp3c17_18910' => 'ppa', 'Pp3c3_22119' => 'ppa', 'Pp3c3_22140' => 'ppa', 'Pp3c4_8159' => 'ppa', 'Pp3c4_8171' => 'ppa', 'Pp3c4_8330' => 'ppa', 'PRCOL_00004098' => 'pco', 'Prupe.1G013900' => 'ppe', 'Prupe.1G226300' => 'ppe', 'Prupe.1G573600' => 'ppe', 'Prupe.6G130100' => 'ppe', 'Psat3g090040' => 'psa', 'Psat4g210440' => 'psa', 'Psat6g231040' => 'psa', 'Psat6g231080' => 'psa', 'Psat7g063000' => 'psa', 'Psat7g188000' => 'psa', 'Psat7g188040' => 'psa', 'PSO017G0206' => 'pso', 'PSO170G0501' => 'pso', 'PSO170G6422' => 'pso', 'PSO210G7739' => 'pso', 'PSO339G1808' => 'pso', 'PSO339G6135' => 'pso', 'PSO384G0010' => 'pso', 'PSO384G0964' => 'pso', 'PSO761G0050' => 'pso', 'PSO782G4085' => 'pso', 'QL01p012264' => 'qlo', 'QL02p099491' => 'qlo', 'QL03p033868' => 'qlo', 'QL04p046678' => 'qlo', 'QL06p002448' => 'qlo', 'RcHm_v2.0_Chr4g0416181' => 'rch', 'RcHm_v2.0_Chr5g0044701' => 'rch', 'RcHm_v2.0_Chr6g0265781' => 'rch', 'RcHm_v2.0_Chr7g0221031' => 'rch', 'Rhsim04G0202000' => 'rsi', 'Rhsim11G0127300' => 'rsi', 'Rhsim13G0111800' => 'rsi', 'Sabra01G0165600' => 'sbr', 'Sabra03G0008300' => 'sbr', 'Sabra04G0136900' => 'sbr', 'Sabra08G0013400' => 'sbr', 'Sabra08G0116800' => 'sbr', 'Sabra09G0128000' => 'sbr', 'Sabra10G0055500' => 'sbr', 'Sabra10G0073300' => 'sbr', 'SalBow3G0385' => 'sbo', 'SalBow3G1119' => 'sbo', 'SalBow3G2005' => 'sbo', 'SalBow6G2563' => 'sbo', 'SalBow6G6386' => 'sbo', 'Sc06g0008800' => 'sci', 'Sc07g0004950' => 'sci', 'Sc09g0005340' => 'sci', 'Sc13g0004410' => 'sci', 'Sc21g0007090' => 'sci', 'Sed0009285' => 'sed', 'Sed0017583' => 'sed', 'Sed0019699' => 'sed', 'Sed0023107' => 'sed', 'SEGI_10916' => 'sgi', 'SEGI_16217' => 'sgi', 'SEGI_19466' => 'sgi', 'SEGI_41115' => 'sgi', 'SGA_v2.0_scaffold111G31534' => 'sas', 'SGA_v2.0_scaffold22G09864' => 'sas', 'SGA_v2.0_scaffold338G49219' => 'sas', 'SGA_v2.0_scaffold92G28298' => 'sas', 'SMO119G0064' => 'smo', 'SMO223G0038' => 'smo', 'SMO347G0584' => 'smo', 'SMO351G0010' => 'smo', 'SMO356G0404' => 'smo', 'Solyc01g103920.3' => 'sly', 'Solyc04g009710.2' => 'sly', 'Solyc05g055280.2' => 'sly', 'Solyc10g044520.3' => 'sly', 'Solyc10g075160.1' => 'sly', 'Solyc11g006910.3' => 'sly', 'Solyc11g068430.3' => 'sly', 'Sopen01g046310' => 'spe', 'Sopen03g001200' => 'spe', 'Sopen04g004830' => 'spe', 'Sopen05g033720' => 'spe', 'Sopen06g030740' => 'spe', 'Sopen10g013090' => 'spe', 'Sopen10g027630' => 'spe', 'Sopen10g027640' => 'spe', 'Sopen11g002820' => 'spe', 'Sopen11g027140' => 'spe', 'Sp1g09680' => 'spa', 'Sp2g03630' => 'spa', 'Sp4g10320' => 'spa', 'Sp6g33400' => 'spa', 'Sp7g13030' => 'spa', 'TAR365G0317' => 'tar', 'TAR376G0979' => 'tar', 'TAR623G1665' => 'tar', 'TAR633G2373' => 'tar', 'TAR636G1400' => 'tar', 'THA.LOC104800529' => 'tha', 'THA.LOC104808547' => 'tha', 'THA.LOC104809615' => 'tha', 'THA.LOC104815724' => 'tha', 'THA.LOC104818480' => 'tha', 'THA.LOC104819179' => 'tha', 'THA.LOC104822270' => 'tha', 'THA.LOC104826425' => 'tha', 'Thecc.02G089700' => 'tca', 'Thecc.04G232300' => 'tca', 'Thecc.09G283400' => 'tca', 'Thhalv10009020m.g' => 'esa', 'Thhalv10015506m.g' => 'esa', 'Thhalv10017364m.g' => 'esa', 'Thhalv10023742m.g' => 'esa', 'Thhalv10026483m.g' => 'esa', 'TPR.G17232' => 'tpr', 'TPR.G2133' => 'tpr', 'TPR.G2498' => 'tpr', 'TPR.G31942' => 'tpr', 'TPR.G37877' => 'tpr', 'TPR.G4571' => 'tpr', 'TWI14G1113' => 'twi', 'TWI15G0426' => 'twi', 'TWI31G1005' => 'twi', 'TWI38G0513' => 'twi', 'TWI38G1484' => 'twi', 'TWI73G1098' => 'twi', 'unitig_26.g10519' => 'ugi', 'unitig_736.g22395' => 'ugi', 'unitig_747.g21234' => 'ugi', 'unitig_747.g21942' => 'ugi', 'vmacro14351' => 'vma', 'VMungo0540G0082' => 'vmu', 'VMungo0540G0405' => 'vmu', 'VMungo0540G1486' => 'vmu', 'VMungo0540G1692' => 'vmu', 'VMungo0720G2473' => 'vmu', 'VMungo1127G1562' => 'vmu', 'VMungo1215G1918' => 'vmu', 'Zm00001eb052650' => 'zma', 'Zm00001eb063710' => 'zma', 'Zm00001eb083950' => 'zma', 'Zm00001eb174420' => 'zma', 'Zm00001eb260140' => 'zma', 'Zm00001eb260150' => 'zma', 'Zm00001eb260160' => 'zma', 'Zm00001eb348290' => 'zma', 'Zm00001eb366870' => 'zma', 'Zm00001eb421930' => 'zma' ) $gf_id = 'HOM05D001025' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001025' ) $data_identifier = 'HOM05D001025' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 19, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 2, 'amhyb' => (int) 4, 'aly' => (int) 4, 'aox' => (int) 4, 'arhy' => (int) 3, 'ath' => (int) 5, 'atr' => (int) 4, 'acertr' => (int) 3, 'cqu' => (int) 7, 'bca' => (int) 17, 'bol' => (int) 10, 'bra' => (int) 9, 'can' => (int) 10, 'cansat' => (int) 6, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 5, 'cbr' => (int) 5, 'ccan' => (int) 5, 'cde' => (int) 4, 'cfa' => (int) 3, 'ccl' => (int) 6, 'cil' => (int) 4, 'cla' => (int) 3, 'col' => (int) 3, 'cpa' => (int) 3, 'cre' => (int) 7, 'csa' => (int) 5, 'camsi' => (int) 9, 'dca' => (int) 4, 'din' => (int) 5, 'dzi' => (int) 7, 'eca' => (int) 6, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 12, 'fve' => (int) 4, 'gma' => (int) 12, 'ghi' => (int) 17, 'gra' => (int) 9, 'vvi' => (int) 2, 'han' => (int) 8, 'cav' => (int) 5, 'hma' => (int) 9, 'vpl' => (int) 4, 'sun' => (int) 2, 'lal' => (int) 9, 'lja' => (int) 5, 'lonja' => (int) 6, 'lsa' => (int) 3, 'mes' => (int) 8, 'mpo' => (int) 3, 'mbi' => (int) 4, 'mco' => (int) 3, 'mdo' => (int) 5, 'mtr' => (int) 7, 'cme' => (int) 6, 'egut' => (int) 7, 'ama' => (int) 3, 'nta' => (int) 12, 'nnu' => (int) 9, 'oeu' => (int) 4, 'osa' => (int) 7, 'pax' => (int) 9, 'pgr' => (int) 5, 'stu' => (int) 8, 'pvu' => (int) 6, 'ptr' => (int) 9, 'ppa' => (int) 9, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 7, 'pso' => (int) 10, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 3, 'sbr' => (int) 8, 'sbo' => (int) 5, 'sci' => (int) 5, 'sed' => (int) 4, 'sgi' => (int) 4, 'sas' => (int) 4, 'smo' => (int) 5, 'sly' => (int) 7, 'spe' => (int) 10, 'spa' => (int) 5, 'tar' => (int) 5, 'tha' => (int) 8, 'tca' => (int) 3, 'esa' => (int) 5, 'tpr' => (int) 6, 'twi' => (int) 6, 'ugi' => (int) 4, 'vma' => (int) 1, 'vmu' => (int) 7, 'zma' => (int) 10 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb421930' $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' => 'HOM05D001025', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '592', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p22650' => 'bna', 'A01p29720' => 'bna', 'A03p26560' => 'bna', 'A03p68820' => 'bna', 'A04p20980' => 'bna', 'A06p07730' => 'bna', 'A07p18260' => 'bna', 'A08p33710' => 'bna', 'A09p16970' => 'bna', 'A10p27490' => 'bna', 'Aa31LG1G17300' => 'aar', 'Aa31LG1G3910' => 'aar', 'Aa31LG2G9630' => 'aar', 'Aa31LG5G8360' => 'aar', 'Aa31LG9G2410' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4699' => 'aag', 'Actinidia23512' => 'ach', 'Actinidia37080' => 'ach', 'Ah.01g020380' => 'amhyb', 'Ah.08g215710' => 'amhyb', 'Ah.09g225110' => 'amhyb', 'Ah.10g036680' => 'amhyb', 'AL1G21940' => 'aly', 'AL2G15540' => 'aly', 'AL4G21520' => 'aly', 'AL7G40960' => 'aly', 'Aqoxy2G01191' => 'aox', 'Aqoxy2G03393' => 'aox', 'Aqoxy4G02775' => 'aox', 'Aqoxy6G00058' => 'aox', 'arahy.Tifrunner.gnm1.ann1.9X74H2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CW3FX9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R485W7' => 'arhy', 'AT1G10960' => 'ath', 'AT1G60950' => 'ath', 'AT2G27510' => 'ath', 'AT4G14890' => 'ath', 'AT5G10000' => 'ath', 'ATR0665G624' => 'atr', 'ATR0697G138' => 'atr', 'ATR0776G046' => 'atr', 'ATR1134G135' => 'atr', 'Atru.chr12.1025' => 'acertr', 'Atru.chr3.3241' => 'acertr', 'Atru.chr4.2460' => 'acertr', 'AUR62007427' => 'cqu', 'AUR62010960' => 'cqu', 'AUR62012201' => 'cqu', 'AUR62021470' => 'cqu', 'AUR62022834' => 'cqu', 'AUR62033635' => 'cqu', 'AUR62036186' => 'cqu', 'BcaB01g03077' => 'bca', 'BcaB02g10093' => 'bca', 'BcaB04g20295' => 'bca', 'BcaB06g28147' => 'bca', 'BcaB07g31253' => 'bca', 'BcaC01g04946' => 'bca', 'BcaC02g10614' => 'bca', 'BcaC02g10885' => 'bca', 'BcaC04g19356' => 'bca', 'BcaC04g22297' => 'bca', 'BcaC05g24977' => 'bca', 'BcaC06g31823' => 'bca', 'BcaC07g38633' => 'bca', 'BcaC09g49353' => 'bca', 'BcaC09g50168' => 'bca', 'BcaNung00322' => 'bca', 'BcaNung04769' => 'bca', 'BolC1t02753H' => 'bol', 'BolC1t03721H' => 'bol', 'BolC3t15525H' => 'bol', 'BolC4t23903H' => 'bol', 'BolC4t24231H' => 'bol', 'BolC4t27209H' => 'bol', 'BolC5t29671H' => 'bol', 'BolC8t49044H' => 'bol', 'BolC9t54999H' => 'bol', 'BolC9t59517H' => 'bol', 'BraA01t02178Z' => 'bra', 'BraA01t03099Z' => 'bra', 'BraA03t11867Z' => 'bra', 'BraA04t17667Z' => 'bra', 'BraA07t29542Z' => 'bra', 'BraA08t35287Z' => 'bra', 'BraA09t37334Z' => 'bra', 'BraA10t44801Z' => 'bra', 'BraSC39t46181Z' => 'bra', 'C01p28240' => 'bna', 'C01p37530' => 'bna', 'C03p31820' => 'bna', 'C04p24080' => 'bna', 'C04p25790' => 'bna', 'C04p56770' => 'bna', 'C05p09310' => 'bna', 'C09p21010' => 'bna', 'C09p67560' => 'bna', 'CAN.G1324.7' => 'can', 'CAN.G1358.10' => 'can', 'CAN.G1550.2' => 'can', 'CAN.G186.56' => 'can', 'CAN.G1965.1' => 'can', 'CAN.G645.15' => 'can', 'CAN.G798.26' => 'can', 'CAN.G798.27' => 'can', 'CAN.G798.29' => 'can', 'CAN.G919.31' => 'can', 'CANSAT11G0133' => 'cansat', 'CANSAT11G1171' => 'cansat', 'CANSAT11G2056' => 'cansat', 'CANSAT56G1202' => 'cansat', 'CANSAT56G1514' => 'cansat', 'CANSAT78G0455' => 'cansat', 'CARHR011190' => 'chi', 'CARHR051980' => 'chi', 'CARHR120170' => 'chi', 'CARHR203310' => 'chi', 'CARHR221490' => 'chi', 'Carub.0001s1054' => 'cru', 'Carub.0002s0431' => 'cru', 'Carub.0004s0818' => 'cru', 'Carub.0006s0846' => 'cru', 'Carub.0007s2722' => 'cru', 'Ca_00058_v3' => 'car', 'Ca_17831_v3' => 'car', 'Ca_19408_v3' => 'car', 'Ca_24397_v3' => 'car', 'Ca_25664_v3' => 'car', 'CBR_g21818' => 'cbr', 'CBR_g31195' => 'cbr', 'CBR_g32282' => 'cbr', 'CBR_g39599' => 'cbr', 'CBR_g49410' => 'cbr', 'Cc01_g09120' => 'ccan', 'Cc01_g09130' => 'ccan', 'Cc02_g09630' => 'ccan', 'Cc02_g22810' => 'ccan', 'Cc03_g03810' => 'ccan', 'CDE02G3718' => 'cde', 'CDE04G3183' => 'cde', 'CDE07G1046' => 'cde', 'CDE08G0480' => 'cde', 'Cfa005493' => 'cfa', 'Cfa010312' => 'cfa', 'Cfa015648' => 'cfa', 'Ciclev10002793m.g' => 'ccl', 'Ciclev10003356m.g' => 'ccl', 'Ciclev10006141m.g' => 'ccl', 'Ciclev10016676m.g' => 'ccl', 'Ciclev10017081m.g' => 'ccl', 'Ciclev10029499m.g' => 'ccl', 'CiPaw.01G166300' => 'cil', 'CiPaw.06G145600' => 'cil', 'CiPaw.13G040100' => 'cil', 'CiPaw.13G135800' => 'cil', 'ClCG01G012230' => 'cla', 'ClCG05G009510' => 'cla', 'ClCG08G008270' => 'cla', 'COL.COLO4_11763' => 'col', 'COL.COLO4_19876' => 'col', 'COL.COLO4_21481' => 'col', 'Cpa.g.sc118.34' => 'cpa', 'Cpa.g.sc32.13' => 'cpa', 'Cpa.g.sc58.103' => 'cpa', 'Cre03.g183850' => 'cre', 'Cre06.g306350' => 'cre', 'Cre07.g334800' => 'cre', 'Cre12.g487900' => 'cre', 'Cre14.g626700' => 'cre', 'Cre16.g658400' => 'cre', 'Cre17.g700950' => 'cre', 'CsaV3_1G014830' => 'csa', 'CsaV3_3G013320' => 'csa', 'CsaV3_3G019210' => 'csa', 'CsaV3_3G019220' => 'csa', 'CsaV3_6G004230' => 'csa', 'CSS0003773' => 'camsi', 'CSS0004563' => 'camsi', 'CSS0013949' => 'camsi', 'CSS0025971' => 'camsi', 'CSS0028570' => 'camsi', 'CSS0033127' => 'camsi', 'CSS0036051' => 'camsi', 'CSS0040087' => 'camsi', 'CSS0043179' => 'camsi', 'DCAR_006161' => 'dca', 'DCAR_010351' => 'dca', 'DCAR_012197' => 'dca', 'DCAR_024162' => 'dca', 'Dinv01030' => 'din', 'Dinv10924' => 'din', 'Dinv11835' => 'din', 'Dinv22841' => 'din', 'Dinv42553' => 'din', 'Duzib052G0560' => 'dzi', 'Duzib132G0389' => 'dzi', 'Duzib150G1181' => 'dzi', 'Duzib168G0623' => 'dzi', 'Duzib170G1036' => 'dzi', 'Duzib212G0200' => 'dzi', 'Duzib248G0194' => 'dzi', 'ECA232G2193' => 'eca', 'ECA233G0302' => 'eca', 'ECA234G2813' => 'eca', 'ECA234G4866' => 'eca', 'ECA240G3932' => 'eca', 'ECA248G0385' => 'eca', 'EL10Ac2g04781' => 'bvu', 'EL10Ac3g06445' => 'bvu', 'EL10Ac7g15825' => 'bvu', 'EL10Ac8g18550' => 'bvu', 'Eucgr.B03849' => 'egr', 'Eucgr.I02744' => 'egr', 'Eucgr.J00264' => 'egr', 'Eucgr.J00493' => 'egr', 'FAN04G2181' => 'fan', 'FAN07G2666' => 'fan', 'FAN11G0024' => 'fan', 'FAN12G1105' => 'fan', 'FAN13G0302' => 'fan', 'FAN15G2781' => 'fan', 'FAN16G1274' => 'fan', 'FAN17G2988' => 'fan', 'FAN18G2621' => 'fan', 'FAN21G0013' => 'fan', 'FAN22G1211' => 'fan', 'FAN25G3626' => 'fan', 'FvH4_2g09491' => 'fve', 'FvH4_3g24910' => 'fve', 'FvH4_4g15630' => 'fve', 'FvH4_5g28820' => 'fve', 'Glyma.01G238000' => 'gma', 'Glyma.05G168400' => 'gma', 'Glyma.08G126800' => 'gma', 'Glyma.08G188500' => 'gma', 'Glyma.10G278900' => 'gma', 'Glyma.11G005700' => 'gma', 'Glyma.11G183300' => 'gma', 'Glyma.12G089200' => 'gma', 'Glyma.12G169400' => 'gma', 'Glyma.12G169500' => 'gma', 'Glyma.12G169600' => 'gma', 'Glyma.20G110800' => 'gma', 'Gohir.A03G192900' => 'ghi', 'Gohir.A03G193000' => 'ghi', 'Gohir.A05G080700' => 'ghi', 'Gohir.A09G216000' => 'ghi', 'Gohir.A12G027700' => 'ghi', 'Gohir.A13G036200' => 'ghi', 'Gohir.A13G222600' => 'ghi', 'Gohir.D02G213900' => 'ghi', 'Gohir.D02G214000' => 'ghi', 'Gohir.D05G083700' => 'ghi', 'Gohir.D05G083800' => 'ghi', 'Gohir.D05G083850' => 'ghi', 'Gohir.D08G015400' => 'ghi', 'Gohir.D09G218400' => 'ghi', 'Gohir.D12G027100' => 'ghi', 'Gohir.D13G034500' => 'ghi', 'Gohir.D13G227400' => 'ghi', 'Gorai.005G241800' => 'gra', 'Gorai.005G241900' => 'gra', 'Gorai.006G239400' => 'gra', 'Gorai.008G027600' => 'gra', 'Gorai.009G085400' => 'gra', 'Gorai.009G085500' => 'gra', 'Gorai.013G039000' => 'gra', 'Gorai.013G194800' => 'gra', 'Gorai.013G257900' => 'gra', 'GSVIVG01000982001' => 'vvi', 'GSVIVG01017981001' => 'vvi', 'HanXRQChr01g0024061' => 'han', 'HanXRQChr09g0247831' => 'han', 'HanXRQChr10g0294611' => 'han', 'HanXRQChr10g0294621' => 'han', 'HanXRQChr11g0346821' => 'han', 'HanXRQChr13g0397461' => 'han', 'HanXRQChr16g0513651' => 'han', 'HanXRQChr16g0513701' => 'han', 'Haze_00897' => 'cav', 'Haze_01745' => 'cav', 'Haze_02486' => 'cav', 'Haze_02487' => 'cav', 'Haze_23374' => 'cav', 'Hma1.2p1_0578F.1_g182520' => 'hma', 'Hma1.2p1_0602F.1_g187350' => 'hma', 'Hma1.2p1_0602F.1_g187360' => 'hma', 'Hma1.2p1_0874F.1_g231320' => 'hma', 'Hma1.2p1_1197F.1_g266210' => 'hma', 'Hma1.2p1_1197F.1_g266220' => 'hma', 'Hma1.2p1_2167F.1_g315895' => 'hma', 'Hma1.2p1_2190F.1_g316640' => 'hma', 'Hma1.2p1_3645F.1_g337153' => 'hma', 'HPP92_004907' => 'vpl', 'HPP92_012134' => 'vpl', 'HPP92_025136' => 'vpl', 'HPP92_026087' => 'vpl', 'Hund06782' => 'sun', 'Hund06784' => 'sun', 'Lalb_Chr01g0004861' => 'lal', 'Lalb_Chr02g0140591' => 'lal', 'Lalb_Chr02g0140611' => 'lal', 'Lalb_Chr03g0028101' => 'lal', 'Lalb_Chr07g0185791' => 'lal', 'Lalb_Chr12g0204491' => 'lal', 'Lalb_Chr13g0295671' => 'lal', 'Lalb_Chr19g0136461' => 'lal', 'Lalb_Chr21g0309191' => 'lal', 'Lj1g0028158' => 'lja', 'Lj1P236T38' => 'lonja', 'Lj2C32G2' => 'lonja', 'Lj2P944T8' => 'lonja', 'Lj2P963T15' => 'lonja', 'Lj3g0011788' => 'lja', 'Lj4g0025027' => 'lja', 'Lj5P255T36' => 'lonja', 'Lj6g0018866' => 'lja', 'Lj6P608T31' => 'lonja', 'LjContig00408g0008879' => 'lja', 'Lsat_1_v5_gn_5_105820' => 'lsa', 'Lsat_1_v5_gn_6_38800' => 'lsa', 'Lsat_1_v5_gn_7_67141' => 'lsa', 'Manes.04G003400' => 'mes', 'Manes.07G020000' => 'mes', 'Manes.07G020100' => 'mes', 'Manes.07G020150' => 'mes', 'Manes.10G061500' => 'mes', 'Manes.10G123200' => 'mes', 'Manes.11G161900' => 'mes', 'Manes.15G029300' => 'mes', 'Mapoly0071s0018' => 'mpo', 'Mapoly0082s0023' => 'mpo', 'Mapoly3477s0001' => 'mpo', 'MBI05_g31233_MAGBIO' => 'mbi', 'MBI09_g05946_MAGBIO' => 'mbi', 'MBI09_g05947_MAGBIO' => 'mbi', 'MBI17_g08346_MAGBIO' => 'mbi', 'MCO04G038' => 'mco', 'MCO09G370' => 'mco', 'MCO13G605' => 'mco', 'MD00G1075500' => 'mdo', 'MD03G1144300' => 'mdo', 'MD08G1236800' => 'mdo', 'MD13G1193300' => 'mdo', 'MD15G1428700' => 'mdo', 'Medtr1g112030' => 'mtr', 'Medtr1g112050' => 'mtr', 'Medtr2g006290' => 'mtr', 'Medtr2g086510' => 'mtr', 'Medtr4g053120' => 'mtr', 'Medtr5g006320' => 'mtr', 'Medtr8g088720' => 'mtr', 'MELO3C004712.2' => 'cme', 'MELO3C006533.2' => 'cme', 'MELO3C019438.2' => 'cme', 'MELO3C019440.2' => 'cme', 'MELO3C019441.2' => 'cme', 'MELO3C019895.2' => 'cme', 'Migut.B00811' => 'egut', 'Migut.D02447' => 'egut', 'Migut.F00875' => 'egut', 'Migut.N00186' => 'egut', 'Migut.N01051' => 'egut', 'Migut.N02491' => 'egut', 'Migut.O00784' => 'egut', 'MSTRG.12367' => 'ama', 'MSTRG.18756' => 'ama', 'MSTRG.21042' => 'ama', 'Nitab4.5_0000559g0040' => 'nta', 'Nitab4.5_0000667g0190' => 'nta', 'Nitab4.5_0000755g0160' => 'nta', 'Nitab4.5_0001216g0080' => 'nta', 'Nitab4.5_0004069g0040' => 'nta', 'Nitab4.5_0004129g0010' => 'nta', 'Nitab4.5_0005744g0030' => 'nta', 'Nitab4.5_0006996g0030' => 'nta', 'Nitab4.5_0008971g0040' => 'nta', 'Nitab4.5_0009769g0020' => 'nta', 'Nitab4.5_0009833g0010' => 'nta', 'Nitab4.5_0013140g0020' => 'nta', 'Nn003s41376' => 'nnu', 'Nn1g01857' => 'nnu', 'Nn1g03611' => 'nnu', 'Nn1g06853' => 'nnu', 'Nn3g18360' => 'nnu', 'Nn4g26328' => 'nnu', 'Nn5g27531' => 'nnu', 'Nn6g34899' => 'nnu', 'Nn7g36299' => 'nnu', 'Oeu021485.1' => 'oeu', 'Oeu022433.1' => 'oeu', 'Oeu032111.1' => 'oeu', 'Oeu051608.1' => 'oeu', 'Os01g0860601' => 'osa', 'Os03g0659200' => 'osa', 'Os03g0835900' => 'osa', 'Os04g0412200' => 'osa', 'Os05g0443500' => 'osa', 'Os07g0251500' => 'osa', 'Os08g0104600' => 'osa', 'Peaxi162Scf00003g00047' => 'pax', 'Peaxi162Scf00003g00052' => 'pax', 'Peaxi162Scf00003g00394' => 'pax', 'Peaxi162Scf00091g00621' => 'pax', 'Peaxi162Scf00152g00146' => 'pax', 'Peaxi162Scf00173g00025' => 'pax', 'Peaxi162Scf00195g00102' => 'pax', 'Peaxi162Scf00402g00013' => 'pax', 'Peaxi162Scf00519g00618' => 'pax', 'PGR004G2838' => 'pgr', 'PGR044G2275' => 'pgr', 'PGR102G1377' => 'pgr', 'PGR119G1245' => 'pgr', 'PGR142G4449' => 'pgr', 'PGSC0003DMG400004532' => 'stu', 'PGSC0003DMG400011950' => 'stu', 'PGSC0003DMG400023391' => 'stu', 'PGSC0003DMG400023985' => 'stu', 'PGSC0003DMG400026360' => 'stu', 'PGSC0003DMG400035711' => 'stu', 'PGSC0003DMG400037286' => 'stu', 'PGSC0003DMG402005881' => 'stu', 'Phvul.002G045400' => 'pvu', 'Phvul.006G216600' => 'pvu', 'Phvul.006G216700' => 'pvu', 'Phvul.006G216800' => 'pvu', 'Phvul.007G022500' => 'pvu', 'Phvul.011G094400' => 'pvu', 'Potri.001G470700' => 'ptr', 'Potri.003G015200' => 'ptr', 'Potri.004G202500' => 'ptr', 'Potri.004G218400' => 'ptr', 'Potri.008G020100' => 'ptr', 'Potri.008G153200' => 'ptr', 'Potri.009G163800' => 'ptr', 'Potri.010G087300' => 'ptr', 'Potri.010G239100' => 'ptr', 'Pp3c10_16100' => 'ppa', 'Pp3c10_16880' => 'ppa', 'Pp3c16_6230' => 'ppa', 'Pp3c17_18910' => 'ppa', 'Pp3c3_22119' => 'ppa', 'Pp3c3_22140' => 'ppa', 'Pp3c4_8159' => 'ppa', 'Pp3c4_8171' => 'ppa', 'Pp3c4_8330' => 'ppa', 'PRCOL_00004098' => 'pco', 'Prupe.1G013900' => 'ppe', 'Prupe.1G226300' => 'ppe', 'Prupe.1G573600' => 'ppe', 'Prupe.6G130100' => 'ppe', 'Psat3g090040' => 'psa', 'Psat4g210440' => 'psa', 'Psat6g231040' => 'psa', 'Psat6g231080' => 'psa', 'Psat7g063000' => 'psa', 'Psat7g188000' => 'psa', 'Psat7g188040' => 'psa', 'PSO017G0206' => 'pso', 'PSO170G0501' => 'pso', 'PSO170G6422' => 'pso', 'PSO210G7739' => 'pso', 'PSO339G1808' => 'pso', 'PSO339G6135' => 'pso', 'PSO384G0010' => 'pso', 'PSO384G0964' => 'pso', 'PSO761G0050' => 'pso', 'PSO782G4085' => 'pso', 'QL01p012264' => 'qlo', 'QL02p099491' => 'qlo', 'QL03p033868' => 'qlo', 'QL04p046678' => 'qlo', 'QL06p002448' => 'qlo', 'RcHm_v2.0_Chr4g0416181' => 'rch', 'RcHm_v2.0_Chr5g0044701' => 'rch', 'RcHm_v2.0_Chr6g0265781' => 'rch', 'RcHm_v2.0_Chr7g0221031' => 'rch', 'Rhsim04G0202000' => 'rsi', 'Rhsim11G0127300' => 'rsi', 'Rhsim13G0111800' => 'rsi', 'Sabra01G0165600' => 'sbr', 'Sabra03G0008300' => 'sbr', 'Sabra04G0136900' => 'sbr', 'Sabra08G0013400' => 'sbr', 'Sabra08G0116800' => 'sbr', 'Sabra09G0128000' => 'sbr', 'Sabra10G0055500' => 'sbr', 'Sabra10G0073300' => 'sbr', 'SalBow3G0385' => 'sbo', 'SalBow3G1119' => 'sbo', 'SalBow3G2005' => 'sbo', 'SalBow6G2563' => 'sbo', 'SalBow6G6386' => 'sbo', 'Sc06g0008800' => 'sci', 'Sc07g0004950' => 'sci', 'Sc09g0005340' => 'sci', 'Sc13g0004410' => 'sci', 'Sc21g0007090' => 'sci', 'Sed0009285' => 'sed', 'Sed0017583' => 'sed', 'Sed0019699' => 'sed', 'Sed0023107' => 'sed', 'SEGI_10916' => 'sgi', 'SEGI_16217' => 'sgi', 'SEGI_19466' => 'sgi', 'SEGI_41115' => 'sgi', 'SGA_v2.0_scaffold111G31534' => 'sas', 'SGA_v2.0_scaffold22G09864' => 'sas', 'SGA_v2.0_scaffold338G49219' => 'sas', 'SGA_v2.0_scaffold92G28298' => 'sas', 'SMO119G0064' => 'smo', 'SMO223G0038' => 'smo', 'SMO347G0584' => 'smo', 'SMO351G0010' => 'smo', 'SMO356G0404' => 'smo', 'Solyc01g103920.3' => 'sly', 'Solyc04g009710.2' => 'sly', 'Solyc05g055280.2' => 'sly', 'Solyc10g044520.3' => 'sly', 'Solyc10g075160.1' => 'sly', 'Solyc11g006910.3' => 'sly', 'Solyc11g068430.3' => 'sly', 'Sopen01g046310' => 'spe', 'Sopen03g001200' => 'spe', 'Sopen04g004830' => 'spe', 'Sopen05g033720' => 'spe', 'Sopen06g030740' => 'spe', 'Sopen10g013090' => 'spe', 'Sopen10g027630' => 'spe', 'Sopen10g027640' => 'spe', 'Sopen11g002820' => 'spe', 'Sopen11g027140' => 'spe', 'Sp1g09680' => 'spa', 'Sp2g03630' => 'spa', 'Sp4g10320' => 'spa', 'Sp6g33400' => 'spa', 'Sp7g13030' => 'spa', 'TAR365G0317' => 'tar', 'TAR376G0979' => 'tar', 'TAR623G1665' => 'tar', 'TAR633G2373' => 'tar', 'TAR636G1400' => 'tar', 'THA.LOC104800529' => 'tha', 'THA.LOC104808547' => 'tha', 'THA.LOC104809615' => 'tha', 'THA.LOC104815724' => 'tha', 'THA.LOC104818480' => 'tha', 'THA.LOC104819179' => 'tha', 'THA.LOC104822270' => 'tha', 'THA.LOC104826425' => 'tha', 'Thecc.02G089700' => 'tca', 'Thecc.04G232300' => 'tca', 'Thecc.09G283400' => 'tca', 'Thhalv10009020m.g' => 'esa', 'Thhalv10015506m.g' => 'esa', 'Thhalv10017364m.g' => 'esa', 'Thhalv10023742m.g' => 'esa', 'Thhalv10026483m.g' => 'esa', 'TPR.G17232' => 'tpr', 'TPR.G2133' => 'tpr', 'TPR.G2498' => 'tpr', 'TPR.G31942' => 'tpr', 'TPR.G37877' => 'tpr', 'TPR.G4571' => 'tpr', 'TWI14G1113' => 'twi', 'TWI15G0426' => 'twi', 'TWI31G1005' => 'twi', 'TWI38G0513' => 'twi', 'TWI38G1484' => 'twi', 'TWI73G1098' => 'twi', 'unitig_26.g10519' => 'ugi', 'unitig_736.g22395' => 'ugi', 'unitig_747.g21234' => 'ugi', 'unitig_747.g21942' => 'ugi', 'vmacro14351' => 'vma', 'VMungo0540G0082' => 'vmu', 'VMungo0540G0405' => 'vmu', 'VMungo0540G1486' => 'vmu', 'VMungo0540G1692' => 'vmu', 'VMungo0720G2473' => 'vmu', 'VMungo1127G1562' => 'vmu', 'VMungo1215G1918' => 'vmu', 'Zm00001eb052650' => 'zma', 'Zm00001eb063710' => 'zma', 'Zm00001eb083950' => 'zma', 'Zm00001eb174420' => 'zma', 'Zm00001eb260140' => 'zma', 'Zm00001eb260150' => 'zma', 'Zm00001eb260160' => 'zma', 'Zm00001eb348290' => 'zma', 'Zm00001eb366870' => 'zma', 'Zm00001eb421930' => 'zma' ), 'gf_id' => 'HOM05D001025', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001025' ), 'data_identifier' => 'HOM05D001025', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001025', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '592', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p22650' => 'bna', 'A01p29720' => 'bna', 'A03p26560' => 'bna', 'A03p68820' => 'bna', 'A04p20980' => 'bna', 'A06p07730' => 'bna', 'A07p18260' => 'bna', 'A08p33710' => 'bna', 'A09p16970' => 'bna', 'A10p27490' => 'bna', 'Aa31LG1G17300' => 'aar', 'Aa31LG1G3910' => 'aar', 'Aa31LG2G9630' => 'aar', 'Aa31LG5G8360' => 'aar', 'Aa31LG9G2410' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4699' => 'aag', 'Actinidia23512' => 'ach', 'Actinidia37080' => 'ach', 'Ah.01g020380' => 'amhyb', 'Ah.08g215710' => 'amhyb', 'Ah.09g225110' => 'amhyb', 'Ah.10g036680' => 'amhyb', 'AL1G21940' => 'aly', 'AL2G15540' => 'aly', 'AL4G21520' => 'aly', 'AL7G40960' => 'aly', 'Aqoxy2G01191' => 'aox', 'Aqoxy2G03393' => 'aox', 'Aqoxy4G02775' => 'aox', 'Aqoxy6G00058' => 'aox', 'arahy.Tifrunner.gnm1.ann1.9X74H2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CW3FX9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R485W7' => 'arhy', 'AT1G10960' => 'ath', 'AT1G60950' => 'ath', 'AT2G27510' => 'ath', 'AT4G14890' => 'ath', 'AT5G10000' => 'ath', 'ATR0665G624' => 'atr', 'ATR0697G138' => 'atr', 'ATR0776G046' => 'atr', 'ATR1134G135' => 'atr', 'Atru.chr12.1025' => 'acertr', 'Atru.chr3.3241' => 'acertr', 'Atru.chr4.2460' => 'acertr', 'AUR62007427' => 'cqu', 'AUR62010960' => 'cqu', 'AUR62012201' => 'cqu', 'AUR62021470' => 'cqu', 'AUR62022834' => 'cqu', 'AUR62033635' => 'cqu', 'AUR62036186' => 'cqu', 'BcaB01g03077' => 'bca', 'BcaB02g10093' => 'bca', 'BcaB04g20295' => 'bca', 'BcaB06g28147' => 'bca', 'BcaB07g31253' => 'bca', 'BcaC01g04946' => 'bca', 'BcaC02g10614' => 'bca', 'BcaC02g10885' => 'bca', 'BcaC04g19356' => 'bca', 'BcaC04g22297' => 'bca', 'BcaC05g24977' => 'bca', 'BcaC06g31823' => 'bca', 'BcaC07g38633' => 'bca', 'BcaC09g49353' => 'bca', 'BcaC09g50168' => 'bca', 'BcaNung00322' => 'bca', 'BcaNung04769' => 'bca', 'BolC1t02753H' => 'bol', 'BolC1t03721H' => 'bol', 'BolC3t15525H' => 'bol', 'BolC4t23903H' => 'bol', 'BolC4t24231H' => 'bol', 'BolC4t27209H' => 'bol', 'BolC5t29671H' => 'bol', 'BolC8t49044H' => 'bol', 'BolC9t54999H' => 'bol', 'BolC9t59517H' => 'bol', 'BraA01t02178Z' => 'bra', 'BraA01t03099Z' => 'bra', 'BraA03t11867Z' => 'bra', 'BraA04t17667Z' => 'bra', 'BraA07t29542Z' => 'bra', 'BraA08t35287Z' => 'bra', 'BraA09t37334Z' => 'bra', 'BraA10t44801Z' => 'bra', 'BraSC39t46181Z' => 'bra', 'C01p28240' => 'bna', 'C01p37530' => 'bna', 'C03p31820' => 'bna', 'C04p24080' => 'bna', 'C04p25790' => 'bna', 'C04p56770' => 'bna', 'C05p09310' => 'bna', 'C09p21010' => 'bna', 'C09p67560' => 'bna', 'CAN.G1324.7' => 'can', 'CAN.G1358.10' => 'can', 'CAN.G1550.2' => 'can', 'CAN.G186.56' => 'can', 'CAN.G1965.1' => 'can', 'CAN.G645.15' => 'can', 'CAN.G798.26' => 'can', 'CAN.G798.27' => 'can', 'CAN.G798.29' => 'can', 'CAN.G919.31' => 'can', 'CANSAT11G0133' => 'cansat', 'CANSAT11G1171' => 'cansat', 'CANSAT11G2056' => 'cansat', 'CANSAT56G1202' => 'cansat', 'CANSAT56G1514' => 'cansat', 'CANSAT78G0455' => 'cansat', 'CARHR011190' => 'chi', 'CARHR051980' => 'chi', 'CARHR120170' => 'chi', 'CARHR203310' => 'chi', 'CARHR221490' => 'chi', 'Carub.0001s1054' => 'cru', 'Carub.0002s0431' => 'cru', 'Carub.0004s0818' => 'cru', 'Carub.0006s0846' => 'cru', 'Carub.0007s2722' => 'cru', 'Ca_00058_v3' => 'car', 'Ca_17831_v3' => 'car', 'Ca_19408_v3' => 'car', 'Ca_24397_v3' => 'car', 'Ca_25664_v3' => 'car', 'CBR_g21818' => 'cbr', 'CBR_g31195' => 'cbr', 'CBR_g32282' => 'cbr', 'CBR_g39599' => 'cbr', 'CBR_g49410' => 'cbr', 'Cc01_g09120' => 'ccan', 'Cc01_g09130' => 'ccan', 'Cc02_g09630' => 'ccan', 'Cc02_g22810' => 'ccan', 'Cc03_g03810' => 'ccan', 'CDE02G3718' => 'cde', 'CDE04G3183' => 'cde', 'CDE07G1046' => 'cde', 'CDE08G0480' => 'cde', 'Cfa005493' => 'cfa', 'Cfa010312' => 'cfa', 'Cfa015648' => 'cfa', 'Ciclev10002793m.g' => 'ccl', 'Ciclev10003356m.g' => 'ccl', 'Ciclev10006141m.g' => 'ccl', 'Ciclev10016676m.g' => 'ccl', 'Ciclev10017081m.g' => 'ccl', 'Ciclev10029499m.g' => 'ccl', 'CiPaw.01G166300' => 'cil', 'CiPaw.06G145600' => 'cil', 'CiPaw.13G040100' => 'cil', 'CiPaw.13G135800' => 'cil', 'ClCG01G012230' => 'cla', 'ClCG05G009510' => 'cla', 'ClCG08G008270' => 'cla', 'COL.COLO4_11763' => 'col', 'COL.COLO4_19876' => 'col', 'COL.COLO4_21481' => 'col', 'Cpa.g.sc118.34' => 'cpa', 'Cpa.g.sc32.13' => 'cpa', 'Cpa.g.sc58.103' => 'cpa', 'Cre03.g183850' => 'cre', 'Cre06.g306350' => 'cre', 'Cre07.g334800' => 'cre', 'Cre12.g487900' => 'cre', 'Cre14.g626700' => 'cre', 'Cre16.g658400' => 'cre', 'Cre17.g700950' => 'cre', 'CsaV3_1G014830' => 'csa', 'CsaV3_3G013320' => 'csa', 'CsaV3_3G019210' => 'csa', 'CsaV3_3G019220' => 'csa', 'CsaV3_6G004230' => 'csa', 'CSS0003773' => 'camsi', 'CSS0004563' => 'camsi', 'CSS0013949' => 'camsi', 'CSS0025971' => 'camsi', 'CSS0028570' => 'camsi', 'CSS0033127' => 'camsi', 'CSS0036051' => 'camsi', 'CSS0040087' => 'camsi', 'CSS0043179' => 'camsi', 'DCAR_006161' => 'dca', 'DCAR_010351' => 'dca', 'DCAR_012197' => 'dca', 'DCAR_024162' => 'dca', 'Dinv01030' => 'din', 'Dinv10924' => 'din', 'Dinv11835' => 'din', 'Dinv22841' => 'din', 'Dinv42553' => 'din', 'Duzib052G0560' => 'dzi', 'Duzib132G0389' => 'dzi', 'Duzib150G1181' => 'dzi', 'Duzib168G0623' => 'dzi', 'Duzib170G1036' => 'dzi', 'Duzib212G0200' => 'dzi', 'Duzib248G0194' => 'dzi', 'ECA232G2193' => 'eca', 'ECA233G0302' => 'eca', 'ECA234G2813' => 'eca', 'ECA234G4866' => 'eca', 'ECA240G3932' => 'eca', 'ECA248G0385' => 'eca', 'EL10Ac2g04781' => 'bvu', 'EL10Ac3g06445' => 'bvu', 'EL10Ac7g15825' => 'bvu', 'EL10Ac8g18550' => 'bvu', 'Eucgr.B03849' => 'egr', 'Eucgr.I02744' => 'egr', 'Eucgr.J00264' => 'egr', 'Eucgr.J00493' => 'egr', 'FAN04G2181' => 'fan', 'FAN07G2666' => 'fan', 'FAN11G0024' => 'fan', 'FAN12G1105' => 'fan', 'FAN13G0302' => 'fan', 'FAN15G2781' => 'fan', 'FAN16G1274' => 'fan', 'FAN17G2988' => 'fan', 'FAN18G2621' => 'fan', 'FAN21G0013' => 'fan', 'FAN22G1211' => 'fan', 'FAN25G3626' => 'fan', 'FvH4_2g09491' => 'fve', 'FvH4_3g24910' => 'fve', 'FvH4_4g15630' => 'fve', 'FvH4_5g28820' => 'fve', 'Glyma.01G238000' => 'gma', 'Glyma.05G168400' => 'gma', 'Glyma.08G126800' => 'gma', 'Glyma.08G188500' => 'gma', 'Glyma.10G278900' => 'gma', 'Glyma.11G005700' => 'gma', 'Glyma.11G183300' => 'gma', 'Glyma.12G089200' => 'gma', 'Glyma.12G169400' => 'gma', 'Glyma.12G169500' => 'gma', 'Glyma.12G169600' => 'gma', 'Glyma.20G110800' => 'gma', 'Gohir.A03G192900' => 'ghi', 'Gohir.A03G193000' => 'ghi', 'Gohir.A05G080700' => 'ghi', 'Gohir.A09G216000' => 'ghi', 'Gohir.A12G027700' => 'ghi', 'Gohir.A13G036200' => 'ghi', 'Gohir.A13G222600' => 'ghi', 'Gohir.D02G213900' => 'ghi', 'Gohir.D02G214000' => 'ghi', 'Gohir.D05G083700' => 'ghi', 'Gohir.D05G083800' => 'ghi', 'Gohir.D05G083850' => 'ghi', 'Gohir.D08G015400' => 'ghi', 'Gohir.D09G218400' => 'ghi', 'Gohir.D12G027100' => 'ghi', 'Gohir.D13G034500' => 'ghi', 'Gohir.D13G227400' => 'ghi', 'Gorai.005G241800' => 'gra', 'Gorai.005G241900' => 'gra', 'Gorai.006G239400' => 'gra', 'Gorai.008G027600' => 'gra', 'Gorai.009G085400' => 'gra', 'Gorai.009G085500' => 'gra', 'Gorai.013G039000' => 'gra', 'Gorai.013G194800' => 'gra', 'Gorai.013G257900' => 'gra', 'GSVIVG01000982001' => 'vvi', 'GSVIVG01017981001' => 'vvi', 'HanXRQChr01g0024061' => 'han', 'HanXRQChr09g0247831' => 'han', 'HanXRQChr10g0294611' => 'han', 'HanXRQChr10g0294621' => 'han', 'HanXRQChr11g0346821' => 'han', 'HanXRQChr13g0397461' => 'han', 'HanXRQChr16g0513651' => 'han', 'HanXRQChr16g0513701' => 'han', 'Haze_00897' => 'cav', 'Haze_01745' => 'cav', 'Haze_02486' => 'cav', 'Haze_02487' => 'cav', 'Haze_23374' => 'cav', 'Hma1.2p1_0578F.1_g182520' => 'hma', 'Hma1.2p1_0602F.1_g187350' => 'hma', 'Hma1.2p1_0602F.1_g187360' => 'hma', 'Hma1.2p1_0874F.1_g231320' => 'hma', 'Hma1.2p1_1197F.1_g266210' => 'hma', 'Hma1.2p1_1197F.1_g266220' => 'hma', 'Hma1.2p1_2167F.1_g315895' => 'hma', 'Hma1.2p1_2190F.1_g316640' => 'hma', 'Hma1.2p1_3645F.1_g337153' => 'hma', 'HPP92_004907' => 'vpl', 'HPP92_012134' => 'vpl', 'HPP92_025136' => 'vpl', 'HPP92_026087' => 'vpl', 'Hund06782' => 'sun', 'Hund06784' => 'sun', 'Lalb_Chr01g0004861' => 'lal', 'Lalb_Chr02g0140591' => 'lal', 'Lalb_Chr02g0140611' => 'lal', 'Lalb_Chr03g0028101' => 'lal', 'Lalb_Chr07g0185791' => 'lal', 'Lalb_Chr12g0204491' => 'lal', 'Lalb_Chr13g0295671' => 'lal', 'Lalb_Chr19g0136461' => 'lal', 'Lalb_Chr21g0309191' => 'lal', 'Lj1g0028158' => 'lja', 'Lj1P236T38' => 'lonja', 'Lj2C32G2' => 'lonja', 'Lj2P944T8' => 'lonja', 'Lj2P963T15' => 'lonja', 'Lj3g0011788' => 'lja', 'Lj4g0025027' => 'lja', 'Lj5P255T36' => 'lonja', 'Lj6g0018866' => 'lja', 'Lj6P608T31' => 'lonja', 'LjContig00408g0008879' => 'lja', 'Lsat_1_v5_gn_5_105820' => 'lsa', 'Lsat_1_v5_gn_6_38800' => 'lsa', 'Lsat_1_v5_gn_7_67141' => 'lsa', 'Manes.04G003400' => 'mes', 'Manes.07G020000' => 'mes', 'Manes.07G020100' => 'mes', 'Manes.07G020150' => 'mes', 'Manes.10G061500' => 'mes', 'Manes.10G123200' => 'mes', 'Manes.11G161900' => 'mes', 'Manes.15G029300' => 'mes', 'Mapoly0071s0018' => 'mpo', 'Mapoly0082s0023' => 'mpo', 'Mapoly3477s0001' => 'mpo', 'MBI05_g31233_MAGBIO' => 'mbi', 'MBI09_g05946_MAGBIO' => 'mbi', 'MBI09_g05947_MAGBIO' => 'mbi', 'MBI17_g08346_MAGBIO' => 'mbi', 'MCO04G038' => 'mco', 'MCO09G370' => 'mco', 'MCO13G605' => 'mco', 'MD00G1075500' => 'mdo', 'MD03G1144300' => 'mdo', 'MD08G1236800' => 'mdo', 'MD13G1193300' => 'mdo', 'MD15G1428700' => 'mdo', 'Medtr1g112030' => 'mtr', 'Medtr1g112050' => 'mtr', 'Medtr2g006290' => 'mtr', 'Medtr2g086510' => 'mtr', 'Medtr4g053120' => 'mtr', 'Medtr5g006320' => 'mtr', 'Medtr8g088720' => 'mtr', 'MELO3C004712.2' => 'cme', 'MELO3C006533.2' => 'cme', 'MELO3C019438.2' => 'cme', 'MELO3C019440.2' => 'cme', 'MELO3C019441.2' => 'cme', 'MELO3C019895.2' => 'cme', 'Migut.B00811' => 'egut', 'Migut.D02447' => 'egut', 'Migut.F00875' => 'egut', 'Migut.N00186' => 'egut', 'Migut.N01051' => 'egut', 'Migut.N02491' => 'egut', 'Migut.O00784' => 'egut', 'MSTRG.12367' => 'ama', 'MSTRG.18756' => 'ama', 'MSTRG.21042' => 'ama', 'Nitab4.5_0000559g0040' => 'nta', 'Nitab4.5_0000667g0190' => 'nta', 'Nitab4.5_0000755g0160' => 'nta', 'Nitab4.5_0001216g0080' => 'nta', 'Nitab4.5_0004069g0040' => 'nta', 'Nitab4.5_0004129g0010' => 'nta', 'Nitab4.5_0005744g0030' => 'nta', 'Nitab4.5_0006996g0030' => 'nta', 'Nitab4.5_0008971g0040' => 'nta', 'Nitab4.5_0009769g0020' => 'nta', 'Nitab4.5_0009833g0010' => 'nta', 'Nitab4.5_0013140g0020' => 'nta', 'Nn003s41376' => 'nnu', 'Nn1g01857' => 'nnu', 'Nn1g03611' => 'nnu', 'Nn1g06853' => 'nnu', 'Nn3g18360' => 'nnu', 'Nn4g26328' => 'nnu', 'Nn5g27531' => 'nnu', 'Nn6g34899' => 'nnu', 'Nn7g36299' => 'nnu', 'Oeu021485.1' => 'oeu', 'Oeu022433.1' => 'oeu', 'Oeu032111.1' => 'oeu', 'Oeu051608.1' => 'oeu', 'Os01g0860601' => 'osa', 'Os03g0659200' => 'osa', 'Os03g0835900' => 'osa', 'Os04g0412200' => 'osa', 'Os05g0443500' => 'osa', 'Os07g0251500' => 'osa', 'Os08g0104600' => 'osa', 'Peaxi162Scf00003g00047' => 'pax', 'Peaxi162Scf00003g00052' => 'pax', 'Peaxi162Scf00003g00394' => 'pax', 'Peaxi162Scf00091g00621' => 'pax', 'Peaxi162Scf00152g00146' => 'pax', 'Peaxi162Scf00173g00025' => 'pax', 'Peaxi162Scf00195g00102' => 'pax', 'Peaxi162Scf00402g00013' => 'pax', 'Peaxi162Scf00519g00618' => 'pax', 'PGR004G2838' => 'pgr', 'PGR044G2275' => 'pgr', 'PGR102G1377' => 'pgr', 'PGR119G1245' => 'pgr', 'PGR142G4449' => 'pgr', 'PGSC0003DMG400004532' => 'stu', 'PGSC0003DMG400011950' => 'stu', 'PGSC0003DMG400023391' => 'stu', 'PGSC0003DMG400023985' => 'stu', 'PGSC0003DMG400026360' => 'stu', 'PGSC0003DMG400035711' => 'stu', 'PGSC0003DMG400037286' => 'stu', 'PGSC0003DMG402005881' => 'stu', 'Phvul.002G045400' => 'pvu', 'Phvul.006G216600' => 'pvu', 'Phvul.006G216700' => 'pvu', 'Phvul.006G216800' => 'pvu', 'Phvul.007G022500' => 'pvu', 'Phvul.011G094400' => 'pvu', 'Potri.001G470700' => 'ptr', 'Potri.003G015200' => 'ptr', 'Potri.004G202500' => 'ptr', 'Potri.004G218400' => 'ptr', 'Potri.008G020100' => 'ptr', 'Potri.008G153200' => 'ptr', 'Potri.009G163800' => 'ptr', 'Potri.010G087300' => 'ptr', 'Potri.010G239100' => 'ptr', 'Pp3c10_16100' => 'ppa', 'Pp3c10_16880' => 'ppa', 'Pp3c16_6230' => 'ppa', 'Pp3c17_18910' => 'ppa', 'Pp3c3_22119' => 'ppa', 'Pp3c3_22140' => 'ppa', 'Pp3c4_8159' => 'ppa', 'Pp3c4_8171' => 'ppa', 'Pp3c4_8330' => 'ppa', 'PRCOL_00004098' => 'pco', 'Prupe.1G013900' => 'ppe', 'Prupe.1G226300' => 'ppe', 'Prupe.1G573600' => 'ppe', 'Prupe.6G130100' => 'ppe', 'Psat3g090040' => 'psa', 'Psat4g210440' => 'psa', 'Psat6g231040' => 'psa', 'Psat6g231080' => 'psa', 'Psat7g063000' => 'psa', 'Psat7g188000' => 'psa', 'Psat7g188040' => 'psa', 'PSO017G0206' => 'pso', 'PSO170G0501' => 'pso', 'PSO170G6422' => 'pso', 'PSO210G7739' => 'pso', 'PSO339G1808' => 'pso', 'PSO339G6135' => 'pso', 'PSO384G0010' => 'pso', 'PSO384G0964' => 'pso', 'PSO761G0050' => 'pso', 'PSO782G4085' => 'pso', 'QL01p012264' => 'qlo', 'QL02p099491' => 'qlo', 'QL03p033868' => 'qlo', 'QL04p046678' => 'qlo', 'QL06p002448' => 'qlo', 'RcHm_v2.0_Chr4g0416181' => 'rch', 'RcHm_v2.0_Chr5g0044701' => 'rch', 'RcHm_v2.0_Chr6g0265781' => 'rch', 'RcHm_v2.0_Chr7g0221031' => 'rch', 'Rhsim04G0202000' => 'rsi', 'Rhsim11G0127300' => 'rsi', 'Rhsim13G0111800' => 'rsi', 'Sabra01G0165600' => 'sbr', 'Sabra03G0008300' => 'sbr', 'Sabra04G0136900' => 'sbr', 'Sabra08G0013400' => 'sbr', 'Sabra08G0116800' => 'sbr', 'Sabra09G0128000' => 'sbr', 'Sabra10G0055500' => 'sbr', 'Sabra10G0073300' => 'sbr', 'SalBow3G0385' => 'sbo', 'SalBow3G1119' => 'sbo', 'SalBow3G2005' => 'sbo', 'SalBow6G2563' => 'sbo', 'SalBow6G6386' => 'sbo', 'Sc06g0008800' => 'sci', 'Sc07g0004950' => 'sci', 'Sc09g0005340' => 'sci', 'Sc13g0004410' => 'sci', 'Sc21g0007090' => 'sci', 'Sed0009285' => 'sed', 'Sed0017583' => 'sed', 'Sed0019699' => 'sed', 'Sed0023107' => 'sed', 'SEGI_10916' => 'sgi', 'SEGI_16217' => 'sgi', 'SEGI_19466' => 'sgi', 'SEGI_41115' => 'sgi', 'SGA_v2.0_scaffold111G31534' => 'sas', 'SGA_v2.0_scaffold22G09864' => 'sas', 'SGA_v2.0_scaffold338G49219' => 'sas', 'SGA_v2.0_scaffold92G28298' => 'sas', 'SMO119G0064' => 'smo', 'SMO223G0038' => 'smo', 'SMO347G0584' => 'smo', 'SMO351G0010' => 'smo', 'SMO356G0404' => 'smo', 'Solyc01g103920.3' => 'sly', 'Solyc04g009710.2' => 'sly', 'Solyc05g055280.2' => 'sly', 'Solyc10g044520.3' => 'sly', 'Solyc10g075160.1' => 'sly', 'Solyc11g006910.3' => 'sly', 'Solyc11g068430.3' => 'sly', 'Sopen01g046310' => 'spe', 'Sopen03g001200' => 'spe', 'Sopen04g004830' => 'spe', 'Sopen05g033720' => 'spe', 'Sopen06g030740' => 'spe', 'Sopen10g013090' => 'spe', 'Sopen10g027630' => 'spe', 'Sopen10g027640' => 'spe', 'Sopen11g002820' => 'spe', 'Sopen11g027140' => 'spe', 'Sp1g09680' => 'spa', 'Sp2g03630' => 'spa', 'Sp4g10320' => 'spa', 'Sp6g33400' => 'spa', 'Sp7g13030' => 'spa', 'TAR365G0317' => 'tar', 'TAR376G0979' => 'tar', 'TAR623G1665' => 'tar', 'TAR633G2373' => 'tar', 'TAR636G1400' => 'tar', 'THA.LOC104800529' => 'tha', 'THA.LOC104808547' => 'tha', 'THA.LOC104809615' => 'tha', 'THA.LOC104815724' => 'tha', 'THA.LOC104818480' => 'tha', 'THA.LOC104819179' => 'tha', 'THA.LOC104822270' => 'tha', 'THA.LOC104826425' => 'tha', 'Thecc.02G089700' => 'tca', 'Thecc.04G232300' => 'tca', 'Thecc.09G283400' => 'tca', 'Thhalv10009020m.g' => 'esa', 'Thhalv10015506m.g' => 'esa', 'Thhalv10017364m.g' => 'esa', 'Thhalv10023742m.g' => 'esa', 'Thhalv10026483m.g' => 'esa', 'TPR.G17232' => 'tpr', 'TPR.G2133' => 'tpr', 'TPR.G2498' => 'tpr', 'TPR.G31942' => 'tpr', 'TPR.G37877' => 'tpr', 'TPR.G4571' => 'tpr', 'TWI14G1113' => 'twi', 'TWI15G0426' => 'twi', 'TWI31G1005' => 'twi', 'TWI38G0513' => 'twi', 'TWI38G1484' => 'twi', 'TWI73G1098' => 'twi', 'unitig_26.g10519' => 'ugi', 'unitig_736.g22395' => 'ugi', 'unitig_747.g21234' => 'ugi', 'unitig_747.g21942' => 'ugi', 'vmacro14351' => 'vma', 'VMungo0540G0082' => 'vmu', 'VMungo0540G0405' => 'vmu', 'VMungo0540G1486' => 'vmu', 'VMungo0540G1692' => 'vmu', 'VMungo0720G2473' => 'vmu', 'VMungo1127G1562' => 'vmu', 'VMungo1215G1918' => 'vmu', 'Zm00001eb052650' => 'zma', 'Zm00001eb063710' => 'zma', 'Zm00001eb083950' => 'zma', 'Zm00001eb174420' => 'zma', 'Zm00001eb260140' => 'zma', 'Zm00001eb260150' => 'zma', 'Zm00001eb260160' => 'zma', 'Zm00001eb348290' => 'zma', 'Zm00001eb366870' => 'zma', 'Zm00001eb421930' => 'zma' ) $gf_id = 'HOM05D001025' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001025' ) $data_identifier = 'HOM05D001025' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 19, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 2, 'amhyb' => (int) 4, 'aly' => (int) 4, 'aox' => (int) 4, 'arhy' => (int) 3, 'ath' => (int) 5, 'atr' => (int) 4, 'acertr' => (int) 3, 'cqu' => (int) 7, 'bca' => (int) 17, 'bol' => (int) 10, 'bra' => (int) 9, 'can' => (int) 10, 'cansat' => (int) 6, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 5, 'cbr' => (int) 5, 'ccan' => (int) 5, 'cde' => (int) 4, 'cfa' => (int) 3, 'ccl' => (int) 6, 'cil' => (int) 4, 'cla' => (int) 3, 'col' => (int) 3, 'cpa' => (int) 3, 'cre' => (int) 7, 'csa' => (int) 5, 'camsi' => (int) 9, 'dca' => (int) 4, 'din' => (int) 5, 'dzi' => (int) 7, 'eca' => (int) 6, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 12, 'fve' => (int) 4, 'gma' => (int) 12, 'ghi' => (int) 17, 'gra' => (int) 9, 'vvi' => (int) 2, 'han' => (int) 8, 'cav' => (int) 5, 'hma' => (int) 9, 'vpl' => (int) 4, 'sun' => (int) 2, 'lal' => (int) 9, 'lja' => (int) 5, 'lonja' => (int) 6, 'lsa' => (int) 3, 'mes' => (int) 8, 'mpo' => (int) 3, 'mbi' => (int) 4, 'mco' => (int) 3, 'mdo' => (int) 5, 'mtr' => (int) 7, 'cme' => (int) 6, 'egut' => (int) 7, 'ama' => (int) 3, 'nta' => (int) 12, 'nnu' => (int) 9, 'oeu' => (int) 4, 'osa' => (int) 7, 'pax' => (int) 9, 'pgr' => (int) 5, 'stu' => (int) 8, 'pvu' => (int) 6, 'ptr' => (int) 9, 'ppa' => (int) 9, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 7, 'pso' => (int) 10, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 3, 'sbr' => (int) 8, 'sbo' => (int) 5, 'sci' => (int) 5, 'sed' => (int) 4, 'sgi' => (int) 4, 'sas' => (int) 4, 'smo' => (int) 5, 'sly' => (int) 7, 'spe' => (int) 10, 'spa' => (int) 5, 'tar' => (int) 5, 'tha' => (int) 8, 'tca' => (int) 3, 'esa' => (int) 5, 'tpr' => (int) 6, 'twi' => (int) 6, 'ugi' => (int) 4, 'vma' => (int) 1, 'vmu' => (int) 7, 'zma' => (int) 10 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb421930' $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' => 'HOM05D001025', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '592', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p22650' => 'bna', 'A01p29720' => 'bna', 'A03p26560' => 'bna', 'A03p68820' => 'bna', 'A04p20980' => 'bna', 'A06p07730' => 'bna', 'A07p18260' => 'bna', 'A08p33710' => 'bna', 'A09p16970' => 'bna', 'A10p27490' => 'bna', 'Aa31LG1G17300' => 'aar', 'Aa31LG1G3910' => 'aar', 'Aa31LG2G9630' => 'aar', 'Aa31LG5G8360' => 'aar', 'Aa31LG9G2410' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4699' => 'aag', 'Actinidia23512' => 'ach', 'Actinidia37080' => 'ach', 'Ah.01g020380' => 'amhyb', 'Ah.08g215710' => 'amhyb', 'Ah.09g225110' => 'amhyb', 'Ah.10g036680' => 'amhyb', 'AL1G21940' => 'aly', 'AL2G15540' => 'aly', 'AL4G21520' => 'aly', 'AL7G40960' => 'aly', 'Aqoxy2G01191' => 'aox', 'Aqoxy2G03393' => 'aox', 'Aqoxy4G02775' => 'aox', 'Aqoxy6G00058' => 'aox', 'arahy.Tifrunner.gnm1.ann1.9X74H2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CW3FX9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R485W7' => 'arhy', 'AT1G10960' => 'ath', 'AT1G60950' => 'ath', 'AT2G27510' => 'ath', 'AT4G14890' => 'ath', 'AT5G10000' => 'ath', 'ATR0665G624' => 'atr', 'ATR0697G138' => 'atr', 'ATR0776G046' => 'atr', 'ATR1134G135' => 'atr', 'Atru.chr12.1025' => 'acertr', 'Atru.chr3.3241' => 'acertr', 'Atru.chr4.2460' => 'acertr', 'AUR62007427' => 'cqu', 'AUR62010960' => 'cqu', 'AUR62012201' => 'cqu', 'AUR62021470' => 'cqu', 'AUR62022834' => 'cqu', 'AUR62033635' => 'cqu', 'AUR62036186' => 'cqu', 'BcaB01g03077' => 'bca', 'BcaB02g10093' => 'bca', 'BcaB04g20295' => 'bca', 'BcaB06g28147' => 'bca', 'BcaB07g31253' => 'bca', 'BcaC01g04946' => 'bca', 'BcaC02g10614' => 'bca', 'BcaC02g10885' => 'bca', 'BcaC04g19356' => 'bca', 'BcaC04g22297' => 'bca', 'BcaC05g24977' => 'bca', 'BcaC06g31823' => 'bca', 'BcaC07g38633' => 'bca', 'BcaC09g49353' => 'bca', 'BcaC09g50168' => 'bca', 'BcaNung00322' => 'bca', 'BcaNung04769' => 'bca', 'BolC1t02753H' => 'bol', 'BolC1t03721H' => 'bol', 'BolC3t15525H' => 'bol', 'BolC4t23903H' => 'bol', 'BolC4t24231H' => 'bol', 'BolC4t27209H' => 'bol', 'BolC5t29671H' => 'bol', 'BolC8t49044H' => 'bol', 'BolC9t54999H' => 'bol', 'BolC9t59517H' => 'bol', 'BraA01t02178Z' => 'bra', 'BraA01t03099Z' => 'bra', 'BraA03t11867Z' => 'bra', 'BraA04t17667Z' => 'bra', 'BraA07t29542Z' => 'bra', 'BraA08t35287Z' => 'bra', 'BraA09t37334Z' => 'bra', 'BraA10t44801Z' => 'bra', 'BraSC39t46181Z' => 'bra', 'C01p28240' => 'bna', 'C01p37530' => 'bna', 'C03p31820' => 'bna', 'C04p24080' => 'bna', 'C04p25790' => 'bna', 'C04p56770' => 'bna', 'C05p09310' => 'bna', 'C09p21010' => 'bna', 'C09p67560' => 'bna', 'CAN.G1324.7' => 'can', 'CAN.G1358.10' => 'can', 'CAN.G1550.2' => 'can', 'CAN.G186.56' => 'can', 'CAN.G1965.1' => 'can', 'CAN.G645.15' => 'can', 'CAN.G798.26' => 'can', 'CAN.G798.27' => 'can', 'CAN.G798.29' => 'can', 'CAN.G919.31' => 'can', 'CANSAT11G0133' => 'cansat', 'CANSAT11G1171' => 'cansat', 'CANSAT11G2056' => 'cansat', 'CANSAT56G1202' => 'cansat', 'CANSAT56G1514' => 'cansat', 'CANSAT78G0455' => 'cansat', 'CARHR011190' => 'chi', 'CARHR051980' => 'chi', 'CARHR120170' => 'chi', 'CARHR203310' => 'chi', 'CARHR221490' => 'chi', 'Carub.0001s1054' => 'cru', 'Carub.0002s0431' => 'cru', 'Carub.0004s0818' => 'cru', 'Carub.0006s0846' => 'cru', 'Carub.0007s2722' => 'cru', 'Ca_00058_v3' => 'car', 'Ca_17831_v3' => 'car', 'Ca_19408_v3' => 'car', 'Ca_24397_v3' => 'car', 'Ca_25664_v3' => 'car', 'CBR_g21818' => 'cbr', 'CBR_g31195' => 'cbr', 'CBR_g32282' => 'cbr', 'CBR_g39599' => 'cbr', 'CBR_g49410' => 'cbr', 'Cc01_g09120' => 'ccan', 'Cc01_g09130' => 'ccan', 'Cc02_g09630' => 'ccan', 'Cc02_g22810' => 'ccan', 'Cc03_g03810' => 'ccan', 'CDE02G3718' => 'cde', 'CDE04G3183' => 'cde', 'CDE07G1046' => 'cde', 'CDE08G0480' => 'cde', 'Cfa005493' => 'cfa', 'Cfa010312' => 'cfa', 'Cfa015648' => 'cfa', 'Ciclev10002793m.g' => 'ccl', 'Ciclev10003356m.g' => 'ccl', 'Ciclev10006141m.g' => 'ccl', 'Ciclev10016676m.g' => 'ccl', 'Ciclev10017081m.g' => 'ccl', 'Ciclev10029499m.g' => 'ccl', 'CiPaw.01G166300' => 'cil', 'CiPaw.06G145600' => 'cil', 'CiPaw.13G040100' => 'cil', 'CiPaw.13G135800' => 'cil', 'ClCG01G012230' => 'cla', 'ClCG05G009510' => 'cla', 'ClCG08G008270' => 'cla', 'COL.COLO4_11763' => 'col', 'COL.COLO4_19876' => 'col', 'COL.COLO4_21481' => 'col', 'Cpa.g.sc118.34' => 'cpa', 'Cpa.g.sc32.13' => 'cpa', 'Cpa.g.sc58.103' => 'cpa', 'Cre03.g183850' => 'cre', 'Cre06.g306350' => 'cre', 'Cre07.g334800' => 'cre', 'Cre12.g487900' => 'cre', 'Cre14.g626700' => 'cre', 'Cre16.g658400' => 'cre', 'Cre17.g700950' => 'cre', 'CsaV3_1G014830' => 'csa', 'CsaV3_3G013320' => 'csa', 'CsaV3_3G019210' => 'csa', 'CsaV3_3G019220' => 'csa', 'CsaV3_6G004230' => 'csa', 'CSS0003773' => 'camsi', 'CSS0004563' => 'camsi', 'CSS0013949' => 'camsi', 'CSS0025971' => 'camsi', 'CSS0028570' => 'camsi', 'CSS0033127' => 'camsi', 'CSS0036051' => 'camsi', 'CSS0040087' => 'camsi', 'CSS0043179' => 'camsi', 'DCAR_006161' => 'dca', 'DCAR_010351' => 'dca', 'DCAR_012197' => 'dca', 'DCAR_024162' => 'dca', 'Dinv01030' => 'din', 'Dinv10924' => 'din', 'Dinv11835' => 'din', 'Dinv22841' => 'din', 'Dinv42553' => 'din', 'Duzib052G0560' => 'dzi', 'Duzib132G0389' => 'dzi', 'Duzib150G1181' => 'dzi', 'Duzib168G0623' => 'dzi', 'Duzib170G1036' => 'dzi', 'Duzib212G0200' => 'dzi', 'Duzib248G0194' => 'dzi', 'ECA232G2193' => 'eca', 'ECA233G0302' => 'eca', 'ECA234G2813' => 'eca', 'ECA234G4866' => 'eca', 'ECA240G3932' => 'eca', 'ECA248G0385' => 'eca', 'EL10Ac2g04781' => 'bvu', 'EL10Ac3g06445' => 'bvu', 'EL10Ac7g15825' => 'bvu', 'EL10Ac8g18550' => 'bvu', 'Eucgr.B03849' => 'egr', 'Eucgr.I02744' => 'egr', 'Eucgr.J00264' => 'egr', 'Eucgr.J00493' => 'egr', 'FAN04G2181' => 'fan', 'FAN07G2666' => 'fan', 'FAN11G0024' => 'fan', 'FAN12G1105' => 'fan', 'FAN13G0302' => 'fan', 'FAN15G2781' => 'fan', 'FAN16G1274' => 'fan', 'FAN17G2988' => 'fan', 'FAN18G2621' => 'fan', 'FAN21G0013' => 'fan', 'FAN22G1211' => 'fan', 'FAN25G3626' => 'fan', 'FvH4_2g09491' => 'fve', 'FvH4_3g24910' => 'fve', 'FvH4_4g15630' => 'fve', 'FvH4_5g28820' => 'fve', 'Glyma.01G238000' => 'gma', 'Glyma.05G168400' => 'gma', 'Glyma.08G126800' => 'gma', 'Glyma.08G188500' => 'gma', 'Glyma.10G278900' => 'gma', 'Glyma.11G005700' => 'gma', 'Glyma.11G183300' => 'gma', 'Glyma.12G089200' => 'gma', 'Glyma.12G169400' => 'gma', 'Glyma.12G169500' => 'gma', 'Glyma.12G169600' => 'gma', 'Glyma.20G110800' => 'gma', 'Gohir.A03G192900' => 'ghi', 'Gohir.A03G193000' => 'ghi', 'Gohir.A05G080700' => 'ghi', 'Gohir.A09G216000' => 'ghi', 'Gohir.A12G027700' => 'ghi', 'Gohir.A13G036200' => 'ghi', 'Gohir.A13G222600' => 'ghi', 'Gohir.D02G213900' => 'ghi', 'Gohir.D02G214000' => 'ghi', 'Gohir.D05G083700' => 'ghi', 'Gohir.D05G083800' => 'ghi', 'Gohir.D05G083850' => 'ghi', 'Gohir.D08G015400' => 'ghi', 'Gohir.D09G218400' => 'ghi', 'Gohir.D12G027100' => 'ghi', 'Gohir.D13G034500' => 'ghi', 'Gohir.D13G227400' => 'ghi', 'Gorai.005G241800' => 'gra', 'Gorai.005G241900' => 'gra', 'Gorai.006G239400' => 'gra', 'Gorai.008G027600' => 'gra', 'Gorai.009G085400' => 'gra', 'Gorai.009G085500' => 'gra', 'Gorai.013G039000' => 'gra', 'Gorai.013G194800' => 'gra', 'Gorai.013G257900' => 'gra', 'GSVIVG01000982001' => 'vvi', 'GSVIVG01017981001' => 'vvi', 'HanXRQChr01g0024061' => 'han', 'HanXRQChr09g0247831' => 'han', 'HanXRQChr10g0294611' => 'han', 'HanXRQChr10g0294621' => 'han', 'HanXRQChr11g0346821' => 'han', 'HanXRQChr13g0397461' => 'han', 'HanXRQChr16g0513651' => 'han', 'HanXRQChr16g0513701' => 'han', 'Haze_00897' => 'cav', 'Haze_01745' => 'cav', 'Haze_02486' => 'cav', 'Haze_02487' => 'cav', 'Haze_23374' => 'cav', 'Hma1.2p1_0578F.1_g182520' => 'hma', 'Hma1.2p1_0602F.1_g187350' => 'hma', 'Hma1.2p1_0602F.1_g187360' => 'hma', 'Hma1.2p1_0874F.1_g231320' => 'hma', 'Hma1.2p1_1197F.1_g266210' => 'hma', 'Hma1.2p1_1197F.1_g266220' => 'hma', 'Hma1.2p1_2167F.1_g315895' => 'hma', 'Hma1.2p1_2190F.1_g316640' => 'hma', 'Hma1.2p1_3645F.1_g337153' => 'hma', 'HPP92_004907' => 'vpl', 'HPP92_012134' => 'vpl', 'HPP92_025136' => 'vpl', 'HPP92_026087' => 'vpl', 'Hund06782' => 'sun', 'Hund06784' => 'sun', 'Lalb_Chr01g0004861' => 'lal', 'Lalb_Chr02g0140591' => 'lal', 'Lalb_Chr02g0140611' => 'lal', 'Lalb_Chr03g0028101' => 'lal', 'Lalb_Chr07g0185791' => 'lal', 'Lalb_Chr12g0204491' => 'lal', 'Lalb_Chr13g0295671' => 'lal', 'Lalb_Chr19g0136461' => 'lal', 'Lalb_Chr21g0309191' => 'lal', 'Lj1g0028158' => 'lja', 'Lj1P236T38' => 'lonja', 'Lj2C32G2' => 'lonja', 'Lj2P944T8' => 'lonja', 'Lj2P963T15' => 'lonja', 'Lj3g0011788' => 'lja', 'Lj4g0025027' => 'lja', 'Lj5P255T36' => 'lonja', 'Lj6g0018866' => 'lja', 'Lj6P608T31' => 'lonja', 'LjContig00408g0008879' => 'lja', 'Lsat_1_v5_gn_5_105820' => 'lsa', 'Lsat_1_v5_gn_6_38800' => 'lsa', 'Lsat_1_v5_gn_7_67141' => 'lsa', 'Manes.04G003400' => 'mes', 'Manes.07G020000' => 'mes', 'Manes.07G020100' => 'mes', 'Manes.07G020150' => 'mes', 'Manes.10G061500' => 'mes', 'Manes.10G123200' => 'mes', 'Manes.11G161900' => 'mes', 'Manes.15G029300' => 'mes', 'Mapoly0071s0018' => 'mpo', 'Mapoly0082s0023' => 'mpo', 'Mapoly3477s0001' => 'mpo', 'MBI05_g31233_MAGBIO' => 'mbi', 'MBI09_g05946_MAGBIO' => 'mbi', 'MBI09_g05947_MAGBIO' => 'mbi', 'MBI17_g08346_MAGBIO' => 'mbi', 'MCO04G038' => 'mco', 'MCO09G370' => 'mco', 'MCO13G605' => 'mco', 'MD00G1075500' => 'mdo', 'MD03G1144300' => 'mdo', 'MD08G1236800' => 'mdo', 'MD13G1193300' => 'mdo', 'MD15G1428700' => 'mdo', 'Medtr1g112030' => 'mtr', 'Medtr1g112050' => 'mtr', 'Medtr2g006290' => 'mtr', 'Medtr2g086510' => 'mtr', 'Medtr4g053120' => 'mtr', 'Medtr5g006320' => 'mtr', 'Medtr8g088720' => 'mtr', 'MELO3C004712.2' => 'cme', 'MELO3C006533.2' => 'cme', 'MELO3C019438.2' => 'cme', 'MELO3C019440.2' => 'cme', 'MELO3C019441.2' => 'cme', 'MELO3C019895.2' => 'cme', 'Migut.B00811' => 'egut', 'Migut.D02447' => 'egut', 'Migut.F00875' => 'egut', 'Migut.N00186' => 'egut', 'Migut.N01051' => 'egut', 'Migut.N02491' => 'egut', 'Migut.O00784' => 'egut', 'MSTRG.12367' => 'ama', 'MSTRG.18756' => 'ama', 'MSTRG.21042' => 'ama', 'Nitab4.5_0000559g0040' => 'nta', 'Nitab4.5_0000667g0190' => 'nta', 'Nitab4.5_0000755g0160' => 'nta', 'Nitab4.5_0001216g0080' => 'nta', 'Nitab4.5_0004069g0040' => 'nta', 'Nitab4.5_0004129g0010' => 'nta', 'Nitab4.5_0005744g0030' => 'nta', 'Nitab4.5_0006996g0030' => 'nta', 'Nitab4.5_0008971g0040' => 'nta', 'Nitab4.5_0009769g0020' => 'nta', 'Nitab4.5_0009833g0010' => 'nta', 'Nitab4.5_0013140g0020' => 'nta', 'Nn003s41376' => 'nnu', 'Nn1g01857' => 'nnu', 'Nn1g03611' => 'nnu', 'Nn1g06853' => 'nnu', 'Nn3g18360' => 'nnu', 'Nn4g26328' => 'nnu', 'Nn5g27531' => 'nnu', 'Nn6g34899' => 'nnu', 'Nn7g36299' => 'nnu', 'Oeu021485.1' => 'oeu', 'Oeu022433.1' => 'oeu', 'Oeu032111.1' => 'oeu', 'Oeu051608.1' => 'oeu', 'Os01g0860601' => 'osa', 'Os03g0659200' => 'osa', 'Os03g0835900' => 'osa', 'Os04g0412200' => 'osa', 'Os05g0443500' => 'osa', 'Os07g0251500' => 'osa', 'Os08g0104600' => 'osa', 'Peaxi162Scf00003g00047' => 'pax', 'Peaxi162Scf00003g00052' => 'pax', 'Peaxi162Scf00003g00394' => 'pax', 'Peaxi162Scf00091g00621' => 'pax', 'Peaxi162Scf00152g00146' => 'pax', 'Peaxi162Scf00173g00025' => 'pax', 'Peaxi162Scf00195g00102' => 'pax', 'Peaxi162Scf00402g00013' => 'pax', 'Peaxi162Scf00519g00618' => 'pax', 'PGR004G2838' => 'pgr', 'PGR044G2275' => 'pgr', 'PGR102G1377' => 'pgr', 'PGR119G1245' => 'pgr', 'PGR142G4449' => 'pgr', 'PGSC0003DMG400004532' => 'stu', 'PGSC0003DMG400011950' => 'stu', 'PGSC0003DMG400023391' => 'stu', 'PGSC0003DMG400023985' => 'stu', 'PGSC0003DMG400026360' => 'stu', 'PGSC0003DMG400035711' => 'stu', 'PGSC0003DMG400037286' => 'stu', 'PGSC0003DMG402005881' => 'stu', 'Phvul.002G045400' => 'pvu', 'Phvul.006G216600' => 'pvu', 'Phvul.006G216700' => 'pvu', 'Phvul.006G216800' => 'pvu', 'Phvul.007G022500' => 'pvu', 'Phvul.011G094400' => 'pvu', 'Potri.001G470700' => 'ptr', 'Potri.003G015200' => 'ptr', 'Potri.004G202500' => 'ptr', 'Potri.004G218400' => 'ptr', 'Potri.008G020100' => 'ptr', 'Potri.008G153200' => 'ptr', 'Potri.009G163800' => 'ptr', 'Potri.010G087300' => 'ptr', 'Potri.010G239100' => 'ptr', 'Pp3c10_16100' => 'ppa', 'Pp3c10_16880' => 'ppa', 'Pp3c16_6230' => 'ppa', 'Pp3c17_18910' => 'ppa', 'Pp3c3_22119' => 'ppa', 'Pp3c3_22140' => 'ppa', 'Pp3c4_8159' => 'ppa', 'Pp3c4_8171' => 'ppa', 'Pp3c4_8330' => 'ppa', 'PRCOL_00004098' => 'pco', 'Prupe.1G013900' => 'ppe', 'Prupe.1G226300' => 'ppe', 'Prupe.1G573600' => 'ppe', 'Prupe.6G130100' => 'ppe', 'Psat3g090040' => 'psa', 'Psat4g210440' => 'psa', 'Psat6g231040' => 'psa', 'Psat6g231080' => 'psa', 'Psat7g063000' => 'psa', 'Psat7g188000' => 'psa', 'Psat7g188040' => 'psa', 'PSO017G0206' => 'pso', 'PSO170G0501' => 'pso', 'PSO170G6422' => 'pso', 'PSO210G7739' => 'pso', 'PSO339G1808' => 'pso', 'PSO339G6135' => 'pso', 'PSO384G0010' => 'pso', 'PSO384G0964' => 'pso', 'PSO761G0050' => 'pso', 'PSO782G4085' => 'pso', 'QL01p012264' => 'qlo', 'QL02p099491' => 'qlo', 'QL03p033868' => 'qlo', 'QL04p046678' => 'qlo', 'QL06p002448' => 'qlo', 'RcHm_v2.0_Chr4g0416181' => 'rch', 'RcHm_v2.0_Chr5g0044701' => 'rch', 'RcHm_v2.0_Chr6g0265781' => 'rch', 'RcHm_v2.0_Chr7g0221031' => 'rch', 'Rhsim04G0202000' => 'rsi', 'Rhsim11G0127300' => 'rsi', 'Rhsim13G0111800' => 'rsi', 'Sabra01G0165600' => 'sbr', 'Sabra03G0008300' => 'sbr', 'Sabra04G0136900' => 'sbr', 'Sabra08G0013400' => 'sbr', 'Sabra08G0116800' => 'sbr', 'Sabra09G0128000' => 'sbr', 'Sabra10G0055500' => 'sbr', 'Sabra10G0073300' => 'sbr', 'SalBow3G0385' => 'sbo', 'SalBow3G1119' => 'sbo', 'SalBow3G2005' => 'sbo', 'SalBow6G2563' => 'sbo', 'SalBow6G6386' => 'sbo', 'Sc06g0008800' => 'sci', 'Sc07g0004950' => 'sci', 'Sc09g0005340' => 'sci', 'Sc13g0004410' => 'sci', 'Sc21g0007090' => 'sci', 'Sed0009285' => 'sed', 'Sed0017583' => 'sed', 'Sed0019699' => 'sed', 'Sed0023107' => 'sed', 'SEGI_10916' => 'sgi', 'SEGI_16217' => 'sgi', 'SEGI_19466' => 'sgi', 'SEGI_41115' => 'sgi', 'SGA_v2.0_scaffold111G31534' => 'sas', 'SGA_v2.0_scaffold22G09864' => 'sas', 'SGA_v2.0_scaffold338G49219' => 'sas', 'SGA_v2.0_scaffold92G28298' => 'sas', 'SMO119G0064' => 'smo', 'SMO223G0038' => 'smo', 'SMO347G0584' => 'smo', 'SMO351G0010' => 'smo', 'SMO356G0404' => 'smo', 'Solyc01g103920.3' => 'sly', 'Solyc04g009710.2' => 'sly', 'Solyc05g055280.2' => 'sly', 'Solyc10g044520.3' => 'sly', 'Solyc10g075160.1' => 'sly', 'Solyc11g006910.3' => 'sly', 'Solyc11g068430.3' => 'sly', 'Sopen01g046310' => 'spe', 'Sopen03g001200' => 'spe', 'Sopen04g004830' => 'spe', 'Sopen05g033720' => 'spe', 'Sopen06g030740' => 'spe', 'Sopen10g013090' => 'spe', 'Sopen10g027630' => 'spe', 'Sopen10g027640' => 'spe', 'Sopen11g002820' => 'spe', 'Sopen11g027140' => 'spe', 'Sp1g09680' => 'spa', 'Sp2g03630' => 'spa', 'Sp4g10320' => 'spa', 'Sp6g33400' => 'spa', 'Sp7g13030' => 'spa', 'TAR365G0317' => 'tar', 'TAR376G0979' => 'tar', 'TAR623G1665' => 'tar', 'TAR633G2373' => 'tar', 'TAR636G1400' => 'tar', 'THA.LOC104800529' => 'tha', 'THA.LOC104808547' => 'tha', 'THA.LOC104809615' => 'tha', 'THA.LOC104815724' => 'tha', 'THA.LOC104818480' => 'tha', 'THA.LOC104819179' => 'tha', 'THA.LOC104822270' => 'tha', 'THA.LOC104826425' => 'tha', 'Thecc.02G089700' => 'tca', 'Thecc.04G232300' => 'tca', 'Thecc.09G283400' => 'tca', 'Thhalv10009020m.g' => 'esa', 'Thhalv10015506m.g' => 'esa', 'Thhalv10017364m.g' => 'esa', 'Thhalv10023742m.g' => 'esa', 'Thhalv10026483m.g' => 'esa', 'TPR.G17232' => 'tpr', 'TPR.G2133' => 'tpr', 'TPR.G2498' => 'tpr', 'TPR.G31942' => 'tpr', 'TPR.G37877' => 'tpr', 'TPR.G4571' => 'tpr', 'TWI14G1113' => 'twi', 'TWI15G0426' => 'twi', 'TWI31G1005' => 'twi', 'TWI38G0513' => 'twi', 'TWI38G1484' => 'twi', 'TWI73G1098' => 'twi', 'unitig_26.g10519' => 'ugi', 'unitig_736.g22395' => 'ugi', 'unitig_747.g21234' => 'ugi', 'unitig_747.g21942' => 'ugi', 'vmacro14351' => 'vma', 'VMungo0540G0082' => 'vmu', 'VMungo0540G0405' => 'vmu', 'VMungo0540G1486' => 'vmu', 'VMungo0540G1692' => 'vmu', 'VMungo0720G2473' => 'vmu', 'VMungo1127G1562' => 'vmu', 'VMungo1215G1918' => 'vmu', 'Zm00001eb052650' => 'zma', 'Zm00001eb063710' => 'zma', 'Zm00001eb083950' => 'zma', 'Zm00001eb174420' => 'zma', 'Zm00001eb260140' => 'zma', 'Zm00001eb260150' => 'zma', 'Zm00001eb260160' => 'zma', 'Zm00001eb348290' => 'zma', 'Zm00001eb366870' => 'zma', 'Zm00001eb421930' => 'zma' ), 'gf_id' => 'HOM05D001025', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001025' ), 'data_identifier' => 'HOM05D001025', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001025', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '592', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p22650' => 'bna', 'A01p29720' => 'bna', 'A03p26560' => 'bna', 'A03p68820' => 'bna', 'A04p20980' => 'bna', 'A06p07730' => 'bna', 'A07p18260' => 'bna', 'A08p33710' => 'bna', 'A09p16970' => 'bna', 'A10p27490' => 'bna', 'Aa31LG1G17300' => 'aar', 'Aa31LG1G3910' => 'aar', 'Aa31LG2G9630' => 'aar', 'Aa31LG5G8360' => 'aar', 'Aa31LG9G2410' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4699' => 'aag', 'Actinidia23512' => 'ach', 'Actinidia37080' => 'ach', 'Ah.01g020380' => 'amhyb', 'Ah.08g215710' => 'amhyb', 'Ah.09g225110' => 'amhyb', 'Ah.10g036680' => 'amhyb', 'AL1G21940' => 'aly', 'AL2G15540' => 'aly', 'AL4G21520' => 'aly', 'AL7G40960' => 'aly', 'Aqoxy2G01191' => 'aox', 'Aqoxy2G03393' => 'aox', 'Aqoxy4G02775' => 'aox', 'Aqoxy6G00058' => 'aox', 'arahy.Tifrunner.gnm1.ann1.9X74H2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CW3FX9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R485W7' => 'arhy', 'AT1G10960' => 'ath', 'AT1G60950' => 'ath', 'AT2G27510' => 'ath', 'AT4G14890' => 'ath', 'AT5G10000' => 'ath', 'ATR0665G624' => 'atr', 'ATR0697G138' => 'atr', 'ATR0776G046' => 'atr', 'ATR1134G135' => 'atr', 'Atru.chr12.1025' => 'acertr', 'Atru.chr3.3241' => 'acertr', 'Atru.chr4.2460' => 'acertr', 'AUR62007427' => 'cqu', 'AUR62010960' => 'cqu', 'AUR62012201' => 'cqu', 'AUR62021470' => 'cqu', 'AUR62022834' => 'cqu', 'AUR62033635' => 'cqu', 'AUR62036186' => 'cqu', 'BcaB01g03077' => 'bca', 'BcaB02g10093' => 'bca', 'BcaB04g20295' => 'bca', 'BcaB06g28147' => 'bca', 'BcaB07g31253' => 'bca', 'BcaC01g04946' => 'bca', 'BcaC02g10614' => 'bca', 'BcaC02g10885' => 'bca', 'BcaC04g19356' => 'bca', 'BcaC04g22297' => 'bca', 'BcaC05g24977' => 'bca', 'BcaC06g31823' => 'bca', 'BcaC07g38633' => 'bca', 'BcaC09g49353' => 'bca', 'BcaC09g50168' => 'bca', 'BcaNung00322' => 'bca', 'BcaNung04769' => 'bca', 'BolC1t02753H' => 'bol', 'BolC1t03721H' => 'bol', 'BolC3t15525H' => 'bol', 'BolC4t23903H' => 'bol', 'BolC4t24231H' => 'bol', 'BolC4t27209H' => 'bol', 'BolC5t29671H' => 'bol', 'BolC8t49044H' => 'bol', 'BolC9t54999H' => 'bol', 'BolC9t59517H' => 'bol', 'BraA01t02178Z' => 'bra', 'BraA01t03099Z' => 'bra', 'BraA03t11867Z' => 'bra', 'BraA04t17667Z' => 'bra', 'BraA07t29542Z' => 'bra', 'BraA08t35287Z' => 'bra', 'BraA09t37334Z' => 'bra', 'BraA10t44801Z' => 'bra', 'BraSC39t46181Z' => 'bra', 'C01p28240' => 'bna', 'C01p37530' => 'bna', 'C03p31820' => 'bna', 'C04p24080' => 'bna', 'C04p25790' => 'bna', 'C04p56770' => 'bna', 'C05p09310' => 'bna', 'C09p21010' => 'bna', 'C09p67560' => 'bna', 'CAN.G1324.7' => 'can', 'CAN.G1358.10' => 'can', 'CAN.G1550.2' => 'can', 'CAN.G186.56' => 'can', 'CAN.G1965.1' => 'can', 'CAN.G645.15' => 'can', 'CAN.G798.26' => 'can', 'CAN.G798.27' => 'can', 'CAN.G798.29' => 'can', 'CAN.G919.31' => 'can', 'CANSAT11G0133' => 'cansat', 'CANSAT11G1171' => 'cansat', 'CANSAT11G2056' => 'cansat', 'CANSAT56G1202' => 'cansat', 'CANSAT56G1514' => 'cansat', 'CANSAT78G0455' => 'cansat', 'CARHR011190' => 'chi', 'CARHR051980' => 'chi', 'CARHR120170' => 'chi', 'CARHR203310' => 'chi', 'CARHR221490' => 'chi', 'Carub.0001s1054' => 'cru', 'Carub.0002s0431' => 'cru', 'Carub.0004s0818' => 'cru', 'Carub.0006s0846' => 'cru', 'Carub.0007s2722' => 'cru', 'Ca_00058_v3' => 'car', 'Ca_17831_v3' => 'car', 'Ca_19408_v3' => 'car', 'Ca_24397_v3' => 'car', 'Ca_25664_v3' => 'car', 'CBR_g21818' => 'cbr', 'CBR_g31195' => 'cbr', 'CBR_g32282' => 'cbr', 'CBR_g39599' => 'cbr', 'CBR_g49410' => 'cbr', 'Cc01_g09120' => 'ccan', 'Cc01_g09130' => 'ccan', 'Cc02_g09630' => 'ccan', 'Cc02_g22810' => 'ccan', 'Cc03_g03810' => 'ccan', 'CDE02G3718' => 'cde', 'CDE04G3183' => 'cde', 'CDE07G1046' => 'cde', 'CDE08G0480' => 'cde', 'Cfa005493' => 'cfa', 'Cfa010312' => 'cfa', 'Cfa015648' => 'cfa', 'Ciclev10002793m.g' => 'ccl', 'Ciclev10003356m.g' => 'ccl', 'Ciclev10006141m.g' => 'ccl', 'Ciclev10016676m.g' => 'ccl', 'Ciclev10017081m.g' => 'ccl', 'Ciclev10029499m.g' => 'ccl', 'CiPaw.01G166300' => 'cil', 'CiPaw.06G145600' => 'cil', 'CiPaw.13G040100' => 'cil', 'CiPaw.13G135800' => 'cil', 'ClCG01G012230' => 'cla', 'ClCG05G009510' => 'cla', 'ClCG08G008270' => 'cla', 'COL.COLO4_11763' => 'col', 'COL.COLO4_19876' => 'col', 'COL.COLO4_21481' => 'col', 'Cpa.g.sc118.34' => 'cpa', 'Cpa.g.sc32.13' => 'cpa', 'Cpa.g.sc58.103' => 'cpa', 'Cre03.g183850' => 'cre', 'Cre06.g306350' => 'cre', 'Cre07.g334800' => 'cre', 'Cre12.g487900' => 'cre', 'Cre14.g626700' => 'cre', 'Cre16.g658400' => 'cre', 'Cre17.g700950' => 'cre', 'CsaV3_1G014830' => 'csa', 'CsaV3_3G013320' => 'csa', 'CsaV3_3G019210' => 'csa', 'CsaV3_3G019220' => 'csa', 'CsaV3_6G004230' => 'csa', 'CSS0003773' => 'camsi', 'CSS0004563' => 'camsi', 'CSS0013949' => 'camsi', 'CSS0025971' => 'camsi', 'CSS0028570' => 'camsi', 'CSS0033127' => 'camsi', 'CSS0036051' => 'camsi', 'CSS0040087' => 'camsi', 'CSS0043179' => 'camsi', 'DCAR_006161' => 'dca', 'DCAR_010351' => 'dca', 'DCAR_012197' => 'dca', 'DCAR_024162' => 'dca', 'Dinv01030' => 'din', 'Dinv10924' => 'din', 'Dinv11835' => 'din', 'Dinv22841' => 'din', 'Dinv42553' => 'din', 'Duzib052G0560' => 'dzi', 'Duzib132G0389' => 'dzi', 'Duzib150G1181' => 'dzi', 'Duzib168G0623' => 'dzi', 'Duzib170G1036' => 'dzi', 'Duzib212G0200' => 'dzi', 'Duzib248G0194' => 'dzi', 'ECA232G2193' => 'eca', 'ECA233G0302' => 'eca', 'ECA234G2813' => 'eca', 'ECA234G4866' => 'eca', 'ECA240G3932' => 'eca', 'ECA248G0385' => 'eca', 'EL10Ac2g04781' => 'bvu', 'EL10Ac3g06445' => 'bvu', 'EL10Ac7g15825' => 'bvu', 'EL10Ac8g18550' => 'bvu', 'Eucgr.B03849' => 'egr', 'Eucgr.I02744' => 'egr', 'Eucgr.J00264' => 'egr', 'Eucgr.J00493' => 'egr', 'FAN04G2181' => 'fan', 'FAN07G2666' => 'fan', 'FAN11G0024' => 'fan', 'FAN12G1105' => 'fan', 'FAN13G0302' => 'fan', 'FAN15G2781' => 'fan', 'FAN16G1274' => 'fan', 'FAN17G2988' => 'fan', 'FAN18G2621' => 'fan', 'FAN21G0013' => 'fan', 'FAN22G1211' => 'fan', 'FAN25G3626' => 'fan', 'FvH4_2g09491' => 'fve', 'FvH4_3g24910' => 'fve', 'FvH4_4g15630' => 'fve', 'FvH4_5g28820' => 'fve', 'Glyma.01G238000' => 'gma', 'Glyma.05G168400' => 'gma', 'Glyma.08G126800' => 'gma', 'Glyma.08G188500' => 'gma', 'Glyma.10G278900' => 'gma', 'Glyma.11G005700' => 'gma', 'Glyma.11G183300' => 'gma', 'Glyma.12G089200' => 'gma', 'Glyma.12G169400' => 'gma', 'Glyma.12G169500' => 'gma', 'Glyma.12G169600' => 'gma', 'Glyma.20G110800' => 'gma', 'Gohir.A03G192900' => 'ghi', 'Gohir.A03G193000' => 'ghi', 'Gohir.A05G080700' => 'ghi', 'Gohir.A09G216000' => 'ghi', 'Gohir.A12G027700' => 'ghi', 'Gohir.A13G036200' => 'ghi', 'Gohir.A13G222600' => 'ghi', 'Gohir.D02G213900' => 'ghi', 'Gohir.D02G214000' => 'ghi', 'Gohir.D05G083700' => 'ghi', 'Gohir.D05G083800' => 'ghi', 'Gohir.D05G083850' => 'ghi', 'Gohir.D08G015400' => 'ghi', 'Gohir.D09G218400' => 'ghi', 'Gohir.D12G027100' => 'ghi', 'Gohir.D13G034500' => 'ghi', 'Gohir.D13G227400' => 'ghi', 'Gorai.005G241800' => 'gra', 'Gorai.005G241900' => 'gra', 'Gorai.006G239400' => 'gra', 'Gorai.008G027600' => 'gra', 'Gorai.009G085400' => 'gra', 'Gorai.009G085500' => 'gra', 'Gorai.013G039000' => 'gra', 'Gorai.013G194800' => 'gra', 'Gorai.013G257900' => 'gra', 'GSVIVG01000982001' => 'vvi', 'GSVIVG01017981001' => 'vvi', 'HanXRQChr01g0024061' => 'han', 'HanXRQChr09g0247831' => 'han', 'HanXRQChr10g0294611' => 'han', 'HanXRQChr10g0294621' => 'han', 'HanXRQChr11g0346821' => 'han', 'HanXRQChr13g0397461' => 'han', 'HanXRQChr16g0513651' => 'han', 'HanXRQChr16g0513701' => 'han', 'Haze_00897' => 'cav', 'Haze_01745' => 'cav', 'Haze_02486' => 'cav', 'Haze_02487' => 'cav', 'Haze_23374' => 'cav', 'Hma1.2p1_0578F.1_g182520' => 'hma', 'Hma1.2p1_0602F.1_g187350' => 'hma', 'Hma1.2p1_0602F.1_g187360' => 'hma', 'Hma1.2p1_0874F.1_g231320' => 'hma', 'Hma1.2p1_1197F.1_g266210' => 'hma', 'Hma1.2p1_1197F.1_g266220' => 'hma', 'Hma1.2p1_2167F.1_g315895' => 'hma', 'Hma1.2p1_2190F.1_g316640' => 'hma', 'Hma1.2p1_3645F.1_g337153' => 'hma', 'HPP92_004907' => 'vpl', 'HPP92_012134' => 'vpl', 'HPP92_025136' => 'vpl', 'HPP92_026087' => 'vpl', 'Hund06782' => 'sun', 'Hund06784' => 'sun', 'Lalb_Chr01g0004861' => 'lal', 'Lalb_Chr02g0140591' => 'lal', 'Lalb_Chr02g0140611' => 'lal', 'Lalb_Chr03g0028101' => 'lal', 'Lalb_Chr07g0185791' => 'lal', 'Lalb_Chr12g0204491' => 'lal', 'Lalb_Chr13g0295671' => 'lal', 'Lalb_Chr19g0136461' => 'lal', 'Lalb_Chr21g0309191' => 'lal', 'Lj1g0028158' => 'lja', 'Lj1P236T38' => 'lonja', 'Lj2C32G2' => 'lonja', 'Lj2P944T8' => 'lonja', 'Lj2P963T15' => 'lonja', 'Lj3g0011788' => 'lja', 'Lj4g0025027' => 'lja', 'Lj5P255T36' => 'lonja', 'Lj6g0018866' => 'lja', 'Lj6P608T31' => 'lonja', 'LjContig00408g0008879' => 'lja', 'Lsat_1_v5_gn_5_105820' => 'lsa', 'Lsat_1_v5_gn_6_38800' => 'lsa', 'Lsat_1_v5_gn_7_67141' => 'lsa', 'Manes.04G003400' => 'mes', 'Manes.07G020000' => 'mes', 'Manes.07G020100' => 'mes', 'Manes.07G020150' => 'mes', 'Manes.10G061500' => 'mes', 'Manes.10G123200' => 'mes', 'Manes.11G161900' => 'mes', 'Manes.15G029300' => 'mes', 'Mapoly0071s0018' => 'mpo', 'Mapoly0082s0023' => 'mpo', 'Mapoly3477s0001' => 'mpo', 'MBI05_g31233_MAGBIO' => 'mbi', 'MBI09_g05946_MAGBIO' => 'mbi', 'MBI09_g05947_MAGBIO' => 'mbi', 'MBI17_g08346_MAGBIO' => 'mbi', 'MCO04G038' => 'mco', 'MCO09G370' => 'mco', 'MCO13G605' => 'mco', 'MD00G1075500' => 'mdo', 'MD03G1144300' => 'mdo', 'MD08G1236800' => 'mdo', 'MD13G1193300' => 'mdo', 'MD15G1428700' => 'mdo', 'Medtr1g112030' => 'mtr', 'Medtr1g112050' => 'mtr', 'Medtr2g006290' => 'mtr', 'Medtr2g086510' => 'mtr', 'Medtr4g053120' => 'mtr', 'Medtr5g006320' => 'mtr', 'Medtr8g088720' => 'mtr', 'MELO3C004712.2' => 'cme', 'MELO3C006533.2' => 'cme', 'MELO3C019438.2' => 'cme', 'MELO3C019440.2' => 'cme', 'MELO3C019441.2' => 'cme', 'MELO3C019895.2' => 'cme', 'Migut.B00811' => 'egut', 'Migut.D02447' => 'egut', 'Migut.F00875' => 'egut', 'Migut.N00186' => 'egut', 'Migut.N01051' => 'egut', 'Migut.N02491' => 'egut', 'Migut.O00784' => 'egut', 'MSTRG.12367' => 'ama', 'MSTRG.18756' => 'ama', 'MSTRG.21042' => 'ama', 'Nitab4.5_0000559g0040' => 'nta', 'Nitab4.5_0000667g0190' => 'nta', 'Nitab4.5_0000755g0160' => 'nta', 'Nitab4.5_0001216g0080' => 'nta', 'Nitab4.5_0004069g0040' => 'nta', 'Nitab4.5_0004129g0010' => 'nta', 'Nitab4.5_0005744g0030' => 'nta', 'Nitab4.5_0006996g0030' => 'nta', 'Nitab4.5_0008971g0040' => 'nta', 'Nitab4.5_0009769g0020' => 'nta', 'Nitab4.5_0009833g0010' => 'nta', 'Nitab4.5_0013140g0020' => 'nta', 'Nn003s41376' => 'nnu', 'Nn1g01857' => 'nnu', 'Nn1g03611' => 'nnu', 'Nn1g06853' => 'nnu', 'Nn3g18360' => 'nnu', 'Nn4g26328' => 'nnu', 'Nn5g27531' => 'nnu', 'Nn6g34899' => 'nnu', 'Nn7g36299' => 'nnu', 'Oeu021485.1' => 'oeu', 'Oeu022433.1' => 'oeu', 'Oeu032111.1' => 'oeu', 'Oeu051608.1' => 'oeu', 'Os01g0860601' => 'osa', 'Os03g0659200' => 'osa', 'Os03g0835900' => 'osa', 'Os04g0412200' => 'osa', 'Os05g0443500' => 'osa', 'Os07g0251500' => 'osa', 'Os08g0104600' => 'osa', 'Peaxi162Scf00003g00047' => 'pax', 'Peaxi162Scf00003g00052' => 'pax', 'Peaxi162Scf00003g00394' => 'pax', 'Peaxi162Scf00091g00621' => 'pax', 'Peaxi162Scf00152g00146' => 'pax', 'Peaxi162Scf00173g00025' => 'pax', 'Peaxi162Scf00195g00102' => 'pax', 'Peaxi162Scf00402g00013' => 'pax', 'Peaxi162Scf00519g00618' => 'pax', 'PGR004G2838' => 'pgr', 'PGR044G2275' => 'pgr', 'PGR102G1377' => 'pgr', 'PGR119G1245' => 'pgr', 'PGR142G4449' => 'pgr', 'PGSC0003DMG400004532' => 'stu', 'PGSC0003DMG400011950' => 'stu', 'PGSC0003DMG400023391' => 'stu', 'PGSC0003DMG400023985' => 'stu', 'PGSC0003DMG400026360' => 'stu', 'PGSC0003DMG400035711' => 'stu', 'PGSC0003DMG400037286' => 'stu', 'PGSC0003DMG402005881' => 'stu', 'Phvul.002G045400' => 'pvu', 'Phvul.006G216600' => 'pvu', 'Phvul.006G216700' => 'pvu', 'Phvul.006G216800' => 'pvu', 'Phvul.007G022500' => 'pvu', 'Phvul.011G094400' => 'pvu', 'Potri.001G470700' => 'ptr', 'Potri.003G015200' => 'ptr', 'Potri.004G202500' => 'ptr', 'Potri.004G218400' => 'ptr', 'Potri.008G020100' => 'ptr', 'Potri.008G153200' => 'ptr', 'Potri.009G163800' => 'ptr', 'Potri.010G087300' => 'ptr', 'Potri.010G239100' => 'ptr', 'Pp3c10_16100' => 'ppa', 'Pp3c10_16880' => 'ppa', 'Pp3c16_6230' => 'ppa', 'Pp3c17_18910' => 'ppa', 'Pp3c3_22119' => 'ppa', 'Pp3c3_22140' => 'ppa', 'Pp3c4_8159' => 'ppa', 'Pp3c4_8171' => 'ppa', 'Pp3c4_8330' => 'ppa', 'PRCOL_00004098' => 'pco', 'Prupe.1G013900' => 'ppe', 'Prupe.1G226300' => 'ppe', 'Prupe.1G573600' => 'ppe', 'Prupe.6G130100' => 'ppe', 'Psat3g090040' => 'psa', 'Psat4g210440' => 'psa', 'Psat6g231040' => 'psa', 'Psat6g231080' => 'psa', 'Psat7g063000' => 'psa', 'Psat7g188000' => 'psa', 'Psat7g188040' => 'psa', 'PSO017G0206' => 'pso', 'PSO170G0501' => 'pso', 'PSO170G6422' => 'pso', 'PSO210G7739' => 'pso', 'PSO339G1808' => 'pso', 'PSO339G6135' => 'pso', 'PSO384G0010' => 'pso', 'PSO384G0964' => 'pso', 'PSO761G0050' => 'pso', 'PSO782G4085' => 'pso', 'QL01p012264' => 'qlo', 'QL02p099491' => 'qlo', 'QL03p033868' => 'qlo', 'QL04p046678' => 'qlo', 'QL06p002448' => 'qlo', 'RcHm_v2.0_Chr4g0416181' => 'rch', 'RcHm_v2.0_Chr5g0044701' => 'rch', 'RcHm_v2.0_Chr6g0265781' => 'rch', 'RcHm_v2.0_Chr7g0221031' => 'rch', 'Rhsim04G0202000' => 'rsi', 'Rhsim11G0127300' => 'rsi', 'Rhsim13G0111800' => 'rsi', 'Sabra01G0165600' => 'sbr', 'Sabra03G0008300' => 'sbr', 'Sabra04G0136900' => 'sbr', 'Sabra08G0013400' => 'sbr', 'Sabra08G0116800' => 'sbr', 'Sabra09G0128000' => 'sbr', 'Sabra10G0055500' => 'sbr', 'Sabra10G0073300' => 'sbr', 'SalBow3G0385' => 'sbo', 'SalBow3G1119' => 'sbo', 'SalBow3G2005' => 'sbo', 'SalBow6G2563' => 'sbo', 'SalBow6G6386' => 'sbo', 'Sc06g0008800' => 'sci', 'Sc07g0004950' => 'sci', 'Sc09g0005340' => 'sci', 'Sc13g0004410' => 'sci', 'Sc21g0007090' => 'sci', 'Sed0009285' => 'sed', 'Sed0017583' => 'sed', 'Sed0019699' => 'sed', 'Sed0023107' => 'sed', 'SEGI_10916' => 'sgi', 'SEGI_16217' => 'sgi', 'SEGI_19466' => 'sgi', 'SEGI_41115' => 'sgi', 'SGA_v2.0_scaffold111G31534' => 'sas', 'SGA_v2.0_scaffold22G09864' => 'sas', 'SGA_v2.0_scaffold338G49219' => 'sas', 'SGA_v2.0_scaffold92G28298' => 'sas', 'SMO119G0064' => 'smo', 'SMO223G0038' => 'smo', 'SMO347G0584' => 'smo', 'SMO351G0010' => 'smo', 'SMO356G0404' => 'smo', 'Solyc01g103920.3' => 'sly', 'Solyc04g009710.2' => 'sly', 'Solyc05g055280.2' => 'sly', 'Solyc10g044520.3' => 'sly', 'Solyc10g075160.1' => 'sly', 'Solyc11g006910.3' => 'sly', 'Solyc11g068430.3' => 'sly', 'Sopen01g046310' => 'spe', 'Sopen03g001200' => 'spe', 'Sopen04g004830' => 'spe', 'Sopen05g033720' => 'spe', 'Sopen06g030740' => 'spe', 'Sopen10g013090' => 'spe', 'Sopen10g027630' => 'spe', 'Sopen10g027640' => 'spe', 'Sopen11g002820' => 'spe', 'Sopen11g027140' => 'spe', 'Sp1g09680' => 'spa', 'Sp2g03630' => 'spa', 'Sp4g10320' => 'spa', 'Sp6g33400' => 'spa', 'Sp7g13030' => 'spa', 'TAR365G0317' => 'tar', 'TAR376G0979' => 'tar', 'TAR623G1665' => 'tar', 'TAR633G2373' => 'tar', 'TAR636G1400' => 'tar', 'THA.LOC104800529' => 'tha', 'THA.LOC104808547' => 'tha', 'THA.LOC104809615' => 'tha', 'THA.LOC104815724' => 'tha', 'THA.LOC104818480' => 'tha', 'THA.LOC104819179' => 'tha', 'THA.LOC104822270' => 'tha', 'THA.LOC104826425' => 'tha', 'Thecc.02G089700' => 'tca', 'Thecc.04G232300' => 'tca', 'Thecc.09G283400' => 'tca', 'Thhalv10009020m.g' => 'esa', 'Thhalv10015506m.g' => 'esa', 'Thhalv10017364m.g' => 'esa', 'Thhalv10023742m.g' => 'esa', 'Thhalv10026483m.g' => 'esa', 'TPR.G17232' => 'tpr', 'TPR.G2133' => 'tpr', 'TPR.G2498' => 'tpr', 'TPR.G31942' => 'tpr', 'TPR.G37877' => 'tpr', 'TPR.G4571' => 'tpr', 'TWI14G1113' => 'twi', 'TWI15G0426' => 'twi', 'TWI31G1005' => 'twi', 'TWI38G0513' => 'twi', 'TWI38G1484' => 'twi', 'TWI73G1098' => 'twi', 'unitig_26.g10519' => 'ugi', 'unitig_736.g22395' => 'ugi', 'unitig_747.g21234' => 'ugi', 'unitig_747.g21942' => 'ugi', 'vmacro14351' => 'vma', 'VMungo0540G0082' => 'vmu', 'VMungo0540G0405' => 'vmu', 'VMungo0540G1486' => 'vmu', 'VMungo0540G1692' => 'vmu', 'VMungo0720G2473' => 'vmu', 'VMungo1127G1562' => 'vmu', 'VMungo1215G1918' => 'vmu', 'Zm00001eb052650' => 'zma', 'Zm00001eb063710' => 'zma', 'Zm00001eb083950' => 'zma', 'Zm00001eb174420' => 'zma', 'Zm00001eb260140' => 'zma', 'Zm00001eb260150' => 'zma', 'Zm00001eb260160' => 'zma', 'Zm00001eb348290' => 'zma', 'Zm00001eb366870' => 'zma', 'Zm00001eb421930' => 'zma' ) $gf_id = 'HOM05D001025' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001025' ) $data_identifier = 'HOM05D001025' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 19, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 2, 'amhyb' => (int) 4, 'aly' => (int) 4, 'aox' => (int) 4, 'arhy' => (int) 3, 'ath' => (int) 5, 'atr' => (int) 4, 'acertr' => (int) 3, 'cqu' => (int) 7, 'bca' => (int) 17, 'bol' => (int) 10, 'bra' => (int) 9, 'can' => (int) 10, 'cansat' => (int) 6, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 5, 'cbr' => (int) 5, 'ccan' => (int) 5, 'cde' => (int) 4, 'cfa' => (int) 3, 'ccl' => (int) 6, 'cil' => (int) 4, 'cla' => (int) 3, 'col' => (int) 3, 'cpa' => (int) 3, 'cre' => (int) 7, 'csa' => (int) 5, 'camsi' => (int) 9, 'dca' => (int) 4, 'din' => (int) 5, 'dzi' => (int) 7, 'eca' => (int) 6, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 12, 'fve' => (int) 4, 'gma' => (int) 12, 'ghi' => (int) 17, 'gra' => (int) 9, 'vvi' => (int) 2, 'han' => (int) 8, 'cav' => (int) 5, 'hma' => (int) 9, 'vpl' => (int) 4, 'sun' => (int) 2, 'lal' => (int) 9, 'lja' => (int) 5, 'lonja' => (int) 6, 'lsa' => (int) 3, 'mes' => (int) 8, 'mpo' => (int) 3, 'mbi' => (int) 4, 'mco' => (int) 3, 'mdo' => (int) 5, 'mtr' => (int) 7, 'cme' => (int) 6, 'egut' => (int) 7, 'ama' => (int) 3, 'nta' => (int) 12, 'nnu' => (int) 9, 'oeu' => (int) 4, 'osa' => (int) 7, 'pax' => (int) 9, 'pgr' => (int) 5, 'stu' => (int) 8, 'pvu' => (int) 6, 'ptr' => (int) 9, 'ppa' => (int) 9, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 7, 'pso' => (int) 10, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 3, 'sbr' => (int) 8, 'sbo' => (int) 5, 'sci' => (int) 5, 'sed' => (int) 4, 'sgi' => (int) 4, 'sas' => (int) 4, 'smo' => (int) 5, 'sly' => (int) 7, 'spe' => (int) 10, 'spa' => (int) 5, 'tar' => (int) 5, 'tha' => (int) 8, 'tca' => (int) 3, 'esa' => (int) 5, 'tpr' => (int) 6, 'twi' => (int) 6, 'ugi' => (int) 4, 'vma' => (int) 1, 'vmu' => (int) 7, 'zma' => (int) 10 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb421930' $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' => 'HOM05D001025', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '592', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p22650' => 'bna', 'A01p29720' => 'bna', 'A03p26560' => 'bna', 'A03p68820' => 'bna', 'A04p20980' => 'bna', 'A06p07730' => 'bna', 'A07p18260' => 'bna', 'A08p33710' => 'bna', 'A09p16970' => 'bna', 'A10p27490' => 'bna', 'Aa31LG1G17300' => 'aar', 'Aa31LG1G3910' => 'aar', 'Aa31LG2G9630' => 'aar', 'Aa31LG5G8360' => 'aar', 'Aa31LG9G2410' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4699' => 'aag', 'Actinidia23512' => 'ach', 'Actinidia37080' => 'ach', 'Ah.01g020380' => 'amhyb', 'Ah.08g215710' => 'amhyb', 'Ah.09g225110' => 'amhyb', 'Ah.10g036680' => 'amhyb', 'AL1G21940' => 'aly', 'AL2G15540' => 'aly', 'AL4G21520' => 'aly', 'AL7G40960' => 'aly', 'Aqoxy2G01191' => 'aox', 'Aqoxy2G03393' => 'aox', 'Aqoxy4G02775' => 'aox', 'Aqoxy6G00058' => 'aox', 'arahy.Tifrunner.gnm1.ann1.9X74H2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CW3FX9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R485W7' => 'arhy', 'AT1G10960' => 'ath', 'AT1G60950' => 'ath', 'AT2G27510' => 'ath', 'AT4G14890' => 'ath', 'AT5G10000' => 'ath', 'ATR0665G624' => 'atr', 'ATR0697G138' => 'atr', 'ATR0776G046' => 'atr', 'ATR1134G135' => 'atr', 'Atru.chr12.1025' => 'acertr', 'Atru.chr3.3241' => 'acertr', 'Atru.chr4.2460' => 'acertr', 'AUR62007427' => 'cqu', 'AUR62010960' => 'cqu', 'AUR62012201' => 'cqu', 'AUR62021470' => 'cqu', 'AUR62022834' => 'cqu', 'AUR62033635' => 'cqu', 'AUR62036186' => 'cqu', 'BcaB01g03077' => 'bca', 'BcaB02g10093' => 'bca', 'BcaB04g20295' => 'bca', 'BcaB06g28147' => 'bca', 'BcaB07g31253' => 'bca', 'BcaC01g04946' => 'bca', 'BcaC02g10614' => 'bca', 'BcaC02g10885' => 'bca', 'BcaC04g19356' => 'bca', 'BcaC04g22297' => 'bca', 'BcaC05g24977' => 'bca', 'BcaC06g31823' => 'bca', 'BcaC07g38633' => 'bca', 'BcaC09g49353' => 'bca', 'BcaC09g50168' => 'bca', 'BcaNung00322' => 'bca', 'BcaNung04769' => 'bca', 'BolC1t02753H' => 'bol', 'BolC1t03721H' => 'bol', 'BolC3t15525H' => 'bol', 'BolC4t23903H' => 'bol', 'BolC4t24231H' => 'bol', 'BolC4t27209H' => 'bol', 'BolC5t29671H' => 'bol', 'BolC8t49044H' => 'bol', 'BolC9t54999H' => 'bol', 'BolC9t59517H' => 'bol', 'BraA01t02178Z' => 'bra', 'BraA01t03099Z' => 'bra', 'BraA03t11867Z' => 'bra', 'BraA04t17667Z' => 'bra', 'BraA07t29542Z' => 'bra', 'BraA08t35287Z' => 'bra', 'BraA09t37334Z' => 'bra', 'BraA10t44801Z' => 'bra', 'BraSC39t46181Z' => 'bra', 'C01p28240' => 'bna', 'C01p37530' => 'bna', 'C03p31820' => 'bna', 'C04p24080' => 'bna', 'C04p25790' => 'bna', 'C04p56770' => 'bna', 'C05p09310' => 'bna', 'C09p21010' => 'bna', 'C09p67560' => 'bna', 'CAN.G1324.7' => 'can', 'CAN.G1358.10' => 'can', 'CAN.G1550.2' => 'can', 'CAN.G186.56' => 'can', 'CAN.G1965.1' => 'can', 'CAN.G645.15' => 'can', 'CAN.G798.26' => 'can', 'CAN.G798.27' => 'can', 'CAN.G798.29' => 'can', 'CAN.G919.31' => 'can', 'CANSAT11G0133' => 'cansat', 'CANSAT11G1171' => 'cansat', 'CANSAT11G2056' => 'cansat', 'CANSAT56G1202' => 'cansat', 'CANSAT56G1514' => 'cansat', 'CANSAT78G0455' => 'cansat', 'CARHR011190' => 'chi', 'CARHR051980' => 'chi', 'CARHR120170' => 'chi', 'CARHR203310' => 'chi', 'CARHR221490' => 'chi', 'Carub.0001s1054' => 'cru', 'Carub.0002s0431' => 'cru', 'Carub.0004s0818' => 'cru', 'Carub.0006s0846' => 'cru', 'Carub.0007s2722' => 'cru', 'Ca_00058_v3' => 'car', 'Ca_17831_v3' => 'car', 'Ca_19408_v3' => 'car', 'Ca_24397_v3' => 'car', 'Ca_25664_v3' => 'car', 'CBR_g21818' => 'cbr', 'CBR_g31195' => 'cbr', 'CBR_g32282' => 'cbr', 'CBR_g39599' => 'cbr', 'CBR_g49410' => 'cbr', 'Cc01_g09120' => 'ccan', 'Cc01_g09130' => 'ccan', 'Cc02_g09630' => 'ccan', 'Cc02_g22810' => 'ccan', 'Cc03_g03810' => 'ccan', 'CDE02G3718' => 'cde', 'CDE04G3183' => 'cde', 'CDE07G1046' => 'cde', 'CDE08G0480' => 'cde', 'Cfa005493' => 'cfa', 'Cfa010312' => 'cfa', 'Cfa015648' => 'cfa', 'Ciclev10002793m.g' => 'ccl', 'Ciclev10003356m.g' => 'ccl', 'Ciclev10006141m.g' => 'ccl', 'Ciclev10016676m.g' => 'ccl', 'Ciclev10017081m.g' => 'ccl', 'Ciclev10029499m.g' => 'ccl', 'CiPaw.01G166300' => 'cil', 'CiPaw.06G145600' => 'cil', 'CiPaw.13G040100' => 'cil', 'CiPaw.13G135800' => 'cil', 'ClCG01G012230' => 'cla', 'ClCG05G009510' => 'cla', 'ClCG08G008270' => 'cla', 'COL.COLO4_11763' => 'col', 'COL.COLO4_19876' => 'col', 'COL.COLO4_21481' => 'col', 'Cpa.g.sc118.34' => 'cpa', 'Cpa.g.sc32.13' => 'cpa', 'Cpa.g.sc58.103' => 'cpa', 'Cre03.g183850' => 'cre', 'Cre06.g306350' => 'cre', 'Cre07.g334800' => 'cre', 'Cre12.g487900' => 'cre', 'Cre14.g626700' => 'cre', 'Cre16.g658400' => 'cre', 'Cre17.g700950' => 'cre', 'CsaV3_1G014830' => 'csa', 'CsaV3_3G013320' => 'csa', 'CsaV3_3G019210' => 'csa', 'CsaV3_3G019220' => 'csa', 'CsaV3_6G004230' => 'csa', 'CSS0003773' => 'camsi', 'CSS0004563' => 'camsi', 'CSS0013949' => 'camsi', 'CSS0025971' => 'camsi', 'CSS0028570' => 'camsi', 'CSS0033127' => 'camsi', 'CSS0036051' => 'camsi', 'CSS0040087' => 'camsi', 'CSS0043179' => 'camsi', 'DCAR_006161' => 'dca', 'DCAR_010351' => 'dca', 'DCAR_012197' => 'dca', 'DCAR_024162' => 'dca', 'Dinv01030' => 'din', 'Dinv10924' => 'din', 'Dinv11835' => 'din', 'Dinv22841' => 'din', 'Dinv42553' => 'din', 'Duzib052G0560' => 'dzi', 'Duzib132G0389' => 'dzi', 'Duzib150G1181' => 'dzi', 'Duzib168G0623' => 'dzi', 'Duzib170G1036' => 'dzi', 'Duzib212G0200' => 'dzi', 'Duzib248G0194' => 'dzi', 'ECA232G2193' => 'eca', 'ECA233G0302' => 'eca', 'ECA234G2813' => 'eca', 'ECA234G4866' => 'eca', 'ECA240G3932' => 'eca', 'ECA248G0385' => 'eca', 'EL10Ac2g04781' => 'bvu', 'EL10Ac3g06445' => 'bvu', 'EL10Ac7g15825' => 'bvu', 'EL10Ac8g18550' => 'bvu', 'Eucgr.B03849' => 'egr', 'Eucgr.I02744' => 'egr', 'Eucgr.J00264' => 'egr', 'Eucgr.J00493' => 'egr', 'FAN04G2181' => 'fan', 'FAN07G2666' => 'fan', 'FAN11G0024' => 'fan', 'FAN12G1105' => 'fan', 'FAN13G0302' => 'fan', 'FAN15G2781' => 'fan', 'FAN16G1274' => 'fan', 'FAN17G2988' => 'fan', 'FAN18G2621' => 'fan', 'FAN21G0013' => 'fan', 'FAN22G1211' => 'fan', 'FAN25G3626' => 'fan', 'FvH4_2g09491' => 'fve', 'FvH4_3g24910' => 'fve', 'FvH4_4g15630' => 'fve', 'FvH4_5g28820' => 'fve', 'Glyma.01G238000' => 'gma', 'Glyma.05G168400' => 'gma', 'Glyma.08G126800' => 'gma', 'Glyma.08G188500' => 'gma', 'Glyma.10G278900' => 'gma', 'Glyma.11G005700' => 'gma', 'Glyma.11G183300' => 'gma', 'Glyma.12G089200' => 'gma', 'Glyma.12G169400' => 'gma', 'Glyma.12G169500' => 'gma', 'Glyma.12G169600' => 'gma', 'Glyma.20G110800' => 'gma', 'Gohir.A03G192900' => 'ghi', 'Gohir.A03G193000' => 'ghi', 'Gohir.A05G080700' => 'ghi', 'Gohir.A09G216000' => 'ghi', 'Gohir.A12G027700' => 'ghi', 'Gohir.A13G036200' => 'ghi', 'Gohir.A13G222600' => 'ghi', 'Gohir.D02G213900' => 'ghi', 'Gohir.D02G214000' => 'ghi', 'Gohir.D05G083700' => 'ghi', 'Gohir.D05G083800' => 'ghi', 'Gohir.D05G083850' => 'ghi', 'Gohir.D08G015400' => 'ghi', 'Gohir.D09G218400' => 'ghi', 'Gohir.D12G027100' => 'ghi', 'Gohir.D13G034500' => 'ghi', 'Gohir.D13G227400' => 'ghi', 'Gorai.005G241800' => 'gra', 'Gorai.005G241900' => 'gra', 'Gorai.006G239400' => 'gra', 'Gorai.008G027600' => 'gra', 'Gorai.009G085400' => 'gra', 'Gorai.009G085500' => 'gra', 'Gorai.013G039000' => 'gra', 'Gorai.013G194800' => 'gra', 'Gorai.013G257900' => 'gra', 'GSVIVG01000982001' => 'vvi', 'GSVIVG01017981001' => 'vvi', 'HanXRQChr01g0024061' => 'han', 'HanXRQChr09g0247831' => 'han', 'HanXRQChr10g0294611' => 'han', 'HanXRQChr10g0294621' => 'han', 'HanXRQChr11g0346821' => 'han', 'HanXRQChr13g0397461' => 'han', 'HanXRQChr16g0513651' => 'han', 'HanXRQChr16g0513701' => 'han', 'Haze_00897' => 'cav', 'Haze_01745' => 'cav', 'Haze_02486' => 'cav', 'Haze_02487' => 'cav', 'Haze_23374' => 'cav', 'Hma1.2p1_0578F.1_g182520' => 'hma', 'Hma1.2p1_0602F.1_g187350' => 'hma', 'Hma1.2p1_0602F.1_g187360' => 'hma', 'Hma1.2p1_0874F.1_g231320' => 'hma', 'Hma1.2p1_1197F.1_g266210' => 'hma', 'Hma1.2p1_1197F.1_g266220' => 'hma', 'Hma1.2p1_2167F.1_g315895' => 'hma', 'Hma1.2p1_2190F.1_g316640' => 'hma', 'Hma1.2p1_3645F.1_g337153' => 'hma', 'HPP92_004907' => 'vpl', 'HPP92_012134' => 'vpl', 'HPP92_025136' => 'vpl', 'HPP92_026087' => 'vpl', 'Hund06782' => 'sun', 'Hund06784' => 'sun', 'Lalb_Chr01g0004861' => 'lal', 'Lalb_Chr02g0140591' => 'lal', 'Lalb_Chr02g0140611' => 'lal', 'Lalb_Chr03g0028101' => 'lal', 'Lalb_Chr07g0185791' => 'lal', 'Lalb_Chr12g0204491' => 'lal', 'Lalb_Chr13g0295671' => 'lal', 'Lalb_Chr19g0136461' => 'lal', 'Lalb_Chr21g0309191' => 'lal', 'Lj1g0028158' => 'lja', 'Lj1P236T38' => 'lonja', 'Lj2C32G2' => 'lonja', 'Lj2P944T8' => 'lonja', 'Lj2P963T15' => 'lonja', 'Lj3g0011788' => 'lja', 'Lj4g0025027' => 'lja', 'Lj5P255T36' => 'lonja', 'Lj6g0018866' => 'lja', 'Lj6P608T31' => 'lonja', 'LjContig00408g0008879' => 'lja', 'Lsat_1_v5_gn_5_105820' => 'lsa', 'Lsat_1_v5_gn_6_38800' => 'lsa', 'Lsat_1_v5_gn_7_67141' => 'lsa', 'Manes.04G003400' => 'mes', 'Manes.07G020000' => 'mes', 'Manes.07G020100' => 'mes', 'Manes.07G020150' => 'mes', 'Manes.10G061500' => 'mes', 'Manes.10G123200' => 'mes', 'Manes.11G161900' => 'mes', 'Manes.15G029300' => 'mes', 'Mapoly0071s0018' => 'mpo', 'Mapoly0082s0023' => 'mpo', 'Mapoly3477s0001' => 'mpo', 'MBI05_g31233_MAGBIO' => 'mbi', 'MBI09_g05946_MAGBIO' => 'mbi', 'MBI09_g05947_MAGBIO' => 'mbi', 'MBI17_g08346_MAGBIO' => 'mbi', 'MCO04G038' => 'mco', 'MCO09G370' => 'mco', 'MCO13G605' => 'mco', 'MD00G1075500' => 'mdo', 'MD03G1144300' => 'mdo', 'MD08G1236800' => 'mdo', 'MD13G1193300' => 'mdo', 'MD15G1428700' => 'mdo', 'Medtr1g112030' => 'mtr', 'Medtr1g112050' => 'mtr', 'Medtr2g006290' => 'mtr', 'Medtr2g086510' => 'mtr', 'Medtr4g053120' => 'mtr', 'Medtr5g006320' => 'mtr', 'Medtr8g088720' => 'mtr', 'MELO3C004712.2' => 'cme', 'MELO3C006533.2' => 'cme', 'MELO3C019438.2' => 'cme', 'MELO3C019440.2' => 'cme', 'MELO3C019441.2' => 'cme', 'MELO3C019895.2' => 'cme', 'Migut.B00811' => 'egut', 'Migut.D02447' => 'egut', 'Migut.F00875' => 'egut', 'Migut.N00186' => 'egut', 'Migut.N01051' => 'egut', 'Migut.N02491' => 'egut', 'Migut.O00784' => 'egut', 'MSTRG.12367' => 'ama', 'MSTRG.18756' => 'ama', 'MSTRG.21042' => 'ama', 'Nitab4.5_0000559g0040' => 'nta', 'Nitab4.5_0000667g0190' => 'nta', 'Nitab4.5_0000755g0160' => 'nta', 'Nitab4.5_0001216g0080' => 'nta', 'Nitab4.5_0004069g0040' => 'nta', 'Nitab4.5_0004129g0010' => 'nta', 'Nitab4.5_0005744g0030' => 'nta', 'Nitab4.5_0006996g0030' => 'nta', 'Nitab4.5_0008971g0040' => 'nta', 'Nitab4.5_0009769g0020' => 'nta', 'Nitab4.5_0009833g0010' => 'nta', 'Nitab4.5_0013140g0020' => 'nta', 'Nn003s41376' => 'nnu', 'Nn1g01857' => 'nnu', 'Nn1g03611' => 'nnu', 'Nn1g06853' => 'nnu', 'Nn3g18360' => 'nnu', 'Nn4g26328' => 'nnu', 'Nn5g27531' => 'nnu', 'Nn6g34899' => 'nnu', 'Nn7g36299' => 'nnu', 'Oeu021485.1' => 'oeu', 'Oeu022433.1' => 'oeu', 'Oeu032111.1' => 'oeu', 'Oeu051608.1' => 'oeu', 'Os01g0860601' => 'osa', 'Os03g0659200' => 'osa', 'Os03g0835900' => 'osa', 'Os04g0412200' => 'osa', 'Os05g0443500' => 'osa', 'Os07g0251500' => 'osa', 'Os08g0104600' => 'osa', 'Peaxi162Scf00003g00047' => 'pax', 'Peaxi162Scf00003g00052' => 'pax', 'Peaxi162Scf00003g00394' => 'pax', 'Peaxi162Scf00091g00621' => 'pax', 'Peaxi162Scf00152g00146' => 'pax', 'Peaxi162Scf00173g00025' => 'pax', 'Peaxi162Scf00195g00102' => 'pax', 'Peaxi162Scf00402g00013' => 'pax', 'Peaxi162Scf00519g00618' => 'pax', 'PGR004G2838' => 'pgr', 'PGR044G2275' => 'pgr', 'PGR102G1377' => 'pgr', 'PGR119G1245' => 'pgr', 'PGR142G4449' => 'pgr', 'PGSC0003DMG400004532' => 'stu', 'PGSC0003DMG400011950' => 'stu', 'PGSC0003DMG400023391' => 'stu', 'PGSC0003DMG400023985' => 'stu', 'PGSC0003DMG400026360' => 'stu', 'PGSC0003DMG400035711' => 'stu', 'PGSC0003DMG400037286' => 'stu', 'PGSC0003DMG402005881' => 'stu', 'Phvul.002G045400' => 'pvu', 'Phvul.006G216600' => 'pvu', 'Phvul.006G216700' => 'pvu', 'Phvul.006G216800' => 'pvu', 'Phvul.007G022500' => 'pvu', 'Phvul.011G094400' => 'pvu', 'Potri.001G470700' => 'ptr', 'Potri.003G015200' => 'ptr', 'Potri.004G202500' => 'ptr', 'Potri.004G218400' => 'ptr', 'Potri.008G020100' => 'ptr', 'Potri.008G153200' => 'ptr', 'Potri.009G163800' => 'ptr', 'Potri.010G087300' => 'ptr', 'Potri.010G239100' => 'ptr', 'Pp3c10_16100' => 'ppa', 'Pp3c10_16880' => 'ppa', 'Pp3c16_6230' => 'ppa', 'Pp3c17_18910' => 'ppa', 'Pp3c3_22119' => 'ppa', 'Pp3c3_22140' => 'ppa', 'Pp3c4_8159' => 'ppa', 'Pp3c4_8171' => 'ppa', 'Pp3c4_8330' => 'ppa', 'PRCOL_00004098' => 'pco', 'Prupe.1G013900' => 'ppe', 'Prupe.1G226300' => 'ppe', 'Prupe.1G573600' => 'ppe', 'Prupe.6G130100' => 'ppe', 'Psat3g090040' => 'psa', 'Psat4g210440' => 'psa', 'Psat6g231040' => 'psa', 'Psat6g231080' => 'psa', 'Psat7g063000' => 'psa', 'Psat7g188000' => 'psa', 'Psat7g188040' => 'psa', 'PSO017G0206' => 'pso', 'PSO170G0501' => 'pso', 'PSO170G6422' => 'pso', 'PSO210G7739' => 'pso', 'PSO339G1808' => 'pso', 'PSO339G6135' => 'pso', 'PSO384G0010' => 'pso', 'PSO384G0964' => 'pso', 'PSO761G0050' => 'pso', 'PSO782G4085' => 'pso', 'QL01p012264' => 'qlo', 'QL02p099491' => 'qlo', 'QL03p033868' => 'qlo', 'QL04p046678' => 'qlo', 'QL06p002448' => 'qlo', 'RcHm_v2.0_Chr4g0416181' => 'rch', 'RcHm_v2.0_Chr5g0044701' => 'rch', 'RcHm_v2.0_Chr6g0265781' => 'rch', 'RcHm_v2.0_Chr7g0221031' => 'rch', 'Rhsim04G0202000' => 'rsi', 'Rhsim11G0127300' => 'rsi', 'Rhsim13G0111800' => 'rsi', 'Sabra01G0165600' => 'sbr', 'Sabra03G0008300' => 'sbr', 'Sabra04G0136900' => 'sbr', 'Sabra08G0013400' => 'sbr', 'Sabra08G0116800' => 'sbr', 'Sabra09G0128000' => 'sbr', 'Sabra10G0055500' => 'sbr', 'Sabra10G0073300' => 'sbr', 'SalBow3G0385' => 'sbo', 'SalBow3G1119' => 'sbo', 'SalBow3G2005' => 'sbo', 'SalBow6G2563' => 'sbo', 'SalBow6G6386' => 'sbo', 'Sc06g0008800' => 'sci', 'Sc07g0004950' => 'sci', 'Sc09g0005340' => 'sci', 'Sc13g0004410' => 'sci', 'Sc21g0007090' => 'sci', 'Sed0009285' => 'sed', 'Sed0017583' => 'sed', 'Sed0019699' => 'sed', 'Sed0023107' => 'sed', 'SEGI_10916' => 'sgi', 'SEGI_16217' => 'sgi', 'SEGI_19466' => 'sgi', 'SEGI_41115' => 'sgi', 'SGA_v2.0_scaffold111G31534' => 'sas', 'SGA_v2.0_scaffold22G09864' => 'sas', 'SGA_v2.0_scaffold338G49219' => 'sas', 'SGA_v2.0_scaffold92G28298' => 'sas', 'SMO119G0064' => 'smo', 'SMO223G0038' => 'smo', 'SMO347G0584' => 'smo', 'SMO351G0010' => 'smo', 'SMO356G0404' => 'smo', 'Solyc01g103920.3' => 'sly', 'Solyc04g009710.2' => 'sly', 'Solyc05g055280.2' => 'sly', 'Solyc10g044520.3' => 'sly', 'Solyc10g075160.1' => 'sly', 'Solyc11g006910.3' => 'sly', 'Solyc11g068430.3' => 'sly', 'Sopen01g046310' => 'spe', 'Sopen03g001200' => 'spe', 'Sopen04g004830' => 'spe', 'Sopen05g033720' => 'spe', 'Sopen06g030740' => 'spe', 'Sopen10g013090' => 'spe', 'Sopen10g027630' => 'spe', 'Sopen10g027640' => 'spe', 'Sopen11g002820' => 'spe', 'Sopen11g027140' => 'spe', 'Sp1g09680' => 'spa', 'Sp2g03630' => 'spa', 'Sp4g10320' => 'spa', 'Sp6g33400' => 'spa', 'Sp7g13030' => 'spa', 'TAR365G0317' => 'tar', 'TAR376G0979' => 'tar', 'TAR623G1665' => 'tar', 'TAR633G2373' => 'tar', 'TAR636G1400' => 'tar', 'THA.LOC104800529' => 'tha', 'THA.LOC104808547' => 'tha', 'THA.LOC104809615' => 'tha', 'THA.LOC104815724' => 'tha', 'THA.LOC104818480' => 'tha', 'THA.LOC104819179' => 'tha', 'THA.LOC104822270' => 'tha', 'THA.LOC104826425' => 'tha', 'Thecc.02G089700' => 'tca', 'Thecc.04G232300' => 'tca', 'Thecc.09G283400' => 'tca', 'Thhalv10009020m.g' => 'esa', 'Thhalv10015506m.g' => 'esa', 'Thhalv10017364m.g' => 'esa', 'Thhalv10023742m.g' => 'esa', 'Thhalv10026483m.g' => 'esa', 'TPR.G17232' => 'tpr', 'TPR.G2133' => 'tpr', 'TPR.G2498' => 'tpr', 'TPR.G31942' => 'tpr', 'TPR.G37877' => 'tpr', 'TPR.G4571' => 'tpr', 'TWI14G1113' => 'twi', 'TWI15G0426' => 'twi', 'TWI31G1005' => 'twi', 'TWI38G0513' => 'twi', 'TWI38G1484' => 'twi', 'TWI73G1098' => 'twi', 'unitig_26.g10519' => 'ugi', 'unitig_736.g22395' => 'ugi', 'unitig_747.g21234' => 'ugi', 'unitig_747.g21942' => 'ugi', 'vmacro14351' => 'vma', 'VMungo0540G0082' => 'vmu', 'VMungo0540G0405' => 'vmu', 'VMungo0540G1486' => 'vmu', 'VMungo0540G1692' => 'vmu', 'VMungo0720G2473' => 'vmu', 'VMungo1127G1562' => 'vmu', 'VMungo1215G1918' => 'vmu', 'Zm00001eb052650' => 'zma', 'Zm00001eb063710' => 'zma', 'Zm00001eb083950' => 'zma', 'Zm00001eb174420' => 'zma', 'Zm00001eb260140' => 'zma', 'Zm00001eb260150' => 'zma', 'Zm00001eb260160' => 'zma', 'Zm00001eb348290' => 'zma', 'Zm00001eb366870' => 'zma', 'Zm00001eb421930' => 'zma' ), 'gf_id' => 'HOM05D001025', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001025' ), 'data_identifier' => 'HOM05D001025', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001025', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '592', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p22650' => 'bna', 'A01p29720' => 'bna', 'A03p26560' => 'bna', 'A03p68820' => 'bna', 'A04p20980' => 'bna', 'A06p07730' => 'bna', 'A07p18260' => 'bna', 'A08p33710' => 'bna', 'A09p16970' => 'bna', 'A10p27490' => 'bna', 'Aa31LG1G17300' => 'aar', 'Aa31LG1G3910' => 'aar', 'Aa31LG2G9630' => 'aar', 'Aa31LG5G8360' => 'aar', 'Aa31LG9G2410' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4699' => 'aag', 'Actinidia23512' => 'ach', 'Actinidia37080' => 'ach', 'Ah.01g020380' => 'amhyb', 'Ah.08g215710' => 'amhyb', 'Ah.09g225110' => 'amhyb', 'Ah.10g036680' => 'amhyb', 'AL1G21940' => 'aly', 'AL2G15540' => 'aly', 'AL4G21520' => 'aly', 'AL7G40960' => 'aly', 'Aqoxy2G01191' => 'aox', 'Aqoxy2G03393' => 'aox', 'Aqoxy4G02775' => 'aox', 'Aqoxy6G00058' => 'aox', 'arahy.Tifrunner.gnm1.ann1.9X74H2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CW3FX9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R485W7' => 'arhy', 'AT1G10960' => 'ath', 'AT1G60950' => 'ath', 'AT2G27510' => 'ath', 'AT4G14890' => 'ath', 'AT5G10000' => 'ath', 'ATR0665G624' => 'atr', 'ATR0697G138' => 'atr', 'ATR0776G046' => 'atr', 'ATR1134G135' => 'atr', 'Atru.chr12.1025' => 'acertr', 'Atru.chr3.3241' => 'acertr', 'Atru.chr4.2460' => 'acertr', 'AUR62007427' => 'cqu', 'AUR62010960' => 'cqu', 'AUR62012201' => 'cqu', 'AUR62021470' => 'cqu', 'AUR62022834' => 'cqu', 'AUR62033635' => 'cqu', 'AUR62036186' => 'cqu', 'BcaB01g03077' => 'bca', 'BcaB02g10093' => 'bca', 'BcaB04g20295' => 'bca', 'BcaB06g28147' => 'bca', 'BcaB07g31253' => 'bca', 'BcaC01g04946' => 'bca', 'BcaC02g10614' => 'bca', 'BcaC02g10885' => 'bca', 'BcaC04g19356' => 'bca', 'BcaC04g22297' => 'bca', 'BcaC05g24977' => 'bca', 'BcaC06g31823' => 'bca', 'BcaC07g38633' => 'bca', 'BcaC09g49353' => 'bca', 'BcaC09g50168' => 'bca', 'BcaNung00322' => 'bca', 'BcaNung04769' => 'bca', 'BolC1t02753H' => 'bol', 'BolC1t03721H' => 'bol', 'BolC3t15525H' => 'bol', 'BolC4t23903H' => 'bol', 'BolC4t24231H' => 'bol', 'BolC4t27209H' => 'bol', 'BolC5t29671H' => 'bol', 'BolC8t49044H' => 'bol', 'BolC9t54999H' => 'bol', 'BolC9t59517H' => 'bol', 'BraA01t02178Z' => 'bra', 'BraA01t03099Z' => 'bra', 'BraA03t11867Z' => 'bra', 'BraA04t17667Z' => 'bra', 'BraA07t29542Z' => 'bra', 'BraA08t35287Z' => 'bra', 'BraA09t37334Z' => 'bra', 'BraA10t44801Z' => 'bra', 'BraSC39t46181Z' => 'bra', 'C01p28240' => 'bna', 'C01p37530' => 'bna', 'C03p31820' => 'bna', 'C04p24080' => 'bna', 'C04p25790' => 'bna', 'C04p56770' => 'bna', 'C05p09310' => 'bna', 'C09p21010' => 'bna', 'C09p67560' => 'bna', 'CAN.G1324.7' => 'can', 'CAN.G1358.10' => 'can', 'CAN.G1550.2' => 'can', 'CAN.G186.56' => 'can', 'CAN.G1965.1' => 'can', 'CAN.G645.15' => 'can', 'CAN.G798.26' => 'can', 'CAN.G798.27' => 'can', 'CAN.G798.29' => 'can', 'CAN.G919.31' => 'can', 'CANSAT11G0133' => 'cansat', 'CANSAT11G1171' => 'cansat', 'CANSAT11G2056' => 'cansat', 'CANSAT56G1202' => 'cansat', 'CANSAT56G1514' => 'cansat', 'CANSAT78G0455' => 'cansat', 'CARHR011190' => 'chi', 'CARHR051980' => 'chi', 'CARHR120170' => 'chi', 'CARHR203310' => 'chi', 'CARHR221490' => 'chi', 'Carub.0001s1054' => 'cru', 'Carub.0002s0431' => 'cru', 'Carub.0004s0818' => 'cru', 'Carub.0006s0846' => 'cru', 'Carub.0007s2722' => 'cru', 'Ca_00058_v3' => 'car', 'Ca_17831_v3' => 'car', 'Ca_19408_v3' => 'car', 'Ca_24397_v3' => 'car', 'Ca_25664_v3' => 'car', 'CBR_g21818' => 'cbr', 'CBR_g31195' => 'cbr', 'CBR_g32282' => 'cbr', 'CBR_g39599' => 'cbr', 'CBR_g49410' => 'cbr', 'Cc01_g09120' => 'ccan', 'Cc01_g09130' => 'ccan', 'Cc02_g09630' => 'ccan', 'Cc02_g22810' => 'ccan', 'Cc03_g03810' => 'ccan', 'CDE02G3718' => 'cde', 'CDE04G3183' => 'cde', 'CDE07G1046' => 'cde', 'CDE08G0480' => 'cde', 'Cfa005493' => 'cfa', 'Cfa010312' => 'cfa', 'Cfa015648' => 'cfa', 'Ciclev10002793m.g' => 'ccl', 'Ciclev10003356m.g' => 'ccl', 'Ciclev10006141m.g' => 'ccl', 'Ciclev10016676m.g' => 'ccl', 'Ciclev10017081m.g' => 'ccl', 'Ciclev10029499m.g' => 'ccl', 'CiPaw.01G166300' => 'cil', 'CiPaw.06G145600' => 'cil', 'CiPaw.13G040100' => 'cil', 'CiPaw.13G135800' => 'cil', 'ClCG01G012230' => 'cla', 'ClCG05G009510' => 'cla', 'ClCG08G008270' => 'cla', 'COL.COLO4_11763' => 'col', 'COL.COLO4_19876' => 'col', 'COL.COLO4_21481' => 'col', 'Cpa.g.sc118.34' => 'cpa', 'Cpa.g.sc32.13' => 'cpa', 'Cpa.g.sc58.103' => 'cpa', 'Cre03.g183850' => 'cre', 'Cre06.g306350' => 'cre', 'Cre07.g334800' => 'cre', 'Cre12.g487900' => 'cre', 'Cre14.g626700' => 'cre', 'Cre16.g658400' => 'cre', 'Cre17.g700950' => 'cre', 'CsaV3_1G014830' => 'csa', 'CsaV3_3G013320' => 'csa', 'CsaV3_3G019210' => 'csa', 'CsaV3_3G019220' => 'csa', 'CsaV3_6G004230' => 'csa', 'CSS0003773' => 'camsi', 'CSS0004563' => 'camsi', 'CSS0013949' => 'camsi', 'CSS0025971' => 'camsi', 'CSS0028570' => 'camsi', 'CSS0033127' => 'camsi', 'CSS0036051' => 'camsi', 'CSS0040087' => 'camsi', 'CSS0043179' => 'camsi', 'DCAR_006161' => 'dca', 'DCAR_010351' => 'dca', 'DCAR_012197' => 'dca', 'DCAR_024162' => 'dca', 'Dinv01030' => 'din', 'Dinv10924' => 'din', 'Dinv11835' => 'din', 'Dinv22841' => 'din', 'Dinv42553' => 'din', 'Duzib052G0560' => 'dzi', 'Duzib132G0389' => 'dzi', 'Duzib150G1181' => 'dzi', 'Duzib168G0623' => 'dzi', 'Duzib170G1036' => 'dzi', 'Duzib212G0200' => 'dzi', 'Duzib248G0194' => 'dzi', 'ECA232G2193' => 'eca', 'ECA233G0302' => 'eca', 'ECA234G2813' => 'eca', 'ECA234G4866' => 'eca', 'ECA240G3932' => 'eca', 'ECA248G0385' => 'eca', 'EL10Ac2g04781' => 'bvu', 'EL10Ac3g06445' => 'bvu', 'EL10Ac7g15825' => 'bvu', 'EL10Ac8g18550' => 'bvu', 'Eucgr.B03849' => 'egr', 'Eucgr.I02744' => 'egr', 'Eucgr.J00264' => 'egr', 'Eucgr.J00493' => 'egr', 'FAN04G2181' => 'fan', 'FAN07G2666' => 'fan', 'FAN11G0024' => 'fan', 'FAN12G1105' => 'fan', 'FAN13G0302' => 'fan', 'FAN15G2781' => 'fan', 'FAN16G1274' => 'fan', 'FAN17G2988' => 'fan', 'FAN18G2621' => 'fan', 'FAN21G0013' => 'fan', 'FAN22G1211' => 'fan', 'FAN25G3626' => 'fan', 'FvH4_2g09491' => 'fve', 'FvH4_3g24910' => 'fve', 'FvH4_4g15630' => 'fve', 'FvH4_5g28820' => 'fve', 'Glyma.01G238000' => 'gma', 'Glyma.05G168400' => 'gma', 'Glyma.08G126800' => 'gma', 'Glyma.08G188500' => 'gma', 'Glyma.10G278900' => 'gma', 'Glyma.11G005700' => 'gma', 'Glyma.11G183300' => 'gma', 'Glyma.12G089200' => 'gma', 'Glyma.12G169400' => 'gma', 'Glyma.12G169500' => 'gma', 'Glyma.12G169600' => 'gma', 'Glyma.20G110800' => 'gma', 'Gohir.A03G192900' => 'ghi', 'Gohir.A03G193000' => 'ghi', 'Gohir.A05G080700' => 'ghi', 'Gohir.A09G216000' => 'ghi', 'Gohir.A12G027700' => 'ghi', 'Gohir.A13G036200' => 'ghi', 'Gohir.A13G222600' => 'ghi', 'Gohir.D02G213900' => 'ghi', 'Gohir.D02G214000' => 'ghi', 'Gohir.D05G083700' => 'ghi', 'Gohir.D05G083800' => 'ghi', 'Gohir.D05G083850' => 'ghi', 'Gohir.D08G015400' => 'ghi', 'Gohir.D09G218400' => 'ghi', 'Gohir.D12G027100' => 'ghi', 'Gohir.D13G034500' => 'ghi', 'Gohir.D13G227400' => 'ghi', 'Gorai.005G241800' => 'gra', 'Gorai.005G241900' => 'gra', 'Gorai.006G239400' => 'gra', 'Gorai.008G027600' => 'gra', 'Gorai.009G085400' => 'gra', 'Gorai.009G085500' => 'gra', 'Gorai.013G039000' => 'gra', 'Gorai.013G194800' => 'gra', 'Gorai.013G257900' => 'gra', 'GSVIVG01000982001' => 'vvi', 'GSVIVG01017981001' => 'vvi', 'HanXRQChr01g0024061' => 'han', 'HanXRQChr09g0247831' => 'han', 'HanXRQChr10g0294611' => 'han', 'HanXRQChr10g0294621' => 'han', 'HanXRQChr11g0346821' => 'han', 'HanXRQChr13g0397461' => 'han', 'HanXRQChr16g0513651' => 'han', 'HanXRQChr16g0513701' => 'han', 'Haze_00897' => 'cav', 'Haze_01745' => 'cav', 'Haze_02486' => 'cav', 'Haze_02487' => 'cav', 'Haze_23374' => 'cav', 'Hma1.2p1_0578F.1_g182520' => 'hma', 'Hma1.2p1_0602F.1_g187350' => 'hma', 'Hma1.2p1_0602F.1_g187360' => 'hma', 'Hma1.2p1_0874F.1_g231320' => 'hma', 'Hma1.2p1_1197F.1_g266210' => 'hma', 'Hma1.2p1_1197F.1_g266220' => 'hma', 'Hma1.2p1_2167F.1_g315895' => 'hma', 'Hma1.2p1_2190F.1_g316640' => 'hma', 'Hma1.2p1_3645F.1_g337153' => 'hma', 'HPP92_004907' => 'vpl', 'HPP92_012134' => 'vpl', 'HPP92_025136' => 'vpl', 'HPP92_026087' => 'vpl', 'Hund06782' => 'sun', 'Hund06784' => 'sun', 'Lalb_Chr01g0004861' => 'lal', 'Lalb_Chr02g0140591' => 'lal', 'Lalb_Chr02g0140611' => 'lal', 'Lalb_Chr03g0028101' => 'lal', 'Lalb_Chr07g0185791' => 'lal', 'Lalb_Chr12g0204491' => 'lal', 'Lalb_Chr13g0295671' => 'lal', 'Lalb_Chr19g0136461' => 'lal', 'Lalb_Chr21g0309191' => 'lal', 'Lj1g0028158' => 'lja', 'Lj1P236T38' => 'lonja', 'Lj2C32G2' => 'lonja', 'Lj2P944T8' => 'lonja', 'Lj2P963T15' => 'lonja', 'Lj3g0011788' => 'lja', 'Lj4g0025027' => 'lja', 'Lj5P255T36' => 'lonja', 'Lj6g0018866' => 'lja', 'Lj6P608T31' => 'lonja', 'LjContig00408g0008879' => 'lja', 'Lsat_1_v5_gn_5_105820' => 'lsa', 'Lsat_1_v5_gn_6_38800' => 'lsa', 'Lsat_1_v5_gn_7_67141' => 'lsa', 'Manes.04G003400' => 'mes', 'Manes.07G020000' => 'mes', 'Manes.07G020100' => 'mes', 'Manes.07G020150' => 'mes', 'Manes.10G061500' => 'mes', 'Manes.10G123200' => 'mes', 'Manes.11G161900' => 'mes', 'Manes.15G029300' => 'mes', 'Mapoly0071s0018' => 'mpo', 'Mapoly0082s0023' => 'mpo', 'Mapoly3477s0001' => 'mpo', 'MBI05_g31233_MAGBIO' => 'mbi', 'MBI09_g05946_MAGBIO' => 'mbi', 'MBI09_g05947_MAGBIO' => 'mbi', 'MBI17_g08346_MAGBIO' => 'mbi', 'MCO04G038' => 'mco', 'MCO09G370' => 'mco', 'MCO13G605' => 'mco', 'MD00G1075500' => 'mdo', 'MD03G1144300' => 'mdo', 'MD08G1236800' => 'mdo', 'MD13G1193300' => 'mdo', 'MD15G1428700' => 'mdo', 'Medtr1g112030' => 'mtr', 'Medtr1g112050' => 'mtr', 'Medtr2g006290' => 'mtr', 'Medtr2g086510' => 'mtr', 'Medtr4g053120' => 'mtr', 'Medtr5g006320' => 'mtr', 'Medtr8g088720' => 'mtr', 'MELO3C004712.2' => 'cme', 'MELO3C006533.2' => 'cme', 'MELO3C019438.2' => 'cme', 'MELO3C019440.2' => 'cme', 'MELO3C019441.2' => 'cme', 'MELO3C019895.2' => 'cme', 'Migut.B00811' => 'egut', 'Migut.D02447' => 'egut', 'Migut.F00875' => 'egut', 'Migut.N00186' => 'egut', 'Migut.N01051' => 'egut', 'Migut.N02491' => 'egut', 'Migut.O00784' => 'egut', 'MSTRG.12367' => 'ama', 'MSTRG.18756' => 'ama', 'MSTRG.21042' => 'ama', 'Nitab4.5_0000559g0040' => 'nta', 'Nitab4.5_0000667g0190' => 'nta', 'Nitab4.5_0000755g0160' => 'nta', 'Nitab4.5_0001216g0080' => 'nta', 'Nitab4.5_0004069g0040' => 'nta', 'Nitab4.5_0004129g0010' => 'nta', 'Nitab4.5_0005744g0030' => 'nta', 'Nitab4.5_0006996g0030' => 'nta', 'Nitab4.5_0008971g0040' => 'nta', 'Nitab4.5_0009769g0020' => 'nta', 'Nitab4.5_0009833g0010' => 'nta', 'Nitab4.5_0013140g0020' => 'nta', 'Nn003s41376' => 'nnu', 'Nn1g01857' => 'nnu', 'Nn1g03611' => 'nnu', 'Nn1g06853' => 'nnu', 'Nn3g18360' => 'nnu', 'Nn4g26328' => 'nnu', 'Nn5g27531' => 'nnu', 'Nn6g34899' => 'nnu', 'Nn7g36299' => 'nnu', 'Oeu021485.1' => 'oeu', 'Oeu022433.1' => 'oeu', 'Oeu032111.1' => 'oeu', 'Oeu051608.1' => 'oeu', 'Os01g0860601' => 'osa', 'Os03g0659200' => 'osa', 'Os03g0835900' => 'osa', 'Os04g0412200' => 'osa', 'Os05g0443500' => 'osa', 'Os07g0251500' => 'osa', 'Os08g0104600' => 'osa', 'Peaxi162Scf00003g00047' => 'pax', 'Peaxi162Scf00003g00052' => 'pax', 'Peaxi162Scf00003g00394' => 'pax', 'Peaxi162Scf00091g00621' => 'pax', 'Peaxi162Scf00152g00146' => 'pax', 'Peaxi162Scf00173g00025' => 'pax', 'Peaxi162Scf00195g00102' => 'pax', 'Peaxi162Scf00402g00013' => 'pax', 'Peaxi162Scf00519g00618' => 'pax', 'PGR004G2838' => 'pgr', 'PGR044G2275' => 'pgr', 'PGR102G1377' => 'pgr', 'PGR119G1245' => 'pgr', 'PGR142G4449' => 'pgr', 'PGSC0003DMG400004532' => 'stu', 'PGSC0003DMG400011950' => 'stu', 'PGSC0003DMG400023391' => 'stu', 'PGSC0003DMG400023985' => 'stu', 'PGSC0003DMG400026360' => 'stu', 'PGSC0003DMG400035711' => 'stu', 'PGSC0003DMG400037286' => 'stu', 'PGSC0003DMG402005881' => 'stu', 'Phvul.002G045400' => 'pvu', 'Phvul.006G216600' => 'pvu', 'Phvul.006G216700' => 'pvu', 'Phvul.006G216800' => 'pvu', 'Phvul.007G022500' => 'pvu', 'Phvul.011G094400' => 'pvu', 'Potri.001G470700' => 'ptr', 'Potri.003G015200' => 'ptr', 'Potri.004G202500' => 'ptr', 'Potri.004G218400' => 'ptr', 'Potri.008G020100' => 'ptr', 'Potri.008G153200' => 'ptr', 'Potri.009G163800' => 'ptr', 'Potri.010G087300' => 'ptr', 'Potri.010G239100' => 'ptr', 'Pp3c10_16100' => 'ppa', 'Pp3c10_16880' => 'ppa', 'Pp3c16_6230' => 'ppa', 'Pp3c17_18910' => 'ppa', 'Pp3c3_22119' => 'ppa', 'Pp3c3_22140' => 'ppa', 'Pp3c4_8159' => 'ppa', 'Pp3c4_8171' => 'ppa', 'Pp3c4_8330' => 'ppa', 'PRCOL_00004098' => 'pco', 'Prupe.1G013900' => 'ppe', 'Prupe.1G226300' => 'ppe', 'Prupe.1G573600' => 'ppe', 'Prupe.6G130100' => 'ppe', 'Psat3g090040' => 'psa', 'Psat4g210440' => 'psa', 'Psat6g231040' => 'psa', 'Psat6g231080' => 'psa', 'Psat7g063000' => 'psa', 'Psat7g188000' => 'psa', 'Psat7g188040' => 'psa', 'PSO017G0206' => 'pso', 'PSO170G0501' => 'pso', 'PSO170G6422' => 'pso', 'PSO210G7739' => 'pso', 'PSO339G1808' => 'pso', 'PSO339G6135' => 'pso', 'PSO384G0010' => 'pso', 'PSO384G0964' => 'pso', 'PSO761G0050' => 'pso', 'PSO782G4085' => 'pso', 'QL01p012264' => 'qlo', 'QL02p099491' => 'qlo', 'QL03p033868' => 'qlo', 'QL04p046678' => 'qlo', 'QL06p002448' => 'qlo', 'RcHm_v2.0_Chr4g0416181' => 'rch', 'RcHm_v2.0_Chr5g0044701' => 'rch', 'RcHm_v2.0_Chr6g0265781' => 'rch', 'RcHm_v2.0_Chr7g0221031' => 'rch', 'Rhsim04G0202000' => 'rsi', 'Rhsim11G0127300' => 'rsi', 'Rhsim13G0111800' => 'rsi', 'Sabra01G0165600' => 'sbr', 'Sabra03G0008300' => 'sbr', 'Sabra04G0136900' => 'sbr', 'Sabra08G0013400' => 'sbr', 'Sabra08G0116800' => 'sbr', 'Sabra09G0128000' => 'sbr', 'Sabra10G0055500' => 'sbr', 'Sabra10G0073300' => 'sbr', 'SalBow3G0385' => 'sbo', 'SalBow3G1119' => 'sbo', 'SalBow3G2005' => 'sbo', 'SalBow6G2563' => 'sbo', 'SalBow6G6386' => 'sbo', 'Sc06g0008800' => 'sci', 'Sc07g0004950' => 'sci', 'Sc09g0005340' => 'sci', 'Sc13g0004410' => 'sci', 'Sc21g0007090' => 'sci', 'Sed0009285' => 'sed', 'Sed0017583' => 'sed', 'Sed0019699' => 'sed', 'Sed0023107' => 'sed', 'SEGI_10916' => 'sgi', 'SEGI_16217' => 'sgi', 'SEGI_19466' => 'sgi', 'SEGI_41115' => 'sgi', 'SGA_v2.0_scaffold111G31534' => 'sas', 'SGA_v2.0_scaffold22G09864' => 'sas', 'SGA_v2.0_scaffold338G49219' => 'sas', 'SGA_v2.0_scaffold92G28298' => 'sas', 'SMO119G0064' => 'smo', 'SMO223G0038' => 'smo', 'SMO347G0584' => 'smo', 'SMO351G0010' => 'smo', 'SMO356G0404' => 'smo', 'Solyc01g103920.3' => 'sly', 'Solyc04g009710.2' => 'sly', 'Solyc05g055280.2' => 'sly', 'Solyc10g044520.3' => 'sly', 'Solyc10g075160.1' => 'sly', 'Solyc11g006910.3' => 'sly', 'Solyc11g068430.3' => 'sly', 'Sopen01g046310' => 'spe', 'Sopen03g001200' => 'spe', 'Sopen04g004830' => 'spe', 'Sopen05g033720' => 'spe', 'Sopen06g030740' => 'spe', 'Sopen10g013090' => 'spe', 'Sopen10g027630' => 'spe', 'Sopen10g027640' => 'spe', 'Sopen11g002820' => 'spe', 'Sopen11g027140' => 'spe', 'Sp1g09680' => 'spa', 'Sp2g03630' => 'spa', 'Sp4g10320' => 'spa', 'Sp6g33400' => 'spa', 'Sp7g13030' => 'spa', 'TAR365G0317' => 'tar', 'TAR376G0979' => 'tar', 'TAR623G1665' => 'tar', 'TAR633G2373' => 'tar', 'TAR636G1400' => 'tar', 'THA.LOC104800529' => 'tha', 'THA.LOC104808547' => 'tha', 'THA.LOC104809615' => 'tha', 'THA.LOC104815724' => 'tha', 'THA.LOC104818480' => 'tha', 'THA.LOC104819179' => 'tha', 'THA.LOC104822270' => 'tha', 'THA.LOC104826425' => 'tha', 'Thecc.02G089700' => 'tca', 'Thecc.04G232300' => 'tca', 'Thecc.09G283400' => 'tca', 'Thhalv10009020m.g' => 'esa', 'Thhalv10015506m.g' => 'esa', 'Thhalv10017364m.g' => 'esa', 'Thhalv10023742m.g' => 'esa', 'Thhalv10026483m.g' => 'esa', 'TPR.G17232' => 'tpr', 'TPR.G2133' => 'tpr', 'TPR.G2498' => 'tpr', 'TPR.G31942' => 'tpr', 'TPR.G37877' => 'tpr', 'TPR.G4571' => 'tpr', 'TWI14G1113' => 'twi', 'TWI15G0426' => 'twi', 'TWI31G1005' => 'twi', 'TWI38G0513' => 'twi', 'TWI38G1484' => 'twi', 'TWI73G1098' => 'twi', 'unitig_26.g10519' => 'ugi', 'unitig_736.g22395' => 'ugi', 'unitig_747.g21234' => 'ugi', 'unitig_747.g21942' => 'ugi', 'vmacro14351' => 'vma', 'VMungo0540G0082' => 'vmu', 'VMungo0540G0405' => 'vmu', 'VMungo0540G1486' => 'vmu', 'VMungo0540G1692' => 'vmu', 'VMungo0720G2473' => 'vmu', 'VMungo1127G1562' => 'vmu', 'VMungo1215G1918' => 'vmu', 'Zm00001eb052650' => 'zma', 'Zm00001eb063710' => 'zma', 'Zm00001eb083950' => 'zma', 'Zm00001eb174420' => 'zma', 'Zm00001eb260140' => 'zma', 'Zm00001eb260150' => 'zma', 'Zm00001eb260160' => 'zma', 'Zm00001eb348290' => 'zma', 'Zm00001eb366870' => 'zma', 'Zm00001eb421930' => 'zma' ) $gf_id = 'HOM05D001025' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001025' ) $data_identifier = 'HOM05D001025' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 19, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 2, 'amhyb' => (int) 4, 'aly' => (int) 4, 'aox' => (int) 4, 'arhy' => (int) 3, 'ath' => (int) 5, 'atr' => (int) 4, 'acertr' => (int) 3, 'cqu' => (int) 7, 'bca' => (int) 17, 'bol' => (int) 10, 'bra' => (int) 9, 'can' => (int) 10, 'cansat' => (int) 6, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 5, 'cbr' => (int) 5, 'ccan' => (int) 5, 'cde' => (int) 4, 'cfa' => (int) 3, 'ccl' => (int) 6, 'cil' => (int) 4, 'cla' => (int) 3, 'col' => (int) 3, 'cpa' => (int) 3, 'cre' => (int) 7, 'csa' => (int) 5, 'camsi' => (int) 9, 'dca' => (int) 4, 'din' => (int) 5, 'dzi' => (int) 7, 'eca' => (int) 6, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 12, 'fve' => (int) 4, 'gma' => (int) 12, 'ghi' => (int) 17, 'gra' => (int) 9, 'vvi' => (int) 2, 'han' => (int) 8, 'cav' => (int) 5, 'hma' => (int) 9, 'vpl' => (int) 4, 'sun' => (int) 2, 'lal' => (int) 9, 'lja' => (int) 5, 'lonja' => (int) 6, 'lsa' => (int) 3, 'mes' => (int) 8, 'mpo' => (int) 3, 'mbi' => (int) 4, 'mco' => (int) 3, 'mdo' => (int) 5, 'mtr' => (int) 7, 'cme' => (int) 6, 'egut' => (int) 7, 'ama' => (int) 3, 'nta' => (int) 12, 'nnu' => (int) 9, 'oeu' => (int) 4, 'osa' => (int) 7, 'pax' => (int) 9, 'pgr' => (int) 5, 'stu' => (int) 8, 'pvu' => (int) 6, 'ptr' => (int) 9, 'ppa' => (int) 9, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 7, 'pso' => (int) 10, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 3, 'sbr' => (int) 8, 'sbo' => (int) 5, 'sci' => (int) 5, 'sed' => (int) 4, 'sgi' => (int) 4, 'sas' => (int) 4, 'smo' => (int) 5, 'sly' => (int) 7, 'spe' => (int) 10, 'spa' => (int) 5, 'tar' => (int) 5, 'tha' => (int) 8, 'tca' => (int) 3, 'esa' => (int) 5, 'tpr' => (int) 6, 'twi' => (int) 6, 'ugi' => (int) 4, 'vma' => (int) 1, 'vmu' => (int) 7, 'zma' => (int) 10 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb421930' $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' => 'HOM05D001025', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '592', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p22650' => 'bna', 'A01p29720' => 'bna', 'A03p26560' => 'bna', 'A03p68820' => 'bna', 'A04p20980' => 'bna', 'A06p07730' => 'bna', 'A07p18260' => 'bna', 'A08p33710' => 'bna', 'A09p16970' => 'bna', 'A10p27490' => 'bna', 'Aa31LG1G17300' => 'aar', 'Aa31LG1G3910' => 'aar', 'Aa31LG2G9630' => 'aar', 'Aa31LG5G8360' => 'aar', 'Aa31LG9G2410' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4699' => 'aag', 'Actinidia23512' => 'ach', 'Actinidia37080' => 'ach', 'Ah.01g020380' => 'amhyb', 'Ah.08g215710' => 'amhyb', 'Ah.09g225110' => 'amhyb', 'Ah.10g036680' => 'amhyb', 'AL1G21940' => 'aly', 'AL2G15540' => 'aly', 'AL4G21520' => 'aly', 'AL7G40960' => 'aly', 'Aqoxy2G01191' => 'aox', 'Aqoxy2G03393' => 'aox', 'Aqoxy4G02775' => 'aox', 'Aqoxy6G00058' => 'aox', 'arahy.Tifrunner.gnm1.ann1.9X74H2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CW3FX9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R485W7' => 'arhy', 'AT1G10960' => 'ath', 'AT1G60950' => 'ath', 'AT2G27510' => 'ath', 'AT4G14890' => 'ath', 'AT5G10000' => 'ath', 'ATR0665G624' => 'atr', 'ATR0697G138' => 'atr', 'ATR0776G046' => 'atr', 'ATR1134G135' => 'atr', 'Atru.chr12.1025' => 'acertr', 'Atru.chr3.3241' => 'acertr', 'Atru.chr4.2460' => 'acertr', 'AUR62007427' => 'cqu', 'AUR62010960' => 'cqu', 'AUR62012201' => 'cqu', 'AUR62021470' => 'cqu', 'AUR62022834' => 'cqu', 'AUR62033635' => 'cqu', 'AUR62036186' => 'cqu', 'BcaB01g03077' => 'bca', 'BcaB02g10093' => 'bca', 'BcaB04g20295' => 'bca', 'BcaB06g28147' => 'bca', 'BcaB07g31253' => 'bca', 'BcaC01g04946' => 'bca', 'BcaC02g10614' => 'bca', 'BcaC02g10885' => 'bca', 'BcaC04g19356' => 'bca', 'BcaC04g22297' => 'bca', 'BcaC05g24977' => 'bca', 'BcaC06g31823' => 'bca', 'BcaC07g38633' => 'bca', 'BcaC09g49353' => 'bca', 'BcaC09g50168' => 'bca', 'BcaNung00322' => 'bca', 'BcaNung04769' => 'bca', 'BolC1t02753H' => 'bol', 'BolC1t03721H' => 'bol', 'BolC3t15525H' => 'bol', 'BolC4t23903H' => 'bol', 'BolC4t24231H' => 'bol', 'BolC4t27209H' => 'bol', 'BolC5t29671H' => 'bol', 'BolC8t49044H' => 'bol', 'BolC9t54999H' => 'bol', 'BolC9t59517H' => 'bol', 'BraA01t02178Z' => 'bra', 'BraA01t03099Z' => 'bra', 'BraA03t11867Z' => 'bra', 'BraA04t17667Z' => 'bra', 'BraA07t29542Z' => 'bra', 'BraA08t35287Z' => 'bra', 'BraA09t37334Z' => 'bra', 'BraA10t44801Z' => 'bra', 'BraSC39t46181Z' => 'bra', 'C01p28240' => 'bna', 'C01p37530' => 'bna', 'C03p31820' => 'bna', 'C04p24080' => 'bna', 'C04p25790' => 'bna', 'C04p56770' => 'bna', 'C05p09310' => 'bna', 'C09p21010' => 'bna', 'C09p67560' => 'bna', 'CAN.G1324.7' => 'can', 'CAN.G1358.10' => 'can', 'CAN.G1550.2' => 'can', 'CAN.G186.56' => 'can', 'CAN.G1965.1' => 'can', 'CAN.G645.15' => 'can', 'CAN.G798.26' => 'can', 'CAN.G798.27' => 'can', 'CAN.G798.29' => 'can', 'CAN.G919.31' => 'can', 'CANSAT11G0133' => 'cansat', 'CANSAT11G1171' => 'cansat', 'CANSAT11G2056' => 'cansat', 'CANSAT56G1202' => 'cansat', 'CANSAT56G1514' => 'cansat', 'CANSAT78G0455' => 'cansat', 'CARHR011190' => 'chi', 'CARHR051980' => 'chi', 'CARHR120170' => 'chi', 'CARHR203310' => 'chi', 'CARHR221490' => 'chi', 'Carub.0001s1054' => 'cru', 'Carub.0002s0431' => 'cru', 'Carub.0004s0818' => 'cru', 'Carub.0006s0846' => 'cru', 'Carub.0007s2722' => 'cru', 'Ca_00058_v3' => 'car', 'Ca_17831_v3' => 'car', 'Ca_19408_v3' => 'car', 'Ca_24397_v3' => 'car', 'Ca_25664_v3' => 'car', 'CBR_g21818' => 'cbr', 'CBR_g31195' => 'cbr', 'CBR_g32282' => 'cbr', 'CBR_g39599' => 'cbr', 'CBR_g49410' => 'cbr', 'Cc01_g09120' => 'ccan', 'Cc01_g09130' => 'ccan', 'Cc02_g09630' => 'ccan', 'Cc02_g22810' => 'ccan', 'Cc03_g03810' => 'ccan', 'CDE02G3718' => 'cde', 'CDE04G3183' => 'cde', 'CDE07G1046' => 'cde', 'CDE08G0480' => 'cde', 'Cfa005493' => 'cfa', 'Cfa010312' => 'cfa', 'Cfa015648' => 'cfa', 'Ciclev10002793m.g' => 'ccl', 'Ciclev10003356m.g' => 'ccl', 'Ciclev10006141m.g' => 'ccl', 'Ciclev10016676m.g' => 'ccl', 'Ciclev10017081m.g' => 'ccl', 'Ciclev10029499m.g' => 'ccl', 'CiPaw.01G166300' => 'cil', 'CiPaw.06G145600' => 'cil', 'CiPaw.13G040100' => 'cil', 'CiPaw.13G135800' => 'cil', 'ClCG01G012230' => 'cla', 'ClCG05G009510' => 'cla', 'ClCG08G008270' => 'cla', 'COL.COLO4_11763' => 'col', 'COL.COLO4_19876' => 'col', 'COL.COLO4_21481' => 'col', 'Cpa.g.sc118.34' => 'cpa', 'Cpa.g.sc32.13' => 'cpa', 'Cpa.g.sc58.103' => 'cpa', 'Cre03.g183850' => 'cre', 'Cre06.g306350' => 'cre', 'Cre07.g334800' => 'cre', 'Cre12.g487900' => 'cre', 'Cre14.g626700' => 'cre', 'Cre16.g658400' => 'cre', 'Cre17.g700950' => 'cre', 'CsaV3_1G014830' => 'csa', 'CsaV3_3G013320' => 'csa', 'CsaV3_3G019210' => 'csa', 'CsaV3_3G019220' => 'csa', 'CsaV3_6G004230' => 'csa', 'CSS0003773' => 'camsi', 'CSS0004563' => 'camsi', 'CSS0013949' => 'camsi', 'CSS0025971' => 'camsi', 'CSS0028570' => 'camsi', 'CSS0033127' => 'camsi', 'CSS0036051' => 'camsi', 'CSS0040087' => 'camsi', 'CSS0043179' => 'camsi', 'DCAR_006161' => 'dca', 'DCAR_010351' => 'dca', 'DCAR_012197' => 'dca', 'DCAR_024162' => 'dca', 'Dinv01030' => 'din', 'Dinv10924' => 'din', 'Dinv11835' => 'din', 'Dinv22841' => 'din', 'Dinv42553' => 'din', 'Duzib052G0560' => 'dzi', 'Duzib132G0389' => 'dzi', 'Duzib150G1181' => 'dzi', 'Duzib168G0623' => 'dzi', 'Duzib170G1036' => 'dzi', 'Duzib212G0200' => 'dzi', 'Duzib248G0194' => 'dzi', 'ECA232G2193' => 'eca', 'ECA233G0302' => 'eca', 'ECA234G2813' => 'eca', 'ECA234G4866' => 'eca', 'ECA240G3932' => 'eca', 'ECA248G0385' => 'eca', 'EL10Ac2g04781' => 'bvu', 'EL10Ac3g06445' => 'bvu', 'EL10Ac7g15825' => 'bvu', 'EL10Ac8g18550' => 'bvu', 'Eucgr.B03849' => 'egr', 'Eucgr.I02744' => 'egr', 'Eucgr.J00264' => 'egr', 'Eucgr.J00493' => 'egr', 'FAN04G2181' => 'fan', 'FAN07G2666' => 'fan', 'FAN11G0024' => 'fan', 'FAN12G1105' => 'fan', 'FAN13G0302' => 'fan', 'FAN15G2781' => 'fan', 'FAN16G1274' => 'fan', 'FAN17G2988' => 'fan', 'FAN18G2621' => 'fan', 'FAN21G0013' => 'fan', 'FAN22G1211' => 'fan', 'FAN25G3626' => 'fan', 'FvH4_2g09491' => 'fve', 'FvH4_3g24910' => 'fve', 'FvH4_4g15630' => 'fve', 'FvH4_5g28820' => 'fve', 'Glyma.01G238000' => 'gma', 'Glyma.05G168400' => 'gma', 'Glyma.08G126800' => 'gma', 'Glyma.08G188500' => 'gma', 'Glyma.10G278900' => 'gma', 'Glyma.11G005700' => 'gma', 'Glyma.11G183300' => 'gma', 'Glyma.12G089200' => 'gma', 'Glyma.12G169400' => 'gma', 'Glyma.12G169500' => 'gma', 'Glyma.12G169600' => 'gma', 'Glyma.20G110800' => 'gma', 'Gohir.A03G192900' => 'ghi', 'Gohir.A03G193000' => 'ghi', 'Gohir.A05G080700' => 'ghi', 'Gohir.A09G216000' => 'ghi', 'Gohir.A12G027700' => 'ghi', 'Gohir.A13G036200' => 'ghi', 'Gohir.A13G222600' => 'ghi', 'Gohir.D02G213900' => 'ghi', 'Gohir.D02G214000' => 'ghi', 'Gohir.D05G083700' => 'ghi', 'Gohir.D05G083800' => 'ghi', 'Gohir.D05G083850' => 'ghi', 'Gohir.D08G015400' => 'ghi', 'Gohir.D09G218400' => 'ghi', 'Gohir.D12G027100' => 'ghi', 'Gohir.D13G034500' => 'ghi', 'Gohir.D13G227400' => 'ghi', 'Gorai.005G241800' => 'gra', 'Gorai.005G241900' => 'gra', 'Gorai.006G239400' => 'gra', 'Gorai.008G027600' => 'gra', 'Gorai.009G085400' => 'gra', 'Gorai.009G085500' => 'gra', 'Gorai.013G039000' => 'gra', 'Gorai.013G194800' => 'gra', 'Gorai.013G257900' => 'gra', 'GSVIVG01000982001' => 'vvi', 'GSVIVG01017981001' => 'vvi', 'HanXRQChr01g0024061' => 'han', 'HanXRQChr09g0247831' => 'han', 'HanXRQChr10g0294611' => 'han', 'HanXRQChr10g0294621' => 'han', 'HanXRQChr11g0346821' => 'han', 'HanXRQChr13g0397461' => 'han', 'HanXRQChr16g0513651' => 'han', 'HanXRQChr16g0513701' => 'han', 'Haze_00897' => 'cav', 'Haze_01745' => 'cav', 'Haze_02486' => 'cav', 'Haze_02487' => 'cav', 'Haze_23374' => 'cav', 'Hma1.2p1_0578F.1_g182520' => 'hma', 'Hma1.2p1_0602F.1_g187350' => 'hma', 'Hma1.2p1_0602F.1_g187360' => 'hma', 'Hma1.2p1_0874F.1_g231320' => 'hma', 'Hma1.2p1_1197F.1_g266210' => 'hma', 'Hma1.2p1_1197F.1_g266220' => 'hma', 'Hma1.2p1_2167F.1_g315895' => 'hma', 'Hma1.2p1_2190F.1_g316640' => 'hma', 'Hma1.2p1_3645F.1_g337153' => 'hma', 'HPP92_004907' => 'vpl', 'HPP92_012134' => 'vpl', 'HPP92_025136' => 'vpl', 'HPP92_026087' => 'vpl', 'Hund06782' => 'sun', 'Hund06784' => 'sun', 'Lalb_Chr01g0004861' => 'lal', 'Lalb_Chr02g0140591' => 'lal', 'Lalb_Chr02g0140611' => 'lal', 'Lalb_Chr03g0028101' => 'lal', 'Lalb_Chr07g0185791' => 'lal', 'Lalb_Chr12g0204491' => 'lal', 'Lalb_Chr13g0295671' => 'lal', 'Lalb_Chr19g0136461' => 'lal', 'Lalb_Chr21g0309191' => 'lal', 'Lj1g0028158' => 'lja', 'Lj1P236T38' => 'lonja', 'Lj2C32G2' => 'lonja', 'Lj2P944T8' => 'lonja', 'Lj2P963T15' => 'lonja', 'Lj3g0011788' => 'lja', 'Lj4g0025027' => 'lja', 'Lj5P255T36' => 'lonja', 'Lj6g0018866' => 'lja', 'Lj6P608T31' => 'lonja', 'LjContig00408g0008879' => 'lja', 'Lsat_1_v5_gn_5_105820' => 'lsa', 'Lsat_1_v5_gn_6_38800' => 'lsa', 'Lsat_1_v5_gn_7_67141' => 'lsa', 'Manes.04G003400' => 'mes', 'Manes.07G020000' => 'mes', 'Manes.07G020100' => 'mes', 'Manes.07G020150' => 'mes', 'Manes.10G061500' => 'mes', 'Manes.10G123200' => 'mes', 'Manes.11G161900' => 'mes', 'Manes.15G029300' => 'mes', 'Mapoly0071s0018' => 'mpo', 'Mapoly0082s0023' => 'mpo', 'Mapoly3477s0001' => 'mpo', 'MBI05_g31233_MAGBIO' => 'mbi', 'MBI09_g05946_MAGBIO' => 'mbi', 'MBI09_g05947_MAGBIO' => 'mbi', 'MBI17_g08346_MAGBIO' => 'mbi', 'MCO04G038' => 'mco', 'MCO09G370' => 'mco', 'MCO13G605' => 'mco', 'MD00G1075500' => 'mdo', 'MD03G1144300' => 'mdo', 'MD08G1236800' => 'mdo', 'MD13G1193300' => 'mdo', 'MD15G1428700' => 'mdo', 'Medtr1g112030' => 'mtr', 'Medtr1g112050' => 'mtr', 'Medtr2g006290' => 'mtr', 'Medtr2g086510' => 'mtr', 'Medtr4g053120' => 'mtr', 'Medtr5g006320' => 'mtr', 'Medtr8g088720' => 'mtr', 'MELO3C004712.2' => 'cme', 'MELO3C006533.2' => 'cme', 'MELO3C019438.2' => 'cme', 'MELO3C019440.2' => 'cme', 'MELO3C019441.2' => 'cme', 'MELO3C019895.2' => 'cme', 'Migut.B00811' => 'egut', 'Migut.D02447' => 'egut', 'Migut.F00875' => 'egut', 'Migut.N00186' => 'egut', 'Migut.N01051' => 'egut', 'Migut.N02491' => 'egut', 'Migut.O00784' => 'egut', 'MSTRG.12367' => 'ama', 'MSTRG.18756' => 'ama', 'MSTRG.21042' => 'ama', 'Nitab4.5_0000559g0040' => 'nta', 'Nitab4.5_0000667g0190' => 'nta', 'Nitab4.5_0000755g0160' => 'nta', 'Nitab4.5_0001216g0080' => 'nta', 'Nitab4.5_0004069g0040' => 'nta', 'Nitab4.5_0004129g0010' => 'nta', 'Nitab4.5_0005744g0030' => 'nta', 'Nitab4.5_0006996g0030' => 'nta', 'Nitab4.5_0008971g0040' => 'nta', 'Nitab4.5_0009769g0020' => 'nta', 'Nitab4.5_0009833g0010' => 'nta', 'Nitab4.5_0013140g0020' => 'nta', 'Nn003s41376' => 'nnu', 'Nn1g01857' => 'nnu', 'Nn1g03611' => 'nnu', 'Nn1g06853' => 'nnu', 'Nn3g18360' => 'nnu', 'Nn4g26328' => 'nnu', 'Nn5g27531' => 'nnu', 'Nn6g34899' => 'nnu', 'Nn7g36299' => 'nnu', 'Oeu021485.1' => 'oeu', 'Oeu022433.1' => 'oeu', 'Oeu032111.1' => 'oeu', 'Oeu051608.1' => 'oeu', 'Os01g0860601' => 'osa', 'Os03g0659200' => 'osa', 'Os03g0835900' => 'osa', 'Os04g0412200' => 'osa', 'Os05g0443500' => 'osa', 'Os07g0251500' => 'osa', 'Os08g0104600' => 'osa', 'Peaxi162Scf00003g00047' => 'pax', 'Peaxi162Scf00003g00052' => 'pax', 'Peaxi162Scf00003g00394' => 'pax', 'Peaxi162Scf00091g00621' => 'pax', 'Peaxi162Scf00152g00146' => 'pax', 'Peaxi162Scf00173g00025' => 'pax', 'Peaxi162Scf00195g00102' => 'pax', 'Peaxi162Scf00402g00013' => 'pax', 'Peaxi162Scf00519g00618' => 'pax', 'PGR004G2838' => 'pgr', 'PGR044G2275' => 'pgr', 'PGR102G1377' => 'pgr', 'PGR119G1245' => 'pgr', 'PGR142G4449' => 'pgr', 'PGSC0003DMG400004532' => 'stu', 'PGSC0003DMG400011950' => 'stu', 'PGSC0003DMG400023391' => 'stu', 'PGSC0003DMG400023985' => 'stu', 'PGSC0003DMG400026360' => 'stu', 'PGSC0003DMG400035711' => 'stu', 'PGSC0003DMG400037286' => 'stu', 'PGSC0003DMG402005881' => 'stu', 'Phvul.002G045400' => 'pvu', 'Phvul.006G216600' => 'pvu', 'Phvul.006G216700' => 'pvu', 'Phvul.006G216800' => 'pvu', 'Phvul.007G022500' => 'pvu', 'Phvul.011G094400' => 'pvu', 'Potri.001G470700' => 'ptr', 'Potri.003G015200' => 'ptr', 'Potri.004G202500' => 'ptr', 'Potri.004G218400' => 'ptr', 'Potri.008G020100' => 'ptr', 'Potri.008G153200' => 'ptr', 'Potri.009G163800' => 'ptr', 'Potri.010G087300' => 'ptr', 'Potri.010G239100' => 'ptr', 'Pp3c10_16100' => 'ppa', 'Pp3c10_16880' => 'ppa', 'Pp3c16_6230' => 'ppa', 'Pp3c17_18910' => 'ppa', 'Pp3c3_22119' => 'ppa', 'Pp3c3_22140' => 'ppa', 'Pp3c4_8159' => 'ppa', 'Pp3c4_8171' => 'ppa', 'Pp3c4_8330' => 'ppa', 'PRCOL_00004098' => 'pco', 'Prupe.1G013900' => 'ppe', 'Prupe.1G226300' => 'ppe', 'Prupe.1G573600' => 'ppe', 'Prupe.6G130100' => 'ppe', 'Psat3g090040' => 'psa', 'Psat4g210440' => 'psa', 'Psat6g231040' => 'psa', 'Psat6g231080' => 'psa', 'Psat7g063000' => 'psa', 'Psat7g188000' => 'psa', 'Psat7g188040' => 'psa', 'PSO017G0206' => 'pso', 'PSO170G0501' => 'pso', 'PSO170G6422' => 'pso', 'PSO210G7739' => 'pso', 'PSO339G1808' => 'pso', 'PSO339G6135' => 'pso', 'PSO384G0010' => 'pso', 'PSO384G0964' => 'pso', 'PSO761G0050' => 'pso', 'PSO782G4085' => 'pso', 'QL01p012264' => 'qlo', 'QL02p099491' => 'qlo', 'QL03p033868' => 'qlo', 'QL04p046678' => 'qlo', 'QL06p002448' => 'qlo', 'RcHm_v2.0_Chr4g0416181' => 'rch', 'RcHm_v2.0_Chr5g0044701' => 'rch', 'RcHm_v2.0_Chr6g0265781' => 'rch', 'RcHm_v2.0_Chr7g0221031' => 'rch', 'Rhsim04G0202000' => 'rsi', 'Rhsim11G0127300' => 'rsi', 'Rhsim13G0111800' => 'rsi', 'Sabra01G0165600' => 'sbr', 'Sabra03G0008300' => 'sbr', 'Sabra04G0136900' => 'sbr', 'Sabra08G0013400' => 'sbr', 'Sabra08G0116800' => 'sbr', 'Sabra09G0128000' => 'sbr', 'Sabra10G0055500' => 'sbr', 'Sabra10G0073300' => 'sbr', 'SalBow3G0385' => 'sbo', 'SalBow3G1119' => 'sbo', 'SalBow3G2005' => 'sbo', 'SalBow6G2563' => 'sbo', 'SalBow6G6386' => 'sbo', 'Sc06g0008800' => 'sci', 'Sc07g0004950' => 'sci', 'Sc09g0005340' => 'sci', 'Sc13g0004410' => 'sci', 'Sc21g0007090' => 'sci', 'Sed0009285' => 'sed', 'Sed0017583' => 'sed', 'Sed0019699' => 'sed', 'Sed0023107' => 'sed', 'SEGI_10916' => 'sgi', 'SEGI_16217' => 'sgi', 'SEGI_19466' => 'sgi', 'SEGI_41115' => 'sgi', 'SGA_v2.0_scaffold111G31534' => 'sas', 'SGA_v2.0_scaffold22G09864' => 'sas', 'SGA_v2.0_scaffold338G49219' => 'sas', 'SGA_v2.0_scaffold92G28298' => 'sas', 'SMO119G0064' => 'smo', 'SMO223G0038' => 'smo', 'SMO347G0584' => 'smo', 'SMO351G0010' => 'smo', 'SMO356G0404' => 'smo', 'Solyc01g103920.3' => 'sly', 'Solyc04g009710.2' => 'sly', 'Solyc05g055280.2' => 'sly', 'Solyc10g044520.3' => 'sly', 'Solyc10g075160.1' => 'sly', 'Solyc11g006910.3' => 'sly', 'Solyc11g068430.3' => 'sly', 'Sopen01g046310' => 'spe', 'Sopen03g001200' => 'spe', 'Sopen04g004830' => 'spe', 'Sopen05g033720' => 'spe', 'Sopen06g030740' => 'spe', 'Sopen10g013090' => 'spe', 'Sopen10g027630' => 'spe', 'Sopen10g027640' => 'spe', 'Sopen11g002820' => 'spe', 'Sopen11g027140' => 'spe', 'Sp1g09680' => 'spa', 'Sp2g03630' => 'spa', 'Sp4g10320' => 'spa', 'Sp6g33400' => 'spa', 'Sp7g13030' => 'spa', 'TAR365G0317' => 'tar', 'TAR376G0979' => 'tar', 'TAR623G1665' => 'tar', 'TAR633G2373' => 'tar', 'TAR636G1400' => 'tar', 'THA.LOC104800529' => 'tha', 'THA.LOC104808547' => 'tha', 'THA.LOC104809615' => 'tha', 'THA.LOC104815724' => 'tha', 'THA.LOC104818480' => 'tha', 'THA.LOC104819179' => 'tha', 'THA.LOC104822270' => 'tha', 'THA.LOC104826425' => 'tha', 'Thecc.02G089700' => 'tca', 'Thecc.04G232300' => 'tca', 'Thecc.09G283400' => 'tca', 'Thhalv10009020m.g' => 'esa', 'Thhalv10015506m.g' => 'esa', 'Thhalv10017364m.g' => 'esa', 'Thhalv10023742m.g' => 'esa', 'Thhalv10026483m.g' => 'esa', 'TPR.G17232' => 'tpr', 'TPR.G2133' => 'tpr', 'TPR.G2498' => 'tpr', 'TPR.G31942' => 'tpr', 'TPR.G37877' => 'tpr', 'TPR.G4571' => 'tpr', 'TWI14G1113' => 'twi', 'TWI15G0426' => 'twi', 'TWI31G1005' => 'twi', 'TWI38G0513' => 'twi', 'TWI38G1484' => 'twi', 'TWI73G1098' => 'twi', 'unitig_26.g10519' => 'ugi', 'unitig_736.g22395' => 'ugi', 'unitig_747.g21234' => 'ugi', 'unitig_747.g21942' => 'ugi', 'vmacro14351' => 'vma', 'VMungo0540G0082' => 'vmu', 'VMungo0540G0405' => 'vmu', 'VMungo0540G1486' => 'vmu', 'VMungo0540G1692' => 'vmu', 'VMungo0720G2473' => 'vmu', 'VMungo1127G1562' => 'vmu', 'VMungo1215G1918' => 'vmu', 'Zm00001eb052650' => 'zma', 'Zm00001eb063710' => 'zma', 'Zm00001eb083950' => 'zma', 'Zm00001eb174420' => 'zma', 'Zm00001eb260140' => 'zma', 'Zm00001eb260150' => 'zma', 'Zm00001eb260160' => 'zma', 'Zm00001eb348290' => 'zma', 'Zm00001eb366870' => 'zma', 'Zm00001eb421930' => 'zma' ), 'gf_id' => 'HOM05D001025', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001025' ), 'data_identifier' => 'HOM05D001025', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001025', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '592', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p22650' => 'bna', 'A01p29720' => 'bna', 'A03p26560' => 'bna', 'A03p68820' => 'bna', 'A04p20980' => 'bna', 'A06p07730' => 'bna', 'A07p18260' => 'bna', 'A08p33710' => 'bna', 'A09p16970' => 'bna', 'A10p27490' => 'bna', 'Aa31LG1G17300' => 'aar', 'Aa31LG1G3910' => 'aar', 'Aa31LG2G9630' => 'aar', 'Aa31LG5G8360' => 'aar', 'Aa31LG9G2410' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_228.4699' => 'aag', 'Actinidia23512' => 'ach', 'Actinidia37080' => 'ach', 'Ah.01g020380' => 'amhyb', 'Ah.08g215710' => 'amhyb', 'Ah.09g225110' => 'amhyb', 'Ah.10g036680' => 'amhyb', 'AL1G21940' => 'aly', 'AL2G15540' => 'aly', 'AL4G21520' => 'aly', 'AL7G40960' => 'aly', 'Aqoxy2G01191' => 'aox', 'Aqoxy2G03393' => 'aox', 'Aqoxy4G02775' => 'aox', 'Aqoxy6G00058' => 'aox', 'arahy.Tifrunner.gnm1.ann1.9X74H2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CW3FX9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.R485W7' => 'arhy', 'AT1G10960' => 'ath', 'AT1G60950' => 'ath', 'AT2G27510' => 'ath', 'AT4G14890' => 'ath', 'AT5G10000' => 'ath', 'ATR0665G624' => 'atr', 'ATR0697G138' => 'atr', 'ATR0776G046' => 'atr', 'ATR1134G135' => 'atr', 'Atru.chr12.1025' => 'acertr', 'Atru.chr3.3241' => 'acertr', 'Atru.chr4.2460' => 'acertr', 'AUR62007427' => 'cqu', 'AUR62010960' => 'cqu', 'AUR62012201' => 'cqu', 'AUR62021470' => 'cqu', 'AUR62022834' => 'cqu', 'AUR62033635' => 'cqu', 'AUR62036186' => 'cqu', 'BcaB01g03077' => 'bca', 'BcaB02g10093' => 'bca', 'BcaB04g20295' => 'bca', 'BcaB06g28147' => 'bca', 'BcaB07g31253' => 'bca', 'BcaC01g04946' => 'bca', 'BcaC02g10614' => 'bca', 'BcaC02g10885' => 'bca', 'BcaC04g19356' => 'bca', 'BcaC04g22297' => 'bca', 'BcaC05g24977' => 'bca', 'BcaC06g31823' => 'bca', 'BcaC07g38633' => 'bca', 'BcaC09g49353' => 'bca', 'BcaC09g50168' => 'bca', 'BcaNung00322' => 'bca', 'BcaNung04769' => 'bca', 'BolC1t02753H' => 'bol', 'BolC1t03721H' => 'bol', 'BolC3t15525H' => 'bol', 'BolC4t23903H' => 'bol', 'BolC4t24231H' => 'bol', 'BolC4t27209H' => 'bol', 'BolC5t29671H' => 'bol', 'BolC8t49044H' => 'bol', 'BolC9t54999H' => 'bol', 'BolC9t59517H' => 'bol', 'BraA01t02178Z' => 'bra', 'BraA01t03099Z' => 'bra', 'BraA03t11867Z' => 'bra', 'BraA04t17667Z' => 'bra', 'BraA07t29542Z' => 'bra', 'BraA08t35287Z' => 'bra', 'BraA09t37334Z' => 'bra', 'BraA10t44801Z' => 'bra', 'BraSC39t46181Z' => 'bra', 'C01p28240' => 'bna', 'C01p37530' => 'bna', 'C03p31820' => 'bna', 'C04p24080' => 'bna', 'C04p25790' => 'bna', 'C04p56770' => 'bna', 'C05p09310' => 'bna', 'C09p21010' => 'bna', 'C09p67560' => 'bna', 'CAN.G1324.7' => 'can', 'CAN.G1358.10' => 'can', 'CAN.G1550.2' => 'can', 'CAN.G186.56' => 'can', 'CAN.G1965.1' => 'can', 'CAN.G645.15' => 'can', 'CAN.G798.26' => 'can', 'CAN.G798.27' => 'can', 'CAN.G798.29' => 'can', 'CAN.G919.31' => 'can', 'CANSAT11G0133' => 'cansat', 'CANSAT11G1171' => 'cansat', 'CANSAT11G2056' => 'cansat', 'CANSAT56G1202' => 'cansat', 'CANSAT56G1514' => 'cansat', 'CANSAT78G0455' => 'cansat', 'CARHR011190' => 'chi', 'CARHR051980' => 'chi', 'CARHR120170' => 'chi', 'CARHR203310' => 'chi', 'CARHR221490' => 'chi', 'Carub.0001s1054' => 'cru', 'Carub.0002s0431' => 'cru', 'Carub.0004s0818' => 'cru', 'Carub.0006s0846' => 'cru', 'Carub.0007s2722' => 'cru', 'Ca_00058_v3' => 'car', 'Ca_17831_v3' => 'car', 'Ca_19408_v3' => 'car', 'Ca_24397_v3' => 'car', 'Ca_25664_v3' => 'car', 'CBR_g21818' => 'cbr', 'CBR_g31195' => 'cbr', 'CBR_g32282' => 'cbr', 'CBR_g39599' => 'cbr', 'CBR_g49410' => 'cbr', 'Cc01_g09120' => 'ccan', 'Cc01_g09130' => 'ccan', 'Cc02_g09630' => 'ccan', 'Cc02_g22810' => 'ccan', 'Cc03_g03810' => 'ccan', 'CDE02G3718' => 'cde', 'CDE04G3183' => 'cde', 'CDE07G1046' => 'cde', 'CDE08G0480' => 'cde', 'Cfa005493' => 'cfa', 'Cfa010312' => 'cfa', 'Cfa015648' => 'cfa', 'Ciclev10002793m.g' => 'ccl', 'Ciclev10003356m.g' => 'ccl', 'Ciclev10006141m.g' => 'ccl', 'Ciclev10016676m.g' => 'ccl', 'Ciclev10017081m.g' => 'ccl', 'Ciclev10029499m.g' => 'ccl', 'CiPaw.01G166300' => 'cil', 'CiPaw.06G145600' => 'cil', 'CiPaw.13G040100' => 'cil', 'CiPaw.13G135800' => 'cil', 'ClCG01G012230' => 'cla', 'ClCG05G009510' => 'cla', 'ClCG08G008270' => 'cla', 'COL.COLO4_11763' => 'col', 'COL.COLO4_19876' => 'col', 'COL.COLO4_21481' => 'col', 'Cpa.g.sc118.34' => 'cpa', 'Cpa.g.sc32.13' => 'cpa', 'Cpa.g.sc58.103' => 'cpa', 'Cre03.g183850' => 'cre', 'Cre06.g306350' => 'cre', 'Cre07.g334800' => 'cre', 'Cre12.g487900' => 'cre', 'Cre14.g626700' => 'cre', 'Cre16.g658400' => 'cre', 'Cre17.g700950' => 'cre', 'CsaV3_1G014830' => 'csa', 'CsaV3_3G013320' => 'csa', 'CsaV3_3G019210' => 'csa', 'CsaV3_3G019220' => 'csa', 'CsaV3_6G004230' => 'csa', 'CSS0003773' => 'camsi', 'CSS0004563' => 'camsi', 'CSS0013949' => 'camsi', 'CSS0025971' => 'camsi', 'CSS0028570' => 'camsi', 'CSS0033127' => 'camsi', 'CSS0036051' => 'camsi', 'CSS0040087' => 'camsi', 'CSS0043179' => 'camsi', 'DCAR_006161' => 'dca', 'DCAR_010351' => 'dca', 'DCAR_012197' => 'dca', 'DCAR_024162' => 'dca', 'Dinv01030' => 'din', 'Dinv10924' => 'din', 'Dinv11835' => 'din', 'Dinv22841' => 'din', 'Dinv42553' => 'din', 'Duzib052G0560' => 'dzi', 'Duzib132G0389' => 'dzi', 'Duzib150G1181' => 'dzi', 'Duzib168G0623' => 'dzi', 'Duzib170G1036' => 'dzi', 'Duzib212G0200' => 'dzi', 'Duzib248G0194' => 'dzi', 'ECA232G2193' => 'eca', 'ECA233G0302' => 'eca', 'ECA234G2813' => 'eca', 'ECA234G4866' => 'eca', 'ECA240G3932' => 'eca', 'ECA248G0385' => 'eca', 'EL10Ac2g04781' => 'bvu', 'EL10Ac3g06445' => 'bvu', 'EL10Ac7g15825' => 'bvu', 'EL10Ac8g18550' => 'bvu', 'Eucgr.B03849' => 'egr', 'Eucgr.I02744' => 'egr', 'Eucgr.J00264' => 'egr', 'Eucgr.J00493' => 'egr', 'FAN04G2181' => 'fan', 'FAN07G2666' => 'fan', 'FAN11G0024' => 'fan', 'FAN12G1105' => 'fan', 'FAN13G0302' => 'fan', 'FAN15G2781' => 'fan', 'FAN16G1274' => 'fan', 'FAN17G2988' => 'fan', 'FAN18G2621' => 'fan', 'FAN21G0013' => 'fan', 'FAN22G1211' => 'fan', 'FAN25G3626' => 'fan', 'FvH4_2g09491' => 'fve', 'FvH4_3g24910' => 'fve', 'FvH4_4g15630' => 'fve', 'FvH4_5g28820' => 'fve', 'Glyma.01G238000' => 'gma', 'Glyma.05G168400' => 'gma', 'Glyma.08G126800' => 'gma', 'Glyma.08G188500' => 'gma', 'Glyma.10G278900' => 'gma', 'Glyma.11G005700' => 'gma', 'Glyma.11G183300' => 'gma', 'Glyma.12G089200' => 'gma', 'Glyma.12G169400' => 'gma', 'Glyma.12G169500' => 'gma', 'Glyma.12G169600' => 'gma', 'Glyma.20G110800' => 'gma', 'Gohir.A03G192900' => 'ghi', 'Gohir.A03G193000' => 'ghi', 'Gohir.A05G080700' => 'ghi', 'Gohir.A09G216000' => 'ghi', 'Gohir.A12G027700' => 'ghi', 'Gohir.A13G036200' => 'ghi', 'Gohir.A13G222600' => 'ghi', 'Gohir.D02G213900' => 'ghi', 'Gohir.D02G214000' => 'ghi', 'Gohir.D05G083700' => 'ghi', 'Gohir.D05G083800' => 'ghi', 'Gohir.D05G083850' => 'ghi', 'Gohir.D08G015400' => 'ghi', 'Gohir.D09G218400' => 'ghi', 'Gohir.D12G027100' => 'ghi', 'Gohir.D13G034500' => 'ghi', 'Gohir.D13G227400' => 'ghi', 'Gorai.005G241800' => 'gra', 'Gorai.005G241900' => 'gra', 'Gorai.006G239400' => 'gra', 'Gorai.008G027600' => 'gra', 'Gorai.009G085400' => 'gra', 'Gorai.009G085500' => 'gra', 'Gorai.013G039000' => 'gra', 'Gorai.013G194800' => 'gra', 'Gorai.013G257900' => 'gra', 'GSVIVG01000982001' => 'vvi', 'GSVIVG01017981001' => 'vvi', 'HanXRQChr01g0024061' => 'han', 'HanXRQChr09g0247831' => 'han', 'HanXRQChr10g0294611' => 'han', 'HanXRQChr10g0294621' => 'han', 'HanXRQChr11g0346821' => 'han', 'HanXRQChr13g0397461' => 'han', 'HanXRQChr16g0513651' => 'han', 'HanXRQChr16g0513701' => 'han', 'Haze_00897' => 'cav', 'Haze_01745' => 'cav', 'Haze_02486' => 'cav', 'Haze_02487' => 'cav', 'Haze_23374' => 'cav', 'Hma1.2p1_0578F.1_g182520' => 'hma', 'Hma1.2p1_0602F.1_g187350' => 'hma', 'Hma1.2p1_0602F.1_g187360' => 'hma', 'Hma1.2p1_0874F.1_g231320' => 'hma', 'Hma1.2p1_1197F.1_g266210' => 'hma', 'Hma1.2p1_1197F.1_g266220' => 'hma', 'Hma1.2p1_2167F.1_g315895' => 'hma', 'Hma1.2p1_2190F.1_g316640' => 'hma', 'Hma1.2p1_3645F.1_g337153' => 'hma', 'HPP92_004907' => 'vpl', 'HPP92_012134' => 'vpl', 'HPP92_025136' => 'vpl', 'HPP92_026087' => 'vpl', 'Hund06782' => 'sun', 'Hund06784' => 'sun', 'Lalb_Chr01g0004861' => 'lal', 'Lalb_Chr02g0140591' => 'lal', 'Lalb_Chr02g0140611' => 'lal', 'Lalb_Chr03g0028101' => 'lal', 'Lalb_Chr07g0185791' => 'lal', 'Lalb_Chr12g0204491' => 'lal', 'Lalb_Chr13g0295671' => 'lal', 'Lalb_Chr19g0136461' => 'lal', 'Lalb_Chr21g0309191' => 'lal', 'Lj1g0028158' => 'lja', 'Lj1P236T38' => 'lonja', 'Lj2C32G2' => 'lonja', 'Lj2P944T8' => 'lonja', 'Lj2P963T15' => 'lonja', 'Lj3g0011788' => 'lja', 'Lj4g0025027' => 'lja', 'Lj5P255T36' => 'lonja', 'Lj6g0018866' => 'lja', 'Lj6P608T31' => 'lonja', 'LjContig00408g0008879' => 'lja', 'Lsat_1_v5_gn_5_105820' => 'lsa', 'Lsat_1_v5_gn_6_38800' => 'lsa', 'Lsat_1_v5_gn_7_67141' => 'lsa', 'Manes.04G003400' => 'mes', 'Manes.07G020000' => 'mes', 'Manes.07G020100' => 'mes', 'Manes.07G020150' => 'mes', 'Manes.10G061500' => 'mes', 'Manes.10G123200' => 'mes', 'Manes.11G161900' => 'mes', 'Manes.15G029300' => 'mes', 'Mapoly0071s0018' => 'mpo', 'Mapoly0082s0023' => 'mpo', 'Mapoly3477s0001' => 'mpo', 'MBI05_g31233_MAGBIO' => 'mbi', 'MBI09_g05946_MAGBIO' => 'mbi', 'MBI09_g05947_MAGBIO' => 'mbi', 'MBI17_g08346_MAGBIO' => 'mbi', 'MCO04G038' => 'mco', 'MCO09G370' => 'mco', 'MCO13G605' => 'mco', 'MD00G1075500' => 'mdo', 'MD03G1144300' => 'mdo', 'MD08G1236800' => 'mdo', 'MD13G1193300' => 'mdo', 'MD15G1428700' => 'mdo', 'Medtr1g112030' => 'mtr', 'Medtr1g112050' => 'mtr', 'Medtr2g006290' => 'mtr', 'Medtr2g086510' => 'mtr', 'Medtr4g053120' => 'mtr', 'Medtr5g006320' => 'mtr', 'Medtr8g088720' => 'mtr', 'MELO3C004712.2' => 'cme', 'MELO3C006533.2' => 'cme', 'MELO3C019438.2' => 'cme', 'MELO3C019440.2' => 'cme', 'MELO3C019441.2' => 'cme', 'MELO3C019895.2' => 'cme', 'Migut.B00811' => 'egut', 'Migut.D02447' => 'egut', 'Migut.F00875' => 'egut', 'Migut.N00186' => 'egut', 'Migut.N01051' => 'egut', 'Migut.N02491' => 'egut', 'Migut.O00784' => 'egut', 'MSTRG.12367' => 'ama', 'MSTRG.18756' => 'ama', 'MSTRG.21042' => 'ama', 'Nitab4.5_0000559g0040' => 'nta', 'Nitab4.5_0000667g0190' => 'nta', 'Nitab4.5_0000755g0160' => 'nta', 'Nitab4.5_0001216g0080' => 'nta', 'Nitab4.5_0004069g0040' => 'nta', 'Nitab4.5_0004129g0010' => 'nta', 'Nitab4.5_0005744g0030' => 'nta', 'Nitab4.5_0006996g0030' => 'nta', 'Nitab4.5_0008971g0040' => 'nta', 'Nitab4.5_0009769g0020' => 'nta', 'Nitab4.5_0009833g0010' => 'nta', 'Nitab4.5_0013140g0020' => 'nta', 'Nn003s41376' => 'nnu', 'Nn1g01857' => 'nnu', 'Nn1g03611' => 'nnu', 'Nn1g06853' => 'nnu', 'Nn3g18360' => 'nnu', 'Nn4g26328' => 'nnu', 'Nn5g27531' => 'nnu', 'Nn6g34899' => 'nnu', 'Nn7g36299' => 'nnu', 'Oeu021485.1' => 'oeu', 'Oeu022433.1' => 'oeu', 'Oeu032111.1' => 'oeu', 'Oeu051608.1' => 'oeu', 'Os01g0860601' => 'osa', 'Os03g0659200' => 'osa', 'Os03g0835900' => 'osa', 'Os04g0412200' => 'osa', 'Os05g0443500' => 'osa', 'Os07g0251500' => 'osa', 'Os08g0104600' => 'osa', 'Peaxi162Scf00003g00047' => 'pax', 'Peaxi162Scf00003g00052' => 'pax', 'Peaxi162Scf00003g00394' => 'pax', 'Peaxi162Scf00091g00621' => 'pax', 'Peaxi162Scf00152g00146' => 'pax', 'Peaxi162Scf00173g00025' => 'pax', 'Peaxi162Scf00195g00102' => 'pax', 'Peaxi162Scf00402g00013' => 'pax', 'Peaxi162Scf00519g00618' => 'pax', 'PGR004G2838' => 'pgr', 'PGR044G2275' => 'pgr', 'PGR102G1377' => 'pgr', 'PGR119G1245' => 'pgr', 'PGR142G4449' => 'pgr', 'PGSC0003DMG400004532' => 'stu', 'PGSC0003DMG400011950' => 'stu', 'PGSC0003DMG400023391' => 'stu', 'PGSC0003DMG400023985' => 'stu', 'PGSC0003DMG400026360' => 'stu', 'PGSC0003DMG400035711' => 'stu', 'PGSC0003DMG400037286' => 'stu', 'PGSC0003DMG402005881' => 'stu', 'Phvul.002G045400' => 'pvu', 'Phvul.006G216600' => 'pvu', 'Phvul.006G216700' => 'pvu', 'Phvul.006G216800' => 'pvu', 'Phvul.007G022500' => 'pvu', 'Phvul.011G094400' => 'pvu', 'Potri.001G470700' => 'ptr', 'Potri.003G015200' => 'ptr', 'Potri.004G202500' => 'ptr', 'Potri.004G218400' => 'ptr', 'Potri.008G020100' => 'ptr', 'Potri.008G153200' => 'ptr', 'Potri.009G163800' => 'ptr', 'Potri.010G087300' => 'ptr', 'Potri.010G239100' => 'ptr', 'Pp3c10_16100' => 'ppa', 'Pp3c10_16880' => 'ppa', 'Pp3c16_6230' => 'ppa', 'Pp3c17_18910' => 'ppa', 'Pp3c3_22119' => 'ppa', 'Pp3c3_22140' => 'ppa', 'Pp3c4_8159' => 'ppa', 'Pp3c4_8171' => 'ppa', 'Pp3c4_8330' => 'ppa', 'PRCOL_00004098' => 'pco', 'Prupe.1G013900' => 'ppe', 'Prupe.1G226300' => 'ppe', 'Prupe.1G573600' => 'ppe', 'Prupe.6G130100' => 'ppe', 'Psat3g090040' => 'psa', 'Psat4g210440' => 'psa', 'Psat6g231040' => 'psa', 'Psat6g231080' => 'psa', 'Psat7g063000' => 'psa', 'Psat7g188000' => 'psa', 'Psat7g188040' => 'psa', 'PSO017G0206' => 'pso', 'PSO170G0501' => 'pso', 'PSO170G6422' => 'pso', 'PSO210G7739' => 'pso', 'PSO339G1808' => 'pso', 'PSO339G6135' => 'pso', 'PSO384G0010' => 'pso', 'PSO384G0964' => 'pso', 'PSO761G0050' => 'pso', 'PSO782G4085' => 'pso', 'QL01p012264' => 'qlo', 'QL02p099491' => 'qlo', 'QL03p033868' => 'qlo', 'QL04p046678' => 'qlo', 'QL06p002448' => 'qlo', 'RcHm_v2.0_Chr4g0416181' => 'rch', 'RcHm_v2.0_Chr5g0044701' => 'rch', 'RcHm_v2.0_Chr6g0265781' => 'rch', 'RcHm_v2.0_Chr7g0221031' => 'rch', 'Rhsim04G0202000' => 'rsi', 'Rhsim11G0127300' => 'rsi', 'Rhsim13G0111800' => 'rsi', 'Sabra01G0165600' => 'sbr', 'Sabra03G0008300' => 'sbr', 'Sabra04G0136900' => 'sbr', 'Sabra08G0013400' => 'sbr', 'Sabra08G0116800' => 'sbr', 'Sabra09G0128000' => 'sbr', 'Sabra10G0055500' => 'sbr', 'Sabra10G0073300' => 'sbr', 'SalBow3G0385' => 'sbo', 'SalBow3G1119' => 'sbo', 'SalBow3G2005' => 'sbo', 'SalBow6G2563' => 'sbo', 'SalBow6G6386' => 'sbo', 'Sc06g0008800' => 'sci', 'Sc07g0004950' => 'sci', 'Sc09g0005340' => 'sci', 'Sc13g0004410' => 'sci', 'Sc21g0007090' => 'sci', 'Sed0009285' => 'sed', 'Sed0017583' => 'sed', 'Sed0019699' => 'sed', 'Sed0023107' => 'sed', 'SEGI_10916' => 'sgi', 'SEGI_16217' => 'sgi', 'SEGI_19466' => 'sgi', 'SEGI_41115' => 'sgi', 'SGA_v2.0_scaffold111G31534' => 'sas', 'SGA_v2.0_scaffold22G09864' => 'sas', 'SGA_v2.0_scaffold338G49219' => 'sas', 'SGA_v2.0_scaffold92G28298' => 'sas', 'SMO119G0064' => 'smo', 'SMO223G0038' => 'smo', 'SMO347G0584' => 'smo', 'SMO351G0010' => 'smo', 'SMO356G0404' => 'smo', 'Solyc01g103920.3' => 'sly', 'Solyc04g009710.2' => 'sly', 'Solyc05g055280.2' => 'sly', 'Solyc10g044520.3' => 'sly', 'Solyc10g075160.1' => 'sly', 'Solyc11g006910.3' => 'sly', 'Solyc11g068430.3' => 'sly', 'Sopen01g046310' => 'spe', 'Sopen03g001200' => 'spe', 'Sopen04g004830' => 'spe', 'Sopen05g033720' => 'spe', 'Sopen06g030740' => 'spe', 'Sopen10g013090' => 'spe', 'Sopen10g027630' => 'spe', 'Sopen10g027640' => 'spe', 'Sopen11g002820' => 'spe', 'Sopen11g027140' => 'spe', 'Sp1g09680' => 'spa', 'Sp2g03630' => 'spa', 'Sp4g10320' => 'spa', 'Sp6g33400' => 'spa', 'Sp7g13030' => 'spa', 'TAR365G0317' => 'tar', 'TAR376G0979' => 'tar', 'TAR623G1665' => 'tar', 'TAR633G2373' => 'tar', 'TAR636G1400' => 'tar', 'THA.LOC104800529' => 'tha', 'THA.LOC104808547' => 'tha', 'THA.LOC104809615' => 'tha', 'THA.LOC104815724' => 'tha', 'THA.LOC104818480' => 'tha', 'THA.LOC104819179' => 'tha', 'THA.LOC104822270' => 'tha', 'THA.LOC104826425' => 'tha', 'Thecc.02G089700' => 'tca', 'Thecc.04G232300' => 'tca', 'Thecc.09G283400' => 'tca', 'Thhalv10009020m.g' => 'esa', 'Thhalv10015506m.g' => 'esa', 'Thhalv10017364m.g' => 'esa', 'Thhalv10023742m.g' => 'esa', 'Thhalv10026483m.g' => 'esa', 'TPR.G17232' => 'tpr', 'TPR.G2133' => 'tpr', 'TPR.G2498' => 'tpr', 'TPR.G31942' => 'tpr', 'TPR.G37877' => 'tpr', 'TPR.G4571' => 'tpr', 'TWI14G1113' => 'twi', 'TWI15G0426' => 'twi', 'TWI31G1005' => 'twi', 'TWI38G0513' => 'twi', 'TWI38G1484' => 'twi', 'TWI73G1098' => 'twi', 'unitig_26.g10519' => 'ugi', 'unitig_736.g22395' => 'ugi', 'unitig_747.g21234' => 'ugi', 'unitig_747.g21942' => 'ugi', 'vmacro14351' => 'vma', 'VMungo0540G0082' => 'vmu', 'VMungo0540G0405' => 'vmu', 'VMungo0540G1486' => 'vmu', 'VMungo0540G1692' => 'vmu', 'VMungo0720G2473' => 'vmu', 'VMungo1127G1562' => 'vmu', 'VMungo1215G1918' => 'vmu', 'Zm00001eb052650' => 'zma', 'Zm00001eb063710' => 'zma', 'Zm00001eb083950' => 'zma', 'Zm00001eb174420' => 'zma', 'Zm00001eb260140' => 'zma', 'Zm00001eb260150' => 'zma', 'Zm00001eb260160' => 'zma', 'Zm00001eb348290' => 'zma', 'Zm00001eb366870' => 'zma', 'Zm00001eb421930' => 'zma' ) $gf_id = 'HOM05D001025' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001025' ) $data_identifier = 'HOM05D001025' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 19, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 2, 'amhyb' => (int) 4, 'aly' => (int) 4, 'aox' => (int) 4, 'arhy' => (int) 3, 'ath' => (int) 5, 'atr' => (int) 4, 'acertr' => (int) 3, 'cqu' => (int) 7, 'bca' => (int) 17, 'bol' => (int) 10, 'bra' => (int) 9, 'can' => (int) 10, 'cansat' => (int) 6, 'chi' => (int) 5, 'cru' => (int) 5, 'car' => (int) 5, 'cbr' => (int) 5, 'ccan' => (int) 5, 'cde' => (int) 4, 'cfa' => (int) 3, 'ccl' => (int) 6, 'cil' => (int) 4, 'cla' => (int) 3, 'col' => (int) 3, 'cpa' => (int) 3, 'cre' => (int) 7, 'csa' => (int) 5, 'camsi' => (int) 9, 'dca' => (int) 4, 'din' => (int) 5, 'dzi' => (int) 7, 'eca' => (int) 6, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 12, 'fve' => (int) 4, 'gma' => (int) 12, 'ghi' => (int) 17, 'gra' => (int) 9, 'vvi' => (int) 2, 'han' => (int) 8, 'cav' => (int) 5, 'hma' => (int) 9, 'vpl' => (int) 4, 'sun' => (int) 2, 'lal' => (int) 9, 'lja' => (int) 5, 'lonja' => (int) 6, 'lsa' => (int) 3, 'mes' => (int) 8, 'mpo' => (int) 3, 'mbi' => (int) 4, 'mco' => (int) 3, 'mdo' => (int) 5, 'mtr' => (int) 7, 'cme' => (int) 6, 'egut' => (int) 7, 'ama' => (int) 3, 'nta' => (int) 12, 'nnu' => (int) 9, 'oeu' => (int) 4, 'osa' => (int) 7, 'pax' => (int) 9, 'pgr' => (int) 5, 'stu' => (int) 8, 'pvu' => (int) 6, 'ptr' => (int) 9, 'ppa' => (int) 9, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 7, 'pso' => (int) 10, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 3, 'sbr' => (int) 8, 'sbo' => (int) 5, 'sci' => (int) 5, 'sed' => (int) 4, 'sgi' => (int) 4, 'sas' => (int) 4, 'smo' => (int) 5, 'sly' => (int) 7, 'spe' => (int) 10, 'spa' => (int) 5, 'tar' => (int) 5, 'tha' => (int) 8, 'tca' => (int) 3, 'esa' => (int) 5, 'tpr' => (int) 6, 'twi' => (int) 6, 'ugi' => (int) 4, 'vma' => (int) 1, 'vmu' => (int) 7, 'zma' => (int) 10 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb421930' $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